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I-TASSER results for job id S777392

(Click on S777392_results.tar.bz2 to download the tarball file including all modeling results listed on this page. Click on Annotation of I-TASSER Output to read the instructions for how to interpret the results on this page. Model results are kept on the server for 60 days, there is no way to retrieve the modeling data older than 2 months)

Submitted Sequence in FASTA format

>protein
MQGSYGYDGAASRDPKPRLRWTPDLHQRFVDAVTKLGGPDRATPKSVLRLMGMKDLTLYQ
LKSHLQKYRLGIQGKKSTGLEPASGGVLRSQGFGSTTAHPPPGVPDQGKNTREIALSDAL
RYQIQVQRKLQEQTEVQKKLQMRIEAQGKYLKTILEKAQTNISFHTNASNGIESTRSQLM
DFNLDGFMNNATQVCKEHREQLVKAMSDENDKDSLGLQLYHLGSQEAKEVKCTPKTEDSL
LLDLNIKGGYDLSSRGMQACELELKINQQIV

Predicted Secondary Structure

Sequence	20 40 60 80 100 120 140 160 180 200 220 240 260 \| \| \| \| \| \| \| \| \| \| \| \| \| MQGSYGYDGAASRDPKPRLRWTPDLHQRFVDAVTKLGGPDRATPKSVLRLMGMKDLTLYQLKSHLQKYRLGIQGKKSTGLEPASGGVLRSQGFGSTTAHPPPGVPDQGKNTREIALSDALRYQIQVQRKLQEQTEVQKKLQMRIEAQGKYLKTILEKAQTNISFHTNASNGIESTRSQLMDFNLDGFMNNATQVCKEHREQLVKAMSDENDKDSLGLQLYHLGSQEAKEVKCTPKTEDSLLLDLNIKGGYDLSSRGMQACELELKINQQIV
Prediction	CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCSSSCCCCCCCCCHHHCCCCCCCCCCCCCCCCC
Conf.Score	9888888888767898877789999999999999968754320428998618987669999886888875303554343455553045541578876676543333466552100242035300133325789998887657477478999999999876304566788776666222013354445676343100034333346676665566555445542344442158888753012202356774133301210014412135469
	H:Helix; S:Strand; C:Coil

Predicted Solvent Accessibility

Sequence	20 40 60 80 100 120 140 160 180 200 220 240 260 \| \| \| \| \| \| \| \| \| \| \| \| \| MQGSYGYDGAASRDPKPRLRWTPDLHQRFVDAVTKLGGPDRATPKSVLRLMGMKDLTLYQLKSHLQKYRLGIQGKKSTGLEPASGGVLRSQGFGSTTAHPPPGVPDQGKNTREIALSDALRYQIQVQRKLQEQTEVQKKLQMRIEAQGKYLKTILEKAQTNISFHTNASNGIESTRSQLMDFNLDGFMNNATQVCKEHREQLVKAMSDENDKDSLGLQLYHLGSQEAKEVKCTPKTEDSLLLDLNIKGGYDLSSRGMQACELELKINQQIV
Prediction	7615436566544543312301640041004002303345342232014106174023410331023122323346444444444434434434434344343334434443323234334242433431333232344033426432410330043036324543533452633444037131733354344335644444354145343663442434434464465352466333112020334332211222241141324035325
	Values range from 0 (buried residue) to 9 (highly exposed residue)

Predicted normalized B-factor

(B-factor is a value to indicate the extent of the inherent thermal mobility of residues/atoms in proteins. In I-TASSER, this value is deduced from threading template proteins from the PDB in combination with the sequence profiles derived from sequence databases. The reported B-factor profile in the figure below corresponds to the normalized B-factor of the target protein, defined by B=(B'-u)/s, where B' is the raw B-factor value, u and s are respectively the mean and standard deviation of the raw B-factors along the sequence. Click here to read more about predicted normalized B-factor)

Top 10 threading templates used by I-TASSER

(I-TASSER modeling starts from the structure templates identified by LOMETS from the PDB library. LOMETS is a meta-server threading approach containing multiple threading programs, where each threading program can generate tens of thousands of template alignments. I-TASSER only uses the templates of the highest significance in the threading alignments, the significance of which are measured by the Z-score, i.e. the difference between the raw and average scores in the unit of standard deviation. The templates in this section are the 10 best templates selected from the LOMETS threading programs. Usually, one template of the highest Z-score is selected from each threading program, where the threading programs are sorted by the average performance in the large-scale benchmark test experiments.)

Rank

PDB
Hit

Iden1

Iden2

Cov

Norm.
Z-score

Download
Align.

                  20                  40                  60                  80                 100                 120                 140                 160                 180                 200                 220                 240                 260
                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |           

Sec.Str
Seq

CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCSSSCCCCCCCCCHHHCCCCCCCCCCCCCCCCC
MQGSYGYDGAASRDPKPRLRWTPDLHQRFVDAVTKLGGPDRATPKSVLRLMGMKDLTLYQLKSHLQKYRLGIQGKKSTGLEPASGGVLRSQGFGSTTAHPPPGVPDQGKNTREIALSDALRYQIQVQRKLQEQTEVQKKLQMRIEAQGKYLKTILEKAQTNISFHTNASNGIESTRSQLMDFNLDGFMNNATQVCKEHREQLVKAMSDENDKDSLGLQLYHLGSQEAKEVKCTPKTEDSLLLDLNIKGGYDLSSRGMQACELELKINQQIV

7d3yA

0.48

0.21

0.38

1.80

Download

-----------------RMRWTPELHERFVDAVNLLGGSEKATPKGVLKLMKADNLTIYHVKSHLQKYRTARYRPELSEGNFDL--------------------------------TEALRLQLELQKRLHEQLEIQRSLQLRILEHHHHHH-----------------------------------------------------------------------------------------------------------------------

8q85F

0.07

0.20

0.85

1.02

Download

-------------------------------NIQSDKLTSSIKSRKLEAEGIFKSLLDTLRQYDSSIQNLTRSRSQLGHNVNDSSLKINISENLLDRDFHEGISYEQLFPKGSGINESIKKSILKLNDEIQERIKTIEKDNITLEKDIKNLKHDINEKTQINEKLELELSEANSKFELSKQENERLLVAQRIEIEKMEKKINDSNLLMKTKISDAEELVTSTELKLEELKVDLNRKRYKLHQQVIHVIDITSKFKINIQSS----------

7e40

0.51

0.21

0.39

6.85

Download

-----------------RMRWTPELHERFVDAMNLLGGSEKATPKGVMKLMKADNLTIYHVKSHMQKYRTARYRP-----------------------------------GGNFDLTEALRMQLELQKRLHEQLEIQRSLQLRIEEQGKCLQMMLEQQ-----------------------------------------------------------------------------------------------------------------

7ogtB

0.08

0.21

1.00

1.43

Download

YNNTVYSSEQYIQELDKREDMIDQVSKKLSSIEASLKIKNATDLQQAKLRESEISQKLTNVNVKIKDVQQQIESNEEQRNLDSATLKEIKSIIEQRKQKLSKILPRYQELTKEEAMYKLQLASLQQSELSKEEKERLESLTKEISAAHNKLNITSDALEGITTTIDSLNAELESKLIPQENDLESKMSEVGDAFIFGLQDELKELQLEKESVEKQHENAVLELGTVQREIESLIAEETNNKKLLEKA-NNQQRLLLKKLDNFQKSVEKTMI

7e40

0.51

0.21

0.39

3.68

Download

-----------------RMRWTPELHERFVDAMNLLGGSEKATPKGVMKLMKADNLTIYHVKSHMQKYRTARYRP-----------------------------------GGNFDLTEALRMQLELQKRLHEQLEIQRSLQLRIEEQGKCLQMMLEQQ-----------------------------------------------------------------------------------------------------------------

6uxvF

0.10

0.16

0.81

1.43

Download

-----------------DENWSKEDLQKLLKGIQEFG----ADWYKVAKNVG--NKSPEQCILRFLQLPIEDKHLPFSKSENPVLSTIAFLVGLVNPKTVQSMTQRA------IQSAESIKSQKEEISDQKPIEHIKEGSEIAISSLGYRSHIFATNEERQMNFLTNELIRLQMEKLDAKLNHLKKLEKFMELERKTLERQQENLLIQRLNFNQNSSKIVNVLSKCLNLISDS-------------SQIDHFKSMLSKPETL---------

7e40A

0.51

0.21

0.39

1.68

Download

-----------------RMRWTPELHERFVDAMNLLGGSEKATPKGVMKLMKADNLTIYHVKSHMQKYRTARYRPGG-----------------------------------NFDLTEALRMQLELQKRLHEQLEIQRSLQLRIEEQGKCLQMMLEQQ-----------------------------------------------------------------------------------------------------------------

7e40

0.51

0.21

0.39

7.67

Download

-----------------RMRWTPELHERFVDAMNLLGGSEKATPKGVMKLMKADNLTIYHVKSHMQKYRTARYRP-----------------------------------GGNFDLTEALRMQLELQKRLHEQLEIQRSLQLRIEEQGKCLQMMLEQQ-----------------------------------------------------------------------------------------------------------------

6j4kA

0.57

0.13

0.22

1.54

Download

--------------GKARMRWTPELHEAFVEAVNSLGGSERATPKGVLKIMKVEGLTIYHVKSHLQKYRTARYR-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

6j4kA

0.57

0.13

0.22

0.88

Download

--------------GKARMRWTPELHEAFVEAVNSLGGSERATPKGVLKIMKVEGLTIYHVKSHLQKYRTARYR-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------

(a)	All the residues are colored in black; however, those residues in template which are identical to the residue in the query sequence are highlighted in color. Coloring scheme is based on the property of amino acids, where polar are brightly coloured while non-polar residues are colored in dark shade. (more about the colors used)
(b)	Rank of templates represents the top ten threading templates used by I-TASSER.
(c)	Ident1 is the percentage sequence identity of the templates in the threading aligned region with the query sequence.
(d)	Ident2 is the percentage sequence identity of the whole template chains with query sequence.
(e)	Cov represents the coverage of the threading alignment and is equal to the number of aligned residues divided by the length of query protein.
(f)	Norm. Z-score is the normalized Z-score of the threading alignments. Alignment with a Normalized Z-score >1 mean a good alignment and vice versa.
(g)	Download Align. provides the 3D structure of the aligned regions of the threading templates.
(h)	The top 10 alignments reported above (in order of their ranking) are from the following threading programs:
	1: FFAS-3D 2: SPARKS-X 3: HHSEARCH2 4: Neff-PPAS 5: HHSEARCH I 6: Neff-PPAS 7: Neff-PPAS 8: HHSEARCH 9: pGenTHREADER 10: wdPPAS

Top 5 final models predicted by I-TASSER

(For each target, I-TASSER simulations generate a large ensemble of structural conformations, called decoys. To select the final models, I-TASSER uses the SPICKER program to cluster all the decoys based on the pair-wise structure similarity, and reports up to five models which corresponds to the five largest structure clusters. The confidence of each model is quantitatively measured by C-score that is calculated based on the significance of threading template alignments and the convergence parameters of the structure assembly simulations. C-score is typically in the range of [-5, 2], where a C-score of a higher value signifies a model with a higher confidence and vice-versa. TM-score and RMSD are estimated based on C-score and protein length following the correlation observed between these qualities. Since the top 5 models are ranked by the cluster size, it is possible that the lower-rank models have a higher C-score in rare cases. Although the first model has a better quality in most cases, it is also possible that the lower-rank models have a better quality than the higher-rank models as seen in our benchmark tests. If the I-TASSER simulations converge, it is possible to have less than 5 clusters generated; this is usually an indication that the models have a good quality because of the converged simulations.)

(By right-click on the images, you can export image file or change the configurations, e.g. modifying the background color or stopping the spin of your models)

Download Model 1 C-score=-1.53 (Read more about C-score) Estimated TM-score = 0.53±0.15 Estimated RMSD = 9.4±4.6Å	Download Model 2 C-score = -3.51	Download Model 3 C-score = -4.08	Download Model 4 C-score = -4.62	Download Model 5 C-score = -3.38

Proteins structurally close to the target in the PDB (as identified by TM-align)

(After the structure assembly simulation, I-TASSER uses the TM-align structural alignment program to match the first I-TASSER model to all structures in the PDB library. This section reports the top 10 proteins from the PDB that have the closest structural similarity, i.e. the highest TM-score, to the predicted I-TASSER model. Due to the structural similarity, these proteins often have similar function to the target. However, users are encouraged to use the data in the next section 'Predicted function using COACH' to infer the function of the target protein, since COACH has been extensively trained to derive biological functions from multi-source of sequence and structure features which has on average a higher accuracy than the function annotations derived only from the global structure comparison.)

Top 10 Identified stuctural analogs in PDB

Rank	PDB Hit	TM-score	RMSD^a	IDEN^a	Cov	Alignment
1	7ogtB1	0.616	4.97	0.067	0.856	Download
2	7zr1C	0.547	4.83	0.050	0.782	Download
3	6yvuA	0.543	5.65	0.053	0.838	Download
4	4ke2A	0.533	4.16	0.041	0.720	Download
5	7nyxA	0.518	4.53	0.023	0.720	Download
6	8dk2C	0.516	5.68	0.046	0.816	Download
7	7qcdA	0.513	6.09	0.057	0.867	Download
8	6xj1A	0.509	4.54	0.040	0.705	Download
9	5xg2A	0.507	5.46	0.039	0.767	Download

(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 function using COFACTOR and COACH

(This section reports biological annotations of the target protein by COFACTOR and COACH based on the I-TASSER structure prediction. While COFACTOR deduces protein functions (ligand-binding sites, EC and GO) using structure comparison and protein-protein networks, COACH is a meta-server approach that combines multiple function annotation results (on ligand-binding sites) from the COFACTOR, TM-SITE and S-SITE programs.)

Ligand binding sites

Rank	C-score	Cluster size	PDB Hit	Lig Name	Download Complex	Ligand Binding Site Residues
1	0.12	5	1g9aA	ZN	Rep, Mult	64,68
2	0.05	2	2w6dB	CPL	Rep, Mult	128,130,131,132,142,145
3	0.03	1	4wpcA	I6P	Rep, Mult	121,125
4	0.02	1	2w6dA	GDP	Rep, Mult	125,126,129,130,146
5	0.02	1	N/A	N/A	N/A	47,48,50,51,52,53,54,55,56,57,58,218,221,222,225

	Download the residue-specific ligand binding probability, which is estimated by SVM.
	Download the all possible binding ligands and detailed prediction summary.
	Download the templates clustering results.
(a)	C-score is the confidence score of the prediction. C-score ranges [0-1], where a higher score indicates a more reliable prediction.
(b)	Cluster size is the total number of templates in a cluster.
(c)	Lig Name is name of possible binding ligand. Click the name to view its information in the BioLiP database.
(d)	Rep is a single complex structure with the most representative ligand in the cluster, i.e., the one listed in the Lig Name column. Mult is the complex structures with all potential binding ligands in the cluster.

Enzyme Commission (EC) numbers and active sites

Rank	Cscore^EC	PDB Hit	TM-score	RMSD^a	IDEN^a	Cov	EC Number	Active Site Residues
1	0.136	3g61A	0.399	4.90	0.058	0.572	3.6.3.44	NA
2	0.121	2iw5A	0.422	5.45	0.050	0.649	1.-.-.-	NA
3	0.119	1eulA	0.366	6.00	0.030	0.598	3.6.3.8	NA
4	0.119	3b8eC	0.368	5.68	0.019	0.583	3.6.3.9	NA
5	0.118	2np0A	0.358	5.05	0.063	0.528	3.4.24.69	NA

	Click on the radio buttons to visualize predicted active site residues.
(a)	Cscore^EC is the confidence score for the 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.

Gene Ontology (GO) terms

Rank	Cscore^GO	TM-score	RMSD^a	IDEN^a	Cov	PDB Hit	Associated GO Terms
Top 10 homologous GO templates in PDB
1	0.22	0.4119	5.22	0.03	0.62	1f5nA	GO:0060333 GO:0006184 GO:0016020 GO:0005886 GO:0005525 GO:0019221 GO:0000166 GO:0003924
2	0.14	0.4646	6.36	0.05	0.80	2ch7A	GO:0004871 GO:0005515 GO:0006935 GO:0007165 GO:0016020
3	0.14	0.4508	5.81	0.05	0.72	1ciiA	GO:0019835 GO:0042742 GO:0005886 GO:0016020 GO:0016021 GO:0050829
4	0.14	0.4657	3.36	0.05	0.58	1jadA	GO:0004435 GO:0005509 GO:0006629 GO:0016042
5	0.14	0.3987	5.16	0.07	0.58	3g5uA	GO:0005886 GO:0005524 GO:0042623 GO:0008559 GO:0006200 GO:0000166 GO:0015893 GO:0016787 GO:0016020 GO:0046581 GO:0016021 GO:0006810 GO:0016887 GO:0017111 GO:0042626 GO:0055085
6	0.13	0.2454	2.74	0.05	0.28	1gk4A	GO:0005198
7	0.13	0.4106	5.62	0.04	0.65	2x0lA	GO:0050660 GO:0019899 GO:0043392 GO:0005515 GO:0043518 GO:0034339 GO:0034648 GO:0045892 GO:0003700 GO:0005634 GO:0006355 GO:0007596 GO:0008134 GO:0030374 GO:0016577 GO:0032091 GO:0043433 GO:0043066 GO:0034720 GO:0016491 GO:0051577 GO:0000122 GO:0021983 GO:0033169 GO:0005654 GO:0006351 GO:0003682 GO:0000790 GO:0002039 GO:0016568 GO:0005667 GO:0055114 GO:0032452 GO:0008283 GO:0045944 GO:0032453 GO:0044212 GO:0032451 GO:0051091 GO:0001701 GO:0046886 GO:0007275 GO:0055001 GO:0006482 GO:0032454 GO:0050681
8	0.13	0.4008	5.39	0.04	0.61	1qu7A	GO:0004871 GO:0006935 GO:0007165 GO:0016020
9	0.13	0.3659	6.07	0.04	0.63	3hajA	GO:0008092 GO:0031410 GO:0016023 GO:0005515 GO:0005215 GO:0005829 GO:0005737 GO:0045806 GO:0030036 GO:0006810 GO:0006897
10	0.13	0.4096	5.47	0.07	0.64	1y2oA	GO:0007165 GO:0008093 GO:0017124 GO:0046847

Consensus prediction of GO terms

Molecular Function GO:0035639 GO:0016462 GO:0032561

GO-Score 0.44 0.44 0.44

Biological Process GO:0071346 GO:0019221 GO:0009207 GO:0046039

GO-Score 0.44 0.44 0.44 0.44

Cellular Component GO:0031224 GO:0005886

GO-Score 0.52 0.42

(a) Cscore^GO is a combined measure for evaluating global and local similarity between query and template protein. It's range is [0-1] and higher values indicate more confident predictions.

(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.

(f) The second table shows a consensus GO terms amongst the top scoring templates. The GO-Score associated with each prediction is defined as the average weight of the GO term, where the weights are assigned based on Cscore^GO of the template.

[Click on S777392_results.tar.bz2 to download the tarball file including all modeling results listed on this page]

Please cite the following articles when you use the I-TASSER server:

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. Cell Reports Methods, 1: 100014 (2021).
Chengxin Zhang, Peter L. Freddolino, and Yang Zhang. COFACTOR: improved protein function prediction by combining structure, sequence and protein-protein interaction information. Nucleic Acids Research, 45: W291-299 (2017).
Jianyi Yang, Yang Zhang. I-TASSER server: new development for protein structure and function predictions, Nucleic Acids Research, 43: W174-W181, 2015.