D-I-TASSER Q9UHI7

D-I-TASSER results for Q9UHI7

[Click result.zip to download all results on this page]

Summary of the Protein

Uniprot ID: Q9UHI7
Protein Name: Solute carrier family 23 member 1
Gene Name: SLC23A1

Input Sequence in FASTA format

>Q9UHI7 (598 residues)
MRAQEDLEGRTQHETTRDPSTPLPTEPKFDMLYKIEDVPPWYLCILLGFQHYLTCFSGTI
AVPFLLAEALCVGHDQHMVSQLIGTIFTCVGITTLIQTTVGIRLPLFQASAFAFLVPAKA
ILALERWKCPPEEEIYGNWSLPLNTSHIWHPRIREVQGAIMVSSVVEVVIGLLGLPGALL
NYIGPLTVTPTVSLIGLSVFQAAGDRAGSHWGISACSILLIILFSQYLRNLTFLLPVYRW
GKGLTLLRIQIFKMFPIMLAIMTVWLLCYVLTLTDVLPTDPKAYGFQARTDARGDIMAIA
PWIRIPYPCQWGLPTVTAAAVLGMFSATLAGIIESIGDYYACARLAGAPPPPVHAINRGI
FTEGICCIIAGLLGTGNGSTSSSPNIGVLGITKVGSRRVVQYGAAIMLVLGTIGKFTALF
SSLPDPILGGMFCTLFGMITAVGLSNLQFVDMNSSRNLFVLGFSMFFGLTLPNYLESNPG
AINTGILEVDQILIVLLTTEMFVGGCLAFILDNTVPGSPEERGLIQWKAGAHANSDMSSS
LKSYDFPIGMGIVKRITFLKYIPICPVFKGFSSSSKDQIAIPEDTPENTETASVCTKV

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

Contact Map

Distance Map

D-I-TASSER simulation is guided by the consensus contact map (left figure) and distance map (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.

Information of Domain

No. of Domain	Domain	Domain Boundary	Length of Domain	Models of Domain	Sequence
1	Q9UHI7-D1	1-598	598		MRAQEDLEGRTQHETTRDPSTPLPTEPKFDMLYKIEDVPPWYLCILLGFQHYLTCFSGTIAVPFLLAEALCVGHDQHMVSQLIGTIFTCVGITTLIQTTVGIRLPLFQASAFAFLVPAKAILALERWKCPPEEEIYGNWSLPLNTSHIWHPRIREVQGAIMVSSVVEVVIGLLGLPGALLNYIGPLTVTPTVSLIGLSVFQAAGDRAGSHWGISACSILLIILFSQYLRNLTFLLPVYRWGKGLTLLRIQIFKMFPIMLAIMTVWLLCYVLTLTDVLPTDPKAYGFQARTDARGDIMAIAPWIRIPYPCQWGLPTVTAAAVLGMFSATLAGIIESIGDYYACARLAGAPPPPVHAINRGIFTEGICCIIAGLLGTGNGSTSSSPNIGVLGITKVGSRRVVQYGAAIMLVLGTIGKFTALFSSLPDPILGGMFCTLFGMITAVGLSNLQFVDMNSSRNLFVLGFSMFFGLTLPNYLESNPGAINTGILEVDQILIVLLTTEMFVGGCLAFILDNTVPGSPEERGLIQWKAGAHANSDMSSSLKSYDFPIGMGIVKRITFLKYIPICPVFKGFSSSSKDQIAIPEDTPENTETASVCTKV

Top 1 final models from D-I-TASSER

Click to view	Rank^a	Download	Estimated TM-score^b
	1	model1.pdb.gz	0.7557

(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.	Download Alignment
1	6rtcA	0.74	3.83	0.085	0.846	model1_6rtcA.pdb.gz
2	7ch1A	0.73	3.83	0.085	0.833	model1_7ch1A.pdb.gz
3	5i6cA	0.71	1.55	0.193	0.727	model1_5i6cA.pdb.gz
4	5da0A	0.56	3.21	0.122	0.615	model1_5da0A.pdb.gz
5	5sv9A	0.56	4.73	0.101	0.686	model1_5sv9A.pdb.gz
6	3qe7A	0.55	3.84	0.190	0.644	model1_3qe7A.pdb.gz
7	4yzfA	0.55	4.73	0.095	0.684	model1_4yzfA.pdb.gz
8	6ki1A	0.54	3.05	0.126	0.595	model1_6ki1A.pdb.gz
9	6caaA	0.53	4.79	0.105	0.662	model1_6caaA.pdb.gz
10	5l25A	0.52	3.47	0.086	0.584	model1_5l25A.pdb.gz

(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:0022891	1.00	substrate-specific transmembrane transporter activity
GO:0022804	0.89	active transmembrane transporter activity
GO:0008324	0.89	cation transmembrane transporter activity
GO:0015294	0.88	solute:cation symporter activity
GO:0046873	0.79	metal ion transmembrane transporter activity
GO:0015081	0.78	sodium ion transmembrane transporter activity
GO:0008509	0.78	anion transmembrane transporter activity
GO:0090482	0.77	vitamin transmembrane transporter activity
GO:0015229	0.77	L-ascorbic acid transporter activity
GO:0008514	0.77	organic anion transmembrane transporter activity
GO:0015370	0.72	solute:sodium symporter activity
GO:0070890	0.71	sodium-dependent L-ascorbate transmembrane transporter activity
GO:0015296	0.67	anion:cation symporter activity
GO:0008520	0.66	L-ascorbate:sodium symporter activity
GO:0033300	0.56	dehydroascorbic acid transporter activity

Download full result of the above consensus prediction.

Click the graph to show a high resolution version.

(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:

[0.4,0.5)

[0.5,0.6)

[0.6,0.7)

[0.7,0.8)

[0.8,0.9)

[0.9,1.0]

Biological Process (BP)

GO term	Cscore^GO	Name
GO:0044765	0.99	single-organism transport
GO:0071702	0.98	organic substance transport
GO:0006811	0.79	ion transport
GO:0015711	0.78	organic anion transport
GO:0015882	0.74	L-ascorbic acid transport
GO:0009987	0.66	cellular process
GO:0070904	0.64	transepithelial L-ascorbic acid transport
GO:0050896	0.62	response to stimulus
GO:0048856	0.60	anatomical structure development
GO:0044767	0.60	single-organism developmental process
GO:0044763	0.56	single-organism cellular process
GO:0042221	0.56	response to chemical
GO:0030001	0.55	metal ion transport
GO:0070837	0.54	dehydroascorbic acid transport
GO:0009636	0.54	response to toxic substance
GO:0007420	0.54	brain development
GO:0006814	0.54	sodium ion transport
GO:0008152	0.50	metabolic process

Download full result of the above consensus prediction.

Click the graph to show a high resolution version.

(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:

[0.4,0.5)

[0.5,0.6)

[0.6,0.7)

[0.7,0.8)

[0.8,0.9)

[0.9,1.0]

Cellular Component (CC)

GO term	Cscore^GO	Name
GO:0044464	0.99	cell part
GO:0016020	0.94	membrane
GO:0044424	0.86	intracellular part
GO:0044425	0.79	membrane part
GO:0005886	0.79	plasma membrane
GO:0044459	0.77	plasma membrane part
GO:0098590	0.72	plasma membrane region
GO:0043226	0.70	organelle
GO:0043229	0.69	intracellular organelle
GO:0016324	0.67	apical plasma membrane
GO:0005737	0.62	cytoplasm

Download full result of the above consensus prediction.

Click the graph to show a high resolution version.

(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:

[0.4,0.5)

[0.5,0.6)

[0.6,0.7)

[0.7,0.8)

[0.8,0.9)

[0.9,1.0]

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	0.060	1r9jB	0.288	7.71	0.038	0.467	2.2.1.1	NA
2	0.060	1rs0A	0.246	6.42	0.047	0.349	3.4.21.47	NA
3	0.060	1dmtA	0.289	8.17	0.035	0.480	3.4.24.11	NA
4	0.060	3hz3A	0.314	7.87	0.043	0.512	2.4.1.5	NA
5	0.060	1trkA	0.287	7.89	0.038	0.472	2.2.1.1	104

	Click on the radio buttons to visualize predicted active site residues.
(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:

Click to view	Rank	Cscore^LB	PDB Hit	TM-score	RMSD^a	IDEN^a	Cov.	BS-score	Lig. Name	Download Complex	Predicted binding site residues
	1	0.01	1siwA	0.314	8.24	0.029	0.537	0.45	SF4	complex1.pdb.gz	50,55,91,404

	Click on the radio buttons to visualize predicted binding site and residues.
(a)	Cscore^LB is the confidence score of predicted binding site. Cscore^LB values range in between [0-1]; where a higher score indicates a more reliable ligand-binding site prediction.
(b)	BS-score is a measure of local similarity (sequence & structure) between template binding site and predicted binding site in the query structure. Based on large scale benchmarking analysis, we have observed that a BS-score >1 reflects a significant local match between the predicted and template binding site.
(c)	TM-score is a measure of global structural similarity between query and template protein.
(d)	RMSD^a the RMSD between residues that are structurally aligned by TM-align.
(e)	IDEN^a is the percentage sequence identity in the structurally aligned region.
(f)	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.

[Click result.zip to download all results on this page]

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.