D-I-TASSER Q12887-D1

D-I-TASSER results for Q12887-D1

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

Input Sequence in FASTA format

>Q12887 (443 residues)
MAASPHTLSSRLLTGCVGGSVWYLERRTIQDSPHKFLHLLRNVNKQWITFQHFSFLKRMY
VTQLNRSHNQQVRPKPEPVASPFLEKTSSGQAKAEIYEMRPLSPPSLSLSRKPNEKELIE
LEPDSVIEDSIDVGKETKEEKRWKEMKLQVYDLPGILARLSKIKLTALVVSTTAAGFALA
PGPFDWPCFLLTSVGTGLASCAANSINQFFEVPFDSNMNRTKNRPLVRGQISPLLAVSFA
TCCAVPGVAILTLGVNPLTGALGLFNIFLYTCCYTPLKRISIANTWVGAVVGAIPPVMGW
TAATGSLDAGAFLLGGILYSWQFPHFNALSWGLREDYSRGGYCMMSVTHPGLCRRVALRH
CLALLVLSAAAPVLDITTWTFPIMALPINAYISYLGFRFYVDADRRSSRRLFFCSLWHLP
LLLLLMLTCKRPSGGGDAGPPPS

Predicted Secondary Structure

Sequence	20 40 60 80 100 120 140 160 180 200 220 240 260 280 300 320 340 360 380 400 420 440 \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| MAASPHTLSSRLLTGCVGGSVWYLERRTIQDSPHKFLHLLRNVNKQWITFQHFSFLKRMYVTQLNRSHNQQVRPKPEPVASPFLEKTSSGQAKAEIYEMRPLSPPSLSLSRKPNEKELIELEPDSVIEDSIDVGKETKEEKRWKEMKLQVYDLPGILARLSKIKLTALVVSTTAAGFALAPGPFDWPCFLLTSVGTGLASCAANSINQFFEVPFDSNMNRTKNRPLVRGQISPLLAVSFATCCAVPGVAILTLGVNPLTGALGLFNIFLYTCCYTPLKRISIANTWVGAVVGAIPPVMGWTAATGSLDAGAFLLGGILYSWQFPHFNALSWGLREDYSRGGYCMMSVTHPGLCRRVALRHCLALLVLSAAAPVLDITTWTFPIMALPINAYISYLGFRFYVDADRRSSRRLFFCSLWHLPLLLLLMLTCKRPSGGGDAGPPPS
Prediction	CCCCCCCSSCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Confidence	99887511000121211134444321000347357888886246875210234455433220146665544678887666631104676533444334678897656755577875433568776777776654444454442001111689999999962426889999999999999478999999999999999999988887545540334578322679987888799999999999999999999999939999999999999998604243222055999999988999999988549998799999999999856889999853288899809941330267220899999999999999999998752289999999999999999999852488599999999999999999999999833346776677899
	H:Helix; S:Strand; C:Coil

Predicted Solvent Accessibility

Sequence	20 40 60 80 100 120 140 160 180 200 220 240 260 280 300 320 340 360 380 400 420 440 \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| \| MAASPHTLSSRLLTGCVGGSVWYLERRTIQDSPHKFLHLLRNVNKQWITFQHFSFLKRMYVTQLNRSHNQQVRPKPEPVASPFLEKTSSGQAKAEIYEMRPLSPPSLSLSRKPNEKELIELEPDSVIEDSIDVGKETKEEKRWKEMKLQVYDLPGILARLSKIKLTALVVSTTAAGFALAPGPFDWPCFLLTSVGTGLASCAANSINQFFEVPFDSNMNRTKNRPLVRGQISPLLAVSFATCCAVPGVAILTLGVNPLTGALGLFNIFLYTCCYTPLKRISIANTWVGAVVGAIPPVMGWTAATGSLDAGAFLLGGILYSWQFPHFNALSWGLREDYSRGGYCMMSVTHPGLCRRVALRHCLALLVLSAAAPVLDITTWTFPIMALPINAYISYLGFRFYVDADRRSSRRLFFCSLWHLPLLLLLMLTCKRPSGGGDAGPPPS
Prediction	74343431212002000000012244431341022001001115642011210000332113434452444144434524442355444443444345144343453435444555544536455445554535454455542452334124102000100213003002300310000002302031000001000000000000000002501540610461310333032300000021002201221232203301210330132002200300130120001002110210100000001202000000020020001000000001125103403020000223430000000101011120221132132113112200210011011000001454451010001201211010000000000022432344448
	Values range from 0 (buried residue) to 8 (highly exposed residue)

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

Contact Map

Distance Map

Hydrogen bond networks

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                 180                 200                 220                 240                 260                 280                 300                 320                 340                 360                 380                 400                 420                 440

                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |

SS
Seq

CCCCCCCSSCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
MAASPHTLSSRLLTGCVGGSVWYLERRTIQDSPHKFLHLLRNVNKQWITFQHFSFLKRMYVTQLNRSHNQQVRPKPEPVASPFLEKTSSGQAKAEIYEMRPLSPPSLSLSRKPNEKELIELEPDSVIEDSIDVGKETKEEKRWKEMKLQVYDLPGILARLSKIKLTALVVSTTAAGFALAPGPFDWPCFLLTSVGTGLASCAANSINQFFEVPFDSNMNRTKNRPLVRGQISPLLAVSFATCCAVPGVAILTLGVNPLTGALGLFNIFLYTCCYTPLKRISIANTWVGAVVGAIPPVMGWTAATGSLDAGAFLLGGILYSWQFPHFNALSWGLREDYSRGGYCMMSVTHPGLCRRVALRHCLALLVLSAAAPVLDITTWTFPIMALPINAYISYLGFRFYVDADRRSSRRLFFCSLWHLPLLLLLMLTCKRPSGGGDAGPPPS

6m31A

0.13

0.08

2.88

1.00

DEthreader

-----------------------------------------------------------------------------------------------------------------------------------------------------FMEKLKTYLELIRVKNCITASIGGIIGYLISSNEIDILKSLLVFFVVFFVCAYGNVINDIFDIEIDRI-N-KPSRPLPSGKIKLNEAKKFSAILLILGLVLSLF-INIYALIIAVINALFLYLYAKKYKKYKPIGNFIIGYLTGSVFLFGGVAGK--NVMPVVILFLCSLLSIWGREIVKDFEDMEGDKKEGVISLPIKYGKKSLYFATFLVVLAVILSPLPYILKIFGIWYLILIAICDILFIYAMALLLKEPNKETASKVSKFLKIIMNIVLLAFIVGAIK----L------

7bpuA

0.13

0.08

2.82

2.44

SPARKS-K

------------------------------------------------------------------------------------------------------------------------------------------------------MEKLKTYLELIRVKNCITASIGGIIGYLISSFEIDILKSLLVFFVVFFVCAYGNVINDIFDIEIDRINKP--SRPLPSGKIKLNEAKKFSAILLILGLVLSLF-INIYALIIAVINALFLYLYAKKYKKYKPIGNFIIGYLTGSVFLFGGVAGKNV--MPVVILFLCSLLSIWGREIVKDFEDMEGDKKEGVISLPIKYGKKSLYFATFLVVLAVILSPLPYILKIFGIWYLILIAICDILFIYAMALLLKEPNKETASKVSKFLKIIMNIVLLAFIVGAIKL----------

6m31A

0.13

0.08

2.88

1.39

MapAlign

------------------------------------------------------------------------------------------------------------------------------------------------------MEKLKTYLELIRVKNCITASIGGIIGYLISSNFIDILKSLLVFFVVFFVCAYGNVINDIFDIEIDR--INKPSRPLPSGKIKLNEAKKFSAILLILGLVLSL-FINIYALIIAVINALFLY-LYAKYKKYKPIGNFIIGYLTGSVFLFGGVAGKN-V-MPVVILFLCSLLSIWGREIVKDFEDMEGDKKEGVISLPIKYGKKSLYFATFLVVLAVILSPLPYILKIFGIWYLILIAICDILFIYAMALLLKEPNKETASKVSKFLKIIMNIVLLAFIVGAIKL----------

6m31A

0.13

0.08

2.82

1.02

CEthreader

-----------------------------------------------------------------------------------------------------------------------------------------------------FMEKLKTYLELIRVKNCITASIGGIIGYLISNFEIDILKSLLVFFVVFFVCAYGNVINDIFDIEIDRIN--KPSRPLPSGKIKLNEAKKFSAILLILGLVLSLF-INIYALIIAVINALFLYLYAKKYKKYKPIGNFIIGYLTGSVFLFGGVAGKNV--MPVVILFLCSLLSIWGREIVKDFEDMEGDKKEGVISLPIKYGKKSLYFATFLVVLAVILSPLPYILKIFGIWYLILIAICDILFIYAMALLLKEPNKETASKVSKFLKIIMNIVLLAFIVGAIKL----------

4od4A

0.16

0.09

3.16

1.39

MUSTER

---------------------------------------------------------------------------------------------------------------------------------------------------------------LVRIEHTIFSLPFAYVGALLSRYPFTLADAILMAAAVVGLRMAGMAYNNIADLDIDRLNPRTAKRPLVVGAVSLREAWALVAAGSAIYFASAALL--NTYALLLSPLVLAIALTYPHAKRLHPLPHLHLGIVLGSVVFGGAVAASGDEASVPWLYVAAVSLWVAGFDTIYSIMDIDFDRSHGLGSIPALLGPKALAASLAMHAAAVALFIAGVEAYGLGAIATVSTALTALVIILVQAMAWLGR----VKESFNLNLAVPIIIGAGIIVDML------------

7bpuA

0.15

0.09

3.18

4.38

HHsearch

------------------------------------------------------------------------------------------------------------------------------------------------------MEKLKTYLELIRVKNCITASIGGIIGYLISSNFIDILKSLLVFFVVFFVCAYGNVINDIFDIEIDR-INKP-SRPLPSGKIKLNEAKKFSAILLILGLVLS-LFINIYALIIAVINALF-LYLYAKYKKYKIGNFIIGYLTG-SVFLFGGVAGKNV--MPVVILFLCSLLSIWGREIVKDFEDMEGDKKEGVISLPIKYGKK-SLYFATFLVLAVILSPLPYILKIFGIWYLILIAICDILFIYAMALLLKEPNKETASKVSKFLKIIMNIVLLAFIVGAIKL----------

6m31A

0.13

0.08

2.88

1.98

FFAS-3D

-------------------------------------------------------------------------------------------------------------------------------------------------------EKLKTYLELIRVKNCITASIGGIIGYLISNFEIDILKSLLVFFVVFFVCAYGNVINDIFDIEIDRINKPS--RPLPSGKIKLNEAKKFSAILLILGLVLS-LFINIYALIIAVINALFLYLYAKKYKKYKPIGNFIIGYLTGSVFLFG--GVAGKNVMPVVILFLCSLLSIWGREIVKDFEDMEGDKKEGVISLPIKYGKKSLYFATFLVVLAVILSPLPYILKIFGIWYLILIAICDILFIYAMALLLKEPNKETASKVSKFLKIIMNIVLLAFIVGAIKL----------

7bpuA

0.13

0.08

2.82

1.43

EigenThreader

------------------------------------------------------------------------------------------------------------------------------------------------------MEKLKTYLELIRVKNCITASIGGIIGYLISSNFIDILKSLLVFFVVFFVCAYGNVINDIFDIEIDRIN--KPSRPLPSGKIKLNEAKKFSAILLILGLVLSLF-INIYALIIAVINALFLYLYAKKYKKYKPIGNFIIGYLTGSVFLFGGVAG--KNVMPVVILFLCSLLSIWGREIVKDFEDMEGDKKEGVISLPIKYGKKSLYFATFLVVLAVILSPLPYILKIFGIWYLILIAICDILFIYAMALLLKEPNKETASKVSKFLKIIMNIVLLAFIVGAIKL----------

6m34A

0.13

0.08

2.81

1.81

CNFpred

----------------------------------------------------------------------------------------------------------------------------------------------------------KTYLELIRVKNCITASIGGIIGYLISSNFIDILKSLLVFFVVFFVCAYGNVINDIFDIEIDRINK--PSRPLPSGKIKLNEAKKFSAILLILGLVLSL-FINIYALIIAVINALFLYLYAKKYKKYKPIGNFIIGYLTGSVFLFGGVAGK--NVMPVVILFLCSLLSIWGREIVKDFEDMEGDKKEGVISLPIKYGKKSLYFATFLVVLAVILSPLPYILKIFGIWYLILIAICDILFIYAMALLLKEPNKETASKVSKFLKIIMNIVLLAFIVGAIKL----------

7bpuA

0.13

0.08

2.88

1.00

DEthreader

------------------------------------------------------------------------------------------------------------------------------------------------------MEKLKTYLELIRVKNCITASIGGIIGYLISSNEIDILKSLLVFFVVFFVCAYGNVINDIFDIEIDRI-N-KPSRPLPSGKIKLNEAKKFSAILLILGLVLSLF-INIYALIIAVINALFLYLYAKKYKKYKPIGNFIIGYLTGSVFLFGGVAGK--NVMPVVILFLCSLLSIWGREIVKDFEDMEGDKKEGVISLPIKYGKKSLYFATFLVVLAVILSPLPYILKIFGIWYLILIAICDILFIYAMALLLKEPNKETASKVSKFLKIIMNIVLLAFIVGAIKL----------

(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

Click to view	Rank^a	Download	Estimated TM-score^b
	1	model1.pdb.gz	0.5844

(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	6m31A	0.61	1.40	0.133	0.630	model1_6m31A.pdb.gz
2	4tq3A	0.50	4.20	0.130	0.619	model1_4tq3A.pdb.gz
3	4od4A	0.49	3.95	0.136	0.598	model1_4od4A.pdb.gz
4	1fpsA	0.45	4.47	0.079	0.567	model1_1fpsA.pdb.gz
5	6kd7A	0.45	4.39	0.072	0.562	model1_6kd7A.pdb.gz
6	4kk2A	0.45	4.30	0.074	0.555	model1_4kk2A.pdb.gz
7	2ewgA	0.45	4.33	0.051	0.558	model1_2ewgA.pdb.gz
8	3n3dA	0.45	4.81	0.052	0.576	model1_3n3dA.pdb.gz
9	4jzbA	0.45	4.29	0.055	0.555	model1_4jzbA.pdb.gz
10	4jyxA	0.45	4.75	0.071	0.571	model1_4jyxA.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:0003824	0.98	catalytic activity
GO:0016740	0.89	transferase activity
GO:0004659	0.88	prenyltransferase activity
GO:0004311	0.68	farnesyltranstransferase activity
GO:0016491	0.57	oxidoreductase activity
GO:0005215	0.55	transporter activity
GO:0022892	0.54	substrate-specific transporter activity
GO:0022857	0.54	transmembrane transporter activity
GO:0022891	0.53	substrate-specific transmembrane transporter activity
GO:0015075	0.52	ion transmembrane transporter activity
GO:0015078	0.51	hydrogen ion transmembrane transporter activity
GO:0009055	0.51	electron carrier activity
GO:0008495	0.50	protoheme IX farnesyltransferase 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:0009987	1.00	cellular process
GO:0008152	0.97	metabolic process
GO:0044699	0.96	single-organism process
GO:0044710	0.95	single-organism metabolic process
GO:0044237	0.94	cellular metabolic process
GO:0071704	0.93	organic substance metabolic process
GO:0044763	0.93	single-organism cellular process
GO:0051186	0.91	cofactor metabolic process
GO:1901576	0.90	organic substance biosynthetic process
GO:0044249	0.90	cellular biosynthetic process
GO:0051188	0.89	cofactor biosynthetic process
GO:0044711	0.89	single-organism biosynthetic process
GO:0006807	0.84	nitrogen compound metabolic process
GO:1901360	0.83	organic cyclic compound metabolic process
GO:0046483	0.83	heterocycle metabolic process
GO:0034641	0.83	cellular nitrogen compound metabolic process
GO:0006725	0.83	cellular aromatic compound metabolic process
GO:0044271	0.82	cellular nitrogen compound biosynthetic process
GO:1901362	0.81	organic cyclic compound biosynthetic process
GO:0019438	0.81	aromatic compound biosynthetic process
GO:0018130	0.81	heterocycle biosynthetic process
GO:1901564	0.77	organonitrogen compound metabolic process
GO:1901566	0.76	organonitrogen compound biosynthetic process
GO:0006783	0.74	heme biosynthetic process
GO:0006784	0.62	heme a biosynthetic process
GO:0065003	0.58	macromolecular complex assembly
GO:0008535	0.57	respiratory chain complex IV assembly
GO:0055114	0.52	oxidation-reduction process
GO:0006091	0.52	generation of precursor metabolites and energy

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:0044424	0.96	intracellular part
GO:0044444	0.94	cytoplasmic part
GO:0043226	0.82	organelle
GO:0043231	0.81	intracellular membrane-bounded organelle
GO:0005739	0.79	mitochondrion
GO:0044446	0.66	intracellular organelle part
GO:0043234	0.66	protein complex
GO:0044429	0.60	mitochondrial part
GO:0016020	0.57	membrane
GO:0070069	0.56	cytochrome complex

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	1rqiA	0.433	4.68	0.071	0.560	2.5.1.10	NA
2	0.060	2epoA	0.405	6.87	0.042	0.659	3.2.1.52	NA
3	0.060	2f8zF	0.422	4.69	0.062	0.542	2.5.1.10 2.5.1.1	251,299,305
4	0.060	2h8oA	0.421	4.41	0.076	0.526	2.5.1.10	NA
5	0.060	2f6dA	0.407	6.90	0.067	0.659	3.2.1.3	NA

	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:

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	3cc9A	0.434	4.27	0.052	0.544	0.38	GRG	complex1.pdb.gz	176,193,195,196,199,200,203,260,263,264,267,298,318
2	0.01	1yhmA	0.444	4.39	0.066	0.560	0.21	AHD	complex2.pdb.gz	169,173,288
3	0.01	2ogdB	0.447	4.42	0.048	0.562	0.19	SUF	complex3.pdb.gz	172,173,176
4	0.01	1yhlA	0.446	4.41	0.058	0.562	0.19	RIS	complex4.pdb.gz	177,185,294
5	0.01	3efqA	0.350	6.15	0.040	0.510	0.28	714	complex5.pdb.gz	170,174,196,254
6	0.01	3q1oA	0.441	4.79	0.058	0.576	0.34	IPE	complex6.pdb.gz	176,292,318,319
7	0.01	3ez3B	0.417	4.69	0.040	0.535	0.17	ZOL	complex7.pdb.gz	176,180,185
8	0.01	2o1oB	0.425	4.66	0.068	0.546	0.30	RIS	complex8.pdb.gz	159,160,163,208,211
9	0.01	3lmd0	0.438	4.67	0.078	0.551	0.13	III	complex9.pdb.gz	194,195,198,201,202,205,206,209,212,229
10	0.01	2azj0	0.440	4.46	0.064	0.555	0.23	III	complex10.pdb.gz	169,170,172,227,230,234,237,240,244,245,247,248,251,252

	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.