I-TASSER results

I-TASSER results for job id Rv2880c

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

Input Sequence in FASTA format

>protein (275 residues)
MVPELMFDEPRPGRPPRHLADLDAAGRASAVAELGLPAFRAKQLAHQYYGRLIADPRQMT
DLPAAVRDRIAGAMFPNLLTASADITCDAGQTRKTLWRAVDGTMFESVLMRYPRRNTVCI
SSQAGCGMACPFCATGQGGLTRNLSTAEILEQVRAGAAALRDDFGDRLSNVVFMGMGGAA
GQLRQGVGRSSAHYRAAAVRFRDFGPRGDGVDGGSGPCYPQPCRRAARRDPGAVAARPRR
RVARYTSSGQQPVEDQRSARCGPVLRQCDRATGVY

Predicted Secondary Structure

Sequence	20 40 60 80 100 120 140 160 180 200 220 240 260 \| \| \| \| \| \| \| \| \| \| \| \| \| MVPELMFDEPRPGRPPRHLADLDAAGRASAVAELGLPAFRAKQLAHQYYGRLIADPRQMTDLPAAVRDRIAGAMFPNLLTASADITCDAGQTRKTLWRAVDGTMFESVLMRYPRRNTVCISSQAGCGMACPFCATGQGGLTRNLSTAEILEQVRAGAAALRDDFGDRLSNVVFMGMGGAAGQLRQGVGRSSAHYRAAAVRFRDFGPRGDGVDGGSGPCYPQPCRRAARRDPGAVAARPRRRVARYTSSGQQPVEDQRSARCGPVLRQCDRATGVY
Prediction	CCCCCEHCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHCCCCCHHHHHHHHHHHCCHHHHHHHHEEHCCCCHHHHHHHHHCCCEEEEEHCCCCCCEEEEEEHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEHCCCCHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCHCCCCCEEEHCCCHHHHHHCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCC
Conf.Score	99876555788999997777899999999999989996579999999999766798885577788999999997655788776444459954788888758764555444689975888874678888898866676678766778899999999999998789997457775798767788899875566646788888758999998655667667655646778766555546775443445788876677776665446666545666789
	H:Helix; S:Strand; C:Coil

Predicted Solvent Accessibility

Sequence	20 40 60 80 100 120 140 160 180 200 220 240 260 \| \| \| \| \| \| \| \| \| \| \| \| \| MVPELMFDEPRPGRPPRHLADLDAAGRASAVAELGLPAFRAKQLAHQYYGRLIADPRQMTDLPAAVRDRIAGAMFPNLLTASADITCDAGQTRKTLWRAVDGTMFESVLMRYPRRNTVCISSQAGCGMACPFCATGQGGLTRNLSTAEILEQVRAGAAALRDDFGDRLSNVVFMGMGGAAGQLRQGVGRSSAHYRAAAVRFRDFGPRGDGVDGGSGPCYPQPCRRAARRDPGAVAARPRRRVARYTSSGQQPVEDQRSARCGPVLRQCDRATGVY
Prediction	75551404114673213100213473035004515345120521042013203521540252245215501640214004303424047450130003033202000000313722000000001010200000012331422120020141024003303666432000000001121321032003334432220022015242611101113131333303400443355224424433352344334416754534023004305534447
	Values range from 0 (buried residue) to 8 (highly exposed residue)

Predicted Normalized B-facotr

(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

Rank

PDB
Hit

Iden1

Iden2

Cov

Norm.
Zscore

Download
Align.

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

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

Sec.Str
Seq

CCCCCEHCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHCCCCCHHHHHHHHHHHCCHHHHHHHHEEHCCCCHHHHHHHHHCCCEEEEEHCCCCCCEEEEEEHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEHCCCCHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCHCCCCCEEEHCCCHHHHHHCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCC
MVPELMFDEPRPGRPPRHLADLDAAGRASAVAELGLPAFRAKQLAHQYYGRLIADPRQMTDLPAAVRDRIAGAMFPNLLTASADITCDAGQTRKTLWRAVDGTMFESVLMRYPRRNTVCISSQAGCGMACPFCATGQGGLTRNLSTAEILEQVRAGAAALRDDFGDRLSNVVFMGMGGAAGQLRQGVGRSSAHYRAAAVRFRDFGPRGDGVDGGSGPCYPQPCRRAARRDPGAVAARPRRRVARYTSSGQQPVEDQRSARCGPVLRQCDRATGVY

3rf9A

0.27

0.25

0.92

1.29

MUSTER

VTTK-------DGKIN--LLDLNRQQMREFFKDLGEKPFRADQVMKWMYHYCCDNFDEMTDINKVLRGKLKEVAEIRAPEVVEEQRSSDG-TIKWAIAVGDQ-RVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGATGQRPITNVVMMGMGEPLLN---------NNVVPAMEIMLD--DFGFGLSKRRVTLSTSGVVPALDKLGETFLAANQGRVT-YVGKDTPPFPGGRSSRFSKVLMSYGRKTGDD

3rf9A

0.24

0.21

0.89

3.17

dPPAS

------------NVTTKDLLDLNRQQMREFFKDLGEKPFRADQVMKWMYHYCCDNFDEMTDINKVLRGKLKEVAEIRAPEVVEEQRSSDG-TIKWAIAVGDQ-RVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGAAKVTPITNVVMMGMGEPLLN--------LNNVVPAMEIMLD--DFGFGLSKRRVTLSTSGVVPALDKLGDMI-------DVALAISLHAPNDEIRDYNIETFLAAVRRKSNAN

3rf9A

0.25

0.22

0.87

3.00

wdPPAS

VTTK-------DGKI---LLDLNRQQMREFFKDLGEKPFRADQVMKWMYHYCCDNFDEMTDINKVLRGKLKEVAEIRAPEVVEEQRSSDG-TIKWAIAV-GDQRVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGATGQRPITNVVMMGMGEPLLN---------NNVVPAMEIMLD--DFGFGLSKRRVTLSTSGVVPALDKLGDMILHAPRDEIVKY------NIE--------TFLAAVRRKSNAN

3rf9A

0.27

0.25

0.91

1.35

wMUSTER

VTTK-------DGKI--NLLDLNRQQMREFFKDLGEKPFRADQVMKWMYHYCCDNFDEMTDINKVLRGKLKEVAEIRAPEVVEEQRSSDG-TIKWAIAVGDQ-RVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGATGQRPITNVVMMGMGEPLLN---------NNVVPAMEIMLD--DFGFGLSKRRVTLSTSGVVPALDK-PETFLAANQGRVT-YVGKDTPPFPGGRSSN--KVLMSYGRKTGDD

3rf9A

0.29

0.25

0.88

1.89

wPPAS

VT-------TKDGKI--NLLDLNRQQMREFFKDLGEKPFRADQVMKWMYHYCCDNFDEMTDINKVLRGKLKEV-APEVVE--EQRSSD-G-TIKWAIAVGDQ-RVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGATGQRPITNVVMMGMGEPLLN----------NVVPAMEIMLD--DFGFGLSKRRVTLSTSGVVPALDKLGDMILARPQGRVT-YVGKDTPPFPGGRSSN-GIV-RK-DDTKRM-

3rf9A3

0.31

0.15

0.47

4.83

dPPAS2

--------------------------------------------------------------------------APEVVE--EQRSSDG--TIKWAIAVGDQ-RVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGAAKVTPITNVVMMGMGEPLLN--------LNNVVPAMEIMLD--DFGFGLSKRRVT----------------------------------------------------------

3rf9A

0.26

0.23

0.88

1.87

PPAS

VT-------TKDGKIN--LLDLNRQQMREFFKDLGEKPFRADQVMKWMYHYCCDNFDEMTDINKVLRGKLKEVAEIRAPEVVEEQRSSDG-TIKWAIAVGDQ-RVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGATGQRPITNVVMMGMGEPLLN----------NVVPAMEIMLD--DFGFGLSKRRVTLSTSGVVPALDKLGDM-LHAPNRDE-KY------NIETFLAA-V-LEKANQGRVTHVN

3rf9A

0.26

0.23

0.90

3.40

Env-PPAS

VT-------TKDGKIN--LLDLNRQQMREFFKDLGEKPFRADQVMKWMYHYCCDNFDEMTDINKVLRGKLKEVAEIRAPEVVEEQRSSDG-TIKWAIAVGDQ-RVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGATGQRPITNVVMMGMGEPLLN--------LNNVVPAMEIMLD--DFGFGLSKRRVTLSTSGVVPALDKLGDMILHAPNRDEKKY------NIETFLAA-VEKSNANQGRVTHVN

3rf9A3

0.36

0.16

0.46

1.03

MUSTER

------------------------------------------------------------------------A--PEVVE--EQRSSD-G-TIKWAIAVGDQ-RVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGATGQRPITNVVMMGMGEPLLN----------NVVPAMEIMLD--DFGFGLS--------------------------KRRVT--------------------------------

3rf9A3

0.30

0.14

0.47

3.02

dPPAS

------------------------------------------------------------------------------APEVVEEQRSSDGTIKWAIAVGDQ-RVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGAAKVTPITNVVMMGMGEPLLN--------LNNVVPAMEIMLD--DFGFGLSKRRVT----------------------------------------------------------

(a)	Iden1 is the number of template residues identical to query divided by number of aligned residues.
(b)	Iden2 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.
(e)	Download Align. list the threading program used to identify the template provide the 3D structure of aligned regions of threading templates.

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 higher value signifies a model with a high 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.)

More about C-score

Local structure accuracy of first model

Download Model 1

C-score=-0.74

Estimated TM-score = 0.62±0.14

Estimated RMSD = 7.6±4.3Å

Download Model 2

C-score=-1.11

Download Model 3

C-score=-1.01

Download Model 4

C-score=-2.64

Download Model 5

C-score=-3.28

Proteins structureally close to the target in 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
1	3rf9A	0.814	2.37	0.220	0.891
2	3amkA	0.499	5.02	0.051	0.731
3	4bzyA	0.494	4.85	0.052	0.706
4	3czkA	0.482	5.31	0.057	0.727
5	1xrsA	0.476	5.09	0.088	0.709
6	3ucqA	0.475	4.93	0.044	0.691
7	5b68A	0.473	5.84	0.073	0.782
8	1g5aA	0.467	5.23	0.038	0.706
9	4s3pA	0.467	5.96	0.049	0.782
10	4ztxA2	0.467	5.10	0.034	0.691

(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 COACH

(This section reports biological annotations of the target protein by COACH based on the I-TASSER structure prediction. COACH is a meta-server approach that combines multiple function annotation results 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	0.48	7	5hr6A	SF4	Rep, Mult	126,128,130,133,136,221
2	0.10	2	1mw0A	UUU	Rep, Mult	92,93,94,96,159,160
3	0.06	1	3rfaA	UUU	Rep, Mult	126,128,130,132,133,136,174,175,177,178,179,215,220,246,266,268,269

	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	0.060	3aboA	0.444	5.80	0.055	0.706	4.3.1.7	152,172,177,219,226
2	0.060	3b2qA	0.445	5.80	0.052	0.713	3.6.3.14	270
3	0.060	1icpA	0.452	4.88	0.074	0.644	1.3.1.42	NA
4	0.060	1bwkA	0.405	5.15	0.061	0.596	1.6.99.1	168
5	0.060	1gowA	0.458	5.27	0.068	0.691	3.2.1.23	NA
6	0.060	1bf2A	0.461	5.10	0.054	0.665	3.2.1.68	NA
7	0.060	1b1yA	0.450	4.92	0.055	0.651	3.2.1.2	148
8	0.060	3b9eA	0.448	6.26	0.056	0.764	3.2.1.14	NA
9	0.060	1z41A	0.453	4.65	0.034	0.640	1.6.99.1,1.-.-.-	NA
10	0.060	1jphA	0.442	5.05	0.048	0.644	4.1.1.37	NA
11	0.060	1t7lA	0.466	5.02	0.038	0.687	2.1.1.14	NA
12	0.060	1iwpA	0.463	5.51	0.054	0.713	4.2.1.30	NA
13	0.060	1bwlA	0.406	5.13	0.051	0.600	1.6.99.1	NA
14	0.060	2nq5A	0.461	5.09	0.053	0.684	2.1.1.14	NA
15	0.060	1dioA	0.459	5.53	0.058	0.709	4.2.1.28	NA
16	0.060	3kruA	0.457	4.39	0.039	0.633	1.6.99.1	NA
17	0.060	1djnA	0.453	4.42	0.043	0.633	1.5.8.2,1.5.99.7	NA
18	0.060	1wkvB	0.447	5.60	0.094	0.706	2.5.1.47	NA
19	0.060	1u22A	0.459	5.02	0.039	0.680	2.1.1.14	46,76

(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
Homologous GO templates in PDB
0	0.31	0.775	2.78	0.22	0.87	5hr7A	GO:0000049 GO:0002935 GO:0003824 GO:0005737 GO:0005829 GO:0006364 GO:0008033 GO:0008168 GO:0008173 GO:0016740 GO:0019843 GO:0030488 GO:0032259 GO:0046677 GO:0046872 GO:0051536 GO:0051539 GO:0070040 GO:0070475
1	0.09	0.429	5.84	0.05	0.69	2bhzA	GO:0003824 GO:0004553 GO:0005737 GO:0005975 GO:0005992 GO:0008152 GO:0016787 GO:0016798 GO:0033942
2	0.07	0.497	4.94	0.06	0.72	3amlA	GO:0003824 GO:0003844 GO:0004553 GO:0005975 GO:0005978 GO:0005982 GO:0009501 GO:0009507 GO:0009536 GO:0016740 GO:0016757 GO:0019252 GO:0043169
3	0.07	0.475	4.93	0.04	0.69	3ucqA	GO:0003824 GO:0005975
4	0.07	0.499	4.76	0.04	0.71	5cltA	GO:0003824 GO:0003844 GO:0004553 GO:0005829 GO:0005975 GO:0005977 GO:0005978 GO:0006091 GO:0016740 GO:0016757 GO:0043169 GO:0070062
5	0.07	0.467	6.07	0.07	0.77	3eddA	GO:0003824 GO:0005975 GO:0008152 GO:0016787 GO:0016798 GO:0046872 GO:0047798
6	0.07	0.466	5.32	0.03	0.69	4aioA	GO:0003824 GO:0004553 GO:0005975 GO:0046872 GO:0051060
7	0.07	0.428	5.84	0.04	0.69	2vncB	GO:0003824 GO:0004133 GO:0004177 GO:0004553 GO:0005975 GO:0005980 GO:0006508
8	0.07	0.461	5.10	0.05	0.67	1bf2A	GO:0003824 GO:0004553 GO:0005576 GO:0005975 GO:0005977 GO:0008152 GO:0016787 GO:0016798 GO:0019156 GO:0046872
9	0.07	0.410	6.06	0.04	0.69	2ya1A	GO:0003824 GO:0004553 GO:0005576 GO:0005618 GO:0005975 GO:0016020 GO:0016021 GO:0030246
10	0.07	0.426	5.57	0.03	0.66	1eh9A	GO:0003824 GO:0004553 GO:0005737 GO:0005975 GO:0005992 GO:0008152 GO:0016787 GO:0016798 GO:0033942
11	0.07	0.450	5.12	0.07	0.65	2wskA	GO:0003824 GO:0004133 GO:0004135 GO:0004553 GO:0005975 GO:0005977 GO:0005980 GO:0006974 GO:0008152 GO:0016787 GO:0016798
12	0.06	0.430	5.76	0.05	0.70	4okdA	GO:0003824 GO:0004553 GO:0005975
13	0.06	0.381	6.60	0.04	0.68	2e8yA	GO:0003824 GO:0004553 GO:0005975 GO:0008152 GO:0016787 GO:0016798 GO:0051060
14	0.06	0.432	5.51	0.07	0.67	3m07A	GO:0003824 GO:0004553 GO:0005737 GO:0005975 GO:0005992 GO:0008152 GO:0016787 GO:0016798 GO:0033942 GO:0046872
15	0.06	0.355	6.30	0.04	0.61	4h8vA	GO:0003824 GO:0005975 GO:0046872
16	0.06	0.315	6.57	0.04	0.57	4howA	GO:0003824 GO:0005975 GO:0016853 GO:0046872
17	0.06	0.424	5.91	0.06	0.69	2vr5A	GO:0003824 GO:0004133 GO:0004177 GO:0004553 GO:0005975 GO:0005980 GO:0006508
18	0.06	0.425	5.12	0.03	0.62	4lxfB	GO:0003824 GO:0005975 GO:0046872

Consensus prediction of GO terms

Molecular Function	GO:0016798	GO:0019843	GO:0002935	GO:0000049	GO:0051539	GO:0046872	GO:0070040
GO-Score	0.40	0.31	0.31	0.31	0.31	0.31	0.31
Biological Processes	GO:0070475	GO:0030488	GO:0046677
GO-Score	0.31	0.31	0.31
Cellular Component	GO:0005829
GO-Score	0.35

(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 result.tar.bz2 to download the tarball file including all modelling results listed on this page]

Please cite the following articles when you use the I-TASSER server:
1.	J Yang, R Yan, A Roy, D Xu, J Poisson, Y Zhang. The I-TASSER Suite: Protein structure and function prediction. Nature Methods, 12: 7-8, 2015.
2.	J Yang, Y Zhang. I-TASSER server: new development for protein structure and function predictions, Nucleic Acids Research, 43: W174-W181, 2015.
3.	A Roy, A Kucukural, Y Zhang. I-TASSER: a unified platform for automated protein structure and function prediction. Nature Protocols, 5: 725-738, 2010.
4.	Y Zhang. I-TASSER server for protein 3D structure prediction. BMC Bioinformatics, 9: 40, 2008.