D-I-TASSER results for Q9ULL8-D3

Input Sequence in FASTA format

>Q9ULL8 (392 residues)
IVRRRNAPVSRPHSWHVAKLLEGCPEAATTMHFPSEAFSLSWHSGCNTSDVCVQWCPLSR
HCSTEKSSSIGSMESLEQPGQATYESHLLPIDQNMYPNQRDSAYSSFSASSNASDCALSL
RPEEPASTDCIMQGPGPTKAPSGRPNVAETSGGSRRTNGGHLTPSSQMSSRPQEGYQSGP
AKAVRGPPQPPVRRDSLQASRAQLLNGEQRRASEPVVPLPQKEKLSLEPVLPATDCSSTT
KAASGTEAGEEGDSEPKECSRMGGRRSGGTRGRSIQNRRKSERFATNLRNEIQRRKAQLQ
KSKGPLSQLCDTKEPVEETQEPPESPPLTASNTSLLSSCKKPPSPRDKLFNKSMMLRARS
SECLSQAPESHESRTGLEGRISPGQRPGQSSL

Predicted Secondary Structure

                  20                  40                  60                  80                 100                 120                 140                 160                 180                 200                 220                 240                 260                 280                 300                 320                 340                 360                 380
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Sequence
IVRRRNAPVSRPHSWHVAKLLEGCPEAATTMHFPSEAFSLSWHSGCNTSDVCVQWCPLSRHCSTEKSSSIGSMESLEQPGQATYESHLLPIDQNMYPNQRDSAYSSFSASSNASDCALSLRPEEPASTDCIMQGPGPTKAPSGRPNVAETSGGSRRTNGGHLTPSSQMSSRPQEGYQSGPAKAVRGPPQPPVRRDSLQASRAQLLNGEQRRASEPVVPLPQKEKLSLEPVLPATDCSSTTKAASGTEAGEEGDSEPKECSRMGGRRSGGTRGRSIQNRRKSERFATNLRNEIQRRKAQLQKSKGPLSQLCDTKEPVEETQEPPESPPLTASNTSLLSSCKKPPSPRDKLFNKSMMLRARSSECLSQAPESHESRTGLEGRISPGQRPGQSSL
Prediction
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Confidence
96324687778864513764567999655456889988888777777777776667776666888888889831258888887888878887667888643234688889988778889898888884434578887778888987413478887777887788767899998888888777788999999987666657777888666667788886677888876655788877666677788788888767887777787777887666665556776665544456545555566667676566778888866778876688888888877776678998200245654333443334567797556677888888899998888889

H:Helix; S:Strand; C:Coil

Predicted Solvent Accessibility

                  20                  40                  60                  80                 100                 120                 140                 160                 180                 200                 220                 240                 260                 280                 300                 320                 340                 360                 380
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Sequence
IVRRRNAPVSRPHSWHVAKLLEGCPEAATTMHFPSEAFSLSWHSGCNTSDVCVQWCPLSRHCSTEKSSSIGSMESLEQPGQATYESHLLPIDQNMYPNQRDSAYSSFSASSNASDCALSLRPEEPASTDCIMQGPGPTKAPSGRPNVAETSGGSRRTNGGHLTPSSQMSSRPQEGYQSGPAKAVRGPPQPPVRRDSLQASRAQLLNGEQRRASEPVVPLPQKEKLSLEPVLPATDCSSTTKAASGTEAGEEGDSEPKECSRMGGRRSGGTRGRSIQNRRKSERFATNLRNEIQRRKAQLQKSKGPLSQLCDTKEPVEETQEPPESPPLTASNTSLLSSCKKPPSPRDKLFNKSMMLRARSSECLSQAPESHESRTGLEGRISPGQRPGQSSL
Prediction
74423552323011000032445335435335245443424133434334223423443144343434334415313345433472332325434444444423442434443472425344664343542345444661554634335435454446444242545354336544444554356334424446441522434245575532444454345565143443344453544453454554465554446536564455544554554663463653456344545456554454444444255474436645523744535444441343254364245433554342444336316532545445451724152554435567

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                 180                 200                 220                 240                 260                 280                 300                 320                 340                 360                 380                    |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |                   |
							SS	CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
							Seq	IVRRRNAPVSRPHSWHVAKLLEGCPEAATTMHFPSEAFSLSWHSGCNTSDVCVQWCPLSRHCSTEKSSSIGSMESLEQPGQATYESHLLPIDQNMYPNQRDSAYSSFSASSNASDCALSLRPEEPASTDCIMQGPGPTKAPSGRPNVAETSGGSRRTNGGHLTPSSQMSSRPQEGYQSGPAKAVRGPPQPPVRRDSLQASRAQLLNGEQRRASEPVVPLPQKEKLSLEPVLPATDCSSTTKAASGTEAGEEGDSEPKECSRMGGRRSGGTRGRSIQNRRKSERFATNLRNEIQRRKAQLQKSKGPLSQLCDTKEPVEETQEPPESPPLTASNTSLLSSCKKPPSPRDKLFNKSMMLRARSSECLSQAPESHESRTGLEGRISPGQRPGQSSL
1	5jcss	0.10	0.09	3.32	1.68	SPARKS-K		LISTVRINED----------HQKDSSNKIYNLNMIGMRIWNVIELESEEDLTHILAQKFPILTNLIPKLIDSYKNVKSIYMNTKFISLNKGAHTRVVSVRDKNNGINKPDQLIQDCFAGAIGEFKALEPIIQAIGESLDIASSRISLFLTQHVPTLENLDDSIKIGRLKEKLNIQKKSMNSTLFAF--TNHSLRLMEQISVCIQMTGETQQLAKMLAKKLTVINVSQQTELLGGYKPKTVAVPIQENFETLFNATFSLKKNEKFHKMLHRCFNKNQWKNVVKLW---------NEAYKMAQSILKI----------------TNTENENENAKKKKRRLNTHEKKLLLDKWADFNDSVKKFEAQSSSIENSFVFNFVEGSLVKTIRAGEWLL
2	2nbiA	0.14	0.13	4.54	1.12	MUSTER		ECFLPYSDASRPPSC----LSFGRPDCDVLPTPQNINCPRCCATECRPDNPMFTPSPDGSPPICSPTMLPTNQPTPPEPSSAPSDCGEVPLDTCFLPTS-DPARPPDCTAVGRPDCDVLPFPNNECSPDNPMFTPSPDGSPPNCSPTMLPTPQPSTPTVITSPAPSSQPSQCAEVIEQCPIDECFLPYGDSSRP--LDCTDPAVNRPDCDVLPTPQACCAFECRPDNPMFTPSPDGSPPICSPTMMPSPEPSSQPSDCGEVIEECPIDACFLPKSDSARPPDCTAVG--------RPDCNVLPFPNNIGCPSCCPFECSPDNPMFTPSPSPPNCSPTMLPSPSPSAVTVPLTPAPSSAPTRQPSSQPTGPQPSSQPSECADVLELCPYDTCF
3	5b0pA	0.04	0.04	1.80	0.54	CEthreader		---------------------------------------MNIYRYEENPLITPLDVKPIHEGFEVIGAFNGGVA------------------------EYNGEVLLLLRVAEKPVSEDPEIVLAPVYNAKNKELELQSFRLDDENYDFEDPRMIRSKAKLEGFSYLTSLSYIRIARSKDGHHFTLDEKPFLYPFNEYQTFGIEDARVTQINFSAVSEFGVADALVTTKDFENLEYQGNIFAPENKDVLIFPEKINGKYYALHRPSLKSIGNLDIWIASSPDLRSFGDHRHLLGIRPGEYDSGGCVPIKTEEGWLILYHGATEENRYVMGAALLDLNDPTIVLKRTKTPILEPVADYEKNGFFGDVVFACGAIQEGDTLHMYYGVADTSMAGC
4	5a1uE	0.06	0.06	2.57	0.68	EigenThreader		FNETPINPGEHLGTTEATEAFFAMTKLFQSNDMSCIAEDVIIVTSSLTKDMTGKEDNYRGPAVRALCQITDSTMLQAVERYMKQAIVDKVPSVSSSALVSSLHLLKCSVNEAQEAASSDNIMVQYHALGLLYHVRKNDRLAVSKMISKFTRHGLKSPVASKQLEEEDGSRDSPLF-------DFIESCLRNKHEMVVYEAASAIVNLPGCSAKELAPAVSVLQLFCSSPKAALRYAAVRTLNKVAMKHPSAVTACNLDLENLVTDSNRSIATLAITTLLKTKQISSFMSEIKVVVVQAISALCQKYPRKHAVLMNFLFTMLREEGGFEYKRLCEFIEDCEFTVLATRILHLLGQEMLPSILVLLKRCVMDTFYLNVLEQKQKALNAGYILNG
5	5mqfT	0.11	0.09	3.16	0.53	FFAS-3D		--------------------------------------------KNSLAYQRMSWEALKK--------SINGL--INKVNISNISIIIQELLQENIVRGRGLLSRSVLQAQSASPIFTHVYAALVAIINSKFPQIGELLNFRKGYRRNDKQLCLTASKFVAHLINQNVAHEVLCLEMLTLLLERPTDDSVEVAIGFLKECGLKLTQVSPRGINAIFERLRNILHESEIDKRVQYMIEVMFAVRKDINLVSFRRSSLDFEECAHKLLKMEFPESQTKEKEYMESFEGIFKEQYTNKLRNVAK---MFAHLLYTD-------------SLPWSVLECIKLSEETTTSSSRIFVKIFFCEYMGLPKLNARLKDETLQPFFEG-LLPRDNPGLGGL
6	4btgA3	0.14	0.12	4.20	1.62	SPARKS-K		NLKVKDLNGSARGLTQAFAIGELKNQLSVGALQLPLQFTRTFSASMTS---ELLWEAYVYRRTATYLTILGRLWSPSTPKELDPSARLRGIDQLRSNLALFIAYQDMVKQRGRAEVIFS---DEELSSTIIPWFIEAMSEVSPFKLRPINETTSYIGQTSAIDHMGQPSVVVYEDWQF----AKEITAFTPVKLANNSNQRFLDVEPGISRMSATLAPIGNTRGTVNSN-----GAEMTLGFPSVVERDYALDRDPMVAALRTGIVDESLEARAS---NDLKRSMFNYYAAVMHYAVAHNPEVVVSEHQGVAAEQVWNVRTELRIPVGYNAIEGGSIAYNKPIQPSEVLQAKVLDLANHTTSIHIWP-------------------------
7	1no3A	0.04	0.02	1.25	0.67	DEthreader		---LPTLGQSFFLVCSWIYNA--K------------LFKSDRIFFANQLYREELNLRRILPRDEAFGHLDFLTYGLVVLLGGIKLP-DIISKISPLPVLKEI----W--HAVVEPFIIATNRHLSIYKLLHH-VFTLREDPELQAWKEVEVGDKKNPWWPKMQTREELVE---------------CAIIIWTALHAVNFGQYPY------G-----G---L--IL-N-RPTLSRRFMPE----------KG---SAEYEELNKALKPKF-TLIDLSVIEILSR-HAS-DEVYLGERDNPNWTSDTRALE-----KRFGNLAIEKL-R-----------------------------------------------------------------
8	7cwlA	0.08	0.08	3.06	0.95	MapAlign		-VTWFHAIHVSGTNGTKRFDNPVLPFNDGVYFASTEKSNIIRGWIFGTTLDSKTQSLLIVNNATNVVIKVCEFQFCPFLGVYYHKNNKSWMESEFRVYSSANNCTFEYVSQPTEVNVFQTRAGCLIGAEHVNNSYECDIIGAGICASYQTSQSIIAYTMYICGDSTECSNLLLQYGSFCTQLNRALTGIAVEQDKNTQEVFAICAQKFNGLTVLPPLLTDEMIAQYTSALLAGTITSGWTFGAGAALQIPFAMQMAYRFNGIGVTQNVLYENQKLIANQFNSAIGKIQNAQALNTLVKQLSSNFGAISSVLNDILSRLDKVEAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGDFCGKGYHLMSFPQSAPHGVVFL
9	2nbiA1	0.12	0.11	3.79	1.05	MUSTER		ECFLPYSDASRPPSC----LSFGRPDCDVLPTPQNINCPRCCATECRPDNPMFTPSPDGSPPICSPT-----MLPTNQPTPPEPSSAPSDCGEVIEECPLDTCFLPTSDPARPPDCTAVGRPD------DVLPFPNNLGCPACCPFECSPDNPMFTPSPDGSPPNCSPTMLPTPQPSTPTVITSPAPSSQPSQAEVIEQCPIDECFLPYGDSSRPLDCTDPAVNRPDCDVLPTPQNINCPACCAFECRPDNPMFTPSPDGSPPICSPTMMPSPEPS-------------------------SQPSDCGEVIEECPIDACFLPKSDSARPPDTAVGRPDCNVLPFPNNIGCPSCCPFECSPDNPMTPSPDGSPPNCSPTMLPSPSPSAVTVPL
10	2pffB	0.19	0.18	5.67	0.41	HHsearch		----MDAYSTRPLTLSASQLQEQF-NK--ILPEPTEGFAADDEPVSSLVEPSGQFDQVLNLCLTEFENCYLEGNDIHALAAKLL----QENDTTLYITARIMAKRPFDKKSNSALFR--AVGEGNAQLVAIFGGQGNTDDTLSELIRTTLDAEFTQG-LNILEWLENPSNTPDKDYLLVTAKL--LGFTPGELRSYLKGATGHSQGL--VTAV----AIAETDSWESFFVRKARCYEATSLPPSILEDSLE-NNEGVP-S------PMLSISNLTQEQVKTNSHAKNLVQSLYGLNLTLRKAKAPSGLDQSR-IPFSERKLKFSNLLVPASDNNVSFNAKDIQIPVYDTFDGSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASL


(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	0.4899


(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	6uebA	0.39	6.31	0.032	0.615
2	1no3A	0.39	6.58	0.026	0.635
3	6l42A	0.38	6.86	0.044	0.620
4	6hq6A	0.37	6.71	0.072	0.612
5	6v85A	0.37	7.04	0.028	0.635
6	6r9tA	0.37	6.83	0.073	0.605
7	3o8yA	0.37	6.84	0.040	0.610
8	3qmzA	0.36	7.18	0.055	0.625
9	2r7oA	0.36	7.00	0.053	0.617
10	4nreA	0.36	6.78	0.027	0.594



(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:0008092	0.78	cytoskeletal protein binding
GO:0003779	0.77	actin binding
GO:0051015	0.63	actin filament 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:0009987	0.92	cellular process
GO:0044699	0.90	single-organism process
GO:0044763	0.88	single-organism cellular process
GO:0044767	0.78	single-organism developmental process
GO:0048869	0.77	cellular developmental process
GO:0016043	0.77	cellular component organization
GO:0048856	0.76	anatomical structure development
GO:0048513	0.74	animal organ development
GO:0032989	0.70	cellular component morphogenesis
GO:0000902	0.65	cell morphogenesis
GO:0007420	0.63	brain development
GO:0007015	0.57	actin filament organization
GO:0032501	0.56	multicellular organismal process
GO:0006996	0.52	organelle organization






(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	0.99	cell part
GO:0044424	0.92	intracellular part
GO:0043226	0.85	organelle
GO:0016020	0.85	membrane
GO:0043229	0.84	intracellular organelle
GO:0043232	0.79	intracellular non-membrane-bounded organelle
GO:0005856	0.78	cytoskeleton
GO:0044425	0.75	membrane part
GO:0044422	0.75	organelle part
GO:0005737	0.75	cytoplasm
GO:0044459	0.74	plasma membrane part
GO:0044446	0.73	intracellular organelle part
GO:0044444	0.73	cytoplasmic part
GO:0098590	0.71	plasma membrane region
GO:0016324	0.70	apical plasma membrane
GO:0044430	0.68	cytoskeletal part
GO:0043234	0.63	protein complex
GO:0030863	0.63	cortical cytoskeleton
GO:0030864	0.62	cortical actin cytoskeleton
GO:0031941	0.57	filamentous actin
GO:0016460	0.51	myosin II complex
GO:0015629	0.51	actin cytoskeleton
GO:0009925	0.51	basal plasma membrane
GO:0009898	0.51	cytoplasmic side of plasma membrane
GO:0001725	0.51	stress fiber






(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	0.060	1z0hB	0.235	7.35	0.029	0.421	3.4.24.69	NA
2	0.060	1jroB	0.319	7.58	0.031	0.577	1.1.1.204	NA
3	0.060	2gtqA	0.343	6.99	0.038	0.566	3.4.11.2	NA
4	0.060	1no3A	0.390	6.58	0.026	0.635	1.13.11.12	NA
5	0.060	2iukA	0.394	6.56	0.040	0.635	1.13.11.12	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.