YRC Public Data Repository - Protein Structure Prediction

Protein:	GCSPA_LISMO
Organism:	Listeria monocytogenes EGD-e
Length:	448 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for GCSPA_LISMO.

Description	E-value	Query Range	Subject Range
gi\|254932336, gi... - gi\|254932336\|ref\|ZP_05265695.1\| glycine dehydrogenase subunit 1 [Listeria monocytogenes HPB2262], gi... gi\|254852602 - gi\|254852602\|ref\|ZP_05241950.1\| glycine dehydrogenase subunit 1 [Listeria monocytogenes FSL R2-503] gi\|254879578 - gi\|254879578\|ref\|ZP_05252288.1\| glycine dehydrogenase subunit 1 [Listeria monocytogenes FSL J2-071] GCSPA_LISMF - Probable glycine dehydrogenase (decarboxylating) subunit 1 OS=Listeria monocytogenes serotype 4b (st... gi\|47018003, gi\|... - gi\|47093627\|ref\|ZP_00231384.1\| glycine cleavage system P protein, subunit 1 [Listeria monocytogenes ... gi\|153166741, gi... - gi\|254873058\|ref\|ZP_05245768.1\| glycine dehydrogenase subunit 1 [Listeria monocytogenes FSL N1-017],...	342.0	[0..1]	[448..1]
gi\|47015678, gi\|... - gi\|47095932\|ref\|ZP_00233535.1\| glycine cleavage system P protein, subunit 1 [Listeria monocytogenes ... gi\|254898486, gi... - gi\|254898486\|ref\|ZP_05258410.1\| glycine dehydrogenase subunit 1 [Listeria monocytogenes J0161], gi\|1... gi\|153190747, gi... - gi\|254912023\|ref\|ZP_05262035.1\| glycine dehydrogenase subunit 1 [Listeria monocytogenes J2818], gi\|1... gi\|133732902, gi... - gi\|254936350\|ref\|ZP_05268047.1\| glycine dehydrogenase subunit 1 [Listeria monocytogenes F6900], gi\|1...	339.0	[0..1]	[448..1]
GCSPA_LISIN, GCS... - Probable glycine dehydrogenase [decarboxylating] subunit 1 OS=Listeria innocua GN=gcvPA PE=3 SV=1, (... GCSPA_LISIN - Probable glycine dehydrogenase (decarboxylating) subunit 1 OS=Listeria innocua serovar 6a (strain CL...	337.0	[0..1]	[448..1]
GCSPA_BACSU, GCS... - Probable glycine dehydrogenase [decarboxylating] subunit 1 OS=Bacillus subtilis GN=gcvPA PE=3 SV=1, ... gi\|2634890, gi\|1... - gi\|2634890\|emb\|CAB14387.1\| glycine decarboxylase (subunit 1) (glycine cleavage system protein P) [Ba...	322.0	[0..3]	[444..2]
GCSPA_GEOKA - Probable glycine dehydrogenase [decarboxylating] subunit 1 OS=Geobacillus kaustophilus GN=gcvPA PE=3... GCSPA_GEOKA - Probable glycine dehydrogenase (decarboxylating) subunit 1 OS=Geobacillus kaustophilus (strain HTA42...	320.0	[0..4]	[444..3]
GCSPA_BACLD - Probable glycine dehydrogenase (decarboxylating) subunit 1 OS=Bacillus licheniformis (strain ATCC 14...	315.0	[0..3]	[444..2]
gi\|89099221, gi\|... - gi\|89099221\|ref\|ZP_01172099.1\| glycine dehydrogenase subunit 1 [Bacillus sp. NRRL B-14911], gi\|89086...	314.0	[0..4]	[444..3]
GCSPA_CARHZ - Probable glycine dehydrogenase (decarboxylating) subunit 1 OS=Carboxydothermus hydrogenoformans (str...	311.0	[0..5]	[444..2]
gi\|75764928, gi\|... - gi\|75764928\|ref\|ZP_00744271.1\| Glycine dehydrogenase (decarboxylating) [Bacillus thuringiensis serov... gi\|228849576, gi... - gi\|228910059\|ref\|ZP_04073879.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus thuringi... gi\|228818311, gi... - gi\|228941385\|ref\|ZP_04103937.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus thuringi... gi\|228805167, gi... - gi\|228954510\|ref\|ZP_04116535.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus thuringi... gi\|228974318, gi... - gi\|228974318\|ref\|ZP_04134887.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus thuringi... gi\|228980910, gi... - gi\|228980910\|ref\|ZP_04141214.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus thuringi... GCSPA_BACC2 - Probable glycine dehydrogenase (decarboxylating) subunit 1 OS=Bacillus cereus (strain G9842) GN=gcvP... gi\|229071729, gi... - gi\|229071729\|ref\|ZP_04204944.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus cereus F... gi\|228701791, gi... - gi\|229081484\|ref\|ZP_04213983.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus cereus R... gi\|206971317, gi... - gi\|206971317\|ref\|ZP_03232268.1\| glycine cleavage system P-protein, subunit 1 [Bacillus cereus AH1134... gi\|229111699, gi... - gi\|229111699\|ref\|ZP_04241247.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus cereus R... GCSPA_BACC4 - Probable glycine dehydrogenase (decarboxylating) subunit 1 OS=Bacillus cereus (strain B4264) GN=gcvP... gi\|228654110, gi... - gi\|229129505\|ref\|ZP_04258476.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus cereus B... gi\|228631034, gi... - gi\|229152426\|ref\|ZP_04280618.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus cereus m... GCSPA_BACCR - Probable glycine dehydrogenase (decarboxylating) subunit 1 OS=Bacillus cereus (strain ATCC 14579 / D... gi\|229180503, gi... - gi\|229180503\|ref\|ZP_04307845.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus cereus 1... gi\|229192436, gi... - gi\|229192436\|ref\|ZP_04319399.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus cereus A...	310.0	[0..4]	[447..3]
GCSPA_BACHK - Probable glycine dehydrogenase [decarboxylating] subunit 1 OS=Bacillus thuringiensis subsp. konkukia... gi\|228947942, gi... - gi\|228947942\|ref\|ZP_04110229.1\| glycine dehydrogenase [decarboxylating] subunit 1 [Bacillus thuringi... GCSPA_BACHK - Probable glycine dehydrogenase (decarboxylating) subunit 1 OS=Bacillus thuringiensis subsp. konkukia...	310.0	[0..4]	[447..3]

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Predicted Domain #1

Region A:
Residues: [1-448]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKHRYLPMT EQDEKEMLDV IGVKSIDDLF QDIPEKIRFK RDYDLKPAKS EPALLRELSK  60
   61 LASKNANTSE YASFLGAGVY SHYIPTVVDH VISRSEFYTA YTPYQPEISQ GELQAIFEFQ 120
  121 TMIAELTGMD LANSSMYDGG TALAEAAMLA SGHTKRKKIL ISGAVHPESS NVLKTYATGQ 180
  181 HIEVEVIPEL DGKTDIEALK KALSDDIAGF VAQYPNFYGQ VEPLAELEKL VHENNSLLLV 240
  241 SSNPLSLGLL TPPGEFGADI VVGDSQVFGI PESFGGPHCG FFAVTNKLMR KVPGRLVGET 300
  301 VDENGKRGYV LTLQAREQHI RRDKATSNIC SNQALNALAS SVAMATLGKT GLVEMAKQNL 360
  361 DKSHYAKQKF REKGFEVLFS DGFFNEFVVK LSKPIKEVNK SLLDEGIIGG YDLGFYEEKY 420
  421 KHHMLVAVTE MRTKEEIDAF VASLEGAK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	59.39794
Match:	1wytA
Description:	Crystal structure of glycine decarboxylase (P-protein) of the glycine cleavage system, in apo form
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	2.66922865456094	bayes_pls_golite062009
glycine dehydrogenase (decarboxylating) activity	2.10290066978837	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors, disulfide as acceptor	2.10290066978837	bayes_pls_golite062009
transferase activity, transferring nitrogenous groups	1.85532625717753	bayes_pls_golite062009
transaminase activity	1.83482013760414	bayes_pls_golite062009
transferase activity	0.93810038069762	bayes_pls_golite062009
glycine hydroxymethyltransferase activity	0.71980637947887	bayes_pls_golite062009
methyltransferase activity	0.58373273750311	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	0.51745245786841	bayes_pls_golite062009
O-phospho-L-serine:2-oxoglutarate aminotransferase activity	0.38671377495281	bayes_pls_golite062009
lyase activity	0.0414385380659299	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: