YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|47097677, gi\|...
Organism:	Listeria monocytogenes serotype 1/2a str. F6854
Length:	429 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 gi|47097677, gi|....

Description	E-value	Query Range	Subject Range
OBG_LISIN - GTPase obg OS=Listeria innocua GN=obg PE=3 SV=1 OBG_LISIN - GTPase Obg OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=obg PE=3 SV=1	329.0	[0..1]	[429..1]
gi\|221086585, gi... - gi\|221086585\|ref\|ZP_03556127.1\| GTP-binding protein Obg/CgtA [Geobacillus sp. Y412MC61], gi\|22070958... OBG_GEOKA - GTPase obg OS=Geobacillus kaustophilus GN=obg PE=3 SV=1 OBG_GEOKA - GTPase Obg OS=Geobacillus kaustophilus (strain HTA426) GN=obg PE=3 SV=1	320.0	[0..1]	[429..1]
gi\|52545497 - gi\|52545497\|emb\|CAH56427.1\| spo0B-associated GTP-binding protein [Bacillus amyloliquefaciens] OBG_BACMF - GTPase Obg OS=Bacillus methylotrophicus (strain DSM 23117 / BGSC 10A6 / FZB42) GN=obg PE=3 SV=1	317.0	[0..1]	[429..1]
OBG_BACHD - GTPase obg OS=Bacillus halodurans GN=obg PE=3 SV=1 OBG_BACHD - GTPase Obg OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125) G...	315.0	[0..1]	[429..1]
OBG_BACLD - GTPase Obg OS=Bacillus licheniformis (strain ATCC 14580 / DSM 13 / JCM 2505 / NBRC 12200 / NCIMB 937...	315.0	[0..1]	[429..1]
gi\|221324257 - gi\|221324257\|ref\|ZP_03605551.1\| GTPase ObgE [Bacillus subtilis subsp. subtilis str. SMY] OBG_BACSU - GTPase Obg OS=Bacillus subtilis (strain 168) GN=obg PE=1 SV=1 gi\|221319976 - gi\|221319976\|ref\|ZP_03601270.1\| GTPase ObgE [Bacillus subtilis subsp. subtilis str. JH642] gi\|221315056 - gi\|221315056\|ref\|ZP_03596861.1\| GTPase ObgE [Bacillus subtilis subsp. subtilis str. NCIB 3610] OBG_BACSU - GTPase obgE OS=Bacillus subtilis GN=obg PE=1 SV=1	312.0	[0..1]	[429..1]
OBG_STAAC - GTPase Obg OS=Staphylococcus aureus (strain COL) GN=obg PE=3 SV=1	309.0	[0..1]	[429..1]
gi\|251801853, gi... - gi\|251814642\|ref\|ZP_04829115.1\| GTPase ObgE [Staphylococcus aureus subsp. aureus TCH70], gi\|25180185... OBG_STAAM - GTPase Obg OS=Staphylococcus aureus (strain Mu50 / ATCC 700699) GN=obg PE=3 SV=1 OBG_STAAN - GTPase Obg OS=Staphylococcus aureus (strain N315) GN=obg PE=1 SV=1 OBG_STAAW - GTPase Obg OS=Staphylococcus aureus (strain MW2) GN=obg PE=3 SV=1 OBG_STAAS - GTPase Obg OS=Staphylococcus aureus (strain MSSA476) GN=obg PE=3 SV=1 gi\|25295786 - pir\|\|C89947 Spo0B-associated GTP-binding protein [imported] - Staphylococcus aureus (strain N315) OBG_STAAE - GTPase Obg OS=Staphylococcus aureus (strain Newman) GN=obg PE=3 SV=1 OBG_STAA2 - GTPase Obg OS=Staphylococcus aureus (strain JH1) GN=obg PE=3 SV=1 OBG_STAA9 - GTPase Obg OS=Staphylococcus aureus (strain JH9) GN=obg PE=3 SV=1 OBG_STAAT - GTPase Obg OS=Staphylococcus aureus (strain USA300 / TCH1516) GN=obg PE=3 SV=1 gi\|221139045 - gi\|221139045\|ref\|ZP_03563845.1\| GTPase ObgE [Staphylococcus aureus subsp. aureus str. JKD6008] gi\|221141087 - gi\|221141087\|ref\|ZP_03565580.1\| GTPase ObgE [Staphylococcus aureus subsp. aureus str. JKD6009] OBG_STAA8 - GTPase Obg OS=Staphylococcus aureus (strain NCTC 8325) GN=obg PE=3 SV=1 OBG_STAA3 - GTPase Obg OS=Staphylococcus aureus (strain USA300) GN=obg PE=3 SV=1 gi\|87161323\|ref\|... - GTP-binding protein Obg/CgtA [Staphylococcus aureus subsp. aureus USA300], GTP-binding protein Obg/C... OBG_STAA1 - GTPase Obg OS=Staphylococcus aureus (strain Mu3 / ATCC 700698) GN=obg PE=3 SV=1 gi\|269203269\|ref... - GTPase ObgE [Staphylococcus aureus subsp. aureus ED98] gi\|255006429 - gi\|255006429\|ref\|ZP_05145030.2\| GTPase ObgE [Staphylococcus aureus subsp. aureus Mu50-omega] gi\|253732300, gi... - gi\|253732300\|ref\|ZP_04866465.1\| GTPase ObgE [Staphylococcus aureus subsp. aureus USA300_TCH959], gi\|... gi\|253317205 - gi\|253317205\|ref\|ZP_04840418.1\| GTPase ObgE [Staphylococcus aureus subsp. aureus str. CF-Marseille]	309.0	[0..1]	[429..1]
OBG_STAAR - GTPase Obg OS=Staphylococcus aureus (strain MRSA252) GN=obg PE=3 SV=1 gi\|227899845, gi... - gi\|227899845\|ref\|ZP_04017650.1\| spo0B-associated GTP-binding protein [Staphylococcus aureus subsp. a... gi\|227557844, gi... - gi\|227557844\|ref\|ZP_03987891.1\| spo0B-associated GTP-binding protein [Staphylococcus aureus subsp. a...	308.0	[0..1]	[429..1]
gi\|27262240 - gi\|27262240\|gb\|AAN87401.1\| SPO0B-associated GTP-binding protein [Heliobacillus mobilis]	308.0	[0..1]	[429..1]

Back

Predicted Domain #1

Region A:
Residues: [1-335]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFVDQVKIYV KAGNGGDGMV AFRREKFVPN GGPAGGDGGK GADVVFVVDE GLRTLVDFRF  60
   61 KRIFKAEHGE HGMSKSMHGR GAEDLVVKVP QGTIVKDIDT GEIIADLVAH GQRAVIAKAG 120
  121 RGGRGNKRFA TPANPAPELS ENGEPGQERN VQLELKVLAD VGLVGFPSVG KSTLLSVVSA 180
  181 ARPKIAAYHF TTIVPNLGMV DAGDGRSFVM ADLPGLIEGA SQGVGLGHQF LRHIERTRVI 240
  241 VHVIDMSGSE GRVPYEDYMA INNELEQYNL RLMERPQIIV ANKMDMPDAE ENLNEFKTKI 300
  301 AEDIPVFPIS AVTKTGLREL LLAIADKLET TPEFP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	69.69897
Match:	1lnzA
Description:	Obg GTP-binding protein N-terminal domain; Obg GTP-binding protein C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
GTPase activity	2.7209594329073	bayes_pls_golite062009
binding	2.21604035604783	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
RNA helicase activity	0.94708387424268	bayes_pls_golite062009
ATP-dependent RNA helicase activity	0.93133090558732	bayes_pls_golite062009
RNA-dependent ATPase activity	0.91827876091109	bayes_pls_golite062009
nucleic acid binding	0.913322399315129	bayes_pls_golite062009
two-component response regulator activity	0.842299569386707	bayes_pls_golite062009
structural constituent of ribosome	0.738234102557832	bayes_pls_golite062009
purine nucleotide binding	0.569910969126728	bayes_pls_golite062009
purine ribonucleotide binding	0.568840867400671	bayes_pls_golite062009
ribonucleotide binding	0.568779924702229	bayes_pls_golite062009
nucleotide binding	0.564275755355315	bayes_pls_golite062009
molecular transducer activity	0.471461153565539	bayes_pls_golite062009
signal transducer activity	0.471461153565539	bayes_pls_golite062009
hydrolase activity	0.441914529351098	bayes_pls_golite062009
DNA binding	0.376487324624615	bayes_pls_golite062009
translation regulator activity	0.29096092258568	bayes_pls_golite062009
translation factor activity, nucleic acid binding	0.274994961137851	bayes_pls_golite062009
ATP binding	0.1860481660648	bayes_pls_golite062009
protein binding	0.170837278876362	bayes_pls_golite062009
adenyl ribonucleotide binding	0.152859582615242	bayes_pls_golite062009
transcription regulator activity	0.150159515184919	bayes_pls_golite062009
adenyl nucleotide binding	0.138615225841109	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.0880086189831292	bayes_pls_golite062009
pyrophosphatase activity	0.0746809525189132	bayes_pls_golite062009
structural molecule activity	0.0558641287316701	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.0557582578674931	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.0529869469040288	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [336-429]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LNEILEQEDE DTVLYKYVAE EPDFEISREP DGTFVLSGAK IERLFTMTNF ERDASISRFA  60
   61 RQLRAMGVDE ALRKRGAKDG DIVRLLDYEF EFMD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	33.69897
Match:	1jalA
Description:	YchF GTP-binding protein N-terminal domain; YchF GTP-binding protein, C-terminal domain
Matching Structure (courtesy of the PDB):

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: