YRC Public Data Repository - Protein Structure Prediction

Protein:	RAD24
Organism:	Saccharomyces cerevisiae
Length:	659 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 RAD24.

Description	E-value	Query Range	Subject Range
RAD24 - Checkpoint protein, involved in the activation of the DNA damage and meiotic pachytene checkpoints; ... RAD24_YEAST - Checkpoint protein RAD24 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RAD24 PE=1 SV=1	0.0	[1..659]	[1..659]
gi\|254238513, gi... - gi\|84317370\|ref\|ZP_00965818.1\| COG0465: ATP-dependent Zn proteases [Pseudomonas aeruginosa C3719], g... gi\|194555332, gi... - gi\|84323594\|ref\|ZP_00971663.1\| COG0465: ATP-dependent Zn proteases [Pseudomonas aeruginosa 2192], gi... gi\|218893846, gi... - gi\|218893846\|ref\|YP_002442715.1\| cell division protein FtsH [Pseudomonas aeruginosa LESB58], gi\|2187... gi\|9951013, gi\|1... - gi\|9951013\|gb\|AAG08137.1\|AE004888_12 cell division protein FtsH [Pseudomonas aeruginosa PAO1], gi\|15... gi\|107103848 - gi\|107103848\|ref\|ZP_01367766.1\| hypothetical protein PaerPA_01004919 [Pseudomonas aeruginosa PACS2] gi\|11347548 - pir\|\|F83053 cell division protein FtsH PA4751 [imported] - Pseudomonas aeruginosa (strain PAO1) gi\|53726399, gi\|... - gi\|53726399\|ref\|ZP_00141191.2\| COG0465: ATP-dependent Zn proteases [Pseudomonas aeruginosa UCBPP-PA1... gi\|94417365 - gi\|94417365\|ref\|ZP_01297183.1\| hypothetical protein PaerP_01000682 [Pseudomonas aeruginosa PA7]	6.0E-72	[52..421]	[130..459]
gi\|27355428, gi\|... - gi\|27382257\|ref\|NP_773786.1\| metalloprotease [Bradyrhizobium japonicum USDA 110], gi\|27355428\|dbj\|BA... gi\|5531227 - gi\|5531227\|emb\|CAB51029.1\| metalloprotease FtsH [Bradyrhizobium japonicum]	3.0E-71	[57..446]	[137..487]
gi\|25308025 - pir\|\|H87648 cell division protein FtsH [imported] - Caulobacter crescentus gi\|13424908, gi\|... - gi\|16127456\|ref\|NP_422020.1\| cell division protein FtsH [Caulobacter crescentus CB15], gi\|13424908\|g... FTSH_CAUCN - ATP-dependent zinc metalloprotease FtsH OS=Caulobacter crescentus (strain NA1000 / CB15N) GN=ftsH PE...	2.0E-70	[57..446]	[132..482]
gi\|15891238, gi\|... - gi\|15891238\|ref\|NP_356910.1\| hypothetical protein AGR_L_2253 [Agrobacterium tumefaciens str. C58], g... gi\|25308068 - pir\|\|E98271 metalloproteinase ftsH (AJ243808) [imported] - Agrobacterium tumefaciens (strain C58, Ce...	1.0E-69	[57..421]	[153..477]
FTSH_ECO57 - ATP-dependent zinc metalloprotease FtsH OS=Escherichia coli O157:H7 GN=ftsH PE=3 SV=1 gi\|13363530, gi\|... - gi\|15833311\|ref\|NP_312084.1\| ATP-dependent metalloprotease [Escherichia coli O157:H7 str. Sakai], gi... gi\|254594527, gi... - gi\|254795127\|ref\|YP_003079964.1\| subunit of integral membrane ATP-dependent zinc metallopeptidase [E... gi\|209758260, gi... - pir\|\|D85981 cell division protein HflB/FtsH proteinase [imported] - Escherichia coli (strain O157:H7... gi\|209160879, gi... - gi\|209399479\|ref\|YP_002272648.1\| ATP-dependent metallopeptidase HflB [Escherichia coli O157:H7 str. ... gi\|195938397 - gi\|195938397\|ref\|ZP_03083779.1\| ATP-dependent metalloprotease [Escherichia coli O157:H7 str. EC4024] gi\|15803718, gi\|... - gi\|15803718\|ref\|NP_289752.1\| ATP-dependent metalloprotease [Escherichia coli O157:H7 EDL933], gi\|125... gi\|217319989, gi... - gi\|217327622\|ref\|ZP_03443705.1\| ATP-dependent metallopeptidase HflB [Escherichia coli O157:H7 str. T...	2.0E-69	[57..417]	[133..453]
gi\|218555748, gi... - gi\|218555748\|ref\|YP_002388661.1\| ATP-dependent metalloprotease [Escherichia coli IAI1], gi\|218362516... gi\|218358002, gi... - gi\|218550461\|ref\|YP_002384252.1\| ATP-dependent metalloprotease [Escherichia fergusonii ATCC 35469], ... gi\|218429032, gi... - gi\|218691468\|ref\|YP_002399680.1\| ATP-dependent metalloprotease [Escherichia coli ED1a], gi\|218429032... gi\|218367017, gi... - gi\|218560248\|ref\|YP_002393161.1\| ATP-dependent metalloprotease [Escherichia coli S88], gi\|218367017\|... gi\|218701947, gi... - gi\|218701947\|ref\|YP_002409576.1\| ATP-dependent metalloprotease [Escherichia coli IAI39], gi\|21837193... gi\|218696883, gi... - gi\|218696883\|ref\|YP_002404550.1\| ATP-dependent metalloprotease [Escherichia coli 55989], gi\|21835361... gi\|218706798, gi... - gi\|218706798\|ref\|YP_002414317.1\| ATP-dependent metalloprotease [Escherichia coli UMN026], gi\|2184338... FTSH_ECOLI - Cell division protease ftsH (EC 3.4.24.-) - Escherichia coli EG11506 - protease, ATP-dependent zinc-metallo / ATP-dependent membrane protease, complexed with HflCK; regula... FTSH_SHIFL - ATP-dependent zinc metalloprotease FtsH OS=Shigella flexneri GN=ftsH PE=3 SV=1 gi\|24053649, gi\|... - gi\|24114467\|ref\|NP_708977.1\| ATP-dependent metalloprotease [Shigella flexneri 2a str. 301], gi\|24053... gi\|30042775, gi\|... - gi\|30064516\|ref\|NP_838687.1\| ATP-dependent metalloprotease [Shigella flexneri 2a str. 2457T], gi\|300... EG11506 - protease, ATP-dependent zinc-metallo / ATP-dependent membrane protease, complexed with HflCK; regula... gi\|227887899, gi... - gi\|227887899\|ref\|ZP_04005704.1\| M41 family endopeptidase FtsH [Escherichia coli 83972], gi\|227835295... gi\|238863291, gi... - gi\|238902280\|ref\|YP_002928076.1\| protease, ATP-dependent zinc-metallo [Escherichia coli BW2952], gi\|... gi\|251786448, gi... - gi\|251786448\|ref\|YP_003000752.1\| hypothetical protein B21_02994 [Escherichia coli BL21], gi\|24237872... gi\|253975021, gi... - gi\|254163120\|ref\|YP_003046228.1\| protease, ATP-dependent zinc-metallo [Escherichia coli B str. REL60... gi\|253979177, gi... - gi\|254289870\|ref\|YP_003055618.1\| protease, ATP-dependent zinc-metallo [Escherichia coli BL21(DE3)], ... gi\|169890548, gi... - gi\|170082713\|ref\|YP_001732033.1\| subunit of integral membrane ATP-dependent zinc metallopeptidase [E... gi\|169753500, gi... - gi\|170018572\|ref\|YP_001723526.1\| ATP-dependent metalloprotease [Escherichia coli ATCC 8739], gi\|1697... gi\|215266566, gi... - gi\|215488494\|ref\|YP_002330925.1\| ATP-dependent metalloprotease [Escherichia coli O127:H6 str. E2348/... gi\|209920653, gi... - gi\|209920653\|ref\|YP_002294737.1\| ATP-dependent metalloprotease [Escherichia coli SE11], gi\|209913912... gi\|75197127 - gi\|75197127\|ref\|ZP_00707197.1\| COG0465: ATP-dependent Zn proteases [Escherichia coli HS] gi\|75208502 - gi\|75208502\|ref\|ZP_00708822.1\| COG0465: ATP-dependent Zn proteases [Escherichia coli B171] gi\|75187984 - gi\|75187984\|ref\|ZP_00701251.1\| COG0465: ATP-dependent Zn proteases [Escherichia coli E24377A] gi\|146028, gi\|89... - gi\|89109941\|ref\|AP_003721.1\| protease, ATP-dependent zinc-metallo [Escherichia coli str. K-12 substr... gi\|91074173, gi\|... - gi\|91212599\|ref\|YP_542585.1\| ATP-dependent metalloprotease [Escherichia coli UTI89], gi\|91074173\|gb\|... gi\|117625472, gi... - gi\|117625472\|ref\|YP_858795.1\| ATP-dependent metalloprotease [Escherichia coli APEC O1], gi\|115514596... gi\|110345010, gi... - gi\|110643418\|ref\|YP_671148.1\| ATP-dependent metalloprotease [Escherichia coli 536], gi\|110345010\|gb\|... gi\|75228765 - gi\|75228765\|ref\|ZP_00715374.1\| COG0465: ATP-dependent Zn proteases [Escherichia coli B7A] gi\|110616592, gi... - gi\|110807044\|ref\|YP_690564.1\| ATP-dependent metalloprotease [Shigella flexneri 5 str. 8401], gi\|1106... gi\|74313715, gi\|... - gi\|74313715\|ref\|YP_312134.1\| ATP-dependent metalloprotease [Shigella sonnei Ss046], gi\|73857192\|gb\|A...	2.0E-69	[57..417]	[133..453]
gi\|746401 - gi\|746401\|gb\|AAA97508.1\| ATP-binding protein gi\|188487047, gi... - gi\|188491848\|ref\|ZP_02999118.1\| ATP-dependent metallopeptidase HflB [Escherichia coli 53638], gi\|188... gi\|157068341, gi... - gi\|157162661\|ref\|YP_001459979.1\| ATP-dependent metalloprotease [Escherichia coli HS], gi\|157068341\|g... gi\|157080734, gi... - gi\|157158704\|ref\|YP_001464653.1\| ATP-dependent metalloprotease [Escherichia coli E24377A], gi\|157080... gi\|226839967, gi... - gi\|254038343\|ref\|ZP_04872401.1\| ATP-dependent metalloprotease [Escherichia sp. 1_1_43], gi\|226839967... gi\|253771988, gi... - gi\|253771988\|ref\|YP_003034819.1\| ATP-dependent metalloprotease FtsH [Escherichia coli BL21(DE3)], gi... gi\|237706070, gi... - gi\|237706070\|ref\|ZP_04536551.1\| ATP-dependent metalloprotease [Escherichia sp. 3_2_53FAA], gi\|226899... gi\|194411725, gi... - gi\|194430224\|ref\|ZP_03062722.1\| ATP-dependent metallopeptidase HflB [Escherichia coli B171], gi\|1944... tr\|A0A0G3HSQ2\|A0... - ATP-dependent zinc metalloprotease FtsH OS=Escherichia coli (strain K12) GN=ftsH PE=3 SV=1 gi\|191168060, gi... - gi\|191168060\|ref\|ZP_03029860.1\| ATP-dependent metallopeptidase HflB [Escherichia coli B7A], gi\|19090...	3.0E-69	[57..417]	[136..456]
FTSH_SALTI - Cell division protease ftsH OS=Salmonella typhi GN=hflB PE=3 SV=1 FTSH_SALTY - Cell division protease ftsH OS=Salmonella typhimurium GN=hflB PE=3 SV=1 gi\|214000933 - gi\|214000933\|ref\|ZP_03411668.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica s... gi\|224585091, gi... - gi\|224585091\|ref\|YP_002638890.1\| cell division protein [Salmonella enterica subsp. enterica serovar ... gi\|56129482, gi\|... - gi\|56415225\|ref\|YP_152300.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica sero... gi\|238910089 - gi\|238910089\|ref\|ZP_04653926.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica s... gi\|207858544, gi... - gi\|207858544\|ref\|YP_002245195.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica ... gi\|213052988 - gi\|213052988\|ref\|ZP_03345866.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica s... lcl\|NC_016856.1_... - [gene=hflB] [protein=ATP-dependent metalloprotease] [protein_id=YP_005239474.1] [location=complement... gi\|213425426 - gi\|213425426\|ref\|ZP_03358176.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica s... gi\|213852786 - gi\|213852786\|ref\|ZP_03382318.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica s... gi\|29143547, gi\|... - gi\|29143547\|ref\|NP_806889.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica sero... gi\|160867488, gi... - gi\|161506141\|ref\|YP_001573253.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. arizonae ... FTSH_SALTY - ATP-dependent zinc metalloprotease FtsH OS=Salmonella typhimurium GN=ftsH PE=3 SV=1 gi\|16762058 - gi\|16762058\|ref\|NP_457675.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica sero... gi\|161616303, gi... - gi\|161616303\|ref\|YP_001590268.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica ... FTSH_SALTI - ATP-dependent zinc metalloprotease FtsH OS=Salmonella typhi GN=ftsH PE=3 SV=1 gi\|197364155, gi... - gi\|197364155\|ref\|YP_002143792.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica ... FTSH_SALTY - ATP-dependent zinc metalloprotease FtsH OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 7007... gi\|205273978, gi... - gi\|205354197\|ref\|YP_002227998.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica ...	3.0E-69	[57..417]	[133..453]

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Predicted Domain #1

Region A:
Residues: [1-69]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDSTNLNKRP LLQYSLSSLG SQITKWSSSR PTSPVRKARS TENDFLSKQD TSSILPSIND  60
   61 DGGEQWYEK

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [268-419]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 INSTLLKKHL KFICVQNMKM LKEKNKWNKR QEVIDYIAQE TGDIRSAITT LQFWATSSGS  60
   61 LPISTRESTI SYFHAIGKVI HGSHSTNNDN EMINNLFENS NNLLSKEDFK LGILENYNTF 120
  121 NKGEFSISDA SSIVDCLSEC DNMNGLPESN EY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	56.0
Match:	1jr3A_
Description:	gamma subunit; gamma subunit of DNA polymerase III, N-domain
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [70-267]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FKPNCLEQVA IHKRKLKDVQ EALDAMFLPN AKHRILLLSG PSGCSKSTVI KELSKILVPK  60
   61 YRQNSNGTSF RSTPNEHKVT EFRGDCIVND LPQMESFSEF LKGARYLVMS NLSLILIEDL 120
  121 PNVFHIDTRR RFQQLILQWL YSSEPLLPPL VICITECEIP ENDNNYRKFG IDYTFSAETI 180
  181 MNKEILMHPR LKRIKFNP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	56.0
Match:	1jr3A_
Description:	gamma subunit; gamma subunit of DNA polymerase III, N-domain
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [420-659]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GLREVRKTFR NISKQGHNHG TVYFPREWKV RKLQNSFKVQ AEDWLNVSLY KYNAVHSFRN  60
   61 ITLEFGYYAP LIRKCQSYKK KYILYYLKNL PSGSSGPKQT MDKFSDIMKV ENGIDVVDRI 120
  121 GGPIEALSVE DGLAPLMDND SNNCDHLEDQ KKERDRRLRM LIDQYERNVM MANDDLEDEE 180
  181 TSFNDDPIVD SDSDNSNNIG NETFGRSDED ESLCEILSQR QPRKAPVISE SLSDSDLEIL 240
  241

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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