YRC Public Data Repository - Protein Structure Prediction

Protein:	MDJ1
Organism:	Saccharomyces cerevisiae
Length:	511 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 MDJ1.

Description	E-value	Query Range	Subject Range
MDJ1 - Co-chaperone that stimulates the ATPase activity of the HSP70 protein Ssc1p; involved in protein fol... MDJ1_YEAST - DnaJ homolog 1, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MDJ1 PE=1 ...	0.0	[1..511]	[1..511]
DNAJ_GEOTM - Chaperone protein DnaJ OS=Geobacillus thermoglucosidasius GN=dnaJ PE=3 SV=1	0.0	[58..473]	[2..380]
gi\|188495716, gi... - gi\|75515606\|ref\|ZP_00737763.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom... gi\|168785065, gi... - gi\|189374927\|gb\|EDU93343.1\| chaperone protein DnaJ [Escherichia coli O157:H7 str. EC869], gi\|1687850... sp\|B7UI60\|DNAJ_ECO27 - Chaperone protein dnaJ OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=dnaJ PE=3 SV=1 DNAJ_SHISS - Chaperone protein DnaJ OS=Shigella sonnei (strain Ss046) GN=dnaJ PE=3 SV=1 gi\|168762775, gi... - gi\|189366928\|gb\|EDU85344.1\| chaperone protein DnaJ [Escherichia coli O157:H7 str. EC4501], gi\|168762... gi\|192956076, gi... - gi\|75234578\|ref\|ZP_00718919.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom... DNAJ_ECOSM - Chaperone protein DnaJ OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=dnaJ PE=3 SV=1 gi\|193065637, gi... - gi\|75256327\|ref\|ZP_00727999.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom... gi\|189379547, gi... - gi\|189379547\|gb\|EDU97963.1\| chaperone protein DnaJ [Escherichia coli O157:H7 str. EC508], gi\|1687979... DNAJ_ECO27 - Chaperone protein DnaJ OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=dnaJ PE=3 SV=1 DNAJ_ECOSE - Chaperone protein DnaJ OS=Escherichia coli (strain SE11) GN=dnaJ PE=3 SV=1 DNAJ_ECOL6 - Chaperone protein DnaJ OS=Escherichia coli O6 GN=dnaJ PE=2 SV=3 DNAJ_ESCF3 - Chaperone protein DnaJ OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73) GN=dn... gi\|217325343, gi... - gi\|217325343\|ref\|ZP_03441427.1\| chaperone protein DnaJ [Escherichia coli O157:H7 str. TW14588], gi\|2... DNAJ_ECOUT - Chaperone protein DnaJ OS=Escherichia coli (strain UTI89 / UPEC) GN=dnaJ PE=3 SV=1 gi\|15829269, gi\|... - gi\|15829269\|ref\|NP_308042.1\| chaperone protein DnaJ [Escherichia coli O157:H7 str. Sakai], gi\|133594... gi\|75229476, gi\|... - gi\|75229476\|ref\|ZP_00716026.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom... gi\|75235742, gi\|... - gi\|75235742\|ref\|ZP_00719906.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom... DNAJ_ECO24 - Chaperone protein DnaJ OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=dnaJ PE=3 SV=1 DNAJ_ECOHS - Chaperone protein DnaJ OS=Escherichia coli O9:H4 (strain HS) GN=dnaJ PE=3 SV=1 gi\|209747186, gi... - pir\|\|G85481 chaperone with DnaK, heat shock protein [imported] - Escherichia coli (strain O157:H7, s... DNAJ_ECO57 - Chaperone protein DnaJ OS=Escherichia coli O157:H7 GN=dnaJ PE=3 SV=3 DNAJ_ECOL6 - Chaperone protein DnaJ OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=dnaJ PE=3 S... DNAJ_ECO45 - Chaperone protein DnaJ OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=dnaJ PE=3 SV=1 gi\|12512693, gi\|... - gi\|15799695\|ref\|NP_285707.1\| chaperone protein DnaJ [Escherichia coli O157:H7 EDL933], gi\|12512693\|g... DNAJ_ECO8A - Chaperone protein DnaJ OS=Escherichia coli O8 (strain IAI1) GN=dnaJ PE=3 SV=1 DNAJ_ECO55 - Chaperone protein DnaJ OS=Escherichia coli (strain 55989 / EAEC) GN=dnaJ PE=3 SV=1 DNAJ_ECO81 - Chaperone protein DnaJ OS=Escherichia coli O81 (strain ED1a) GN=dnaJ PE=3 SV=1 DNAJ_ECOLU - Chaperone protein DnaJ OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=dnaJ PE=3 SV=1 DNAJ_ECO7I - Chaperone protein DnaJ OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=dnaJ PE=3 SV=1 gi\|227837919, gi... - gi\|227885090\|ref\|ZP_04002895.1\| chaperone protein DnaJ [Escherichia coli 83972], gi\|227837919\|gb\|EEJ... gi\|229560216 - gi\|229560216\|ref\|YP_667956.2\| chaperone protein DnaJ [Escherichia coli 536] gi\|229775981 - gi\|229775981\|ref\|YP_851221.2\| chaperone protein DnaJ [Escherichia coli APEC O1] DNAJ_ECOLC - Chaperone protein DnaJ OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=dnaJ PE=3 SV=1	0.0	[58..470]	[2..372]
gi\|107103857 - gi\|107103857\|ref\|ZP_01367775.1\| hypothetical protein PaerPA_01004928 [Pseudomonas aeruginosa PACS2] DNAJ_PSEA8 - Chaperone protein DnaJ OS=Pseudomonas aeruginosa (strain LESB58) GN=dnaJ PE=3 SV=1 DNAJ_PSEAE - Chaperone protein dnaJ OS=Pseudomonas aeruginosa GN=dnaJ PE=3 SV=1 DNAJ_PSEAB - Chaperone protein DnaJ OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=dnaJ PE=3 SV=1 DNAJ_PSEAE - Chaperone protein DnaJ OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 1222... gi\|194549490, gi... - gi\|84317360\|ref\|ZP_00965808.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom... gi\|126197717, gi... - gi\|84323584\|ref\|ZP_00971653.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom...	0.0	[58..470]	[2..375]
gi\|89106899, gi\|... - gi\|89106899\|ref\|AP_000679.1\| chaperone Hsp40, co-chaperone with DnaK [Escherichia coli str. K-12 sub... DNAJ_ECODH - Chaperone protein DnaJ OS=Escherichia coli (strain K12 / DH10B) GN=dnaJ PE=3 SV=1 DNAJ_ECOLI - Chaperone protein dnaJ (Heat shock protein J) (HSP40) - Escherichia coli EG10240 - chaperone Hsp40, DnaK co-chaperone / DnaK co-chaperone HSP40; DNA-binding protein; stress-related DN... EG10240 - chaperone Hsp40, DnaK co-chaperone / DnaK co-chaperone HSP40; DNA-binding protein; stress-related DN...	0.0	[58..470]	[2..372]
DNAJ_SALCH - Chaperone protein DnaJ OS=Salmonella choleraesuis GN=dnaJ PE=3 SV=3 DNAJ_SALTY - Chaperone protein DnaJ OS=Salmonella typhimurium GN=dnaJ PE=2 SV=2 DNAJ_SALPB - Chaperone protein dnaJ OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=dnaJ PE=3 SV=1 gi\|168234750, gi... - gi\|197292013\|gb\|EDY31363.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar Schw... gi\|205335216, gi... - gi\|205335216\|gb\|EDZ21980.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar Kent... gi\|205331430, gi... - gi\|205331430\|gb\|EDZ18194.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar 4,[5... gi\|167552158, gi... - gi\|205323117\|gb\|EDZ10956.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar Sain... lcl\|NC_016856.1_... - [gene=dnaJ] [protein=chaperone protein DnaJ] [protein_id=YP_005235647.1] [location=13595..14734] DNAJ_SALTI - Chaperone protein DnaJ OS=Salmonella typhi GN=dnaJ PE=3 SV=2 DNAJ_SALTY - Chaperone protein DnaJ OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=dnaJ PE=3 ... DNAJ_SALTI - Chaperone protein dnaJ OS=Salmonella typhi GN=dnaJ PE=2 SV=2 DNAJ_SALTY - Chaperone protein dnaJ OS=Salmonella typhimurium GN=dnaJ PE=2 SV=2 gi\|200386746, gi... - gi\|200386746\|ref\|ZP_03213358.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... DNAJ_SALDC - Chaperone protein DnaJ OS=Salmonella dublin (strain CT_02021853) GN=dnaJ PE=3 SV=1 gi\|238910770 - gi\|238910770\|ref\|ZP_04654607.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... gi\|197261782, gi... - gi\|197261782\|ref\|ZP_03161856.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... DNAJ_SALA4 - Chaperone protein DnaJ OS=Salmonella agona (strain SL483) GN=dnaJ PE=3 SV=1 gi\|213052055 - gi\|213052055\|ref\|ZP_03344933.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... DNAJ_SALEP - Chaperone protein DnaJ OS=Salmonella enteritidis PT4 (strain P125109) GN=dnaJ PE=3 SV=1 DNAJ_SALG2 - Chaperone protein DnaJ OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=dnaJ PE=3 SV=1 gi\|204927085, gi... - gi\|204927085\|ref\|ZP_03218287.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... gi\|168822157, gi... - gi\|205341422\|gb\|EDZ28186.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar Welt... gi\|168464463, gi... - gi\|195633028\|gb\|EDX51482.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar Newp... gi\|205348796, gi... - gi\|205348796\|gb\|EDZ35427.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar Hada... gi\|168244484, gi... - gi\|205336608\|gb\|EDZ23372.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar Heid... DNAJ_SALSV - Chaperone protein DnaJ OS=Salmonella schwarzengrund (strain CVM19633) GN=dnaJ PE=3 SV=1 gi\|194455583, gi... - gi\|194469219\|ref\|ZP_03075203.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... DNAJ_SALHS - Chaperone protein DnaJ OS=Salmonella heidelberg (strain SL476) GN=dnaJ PE=3 SV=1 DNAJ_SALNS - Chaperone protein DnaJ OS=Salmonella newport (strain SL254) GN=dnaJ PE=3 SV=1 gi\|213864898 - gi\|213864898\|ref\|ZP_03387017.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... gi\|213647263 - gi\|213647263\|ref\|ZP_03377316.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... gi\|213616376 - gi\|213616376\|ref\|ZP_03372202.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... gi\|213426531 - gi\|213426531\|ref\|ZP_03359281.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... DNAJ_SALPC - Chaperone protein DnaJ OS=Salmonella paratyphi C (strain RKS4594) GN=dnaJ PE=3 SV=1 gi\|214001206 - gi\|214001206\|ref\|ZP_03411941.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar ... gi\|29136180, gi\|... - gi\|29140556\|ref\|NP_803898.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar Typ... gi\|16759006 - gi\|16759006\|ref\|NP_454623.1\| chaperone protein DnaJ [Salmonella enterica subsp. enterica serovar Typ... DNAJ_SALPB - Chaperone protein DnaJ OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=dnaJ PE=3 SV=1 DNAJ_SALCH - Chaperone protein DnaJ OS=Salmonella choleraesuis (strain SC-B67) GN=dnaJ PE=3 SV=3 DNAJ_SALCH - Chaperone protein dnaJ OS=Salmonella choleraesuis GN=dnaJ PE=3 SV=3	0.0	[58..470]	[2..375]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[6..508]	[14..496]
DNAJ_RHIME - Chaperone protein DnaJ OS=Rhizobium meliloti (strain 1021) GN=dnaJ PE=3 SV=1 DNAJ_RHIME - Chaperone protein dnaJ OS=Rhizobium meliloti GN=dnaJ PE=3 SV=1	0.0	[59..472]	[2..374]
DNAJ_YERPA - Chaperone protein DnaJ OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=dnaJ PE=3 SV=1 gi\|166009061, gi... - gi\|166009061\|ref\|ZP_02229959.1\| chaperone protein DnaJ [Yersinia pestis biovar Antiqua str. E1979001... DNAJ_YERPN - Chaperone protein DnaJ OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=dnaJ PE=3 SV=1 gi\|165927315, gi... - gi\|165927315\|ref\|ZP_02223147.1\| chaperone protein DnaJ [Yersinia pestis biovar Orientalis str. F1991... gi\|167048930, gi... - gi\|167401548\|ref\|ZP_02307042.1\| chaperone protein DnaJ [Yersinia pestis biovar Antiqua str. UG05-045... gi\|166212081, gi... - gi\|166212081\|ref\|ZP_02238116.1\| chaperone protein DnaJ [Yersinia pestis biovar Antiqua str. B4200300... gi\|167054956, gi... - gi\|167426033\|ref\|ZP_02317786.1\| chaperone protein DnaJ [Yersinia pestis biovar Mediaevalis str. K197... gi\|166963234, gi... - gi\|167419240\|ref\|ZP_02310993.1\| chaperone protein DnaJ [Yersinia pestis biovar Orientalis str. MG05-... DNAJ_YERPB - Chaperone protein DnaJ OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=dnaJ PE=3 SV=1 gi\|89102681, gi\|... - gi\|89102681\|ref\|ZP_01175297.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom... DNAJ_YERPY - Chaperone protein DnaJ OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=dnaJ PE=3 SV=1 DNAJ_YERPS - Chaperone protein DnaJ OS=Yersinia pseudotuberculosis GN=dnaJ PE=3 SV=1 DNAJ_YERPG - Chaperone protein DnaJ OS=Yersinia pestis bv. Antiqua (strain Angola) GN=dnaJ PE=3 SV=1 DNAJ_YERPE - Chaperone protein DnaJ OS=Yersinia pestis GN=dnaJ PE=3 SV=1 gi\|149289903, gi... - gi\|150260495\|ref\|ZP_01917223.1\| chaperone protein DnaJ [Yersinia pestis CA88-4125], gi\|149289903\|gb\|... gi\|229836948, gi... - gi\|229836948\|ref\|ZP_04457113.1\| chaperone Hsp40, co-chaperone with DnaK [Yersinia pestis Pestoides A... gi\|45438312, gi\|... - gi\|45443443\|ref\|NP_994982.1\| chaperone protein DnaJ [Yersinia pestis biovar Microtus str. 91001], gi... DNAJ_YERPP - Chaperone protein DnaJ OS=Yersinia pestis (strain Pestoides F) GN=dnaJ PE=3 SV=1 gi\|229696722, gi... - gi\|229840356\|ref\|ZP_04460515.1\| chaperone Hsp40, co-chaperone with DnaK [Yersinia pestis biovar Orie... gi\|21960686, gi\|... - gi\|22127579\|ref\|NP_671002.1\| chaperone protein DnaJ [Yersinia pestis KIM], gi\|21960686\|gb\|AAM87253.1... gi\|229842436, gi... - gi\|229842436\|ref\|ZP_04462591.1\| chaperone Hsp40, co-chaperone with DnaK [Yersinia pestis biovar Orie... gi\|16120798, gi\|... - gi\|218927666\|ref\|YP_002345541.1\| chaperone protein DnaJ [Yersinia pestis CO92], gi\|16120798\|ref\|NP_4... DNAJ_YERPS - Chaperone protein DnaJ OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=dnaJ PE=3 SV=1	0.0	[58..470]	[2..375]
gi\|110739057, gi... - gi\|30699483\|ref\|NP_849911.1\| DNAJ heat shock protein, putative [Arabidopsis thaliana], gi\|30699481\|r...	0.0	[3..508]	[9..498]

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Predicted Domain #1

Region A:
Residues: [1-180]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAFQQGVLSR CSGVFRHHVG HSRHINNILY RHAIAFASIA PRIPKSSFHT SAIRNNEAFK  60
   61 DPYDTLGLKK SATGAEIKKA YYKLAKKYHP DINKEPDAEK KFHDLQNAYE ILSDETKRQQ 120
  121 YDQFGPAAFG GGGAAGGAGG GSGSPFGSQF HDFSGFTSAG GSPFGGINFE DLFGAAFGGG 180
  181

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	169.0
Match:	1xbl__
Description:	DnaJ chaperone, N-terminal (J) domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
unfolded protein binding	3.04403163860617	bayes_pls_golite062009
chaperone binding	2.86745334638583	bayes_pls_golite062009
protein binding	2.65982681685488	bayes_pls_golite062009
binding	2.63138872417193	bayes_pls_golite062009
transcription regulator activity	2.31739509739943	bayes_pls_golite062009
heat shock protein binding	2.17994194200939	bayes_pls_golite062009
DNA binding	1.88444505115207	bayes_pls_golite062009
nucleic acid binding	1.73387701301727	bayes_pls_golite062009
transporter activity	1.29863098651348	bayes_pls_golite062009
nucleoside-triphosphatase regulator activity	0.927337691912581	bayes_pls_golite062009
substrate-specific transporter activity	0.812144232432417	bayes_pls_golite062009
enzyme regulator activity	0.675735261884317	bayes_pls_golite062009
protein transporter activity	0.599800483479766	bayes_pls_golite062009
Hsp70 protein binding	0.541755903922701	bayes_pls_golite062009
GTPase regulator activity	0.130185025729857	bayes_pls_golite062009
catalytic activity	0.106988907594358	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [181-296]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GRGSGGASRS SSMFRQYRGD PIEIVHKVSF KDAVFGSKNV QLRFSALDPC STCSGTGMKP  60
   61 NTHKVSCSTC HGTGTTVHIR GGFQMMSTCP TCNGEGTMKR PQDNCTKCHG EGVQVN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	142.64593
Match:	1exkA_
Description:	Cysteine-rich domain of the chaperone protein DnaJ.
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.7298921704023	bayes_pls_golite062009
protein binding	2.6297172985864	bayes_pls_golite062009
unfolded protein binding	2.04158808514315	bayes_pls_golite062009
nucleoside-triphosphatase regulator activity	0.594882036388263	bayes_pls_golite062009
receptor binding	0.395342079633271	bayes_pls_golite062009
enzyme regulator activity	0.301226589648736	bayes_pls_golite062009
protein disulfide isomerase activity	0.290861970307477	bayes_pls_golite062009
intramolecular oxidoreductase activity, transposing S-S bonds	0.290861970307477	bayes_pls_golite062009
catalytic activity	0.276917867171685	bayes_pls_golite062009
intramolecular oxidoreductase activity, interconverting keto- and enol-groups	0.0964866497718595	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [297-511]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RAKTITVDLP HGLQDGDVVR IPGQGSYPDI AVEADLKDSV KLSRGDILVR IRVDKDPNFS  60
   61 IKNKYDIWYD KEIPITTAAL GGTVTIPTVE GQKIRIKVAP GTQYNQVISI PNMGVPKTST 120
  121 IRGDMKVQYK IVVKKPQSLA EKCLWEALAD VTNDDMAKKT MQPGTAAGTA INEEILKKQK 180
  181 QEEEKHAKKD DDNTLKRLEN FITNTFRKIK GDKKN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	22.30103
Match:	1c3gA_
Description:	Heat shock protein 40 Sis1
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:

Predicted functions: