YRC Public Data Repository - Protein Structure Prediction

Protein:	JID1
Organism:	Saccharomyces cerevisiae
Length:	301 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 JID1.

Description	E-value	Query Range	Subject Range
JID1 - Probable Hsp40p co-chaperone, has a DnaJ-like domain and appears to be involved in ER-associated deg... JID1_YEAST - J domain-containing protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=JID1 PE=1 ... gi\|190407998 - gi\|190407998\|gb\|EDV11263.1\| conserved hypothetical protein [Saccharomyces cerevisiae RM11-1a]	0.0	[1..301]	[1..301]
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	2.0E-44	[54..247]	[1..165]
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...	5.0E-44	[54..247]	[1..165]
DNAJ_SHIF8 - Chaperone protein DnaJ OS=Shigella flexneri serotype 5b (strain 8401) GN=dnaJ PE=3 SV=1 gi\|30061585, gi\|... - gi\|30061585\|ref\|NP_835756.1\| chaperone protein DnaJ [Shigella flexneri 2a str. 2457T], gi\|30039827\|g...	6.0E-44	[54..247]	[1..165]
gi\|22298332, gi\|... - gi\|22298332\|ref\|NP_681579.1\| heat shock protein [Thermosynechococcus elongatus BP-1], gi\|22294511\|db...	2.0E-43	[53..244]	[1..163]
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	2.0E-43	[54..247]	[1..168]
gi\|89256513, gi\|... - gi\|89256513\|ref\|YP_513875.1\| heat shock protein DnaJ [Francisella tularensis subsp. holarctica], gi\|... DNAJ_FRATU - Chaperone protein DnaJ OS=Francisella tularensis GN=dnaJ PE=3 SV=1 DNAJ_FRATH - Chaperone protein DnaJ OS=Francisella tularensis subsp. holarctica (strain LVS) GN=dnaJ PE=3 SV=1 gi\|167010479 - gi\|167010479\|ref\|ZP_02275410.1\| chaperone DnaJ [Francisella tularensis subsp. holarctica FSC200]	3.0E-43	[54..247]	[1..160]
gi\|113537157, gi... - gi\|115447693\|ref\|NP_001047626.1\| Os02g0656500 [Oryza sativa (japonica cultivar-group)], gi\|113537157... gi\|14140154 - gi\|14140154\|emb\|CAC39071.1\| DnaJ-like protein [Oryza sativa]	1.0E-42	[52..247]	[7..167]
gi\|311086467\|gb\|... - chaperone protein DnaJ [Buchnera aphidicola str. TLW03 (Acyrthosiphon pisum)] DNAJ_BUCA5 - Chaperone protein DnaJ OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain 5A) GN=dnaJ PE=3 SV... gi\|311085894\|gb\|... - chaperone protein DnaJ [Buchnera aphidicola str. LL01 (Acyrthosiphon pisum)] DNAJ_BUCAI - Chaperone protein dnaJ OS=Buchnera aphidicola subsp. Acyrthosiphon pisum GN=dnaJ PE=3 SV=2 gi\|25296014 - gi\|25296014\|pir\|\|F84947 dnaJ protein [imported] - Buchnera sp. (strain APS) DNAJ_BUCAI - Chaperone protein DnaJ OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=dnaJ PE=3 S... gi\|257471208\|ref... - DnaJ protein [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)]	1.0E-42	[54..247]	[1..166]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	3.0E-42	[54..247]	[1..166]

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Predicted Domain #1

Region A:
Residues: [1-198]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLHHKFVYPF LFKWHLSCVE KCPPQITFIA KYATANDKNG NRKLTIRDEQ WPELADPTPY  60
   61 DIFGIPKAGS GNPKLDKKSL KKKYHRYVKL YHPDHSDNIQ IFSSEKVTNS DSKSPLLLTS 120
  121 SEKLHRFKVI SQAYDILCDP KKKIVYDTTR QGWTTSYSPR SNVNTENYQY AGSYGYHSNA 180
  181 QYEYWNAGTW EDANSMKN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.39794
Match:	1xbl__
Description:	DnaJ chaperone, N-terminal (J) domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	0.823553393353769	bayes_pls_golite062009
protein binding	0.40147996507406	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [199-301]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ERIQENINPW TVIGIICGLA ICIEGTALLA KIQESLSKAE FTHDESGLHL IQSYTNYGLD  60
   61 TDKFSRLRRF LWFRTWGLYK SKEDLDREAK INEEMIRKLK AAK

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.782	0.001	mitochondrion	a.52.1	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View	Download	0.697	0.001	mitochondrion	a.96.1	DNA-glycosylase
View	Download	0.787	0.001	mitochondrion	d.96.1	Tetrahydrobiopterin biosynthesis enzymes-like
View	Download	0.824	0.001	mitochondrion	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain
View	Download	0.607	0.001	mitochondrion	a.74.1	Cyclin-like
View	Download	0.596	0.001	mitochondrion	a.56.1	CO dehydrogenase ISP C-domain like
View	Download	0.567	0.001	mitochondrion	a.24.13	Domain of the SRP/SRP receptor G-proteins
View	Download	0.536	0.001	mitochondrion	a.39.1	EF-hand
View	Download	0.468	0.001	mitochondrion	a.81.1	N-terminal domain of DnaB helicase
View	Download	0.445	0.001	mitochondrion	a.48.3	Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
View	Download	0.440	0.001	mitochondrion	a.13.1	alpha-2-Macroglobulin receptor associated protein (RAP) domain 1
View	Download	0.432	0.001	mitochondrion	a.74.1	Cyclin-like
View	Download	0.409	0.001	mitochondrion	a.60.9	lambda integrase-like, N-terminal domain
View	Download	0.407	0.001	mitochondrion	a.11.2	Second domain of FERM
View	Download	0.359	0.001	mitochondrion	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.340	0.001	mitochondrion	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.329	0.001	mitochondrion	a.74.1	Cyclin-like
View	Download	0.326	0.001	mitochondrion	d.54.1	Enolase N-terminal domain-like
View	Download	0.323	0.001	mitochondrion	d.92.1	Metalloproteases ("zincins"), catalytic domain
View	Download	0.313	0.001	mitochondrion	a.4.6	C-terminal effector domain of the bipartite response regulators
View	Download	0.310	0.001	mitochondrion	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.310	0.001	mitochondrion	a.3.1	Cytochrome c
View	Download	0.297	0.001	mitochondrion	a.61.1	Retroviral matrix proteins
View	Download	0.288	0.001	mitochondrion	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.287	0.001	mitochondrion	a.4.1	Homeodomain-like
View	Download	0.287	0.001	mitochondrion	a.44.1	Disulphide-bond formation facilitator (DSBA), insertion domain
View	Download	0.286	0.001	mitochondrion	a.85.1	Hemocyanin, N-terminal domain
View	Download	0.277	0.001	mitochondrion	a.24.13	Domain of the SRP/SRP receptor G-proteins
View	Download	0.269	0.001	mitochondrion	a.60.9	lambda integrase-like, N-terminal domain
View	Download	0.268	0.001	mitochondrion	a.118.9	ENTH/VHS domain
View	Download	0.265	0.001	mitochondrion	a.19.1	Fertilization protein
View	Download	0.263	0.001	mitochondrion	a.71.1	Endoplasmic reticulum protein ERP29, C-domain
View	Download	0.263	0.001	mitochondrion	a.24.13	Domain of the SRP/SRP receptor G-proteins
View	Download	0.258	0.001	mitochondrion	a.118.11	Cytochrome c oxidase subunit E
View	Download	0.258	0.001	mitochondrion	d.14.1	Ribosomal protein S5 domain 2-like
View	Download	0.249	0.001	mitochondrion	a.23.4	Mitochondrial import receptor subunit Tom20
View	Download	0.249	0.001	mitochondrion	a.36.1	Signal peptide-binding domain
View	Download	0.245	0.001	mitochondrion	a.74.1	Cyclin-like
View	Download	0.245	0.001	mitochondrion	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.237	0.001	mitochondrion	a.77.1	DEATH domain
View	Download	0.234	0.001	mitochondrion	a.142.1	PTS-regulatory domain, PRD
View	Download	0.233	0.001	mitochondrion	a.133.1	Phospholipase A2, PLA2
View	Download	0.230	0.001	mitochondrion	a.46.1	Methionine synthase domain
View	Download	0.224	0.001	mitochondrion	a.74.1	Cyclin-like
View	Download	0.224	0.001	mitochondrion	a.165.1	Myosin phosphatase inhibitor 17kDa protein, CPI-17
View	Download	0.222	0.001	mitochondrion	a.118.8	TPR-like
View	Download	0.220	0.001	mitochondrion	d.87.1	FAD/NAD-linked reductases, dimerisation (C-terminal) domain
View	Download	0.218	0.001	mitochondrion	a.4.1	Homeodomain-like
View	Download	0.210	0.001	mitochondrion	a.74.1	Cyclin-like
View	Download	0.210	0.001	mitochondrion	a.24.15	FAD-dependent thiol oxidase
View	Download	0.205	0.001	mitochondrion	a.12.1	Kix domain of CBP (creb binding protein)
View	Download	0.205	0.001	mitochondrion	a.24.17	Group V grass pollen allergen
View	Download	0.205	0.001	mitochondrion	d.80.1	Tautomerase/MIF
View	Download	0.202	0.001	mitochondrion	a.24.7	FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP)
View	Download	0.202	0.001	mitochondrion	a.61.1	Retroviral matrix proteins
View	Download	0.200	0.001	mitochondrion	a.7.2	Enzyme IIa from lactose specific PTS, IIa-lac

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: