YRC Public Data Repository - Protein Structure Prediction

Protein:	ARB1
Organism:	Saccharomyces cerevisiae
Length:	610 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 ARB1.

Description	E-value	Query Range	Subject Range
gi\|190405597 - gi\|190405597\|gb\|EDV08864.1\| shuttling protein [Saccharomyces cerevisiae RM11-1a] ARB1_YEAST - ABC transporter ATP-binding protein ARB1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN... ARB1 - ATPase of the ATP-binding cassette (ABC) family involved in 40S and 60S ribosome biogenesis, has sim... gi\|151944746 - gi\|151944746\|gb\|EDN63005.1\| Shuttling protein, ATP binding cassette protein [Saccharomyces cerevisia... gi\|207345989 - gi\|207345989\|gb\|EDZ72622.1\| YER036Cp-like protein [Saccharomyces cerevisiae AWRI1631]	0.0	[1..610]	[1..610]
gi\|7445594, gi\|4... - pir\|\|T08810 probable ABC-type transport protein DKFZp586K1823.1 - human, gi\|51105923\|gb\|EAL24507.1\|...	0.0	[1..609]	[1..610]
gi\|54035534 - gb\|AAH83963.1\| Unknown (protein for MGC:97993) [Xenopus laevis] ABCF2_MOUSE - ATP-binding cassette sub-family F member 2 OS=Mus musculus GN=Abcf2 PE=1 SV=1	0.0	[1..609]	[1..615]
gi\|229689190, gi... - gi\|229843582\|ref\|ZP_04463725.1\| putative ABC transporter with two ATP-binding domains [Yersinia pest... gi\|229703712, gi... - gi\|229894314\|ref\|ZP_04509497.1\| putative ABC transporter with two ATP-binding domains [Yersinia pest... gi\|167050218, gi... - gi\|167400269\|ref\|ZP_02305782.1\| ABC transporter, ATP-binding protein [Yersinia pestis biovar Antiqua... gi\|229697836, gi... - gi\|229841470\|ref\|ZP_04461629.1\| putative ABC transporter with two ATP-binding domains [Yersinia pest... gi\|229903045, gi... - gi\|229903045\|ref\|ZP_04518161.1\| putative ABC transporter with two ATP-binding domains [Yersinia pest... gi\|149290913, gi... - gi\|149366539\|ref\|ZP_01888573.1\| ABC transporter ATP-binding protein [Yersinia pestis CA88-4125], gi\|... gi\|25384361 - pir\|\|AG0181 ABC transporter ATP-binding protein YPO1491 [imported] - Yersinia pestis (strain CO92) gi\|115347243, gi... - gi\|218928632\|ref\|YP_002346507.1\| ABC transporter ATP-binding protein [Yersinia pestis CO92], gi\|1612...	0.0	[81..604]	[1..527]
gi\|66808447, gi\|... - gi\|66808447\|ref\|XP_637946.1\| ABC transporter-related protein [Dictyostelium discoideum AX4], gi\|6046... gi\|19401856, gi\|... - gi\|60466383\|gb\|EAL64440.1\| non-transporter ABC protein [Dictyostelium discoideum], gi\|19401856\|gb\|AA...	0.0	[21..602]	[124..703]
gi\|110342616, gi... - gi\|110641024\|ref\|YP_668752.1\| ABC transporter ATP-binding protein [Escherichia coli 536], gi\|1103426... gi\|218369179, gi... - gi\|218699193\|ref\|YP_002406822.1\| putative transporter fused subunits of ABC superfamily: ATP-binding... gi\|218694293, gi... - gi\|218694293\|ref\|YP_002401960.1\| putative transporter fused subunits of ABC superfamily: ATP-binding... gi\|218688604, gi... - gi\|218688604\|ref\|YP_002396816.1\| putative transporter fused subunits of ABC superfamily: ATP-binding... gi\|218557725, gi... - gi\|218557725\|ref\|YP_002390638.1\| putative transporter fused subunits of ABC superfamily: ATP-binding... gi\|227884215, gi... - gi\|227884215\|ref\|ZP_04002020.1\| ABC superfamily ATP binding cassette transporter, ABC protein [Esche... gi\|251784339, gi... - gi\|251784339\|ref\|YP_002998643.1\| hypothetical protein B21_00804 [Escherichia coli BL21], gi\|24237661... gi\|238861243, gi... - gi\|238900079\|ref\|YP_002925875.1\| fused putative transporter subunits of ABC superfamily: ATP-binding... gi\|254160897, gi... - gi\|254160897\|ref\|YP_003044005.1\| fused predicted transporter subunits of ABC superfamily: ATP-bindin... gi\|253325221, gi... - gi\|254287711\|ref\|YP_003053459.1\| fused predicted transporter subunits of ABC superfamily: ATP-bindin... gi\|254792016, gi... - gi\|254792016\|ref\|YP_003076853.1\| putative ABC transporter with two ATP-binding domains [Escherichia ... gi\|189377736, gi... - gi\|189377736\|gb\|EDU96152.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. EC50... gi\|168787039, gi... - gi\|189373182\|gb\|EDU91598.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. EC86... gi\|189003005, gi... - gi\|189003005\|gb\|EDU71991.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. EC40... gi\|168776359, gi... - gi\|187768209\|gb\|EDU32053.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. EC41... gi\|188487627, gi... - gi\|188492428\|ref\|ZP_02999698.1\| ABC transporter, ATP-binding protein [Escherichia coli 53638], gi\|18... gi\|170681928, gi... - gi\|170681928\|ref\|YP_001742924.1\| ABC transporter, ATP-binding protein [Escherichia coli SMS-3-5], gi... gi\|169888314, gi... - gi\|170080479\|ref\|YP_001729799.1\| ABC transporter ATP-binding protein [Escherichia coli str. K-12 sub... gi\|170020824, gi... - gi\|170020824\|ref\|YP_001725778.1\| ABC transporter related [Escherichia coli ATCC 8739], gi\|169755752\|... gi\|168767328, gi... - gi\|189363419\|gb\|EDU81838.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. EC44... gi\|168763332, gi... - gi\|189366538\|gb\|EDU84954.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. EC45... gi\|168756612, gi... - gi\|189356248\|gb\|EDU74667.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. EC44... gi\|168750002, gi... - gi\|188015687\|gb\|EDU53809.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. EC41... gi\|209918068, gi... - gi\|209918068\|ref\|YP_002292152.1\| ABC transporter ATP-binding component [Escherichia coli SE11], gi\|2... gi\|157065978, gi... - gi\|157160298\|ref\|YP_001457616.1\| ABC transporter, ATP-binding protein [Escherichia coli HS], gi\|1570... gi\|209398822, gi... - gi\|209398822\|ref\|YP_002269489.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str.... gi\|157156320, gi... - gi\|157156320\|ref\|YP_001462015.1\| ABC transporter, ATP-binding protein [Escherichia coli E24377A], gi... gi\|208738122, gi... - gi\|208822637\|ref\|ZP_03262956.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. ... gi\|208815250, gi... - gi\|208815250\|ref\|ZP_03256429.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. ... gi\|218553405, gi... - gi\|218553405\|ref\|YP_002386318.1\| putative transporter fused subunits of ABC superfamily: ATP-binding... gi\|218548341, gi... - gi\|218548341\|ref\|YP_002382132.1\| putative transporter fused subunits of ABC superfamily: ATP-binding... gi\|217326139, gi... - gi\|217326139\|ref\|ZP_03442223.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. ... gi\|215263979, gi... - gi\|215485907\|ref\|YP_002328338.1\| fused predicted transporter subunits of ABC superfamily: ATP-bindin... gi\|193069364, gi... - gi\|193069364\|ref\|ZP_03050319.1\| ABC transporter, ATP-binding protein [Escherichia coli E110019], gi\|... gi\|89107671, gi\|... - gi\|89107671\|ref\|AP_001451.1\| fused predicted transporter subunits and ATP-binding components of ABC ... gi\|192928947, gi... - gi\|193064485\|ref\|ZP_03045566.1\| ABC transporter, ATP-binding protein [Escherichia coli E22], gi\|1929... gi\|91209855, gi\|... - gi\|91209855\|ref\|YP_539841.1\| ABC transporter ATP-binding protein [Escherichia coli UTI89], gi\|910714... gi\|190905986, gi... - gi\|191173736\|ref\|ZP_03035259.1\| ABC transporter, ATP-binding protein [Escherichia coli F11], gi\|1909... gi\|13360356, gi\|... - gi\|15830151\|ref\|NP_308924.1\| putative ATP-binding component of a transport system [Escherichia coli ... gi\|191166150, gi... - gi\|191166150\|ref\|ZP_03027984.1\| ABC transporter, ATP-binding protein [Escherichia coli B7A], gi\|1909... gi\|208726047, gi... - gi\|208806246\|ref\|ZP_03248583.1\| ABC transporter, ATP-binding protein [Escherichia coli O157:H7 str. ... gi\|195936861 - gi\|195936861\|ref\|ZP_03082243.1\| ABC transporter ATP-binding protein [Escherichia coli O157:H7 str. E... gi\|194422618, gi... - gi\|194438394\|ref\|ZP_03070484.1\| ABC transporter, ATP-binding protein [Escherichia coli 101-1], gi\|19... gi\|194428232, gi... - gi\|194428232\|ref\|ZP_03060775.1\| ABC transporter, ATP-binding protein [Escherichia coli B171], gi\|194... EG13325 - ABC-F family putative regulatory ATPase / ABC-F family putative regulatory ATPase, function unknown YBIT_ECO57 - Uncharacterized ABC transporter ATP-binding protein YbiT OS=Escherichia coli O157:H7 GN=ybiT PE=3 SV... YBIT_ECOL6 - Uncharacterized ABC transporter ATP-binding protein YbiT OS=Escherichia coli O6:H1 (strain CFT073 / ... gi\|15800572, gi\|... - gi\|15800572\|ref\|NP_286584.1\| putative ATP-binding component of a transport system [Escherichia coli ... EG13325 - ABC-F family putative regulatory ATPase / ABC-F family putative regulatory ATPase, function unknown YBIT_ECOLI - Hypothetical ABC transporter ATP-binding protein ybiT - Escherichia coli gi\|124501382, gi... - gi\|124527037\|ref\|ZP_01698874.1\| ABC transporter related [Escherichia coli B], gi\|124501382\|gb\|EAY488... YBIT_ECOL6 - Uncharacterized ABC transporter ATP-binding protein YbiT OS=Escherichia coli O6 GN=ybiT PE=3 SV=1 gi\|117623000, gi... - gi\|117623000\|ref\|YP_851913.1\| putative ATP-binding component of a transport system [Escherichia coli...	0.0	[81..604]	[1..527]
gi\|161614905, gi... - gi\|161614905\|ref\|YP_001588870.1\| hypothetical protein SPAB_02659 [Salmonella enterica subsp. enteric... gi\|29138101, gi\|... - gi\|29142470\|ref\|NP_805812.1\| ABC transporter ATP-binding protein [Salmonella enterica subsp. enteric... gi\|205359777, gi... - gi\|205359777\|ref\|ZP_02832006.2\| ABC transporter ATP-binding protein [Salmonella enterica subsp. ente... gi\|16759757 - gi\|16759757\|ref\|NP_455374.1\| ABC transporter ATP-binding protein [Salmonella enterica subsp. enteric... gi\|204929952, gi... - gi\|204929952\|ref\|ZP_03220973.1\| ABC transporter ATP-binding protein [Salmonella enterica subsp. ente... gi\|194450745, gi... - gi\|194450745\|ref\|YP_002044869.1\| ABC transporter ATP-binding protein [Salmonella enterica subsp. ent... gi\|25384376, gi\|... - gi\|25384376\|pir\|\|AD0602 ABC transporter ATP-binding protein ybiT [imported] - Salmonella enterica su... gi\|168240712, gi... - gi\|205340051\|gb\|EDZ26815.1\| ABC transporter ATP-binding protein [Salmonella enterica subsp. enterica... gi\|214000405 - gi\|214000405\|ref\|ZP_03411140.1\| ABC transporter ATP-binding protein [Salmonella enterica subsp. ente... gi\|213051894 - gi\|213051894\|ref\|ZP_03344772.1\| ABC transporter ATP-binding protein [Salmonella enterica subsp. ente...	0.0	[81..604]	[1..527]

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Predicted Domain #1

Region A:
Residues: [1-75]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPPVSASKAK RDAKKAEREA KKAAAGKTIR KLGRKKEAAA EESEVDAAAR EIKMMKLQQD  60
   61 KDGLSDRVVT GVLSS

[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	SCOP Match	SCOP Description
View	Download	0.267	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.267	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.413	a.61.1	Retroviral matrix proteins
View	Download	0.323	a.64.1	Saposin
View	Download	0.413	a.61.1	Retroviral matrix proteins
View	Download	0.323	a.64.1	Saposin
View	Download	0.344	a.57.1	Protein HNS-dependent expression A; HdeA
View	Download	0.295	a.12.1	Kix domain of CBP (creb binding protein)
View	Download	0.344	a.57.1	Protein HNS-dependent expression A; HdeA
View	Download	0.295	a.12.1	Kix domain of CBP (creb binding protein)
View	Download	0.252	a.60.3	C-terminal domain of RNA polymerase alpha subunit
View	Download	0.235	a.3.1	Cytochrome c
View	Download	0.234	a.61.1	Retroviral matrix proteins
View	Download	0.229	a.112.1	Description not found.
View	Download	0.217	a.4.1	Homeodomain-like
View	Download	0.205	a.24.7	FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP)
View	Download	0.204	a.24.17	Group V grass pollen allergen
View	Download	0.203	a.39.1	EF-hand
View	Download	0.200	a.57.1	Protein HNS-dependent expression A; HdeA

Predicted Domain #2

Region A:
Residues: [76-352]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LETSRDIKLS SVSLLFHGKV LIQDSGLELN YGRRYGLLGE NGCGKSTFLK ALATREYPIP  60
   61 EHIDIYLLDE PAEPSELSAL DYVVTEAQHE LKRIEDLVEK TILEDGPESE LLEPLYERMD 120
  121 SLDPDTFESR AAIILIGLGF NKKTILKKTK DMSGGWKMRV ALAKALFVKP TLLLLDDPTA 180
  181 HLDLEACVWL EEYLKRFDRT LVLVSHSQDF LNGVCTNMID MRAQKLTAYG GNYDSYHKTR 240
  241 SELETNQMKQ YNKQQEEIQH IKKFIASAGT YANLVKQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	130.457575
Match:	1g291_
Description:	Maltose transport protein MalK, C-terminal domain; Maltose transport protein MalK, N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [353-405]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AKSRQKILDK MEADGLVQPV VPDKVFSFRF PQVERLPPPV LAFDDISFHY ESN

[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	SCOP Match	SCOP Description
View	Download	0.302	d.52.3	Prokaryotic type KH domain (KH-domain type II)
View	Download	0.313	g.3.10	Colipase-like
View	Download	0.526	d.58.23	Probable ACP-binding domain of malonyl-CoA ACP transacylase
View	Download	0.399	g.27.1	Fibronectin type I module
View	Download	0.304	d.58.38	Urease metallochaperone UreE, C-terminal domain
View	Download	0.296	d.58.23	Probable ACP-binding domain of malonyl-CoA ACP transacylase
View	Download	0.290	d.58.17	Metal-binding domain
View	Download	0.278	d.58.23	Probable ACP-binding domain of malonyl-CoA ACP transacylase
View	Download	0.277	a.5.1	DNA helicase RuvA subunit, C-terminal domain
View	Download	0.256	a.5.1	DNA helicase RuvA subunit, C-terminal domain
View	Download	0.248	d.58.23	Probable ACP-binding domain of malonyl-CoA ACP transacylase
View	Download	0.245	b.34.2	SH3-domain
View	Download	0.239	d.58.8	Viral DNA-binding domain
View	Download	0.236	d.58.40	D-ribose-5-phosphate isomerase (RpiA), lid domain
View	Download	0.230	d.58.38	Urease metallochaperone UreE, C-terminal domain
View	Download	0.226	d.230.2	Flavin-binding protein dodecin
View	Download	0.210	d.52.1	Alpha-lytic protease prodomain
View	Download	0.202	b.72.1	WW domain

Predicted Domain #4

Region A:
Residues: [406-610]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PSENLYEHLN FGVDMDSRIA LVGPNGVGKS TLLKIMTGEL TPQSGRVSRH THVKLGVYSQ  60
   61 HSQDQLDLTK SALEFVRDKY SNISQDFQFW RGQLGRYGLT GEGQTVQMAT LSEGQRSRVV 120
  121 FALLALEQPN VLLLDEPTNG LDIPTIDSLA DAINEFNGGV VVVSHDFRLL DKIAQDIFVV 180
  181 ENKTATRWDG SILQYKNKLA KNVVL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	75.045757
Match:	1nbd__
Description:	No description for 1nbd__ was found.

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