YRC Public Data Repository - Protein Structure Prediction

Protein:	MDL2
Organism:	Saccharomyces cerevisiae
Length:	773 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 MDL2.

Description	E-value	Query Range	Subject Range
gi\|190407696 - gi\|190407696\|gb\|EDV10961.1\| ATP-dependent permease MDL2 [Saccharomyces cerevisiae RM11-1a] MDL2 - Mitochondrial inner membrane half-type ATP-binding cassette (ABC) transporter, required for respirat... MDL2_YEAST - ATP-dependent permease MDL2, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) ...	0.0	[1..773]	[1..773]
gi\|57526446, gi\|... - gi\|57526446\|ref\|NP_001009790.1\| ATP-binding cassette, subfamily B, member 1 [Ovis aries], gi\|2149087...	0.0	[3..693]	[600..1285]
gi\|22759019 - gi\|22759019\|gb\|AAN05645.1\| multidrug resistance p-glycoprotein [Canis familiaris]	0.0	[3..683]	[597..1272]
gi\|8926217 - gi\|8926217\|gb\|AAF81747.1\| his-tagged-multidrug resistance glycoprotein MDR1 [synthetic construct]	0.0	[3..688]	[603..1283]
gi\|31442763 - gi\|31442763\|gb\|AAN07780.2\| multidrug resistance p-glycoprotein [Macaca fascicularis]	0.0	[3..683]	[598..1273]
gi\|22775296, gi\|... - gi\|74136329\|ref\|NP_001028059.1\| ATP-binding cassette, subfamily B, member 1 [Macaca mulatta], gi\|227...	0.0	[3..683]	[598..1273]
gi\|6755048, gi\|3... - gi\|6755048\|ref\|NP_035206.1\| ATP-binding cassette, sub-family B (MDR/TAP), member 1A [Mus musculus], ...	0.0	[3..683]	[591..1266]

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Predicted Domain #1

Region A:
Residues: [1-100]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLNGRLPLLR LGICRNMLSR PRLAKLPSIR FRSLVTPSSS QLIPLSRLCL RSPAVGKSLI  60
   61 LQSFRCNSSK TVPETSLPSA SPISKGSARS AHAKEQSKTD

[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.

Found no structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [101-698]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DYKDIIRLFM LAKRDWKLLL TAILLLTISC SIGMSIPKVI GIVLDTLKTS SGSDFFDLKI  60
   61 PIFSLPLYEF LSFFTVALLI GCAANFGRFI LLRILSERVV ARLRANVIKK TLHQDAEFFD 120
  121 NHKVGDLISR LGSDAYVVSR SMTQKVSDGV KALICGVVGV GMMCSLSPQL SILLLFFTPP 180
  181 VLFSASVFGK QIRNTSKDLQ EATGQLTRVA EEQLSGIKTV QSFVAEGNEL SRYNVAIRDI 240
  241 FQVGKTAAFT NAKFFTTTSL LGDLSFLTVL AYGSYLVLQS QLSIGDLTAF MLYTEYTGNA 300
  301 VFGLSTFYSE IMQGAGAASR LFELTDRKPS ISPTVGHKYK PDRGVIEFKD VSFSYPTRPS 360
  361 VQIFKNLNFK IAPGSSVCIV GPSGRGKSTI ALLLLRYYNP TTGTITIDNQ DISKLNCKSL 420
  421 RRHIGIVQQE PVLMSGTIRD NITYGLTYTP TKEEIRSVAK QCFCHNFITK FPNTYDTVIG 480
  481 PHGTLLSGGQ KQRIAIARAL IKKPTILILD EATSALDVES EGAINYTFGQ LMKSKSMTIV 540
  541 SIAHRLSTIR RSENVIVLGH DGSVVEMGKF KELYANPTSA LSQLLNEKAA PGPSDQQL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	112.0
Match:	1pf4A_
Description:	Multidrug resistance ABC transporter MsbA, C-terminal domain; Multidrug resistance ABC transporter MsbA, N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
lipid transporter activity	7.47642599298853	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of substances	5.57844095962502	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	5.57813579764186	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	5.57813579764186	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	5.5689620139321	bayes_pls_golite062009
primary active transmembrane transporter activity	5.55992639965745	bayes_pls_golite062009
active transmembrane transporter activity	5.50005167063544	bayes_pls_golite062009
ATPase activity, coupled	4.98276715440477	bayes_pls_golite062009
heme transporter activity	4.82479229680991	bayes_pls_golite062009
peptide transporter activity	4.7442815698413	bayes_pls_golite062009
anion transmembrane-transporting ATPase activity	4.71935767060308	bayes_pls_golite062009
ATPase activity	4.69795387297193	bayes_pls_golite062009
peptide-transporting ATPase activity	4.63590351019108	bayes_pls_golite062009
nucleoside-triphosphatase activity	4.45923622153365	bayes_pls_golite062009
pyrophosphatase activity	4.39781350157199	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	4.38133275795019	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	4.38085303582726	bayes_pls_golite062009
cofactor transporter activity	4.34709589308604	bayes_pls_golite062009
oligopeptide-transporting ATPase activity	4.09365342567844	bayes_pls_golite062009
transporter activity	3.71239480053329	bayes_pls_golite062009
hydrogen ion transporting ATP synthase activity, rotational mechanism	3.57926427233638	bayes_pls_golite062009
ion transmembrane transporter activity	3.35436118751376	bayes_pls_golite062009
phosphate transmembrane-transporting ATPase activity	3.20894563245332	bayes_pls_golite062009
inorganic anion transmembrane transporter activity	3.16975154423199	bayes_pls_golite062009
hydrolase activity	3.14498892233323	bayes_pls_golite062009
transmembrane transporter activity	3.13960906549884	bayes_pls_golite062009
anion transmembrane transporter activity	3.13913638619234	bayes_pls_golite062009
substrate-specific transporter activity	3.1318898376276	bayes_pls_golite062009
cation transmembrane transporter activity	3.08390071341252	bayes_pls_golite062009
iron ion transmembrane transporter activity	3.05511942104215	bayes_pls_golite062009
ATP binding	3.01346604299372	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	3.00745742755195	bayes_pls_golite062009
drug transmembrane transporter activity	2.97119034312001	bayes_pls_golite062009
adenyl ribonucleotide binding	2.96271391116269	bayes_pls_golite062009
adenyl nucleotide binding	2.91131545957759	bayes_pls_golite062009
metal ion transmembrane transporter activity	2.88476360771975	bayes_pls_golite062009
purine ribonucleotide binding	2.70262534541085	bayes_pls_golite062009
ribonucleotide binding	2.70178191749524	bayes_pls_golite062009
amine-transporting ATPase activity	2.69529191205818	bayes_pls_golite062009
organic acid transmembrane transporter activity	2.67957846350199	bayes_pls_golite062009
carboxylic acid transmembrane transporter activity	2.67815672695824	bayes_pls_golite062009
purine nucleotide binding	2.6583477492092	bayes_pls_golite062009
nucleotide binding	2.62374702628143	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	2.61311581579476	bayes_pls_golite062009
sterol transporter activity	2.48473697371886	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	2.40292717311506	bayes_pls_golite062009
amine transmembrane transporter activity	2.29486577878686	bayes_pls_golite062009
	2.20174656498665	bayes_pls_golite062009
vitamin transporter activity	2.1653565229854	bayes_pls_golite062009
phosphate transmembrane transporter activity	2.15147988861177	bayes_pls_golite062009
oligopeptide transporter activity	2.05580564974083	bayes_pls_golite062009
L-aspartate transmembrane transporter activity	2.05274761921715	bayes_pls_golite062009
binding	1.84115074893083	bayes_pls_golite062009
transition metal ion transmembrane transporter activity	1.82177108193332	bayes_pls_golite062009
organic anion transmembrane transporter activity	1.76999970080179	bayes_pls_golite062009
amino acid transmembrane transporter activity	1.59627719545436	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	1.58971273330352	bayes_pls_golite062009
nucleic acid binding	1.52921795164482	bayes_pls_golite062009
phosphonate transmembrane transporter activity	1.40269234722336	bayes_pls_golite062009
cation channel activity	1.33585529285301	bayes_pls_golite062009
molybdate transmembrane-transporting ATPase activity	1.28313088935613	bayes_pls_golite062009
molybdate ion transmembrane transporter activity	1.28313088935613	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of ions	1.23799860254751	bayes_pls_golite062009
DNA binding	1.19966224604123	bayes_pls_golite062009
potassium channel activity	1.17288958041707	bayes_pls_golite062009
sulfate transmembrane-transporting ATPase activity	1.1220946941463	bayes_pls_golite062009
transcription regulator activity	1.09075553688438	bayes_pls_golite062009
protein transporter activity	1.05248757342537	bayes_pls_golite062009
dipeptide transporter activity	1.01130176523309	bayes_pls_golite062009
voltage-gated cation channel activity	1.00384984515681	bayes_pls_golite062009
thiamin transmembrane transporter activity	0.933872128802939	bayes_pls_golite062009
voltage-gated ion channel activity	0.889208591820696	bayes_pls_golite062009
motor activity	0.87979065815418	bayes_pls_golite062009
voltage-gated channel activity	0.871525745291603	bayes_pls_golite062009
structural constituent of ribosome	0.860102064846772	bayes_pls_golite062009
ion channel activity	0.848261056209476	bayes_pls_golite062009
GTPase activity	0.83849854735032	bayes_pls_golite062009
channel activity	0.806331380134838	bayes_pls_golite062009
passive transmembrane transporter activity	0.806331380134838	bayes_pls_golite062009
substrate-specific channel activity	0.799997700906738	bayes_pls_golite062009
copper ion transmembrane transporter activity	0.798934081014025	bayes_pls_golite062009
di-, tri-valent inorganic cation transmembrane transporter activity	0.767424210804186	bayes_pls_golite062009
gated channel activity	0.650050847753837	bayes_pls_golite062009
cholesterol transporter activity	0.644421039250979	bayes_pls_golite062009
branched-chain aliphatic amino acid transmembrane transporter activity	0.442220326523999	bayes_pls_golite062009
ligase activity	0.417681194526243	bayes_pls_golite062009
catalytic activity	0.368034275052766	bayes_pls_golite062009
oxidoreductase activity	0.311483600813201	bayes_pls_golite062009
translation regulator activity	0.29096092258568	bayes_pls_golite062009
signal transducer activity	0.286367085584159	bayes_pls_golite062009
molecular transducer activity	0.286367085584159	bayes_pls_golite062009
translation factor activity, nucleic acid binding	0.274994961137851	bayes_pls_golite062009
neutral amino acid transmembrane transporter activity	0.227570438294493	bayes_pls_golite062009
protein binding	0.170837278876362	bayes_pls_golite062009
amino acid-transporting ATPase activity	0.147644650870465	bayes_pls_golite062009
structural molecule activity	0.11239762372728	bayes_pls_golite062009
sulfate transmembrane transporter activity	0.104477131120205	bayes_pls_golite062009
transcription factor activity	0.0612932659603008	bayes_pls_golite062009
cation-transporting ATPase activity	0.0536898657672154	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [699-773]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QIEKVIEKED LNESKEHDDQ KKDDNDDNDN NHDNDSNNQS PETKDNNSDD IEKSVEHLLK  60
   61 DAAKEANPIK ITPQP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	50.69897
Match:	1q12A_
Description:	Crystal Structure of the ATP-bound E. coli MalK
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: