YRC Public Data Repository - Protein Structure Prediction

Protein:	APM1
Organism:	Saccharomyces cerevisiae
Length:	475 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

[What does the above image mean?]

[Show Ginzu Version Information]

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 APM1.

Description	E-value	Query Range	Subject Range
gi\|207340770 - gi\|207340770\|gb\|EDZ69016.1\| YPL259Cp-like protein [Saccharomyces cerevisiae AWRI1631] AP1M1_YEAST - AP-1 complex subunit mu-1-I OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=APM1 PE=1 SV... APM1 - Mu1-like medium subunit of the clathrin-associated protein complex (AP-1); binds clathrin; involved ...	0.0	[1..475]	[1..475]
gi\|28949965 - gi\|28949965\|emb\|CAD70726.1\| probable clathrin assembly protein AP47 [Neurospora crassa]	0.0	[1..474]	[1..424]
gi\|149757264 - gi\|149757264\|ref\|XP_001502865.1\| PREDICTED: similar to adaptor-related protein complex 1, mu 1 subun... AP1M1 - adaptor-related protein complex 1, mu 1 subunit gi\|109123796 - gi\|109123796\|ref\|XP_001112653.1\| PREDICTED: similar to adaptor-related protein complex 1, mu 1 subun... gi\|114675917, gi... - gi\|114675917\|ref\|XP_001172777.1\| PREDICTED: adaptor-related protein complex 1, mu 1 subunit isoform ... gi\|73986080 - gi\|73986080\|ref\|XP_852486.1\| PREDICTED: similar to adaptor-related protein complex 1, mu 1 subunit i... AP1M1_BOVIN - AP-1 complex subunit mu-1 OS=Bos taurus GN=AP1M1 PE=1 SV=3	0.0	[3..474]	[4..422]
gi\|55249923 - gb\|AAH86151.1\| Unknown (protein for MGC:98582) [Xenopus laevis] AP1M1_MOUSE - AP-1 complex subunit mu-1 OS=Mus musculus GN=Ap1m1 PE=1 SV=3	0.0	[3..474]	[4..422]
AP1M2_ARATH - AP-1 complex subunit mu-2 OS=Arabidopsis thaliana GN=AP1M2 PE=1 SV=1	0.0	[3..474]	[6..427]
gi\|12000357 - gi\|12000357\|gb\|AAG11391.1\| clathrin-adaptor medium chain apm 1 [Dictyostelium discoideum]	0.0	[3..475]	[4..428]
AP-47-PA - The gene AP-47 is referred to in FlyBase by the symbol Dmel\AP-47 (CG9388, FBgn0024833). It is a pro... gi\|194183061, gi... - gi\|195499467\|ref\|XP_002096960.1\| GE24766 [Drosophila yakuba], gi\|194183061\|gb\|EDW96672.1\| GE24766 [D... gi\|194120824, gi... - gi\|195330378\|ref\|XP_002031881.1\| GM26246 [Drosophila sechellia], gi\|194120824\|gb\|EDW42867.1\| GM26246... gi\|220955808, gi... - gi\|220955808\|gb\|ACL90447.1\| AP-47-PA [synthetic construct], gi\|220946056\|gb\|ACL85571.1\| AP-47-PA [sy... gi\|194200035, gi... - gi\|195572248\|ref\|XP_002104108.1\| GD20786 [Drosophila simulans], gi\|194200035\|gb\|EDX13611.1\| GD20786 ... gi\|190652509, gi... - gi\|194903043\|ref\|XP_001980806.1\| GG17361 [Drosophila erecta], gi\|190652509\|gb\|EDV49764.1\| GG17361 [D... gi\|194744741, gi... - gi\|194744741\|ref\|XP_001954851.1\| GF16536 [Drosophila ananassae], gi\|190627888\|gb\|EDV43412.1\| GF16536...	0.0	[3..474]	[4..425]
unc-101 - clathrin coat assembly protein status:Confirmed UniProt:P35602 protein_id:CAB05557.3	0.0	[3..474]	[4..421]

Back

Predicted Domain #1

Region A:
Residues: [1-143]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MASAVYFCDH NGKPLLSRRY RDDIPLSAID KFPILLSDLE EQSNLIPPCL NHNGLEYLFI  60
   61 QHNDLYVVAI VTSLSANAAA IFTFLHKLVE VLSDYLKTVE EESIRDNFVI IYELLDEVMD 120
  121 YGIPQITETK MLKQYITQKS FKL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	910.228787
Match:	1gw5M_
Description:	Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor; Mu2 adaptin (clathrin coat assembly protein AP50)
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [144-475]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VKSAKKKRNA TRPPVALTNS VSWRPEGITH KKNEAFLDIV ESINMLMTQK GQVLRSEIIG  60
   61 DVKVNSKLSG MPDLKLGIND KGIFSKYLDD DTNIPSASAT TSDNNTETDK KPSITSSSAT 120
  121 NKKKVNIELE DLKFHQCVRL SKFENEKIIT FIPPDGKFDL MNYRLSTTIK PLIWCDVNVQ 180
  181 VHSNSRIEIH CKAKAQIKRK STATNVEILI PVPDDADTPT FKYSHGSLKY VPEKSAILWK 240
  241 IRSFPGGKEY SMSAELGLPS ISNNEDGNRT MPKSNAEILK GPVQIKFQIP YFTTSGIQVR 300
  301 YLKINEPKLQ YKSYPWVRYI TQSGDDYTIR LT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	910.228787
Match:	1gw5M_
Description:	Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor; Mu2 adaptin (clathrin coat assembly protein AP50)
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