YRC Public Data Repository - Protein Structure Prediction

Protein:	SYDP_ECOLI
Organism:	Escherichia coli
Length:	181 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 SYDP_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|238787244, gi... - gi\|77972701\|ref\|ZP_00828260.1\| hypothetical protein YfreA_01003484 [Yersinia frederiksenii ATCC 3364...	291.0	[0..1]	[181..1]
SYDP_YERPE - Protein Syd OS=Yersinia pestis GN=syd PE=3 SV=1 gi\|165921043, gi... - gi\|165927147\|ref\|ZP_02222979.1\| syd protein [Yersinia pestis biovar Orientalis str. F1991016], gi\|16... SYDP_YERPS - Protein syd OS=Yersinia pseudotuberculosis GN=syd PE=3 SV=1 gi\|166207480, gi... - gi\|166211709\|ref\|ZP_02237744.1\| syd protein [Yersinia pestis biovar Antiqua str. B42003004], gi\|1662... gi\|166011923, gi... - gi\|166011923\|ref\|ZP_02232821.1\| syd protein [Yersinia pestis biovar Antiqua str. E1979001], gi\|16598... gi\|166962599, gi... - gi\|167419858\|ref\|ZP_02311611.1\| syd protein [Yersinia pestis biovar Orientalis str. MG05-1020], gi\|1... gi\|167050425, gi... - gi\|167399717\|ref\|ZP_02305235.1\| syd protein [Yersinia pestis biovar Antiqua str. UG05-0454], gi\|1670... gi\|229704119, gi... - gi\|229837742\|ref\|ZP_04457902.1\| hypothetical protein YPS_1673 [Yersinia pestis Pestoides A], gi\|2297... gi\|229840964, gi... - gi\|229840964\|ref\|ZP_04461123.1\| hypothetical protein YPH_3319 [Yersinia pestis biovar Orientalis str... gi\|229689941, gi... - gi\|229843065\|ref\|ZP_04463215.1\| hypothetical protein YPF_1423 [Yersinia pestis biovar Orientalis str... SYDP_YERPP - Protein Syd OS=Yersinia pestis (strain Pestoides F) GN=syd PE=3 SV=1 SYDP_YERPG - Protein Syd OS=Yersinia pestis bv. Antiqua (strain Angola) GN=syd PE=3 SV=1 SYDP_YERPS - Protein Syd OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=syd PE=3 SV=1 gi\|45437449, gi\|... - gi\|45442584\|ref\|NP_994123.1\| SecY interacting protein Syd [Yersinia pestis biovar Microtus str. 9100... gi\|22127022, gi\|... - gi\|22127022\|ref\|NP_670445.1\| SecY interacting protein Syd [Yersinia pestis KIM], gi\|21960070\|gb\|AAM8... gi\|89105126, gi\|... - gi\|89105126\|ref\|ZP_01177651.1\| hypothetical protein Ypesb_01000860 [Yersinia pestis biovar Orientali... SYDP_YERPA - Protein Syd OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=syd PE=3 SV=1 SYDP_YERPN - Protein Syd OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=syd PE=3 SV=1 gi\|167468864 - gi\|167468864\|ref\|ZP_02333568.1\| syd protein [Yersinia pestis FV-1] gi\|167425403, gi... - gi\|167425403\|ref\|ZP_02317156.1\| syd protein [Yersinia pestis biovar Mediaevalis str. K1973002], gi\|1... SYDP_YERPB - Protein Syd OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=syd PE=3 SV=1 SYDP_YERPY - Protein Syd OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=syd PE=3 SV=1	290.0	[0..1]	[181..1]
gi\|77963184, gi\|... - gi\|77963184\|ref\|ZP_00826996.1\| hypothetical protein YmolA_01000530 [Yersinia mollaretii ATCC 43969],...	290.0	[0..1]	[181..1]
SYDP_YERP3 - Protein Syd OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=syd PE=3 SV=1	290.0	[0..1]	[181..1]
gi\|238784870, gi... - gi\|77957680\|ref\|ZP_00821729.1\| hypothetical protein YberA_01002054 [Yersinia bercovieri ATCC 43970],...	286.0	[0..1]	[181..1]
gi\|189003577, gi... - gi\|189003577\|gb\|EDU72563.1\| syd protein [Escherichia coli O157:H7 str. EC4076], gi\|168778785\|ref\|ZP_... gi\|168777582, gi... - gi\|187767218\|gb\|EDU31062.1\| syd protein [Escherichia coli O157:H7 str. EC4196], gi\|168777582\|ref\|ZP_... gi\|15832907, gi\|... - gi\|15832907\|ref\|NP_311680.1\| SecY interacting protein Syd [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|189363846, gi... - gi\|189363846\|gb\|EDU82265.1\| syd protein [Escherichia coli O157:H7 str. EC4486], gi\|168766764\|ref\|ZP_... gi\|168764510, gi... - gi\|189365499\|gb\|EDU83915.1\| syd protein [Escherichia coli O157:H7 str. EC4501], gi\|168764510\|ref\|ZP_... gi\|208733300, gi... - gi\|208812023\|ref\|ZP_03253352.1\| syd protein [Escherichia coli O157:H7 str. EC4045], gi\|208733300\|gb\|... gi\|195936397 - gi\|195936397\|ref\|ZP_03081779.1\| SecY interacting protein Syd [Escherichia coli O157:H7 str. EC4024] gi\|189375499, gi... - gi\|189375499\|gb\|EDU93915.1\| syd protein [Escherichia coli O157:H7 str. EC508], gi\|168802522\|ref\|ZP_0... gi\|189372203, gi... - gi\|189372203\|gb\|EDU90619.1\| syd protein [Escherichia coli O157:H7 str. EC869], gi\|168788055\|ref\|ZP_0... gi\|189354714, gi... - gi\|189354714\|gb\|EDU73133.1\| syd protein [Escherichia coli O157:H7 str. EC4401], gi\|168758488\|ref\|ZP_... SYDP_ECO57 - Protein Syd OS=Escherichia coli O157:H7 GN=syd PE=3 SV=1 gi\|188014893, gi... - gi\|188014893\|gb\|EDU53015.1\| syd protein [Escherichia coli O157:H7 str. EC4113], gi\|168751008\|ref\|ZP_... gi\|209761360, gi... - pir\|\|G85930 interacts with secY [imported] - Escherichia coli (strain O157:H7, substrain EDL933), p... gi\|15803315, gi\|... - gi\|15803315\|ref\|NP_289348.1\| SecY interacting protein Syd [Escherichia coli O157:H7 EDL933], gi\|1251... gi\|217327097, gi... - gi\|217327097\|ref\|ZP_03443180.1\| syd protein [Escherichia coli O157:H7 str. TW14588], gi\|217319464\|gb... SYDP_ECO5E - Protein Syd OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=syd PE=3 SV=1 gi\|208820519, gi... - gi\|208820519\|ref\|ZP_03260839.1\| syd protein [Escherichia coli O157:H7 str. EC4042], gi\|208740642\|gb\|... gi\|254794734, gi... - gi\|254794734\|ref\|YP_003079571.1\| hypothetical protein ECSP_3745 [Escherichia coli O157:H7 str. TW143...	286.0	[0..1]	[181..1]
gi\|25332850 - pir\|\|AB0127 Syd protein [imported] - Yersinia pestis (strain CO92) gi\|149290578, gi... - gi\|149366964\|ref\|ZP_01888997.1\| Syd protein [Yersinia pestis CA88-4125], gi\|149290578\|gb\|EDM40654.1\|... gi\|15979102, gi\|... - gi\|218928203\|ref\|YP_002346078.1\| SecY interacting protein Syd [Yersinia pestis CO92], gi\|16121335\|re...	286.0	[0..4]	[181..2]
gi\|238792762, gi... - gi\|77977756\|ref\|ZP_00833197.1\| hypothetical protein YintA_01002479 [Yersinia intermedia ATCC 29909],...	285.0	[0..1]	[181..1]
SYDP_SHIFL - Protein Syd OS=Shigella flexneri GN=syd PE=3 SV=1 gi\|24053205, gi\|... - gi\|24114077\|ref\|NP_708587.1\| SecY interacting protein Syd [Shigella flexneri 2a str. 301], gi\|240532... gi\|30064138, gi\|... - gi\|30064138\|ref\|NP_838309.1\| SecY interacting protein Syd [Shigella flexneri 2a str. 2457T], gi\|3004...	284.0	[0..1]	[181..1]
SYDP_SHIB3 - Protein Syd OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=syd PE=3 SV=1 SYDP_SHIF8 - Protein Syd OS=Shigella flexneri serotype 5b (strain 8401) GN=syd PE=3 SV=1	283.0	[0..1]	[181..1]

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Predicted Domain #1

Region A:
Residues: [1-181]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDDLTAQALK DFTARYCDAW HEEHKSWPLS EELYGVPSPC IISTTEDAVY WQPQPFTGEQ  60
   61 NVNAVERAFD IVIQPTIHTF YTTQFAGDMH AQFGDIKLTL LQTWSEDDFR RVQENLIGHL 120
  121 VTQKRLKLPP TLFIATLEEE LEVISVCNLS GEVCKETLGT RKRTHLASNL AEFLNQLKPL 180
  181 L

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	130.508638
Match:	PF07348.3
Description:	No description for PF07348.3 was found.

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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