YRC Public Data Repository - Protein Structure Prediction

Protein:	SYDP_SHIFL
Organism:	Shigella flexneri
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

[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 SYDP_SHIFL.

Description	E-value	Query Range	Subject Range
SYDP_ECOK1 - Protein Syd OS=Escherichia coli O1:K1 / APEC GN=syd PE=3 SV=2 SYDP_ECOUT - Protein Syd OS=Escherichia coli (strain UTI89 / UPEC) GN=syd PE=3 SV=1 gi\|124528758, gi... - gi\|124528758\|ref\|ZP_01699982.1\| Syd family protein [Escherichia coli B], gi\|124500286\|gb\|EAY47761.1\|... gi\|85675612, gi\|... - gi\|89109579\|ref\|AP_003359.1\| hypothetical protein [Escherichia coli str. K-12 substr. W3110], gi\|856... SYDP_SHIBS - Protein Syd OS=Shigella boydii serotype 4 (strain Sb227) GN=syd PE=3 SV=1 SYDP_ECOL5 - Protein Syd OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=syd PE=3 SV=1 SYDP_ECOLI - Protein syd - Escherichia coli SYDP_ECOL6 - Protein Syd OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=syd PE=3 SV=1 gi\|193071114, gi... - gi\|75233981\|ref\|ZP_00718430.1\| hypothetical protein EcolE1_01004035 [Escherichia coli E110019], gi\|1... SYDP_ECO45 - Protein Syd OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=syd PE=3 SV=1 EG12959 - SecY-interacting protein / SecY-interacting protein; putative SecYEG quality control protein gi\|191168559, gi... - gi\|75228246\|ref\|ZP_00714903.1\| hypothetical protein EcolB7_01003435 [Escherichia coli B7A], gi\|19116... SYDP_ECO8A - Protein Syd OS=Escherichia coli O8 (strain IAI1) GN=syd PE=3 SV=1 gi\|194415634, gi... - gi\|75212587\|ref\|ZP_00712611.1\| hypothetical protein EcolB_01000674 [Escherichia coli B171], gi\|19442... SYDP_ECO7I - Protein Syd OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=syd PE=3 SV=1 SYDP_ECOHS - Protein Syd OS=Escherichia coli O9:H4 (strain HS) GN=syd PE=3 SV=1 SYDP_ECO55 - Protein Syd OS=Escherichia coli (strain 55989 / EAEC) GN=syd PE=3 SV=1 SYDP_SHISS - Protein Syd OS=Shigella sonnei (strain Ss046) GN=syd PE=3 SV=1 gi\|75511936, gi\|... - gi\|75511936\|ref\|ZP_00734539.1\| hypothetical protein Ecol5_01003806 [Escherichia coli 53638], gi\|1884... gi\|75256868, gi\|... - gi\|75256868\|ref\|ZP_00728462.1\| hypothetical protein EcolE2_01003288 [Escherichia coli E22], gi\|19306... gi\|190908520, gi... - gi\|75241817\|ref\|ZP_00725636.1\| hypothetical protein EcolF_01001177 [Escherichia coli F11], gi\|191171... EG12959 - SecY-interacting protein / SecY-interacting protein; putative SecYEG quality control protein SYDP_ECO24 - Protein Syd OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=syd PE=3 SV=1 SYDP_ECOSM - Protein Syd OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=syd PE=3 SV=1 SYDP_ECODH - Protein Syd OS=Escherichia coli (strain K12 / DH10B) GN=syd PE=3 SV=1 SYDP_ECO27 - Protein Syd OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=syd PE=3 SV=1 SYDP_ECOSE - Protein Syd OS=Escherichia coli (strain SE11) GN=syd PE=3 SV=1 sp\|B7UHK9\|SYDP_ECO27 - Protein syd OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=syd PE=3 SV=1 gi\|227834602, gi... - gi\|227888333\|ref\|ZP_04006138.1\| SecY interacting protein Syd [Escherichia coli 83972], gi\|227834602\|... gi\|237706577, gi... - gi\|237706577\|ref\|ZP_04537058.1\| syd protein [Escherichia sp. 3_2_53FAA], gi\|226899617\|gb\|EEH85876.1\|... SYDP_ECOBW - Protein Syd OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=syd PE=3 SV=1 SYDP_ECOLC - Protein Syd OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=syd PE=3 SV=1 gi\|242378340, gi... - gi\|251786067\|ref\|YP_003000371.1\| hypothetical protein B21_02600 [Escherichia coli BL21], gi\|24237834... gi\|254289478, gi... - gi\|254289478\|ref\|YP_003055226.1\| SecY interacting protein Syd [Escherichia coli BL21(DE3)], gi\|25397... gi\|226839470, gi... - gi\|254037846\|ref\|ZP_04871904.1\| syd [Escherichia sp. 1_1_43], gi\|226839470\|gb\|EEH71491.1\| syd [Esche... gi\|253974620, gi... - gi\|254162719\|ref\|YP_003045827.1\| SecY interacting protein Syd [Escherichia coli B str. REL606], gi\|2... SYDP_ECOL6 - Protein syd OS=Escherichia coli O6 GN=syd PE=3 SV=1	332.0	[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...	330.0	[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	329.0	[0..1]	[181..1]
gi\|194421406, gi... - gi\|83584951\|ref\|ZP_00923607.1\| hypothetical protein Ecol1_01003845 [Escherichia coli 101-1], gi\|1944...	327.0	[0..1]	[181..1]
SYDP_SHIDS - Protein Syd OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=syd PE=3 SV=1	325.0	[0..1]	[181..1]
SYDP_SALCH - Protein syd OS=Salmonella choleraesuis GN=syd PE=3 SV=1 gi\|213161503 - gi\|213161503\|ref\|ZP_03347213.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica se... SYDP_SALPA - Protein syd OS=Salmonella paratyphi A GN=syd PE=3 SV=1 gi\|213027166 - gi\|213027166\|ref\|ZP_03341613.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica se... SYDP_SALEP - Protein Syd OS=Salmonella enteritidis PT4 (strain P125109) GN=syd PE=3 SV=1 SYDP_SALG2 - Protein Syd OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=syd PE=3 SV=1 gi\|213648745 - gi\|213648745\|ref\|ZP_03378798.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica se... gi\|213609783 - gi\|213609783\|ref\|ZP_03369609.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica se... gi\|213584204 - gi\|213584204\|ref\|ZP_03366030.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica se... gi\|213424903 - gi\|213424903\|ref\|ZP_03357653.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica se... SYDP_SALTI - Protein syd OS=Salmonella typhi GN=syd PE=3 SV=1 SYDP_SALA4 - Protein Syd OS=Salmonella agona (strain SL483) GN=syd PE=3 SV=1 SYDP_SALTY - Protein syd OS=Salmonella typhimurium GN=syd PE=3 SV=1 SYDP_SALSV - Protein Syd OS=Salmonella schwarzengrund (strain CVM19633) GN=syd PE=3 SV=1 lcl\|NC_016856.1_... - [gene=syd] [protein=SecY interacting protein Syd] [protein_id=YP_005239084.1] [location=complement(3... gi\|194469773, gi... - gi\|194469773\|ref\|ZP_03075757.1\| protein syd [Salmonella enterica subsp. enterica serovar Kentucky st... SYDP_SALHS - Protein Syd OS=Salmonella heidelberg (strain SL476) GN=syd PE=3 SV=1 gi\|204928388, gi... - gi\|204928388\|ref\|ZP_03219588.1\| protein syd [Salmonella enterica subsp. enterica serovar Javiana str... gi\|200388313, gi... - gi\|200388313\|ref\|ZP_03214925.1\| protein syd [Salmonella enterica subsp. enterica serovar Virchow str... SYDP_SALPK - Protein Syd OS=Salmonella paratyphi A (strain AKU_12601) GN=syd PE=3 SV=1 gi\|197265365, gi... - gi\|197265365\|ref\|ZP_03165439.1\| syd protein [Salmonella enterica subsp. enterica serovar Saintpaul s... SYDP_SALCH - Protein Syd OS=Salmonella choleraesuis (strain SC-B67) GN=syd PE=3 SV=1 SYDP_SALPA - Protein Syd OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=syd PE=3 SV=1 SYDP_SALPC - Protein Syd OS=Salmonella paratyphi C (strain RKS4594) GN=syd PE=3 SV=1 gi\|214003276 - gi\|214003276\|ref\|ZP_03414011.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica se... gi\|213854513 - gi\|213854513\|ref\|ZP_03382753.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica se... SYDP_SALCH - Protein syd OS=Salmonella choleraesuis GN=syd PE=3 SV=1 SYDP_SALTY - Protein syd OS=Salmonella typhimurium GN=syd PE=3 SV=1 SYDP_SALPB - Protein syd OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=syd PE=3 SV=1 SYDP_SALTY - Protein Syd OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=syd PE=3 SV=1 gi\|29138862, gi\|... - gi\|29143229\|ref\|NP_806571.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica serov... SYDP_SALTI - Protein Syd OS=Salmonella typhi GN=syd PE=3 SV=1 gi\|16761745 - gi\|16761745\|ref\|NP_457362.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica serov... gi\|168242728, gi... - gi\|205338206\|gb\|EDZ24970.1\| protein syd [Salmonella enterica subsp. enterica serovar Heidelberg str.... gi\|197290668, gi... - gi\|197290668\|gb\|EDY30022.1\| protein syd [Salmonella enterica subsp. enterica serovar Schwarzengrund ... gi\|168231058, gi... - gi\|205334608\|gb\|EDZ21372.1\| protein syd [Salmonella enterica subsp. enterica serovar Kentucky str. C... gi\|167993459, gi... - gi\|205328472\|gb\|EDZ15236.1\| protein syd [Salmonella enterica subsp. enterica serovar 4,[5],12:i:- st... SYDP_SALNS - Protein Syd OS=Salmonella newport (strain SL254) GN=syd PE=3 SV=1 gi\|168820312, gi... - gi\|205342829\|gb\|EDZ29593.1\| protein syd [Salmonella enterica subsp. enterica serovar Weltevreden str... gi\|168463882, gi... - gi\|195633334\|gb\|EDX51748.1\| protein syd [Salmonella enterica subsp. enterica serovar Newport str. SL... gi\|238909746 - gi\|238909746\|ref\|ZP_04653583.1\| SecY interacting protein Syd [Salmonella enterica subsp. enterica se... gi\|168261888, gi... - gi\|205349022\|gb\|EDZ35653.1\| syd protein [Salmonella enterica subsp. enterica serovar Hadar str. RI_0... gi\|167550166, gi... - gi\|205324877\|gb\|EDZ12716.1\| protein syd [Salmonella enterica subsp. enterica serovar Saintpaul str. ... SYDP_SALPB - Protein Syd OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=syd PE=3 SV=1	320.0	[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	307.0	[0..1]	[181..1]
SYDP_YERP3 - Protein Syd OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=syd PE=3 SV=1	307.0	[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...	303.0	[0..4]	[181..2]
SYDP_VIBPA - Protein syd OS=Vibrio parahaemolyticus GN=syd PE=3 SV=1 SYDP_VIBPA - Protein Syd OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=syd PE=3 SV=1 gi\|149747493, gi... - gi\|153839023\|ref\|ZP_01991690.1\| protein syd [Vibrio parahaemolyticus AQ3810], gi\|149747493\|gb\|EDM584...	302.0	[0..1]	[181..1]

Back

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 RKRTNLASNL AEFLNQLKPL 180
  181 L

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	129.585027
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