YRC Public Data Repository - Protein Structure Prediction

Protein:	SSRP_COXBU
Organism:	Coxiella burnetii RSA 493
Length:	159 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 SSRP_COXBU.

Description	E-value	Query Range	Subject Range
gi\|204929524, gi... - gi\|204929524\|ref\|ZP_03220598.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Ja... gi\|197940299, gi... - gi\|198245783\|ref\|YP_002216696.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar D... gi\|197301208, gi... - gi\|197301208\|ref\|ZP_02664518.2\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Sc... gi\|195633702, gi... - gi\|195873630\|ref\|ZP_02698054.2\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Ne... gi\|161615620, gi... - gi\|161615620\|ref\|YP_001589585.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar P... gi\|62128891, gi\|... - gi\|62181258\|ref\|YP_217675.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Chole...	253.0	[0..1]	[159..16]
gi\|238793792, gi... - gi\|77978429\|ref\|ZP_00833858.1\| COG0691: tmRNA-binding protein [Yersinia intermedia ATCC 29909], gi\|2...	249.0	[0..1]	[157..5]
gi\|77958609, gi\|... - gi\|77958609\|ref\|ZP_00822640.1\| COG0691: tmRNA-binding protein [Yersinia bercovieri ATCC 43970], gi\|2...	248.0	[0..1]	[157..5]
SSRP_SALPC - SsrA-binding protein OS=Salmonella paratyphi C (strain RKS4594) GN=smpB PE=3 SV=1 gi\|213650040 - gi\|213650040\|ref\|ZP_03380093.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Ty... gi\|213424852 - gi\|213424852\|ref\|ZP_03357602.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Ty... SSRP_SALPB - SsrA-binding protein OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=smpB PE=3 SV=2 SSRP_SALPA - SsrA-binding protein OS=Salmonella paratyphi A GN=smpB PE=3 SV=1 SSRP_SALCH - SsrA-binding protein OS=Salmonella choleraesuis GN=smpB PE=3 SV=2 SSRP_SALTI - SsrA-binding protein OS=Salmonella typhi GN=smpB PE=3 SV=2 gi\|29143011, gi\|... - gi\|29143011\|ref\|NP_806353.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Typhi... gi\|16761540 - gi\|16761540\|ref\|NP_457157.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Typhi... SSRP_SALTI - SsrA-binding protein OS=Salmonella typhi GN=smpB PE=3 SV=2 SSRP_SALCH - SsrA-binding protein OS=Salmonella choleraesuis (strain SC-B67) GN=smpB PE=3 SV=2 SSRP_SALTY - SsrA-binding protein OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=smpB PE=3 SV... lcl\|NC_016856.1_... - [gene=smpB] [protein=SsrA-binding protein] [protein_id=YP_005238813.1] [location=2880401..2880883] SSRP_SALCH - SsrA-binding protein OS=Salmonella choleraesuis GN=smpB PE=3 SV=2 gi\|205331835, gi... - gi\|205331835\|gb\|EDZ18599.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Kentuc... gi\|238909530 - gi\|238909530\|ref\|ZP_04653367.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Te... gi\|205329322, gi... - gi\|205329322\|gb\|EDZ16086.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar 4,[5],... SSRP_SALPB - SsrA-binding protein OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=smpB PE=3 SV=2 gi\|205322056, gi... - gi\|205322056\|gb\|EDZ09895.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Saintp... SSRP_SALG2 - SsrA-binding protein OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=smpB PE=3 SV=1 gi\|200387705, gi... - gi\|200387705\|ref\|ZP_03214317.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Vi... SSRP_SALPK - SsrA-binding protein OS=Salmonella paratyphi A (strain AKU_12601) GN=smpB PE=3 SV=1 gi\|197241716, gi... - gi\|197263461\|ref\|ZP_03163535.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Sa... gi\|213416794 - gi\|213416794\|ref\|ZP_03349938.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Ty... gi\|213052721 - gi\|213052721\|ref\|ZP_03345599.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Ty... gi\|213027768 - gi\|213027768\|ref\|ZP_03342215.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Ty... SSRP_SALEP - SsrA-binding protein OS=Salmonella enteritidis PT4 (strain P125109) GN=smpB PE=3 SV=1 SSRP_SALNS - SsrA-binding protein OS=Salmonella newport (strain SL254) GN=smpB PE=3 SV=1 gi\|205340643, gi... - gi\|205340643\|gb\|EDZ27407.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Weltev... gi\|168262137, gi... - gi\|205349260\|gb\|EDZ35891.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Hadar ... gi\|168244713, gi... - gi\|205336461\|gb\|EDZ23225.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Heidel... SSRP_SALPA - SsrA-binding protein OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=smpB PE=3 SV=1 SSRP_SALA4 - SsrA-binding protein OS=Salmonella agona (strain SL483) GN=smpB PE=3 SV=1 SSRP_SALTY - SsrA-binding protein OS=Salmonella typhimurium GN=smpB PE=3 SV=2 SSRP_SALSV - SsrA-binding protein OS=Salmonella schwarzengrund (strain CVM19633) GN=smpB PE=3 SV=1 gi\|194456408, gi... - gi\|194470044\|ref\|ZP_03076028.1\| SsrA-binding protein [Salmonella enterica subsp. enterica serovar Ke... SSRP_SALTY - SsrA-binding protein OS=Salmonella typhimurium GN=smpB PE=3 SV=2 SSRP_SALHS - SsrA-binding protein OS=Salmonella heidelberg (strain SL476) GN=smpB PE=3 SV=1	248.0	[0..1]	[159..1]
gi\|238796717, gi... - gi\|77963356\|ref\|ZP_00827166.1\| COG0691: tmRNA-binding protein [Yersinia mollaretii ATCC 43969], gi\|2...	248.0	[0..1]	[157..5]
SSRP_ECOL5 - SsrA-binding protein OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=smpB PE=3 SV=1	248.0	[0..1]	[157..1]
SSRP_ECO27 - SsrA-binding protein OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=smpB PE=3 SV=1 gi\|217327278, gi... - gi\|217327278\|ref\|ZP_03443361.1\| SsrA-binding protein [Escherichia coli O157:H7 str. TW14588], gi\|217... SSRP_ESCF3 - SsrA-binding protein OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73) GN=smpB... SSRP_ECO8A - SsrA-binding protein OS=Escherichia coli O8 (strain IAI1) GN=smpB PE=3 SV=1 SSRP_ECOLC - SsrA-binding protein OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=smpB PE=3 SV=1 SSRP_ECO45 - SsrA-binding protein OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=smpB PE=3 SV=1 SSRP_ECO81 - SsrA-binding protein OS=Escherichia coli O81 (strain ED1a) GN=smpB PE=3 SV=1 SSRP_ECO55 - SsrA-binding protein OS=Escherichia coli (strain 55989 / EAEC) GN=smpB PE=3 SV=1 SSRP_ECO7I - SsrA-binding protein OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=smpB PE=3 SV=1 SSRP_ECOSM - SsrA-binding protein OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=smpB PE=3 SV=1 EG11782 - tmRNA-binding trans-translation protein / tmRNA RNA-binding protein; required for peptide-tagging tr... gi\|170124997, gi... - gi\|170765851\|ref\|ZP_02900662.1\| SsrA-binding protein [Escherichia albertii TW07627], gi\|170124997\|gb... gi\|195939671 - gi\|195939671\|ref\|ZP_03085053.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC4024] gi\|208726157, gi... - gi\|208806356\|ref\|ZP_03248693.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC4206], gi\|2087... gi\|208733142, gi... - gi\|208811865\|ref\|ZP_03253194.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC4045], gi\|2087... gi\|208739006, gi... - gi\|208818883\|ref\|ZP_03259203.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC4042], gi\|2087... SSRP_ECO5E - SsrA-binding protein OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=smpB PE=3 SV=1 SSRP_ECOSE - SsrA-binding protein OS=Escherichia coli (strain SE11) GN=smpB PE=3 SV=1 SSRP_ECOLU - SsrA-binding protein OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=smpB PE=3 SV=1 SSRP_SHIBS - SsrA-binding protein OS=Shigella boydii serotype 4 (strain Sb227) GN=smpB PE=3 SV=1 gi\|89109420, gi\|... - gi\|89109420\|ref\|AP_003200.1\| trans-translation protein [Escherichia coli str. K-12 substr. W3110], g... SSRP_ECOL6 - SsrA-binding protein OS=Escherichia coli O6 GN=smpB PE=3 SV=2 SSRP_SHIDS - SsrA-binding protein OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=smpB PE=3 SV=1 SSRP_ECOHS - SsrA-binding protein OS=Escherichia coli O9:H4 (strain HS) GN=smpB PE=3 SV=1 SSRP_SHIFL - SsrA-binding protein OS=Shigella flexneri GN=smpB PE=3 SV=2 gi\|194427889, gi... - gi\|75210861\|ref\|ZP_00710985.1\| COG0691: tmRNA-binding protein [Escherichia coli B171], gi\|194427889\|... SSRP_SHIB3 - SsrA-binding protein OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=smpB PE=3 SV=1 SSRP_ECO24 - SsrA-binding protein OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=smpB PE=3 SV=1 gi\|24113957, gi\|... - gi\|24113957\|ref\|NP_708467.1\| SsrA-binding protein [Shigella flexneri 2a str. 301], gi\|24053066\|gb\|AA... gi\|75255982, gi\|... - gi\|75255982\|ref\|ZP_00727706.1\| COG0691: tmRNA-binding protein [Escherichia coli E22], gi\|193065979\|r... SSRP_ECOL6 - SsrA-binding protein OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=smpB PE=3 SV=... SSRP_SHISS - SsrA-binding protein OS=Shigella sonnei (strain Ss046) GN=smpB PE=3 SV=1 SSRP_ECOLI - SsrA-binding protein (Small protein B) - Escherichia coli gi\|191167080, gi... - gi\|75229737\|ref\|ZP_00716267.1\| COG0691: tmRNA-binding protein [Escherichia coli B7A], gi\|191167080\|r... gi\|51773739 - gi\|51773739\|emb\|CAH23264.1\| small protein B [Bacteriophage CP-1639] gi\|190908337, gi... - gi\|75241605\|ref\|ZP_00725442.1\| COG0691: tmRNA-binding protein [Escherichia coli F11], gi\|191171403\|r... SSRP_ECOUT - SsrA-binding protein OS=Escherichia coli (strain UTI89 / UPEC) GN=smpB PE=3 SV=1 gi\|189357274, gi... - gi\|189357274\|gb\|EDU75693.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC4401], gi\|16875536... gi\|15832736, gi\|... - gi\|15832736\|ref\|NP_311509.1\| SsrA-binding protein [Escherichia coli O157:H7 str. Sakai], gi\|13362953... SSRP_ECOK1 - SsrA-binding protein OS=Escherichia coli O1:K1 / APEC GN=smpB PE=3 SV=1 gi\|168762412, gi... - gi\|189367235\|gb\|EDU85651.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC4501], gi\|16876241... SSRP_SHIF8 - SsrA-binding protein OS=Shigella flexneri serotype 5b (strain 8401) GN=smpB PE=3 SV=1 gi\|124500910, gi... - gi\|124528018\|ref\|ZP_01699371.1\| SsrA-binding protein [Escherichia coli B], gi\|124500910\|gb\|EAY48378.... gi\|168768707, gi... - gi\|189362100\|gb\|EDU80519.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC4486], gi\|16876870... gi\|168774854, gi... - gi\|187769589\|gb\|EDU33433.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC4196], gi\|16877485... gi\|194418736, gi... - gi\|83569988\|ref\|ZP_00921436.1\| COG0691: tmRNA-binding protein [Shigella dysenteriae 1012], gi\|194433... gi\|189003291, gi... - gi\|189003291\|gb\|EDU72277.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC4076], gi\|16877859... gi\|83585176, gi\|... - gi\|83585176\|ref\|ZP_00923827.1\| COG0691: tmRNA-binding protein [Escherichia coli 101-1], gi\|194439464... gi\|189370864, gi... - gi\|189370864\|gb\|EDU89280.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC869], gi\|168789522... gi\|189377200, gi... - gi\|189377200\|gb\|EDU95616.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC508], gi\|168800499... SSRP_ECODH - SsrA-binding protein OS=Escherichia coli (strain K12 / DH10B) GN=smpB PE=3 SV=1 gi\|188013615, gi... - gi\|188013615\|gb\|EDU51737.1\| SsrA-binding protein [Escherichia coli O157:H7 str. EC4113], gi\|16875258... EG11782 - tmRNA-binding trans-translation protein / tmRNA RNA-binding protein; required for peptide-tagging tr... gi\|30042274, gi\|... - gi\|30064018\|ref\|NP_838189.1\| SsrA-binding protein [Shigella flexneri 2a str. 2457T], gi\|30042274\|gb\|... SSRP_ECO57 - SsrA-binding protein OS=Escherichia coli O157:H7 GN=smpB PE=3 SV=2 sp\|B7UH68\|SSRP_ECO27 - SsrA-binding protein OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=smpB PE=3 SV=1 gi\|254593965, gi... - gi\|254794565\|ref\|YP_003079402.1\| trans-translation protein [Escherichia coli O157:H7 str. TW14359], ... gi\|254162589, gi... - gi\|254162589\|ref\|YP_003045697.1\| SsrA-binding protein [Escherichia coli B str. REL606], gi\|253974490... gi\|226839319, gi... - gi\|254037695\|ref\|ZP_04871753.1\| trans-translation protein [Escherichia sp. 1_1_43], gi\|226839319\|gb\|... gi\|253323531, gi... - gi\|254289350\|ref\|YP_003055098.1\| SsrA-binding protein [Escherichia coli BL21(DE3)], gi\|253978657\|gb\|... gi\|242378214, gi... - gi\|251785941\|ref\|YP_003000245.1\| hypothetical protein B21_02472 [Escherichia coli BL21], gi\|24237821... SSRP_ECOBW - SsrA-binding protein OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=smpB PE=3 SV=1 gi\|226899832, gi... - gi\|237706792\|ref\|ZP_04537273.1\| trans-translation protein [Escherichia sp. 3_2_53FAA], gi\|226899832\|...	247.0	[0..1]	[157..1]
gi\|45440889, gi\|... - gi\|45440889\|ref\|NP_992428.1\| SsrA-binding protein [Yersinia pestis biovar Microtus str. 91001], gi\|4... gi\|108806576, gi... - gi\|108806576\|ref\|YP_650492.1\| SsrA-binding protein [Yersinia pestis Antiqua], gi\|108778489\|gb\|ABG125... gi\|89105214 - gi\|89105214\|ref\|ZP_01177738.1\| COG0691: tmRNA-binding protein [Yersinia pestis biovar Orientalis str... gi\|145211557, gi... - gi\|145599861\|ref\|YP_001163937.1\| SsrA-binding protein [Yersinia pestis Pestoides F], gi\|145211557\|gb... gi\|22126955, gi\|... - gi\|22126955\|ref\|NP_670378.1\| SsrA-binding protein [Yersinia pestis KIM], gi\|21959996\|gb\|AAM86629.1\|A... gi\|108813057, gi... - gi\|108813057\|ref\|YP_648824.1\| SsrA-binding protein [Yersinia pestis Nepal516], gi\|108776705\|gb\|ABG19... gi\|77632094, gi\|... - gi\|77632094\|ref\|ZP_00794680.1\| COG0691: tmRNA-binding protein [Yersinia pseudotuberculosis IP 31758]... gi\|170025202, gi... - gi\|170025202\|ref\|YP_001721707.1\| SsrA-binding protein [Yersinia pseudotuberculosis YPIII], gi\|169751... gi\|162354036, gi... - gi\|77636440\|ref\|ZP_00798514.1\| COG0691: tmRNA-binding protein [Yersinia pestis Angola], gi\|162421221... gi\|167057066, gi... - gi\|167424217\|ref\|ZP_02315970.1\| SsrA-binding protein [Yersinia pestis biovar Mediaevalis str. K19730... gi\|186894532, gi... - gi\|186894532\|ref\|YP_001871644.1\| SsrA-binding protein [Yersinia pseudotuberculosis PB1/+], gi\|186697...	245.0	[0..1]	[157..5]
gi\|12517044, gi\|... - gi\|15803140\|ref\|NP_289172.1\| SsrA-binding protein [Escherichia coli O157:H7 EDL933], gi\|12517044\|gb\|... gi\|25317468 - gi\|25317468\|pir\|\|F85908 small protein B [imported] - Escherichia coli (strain O157:H7, substrain EDL...	244.0	[0..1]	[157..1]
gi\|188494999, gi... - gi\|75513225\|ref\|ZP_00735667.1\| COG0691: tmRNA-binding protein [Escherichia coli 53638], gi\|188494999...	244.0	[0..1]	[157..1]

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Predicted Domain #1

Region A:
Residues: [1-159]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNKQISKKPA QRTIALNKKA LHDYYVEQRF EAGLVLEGWE VKSIRAGRVQ LRDSYVVFKG  60
   61 GEAWLIGAHL SPLPNVAEYM KADPQRSRKL LLNKREIGKL FGAVQKQGLT VVPLDLHWHK 120
  121 NHVKVEIVLA KGKKTHDKRE TIKRREWERE KHRVLKSHG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	50.39794
Match:	1p6vA
Description:	Crystal structure of the tRNA domain of transfer-messenger RNA in complex with SmpB
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleic acid binding	3.32492468545684	bayes_pls_golite062009
binding	2.51918663753466	bayes_pls_golite062009
RNA binding	2.15601096339293	bayes_pls_golite062009

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: