YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|227165130, gi...
Organism:	Proteus mirabilis ATCC 29906
Length:	119 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 gi|227165130, gi....

Description	E-value	Query Range	Subject Range
RNPA_SODGM - Ribonuclease P protein component OS=Sodalis glossinidius (strain morsitans) GN=rnpA PE=3 SV=1	130.0	[0..1]	[118..1]
RNPA_PECAS - Ribonuclease P protein component OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) GN... RNPA_ERWCT - Ribonuclease P protein component OS=Erwinia carotovora subsp. atroseptica GN=rnpA PE=3 SV=1	124.0	[0..1]	[117..1]
RNPA_YERPA - Ribonuclease P protein component OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=rnpA PE=3 SV=1 RNPA_YERPN - Ribonuclease P protein component OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=rnpA PE=3 SV=1 RNPA_YERP3 - Ribonuclease P protein component OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=r... gi\|89101594 - gi\|89101594\|ref\|ZP_01174320.1\| COG0594: RNase P protein component [Yersinia pestis biovar Orientalis... RNPA_YERPS - Ribonuclease P protein component OS=Yersinia pseudotuberculosis GN=rnpA PE=3 SV=1 gi\|150260965, gi... - gi\|150260965\|ref\|ZP_01917693.1\| ribonuclease P protein [Yersinia pestis CA88-4125], gi\|149290373\|gb\|... gi\|229839807, gi... - gi\|229839807\|ref\|ZP_04459966.1\| protein C5 component of RNase P [Yersinia pestis biovar Orientalis s... RNPA_YERPE - Ribonuclease P protein component OS=Yersinia pestis GN=rnpA PE=3 SV=1 RNPA_YERPP - Ribonuclease P protein component OS=Yersinia pestis (strain Pestoides F) GN=rnpA PE=3 SV=1 gi\|229841892, gi... - gi\|229841892\|ref\|ZP_04462048.1\| protein C5 component of RNase P [Yersinia pestis biovar Orientalis s... gi\|229896769, gi... - gi\|229896769\|ref\|ZP_04511932.1\| protein C5 component of RNase P [Yersinia pestis Pestoides A], gi\|22... gi\|21961129, gi\|... - gi\|22127983\|ref\|NP_671406.1\| ribonuclease P [Yersinia pestis KIM], gi\|21961129\|gb\|AAM87657.1\|AE01401... RNPA_YERPS - Ribonuclease P protein component OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=rnpA ... gi\|45443731, gi\|... - gi\|45443731\|ref\|NP_995270.1\| ribonuclease P [Yersinia pestis biovar Microtus str. 91001], gi\|4543860... gi\|15981990, gi\|... - gi\|218931077\|ref\|YP_002348952.1\| ribonuclease P [Yersinia pestis CO92], gi\|16124209\|ref\|NP_407522.1\|...	124.0	[0..1]	[119..1]
RNPA_PHOLL - Ribonuclease P protein component OS=Photorhabdus luminescens subsp. laumondii GN=rnpA PE=3 SV=1 RNPA_PHOLL - Ribonuclease P protein component OS=Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CI...	124.0	[0..1]	[119..1]
RNPA_YERE8 - Ribonuclease P protein component OS=Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 1... gi\|77973773 - gi\|77973773\|ref\|ZP_00829318.1\| COG0594: RNase P protein component [Yersinia frederiksenii ATCC 33641...	124.0	[0..1]	[119..1]
gi\|77958162 - gi\|77958162\|ref\|ZP_00822200.1\| COG0594: RNase P protein component [Yersinia bercovieri ATCC 43970]	123.0	[0..1]	[119..1]
RNPA_ECODH - Ribonuclease P protein component OS=Escherichia coli (strain K12 / DH10B) GN=rnpA PE=3 SV=1 RNPA_ECOSM - Ribonuclease P protein component OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=rnpA PE=3 SV=1 gi\|170124093, gi... - gi\|170766655\|ref\|ZP_02901108.1\| ribonuclease P protein component [Escherichia albertii TW07627], gi\|... gi\|188487535, gi... - gi\|188492336\|ref\|ZP_02999606.1\| ribonuclease P protein component [Escherichia coli 53638], gi\|188487... gi\|191165811, gi... - gi\|191165811\|ref\|ZP_03027649.1\| ribonuclease P protein component [Escherichia coli B7A], gi\|19090413... RNPA_ECO24 - Ribonuclease P protein component OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=rnpA PE=3 S... RNPA_ECO8A - Ribonuclease P protein component OS=Escherichia coli O8 (strain IAI1) GN=rnpA PE=3 SV=1 RNPA_ECO45 - Ribonuclease P protein component OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=rnpA PE=3 SV=1 RNPA_ECO81 - Ribonuclease P protein component OS=Escherichia coli O81 (strain ED1a) GN=rnpA PE=3 SV=1 RNPA_ECO55 - Ribonuclease P protein component OS=Escherichia coli (strain 55989 / EAEC) GN=rnpA PE=3 SV=1 RNPA_ECO7I - Ribonuclease P protein component OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=rnpA PE=3 SV=1 RNPA_ECOK1 - Ribonuclease P protein component OS=Escherichia coli O1:K1 / APEC GN=rnpA PE=3 SV=1 RNPA_ECOLU - Ribonuclease P protein component OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=rnpA PE=... gi\|30065012, gi\|... - gi\|30065012\|ref\|NP_839183.1\| ribonuclease P [Shigella flexneri 2a str. 2457T], gi\|30043273\|gb\|AAP189... RNPA_SHIBS - Ribonuclease P protein component OS=Shigella boydii serotype 4 (strain Sb227) GN=rnpA PE=3 SV=1 gi\|190909107, gi... - gi\|191170299\|ref\|ZP_03031852.1\| ribonuclease P protein component [Escherichia coli F11], gi\|19090910... EG10862 - protein C5 component of RNase P / RNase P, C5 protein component; involved in tRNA and 4.5S RNA-proce... gi\|89110309, gi\|... - gi\|89110309\|ref\|AP_004089.1\| protein C5 component of RNase P [Escherichia coli str. K-12 substr. W31... gi\|193063844, gi... - gi\|193063844\|ref\|ZP_03044931.1\| ribonuclease P protein component [Escherichia coli E22], gi\|19293055... RNPA_SHIFL - Ribonuclease P protein component OS=Shigella flexneri GN=rnpA PE=3 SV=1 RNPA_SHISS - Ribonuclease P protein component OS=Shigella sonnei (strain Ss046) GN=rnpA PE=3 SV=1 gi\|193069131, gi... - gi\|193069131\|ref\|ZP_03050088.1\| ribonuclease P protein component [Escherichia coli E110019], gi\|1929... gi\|24054238, gi\|... - gi\|24114986\|ref\|NP_709496.1\| ribonuclease P [Shigella flexneri 2a str. 301], gi\|24054238\|gb\|AAN45203... RNPA_SHIDS - Ribonuclease P protein component OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=rnpA PE=3 SV=1 gi\|194428119, gi... - gi\|194428119\|ref\|ZP_03060663.1\| ribonuclease P protein component [Escherichia coli B171], gi\|1944138... gi\|194435905, gi... - gi\|194435905\|ref\|ZP_03068008.1\| ribonuclease P protein component [Escherichia coli 101-1], gi\|194425... RNPA_ECOSE - Ribonuclease P protein component OS=Escherichia coli (strain SE11) GN=rnpA PE=3 SV=1 RNPA_ECO27 - Ribonuclease P protein component OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=rnpA PE=3 S... RNPA_ESCF3 - Ribonuclease P protein component OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568... RNPA_ECOLI - Ribonuclease P protein component (EC 3.1.26.5) (RNaseP protein) (RNase P protein) (Protein C5) - Esc... gi\|83571502 - gi\|83571502\|ref\|ZP_00922942.1\| COG0594: RNase P protein component [Shigella dysenteriae 1012] RNPA_SHIB3 - Ribonuclease P protein component OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=rnpA... RNPA_ECOUT - Ribonuclease P protein component OS=Escherichia coli (strain UTI89 / UPEC) GN=rnpA PE=3 SV=1 gi\|254290405, gi... - gi\|254290405\|ref\|YP_003056153.1\| ribonuclease P [Escherichia coli BL21(DE3)], gi\|253979712\|gb\|ACT453... gi\|253975556, gi... - gi\|254163655\|ref\|YP_003046763.1\| ribonuclease P [Escherichia coli B str. REL606], gi\|253975556\|gb\|AC... gi\|254038923, gi... - gi\|254038923\|ref\|ZP_04872975.1\| ribonuclease P protein component [Escherichia sp. 1_1_43], gi\|226838... sp\|B7UMH1\|RNPA_ECO27 - Ribonuclease P protein component OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=rnpA PE=3 S... gi\|251786970, gi... - gi\|251786970\|ref\|YP_003001274.1\| hypothetical protein B21_03531 [Escherichia coli BL21], gi\|24237924... RNPA_ECOHS - Ribonuclease P protein component OS=Escherichia coli O9:H4 (strain HS) GN=rnpA PE=3 SV=1 RNPA_ECOBW - Ribonuclease P protein component OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=rnpA PE=3 SV=... gi\|226902770, gi... - gi\|237703506\|ref\|ZP_04533987.1\| ribonuclease P protein component [Escherichia sp. 3_2_53FAA], gi\|226... EG10862 - protein C5 component of RNase P / RNase P, C5 protein component; involved in tRNA and 4.5S RNA-proce...	122.0	[0..1]	[119..1]
gi\|29139609, gi\|... - gi\|29143973\|ref\|NP_807315.1\| ribonuclease P [Salmonella enterica subsp. enterica serovar Typhi str. ... gi\|16762485 - gi\|16762485\|ref\|NP_458102.1\| ribonuclease P [Salmonella enterica subsp. enterica serovar Typhi str. ... RNPA_SALTI - Ribonuclease P protein component OS=Salmonella typhi GN=rnpA PE=3 SV=1 RNPA_SALTY - Ribonuclease P protein component OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=... RNPA_SALPA - Ribonuclease P protein component OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=rnpA PE=3 ... RNPA_SALPA - Ribonuclease P protein component OS=Salmonella paratyphi A GN=rnpA PE=3 SV=1 lcl\|NC_016856.1_... - [gene=rnpA] [protein=ribonuclease P] [protein_id=YP_005240108.1] [location=4059535..4059894] RNPA_SALTI - Ribonuclease P protein component OS=Salmonella typhi GN=rnpA PE=3 SV=1 RNPA_SALTY - Ribonuclease P protein component OS=Salmonella typhimurium GN=rnpA PE=3 SV=1 gi\|197243924, gi... - gi\|197265669\|ref\|ZP_03165743.1\| ribonuclease P protein component [Salmonella enterica subsp. enteric... RNPA_SALDC - Ribonuclease P protein component OS=Salmonella dublin (strain CT_02021853) GN=rnpA PE=3 SV=1 gi\|200388996, gi... - gi\|200388996\|ref\|ZP_03215608.1\| ribonuclease P protein component [Salmonella enterica subsp. enteric... gi\|204928601, gi... - gi\|204928601\|ref\|ZP_03219800.1\| ribonuclease P protein component [Salmonella enterica subsp. enteric... RNPA_SALHS - Ribonuclease P protein component OS=Salmonella heidelberg (strain SL476) GN=rnpA PE=3 SV=1 gi\|194458165, gi... - gi\|194471801\|ref\|ZP_03077785.1\| ribonuclease P protein component [Salmonella enterica subsp. enteric... RNPA_SALSV - Ribonuclease P protein component OS=Salmonella schwarzengrund (strain CVM19633) GN=rnpA PE=3 SV=1 RNPA_SALTY - Ribonuclease P protein component OS=Salmonella typhimurium GN=rnpA PE=3 SV=1 RNPA_SALA4 - Ribonuclease P protein component OS=Salmonella agona (strain SL483) GN=rnpA PE=3 SV=1 gi\|168242060, gi... - gi\|205339035\|gb\|EDZ25799.1\| ribonuclease P protein component [Salmonella enterica subsp. enterica se... gi\|205350335, gi... - gi\|205350335\|gb\|EDZ36966.1\| ribonuclease P protein component [Salmonella enterica subsp. enterica se... gi\|195632089, gi... - gi\|195632089\|gb\|EDX50573.1\| ribonuclease P protein component [Salmonella enterica subsp. enterica se... RNPA_SALNS - Ribonuclease P protein component OS=Salmonella newport (strain SL254) GN=rnpA PE=3 SV=1 RNPA_SALG2 - Ribonuclease P protein component OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=rnpA PE=3 ... RNPA_SALEP - Ribonuclease P protein component OS=Salmonella enteritidis PT4 (strain P125109) GN=rnpA PE=3 SV=1 gi\|213052695 - gi\|213052695\|ref\|ZP_03345573.1\| ribonuclease P [Salmonella enterica subsp. enterica serovar Typhi st... gi\|213648783 - gi\|213648783\|ref\|ZP_03378836.1\| ribonuclease P [Salmonella enterica subsp. enterica serovar Typhi st...	121.0	[0..1]	[119..1]
RNPA_ECOL6 - Ribonuclease P protein component OS=Escherichia coli O6 GN=rnpA PE=3 SV=1 RNPA_ECOL6 - Ribonuclease P protein component OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=r...	120.0	[0..1]	[117..1]
RNPA_ECO57 - Ribonuclease P protein component OS=Escherichia coli O157:H7 GN=rnpA PE=3 SV=1 gi\|12518543, gi\|... - gi\|15804298\|ref\|NP_290337.1\| ribonuclease P [Escherichia coli O157:H7 EDL933], gi\|12518543\|gb\|AAG589... gi\|13364114, gi\|... - gi\|15833893\|ref\|NP_312666.1\| ribonuclease P [Escherichia coli O157:H7 str. Sakai], gi\|13364114\|dbj\|B... gi\|208739636, gi... - gi\|208819513\|ref\|ZP_03259833.1\| ribonuclease P protein component [Escherichia coli O157:H7 str. EC40... gi\|209754090, gi... - pir\|\|A86055 hypothetical protein rnpA [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|208813040, gi... - gi\|208813040\|ref\|ZP_03254369.1\| ribonuclease P protein component [Escherichia coli O157:H7 str. EC40... gi\|208726197, gi... - gi\|208806396\|ref\|ZP_03248733.1\| ribonuclease P protein component [Escherichia coli O157:H7 str. EC42... gi\|168798741, gi... - gi\|189378731\|gb\|EDU97147.1\| ribonuclease P protein component [Escherichia coli O157:H7 str. EC508], ... gi\|217322271, gi... - gi\|217326050\|ref\|ZP_03442134.1\| ribonuclease P protein component [Escherichia coli O157:H7 str. TW14... RNPA_ECO5E - Ribonuclease P protein component OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=rnpA PE=3 SV=... gi\|168748578, gi... - gi\|188016991\|gb\|EDU55113.1\| ribonuclease P protein component [Escherichia coli O157:H7 str. EC4113],... gi\|168786536, gi... - gi\|189373418\|gb\|EDU91834.1\| ribonuclease P protein component [Escherichia coli O157:H7 str. EC869], ... gi\|189002536, gi... - gi\|189002536\|gb\|EDU71522.1\| ribonuclease P protein component [Escherichia coli O157:H7 str. EC4076],... gi\|168772259, gi... - gi\|187771399\|gb\|EDU35243.1\| ribonuclease P protein component [Escherichia coli O157:H7 str. EC4196],... gi\|168753595, gi... - gi\|189359348\|gb\|EDU77767.1\| ribonuclease P protein component [Escherichia coli O157:H7 str. EC4401],... gi\|254795707, gi... - gi\|254795707\|ref\|YP_003080544.1\| protein C5 component of RNase P [Escherichia coli O157:H7 str. TW14...	120.0	[0..1]	[119..1]

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Predicted Domain #1

Region A:
Residues: [1-119]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVKLAFPREL RLLTPKHFNF VFQQPQRASS PEVTILGRQN ELGHPRIGLT IAKKNVKRAH  60
   61 ERNRIKRLAR EYFRLHQHQL PAMDFVVLVR KGVAELDNHQ LTEVLGKLWR RHCRLAQKS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	19.522879
Match:	1d6tA
Description:	RNase P protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
tRNA-specific ribonuclease activity	6.1454778021122	bayes_pls_golite062009
ribonuclease P activity	5.34408239201797	bayes_pls_golite062009
structural constituent of ribosome	3.49304472389303	bayes_pls_golite062009
RNA binding	2.94550290381601	bayes_pls_golite062009
structural molecule activity	2.91017901273919	bayes_pls_golite062009
3'-5'-exoribonuclease activity	2.16830676862423	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	1.94887328847363	bayes_pls_golite062009
exoribonuclease activity	1.90081280972069	bayes_pls_golite062009
mRNA binding	1.42024615739664	bayes_pls_golite062009
ribonuclease activity	1.31550811238109	bayes_pls_golite062009
transcription regulator activity	1.20748032530392	bayes_pls_golite062009
nucleic acid binding	1.05662964529454	bayes_pls_golite062009
binding	0.907487229190259	bayes_pls_golite062009
catalytic activity	0.878454819018611	bayes_pls_golite062009
DNA binding	0.828609700556836	bayes_pls_golite062009
nuclease activity	0.69721312877891	bayes_pls_golite062009
3'-5' exonuclease activity	0.477960254167	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: