YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24375608, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	737 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|24375608, gi|....

Description	E-value	Query Range	Subject Range
gi\|54307478, gi\|... - gi\|54307478\|ref\|YP_128498.1\| primosome assembly protein PriA [Photobacterium profundum SS9], gi\|4691...	446.0	[0..2]	[736..3]
gi\|229524656, gi... - gi\|229524656\|ref\|ZP_04414061.1\| helicase PriA essential for oriC/DnaA-independent DNA replication [V... gi\|116221040, gi... - gi\|75819863\|ref\|ZP_00749926.1\| COG1198: Primosomal protein N' (replication factor Y) - superfamily I...	442.0	[0..2]	[736..3]
gi\|11355820 - pir\|\|A82047 primosomal replication factor Y VC2678 [similarity] - Vibrio cholerae (strain N16961 ser... gi\|254851215, gi... - gi\|75830093\|ref\|ZP_00759378.1\| COG1198: Primosomal protein N' (replication factor Y) - superfamily I... gi\|146315928, gi... - gi\|75827923\|ref\|ZP_00757358.1\| COG1198: Primosomal protein N' (replication factor Y) - superfamily I... gi\|121727584, gi... - gi\|75816602\|ref\|ZP_00747068.1\| COG1198: Primosomal protein N' (replication factor Y) - superfamily I... gi\|227010682, gi... - gi\|227082794\|ref\|YP_002811345.1\| primosomal protein N' [Vibrio cholerae M66-2], gi\|227010682\|gb\|ACP0... gi\|229507274, gi... - gi\|229507274\|ref\|ZP_04396779.1\| helicase PriA essential for oriC/DnaA-independent DNA replication [V... gi\|229509803, gi... - gi\|229509803\|ref\|ZP_04399284.1\| helicase PriA essential for oriC/DnaA-independent DNA replication [V... gi\|229516927, gi... - gi\|229516927\|ref\|ZP_04406373.1\| helicase PriA essential for oriC/DnaA-independent DNA replication [V... gi\|9657272, gi\|1... - gi\|9657272\|gb\|AAF95819.1\| primosomal protein N` [Vibrio cholerae O1 biovar El Tor str. N16961], gi\|1... gi\|229606780, gi... - gi\|229606780\|ref\|YP_002877428.1\| helicase PriA essential for oriC/DnaA-independent DNA replication [... gi\|121547234, gi... - gi\|121590912\|ref\|ZP_01678234.1\| primosomal protein N` [Vibrio cholerae 2740-80], gi\|121547234\|gb\|EAX... gi\|153221082, gi... - gi\|153221082\|ref\|ZP_01952137.1\| primosomal protein N` [Vibrio cholerae MAK 757], gi\|124119993\|gb\|EAY...	442.0	[0..2]	[736..3]
gi\|75824020, gi\|... - gi\|75824020\|ref\|ZP_00753490.1\| COG1198: Primosomal protein N' (replication factor Y) - superfamily I... tr\|D7HFV6\|D7HFV6... - Primosomal protein N' OS=Vibrio cholerae RC385 GN=priA PE=3 SV=1	441.0	[0..2]	[736..3]
gi\|71737372, gi\|... - gi\|71737372\|ref\|YP_272688.1\| primosome assembly protein PriA [Pseudomonas syringae pv. phaseolicola ...	438.0	[0..1]	[736..1]
gi\|23469728, gi\|... - gi\|66043665\|ref\|YP_233506.1\| primosome assembly protein PriA [Pseudomonas syringae pv. syringae B728...	436.0	[0..1]	[736..1]
gi\|84376646, gi\|... - gi\|84390843\|ref\|ZP_00991535.1\| primosome assembly protein PriA [Vibrio splendidus 12B01], gi\|8437664...	436.0	[0..2]	[736..3]
gi\|125999240, gi... - gi\|68541944\|ref\|ZP_00581682.1\| Primosomal protein n [Shewanella baltica OS155], gi\|68520331\|gb\|EAN43...	436.0	[0..1]	[737..1]
gi\|89075188, gi\|... - gi\|89075188\|ref\|ZP_01161619.1\| primosome assembly protein PriA [Photobacterium sp. SKA34], gi\|890490...	436.0	[0..2]	[736..3]
gi\|160859140, gi... - gi\|160873618\|ref\|YP_001552934.1\| primosomal protein N' [Shewanella baltica OS195], gi\|160859140\|gb\|A...	436.0	[0..1]	[737..1]

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Predicted Domain #1

Region A:
Residues: [1-737]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLFVEVALP VPMRQNFTYR VKTNEQNDDS PQAKPQIGVR VKVPFGRQQL IGLVTAITDS  60
   61 CDLAPTQLKS VIEFIDDAPL LPESLYKLTL WAARYYFCSQ GQMLTQALPV ALRKGLDAAP 120
  121 QKIQYWQITT IGSNIAPETL KRAPAQKKLL EHLKQTSLTQ EEVISLELNK TALKTLEEKG 180
  181 WIAQHEKIAQ LNLDWRSQLE LDETPHRLNK EQAVAVTVLT QQQGYHCTLL EGITGSGKTE 240
  241 VYLALLEHIL KQGKQALILV PEIGLTPQTI NRFKRRFRVN VAVLHSGLTD NQRLEAWRQA 300
  301 RCGQAAIIIG TRSALFTPMA FPGVIILDEE HDSSFKQQEG VGYHARDLAV MRGHLESIPV 360
  361 VLGSATPSLE SLQNALSGRY HHLQLGERAG NAKKVRQGII DIKNLPLKAG MSAPLINEIR 420
  421 SHLDAGNQVL LFLNRRGFAP ALLCHECGHL HECDRCDAFF TVHQSLGEIR CHHCGNQYAI 480
  481 PRQCHNCGST MLMGQGIGTE QLAEALQLEF PKYPVVRIDR DTTRLKGSLE SHLSAIHKGE 540
  541 YKILVGTQML AKGHHFPDVT LVGLLDVDGA LFSADFRAPE RFGQLYTQVA GRAGRANKLG 600
  601 TVLLQTHQSD NPILRDLLHR GYGEFARSQL KERQMALLPP AWHMVLVRAE AHSALDADNF 660
  661 LNSFASLLPQ DKEFEIIGPM PAPLDRKAGK FRRQLMFQAK HRHRLQQEFE RIYPLVEQLP 720
  721 EAKRCRWSLD RDPQDLL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	73.154902
Match:	2eyqA
Description:	Crystal structure of Escherichia coli transcription-repair coupling factor
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA clamp loader activity	4.91429252297969	bayes_pls_golite062009
protein-DNA loading ATPase activity	4.80695929076807	bayes_pls_golite062009
binding	3.20817609308002	bayes_pls_golite062009
DNA-dependent ATPase activity	2.72462789867829	bayes_pls_golite062009
DNA helicase activity	2.2817164193758	bayes_pls_golite062009
nucleic acid binding	2.2502397577006	bayes_pls_golite062009
transcription regulator activity	2.19474222771129	bayes_pls_golite062009
pyrophosphatase activity	2.13284212711072	bayes_pls_golite062009
DNA binding	2.03222535159295	bayes_pls_golite062009
ATP-dependent DNA helicase activity	1.88455339138556	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
DNA-directed DNA polymerase activity	0.971476020912368	bayes_pls_golite062009
DNA polymerase activity	0.928091843881235	bayes_pls_golite062009
transcription factor activity	0.802855430913287	bayes_pls_golite062009
structure-specific DNA binding	0.782430219754236	bayes_pls_golite062009
double-stranded DNA binding	0.6071273686445	bayes_pls_golite062009
RNA helicase activity	0.18426050934025	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.147579541298736	bayes_pls_golite062009
RNA-dependent ATPase activity	0.14606996093053	bayes_pls_golite062009
ATP-dependent RNA helicase activity	0.13050483816765	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.113504049290503	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.111293884322157	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	bayes_pls_golite062009
structural constituent of ribosome	0.089234257580272	bayes_pls_golite062009
3'-5' DNA helicase activity	0.0769112340058804	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: