YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24373384, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	690 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|24373384, gi|....

Description	E-value	Query Range	Subject Range
gi\|117921071, gi... - gi\|78688183\|ref\|ZP_00852900.1\| Helicase c2 [Shewanella sp. ANA-3], gi\|78504083\|gb\|EAP17659.1\| Helica...	389.0	[0..1]	[690..1]
gi\|113970805, gi... - gi\|82498111\|ref\|ZP_00883626.1\| Helicase c2 [Shewanella sp. MR-4], gi\|82403912\|gb\|EAP44618.1\| Helicas...	389.0	[0..1]	[690..1]
gi\|78509205, gi\|... - gi\|78691412\|ref\|ZP_00856030.1\| Helicase c2 [Shewanella sp. MR-7], gi\|78509205\|gb\|EAP22609.1\| Helicas...	389.0	[0..1]	[690..1]
gi\|120559484, gi... - gi\|82744031\|ref\|ZP_00906635.1\| Helicase c2 [Shewanella sp. W3-18-1], gi\|82718604\|gb\|EAP53566.1\| Heli... gi\|77808840, gi\|... - gi\|77816219\|ref\|ZP_00815421.1\| Helicase c2 [Shewanella putrefaciens CN-32], gi\|77808840\|gb\|EAO93258....	388.0	[0..1]	[690..1]
gi\|151364765, gi... - gi\|153000147\|ref\|YP_001365828.1\| ATP-dependent DNA helicase DinG [Shewanella baltica OS185], gi\|1513... gi\|113950316, gi... - gi\|160874769\|ref\|YP_001554085.1\| ATP-dependent DNA helicase DinG [Shewanella baltica OS195], gi\|1608...	386.0	[0..1]	[690..1]
gi\|68518596, gi\|... - gi\|68543687\|ref\|ZP_00583382.1\| Helicase c2 [Shewanella baltica OS155], gi\|68518596\|gb\|EAN42162.1\| He...	385.0	[0..1]	[690..1]
gi\|78368439, gi\|... - gi\|78368439\|ref\|ZP_00838670.1\| Helicase c2 [Shewanella sp. PV-4], gi\|78359490\|gb\|EAP01351.1\| Helicas...	375.0	[0..1]	[690..1]
gi\|28805994 - gi\|28805994\|dbj\|BAC59270.1\| ATP-dependent helicase, DinG family [Vibrio parahaemolyticus RIMD 221063... gi\|28897781, gi\|... - gi\|28897781\|ref\|NP_797386.1\| ATP-dependent DNA helicase DinG [Vibrio parahaemolyticus RIMD 2210633],...	369.0	[0..1]	[690..1]
gi\|119766886, gi... - gi\|68548058\|ref\|ZP_00587577.1\| Helicase c2 [Shewanella amazonensis SB2B], gi\|68514216\|gb\|EAN37958.1\|...	367.0	[0..1]	[690..1]
gi\|91189879, gi\|... - gi\|91225240\|ref\|ZP_01260408.1\| ATP-dependent helicase, DinG family protein [Vibrio alginolyticus 12G...	366.0	[0..1]	[690..1]

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Predicted Domain #1

Region A:
Residues: [1-690]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLPDNVKNQI RAIYKDIAAS LPNFRPRREQ NFMVAEISKT LAGDYDKDRR IIVVEAGTGI  60
   61 GKSLSYILGT IPLALASKKK VCIATATVAL QEQLLHKDLP FFLEQSGLNF RFGLVKGRQR 120
  121 YVCLSKLAML IGDDNSTQMA MWQTKPDNSQ IAMLQTLLND VNEGRWNGEI DTLSTPIPDH 180
  181 LWQQIACDKH SCHRQLASHR NCPFHKARED VDTWDVLIAN HSLLFADLEL GGGVILPNPE 240
  241 DVFYVIDEAH HLPIVARDFS SAQATLRGAA DWLEKVGKTS AKLQNQIKSN NIIAPAQAMQ 300
  301 DHIGDLIGQL NQVAHYCDTQ TKQFANPESR YRFEHGKLPG ALKIPAENLA ATSNLALKQF 360
  361 NKMQLLLAEA IKDGDIPKHQ AEALQAEMGF MLQRLENLQK LWKMMAKEDS NKGAPMARWI 420
  421 ELITGKQVDY LFSASPIEVG FMLETMLWQK AAGVVLCSAT LRALNNFDHF AHQVGLSLKD 480
  481 GSRYLALQSP FDYPNNATLY LPKMKTEPTD DAYTAELAEQ ILQLIEGEMA TLVLFASYWQ 540
  541 MEKVAELLEG KLALEILIQG NAPRQQLLET HKAKCDKGEP SILFGTGSFS EGLDLPGDYL 600
  601 TNLIVTKLPF AVPTSPVEQA HAEYVKIKGG NPFLQLTIPD ASRKLIQSCG RLLRKEQDYG 660
  661 RVTILDRRLV TKRYGKSLLD ALPPFRRVIE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	57.39794
Match:	2fdcA
Description:	No description for 2fdcA was found.

Predicted functions:

Term	Confidence	Notes
general RNA polymerase II transcription factor activity	2.8600635241996	bayes_pls_golite062009
deoxyribonuclease activity	2.72222787956584	bayes_pls_golite062009
binding	2.64537357529343	bayes_pls_golite062009
endodeoxyribonuclease activity	2.60873257753475	bayes_pls_golite062009
hydrolase activity	2.55157966585974	bayes_pls_golite062009
dATP binding	2.44149059794577	bayes_pls_golite062009
nucleic acid binding	2.21184938313192	bayes_pls_golite062009
pyrophosphatase activity	2.13284212711072	bayes_pls_golite062009
transcription regulator activity	2.09345198747025	bayes_pls_golite062009
endonuclease activity	1.96689197136388	bayes_pls_golite062009
DNA binding	1.94055378599526	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
RNA helicase activity	1.63960194106079	bayes_pls_golite062009
ATP-dependent RNA helicase activity	1.61735400124552	bayes_pls_golite062009
RNA-dependent ATPase activity	1.60404584546501	bayes_pls_golite062009
purine deoxyribonucleotide binding	1.4428455823518	bayes_pls_golite062009
adenyl deoxyribonucleotide binding	1.4428455823518	bayes_pls_golite062009
structure-specific DNA binding	1.2539059700735	bayes_pls_golite062009
DNA-dependent ATPase activity	1.2155186842031	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
ATP-dependent DNA helicase activity	1.18669029764243	bayes_pls_golite062009
double-stranded DNA binding	1.117585097627	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
DNA helicase activity	0.72881469450553	bayes_pls_golite062009
transcription factor activity	0.682439846757997	bayes_pls_golite062009
single-stranded DNA binding	0.568457189190858	bayes_pls_golite062009
mismatched DNA binding	0.31144582840038	bayes_pls_golite062009
DNA strand annealing activity	0.283577486331079	bayes_pls_golite062009
four-way junction helicase activity	0.26252931460003	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.243902356228423	bayes_pls_golite062009
exodeoxyribonuclease V activity	0.185603938981231	bayes_pls_golite062009
nucleotidyltransferase activity	0.181509771587324	bayes_pls_golite062009
protein binding	0.170837278876362	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.147579541298736	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.141364252067841	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

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: