YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24373707, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	1270 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 gi|24373707, gi|....

Description	E-value	Query Range	Subject Range
gi\|113970113, gi... - gi\|82496290\|ref\|ZP_00881859.1\| Exodeoxyribonuclease V, RecC subunit [Shewanella sp. MR-4], gi\|824056...	725.0	[0..1]	[1268..1]
gi\|78690556, gi\|... - gi\|78690556\|ref\|ZP_00855200.1\| Exodeoxyribonuclease V, RecC subunit [Shewanella sp. MR-7], gi\|785100...	720.0	[0..1]	[1269..1]
gi\|117613020, gi... - gi\|78687481\|ref\|ZP_00852228.1\| Exodeoxyribonuclease V, RecC subunit [Shewanella sp. ANA-3], gi\|78504...	719.0	[0..1]	[1269..1]
gi\|91073791, gi\|... - gi\|91212217\|ref\|YP_542203.1\| exonuclease V subunit gamma [Escherichia coli UTI89], gi\|91073791\|gb\|AB... gi\|218366603, gi... - gi\|218559834\|ref\|YP_002392747.1\| exonuclease V subunit gamma [Escherichia coli S88], gi\|218366603\|em... gi\|226899557, gi... - gi\|237706517\|ref\|ZP_04536998.1\| exonuclease V subunit gamma [Escherichia sp. 3_2_53FAA], gi\|22689955... gi\|117625075, gi... - gi\|117625075\|ref\|YP_854063.1\| exonuclease V subunit gamma [Escherichia coli APEC O1], gi\|115514199\|g...	667.0	[0..1]	[1241..1]
gi\|125997699, gi... - gi\|68542253\|ref\|ZP_00581987.1\| Exodeoxyribonuclease V, RecC subunit [Shewanella baltica OS155], gi\|6...	667.0	[0..1]	[1257..1]
gi\|25289144, gi\|... - pir\|\|A85934 DNA helicase RecC [imported] - Escherichia coli (strain O157:H7, substrain EDL933), pir... gi\|15803341, gi\|... - gi\|15803341\|ref\|NP_289374.1\| exonuclease V subunit gamma [Escherichia coli O157:H7 EDL933], gi\|12517... gi\|13363151, gi\|... - gi\|15832933\|ref\|NP_311706.1\| DNA helicase [Escherichia coli O157:H7], gi\|13363151\|dbj\|BAB37102.1\| DN... gi\|189365393, gi... - gi\|189365393\|gb\|EDU83809.1\| exodeoxyribonuclease V, gamma subunit [Escherichia coli O157:H7 str. EC4... gi\|217319423, gi... - gi\|217327056\|ref\|ZP_03443139.1\| exodeoxyribonuclease V, gamma subunit [Escherichia coli O157:H7 str.... gi\|13363151, gi\|... - gi\|15832933\|ref\|NP_311706.1\| exonuclease V subunit gamma [Escherichia coli O157:H7 str. Sakai], gi\|1...	665.0	[0..1]	[1241..1]
gi\|194434353, gi... - gi\|83569184\|ref\|ZP_00920642.1\| COG1330: Exonuclease V gamma subunit [Shigella dysenteriae 1012], gi\|...	664.0	[0..1]	[1241..1]
gi\|157067954, gi... - gi\|75196790\|ref\|ZP_00706860.1\| COG1330: Exonuclease V gamma subunit [Escherichia coli HS], gi\|157162...	664.0	[0..1]	[1241..1]
gi\|193065104, gi... - gi\|75256826\|ref\|ZP_00728420.1\| COG1330: Exonuclease V gamma subunit [Escherichia coli E22], gi\|19306...	664.0	[0..1]	[1241..1]
gi\|26249251, gi\|... - gi\|26249251\|ref\|NP_755291.1\| exonuclease V subunit gamma [Escherichia coli CFT073], gi\|26109658\|gb\|A... gi\|227888385, gi... - gi\|227888385\|ref\|ZP_04006190.1\| exodeoxyribonuclease V [Escherichia coli 83972], gi\|227834654\|gb\|EEJ...	664.0	[0..1]	[1241..1]

Back

Predicted Domain #1

Region A:
Residues: [1-1270]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLKLIQSNQM EVLCAHLAAY LRQPLPGGCL LQSEHILVQS PGMSTWLRLE IAKQNGIAAA  60
   61 LEFPLPSSFI WQLCHDLLPN VPKENAFTKA AMTWKLMQLL PRLLEEESFG PLRHYLGHIE 120
  121 SSSPDSTTKN NQLEASNSIA ADNIKLYQLC GRIADIFDQY LVYRPDWIAA WEANEPLDAL 180
  181 KLNEEQRWQP ILWRALIAFN RDELRQSHYH RANLHQDLIA ALADSTHSLA KLPERLFVFG 240
  241 ISSMAPQTID VLHQLAARID VIILNLSPCQ HYWGDIIDPR HRARMALQYA GKRQLAEQWE 300
  301 DKLEVGNPLL ANNGKMGREL LDMLLELPPE HCDFGDDVYC EPCGDPNDPD CNASMLAGVQ 360
  361 YDILEMQTLD RVLGPDAELY QAVTNRRRLK RVDDSIQIKS CHSPLREVET LHDHLLDLLD 420
  421 RDNQLTPKDI VVMMPDVAAY APYIDAVFAA KQGLEYIPYA IADRGAAQES PLINSFLNLL 480
  481 NINQSRFGLT DILSILEVPA ILRRFQLEED ELPLIRRWLD EAGVRWGRDE QSRVKQGVPA 540
  541 FEQNSWAFGI KRLILGYALR NDAPLYQASP QAPSYLVVSG VEGQSAQALG KLLNFIEVLD 600
  601 ETTLQLAQPQ APCQRLFELT QLLNAFYAPD EDEREQLQEV RDAIATLEQE LQAASPADSY 660
  661 TAAYDVNPYF LDQSGLHSNA LNLSIEVLAQ WFNQRLTESR VGQRYLAGSV NFCTLMPMRS 720
  721 IPFKVVCLLG MNDGIYPRMQ HPVGFDLMAH FGARKGDRSR RLDDRYLFLE ALLSAREQLY 780
  781 ISYIGRSERD NSERIPSMLV SELIEYCQLC YVPESLTAET PAVGNEAAQQ ALLETIISHQ 840
  841 PLQPFDPKLY QSTEPQAQAI KQSYSQQWCP PDISTQSIQR RFIDANTQIV LEDDTIGDSD 900
  901 IQQNIEPLSE EEHVDISAFI RFFRHPAQYF FNRTLKVDLN LNIQADDNDE PFSLNALERY 960
  961 LLQARLLDDA LEQGALEQGA LEQGQAQPSS ELLQRLKASG NLPMQPFDDL LLRQYSHDIA1020
 1021 PLIGRTLFMR GDVAPRHADI RLAFELPLSH VAATTKVSVK RVLLEGRIDD ISPKGLVSCR1080
 1081 PGSAHGRDIL ALYLRHLCLM AAGLTQPSDQ QPSYLQPSYL LDMGHFHALS PIAPKQAHDR1140
 1141 LVHLLQHFYQ GQLHPLCFMP KTSLAYASAE INEDETSQLD GQYDSQHSVR LEAAQSEWLD1200
 1201 EQGELGEGTD PHYQRLFRFP QDFTEANFGK LADEIYRPML SLYHKDTLAQ LEEFVLNAEP1260
 1261 QTATSEGAQQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1w36C
Description:	RecBCD:DNA complex
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
exodeoxyribonuclease V activity	6.45399906372635	bayes_pls_golite062009
deoxyribonuclease activity	4.214585502776	bayes_pls_golite062009
exodeoxyribonuclease activity, producing 5'-phosphomonoesters	4.1611108835958	bayes_pls_golite062009
exodeoxyribonuclease activity	4.15362118941033	bayes_pls_golite062009
single-stranded DNA specific endodeoxyribonuclease activity	3.87045877570028	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	3.51963098050513	bayes_pls_golite062009
exonuclease activity	3.26822223300964	bayes_pls_golite062009
nucleoside-triphosphatase activity	2.16381244011837	bayes_pls_golite062009
pyrophosphatase activity	2.13284212711072	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	2.11265775498161	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	2.11046854230259	bayes_pls_golite062009
hydrolase activity	1.66122526893602	bayes_pls_golite062009
endonuclease activity	1.6546965422816	bayes_pls_golite062009
ATPase activity	1.53315090215319	bayes_pls_golite062009
binding	1.41264401383678	bayes_pls_golite062009
DNA-dependent ATPase activity	1.1653223755451	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
helicase activity	0.895387263223335	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.847189464648844	bayes_pls_golite062009
DNA helicase activity	0.8104901979223	bayes_pls_golite062009
four-way junction helicase activity	0.26252931460003	bayes_pls_golite062009
nucleic acid binding	0.216266069700019	bayes_pls_golite062009
purine NTP-dependent helicase activity	0.156322124775303	bayes_pls_golite062009
ATP-dependent helicase activity	0.156322124775303	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
DNA strand annealing activity	0.103710151681167	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.0398638249772338	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: