YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|238861030, gi...
Organism:	Escherichia coli BW2952
Length:	1188 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|238861030, gi....

Description	E-value	Query Range	Subject Range
gi\|115515786, gi... - gi\|117626662\|ref\|YP_859985.1\| type I restriction enzyme EcoKI subunit R [Escherichia coli APEC O1], ...	598.0	[0..19]	[1188..1]
gi\|91075575, gi\|... - gi\|91214001\|ref\|YP_543987.1\| type I restriction enzyme EcoKI subunit R [Escherichia coli UTI89], gi\|...	595.0	[0..20]	[1188..1]
gi\|197365233, gi... - gi\|197365233\|ref\|YP_002144870.1\| type I restriction enzyme EcoKI subunit R [Salmonella enterica subs... gi\|56130567, gi\|... - gi\|56416310\|ref\|YP_153385.1\| type I restriction enzyme EcoKI subunit R [Salmonella enterica subsp. e...	586.0	[0..20]	[1188..1]
gi\|16423093, gi\|... - gi\|16767770\|ref\|NP_463385.1\| type I restriction enzyme EcoKI subunit R [Salmonella typhimurium LT2],...	586.0	[0..20]	[1188..1]
gi\|213428390 - gi\|213428390\|ref\|ZP_03361140.1\| type I restriction enzyme EcoKI subunit R [Salmonella enterica subsp... gi\|29140449, gi\|... - gi\|29144810\|ref\|NP_808152.1\| type I restriction enzyme EcoKI subunit R [Salmonella enterica subsp. e... gi\|213864870 - gi\|213864870\|ref\|ZP_03386989.1\| type I restriction enzyme EcoKI subunit R [Salmonella enterica subsp... gi\|25289195, gi\|... - gi\|25289195\|pir\|\|AD1069 type 1 site-specific deoxyribonuclease (EC 3.1.21.3) - Salmonella enterica s... gi\|16763332 - gi\|16763332\|ref\|NP_458949.1\| type I restriction enzyme EcoKI subunit R [Salmonella enterica subsp. e...	586.0	[0..20]	[1188..1]
gi\|41752 - gi\|41752\|emb\|CAA29791.1\| unnamed protein product [Escherichia coli]	555.0	[0..1]	[1085..1]
gi\|90329499, gi\|... - gi\|90410146\|ref\|ZP_01218163.1\| endonuclease R, host restriction [Photobacterium profundum 3TCK], gi\|...	486.0	[0..20]	[1185..1]
SO4267 - type I restriction-modification system R subunit gi\|24375751, gi\|... - gi\|24375751\|ref\|NP_719794.1\| type I restriction enzyme EcoKI subunit R [Shewanella oneidensis MR-1],...	436.0	[0..12]	[1184..4]
gi\|32476613, gi\|... - gi\|32476613\|ref\|NP_869607.1\| type I restriction enzyme EcoKI subunit R [Rhodopirellula baltica SH 1]...	418.0	[0..14]	[1184..3]
gi\|186467442, gi... - gi\|23129551\|ref\|ZP_00111377.1\| COG4096: Type I site-specific restriction-modification system, R (res...	403.0	[0..19]	[1185..1]

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Predicted Domain #1

Region A:
Residues: [1-140]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLWALNIWTG PHSNGLITMM NKSNFEFLKG VNDFTYAIAC AAENNYPDDP NTTLIKMRMF  60
   61 GEATAKHLGL LLNIPPCENQ HDLLRELGKI AFVDDNILSV FHKLRRIGNQ AVHEYHNDLN 120
  121 DAQMCLRLGF RLAVWYYRLV

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.06
Match:	1ufbA
Description:	Crystal structure of TT1696 from Thermus thermophilus HB8
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transferase activity, transferring phosphorus-containing groups	1.24806580264996	bayes_pls_golite062009
nucleotidyltransferase activity	1.19270389706112	bayes_pls_golite062009
transferase activity	0.902981870272937	bayes_pls_golite062009
catalytic activity	0.853948963582441	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [141-1035]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TKDYDFPVPV FVLPERGENL YHQEVLTLKQ QLEQQVREKA QTQAEVEAQQ QKLVALNGYI  60
   61 AILEGKQQET EAQTQARLAA LEAQLAEKNA ELAKQTEQER KAYHKEITDQ AIKRTLNLSE 120
  121 EESRFLIDAQ LRKAGWQADS KTLRFSKGAR PEPGVNKAIA EWPTGKDETG NQGFADYVLF 180
  181 VGLKPIAVVE AKRNNIDVPA RLNESYRYSK CFDNGFLRET LLEHYSPDEV HEAVPEYETS 240
  241 WQDTSGKQRF KIPFCYSTNG REYRATMKTK SGIWYRDVRD TRNMSKALPE WHRPEELLEM 300
  301 LGSEPQKQNQ WFADNPGMSE LGLRYYQEDA VRAVEKAIVK GQQEILLAMA TGTGKTRTAI 360
  361 AMMFRLIQSQ RFKRILFLVD RRSLGEQALG AFEDTRINGD TFNSIFDIKG LTDKFPEDST 420
  421 KIHVATVQSL VKRTLQSDEP MPVARYDCIV VDEAHRGYIL DKEQTEGELQ FRSQLDYVSA 480
  481 YRRILDHFDA VKIALTATPA LHTVQIFGEP VYRYTYRTAV IDGFLIDQDP PIQIITRNAQ 540
  541 EGVYLSKGEQ VERISPQGEV INDTLEDDQD FEVADFNRGL VIPAFNRAVC NELTNYLDPT 600
  601 GSQKTLVFCV TNAHADMVVE ELRAAFKKKY PQLEHDAIIK ITGDADKDAR KVQTMITRFN 660
  661 KERLPNIVVT VDLLTTGVDI PSICNIVFLR KVRSRILYEQ MKGRATRLCP EVNKTSFKIF 720
  721 DCVDIYSTLE SVDTMRPVVV RPKVELQTLV NEITDSETYK ITEADGRSFA EHSHEQLVAK 780
  781 LQRIIGLATF NRDRSETIDK QVRRLDELCQ DAAGVNFNGF ASRLREKGPH WSAEVFNKLP 840
  841 GFIARLEKLK TDINNLNDAP IFLDIDDEVV SVKSLYGDYD TPQDFLEAFD SLVQR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	54.69897
Match:	2eyqA
Description:	Crystal structure of Escherichia coli transcription-repair coupling factor
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
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
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
purine ribonucleotide binding	0.923452757551011	bayes_pls_golite062009
ribonucleotide binding	0.923391844349459	bayes_pls_golite062009
purine nucleotide binding	0.920821955769652	bayes_pls_golite062009
nucleotide binding	0.917754212279227	bayes_pls_golite062009
helicase activity	0.895387263223335	bayes_pls_golite062009
DNA helicase activity	0.8104901979223	bayes_pls_golite062009
ATP binding	0.60527666756293	bayes_pls_golite062009
adenyl ribonucleotide binding	0.573214556107072	bayes_pls_golite062009
adenyl nucleotide binding	0.554530910579109	bayes_pls_golite062009
nucleic acid binding	0.216266069700019	bayes_pls_golite062009
ATP-dependent helicase activity	0.156322124775303	bayes_pls_golite062009
purine NTP-dependent helicase activity	0.156322124775303	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.0398638249772338	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [1036-1100]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SPNAQPALQA VINRPRDLTR KGLVELQEWF DRQHFEESSL RKAWKETRNE DIAARLIGHI  60
   61 RRAAV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	59.69897
Match:	1d9zA
Description:	Nucleotide excision repair enzyme UvrB
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [1101-1188]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GDALKPFEER VDHALTRIKG ENDWSSEQLS WLDRLAQALK EKVVLDDDVF KTGNFHRRGG  60
   61 KAMLQRTFDD NLDTLLGKFS DYIWDELA

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

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:

Predicted functions: