YRC Public Data Repository - Protein Structure Prediction

Protein:	cdc18
Organism:	Schizosaccharomyces pombe
Length:	577 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 cdc18.

Description	E-value	Query Range	Subject Range
gi\|53732764 - gi\|53732764\|ref\|ZP_00155036.2\| COG0465: ATP-dependent Zn proteases [Haemophilus influenzae R2846]	271.0	[0..76]	[574..59]
gi\|144983655 - gi\|144983655\|gb\|EDJ91115.1\| RNA polymerase sigma factor [Haemophilus influenzae R3021] gi\|145638915, gi... - gi\|145638915\|ref\|ZP_01794523.1\| hypothetical protein CGSHiII_01975 [Haemophilus influenzae PittII], ... gi\|68250004, gi\|... - gi\|68250004\|ref\|YP_249116.1\| cell division protein FtsH homolog 1 [Haemophilus influenzae 86-028NP],... gi\|145267822, gi... - gi\|145634956\|ref\|ZP_01790663.1\| hypothetical protein CGSHiAA_08003 [Haemophilus influenzae PittAA], ... gi\|145630773 - gi\|145630773\|ref\|ZP_01786551.1\| RNA polymerase sigma factor [Haemophilus influenzae 22.4-21] gi\|46133504 - gi\|46133504\|ref\|ZP_00157303.2\| COG0465: ATP-dependent Zn proteases [Haemophilus influenzae R2866]	271.0	[0..76]	[575..59]
FTSH1_HAEIN, FTH... - Cell division protease ftsH homolog 1 OS=Haemophilus influenzae GN=ftsH-A PE=3 SV=1, (P71377) Cell d... FTSH_HAEIN - ATP-dependent zinc metalloprotease FtsH OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / K...	271.0	[0..76]	[575..59]
gi\|187477434, gi... - gi\|187477434\|ref\|YP_785458.1\| cell division protein [Bordetella avium 197N], gi\|115422020\|emb\|CAJ485...	271.0	[0..106]	[574..93]
gi\|68203151, gi\|... - gi\|68229195\|ref\|ZP_00568392.1\| Peptidase M41, FtsH [Frankia sp. EAN1pec], gi\|68203151\|gb\|EAN17326.1\|...	270.0	[0..51]	[565..52]
gi\|111281550, gi... - gi\|120611285\|ref\|YP_970963.1\| FtsH peptidase [Acidovorax avenae subsp. citrulli AAC00-1], gi\|1205897...	268.0	[0..123]	[575..117]
gi\|74056646, gi\|... - gi\|74317151\|ref\|YP_314891.1\| membrane protease FtsH catalytic subunit [Thiobacillus denitrificans AT...	267.0	[0..69]	[574..62]
gi\|254238513, gi... - gi\|84317370\|ref\|ZP_00965818.1\| COG0465: ATP-dependent Zn proteases [Pseudomonas aeruginosa C3719], g... gi\|194555332, gi... - gi\|84323594\|ref\|ZP_00971663.1\| COG0465: ATP-dependent Zn proteases [Pseudomonas aeruginosa 2192], gi... gi\|218893846, gi... - gi\|218893846\|ref\|YP_002442715.1\| cell division protein FtsH [Pseudomonas aeruginosa LESB58], gi\|2187... gi\|9951013, gi\|1... - gi\|9951013\|gb\|AAG08137.1\|AE004888_12 cell division protein FtsH [Pseudomonas aeruginosa PAO1], gi\|15... gi\|107103848 - gi\|107103848\|ref\|ZP_01367766.1\| hypothetical protein PaerPA_01004919 [Pseudomonas aeruginosa PACS2] gi\|11347548 - pir\|\|F83053 cell division protein FtsH PA4751 [imported] - Pseudomonas aeruginosa (strain PAO1) gi\|53726399, gi\|... - gi\|53726399\|ref\|ZP_00141191.2\| COG0465: ATP-dependent Zn proteases [Pseudomonas aeruginosa UCBPP-PA1... gi\|94417365 - gi\|94417365\|ref\|ZP_01297183.1\| hypothetical protein PaerP_01000682 [Pseudomonas aeruginosa PA7]	267.0	[0..39]	[575..26]
gi\|15602303, gi\|... - gi\|15602303\|ref\|NP_245375.1\| hypothetical protein PM0438 [Pasteurella multocida subsp. multocida str...	267.0	[0..120]	[575..103]
gi\|33592217, gi\|... - gi\|33592217\|ref\|NP_879861.1\| cell division protein [Bordetella pertussis Tohama I], gi\|33571862\|emb\|...	267.0	[0..151]	[574..138]

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Predicted Domain #1

Region A:
Residues: [1-144]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MCETPIGCHT PRRCNRFIDS AALIDCTNKT NQREHSPSFS IEIPTTPSRK RTLASSHFQT  60
   61 PTKRIKYELG ELQEEKTDLY PNFPAQLKEN KKPKLPTTPQ TPKTPKRTIQ IVTPKSLNRT 120
  121 CNPVPFATRL LQSTPHRQLF PPTP

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [145-577]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 STPSTPSYNS TAKLSLRKSY RSAGVVGREN EKSIVESFFR QHLDANAGGA LYVSGAPGTG  60
   61 KTVLLHNVLD HVVSDYPKVN VCYINCMTIN EPKAIFEKIH SKIVKEEILE NEDHHINFQC 120
  121 ELESHFTQSA NELYNPVIIV LDEMDHLIAR EQQVLYTLFE WPSRPTSRLI LVGIANALDM 180
  181 TDRFLPRLRT KHITPKLLSF TPYTAQEIST IIKARLKTAA TTSEKNNPFT PIKSISEVSD 240
  241 DSINVVSQHA DETPFIHPAA IELCARKVAA SSGDLRKALD ICRHAIELAE REWKAQHDNT 300
  301 LSSVDIPRAS IAHVVRATSA MSQSASARLK NLGLQQKAIL CTLVVCEKTS LSVADVFEKY 360
  361 SSLCLRDRLI YPLTSSEFCD VANSLETLAI IRLRTKQRNG KPQDRIISLL VPEMDVITAV 420
  421 GDIGTLKRFF DRR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	59.69897
Match:	2ce7A
Description:	EDTA treated
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
DNA-directed DNA polymerase activity	3.93573252384865	bayes_pls_golite062009
DNA-dependent ATPase activity	2.72462789867829	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	2.66107861968804	bayes_pls_golite062009
binding	2.64537357529343	bayes_pls_golite062009
nucleic acid binding	2.51683451033161	bayes_pls_golite062009
DNA helicase activity	2.2817164193758	bayes_pls_golite062009
DNA binding	2.12258000781149	bayes_pls_golite062009
transcription regulator activity	2.09345198747025	bayes_pls_golite062009
pyrophosphatase activity	2.04806869603661	bayes_pls_golite062009
ATP-dependent DNA helicase activity	1.88455339138556	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
DNA replication origin binding	1.62491387774159	bayes_pls_golite062009
microtubule motor activity	1.35938517416356	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
motor activity	1.14667913749579	bayes_pls_golite062009
histone acetyltransferase activity	1.05990253628867	bayes_pls_golite062009
lysine N-acetyltransferase activity	1.05990253628867	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
transcription factor activity	0.887108427603557	bayes_pls_golite062009
transcription repressor activity	0.862685397469217	bayes_pls_golite062009
DNA polymerase activity	0.795745617990735	bayes_pls_golite062009
structure-specific DNA binding	0.782430219754236	bayes_pls_golite062009
double-stranded DNA binding	0.6071273686445	bayes_pls_golite062009
cytoskeletal protein binding	0.500462538667228	bayes_pls_golite062009
nucleotidyltransferase activity	0.367559137329714	bayes_pls_golite062009
RNA helicase activity	0.18426050934025	bayes_pls_golite062009
protein binding	0.170837278876362	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
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
nucleoside-triphosphatase activity	0.0530667986761242	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.028470639373934	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.0265151533232588	bayes_pls_golite062009
actin binding	0.00482938540552702	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: