YRC Public Data Repository - Protein Structure Prediction

Protein:	YBCJ_ECOLI
Organism:	Escherichia coli
Length:	70 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 YBCJ_ECOLI.

Description	E-value	Query Range	Subject Range
RS4_AQUAE - 30S ribosomal protein S4 OS=Aquifex aeolicus GN=rpsD PE=3 SV=1 RS4_AQUAE - 30S ribosomal protein S4 OS=Aquifex aeolicus (strain VF5) GN=rpsD PE=3 SV=1	85.0	[0..1]	[68..80]
RS4_STRPY - (P66567) 30S ribosomal protein S4 RS4_STRPQ - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M3 (strain SSI-1) GN=rpsD PE=3 SV=1 RS4_STRP3 - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M3 (strain ATCC BAA-595 / MGAS315) GN=rp... RS4_STRP8 - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M18 (strain MGAS8232) GN=rpsD PE=3 SV=1 RS4_STRPG - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M5 (strain Manfredo) GN=rpsD PE=3 SV=1 RS4_STRP8 - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M18 GN=rpsD PE=3 SV=1 RS4_STRPD - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M2 (strain MGAS10270) GN=rpsD PE=3 SV=1 gi\|242392163, gi... - gi\|251783531\|ref\|YP_002997836.1\| 30S ribosomal protein S4 [Streptococcus dysgalactiae subsp. equisim... RS4_STRP1 - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M1 GN=rpsD PE=3 SV=1 RS4_STRP3 - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M3 GN=rpsD PE=3 SV=1 RS4_STRP6 - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M6 GN=rpsD PE=3 SV=1 RS4_STRP6 - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M6 (strain ATCC BAA-946 / MGAS10394) GN=... gi\|15675914, gi\|... - gi\|15675914\|ref\|NP_270088.1\| 30S ribosomal protein S4 [Streptococcus pyogenes M1 GAS], gi\|13623152\|g... RS4_STRPB - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M12 (strain MGAS2096) GN=rpsD PE=3 SV=1 RS4_STRPC - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M12 (strain MGAS9429) GN=rpsD PE=3 SV=1 gi\|71854426, gi\|... - gi\|71911644\|ref\|YP_283194.1\| 30S ribosomal protein S4 [Streptococcus pyogenes MGAS5005], gi\|71854426... RS4_STRPM - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M28 (strain MGAS6180) GN=rpsD PE=3 SV=1 RS4_STRPM - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M28 GN=rpsD PE=3 SV=1	83.0	[0..13]	[70..94]
gi\|56808368 - gi\|56808368\|ref\|ZP_00366123.1\| COG0522: Ribosomal protein S4 and related proteins [Streptococcus pyo...	83.0	[0..13]	[70..94]
RS4_STRPF - 30S ribosomal protein S4 OS=Streptococcus pyogenes serotype M4 (strain MGAS10750) GN=rpsD PE=3 SV=1	83.0	[0..13]	[70..94]
RS4_STRZJ - 30S ribosomal protein S4 OS=Streptococcus pneumoniae (strain JJA) GN=rpsD PE=3 SV=1 RS4_STRZP - 30S ribosomal protein S4 OS=Streptococcus pneumoniae (strain P1031) GN=rpsD PE=3 SV=1 RS4_STRP7 - 30S ribosomal protein S4 OS=Streptococcus pneumoniae (strain 70585) GN=rpsD PE=3 SV=1 RS4_STRZT - 30S ribosomal protein S4 OS=Streptococcus pneumoniae (strain Taiwan19F-14) GN=rpsD PE=3 SV=1 gi\|237649598 - gi\|237649598\|ref\|ZP_04523850.1\| 30S ribosomal protein S4 [Streptococcus pneumoniae CCRI 1974] gi\|237821538 - gi\|237821538\|ref\|ZP_04597383.1\| 30S ribosomal protein S4 [Streptococcus pneumoniae CCRI 1974M2] gi\|242235152, gi... - gi\|242246360\|ref\|ZP_04800797.1\| 30S ribosomal protein S4 [Streptococcus pneumoniae TCH8431/19A], gi\|... RS4_STRPN - 30S ribosomal protein S4 OS=Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) GN=rps... RS4_STRP2 - 30S ribosomal protein S4 OS=Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466) GN=rpsD PE=... RS4_STRR6 - 30S ribosomal protein S4 OS=Streptococcus pneumoniae (strain ATCC BAA-255 / R6) GN=rpsD PE=3 SV=1 RS4_STRPN - 30S ribosomal protein S4 OS=Streptococcus pneumoniae GN=rpsD PE=3 SV=1 gi\|149007938, gi... - gi\|149007938\|ref\|ZP_01831516.1\| ribosomal protein S4 [Streptococcus pneumoniae SP18-BS74], gi\|147760... gi\|183576019, gi... - gi\|183576019\|gb\|EDT96547.1\| ribosomal protein S4 [Streptococcus pneumoniae CDC3059-06], gi\|168493783... gi\|149001831, gi... - gi\|149001831\|ref\|ZP_01826804.1\| ribosomal protein S4 [Streptococcus pneumoniae SP14-BS69], gi\|147760... gi\|168492605, gi... - gi\|183573248\|gb\|EDT93776.1\| ribosomal protein S4 [Streptococcus pneumoniae CDC0288-04], gi\|168492605... gi\|147757067, gi... - gi\|148996492\|ref\|ZP_01824210.1\| ribosomal protein S4 [Streptococcus pneumoniae SP11-BS70], gi\|147757... RS4_STRPI - 30S ribosomal protein S4 OS=Streptococcus pneumoniae (strain Hungary19A-6) GN=rpsD PE=3 SV=1 gi\|147927632, gi... - gi\|148993925\|ref\|ZP_01823308.1\| 30S ribosomal protein S4 [Streptococcus pneumoniae SP9-BS68], gi\|147... gi\|183577316, gi... - gi\|183577316\|gb\|EDT97844.1\| ribosomal protein S4 [Streptococcus pneumoniae MLV-016], gi\|168577080\|re... gi\|147926279, gi... - gi\|148987815\|ref\|ZP_01819278.1\| ribosomal protein S4 [Streptococcus pneumoniae SP6-BS73], gi\|1479262... RS4_STRP4 - 30S ribosomal protein S4 OS=Streptococcus pneumoniae serotype 19F (strain G54) GN=rpsD PE=3 SV=1 gi\|147922389, gi... - gi\|148985431\|ref\|ZP_01818636.1\| ribosomal protein S4 [Streptococcus pneumoniae SP3-BS71], gi\|1479223... RS4_STRPS - 30S ribosomal protein S4 OS=Streptococcus pneumoniae (strain CGSP14) GN=rpsD PE=3 SV=1 RS4_STRPJ - 30S ribosomal protein S4 OS=Streptococcus pneumoniae (strain ATCC 700669 / Spain 23F-1) GN=rpsD PE=3... gi\|172043018, gi... - gi\|172043018\|gb\|EDT51064.1\| ribosomal protein S4 [Streptococcus pneumoniae CDC1873-00], gi\|168483611... gi\|147931322, gi... - gi\|149017758\|ref\|ZP_01834217.1\| ribosomal protein S4 [Streptococcus pneumoniae SP23-BS72], gi\|147931... gi\|168489443, gi... - gi\|183572140\|gb\|EDT92668.1\| ribosomal protein S4 [Streptococcus pneumoniae SP195], gi\|168489443\|ref\|... gi\|147764583, gi... - gi\|149010947\|ref\|ZP_01832252.1\| ribosomal protein S4 [Streptococcus pneumoniae SP19-BS75], gi\|147764... gi\|168486664, gi... - gi\|183570308\|gb\|EDT90836.1\| ribosomal protein S4 [Streptococcus pneumoniae CDC1087-00], gi\|168486664...	83.0	[0..13]	[70..94]
gi\|76585564, gi\|... - gi\|76799096\|ref\|ZP_00781286.1\| ribosomal protein S4 [Streptococcus agalactiae 18RS21], gi\|76585564\|g... gi\|77172496, gi\|... - gi\|77408905\|ref\|ZP_00785630.1\| ribosomal protein S4 [Streptococcus agalactiae COH1], gi\|77172496\|gb\|... gi\|77174516, gi\|... - gi\|77406884\|ref\|ZP_00783910.1\| ribosomal protein S4 [Streptococcus agalactiae H36B], gi\|77174516\|gb\|... RS4_STRA5 - 30S ribosomal protein S4 OS=Streptococcus agalactiae serotype V (strain ATCC BAA-611 / 2603 V/R) GN=... RS4_STRA3 - 30S ribosomal protein S4 OS=Streptococcus agalactiae serotype III (strain NEM316) GN=rpsD PE=3 SV=1 RS4_STRA3 - 30S ribosomal protein S4 OS=Streptococcus agalactiae serotype III GN=rpsD PE=3 SV=1 gi\|77160747, gi\|... - gi\|77413207\|ref\|ZP_00789405.1\| ribosomal protein S4 [Streptococcus agalactiae 515], gi\|77160747\|gb\|E... RS4_STRA5 - 30S ribosomal protein S4 OS=Streptococcus agalactiae serotype V GN=rpsD PE=3 SV=1 gi\|77163087, gi\|... - gi\|77410869\|ref\|ZP_00787226.1\| ribosomal protein S4 [Streptococcus agalactiae CJB111], gi\|77163087\|g... RS4_STRA1 - 30S ribosomal protein S4 OS=Streptococcus agalactiae serotype Ia GN=rpsD PE=3 SV=1 RS4_STRA1 - 30S ribosomal protein S4 OS=Streptococcus agalactiae serotype Ia (strain ATCC 27591 / A909 / CDC SS7...	83.0	[0..13]	[70..94]
RS4_LACLS - 30S ribosomal protein S4 OS=Lactococcus lactis subsp. cremoris (strain SK11) GN=rpsD PE=3 SV=1 RS4_LACLM - 30S ribosomal protein S4 OS=Lactococcus lactis subsp. cremoris (strain MG1363) GN=rpsD PE=3 SV=1	82.0	[0..11]	[70..92]
RS4_ANADE - 30S ribosomal protein S4 OS=Anaeromyxobacter dehalogenans (strain 2CP-C) GN=rpsD PE=3 SV=1 RS4_ANASK - 30S ribosomal protein S4 OS=Anaeromyxobacter sp. (strain K) GN=rpsD PE=3 SV=1 RS4_ANAD2 - 30S ribosomal protein S4 OS=Anaeromyxobacter dehalogenans (strain 2CP-1 / ATCC BAA-258) GN=rpsD PE=3...	82.0	[0..4]	[69..90]
RS4_LACLA - 30S ribosomal protein S4 OS=Lactococcus lactis subsp. lactis GN=rpsD PE=3 SV=1 RS4_LACLA - 30S ribosomal protein S4 OS=Lactococcus lactis subsp. lactis (strain IL1403) GN=rpsD PE=3 SV=1	81.0	[0..11]	[70..92]
gi\|80976522, gi\|... - gi\|81097435\|ref\|ZP_00875718.1\| Ribosomal protein S4, bacterial and organelle form [Streptococcus sui...	81.0	[0..13]	[70..78]

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Predicted Domain #1

Region A:
Residues: [1-70]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MATFSLGKHP HVELCDLLKL EGWSESGAQA KIAIAEGQVK VDGAVETRKR CKIVAGQTVS  60
   61 FAGHSVQVVA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	11.39794
Match:	1p9kA
Description:	THE SOLUTION STRUCTURE OF YBCJ FROM E. COLI REVEALS A RECENTLY DISCOVERED ALFAL MOTIF INVOLVED IN RNA-BINDING
Matching Structure (courtesy of the PDB):

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