Query 011932
Match_columns 474
No_of_seqs 191 out of 602
Neff 2.9
Searched_HMMs 46136
Date Fri Mar 29 06:48:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011932.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011932hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10343 RNA-binding protein Y 99.9 2.1E-27 4.5E-32 202.0 12.8 89 173-262 1-89 (97)
2 TIGR00253 RNA_bind_YhbY putati 99.9 3.4E-27 7.4E-32 199.7 12.5 87 175-262 1-87 (95)
3 PF01985 CRS1_YhbY: CRS1 / Yhb 99.9 1.1E-26 2.4E-31 190.2 11.1 84 175-259 1-84 (84)
4 KOG1990 Poly(A)-specific exori 99.9 4.7E-27 1E-31 246.7 8.4 214 105-345 304-530 (564)
5 COG1534 Predicted RNA-binding 99.9 1.5E-25 3.3E-30 191.3 12.4 91 174-266 1-91 (97)
6 KOG1990 Poly(A)-specific exori 97.7 2.6E-05 5.6E-10 83.7 3.7 152 114-266 114-268 (564)
7 PF04977 DivIC: Septum formati 53.6 38 0.00083 26.5 5.3 46 296-341 5-50 (80)
8 KOG2051 Nonsense-mediated mRNA 51.2 1.6E+02 0.0035 35.6 11.7 83 203-294 706-793 (1128)
9 PRK13482 DNA integrity scannin 49.0 42 0.00092 35.5 6.2 117 227-355 97-224 (352)
10 PF06103 DUF948: Bacterial pro 45.1 51 0.0011 27.2 5.0 42 314-355 25-66 (90)
11 PF04472 DUF552: Protein of un 36.8 1.7E+02 0.0036 23.6 6.7 56 206-263 12-70 (73)
12 PF03641 Lysine_decarbox: Poss 34.2 46 0.001 29.5 3.4 36 180-215 73-109 (133)
13 PF13604 AAA_30: AAA domain; P 34.1 2E+02 0.0044 26.8 7.7 69 174-247 1-71 (196)
14 PF06305 DUF1049: Protein of u 30.6 1.3E+02 0.0029 23.2 5.0 24 311-334 44-67 (68)
15 PF12097 DUF3573: Protein of u 28.8 2E+02 0.0044 31.0 7.4 27 311-337 38-64 (383)
16 PF06390 NESP55: Neuroendocrin 28.6 1.5E+02 0.0033 30.2 6.2 13 302-314 39-51 (257)
17 PF12207 DUF3600: Domain of un 28.3 5.6 0.00012 37.9 -3.5 97 137-233 27-138 (162)
18 PF04999 FtsL: Cell division p 27.8 3.6E+02 0.0077 22.5 7.4 27 317-343 44-70 (97)
19 TIGR01223 Pmev_kin_anim phosph 26.8 37 0.0008 33.1 1.6 28 410-437 146-175 (182)
20 COG1623 Predicted nucleic-acid 25.8 3.1E+02 0.0066 29.3 7.9 104 228-343 104-217 (349)
21 PF06698 DUF1192: Protein of u 22.5 89 0.0019 25.5 2.8 35 313-347 19-53 (59)
22 PRK11637 AmiB activator; Provi 22.4 1.3E+02 0.0027 31.5 4.6 29 311-339 43-71 (428)
23 PF02609 Exonuc_VII_S: Exonucl 20.6 1.1E+02 0.0023 23.6 2.8 38 429-471 1-38 (53)
24 TIGR00730 conserved hypothetic 20.0 2.8E+02 0.0061 26.2 6.0 37 179-215 115-151 (178)
No 1
>PRK10343 RNA-binding protein YhbY; Provisional
Probab=99.95 E-value=2.1e-27 Score=202.03 Aligned_cols=89 Identities=21% Similarity=0.340 Sum_probs=86.4
Q ss_pred CCCCHHHHHHHHhcccCCCceeeeCCCCCcHHHHHHHHHHHHhcCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEEeC
Q 011932 173 EILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEE 252 (474)
Q Consensus 173 E~LT~EERk~LRKlAhkLKPVV~IGKrGVTDgVIeeIh~ALK~HELVKVKVkq~s~ed~keIAeeLAe~SGGeLVQViIG 252 (474)
++||++||++||++||+|+|+|+||++||||+|+++|+++|++||||||++.+++.+++++++++|++.|||++||+ ||
T Consensus 1 m~Lt~kqr~~LR~~ah~l~Pvv~IGk~Glt~~vi~ei~~aL~~hELIKvkv~~~~~~~~~e~~~~i~~~~~ae~Vq~-IG 79 (97)
T PRK10343 1 MNLSTKQKQHLKGLAHPLKPVVLLGSNGLTEGVLAEIEQALEHHELIKVKIATEDRETKTLIVEAIVRETGACNVQV-IG 79 (97)
T ss_pred CCCCHHHHHHHHHhcCCCCCeEEECCCCCCHHHHHHHHHHHHHCCcEEEEecCCChhHHHHHHHHHHHHHCCEEEee-eC
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999998 69
Q ss_pred CEEEEEeCCC
Q 011932 253 NTIIMYRGKN 262 (474)
Q Consensus 253 ~tIILYRGKN 262 (474)
+++||||++.
T Consensus 80 ~~~vlYR~~~ 89 (97)
T PRK10343 80 KTLVLYRPTK 89 (97)
T ss_pred cEEEEEecCC
Confidence 9999999875
No 2
>TIGR00253 RNA_bind_YhbY putative RNA-binding protein, YhbY family. A combination of crystal structure, molecular modeling, and bioinformatic data together suggest that members of this family, including YhbY of E. coli, are RNA binding proteins.
Probab=99.95 E-value=3.4e-27 Score=199.68 Aligned_cols=87 Identities=28% Similarity=0.369 Sum_probs=84.9
Q ss_pred CCHHHHHHHHhcccCCCceeeeCCCCCcHHHHHHHHHHHHhcCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEEeCCE
Q 011932 175 LTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEENT 254 (474)
Q Consensus 175 LT~EERk~LRKlAhkLKPVV~IGKrGVTDgVIeeIh~ALK~HELVKVKVkq~s~ed~keIAeeLAe~SGGeLVQViIG~t 254 (474)
||++||++||++||+|+|+|+||++|||++||++|+++|++||||||++.+++.++++++|++|++.|||++||+ +|++
T Consensus 1 Lt~kqr~~Lr~~ah~l~p~v~IGK~Glt~~vi~ei~~aL~~hELIKVkvl~~~~~~~~e~a~~i~~~~~a~~Vq~-iG~~ 79 (95)
T TIGR00253 1 LTGKQKRHLRGKAHHLKPVVLVGKNGLTEGVIKEIEQALEHRELIKVKVATEDREDKTLIAEALVKETGACNVQV-IGKT 79 (95)
T ss_pred CCHHHHHHHHHHhCCCCCeEEECCCCCCHHHHHHHHHHHHhCCcEEEEecCCChhHHHHHHHHHHHHHCCEEEEE-EccE
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999998 5999
Q ss_pred EEEEeCCC
Q 011932 255 IIMYRGKN 262 (474)
Q Consensus 255 IILYRGKN 262 (474)
+||||++.
T Consensus 80 ~vlYR~~~ 87 (95)
T TIGR00253 80 IVLYRPTK 87 (95)
T ss_pred EEEEecCC
Confidence 99999874
No 3
>PF01985 CRS1_YhbY: CRS1 / YhbY (CRM) domain; InterPro: IPR001890 The CRM domain is an ~100-amino acid RNA-binding domain. The name chloroplast RNA splicing and ribosome maturation (CRM) has been suggested to reflect the functions established for the four characterised members of the family: Zea mays (Maize) CRS1 (Q9FYT6 from SWISSPROT), CAF1 (Q84N49 from SWISSPROT) and CAF2 (Q84N48 from SWISSPROT) proteins and the Escherichia coli protein YhbY (P0AGK4 from SWISSPROT). The CRM domain is found in eubacteria, archaea, and plants. The CRM domain is represented as a stand-alone protein in archaea and bacteria, and in single- and multi-domain proteins in plants. It has been suggested that prokaryotic CRM proteins existed as ribosome-associated proteins prior to the divergence of archaea and bacteria, and that they were co-opted in the plant lineage as RNA binding modules by incorporation into diverse protein contexts. Plant CRM domains are predicted to reside not only in the chloroplast, but also in the mitochondrion and the nucleo/cytoplasmic compartment. The diversity of the CRM domain family in plants suggests a diverse set of RNA targets [, ]. The CRM domain is a compact alpha/beta domain consisting of a four-stranded beta sheet and three alpha helices with an alpha-beta-alpha-beta-alpha-beta-beta topology. The beta sheet face is basic, consistent with a role in RNA binding. Proximal to the basic beta sheet face is another moiety that could contribute to nucleic acid recognition. Connecting strand beta1 and helix alpha2 is a loop with a six amino acid motif, GxxG flanked by large aliphatic residues, within which one 'x' is typically a basic residue []. Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly. GFP fused to a single-domain CRM protein from maize localises to the nucleolus, suggesting that an analogous activity may have been retained in plants []. A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing []. In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity. These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria, that this function has been maintained in extant prokaryotes, and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes []. YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C), which binds to 16S rRNA in the 30S ribosome [].; GO: 0003723 RNA binding; PDB: 1RQ8_A 1JO0_B 1LN4_A.
Probab=99.94 E-value=1.1e-26 Score=190.15 Aligned_cols=84 Identities=36% Similarity=0.522 Sum_probs=75.0
Q ss_pred CCHHHHHHHHhcccCCCceeeeCCCCCcHHHHHHHHHHHHhcCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEEeCCE
Q 011932 175 LTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEENT 254 (474)
Q Consensus 175 LT~EERk~LRKlAhkLKPVV~IGKrGVTDgVIeeIh~ALK~HELVKVKVkq~s~ed~keIAeeLAe~SGGeLVQViIG~t 254 (474)
||++|+++||++||+|+|+|+||++|||++|+++|+++|++||||||+|.+++.++++++|++|++.|||++||+ +|++
T Consensus 1 Lt~ke~~~Lr~~a~~l~p~v~IGk~Glt~~vi~~i~~~l~~~eLvKVk~~~~~~~~~~~~~~~l~~~t~~~~V~~-iG~~ 79 (84)
T PF01985_consen 1 LTSKERKFLRKLAHHLKPVVQIGKNGLTDGVIEEIDDALEKHELVKVKVLGNCREDRKEIAEQLAEKTGAEVVQV-IGRT 79 (84)
T ss_dssp --HHHHHHHHHHHTTC--SEEE-TTSS-HHHHHHHHHHHHHHSEEEEEETT--HHHHHHHHHHHHHHHTEEEEEE-ETTE
T ss_pred CCHHHHHHHHHHhcCCCCeEEECCCCCCHHHHHHHHHHHHhCCeeEEEEccCCHHHHHHHHHHHHHHhCCEEEEE-ECCE
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999997 6999
Q ss_pred EEEEe
Q 011932 255 IIMYR 259 (474)
Q Consensus 255 IILYR 259 (474)
+||||
T Consensus 80 ~vlyR 84 (84)
T PF01985_consen 80 IVLYR 84 (84)
T ss_dssp EEEEE
T ss_pred EEEEC
Confidence 99998
No 4
>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]
Probab=99.94 E-value=4.7e-27 Score=246.66 Aligned_cols=214 Identities=41% Similarity=0.580 Sum_probs=194.1
Q ss_pred hhhhhhhhhhhhhhhhhhhhhh-----hHhhhccChH---HHHHHHHHHHHHHHHHHHHhhcccCCC-CCCCCCCCCCCC
Q 011932 105 KRKKLKGKRAVVRWLKHFRYKK-----KKEYERMTAE---EKILYKLRKARKKEERIVEGLKKIEPK-ESSEMTHDPEIL 175 (474)
Q Consensus 105 ~r~k~k~k~a~~~~lk~~r~k~-----kke~~~m~~e---~ri~~KL~~AkkK~er~~e~LaKiE~~-~paEp~~DpE~L 175 (474)
++.-..-.++.++|.+.+.+.. +.+.+++..+ +.+.+++..+++|++++...|++++.+ .|++..+|++.+
T Consensus 304 ~~t~~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~e~~ 383 (564)
T KOG1990|consen 304 KATLLELARAKAKKEKEIERRSISSRLKLEFEKASSEKLTEAIFHKLEKAKKKLASANRILAKLEDPKIPAELRYDPESI 383 (564)
T ss_pred hhhHHHHHHHhcccccCcccccccchhhhhhhccchhhHHHHHHHHHhhhhhhccchhhhhhcccccccccccccchhhc
Confidence 3344455667778887777765 7777788776 788899999999999999999999987 899999999999
Q ss_pred CHHHHHHHHhcccCCCceeeeCCCCCcHHHHHHHHHHHHhcCeeeEEecCCCH-HHHHHHHHHHHHHhCCeEEEEE---e
Q 011932 176 TPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSA-EEVKEIAAELARLTGGIVLEIH---E 251 (474)
Q Consensus 176 T~EERk~LRKlAhkLKPVV~IGKrGVTDgVIeeIh~ALK~HELVKVKVkq~s~-ed~keIAeeLAe~SGGeLVQVi---I 251 (474)
|.+++.+++++|.+|++++.+|++|+++|||.++|.||++||++||+|+.... .+++..|..++..+|+.+|++. .
T Consensus 384 t~ee~~~~~k~g~k~~~~~~~~rrg~f~g~i~n~~l~wk~~e~~k~i~~~~~~~~~~~~~a~~le~esg~~~v~~~~~~~ 463 (564)
T KOG1990|consen 384 TEEERLMLRKVGLKMKRRLLSGRRGVFDGVIENMHLHWKSRELVKVICKEKNLPSQVKQYASALERESGGILVSIDKNPK 463 (564)
T ss_pred ChHHHHHHHHHHHhhccccccCCcccccceeecchhhhhhcccceeeeccccccHHHHHHHHHHHHHhCCceeeeccCCc
Confidence 99999999999999999999999999999999999999999999999998665 9999999999999999999976 4
Q ss_pred CCEEEEEeCCCCCCCCCCCCCCCcchhhhhhHHHHHhhhhchhhHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHH
Q 011932 252 ENTIIMYRGKNYAQPPTEIMSPRITLSRKKVLLIFLIHTLYKYAECIIFFFLLLTALDKSKYRDGLRAVKKYIPKLEQEL 331 (474)
Q Consensus 252 G~tIILYRGKNY~rP~~eim~P~~~Ltkrk~~~~~~~~~~~~~~~~~~~~~~~~~AL~rS~~~qr~~alk~~I~~le~~i 331 (474)
|..|+.|||+||.+|.+ |+|.++|+||+ |+.+++++|+.+|+++||+.+++++
T Consensus 464 ~~ai~~yr~k~y~~p~~--l~P~~~l~~~k-------------------------~~~~~~~~~~~~a~~~~i~~~~~~~ 516 (564)
T KOG1990|consen 464 GYAIIAYRGKNYDRPTS--LRPRNLLSRRK-------------------------ALERSLEEQRKEALKSHISDLEQEI 516 (564)
T ss_pred hhhHHHhhhhhccCCcc--cCchhhhcccC-------------------------CccccHHHHHHHHHhhhcchhhhhH
Confidence 66699999999999976 99999999999 9999999999999999999999999
Q ss_pred HHHHHHhccccccc
Q 011932 332 ELLRAQAETRSENR 345 (474)
Q Consensus 332 e~l~~~~~~~~~~~ 345 (474)
+++++++.......
T Consensus 517 e~~~~~~~~~~~~~ 530 (564)
T KOG1990|consen 517 EQLQASVEAMPAIN 530 (564)
T ss_pred HHhhcchhcccccc
Confidence 99999988755543
No 5
>COG1534 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]
Probab=99.93 E-value=1.5e-25 Score=191.26 Aligned_cols=91 Identities=26% Similarity=0.429 Sum_probs=86.5
Q ss_pred CCCHHHHHHHHhcccCCCceeeeCCCCCcHHHHHHHHHHHHhcCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEEeCC
Q 011932 174 ILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEEN 253 (474)
Q Consensus 174 ~LT~EERk~LRKlAhkLKPVV~IGKrGVTDgVIeeIh~ALK~HELVKVKVkq~s~ed~keIAeeLAe~SGGeLVQViIG~ 253 (474)
+||++|+++||+.||+++|+|+||++|||++||.+|+++|++||||||++.+++.++++++|+.|++.+||.+||+ +|+
T Consensus 1 ~Lt~kq~~~Lrs~Ah~l~piv~IGk~Glte~vi~Ei~~aL~~reLIKVkvl~~~~edr~eia~~l~~~~~a~lVqv-iG~ 79 (97)
T COG1534 1 MLTGKQKRFLRSKAHHLKPIVQIGKNGLTEGVIKEIDRALEARELIKVKVLQNAREDKKEIAEALAEETGAELVQV-IGK 79 (97)
T ss_pred CCcHHHHHHHHHhhccCCceEEecCCccCHHHHHHHHHHHHhCCcEEEEeeccchhhHHHHHHHHHHHhCCEEeee-eee
Confidence 6999999999999999999999999999999999999999999999999999999999999999999999999998 599
Q ss_pred EEEEEeCCCCCCC
Q 011932 254 TIIMYRGKNYAQP 266 (474)
Q Consensus 254 tIILYRGKNY~rP 266 (474)
++|||| .+...+
T Consensus 80 ~~vlyr-~~~e~~ 91 (97)
T COG1534 80 TLVLYR-ESKEKR 91 (97)
T ss_pred EEEEEe-cCcccc
Confidence 999999 444444
No 6
>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]
Probab=97.70 E-value=2.6e-05 Score=83.69 Aligned_cols=152 Identities=21% Similarity=0.290 Sum_probs=128.5
Q ss_pred hhhhhhhhhhhhhhHhhhccChHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCCCCCHHHHHHHHhcccCCCce
Q 011932 114 AVVRWLKHFRYKKKKEYERMTAEEKILYKLRKARKKEERIVEGLKKIEPKESSEMTHDPEILTPEEHFYFLKMGRKCKNY 193 (474)
Q Consensus 114 a~~~~lk~~r~k~kke~~~m~~e~ri~~KL~~AkkK~er~~e~LaKiE~~~paEp~~DpE~LT~EERk~LRKlAhkLKPV 193 (474)
+..-|+-.++..++.-...|.++..-.|-..........+.+.+..+..|...-+...+..||..+.-++|.+|-...|+
T Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dl~~~~i~~~~~p~r~l~~~~~~~l~~~~~~~~r~~~~~~p~~ 193 (564)
T KOG1990|consen 114 QAGKWPSELEKEKNELLDSLGPELSDWGGSDRLSVDADLLPEKIPDYMRPFRTLPVGSPPLLTSIESTLLRRLGYKLPPH 193 (564)
T ss_pred hhhhhHHHHHHHHHHHhhccCcccccCCCCCCccchhhhchhhhhcccChhccCCCCChhhhhhHHHHHHHHhccccccc
Confidence 44557777777888888888888666665555666677888888888888778888889999999999999999999999
Q ss_pred eeeCCCCCcHHHHHHHHHHHHhcCeeeEEecCCC-HHHHHHHHHHH--HHHhCCeEEEEEeCCEEEEEeCCCCCCC
Q 011932 194 VPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFS-AEEVKEIAAEL--ARLTGGIVLEIHEENTIIMYRGKNYAQP 266 (474)
Q Consensus 194 V~IGKrGVTDgVIeeIh~ALK~HELVKVKVkq~s-~ed~keIAeeL--Ae~SGGeLVQViIG~tIILYRGKNY~rP 266 (474)
+.+|.++.-+++...|..+|..|+..|+-+...- ......+|..+ -..+|+.||.. -|..+++||++||-.|
T Consensus 194 ~~~~~~~~~~~~~~~~~~~~~k~~~~k~~~~rg~~~~~~~~~a~~l~~~~~tg~~lv~h-N~~~dv~y~~~~Fl~~ 268 (564)
T KOG1990|consen 194 FALGRSRKLQGLAVAMVSFWEKHEFAKILIKRGVLETRKERMADELQELLLTGKVLVLH-NKLLDVMYRYKNFLSP 268 (564)
T ss_pred ceehhccccccchhHHHHHHHHHHHHHHHHHhcchhhhccchHHHHHHHHhcCCeEEee-ccceeeeeehhhcccc
Confidence 9999999999999999999999999998886643 44556788888 88999999964 6889999999999885
No 7
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=53.59 E-value=38 Score=26.48 Aligned_cols=46 Identities=20% Similarity=0.200 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHhccc
Q 011932 296 ECIIFFFLLLTALDKSKYRDGLRAVKKYIPKLEQELELLRAQAETR 341 (474)
Q Consensus 296 ~~~~~~~~~~~AL~rS~~~qr~~alk~~I~~le~~ie~l~~~~~~~ 341 (474)
+++.+++..........-.+.+.++...+.+++++.+.|+.++..-
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 5 LVIFLVFGISGYSRYYQLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred hhhHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444444555555566667778899999999999999999988876
No 8
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=51.17 E-value=1.6e+02 Score=35.62 Aligned_cols=83 Identities=14% Similarity=0.113 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHHhcCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEE----eCCEEEEEeCCCCCCCCCCCCCCCcchh
Q 011932 203 QGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIH----EENTIIMYRGKNYAQPPTEIMSPRITLS 278 (474)
Q Consensus 203 DgVIeeIh~ALK~HELVKVKVkq~s~ed~keIAeeLAe~SGGeLVQVi----IG~tIILYRGKNY~rP~~eim~P~~~Lt 278 (474)
|+|++.|...++-+.= ....-+-..|..|.+...-+.|... .=..+|.|=..+-..|+ .+.|.+-|=
T Consensus 706 D~vlE~Ir~glEin~~-------~~nQrriA~aryL~ELynfemvds~vIl~tLy~~i~~g~~~~~~~~--~ldppddlF 776 (1128)
T KOG2051|consen 706 DHVLEDIRPGLEINDY-------VSNQRRIALARYLGELYNFEMVDSDVILNTLYHLISLGHFENLTPS--ALDPPDDLF 776 (1128)
T ss_pred HHHHHHHHhhhhcCcH-------HHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHhcccccCCCCcc--cCCChHHHH
Confidence 9999999998885441 1233445677888888888888631 01345555444433443 355555554
Q ss_pred h-hhhHHHHHhhhhchh
Q 011932 279 R-KKVLLIFLIHTLYKY 294 (474)
Q Consensus 279 k-rk~~~~~~~~~~~~~ 294 (474)
| |-|..+-..|.+|..
T Consensus 777 RirlV~~lL~tc~~yf~ 793 (1128)
T KOG2051|consen 777 RIRLVCMLLQTCGPYFT 793 (1128)
T ss_pred HHHHHHHHHHHcccccc
Confidence 4 445555556666543
No 9
>PRK13482 DNA integrity scanning protein DisA; Provisional
Probab=49.00 E-value=42 Score=35.53 Aligned_cols=117 Identities=22% Similarity=0.222 Sum_probs=65.7
Q ss_pred CHHHHHHHHHHHHHHhCCeEEEEE-eCCEEEEEeCCCCCCCCCCCCCCCcchhhhhhHHHHHhhhhchhhHHHHHHHHHH
Q 011932 227 SAEEVKEIAAELARLTGGIVLEIH-EENTIIMYRGKNYAQPPTEIMSPRITLSRKKVLLIFLIHTLYKYAECIIFFFLLL 305 (474)
Q Consensus 227 s~ed~keIAeeLAe~SGGeLVQVi-IG~tIILYRGKNY~rP~~eim~P~~~Ltkrk~~~~~~~~~~~~~~~~~~~~~~~~ 305 (474)
....++.+|.-+++.||+.+|.|. ..++|-+|.+..-.. +..|..+++|-. -+..++-+|..-+--...-+
T Consensus 97 e~GtRHRaA~gise~Tda~vIvVSee~g~Isl~~~g~~~~----~~d~~~l~~~an----Qal~TlekY~~~ld~~~~~L 168 (352)
T PRK13482 97 ETGTRHRTAERVAKQTGVPVIAVSQRRNIITLYVGGLRYV----LEDIGVILSRAN----QALQTLEKYKARLDEVLTNL 168 (352)
T ss_pred cCcHHHHHhhHHHHhcCCEEEEEecccCeEEEEECCEEEe----cCCHHHHHHHHH----HHHHHHHHHHHHHHHHHhhc
Confidence 345789999999999999999764 234666776443222 245667788877 34444444433222222222
Q ss_pred HHH---------HHHHHHhhHHHHHhhHHHHHHHHHHHHHHhccccccc-hhhhhhhhcc
Q 011932 306 TAL---------DKSKYRDGLRAVKKYIPKLEQELELLRAQAETRSENR-SDAAEDVQNT 355 (474)
Q Consensus 306 ~AL---------~rS~~~qr~~alk~~I~~le~~ie~l~~~~~~~~~~~-~~~~~~~~~~ 355 (474)
+|| +-..-.||.|-+.+ ..+||+.+-.++...|--- -+..|.+.+.
T Consensus 169 ~~lE~e~~vtl~dV~~v~qr~emv~r----i~~ei~~yi~ELG~eGrli~mQl~El~~~~ 224 (352)
T PRK13482 169 SALEFEDLVTLRDVVTVLQRLEMVRR----ISEEIEGYVVELGTEGRLISLQLEELLAGV 224 (352)
T ss_pred cHHHHhCCcCHHHHHHHHHHHHHHHH----HHHHHHHHHHHhCcccchHHHHHHHHHccc
Confidence 222 33445566665544 5566666666666555422 3334444443
No 10
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=45.07 E-value=51 Score=27.18 Aligned_cols=42 Identities=21% Similarity=0.353 Sum_probs=35.4
Q ss_pred HhhHHHHHhhHHHHHHHHHHHHHHhccccccchhhhhhhhcc
Q 011932 314 RDGLRAVKKYIPKLEQELELLRAQAETRSENRSDAAEDVQNT 355 (474)
Q Consensus 314 ~qr~~alk~~I~~le~~ie~l~~~~~~~~~~~~~~~~~~~~~ 355 (474)
.+-+..+...+..++++++.+..++.......+...+|++..
T Consensus 25 ~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k 66 (90)
T PF06103_consen 25 KKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEK 66 (90)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344777889999999999999999999888888888888754
No 11
>PF04472 DUF552: Protein of unknown function (DUF552); InterPro: IPR007561 This entry represents a cell division protein, designated SepF, which is conserved in Gram-positive bacteria. SepF accumulates at the cell division site in an FtsZ-dependent manner and is required for proper septum formation []. Mutants are viable but the formation of the septum is much slower and occurs with a very abnormal morphology. This entry also includes archaeal related proteins of unknown function.; GO: 0000917 barrier septum formation; PDB: 3P04_A.
Probab=36.75 E-value=1.7e+02 Score=23.63 Aligned_cols=56 Identities=14% Similarity=0.181 Sum_probs=38.7
Q ss_pred HHHHHHHHHhcCeeeEEecCCCHHHHHHHHHHHHH---HhCCeEEEEEeCCEEEEEeCCCC
Q 011932 206 ILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELAR---LTGGIVLEIHEENTIIMYRGKNY 263 (474)
Q Consensus 206 IeeIh~ALK~HELVKVKVkq~s~ed~keIAeeLAe---~SGGeLVQViIG~tIILYRGKNY 263 (474)
+.++-++++....|=|.+..-..++.+++.+.|+. ..+|.+..+ |..++++=++|.
T Consensus 12 ~~~i~~~l~~g~~Vivnl~~l~~~~~~Ri~Dfl~G~~~al~G~i~~i--~~~~~l~~P~~V 70 (73)
T PF04472_consen 12 AREIVDALREGKIVIVNLENLDDEEAQRILDFLSGAVYALDGDIQKI--SEKVFLLTPKGV 70 (73)
T ss_dssp HHHHHHHHHTT--EEEE-TTS-HHHHHHHHHHHHHHHHHTT-EEEEE--ETTEEEEE----
T ss_pred HHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHhchheeeCCEEEEE--cCCEEEEECCCc
Confidence 35588999999999999999888889999888876 679999964 777777766654
No 12
>PF03641 Lysine_decarbox: Possible lysine decarboxylase; InterPro: IPR005269 This entry represents a cytokinin-activating enzyme working in the direct activation pathway. It is a phosphoribohydrolase that converts inactive cytokinin nucleotides to the biologically active free-base forms [, ]. The proteins in this entry belong to the LOG family of proteins.; PDB: 1YDH_B 2Q4D_A 1RCU_C 1WEH_B 3SBX_F 3BQ9_B 2PMB_D 3GH1_D 1WEK_C 3QUA_A ....
Probab=34.23 E-value=46 Score=29.51 Aligned_cols=36 Identities=11% Similarity=0.283 Sum_probs=29.9
Q ss_pred HHHHHhcccCCC-ceeeeCCCCCcHHHHHHHHHHHHh
Q 011932 180 HFYFLKMGRKCK-NYVPVGRRGIYQGVILNMHLHWKK 215 (474)
Q Consensus 180 Rk~LRKlAhkLK-PVV~IGKrGVTDgVIeeIh~ALK~ 215 (474)
--.+.++|.+-+ |++.++.+|.++.+++.++.....
T Consensus 73 ~~~~~~l~~~~~~Piil~~~~g~w~~l~~~l~~~~~~ 109 (133)
T PF03641_consen 73 ALTLMQLGRHNKVPIILLNIDGFWDPLLEFLDRMIEE 109 (133)
T ss_dssp HHHHHHTTSSTS-EEEEEECGGCCHHHHHHHHHHHHT
T ss_pred HHHHHhhccccCCCEEEeCCcchHHHHHHHHHHHHHC
Confidence 345678898888 999999999999999999755544
No 13
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=34.13 E-value=2e+02 Score=26.81 Aligned_cols=69 Identities=16% Similarity=0.044 Sum_probs=47.4
Q ss_pred CCCHHHHHHHHhcccCCCceeee-CCCCCcHHH-HHHHHHHHHhcCeeeEEecCCCHHHHHHHHHHHHHHhCCeEE
Q 011932 174 ILTPEEHFYFLKMGRKCKNYVPV-GRRGIYQGV-ILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVL 247 (474)
Q Consensus 174 ~LT~EERk~LRKlAhkLKPVV~I-GKrGVTDgV-IeeIh~ALK~HELVKVKVkq~s~ed~keIAeeLAe~SGGeLV 247 (474)
.||++|+..++.+...-+.++.| |..|---.. +..+..+|..+. .+|.+..... .++..|.+.+|....
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~apT~----~Aa~~L~~~~~~~a~ 71 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGLAPTN----KAAKELREKTGIEAQ 71 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT---EEEEESSH----HHHHHHHHHHTS-EE
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEECCcH----HHHHHHHHhhCcchh
Confidence 48999999999997666555555 999876544 667899999987 7777776663 455567777775544
No 14
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=30.60 E-value=1.3e+02 Score=23.24 Aligned_cols=24 Identities=42% Similarity=0.612 Sum_probs=14.7
Q ss_pred HHHHhhHHHHHhhHHHHHHHHHHH
Q 011932 311 SKYRDGLRAVKKYIPKLEQELELL 334 (474)
Q Consensus 311 S~~~qr~~alk~~I~~le~~ie~l 334 (474)
-..+.+.+.+++-+.++|++++.|
T Consensus 44 ~~~r~~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 44 LRLRRRIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344455566666667777766655
No 15
>PF12097 DUF3573: Protein of unknown function (DUF3573); InterPro: IPR021956 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 372 to 530 amino acids in length.
Probab=28.76 E-value=2e+02 Score=31.04 Aligned_cols=27 Identities=22% Similarity=0.382 Sum_probs=23.8
Q ss_pred HHHHhhHHHHHhhHHHHHHHHHHHHHH
Q 011932 311 SKYRDGLRAVKKYIPKLEQELELLRAQ 337 (474)
Q Consensus 311 S~~~qr~~alk~~I~~le~~ie~l~~~ 337 (474)
+..+|.+..|.+.|..|+++|..|+.|
T Consensus 38 ~~~~~~i~~Lq~QI~~Lq~ei~~l~~~ 64 (383)
T PF12097_consen 38 QNDQQEISELQKQIQQLQAEINQLEEQ 64 (383)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 677888889999999999999999888
No 16
>PF06390 NESP55: Neuroendocrine-specific golgi protein P55 (NESP55); InterPro: IPR009434 This family consists of several mammalian neuroendocrine-specific golgi protein P55 (NESP55) sequences. NESP55 is a novel member of the chromogranin family and is a soluble, acidic, heat-stable secretory protein that is expressed exclusively in endocrine and nervous tissues, although less widely than chromogranins [].
Probab=28.63 E-value=1.5e+02 Score=30.17 Aligned_cols=13 Identities=46% Similarity=0.496 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHH
Q 011932 302 FLLLTALDKSKYR 314 (474)
Q Consensus 302 ~~~~~AL~rS~~~ 314 (474)
..|++||.-|-.+
T Consensus 39 iallrala~s~~r 51 (257)
T PF06390_consen 39 IALLRALATSNAR 51 (257)
T ss_pred HHHHHHHHhcchH
Confidence 3567888776544
No 17
>PF12207 DUF3600: Domain of unknown function (DUF3600); InterPro: IPR022019 This family of proteins is found in bacteria. Proteins in this family are approximately 230 amino acids in length. This domain is the C-terminal of the putative ecf-type sigma factor negative effector. ; PDB: 3FGG_A 3FH3_A.
Probab=28.35 E-value=5.6 Score=37.94 Aligned_cols=97 Identities=22% Similarity=0.162 Sum_probs=60.1
Q ss_pred HHHHHHHHHHHHH-----HHHHHHhhcccCCC----CCCCCCCCCCCCCHHHHHHHHhcccCCCceee------eCCCCC
Q 011932 137 EKILYKLRKARKK-----EERIVEGLKKIEPK----ESSEMTHDPEILTPEEHFYFLKMGRKCKNYVP------VGRRGI 201 (474)
Q Consensus 137 ~ri~~KL~~AkkK-----~er~~e~LaKiE~~----~paEp~~DpE~LT~EERk~LRKlAhkLKPVV~------IGKrGV 201 (474)
.++.-||..|+-. =+...+.|+++-.. .-+.-..|.+.|+..++..++++...|.|++- --|.=+
T Consensus 27 ~~~eaKLqqAK~~lgeeEfeef~~lLK~lt~~kLkygD~NGnidye~ls~~eqee~k~~~~eLqPYFdKLN~~~SsK~vl 106 (162)
T PF12207_consen 27 LRLEAKLQQAKGELGEEEFEEFKELLKKLTNAKLKYGDKNGNIDYEKLSKEEQEEYKKLTMELQPYFDKLNGHKSSKEVL 106 (162)
T ss_dssp HHHHHHHHHHHHCS-HHHHHHHHHHHHHHHHHHHHHB-TTS-B-GGGS-HHHHHHHHHHHHHHHHHHHHHTT---HHHHS
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhHHhhcccCCCcCHHhCCHHHHHHHHHHHHhcchHHHHhcCCcchhhhc
Confidence 3555666666531 23334444444321 44566789999999999999999999999862 223446
Q ss_pred cHHHHHHHHHHHHhcCeeeEEecCCCHHHHHH
Q 011932 202 YQGVILNMHLHWKKHQTLKVIVKTFSAEEVKE 233 (474)
Q Consensus 202 TDgVIeeIh~ALK~HELVKVKVkq~s~ed~ke 233 (474)
|+.-.+.--.||-.+|.|+|+.....+..+.+
T Consensus 107 t~~E~d~y~eALm~~e~v~vk~~~~~~~~ve~ 138 (162)
T PF12207_consen 107 TQEEYDQYIEALMTYETVRVKTKSSGGITVEE 138 (162)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHCT-SS---GGG
T ss_pred CHHHHHHHHHHHhhhheeeeeccCCCCCcHHh
Confidence 66667788889999999999988655444433
No 18
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=27.80 E-value=3.6e+02 Score=22.47 Aligned_cols=27 Identities=37% Similarity=0.422 Sum_probs=15.1
Q ss_pred HHHHHhhHHHHHHHHHHHHHHhccccc
Q 011932 317 LRAVKKYIPKLEQELELLRAQAETRSE 343 (474)
Q Consensus 317 ~~alk~~I~~le~~ie~l~~~~~~~~~ 343 (474)
+..+..-+.+|+.+-+.|+.+......
T Consensus 44 l~~l~~~~~~l~~e~~~L~lE~~~l~~ 70 (97)
T PF04999_consen 44 LQQLEKEIDQLQEENERLRLEIATLSS 70 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 455555555566665666655555444
No 19
>TIGR01223 Pmev_kin_anim phosphomevalonate kinase, animal type. This enzyme is part of the mevalonate pathway, one of two alternative pathways for the biosynthesis of IPP. In an example of nonorthologous gene displacement, two different types of phosphomevalonate kinase are found. One is this type, found in animals. The other is the ERG8 type, found in plants and fungi (TIGR01219) and in Gram-positive bacteria (TIGR01220).
Probab=26.75 E-value=37 Score=33.07 Aligned_cols=28 Identities=29% Similarity=0.506 Sum_probs=24.5
Q ss_pred CchhhccCCC--CCCCCCcchHHHHHHhhh
Q 011932 410 LYLDQFDKFP--VQNDEEHEDFEEHLRQIS 437 (474)
Q Consensus 410 l~l~~~~~f~--~~~~~e~~df~~h~~~~~ 437 (474)
-.||.|..|- ++||++.+.+++||.++-
T Consensus 146 c~lDd~~~~D~vi~Nd~~~~~l~~~l~~l~ 175 (182)
T TIGR01223 146 CGLDNFGDFDWVIENHGVEQRLEEQLENLI 175 (182)
T ss_pred cCCCcccceeEEEecCCChHHHHHHHHHHH
Confidence 6899997777 899999999999998874
No 20
>COG1623 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]
Probab=25.80 E-value=3.1e+02 Score=29.34 Aligned_cols=104 Identities=24% Similarity=0.294 Sum_probs=63.8
Q ss_pred HHHHHHHHHHHHHHhCCeEEEEE-eCCEEEEEeCCCCCCCCCCCCCCCcchhhhhhHHHHHhhhhchhhH---------H
Q 011932 228 AEEVKEIAAELARLTGGIVLEIH-EENTIIMYRGKNYAQPPTEIMSPRITLSRKKVLLIFLIHTLYKYAE---------C 297 (474)
Q Consensus 228 ~ed~keIAeeLAe~SGGeLVQVi-IG~tIILYRGKNY~rP~~eim~P~~~Ltkrk~~~~~~~~~~~~~~~---------~ 297 (474)
...+...|+-.|..||..||+|. --++|.||.++ +..- +-.+-.+|+|-. -++.++-+|-- -
T Consensus 104 tGtRHRTAER~AkqTG~~VIaiS~rrNvITlY~~~-~ky~---L~d~~~il~ran----QAi~TLEkYk~~Ld~~~~~L~ 175 (349)
T COG1623 104 TGTRHRTAERVAKQTGNPVIAISERRNVITLYVGN-LKYV---LKDSAFILSRAN----QAIQTLEKYKTVLDRVLNQLN 175 (349)
T ss_pred CccccchHHHHHHHhCCeEEEEecccceEEEEecC-eeee---ecChHHHHHHHH----HHHHHHHHHHHHHHHHhhhhh
Confidence 45688999999999999999874 35688999743 3322 122445678776 44555555421 1
Q ss_pred HHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHhccccc
Q 011932 298 IIFFFLLLTALDKSKYRDGLRAVKKYIPKLEQELELLRAQAETRSE 343 (474)
Q Consensus 298 ~~~~~~~~~AL~rS~~~qr~~alk~~I~~le~~ie~l~~~~~~~~~ 343 (474)
++=|-.+.+-.+-.--+||.+-|++- -.+|.-+-.++.+.|.
T Consensus 176 ~lEledlVT~~DV~~v~qR~emv~RI----~~eI~~yv~ELG~eGr 217 (349)
T COG1623 176 LLELEDLVTLHDVVSVLQRLEMVRRI----GEEIDRYVVELGTEGR 217 (349)
T ss_pred hHHHhhhhhHHHHHHHHHHHHHHHHH----HHHHHHHHHHhcccch
Confidence 23344555666677777777766653 3444444444444443
No 21
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=22.51 E-value=89 Score=25.54 Aligned_cols=35 Identities=23% Similarity=0.267 Sum_probs=26.9
Q ss_pred HHhhHHHHHhhHHHHHHHHHHHHHHhccccccchh
Q 011932 313 YRDGLRAVKKYIPKLEQELELLRAQAETRSENRSD 347 (474)
Q Consensus 313 ~~qr~~alk~~I~~le~~ie~l~~~~~~~~~~~~~ 347 (474)
..-+.+-|..+|.-|+.||+.+++++.....+++.
T Consensus 19 s~lSv~EL~~RIa~L~aEI~R~~~~~~~K~a~r~A 53 (59)
T PF06698_consen 19 SLLSVEELEERIALLEAEIARLEAAIAKKSASRAA 53 (59)
T ss_pred hhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456678899999999999999998877665543
No 22
>PRK11637 AmiB activator; Provisional
Probab=22.41 E-value=1.3e+02 Score=31.54 Aligned_cols=29 Identities=24% Similarity=0.350 Sum_probs=15.5
Q ss_pred HHHHhhHHHHHhhHHHHHHHHHHHHHHhc
Q 011932 311 SKYRDGLRAVKKYIPKLEQELELLRAQAE 339 (474)
Q Consensus 311 S~~~qr~~alk~~I~~le~~ie~l~~~~~ 339 (474)
+--.+.++.++.-|..++++|..++.++.
T Consensus 43 ~~~~~~l~~l~~qi~~~~~~i~~~~~~~~ 71 (428)
T PRK11637 43 SDNRDQLKSIQQDIAAKEKSVRQQQQQRA 71 (428)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455556666666665555554444443
No 23
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=20.61 E-value=1.1e+02 Score=23.56 Aligned_cols=38 Identities=29% Similarity=0.406 Sum_probs=28.7
Q ss_pred HHHHHHhhhhcccccccCCCCCCCCCchhHHHHHHHHHHhhhh
Q 011932 429 FEEHLRQISIDSRNAKSLGKDEDSSHFDEVDKMFLRAASLLKK 471 (474)
Q Consensus 429 f~~h~~~~~~~s~~~~~~~~~~~~~~~devd~~flra~s~lkk 471 (474)
||+.+.++-.-..+.++ .++| +|+.=+.|-+|..++++
T Consensus 1 fEe~~~~Le~Iv~~Le~----~~~s-Ldes~~lyeeg~~l~~~ 38 (53)
T PF02609_consen 1 FEEAMERLEEIVEKLES----GELS-LDESLKLYEEGMELIKK 38 (53)
T ss_dssp HHHHHHHHHHHHHHHHT----T-S--HHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHc----CCCC-HHHHHHHHHHHHHHHHH
Confidence 77777777766677664 3444 99999999999999886
No 24
>TIGR00730 conserved hypothetical protein, DprA/Smf-related, family 2. This model represents one branch of a subfamily of proteins of unknown function. Both PSI-BLAST and weak hits by this model show a low level of similarity to and suggest an evolutionary relationship of the subfamily to the DprA/Smf family of DNA-processing proteins involved in chromosomal transformation with foreign DNA. Both Aquifex aeolicus and Mycobacterium leprae have one member in each of two branches of this subfamily, suggesting that the branches may have distinct functions.
Probab=20.02 E-value=2.8e+02 Score=26.25 Aligned_cols=37 Identities=14% Similarity=0.286 Sum_probs=30.1
Q ss_pred HHHHHHhcccCCCceeeeCCCCCcHHHHHHHHHHHHh
Q 011932 179 EHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKK 215 (474)
Q Consensus 179 ERk~LRKlAhkLKPVV~IGKrGVTDgVIeeIh~ALK~ 215 (474)
|--.+.++|.+-||++.++-+|.++.+++-++...+.
T Consensus 115 e~~~~~qlg~~~kPiil~n~~g~~~~l~~~l~~~~~~ 151 (178)
T TIGR00730 115 EVLTWAQLGIHQKPIILFNVNGHFDGLVEWLKYSIQE 151 (178)
T ss_pred HHHHHHHcCCCCCCEEEECCcchHHHHHHHHHHHHHC
Confidence 3345778899999999999999999999988854443
Done!