Query 023463
Match_columns 282
No_of_seqs 191 out of 736
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 04:14:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023463.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023463hhsearch_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 100.0 1.3E-29 2.7E-34 204.1 12.7 89 6-95 1-89 (97)
2 TIGR00253 RNA_bind_YhbY putati 100.0 1.8E-29 3.9E-34 202.2 12.5 87 8-95 1-87 (95)
3 PF01985 CRS1_YhbY: CRS1 / Yhb 100.0 7.9E-29 1.7E-33 192.4 10.8 84 8-92 1-84 (84)
4 COG1534 Predicted RNA-binding 99.9 1.6E-27 3.6E-32 192.2 12.3 87 7-94 1-87 (97)
5 KOG1990 Poly(A)-specific exori 99.9 5.3E-24 1.2E-28 212.7 5.5 150 3-154 378-531 (564)
6 KOG1990 Poly(A)-specific exori 97.7 2.6E-05 5.6E-10 79.3 4.2 97 2-99 169-268 (564)
7 COG1623 Predicted nucleic-acid 65.2 26 0.00057 34.6 7.4 72 60-143 103-175 (349)
8 PF04472 DUF552: Protein of un 51.7 90 0.0019 23.5 6.9 56 39-96 12-70 (73)
9 PF13604 AAA_30: AAA domain; P 48.2 1E+02 0.0023 26.9 7.8 70 7-81 1-72 (196)
10 PRK13482 DNA integrity scannin 43.0 62 0.0013 32.2 6.1 94 32-140 54-166 (352)
11 PF03641 Lysine_decarbox: Poss 42.3 31 0.00067 28.6 3.4 35 14-48 74-109 (133)
12 KOG2051 Nonsense-mediated mRNA 39.2 1.3E+02 0.0029 34.2 8.3 39 36-81 706-744 (1128)
13 PF04931 DNA_pol_phi: DNA poly 35.4 69 0.0015 34.2 5.5 38 109-148 597-634 (784)
14 PRK09423 gldA glycerol dehydro 31.9 1.8E+02 0.0039 27.9 7.2 56 14-72 23-81 (366)
15 PRK13434 F0F1 ATP synthase sub 30.4 2.6E+02 0.0057 24.4 7.4 88 8-96 50-158 (184)
16 PF04931 DNA_pol_phi: DNA poly 30.4 77 0.0017 33.9 4.8 10 235-244 702-711 (784)
17 PF02609 Exonuc_VII_S: Exonucl 30.3 63 0.0014 23.1 3.0 38 237-279 1-38 (53)
18 COG5509 Uncharacterized small 29.0 1.9E+02 0.004 22.6 5.4 40 116-155 18-57 (65)
19 COG4809 Archaeal ADP-dependent 28.7 1.3E+02 0.0028 31.1 5.7 103 32-148 296-399 (466)
20 cd08170 GlyDH Glycerol dehydro 27.8 2E+02 0.0044 27.2 6.7 55 15-72 17-74 (351)
21 PF07412 Geminin: Geminin; In 27.5 81 0.0018 29.2 3.9 34 111-146 115-148 (200)
22 COG0274 DeoC Deoxyribose-phosp 27.4 1.6E+02 0.0035 27.8 5.8 68 20-87 91-164 (228)
23 PF14626 RNase_Zc3h12a_2: Zc3h 27.3 1E+02 0.0022 26.7 4.2 70 31-107 35-113 (122)
24 PF10152 DUF2360: Predicted co 27.0 1.1E+02 0.0024 26.3 4.4 31 119-149 17-47 (148)
25 cd07766 DHQ_Fe-ADH Dehydroquin 26.4 3.4E+02 0.0073 25.3 7.8 48 24-73 24-76 (332)
26 PRK05298 excinuclease ABC subu 25.6 4.3E+02 0.0094 27.8 9.2 119 3-132 8-131 (652)
27 TIGR00730 conserved hypothetic 25.5 87 0.0019 27.7 3.6 34 14-47 117-150 (178)
28 COG0052 RpsB Ribosomal protein 25.1 1E+02 0.0022 29.5 4.2 102 21-124 25-142 (252)
29 PF01918 Alba: Alba; InterPro 24.9 2.8E+02 0.006 20.2 5.9 57 26-82 2-63 (70)
30 COG0324 MiaA tRNA delta(2)-iso 24.7 55 0.0012 31.8 2.4 37 57-96 9-45 (308)
31 PRK13436 F0F1 ATP synthase sub 24.3 3.6E+02 0.0078 23.5 7.2 66 30-96 86-162 (179)
32 PF04530 Viral_Beta_CD: Viral 23.7 76 0.0016 27.4 2.7 22 27-49 93-114 (122)
33 cd08619 PI-PLCXDc_plant Cataly 23.0 1.6E+02 0.0036 28.5 5.2 65 34-99 92-172 (285)
34 TIGR01754 flav_RNR ribonucleot 23.0 4.2E+02 0.0091 21.6 7.2 67 7-73 65-138 (140)
35 PRK13430 F0F1 ATP synthase sub 22.9 4.5E+02 0.0097 24.7 7.9 50 30-79 178-231 (271)
36 KOG1655 Protein involved in va 22.9 2.3E+02 0.005 26.7 5.9 36 121-156 24-59 (218)
37 PRK08474 F0F1 ATP synthase sub 21.9 4.7E+02 0.01 22.7 7.4 62 29-91 80-150 (176)
38 PRK11608 pspF phage shock prot 21.8 2.5E+02 0.0054 26.6 6.1 50 12-61 18-70 (326)
39 cd00379 Ribosomal_L10_P0 Ribos 21.3 2.7E+02 0.0059 22.9 5.6 73 13-92 7-80 (155)
40 PRK14566 triosephosphate isome 20.1 5.3E+02 0.012 24.5 7.8 80 14-96 120-222 (260)
No 1
>PRK10343 RNA-binding protein YhbY; Provisional
Probab=99.96 E-value=1.3e-29 Score=204.07 Aligned_cols=89 Identities=21% Similarity=0.321 Sum_probs=86.6
Q ss_pred CCCCHHHHHHHHhcccCCCCeeeecCCCCCHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeC
Q 023463 6 EILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEE 85 (282)
Q Consensus 6 E~LT~kQRk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~TGgeLVqV~IG 85 (282)
++||++||++||++||+|+|+|+||++|||++|+.+|+.+|++||||||++.+++++++++++++||+.|||++|| +||
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 MNLSTKQKQHLKGLAHPLKPVVLLGSNGLTEGVLAEIEQALEHHELIKVKIATEDRETKTLIVEAIVRETGACNVQ-VIG 79 (97)
T ss_pred CCCCHHHHHHHHHhcCCCCCeEEECCCCCCHHHHHHHHHHHHHCCcEEEEecCCChhHHHHHHHHHHHHHCCEEEe-eeC
Confidence 4699999999999999999999999999999999999999999999999999999999999999999999999999 699
Q ss_pred cEEEEEeCCC
Q 023463 86 NTIIMYRGKN 95 (282)
Q Consensus 86 ~tIILYRgkn 95 (282)
+++||||++.
T Consensus 80 ~~~vlYR~~~ 89 (97)
T PRK10343 80 KTLVLYRPTK 89 (97)
T ss_pred cEEEEEecCC
Confidence 9999999975
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=99.96 E-value=1.8e-29 Score=202.23 Aligned_cols=87 Identities=28% Similarity=0.349 Sum_probs=85.1
Q ss_pred CCHHHHHHHHhcccCCCCeeeecCCCCCHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeCcE
Q 023463 8 LTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEENT 87 (282)
Q Consensus 8 LT~kQRk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~TGgeLVqV~IG~t 87 (282)
||++||++||++||+|+|+|+|||+|||++|+++|+.+|++||||||++.++++++++++|.+|++.|||++|| .||++
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 LTGKQKRHLRGKAHHLKPVVLVGKNGLTEGVIKEIEQALEHRELIKVKVATEDREDKTLIAEALVKETGACNVQ-VIGKT 79 (95)
T ss_pred CCHHHHHHHHHHhCCCCCeEEECCCCCCHHHHHHHHHHHHhCCcEEEEecCCChhHHHHHHHHHHHHHCCEEEE-EEccE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999 69999
Q ss_pred EEEEeCCC
Q 023463 88 IIMYRGKN 95 (282)
Q Consensus 88 IILYRgkn 95 (282)
+||||+++
T Consensus 80 ~vlYR~~~ 87 (95)
T TIGR00253 80 IVLYRPTK 87 (95)
T ss_pred EEEEecCC
Confidence 99999974
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=99.96 E-value=7.9e-29 Score=192.36 Aligned_cols=84 Identities=36% Similarity=0.502 Sum_probs=75.3
Q ss_pred CCHHHHHHHHhcccCCCCeeeecCCCCCHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeCcE
Q 023463 8 LTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEENT 87 (282)
Q Consensus 8 LT~kQRk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~TGgeLVqV~IG~t 87 (282)
||++||++||++||+|+|+|+|||+|||++|+++|+.+|++||||||+|.++++.+++++|+.|++.|||++|+ ++|++
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 LTSKERKFLRKLAHHLKPVVQIGKNGLTDGVIEEIDDALEKHELVKVKVLGNCREDRKEIAEQLAEKTGAEVVQ-VIGRT 79 (84)
T ss_dssp --HHHHHHHHHHHTTC--SEEE-TTSS-HHHHHHHHHHHHHHSEEEEEETT--HHHHHHHHHHHHHHHTEEEEE-EETTE
T ss_pred CCHHHHHHHHHHhcCCCCeEEECCCCCCHHHHHHHHHHHHhCCeeEEEEccCCHHHHHHHHHHHHHHhCCEEEE-EECCE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999 79999
Q ss_pred EEEEe
Q 023463 88 IIMYR 92 (282)
Q Consensus 88 IILYR 92 (282)
+||||
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
>COG1534 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=1.6e-27 Score=192.24 Aligned_cols=87 Identities=28% Similarity=0.424 Sum_probs=84.7
Q ss_pred CCCHHHHHHHHhcccCCCCeeeecCCCCCHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeCc
Q 023463 7 ILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEEN 86 (282)
Q Consensus 7 ~LT~kQRk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~TGgeLVqV~IG~ 86 (282)
+||++|+++||+.||+++|+|+||++|||++||.+|+.+|++||||||++.+++.++++++|+.|++.+||.+|| .||+
T Consensus 1 ~Lt~kq~~~Lrs~Ah~l~piv~IGk~Glte~vi~Ei~~aL~~reLIKVkvl~~~~edr~eia~~l~~~~~a~lVq-viG~ 79 (97)
T COG1534 1 MLTGKQKRFLRSKAHHLKPIVQIGKNGLTEGVIKEIDRALEARELIKVKVLQNAREDKKEIAEALAEETGAELVQ-VIGK 79 (97)
T ss_pred CCcHHHHHHHHHhhccCCceEEecCCccCHHHHHHHHHHHHhCCcEEEEeeccchhhHHHHHHHHHHHhCCEEee-eeee
Confidence 599999999999999999999999999999999999999999999999999999999999999999999999999 5999
Q ss_pred EEEEEeCC
Q 023463 87 TIIMYRGK 94 (282)
Q Consensus 87 tIILYRgk 94 (282)
++||||.+
T Consensus 80 ~~vlyr~~ 87 (97)
T COG1534 80 TLVLYRES 87 (97)
T ss_pred EEEEEecC
Confidence 99999943
No 5
>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]
Probab=99.89 E-value=5.3e-24 Score=212.71 Aligned_cols=150 Identities=44% Similarity=0.675 Sum_probs=141.8
Q ss_pred CCCCCCCHHHHHHHHhcccCCCCeeeecCCCCCHHHHHHHHHHHHhCCeeeEEecCCCH-HHHHHHHHHHHHHhCCeEEE
Q 023463 3 HDPEILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSA-EEVKEIAAELARLTGGIVLE 81 (282)
Q Consensus 3 ~D~E~LT~kQRk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~~~-ed~keiAeeLe~~TGgeLVq 81 (282)
+|++.+|.+++.+++++|.+|++++.+|++|+++||+.++|.||++||++||+|+.... ..++..|..++..+|+++|+
T Consensus 378 ~~~e~~t~ee~~~~~k~g~k~~~~~~~~rrg~f~g~i~n~~l~wk~~e~~k~i~~~~~~~~~~~~~a~~le~esg~~~v~ 457 (564)
T KOG1990|consen 378 YDPESITEEERLMLRKVGLKMKRRLLSGRRGVFDGVIENMHLHWKSRELVKVICKEKNLPSQVKQYASALERESGGILVS 457 (564)
T ss_pred cchhhcChHHHHHHHHHHHhhccccccCCcccccceeecchhhhhhcccceeeeccccccHHHHHHHHHHHHHhCCceee
Confidence 78999999999999999999999999999999999999999999999999999987655 99999999999999999999
Q ss_pred E---eeCcEEEEEeCCCCCCCCCccCCcccccchHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhccCCcc
Q 023463 82 I---HEENTIIMYRGKNYAQPPTEIMSPRITLSRKKALDKSKYRDGLRAVKKYIPKLEQELELLRAQAETRSENRS 154 (282)
Q Consensus 82 V---~IG~tIILYRgknY~~P~~~i~~P~~lLsKrkAL~rs~~~qr~~sl~~~i~~~e~~i~~l~~~~~~~~~~~~ 154 (282)
+ ..|+.|+.|||+||++|.+ ++|.++|+||+|+.+++++|+.+|+++||+.++++++++++++..+..++.
T Consensus 458 ~~~~~~~~ai~~yr~k~y~~p~~--l~P~~~l~~~k~~~~~~~~~~~~a~~~~i~~~~~~~e~~~~~~~~~~~~~~ 531 (564)
T KOG1990|consen 458 IDKNPKGYAIIAYRGKNYDRPTS--LRPRNLLSRRKALERSLEEQRKEALKSHISDLEQEIEQLQASVEAMPAINK 531 (564)
T ss_pred eccCCchhhHHHhhhhhccCCcc--cCchhhhcccCCccccHHHHHHHHHhhhcchhhhhHHHhhcchhccccccc
Confidence 6 3567799999999999977 999999999999999999999999999999999999999999988766655
No 6
>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]
Probab=97.73 E-value=2.6e-05 Score=79.28 Aligned_cols=97 Identities=30% Similarity=0.483 Sum_probs=86.0
Q ss_pred CCCCCCCCHHHHHHHHhcccCCCCeeeecCCCCCHHHHHHHHHHHHhCCeeeEEecC-CCHHHHHHHHHHH--HHHhCCe
Q 023463 2 THDPEILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKT-FSAEEVKEIAAEL--ARLTGGI 78 (282)
Q Consensus 2 ~~D~E~LT~kQRk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~-~~~ed~keiAeeL--e~~TGge 78 (282)
...+..||..+--++|.+|-...|++.+|.++.-.++...|..+|..|+..|+.+.. ........++..+ -..+|+.
T Consensus 169 ~~~~~~l~~~~~~~~r~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~k~~~~k~~~~rg~~~~~~~~~a~~l~~~~~tg~~ 248 (564)
T KOG1990|consen 169 VGSPPLLTSIESTLLRRLGYKLPPHFALGRSRKLQGLAVAMVSFWEKHEFAKILIKRGVLETRKERMADELQELLLTGKV 248 (564)
T ss_pred CCChhhhhhHHHHHHHHhcccccccceehhccccccchhHHHHHHHHHHHHHHHHHhcchhhhccchHHHHHHHHhcCCe
Confidence 456778999999999999999999999999999999999999999999999987764 3444556777777 8899999
Q ss_pred EEEEeeCcEEEEEeCCCCCCC
Q 023463 79 VLEIHEENTIIMYRGKNYAQP 99 (282)
Q Consensus 79 LVqV~IG~tIILYRgknY~~P 99 (282)
||. +-|..+|+||++++-.|
T Consensus 249 lv~-hN~~~dv~y~~~~Fl~~ 268 (564)
T KOG1990|consen 249 LVL-HNKLLDVMYRYKNFLSP 268 (564)
T ss_pred EEe-eccceeeeeehhhcccc
Confidence 997 89999999999999764
No 7
>COG1623 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]
Probab=65.16 E-value=26 Score=34.60 Aligned_cols=72 Identities=26% Similarity=0.385 Sum_probs=49.3
Q ss_pred CHHHHHHHHHHHHHHhCCeEEEEe-eCcEEEEEeCCCCCCCCCccCCcccccchHHHHhHHHHHhhHHHHHHHHHHHHHH
Q 023463 60 SAEEVKEIAAELARLTGGIVLEIH-EENTIIMYRGKNYAQPPTEIMSPRITLSRKKALDKSKYRDGLRAVKKYIPKLEQE 138 (282)
Q Consensus 60 ~~ed~keiAeeLe~~TGgeLVqV~-IG~tIILYRgknY~~P~~~i~~P~~lLsKrkAL~rs~~~qr~~sl~~~i~~~e~~ 138 (282)
....+...|+..|..||..||.|. --++|.||.+ |+++-- -.+-.+|+| .-|-+..|..|-..|.+.
T Consensus 103 EtGtRHRTAER~AkqTG~~VIaiS~rrNvITlY~~-~~ky~L---~d~~~il~r--------anQAi~TLEkYk~~Ld~~ 170 (349)
T COG1623 103 ETGTRHRTAERVAKQTGNPVIAISERRNVITLYVG-NLKYVL---KDSAFILSR--------ANQAIQTLEKYKTVLDRV 170 (349)
T ss_pred CCccccchHHHHHHHhCCeEEEEecccceEEEEec-Ceeeee---cChHHHHHH--------HHHHHHHHHHHHHHHHHH
Confidence 345788999999999999999973 4569999987 555431 223345554 456666666666666666
Q ss_pred HHHHH
Q 023463 139 LELLR 143 (282)
Q Consensus 139 i~~l~ 143 (282)
+..|.
T Consensus 171 ~~~L~ 175 (349)
T COG1623 171 LNQLN 175 (349)
T ss_pred hhhhh
Confidence 66554
No 8
>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=51.69 E-value=90 Score=23.46 Aligned_cols=56 Identities=13% Similarity=0.141 Sum_probs=38.9
Q ss_pred HHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHH---HhCCeEEEEeeCcEEEEEeCCCC
Q 023463 39 ILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELAR---LTGGIVLEIHEENTIIMYRGKNY 96 (282)
Q Consensus 39 IeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~---~TGgeLVqV~IG~tIILYRgknY 96 (282)
+.++-++++....|=|.+..-..+..+.+...|+. ..+|.+.. +|..++++=|++.
T Consensus 12 ~~~i~~~l~~g~~Vivnl~~l~~~~~~Ri~Dfl~G~~~al~G~i~~--i~~~~~l~~P~~V 70 (73)
T PF04472_consen 12 AREIVDALREGKIVIVNLENLDDEEAQRILDFLSGAVYALDGDIQK--ISEKVFLLTPKGV 70 (73)
T ss_dssp HHHHHHHHHTT--EEEE-TTS-HHHHHHHHHHHHHHHHHTT-EEEE--EETTEEEEE----
T ss_pred HHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHhchheeeCCEEEE--EcCCEEEEECCCc
Confidence 35588899999999999988888888888887765 67999996 6888888877654
No 9
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=48.22 E-value=1e+02 Score=26.88 Aligned_cols=70 Identities=16% Similarity=0.052 Sum_probs=47.5
Q ss_pred CCCHHHHHHHHhcccCCCCeeee-cCCCCCHH-HHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEE
Q 023463 7 ILTPEEHFYFLKMGRKCKNYVPV-GRRGIYQG-VILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLE 81 (282)
Q Consensus 7 ~LT~kQRk~LRklAhkLKPvV~I-GK~GVTdg-VIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~TGgeLVq 81 (282)
.||++|+..++.+...-..++.| |..|.--. ++..+..+|..+. .+|.+...+. .++..|...+|.....
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~apT~----~Aa~~L~~~~~~~a~T 72 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGLAPTN----KAAKELREKTGIEAQT 72 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT---EEEEESSH----HHHHHHHHHHTS-EEE
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEECCcH----HHHHHHHHhhCcchhh
Confidence 48999999999997666665555 98886544 4677999999987 7777766553 3555677777755443
No 10
>PRK13482 DNA integrity scanning protein DisA; Provisional
Probab=43.00 E-value=62 Score=32.23 Aligned_cols=94 Identities=20% Similarity=0.275 Sum_probs=53.1
Q ss_pred CCCCHHHHHHHHHHHHhCCeeeEE-------ec-----------CCCHHHHHHHHHHHHHHhCCeEEEEe-eCcEEEEEe
Q 023463 32 RGIYQGVILNMHLHWKKHQTLKVI-------VK-----------TFSAEEVKEIAAELARLTGGIVLEIH-EENTIIMYR 92 (282)
Q Consensus 32 ~GVTdgVIeeI~~aLk~HELVKVK-------v~-----------~~~~ed~keiAeeLe~~TGgeLVqV~-IG~tIILYR 92 (282)
..+++..+.+|- ++..-|-|. +. ......++.+|.-+++.|||.+|.|. .-.+|-+|+
T Consensus 54 ~~~s~~~L~el~---~hDGAvIi~~d~~rI~~A~~~L~~~~~i~~~e~GtRHRaA~gise~Tda~vIvVSee~g~Isl~~ 130 (352)
T PRK13482 54 VEFSPTRLYELA---KMDGAIVLSSDGSRILRANVQLVPDPSIPTSETGTRHRTAERVAKQTGVPVIAVSQRRNIITLYV 130 (352)
T ss_pred cccCHHHHHHHh---hcCCEEEEeCCCCEEEEEEEEcCCCCCCCCCcCcHHHHHhhHHHHhcCCEEEEEecccCeEEEEE
Confidence 457788888883 344433333 11 12345789999999999999999763 334666666
Q ss_pred CCCCCCCCCccCCcccccchHHHHhHHHHHhhHHHHHHHHHHHHHHHH
Q 023463 93 GKNYAQPPTEIMSPRITLSRKKALDKSKYRDGLRAVKKYIPKLEQELE 140 (282)
Q Consensus 93 gknY~~P~~~i~~P~~lLsKrkAL~rs~~~qr~~sl~~~i~~~e~~i~ 140 (282)
+. ...+ +..|..+++| .-|-+.+|.+|-..|.+.+.
T Consensus 131 ~g-~~~~---~~d~~~l~~~--------anQal~TlekY~~~ld~~~~ 166 (352)
T PRK13482 131 GG-LRYV---LEDIGVILSR--------ANQALQTLEKYKARLDEVLT 166 (352)
T ss_pred CC-EEEe---cCCHHHHHHH--------HHHHHHHHHHHHHHHHHHHh
Confidence 42 2222 1335556654 33444444444444444433
No 11
>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=42.26 E-value=31 Score=28.64 Aligned_cols=35 Identities=11% Similarity=0.299 Sum_probs=29.2
Q ss_pred HHHHhcccCCC-CeeeecCCCCCHHHHHHHHHHHHh
Q 023463 14 FYFLKMGRKCK-NYVPVGRRGIYQGVILNMHLHWKK 48 (282)
Q Consensus 14 k~LRklAhkLK-PvV~IGK~GVTdgVIeeI~~aLk~ 48 (282)
-.+.+++.+-+ |+|.++.+|.++.+++.++..++.
T Consensus 74 ~~~~~l~~~~~~Piil~~~~g~w~~l~~~l~~~~~~ 109 (133)
T PF03641_consen 74 LTLMQLGRHNKVPIILLNIDGFWDPLLEFLDRMIEE 109 (133)
T ss_dssp HHHHHTTSSTS-EEEEEECGGCCHHHHHHHHHHHHT
T ss_pred HHHHhhccccCCCEEEeCCcchHHHHHHHHHHHHHC
Confidence 34678888888 999999999999999999855544
No 12
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=39.16 E-value=1.3e+02 Score=34.22 Aligned_cols=39 Identities=13% Similarity=0.093 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEE
Q 023463 36 QGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLE 81 (282)
Q Consensus 36 dgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~TGgeLVq 81 (282)
++|++.|...++-+. .....-+-..|..|.+...-+.|.
T Consensus 706 D~vlE~Ir~glEin~-------~~~nQrriA~aryL~ELynfemvd 744 (1128)
T KOG2051|consen 706 DHVLEDIRPGLEIND-------YVSNQRRIALARYLGELYNFEMVD 744 (1128)
T ss_pred HHHHHHHHhhhhcCc-------HHHHHHHHHHHHHHHHHhhhhhhh
Confidence 788888887766322 112223456667777777777775
No 13
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=35.45 E-value=69 Score=34.19 Aligned_cols=38 Identities=21% Similarity=0.178 Sum_probs=28.8
Q ss_pred ccchHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhh
Q 023463 109 TLSRKKALDKSKYRDGLRAVKKYIPKLEQELELLRAQAET 148 (282)
Q Consensus 109 lLsKrkAL~rs~~~qr~~sl~~~i~~~e~~i~~l~~~~~~ 148 (282)
+|++..+|=|++..|=-+++-.||.. ..|..|-..|..
T Consensus 597 lls~~s~llR~~~~~vf~~~~~~~t~--~~l~~ll~vl~~ 634 (784)
T PF04931_consen 597 LLSQPSALLRKVSEQVFEAFCPHLTE--SGLQLLLDVLDA 634 (784)
T ss_pred HHhCcchHHHHHHHHHHHHHHhhcCH--HHHHHHHHHhcc
Confidence 67999999999999988888777643 456666666653
No 14
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=31.89 E-value=1.8e+02 Score=27.92 Aligned_cols=56 Identities=14% Similarity=0.084 Sum_probs=32.1
Q ss_pred HHHHhcccCCCCeeeecCCCCCHHHHHHHHHHHHhCCe--eeEEecCC-CHHHHHHHHHHHH
Q 023463 14 FYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQT--LKVIVKTF-SAEEVKEIAAELA 72 (282)
Q Consensus 14 k~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HEL--VKVKv~~~-~~ed~keiAeeLe 72 (282)
..|++.| +.++.|...++...+.+.+...|+.+.+ +-..+.++ +...+.++++.+.
T Consensus 23 ~~l~~~g---~~~livtd~~~~~~~~~~v~~~l~~~~~~~~~~~~~~ep~~~~v~~~~~~~~ 81 (366)
T PRK09423 23 EYLKPLG---KRALVIADEFVLGIVGDRVEASLKEAGLTVVFEVFNGECSDNEIDRLVAIAE 81 (366)
T ss_pred HHHHHcC---CEEEEEEChhHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence 3455555 4455566677777788888888887643 32233333 3444555554443
No 15
>PRK13434 F0F1 ATP synthase subunit delta; Provisional
Probab=30.43 E-value=2.6e+02 Score=24.37 Aligned_cols=88 Identities=11% Similarity=0.194 Sum_probs=56.1
Q ss_pred CCHHHHHH-HHh-cccCCCCe----ee----ecCCCCCHHHHHHHHHHHHh-CCeeeEEec---CCCHHHHHHHHHHHHH
Q 023463 8 LTPEEHFY-FLK-MGRKCKNY----VP----VGRRGIYQGVILNMHLHWKK-HQTLKVIVK---TFSAEEVKEIAAELAR 73 (282)
Q Consensus 8 LT~kQRk~-LRk-lAhkLKPv----V~----IGK~GVTdgVIeeI~~aLk~-HELVKVKv~---~~~~ed~keiAeeLe~ 73 (282)
++.+++.. |.+ .+.++.|. +. =|+-++-+.++......+.. +-.+.+.|. .-+..+...+...|+.
T Consensus 50 i~~~~K~~~l~~~~~~~~~~~~~nfl~lL~e~~R~~~l~~I~~~f~~l~~~~~~~~~~~V~sA~~Ls~~q~~~l~~~L~k 129 (184)
T PRK13434 50 VSPEEKEQTLAKNLRGKISDITLNFLGVLLNKGRFIYLPEIQKDFTVELDKKKGRVRAQIVSYPSLEPAQVDKLGSILSE 129 (184)
T ss_pred CCHHHHHHHHHHHHHccCCHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHcCeEEEEEEEcCCCCHHHHHHHHHHHHH
Confidence 56666654 443 33344443 22 26667778888887766554 556666653 3467889999999999
Q ss_pred HhCCeEEEE-------eeCcEEEEEeCCCC
Q 023463 74 LTGGIVLEI-------HEENTIIMYRGKNY 96 (282)
Q Consensus 74 ~TGgeLVqV-------~IG~tIILYRgknY 96 (282)
.+|..+. + .||..+|=+-..-|
T Consensus 130 ~~g~~v~-l~~~vDpsLIGG~ii~igd~vi 158 (184)
T PRK13434 130 KFKSEFI-LEVSEDKNLLGGFVVQFNDLKI 158 (184)
T ss_pred HHCCEeE-EEeeeChHHcCceEEEECCEEE
Confidence 9987665 4 27777776654433
No 16
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=30.35 E-value=77 Score=33.87 Aligned_cols=10 Identities=30% Similarity=0.574 Sum_probs=5.7
Q ss_pred hhHHHHHHhh
Q 023463 235 EDFEEHLRQI 244 (282)
Q Consensus 235 ~~~~~~~~~~ 244 (282)
+.|..-|++.
T Consensus 702 ~~~~~~l~~a 711 (784)
T PF04931_consen 702 EEFRSALAKA 711 (784)
T ss_pred HHHHHHHHHH
Confidence 4566666653
No 17
>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=30.29 E-value=63 Score=23.08 Aligned_cols=38 Identities=29% Similarity=0.406 Sum_probs=28.2
Q ss_pred HHHHHHhhhhcccccccCCCCCCCCChhhHHHHHHHHHHHHhh
Q 023463 237 FEEHLRQISIDSRNAKSLGKDEDSSHFDEVDKMFLRAASLLKK 279 (282)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 279 (282)
||+.+.++---..+.++ .++| +|+.=++|-+|..|+++
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 77777777666666554 3444 99999999999999886
No 18
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=28.98 E-value=1.9e+02 Score=22.58 Aligned_cols=40 Identities=20% Similarity=0.241 Sum_probs=31.4
Q ss_pred HhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhccCCccc
Q 023463 116 LDKSKYRDGLRAVKKYIPKLEQELELLRAQAETRSENRSD 155 (282)
Q Consensus 116 L~rs~~~qr~~sl~~~i~~~e~~i~~l~~~~~~~~~~~~~ 155 (282)
..-.+..-+..-|..-|.-|+.+|+.|++++.-.+.+.+.
T Consensus 18 ~~d~LsllsV~El~eRIalLq~EIeRlkAe~~kK~~srsA 57 (65)
T COG5509 18 GNDALSLLSVAELEERIALLQAEIERLKAELAKKKASRSA 57 (65)
T ss_pred chhHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhhhccHHH
Confidence 3344666777888889999999999999999887666553
No 19
>COG4809 Archaeal ADP-dependent phosphofructokinase/glucokinase [Carbohydrate transport and metabolism]
Probab=28.66 E-value=1.3e+02 Score=31.08 Aligned_cols=103 Identities=17% Similarity=0.064 Sum_probs=78.5
Q ss_pred CCCCHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEE-eeCcEEEEEeCCCCCCCCCccCCccccc
Q 023463 32 RGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEI-HEENTIIMYRGKNYAQPPTEIMSPRITL 110 (282)
Q Consensus 32 ~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~TGgeLVqV-~IG~tIILYRgknY~~P~~~i~~P~~lL 110 (282)
=|+.+.=++++-..+-++||.+=++..+....+-+-+.+|...+|-+.|+| ++|..+-+.|+-| | ...-
T Consensus 296 vGldE~ElA~vl~vlG~~eLa~~I~~~~~~~avieg~~~L~~e~~~e~i~vHT~~y~l~i~~~~n---p-------l~~E 365 (466)
T COG4809 296 VGLDEVELANVLNVLGYRELADRIISKDDIEAVIEGAMILLDELGLERIHVHTYGYYLAITKRGN---P-------LSGE 365 (466)
T ss_pred cCCCHHHHHHHHHhhChHHHHHhhhccccHHHHHHHHHHHHHhcCccEEEEEEeeEEEEEecCCC---c-------ccHH
Confidence 478888899999999999999988887788999999999999999999998 4888877777533 3 1123
Q ss_pred chHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhh
Q 023463 111 SRKKALDKSKYRDGLRAVKKYIPKLEQELELLRAQAET 148 (282)
Q Consensus 111 sKrkAL~rs~~~qr~~sl~~~i~~~e~~i~~l~~~~~~ 148 (282)
-.|+||-=|.-.-.-.|+.-.|.++ ..++..++-
T Consensus 366 e~~daL~Fs~~lAa~~A~~GnIe~~----~d~~~glkv 399 (466)
T COG4809 366 ELRDALLFSTLLAAAKAMLGNIERL----DDLKEGLKV 399 (466)
T ss_pred HHHHHHHHHHHHHHHHHhcCCccch----hhHHhhccC
Confidence 4588888887777777777777655 445544443
No 20
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=27.85 E-value=2e+02 Score=27.19 Aligned_cols=55 Identities=11% Similarity=0.073 Sum_probs=33.7
Q ss_pred HHHhcccCCCCeeeecCCCCCHHHHHHHHHHHHhCCee--eEEecCC-CHHHHHHHHHHHH
Q 023463 15 YFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTL--KVIVKTF-SAEEVKEIAAELA 72 (282)
Q Consensus 15 ~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELV--KVKv~~~-~~ed~keiAeeLe 72 (282)
.+++.| +.++.|+..++..++.+.+...|+.+.+. -..+.++ +.+.+.++++...
T Consensus 17 ~~~~~~---~r~livt~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~p~~~~v~~~~~~~~ 74 (351)
T cd08170 17 YLARLG---KRALIIADEFVLDLVGAKIEESLAAAGIDARFEVFGGECTRAEIERLAEIAR 74 (351)
T ss_pred HHHHhC---CeEEEEECHHHHHHHHHHHHHHHHhCCCeEEEEEeCCcCCHHHHHHHHHHHh
Confidence 445553 55666777778888999999999887442 1223333 3455566555443
No 21
>PF07412 Geminin: Geminin; InterPro: IPR022786 This family contains the eukaryotic protein geminin (approximately 200 residues long). Geminin inhibits DNA replication by preventing the incorporation of MCM complex into prereplication complex, and is degraded during the mitotic phase of the cell cycle. It has been proposed that geminin inhibits DNA replication during S, G2, and M phases and that geminin destruction at the metaphase-anaphase transition permits replication in the succeeding cell cycle []. ; GO: 0008156 negative regulation of DNA replication; PDB: 1T6F_B 2LP0_B 1UII_B 2WVR_B 2ZXX_B.
Probab=27.54 E-value=81 Score=29.21 Aligned_cols=34 Identities=24% Similarity=0.391 Sum_probs=21.3
Q ss_pred chHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 023463 111 SRKKALDKSKYRDGLRAVKKYIPKLEQELELLRAQA 146 (282)
Q Consensus 111 sKrkAL~rs~~~qr~~sl~~~i~~~e~~i~~l~~~~ 146 (282)
.||+||.-++..-.. |..-|..++.+|..|+.+.
T Consensus 115 ~RR~AL~eaL~ENe~--Lh~~ie~~~eEi~~lk~en 148 (200)
T PF07412_consen 115 ERRKALEEALEENEK--LHKEIEQKDEEIAKLKEEN 148 (200)
T ss_dssp HHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
Confidence 578999998876443 4444555555565555443
No 22
>COG0274 DeoC Deoxyribose-phosphate aldolase [Nucleotide transport and metabolism]
Probab=27.43 E-value=1.6e+02 Score=27.81 Aligned_cols=68 Identities=21% Similarity=0.235 Sum_probs=49.7
Q ss_pred ccCCCCeeeec--CCCCCHHHHHHHHHHHHhCC---eeeEEecCC-CHHHHHHHHHHHHHHhCCeEEEEeeCcE
Q 023463 20 GRKCKNYVPVG--RRGIYQGVILNMHLHWKKHQ---TLKVIVKTF-SAEEVKEIAAELARLTGGIVLEIHEENT 87 (282)
Q Consensus 20 AhkLKPvV~IG--K~GVTdgVIeeI~~aLk~HE---LVKVKv~~~-~~ed~keiAeeLe~~TGgeLVqV~IG~t 87 (282)
|--+.=+++|| +.|-++.|..+|...-+... ++||++... -.++-...|..++...|+.+|--.-|..
T Consensus 91 AdEiDmVinig~~k~g~~~~V~~eI~~v~~a~~~~~~lKVIlEt~~Lt~ee~~~A~~i~~~aGAdFVKTSTGf~ 164 (228)
T COG0274 91 ADEIDMVINIGALKSGNWEAVEREIRAVVEACADAVVLKVILETGLLTDEEKRKACEIAIEAGADFVKTSTGFS 164 (228)
T ss_pred CCeeeeeeeHHHHhcCCHHHHHHHHHHHHHHhCCCceEEEEEeccccCHHHHHHHHHHHHHhCCCEEEcCCCCC
Confidence 44556677887 78999999888887776644 899998643 3444458889999999999996323433
No 23
>PF14626 RNase_Zc3h12a_2: Zc3h12a-like Ribonuclease NYN domain
Probab=27.35 E-value=1e+02 Score=26.68 Aligned_cols=70 Identities=20% Similarity=0.307 Sum_probs=42.2
Q ss_pred CCCCCHHHHHHHHH-----HHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeCcEEEEEeCC----CCCCCCC
Q 023463 31 RRGIYQGVILNMHL-----HWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEENTIIMYRGK----NYAQPPT 101 (282)
Q Consensus 31 K~GVTdgVIeeI~~-----aLk~HELVKVKv~~~~~ed~keiAeeLe~~TGgeLVqV~IG~tIILYRgk----nY~~P~~ 101 (282)
++-++++.+..+++ .|-.-.+||- +...............++.+||++|+ ..- ||++ .|..|+.
T Consensus 35 ~~~~~~~~~~kvDd~~~F~~L~~l~lIkF-i~~~~~~~~~~eV~~~Aek~~GI~VS-s~E-----~~~~~~~~~y~k~se 107 (122)
T PF14626_consen 35 KNYVDDGGISKVDDLEAFQFLCDLDLIKF-IEKRNRKKWFNEVLDEAEKTHGIFVS-SSE-----YRRRNFKIHYNKPSE 107 (122)
T ss_pred hcccccccccccchHHHHHHHHhcCceee-eccccHHHHHHHHHHHHHHcCcEEEC-CHH-----HhcccccccccCccc
Confidence 34455544433332 3444456665 33445666777777888999999997 322 5555 4667777
Q ss_pred ccCCcc
Q 023463 102 EIMSPR 107 (282)
Q Consensus 102 ~i~~P~ 107 (282)
+|.-|-
T Consensus 108 riitp~ 113 (122)
T PF14626_consen 108 RIITPC 113 (122)
T ss_pred ceechh
Confidence 766664
No 24
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=27.02 E-value=1.1e+02 Score=26.33 Aligned_cols=31 Identities=23% Similarity=0.374 Sum_probs=28.6
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 023463 119 SKYRDGLRAVKKYIPKLEQELELLRAQAETR 149 (282)
Q Consensus 119 s~~~qr~~sl~~~i~~~e~~i~~l~~~~~~~ 149 (282)
+.+++|+..+.+.|.++|..+..|.++|.+-
T Consensus 17 ~~cE~kL~~~e~~Lq~~E~~l~iLEaKL~SI 47 (148)
T PF10152_consen 17 SVCEEKLSDMEQRLQRLEATLNILEAKLSSI 47 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 5789999999999999999999999999764
No 25
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=26.41 E-value=3.4e+02 Score=25.27 Aligned_cols=48 Identities=25% Similarity=0.211 Sum_probs=30.8
Q ss_pred CCeeeecCCCCCHHHHHHHHHHHHhCCeeeEEec----C-CCHHHHHHHHHHHHH
Q 023463 24 KNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVK----T-FSAEEVKEIAAELAR 73 (282)
Q Consensus 24 KPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~----~-~~~ed~keiAeeLe~ 73 (282)
+.++.|...++.+++.+.+...|+.+ +.+.+- . .+.+.+.+++..+.+
T Consensus 24 ~~~liv~~~~~~~~~~~~v~~~l~~~--~~~~~~~~~~~~p~~~~v~~~~~~~~~ 76 (332)
T cd07766 24 DRALVVSDEGVVKGVGEKVADSLKKL--IAVHIFDGVGPNPTFEEVKEAVERARA 76 (332)
T ss_pred CeEEEEeCCchhhhHHHHHHHHHHhc--CcEEEeCCcCCCcCHHHHHHHHHHHHh
Confidence 55666666777778888888888876 333332 2 345566666666554
No 26
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=25.58 E-value=4.3e+02 Score=27.82 Aligned_cols=119 Identities=11% Similarity=0.112 Sum_probs=65.3
Q ss_pred CCCCCCCHHHHHHHHhcccCCC----CeeeecCCCCCHHH-HHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCC
Q 023463 3 HDPEILTPEEHFYFLKMGRKCK----NYVPVGRRGIYQGV-ILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGG 77 (282)
Q Consensus 3 ~D~E~LT~kQRk~LRklAhkLK----PvV~IGK~GVTdgV-IeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~TGg 77 (282)
+-+-.+|+.|...+..+...++ +.+..|-.|-..++ +.++-..+. + .+.|..........++..|....+.
T Consensus 8 ~~~~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~~~-r---~vLIVt~~~~~A~~l~~dL~~~~~~ 83 (652)
T PRK05298 8 VSPYKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIARLQ-R---PTLVLAHNKTLAAQLYSEFKEFFPE 83 (652)
T ss_pred ccCCCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHHhC-C---CEEEEECCHHHHHHHHHHHHHhcCC
Confidence 3466799999999988876663 55555655554543 444443332 2 2334444567778888888887665
Q ss_pred eEEEEeeCcEEEEEeCCCCCCCCCccCCcccccchHHHHhHHHHHhhHHHHHHHH
Q 023463 78 IVLEIHEENTIIMYRGKNYAQPPTEIMSPRITLSRKKALDKSKYRDGLRAVKKYI 132 (282)
Q Consensus 78 eLVqV~IG~tIILYRgknY~~P~~~i~~P~~lLsKrkAL~rs~~~qr~~sl~~~i 132 (282)
.-|.. ==.-.-.|++-.| -|+++++.- +.-+-...+..+|+.+|..-+
T Consensus 84 ~~v~~-f~s~~~~~~~~~~-~P~~d~~~~-----~~~~~~~~~~~~R~~~l~~L~ 131 (652)
T PRK05298 84 NAVEY-FVSYYDYYQPEAY-VPSSDTYIE-----KDSSINEEIERLRHSATKSLL 131 (652)
T ss_pred CeEEE-eCChhhccCcccc-CCCCccccc-----ccCCCChHHHHHHHHHHHHHH
Confidence 42321 0111234677776 454444322 222223445556665554443
No 27
>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=25.46 E-value=87 Score=27.70 Aligned_cols=34 Identities=12% Similarity=0.284 Sum_probs=28.4
Q ss_pred HHHHhcccCCCCeeeecCCCCCHHHHHHHHHHHH
Q 023463 14 FYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWK 47 (282)
Q Consensus 14 k~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk 47 (282)
-.+.++|.+-||++.++-+|.++.+++-++...+
T Consensus 117 ~~~~qlg~~~kPiil~n~~g~~~~l~~~l~~~~~ 150 (178)
T TIGR00730 117 LTWAQLGIHQKPIILFNVNGHFDGLVEWLKYSIQ 150 (178)
T ss_pred HHHHHcCCCCCCEEEECCcchHHHHHHHHHHHHH
Confidence 3467888999999999999999999998884443
No 28
>COG0052 RpsB Ribosomal protein S2 [Translation, ribosomal structure and biogenesis]
Probab=25.13 E-value=1e+02 Score=29.50 Aligned_cols=102 Identities=18% Similarity=0.180 Sum_probs=66.1
Q ss_pred cCCCCeeeecCCCCC----HHHHHHHHHHHHh-CCee----eEEecCCCHHHHHHHHHHHHHHhCCeEEE--EeeCcEEE
Q 023463 21 RKCKNYVPVGRRGIY----QGVILNMHLHWKK-HQTL----KVIVKTFSAEEVKEIAAELARLTGGIVLE--IHEENTII 89 (282)
Q Consensus 21 hkLKPvV~IGK~GVT----dgVIeeI~~aLk~-HELV----KVKv~~~~~ed~keiAeeLe~~TGgeLVq--V~IG~tII 89 (282)
-+|+||+-=-++||. .-.+..++.|++. ++++ +|-+.+ ++...++++.+-|..+|+-.|. | +|.++.
T Consensus 25 pkm~~fIf~~RngihIIDL~kT~~~l~~A~~~v~~~~~~~g~ILfVg-TK~~a~~~V~~~A~r~g~~yV~~Rw-LgG~LT 102 (252)
T COG0052 25 PKMKPFIFGERNGIHIIDLQKTLERLREAYKFLRRIAANGGKILFVG-TKKQAQEPVKEFAERTGAYYVNGRW-LGGMLT 102 (252)
T ss_pred CcccccceeecCCcEEEEHHHHHHHHHHHHHHHHHHHcCCCEEEEEe-chHHHHHHHHHHHHHhCCceecCcc-cCcccc
Confidence 368889888889986 5566777777765 4444 344444 4468888999999999999986 4 677777
Q ss_pred EEeC--CCCCCC---CCccCCcccccchHHHHhHHHHHhh
Q 023463 90 MYRG--KNYAQP---PTEIMSPRITLSRKKALDKSKYRDG 124 (282)
Q Consensus 90 LYRg--knY~~P---~~~i~~P~~lLsKrkAL~rs~~~qr 124 (282)
=|+. +-.++= -...-.-.+.|||+++|..+.++.+
T Consensus 103 N~~ti~~si~rl~~lE~~~~~~~~~~tKkE~l~l~re~~k 142 (252)
T COG0052 103 NFKTIRKSIKRLKELEKMEEDGFDGLTKKEALMLTRELEK 142 (252)
T ss_pred CchhHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHH
Confidence 6554 211110 0000011457788888887777766
No 29
>PF01918 Alba: Alba; InterPro: IPR002775 Members of this family include the archaeal protein Alba and a number of eukaryotic proteins with no known function. The DNA/RNA-binding protein Alba binds double-stranded DNA tightly but without sequence specificity. It binds rRNA and mRNA in vivo, and may play a role in maintaining the structural and functional stability of RNA, and, perhaps, ribosomes. It is distributed uniformly and abundantly on the chromosome. Alba has been shown to bind DNA and affect DNA supercoiling in a temperature dependent manner []. It is regulated by acetylation (alba = acetylation lowers binding affinity) by the Sir2 protein. Alba is proposed to play a role in establishment or maintenance of chromatin architecture and thereby in transcription repression. For further information see [].; GO: 0003676 nucleic acid binding; PDB: 3TOE_B 3IAB_A 1NFJ_A 1NFH_B 2Q3V_B 1VM0_B 1NH9_A 1Y9X_A 3U6Y_C 2H9U_A ....
Probab=24.87 E-value=2.8e+02 Score=20.21 Aligned_cols=57 Identities=11% Similarity=0.040 Sum_probs=46.7
Q ss_pred eeeecCCCCCHHHHHHHHHHH-----HhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEE
Q 023463 26 YVPVGRRGIYQGVILNMHLHW-----KKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEI 82 (282)
Q Consensus 26 vV~IGK~GVTdgVIeeI~~aL-----k~HELVKVKv~~~~~ed~keiAeeLe~~TGgeLVqV 82 (282)
.+.|+++.=.-..+..+..+| ..++-|.+.-.+......-.+|+.+.+..+..++||
T Consensus 2 ~I~V~~~~~~~~~v~~~~~~L~~~~~~~~~~V~l~g~G~aI~kaI~vaei~K~~~~~~~~qv 63 (70)
T PF01918_consen 2 EIYVSSNSPIKSYVKRALKLLEGRENGKNDEVVLKGRGKAISKAISVAEILKRRFGEGLYQV 63 (70)
T ss_dssp EEEE-STS-HHHHHHHHHHHHT-TTHTTCSEEEEEEECCHHHHHHHHHHHHHHHTSTTTEEE
T ss_pred EEEECCCCCHHHHHHHHHHHHhhhhcCCCCEEEEEEEcHHHHHHHHHHHHHHHhhcCCCEEE
Confidence 578888888889999999999 889999999999888888899999999986556654
No 30
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=24.67 E-value=55 Score=31.83 Aligned_cols=37 Identities=24% Similarity=0.403 Sum_probs=30.4
Q ss_pred cCCCHHHHHHHHHHHHHHhCCeEEEEeeCcEEEEEeCCCC
Q 023463 57 KTFSAEEVKEIAAELARLTGGIVLEIHEENTIIMYRGKNY 96 (282)
Q Consensus 57 ~~~~~ed~keiAeeLe~~TGgeLVqV~IG~tIILYRgknY 96 (282)
.+.+..=...+|-.||+.+||+||+ ++.+-+||+=+-
T Consensus 9 ~GPTAsGKT~lai~LAk~~~~eIIs---~DSmQvYr~mdI 45 (308)
T COG0324 9 AGPTASGKTALAIALAKRLGGEIIS---LDSMQVYRGLDI 45 (308)
T ss_pred ECCCCcCHHHHHHHHHHHcCCcEEe---cchhhhcCCCcc
Confidence 4555566788999999999999997 789999997643
No 31
>PRK13436 F0F1 ATP synthase subunit delta; Provisional
Probab=24.34 E-value=3.6e+02 Score=23.51 Aligned_cols=66 Identities=8% Similarity=-0.018 Sum_probs=48.0
Q ss_pred cCCCCCHHHHHHHHHHHHh-CCeeeEEec---CCCHHHHHHHHHHHHHHhCCeEEEEe-------eCcEEEEEeCCCC
Q 023463 30 GRRGIYQGVILNMHLHWKK-HQTLKVIVK---TFSAEEVKEIAAELARLTGGIVLEIH-------EENTIIMYRGKNY 96 (282)
Q Consensus 30 GK~GVTdgVIeeI~~aLk~-HELVKVKv~---~~~~ed~keiAeeLe~~TGgeLVqV~-------IG~tIILYRgknY 96 (282)
|+-++.+.++++....+.. +-.+.+.|- .-+.++...+...|...+|..+. +. ||..+|-+=..-|
T Consensus 86 ~R~~~l~~I~~~f~~~~~~~~~~~~~~V~sA~~Ls~~~~~~i~~~l~~~~g~~v~-l~~~vDpslIGGi~i~~gd~vi 162 (179)
T PRK13436 86 NLFIYIKQILKKFVKLSNEKLNITYGEIYTTEPLSEVQISRFESKLSKKLNKKVH-LVNKIDPKLIAGIKIKVDNKVF 162 (179)
T ss_pred ChHHHHHHHHHHHHHHHHHHcCeEEEEEEecCCCCHHHHHHHHHHHHHHHCCeEE-EEeecCHHHcCceEEEECCEEe
Confidence 7777888888888877766 445555552 45688999999999999987654 42 7887776654444
No 32
>PF04530 Viral_Beta_CD: Viral Beta C/D like family; InterPro: IPR007617 This is a family of ssRNA positive-strand viral proteins. Conserved region is found in the Beta C and Beta D transcripts.
Probab=23.72 E-value=76 Score=27.43 Aligned_cols=22 Identities=32% Similarity=0.570 Sum_probs=18.8
Q ss_pred eeecCCCCCHHHHHHHHHHHHhC
Q 023463 27 VPVGRRGIYQGVILNMHLHWKKH 49 (282)
Q Consensus 27 V~IGK~GVTdgVIeeI~~aLk~H 49 (282)
+.+|..-|.+.||+.|| ||.+-
T Consensus 93 ik~~~~PIDP~VIaAIH-HwQk~ 114 (122)
T PF04530_consen 93 IKLAPVPIDPEVIAAIH-HWQKY 114 (122)
T ss_pred EecCCCCCCHHHHHHHH-HHHhC
Confidence 45799999999999999 88763
No 33
>cd08619 PI-PLCXDc_plant Catalytic domain of phosphatidylinositol-specific phospholipase C, X domain containing proteins found in plants. The CD corresponds to the catalytic domain present in uncharacterized plant phosphatidylinositol-specific phospholipase C, X domain containing proteins (PI-PLCXD). The typical eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) has a multidomain organization that consists of a PLC catalytic core domain, and various regulatory domains. The catalytic core domain is assembled from two highly conserved X- and Y-regions split by a divergent linker sequence. In contrast, plant PI-PLCXDs contain a single TIM-barrel type catalytic domain, X domain, and are more closely related to bacterial PI-PLCs, which participate in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to produce phosphorylated myo-inositol and diacylglycerol (DAG). Although the biological function of plant PI-PLCXDs still remains u
Probab=23.03 E-value=1.6e+02 Score=28.47 Aligned_cols=65 Identities=11% Similarity=0.178 Sum_probs=46.5
Q ss_pred CCHHHHHHHHHHHHhC--CeeeEEecCCC-HHHHHHHHHHHHHHhCCeEEEEe-------------eCcEEEEEeCCCCC
Q 023463 34 IYQGVILNMHLHWKKH--QTLKVIVKTFS-AEEVKEIAAELARLTGGIVLEIH-------------EENTIIMYRGKNYA 97 (282)
Q Consensus 34 VTdgVIeeI~~aLk~H--ELVKVKv~~~~-~ed~keiAeeLe~~TGgeLVqV~-------------IG~tIILYRgknY~ 97 (282)
..+.|+.+|..-|..| |+|-+.++... ..+..+....|.+..|..++. . ..++||+|+...|.
T Consensus 92 ~~~dvL~~i~~FL~~hp~EvVIL~~k~ey~~~~~~~~~~~li~~lGd~l~~-~~~~~~~~TL~eL~~krVIviy~~~~~~ 170 (285)
T cd08619 92 PVDVVLNDIKRFLSETKSEFVILEIRTEYGHEDPPQFDLWLVEQLGDHLIH-QDDSVFSKTLAELLPKRVICIWKPRKSP 170 (285)
T ss_pred cHHHHHHHHHHHHHHCCCeEEEEEEeecccCCCchHHHHHHHHHhcchhcc-CCCccccccHHHHhCCcEEEEEcCCCCC
Confidence 4578999999999887 99999996532 112224556777777888774 2 23579999988887
Q ss_pred CC
Q 023463 98 QP 99 (282)
Q Consensus 98 ~P 99 (282)
.|
T Consensus 171 ~~ 172 (285)
T cd08619 171 AP 172 (285)
T ss_pred cc
Confidence 66
No 34
>TIGR01754 flav_RNR ribonucleotide reductase-associated flavodoxin, putative. This model represents a family of proteins found immediately downstream of ribonucleotide reductase genes in Xyella fastidiosa and some Gram-positive bacteria. It appears to be a highly divergent flavodoxin of the short chain type, more like the flavodoxins of the sulfate-reducing genus Desulfovibrio than like the NifF flavodoxins associated with nitrogen fixation.
Probab=23.00 E-value=4.2e+02 Score=21.59 Aligned_cols=67 Identities=15% Similarity=0.124 Sum_probs=45.6
Q ss_pred CCCHHHHHHHHhcccCCCCeeeecCC--CCCH----HHHHHHHHHHHhC-CeeeEEecCCCHHHHHHHHHHHHH
Q 023463 7 ILTPEEHFYFLKMGRKCKNYVPVGRR--GIYQ----GVILNMHLHWKKH-QTLKVIVKTFSAEEVKEIAAELAR 73 (282)
Q Consensus 7 ~LT~kQRk~LRklAhkLKPvV~IGK~--GVTd----gVIeeI~~aLk~H-ELVKVKv~~~~~ed~keiAeeLe~ 73 (282)
.+.+.-+.+|+.+..+-|.+..+|-. |-.. +.+..+...++.. +.+||........++..+...++.
T Consensus 65 ~~p~~~~~fl~~l~~~~k~~avfgtgd~~~~~~~f~~a~~~~~~~l~~~~~~~~i~~~~~~~~d~~~~~~~~~~ 138 (140)
T TIGR01754 65 RTPDEMKDFIAELGYKPSNVAIFGTGETQWGDDLYCGAVDRLAHFFGSSHPVLKIEQMPHGEQDGRAIYDWLEG 138 (140)
T ss_pred cCCHHHHHHHHHhcccCCEEEEEEcCCCCcCcchHhHHHHHHHHHHcCcCCceeEecCCcccccHHHHHHHHHH
Confidence 45556677888877777777666643 4443 7899999999663 678888876555566665555443
No 35
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=22.91 E-value=4.5e+02 Score=24.70 Aligned_cols=50 Identities=20% Similarity=0.149 Sum_probs=34.2
Q ss_pred cCCCCCHHHHHHHHHHHHh-CCeeeEEec---CCCHHHHHHHHHHHHHHhCCeE
Q 023463 30 GRRGIYQGVILNMHLHWKK-HQTLKVIVK---TFSAEEVKEIAAELARLTGGIV 79 (282)
Q Consensus 30 GK~GVTdgVIeeI~~aLk~-HELVKVKv~---~~~~ed~keiAeeLe~~TGgeL 79 (282)
++-+..+.++......+.. +..+.+.|. .-+..+.+.+...|...+|..+
T Consensus 178 ~R~~~l~~i~~~f~~l~~~~~~~~~a~VtSA~pLs~~q~~~L~~~L~k~~g~~V 231 (271)
T PRK13430 178 PRGRSIEEGLDELSNLAAARRGRSVATVTTAVPLSDEQKQRLAAALSRIYGRPV 231 (271)
T ss_pred CChhhHHHHHHHHHHHHHHHcCeeEEEEEecCCCCHHHHHHHHHHHHHHHCCce
Confidence 4556677777777666655 444444442 3468899999999999987544
No 36
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.87 E-value=2.3e+02 Score=26.66 Aligned_cols=36 Identities=22% Similarity=0.239 Sum_probs=30.3
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHhhccCCccch
Q 023463 121 YRDGLRAVKKYIPKLEQELELLRAQAETRSENRSDA 156 (282)
Q Consensus 121 ~~qr~~sl~~~i~~~e~~i~~l~~~~~~~~~~~~~~ 156 (282)
--+|-.|+..-|++|..+|..|+.||.-..+...++
T Consensus 24 v~~r~dSve~KIskLDaeL~k~~~Qi~k~R~gpaq~ 59 (218)
T KOG1655|consen 24 VNKRSDSVEKKISKLDAELCKYKDQIKKTRPGPAQN 59 (218)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCCcchh
Confidence 457888999999999999999999998877655544
No 37
>PRK08474 F0F1 ATP synthase subunit delta; Validated
Probab=21.89 E-value=4.7e+02 Score=22.65 Aligned_cols=62 Identities=10% Similarity=0.123 Sum_probs=43.6
Q ss_pred ecCCCCCHHHHHHHHHHHHh-CCeeeEEec---CCCHHHHHHHHHHHHHHhCCeEEEE-----eeCcEEEEE
Q 023463 29 VGRRGIYQGVILNMHLHWKK-HQTLKVIVK---TFSAEEVKEIAAELARLTGGIVLEI-----HEENTIIMY 91 (282)
Q Consensus 29 IGK~GVTdgVIeeI~~aLk~-HELVKVKv~---~~~~ed~keiAeeLe~~TGgeLVqV-----~IG~tIILY 91 (282)
=|+-++.+.++......+.. +-.+.+.|. .-+..+.+.+.+.|+..+|..|. + .||..+|-+
T Consensus 80 n~R~~~L~~I~~~f~~~~~~~~~~~~~~V~SA~~Ls~~q~~~i~~~l~~~~g~~v~-l~~~vD~IGG~ii~i 150 (176)
T PRK08474 80 NKRLELIPAIAKELERQIALKENEYVGVVYSNEKLSEETLKKLEEKLSKKFNAKIK-LKQKKSDYDGIKVEV 150 (176)
T ss_pred CChHHHHHHHHHHHHHHHHHHcCeEEEEEEECccCCHHHHHHHHHHHHHHhCCeEE-EEEEEcCCCCEEEEE
Confidence 37888888999887777665 456666653 35678899999999999876543 3 255555533
No 38
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=21.85 E-value=2.5e+02 Score=26.64 Aligned_cols=50 Identities=12% Similarity=0.119 Sum_probs=39.2
Q ss_pred HHHHHHhcccCCCCeeeecCCCCCHHHHH-HHHHHHH--hCCeeeEEecCCCH
Q 023463 12 EHFYFLKMGRKCKNYVPVGRRGIYQGVIL-NMHLHWK--KHQTLKVIVKTFSA 61 (282)
Q Consensus 12 QRk~LRklAhkLKPvV~IGK~GVTdgVIe-eI~~aLk--~HELVKVKv~~~~~ 61 (282)
=+..+++.|..-.|++..|-.|.--..+. .||..-. ...+|.|.|...+.
T Consensus 18 ~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~ 70 (326)
T PRK11608 18 VLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNE 70 (326)
T ss_pred HHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCH
Confidence 45677888888899999999999988764 5675544 35799999987653
No 39
>cd00379 Ribosomal_L10_P0 Ribosomal protein L10 family; composed of the large subunit ribosomal protein called L10 in bacteria, P0 in eukaryotes, and L10e in archaea, as well as uncharacterized P0-like eukaryotic proteins. In all three kingdoms, L10 forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein and forms the base of the L7/L12 stalk, while the extended C-terminal helix binds to two or three dimers of the NTD of L7/L12 (L7 and L12 are identical except for an acetylated N-terminus). The L7/L12 stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been sho
Probab=21.34 E-value=2.7e+02 Score=22.91 Aligned_cols=73 Identities=15% Similarity=0.113 Sum_probs=46.0
Q ss_pred HHHHHhcccCCCCeeeecCCCCCHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCC-eEEEEeeCcEEEEE
Q 023463 13 HFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGG-IVLEIHEENTIIMY 91 (282)
Q Consensus 13 Rk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~TGg-eLVqV~IG~tIILY 91 (282)
...++.+-..-+-++.+--+|++.+-+.+++..|..+. ++++|-.|.- +..--+.++- .+-..-.|.++++|
T Consensus 7 v~~l~~~l~~~~~v~v~~~~~l~~~~~~~lR~~l~~~~-~~~~v~KNtl------~~~Al~~t~~~~~~~~l~G~~~~~f 79 (155)
T cd00379 7 VEELKELLKKYKSVVVVDYRGLTVAQLTELRKELRESG-AKLKVGKNTL------MRRALKGTGFEELKPLLKGPTALAF 79 (155)
T ss_pred HHHHHHHHHhCCEEEEEecCCCcHHHHHHHHHHHHHcC-CEEEEEehHH------HHHHHcCCCccchhhhCcCCEEEEE
Confidence 34566666666778888899999999999999998774 5566654441 1111122221 11112368888888
Q ss_pred e
Q 023463 92 R 92 (282)
Q Consensus 92 R 92 (282)
=
T Consensus 80 ~ 80 (155)
T cd00379 80 T 80 (155)
T ss_pred e
Confidence 4
No 40
>PRK14566 triosephosphate isomerase; Provisional
Probab=20.10 E-value=5.3e+02 Score=24.55 Aligned_cols=80 Identities=18% Similarity=0.163 Sum_probs=55.6
Q ss_pred HHHHhcccCCCCeeeecC------CCCCHHHH-HHHHHHHHh---CCeeeEEec-----------CCCHHHHHHHHHHHH
Q 023463 14 FYFLKMGRKCKNYVPVGR------RGIYQGVI-LNMHLHWKK---HQTLKVIVK-----------TFSAEEVKEIAAELA 72 (282)
Q Consensus 14 k~LRklAhkLKPvV~IGK------~GVTdgVI-eeI~~aLk~---HELVKVKv~-----------~~~~ed~keiAeeLe 72 (282)
+..+.+.+.|.|+|-||- .|.|..|+ .++...|+. .+.-+|.+. ..++++..+++..|.
T Consensus 120 Kv~~al~~gl~pIvCvGEtleere~g~t~~vv~~Ql~~~l~~~~~~~~~~ivIAYEPvWAIGTG~~At~e~a~~v~~~IR 199 (260)
T PRK14566 120 KFAAAQKHGLTPILCVGESGPAREARRTFEVIAEELDIVIEKNGTMAFDNAIIAYEPLWAVGTGKSATPEQAQEVHAFIR 199 (260)
T ss_pred HHHHHHHCCCEEEEEcCCcHHHHhcCCHHHHHHHHHHHHHhccchhhcCcEEEEECcHHhcCCCCCCCHHHHHHHHHHHH
Confidence 666888999999999995 48888886 578877762 123345442 136789999998888
Q ss_pred HHhC--CeEEEEeeCcEEEEEeCCCC
Q 023463 73 RLTG--GIVLEIHEENTIIMYRGKNY 96 (282)
Q Consensus 73 ~~TG--geLVqV~IG~tIILYRgknY 96 (282)
.... +.-+. .++-|||=|+-.
T Consensus 200 ~~l~~~~~~~a---~~~rIlYGGSV~ 222 (260)
T PRK14566 200 KRLSEVSPFIG---ENIRILYGGSVT 222 (260)
T ss_pred HHHHhcCcccc---ccceEEecCCCC
Confidence 8654 22222 357899988743
Done!