Query 021078
Match_columns 317
No_of_seqs 205 out of 723
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 07:25:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021078.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021078hhsearch_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 2.9E-29 6.2E-34 205.0 12.6 89 41-130 1-89 (97)
2 TIGR00253 RNA_bind_YhbY putati 100.0 5E-29 1.1E-33 202.6 12.7 87 43-130 1-87 (95)
3 PF01985 CRS1_YhbY: CRS1 / Yhb 100.0 2.7E-28 5.9E-33 192.3 10.8 84 43-127 1-84 (84)
4 COG1534 Predicted RNA-binding 99.9 4.2E-27 9.1E-32 192.6 12.3 91 42-134 1-91 (97)
5 KOG1990 Poly(A)-specific exori 99.9 1.5E-27 3.3E-32 241.8 8.1 184 4-189 343-531 (564)
6 KOG1990 Poly(A)-specific exori 97.9 1.1E-05 2.4E-10 83.2 4.9 117 17-134 149-268 (564)
7 COG1623 Predicted nucleic-acid 68.8 19 0.00042 36.1 7.3 71 96-178 104-175 (349)
8 PF04472 DUF552: Protein of un 54.3 64 0.0014 24.7 6.6 56 74-131 12-70 (73)
9 PRK13482 DNA integrity scannin 47.6 50 0.0011 33.4 6.3 48 96-147 98-146 (352)
10 PF13604 AAA_30: AAA domain; P 44.4 1.2E+02 0.0025 27.1 7.6 69 42-115 1-71 (196)
11 PF03641 Lysine_decarbox: Poss 38.2 38 0.00083 28.6 3.4 34 50-83 75-109 (133)
12 PF04931 DNA_pol_phi: DNA poly 33.8 75 0.0016 34.5 5.5 39 144-184 597-635 (784)
13 PF14626 RNase_Zc3h12a_2: Zc3h 33.3 68 0.0015 28.2 4.1 83 53-142 21-113 (122)
14 KOG2051 Nonsense-mediated mRNA 33.1 1.7E+02 0.0037 33.9 8.1 39 71-116 706-744 (1128)
15 COG4809 Archaeal ADP-dependent 30.2 1.2E+02 0.0025 31.8 5.8 105 67-181 296-401 (466)
16 PRK12757 cell division protein 28.0 61 0.0013 31.4 3.3 47 3-59 45-96 (256)
17 PF04931 DNA_pol_phi: DNA poly 27.4 92 0.002 33.9 4.9 10 270-279 702-711 (784)
18 PRK13434 F0F1 ATP synthase sub 25.8 3.6E+02 0.0077 24.0 7.6 88 43-131 50-158 (184)
19 PF02609 Exonuc_VII_S: Exonucl 25.7 83 0.0018 22.9 3.0 38 272-314 1-38 (53)
20 PF10369 ALS_ss_C: Small subun 25.2 2.5E+02 0.0054 21.8 5.7 39 84-124 2-40 (75)
21 PF12709 Kinetocho_Slk19: Cent 25.2 1.9E+02 0.004 24.1 5.1 39 146-184 34-75 (87)
22 PF00158 Sigma54_activat: Sigm 25.1 4.2E+02 0.009 23.3 7.8 55 46-100 10-67 (168)
23 PRK09423 gldA glycerol dehydro 24.6 2.8E+02 0.0061 27.1 7.2 21 294-314 341-361 (366)
24 PRK08207 coproporphyrinogen II 23.7 4E+02 0.0086 27.7 8.4 86 39-131 263-366 (488)
25 PF01918 Alba: Alba; InterPro 23.4 3.1E+02 0.0068 20.3 6.3 57 61-117 2-63 (70)
26 PRK11608 pspF phage shock prot 23.2 2.1E+02 0.0046 27.6 6.0 52 46-97 17-71 (326)
27 PRK13436 F0F1 ATP synthase sub 22.6 4.1E+02 0.009 23.5 7.3 67 65-132 86-163 (179)
28 COG0324 MiaA tRNA delta(2)-iso 22.4 65 0.0014 31.9 2.4 37 92-131 9-45 (308)
29 TIGR00730 conserved hypothetic 22.3 1E+02 0.0023 27.7 3.5 33 50-82 118-150 (178)
30 COG0052 RpsB Ribosomal protein 22.1 1.3E+02 0.0028 29.4 4.2 101 57-159 26-142 (252)
31 cd08170 GlyDH Glycerol dehydro 21.7 3.1E+02 0.0066 26.5 6.8 27 59-85 23-49 (351)
32 PF14532 Sigma54_activ_2: Sigm 21.5 86 0.0019 25.8 2.7 49 47-95 10-61 (138)
33 PRK13430 F0F1 ATP synthase sub 21.5 5E+02 0.011 24.8 8.1 50 65-114 178-231 (271)
34 PF07412 Geminin: Geminin; In 21.0 2E+02 0.0042 27.2 5.1 34 146-181 115-148 (200)
35 COG0274 DeoC Deoxyribose-phosp 20.6 2.6E+02 0.0056 26.9 5.8 69 54-122 90-164 (228)
36 TIGR02974 phageshock_pspF psp 20.4 3.8E+02 0.0082 26.1 7.2 51 47-97 11-64 (329)
37 cd08619 PI-PLCXDc_plant Cataly 20.4 2E+02 0.0043 28.4 5.2 67 69-135 92-173 (285)
38 PF04508 Pox_A_type_inc: Viral 20.1 1.3E+02 0.0029 19.4 2.7 18 160-177 3-20 (23)
No 1
>PRK10343 RNA-binding protein YhbY; Provisional
Probab=99.96 E-value=2.9e-29 Score=204.98 Aligned_cols=89 Identities=21% Similarity=0.340 Sum_probs=86.5
Q ss_pred CCCCHHHHHHHHhccccCCCeeeeCCCCCcHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeC
Q 021078 41 EILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEE 120 (317)
Q Consensus 41 E~LT~kERk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~SGgeLVqV~IG 120 (317)
|+||++||++||++||+|+|+|+||++|||++|+.+|+.+|++||||||++.+++++++++++++|++.|||++||+ ||
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 46999999999999999999999999999999999999999999999999999999999999999999999999996 99
Q ss_pred cEEEEEeCCC
Q 021078 121 NTIIMYRGKN 130 (317)
Q Consensus 121 ~tIILYRgkN 130 (317)
+++||||++.
T Consensus 80 ~~~vlYR~~~ 89 (97)
T PRK10343 80 KTLVLYRPTK 89 (97)
T ss_pred cEEEEEecCC
Confidence 9999999974
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=5e-29 Score=202.63 Aligned_cols=87 Identities=28% Similarity=0.369 Sum_probs=85.0
Q ss_pred CCHHHHHHHHhccccCCCeeeeCCCCCcHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeCcE
Q 021078 43 LTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEENT 122 (317)
Q Consensus 43 LT~kERk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~SGgeLVqV~IG~t 122 (317)
||++||++||++||+|+|+|+|||+|||++|+++|+.+|++||||||++.++++++++++|++|++.|||++||+ ||++
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 799999999999999999999999999999999999999999999999999999999999999999999999996 9999
Q ss_pred EEEEeCCC
Q 021078 123 IIMYRGKN 130 (317)
Q Consensus 123 IILYRgkN 130 (317)
+||||++.
T Consensus 80 ~vlYR~~~ 87 (95)
T TIGR00253 80 IVLYRPTK 87 (95)
T ss_pred EEEEecCC
Confidence 99999964
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=99.95 E-value=2.7e-28 Score=192.27 Aligned_cols=84 Identities=36% Similarity=0.522 Sum_probs=75.1
Q ss_pred CCHHHHHHHHhccccCCCeeeeCCCCCcHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeCcE
Q 021078 43 LTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEENT 122 (317)
Q Consensus 43 LT~kERk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~SGgeLVqV~IG~t 122 (317)
||++||++||++||+|+|+|+|||+|||++|+++|+.+|++||||||+|.+++..+++++|+.|++.|||++|++ +|++
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 799999999999999999999999999999999999999999999999999999999999999999999999995 9999
Q ss_pred EEEEe
Q 021078 123 IIMYR 127 (317)
Q Consensus 123 IILYR 127 (317)
+||||
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=4.2e-27 Score=192.58 Aligned_cols=91 Identities=26% Similarity=0.421 Sum_probs=86.4
Q ss_pred CCCHHHHHHHHhccccCCCeeeeCCCCCcHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeCc
Q 021078 42 ILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEEN 121 (317)
Q Consensus 42 ~LT~kERk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~SGgeLVqV~IG~ 121 (317)
+||++|+++||+.||+++|+|+||++|||++||.+|+.+|++||||||++.+++.++++++|+.|++.+||.+||+ ||+
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 5899999999999999999999999999999999999999999999999999999999999999999999999996 999
Q ss_pred EEEEEeCCCCCCC
Q 021078 122 TIIMYRGKNYAQP 134 (317)
Q Consensus 122 tIILYRgkNY~~P 134 (317)
++||||. +..++
T Consensus 80 ~~vlyr~-~~e~~ 91 (97)
T COG1534 80 TLVLYRE-SKEKR 91 (97)
T ss_pred EEEEEec-Ccccc
Confidence 9999994 44443
No 5
>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]
Probab=99.94 E-value=1.5e-27 Score=241.77 Aligned_cols=184 Identities=42% Similarity=0.616 Sum_probs=173.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccCCC-CCCCCCCCCCCCCHHHHHHHHhccccCCCeeeeCCCCCcHHHHHHHHHHHH
Q 021078 4 EEKILYKLRKARKKEERIVEGLKKIEPK-ESSEMTHDPEILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWK 82 (317)
Q Consensus 4 e~ri~~kl~~a~~K~e~~~e~L~K~e~~-~pse~~~D~E~LT~kERk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk 82 (317)
.+++.+++..|++|++++...|++++.+ .|++..++++.+|.+++.+++++|.++++++.+|++|+++||+.++|.||+
T Consensus 343 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~e~~t~ee~~~~~k~g~k~~~~~~~~rrg~f~g~i~n~~l~wk 422 (564)
T KOG1990|consen 343 TEAIFHKLEKAKKKLASANRILAKLEDPKIPAELRYDPESITEEERLMLRKVGLKMKRRLLSGRRGVFDGVIENMHLHWK 422 (564)
T ss_pred HHHHHHHHhhhhhhccchhhhhhcccccccccccccchhhcChHHHHHHHHHHHhhccccccCCcccccceeecchhhhh
Confidence 4789999999999999999999999987 688999999999999999999999999999999999999999999999999
Q ss_pred hCCeeeEEecCCCH-HHHHHHHHHHHHHhCCeEEEE---eeCcEEEEEeCCCCCCCCCCcCCcccccchHHHHhHHHHHh
Q 021078 83 KHQTLKVIVKTFSA-EEVKEIAAELARLTGGIVLEI---HEENTIIMYRGKNYAQPPTEIMSPRITLSRKKALDKSKYRD 158 (317)
Q Consensus 83 ~HELVKVKv~~~~~-ed~keiAeeLe~~SGgeLVqV---~IG~tIILYRgkNY~~P~~~i~~P~~lLtKrkAL~rS~~~q 158 (317)
+||++||+|+.... ..++..|..++..+|+++|++ ..|+.|+.|||+||.+|.+ |+|.++|+||+|+.+|+++|
T Consensus 423 ~~e~~k~i~~~~~~~~~~~~~a~~le~esg~~~v~~~~~~~~~ai~~yr~k~y~~p~~--l~P~~~l~~~k~~~~~~~~~ 500 (564)
T KOG1990|consen 423 SRELVKVICKEKNLPSQVKQYASALERESGGILVSIDKNPKGYAIIAYRGKNYDRPTS--LRPRNLLSRRKALERSLEEQ 500 (564)
T ss_pred hcccceeeeccccccHHHHHHHHHHHHHhCCceeeeccCCchhhHHHhhhhhccCCcc--cCchhhhcccCCccccHHHH
Confidence 99999999988665 999999999999999999997 3566699999999999977 99999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhccCCcc
Q 021078 159 GLRAVKKYIPKLEQELELLRAQAETRSENRS 189 (317)
Q Consensus 159 r~~sl~~~i~~le~~i~~l~~~~~~~~~~~~ 189 (317)
+.+|+++||+.++++++++++++..+..++.
T Consensus 501 ~~~a~~~~i~~~~~~~e~~~~~~~~~~~~~~ 531 (564)
T KOG1990|consen 501 RKEALKSHISDLEQEIEQLQASVEAMPAINK 531 (564)
T ss_pred HHHHHhhhcchhhhhHHHhhcchhccccccc
Confidence 9999999999999999999999988766665
No 6
>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]
Probab=97.91 E-value=1.1e-05 Score=83.23 Aligned_cols=117 Identities=26% Similarity=0.372 Sum_probs=100.7
Q ss_pred HHHHHHHhhcccCCCCCCCCCCCCCCCCHHHHHHHHhccccCCCeeeeCCCCCcHHHHHHHHHHHHhCCeeeEEecCC-C
Q 021078 17 KEERIVEGLKKIEPKESSEMTHDPEILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWKKHQTLKVIVKTF-S 95 (317)
Q Consensus 17 K~e~~~e~L~K~e~~~pse~~~D~E~LT~kERk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk~HELVKVKv~~~-~ 95 (317)
....+.+.+..+..|...-|...+..||..+..++|.+|-...|++.+|.++.-.++...|..+|..|+..|+.+... .
T Consensus 149 ~~dl~~~~i~~~~~p~r~l~~~~~~~l~~~~~~~~r~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~k~~~~k~~~~rg~~ 228 (564)
T KOG1990|consen 149 DADLLPEKIPDYMRPFRTLPVGSPPLLTSIESTLLRRLGYKLPPHFALGRSRKLQGLAVAMVSFWEKHEFAKILIKRGVL 228 (564)
T ss_pred hhhhchhhhhcccChhccCCCCChhhhhhHHHHHHHHhcccccccceehhccccccchhHHHHHHHHHHHHHHHHHhcch
Confidence 345566777777777777777788899999999999999999999999999999999999999999999999888653 4
Q ss_pred HHHHHHHHHHH--HHHhCCeEEEEeeCcEEEEEeCCCCCCC
Q 021078 96 AEEVKEIAAEL--ARLTGGIVLEIHEENTIIMYRGKNYAQP 134 (317)
Q Consensus 96 ~ed~keiAeeL--e~~SGgeLVqV~IG~tIILYRgkNY~~P 134 (317)
......++..+ -..+|+.||. +-|..+|+||++++-.|
T Consensus 229 ~~~~~~~a~~l~~~~~tg~~lv~-hN~~~dv~y~~~~Fl~~ 268 (564)
T KOG1990|consen 229 ETRKERMADELQELLLTGKVLVL-HNKLLDVMYRYKNFLSP 268 (564)
T ss_pred hhhccchHHHHHHHHhcCCeEEe-eccceeeeeehhhcccc
Confidence 44556777777 8899999998 79999999999999775
No 7
>COG1623 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]
Probab=68.81 E-value=19 Score=36.06 Aligned_cols=71 Identities=27% Similarity=0.392 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHHHhCCeEEEE-eeCcEEEEEeCCCCCCCCCCcCCcccccchHHHHhHHHHHhhHHHHHHHHHHHHHHH
Q 021078 96 AEEVKEIAAELARLTGGIVLEI-HEENTIIMYRGKNYAQPPTEIMSPRITLSRKKALDKSKYRDGLRAVKKYIPKLEQEL 174 (317)
Q Consensus 96 ~ed~keiAeeLe~~SGgeLVqV-~IG~tIILYRgkNY~~P~~~i~~P~~lLtKrkAL~rS~~~qr~~sl~~~i~~le~~i 174 (317)
...++..|+..|..||..||+| +.-++|.||.+ |++.-- -.+-.+||| .-|-+..|..|-..|.+.+
T Consensus 104 tGtRHRTAER~AkqTG~~VIaiS~rrNvITlY~~-~~ky~L---~d~~~il~r--------anQAi~TLEkYk~~Ld~~~ 171 (349)
T COG1623 104 TGTRHRTAERVAKQTGNPVIAISERRNVITLYVG-NLKYVL---KDSAFILSR--------ANQAIQTLEKYKTVLDRVL 171 (349)
T ss_pred CccccchHHHHHHHhCCeEEEEecccceEEEEec-Ceeeee---cChHHHHHH--------HHHHHHHHHHHHHHHHHHh
Confidence 4578999999999999999998 35579999987 554431 123345555 3455556666666666655
Q ss_pred HHHH
Q 021078 175 ELLR 178 (317)
Q Consensus 175 ~~l~ 178 (317)
..|.
T Consensus 172 ~~L~ 175 (349)
T COG1623 172 NQLN 175 (349)
T ss_pred hhhh
Confidence 5543
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=54.32 E-value=64 Score=24.70 Aligned_cols=56 Identities=13% Similarity=0.141 Sum_probs=39.3
Q ss_pred HHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHH---HhCCeEEEEeeCcEEEEEeCCCC
Q 021078 74 ILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELAR---LTGGIVLEIHEENTIIMYRGKNY 131 (317)
Q Consensus 74 IeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~---~SGgeLVqV~IG~tIILYRgkNY 131 (317)
+.+|-.+++....|=|.+..-..+..+.+.+.|+. ..+|.+.. +|..+++|=|++.
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 45588999999999999988888888888888765 77999996 5888888877664
No 9
>PRK13482 DNA integrity scanning protein DisA; Provisional
Probab=47.58 E-value=50 Score=33.42 Aligned_cols=48 Identities=25% Similarity=0.307 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHhCCeEEEEe-eCcEEEEEeCCCCCCCCCCcCCcccccch
Q 021078 96 AEEVKEIAAELARLTGGIVLEIH-EENTIIMYRGKNYAQPPTEIMSPRITLSR 147 (317)
Q Consensus 96 ~ed~keiAeeLe~~SGgeLVqV~-IG~tIILYRgkNY~~P~~~i~~P~~lLtK 147 (317)
...++.+|.-+++.|||.+|.|. ..++|-+|.+.. ..+ +..|..+++|
T Consensus 98 ~GtRHRaA~gise~Tda~vIvVSee~g~Isl~~~g~-~~~---~~d~~~l~~~ 146 (352)
T PRK13482 98 TGTRHRTAERVAKQTGVPVIAVSQRRNIITLYVGGL-RYV---LEDIGVILSR 146 (352)
T ss_pred CcHHHHHhhHHHHhcCCEEEEEecccCeEEEEECCE-EEe---cCCHHHHHHH
Confidence 45789999999999999999873 335666676532 222 1335566665
No 10
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=44.40 E-value=1.2e+02 Score=27.06 Aligned_cols=69 Identities=16% Similarity=0.044 Sum_probs=46.6
Q ss_pred CCCHHHHHHHHhccccCCCeeee-CCCCCcHHH-HHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEE
Q 021078 42 ILTPEEHFYFLKMGRKCKNYVPV-GRRGIYQGV-ILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVL 115 (317)
Q Consensus 42 ~LT~kERk~LRklAhkLKPvV~I-GK~GVTdgV-IeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~SGgeLV 115 (317)
.||++|+..++.+...-..++.| |..|.--.. +..+..+|..+. .+|.+...+. .++..|...+|....
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 48999999999996666555544 998876554 677999999987 7777766553 355557777775544
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=38.25 E-value=38 Score=28.60 Aligned_cols=34 Identities=12% Similarity=0.288 Sum_probs=27.9
Q ss_pred HHHhccccCC-CeeeeCCCCCcHHHHHHHHHHHHh
Q 021078 50 YFLKMGRKCK-NYVPVGRRGIYQGVILNMHLHWKK 83 (317)
Q Consensus 50 ~LRklAhkLK-PvV~IGK~GVTdgVIeeI~~aLk~ 83 (317)
.+.++|.+-+ |+|.+|.+|.++.+++.++..+..
T Consensus 75 ~~~~l~~~~~~Piil~~~~g~w~~l~~~l~~~~~~ 109 (133)
T PF03641_consen 75 TLMQLGRHNKVPIILLNIDGFWDPLLEFLDRMIEE 109 (133)
T ss_dssp HHHHTTSSTS-EEEEEECGGCCHHHHHHHHHHHHT
T ss_pred HHHhhccccCCCEEEeCCcchHHHHHHHHHHHHHC
Confidence 4567888888 999999999999999999755544
No 12
>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=33.76 E-value=75 Score=34.53 Aligned_cols=39 Identities=23% Similarity=0.217 Sum_probs=30.4
Q ss_pred ccchHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 021078 144 TLSRKKALDKSKYRDGLRAVKKYIPKLEQELELLRAQAETR 184 (317)
Q Consensus 144 lLtKrkAL~rS~~~qr~~sl~~~i~~le~~i~~l~~~~~~~ 184 (317)
+|++..+|=|++-.|=-+++-.||. ...|..|-..|...
T Consensus 597 lls~~s~llR~~~~~vf~~~~~~~t--~~~l~~ll~vl~~~ 635 (784)
T PF04931_consen 597 LLSQPSALLRKVSEQVFEAFCPHLT--ESGLQLLLDVLDAK 635 (784)
T ss_pred HHhCcchHHHHHHHHHHHHHHhhcC--HHHHHHHHHHhccC
Confidence 6799999999999999888887764 45667777776643
No 13
>PF14626 RNase_Zc3h12a_2: Zc3h12a-like Ribonuclease NYN domain
Probab=33.28 E-value=68 Score=28.17 Aligned_cols=83 Identities=20% Similarity=0.303 Sum_probs=49.6
Q ss_pred hccccCCCeeee-CCCCCcHHHHHHHHH-----HHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeCcEEEEE
Q 021078 53 KMGRKCKNYVPV-GRRGIYQGVILNMHL-----HWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEENTIIMY 126 (317)
Q Consensus 53 klAhkLKPvV~I-GK~GVTdgVIeeI~~-----aLk~HELVKVKv~~~~~ed~keiAeeLe~~SGgeLVqV~IG~tIILY 126 (317)
-.||+.--+++. =++-++++.+..++. .|-.-.+||. +.......+.......++.+||++|+ .. . |
T Consensus 21 lrGHKT~vyLP~yY~~~~~~~~~~kvDd~~~F~~L~~l~lIkF-i~~~~~~~~~~eV~~~Aek~~GI~VS-s~-E----~ 93 (122)
T PF14626_consen 21 LRGHKTVVYLPKYYKNYVDDGGISKVDDLEAFQFLCDLDLIKF-IEKRNRKKWFNEVLDEAEKTHGIFVS-SS-E----Y 93 (122)
T ss_pred hccCeeEEEChHHHhcccccccccccchHHHHHHHHhcCceee-eccccHHHHHHHHHHHHHHcCcEEEC-CH-H----H
Confidence 346655444433 245555544444332 3444556666 33445566666777788999999997 22 2 5
Q ss_pred eCC----CCCCCCCCcCCcc
Q 021078 127 RGK----NYAQPPTEIMSPR 142 (317)
Q Consensus 127 Rgk----NY~~P~~~i~~P~ 142 (317)
|.+ .|..|+.++.-|-
T Consensus 94 ~~~~~~~~y~k~seriitp~ 113 (122)
T PF14626_consen 94 RRRNFKIHYNKPSERIITPC 113 (122)
T ss_pred hcccccccccCcccceechh
Confidence 555 5678888777764
No 14
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=33.08 E-value=1.7e+02 Score=33.93 Aligned_cols=39 Identities=13% Similarity=0.093 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEE
Q 021078 71 QGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLE 116 (317)
Q Consensus 71 dgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~SGgeLVq 116 (317)
++|++.|...++-+. .....-+...|.-|.+...-+.|.
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 777777776665322 111223345555677777777765
No 15
>COG4809 Archaeal ADP-dependent phosphofructokinase/glucokinase [Carbohydrate transport and metabolism]
Probab=30.20 E-value=1.2e+02 Score=31.85 Aligned_cols=105 Identities=18% Similarity=0.060 Sum_probs=78.8
Q ss_pred CCCcHHHHHHHHHHHHhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEE-eeCcEEEEEeCCCCCCCCCCcCCccccc
Q 021078 67 RGIYQGVILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEI-HEENTIIMYRGKNYAQPPTEIMSPRITL 145 (317)
Q Consensus 67 ~GVTdgVIeeI~~aLk~HELVKVKv~~~~~ed~keiAeeLe~~SGgeLVqV-~IG~tIILYRgkNY~~P~~~i~~P~~lL 145 (317)
=|+.+.=++++-..+-++||.+=++..+..+++-+-+-.|....|-+.||| ++|+.+-+.|+-| | ...-
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 478888999999999999999988877788999999999999999999998 4788777777533 3 1133
Q ss_pred chHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 021078 146 SRKKALDKSKYRDGLRAVKKYIPKLEQELELLRAQA 181 (317)
Q Consensus 146 tKrkAL~rS~~~qr~~sl~~~i~~le~~i~~l~~~~ 181 (317)
-.|+||-=|.-.-.-.|+.-.|.++...=+-|+.++
T Consensus 366 e~~daL~Fs~~lAa~~A~~GnIe~~~d~~~glkvp~ 401 (466)
T COG4809 366 ELRDALLFSTLLAAAKAMLGNIERLDDLKEGLKVPI 401 (466)
T ss_pred HHHHHHHHHHHHHHHHHhcCCccchhhHHhhccCCc
Confidence 458888888777777777777765543333333333
No 16
>PRK12757 cell division protein FtsN; Provisional
Probab=27.96 E-value=61 Score=31.44 Aligned_cols=47 Identities=21% Similarity=0.268 Sum_probs=31.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCCC-----CCCCCHHHHHHHHhccccCC
Q 021078 3 AEEKILYKLRKARKKEERIVEGLKKIEPKESSEMTHD-----PEILTPEEHFYFLKMGRKCK 59 (317)
Q Consensus 3 ~e~ri~~kl~~a~~K~e~~~e~L~K~e~~~pse~~~D-----~E~LT~kERk~LRklAhkLK 59 (317)
||||.+|-.++-++ .+-+..|.+|..+ +..||++||..|-.|--.|+
T Consensus 45 PeErWrYIkeLEnr----------~v~v~~p~ep~~~~~~~~~~qlt~Eqrqlleqmq~Dmr 96 (256)
T PRK12757 45 PEERWRYIKELENR----------QIGVPTPTEPSAGGEVNSPTQLTDEQRQLLEQMQADMR 96 (256)
T ss_pred cchhHHHHHHHhcC----------CCCCCCCCCCCCCCCcCCcccCCHHHHHHHHHHHHHHh
Confidence 68888885433221 2334455555543 55699999999998887775
No 17
>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=27.38 E-value=92 Score=33.86 Aligned_cols=10 Identities=30% Similarity=0.574 Sum_probs=5.7
Q ss_pred chHHHHHHhh
Q 021078 270 EDFEEHLRQI 279 (317)
Q Consensus 270 ~~~~~~~~~~ 279 (317)
+.|..-|++.
T Consensus 702 ~~~~~~l~~a 711 (784)
T PF04931_consen 702 EEFRSALAKA 711 (784)
T ss_pred HHHHHHHHHH
Confidence 4566666653
No 18
>PRK13434 F0F1 ATP synthase subunit delta; Provisional
Probab=25.85 E-value=3.6e+02 Score=23.97 Aligned_cols=88 Identities=13% Similarity=0.213 Sum_probs=55.2
Q ss_pred CCHHHHHH-HHh-ccccCCCe----eee----CCCCCcHHHHHHHHHHHHh-CCeeeEEec---CCCHHHHHHHHHHHHH
Q 021078 43 LTPEEHFY-FLK-MGRKCKNY----VPV----GRRGIYQGVILNMHLHWKK-HQTLKVIVK---TFSAEEVKEIAAELAR 108 (317)
Q Consensus 43 LT~kERk~-LRk-lAhkLKPv----V~I----GK~GVTdgVIeeI~~aLk~-HELVKVKv~---~~~~ed~keiAeeLe~ 108 (317)
++.+++.. |.+ .+.++.|. +.+ |+-++.+.++......+.. +-.+.+.|- .-+..+...+...|+.
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 55666653 443 33344443 222 6667777887777665554 455555552 3467889999999999
Q ss_pred HhCCeEEEE-------eeCcEEEEEeCCCC
Q 021078 109 LTGGIVLEI-------HEENTIIMYRGKNY 131 (317)
Q Consensus 109 ~SGgeLVqV-------~IG~tIILYRgkNY 131 (317)
.+|..|. + .||..+|=+-..-|
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 9987654 3 27887777654444
No 19
>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=25.73 E-value=83 Score=22.87 Aligned_cols=38 Identities=29% Similarity=0.406 Sum_probs=28.2
Q ss_pred HHHHHHhhhhcccccccCCCCCCCCChhhHHHHHHHHHHhHhh
Q 021078 272 FEEHLRQISIDSRNAKSLGKDEDSSHFDEVDKMFLRAASLLKK 314 (317)
Q Consensus 272 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 314 (317)
||+.+.++-.-..+.++ .++| +|+.=+.|-+|..|+++
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 77777777766666554 3444 99999999999999876
No 20
>PF10369 ALS_ss_C: Small subunit of acetolactate synthase; InterPro: IPR019455 This entry represents the C-terminal domain of the small subunit of acetolactate synthase (the N-terminal domain being an ACT domain). Acetolactate synthase is a tetrameric enzyme, composed of two large and two small subunits, which catalyses the first step in branched-chain amino acid biosynthesis. This reaction is sensitive to certain herbicides []. ; PDB: 2F1F_B 2FGC_A 2PC6_A.
Probab=25.19 E-value=2.5e+02 Score=21.79 Aligned_cols=39 Identities=18% Similarity=0.323 Sum_probs=21.2
Q ss_pred CCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEEeeCcEEE
Q 021078 84 HQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEIHEENTII 124 (317)
Q Consensus 84 HELVKVKv~~~~~ed~keiAeeLe~~SGgeLVqV~IG~tII 124 (317)
+||+=||+.. ...+ +.-...|+...+|.+|.+.....+|
T Consensus 2 rEl~LiKV~~-~~~~-r~ei~~l~~~f~a~ivd~~~~~~ii 40 (75)
T PF10369_consen 2 RELALIKVKA-TPEN-RSEILQLAEIFRARIVDVSPDSIII 40 (75)
T ss_dssp EEEEEEEEE--SCHH-HHHHHHHHHHTT-EEEEEETTEEEE
T ss_pred eEEEEEEEEC-CccC-HHHHHHHHHHhCCEEEEECCCEEEE
Confidence 4544444443 2233 3345668889999999974433333
No 21
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=25.16 E-value=1.9e+02 Score=24.10 Aligned_cols=39 Identities=26% Similarity=0.385 Sum_probs=27.6
Q ss_pred chHHHHhHH---HHHhhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 021078 146 SRKKALDKS---KYRDGLRAVKKYIPKLEQELELLRAQAETR 184 (317)
Q Consensus 146 tKrkAL~rS---~~~qr~~sl~~~i~~le~~i~~l~~~~~~~ 184 (317)
+|=+||++| .+.-++.-|..-+..+.++++.|+.++...
T Consensus 34 ~KV~~LKksYe~rwek~v~~L~~e~~~l~~E~e~L~~~l~~e 75 (87)
T PF12709_consen 34 TKVKALKKSYEARWEKKVDELENENKALKRENEQLKKKLDTE 75 (87)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677655 456677777778888888888888877543
No 22
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=25.12 E-value=4.2e+02 Score=23.28 Aligned_cols=55 Identities=9% Similarity=0.031 Sum_probs=39.6
Q ss_pred HHHHHHHhccccCCCeeeeCCCCCcHHHHH-HHHHHHH--hCCeeeEEecCCCHHHHH
Q 021078 46 EEHFYFLKMGRKCKNYVPVGRRGIYQGVIL-NMHLHWK--KHQTLKVIVKTFSAEEVK 100 (317)
Q Consensus 46 kERk~LRklAhkLKPvV~IGK~GVTdgVIe-eI~~aLk--~HELVKVKv~~~~~ed~k 100 (317)
+-+..++++|..--|++..|-.|.--.+++ .||..-. ....|.|.|...+.+...
T Consensus 10 ~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e 67 (168)
T PF00158_consen 10 RLREQAKRAASSDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLE 67 (168)
T ss_dssp HHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHH
T ss_pred HHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhh
Confidence 346678888888899999999999988755 5666543 357999999887655443
No 23
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=24.59 E-value=2.8e+02 Score=27.08 Aligned_cols=21 Identities=14% Similarity=0.086 Sum_probs=15.3
Q ss_pred CCCChhhHHHHHHHHHHhHhh
Q 021078 294 DSSHFDEVDKMFLRAASLLKK 314 (317)
Q Consensus 294 ~~~~~~~~~~~~~~~~~~~~~ 314 (317)
.....++|=++|.++=..-+|
T Consensus 341 ~~~t~~~i~~il~~~~~~~~~ 361 (366)
T PRK09423 341 FKVTPEDVAAAILAADAYGQR 361 (366)
T ss_pred CCCCHHHHHHHHHHHHHHHHH
Confidence 345778899999888776544
No 24
>PRK08207 coproporphyrinogen III oxidase; Provisional
Probab=23.69 E-value=4e+02 Score=27.73 Aligned_cols=86 Identities=15% Similarity=0.160 Sum_probs=54.2
Q ss_pred CCCCCCHHHHHHHHhccccCCCeeeeCCCCCcHHHHHHHHH------------HHHhCCeeeEEe------cCCCHHHHH
Q 021078 39 DPEILTPEEHFYFLKMGRKCKNYVPVGRRGIYQGVILNMHL------------HWKKHQTLKVIV------KTFSAEEVK 100 (317)
Q Consensus 39 D~E~LT~kERk~LRklAhkLKPvV~IGK~GVTdgVIeeI~~------------aLk~HELVKVKv------~~~~~ed~k 100 (317)
.|..+|.+....|+..|.. .|.||-....+.++..|.+ .++.+.+-.|.+ .+.+.++..
T Consensus 263 rPd~it~e~L~~Lk~~Gv~---RISIGvQS~~d~vLk~igR~ht~e~v~~ai~~ar~~Gf~~In~DLI~GLPgEt~ed~~ 339 (488)
T PRK08207 263 RPDTITEEKLEVLKKYGVD---RISINPQTMNDETLKAIGRHHTVEDIIEKFHLAREMGFDNINMDLIIGLPGEGLEEVK 339 (488)
T ss_pred CCCCCCHHHHHHHHhcCCC---eEEEcCCcCCHHHHHHhCCCCCHHHHHHHHHHHHhCCCCeEEEEEEeCCCCCCHHHHH
Confidence 5788999999999999864 6778877777666655532 334444423332 133455555
Q ss_pred HHHHHHHHHhCCeEEEEeeCcEEEEEeCCCC
Q 021078 101 EIAAELARLTGGIVLEIHEENTIIMYRGKNY 131 (317)
Q Consensus 101 eiAeeLe~~SGgeLVqV~IG~tIILYRgkNY 131 (317)
+....+. ..+..-|.+ +.+.+++|...
T Consensus 340 ~tl~~l~-~L~pd~isv---~~L~i~~gT~l 366 (488)
T PRK08207 340 HTLEEIE-KLNPESLTV---HTLAIKRASRL 366 (488)
T ss_pred HHHHHHH-hcCcCEEEE---EeceEcCCChH
Confidence 5555544 356666665 67788887643
No 25
>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=23.45 E-value=3.1e+02 Score=20.31 Aligned_cols=57 Identities=11% Similarity=0.040 Sum_probs=47.5
Q ss_pred eeeeCCCCCcHHHHHHHHHHH-----HhCCeeeEEecCCCHHHHHHHHHHHHHHhCCeEEEE
Q 021078 61 YVPVGRRGIYQGVILNMHLHW-----KKHQTLKVIVKTFSAEEVKEIAAELARLTGGIVLEI 117 (317)
Q Consensus 61 vV~IGK~GVTdgVIeeI~~aL-----k~HELVKVKv~~~~~ed~keiAeeLe~~SGgeLVqV 117 (317)
.+.|++++=.-..+..+-.+| ..++-|.+.-.+..-...-.+|+.+.+..+..++||
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 578899888899999999999 889999999999888888899999999986666665
No 26
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=23.21 E-value=2.1e+02 Score=27.63 Aligned_cols=52 Identities=13% Similarity=0.144 Sum_probs=39.9
Q ss_pred HHHHHHHhccccCCCeeeeCCCCCcHHHHH-HHHHHHH--hCCeeeEEecCCCHH
Q 021078 46 EEHFYFLKMGRKCKNYVPVGRRGIYQGVIL-NMHLHWK--KHQTLKVIVKTFSAE 97 (317)
Q Consensus 46 kERk~LRklAhkLKPvV~IGK~GVTdgVIe-eI~~aLk--~HELVKVKv~~~~~e 97 (317)
.=+..+++.|..-.|++..|-.|.--..+. .||..-. ...+|.|.|...+..
T Consensus 17 ~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~ 71 (326)
T PRK11608 17 EVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNEN 71 (326)
T ss_pred HHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHH
Confidence 345667788888889999999999988775 5675544 357999999876543
No 27
>PRK13436 F0F1 ATP synthase subunit delta; Provisional
Probab=22.57 E-value=4.1e+02 Score=23.55 Aligned_cols=67 Identities=7% Similarity=-0.001 Sum_probs=47.9
Q ss_pred CCCCCcHHHHHHHHHHHHh-CCeeeEEe---cCCCHHHHHHHHHHHHHHhCCeEEEEe-------eCcEEEEEeCCCCC
Q 021078 65 GRRGIYQGVILNMHLHWKK-HQTLKVIV---KTFSAEEVKEIAAELARLTGGIVLEIH-------EENTIIMYRGKNYA 132 (317)
Q Consensus 65 GK~GVTdgVIeeI~~aLk~-HELVKVKv---~~~~~ed~keiAeeLe~~SGgeLVqV~-------IG~tIILYRgkNY~ 132 (317)
|+-++.+.++......+.. +..+.+.| ..-+.++...+...|...+|..|. +. ||..+|-+=..-|+
T Consensus 86 ~R~~~l~~I~~~f~~~~~~~~~~~~~~V~sA~~Ls~~~~~~i~~~l~~~~g~~v~-l~~~vDpslIGGi~i~~gd~viD 163 (179)
T PRK13436 86 NLFIYIKQILKKFVKLSNEKLNITYGEIYTTEPLSEVQISRFESKLSKKLNKKVH-LVNKIDPKLIAGIKIKVDNKVFE 163 (179)
T ss_pred ChHHHHHHHHHHHHHHHHHHcCeEEEEEEecCCCCHHHHHHHHHHHHHHHCCeEE-EEeecCHHHcCceEEEECCEEee
Confidence 7778888888888777766 44555554 345688999999999999987653 42 78887766554443
No 28
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=22.40 E-value=65 Score=31.88 Aligned_cols=37 Identities=24% Similarity=0.403 Sum_probs=31.0
Q ss_pred cCCCHHHHHHHHHHHHHHhCCeEEEEeeCcEEEEEeCCCC
Q 021078 92 KTFSAEEVKEIAAELARLTGGIVLEIHEENTIIMYRGKNY 131 (317)
Q Consensus 92 ~~~~~ed~keiAeeLe~~SGgeLVqV~IG~tIILYRgkNY 131 (317)
.|.+..-.-.+|-.|+..+||+||+ ++.+-+|||-+-
T Consensus 9 ~GPTAsGKT~lai~LAk~~~~eIIs---~DSmQvYr~mdI 45 (308)
T COG0324 9 AGPTASGKTALAIALAKRLGGEIIS---LDSMQVYRGLDI 45 (308)
T ss_pred ECCCCcCHHHHHHHHHHHcCCcEEe---cchhhhcCCCcc
Confidence 4556667788999999999999997 599999998754
No 29
>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=22.29 E-value=1e+02 Score=27.67 Aligned_cols=33 Identities=12% Similarity=0.272 Sum_probs=26.4
Q ss_pred HHHhccccCCCeeeeCCCCCcHHHHHHHHHHHH
Q 021078 50 YFLKMGRKCKNYVPVGRRGIYQGVILNMHLHWK 82 (317)
Q Consensus 50 ~LRklAhkLKPvV~IGK~GVTdgVIeeI~~aLk 82 (317)
.+.++|.+-||++.++-+|.++.+++.++....
T Consensus 118 ~~~qlg~~~kPiil~n~~g~~~~l~~~l~~~~~ 150 (178)
T TIGR00730 118 TWAQLGIHQKPIILFNVNGHFDGLVEWLKYSIQ 150 (178)
T ss_pred HHHHcCCCCCCEEEECCcchHHHHHHHHHHHHH
Confidence 356778888999999999999999988884443
No 30
>COG0052 RpsB Ribosomal protein S2 [Translation, ribosomal structure and biogenesis]
Probab=22.08 E-value=1.3e+02 Score=29.36 Aligned_cols=101 Identities=18% Similarity=0.185 Sum_probs=67.1
Q ss_pred cCCCeeeeCCCCCc----HHHHHHHHHHHHh-CCee----eEEecCCCHHHHHHHHHHHHHHhCCeEEE--EeeCcEEEE
Q 021078 57 KCKNYVPVGRRGIY----QGVILNMHLHWKK-HQTL----KVIVKTFSAEEVKEIAAELARLTGGIVLE--IHEENTIIM 125 (317)
Q Consensus 57 kLKPvV~IGK~GVT----dgVIeeI~~aLk~-HELV----KVKv~~~~~ed~keiAeeLe~~SGgeLVq--V~IG~tIIL 125 (317)
+|+||+-=-++||. .-.+..++.|++. ++++ +|-+-+ +..+.++++.+-|..+|+--|. | .|.++.=
T Consensus 26 km~~fIf~~RngihIIDL~kT~~~l~~A~~~v~~~~~~~g~ILfVg-TK~~a~~~V~~~A~r~g~~yV~~Rw-LgG~LTN 103 (252)
T COG0052 26 KMKPFIFGERNGIHIIDLQKTLERLREAYKFLRRIAANGGKILFVG-TKKQAQEPVKEFAERTGAYYVNGRW-LGGMLTN 103 (252)
T ss_pred cccccceeecCCcEEEEHHHHHHHHHHHHHHHHHHHcCCCEEEEEe-chHHHHHHHHHHHHHhCCceecCcc-cCccccC
Confidence 57788887788886 5566677777765 4444 344444 4478888999999999999986 5 8888887
Q ss_pred EeC--CCCCCCC---CCcCCcccccchHHHHhHHHHHhh
Q 021078 126 YRG--KNYAQPP---TEIMSPRITLSRKKALDKSKYRDG 159 (317)
Q Consensus 126 YRg--kNY~~P~---~~i~~P~~lLtKrkAL~rS~~~qr 159 (317)
|+. +...+=. ...-.-.+.|||+++|..+.++.+
T Consensus 104 ~~ti~~si~rl~~lE~~~~~~~~~~tKkE~l~l~re~~k 142 (252)
T COG0052 104 FKTIRKSIKRLKELEKMEEDGFDGLTKKEALMLTRELEK 142 (252)
T ss_pred chhHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHH
Confidence 665 2121100 000011467899999988877766
No 31
>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=21.70 E-value=3.1e+02 Score=26.48 Aligned_cols=27 Identities=7% Similarity=-0.075 Sum_probs=17.2
Q ss_pred CCeeeeCCCCCcHHHHHHHHHHHHhCC
Q 021078 59 KNYVPVGRRGIYQGVILNMHLHWKKHQ 85 (317)
Q Consensus 59 KPvV~IGK~GVTdgVIeeI~~aLk~HE 85 (317)
+.++.|+..++..++.+.+..+|+.+.
T Consensus 23 ~r~livt~~~~~~~~~~~v~~~L~~~~ 49 (351)
T cd08170 23 KRALIIADEFVLDLVGAKIEESLAAAG 49 (351)
T ss_pred CeEEEEECHHHHHHHHHHHHHHHHhCC
Confidence 445555556666677777777777663
No 32
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=21.54 E-value=86 Score=25.85 Aligned_cols=49 Identities=6% Similarity=0.096 Sum_probs=34.4
Q ss_pred HHHHHHhccccCCCeeeeCCCCCcHHHH-HHHHHHHHhC--CeeeEEecCCC
Q 021078 47 EHFYFLKMGRKCKNYVPVGRRGIYQGVI-LNMHLHWKKH--QTLKVIVKTFS 95 (317)
Q Consensus 47 ERk~LRklAhkLKPvV~IGK~GVTdgVI-eeI~~aLk~H--ELVKVKv~~~~ 95 (317)
=+..+++++..-.|++..|-.|.--..+ ..||..+... -.+-+.|...+
T Consensus 10 l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~ 61 (138)
T PF14532_consen 10 LRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP 61 (138)
T ss_dssp HHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC
T ss_pred HHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc
Confidence 4677888898899999999999998876 5677776652 34445555444
No 33
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=21.50 E-value=5e+02 Score=24.83 Aligned_cols=50 Identities=20% Similarity=0.137 Sum_probs=33.5
Q ss_pred CCCCCcHHHHHHHHHHHHh-CCeeeEEe---cCCCHHHHHHHHHHHHHHhCCeE
Q 021078 65 GRRGIYQGVILNMHLHWKK-HQTLKVIV---KTFSAEEVKEIAAELARLTGGIV 114 (317)
Q Consensus 65 GK~GVTdgVIeeI~~aLk~-HELVKVKv---~~~~~ed~keiAeeLe~~SGgeL 114 (317)
++-+..+.++......+.. +..+.+.| ..-+.++...+...|...+|..|
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 4556677777776665555 33444444 23468899999999999986543
No 34
>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=20.95 E-value=2e+02 Score=27.23 Aligned_cols=34 Identities=24% Similarity=0.391 Sum_probs=22.2
Q ss_pred chHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 021078 146 SRKKALDKSKYRDGLRAVKKYIPKLEQELELLRAQA 181 (317)
Q Consensus 146 tKrkAL~rS~~~qr~~sl~~~i~~le~~i~~l~~~~ 181 (317)
.||+||.-++..-.. |..-|..++.+|..|+.+.
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 578899988876443 5455666666666666544
No 35
>COG0274 DeoC Deoxyribose-phosphate aldolase [Nucleotide transport and metabolism]
Probab=20.56 E-value=2.6e+02 Score=26.94 Aligned_cols=69 Identities=20% Similarity=0.214 Sum_probs=50.8
Q ss_pred ccccCCCeeeeC--CCCCcHHHHHHHHHHHHhCC---eeeEEecCC-CHHHHHHHHHHHHHHhCCeEEEEeeCcE
Q 021078 54 MGRKCKNYVPVG--RRGIYQGVILNMHLHWKKHQ---TLKVIVKTF-SAEEVKEIAAELARLTGGIVLEIHEENT 122 (317)
Q Consensus 54 lAhkLKPvV~IG--K~GVTdgVIeeI~~aLk~HE---LVKVKv~~~-~~ed~keiAeeLe~~SGgeLVqV~IG~t 122 (317)
=|.-+.=+++|| +.|-++.|..+|...-+... ++||++... -.++-...|-.++...|+.+|--.-|..
T Consensus 90 GAdEiDmVinig~~k~g~~~~V~~eI~~v~~a~~~~~~lKVIlEt~~Lt~ee~~~A~~i~~~aGAdFVKTSTGf~ 164 (228)
T COG0274 90 GADEIDMVINIGALKSGNWEAVEREIRAVVEACADAVVLKVILETGLLTDEEKRKACEIAIEAGADFVKTSTGFS 164 (228)
T ss_pred CCCeeeeeeeHHHHhcCCHHHHHHHHHHHHHHhCCCceEEEEEeccccCHHHHHHHHHHHHHhCCCEEEcCCCCC
Confidence 355567888998 79999999888887766644 899999653 2334447788899999999996334443
No 36
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=20.42 E-value=3.8e+02 Score=26.09 Aligned_cols=51 Identities=16% Similarity=0.168 Sum_probs=40.4
Q ss_pred HHHHHHhccccCCCeeeeCCCCCcHHHHH-HHHHHHH--hCCeeeEEecCCCHH
Q 021078 47 EHFYFLKMGRKCKNYVPVGRRGIYQGVIL-NMHLHWK--KHQTLKVIVKTFSAE 97 (317)
Q Consensus 47 ERk~LRklAhkLKPvV~IGK~GVTdgVIe-eI~~aLk--~HELVKVKv~~~~~e 97 (317)
-+..++++|..-.|++..|-.|.--.++. .||..-. ...+|.|.|...+..
T Consensus 11 ~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~ 64 (329)
T TIGR02974 11 VLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSEN 64 (329)
T ss_pred HHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChH
Confidence 46778888999999999999999988865 4666554 368999999876543
No 37
>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=20.41 E-value=2e+02 Score=28.39 Aligned_cols=67 Identities=10% Similarity=0.150 Sum_probs=46.5
Q ss_pred CcHHHHHHHHHHHHhC--CeeeEEecCCC-HHHHHHHHHHHHHHhCCeEEEE------------eeCcEEEEEeCCCCCC
Q 021078 69 IYQGVILNMHLHWKKH--QTLKVIVKTFS-AEEVKEIAAELARLTGGIVLEI------------HEENTIIMYRGKNYAQ 133 (317)
Q Consensus 69 VTdgVIeeI~~aLk~H--ELVKVKv~~~~-~ed~keiAeeLe~~SGgeLVqV------------~IG~tIILYRgkNY~~ 133 (317)
..+.|+.+|..-|..| |+|-+.++... ..+..+....|.+..|..++.- ...++||+|+...|..
T Consensus 92 ~~~dvL~~i~~FL~~hp~EvVIL~~k~ey~~~~~~~~~~~li~~lGd~l~~~~~~~~~~TL~eL~~krVIviy~~~~~~~ 171 (285)
T cd08619 92 PVDVVLNDIKRFLSETKSEFVILEIRTEYGHEDPPQFDLWLVEQLGDHLIHQDDSVFSKTLAELLPKRVICIWKPRKSPA 171 (285)
T ss_pred cHHHHHHHHHHHHHHCCCeEEEEEEeecccCCCchHHHHHHHHHhcchhccCCCccccccHHHHhCCcEEEEEcCCCCCc
Confidence 4578999999999887 99999996532 1122245556677778777641 0235799999988886
Q ss_pred CC
Q 021078 134 PP 135 (317)
Q Consensus 134 P~ 135 (317)
|.
T Consensus 172 ~~ 173 (285)
T cd08619 172 PA 173 (285)
T ss_pred cC
Confidence 63
No 38
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=20.07 E-value=1.3e+02 Score=19.36 Aligned_cols=18 Identities=22% Similarity=0.401 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 021078 160 LRAVKKYIPKLEQELELL 177 (317)
Q Consensus 160 ~~sl~~~i~~le~~i~~l 177 (317)
+..++..|..||+++..-
T Consensus 3 ~~rlr~rI~dLer~L~~C 20 (23)
T PF04508_consen 3 MNRLRNRISDLERQLSEC 20 (23)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 355777888888777653
Done!