Query 041516
Match_columns 118
No_of_seqs 101 out of 1054
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 07:58:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041516.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041516hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00018 AP2 DNA-binding domain 99.9 2.6E-22 5.6E-27 126.1 7.5 61 33-93 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.9 1.5E-21 3.2E-26 124.1 8.1 63 34-96 1-63 (64)
3 PHA00280 putative NHN endonucl 99.6 2.2E-15 4.7E-20 107.3 7.2 71 11-87 48-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.3 6.8E-12 1.5E-16 76.9 5.8 52 33-84 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 87.9 2.3 5E-05 24.7 5.1 38 45-82 1-42 (46)
6 cd00801 INT_P4 Bacteriophage P 73.4 8.3 0.00018 29.8 4.9 39 43-81 9-49 (357)
7 PF13356 DUF4102: Domain of un 71.5 14 0.00031 23.9 5.1 42 40-81 29-74 (89)
8 PF05036 SPOR: Sporulation rel 69.6 6.8 0.00015 23.7 3.1 28 51-78 38-65 (76)
9 PF08471 Ribonuc_red_2_N: Clas 64.4 8.1 0.00018 26.4 2.8 21 61-81 70-90 (93)
10 PRK09692 integrase; Provisiona 60.5 31 0.00068 28.0 6.1 39 38-76 33-77 (413)
11 PF08846 DUF1816: Domain of un 58.9 23 0.0005 22.8 4.0 37 45-81 9-45 (68)
12 PHA02601 int integrase; Provis 58.6 21 0.00045 27.9 4.6 43 37-80 2-45 (333)
13 PRK10927 essential cell divisi 50.4 26 0.00057 28.9 4.0 35 46-80 273-307 (319)
14 PF10729 CedA: Cell division a 48.4 38 0.00083 22.2 3.8 39 32-73 30-68 (80)
15 PRK12757 cell division protein 39.9 48 0.001 26.5 4.0 34 46-79 210-243 (256)
16 COG3087 FtsN Cell division pro 39.4 45 0.00098 26.9 3.7 32 46-77 216-249 (264)
17 PRK10113 cell division modulat 35.1 38 0.00082 22.1 2.2 39 33-74 31-69 (80)
18 PF14112 DUF4284: Domain of un 33.0 25 0.00054 24.6 1.2 16 58-73 3-18 (122)
19 PF07384 DUF1497: Protein of u 31.2 38 0.00083 20.8 1.7 30 61-90 1-30 (59)
20 TIGR01164 rplP_bact ribosomal 27.2 1.4E+02 0.0031 21.0 4.3 34 45-81 91-124 (126)
21 PRK10905 cell division protein 26.7 1.3E+02 0.0027 25.1 4.4 20 57-76 286-305 (328)
22 PRK09203 rplP 50S ribosomal pr 26.0 1.3E+02 0.0029 21.5 4.1 36 45-83 92-127 (138)
23 COG2185 Sbm Methylmalonyl-CoA 26.0 54 0.0012 24.0 2.0 31 44-74 29-59 (143)
24 PF09954 DUF2188: Uncharacteri 25.6 1.6E+02 0.0035 17.7 4.7 39 38-80 3-41 (62)
25 PF00352 TBP: Transcription fa 25.4 1.9E+02 0.0041 18.5 5.8 46 33-81 36-82 (86)
26 PLN00062 TATA-box-binding prot 25.4 2.9E+02 0.0064 20.6 6.9 46 33-81 34-80 (179)
27 PF13773 DUF4170: Domain of un 24.1 83 0.0018 20.4 2.4 23 59-81 27-49 (69)
28 PF07498 Rho_N: Rho terminatio 24.0 43 0.00093 19.2 0.9 18 100-117 2-19 (43)
29 TIGR02223 ftsN cell division p 23.2 1.3E+02 0.0028 24.4 3.9 34 46-79 253-288 (298)
30 COG3564 Uncharacterized protei 22.7 56 0.0012 22.8 1.5 17 2-18 31-47 (116)
31 PRK11633 cell division protein 22.0 1.7E+02 0.0037 22.8 4.2 24 56-79 189-212 (226)
32 PF00626 Gelsolin: Gelsolin re 21.2 1.4E+02 0.003 17.9 3.0 35 47-81 19-53 (76)
33 cd04517 TLF TBP-like factors ( 21.0 3.5E+02 0.0077 20.0 6.2 45 34-81 35-80 (174)
34 cd04516 TBP_eukaryotes eukaryo 21.0 3.6E+02 0.0077 20.0 7.0 46 33-81 34-80 (174)
35 KOG3461 CDGSH-type Zn-finger c 20.7 16 0.00035 26.3 -1.6 48 66-113 47-94 (132)
36 PF12286 DUF3622: Protein of u 20.5 1.6E+02 0.0036 19.1 3.2 30 42-71 14-47 (71)
37 PF05610 DUF779: Protein of un 20.2 53 0.0011 22.6 0.9 17 2-18 17-33 (95)
No 1
>cd00018 AP2 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor element essential for ethylene responsiveness. EREBPs and the C-repeat binding factor CBF1, which is involved in stress response, contain a single copy of the AP2 domain. APETALA2-like proteins, which play a role in plant development contain two copies.
Probab=99.87 E-value=2.6e-22 Score=126.14 Aligned_cols=61 Identities=59% Similarity=1.096 Sum_probs=57.2
Q ss_pred CCeeeeEEcCCCcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhhcCCCCCCCCCCc
Q 041516 33 KPYKGIRMRKWGKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYLRGPSARLNFPEL 93 (118)
Q Consensus 33 S~yrGV~~~~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~~G~~a~~Nfp~~ 93 (118)
|+|+||+++++|+|+|+|+++..+++++||+|+|+|||+.|||.++++++|.++.+|||++
T Consensus 1 s~~~GV~~~~~gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~ 61 (61)
T cd00018 1 SKYRGVRQRPWGKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS 61 (61)
T ss_pred CCccCEEECCCCcEEEEEEeCCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence 7899999988899999999975578899999999999999999999999999999999975
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.86 E-value=1.5e-21 Score=124.06 Aligned_cols=63 Identities=59% Similarity=1.162 Sum_probs=59.5
Q ss_pred CeeeeEEcCCCcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhhcCCCCCCCCCCccCC
Q 041516 34 PYKGIRMRKWGKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYLRGPSARLNFPELIFQ 96 (118)
Q Consensus 34 ~yrGV~~~~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~~G~~a~~Nfp~~~~~ 96 (118)
+|+||+++++|+|+|+|+++..+++++||+|+|+|||+.|||.++++++|.++.+|||.+.|+
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y~ 63 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLYD 63 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccCC
Confidence 489999988899999999977778899999999999999999999999999999999998886
No 3
>PHA00280 putative NHN endonuclease
Probab=99.60 E-value=2.2e-15 Score=107.27 Aligned_cols=71 Identities=17% Similarity=0.137 Sum_probs=57.0
Q ss_pred CCCCCCCCCCcccccccCCCCCCCeeeeEEcC-CCcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhhcCCCCC
Q 041516 11 TSTKSPEKRKPRQQRQHQQQQEKPYKGIRMRK-WGKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYLRGPSAR 87 (118)
Q Consensus 11 ~~~~~~~~~~~r~~~~~~~~~~S~yrGV~~~~-~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~~G~~a~ 87 (118)
.-++...+...++ ....|+|||+||+|.+ .|||+|+|.+ ++++++||.|+++|+|+.||+ ++.+|||+++.
T Consensus 48 r~~T~~eN~~N~~---~~~~N~SG~kGV~~~k~~~kw~A~I~~--~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 48 RLALPKENSWNMK---TPKSNTSGLKGLSWSKEREMWRGTVTA--EGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred hhcCHHHHhcccC---CCCCCCCCCCeeEEecCCCeEEEEEEE--CCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 3344444444432 3568899999999885 7999999999 667899999999999999997 67789999875
No 4
>PF00847 AP2: AP2 domain; InterPro: IPR001471 Pathogenesis-related genes transcriptional activator binds to the GCC-box pathogenesis-related promoter element and activates the plant's defence genes. Ethylene, chemically the simplest plant hormone, participates in a number of stress responses and developmental processes: e.g., fruit ripening, inhibition of stem and root elongation, promotion of seed germination and flowering, senescence of leaves and flowers, and sex determination []. DNA sequence elements that confer ethylene responsiveness have been shown to contain two 11bp GCC boxes, which are necessary and sufficient for transcriptional control by ethylene. Ethylene responsive element binding proteins (EREBPs) have now been identified in a variety of plants. The proteins share a similar domain of around 59 amino acids, which interacts directly with the GCC box in the ERE.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3IGM_A 3GCC_A 1GCC_A 2GCC_A.
Probab=99.30 E-value=6.8e-12 Score=76.86 Aligned_cols=52 Identities=37% Similarity=0.469 Sum_probs=45.3
Q ss_pred CCeeeeEEcC-CCcEEEEEecCC---CCeeeeccCCCCHHHHHHHHHHHHHhhcCC
Q 041516 33 KPYKGIRMRK-WGKWVAEIREPN---KRSRIWLGSYTTPIAAARAYDTAVFYLRGP 84 (118)
Q Consensus 33 S~yrGV~~~~-~gkw~A~I~~~~---~~k~~~LG~f~t~eeAA~AYd~aa~~~~G~ 84 (118)
|+|+||++++ .++|+|+|++.. .++.++||.|++++||+++|+.++..++|+
T Consensus 1 s~~~GV~~~~~~~~W~a~i~~~~~~g~~k~f~~g~fg~~~eA~~~a~~~r~~~~~e 56 (56)
T PF00847_consen 1 SGYKGVSWDKRRGRWRAQIRVWSENGKRKRFSVGKFGFEEEAKRAAIEARKELEGE 56 (56)
T ss_dssp SSSTTEEEETTTTEEEEEEEECCCTTEEEEEEECCCCCHHHHHHHHHHHHHHCTS-
T ss_pred CCcEEEEEcCCCCEEEEEEEEcccCcccEEEeCccCCCHHHHHHHHHHHHHHhcCC
Confidence 7899999886 799999998831 148899999999999999999999999874
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=87.87 E-value=2.3 Score=24.71 Aligned_cols=38 Identities=18% Similarity=0.231 Sum_probs=30.1
Q ss_pred cEEEEEe--c--CCCCeeeeccCCCCHHHHHHHHHHHHHhhc
Q 041516 45 KWVAEIR--E--PNKRSRIWLGSYTTPIAAARAYDTAVFYLR 82 (118)
Q Consensus 45 kw~A~I~--~--~~~~k~~~LG~f~t~eeAA~AYd~aa~~~~ 82 (118)
+|..+|. . +|+.++++-+-|.|..||..+...+...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 5888883 2 455688999999999999999988777653
No 6
>cd00801 INT_P4 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall reaction mechanism with the superfamily of DNA breaking-rejoining enzymes. The P4 integrase mediates integrative and excisive site-specific recombination between two sites, called attachment sites, located on the phage genome and the bacterial chromosome. The phage attachment site is often found adjacent to the integrase gene, while the host attachment sites are typically situated near tRNA genes.
Probab=73.39 E-value=8.3 Score=29.77 Aligned_cols=39 Identities=33% Similarity=0.388 Sum_probs=30.0
Q ss_pred CCcEEEEEecCCCCeeeeccCCC--CHHHHHHHHHHHHHhh
Q 041516 43 WGKWVAEIREPNKRSRIWLGSYT--TPIAAARAYDTAVFYL 81 (118)
Q Consensus 43 ~gkw~A~I~~~~~~k~~~LG~f~--t~eeAA~AYd~aa~~~ 81 (118)
.+.|+.++...|+..++.+|.|+ +.++|..........+
T Consensus 9 ~~~~~~~~~~~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~ 49 (357)
T cd00801 9 SKSWRFRYRLAGKRKRLTLGSYPAVSLAEAREKADEARALL 49 (357)
T ss_pred CEEEEEEeccCCceeEEeCcCCCCCCHHHHHHHHHHHHHHH
Confidence 35699999998888889999995 6777777766654444
No 7
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=71.48 E-value=14 Score=23.94 Aligned_cols=42 Identities=21% Similarity=0.172 Sum_probs=28.9
Q ss_pred EcCC--CcEEEEEecCCCCeeeeccCCCC--HHHHHHHHHHHHHhh
Q 041516 40 MRKW--GKWVAEIREPNKRSRIWLGSYTT--PIAAARAYDTAVFYL 81 (118)
Q Consensus 40 ~~~~--gkw~A~I~~~~~~k~~~LG~f~t--~eeAA~AYd~aa~~~ 81 (118)
..++ ..|..+...+++.+++.||.|.+ +.+|..........+
T Consensus 29 v~~~G~kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 29 VTPSGSKTFYFRYRINGKRRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp E-TTS-EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred EEeCCCeEEEEEEEecceEEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 3454 46999999988889999999974 556655555444444
No 8
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=69.55 E-value=6.8 Score=23.68 Aligned_cols=28 Identities=14% Similarity=0.196 Sum_probs=20.3
Q ss_pred ecCCCCeeeeccCCCCHHHHHHHHHHHH
Q 041516 51 REPNKRSRIWLGSYTTPIAAARAYDTAV 78 (118)
Q Consensus 51 ~~~~~~k~~~LG~f~t~eeAA~AYd~aa 78 (118)
...+...++.+|.|+|.++|..+.....
T Consensus 38 ~~~~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 38 SKGGPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp EEETTCEEEEECCECTCCHHHHHHHHHH
T ss_pred ecCCceEEEEECCCCCHHHHHHHHHHHh
Confidence 3333446788899999999888877665
No 9
>PF08471 Ribonuc_red_2_N: Class II vitamin B12-dependent ribonucleotide reductase; InterPro: IPR013678 This domain is found to the N terminus of the ribonucleotide reductase barrel domain (IPR000788 from INTERPRO). It occurs in bacterial class II ribonucleotide reductase proteins which depend upon coenzyme B12 (deoxyadenosylcobalamine) []. ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0050897 cobalt ion binding, 0055114 oxidation-reduction process
Probab=64.39 E-value=8.1 Score=26.44 Aligned_cols=21 Identities=29% Similarity=0.392 Sum_probs=18.8
Q ss_pred ccCCCCHHHHHHHHHHHHHhh
Q 041516 61 LGSYTTPIAAARAYDTAVFYL 81 (118)
Q Consensus 61 LG~f~t~eeAA~AYd~aa~~~ 81 (118)
-|+|+|+|+|..-||..+..|
T Consensus 70 ~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 70 GGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCCcCCHHHHHHHHHHHHHHH
Confidence 599999999999999988765
No 10
>PRK09692 integrase; Provisional
Probab=60.50 E-value=31 Score=28.03 Aligned_cols=39 Identities=18% Similarity=0.289 Sum_probs=25.5
Q ss_pred eEEcCCC--cEEEEEec--CCCCeeeeccCCC--CHHHHHHHHHH
Q 041516 38 IRMRKWG--KWVAEIRE--PNKRSRIWLGSYT--TPIAAARAYDT 76 (118)
Q Consensus 38 V~~~~~g--kw~A~I~~--~~~~k~~~LG~f~--t~eeAA~AYd~ 76 (118)
|...++| .|+.+.+. +++.+++.||.|. |..+|......
T Consensus 33 l~v~~~G~k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~~a~~ 77 (413)
T PRK09692 33 LLIKSSGSKIWQFRYYRPLTKTRAKKSFGPYPSVTLADARNYRAE 77 (413)
T ss_pred EEEECCCcEEEEEEEecCCCCceeeeeCCCCCCCCHHHHHHHHHH
Confidence 3444544 59888764 3455668999999 67777665444
No 11
>PF08846 DUF1816: Domain of unknown function (DUF1816); InterPro: IPR014945 Q4C9H3 from SWISSPROT is associated with the IPR008213 from INTERPRO domain suggesting this protein could have a role in phycobilisomes.
Probab=58.86 E-value=23 Score=22.81 Aligned_cols=37 Identities=22% Similarity=0.347 Sum_probs=26.8
Q ss_pred cEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhh
Q 041516 45 KWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYL 81 (118)
Q Consensus 45 kw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~ 81 (118)
.|=++|.-..-.-.+|.|-|.|.+||..+..-...-|
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~~gyieDL 45 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAALPGYIEDL 45 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHhccHHHHH
Confidence 4557777654557789999999999998854444333
No 12
>PHA02601 int integrase; Provisional
Probab=58.64 E-value=21 Score=27.87 Aligned_cols=43 Identities=26% Similarity=0.276 Sum_probs=27.6
Q ss_pred eeEEcCCCcEEEEEecCC-CCeeeeccCCCCHHHHHHHHHHHHHh
Q 041516 37 GIRMRKWGKWVAEIREPN-KRSRIWLGSYTTPIAAARAYDTAVFY 80 (118)
Q Consensus 37 GV~~~~~gkw~A~I~~~~-~~k~~~LG~f~t~eeAA~AYd~aa~~ 80 (118)
+|+..++|+|++++...+ .++++. .+|.|..||....+.....
T Consensus 2 ~~~~~~~g~w~~~~~~~~~~g~r~~-~~f~tk~eA~~~~~~~~~~ 45 (333)
T PHA02601 2 AVRKLKDGKWLCEIYPNGRDGKRIR-KRFATKGEALAFENYTMAE 45 (333)
T ss_pred ceEEcCCCCEEEEEEECCCCCchhh-hhhcCHHHHHHHHHHHHHh
Confidence 455566789999998632 233343 3699999987665554433
No 13
>PRK10927 essential cell division protein FtsN; Provisional
Probab=50.35 E-value=26 Score=28.93 Aligned_cols=35 Identities=14% Similarity=0.174 Sum_probs=28.4
Q ss_pred EEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHh
Q 041516 46 WVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFY 80 (118)
Q Consensus 46 w~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~ 80 (118)
|.|+|..++.-.|+.||-|.+.++|-++.+.+...
T Consensus 273 ~~A~I~~~g~~~RVrVGPf~sr~eAe~a~~rLk~a 307 (319)
T PRK10927 273 FDSKITTNNGWNRVVIGPVKGKENADSTLNRLKMA 307 (319)
T ss_pred CeeEEccCCcEEEEEeCCCCCHHHHHHHHHHHHHC
Confidence 77888765556899999999999999998876554
No 14
>PF10729 CedA: Cell division activator CedA; InterPro: IPR019666 CedA is made up of four antiparallel beta-strands and an alpha-helix. It activates cell division by inhibiting chromosome over-replication. This is mediated by binding to dsDNA via the beta-sheet [, ]. ; GO: 0003677 DNA binding, 0051301 cell division; PDB: 2BN8_A 2D35_A.
Probab=48.44 E-value=38 Score=22.17 Aligned_cols=39 Identities=18% Similarity=0.207 Sum_probs=25.7
Q ss_pred CCCeeeeEEcCCCcEEEEEecCCCCeeeeccCCCCHHHHHHH
Q 041516 32 EKPYKGIRMRKWGKWVAEIREPNKRSRIWLGSYTTPIAAARA 73 (118)
Q Consensus 32 ~S~yrGV~~~~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~A 73 (118)
--+|+-|. .-.|||+|.+.. ...-..--.|..+|.|-+=
T Consensus 30 ~dgfrdvw-~lrgkyvafvl~--ge~f~rsp~fs~pesaqrw 68 (80)
T PF10729_consen 30 MDGFRDVW-QLRGKYVAFVLM--GEHFRRSPAFSVPESAQRW 68 (80)
T ss_dssp TTTECCEC-CCCCEEEEEEES--SS-EEE---BSSHHHHHHH
T ss_pred ccccccee-eeccceEEEEEe--cchhccCCCcCCcHHHHHH
Confidence 45677775 345999999998 4444556789999888764
No 15
>PRK12757 cell division protein FtsN; Provisional
Probab=39.95 E-value=48 Score=26.53 Aligned_cols=34 Identities=21% Similarity=0.220 Sum_probs=26.3
Q ss_pred EEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHH
Q 041516 46 WVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVF 79 (118)
Q Consensus 46 w~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~ 79 (118)
+.++|...+.-.|+.||-|.|.++|..+-++...
T Consensus 210 ~~a~I~~~gg~yRVrVGPf~sr~~A~~~~~rLk~ 243 (256)
T PRK12757 210 IESRITTGGGWNRVVLGPYNSKAAADKMLQRLKG 243 (256)
T ss_pred CceEEeecCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 5567766555578999999999999988777664
No 16
>COG3087 FtsN Cell division protein [Cell division and chromosome partitioning]
Probab=39.41 E-value=45 Score=26.86 Aligned_cols=32 Identities=16% Similarity=0.247 Sum_probs=25.6
Q ss_pred EEEEEe--cCCCCeeeeccCCCCHHHHHHHHHHH
Q 041516 46 WVAEIR--EPNKRSRIWLGSYTTPIAAARAYDTA 77 (118)
Q Consensus 46 w~A~I~--~~~~~k~~~LG~f~t~eeAA~AYd~a 77 (118)
..++|. -++...|+.||.|++.++|..+-+++
T Consensus 216 ~sskI~~~~~~~wyRV~vGP~n~~~~a~~aq~rL 249 (264)
T COG3087 216 ISSKITGVTNGGWYRVRVGPFNSKADAVKAQKRL 249 (264)
T ss_pred ccceeEeecCCceEEEEecCCCcHHHHHHHHHHH
Confidence 677787 54445889999999999999986654
No 17
>PRK10113 cell division modulator; Provisional
Probab=35.12 E-value=38 Score=22.15 Aligned_cols=39 Identities=23% Similarity=0.311 Sum_probs=27.1
Q ss_pred CCeeeeEEcCCCcEEEEEecCCCCeeeeccCCCCHHHHHHHH
Q 041516 33 KPYKGIRMRKWGKWVAEIREPNKRSRIWLGSYTTPIAAARAY 74 (118)
Q Consensus 33 S~yrGV~~~~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AY 74 (118)
-+|+-|.. -.|||+|.+.... .-..--.|..+|.|-+=-
T Consensus 31 d~frDVW~-LrGKYVAFvl~ge--~FrRSPaFs~PEsAQRWA 69 (80)
T PRK10113 31 DSFRDVWM-LRGKYVAFVLMGE--SFLRSPAFSVPESAQRWA 69 (80)
T ss_pred cchhhhhe-eccceEEEEEech--hhccCCccCCcHHHHHHH
Confidence 45777653 3499999999843 334457899998887643
No 18
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=33.04 E-value=25 Score=24.60 Aligned_cols=16 Identities=19% Similarity=0.578 Sum_probs=12.7
Q ss_pred eeeccCCCCHHHHHHH
Q 041516 58 RIWLGSYTTPIAAARA 73 (118)
Q Consensus 58 ~~~LG~f~t~eeAA~A 73 (118)
-+|||.|.|.++=-.=
T Consensus 3 siWiG~f~s~~el~~Y 18 (122)
T PF14112_consen 3 SIWIGNFKSEDELEEY 18 (122)
T ss_pred EEEEecCCCHHHHHHH
Confidence 5899999998876554
No 19
>PF07384 DUF1497: Protein of unknown function (DUF1497); InterPro: IPR009972 This entry is represented by Bacteriophage r1t, Orf17. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage and bacterial proteins of around 59 residues in length. Members of this family seem to be found exclusively in Lactococcus lactis and the bacteriophages that infect this organism. The function of this family is unknown.
Probab=31.23 E-value=38 Score=20.82 Aligned_cols=30 Identities=23% Similarity=0.279 Sum_probs=22.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhhcCCCCCCCC
Q 041516 61 LGSYTTPIAAARAYDTAVFYLRGPSARLNF 90 (118)
Q Consensus 61 LG~f~t~eeAA~AYd~aa~~~~G~~a~~Nf 90 (118)
+|+||+..||.+.-..|...+-.+...-.|
T Consensus 1 mgyyd~~nearrisklas~~isseq~~kef 30 (59)
T PF07384_consen 1 MGYYDKRNEARRISKLASQNISSEQNRKEF 30 (59)
T ss_pred CCcccchhHHHHHHHHHhcccchhhhhhhh
Confidence 589999999999887777666554444444
No 20
>TIGR01164 rplP_bact ribosomal protein L16, bacterial/organelle. This model describes bacterial and organellar ribosomal protein L16. The homologous protein of the eukaryotic cytosol is designated L10
Probab=27.25 E-value=1.4e+02 Score=21.05 Aligned_cols=34 Identities=21% Similarity=0.257 Sum_probs=27.2
Q ss_pred cEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhh
Q 041516 45 KWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYL 81 (118)
Q Consensus 45 kw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~ 81 (118)
.|+|+|.. ...-+-++. .+++.|..|...++.+|
T Consensus 91 ~~varV~~--G~ilfEi~~-~~~~~a~~al~~a~~KL 124 (126)
T TIGR01164 91 YWVAVVKP--GKILFEIAG-VPEEVAREAFRLAASKL 124 (126)
T ss_pred EEEEEECC--CCEEEEEeC-CCHHHHHHHHHHHHhcC
Confidence 49999998 454466666 89999999999888765
No 21
>PRK10905 cell division protein DamX; Validated
Probab=26.66 E-value=1.3e+02 Score=25.09 Aligned_cols=20 Identities=30% Similarity=0.292 Sum_probs=16.7
Q ss_pred eeeeccCCCCHHHHHHHHHH
Q 041516 57 SRIWLGSYTTPIAAARAYDT 76 (118)
Q Consensus 57 k~~~LG~f~t~eeAA~AYd~ 76 (118)
..+..|.|.|.+||.+|-..
T Consensus 286 YVV~yG~YaSraeAk~Aiak 305 (328)
T PRK10905 286 YVLVSGVYASKEEAKRAVST 305 (328)
T ss_pred EEEEecCCCCHHHHHHHHHH
Confidence 34678999999999998665
No 22
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=26.03 E-value=1.3e+02 Score=21.51 Aligned_cols=36 Identities=22% Similarity=0.170 Sum_probs=28.4
Q ss_pred cEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhhcC
Q 041516 45 KWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYLRG 83 (118)
Q Consensus 45 kw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~~G 83 (118)
-|+|+|.. ...-+-++. .+++.|..|...|+.+|=+
T Consensus 92 ~~varVk~--G~iifEi~~-~~~~~a~~al~~a~~KLP~ 127 (138)
T PRK09203 92 YWVAVVKP--GRILFEIAG-VSEELAREALRLAAAKLPI 127 (138)
T ss_pred EEEEEECC--CCEEEEEeC-CCHHHHHHHHHHHhccCCC
Confidence 49999998 554466666 8999999999999887743
No 23
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=26.03 E-value=54 Score=24.03 Aligned_cols=31 Identities=32% Similarity=0.278 Sum_probs=22.0
Q ss_pred CcEEEEEecCCCCeeeeccCCCCHHHHHHHH
Q 041516 44 GKWVAEIREPNKRSRIWLGSYTTPIAAARAY 74 (118)
Q Consensus 44 gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AY 74 (118)
.++.+++.....=.-+++|.|.|+||++++-
T Consensus 29 akvia~~l~d~GfeVi~~g~~~tp~e~v~aA 59 (143)
T COG2185 29 AKVIARALADAGFEVINLGLFQTPEEAVRAA 59 (143)
T ss_pred hHHHHHHHHhCCceEEecCCcCCHHHHHHHH
Confidence 3455555544344668999999999999873
No 24
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=25.56 E-value=1.6e+02 Score=17.66 Aligned_cols=39 Identities=15% Similarity=0.129 Sum_probs=26.4
Q ss_pred eEEcCCCcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHh
Q 041516 38 IRMRKWGKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFY 80 (118)
Q Consensus 38 V~~~~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~ 80 (118)
|..+..+.|....-. .. .-..+|+|-+||..+=...+..
T Consensus 3 V~p~~~~~W~v~~eg--~~--ra~~~~~Tk~eAi~~Ar~~a~~ 41 (62)
T PF09954_consen 3 VVPREDGGWAVKKEG--AK--RASKTFDTKAEAIEAARELAKN 41 (62)
T ss_pred EEecCCCCceEEeCC--Cc--ccccccCcHHHHHHHHHHHHHh
Confidence 444445779887665 33 3479999999998876555544
No 25
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=25.44 E-value=1.9e+02 Score=18.52 Aligned_cols=46 Identities=17% Similarity=0.178 Sum_probs=33.4
Q ss_pred CCeeeeEEc-CCCcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhh
Q 041516 33 KPYKGIRMR-KWGKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYL 81 (118)
Q Consensus 33 S~yrGV~~~-~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~ 81 (118)
..|.||.++ ..-+-...|.. .++-+..|. .+.+++..|.+.....+
T Consensus 36 e~fpgl~~r~~~p~~t~~IF~--sGki~itGa-ks~~~~~~a~~~i~~~L 82 (86)
T PF00352_consen 36 ERFPGLIYRLRNPKATVLIFS--SGKIVITGA-KSEEEAKKAIEKILPIL 82 (86)
T ss_dssp TTESSEEEEETTTTEEEEEET--TSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred ccCCeEEEeecCCcEEEEEEc--CCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 368898766 34567788888 445466665 78999999998876655
No 26
>PLN00062 TATA-box-binding protein; Provisional
Probab=25.36 E-value=2.9e+02 Score=20.64 Aligned_cols=46 Identities=17% Similarity=0.116 Sum_probs=33.7
Q ss_pred CCeeeeEEc-CCCcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhh
Q 041516 33 KPYKGIRMR-KWGKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYL 81 (118)
Q Consensus 33 S~yrGV~~~-~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~ 81 (118)
..|-||.++ ..-+=.+-|+.+| +-+-.|. .|.|+|..|.+..+..+
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF~SG--KiviTGa-ks~e~a~~a~~~~~~~L 80 (179)
T PLN00062 34 KRFAAVIMRIREPKTTALIFASG--KMVCTGA-KSEHDSKLAARKYARII 80 (179)
T ss_pred ccCcEEEEEeCCCcEEEEEECCC--eEEEEec-CCHHHHHHHHHHHHHHH
Confidence 468998766 3556678888844 4455554 78899999998887776
No 27
>PF13773 DUF4170: Domain of unknown function (DUF4170)
Probab=24.05 E-value=83 Score=20.39 Aligned_cols=23 Identities=13% Similarity=0.057 Sum_probs=19.9
Q ss_pred eeccCCCCHHHHHHHHHHHHHhh
Q 041516 59 IWLGSYTTPIAAARAYDTAVFYL 81 (118)
Q Consensus 59 ~~LG~f~t~eeAA~AYd~aa~~~ 81 (118)
-.+|-|.+-++|..|+...+..-
T Consensus 27 diVG~fp~y~~A~~aWrakAq~T 49 (69)
T PF13773_consen 27 DIVGIFPDYASAYAAWRAKAQRT 49 (69)
T ss_pred eEEecCCChHHHHHHHHHHHhCc
Confidence 46899999999999999887764
No 28
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=24.05 E-value=43 Score=19.15 Aligned_cols=18 Identities=28% Similarity=0.569 Sum_probs=13.5
Q ss_pred CCCCCHHHHHHHHHHhhc
Q 041516 100 LRDVSAASIRKKATEVGA 117 (118)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~ 117 (118)
+..++..+++..|+++|.
T Consensus 2 L~~~~~~eL~~iAk~lgI 19 (43)
T PF07498_consen 2 LKSMTLSELREIAKELGI 19 (43)
T ss_dssp HHCS-HHHHHHHHHCTT-
T ss_pred cccCCHHHHHHHHHHcCC
Confidence 457889999999999885
No 29
>TIGR02223 ftsN cell division protein FtsN. FtsN is a poorly conserved protein active in cell division in a number of Proteobacteria. The N-terminal 30 residue region tends to by Lys/Arg-rich, and is followed by a membrane-spanning region. This is followed by an acidic low-complexity region of variable length and a well-conserved C-terminal domain of two tandem regions matched by Pfam model pfam05036 (Sporulation related repeat), found in several cell division and sporulation proteins. The role of FtsN as a suppressor for other cell division mutations is poorly understood; it may involve cell wall hydrolysis.
Probab=23.17 E-value=1.3e+02 Score=24.44 Aligned_cols=34 Identities=15% Similarity=0.188 Sum_probs=25.2
Q ss_pred EEEEEecCCC--CeeeeccCCCCHHHHHHHHHHHHH
Q 041516 46 WVAEIREPNK--RSRIWLGSYTTPIAAARAYDTAVF 79 (118)
Q Consensus 46 w~A~I~~~~~--~k~~~LG~f~t~eeAA~AYd~aa~ 79 (118)
+.++|...+. -.|+.||-|.+.++|..+-+....
T Consensus 253 ~~~~i~~~~g~~~yRV~vGPf~sr~~A~~~~~~Lk~ 288 (298)
T TIGR02223 253 ISSKITTTDGGKWYRVVSGPYKNKDDAEKDLNKLKV 288 (298)
T ss_pred CceEEEecCCceEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 4555554444 478999999999999998777654
No 30
>COG3564 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.69 E-value=56 Score=22.83 Aligned_cols=17 Identities=35% Similarity=0.864 Sum_probs=14.3
Q ss_pred CCCCCCCCCCCCCCCCC
Q 041516 2 EGGGCCSTSTSTKSPEK 18 (118)
Q Consensus 2 ~~g~~~~~~~~~~~~~~ 18 (118)
++|+||..|+|.+=|..
T Consensus 31 QSGGCCDGSsPMCYP~~ 47 (116)
T COG3564 31 QSGGCCDGSSPMCYPRA 47 (116)
T ss_pred ccCCccCCCCCcccccc
Confidence 57999999999997754
No 31
>PRK11633 cell division protein DedD; Provisional
Probab=22.03 E-value=1.7e+02 Score=22.83 Aligned_cols=24 Identities=13% Similarity=0.116 Sum_probs=17.2
Q ss_pred CeeeeccCCCCHHHHHHHHHHHHH
Q 041516 56 RSRIWLGSYTTPIAAARAYDTAVF 79 (118)
Q Consensus 56 ~k~~~LG~f~t~eeAA~AYd~aa~ 79 (118)
..|+++|-|.+.++|-++..+...
T Consensus 189 ~tRV~VGP~~sk~~ae~~~~~Lk~ 212 (226)
T PRK11633 189 ITRIYVGPDASKDKLKGSLGELKQ 212 (226)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHH
Confidence 467778888888887777666544
No 32
>PF00626 Gelsolin: Gelsolin repeat; InterPro: IPR007123 Gelsolin is a cytoplasmic, calcium-regulated, actin-modulating protein that binds to the barbed ends of actin filaments, preventing monomer exchange (end-blocking or capping) []. It can promote nucleation (the assembly of monomers into filaments), as well as sever existing filaments. In addition, this protein binds with high affinity to fibronectin. Plasma gelsolin and cytoplasmic gelsolin are derived from a single gene by alternate initiation sites and differential splicing. Sequence comparisons indicate an evolutionary relationship between gelsolin, villin, fragmin and severin []. Six large repeating segments occur in gelsolin and villin, and 3 similar segments in severin and fragmin. While the multiple repeats have yet to be related to any known function of the actin-severing proteins, the superfamily appears to have evolved from an ancestral sequence of 120 to 130 amino acid residues [].; PDB: 3FG6_F 1RGI_G 2FGH_A 1D0N_B 3EGD_B 2NUP_B 2NUT_B 3EGX_B 1JHW_A 1J72_A ....
Probab=21.18 E-value=1.4e+02 Score=17.89 Aligned_cols=35 Identities=23% Similarity=0.204 Sum_probs=28.8
Q ss_pred EEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhh
Q 041516 47 VAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYL 81 (118)
Q Consensus 47 ~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~ 81 (118)
.+.|.+.+..-.+|+|.-.+..+-..+.+.+....
T Consensus 19 ~~yIld~~~~i~vW~G~~~~~~e~~~a~~~a~~~~ 53 (76)
T PF00626_consen 19 DCYILDCGYEIFVWVGKKSSPEEKAFAAQLAQELL 53 (76)
T ss_dssp SEEEEEESSEEEEEEHTTSHHHHHHHHHHHHHHHH
T ss_pred CEEEEEeCCCcEEEEeccCCHHHHHHHHHHHHHhh
Confidence 36677766778899999999999999988877666
No 33
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=20.98 E-value=3.5e+02 Score=19.98 Aligned_cols=45 Identities=22% Similarity=0.178 Sum_probs=33.8
Q ss_pred CeeeeEEc-CCCcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhh
Q 041516 34 PYKGIRMR-KWGKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYL 81 (118)
Q Consensus 34 ~yrGV~~~-~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~ 81 (118)
+|.||.++ ..-+-.+-|+.+| +-+-.| ..|.|+|..|.+..+..+
T Consensus 35 ~fpgli~R~~~Pk~t~lIF~sG--KiviTG-aks~~~~~~a~~~~~~~l 80 (174)
T cd04517 35 RYPKVTMRLREPRATASVWSSG--KITITG-ATSEEEAKQAARRAARLL 80 (174)
T ss_pred CCCEEEEEecCCcEEEEEECCC--eEEEEc-cCCHHHHHHHHHHHHHHH
Confidence 79999776 3567788888844 335455 478999999998887766
No 34
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=20.98 E-value=3.6e+02 Score=20.02 Aligned_cols=46 Identities=17% Similarity=0.071 Sum_probs=34.2
Q ss_pred CCeeeeEEcC-CCcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhh
Q 041516 33 KPYKGIRMRK-WGKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYL 81 (118)
Q Consensus 33 S~yrGV~~~~-~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~ 81 (118)
.+|-||.++. .-+-.+-|+.+| |-+-.|. .|.|+|..|.+..+..+
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF~SG--KiviTGa-ks~e~a~~a~~~i~~~L 80 (174)
T cd04516 34 KRFAAVIMRIREPKTTALIFSSG--KMVCTGA-KSEDDSKLAARKYARII 80 (174)
T ss_pred ccCcEEEEEeCCCcEEEEEECCC--eEEEEec-CCHHHHHHHHHHHHHHH
Confidence 5688987663 456778888844 4466676 57899999998887776
No 35
>KOG3461 consensus CDGSH-type Zn-finger containing protein [General function prediction only]
Probab=20.71 E-value=16 Score=26.35 Aligned_cols=48 Identities=19% Similarity=0.080 Sum_probs=36.7
Q ss_pred CHHHHHHHHHHHHHhhcCCCCCCCCCCccCCCCCCCCCCHHHHHHHHH
Q 041516 66 TPIAAARAYDTAVFYLRGPSARLNFPELIFQEDDLRDVSAASIRKKAT 113 (118)
Q Consensus 66 t~eeAA~AYd~aa~~~~G~~a~~Nfp~~~~~~~~~~~~~~~~~~~~~~ 113 (118)
+.-.|-+||.+...+.+-..+..|+.....+..+.-..+-+||.++++
T Consensus 47 ta~~~y~ay~r~~~k~~~n~a~iN~hIqkd~pKIVd~~d~eDl~~ka~ 94 (132)
T KOG3461|consen 47 TAATAYLAYKRFYVKDHQNKARINLHIQKDNPKIVDAFDMEDLGDKAA 94 (132)
T ss_pred hhhhhhhhheeeeeeecccCccccceeecCCCceeEEEehhhhcccce
Confidence 556777888877777787888999987777777777778888877654
No 36
>PF12286 DUF3622: Protein of unknown function (DUF3622); InterPro: IPR022069 This family of proteins is found in bacteria. Proteins in this family are typically between 72 and 107 amino acids in length. There is a conserved VSK sequence motif.
Probab=20.48 E-value=1.6e+02 Score=19.11 Aligned_cols=30 Identities=20% Similarity=0.328 Sum_probs=18.0
Q ss_pred CCCcEEEEEecCCCCeee----eccCCCCHHHHH
Q 041516 42 KWGKWVAEIREPNKRSRI----WLGSYTTPIAAA 71 (118)
Q Consensus 42 ~~gkw~A~I~~~~~~k~~----~LG~f~t~eeAA 71 (118)
..+-|.|+|..--..++. .---|+|++||.
T Consensus 14 ~~~~W~aEItR~vTsrkTvVSK~~~GF~SEaeAq 47 (71)
T PF12286_consen 14 KRNGWTAEITRRVTSRKTVVSKRQDGFASEAEAQ 47 (71)
T ss_pred cCCceeeeeeeeecCceeEEEecccCcccHHHHH
Confidence 356699999853222211 124589988864
No 37
>PF05610 DUF779: Protein of unknown function (DUF779); InterPro: IPR008497 This family consists of several bacterial proteins of unknown function.
Probab=20.19 E-value=53 Score=22.57 Aligned_cols=17 Identities=35% Similarity=0.825 Sum_probs=13.7
Q ss_pred CCCCCCCCCCCCCCCCC
Q 041516 2 EGGGCCSTSTSTKSPEK 18 (118)
Q Consensus 2 ~~g~~~~~~~~~~~~~~ 18 (118)
++||||..|+|.+=+..
T Consensus 17 QSGGCCDGSaPmC~p~g 33 (95)
T PF05610_consen 17 QSGGCCDGSAPMCYPAG 33 (95)
T ss_pred eCCCCCCCCcceeEeCC
Confidence 57999999998886654
Done!