Query psy12139
Match_columns 65
No_of_seqs 106 out of 238
Neff 3.7
Searched_HMMs 46136
Date Fri Aug 16 19:41:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12139.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12139hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00517 PolyA C-terminal do 99.5 8.9E-15 1.9E-19 89.0 4.2 34 1-34 31-64 (64)
2 TIGR01628 PABP-1234 polyadenyl 99.3 1.5E-12 3.3E-17 98.4 3.3 32 1-32 531-562 (562)
3 PF00658 PABP: Poly-adenylate 99.2 1.8E-11 3.8E-16 75.1 3.3 31 1-31 42-72 (72)
4 PF10635 DisA-linker: DisA bac 58.9 13 0.00029 25.4 3.0 23 14-36 1-23 (145)
5 PF08410 DUF1737: Domain of un 51.1 17 0.00036 21.4 2.2 15 15-29 12-26 (54)
6 KOG0943|consensus 40.9 21 0.00046 33.7 2.2 37 1-37 2633-2671(3015)
7 PRK13482 DNA integrity scannin 38.5 39 0.00084 26.3 3.1 26 11-36 134-159 (352)
8 KOG3960|consensus 37.4 24 0.00052 27.1 1.8 13 22-34 131-143 (284)
9 PF12854 PPR_1: PPR repeat 37.3 23 0.00049 17.8 1.2 13 21-33 20-32 (34)
10 PF01350 Flavi_NS4A: Flaviviru 33.3 64 0.0014 22.4 3.2 22 16-37 9-30 (144)
11 PRK02615 thiamine-phosphate py 31.5 40 0.00087 25.8 2.2 16 22-37 93-108 (347)
12 PF09016 Pas_Saposin: Pas fact 31.0 64 0.0014 20.4 2.7 20 14-33 54-73 (76)
13 PF11897 DUF3417: Protein of u 30.1 1.1E+02 0.0024 20.0 3.8 36 2-38 55-90 (118)
14 KOG0723|consensus 28.7 51 0.0011 22.2 2.1 15 20-34 94-108 (112)
15 PF06506 PrpR_N: Propionate ca 27.5 70 0.0015 21.2 2.6 23 14-36 149-172 (176)
16 PF07200 Mod_r: Modifier of ru 27.1 26 0.00057 22.6 0.5 22 4-25 3-24 (150)
17 PRK06233 hypothetical protein; 26.6 51 0.0011 24.9 2.0 19 13-31 311-329 (372)
18 PF14246 TetR_C_7: AefR-like t 26.3 95 0.0021 16.4 2.6 17 16-32 36-52 (55)
19 KOG4797|consensus 25.9 42 0.00091 22.9 1.3 15 20-34 46-60 (123)
20 PHA02781 hypothetical protein; 25.7 27 0.00059 21.9 0.3 7 25-31 52-58 (78)
21 PF13524 Glyco_trans_1_2: Glyc 25.4 1.4E+02 0.003 16.9 4.2 25 9-33 55-79 (92)
22 COG1623 Predicted nucleic-acid 24.0 78 0.0017 25.0 2.6 24 12-35 141-164 (349)
23 PRK09121 5-methyltetrahydropte 23.7 64 0.0014 24.1 2.0 19 13-31 281-299 (339)
24 PF00114 Pilin: Pilin (bacteri 22.9 73 0.0016 18.9 1.9 15 21-35 2-16 (108)
25 PTZ00096 40S ribosomal protein 22.5 1.1E+02 0.0024 21.2 2.9 27 2-28 25-64 (143)
26 PF07796 DUF1638: Protein of u 21.8 1.1E+02 0.0023 20.3 2.6 18 15-32 9-26 (166)
27 PF03532 OMS28_porin: OMS28 po 21.3 1.1E+02 0.0024 22.8 2.8 23 12-34 188-210 (253)
28 PF04993 TfoX_N: TfoX N-termin 21.2 1.6E+02 0.0035 17.6 3.2 21 12-32 76-96 (97)
29 PF08418 Pol_alpha_B_N: DNA po 21.2 1E+02 0.0022 21.5 2.5 27 12-38 215-241 (253)
30 cd04928 ACT_TyrKc Uncharacteri 21.0 65 0.0014 19.2 1.4 14 15-28 54-67 (68)
31 COG3082 Uncharacterized protei 20.9 1.4E+02 0.003 18.8 2.8 21 16-36 8-28 (74)
32 PF07862 Nif11: Nitrogen fixat 20.8 88 0.0019 16.7 1.8 20 8-27 7-26 (49)
33 PRK06520 5-methyltetrahydropte 20.1 81 0.0018 23.8 2.0 19 13-31 308-326 (368)
No 1
>smart00517 PolyA C-terminal domain of Poly(A)-binding protein. Present also in Drosophila hyperplastics discs protein. Involved in homodimerisation (either directly or indirectly)
Probab=99.53 E-value=8.9e-15 Score=88.97 Aligned_cols=34 Identities=47% Similarity=0.705 Sum_probs=33.0
Q ss_pred CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHh
Q psy12139 1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNL 34 (65)
Q Consensus 1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~ 34 (65)
|||||||+|||+||+|+++|++||+||++||++|
T Consensus 31 MLLEmd~~ell~lle~~~~L~~kv~EA~~vl~~~ 64 (64)
T smart00517 31 MLLEMDNSELLHLLESPELLRSKVDEALEVLKSH 64 (64)
T ss_pred eeeCCCHHHHHHHhcCHHHHHHHHHHHHHHHHhC
Confidence 9999999999999999999999999999999875
No 2
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.29 E-value=1.5e-12 Score=98.40 Aligned_cols=32 Identities=47% Similarity=0.738 Sum_probs=31.2
Q ss_pred CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHH
Q psy12139 1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVM 32 (65)
Q Consensus 1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~ 32 (65)
|||||||+||||||+|+++|++||+||++||+
T Consensus 531 m~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 562 (562)
T TIGR01628 531 MLLEMDNSELLHLLESPELLKSKVDEALEVLK 562 (562)
T ss_pred EEecCCHHHHHHHhcCHHHHHHHHHHHHHHhC
Confidence 99999999999999999999999999999985
No 3
>PF00658 PABP: Poly-adenylate binding protein, unique domain; InterPro: IPR002004 The polyadenylate-binding protein (PABP) has a conserved C-terminal domain (PABC), which is also found in the hyperplastic discs protein (HYD) family of ubiquitin ligases that contain HECT domains (IPR000569 from INTERPRO) []. PABP recognises the 3' mRNA poly(A) tail and plays an essential role in eukaryotic translation initiation and mRNA stabilisation/degradation. PABC domains of PABP are peptide-binding domains that mediate PABP homo-oligomerisation and protein-protein interactions. In mammals, the PABC domain of PABP functions to recruit several different translation factors to the mRNA poly(A) tail [].; GO: 0003723 RNA binding; PDB: 3KUR_E 1JH4_A 2RQH_B 3KUI_A 3KUS_A 3KUJ_A 3KTR_A 2X04_A 3PTH_A 1JGN_A ....
Probab=99.18 E-value=1.8e-11 Score=75.11 Aligned_cols=31 Identities=48% Similarity=0.783 Sum_probs=30.4
Q ss_pred CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHH
Q psy12139 1 MLLELSPAQLLMLLASDEALRQKVEEAMDIV 31 (65)
Q Consensus 1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL 31 (65)
||||||++||++||+|++.|++||+||++||
T Consensus 42 MLLe~~~~ell~ll~~~~~L~~kv~eA~~vL 72 (72)
T PF00658_consen 42 MLLEMDNSELLHLLEDPELLREKVQEAIEVL 72 (72)
T ss_dssp HHTTSCHHHHHHHHHTHHHHHHHHHHHHHHH
T ss_pred HHhcCCHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence 8999999999999999999999999999997
No 4
>PF10635 DisA-linker: DisA bacterial checkpoint controller linker region ; InterPro: IPR018906 The DisA protein is a bacterial checkpoint protein that dimerises into an octameric complex. The protein consists of three distinct domains. the first, N-terminal region, from 1-145 is globular and is represented by IPR003390 from INTERPRO; the next 146-289 residues is this domain that consists of an elongated bundle of three alpha helices (alpha-6, alpha-10, and alpha-11), one side of which carries an additional three helices (alpha7-9), thus forming a spine like-linker between domains 1 and 3. The C-terminal residues of domain 3 (IPR000445 from INTERPRO), represent the specific DNA-binding domain. The octameric complex thus has structurally linked nucleotide-binding and DNA-binding HhH domains and the nucleotide-binding domains are bound to a cyclic di-adenosine phosphate such that DisA is a specific di-adenylate cyclase. The di-adenylate cyclase activity is strongly suppressed by binding to branched DNA, but not to duplex or single-stranded DNA, suggesting a role for DisA as a monitor of the presence of stalled replication forks or recombination intermediates via DNA structure-modulated c-di-AMP synthesis []. ; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A.
Probab=58.86 E-value=13 Score=25.41 Aligned_cols=23 Identities=9% Similarity=0.186 Sum_probs=18.3
Q ss_pred hcCHHHHHHHHHHHHHHHHHhhc
Q psy12139 14 LASDEALRQKVEEAMDIVMNLSG 36 (65)
Q Consensus 14 Les~e~L~~KV~EA~~VL~~~~~ 36 (65)
|+++..+-+|+++|++.|+.|+.
T Consensus 1 L~d~~~il~raNQAl~TLErYr~ 23 (145)
T PF10635_consen 1 LEDISVILARANQALQTLERYRA 23 (145)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Confidence 57889999999999999999873
No 5
>PF08410 DUF1737: Domain of unknown function (DUF1737); InterPro: IPR013619 This domain of unknown function is found at the N terminus of bacterial and viral hypothetical proteins.
Probab=51.10 E-value=17 Score=21.41 Aligned_cols=15 Identities=33% Similarity=0.581 Sum_probs=12.8
Q ss_pred cCHHHHHHHHHHHHH
Q psy12139 15 ASDEALRQKVEEAMD 29 (65)
Q Consensus 15 es~e~L~~KV~EA~~ 29 (65)
.|+.+|..||.||++
T Consensus 12 ~d~~~fc~rVt~aL~ 26 (54)
T PF08410_consen 12 PDDSAFCHRVTEALN 26 (54)
T ss_pred CChHHHHHHHHHHHH
Confidence 368899999999985
No 6
>KOG0943|consensus
Probab=40.86 E-value=21 Score=33.66 Aligned_cols=37 Identities=32% Similarity=0.545 Sum_probs=33.2
Q ss_pred CcCCCCHHHHHHhhcCHHHHHHHHHHHH--HHHHHhhcC
Q psy12139 1 MLLELSPAQLLMLLASDEALRQKVEEAM--DIVMNLSGH 37 (65)
Q Consensus 1 MLLEmdnsElL~LLes~e~L~~KV~EA~--~VL~~~~~~ 37 (65)
||||..+..++..|.+++.|+..|++|+ +.+..|.++
T Consensus 2633 fL~dek~~g~llgi~ce~p~eafVdaa~ndd~i~~H~qe 2671 (3015)
T KOG0943|consen 2633 FLLDEKPAGLLLGIACEDPLEAFVDAAMNDDLIIAHGQE 2671 (3015)
T ss_pred hhhccchHHHHHHHhhcCcHHHHHHHhcchHHHHHHHHH
Confidence 7999999999999999999999999999 777777543
No 7
>PRK13482 DNA integrity scanning protein DisA; Provisional
Probab=38.53 E-value=39 Score=26.35 Aligned_cols=26 Identities=8% Similarity=0.160 Sum_probs=22.5
Q ss_pred HHhhcCHHHHHHHHHHHHHHHHHhhc
Q psy12139 11 LMLLASDEALRQKVEEAMDIVMNLSG 36 (65)
Q Consensus 11 L~LLes~e~L~~KV~EA~~VL~~~~~ 36 (65)
+..+.+++.|.+|+++|++.|+.|+.
T Consensus 134 ~~~~~d~~~l~~~anQal~TlekY~~ 159 (352)
T PRK13482 134 RYVLEDIGVILSRANQALQTLEKYKA 159 (352)
T ss_pred EEecCCHHHHHHHHHHHHHHHHHHHH
Confidence 34578899999999999999999873
No 8
>KOG3960|consensus
Probab=37.40 E-value=24 Score=27.09 Aligned_cols=13 Identities=31% Similarity=0.442 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHh
Q psy12139 22 QKVEEAMDIVMNL 34 (65)
Q Consensus 22 ~KV~EA~~VL~~~ 34 (65)
.||+||+++|+..
T Consensus 131 kKVNEAFE~LKRr 143 (284)
T KOG3960|consen 131 KKVNEAFETLKRR 143 (284)
T ss_pred HHHHHHHHHHHhh
Confidence 5999999999764
No 9
>PF12854 PPR_1: PPR repeat
Probab=37.31 E-value=23 Score=17.85 Aligned_cols=13 Identities=23% Similarity=0.470 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHH
Q psy12139 21 RQKVEEAMDIVMN 33 (65)
Q Consensus 21 ~~KV~EA~~VL~~ 33 (65)
..+|+||++++++
T Consensus 20 ~G~~~~A~~l~~~ 32 (34)
T PF12854_consen 20 AGRVDEAFELFDE 32 (34)
T ss_pred CCCHHHHHHHHHh
Confidence 3579999999874
No 10
>PF01350 Flavi_NS4A: Flavivirus non-structural protein NS4A; InterPro: IPR000404 Flaviviruses encode a single polyprotein. This is cleaved into three structural and seven non-structural proteins. The NS4A protein is small and poorly conserved among the Flaviviruses. NS4A contains multiple hydrophobic potential membrane spanning regions []. NS4A has only been found in cells infected by Kunjin virus [].; GO: 0016032 viral reproduction, 0016070 RNA metabolic process, 0044423 virion part
Probab=33.29 E-value=64 Score=22.38 Aligned_cols=22 Identities=27% Similarity=0.385 Sum_probs=17.9
Q ss_pred CHHHHHHHHHHHHHHHHHhhcC
Q psy12139 16 SDEALRQKVEEAMDIVMNLSGH 37 (65)
Q Consensus 16 s~e~L~~KV~EA~~VL~~~~~~ 37 (65)
=|+.|.+|..||++++--.-..
T Consensus 9 lP~~l~~r~~~A~Dt~~~l~~a 30 (144)
T PF01350_consen 9 LPEHLAERFQEALDTLYTLMTA 30 (144)
T ss_pred hhHHHHHHHHHHHHHHHhhhhC
Confidence 3899999999999999764433
No 11
>PRK02615 thiamine-phosphate pyrophosphorylase; Provisional
Probab=31.49 E-value=40 Score=25.78 Aligned_cols=16 Identities=19% Similarity=0.362 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHhhcC
Q psy12139 22 QKVEEAMDIVMNLSGH 37 (65)
Q Consensus 22 ~KV~EA~~VL~~~~~~ 37 (65)
.+|+||+.||++|.+-
T Consensus 93 ~r~qea~rvlee~~k~ 108 (347)
T PRK02615 93 ARVQEALRVLEEYGKL 108 (347)
T ss_pred HHHHHHHHHHHHHHcc
Confidence 7999999999999754
No 12
>PF09016 Pas_Saposin: Pas factor saposin fold; InterPro: IPR015106 Members of this entry adopt a compact structure comprising five alpha helices. Charged and polar residues are exposed mostly on the surface, while most of the hydrophobic residues are buried inside the hydrophobic core of the helical bundle. The precise function of this domain is unknown, but it is has been shown to induce secretion of periplasmic proteins, especially collagenase []. ; PDB: 2B8I_A.
Probab=30.98 E-value=64 Score=20.44 Aligned_cols=20 Identities=20% Similarity=0.433 Sum_probs=15.4
Q ss_pred hcCHHHHHHHHHHHHHHHHH
Q psy12139 14 LASDEALRQKVEEAMDIVMN 33 (65)
Q Consensus 14 Les~e~L~~KV~EA~~VL~~ 33 (65)
|++++.+...|+-|+++|..
T Consensus 54 Le~~~~i~~AV~~a~~lle~ 73 (76)
T PF09016_consen 54 LENSQDINNAVESAIKLLET 73 (76)
T ss_dssp --SHHHHHHHHHHHHHHH--
T ss_pred ccChhhHHHHHHHHHHHHcC
Confidence 78999999999999999863
No 13
>PF11897 DUF3417: Protein of unknown function (DUF3417); InterPro: IPR024517 This domain of unknown function is found at the N terminus of members of the glycogen phosphorylase family.
Probab=30.10 E-value=1.1e+02 Score=19.96 Aligned_cols=36 Identities=14% Similarity=0.133 Sum_probs=26.8
Q ss_pred cCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHhhcCC
Q psy12139 2 LLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHD 38 (65)
Q Consensus 2 LLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~~~~~ 38 (65)
|-+++.+.+-.+.+|+ .+.++++.+++-++.|.+..
T Consensus 55 L~~vs~~rL~~la~D~-~fl~~~~~v~~~f~~Ym~~~ 90 (118)
T PF11897_consen 55 LQEVSQERLEELAQDP-EFLARYDRVYARFEEYMSQK 90 (118)
T ss_pred HHHCCHHHHHHHhCCH-HHHHHHHHHHHHHHHHHcCC
Confidence 4456666666666555 57789999999999998774
No 14
>KOG0723|consensus
Probab=28.66 E-value=51 Score=22.23 Aligned_cols=15 Identities=33% Similarity=0.485 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHh
Q psy12139 20 LRQKVEEAMDIVMNL 34 (65)
Q Consensus 20 L~~KV~EA~~VL~~~ 34 (65)
+.+||+||-++|...
T Consensus 94 lAsKINEAKdlLe~~ 108 (112)
T KOG0723|consen 94 LASKINEAKDLLEGT 108 (112)
T ss_pred HHHHHHHHHHHHhcc
Confidence 889999999999753
No 15
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=27.48 E-value=70 Score=21.20 Aligned_cols=23 Identities=30% Similarity=0.488 Sum_probs=18.8
Q ss_pred hcC-HHHHHHHHHHHHHHHHHhhc
Q psy12139 14 LAS-DEALRQKVEEAMDIVMNLSG 36 (65)
Q Consensus 14 Les-~e~L~~KV~EA~~VL~~~~~ 36 (65)
+++ +++++.-++||+.+++....
T Consensus 149 i~sg~esi~~Al~eA~~i~~~~~~ 172 (176)
T PF06506_consen 149 IESGEESIRRALEEALRIARARRR 172 (176)
T ss_dssp SS--HHHHHHHHHHHHHHHHHHHH
T ss_pred EEecHHHHHHHHHHHHHHHHHHHH
Confidence 445 99999999999999987653
No 16
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=27.09 E-value=26 Score=22.59 Aligned_cols=22 Identities=36% Similarity=0.477 Sum_probs=17.0
Q ss_pred CCCHHHHHHhhcCHHHHHHHHH
Q psy12139 4 ELSPAQLLMLLASDEALRQKVE 25 (65)
Q Consensus 4 EmdnsElL~LLes~e~L~~KV~ 25 (65)
.|+.+||-.||+||+.+.+-|.
T Consensus 3 ~lS~~eL~~Ll~d~~~l~~~v~ 24 (150)
T PF07200_consen 3 DLSTEELQELLSDEEKLDAFVK 24 (150)
T ss_dssp S-TTHHHHHHHHH-HHHHHHGG
T ss_pred cCCHHHHHHHHcCHHHHHHHHH
Confidence 4789999999999999887655
No 17
>PRK06233 hypothetical protein; Provisional
Probab=26.58 E-value=51 Score=24.87 Aligned_cols=19 Identities=21% Similarity=0.468 Sum_probs=17.6
Q ss_pred hhcCHHHHHHHHHHHHHHH
Q psy12139 13 LLASDEALRQKVEEAMDIV 31 (65)
Q Consensus 13 LLes~e~L~~KV~EA~~VL 31 (65)
-+|++|.++.+|++|.+++
T Consensus 311 ~vE~~e~I~~rI~~a~~~v 329 (372)
T PRK06233 311 ELEDEDEIIARIDEATEYV 329 (372)
T ss_pred CCCCHHHHHHHHHHHHHhC
Confidence 4799999999999999987
No 18
>PF14246 TetR_C_7: AefR-like transcriptional repressor, C-terminal region; PDB: 3BHQ_B 3CDL_A.
Probab=26.31 E-value=95 Score=16.41 Aligned_cols=17 Identities=35% Similarity=0.577 Sum_probs=13.9
Q ss_pred CHHHHHHHHHHHHHHHH
Q psy12139 16 SDEALRQKVEEAMDIVM 32 (65)
Q Consensus 16 s~e~L~~KV~EA~~VL~ 32 (65)
|++.....|++|+++.-
T Consensus 36 s~~e~~~~v~~aV~~FL 52 (55)
T PF14246_consen 36 SAEEIERIVESAVDMFL 52 (55)
T ss_dssp -HHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHH
Confidence 46899999999998864
No 19
>KOG4797|consensus
Probab=25.92 E-value=42 Score=22.92 Aligned_cols=15 Identities=40% Similarity=0.658 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHh
Q psy12139 20 LRQKVEEAMDIVMNL 34 (65)
Q Consensus 20 L~~KV~EA~~VL~~~ 34 (65)
...||++||+..+.|
T Consensus 46 IDNKIeQAMDLVKtH 60 (123)
T KOG4797|consen 46 IDNKIEQAMDLVKTH 60 (123)
T ss_pred echHHHHHHHHHHHH
Confidence 467888888877655
No 20
>PHA02781 hypothetical protein; Provisional
Probab=25.66 E-value=27 Score=21.95 Aligned_cols=7 Identities=57% Similarity=0.681 Sum_probs=3.1
Q ss_pred HHHHHHH
Q psy12139 25 EEAMDIV 31 (65)
Q Consensus 25 ~EA~~VL 31 (65)
+||-+|-
T Consensus 52 ~eakdvk 58 (78)
T PHA02781 52 EEAKDVK 58 (78)
T ss_pred hhhhhhh
Confidence 4444443
No 21
>PF13524 Glyco_trans_1_2: Glycosyl transferases group 1
Probab=25.44 E-value=1.4e+02 Score=16.92 Aligned_cols=25 Identities=24% Similarity=0.337 Sum_probs=18.8
Q ss_pred HHHHhhcCHHHHHHHHHHHHHHHHH
Q psy12139 9 QLLMLLASDEALRQKVEEAMDIVMN 33 (65)
Q Consensus 9 ElL~LLes~e~L~~KV~EA~~VL~~ 33 (65)
-+-.+|++|+..+...+.|..-.++
T Consensus 55 ~i~~ll~~~~~~~~ia~~a~~~v~~ 79 (92)
T PF13524_consen 55 KIEYLLENPEERRRIAKNARERVLK 79 (92)
T ss_pred HHHHHHCCHHHHHHHHHHHHHHHHH
Confidence 3556789999888888888776653
No 22
>COG1623 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]
Probab=23.99 E-value=78 Score=24.97 Aligned_cols=24 Identities=8% Similarity=0.224 Sum_probs=22.1
Q ss_pred HhhcCHHHHHHHHHHHHHHHHHhh
Q psy12139 12 MLLASDEALRQKVEEAMDIVMNLS 35 (65)
Q Consensus 12 ~LLes~e~L~~KV~EA~~VL~~~~ 35 (65)
+.|.+...+-.|+++|++.|+.|+
T Consensus 141 y~L~d~~~il~ranQAi~TLEkYk 164 (349)
T COG1623 141 YVLKDSAFILSRANQAIQTLEKYK 164 (349)
T ss_pred eeecChHHHHHHHHHHHHHHHHHH
Confidence 578999999999999999999987
No 23
>PRK09121 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase; Provisional
Probab=23.73 E-value=64 Score=24.08 Aligned_cols=19 Identities=16% Similarity=0.387 Sum_probs=17.5
Q ss_pred hhcCHHHHHHHHHHHHHHH
Q psy12139 13 LLASDEALRQKVEEAMDIV 31 (65)
Q Consensus 13 LLes~e~L~~KV~EA~~VL 31 (65)
-+|++|.++.+|.+|.+++
T Consensus 281 ~lE~~e~I~~rI~~a~~~v 299 (339)
T PRK09121 281 TIETPEEVADTLRKALQFV 299 (339)
T ss_pred CCCCHHHHHHHHHHHHHhC
Confidence 3789999999999999988
No 24
>PF00114 Pilin: Pilin (bacterial filament); InterPro: IPR001082 Pilin is a subunit of the pilus, a polar flexible filament, which consists of a single polypeptide chain arranged in a helical configuration of five subunits per turn. Gram-negative bacteria produce pilin which is characterised by the presence of a very short leader peptide of 6 to 7 residues, followed by a methylated N-terminal phenylalanine residue and by a highly conserved sequence of about 24 hydrophobic residues, of the NMePhe type pilin [, ].; GO: 0007155 cell adhesion, 0009289 pilus; PDB: 3JZZ_A 3JYZ_A 1PAN_A 1PAO_A 1X6Z_A 1NIM_A 1PAK_A 1PAJ_A 1X6P_A 2PY0_A ....
Probab=22.85 E-value=73 Score=18.87 Aligned_cols=15 Identities=33% Similarity=0.536 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHhh
Q psy12139 21 RQKVEEAMDIVMNLS 35 (65)
Q Consensus 21 ~~KV~EA~~VL~~~~ 35 (65)
|+||.||+..+...+
T Consensus 2 Raqvseal~~~~~~k 16 (108)
T PF00114_consen 2 RAQVSEALALASGLK 16 (108)
T ss_dssp HHHHHHHHHHHHTCH
T ss_pred cHHHHHHHHHHHHHH
Confidence 688999988886544
No 25
>PTZ00096 40S ribosomal protein S15; Provisional
Probab=22.51 E-value=1.1e+02 Score=21.24 Aligned_cols=27 Identities=30% Similarity=0.437 Sum_probs=21.5
Q ss_pred cCCCCHHHHHHhhcC-------------HHHHHHHHHHHH
Q psy12139 2 LLELSPAQLLMLLAS-------------DEALRQKVEEAM 28 (65)
Q Consensus 2 LLEmdnsElL~LLes-------------~e~L~~KV~EA~ 28 (65)
|++|+..|+..|+-+ +..|-.||..|-
T Consensus 25 L~~m~~~e~~~L~~aR~RR~~~RGl~~~~~~LlkKirk~~ 64 (143)
T PTZ00096 25 LLALPEEELVELFRARQRRRINRGIKRKHPTLLKKLRKAK 64 (143)
T ss_pred HHcCCHHHHHHHcCcccccccccCCCHHHHHHHHHHHHHh
Confidence 689999999999875 566777777764
No 26
>PF07796 DUF1638: Protein of unknown function (DUF1638); InterPro: IPR012437 This entry contains sequences covering an approximately 270 amino acid stretch of a group of hypothetical proteins and are confined to Bacteria and Archaea.
Probab=21.77 E-value=1.1e+02 Score=20.30 Aligned_cols=18 Identities=22% Similarity=0.447 Sum_probs=16.5
Q ss_pred cCHHHHHHHHHHHHHHHH
Q psy12139 15 ASDEALRQKVEEAMDIVM 32 (65)
Q Consensus 15 es~e~L~~KV~EA~~VL~ 32 (65)
.+|+.|+.+|+++++-..
T Consensus 9 ~~p~~L~~~lq~~id~~~ 26 (166)
T PF07796_consen 9 NDPDKLRKELQEEIDKAS 26 (166)
T ss_pred CCHHHHHHHHHHHHHHhh
Confidence 579999999999999887
No 27
>PF03532 OMS28_porin: OMS28 porin; InterPro: IPR000839 The outer membrane-spanning (Oms) proteins of Borrelia burgdorferi have been isolated and their porin activities characterised; 0.6-nS porin activity was found to reside in a 28kDa protein, designated Oms28 []. The gene sequence of oms28 was found to encode a 257-amino-acid precursor protein with a putative 24-amino-acid leader peptidase I signal sequence []. The Oms28 protein partly fractionated to the outer membrane, and was characterised by an average single-channel conductance of 1.1 nS in a planar lipid bilayer assay, confirming Oms28 to be a porin [].
Probab=21.26 E-value=1.1e+02 Score=22.80 Aligned_cols=23 Identities=35% Similarity=0.495 Sum_probs=20.4
Q ss_pred HhhcCHHHHHHHHHHHHHHHHHh
Q psy12139 12 MLLASDEALRQKVEEAMDIVMNL 34 (65)
Q Consensus 12 ~LLes~e~L~~KV~EA~~VL~~~ 34 (65)
.|..|+++|.+.++||-.||.-.
T Consensus 188 tlmase~aldet~qeaqkvln~v 210 (253)
T PF03532_consen 188 TLMASERALDETVQEAQKVLNIV 210 (253)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHh
Confidence 47889999999999999999754
No 28
>PF04993 TfoX_N: TfoX N-terminal domain; InterPro: IPR007076 This domain is found in a number of bacterial proteins including the TfoX gene product of Haemophilus influenzae. TfoX may play a key role in the development of genetic competence by regulating the expression of late competence-specific genes []. This family corresponds to the N-terminal presumed domain of TfoX. The domain is found in association with the C-terminal domain in some, but not all members of this group, suggesting this is an autonomous and functionally unrelated domain.; PDB: 2OD0_A.
Probab=21.23 E-value=1.6e+02 Score=17.60 Aligned_cols=21 Identities=33% Similarity=0.398 Sum_probs=17.4
Q ss_pred HhhcCHHHHHHHHHHHHHHHH
Q psy12139 12 MLLASDEALRQKVEEAMDIVM 32 (65)
Q Consensus 12 ~LLes~e~L~~KV~EA~~VL~ 32 (65)
..++|++.|..=|++|++.++
T Consensus 76 ~~~~d~~~l~~w~~~al~~a~ 96 (97)
T PF04993_consen 76 EILEDDEELRQWIRLALAAAK 96 (97)
T ss_dssp HHHC-HHHHHHHHHHHHHHHH
T ss_pred HHccCHHHHHHHHHHHHHHhc
Confidence 468999999999999998764
No 29
>PF08418 Pol_alpha_B_N: DNA polymerase alpha subunit B N-terminal; InterPro: IPR013627 This is the eukaryotic DNA polymerase alpha subunit B N-terminal domain which is involved in complex formation []. ; PDB: 4E2I_9 2KEB_A 3FLO_G.
Probab=21.18 E-value=1e+02 Score=21.53 Aligned_cols=27 Identities=15% Similarity=0.281 Sum_probs=21.3
Q ss_pred HhhcCHHHHHHHHHHHHHHHHHhhcCC
Q psy12139 12 MLLASDEALRQKVEEAMDIVMNLSGHD 38 (65)
Q Consensus 12 ~LLes~e~L~~KV~EA~~VL~~~~~~~ 38 (65)
.|++.-+.|..+|++=.++++.|.+-+
T Consensus 215 kL~e~sevLDdrId~f~~~iq~~~~~~ 241 (253)
T PF08418_consen 215 KLSERSEVLDDRIDEFAELIQEHYKLE 241 (253)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHT--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 467888999999999999999876544
No 30
>cd04928 ACT_TyrKc Uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. This CD includes a novel, yet uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.03 E-value=65 Score=19.23 Aligned_cols=14 Identities=14% Similarity=0.337 Sum_probs=11.6
Q ss_pred cCHHHHHHHHHHHH
Q psy12139 15 ASDEALRQKVEEAM 28 (65)
Q Consensus 15 es~e~L~~KV~EA~ 28 (65)
++.++|++++++|+
T Consensus 54 ~~~~~~~~~~~~~~ 67 (68)
T cd04928 54 GETAALGHALQKEI 67 (68)
T ss_pred cchHHHHHHHHHhh
Confidence 45788999999986
No 31
>COG3082 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.86 E-value=1.4e+02 Score=18.81 Aligned_cols=21 Identities=24% Similarity=0.363 Sum_probs=18.6
Q ss_pred CHHHHHHHHHHHHHHHHHhhc
Q psy12139 16 SDEALRQKVEEAMDIVMNLSG 36 (65)
Q Consensus 16 s~e~L~~KV~EA~~VL~~~~~ 36 (65)
|++.+.+-+.|-++||+.|+.
T Consensus 8 sDe~ve~il~e~iaVLeKH~a 28 (74)
T COG3082 8 SDEQVEQILNELIAVLEKHKA 28 (74)
T ss_pred cHHHHHHHHHHHHHHHHhcCC
Confidence 678899999999999999974
No 32
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=20.75 E-value=88 Score=16.75 Aligned_cols=20 Identities=25% Similarity=0.409 Sum_probs=15.8
Q ss_pred HHHHHhhcCHHHHHHHHHHH
Q psy12139 8 AQLLMLLASDEALRQKVEEA 27 (65)
Q Consensus 8 sElL~LLes~e~L~~KV~EA 27 (65)
...+..+.++..|+.|+..+
T Consensus 7 ~~Fl~~~~~d~~l~~~l~~~ 26 (49)
T PF07862_consen 7 KAFLEKVKSDPELREQLKAC 26 (49)
T ss_pred HHHHHHHhcCHHHHHHHHhc
Confidence 35677788899999999875
No 33
>PRK06520 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase; Provisional
Probab=20.08 E-value=81 Score=23.79 Aligned_cols=19 Identities=21% Similarity=0.408 Sum_probs=17.4
Q ss_pred hhcCHHHHHHHHHHHHHHH
Q psy12139 13 LLASDEALRQKVEEAMDIV 31 (65)
Q Consensus 13 LLes~e~L~~KV~EA~~VL 31 (65)
-+|++|.+++||.+|.+++
T Consensus 308 ~vE~~e~I~~rI~~a~~~v 326 (368)
T PRK06520 308 ELENADDVKARLAEAAKFV 326 (368)
T ss_pred CCCCHHHHHHHHHHHHHhC
Confidence 3789999999999999988
Done!