Query 041044
Match_columns 70
No_of_seqs 117 out of 1083
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 03:14:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041044.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041044hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03080 Probable beta-xylosid 98.5 7E-08 1.5E-12 78.0 4.1 45 19-63 36-84 (779)
2 PRK15098 beta-D-glucoside gluc 97.8 3.6E-05 7.7E-10 62.2 4.5 42 29-70 31-77 (765)
3 PF00933 Glyco_hydro_3: Glycos 83.5 0.53 1.1E-05 33.9 0.9 10 44-53 1-10 (299)
4 PF12616 DUF3775: Protein of u 83.4 3.3 7.1E-05 25.1 4.3 36 32-67 2-39 (75)
5 PF11471 Sugarporin_N: Maltopo 76.0 8.9 0.00019 22.2 4.3 24 28-51 26-49 (60)
6 PF10463 Peptidase_U49: Peptid 74.8 6.5 0.00014 27.9 4.2 46 2-47 152-197 (206)
7 PRK09672 phage exclusion prote 73.7 7.7 0.00017 29.3 4.5 46 3-48 217-262 (305)
8 PF11521 TFIIE-A_C-term: C-ter 69.9 3.5 7.6E-05 25.7 1.7 14 37-50 59-72 (86)
9 PRK10144 formate-dependent nit 69.4 11 0.00024 25.0 4.1 41 1-43 1-41 (126)
10 PF11153 DUF2931: Protein of u 60.7 9.1 0.0002 26.4 2.5 22 1-22 1-22 (216)
11 PRK14746 RepA leader peptide T 58.1 9.1 0.0002 19.0 1.6 18 1-18 1-18 (26)
12 TIGR03516 ppisom_GldI peptidyl 56.9 19 0.0004 24.6 3.5 42 1-42 1-47 (177)
13 PF13956 Ibs_toxin: Toxin Ibs, 56.5 5.5 0.00012 18.5 0.6 15 1-15 1-15 (19)
14 CHL00132 psaF photosystem I su 51.8 28 0.00061 24.7 3.8 42 1-42 1-48 (185)
15 PHA02448 hypothetical protein 50.2 48 0.001 23.0 4.7 33 36-68 144-181 (192)
16 PF02260 FATC: FATC domain; I 49.7 9.2 0.0002 19.6 0.9 26 29-54 2-27 (33)
17 TIGR03147 cyt_nit_nrfF cytochr 47.5 39 0.00084 22.4 3.8 39 5-43 3-41 (126)
18 PF15448 NTS_2: N-terminal seg 46.9 23 0.0005 20.1 2.3 28 27-54 2-29 (51)
19 PF04218 CENP-B_N: CENP-B N-te 46.5 12 0.00027 20.6 1.1 28 42-69 6-33 (53)
20 KOG2713 Mitochondrial tryptoph 43.3 32 0.0007 26.4 3.2 46 9-54 78-123 (347)
21 PF14153 Spore_coat_CotO: Spor 42.0 17 0.00038 25.4 1.5 21 37-57 111-131 (185)
22 PF11803 UXS1_N: UDP-glucurona 41.2 69 0.0015 19.8 3.9 35 16-52 33-69 (78)
23 PF15144 DUF4576: Domain of un 40.3 38 0.00083 21.2 2.7 12 4-15 7-18 (88)
24 TIGR01425 SRP54_euk signal rec 40.3 35 0.00075 26.6 3.1 36 32-67 371-418 (429)
25 PF02978 SRP_SPB: Signal pepti 37.1 27 0.00059 21.9 1.8 34 34-67 51-92 (104)
26 KOG4065 Uncharacterized conser 34.3 37 0.0008 23.0 2.1 15 2-16 3-17 (144)
27 KOG3220 Similar to bacterial d 33.6 95 0.0021 22.7 4.2 38 29-66 148-185 (225)
28 PF10083 DUF2321: Uncharacteri 31.8 20 0.00043 24.8 0.5 32 19-50 74-105 (158)
29 PF10907 DUF2749: Protein of u 30.2 1.1E+02 0.0024 18.3 3.5 13 1-13 1-13 (66)
30 COG1472 BglX Beta-glucosidase- 30.1 20 0.00042 27.5 0.3 22 43-65 1-22 (397)
31 PF06089 Asparaginase_II: L-as 29.3 67 0.0015 24.3 3.0 40 9-48 134-173 (324)
32 COG2247 LytB Putative cell wal 29.3 30 0.00065 26.6 1.2 59 1-62 1-59 (337)
33 PF13056 DUF3918: Protein of u 29.0 44 0.00095 18.4 1.5 15 1-15 1-15 (43)
34 PRK10833 putative assembly pro 28.2 54 0.0012 25.9 2.5 18 1-18 1-18 (617)
35 PF06790 UPF0259: Uncharacteri 28.1 1.2E+02 0.0026 22.0 4.1 19 35-53 62-80 (248)
36 COG1512 Beta-propeller domains 28.0 34 0.00074 25.2 1.2 14 34-47 34-47 (271)
37 PRK02868 hypothetical protein; 27.5 57 0.0012 23.8 2.3 19 35-53 59-77 (245)
38 PRK06568 F0F1 ATP synthase sub 26.5 1E+02 0.0022 20.8 3.3 37 6-50 15-51 (154)
39 cd07357 HN_L-whirlin_R2_like S 26.0 68 0.0015 19.9 2.2 43 25-68 31-73 (81)
40 PF10752 DUF2533: Protein of u 25.6 64 0.0014 20.2 2.0 32 35-68 49-80 (84)
41 PF14842 FliG_N: FliG N-termin 24.0 1.3E+02 0.0028 18.6 3.2 33 33-65 20-53 (108)
42 PF14163 SieB: Superinfection 23.9 90 0.0019 20.2 2.6 18 32-49 68-85 (151)
43 TIGR03475 tap_IncFII_lead RepA 23.4 95 0.0021 15.4 2.0 17 1-17 1-18 (26)
44 TIGR02209 ftsL_broad cell divi 23.2 1E+02 0.0022 17.8 2.5 18 1-18 1-18 (85)
45 cd07358 harmonin_N_like_1 Doma 22.0 1.1E+02 0.0025 18.8 2.6 43 25-69 31-73 (78)
46 PF11460 DUF3007: Protein of u 21.4 1.2E+02 0.0026 19.6 2.7 18 37-54 84-101 (104)
47 PRK04335 cell division protein 20.5 62 0.0013 24.5 1.4 14 3-16 5-18 (313)
48 PF11690 DUF3287: Protein of u 20.1 80 0.0017 20.5 1.7 26 45-70 61-89 (109)
No 1
>PLN03080 Probable beta-xylosidase; Provisional
Probab=98.54 E-value=7e-08 Score=77.97 Aligned_cols=45 Identities=27% Similarity=0.361 Sum_probs=39.0
Q ss_pred hcccCCCCCCCCCHHHHHHHHHHhcCHHHHHhhhhc----cccCCCCHH
Q 041044 19 EAEYLKYKDPKQPLHVRVNDLVSRMTLEEKIGQMTQ----IERGVASAE 63 (70)
Q Consensus 19 ~~~~~~~~d~~ls~~~Ra~~Lv~~MTleEKi~QL~~----~~~~~~~p~ 63 (70)
+....||||.++++++|+++||++||+|||++||.+ ++|+++.+.
T Consensus 36 ~~~~~~~~~~~~~~~~r~~~Ll~~mTleEKv~~l~~~~~~vpRlGIP~~ 84 (779)
T PLN03080 36 TFSAYPFCNASLPIPARARSLVSLLTLDEKIAQLSNTAAGVPRLGIPPY 84 (779)
T ss_pred cccCCCccCCCCCHHHHHHHHHHhcCHHHHHHHhcCCCCCCCcCCCCcc
Confidence 345578999999999999999999999999999965 677877665
No 2
>PRK15098 beta-D-glucoside glucohydrolase; Provisional
Probab=97.76 E-value=3.6e-05 Score=62.22 Aligned_cols=42 Identities=36% Similarity=0.502 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHHHhcCHHHHHhhhhccccCCCCH-----HHHhhccC
Q 041044 29 KQPLHVRVNDLVSRMTLEEKIGQMTQIERGVASA-----EVMKKYFI 70 (70)
Q Consensus 29 ~ls~~~Ra~~Lv~~MTleEKi~QL~~~~~~~~~p-----~~~~~y~~ 70 (70)
+.+.++|+++++++||++||+|||+.+...+..+ +.+++|++
T Consensus 31 ~~~~~~~v~~ll~~MtleEKvgQl~~~~~~~~~~~~~~~~~i~~~~v 77 (765)
T PRK15098 31 PEARDAFVTDLLKKMTLDEKIGQLRLISVGPDNPKEAIREMIKAGQV 77 (765)
T ss_pred CcCHHHHHHHHHHcCCHHHHHhhhcccccCCCCchHHHHHHHHhCCc
Confidence 3478999999999999999999999876544332 25677764
No 3
>PF00933 Glyco_hydro_3: Glycosyl hydrolase family 3 N terminal domain; InterPro: IPR001764 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 3 GH3 from CAZY comprises enzymes with a number of known activities; beta-glucosidase (3.2.1.21 from EC); beta-xylosidase (3.2.1.37 from EC); N-acetyl beta-glucosaminidase (3.2.1.52 from EC); glucan beta-1,3-glucosidase (3.2.1.58 from EC); cellodextrinase (3.2.1.74 from EC); exo-1,3-1,4-glucanase (3.2.1 from EC). These enzymes are two-domain globular proteins that are N-glycosylated at three sites []. This domain is often N-terminal to the glycoside hydrolase family 3, C-terminal domain IPR002772 from INTERPRO.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1Y65_A 2OXN_A 3GS6_A 1TR9_A 3GSM_A 3UT0_B 3RRX_A 3USZ_A 2X42_A 2X40_A ....
Probab=83.45 E-value=0.53 Score=33.90 Aligned_cols=10 Identities=80% Similarity=1.026 Sum_probs=8.7
Q ss_pred CHHHHHhhhh
Q 041044 44 TLEEKIGQMT 53 (70)
Q Consensus 44 TleEKi~QL~ 53 (70)
|+|||+|||+
T Consensus 1 TleeKigQl~ 10 (299)
T PF00933_consen 1 TLEEKIGQLF 10 (299)
T ss_dssp -HHHHHHHTE
T ss_pred CHHHHHHHHH
Confidence 8999999998
No 4
>PF12616 DUF3775: Protein of unknown function (DUF3775); InterPro: IPR022254 This domain family is found in bacteria, and is approximately 80 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=83.43 E-value=3.3 Score=25.13 Aligned_cols=36 Identities=17% Similarity=0.224 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhcCHHHHHhhhh--ccccCCCCHHHHhh
Q 041044 32 LHVRVNDLVSRMTLEEKIGQMT--QIERGVASAEVMKK 67 (70)
Q Consensus 32 ~~~Ra~~Lv~~MTleEKi~QL~--~~~~~~~~p~~~~~ 67 (70)
.++.+.+.++.|+.+|++.... .++|...+|++|.+
T Consensus 2 ~~~el~~~I~~l~~deqaeLvALmwiGRGd~~~eew~~ 39 (75)
T PF12616_consen 2 SEEELRSFIEDLNEDEQAELVALMWIGRGDFEAEEWEE 39 (75)
T ss_pred hHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCCHHHHHH
Confidence 4567899999999999996654 38888899998754
No 5
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=75.99 E-value=8.9 Score=22.23 Aligned_cols=24 Identities=21% Similarity=0.284 Sum_probs=18.3
Q ss_pred CCCCHHHHHHHHHHhcCHHHHHhh
Q 041044 28 PKQPLHVRVNDLVSRMTLEEKIGQ 51 (70)
Q Consensus 28 ~~ls~~~Ra~~Lv~~MTleEKi~Q 51 (70)
..+++|+|.+.|=.++--.|+-.+
T Consensus 26 ~~ltiEqRLa~LE~rL~~ae~ra~ 49 (60)
T PF11471_consen 26 APLTIEQRLAALEQRLQAAEQRAQ 49 (60)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHH
Confidence 357899999998888877766443
No 6
>PF10463 Peptidase_U49: Peptidase U49; InterPro: IPR019504 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This entry contains peptidases belonging to MEROPS peptidase family U49 (Lit peptidase, clan U-). The Lit peptidase from Escherichia coli functions in bacterial cell death in response to infection by Enterobacteria phage T4. Following binding of Gol peptide to domains II and III of elongation factor Tu, the Lit peptidase cleaves domain I of the elongation factor. This prevents binding of guanine nucleotides, shuts down translation and leads to cell death.
Probab=74.81 E-value=6.5 Score=27.91 Aligned_cols=46 Identities=20% Similarity=0.290 Sum_probs=33.2
Q ss_pred hHHHHHHHHHHHHHhhhhcccCCCCCCCCCHHHHHHHHHHhcCHHH
Q 041044 2 ARTLISLMGLLLLCCLAEAEYLKYKDPKQPLHVRVNDLVSRMTLEE 47 (70)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~ls~~~Ra~~Lv~~MTleE 47 (70)
.|.+-+..+++.+.+..+..+--..++..+.++|+.+.++.+..+|
T Consensus 152 ~r~~gIa~al~~i~~l~~~~~~~~~~tHP~~~~Ri~~~i~~l~~~~ 197 (206)
T PF10463_consen 152 KRNLGIAIALFFISLLFPENSLNGTTTHPDIDDRIFNIIECLKLEE 197 (206)
T ss_pred HHHHHHHHHHHHHHHHhcccccCCCCCCcCHHHHHHHHHhcccccc
Confidence 4667777777777766644444455578889999999999876544
No 7
>PRK09672 phage exclusion protein Lit; Provisional
Probab=73.66 E-value=7.7 Score=29.33 Aligned_cols=46 Identities=17% Similarity=0.159 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHhhhhcccCCCCCCCCCHHHHHHHHHHhcCHHHH
Q 041044 3 RTLISLMGLLLLCCLAEAEYLKYKDPKQPLHVRVNDLVSRMTLEEK 48 (70)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~d~~ls~~~Ra~~Lv~~MTleEK 48 (70)
|.+-+..+++++.+.-+..+.....+..+.++|+.+.++.+.++|-
T Consensus 217 r~vgIaia~l~l~~l~~~~~~~g~~tHP~~~~RI~a~is~lei~ee 262 (305)
T PRK09672 217 RSVGIAIALLFLQELELENKSCGKGTHPDADQRIFANLSKLEISDE 262 (305)
T ss_pred hhHHHHHHHHHHHHHhccccCCCCCCCCCHHHHHHHhhhccCccch
Confidence 5566666666665544444444455778899999999999999887
No 8
>PF11521 TFIIE-A_C-term: C-terminal general transcription factor TFIIE alpha; InterPro: IPR021600 TFIIE is compiled of two subunits, alpha and beta. This family of proteins are the C-terminal domain of the alpha subunit of the protein which is the largest subunit and contains several functional domains which are important for basal transcription and cell growth. The C-terminal end of the protein binds directly to the amino-terminal PH domain of p62/Tfb1 (of IIH) which is involved in the recruitment of the general transcription factor IIH to the transcription preinitiation complex. P53 competes for the same binding site as TFIIE alpha which shows their structural similarity. Like p53, TFIIE alpha 336-439 can activate transcription in vivo []. ; PDB: 2RNR_A 2RNQ_A 2JTX_A.
Probab=69.89 E-value=3.5 Score=25.66 Aligned_cols=14 Identities=50% Similarity=0.584 Sum_probs=11.3
Q ss_pred HHHHHhcCHHHHHh
Q 041044 37 NDLVSRMTLEEKIG 50 (70)
Q Consensus 37 ~~Lv~~MTleEKi~ 50 (70)
.+||++||.+||-.
T Consensus 59 p~LV~qMT~~EKEa 72 (86)
T PF11521_consen 59 PELVAQMTPEEKEA 72 (86)
T ss_dssp HHHHHHS-HHHHHH
T ss_pred hHHHHHcCHHHHHH
Confidence 58999999999964
No 9
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=69.43 E-value=11 Score=25.04 Aligned_cols=41 Identities=7% Similarity=0.096 Sum_probs=19.5
Q ss_pred ChHHHHHHHHHHHHHhhhhcccCCCCCCCCCHHHHHHHHHHhc
Q 041044 1 MARTLISLMGLLLLCCLAEAEYLKYKDPKQPLHVRVNDLVSRM 43 (70)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ls~~~Ra~~Lv~~M 43 (70)
|.|++..++.+....+.......++.+ ...++|+.+|.+.+
T Consensus 1 ~~~l~~~l~~l~~~~~~~~~~~~~~~~--~~~e~r~~~L~~~L 41 (126)
T PRK10144 1 NKGLLTLLLLFTCFARAQVVDTWQFAN--PQQQQQALNIASQL 41 (126)
T ss_pred CchHHHHHHHHHHHHHHhcCCcccCCC--HHHHHHHHHHHHcC
Confidence 567555544322221111222233433 44677777777655
No 10
>PF11153 DUF2931: Protein of unknown function (DUF2931); InterPro: IPR021326 Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed. Currently, there is no known function.
Probab=60.74 E-value=9.1 Score=26.36 Aligned_cols=22 Identities=32% Similarity=0.474 Sum_probs=17.2
Q ss_pred ChHHHHHHHHHHHHHhhhhccc
Q 041044 1 MARTLISLMGLLLLCCLAEAEY 22 (70)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~ 22 (70)
|.++++++++|+++.|......
T Consensus 1 mk~i~~l~l~lll~~C~~~~~~ 22 (216)
T PF11153_consen 1 MKKILLLLLLLLLTGCSTNPNE 22 (216)
T ss_pred ChHHHHHHHHHHHHhhcCCCcc
Confidence 7889999999999999554333
No 11
>PRK14746 RepA leader peptide Tap; Provisional
Probab=58.14 E-value=9.1 Score=19.03 Aligned_cols=18 Identities=44% Similarity=0.578 Sum_probs=15.0
Q ss_pred ChHHHHHHHHHHHHHhhh
Q 041044 1 MARTLISLMGLLLLCCLA 18 (70)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~ 18 (70)
|-|-++-+++.|++-|+-
T Consensus 1 M~RK~Q~l~~~lLLpCni 18 (26)
T PRK14746 1 MFRKVQYLLRLLLLPCNI 18 (26)
T ss_pred CcHHHHHHHHHHHhccee
Confidence 678999999998888854
No 12
>TIGR03516 ppisom_GldI peptidyl-prolyl isomerase, gliding motility-associated. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldI is a FKBP-type peptidyl-prolyl cis-trans isomerase (pfam00254) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockout of this gene abolishes the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. This family is only found in Bacteroidetes containing the suite of genes proposed to confer the gliding motility phenotype.
Probab=56.90 E-value=19 Score=24.59 Aligned_cols=42 Identities=19% Similarity=0.237 Sum_probs=21.9
Q ss_pred ChHHHHHHHH-HHHHHhhhhcccCCCCCCCCC----HHHHHHHHHHh
Q 041044 1 MARTLISLMG-LLLLCCLAEAEYLKYKDPKQP----LHVRVNDLVSR 42 (70)
Q Consensus 1 ~~~~~~~~~~-~~~~~~~~~~~~~~~~d~~ls----~~~Ra~~Lv~~ 42 (70)
|.+++.++++ +++++|..+....|....+-+ -.+|-..|++.
T Consensus 1 ~~~~~~~~~~~~~~~~c~~~~~~~pv~~~~~~~~~~s~~rnk~l~~~ 47 (177)
T TIGR03516 1 MKHLIAVILLLLLLLGCKTPEARRPISRSSGTTIKLSAERNKKLIAA 47 (177)
T ss_pred CceeHHHHHHHHHHhhcCCCCCCCCcCCCCcchHHHHHHHHHHHHHH
Confidence 5666566666 455567555544554433321 23566555553
No 13
>PF13956 Ibs_toxin: Toxin Ibs, type I toxin-antitoxin system
Probab=56.49 E-value=5.5 Score=18.50 Aligned_cols=15 Identities=40% Similarity=0.583 Sum_probs=11.4
Q ss_pred ChHHHHHHHHHHHHH
Q 041044 1 MARTLISLMGLLLLC 15 (70)
Q Consensus 1 ~~~~~~~~~~~~~~~ 15 (70)
|-|.+++++.|++++
T Consensus 1 MMk~vIIlvvLLliS 15 (19)
T PF13956_consen 1 MMKLVIILVVLLLIS 15 (19)
T ss_pred CceehHHHHHHHhcc
Confidence 457788888888765
No 14
>CHL00132 psaF photosystem I subunit III; Validated
Probab=51.76 E-value=28 Score=24.66 Aligned_cols=42 Identities=17% Similarity=0.145 Sum_probs=29.1
Q ss_pred ChHHHHHHHHHHHHHhhhhc-c-----cCCCCCCCCCHHHHHHHHHHh
Q 041044 1 MARTLISLMGLLLLCCLAEA-E-----YLKYKDPKQPLHVRVNDLVSR 42 (70)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~-~-----~~~~~d~~ls~~~Ra~~Lv~~ 42 (70)
|.|++.+++++++.++..|. . ...+|..+..-.+|++.-+.+
T Consensus 1 mrrl~~l~l~~~l~~~~~p~~a~ad~agLtpCses~aF~kR~~~~~k~ 48 (185)
T CHL00132 1 MKKFNLLFLLLAALLLFNPIAAFADVAGLTPCSESPAFQKRLNNSVKK 48 (185)
T ss_pred ChhHHHHHHHHHHHHhcCCccccccccCCccCccCHHHHHHHHHHHHH
Confidence 67888888888777775553 2 234677777778888877755
No 15
>PHA02448 hypothetical protein
Probab=50.25 E-value=48 Score=23.00 Aligned_cols=33 Identities=21% Similarity=0.391 Sum_probs=23.3
Q ss_pred HHHHHHhcCHHHHH--hhhhc---cccCCCCHHHHhhc
Q 041044 36 VNDLVSRMTLEEKI--GQMTQ---IERGVASAEVMKKY 68 (70)
Q Consensus 36 a~~Lv~~MTleEKi--~QL~~---~~~~~~~p~~~~~y 68 (70)
.-+-.+.+|++||- +|..+ +...+..|.+++||
T Consensus 144 lgdacaaltldektvaaqfygkykvtarnakpaqlref 181 (192)
T PHA02448 144 LGDACAALTLDEKTVAAQFYGKYKVTARNAKPAQLREF 181 (192)
T ss_pred HHHHHHhhhcchHHHHHHhhcceeeeeccCChHHHHHH
Confidence 44567899999995 44443 55577788888876
No 16
>PF02260 FATC: FATC domain; InterPro: IPR003152 The FATC domain is found at the C-terminal end of the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding; PDB: 2KIT_A 1W1N_A 2KIO_A.
Probab=49.75 E-value=9.2 Score=19.60 Aligned_cols=26 Identities=23% Similarity=0.327 Sum_probs=21.1
Q ss_pred CCCHHHHHHHHHHhcCHHHHHhhhhc
Q 041044 29 KQPLHVRVNDLVSRMTLEEKIGQMTQ 54 (70)
Q Consensus 29 ~ls~~~Ra~~Lv~~MTleEKi~QL~~ 54 (70)
.+++++.|+.|++.=|-.+.+++|..
T Consensus 2 ~lsv~~qV~~LI~~At~~~nLa~my~ 27 (33)
T PF02260_consen 2 PLSVEQQVDELISEATDPENLARMYI 27 (33)
T ss_dssp -S-STHHHHHHHHHHHHHHHHHHHCT
T ss_pred CCCHHHHHHHHHHHHcCHHHHHHHhc
Confidence 36778899999999999999998853
No 17
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=47.46 E-value=39 Score=22.39 Aligned_cols=39 Identities=15% Similarity=0.169 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHhhhhcccCCCCCCCCCHHHHHHHHHHhc
Q 041044 5 LISLMGLLLLCCLAEAEYLKYKDPKQPLHVRVNDLVSRM 43 (70)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~d~~ls~~~Ra~~Lv~~M 43 (70)
++.++.+++..........++.-.+...++|+.+|...+
T Consensus 3 ~~~~l~~~~~~~~~a~~~~~~~f~~~~~e~r~~~L~~~L 41 (126)
T TIGR03147 3 FLALLLLLISFSAQAQMVDTYQFHNPEQRTRAVALAKSL 41 (126)
T ss_pred HHHHHHHHHHHHHHHhcCCcccCCCHHHHHHHHHHHHhC
Confidence 344444444433222222332223345677777776655
No 18
>PF15448 NTS_2: N-terminal segments of P. falciparum erythrocyte membrane protein
Probab=46.86 E-value=23 Score=20.06 Aligned_cols=28 Identities=18% Similarity=0.299 Sum_probs=24.3
Q ss_pred CCCCCHHHHHHHHHHhcCHHHHHhhhhc
Q 041044 27 DPKQPLHVRVNDLVSRMTLEEKIGQMTQ 54 (70)
Q Consensus 27 d~~ls~~~Ra~~Lv~~MTleEKi~QL~~ 54 (70)
|...++.+++++.+..=+.+-||.|..-
T Consensus 2 dskstia~kieayl~~ks~ds~idq~lk 29 (51)
T PF15448_consen 2 DSKSTIANKIEAYLEAKSNDSKIDQSLK 29 (51)
T ss_pred cchhhHHHHHHHHHHhhcchhhHHHHhc
Confidence 4566789999999999999999999864
No 19
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.
Probab=46.54 E-value=12 Score=20.62 Aligned_cols=28 Identities=25% Similarity=0.533 Sum_probs=14.5
Q ss_pred hcCHHHHHhhhhccccCCCCHHHHhhcc
Q 041044 42 RMTLEEKIGQMTQIERGVASAEVMKKYF 69 (70)
Q Consensus 42 ~MTleEKi~QL~~~~~~~~~p~~~~~y~ 69 (70)
.+|++||+.-+-..+......+-.++|+
T Consensus 6 ~LTl~eK~~iI~~~e~g~s~~~ia~~fg 33 (53)
T PF04218_consen 6 SLTLEEKLEIIKRLEEGESKRDIAREFG 33 (53)
T ss_dssp S--HHHHHHHHHHHHCTT-HHHHHHHHT
T ss_pred cCCHHHHHHHHHHHHcCCCHHHHHHHhC
Confidence 4788888876665555543333444443
No 20
>KOG2713 consensus Mitochondrial tryptophanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=43.28 E-value=32 Score=26.41 Aligned_cols=46 Identities=22% Similarity=0.352 Sum_probs=39.9
Q ss_pred HHHHHHHhhhhcccCCCCCCCCCHHHHHHHHHHhcCHHHHHhhhhc
Q 041044 9 MGLLLLCCLAEAEYLKYKDPKQPLHVRVNDLVSRMTLEEKIGQMTQ 54 (70)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~d~~ls~~~Ra~~Lv~~MTleEKi~QL~~ 54 (70)
+..++.|.+.|..+.-|.+...+.......|++.||.--+.++|.|
T Consensus 78 ~A~lLAcGIdp~Ks~lF~QS~Vpqh~el~WlLsslt~mg~L~rm~Q 123 (347)
T KOG2713|consen 78 AASLLACGIDPEKSSLFVQSDVPQHAELSWLLSSLTTMGRLARMPQ 123 (347)
T ss_pred HHHHHHhccCcccceeeeeccchHHHHHHHHHHhccchHHHHhhHH
Confidence 4456677788999999999999999999999999999888888877
No 21
>PF14153 Spore_coat_CotO: Spore coat protein CotO
Probab=41.98 E-value=17 Score=25.35 Aligned_cols=21 Identities=24% Similarity=0.400 Sum_probs=16.5
Q ss_pred HHHHHhcCHHHHHhhhhcccc
Q 041044 37 NDLVSRMTLEEKIGQMTQIER 57 (70)
Q Consensus 37 ~~Lv~~MTleEKi~QL~~~~~ 57 (70)
..=...||++|||.-|...+.
T Consensus 111 ~K~Fk~M~~~EKI~fL~~~P~ 131 (185)
T PF14153_consen 111 KKSFKEMNIEEKIDFLINLPH 131 (185)
T ss_pred cCChhhccHHHHHHHHHhCcc
Confidence 334678999999999987544
No 22
>PF11803 UXS1_N: UDP-glucuronate decarboxylase N-terminal; InterPro: IPR021761 The N terminus of the UDP-glucuronate decarboxylases may be involved in localisation to the perinuclear Golgi membrane. ; GO: 0048040 UDP-glucuronate decarboxylase activity
Probab=41.24 E-value=69 Score=19.78 Aligned_cols=35 Identities=14% Similarity=0.263 Sum_probs=23.1
Q ss_pred hhhhcccC--CCCCCCCCHHHHHHHHHHhcCHHHHHhhh
Q 041044 16 CLAEAEYL--KYKDPKQPLHVRVNDLVSRMTLEEKIGQM 52 (70)
Q Consensus 16 ~~~~~~~~--~~~d~~ls~~~Ra~~Lv~~MTleEKi~QL 52 (70)
.|+.-.++ .-.+..+-+++|+++.++ +++||+.-|
T Consensus 33 vwg~~vnmrsIQEnGe~Kie~kiee~v~--plreki~dl 69 (78)
T PF11803_consen 33 VWGNYVNMRSIQENGELKIEQKIEEAVA--PLREKIRDL 69 (78)
T ss_pred HHHhhcCHHHHHhccchhHHHHHHHHHh--HHHHHHHHH
Confidence 35543333 233456778899999888 678998655
No 23
>PF15144 DUF4576: Domain of unknown function (DUF4576)
Probab=40.31 E-value=38 Score=21.23 Aligned_cols=12 Identities=42% Similarity=0.703 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHH
Q 041044 4 TLISLMGLLLLC 15 (70)
Q Consensus 4 ~~~~~~~~~~~~ 15 (70)
++++.+||++++
T Consensus 7 rltivlGLlvLI 18 (88)
T PF15144_consen 7 RLTIVLGLLVLI 18 (88)
T ss_pred HHHHHHHHHHHH
Confidence 567888888776
No 24
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=40.29 E-value=35 Score=26.63 Aligned_cols=36 Identities=17% Similarity=0.138 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhcCHHHHHh---hhh--c------ccc-CCCCHHHHhh
Q 041044 32 LHVRVNDLVSRMTLEEKIG---QMT--Q------IER-GVASAEVMKK 67 (70)
Q Consensus 32 ~~~Ra~~Lv~~MTleEKi~---QL~--~------~~~-~~~~p~~~~~ 67 (70)
.=+|.+.++..||.+|+-. .+. + +.+ .+.+++++.+
T Consensus 371 ~~~~~~aii~SMT~~Er~~~~p~i~~~~~sR~~RIa~GSG~~~~~V~~ 418 (429)
T TIGR01425 371 KIKKLMTIMDSMTDQELDSTDGKVFSKQPSRIQRVARGSGRSIRDVQE 418 (429)
T ss_pred HHHhHHHHHhcCCHHHHccCCCccccCCccHHHHHHccCCCCHHHHHH
Confidence 3478999999999999985 454 3 222 6678876543
No 25
>PF02978 SRP_SPB: Signal peptide binding domain; InterPro: IPR004125 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the M domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle; PDB: 2FFH_B 3NDB_B 2V3C_C 1QZW_G 1QZX_B 3KL4_A 2JQE_A 1HQ1_A 1RY1_W 1MFQ_C ....
Probab=37.06 E-value=27 Score=21.93 Aligned_cols=34 Identities=18% Similarity=0.260 Sum_probs=22.1
Q ss_pred HHHHHHHHhcCHHHHHhhhh-c------c-ccCCCCHHHHhh
Q 041044 34 VRVNDLVSRMTLEEKIGQMT-Q------I-ERGVASAEVMKK 67 (70)
Q Consensus 34 ~Ra~~Lv~~MTleEKi~QL~-~------~-~~~~~~p~~~~~ 67 (70)
+|...+++.||.+|+-.-=. . + ...+.+++++.+
T Consensus 51 k~~~~Ii~SMT~~Er~~p~ll~~sR~~RIA~GSG~~~~eV~~ 92 (104)
T PF02978_consen 51 KRMEAIIDSMTPEERDNPKLLNESRRRRIARGSGTTVQEVNE 92 (104)
T ss_dssp HHHHHHHTTSBHHHHHCGGGHHHHHHHHHHHHTTS-HHHHHH
T ss_pred HHHHHHHHCcCHHHHhCccccchHHHHHHHHHcCCCHHHHHH
Confidence 57889999999999953221 1 1 227778876543
No 26
>KOG4065 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.25 E-value=37 Score=22.98 Aligned_cols=15 Identities=40% Similarity=0.197 Sum_probs=11.7
Q ss_pred hHHHHHHHHHHHHHh
Q 041044 2 ARTLISLMGLLLLCC 16 (70)
Q Consensus 2 ~~~~~~~~~~~~~~~ 16 (70)
.|+|++..+++..+|
T Consensus 3 ~~~li~tc~lL~~f~ 17 (144)
T KOG4065|consen 3 GFLLISTCFLLLVFE 17 (144)
T ss_pred chhHHHHHHHHHHHh
Confidence 478888888877777
No 27
>KOG3220 consensus Similar to bacterial dephospho-CoA kinase [Coenzyme transport and metabolism]
Probab=33.57 E-value=95 Score=22.66 Aligned_cols=38 Identities=24% Similarity=0.123 Sum_probs=25.5
Q ss_pred CCCHHHHHHHHHHhcCHHHHHhhhhccccCCCCHHHHh
Q 041044 29 KQPLHVRVNDLVSRMTLEEKIGQMTQIERGVASAEVMK 66 (70)
Q Consensus 29 ~ls~~~Ra~~Lv~~MTleEKi~QL~~~~~~~~~p~~~~ 66 (70)
.++.++--..+-++|.+++|..+=.-+--.+-++++.+
T Consensus 148 ~lse~dAe~Rl~sQmp~~~k~~~a~~Vi~Nng~~~~l~ 185 (225)
T KOG3220|consen 148 ELSEEDAENRLQSQMPLEKKCELADVVIDNNGSLEDLY 185 (225)
T ss_pred cccHHHHHHHHHhcCCHHHHHHhhheeecCCCChHHHH
Confidence 55666666677789999999976554444555555443
No 28
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=31.75 E-value=20 Score=24.83 Aligned_cols=32 Identities=6% Similarity=-0.007 Sum_probs=23.8
Q ss_pred hcccCCCCCCCCCHHHHHHHHHHhcCHHHHHh
Q 041044 19 EAEYLKYKDPKQPLHVRVNDLVSRMTLEEKIG 50 (70)
Q Consensus 19 ~~~~~~~~d~~ls~~~Ra~~Lv~~MTleEKi~ 50 (70)
=+..+||....+.....+.+.++.+|.+||-.
T Consensus 74 CGkpyPWt~~~L~aa~el~ee~eeLs~deke~ 105 (158)
T PF10083_consen 74 CGKPYPWTENALEAANELIEEDEELSPDEKEQ 105 (158)
T ss_pred CCCCCchHHHHHHHHHHHHHHhhcCCHHHHHH
Confidence 45566777766666777777888999999973
No 29
>PF10907 DUF2749: Protein of unknown function (DUF2749); InterPro: IPR024475 This bacterial family of proteins represent the TrbJ and TrbK genes of the Ti plasmid conjugative transfer operon [].
Probab=30.19 E-value=1.1e+02 Score=18.32 Aligned_cols=13 Identities=23% Similarity=0.376 Sum_probs=8.6
Q ss_pred ChHHHHHHHHHHH
Q 041044 1 MARTLISLMGLLL 13 (70)
Q Consensus 1 ~~~~~~~~~~~~~ 13 (70)
|+|++++.+.+.+
T Consensus 1 ms~~viIaL~~av 13 (66)
T PF10907_consen 1 MSRRVIIALVVAV 13 (66)
T ss_pred CCcchhHHHHHHH
Confidence 6777776666553
No 30
>COG1472 BglX Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]
Probab=30.10 E-value=20 Score=27.48 Aligned_cols=22 Identities=41% Similarity=0.445 Sum_probs=16.5
Q ss_pred cCHHHHHhhhhccccCCCCHHHH
Q 041044 43 MTLEEKIGQMTQIERGVASAEVM 65 (70)
Q Consensus 43 MTleEKi~QL~~~~~~~~~p~~~ 65 (70)
||++||++||..... +.++++.
T Consensus 1 m~~~~k~~ql~~~g~-~~~~e~~ 22 (397)
T COG1472 1 MTLEEKVGQLGIAGL-ELTPEEA 22 (397)
T ss_pred CCccccceeeeccCc-cCCHHHH
Confidence 788999999987665 6666643
No 31
>PF06089 Asparaginase_II: L-asparaginase II; InterPro: IPR010349 This family consists of several bacterial L-asparaginase II proteins. L-asparaginase (3.5.1.1 from EC) catalyses the hydrolysis of L-asparagine to L-aspartate and ammonium. Rhizobium etli possesses two asparaginases: asparaginase I, which is thermostable and constitutive, and asparaginase II, which is thermolabile, induced by asparagine and repressed by the carbon source [].
Probab=29.34 E-value=67 Score=24.32 Aligned_cols=40 Identities=25% Similarity=0.441 Sum_probs=29.4
Q ss_pred HHHHHHHhhhhcccCCCCCCCCCHHHHHHHHHHhcCHHHH
Q 041044 9 MGLLLLCCLAEAEYLKYKDPKQPLHVRVNDLVSRMTLEEK 48 (70)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~d~~ls~~~Ra~~Lv~~MTleEK 48 (70)
.|.+.+|....-....|.++.=|..+++.+.++.||-..-
T Consensus 134 agmLa~c~~~g~~~~~Y~~pdHPvQq~I~~~i~~l~g~~~ 173 (324)
T PF06089_consen 134 AGMLALCVHLGWPTDGYLDPDHPVQQRIRETIAELTGVPP 173 (324)
T ss_pred HHHHHHHHHcCCChhhcCCCCCHHHHHHHHHHHHHhCCCc
Confidence 3566677654445556888888999999999998875543
No 32
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=29.28 E-value=30 Score=26.59 Aligned_cols=59 Identities=19% Similarity=0.183 Sum_probs=31.8
Q ss_pred ChHHHHHHHHHHHHHhhhhcccCCCCCCCCCHHHHHHHHHHhcCHHHHHhhhhccccCCCCH
Q 041044 1 MARTLISLMGLLLLCCLAEAEYLKYKDPKQPLHVRVNDLVSRMTLEEKIGQMTQIERGVASA 62 (70)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ls~~~Ra~~Lv~~MTleEKi~QL~~~~~~~~~p 62 (70)
|.|.+.++++.++.....+..+..-.+... . ==+.|-.+.+++.+|++-+.+.+.. .+|
T Consensus 1 Mrr~l~lll~~~l~l~s~~av~A~~~~~~~-V-IlvsDn~aD~~lA~~iaellNA~Vl-ttp 59 (337)
T COG2247 1 MRRLLMLLLASLLALSSPPAVSAQSQNTTV-V-ILVSDNEADLLLALPIAELLNAPVL-TTP 59 (337)
T ss_pred CccHHHHHHHHHHHHhcchhhhhhhcCceE-E-EEecchHHHHHHhhHHHHHhCCeeE-ecC
Confidence 678888887777776622222111111000 0 0012233456888999999887776 666
No 33
>PF13056 DUF3918: Protein of unknown function (DUF3918)
Probab=29.00 E-value=44 Score=18.44 Aligned_cols=15 Identities=27% Similarity=0.299 Sum_probs=11.1
Q ss_pred ChHHHHHHHHHHHHH
Q 041044 1 MARTLISLMGLLLLC 15 (70)
Q Consensus 1 ~~~~~~~~~~~~~~~ 15 (70)
|||+++|++++=+=.
T Consensus 1 Mnk~mtSlla~GaG~ 15 (43)
T PF13056_consen 1 MNKTMTSLLAFGAGA 15 (43)
T ss_pred CcHHHHHHHHHhHHH
Confidence 789999988765443
No 34
>PRK10833 putative assembly protein; Provisional
Probab=28.23 E-value=54 Score=25.89 Aligned_cols=18 Identities=39% Similarity=0.451 Sum_probs=14.9
Q ss_pred ChHHHHHHHHHHHHHhhh
Q 041044 1 MARTLISLMGLLLLCCLA 18 (70)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~ 18 (70)
|.|+++++++|++++..+
T Consensus 1 mkrll~~l~~l~~l~v~~ 18 (617)
T PRK10833 1 MRRFLTTLMILLVVLVAG 18 (617)
T ss_pred CcchHHHHHHHHHHHHHH
Confidence 789999999998888644
No 35
>PF06790 UPF0259: Uncharacterised protein family (UPF0259); InterPro: IPR009627 This is a group of proteins of unknown function.
Probab=28.13 E-value=1.2e+02 Score=21.98 Aligned_cols=19 Identities=21% Similarity=0.359 Sum_probs=16.0
Q ss_pred HHHHHHHhcCHHHHHhhhh
Q 041044 35 RVNDLVSRMTLEEKIGQMT 53 (70)
Q Consensus 35 Ra~~Lv~~MTleEKi~QL~ 53 (70)
-..|++++||.|||--.+.
T Consensus 62 sl~~~v~~ms~eqq~~ll~ 80 (248)
T PF06790_consen 62 SLQDIVQQMSPEQQNVLLK 80 (248)
T ss_pred cHHHHHHhCCHHHHHHHHH
Confidence 3888999999999986664
No 36
>COG1512 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]
Probab=27.96 E-value=34 Score=25.20 Aligned_cols=14 Identities=36% Similarity=0.541 Sum_probs=6.6
Q ss_pred HHHHHHHHhcCHHH
Q 041044 34 VRVNDLVSRMTLEE 47 (70)
Q Consensus 34 ~Ra~~Lv~~MTleE 47 (70)
+|+.|+...+|..|
T Consensus 34 ~~V~D~t~~Ls~~e 47 (271)
T COG1512 34 QRVTDLTGTLSAAE 47 (271)
T ss_pred ceeeeccccCChhh
Confidence 34555555444443
No 37
>PRK02868 hypothetical protein; Provisional
Probab=27.48 E-value=57 Score=23.82 Aligned_cols=19 Identities=21% Similarity=0.239 Sum_probs=15.8
Q ss_pred HHHHHHHhcCHHHHHhhhh
Q 041044 35 RVNDLVSRMTLEEKIGQMT 53 (70)
Q Consensus 35 Ra~~Lv~~MTleEKi~QL~ 53 (70)
-+.+++++||.|||.-.+.
T Consensus 59 ~l~~~v~~ms~eqq~~ll~ 77 (245)
T PRK02868 59 GLFELVQNMSPEQQQILLK 77 (245)
T ss_pred cHHHHHHhCCHHHHHHHHH
Confidence 4889999999999976553
No 38
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=26.51 E-value=1e+02 Score=20.80 Aligned_cols=37 Identities=11% Similarity=0.121 Sum_probs=21.3
Q ss_pred HHHHHHHHHHhhhhcccCCCCCCCCCHHHHHHHHHHhcCHHHHHh
Q 041044 6 ISLMGLLLLCCLAEAEYLKYKDPKQPLHVRVNDLVSRMTLEEKIG 50 (70)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~d~~ls~~~Ra~~Lv~~MTleEKi~ 50 (70)
++|++++--+.|+|.... .++|.+.+-+.+.-.|+..
T Consensus 15 lIll~ll~kfawkPI~~~--------LeeR~~~I~~~Ld~Ae~~r 51 (154)
T PRK06568 15 VIFVYLIYRPAKKAILNS--------LDAKILEVQEKVLKAEKLK 51 (154)
T ss_pred HHHHHHHHHHhHHHHHHH--------HHHHHHHHHHHHHHHHHHH
Confidence 334444333445555543 6777777777776666653
No 39
>cd07357 HN_L-whirlin_R2_like Second harmonin_N_like domain (repeat 2) of the long isoform of whirlin, and related domains. This subgroup contains the second of two harmonin_N_like domains found in the long isoform of whirlin, and related domains. Whirlin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein which binds various components of the Usher protein network of the inner ear and the retina: erythrocyte protein p55, usherin, VlGR1, and myosin XVa. The long isoform of whirlin contains two harmonin_N_like domains, and three PDZ protein-binding domains, PDZ1-3. The short whirlin isoform, derived from an alternative start ATG, lacks the first harmonin_N_like domain but has in common with the long isoform, this second harmonin_N_like domain (designated repeat 2, included in this subgroup) and PDZ3. This second harmonin_N_like domain is a putative protein-binding module based on its sequence similarity to the harmonin N-domain.
Probab=26.04 E-value=68 Score=19.93 Aligned_cols=43 Identities=19% Similarity=0.373 Sum_probs=33.6
Q ss_pred CCCCCCCHHHHHHHHHHhcCHHHHHhhhhccccCCCCHHHHhhc
Q 041044 25 YKDPKQPLHVRVNDLVSRMTLEEKIGQMTQIERGVASAEVMKKY 68 (70)
Q Consensus 25 ~~d~~ls~~~Ra~~Lv~~MTleEKi~QL~~~~~~~~~p~~~~~y 68 (70)
|.....+++.=+..|.+-+...||...|..+ |.-++|+|+..|
T Consensus 31 Y~~~~~tVealV~aL~elLnt~~K~sLLsEi-R~lI~p~Dl~RF 73 (81)
T cd07357 31 YRSGHISVDALVMALFELLNTHEKFSLLSEI-RELISPQDLDRF 73 (81)
T ss_pred HHcCCCCHHHHHHHHHHHhccHHHHHHHHHH-HHhcChhhhhHH
Confidence 5556778888899999999999999888654 455788877654
No 40
>PF10752 DUF2533: Protein of unknown function (DUF2533) ; InterPro: IPR019688 This entry represents proteins with unknown function, and appear to be restricted to Bacillus spp.
Probab=25.60 E-value=64 Score=20.18 Aligned_cols=32 Identities=25% Similarity=0.438 Sum_probs=21.2
Q ss_pred HHHHHHHhcCHHHHHhhhhccccCCCCHHHHhhc
Q 041044 35 RVNDLVSRMTLEEKIGQMTQIERGVASAEVMKKY 68 (70)
Q Consensus 35 Ra~~Lv~~MTleEKi~QL~~~~~~~~~p~~~~~y 68 (70)
.+.++-++|..--|-|.. ..|..++++++++|
T Consensus 49 ~IN~vT~~mN~LAk~giv--P~Rk~VT~eMV~EY 80 (84)
T PF10752_consen 49 KINEVTKEMNELAKQGIV--PTRKYVTVEMVKEY 80 (84)
T ss_pred HHHHHHHHHHHHHHcCCC--CcchhccHHHHHHH
Confidence 456555555544444322 57788999999998
No 41
>PF14842 FliG_N: FliG N-terminal domain; PDB: 3HJL_A 3AJC_A 3USY_B.
Probab=24.03 E-value=1.3e+02 Score=18.57 Aligned_cols=33 Identities=15% Similarity=0.214 Sum_probs=18.2
Q ss_pred HHHHHHHHHhcCHHHHHhhhhcccc-CCCCHHHH
Q 041044 33 HVRVNDLVSRMTLEEKIGQMTQIER-GVASAEVM 65 (70)
Q Consensus 33 ~~Ra~~Lv~~MTleEKi~QL~~~~~-~~~~p~~~ 65 (70)
++.+..+++.|+.+|.-..-..+.. ..++++++
T Consensus 20 ee~Aa~vlk~l~~~ei~~i~~~ma~l~~v~~~~~ 53 (108)
T PF14842_consen 20 EEAAAEVLKHLDEEEIERISREMAKLGSVSPEEV 53 (108)
T ss_dssp HHHHHHHHHHS-HHHHHHHHHHHHT-----HHHH
T ss_pred HHHHHHHHccCCHHHHHHHHHHHHccCCCCHHHH
Confidence 5678888999998887644433333 45666643
No 42
>PF14163 SieB: Superinfection exclusion protein B
Probab=23.93 E-value=90 Score=20.21 Aligned_cols=18 Identities=22% Similarity=0.316 Sum_probs=15.6
Q ss_pred HHHHHHHHHHhcCHHHHH
Q 041044 32 LHVRVNDLVSRMTLEEKI 49 (70)
Q Consensus 32 ~~~Ra~~Lv~~MTleEKi 49 (70)
..++++..+..||.+||.
T Consensus 68 ~~~~~~~~l~~Lt~~Eka 85 (151)
T PF14163_consen 68 KKKKIEKKLNSLTPEEKA 85 (151)
T ss_pred HHHHHHHHHHhCCHHHHH
Confidence 557788899999999997
No 43
>TIGR03475 tap_IncFII_lead RepA leader peptide Tap. This protein is a translated leader peptide that actis in the regulation of the expression of the plasmid replication protein RepA in incF2 group plasmids.
Probab=23.35 E-value=95 Score=15.38 Aligned_cols=17 Identities=41% Similarity=0.514 Sum_probs=11.5
Q ss_pred ChHHHHHH-HHHHHHHhh
Q 041044 1 MARTLISL-MGLLLLCCL 17 (70)
Q Consensus 1 ~~~~~~~~-~~~~~~~~~ 17 (70)
|-|-++-+ ++.|++-|+
T Consensus 1 M~rKvQ~~FLc~~LL~cn 18 (26)
T TIGR03475 1 MLRKVQYLFLCHLLLPCN 18 (26)
T ss_pred CchhHHHHHHHHHHhhhc
Confidence 55677765 787777664
No 44
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=23.24 E-value=1e+02 Score=17.76 Aligned_cols=18 Identities=11% Similarity=0.266 Sum_probs=12.5
Q ss_pred ChHHHHHHHHHHHHHhhh
Q 041044 1 MARTLISLMGLLLLCCLA 18 (70)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~ 18 (70)
|+++.+++++++++++.+
T Consensus 1 ~~~l~~~l~~~v~~~~~~ 18 (85)
T TIGR02209 1 EKKLYVLLLLAILVSAIS 18 (85)
T ss_pred CchHHHHHHHHHHHHHHH
Confidence 567777777777777644
No 45
>cd07358 harmonin_N_like_1 Domains similar to the N-terminal protein-binding module of harmonin. This domain is a putative protein-binding module based on its sequence similarity to the N-terminal domain of harmonin. Harmonin (not belonging to this group) is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein, which organizes the Usher protein network of the inner ear and the retina. This domain is also related to domains found in several other PDZ domain-containing scaffold proteins which organize supramolecular complexes. This subgroup is comprised of uncharacterized PDZ-containing proteins including a protein designated Bos taurus PDZ containing 7 which has an N-terminal PDZ domain and a C-terminal harmonin_N_like domain; however the characterized human PDZ containing 7 containing two PDZ domains does not appear to contain a harmonin_N_like domain.
Probab=21.97 E-value=1.1e+02 Score=18.83 Aligned_cols=43 Identities=19% Similarity=0.246 Sum_probs=33.3
Q ss_pred CCCCCCCHHHHHHHHHHhcCHHHHHhhhhccccCCCCHHHHhhcc
Q 041044 25 YKDPKQPLHVRVNDLVSRMTLEEKIGQMTQIERGVASAEVMKKYF 69 (70)
Q Consensus 25 ~~d~~ls~~~Ra~~Lv~~MTleEKi~QL~~~~~~~~~p~~~~~y~ 69 (70)
|.+.. +.+.=+..|++=+.-.||+-.|..+ |.-++|+|+..|.
T Consensus 31 Y~~~G-~VE~LV~~Ll~iLd~p~KllLL~eI-R~~v~p~DL~rFD 73 (78)
T cd07358 31 YVHEG-GVEDLVRPLLAILDRPEKLLLLRDI-RSVVTPTDLGRFD 73 (78)
T ss_pred HhcCC-CHHHHHHHHHHHHccHHHHHHHHHH-HhcCCHHHHHHHH
Confidence 44433 7888899999999999999766543 5678999987763
No 46
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=21.39 E-value=1.2e+02 Score=19.59 Aligned_cols=18 Identities=11% Similarity=0.113 Sum_probs=11.3
Q ss_pred HHHHHhcCHHHHHhhhhc
Q 041044 37 NDLVSRMTLEEKIGQMTQ 54 (70)
Q Consensus 37 ~~Lv~~MTleEKi~QL~~ 54 (70)
+.=++.||.||....+-.
T Consensus 84 qkRle~l~~eE~~~L~~e 101 (104)
T PF11460_consen 84 QKRLEELSPEELEALQAE 101 (104)
T ss_pred HHHHHhCCHHHHHHHHHH
Confidence 444567777777766543
No 47
>PRK04335 cell division protein ZipA; Provisional
Probab=20.46 E-value=62 Score=24.49 Aligned_cols=14 Identities=21% Similarity=0.494 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHh
Q 041044 3 RTLISLMGLLLLCC 16 (70)
Q Consensus 3 ~~~~~~~~~~~~~~ 16 (70)
|+++|.+|+++|.+
T Consensus 5 RlvLiivGAlAI~A 18 (313)
T PRK04335 5 RFVLIVVGALAIAA 18 (313)
T ss_pred eehHHHHHHHHHHH
Confidence 88999999999985
No 48
>PF11690 DUF3287: Protein of unknown function (DUF3287); InterPro: IPR021704 This eukaryotic family of proteins has no known function.
Probab=20.12 E-value=80 Score=20.49 Aligned_cols=26 Identities=12% Similarity=0.055 Sum_probs=18.6
Q ss_pred HHHHHhhh---hccccCCCCHHHHhhccC
Q 041044 45 LEEKIGQM---TQIERGVASAEVMKKYFI 70 (70)
Q Consensus 45 leEKi~QL---~~~~~~~~~p~~~~~y~~ 70 (70)
+.+|+.+| .....++..|.+|-+|+|
T Consensus 61 L~kKi~~l~veRkmr~Les~p~~W~~~gf 89 (109)
T PF11690_consen 61 LRKKIQDLRVERKMRALESHPFDWERRGF 89 (109)
T ss_pred HHHHHHHHHHHHHHHhccCChHHHHHhch
Confidence 56777776 124558889999988875
Done!