Query 035270
Match_columns 69
No_of_seqs 15 out of 17
Neff 2.3
Searched_HMMs 46136
Date Fri Mar 29 10:33:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035270.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035270hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03866 HAP: Hydrophobic abun 68.9 14 0.0003 27.0 4.9 49 9-57 6-54 (164)
2 PF03489 SapB_2: Saposin-like 63.8 6.3 0.00014 20.2 1.7 24 39-62 2-25 (35)
3 cd08780 Death_TRADD Death Doma 62.3 2.9 6.4E-05 27.8 0.3 23 31-53 17-39 (90)
4 PF12273 RCR: Chitin synthesis 61.9 11 0.00025 24.4 3.0 27 9-35 5-31 (130)
5 smart00741 SapB Saposin (B) Do 59.4 10 0.00023 20.5 2.2 29 34-62 38-66 (76)
6 PF01252 Peptidase_A8: Signal 55.9 38 0.00083 22.5 4.8 44 15-59 64-107 (150)
7 PF05545 FixQ: Cbb3-type cytoc 55.1 30 0.00066 19.2 3.7 30 3-32 6-35 (49)
8 PF02038 ATP1G1_PLM_MAT8: ATP1 47.5 21 0.00046 21.5 2.3 25 8-32 15-39 (50)
9 PF04112 Mak10: Mak10 subunit, 44.2 28 0.00061 23.7 2.8 37 28-66 111-147 (168)
10 PF10389 CoatB: Bacteriophage 40.9 69 0.0015 18.9 3.8 25 5-29 21-45 (46)
11 PF08514 STAG: STAG domain ; 38.2 28 0.00061 22.8 2.0 32 29-60 10-41 (118)
12 PF14116 YyzF: YyzF-like prote 32.5 43 0.00093 19.7 2.0 16 40-55 1-16 (48)
13 PF03540 TFIID_30kDa: Transcri 30.4 59 0.0013 19.4 2.4 24 29-52 20-43 (51)
14 PF00427 PBS_linker_poly: Phyc 29.6 34 0.00073 23.6 1.4 14 37-50 100-113 (131)
15 KOG1301 Vesicle trafficking pr 29.3 34 0.00074 29.5 1.6 14 45-58 180-193 (621)
16 PF00356 LacI: Bacterial regul 28.8 46 0.001 18.8 1.6 15 3-17 2-16 (46)
17 PRK14796 lipoprotein signal pe 28.3 2E+02 0.0043 19.7 5.0 39 18-59 77-115 (161)
18 PF05210 Sprouty: Sprouty prot 28.3 57 0.0012 22.1 2.3 24 45-68 29-60 (108)
19 PHA02698 hypothetical protein; 28.0 46 0.00099 22.3 1.7 17 45-61 10-26 (89)
20 COG0598 CorA Mg2+ and Co2+ tra 27.9 49 0.0011 24.3 2.0 24 35-58 131-154 (322)
21 cd01324 cbb3_Oxidase_CcoQ Cyto 27.9 1.3E+02 0.0027 17.3 3.8 30 3-32 7-36 (48)
22 PRK14782 lipoprotein signal pe 27.6 2.1E+02 0.0044 19.6 5.2 43 15-59 71-113 (157)
23 PF13303 PTS_EIIC_2: Phosphotr 26.8 80 0.0017 24.6 3.1 30 11-40 196-225 (327)
24 KOG1943 Beta-tubulin folding c 26.6 54 0.0012 30.1 2.4 43 22-65 354-397 (1133)
25 PLN00115 pollen allergen group 26.5 50 0.0011 22.3 1.7 19 13-31 7-25 (118)
26 PF05903 Peptidase_C97: PPPDE 26.4 48 0.001 22.3 1.7 20 35-54 104-123 (151)
27 PF10958 DUF2759: Protein of u 25.0 76 0.0016 19.4 2.2 14 16-29 28-41 (52)
28 COG3641 PfoR Predicted membran 24.9 33 0.00072 27.7 0.8 31 10-40 211-241 (348)
29 PF10821 DUF2567: Protein of u 24.9 2.4E+02 0.0053 20.3 5.1 34 6-39 48-81 (167)
30 KOG3364 Membrane protein invol 24.4 70 0.0015 23.1 2.3 22 11-32 127-149 (149)
31 PF08063 PADR1: PADR1 (NUC008) 24.2 44 0.00095 19.7 1.0 11 48-58 1-11 (55)
32 PF11190 DUF2976: Protein of u 24.1 1.8E+02 0.0039 18.9 4.0 26 3-28 19-44 (87)
33 PRK11702 hypothetical protein; 24.1 58 0.0013 22.1 1.7 20 41-60 38-59 (108)
34 PF09715 Plasmod_dom_1: Plasmo 23.4 46 0.001 21.3 1.1 11 42-52 15-25 (67)
35 PRK14781 lipoprotein signal pe 23.0 2.6E+02 0.0056 19.2 5.4 41 19-59 70-110 (153)
36 TIGR01519 plasmod_dom_1 Plasmo 22.7 48 0.001 21.4 1.1 11 42-52 15-25 (70)
37 cd02637 R3H_PARN R3H domain of 22.3 63 0.0014 19.6 1.5 23 36-58 19-41 (65)
38 PF06522 B12D: NADH-ubiquinone 22.1 1E+02 0.0022 18.7 2.4 16 15-30 11-26 (73)
39 PF03374 ANT: Phage antirepres 21.9 56 0.0012 20.0 1.2 27 31-60 28-54 (111)
40 PRK00567 mscL large-conductanc 21.7 1.2E+02 0.0026 20.9 2.9 32 33-64 23-54 (134)
41 PF05920 Homeobox_KN: Homeobox 21.6 1.3E+02 0.0028 16.5 2.6 24 4-32 17-40 (40)
42 PF04145 Ctr: Ctr copper trans 21.4 64 0.0014 20.2 1.4 37 4-40 22-58 (144)
43 TIGR02989 Sig-70_gvs1 RNA poly 21.4 1.3E+02 0.0027 18.6 2.8 28 1-33 128-155 (159)
44 PRK10699 phosphatidylglyceroph 21.4 2.6E+02 0.0056 20.9 4.8 58 5-62 43-105 (244)
45 PF15508 NAAA-beta: beta subun 21.1 1.1E+02 0.0024 18.9 2.5 17 3-19 72-88 (95)
46 TIGR02417 fruct_sucro_rep D-fr 21.0 66 0.0014 22.0 1.5 16 3-18 2-17 (327)
47 KOG3833 Uncharacterized conser 20.4 66 0.0014 26.9 1.7 27 14-40 307-339 (505)
No 1
>PF03866 HAP: Hydrophobic abundant protein (HAP) ; InterPro: IPR005566 Expression of Hydrophobic Abundant protein is thought to be developmentally regulated and possibly involved in spherule cell wall formation [].
Probab=68.90 E-value=14 Score=27.03 Aligned_cols=49 Identities=27% Similarity=0.264 Sum_probs=33.5
Q ss_pred HhhhHHHHHHHHHHHHHHHhhhcchhhhhhhhhhHHHHHHHHHHHhhhc
Q 035270 9 AGGVCLGAIVFAAIFAWFSSARNRVGRMFTLSCNTFIDSLIDQIVDGLF 57 (69)
Q Consensus 9 a~gvc~~av~~AA~FAw~ssAR~rVg~~ft~~cn~fvDslID~iVDgLF 57 (69)
|.++|+-|+..-|.=.=...+.+||+|.=--|-..-||++|-||+-||.
T Consensus 6 fvalc~~avvalate~~~~~s~~rva~l~v~gL~~Civa~vA~IvsGlL 54 (164)
T PF03866_consen 6 FVALCLFAVVALATEVEQKESNERVARLTVGGLLGCIVAMVANIVSGLL 54 (164)
T ss_pred HHHHHHHHHHHHhhHHHHHHhhhhhcccccccHHHHHHHHHHHHhhhHH
Confidence 6788888887665554444555666554444444559999999999874
No 2
>PF03489 SapB_2: Saposin-like type B, region 2; InterPro: IPR008138 Saposins are small lysosomal proteins that serve as activators of various lysosomal lipid-degrading enzymes []. They probably act by isolating the lipid substrate from the membrane surroundings, thus making it more accessible to the soluble degradative enzymes. All mammalian saposins are synthesized as a single precursor molecule (prosaposin) which contains four Saposin-B domains, yielding the active saposins after proteolytic cleavage, and two Saposin-A domains that are removed in the activation reaction. The Saposin-B domains also occur in other proteins, many of them active in the lysis of membranes [, ].; PDB: 3BQQ_A 2RB3_B 2R0R_A 3BQP_A 2R1Q_A 1NKL_A 1L9L_A 1QDM_C 3RFI_A 4DDJ_A ....
Probab=63.76 E-value=6.3 Score=20.23 Aligned_cols=24 Identities=25% Similarity=0.322 Sum_probs=19.1
Q ss_pred hhhhHHHHHHHHHHHhhhcccCCC
Q 035270 39 LSCNTFIDSLIDQIVDGLFYESEL 62 (69)
Q Consensus 39 ~~cn~fvDslID~iVDgLFye~e~ 62 (69)
.-|++|||.-.+.|++-|=...+|
T Consensus 2 ~~C~~~V~~y~~~ii~~l~~~~~p 25 (35)
T PF03489_consen 2 DECKNFVDQYGPQIIQLLEKQLDP 25 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSTH
T ss_pred cHHHHHHHHHHHHHHHHHHhcCCh
Confidence 469999999999999987655443
No 3
>cd08780 Death_TRADD Death Domain of Tumor Necrosis Factor Receptor 1-Associated Death Domain protein. Death domain (DD) of TRADD (TNF Receptor 1-Associated Death Domain or TNFRSF1A-associated via death domain) protein. TRADD is a central signaling adaptor for TNF-receptor 1 (TNFR1), mediating activation of Nuclear Factor -kappaB (NF-kB) and c-Jun N-terminal kinase (JNK), as well as caspase-dependent apoptosis. It also carries important immunological roles including germinal center formation, DR3-mediated T-cell stimulation, and TNFalpha-mediated inflammatory responses. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into s
Probab=62.29 E-value=2.9 Score=27.85 Aligned_cols=23 Identities=30% Similarity=0.612 Sum_probs=21.4
Q ss_pred cchhhhhhhhhhHHHHHHHHHHH
Q 035270 31 NRVGRMFTLSCNTFIDSLIDQIV 53 (69)
Q Consensus 31 ~rVg~~ft~~cn~fvDslID~iV 53 (69)
.++||.+-++|-.+-|..||+|-
T Consensus 17 K~laR~Lg~~cral~d~~ID~I~ 39 (90)
T cd08780 17 KPVGRSLQKNCRALRDPAIDNLA 39 (90)
T ss_pred HHHHHHHcccccccchhHHHHHH
Confidence 57899999999999999999996
No 4
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=61.89 E-value=11 Score=24.42 Aligned_cols=27 Identities=19% Similarity=0.298 Sum_probs=18.6
Q ss_pred HhhhHHHHHHHHHHHHHHHhhhcchhh
Q 035270 9 AGGVCLGAIVFAAIFAWFSSARNRVGR 35 (69)
Q Consensus 9 a~gvc~~av~~AA~FAw~ssAR~rVg~ 35 (69)
++.+.+++++...+|.+.++.|.|-|.
T Consensus 5 ~~iii~~i~l~~~~~~~~~rRR~r~G~ 31 (130)
T PF12273_consen 5 FAIIIVAILLFLFLFYCHNRRRRRRGL 31 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCC
Confidence 345556666677778888888877654
No 5
>smart00741 SapB Saposin (B) Domains. Present in multiple copies in prosaposin and in pulmonary surfactant-associated protein B. In plant aspartic proteinases, a saposin domain is circularly permuted. This causes the prediction algorithm to predict two such domains, where only one is truly present.
Probab=59.45 E-value=10 Score=20.46 Aligned_cols=29 Identities=21% Similarity=0.305 Sum_probs=21.4
Q ss_pred hhhhhhhhhHHHHHHHHHHHhhhcccCCC
Q 035270 34 GRMFTLSCNTFIDSLIDQIVDGLFYESEL 62 (69)
Q Consensus 34 g~~ft~~cn~fvDslID~iVDgLFye~e~ 62 (69)
+..+..-|+.|++...+.+++.+=....+
T Consensus 38 ~~~~~~~C~~~v~~~~~~ii~~i~~~~~p 66 (76)
T smart00741 38 PKSLSDQCKEFVDQYGPEIIDLLEQGLDP 66 (76)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhCCCH
Confidence 34567779999999999999887543333
No 6
>PF01252 Peptidase_A8: Signal peptidase (SPase) II This is family A8 in the peptidase classification. ; InterPro: IPR001872 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. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to the MEROPS peptidase family A8 (signal peptidase II family, clan AC). The catalytic residues have not been identified, but three conserved aspartates can be identified from sequence alignments. The type example is the Escherichia coli lipoprotein signal peptidase or SPase II (3.4.23.36 from EC). This enzyme recognises a conserved sequence and cuts in front of a cysteine residue to which a glyceride-fatty acid lipid is attached. SPase II is an integral membrane protein that is anchored in the membrane. Bacterial cell walls contain large amounts of murein lipoprotein, a small protein that is both N-terminally bound to lipid and attached to membrane peptidoglycan (murein) through the epsilon-amino group of its C-terminal lysine residue []. Secretion of this lipoprotein is facilitated by the action of the lipoprotein signal peptidases in this entry, located in the inner membrane [, ]. They enzyme are inhibited by globomycin and also by pepstatin, suggesting that they are aspartic peptidases [].; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis, 0016020 membrane
Probab=55.92 E-value=38 Score=22.52 Aligned_cols=44 Identities=14% Similarity=0.432 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHhhhcchhhhhhhhhhHHHHHHHHHHHhhhccc
Q 035270 15 GAIVFAAIFAWFSSARNRVGRMFTLSCNTFIDSLIDQIVDGLFYE 59 (69)
Q Consensus 15 ~av~~AA~FAw~ssAR~rVg~~ft~~cn~fvDslID~iVDgLFye 59 (69)
..++...++.|..+.|++ .+....++.-.+=..+=|++|-+|+.
T Consensus 64 ~~~~~~~i~~~~~~~~~~-~~~~~i~l~li~gGalgNliDR~~~G 107 (150)
T PF01252_consen 64 SILAILFILYFLFKKRKK-SKLLKIGLALILGGALGNLIDRLFYG 107 (150)
T ss_pred HHHHHHHHHHHHHHcccc-chhHHHHHHHHHhhhhhhHHHHccCC
Confidence 344445566666666666 77788888888888999999999884
No 7
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=55.14 E-value=30 Score=19.24 Aligned_cols=30 Identities=27% Similarity=0.413 Sum_probs=21.5
Q ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHhhhcc
Q 035270 3 MQWIEEAGGVCLGAIVFAAIFAWFSSARNR 32 (69)
Q Consensus 3 ~~~i~Ea~gvc~~av~~AA~FAw~ssAR~r 32 (69)
+++.....+.-+-.+...++..|..+.||+
T Consensus 6 ~~~~~~~~~~v~~~~~F~gi~~w~~~~~~k 35 (49)
T PF05545_consen 6 LQGFARSIGTVLFFVFFIGIVIWAYRPRNK 35 (49)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence 345566666667777778888899887763
No 8
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=47.47 E-value=21 Score=21.54 Aligned_cols=25 Identities=16% Similarity=0.336 Sum_probs=20.9
Q ss_pred HHhhhHHHHHHHHHHHHHHHhhhcc
Q 035270 8 EAGGVCLGAIVFAAIFAWFSSARNR 32 (69)
Q Consensus 8 Ea~gvc~~av~~AA~FAw~ssAR~r 32 (69)
.-+|+..|+++++.+.....|-|=|
T Consensus 15 rigGLi~A~vlfi~Gi~iils~kck 39 (50)
T PF02038_consen 15 RIGGLIFAGVLFILGILIILSGKCK 39 (50)
T ss_dssp HHHHHHHHHHHHHHHHHHHCTTHHH
T ss_pred hccchHHHHHHHHHHHHHHHcCccc
Confidence 4589999999999999998886543
No 9
>PF04112 Mak10: Mak10 subunit, NatC N(alpha)-terminal acetyltransferase; InterPro: IPR007244 NatC N(alpha)-terminal acetyltransferases contain Mak10p, Mak31p and Mak3p subunits. All three subunits are associated with each other to form the active complex [].
Probab=44.19 E-value=28 Score=23.66 Aligned_cols=37 Identities=30% Similarity=0.441 Sum_probs=32.2
Q ss_pred hhhcchhhhhhhhhhHHHHHHHHHHHhhhcccCCCCCCC
Q 035270 28 SARNRVGRMFTLSCNTFIDSLIDQIVDGLFYESELSDWS 66 (69)
Q Consensus 28 sAR~rVg~~ft~~cn~fvDslID~iVDgLFye~e~~dws 66 (69)
.-.++|=+.|.+|-.+|+|.+.+.|.-|-.||+| |++
T Consensus 111 ~l~~~vL~a~~~g~lk~~~~v~~~i~~~~v~EEE--Df~ 147 (168)
T PF04112_consen 111 QLVDKVLRAYCLGLLKFCDLVREIISSGDVYEEE--DFN 147 (168)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhccccccc--cCC
Confidence 3467899999999999999999999999999986 554
No 10
>PF10389 CoatB: Bacteriophage coat protein B ; InterPro: IPR008020 The major coat protein in the capsid of filamentous bacteriophage forms a helical assembly of about 7000 identical protomers, with each protomer comprised of 46 amino acids, after the cleavage of the signal peptide. Each protomer forms a slightly curved helix that combines to form a tubular structure that encapsulates the viral DNA [].; PDB: 2IFO_A.
Probab=40.92 E-value=69 Score=18.93 Aligned_cols=25 Identities=40% Similarity=0.676 Sum_probs=20.1
Q ss_pred HHHHHhhhHHHHHHHHHHHHHHHhh
Q 035270 5 WIEEAGGVCLGAIVFAAIFAWFSSA 29 (69)
Q Consensus 5 ~i~Ea~gvc~~av~~AA~FAw~ssA 29 (69)
.|..-+|..|+.+...+.|=|..|+
T Consensus 21 ~i~~ig~avL~v~V~i~v~kwiRra 45 (46)
T PF10389_consen 21 DIATIGGAVLGVIVGIAVYKWIRRA 45 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4666788888888999999998765
No 11
>PF08514 STAG: STAG domain ; InterPro: IPR013721 STAG domain proteins are subunits of cohesin complex - a protein complex required for sister chromatid cohesion in eukaryotes. The STAG domain is present in Schizosaccharomyces pombe (Fission yeast) mitotic cohesin Psc3, and the meiosis specific cohesin Rec11. Many organisms express a meiosis-specific STAG protein, for example, mice and humans have a meiosis specific variant called STAG3, although budding yeast does not have a meiosis specific version [].
Probab=38.25 E-value=28 Score=22.79 Aligned_cols=32 Identities=19% Similarity=0.451 Sum_probs=27.4
Q ss_pred hhcchhhhhhhhhhHHHHHHHHHHHhhhcccC
Q 035270 29 ARNRVGRMFTLSCNTFIDSLIDQIVDGLFYES 60 (69)
Q Consensus 29 AR~rVg~~ft~~cn~fvDslID~iVDgLFye~ 60 (69)
.|++-.+.|......|++.+|...-.++.||+
T Consensus 10 ~k~~~~k~Fr~~~~~F~~~lv~~~~~~~Lyd~ 41 (118)
T PF08514_consen 10 SKGKKFKKFRKNFCEFFDQLVEQCHSSILYDD 41 (118)
T ss_pred CCCcccHHHHHHHHHHHHHHHHHhcccccccH
Confidence 34555788999999999999999999999987
No 12
>PF14116 YyzF: YyzF-like protein
Probab=32.49 E-value=43 Score=19.68 Aligned_cols=16 Identities=38% Similarity=0.700 Sum_probs=13.9
Q ss_pred hhhHHHHHHHHHHHhh
Q 035270 40 SCNTFIDSLIDQIVDG 55 (69)
Q Consensus 40 ~cn~fvDslID~iVDg 55 (69)
.|..=||.+||.+||-
T Consensus 1 ~C~EHie~AiD~~Vde 16 (48)
T PF14116_consen 1 CCEEHIELAIDDFVDE 16 (48)
T ss_pred CcHHHHHHHHHHHHHh
Confidence 3788899999999995
No 13
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=30.43 E-value=59 Score=19.41 Aligned_cols=24 Identities=25% Similarity=0.538 Sum_probs=20.1
Q ss_pred hhcchhhhhhhhhhHHHHHHHHHH
Q 035270 29 ARNRVGRMFTLSCNTFIDSLIDQI 52 (69)
Q Consensus 29 AR~rVg~~ft~~cn~fvDslID~i 52 (69)
.=-||-|+.++.+-+||..+++.-
T Consensus 20 ~D~rv~RLvSLaaQKFisdI~~dA 43 (51)
T PF03540_consen 20 SDPRVKRLVSLAAQKFISDIANDA 43 (51)
T ss_pred CCHhHHHHHHHHHHHHHHHHHHHH
Confidence 346899999999999999887754
No 14
>PF00427 PBS_linker_poly: Phycobilisome Linker polypeptide; InterPro: IPR001297 Phycobilisomes (PBSs) are the major light-harvesting systems in cyanobacteria and red algae. PBS is a supercomplex that is composed of a core complex and multiple peripheral rod complexes. Typically, the core consists of two or five cylinders lying on the membrane with, in most cases, multiple rods radiating from the core to form a hemidiscoidal structure. The building units of the core cylinders and the peripheral rods are trimeric and hexameric discs, in which a monomer consists of a pair of related phycobiliproteins (PBPs), such as phycorerythrins, phycoerythrocyanins, phycocyanins, and allophycocyanins. The discs are connected to each other via specific linker polypeptides to form peripheral rods or core cylinders. Linker polypeptides share a conserved domain of ~180 residues, which can be present in one or multiple copies [, , , , ].; GO: 0015979 photosynthesis, 0030089 phycobilisome; PDB: 2L8V_A 2KY4_A 3OSJ_D 2L06_A 3NPH_B 2L3W_A 3PRU_C 3OHW_A.
Probab=29.57 E-value=34 Score=23.59 Aligned_cols=14 Identities=36% Similarity=0.643 Sum_probs=11.5
Q ss_pred hhhhhhHHHHHHHH
Q 035270 37 FTLSCNTFIDSLID 50 (69)
Q Consensus 37 ft~~cn~fvDslID 50 (69)
-+.|...|||++||
T Consensus 100 a~~G~~a~Id~lld 113 (131)
T PF00427_consen 100 ASQGFEAFIDALLD 113 (131)
T ss_dssp HHHHHHHHHHHHHT
T ss_pred HhcChHHHHHHHHC
Confidence 46788999999887
No 15
>KOG1301 consensus Vesicle trafficking protein Sly1 (Sec1 family) [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.29 E-value=34 Score=29.49 Aligned_cols=14 Identities=64% Similarity=1.137 Sum_probs=12.6
Q ss_pred HHHHHHHHHhhhcc
Q 035270 45 IDSLIDQIVDGLFY 58 (69)
Q Consensus 45 vDslID~iVDgLFy 58 (69)
|-.++|+||||||.
T Consensus 180 i~~~~~~IvdgLF~ 193 (621)
T KOG1301|consen 180 INALMDRIVDGLFS 193 (621)
T ss_pred HHHHHHHHHHHHHH
Confidence 77899999999995
No 16
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=28.81 E-value=46 Score=18.79 Aligned_cols=15 Identities=20% Similarity=0.353 Sum_probs=12.7
Q ss_pred HHHHHHHhhhHHHHH
Q 035270 3 MQWIEEAGGVCLGAI 17 (69)
Q Consensus 3 ~~~i~Ea~gvc~~av 17 (69)
|++|++.+||..+.|
T Consensus 2 i~dIA~~agvS~~TV 16 (46)
T PF00356_consen 2 IKDIAREAGVSKSTV 16 (46)
T ss_dssp HHHHHHHHTSSHHHH
T ss_pred HHHHHHHHCcCHHHH
Confidence 689999999988765
No 17
>PRK14796 lipoprotein signal peptidase; Provisional
Probab=28.29 E-value=2e+02 Score=19.75 Aligned_cols=39 Identities=21% Similarity=0.422 Sum_probs=23.5
Q ss_pred HHHHHHHHHHhhhcchhhhhhhhhhHHHHHHHHHHHhhhccc
Q 035270 18 VFAAIFAWFSSARNRVGRMFTLSCNTFIDSLIDQIVDGLFYE 59 (69)
Q Consensus 18 ~~AA~FAw~ssAR~rVg~~ft~~cn~fvDslID~iVDgLFye 59 (69)
++.+++.|..+.+++ ....+..-.+=..+=|++|-++|.
T Consensus 77 ~~~~~~~~~~~~~~~---~~~~~l~li~gGalGNliDR~~~G 115 (161)
T PRK14796 77 AAVALAIWMARSTTR---LAAIALGLIIGGAIGNAIDRLAYG 115 (161)
T ss_pred HHHHHHHHHHHcccH---HHHHHHHHHHHHHHhhHHHHhhcC
Confidence 344555565544433 333555556677888888888764
No 18
>PF05210 Sprouty: Sprouty protein (Spry); InterPro: IPR007875 Sprouty (Spry) and Spred (Sprouty related EVH1 domain) proteins have been identified as inhibitors of the Ras/mitogen-activated protein kinase (MAPK) cascade, a pathway crucial for developmental processes initiated by activation of various receptor tyrosine kinases [1,2]. These proteins share a conserved, C-terminal cysteine-rich region, the SPR domain. This domain has been defined as a novel cytosol to membrane translocation domain [, , , ]. It has been found to be a PtdIns(4,5)P2-binding domain that targets the proteins to a cellular localization that maximizes their inhibitory potential [, ]. It also mediates homodimer formation of these proteins [, ]. The SPR domain can occur in association with the WH1 domain (see IPR000697 from INTERPRO) (located in the N-terminal part of the proteins) in the Spred proteins.; GO: 0007275 multicellular organismal development, 0009966 regulation of signal transduction, 0016020 membrane
Probab=28.28 E-value=57 Score=22.12 Aligned_cols=24 Identities=38% Similarity=0.692 Sum_probs=17.5
Q ss_pred HHHHHHHH-----Hhhhccc---CCCCCCCcC
Q 035270 45 IDSLIDQI-----VDGLFYE---SELSDWSDE 68 (69)
Q Consensus 45 vDslID~i-----VDgLFye---~e~~dwsd~ 68 (69)
+.++||.+ |+||||. +++.|++|+
T Consensus 29 ~~~~i~~~SCmccak~l~YHC~~d~e~d~ad~ 60 (108)
T PF05210_consen 29 AESCIDYVSCMCCAKGLFYHCMSDDEGDCADH 60 (108)
T ss_pred HHHHHHhhhhHHHHHHHHHhcccCCCcccCCC
Confidence 56778875 8999994 566667763
No 19
>PHA02698 hypothetical protein; Provisional
Probab=28.02 E-value=46 Score=22.33 Aligned_cols=17 Identities=29% Similarity=0.655 Sum_probs=12.9
Q ss_pred HHHHHHHHHhhhcccCC
Q 035270 45 IDSLIDQIVDGLFYESE 61 (69)
Q Consensus 45 vDslID~iVDgLFye~e 61 (69)
||++||++.|+.=-.++
T Consensus 10 v~~lIDrmlddvqvnGD 26 (89)
T PHA02698 10 VDELIDRMLDDVQVNGD 26 (89)
T ss_pred HHHHHHHHHhccccCCc
Confidence 78999999998654443
No 20
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=27.95 E-value=49 Score=24.35 Aligned_cols=24 Identities=29% Similarity=0.538 Sum_probs=20.9
Q ss_pred hhhhhhhhHHHHHHHHHHHhhhcc
Q 035270 35 RMFTLSCNTFIDSLIDQIVDGLFY 58 (69)
Q Consensus 35 ~~ft~~cn~fvDslID~iVDgLFy 58 (69)
+..+.+...++-.++|.++|.+|-
T Consensus 131 ~~~~~~~~~l~~~lld~i~d~~~~ 154 (322)
T COG0598 131 TLLTRGADELLYALLDAIVDNYFP 154 (322)
T ss_pred ccccCCHHHHHHHHHHHHHHhhHH
Confidence 577889999999999999998873
No 21
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=27.90 E-value=1.3e+02 Score=17.29 Aligned_cols=30 Identities=13% Similarity=0.351 Sum_probs=20.5
Q ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHhhhcc
Q 035270 3 MQWIEEAGGVCLGAIVFAAIFAWFSSARNR 32 (69)
Q Consensus 3 ~~~i~Ea~gvc~~av~~AA~FAw~ssAR~r 32 (69)
+.++...-|+-.-.+...++..|+-+-|||
T Consensus 7 lr~~a~~~~l~~~~~~Figiv~wa~~p~~k 36 (48)
T cd01324 7 LRGLADSWGLLYLALFFLGVVVWAFRPGRK 36 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 345555556655567777888888887775
No 22
>PRK14782 lipoprotein signal peptidase; Provisional
Probab=27.63 E-value=2.1e+02 Score=19.61 Aligned_cols=43 Identities=16% Similarity=0.438 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHhhhcchhhhhhhhhhHHHHHHHHHHHhhhccc
Q 035270 15 GAIVFAAIFAWFSSARNRVGRMFTLSCNTFIDSLIDQIVDGLFYE 59 (69)
Q Consensus 15 ~av~~AA~FAw~ssAR~rVg~~ft~~cn~fvDslID~iVDgLFye 59 (69)
..+++..++.|..+.+. -+....+..-.+=..+=|++|-++|.
T Consensus 71 ~~~~~~~i~~~~~~~~~--~~~~~~~l~lI~gGalGNliDRi~~G 113 (157)
T PRK14782 71 ALAICAGVVIWVRRSGG--SRWMLISAGLLIGGALANVLDRVIYG 113 (157)
T ss_pred HHHHHHHHHHHHHHccc--cHHHHHHHHHHHHHHHhhHHHHhhcC
Confidence 33445556666654322 22333455555677888888888774
No 23
>PF13303 PTS_EIIC_2: Phosphotransferase system, EIIC
Probab=26.84 E-value=80 Score=24.57 Aligned_cols=30 Identities=20% Similarity=0.212 Sum_probs=23.9
Q ss_pred hhHHHHHHHHHHHHHHHhhhcchhhhhhhh
Q 035270 11 GVCLGAIVFAAIFAWFSSARNRVGRMFTLS 40 (69)
Q Consensus 11 gvc~~av~~AA~FAw~ssAR~rVg~~ft~~ 40 (69)
...++.+++..+|+|.|...|+.|..+..+
T Consensus 196 AA~iG~~a~~~g~av~s~k~N~~G~~iA~~ 225 (327)
T PF13303_consen 196 AANIGCCAQMFGFAVMSYKVNKIGGTIAQG 225 (327)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCcCCchhhh
Confidence 344566677779999999999999888765
No 24
>KOG1943 consensus Beta-tubulin folding cofactor D [Posttranslational modification, protein turnover, chaperones]
Probab=26.64 E-value=54 Score=30.12 Aligned_cols=43 Identities=28% Similarity=0.338 Sum_probs=32.6
Q ss_pred HHHHHHhhhcchhhhhhhhhhHHHHHHHHHHHhhhcccCC-CCCC
Q 035270 22 IFAWFSSARNRVGRMFTLSCNTFIDSLIDQIVDGLFYESE-LSDW 65 (69)
Q Consensus 22 ~FAw~ssAR~rVg~~ft~~cn~fvDslID~iVDgLFye~e-~~dw 65 (69)
-+.--|||-.-+||+-+--=-.++|.+|++++| +|..-| ++.|
T Consensus 354 dt~VrWSaAKg~grvt~rlp~~Lad~vi~svid-~~~p~e~~~aW 397 (1133)
T KOG1943|consen 354 DTVVRWSAAKGLGRVTSRLPPELADQVIGSVID-LFNPAEDDSAW 397 (1133)
T ss_pred cchhhHHHHHHHHHHHccCcHHHHHHHHHHHHH-hcCcCCchhHH
Confidence 344457777778888776668899999999999 887776 4455
No 25
>PLN00115 pollen allergen group 3; Provisional
Probab=26.53 E-value=50 Score=22.35 Aligned_cols=19 Identities=42% Similarity=0.357 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 035270 13 CLGAIVFAAIFAWFSSARN 31 (69)
Q Consensus 13 c~~av~~AA~FAw~ssAR~ 31 (69)
-+++++.||+||=.|+..+
T Consensus 7 ~~~~~~~a~l~~~~~~g~~ 25 (118)
T PLN00115 7 LLLAVALAALFAVGSCATE 25 (118)
T ss_pred HHHHHHHHHHhhhhhcCCc
Confidence 4788999999999998864
No 26
>PF05903 Peptidase_C97: PPPDE putative peptidase domain; InterPro: IPR008580 This domain consists of the N-terminal portion of several eukaryotic sequences. The function of this domain is unknown.; PDB: 2WP7_A 3EBQ_A.
Probab=26.36 E-value=48 Score=22.25 Aligned_cols=20 Identities=25% Similarity=0.579 Sum_probs=17.1
Q ss_pred hhhhhhhhHHHHHHHHHHHh
Q 035270 35 RMFTLSCNTFIDSLIDQIVD 54 (69)
Q Consensus 35 ~~ft~~cn~fvDslID~iVD 54 (69)
.+|+.-||.|-|.|.+.++.
T Consensus 104 ~Ll~~NCNhFs~~l~~~L~g 123 (151)
T PF05903_consen 104 HLLNRNCNHFSDALCQFLTG 123 (151)
T ss_dssp BTTTBSHHHHHHHHHHHHHS
T ss_pred hhhhhhhhHHHHHHHHHhCC
Confidence 46888999999999998864
No 27
>PF10958 DUF2759: Protein of unknown function (DUF2759); InterPro: IPR024490 This family of proteins with unknown function appear to be restricted to Bacillales.
Probab=24.95 E-value=76 Score=19.37 Aligned_cols=14 Identities=43% Similarity=0.944 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHhh
Q 035270 16 AIVFAAIFAWFSSA 29 (69)
Q Consensus 16 av~~AA~FAw~ssA 29 (69)
+.++.+.|.||+-+
T Consensus 28 ~~~t~~VFGwFtim 41 (52)
T PF10958_consen 28 ALVTVAVFGWFTIM 41 (52)
T ss_pred HHHHHHHHHHHHHH
Confidence 45667899999854
No 28
>COG3641 PfoR Predicted membrane protein, putative toxin regulator [General function prediction only]
Probab=24.94 E-value=33 Score=27.68 Aligned_cols=31 Identities=29% Similarity=0.215 Sum_probs=25.1
Q ss_pred hhhHHHHHHHHHHHHHHHhhhcchhhhhhhh
Q 035270 10 GGVCLGAIVFAAIFAWFSSARNRVGRMFTLS 40 (69)
Q Consensus 10 ~gvc~~av~~AA~FAw~ssAR~rVg~~ft~~ 40 (69)
++...+..+++++|+|.|..-|+.|..|+..
T Consensus 211 GAA~iG~sa~~v~f~v~s~rvN~~G~~~a~~ 241 (348)
T COG3641 211 GAASIGCSAQMVGFAVGSYRVNSWGVPFALL 241 (348)
T ss_pred hhhhhchHHHHHHhheeeeeeccccchHHHH
Confidence 3445566678889999999999999998865
No 29
>PF10821 DUF2567: Protein of unknown function (DUF2567); InterPro: IPR021213 This is a bacterial family of proteins with unknown function.
Probab=24.87 E-value=2.4e+02 Score=20.27 Aligned_cols=34 Identities=21% Similarity=0.050 Sum_probs=22.3
Q ss_pred HHHHhhhHHHHHHHHHHHHHHHhhhcchhhhhhh
Q 035270 6 IEEAGGVCLGAIVFAAIFAWFSSARNRVGRMFTL 39 (69)
Q Consensus 6 i~Ea~gvc~~av~~AA~FAw~ssAR~rVg~~ft~ 39 (69)
..=+.++.++.-+.+|.-+|.+|.|.-..-...+
T Consensus 48 ~a~f~~l~lv~Gvvaav~~W~~R~~RGP~~~~~l 81 (167)
T PF10821_consen 48 DALFVLLGLVLGVVAAVAVWLWRRRRGPVMVLAL 81 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHH
Confidence 3446677777778888899998874443333333
No 30
>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]
Probab=24.42 E-value=70 Score=23.12 Aligned_cols=22 Identities=32% Similarity=0.087 Sum_probs=12.1
Q ss_pred hhHHHHHHHHHHHH-HHHhhhcc
Q 035270 11 GVCLGAIVFAAIFA-WFSSARNR 32 (69)
Q Consensus 11 gvc~~av~~AA~FA-w~ssAR~r 32 (69)
+|.++|++..++.+ |++.++.|
T Consensus 127 ~v~gGa~~~v~gl~g~~~~~~~~ 149 (149)
T KOG3364|consen 127 VVVGGAALAVGGLAGIASLAMRR 149 (149)
T ss_pred eehhhHHHHHHHHHHHHHHHhcC
Confidence 34444444444444 88877654
No 31
>PF08063 PADR1: PADR1 (NUC008) domain; InterPro: IPR012982 This domain is found in poly(ADP-ribose)-synthetases []. The function of this domain is unknown.; GO: 0003950 NAD+ ADP-ribosyltransferase activity, 0005634 nucleus; PDB: 2JVN_A 4DQY_E 2RIQ_A.
Probab=24.24 E-value=44 Score=19.68 Aligned_cols=11 Identities=36% Similarity=1.005 Sum_probs=7.8
Q ss_pred HHHHHHhhhcc
Q 035270 48 LIDQIVDGLFY 58 (69)
Q Consensus 48 lID~iVDgLFy 58 (69)
|+|++.|+|++
T Consensus 1 ll~r~aD~m~f 11 (55)
T PF08063_consen 1 LLDRCADGMLF 11 (55)
T ss_dssp HHHHHHHHHHH
T ss_pred CHHHhhHHHHh
Confidence 56777777765
No 32
>PF11190 DUF2976: Protein of unknown function (DUF2976); InterPro: IPR021356 Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=24.11 E-value=1.8e+02 Score=18.86 Aligned_cols=26 Identities=23% Similarity=0.318 Sum_probs=18.6
Q ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHh
Q 035270 3 MQWIEEAGGVCLGAIVFAAIFAWFSS 28 (69)
Q Consensus 3 ~~~i~Ea~gvc~~av~~AA~FAw~ss 28 (69)
++.-...+.+-++-+.||++|-|+..
T Consensus 19 i~~y~~d~~~l~gLv~~a~afi~Va~ 44 (87)
T PF11190_consen 19 IKGYAKDGVLLLGLVLAAAAFIVVAK 44 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556667778888888888877643
No 33
>PRK11702 hypothetical protein; Provisional
Probab=24.08 E-value=58 Score=22.10 Aligned_cols=20 Identities=25% Similarity=0.770 Sum_probs=14.0
Q ss_pred hhHHHHHHHHHHHh--hhcccC
Q 035270 41 CNTFIDSLIDQIVD--GLFYES 60 (69)
Q Consensus 41 cn~fvDslID~iVD--gLFye~ 60 (69)
..+|||..||+.|+ ||=|++
T Consensus 38 ~D~~vD~fIde~Ie~ngL~f~G 59 (108)
T PRK11702 38 IDATVDAFIDEVIEPNGLAFDG 59 (108)
T ss_pred HHHHHHHHHHHHHhcCCceecC
Confidence 56788888888876 344444
No 34
>PF09715 Plasmod_dom_1: Plasmodium protein of unknown function (Plasmod_dom_1); InterPro: IPR006410 These sequences represent an uncharacterised family consisting of a small number of hypothetical proteins of the malaria parasite Plasmodium falciparum (isolate 3D7).
Probab=23.36 E-value=46 Score=21.25 Aligned_cols=11 Identities=64% Similarity=0.896 Sum_probs=7.1
Q ss_pred hHHHHHHHHHH
Q 035270 42 NTFIDSLIDQI 52 (69)
Q Consensus 42 n~fvDslID~i 52 (69)
|-|+|.+|||=
T Consensus 15 nifidklId~~ 25 (67)
T PF09715_consen 15 NIFIDKLIDNN 25 (67)
T ss_pred HHHHHHHHccc
Confidence 56677777753
No 35
>PRK14781 lipoprotein signal peptidase; Provisional
Probab=23.03 E-value=2.6e+02 Score=19.15 Aligned_cols=41 Identities=15% Similarity=0.289 Sum_probs=22.3
Q ss_pred HHHHHHHHHhhhcchhhhhhhhhhHHHHHHHHHHHhhhccc
Q 035270 19 FAAIFAWFSSARNRVGRMFTLSCNTFIDSLIDQIVDGLFYE 59 (69)
Q Consensus 19 ~AA~FAw~ssAR~rVg~~ft~~cn~fvDslID~iVDgLFye 59 (69)
.++++.|....+.+--+....+.--.+=..+=|++|-++|.
T Consensus 70 ~~~i~~~~~~~~~~~~~~~~~~l~lI~gGAlGNliDRi~~G 110 (153)
T PRK14781 70 IAALLWYLTSSAPKMSRLSRAGAALLLGGAVGNFIDRLDGR 110 (153)
T ss_pred HHHHHHHHHHhcccccHHHHHHHHHHHHHHHhhHHHHHhcC
Confidence 33444454432222223333555556678888888888874
No 36
>TIGR01519 plasmod_dom_1 Plasmodium falciparum uncharacterized domain. This model represents an uncharacterized domain present in roughly eight hypothetical proteins of the malaria parasite Plasmodium falciparum.
Probab=22.66 E-value=48 Score=21.35 Aligned_cols=11 Identities=64% Similarity=0.896 Sum_probs=7.1
Q ss_pred hHHHHHHHHHH
Q 035270 42 NTFIDSLIDQI 52 (69)
Q Consensus 42 n~fvDslID~i 52 (69)
|-|+|.+|||=
T Consensus 15 nifidklid~~ 25 (70)
T TIGR01519 15 NIFIDKLIDNN 25 (70)
T ss_pred HHHHHHHHccc
Confidence 55677777753
No 37
>cd02637 R3H_PARN R3H domain of Poly(A)-specific ribonuclease (PARN). PARN is a poly(A)-specific 3' exonuclease from the RNase D family that, in Xenopus, deadenylates a specific class of maternal mRNAs which results in their translational repression. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.
Probab=22.28 E-value=63 Score=19.61 Aligned_cols=23 Identities=26% Similarity=0.364 Sum_probs=17.5
Q ss_pred hhhhhhhHHHHHHHHHHHhhhcc
Q 035270 36 MFTLSCNTFIDSLIDQIVDGLFY 58 (69)
Q Consensus 36 ~ft~~cn~fvDslID~iVDgLFy 58 (69)
+-=.+||.|.+.||=|.+.-=|-
T Consensus 19 l~le~cngf~RkLiyq~l~~~~~ 41 (65)
T cd02637 19 LELEPCNGFQRKLIYQTLEQKYP 41 (65)
T ss_pred ccccccccHHHHHHHHHHHHHcc
Confidence 34468999999999888776544
No 38
>PF06522 B12D: NADH-ubiquinone reductase complex 1 MLRQ subunit; InterPro: IPR010530 The MLRQ subunit of mitochondrial NADH-ubiquinone reductase complex I is nuclear [] and is found in plants [], insects, fungi and higher metazoans []. It appears to act within the membrane and, in mammals, is highly expressed in muscle and neural tissue, indicative of a role in ATP generation [].
Probab=22.10 E-value=1e+02 Score=18.68 Aligned_cols=16 Identities=25% Similarity=-0.143 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHhhh
Q 035270 15 GAIVFAAIFAWFSSAR 30 (69)
Q Consensus 15 ~av~~AA~FAw~ssAR 30 (69)
++|++|+++|=++..|
T Consensus 11 ~~vg~a~~~a~~~~~r 26 (73)
T PF06522_consen 11 VIVGVAVGGATFYLYR 26 (73)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444455555555555
No 39
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=21.86 E-value=56 Score=20.00 Aligned_cols=27 Identities=15% Similarity=0.420 Sum_probs=22.2
Q ss_pred cchhhhhhhhhhHHHHHHHHHHHhhhcccC
Q 035270 31 NRVGRMFTLSCNTFIDSLIDQIVDGLFYES 60 (69)
Q Consensus 31 ~rVg~~ft~~cn~fvDslID~iVDgLFye~ 60 (69)
+.++.++.+|.|+|.+-|.| .|..|..
T Consensus 28 ~~~AK~L~i~~~~l~~~Lr~---~g~l~~~ 54 (111)
T PF03374_consen 28 REAAKLLGIGRNKLFQWLRE---KGWLYRR 54 (111)
T ss_pred HHHHHHhCCCHHHHHHHHHh---CCceEEC
Confidence 45788899999999999998 5777764
No 40
>PRK00567 mscL large-conductance mechanosensitive channel; Reviewed
Probab=21.70 E-value=1.2e+02 Score=20.92 Aligned_cols=32 Identities=19% Similarity=0.326 Sum_probs=21.6
Q ss_pred hhhhhhhhhhHHHHHHHHHHHhhhcccCCCCC
Q 035270 33 VGRMFTLSCNTFIDSLIDQIVDGLFYESELSD 64 (69)
Q Consensus 33 Vg~~ft~~cn~fvDslID~iVDgLFye~e~~d 64 (69)
+|.-||.=-|+||+.+|--+|-.+|...+-++
T Consensus 23 IG~AF~~iV~slV~diimPlI~~~~g~~~~~~ 54 (134)
T PRK00567 23 IGAAFGKIVSSLVDDIIMPPIGLLIGGVDFSN 54 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhccCCccccc
Confidence 35556766788888888888877765444443
No 41
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=21.62 E-value=1.3e+02 Score=16.48 Aligned_cols=24 Identities=29% Similarity=0.534 Sum_probs=15.7
Q ss_pred HHHHHHhhhHHHHHHHHHHHHHHHhhhcc
Q 035270 4 QWIEEAGGVCLGAIVFAAIFAWFSSARNR 32 (69)
Q Consensus 4 ~~i~Ea~gvc~~av~~AA~FAw~ssAR~r 32 (69)
+.|++-.|+..--| =.||..||.|
T Consensus 17 ~~L~~~tgls~~Qi-----~~WF~NaRrR 40 (40)
T PF05920_consen 17 EELAKQTGLSRKQI-----SNWFINARRR 40 (40)
T ss_dssp HHHHHHHTS-HHHH-----HHHHHHHHHH
T ss_pred HHHHHHcCCCHHHH-----HHHHHHhHcc
Confidence 45666666666544 3599999976
No 42
>PF04145 Ctr: Ctr copper transporter family; InterPro: IPR007274 The redox active metal copper is an essential cofactor in critical biological processes such as respiration, iron transport, oxidative stress protection, hormone production, and pigmentation. A widely conserved family of high-affinity copper transport proteins (Ctr proteins) mediates copper uptake at the plasma membrane. A series of clustered methionine residues in the hydrophilic extracellular domain, and an MXXXM motif in the second transmembrane domain, are important for copper uptake. These methionines probably coordinate copper during the process of metal transport.; GO: 0005375 copper ion transmembrane transporter activity, 0035434 copper ion transmembrane transport, 0016021 integral to membrane; PDB: 2LS4_A 2LS2_A 2LS3_A.
Probab=21.41 E-value=64 Score=20.22 Aligned_cols=37 Identities=19% Similarity=0.476 Sum_probs=17.9
Q ss_pred HHHHHHhhhHHHHHHHHHHHHHHHhhhcchhhhhhhh
Q 035270 4 QWIEEAGGVCLGAIVFAAIFAWFSSARNRVGRMFTLS 40 (69)
Q Consensus 4 ~~i~Ea~gvc~~av~~AA~FAw~ssAR~rVg~~ft~~ 40 (69)
....+.++.|++..+.|...=|....|.++-+.....
T Consensus 22 ~s~~~~~~sci~~f~lav~~e~L~~~r~~~~~~~~~~ 58 (144)
T PF04145_consen 22 SSAGAYVGSCIGVFLLAVLYEFLKALRRRLERRWARR 58 (144)
T ss_dssp ---HHHHHHHHHHHHHHHHTTT---------------
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4567899999999999999999999999988877643
No 43
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2).
Probab=21.40 E-value=1.3e+02 Score=18.61 Aligned_cols=28 Identities=21% Similarity=0.259 Sum_probs=20.7
Q ss_pred CcHHHHHHHhhhHHHHHHHHHHHHHHHhhhcch
Q 035270 1 MDMQWIEEAGGVCLGAIVFAAIFAWFSSARNRV 33 (69)
Q Consensus 1 mD~~~i~Ea~gvc~~av~~AA~FAw~ssAR~rV 33 (69)
++.++|+|.-|+..++|- ....+||+++
T Consensus 128 ~~~~eIA~~l~is~~tv~-----~~l~Rar~~L 155 (159)
T TIGR02989 128 VSLTALAEQLGRTVNAVY-----KALSRLRVRL 155 (159)
T ss_pred CCHHHHHHHhCCCHHHHH-----HHHHHHHHHH
Confidence 467899999999987765 4466666654
No 44
>PRK10699 phosphatidylglycerophosphatase B; Provisional
Probab=21.40 E-value=2.6e+02 Score=20.88 Aligned_cols=58 Identities=16% Similarity=0.314 Sum_probs=40.0
Q ss_pred HHHHHhhhHHHHHHHHHHHHHH-Hhhhcchhhhh----hhhhhHHHHHHHHHHHhhhcccCCC
Q 035270 5 WIEEAGGVCLGAIVFAAIFAWF-SSARNRVGRMF----TLSCNTFIDSLIDQIVDGLFYESEL 62 (69)
Q Consensus 5 ~i~Ea~gvc~~av~~AA~FAw~-ssAR~rVg~~f----t~~cn~fvDslID~iVDgLFye~e~ 62 (69)
.|.|.+|.-.+.++|+...+|+ ++.|.|--..+ .++..-.+...+-+++.-.|-|.-|
T Consensus 43 ~lT~t~~~p~~~iT~~~l~~~~~~~~r~~~k~~l~l~~~l~~~i~~~~~~k~~iK~~~~epRP 105 (244)
T PRK10699 43 WVTETVTQPWGILTHVLLCGWFLWCLRFRLKAALVLFAILAAAILVGQGVKSWIKERVQEPRP 105 (244)
T ss_pred heecCCCCchHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCc
Confidence 4789999999999999988888 77776654443 3344444555556666666666555
No 45
>PF15508 NAAA-beta: beta subunit of N-acylethanolamine-hydrolyzing acid amidase
Probab=21.07 E-value=1.1e+02 Score=18.88 Aligned_cols=17 Identities=41% Similarity=0.675 Sum_probs=14.4
Q ss_pred HHHHHHHhhhHHHHHHH
Q 035270 3 MQWIEEAGGVCLGAIVF 19 (69)
Q Consensus 3 ~~~i~Ea~gvc~~av~~ 19 (69)
|++|++++|+.++-+..
T Consensus 72 irGIA~~~gi~l~~iv~ 88 (95)
T PF15508_consen 72 IRGIAKAAGIPLGDIVL 88 (95)
T ss_pred HHHHHHHhCCCHHHHHH
Confidence 78999999999887764
No 46
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=21.02 E-value=66 Score=22.03 Aligned_cols=16 Identities=19% Similarity=0.169 Sum_probs=11.3
Q ss_pred HHHHHHHhhhHHHHHH
Q 035270 3 MQWIEEAGGVCLGAIV 18 (69)
Q Consensus 3 ~~~i~Ea~gvc~~av~ 18 (69)
|++|++.+||.-+.|-
T Consensus 2 i~dIA~~aGVS~~TVS 17 (327)
T TIGR02417 2 LSDIAKLAGVSKTTAS 17 (327)
T ss_pred HHHHHHHhCCCHHHHH
Confidence 5778888888766553
No 47
>KOG3833 consensus Uncharacterized conserved protein, contains RtcB domain [Function unknown]
Probab=20.43 E-value=66 Score=26.92 Aligned_cols=27 Identities=33% Similarity=0.603 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHh------hhcchhhhhhhh
Q 035270 14 LGAIVFAAIFAWFSS------ARNRVGRMFTLS 40 (69)
Q Consensus 14 ~~av~~AA~FAw~ss------AR~rVg~~ft~~ 40 (69)
+-++++||-|||+-+ +|+-.+.+|..+
T Consensus 307 l~~MaaAaNfAwVNRs~~Tf~~RqAF~KvF~~s 339 (505)
T KOG3833|consen 307 LKGMAAAANFAWVNRSSMTFLTRQAFAKVFNTS 339 (505)
T ss_pred HHHHHhhhhhhhhhHHHHHHHHHHHHHHhcCCC
Confidence 567899999999976 466667776555
Done!