Query 033495
Match_columns 118
No_of_seqs 144 out of 209
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 02:56:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033495.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033495hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02704 GASA: Gibberellin reg 100.0 1.1E-36 2.4E-41 202.8 5.3 60 59-118 1-60 (60)
2 PF07172 GRP: Glycine rich pro 96.6 0.0045 9.7E-08 44.1 4.9 26 1-26 1-27 (95)
3 PF03058 Sar8_2: Sar8.2 family 76.8 4.7 0.0001 29.4 3.9 32 1-32 1-34 (93)
4 PF07127 Nodulin_late: Late no 65.2 6.3 0.00014 24.8 2.2 21 1-21 1-21 (54)
5 PF04202 Mfp-3: Foot protein 3 64.3 3.7 8E-05 28.6 1.1 25 1-25 1-25 (71)
6 PHA02637 TNF-alpha-receptor-li 62.5 6.6 0.00014 29.9 2.3 12 82-96 41-52 (127)
7 PRK09040 hypothetical protein; 61.7 7.8 0.00017 30.5 2.6 18 1-18 22-39 (214)
8 PF09257 BCMA-Tall_bind: BCMA, 61.4 7 0.00015 24.4 1.8 21 63-83 16-36 (39)
9 PRK10523 lipoprotein involved 60.9 7.5 0.00016 31.9 2.5 13 50-62 44-56 (234)
10 PF10731 Anophelin: Thrombin i 58.3 9.3 0.0002 26.2 2.2 16 1-16 1-17 (65)
11 PF10717 ODV-E18: Occlusion-de 57.9 24 0.00051 25.4 4.3 15 7-21 29-43 (85)
12 PF13956 Ibs_toxin: Toxin Ibs, 50.1 8.2 0.00018 20.9 0.7 9 1-9 1-9 (19)
13 PF15284 PAGK: Phage-encoded v 49.2 35 0.00075 23.2 3.8 15 1-15 1-15 (61)
14 PF00879 Defensin_propep: Defe 47.3 49 0.0011 21.7 4.2 12 15-26 10-21 (52)
15 TIGR03656 IsdC heme uptake pro 43.0 16 0.00034 30.0 1.6 19 1-19 1-19 (217)
16 PF04277 OAD_gamma: Oxaloaceta 42.9 48 0.001 21.5 3.7 7 8-14 15-21 (79)
17 TIGR02804 ExbD_2 TonB system t 39.6 50 0.0011 23.3 3.6 13 9-21 13-25 (121)
18 PLN03207 stomagen; Provisional 38.3 51 0.0011 24.7 3.6 19 3-21 9-27 (113)
19 PRK10081 entericidin B membran 38.1 44 0.00094 21.7 2.8 19 3-21 4-22 (48)
20 TIGR02052 MerP mercuric transp 36.3 26 0.00057 21.1 1.6 17 1-18 1-17 (92)
21 TIGR00247 conserved hypothetic 36.1 43 0.00093 28.0 3.3 18 1-18 1-18 (342)
22 PF05984 Cytomega_UL20A: Cytom 34.8 48 0.001 24.3 3.0 18 1-18 1-18 (100)
23 PF13677 MotB_plug: Membrane M 29.4 60 0.0013 20.8 2.5 14 7-20 26-39 (58)
24 TIGR01614 PME_inhib pectineste 27.8 33 0.00073 24.8 1.2 14 66-79 34-47 (178)
25 PF12276 DUF3617: Protein of u 27.6 76 0.0016 22.8 3.0 6 1-6 1-6 (162)
26 PF07699 GCC2_GCC3: GCC2 and G 27.1 82 0.0018 18.9 2.7 27 87-113 10-40 (48)
27 PLN02745 Putative pectinestera 27.0 2.3E+02 0.0049 26.2 6.5 17 64-80 82-98 (596)
28 PF01826 TIL: Trypsin Inhibito 26.4 3 6.6E-05 25.6 -3.9 39 58-100 8-46 (55)
29 PF04999 FtsL: Cell division p 25.3 93 0.002 20.9 3.0 13 4-16 14-26 (97)
30 PRK07718 fliL flagellar basal 25.1 98 0.0021 22.8 3.2 16 1-16 1-16 (142)
31 PF02402 Lysis_col: Lysis prot 25.1 48 0.001 21.4 1.4 13 1-13 1-13 (46)
32 PF15079 DUF4546: Domain of un 24.2 26 0.00056 28.6 0.0 21 76-96 168-189 (205)
33 PRK09125 DNA ligase; Provision 23.9 86 0.0019 25.6 3.0 9 30-38 27-35 (282)
34 PRK13697 cytochrome c6; Provis 23.5 64 0.0014 21.7 1.9 11 1-11 1-11 (111)
35 PF06692 MNSV_P7B: Melon necro 23.2 87 0.0019 21.3 2.4 16 6-21 14-29 (61)
36 PRK11024 colicin uptake protei 23.2 53 0.0011 23.8 1.5 12 9-20 24-35 (141)
37 PF10969 DUF2771: Protein of u 23.1 83 0.0018 24.1 2.6 8 31-38 30-37 (161)
38 COG5487 Small integral membran 23.1 1E+02 0.0022 20.6 2.6 18 2-19 31-48 (54)
39 PRK10780 periplasmic chaperone 22.7 1.1E+02 0.0024 22.8 3.2 14 1-14 1-14 (165)
40 TIGR03659 IsdE heme ABC transp 22.3 72 0.0016 25.0 2.2 16 3-18 2-17 (289)
41 PRK13618 psbV cytochrome c-550 22.0 87 0.0019 24.4 2.6 6 1-6 1-6 (163)
42 PRK08457 motB flagellar motor 21.8 86 0.0019 25.3 2.6 19 6-24 24-42 (257)
43 TIGR02600 Verrucomicrobium spi 21.6 85 0.0018 31.8 2.9 21 1-21 1-21 (1265)
44 PRK11267 biopolymer transport 21.4 70 0.0015 23.2 1.9 12 9-20 27-38 (141)
45 PF00322 Endothelin: Endotheli 21.2 38 0.00082 20.3 0.3 17 66-82 4-21 (31)
46 TIGR01655 yxeA_fam conserved h 21.0 87 0.0019 22.4 2.2 12 1-12 1-12 (114)
47 TIGR02801 tolR TolR protein. T 20.8 77 0.0017 22.3 1.9 11 10-20 15-25 (129)
48 PF05399 EVI2A: Ectropic viral 20.4 1.2E+02 0.0027 25.2 3.3 18 7-24 137-154 (227)
49 PF02472 ExbD: Biopolymer tran 20.2 34 0.00074 23.4 0.0 9 10-18 18-26 (130)
No 1
>PF02704 GASA: Gibberellin regulated protein; InterPro: IPR003854 This is the GASA gibberellin regulated cysteine rich protein family. The expression of these proteins is up-regulated by the plant hormone gibberellin, most of these proteins have some role in plant development. There are 12 cysteine residues conserved within the alignment giving the potential for these proteins to posses 6 disulphide bonds.
Probab=100.00 E-value=1.1e-36 Score=202.85 Aligned_cols=60 Identities=57% Similarity=1.363 Sum_probs=59.4
Q ss_pred CChHHhhHHhhhCCCcchHHHHHHHhcccccccCCCCCCCCCCCCcccccccCCCCCCCC
Q 033495 59 ECGPRCTTRCSKTQYRKPCLFFCQKCCAKCLCVPAGFYGNKQSCPCYNNWKTKRGGPKCP 118 (118)
Q Consensus 59 ~C~~~C~~RCs~~~~~~~C~~~C~~CC~~C~CVP~GtyGnk~~CPCY~~~~t~~g~pKCP 118 (118)
||+++|++|||+++++++||++||+||++|+|||||||||+|+||||+||+||+|+||||
T Consensus 1 ~C~~~C~~RCs~~~~~~~C~~~C~~CC~~C~CVP~GT~gn~~~CpCY~~m~t~~g~pKCP 60 (60)
T PF02704_consen 1 DCGGACSVRCSKASRKKRCMRACGTCCAKCKCVPPGTYGNKEECPCYRDMKTHGGKPKCP 60 (60)
T ss_pred CcchHHHHHHhccCCchHHHHHHHHHhccCcccCCCCCCCCccCCChhhhhccCCCCCCc
Confidence 799999999999999999999999999999999999999999999999999999999999
No 2
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=96.62 E-value=0.0045 Score=44.06 Aligned_cols=26 Identities=31% Similarity=0.327 Sum_probs=15.5
Q ss_pred CchhH-HHHHHHHHHHHHHHHHHhhhc
Q 033495 1 MASKL-SVVAFSLVLIFLFLVENHATS 26 (118)
Q Consensus 1 Mak~~-~~~ll~l~~~~l~~~~v~a~~ 26 (118)
||.|. .+|.|+|+++||+.++|+|..
T Consensus 1 MaSK~~llL~l~LA~lLlisSevaa~~ 27 (95)
T PF07172_consen 1 MASKAFLLLGLLLAALLLISSEVAARE 27 (95)
T ss_pred CchhHHHHHHHHHHHHHHHHhhhhhHH
Confidence 88554 444455556666666666643
No 3
>PF03058 Sar8_2: Sar8.2 family; InterPro: IPR004297 Members of this family are found in Solanaceae spp. plants, a taxonomic group (family) that includes pepper and tobacco plant species. Synthesis of these proteins is induced by Tobacco mosaic virus and salicylic acid []; indeed they are thought to be involved in the development of systemic acquired resistance (SAR) after an initial hypersensitive response to microbial infection [, ]. SAR is characterised by long-lasting resistance to infection by a wide range of pathogens, extending to plant tissues distant from the initial infection site [].
Probab=76.79 E-value=4.7 Score=29.40 Aligned_cols=32 Identities=25% Similarity=0.424 Sum_probs=14.9
Q ss_pred CchhHHHH-HHHH-HHHHHHHHHHhhhccccCCC
Q 033495 1 MASKLSVV-AFSL-VLIFLFLVENHATSIVEAPT 32 (118)
Q Consensus 1 Mak~~~~~-ll~l-~~~~l~~~~v~a~~~~~~~~ 32 (118)
|+-+..+| .|.| |+++++.++|.|-..+++++
T Consensus 1 M~~Ktnlfl~lSLailLmIISSqv~AREms~A~a 34 (93)
T PF03058_consen 1 MVSKTNLFLCLSLAILLMIISSQVDAREMSKASA 34 (93)
T ss_pred CcchhhhHHHHHHHHHHHHHhhHHHHHHHhcccc
Confidence 56444444 3333 23334445555555555543
No 4
>PF07127 Nodulin_late: Late nodulin protein; InterPro: IPR009810 This family consists of several plant specific late nodulin sequences which are homologous to the Pisum sativum (Garden pea) ENOD3 protein. ENOD3 is expressed in the late stages of root nodule formation and contains two pairs of cysteine residues toward the proteins C terminus which may be involved in metal-binding [].; GO: 0046872 metal ion binding, 0009878 nodule morphogenesis
Probab=65.22 E-value=6.3 Score=24.83 Aligned_cols=21 Identities=38% Similarity=0.490 Sum_probs=11.9
Q ss_pred CchhHHHHHHHHHHHHHHHHH
Q 033495 1 MASKLSVVAFSLVLIFLFLVE 21 (118)
Q Consensus 1 Mak~~~~~ll~l~~~~l~~~~ 21 (118)
||+.+=.+..+.+.++|+++.
T Consensus 1 Ma~ilKFvY~mIiflslflv~ 21 (54)
T PF07127_consen 1 MAKILKFVYAMIIFLSLFLVV 21 (54)
T ss_pred CccchhhHHHHHHHHHHHHhh
Confidence 786666555555555555443
No 5
>PF04202 Mfp-3: Foot protein 3; InterPro: IPR007328 Mytilus foot protein-3 (Mfp-3) is a highly polymorphic protein family located in the byssal adhesive plaques of blue mussels.
Probab=64.31 E-value=3.7 Score=28.61 Aligned_cols=25 Identities=36% Similarity=0.347 Sum_probs=16.8
Q ss_pred CchhHHHHHHHHHHHHHHHHHHhhh
Q 033495 1 MASKLSVVAFSLVLIFLFLVENHAT 25 (118)
Q Consensus 1 Mak~~~~~ll~l~~~~l~~~~v~a~ 25 (118)
|-++-..+||+||+|-++.+|..|.
T Consensus 1 mnn~Si~VLlaLvLIg~fAVqSdag 25 (71)
T PF04202_consen 1 MNNLSIAVLLALVLIGSFAVQSDAG 25 (71)
T ss_pred CCchhHHHHHHHHHHhhheeeecCc
Confidence 5556667778888777776665554
No 6
>PHA02637 TNF-alpha-receptor-like protein; Provisional
Probab=62.52 E-value=6.6 Score=29.86 Aligned_cols=12 Identities=50% Similarity=1.445 Sum_probs=6.2
Q ss_pred HHhcccccccCCCCC
Q 033495 82 QKCCAKCLCVPAGFY 96 (118)
Q Consensus 82 ~~CC~~C~CVP~Gty 96 (118)
+.||.+| |||||
T Consensus 41 ~~CC~kC---PPGt~ 52 (127)
T PHA02637 41 NLCCLSC---PPGTY 52 (127)
T ss_pred CeEcCCC---CCCCE
Confidence 4455555 45554
No 7
>PRK09040 hypothetical protein; Provisional
Probab=61.70 E-value=7.8 Score=30.49 Aligned_cols=18 Identities=22% Similarity=0.187 Sum_probs=10.7
Q ss_pred CchhHHHHHHHHHHHHHH
Q 033495 1 MASKLSVVAFSLVLIFLF 18 (118)
Q Consensus 1 Mak~~~~~ll~l~~~~l~ 18 (118)
|+-++.+|||++|.++++
T Consensus 22 Ms~Lm~iFlli~v~~~~~ 39 (214)
T PRK09040 22 MSVLLGAFVLILVGVIGV 39 (214)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 566666777776644433
No 8
>PF09257 BCMA-Tall_bind: BCMA, TALL-1 binding; InterPro: IPR015337 Cytokines can be grouped into a family on the basis of sequence, functional and structural similarities [, , ]. Tumor necrosis factor (TNF) (also known as TNF-alpha or cachectin) is a monocyte-derived cytotoxin that has been implicated in tumour regression, septic shock and cachexia [, ]. The protein is synthesised as a prohormone with an unusually long and atypical signal sequence, which is absent from the mature secreted cytokine []. A short hydrophobic stretch of amino acids serves to anchor the prohormone in lipid bilayers []. Both the mature protein and a partially-processed form of the hormone are secreted after cleavage of the propeptide []. There are a number of different families of TNF, but all these cytokines seem to form homotrimeric (or heterotrimeric in the case of LT-alpha/beta) complexes that are recognised by their specific receptors. Members of this entry, which are predominantly found in the tumour necrosis factor receptor superfamily member 17, BCMA, are required for binding to tumour necrosis factor ligand TALL-1 []. ; PDB: 2KN1_A 1OQD_R 1XU2_T.
Probab=61.36 E-value=7 Score=24.42 Aligned_cols=21 Identities=33% Similarity=0.853 Sum_probs=16.6
Q ss_pred HhhHHhhhCCCcchHHHHHHH
Q 033495 63 RCTTRCSKTQYRKPCLFFCQK 83 (118)
Q Consensus 63 ~C~~RCs~~~~~~~C~~~C~~ 83 (118)
-|--|||+..-+-.|.+||+.
T Consensus 16 PChLRCsn~tPP~~Cq~YCna 36 (39)
T PF09257_consen 16 PCHLRCSNNTPPLPCQRYCNA 36 (39)
T ss_dssp EHHHHHTSSS--TTTHHHHHH
T ss_pred cceeecCCCCCCccchhhccc
Confidence 388999998788899999984
No 9
>PRK10523 lipoprotein involved with copper homeostasis and adhesion; Provisional
Probab=60.86 E-value=7.5 Score=31.90 Aligned_cols=13 Identities=23% Similarity=0.447 Sum_probs=8.2
Q ss_pred CCCCCCCCCCChH
Q 033495 50 TTQGSLQPQECGP 62 (118)
Q Consensus 50 ~~~g~l~~~~C~~ 62 (118)
.=+|-|+-.||++
T Consensus 44 tY~G~LPCADC~G 56 (234)
T PRK10523 44 SWRGVLPCADCEG 56 (234)
T ss_pred EEeEEEECCCCCC
Confidence 3456677777764
No 10
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=58.27 E-value=9.3 Score=26.23 Aligned_cols=16 Identities=31% Similarity=0.515 Sum_probs=8.5
Q ss_pred Cchh-HHHHHHHHHHHH
Q 033495 1 MASK-LSVVAFSLVLIF 16 (118)
Q Consensus 1 Mak~-~~~~ll~l~~~~ 16 (118)
||.+ ++|.||+++++.
T Consensus 1 MA~Kl~vialLC~aLva 17 (65)
T PF10731_consen 1 MASKLIVIALLCVALVA 17 (65)
T ss_pred CcchhhHHHHHHHHHHH
Confidence 8844 445555554444
No 11
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=57.88 E-value=24 Score=25.39 Aligned_cols=15 Identities=27% Similarity=0.549 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHH
Q 033495 7 VVAFSLVLIFLFLVE 21 (118)
Q Consensus 7 ~~ll~l~~~~l~~~~ 21 (118)
.+|.+||||+|+.-.
T Consensus 29 tILivLVIIiLlIml 43 (85)
T PF10717_consen 29 TILIVLVIIILLIML 43 (85)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444444444333
No 12
>PF13956 Ibs_toxin: Toxin Ibs, type I toxin-antitoxin system
Probab=50.07 E-value=8.2 Score=20.86 Aligned_cols=9 Identities=11% Similarity=0.246 Sum_probs=3.6
Q ss_pred CchhHHHHH
Q 033495 1 MASKLSVVA 9 (118)
Q Consensus 1 Mak~~~~~l 9 (118)
|.|.+.|++
T Consensus 1 MMk~vIIlv 9 (19)
T PF13956_consen 1 MMKLVIILV 9 (19)
T ss_pred CceehHHHH
Confidence 344443333
No 13
>PF15284 PAGK: Phage-encoded virulence factor
Probab=49.18 E-value=35 Score=23.20 Aligned_cols=15 Identities=13% Similarity=0.133 Sum_probs=7.6
Q ss_pred CchhHHHHHHHHHHH
Q 033495 1 MASKLSVVAFSLVLI 15 (118)
Q Consensus 1 Mak~~~~~ll~l~~~ 15 (118)
|.|+-+|||.+++++
T Consensus 1 Mkk~ksifL~l~~~L 15 (61)
T PF15284_consen 1 MKKFKSIFLALVFIL 15 (61)
T ss_pred ChHHHHHHHHHHHHH
Confidence 565555555444333
No 14
>PF00879 Defensin_propep: Defensin propeptide The pattern for this Prosite entry doesn't match the propeptide.; InterPro: IPR002366 Defensins are 2-6 kDa, cationic, microbicidal peptides active against many Gram-negative and Gram-positive bacteria, fungi, and enveloped viruses [], containing three pairs of intramolecular disulphide bonds []. On the basis of their size and pattern of disulphide bonding, mammalian defensins are classified into alpha, beta and theta categories. Alpha-defensins, which have been identified in humans, monkeys and several rodent species, are particularly abundant in neutrophils, certain macrophage populations and Paneth cells of the small intestine. Every mammalian species explored thus far has beta-defensins. In cows, as many as 13 beta-defensins exist in neutrophils. However, in other species, beta-defensins are more often produced by epithelial cells lining various organs (e.g. the epidermis, bronchial tree and genitourinary tract). Theta-defensins are cyclic and have so far only been identified in primate phagocytes. Defensins are produced constitutively and/or in response to microbial products or proinflammatory cytokines. Some defensins are also called corticostatins (CS) because they inhibit corticotropin-stimulated corticosteroid production. The mechanism(s) by which microorganisms are killed and/or inactivated by defensins is not understood completely. However, it is generally believed that killing is a consequence of disruption of the microbial membrane. The polar topology of defensins, with spatially separated charged and hydrophobic regions, allows them to insert themselves into the phospholipid membranes so that their hydrophobic regions are buried within the lipid membrane interior and their charged (mostly cationic) regions interact with anionic phospholipid head groups and water. Subsequently, some defensins can aggregate to form `channel-like' pores; others might bind to and cover the microbial membrane in a `carpet-like' manner. The net outcome is the disruption of membrane integrity and function, which ultimately leads to the lysis of microorganisms. Some defensins are synthesized as propeptides which may be relevant to this process - in neutrophils only the mature peptides have been identified but in Paneth cells, the propeptide is stored in vesicles [] and appears to be cleaved by trypsin on activation. ; GO: 0006952 defense response
Probab=47.33 E-value=49 Score=21.70 Aligned_cols=12 Identities=17% Similarity=0.465 Sum_probs=5.3
Q ss_pred HHHHHHHHhhhc
Q 033495 15 IFLFLVENHATS 26 (118)
Q Consensus 15 ~~l~~~~v~a~~ 26 (118)
++|+..++.|+.
T Consensus 10 lLLlAlqaQAep 21 (52)
T PF00879_consen 10 LLLLALQAQAEP 21 (52)
T ss_pred HHHHHHHHhccc
Confidence 333334455553
No 15
>TIGR03656 IsdC heme uptake protein IsdC. Isd proteins are iron-regulated surface proteins found in Bacillus, Staphylococcus and Listeria species and are responsible for heme scavenging from hemoproteins. The IsdC protein consists of an N-terminal hydrophobic signal sequence, a central NEAT (NEAr Transporter, pfam05031) domain which confers the ability to bind heme and a C-terminal SrtB processing signal which targets the protein to the cell wall. IsdC is believed to make a direct contact with, and transfer heme to, the heme-binding component (IsdE) of an ABC transporter in the cytoplasmic membrane, and to receive heme from other NEAT-containing heme-binding proteins also localized in the cell wall.
Probab=43.02 E-value=16 Score=29.96 Aligned_cols=19 Identities=32% Similarity=0.546 Sum_probs=11.3
Q ss_pred CchhHHHHHHHHHHHHHHH
Q 033495 1 MASKLSVVAFSLVLIFLFL 19 (118)
Q Consensus 1 Mak~~~~~ll~l~~~~l~~ 19 (118)
|.+++++++|++++.|+++
T Consensus 1 mk~~~~~~~~~~~~~f~~~ 19 (217)
T TIGR03656 1 MKKILVFAFFTTILAFIIL 19 (217)
T ss_pred CcchhhHHHHHHHHHHhcc
Confidence 7777776555555555543
No 16
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=42.92 E-value=48 Score=21.54 Aligned_cols=7 Identities=43% Similarity=0.629 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 033495 8 VAFSLVL 14 (118)
Q Consensus 8 ~ll~l~~ 14 (118)
++++|++
T Consensus 15 VF~~L~l 21 (79)
T PF04277_consen 15 VFLVLIL 21 (79)
T ss_pred HHHHHHH
Confidence 3333333
No 17
>TIGR02804 ExbD_2 TonB system transport protein ExbD, group 2. Members of this family are Gram-negative bacterial inner membrane proteins, generally designated ExbD, related to the TolR family modeled by TIGRFAMs TIGR02801. Members always are encoded next to a protein designated ExbB (TIGR02797), related to the TolQ family modeled by TIGRFAMs TIGR02796. ExbD and ExbB together form a proton channel through which they can harness the proton-motive force to energize TonB, which in turn energizes TonB-dependent receptors in the outer membrane. TonB-dependent receptors with known specificity tend to import siderophores or vitamin B12. A TonB system and Tol-Pal system often will co-exist in a single bacterial genome.
Probab=39.57 E-value=50 Score=23.30 Aligned_cols=13 Identities=23% Similarity=0.404 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHH
Q 033495 9 AFSLVLIFLFLVE 21 (118)
Q Consensus 9 ll~l~~~~l~~~~ 21 (118)
+|+|+++||+.+.
T Consensus 13 vflLLiFFmvtt~ 25 (121)
T TIGR02804 13 MLVLLAIVLIIST 25 (121)
T ss_pred HHHHHHHHHHHHH
Confidence 3444445554443
No 18
>PLN03207 stomagen; Provisional
Probab=38.28 E-value=51 Score=24.74 Aligned_cols=19 Identities=16% Similarity=0.249 Sum_probs=9.3
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 033495 3 SKLSVVAFSLVLIFLFLVE 21 (118)
Q Consensus 3 k~~~~~ll~l~~~~l~~~~ 21 (118)
+..+..||+|+..|||.+.
T Consensus 9 tt~~~~lffLl~~llla~~ 27 (113)
T PLN03207 9 TTRCLTLFFLLFFLLLGAY 27 (113)
T ss_pred cchhHHHHHHHHHHHHHHH
Confidence 4445555555555554433
No 19
>PRK10081 entericidin B membrane lipoprotein; Provisional
Probab=38.14 E-value=44 Score=21.67 Aligned_cols=19 Identities=16% Similarity=0.146 Sum_probs=9.2
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 033495 3 SKLSVVAFSLVLIFLFLVE 21 (118)
Q Consensus 3 k~~~~~ll~l~~~~l~~~~ 21 (118)
|++.+++++|++++++..-
T Consensus 4 k~i~~i~~~l~~~~~l~~C 22 (48)
T PRK10081 4 KTIAAIFSVLVLSTVLTAC 22 (48)
T ss_pred HHHHHHHHHHHHHHHHhhh
Confidence 4444445555555544433
No 20
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=36.32 E-value=26 Score=21.12 Aligned_cols=17 Identities=24% Similarity=0.108 Sum_probs=7.6
Q ss_pred CchhHHHHHHHHHHHHHH
Q 033495 1 MASKLSVVAFSLVLIFLF 18 (118)
Q Consensus 1 Mak~~~~~ll~l~~~~l~ 18 (118)
|.|+ ..+|++||+.|+.
T Consensus 1 ~~~~-~~~~~~~~~~~~~ 17 (92)
T TIGR02052 1 MKKL-ATLLALFVLTSLP 17 (92)
T ss_pred ChhH-HHHHHHHHHhcch
Confidence 4443 4444444444443
No 21
>TIGR00247 conserved hypothetical protein, YceG family. This uncharacterized protein family, found in three of four microbial genomes, virtually always once per genome, includes YceG from Escherichia coli. This protein is encoded next to PabC, 4-amino-4-deoxychorismate lyase, in E. coli and numerous other proteobacteria, but that proximity is not conserved in other lineages. Numerous members of this family have been misannotated as aminodeoxychorismate lyase, apparently because of promiximty to PabC.
Probab=36.15 E-value=43 Score=28.02 Aligned_cols=18 Identities=28% Similarity=0.556 Sum_probs=9.7
Q ss_pred CchhHHHHHHHHHHHHHH
Q 033495 1 MASKLSVVAFSLVLIFLF 18 (118)
Q Consensus 1 Mak~~~~~ll~l~~~~l~ 18 (118)
|.|++.++++++++++++
T Consensus 1 ~~~~~~~i~~~~vl~~~~ 18 (342)
T TIGR00247 1 MKKFLIIILLLFVLFFIL 18 (342)
T ss_pred ChhHHHHHHHHHHHHHHH
Confidence 666765555544444443
No 22
>PF05984 Cytomega_UL20A: Cytomegalovirus UL20A protein; InterPro: IPR009245 This family consists of several Cytomegalovirus UL20A proteins. UL20A is thought to be a glycoprotein [].
Probab=34.85 E-value=48 Score=24.29 Aligned_cols=18 Identities=22% Similarity=0.312 Sum_probs=9.5
Q ss_pred CchhHHHHHHHHHHHHHH
Q 033495 1 MASKLSVVAFSLVLIFLF 18 (118)
Q Consensus 1 Mak~~~~~ll~l~~~~l~ 18 (118)
||+.+-|+-|..|.+-++
T Consensus 1 MaRRlwiLslLAVtLtVA 18 (100)
T PF05984_consen 1 MARRLWILSLLAVTLTVA 18 (100)
T ss_pred CchhhHHHHHHHHHHHHH
Confidence 787765554444443333
No 23
>PF13677 MotB_plug: Membrane MotB of proton-channel complex MotA/MotB
Probab=29.37 E-value=60 Score=20.79 Aligned_cols=14 Identities=0% Similarity=0.320 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHH
Q 033495 7 VVAFSLVLIFLFLV 20 (118)
Q Consensus 7 ~~ll~l~~~~l~~~ 20 (118)
++||+|++++...+
T Consensus 26 TLLl~fFVlL~s~s 39 (58)
T PF13677_consen 26 TLLLAFFVLLFSMS 39 (58)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444444333
No 24
>TIGR01614 PME_inhib pectinesterase inhibitor domain. This model describes a plant domain of about 200 amino acids, characterized by four conserved Cys residues, shown in a pectinesterase inhibitor from Kiwi to form two disulfide bonds: first to second and third to fourth. Roughly half the members of this family have the region described by this model followed immediately by a pectinesterase domain, pfam01095. This suggests that the pairing of the enzymatic domain and its inhibitor reflects a conserved regulatory mechanism for this enzyme family.
Probab=27.82 E-value=33 Score=24.80 Aligned_cols=14 Identities=36% Similarity=0.757 Sum_probs=7.8
Q ss_pred HHhhhCCCcchHHH
Q 033495 66 TRCSKTQYRKPCLF 79 (118)
Q Consensus 66 ~RCs~~~~~~~C~~ 79 (118)
.-|..+.+++.|..
T Consensus 34 ~~C~~t~~~~~C~~ 47 (178)
T TIGR01614 34 RICKKTEYPNFCIS 47 (178)
T ss_pred HHHcCCCChHHHHH
Confidence 34556666666654
No 25
>PF12276 DUF3617: Protein of unknown function (DUF3617); InterPro: IPR022061 This family of proteins is found in bacteria. Proteins in this family are typically between 155 and 179 amino acids in length. There is a single completely conserved residue C that may be functionally important.
Probab=27.62 E-value=76 Score=22.84 Aligned_cols=6 Identities=33% Similarity=0.462 Sum_probs=2.3
Q ss_pred CchhHH
Q 033495 1 MASKLS 6 (118)
Q Consensus 1 Mak~~~ 6 (118)
|-+.++
T Consensus 1 M~~~~~ 6 (162)
T PF12276_consen 1 MKRRLL 6 (162)
T ss_pred CchHHH
Confidence 333333
No 26
>PF07699 GCC2_GCC3: GCC2 and GCC3; InterPro: IPR011641 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Tyrosine-protein kinases can transfer a phosphate group from ATP to a tyrosine residue in a protein. These enzymes can be divided into two main groups []: Receptor tyrosine kinases (RTK), which are transmembrane proteins involved in signal transduction; they play key roles in growth, differentiation, metabolism, adhesion, motility, death and oncogenesis []. RTKs are composed of 3 domains: an extracellular domain (binds ligand), a transmembrane (TM) domain, and an intracellular catalytic domain (phosphorylates substrate). The TM domain plays an important role in the dimerisation process necessary for signal transduction []. Cytoplasmic / non-receptor tyrosine kinases, which act as regulatory proteins, playing key roles in cell differentiation, motility, proliferation, and survival. For example, the Src-family of protein-tyrosine kinases []. This entry represents various ephrin type A and B receptors, which have tyrosine kinase activity.
Probab=27.09 E-value=82 Score=18.89 Aligned_cols=27 Identities=37% Similarity=0.733 Sum_probs=19.6
Q ss_pred cccccCCCCCCCC---CCC-CcccccccCCC
Q 033495 87 KCLCVPAGFYGNK---QSC-PCYNNWKTKRG 113 (118)
Q Consensus 87 ~C~CVP~GtyGnk---~~C-PCY~~~~t~~g 113 (118)
.|.=.|.|||-+. .+| +|-.+..|..-
T Consensus 10 ~C~~Cp~GtYq~~~g~~~C~~Cp~g~~T~~~ 40 (48)
T PF07699_consen 10 KCQPCPKGTYQDEEGQTSCTPCPPGSTTSSE 40 (48)
T ss_pred ccCCCCCCccCCccCCccCccCcCCCccCCc
Confidence 4555689999854 579 89999877543
No 27
>PLN02745 Putative pectinesterase/pectinesterase inhibitor
Probab=27.03 E-value=2.3e+02 Score=26.23 Aligned_cols=17 Identities=29% Similarity=0.546 Sum_probs=12.4
Q ss_pred hhHHhhhCCCcchHHHH
Q 033495 64 CTTRCSKTQYRKPCLFF 80 (118)
Q Consensus 64 C~~RCs~~~~~~~C~~~ 80 (118)
=..-|+.+.+++.|...
T Consensus 82 Ik~~C~~T~YP~~C~sS 98 (596)
T PLN02745 82 IQTVCNATLYKQTCENT 98 (596)
T ss_pred HHHhcCCCCChHHHHHH
Confidence 34558888888888753
No 28
>PF01826 TIL: Trypsin Inhibitor like cysteine rich domain; InterPro: IPR002919 This domain is found in proteinase inhibitors as well as in many extracellular proteins. The domain typically contains ten cysteine residues that form five disulphide bonds. The cysteine residues that form the disulphide bonds are 1-7, 2-6, 3-5, 4-10 and 8-9. This inhibitor domain belongs to MEROPS inhibitor family I8 (clan IA). Proteins containing this domain inhibit peptidases belonging to families S1 (IPR001254 from INTERPRO), S8 (IPR000209 from INTERPRO), and M4 (IPR001570 from INTERPRO) [] and are restricted to the chordata, nematoda, arthropoda and echinodermata. Examples of proteins containing this domain are: chymotrypsin/elastase inhibitor from Ascaris suum (pig roundworm) Acp62F protein from Drosophila melanogaster Bombina trypsin inhibitor from Bombina maxima (large-webbed bell toad) Bombyx subtilisin inhibitor from Bombyx mori (silk moth) von Willebrand factor ; PDB: 2P3F_N 1HX2_A 1CCV_A 1EAI_D 2H9E_C 1COU_A 1ATE_A 1ATB_A 1ATD_A 1ATA_A ....
Probab=26.42 E-value=3 Score=25.56 Aligned_cols=39 Identities=33% Similarity=0.959 Sum_probs=26.5
Q ss_pred CCChHHhhHHhhhCCCcchHHHHHHHhcccccccCCCCCCCCC
Q 033495 58 QECGPRCTTRCSKTQYRKPCLFFCQKCCAKCLCVPAGFYGNKQ 100 (118)
Q Consensus 58 ~~C~~~C~~RCs~~~~~~~C~~~C~~CC~~C~CVP~GtyGnk~ 100 (118)
.+|++.|...|+.......|... |=.-|.| |+|++-|.+
T Consensus 8 ~~C~~~C~~tC~~~~~~~~C~~~---C~~gC~C-~~G~v~~~~ 46 (55)
T PF01826_consen 8 SECGSPCPRTCDNPNNPEPCSEP---CVEGCFC-PPGYVRNDN 46 (55)
T ss_dssp ESSETSTTCBSSCTTTSSSCSSS----ESEEEE-TTTEEEETT
T ss_pred CcccCCcCCcCCCCCCCcCcCCC---CCccCCC-CCCeeEcCC
Confidence 37889999999987777666633 3344667 567776554
No 29
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=25.29 E-value=93 Score=20.93 Aligned_cols=13 Identities=38% Similarity=0.457 Sum_probs=5.3
Q ss_pred hHHHHHHHHHHHH
Q 033495 4 KLSVVAFSLVLIF 16 (118)
Q Consensus 4 ~~~~~ll~l~~~~ 16 (118)
++.++++++++++
T Consensus 14 ~l~i~l~~~v~~~ 26 (97)
T PF04999_consen 14 KLIILLVIVVLIS 26 (97)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444333
No 30
>PRK07718 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=25.08 E-value=98 Score=22.81 Aligned_cols=16 Identities=19% Similarity=0.472 Sum_probs=8.3
Q ss_pred CchhHHHHHHHHHHHH
Q 033495 1 MASKLSVVAFSLVLIF 16 (118)
Q Consensus 1 Mak~~~~~ll~l~~~~ 16 (118)
|.|++.+++++.++++
T Consensus 1 ~kkkl~~i~~i~l~~l 16 (142)
T PRK07718 1 MKNKLIKIMLIILIVI 16 (142)
T ss_pred CcchHHHHHHHHHHHH
Confidence 6666665554444333
No 31
>PF02402 Lysis_col: Lysis protein; InterPro: IPR003059 The DNA sequence of the entire colicin E2 operon has been determined []. The operon comprises the colicin activity gene (ceaB), the colicin immunity gene (ceiB) and the lysis gene (celB), which is essential for colicin release from producing cells []. A putative LexA binding site is located upstream from ceaB, and a rho-independent terminator structure is located downstream from celB []. Comparison of the amino acid sequences of colicin E2 and cloacin DF13 reveal extensive similarity. These colicins have different modes of action and recognise different cell surface receptors; the two major regions of heterology at the C terminus, and in the C-terminal end of the central region are thought to correspond to the catalytic and receptor-recognition domains, respectively []. Sequence similarities between colicins E2, A and E1 [] are less striking. The colicin E2 (pyocin) immunity protein does not share similarity with either the colicin E3 or cloacin DF13 [] immunity proteins. By contrast, the lysis proteins of the ColE2, ColE1 and CloDF13 plasmids are almost identical except in the N-terminal regions, which themselves are similar to lipoprotein signal peptides []. Processing of the ColE2 prolysis protein to the mature form is prevented by globomycin, a specific inhibitor of the lipoprotein signal peptidase []. The mature ColE2 lysis protein is located in the cell envelope [].; GO: 0009405 pathogenesis, 0019835 cytolysis, 0019867 outer membrane
Probab=25.06 E-value=48 Score=21.45 Aligned_cols=13 Identities=23% Similarity=0.253 Sum_probs=6.8
Q ss_pred CchhHHHHHHHHH
Q 033495 1 MASKLSVVAFSLV 13 (118)
Q Consensus 1 Mak~~~~~ll~l~ 13 (118)
|.|++.+++|++.
T Consensus 1 MkKi~~~~i~~~~ 13 (46)
T PF02402_consen 1 MKKIIFIGIFLLT 13 (46)
T ss_pred CcEEEEeHHHHHH
Confidence 5555555554444
No 32
>PF15079 DUF4546: Domain of unknown function (DUF4546)
Probab=24.19 E-value=26 Score=28.56 Aligned_cols=21 Identities=43% Similarity=1.102 Sum_probs=16.4
Q ss_pred hHHHHHHHhccccc-ccCCCCC
Q 033495 76 PCLFFCQKCCAKCL-CVPAGFY 96 (118)
Q Consensus 76 ~C~~~C~~CC~~C~-CVP~Gty 96 (118)
..+-.|++||++|. |..--+|
T Consensus 168 d~lH~C~tCcekcllCalk~n~ 189 (205)
T PF15079_consen 168 DSLHQCRTCCEKCLLCALKNNY 189 (205)
T ss_pred cchhhchhhhhhhhhhhccccc
Confidence 46778999999998 7766554
No 33
>PRK09125 DNA ligase; Provisional
Probab=23.92 E-value=86 Score=25.61 Aligned_cols=9 Identities=44% Similarity=0.350 Sum_probs=5.0
Q ss_pred CCCCCCCcc
Q 033495 30 APTPQPAES 38 (118)
Q Consensus 30 ~~~~q~~~~ 38 (118)
.+.||++..
T Consensus 27 ~~~~~LA~~ 35 (282)
T PRK09125 27 APDLQLATV 35 (282)
T ss_pred CCCceechh
Confidence 456666553
No 34
>PRK13697 cytochrome c6; Provisional
Probab=23.52 E-value=64 Score=21.74 Aligned_cols=11 Identities=36% Similarity=0.440 Sum_probs=5.3
Q ss_pred CchhHHHHHHH
Q 033495 1 MASKLSVVAFS 11 (118)
Q Consensus 1 Mak~~~~~ll~ 11 (118)
|.|++..+++.
T Consensus 1 m~~~~~~~~~~ 11 (111)
T PRK13697 1 MKKILSLVLLG 11 (111)
T ss_pred ChhHHHHHHHH
Confidence 65555443333
No 35
>PF06692 MNSV_P7B: Melon necrotic spot virus P7B protein; InterPro: IPR009575 This family consists of several Melon necrotic spot virus (MNSV) P7B proteins. The function of this family is unknown.
Probab=23.24 E-value=87 Score=21.27 Aligned_cols=16 Identities=25% Similarity=0.440 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 033495 6 SVVAFSLVLIFLFLVE 21 (118)
Q Consensus 6 ~~~ll~l~~~~l~~~~ 21 (118)
+..||+|++.|+|...
T Consensus 14 ~~~lLiliis~~f~lI 29 (61)
T PF06692_consen 14 SGPLLILIISFVFFLI 29 (61)
T ss_pred hhHHHHHHHHHHHHHH
Confidence 4556666666665444
No 36
>PRK11024 colicin uptake protein TolR; Provisional
Probab=23.17 E-value=53 Score=23.85 Aligned_cols=12 Identities=33% Similarity=0.553 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHH
Q 033495 9 AFSLVLIFLFLV 20 (118)
Q Consensus 9 ll~l~~~~l~~~ 20 (118)
+|+|+++||+.+
T Consensus 24 vfvLLiFFmvts 35 (141)
T PRK11024 24 LLVLLLIFMATA 35 (141)
T ss_pred HHHHHHHHHhcc
Confidence 444445555433
No 37
>PF10969 DUF2771: Protein of unknown function (DUF2771); InterPro: IPR024495 This bacterial family of proteins has no known function.
Probab=23.10 E-value=83 Score=24.07 Aligned_cols=8 Identities=38% Similarity=0.505 Sum_probs=3.6
Q ss_pred CCCCCCcc
Q 033495 31 PTPQPAES 38 (118)
Q Consensus 31 ~~~q~~~~ 38 (118)
+.|++..+
T Consensus 30 ~~p~~p~I 37 (161)
T PF10969_consen 30 SDPQDPEI 37 (161)
T ss_pred CCCCCcEE
Confidence 34454444
No 38
>COG5487 Small integral membrane protein [Function unknown]
Probab=23.10 E-value=1e+02 Score=20.58 Aligned_cols=18 Identities=33% Similarity=0.403 Sum_probs=9.8
Q ss_pred chhHHHHHHHHHHHHHHH
Q 033495 2 ASKLSVVAFSLVLIFLFL 19 (118)
Q Consensus 2 ak~~~~~ll~l~~~~l~~ 19 (118)
||.+-.+.+++++++|+.
T Consensus 31 AkIlF~i~~vlf~vsL~~ 48 (54)
T COG5487 31 AKILFFIFLVLFLVSLFA 48 (54)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455555555555555553
No 39
>PRK10780 periplasmic chaperone; Provisional
Probab=22.67 E-value=1.1e+02 Score=22.76 Aligned_cols=14 Identities=29% Similarity=0.325 Sum_probs=7.8
Q ss_pred CchhHHHHHHHHHH
Q 033495 1 MASKLSVVAFSLVL 14 (118)
Q Consensus 1 Mak~~~~~ll~l~~ 14 (118)
|.|++.+++|.|++
T Consensus 1 Mkk~~~~~~l~l~~ 14 (165)
T PRK10780 1 MKKWLLAAGLGLAL 14 (165)
T ss_pred ChHHHHHHHHHHHH
Confidence 66666555554443
No 40
>TIGR03659 IsdE heme ABC transporter, heme-binding protein isdE. This family of ABC substrate-binding proteins is observed primarily in close proximity with proteins localized to the cell wall and bearing the NEAT (NEAr Transporter, pfam05031) heme-binding domain. IsdE has been shown to bind heme and is involved in the process of scavenging heme for the purpose of obtaining iron.
Probab=22.31 E-value=72 Score=24.97 Aligned_cols=16 Identities=25% Similarity=0.295 Sum_probs=12.9
Q ss_pred hhHHHHHHHHHHHHHH
Q 033495 3 SKLSVVAFSLVLIFLF 18 (118)
Q Consensus 3 k~~~~~ll~l~~~~l~ 18 (118)
|+++|+|+++++++|.
T Consensus 2 ~~~~~~~~~~~~~~~~ 17 (289)
T TIGR03659 2 KILSLILLALLSLGLT 17 (289)
T ss_pred chhHHHHHHHHHHHHH
Confidence 6788888888887776
No 41
>PRK13618 psbV cytochrome c-550; Provisional
Probab=21.97 E-value=87 Score=24.41 Aligned_cols=6 Identities=33% Similarity=0.373 Sum_probs=2.7
Q ss_pred CchhHH
Q 033495 1 MASKLS 6 (118)
Q Consensus 1 Mak~~~ 6 (118)
|.|+..
T Consensus 1 ~~~~~~ 6 (163)
T PRK13618 1 MFRRLI 6 (163)
T ss_pred ChHHHH
Confidence 444443
No 42
>PRK08457 motB flagellar motor protein MotB; Reviewed
Probab=21.81 E-value=86 Score=25.27 Aligned_cols=19 Identities=5% Similarity=0.121 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 033495 6 SVVAFSLVLIFLFLVENHA 24 (118)
Q Consensus 6 ~~~ll~l~~~~l~~~~v~a 24 (118)
..+||+||++++..+.+.+
T Consensus 24 ~TLLL~FFVlL~smS~vd~ 42 (257)
T PRK08457 24 LSLLLALFIALYAISAVNK 42 (257)
T ss_pred HHHHHHHHHHHHHHHhcCH
Confidence 3455555555555555443
No 43
>TIGR02600 Verrucomicrobium spinosum paralogous protein TIGR02600. In Verrucomicrobium spinosum, a five-gene operon that includes proteins with an N-terminal signal sequence for cleavage and methylation recurs over twenty times. Each operon is likely to encode a membrane complex, the function of which is unknown. This model represents a long paralogous protein from this putative membrame complex, with members averaging about 1300 amino acids. The N-terminal region includes an apparent signal sequence. The function is unknown.
Probab=21.64 E-value=85 Score=31.83 Aligned_cols=21 Identities=19% Similarity=0.319 Sum_probs=13.1
Q ss_pred CchhHHHHHHHHHHHHHHHHH
Q 033495 1 MASKLSVVAFSLVLIFLFLVE 21 (118)
Q Consensus 1 Mak~~~~~ll~l~~~~l~~~~ 21 (118)
||.++++++|+||.++++.-.
T Consensus 1 ~ALi~VL~iLaLItiLvvaFl 21 (1265)
T TIGR02600 1 MALIMVLIILALITILVLGFL 21 (1265)
T ss_pred ChHHHHHHHHHHHHHHHHHHH
Confidence 677777666666666555433
No 44
>PRK11267 biopolymer transport protein ExbD; Provisional
Probab=21.36 E-value=70 Score=23.24 Aligned_cols=12 Identities=25% Similarity=0.603 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHH
Q 033495 9 AFSLVLIFLFLV 20 (118)
Q Consensus 9 ll~l~~~~l~~~ 20 (118)
+|+|+++||+.+
T Consensus 27 vf~LLiFFmvts 38 (141)
T PRK11267 27 MLVLLIIFMVAA 38 (141)
T ss_pred HHHHHHHHHhhh
Confidence 444445555433
No 45
>PF00322 Endothelin: Endothelin family; InterPro: IPR001928 Endothelins (ET's) are the most potent vasoconstrictors known [, , ]. They stimulate cardiac contraction, regulate release of vasoactive substances, and stimulate mitogenesis in blood vessels in primary culture. They also stimulate contraction in almost all other smooth muscles (e.g., uterus, bronchus, vas deferensa and stomach) and stimulate secretion in several tissues (e.g., kidney, liver and adrenals). Endothelin receptors have also been found in the brain, e.g. cerebral cortex, cerebellum and glial cells. Endothelins have been implicated in a variety of pathophysiological conditions associated with stress, including hypertension, myocardial infarction, subarachnoid haemorrhage and renal failure. Endothelins are synthesised by proteolysis of large preproendothelins, which are cleaved to 'big endothelins' before being processed to the mature peptide. Sarafotoxins (SRTX) and bibrotoxin (BTX) are cardiotoxins from the venom of snakes of the Atractaspis family, structurally and functionally [, ] similar to endothelin. As shown in the following schematic representation, these peptides which are 21 residues long contain two intramolecular disulphide bonds. +-------------+ | | CxCxxxxxxxCxxxCxxxxxx | | +-------+ 'C': conserved cysteine involved in a disulphide bond. ; GO: 0019229 regulation of vasoconstriction, 0005576 extracellular region; PDB: 1V6R_A 1T7H_A 1EDP_A 1EDN_A 3CMH_A 6CMH_A 1SRB_A 2LDF_A.
Probab=21.20 E-value=38 Score=20.30 Aligned_cols=17 Identities=41% Similarity=1.083 Sum_probs=11.6
Q ss_pred HHhh-hCCCcchHHHHHH
Q 033495 66 TRCS-KTQYRKPCLFFCQ 82 (118)
Q Consensus 66 ~RCs-~~~~~~~C~~~C~ 82 (118)
.||| .+..-+.|+-||-
T Consensus 4 pRCsC~s~~DkeC~yFCh 21 (31)
T PF00322_consen 4 PRCSCASWKDKECVYFCH 21 (31)
T ss_dssp --ECCSSSTHHHHHHHHH
T ss_pred cceecCCCcchhhheeec
Confidence 3888 4566778999985
No 46
>TIGR01655 yxeA_fam conserved hypothetical protein TIGR01655. This model represents a family of small (about 115 amino acids) uncharacterized proteins with N-terminal signal sequences, found exclusively in Gram-positive organisms. Most genomes that have any members of this family have at least two members.
Probab=21.01 E-value=87 Score=22.45 Aligned_cols=12 Identities=17% Similarity=0.282 Sum_probs=5.7
Q ss_pred CchhHHHHHHHH
Q 033495 1 MASKLSVVAFSL 12 (118)
Q Consensus 1 Mak~~~~~ll~l 12 (118)
|.|.+.+++.++
T Consensus 1 mKK~li~li~~i 12 (114)
T TIGR01655 1 MKKGLAILLALI 12 (114)
T ss_pred CceehHHHHHHH
Confidence 565555443333
No 47
>TIGR02801 tolR TolR protein. The model describes the inner membrane protein TolR, part of the TolR/TolQ complex that transduces energy from the proton-motive force, through TolA, to an outer membrane complex made up of TolB and Pal (peptidoglycan-associated lipoprotein). The complex is required to maintain outer membrane integrity, and defects may cause a defect in the import of some organic compounds in addition to the resulting morphologic. While several gene pairs homologous to talR and tolQ may be found in a single genome, but the scope of this model is set to favor finding only bone fide TolR, supported by operon structure as well as by score.
Probab=20.79 E-value=77 Score=22.25 Aligned_cols=11 Identities=27% Similarity=0.676 Sum_probs=4.8
Q ss_pred HHHHHHHHHHH
Q 033495 10 FSLVLIFLFLV 20 (118)
Q Consensus 10 l~l~~~~l~~~ 20 (118)
|+|+++||+.+
T Consensus 15 FlLLiFFmvts 25 (129)
T TIGR02801 15 LVLLIIFMVTA 25 (129)
T ss_pred HHHHHHHHhhh
Confidence 33444444433
No 48
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=20.40 E-value=1.2e+02 Score=25.20 Aligned_cols=18 Identities=22% Similarity=0.335 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 033495 7 VVAFSLVLIFLFLVENHA 24 (118)
Q Consensus 7 ~~ll~l~~~~l~~~~v~a 24 (118)
|.+||||-.|||+..|..
T Consensus 137 IAVLfLICT~LfLSTVVL 154 (227)
T PF05399_consen 137 IAVLFLICTLLFLSTVVL 154 (227)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 445555555666655443
No 49
>PF02472 ExbD: Biopolymer transport protein ExbD/TolR; InterPro: IPR003400 This group of proteins are membrane bound transport proteins essential for ferric ion uptake in bacteria []. The family consists of ExbD, and TolR which are involved in TonB-dependent transport of various receptor bound substrates including colicins [].; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2JWL_A 2JWK_A 2PFU_A.
Probab=20.19 E-value=34 Score=23.38 Aligned_cols=9 Identities=33% Similarity=0.903 Sum_probs=0.0
Q ss_pred HHHHHHHHH
Q 033495 10 FSLVLIFLF 18 (118)
Q Consensus 10 l~l~~~~l~ 18 (118)
|+|+++||+
T Consensus 18 flLLiFfm~ 26 (130)
T PF02472_consen 18 FLLLIFFMV 26 (130)
T ss_dssp ---------
T ss_pred HHHHHHHHH
Confidence 333444443
Done!