Query 030821
Match_columns 171
No_of_seqs 14 out of 16
Neff 2.1
Searched_HMMs 46136
Date Fri Mar 29 05:04:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030821.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030821hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08370 PDR_assoc: Plant PDR 76.2 2.8 6.1E-05 29.8 2.7 27 103-129 28-57 (65)
2 PF05232 BTP: Bacterial Transm 69.2 8.7 0.00019 26.9 3.8 24 102-125 34-57 (67)
3 PF06738 DUF1212: Protein of u 63.2 6.9 0.00015 30.2 2.5 24 33-63 73-96 (193)
4 PF06464 DMAP_binding: DMAP1-b 59.6 7 0.00015 29.5 2.0 17 51-67 6-22 (111)
5 PF01405 PsbT: Photosystem II 56.6 12 0.00026 23.7 2.3 17 102-118 7-23 (29)
6 PRK01474 atpC F0F1 ATP synthas 55.7 13 0.00027 27.9 2.8 21 48-68 91-111 (112)
7 PRK13743 conjugal transfer pro 50.6 17 0.00037 29.9 2.9 28 101-129 42-69 (141)
8 PF11213 DUF3006: Protein of u 48.9 21 0.00046 24.7 2.9 27 44-70 45-71 (71)
9 PRK13454 F0F1 ATP synthase sub 46.4 26 0.00056 28.0 3.3 35 94-128 20-55 (181)
10 TIGR00074 hypC_hupF hydrogenas 45.6 27 0.00058 25.3 3.0 23 48-70 52-74 (76)
11 PRK11875 psbT photosystem II r 44.7 22 0.00048 22.8 2.2 17 102-118 7-23 (31)
12 PLN03160 uncharacterized prote 44.3 23 0.0005 29.3 2.9 27 103-129 39-65 (219)
13 PF04697 Pinin_SDK_N: pinin/SD 43.8 20 0.00044 29.3 2.4 29 32-70 3-31 (134)
14 PF09862 DUF2089: Protein of u 42.7 17 0.00037 28.4 1.7 23 30-59 91-113 (113)
15 PRK14736 atpC F0F1 ATP synthas 42.2 18 0.0004 28.1 1.9 25 48-72 88-112 (133)
16 CHL00031 psbT photosystem II p 42.1 20 0.00044 23.3 1.7 18 101-118 6-23 (33)
17 COG2966 Uncharacterized conser 39.9 24 0.00052 30.2 2.4 34 24-64 82-119 (250)
18 PRK10413 hydrogenase 2 accesso 38.8 35 0.00076 25.1 2.8 20 48-67 59-78 (82)
19 PRK09702 PTS system arbutin-sp 38.1 34 0.00073 27.7 2.9 26 101-127 7-32 (161)
20 PRK13443 atpC F0F1 ATP synthas 37.3 38 0.00081 26.7 2.9 23 48-70 88-110 (136)
21 KOG1758 Mitochondrial F1F0-ATP 36.0 25 0.00055 29.4 1.9 44 26-73 97-140 (159)
22 PF00401 ATP-synt_DE: ATP synt 34.2 44 0.00095 21.7 2.4 22 48-69 2-23 (48)
23 PF09577 Spore_YpjB: Sporulati 33.4 1.6E+02 0.0035 25.3 6.4 50 49-118 167-216 (232)
24 TIGR01216 ATP_synt_epsi ATP sy 33.1 48 0.001 25.0 2.8 20 48-67 86-105 (130)
25 TIGR03024 arch_pef_cterm PEF-C 31.7 62 0.0014 19.9 2.6 17 96-114 1-17 (26)
26 CHL00063 atpE ATP synthase CF1 31.4 52 0.0011 25.2 2.8 21 48-68 86-106 (134)
27 PRK13452 atpC F0F1 ATP synthas 30.7 54 0.0012 25.8 2.9 21 48-68 89-109 (145)
28 PRK13444 atpC F0F1 ATP synthas 30.5 54 0.0012 24.9 2.8 20 48-67 89-108 (127)
29 PF06781 UPF0233: Uncharacteri 30.1 1.4E+02 0.003 22.4 4.8 28 98-125 27-54 (87)
30 PRK13448 atpC F0F1 ATP synthas 29.7 59 0.0013 25.2 2.9 20 48-67 87-106 (135)
31 PF00036 EF-hand_1: EF hand; 29.7 43 0.00094 19.7 1.7 25 33-61 5-29 (29)
32 PF09236 AHSP: Alpha-haemoglob 28.7 52 0.0011 25.4 2.4 21 51-71 56-76 (89)
33 PRK00571 atpC F0F1 ATP synthas 28.3 64 0.0014 24.5 2.8 20 48-67 88-107 (135)
34 PRK13450 atpC F0F1 ATP synthas 28.3 60 0.0013 24.8 2.7 19 48-66 88-106 (132)
35 PF03908 Sec20: Sec20; InterP 28.3 56 0.0012 23.3 2.4 25 95-119 63-87 (92)
36 KOG0289 mRNA splicing factor [ 27.1 46 0.00099 32.2 2.2 54 51-108 122-175 (506)
37 PRK13446 atpC F0F1 ATP synthas 26.9 70 0.0015 24.6 2.8 20 48-67 88-107 (136)
38 PRK05759 F0F1 ATP synthase sub 26.0 72 0.0016 23.9 2.7 21 108-128 8-28 (156)
39 COG0109 CyoE Polyprenyltransfe 25.9 77 0.0017 28.6 3.3 25 105-129 121-146 (304)
40 PF03791 KNOX2: KNOX2 domain ; 25.8 74 0.0016 22.0 2.5 20 51-70 33-52 (52)
41 PF06084 Cytomega_TRL10: Cytom 25.6 34 0.00073 28.2 0.9 16 101-116 63-78 (150)
42 TIGR03038 PS_II_psbM photosyst 25.5 1.2E+02 0.0026 19.7 3.2 26 102-128 4-29 (33)
43 PRK09173 F0F1 ATP synthase sub 25.4 92 0.002 23.8 3.2 21 99-119 1-21 (159)
44 PF09802 Sec66: Preprotein tra 25.0 66 0.0014 27.1 2.6 18 102-119 11-28 (190)
45 PF00430 ATP-synt_B: ATP synth 25.0 72 0.0016 22.8 2.5 18 111-128 6-23 (132)
46 PF13713 BRX_N: Transcription 24.8 62 0.0013 21.3 1.9 21 52-72 8-28 (39)
47 PRK00539 atpC F0F1 ATP synthas 24.1 84 0.0018 24.3 2.8 20 48-67 88-107 (133)
48 PF08824 Serine_rich: Serine r 24.0 77 0.0017 26.0 2.7 20 49-68 1-20 (159)
49 TIGR02610 PHA_gran_rgn putativ 24.0 99 0.0022 22.9 3.1 22 47-68 10-31 (91)
50 PF04834 Adeno_E3_14_5: Early 23.5 1.3E+02 0.0028 23.4 3.7 36 94-129 15-50 (97)
51 PRK02251 putative septation in 23.3 1.1E+02 0.0023 23.3 3.2 28 97-124 27-54 (87)
52 PF11239 DUF3040: Protein of u 23.2 2.7E+02 0.0059 19.5 5.8 16 52-67 5-20 (82)
53 PF08946 Osmo_CC: Osmosensory 23.0 32 0.00069 23.8 0.3 16 57-72 20-35 (46)
54 PF03579 SHP: Small hydrophobi 22.9 71 0.0015 23.4 2.1 24 95-118 6-29 (64)
55 PRK04989 psbM photosystem II r 22.5 1.3E+02 0.0029 19.7 3.1 25 103-128 5-29 (35)
56 PF12129 Phtf-FEM1B_bdg: Male 21.9 2.8E+02 0.0061 23.2 5.6 51 63-114 29-81 (159)
57 PRK14735 atpC F0F1 ATP synthas 21.6 1E+02 0.0022 23.9 2.9 20 48-67 86-105 (139)
58 COG2012 RPB5 DNA-directed RNA 21.5 65 0.0014 24.4 1.7 45 48-92 20-70 (80)
59 PRK10409 hydrogenase assembly 21.3 1.1E+02 0.0023 23.1 2.8 19 48-66 58-76 (90)
60 PF01484 Col_cuticle_N: Nemato 20.8 1.3E+02 0.0028 18.8 2.8 17 104-120 2-18 (53)
61 CHL00019 atpF ATP synthase CF0 20.8 1E+02 0.0022 24.4 2.7 23 106-128 26-48 (184)
62 PRK10204 hypothetical protein; 20.7 97 0.0021 22.1 2.3 23 44-66 32-54 (55)
63 PF09650 PHA_gran_rgn: Putativ 20.6 1.3E+02 0.0028 21.8 3.1 22 47-68 7-28 (87)
64 PRK00159 putative septation in 20.6 1.2E+02 0.0027 23.0 3.0 28 97-124 26-53 (87)
No 1
>PF08370 PDR_assoc: Plant PDR ABC transporter associated; InterPro: IPR013581 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This domain is found on the C terminus of ABC-2 type transporter domains (IPR013525 from INTERPRO). It seems to be associated with the plant pleiotropic drug resistance (PDR) protein family of ABC transporters. Like in yeast, plant PDR ABC transporters may also play a role in the transport of antifungal agents [] (see also IPR010929 from INTERPRO). The PDR family is characterised by a configuration in which the ABC domain is nearer the N terminus of the protein than the transmembrane domain [].
Probab=76.21 E-value=2.8 Score=29.81 Aligned_cols=27 Identities=37% Similarity=0.543 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH---hhcccC
Q 030821 103 FLTNTTVALLIFTILYNVLFY---TVIKPS 129 (171)
Q Consensus 103 fla~sa~aLvifTIFyNVlF~---tvIKPS 129 (171)
+.=...+||+-|+|++|++|. +|++|-
T Consensus 28 WyWIgvgaL~G~~vlFNil~~laL~yL~p~ 57 (65)
T PF08370_consen 28 WYWIGVGALLGFIVLFNILFTLALTYLNPL 57 (65)
T ss_pred EEeehHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 344567899999999999985 577763
No 2
>PF05232 BTP: Bacterial Transmembrane Pair family; InterPro: IPR007896 This domain represents a conserved pair of transmembrane helices. It appears to be found as two tandem repeats in a family of hypothetical proteins.
Probab=69.22 E-value=8.7 Score=26.88 Aligned_cols=24 Identities=21% Similarity=0.337 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhh
Q 030821 102 SFLTNTTVALLIFTILYNVLFYTV 125 (171)
Q Consensus 102 Sfla~sa~aLvifTIFyNVlF~tv 125 (171)
.-..-+++++.++..+||.+||..
T Consensus 34 ~~a~~l~v~~s~~a~~wn~ifN~~ 57 (67)
T PF05232_consen 34 WQAGALDVGLSLFAMVWNYIFNWL 57 (67)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334456778888999999999975
No 3
>PF06738 DUF1212: Protein of unknown function (DUF1212); InterPro: IPR010619 This entry represents a predicted domain found within a number of hypothetical proteins of unknown function found in eukaryotes, bacteria and archaea. Some of these sequences are predicted to be membrane proteins.
Probab=63.19 E-value=6.9 Score=30.24 Aligned_cols=24 Identities=25% Similarity=0.468 Sum_probs=18.8
Q ss_pred hhhhhhccCccCCcccCCHHHHHHHHHHHHH
Q 030821 33 VARAVENNNSQNSKFEIDPEEARQALQRLDQ 63 (171)
Q Consensus 33 ~v~a~ek~~~~~~q~eidpekAreaL~eLDq 63 (171)
++|.+.++ ++++|||+++|++++.
T Consensus 73 l~~~~~~~-------~~~~~ea~~~L~~I~~ 96 (193)
T PF06738_consen 73 LSRRIVAG-------QLSLEEAIERLDEIDR 96 (193)
T ss_pred HHHHHhcC-------CCCHHHHHHHHHHHhh
Confidence 44555555 8999999999999875
No 4
>PF06464 DMAP_binding: DMAP1-binding Domain; InterPro: IPR010506 This domain binds DMAP1, a transcriptional co-repressor.; GO: 0008134 transcription factor binding, 0005634 nucleus
Probab=59.60 E-value=7 Score=29.51 Aligned_cols=17 Identities=41% Similarity=0.661 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHhh
Q 030821 51 PEEARQALQRLDQQLKS 67 (171)
Q Consensus 51 pekAreaL~eLDqQLes 67 (171)
|++.|.+|++||.++++
T Consensus 6 P~evq~~L~~L~~el~~ 22 (111)
T PF06464_consen 6 PPEVQNRLQELDLELEE 22 (111)
T ss_pred CHHHHHHHHHHHHhhhc
Confidence 88999999999999976
No 5
>PF01405 PsbT: Photosystem II reaction centre T protein; InterPro: IPR001743 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbT found in PSII, which is thought to be associated with the D1 (PsbA) - D2 (PsbD) heterodimer. PsbT may be involved in the formation and/or stabilisation of dimeric PSII complexes, because in the absence of this protein dimeric PSII complexes were found to be less abundant. Furthermore, although PsbT does not confer photo-protection, it is required for the efficient recovery of photo-damaged PSII [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3BZ1_T 1S5L_t 2AXT_t 3KZI_T 3PRQ_T 3BZ2_T 3PRR_T 4FBY_g 3A0H_t 3A0B_T ....
Probab=56.62 E-value=12 Score=23.69 Aligned_cols=17 Identities=35% Similarity=0.757 Sum_probs=13.7
Q ss_pred hHHHHHHHHHHHHHHHH
Q 030821 102 SFLTNTTVALLIFTILY 118 (171)
Q Consensus 102 Sfla~sa~aLvifTIFy 118 (171)
+|+-.+|+|+++|.||+
T Consensus 7 ~~ll~~tlgilffAI~F 23 (29)
T PF01405_consen 7 TFLLIGTLGILFFAIFF 23 (29)
T ss_dssp HHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHhhhhc
Confidence 57778888888888875
No 6
>PRK01474 atpC F0F1 ATP synthase subunit epsilon; Validated
Probab=55.74 E-value=13 Score=27.88 Aligned_cols=21 Identities=19% Similarity=0.271 Sum_probs=18.8
Q ss_pred cCCHHHHHHHHHHHHHHHhhc
Q 030821 48 EIDPEEARQALQRLDQQLKSL 68 (171)
Q Consensus 48 eidpekAreaL~eLDqQLesL 68 (171)
+||.++|++++++..++|...
T Consensus 91 ~ID~~~a~~~~~~A~~~l~~~ 111 (112)
T PRK01474 91 NLSEAEIATKLLDLQKTLSDQ 111 (112)
T ss_pred hCCHHHHHHHHHHHHHHHhhc
Confidence 799999999999999988753
No 7
>PRK13743 conjugal transfer protein TrbF; Provisional
Probab=50.57 E-value=17 Score=29.92 Aligned_cols=28 Identities=18% Similarity=0.402 Sum_probs=23.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 030821 101 GSFLTNTTVALLIFTILYNVLFYTVIKPS 129 (171)
Q Consensus 101 ~Sfla~sa~aLvifTIFyNVlF~tvIKPS 129 (171)
+-|+.|+|+|+|+.+|. +++|.+.|.-=
T Consensus 42 ~LfiVFl~AG~vLw~vM-~~iFd~CIDsW 69 (141)
T PRK13743 42 DLFIVFLTAGIVLWVIM-HSIFDACIDSW 69 (141)
T ss_pred HHHHHHHHhhHHHHHHH-HHHHHHHHHhh
Confidence 45889999999999985 78899988643
No 8
>PF11213 DUF3006: Protein of unknown function (DUF3006); InterPro: IPR021377 This family of proteins has no known function.
Probab=48.86 E-value=21 Score=24.72 Aligned_cols=27 Identities=30% Similarity=0.490 Sum_probs=23.9
Q ss_pred CCcccCCHHHHHHHHHHHHHHHhhccc
Q 030821 44 NSKFEIDPEEARQALQRLDQQLKSLSN 70 (171)
Q Consensus 44 ~~q~eidpekAreaL~eLDqQLesLs~ 70 (171)
...|++|+|+..++-++....++.|.+
T Consensus 45 ~~~~~~d~eeT~~r~~~i~~l~~~L~e 71 (71)
T PF11213_consen 45 DGSIEIDPEETEARRKEIQDLLDRLWE 71 (71)
T ss_pred CceEEECHHHHHHHHHHHHHHHHHhhC
Confidence 368999999999999999999998864
No 9
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=46.39 E-value=26 Score=28.00 Aligned_cols=35 Identities=17% Similarity=0.155 Sum_probs=24.1
Q ss_pred CCccccchh-HHHHHHHHHHHHHHHHHHHHHhhccc
Q 030821 94 QETLEISGS-FLTNTTVALLIFTILYNVLFYTVIKP 128 (171)
Q Consensus 94 dE~pEiS~S-fla~sa~aLvifTIFyNVlF~tvIKP 128 (171)
.+.|.|..+ |..-+...+++|.|||=+|...+.+|
T Consensus 20 ~gmp~ld~~t~~~q~~~~lI~F~iL~~ll~k~l~~P 55 (181)
T PRK13454 20 PGMPQLDFSTFPNQIFWLLVTLVAIYFVLTRVALPR 55 (181)
T ss_pred CCCCCCcHHhcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357888885 55444455777888887777777776
No 10
>TIGR00074 hypC_hupF hydrogenase assembly chaperone HypC/HupF. An additional proposed function is to shuttle the iron atom that has been liganded at the HypC/HypD complex to the precursor of the large hydrogenase (HycE) subunit. PubMed:12441107.
Probab=45.56 E-value=27 Score=25.34 Aligned_cols=23 Identities=30% Similarity=0.544 Sum_probs=18.9
Q ss_pred cCCHHHHHHHHHHHHHHHhhccc
Q 030821 48 EIDPEEARQALQRLDQQLKSLSN 70 (171)
Q Consensus 48 eidpekAreaL~eLDqQLesLs~ 70 (171)
.||+++|+|.|+-|++-.+.+..
T Consensus 52 ~ide~eA~e~l~~l~el~~~~~~ 74 (76)
T TIGR00074 52 VLDEEEARETLDALQELFDAVEE 74 (76)
T ss_pred hCCHHHHHHHHHHHHHHHHHHhc
Confidence 68999999999999887776544
No 11
>PRK11875 psbT photosystem II reaction center protein T; Reviewed
Probab=44.68 E-value=22 Score=22.82 Aligned_cols=17 Identities=18% Similarity=0.444 Sum_probs=12.7
Q ss_pred hHHHHHHHHHHHHHHHH
Q 030821 102 SFLTNTTVALLIFTILY 118 (171)
Q Consensus 102 Sfla~sa~aLvifTIFy 118 (171)
+||-.+++|+++|.||+
T Consensus 7 tfll~~tlgiiFFAIfF 23 (31)
T PRK11875 7 ILILTLALVTLFFAIAF 23 (31)
T ss_pred HHHHHHHHHHHHHhhhc
Confidence 56777788888888775
No 12
>PLN03160 uncharacterized protein; Provisional
Probab=44.30 E-value=23 Score=29.27 Aligned_cols=27 Identities=30% Similarity=0.333 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccC
Q 030821 103 FLTNTTVALLIFTILYNVLFYTVIKPS 129 (171)
Q Consensus 103 fla~sa~aLvifTIFyNVlF~tvIKPS 129 (171)
...+.++.++++.+.-=++++||.||.
T Consensus 39 c~~~~~a~~l~l~~v~~~l~~~vfrPk 65 (219)
T PLN03160 39 CCGCITATLLILATTILVLVFTVFRVK 65 (219)
T ss_pred EHHHHHHHHHHHHHHHHheeeEEEEcc
Confidence 455666666666777778888999994
No 13
>PF04697 Pinin_SDK_N: pinin/SDK conserved region; InterPro: IPR006787 This conserved region is found at the N-terminal of the member proteins. It is located adjacent and N-terminal to the pinin/SKD/memA domain IPR006786 from INTERPRO. Members of this family have very varied localisations within the eukaryotic cell. Pinin is known to localise at the desmosomes and is implicated in anchoring intermediate filaments to the desmosomal plaque [, ]. SDK2/3 is a dynamically localised nuclear protein thought to be involved in modulation of alternative pre-mRNA splicing []. MemA is a tumour marker preferentially expressed in human melanoma cell lines. A common feature of the members of this family is that they may all participate in regulating protein-protein interactions [].
Probab=43.80 E-value=20 Score=29.26 Aligned_cols=29 Identities=28% Similarity=0.574 Sum_probs=24.4
Q ss_pred hhhhhhhccCccCCcccCCHHHHHHHHHHHHHHHhhccc
Q 030821 32 VVARAVENNNSQNSKFEIDPEEARQALQRLDQQLKSLSN 70 (171)
Q Consensus 32 ~~v~a~ek~~~~~~q~eidpekAreaL~eLDqQLesLs~ 70 (171)
|+|+.+++. .|+|+|.|+-+|.-|..|--
T Consensus 3 vav~~Lq~q----------lE~Ake~Lk~vDenIkKltG 31 (134)
T PF04697_consen 3 VAVRTLQAQ----------LEKAKESLKNVDENIKKLTG 31 (134)
T ss_pred hhHHHHHHH----------HHHHHHHhhhhhHHHHHHhC
Confidence 567777766 89999999999999988765
No 14
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=42.65 E-value=17 Score=28.38 Aligned_cols=23 Identities=30% Similarity=0.367 Sum_probs=18.2
Q ss_pred cchhhhhhhccCccCCcccCCHHHHHHHHH
Q 030821 30 PSVVARAVENNNSQNSKFEIDPEEARQALQ 59 (171)
Q Consensus 30 ss~~v~a~ek~~~~~~q~eidpekAreaL~ 59 (171)
-.-|..+++++ ||++|+|.+.|+
T Consensus 91 ~~~IL~~L~~G-------eIs~eeA~~~Lk 113 (113)
T PF09862_consen 91 RKEILDKLEKG-------EISVEEALEILK 113 (113)
T ss_pred HHHHHHHHHcC-------CCCHHHHHHHhC
Confidence 34477788888 899999998875
No 15
>PRK14736 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=42.21 E-value=18 Score=28.05 Aligned_cols=25 Identities=12% Similarity=0.327 Sum_probs=21.2
Q ss_pred cCCHHHHHHHHHHHHHHHhhccccc
Q 030821 48 EIDPEEARQALQRLDQQLKSLSNKQ 72 (171)
Q Consensus 48 eidpekAreaL~eLDqQLesLs~~q 72 (171)
+||.++|++++++..+++.+=.+.+
T Consensus 88 eID~~~a~~a~~~Ae~~~~~~~~~~ 112 (133)
T PRK14736 88 ELTPEMIDREIEAVEMERDATQDLD 112 (133)
T ss_pred hCCHHHHHHHHHHHHHhhhcCCCHH
Confidence 8999999999999999988655543
No 16
>CHL00031 psbT photosystem II protein T
Probab=42.07 E-value=20 Score=23.28 Aligned_cols=18 Identities=28% Similarity=0.678 Sum_probs=13.4
Q ss_pred hhHHHHHHHHHHHHHHHH
Q 030821 101 GSFLTNTTVALLIFTILY 118 (171)
Q Consensus 101 ~Sfla~sa~aLvifTIFy 118 (171)
=+||-.+|+|+++|.||+
T Consensus 6 Ytfll~~tlgilFFAI~F 23 (33)
T CHL00031 6 YTFLLVSTLGIIFFAIFF 23 (33)
T ss_pred HHHHHHHHHHHHHHhhee
Confidence 356777788888888875
No 17
>COG2966 Uncharacterized conserved protein [Function unknown]
Probab=39.85 E-value=24 Score=30.20 Aligned_cols=34 Identities=32% Similarity=0.405 Sum_probs=24.2
Q ss_pred ccCCCCcch----hhhhhhccCccCCcccCCHHHHHHHHHHHHHH
Q 030821 24 YVNNPSPSV----VARAVENNNSQNSKFEIDPEEARQALQRLDQQ 64 (171)
Q Consensus 24 ~v~~~Sss~----~v~a~ek~~~~~~q~eidpekAreaL~eLDqQ 64 (171)
...|....+ ++++++++ +.|.|+|.+.|.+++++
T Consensus 82 ~~~nl~kvs~v~~i~~~v~~~-------~~~~e~a~~~l~~i~~~ 119 (250)
T COG2966 82 RGINLEKVSEVNRISRAVEHG-------RLDLEEAHKKLDEIQKQ 119 (250)
T ss_pred CCccHHHHHHHHHHHHHHHcC-------CCCHHHHHHHHHHhhhC
Confidence 555555444 45666666 89999999999988753
No 18
>PRK10413 hydrogenase 2 accessory protein HypG; Provisional
Probab=38.82 E-value=35 Score=25.11 Aligned_cols=20 Identities=35% Similarity=0.378 Sum_probs=17.0
Q ss_pred cCCHHHHHHHHHHHHHHHhh
Q 030821 48 EIDPEEARQALQRLDQQLKS 67 (171)
Q Consensus 48 eidpekAreaL~eLDqQLes 67 (171)
.||.|+|+|.|+-|++-+.+
T Consensus 59 ~ideeeA~etl~~l~el~~~ 78 (82)
T PRK10413 59 IIDEDEAKATLDALRQMEYD 78 (82)
T ss_pred hCCHHHHHHHHHHHHHHHhh
Confidence 68999999999999877655
No 19
>PRK09702 PTS system arbutin-specific transporter subunit IIB; Provisional
Probab=38.09 E-value=34 Score=27.74 Aligned_cols=26 Identities=27% Similarity=0.406 Sum_probs=19.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcc
Q 030821 101 GSFLTNTTVALLIFTILYNVLFYTVIK 127 (171)
Q Consensus 101 ~Sfla~sa~aLvifTIFyNVlF~tvIK 127 (171)
+.||+-..+|++.|-|.|=| |+.+||
T Consensus 7 ~~~~~~i~iGl~~f~iYyfv-F~flI~ 32 (161)
T PRK09702 7 DMMLTQIAIGLCFTLLYFVV-FRTLIL 32 (161)
T ss_pred ccchhHHHHHHHHHHHHHHH-HHHHHH
Confidence 57899999999888877755 555553
No 20
>PRK13443 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=37.25 E-value=38 Score=26.67 Aligned_cols=23 Identities=4% Similarity=-0.054 Sum_probs=20.5
Q ss_pred cCCHHHHHHHHHHHHHHHhhccc
Q 030821 48 EIDPEEARQALQRLDQQLKSLSN 70 (171)
Q Consensus 48 eidpekAreaL~eLDqQLesLs~ 70 (171)
+||.++|++++++..++|+....
T Consensus 88 dID~~~a~~a~~~Ae~~l~~~~~ 110 (136)
T PRK13443 88 ELTGAVLDEFIAEARELASVALP 110 (136)
T ss_pred hCCHHHHHHHHHHHHHHHHhcCc
Confidence 89999999999999999987643
No 21
>KOG1758 consensus Mitochondrial F1F0-ATP synthase, subunit delta/ATP16 [Energy production and conversion]
Probab=36.04 E-value=25 Score=29.42 Aligned_cols=44 Identities=32% Similarity=0.377 Sum_probs=32.4
Q ss_pred CCCCcchhhhhhhccCccCCcccCCHHHHHHHHHHHHHHHhhcccccC
Q 030821 26 NNPSPSVVARAVENNNSQNSKFEIDPEEARQALQRLDQQLKSLSNKQI 73 (171)
Q Consensus 26 ~~~Sss~~v~a~ek~~~~~~q~eidpekAreaL~eLDqQLesLs~~q~ 73 (171)
.|..|+|-+-|.|-..-+ .||+.+|+.-|++-.+++-+-+.++.
T Consensus 97 v~~ds~~~ila~EA~~le----did~~~a~q~Le~aqa~l~~a~de~~ 140 (159)
T KOG1758|consen 97 VNADSSLQILAEEAVKLE----DIDPSEAQQLLEKAQAKLVSASDERE 140 (159)
T ss_pred EcCCCeEEEEehhccccc----cCCHHHHHHHHHHHHHHhcccccHHH
Confidence 455666666666655333 89999999999999999887766543
No 22
>PF00401 ATP-synt_DE: ATP synthase, Delta/Epsilon chain, long alpha-helix domain; InterPro: IPR020547 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This family represents subunits called delta (in mitochondrial ATPase) or epsilon (in bacteria or chloroplast ATPase). The interaction site of subunit C of the F0 complex with the delta or epsilon subunit of the F1 complex may be important for connecting the rotor of F1 (gamma subunit) to the rotor of F0 (C subunit) []. In bacterial species, the delta subunit is the equivalent of the Oligomycin sensitive subunit (OSCP, IPR000711 from INTERPRO) in metazoans. The C-terminal domain of the epsilon subunit appears to act as an inhibitor of ATPase activity []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015986 ATP synthesis coupled proton transport, 0045261 proton-transporting ATP synthase complex, catalytic core F(1); PDB: 3OAA_P 1BSN_A 1FS0_E 1AQT_A 1BSH_A 2RQ7_A 2RQ6_A 2E5Y_A 2QE7_H 2E5T_A ....
Probab=34.22 E-value=44 Score=21.72 Aligned_cols=22 Identities=32% Similarity=0.531 Sum_probs=18.3
Q ss_pred cCCHHHHHHHHHHHHHHHhhcc
Q 030821 48 EIDPEEARQALQRLDQQLKSLS 69 (171)
Q Consensus 48 eidpekAreaL~eLDqQLesLs 69 (171)
+||.++|++++++-.++|+.-.
T Consensus 2 dID~~rA~~a~~~Ae~~l~~~~ 23 (48)
T PF00401_consen 2 DIDEERAEEAKERAEERLEKAK 23 (48)
T ss_dssp CCHHHHHHHHHHHHHHHHTTCS
T ss_pred cCCHHHHHHHHHHHHHHHHhCc
Confidence 6899999999999888887653
No 23
>PF09577 Spore_YpjB: Sporulation protein YpjB (SpoYpjB); InterPro: IPR014231 Proteins in thie entry, typified by YpjB, are restricted to a subset of the endospore-forming bacteria which includes Bacillus species, but not species. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon []. Sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect, but this gene is not, however, a part of the endospore formation minimal gene set.
Probab=33.44 E-value=1.6e+02 Score=25.34 Aligned_cols=50 Identities=22% Similarity=0.359 Sum_probs=35.6
Q ss_pred CCHHHHHHHHHHHHHHHhhcccccCCCCCCccccccccCCCCCCCCCccccchhHHHHHHHHHHHHHHHH
Q 030821 49 IDPEEARQALQRLDQQLKSLSNKQISSPKIKAADVKITRGPGPAEQETLEISGSFLTNTTVALLIFTILY 118 (171)
Q Consensus 49 idpekAreaL~eLDqQLesLs~~q~rpP~~~~sDv~~tr~~~~~~dE~pEiS~Sfla~sa~aLvifTIFy 118 (171)
.+.++-+++|..|.+.|+.|=.....- +..| |-.++..+++|++++|..|
T Consensus 167 ~~~~~~~~~l~~le~~l~~lF~~~k~d------------------~~dp--sl~Wv~l~iG~iIi~tLtY 216 (232)
T PF09577_consen 167 LDQKEVQEALEQLEEDLQKLFDGVKED------------------EADP--SLIWVMLSIGGIIIATLTY 216 (232)
T ss_pred cChHHHHHHHHHHHHHHHHHhCccccc------------------cccc--chHHHHHHHHHHHHHHHHH
Confidence 456788899999999999887654311 0111 3356678889999999888
No 24
>TIGR01216 ATP_synt_epsi ATP synthase, F1 epsilon subunit (delta in mitochondria). This model describes one of the five types of subunits in the F1 part of F1/F0 ATP synthases. Members of this family are designated epsilon in bacterial and chloroplast systems but designated delta in mitochondria, where the counterpart of the bacterial delta subunit is designated OSCP. In a few cases (Propionigenium modestum, Acetobacterium woodii) scoring above the trusted cutoff and designated here as exceptions, Na+ replaces H+ for translocation.
Probab=33.14 E-value=48 Score=25.05 Aligned_cols=20 Identities=40% Similarity=0.586 Sum_probs=18.6
Q ss_pred cCCHHHHHHHHHHHHHHHhh
Q 030821 48 EIDPEEARQALQRLDQQLKS 67 (171)
Q Consensus 48 eidpekAreaL~eLDqQLes 67 (171)
+||.++|+++++++.++|+.
T Consensus 86 ~id~~~a~~~~~~ae~~l~~ 105 (130)
T TIGR01216 86 DIDEAEAEKALEAAEKLLES 105 (130)
T ss_pred cCCHHHHHHHHHHHHHHHhh
Confidence 89999999999999999976
No 25
>TIGR03024 arch_pef_cterm PEF-C-terminal archaeal protein sorting domain. This domain, distantly related to the PEP-Cterm domain described in model TIGR02595, is found in Methanosarcina mazei in four different proteins, as well as in other archaea such as Methanococcoides burtonii. Several proteins with this domain have their genes only a short distance from a distant homology of EpsH, a proposed integral membrane transpeptidase.
Probab=31.67 E-value=62 Score=19.86 Aligned_cols=17 Identities=29% Similarity=0.313 Sum_probs=10.1
Q ss_pred ccccchhHHHHHHHHHHHH
Q 030821 96 TLEISGSFLTNTTVALLIF 114 (171)
Q Consensus 96 ~pEiS~Sfla~sa~aLvif 114 (171)
.|||| +++..-++++.+
T Consensus 1 IPEF~--~i~l~I~all~i 17 (26)
T TIGR03024 1 VPEFS--TIALPIIALLAI 17 (26)
T ss_pred CCCCc--chHHHHHHHHHH
Confidence 48998 555555555444
No 26
>CHL00063 atpE ATP synthase CF1 epsilon subunit
Probab=31.38 E-value=52 Score=25.24 Aligned_cols=21 Identities=38% Similarity=0.650 Sum_probs=19.0
Q ss_pred cCCHHHHHHHHHHHHHHHhhc
Q 030821 48 EIDPEEARQALQRLDQQLKSL 68 (171)
Q Consensus 48 eidpekAreaL~eLDqQLesL 68 (171)
+||.++|++++++..++|++-
T Consensus 86 dID~~~a~~~~~~A~~~l~~~ 106 (134)
T CHL00063 86 DIDPQEAQQTLEIAEANLEKA 106 (134)
T ss_pred hCCHHHHHHHHHHHHHHHHhC
Confidence 899999999999999999763
No 27
>PRK13452 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=30.72 E-value=54 Score=25.79 Aligned_cols=21 Identities=29% Similarity=0.376 Sum_probs=19.1
Q ss_pred cCCHHHHHHHHHHHHHHHhhc
Q 030821 48 EIDPEEARQALQRLDQQLKSL 68 (171)
Q Consensus 48 eidpekAreaL~eLDqQLesL 68 (171)
+||.++|++++++..++|+..
T Consensus 89 eID~~~ae~a~~~Ae~~L~~~ 109 (145)
T PRK13452 89 NLNQAEAEKARARAKEVLKNP 109 (145)
T ss_pred cCCHHHHHHHHHHHHHHHHhc
Confidence 899999999999999998764
No 28
>PRK13444 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=30.46 E-value=54 Score=24.94 Aligned_cols=20 Identities=25% Similarity=0.371 Sum_probs=18.8
Q ss_pred cCCHHHHHHHHHHHHHHHhh
Q 030821 48 EIDPEEARQALQRLDQQLKS 67 (171)
Q Consensus 48 eidpekAreaL~eLDqQLes 67 (171)
+||.++|++++++..++|+.
T Consensus 89 diD~~~a~~~~~~Ae~~l~~ 108 (127)
T PRK13444 89 DIDHEHEKKLLAEAEKLPPS 108 (127)
T ss_pred hCCHHHHHHHHHHHHHHHhC
Confidence 79999999999999999976
No 29
>PF06781 UPF0233: Uncharacterised protein family (UPF0233); InterPro: IPR009619 This is a group of proteins of unknown function.
Probab=30.08 E-value=1.4e+02 Score=22.43 Aligned_cols=28 Identities=18% Similarity=0.451 Sum_probs=24.2
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHhh
Q 030821 98 EISGSFLTNTTVALLIFTILYNVLFYTV 125 (171)
Q Consensus 98 EiS~Sfla~sa~aLvifTIFyNVlF~tv 125 (171)
.-||..++-..+||+++.++.=|+||.-
T Consensus 27 ~~sp~W~~p~m~~lmllGL~WiVvyYi~ 54 (87)
T PF06781_consen 27 KPSPRWYAPLMLGLMLLGLLWIVVYYIS 54 (87)
T ss_pred CCCCccHHHHHHHHHHHHHHHHhhhhcc
Confidence 5688899999999999999999999863
No 30
>PRK13448 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=29.69 E-value=59 Score=25.19 Aligned_cols=20 Identities=15% Similarity=0.370 Sum_probs=18.4
Q ss_pred cCCHHHHHHHHHHHHHHHhh
Q 030821 48 EIDPEEARQALQRLDQQLKS 67 (171)
Q Consensus 48 eidpekAreaL~eLDqQLes 67 (171)
+||.++|++++++..+.|++
T Consensus 87 dID~~~a~~~~~~Ae~~l~~ 106 (135)
T PRK13448 87 DLDLAQFAATIAEMEAQLAG 106 (135)
T ss_pred cCCHHHHHHHHHHHHHHHhh
Confidence 79999999999999998876
No 31
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=29.66 E-value=43 Score=19.72 Aligned_cols=25 Identities=24% Similarity=0.453 Sum_probs=20.3
Q ss_pred hhhhhhccCccCCcccCCHHHHHHHHHHH
Q 030821 33 VARAVENNNSQNSKFEIDPEEARQALQRL 61 (171)
Q Consensus 33 ~v~a~ek~~~~~~q~eidpekAreaL~eL 61 (171)
+.+..+++|++ .|+.+|=++.+++|
T Consensus 5 ~F~~~D~d~dG----~I~~~Ef~~~~~~L 29 (29)
T PF00036_consen 5 AFREFDKDGDG----KIDFEEFKEMMKKL 29 (29)
T ss_dssp HHHHHSTTSSS----EEEHHHHHHHHHHT
T ss_pred HHHHHCCCCCC----cCCHHHHHHHHHhC
Confidence 34667888888 89999999988875
No 32
>PF09236 AHSP: Alpha-haemoglobin stabilising protein; InterPro: IPR015317 Alpha-haemoglobin stabilising protein (AHSP) acts a molecular chaperone for free alpha-haemoglobin, preventing the harmful aggregation of alpha-haemoglobin during normal erythroid cell development: it specifically protects free alpha-haemoglobin from precipitation. AHSP adopts a helical secondary structure consisting of an elongated antiparallel three alpha-helix bundle []. ; GO: 0030492 hemoglobin binding, 0006457 protein folding, 0020027 hemoglobin metabolic process, 0030097 hemopoiesis, 0050821 protein stabilization; PDB: 1Y01_A 1XZY_A 3OVU_A 1W0A_A 3IA3_C 1Z8U_A 1W0B_A 1W09_A.
Probab=28.74 E-value=52 Score=25.39 Aligned_cols=21 Identities=43% Similarity=0.627 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHhhcccc
Q 030821 51 PEEARQALQRLDQQLKSLSNK 71 (171)
Q Consensus 51 pekAreaL~eLDqQLesLs~~ 71 (171)
..|-.+||+||.|.|+.|++|
T Consensus 56 qqeqdrAlqel~qeL~tla~p 76 (89)
T PF09236_consen 56 QQEQDRALQELQQELNTLANP 76 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 456678899999999999875
No 33
>PRK00571 atpC F0F1 ATP synthase subunit epsilon; Validated
Probab=28.35 E-value=64 Score=24.46 Aligned_cols=20 Identities=30% Similarity=0.528 Sum_probs=18.6
Q ss_pred cCCHHHHHHHHHHHHHHHhh
Q 030821 48 EIDPEEARQALQRLDQQLKS 67 (171)
Q Consensus 48 eidpekAreaL~eLDqQLes 67 (171)
+||.++|++++++..++|+.
T Consensus 88 ~id~~~a~~~~~~ae~~l~~ 107 (135)
T PRK00571 88 DIDEARAEEAKERAEEALEN 107 (135)
T ss_pred hCCHHHHHHHHHHHHHHHhh
Confidence 79999999999999999876
No 34
>PRK13450 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=28.29 E-value=60 Score=24.85 Aligned_cols=19 Identities=37% Similarity=0.574 Sum_probs=17.6
Q ss_pred cCCHHHHHHHHHHHHHHHh
Q 030821 48 EIDPEEARQALQRLDQQLK 66 (171)
Q Consensus 48 eidpekAreaL~eLDqQLe 66 (171)
+||.++|++++++..++|+
T Consensus 88 ~ID~~~a~~~~~~A~~~l~ 106 (132)
T PRK13450 88 EIDIKRAENAKKRAEERLR 106 (132)
T ss_pred cCCHHHHHHHHHHHHHHHh
Confidence 8999999999999999984
No 35
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=28.28 E-value=56 Score=23.29 Aligned_cols=25 Identities=16% Similarity=0.304 Sum_probs=20.5
Q ss_pred CccccchhHHHHHHHHHHHHHHHHH
Q 030821 95 ETLEISGSFLTNTTVALLIFTILYN 119 (171)
Q Consensus 95 E~pEiS~Sfla~sa~aLvifTIFyN 119 (171)
+.-+..+-++-++++++|+++++|=
T Consensus 63 ~r~~~~D~~li~~~~~~f~~~v~yI 87 (92)
T PF03908_consen 63 ERRDKTDRILIFFAFLFFLLVVLYI 87 (92)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 3456788899999999999998884
No 36
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=27.15 E-value=46 Score=32.16 Aligned_cols=54 Identities=19% Similarity=0.302 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHhhcccccCCCCCCccccccccCCCCCCCCCccccchhHHHHHH
Q 030821 51 PEEARQALQRLDQQLKSLSNKQISSPKIKAADVKITRGPGPAEQETLEISGSFLTNTT 108 (171)
Q Consensus 51 pekAreaL~eLDqQLesLs~~q~rpP~~~~sDv~~tr~~~~~~dE~pEiS~Sfla~sa 108 (171)
.++|||+|++|.+|+--.. |+--|-....+++...+|.. +..|-+|+....-..
T Consensus 122 ~~eareaLa~~~~qa~a~~-peav~~~~~~s~~~va~ge~---~d~~g~s~~i~~~l~ 175 (506)
T KOG0289|consen 122 RDEAREALAKLSPQAGAIV-PEAVPSLAQSSVVGVAAGES---EDQPGLSPEIIQKLE 175 (506)
T ss_pred HHHHHHHHhhcCccccccc-ccccccccccchhhhhcCCc---cccccCCHHHHHHHH
Confidence 6899999999999975444 43333333346677666665 356778887665443
No 37
>PRK13446 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=26.94 E-value=70 Score=24.56 Aligned_cols=20 Identities=60% Similarity=0.787 Sum_probs=18.6
Q ss_pred cCCHHHHHHHHHHHHHHHhh
Q 030821 48 EIDPEEARQALQRLDQQLKS 67 (171)
Q Consensus 48 eidpekAreaL~eLDqQLes 67 (171)
+||.++|++++++..++|+.
T Consensus 88 ~iD~~~a~~~~~~A~~~l~~ 107 (136)
T PRK13446 88 EIDVERARAALERAEQRLKK 107 (136)
T ss_pred hCCHHHHHHHHHHHHHHHHh
Confidence 79999999999999999976
No 38
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=25.99 E-value=72 Score=23.95 Aligned_cols=21 Identities=29% Similarity=0.314 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHhhccc
Q 030821 108 TVALLIFTILYNVLFYTVIKP 128 (171)
Q Consensus 108 a~aLvifTIFyNVlF~tvIKP 128 (171)
-+.++.|-|||=+|.+.+.||
T Consensus 8 ~~~~i~Flil~~il~~~~~~p 28 (156)
T PRK05759 8 IGQLIAFLILVWFIMKFVWPP 28 (156)
T ss_pred HHHHHHHHHHHHHHHHHhHHH
Confidence 344555556666666666665
No 39
>COG0109 CyoE Polyprenyltransferase (cytochrome oxidase assembly factor) [Posttranslational modification, protein turnover, chaperones]
Probab=25.91 E-value=77 Score=28.58 Aligned_cols=25 Identities=28% Similarity=0.498 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhh-cccC
Q 030821 105 TNTTVALLIFTILYNVLFYTV-IKPS 129 (171)
Q Consensus 105 a~sa~aLvifTIFyNVlF~tv-IKPS 129 (171)
...++.|.+++||++|.-||. .|+.
T Consensus 121 n~laa~l~~~gi~~Yv~vYT~~lKR~ 146 (304)
T COG0109 121 NLLAAVLGLFGIFFYVVVYTLWLKRR 146 (304)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhccCC
Confidence 445667888999999998887 7764
No 40
>PF03791 KNOX2: KNOX2 domain ; InterPro: IPR005541 The MEINOX region is comprised of two domains, KNOX1 and KNOX2. KNOX1 plays a role in suppressing target gene expression. KNOX2, essential for function, is thought to be necessary for homo-dimerization [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=25.79 E-value=74 Score=22.02 Aligned_cols=20 Identities=35% Similarity=0.419 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHhhccc
Q 030821 51 PEEARQALQRLDQQLKSLSN 70 (171)
Q Consensus 51 pekAreaL~eLDqQLesLs~ 70 (171)
-.||-..+.++.+||.+|.+
T Consensus 33 ~~EA~~f~~~ie~qL~~Lt~ 52 (52)
T PF03791_consen 33 FQEAMEFCREIEQQLSSLTG 52 (52)
T ss_pred HHHHHHHHHHHHHHHHHHhC
Confidence 35899999999999999863
No 41
>PF06084 Cytomega_TRL10: Cytomegalovirus TRL10 protein; InterPro: IPR009284 This family consists of several Cytomegalovirus TRL10 proteins. TRL10 represents a structural component of the virus particle and like the other HCMV envelope glycoproteins, is present in a disulphide-linked complex [].
Probab=25.56 E-value=34 Score=28.20 Aligned_cols=16 Identities=38% Similarity=0.779 Sum_probs=8.7
Q ss_pred hhHHHHHHHHHHHHHH
Q 030821 101 GSFLTNTTVALLIFTI 116 (171)
Q Consensus 101 ~Sfla~sa~aLvifTI 116 (171)
|||+|.+.+-||+|-+
T Consensus 63 gsfiatliillviffv 78 (150)
T PF06084_consen 63 GSFIATLIILLVIFFV 78 (150)
T ss_pred chHHHHHHHHHHHhhe
Confidence 5666665555555433
No 42
>TIGR03038 PS_II_psbM photosystem II reaction center protein PsbM. Members of this protein family are the photosystem II reaction center M protein, product of the psbM gene, in Cyanobacteria and their derived organelles in plants. This model resembles Pfam model pfam05151 but has cutoffs set to avoid false-positive matches to similar (not necessarily homologous) sequences in species that are not photosynthetic.
Probab=25.46 E-value=1.2e+02 Score=19.71 Aligned_cols=26 Identities=19% Similarity=0.230 Sum_probs=16.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhccc
Q 030821 102 SFLTNTTVALLIFTILYNVLFYTVIKP 128 (171)
Q Consensus 102 Sfla~sa~aLvifTIFyNVlF~tvIKP 128 (171)
..++|.|.+|+++ |=+-.|.++|||-
T Consensus 4 n~l~fiAt~Lfi~-iPt~FLiilYvqT 29 (33)
T TIGR03038 4 NILGFIATLLFIL-VPTVFLLILYIQT 29 (33)
T ss_pred cHHHHHHHHHHHH-HHHHHHHHHheec
Confidence 3578888877765 2333466777774
No 43
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=25.38 E-value=92 Score=23.82 Aligned_cols=21 Identities=14% Similarity=0.390 Sum_probs=12.4
Q ss_pred cchhHHHHHHHHHHHHHHHHH
Q 030821 99 ISGSFLTNTTVALLIFTILYN 119 (171)
Q Consensus 99 iS~Sfla~sa~aLvifTIFyN 119 (171)
|.+.|..+.++++|+|-++|=
T Consensus 1 ~~~~~w~~i~f~i~l~~l~~~ 21 (159)
T PRK09173 1 MDATFWAFVGLVLFLALVVYL 21 (159)
T ss_pred CCchHHHHHHHHHHHHHHHHH
Confidence 355666666666665555443
No 44
>PF09802 Sec66: Preprotein translocase subunit Sec66; InterPro: IPR018624 Members of this family of proteins are a component of the heterotetrameric Sec62/63 complex composed of SEC62, SEC63, SEC66 and SEC72. The Sec62/63 complex associates with the Sec61 complex to form the Sec complex. Sec 66 is involved in SRP-independent post-translational translocation across the endoplasmic reticulum and functions together with the Sec61 complex and KAR2 in a channel-forming translocon complex. Furthermore, Sec66 is also required for growth at elevated temperatures [, , , ].
Probab=25.04 E-value=66 Score=27.13 Aligned_cols=18 Identities=17% Similarity=0.421 Sum_probs=16.0
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 030821 102 SFLTNTTVALLIFTILYN 119 (171)
Q Consensus 102 Sfla~sa~aLvifTIFyN 119 (171)
.|++.+.++|.+|+++|=
T Consensus 11 ~Y~~vl~~sl~~Fs~~YR 28 (190)
T PF09802_consen 11 AYVAVLVGSLATFSSIYR 28 (190)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 589999999999999993
No 45
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=24.98 E-value=72 Score=22.80 Aligned_cols=18 Identities=39% Similarity=0.556 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHhhccc
Q 030821 111 LLIFTILYNVLFYTVIKP 128 (171)
Q Consensus 111 LvifTIFyNVlF~tvIKP 128 (171)
++.|.|||=+|++.+.||
T Consensus 6 ~i~Flil~~~l~~~~~~p 23 (132)
T PF00430_consen 6 LINFLILFFLLNKFLYKP 23 (132)
T ss_dssp HHHHHHHHHHHHHHTHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 445555555555555555
No 46
>PF13713 BRX_N: Transcription factor BRX N-terminal domain
Probab=24.82 E-value=62 Score=21.28 Aligned_cols=21 Identities=29% Similarity=0.521 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHhhccccc
Q 030821 52 EEARQALQRLDQQLKSLSNKQ 72 (171)
Q Consensus 52 ekAreaL~eLDqQLesLs~~q 72 (171)
--|+|..+-|..||..++++-
T Consensus 8 kaaKe~IKsLt~QlK~maekl 28 (39)
T PF13713_consen 8 KAAKEVIKSLTAQLKDMAEKL 28 (39)
T ss_pred HHHHHHHHHHHHHHHHHHHhC
Confidence 358899999999999999865
No 47
>PRK00539 atpC F0F1 ATP synthase subunit epsilon; Validated
Probab=24.07 E-value=84 Score=24.34 Aligned_cols=20 Identities=25% Similarity=0.483 Sum_probs=18.7
Q ss_pred cCCHHHHHHHHHHHHHHHhh
Q 030821 48 EIDPEEARQALQRLDQQLKS 67 (171)
Q Consensus 48 eidpekAreaL~eLDqQLes 67 (171)
+||.++|.+++++..++|+.
T Consensus 88 eID~~~a~~a~erAe~~L~~ 107 (133)
T PRK00539 88 ELDYDETLKRKKELERKIKH 107 (133)
T ss_pred hCCHHHHHHHHHHHHHHHHh
Confidence 89999999999999999976
No 48
>PF08824 Serine_rich: Serine rich protein interaction domain; InterPro: IPR014928 This is a serine rich protein that is found in the docking protein p130(cas) (Crk-associated substrate). The protein folds into a four helix bundle which is associated with protein-protein interactions []. ; PDB: 2L81_A 1Z23_A.
Probab=24.03 E-value=77 Score=25.96 Aligned_cols=20 Identities=35% Similarity=0.537 Sum_probs=16.2
Q ss_pred CCHHHHHHHHHHHHHHHhhc
Q 030821 49 IDPEEARQALQRLDQQLKSL 68 (171)
Q Consensus 49 idpekAreaL~eLDqQLesL 68 (171)
.|+|.|.|.|.+|+|.+++=
T Consensus 1 Ld~d~A~e~L~~LQ~~v~~s 20 (159)
T PF08824_consen 1 LDLDAAMETLSRLQQEVESS 20 (159)
T ss_dssp --HHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHH
Confidence 37899999999999998763
No 49
>TIGR02610 PHA_gran_rgn putative polyhydroxyalkanoic acid system protein. All members of this family are encoded by genes polyhydroxyalkanoic acid (PHA) biosynthesis and utilization genes, including proteins at found at the surface of PHA granules. Examples so far are found in the Pseudomonales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=24.01 E-value=99 Score=22.88 Aligned_cols=22 Identities=23% Similarity=0.401 Sum_probs=17.4
Q ss_pred ccCCHHHHHHHHHHHHHHHhhc
Q 030821 47 FEIDPEEARQALQRLDQQLKSL 68 (171)
Q Consensus 47 ~eidpekAreaL~eLDqQLesL 68 (171)
.....++||++++++-+++++.
T Consensus 10 H~Lg~~eAr~~~e~~a~~l~~~ 31 (91)
T TIGR02610 10 HSLGPAAARAKAEDLARKLTDR 31 (91)
T ss_pred CCCCHHHHHHHHHHHHHHHHHH
Confidence 4567899999999997776643
No 50
>PF04834 Adeno_E3_14_5: Early E3 14.5 kDa protein; InterPro: IPR008131 The E3B 14.5 kDa was first identified in human adenovirus type 5. It is an integral membrane protein oriented with its C terminus in the cytoplasm. It functions to down-regulate the epidermal growth factor receptor and prevent tumour necrosis factor cytolysis. It achieves this through the interaction with E3 10.4 kDa protein [, ]. ; GO: 0009966 regulation of signal transduction, 0016021 integral to membrane
Probab=23.54 E-value=1.3e+02 Score=23.43 Aligned_cols=36 Identities=8% Similarity=0.313 Sum_probs=27.0
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 030821 94 QETLEISGSFLTNTTVALLIFTILYNVLFYTVIKPS 129 (171)
Q Consensus 94 dE~pEiS~Sfla~sa~aLvifTIFyNVlF~tvIKPS 129 (171)
+++++||..+|-..+.++|++.-|.-++-|-.++=.
T Consensus 15 ~~~~d~~~~Wl~~i~~~~v~~~t~~~l~iYp~f~~g 50 (97)
T PF04834_consen 15 DKKSDMPNYWLYAIGIVLVFCSTFFSLAIYPCFDFG 50 (97)
T ss_pred ccCCCCCHHHHHHHHHHHHHHHHHHHHhhhheeecc
Confidence 578999999998888888777666666666665543
No 51
>PRK02251 putative septation inhibitor protein; Reviewed
Probab=23.27 E-value=1.1e+02 Score=23.27 Aligned_cols=28 Identities=21% Similarity=0.458 Sum_probs=24.6
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHh
Q 030821 97 LEISGSFLTNTTVALLIFTILYNVLFYT 124 (171)
Q Consensus 97 pEiS~Sfla~sa~aLvifTIFyNVlF~t 124 (171)
..-|+.++.-..+||+++.+++=|+||+
T Consensus 27 ~~~sP~W~~~~m~~lm~~Gl~WlvvyYl 54 (87)
T PRK02251 27 TKSNPRWFVPLFVALMIIGLIWLVVYYL 54 (87)
T ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHhh
Confidence 3568889999999999999999999988
No 52
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=23.23 E-value=2.7e+02 Score=19.52 Aligned_cols=16 Identities=25% Similarity=0.625 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHhh
Q 030821 52 EEARQALQRLDQQLKS 67 (171)
Q Consensus 52 ekAreaL~eLDqQLes 67 (171)
|+=|++|+|+.+||..
T Consensus 5 e~E~r~L~eiEr~L~~ 20 (82)
T PF11239_consen 5 EHEQRRLEEIERQLRA 20 (82)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3447899999999853
No 53
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=22.99 E-value=32 Score=23.77 Aligned_cols=16 Identities=25% Similarity=0.561 Sum_probs=10.4
Q ss_pred HHHHHHHHHhhccccc
Q 030821 57 ALQRLDQQLKSLSNKQ 72 (171)
Q Consensus 57 aL~eLDqQLesLs~~q 72 (171)
....+|+||..|-.++
T Consensus 20 kiedid~qIaeLe~KR 35 (46)
T PF08946_consen 20 KIEDIDEQIAELEAKR 35 (46)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3445788887776543
No 54
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=22.87 E-value=71 Score=23.35 Aligned_cols=24 Identities=29% Similarity=0.515 Sum_probs=20.4
Q ss_pred CccccchhHHHHHHHHHHHHHHHH
Q 030821 95 ETLEISGSFLTNTTVALLIFTILY 118 (171)
Q Consensus 95 E~pEiS~Sfla~sa~aLvifTIFy 118 (171)
-..||++-|.+++++.-.++||-.
T Consensus 6 ~tIEFtskFW~YFtLi~M~lti~~ 29 (64)
T PF03579_consen 6 TTIEFTSKFWTYFTLIFMMLTIGF 29 (64)
T ss_pred EEeeeccccchHHHHHHHHHHHHH
Confidence 357999999999999988888753
No 55
>PRK04989 psbM photosystem II reaction center protein M; Provisional
Probab=22.51 E-value=1.3e+02 Score=19.70 Aligned_cols=25 Identities=16% Similarity=0.123 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccc
Q 030821 103 FLTNTTVALLIFTILYNVLFYTVIKP 128 (171)
Q Consensus 103 fla~sa~aLvifTIFyNVlF~tvIKP 128 (171)
-++|.|.+||++ |=+-.|.++|||-
T Consensus 5 ~lgfiAt~Lfi~-iPt~FLlilYvqT 29 (35)
T PRK04989 5 DLGFVASLLFVL-VPTVFLIILYIQT 29 (35)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHheec
Confidence 467777777765 2333466777774
No 56
>PF12129 Phtf-FEM1B_bdg: Male germ-cell putative homeodomain transcription factor; InterPro: IPR021980 This domain is found in bacteria and eukaryotes, and is typically between 101 and 140 amino acids in length. Phtf proteins do not display any sequence similarity to known or predicted proteins, but their conservation among species suggests an essential function. The 84 kDa Phtf1 protein is an integral membrane protein, anchored to a cell membrane by six to eight trans-membrane domains, that is associated with a domain of the endoplasmic reticulum (ER) juxtaposed to the Golgi apparatus. It is present during meiosis and spermiogenesis, and, by the end of spermiogenesis, is released from the mature spermatozoon within the residual bodies []. Phtf1 enhances the binding of FEM1B -feminisation homologue 1B - to cell membranes. Fem-1 was initially identified in the signaling pathway for sex determination, as well as being implicated in apoptosis, but its biochemical role is still unclear, and neither FEM1B nor PHTF1 is directly implicated in apoptosis in spermatogenesis. It is the ANK domain of FEM1B that is necessary for the interaction with the N-terminal region of Phtf1 [].
Probab=21.93 E-value=2.8e+02 Score=23.23 Aligned_cols=51 Identities=27% Similarity=0.327 Sum_probs=34.9
Q ss_pred HHHhhcccccC--CCCCCccccccccCCCCCCCCCccccchhHHHHHHHHHHHH
Q 030821 63 QQLKSLSNKQI--SSPKIKAADVKITRGPGPAEQETLEISGSFLTNTTVALLIF 114 (171)
Q Consensus 63 qQLesLs~~q~--rpP~~~~sDv~~tr~~~~~~dE~pEiS~Sfla~sa~aLvif 114 (171)
.+|+||.++.. ..+|+--=||-+-||+.-. -.+||....-++--++.-++|
T Consensus 29 ~~l~gl~~~~kk~~~lk~dLIDvDLVRGStF~-KAKP~~~~~~l~~kgl~R~lf 81 (159)
T PF12129_consen 29 RELKGLTNKPKKTGHLKPDLIDVDLVRGSTFP-KAKPESPWTSLTRKGLVRVLF 81 (159)
T ss_pred HHhcccccCCcccCCCChhheeeeeeeeeccc-ccCCcchhhHHHHHHHHHHHH
Confidence 45679987444 4455556889999999843 478888777777666655554
No 57
>PRK14735 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=21.63 E-value=1e+02 Score=23.91 Aligned_cols=20 Identities=35% Similarity=0.410 Sum_probs=18.4
Q ss_pred cCCHHHHHHHHHHHHHHHhh
Q 030821 48 EIDPEEARQALQRLDQQLKS 67 (171)
Q Consensus 48 eidpekAreaL~eLDqQLes 67 (171)
+||.++|++++++..++|+.
T Consensus 86 dID~~~a~~a~e~Ae~~l~~ 105 (139)
T PRK14735 86 EIDEARAEQARAEAEQRRRE 105 (139)
T ss_pred cCCHHHHHHHHHHHHHHHHh
Confidence 79999999999999998865
No 58
>COG2012 RPB5 DNA-directed RNA polymerase, subunit H, RpoH/RPB5 [Transcription]
Probab=21.49 E-value=65 Score=24.40 Aligned_cols=45 Identities=33% Similarity=0.443 Sum_probs=30.3
Q ss_pred cCCHHHHHHHHHHHHHHHhhcccccCCCCC-----Ccccc-ccccCCCCCC
Q 030821 48 EIDPEEARQALQRLDQQLKSLSNKQISSPK-----IKAAD-VKITRGPGPA 92 (171)
Q Consensus 48 eidpekAreaL~eLDqQLesLs~~q~rpP~-----~~~sD-v~~tr~~~~~ 92 (171)
-++.||+.+-|++|+-.-+.|-.=+..-|- .+.-| ++|.|.++..
T Consensus 20 vls~eE~~~vLk~l~i~~~qLPkI~~~DPva~~lgak~GdvVkIvRkS~Ta 70 (80)
T COG2012 20 VLSEEEAKEVLKELGIEPEQLPKIKASDPVAKALGAKPGDVVKIVRKSPTA 70 (80)
T ss_pred EcCHHHHHHHHHHhCCCHHHCCcccccChhHHHccCCCCcEEEEEecCCCC
Confidence 578899999999998766666443333332 12345 6788888754
No 59
>PRK10409 hydrogenase assembly chaperone; Provisional
Probab=21.29 E-value=1.1e+02 Score=23.11 Aligned_cols=19 Identities=32% Similarity=0.482 Sum_probs=17.1
Q ss_pred cCCHHHHHHHHHHHHHHHh
Q 030821 48 EIDPEEARQALQRLDQQLK 66 (171)
Q Consensus 48 eidpekAreaL~eLDqQLe 66 (171)
.||.++|++.|+-|++-++
T Consensus 58 ~ideeeA~etl~~l~ei~~ 76 (90)
T PRK10409 58 VINEAEARDTLDALQNMFD 76 (90)
T ss_pred hCCHHHHHHHHHHHHHHHh
Confidence 7899999999999988886
No 60
>PF01484 Col_cuticle_N: Nematode cuticle collagen N-terminal domain; InterPro: IPR002486 The function of this domain is unknown. It is found in the N-terminal region of nematode cuticle collagens (see IPR008160 from INTERPRO). Cuticle is a tough elastic structure secreted by hypodermal cells and is primarily composed of collagen proteins [, ].; GO: 0042302 structural constituent of cuticle
Probab=20.84 E-value=1.3e+02 Score=18.75 Aligned_cols=17 Identities=12% Similarity=0.190 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 030821 104 LTNTTVALLIFTILYNV 120 (171)
Q Consensus 104 la~sa~aLvifTIFyNV 120 (171)
+++.+.++-+++++..+
T Consensus 2 va~~a~~~s~~ai~~~l 18 (53)
T PF01484_consen 2 VAYGAIVVSTVAILSCL 18 (53)
T ss_pred hhhHHHHHHHHHHHHHH
Confidence 34444444444444333
No 61
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=20.83 E-value=1e+02 Score=24.40 Aligned_cols=23 Identities=17% Similarity=0.205 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhccc
Q 030821 106 NTTVALLIFTILYNVLFYTVIKP 128 (171)
Q Consensus 106 ~sa~aLvifTIFyNVlF~tvIKP 128 (171)
++..-++-|.|+..+|++..-||
T Consensus 26 ~~~~~~Inflill~lL~~fl~kP 48 (184)
T CHL00019 26 ILETNLINLSVVLGVLIYFGKGV 48 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHhHhH
Confidence 33445888999999999988888
No 62
>PRK10204 hypothetical protein; Provisional
Probab=20.71 E-value=97 Score=22.12 Aligned_cols=23 Identities=22% Similarity=0.284 Sum_probs=18.3
Q ss_pred CCcccCCHHHHHHHHHHHHHHHh
Q 030821 44 NSKFEIDPEEARQALQRLDQQLK 66 (171)
Q Consensus 44 ~~q~eidpekAreaL~eLDqQLe 66 (171)
...-.+..|+|..+|.+|.-|-+
T Consensus 32 ~p~vtlt~eeA~aRl~~LRr~Ye 54 (55)
T PRK10204 32 MPLVTLTAEEALARLEELRRHYE 54 (55)
T ss_pred cccccccHHHHHHHHHHHHHHhc
Confidence 34557889999999999987653
No 63
>PF09650 PHA_gran_rgn: Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); InterPro: IPR013433 Proteins in this entry are encoded by genes involved in either polyhydroxyalkanoic acid (PHA) biosynthesis or utilisation, including proteins at found at the surface of PHA granules. These proteins have so far been predominantly found in the Pseudomonadales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=20.65 E-value=1.3e+02 Score=21.80 Aligned_cols=22 Identities=27% Similarity=0.397 Sum_probs=17.9
Q ss_pred ccCCHHHHHHHHHHHHHHHhhc
Q 030821 47 FEIDPEEARQALQRLDQQLKSL 68 (171)
Q Consensus 47 ~eidpekAreaL~eLDqQLesL 68 (171)
.....|+||++++++=.++++-
T Consensus 7 H~Lg~~eAr~~~~~~~~~l~~~ 28 (87)
T PF09650_consen 7 HSLGREEARRRAEELAEKLAEE 28 (87)
T ss_pred CCCCHHHHHHHHHHHHHHHHHH
Confidence 3567899999999998888753
No 64
>PRK00159 putative septation inhibitor protein; Reviewed
Probab=20.64 E-value=1.2e+02 Score=22.96 Aligned_cols=28 Identities=14% Similarity=0.235 Sum_probs=24.4
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHh
Q 030821 97 LEISGSFLTNTTVALLIFTILYNVLFYT 124 (171)
Q Consensus 97 pEiS~Sfla~sa~aLvifTIFyNVlF~t 124 (171)
..-|+..++-..+||+++.+++=|+||+
T Consensus 26 ~~~sp~W~~~~m~glm~~GllWlvvyYl 53 (87)
T PRK00159 26 AGPSSVWYVVLMLGLMLIGLAWLVVNYL 53 (87)
T ss_pred CCCCCccHHHHHHHHHHHHHHHHHHHhh
Confidence 4457889999999999999999999987
Done!