Query 035231
Match_columns 70
No_of_seqs 100 out of 203
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 10:16:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035231.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035231hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05493 ATP_synt_H: ATP synth 100.0 3.9E-34 8.4E-39 170.2 5.6 65 1-70 1-65 (65)
2 KOG3500 Vacuolar H+-ATPase V0 100.0 2E-31 4.4E-36 164.8 5.6 69 1-70 1-69 (84)
3 PF06570 DUF1129: Protein of u 72.8 25 0.00054 24.0 6.6 40 27-67 140-179 (206)
4 COG5415 Predicted integral mem 54.5 47 0.001 24.3 5.4 26 31-56 68-94 (251)
5 PHA03371 circ protein; Provisi 49.2 7.3 0.00016 28.5 0.6 15 54-68 132-146 (240)
6 PF01350 Flavi_NS4A: Flaviviru 43.4 85 0.0018 21.3 5.0 27 22-51 67-93 (144)
7 COG4858 Uncharacterized membra 42.2 1.2E+02 0.0027 21.9 5.9 49 6-57 126-182 (226)
8 PF10011 DUF2254: Predicted me 41.8 66 0.0014 24.1 4.7 55 2-62 99-153 (371)
9 PF13273 DUF4064: Protein of u 39.8 75 0.0016 19.0 4.0 15 30-44 82-96 (100)
10 PF00782 DSPc: Dual specificit 38.4 60 0.0013 19.7 3.5 25 42-66 89-121 (133)
11 PF08383 Maf_N: Maf N-terminal 34.9 8.8 0.00019 20.3 -0.6 13 48-60 6-18 (35)
12 PF07584 BatA: Aerotolerance r 34.8 70 0.0015 18.5 3.2 25 1-25 2-26 (77)
13 PF06842 DUF1242: Protein of u 32.8 25 0.00053 18.6 0.9 15 51-65 11-25 (36)
14 PF11085 YqhR: Conserved membr 30.6 82 0.0018 22.0 3.4 12 39-51 134-145 (173)
15 PF03908 Sec20: Sec20; InterP 29.3 46 0.001 20.0 1.8 22 29-50 68-89 (92)
16 PF04103 CD20: CD20-like famil 28.7 19 0.00041 22.4 0.0 25 7-36 38-62 (150)
17 PF06796 NapE: Periplasmic nit 27.4 38 0.00082 19.5 1.1 13 51-65 42-54 (56)
18 PF14256 YwiC: YwiC-like prote 27.3 1.1E+02 0.0024 19.8 3.5 15 23-37 99-113 (129)
19 PF06536 Av_adeno_fibre: Avian 26.7 3.1 6.8E-05 26.5 -3.8 12 49-60 69-80 (97)
20 TIGR02848 spore_III_AC stage I 26.6 1.5E+02 0.0032 17.6 4.4 45 11-58 10-54 (64)
21 COG2270 Permeases of the major 26.3 1.2E+02 0.0026 24.0 4.0 39 11-49 298-336 (438)
22 PF01277 Oleosin: Oleosin; In 25.2 1.3E+02 0.0027 19.7 3.4 23 44-66 71-93 (118)
23 KOG3151 26S proteasome regulat 24.8 33 0.00071 25.4 0.7 10 53-62 77-86 (260)
24 COG2510 Predicted membrane pro 24.8 1.2E+02 0.0027 20.5 3.4 18 9-26 6-23 (140)
25 PF10399 UCR_Fe-S_N: Ubiquitin 24.0 53 0.0011 17.6 1.2 8 53-60 33-40 (41)
26 PF14898 DUF4491: Domain of un 23.7 1.6E+02 0.0036 18.6 3.6 14 9-22 37-50 (94)
27 TIGR02973 nitrate_rd_NapE peri 22.6 56 0.0012 17.9 1.1 12 51-64 29-40 (42)
28 PF00230 MIP: Major intrinsic 22.0 2.6E+02 0.0056 18.8 6.0 16 4-19 15-30 (227)
29 PF04505 Dispanin: Interferon- 21.9 96 0.0021 18.5 2.3 30 29-60 15-46 (82)
30 PF12911 OppC_N: N-terminal TM 21.4 69 0.0015 17.0 1.4 18 5-22 23-40 (56)
No 1
>PF05493 ATP_synt_H: ATP synthase subunit H ; InterPro: IPR008389 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. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit E (or subunit M9.2) found in the V0 complex of certain V-ATPases. The V0 complex contains subunit C (proton-conducting pore), as well as accessory subunits that function in assembly, targeting or regulation of the V-ATPase complex. Subunit E is an extremely hydrophobic protein of approximately 9 kDa, which may be required for assembly of vacuolar ATPases []. The amino terminal domain of subunit E interacts with the H subunit and is required fo V-ATPase function []. Different isoforms of this subunit exist sometimes annotated as E1 and E2 also a neuron-specific isoform, NM9.2 has been identified []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033179 proton-transporting V-type ATPase, V0 domain
Probab=100.00 E-value=3.9e-34 Score=170.22 Aligned_cols=65 Identities=37% Similarity=0.820 Sum_probs=59.9
Q ss_pred CcchhhHHHHHHHHHHhhhhhhhhcccCCCceehhhHHHHHHHHHHHHHHHHHHHHhhccccccccCCCC
Q 035231 1 MGFLVTTLVFLVIGIIASLCTRICCNRGPSTNLLHLTLVITATVSCWMMWAIVYLAQMKPLIVPILSEEE 70 (70)
Q Consensus 1 Mg~~~~T~~~~~v~~~~~~~~~~~~~kg~~~~l~~~~lv~~a~~ccwL~W~~~YmaQm~PLi~P~~~~~~ 70 (70)
|++.++|++|+++|++++++++ |||||+++|+ +++++++||||||+|+|||||||||+|+++||+
T Consensus 1 ~~~~~~t~~~~~~g~~~~~~~p----kg~~~~li~~-~~ilt~~CcwL~W~~~ylaQmnPLi~P~~~~~~ 65 (65)
T PF05493_consen 1 MPIFIGTIFWALLGIVGPFFVP----KGPNRGLIRT-SLILTAVCCWLFWACTYLAQMNPLIGPQLSNKT 65 (65)
T ss_pred CCEEEehHHHHHHHHHHheeee----cCCCceeEhH-HHHHHHHHHHHHHHHHHHHHhCcccCCcccCCC
Confidence 7889999999999999988887 9999999999 555667999999999999999999999999985
No 2
>KOG3500 consensus Vacuolar H+-ATPase V0 sector, subunit M9.7 (M9.2) [Energy production and conversion]
Probab=99.97 E-value=2e-31 Score=164.82 Aligned_cols=69 Identities=51% Similarity=0.972 Sum_probs=55.6
Q ss_pred CcchhhHHHHHHHHHHhhhhhhhhcccCCCceehhhHHHHHHHHHHHHHHHHHHHHhhccccccccCCCC
Q 035231 1 MGFLVTTLVFLVIGIIASLCTRICCNRGPSTNLLHLTLVITATVSCWMMWAIVYLAQMKPLIVPILSEEE 70 (70)
Q Consensus 1 Mg~~~~T~~~~~v~~~~~~~~~~~~~kg~~~~l~~~~lv~~a~~ccwL~W~~~YmaQm~PLi~P~~~~~~ 70 (70)
||+.+.+++|-+++++.++..+.+.||||||+++|+++++|| +||||||+|+|+||||||++|+++++|
T Consensus 1 m~~~v~~l~ftvfw~~v~~~~pi~~~kgP~~~li~~~lvlTA-VCCwlfWli~ylaQlNPLigP~lk~~~ 69 (84)
T KOG3500|consen 1 MGFFVPLLVFTVFWGIVGICGPICFPKGPNRGLIRCMLVLTA-VCCWLFWLIVYLAQLNPLIGPQLKEKT 69 (84)
T ss_pred CCeeEeehHHHHHHHHHHHhcceeccCCCCcChhHHHHHHHH-HHHHHHHHHHHHHHhCcccccccccce
Confidence 565555555555555555555556669999999999887776 899999999999999999999999875
No 3
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=72.76 E-value=25 Score=24.03 Aligned_cols=40 Identities=15% Similarity=0.380 Sum_probs=20.8
Q ss_pred cCCCceehhhHHHHHHHHHHHHHHHHHHHHhhccccccccC
Q 035231 27 RGPSTNLLHLTLVITATVSCWMMWAIVYLAQMKPLIVPILS 67 (70)
Q Consensus 27 kg~~~~l~~~~lv~~a~~ccwL~W~~~YmaQm~PLi~P~~~ 67 (70)
+++.++.++..++.+.++..|+.+...--- +-|=+.|+++
T Consensus 140 ~~~r~~~~k~~~~~~~~~~~w~~~~~~~~~-lp~~inp~l~ 179 (206)
T PF06570_consen 140 KKKRPSWWKYILISVLAMVLWIVIFVLTSF-LPPVINPVLP 179 (206)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHH-ccccCCcCCC
Confidence 344456666656666666666554432211 4455555554
No 4
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=54.47 E-value=47 Score=24.33 Aligned_cols=26 Identities=27% Similarity=0.473 Sum_probs=18.7
Q ss_pred ceehhhHHHHHHHHHHHHH-HHHHHHH
Q 035231 31 TNLLHLTLVITATVSCWMM-WAIVYLA 56 (70)
Q Consensus 31 ~~l~~~~lv~~a~~ccwL~-W~~~Yma 56 (70)
+...++++.+++.+.|||| |+++|+-
T Consensus 68 ~~~~~It~~llgs~slymfrwal~~ly 94 (251)
T COG5415 68 RPYLVITALLLGSGSLYMFRWALTKLY 94 (251)
T ss_pred chhHHHHHHHHhhhHHHHHHHHHHHHH
Confidence 3445555666667889998 9999874
No 5
>PHA03371 circ protein; Provisional
Probab=49.20 E-value=7.3 Score=28.49 Aligned_cols=15 Identities=47% Similarity=0.654 Sum_probs=13.2
Q ss_pred HHHhhccccccccCC
Q 035231 54 YLAQMKPLIVPILSE 68 (70)
Q Consensus 54 YmaQm~PLi~P~~~~ 68 (70)
|=+||+||+-|++++
T Consensus 132 ~~sqm~pltfp~~~~ 146 (240)
T PHA03371 132 LDSQMRPLTFPIRST 146 (240)
T ss_pred ecccccceecccccc
Confidence 568999999999886
No 6
>PF01350 Flavi_NS4A: Flavivirus non-structural protein NS4A; InterPro: IPR000404 Flaviviruses encode a single polyprotein. This is cleaved into three structural and seven non-structural proteins. The NS4A protein is small and poorly conserved among the Flaviviruses. NS4A contains multiple hydrophobic potential membrane spanning regions []. NS4A has only been found in cells infected by Kunjin virus [].; GO: 0016032 viral reproduction, 0016070 RNA metabolic process, 0044423 virion part
Probab=43.45 E-value=85 Score=21.26 Aligned_cols=27 Identities=22% Similarity=0.507 Sum_probs=17.9
Q ss_pred hhhcccCCCceehhhHHHHHHHHHHHHHHH
Q 035231 22 RICCNRGPSTNLLHLTLVITATVSCWMMWA 51 (70)
Q Consensus 22 ~~~~~kg~~~~l~~~~lv~~a~~ccwL~W~ 51 (70)
.+..|||-||--+-. +++. ++-|++|.
T Consensus 67 ~lm~~kgi~rm~lG~-~vm~--~~~~llw~ 93 (144)
T PF01350_consen 67 FLMRRKGIGRMSLGM-LVMA--VAGYLLWM 93 (144)
T ss_pred hhhcCCCcchhhHHH-HHHH--HHHHHHHh
Confidence 345689999977666 3333 46778874
No 7
>COG4858 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]
Probab=42.16 E-value=1.2e+02 Score=21.88 Aligned_cols=49 Identities=14% Similarity=0.294 Sum_probs=25.8
Q ss_pred hHHHHHHHHHHhhhhhh-----hhcccCCC---ceehhhHHHHHHHHHHHHHHHHHHHHh
Q 035231 6 TTLVFLVIGIIASLCTR-----ICCNRGPS---TNLLHLTLVITATVSCWMMWAIVYLAQ 57 (70)
Q Consensus 6 ~T~~~~~v~~~~~~~~~-----~~~~kg~~---~~l~~~~lv~~a~~ccwL~W~~~YmaQ 57 (70)
|.+.-++.|++|.+..+ ++-+||+| .+-+...++.+ ---+.|..+|.+|
T Consensus 126 GlItlll~a~vgGfamy~my~y~yr~~ad~sqr~~~~K~~lv~~---~sm~lWi~v~i~t 182 (226)
T COG4858 126 GLITLLLTAVVGGFAMYIMYYYAYRMRADNSQRPGTWKYLLVAV---LSMLLWIAVMIAT 182 (226)
T ss_pred hHHHHHHHHHhhhHHHHHHHHHHHHhhcccccCCchHHHHHHHH---HHHHHHHHHHHHH
Confidence 44444555666655544 22346633 23344433333 3446788888887
No 8
>PF10011 DUF2254: Predicted membrane protein (DUF2254); InterPro: IPR018723 Members of this family of proteins comprises various hypothetical and putative membrane proteins. Their exact function, has not, as yet, been defined.
Probab=41.79 E-value=66 Score=24.07 Aligned_cols=55 Identities=20% Similarity=0.306 Sum_probs=24.9
Q ss_pred cchhhHHHHHHHHHHhhhhhhhhcccCCCceehhhHHHHHHHHHHHHHHHHHHHHhhcccc
Q 035231 2 GFLVTTLVFLVIGIIASLCTRICCNRGPSTNLLHLTLVITATVSCWMMWAIVYLAQMKPLI 62 (70)
Q Consensus 2 g~~~~T~~~~~v~~~~~~~~~~~~~kg~~~~l~~~~lv~~a~~ccwL~W~~~YmaQm~PLi 62 (70)
|.+++|++|.+++...--... .++.-.+.-...+.++++| +..++-|.|.+==.+
T Consensus 99 g~Figtfvy~l~~l~~i~~~~----~~~~p~~~~~~a~~l~i~~--v~~li~fI~~i~~~i 153 (371)
T PF10011_consen 99 GTFIGTFVYSLLVLIAIRSGD----YGSVPRLSVFIALALAILS--VVLLIYFIHHIARSI 153 (371)
T ss_pred HHHHHHHHHHHHHHHHccccc----cccCcchHHHHHHHHHHHH--HHHHHHHHHHHHHhc
Confidence 566777777666543321111 1111222222233444444 455666766554333
No 9
>PF13273 DUF4064: Protein of unknown function (DUF4064)
Probab=39.76 E-value=75 Score=19.05 Aligned_cols=15 Identities=20% Similarity=0.430 Sum_probs=8.3
Q ss_pred CceehhhHHHHHHHH
Q 035231 30 STNLLHLTLVITATV 44 (70)
Q Consensus 30 ~~~l~~~~lv~~a~~ 44 (70)
|+.+.-..+++.+++
T Consensus 82 ~~k~~Gil~Ii~aii 96 (100)
T PF13273_consen 82 NPKLAGILFIIAAII 96 (100)
T ss_pred CchhhhhhhhHHHHH
Confidence 556666645555543
No 10
>PF00782 DSPc: Dual specificity phosphatase, catalytic domain; InterPro: IPR000340 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents dual specificity protein-tyrosine phosphatases. Ser/Thr and Tyr dual specificity phosphatases are a group of enzymes with both Ser/Thr (3.1.3.16 from EC) and tyrosine specific protein phosphatase (3.1.3.48 from EC) activity able to remove both the serine/threonine or tyrosine-bound phosphate group from a wide range of phosphoproteins, including a number of enzymes which have been phosphorylated under the action of a kinase. Dual specificity protein phosphatases (DSPs) regulate mitogenic signal transduction and control the cell cycle. The crystal structure of a human DSP, vaccinia H1-related phosphatase (or VHR), has been determined at 2.1 angstrom resolution []. A shallow active site pocket in VHR allows for the hydrolysis of phosphorylated serine, threonine, or tyrosine protein residues, whereas the deeper active site of protein tyrosine phosphatases (PTPs) restricts substrate specificity to only phosphotyrosine. Positively charged crevices near the active site may explain the enzyme's preference for substrates with two phosphorylated residues. The VHR structure defines a conserved structural scaffold for both DSPs and PTPs. A "recognition region" connecting helix alpha1 to strand beta1, may determine differences in substrate specificity between VHR, the PTPs, and other DSPs. These proteins may also have inactive phosphatase domains, and dependent on the domain composition this loss of catalytic activity has different effects on protein function. Inactive single domain phosphatases can still specifically bind substrates, and protect again dephosphorylation, while the inactive domains of tandem phosphatases can be further subdivided into two classes. Those which bind phosphorylated tyrosine residues may recruit multi-phosphorylated substrates for the adjacent active domains and are more conserved, while the other class have accumulated several variable amino acid substitutions and have a complete loss of tyrosine binding capability. The second class shows a release of evolutionary constraint for the sites around the catalytic centre, which emphasises a difference in function from the first group. There is a region of higher conservation common to both classes, suggesting a new regulatory centre [].; GO: 0008138 protein tyrosine/serine/threonine phosphatase activity, 0006470 protein dephosphorylation; PDB: 2G6Z_A 1MKP_A 1YZ4_A 2P4D_A 1M3G_A 1ZZW_A 2OUD_A 2HXP_A 3LJ8_A 1OHD_A ....
Probab=38.40 E-value=60 Score=19.67 Aligned_cols=25 Identities=32% Similarity=0.492 Sum_probs=21.0
Q ss_pred HHHHHHHHH--------HHHHHHhhcccccccc
Q 035231 42 ATVSCWMMW--------AIVYLAQMKPLIVPIL 66 (70)
Q Consensus 42 a~~ccwL~W--------~~~YmaQm~PLi~P~~ 66 (70)
+++++|||+ +.-++-+-+|-+.|..
T Consensus 89 ~v~~ayLm~~~~~~~~~A~~~v~~~rp~~~~~~ 121 (133)
T PF00782_consen 89 AVAAAYLMKKNGMSLEEAIEYVRSRRPQINPNP 121 (133)
T ss_dssp HHHHHHHHHHHTSSHHHHHHHHHHHSTTSTHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHCCCCCCCH
Confidence 356899999 8899999999998864
No 11
>PF08383 Maf_N: Maf N-terminal region; InterPro: IPR013592 This region is found in various leucine zipper transcription factors of the Maf family. These are implicated in the regulation of insulin gene expression [], in erythroid differentiation [], and in differentiation of the neuroretina [].
Probab=34.85 E-value=8.8 Score=20.35 Aligned_cols=13 Identities=38% Similarity=0.884 Sum_probs=10.7
Q ss_pred HHHHHHHHHhhcc
Q 035231 48 MMWAIVYLAQMKP 60 (70)
Q Consensus 48 L~W~~~YmaQm~P 60 (70)
+.|.-.|=.||||
T Consensus 6 lyWm~~~~Qq~~p 18 (35)
T PF08383_consen 6 LYWMANYQQQMNP 18 (35)
T ss_pred hcccccchhhcCh
Confidence 4688889999997
No 12
>PF07584 BatA: Aerotolerance regulator N-terminal; InterPro: IPR024163 The Batl operon appears to be important in pathogenicity and aerotolerance. BatA ensures bacterial survival in the early stages of the infection process, when the infected sites are aerobic, and is produced under conditions of oxidative stress []. Proteins produced by the Batl operon share a highly-conserved sequence at their N terminus and the full length proteins carry multiple membrane-spanning domains []. This entry represents the conserved N-terminal domain, which is also found in some uncharacterised proteins.
Probab=34.76 E-value=70 Score=18.47 Aligned_cols=25 Identities=12% Similarity=0.203 Sum_probs=16.1
Q ss_pred CcchhhHHHHHHHHHHhhhhhhhhc
Q 035231 1 MGFLVTTLVFLVIGIIASLCTRICC 25 (70)
Q Consensus 1 Mg~~~~T~~~~~v~~~~~~~~~~~~ 25 (70)
-+|...-.+|+++.+..+++..++.
T Consensus 2 ~~F~~P~~L~~Llllp~~i~~~~~~ 26 (77)
T PF07584_consen 2 FSFLNPWYLWLLLLLPLPIIIHYFL 26 (77)
T ss_pred cchHhHHHHHHHHHHHHHHHHHHHh
Confidence 0777777888777666655555443
No 13
>PF06842 DUF1242: Protein of unknown function (DUF1242); InterPro: IPR009653 This family consists of a number of eukaryotic proteins of around 72 residues in length. The function of this family is unknown.
Probab=32.84 E-value=25 Score=18.61 Aligned_cols=15 Identities=13% Similarity=0.354 Sum_probs=11.7
Q ss_pred HHHHHHhhccccccc
Q 035231 51 AIVYLAQMKPLIVPI 65 (70)
Q Consensus 51 ~~~YmaQm~PLi~P~ 65 (70)
-|+|++|.-|=+--+
T Consensus 11 TCtYir~~~P~l~dr 25 (36)
T PF06842_consen 11 TCTYIRSIFPSLLDR 25 (36)
T ss_pred HhHhHHhHCcccccc
Confidence 489999998876543
No 14
>PF11085 YqhR: Conserved membrane protein YqhR; InterPro: IPR024563 This family of proteins is conserved in the Bacillaceae family of the Firmicutes. Their function is not known.
Probab=30.59 E-value=82 Score=22.01 Aligned_cols=12 Identities=17% Similarity=0.695 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHH
Q 035231 39 VITATVSCWMMWA 51 (70)
Q Consensus 39 v~~a~~ccwL~W~ 51 (70)
++|+ +|.|++|-
T Consensus 134 iiT~-~CiyiLyG 145 (173)
T PF11085_consen 134 IITT-LCIYILYG 145 (173)
T ss_pred HHHH-HHHHHHHH
Confidence 3443 67777773
No 15
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=29.28 E-value=46 Score=19.97 Aligned_cols=22 Identities=14% Similarity=0.478 Sum_probs=13.1
Q ss_pred CCceehhhHHHHHHHHHHHHHH
Q 035231 29 PSTNLLHLTLVITATVSCWMMW 50 (70)
Q Consensus 29 ~~~~l~~~~lv~~a~~ccwL~W 50 (70)
.|+.++...+.+..++|+|+.|
T Consensus 68 ~D~~li~~~~~~f~~~v~yI~~ 89 (92)
T PF03908_consen 68 TDRILIFFAFLFFLLVVLYILW 89 (92)
T ss_pred HhHHHHHHHHHHHHHHHHHHhh
Confidence 3455555555555567777776
No 16
>PF04103 CD20: CD20-like family; InterPro: IPR007237 This family includes the CD20 protein and the beta subunit of the high affinity receptor for IgE Fc. The high affinity receptor for IgE is a tetrameric structure consisting of a single IgE-binding alpha subunit, a single beta subunit, and two disulphide-linked gamma subunits. The alpha subunit of Fc epsilon RI and most Fc receptors are homologous members of the Ig superfamily. By contrast, the beta and gamma subunits from Fc epsilon RI are not homologous to the Ig superfamily. Both molecules have four putative transmembrane segments and a probably topology where both amino- and carboxy termini protrude into the cytoplasm []. This family also includes LR8 like proteins from humans, mice and rats. The function of the human LR8 protein is unknown although it is known to be strongly expressed in the lung fibroblasts []. This family also includes sarcospan is a transmembrane component of dystrophin-associated glycoprotein. Loss of the sarcoglycan complex and sarcospan alone is sufficient to cause muscular dystrophy. The role of the sarcoglycan complex and sarcospan is thought to be to strengthen the dystrophin axis connecting the basement membrane with the cytoskeleton []. ; GO: 0016021 integral to membrane; PDB: 2OSL_Q 3BKY_P 3PP4_P.
Probab=28.75 E-value=19 Score=22.38 Aligned_cols=25 Identities=20% Similarity=0.567 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhhhhhhhhcccCCCceehhh
Q 035231 7 TLVFLVIGIIASLCTRICCNRGPSTNLLHL 36 (70)
Q Consensus 7 T~~~~~v~~~~~~~~~~~~~kg~~~~l~~~ 36 (70)
.++|++.|+++ + ...|.|++.++..
T Consensus 38 G~~fiisG~l~-i----~s~k~~~~~lv~~ 62 (150)
T PF04103_consen 38 GIFFIISGILG-I----ASEKKPTKCLVIA 62 (150)
T ss_dssp ------------------------------
T ss_pred HHHHHhhHHHH-H----HHhcCCcccchHH
Confidence 33445555544 2 2337777776665
No 17
>PF06796 NapE: Periplasmic nitrate reductase protein NapE; InterPro: IPR010649 This family consists of several bacterial periplasmic nitrate reductase NapE proteins. Seven genes, napKEFDABC, encoding the periplasmic nitrate reductase system were cloned from the denitrifying phototrophic bacterium Rhodobacter sphaeroides. NapE is thought to be a transmembrane protein [].
Probab=27.44 E-value=38 Score=19.54 Aligned_cols=13 Identities=31% Similarity=0.506 Sum_probs=9.9
Q ss_pred HHHHHHhhccccccc
Q 035231 51 AIVYLAQMKPLIVPI 65 (70)
Q Consensus 51 ~~~YmaQm~PLi~P~ 65 (70)
.++||.|+ +.||-
T Consensus 42 F~VWm~Q~--~~GpP 54 (56)
T PF06796_consen 42 FIVWMYQI--FFGPP 54 (56)
T ss_pred HHHHHHHH--HcCCC
Confidence 36789999 88773
No 18
>PF14256 YwiC: YwiC-like protein
Probab=27.27 E-value=1.1e+02 Score=19.75 Aligned_cols=15 Identities=20% Similarity=0.164 Sum_probs=11.5
Q ss_pred hhcccCCCceehhhH
Q 035231 23 ICCNRGPSTNLLHLT 37 (70)
Q Consensus 23 ~~~~kg~~~~l~~~~ 37 (70)
.+.+|++||.+..-.
T Consensus 99 ~~~~~~~eRsLlndl 113 (129)
T PF14256_consen 99 YFAKRKRERSLLNDL 113 (129)
T ss_pred HHHHhcCchhHHHhH
Confidence 445688999998883
No 19
>PF06536 Av_adeno_fibre: Avian adenovirus fibre; InterPro: IPR010537 This family contains avian adenovirus fibre proteins, which have been linked to variations in virulence []. Avian adenoviruses possess penton capsomers that consist of a pentameric base associated with two fibres [].; PDB: 2VTW_F.
Probab=26.71 E-value=3.1 Score=26.52 Aligned_cols=12 Identities=33% Similarity=0.725 Sum_probs=8.6
Q ss_pred HHHHHHHHhhcc
Q 035231 49 MWAIVYLAQMKP 60 (70)
Q Consensus 49 ~W~~~YmaQm~P 60 (70)
||+-.|+.|+||
T Consensus 69 fWVsa~l~~~N~ 80 (97)
T PF06536_consen 69 FWVSAYLQQCNL 80 (97)
T ss_dssp EEE-SBTTTB-T
T ss_pred EEeehhhhhcCc
Confidence 588899999995
No 20
>TIGR02848 spore_III_AC stage III sporulation protein AC. Members of this protein family are designated SpoIIIAC, part of the spoIIIA operon of sporulation genes whose mutant phenotype is linked to sporulation stage III. Members of this family are encoded by the genome of a species if and only if that species is capable of endospore formation, as in Bacillus subtilis. The molecular function of this small, probable integral membrane protein is unknown.
Probab=26.56 E-value=1.5e+02 Score=17.58 Aligned_cols=45 Identities=16% Similarity=0.257 Sum_probs=26.4
Q ss_pred HHHHHHhhhhhhhhcccCCCceehhhHHHHHHHHHHHHHHHHHHHHhh
Q 035231 11 LVIGIIASLCTRICCNRGPSTNLLHLTLVITATVSCWMMWAIVYLAQM 58 (70)
Q Consensus 11 ~~v~~~~~~~~~~~~~kg~~~~l~~~~lv~~a~~ccwL~W~~~YmaQm 58 (70)
+.+|++.+..-.+....|++. .-. +..++.+---|+|.+.|+..+
T Consensus 10 AgVGIlvavl~~vLk~sGkee--~A~-~~tLaG~iiVL~~Vi~~i~~L 54 (64)
T TIGR02848 10 AGVGILVAVIHTILKQSGKEE--QAQ-MVTLAGIVVVLFMVITLINDL 54 (64)
T ss_pred hhHHHHHHHHHHHHHHcCcHH--HHH-HHHHHHHHHHHHHHHHHHHHH
Confidence 345555555554443333332 222 444556778999999998765
No 21
>COG2270 Permeases of the major facilitator superfamily [General function prediction only]
Probab=26.34 E-value=1.2e+02 Score=24.05 Aligned_cols=39 Identities=18% Similarity=0.277 Sum_probs=26.8
Q ss_pred HHHHHHhhhhhhhhcccCCCceehhhHHHHHHHHHHHHH
Q 035231 11 LVIGIIASLCTRICCNRGPSTNLLHLTLVITATVSCWMM 49 (70)
Q Consensus 11 ~~v~~~~~~~~~~~~~kg~~~~l~~~~lv~~a~~ccwL~ 49 (70)
-++++.+++..++...|=..+.++-..+++...+|.|++
T Consensus 298 ~vvA~lg~ii~g~Ld~rfg~k~vl~~~lvi~~~~~~~~~ 336 (438)
T COG2270 298 SVVAALGAIIAGFLDERFGSKPVLMIGLVILSIAALYLI 336 (438)
T ss_pred HHHHHHHHHHHHHHHHHhCCceeehHHHHHHHHHHHHHH
Confidence 346677777777666555555666666888888888863
No 22
>PF01277 Oleosin: Oleosin; InterPro: IPR000136 Oleosins [] are the proteinaceous components of plants' lipid storage bodies called oil bodies. Oil bodies are small droplets (0.2 to 1.5 mu-m in diameter) containing mostly triacylglycerol that are surrounded by a phospholipid/ oleosin annulus. Oleosins may have a structural role in stabilising the lipid body during dessication of the seed, by preventing coalescence of the oil. They may also provide recognition signals for specific lipase anchorage in lipolysis during seedling growth. Oleosins are found in the monolayer lipid/ water interface of oil bodies and probably interact with both the lipid and phospholipid moieties. Oleosins are proteins of 16 Kd to 24 Kd and are composed of three domains: an N-terminal hydrophilic region of variable length (from 30 to 60 residues); a central hydrophobic domain of about 70 residues and a C-terminal amphipathic region of variable length (from 60 to 100 residues). The central hydrophobic domain is proposed to be made up of beta-strand structure and to interact with the lipids []. It is the only domain whose sequence is conserved.; GO: 0012511 monolayer-surrounded lipid storage body, 0016021 integral to membrane
Probab=25.23 E-value=1.3e+02 Score=19.75 Aligned_cols=23 Identities=17% Similarity=0.209 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHhhcccccccc
Q 035231 44 VSCWMMWAIVYLAQMKPLIVPIL 66 (70)
Q Consensus 44 ~ccwL~W~~~YmaQm~PLi~P~~ 66 (70)
.+.++.|+.-|.-+.||--.++.
T Consensus 71 ~ls~lsW~~~y~rg~~~~~~~q~ 93 (118)
T PF01277_consen 71 ALSSLSWMYNYFRGRHPPGPDQL 93 (118)
T ss_pred HHHHHHHHHHHhccCCCCCCccH
Confidence 48999999999999999654443
No 23
>KOG3151 consensus 26S proteasome regulatory complex, subunit RPN12/PSMD8 [Posttranslational modification, protein turnover, chaperones]
Probab=24.77 E-value=33 Score=25.41 Aligned_cols=10 Identities=40% Similarity=0.796 Sum_probs=8.2
Q ss_pred HHHHhhcccc
Q 035231 53 VYLAQMKPLI 62 (70)
Q Consensus 53 ~YmaQm~PLi 62 (70)
=||+|+||--
T Consensus 77 rY~~Qlk~YY 86 (260)
T KOG3151|consen 77 RYMNQLKPYY 86 (260)
T ss_pred HHHHHhcchh
Confidence 5999999954
No 24
>COG2510 Predicted membrane protein [Function unknown]
Probab=24.76 E-value=1.2e+02 Score=20.52 Aligned_cols=18 Identities=11% Similarity=0.242 Sum_probs=8.1
Q ss_pred HHHHHHHHhhhhhhhhcc
Q 035231 9 VFLVIGIIASLCTRICCN 26 (70)
Q Consensus 9 ~~~~v~~~~~~~~~~~~~ 26 (70)
+|.+..++..-..+++.+
T Consensus 6 ~~ALLsA~fa~L~~iF~K 23 (140)
T COG2510 6 IYALLSALFAGLTPIFAK 23 (140)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444444444444444443
No 25
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=24.03 E-value=53 Score=17.60 Aligned_cols=8 Identities=25% Similarity=0.796 Sum_probs=6.1
Q ss_pred HHHHhhcc
Q 035231 53 VYLAQMKP 60 (70)
Q Consensus 53 ~YmaQm~P 60 (70)
-+.+||||
T Consensus 33 Pfv~s~~P 40 (41)
T PF10399_consen 33 PFVSSMNP 40 (41)
T ss_dssp HHHHTTSS
T ss_pred HHHhccCC
Confidence 67788887
No 26
>PF14898 DUF4491: Domain of unknown function (DUF4491)
Probab=23.71 E-value=1.6e+02 Score=18.62 Aligned_cols=14 Identities=29% Similarity=0.624 Sum_probs=6.9
Q ss_pred HHHHHHHHhhhhhh
Q 035231 9 VFLVIGIIASLCTR 22 (70)
Q Consensus 9 ~~~~v~~~~~~~~~ 22 (70)
+|+++|++....+.
T Consensus 37 ~FL~~Gi~~~~~Sl 50 (94)
T PF14898_consen 37 IFLLAGIACIIASL 50 (94)
T ss_pred HHHHHHHHHHHHHH
Confidence 34555555554444
No 27
>TIGR02973 nitrate_rd_NapE periplasmic nitrate reductase, NapE protein. NapE, homologous to TorE (TIGR02972), is a membrane protein of unknown function that is part of the periplasmic nitrate reductase system; it may be part of the enzyme complex. The periplasmic nitrate reductase allows for nitrate respiration in anaerobic conditions.
Probab=22.56 E-value=56 Score=17.87 Aligned_cols=12 Identities=33% Similarity=0.492 Sum_probs=8.0
Q ss_pred HHHHHHhhcccccc
Q 035231 51 AIVYLAQMKPLIVP 64 (70)
Q Consensus 51 ~~~YmaQm~PLi~P 64 (70)
.++||.|+ +.+|
T Consensus 29 F~vWm~Q~--~~Gp 40 (42)
T TIGR02973 29 FAVWMYQI--LAGP 40 (42)
T ss_pred HHHHHHHH--hcCC
Confidence 36678887 5555
No 28
>PF00230 MIP: Major intrinsic protein; InterPro: IPR000425 A number of transmembrane (TM) channel proteins can be grouped together on the basis of sequence similarities [, , , , ]. These include: Mammalian major intrinsic protein (MIP). MIP is the major component of lens fibre gap junctions. Mammalian aquaporins []. These proteins form water- specific channels that provide the plasma membranes of red cells and kidney prox imal and collecting tubules with high permeability to water, thereby permitting water to move in the direction of an osmotic gradient. Soybean nodulin-26, a major component of the peribacteroid membrane induced during nodulation in legume roots after Rhizobium infection. Plants tonoplast intrinsic proteins (TIP). There are various isoforms of TIP : alpha (seed), gamma, Rt (root), and Wsi (water-stress induced). These proteins may allow the diffusion of water, amino acids and/or peptides from the tonoplas t interior to the cytoplasm. Bacterial glycerol facilitator protein (gene glpF), which facilitates the mo vement of glycerol across the cytoplasmic membrane. Salmonella typhimurium propanediol diffusion fac ilitator (gene pduF). Yeast FPS1, a glycerol uptake/efflux facilitator protein. Drosophila neurogenic protein 'big brain' (bib). This protein may mediate in tercellular communication; it may functions by allowing the transport of certain molecules(s) and thereby sending a signal for an exodermal cell to become an ep idermoblast instead of a neuroblast. Yeast hypothetical protein YFL054c. A hypothetical protein from the pepX region of Lactococcus lactis. The structures of various members of the MIP family have been determined by means of X-ray diffraction [, , ], revealing the fold to comprise a right-handed bundle of 6 transmembrane (TM) alpha-helices [, , ]. Similarities in the N-and C-terminal halves of the molecule suggest that the proteins may have arisen through tandem, intragenic duplication of an ancestral protein that contained 3 TM domains []. Some of the proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins []. Aquaporin-CHIP (Aquaporin 1) belongs to the Colton blood group system and is associated with Co(a/b) antigen.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 3NE2_A 2C32_A 1YMG_A 2B6P_A 3C02_A 2B5F_D 3CN6_A 3CN5_A 1Z98_M 3CLL_A ....
Probab=21.99 E-value=2.6e+02 Score=18.83 Aligned_cols=16 Identities=13% Similarity=0.316 Sum_probs=10.0
Q ss_pred hhhHHHHHHHHHHhhh
Q 035231 4 LVTTLVFLVIGIIASL 19 (70)
Q Consensus 4 ~~~T~~~~~v~~~~~~ 19 (70)
+++|.++...+.....
T Consensus 15 figT~~lvf~~~~~~~ 30 (227)
T PF00230_consen 15 FIGTFLLVFFGCGSVA 30 (227)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3677777766666443
No 29
>PF04505 Dispanin: Interferon-induced transmembrane protein; InterPro: IPR007593 This family includes the human leukocyte antigen CD225, which is an interferon inducible transmembrane protein, and is associated with interferon induced cell growth suppression [].; GO: 0009607 response to biotic stimulus, 0016021 integral to membrane
Probab=21.93 E-value=96 Score=18.49 Aligned_cols=30 Identities=27% Similarity=0.648 Sum_probs=15.5
Q ss_pred CCceehhhHHHHHHHHHHH--HHHHHHHHHhhcc
Q 035231 29 PSTNLLHLTLVITATVSCW--MMWAIVYLAQMKP 60 (70)
Q Consensus 29 ~~~~l~~~~lv~~a~~ccw--L~W~~~YmaQm~P 60 (70)
|++.+... ++.+.+||| =+=++.|=+|-|.
T Consensus 15 p~~yl~~s--I~s~l~Cc~PlGi~Ai~~s~kv~~ 46 (82)
T PF04505_consen 15 PPDYLVLS--IFSTLCCCWPLGIVAIVYSSKVRS 46 (82)
T ss_pred CCCceeHH--HHHHHHHHhhHHHHHheechhhHH
Confidence 55555544 444446677 3344555555544
No 30
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=21.42 E-value=69 Score=17.04 Aligned_cols=18 Identities=17% Similarity=0.492 Sum_probs=9.6
Q ss_pred hhHHHHHHHHHHhhhhhh
Q 035231 5 VTTLVFLVIGIIASLCTR 22 (70)
Q Consensus 5 ~~T~~~~~v~~~~~~~~~ 22 (70)
+..+++++++++++++.+
T Consensus 23 ~il~~~vl~ai~~p~~~p 40 (56)
T PF12911_consen 23 IILLILVLLAIFAPFISP 40 (56)
T ss_pred HHHHHHHHHHHHHHHcCC
Confidence 334445555555655555
Done!