Query psy16324
Match_columns 251
No_of_seqs 60 out of 62
Neff 3.4
Searched_HMMs 46136
Date Fri Aug 16 18:28:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16324.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16324hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03185 CaKB: Calcium-activat 99.9 1E-26 2.3E-31 203.9 0.0 174 36-245 11-195 (201)
2 PF15102 TMEM154: TMEM154 prot 69.9 1.5 3.3E-05 37.9 0.1 35 215-249 55-92 (146)
3 PF12158 DUF3592: Protein of u 68.3 21 0.00045 28.1 6.3 21 186-206 93-113 (148)
4 PF04281 Tom22: Mitochondrial 66.6 12 0.00027 31.9 4.9 16 58-73 96-111 (137)
5 PF09026 CENP-B_dimeris: Centr 60.8 4.8 0.0001 33.1 1.4 12 7-18 10-21 (101)
6 TIGR00986 3a0801s05tom22 mitoc 59.7 27 0.00059 30.4 5.8 17 58-74 94-110 (145)
7 PF02724 CDC45: CDC45-like pro 59.5 10 0.00023 38.8 3.8 39 51-89 238-279 (622)
8 PF08372 PRT_C: Plant phosphor 59.4 13 0.00029 32.3 3.9 16 57-72 103-118 (156)
9 PF09026 CENP-B_dimeris: Centr 57.9 7 0.00015 32.2 1.8 12 48-59 59-70 (101)
10 PF07234 DUF1426: Protein of u 54.9 21 0.00045 29.8 4.1 40 40-79 10-49 (117)
11 PF10642 Tom5: Mitochondrial i 53.2 8.4 0.00018 27.8 1.4 17 57-73 27-43 (49)
12 PF10577 UPF0560: Uncharacteri 51.8 14 0.00031 39.5 3.4 33 216-248 273-306 (807)
13 PF10587 EF-1_beta_acid: Eukar 49.9 2.6 5.6E-05 27.5 -1.5 18 16-33 5-22 (28)
14 PF14812 PBP1_TM: Transmembran 46.3 4.3 9.4E-05 32.1 -1.0 8 61-68 70-77 (81)
15 PF05915 DUF872: Eukaryotic pr 45.2 65 0.0014 26.6 5.6 7 8-14 4-10 (115)
16 PF10329 DUF2417: Region of un 44.7 29 0.00063 32.0 3.9 43 22-66 155-198 (232)
17 PF02038 ATP1G1_PLM_MAT8: ATP1 43.6 15 0.00032 26.9 1.4 37 207-246 8-44 (50)
18 KOG2140|consensus 42.9 7.1 0.00015 40.7 -0.4 20 9-28 414-433 (739)
19 PF06024 DUF912: Nucleopolyhed 42.4 20 0.00044 28.5 2.2 29 42-70 55-83 (101)
20 PF04931 DNA_pol_phi: DNA poly 39.1 21 0.00046 37.2 2.3 12 72-83 737-748 (784)
21 PF05510 Sarcoglycan_2: Sarcog 37.4 33 0.00073 33.9 3.3 27 215-241 283-309 (386)
22 KOG1307|consensus 36.8 14 0.0003 38.0 0.6 27 47-75 424-450 (588)
23 TIGR01195 oadG_fam sodium pump 36.3 83 0.0018 24.4 4.7 41 46-87 3-44 (82)
24 PF00283 Cytochrom_B559: Cytoc 36.0 29 0.00063 22.9 1.8 14 216-229 15-28 (29)
25 COG3736 VirB8 Type IV secretor 35.8 25 0.00054 32.6 2.0 27 44-70 41-67 (239)
26 TIGR00927 2A1904 K+-dependent 33.7 21 0.00045 39.4 1.3 21 46-66 932-952 (1096)
27 PF04246 RseC_MucC: Positive r 33.2 1.7E+02 0.0038 23.6 6.3 49 189-237 42-91 (135)
28 PTZ00415 transmission-blocking 32.0 22 0.00047 41.9 1.1 11 189-199 453-463 (2849)
29 PTZ00415 transmission-blocking 31.0 24 0.00052 41.5 1.2 15 31-45 187-201 (2849)
30 PRK02919 oxaloacetate decarbox 30.9 1.1E+02 0.0023 24.0 4.6 43 46-89 6-48 (82)
31 PF08627 CRT-like: CRT-like; 30.8 1.2E+02 0.0025 26.2 5.0 20 31-50 29-48 (130)
32 PRK13872 conjugal transfer pro 29.8 69 0.0015 28.4 3.7 27 44-70 39-65 (228)
33 PF11368 DUF3169: Protein of u 29.5 56 0.0012 29.2 3.2 23 44-66 97-119 (248)
34 TIGR00964 secE_bact preprotein 28.9 91 0.002 22.1 3.5 34 29-66 11-44 (55)
35 COG4038 Predicted membrane pro 28.5 34 0.00074 27.3 1.4 32 44-79 5-36 (87)
36 KOG1832|consensus 28.5 25 0.00055 39.0 0.9 20 11-30 1407-1426(1516)
37 PF03248 Rer1: Rer1 family; I 28.2 81 0.0018 28.1 3.8 31 33-63 97-128 (176)
38 COG3630 OadG Na+-transporting 27.3 1.3E+02 0.0029 24.1 4.5 40 49-89 9-48 (84)
39 PF12911 OppC_N: N-terminal TM 27.3 1.3E+02 0.0028 20.6 4.0 38 40-80 11-49 (56)
40 PRK13865 type IV secretion sys 27.2 72 0.0015 29.0 3.4 25 46-70 40-64 (229)
41 KOG2262|consensus 26.8 63 0.0014 34.6 3.3 34 145-178 196-230 (761)
42 TIGR02976 phageshock_pspB phag 26.5 64 0.0014 25.0 2.6 17 219-235 4-20 (75)
43 PRK13887 conjugal transfer pro 25.9 86 0.0019 28.4 3.7 25 46-70 55-79 (250)
44 PF14816 FAM178: Family of unk 25.5 40 0.00087 33.2 1.6 24 110-133 135-158 (377)
45 KOG0772|consensus 24.6 37 0.0008 35.4 1.2 8 6-13 123-130 (641)
46 PF11947 DUF3464: Protein of u 24.0 1.5E+02 0.0032 25.9 4.6 38 30-68 49-87 (153)
47 PF11712 Vma12: Endoplasmic re 23.9 1.7E+02 0.0037 24.2 4.8 31 49-79 79-114 (142)
48 PF14143 YrhC: YrhC-like prote 23.3 1.7E+02 0.0037 22.7 4.3 42 40-81 2-44 (72)
49 PRK02561 psbF cytochrome b559 23.3 20 0.00043 25.6 -0.7 19 216-234 20-38 (44)
50 TIGR00939 2a57 Equilibrative N 22.9 1.3E+02 0.0028 29.4 4.5 15 35-49 261-275 (437)
51 PF02532 PsbI: Photosystem II 22.8 1.2E+02 0.0026 20.9 3.0 16 57-75 14-29 (36)
52 PHA02831 EEV host range protei 22.8 54 0.0012 30.7 1.9 44 206-250 222-265 (268)
53 TIGR02120 GspF general secreti 22.7 2E+02 0.0042 27.1 5.5 23 216-238 363-385 (399)
54 PRK07597 secE preprotein trans 22.7 1.4E+02 0.003 21.7 3.6 34 29-66 20-53 (64)
55 COG3872 Predicted metal-depend 22.5 74 0.0016 30.7 2.7 27 49-77 105-131 (318)
56 PHA02954 EEV membrane glycopro 22.5 14 0.0003 35.3 -2.1 27 210-236 274-300 (317)
57 PF11271 DUF3068: Protein of u 22.4 75 0.0016 29.4 2.7 36 50-86 4-39 (301)
58 PF10446 DUF2457: Protein of u 21.6 49 0.0011 33.5 1.4 17 92-108 141-157 (458)
59 PRK13553 fumarate reductase cy 21.5 1.4E+02 0.0031 28.1 4.3 30 38-67 203-232 (258)
60 PF02487 CLN3: CLN3 protein; 21.5 2.1E+02 0.0045 28.3 5.6 40 35-78 229-268 (402)
61 TIGR01333 cyt_b559_beta cytoch 21.5 19 0.00041 25.6 -1.1 19 216-234 19-37 (43)
62 PLN02601 beta-carotene hydroxy 21.1 69 0.0015 30.9 2.2 23 42-64 91-113 (303)
63 CHL00039 psbF photosystem II p 20.8 21 0.00045 24.9 -1.0 18 217-234 16-33 (39)
64 COG5533 UBP5 Ubiquitin C-termi 20.4 42 0.00091 33.2 0.6 13 237-249 284-296 (415)
65 PF02439 Adeno_E3_CR2: Adenovi 20.3 55 0.0012 22.8 1.0 24 224-247 10-33 (38)
66 KOG1792|consensus 20.3 1.1E+02 0.0023 28.2 3.2 31 48-78 164-195 (230)
No 1
>PF03185 CaKB: Calcium-activated potassium channel, beta subunit; InterPro: IPR003930 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Ca2+-activated K+ channels are a diverse group of channels that are activated by an increase in intracellular Ca2+ concentration. They are found in the majority of nerve cells, where they modulate cell excitability and action potential. Three types of Ca2+-activated K+ channel have been characterised, termed small-conductance (SK), intermediate conductance (IK) and large conductance (BK) respectively []. BK channels (also referred to as maxi-K channels) are widely expressed in the body, being found in glandular tissue, smooth and skeletal muscle, as well as in neural tissues. They have been demonstrated to regulate arteriolar and airway diameter, and also neurotransmitter release. Each channel complex is thought to be composed of 2 types of subunit: the pore- forming (alpha) subunits and smaller accessory (beta) subunits. The beta subunit (which is thought to possess 2 TM domains) increases the Ca2+ sensitivity of the BK channel []. It does this by enhancing the time spent by the channel in burst-like open states. However, it has little effect on the durations of closed intervals between bursts, or on the numbers of open and closed states entered during gating []. ; GO: 0015269 calcium-activated potassium channel activity, 0006813 potassium ion transport, 0016020 membrane; PDB: 1JO6_A.
Probab=99.92 E-value=1e-26 Score=203.88 Aligned_cols=174 Identities=21% Similarity=0.440 Sum_probs=0.4
Q ss_pred chhhHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhhhchhHHHHhhcCCCcceeeeeeeeeecCCCcCCccccccccccc
Q psy16324 36 PEEQTTLQKAKFYVSLCSGVTACLSAFAFLFLIPFIIEPAIKTIMADYEAEPVTCNISRHDINLGISNCNWASCREGCTA 115 (251)
Q Consensus 36 p~~~t~~ek~~FYttl~l~~tavlSlfafLFLvPfvvdPAisti~~~f~~~Pv~C~tt~~~~~~G~~NCtWsSCREGCTs 115 (251)
-|+|.++ +++.+++.|++++|.+++. |+-|++...+ .++++||+....+.....+|+. ||+-.|.+
T Consensus 11 gedrai~------lg~~m~~~svlm~~vlGit---iv~P~l~s~~----~~et~Ctvl~s~i~~~~v~Cs~-~cg~~c~~ 76 (201)
T PF03185_consen 11 GEDRAIL------LGFAMMICSVLMLFVLGIT---IVKPYLKSLW----FEETNCTVLSSHIVGEWVDCSF-SCGSDCRG 76 (201)
T ss_dssp S-------------------------------------------------------------------------------
T ss_pred cchHHHH------HHHHHHHHHHHHHHHHHHh---ccchhhhhcc----cccceEEEEEEEeecccccccc-cCCCCCCC
Confidence 3467888 8888899999999999997 9999999866 5899999999999988899999 99999998
Q ss_pred Cc-ccceEEEEEeeccchhcccccCCCCCCCCcccccEEeeccCCCCCCCCCc---hh------HHHHHhCCCCCCCCCC
Q psy16324 116 QM-IKCHQISVHYSRMFFKDYNKSHSPGPIPWDHEDIRFLINTEGCGYPPGTN---CT------NFVKQYGLPESPSQKS 185 (251)
Q Consensus 116 ~~-y~C~QI~Vnys~~~~~~~~~~~~~~~~~w~~~esrLliN~kGCgypP~~n---Ck------~F~~~YG~dg~~~~~~ 185 (251)
.+ |+|.||+|||+.+.-.. ..+.+|..+..|.| |.|+|++. -+ +|.+.||..
T Consensus 77 ~s~yPCLqV~Vn~t~sg~~a----------~L~~~E~~l~~n~k-CsY~P~C~~d~~~~~~~V~~~~~~~~~~------- 138 (201)
T PF03185_consen 77 VSKYPCLQVFVNYTHSGQTA----------LLHHDEETLDSNPK-CSYIPKCHRDRQDNRAEVEDFQENFGQQ------- 138 (201)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cCCCCceEEEEEecCCCceE----------EEEEchHhhccCCc-ceecCcccccHHHHHHHHHHHHHHhhhc-------
Confidence 88 99999999998755433 77889999999999 99999641 11 366666633
Q ss_pred CCCCcceeeeeCCC-CCceeEEecchhhhHHHHHHHhhhhHHHHHHHHHhhhhhccCCcCC
Q psy16324 186 SPPKPFPCYYSKVF-PTLHVVAKYNWDDNLRYLILALVVPIVLFFGSLTILGYWYCPRKSK 245 (251)
Q Consensus 186 ~aga~FPCYYSr~~-p~~~Vvar~d~d~t~~~Li~a~~VP~vlFvvS~i~L~~~~C~~~~k 245 (251)
+|++|||||++.+ |+. ||.+...+.. .++|+|+||.++|+++++++.+..|.+.+-
T Consensus 139 -~gq~f~Cfy~P~~~~~~-Vil~r~y~~~--~~fhslfWP~l~lvgG~liv~mvk~~q~ls 195 (201)
T PF03185_consen 139 -NGQTFPCFYDPDNQPED-VILRRKYDPS--VLFHSLFWPSLMLVGGVLIVAMVKLTQYLS 195 (201)
T ss_dssp -------------------------------------------------------------
T ss_pred -cCcceeeeecCCCCcce-EEEEEecCHh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999995 688 9989888888 699999999999999999999999987543
No 2
>PF15102 TMEM154: TMEM154 protein family
Probab=69.88 E-value=1.5 Score=37.92 Aligned_cols=35 Identities=29% Similarity=0.568 Sum_probs=23.8
Q ss_pred HHHHHHhhhhHHHH---HHHHHhhhhhccCCcCCCCCC
Q psy16324 215 RYLILALVVPIVLF---FGSLTILGYWYCPRKSKVQPA 249 (251)
Q Consensus 215 ~~Li~a~~VP~vlF---vvS~i~L~~~~C~~~~k~~~~ 249 (251)
.+||+..+||.||+ ++++++|++.|+.+-.|.+|+
T Consensus 55 ~efiLmIlIP~VLLvlLLl~vV~lv~~~kRkr~K~~~s 92 (146)
T PF15102_consen 55 LEFILMILIPLVLLVLLLLSVVCLVIYYKRKRTKQEPS 92 (146)
T ss_pred cceEEEEeHHHHHHHHHHHHHHHheeEEeecccCCCCc
Confidence 35688889996655 556777777776666666553
No 3
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=68.33 E-value=21 Score=28.10 Aligned_cols=21 Identities=14% Similarity=0.181 Sum_probs=17.7
Q ss_pred CCCCcceeeeeCCCCCceeEE
Q psy16324 186 SPPKPFPCYYSKVFPTLHVVA 206 (251)
Q Consensus 186 ~aga~FPCYYSr~~p~~~Vva 206 (251)
..|+.-+-||++++|+.+++.
T Consensus 93 ~~G~~V~V~Y~P~~P~~~~l~ 113 (148)
T PF12158_consen 93 PIGDTVTVYYNPNNPEEARLE 113 (148)
T ss_pred CCcCEEEEEECCcCCCeEEEe
Confidence 357899999999999996665
No 4
>PF04281 Tom22: Mitochondrial import receptor subunit Tom22 ; InterPro: IPR005683 The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins []. The N-terminal region of Tom22 has been shown to have chaperone-like activity, and the C-terminal region faces the intermembrane face []. ; GO: 0006886 intracellular protein transport, 0005741 mitochondrial outer membrane
Probab=66.65 E-value=12 Score=31.89 Aligned_cols=16 Identities=25% Similarity=0.507 Sum_probs=10.8
Q ss_pred HHHHHHHHhhhhhhhc
Q psy16324 58 CLSAFAFLFLIPFIIE 73 (251)
Q Consensus 58 vlSlfafLFLvPfvvd 73 (251)
|++-.++|..+|+++.
T Consensus 96 i~tTSallLgvPl~l~ 111 (137)
T PF04281_consen 96 IVTTSALLLGVPLALE 111 (137)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4455567777888874
No 5
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=60.84 E-value=4.8 Score=33.11 Aligned_cols=12 Identities=50% Similarity=0.615 Sum_probs=0.0
Q ss_pred hhccCCCCCCCc
Q psy16324 7 KLQNSDKDEDSE 18 (251)
Q Consensus 7 ~~~~~~~~~~~~ 18 (251)
+-+++|+|||.+
T Consensus 10 ~dse~dsdEdee 21 (101)
T PF09026_consen 10 EDSESDSDEDEE 21 (101)
T ss_dssp ------------
T ss_pred cccccccccchh
Confidence 345566655443
No 6
>TIGR00986 3a0801s05tom22 mitochondrial import receptor subunit Tom22. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tom22 proteins.
Probab=59.74 E-value=27 Score=30.39 Aligned_cols=17 Identities=35% Similarity=0.503 Sum_probs=12.1
Q ss_pred HHHHHHHHhhhhhhhch
Q psy16324 58 CLSAFAFLFLIPFIIEP 74 (251)
Q Consensus 58 vlSlfafLFLvPfvvdP 74 (251)
|+|-.+||.-||+++.=
T Consensus 94 ivsTSaLLLgVPlala~ 110 (145)
T TIGR00986 94 AVSTSALLLGVPFAISF 110 (145)
T ss_pred hhHHHHHHHHHHHHHHH
Confidence 45666777888988753
No 7
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=59.46 E-value=10 Score=38.84 Aligned_cols=39 Identities=5% Similarity=0.025 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHhhhhhhh---chhHHHHhhcCCCccee
Q psy16324 51 LCSGVTACLSAFAFLFLIPFII---EPAIKTIMADYEAEPVT 89 (251)
Q Consensus 51 l~l~~tavlSlfafLFLvPfvv---dPAisti~~~f~~~Pv~ 89 (251)
||++++|+.+.++.--.-+-.+ -|.++.-.+.+.|.+..
T Consensus 238 LW~AIvGlT~q~i~~~i~~~~Y~~~~~~L~~eV~rl~~~~~~ 279 (622)
T PF02724_consen 238 LWLAIVGLTDQYIHERISSERYDRYVPLLQDEVSRLNPSNDS 279 (622)
T ss_pred HHHHHHhhhHHhhhcccchhhHHHHHHHHHHHHHhcCCcccc
Confidence 5677777777777443333222 36667777777666644
No 8
>PF08372 PRT_C: Plant phosphoribosyltransferase C-terminal; InterPro: IPR013583 This domain is found at the C terminus of phosphoribosyltransferases and phosphoribosyltransferase-like proteins. It contains putative transmembrane regions. It often appears together with calcium-ion dependent C2 domains (IPR000008 from INTERPRO).
Probab=59.45 E-value=13 Score=32.29 Aligned_cols=16 Identities=38% Similarity=0.874 Sum_probs=9.4
Q ss_pred HHHHHHHHHhhhhhhh
Q psy16324 57 ACLSAFAFLFLIPFII 72 (251)
Q Consensus 57 avlSlfafLFLvPfvv 72 (251)
+.+...+.+++||+-+
T Consensus 103 ~clv~avvly~vP~r~ 118 (156)
T PF08372_consen 103 FCLVAAVVLYFVPFRV 118 (156)
T ss_pred HHHHHHHHHHHhhHHH
Confidence 4455555677777743
No 9
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=57.92 E-value=7 Score=32.19 Aligned_cols=12 Identities=8% Similarity=-0.020 Sum_probs=4.1
Q ss_pred hHHHHHHHHHHH
Q psy16324 48 YVSLCSGVTACL 59 (251)
Q Consensus 48 Yttl~l~~tavl 59 (251)
|+|++.+.-.+.
T Consensus 59 YltSf~id~~v~ 70 (101)
T PF09026_consen 59 YLTSFPIDDKVQ 70 (101)
T ss_dssp HHCTS---HHHH
T ss_pred hhhccchhHhhh
Confidence 455554444433
No 10
>PF07234 DUF1426: Protein of unknown function (DUF1426); InterPro: IPR009871 This family consists of several Banana bunchy top virus proteins of around 120 residues in length. Q9IGU4 from SWISSPROT is annotated a movement protein whereas most other family members are hypothetical. The function of this family is unknown.
Probab=54.91 E-value=21 Score=29.84 Aligned_cols=40 Identities=18% Similarity=0.291 Sum_probs=33.9
Q ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhhhchhHHHH
Q psy16324 40 TTLQKAKFYVSLCSGVTACLSAFAFLFLIPFIIEPAIKTI 79 (251)
Q Consensus 40 t~~ek~~FYttl~l~~tavlSlfafLFLvPfvvdPAisti 79 (251)
-+.|-++|+..+|.+++-+--+.++||=||-+|---++-+
T Consensus 10 lfFEwFLF~~AIFiAItIlYILLalL~EvPkYIK~~VrYl 49 (117)
T PF07234_consen 10 LFFEWFLFFGAIFIAITILYILLALLFEVPKYIKELVRYL 49 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 4678889999999999999999999999999887665543
No 11
>PF10642 Tom5: Mitochondrial import receptor subunit or translocase; InterPro: IPR019603 This entry represents a short family of yeast proteins. Tom5 is one of three very small translocases of the mitochondrial outer membrane. Tom5 links mitochondrial preprotein receptors to the general import pore []. Although Tom5 has allegedly been identified in vertebrates this could not be confirmed.
Probab=53.24 E-value=8.4 Score=27.83 Aligned_cols=17 Identities=41% Similarity=0.714 Sum_probs=12.8
Q ss_pred HHHHHHHHHhhhhhhhc
Q psy16324 57 ACLSAFAFLFLIPFIIE 73 (251)
Q Consensus 57 avlSlfafLFLvPfvvd 73 (251)
......++|+|.||++|
T Consensus 27 ~a~~~a~~LylsP~~~~ 43 (49)
T PF10642_consen 27 NAAAAAALLYLSPFAID 43 (49)
T ss_pred HHHHHHHHHHHhHHHHH
Confidence 44556678899999886
No 12
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=51.85 E-value=14 Score=39.55 Aligned_cols=33 Identities=24% Similarity=0.275 Sum_probs=27.4
Q ss_pred HHHHHhhhhHHHHHHHHHhhhhhccCC-cCCCCC
Q psy16324 216 YLILALVVPIVLFFGSLTILGYWYCPR-KSKVQP 248 (251)
Q Consensus 216 ~Li~a~~VP~vlFvvS~i~L~~~~C~~-~~k~~~ 248 (251)
.|+.+++==+++.++.++.|+++||.+ |.|.|.
T Consensus 273 ~fLl~ILG~~~livl~lL~vLl~yCrrkc~~~r~ 306 (807)
T PF10577_consen 273 VFLLAILGGTALIVLILLCVLLCYCRRKCLKPRQ 306 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcccCCccc
Confidence 477777777888889999999999995 999874
No 13
>PF10587 EF-1_beta_acid: Eukaryotic elongation factor 1 beta central acidic region; InterPro: IPR018940 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This region is found in the centre of the beta subunits of Elongation factor-1. More information about these proteins can be found at Protein of the Month: Elongation Factors [].
Probab=49.89 E-value=2.6 Score=27.53 Aligned_cols=18 Identities=56% Similarity=0.815 Sum_probs=11.4
Q ss_pred CCcccccccCCccccccc
Q psy16324 16 DSEEDDEEGEGEKEEKLE 33 (251)
Q Consensus 16 ~~~~~~~~~~~~~e~~l~ 33 (251)
|+||+|+|-+..+||+|.
T Consensus 5 ddEeed~ea~r~reeRla 22 (28)
T PF10587_consen 5 DDEEEDEEAERIREERLA 22 (28)
T ss_pred ccccccHHHHHHHHHHHH
Confidence 455667777666666653
No 14
>PF14812 PBP1_TM: Transmembrane domain of transglycosylase PBP1 at N-terminal; PDB: 3FWL_A 3VMA_A.
Probab=46.32 E-value=4.3 Score=32.08 Aligned_cols=8 Identities=38% Similarity=0.617 Sum_probs=3.2
Q ss_pred HHHHHhhh
Q psy16324 61 AFAFLFLI 68 (251)
Q Consensus 61 lfafLFLv 68 (251)
+++-||||
T Consensus 70 Llikl~lV 77 (81)
T PF14812_consen 70 LLIKLFLV 77 (81)
T ss_dssp -TTTTHCC
T ss_pred HHHHHHHH
Confidence 33445554
No 15
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=45.16 E-value=65 Score=26.57 Aligned_cols=7 Identities=57% Similarity=0.895 Sum_probs=3.3
Q ss_pred hccCCCC
Q psy16324 8 LQNSDKD 14 (251)
Q Consensus 8 ~~~~~~~ 14 (251)
|++.|.|
T Consensus 4 l~~~d~d 10 (115)
T PF05915_consen 4 LSNEDED 10 (115)
T ss_pred CCCCCcc
Confidence 4454444
No 16
>PF10329 DUF2417: Region of unknown function (DUF2417); InterPro: IPR019431 This entry represents a family of fungal proteins with no known function. In some cases these proteins also contain an alpha/beta hydrolase fold (IPR000073 from INTERPRO).
Probab=44.72 E-value=29 Score=31.98 Aligned_cols=43 Identities=28% Similarity=0.320 Sum_probs=26.9
Q ss_pred cccCCccccccccCch-hhHHHHHhhhhHHHHHHHHHHHHHHHHHh
Q psy16324 22 EEGEGEKEEKLEVEPE-EQTTLQKAKFYVSLCSGVTACLSAFAFLF 66 (251)
Q Consensus 22 ~~~~~~~e~~l~~~p~-~~t~~ek~~FYttl~l~~tavlSlfafLF 66 (251)
+.|..|.||++-+++| ++|++|- ++.++-.++..++.+++.++
T Consensus 155 ~~gk~eeeerltgr~etr~Tl~Ew--~~i~~~~i~~~~l~v~~~l~ 198 (232)
T PF10329_consen 155 EWGKAEEEERLTGRAETRRTLREW--FAILLRTIIKLVLLVVVILI 198 (232)
T ss_pred HhccchhhcccCCcccccccHHHH--HHHHHHHHHHHHHHHHHHHH
Confidence 5677888899988887 6777764 34444344444445555444
No 17
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=43.58 E-value=15 Score=26.86 Aligned_cols=37 Identities=24% Similarity=0.256 Sum_probs=26.7
Q ss_pred ecchhhhHHHHHHHhhhhHHHHHHHHHhhhhhccCCcCCC
Q psy16324 207 KYNWDDNLRYLILALVVPIVLFFGSLTILGYWYCPRKSKV 246 (251)
Q Consensus 207 r~d~d~t~~~Li~a~~VP~vlFvvS~i~L~~~~C~~~~k~ 246 (251)
.|||+.- =+-.+++-.|+|+++.+++.--.|.|+.+.
T Consensus 8 ~YDy~tL---rigGLi~A~vlfi~Gi~iils~kckCk~~q 44 (50)
T PF02038_consen 8 YYDYETL---RIGGLIFAGVLFILGILIILSGKCKCKFNQ 44 (50)
T ss_dssp GGCHHHH---HHHHHHHHHHHHHHHHHHHCTTHHHHHHST
T ss_pred ccchhHh---hccchHHHHHHHHHHHHHHHcCccccCCCC
Confidence 3775543 255677778999999999998888764433
No 18
>KOG2140|consensus
Probab=42.90 E-value=7.1 Score=40.70 Aligned_cols=20 Identities=45% Similarity=0.745 Sum_probs=15.3
Q ss_pred ccCCCCCCCcccccccCCcc
Q psy16324 9 QNSDKDEDSEEDDEEGEGEK 28 (251)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~ 28 (251)
.|+|.+++|+|||+|+|++.
T Consensus 414 en~d~~~~s~E~~~eee~e~ 433 (739)
T KOG2140|consen 414 ENEDDEDGSSEDDDEEEDES 433 (739)
T ss_pred cccccccccccccccccccc
Confidence 57777888888888877765
No 19
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=42.43 E-value=20 Score=28.50 Aligned_cols=29 Identities=10% Similarity=0.123 Sum_probs=22.0
Q ss_pred HHHhhhhHHHHHHHHHHHHHHHHHhhhhh
Q psy16324 42 LQKAKFYVSLCSGVTACLSAFAFLFLIPF 70 (251)
Q Consensus 42 ~ek~~FYttl~l~~tavlSlfafLFLvPf 70 (251)
..+...+..+++++++++.+++++++|-.
T Consensus 55 ~~~~~~~~iili~lls~v~IlVily~IyY 83 (101)
T PF06024_consen 55 ASKQNNGNIILISLLSFVCILVILYAIYY 83 (101)
T ss_pred ccccccccchHHHHHHHHHHHHHHhhheE
Confidence 34556777888899999999998887543
No 20
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=39.12 E-value=21 Score=37.21 Aligned_cols=12 Identities=8% Similarity=0.387 Sum_probs=6.6
Q ss_pred hchhHHHHhhcC
Q psy16324 72 IEPAIKTIMADY 83 (251)
Q Consensus 72 vdPAisti~~~f 83 (251)
+|.++..||..-
T Consensus 737 lD~~La~~Fk~r 748 (784)
T PF04931_consen 737 LDEQLAAIFKER 748 (784)
T ss_pred HHHHHHHHHHHH
Confidence 366666655543
No 21
>PF05510 Sarcoglycan_2: Sarcoglycan alpha/epsilon; InterPro: IPR008908 Sarcoglycans are a subcomplex of transmembrane proteins which are part of the dystrophin-glycoprotein complex. They are expressed in the skeletal, cardiac and smooth muscle. Although numerous studies have been conducted on the sarcoglycan subcomplex in skeletal and cardiac muscle, the manner of the distribution and localisation of these proteins along the nonjunctional sarcolemma is not clear []. This family contains alpha and epsilon members.; GO: 0016012 sarcoglycan complex
Probab=37.41 E-value=33 Score=33.87 Aligned_cols=27 Identities=22% Similarity=0.547 Sum_probs=23.7
Q ss_pred HHHHHHhhhhHHHHHHHHHhhhhhccC
Q psy16324 215 RYLILALVVPIVLFFGSLTILGYWYCP 241 (251)
Q Consensus 215 ~~Li~a~~VP~vlFvvS~i~L~~~~C~ 241 (251)
.++++.++||.+++++-+++|.+.-|=
T Consensus 283 ~d~~vtl~iPl~i~llL~llLs~Imc~ 309 (386)
T PF05510_consen 283 PDFLVTLAIPLIIALLLLLLLSYIMCC 309 (386)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhee
Confidence 357899999999999999999988875
No 22
>KOG1307|consensus
Probab=36.82 E-value=14 Score=38.01 Aligned_cols=27 Identities=22% Similarity=0.312 Sum_probs=15.4
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhhhhchh
Q psy16324 47 FYVSLCSGVTACLSAFAFLFLIPFIIEPA 75 (251)
Q Consensus 47 FYttl~l~~tavlSlfafLFLvPfvvdPA 75 (251)
||---|++ +|+=..+|-||..-|..=.
T Consensus 424 fF~vTFig--SIlWIA~fSYLMVWwa~~i 450 (588)
T KOG1307|consen 424 FFPVTFIG--SILWIAAFSYLMVWWANII 450 (588)
T ss_pred eeehHHHH--HHHHHHHHHHHHHHHHHHc
Confidence 33333444 5666667777777775433
No 23
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=36.31 E-value=83 Score=24.37 Aligned_cols=41 Identities=17% Similarity=0.224 Sum_probs=30.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhhhhhchhHHHHhhcC-CCcc
Q psy16324 46 KFYVSLCSGVTACLSAFAFLFLIPFIIEPAIKTIMADY-EAEP 87 (251)
Q Consensus 46 ~FYttl~l~~tavlSlfafLFLvPfvvdPAisti~~~f-~~~P 87 (251)
+|..++-+.++|+.-+|+||-+.-+++.. ++.+...| .|+|
T Consensus 3 ll~~~~~l~v~GM~~VF~fL~lLi~~i~~-~~~~~~~~~~~e~ 44 (82)
T TIGR01195 3 LLLEGATLTVLGMGIVFLFLSLLIYAVRG-MGKVVGRKKVPEP 44 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhccCCCCc
Confidence 56677888888999889888887777775 56677777 4444
No 24
>PF00283 Cytochrom_B559: Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits; InterPro: IPR013081 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 []. Cytochrome b559, which forms part of the reaction centre core of PSII is a heterodimer composed of one alpha subunit (PsbE), one beta (PsbF) subunit, and a haem cofactor. Two histidine residues from each subunit coordinate the haem. Although cytochrome b559 is a redox-active protein, it is unlikely to be involved in the primary electron transport in PSII due to its very slow photo-oxidation and photo-reduction kinetics. Instead, cytochrome b559 could participate in a secondary electron transport pathway that helps protect PSII from photo-damage. Cytochrome b559 is essential for PSII assembly []. This domain occurs in both the alpha and beta subunits of cytochrome B559. In the alpha sbunit it occurs together with a lumenal domain (IPR013082 from INTERPRO), while in the beta subunit it occurs on its own.; GO: 0046872 metal ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009536 plastid, 0009579 thylakoid, 0016021 integral to membrane; PDB: 3ARC_f 3A0H_f 3A0B_f 1W5C_K 1S5L_e 3BZ2_E 3PRQ_E 1IZL_P 2AXT_E 4FBY_R ....
Probab=35.96 E-value=29 Score=22.87 Aligned_cols=14 Identities=43% Similarity=0.854 Sum_probs=11.9
Q ss_pred HHHHHhhhhHHHHH
Q psy16324 216 YLILALVVPIVLFF 229 (251)
Q Consensus 216 ~Li~a~~VP~vlFv 229 (251)
-.||+++||.+.|+
T Consensus 15 ~~IH~l~iPtvf~~ 28 (29)
T PF00283_consen 15 WAIHALTIPTVFFL 28 (29)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred eeeeecccceEEec
Confidence 46899999999885
No 25
>COG3736 VirB8 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]
Probab=35.81 E-value=25 Score=32.63 Aligned_cols=27 Identities=19% Similarity=0.351 Sum_probs=23.1
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHhhhhh
Q psy16324 44 KAKFYVSLCSGVTACLSAFAFLFLIPF 70 (251)
Q Consensus 44 k~~FYttl~l~~tavlSlfafLFLvPf 70 (251)
|..|.+..++.++++++++++.+|+|+
T Consensus 41 ~~~~~va~~~~~l~v~~~~~Ia~llPL 67 (239)
T COG3736 41 RLAWRVAILFTLLAVAAVIAIAILLPL 67 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 677777777799999999999999886
No 26
>TIGR00927 2A1904 K+-dependent Na+/Ca+ exchanger.
Probab=33.73 E-value=21 Score=39.44 Aligned_cols=21 Identities=29% Similarity=0.603 Sum_probs=12.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHh
Q psy16324 46 KFYVSLCSGVTACLSAFAFLF 66 (251)
Q Consensus 46 ~FYttl~l~~tavlSlfafLF 66 (251)
+||.-.|++-+..+++++++-
T Consensus 932 k~y~ltFi~SIiwIsi~Syil 952 (1096)
T TIGR00927 932 KFFVITFLGSIMWIAMFSYLM 952 (1096)
T ss_pred ceeeehHHHHHHHHHHHHHHH
Confidence 356555666556666666653
No 27
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=33.17 E-value=1.7e+02 Score=23.62 Aligned_cols=49 Identities=12% Similarity=0.089 Sum_probs=36.5
Q ss_pred CcceeeeeCC-CCCceeEEecchhhhHHHHHHHhhhhHHHHHHHHHhhhh
Q psy16324 189 KPFPCYYSKV-FPTLHVVAKYNWDDNLRYLILALVVPIVLFFGSLTILGY 237 (251)
Q Consensus 189 a~FPCYYSr~-~p~~~Vvar~d~d~t~~~Li~a~~VP~vlFvvS~i~L~~ 237 (251)
..+...-... .+.+.|....+-...++.-++..++|+++|+++.++.-+
T Consensus 42 ~~~~~~~~~~~~~GD~V~v~i~~~~~~~aa~l~Y~lPll~li~g~~l~~~ 91 (135)
T PF04246_consen 42 ITFRAPNPIGAKVGDRVEVEIPESSLLKAAFLVYLLPLLALIAGAVLGSY 91 (135)
T ss_pred EEEEecCCCCCCCCCEEEEEeccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555544433 566668888888888888899999999999998876543
No 28
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=32.04 E-value=22 Score=41.86 Aligned_cols=11 Identities=18% Similarity=0.419 Sum_probs=8.0
Q ss_pred CcceeeeeCCC
Q psy16324 189 KPFPCYYSKVF 199 (251)
Q Consensus 189 a~FPCYYSr~~ 199 (251)
-.||||+.-+-
T Consensus 453 ~~~pc~fqlna 463 (2849)
T PTZ00415 453 IKHPCVFKLNA 463 (2849)
T ss_pred CCCceEEEecc
Confidence 35999987653
No 29
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=30.99 E-value=24 Score=41.54 Aligned_cols=15 Identities=33% Similarity=0.233 Sum_probs=7.1
Q ss_pred ccccCchhhHHHHHh
Q psy16324 31 KLEVEPEEQTTLQKA 45 (251)
Q Consensus 31 ~l~~~p~~~t~~ek~ 45 (251)
+++.|+-+.-.-||.
T Consensus 187 ~~~~~~ge~~~~~~~ 201 (2849)
T PTZ00415 187 DEEDEGGEDFTYEKS 201 (2849)
T ss_pred hccCCCCcccccccc
Confidence 455555544334443
No 30
>PRK02919 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=30.94 E-value=1.1e+02 Score=24.03 Aligned_cols=43 Identities=23% Similarity=0.342 Sum_probs=28.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhhhhhchhHHHHhhcCCCccee
Q psy16324 46 KFYVSLCSGVTACLSAFAFLFLIPFIIEPAIKTIMADYEAEPVT 89 (251)
Q Consensus 46 ~FYttl~l~~tavlSlfafLFLvPfvvdPAisti~~~f~~~Pv~ 89 (251)
++.-++-|-++|..-+|+||.+.-+.+. -++.+...|.|+|+.
T Consensus 6 ll~~gl~lMvlGMg~VfvFL~lLI~~i~-~ms~l~~~~~pe~~~ 48 (82)
T PRK02919 6 LLGEGFTLMFLGMGFVLAFLFLLIFAIR-GMSALINRFFPEPVA 48 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhCCCccC
Confidence 4456666667777777777766554443 567777778787643
No 31
>PF08627 CRT-like: CRT-like; InterPro: IPR013936 This region is found in proteins related to Plasmodium falciparum chloroquine resistance transporter (CRT).
Probab=30.81 E-value=1.2e+02 Score=26.22 Aligned_cols=20 Identities=15% Similarity=0.209 Sum_probs=12.1
Q ss_pred ccccCchhhHHHHHhhhhHH
Q psy16324 31 KLEVEPEEQTTLQKAKFYVS 50 (251)
Q Consensus 31 ~l~~~p~~~t~~ek~~FYtt 50 (251)
+...+.+++.+.||.+=|..
T Consensus 29 ~~~~~i~~~~~~~k~k~~~k 48 (130)
T PF08627_consen 29 QNESNIKQKSISEKIKDFLK 48 (130)
T ss_pred cccccchHHHHHHHHHHHHH
Confidence 33445556667777766654
No 32
>PRK13872 conjugal transfer protein TrbF; Provisional
Probab=29.80 E-value=69 Score=28.43 Aligned_cols=27 Identities=4% Similarity=-0.160 Sum_probs=17.9
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHhhhhh
Q psy16324 44 KAKFYVSLCSGVTACLSAFAFLFLIPF 70 (251)
Q Consensus 44 k~~FYttl~l~~tavlSlfafLFLvPf 70 (251)
|++...++..+++++++++++.++.|+
T Consensus 39 ~~w~~va~~~l~i~~~~v~av~~l~pl 65 (228)
T PRK13872 39 RNWRLMAFGCLALSAGLAGGLVWQSAR 65 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 345545555566677788888888763
No 33
>PF11368 DUF3169: Protein of unknown function (DUF3169); InterPro: IPR021509 Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently there is no known function.
Probab=29.50 E-value=56 Score=29.21 Aligned_cols=23 Identities=9% Similarity=0.274 Sum_probs=13.7
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHh
Q psy16324 44 KAKFYVSLCSGVTACLSAFAFLF 66 (251)
Q Consensus 44 k~~FYttl~l~~tavlSlfafLF 66 (251)
|..-|.+++..+..+++++++++
T Consensus 97 r~~~~~~i~~~i~~i~~~~~l~~ 119 (248)
T PF11368_consen 97 RKLEYATIFFNISIIISFLSLFI 119 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666666666666666555
No 34
>TIGR00964 secE_bact preprotein translocase, SecE subunit, bacterial. This model represents exclusively the bacterial (and some organellar) SecE protein. SecE is part of the core heterotrimer, SecYEG, of the Sec preprotein translocase system. Other components are the ATPase SecA, a cytosolic chaperone SecB, and an accessory complex of SecDF and YajC.
Probab=28.86 E-value=91 Score=22.10 Aligned_cols=34 Identities=24% Similarity=0.171 Sum_probs=20.0
Q ss_pred ccccccCchhhHHHHHhhhhHHHHHHHHHHHHHHHHHh
Q psy16324 29 EEKLEVEPEEQTTLQKAKFYVSLCSGVTACLSAFAFLF 66 (251)
Q Consensus 29 e~~l~~~p~~~t~~ek~~FYttl~l~~tavlSlfafLF 66 (251)
|-+...=|.+ +....++.+-+++++++|++.+++
T Consensus 11 ElkkV~WPt~----~e~~~~t~~Vi~~~~~~~~~~~~~ 44 (55)
T TIGR00964 11 ELKKVVWPSR----KELITYTIVVIVFVIFFSLFLFGV 44 (55)
T ss_pred HHhcCcCcCH----HHHHhHHHHHHHHHHHHHHHHHHH
Confidence 3444444543 344456777777777777766543
No 35
>COG4038 Predicted membrane protein [Function unknown]
Probab=28.54 E-value=34 Score=27.32 Aligned_cols=32 Identities=22% Similarity=0.282 Sum_probs=23.4
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHhhhhhhhchhHHHH
Q psy16324 44 KAKFYVSLCSGVTACLSAFAFLFLIPFIIEPAIKTI 79 (251)
Q Consensus 44 k~~FYttl~l~~tavlSlfafLFLvPfvvdPAisti 79 (251)
.++||+++++++.|.++-.+ -|.+-||-.+.+
T Consensus 5 ~~~~y~ga~~ii~gs~~~~~----gp~~~dpiv~~L 36 (87)
T COG4038 5 EAILYTGAFMIILGTLGAAI----GPARSDPVVKSL 36 (87)
T ss_pred hhhhhhccHHHHHhHHHhhc----CCcccCcHHHHh
Confidence 47999999999998887543 356666665543
No 36
>KOG1832|consensus
Probab=28.53 E-value=25 Score=39.02 Aligned_cols=20 Identities=40% Similarity=0.817 Sum_probs=8.2
Q ss_pred CCCCCCCcccccccCCcccc
Q psy16324 11 SDKDEDSEEDDEEGEGEKEE 30 (251)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~e~ 30 (251)
+|.+||+|++|++++++.|+
T Consensus 1407 ~DeeeD~e~Ed~dEddd~ed 1426 (1516)
T KOG1832|consen 1407 SDEEEDDETEDEDEDDDEED 1426 (1516)
T ss_pred cCccccchhhcccccccccc
Confidence 34444444444333333333
No 37
>PF03248 Rer1: Rer1 family; InterPro: IPR004932 RER1 family proteins are involved in involved in the retrieval of some endoplasmic reticulum membrane proteins from the early golgi compartment. The C terminus of yeast Rer1p interacts with a coatomer complex [].; GO: 0016021 integral to membrane
Probab=28.21 E-value=81 Score=28.15 Aligned_cols=31 Identities=13% Similarity=0.118 Sum_probs=13.8
Q ss_pred ccCchhhHHHH-HhhhhHHHHHHHHHHHHHHH
Q psy16324 33 EVEPEEQTTLQ-KAKFYVSLCSGVTACLSAFA 63 (251)
Q Consensus 33 ~~~p~~~t~~e-k~~FYttl~l~~tavlSlfa 63 (251)
+-+|=.|++-| |.+.+.+-...+..+.++|.
T Consensus 97 EFrPFiRRlPEFkFW~~~tka~~i~~~~tff~ 128 (176)
T PF03248_consen 97 EFRPFIRRLPEFKFWYSCTKATVISLFCTFFP 128 (176)
T ss_pred ccCCccccchhhHHHHHHHHHHHHHHHHHHHH
Confidence 44555556555 33333333333333444443
No 38
>COG3630 OadG Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, gamma subunit [Energy production and conversion]
Probab=27.32 E-value=1.3e+02 Score=24.08 Aligned_cols=40 Identities=15% Similarity=0.207 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhchhHHHHhhcCCCccee
Q psy16324 49 VSLCSGVTACLSAFAFLFLIPFIIEPAIKTIMADYEAEPVT 89 (251)
Q Consensus 49 ttl~l~~tavlSlfafLFLvPfvvdPAisti~~~f~~~Pv~ 89 (251)
-++-|-++|+-=+|+|||+.-+ +.=.++.+..+|.|+|+-
T Consensus 9 eg~~L~vlGmg~VflfL~iLi~-~~~~m~~~v~r~~pee~~ 48 (84)
T COG3630 9 EGITLMVLGMGFVFLFLSILIY-AMRGMGAVVRRFVPEEVP 48 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhCCCCCC
Confidence 4455566666666777766544 345778888888887653
No 39
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=27.29 E-value=1.3e+02 Score=20.60 Aligned_cols=38 Identities=18% Similarity=0.313 Sum_probs=16.3
Q ss_pred HHHHHhhhhHHHHH-HHHHHHHHHHHHhhhhhhhchhHHHHh
Q psy16324 40 TTLQKAKFYVSLCS-GVTACLSAFAFLFLIPFIIEPAIKTIM 80 (251)
Q Consensus 40 t~~ek~~FYttl~l-~~tavlSlfafLFLvPfvvdPAisti~ 80 (251)
.++++-....++.+ ++.-++++++ -++.|. ||.-+.+-
T Consensus 11 ~f~~nk~a~~gl~il~~~vl~ai~~-p~~~p~--~~~~~d~~ 49 (56)
T PF12911_consen 11 RFRRNKLAVIGLIILLILVLLAIFA-PFISPY--DPNQQDLS 49 (56)
T ss_pred HHHhCchHHHHHHHHHHHHHHHHHH-HHcCCC--CcchhhHH
Confidence 44444444444444 3333333333 234554 55555543
No 40
>PRK13865 type IV secretion system protein VirB8; Provisional
Probab=27.17 E-value=72 Score=29.03 Aligned_cols=25 Identities=20% Similarity=0.173 Sum_probs=18.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhhh
Q psy16324 46 KFYVSLCSGVTACLSAFAFLFLIPF 70 (251)
Q Consensus 46 ~FYttl~l~~tavlSlfafLFLvPf 70 (251)
.+-.+...++.+++|++|+..|.|+
T Consensus 40 aw~va~~~~~~~~~~~~Av~~l~PL 64 (229)
T PRK13865 40 LAAVAGIAVAGNVAQAFAIATMVPL 64 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccc
Confidence 3445556677888899999998886
No 41
>KOG2262|consensus
Probab=26.79 E-value=63 Score=34.60 Aligned_cols=34 Identities=12% Similarity=0.192 Sum_probs=19.4
Q ss_pred CCcccccEEeeccCCCCCCCC-CchhHHHHHhCCC
Q psy16324 145 PWDHEDIRFLINTEGCGYPPG-TNCTNFVKQYGLP 178 (251)
Q Consensus 145 ~w~~~esrLliN~kGCgypP~-~nCk~F~~~YG~d 178 (251)
.|.---.|++|++--==-|-. +.|+-|-.-|+++
T Consensus 196 GwAGl~Rk~lV~Pa~m~WPsnLvqvsLFraLHeke 230 (761)
T KOG2262|consen 196 GWAGLFRKYLVYPASMWWPSNLVQVSLFRALHEKE 230 (761)
T ss_pred cHhhhhHhhccCcHhhcCcchhHHHHHHHHHHhhh
Confidence 344444566665442222111 4788899999987
No 42
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=26.45 E-value=64 Score=24.97 Aligned_cols=17 Identities=24% Similarity=0.526 Sum_probs=12.6
Q ss_pred HHhhhhHHHHHHHHHhh
Q psy16324 219 LALVVPIVLFFGSLTIL 235 (251)
Q Consensus 219 ~a~~VP~vlFvvS~i~L 235 (251)
.++++|+++|++.+..+
T Consensus 4 ~fl~~Pliif~ifVap~ 20 (75)
T TIGR02976 4 FFLAIPLIIFVIFVAPL 20 (75)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 46789999998765543
No 43
>PRK13887 conjugal transfer protein TrbF; Provisional
Probab=25.85 E-value=86 Score=28.37 Aligned_cols=25 Identities=12% Similarity=-0.104 Sum_probs=16.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhhh
Q psy16324 46 KFYVSLCSGVTACLSAFAFLFLIPF 70 (251)
Q Consensus 46 ~FYttl~l~~tavlSlfafLFLvPf 70 (251)
+...++..++++++|++++.+|.|+
T Consensus 55 w~v~a~~~~~ia~~~v~av~~l~pl 79 (250)
T PRK13887 55 WQVVGILSLLIALAAVGGVIHIGSQ 79 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 3333444466678888888888665
No 44
>PF14816 FAM178: Family of unknown function, FAM178
Probab=25.46 E-value=40 Score=33.25 Aligned_cols=24 Identities=21% Similarity=0.317 Sum_probs=13.7
Q ss_pred ccccccCcccceEEEEEeeccchh
Q psy16324 110 REGCTAQMIKCHQISVHYSRMFFK 133 (251)
Q Consensus 110 REGCTs~~y~C~QI~Vnys~~~~~ 133 (251)
|.|+.+.+|...+--|-..++-|+
T Consensus 135 ~~G~Ls~~Y~~~~CP~pll~WLFq 158 (377)
T PF14816_consen 135 RSGLLSQLYLHQPCPVPLLQWLFQ 158 (377)
T ss_pred HHHHHHHhhcCCCCChHHHHHHHH
Confidence 568888887655433444444444
No 45
>KOG0772|consensus
Probab=24.58 E-value=37 Score=35.38 Aligned_cols=8 Identities=63% Similarity=0.696 Sum_probs=4.8
Q ss_pred hhhccCCC
Q psy16324 6 TKLQNSDK 13 (251)
Q Consensus 6 ~~~~~~~~ 13 (251)
+-+|.||+
T Consensus 123 ~a~~es~~ 130 (641)
T KOG0772|consen 123 TALQESDS 130 (641)
T ss_pred cccccccC
Confidence 34566666
No 46
>PF11947 DUF3464: Protein of unknown function (DUF3464); InterPro: IPR021855 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 137 to 196 amino acids in length.
Probab=23.97 E-value=1.5e+02 Score=25.88 Aligned_cols=38 Identities=11% Similarity=0.248 Sum_probs=24.9
Q ss_pred cccccCch-hhHHHHHhhhhHHHHHHHHHHHHHHHHHhhh
Q psy16324 30 EKLEVEPE-EQTTLQKAKFYVSLCSGVTACLSAFAFLFLI 68 (251)
Q Consensus 30 ~~l~~~p~-~~t~~ek~~FYttl~l~~tavlSlfafLFLv 68 (251)
++..+|.. -++++.|..+.+++=++ +|+.++++|.+|+
T Consensus 49 ~~~~IP~~Vs~RM~rRm~~~~GiP~~-lG~~~f~~~y~l~ 87 (153)
T PF11947_consen 49 DDSAIPEVVSNRMLRRMAVFVGIPTA-LGVAVFVVFYYLK 87 (153)
T ss_pred cccccCHHHHHHHHHHHHHHhchHHH-HHHHHHHHHHHHH
Confidence 33344433 57788888888877664 4777777777763
No 47
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 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 []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=23.85 E-value=1.7e+02 Score=24.24 Aligned_cols=31 Identities=6% Similarity=-0.088 Sum_probs=20.8
Q ss_pred HHHHH-HHHHHHHHHHHHhhhhh----hhchhHHHH
Q psy16324 49 VSLCS-GVTACLSAFAFLFLIPF----IIEPAIKTI 79 (251)
Q Consensus 49 ttl~l-~~tavlSlfafLFLvPf----vvdPAisti 79 (251)
.++.+ ++++++++|+++|-.+- +.+.+.+-+
T Consensus 79 ls~v~Nilvsv~~~~~~~~~~~~~~~~~~~~~~Rvl 114 (142)
T PF11712_consen 79 LSTVFNILVSVFAVFFAGWYWAGYSFGGWSFPYRVL 114 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccchHHHHH
Confidence 45555 88899999999995444 445554443
No 48
>PF14143 YrhC: YrhC-like protein
Probab=23.29 E-value=1.7e+02 Score=22.71 Aligned_cols=42 Identities=24% Similarity=0.099 Sum_probs=33.1
Q ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHHhhhh-hhhchhHHHHhh
Q psy16324 40 TTLQKAKFYVSLCSGVTACLSAFAFLFLIP-FIIEPAIKTIMA 81 (251)
Q Consensus 40 t~~ek~~FYttl~l~~tavlSlfafLFLvP-fvvdPAisti~~ 81 (251)
.+++|+-=|.-..++++|+.+.+-++.++| .-.+++-+.+++
T Consensus 2 ~l~~Ki~DyKrf~~vLLAvs~FlYiG~viP~~~~~~~~~~~m~ 44 (72)
T PF14143_consen 2 ELKEKIEDYKRFAFVLLAVSTFLYIGTVIPIGAKETAQKYIMM 44 (72)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHhhCCccchhHHHHHHHH
Confidence 467788888888889999988888888888 666666666554
No 49
>PRK02561 psbF cytochrome b559 subunit beta; Provisional
Probab=23.28 E-value=20 Score=25.63 Aligned_cols=19 Identities=37% Similarity=0.670 Sum_probs=15.6
Q ss_pred HHHHHhhhhHHHHHHHHHh
Q psy16324 216 YLILALVVPIVLFFGSLTI 234 (251)
Q Consensus 216 ~Li~a~~VP~vlFvvS~i~ 234 (251)
--+|+++||.|.|+-|...
T Consensus 20 lAvhalavPtVfFlGaI~A 38 (44)
T PRK02561 20 LAVHALGVPTVFFLGAIAA 38 (44)
T ss_pred hhhhccccCceeeccHHHH
Confidence 3589999999999877654
No 50
>TIGR00939 2a57 Equilibrative Nucleoside Transporter (ENT).
Probab=22.87 E-value=1.3e+02 Score=29.35 Aligned_cols=15 Identities=7% Similarity=0.020 Sum_probs=7.7
Q ss_pred CchhhHHHHHhhhhH
Q psy16324 35 EPEEQTTLQKAKFYV 49 (251)
Q Consensus 35 ~p~~~t~~ek~~FYt 49 (251)
+++...+..|.+.+.
T Consensus 261 ~~~~~~v~kki~~~~ 275 (437)
T TIGR00939 261 KTSVWVVFTKVWLLA 275 (437)
T ss_pred cCcHHHHHHHHHHHH
Confidence 334445556666554
No 51
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 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 PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=22.81 E-value=1.2e+02 Score=20.94 Aligned_cols=16 Identities=38% Similarity=0.536 Sum_probs=11.7
Q ss_pred HHHHHHHHHhhhhhhhchh
Q psy16324 57 ACLSAFAFLFLIPFIIEPA 75 (251)
Q Consensus 57 avlSlfafLFLvPfvvdPA 75 (251)
-..|+|+|+|| -=||+
T Consensus 14 ffv~LFifGfl---snDp~ 29 (36)
T PF02532_consen 14 FFVSLFIFGFL---SNDPG 29 (36)
T ss_dssp HHHHHHHHHHH---TTCTT
T ss_pred HHHHHHhcccc---CCCCC
Confidence 55789999998 45554
No 52
>PHA02831 EEV host range protein; Provisional
Probab=22.78 E-value=54 Score=30.71 Aligned_cols=44 Identities=23% Similarity=0.380 Sum_probs=25.2
Q ss_pred EecchhhhHHHHHHHhhhhHHHHHHHHHhhhhhccCCcCCCCCCC
Q psy16324 206 AKYNWDDNLRYLILALVVPIVLFFGSLTILGYWYCPRKSKVQPAY 250 (251)
Q Consensus 206 ar~d~d~t~~~Li~a~~VP~vlFvvS~i~L~~~~C~~~~k~~~~~ 250 (251)
+.|||..++...|+.+.+=..+|+++++.|. --|....-..|.|
T Consensus 222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ 265 (268)
T PHA02831 222 TNYNMQQNIITIIILLSIICFIFVLGLIALF-LSCNKSTLKPSIY 265 (268)
T ss_pred cccccccceEeehhHHHHHHHHHHHHHHHHh-hcccccccCcccc
Confidence 5677777655556666666666777766543 3454444444443
No 53
>TIGR02120 GspF general secretion pathway protein F. This membrane protein is a component of the terminal branch complex of the general secretion pathway (GSP), also known as the"Type II" secretion pathway. The GSP transports proteins (generally virulence-associated cell wall hydrolases) across the outer membrase of the bacterial cell. Transport across the inner membrane is often, but not exclusively handled by the Sec system. This model was constructed from the broader subfamily model, pfam00482 which includes components of pilin complexes (PilC) as well as other related genes. GspF is nearly always gene clustered with other GSP subunits. Some genes from Xylella and Xanthomonas strains score below the trusted cutoff due to excessive divergence from the family such that a sequence from Deinococcus which does not appear to be GspF scores higher.
Probab=22.69 E-value=2e+02 Score=27.13 Aligned_cols=23 Identities=17% Similarity=0.155 Sum_probs=18.0
Q ss_pred HHHHHhhhhHHHHHHHHHhhhhh
Q psy16324 216 YLILALVVPIVLFFGSLTILGYW 238 (251)
Q Consensus 216 ~Li~a~~VP~vlFvvS~i~L~~~ 238 (251)
+.+.+++=|+.+.+++.+++.+.
T Consensus 363 ~~~~~lieP~~il~ig~~v~~i~ 385 (399)
T TIGR02120 363 ATLTALLEPLLIVVMGGVVLFIV 385 (399)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677888999998888877654
No 54
>PRK07597 secE preprotein translocase subunit SecE; Reviewed
Probab=22.68 E-value=1.4e+02 Score=21.66 Aligned_cols=34 Identities=18% Similarity=0.104 Sum_probs=19.4
Q ss_pred ccccccCchhhHHHHHhhhhHHHHHHHHHHHHHHHHHh
Q psy16324 29 EEKLEVEPEEQTTLQKAKFYVSLCSGVTACLSAFAFLF 66 (251)
Q Consensus 29 e~~l~~~p~~~t~~ek~~FYttl~l~~tavlSlfafLF 66 (251)
|-+...=|.+ +...-++..-++++.++|+|.+++
T Consensus 20 ElkkV~WPs~----~e~~~~t~~Vi~~~~~~~~~i~~v 53 (64)
T PRK07597 20 ELKKVTWPTR----KELVRSTIVVLVFVAFFALFFYLV 53 (64)
T ss_pred HHhhCcCcCH----HHHHhHHHHHHHHHHHHHHHHHHH
Confidence 3344444443 334456777777777777666543
No 55
>COG3872 Predicted metal-dependent enzyme [General function prediction only]
Probab=22.53 E-value=74 Score=30.74 Aligned_cols=27 Identities=26% Similarity=0.256 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhchhHH
Q psy16324 49 VSLCSGVTACLSAFAFLFLIPFIIEPAIK 77 (251)
Q Consensus 49 ttl~l~~tavlSlfafLFLvPfvvdPAis 77 (251)
+-+.++..|++|+.--.|+ |.+=|.+-
T Consensus 105 ~~l~la~igvlsf~f~~~v--F~lvPvfL 131 (318)
T COG3872 105 MILGLAVIGVLSFVFGKFV--FTLVPVFL 131 (318)
T ss_pred HHHHHHHHHHHHHHHhhHh--heehHHHH
Confidence 3344455677665432222 34445443
No 56
>PHA02954 EEV membrane glycoprotein; Provisional
Probab=22.50 E-value=14 Score=35.31 Aligned_cols=27 Identities=26% Similarity=0.386 Sum_probs=22.8
Q ss_pred hhhhHHHHHHHhhhhHHHHHHHHHhhh
Q psy16324 210 WDDNLRYLILALVVPIVLFFGSLTILG 236 (251)
Q Consensus 210 ~d~t~~~Li~a~~VP~vlFvvS~i~L~ 236 (251)
++.+|..+|+|+.|-.|+|+||+++|.
T Consensus 274 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 300 (317)
T PHA02954 274 LEATYHIIIVALTIMGVIFLISVIVLV 300 (317)
T ss_pred hhceeeEeeeehhhhHHHHhheeeEEE
Confidence 566777788999999999999998874
No 57
>PF11271 DUF3068: Protein of unknown function (DUF3068); InterPro: IPR021424 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=22.42 E-value=75 Score=29.45 Aligned_cols=36 Identities=14% Similarity=0.180 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhchhHHHHhhcCCCc
Q psy16324 50 SLCSGVTACLSAFAFLFLIPFIIEPAIKTIMADYEAE 86 (251)
Q Consensus 50 tl~l~~tavlSlfafLFLvPfvvdPAisti~~~f~~~ 86 (251)
++.|+.+|++ ++++..|+|+|+-|.+..+=.|.+..
T Consensus 4 ~~~l~~lG~~-llv~a~llp~~v~~~l~~lPld~~~t 39 (301)
T PF11271_consen 4 SAVLLGLGVF-LLVAAILLPTYVVPRLAKLPLDLDQT 39 (301)
T ss_pred HHHHHHHHHH-HHHHHHHHHHhcccccccCCCCCCce
Confidence 5566666744 55678899999999988877665544
No 58
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=21.63 E-value=49 Score=33.55 Aligned_cols=17 Identities=18% Similarity=0.177 Sum_probs=6.8
Q ss_pred eeeeeecCCCcCCcccc
Q psy16324 92 ISRHDINLGISNCNWAS 108 (251)
Q Consensus 92 tt~~~~~~G~~NCtWsS 108 (251)
+.++......++.+-.|
T Consensus 141 ~~r~~~~~~~S~sS~~S 157 (458)
T PF10446_consen 141 VRRRSSHRRSSDSSIES 157 (458)
T ss_pred ccccccccCCCCCcccc
Confidence 33333333444444433
No 59
>PRK13553 fumarate reductase cytochrome b-556 subunit; Provisional
Probab=21.53 E-value=1.4e+02 Score=28.14 Aligned_cols=30 Identities=23% Similarity=0.290 Sum_probs=25.8
Q ss_pred hhHHHHHhhhhHHHHHHHHHHHHHHHHHhh
Q psy16324 38 EQTTLQKAKFYVSLCSGVTACLSAFAFLFL 67 (251)
Q Consensus 38 ~~t~~ek~~FYttl~l~~tavlSlfafLFL 67 (251)
.|...+|++-..+.+|+.+|++|+.||.++
T Consensus 203 ~R~~~~~v~~~i~v~f~~lGl~sL~af~~i 232 (258)
T PRK13553 203 SRKKLKKVKWALSVFFLVLGLLTLAAYIKI 232 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 457778888889999999999999998886
No 60
>PF02487 CLN3: CLN3 protein; InterPro: IPR003492 Batten's disease, the juvenile variant of neuronal ceroid lipofuscionosis (NCL), is a recessively inherited disorder affecting children of 5-10 years of age. The disease is characterised by progressive loss of vision, seizures and psychomotor disturbances. Biochemically, the disease is characterised by lysosomal accumulation of hydrophobic material, mainly ATP synthase subunit C, largely in the brain but also in other tissues. The disease is fatal within a decade []. Mutations in the CLN3 gene are believed to cause Batten's disease []. The CLN3 gene, with a predicted 438-residue product, maps to chromosome p16p12.1. The gene contains at least 15 exons spanning 15kb and is highly conserved in mammals []. A 1.02kb deletion in the CLN3 gene, occurring in either one or both alleles, is found in 85% of Batten disease chromosomes causing a frameshift generating a predicted translated product of 181 amino acid residues [, ]. 22 other mutations, including deletions, insertions and point mutations, have been reported. It has been suggested that such mutations result in severely truncated CLN3 proteins, or affect its structure/conformation [, ]. CLN3 proteins, which are believed to associate in complexes, are heavily glycosylated lysosomal membrane proteins [], containing complex Asn-linked oligosaccharides []. Extensive glycosylation is important for the stability of these lysosomal proteins in the highly hydrolytic lysosomal lumen. Lysosomal sequestration of active lysosomal enzymes, transport of degraded molecules from the lysosomes, and fusion and fission between lysosomes and other organelles. The CLN3 protein is a 43kDa, highly hydrophobic, multi-transmembrane (TM), phosphorylated protein []. Hydrophobicity analysis predicts 6-9 TM segments, suggesting that CLN3 is a TM protein that may function as a chaperone or signal transducer. The majority of putative phosphorylation sites are found in the N-terminal domain, encompassing 150 residues []. Phosphorylation is believed to be important for membrane compartment interaction, in the formation of functional complexes, and in regulation and interactions with other proteins []. CLN3 contains several motifs that may undergo lipid post-translational modifications (PTMs). PTMs contribute to targeting and anchoring of modified proteins to distinct biological membranes []. There are three general classes of lipid modification: N-terminal myristoylation, C-terminal prenylation, and palmitoylation of cysteine residues. Such modifications are believed to be a common form of PTM occurring in 0.5% of all cellular proteins, including brain tissue []. The C terminus of the CLN3 contains various lipid modification sites: C435, target for prenylation; G419, target for myristoylation; and C414, target for palmitoylation []. Prenylation results in protein hydrophobicity, influences interaction with upstream regulatory proteins and downstream effectors, facilitates protein-protein interaction (multisubunit assembly) and promotes anchoring to membrane lipids. The prenylation motif, Cys-A-A-X, is highly conserved within CLN3 protein sequences of different species []. Species with known CLN3 protein homologues include: Homo sapiens, Canis familiaris, Mus musculus, Saccharomyces cerevisiae and Drosophila melanogaster.; GO: 0016020 membrane
Probab=21.50 E-value=2.1e+02 Score=28.28 Aligned_cols=40 Identities=10% Similarity=0.059 Sum_probs=25.2
Q ss_pred CchhhHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhhhchhHHH
Q psy16324 35 EPEEQTTLQKAKFYVSLCSGVTACLSAFAFLFLIPFIIEPAIKT 78 (251)
Q Consensus 35 ~p~~~t~~ek~~FYttl~l~~tavlSlfafLFLvPfvvdPAist 78 (251)
...+.+++||.+....+..-+.-.+.+..+=+ ++-.++.+
T Consensus 229 ~~~~~~~~~k~~~~k~Ll~ymiPL~lVY~aEY----~InqGv~~ 268 (402)
T PF02487_consen 229 SSSKLSFKEKLKRLKPLLWYMIPLFLVYFAEY----FINQGVAP 268 (402)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhchHH
Confidence 44567899999988887765555554444444 45555544
No 61
>TIGR01333 cyt_b559_beta cytochrome b559, beta subunit. This model describes the beta subunit of cytochrome b559, about 40 residues in length. It is homologous to the N-terminal half of the alpha subunit, a protein of about 83 residues. Cytochrome b559 is associated with photosystem II.
Probab=21.45 E-value=19 Score=25.57 Aligned_cols=19 Identities=47% Similarity=0.861 Sum_probs=15.5
Q ss_pred HHHHHhhhhHHHHHHHHHh
Q psy16324 216 YLILALVVPIVLFFGSLTI 234 (251)
Q Consensus 216 ~Li~a~~VP~vlFvvS~i~ 234 (251)
--+|+++||.|.|+.|...
T Consensus 19 lavH~lavPtVfflGaI~a 37 (43)
T TIGR01333 19 LAIHALAIPTVFFFGAITA 37 (43)
T ss_pred hhhhcccCCceeeccHHHH
Confidence 4589999999999877654
No 62
>PLN02601 beta-carotene hydroxylase
Probab=21.14 E-value=69 Score=30.90 Aligned_cols=23 Identities=4% Similarity=0.033 Sum_probs=11.6
Q ss_pred HHHhhhhHHHHHHHHHHHHHHHH
Q psy16324 42 LQKAKFYVSLCSGVTACLSAFAF 64 (251)
Q Consensus 42 ~ek~~FYttl~l~~tavlSlfaf 64 (251)
.|+.-+-.++...-+||.|+.++
T Consensus 91 ~er~ty~~aa~~ss~gi~s~a~~ 113 (303)
T PLN02601 91 SERFTYLIAAVMSSFGITSMAIM 113 (303)
T ss_pred hhhhHHHHHHHHHhhcHHHHHHH
Confidence 34444445555555566555443
No 63
>CHL00039 psbF photosystem II protein VI
Probab=20.76 E-value=21 Score=24.92 Aligned_cols=18 Identities=39% Similarity=0.772 Sum_probs=15.0
Q ss_pred HHHHhhhhHHHHHHHHHh
Q psy16324 217 LILALVVPIVLFFGSLTI 234 (251)
Q Consensus 217 Li~a~~VP~vlFvvS~i~ 234 (251)
-+|+++||.|.|+-|...
T Consensus 16 avh~lavPtvfflGai~a 33 (39)
T CHL00039 16 AVHGLAVPTVFFLGSISA 33 (39)
T ss_pred hhhcccCCceeeccHHHH
Confidence 589999999999877654
No 64
>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=20.39 E-value=42 Score=33.24 Aligned_cols=13 Identities=23% Similarity=0.866 Sum_probs=11.6
Q ss_pred hhccCCcCCCCCC
Q psy16324 237 YWYCPRKSKVQPA 249 (251)
Q Consensus 237 ~~~C~~~~k~~~~ 249 (251)
-|+||+|+|.||+
T Consensus 284 ~W~CpkC~~k~ss 296 (415)
T COG5533 284 AWRCPKCGRKESS 296 (415)
T ss_pred cccCchhcccccc
Confidence 3999999999986
No 65
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=20.34 E-value=55 Score=22.75 Aligned_cols=24 Identities=17% Similarity=0.126 Sum_probs=15.9
Q ss_pred hHHHHHHHHHhhhhhccCCcCCCC
Q psy16324 224 PIVLFFGSLTILGYWYCPRKSKVQ 247 (251)
Q Consensus 224 P~vlFvvS~i~L~~~~C~~~~k~~ 247 (251)
-.|+-+++++++|+++-.||-|..
T Consensus 10 v~V~vg~~iiii~~~~YaCcykk~ 33 (38)
T PF02439_consen 10 VAVVVGMAIIIICMFYYACCYKKH 33 (38)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccc
Confidence 345666777778888877665543
No 66
>KOG1792|consensus
Probab=20.29 E-value=1.1e+02 Score=28.18 Aligned_cols=31 Identities=23% Similarity=0.277 Sum_probs=24.1
Q ss_pred hHHHHH-HHHHHHHHHHHHhhhhhhhchhHHH
Q psy16324 48 YVSLCS-GVTACLSAFAFLFLIPFIIEPAIKT 78 (251)
Q Consensus 48 Yttl~l-~~tavlSlfafLFLvPfvvdPAist 78 (251)
|.|.++ ++|-...++..+|.||.++|+.-..
T Consensus 164 ~vGs~fn~lTll~ig~v~~~TvP~~YEky~d~ 195 (230)
T KOG1792|consen 164 YVGSLFNFLTLLYIGLVLLFTVPVLYEKYEDQ 195 (230)
T ss_pred HHHHhhhHHHHHHHHHHHHhcccchhHHhHHH
Confidence 456566 7778888899999999999876544
Done!