Query psy9372
Match_columns 57
No_of_seqs 48 out of 50
Neff 2.8
Searched_HMMs 46136
Date Fri Aug 16 17:26:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9372.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9372hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1420|consensus 99.5 2.8E-15 6E-20 121.9 0.2 39 19-57 533-571 (1103)
2 PF03493 BK_channel_a: Calcium 99.1 8.4E-12 1.8E-16 77.4 -1.4 34 24-57 54-87 (101)
3 KOG1420|consensus 72.1 1.4 3E-05 37.6 0.3 15 1-15 421-435 (1103)
4 cd01259 PH_Apbb1ip Apbb1ip (Am 68.3 1.6 3.5E-05 29.0 -0.1 23 13-35 3-27 (114)
5 PF02456 Adeno_IVa2: Adenoviru 39.3 22 0.00048 27.8 1.9 53 4-56 108-175 (369)
6 KOG2672|consensus 35.2 28 0.00061 27.2 1.9 38 12-49 155-202 (360)
7 TIGR03050 PS_I_psaK_plant phot 29.4 19 0.00042 22.8 0.1 13 43-55 47-59 (83)
8 PF08281 Sigma70_r4_2: Sigma-7 29.0 8.6 0.00019 20.1 -1.3 12 46-57 23-34 (54)
9 PF01722 BolA: BolA-like prote 28.2 25 0.00055 20.9 0.5 20 32-52 25-44 (76)
10 PF01241 PSI_PSAK: Photosystem 26.5 17 0.00036 22.6 -0.5 14 42-55 44-57 (81)
11 PF03008 DUF234: Archaea bacte 26.1 5.5 0.00012 24.0 -2.7 38 15-57 1-41 (100)
12 PF04545 Sigma70_r4: Sigma-70, 25.5 13 0.00027 19.4 -1.0 11 47-57 18-28 (50)
13 smart00740 PASTA PASTA domain. 22.2 31 0.00067 17.4 0.1 11 45-55 8-18 (66)
14 PHA02673 ORF109 EEV glycoprote 22.1 41 0.0009 23.6 0.7 12 24-35 118-129 (161)
15 PF07543 PGA2: Protein traffic 21.3 20 0.00044 23.9 -0.9 16 39-54 1-16 (140)
16 PF14086 DUF4266: Domain of un 20.7 24 0.00052 20.3 -0.6 28 24-51 2-29 (50)
17 cd01239 PH_PKD Protein kinase 20.3 36 0.00079 22.7 0.1 26 13-39 3-31 (117)
No 1
>KOG1420|consensus
Probab=99.50 E-value=2.8e-15 Score=121.91 Aligned_cols=39 Identities=62% Similarity=1.175 Sum_probs=37.1
Q ss_pred EcCCchhhHHHhhcccccchhhhhcCCccCCCCcccccC
Q psy9372 19 ISPDTQAWQNDYLQGTGCEMYTETLSPSFTGMTFPQASE 57 (57)
Q Consensus 19 ~~~~~~~Wqk~yL~G~~~emyTe~LS~dF~GMtFpEv~r 57 (57)
++|+++.|||+||+|.|||||||+||++|+|||||+|||
T Consensus 533 tsp~~~~w~ndylrg~gmemyte~lsp~f~g~sfp~a~e 571 (1103)
T KOG1420|consen 533 TSPEEDTWQNDYLRGVGMEMYTEYLSPAFVGLSFPTACE 571 (1103)
T ss_pred CCcccchhHHHHHhhcchhHhhhhcCHhhcCCchHHHHH
Confidence 458999999999999999999999999999999999985
No 2
>PF03493 BK_channel_a: Calcium-activated BK potassium channel alpha subunit; InterPro: IPR003929 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 alpha subunit of the BK channel was initially thought to share the characteristic 6TM organisation of the voltage-gated K+ channels. However, the molecule is now thought to possess an additional TM domain, with an extracellular N terminus and intracellular C terminus. This C-terminal region contains 4 predominantly hydrophobic domains, which are also thought to lie intracellularly. The extracellular N terminus and the first TM region are required for modulation by the beta subunit. The precise location of the Ca2+-binding site that modulates channel activation remains unknown, but it is thought to lie within the C-terminal hydrophobic domains.; GO: 0015269 calcium-activated potassium channel activity, 0006813 potassium ion transport, 0016020 membrane; PDB: 3NAF_A 3MT5_A 3U6N_E.
Probab=99.08 E-value=8.4e-12 Score=77.36 Aligned_cols=34 Identities=47% Similarity=0.961 Sum_probs=30.9
Q ss_pred hhhHHHhhcccccchhhhhcCCccCCCCcccccC
Q psy9372 24 QAWQNDYLQGTGCEMYTETLSPSFTGMTFPQASE 57 (57)
Q Consensus 24 ~~Wqk~yL~G~~~emyTe~LS~dF~GMtFpEv~r 57 (57)
++|+++|++|+++|||+..||++|+||||.|||+
T Consensus 54 ~~W~~eY~~G~~~eIy~~~l~~~f~G~~F~~~~~ 87 (101)
T PF03493_consen 54 EQWISEYLRGAGNEIYTVKLSSAFVGMTFTEAAR 87 (101)
T ss_dssp SSHHHHHHHHHTBEEEEEE--GGGTTSBHHHHHH
T ss_pred HHHHHHHHcCCCCEEEEEeCChhhCCCcHHHHHH
Confidence 8999999999999999999999999999999984
No 3
>KOG1420|consensus
Probab=72.08 E-value=1.4 Score=37.58 Aligned_cols=15 Identities=53% Similarity=0.802 Sum_probs=13.2
Q ss_pred CCcccceeeeecCce
Q psy9372 1 MNPIDLQRVKVTPRT 15 (57)
Q Consensus 1 ~~~~~~~~~~~~~~~ 15 (57)
|||+||+|||+...-
T Consensus 421 mnp~dl~rvki~~ad 435 (1103)
T KOG1420|consen 421 MNPHDLARVKIESAD 435 (1103)
T ss_pred cChhhhhheeccccc
Confidence 899999999998654
No 4
>cd01259 PH_Apbb1ip Apbb1ip (Amyloid beta (A4) Precursor protein-Binding, family B, member 1 Interacting Protein) pleckstrin homology (PH) domain. Apbb1ip (Amyloid beta (A4) Precursor protein-Binding, family B, member 1 Interacting Protein) pleckstrin homology (PH) domain. Apbb1ip consists of a Ras-associated domain and a PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=68.32 E-value=1.6 Score=28.99 Aligned_cols=23 Identities=26% Similarity=0.586 Sum_probs=20.2
Q ss_pred CceeEEEcCCchhhHHHh--hcccc
Q psy9372 13 PRTLDLISPDTQAWQNDY--LQGTG 35 (57)
Q Consensus 13 ~~~~~~~~~~~~~Wqk~y--L~G~~ 35 (57)
.|+|-++.+.+.+|.++| ||+.|
T Consensus 3 ~g~LylK~~gkKsWKk~~f~LR~SG 27 (114)
T cd01259 3 EGPLYLKADGKKSWKKYYFVLRSSG 27 (114)
T ss_pred cceEEEccCCCccceEEEEEEeCCe
Confidence 378999999999999999 78777
No 5
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=39.30 E-value=22 Score=27.82 Aligned_cols=53 Identities=28% Similarity=0.577 Sum_probs=39.6
Q ss_pred ccceeeeecCceeEEEcCC--------chhhHHHhhccc-----ccchh--hhhcCCccCCCCccccc
Q psy9372 4 IDLQRVKVTPRTLDLISPD--------TQAWQNDYLQGT-----GCEMY--TETLSPSFTGMTFPQAS 56 (57)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~--------~~~Wqk~yL~G~-----~~emy--Te~LS~dF~GMtFpEv~ 56 (57)
|.-|.+.-.|.++.|+.|. .-.|+-+-++|- ..-++ |-+|.++|+-|||.|+.
T Consensus 108 is~~lI~P~PETVfFItP~~~mIpp~E~~aW~~Ql~EgNY~~~~~gTi~P~t~t~~P~Fv~msy~e~t 175 (369)
T PF02456_consen 108 ISCQLIQPPPETVFFITPQKDMIPPQEITAWETQLCEGNYDCGPDGTIVPQTGTFRPKFVEMSYDEAT 175 (369)
T ss_pred hhcCcccCCCCceEEECCCCCCCCHHHHHHHHHHHHhcCCCCCCCCeeccccccccccceeecHhhhC
Confidence 4456667788998888774 457988777663 22255 88999999999999974
No 6
>KOG2672|consensus
Probab=35.24 E-value=28 Score=27.17 Aligned_cols=38 Identities=26% Similarity=0.366 Sum_probs=27.5
Q ss_pred cCceeEEEcCCchhhH----HH------hhcccccchhhhhcCCccCC
Q psy9372 12 TPRTLDLISPDTQAWQ----ND------YLQGTGCEMYTETLSPSFTG 49 (57)
Q Consensus 12 ~~~~~~~~~~~~~~Wq----k~------yL~G~~~emyTe~LS~dF~G 49 (57)
+-+++|++|.|.+.-- +| ++---.-+|+.|.|++||.|
T Consensus 155 gl~YiVlTSVDRDDlpDgGa~HiAkTVq~iK~k~p~ilvE~L~pDF~G 202 (360)
T KOG2672|consen 155 GLDYIVLTSVDRDDLPDGGANHIAKTVQKIKEKAPEILVECLTPDFRG 202 (360)
T ss_pred CCCeEEEEecccccCcCcchHHHHHHHHHHHhhCcccchhhcCccccC
Confidence 4467888888766542 22 34455668999999999998
No 7
>TIGR03050 PS_I_psaK_plant photosystem I reaction center PsaK, plant form. This protein family is based on a model that separates the photosystem I PsaK subunit of chloroplasts from chloroplast PsaG protein and from Cyanobacterial PsaK, both of which show sequence similarity.
Probab=29.42 E-value=19 Score=22.79 Aligned_cols=13 Identities=15% Similarity=0.261 Sum_probs=11.5
Q ss_pred cCCccCCCCcccc
Q psy9372 43 LSPSFTGMTFPQA 55 (57)
Q Consensus 43 LS~dF~GMtFpEv 55 (57)
.|+||+|++.+++
T Consensus 47 ~s~dfagf~~~~~ 59 (83)
T TIGR03050 47 QTGDPAGFTLADT 59 (83)
T ss_pred CcCCCCCcCHHHH
Confidence 7999999998875
No 8
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=29.02 E-value=8.6 Score=20.12 Aligned_cols=12 Identities=33% Similarity=0.791 Sum_probs=6.3
Q ss_pred ccCCCCcccccC
Q psy9372 46 SFTGMTFPQASE 57 (57)
Q Consensus 46 dF~GMtFpEv~r 57 (57)
.|.|||+.|+|+
T Consensus 23 ~~~g~s~~eIa~ 34 (54)
T PF08281_consen 23 YFQGMSYAEIAE 34 (54)
T ss_dssp HTS---HHHHHH
T ss_pred HHHCcCHHHHHH
Confidence 467888888763
No 9
>PF01722 BolA: BolA-like protein; InterPro: IPR002634 This family consist of the morpho-protein BolA from Escherichia coli and its various homologs. In E. coli, over-expression of this protein causes round morphology and may be involved in switching the cell between elongation and septation systems during cell division []. The expression of BolA is growth rate regulated and is induced during the transition into the the stationary phase []. BolA is also induced by stress during early stages of growth [] and may have a general role in stress response. It has also been suggested that BolA can induce the transcription of penicillin binding proteins 6 and 5 [, ].; PDB: 1XS3_A 1V60_A 3O2E_A 1NY8_A 3TR3_A 2KZ0_A 2DHM_A 2KDN_A 1V9J_A.
Probab=28.19 E-value=25 Score=20.87 Aligned_cols=20 Identities=25% Similarity=0.371 Sum_probs=14.6
Q ss_pred cccccchhhhhcCCccCCCCc
Q psy9372 32 QGTGCEMYTETLSPSFTGMTF 52 (57)
Q Consensus 32 ~G~~~emyTe~LS~dF~GMtF 52 (57)
.| +.-.-..-.|+.|.|||-
T Consensus 25 ~g-~sHf~i~IvS~~F~g~s~ 44 (76)
T PF01722_consen 25 GG-GSHFKIIIVSDEFEGKSR 44 (76)
T ss_dssp CS-SSEEEEEEECGGGTTS-H
T ss_pred CC-CceEEEEEEcHHhCCCCH
Confidence 44 666667788999999984
No 10
>PF01241 PSI_PSAK: Photosystem I psaG / psaK; InterPro: IPR000549 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. Photosystem I (PSI) [] is an integral membrane protein complex that uses light energy to mediate electron transfer from plastocyanin to ferredoxin. It is found in the chloroplasts of plants and cyanobacteria. PSI is composed of at least 14 different subunits, two of which, PSI-G (gene psaG) and PSI-K (gene psaK), are small hydrophobic proteins of about 7 to 9 Kd and evolutionary related []. Both seem to contain two transmembrane regions. Cyanobacteria contain only PSI-K.; GO: 0015979 photosynthesis, 0009522 photosystem I, 0016020 membrane; PDB: 2O01_G 2WSF_G 2WSE_G 2WSC_G 3PCQ_K 1JB0_K.
Probab=26.46 E-value=17 Score=22.62 Aligned_cols=14 Identities=21% Similarity=0.330 Sum_probs=11.7
Q ss_pred hcCCccCCCCcccc
Q psy9372 42 TLSPSFTGMTFPQA 55 (57)
Q Consensus 42 ~LS~dF~GMtFpEv 55 (57)
-.|+||+|++.+|+
T Consensus 44 l~s~~p~Gf~~~dv 57 (81)
T PF01241_consen 44 LASNDPAGFGLPDV 57 (81)
T ss_dssp TTTSSCHHCCTTHH
T ss_pred cccCCCCCCCHHHH
Confidence 46889999998875
No 11
>PF03008 DUF234: Archaea bacterial proteins of unknown function; InterPro: IPR004256 This represents a C-terminal domain of unknown function, usually fused to a prokaryotic putative DEXX-box ATPase domain (IPR011579 from INTERPRO) [].
Probab=26.05 E-value=5.5 Score=23.95 Aligned_cols=38 Identities=18% Similarity=0.433 Sum_probs=21.6
Q ss_pred eeEEEcCCchhhHHHhhcccccchh---hhhcCCccCCCCcccccC
Q psy9372 15 TLDLISPDTQAWQNDYLQGTGCEMY---TETLSPSFTGMTFPQASE 57 (57)
Q Consensus 15 ~~~~~~~~~~~Wqk~yL~G~~~emy---Te~LS~dF~GMtFpEv~r 57 (57)
|+-|+.|+. +..-.|.+.++| -..| ++|.|..|-++|+
T Consensus 1 WfrfV~p~~----s~ie~g~~~~~~~~i~~~l-~~y~g~~fE~i~r 41 (100)
T PF03008_consen 1 WFRFVYPNR----SLIERGRGEAVYEKIKPEL-NQYMGFAFEEICR 41 (100)
T ss_pred CeEeecccH----HHHHCCCHHHHHHHHHHHH-HHHhhHHHHHHHH
Confidence 455554443 334445555544 3345 5788888888774
No 12
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=25.46 E-value=13 Score=19.43 Aligned_cols=11 Identities=36% Similarity=0.785 Sum_probs=8.2
Q ss_pred cCCCCcccccC
Q psy9372 47 FTGMTFPQASE 57 (57)
Q Consensus 47 F~GMtFpEv~r 57 (57)
|.|||+.|+|+
T Consensus 18 ~~~~t~~eIa~ 28 (50)
T PF04545_consen 18 FEGLTLEEIAE 28 (50)
T ss_dssp TST-SHHHHHH
T ss_pred cCCCCHHHHHH
Confidence 88999998874
No 13
>smart00740 PASTA PASTA domain.
Probab=22.20 E-value=31 Score=17.43 Aligned_cols=11 Identities=27% Similarity=0.570 Sum_probs=8.7
Q ss_pred CccCCCCcccc
Q psy9372 45 PSFTGMTFPQA 55 (57)
Q Consensus 45 ~dF~GMtFpEv 55 (57)
++|+||+..+|
T Consensus 8 p~~~g~~~~~a 18 (66)
T smart00740 8 PDVIGLSKEEA 18 (66)
T ss_pred CCcCCCCHHHH
Confidence 67888888776
No 14
>PHA02673 ORF109 EEV glycoprotein; Provisional
Probab=22.11 E-value=41 Score=23.60 Aligned_cols=12 Identities=50% Similarity=0.883 Sum_probs=10.3
Q ss_pred hhhHHHhhcccc
Q psy9372 24 QAWQNDYLQGTG 35 (57)
Q Consensus 24 ~~Wqk~yL~G~~ 35 (57)
.+|..+||+|+=
T Consensus 118 ~pWL~dYL~gTW 129 (161)
T PHA02673 118 YPWLTDYLVGTW 129 (161)
T ss_pred CcHHHHHhhccc
Confidence 489999999973
No 15
>PF07543 PGA2: Protein trafficking PGA2; InterPro: IPR011431 A Saccharomyces cerevisiae (Baker's yeast) member of this family (PGA2, P53903 from SWISSPROT) is a single pass membrane protein which has been implicated in protein trafficking [, ].
Probab=21.35 E-value=20 Score=23.86 Aligned_cols=16 Identities=31% Similarity=0.532 Sum_probs=12.9
Q ss_pred hhhhcCCccCCCCccc
Q psy9372 39 YTETLSPSFTGMTFPQ 54 (57)
Q Consensus 39 yTe~LS~dF~GMtFpE 54 (57)
|+..|+++|++||+-.
T Consensus 1 f~~Nl~~sf~~~t~~~ 16 (140)
T PF07543_consen 1 FFNNLYNSFADMTLQK 16 (140)
T ss_pred CcccHHHHHhcccHhh
Confidence 4678999999999753
No 16
>PF14086 DUF4266: Domain of unknown function (DUF4266)
Probab=20.65 E-value=24 Score=20.26 Aligned_cols=28 Identities=7% Similarity=0.091 Sum_probs=17.7
Q ss_pred hhhHHHhhcccccchhhhhcCCccCCCC
Q psy9372 24 QAWQNDYLQGTGCEMYTETLSPSFTGMT 51 (57)
Q Consensus 24 ~~Wqk~yL~G~~~emyTe~LS~dF~GMt 51 (57)
++|++.+|.-..|..--.-+...|..-+
T Consensus 2 kp~Er~~La~~~M~l~~~~~~~~~~~h~ 29 (50)
T PF14086_consen 2 KPYERGNLADPEMALDRDPLEFELNFHI 29 (50)
T ss_pred chhhhccccCcccCCCccHHHHHHHhhh
Confidence 5799999998888764333433343333
No 17
>cd01239 PH_PKD Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain. Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain. PKD consists of 2 C1 domains, followed by a PH domain and a kinase domain. While the PKD PH domain has not been shown to bind phosphorylated inositol lipids and is not required for membrane translocation, it is required for nuclear export. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=20.25 E-value=36 Score=22.69 Aligned_cols=26 Identities=19% Similarity=0.334 Sum_probs=17.1
Q ss_pred CceeE-EEcCCchhhHHHh--hcccccchh
Q psy9372 13 PRTLD-LISPDTQAWQNDY--LQGTGCEMY 39 (57)
Q Consensus 13 ~~~~~-~~~~~~~~Wqk~y--L~G~~~emy 39 (57)
-||+| |++.| ..|+.|| |+.-+--||
T Consensus 3 EGWmVHyT~~d-~~rKRhYWrLDsK~Itlf 31 (117)
T cd01239 3 EGWMVHYTSSD-NRRKKHYWRLDSKAITLY 31 (117)
T ss_pred cceEEEEecCc-cceeeeEEEecCCeEEEE
Confidence 58999 66544 7888999 554443444
Done!