Query psy3657
Match_columns 113
No_of_seqs 142 out of 973
Neff 7.0
Searched_HMMs 46136
Date Fri Aug 16 22:19:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3657.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3657hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0099|consensus 100.0 3.3E-29 7.2E-34 190.6 8.1 71 1-73 108-178 (379)
2 KOG0085|consensus 100.0 3.8E-29 8.1E-34 188.2 7.0 71 1-73 105-175 (359)
3 KOG0082|consensus 99.9 7.4E-28 1.6E-32 188.8 10.0 71 2-73 100-171 (354)
4 cd00066 G-alpha G protein alph 99.9 5.5E-22 1.2E-26 153.8 10.1 71 2-73 67-137 (317)
5 smart00275 G_alpha G protein a 99.9 1.8E-21 3.9E-26 152.6 10.5 69 5-73 91-160 (342)
6 PF00503 G-alpha: G-protein al 99.6 6.1E-16 1.3E-20 122.5 2.3 91 21-111 159-273 (389)
7 PF00503 G-alpha: G-protein al 97.7 4E-05 8.7E-10 60.9 3.7 49 51-102 341-389 (389)
8 PHA03260 Capsid triplex subuni 44.2 41 0.00089 26.6 4.0 39 21-67 255-293 (339)
9 KOG0085|consensus 34.5 40 0.00087 26.3 2.6 26 86-111 211-236 (359)
10 TIGR03793 TOMM_pelo TOMM prope 26.4 68 0.0015 20.0 2.3 18 27-44 7-24 (77)
11 cd04152 Arl4_Arl7 Arl4/Arl7 su 24.1 1.4E+02 0.003 20.5 3.8 32 78-109 145-178 (183)
12 PF11130 TraC_F_IV: F pilus as 22.4 1.4E+02 0.0031 21.5 3.7 39 73-112 117-159 (235)
No 1
>KOG0099|consensus
Probab=99.96 E-value=3.3e-29 Score=190.64 Aligned_cols=71 Identities=32% Similarity=0.538 Sum_probs=65.8
Q ss_pred CcHHHHHHHhcccCCCccCCCCCHHHHHHHHHhcCCHHHHHHHhhccccccccchhHHHhhHHHHhhhhhccC
Q psy3657 1 MNAIHAEKIFQFDNNTCIDSRLFSTYVDELKSLWDDVAIRQAFERRSEYQLGDSIQYFFDNWDRISRRAVKRD 73 (113)
Q Consensus 1 ~n~~~~~~i~~~~~~~~~~~~~~~~~~~~i~~LW~D~~iq~~~~r~~ef~l~Ds~~YFld~l~ri~~~~y~p~ 73 (113)
+|+..+++|+++... ++..+|+|+.+.+..||+|.||++||+|++||||.|+|+||||++++|++++|.|+
T Consensus 108 ~~~~~~dYIls~~~~--~~~~~~~Ef~dHv~~lW~D~Gv~acyeRSnEyqLiDcAqYFLd~~~~i~~~~Y~Ps 178 (379)
T KOG0099|consen 108 ENQFRVDYILSVMNS--PDFDYPPEFYDHVKTLWEDEGVRACYERSNEYQLIDCAQYFLDKIDVIKQADYVPS 178 (379)
T ss_pred ccchhHHHHHhcCCC--CcccCCHHHHHHHHHHhhhhhHHHHHhccCccchhhHHHHHHHhhheecccCCCCc
Confidence 477889999998765 45689999999999999999999999999999999999999999999999999998
No 2
>KOG0085|consensus
Probab=99.96 E-value=3.8e-29 Score=188.16 Aligned_cols=71 Identities=32% Similarity=0.587 Sum_probs=64.9
Q ss_pred CcHHHHHHHhcccCCCccCCCCCHHHHHHHHHhcCCHHHHHHHhhccccccccchhHHHhhHHHHhhhhhccC
Q psy3657 1 MNAIHAEKIFQFDNNTCIDSRLFSTYVDELKSLWDDVAIRQAFERRSEYQLGDSIQYFFDNWDRISRRAVKRD 73 (113)
Q Consensus 1 ~n~~~~~~i~~~~~~~~~~~~~~~~~~~~i~~LW~D~~iq~~~~r~~ef~l~Ds~~YFld~l~ri~~~~y~p~ 73 (113)
+|+++|..+++.+.. .. ..|...++.+|+.||.|||||+||+||+||||.||++||+.+++||+.|+|.|+
T Consensus 105 ~nk~~A~~vrevd~e-kV-ttfe~~yv~aik~LW~D~GIqeCYdRRREyqLsDSakYylsdldria~~~ylPT 175 (359)
T KOG0085|consen 105 ENKAHASLVREVDVE-KV-TTFEKRYVSAIKWLWRDPGIQECYDRRREYQLSDSAKYYLSDLDRIATPGYLPT 175 (359)
T ss_pred cchhhhhHhhhcchH-Hh-hhhhHHHHHHHHHHHhCcchHHHHHHHHHhhcchhhhHHhhhhhhhcCcccCcc
Confidence 478899999887665 33 478899999999999999999999999999999999999999999999999998
No 3
>KOG0082|consensus
Probab=99.95 E-value=7.4e-28 Score=188.80 Aligned_cols=71 Identities=31% Similarity=0.552 Sum_probs=62.8
Q ss_pred cHHHHHHHhcccCCCccC-CCCCHHHHHHHHHhcCCHHHHHHHhhccccccccchhHHHhhHHHHhhhhhccC
Q psy3657 2 NAIHAEKIFQFDNNTCID-SRLFSTYVDELKSLWDDVAIRQAFERRSEYQLGDSIQYFFDNWDRISRRAVKRD 73 (113)
Q Consensus 2 n~~~~~~i~~~~~~~~~~-~~~~~~~~~~i~~LW~D~~iq~~~~r~~ef~l~Ds~~YFld~l~ri~~~~y~p~ 73 (113)
++.++..++++... ..+ +.++++++++|++||+||+||+||+|+++|+|+||++|||++++||+.|+|.|+
T Consensus 100 ~~~d~~~~~~~~~~-~~~~~~~~~e~~~~i~~lW~d~~Iq~~~~r~~e~~l~Dsa~Yfl~~l~rI~~~~Y~PT 171 (354)
T KOG0082|consen 100 RENDAQKLTLLADA-AEELGVFSPELAEAIKELWKDPGIQACYERRREFQLNDSAKYFLENLDRISSPDYVPT 171 (354)
T ss_pred hhhHHHHHHHhhhc-ccccccCCHHHHHHHHHHHcCHHHHHHHHcCCcCCCCccHHHHHHhHHHhcCCCCCCC
Confidence 45677777765444 333 589999999999999999999999999999999999999999999999999999
No 4
>cd00066 G-alpha G protein alpha subunit. The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.
Probab=99.87 E-value=5.5e-22 Score=153.81 Aligned_cols=71 Identities=37% Similarity=0.632 Sum_probs=60.4
Q ss_pred cHHHHHHHhcccCCCccCCCCCHHHHHHHHHhcCCHHHHHHHhhccccccccchhHHHhhHHHHhhhhhccC
Q psy3657 2 NAIHAEKIFQFDNNTCIDSRLFSTYVDELKSLWDDVAIRQAFERRSEYQLGDSIQYFFDNWDRISRRAVKRD 73 (113)
Q Consensus 2 n~~~~~~i~~~~~~~~~~~~~~~~~~~~i~~LW~D~~iq~~~~r~~ef~l~Ds~~YFld~l~ri~~~~y~p~ 73 (113)
|+..++.++..... .....+++++++.|..||+|++||+||.++++|+|+|++.|||++++||++|+|.|+
T Consensus 67 ~~~~~~~i~~~~~~-~~~~~~~~~~~~~i~~lW~d~~iq~~~~~r~e~~l~d~~~yf~~~~~ri~~~~y~Pt 137 (317)
T cd00066 67 NEKDAKKILSFAPE-LEEGELPPELAEAIKELWKDPGIQACYDRRNEFQLNDSAKYFLDNLDRISDPDYIPT 137 (317)
T ss_pred hHHHHHHHHhcccc-ccccCCCHHHHHHHHHHhCCHHHHHHHHhccccccccchHHHHHhHHHHhCCCCCCC
Confidence 34455666655433 233579999999999999999999999999999999999999999999999999998
No 5
>smart00275 G_alpha G protein alpha subunit. Subunit of G proteins that contains the guanine nucleotide binding site
Probab=99.86 E-value=1.8e-21 Score=152.56 Aligned_cols=69 Identities=33% Similarity=0.514 Sum_probs=57.8
Q ss_pred HHHHHhcccCCC-ccCCCCCHHHHHHHHHhcCCHHHHHHHhhccccccccchhHHHhhHHHHhhhhhccC
Q psy3657 5 HAEKIFQFDNNT-CIDSRLFSTYVDELKSLWDDVAIRQAFERRSEYQLGDSIQYFFDNWDRISRRAVKRD 73 (113)
Q Consensus 5 ~~~~i~~~~~~~-~~~~~~~~~~~~~i~~LW~D~~iq~~~~r~~ef~l~Ds~~YFld~l~ri~~~~y~p~ 73 (113)
.++.+++..... ..+..+++++++.|..||+||+||.||.++++|+|+||+.|||++++||++|+|.|+
T Consensus 91 ~~~~~~~~~~~~~~~~~~~~~e~~~~i~~LW~D~~iq~~~~~~~~~~l~ds~~yf~~~~~ri~~~~y~Pt 160 (342)
T smart00275 91 DIRIITEQFNKTDETENVLPKEIAKAIKALWKDEGIQECYRRRNEFQLNDSASYFLDNIDRIGDPDYVPT 160 (342)
T ss_pred HHHHHhccccccccccccCCHHHHHHHHHHHCCHHHHHHHHhccccccccchhHHHHHHHHHhCCCCCCC
Confidence 455555543210 123468999999999999999999999999999999999999999999999999998
No 6
>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []. G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....
Probab=99.58 E-value=6.1e-16 Score=122.48 Aligned_cols=91 Identities=27% Similarity=0.500 Sum_probs=72.3
Q ss_pred CCCHHHHHHHHHhcCCHHHHHHHhhccccccccchhHHHhhHHHHhhhhhccCCCCCceee-eecc--------------
Q psy3657 21 RLFSTYVDELKSLWDDVAIRQAFERRSEYQLGDSIQYFFDNWDRISRRAVKRDEKKPLFHH-FTTA-------------- 85 (113)
Q Consensus 21 ~~~~~~~~~i~~LW~D~~iq~~~~r~~ef~l~Ds~~YFld~l~ri~~~~y~p~~~~~ly~~-~t~a-------------- 85 (113)
.+++++++.|..||+||+||+||+++++|+|+|++.|||++++||++++|.|+++|+|+++ .|++
T Consensus 159 ~~~~~~~~~i~~LW~D~~vq~~~~~~~~~~l~d~~~YFl~~l~RI~~~~Y~PT~~DIl~~r~~T~Gi~e~~f~~~~~~~~ 238 (389)
T PF00503_consen 159 KFPEELAEDIRSLWKDPGVQECYERRNEFQLPDNAKYFLDNLDRIAQPDYIPTDEDILRCRVKTTGITEIDFNFSGSRKF 238 (389)
T ss_dssp CHHHHHHHHHHHHHHSHHHHHHHGGGGGST--TTHHHHHTTHHHHHSTTB---HHHHHHS----SSEEEEEEEE-TTEEE
T ss_pred cCCHHHHHHHHHHHCChhHHHHHHhhhcccccccHHHHhhhhhhhcCCCccCCCCCeeeecCCCCCeeEEEEEeeccccc
Confidence 3789999999999999999999999999999999999999999999999999999999986 2222
Q ss_pred ---------ccchhHHHHHHHHHHHHHHHhhhhhc
Q psy3657 86 ---------VDTENIKIVFNAVKNTILHRNLRDLM 111 (113)
Q Consensus 86 ---------~dt~~i~~~~~~V~~~i~~~~l~~~~ 111 (113)
..+..|..+|.+|..+|+...|.+++
T Consensus 239 ~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~yd 273 (389)
T PF00503_consen 239 RLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYD 273 (389)
T ss_dssp EEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGG
T ss_pred ceecCCCCchhhhhHHHHhccccEEEEeecccchh
Confidence 35677778888887777777776654
No 7
>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []. G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....
Probab=97.68 E-value=4e-05 Score=60.89 Aligned_cols=49 Identities=39% Similarity=0.689 Sum_probs=38.8
Q ss_pred cccchhHHHhhHHHHhhhhhccCCCCCceeeeeccccchhHHHHHHHHHHHH
Q psy3657 51 LGDSIQYFFDNWDRISRRAVKRDEKKPLFHHFTTAVDTENIKIVFNAVKNTI 102 (113)
Q Consensus 51 l~Ds~~YFld~l~ri~~~~y~p~~~~~ly~~~t~a~dt~~i~~~~~~V~~~i 102 (113)
..++..|+.+.+.++... ..+.+.+|+|+|||+||++++.+|.+|+++|
T Consensus 341 ~~~~~~~i~~~f~~~~~~---~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~i 389 (389)
T PF00503_consen 341 VDSAIKFIKNKFLRLNRN---NSPSRRIYVHFTCATDTENIRKVFNAVKDII 389 (389)
T ss_dssp HHHHHHHHHHHHHCTHST---TTTCS-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhccC---CCCCcceEEEEeeecccHHHHHHHHHhcCcC
Confidence 345677888888888641 1122999999999999999999999999997
No 8
>PHA03260 Capsid triplex subunit 2; Provisional
Probab=44.21 E-value=41 Score=26.56 Aligned_cols=39 Identities=21% Similarity=0.315 Sum_probs=32.3
Q ss_pred CCCHHHHHHHHHhcCCHHHHHHHhhccccccccchhHHHhhHHHHhh
Q psy3657 21 RLFSTYVDELKSLWDDVAIRQAFERRSEYQLGDSIQYFFDNWDRISR 67 (113)
Q Consensus 21 ~~~~~~~~~i~~LW~D~~iq~~~~r~~ef~l~Ds~~YFld~l~ri~~ 67 (113)
...|.....|+.||+|+.++..|- |+...-++-+.|+.+
T Consensus 255 n~dP~tL~ei~~lw~d~~vadLf~--------Dgm~~gvd~~kr~k~ 293 (339)
T PHA03260 255 NAEPPSLDEMKGLIADAKLKMLMC--------DGMAAMVDYYKLIKQ 293 (339)
T ss_pred CCCchHHHHHHHHhcCHHHHHHHH--------HHHHHHHHHHHHHhc
Confidence 578889999999999999988774 677777788888865
No 9
>KOG0085|consensus
Probab=34.49 E-value=40 Score=26.29 Aligned_cols=26 Identities=15% Similarity=0.172 Sum_probs=23.1
Q ss_pred ccchhHHHHHHHHHHHHHHHhhhhhc
Q psy3657 86 VDTENIKIVFNAVKNTILHRNLRDLM 111 (113)
Q Consensus 86 ~dt~~i~~~~~~V~~~i~~~~l~~~~ 111 (113)
..+..|.++|.+|+++|+-..|++|+
T Consensus 211 serrKWIHCFEnvtsi~fLvaLSEYD 236 (359)
T KOG0085|consen 211 SERRKWIHCFENVTSIIFLVALSEYD 236 (359)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788999999999999999998874
No 10
>TIGR03793 TOMM_pelo TOMM propeptide domain. This model represents a domain that is conserved among a large number of putative thiazole/oxazole-modified microcins (TOMM). Oddly, most of this seqence region appears homologous to nitrile hydratase subunits. This family is expanded especially in Pelotomaculum thermopropionicum SI.
Probab=26.37 E-value=68 Score=20.04 Aligned_cols=18 Identities=28% Similarity=0.506 Sum_probs=14.7
Q ss_pred HHHHHHhcCCHHHHHHHh
Q psy3657 27 VDELKSLWDDVAIRQAFE 44 (113)
Q Consensus 27 ~~~i~~LW~D~~iq~~~~ 44 (113)
+..|.+.|+||..+..+-
T Consensus 7 a~ivarAw~Dp~Fr~~Ll 24 (77)
T TIGR03793 7 EKIIAKAWEDEAFKQALL 24 (77)
T ss_pred HHHHHHHHcCHHHHHHHH
Confidence 677899999998887653
No 11
>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.
Probab=24.13 E-value=1.4e+02 Score=20.53 Aligned_cols=32 Identities=19% Similarity=0.198 Sum_probs=25.9
Q ss_pred ceeeeeccccchhHHHHHHHHHHHHH--HHhhhh
Q psy3657 78 LFHHFTTAVDTENIKIVFNAVKNTIL--HRNLRD 109 (113)
Q Consensus 78 ly~~~t~a~dt~~i~~~~~~V~~~i~--~~~l~~ 109 (113)
.+.+.++|.+-+++..++..+.+.++ +.+|++
T Consensus 145 ~~~~~~SA~~~~gi~~l~~~l~~~l~~~~~~~~~ 178 (183)
T cd04152 145 WHVQPACAIIGEGLQEGLEKLYEMILKRRKMLRQ 178 (183)
T ss_pred eEEEEeecccCCCHHHHHHHHHHHHHHHHhhhhh
Confidence 45678999999999999999888884 666665
No 12
>PF11130 TraC_F_IV: F pilus assembly Type-IV secretion system for plasmid transfer
Probab=22.36 E-value=1.4e+02 Score=21.54 Aligned_cols=39 Identities=13% Similarity=0.142 Sum_probs=21.4
Q ss_pred CCCCCceeeeecccc----chhHHHHHHHHHHHHHHHhhhhhcC
Q psy3657 73 DEKKPLFHHFTTAVD----TENIKIVFNAVKNTILHRNLRDLML 112 (113)
Q Consensus 73 ~~~~~ly~~~t~a~d----t~~i~~~~~~V~~~i~~~~l~~~~~ 112 (113)
..-|.+++.+++.+. ++.-..-+.++++.|. ..|++.||
T Consensus 117 ~~~R~~rl~is~~~p~~~~~~~~~~~l~~~~~~~~-~~L~~~gi 159 (235)
T PF11130_consen 117 TPLRNFRLFISVKVPGSKPSEEEIEELNELRERLE-SSLRSAGI 159 (235)
T ss_pred ceeEEEEEEEEEEecCCcCCccHHHHHHHHHHHHH-HHHHHCCC
Confidence 345555555444433 4444455666666655 46666665
Done!