Query 018522
Match_columns 354
No_of_seqs 143 out of 224
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 09:43:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018522.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018522hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0781 Signal recognition par 100.0 3.3E-55 7.2E-60 436.6 17.3 305 1-353 1-316 (587)
2 PF04086 SRP-alpha_N: Signal r 100.0 2.6E-43 5.5E-48 337.1 4.2 114 27-144 1-123 (279)
3 PF09201 SRX: SRX; InterPro: 99.5 4.2E-14 9.1E-19 121.6 8.5 96 1-96 1-107 (148)
4 KOG0859 Synaptobrevin/VAMP-lik 95.6 0.11 2.3E-06 48.2 9.7 103 4-119 4-113 (217)
5 PF02881 SRP54_N: SRP54-type p 95.0 0.029 6.2E-07 43.2 3.6 37 317-353 5-41 (75)
6 PF01217 Clat_adaptor_s: Clath 92.6 1.1 2.3E-05 38.7 9.4 87 1-95 1-95 (141)
7 PF13774 Longin: Regulated-SNA 86.9 3.2 6.8E-05 32.4 7.0 50 46-101 17-66 (83)
8 PRK14974 cell division protein 68.4 5.6 0.00012 39.8 3.8 36 312-352 45-80 (336)
9 KOG4608 Uncharacterized conser 64.3 4.5 9.8E-05 38.7 2.1 117 1-122 119-247 (270)
10 KOG0862 Synaptobrevin/VAMP-lik 49.0 42 0.00091 31.7 5.7 57 55-117 57-124 (216)
11 KOG2740 Clathrin-associated pr 46.4 48 0.001 33.8 6.0 92 1-101 1-97 (418)
12 PF03164 Mon1: Trafficking pro 40.5 70 0.0015 32.9 6.4 65 4-76 13-80 (415)
13 KOG0938 Adaptor complexes medi 27.7 3.2E+02 0.007 27.9 8.3 93 1-100 1-93 (446)
14 PF04614 Pex19: Pex19 protein 26.7 33 0.00072 32.8 1.3 35 317-351 103-140 (248)
15 COG3100 Uncharacterized protei 26.0 25 0.00055 29.1 0.3 28 317-345 50-77 (103)
16 PF08565 CDC37_M: Cdc37 Hsp90 25.5 77 0.0017 28.8 3.4 56 67-123 97-165 (173)
17 KOG0324 Uncharacterized conser 24.6 51 0.0011 31.1 2.1 31 320-350 74-112 (214)
18 COG0529 CysC Adenylylsulfate k 23.2 92 0.002 29.0 3.4 73 10-90 21-93 (197)
19 KOG0937 Adaptor complexes medi 22.7 6.3E+02 0.014 26.4 9.6 103 4-114 3-110 (424)
20 KOG2542 Uncharacterized conser 20.8 83 0.0018 32.6 2.8 23 52-74 201-223 (500)
21 PF14114 DUF4286: Domain of un 20.3 3.2E+02 0.0069 22.2 5.8 39 53-102 49-87 (98)
No 1
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.3e-55 Score=436.62 Aligned_cols=305 Identities=34% Similarity=0.539 Sum_probs=199.0
Q ss_pred CcceEEEecCCcEEEeeecccCCCCCCCchHHHHHHhHhccccCCcceeeecCCCceEEEEEEecCCceEEeehhhHhhh
Q 018522 1 MLEQLLIFTRGGLILWTCKELGNALKGSPIDTLIRSCLLEERSGLASFNYDSAGAAYTLKWTFHNELGLVFVAVYQRILH 80 (354)
Q Consensus 1 MiD~f~IftkgG~VLW~~~~~~~~~~~~~iN~lI~~vlleer~~~~~~~~~~~~d~y~lkw~~~ne~~LvfVvvyq~il~ 80 (354)
|||+|+||||||+|||+|++.+..+.+ |||+||++||||||++..+|.+ +.|||+|.++|+|+|||||+||+|++
T Consensus 1 Mld~faIFtkgG~vLw~~~~~~~~~~~-~in~lI~~~ll~er~~~~~~~~----~~yTlk~q~~N~~~lvfvvvfqki~~ 75 (587)
T KOG0781|consen 1 MLDQFAIFTKGGLVLWCYQEVGDNLKG-PINALIRSVLLSERGGVNSFTF----EAYTLKYQLDNQYSLVFVVVFQKILT 75 (587)
T ss_pred CcceeeeecCCcEEEEEecccchhccc-hHHHHHHHHHHHhhcCcccCch----hheeEeeeecCCccEEEEEEEeccch
Confidence 999999999999999999999888888 9999999999999999999999 99999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHhcCCcCC--CCcchHHHHHHHHHHHHHHHHHh---hhccccccccccccccCCCccCCCCCCC
Q 018522 81 LLYVDDLLAMMKQSFSEIYDPKRT--DYSDFDEMFRQLRKEAEARAEEL---KKSKQVTKPMNNLKKQGGQLQKGGFERG 155 (354)
Q Consensus 81 l~yvd~LL~~v~~~F~~~y~~~~~--~~~~Fd~~F~~~l~e~e~~s~~~---~~~~~~~~~~~~s~k~~~~~~~~~~~~k 155 (354)
|.|+|+||++++..|+..|.+... .+-+|++.|..+|+......+.. .+.+..++.+++.++.. .
T Consensus 76 L~yv~~ll~~v~~~f~e~~~~~~~~~l~~n~~~~~~e~lk~rq~~ne~t~~k~~~pi~~~~~~~~~K~~----------~ 145 (587)
T KOG0781|consen 76 LTYVDKLLNDVLNLFREKYDTQSALSLLNNTFDFQEELLKLRQVANEATEYKIRAPITMKKSEDLEKAK----------D 145 (587)
T ss_pred hhhHHHHHHHHHHHHHHHhccchHHHhhhhhHHHHHHHHHHhhcccccchhhhcccchhhhhhcchhhh----------h
Confidence 999999999999999999987542 45567777888877655433221 11222333444444333 2
Q ss_pred CCCCCCCCCCCCCCCCCcccccccCCCCCCCCccccccccccccCCCCCCCCcchhhhhHHHHHhhcCCCCCcccccCCC
Q 018522 156 SNRSGGGSANDDGDSDNMRGRKLENGHSNVGNVEIEESRVTGVANGKENTSSNIGAFDVSKLQKLRNKGGKKTDTVVSKG 235 (354)
Q Consensus 156 ~~~s~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kl~k~~~k~~~~~~~~~~~~ 235 (354)
.+.++.+..++...++. .+..+++ ...+. +. ..++++-+..+++. ...+
T Consensus 146 ~v~~~~e~~~d~s~kk~------~nt~kng------------~~~~~-----h~-----~~~kk~~~~tkkKg---~~s~ 194 (587)
T KOG0781|consen 146 PVRSPIETNGDKSAKKK------KNTKKNG------------AKKEG-----HD-----EEFKKKHRETKKKG---NKST 194 (587)
T ss_pred hhccccccccccchhcc------cccccCC------------Ccccc-----hh-----hhhhhhhccccccc---ccCC
Confidence 23344444433332210 0111222 00110 01 11222212111111 0122
Q ss_pred CCCCCcccccccCCcCCCCC--CCCCcccCCCCCCCCCCc-cchhcccCCCcccccccc---CCCCcchhhhhhcCCCCC
Q 018522 236 SNPDPKKKITKKNRVWDDSP--PESKLDFTDPAGGNGSNI-EVEAADHGESMMDKEEVF---SSDSESEEDEEVGKHNKP 309 (354)
Q Consensus 236 ~~~~~~kK~~Kk~RvWd~~~--~~~~LDyS~~~~~~~~~~-~~~~~~~g~g~~d~~d~~---~s~~e~~~~~~~~~~~~~ 309 (354)
+.+.|++|..|++|+||+.+ +.+.||||++..++..+. ..+...+++++.+-.+.. .++++++++ +...+...
T Consensus 195 ~~~~p~kKGkk~~RvWdd~g~~d~~~ld~sss~sn~e~a~~e~vn~~~~~s~~~~~~~l~~~~~d~~~s~~-~~~~~~~~ 273 (587)
T KOG0781|consen 195 KVDAPKKKGKKAPRVWDDAGCEDEKVLDYSSSTSNGENALSETVNLDQGESMGGQLQDLDKDSSDDEGSAD-NSTDPAAT 273 (587)
T ss_pred CCCCchhhcccccchhhhccchhhcccccCCccccccchhHHHhhhhhhcccccccccccccccccccccc-cccchhhh
Confidence 33344445555599999865 788999998887443111 113333444443321111 111111111 11122233
Q ss_pred CCcccchhHHhhhhhccCcccchhchHHHHHHHHHHhhhccccC
Q 018522 310 DAKKTGWFSSMFQSIAGKANLDKADLEPALKALKDRLMTKNVVC 353 (354)
Q Consensus 310 ~~~~~G~fssmFk~lvG~K~LT~eDLePvL~kMkdhLi~KNVA~ 353 (354)
.+..+|||| ||++|||+|+|.++||.|+|++|++|||+||||+
T Consensus 274 ~k~~g~aFg-~fkglvG~K~L~eeDL~pvL~kM~ehLitKNVA~ 316 (587)
T KOG0781|consen 274 KKTVGGAFG-LFKGLVGSKSLSEEDLNPVLDKMTEHLITKNVAA 316 (587)
T ss_pred hcchhhHHH-HHHhhcccccccHhhhHHHHHHHHHHHHhhhhhH
Confidence 444567787 9999999999999999999999999999999995
No 2
>PF04086 SRP-alpha_N: Signal recognition particle, alpha subunit, N-terminal; InterPro: IPR007222 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. This entry represents the alpha subunit of the SR receptor.; GO: 0003924 GTPase activity, 0005047 signal recognition particle binding, 0005525 GTP binding, 0006184 GTP catabolic process, 0006886 intracellular protein transport, 0005785 signal recognition particle receptor complex; PDB: 2FH5_A 2GO5_1.
Probab=100.00 E-value=2.6e-43 Score=337.07 Aligned_cols=114 Identities=54% Similarity=0.848 Sum_probs=71.3
Q ss_pred CCchHHHHHHhHhccccCCcceeeecCCCceEEEEEEecCCceEEeehhhHhhhhhhHHHHHHHHHHHHHHhcCCcCC--
Q 018522 27 GSPIDTLIRSCLLEERSGLASFNYDSAGAAYTLKWTFHNELGLVFVAVYQRILHLLYVDDLLAMMKQSFSEIYDPKRT-- 104 (354)
Q Consensus 27 ~~~iN~lI~~vlleer~~~~~~~~~~~~d~y~lkw~~~ne~~LvfVvvyq~il~l~yvd~LL~~v~~~F~~~y~~~~~-- 104 (354)
++|||+||++||||||+++.+|+| |+|+|+|+|+|+|+||||||||+||||+|||+||++|+++|+++|.+.+.
T Consensus 1 ~~~in~LI~~vlleeR~~~~~~~~----d~y~lkw~~~Ne~~LvfVvvYq~il~l~yvd~LL~~v~~~F~~~y~~~l~~~ 76 (279)
T PF04086_consen 1 TSPINALIRDVLLEERSGNSSFTY----DNYTLKWTLDNELGLVFVVVYQKILQLTYVDKLLDDVKKEFVKLYKNQLKQL 76 (279)
T ss_dssp --HHHHHHHHTGGG-----------------EEEEEEETTTTEEEEEEES-GGGHHHHHHHHHHHHHHHHHHTHHHHHSS
T ss_pred CchHHHHHHHhheeeccCCCceeE----cCEEEEEEEeccCCEEEeeeecccccchHHHHHHHHHHHHHHHHHhHHhhcc
Confidence 479999999999999999999999 99999999999999999999999999999999999999999999988631
Q ss_pred -------CCcchHHHHHHHHHHHHHHHHHhhhccccccccccccccC
Q 018522 105 -------DYSDFDEMFRQLRKEAEARAEELKKSKQVTKPMNNLKKQG 144 (354)
Q Consensus 105 -------~~~~Fd~~F~~~l~e~e~~s~~~~~~~~~~~~~~~s~k~~ 144 (354)
.|++||++|+++|+++|+++...++.+..|++|+++.+++
T Consensus 77 ~~~~~~~~~~~Fd~~F~~~l~~~e~~~~~~~~~~~~~~~~~~s~k~~ 123 (279)
T PF04086_consen 77 KPNTSINEYFDFDEEFDQLLKELEARSKSQKRSPKAMRSFEESKKSK 123 (279)
T ss_dssp STHHHHT-----HHHHHHHHHHHCCCTT-------------------
T ss_pred ccccccccchhHHHHHHHHHHHHHHHhcccccccccccccccccccc
Confidence 4778999999999999999887666667899998887655
No 3
>PF09201 SRX: SRX; InterPro: IPR015284 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. This entry represents a homologue of the alpha subunit of the SR receptor. Members of this entry consist of a central six-stranded anti-parallel beta-sheet sandwiched by helix alpha1 on one side and helices alpha2-alpha4 on the other. They interact with the small GTPase SR-beta, forming a complex that matches a class of small G protein-effector complexes, including Rap-Raf, Ras-PI3K(gamma), Ras-RalGDS, and Arl2-PDE(delta) []. ; PDB: 1NRJ_A.
Probab=99.51 E-value=4.2e-14 Score=121.60 Aligned_cols=96 Identities=19% Similarity=0.349 Sum_probs=59.8
Q ss_pred CcceEEEecCCcEEEeeecccCCCCCCCchHHHHHHhHhccccCC---cceeee------cCCCceEEEEEEecCCceEE
Q 018522 1 MLEQLLIFTRGGLILWTCKELGNALKGSPIDTLIRSCLLEERSGL---ASFNYD------SAGAAYTLKWTFHNELGLVF 71 (354)
Q Consensus 1 MiD~f~IftkgG~VLW~~~~~~~~~~~~~iN~lI~~vlleer~~~---~~~~~~------~~~d~y~lkw~~~ne~~Lvf 71 (354)
|||||+|||++|.||++|+|.++++.+.+||++|++.|.++-+.. ..|.+. ++.++++.+|+..++++|+|
T Consensus 1 MfdQlaIFTpqGqvLyqyN~~gKKFsE~QiN~FIs~lItsP~~~~e~~~~~k~~~i~s~~~~~~~f~~mfh~sKQPeLy~ 80 (148)
T PF09201_consen 1 MFDQLAIFTPQGQVLYQYNCLGKKFSETQINAFISHLITSPVTKKEDSSKSKFLTISSEKKNSRSFSAMFHISKQPELYY 80 (148)
T ss_dssp ---EEEEE-TT-BEEEEEETTS----HHHHHHHHHHHHHS---GGGTT--EEEEE-----------EEEEEEETTTTEEE
T ss_pred CcceeEEeccCceEEEEecccchHHHHHHHHHHHHHHhcCCCcccCCCcceeeEEecccccCCCChheeeeecCCCcEEE
Confidence 999999999999999999999999999999999999999986432 234333 56789999999999999999
Q ss_pred eehhhH-hhhhh-hHHHHHHHHHHHHH
Q 018522 72 VAVYQR-ILHLL-YVDDLLAMMKQSFS 96 (354)
Q Consensus 72 Vvvyq~-il~l~-yvd~LL~~v~~~F~ 96 (354)
||.|.. -|+|. =..+-|+..-.++-
T Consensus 81 VvTyaeqsleLn~EAe~~L~lal~LWd 107 (148)
T PF09201_consen 81 VVTYAEQSLELNQEAEQTLDLALKLWD 107 (148)
T ss_dssp EEEESS--HHHHHHHHHHHHHHHHHHH
T ss_pred EEEeccccchhhHHHHHHHHHHHHHHh
Confidence 999954 22232 34455555555543
No 4
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.57 E-value=0.11 Score=48.23 Aligned_cols=103 Identities=19% Similarity=0.310 Sum_probs=65.8
Q ss_pred eEEEecCCcEEEeeecccCCCCCCCchHHHHHHhHhccccCC----cceeeecCCCceEEEEEEecCCceEEeehhhHhh
Q 018522 4 QLLIFTRGGLILWTCKELGNALKGSPIDTLIRSCLLEERSGL----ASFNYDSAGAAYTLKWTFHNELGLVFVAVYQRIL 79 (354)
Q Consensus 4 ~f~IftkgG~VLW~~~~~~~~~~~~~iN~lI~~vlleer~~~----~~~~~~~~~d~y~lkw~~~ne~~LvfVvvyq~il 79 (354)
.++++.+|-+||=.++... ..+.+ |-..+||.-.++ -+|.+ |+|+++|...|.|-...|+.=----
T Consensus 4 iYs~VARGTvvLaeft~~~-gNf~s-----va~qiL~klp~~~n~k~tYs~----d~y~Fh~l~~dg~tylcvadds~gR 73 (217)
T KOG0859|consen 4 IYSFVARGTVILAEFTEFS-GNFSS-----IAAQILQKLPSSSNSKFTYSC----DGYTFHYLVEDGLTYLCVADDSAGR 73 (217)
T ss_pred eEEEEecceEEEEeeeecc-CCHHH-----HHHHHHHhCCCCCCCceEEec----CCeEEEEEEeCCeEEEEEEeccccc
Confidence 4677889888886544331 22222 333344443222 26888 9999999999987544444322222
Q ss_pred hhhhHHHHHHHHHHHHHHhcCCcCC---CCcchHHHHHHHHHH
Q 018522 80 HLLYVDDLLAMMKQSFSEIYDPKRT---DYSDFDEMFRQLRKE 119 (354)
Q Consensus 80 ~l~yvd~LL~~v~~~F~~~y~~~~~---~~~~Fd~~F~~~l~e 119 (354)
+.++ .||++||..|.+.|+-... .| ..++.|-++|++
T Consensus 74 ~ipf--aFLe~Ik~~F~k~YG~~a~ta~Ay-smN~EFs~vL~q 113 (217)
T KOG0859|consen 74 QIPF--AFLERIKEDFKKRYGGGAHTAVAY-SMNKEFSSVLKQ 113 (217)
T ss_pred cccH--HHHHHHHHHHHHHhccchhHHHHh-HhHHHHHHHHHH
Confidence 3333 4899999999999987643 35 577788887754
No 5
>PF02881 SRP54_N: SRP54-type protein, helical bundle domain; InterPro: IPR013822 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the N-terminal helical bundle domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 1J8M_F 1J8Y_F 2J37_W 2OG2_A 3B9Q_A 2V3C_C 3NDB_B 1ZU5_B 1ZU4_A 1WGW_A ....
Probab=94.98 E-value=0.029 Score=43.23 Aligned_cols=37 Identities=27% Similarity=0.477 Sum_probs=34.0
Q ss_pred hHHhhhhhccCcccchhchHHHHHHHHHHhhhccccC
Q 018522 317 FSSMFQSIAGKANLDKADLEPALKALKDRLMTKNVVC 353 (354)
Q Consensus 317 fssmFk~lvG~K~LT~eDLePvL~kMkdhLi~KNVA~ 353 (354)
|++.+++++|+..+++.+++++|+.|++.||..+|+.
T Consensus 5 l~kt~~~l~~~~~~~~~~i~~~l~ele~~Li~aDVg~ 41 (75)
T PF02881_consen 5 LSKTFKKLSGSIFLTEKDIEEFLEELEEALIEADVGV 41 (75)
T ss_dssp HHHHHHHHHCCSSCTHHHHHHHHHHHHHHHHHTTTSH
T ss_pred HHHHHHHHhCcccccHHhHHHHHHHHHHHHHHcCcCH
Confidence 5668999999988999999999999999999999973
No 6
>PF01217 Clat_adaptor_s: Clathrin adaptor complex small chain; InterPro: IPR022775 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the small sigma and mu subunits of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and the zeta and delta subunits of various coatomer (COP) adaptors. The small sigma subunit of AP proteins have been characterised in several species [, , , ]. The sigma subunit plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The zeta subunit of coatomers (zeta-COP) is required for coatomer binding to Golgi membranes and for coat-vesicle assembly [, ]. More information about these proteins can be found at Protein of the Month: Clathrin [].; PDB: 1W63_W 2JKR_I 2VGL_S 2JKT_I 2XA7_S 2HF6_A 3TJZ_C.
Probab=92.62 E-value=1.1 Score=38.69 Aligned_cols=87 Identities=18% Similarity=0.320 Sum_probs=57.7
Q ss_pred CcceEEEecCCcEEEeeecccCCCCCCCchHHHHHHhH--hcccc--CCcceeeecCCCceEEEEEEecCCceEEeeh--
Q 018522 1 MLEQLLIFTRGGLILWTCKELGNALKGSPIDTLIRSCL--LEERS--GLASFNYDSAGAAYTLKWTFHNELGLVFVAV-- 74 (354)
Q Consensus 1 MiD~f~IftkgG~VLW~~~~~~~~~~~~~iN~lI~~vl--leer~--~~~~~~~~~~~d~y~lkw~~~ne~~LvfVvv-- 74 (354)
||..+.|++..|-+|.++.+. .....-...+++.+. +..|. ....+.+ +++.+=|+..++ |+|+++
T Consensus 1 MI~~i~i~n~~G~~i~~k~y~--~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~----~~~~~vy~~~~d--l~~~~v~~ 72 (141)
T PF01217_consen 1 MIKAILILNSQGKRILSKYYR--DVSEEERQKLFEKFIKKKSSRNSKQSPIFEH----DNYRIVYKRYSD--LYFVVVGD 72 (141)
T ss_dssp SEEEEEEEETTSEEEEEEESS--TSTSHHHHHHHHHHHHHHHTSSSSSTSEEEE----TTEEEEEEEETT--EEEEEEES
T ss_pred CEEEEEEEcCCCCEEEehhcC--CccHHHHHHHHHHHHHHHHhcccccceeeec----ccceeeeEeecc--EEEEEEee
Confidence 999999999999999987775 344444455555543 22232 2346788 999999998875 455554
Q ss_pred --hhHhhhhhhHHHHHHHHHHHH
Q 018522 75 --YQRILHLLYVDDLLAMMKQSF 95 (354)
Q Consensus 75 --yq~il~l~yvd~LL~~v~~~F 95 (354)
+-.++-+.++..|++.+...|
T Consensus 73 ~~eNel~~~e~l~~~v~~l~~~~ 95 (141)
T PF01217_consen 73 ENENELLLLEFLHRLVEVLDDYF 95 (141)
T ss_dssp STSBHHHHHHHHHHHHHHHHHHH
T ss_pred cccchHHHHHHHHHhhhhhhhhh
Confidence 455665666666665555544
No 7
>PF13774 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3BW6_A 1H8M_A 3EGX_C 2NUP_C 3EGD_C 2NUT_C 3KYQ_A 1IFQ_B 2VX8_D ....
Probab=86.94 E-value=3.2 Score=32.42 Aligned_cols=50 Identities=16% Similarity=0.331 Sum_probs=37.9
Q ss_pred cceeeecCCCceEEEEEEecCCceEEeehhhHhhhhhhHHHHHHHHHHHHHHhcCC
Q 018522 46 ASFNYDSAGAAYTLKWTFHNELGLVFVAVYQRILHLLYVDDLLAMMKQSFSEIYDP 101 (354)
Q Consensus 46 ~~~~~~~~~d~y~lkw~~~ne~~LvfVvvyq~il~l~yvd~LL~~v~~~F~~~y~~ 101 (354)
.+|.+ ++|.++|... =+|+|+++=-+-..-.-.=.||++|+..|...|..
T Consensus 17 ~s~~~----~~~~fh~~~~--~~i~~~citd~~~~~r~aF~fL~~i~~~F~~~~~~ 66 (83)
T PF13774_consen 17 MSYES----GNYVFHYLVE--DGIAYLCITDKSYPKRVAFAFLEEIKQEFIQTYGG 66 (83)
T ss_dssp EEEEE----TTEEEEEEEE--TTEEEEEEEETTS-HHHHHHHHHHHHHHHHHHCTT
T ss_pred EEEEE----CCEEEEEEEc--CCeEEEEEEcCCCCcchHHHHHHHHHHHHHHHcCc
Confidence 47888 9999999884 45788887544445555567888899999999984
No 8
>PRK14974 cell division protein FtsY; Provisional
Probab=68.38 E-value=5.6 Score=39.80 Aligned_cols=36 Identities=25% Similarity=0.477 Sum_probs=29.8
Q ss_pred cccchhHHhhhhhccCcccchhchHHHHHHHHHHhhhcccc
Q 018522 312 KKTGWFSSMFQSIAGKANLDKADLEPALKALKDRLMTKNVV 352 (354)
Q Consensus 312 ~~~G~fssmFk~lvG~K~LT~eDLePvL~kMkdhLi~KNVA 352 (354)
...|||+.+... .|+++|+++.|+.++..|+..+|+
T Consensus 45 ~~~~~~~~~~~~-----~~~~~~~~~~l~~l~~~Ll~~dv~ 80 (336)
T PRK14974 45 EKPGFFDKAKIT-----EIKEKDIEDLLEELELELLESDVA 80 (336)
T ss_pred cccCHHHHHHhc-----ccCHHHHHHHHHHHHHHHHHCCCC
Confidence 456888855433 399999999999999999999987
No 9
>KOG4608 consensus Uncharacterized conserved protein [Function unknown]
Probab=64.32 E-value=4.5 Score=38.70 Aligned_cols=117 Identities=23% Similarity=0.167 Sum_probs=78.4
Q ss_pred CcceEEE-ecCCcEEEeeecccCCCCCCCchHHHHHHhHhccccCCcceeeecCCCceE--------EEEEEecCC-c--
Q 018522 1 MLEQLLI-FTRGGLILWTCKELGNALKGSPIDTLIRSCLLEERSGLASFNYDSAGAAYT--------LKWTFHNEL-G-- 68 (354)
Q Consensus 1 MiD~f~I-ftkgG~VLW~~~~~~~~~~~~~iN~lI~~vlleer~~~~~~~~~~~~d~y~--------lkw~~~ne~-~-- 68 (354)
|+|+|.. |+|||.. |-+.++ ++...++.|+ .+|-.=|...+.|.++..|..-. |+|...+-+ +
T Consensus 119 ~~d~air~farGgf~-~G~R~a---lfttSff~l~-t~l~vyRgk~a~~~fvaaga~tgsvF~~~~gL~g~aa~vilG~~ 193 (270)
T KOG4608|consen 119 AHDAAIRGFARGGFR-WGWRTA---LFTTSFFTLN-TSLNVYRGKDALSHFVAAGAVTGSVFRINVGLRGLAAGVILGAL 193 (270)
T ss_pred HHHHHHHHHhhcccc-ceeEEe---eehhhHHHHH-HHHHHHcCchhhhhhhccccceeeeEEeehhhHHHhhcceeehh
Confidence 6788888 9999975 444443 5777777665 56667788777776663333222 344444322 1
Q ss_pred eEEeehhhHhhhhhhHHHHHHHHHHHHHHhcCCcCCCCcchHHHHHHHHHHHHH
Q 018522 69 LVFVAVYQRILHLLYVDDLLAMMKQSFSEIYDPKRTDYSDFDEMFRQLRKEAEA 122 (354)
Q Consensus 69 LvfVvvyq~il~l~yvd~LL~~v~~~F~~~y~~~~~~~~~Fd~~F~~~l~e~e~ 122 (354)
|=-+|..--.|--.|+++=.+..+++|..-|+-.+..-.+++.-|.+++++.+-
T Consensus 194 lG~tv~~~l~l~q~a~~k~vnE~~~l~~~dyk~~l~vts~~~~aie~L~q~e~~ 247 (270)
T KOG4608|consen 194 LGTTVGGLLMLFQKASGKTVNERKQLKLEDYKGRLQVTSHLPEAIESLLQEEEP 247 (270)
T ss_pred hcchHHHHHHHHHHHhCCcHHHHHHHHHHhhccccccccchHHHHHHHHHHhCc
Confidence 112344555555678999999999999999987766666799999999976553
No 10
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=49.04 E-value=42 Score=31.71 Aligned_cols=57 Identities=18% Similarity=0.565 Sum_probs=39.7
Q ss_pred CceEEEEEEecCCceEEeeh----hhHhhhhhhHHHHHHHHHHHHHHhcCCcC-----C--CCcchHHHHHHHH
Q 018522 55 AAYTLKWTFHNELGLVFVAV----YQRILHLLYVDDLLAMMKQSFSEIYDPKR-----T--DYSDFDEMFRQLR 117 (354)
Q Consensus 55 d~y~lkw~~~ne~~LvfVvv----yq~il~l~yvd~LL~~v~~~F~~~y~~~~-----~--~~~~Fd~~F~~~l 117 (354)
+.|.++|...+. ++|.|+ |++-|-.+|+++ +..+|.+.|.... . .|-.||..-+++-
T Consensus 57 g~f~fHfli~~~--Vcylvicd~~yP~kLAF~YLed----L~~EF~~~~~~~~~~~~~RPY~FieFD~~IQk~K 124 (216)
T KOG0862|consen 57 GPFVFHFLIESG--VCYLVICDKSYPRKLAFSYLED----LAQEFDKSYGKNIIQPASRPYAFIEFDTFIQKTK 124 (216)
T ss_pred CCeEEEEEecCC--EEEEEEecCCCcHHHHHHHHHH----HHHHHHHhcccccCCccCCCeeEEehhHHHHHHH
Confidence 678888887665 455554 999999999776 4667777776643 2 4667887766554
No 11
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.45 E-value=48 Score=33.81 Aligned_cols=92 Identities=17% Similarity=0.179 Sum_probs=60.4
Q ss_pred CcceEEEecCCcEEEeeecccCCCCCCCchHHHHHHhHhcccc-----CCcceeeecCCCceEEEEEEecCCceEEeehh
Q 018522 1 MLEQLLIFTRGGLILWTCKELGNALKGSPIDTLIRSCLLEERS-----GLASFNYDSAGAAYTLKWTFHNELGLVFVAVY 75 (354)
Q Consensus 1 MiD~f~IftkgG~VLW~~~~~~~~~~~~~iN~lI~~vlleer~-----~~~~~~~~~~~d~y~lkw~~~ne~~LvfVvvy 75 (354)
||..|.++...|-+|.++...+ ..+..-|-+.|.|.-. .+..+.+ + -...+-+...++ +++|+++-
T Consensus 1 mi~siflidtsg~l~lek~~~g-----~t~~rsic~~f~e~~~~~~~~e~~ppvi-~--~p~hylfsv~~~-~i~~~~~s 71 (418)
T KOG2740|consen 1 MILSIFLIDTSGDLLLEKHLKG-----STVVRSICDYFFEDQSSDDDLEHVPPVI-S--TPHHYLFSVYRD-LIFFCAVS 71 (418)
T ss_pred CeeEEEEEcCCchhhhhHhhCC-----ceeeeehHHHHHHhhhhccccccCCcee-c--CCceeeeeeecc-CcEEEEEE
Confidence 8899999999999998755443 4444445555555422 2222222 0 112223333333 37788888
Q ss_pred hHhhhhhhHHHHHHHHHHHHHHhcCC
Q 018522 76 QRILHLLYVDDLLAMMKQSFSEIYDP 101 (354)
Q Consensus 76 q~il~l~yvd~LL~~v~~~F~~~y~~ 101 (354)
|.=-.-.|+-+||..|-..|.+.|+.
T Consensus 72 t~e~pPL~~iefL~rv~dv~~eyFg~ 97 (418)
T KOG2740|consen 72 TVETPPLMVIEFLHRVVDVLLEYFGG 97 (418)
T ss_pred eccCCChhHHHHHHHHHHHHHHHhcc
Confidence 88888999999999999999999974
No 12
>PF03164 Mon1: Trafficking protein Mon1; InterPro: IPR004353 Members of this family have been called SAND proteins [] although these proteins do not contain a SAND domain. In Saccharomyces cerevisiae a protein complex of Mon1 and Ccz1 functions with the small GTPase Ypt7 to mediate vesicle trafficking to the vacuole [, ]. The Mon1/Ccz1 complex is conserved in eukaryotic evolution and members of this family (previously known as DUF254) are distant homologues to domains of known structure that assemble into cargo vesicle adapter (AP) complexes [, ].
Probab=40.50 E-value=70 Score=32.86 Aligned_cols=65 Identities=17% Similarity=0.184 Sum_probs=41.5
Q ss_pred eEEEecCCcEEEeeecccCCC--CCCCchHHHHHHhHhccccCC-cceeeecCCCceEEEEEEecCCceEEeehhh
Q 018522 4 QLLIFTRGGLILWTCKELGNA--LKGSPIDTLIRSCLLEERSGL-ASFNYDSAGAAYTLKWTFHNELGLVFVAVYQ 76 (354)
Q Consensus 4 ~f~IftkgG~VLW~~~~~~~~--~~~~~iN~lI~~vlleer~~~-~~~~~~~~~d~y~lkw~~~ne~~LvfVvvyq 76 (354)
||.|||.-|-++|++...... .....+.+||+-+ ++.... ..+.. ++ .+..|.+.-.|+||+|-.
T Consensus 13 h~fIlS~AGKPIysr~G~e~~l~~~~g~~~aiiS~~--~~~~d~l~~i~~----~~--~~ivfl~r~pl~lv~vS~ 80 (415)
T PF03164_consen 13 HFFILSSAGKPIYSRYGDEDKLSSLMGVIQAIISFF--QSNGDELRSIRA----GD--HRIVFLNRGPLILVAVSK 80 (415)
T ss_pred eEEEECCCCceeEEecCChHHHHHHHHHHHHHHHHH--HhCCCcEEEEEe----CC--EEEEEEecCCEEEEEEcC
Confidence 688999999999986533211 1334577888644 333321 23333 44 367777888899999843
No 13
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.66 E-value=3.2e+02 Score=27.89 Aligned_cols=93 Identities=16% Similarity=0.158 Sum_probs=63.3
Q ss_pred CcceEEEecCCcEEEeeecccCCCCCCCchHHHHHHhHhccccCCcceeeecCCCceEEEEEEecCCceEEeehhhHhhh
Q 018522 1 MLEQLLIFTRGGLILWTCKELGNALKGSPIDTLIRSCLLEERSGLASFNYDSAGAAYTLKWTFHNELGLVFVAVYQRILH 80 (354)
Q Consensus 1 MiD~f~IftkgG~VLW~~~~~~~~~~~~~iN~lI~~vlleer~~~~~~~~~~~~d~y~lkw~~~ne~~LvfVvvyq~il~ 80 (354)
||--+.||.--|-||-+.++-. .+..+.++.+=-+||-..-...-.-++ ++-++.|.-. =+|+.|++-..--+
T Consensus 1 misglfi~n~rGevlink~fr~-dlkrs~~diFRv~vi~n~d~r~PV~~i----gsttf~~~r~--~nl~lvaitksN~N 73 (446)
T KOG0938|consen 1 MISGLFIYNLRGEVLINKTFRD-DLKRSIVDIFRVQVINNLDVRSPVLTI----GSTTFHHIRS--SNLWLVAITKSNAN 73 (446)
T ss_pred CcceEEEEeccCcEEEehhhhh-hhhhhHHHHHHHhhhhccccCCCeeEe----cceeEEEEee--ccEEEEEEecCCCc
Confidence 8888999999999999877663 678888887755555443111112334 4444444443 46788888877777
Q ss_pred hhhHHHHHHHHHHHHHHhcC
Q 018522 81 LLYVDDLLAMMKQSFSEIYD 100 (354)
Q Consensus 81 l~yvd~LL~~v~~~F~~~y~ 100 (354)
..-+=+||..+.+.|...|+
T Consensus 74 va~v~eFl~kl~avm~aYfg 93 (446)
T KOG0938|consen 74 VAAVFEFLYKLDAVMNAYFG 93 (446)
T ss_pred hhhHHHHHHHHHHHHHHHhc
Confidence 77777888777777777776
No 14
>PF04614 Pex19: Pex19 protein family; InterPro: IPR006708 Peroxisome(s) form an intracellular compartment, bounded by a typical lipid bilayer membrane. Peroxisome functions are often specialised by organism and cell type; two widely distributed and well-conserved functions are H2O2-based respiration and fatty acid beta-oxidation. Other functions include ether lipid (plasmalogen) synthesis and cholesterol synthesis in animals, the glyoxylate cycle in germinating seeds ("glyoxysomes"), photorespiration in leaves, glycolysis in trypanosomes ("glycosomes"), and methanol and/or amine oxidation and assimilation in some yeasts. PEX genes encode the machinery ("peroxins") required to assemble the peroxisome. Membrane assembly and maintenance requires three of these (peroxins 3, 16, and 19) and may occur without the import of the matrix (lumen) enzymes. Matrix protein import follows a branched pathway of soluble recycling receptors, with one branch for each class of peroxisome targeting sequence (two are well characterised), and a common trunk for all. At least one of these receptors, Pex5p, enters and exits peroxisomes as it functions. Proliferation of the organelle is regulated by Pex11p. Peroxisome biogenesis is remarkably conserved among eukaryotes. A group of fatal, inherited neuropathologies are recognised as peroxisome biogenesis diseases. ; GO: 0005777 peroxisome; PDB: 2WL8_B 2W85_B.
Probab=26.71 E-value=33 Score=32.82 Aligned_cols=35 Identities=17% Similarity=0.469 Sum_probs=13.1
Q ss_pred hHHhhhhhccCc---ccchhchHHHHHHHHHHhhhccc
Q 018522 317 FSSMFQSIAGKA---NLDKADLEPALKALKDRLMTKNV 351 (354)
Q Consensus 317 fssmFk~lvG~K---~LT~eDLePvL~kMkdhLi~KNV 351 (354)
|+.||..+.+.- --..++|.++|..|-++|++|-|
T Consensus 103 l~~ll~~m~~~~~~~~~~~~~~~~~l~~mm~qL~SKev 140 (248)
T PF04614_consen 103 LAQLLKQMGGGGDGGGGGDEDFDKMLQGMMQQLLSKEV 140 (248)
T ss_dssp ----------------------HHHHHHHHHHHTSHHH
T ss_pred HHHHHHHHhccccccCCCchhHHHHHHHHHHHhccHhh
Confidence 344555554432 34667888888888888888865
No 15
>COG3100 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.97 E-value=25 Score=29.08 Aligned_cols=28 Identities=25% Similarity=0.504 Sum_probs=24.9
Q ss_pred hHHhhhhhccCcccchhchHHHHHHHHHH
Q 018522 317 FSSMFQSIAGKANLDKADLEPALKALKDR 345 (354)
Q Consensus 317 fssmFk~lvG~K~LT~eDLePvL~kMkdh 345 (354)
|- |.-+|.|.|.|-.+|++.|++.|.++
T Consensus 50 ~v-m~l~L~~rk~L~n~dv~kV~~~i~~Q 77 (103)
T COG3100 50 LV-MMLNLDGRKKLVNADVEKVKQAIEEQ 77 (103)
T ss_pred EE-EEeccchhHHHHHhhHHHHHHHHHhc
Confidence 55 77899999999999999999998763
No 16
>PF08565 CDC37_M: Cdc37 Hsp90 binding domain; InterPro: IPR013874 Cdc37 is a molecular chaperone required for the activity of numerous eukaryotic protein kinases. This entry corresponds to the Hsp90 chaperone (heat shock protein 90) binding domain of Cdc37 []. It is found between the N-terminal Cdc37 domain IPR013855 from INTERPRO, which is predominantly involved in kinase binding, and the C-terminal domain of Cdc37 IPR013873 from INTERPRO whose function is unclear. ; PDB: 1US7_B 2W0G_A 2K5B_B.
Probab=25.52 E-value=77 Score=28.80 Aligned_cols=56 Identities=18% Similarity=0.304 Sum_probs=35.1
Q ss_pred CceEEeehhhHhhhhhhHHHHH-------HHHHHHHHHhcCC-cCC----CCc-chHHHHHHHHHHHHHH
Q 018522 67 LGLVFVAVYQRILHLLYVDDLL-------AMMKQSFSEIYDP-KRT----DYS-DFDEMFRQLRKEAEAR 123 (354)
Q Consensus 67 ~~LvfVvvyq~il~l~yvd~LL-------~~v~~~F~~~y~~-~~~----~~~-~Fd~~F~~~l~e~e~~ 123 (354)
-.+..-+|||.+| |.||-+|= .++-..|-.++.. ... .|. ++...|.+|...++..
T Consensus 97 ~~~~~q~vhQsll-Lqyi~eLak~~~~~pr~~v~~FF~r~~~~~~~~~~~~F~~dv~~~~~rIk~Ra~~~ 165 (173)
T PF08565_consen 97 HELARQVVHQSLL-LQYIRELAKSLKRDPRDGVRLFFKRIKTPGHPEAKKVFEDDVEAFYERIKERAKEK 165 (173)
T ss_dssp HHHHHHHHHHHHH-HHHHHHHHHHHTS-GGGCHHHHHHHHTT-SSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH-HHHHHHHHhcCCCChhhHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467788999877 89999987 5666666555544 221 222 3566666666555544
No 17
>KOG0324 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.61 E-value=51 Score=31.10 Aligned_cols=31 Identities=35% Similarity=0.575 Sum_probs=26.5
Q ss_pred hhhhh-ccCcccchhchHHHHHHHHH-------Hhhhcc
Q 018522 320 MFQSI-AGKANLDKADLEPALKALKD-------RLMTKN 350 (354)
Q Consensus 320 mFk~l-vG~K~LT~eDLePvL~kMkd-------hLi~KN 350 (354)
+-++| +|.-.++++|++-.|+.|-+ |||+||
T Consensus 74 fr~sI~lG~Td~~~~~v~~~le~L~~ey~G~~YhL~~kN 112 (214)
T KOG0324|consen 74 FRKSILLGSTDLTEDDVRRILEELSEEYRGNSYHLLTKN 112 (214)
T ss_pred eeEEEEecCCCCCHHHHHHHHHHHHhhcCCceehhhhhc
Confidence 33544 69999999999999999976 999999
No 18
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=23.21 E-value=92 Score=29.00 Aligned_cols=73 Identities=18% Similarity=0.290 Sum_probs=45.6
Q ss_pred CCcEEEeeecccCCCCCCCchHHHHHHhHhccccCCcceeeecCCCceEEEEEEecCCceEEeehhhHhhhhhhHHHHHH
Q 018522 10 RGGLILWTCKELGNALKGSPIDTLIRSCLLEERSGLASFNYDSAGAAYTLKWTFHNELGLVFVAVYQRILHLLYVDDLLA 89 (354)
Q Consensus 10 kgG~VLW~~~~~~~~~~~~~iN~lI~~vlleer~~~~~~~~~~~~d~y~lkw~~~ne~~LvfVvvyq~il~l~yvd~LL~ 89 (354)
..|.||| ++..+..-+.+.-|+|=+..+-. |-..|.+ |+=.++..|..+++.-=--=-..|..+.+|-+||.
T Consensus 21 ~~~~viW-~TGLSGsGKSTiA~ale~~L~~~---G~~~y~L----DGDnvR~gL~~dLgFs~edR~eniRRvaevAkll~ 92 (197)
T COG0529 21 QKGAVIW-FTGLSGSGKSTIANALEEKLFAK---GYHVYLL----DGDNVRHGLNRDLGFSREDRIENIRRVAEVAKLLA 92 (197)
T ss_pred CCCeEEE-eecCCCCCHHHHHHHHHHHHHHc---CCeEEEe----cChhHhhcccCCCCCChHHHHHHHHHHHHHHHHHH
Confidence 4589999 55443333555566666665544 4457999 88888999988877522222345555566555554
Q ss_pred H
Q 018522 90 M 90 (354)
Q Consensus 90 ~ 90 (354)
+
T Consensus 93 d 93 (197)
T COG0529 93 D 93 (197)
T ss_pred H
Confidence 3
No 19
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.67 E-value=6.3e+02 Score=26.38 Aligned_cols=103 Identities=16% Similarity=0.170 Sum_probs=69.1
Q ss_pred eEEEecCCcEEEeeecccCCCCCCCchHHHHHHhHhccccCC--c-ceeeecCCCceEEEEEEecCCceEEeehhhHhhh
Q 018522 4 QLLIFTRGGLILWTCKELGNALKGSPIDTLIRSCLLEERSGL--A-SFNYDSAGAAYTLKWTFHNELGLVFVAVYQRILH 80 (354)
Q Consensus 4 ~f~IftkgG~VLW~~~~~~~~~~~~~iN~lI~~vlleer~~~--~-~~~~~~~~d~y~lkw~~~ne~~LvfVvvyq~il~ 80 (354)
+|.|..-+|-||-++.+.+ .+.-+.+..+.+..+=.| .++ . ...+ ++-+..|--++ +|++|+++..-..
T Consensus 3 a~fild~~G~~lisr~yr~-dv~~s~~~~F~~~l~~~e-~~~~~~p~l~~----~g~~~~~ik~s--~lylv~~~~~n~~ 74 (424)
T KOG0937|consen 3 AVFILDHKGEVLISRDYRG-DVPMSSTEKFFRKLFEKE-EGDESPPFLVH----DGSRFIHIKHS--NLYLVAGTRPNVS 74 (424)
T ss_pred eEEEEcCCCcEeEeecccc-cCChhhhhhHHHHHhhhc-ccCCCCCeEEe----CCceEEEEeec--ceEEEEEeccCCC
Confidence 5678888899999888875 466778889998333333 322 2 3566 66655665555 4677888866666
Q ss_pred hhhHHHHHHHHHHHHHHhcCCcC--CCCcchHHHHH
Q 018522 81 LLYVDDLLAMMKQSFSEIYDPKR--TDYSDFDEMFR 114 (354)
Q Consensus 81 l~yvd~LL~~v~~~F~~~y~~~~--~~~~~Fd~~F~ 114 (354)
..-+-.||-.+...|.+.+...- ..-.+|.-.|+
T Consensus 75 a~~v~~~l~~~~~v~~~y~~~l~e~si~~n~vlvyE 110 (424)
T KOG0937|consen 75 AALVLSFLYAVADVFGDYLSELEEESIRDNFVLVYE 110 (424)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCccceecchHHHHH
Confidence 77777889999999999887432 12334555553
No 20
>KOG2542 consensus Uncharacterized conserved protein (YdiU family) [Function unknown]
Probab=20.76 E-value=83 Score=32.56 Aligned_cols=23 Identities=9% Similarity=0.180 Sum_probs=18.9
Q ss_pred cCCCceEEEEEEecCCceEEeeh
Q 018522 52 SAGAAYTLKWTFHNELGLVFVAV 74 (354)
Q Consensus 52 ~~~d~y~lkw~~~ne~~LvfVvv 74 (354)
++-+..+.+|.+.|+++++.--.
T Consensus 201 pNhdD~~gRYsyanQPdIi~WNL 223 (500)
T KOG2542|consen 201 PNHDDNTGRYSYANQPDIIRWNL 223 (500)
T ss_pred CCCCCcccceeecCCCceeeehH
Confidence 56688899999999999987443
No 21
>PF14114 DUF4286: Domain of unknown function (DUF4286)
Probab=20.32 E-value=3.2e+02 Score=22.18 Aligned_cols=39 Identities=15% Similarity=0.332 Sum_probs=32.3
Q ss_pred CCCceEEEEEEecCCceEEeehhhHhhhhhhHHHHHHHHHHHHHHhcCCc
Q 018522 53 AGAAYTLKWTFHNELGLVFVAVYQRILHLLYVDDLLAMMKQSFSEIYDPK 102 (354)
Q Consensus 53 ~~d~y~lkw~~~ne~~LvfVvvyq~il~l~yvd~LL~~v~~~F~~~y~~~ 102 (354)
+|-.|+++|.+.+.-+| ..|..+....++.+-.++|+.+
T Consensus 49 ~g~tysvQy~~~s~e~l-----------~~y~~~~~~~l~~e~~~~Fg~k 87 (98)
T PF14114_consen 49 GGKTYSVQYEVESMEDL-----------ERYYEEHAPKLREEGSKKFGDK 87 (98)
T ss_pred CCeEEEEEEEECCHHHH-----------HHHHHHHHHHHHHHHHHHhCCe
Confidence 36689999999998888 7788888888888888888764
Done!