Query 042186
Match_columns 57
No_of_seqs 100 out of 382
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 03:40:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042186.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042186hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5030 APS2 Clathrin adaptor 99.9 6.9E-29 1.5E-33 162.2 1.5 56 1-56 84-141 (152)
2 KOG0935 Clathrin adaptor compl 99.9 3.4E-29 7.4E-34 161.6 -0.9 57 1-57 85-143 (143)
3 KOG0934 Clathrin adaptor compl 99.9 2.8E-28 6E-33 158.6 -1.0 56 1-56 84-141 (145)
4 KOG0936 Clathrin adaptor compl 99.9 1.2E-25 2.7E-30 149.6 1.6 56 1-56 90-147 (182)
5 PF01217 Clat_adaptor_s: Clath 99.7 8.1E-18 1.8E-22 105.1 1.2 56 1-56 84-141 (141)
6 KOG2740 Clathrin-associated pr 87.5 0.15 3.2E-06 38.4 -0.4 42 2-43 85-128 (418)
7 KOG3343 Vesicle coat complex C 84.3 0.55 1.2E-05 31.8 1.2 30 23-52 114-145 (175)
8 KOG0938 Adaptor complexes medi 76.1 0.89 1.9E-05 34.3 0.1 47 6-52 86-134 (446)
9 KOG0937 Adaptor complexes medi 65.5 2.6 5.6E-05 31.9 0.6 52 2-54 83-136 (424)
10 PF11035 SnAPC_2_like: Small n 40.4 37 0.00081 25.3 3.1 33 13-45 201-235 (344)
11 PF12854 PPR_1: PPR repeat 33.0 37 0.0008 16.2 1.5 12 23-34 22-33 (34)
12 PF13812 PPR_3: Pentatricopept 32.3 37 0.00081 15.0 1.4 12 23-34 16-27 (34)
13 COG0498 ThrC Threonine synthas 31.9 99 0.0021 23.2 4.2 34 22-55 300-333 (411)
14 PF01535 PPR: PPR repeat; Int 31.8 42 0.00092 14.4 1.5 12 23-34 15-26 (31)
15 PHA02986 hypothetical protein; 30.9 8.4 0.00018 25.3 -1.3 18 6-24 26-43 (141)
16 COG5541 RET3 Vesicle coat comp 28.4 12 0.00027 25.5 -0.9 28 24-51 122-151 (187)
17 TIGR00756 PPR pentatricopeptid 27.8 56 0.0012 14.0 1.6 12 23-34 15-26 (35)
18 COG4342 Uncharacterized protei 25.9 29 0.00064 25.3 0.6 45 4-51 63-110 (291)
19 PF13041 PPR_2: PPR repeat fam 25.8 58 0.0013 16.1 1.6 12 23-34 18-29 (50)
20 PF01338 Bac_thur_toxin: Bacil 25.3 1.3E+02 0.0028 21.2 3.7 36 7-42 39-81 (229)
21 PF06619 DUF1149: Protein of u 25.2 39 0.00084 21.9 1.0 19 1-19 73-91 (127)
22 PF01671 ASFV_360: African swi 22.5 22 0.00049 24.8 -0.5 24 11-34 121-144 (215)
23 PF09289 FOLN: Follistatin/Ost 22.0 22 0.00048 16.6 -0.5 8 12-19 8-15 (22)
24 PF07565 Band_3_cyto: Band 3 c 21.3 78 0.0017 22.1 2.0 25 27-51 47-73 (257)
25 COG3721 HugX Putative heme iro 20.3 89 0.0019 21.3 2.0 28 6-34 31-68 (176)
No 1
>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]
Probab=99.95 E-value=6.9e-29 Score=162.20 Aligned_cols=56 Identities=20% Similarity=0.211 Sum_probs=53.9
Q ss_pred CceeeeecccccCccchhhhhccHHHHHHHHHhc--CceeeeecHHHHHHHHHhhhhc
Q 042186 1 MYLLFETADCGFGILCEPDIMFHLEKSISYCRKR--SWTGVWQSKVKHSAANKLMEKT 56 (57)
Q Consensus 1 Ih~~VE~LD~~F~nVcElDiifnf~k~~~ilDE~--~G~v~Etsk~~il~~i~~~~~~ 56 (57)
||+|||+||||||||||||+||||.|+|.||||| ||+++|+|+++|++++.++++.
T Consensus 84 Ih~FVE~lDr~FgnVCELdlIFNF~kv~~ILdE~i~gG~i~Es~~~~vl~~v~~lda~ 141 (152)
T COG5030 84 IHNFVEILDRFFGNVCELDLIFNFQKVYAILDEMILGGEIIESSKNEVLEHVYALDAE 141 (152)
T ss_pred HHHHHHHHHHHhccceeeEeEeeHHHHHHHHHHHHhCCeeeecCHHHHHHHHHHHHhh
Confidence 7999999999999999999999999999999999 9999999999999999888765
No 2
>KOG0935 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.94 E-value=3.4e-29 Score=161.59 Aligned_cols=57 Identities=21% Similarity=0.190 Sum_probs=55.3
Q ss_pred CceeeeecccccCccchhhhhccHHHHHHHHHhc--CceeeeecHHHHHHHHHhhhhcC
Q 042186 1 MYLLFETADCGFGILCEPDIMFHLEKSISYCRKR--SWTGVWQSKVKHSAANKLMEKTS 57 (57)
Q Consensus 1 Ih~~VE~LD~~F~nVcElDiifnf~k~~~ilDE~--~G~v~Etsk~~il~~i~~~~~~~ 57 (57)
||+|||+||.|||||||||++|||.|+|.|+||| ||+++||||+.+++++..++++.
T Consensus 85 IHlFVEvLd~fF~NVCELDlvFNFyKVy~i~DEm~l~GEi~Etsk~~vlerl~~L~~Le 143 (143)
T KOG0935|consen 85 IHLFVEVLDEFFHNVCELDLVFNFYKVYTIVDEMFLAGEIRETSKTKVLERLLMLQSLE 143 (143)
T ss_pred HHHHHHHHHHHhccccceeeeeeeeeHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhccC
Confidence 7999999999999999999999999999999999 99999999999999999999874
No 3
>KOG0934 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.93 E-value=2.8e-28 Score=158.64 Aligned_cols=56 Identities=25% Similarity=0.154 Sum_probs=53.6
Q ss_pred CceeeeecccccCccchhhhhccHHHHHHHHHhc--CceeeeecHHHHHHHHHhhhhc
Q 042186 1 MYLLFETADCGFGILCEPDIMFHLEKSISYCRKR--SWTGVWQSKVKHSAANKLMEKT 56 (57)
Q Consensus 1 Ih~~VE~LD~~F~nVcElDiifnf~k~~~ilDE~--~G~v~Etsk~~il~~i~~~~~~ 56 (57)
||+|||+||+|||||||||+||||+|||+||||+ +|+++|+|++.+++++.+++-+
T Consensus 84 IH~~vE~lDkYFg~VCELDiiFNfekay~ILde~~~~g~~~e~~k~~~~~~i~~ad~l 141 (145)
T KOG0934|consen 84 IHNYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEIQETSKNDVLKAIAQADLL 141 (145)
T ss_pred HHHHHHHHHHHhccceeeEEEEehHhHHHHHHHHhcCcchHhhhcccHHHHHHHhhhc
Confidence 7999999999999999999999999999999999 9999999999999999888754
No 4
>KOG0936 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.91 E-value=1.2e-25 Score=149.55 Aligned_cols=56 Identities=21% Similarity=0.188 Sum_probs=54.4
Q ss_pred CceeeeecccccCccchhhhhccHHHHHHHHHhc--CceeeeecHHHHHHHHHhhhhc
Q 042186 1 MYLLFETADCGFGILCEPDIMFHLEKSISYCRKR--SWTGVWQSKVKHSAANKLMEKT 56 (57)
Q Consensus 1 Ih~~VE~LD~~F~nVcElDiifnf~k~~~ilDE~--~G~v~Etsk~~il~~i~~~~~~ 56 (57)
||.|||+|||||+|||||||||||+|+|+||+|+ ||+|.|||.++|++++.++.|+
T Consensus 90 IQvfVEtLDkCF~nVcELDliF~~~k~h~iL~EiV~GGmVlETn~neIv~av~~~nkl 147 (182)
T KOG0936|consen 90 IQVFVETLDKCFENVCELDLIFNWQKVHAILAEIVMGGMVLETNMNEIVAAVDEQNKL 147 (182)
T ss_pred HHHHHHHHHHHHHhhhhhhheeeHHHHHHHHHHHHhCCeEEeccHHHHHHHHHHhchh
Confidence 7899999999999999999999999999999999 9999999999999999998875
No 5
>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=99.68 E-value=8.1e-18 Score=105.08 Aligned_cols=56 Identities=14% Similarity=0.030 Sum_probs=50.3
Q ss_pred CceeeeecccccCccchhhhhccHHHHHHHHHhc--CceeeeecHHHHHHHHHhhhhc
Q 042186 1 MYLLFETADCGFGILCEPDIMFHLEKSISYCRKR--SWTGVWQSKVKHSAANKLMEKT 56 (57)
Q Consensus 1 Ih~~VE~LD~~F~nVcElDiifnf~k~~~ilDE~--~G~v~Etsk~~il~~i~~~~~~ 56 (57)
+|.+|++|+.|||+|||.++++||+++|.+|||| +|.++||+++.|++++.+++++
T Consensus 84 l~~~v~~l~~~~~~v~e~~i~~N~~~v~~~LDEiid~G~i~etd~~~I~~~v~~~~~~ 141 (141)
T PF01217_consen 84 LHRLVEVLDDYFGNVSEKDILENFDLVYLILDEIIDGGIILETDPNVILKRVTMQDSA 141 (141)
T ss_dssp HHHHHHHHHHHHSS-SHHHHHHTHHHHHHHHHHHEETTEES--THHHHHHHHHHCCC-
T ss_pred HHHhhhhhhhhhccccHHHHHHCHHHHHHHHHHHHhCCEEEECCHHHHHHHHHHhhcC
Confidence 5889999999999999999999999999999999 9999999999999999998874
No 6
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.50 E-value=0.15 Score=38.38 Aligned_cols=42 Identities=12% Similarity=-0.066 Sum_probs=34.8
Q ss_pred ceeeeecccccCccchhhhhccHHHHHHHHHhc--CceeeeecH
Q 042186 2 YLLFETADCGFGILCEPDIMFHLEKSISYCRKR--SWTGVWQSK 43 (57)
Q Consensus 2 h~~VE~LD~~F~nVcElDiifnf~k~~~ilDE~--~G~v~Etsk 43 (57)
|+.+.++-.|||...|--|-=|+..+|.+|||| +|.=.-|-.
T Consensus 85 ~rv~dv~~eyFg~~s~~~Ik~N~~vv~ell~emiDnGfpl~tE~ 128 (418)
T KOG2740|consen 85 HRVVDVLLEYFGGLSESKIKDNVVVVYELLDEMIDNGFPLVTEP 128 (418)
T ss_pred HHHHHHHHHHhcccCHhHhhcceeeHHHHHHHHHHcCCCcccCh
Confidence 566778888999988999999999999999999 887443333
No 7
>KOG3343 consensus Vesicle coat complex COPI, zeta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.33 E-value=0.55 Score=31.85 Aligned_cols=30 Identities=7% Similarity=-0.155 Sum_probs=25.2
Q ss_pred cHHHHHHHHHhc--CceeeeecHHHHHHHHHh
Q 042186 23 HLEKSISYCRKR--SWTGVWQSKVKHSAANKL 52 (57)
Q Consensus 23 nf~k~~~ilDE~--~G~v~Etsk~~il~~i~~ 52 (57)
|.+-+-.++||+ ||-|.||.++.|..++..
T Consensus 114 N~D~i~L~~DEiiD~GvILEtdp~~ia~rv~~ 145 (175)
T KOG3343|consen 114 NLDLIFLALDEIIDGGVILETDPNQIAQRVAL 145 (175)
T ss_pred hhccceeehhhhccCceEEecCHHHHHHHhcc
Confidence 455566789999 999999999999988753
No 8
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.06 E-value=0.89 Score=34.33 Aligned_cols=47 Identities=11% Similarity=-0.144 Sum_probs=39.5
Q ss_pred eecccccCccchhhhhccHHHHHHHHHhc--CceeeeecHHHHHHHHHh
Q 042186 6 ETADCGFGILCEPDIMFHLEKSISYCRKR--SWTGVWQSKVKHSAANKL 52 (57)
Q Consensus 6 E~LD~~F~nVcElDiifnf~k~~~ilDE~--~G~v~Etsk~~il~~i~~ 52 (57)
..|..|||...|=-|==||--.|.+|||| .|..+.|....+-..+..
T Consensus 86 avm~aYfgk~~Eeaiknnf~lI~ElLDemld~G~pqnte~~al~~~is~ 134 (446)
T KOG0938|consen 86 AVMNAYFGKDREEAIKNNFVLIYELLDEMLDFGIPQNTEPNALKAQISQ 134 (446)
T ss_pred HHHHHHhcccchhhhhhceEeHHHHHHHHHhcCCCccCChhHHHhhhhh
Confidence 34567999888888888999999999999 899999998887766543
No 9
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.54 E-value=2.6 Score=31.95 Aligned_cols=52 Identities=8% Similarity=-0.150 Sum_probs=43.6
Q ss_pred ceeeeecccccCccchhhhhccHHHHHHHHHhc--CceeeeecHHHHHHHHHhhh
Q 042186 2 YLLFETADCGFGILCEPDIMFHLEKSISYCRKR--SWTGVWQSKVKHSAANKLME 54 (57)
Q Consensus 2 h~~VE~LD~~F~nVcElDiifnf~k~~~ilDE~--~G~v~Etsk~~il~~i~~~~ 54 (57)
|.+++++-.||+.+=|.=+.=||.-+|-.|||+ =|.. +|+..+||+..-.++
T Consensus 83 ~~~~~v~~~y~~~l~e~si~~n~vlvyElLde~mDFGyp-Q~t~s~iL~~yi~~~ 136 (424)
T KOG0937|consen 83 YAVADVFGDYLSELEEESIRDNFVLVYELLDEVMDFGYP-QTTDSEILKNYITQK 136 (424)
T ss_pred HHHHHHHHHHhccCCccceecchHHHHHHHHHHhccCCc-ccchHHHHHHHhccc
Confidence 456788889999888888888999999999999 6887 788888888776554
No 10
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=40.37 E-value=37 Score=25.27 Aligned_cols=33 Identities=27% Similarity=0.227 Sum_probs=26.7
Q ss_pred CccchhhhhccHHHHHHHHHhc--CceeeeecHHH
Q 042186 13 GILCEPDIMFHLEKSISYCRKR--SWTGVWQSKVK 45 (57)
Q Consensus 13 ~nVcElDiifnf~k~~~ilDE~--~G~v~Etsk~~ 45 (57)
|..-|=|+..+|+|.|.+|-.+ +|.--|-|..+
T Consensus 201 g~s~e~d~~VDFEKIYKYLSsisr~~~~peLSa~E 235 (344)
T PF11035_consen 201 GPSAEGDFVVDFEKIYKYLSSISRSGHGPELSAAE 235 (344)
T ss_pred CCCcCcceeeeHHHHHHHHHHhccCCCCcccChHH
Confidence 3445778999999999999999 88877777643
No 11
>PF12854 PPR_1: PPR repeat
Probab=33.03 E-value=37 Score=16.16 Aligned_cols=12 Identities=0% Similarity=0.196 Sum_probs=9.8
Q ss_pred cHHHHHHHHHhc
Q 042186 23 HLEKSISYCRKR 34 (57)
Q Consensus 23 nf~k~~~ilDE~ 34 (57)
++++|..++|||
T Consensus 22 ~~~~A~~l~~~M 33 (34)
T PF12854_consen 22 RVDEAFELFDEM 33 (34)
T ss_pred CHHHHHHHHHhC
Confidence 468888999887
No 12
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=32.27 E-value=37 Score=14.96 Aligned_cols=12 Identities=0% Similarity=0.083 Sum_probs=9.9
Q ss_pred cHHHHHHHHHhc
Q 042186 23 HLEKSISYCRKR 34 (57)
Q Consensus 23 nf~k~~~ilDE~ 34 (57)
++++|..++++|
T Consensus 16 ~~~~a~~~~~~M 27 (34)
T PF13812_consen 16 DPDAALQLFDEM 27 (34)
T ss_pred CHHHHHHHHHHH
Confidence 577888888888
No 13
>COG0498 ThrC Threonine synthase [Amino acid transport and metabolism]
Probab=31.90 E-value=99 Score=23.19 Aligned_cols=34 Identities=21% Similarity=0.095 Sum_probs=30.4
Q ss_pred ccHHHHHHHHHhcCceeeeecHHHHHHHHHhhhh
Q 042186 22 FHLEKSISYCRKRSWTGVWQSKVKHSAANKLMEK 55 (57)
Q Consensus 22 fnf~k~~~ilDE~~G~v~Etsk~~il~~i~~~~~ 55 (57)
.||+|+.+.+.|-+|...-.|..+|+++++.+.+
T Consensus 300 ~n~~r~l~a~~es~g~~~~vsdeEi~~a~~~l~~ 333 (411)
T COG0498 300 SNWERALFALRESGGLAVAVSDEEILEAIKLLAE 333 (411)
T ss_pred CCHHHHHHHHHhcCCceEEeCHHHHHHHHHHHHH
Confidence 5899999999999888999999999999987754
No 14
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=31.76 E-value=42 Score=14.37 Aligned_cols=12 Identities=8% Similarity=0.263 Sum_probs=10.0
Q ss_pred cHHHHHHHHHhc
Q 042186 23 HLEKSISYCRKR 34 (57)
Q Consensus 23 nf~k~~~ilDE~ 34 (57)
++++|..++++|
T Consensus 15 ~~~~a~~~~~~M 26 (31)
T PF01535_consen 15 QFEEALEVFDEM 26 (31)
T ss_pred hHHHHHHHHHHH
Confidence 578888888888
No 15
>PHA02986 hypothetical protein; Provisional
Probab=30.92 E-value=8.4 Score=25.30 Aligned_cols=18 Identities=22% Similarity=0.309 Sum_probs=13.2
Q ss_pred eecccccCccchhhhhccH
Q 042186 6 ETADCGFGILCEPDIMFHL 24 (57)
Q Consensus 6 E~LD~~F~nVcElDiifnf 24 (57)
|+.++||.|.|- +.|.|=
T Consensus 26 ei~~k~FsNLCk-efi~~~ 43 (141)
T PHA02986 26 EISFKYFSNLCK-EFISNK 43 (141)
T ss_pred hhhHHHHHHHHH-HHHhcC
Confidence 678899999995 455553
No 16
>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=28.37 E-value=12 Score=25.49 Aligned_cols=28 Identities=0% Similarity=-0.152 Sum_probs=23.1
Q ss_pred HHHHHHHHHhc--CceeeeecHHHHHHHHH
Q 042186 24 LEKSISYCRKR--SWTGVWQSKVKHSAANK 51 (57)
Q Consensus 24 f~k~~~ilDE~--~G~v~Etsk~~il~~i~ 51 (57)
++..-.+.||. +|-|.||..+.|.+++.
T Consensus 122 YDqivl~vdEtid~Gvilet~s~~ia~rv~ 151 (187)
T COG5541 122 YDQIVLLVDETIDEGVILETKSDEIADRVP 151 (187)
T ss_pred hceEEEeeehhcccceEeecChHHHHHhCC
Confidence 45555678888 99999999999998874
No 17
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=27.80 E-value=56 Score=14.03 Aligned_cols=12 Identities=8% Similarity=0.354 Sum_probs=10.2
Q ss_pred cHHHHHHHHHhc
Q 042186 23 HLEKSISYCRKR 34 (57)
Q Consensus 23 nf~k~~~ilDE~ 34 (57)
++++|..++++|
T Consensus 15 ~~~~a~~~~~~M 26 (35)
T TIGR00756 15 RVEEALELFKEM 26 (35)
T ss_pred CHHHHHHHHHHH
Confidence 578899999998
No 18
>COG4342 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.86 E-value=29 Score=25.26 Aligned_cols=45 Identities=16% Similarity=-0.006 Sum_probs=35.4
Q ss_pred eeeecccccCccchhhhhccHHHHHHHHHhc---CceeeeecHHHHHHHHH
Q 042186 4 LFETADCGFGILCEPDIMFHLEKSISYCRKR---SWTGVWQSKVKHSAANK 51 (57)
Q Consensus 4 ~VE~LD~~F~nVcElDiifnf~k~~~ilDE~---~G~v~Etsk~~il~~i~ 51 (57)
++-.|+|+.|++-|-| ++.||+-++-.+ -|-+-|.--.++.+.++
T Consensus 63 yls~l~r~ig~~~~kd---Ky~kA~R~f~~fl~~rgiise~~Ae~lrk~lk 110 (291)
T COG4342 63 YLSALNRPIGSVREKD---KYQKAYRLFIKFLTSRGIISEEFAEKLRKPLK 110 (291)
T ss_pred HHHHHHHhhhhhhhhh---HHHHHHHHHHHHHHHcccccHHHHHHHHHHhc
Confidence 3456889999999999 999999999888 67777766666666553
No 19
>PF13041 PPR_2: PPR repeat family
Probab=25.82 E-value=58 Score=16.12 Aligned_cols=12 Identities=8% Similarity=0.357 Sum_probs=10.9
Q ss_pred cHHHHHHHHHhc
Q 042186 23 HLEKSISYCRKR 34 (57)
Q Consensus 23 nf~k~~~ilDE~ 34 (57)
++++|..++++|
T Consensus 18 ~~~~a~~l~~~M 29 (50)
T PF13041_consen 18 KFEEALKLFKEM 29 (50)
T ss_pred CHHHHHHHHHHH
Confidence 589999999999
No 20
>PF01338 Bac_thur_toxin: Bacillus thuringiensis toxin; InterPro: IPR001615 Bacillus thuringiensis produces toxins active against insects []. The toxin kills the larvae of dipteran insects by making pores in the epithelial cell membrane of the insect midgut. The crystal protein is produced during sporulation and is accumulated both as an inclusion and as part of the spore coat.; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 2RCI_A 1PP6_D 1PP0_C 1VGF_B 1VCY_A 1CBY_A 3RON_A.
Probab=25.30 E-value=1.3e+02 Score=21.18 Aligned_cols=36 Identities=14% Similarity=0.135 Sum_probs=26.1
Q ss_pred ecccccCccch-----hhhhccHHHHHHHHHhc--Cceeeeec
Q 042186 7 TADCGFGILCE-----PDIMFHLEKSISYCRKR--SWTGVWQS 42 (57)
Q Consensus 7 ~LD~~F~nVcE-----lDiifnf~k~~~ilDE~--~G~v~Ets 42 (57)
.|.+.|.+.|- ..+-|+|+|+..+..-. ++-|+.+.
T Consensus 39 ~la~~FQ~Al~p~~~~~tl~Fd~eKal~iA~~~~p~~aVv~~~ 81 (229)
T PF01338_consen 39 SLANVFQHALDPTFTDDTLRFDFEKALEIANAHSPDLAVVGTI 81 (229)
T ss_dssp HHHHHHGGGBET--TTTTEEB-HHHHHHHHHHSSTTEEEEEEE
T ss_pred HHHHHHHHhhCCCccccceeecHHHHHHHHhccCCCceEEEEE
Confidence 36678888774 48899999999998887 55555544
No 21
>PF06619 DUF1149: Protein of unknown function (DUF1149); InterPro: IPR009530 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 2HNG_A 2O2A_C.
Probab=25.17 E-value=39 Score=21.88 Aligned_cols=19 Identities=11% Similarity=0.046 Sum_probs=12.7
Q ss_pred CceeeeecccccCccchhh
Q 042186 1 MYLLFETADCGFGILCEPD 19 (57)
Q Consensus 1 Ih~~VE~LD~~F~nVcElD 19 (57)
|+..|.+.|||||.-.|++
T Consensus 73 IsQiv~i~~r~~~~~sd~~ 91 (127)
T PF06619_consen 73 ISQIVHIKDRYVGEPSDLS 91 (127)
T ss_dssp EEEEEEEET---SSGGGS-
T ss_pred eeeeeeeeccccCChhhcC
Confidence 5678999999999988875
No 22
>PF01671 ASFV_360: African swine fever virus multigene family 360 protein; InterPro: IPR002595 The multigene family 360 protein are found within the African swine fever virus (ASFV) genome which consist of dsDNA and has similar structural features to the poxviruses []. The biological function of this family is not known [], although Q65137 from SWISSPROT is a major structural protein [].; GO: 0042330 taxis
Probab=22.47 E-value=22 Score=24.84 Aligned_cols=24 Identities=13% Similarity=0.051 Sum_probs=22.8
Q ss_pred ccCccchhhhhccHHHHHHHHHhc
Q 042186 11 GFGILCEPDIMFHLEKSISYCRKR 34 (57)
Q Consensus 11 ~F~nVcElDiifnf~k~~~ilDE~ 34 (57)
||+||.+|+=+|+=+|+..=.|||
T Consensus 121 ~fNnvfdlHe~y~~eki~mdineM 144 (215)
T PF01671_consen 121 YFNNVFDLHEIYNKEKIRMDINEM 144 (215)
T ss_pred HhCCHHHHHHHHHHhhcCCCHHHH
Confidence 899999999999999999999998
No 23
>PF09289 FOLN: Follistatin/Osteonectin-like EGF domain; InterPro: IPR015369 This domain is predominantly found in osteonectin and follistatin. They adopt an EGF-like structure [, ]. Follistatin is involved in diverse activities from embryonic development to cell secretion. ; GO: 0005515 protein binding; PDB: 1LR7_A 1LR8_A 1LR9_A 2ARP_F 3B4V_H 2KCX_A 3SEK_C 2P6A_D 3HH2_C 2B0U_D ....
Probab=21.99 E-value=22 Score=16.55 Aligned_cols=8 Identities=38% Similarity=0.779 Sum_probs=5.9
Q ss_pred cCccchhh
Q 042186 12 FGILCEPD 19 (57)
Q Consensus 12 F~nVcElD 19 (57)
-|.||++|
T Consensus 8 ~GKvC~~d 15 (22)
T PF09289_consen 8 RGKVCKVD 15 (22)
T ss_dssp TTEEEEEE
T ss_pred CCCEeeeC
Confidence 47788876
No 24
>PF07565 Band_3_cyto: Band 3 cytoplasmic domain; InterPro: IPR013769 Bicarbonate (HCO3 -) transport mechanisms are the principal regulators of pH in animal cells. Such transport also plays a vital role in acid-base movements in the stomach, pancreas, intestine, kidney, reproductive organs and the central nervous system. Functional studies have suggested four different HCO3 - transport modes. Anion exchanger proteins exchange HCO3 - for Cl- in a reversible, electroneutral manner []. Na+/HCO3 - co-transport proteins mediate the coupled movement of Na+ and HCO3 - across plasma membranes, often in an electrogenic manner []. Na- driven Cl-/HCO3 - exchange and K+/HCO3 - exchange activities have also been detected in certain cell types, although the molecular identities of the proteins responsible remain to be determined. Sequence analysis of the two families of HCO3 - transporters that have been cloned to date (the anion exchangers and Na+/HCO3 - co-transporters) reveals that they are homologous. This is not entirely unexpected, given that they both transport HCO3 - and are inhibited by a class of pharmacological agents called disulphonic stilbenes []. They share around ~25-30% sequence identity, which is distributed along their entire sequence length, and have similar predicted membrane topologies, suggesting they have ~10 transmembrane (TM) domains.; GO: 0008509 anion transmembrane transporter activity, 0006820 anion transport, 0016021 integral to membrane; PDB: 1HYN_Q.
Probab=21.35 E-value=78 Score=22.13 Aligned_cols=25 Identities=8% Similarity=-0.284 Sum_probs=21.3
Q ss_pred HHHHHHhc--CceeeeecHHHHHHHHH
Q 042186 27 SISYCRKR--SWTGVWQSKVKHSAANK 51 (57)
Q Consensus 27 ~~~ilDE~--~G~v~Etsk~~il~~i~ 51 (57)
+..|+|+| .|.+.+..+..|++++-
T Consensus 47 ~~~vvd~~v~~~~l~~~~r~~V~~aLL 73 (257)
T PF07565_consen 47 ADKVVDQMVSEGQLRPEDRDKVLRALL 73 (257)
T ss_dssp HHHHHHHHHHTTSS-GGGHHHHHHHHT
T ss_pred HHHHHHHHHhhcCCCHHHHHHHHHHHh
Confidence 67899999 89999999999998874
No 25
>COG3721 HugX Putative heme iron utilization protein [Inorganic ion transport and metabolism]
Probab=20.32 E-value=89 Score=21.26 Aligned_cols=28 Identities=14% Similarity=0.123 Sum_probs=21.4
Q ss_pred eecccccCccchhhhhccH----------HHHHHHHHhc
Q 042186 6 ETADCGFGILCEPDIMFHL----------EKSISYCRKR 34 (57)
Q Consensus 6 E~LD~~F~nVcElDiifnf----------~k~~~ilDE~ 34 (57)
|.+-..| ||.|+||+-++ +|+-.|+|||
T Consensus 31 eamA~~~-~v~~~eIv~aLP~~~v~vvpgdrfd~iw~~m 68 (176)
T COG3721 31 EAMAEQY-NVTELEIVRALPEEAVVVVPGDRFDTIWDEM 68 (176)
T ss_pred HHHHHHh-CCCHHHHHHhCchhheeecchHHHHHHHHHh
Confidence 3444445 78999998886 6788999999
Done!