Query 033110
Match_columns 127
No_of_seqs 120 out of 155
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 09:55:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033110.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033110hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3491 Predicted membrane pro 100.0 3.2E-30 6.9E-35 175.9 6.7 65 60-125 1-65 (65)
2 PF06624 RAMP4: Ribosome assoc 100.0 6.4E-30 1.4E-34 172.9 4.8 61 59-122 2-62 (63)
3 PF06724 DUF1206: Domain of Un 80.1 3.4 7.4E-05 27.3 3.8 31 93-123 41-71 (73)
4 PF10661 EssA: WXG100 protein 73.7 5.2 0.00011 30.7 3.8 57 65-121 83-143 (145)
5 PF09527 ATPase_gene1: Putativ 62.9 9.5 0.00021 23.9 2.7 30 93-122 26-55 (55)
6 PHA02513 V1 structural protein 59.8 10 0.00022 29.5 2.9 28 92-120 62-89 (135)
7 PHA00739 V3 structural protein 52.1 11 0.00023 27.9 1.8 20 100-119 7-26 (92)
8 KOG3626 Organic anion transpor 49.8 10 0.00023 36.1 1.9 17 96-115 317-333 (735)
9 PF13131 DUF3951: Protein of u 44.3 18 0.00039 24.4 1.8 22 96-117 5-26 (53)
10 PRK12773 flhB flagellar biosyn 43.6 19 0.00041 34.2 2.5 83 17-116 257-346 (646)
11 PF02944 BESS: BESS motif; In 42.9 39 0.00084 20.0 3.0 23 44-66 2-24 (37)
12 PF02723 NS3_envE: Non-structu 42.2 36 0.00077 24.5 3.2 23 99-121 18-40 (82)
13 PRK08156 type III secretion sy 41.9 34 0.00074 29.9 3.7 40 60-113 7-46 (361)
14 PF14715 FixP_N: N-terminal do 37.7 43 0.00093 21.8 2.8 23 93-115 16-38 (51)
15 COG3944 Capsular polysaccharid 34.9 1.4E+02 0.003 25.2 6.0 38 64-101 131-172 (226)
16 PF14283 DUF4366: Domain of un 32.5 41 0.00089 27.5 2.5 23 91-114 154-176 (218)
17 PF11359 gpUL132: Glycoprotein 31.7 29 0.00064 29.3 1.6 23 99-121 48-70 (235)
18 PRK05702 flhB flagellar biosyn 31.5 59 0.0013 28.2 3.5 19 60-87 12-30 (359)
19 PRK12468 flhB flagellar biosyn 30.7 64 0.0014 28.4 3.6 43 60-116 12-55 (386)
20 PRK12721 secretion system appa 30.4 65 0.0014 27.9 3.5 19 60-87 7-25 (349)
21 COG1766 fliF Flagellar basal b 30.0 67 0.0015 29.7 3.7 31 95-125 443-473 (545)
22 PF15387 DUF4611: Domain of un 30.0 27 0.00059 26.0 1.0 17 32-48 31-47 (96)
23 TIGR00328 flhB flagellar biosy 29.4 73 0.0016 27.5 3.7 44 60-117 5-49 (347)
24 PRK13109 flhB flagellar biosyn 29.0 76 0.0016 27.6 3.7 43 60-116 13-56 (358)
25 COG1377 FlhB Flagellar biosynt 27.5 82 0.0018 28.0 3.7 32 80-116 23-55 (363)
26 PF11446 DUF2897: Protein of u 27.1 41 0.00089 22.3 1.4 15 96-110 2-16 (55)
27 PRK09108 type III secretion sy 25.2 84 0.0018 27.2 3.3 45 60-118 8-53 (353)
28 TIGR01404 FlhB_rel_III type II 25.2 69 0.0015 27.5 2.8 44 60-117 6-50 (342)
29 TIGR00782 ccoP cytochrome c ox 25.0 72 0.0016 26.1 2.7 24 92-115 21-44 (285)
30 KOG4686 Predicted sugar transp 24.0 3.7E+02 0.008 24.7 7.1 96 2-108 175-274 (459)
31 PRK06298 type III secretion sy 23.0 81 0.0018 27.4 2.8 19 60-87 7-25 (356)
32 TIGR01006 polys_exp_MPA1 polys 23.0 2.2E+02 0.0047 21.9 4.9 37 64-100 134-173 (226)
33 TIGR02230 ATPase_gene1 F0F1-AT 22.2 1.2E+02 0.0026 22.2 3.2 30 92-121 67-96 (100)
34 PRK12750 cpxP periplasmic repr 21.7 1.4E+02 0.003 23.3 3.6 15 52-66 129-143 (170)
35 PF03137 OATP: Organic Anion T 21.4 31 0.00068 30.8 0.0 11 97-107 225-235 (539)
36 COG3678 CpxP P pilus assembly/ 21.2 2E+02 0.0044 22.5 4.5 25 41-65 112-136 (160)
37 PF10861 DUF2784: Protein of U 20.9 72 0.0016 23.6 1.8 14 102-115 13-26 (112)
38 PF09753 Use1: Membrane fusion 20.9 1E+02 0.0022 24.7 2.9 17 100-116 228-244 (251)
39 PF11466 Doppel: Prion-like pr 20.9 85 0.0018 19.0 1.8 13 95-107 3-15 (30)
40 PRK03557 zinc transporter ZitB 20.1 2.2E+02 0.0047 23.5 4.7 68 42-124 41-116 (312)
No 1
>KOG3491 consensus Predicted membrane protein [Function unknown]
Probab=99.96 E-value=3.2e-30 Score=175.86 Aligned_cols=65 Identities=68% Similarity=1.003 Sum_probs=60.3
Q ss_pred CCHHHHHHhhhhHHHHHhhhccCCCCCccccCCCCCCccHHHHHHHHHHHhhhHHHHHHHHhhcCC
Q 033110 60 QTTSKRLAVRKVDKFEKNIMKRGAVPETTTKKGKDYPVGPVLLGFFVFVVIGSSLFQIIRTATSGG 125 (127)
Q Consensus 60 qTp~qR~AN~Ks~kFaKNi~KRGkv~ks~kkk~~K~PVgP~wLgLfiFVVcGsaIFEIIr~i~~g~ 125 (127)
||++||+ +.++|||+|||++||+|+++.+++++|||||||+||||+||||||++|||||+++.|+
T Consensus 1 m~~Kqr~-~~anekfsKNi~~RGnVakt~~~~e~kypvgPwLlglFvFVVcGSa~FqIIr~~~mG~ 65 (65)
T KOG3491|consen 1 MTSKQRA-DRANEKFSKNILKRGNVAKTTTKKEKKYPVGPWLLGLFVFVVCGSALFQIIRTATMGG 65 (65)
T ss_pred CchHHHH-HHHHHHHhHHHHhcCCccccccCccccCCcchHHHHHHHHHhhcHHHHHHHHHHhccC
Confidence 6888885 5667779999999999999999999999999999999999999999999999999885
No 2
>PF06624 RAMP4: Ribosome associated membrane protein RAMP4; InterPro: IPR010580 This entry contains Serp1/Ramp4, which has been shown to interacts with target proteins during their translocation into the lumen of the endoplasmic reticulum. It has also been shown to protect unfolded target proteins against degradation during ER stress. It may facilitate glycosylation of target proteins after termination of ER stress and may modulate the use of N-glycosylation sites on target proteins [, ].
Probab=99.96 E-value=6.4e-30 Score=172.85 Aligned_cols=61 Identities=57% Similarity=0.908 Sum_probs=55.5
Q ss_pred hCCHHHHHHhhhhHHHHHhhhccCCCCCccccCCCCCCccHHHHHHHHHHHhhhHHHHHHHHhh
Q 033110 59 AQTTSKRLAVRKVDKFEKNIMKRGAVPETTTKKGKDYPVGPVLLGFFVFVVIGSSLFQIIRTAT 122 (127)
Q Consensus 59 aqTp~qR~AN~Ks~kFaKNi~KRGkv~ks~kkk~~K~PVgP~wLgLfiFVVcGsaIFEIIr~i~ 122 (127)
++++++|+||+| |+||+++||||+++.+++++||||||||||+|+||||||++|||||+++
T Consensus 2 a~~~~~r~an~k---f~kni~krG~v~~~~k~k~~k~pVgp~~L~l~iFVV~Gs~ifqiir~i~ 62 (63)
T PF06624_consen 2 ASKRRMRRANEK---FSKNITKRGKVPKSLKKKEKKYPVGPWLLGLFIFVVCGSAIFQIIRSIQ 62 (63)
T ss_pred CccHHHHHHHHH---HHhhHHhcCCCccccccccccCCcCHHHHhhhheeeEcHHHHHHHHHHh
Confidence 356677777776 9999999999999988888999999999999999999999999999986
No 3
>PF06724 DUF1206: Domain of Unknown Function (DUF1206); InterPro: IPR009597 This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins.
Probab=80.11 E-value=3.4 Score=27.27 Aligned_cols=31 Identities=26% Similarity=0.462 Sum_probs=27.9
Q ss_pred CCCCccHHHHHHHHHHHhhhHHHHHHHHhhc
Q 033110 93 KDYPVGPVLLGFFVFVVIGSSLFQIIRTATS 123 (127)
Q Consensus 93 ~K~PVgP~wLgLfiFVVcGsaIFEIIr~i~~ 123 (127)
...|.|+|++++....++|-+++++.+.+..
T Consensus 41 ~~~p~G~~ll~~vg~gli~~gi~~~~~a~~~ 71 (73)
T PF06724_consen 41 LEQPFGRWLLGAVGLGLIGYGIWQFVKAVYR 71 (73)
T ss_pred HhCCCcHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4689999999999999999999999987654
No 4
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=73.65 E-value=5.2 Score=30.69 Aligned_cols=57 Identities=18% Similarity=0.292 Sum_probs=34.3
Q ss_pred HHHhhhhHHHHHhhh-ccCCCCCcc-ccCCCCCCccHHHHHHHHHH--HhhhHHHHHHHHh
Q 033110 65 RLAVRKVDKFEKNIM-KRGAVPETT-TKKGKDYPVGPVLLGFFVFV--VIGSSLFQIIRTA 121 (127)
Q Consensus 65 R~AN~Ks~kFaKNi~-KRGkv~ks~-kkk~~K~PVgP~wLgLfiFV--VcGsaIFEIIr~i 121 (127)
+.++-|..-|+++.. +.-++..+. .....+.|++|.|+++++.+ +++|++.=++|-+
T Consensus 83 ~v~~~k~~LFs~~y~~~~~~~~~s~~~~~~~~~~~~~~i~~~i~g~ll~i~~giy~~~r~~ 143 (145)
T PF10661_consen 83 TVKETKDSLFSSDYQVKADEVASSPNTENKTKKPISPTILLSIGGILLAICGGIYVVLRKV 143 (145)
T ss_pred hHHHHHHHhhccccccchhhhhcchhhhhhhccchhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 556666667776632 332222221 13446789999999877544 4568888777753
No 5
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=62.86 E-value=9.5 Score=23.93 Aligned_cols=30 Identities=13% Similarity=0.236 Sum_probs=25.2
Q ss_pred CCCCccHHHHHHHHHHHhhhHHHHHHHHhh
Q 033110 93 KDYPVGPVLLGFFVFVVIGSSLFQIIRTAT 122 (127)
Q Consensus 93 ~K~PVgP~wLgLfiFVVcGsaIFEIIr~i~ 122 (127)
++++-+||++.+++++=+.+++..+++.++
T Consensus 26 ~~~~t~p~~~~~g~llG~~~g~~~~~~~~k 55 (55)
T PF09527_consen 26 KWFGTSPWFTLIGLLLGIAAGFYNVYRLVK 55 (55)
T ss_pred HHcCCChHHHHHHHHHHHHHHHHHHHHHhC
Confidence 446668999999999999999999988763
No 6
>PHA02513 V1 structural protein V1; Reviewed
Probab=59.80 E-value=10 Score=29.46 Aligned_cols=28 Identities=39% Similarity=0.876 Sum_probs=21.8
Q ss_pred CCCCCccHHHHHHHHHHHhhhHHHHHHHH
Q 033110 92 GKDYPVGPVLLGFFVFVVIGSSLFQIIRT 120 (127)
Q Consensus 92 ~~K~PVgP~wLgLfiFVVcGsaIFEIIr~ 120 (127)
.+...++. .++||+|.++|-.+|+.|-+
T Consensus 62 ge~~n~k~-ii~L~IFIliGivl~~pI~s 89 (135)
T PHA02513 62 GEGTNIGV-LLGLFIFILIGIVLLPVITS 89 (135)
T ss_pred cccccHHH-HHHHHHHHHHHHHHhhHHHH
Confidence 34566765 59999999999999996543
No 7
>PHA00739 V3 structural protein VP3
Probab=52.06 E-value=11 Score=27.89 Aligned_cols=20 Identities=40% Similarity=0.723 Sum_probs=17.0
Q ss_pred HHHHHHHHHHhhhHHHHHHH
Q 033110 100 VLLGFFVFVVIGSSLFQIIR 119 (127)
Q Consensus 100 ~wLgLfiFVVcGsaIFEIIr 119 (127)
-.+++|+|.++|-.+|+-|-
T Consensus 7 ~iifL~iFi~iGivlf~pIi 26 (92)
T PHA00739 7 QIIFLFIFILIGIVLFQPII 26 (92)
T ss_pred HHHHHHHHHHHHHhhcchhh
Confidence 45899999999999999543
No 8
>KOG3626 consensus Organic anion transporter [Secondary metabolites biosynthesis, transport and catabolism]
Probab=49.83 E-value=10 Score=36.12 Aligned_cols=17 Identities=35% Similarity=0.681 Sum_probs=12.4
Q ss_pred CccHHHHHHHHHHHhhhHHH
Q 033110 96 PVGPVLLGFFVFVVIGSSLF 115 (127)
Q Consensus 96 PVgP~wLgLfiFVVcGsaIF 115 (127)
=||.|||| |+|||++.+
T Consensus 317 WIGAWWlG---FLi~g~~~~ 333 (735)
T KOG3626|consen 317 WIGAWWLG---FLICGALLL 333 (735)
T ss_pred hhhHHHHH---HHHHHHHHH
Confidence 48999988 566777654
No 9
>PF13131 DUF3951: Protein of unknown function (DUF3951)
Probab=44.26 E-value=18 Score=24.38 Aligned_cols=22 Identities=27% Similarity=0.742 Sum_probs=17.2
Q ss_pred CccHHHHHHHHHHHhhhHHHHH
Q 033110 96 PVGPVLLGFFVFVVIGSSLFQI 117 (127)
Q Consensus 96 PVgP~wLgLfiFVVcGsaIFEI 117 (127)
.+|.+.+++++||++|=.-|-+
T Consensus 5 tiG~~~~~~~I~~lIgfity~m 26 (53)
T PF13131_consen 5 TIGIILFTIFIFFLIGFITYKM 26 (53)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3678899999999999655543
No 10
>PRK12773 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=43.65 E-value=19 Score=34.21 Aligned_cols=83 Identities=20% Similarity=0.365 Sum_probs=39.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHh------hhCCHHHHHHhhhhHHHHHhhhccCCCCCcccc
Q 033110 17 IKISFLIMSNIARYCILVIVSQLNLRKSSLCLLMLSLIMML------DAQTTSKRLAVRKVDKFEKNIMKRGAVPETTTK 90 (127)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~i~ql~~r~~~~~~~~~s~~~~l------daqTp~qR~AN~Ks~kFaKNi~KRGkv~ks~kk 90 (127)
|....-|...|+|+-+.--=--|. -...|.++. +|+|- -..++++|+..+| +.|+|+++.+
T Consensus 257 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~--lq~mMsed~EKTEkPTpKRLrdAR---------KKGQVaKSkE- 323 (646)
T PRK12773 257 INLTIEIVRRIFRFKIFPPNICLS-TEAADFKID--LQLFAAEDEGRTEPGSERRRREER---------EKGNVPKSPE- 323 (646)
T ss_pred hhhhHHHHHHHHhccccCCccccc-cccccceee--HhhhcCCCCCCCCCCChhHHHHHH---------hcCCCCChHh-
Confidence 344445667777764321100010 112344443 44342 2345666664444 7899998821
Q ss_pred CCCCCCccHHHHH-HHHHHHhhhHHHH
Q 033110 91 KGKDYPVGPVLLG-FFVFVVIGSSLFQ 116 (127)
Q Consensus 91 k~~K~PVgP~wLg-LfiFVVcGsaIFE 116 (127)
.+..-.+++ ++++.+.|+.+++
T Consensus 324 ----L~sA~~Lla~ll~L~~~g~~~~~ 346 (646)
T PRK12773 324 ----LPAAVVLLAGVILVYLMGEYFFM 346 (646)
T ss_pred ----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333 3444455665544
No 11
>PF02944 BESS: BESS motif; InterPro: IPR004210 The BESS domain has been named after the three proteins that originally defined the domain: BEAF (Boundary element associated factor 32) [], Suvar(3)7 [] and Stonewall []). The BESS domain is 40 amino acid residues long and is predicted to be composed of three alpha helices, as such it might be related to the myb/SANT HTH domain. The BESS domain directs a variety of protein-protein interactions, including interactions with itself, with Dorsal, and with a TBP-associated factor. It is found in a single copy in Drosophila proteins and is often associated with the MADF domain [, , ]. Proteins known to contain a BESS domain include: Drosophila Boundary element associated factor 32 (BEAF-32). Drosophila Suppressor of variegation protein 3-7 (Su(var)3-7), which could play a role in chromosome condensation. Drosophila Ravus, which is homologous to the C-terminal part of Su(var)3-7 []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation. Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3). It functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. ; GO: 0003677 DNA binding
Probab=42.88 E-value=39 Score=19.97 Aligned_cols=23 Identities=26% Similarity=0.340 Sum_probs=20.5
Q ss_pred hhhHHHHHHHHHHhhhCCHHHHH
Q 033110 44 SSLCLLMLSLIMMLDAQTTSKRL 66 (127)
Q Consensus 44 ~~~~~~~~s~~~~ldaqTp~qR~ 66 (127)
.+|-....|+.-+...|+|.+++
T Consensus 2 D~d~~Fl~Sl~p~~k~L~~~~k~ 24 (37)
T PF02944_consen 2 DSDELFLLSLLPHMKRLPPKQKL 24 (37)
T ss_pred chHHHHHHHhHHHHHhCCHHHHH
Confidence 56778889999999999999986
No 12
>PF02723 NS3_envE: Non-structural protein NS3/Small envelope protein E; InterPro: IPR003873 This is a family of small nonstructural proteins, well conserved among Coronavirus strains. This protein is also found in Murine hepatitis virus as small envelope protein E.; GO: 0016020 membrane
Probab=42.19 E-value=36 Score=24.45 Aligned_cols=23 Identities=26% Similarity=0.378 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHh
Q 033110 99 PVLLGFFVFVVIGSSLFQIIRTA 121 (127)
Q Consensus 99 P~wLgLfiFVVcGsaIFEIIr~i 121 (127)
-|.+..+++++++-+++++|+.-
T Consensus 18 l~llvc~~~liv~~AlL~~IqLC 40 (82)
T PF02723_consen 18 LWLLVCLVVLIVCIALLQLIQLC 40 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 47788889999999999999873
No 13
>PRK08156 type III secretion system protein SpaS; Validated
Probab=41.94 E-value=34 Score=29.86 Aligned_cols=40 Identities=30% Similarity=0.342 Sum_probs=23.5
Q ss_pred CCHHHHHHhhhhHHHHHhhhccCCCCCccccCCCCCCccHHHHHHHHHHHhhhH
Q 033110 60 QTTSKRLAVRKVDKFEKNIMKRGAVPETTTKKGKDYPVGPVLLGFFVFVVIGSS 113 (127)
Q Consensus 60 qTp~qR~AN~Ks~kFaKNi~KRGkv~ks~kkk~~K~PVgP~wLgLfiFVVcGsa 113 (127)
.++++|+...| +.|+|+++. ..+..-.+++.++++...+.
T Consensus 7 ~pT~kkL~dAR---------ekGqV~kS~-----el~~a~~ll~~~~~l~~~~~ 46 (361)
T PRK08156 7 KPTKKKLRDSA---------KKGQSFKSK-----DLITAVVLLGGIAYLVSFGS 46 (361)
T ss_pred CCChhHHHHHH---------HcCCCCchH-----hHHHHHHHHHHHHHHHHHhh
Confidence 45666664444 779999882 24455555665555544433
No 14
>PF14715 FixP_N: N-terminal domain of cytochrome oxidase-cbb3, FixP
Probab=37.73 E-value=43 Score=21.78 Aligned_cols=23 Identities=17% Similarity=0.137 Sum_probs=17.3
Q ss_pred CCCCccHHHHHHHHHHHhhhHHH
Q 033110 93 KDYPVGPVLLGFFVFVVIGSSLF 115 (127)
Q Consensus 93 ~K~PVgP~wLgLfiFVVcGsaIF 115 (127)
-.-|+.+||+.+|..-++=+.+.
T Consensus 16 ~dnplP~ww~~~f~~tivfa~~Y 38 (51)
T PF14715_consen 16 LDNPLPRWWLWLFYGTIVFAVGY 38 (51)
T ss_pred hcCCCCHHHHHHHHHHHHHHHHH
Confidence 46899999999998766555443
No 15
>COG3944 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]
Probab=34.90 E-value=1.4e+02 Score=25.24 Aligned_cols=38 Identities=21% Similarity=0.242 Sum_probs=25.8
Q ss_pred HHHHhhhhHHHHHhhhccCCCCC---ccccCC-CCCCccHHH
Q 033110 64 KRLAVRKVDKFEKNIMKRGAVPE---TTTKKG-KDYPVGPVL 101 (127)
Q Consensus 64 qR~AN~Ks~kFaKNi~KRGkv~k---s~kkk~-~K~PVgP~w 101 (127)
-++||.=++.|++.+.+.=+|.. -.+.+. .++||+|-.
T Consensus 131 a~IAN~~~~vf~~~i~~im~vd~v~Ils~A~~~~~spvsP~~ 172 (226)
T COG3944 131 AEIANSISEVFAKVIPEIMNVDNVSILSEAEASPSSPVSPKV 172 (226)
T ss_pred HHHHHHHHHHHHHhhHhhcCcCceeeecccccCCCCCCChHH
Confidence 46899988899998764444333 333333 689999953
No 16
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=32.48 E-value=41 Score=27.48 Aligned_cols=23 Identities=30% Similarity=0.434 Sum_probs=13.4
Q ss_pred CCCCCCccHHHHHHHHHHHhhhHH
Q 033110 91 KGKDYPVGPVLLGFFVFVVIGSSL 114 (127)
Q Consensus 91 k~~K~PVgP~wLgLfiFVVcGsaI 114 (127)
+++|+++|++++.+++- ++||+.
T Consensus 154 pekks~~g~ll~lllv~-l~gGGa 176 (218)
T PF14283_consen 154 PEKKSGMGSLLLLLLVA-LIGGGA 176 (218)
T ss_pred cccccchHHHHHHHHHH-Hhhcce
Confidence 34578888865554444 455543
No 17
>PF11359 gpUL132: Glycoprotein UL132; InterPro: IPR021023 Glycoprotein UL132 is a low-abundance structural component of Human herpesvirus 5 []. The function of this protein is not fully understood.
Probab=31.68 E-value=29 Score=29.31 Aligned_cols=23 Identities=26% Similarity=0.491 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHh
Q 033110 99 PVLLGFFVFVVIGSSLFQIIRTA 121 (127)
Q Consensus 99 P~wLgLfiFVVcGsaIFEIIr~i 121 (127)
.|+|+++++.|.|.++|++|...
T Consensus 48 ~kvL~IliYcVTg~sllsli~Vt 70 (235)
T PF11359_consen 48 MKVLAILIYCVTGFSLLSLIVVT 70 (235)
T ss_pred HHHHhhheeeehhHHHHHHHHHH
Confidence 48999999999999999998754
No 18
>PRK05702 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=31.51 E-value=59 Score=28.21 Aligned_cols=19 Identities=32% Similarity=0.670 Sum_probs=13.0
Q ss_pred CCHHHHHHhhhhHHHHHhhhccCCCCCc
Q 033110 60 QTTSKRLAVRKVDKFEKNIMKRGAVPET 87 (127)
Q Consensus 60 qTp~qR~AN~Ks~kFaKNi~KRGkv~ks 87 (127)
.++++|+..+| +.|+|+++
T Consensus 12 ~pT~kKL~dAR---------kkGqV~kS 30 (359)
T PRK05702 12 EPTPKKLEKAR---------EKGQVPRS 30 (359)
T ss_pred CCChhHHHHHH---------HcCCCCch
Confidence 45566664444 77999998
No 19
>PRK12468 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=30.67 E-value=64 Score=28.37 Aligned_cols=43 Identities=16% Similarity=0.338 Sum_probs=23.1
Q ss_pred CCHHHHHHhhhhHHHHHhhhccCCCCCccccCCCCCCccHHHHHHHHHH-HhhhHHHH
Q 033110 60 QTTSKRLAVRKVDKFEKNIMKRGAVPETTTKKGKDYPVGPVLLGFFVFV-VIGSSLFQ 116 (127)
Q Consensus 60 qTp~qR~AN~Ks~kFaKNi~KRGkv~ks~kkk~~K~PVgP~wLgLfiFV-VcGsaIFE 116 (127)
.++++|+...| +.|+|+++. ..+..-.+++.++++ ..|+.+++
T Consensus 12 ~pT~kkl~dAR---------kkGqV~kS~-----el~~a~~ll~~~~~l~~~~~~~~~ 55 (386)
T PRK12468 12 EPTASKLEKAR---------EKGQIPRSR-----ELTSMLMLGAGLTILWMSGESMAR 55 (386)
T ss_pred CCChHHHHHHH---------hcCCCCchH-----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35556654443 779999882 234444455544433 34444443
No 20
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=30.37 E-value=65 Score=27.87 Aligned_cols=19 Identities=32% Similarity=0.517 Sum_probs=13.2
Q ss_pred CCHHHHHHhhhhHHHHHhhhccCCCCCc
Q 033110 60 QTTSKRLAVRKVDKFEKNIMKRGAVPET 87 (127)
Q Consensus 60 qTp~qR~AN~Ks~kFaKNi~KRGkv~ks 87 (127)
.++++|+...| +.|+|+++
T Consensus 7 ~pT~kkl~dAR---------kkGqV~kS 25 (349)
T PRK12721 7 KPTEKKLRDAR---------KKGQVVKS 25 (349)
T ss_pred CCChHHHHHHH---------HcCCCcch
Confidence 45566664544 77999988
No 21
>COG1766 fliF Flagellar basal body M-ring protein [Cell motility and secretion]
Probab=30.03 E-value=67 Score=29.67 Aligned_cols=31 Identities=29% Similarity=0.338 Sum_probs=27.4
Q ss_pred CCccHHHHHHHHHHHhhhHHHHHHHHhhcCC
Q 033110 95 YPVGPVLLGFFVFVVIGSSLFQIIRTATSGG 125 (127)
Q Consensus 95 ~PVgP~wLgLfiFVVcGsaIFEIIr~i~~g~ 125 (127)
..+-+.|+++++|+|+.-.++.+++..+..+
T Consensus 443 ~~~~~~~~~l~~~lv~~~~~r~~i~~~~~~~ 473 (545)
T COG1766 443 DSLIPVALYLVVFLVLFIIVRPVIRPRRRRG 473 (545)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 4677889999999999999999999988765
No 22
>PF15387 DUF4611: Domain of unknown function (DUF4611)
Probab=29.98 E-value=27 Score=25.95 Aligned_cols=17 Identities=29% Similarity=0.122 Sum_probs=14.8
Q ss_pred HHHHHHhhcccchhhHH
Q 033110 32 ILVIVSQLNLRKSSLCL 48 (127)
Q Consensus 32 ~~~~i~ql~~r~~~~~~ 48 (127)
+++||||++|+-||++-
T Consensus 31 LlsGvaqm~e~vsel~~ 47 (96)
T PF15387_consen 31 LLSGVAQMRELVSELFG 47 (96)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 57899999999999764
No 23
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=29.43 E-value=73 Score=27.52 Aligned_cols=44 Identities=25% Similarity=0.440 Sum_probs=23.1
Q ss_pred CCHHHHHHhhhhHHHHHhhhccCCCCCccccCCCCCCccHHHHHHHHH-HHhhhHHHHH
Q 033110 60 QTTSKRLAVRKVDKFEKNIMKRGAVPETTTKKGKDYPVGPVLLGFFVF-VVIGSSLFQI 117 (127)
Q Consensus 60 qTp~qR~AN~Ks~kFaKNi~KRGkv~ks~kkk~~K~PVgP~wLgLfiF-VVcGsaIFEI 117 (127)
.++++|+...| +.|+|+++. ..+..-.+++.+++ ...|+.+++-
T Consensus 5 ~pT~kKl~dAR---------kkGqV~kS~-----el~~a~~ll~~~~~l~~~~~~~~~~ 49 (347)
T TIGR00328 5 EPTPKKLRKAR---------EEGNVPKSR-----EVNSAAVLLAGVLSLLFFGDGLADL 49 (347)
T ss_pred CCChhHHHHHH---------hcCCCCchH-----hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566664443 779999882 23334444444333 3444444443
No 24
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=28.95 E-value=76 Score=27.60 Aligned_cols=43 Identities=16% Similarity=0.375 Sum_probs=22.3
Q ss_pred CCHHHHHHhhhhHHHHHhhhccCCCCCccccCCCCCCccHHHHHH-HHHHHhhhHHHH
Q 033110 60 QTTSKRLAVRKVDKFEKNIMKRGAVPETTTKKGKDYPVGPVLLGF-FVFVVIGSSLFQ 116 (127)
Q Consensus 60 qTp~qR~AN~Ks~kFaKNi~KRGkv~ks~kkk~~K~PVgP~wLgL-fiFVVcGsaIFE 116 (127)
.++++|+...| +.|+|+++. +.+..-.+++. +.|..+|+.+++
T Consensus 13 ~pT~kkl~~AR---------~kGqV~kS~-----el~~~~~l~~~~~~l~~~~~~~~~ 56 (358)
T PRK13109 13 EATERKVRDAI---------EKGDIPVSR-----EAPVFASMLGLLIALAFFARGQAA 56 (358)
T ss_pred CCChhHHHHHH---------hcCCCCChH-----hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566664443 779999882 23333334443 333445554443
No 25
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=27.48 E-value=82 Score=27.95 Aligned_cols=32 Identities=25% Similarity=0.544 Sum_probs=20.8
Q ss_pred ccCCCCCccccCCCCCCccHHHHH-HHHHHHhhhHHHH
Q 033110 80 KRGAVPETTTKKGKDYPVGPVLLG-FFVFVVIGSSLFQ 116 (127)
Q Consensus 80 KRGkv~ks~kkk~~K~PVgP~wLg-LfiFVVcGsaIFE 116 (127)
+.|++|+|. +.|..-.+|+ +++..+.|+..+.
T Consensus 23 ekG~v~kS~-----el~~a~~ll~g~~~l~~~~~~~~~ 55 (363)
T COG1377 23 EKGQVPKSR-----ELTSAASLLVGFLLLFFFGSYFAR 55 (363)
T ss_pred HcCCCccch-----hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 669999982 3555555555 7777777755544
No 26
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=27.10 E-value=41 Score=22.28 Aligned_cols=15 Identities=33% Similarity=0.352 Sum_probs=7.6
Q ss_pred CccHHHHHHHHHHHh
Q 033110 96 PVGPVLLGFFVFVVI 110 (127)
Q Consensus 96 PVgP~wLgLfiFVVc 110 (127)
|.-||++.+++|-|+
T Consensus 2 ~~~~wlIIviVlgvI 16 (55)
T PF11446_consen 2 TWNPWLIIVIVLGVI 16 (55)
T ss_pred cchhhHHHHHHHHHH
Confidence 344565555555433
No 27
>PRK09108 type III secretion system protein HrcU; Validated
Probab=25.19 E-value=84 Score=27.25 Aligned_cols=45 Identities=29% Similarity=0.431 Sum_probs=22.9
Q ss_pred CCHHHHHHhhhhHHHHHhhhccCCCCCccccCCCCCCccHHHHH-HHHHHHhhhHHHHHH
Q 033110 60 QTTSKRLAVRKVDKFEKNIMKRGAVPETTTKKGKDYPVGPVLLG-FFVFVVIGSSLFQII 118 (127)
Q Consensus 60 qTp~qR~AN~Ks~kFaKNi~KRGkv~ks~kkk~~K~PVgP~wLg-LfiFVVcGsaIFEII 118 (127)
.++++|+..+| +.|+|+++.+ .+..-.+++ ++++...|+.+++-+
T Consensus 8 ~pT~KKL~dAR---------ekGqV~kS~e-----l~~a~~ll~~~~~l~~~~~~~~~~l 53 (353)
T PRK09108 8 EPTEKKLKDAR---------KDGEVAKSPD-----LTAAAVLLAALLVLTAAGSYLGDHL 53 (353)
T ss_pred CCChhHHHHHH---------hcCCCCchHH-----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35556654444 6799998832 222223333 333444555555543
No 28
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=25.19 E-value=69 Score=27.54 Aligned_cols=44 Identities=25% Similarity=0.417 Sum_probs=23.7
Q ss_pred CCHHHHHHhhhhHHHHHhhhccCCCCCccccCCCCCCccHHHHHHH-HHHHhhhHHHHH
Q 033110 60 QTTSKRLAVRKVDKFEKNIMKRGAVPETTTKKGKDYPVGPVLLGFF-VFVVIGSSLFQI 117 (127)
Q Consensus 60 qTp~qR~AN~Ks~kFaKNi~KRGkv~ks~kkk~~K~PVgP~wLgLf-iFVVcGsaIFEI 117 (127)
.++++|+...| +.|+|+++. +.+..-.+++.+ .+...|+.+++-
T Consensus 6 ~pT~kKL~dAR---------ekGqV~kS~-----el~~a~~ll~~~~~l~~~~~~~~~~ 50 (342)
T TIGR01404 6 KPTPKKLRDAR---------KKGQVAKSK-----DLTSAVLLLAGFFYLLSLASVFEEM 50 (342)
T ss_pred CCChhHHHHHH---------HcCCCcccH-----hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666664444 779999882 244444444433 333445545543
No 29
>TIGR00782 ccoP cytochrome c oxidase, cbb3-type, subunit III. This model describes a di-heme subunit of approximately 26 kDa of the cbb3 type copper and heme-containing cytochrome oxidase.
Probab=24.99 E-value=72 Score=26.06 Aligned_cols=24 Identities=17% Similarity=0.084 Sum_probs=19.3
Q ss_pred CCCCCccHHHHHHHHHHHhhhHHH
Q 033110 92 GKDYPVGPVLLGFFVFVVIGSSLF 115 (127)
Q Consensus 92 ~~K~PVgP~wLgLfiFVVcGsaIF 115 (127)
|-.-|+.+||+.+|..-++=+.+.
T Consensus 21 E~~n~~P~ww~~~f~~~i~~~~~y 44 (285)
T TIGR00782 21 EYDNPLPRWWLWTFYATIVWGFGY 44 (285)
T ss_pred hhcCCCCHHHHHHHHHHHHHHHHH
Confidence 346899999999999877766666
No 30
>KOG4686 consensus Predicted sugar transporter [Carbohydrate transport and metabolism]
Probab=24.04 E-value=3.7e+02 Score=24.70 Aligned_cols=96 Identities=25% Similarity=0.197 Sum_probs=58.7
Q ss_pred ccccchhhccceeEehhhHHHH--HHHHH--HHHHHHHHHhhcccchhhHHHHHHHHHHhhhCCHHHHHHhhhhHHHHHh
Q 033110 2 RLQSDVIRSGGFVLFIKISFLI--MSNIA--RYCILVIVSQLNLRKSSLCLLMLSLIMMLDAQTTSKRLAVRKVDKFEKN 77 (127)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~--~~~~~~~i~ql~~r~~~~~~~~~s~~~~ldaqTp~qR~AN~Ks~kFaKN 77 (127)
-||+.|-|-|--|-|.-..|+- |++.| .--+.-|+--+=|-+|--.++.|.+.-.+.. +| |.++ -+++
T Consensus 175 GlqlSvAR~GstvNf~lm~~ly~~~~~~~~~~ghT~LG~~l~~~~~tc~~slical~lg~~D----~r-Aeri---lh~e 246 (459)
T KOG4686|consen 175 GLQLSVARLGSTVNFLLMPFLYDTMGRMFPGVGHTLLGLWLCFEVKTCKQSLICALSLGLSD----DR-AERI---LHLE 246 (459)
T ss_pred hHHHHHHHhhceeeeeecHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhh----hH-HHHH---Hhhh
Confidence 4789999999988877666653 44444 3345555555556677667777776555433 33 4444 7777
Q ss_pred hhccCCCCCccccCCCCCCccHHHHHHHHHH
Q 033110 78 IMKRGAVPETTTKKGKDYPVGPVLLGFFVFV 108 (127)
Q Consensus 78 i~KRGkv~ks~kkk~~K~PVgP~wLgLfiFV 108 (127)
+.+-|.+||-..-++- | .|.|+.+.+=|
T Consensus 247 ~g~~Ge~pkLtdv~~f-~--ppfw~~~iicv 274 (459)
T KOG4686|consen 247 EGFLGEEPKLTDVNTF-Y--PPFWVLVIICV 274 (459)
T ss_pred cCcccCCccccccccc-C--ccHHHHHHHHH
Confidence 7788987775433322 2 25665544433
No 31
>PRK06298 type III secretion system protein; Validated
Probab=23.01 E-value=81 Score=27.40 Aligned_cols=19 Identities=37% Similarity=0.601 Sum_probs=12.7
Q ss_pred CCHHHHHHhhhhHHHHHhhhccCCCCCc
Q 033110 60 QTTSKRLAVRKVDKFEKNIMKRGAVPET 87 (127)
Q Consensus 60 qTp~qR~AN~Ks~kFaKNi~KRGkv~ks 87 (127)
.++++|+...| +.|+|+++
T Consensus 7 ~pT~kkl~~AR---------ekGqV~kS 25 (356)
T PRK06298 7 KATPKRLRDAR---------KKGQVAKS 25 (356)
T ss_pred CCChhHHHHHH---------HcCCCccc
Confidence 45566664443 77999988
No 32
>TIGR01006 polys_exp_MPA1 polysaccharide export protein, MPA1 family, Gram-positive type. This family contains members from Low GC Gram-positive bacteria; they are proposed to have a function in the export of complex polysaccharides.
Probab=22.96 E-value=2.2e+02 Score=21.93 Aligned_cols=37 Identities=22% Similarity=0.187 Sum_probs=20.6
Q ss_pred HHHHhhhhHHHHHhhhc---cCCCCCccccCCCCCCccHH
Q 033110 64 KRLAVRKVDKFEKNIMK---RGAVPETTTKKGKDYPVGPV 100 (127)
Q Consensus 64 qR~AN~Ks~kFaKNi~K---RGkv~ks~kkk~~K~PVgP~ 100 (127)
+++||+=.+.|.+.+.+ .+++.--...+....|++|-
T Consensus 134 ~~ian~~~~~~~~~~~~~~~~~~~~vl~~a~~p~~p~~P~ 173 (226)
T TIGR01006 134 SKIANSLREVASKKIPKITNVSDVTTLEEAKPATTPSSPN 173 (226)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCcEEeecCCCCCCCCCCc
Confidence 47888766677777653 34422222233345777764
No 33
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=22.16 E-value=1.2e+02 Score=22.24 Aligned_cols=30 Identities=10% Similarity=0.017 Sum_probs=20.6
Q ss_pred CCCCCccHHHHHHHHHHHhhhHHHHHHHHh
Q 033110 92 GKDYPVGPVLLGFFVFVVIGSSLFQIIRTA 121 (127)
Q Consensus 92 ~~K~PVgP~wLgLfiFVVcGsaIFEIIr~i 121 (127)
++++|-+|+|...|+++=+..+++-+...+
T Consensus 67 D~~~~t~~~~tl~~lllGv~~G~~n~w~wi 96 (100)
T TIGR02230 67 DRHYPSPFSWTLTMLIVGVVIGCLNAWHWV 96 (100)
T ss_pred HhhcCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 356788888888877776666666554444
No 34
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=21.66 E-value=1.4e+02 Score=23.28 Aligned_cols=15 Identities=20% Similarity=0.155 Sum_probs=12.9
Q ss_pred HHHHHhhhCCHHHHH
Q 033110 52 SLIMMLDAQTTSKRL 66 (127)
Q Consensus 52 s~~~~ldaqTp~qR~ 66 (127)
.-|.++..+||+||-
T Consensus 129 ~~~~~~~vLTpEQRa 143 (170)
T PRK12750 129 KRHQMLSILTPEQKA 143 (170)
T ss_pred HHHHHHHhCCHHHHH
Confidence 468889999999994
No 35
>PF03137 OATP: Organic Anion Transporter Polypeptide (OATP) family; InterPro: IPR004156 This family consists of several eukaryotic Organic-Anion-Transporting Polypeptides (OATPs). Several have been identified mostly in human and rat. Different OATPs vary in tissue distribution and substrate specificity. Since the numbering of different OATPs in particular species was based originally on the order of discovery, similarly numbered OATPs in humans and rats did not necessarily correspond in function, tissue distribution and substrate specificity (in spite of the name, some OATPs also transport organic cations and neutral molecules) so a scheme of using digits for rat OATPs and letters for human ones was introduced []. Prostaglandin transporter (PGT) proteins are also considered to be OATP family members. In addition, the methotrexate transporter OATK is closely related to OATPs. This family also includes several predicted proteins from Caenorhabditis elegans and Drosophila melanogaster. This similarity was not previously noted. Note: Members of this family are described (in the UniProtKB/Swiss-Prot database) as belonging to the SLC21 family of transporters.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 3MRR_P.
Probab=21.43 E-value=31 Score=30.83 Aligned_cols=11 Identities=45% Similarity=0.875 Sum_probs=0.0
Q ss_pred ccHHHHHHHHH
Q 033110 97 VGPVLLGFFVF 107 (127)
Q Consensus 97 VgP~wLgLfiF 107 (127)
||.||||++++
T Consensus 225 vGAWWLGfli~ 235 (539)
T PF03137_consen 225 VGAWWLGFLIC 235 (539)
T ss_dssp -----------
T ss_pred HHHHHHHHHHH
Confidence 89999997654
No 36
>COG3678 CpxP P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]
Probab=21.22 E-value=2e+02 Score=22.45 Aligned_cols=25 Identities=24% Similarity=0.093 Sum_probs=20.6
Q ss_pred ccchhhHHHHHHHHHHhhhCCHHHH
Q 033110 41 LRKSSLCLLMLSLIMMLDAQTTSKR 65 (127)
Q Consensus 41 ~r~~~~~~~~~s~~~~ldaqTp~qR 65 (127)
.++..+.+-+=+-|.|....||+||
T Consensus 112 ~~~~~~~~r~k~~~~m~~vLTPEQr 136 (160)
T COG3678 112 QRQALRELRVKSDNQMYQVLTPEQR 136 (160)
T ss_pred HHHHHHHHHHHHHHHHHHhcCHHHH
Confidence 3556666777788999999999999
No 37
>PF10861 DUF2784: Protein of Unknown function (DUF2784); InterPro: IPR021218 This is a family of uncharacterised protein. The function is not known however it is conserved in Bacteria.
Probab=20.91 E-value=72 Score=23.59 Aligned_cols=14 Identities=50% Similarity=0.717 Sum_probs=11.5
Q ss_pred HHHHHHHHhhhHHH
Q 033110 102 LGFFVFVVIGSSLF 115 (127)
Q Consensus 102 LgLfiFVVcGsaIF 115 (127)
+++.+|||.|+.+.
T Consensus 13 ~~filFvv~G~~l~ 26 (112)
T PF10861_consen 13 LLFILFVVFGGFLA 26 (112)
T ss_pred HHHHHHHHHHHHHH
Confidence 57889999999763
No 38
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=20.90 E-value=1e+02 Score=24.68 Aligned_cols=17 Identities=24% Similarity=0.268 Sum_probs=14.3
Q ss_pred HHHHHHHHHHhhhHHHH
Q 033110 100 VLLGFFVFVVIGSSLFQ 116 (127)
Q Consensus 100 ~wLgLfiFVVcGsaIFE 116 (127)
||+.+.+|+||+.-++=
T Consensus 228 ~~~~~~i~~v~~~Fi~m 244 (251)
T PF09753_consen 228 CWTWLMIFVVIIVFIMM 244 (251)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999999876654
No 39
>PF11466 Doppel: Prion-like protein Doppel; InterPro: IPR021566 Dpl is a homologue related to the prion protein (PrP). Dpl is toxic to neurons and is expressed in the brains of mice that do not express PrP. In DHPC and SDS micelles, Dpl shoes about 40% alpha-helical structure however in aqueous solution it consists of a random coil. The alpha helical segment can adopt a transmembrane localisation also in a membrane. The unprocessed Dpl protein is thought to posses a possible channel formation mechanism which may be related to toxicity through direct interaction with cell membranes and damage to the cell membrane. ; PDB: 1Z65_A.
Probab=20.88 E-value=85 Score=19.01 Aligned_cols=13 Identities=15% Similarity=0.156 Sum_probs=9.2
Q ss_pred CCccHHHHHHHHH
Q 033110 95 YPVGPVLLGFFVF 107 (127)
Q Consensus 95 ~PVgP~wLgLfiF 107 (127)
-++|-|||+++.-
T Consensus 3 k~Lg~~~lAi~c~ 15 (30)
T PF11466_consen 3 KHLGGWWLAIVCV 15 (30)
T ss_dssp SS-SSHHHHHHHH
T ss_pred cchhhHHHHHHHH
Confidence 4789999997644
No 40
>PRK03557 zinc transporter ZitB; Provisional
Probab=20.11 E-value=2.2e+02 Score=23.52 Aligned_cols=68 Identities=18% Similarity=0.119 Sum_probs=42.8
Q ss_pred cchhhHHHHHHHHHHhhhCCHHHHHHhhhhHHHHHhhhccCCCCCccccCCCCCCcc--------HHHHHHHHHHHhhhH
Q 033110 42 RKSSLCLLMLSLIMMLDAQTTSKRLAVRKVDKFEKNIMKRGAVPETTTKKGKDYPVG--------PVLLGFFVFVVIGSS 113 (127)
Q Consensus 42 r~~~~~~~~~s~~~~ldaqTp~qR~AN~Ks~kFaKNi~KRGkv~ks~kkk~~K~PVg--------P~wLgLfiFVVcGsa 113 (127)
--.|.-.++=++|...|..+.--=+.-.| ..+| +.++++|-| ....++++|++++..
T Consensus 41 ~tgS~AllaDa~hsl~D~~~~~~~l~a~~-------~s~k--------p~d~~hpyG~~r~E~l~al~~~~~l~~~~~~i 105 (312)
T PRK03557 41 LSGSLALLADAGHMLTDAAALLFALLAVQ-------FSRR--------PPTIRHTFGWLRLTTLAAFVNAIALVVITILI 105 (312)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHH-------HhcC--------CCCCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566777888999888865443332222 2221 122345544 677888899888888
Q ss_pred HHHHHHHhhcC
Q 033110 114 LFQIIRTATSG 124 (127)
Q Consensus 114 IFEIIr~i~~g 124 (127)
+.|-+..+..+
T Consensus 106 ~~eai~~l~~~ 116 (312)
T PRK03557 106 VWEAIERFRTP 116 (312)
T ss_pred HHHHHHHHcCC
Confidence 88887776544
Done!