Query psy17151
Match_columns 86
No_of_seqs 22 out of 24
Neff 1.5
Searched_HMMs 46136
Date Fri Aug 16 23:14:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17151.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17151hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00595 PDZ: PDZ domain (Also 96.3 0.0054 1.2E-07 36.2 3.0 60 16-76 1-72 (81)
2 smart00228 PDZ Domain present 89.6 1.3 2.9E-05 24.8 4.7 47 15-63 3-49 (85)
3 cd00992 PDZ_signaling PDZ doma 74.9 13 0.00028 21.0 5.1 57 17-75 4-72 (82)
4 cd00136 PDZ PDZ domain, also c 59.1 15 0.00033 20.3 2.9 35 25-63 2-36 (70)
5 PF09686 Plasmid_RAQPRD: Plasm 58.3 5.2 0.00011 26.4 0.9 18 61-78 41-58 (81)
6 PF00011 HSP20: Hsp20/alpha cr 56.0 23 0.0005 21.4 3.5 26 11-47 77-102 (102)
7 TIGR01690 ICE_RAQPRD integrati 51.8 7 0.00015 26.8 0.8 19 59-77 52-70 (94)
8 KOG3551|consensus 44.0 15 0.00033 31.7 1.8 48 15-63 86-134 (506)
9 KOG3466|consensus 38.7 14 0.0003 27.9 0.7 24 35-58 72-95 (157)
10 PF08338 DUF1731: Domain of un 38.4 12 0.00026 22.0 0.3 17 59-75 30-46 (48)
11 PF13180 PDZ_2: PDZ domain; PD 37.6 43 0.00093 19.7 2.6 46 26-74 3-57 (82)
12 cd08023 GH16_laminarinase_like 37.4 21 0.00046 24.7 1.4 13 12-24 44-56 (235)
13 smart00701 PGRP Animal peptido 35.2 36 0.00079 23.2 2.3 37 4-40 64-110 (142)
14 PF05689 DUF823: Salmonella re 35.0 96 0.0021 22.2 4.5 40 8-47 2-46 (184)
15 COG0071 IbpA Molecular chapero 34.1 37 0.00079 22.7 2.1 14 11-24 122-135 (146)
16 PLN00162 transport protein sec 30.7 35 0.00075 29.4 1.9 18 34-51 696-713 (761)
17 COG3167 PilO Tfp pilus assembl 29.9 26 0.00057 27.4 1.0 10 39-48 159-168 (211)
18 cd02178 GH16_beta_agarase Beta 28.4 43 0.00093 24.2 1.8 14 11-24 63-76 (258)
19 cd00413 Glyco_hydrolase_16 gly 27.0 57 0.0012 21.7 2.1 18 7-24 32-49 (210)
20 PRK11597 heat shock chaperone 26.6 97 0.0021 21.7 3.3 27 11-49 111-137 (142)
21 KOG0986|consensus 26.2 45 0.00097 29.5 1.8 21 5-31 316-336 (591)
22 PF06687 SUR7: SUR7/PalI famil 25.6 46 0.001 22.4 1.5 23 48-70 65-87 (212)
23 KOG3605|consensus 25.0 32 0.0007 31.4 0.8 48 17-64 649-698 (829)
24 COG5293 Predicted ATPase [Gene 24.8 71 0.0015 28.3 2.8 27 6-32 452-479 (591)
25 KOG3591|consensus 24.4 96 0.0021 22.4 3.0 33 9-53 136-168 (173)
26 PRK11267 biopolymer transport 24.0 1.8E+02 0.0039 19.4 4.1 36 38-78 60-95 (141)
27 smart00644 Ami_2 Ami_2. 23.7 1.7E+02 0.0037 18.2 3.7 33 3-35 33-80 (126)
28 PF09947 DUF2180: Uncharacteri 22.9 45 0.00096 21.7 0.9 9 36-44 50-58 (68)
29 PF02852 Pyr_redox_dim: Pyridi 22.7 55 0.0012 20.2 1.3 26 7-32 43-69 (110)
30 KOG1515|consensus 22.5 2.5E+02 0.0054 22.2 5.2 55 5-69 64-118 (336)
31 PF02753 PapD_C: Pili assembly 22.4 19 0.00042 20.9 -0.8 15 59-73 6-20 (68)
32 TIGR02567 YscW type III secret 22.4 30 0.00064 24.5 0.0 41 29-69 23-76 (124)
33 PRK10772 cell division protein 22.2 21 0.00045 24.7 -0.7 14 31-44 2-15 (108)
34 KOG4419|consensus 22.1 76 0.0017 28.0 2.4 29 29-57 411-439 (602)
35 PF00661 Matrix: Viral matrix 21.1 2E+02 0.0042 23.4 4.4 56 12-67 105-167 (348)
36 PF10885 DUF2684: Protein of u 20.9 79 0.0017 22.0 1.9 27 3-29 52-78 (89)
37 TIGR02803 ExbD_1 TonB system t 20.8 2.4E+02 0.0052 18.1 4.1 37 37-78 45-81 (122)
38 PF01273 LBP_BPI_CETP: LBP / B 20.3 87 0.0019 20.2 1.9 30 4-33 97-129 (164)
No 1
>PF00595 PDZ: PDZ domain (Also known as DHR or GLGF) Coordinates are not yet available; InterPro: IPR001478 PDZ domains are found in diverse signalling proteins in bacteria, yeasts, plants, insects and vertebrates [, ]. PDZ domains can occur in one or multiple copies and are nearly always found in cytoplasmic proteins. They bind either the carboxyl-terminal sequences of proteins or internal peptide sequences []. In most cases, interaction between a PDZ domain and its target is constitutive, with a binding affinity of 1 to 10 microns. However, agonist-dependent activation of cell surface receptors is sometimes required to promote interaction with a PDZ protein. PDZ domain proteins are frequently associated with the plasma membrane, a compartment where high concentrations of phosphatidylinositol 4,5-bisphosphate (PIP2) are found. Direct interaction between PIP2 and a subset of class II PDZ domains (syntenin, CASK, Tiam-1) has been demonstrated. PDZ domains consist of 80 to 90 amino acids comprising six beta-strands (beta-A to beta-F) and two alpha-helices, A and B, compactly arranged in a globular structure. Peptide binding of the ligand takes place in an elongated surface groove as an anti-parallel beta-strand interacts with the beta-B strand and the B helix. The structure of PDZ domains allows binding to a free carboxylate group at the end of a peptide through a carboxylate-binding loop between the beta-A and beta-B strands.; GO: 0005515 protein binding; PDB: 3AXA_A 1WF8_A 1QAV_B 1QAU_A 1B8Q_A 1MC7_A 2KAW_A 1I16_A 1VB7_A 1WI4_A ....
Probab=96.26 E-value=0.0054 Score=36.20 Aligned_cols=60 Identities=13% Similarity=0.221 Sum_probs=48.8
Q ss_pred EEEEec-cCCceeeEEecCCCCCCCCceEEEEcCCCceeccCCCCCcee-----------eehhhhhhhhhhc
Q psy17151 16 RITVKK-SRPLLGMAIEGGANTKHPLPRIINIHDKLKISSMSQIPTPYH-----------FTYRELKSDIRSS 76 (86)
Q Consensus 16 ~i~V~K-~~~~LGIAIEGGaNTRqPLPRIitIq~gGsA~~cgqLkv~~~-----------~~~~~~~~~~~~~ 76 (86)
+|++.| ...-||+.+.++.....+-..|..|.++|.|...| |++|-. ++..+...-++++
T Consensus 1 ~v~l~k~~~~~lG~~l~~~~~~~~~~~~V~~v~~~~~a~~~g-l~~GD~Il~INg~~v~~~~~~~~~~~l~~~ 72 (81)
T PF00595_consen 1 QVTLEKSGNGPLGFTLRGGSDNDEKGVFVSSVVPGSPAERAG-LKVGDRILEINGQSVRGMSHDEVVQLLKSA 72 (81)
T ss_dssp EEEEEESTTSBSSEEEEEESTSSSEEEEEEEECTTSHHHHHT-SSTTEEEEEETTEESTTSBHHHHHHHHHHS
T ss_pred CEEEEeCCCCCcCEEEEecCCCCcCCEEEEEEeCCChHHhcc-cchhhhhheeCCEeCCCCCHHHHHHHHHCC
Confidence 467777 88899999999999887788999999999999999 999875 4555655555554
No 2
>smart00228 PDZ Domain present in PSD-95, Dlg, and ZO-1/2. Also called DHR (Dlg homologous region) or GLGF (relatively well conserved tetrapeptide in these domains). Some PDZs have been shown to bind C-terminal polypeptides; others appear to bind internal (non-C-terminal) polypeptides. Different PDZs possess different binding specificities.
Probab=89.61 E-value=1.3 Score=24.84 Aligned_cols=47 Identities=11% Similarity=0.081 Sum_probs=36.8
Q ss_pred eEEEEeccCCceeeEEecCCCCCCCCceEEEEcCCCceeccCCCCCcee
Q psy17151 15 LRITVKKSRPLLGMAIEGGANTKHPLPRIINIHDKLKISSMSQIPTPYH 63 (86)
Q Consensus 15 l~i~V~K~~~~LGIAIEGGaNTRqPLPRIitIq~gGsA~~cgqLkv~~~ 63 (86)
..+++.|....+|+-+..+.+.. +-..|-.|..++.|+.+| |+.|--
T Consensus 3 ~~~~~~~~~~~~G~~~~~~~~~~-~~~~i~~v~~~s~a~~~g-l~~GD~ 49 (85)
T smart00228 3 RLVELEKGGGGLGFSLVGGKDEG-GGVVVSSVVPGSPAAKAG-LKVGDV 49 (85)
T ss_pred EEEEEEECCCcccEEEECCCCCC-CCEEEEEECCCCHHHHcC-CCCCCE
Confidence 35677788789999999876543 347888999999999998 887754
No 3
>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.
Probab=74.94 E-value=13 Score=20.98 Aligned_cols=57 Identities=14% Similarity=0.158 Sum_probs=39.1
Q ss_pred EEEecc-CCceeeEEecCCCCCCCCceEEEEcCCCceeccCCCCCceee-----------ehhhhhhhhhh
Q psy17151 17 ITVKKS-RPLLGMAIEGGANTKHPLPRIINIHDKLKISSMSQIPTPYHF-----------TYRELKSDIRS 75 (86)
Q Consensus 17 i~V~K~-~~~LGIAIEGGaNTRqPLPRIitIq~gGsA~~cgqLkv~~~~-----------~~~~~~~~~~~ 75 (86)
+++.+. ..-+|+.+.++... .+-+.|..|..++.|.. ..|+.|... ++.++..-++.
T Consensus 4 ~~l~~~~~~~~G~~~~~~~~~-~~~~~V~~v~~~s~a~~-~gl~~GD~I~~ing~~i~~~~~~~~~~~l~~ 72 (82)
T cd00992 4 VTLRKDPGGGLGFSLRGGKDS-GGGIFVSRVEPGGPAER-GGLRVGDRILEVNGVSVEGLTHEEAVELLKN 72 (82)
T ss_pred EEEEeCCCCCcCEEEeCcccC-CCCeEEEEECCCChHHh-CCCCCCCEEEEECCEEcCccCHHHHHHHHHh
Confidence 455555 67789999987654 34578889999888888 567776543 45555555544
No 4
>cd00136 PDZ PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(pos
Probab=59.06 E-value=15 Score=20.31 Aligned_cols=35 Identities=14% Similarity=0.193 Sum_probs=25.6
Q ss_pred ceeeEEecCCCCCCCCceEEEEcCCCceeccCCCCCcee
Q psy17151 25 LLGMAIEGGANTKHPLPRIINIHDKLKISSMSQIPTPYH 63 (86)
Q Consensus 25 ~LGIAIEGGaNTRqPLPRIitIq~gGsA~~cgqLkv~~~ 63 (86)
-+|+.+.++.+ +-..|..+.+++.|+. ..|+.|-.
T Consensus 2 ~~G~~~~~~~~---~~~~V~~v~~~s~a~~-~gl~~GD~ 36 (70)
T cd00136 2 GLGFSIRGGTE---GGVVVLSVEPGSPAER-AGLQAGDV 36 (70)
T ss_pred CccEEEecCCC---CCEEEEEeCCCCHHHH-cCCCCCCE
Confidence 46888887776 4467888889988887 45777643
No 5
>PF09686 Plasmid_RAQPRD: Plasmid protein of unknown function (Plasmid_RAQPRD); InterPro: IPR019110 This entry identifies a family of proteins, around 100 amino acids in length, that include a predicted signal sequence and a perfectly conserved motif, RAQPRD, towards the C terminus. They are found in the Pseudomonas putida TOL plasmid pWW0 and in cryptic plasmid regions of Salmonella enterica subsp. enterica serovar Typhi and Pseudomonas syringae pv. tomato str. DC3000. The function of these proteins is unknown.
Probab=58.30 E-value=5.2 Score=26.41 Aligned_cols=18 Identities=39% Similarity=0.737 Sum_probs=15.2
Q ss_pred ceeeehhhhhhhhhhccc
Q psy17151 61 PYHFTYRELKSDIRSSRA 78 (86)
Q Consensus 61 ~~~~~~~~~~~~~~~~~~ 78 (86)
-|||.|.-|.+||..-|+
T Consensus 41 R~~FdY~rl~~Dl~~ir~ 58 (81)
T PF09686_consen 41 RYYFDYPRLRADLERIRA 58 (81)
T ss_pred ceeecHHHHHHHHHHHHH
Confidence 799999999999976543
No 6
>PF00011 HSP20: Hsp20/alpha crystallin family This prints entry is a subset of the Pfam entry.; InterPro: IPR002068 Prokaryotic and eukaryotic organisms respond to heat shock or other environmental stress by inducing the synthesis of proteins collectively known as heat-shock proteins (hsp) []. Amongst them is a family of proteins with an average molecular weight of 20 Kd, known as the hsp20 proteins []. These seem to act as chaperones that can protect other proteins against heat-induced denaturation and aggregation. Hsp20 proteins seem to form large heterooligomeric aggregates. Structurally, this family is characterised by the presence of a conserved C-terminal domain of about 100 residues.; PDB: 2BOL_B 3N3E_B 2H50_P 2H53_F 2BYU_L 1GME_D 3VQM_J 3VQK_E 3VQL_A 3AAC_A ....
Probab=56.04 E-value=23 Score=21.42 Aligned_cols=26 Identities=31% Similarity=0.460 Sum_probs=18.8
Q ss_pred cccceEEEEeccCCceeeEEecCCCCCCCCceEEEEc
Q psy17151 11 VQGQLRITVKKSRPLLGMAIEGGANTKHPLPRIINIH 47 (86)
Q Consensus 11 ~~Gnl~i~V~K~~~~LGIAIEGGaNTRqPLPRIitIq 47 (86)
.+|.|.|++.|..+ ...+-|+.|.|+
T Consensus 77 ~~GvL~I~~pk~~~-----------~~~~~~~~I~I~ 102 (102)
T PF00011_consen 77 ENGVLTITIPKKEE-----------EEDSQPKRIPIK 102 (102)
T ss_dssp TTSEEEEEEEBSSS-----------CTTSSSCEE-ET
T ss_pred cCCEEEEEEEcccc-----------ccCCCCeEEEeC
Confidence 68999999999876 222467777775
No 7
>TIGR01690 ICE_RAQPRD integrative conjugative element protein, RAQPRD family. This model represents a small family of proteins about 100 amino acids in length, including a predicted signal sequence and a perfectly conserved motif RAQPRD towards the C-terminus. Members are found in the Pseudomonas putida TOL plasmid pWW0 and in cryptic plasmid regions of Salmonella enterica subsp. enterica serovar Typhi and Pseudomonas syringae DC3000. The function is unknown.
Probab=51.83 E-value=7 Score=26.80 Aligned_cols=19 Identities=37% Similarity=0.812 Sum_probs=15.1
Q ss_pred CCceeeehhhhhhhhhhcc
Q psy17151 59 PTPYHFTYRELKSDIRSSR 77 (86)
Q Consensus 59 kv~~~~~~~~~~~~~~~~~ 77 (86)
+.-|||.|.-|..||..-|
T Consensus 52 ~~Ry~FDY~rl~~Dl~~ir 70 (94)
T TIGR01690 52 GDRYHFDYPRLRADLKRIR 70 (94)
T ss_pred CcCeecCHHHHHHHHHHHH
Confidence 4579999999999986543
No 8
>KOG3551|consensus
Probab=43.97 E-value=15 Score=31.72 Aligned_cols=48 Identities=27% Similarity=0.346 Sum_probs=39.2
Q ss_pred eEEEEec-cCCceeeEEecCCCCCCCCceEEEEcCCCceeccCCCCCcee
Q psy17151 15 LRITVKK-SRPLLGMAIEGGANTKHPLPRIINIHDKLKISSMSQIPTPYH 63 (86)
Q Consensus 15 l~i~V~K-~~~~LGIAIEGGaNTRqPLPRIitIq~gGsA~~cgqLkv~~~ 63 (86)
=+|+|.| .+.=|||.|-||--.+-|+ -|-+|-+|-+|.+.+-|.++--
T Consensus 86 R~V~V~K~d~gGLGISIKGGreNkMPI-lISKIFkGlAADQt~aL~~gDa 134 (506)
T KOG3551|consen 86 RRVRVVKQDAGGLGISIKGGRENKMPI-LISKIFKGLAADQTGALFLGDA 134 (506)
T ss_pred ceeEEEEecCCcceEEeecCcccCCce-ehhHhccccccccccceeeccE
Confidence 3566655 5778999999999988876 4668999999999999988753
No 9
>KOG3466|consensus
Probab=38.72 E-value=14 Score=27.90 Aligned_cols=24 Identities=17% Similarity=0.080 Sum_probs=20.2
Q ss_pred CCCCCCceEEEEcCCCceeccCCC
Q psy17151 35 NTKHPLPRIINIHDKLKISSMSQI 58 (86)
Q Consensus 35 NTRqPLPRIitIq~gGsA~~cgqL 58 (86)
-+|||-|.|+--..|||+|.---.
T Consensus 72 ~~rHpqP~ifp~spGGssy~R~~~ 95 (157)
T KOG3466|consen 72 EWRHPQPYIFPDSPGGSSYEREPC 95 (157)
T ss_pred hhcCCCccccCCCCCCCccccCCC
Confidence 479999999999999999964433
No 10
>PF08338 DUF1731: Domain of unknown function (DUF1731); InterPro: IPR013549 This domain of unknown function appears towards the C terminus of proteins of the NAD dependent epimerase/dehydratase family (IPR001509 from INTERPRO) in bacteria, eukaryotes and archaea. Many of the proteins in which it is found are involved in cell-division inhibition. ; PDB: 3OH8_A.
Probab=38.42 E-value=12 Score=21.96 Aligned_cols=17 Identities=24% Similarity=0.618 Sum_probs=10.1
Q ss_pred CCceeeehhhhhhhhhh
Q psy17151 59 PTPYHFTYRELKSDIRS 75 (86)
Q Consensus 59 kv~~~~~~~~~~~~~~~ 75 (86)
..||.|.|.+|.+-++.
T Consensus 30 ~~GF~F~~p~l~~AL~~ 46 (48)
T PF08338_consen 30 EAGFQFRYPTLEEALRD 46 (48)
T ss_dssp HTT---S-SSHHHHHHH
T ss_pred HCCCcccCCCHHHHHhc
Confidence 46899999999887764
No 11
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=37.63 E-value=43 Score=19.66 Aligned_cols=46 Identities=7% Similarity=0.091 Sum_probs=28.4
Q ss_pred eeeEEecCCCCCCCCceEEEEcCCCceeccCCCCCceee---------ehhhhhhhhh
Q psy17151 26 LGMAIEGGANTKHPLPRIINIHDKLKISSMSQIPTPYHF---------TYRELKSDIR 74 (86)
Q Consensus 26 LGIAIEGGaNTRqPLPRIitIq~gGsA~~cgqLkv~~~~---------~~~~~~~~~~ 74 (86)
||+.++.-.+ ..-..|..+.+++.|+.+| |+.|=-. +..++...+.
T Consensus 3 lGv~~~~~~~--~~g~~V~~V~~~spA~~aG-l~~GD~I~~ing~~v~~~~~~~~~l~ 57 (82)
T PF13180_consen 3 LGVTVQNLSD--TGGVVVVSVIPGSPAAKAG-LQPGDIILAINGKPVNSSEDLVNILS 57 (82)
T ss_dssp -SEEEEECSC--SSSEEEEEESTTSHHHHTT-S-TTEEEEEETTEESSSHHHHHHHHH
T ss_pred ECeEEEEccC--CCeEEEEEeCCCCcHHHCC-CCCCcEEEEECCEEcCCHHHHHHHHH
Confidence 4555554333 3356788999999999988 8876443 4555555554
No 12
>cd08023 GH16_laminarinase_like Laminarinase, member of the glycosyl hydrolase family 16. Laminarinase, also known as glucan endo-1,3-beta-D-glucosidase, is a glycosyl hydrolase family 16 member that hydrolyzes 1,3-beta-D-glucosidic linkages in 1,3-beta-D-glucans such as laminarins, curdlans, paramylons, and pachymans, with very limited action on mixed-link (1,3-1,4-)-beta-D-glucans.
Probab=37.42 E-value=21 Score=24.71 Aligned_cols=13 Identities=38% Similarity=0.547 Sum_probs=9.2
Q ss_pred ccceEEEEeccCC
Q psy17151 12 QGQLRITVKKSRP 24 (86)
Q Consensus 12 ~Gnl~i~V~K~~~ 24 (86)
.|+|+|++.+...
T Consensus 44 ~G~L~i~~~~~~~ 56 (235)
T cd08023 44 DGNLVITARKEPD 56 (235)
T ss_pred CCEEEEEEEECCC
Confidence 6888888776543
No 13
>smart00701 PGRP Animal peptidoglycan recognition proteins homologous to Bacteriophage T3 lysozyme. The bacteriophage molecule, but not its moth homologue, has been shown to have N-acetylmuramoyl-L-alanine amidase activity. One member of this family, Tag7, is a cytokine.
Probab=35.22 E-value=36 Score=23.21 Aligned_cols=37 Identities=19% Similarity=0.144 Sum_probs=24.5
Q ss_pred cceeeeccccceEEE----------EeccCCceeeEEecCCCCCCCC
Q psy17151 4 SNVVISEVQGQLRIT----------VKKSRPLLGMAIEGGANTKHPL 40 (86)
Q Consensus 4 ~~~vv~d~~Gnl~i~----------V~K~~~~LGIAIEGGaNTRqPL 40 (86)
+-+.+.|.+|++-.- .--+...+||+++|......|-
T Consensus 64 gYhflI~~dG~IyeGR~~~~~gah~~g~N~~sigI~~iG~~~~~~pt 110 (142)
T smart00701 64 GYNFLVGGDGKVYEGRGWNVVGAHTGGYNDISLGIAFIGNFTDKLPT 110 (142)
T ss_pred CCeEEEcCCCEEEECCCCCcccccccCCCCCeEEEEEEeCCCCCCCc
Confidence 445556666655321 1235678999999999888774
No 14
>PF05689 DUF823: Salmonella repeat of unknown function (DUF823); InterPro: IPR008541 This family consists of a series of repeated sequences (of around 180 residues) which are found in Salmonella typhimurium, Salmonella typhi and Escherichia coli. These repeats are almost always found with IPR008542 from INTERPRO. The repeats are associated with RatA and RatB, the coding sequences of which are found in the pathogeneicity island of Salmonella. The sequences may be determinants of pathogenicity [, ].
Probab=35.00 E-value=96 Score=22.21 Aligned_cols=40 Identities=18% Similarity=0.286 Sum_probs=33.2
Q ss_pred eeccccceEEEEeccCC-----ceeeEEecCCCCCCCCceEEEEc
Q psy17151 8 ISEVQGQLRITVKKSRP-----LLGMAIEGGANTKHPLPRIINIH 47 (86)
Q Consensus 8 v~d~~Gnl~i~V~K~~~-----~LGIAIEGGaNTRqPLPRIitIq 47 (86)
+.|.+|.+.++|..... .|-+...+.+....-|+-|.|+.
T Consensus 2 ~T~~~G~~~~~vtq~~~~G~kT~l~~~~~~~~~~~~~~dvIFTV~ 46 (184)
T PF05689_consen 2 VTGADGTATFTVTQPNGPGLKTPLTATLDDDATVTASLDVIFTVI 46 (184)
T ss_pred ccCCCCcEEEEEEcCCCCCEeeeEEEEeCCCCccceeccEEEEEe
Confidence 46899999999988643 36678889998888899999985
No 15
>COG0071 IbpA Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=34.14 E-value=37 Score=22.70 Aligned_cols=14 Identities=36% Similarity=0.641 Sum_probs=12.2
Q ss_pred cccceEEEEeccCC
Q psy17151 11 VQGQLRITVKKSRP 24 (86)
Q Consensus 11 ~~Gnl~i~V~K~~~ 24 (86)
.+|.|+|++.|..+
T Consensus 122 ~nGvL~I~lpk~~~ 135 (146)
T COG0071 122 KNGLLTVTLPKAEP 135 (146)
T ss_pred eCcEEEEEEecccc
Confidence 47999999999776
No 16
>PLN00162 transport protein sec23; Provisional
Probab=30.73 E-value=35 Score=29.41 Aligned_cols=18 Identities=17% Similarity=0.453 Sum_probs=16.1
Q ss_pred CCCCCCCceEEEEcCCCc
Q psy17151 34 ANTKHPLPRIINIHDKLK 51 (86)
Q Consensus 34 aNTRqPLPRIitIq~gGs 51 (86)
.+.|-|+||+|.-+.|||
T Consensus 696 ~~~Rfp~Pr~i~~~~~~S 713 (761)
T PLN00162 696 IKERFPVPRLVVCDQHGS 713 (761)
T ss_pred HhcCCCCCeEEEeCCCCc
Confidence 357999999999999997
No 17
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=29.93 E-value=26 Score=27.38 Aligned_cols=10 Identities=70% Similarity=1.288 Sum_probs=8.7
Q ss_pred CCceEEEEcC
Q psy17151 39 PLPRIINIHD 48 (86)
Q Consensus 39 PLPRIitIq~ 48 (86)
-||||||.|+
T Consensus 159 sLpRIiTl~d 168 (211)
T COG3167 159 SLPRIITLHD 168 (211)
T ss_pred hcceeeeeec
Confidence 5999999875
No 18
>cd02178 GH16_beta_agarase Beta-agarase, member of glycosyl hydrolase family 16. Beta-agarase is a glycosyl hydrolase family 16 (GH16) member that hydrolyzes the internal beta-1,4-linkage of agarose, a hydrophilic polysaccharide found in the cell wall of Rhodophyceaea, marine red algae. Agarose is a linear chain of galactose units linked by alternating L-alpha-1,3- and D-beta-1,4-linkages that are additionally modified by a 3,6-anhydro-bridge. Agarose forms thermo-reversible gels that are widely used in the food industry or as a laboratory medium. While beta-agarases are also found in two other families derived from the sequence-based classification of glycosyl hydrolases (GH50, and GH86) the GH16 members are most abundant. This domain adopts a curved beta-sandwich conformation, with a tunnel-shaped active site cavity, referred to as a jellyroll fold.
Probab=28.42 E-value=43 Score=24.18 Aligned_cols=14 Identities=14% Similarity=0.306 Sum_probs=11.1
Q ss_pred cccceEEEEeccCC
Q psy17151 11 VQGQLRITVKKSRP 24 (86)
Q Consensus 11 ~~Gnl~i~V~K~~~ 24 (86)
.+|+|+|++.+...
T Consensus 63 ~~G~L~i~a~~~~~ 76 (258)
T cd02178 63 EDGNLVLSATRHPG 76 (258)
T ss_pred ECCEEEEEEEcCCC
Confidence 46999999988753
No 19
>cd00413 Glyco_hydrolase_16 glycosyl hydrolase family 16. The O-Glycosyl hydrolases are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A glycosyl hydrolase classification system based on sequence similarity has led to the definition of more than 95 different families inlcuding glycosyl hydrolase family 16. Family 16 includes lichenase, xyloglucan endotransglycosylase (XET), beta-agarase, kappa-carrageenase, endo-beta-1,3-glucanase, endo-beta-1,3-1,4-glucanase, and endo-beta-galactosidase, all of which have a conserved jelly roll fold with a deep active site channel harboring the catalytic residues.
Probab=26.96 E-value=57 Score=21.68 Aligned_cols=18 Identities=22% Similarity=0.396 Sum_probs=11.7
Q ss_pred eeeccccceEEEEeccCC
Q psy17151 7 VISEVQGQLRITVKKSRP 24 (86)
Q Consensus 7 vv~d~~Gnl~i~V~K~~~ 24 (86)
|..+.+|+|+|++.+...
T Consensus 32 v~~~~~G~L~l~~~~~~~ 49 (210)
T cd00413 32 VYVENDGGLTLRTDRDQT 49 (210)
T ss_pred EEEeCCCeEEEEEEecCC
Confidence 344446888888876543
No 20
>PRK11597 heat shock chaperone IbpB; Provisional
Probab=26.65 E-value=97 Score=21.69 Aligned_cols=27 Identities=30% Similarity=0.559 Sum_probs=19.5
Q ss_pred cccceEEEEeccCCceeeEEecCCCCCCCCceEEEEcCC
Q psy17151 11 VQGQLRITVKKSRPLLGMAIEGGANTKHPLPRIINIHDK 49 (86)
Q Consensus 11 ~~Gnl~i~V~K~~~~LGIAIEGGaNTRqPLPRIitIq~g 49 (86)
.+|-|+|++.|..+ .++-||-|.|++.
T Consensus 111 ~nGVL~I~lPK~~~------------~~~~~rkI~I~~~ 137 (142)
T PRK11597 111 VNGLLHIDLIRNEP------------EAIAPQRIAISER 137 (142)
T ss_pred cCCEEEEEEeccCc------------cccCCcEEEECCc
Confidence 47999999999743 2335788888764
No 21
>KOG0986|consensus
Probab=26.24 E-value=45 Score=29.49 Aligned_cols=21 Identities=33% Similarity=0.646 Sum_probs=17.8
Q ss_pred ceeeeccccceEEEEeccCCceeeEEe
Q psy17151 5 NVVISEVQGQLRITVKKSRPLLGMAIE 31 (86)
Q Consensus 5 ~~vv~d~~Gnl~i~V~K~~~~LGIAIE 31 (86)
++|..|..|++|| |-||+|+|
T Consensus 316 eNILLDd~GhvRI------SDLGLAve 336 (591)
T KOG0986|consen 316 ENILLDDHGHVRI------SDLGLAVE 336 (591)
T ss_pred hheeeccCCCeEe------eccceEEe
Confidence 5788999999998 56899987
No 22
>PF06687 SUR7: SUR7/PalI family; InterPro: IPR009571 This family consists of several fungal-specific SUR7 proteins. Its activity regulates expression of RVS161, a homologue of human endophilin, suggesting a function for both in endocytosis [, ]. The protein carries four transmembrane domains and is thus likely to act as an anchoring protein for the eisosome to the plasma membrane. Eisosomes are the immobile protein complexes, that include the proteins Pil1 and Lsp1, which co-localise with sites of protein and lipid endocytosis at the plasma membrane. SUR7 protein may play a role in sporulation []. Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This family also includes PalI which is part of a pH signal transduction cascade. Based on the similarity of PalI to the yeast Rim9 meiotic signal transduction component it has been suggested that PalI might be a membrane sensor for ambient pH [].
Probab=25.57 E-value=46 Score=22.43 Aligned_cols=23 Identities=30% Similarity=0.374 Sum_probs=18.2
Q ss_pred CCCceeccCCCCCceeeehhhhh
Q psy17151 48 DKLKISSMSQIPTPYHFTYRELK 70 (86)
Q Consensus 48 ~gGsA~~cgqLkv~~~~~~~~~~ 70 (86)
.+...-+|+.-+++|+|.++|.-
T Consensus 65 ~~~~~~~Cs~~~~~y~f~~~~~~ 87 (212)
T PF06687_consen 65 NGTNITSCSSPSPGYPFDPREIL 87 (212)
T ss_pred CCCCCCccCCCCCCCCCCHHHHh
Confidence 44456689999999999999643
No 23
>KOG3605|consensus
Probab=25.04 E-value=32 Score=31.40 Aligned_cols=48 Identities=19% Similarity=0.256 Sum_probs=38.8
Q ss_pred EEEec-cCCceeeEE-ecCCCCCCCCceEEEEcCCCceeccCCCCCceee
Q psy17151 17 ITVKK-SRPLLGMAI-EGGANTKHPLPRIINIHDKLKISSMSQIPTPYHF 64 (86)
Q Consensus 17 i~V~K-~~~~LGIAI-EGGaNTRqPLPRIitIq~gGsA~~cgqLkv~~~~ 64 (86)
|-|.| .--+||++| |-|-+.--|-=-|.|.-.+|.|--||||..|-..
T Consensus 649 Vvv~K~kGEiLGVViVESGWGSmLPTVViAnmm~~GpAarsgkLnIGDQi 698 (829)
T KOG3605|consen 649 VVLEKHKGEILGVVIVESGWGSILPTVVIANMMHGGPAARSGKLNIGDQI 698 (829)
T ss_pred eeeecccCceeeEEEEecCccccchHHHHHhcccCChhhhcCCcccccee
Confidence 44444 346899985 8899988887789999999999999999988654
No 24
>COG5293 Predicted ATPase [General function prediction only]
Probab=24.83 E-value=71 Score=28.27 Aligned_cols=27 Identities=26% Similarity=0.391 Sum_probs=23.4
Q ss_pred eeeeccccceEEEEeccC-CceeeEEec
Q psy17151 6 VVISEVQGQLRITVKKSR-PLLGMAIEG 32 (86)
Q Consensus 6 ~vv~d~~Gnl~i~V~K~~-~~LGIAIEG 32 (86)
+++-|..|.|+|++-|++ .+.|+-|.-
T Consensus 452 r~~yd~~G~L~~~~~kng~~tfg~eI~~ 479 (591)
T COG5293 452 REVYDCYGSLRVTTNKNGHLTFGAEITD 479 (591)
T ss_pred HHHhcCCCeEEEEecCCCceeeeeeeec
Confidence 567899999999999999 899977755
No 25
>KOG3591|consensus
Probab=24.44 E-value=96 Score=22.38 Aligned_cols=33 Identities=24% Similarity=0.178 Sum_probs=25.6
Q ss_pred eccccceEEEEeccCCceeeEEecCCCCCCCCceEEEEcCCCcee
Q psy17151 9 SEVQGQLRITVKKSRPLLGMAIEGGANTKHPLPRIINIHDKLKIS 53 (86)
Q Consensus 9 ~d~~Gnl~i~V~K~~~~LGIAIEGGaNTRqPLPRIitIq~gGsA~ 53 (86)
.+.+|-|.|.+.|.++.+- -.|+|.|+..|..+
T Consensus 136 LS~dGvLtI~ap~~~~~~~------------~er~ipI~~~~~~~ 168 (173)
T KOG3591|consen 136 LSSDGVLTIEAPKPPPKQD------------NERSIPIEQVGPSA 168 (173)
T ss_pred eCCCceEEEEccCCCCcCc------------cceEEeEeecCccc
Confidence 5689999999999887543 46888888777654
No 26
>PRK11267 biopolymer transport protein ExbD; Provisional
Probab=24.01 E-value=1.8e+02 Score=19.43 Aligned_cols=36 Identities=6% Similarity=0.028 Sum_probs=26.8
Q ss_pred CCCceEEEEcCCCceeccCCCCCceeeehhhhhhhhhhccc
Q psy17151 38 HPLPRIINIHDKLKISSMSQIPTPYHFTYRELKSDIRSSRA 78 (86)
Q Consensus 38 qPLPRIitIq~gGsA~~cgqLkv~~~~~~~~~~~~~~~~~~ 78 (86)
.+-|.+|+|..+|..|.-++. ++..+|++.++..++
T Consensus 60 ~~~~~~i~I~~~g~i~~~~~~-----v~~~~L~~~L~~~~~ 95 (141)
T PRK11267 60 PEKPVYLSVKADNSMFIGNDP-----VTDETMITALDALTE 95 (141)
T ss_pred CCCCEEEEEeCCCCEEECCcc-----ccHHHHHHHHHHHHh
Confidence 345779999999999886653 466888888876544
No 27
>smart00644 Ami_2 Ami_2.
Probab=23.70 E-value=1.7e+02 Score=18.16 Aligned_cols=33 Identities=12% Similarity=0.158 Sum_probs=21.4
Q ss_pred ccceeeeccccceEEEEec---------------cCCceeeEEecCCC
Q psy17151 3 LSNVVISEVQGQLRITVKK---------------SRPLLGMAIEGGAN 35 (86)
Q Consensus 3 ~~~~vv~d~~Gnl~i~V~K---------------~~~~LGIAIEGGaN 35 (86)
.+++.+.|.+|.+---+.. +...+||+++|...
T Consensus 33 ~~~H~~I~~dG~i~~~~~~~~~awh~~~~~~~~~N~~sigIe~~g~~~ 80 (126)
T smart00644 33 IGYHFLVGGDGRVYQGVGWNYVAWHAGGAHTPGYNDISIGIEFIGSFD 80 (126)
T ss_pred eeeEEEEcCCCEEEEccCCcccccccccccccCCCCCEEEEEEEeCCc
Confidence 4666777777766555433 34578888887654
No 28
>PF09947 DUF2180: Uncharacterized protein conserved in archaea (DUF2180); InterPro: IPR017211 This group represents a predicted zinc finger protein, AF1427 type.
Probab=22.91 E-value=45 Score=21.74 Aligned_cols=9 Identities=67% Similarity=1.228 Sum_probs=7.8
Q ss_pred CCCCCceEE
Q psy17151 36 TKHPLPRII 44 (86)
Q Consensus 36 TRqPLPRIi 44 (86)
+++|||||.
T Consensus 50 ~~~~l~Ril 58 (68)
T PF09947_consen 50 LKKPLPRIL 58 (68)
T ss_pred ccCCCCeee
Confidence 589999996
No 29
>PF02852 Pyr_redox_dim: Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; InterPro: IPR004099 This entry represents a dimerisation domain that is usually found at the C-terminal of both class I and class II oxidoreductases, as well as in NADH oxidases and peroxidases [, , ].; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0045454 cell redox homeostasis, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 3II4_B 2A8X_A 2BC0_B 2BC1_B 2W0H_A 2X50_B 2JK6_A 2YAU_A 2EQ9_E 2EQ6_B ....
Probab=22.70 E-value=55 Score=20.23 Aligned_cols=26 Identities=27% Similarity=0.503 Sum_probs=21.7
Q ss_pred eeeccccceEEEEec-cCCceeeEEec
Q psy17151 7 VISEVQGQLRITVKK-SRPLLGMAIEG 32 (86)
Q Consensus 7 vv~d~~Gnl~i~V~K-~~~~LGIAIEG 32 (86)
...+.+|.+.+.+.| +..+||..+-|
T Consensus 43 ~~~~~~g~~Kli~d~~t~~IlGa~~vg 69 (110)
T PF02852_consen 43 YYPETEGFVKLIFDKKTGRILGAQIVG 69 (110)
T ss_dssp HTTTTEEEEEEEEETTTTBEEEEEEEE
T ss_pred ccCCcceeeEEEEEeeccceeeeeeec
Confidence 445678999998887 88999999988
No 30
>KOG1515|consensus
Probab=22.47 E-value=2.5e+02 Score=22.19 Aligned_cols=55 Identities=15% Similarity=0.180 Sum_probs=37.5
Q ss_pred ceeeeccccceEEEEeccCCceeeEEecCCCCCCCCceEEEEcCCCceeccCCCCCceeeehhhh
Q psy17151 5 NVVISEVQGQLRITVKKSRPLLGMAIEGGANTKHPLPRIINIHDKLKISSMSQIPTPYHFTYREL 69 (86)
Q Consensus 5 ~~vv~d~~Gnl~i~V~K~~~~LGIAIEGGaNTRqPLPRIitIq~gGsA~~cgqLkv~~~~~~~~~ 69 (86)
-.|..+..+++.+|+-.-.+. ...+.+|-||-+|.||-+......+ .||.--+.+
T Consensus 64 ~dv~~~~~~~l~vRly~P~~~---------~~~~~~p~lvyfHGGGf~~~S~~~~-~y~~~~~~~ 118 (336)
T KOG1515|consen 64 KDVTIDPFTNLPVRLYRPTSS---------SSETKLPVLVYFHGGGFCLGSANSP-AYDSFCTRL 118 (336)
T ss_pred eeeEecCCCCeEEEEEcCCCC---------CcccCceEEEEEeCCccEeCCCCCc-hhHHHHHHH
Confidence 456778888888887655441 1117899999999999887665544 355544444
No 31
>PF02753 PapD_C: Pili assembly chaperone PapD, C-terminal domain; InterPro: IPR016148 Most Gram-negative bacteria possess a supramolecular structure - the pili - on their surface, which mediates attachment to specific receptors. Many interactive subunits are required to assemble pili, but their assembly only takes place after translocation across the cytoplasmic membrane. Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation [, ]. Pili chaperones are structurally, and possibly evolutionarily, related to the immunoglobulin superfamily [, ]: they contain two globular domains, with a topology identical to an immunoglobulin fold. This entry represents the C-terminal domain of pili assembly chaperone, and has a beta-sandwich fold consisting of eight strands in two sheets with a Greek key topology.; GO: 0007047 cellular cell wall organization, 0030288 outer membrane-bounded periplasmic space; PDB: 2UY7_C 2UY6_A 2W07_A 3GFU_A 3F65_F 3F6L_A 3F6I_A 3GEW_B 1PDK_A 2XG4_A ....
Probab=22.43 E-value=19 Score=20.86 Aligned_cols=15 Identities=47% Similarity=0.638 Sum_probs=10.6
Q ss_pred CCceeeehhhhhhhh
Q psy17151 59 PTPYHFTYRELKSDI 73 (86)
Q Consensus 59 kv~~~~~~~~~~~~~ 73 (86)
++|||+|+.+++-+-
T Consensus 6 pTPy~vtl~~~~~~~ 20 (68)
T PF02753_consen 6 PTPYYVTLSSLKLNG 20 (68)
T ss_dssp -SSS-EEEEEEEETH
T ss_pred CCCcEEEEEeeeecc
Confidence 579999999887663
No 32
>TIGR02567 YscW type III secretion system chaperone YscW. This family of proteins is found within type III secretion operons. The protein has been characterized as a chaperone for the outer membrane pore component YscC (TIGR02516). YscW is a lipoprotein which is itself localized to the outer membrane and, it is believed, facilitates the oligomerization and localization of YscC.
Probab=22.37 E-value=30 Score=24.48 Aligned_cols=41 Identities=22% Similarity=0.271 Sum_probs=26.4
Q ss_pred EEecCCCCCCCCceEEEEc------CCC-------ceeccCCCCCceeeehhhh
Q psy17151 29 AIEGGANTKHPLPRIINIH------DKL-------KISSMSQIPTPYHFTYREL 69 (86)
Q Consensus 29 AIEGGaNTRqPLPRIitIq------~gG-------sA~~cgqLkv~~~~~~~~~ 69 (86)
-|.|=+.-+-+||+..+|. -+| ..|+-.+|+++|+|+.-.+
T Consensus 23 ~i~G~V~~~~~LP~~a~i~V~i~~V~d~~~l~vA~~~y~~~~lPv~FsF~l~~~ 76 (124)
T TIGR02567 23 NVYGWVSMEYHLPRSAYIEVSMCQVVEGKVLTVAEQHYRGVQLPVQYSFLLNPI 76 (124)
T ss_pred EEEEEEEEEEcCCCCCEEEEEEEEecCCceEEEEEeecccccccccEEEEcCHH
Confidence 3455555556777654432 122 3588899999999987653
No 33
>PRK10772 cell division protein FtsL; Provisional
Probab=22.19 E-value=21 Score=24.66 Aligned_cols=14 Identities=50% Similarity=0.999 Sum_probs=12.0
Q ss_pred ecCCCCCCCCceEE
Q psy17151 31 EGGANTKHPLPRII 44 (86)
Q Consensus 31 EGGaNTRqPLPRIi 44 (86)
-||.++|.||++||
T Consensus 2 ~~~~~~~~~L~~iI 15 (108)
T PRK10772 2 IGGSNERHALPGVI 15 (108)
T ss_pred CCCCCCCCChHHHH
Confidence 48899999999886
No 34
>KOG4419|consensus
Probab=22.09 E-value=76 Score=27.99 Aligned_cols=29 Identities=17% Similarity=0.225 Sum_probs=22.5
Q ss_pred EEecCCCCCCCCceEEEEcCCCceeccCC
Q psy17151 29 AIEGGANTKHPLPRIINIHDKLKISSMSQ 57 (86)
Q Consensus 29 AIEGGaNTRqPLPRIitIq~gGsA~~cgq 57 (86)
+.-=+..-|.|+|+||.+..||..|..=.
T Consensus 411 p~l~~~~~R~pip~~i~~n~G~Iry~~l~ 439 (602)
T KOG4419|consen 411 PLLNVGGNRSPIPHIIISNNGGIRYSLLE 439 (602)
T ss_pred ceeccCCCCCCcceeEEecCCcccchhhc
Confidence 34445567999999999999999997533
No 35
>PF00661 Matrix: Viral matrix protein; InterPro: IPR000982 The matrix protein plays a crucial role in virus assembly, and interacts with the RNP complex as well as with the viral membrane. It is found in Morbillivirus, Paramyxovirus, Pneumovirus.; GO: 0005198 structural molecule activity, 0019068 virion assembly
Probab=21.06 E-value=2e+02 Score=23.35 Aligned_cols=56 Identities=20% Similarity=0.161 Sum_probs=37.8
Q ss_pred ccceEEEEeccCCceeeEEecCCCCCCCCceEEEEcCCCceecc-------CCCCCceeeehh
Q psy17151 12 QGQLRITVKKSRPLLGMAIEGGANTKHPLPRIINIHDKLKISSM-------SQIPTPYHFTYR 67 (86)
Q Consensus 12 ~Gnl~i~V~K~~~~LGIAIEGGaNTRqPLPRIitIq~gGsA~~c-------gqLkv~~~~~~~ 67 (86)
=-.|.|+|+|+|..==-.+-+=.+.-+.|-.--.+..+|+.+++ +.+..+-++.||
T Consensus 105 ~~~l~I~VRkTA~~~EkiVf~~~~~p~~L~~~~~v~~~g~i~~A~k~vkap~ki~~~~~y~fr 167 (348)
T PF00661_consen 105 CTELDITVRKTAGSKEKIVFSINTPPPLLTPWKKVLNGGSIFSAEKVVKAPEKIPAGVPYRFR 167 (348)
T ss_pred HhcceEEEEecCCCceEEEEEccCCCccccceeeeccCceEEchhhhccCccccCCCCceEEE
Confidence 34689999999986555555555555555556677888888876 345555555554
No 36
>PF10885 DUF2684: Protein of unknown function (DUF2684); InterPro: IPR020263 This entry contains proteins with no known function.
Probab=20.86 E-value=79 Score=22.02 Aligned_cols=27 Identities=22% Similarity=0.347 Sum_probs=23.1
Q ss_pred ccceeeeccccceEEEEeccCCceeeE
Q psy17151 3 LSNVVISEVQGQLRITVKKSRPLLGMA 29 (86)
Q Consensus 3 ~~~~vv~d~~Gnl~i~V~K~~~~LGIA 29 (86)
-...+++|.-|+++|-+.--.+.|||-
T Consensus 52 t~leIFpDna~~~rIy~L~Fs~~~GiK 78 (89)
T PF10885_consen 52 TWLEIFPDNAGIVRIYLLHFSPVLGIK 78 (89)
T ss_pred ceeEeccCCCCcEEEEEEEEeeeeccc
Confidence 345688999999999999999999873
No 37
>TIGR02803 ExbD_1 TonB system transport protein ExbD, group 1. Members of this family are Gram-negative bacterial inner membrane proteins, generally designated ExbD, related to the TolR family modeled by TIGRFAMs TIGR02801. Members always are encoded next to a protein designated ExbB (TIGR02797), related to the TolQ family modeled by TIGRFAMs TIGR02796. ExbD and ExbB together form a proton channel through which they can harness the proton-motive force to energize TonB, which in turn energizes TonB-dependent receptors in the outer membrane. TonB-dependent receptors with known specificity tend to import siderophores or vitamin B12. A TonB system and Tol-Pal system often will co-exist in a single bacterial genome.
Probab=20.80 E-value=2.4e+02 Score=18.13 Aligned_cols=37 Identities=8% Similarity=0.139 Sum_probs=26.7
Q ss_pred CCCCceEEEEcCCCceeccCCCCCceeeehhhhhhhhhhccc
Q psy17151 37 KHPLPRIINIHDKLKISSMSQIPTPYHFTYRELKSDIRSSRA 78 (86)
Q Consensus 37 RqPLPRIitIq~gGsA~~cgqLkv~~~~~~~~~~~~~~~~~~ 78 (86)
..+.|.+++|..+|..|.-++. .+..+|...++...+
T Consensus 45 ~~~~~~~i~I~~~g~~~~~~~~-----v~~~~L~~~l~~~~~ 81 (122)
T TIGR02803 45 RPEKPVYVSVKADLSLFVGNDP-----VARETLGTALDALTE 81 (122)
T ss_pred CCCCCEEEEEeCCCCEEECCcc-----CCHHHHHHHHHHHHh
Confidence 4457889999999998886643 456788877765443
No 38
>PF01273 LBP_BPI_CETP: LBP / BPI / CETP family, N-terminal domain; InterPro: IPR017942 This entry represents the N-terminal domain found in several lipid-binding serum glycoproteins. The N- and C-terminal domains share a similar two-layer alpha/beta structure, but they show little sequence identity. Proteins containing this N-terminal domain include: Bactericidal permeability-increasing protein (BPI) Lipopolysaccharide-binding protein (LBP) Cholesteryl ester transfer protein (CETP) Phospholipid transfer protein (PLTP) Palate, lung and nasal epithelium carcinoma-associated protein (PLUNC) Bactericidal permeability-increasing protein (BPI) is a potent antimicrobial protein of 456 residues that binds to and neutralises lipopolysaccharides from the outer membrane of Gram-negative bacteria []. BPI contains two domains that adopt the same structural fold, even though they have little sequence similarity []. Lipopolysaccharide-binding protein (LBP) is an endotoxin-binding protein that is closely related to, and functions in a co-ordinated manner with BPI to facilitate an integrated host response to invading Gram-negative bacteria []. Cholesteryl ester transfer protein (CETP) is a glycoprotein that facilitates the transfer of lipids (cholesteryl esters and triglycerides) between the different lipoproteins that transport them through plasma, including HDL, LDL, VLDL and chylomicrons. These lipoproteins shield the lipids from water by encapsulating them within a coating of polar lipids and proteins []. Phospholipid transfer protein (PLTP) exchanges phospholipids between lipoproteins and remodels high-density lipoproteins (HDLs) []. Palate, lung and nasal epithelium carcinoma-associated protein (PLUNC) is a potential host defensive protein that is secreted from the submucosal gland to the saliva and nasal lavage fluid. PLUNC appears to be a secreted product of neutrophil granules that participates in an aspect of the inflammatory response that contributes to host defence []. Short palate, lung and nasal epithelium clone 1 (SPLUNC1) may bind the lipopolysaccharide of Gram-negative nanobacteria, thereby playing an important role in the host defence of nasopharyngeal epithelium [].; GO: 0008289 lipid binding; PDB: 1EWF_A 1BP1_A 2OBD_A.
Probab=20.28 E-value=87 Score=20.21 Aligned_cols=30 Identities=17% Similarity=0.356 Sum_probs=21.7
Q ss_pred cceeeeccccceEEEEeccCCcee---eEEecC
Q psy17151 4 SNVVISEVQGQLRITVKKSRPLLG---MAIEGG 33 (86)
Q Consensus 4 ~~~vv~d~~Gnl~i~V~K~~~~LG---IAIEGG 33 (86)
...+-.|.+|..++.+..|...+| |-+.||
T Consensus 97 ~i~l~~~~~G~~~v~~~~C~~~i~~v~i~~~gg 129 (164)
T PF01273_consen 97 TIRLERDESGRPTVVVGSCSSDIGSVDIKLHGG 129 (164)
T ss_dssp EEEEEEECCTEEEEEEEEEEEEEEEEEEEETTC
T ss_pred EEEEEEcCCCCeEEEECCCccCcceEEEEECCC
Confidence 345667888999999999887744 555555
Done!