Query psy8817
Match_columns 93
No_of_seqs 102 out of 139
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 19:59:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8817.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8817hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12624 Chorein_N: N-terminal 99.8 8E-21 1.7E-25 129.7 5.6 68 13-88 2-70 (118)
2 COG5043 MRS6 Vacuolar protein 99.6 5.7E-15 1.2E-19 136.1 6.6 69 11-87 1-70 (2552)
3 KOG1809|consensus 99.5 3.1E-14 6.7E-19 131.4 6.3 68 12-87 2-70 (1827)
4 KOG2955|consensus 97.6 9.6E-05 2.1E-09 65.9 5.0 63 20-89 9-74 (1069)
5 PF07660 STN: Secretin and Ton 66.5 10 0.00022 21.6 3.1 31 45-78 17-47 (52)
6 PF05359 DUF748: Domain of Unk 58.1 8.3 0.00018 26.0 2.0 44 31-85 67-114 (151)
7 PHA00019 IV phage assembly pro 46.5 79 0.0017 25.8 6.2 43 41-86 21-63 (428)
8 PF11209 DUF2993: Protein of u 42.9 39 0.00084 24.2 3.5 52 13-89 3-57 (225)
9 PF11202 PRTase_1: Phosphoribo 42.5 46 0.001 26.6 4.2 55 17-80 101-156 (257)
10 PF03876 SHS2_Rpb7-N: SHS2 dom 33.3 30 0.00064 20.9 1.5 21 10-30 14-34 (70)
11 PF13349 DUF4097: Domain of un 32.9 26 0.00056 23.7 1.3 28 28-55 126-153 (166)
12 PF13345 DUF4098: Domain of un 32.6 44 0.00095 19.3 2.1 22 32-53 21-42 (76)
13 PF06953 ArsD: Arsenical resis 27.9 35 0.00076 24.0 1.3 35 45-79 42-83 (123)
14 KOG3650|consensus 25.7 30 0.00066 24.5 0.6 12 21-33 93-104 (120)
15 PF05233 PHB_acc: PHB accumula 24.7 93 0.002 17.9 2.5 25 7-31 1-28 (41)
16 PF13732 DUF4162: Domain of un 24.5 35 0.00076 20.8 0.7 19 73-91 61-79 (84)
17 PF03813 Nrap: Nrap protein; 23.7 39 0.00086 30.8 1.1 67 9-75 453-527 (972)
18 PRK13259 regulatory protein Sp 22.6 74 0.0016 21.7 2.0 19 71-90 34-52 (94)
19 PRK11039 putative dehydrogenas 21.9 65 0.0014 23.2 1.7 22 9-30 107-128 (140)
20 COG4702 Uncharacterized conser 21.4 1.1E+02 0.0023 23.2 2.8 31 50-87 109-142 (168)
21 PF01941 AdoMet_Synthase: S-ad 21.1 1E+02 0.0022 26.0 3.0 28 9-37 39-66 (396)
22 TIGR02832 spo_yunB sporulation 21.0 1.7E+02 0.0037 22.2 3.9 54 9-62 38-92 (204)
23 PF03279 Lip_A_acyltrans: Bact 20.2 1.6E+02 0.0035 22.1 3.6 68 7-83 67-135 (295)
No 1
>PF12624 Chorein_N: N-terminal region of Chorein, a TM vesicle-mediated sorter
Probab=99.83 E-value=8e-21 Score=129.72 Aligned_cols=68 Identities=31% Similarity=0.493 Sum_probs=65.5
Q ss_pred HHHHHHHHHHHhhhhhhccCCccCceeeeecceEEEEccchhh-HhHhhhcccCCCCcceEEeeceeeeEEEccCCC
Q psy8817 13 KRACRYLLQRYLGQFLEEKLTLDQLSVDLYNGTGSVSDVCLDV-QLEEEGMSLSSSKISWTVSRGEAAEWMLKSPSL 88 (93)
Q Consensus 13 kR~c~~lL~ryLG~fl~~~L~ldQL~v~L~~G~v~L~nL~L~~-ALnell~~~~~~~lP~~v~~G~IG~l~lkiP~~ 88 (93)
+++++++|++|||+|+++ +|.||+++++++|+++|+||+|++ |++.+ ++|++|+.|+||++.++|||-
T Consensus 2 e~~v~~~L~~~Lg~yi~~-l~~~ql~vsl~~G~v~L~nl~l~~~~l~~~-------~lP~~v~~g~i~~l~i~IPw~ 70 (118)
T PF12624_consen 2 ESLVSSLLNKYLGRYIEN-LDKDQLSVSLWNGEVELRNLELKKDALNNL-------GLPIEVKSGSIGKLRIKIPWT 70 (118)
T ss_pred HHHHHHHHHHHHHHHHhc-CCHHHeeeeeccCceEEEccEeeHHHhcCc-------CCCeEEeEEEeeeEEEEEEhH
Confidence 578999999999999988 999999999999999999999999 99988 899999999999999999994
No 2
>COG5043 MRS6 Vacuolar protein sorting-associated protein [Intracellular trafficking and secretion]
Probab=99.55 E-value=5.7e-15 Score=136.09 Aligned_cols=69 Identities=23% Similarity=0.371 Sum_probs=66.9
Q ss_pred HHHHHHHHHHHHHhhhhhhccCCccCceeeeecceEEEEccchhh-HhHhhhcccCCCCcceEEeeceeeeEEEccCC
Q psy8817 11 WKKRACRYLLQRYLGQFLEEKLTLDQLSVDLYNGTGSVSDVCLDV-QLEEEGMSLSSSKISWTVSRGEAAEWMLKSPS 87 (93)
Q Consensus 11 ~~kR~c~~lL~ryLG~fl~~~L~ldQL~v~L~~G~v~L~nL~L~~-ALnell~~~~~~~lP~~v~~G~IG~l~lkiP~ 87 (93)
|.+++.+-+|||+||.|++| +|..||.|++|+|.|.|+||.||. |++.+ ++|+.|++|-||.++|+|||
T Consensus 1 MLegLlanlLNRlLGsYVEN-fD~~QLnvgvw~GdVsl~NLriK~saldkL-------~lpi~V~sgligtLtl~iPW 70 (2552)
T COG5043 1 MLEGLLANLLNRLLGSYVEN-FDTKQLNVGVWGGDVSLHNLRIKPSALDKL-------GLPIEVTSGLIGTLTLEIPW 70 (2552)
T ss_pred ChhHHHHHHHHHHHHHHHhh-cCccceeEEEecceeEEEeeeecHHHHhhc-------CCCeEEeecceeeEEEEeeh
Confidence 46889999999999999999 999999999999999999999999 99999 99999999999999999998
No 3
>KOG1809|consensus
Probab=99.49 E-value=3.1e-14 Score=131.44 Aligned_cols=68 Identities=25% Similarity=0.436 Sum_probs=65.6
Q ss_pred HHHHHHHHHHHHhhhhhhccCCccCceeeeecceEEEEccchhh-HhHhhhcccCCCCcceEEeeceeeeEEEccCC
Q psy8817 12 KKRACRYLLQRYLGQFLEEKLTLDQLSVDLYNGTGSVSDVCLDV-QLEEEGMSLSSSKISWTVSRGEAAEWMLKSPS 87 (93)
Q Consensus 12 ~kR~c~~lL~ryLG~fl~~~L~ldQL~v~L~~G~v~L~nL~L~~-ALnell~~~~~~~lP~~v~~G~IG~l~lkiP~ 87 (93)
-+++.+-+|+|+||.|++| +|.+||++++|+|+|.|+||++++ ||+++ ++|+.|+.|+||+++|+|||
T Consensus 2 le~~v~~lLnr~LG~yv~n-ld~~QL~lgIw~GdV~l~nL~ik~~aL~~L-------~~P~~v~~g~ig~l~L~IPw 70 (1827)
T KOG1809|consen 2 LESLVADLLNRFLGDYVEN-LDRSQLNLGIWGGDVVLSNLQIKESALSKL-------DLPFEVKSGLIGTLTLKIPW 70 (1827)
T ss_pred cHHHHHHHHHHHhhhcccC-CCCCcceEEEecceeEeechhhCHHHHhcc-------CCCeEEeeeeeeeEEEeccc
Confidence 3678889999999999999 999999999999999999999999 99998 99999999999999999998
No 4
>KOG2955|consensus
Probab=97.59 E-value=9.6e-05 Score=65.86 Aligned_cols=63 Identities=21% Similarity=0.297 Sum_probs=55.8
Q ss_pred HHHHhhhhhhccCCccCceeeeecceEEEEccchhh-HhHhhhcccCCCCcc--eEEeeceeeeEEEccCCCc
Q psy8817 20 LQRYLGQFLEEKLTLDQLSVDLYNGTGSVSDVCLDV-QLEEEGMSLSSSKIS--WTVSRGEAAEWMLKSPSLK 89 (93)
Q Consensus 20 L~ryLG~fl~~~L~ldQL~v~L~~G~v~L~nL~L~~-ALnell~~~~~~~lP--~~v~~G~IG~l~lkiP~~~ 89 (93)
|-+-|..|.+| +..||++++-..|+.+|+||+||+ +|.+.+ +|| +.+..-+-|++.+.|||-|
T Consensus 9 l~khLs~ftKn-ltpdqi~L~~lKG~~qL~nleineevL~~~L------~LP~wL~I~~afc~k~~I~lPwtk 74 (1069)
T KOG2955|consen 9 LEKHLSYFTKN-LTPDQIKLQGLKGTAQLSNLEINEEVLHASL------GLPPWLSITTAFCGKLEIMLPWTK 74 (1069)
T ss_pred HHHHHHHHHhc-CChhhEeeeeccccceecceecCHHHHHHhh------cCCchheeeeeeecceEEeccchh
Confidence 44556778888 999999999999999999999999 998874 488 8999999999999999964
No 5
>PF07660 STN: Secretin and TonB N terminus short domain; InterPro: IPR011662 This is a conserved region found at the N-terminal region of bacterial proteins involved in either protein secretion or the uptake of selective substrates, including: Bundle-forming pilus protein B, an outer-membrane protein absolutely required for pilus biogenesis, and for enteropathogenic Escherichia coli localized adherence and autoaggregation []. PilQ, which is required for type IV pilus biogenesis and competence and is thought to function both as a pore for exit of the pilus and as a channel for entry of haem and antimicrobial agents and uptake of transforming DNA []. PupB, a specific receptor for the siderophores ferric pseudobactin BN8 and ferric pseudobactin BN7, iron chelating molecules that allow the organism to extract iron from the environment, especially under iron-restricted conditions []. TonB, which couples the electrochemical potential of the cytoplasmic membrane to the active transport of iron-siderophores and vitamin B12 across the outer membrane []. ; GO: 0019867 outer membrane; PDB: 2D1U_A 1ZZV_A 2W75_B 2O5P_A 2W77_A 2W16_A 2W6U_B 2W6T_A 2W76_B 2W78_B ....
Probab=66.51 E-value=10 Score=21.60 Aligned_cols=31 Identities=13% Similarity=0.244 Sum_probs=21.1
Q ss_pred eEEEEccchhhHhHhhhcccCCCCcceEEeecee
Q psy8817 45 TGSVSDVCLDVQLEEEGMSLSSSKISWTVSRGEA 78 (93)
Q Consensus 45 ~v~L~nL~L~~ALnell~~~~~~~lP~~v~~G~I 78 (93)
++.++|..+++||++++. ..++-+++..++|
T Consensus 17 sl~~~~~~~~~~L~~ll~---~t~l~y~~~~~~i 47 (52)
T PF07660_consen 17 SLDVKNMSLEEALDQLLK---GTGLTYKISGNTI 47 (52)
T ss_dssp -EE-EEE-HHHHHHHHTT---TSTEEEEEETTEE
T ss_pred eEEcCCcCHHHHHHHHHc---cCCcEEEEECCEE
Confidence 567789999999999966 4567777755544
No 6
>PF05359 DUF748: Domain of Unknown Function (DUF748); InterPro: IPR008023 This is a family of proteins of unknown function.
Probab=58.12 E-value=8.3 Score=26.04 Aligned_cols=44 Identities=23% Similarity=0.250 Sum_probs=30.5
Q ss_pred cCCccCceeeeecceEEEEccchhh---HhHhhhcccCCCCcceEEeeceeee-EEEcc
Q psy8817 31 KLTLDQLSVDLYNGTGSVSDVCLDV---QLEEEGMSLSSSKISWTVSRGEAAE-WMLKS 85 (93)
Q Consensus 31 ~L~ldQL~v~L~~G~v~L~nL~L~~---ALnell~~~~~~~lP~~v~~G~IG~-l~lki 85 (93)
+++.+-++.+ |++++++++|.. .+.+ .+|+.+.+|.+.- +.+++
T Consensus 67 ~~~~~~~~~~---~~~~l~~l~L~~~~pyl~~--------~~~~~l~~G~l~~~~~~~~ 114 (151)
T PF05359_consen 67 KLSPFPLDSD---GTLKLNNLDLAPLQPYLAQ--------YLPFQLQSGQLDLDLNYKL 114 (151)
T ss_pred EEEeCCcCee---EEEEEeCCChHHhhhhhHh--------hcCcccceEEEEEEEEEEE
Confidence 3444444444 889999999988 3333 3889999998873 66664
No 7
>PHA00019 IV phage assembly protein
Probab=46.51 E-value=79 Score=25.82 Aligned_cols=43 Identities=5% Similarity=-0.109 Sum_probs=32.7
Q ss_pred eecceEEEEccchhhHhHhhhcccCCCCcceEEeeceeeeEEEccC
Q psy8817 41 LYNGTGSVSDVCLDVQLEEEGMSLSSSKISWTVSRGEAAEWMLKSP 86 (93)
Q Consensus 41 L~~G~v~L~nL~L~~ALnell~~~~~~~lP~~v~~G~IG~l~lkiP 86 (93)
.+.+.+.++|.+++.+++-+ .+ ..++++.+-.+--|++++..|
T Consensus 21 ~~~~~l~f~~~dI~~vl~~l-a~--~~g~NiVidp~V~G~vTl~~~ 63 (428)
T PHA00019 21 SFALPVELNNSPIREFVSWY-SQ--QTGKSVVLGPDVKGNVTVYSA 63 (428)
T ss_pred cceeEEEecCCCHHHHHHHH-HH--hcCceEEECCCcceEEEEecc
Confidence 34567899999999977744 32 348999999999999999433
No 8
>PF11209 DUF2993: Protein of unknown function (DUF2993); InterPro: IPR021373 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=42.88 E-value=39 Score=24.15 Aligned_cols=52 Identities=13% Similarity=0.280 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHhhhhhhccCC-ccCceeeeecceEEEEccchhhHhHhhhcccCCCCcce--EEeeceeeeEEEccCCCc
Q psy8817 13 KRACRYLLQRYLGQFLEEKLT-LDQLSVDLYNGTGSVSDVCLDVQLEEEGMSLSSSKISW--TVSRGEAAEWMLKSPSLK 89 (93)
Q Consensus 13 kR~c~~lL~ryLG~fl~~~L~-ldQL~v~L~~G~v~L~nL~L~~ALnell~~~~~~~lP~--~v~~G~IG~l~lkiP~~~ 89 (93)
-|+.+++..+-+...+...++ .+..+|.+- +.|| ++..|.+.++.+..|...
T Consensus 3 d~~~~~~~e~~i~~~l~~~~~~~~~~~V~i~-------------------------g~P~l~qll~G~~~~v~v~~~~~~ 57 (225)
T PF11209_consen 3 DRGARAYAEKQIADALRAQLDLAEDPEVSIG-------------------------GFPFLTQLLGGRLDSVTVDAPGVT 57 (225)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCceEEEc-------------------------CcCcHHHHhCCEeCeEEEEeCCcE
Confidence 366777788888888877553 222333221 4674 788888888888887654
No 9
>PF11202 PRTase_1: Phosphoribosyl transferase (PRTase); InterPro: IPR011215 This is a family of uncharacterised bacterial proteins.
Probab=42.54 E-value=46 Score=26.56 Aligned_cols=55 Identities=24% Similarity=0.265 Sum_probs=40.9
Q ss_pred HHHHHHHhhhhhhccCCccCceeeeecceEEEEccchhh-HhHhhhcccCCCCcceEEeeceeee
Q psy8817 17 RYLLQRYLGQFLEEKLTLDQLSVDLYNGTGSVSDVCLDV-QLEEEGMSLSSSKISWTVSRGEAAE 80 (93)
Q Consensus 17 ~~lL~ryLG~fl~~~L~ldQL~v~L~~G~v~L~nL~L~~-ALnell~~~~~~~lP~~v~~G~IG~ 80 (93)
=-++|||+-+.--+ +|+-..+|.|..|.+ +|. ||.-.+.. -..-++..++|-.||
T Consensus 101 GVLlkR~l~~~~~g-~~~~HYsISIIRdRG------ID~~AL~~I~~~--H~~~~ivFVDGWTGK 156 (257)
T PF11202_consen 101 GVLLKRYLRRMKYG-LDLPHYSISIIRDRG------IDENALRYILAR--HPPESIVFVDGWTGK 156 (257)
T ss_pred HHHHHHHHHHhhcC-CCCCceeEEEecCCC------CCHHHHHHHHHh--CCCcceEEEecCccc
Confidence 35788998884335 888999999987765 788 88877653 224467889998887
No 10
>PF03876 SHS2_Rpb7-N: SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397; InterPro: IPR005576 The eukaryotic RNA polymerase subunits RPB4 and RPB7 form a heterodimer that reversibly associates with the RNA polymerase II core. Archaeal cells contain a single RNAP made up of about 12 subunits, displaying considerable homology to the eukaryotic RNAPII subunits. The RPB4 and RPB7 homologs are called subunits F and E, respectively, and have been shown to form a stable heterodimer. While the RPB7 homologue is reasonably well conserved, the similarity between the eukaryotic RPB4 and the archaeal F subunit is barely detectable []. This entry represents the N-terminal, heterodimerisation domain of RPB7.; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2C35_F 3HKZ_E 2PMZ_T 2CKZ_D 2Y0S_E 2RF4_A 2JA7_G 1Y1V_G 2JA5_G 4A3D_G ....
Probab=33.29 E-value=30 Score=20.85 Aligned_cols=21 Identities=29% Similarity=0.529 Sum_probs=18.9
Q ss_pred hHHHHHHHHHHHHHhhhhhhc
Q psy8817 10 SWKKRACRYLLQRYLGQFLEE 30 (93)
Q Consensus 10 ~~~kR~c~~lL~ryLG~fl~~ 30 (93)
.+++-+.+.++++|+|+|..+
T Consensus 14 ~~~~~i~~~L~~~~~~k~~~~ 34 (70)
T PF03876_consen 14 DLKDGIKEQLLDKYEGKYIPE 34 (70)
T ss_dssp THHHHHHHHHHHHHTTEEETT
T ss_pred CHHHHHHHHHHHHHhCcCcCC
Confidence 678888899999999999987
No 11
>PF13349 DUF4097: Domain of unknown function (DUF4097)
Probab=32.92 E-value=26 Score=23.69 Aligned_cols=28 Identities=18% Similarity=0.382 Sum_probs=22.1
Q ss_pred hhccCCccCceeeeecceEEEEccchhh
Q psy8817 28 LEEKLTLDQLSVDLYNGTGSVSDVCLDV 55 (93)
Q Consensus 28 l~~~L~ldQL~v~L~~G~v~L~nL~L~~ 55 (93)
+..+..++++++...+|++.++++.++.
T Consensus 126 lP~~~~l~~i~i~~~~G~i~i~~i~~~~ 153 (166)
T PF13349_consen 126 LPKDYKLDKIDIKTSSGDITIEDISAKN 153 (166)
T ss_pred ECCCCceeEEEEEeccccEEEEccEeeE
Confidence 3333456899999999999999988775
No 12
>PF13345 DUF4098: Domain of unknown function (DUF4098)
Probab=32.56 E-value=44 Score=19.33 Aligned_cols=22 Identities=18% Similarity=0.235 Sum_probs=10.5
Q ss_pred CCccCceeeeecceEEEEccch
Q psy8817 32 LTLDQLSVDLYNGTGSVSDVCL 53 (93)
Q Consensus 32 L~ldQL~v~L~~G~v~L~nL~L 53 (93)
+..+++++...+|.+.++++..
T Consensus 21 ~~~~~~~i~~~~G~i~i~~~~~ 42 (76)
T PF13345_consen 21 VKADNLDISSGSGDIDIQNVES 42 (76)
T ss_pred eEeceEEEEeCCCCEEEEEeee
Confidence 3344444444455555554444
No 13
>PF06953 ArsD: Arsenical resistance operon trans-acting repressor ArsD; InterPro: IPR010712 This family consists of several bacterial arsenical resistance operon trans-acting repressor ArsD proteins. ArsD is a trans-acting repressor of the arsRDABC operon that confers resistance to arsenicals and antimonials in Escherichia coli. It possesses two-pairs of vicinal cysteine residues, Cys(12)-Cys(13) and Cys(112)-Cys(113), that potentially form separate binding sites for the metalloids that trigger dissociation of ArsD from the operon. However, as a homodimer it has four vicinal cysteine pairs [].; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent, 0046685 response to arsenic-containing substance; PDB: 3MWH_A 3KGK_A 3KTB_B.
Probab=27.85 E-value=35 Score=23.98 Aligned_cols=35 Identities=9% Similarity=0.079 Sum_probs=22.4
Q ss_pred eEEEEccchhh-------HhHhhhcccCCCCcceEEeeceee
Q psy8817 45 TGSVSDVCLDV-------QLEEEGMSLSSSKISWTVSRGEAA 79 (93)
Q Consensus 45 ~v~L~nL~L~~-------ALnell~~~~~~~lP~~v~~G~IG 79 (93)
+|+--||.=+. .+++++..-+...||+++++|-|=
T Consensus 42 ~v~RyNL~~~P~aF~~n~~V~~~L~~~G~e~LPitlVdGeiv 83 (123)
T PF06953_consen 42 EVERYNLAQNPQAFVENPEVNQLLQTEGAEALPITLVDGEIV 83 (123)
T ss_dssp EEEEEETTT-TTHHHHSHHHHHHHHHH-GGG-SEEEETTEEE
T ss_pred eEEEEccccCHHHHHhCHHHHHHHHHcCcccCCEEEECCEEE
Confidence 55555665433 466777655677899999999874
No 14
>KOG3650|consensus
Probab=25.70 E-value=30 Score=24.47 Aligned_cols=12 Identities=42% Similarity=0.839 Sum_probs=9.9
Q ss_pred HHHhhhhhhccCC
Q psy8817 21 QRYLGQFLEEKLT 33 (93)
Q Consensus 21 ~ryLG~fl~~~L~ 33 (93)
|..||+|++| |.
T Consensus 93 NQVLGQYIeN-LM 104 (120)
T KOG3650|consen 93 NQVLGQYIEN-LM 104 (120)
T ss_pred hHHHHHHHHH-HH
Confidence 6789999998 53
No 15
>PF05233 PHB_acc: PHB accumulation regulatory domain; InterPro: IPR007897 The proteins this domain is found in are typically involved in regulating polymer accumulation in bacteria, for example the production of poly-beta-hydroxybutyrate (PHB) which is formed via the polymerisation of D(-)-3-hydroxybutyryl-CoA []. The function of this domain is unknown.
Probab=24.70 E-value=93 Score=17.90 Aligned_cols=25 Identities=20% Similarity=0.590 Sum_probs=19.2
Q ss_pred CchhHHHHHHHHH---HHHHhhhhhhcc
Q psy8817 7 FSDSWKKRACRYL---LQRYLGQFLEEK 31 (93)
Q Consensus 7 ~~~~~~kR~c~~l---L~ryLG~fl~~~ 31 (93)
+|..+.+.+.||- .+..+|.|+|..
T Consensus 1 l~~~~L~qlIrfyg~~mQ~~m~~YLEqS 28 (41)
T PF05233_consen 1 LPTEFLRQLIRFYGPSMQGMMGSYLEQS 28 (41)
T ss_pred CCHHHHHHHHHHcchhHHHHHHHHHHHH
Confidence 3566777777776 899999999863
No 16
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=24.53 E-value=35 Score=20.84 Aligned_cols=19 Identities=26% Similarity=0.552 Sum_probs=16.3
Q ss_pred EeeceeeeEEEccCCCccc
Q psy8817 73 VSRGEAAEWMLKSPSLKDL 91 (93)
Q Consensus 73 v~~G~IG~l~lkiP~~~~~ 91 (93)
+..|.|-++....|||-|+
T Consensus 61 ~~~g~I~~f~~~~PSL~DI 79 (84)
T PF13732_consen 61 IEKGIIRSFEEEEPSLEDI 79 (84)
T ss_pred HhCCCeeEEEEcCCCHHHH
Confidence 4568899999999999885
No 17
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human. In the mouse, Nrap is ubiquitously expressed and is specifically localized in the nucleolus []. Nrap is a large nucleolar protein (of more than 1000 amino acids). Nrap appears to be associated with ribosome biogenesis by interacting with pre-rRNA primary transcript [].
Probab=23.66 E-value=39 Score=30.80 Aligned_cols=67 Identities=19% Similarity=0.212 Sum_probs=37.4
Q ss_pred hhHHHHHHHHHHHHHhhhhhhc-cCCccCceeeee----cceEEEEccchhh--HhHhhhcccCCCC-cceEEee
Q psy8817 9 DSWKKRACRYLLQRYLGQFLEE-KLTLDQLSVDLY----NGTGSVSDVCLDV--QLEEEGMSLSSSK-ISWTVSR 75 (93)
Q Consensus 9 ~~~~kR~c~~lL~ryLG~fl~~-~L~ldQL~v~L~----~G~v~L~nL~L~~--ALnell~~~~~~~-lP~~v~~ 75 (93)
..|-+++++|+|+|-++.--++ ....++++--+- .....-++...++ |.+++...+-+.+ ||++|.+
T Consensus 453 ~~I~~~Iv~yiL~~H~~~~~~~i~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~af~~L~k~lr~L~~LPL~I~~ 527 (972)
T PF03813_consen 453 RLIPEQIVRYILQRHLKIPSDSISFIGDQFDSLLPLPGSGSSPTDEESFQSVMRAFDELEKDLRSLEDLPLSITS 527 (972)
T ss_pred CchHHHHHHHHHHHhcCCccceEEeehhhhhhhhcCccccCCCCchHHHHHHHHHHHHHHHHHhcCccCCcceee
Confidence 5677899999999988543222 123344444442 1122233333344 6666655554445 9998864
No 18
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=22.65 E-value=74 Score=21.67 Aligned_cols=19 Identities=21% Similarity=0.352 Sum_probs=16.5
Q ss_pred eEEeeceeeeEEEccCCCcc
Q psy8817 71 WTVSRGEAAEWMLKSPSLKD 90 (93)
Q Consensus 71 ~~v~~G~IG~l~lkiP~~~~ 90 (93)
++|++|.=| +.+.+||.++
T Consensus 34 ikVieg~~G-lFVaMPs~k~ 52 (94)
T PRK13259 34 IRVIEGNNG-LFIAMPSKRT 52 (94)
T ss_pred eEEEECCCC-eEEECcCcCC
Confidence 499999987 9999999764
No 19
>PRK11039 putative dehydrogenase; Provisional
Probab=21.89 E-value=65 Score=23.25 Aligned_cols=22 Identities=14% Similarity=0.351 Sum_probs=18.7
Q ss_pred hhHHHHHHHHHHHHHhhhhhhc
Q psy8817 9 DSWKKRACRYLLQRYLGQFLEE 30 (93)
Q Consensus 9 ~~~~kR~c~~lL~ryLG~fl~~ 30 (93)
..+.-|=.|+-+|+|||++|..
T Consensus 107 ~~M~q~DEK~Q~N~FL~eWL~~ 128 (140)
T PRK11039 107 KKLHQRDEKHQINQFLADWLRY 128 (140)
T ss_pred hhccCchHHHHHHHHHHHHHHH
Confidence 3466778999999999999986
No 20
>COG4702 Uncharacterized conserved protein [Function unknown]
Probab=21.38 E-value=1.1e+02 Score=23.15 Aligned_cols=31 Identities=13% Similarity=0.075 Sum_probs=21.8
Q ss_pred ccchhh-HhHhhhcccCCCCcceEEe-eceeeeEEEc-cCC
Q psy8817 50 DVCLDV-QLEEEGMSLSSSKISWTVS-RGEAAEWMLK-SPS 87 (93)
Q Consensus 50 nL~L~~-ALnell~~~~~~~lP~~v~-~G~IG~l~lk-iP~ 87 (93)
.|+.++ |.-. .++|++|+ +|.||.+++. .|-
T Consensus 109 ~vd~~eYa~~G-------G~fpI~vk~ag~iG~v~VSGlpq 142 (168)
T COG4702 109 GVDVAEYAAHG-------GGFPIQVKGAGVIGVVTVSGLPQ 142 (168)
T ss_pred CCCHHHHHhcc-------CceeEEEeccceEEEEEecCCCc
Confidence 355566 5543 38999998 5789999987 443
No 21
>PF01941 AdoMet_Synthase: S-adenosylmethionine synthetase (AdoMet synthetase); InterPro: IPR002795 A highly diverged class of S-adenosylmethionine synthetases have been identified in the archaea. S-adenosylmethionine is the primary alkylating agent in all known organisms. ATP:L-methionine S-adenosyltransferase (MAT) catalyses the only known biosynthetic route to this central metabolite. Although the amino acid sequence of MAT is strongly conserved among bacteria and eukarya (see IPR002133 from INTERPRO) no homologues had been recognised in the completed genome sequences of any archaea. The identification of a second major class of MAT emphasises the long evolutionary history of the archaeal lineage and the structural diversity found even in crucial metabolic enzymes []. Three bacterial genomes encode both the archaeal and eukaryotic/bacterial types of MAT [].; GO: 0004478 methionine adenosyltransferase activity, 0005524 ATP binding, 0006730 one-carbon metabolic process
Probab=21.06 E-value=1e+02 Score=25.99 Aligned_cols=28 Identities=25% Similarity=0.470 Sum_probs=17.6
Q ss_pred hhHHHHHHHHHHHHHhhhhhhccCCccCc
Q psy8817 9 DSWKKRACRYLLQRYLGQFLEEKLTLDQL 37 (93)
Q Consensus 9 ~~~~kR~c~~lL~ryLG~fl~~~L~ldQL 37 (93)
+.+-...|+|.|+|| |.-+-+++|.-+|
T Consensus 39 E~vS~~Ls~~Yl~~f-G~ILHHN~DK~ll 66 (396)
T PF01941_consen 39 EAVSRALSRYYLERF-GAILHHNTDKVLL 66 (396)
T ss_pred HHHHHHHHHHHHHHh-CCeeccccccceE
Confidence 334455666666666 7767777875554
No 22
>TIGR02832 spo_yunB sporulation protein YunB. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. Mutation of this sigma E-regulated gene, designated yunB, has been shown to cause a sporulation defect.
Probab=21.04 E-value=1.7e+02 Score=22.16 Aligned_cols=54 Identities=9% Similarity=0.084 Sum_probs=43.3
Q ss_pred hhHHHHHHHHHHHHHhhhhhhccCCccCceeeeecceEEEEccchhh-HhHhhhc
Q psy8817 9 DSWKKRACRYLLQRYLGQFLEEKLTLDQLSVDLYNGTGSVSDVCLDV-QLEEEGM 62 (93)
Q Consensus 9 ~~~~kR~c~~lL~ryLG~fl~~~L~ldQL~v~L~~G~v~L~nL~L~~-ALnell~ 62 (93)
+.--||.+...+|+-..+.+.+++|-+.|=-=-.++++.+.-++.|. .+|++..
T Consensus 38 e~~a~~~at~~IN~av~~~~~~~~~y~dlI~i~kd~~G~I~~iq~nT~~~N~i~s 92 (204)
T TIGR02832 38 EVEMNRIATETINKAVTDEVEQGFDYNDLIEIETDENGKITLIQANTLLLNKLAS 92 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCHHHEEEEEECCCCcEEEEEcCHHHHHHHHH
Confidence 45568899999999999999888998887666666777788888888 8887754
No 23
>PF03279 Lip_A_acyltrans: Bacterial lipid A biosynthesis acyltransferase; InterPro: IPR004960 Bacterial lipopolysachharides (LPS) are glycolipids that make up the outer monolayer of the outer membranes of most Gram-negative bacteria. Though LPS moleculesare variable, they all show the same general features: an outer polysaccharide which is attached to the lipid component, termed lipid A []. The polysaccharide component consists of a variable repeat-structure polysaccharide known as the O-antigen, and a highly conserved short core oligosaccharide which connects the O-antigen to lipid A. Lipid A is a glucosamine-based phospholipid that makes up the membrane anchor region of LPS []. The structure of lipid A is relatively invariant between species, presumably reflecting its fundamental role in membrane integrity. Recognition of lipid A by the innate immune system can lead to a response even at picomolar levels. In some genera, such as Neisseria and Haemophilus, lipooligosaccharides (LOS) are the predominant glycolipids []. These are analogous to LPS except that they lack O-antigens, with the LOS oligosaccharide structures limited to 10 saccharide units. The bacterial lipid A biosynthesis protein, or lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase 2.3.1 from EC, transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA during lipopolysaccharide core biosynthesis.; GO: 0016746 transferase activity, transferring acyl groups, 0009244 lipopolysaccharide core region biosynthetic process, 0016021 integral to membrane
Probab=20.19 E-value=1.6e+02 Score=22.11 Aligned_cols=68 Identities=19% Similarity=0.207 Sum_probs=42.7
Q ss_pred CchhHHHHHHHHHHHHHhhhhhhccCCccCceeeeecceEEEEccchhh-HhHhhhcccCCCCcceEEeeceeeeEEE
Q psy8817 7 FSDSWKKRACRYLLQRYLGQFLEEKLTLDQLSVDLYNGTGSVSDVCLDV-QLEEEGMSLSSSKISWTVSRGEAAEWML 83 (93)
Q Consensus 7 ~~~~~~kR~c~~lL~ryLG~fl~~~L~ldQL~v~L~~G~v~L~nL~L~~-ALnell~~~~~~~lP~~v~~G~IG~l~l 83 (93)
.|+.-+++.++-..+. +|+.+.+-+.++.++-+-....+++++.+.=. |+.+ +=|+.+..||.|+..+
T Consensus 67 ~~~~e~~~l~~~~~~~-~~~~~~E~~~l~~~~~~~~~~~~~~~g~e~l~~a~~~--------g~gvIl~t~H~GnwE~ 135 (295)
T PF03279_consen 67 KSEAERKKLIRESFRN-FGRTLAEFFKLPKMSKEQLKKRVEIEGEEHLEAALAE--------GRGVILLTGHFGNWEL 135 (295)
T ss_pred CCHHHHHHHHHHHHHH-HHHHHHHHHHHhhcchhhcceEEEEECHHHHHHHHhc--------CCCCEEeCcCcChHHH
Confidence 4555566666655543 35555543444555545555677888876655 5442 5688999999998754
Done!