Query psy8812
Match_columns 142
No_of_seqs 110 out of 157
Neff 4.9
Searched_HMMs 46136
Date Fri Aug 16 19:54:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8812.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8812hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2993|consensus 100.0 8.2E-35 1.8E-39 281.4 8.1 115 27-141 1502-1617(1738)
2 PF09333 ATG_C: ATG C terminal 97.3 2.6E-05 5.6E-10 56.2 -1.9 36 3-38 63-98 (98)
3 PF09333 ATG_C: ATG C terminal 95.0 0.1 2.2E-06 37.5 6.2 58 81-138 27-86 (98)
4 COG5043 MRS6 Vacuolar protein 94.4 0.014 3E-07 60.0 0.7 104 26-132 2200-2311(2552)
5 PHA00649 hypothetical protein 76.9 6.4 0.00014 27.7 4.6 44 94-137 36-80 (83)
6 KOG0766|consensus 48.9 44 0.00096 28.5 5.2 87 35-121 132-290 (297)
7 cd00219 ToxGAP GTPase-activati 43.7 26 0.00057 26.6 2.9 45 43-89 10-54 (120)
8 KOG1809|consensus 41.5 4 8.7E-05 42.7 -2.4 103 26-130 1560-1667(1827)
9 COG1238 Predicted membrane pro 40.1 30 0.00065 27.2 2.8 76 13-94 59-134 (161)
10 KOG0056|consensus 37.7 6.7 0.00015 37.1 -1.3 32 84-115 276-330 (790)
11 PF01320 Colicin_Pyocin: Colic 33.7 15 0.00033 26.2 0.2 24 24-47 61-84 (85)
12 COG3821 Predicted membrane pro 30.6 26 0.00056 29.2 1.1 21 100-120 58-78 (234)
13 PF12444 Sox_N: Sox developmen 28.3 14 0.0003 26.3 -0.7 18 11-28 63-80 (84)
14 PF15168 TRIQK: Triple QxxK/R 26.0 28 0.00061 24.6 0.5 9 91-99 10-18 (79)
15 PF15521 Toxin_41: Putative to 25.9 54 0.0012 28.2 2.2 58 9-66 201-262 (274)
16 cd07076 NR_LBD_GR Ligand bindi 22.8 44 0.00095 27.7 1.2 19 56-74 221-239 (247)
17 PF03545 YopE: Yersinia virule 20.9 96 0.0021 21.5 2.3 29 63-91 4-32 (70)
18 cd07074 NR_LBD_PR Ligand bindi 20.7 57 0.0012 27.1 1.4 19 56-74 222-240 (248)
No 1
>KOG2993|consensus
Probab=100.00 E-value=8.2e-35 Score=281.39 Aligned_cols=115 Identities=53% Similarity=0.807 Sum_probs=111.0
Q ss_pred cChHHHhhhhhhhhc-cccCHHHHHHHHHHHhhHHhhhcchhhhhcCCCchHHHHHHhhhHHHHHHhhHHHHhhcCchhH
Q psy8812 27 PDARKEAAHKWRTDE-FLLGFNKLLSFMQAEWSQDIYKNQLPSLLGGVGPMYSLVQLAQGIRDLFWLPIEQYQKDGRIVR 105 (142)
Q Consensus 27 Pd~~~ea~~K~r~l~-Gi~G~~~l~~~l~~~W~~dI~~~Ql~~vl~Gv~Pirslv~ig~G~~dLv~~Pi~eYrkDGri~r 105 (142)
-..+.|..+|..+.| |++||+++++++.++|++||++||||++|.||+|+||++++|+|++|||++||++||||||++|
T Consensus 1502 qlqgsEl~Lk~l~~~~Gl~G~d~l~~~ll~eWl~DI~kNQLp~vL~Gv~pvrSl~~L~~g~kdLv~~PIe~yrkDgrlvr 1581 (1738)
T KOG2993|consen 1502 QLQGSELKLKRLVIRHGLLGWDKLFNYLLNEWLQDIKKNQLPGVLGGVGPVRSLVQLGQGFKDLVWLPIEQYRKDGRLVR 1581 (1738)
T ss_pred HhcccHHHHHHHHHHHhhhhHHHHHHHHHhhhhHHHhhhhhhhhhcCcccHHHHHHHHHHHHHHHhhhHHHhhccceeee
Confidence 346778888888888 9999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q psy8812 106 GLQRGANSFTTSTAMAALELTARIVMAIQSSQRYTV 141 (142)
Q Consensus 106 glqkG~~sF~ktt~~e~l~Lg~r~a~~tQ~~lE~a~ 141 (142)
|+|||+.+|.++|+.++|+|++|++++||++||+|+
T Consensus 1582 glq~G~~~F~~sts~~av~L~~~l~~g~qa~ae~te 1617 (1738)
T KOG2993|consen 1582 GLQRGAASFLPSTSLAAVGLGVRLTQGTQALAETTE 1617 (1738)
T ss_pred cccccchhhhhHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999996
No 2
>PF09333 ATG_C: ATG C terminal domain; InterPro: IPR015412 Eukaryotes have developed an evolutionarily conserved process, termed autophagy, to survive starvation conditions. The vacuole or lysosome mediates the turnover and recycling of non-essential intracellular material for re-use in critical biosynthetic reactions. ATG2 (also known as Apg2) is required for the formation and/or completion of cytosolic sequestering vesicles that are needed for vacuolar import through both the Cvt pathway and autophagy, as well as for the specific degradation of peroxisomes. Apg2 is a peripheral membrane protein that localises to the previously identified perivacuolar compartment that contains Apg9 []. This entry represents the C-terminal domain of Apg2 and related proteins.
Probab=97.28 E-value=2.6e-05 Score=56.25 Aligned_cols=36 Identities=36% Similarity=0.679 Sum_probs=34.2
Q ss_pred ccccceeccccccccccccccccccChHHHhhhhhh
Q psy8812 3 VRHPVMTTSKATSNVLGGVKSQLVPDARKEAAHKWR 38 (142)
Q Consensus 3 ~~~~~~~~~~~~~n~l~g~r~~lvPd~~~ea~~K~r 38 (142)
+++|++-++||+++.|+|+||++-|+.+.|...||.
T Consensus 63 vvkP~iG~~ea~s~~l~Gi~N~l~p~~~~e~~~Kyk 98 (98)
T PF09333_consen 63 VVKPMIGATEAVSKTLQGIRNQLDPDRRQEEEDKYK 98 (98)
T ss_pred HHhhHHHHHHHHHHHHHHHHhcCCchhHHHHHhccC
Confidence 689999999999999999999999999999999984
No 3
>PF09333 ATG_C: ATG C terminal domain; InterPro: IPR015412 Eukaryotes have developed an evolutionarily conserved process, termed autophagy, to survive starvation conditions. The vacuole or lysosome mediates the turnover and recycling of non-essential intracellular material for re-use in critical biosynthetic reactions. ATG2 (also known as Apg2) is required for the formation and/or completion of cytosolic sequestering vesicles that are needed for vacuolar import through both the Cvt pathway and autophagy, as well as for the specific degradation of peroxisomes. Apg2 is a peripheral membrane protein that localises to the previously identified perivacuolar compartment that contains Apg9 []. This entry represents the C-terminal domain of Apg2 and related proteins.
Probab=95.01 E-value=0.1 Score=37.55 Aligned_cols=58 Identities=22% Similarity=0.385 Sum_probs=49.7
Q ss_pred HHhhhHHHHHHhhHHHHhhcC--chhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8812 81 QLAQGIRDLFWLPIEQYQKDG--RIVRGLQRGANSFTTSTAMAALELTARIVMAIQSSQR 138 (142)
Q Consensus 81 ~ig~G~~dLv~~Pi~eYrkDG--ri~rglqkG~~sF~ktt~~e~l~Lg~r~a~~tQ~~lE 138 (142)
.|.+|+.+++..|++.|+++| .+++|+-||+--.+-.=...+.+..++...|+.+-++
T Consensus 27 g~~~~~~~i~~~p~~~~~~~g~~g~~~gv~kgvp~~vvkP~iG~~ea~s~~l~Gi~N~l~ 86 (98)
T PF09333_consen 27 GLQSGASGIVAKPIEGAQQEGVKGFVKGVGKGVPGAVVKPMIGATEAVSKTLQGIRNQLD 86 (98)
T ss_pred HHHHHHHHHHHhHHHHHhccChHHHHHHHHHhchHHHHhhHHHHHHHHHHHHHHHHhcCC
Confidence 467789999999999999765 6899999999888888888889999999998887654
No 4
>COG5043 MRS6 Vacuolar protein sorting-associated protein [Intracellular trafficking and secretion]
Probab=94.42 E-value=0.014 Score=60.02 Aligned_cols=104 Identities=18% Similarity=0.338 Sum_probs=79.8
Q ss_pred ccChHHHhh-hhhhhhccccCHHHHHHHHHHHhhHHhhhcchhhhhcCC----CchHHHHHHhhhHHHHHHhhHHHHh--
Q psy8812 26 VPDARKEAA-HKWRTDEFLLGFNKLLSFMQAEWSQDIYKNQLPSLLGGV----GPMYSLVQLAQGIRDLFWLPIEQYQ-- 98 (142)
Q Consensus 26 vPd~~~ea~-~K~r~l~Gi~G~~~l~~~l~~~W~~dI~~~Ql~~vl~Gv----~Pirslv~ig~G~~dLv~~Pi~eYr-- 98 (142)
.+|++++.. .+--+.++ -.+++.+.+.+.+++.+ .-|++++++.. -|+-=+-++.+|++||++-|.+.|=
T Consensus 2200 indapvrlnsl~~dNa~~--sl~~l~d~i~shY~qq~-~~qi~Ki~g~aD~lGNpvglfetvssGv~DlFyEP~~g~~l~ 2276 (2552)
T COG5043 2200 INDAPVRLNSLLMDNARV--SLPELFDLIASHYLQQV-EYQIYKILGSADFLGNPVGLFETVSSGVSDLFYEPYQGRFLV 2276 (2552)
T ss_pred cccchhHHhhHhhhccCC--cHHHHHHHHHHHHHHHH-HHHHHHhhcchhhcCCcceeeeccccchhhccccccceeeec
Confidence 356666553 34444443 35899999999999997 47899999865 3666677899999999999999884
Q ss_pred -hcCchhHhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q psy8812 99 -KDGRIVRGLQRGANSFTTSTAMAALELTARIVMA 132 (142)
Q Consensus 99 -kDGri~rglqkG~~sF~ktt~~e~l~Lg~r~a~~ 132 (142)
+..++.+|+.||++||+|.|.++.=+--.|+...
T Consensus 2277 ~~~~~~g~~iAkG~~SFikkti~GvsdsvsK~tgs 2311 (2552)
T COG5043 2277 DNSQEWGIGIAKGGNSFIKKTIYGVSDSVSKFTGS 2311 (2552)
T ss_pred cCcceeceeeccchhHHHHHhhccccchhHhhhcc
Confidence 3458889999999999999998876665555443
No 5
>PHA00649 hypothetical protein
Probab=76.89 E-value=6.4 Score=27.68 Aligned_cols=44 Identities=25% Similarity=0.430 Sum_probs=38.7
Q ss_pred HHHHhhcCchhHhhhhhHH-HHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8812 94 IEQYQKDGRIVRGLQRGAN-SFTTSTAMAALELTARIVMAIQSSQ 137 (142)
Q Consensus 94 i~eYrkDGri~rglqkG~~-sF~ktt~~e~l~Lg~r~a~~tQ~~l 137 (142)
+||||.|-+..|-++|-+. -|..-.+..+..+|+-+-.|.|+.|
T Consensus 36 VEEFr~D~~~~Rr~RKA~D~G~L~~VGL~~~~iGAA~W~G~~s~L 80 (83)
T PHA00649 36 VEEFREDLRFGRRMRKAADHGFLALVGLVAVALGAAVWAGITSKL 80 (83)
T ss_pred HHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4999999999998888775 4888899999999999999999876
No 6
>KOG0766|consensus
Probab=48.92 E-value=44 Score=28.54 Aligned_cols=87 Identities=20% Similarity=0.329 Sum_probs=61.3
Q ss_pred hhhhhhccccCHHHHHHHHHHHhhHHh---------------------------hhcchh------hh-----hcCCCch
Q psy8812 35 HKWRTDEFLLGFNKLLSFMQAEWSQDI---------------------------YKNQLP------SL-----LGGVGPM 76 (142)
Q Consensus 35 ~K~r~l~Gi~G~~~l~~~l~~~W~~dI---------------------------~~~Ql~------~v-----l~Gv~Pi 76 (142)
.|-|+..|+.|.+.+-+.+.++|..+= ++.|+. .+ .+|..|-
T Consensus 132 IKvRYES~lY~Y~siy~air~Iy~kEG~~GfFrGfgaT~LRDAP~aGlYv~fYe~sKq~lph~l~drf~~~~p~~g~v~~ 211 (297)
T KOG0766|consen 132 IKVRYESGLYGYESIYAAIRSIYHKEGHRGFFRGFGATLLRDAPFAGLYVMFYEQSKQILPHDLVDRFLPSIPVQGTVPH 211 (297)
T ss_pred EEEEeecccccHHHHHHHHHHHHHhcchhhhhhcchhhHhccCCccceeeeehhhhhhccchhhhhhcccCCCCCCcccc
Confidence 577888899999999999999986531 122322 22 3578899
Q ss_pred HHHHHHhhhH-----HHHHHhhHHHHhh-----------------------------cCchhHhhhhhHHHHHHHHHHH
Q psy8812 77 YSLVQLAQGI-----RDLFWLPIEQYQK-----------------------------DGRIVRGLQRGANSFTTSTAMA 121 (142)
Q Consensus 77 rslv~ig~G~-----~dLv~~Pi~eYrk-----------------------------DGri~rglqkG~~sF~ktt~~e 121 (142)
|++||+.+|+ +.+|.-|..-.|- ||.+.|.++|-..+=..-+.+|
T Consensus 212 ~nivN~~sgi~sg~lAt~vT~Pfd~iKTrmQLeP~kf~n~~~~~tli~kneg~rgff~G~~~R~lRkt~sa~iaW~vYE 290 (297)
T KOG0766|consen 212 RNIVNFSSGIFSGILATLVTQPFDVIKTRMQLEPLKFQNIGQAVTLIFKNEGLRGFFQGGIPRALRKTLSAAIAWTVYE 290 (297)
T ss_pred cceeehhHHHHHHHHHHHhcCchhhhhhhhccchHHhhhhhhheeeeeccccHHHHhhcccHHHHHHHHHHhhHHHHHH
Confidence 9999999986 5678888664431 7888888888666655555554
No 7
>cd00219 ToxGAP GTPase-activating protein (GAP) domain found in bacterial cytotoxins, ExoS, SptP, and YopE. Part of protein secretion system; stimulates Rac1- dependent cytoskeletal changes that promote bacterial internalization.
Probab=43.75 E-value=26 Score=26.63 Aligned_cols=45 Identities=31% Similarity=0.434 Sum_probs=33.3
Q ss_pred ccCHHHHHHHHHHHhhHHhhhcchhhhhcCCCchHHHHHHhhhHHHH
Q psy8812 43 LLGFNKLLSFMQAEWSQDIYKNQLPSLLGGVGPMYSLVQLAQGIRDL 89 (142)
Q Consensus 43 i~G~~~l~~~l~~~W~~dI~~~Ql~~vl~Gv~Pirslv~ig~G~~dL 89 (142)
+.|+++..+ +.+.=.+. .+.+-..+.+|=+|+||+++=-+|++|-
T Consensus 10 l~GL~ka~~-L~~ld~e~-L~knh~~lAtgnG~LRsl~T~Lqgi~~g 54 (120)
T cd00219 10 LKGLDKASE-LESLDAEQ-LRKNHDRLATGNGPLRSLVTALQGIRQG 54 (120)
T ss_pred HHhHHhhhh-hcccCHHH-HHHhhHHHhcCCchHHHHHHHHHHHHhc
Confidence 457777777 44443344 3455788999999999999999999884
No 8
>KOG1809|consensus
Probab=41.49 E-value=4 Score=42.68 Aligned_cols=103 Identities=22% Similarity=0.361 Sum_probs=76.0
Q ss_pred ccChHHHhhhhhhhhccccCHHHHHHHHHHHhhHHhhhcchhhhhcCC----CchHHHHHHhhhHHHHHHhhHHHH-hhc
Q psy8812 26 VPDARKEAAHKWRTDEFLLGFNKLLSFMQAEWSQDIYKNQLPSLLGGV----GPMYSLVQLAQGIRDLFWLPIEQY-QKD 100 (142)
Q Consensus 26 vPd~~~ea~~K~r~l~Gi~G~~~l~~~l~~~W~~dI~~~Ql~~vl~Gv----~Pirslv~ig~G~~dLv~~Pi~eY-rkD 100 (142)
+||+..+.+--. ..+...+.++|...+...+..... .|+..++.+. .|+-=+.++++|++||++-|-+-- +.-
T Consensus 1560 ~~d~~~~~~~~~-~~~~~~~~~~l~~~~~~~y~~~~~-~~~~~~~~~~~~~~~p~~l~~~~s~~~~d~f~~p~~g~~~~~ 1637 (1827)
T KOG1809|consen 1560 INDVVFKLNSFL-LENAFSTLDELISEVASHYSQQFL-KQIYKLVGSLDVLGNPVGLFRDLSSGVEDLFYEPFQGAVQGP 1637 (1827)
T ss_pred cCCceeehhhHH-HhhccccHHHHHHHHHHHHHHHHH-HHHHhhhccccccCCceeeeecccccchhhccCcccchhcch
Confidence 344444443322 236788999999999999999975 6799999987 566667789999999999886653 235
Q ss_pred CchhHhhhhhHHHHHHHHHHHHHHHHHHHH
Q psy8812 101 GRIVRGLQRGANSFTTSTAMAALELTARIV 130 (142)
Q Consensus 101 Gri~rglqkG~~sF~ktt~~e~l~Lg~r~a 130 (142)
|.++.++.+|..+|.+.|-..+..-.+|..
T Consensus 1638 ~~~~~~~~~g~~~~~~~~v~~~~~~~s~~~ 1667 (1827)
T KOG1809|consen 1638 EEFVEGFALGTSSFFGKTVGGIAGAVSKIT 1667 (1827)
T ss_pred HHHhhhhhhhhhhhccceeeeeecchhhee
Confidence 788888888888888777665555555543
No 9
>COG1238 Predicted membrane protein [Function unknown]
Probab=40.09 E-value=30 Score=27.17 Aligned_cols=76 Identities=24% Similarity=0.342 Sum_probs=48.0
Q ss_pred cccccccccccccccChHHHhhhhhhhhccccCHHHHHHHHHHHhhHHhhhcchhhhhcCCCchHHHHHHhhhHHHHHHh
Q psy8812 13 ATSNVLGGVKSQLVPDARKEAAHKWRTDEFLLGFNKLLSFMQAEWSQDIYKNQLPSLLGGVGPMYSLVQLAQGIRDLFWL 92 (142)
Q Consensus 13 ~~~n~l~g~r~~lvPd~~~ea~~K~r~l~Gi~G~~~l~~~l~~~W~~dI~~~Ql~~vl~Gv~Pirslv~ig~G~~dLv~~ 92 (142)
..+|+|||+ +++.-..-..+.+......|-++-.+...+.|....- =..=+++|++||=.++.+.+|+..+=..
T Consensus 59 t~gs~lG~~----~~y~lG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ryg--~~~ll~s~lp~igd~~t~~aG~~~~~~~ 132 (161)
T COG1238 59 TLGSVLGGL----VNYALGRFLPEFIARRWFPGSEEALEKLQEKWYRRYG--VWTLLLSWLPPIGDVLTLLAGWLRLNFL 132 (161)
T ss_pred HHHhhHhHH----HHHHHHhcchHHHHHHhhcchHHHHHHHHHHHHHHHH--HHHHHHHhccccchHHHHHHHHHHccHH
Confidence 347899987 4445555555555555555545555666655555432 1334678999999999999998776444
Q ss_pred hH
Q psy8812 93 PI 94 (142)
Q Consensus 93 Pi 94 (142)
|-
T Consensus 133 ~f 134 (161)
T COG1238 133 PF 134 (161)
T ss_pred HH
Confidence 43
No 10
>KOG0056|consensus
Probab=37.71 E-value=6.7 Score=37.11 Aligned_cols=32 Identities=34% Similarity=0.950 Sum_probs=27.3
Q ss_pred hhHHHHHHhhHHHH-----------------------hhcCchhHhhhhhHHHHH
Q psy8812 84 QGIRDLFWLPIEQY-----------------------QKDGRIVRGLQRGANSFT 115 (142)
Q Consensus 84 ~G~~dLv~~Pi~eY-----------------------rkDGri~rglqkG~~sF~ 115 (142)
..++...|+|++|| ||-|.++|-+-||++|-.
T Consensus 276 ~nlRtfLWi~VqQyttR~ie~~lfrHlh~LSlrwHL~rrtGeVLrvmdrGtssvt 330 (790)
T KOG0056|consen 276 NNLRTFLWIPVQQYTTREIETELFRHLHNLSLRWHLNRRTGEVLRVMDRGTSSVT 330 (790)
T ss_pred hhhheeEEEEhhHhHHHHHHHHHHHHHHhhceeeeecccccceeehhccCcchhh
Confidence 34678899999999 678999999999998754
No 11
>PF01320 Colicin_Pyocin: Colicin immunity protein / pyocin immunity protein; InterPro: IPR023802 Bacterial colicin and pyocin immunity proteins [, ] can bind specifically to the DNase-type colicins and pyocins and inhibit their bactericidal activity. The 1.8-angstrom crystal structure of the ImmE7 protein consists of four antiparallel alpha-helices []. Sequence similarities between colicins E2, A and E1 [] are less striking. The colicin E2 (pyocin) immunity protein does not share similarity with either the colicin E3 or cloacin DF13 [] immunity proteins. Pyocin protects a cell that harbours the plasmid ColE2 encoding colicin E2 against colicin E2; it is thus essential both for autonomous replication and colicin E2 immunity []. This entry represents the structural domain of colicin and pyocin immunity proteins.; GO: 0015643 toxin binding, 0030153 bacteriocin immunity; PDB: 1GXH_A 1GXG_A 1MZ8_C 2ERH_A 1ZNV_C 1AYI_A 1UNK_A 2JBG_A 7CEI_A 1CEI_A ....
Probab=33.65 E-value=15 Score=26.16 Aligned_cols=24 Identities=21% Similarity=0.448 Sum_probs=17.2
Q ss_pred ccccChHHHhhhhhhhhccccCHH
Q psy8812 24 QLVPDARKEAAHKWRTDEFLLGFN 47 (142)
Q Consensus 24 ~lvPd~~~ea~~K~r~l~Gi~G~~ 47 (142)
..-|...++..++||...|.+||-
T Consensus 61 edsPegIv~~vKeWRa~nG~pgFK 84 (85)
T PF01320_consen 61 EDSPEGIVKEVKEWRASNGKPGFK 84 (85)
T ss_dssp TSSHHHHHHHHHHHHHHTT---SB
T ss_pred CCCHHHHHHHHHHHHHHcCCCccC
Confidence 345777788999999999999984
No 12
>COG3821 Predicted membrane protein [Function unknown]
Probab=30.58 E-value=26 Score=29.24 Aligned_cols=21 Identities=43% Similarity=0.699 Sum_probs=17.7
Q ss_pred cCchhHhhhhhHHHHHHHHHH
Q psy8812 100 DGRIVRGLQRGANSFTTSTAM 120 (142)
Q Consensus 100 DGri~rglqkG~~sF~ktt~~ 120 (142)
|+.++.++|+|++=|+.||-.
T Consensus 58 Dtqii~glq~gtaFFASstli 78 (234)
T COG3821 58 DTQIIGGLQNGTAFFASSTLI 78 (234)
T ss_pred HHHHHHhHhccchHHHHhhHH
Confidence 899999999999888776643
No 13
>PF12444 Sox_N: Sox developmental protein N terminal ; InterPro: IPR022151 This domain family is found in eukaryotes, and is typically between 69 and 88 amino acids in length. The family is found in association with PF00505 from PFAM. There are two conserved sequence motifs: YDW and PVR. This family contains Sox8, Sox9 and Sox10 proteins which have structural similarity. Sox proteins are involved in developmental processes.
Probab=28.34 E-value=14 Score=26.32 Aligned_cols=18 Identities=44% Similarity=0.493 Sum_probs=16.0
Q ss_pred cccccccccccccccccC
Q psy8812 11 SKATSNVLGGVKSQLVPD 28 (142)
Q Consensus 11 ~~~~~n~l~g~r~~lvPd 28 (142)
.+|++.||+|--|.|||-
T Consensus 63 rdAVsqVLkGYDWtLVPm 80 (84)
T PF12444_consen 63 RDAVSQVLKGYDWTLVPM 80 (84)
T ss_pred HHHHHHHhccCCceeeec
Confidence 479999999999999984
No 14
>PF15168 TRIQK: Triple QxxK/R motif-containing protein family
Probab=25.95 E-value=28 Score=24.62 Aligned_cols=9 Identities=56% Similarity=1.106 Sum_probs=7.2
Q ss_pred HhhHHHHhh
Q psy8812 91 WLPIEQYQK 99 (142)
Q Consensus 91 ~~Pi~eYrk 99 (142)
-.|+++|||
T Consensus 10 ~~PVdqYRK 18 (79)
T PF15168_consen 10 QLPVDQYRK 18 (79)
T ss_pred CCCHHHHHH
Confidence 469999986
No 15
>PF15521 Toxin_41: Putative toxin 41
Probab=25.89 E-value=54 Score=28.16 Aligned_cols=58 Identities=14% Similarity=0.170 Sum_probs=43.5
Q ss_pred ecccccccccccc--ccccccChHHHhhhhhhhhcccc--CHHHHHHHHHHHhhHHhhhcch
Q psy8812 9 TTSKATSNVLGGV--KSQLVPDARKEAAHKWRTDEFLL--GFNKLLSFMQAEWSQDIYKNQL 66 (142)
Q Consensus 9 ~~~~~~~n~l~g~--r~~lvPd~~~ea~~K~r~l~Gi~--G~~~l~~~l~~~W~~dI~~~Ql 66 (142)
-++||+.|-..+. +..-+=+...+...+.+.+..+. +|..+.+.+.+.|..++.++|-
T Consensus 201 rste~t~np~~~~~~K~dkig~~~~~~~~r~VDl~~~~~~dw~~~l~~~~~~w~~~l~~~~~ 262 (274)
T PF15521_consen 201 RSTEATANPTSSFGHKADKIGSGGLKKNGRLVDLSELGIDDWRFFLDKIEKHWRAELKATQD 262 (274)
T ss_pred ccCCCccCCccccccchhhhcccccccCceEEEecccccccHHHHHHHHHHHHHHHhhhccc
Confidence 4688999988888 44333333335567788877776 9999999999999999986654
No 16
>cd07076 NR_LBD_GR Ligand binding domain of the glucocorticoid receptor, a member of the nuclear receptor superfamily. The ligand binding domain of the glucocorticoid receptor (GR): GR is a ligand-activated transcription factor belonging to the nuclear receptor superfamily. It binds with high affinity to cortisol and other glucocorticoids. GR is expressed in almost every cell in the body and regulates genes controlling a wide variety of processes including the development, metabolism, and immune response of the organism. In the absence of hormone, the glucocorticoid receptor (GR) is complexes with a variety of heat shock proteins in the cytosol. The binding of the glucocorticoids results in release of the heat shock proteins and transforms it to its active state. One mechanism of action of GR is by direct activation of gene transcription. The activated form of GR forms dimers, translocates into the nucleus, and binds to specific hormone responsive elements, activating gene transcription
Probab=22.84 E-value=44 Score=27.74 Aligned_cols=19 Identities=32% Similarity=0.380 Sum_probs=15.1
Q ss_pred HhhHHhhhcchhhhhcCCC
Q psy8812 56 EWSQDIYKNQLPSLLGGVG 74 (142)
Q Consensus 56 ~W~~dI~~~Ql~~vl~Gv~ 74 (142)
+=+..|.++|+|++++|.+
T Consensus 221 ~ml~ei~~~~~~~~~~~~~ 239 (247)
T cd07076 221 EMLAEIITNQIPKYSNGNI 239 (247)
T ss_pred HHHHHHHHhcccHHhcCCc
Confidence 4456678899999999973
No 17
>PF03545 YopE: Yersinia virulence determinant (YopE); InterPro: IPR014773 Secretion of virulence factors in Gram-negative bacteria involves transportation of the protein across two membranes to reach the cell exterior. There have been four secretion systems described in animal enteropathogens, such as Salmonella and Yersinia, with further sequence similarities in plant pathogens like Ralstonia and Erwinia []. The type III secretion system is of great interest, as it is used to transport virulence factors from the pathogen directly into the host cell and is only triggered when the bacterium comes into close contact with the host. The protein subunits of the system are very similar to those of bacterial flagellar biosynthesis. However, while the latter forms a ring structure to allow secretion of flagellin and is an integral part of the flagellum itself [], type III subunits in the outer membrane translocate secreted proteins through a channel-like structure. Exotoxins secreted by the type III system do not possess a secretion signal, and are considered unique for this reason []. Yersinia secrete a Rho GTPase-activating protein, YopE [, ], that disrupts the host cell actin cytoskeleton. YopE is regulated by another bacterial gene, SycE [], that enables the exotoxin to remain soluble in the bacterial cytoplasm. A similar protein, exoenzyme S from Pseudomonas aeruginosa, has both ADP-ribosylation and GTPase activity [, ].; PDB: 1HY5_B 1G4W_R 1G4U_S 1R4T_A 1HE1_A 1HE9_A.
Probab=20.92 E-value=96 Score=21.50 Aligned_cols=29 Identities=31% Similarity=0.405 Sum_probs=22.2
Q ss_pred hcchhhhhcCCCchHHHHHHhhhHHHHHH
Q psy8812 63 KNQLPSLLGGVGPMYSLVQLAQGIRDLFW 91 (142)
Q Consensus 63 ~~Ql~~vl~Gv~Pirslv~ig~G~~dLv~ 91 (142)
+.+.+.+-+|=+|+||+++--+|+++.=-
T Consensus 4 ~~~~~~LAtgnGaLRsl~T~L~gi~~~~~ 32 (70)
T PF03545_consen 4 RKNHRQLATGNGALRSLMTALQGIRQFSG 32 (70)
T ss_dssp HCHHHHHTSTT-HHHHHHHHHHHHHHHGS
T ss_pred HHHHHHHhhCCchHHHHHHHHHHHHhccc
Confidence 34577888899999999998888877643
No 18
>cd07074 NR_LBD_PR Ligand binding domain of the progesterone receptor, a member of the nuclear hormone receptor. The ligand binding domain of the progesterone receptor (PR): PR is a member of the nuclear receptor superfamily of ligand dependent transcription factors, mediating the biological actions of progesterone. PR functions in a variety of biological processes including development of the mammary gland, regulating cell cycle progression, protein processing, and metabolism. When no binding hormone is present the carboxyl terminal inhibits transcription. Binding to a hormone induces a structural change that removes the inhibitory action. After progesterone binds to the receptor, PR forms a dimer and the complex enters the nucleus where it interacts with the hormone response element (HRE) in the promoters of progesterone responsive genes and alters their transcription. In addition, rapid actions of PR that occur independent of transcription, have also been observed in several tissues
Probab=20.75 E-value=57 Score=27.13 Aligned_cols=19 Identities=32% Similarity=0.569 Sum_probs=15.4
Q ss_pred HhhHHhhhcchhhhhcCCC
Q psy8812 56 EWSQDIYKNQLPSLLGGVG 74 (142)
Q Consensus 56 ~W~~dI~~~Ql~~vl~Gv~ 74 (142)
+-+.+|.++|+|++++|.+
T Consensus 222 ~~~~~~~~~~~~~~~~~~~ 240 (248)
T cd07074 222 EMMSEVIAAQLPKILAGMV 240 (248)
T ss_pred HHHHHHHHhcccHhhcCCc
Confidence 3456788999999999973
Done!