Query 029270
Match_columns 196
No_of_seqs 59 out of 61
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 10:12:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029270.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029270hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06549 DUF1118: Protein of u 100.0 3.7E-48 8E-53 305.2 9.8 116 81-196 1-116 (116)
2 PF06549 DUF1118: Protein of u 99.1 2.5E-11 5.4E-16 96.7 2.9 49 74-123 3-52 (116)
3 cd02433 Nodulin-21_like_2 Nodu 49.0 19 0.00041 31.3 3.2 51 63-113 67-120 (234)
4 PF01988 VIT1: VIT family; In 48.4 14 0.0003 30.9 2.2 92 91-192 80-184 (213)
5 COG3413 Predicted DNA binding 43.9 18 0.0004 29.9 2.3 48 73-122 158-205 (215)
6 PF15413 PH_11: Pleckstrin hom 30.6 22 0.00048 27.0 0.7 19 47-65 6-24 (112)
7 PF06369 Anemone_cytotox: Sea 28.0 42 0.0009 29.2 1.9 31 51-82 104-134 (176)
8 PF11239 DUF3040: Protein of u 26.2 87 0.0019 22.7 3.1 28 98-130 4-31 (82)
9 cd02434 Nodulin-21_like_3 Nodu 22.4 59 0.0013 27.9 1.9 50 64-113 51-103 (225)
10 COG4352 RPL13 Ribosomal protei 20.7 51 0.0011 26.9 1.1 20 104-123 60-80 (113)
11 PF09278 MerR-DNA-bind: MerR, 20.5 62 0.0013 21.5 1.3 22 92-113 2-23 (65)
12 COG1695 Predicted transcriptio 20.4 15 0.00033 28.0 -1.9 53 38-91 11-63 (138)
No 1
>PF06549 DUF1118: Protein of unknown function (DUF1118); InterPro: IPR009500 This family consists of several hypothetical plant proteins of unknown function.
Probab=100.00 E-value=3.7e-48 Score=305.22 Aligned_cols=116 Identities=59% Similarity=0.793 Sum_probs=114.9
Q ss_pred hhHhhhhhhhHhhhchhhHHHHcCCchhhhhhcccchhhhhhchhhhHHhhcCCChhhHHHhhHHHHHhhheeEEEeeCC
Q 029270 81 KLEQRKVLSNVEKAGLLSKAEELGVTLSSIEKLGLFSKAEELGLLSLLEKLASASPSTLASASLPIFLAAVAAVVVIPDD 160 (196)
Q Consensus 81 ~~e~~klLS~~e~~GLLskaE~~GlSLS~iEklGlLSkAE~lGlLS~~~~~~~~sP~aL~slaLpLl~Ag~a~v~~vPdd 160 (196)
|+||+|+||++||+||||+||++|+|||+|||+||||||||+|+||+++|.+..+|++|++++|||+++||++||+||||
T Consensus 1 ~~Ek~KlLs~~EkaGLLS~AE~~GlsLS~iEkLgLlSkAE~LGlLs~a~~~~~~~P~~L~slaL~ll~ag~~~v~~vPdd 80 (116)
T PF06549_consen 1 RVEKLKLLSKAEKAGLLSKAEKAGLSLSSIEKLGLLSKAEELGLLSLAEDPASSSPGALASLALPLLVAGPAAVYLVPDD 80 (116)
T ss_pred ChHHHHHHHHHHHhhhHHHHHHcCCcHHHHHHhccccchHHhhhhHhccccccCChHHHHHHHHHHHHhhhheEEEecCC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHHHHHHHHHhhhhhhhhHHHHhhcccccCC
Q 029270 161 SVTLVVVQAVLAAALGVGAAGLFVGSVVLGGLQEAD 196 (196)
Q Consensus 161 s~~~Va~Q~v~A~~~~vg~~a~f~gS~~l~~LQ~sd 196 (196)
|+|+|++|+|+|++|++|++++|+||+++++|||+|
T Consensus 81 s~~~va~Q~vvA~~~~vg~~a~f~gS~~l~~LQ~s~ 116 (116)
T PF06549_consen 81 STWLVALQAVVALVCVVGGSAAFAGSSLLSKLQESD 116 (116)
T ss_pred cHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhhcCC
Confidence 999999999999999999999999999999999998
No 2
>PF06549 DUF1118: Protein of unknown function (DUF1118); InterPro: IPR009500 This family consists of several hypothetical plant proteins of unknown function.
Probab=99.13 E-value=2.5e-11 Score=96.71 Aligned_cols=49 Identities=47% Similarity=0.662 Sum_probs=47.5
Q ss_pred hhhhHHHhhHhhhhhhhHhhhch-hhHHHHcCCchhhhhhcccchhhhhhc
Q 029270 74 VEVDMFKKLEQRKVLSNVEKAGL-LSKAEELGVTLSSIEKLGLFSKAEELG 123 (196)
Q Consensus 74 ~~~~ll~~~e~~klLS~~e~~GL-LskaE~~GlSLS~iEklGlLSkAE~lG 123 (196)
+..++|+++||.+|||++|+.|+ ||+.||.|+ ||+.|++|+||.+|+++
T Consensus 3 Ek~KlLs~~EkaGLLS~AE~~GlsLS~iEkLgL-lSkAE~LGlLs~a~~~~ 52 (116)
T PF06549_consen 3 EKLKLLSKAEKAGLLSKAEKAGLSLSSIEKLGL-LSKAEELGLLSLAEDPA 52 (116)
T ss_pred HHHHHHHHHHHhhhHHHHHHcCCcHHHHHHhcc-ccchHHhhhhHhccccc
Confidence 46899999999999999999999 999999999 99999999999999999
No 3
>cd02433 Nodulin-21_like_2 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_2: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=49.01 E-value=19 Score=31.30 Aligned_cols=51 Identities=18% Similarity=0.128 Sum_probs=32.0
Q ss_pred ecccccCC-CcchhhhHHHhhHhhhhh--hhHhhhchhhHHHHcCCchhhhhhc
Q 029270 63 GAGIFCEG-SEEVEVDMFKKLEQRKVL--SNVEKAGLLSKAEELGVTLSSIEKL 113 (196)
Q Consensus 63 g~G~f~e~-se~~~~~ll~~~e~~klL--S~~e~~GLLskaE~~GlSLS~iEkl 113 (196)
|.|.|-.. +|.+.++--.+-|+..+- ...|+.-+....++.|+|.++.++.
T Consensus 67 a~GeYls~kse~d~~~~~~~re~~~i~~~p~~e~~el~~iy~~~G~~~~~a~~~ 120 (234)
T cd02433 67 AAGEYVSVTSQRELLEASIPDERRELRKHPLEEAAELALIYRAKGLDEEEAKRV 120 (234)
T ss_pred HhhhhhhhhhHHHHHHHHHHHHHHHhhhCcHHHHHHHHHHHHHcCCCHHHHHHH
Confidence 34555433 344455544455554333 3567777888889999999888755
No 4
>PF01988 VIT1: VIT family; InterPro: IPR008217 Proteins containing this entry have no known function and are predicted to be integral membrane proteins. They include the Ccc1 protein from Saccharomyces cerevisiae (Baker's yeast) (P47818 from SWISSPROT) that may have a role in regulating calcium levels [].
Probab=48.39 E-value=14 Score=30.91 Aligned_cols=92 Identities=23% Similarity=0.182 Sum_probs=47.4
Q ss_pred HhhhchhhHHHHcCCchhhhhhc-ccchh---------hhhhchhhhHHhhcCCChh---hHHHhhHHHHHhhheeEEEe
Q 029270 91 VEKAGLLSKAEELGVTLSSIEKL-GLFSK---------AEELGLLSLLEKLASASPS---TLASASLPIFLAAVAAVVVI 157 (196)
Q Consensus 91 ~e~~GLLskaE~~GlSLS~iEkl-GlLSk---------AE~lGlLS~~~~~~~~sP~---aL~slaLpLl~Ag~a~v~~v 157 (196)
.|+.-+....+++|++-.++|+. ..+++ .||+|+.. ++ ...|- ....++.-+...-|...|++
T Consensus 80 ~e~~el~~iy~~~Gl~~~~a~~i~~~l~~~~~~~~~m~~ee~g~~~--~~--~~~p~~~al~~~~sf~lg~liPllp~~~ 155 (213)
T PF01988_consen 80 EEKEELVEIYRAKGLSEEDAEEIAEELSKDKDALDFMMREELGLSP--EE--EESPWKAALATFLSFILGGLIPLLPYFF 155 (213)
T ss_pred hHHHHHHHHHHHCCCCHHHHHHHHHHHHhCchHHHHHHhhhccCCc--cc--cchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445667778889988888776 33343 45566544 22 22332 22235555555566666655
Q ss_pred eCCChHHHHHHHHHHHHHhhhhhhhhHHHHhhccc
Q 029270 158 PDDSVTLVVVQAVLAAALGVGAAGLFVGSVVLGGL 192 (196)
Q Consensus 158 Pdds~~~Va~Q~v~A~~~~vg~~a~f~gS~~l~~L 192 (196)
.+ + .. ..+...+++...++|+-+.+.+++
T Consensus 156 ~~-~-~~----~a~~~s~~~~~~~L~~~G~~~a~~ 184 (213)
T PF01988_consen 156 LP-S-VS----EAFIASIAVTILALFILGYFKARI 184 (213)
T ss_pred hh-h-HH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 54 2 11 333444444445555555544444
No 5
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=43.86 E-value=18 Score=29.88 Aligned_cols=48 Identities=17% Similarity=0.301 Sum_probs=34.2
Q ss_pred chhhhHHHhhHhhhhhhhHhhhchhhHHHHcCCchhhhhhcccchhhhhh
Q 029270 73 EVEVDMFKKLEQRKVLSNVEKAGLLSKAEELGVTLSSIEKLGLFSKAEEL 122 (196)
Q Consensus 73 ~~~~~ll~~~e~~klLS~~e~~GLLskaE~~GlSLS~iEklGlLSkAE~l 122 (196)
+-+..+|+..=+.|....=.+.++-..||+.|+|-+.+++- |.+||+-
T Consensus 158 drQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst~~eh--LRrAe~K 205 (215)
T COG3413 158 DRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKSTLSEH--LRRAERK 205 (215)
T ss_pred HHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHHHHHH--HHHHHHH
Confidence 44455555555555555555555667899999999999998 8888864
No 6
>PF15413 PH_11: Pleckstrin homology domain; PDB: 3MDB_D 3FEH_A 3LJU_X 3FM8_C.
Probab=30.55 E-value=22 Score=26.98 Aligned_cols=19 Identities=37% Similarity=0.727 Sum_probs=12.3
Q ss_pred ccccccccccccceeeecc
Q 029270 47 RKKVNKYDANWEKQWFGAG 65 (196)
Q Consensus 47 ~Kkvn~~d~~w~k~~fg~G 65 (196)
+||+|++-.+|++-||-.=
T Consensus 6 ~K~~~~~~kgWk~RwFiL~ 24 (112)
T PF15413_consen 6 YKWGNKFGKGWKKRWFILR 24 (112)
T ss_dssp EE--TTS-S--EEEEEEEE
T ss_pred EEecCCCCcCccccEEEEE
Confidence 6899998999999999875
No 7
>PF06369 Anemone_cytotox: Sea anemone cytotoxic protein; InterPro: IPR009104 Sea anemones are a rich source of lethal pore-forming peptides and proteins, known collectively as cytolysins or actinoporins. There are several different groups of cytolysins based on their structure and function []. This entry represents the most numerous group, the 20kDa highly basic peptides. These cytolysins form cation-selective pores in sphingomyelin-containing membranes. Examples include equinatoxins (from Actinia equina), sticholysins (from Stichodactyla helianthus), magnificalysins (from Heteractis magnifica), and tenebrosins (from Actinia tenebrosa), which exhibit pore-forming, haemolytic, cytotoxic, and heart stimulatory activities. Cytolysins adopt a stable soluble structure, which undergoes a conformational change when brought in contact with a membrane, leading to an active, membrane-bound form that inserts spontaneously into the membrane. They often oligomerise on the membrane surface, before puncturing the lipid bilayers, causing the cell to lyse. The 20kDa sea anemone cytolysins require a phosphocholine lipid headgroup for binding, however sphingomyelin is required for the toxin to promote membrane permeability []. The crystal structures of equinotoxin II [] and sticholysin II [] both revealed a compact beta-sandwich consisting of ten strands in two sheets flanked on each side by two short alpha-helices, which is a similar topology to osmotin. It is believed that the beta sandwich structure attaches to the membrane, while a three-turn alpha helix lying on the surface of the beta sheet may be involved in membrane pore formation, possibly by the penetration of the membrane by the helix.; GO: 0015267 channel activity, 0006812 cation transport, 0046931 pore complex assembly, 0052331 hemolysis in other organism involved in symbiotic interaction, 0046930 pore complex; PDB: 2KS4_A 1KD6_A 1IAZ_A 1TZQ_A 3LIM_F 1O71_B 2L2B_A 1GWY_B 1O72_A 2L38_A ....
Probab=27.98 E-value=42 Score=29.17 Aligned_cols=31 Identities=13% Similarity=0.532 Sum_probs=20.3
Q ss_pred ccccccccceeeecccccCCCcchhhhHHHhh
Q 029270 51 NKYDANWEKQWFGAGIFCEGSEEVEVDMFKKL 82 (196)
Q Consensus 51 n~~d~~w~k~~fg~G~f~e~se~~~~~ll~~~ 82 (196)
..||-||-+.||++|++.... ..+-++.+.+
T Consensus 104 vP~dynly~nw~~Vgvy~g~r-~~D~~lye~m 134 (176)
T PF06369_consen 104 VPFDYNLYSNWWAVGVYEGRR-RCDQKLYEEM 134 (176)
T ss_dssp E-STTTTS--EEEEEEESSSS--SSHHHHHHH
T ss_pred cccccccccceeEEEEEcCCc-cccHHHHHHH
Confidence 569999999999999986443 4555666554
No 8
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=26.20 E-value=87 Score=22.72 Aligned_cols=28 Identities=25% Similarity=0.348 Sum_probs=18.0
Q ss_pred hHHHHcCCchhhhhhcccchhhhhhchhhhHHh
Q 029270 98 SKAEELGVTLSSIEKLGLFSKAEELGLLSLLEK 130 (196)
Q Consensus 98 skaE~~GlSLS~iEklGlLSkAE~lGlLS~~~~ 130 (196)
|.=|+. .|.+||+. |. +||+.+-+.++.
T Consensus 4 Se~E~r--~L~eiEr~--L~-~~DP~fa~~l~~ 31 (82)
T PF11239_consen 4 SEHEQR--RLEEIERQ--LR-ADDPRFAARLRS 31 (82)
T ss_pred CHHHHH--HHHHHHHH--HH-hcCcHHHHHhcc
Confidence 444444 37788887 43 578888777666
No 9
>cd02434 Nodulin-21_like_3 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_3: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=22.41 E-value=59 Score=27.89 Aligned_cols=50 Identities=18% Similarity=0.183 Sum_probs=30.0
Q ss_pred ccccc-CCCcchhhhHHHhhHhhhhh--hhHhhhchhhHHHHcCCchhhhhhc
Q 029270 64 AGIFC-EGSEEVEVDMFKKLEQRKVL--SNVEKAGLLSKAEELGVTLSSIEKL 113 (196)
Q Consensus 64 ~G~f~-e~se~~~~~ll~~~e~~klL--S~~e~~GLLskaE~~GlSLS~iEkl 113 (196)
.|.|. +.+|.+.++--++-|+..+- .+.|+.-+...-+++|++-.+.++.
T Consensus 51 ~GeYls~kse~d~~~~e~~re~~~i~~~pe~E~~el~~iy~~kG~~~~~a~~v 103 (225)
T cd02434 51 AGEYVSTKAERDFLHSEKKREEWEIENYPEGEKSEMVEIYSLKGLSEEVADQV 103 (225)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHcCCCHHHHHHH
Confidence 34442 33455444444455554443 3566777777788889988777763
No 10
>COG4352 RPL13 Ribosomal protein L13E [Translation, ribosomal structure and biogenesis]
Probab=20.67 E-value=51 Score=26.88 Aligned_cols=20 Identities=40% Similarity=0.664 Sum_probs=9.2
Q ss_pred CCchhhhhhccc-chhhhhhc
Q 029270 104 GVTLSSIEKLGL-FSKAEELG 123 (196)
Q Consensus 104 GlSLS~iEklGl-LSkAE~lG 123 (196)
|+|+.++|++|| .-+|..+|
T Consensus 60 GFslgEl~aAGL~~~~AR~LG 80 (113)
T COG4352 60 GFSLGELKAAGLSARKARTLG 80 (113)
T ss_pred CccHHHHHHcCcCHHHHHhhC
Confidence 444444444444 33444444
No 11
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=20.48 E-value=62 Score=21.54 Aligned_cols=22 Identities=32% Similarity=0.613 Sum_probs=15.9
Q ss_pred hhhchhhHHHHcCCchhhhhhc
Q 029270 92 EKAGLLSKAEELGVTLSSIEKL 113 (196)
Q Consensus 92 e~~GLLskaE~~GlSLS~iEkl 113 (196)
+...++..+...|+||.+|=++
T Consensus 2 ~rL~~I~~~r~lGfsL~eI~~~ 23 (65)
T PF09278_consen 2 ERLQFIRRLRELGFSLEEIREL 23 (65)
T ss_dssp HHHHHHHHHHHTT--HHHHHHH
T ss_pred hHHHHHHHHHHcCCCHHHHHHH
Confidence 4556778889999999998777
No 12
>COG1695 Predicted transcriptional regulators [Transcription]
Probab=20.45 E-value=15 Score=27.99 Aligned_cols=53 Identities=21% Similarity=0.263 Sum_probs=39.0
Q ss_pred cceeeeeccccccccccccccceeeecccccCCCcchhhhHHHhhHhhhhhhhH
Q 029270 38 VSTIVAMASRKKVNKYDANWEKQWFGAGIFCEGSEEVEVDMFKKLEQRKVLSNV 91 (196)
Q Consensus 38 ~~~v~amA~~Kkvn~~d~~w~k~~fg~G~f~e~se~~~~~ll~~~e~~klLS~~ 91 (196)
.+.|..+...++...|+-...-....-| +++-++-.-|++|+++|+.++++..
T Consensus 11 ~~~iL~~L~~~~~~Gyei~k~~~~~~~~-~~~~s~gtiYp~L~~Le~~Gli~~~ 63 (138)
T COG1695 11 ELLILSLLSEKPSHGYEIIKELEELSGG-LWEPSPGTIYPLLKRLEKEGLIESR 63 (138)
T ss_pred HHHHHHHHhcCCchHHHHHHHHHHHcCC-CCcCCCCcHHHHHHHHHHCCCeEEE
Confidence 4556666677777777775544444555 6777888889999999999999864
Done!