Query 031805
Match_columns 152
No_of_seqs 112 out of 362
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 05:35:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031805.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031805hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2998 Uncharacterized conser 100.0 7.3E-46 1.6E-50 296.2 11.0 144 1-151 157-301 (302)
2 PF04727 ELMO_CED12: ELMO/CED- 100.0 1.3E-41 2.9E-46 256.6 9.8 121 1-123 49-170 (170)
3 KOG2999 Regulator of Rac1, req 100.0 1.3E-33 2.9E-38 240.6 8.3 143 1-146 343-488 (713)
4 TIGR01568 A_thal_3678 uncharac 41.3 6.2 0.00014 25.3 -0.7 11 4-14 6-16 (66)
5 PF04844 Ovate: Transcriptiona 37.7 6.9 0.00015 24.6 -0.9 10 5-14 1-10 (59)
6 PHA02819 hypothetical protein; 37.4 69 0.0015 20.8 3.7 32 94-131 2-33 (71)
7 PHA02975 hypothetical protein; 33.7 85 0.0018 20.3 3.6 32 94-131 2-33 (69)
8 PHA02650 hypothetical protein; 32.3 87 0.0019 20.8 3.6 33 94-132 2-34 (81)
9 PHA02844 putative transmembran 32.3 87 0.0019 20.5 3.5 33 94-132 2-34 (75)
10 TIGR00333 nrdI ribonucleoside- 27.4 1.8E+02 0.004 20.7 5.0 48 85-132 68-122 (125)
11 PHA02692 hypothetical protein; 26.2 1.6E+02 0.0034 19.1 3.9 33 94-132 2-34 (70)
12 KOG2292 Oligosaccharyltransfer 25.2 77 0.0017 28.8 3.1 39 1-39 260-303 (751)
13 PF11159 DUF2939: Protein of u 22.2 1.2E+02 0.0025 20.2 3.0 25 113-137 33-57 (95)
14 PF06073 DUF934: Bacterial pro 20.0 78 0.0017 22.3 1.8 24 1-29 46-69 (110)
No 1
>KOG2998 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=7.3e-46 Score=296.21 Aligned_cols=144 Identities=63% Similarity=1.016 Sum_probs=132.2
Q ss_pred CCCCCCCCCCcccchhHHHHHHHHHHHhhCcHHHHHHHHHhcCCCCcccchHHHHhHHHHHHHHHHhhhccCCCCc-ccc
Q 031805 1 MGWQGKDPSTDFRGGGFISLENLLYLARNFPKSFQDLLRKQEGDRSVWEYPFAVAGVNITFMLIQMLDLEAVKPRT-MVG 79 (152)
Q Consensus 1 lGFQ~~dP~tDfRg~GiLgL~~L~~f~~~~~~~~~~il~~~~~~~~~~~yPfA~~~InvT~~l~~~l~~~~~~~~~-~~~ 79 (152)
|||||+||+|||||+|+|||+||+||+++||+.+++++..|. ++.++||||+||||||.|++++|+.+.++.++ +..
T Consensus 157 mGfQG~dPsTDFRG~GfL~LeNLlyFa~~~~~~aq~lL~~s~--~~r~eYpfAVvgINIT~m~~qmL~~eal~~~~~~~~ 234 (302)
T KOG2998|consen 157 MGFQGADPSTDFRGMGFLGLENLLYFARTYPTSAQRLLLKSR--HPRWEYPFAVVGINITFMAIQMLDLEALKKHFNNIV 234 (302)
T ss_pred hccCCCCCCcccccchHHHHHHHHHHHHhhhHHHHHHHHhcC--CCccCCceEEEeecHHHHHHHHHHhhhccccccccc
Confidence 799999999999999999999999999999999999999874 56789999999999999999999998875443 333
Q ss_pred hhhhhhcccchhhHHHHHHHHHHHHHHHHhhCCCChhhHHHHHHHHHHHHHHhhcccCCCCCCCCCcccccc
Q 031805 80 ATFLKFLSENESAFDLLYCITFKLMDHQWLAMRASYMDFNTVMKSTRRQLERELLLEDVTRLEDLPSYSLLS 151 (152)
Q Consensus 80 ~~f~~l~~~~~~~f~el~~~~f~~F~~~W~~~~at~mdF~~V~~~~r~~l~~~L~~~~v~~~~~~~~~~~~~ 151 (152)
..| +++.+|+.+||++|..||+.|.++++||||||.|++.+|.|+++.|...++..++|+|+|.+|.
T Consensus 235 ~~~-----~~~~~F~~lYc~af~~~d~~Wl~~~~simefn~Vlk~~~~qler~L~~~d~~~~~~lp~~~~L~ 301 (302)
T KOG2998|consen 235 KVF-----ETEPAFDLLYCYAFLEFDKQWLEQRATIMEFNTVLKSFRRQLERELSLDDVLLITDLPAFNLLL 301 (302)
T ss_pred ccc-----ccHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhhhhhcccccchhhhhhc
Confidence 333 6778999999999999999999999999999999999999999999999999999999999885
No 2
>PF04727 ELMO_CED12: ELMO/CED-12 family; InterPro: IPR006816 This entry represents the ELMO (EnguLfment and Cell MOtility) domain, which is found in a number of eukaryotic proteins involved in the cytoskeletal rearrangements required for phagocytosis of apoptotic cells and cell motility, including CED-12, ELMO-1 and ELMO-2. ELMO-1 and ELMO-2 are components of signalling pathways that regulate phagocytosis and cell migration and are mammalian orthologues of the Caenorhabditis elegans gene, ced-12 that is required for the engulfment of dying cells and cell migration. ELMO-1/2 act in association with DOCK1 and CRK. ELMO-1/2 interact with the SH3-domain of DOCK1 via an SH3-binding site to enhance the guanine nucleotide exchange factor (GEF) activity of DOCK1. ELMO-1/2 could be part of a complex with DOCK1 and Rac1 that could be required to activate Rac Rho small GTPases. Regulatory GTPases in the Ras superfamily employ a cycle of alternating GTP binding and hydrolysis, controlled by guanine nucleotide exchange factors and GTPase-activating proteins (GAPs), as essential features of their actions in cells. Within the Ras superfamily, the Arf family is composed of 30 members, including 22 Arf-like (Arl) proteins. The ELMO domain has been proposed to be a GAP domain for ARL2 and other members of the Arf family [].; GO: 0006909 phagocytosis, 0005856 cytoskeleton
Probab=100.00 E-value=1.3e-41 Score=256.59 Aligned_cols=121 Identities=41% Similarity=0.773 Sum_probs=105.6
Q ss_pred CCCCCCCCCCcccchhHHHHHHHHHHHhhCcHHHHHHHHHhcCCCCcccchHHHHhHHHHHHHHHHhhhccCCCCcccch
Q 031805 1 MGWQGKDPSTDFRGGGFISLENLLYLARNFPKSFQDLLRKQEGDRSVWEYPFAVAGVNITFMLIQMLDLEAVKPRTMVGA 80 (152)
Q Consensus 1 lGFQ~~dP~tDfRg~GiLgL~~L~~f~~~~~~~~~~il~~~~~~~~~~~yPfA~~~InvT~~l~~~l~~~~~~~~~~~~~ 80 (152)
|||||+||+|||||+|+|||+||+||+++||+.+++|+.+|.++.+.++||||+||||||.+|+++++.+...+... .
T Consensus 49 lGFQ~~dP~tDFR~~G~LgL~~L~yf~~~~~~~~~~~l~~~~~~~~~~~~Pfa~~~invt~~l~~~l~~~~~~~~~~--~ 126 (170)
T PF04727_consen 49 LGFQGEDPATDFRGMGLLGLDCLLYFAENYPDEFRRILREQSSRSDENWYPFAVASINVTSLLCELLKLGALDSEFY--K 126 (170)
T ss_pred hCCCCCCcHHHHhhhhHHHHHHHHHHHHHChHHHHHHHHHccCcccccccHHHHHHHHHHHHHHHHHhhcccCHHHh--h
Confidence 79999999999999999999999999999999999999999877666899999999999999999999865432221 1
Q ss_pred hhhhh-cccchhhHHHHHHHHHHHHHHHHhhCCCChhhHHHHHH
Q 031805 81 TFLKF-LSENESAFDLLYCITFKLMDHQWLAMRASYMDFNTVMK 123 (152)
Q Consensus 81 ~f~~l-~~~~~~~f~el~~~~f~~F~~~W~~~~at~mdF~~V~~ 123 (152)
.+... +.+.+.+|++|||.+|..|+++|+++++++|||++|++
T Consensus 127 ~~~~~~~~~~~~~f~elf~~~f~~f~~~W~~~~at~~dF~~V~~ 170 (170)
T PF04727_consen 127 RINFLSFFSSLEAFEELFCACFQLFDRTWKEMNATIMDFNKVLK 170 (170)
T ss_pred cccccccCccHHHHHHHHHHHHHHHHHHHccCCCCHHHHHhhcC
Confidence 11111 45677899999999999999999999999999999974
No 3
>KOG2999 consensus Regulator of Rac1, required for phagocytosis and cell migration [Signal transduction mechanisms]
Probab=100.00 E-value=1.3e-33 Score=240.65 Aligned_cols=143 Identities=28% Similarity=0.606 Sum_probs=133.3
Q ss_pred CCCCC-CCCCCccc--chhHHHHHHHHHHHhhCcHHHHHHHHHhcCCCCcccchHHHHhHHHHHHHHHHhhhccCCCCcc
Q 031805 1 MGWQG-KDPSTDFR--GGGFISLENLLYLARNFPKSFQDLLRKQEGDRSVWEYPFAVAGVNITFMLIQMLDLEAVKPRTM 77 (152)
Q Consensus 1 lGFQ~-~dP~tDfR--g~GiLgL~~L~~f~~~~~~~~~~il~~~~~~~~~~~yPfA~~~InvT~~l~~~l~~~~~~~~~~ 77 (152)
+||.. .||+.||- .+|+|+|+||+||+++||+.+.+|+.++.+|.++++|||+..+|.+|.+||++|+.++ +++.
T Consensus 343 lgf~n~~npa~df~etppG~LAldnMvyFA~~~~~~y~riVlENSsRedkhecpfgr~sieltk~lcEilrVge--~p~E 420 (713)
T KOG2999|consen 343 LGFENRINPAQDFGETPPGRLALDNMVYFARNSPQDYRRIVLENSSREDKHECPFGRMSIELTKILCELLRVGE--PPDE 420 (713)
T ss_pred hcccccCChHHhcccCCchHHHHHHHHHHHHhCHHHHHHHHHhcccccccCcCCcCccHHHHHHHHHHHHhcCC--Cchh
Confidence 69998 59999996 7799999999999999999999999999999999999999999999999999999875 4455
Q ss_pred cchhhhhhcccchhhHHHHHHHHHHHHHHHHhhCCCChhhHHHHHHHHHHHHHHhhcccCCCCCCCCCc
Q 031805 78 VGATFLKFLSENESAFDLLYCITFKLMDHQWLAMRASYMDFNTVMKSTRRQLERELLLEDVTRLEDLPS 146 (152)
Q Consensus 78 ~~~~f~~l~~~~~~~f~el~~~~f~~F~~~W~~~~at~mdF~~V~~~~r~~l~~~L~~~~v~~~~~~~~ 146 (152)
....|+|+||.++.+|+|+||.|.++|+++|+||.||-.||+||+..||+||.|+|..+ ++++|++++
T Consensus 421 ~~~df~pmfFthd~~Fee~FciciqLlnkTWKEMrAt~edf~KVmqVVrEQl~r~L~~k-p~sld~fks 488 (713)
T KOG2999|consen 421 LDRDFIPMFFTHDTPFEELFCICVQLLNRTWKEMRATAEDFEKVMQVVREQLRRALKRK-PQSLDQFKS 488 (713)
T ss_pred hcCccceeeecCCCcHHHHHHHHHHHHHhHHHHHHhhhhhHHHHHHHHHHHHHHHhccC-CccHHHHHH
Confidence 55679999999999999999999999999999999999999999999999999999997 888887764
No 4
>TIGR01568 A_thal_3678 uncharacterized plant-specific domain TIGR01568. This model describes an uncharacterized domain of about 70 residues found exclusively in plants, generally toward the C-terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana. Other regions of these proteins tend to consist largely of low-complexity sequence.
Probab=41.32 E-value=6.2 Score=25.33 Aligned_cols=11 Identities=45% Similarity=0.857 Sum_probs=9.2
Q ss_pred CCCCCCCcccc
Q 031805 4 QGKDPSTDFRG 14 (152)
Q Consensus 4 Q~~dP~tDfRg 14 (152)
.+.||..|||.
T Consensus 6 ~S~DPy~DFr~ 16 (66)
T TIGR01568 6 ESDDPYEDFRR 16 (66)
T ss_pred CCCChHHHHHH
Confidence 57899999985
No 5
>PF04844 Ovate: Transcriptional repressor, ovate; InterPro: IPR006458 This group of sequences contain an uncharacterised domain of about 70 residues found exclusively in plants, generally toward the C terminus of proteins of 200 to 350 amino acids in length. At least 14 such proteins are found in Arabidopsis thaliana (Mouse-ear cress). Other regions of these proteins tend to consist largely of low-complexity sequence. Function is not known.
Probab=37.70 E-value=6.9 Score=24.56 Aligned_cols=10 Identities=50% Similarity=0.880 Sum_probs=7.7
Q ss_pred CCCCCCcccc
Q 031805 5 GKDPSTDFRG 14 (152)
Q Consensus 5 ~~dP~tDfRg 14 (152)
+.||..|||.
T Consensus 1 S~DP~~DFr~ 10 (59)
T PF04844_consen 1 SSDPYEDFRE 10 (59)
T ss_pred CCCHHHHHHH
Confidence 4688888884
No 6
>PHA02819 hypothetical protein; Provisional
Probab=37.42 E-value=69 Score=20.79 Aligned_cols=32 Identities=31% Similarity=0.507 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHhhCCCChhhHHHHHHHHHHHHHH
Q 031805 94 DLLYCITFKLMDHQWLAMRASYMDFNTVMKSTRRQLER 131 (152)
Q Consensus 94 ~el~~~~f~~F~~~W~~~~at~mdF~~V~~~~r~~l~~ 131 (152)
++||+++|=.| |..+=.||+..++.+|+-+..
T Consensus 2 DKLYaaiFGvF------msS~DdDFnnFI~VVksVLtd 33 (71)
T PHA02819 2 DKLYSAIFGVF------MSSSDDDFNNFINVVKSVLNN 33 (71)
T ss_pred hhHHHHHHHhh------hCCchhHHHHHHHHHHHHHcC
Confidence 46899998888 667788999999998887765
No 7
>PHA02975 hypothetical protein; Provisional
Probab=33.67 E-value=85 Score=20.28 Aligned_cols=32 Identities=16% Similarity=0.340 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHhhCCCChhhHHHHHHHHHHHHHH
Q 031805 94 DLLYCITFKLMDHQWLAMRASYMDFNTVMKSTRRQLER 131 (152)
Q Consensus 94 ~el~~~~f~~F~~~W~~~~at~mdF~~V~~~~r~~l~~ 131 (152)
++||+++|=.| +..+=.||+..++.+|+.+..
T Consensus 2 dKLYaaiFGvF------msS~DdDF~nFI~vVksVLtd 33 (69)
T PHA02975 2 EKLFTGTYGVF------LESNDSDFEDFIDTIMHVLTG 33 (69)
T ss_pred hhHHHHHHHhh------cCCChHHHHHHHHHHHHHHcC
Confidence 46888888887 667778999998888766543
No 8
>PHA02650 hypothetical protein; Provisional
Probab=32.30 E-value=87 Score=20.83 Aligned_cols=33 Identities=30% Similarity=0.509 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHhhCCCChhhHHHHHHHHHHHHHHh
Q 031805 94 DLLYCITFKLMDHQWLAMRASYMDFNTVMKSTRRQLERE 132 (152)
Q Consensus 94 ~el~~~~f~~F~~~W~~~~at~mdF~~V~~~~r~~l~~~ 132 (152)
++||+++|=.| |..+=.||+..++.||+.+...
T Consensus 2 DKLYaaiFGVF------msS~DdDFnnFI~VVkSVLtD~ 34 (81)
T PHA02650 2 DKLYAAIFGVF------MSSTDDDFNNFIDVVKSVLSDE 34 (81)
T ss_pred hhHHHHHHhhh------cCCcHHHHHHHHHHHHHHHcCC
Confidence 46899988888 6677889999988888766543
No 9
>PHA02844 putative transmembrane protein; Provisional
Probab=32.28 E-value=87 Score=20.55 Aligned_cols=33 Identities=24% Similarity=0.486 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHhhCCCChhhHHHHHHHHHHHHHHh
Q 031805 94 DLLYCITFKLMDHQWLAMRASYMDFNTVMKSTRRQLERE 132 (152)
Q Consensus 94 ~el~~~~f~~F~~~W~~~~at~mdF~~V~~~~r~~l~~~ 132 (152)
++||+++|=.| |..+=.||+..++.+|+-+...
T Consensus 2 DKLYaaiFGVF------msS~DdDFnnFI~vVksVLtd~ 34 (75)
T PHA02844 2 DKLYTAIFGVF------LSSENEDFNNFIDVVKSVLSDD 34 (75)
T ss_pred hhHHHHHHhhh------cCCchHHHHHHHHHHHHHHcCC
Confidence 46888888888 6677889999988888766544
No 10
>TIGR00333 nrdI ribonucleoside-diphosphate reductase 2, operon protein nrdI. Ribonucleotide reductases (RNRs) are enzymes that provide the precursors of DNA synthesis. The three characterized classes of RNRs differ by their metal cofactor and their stable organic radical. The exact function of nrdI within the ribonucleotide reductases has not yet been fully characterised.
Probab=27.42 E-value=1.8e+02 Score=20.68 Aligned_cols=48 Identities=2% Similarity=0.087 Sum_probs=39.2
Q ss_pred hcccchhhHHHHHHHHHHHHHHHHh-------hCCCChhhHHHHHHHHHHHHHHh
Q 031805 85 FLSENESAFDLLYCITFKLMDHQWL-------AMRASYMDFNTVMKSTRRQLERE 132 (152)
Q Consensus 85 l~~~~~~~f~el~~~~f~~F~~~W~-------~~~at~mdF~~V~~~~r~~l~~~ 132 (152)
++.+-+..|.+.||.+-..+.+-.. |..++-.|-.+|.+.+++.+++.
T Consensus 68 V~gSGn~n~g~~fc~A~d~ia~~~~~p~l~k~El~gt~~Dv~~~~~~~~~~~~~~ 122 (125)
T TIGR00333 68 VAASGNKVWGDNFALAGDVISRKLNVPLLYKFELSGTKNDVELFTQEVQKIVTNF 122 (125)
T ss_pred EEEcCCCchHHHHHHHHHHHHHHhCCccEEEEecCCCHHHHHHHHHHHHHHHHHH
Confidence 4455667788899999999999887 44677789999999999988875
No 11
>PHA02692 hypothetical protein; Provisional
Probab=26.16 E-value=1.6e+02 Score=19.13 Aligned_cols=33 Identities=24% Similarity=0.377 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHhhCCCChhhHHHHHHHHHHHHHHh
Q 031805 94 DLLYCITFKLMDHQWLAMRASYMDFNTVMKSTRRQLERE 132 (152)
Q Consensus 94 ~el~~~~f~~F~~~W~~~~at~mdF~~V~~~~r~~l~~~ 132 (152)
++||+++|=.| +..+=.||+..++.||+-+...
T Consensus 2 DKLyaaifGVF------mss~DdDF~~Fi~vVksVLtDk 34 (70)
T PHA02692 2 DKLYAGVFGSF------LSNSDEDFEEFLNIVRTVMTEK 34 (70)
T ss_pred hhHHHHHHHhh------cCCCHHHHHHHHHHHHHHHcCC
Confidence 46888888887 4455569999999888877655
No 12
>KOG2292 consensus Oligosaccharyltransferase, STT3 subunit [Posttranslational modification, protein turnover, chaperones]
Probab=25.17 E-value=77 Score=28.80 Aligned_cols=39 Identities=28% Similarity=0.421 Sum_probs=26.9
Q ss_pred CCCCCCCCCCcccchhHHHHHHHHHHHhh-----CcHHHHHHHH
Q 031805 1 MGWQGKDPSTDFRGGGFISLENLLYLARN-----FPKSFQDLLR 39 (152)
Q Consensus 1 lGFQ~~dP~tDfRg~GiLgL~~L~~f~~~-----~~~~~~~il~ 39 (152)
+|||----..-.-+.|++||.|+++|+.. .|..|+.++.
T Consensus 260 VGFqpv~tsEHmaa~gVF~L~qi~Af~~y~k~~ls~~~F~~l~~ 303 (751)
T KOG2292|consen 260 VGFQPVRTSEHMAALGVFGLLQIVAFVDYLKGRLSPKQFQVLFR 303 (751)
T ss_pred cccccccchhHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHH
Confidence 47875444444457799999999999875 3555555544
No 13
>PF11159 DUF2939: Protein of unknown function (DUF2939); InterPro: IPR021330 This bacterial family of proteins has no known function.
Probab=22.19 E-value=1.2e+02 Score=20.19 Aligned_cols=25 Identities=40% Similarity=0.514 Sum_probs=21.4
Q ss_pred CChhhHHHHHHHHHHHHHHhhcccC
Q 031805 113 ASYMDFNTVMKSTRRQLERELLLED 137 (152)
Q Consensus 113 at~mdF~~V~~~~r~~l~~~L~~~~ 137 (152)
..+.||+.|.+.+++|+...+..+-
T Consensus 33 ~~~VD~~avr~slk~ql~~~~~~~~ 57 (95)
T PF11159_consen 33 ARYVDFPAVRASLKDQLNAELVSRI 57 (95)
T ss_pred HHHcCHHHHHHHHHHHHHHHHHhhc
Confidence 4689999999999999999987633
No 14
>PF06073 DUF934: Bacterial protein of unknown function (DUF934); InterPro: IPR008318 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.01 E-value=78 Score=22.28 Aligned_cols=24 Identities=33% Similarity=0.647 Sum_probs=20.5
Q ss_pred CCCCCCCCCCcccchhHHHHHHHHHHHhh
Q 031805 1 MGWQGKDPSTDFRGGGFISLENLLYLARN 29 (152)
Q Consensus 1 lGFQ~~dP~tDfRg~GiLgL~~L~~f~~~ 29 (152)
.||||+ +|..|=+..+|+.|+.+.
T Consensus 46 ~gy~Ge-----lRA~Gdvl~DQl~~l~R~ 69 (110)
T PF06073_consen 46 YGYTGE-----LRAVGDVLRDQLFYLRRC 69 (110)
T ss_pred cCCCCc-----EEEeccchHHHHHHHHHc
Confidence 478884 899999999999998864
Done!