Query 005799
Match_columns 676
No_of_seqs 344 out of 831
Neff 4.5
Searched_HMMs 46136
Date Thu Mar 28 13:54:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005799.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005799hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06507 Auxin_resp: Auxin res 100.0 2.8E-35 6.1E-40 255.9 8.9 83 291-374 1-83 (83)
2 PF02309 AUX_IAA: AUX/IAA fami 99.9 4.1E-29 8.8E-34 250.1 0.5 76 592-667 108-201 (215)
3 PF02362 B3: B3 DNA binding do 99.7 3.8E-17 8.3E-22 142.8 10.9 97 113-214 1-99 (100)
4 KOG0644 Uncharacterized conser 99.5 1.6E-14 3.4E-19 164.4 4.1 168 191-398 874-1043(1113)
5 PF09217 EcoRII-N: Restriction 98.0 1.7E-05 3.7E-10 76.8 7.8 89 110-200 7-110 (156)
6 PF03754 DUF313: Domain of unk 97.4 0.00024 5.1E-09 66.2 5.3 78 110-188 21-114 (114)
7 PF00564 PB1: PB1 domain; Int 96.3 0.018 3.8E-07 49.2 7.4 67 595-664 3-70 (84)
8 cd06398 PB1_Joka2 The PB1 doma 95.9 0.04 8.6E-07 49.6 8.4 68 596-666 3-73 (91)
9 cd06407 PB1_NLP A PB1 domain i 95.8 0.035 7.6E-07 48.9 7.2 62 595-661 2-63 (82)
10 cd05992 PB1 The PB1 domain is 95.5 0.079 1.7E-06 44.9 8.1 65 595-665 2-67 (81)
11 cd06403 PB1_Par6 The PB1 domai 95.3 0.071 1.5E-06 47.1 7.2 65 596-664 3-67 (80)
12 cd06396 PB1_NBR1 The PB1 domai 95.1 0.074 1.6E-06 47.2 6.8 67 595-665 2-69 (81)
13 smart00666 PB1 PB1 domain. Pho 95.0 0.12 2.5E-06 44.1 7.8 64 595-664 3-66 (81)
14 cd06409 PB1_MUG70 The MUG70 pr 92.5 0.19 4.1E-06 45.1 4.6 52 603-654 7-61 (86)
15 cd06404 PB1_aPKC PB1 domain is 92.0 0.82 1.8E-05 40.9 7.9 65 595-664 2-66 (83)
16 cd06402 PB1_p62 The PB1 domain 91.7 1.1 2.3E-05 40.4 8.3 69 595-666 2-75 (87)
17 cd06397 PB1_UP1 Uncharacterize 90.8 0.83 1.8E-05 40.7 6.6 70 596-669 3-73 (82)
18 cd06408 PB1_NoxR The PB1 domai 89.9 0.9 1.9E-05 40.9 6.2 57 595-659 4-60 (86)
19 cd06401 PB1_TFG The PB1 domain 84.4 3.5 7.7E-05 36.8 6.6 60 596-659 3-64 (81)
20 cd06399 PB1_P40 The PB1 domain 63.9 18 0.00038 33.0 5.5 50 610-665 23-72 (92)
21 KOG0644 Uncharacterized conser 61.4 5.6 0.00012 48.3 2.5 64 21-84 871-940 (1113)
22 smart00743 Agenet Tudor-like d 59.0 14 0.00031 29.9 3.9 28 328-359 2-29 (61)
23 PF04014 Antitoxin-MazE: Antid 51.1 25 0.00054 27.5 3.9 27 183-209 13-39 (47)
24 cd06406 PB1_P67 A PB1 domain i 50.9 52 0.0011 29.5 6.2 63 596-663 5-68 (80)
25 TIGR01439 lp_hng_hel_AbrB loop 39.3 49 0.0011 24.6 3.8 27 183-209 13-39 (43)
26 cd01789 Alp11_N Ubiquitin-like 35.4 1.3E+02 0.0029 26.3 6.4 38 605-646 15-52 (84)
27 smart00333 TUDOR Tudor domain. 34.9 58 0.0013 25.7 3.8 50 328-395 2-51 (57)
28 PF10844 DUF2577: Protein of u 33.1 62 0.0013 29.5 4.1 27 185-211 71-97 (100)
29 PF00788 RA: Ras association ( 32.3 1.2E+02 0.0026 25.8 5.6 59 594-652 3-65 (93)
30 cd06410 PB1_UP2 Uncharacterize 31.4 81 0.0017 28.9 4.5 56 607-665 25-81 (97)
31 PF02513 Spin-Ssty: Spin/Ssty 30.3 83 0.0018 26.0 3.9 31 331-362 1-31 (50)
32 PRK03760 hypothetical protein; 28.7 1.1E+02 0.0023 29.0 4.9 48 152-202 62-117 (117)
33 PF11515 Cul7: Mouse developme 27.2 75 0.0016 28.4 3.4 57 317-381 6-62 (78)
34 PF05641 Agenet: Agenet domain 26.2 92 0.002 26.2 3.7 41 329-380 1-41 (68)
35 PF14847 Ras_bdg_2: Ras-bindin 25.4 2.2E+02 0.0048 26.6 6.3 60 595-654 1-64 (105)
36 PF01878 EVE: EVE domain; Int 23.4 75 0.0016 30.0 3.0 27 189-215 38-65 (143)
37 KOG3207 Beta-tubulin folding c 22.2 85 0.0018 36.4 3.5 42 329-385 3-44 (505)
38 PF12108 SF3a60_bindingd: Spli 21.5 44 0.00096 24.4 0.8 19 651-669 4-22 (28)
No 1
>PF06507 Auxin_resp: Auxin response factor; InterPro: IPR010525 This pattern represents a conserved region of auxin-responsive transcription factors. The plant hormone auxin (indole-3-acetic acid) can regulate the gene expression of several families, including Aux/IAA, GH3 and SAUR families. Two related families of proteins, Aux/IAA proteins (IPR003311 from INTERPRO) and the auxin response factors (ARF), are key regulators of auxin-modulated gene expression []. There are multiple ARF proteins, some of which activate, while others repress transcription. ARF proteins bind to auxin-responsive cis-acting promoter elements (AuxREs) using an N-terminal DNA-binding domain. It is thought that Aux/IAA proteins activate transcription by modifying ARF activity through the C-terminal protein-protein interaction domains (IPR011525 from INTERPRO) found in both Aux/IAA and ARF proteins. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0009725 response to hormone stimulus, 0005634 nucleus
Probab=100.00 E-value=2.8e-35 Score=255.95 Aligned_cols=83 Identities=58% Similarity=0.944 Sum_probs=80.6
Q ss_pred HHHHHHcCCCEEEEEecCCCCCceEEehHHHHHHHhcccccccEEEEEeecCCCCceeeeeeEEEEeecCCCCCCCCCCc
Q 005799 291 AVALAASGKPFEVVYYPRASTPEFCVKASAVKAAMRVHWLCGMRFKMAFETEDSSRISWFMGTISSVQVADPISWPNSPW 370 (676)
Q Consensus 291 Aa~~a~~g~~F~V~Y~Pr~~~~eFvV~~~~y~~A~~~~w~~GmRFkM~fE~EDss~~~w~~GTI~gv~~~dp~~wp~S~W 370 (676)
||++|++|++|+|+||||++++||||++++|++||+++|++||||||+||+||+++++ |+|||+||++.||++||+|+|
T Consensus 1 A~~aa~~~~~F~V~Y~PRa~~sEFVV~~~k~~~al~~~~~~GmRfkM~fE~eds~~~~-~~GtI~~v~~~dp~~w~~S~W 79 (83)
T PF06507_consen 1 AAHAAATGSPFEVFYYPRASPSEFVVPASKYDKALNHPWSVGMRFKMRFETEDSSERR-WQGTIVGVSDLDPIRWPGSKW 79 (83)
T ss_pred ChhHhhcCCeEEEEECCCCCCcceEEEHHHHHHHhcCCCCCCcEEEEEeccCCCccce-eeeEEeEeeccCCCCCCCCCc
Confidence 6899999999999999999999999999999999999999999999999999999965 599999999999999999999
Q ss_pred cccc
Q 005799 371 RLLQ 374 (676)
Q Consensus 371 R~L~ 374 (676)
||||
T Consensus 80 R~Lq 83 (83)
T PF06507_consen 80 RMLQ 83 (83)
T ss_pred ccCc
Confidence 9997
No 2
>PF02309 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The Aux/IAA family of genes are key regulators of auxin-modified gene expression []. The plant hormone auxin (indole-3-acetic acid, IAA) regulates diverse cellular and developmental responses in plants, including cell division, expansion, differentiation and patterning of embryo responses []. Auxin can regulate the gene expression of several families, including GH3 and SAUR, as well as Aux/IAA itself. The Aux/IAA proteins act as repressors of auxin-induced gene expression, possibly through modulating the activity of DNA-binding auxin response factors (ARFs) (IPR010525 from INTERPRO). Aux/IAA and ARF are thought to interact through C-terminal protein-protein interaction domains found in both Aux/IAA and ARF. Recent evidence suggests that Aux/IAA proteins can also mediate light responses []. Some members of the AUX/IAA family are longer and contain an N-terminal DNA binding domain [] and may have an early function in the establishment of vascular and body patterns in embryonic and post-embryonic development in some plants.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P1N_F 2P1Q_C 2P1O_C.
Probab=99.95 E-value=4.1e-29 Score=250.14 Aligned_cols=76 Identities=33% Similarity=0.444 Sum_probs=0.0
Q ss_pred ccceEEEEecccceeeeccCCCCCCHHHHHHHHHHhh---CCC----------c-cCc----eeeEEEEcCCCCeEecCC
Q 005799 592 DTGHCKVFLESEDVGRTLDLSVLSSYEELYRRLAIMF---GIE----------R-SDM----LSHVLYQDASGAIKRTGD 653 (676)
Q Consensus 592 ~~~~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF---~i~----------~-~~l----~~~v~Y~D~eGd~mlvGD 653 (676)
.+.||||+|||++|||||||++|+||++|+.+|++|| +|. + .++ .|+|||+|+|||||||||
T Consensus 108 ~~~~vKV~mdG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~Y~D~egd~mlvGD 187 (215)
T PF02309_consen 108 SRSYVKVNMDGVPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGSHGLNESGLLDLLNGSEYVLVYEDKEGDWMLVGD 187 (215)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCceeEEEecCcccceecCHHHhhCHHHHHHHHHHhcCCCCccccccccccchhhccccCCcceeEEEECCCCCEEEecC
Confidence 4789999999999999999999999999999999999 665 1 122 369999999999999999
Q ss_pred cchhhHHHhhhhcc
Q 005799 654 EPFRYHLLVFACHL 667 (676)
Q Consensus 654 ~Pw~~F~~~v~~~~ 667 (676)
|||++||++||||.
T Consensus 188 ~PW~~F~~~vkRl~ 201 (215)
T PF02309_consen 188 VPWEEFVKSVKRLR 201 (215)
T ss_dssp --------------
T ss_pred CCHHHHHHHhhccE
Confidence 99999999999985
No 3
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=99.72 E-value=3.8e-17 Score=142.81 Aligned_cols=97 Identities=31% Similarity=0.413 Sum_probs=74.7
Q ss_pred EEEecccccCCCCCceEeccccccccCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEeCCCCcceeccchhHHhhhcCCC
Q 005799 113 FAKTLTQSDANNGGGFSVPRYCAETIFPRLDYTADPPVQTVVAKDVHGEIWKFRHIYRGTPRRHLLTTGWSTFVNQKKLV 192 (676)
Q Consensus 113 F~K~LT~SDv~~~grlsVPk~~Ae~~FP~Ld~~~~~p~q~L~~~D~~G~~W~Fr~iyr~~~rr~lLTtGWs~FV~~K~L~ 192 (676)
|.|+|+++|+...++|.||+++++.+. ++ ....+++.++|..|+.|.+++.+++.+.+++|++||..||++++|+
T Consensus 1 F~K~l~~s~~~~~~~l~iP~~f~~~~~--~~---~~~~~~v~l~~~~g~~W~v~~~~~~~~~~~~l~~GW~~Fv~~n~L~ 75 (100)
T PF02362_consen 1 FFKVLKPSDVSSSCRLIIPKEFAKKHG--GN---KRKSREVTLKDPDGRSWPVKLKYRKNSGRYYLTGGWKKFVRDNGLK 75 (100)
T ss_dssp EEEE--TTCCCCTT-EEE-HHHHTTTS-------SS--CEEEEEETTTEEEEEEEEEECCTTEEEEETTHHHHHHHCT--
T ss_pred CEEEEEccCcCCCCEEEeCHHHHHHhC--CC---cCCCeEEEEEeCCCCEEEEEEEEEccCCeEEECCCHHHHHHHcCCC
Confidence 899999999999999999999999972 11 1125689999999999999999999888899999999999999999
Q ss_pred CCCEEEEEEecC--CcEEEEEEEc
Q 005799 193 AGDSIVFLRAQD--GDLCVGIRRA 214 (676)
Q Consensus 193 aGD~VVF~R~~n--GeL~VGIRR~ 214 (676)
+||.|+|+...+ .++.|.|.|+
T Consensus 76 ~GD~~~F~~~~~~~~~~~v~i~~~ 99 (100)
T PF02362_consen 76 EGDVCVFELIGNSNFTLKVHIFRK 99 (100)
T ss_dssp TT-EEEEEE-SSSCE-EEEEEE--
T ss_pred CCCEEEEEEecCCCceEEEEEEEC
Confidence 999999998764 4569999986
No 4
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=99.48 E-value=1.6e-14 Score=164.43 Aligned_cols=168 Identities=21% Similarity=0.433 Sum_probs=124.7
Q ss_pred CCCCCEEEEEEecCCcEEEEEEEcccCCCCCCCCCCCCCCCCCCCcccCCCCCCccchhhHHHhhhhhcCCcccCCCCCC
Q 005799 191 LVAGDSIVFLRAQDGDLCVGIRRAKKGIGGGNEYPSSGWNSNNGSCVTGNPFGGFSCFLREEENKMARNGNMNLNSYGSF 270 (676)
Q Consensus 191 L~aGD~VVF~R~~nGeL~VGIRR~~~~~~~~~~s~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 270 (676)
.+.||.|+.+|....++.=.+|+...-..+ ..+||... ++..+-.+..++.|.. .|
T Consensus 874 pQmgDEViyfrQghqeyl~~~~~n~~~~~~-----~~p~~~~~---------------v~~~kv~kl~~~~y~~----~~ 929 (1113)
T KOG0644|consen 874 PQMGDEVIYFRQGHQEYLEAVRLNNIELNN-----KEPWNKMA---------------VEICKVEKLVYITYPG----SG 929 (1113)
T ss_pred ccccceeehhhhhhHHHHhhhhhccccccc-----cCcccccc---------------hhhheeeeeeeeeccC----CC
Confidence 458999999999887777677766652221 34565441 1222222222222221 23
Q ss_pred CCCCCCCCCCCCcChhhHHHHHHHHHcCCCEEEEEecCCCCCceEEehHHHHHHHhcccccccEEEEEee--cCCCCcee
Q 005799 271 NSSGNTRGNGGRVKPEMVLEAVALAASGKPFEVVYYPRASTPEFCVKASAVKAAMRVHWLCGMRFKMAFE--TEDSSRIS 348 (676)
Q Consensus 271 ~~~~~m~g~~~~v~~~~V~~Aa~~a~~g~~F~V~Y~Pr~~~~eFvV~~~~y~~A~~~~w~~GmRFkM~fE--~EDss~~~ 348 (676)
.+...| ++ +|++.+. -+-.+.|.+.|....+.+||+|.++.|++|++++|.++++||..+. +|+-- +
T Consensus 930 ~s~c~m-----~l---~~idp~s-~~~~k~F~ltlpdlv~fpDFlV~rsrYd~AiQrnW~~~d~crvwwrda~~e~g--~ 998 (1113)
T KOG0644|consen 930 DSCCKM-----KL---AVIDPAS-KLMDKSFKLTLPDLVTFPDFLVERSRYDAAIQRNWTCRDKCRVWWRDAGEEDG--A 998 (1113)
T ss_pred cchhee-----ee---eeecchh-hhhhccceeecccccCcchhhhhhhhHHHHHhhccccccceeEEEccCCCcCC--c
Confidence 333333 33 3777666 4456789999999999999999999999999999999999999993 33322 5
Q ss_pred eeeeEEEEeecCCCCCCCCCCccccccccCCccccCCCCCcccceeeecc
Q 005799 349 WFMGTISSVQVADPISWPNSPWRLLQVTWDEPDLLQNVKRVSPWLVELVS 398 (676)
Q Consensus 349 w~~GTI~gv~~~dp~~wp~S~WR~L~V~WDe~~~~~~~~RVSPWeIE~v~ 398 (676)
||.|+|.++++.+| .+|+|+|.++.|+||..+ .+.-||||+|++.
T Consensus 999 WWeG~ils~~pksp-~fpdSpwery~v~~~~~e----~~~~spwe~~~i~ 1043 (1113)
T KOG0644|consen 999 WWEGRILSVKPKSP-DFPDSPWERYIVRYDNTE----TELHSPWEMEPIP 1043 (1113)
T ss_pred eeeeeeeeccCCCC-CCCCCcceeEEEEecCCc----ccccCccccCCCc
Confidence 99999999999999 999999999999999998 6888999999886
No 5
>PF09217 EcoRII-N: Restriction endonuclease EcoRII, N-terminal; InterPro: IPR023372 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the N-terminal effector-binding domain of the type II restriction endonuclease EcoRII, which has a DNA recognition fold, allowing for binding to 5'-CCWGG sequences. It assumes a structure composed of an eight-stranded beta-sheet with the strands in the order of b2, b5, b4, b3, b7, b6, b1 and b8. They are mostly antiparallel to each other except that b3 is parallel to b7. Alternatively, it may also be viewed as consisting of two mini beta-sheets of four antiparallel beta-strands, sheet I from beta-strands b2, b5, b4, b3 and sheet II from strands b7, b6, b1, b8, folded into an open mixed beta-barrel with a novel topology. Sheet I has a simple Greek key motif while sheet II does not []. The domain represented by this entry is only found in bacterial proteins.; PDB: 3HQF_A 1NA6_A.
Probab=98.01 E-value=1.7e-05 Score=76.85 Aligned_cols=89 Identities=22% Similarity=0.281 Sum_probs=59.6
Q ss_pred ccEEEEecccccCCCCC----ceEeccccccccCCCCCC-CCCCCceEEEEEeCCC--CeEEEEEEEeCC------CCcc
Q 005799 110 PASFAKTLTQSDANNGG----GFSVPRYCAETIFPRLDY-TADPPVQTVVAKDVHG--EIWKFRHIYRGT------PRRH 176 (676)
Q Consensus 110 ~~~F~K~LT~SDv~~~g----rlsVPk~~Ae~~FP~Ld~-~~~~p~q~L~~~D~~G--~~W~Fr~iyr~~------~rr~ 176 (676)
...|+|.|++.|++.+| |+.||+..++..||.+.. +..+|...|.+++..| ..|+||++|.|+ .+.+
T Consensus 7 ~~~~~K~LSaNDtGaTGgHQaGiyIpk~~~~~lFp~~~~~~~~Np~~~~~~~~~s~~~~~~~~r~iYYnn~~~~gTRNE~ 86 (156)
T PF09217_consen 7 WAIYCKRLSANDTGATGGHQAGIYIPKSAAELLFPSINHTKEENPDIWLKARWQSHFVTDSQVRFIYYNNRLFGGTRNEY 86 (156)
T ss_dssp EEEEEEE--CCCCTTTSSS--EEEE-HHHHHHH-GGG-SSSSSS-EEEEEEEETTTT---EEEEEEEE-CCCTTSS--EE
T ss_pred eEEEEEEccCCCCCCcCcccceeEecccHHHHhCCCCCcccccCCceeEEEEECCCCccceeEEEEEEcccccCCCcCce
Confidence 46899999999998664 799999999999998776 5567899999999887 668999999988 4778
Q ss_pred eec--cchhHHhhhcCCCCCCEEEEE
Q 005799 177 LLT--TGWSTFVNQKKLVAGDSIVFL 200 (676)
Q Consensus 177 lLT--tGWs~FV~~K~L~aGD~VVF~ 200 (676)
.|| ++=..|.+. =..||-+||-
T Consensus 87 RIT~~G~~~~~~~~--~~tGaL~vla 110 (156)
T PF09217_consen 87 RITRFGRGFPLQNP--ENTGALLVLA 110 (156)
T ss_dssp EEE---TTSGGG-G--GGTT-EEEEE
T ss_pred EEeeecCCCccCCc--cccccEEEEE
Confidence 886 332333332 2468877775
No 6
>PF03754 DUF313: Domain of unknown function (DUF313) ; InterPro: IPR005508 This is a family of proteins from Arabidopsis thaliana (Mouse-ear cress) with uncharacterised function.
Probab=97.39 E-value=0.00024 Score=66.24 Aligned_cols=78 Identities=19% Similarity=0.224 Sum_probs=61.0
Q ss_pred ccEEEEecccccCC-CCCceEeccccccccCCCCCC------------CCCCCceEEEEEeCCCCeEEEEEEEeCC---C
Q 005799 110 PASFAKTLTQSDAN-NGGGFSVPRYCAETIFPRLDY------------TADPPVQTVVAKDVHGEIWKFRHIYRGT---P 173 (676)
Q Consensus 110 ~~~F~K~LT~SDv~-~~grlsVPk~~Ae~~FP~Ld~------------~~~~p~q~L~~~D~~G~~W~Fr~iyr~~---~ 173 (676)
-..|.|+|++||+. +..||+||-..... ...|.. ....-+..+.+.|..++.|..++..|.. .
T Consensus 21 kli~~K~L~~tDv~~~qsRLsmP~~qi~~-~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg~~~ 99 (114)
T PF03754_consen 21 KLIIEKTLFKTDVDPHQSRLSMPFNQIID-NDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMGNGT 99 (114)
T ss_pred eEEEeeeecccCCCCCCceeeccHHHhcc-cccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEecccCCc
Confidence 47899999999998 45899999886633 222221 1223478899999999999999999976 4
Q ss_pred CcceeccchhHHhhh
Q 005799 174 RRHLLTTGWSTFVNQ 188 (676)
Q Consensus 174 rr~lLTtGWs~FV~~ 188 (676)
-.|+|++||..+|++
T Consensus 100 ~~YvL~~gWn~VV~~ 114 (114)
T PF03754_consen 100 SNYVLNSGWNKVVED 114 (114)
T ss_pred eEEEEEcChHhhccC
Confidence 789999999999863
No 7
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=96.27 E-value=0.018 Score=49.18 Aligned_cols=67 Identities=16% Similarity=0.275 Sum_probs=51.7
Q ss_pred eEEEEecccceeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCCc-chhhHHHhhh
Q 005799 595 HCKVFLESEDVGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGDE-PFRYHLLVFA 664 (676)
Q Consensus 595 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD~-Pw~~F~~~v~ 664 (676)
.+|+...|. +=|.+.+..--+|++|..++++.|++.+ -...+.|.|.|||+..+-++ =|.+.+..++
T Consensus 3 ~vK~~~~~~-~~~~~~~~~~~s~~~L~~~i~~~~~~~~--~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~ 70 (84)
T PF00564_consen 3 RVKVRYGGD-IRRIISLPSDVSFDDLRSKIREKFGLLD--EDFQLKYKDEDGDLVTISSDEDLQEAIEQAK 70 (84)
T ss_dssp EEEEEETTE-EEEEEEECSTSHHHHHHHHHHHHHTTST--SSEEEEEEETTSSEEEESSHHHHHHHHHHHH
T ss_pred EEEEEECCe-eEEEEEcCCCCCHHHHHHHHHHHhCCCC--ccEEEEeeCCCCCEEEeCCHHHHHHHHHHHH
Confidence 579999885 4446888877899999999999999962 23689999999999998866 2444444444
No 8
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=95.95 E-value=0.04 Score=49.59 Aligned_cols=68 Identities=15% Similarity=0.132 Sum_probs=52.8
Q ss_pred EEEEecccceeeeccCC---CCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCCcchhhHHHhhhhc
Q 005799 596 CKVFLESEDVGRTLDLS---VLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGDEPFRYHLLVFACH 666 (676)
Q Consensus 596 ~KV~meG~~vGR~vDLs---~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD~Pw~~F~~~v~~~ 666 (676)
+||.-+|+-.==++++. .--+|++|..++++.|.+.. .....+.|.|.+|||..+-++ .++...+.+.
T Consensus 3 vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~-~~~~~l~Y~Dedgd~V~l~~D--~DL~~a~~~~ 73 (91)
T cd06398 3 VKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSP-DADLSLTYTDEDGDVVTLVDD--NDLTDAIQYF 73 (91)
T ss_pred EEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCC-CCcEEEEEECCCCCEEEEccH--HHHHHHHHHH
Confidence 68888886333344443 35699999999999999965 456789999999999999988 8887766654
No 9
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=95.78 E-value=0.035 Score=48.94 Aligned_cols=62 Identities=15% Similarity=0.044 Sum_probs=46.9
Q ss_pred eEEEEecccceeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCCcchhhHHH
Q 005799 595 HCKVFLESEDVGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGDEPFRYHLL 661 (676)
Q Consensus 595 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD~Pw~~F~~ 661 (676)
.+||...|. -+.+-|..--+|++|..+++++|++.. .-...|-|.|+||||..+--+ .++-.
T Consensus 2 ~vK~~~~~d--~~r~~l~~~~~~~~L~~~i~~r~~~~~-~~~f~LkY~Ddegd~v~ltsd--~DL~e 63 (82)
T cd06407 2 RVKATYGEE--KIRFRLPPSWGFTELKQEIAKRFKLDD-MSAFDLKYLDDDEEWVLLTCD--ADLEE 63 (82)
T ss_pred EEEEEeCCe--EEEEEcCCCCCHHHHHHHHHHHhCCCC-CCeeEEEEECCCCCeEEeecH--HHHHH
Confidence 378999885 334445555599999999999999963 234689999999999988665 55533
No 10
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=95.50 E-value=0.079 Score=44.85 Aligned_cols=65 Identities=20% Similarity=0.247 Sum_probs=48.3
Q ss_pred eEEEEecccceeeeccCC-CCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCCcchhhHHHhhhh
Q 005799 595 HCKVFLESEDVGRTLDLS-VLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGDEPFRYHLLVFAC 665 (676)
Q Consensus 595 ~~KV~meG~~vGR~vDLs-~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD~Pw~~F~~~v~~ 665 (676)
.+||.-.|.. |.+=+. .--+|++|..+|.+.|++.. ....+.|.|.|||+..+.++ +++..+++.
T Consensus 2 ~vK~~~~~~~--~~~~~~~~~~s~~~L~~~i~~~~~~~~--~~~~l~y~D~e~d~v~l~sd--~Dl~~a~~~ 67 (81)
T cd05992 2 RVKVKYGGEI--RRFVVVSRSISFEDLRSKIAEKFGLDA--VSFKLKYPDEDGDLVTISSD--EDLEEAIEE 67 (81)
T ss_pred cEEEEecCCC--EEEEEecCCCCHHHHHHHHHHHhCCCC--CcEEEEeeCCCCCEEEeCCH--HHHHHHHHH
Confidence 3677777642 222233 77899999999999999864 33589999999999999986 566554444
No 11
>cd06403 PB1_Par6 The PB1 domain is an essential part of Par6 protein which in complex with Par3 and aPKC proteins is crucial for establishment of apical-basal polarity of animal cells. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The
Probab=95.28 E-value=0.071 Score=47.09 Aligned_cols=65 Identities=18% Similarity=0.258 Sum_probs=52.0
Q ss_pred EEEEecccceeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCCcchhhHHHhhh
Q 005799 596 CKVFLESEDVGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGDEPFRYHLLVFA 664 (676)
Q Consensus 596 ~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD~Pw~~F~~~v~ 664 (676)
||...+++--==.+|.+...+|++++..|+.|+.|.+ +...|-|.|.+||.+-+-.+ .+|++.+.
T Consensus 3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l~~--~~f~i~Y~D~~gDLLPInND--dNf~kAls 67 (80)
T cd06403 3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHIPN--VDFLIGYTDPHGDLLPINND--DNFLKALS 67 (80)
T ss_pred eecccCCeEEEEEeccccCcCHHHHHHHHHHHhCCCC--CcEEEEEeCCCCCEecccCc--HHHHHHHH
Confidence 5566665533336777888999999999999999976 55689999999999999888 88876653
No 12
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=95.10 E-value=0.074 Score=47.18 Aligned_cols=67 Identities=13% Similarity=0.131 Sum_probs=51.2
Q ss_pred eEEEEecccceeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecC-CcchhhHHHhhhh
Q 005799 595 HCKVFLESEDVGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTG-DEPFRYHLLVFAC 665 (676)
Q Consensus 595 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvG-D~Pw~~F~~~v~~ 665 (676)
.+||.-.|..+==+++.+..-+|++|..+++++|++. ...|-|.|+||||.++- |.=.++.++...+
T Consensus 2 ~vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~----~f~lKYlDde~e~v~lssd~eLeE~~rl~~~ 69 (81)
T cd06396 2 NLKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN----DIQIKYVDEENEEVSVNSQGEYEEALKSAVR 69 (81)
T ss_pred EEEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC----cceeEEEcCCCCEEEEEchhhHHHHHHHHHh
Confidence 3688888876655677777889999999999999998 47899999999998764 3333444444433
No 13
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=95.05 E-value=0.12 Score=44.10 Aligned_cols=64 Identities=20% Similarity=0.255 Sum_probs=48.5
Q ss_pred eEEEEecccceeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCCcchhhHHHhhh
Q 005799 595 HCKVFLESEDVGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGDEPFRYHLLVFA 664 (676)
Q Consensus 595 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD~Pw~~F~~~v~ 664 (676)
.+||.-.| -=|.+-+..--+|++|+.++.+.|++.. -...|-|+|.|||+..+.++ +++..++.
T Consensus 3 ~vK~~~~~--~~~~~~~~~~~s~~dL~~~i~~~~~~~~--~~~~l~Y~Dedgd~v~l~sd--~Dl~~a~~ 66 (81)
T smart00666 3 DVKLRYGG--ETRRLSVPRDISFEDLRSKVAKRFGLDN--QSFTLKYQDEDGDLVSLTSD--EDLEEAIE 66 (81)
T ss_pred cEEEEECC--EEEEEEECCCCCHHHHHHHHHHHhCCCC--CCeEEEEECCCCCEEEecCH--HHHHHHHH
Confidence 36777744 3577778888899999999999999864 22589999999999887765 45543333
No 14
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=92.53 E-value=0.19 Score=45.07 Aligned_cols=52 Identities=23% Similarity=0.280 Sum_probs=40.4
Q ss_pred cceeeeccCCC--CCCHHHHHHHHHHhhCCCcc-CceeeEEEEcCCCCeEecCCc
Q 005799 603 EDVGRTLDLSV--LSSYEELYRRLAIMFGIERS-DMLSHVLYQDASGAIKRTGDE 654 (676)
Q Consensus 603 ~~vGR~vDLs~--~~sY~eL~~~L~~MF~i~~~-~l~~~v~Y~D~eGd~mlvGD~ 654 (676)
.+-||.+=++. ..|+++|..++++=|+++.. .-...|.|.|+||||.++--+
T Consensus 7 ~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~D 61 (86)
T cd06409 7 DPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITSD 61 (86)
T ss_pred CCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEecc
Confidence 34566655543 68999999999999999862 134689999999999987655
No 15
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=92.03 E-value=0.82 Score=40.88 Aligned_cols=65 Identities=17% Similarity=0.100 Sum_probs=50.0
Q ss_pred eEEEEecccceeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCCcchhhHHHhhh
Q 005799 595 HCKVFLESEDVGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGDEPFRYHLLVFA 664 (676)
Q Consensus 595 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD~Pw~~F~~~v~ 664 (676)
.+|+.-.|.-+==.+|. .-+|++|.+++.+||.+.. +-..++-|.|.|||..-+... .+....+|
T Consensus 2 ~~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~~~-~q~ft~kw~DEEGDp~tiSS~--~EL~EA~r 66 (83)
T cd06404 2 RVKAAYNGDIMITSIDP--SISLEELCNEVRDMCRFHN-DQPFTLKWIDEEGDPCTISSQ--MELEEAFR 66 (83)
T ss_pred eEEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCCCC-CCcEEEEEECCCCCceeecCH--HHHHHHHH
Confidence 36888888644445565 5689999999999999865 455799999999999888876 55544444
No 16
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=91.65 E-value=1.1 Score=40.41 Aligned_cols=69 Identities=20% Similarity=0.354 Sum_probs=48.2
Q ss_pred eEEEEecc----cceee-eccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCCcchhhHHHhhhhc
Q 005799 595 HCKVFLES----EDVGR-TLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGDEPFRYHLLVFACH 666 (676)
Q Consensus 595 ~~KV~meG----~~vGR-~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD~Pw~~F~~~v~~~ 666 (676)
.||.+..| ..|=| +||=....+|++|+..+.++|..-. +-..+|-|.|.|||..-+... +++...+-+.
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~l~-~~~ftlky~DeeGDlvtIssd--eEL~~A~~~~ 75 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPSLR-GKNFQLFWKDEEGDLVAFSSD--EELVMALGSL 75 (87)
T ss_pred eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHccccC-CCcEEEEEECCCCCEEeecCH--HHHHHHHHcC
Confidence 35556555 33333 3455667799999999999995432 234689999999999998887 6766554443
No 17
>cd06397 PB1_UP1 Uncharacterized protein 1. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=90.82 E-value=0.83 Score=40.68 Aligned_cols=70 Identities=13% Similarity=0.133 Sum_probs=50.6
Q ss_pred EEEEecccceeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCC-cchhhHHHhhhhcccc
Q 005799 596 CKVFLESEDVGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGD-EPFRYHLLVFACHLHE 669 (676)
Q Consensus 596 ~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD-~Pw~~F~~~v~~~~~~ 669 (676)
-||.-+| --|.+-...-=+|.+|..+|+.+|.|.... ..|+|.|.+||..-+-| +=.++|.+...+-+.+
T Consensus 3 fKv~~~g--~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~--~~vtYiDeD~D~ITlssd~eL~d~~~~~~~~~~~ 73 (82)
T cd06397 3 FKSSFLG--DTRRIVFPDIPTWEALASKLENLYNLPEIK--VGVTYIDNDNDEITLSSNKELQDFYRLSHRESTE 73 (82)
T ss_pred EEEEeCC--ceEEEecCCCccHHHHHHHHHHHhCCChhH--eEEEEEcCCCCEEEecchHHHHHHHHhcccccCc
Confidence 3777766 357777777889999999999999997522 68999999999876554 4455555544443333
No 18
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=89.92 E-value=0.9 Score=40.86 Aligned_cols=57 Identities=18% Similarity=0.326 Sum_probs=46.8
Q ss_pred eEEEEecccceeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCCcchhhH
Q 005799 595 HCKVFLESEDVGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGDEPFRYH 659 (676)
Q Consensus 595 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD~Pw~~F 659 (676)
.+||+-+|. -|.+-+..-=+|++|++++.++|++.. ..+|-|.|. ||+.-+++. .++
T Consensus 4 kVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~~~~---~~~iKykDE-GD~iti~sq--~DL 60 (86)
T cd06408 4 RVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFGFKR---RLKIKMKDD-GDMITMGDQ--DDL 60 (86)
T ss_pred EEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhCCCC---ceEEEEEcC-CCCccccCH--HHH
Confidence 578998886 466666666679999999999999963 358999999 999999987 555
No 19
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=84.42 E-value=3.5 Score=36.80 Aligned_cols=60 Identities=22% Similarity=0.228 Sum_probs=42.2
Q ss_pred EEEEecccceeeeccCCCC-CCHHHHHHHHHHhhCCC-ccCceeeEEEEcCCCCeEecCCcchhhH
Q 005799 596 CKVFLESEDVGRTLDLSVL-SSYEELYRRLAIMFGIE-RSDMLSHVLYQDASGAIKRTGDEPFRYH 659 (676)
Q Consensus 596 ~KV~meG~~vGR~vDLs~~-~sY~eL~~~L~~MF~i~-~~~l~~~v~Y~D~eGd~mlvGD~Pw~~F 659 (676)
+|+..+| +|=| +=+..- -+|.+|...+.+.|... ++.-...|-|+|.|||+.-+-+. .++
T Consensus 3 iK~~~g~-DiR~-~~~~~~~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~--~dL 64 (81)
T cd06401 3 LKAQLGD-DIRR-IPIHNEDITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDS--SDL 64 (81)
T ss_pred EEEEeCC-eEEE-EeccCccccHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccH--HHH
Confidence 4665544 5655 333332 39999999999999954 21234579999999999999886 554
No 20
>cd06399 PB1_P40 The PB1 domain is essential part of the p40 adaptor protein which plays an important role in activating phagocyte NADPH oxidase during phagocytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes , such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domain of p40 represents a type I PB1 domain which interacts with the PB1 domain of oxidase activator p67 w
Probab=63.88 E-value=18 Score=33.05 Aligned_cols=50 Identities=24% Similarity=0.220 Sum_probs=38.9
Q ss_pred cCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCCCeEecCCcchhhHHHhhhh
Q 005799 610 DLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASGAIKRTGDEPFRYHLLVFAC 665 (676)
Q Consensus 610 DLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eGd~mlvGD~Pw~~F~~~v~~ 665 (676)
||+..-+|.+|.....+-|..+. -.+=|+|.|||..-+=|+ ++--=||+.
T Consensus 23 ~l~~~P~~kdLl~lmr~~f~~~d----IaLNYrD~EGDLIRlldd--eDv~LMV~~ 72 (92)
T cd06399 23 DLSSTPLLKDLLELTRREFQRED----IALNYRDAEGDLIRLLSD--EDVALMVRQ 72 (92)
T ss_pred ccccCccHHHHHHHHHHHhchhh----eeeeeecCCCCEEEEcch--hhHHHHHHH
Confidence 78999999999999999999876 356699999998776555 444444443
No 21
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=61.39 E-value=5.6 Score=48.28 Aligned_cols=64 Identities=25% Similarity=0.412 Sum_probs=47.9
Q ss_pred ccCCCCCCeEEEecccccccccCCC----CCCC--CCCCCCcceeEEeeeeeeccCCccceEEEEEEeeC
Q 005799 21 VQIPPLNSTVFYFPQGHAEHSLGSV----NFPS--SSRIPPLIFCRVSSLKFLADSETDEVYAKIKLVPI 84 (676)
Q Consensus 21 v~~P~~gs~V~YFPqGH~Eq~~~~~----~~~~--~~~~p~~i~CrV~~V~l~Ad~~TDEVyAki~L~P~ 84 (676)
-.||..|..|.||-|||-|-+.+.- ++.. .-++-..-.|.|..+.+---|....-..|++|.=+
T Consensus 871 ryipQmgDEViyfrQghqeyl~~~~~n~~~~~~~~p~~~~~v~~~kv~kl~~~~y~~~~~s~c~m~l~~i 940 (1113)
T KOG0644|consen 871 RYIPQMGDEVIYFRQGHQEYLEAVRLNNIELNNKEPWNKMAVEICKVEKLVYITYPGSGDSCCKMKLAVI 940 (1113)
T ss_pred cccccccceeehhhhhhHHHHhhhhhccccccccCcccccchhhheeeeeeeeeccCCCcchheeeeeee
Confidence 3689999999999999999998832 2211 11445567899999988777777777888877643
No 22
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=59.03 E-value=14 Score=29.89 Aligned_cols=28 Identities=25% Similarity=0.433 Sum_probs=23.8
Q ss_pred ccccccEEEEEeecCCCCceeeeeeEEEEeec
Q 005799 328 HWLCGMRFKMAFETEDSSRISWFMGTISSVQV 359 (676)
Q Consensus 328 ~w~~GmRFkM~fE~EDss~~~w~~GTI~gv~~ 359 (676)
.|.+|+++-..++.++ .||.|+|+.+..
T Consensus 2 ~~~~G~~Ve~~~~~~~----~W~~a~V~~~~~ 29 (61)
T smart00743 2 DFKKGDRVEVFSKEED----SWWEAVVTKVLG 29 (61)
T ss_pred CcCCCCEEEEEECCCC----EEEEEEEEEECC
Confidence 5889999999996544 899999999964
No 23
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=51.07 E-value=25 Score=27.50 Aligned_cols=27 Identities=19% Similarity=0.327 Sum_probs=22.8
Q ss_pred hHHhhhcCCCCCCEEEEEEecCCcEEE
Q 005799 183 STFVNQKKLVAGDSIVFLRAQDGDLCV 209 (676)
Q Consensus 183 s~FV~~K~L~aGD~VVF~R~~nGeL~V 209 (676)
..|.++.+|.+||.|.|.-.++|++.+
T Consensus 13 k~~~~~l~l~~Gd~v~i~~~~~g~i~i 39 (47)
T PF04014_consen 13 KEIREKLGLKPGDEVEIEVEGDGKIVI 39 (47)
T ss_dssp HHHHHHTTSSTTTEEEEEEETTSEEEE
T ss_pred HHHHHHcCCCCCCEEEEEEeCCCEEEE
Confidence 367888899999999999998886654
No 24
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=50.88 E-value=52 Score=29.50 Aligned_cols=63 Identities=14% Similarity=0.175 Sum_probs=44.5
Q ss_pred EEEEecccceeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCC-CCeEecCCcchhhHHHhh
Q 005799 596 CKVFLESEDVGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDAS-GAIKRTGDEPFRYHLLVF 663 (676)
Q Consensus 596 ~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~e-Gd~mlvGD~Pw~~F~~~v 663 (676)
+||+-++ .| +|-...=-+|.+|+++|.+=+.+.+++ .+|-|+|.+ |+...++|.=++.=.+.|
T Consensus 5 vKV~f~~-tI--aIrvp~~~~y~~L~~ki~~kLkl~~e~--i~LsYkde~s~~~v~l~d~dle~aws~~ 68 (80)
T cd06406 5 VKVHFKY-TV--AIQVARGLSYATLLQKISSKLELPAEH--ITLSYKSEASGEDVILSDTNMEDVWSQA 68 (80)
T ss_pred EEEEEEE-EE--EEEcCCCCCHHHHHHHHHHHhCCCchh--cEEEeccCCCCCccCcChHHHHHHHHhh
Confidence 4999998 33 344455568999999999999997534 378899865 354455887666555444
No 25
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=39.29 E-value=49 Score=24.64 Aligned_cols=27 Identities=22% Similarity=0.487 Sum_probs=22.6
Q ss_pred hHHhhhcCCCCCCEEEEEEecCCcEEE
Q 005799 183 STFVNQKKLVAGDSIVFLRAQDGDLCV 209 (676)
Q Consensus 183 s~FV~~K~L~aGD~VVF~R~~nGeL~V 209 (676)
..|.++-++..||.|.+....+|.+.+
T Consensus 13 ~~~r~~l~~~~gd~~~i~~~~~~~l~l 39 (43)
T TIGR01439 13 KEIREKLGLKEGDRLEVIRVEDGEIIL 39 (43)
T ss_pred HHHHHHcCcCCCCEEEEEEeCCCEEEE
Confidence 478999999999999999887776554
No 26
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=35.37 E-value=1.3e+02 Score=26.28 Aligned_cols=38 Identities=18% Similarity=0.267 Sum_probs=26.4
Q ss_pred eeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcCCC
Q 005799 605 VGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDASG 646 (676)
Q Consensus 605 vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~eG 646 (676)
.-|+++ ..-+..+|..+|+.+||+.-+.+ +|.|.|.+|
T Consensus 15 ~ekr~~--~~~Tv~~lK~kl~~~~G~~~~~m--rL~l~~~~~ 52 (84)
T cd01789 15 FEKKYS--RGLTIAELKKKLELVVGTPASSM--RLQLFDGDD 52 (84)
T ss_pred eeEecC--CCCcHHHHHHHHHHHHCCCccce--EEEEEcCCC
Confidence 345555 45689999999999999976444 554445444
No 27
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=34.95 E-value=58 Score=25.65 Aligned_cols=50 Identities=16% Similarity=0.288 Sum_probs=34.0
Q ss_pred ccccccEEEEEeecCCCCceeeeeeEEEEeecCCCCCCCCCCccccccccCCccccCCCCCcccceee
Q 005799 328 HWLCGMRFKMAFETEDSSRISWFMGTISSVQVADPISWPNSPWRLLQVTWDEPDLLQNVKRVSPWLVE 395 (676)
Q Consensus 328 ~w~~GmRFkM~fE~EDss~~~w~~GTI~gv~~~dp~~wp~S~WR~L~V~WDe~~~~~~~~RVSPWeIE 395 (676)
.|.+|..+...+ .+. .||.|+|+++.. + ....|.-+.-.. .+.|...+|-
T Consensus 2 ~~~~G~~~~a~~-~d~----~wyra~I~~~~~-------~---~~~~V~f~D~G~---~~~v~~~~l~ 51 (57)
T smart00333 2 TFKVGDKVAARW-EDG----EWYRARIIKVDG-------E---QLYEVFFIDYGN---EEVVPPSDLR 51 (57)
T ss_pred CCCCCCEEEEEe-CCC----CEEEEEEEEECC-------C---CEEEEEEECCCc---cEEEeHHHee
Confidence 588999999999 444 799999999973 2 446677766432 3444444443
No 28
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=33.14 E-value=62 Score=29.48 Aligned_cols=27 Identities=26% Similarity=0.459 Sum_probs=21.9
Q ss_pred HhhhcCCCCCCEEEEEEecCCcEEEEE
Q 005799 185 FVNQKKLVAGDSIVFLRAQDGDLCVGI 211 (676)
Q Consensus 185 FV~~K~L~aGD~VVF~R~~nGeL~VGI 211 (676)
|.-...|++||.|..+|.++|..++=+
T Consensus 71 i~~~~~Lk~GD~V~ll~~~~gQ~yiVl 97 (100)
T PF10844_consen 71 ITFTDGLKVGDKVLLLRVQGGQKYIVL 97 (100)
T ss_pred EEEecCCcCCCEEEEEEecCCCEEEEE
Confidence 556678999999999999888766544
No 29
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=32.28 E-value=1.2e+02 Score=25.80 Aligned_cols=59 Identities=14% Similarity=0.184 Sum_probs=43.1
Q ss_pred ceEEEEecccce---eeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEE-EEcCCCCeEecC
Q 005799 594 GHCKVFLESEDV---GRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVL-YQDASGAIKRTG 652 (676)
Q Consensus 594 ~~~KV~meG~~v---GR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~-Y~D~eGd~mlvG 652 (676)
+.+||+++...- -++|=++...+-.|++..+.+.|++....-.+.|+ +.-..|.-..+.
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~ 65 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLD 65 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEET
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcC
Confidence 577999987643 68899999999999999999999994433356774 444444444443
No 30
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=31.39 E-value=81 Score=28.94 Aligned_cols=56 Identities=16% Similarity=0.215 Sum_probs=36.6
Q ss_pred eeccCCCCCCHHHHHHHHHHhhCCCcc-CceeeEEEEcCCCCeEecCCcchhhHHHhhhh
Q 005799 607 RTLDLSVLSSYEELYRRLAIMFGIERS-DMLSHVLYQDASGAIKRTGDEPFRYHLLVFAC 665 (676)
Q Consensus 607 R~vDLs~~~sY~eL~~~L~~MF~i~~~-~l~~~v~Y~D~eGd~mlvGD~Pw~~F~~~v~~ 665 (676)
|.|.+..--||.||..+|.++|++... .+.+++-.+|.+ ...-|-++ ++..+|+..
T Consensus 25 r~i~V~r~~s~~el~~kl~~~~~~~~~~~lky~Lp~edld-~Lisv~~D--eDl~~M~~e 81 (97)
T cd06410 25 RIVSVDRSISFKELVSKLSELFGAGVVVTLKYQLPDEDLD-ALISVSND--EDLKNMMEE 81 (97)
T ss_pred EEEEEcCCCCHHHHHHHHHHHhCCCCceEEEEEcCCCCcc-eeEEecCc--HHHHHHHHh
Confidence 444444445999999999999999763 344555555554 25556665 566666654
No 31
>PF02513 Spin-Ssty: Spin/Ssty Family; InterPro: IPR003671 Spindlin (Spin) and Ssty were first identified for their involvement in gametogenesis. Spindlin was identified as a maternal transcript present in the unfertilised egg and early embryo, and was subsequently shown to interact with the spindle apparatus during oogenesis, and may therefore be important for mitosis []. In addition, spindlin appears to be a target for cell cycle-dependent phosphorylation, and as such may play a role in cell cycle regulation during the transition from gamete to embryo []. Ssty is a multi-copy, Y-linked spermatogenesis-specific transcript that appears to be required for normal spermatogenesis []. Ssty may play an analogous role to spindlin in sperm cells, namely during the transition from sperm cells to early embryo, and in mitosis.; GO: 0007276 gamete generation; PDB: 2NS2_A.
Probab=30.33 E-value=83 Score=25.96 Aligned_cols=31 Identities=23% Similarity=0.411 Sum_probs=22.9
Q ss_pred cccEEEEEeecCCCCceeeeeeEEEEeecCCC
Q 005799 331 CGMRFKMAFETEDSSRISWFMGTISSVQVADP 362 (676)
Q Consensus 331 ~GmRFkM~fE~EDss~~~w~~GTI~gv~~~dp 362 (676)
+|-|+.-.||.++.+... |.|+|...-++.|
T Consensus 1 vGk~Veh~~~~g~g~~s~-w~G~Vl~Qvp~~p 31 (50)
T PF02513_consen 1 VGKRVEHTWEDGDGPKSK-WKGMVLHQVPAKP 31 (50)
T ss_dssp TT-EEEEEECTSTS-EEE-EEEEEEEE-TTST
T ss_pred CCceEEEEEccCCCcccE-EEEEEEEEeecCC
Confidence 588999999988888755 5999999877655
No 32
>PRK03760 hypothetical protein; Provisional
Probab=28.74 E-value=1.1e+02 Score=28.99 Aligned_cols=48 Identities=25% Similarity=0.463 Sum_probs=30.4
Q ss_pred EEEEEeCCCCeEEEEE-----EEe-CCCCccee--ccchhHHhhhcCCCCCCEEEEEEe
Q 005799 152 TVVAKDVHGEIWKFRH-----IYR-GTPRRHLL--TTGWSTFVNQKKLVAGDSIVFLRA 202 (676)
Q Consensus 152 ~L~~~D~~G~~W~Fr~-----iyr-~~~rr~lL--TtGWs~FV~~K~L~aGD~VVF~R~ 202 (676)
++.+.|.+|++-.... +|. ..+-+|+| ..|| +.+.++++||.|.|.++
T Consensus 62 DiiFld~~g~Vv~i~~~~P~~~~~~~~~a~~VLEl~aG~---~~~~gi~~Gd~v~~~~~ 117 (117)
T PRK03760 62 DVIFLDSNRRVVDFKTLKPWRIYVPKKPARYIIEGPVGK---IRVLKVEVGDEIEWIDE 117 (117)
T ss_pred EEEEECCCCeEEEEEeCCCccccCCCccceEEEEeCCCh---HHHcCCCCCCEEEEeeC
Confidence 4555555555443211 122 23456776 6777 78999999999998763
No 33
>PF11515 Cul7: Mouse development and cellular proliferation protein Cullin-7; InterPro: IPR021097 The CPH domain is found in the Cullin-7, PARC and HERC2 proteins, which are all components of known or predicted E3-ubiquitin ligases. The CPH domain is a protein-protein interaction module that binds the teramerisation domain of the tumour suppressor protein p53 []. Structurally it forms a beta-barrel fold similar to the SH3, Tudor and KOW and domains. Unlike the SH3 and Tudor domains, which bind to small peptides, the CPH domain appears to bind to an extended surface on p53.; PDB: 2JUF_A 2JNG_A.
Probab=27.19 E-value=75 Score=28.43 Aligned_cols=57 Identities=18% Similarity=0.182 Sum_probs=30.2
Q ss_pred ehHHHHHHHhcccccccEEEEEeecCCCCceeeeeeEEEEeecCCCCCCCCCCccccccccCCcc
Q 005799 317 KASAVKAAMRVHWLCGMRFKMAFETEDSSRISWFMGTISSVQVADPISWPNSPWRLLQVTWDEPD 381 (676)
Q Consensus 317 ~~~~y~~A~~~~w~~GmRFkM~fE~EDss~~~w~~GTI~gv~~~dp~~wp~S~WR~L~V~WDe~~ 381 (676)
+.+.|-+=++-+.++||++||.=.-|+-+.- =.|+|.-++. | .-|+ -.+||.|..-.
T Consensus 6 s~d~Ya~YVr~~i~~GM~VRc~~~yeeV~~G--D~G~V~k~~~-d--g~~~---lnvqv~W~~~G 62 (78)
T PF11515_consen 6 SNDDYAEYVRDNIQPGMRVRCCRDYEEVRAG--DEGEVFKQDR-D--GLHD---LNVQVDWQSKG 62 (78)
T ss_dssp SSHHHHHHHHHH--TT-EEEESS-BTTB-TT---EEE-EEEE--T--TSSE-----EEEEETTTT
T ss_pred chhHHHHHHHHhCCCCcEEEEeccccccccc--ccceeEeecc-C--CCCC---cceEEEeeecC
Confidence 4567777788899999999998655553321 2466555543 1 2222 24788887654
No 34
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=26.22 E-value=92 Score=26.22 Aligned_cols=41 Identities=22% Similarity=0.336 Sum_probs=26.2
Q ss_pred cccccEEEEEeecCCCCceeeeeeEEEEeecCCCCCCCCCCccccccccCCc
Q 005799 329 WLCGMRFKMAFETEDSSRISWFMGTISSVQVADPISWPNSPWRLLQVTWDEP 380 (676)
Q Consensus 329 w~~GmRFkM~fE~EDss~~~w~~GTI~gv~~~dp~~wp~S~WR~L~V~WDe~ 380 (676)
|..|+++-..-+ |+..+-+||.|||+..... + .+.|+.+.-
T Consensus 1 F~~G~~VEV~s~-e~g~~gaWf~a~V~~~~~~-------~---~~~V~Y~~~ 41 (68)
T PF05641_consen 1 FKKGDEVEVSSD-EDGFRGAWFPATVLKENGD-------D---KYLVEYDDL 41 (68)
T ss_dssp --TT-EEEEEE--SBTT--EEEEEEEEEEETT-----------EEEEEETT-
T ss_pred CCCCCEEEEEEc-CCCCCcEEEEEEEEEeCCC-------c---EEEEEECCc
Confidence 467999998775 4555779999999998742 2 777888654
No 35
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=25.38 E-value=2.2e+02 Score=26.59 Aligned_cols=60 Identities=18% Similarity=0.223 Sum_probs=37.1
Q ss_pred eEEEEecccceeeeccCCCCCCHHHHHHHHHHhhCCCccCceeeEEEEcC----CCCeEecCCc
Q 005799 595 HCKVFLESEDVGRTLDLSVLSSYEELYRRLAIMFGIERSDMLSHVLYQDA----SGAIKRTGDE 654 (676)
Q Consensus 595 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~~l~~~v~Y~D~----eGd~mlvGD~ 654 (676)
||+.+..-...-|+||.+-..+.+++..+.-+=||+.+..-.+.+...|. +....++.|+
T Consensus 1 hvi~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~~~~~~~~~v~d~~~~~~~~~~~LsD~ 64 (105)
T PF14847_consen 1 HVIRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPEHPRNYCFYVLDGESPDPSNCRPLSDV 64 (105)
T ss_dssp -EEEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS--CCCEEEEEE-S-----SSEEEE-SS
T ss_pred CEEEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCccccccceEEEecccccccccceECcHH
Confidence 34444444458899999999999999999999999987333454444444 6778888887
No 36
>PF01878 EVE: EVE domain; InterPro: IPR002740 The EVE domain is part of the wider PUA domain superfamily. The function of this domain is not known but, given the structural similarities to PUA, is likely to involve RNA binding []. ; PDB: 2G2X_B 2AR1_A 3EOP_A 2EVE_A 2HD9_A 2ZBN_A 1WMM_A 2P5D_A 2GBS_A 1ZCE_A.
Probab=23.37 E-value=75 Score=30.04 Aligned_cols=27 Identities=22% Similarity=0.399 Sum_probs=17.7
Q ss_pred cCCCCCCEEEEEEec-CCcEEEEEEEcc
Q 005799 189 KKLVAGDSIVFLRAQ-DGDLCVGIRRAK 215 (676)
Q Consensus 189 K~L~aGD~VVF~R~~-nGeL~VGIRR~~ 215 (676)
++++.||.|+||... .+.-+|||=+-.
T Consensus 38 ~~mk~GD~vifY~s~~~~~~ivai~~V~ 65 (143)
T PF01878_consen 38 KRMKPGDKVIFYHSGCKERGIVAIGEVV 65 (143)
T ss_dssp HC--TT-EEEEEETSSSS-EEEEEEEEE
T ss_pred hcCCCCCEEEEEEcCCCCCEEEEEEEEe
Confidence 499999999999987 567777765543
No 37
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=22.16 E-value=85 Score=36.36 Aligned_cols=42 Identities=24% Similarity=0.483 Sum_probs=27.8
Q ss_pred cccccEEEEEeecCCCCceeeeeeEEEEeecCCCCCCCCCCccccccccCCccccCC
Q 005799 329 WLCGMRFKMAFETEDSSRISWFMGTISSVQVADPISWPNSPWRLLQVTWDEPDLLQN 385 (676)
Q Consensus 329 w~~GmRFkM~fE~EDss~~~w~~GTI~gv~~~dp~~wp~S~WR~L~V~WDe~~~~~~ 385 (676)
..+|.|+|..+|- .. -+|.|+|.| |++ +| |.|.||.+.-..+
T Consensus 3 ~~IG~RvkI~~~~---~T-vr~iG~V~g--------~~~-~w--~GvEWDd~~RGKH 44 (505)
T KOG3207|consen 3 MEIGTRVKIGGEI---AT-VRYIGEVEG--------NNS-KW--YGVEWDDPVRGKH 44 (505)
T ss_pred eeccceEEEcCEE---EE-EEEEEEEcC--------CCC-cc--eeeEecCCCcccc
Confidence 4689999987752 22 346777744 444 45 7899999975443
No 38
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=21.48 E-value=44 Score=24.44 Aligned_cols=19 Identities=16% Similarity=0.172 Sum_probs=14.3
Q ss_pred cCCcchhhHHHhhhhcccc
Q 005799 651 TGDEPFRYHLLVFACHLHE 669 (676)
Q Consensus 651 vGD~Pw~~F~~~v~~~~~~ 669 (676)
-|.+||.+|-+.++.|++.
T Consensus 4 s~~d~f~eFY~rlk~Ike~ 22 (28)
T PF12108_consen 4 SGGDPFSEFYERLKEIKEY 22 (28)
T ss_dssp -S--HHHHHHHHHHHHHHH
T ss_pred CCCChHHHHHHHHHHHHHH
Confidence 4788999999999998874
Done!