Query 007282
Match_columns 609
No_of_seqs 336 out of 850
Neff 4.7
Searched_HMMs 46136
Date Thu Mar 28 21:27:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007282.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007282hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02309 AUX_IAA: AUX/IAA fami 100.0 2.1E-37 4.6E-42 306.9 0.4 94 495-588 107-215 (215)
2 PF06507 Auxin_resp: Auxin res 100.0 1.2E-34 2.6E-39 249.1 8.2 80 168-247 1-83 (83)
3 PF02362 B3: B3 DNA binding do 99.7 3E-17 6.6E-22 142.2 10.9 97 42-143 1-99 (100)
4 KOG0644 Uncharacterized conser 99.5 7.8E-15 1.7E-19 165.2 7.1 149 120-274 874-1046(1113)
5 PF09217 EcoRII-N: Restriction 98.0 3.2E-05 7E-10 74.0 10.3 90 38-129 6-110 (156)
6 PF03754 DUF313: Domain of unk 97.6 0.00011 2.3E-09 67.7 5.7 78 39-117 21-114 (114)
7 PF00564 PB1: PB1 domain; Int 96.9 0.0029 6.3E-08 53.4 7.0 67 499-571 3-70 (84)
8 smart00666 PB1 PB1 domain. Pho 96.5 0.013 2.7E-07 49.4 7.6 65 500-571 4-69 (81)
9 cd06407 PB1_NLP A PB1 domain i 96.4 0.013 2.8E-07 51.0 7.2 57 499-561 2-58 (82)
10 cd05992 PB1 The PB1 domain is 96.3 0.021 4.5E-07 47.9 8.0 65 500-571 3-69 (81)
11 cd06398 PB1_Joka2 The PB1 doma 96.3 0.012 2.6E-07 52.2 6.7 65 500-572 3-72 (91)
12 cd06403 PB1_Par6 The PB1 domai 95.9 0.041 9E-07 47.8 8.0 72 500-576 3-78 (80)
13 cd06396 PB1_NBR1 The PB1 domai 95.8 0.033 7.2E-07 48.6 7.0 64 500-570 3-67 (81)
14 cd06401 PB1_TFG The PB1 domain 94.9 0.17 3.7E-06 44.3 8.3 71 500-576 3-79 (81)
15 cd06409 PB1_MUG70 The MUG70 pr 94.0 0.087 1.9E-06 46.5 4.7 53 507-561 7-61 (86)
16 cd06404 PB1_aPKC PB1 domain is 93.6 0.23 5.1E-06 43.6 6.5 57 499-561 2-58 (83)
17 cd06408 PB1_NoxR The PB1 domai 92.7 0.33 7.1E-06 43.0 6.2 55 498-561 3-57 (86)
18 cd06402 PB1_p62 The PB1 domain 92.5 0.51 1.1E-05 41.8 7.1 62 499-566 2-68 (87)
19 cd06397 PB1_UP1 Uncharacterize 90.7 0.76 1.7E-05 40.3 6.1 66 500-572 3-69 (82)
20 PRK10737 FKBP-type peptidyl-pr 68.5 17 0.00037 36.7 7.2 102 119-233 2-114 (196)
21 cd06406 PB1_P67 A PB1 domain i 58.9 43 0.00094 29.5 7.0 69 499-575 4-75 (80)
22 smart00743 Agenet Tudor-like d 58.3 16 0.00034 29.2 3.9 38 203-252 2-39 (61)
23 cd06399 PB1_P40 The PB1 domain 54.1 23 0.0005 31.8 4.5 41 514-561 23-63 (92)
24 PF04014 Antitoxin-MazE: Antid 46.6 23 0.0005 27.3 3.0 27 113-139 14-40 (47)
25 PF05641 Agenet: Agenet domain 42.7 63 0.0014 26.8 5.3 42 204-254 1-42 (68)
26 PF10844 DUF2577: Protein of u 37.4 43 0.00093 30.1 3.7 28 114-141 71-98 (100)
27 PF00788 RA: Ras association ( 36.7 86 0.0019 26.3 5.4 70 497-569 2-77 (93)
28 smart00333 TUDOR Tudor domain. 36.6 58 0.0013 25.3 4.0 51 203-269 2-52 (57)
29 KOG3207 Beta-tubulin folding c 34.7 46 0.001 37.9 4.2 43 204-259 3-45 (505)
30 PF02513 Spin-Ssty: Spin/Ssty 33.2 61 0.0013 26.2 3.6 32 206-237 1-32 (50)
31 TIGR01439 lp_hng_hel_AbrB loop 33.0 53 0.0012 24.1 3.1 26 113-138 14-39 (43)
32 PRK14129 heat shock protein Hs 30.0 62 0.0013 29.9 3.5 50 201-267 3-53 (105)
33 KOG3938 RGS-GAIP interacting p 29.9 72 0.0016 34.2 4.4 74 504-585 61-142 (334)
34 PF01878 EVE: EVE domain; Int 27.3 59 0.0013 30.3 3.1 26 118-143 38-64 (143)
35 KOG3606 Cell polarity protein 27.2 64 0.0014 34.7 3.5 66 512-582 33-102 (358)
36 COG1047 SlpA FKBP-type peptidy 24.6 3.6E+02 0.0079 27.1 8.0 103 119-233 2-115 (174)
37 PF11515 Cul7: Mouse developme 23.4 99 0.0021 27.2 3.4 57 192-254 6-62 (78)
38 cd04451 S1_IF1 S1_IF1: Transla 23.1 3.3E+02 0.0071 22.1 6.3 38 81-131 15-52 (64)
39 PF06003 SMN: Survival motor n 22.1 93 0.002 32.7 3.6 57 200-270 65-121 (264)
40 cd06410 PB1_UP2 Uncharacterize 22.1 1.1E+02 0.0023 27.7 3.6 61 503-570 19-79 (97)
No 1
>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=100.00 E-value=2.1e-37 Score=306.95 Aligned_cols=94 Identities=46% Similarity=0.802 Sum_probs=0.0
Q ss_pred CCcceeEEEecCceeeeeecCCCCCChHHHHHHHHHHh---hcc----------cc--cCCCCceEEEEecCCCCeEEcc
Q 007282 495 SNRSRTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMF---DIK----------GQ--LHTRTKWEIVYTDDEGDMMLVG 559 (609)
Q Consensus 495 ~~~~~vKV~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF---~~~----------g~--l~~~~~~~v~Y~D~eGD~mlvG 559 (609)
..++||||+|||++|||||||++|+||++|+.+|++|| +|. +. |...++|+|||+|+||||||||
T Consensus 107 ~~~~~vKV~mdG~~igRkVDL~~~~sY~~L~~~L~~MF~~~~i~~~~~~~~~~~~~~~~~~~~~~~l~Y~D~egd~mlvG 186 (215)
T PF02309_consen 107 SSRSYVKVNMDGVPIGRKVDLSAYSSYEELSSALEKMFSCFSIEQCGSHGLNESGLLDLLNGSEYVLVYEDKEGDWMLVG 186 (215)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cCCceeEEEecCcccceecCHHHhhCHHHHHHHHHHhcCCCCccccccccccchhhccccCCcceeEEEECCCCCEEEec
Confidence 46899999999999999999999999999999999999 666 22 3456799999999999999999
Q ss_pred CCChHHHHhcceeEEEeeccccccCCCCC
Q 007282 560 DDPWHEFCNMVKRIFICSSQDVKKMSPGS 588 (609)
Q Consensus 560 D~PW~~F~~~vkri~I~~~~e~~~~~~~~ 588 (609)
||||++||++||||+||+.+|+++|+|++
T Consensus 187 D~PW~~F~~~vkRl~I~~~~e~~~~~~r~ 215 (215)
T PF02309_consen 187 DVPWEEFVKSVKRLRIMKSSEAKGLAPRA 215 (215)
T ss_dssp -----------------------------
T ss_pred CCCHHHHHHHhhccEEecHHHhcccCCCC
Confidence 99999999999999999999999999974
No 2
>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=1.2e-34 Score=249.12 Aligned_cols=80 Identities=55% Similarity=1.010 Sum_probs=78.2
Q ss_pred HHHHHhcCCceEEEEecCCC--cceeeHHHHHHHHcCCCccCCEEEEEEecCCCCCceeeeEEeeeecCCC-CCCCCCce
Q 007282 168 ASHAVATQTMFVVYYKPRTS--QFIISLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSP-HWKDSKWR 244 (609)
Q Consensus 168 A~~a~~tg~~F~V~Y~Pr~s--eFvV~~~~y~~a~~~~w~~GmRFkM~fe~eD~~~~~~~GtI~~v~~~dp-~wp~S~WR 244 (609)
|+|||++|++|+|+||||++ ||||++++|++||+++|++||||||+||+||+++++|+|||+||+++|| +||+|+||
T Consensus 1 A~~aa~~~~~F~V~Y~PRa~~sEFVV~~~k~~~al~~~~~~GmRfkM~fE~eds~~~~~~GtI~~v~~~dp~~w~~S~WR 80 (83)
T PF06507_consen 1 AAHAAATGSPFEVFYYPRASPSEFVVPASKYDKALNHPWSVGMRFKMRFETEDSSERRWQGTIVGVSDLDPIRWPGSKWR 80 (83)
T ss_pred ChhHhhcCCeEEEEECCCCCCcceEEEHHHHHHHhcCCCCCCcEEEEEeccCCCccceeeeEEeEeeccCCCCCCCCCcc
Confidence 68999999999999999995 9999999999999999999999999999999999999999999999999 99999999
Q ss_pred eEE
Q 007282 245 SLK 247 (609)
Q Consensus 245 ~L~ 247 (609)
|||
T Consensus 81 ~Lq 83 (83)
T PF06507_consen 81 MLQ 83 (83)
T ss_pred cCc
Confidence 997
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=3e-17 Score=142.15 Aligned_cols=97 Identities=31% Similarity=0.397 Sum_probs=74.8
Q ss_pred EEEecccccCCCCCceEEeccchhhcCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEeCCCCceeecccchhhhcccCCC
Q 007282 42 FSKVLTASDTSTHGGFSVLRKHATECLPPLDMNQSTPTQELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLV 121 (609)
Q Consensus 42 F~K~LT~SDv~~~grfsVPr~~ae~~fP~Ld~~~~~p~q~L~~~D~~G~~W~Fr~~~rg~prr~lLTtGWs~FV~~K~L~ 121 (609)
|.|+|+++|+.+.++|.||+++++.|. ++ ....+++.++|..|+.|.+++.+++.+++++|++||..||++++|+
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 1235689999999999999999998888899999999999999999
Q ss_pred CCCEEEEEeCC--CCcEEEEEEec
Q 007282 122 AGDTFVFLRGE--NGELHVGVRCL 143 (609)
Q Consensus 122 aGD~VvF~R~~--~G~l~VgIRRa 143 (609)
+||.|+|+... ..++.|.|+|+
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 99999999854 45569999986
No 4
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=99.53 E-value=7.8e-15 Score=165.22 Aligned_cols=149 Identities=22% Similarity=0.409 Sum_probs=122.2
Q ss_pred CCCCCEEEEEeCCCCcEEEEEEeccccCC---------------------CCCCcccccCcccchhHHHHHHHHhcCCce
Q 007282 120 LVAGDTFVFLRGENGELHVGVRCLARQQS---------------------SMPSSVISSQSMHLGVLATASHAVATQTMF 178 (609)
Q Consensus 120 L~aGD~VvF~R~~~G~l~VgIRRa~~~~~---------------------~~p~sv~~~~~~~~~vla~A~~a~~tg~~F 178 (609)
...||.|+++|.+..++.-.+|+.....+ ..|.+..+.|+|.|.||..|.++ -...|
T Consensus 874 pQmgDEViyfrQghqeyl~~~~~n~~~~~~~~p~~~~~v~~~kv~kl~~~~y~~~~~s~c~m~l~~idp~s~~--~~k~F 951 (1113)
T KOG0644|consen 874 PQMGDEVIYFRQGHQEYLEAVRLNNIELNNKEPWNKMAVEICKVEKLVYITYPGSGDSCCKMKLAVIDPASKL--MDKSF 951 (1113)
T ss_pred ccccceeehhhhhhHHHHhhhhhccccccccCcccccchhhheeeeeeeeeccCCCcchheeeeeeecchhhh--hhccc
Confidence 34899999999988777766666544322 12455667899999999989865 45569
Q ss_pred EEEEecCCC--cceeeHHHHHHHHcCCCccCCEEEEEEecCCC-CCceeeeEEeeeecCCCCCCCCCceeEEEeecCCCC
Q 007282 179 VVYYKPRTS--QFIISLNKYLEAVNNKFAVGMRYKMRFEGEDS-PERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPAS 255 (609)
Q Consensus 179 ~V~Y~Pr~s--eFvV~~~~y~~a~~~~w~~GmRFkM~fe~eD~-~~~~~~GtI~~v~~~dp~wp~S~WR~L~V~WDe~~~ 255 (609)
.+.|..... ||+|.++.|++|++++|.++++||.-...+-- --+||.|+|.++++.+|.+|+|+|.|+.|+||..+
T Consensus 952 ~ltlpdlv~fpDFlV~rsrYd~AiQrnW~~~d~crvwwrda~~e~g~WWeG~ils~~pksp~fpdSpwery~v~~~~~e- 1030 (1113)
T KOG0644|consen 952 KLTLPDLVTFPDFLVERSRYDAAIQRNWTCRDKCRVWWRDAGEEDGAWWEGRILSVKPKSPDFPDSPWERYIVRYDNTE- 1030 (1113)
T ss_pred eeecccccCcchhhhhhhhHHHHHhhccccccceeEEEccCCCcCCceeeeeeeeccCCCCCCCCCcceeEEEEecCCc-
Confidence 999987665 99999999999999999999999998852211 12899999999999999999999999999999998
Q ss_pred CCCCCccccCcceeccCCC
Q 007282 256 ITRPDRVSPWEIEPFVASA 274 (609)
Q Consensus 256 ~~~~~RVSPWeIEp~~~~~ 274 (609)
.+.-||||.|++....
T Consensus 1031 ---~~~~spwe~~~i~de~ 1046 (1113)
T KOG0644|consen 1031 ---TELHSPWEMEPIPDEV 1046 (1113)
T ss_pred ---ccccCccccCCCcccc
Confidence 4677999999987653
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=98.04 E-value=3.2e-05 Score=73.99 Aligned_cols=90 Identities=18% Similarity=0.219 Sum_probs=60.8
Q ss_pred ceeEEEEecccccCCCCC----ceEEeccchhhcCCCCCC-CCCCCceEEEEEeCCC--CeEEEEEEEeCC------CCc
Q 007282 38 KVHSFSKVLTASDTSTHG----GFSVLRKHATECLPPLDM-NQSTPTQELVAKDLHG--YEWRFKHIFRGQ------PRR 104 (609)
Q Consensus 38 ~~~~F~K~LT~SDv~~~g----rfsVPr~~ae~~fP~Ld~-~~~~p~q~L~~~D~~G--~~W~Fr~~~rg~------prr 104 (609)
....|+|.|++.|++..| |+-||+..++..||.+.. ....|..+|.+++..| ..|+||++|.|+ ...
T Consensus 6 ~~~~~~K~LSaNDtGaTGgHQaGiyIpk~~~~~lFp~~~~~~~~Np~~~~~~~~~s~~~~~~~~r~iYYnn~~~~gTRNE 85 (156)
T PF09217_consen 6 SWAIYCKRLSANDTGATGGHQAGIYIPKSAAELLFPSINHTKEENPDIWLKARWQSHFVTDSQVRFIYYNNRLFGGTRNE 85 (156)
T ss_dssp SEEEEEEE--CCCCTTTSSS--EEEE-HHHHHHH-GGG-SSSSSS-EEEEEEEETTTT---EEEEEEEE-CCCTTSS--E
T ss_pred ceEEEEEEccCCCCCCcCcccceeEecccHHHHhCCCCCcccccCCceeEEEEECCCCccceeEEEEEEcccccCCCcCc
Confidence 567899999999999764 799999999999998766 5667899999999888 568899999976 456
Q ss_pred eeec--ccchhhhcccCCCCCCEEEEE
Q 007282 105 HLLT--TGWSTFVTSKRLVAGDTFVFL 129 (609)
Q Consensus 105 ~lLT--tGWs~FV~~K~L~aGD~VvF~ 129 (609)
+-|| ++=..|.+. =..||.+||.
T Consensus 86 ~RIT~~G~~~~~~~~--~~tGaL~vla 110 (156)
T PF09217_consen 86 YRITRFGRGFPLQNP--ENTGALLVLA 110 (156)
T ss_dssp EEEE---TTSGGG-G--GGTT-EEEEE
T ss_pred eEEeeecCCCccCCc--cccccEEEEE
Confidence 7776 343344443 2478888886
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=97.60 E-value=0.00011 Score=67.70 Aligned_cols=78 Identities=18% Similarity=0.239 Sum_probs=61.1
Q ss_pred eeEEEEecccccCCCC-CceEEeccchhhcCCCCCC------------CCCCCceEEEEEeCCCCeEEEEEEEeCC---C
Q 007282 39 VHSFSKVLTASDTSTH-GGFSVLRKHATECLPPLDM------------NQSTPTQELVAKDLHGYEWRFKHIFRGQ---P 102 (609)
Q Consensus 39 ~~~F~K~LT~SDv~~~-grfsVPr~~ae~~fP~Ld~------------~~~~p~q~L~~~D~~G~~W~Fr~~~rg~---p 102 (609)
...|+|+|++||+..+ .||+||-..... ...|.. ....-++.+.+.|..++.|..++..|.. .
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 4789999999999966 899999876633 222321 1234578899999999999999999965 4
Q ss_pred Cceeecccchhhhcc
Q 007282 103 RRHLLTTGWSTFVTS 117 (609)
Q Consensus 103 rr~lLTtGWs~FV~~ 117 (609)
-.|+|++||..+|.+
T Consensus 100 ~~YvL~~gWn~VV~~ 114 (114)
T PF03754_consen 100 SNYVLNSGWNKVVED 114 (114)
T ss_pred eEEEEEcChHhhccC
Confidence 579999999999863
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=96.93 E-value=0.0029 Score=53.37 Aligned_cols=67 Identities=27% Similarity=0.536 Sum_probs=54.5
Q ss_pred eeEEEecCceeeeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCC-ChHHHHhcce
Q 007282 499 RTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDD-PWHEFCNMVK 571 (609)
Q Consensus 499 ~vKV~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~-PW~~F~~~vk 571 (609)
-+|++..|. +=|.+.+..--+|++|..++++.|++. ...+.+.|.|.||||..+.++ =|.+.+..++
T Consensus 3 ~vK~~~~~~-~~~~~~~~~~~s~~~L~~~i~~~~~~~-----~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~ 70 (84)
T PF00564_consen 3 RVKVRYGGD-IRRIISLPSDVSFDDLRSKIREKFGLL-----DEDFQLKYKDEDGDLVTISSDEDLQEAIEQAK 70 (84)
T ss_dssp EEEEEETTE-EEEEEEECSTSHHHHHHHHHHHHHTTS-----TSSEEEEEEETTSSEEEESSHHHHHHHHHHHH
T ss_pred EEEEEECCe-eEEEEEcCCCCCHHHHHHHHHHHhCCC-----CccEEEEeeCCCCCEEEeCCHHHHHHHHHHHH
Confidence 479999995 444688888889999999999999987 445799999999999988754 4666677664
No 8
>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=96.46 E-value=0.013 Score=49.43 Aligned_cols=65 Identities=17% Similarity=0.411 Sum_probs=50.9
Q ss_pred eEEEecCceeeeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccC-CChHHHHhcce
Q 007282 500 TKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGD-DPWHEFCNMVK 571 (609)
Q Consensus 500 vKV~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD-~PW~~F~~~vk 571 (609)
+||.-.| -=|.+-+..--+|++|+.++.+.|++.. ..+.|.|+|.|||+..+.+ .=|.+.+.+++
T Consensus 4 vK~~~~~--~~~~~~~~~~~s~~dL~~~i~~~~~~~~-----~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 4 VKLRYGG--ETRRLSVPRDISFEDLRSKVAKRFGLDN-----QSFTLKYQDEDGDLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEECC--EEEEEEECCCCCHHHHHHHHHHHhCCCC-----CCeEEEEECCCCCEEEecCHHHHHHHHHHHH
Confidence 6887755 3678888889999999999999999753 4579999999999986654 45555565554
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=96.36 E-value=0.013 Score=50.95 Aligned_cols=57 Identities=21% Similarity=0.393 Sum_probs=46.1
Q ss_pred eeEEEecCceeeeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCC
Q 007282 499 RTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDD 561 (609)
Q Consensus 499 ~vKV~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~ 561 (609)
-|||...|. -+.+-|..--+|++|..++.++|.+.. ...+.|-|.|.||||..+--+
T Consensus 2 ~vK~~~~~d--~~r~~l~~~~~~~~L~~~i~~r~~~~~----~~~f~LkY~Ddegd~v~ltsd 58 (82)
T cd06407 2 RVKATYGEE--KIRFRLPPSWGFTELKQEIAKRFKLDD----MSAFDLKYLDDDEEWVLLTCD 58 (82)
T ss_pred EEEEEeCCe--EEEEEcCCCCCHHHHHHHHHHHhCCCC----CCeeEEEEECCCCCeEEeecH
Confidence 379999886 455666666699999999999999853 356899999999999887544
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=96.31 E-value=0.021 Score=47.86 Aligned_cols=65 Identities=18% Similarity=0.446 Sum_probs=49.5
Q ss_pred eEEEecCceeeeeecCC-CCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccC-CChHHHHhcce
Q 007282 500 TKVQMQGVAVGRALDLT-TLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGD-DPWHEFCNMVK 571 (609)
Q Consensus 500 vKV~m~G~~vgR~vDL~-~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD-~PW~~F~~~vk 571 (609)
+||+-.|. =|.+=+. .--+|++|...|.+.|++.. ..+.+.|.|.|||+..+.+ .=|++.++.++
T Consensus 3 vK~~~~~~--~~~~~~~~~~~s~~~L~~~i~~~~~~~~-----~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~ 69 (81)
T cd05992 3 VKVKYGGE--IRRFVVVSRSISFEDLRSKIAEKFGLDA-----VSFKLKYPDEDGDLVTISSDEDLEEAIEEAR 69 (81)
T ss_pred EEEEecCC--CEEEEEecCCCCHHHHHHHHHHHhCCCC-----CcEEEEeeCCCCCEEEeCCHHHHHHHHHHHh
Confidence 68888874 2444444 88899999999999999864 4579999999999999888 44555555544
No 11
>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=96.30 E-value=0.012 Score=52.19 Aligned_cols=65 Identities=25% Similarity=0.502 Sum_probs=52.2
Q ss_pred eEEEecCceeeeeecCC-----CCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCCChHHHHhccee
Q 007282 500 TKVQMQGVAVGRALDLT-----TLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEFCNMVKR 572 (609)
Q Consensus 500 vKV~m~G~~vgR~vDL~-----~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~PW~~F~~~vkr 572 (609)
+||.-+|. -|++-+. .--+|++|..++++.|.+.. ..++.+.|.|.||||..+-++ .++...+.+
T Consensus 3 vKv~y~~~--~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~----~~~~~l~Y~Dedgd~V~l~~D--~DL~~a~~~ 72 (91)
T cd06398 3 VKVKYGGT--LRRFTFPVAENQLDLNMDGLREKVEELFSLSP----DADLSLTYTDEDGDVVTLVDD--NDLTDAIQY 72 (91)
T ss_pred EEEEeCCE--EEEEEeccccccCCCCHHHHHHHHHHHhCCCC----CCcEEEEEECCCCCEEEEccH--HHHHHHHHH
Confidence 79999996 4555544 35799999999999998744 467899999999999999777 777666554
No 12
>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=95.92 E-value=0.041 Score=47.82 Aligned_cols=72 Identities=24% Similarity=0.360 Sum_probs=52.4
Q ss_pred eEEEecCceeeeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCC-ChHHHHhcce---eEEE
Q 007282 500 TKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDD-PWHEFCNMVK---RIFI 575 (609)
Q Consensus 500 vKV~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~-PW~~F~~~vk---ri~I 575 (609)
||...+++=-==.+|.....+|++++..|+.|+.+.+ -.+.|-|+|.+||.+-+-.+ -+..=+.+++ ||.|
T Consensus 3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l~~-----~~f~i~Y~D~~gDLLPInNDdNf~kAlssa~plLRl~i 77 (80)
T cd06403 3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHIPN-----VDFLIGYTDPHGDLLPINNDDNFLKALSSANPLLRIFI 77 (80)
T ss_pred eecccCCeEEEEEeccccCcCHHHHHHHHHHHhCCCC-----CcEEEEEeCCCCCEecccCcHHHHHHHHcCCCceEEEE
Confidence 5666666533336677778999999999999999976 34799999999999987644 4444455666 4554
Q ss_pred e
Q 007282 576 C 576 (609)
Q Consensus 576 ~ 576 (609)
-
T Consensus 78 q 78 (80)
T cd06403 78 Q 78 (80)
T ss_pred E
Confidence 3
No 13
>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=95.82 E-value=0.033 Score=48.62 Aligned_cols=64 Identities=16% Similarity=0.224 Sum_probs=50.3
Q ss_pred eEEEecCceeeeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEcc-CCChHHHHhcc
Q 007282 500 TKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVG-DDPWHEFCNMV 570 (609)
Q Consensus 500 vKV~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvG-D~PW~~F~~~v 570 (609)
+||.-.|.-+==+++-+..-+|++|..++.++|++. .+.|.|-|.||||.++- |.=.++.++.+
T Consensus 3 vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~-------~f~lKYlDde~e~v~lssd~eLeE~~rl~ 67 (81)
T cd06396 3 LKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN-------DIQIKYVDEENEEVSVNSQGEYEEALKSA 67 (81)
T ss_pred EEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC-------cceeEEEcCCCCEEEEEchhhHHHHHHHH
Confidence 788888876666677666889999999999999998 47899999999998764 33345554443
No 14
>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=94.86 E-value=0.17 Score=44.28 Aligned_cols=71 Identities=23% Similarity=0.483 Sum_probs=50.0
Q ss_pred eEEEecCceeeeeecCCCC-CChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCCChHHH-----HhcceeE
Q 007282 500 TKVQMQGVAVGRALDLTTL-VGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEF-----CNMVKRI 573 (609)
Q Consensus 500 vKV~m~G~~vgR~vDL~~~-~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~PW~~F-----~~~vkri 573 (609)
+|+..+| +| |.+=+..- -+|.+|...+.+.|... +...+.+.|-|.|.|||+.-+.+. +++ +...++|
T Consensus 3 iK~~~g~-Di-R~~~~~~~~~t~~~L~~~v~~~F~~~--~~~~~~flIKYkD~dGDlVTIts~--~dL~~A~~~~~~~~l 76 (81)
T cd06401 3 LKAQLGD-DI-RRIPIHNEDITYDELLLMMQRVFRGK--LGSSDDVLIKYKDEDGDLITIFDS--SDLSFAIQCSRILKL 76 (81)
T ss_pred EEEEeCC-eE-EEEeccCccccHHHHHHHHHHHhccc--cCCcccEEEEEECCCCCEEEeccH--HHHHHHHhcCcceEE
Confidence 5666655 45 44444442 39999999999999843 334567899999999999999886 444 4445566
Q ss_pred EEe
Q 007282 574 FIC 576 (609)
Q Consensus 574 ~I~ 576 (609)
+|.
T Consensus 77 ~~~ 79 (81)
T cd06401 77 TLF 79 (81)
T ss_pred EEe
Confidence 554
No 15
>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=94.02 E-value=0.087 Score=46.51 Aligned_cols=53 Identities=21% Similarity=0.330 Sum_probs=41.5
Q ss_pred ceeeeeecCC--CCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCC
Q 007282 507 VAVGRALDLT--TLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDD 561 (609)
Q Consensus 507 ~~vgR~vDL~--~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~ 561 (609)
.+-||.+=++ ...|+.+|..++.+=|+++... ...+.|.|.|+||||.++--+
T Consensus 7 ~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~--~~~~~L~YlDDEgD~VllT~D 61 (86)
T cd06409 7 DPKGRVHRFRLRPSESLEELRTLISQRLGDDDFE--THLYALSYVDDEGDIVLITSD 61 (86)
T ss_pred CCCCCEEEEEecCCCCHHHHHHHHHHHhCCcccc--CCcccEEEEcCCCCEEEEecc
Confidence 3466665544 4689999999999999987643 456899999999999887544
No 16
>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=93.57 E-value=0.23 Score=43.61 Aligned_cols=57 Identities=19% Similarity=0.396 Sum_probs=46.2
Q ss_pred eeEEEecCceeeeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCC
Q 007282 499 RTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDD 561 (609)
Q Consensus 499 ~vKV~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~ 561 (609)
-+|++-.|.-+-=.+|. .-+|++|.+++.+||.... ...+++.|.|.|||.--+...
T Consensus 2 ~~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~~~----~q~ft~kw~DEEGDp~tiSS~ 58 (83)
T cd06404 2 RVKAAYNGDIMITSIDP--SISLEELCNEVRDMCRFHN----DQPFTLKWIDEEGDPCTISSQ 58 (83)
T ss_pred eEEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCCCC----CCcEEEEEECCCCCceeecCH
Confidence 37899999755555666 6689999999999998744 556899999999999877765
No 17
>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=92.66 E-value=0.33 Score=42.96 Aligned_cols=55 Identities=31% Similarity=0.523 Sum_probs=46.7
Q ss_pred ceeEEEecCceeeeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCC
Q 007282 498 SRTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDD 561 (609)
Q Consensus 498 ~~vKV~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~ 561 (609)
--|||+-+|. -|.|-+..-=+|++|..++.++|++.. .+.|-|.|. ||+.-++|.
T Consensus 3 ikVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~~~~------~~~iKykDE-GD~iti~sq 57 (86)
T cd06408 3 IRVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFGFKR------RLKIKMKDD-GDMITMGDQ 57 (86)
T ss_pred EEEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhCCCC------ceEEEEEcC-CCCccccCH
Confidence 4689999897 566777777789999999999999953 568999999 999999886
No 18
>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=92.45 E-value=0.51 Score=41.82 Aligned_cols=62 Identities=23% Similarity=0.449 Sum_probs=45.9
Q ss_pred eeEEEecCc---eeeeee--cCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCCChHHH
Q 007282 499 RTKVQMQGV---AVGRAL--DLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEF 566 (609)
Q Consensus 499 ~vKV~m~G~---~vgR~v--DL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~PW~~F 566 (609)
.||.+..|. +==|++ |=....+|++|...+.++|..-. ...+.|.|.|.|||..-+..+ +++
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~l~----~~~ftlky~DeeGDlvtIssd--eEL 68 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPSLR----GKNFQLFWKDEEGDLVAFSSD--EEL 68 (87)
T ss_pred eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHccccC----CCcEEEEEECCCCCEEeecCH--HHH
Confidence 578888772 222444 44666799999999999995432 356899999999999888776 555
No 19
>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=90.65 E-value=0.76 Score=40.29 Aligned_cols=66 Identities=17% Similarity=0.406 Sum_probs=50.3
Q ss_pred eEEEecCceeeeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEcc-CCChHHHHhccee
Q 007282 500 TKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVG-DDPWHEFCNMVKR 572 (609)
Q Consensus 500 vKV~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvG-D~PW~~F~~~vkr 572 (609)
-||.-+| --|++.-..-=+|.+|..+|+.+|.+... + ..|+|.|.+||..-+- |+=.++|.+-..+
T Consensus 3 fKv~~~g--~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~----~-~~vtYiDeD~D~ITlssd~eL~d~~~~~~~ 69 (82)
T cd06397 3 FKSSFLG--DTRRIVFPDIPTWEALASKLENLYNLPEI----K-VGVTYIDNDNDEITLSSNKELQDFYRLSHR 69 (82)
T ss_pred EEEEeCC--ceEEEecCCCccHHHHHHHHHHHhCCChh----H-eEEEEEcCCCCEEEecchHHHHHHHHhccc
Confidence 3777777 46888888889999999999999998642 2 6899999999987554 4455566554444
No 20
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=68.50 E-value=17 Score=36.74 Aligned_cols=102 Identities=18% Similarity=0.225 Sum_probs=63.7
Q ss_pred CCCCCCEEEE-E--eCCCCcEEEEEEeccccCCCCCCcccccCcccchhHHHHHHHHhcCCceEEEEecCC------C--
Q 007282 119 RLVAGDTFVF-L--RGENGELHVGVRCLARQQSSMPSSVISSQSMHLGVLATASHAVATQTMFVVYYKPRT------S-- 187 (609)
Q Consensus 119 ~L~aGD~VvF-~--R~~~G~l~VgIRRa~~~~~~~p~sv~~~~~~~~~vla~A~~a~~tg~~F~V~Y~Pr~------s-- 187 (609)
++..|+.|.+ | |.++|+++---+ ...|...+-....-+--|.+|..-...|..|+|..-|-. .
T Consensus 2 kI~~~~vV~l~Y~l~~~dG~v~dst~------~~~Pl~~~~G~g~lipglE~aL~G~~~Gd~~~v~l~peeAyGe~d~~l 75 (196)
T PRK10737 2 KVAKDLVVSLAYQVRTEDGVLVDESP------VSAPLDYLHGHGSLISGLETALEGHEVGDKFDVAVGANDAYGQYDENL 75 (196)
T ss_pred ccCCCCEEEEEEEEEeCCCCEEEecC------CCCCeEEEeCCCcchHHHHHHHcCCCCCCEEEEEEChHHhcCCCChHH
Confidence 3456777776 3 356777643321 123444333333333346778888899999999987643 2
Q ss_pred cceeeHHHHHHHHcCCCccCCEEEEEEecCCCCCceeeeEEeeeec
Q 007282 188 QFIISLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVED 233 (609)
Q Consensus 188 eFvV~~~~y~~a~~~~w~~GmRFkM~fe~eD~~~~~~~GtI~~v~~ 233 (609)
-..||++.|... ....+||||.+. +++ ..+.++|+.|.+
T Consensus 76 V~~vpr~~F~~~--~~l~~G~~~~~~--~~~---G~~~~~V~ev~~ 114 (196)
T PRK10737 76 VQRVPKDVFMGV--DELQVGMRFLAE--TDQ---GPVPVEITAVED 114 (196)
T ss_pred EEEecHHHCCCc--cCCCCCCEEEEe--CCC---CcEEEEEEEEcC
Confidence 567888877432 236899999864 444 246889999874
No 21
>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=58.87 E-value=43 Score=29.49 Aligned_cols=69 Identities=14% Similarity=0.356 Sum_probs=51.7
Q ss_pred eeEEEecCceeeeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCC-CCeEEccCCChHHHHhcce--eEEE
Q 007282 499 RTKVQMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDE-GDMMLVGDDPWHEFCNMVK--RIFI 575 (609)
Q Consensus 499 ~vKV~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~e-GD~mlvGD~PW~~F~~~vk--ri~I 575 (609)
-||||-++ -| .|-...=-+|.+|+..|.+=+.+-++- -+|-|.|.+ |+...++|.=++.-.+.|+ +|+.
T Consensus 4 vvKV~f~~-tI--aIrvp~~~~y~~L~~ki~~kLkl~~e~-----i~LsYkde~s~~~v~l~d~dle~aws~~~~~~lTL 75 (80)
T cd06406 4 VVKVHFKY-TV--AIQVARGLSYATLLQKISSKLELPAEH-----ITLSYKSEASGEDVILSDTNMEDVWSQAKDGCLTL 75 (80)
T ss_pred EEEEEEEE-EE--EEEcCCCCCHHHHHHHHHHHhCCCchh-----cEEEeccCCCCCccCcChHHHHHHHHhhcCCeEEE
Confidence 37999998 33 455566678999999999999885432 378899865 4555559999999888888 6654
No 22
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=58.28 E-value=16 Score=29.24 Aligned_cols=38 Identities=21% Similarity=0.180 Sum_probs=29.6
Q ss_pred CCccCCEEEEEEecCCCCCceeeeEEeeeecCCCCCCCCCceeEEEeecC
Q 007282 203 KFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDE 252 (609)
Q Consensus 203 ~w~~GmRFkM~fe~eD~~~~~~~GtI~~v~~~dp~wp~S~WR~L~V~WDe 252 (609)
.|++|+++...++.++ .||.|+|+.+.. -..+.|.-+.
T Consensus 2 ~~~~G~~Ve~~~~~~~---~W~~a~V~~~~~---------~~~~~V~~~~ 39 (61)
T smart00743 2 DFKKGDRVEVFSKEED---SWWEAVVTKVLG---------DGKYLVRYLT 39 (61)
T ss_pred CcCCCCEEEEEECCCC---EEEEEEEEEECC---------CCEEEEEECC
Confidence 5899999999997543 899999999963 2246777766
No 23
>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=54.10 E-value=23 Score=31.81 Aligned_cols=41 Identities=24% Similarity=0.387 Sum_probs=32.9
Q ss_pred cCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCC
Q 007282 514 DLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDD 561 (609)
Q Consensus 514 DL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~ 561 (609)
||+..-+|.+|.....+-|..+. -.+-|+|.|||..-+=|+
T Consensus 23 ~l~~~P~~kdLl~lmr~~f~~~d-------IaLNYrD~EGDLIRlldd 63 (92)
T cd06399 23 DLSSTPLLKDLLELTRREFQRED-------IALNYRDAEGDLIRLLSD 63 (92)
T ss_pred ccccCccHHHHHHHHHHHhchhh-------eeeeeecCCCCEEEEcch
Confidence 78999999999999999998664 367799999998544333
No 24
>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=46.57 E-value=23 Score=27.27 Aligned_cols=27 Identities=15% Similarity=0.191 Sum_probs=22.4
Q ss_pred hhhcccCCCCCCEEEEEeCCCCcEEEE
Q 007282 113 TFVTSKRLVAGDTFVFLRGENGELHVG 139 (609)
Q Consensus 113 ~FV~~K~L~aGD~VvF~R~~~G~l~Vg 139 (609)
.|....+|.+||.|.|.-.++|++.+-
T Consensus 14 ~~~~~l~l~~Gd~v~i~~~~~g~i~i~ 40 (47)
T PF04014_consen 14 EIREKLGLKPGDEVEIEVEGDGKIVIR 40 (47)
T ss_dssp HHHHHTTSSTTTEEEEEEETTSEEEEE
T ss_pred HHHHHcCCCCCCEEEEEEeCCCEEEEE
Confidence 566777999999999999988866653
No 25
>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=42.75 E-value=63 Score=26.78 Aligned_cols=42 Identities=19% Similarity=0.295 Sum_probs=27.5
Q ss_pred CccCCEEEEEEecCCCCCceeeeEEeeeecCCCCCCCCCceeEEEeecCCC
Q 007282 204 FAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPA 254 (609)
Q Consensus 204 w~~GmRFkM~fe~eD~~~~~~~GtI~~v~~~dp~wp~S~WR~L~V~WDe~~ 254 (609)
|..|+++...-+.+...-.||.|+|+.... ++ .+.|+.++-.
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~------~~---~~~V~Y~~~~ 42 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENG------DD---KYLVEYDDLP 42 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEET------T----EEEEEETT-S
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCC------Cc---EEEEEECCcc
Confidence 578999998887555544999999999974 22 7889997654
No 26
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=37.36 E-value=43 Score=30.07 Aligned_cols=28 Identities=21% Similarity=0.362 Sum_probs=22.5
Q ss_pred hhcccCCCCCCEEEEEeCCCCcEEEEEE
Q 007282 114 FVTSKRLVAGDTFVFLRGENGELHVGVR 141 (609)
Q Consensus 114 FV~~K~L~aGD~VvF~R~~~G~l~VgIR 141 (609)
|.-...|++||.|..+|...|..++-+=
T Consensus 71 i~~~~~Lk~GD~V~ll~~~~gQ~yiVlD 98 (100)
T PF10844_consen 71 ITFTDGLKVGDKVLLLRVQGGQKYIVLD 98 (100)
T ss_pred EEEecCCcCCCEEEEEEecCCCEEEEEE
Confidence 5566789999999999988887666543
No 27
>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=36.69 E-value=86 Score=26.32 Aligned_cols=70 Identities=10% Similarity=0.068 Sum_probs=50.7
Q ss_pred cceeEEEecCcee---eeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEE--EecCCCCeEEc-cCCChHHHHhc
Q 007282 497 RSRTKVQMQGVAV---GRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIV--YTDDEGDMMLV-GDDPWHEFCNM 569 (609)
Q Consensus 497 ~~~vKV~m~G~~v---gR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~--Y~D~eGD~mlv-GD~PW~~F~~~ 569 (609)
..++||+++...- -++|-++....-.+++..+.+-|++.+ ...+|.|+ -........|- .+.|+..+...
T Consensus 2 ~~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~---~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~ 77 (93)
T PF00788_consen 2 SGVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAE---DPSDYCLVEVEESGGEERPLDDDECPLQIQLQW 77 (93)
T ss_dssp EEEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSS---SGGGEEEEEEECTTTEEEEETTTSBHHHHHHTT
T ss_pred CeEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCC---CCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhC
Confidence 3689999988653 689999999999999999999999932 34568884 44455555554 34466655544
No 28
>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=36.61 E-value=58 Score=25.25 Aligned_cols=51 Identities=18% Similarity=0.436 Sum_probs=36.8
Q ss_pred CCccCCEEEEEEecCCCCCceeeeEEeeeecCCCCCCCCCceeEEEeecCCCCCCCCCccccCccee
Q 007282 203 KFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSPWEIEP 269 (609)
Q Consensus 203 ~w~~GmRFkM~fe~eD~~~~~~~GtI~~v~~~dp~wp~S~WR~L~V~WDe~~~~~~~~RVSPWeIEp 269 (609)
.|.+|..+..++ .+. .||.|+|+++.. + ....|.-++-.. .+-|...+|-+
T Consensus 2 ~~~~G~~~~a~~-~d~---~wyra~I~~~~~------~---~~~~V~f~D~G~---~~~v~~~~l~~ 52 (57)
T smart00333 2 TFKVGDKVAARW-EDG---EWYRARIIKVDG------E---QLYEVFFIDYGN---EEVVPPSDLRP 52 (57)
T ss_pred CCCCCCEEEEEe-CCC---CEEEEEEEEECC------C---CEEEEEEECCCc---cEEEeHHHeec
Confidence 688999999999 443 899999999963 2 567788887553 23455555554
No 29
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=34.71 E-value=46 Score=37.89 Aligned_cols=43 Identities=33% Similarity=0.611 Sum_probs=30.3
Q ss_pred CccCCEEEEEEecCCCCCceeeeEEeeeecCCCCCCCCCceeEEEeecCCCCCCCC
Q 007282 204 FAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRP 259 (609)
Q Consensus 204 w~~GmRFkM~fe~eD~~~~~~~GtI~~v~~~dp~wp~S~WR~L~V~WDe~~~~~~~ 259 (609)
+.+|+|+|..+|- ...||.|+|.|. ++ +| +.|.||++.-.-+.
T Consensus 3 ~~IG~RvkI~~~~---~Tvr~iG~V~g~-------~~-~w--~GvEWDd~~RGKH~ 45 (505)
T KOG3207|consen 3 MEIGTRVKIGGEI---ATVRYIGEVEGN-------NS-KW--YGVEWDDPVRGKHD 45 (505)
T ss_pred eeccceEEEcCEE---EEEEEEEEEcCC-------CC-cc--eeeEecCCCccccC
Confidence 5689999988762 236677777665 33 44 78999999876443
No 30
>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=33.23 E-value=61 Score=26.24 Aligned_cols=32 Identities=28% Similarity=0.515 Sum_probs=24.4
Q ss_pred cCCEEEEEEecCCCCCceeeeEEeeeecCCCC
Q 007282 206 VGMRYKMRFEGEDSPERRFSGTVVGVEDFSPH 237 (609)
Q Consensus 206 ~GmRFkM~fe~eD~~~~~~~GtI~~v~~~dp~ 237 (609)
+|-|+.-.||+++.+...|.|+|...-++.|.
T Consensus 1 vGk~Veh~~~~g~g~~s~w~G~Vl~Qvp~~ps 32 (50)
T PF02513_consen 1 VGKRVEHTWEDGDGPKSKWKGMVLHQVPAKPS 32 (50)
T ss_dssp TT-EEEEEECTSTS-EEEEEEEEEEE-TTSTT
T ss_pred CCceEEEEEccCCCcccEEEEEEEEEeecCCc
Confidence 58899999998888888889999998776653
No 31
>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=32.96 E-value=53 Score=24.05 Aligned_cols=26 Identities=27% Similarity=0.412 Sum_probs=21.7
Q ss_pred hhhcccCCCCCCEEEEEeCCCCcEEE
Q 007282 113 TFVTSKRLVAGDTFVFLRGENGELHV 138 (609)
Q Consensus 113 ~FV~~K~L~aGD~VvF~R~~~G~l~V 138 (609)
.|.+.-++..||.|.+....+|.+.+
T Consensus 14 ~~r~~l~~~~gd~~~i~~~~~~~l~l 39 (43)
T TIGR01439 14 EIREKLGLKEGDRLEVIRVEDGEIIL 39 (43)
T ss_pred HHHHHcCcCCCCEEEEEEeCCCEEEE
Confidence 67888899999999999877776654
No 32
>PRK14129 heat shock protein HspQ; Provisional
Probab=30.00 E-value=62 Score=29.93 Aligned_cols=50 Identities=26% Similarity=0.414 Sum_probs=34.7
Q ss_pred cCCCccCCEEEEEEecCCCCCceeeeEEeeeecCCCCCCC-CCceeEEEeecCCCCCCCCCccccCcc
Q 007282 201 NNKFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKD-SKWRSLKVQWDEPASITRPDRVSPWEI 267 (609)
Q Consensus 201 ~~~w~~GmRFkM~fe~eD~~~~~~~GtI~~v~~~dp~wp~-S~WR~L~V~WDe~~~~~~~~RVSPWeI 267 (609)
..+|.+|.-+|-+.- .|-|.|+.| ||.+.+ .+| |++-... ++.|=.||==
T Consensus 3 ~akF~IGQ~VrHrl~-------~yrGVV~DV---DP~fs~~e~w------~~~ia~~-~p~kdqPwYH 53 (105)
T PRK14129 3 ASKFGIGQQVRHSLL-------GYLGVVVDI---DPEYSLEEPS------PDELAVN-DELRAAPWYH 53 (105)
T ss_pred cccccCCcEEEEeec-------CCCeEEEee---CCCcCCCchh------HHhhccC-CCccCCCceE
Confidence 568999999998873 489999987 565543 244 5555543 6667778853
No 33
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=29.95 E-value=72 Score=34.17 Aligned_cols=74 Identities=20% Similarity=0.327 Sum_probs=55.1
Q ss_pred ecCceeeeeecCCCCCChHHHHHHHHHHhhccccc---CCCCceEEEEecCCCCeEEccCCChHHHH-----hcceeEEE
Q 007282 504 MQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQL---HTRTKWEIVYTDDEGDMMLVGDDPWHEFC-----NMVKRIFI 575 (609)
Q Consensus 504 m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l---~~~~~~~v~Y~D~eGD~mlvGD~PW~~F~-----~~vkri~I 575 (609)
-.|.|+|| +..|++-+|||..+++-|+|...- ..-+.+.+ |=+-||-|-.-+++|+ .-.|.+.|
T Consensus 61 AHGSptg~---Ie~fsnv~ELY~kIAe~F~Is~~dIlfcTlNshKv-----DM~~llgGqigleDfiFAHvkGq~kEv~v 132 (334)
T KOG3938|consen 61 AHGSPTGR---IEGFSNVRELYQKIAEAFDISPDDILFCTLNSHKV-----DMKRLLGGQIGLEDFIFAHVKGQAKEVEV 132 (334)
T ss_pred ccCCccce---ecccccHHHHHHHHHHHhcCCccceEEEecCCCcc-----cHHHHhcCccChhhhhhhhhcCcceeEEE
Confidence 36788888 457899999999999999997531 11122222 3345899999999996 56778999
Q ss_pred eeccccccCC
Q 007282 576 CSSQDVKKMS 585 (609)
Q Consensus 576 ~~~~e~~~~~ 585 (609)
++.+++-++.
T Consensus 133 ~KsedalGlT 142 (334)
T KOG3938|consen 133 VKSEDALGLT 142 (334)
T ss_pred EecccccceE
Confidence 9999987664
No 34
>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=27.34 E-value=59 Score=30.32 Aligned_cols=26 Identities=23% Similarity=0.382 Sum_probs=17.1
Q ss_pred cCCCCCCEEEEEeCC-CCcEEEEEEec
Q 007282 118 KRLVAGDTFVFLRGE-NGELHVGVRCL 143 (609)
Q Consensus 118 K~L~aGD~VvF~R~~-~G~l~VgIRRa 143 (609)
++++.||.|+||... .+.-+||+=+-
T Consensus 38 ~~mk~GD~vifY~s~~~~~~ivai~~V 64 (143)
T PF01878_consen 38 KRMKPGDKVIFYHSGCKERGIVAIGEV 64 (143)
T ss_dssp HC--TT-EEEEEETSSSS-EEEEEEEE
T ss_pred hcCCCCCEEEEEEcCCCCCEEEEEEEE
Confidence 489999999999976 56677776664
No 35
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=27.16 E-value=64 Score=34.65 Aligned_cols=66 Identities=20% Similarity=0.401 Sum_probs=49.5
Q ss_pred eecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEcc-CCChHHHHhcce---eEEEeeccccc
Q 007282 512 ALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVG-DDPWHEFCNMVK---RIFICSSQDVK 582 (609)
Q Consensus 512 ~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvG-D~PW~~F~~~vk---ri~I~~~~e~~ 582 (609)
.++-..-.+|++.+.-|+.+-.|.+ -++.|-|.|.-||.+-+- |+-+..-+++++ ||.|-+++|+.
T Consensus 33 sl~r~~~~~f~~F~~Lv~~~H~i~n-----vdvllgY~d~hgDLLPinNDDn~~ka~~sa~PlLR~~iQkr~ea~ 102 (358)
T KOG3606|consen 33 SLPRHSASSFDEFYSLVEHLHHIPN-----VDVLLGYADTHGDLLPINNDDNLHKALSSARPLLRLLIQKREEAD 102 (358)
T ss_pred cccccCcccHHHHHHHHHHHhcCCC-----ceEEEEEecCCCceecccCchhHHHHhhccCchhhhhhhhhhhhh
Confidence 3455556799999999998887765 346888999999999775 444444455555 88999998875
No 36
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=24.56 E-value=3.6e+02 Score=27.06 Aligned_cols=103 Identities=20% Similarity=0.275 Sum_probs=63.0
Q ss_pred CCCCCCEEEEE---eCCCCcEEEEEEeccccCCCCCCcccccCcccchhHHHHHHHHhcCCceEEEEecCCC------cc
Q 007282 119 RLVAGDTFVFL---RGENGELHVGVRCLARQQSSMPSSVISSQSMHLGVLATASHAVATQTMFVVYYKPRTS------QF 189 (609)
Q Consensus 119 ~L~aGD~VvF~---R~~~G~l~VgIRRa~~~~~~~p~sv~~~~~~~~~vla~A~~a~~tg~~F~V~Y~Pr~s------eF 189 (609)
.+..||.|.+. |.++|+++=--.- ...|-.++-++..-+.-|.+|..-..-|.-|+|.--|-.. +.
T Consensus 2 ~i~k~~~V~i~Y~~~~~dg~v~Dtt~e-----~~~P~~~i~G~g~li~glE~al~g~~~Ge~~~V~IpPE~AfGe~~~~l 76 (174)
T COG1047 2 KIEKGDVVSLHYTLKVEDGEVVDTTDE-----NYGPLTFIVGAGQLIPGLEEALLGKEVGEEFTVEIPPEDAFGEYDPDL 76 (174)
T ss_pred cccCCCEEEEEEEEEecCCcEEEcccc-----cCCCeEEEecCCCcchhHHHHHhCCCCCceeEEEeCchHhcCCCChHH
Confidence 45667777762 3455654321111 1123333333333334467888888999999999888542 21
Q ss_pred --eeeHHHHHHHHcCCCccCCEEEEEEecCCCCCceeeeEEeeeec
Q 007282 190 --IISLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVED 233 (609)
Q Consensus 190 --vV~~~~y~~a~~~~w~~GmRFkM~fe~eD~~~~~~~GtI~~v~~ 233 (609)
.|+++++...= ...+||+|. ++++| .-.-|+|+.|..
T Consensus 77 vq~vp~~~F~~~~--~~~vGm~~~--~~~~~---~~~~~~V~~V~~ 115 (174)
T COG1047 77 VQRVPRDEFQGVG--ELEVGMEVE--AEGGD---GEIPGVVTEVSG 115 (174)
T ss_pred eEEecHHHhCcCC--CCCCCcEEE--EcCCC---ceeeEEEEEEcC
Confidence 56776665432 789999987 44444 456889999864
No 37
>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=23.40 E-value=99 Score=27.25 Aligned_cols=57 Identities=21% Similarity=0.268 Sum_probs=30.7
Q ss_pred eHHHHHHHHcCCCccCCEEEEEEecCCCCCceeeeEEeeeecCCCCCCCCCceeEEEeecCCC
Q 007282 192 SLNKYLEAVNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPA 254 (609)
Q Consensus 192 ~~~~y~~a~~~~w~~GmRFkM~fe~eD~~~~~~~GtI~~v~~~dp~wp~S~WR~L~V~WDe~~ 254 (609)
+.+.|..=+.-+.++||++||.=.=|+.. .-=.|+|.-++... -| =-.+||.|-...
T Consensus 6 s~d~Ya~YVr~~i~~GM~VRc~~~yeeV~-~GD~G~V~k~~~dg--~~---~lnvqv~W~~~G 62 (78)
T PF11515_consen 6 SNDDYAEYVRDNIQPGMRVRCCRDYEEVR-AGDEGEVFKQDRDG--LH---DLNVQVDWQSKG 62 (78)
T ss_dssp SSHHHHHHHHHH--TT-EEEESS-BTTB--TT-EEE-EEEE-TT--SS---E--EEEEETTTT
T ss_pred chhHHHHHHHHhCCCCcEEEEeccccccc-ccccceeEeeccCC--CC---CcceEEEeeecC
Confidence 45667777888899999999985545432 22367766665311 11 124888897765
No 38
>cd04451 S1_IF1 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of th
Probab=23.05 E-value=3.3e+02 Score=22.09 Aligned_cols=38 Identities=16% Similarity=0.126 Sum_probs=23.1
Q ss_pred EEEEEeCCCCeEEEEEEEeCCCCceeecccchhhhcccCCCCCCEEEEEeC
Q 007282 81 ELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDTFVFLRG 131 (609)
Q Consensus 81 ~L~~~D~~G~~W~Fr~~~rg~prr~lLTtGWs~FV~~K~L~aGD~VvF~R~ 131 (609)
.+.+++..|. .++|..||.-|+ +...+.+||.|.|...
T Consensus 15 ~~~V~~~~g~--~~~c~~rGklr~-----------~~~~~~vGD~V~~~~~ 52 (64)
T cd04451 15 MFRVELENGH--EVLAHISGKMRM-----------NYIRILPGDRVKVELS 52 (64)
T ss_pred EEEEEeCCCC--EEEEEECceeec-----------CCcccCCCCEEEEEEe
Confidence 3455666776 455555543221 2234889999999854
No 39
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=22.09 E-value=93 Score=32.75 Aligned_cols=57 Identities=14% Similarity=0.288 Sum_probs=33.7
Q ss_pred HcCCCccCCEEEEEEecCCCCCceeeeEEeeeecCCCCCCCCCceeEEEeecCCCCCCCCCccccCcceec
Q 007282 200 VNNKFAVGMRYKMRFEGEDSPERRFSGTVVGVEDFSPHWKDSKWRSLKVQWDEPASITRPDRVSPWEIEPF 270 (609)
Q Consensus 200 ~~~~w~~GmRFkM~fe~eD~~~~~~~GtI~~v~~~dp~wp~S~WR~L~V~WDe~~~~~~~~RVSPWeIEp~ 270 (609)
-...|.+|++.+..+.+|. .+|.+||.+|..-+ ....|.-++=. |.+.|+.=+|.+.
T Consensus 65 ~~~~WkvGd~C~A~~s~Dg---~~Y~A~I~~i~~~~--------~~~~V~f~gYg---n~e~v~l~dL~~~ 121 (264)
T PF06003_consen 65 PNKKWKVGDKCMAVYSEDG---QYYPATIESIDEED--------GTCVVVFTGYG---NEEEVNLSDLKPS 121 (264)
T ss_dssp TTT---TT-EEEEE-TTTS---SEEEEEEEEEETTT--------TEEEEEETTTT---EEEEEEGGGEEET
T ss_pred cccCCCCCCEEEEEECCCC---CEEEEEEEEEcCCC--------CEEEEEEcccC---CeEeeehhhhccc
Confidence 3579999999999986443 78999999997422 13348887754 2344554454443
No 40
>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=22.08 E-value=1.1e+02 Score=27.70 Aligned_cols=61 Identities=20% Similarity=0.405 Sum_probs=37.0
Q ss_pred EecCceeeeeecCCCCCChHHHHHHHHHHhhcccccCCCCceEEEEecCCCCeEEccCCChHHHHhcc
Q 007282 503 QMQGVAVGRALDLTTLVGYDHLIDELEEMFDIKGQLHTRTKWEIVYTDDEGDMMLVGDDPWHEFCNMV 570 (609)
Q Consensus 503 ~m~G~~vgR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~PW~~F~~~v 570 (609)
++.|+ -|-|.+.+--+|.||..+|.++|++.... .=+|++-.+|.+ -..-|-++ ++..+|+
T Consensus 19 Y~GG~--tr~i~V~r~~s~~el~~kl~~~~~~~~~~--~lky~Lp~edld-~Lisv~~D--eDl~~M~ 79 (97)
T cd06410 19 YVGGE--TRIVSVDRSISFKELVSKLSELFGAGVVV--TLKYQLPDEDLD-ALISVSND--EDLKNMM 79 (97)
T ss_pred EcCCc--eEEEEEcCCCCHHHHHHHHHHHhCCCCce--EEEEEcCCCCcc-eeEEecCc--HHHHHHH
Confidence 45553 45566666679999999999999886531 113444444443 25555555 4555544
Done!