Query 003544
Match_columns 811
No_of_seqs 348 out of 838
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 01:26:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003544.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003544hhsearch_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 2.2E-35 4.8E-40 261.5 8.4 83 253-336 1-83 (83)
2 PF02309 AUX_IAA: AUX/IAA fami 100.0 3.4E-35 7.3E-40 299.0 0.0 95 689-783 107-215 (215)
3 PF02362 B3: B3 DNA binding do 99.7 2E-16 4.3E-21 140.8 11.3 97 127-228 1-99 (100)
4 KOG0644 Uncharacterized conser 99.3 1.3E-12 2.8E-17 151.4 6.2 148 205-361 874-1044(1113)
5 PF09217 EcoRII-N: Restriction 98.5 7.1E-07 1.5E-11 87.9 10.2 90 124-214 7-110 (156)
6 PF03754 DUF313: Domain of unk 97.7 9.8E-05 2.1E-09 70.2 6.7 81 121-202 18-114 (114)
7 PF00564 PB1: PB1 domain; Int 97.0 0.0021 4.7E-08 55.9 6.7 67 693-766 3-70 (84)
8 smart00666 PB1 PB1 domain. Pho 96.3 0.015 3.2E-07 50.6 7.2 65 694-766 4-69 (81)
9 cd05992 PB1 The PB1 domain is 95.8 0.037 8.1E-07 47.9 7.5 65 694-766 3-69 (81)
10 cd06407 PB1_NLP A PB1 domain i 95.5 0.042 9.1E-07 49.5 6.7 61 693-760 2-63 (82)
11 cd06396 PB1_NBR1 The PB1 domai 95.1 0.06 1.3E-06 48.8 6.4 53 693-754 2-55 (81)
12 cd06409 PB1_MUG70 The MUG70 pr 94.9 0.049 1.1E-06 49.8 5.4 49 702-754 9-59 (86)
13 cd06398 PB1_Joka2 The PB1 doma 94.9 0.081 1.8E-06 48.7 6.8 64 694-765 3-70 (91)
14 cd06403 PB1_Par6 The PB1 domai 91.5 0.44 9.6E-06 43.2 5.7 66 694-766 3-70 (80)
15 cd06404 PB1_aPKC PB1 domain is 91.2 0.5 1.1E-05 43.2 5.8 54 693-754 2-56 (83)
16 cd06401 PB1_TFG The PB1 domain 88.8 1.2 2.7E-05 40.5 6.2 58 694-756 3-61 (81)
17 cd06397 PB1_UP1 Uncharacterize 88.7 1.1 2.4E-05 40.8 5.9 66 694-767 3-69 (82)
18 cd06402 PB1_p62 The PB1 domain 86.5 2.3 5E-05 39.2 6.7 57 693-755 2-64 (87)
19 cd06408 PB1_NoxR The PB1 domai 85.9 2.3 5E-05 39.2 6.4 56 691-756 2-57 (86)
20 cd06399 PB1_P40 The PB1 domain 69.6 6.7 0.00015 36.5 4.1 53 707-785 23-75 (92)
21 KOG0644 Uncharacterized conser 59.4 7.2 0.00016 48.3 3.0 66 34-101 872-939 (1113)
22 PRK10737 FKBP-type peptidyl-pr 58.0 29 0.00063 36.4 6.8 103 205-321 3-114 (196)
23 smart00743 Agenet Tudor-like d 45.6 31 0.00067 28.7 3.9 28 291-321 2-29 (61)
24 PF04014 Antitoxin-MazE: Antid 42.1 30 0.00065 27.8 3.1 37 185-224 4-40 (47)
25 PF00788 RA: Ras association ( 41.6 85 0.0018 27.4 6.3 68 692-764 3-77 (93)
26 KOG3207 Beta-tubulin folding c 39.8 34 0.00074 40.2 4.3 43 292-348 3-45 (505)
27 TIGR01439 lp_hng_hel_AbrB loop 31.5 56 0.0012 25.0 3.1 26 198-223 14-39 (43)
28 PF10844 DUF2577: Protein of u 29.2 70 0.0015 29.9 3.8 28 199-226 71-98 (100)
29 PF01878 EVE: EVE domain; Int 27.9 57 0.0012 31.6 3.2 26 203-228 38-64 (143)
30 smart00333 TUDOR Tudor domain. 27.0 99 0.0021 24.9 3.9 52 291-359 2-53 (57)
31 PF10411 DsbC_N: Disulfide bon 24.5 55 0.0012 27.6 2.1 17 740-756 34-50 (57)
32 PF02513 Spin-Ssty: Spin/Ssty 23.7 1.3E+02 0.0028 25.5 4.0 31 294-324 1-31 (50)
33 PF05641 Agenet: Agenet domain 23.0 1.5E+02 0.0031 25.7 4.4 42 292-343 1-42 (68)
34 COG1047 SlpA FKBP-type peptidy 21.3 4.9E+02 0.011 27.2 8.5 105 204-321 2-115 (174)
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=2.2e-35 Score=261.47 Aligned_cols=83 Identities=65% Similarity=1.048 Sum_probs=81.2
Q ss_pred HHHHHhcCCeEEEEEecCCCCCcceechhHHHHhhhcCCCccccEEEEeeeccccccceeeEEEEEeccCCCCCCCCCCc
Q 003544 253 AAHAAATNSCFTVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHW 332 (811)
Q Consensus 253 A~~aa~~~~~F~V~Y~Pras~sEFVVp~~ky~~a~~~~~w~~GmRFkM~fe~Eds~~~r~~GTI~gi~d~Dp~rWp~S~W 332 (811)
|+|||+++++|+|+||||++++|||||++||++|++ ++|++||||||+||+||+++++|+|||+||+|+||+|||+|+|
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 AAHAAATGSPFEVFYYPRASPSEFVVPASKYDKALN-HPWSVGMRFKMRFETEDSSERRWQGTIVGVSDLDPIRWPGSKW 79 (83)
T ss_pred ChhHhhcCCeEEEEECCCCCCcceEEEHHHHHHHhc-CCCCCCcEEEEEeccCCCccceeeeEEeEeeccCCCCCCCCCc
Confidence 689999999999999999999999999999999998 7999999999999999999999999999999999999999999
Q ss_pred ccee
Q 003544 333 RSVK 336 (811)
Q Consensus 333 R~Lk 336 (811)
||||
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=100.00 E-value=3.4e-35 Score=298.96 Aligned_cols=95 Identities=38% Similarity=0.712 Sum_probs=0.0
Q ss_pred CcceeEEEeecc-ccceeeccCCCCChHHHHHHHHHhh---cCc----------cccCCCCCCCcEEEEEcCCCceEecC
Q 003544 689 PTRTFVKVYKSG-SVGRSLDISRFSSYNELREELGQMF---GIE----------GKFEDPLRSGWQLVFVDRENDVLLLG 754 (811)
Q Consensus 689 ~~~~~vKV~m~G-~igRkvDL~~~~sY~eL~~~L~~MF---~~~----------g~L~d~~~s~~~lvY~D~EGD~mLvG 754 (811)
..++||||+||| +|||||||++|+||++|+.+|++|| +|+ +.+....+++|+|||+|+||||||||
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 468999999999 8999999999999999999999999 665 33444457799999999999999999
Q ss_pred CcchhHHhhceeEEEEeChhhhhcccccc
Q 003544 755 DDPWEAFVSNVWYIKILSPEDVQKMGEQG 783 (811)
Q Consensus 755 D~PWe~F~~~vkri~I~~~~ev~~m~~~~ 783 (811)
||||+|||++||||+||+.+|+++|++++
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 99999999999999999999999999874
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=99.68 E-value=2e-16 Score=140.80 Aligned_cols=97 Identities=28% Similarity=0.406 Sum_probs=75.0
Q ss_pred EEEecCcCCCCCCCceeechhhHhhhCCCCCCCCCCCCcEEEEEecCCCeEEEEEEEeCCCCceeecccchhhhcccCCC
Q 003544 127 FCKTLTASDTSTHGGFSVPRRAAEKVFPSLDFSLQPPAQELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLV 206 (811)
Q Consensus 127 F~K~LT~SDv~~~grfsVPk~~Ae~~fP~Ld~~~~~p~q~L~~~Dl~G~~W~FR~~yrg~prrhlLTtGWs~FV~~K~L~ 206 (811)
|.|+|+++|+...+++.||++.|+.+. +. ...++.+.++|..|+.|.+++.|++.+++++|++||..||++++|+
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 899999999999999999999999982 11 1236789999999999999999999988999999999999999999
Q ss_pred CCCEEEEEEcc--CCcEEEEEEec
Q 003544 207 AGDSVLFIWNE--KNQLLLGIRRA 228 (811)
Q Consensus 207 aGD~VvF~R~~--~g~L~VGiRRa 228 (811)
+||.++|...+ ..++.|.|.|+
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 99999999865 45669999986
No 4
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=99.32 E-value=1.3e-12 Score=151.44 Aligned_cols=148 Identities=20% Similarity=0.346 Sum_probs=119.1
Q ss_pred CCCCCEEEEEEccCCcEEEEEEecCCCCCC---------------------CCCccccCCcccccHHHHHHHHHhcCCeE
Q 003544 205 LVAGDSVLFIWNEKNQLLLGIRRAIRPPTV---------------------MPSSVLSSDSMHIGLLAAAAHAAATNSCF 263 (811)
Q Consensus 205 L~aGD~VvF~R~~~g~L~VGiRRa~r~~~~---------------------~pssv~s~~sm~~gvla~A~~aa~~~~~F 263 (811)
.+.||.|+.+|.+..++.=.+|+..+.-++ .|.+.-+.=.|.+.|+--|.++ -+..|
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 458999999998665555555555443221 1333344446888888777755 56789
Q ss_pred EEEEecCCCCCcceechhHHHHhhhcCCCccccEEEEee--eccccccceeeEEEEEeccCCCCCCCCCCccceeeccCC
Q 003544 264 TVFFNPRASPSEFVIPLTKYVKAVFHTRVSVGMRFRMLF--ETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDE 341 (811)
Q Consensus 264 ~V~Y~Pras~sEFVVp~~ky~~a~~~~~w~~GmRFkM~f--e~Eds~~~r~~GTI~gi~d~Dp~rWp~S~WR~LkV~WDe 341 (811)
.+.|......++|+|.+..|..|+. .+|.+|.+||.-+ ++||. -+||.|+|.++.+..| .+|+|+|.|+.|+||.
T Consensus 952 ~ltlpdlv~fpDFlV~rsrYd~AiQ-rnW~~~d~crvwwrda~~e~-g~WWeG~ils~~pksp-~fpdSpwery~v~~~~ 1028 (1113)
T KOG0644|consen 952 KLTLPDLVTFPDFLVERSRYDAAIQ-RNWTCRDKCRVWWRDAGEED-GAWWEGRILSVKPKSP-DFPDSPWERYIVRYDN 1028 (1113)
T ss_pred eeecccccCcchhhhhhhhHHHHHh-hccccccceeEEEccCCCcC-CceeeeeeeeccCCCC-CCCCCcceeEEEEecC
Confidence 9999999999999999999999997 5999999999988 33332 3799999999999888 8999999999999999
Q ss_pred CCCCCCCCCcccccceeCCC
Q 003544 342 STAGERQPRVSLWEIEPLTT 361 (811)
Q Consensus 342 ~~~~~~~~RVSPWeIEpv~~ 361 (811)
.+. +.-||||.|++..
T Consensus 1029 ~e~----~~~spwe~~~i~d 1044 (1113)
T KOG0644|consen 1029 TET----ELHSPWEMEPIPD 1044 (1113)
T ss_pred Ccc----cccCccccCCCcc
Confidence 986 7789999999976
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=98.49 E-value=7.1e-07 Score=87.92 Aligned_cols=90 Identities=26% Similarity=0.392 Sum_probs=60.8
Q ss_pred ceeEEEecCcCCCCCCC----ceeechhhHhhhCCCCCC-CCCCCCcEEEEEecCC--CeEEEEEEEeCC------CCce
Q 003544 124 TNYFCKTLTASDTSTHG----GFSVPRRAAEKVFPSLDF-SLQPPAQELIARDLHD--VEWKFRHIFRGQ------PKRH 190 (811)
Q Consensus 124 ~~~F~K~LT~SDv~~~g----rfsVPk~~Ae~~fP~Ld~-~~~~p~q~L~~~Dl~G--~~W~FR~~yrg~------prrh 190 (811)
...|+|.|++.|++..| |+.|||..++..||.|.. +..+|...|.+++..+ ..|+||+||.|+ +..|
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 46799999999999885 799999999999998766 6778999999999988 479999999987 6779
Q ss_pred eecccchhhhcccC-CCCCCEEEEE
Q 003544 191 LLTTGWSVFVSAKR-LVAGDSVLFI 214 (811)
Q Consensus 191 lLTtGWs~FV~~K~-L~aGD~VvF~ 214 (811)
.|| .|...-.--+ =..||.+||-
T Consensus 87 RIT-~~G~~~~~~~~~~tGaL~vla 110 (156)
T PF09217_consen 87 RIT-RFGRGFPLQNPENTGALLVLA 110 (156)
T ss_dssp EEE----TTSGGG-GGGTT-EEEEE
T ss_pred EEe-eecCCCccCCccccccEEEEE
Confidence 996 3433222111 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=97.66 E-value=9.8e-05 Score=70.18 Aligned_cols=81 Identities=22% Similarity=0.267 Sum_probs=62.9
Q ss_pred CCCceeEEEecCcCCCCCC-CceeechhhHhhhCCCCCC------------CCCCCCcEEEEEecCCCeEEEEEEEeCC-
Q 003544 121 KQPTNYFCKTLTASDTSTH-GGFSVPRRAAEKVFPSLDF------------SLQPPAQELIARDLHDVEWKFRHIFRGQ- 186 (811)
Q Consensus 121 ~~~~~~F~K~LT~SDv~~~-grfsVPk~~Ae~~fP~Ld~------------~~~~p~q~L~~~Dl~G~~W~FR~~yrg~- 186 (811)
..+...++|+|++||+..+ .||+||-..... ...|.. ....-+..+.+.|..++.|.-++..|..
T Consensus 18 ~d~kli~~K~L~~tDv~~~qsRLsmP~~qi~~-~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg 96 (114)
T PF03754_consen 18 EDPKLIIEKTLFKTDVDPHQSRLSMPFNQIID-NDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMG 96 (114)
T ss_pred CCCeEEEeeeecccCCCCCCceeeccHHHhcc-cccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEeccc
Confidence 4557899999999999885 899999875522 122311 1234578999999999999999999954
Q ss_pred --CCceeecccchhhhcc
Q 003544 187 --PKRHLLTTGWSVFVSA 202 (811)
Q Consensus 187 --prrhlLTtGWs~FV~~ 202 (811)
.-.|+|++||..+|+.
T Consensus 97 ~~~~~YvL~~gWn~VV~~ 114 (114)
T PF03754_consen 97 NGTSNYVLNSGWNKVVED 114 (114)
T ss_pred CCceEEEEEcChHhhccC
Confidence 5679999999999863
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=96.97 E-value=0.0021 Score=55.92 Aligned_cols=67 Identities=22% Similarity=0.441 Sum_probs=56.3
Q ss_pred eEEEeeccccceeeccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecCCc-chhHHhhcee
Q 003544 693 FVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDD-PWEAFVSNVW 766 (811)
Q Consensus 693 ~vKV~m~G~igRkvDL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvGD~-PWe~F~~~vk 766 (811)
-+|++-.|.+=|.+.+..--+|++|...+++.|++. ...+.+.|.|.||||..+.++ =|++.++.++
T Consensus 3 ~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~-------~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~ 70 (84)
T PF00564_consen 3 RVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLL-------DEDFQLKYKDEDGDLVTISSDEDLQEAIEQAK 70 (84)
T ss_dssp EEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTS-------TSSEEEEEEETTSSEEEESSHHHHHHHHHHHH
T ss_pred EEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCC-------CccEEEEeeCCCCCEEEeCCHHHHHHHHHHHH
Confidence 479999886666788888889999999999999986 247999999999999888754 4888887775
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=96.29 E-value=0.015 Score=50.64 Aligned_cols=65 Identities=26% Similarity=0.494 Sum_probs=51.8
Q ss_pred EEEeeccccceeeccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEec-CCcchhHHhhcee
Q 003544 694 VKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLL-GDDPWEAFVSNVW 766 (811)
Q Consensus 694 vKV~m~G~igRkvDL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLv-GD~PWe~F~~~vk 766 (811)
+||+- |.--|.+-+..--+|++|+.++.+.|++.. ..+.|-|+|.||||..+ .|.=|++.+.+++
T Consensus 4 vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~-------~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 4 VKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDN-------QSFTLKYQDEDGDLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCC-------CCeEEEEECCCCCEEEecCHHHHHHHHHHHH
Confidence 67776 445677778888999999999999999743 46999999999998755 4567777777665
No 9
>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=95.82 E-value=0.037 Score=47.85 Aligned_cols=65 Identities=23% Similarity=0.516 Sum_probs=50.3
Q ss_pred EEEeeccccceeeccC-CCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecCC-cchhHHhhcee
Q 003544 694 VKVYKSGSVGRSLDIS-RFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGD-DPWEAFVSNVW 766 (811)
Q Consensus 694 vKV~m~G~igRkvDL~-~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvGD-~PWe~F~~~vk 766 (811)
+||+-.|.+ |.+-+. .--+|++|.+.|.+.|++.. ..+.+.|.|.||||..+.+ .=|++.++.++
T Consensus 3 vK~~~~~~~-~~~~~~~~~~s~~~L~~~i~~~~~~~~-------~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~ 69 (81)
T cd05992 3 VKVKYGGEI-RRFVVVSRSISFEDLRSKIAEKFGLDA-------VSFKLKYPDEDGDLVTISSDEDLEEAIEEAR 69 (81)
T ss_pred EEEEecCCC-EEEEEecCCCCHHHHHHHHHHHhCCCC-------CcEEEEeeCCCCCEEEeCCHHHHHHHHHHHh
Confidence 677777732 333333 78899999999999999853 3689999999999998877 66777666655
No 10
>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=95.50 E-value=0.042 Score=49.54 Aligned_cols=61 Identities=21% Similarity=0.367 Sum_probs=45.1
Q ss_pred eEEEeeccccceeeccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEec-CCcchhH
Q 003544 693 FVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLL-GDDPWEA 760 (811)
Q Consensus 693 ~vKV~m~G~igRkvDL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLv-GD~PWe~ 760 (811)
-|||.-.|. -+.+-|..--+|++|.+++.++|++.. .+.+.|-|.|.||||.++ .|.=.++
T Consensus 2 ~vK~~~~~d-~~r~~l~~~~~~~~L~~~i~~r~~~~~------~~~f~LkY~Ddegd~v~ltsd~DL~e 63 (82)
T cd06407 2 RVKATYGEE-KIRFRLPPSWGFTELKQEIAKRFKLDD------MSAFDLKYLDDDEEWVLLTCDADLEE 63 (82)
T ss_pred EEEEEeCCe-EEEEEcCCCCCHHHHHHHHHHHhCCCC------CCeeEEEEECCCCCeEEeecHHHHHH
Confidence 378888774 233445555599999999999999842 257999999999999865 3433444
No 11
>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=0.06 Score=48.78 Aligned_cols=53 Identities=23% Similarity=0.320 Sum_probs=44.0
Q ss_pred eEEEeecc-ccceeeccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecC
Q 003544 693 FVKVYKSG-SVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLG 754 (811)
Q Consensus 693 ~vKV~m~G-~igRkvDL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvG 754 (811)
-+||.--| .+--+++-+.--+|.+|..++.++|++. .+.|-|.|.||||.++-
T Consensus 2 ~vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~---------~f~lKYlDde~e~v~ls 55 (81)
T cd06396 2 NLKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN---------DIQIKYVDEENEEVSVN 55 (81)
T ss_pred EEEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC---------cceeEEEcCCCCEEEEE
Confidence 37888888 4555666666779999999999999996 48999999999998763
No 12
>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=94.92 E-value=0.049 Score=49.84 Aligned_cols=49 Identities=29% Similarity=0.388 Sum_probs=38.6
Q ss_pred cceee--ccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecC
Q 003544 702 VGRSL--DISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLG 754 (811)
Q Consensus 702 igRkv--DL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvG 754 (811)
-||.+ -+....|+.+|+.+..+-|+++... ...++|-|.|.||||.|+-
T Consensus 9 ~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~----~~~~~L~YlDDEgD~VllT 59 (86)
T cd06409 9 KGRVHRFRLRPSESLEELRTLISQRLGDDDFE----THLYALSYVDDEGDIVLIT 59 (86)
T ss_pred CCCEEEEEecCCCCHHHHHHHHHHHhCCcccc----CCcccEEEEcCCCCEEEEe
Confidence 45443 3444789999999999999987542 3579999999999998764
No 13
>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=94.91 E-value=0.081 Score=48.68 Aligned_cols=64 Identities=23% Similarity=0.410 Sum_probs=47.4
Q ss_pred EEEeeccc-cceeeccC---CCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecCCcchhHHhhce
Q 003544 694 VKVYKSGS-VGRSLDIS---RFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDDPWEAFVSNV 765 (811)
Q Consensus 694 vKV~m~G~-igRkvDL~---~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvGD~PWe~F~~~v 765 (811)
|||.-+|. .=-++++. .--+|++|.+++++.|.+.. ..+++|.|.|.||||..+-++ +++..++
T Consensus 3 vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~------~~~~~l~Y~Dedgd~V~l~~D--~DL~~a~ 70 (91)
T cd06398 3 VKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSP------DADLSLTYTDEDGDVVTLVDD--NDLTDAI 70 (91)
T ss_pred EEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCC------CCcEEEEEECCCCCEEEEccH--HHHHHHH
Confidence 78888884 33344443 45799999999999998742 358999999999999988665 3444443
No 14
>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=91.53 E-value=0.44 Score=43.21 Aligned_cols=66 Identities=21% Similarity=0.308 Sum_probs=49.2
Q ss_pred EEEeeccccce-eeccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecC-CcchhHHhhcee
Q 003544 694 VKVYKSGSVGR-SLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLG-DDPWEAFVSNVW 766 (811)
Q Consensus 694 vKV~m~G~igR-kvDL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvG-D~PWe~F~~~vk 766 (811)
||.+-++.+=| ++|-....+|+++..-|++|+.+.+ ..+.|-|+|.+||.+-+- |+-...-+++++
T Consensus 3 VKSkfdaEfRRFsl~r~~~~~f~ef~~ll~~lH~l~~-------~~f~i~Y~D~~gDLLPInNDdNf~kAlssa~ 70 (80)
T cd06403 3 VKSKFDAEFRRFSLDRNKPGKFEDFYKLLEHLHHIPN-------VDFLIGYTDPHGDLLPINNDDNFLKALSSAN 70 (80)
T ss_pred eecccCCeEEEEEeccccCcCHHHHHHHHHHHhCCCC-------CcEEEEEeCCCCCEecccCcHHHHHHHHcCC
Confidence 55555554333 6777778999999999999999964 369999999999999764 555555555554
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=91.22 E-value=0.5 Score=43.19 Aligned_cols=54 Identities=26% Similarity=0.282 Sum_probs=42.5
Q ss_pred eEEEeeccc-cceeeccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecC
Q 003544 693 FVKVYKSGS-VGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLG 754 (811)
Q Consensus 693 ~vKV~m~G~-igRkvDL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvG 754 (811)
-+|++-.|. +--.+|. .-+|++|.+++.+||.+. .+..+++.|.|.|||---+.
T Consensus 2 ~~K~~y~gdi~it~~d~--~~s~e~L~~~v~~~c~~~------~~q~ft~kw~DEEGDp~tiS 56 (83)
T cd06404 2 RVKAAYNGDIMITSIDP--SISLEELCNEVRDMCRFH------NDQPFTLKWIDEEGDPCTIS 56 (83)
T ss_pred eEEEEecCcEEEEEcCC--CcCHHHHHHHHHHHhCCC------CCCcEEEEEECCCCCceeec
Confidence 378999994 4445555 678999999999999983 23479999999999975543
No 16
>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=88.79 E-value=1.2 Score=40.55 Aligned_cols=58 Identities=17% Similarity=0.287 Sum_probs=42.5
Q ss_pred EEEeeccccceeeccCCCC-ChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecCCc
Q 003544 694 VKVYKSGSVGRSLDISRFS-SYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDD 756 (811)
Q Consensus 694 vKV~m~G~igRkvDL~~~~-sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvGD~ 756 (811)
+|+.-.|.|=| +-+..-. +|.+|+..+.+.|... + |......+-|.|.|||+.-+.+.
T Consensus 3 iK~~~g~DiR~-~~~~~~~~t~~~L~~~v~~~F~~~--~--~~~~~flIKYkD~dGDlVTIts~ 61 (81)
T cd06401 3 LKAQLGDDIRR-IPIHNEDITYDELLLMMQRVFRGK--L--GSSDDVLIKYKDEDGDLITIFDS 61 (81)
T ss_pred EEEEeCCeEEE-EeccCccccHHHHHHHHHHHhccc--c--CCcccEEEEEECCCCCEEEeccH
Confidence 56666555544 4333322 9999999999999953 1 23347999999999999998875
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=88.69 E-value=1.1 Score=40.82 Aligned_cols=66 Identities=15% Similarity=0.273 Sum_probs=49.4
Q ss_pred EEEeeccccceeeccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceE-ecCCcchhHHhhceeE
Q 003544 694 VKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVL-LLGDDPWEAFVSNVWY 767 (811)
Q Consensus 694 vKV~m~G~igRkvDL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~m-LvGD~PWe~F~~~vkr 767 (811)
-||+-.| -.|++....-=+|.+|++.|+.+|.+.- . ...|+|.|.|||.. |+-|+=-++|.+-..+
T Consensus 3 fKv~~~g-~~RRf~~~~~pt~~~L~~kl~~Lf~lp~------~-~~~vtYiDeD~D~ITlssd~eL~d~~~~~~~ 69 (82)
T cd06397 3 FKSSFLG-DTRRIVFPDIPTWEALASKLENLYNLPE------I-KVGVTYIDNDNDEITLSSNKELQDFYRLSHR 69 (82)
T ss_pred EEEEeCC-ceEEEecCCCccHHHHHHHHHHHhCCCh------h-HeEEEEEcCCCCEEEecchHHHHHHHHhccc
Confidence 3775445 5677778888899999999999999842 2 38999999999976 4555566666664444
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=86.54 E-value=2.3 Score=39.21 Aligned_cols=57 Identities=28% Similarity=0.448 Sum_probs=42.4
Q ss_pred eEEEeecc----c-cce-eeccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecCC
Q 003544 693 FVKVYKSG----S-VGR-SLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGD 755 (811)
Q Consensus 693 ~vKV~m~G----~-igR-kvDL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvGD 755 (811)
.||.+..| + |=| +||-....+|++|++.+.++|..- . +..+++.|.|.|||..-+..
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~l---~---~~~ftlky~DeeGDlvtIss 64 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPSL---R---GKNFQLFWKDEEGDLVAFSS 64 (87)
T ss_pred eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHcccc---C---CCcEEEEEECCCCCEEeecC
Confidence 68888877 2 322 455577779999999999999642 1 24799999999999865543
No 19
>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=85.89 E-value=2.3 Score=39.16 Aligned_cols=56 Identities=20% Similarity=0.409 Sum_probs=45.3
Q ss_pred ceeEEEeeccccceeeccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecCCc
Q 003544 691 RTFVKVYKSGSVGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDD 756 (811)
Q Consensus 691 ~~~vKV~m~G~igRkvDL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvGD~ 756 (811)
+.-|||+-.|. -|-|-+..--+|++|.+++.++|++. ...+|-|.|. ||+.-++|.
T Consensus 2 ~ikVKv~~~~D-v~~i~v~~~i~f~dL~~kIrdkf~~~--------~~~~iKykDE-GD~iti~sq 57 (86)
T cd06408 2 KIRVKVHAQDD-TRYIMIGPDTGFADFEDKIRDKFGFK--------RRLKIKMKDD-GDMITMGDQ 57 (86)
T ss_pred cEEEEEEecCc-EEEEEcCCCCCHHHHHHHHHHHhCCC--------CceEEEEEcC-CCCccccCH
Confidence 45689998885 45566666667999999999999984 2689999999 999887764
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=69.62 E-value=6.7 Score=36.50 Aligned_cols=53 Identities=34% Similarity=0.377 Sum_probs=44.7
Q ss_pred ccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEEEEcCCCceEecCCcchhHHhhceeEEEEeChhhhhcccccccc
Q 003544 707 DISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLVFVDRENDVLLLGDDPWEAFVSNVWYIKILSPEDVQKMGEQGVE 785 (811)
Q Consensus 707 DL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lvY~D~EGD~mLvGD~PWe~F~~~vkri~I~~~~ev~~m~~~~~~ 785 (811)
||+.--.|.+|..-..+-|..+ +=.|-|.|.|||. |+||+.+++.-|..++..
T Consensus 23 ~l~~~P~~kdLl~lmr~~f~~~---------dIaLNYrD~EGDL-----------------IRllddeDv~LMV~~~r~ 75 (92)
T cd06399 23 DLSSTPLLKDLLELTRREFQRE---------DIALNYRDAEGDL-----------------IRLLSDEDVALMVRQSRG 75 (92)
T ss_pred ccccCccHHHHHHHHHHHhchh---------heeeeeecCCCCE-----------------EEEcchhhHHHHHHHHhc
Confidence 6778889999999998888864 3589999999996 799999999999777643
No 21
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=59.40 E-value=7.2 Score=48.27 Aligned_cols=66 Identities=24% Similarity=0.442 Sum_probs=42.0
Q ss_pred CCCCCCCEEEEecCchhhhhhcccccccc--ccCCCCCCCCCcceeEEeeeeecccCCCcceeeeeeeee
Q 003544 34 SLPTVGTRVVYFPQGHSEQVAATTNKEVD--SHIPNYPNLPPQLICQLHNVTMHADVETDEVYAQMTLQP 101 (811)
Q Consensus 34 ~lP~~gs~V~YFPqGH~Eq~~~s~~~~~~--~~~p~~~~lP~~i~C~V~~V~l~Ad~~TDEVyAqi~L~P 101 (811)
-||..|+.|.||-|||-|-+.+..--+.+ ...|- ++-..=.|.|..+..---+-...--.+|+|.=
T Consensus 872 yipQmgDEViyfrQghqeyl~~~~~n~~~~~~~~p~--~~~~v~~~kv~kl~~~~y~~~~~s~c~m~l~~ 939 (1113)
T KOG0644|consen 872 YIPQMGDEVIYFRQGHQEYLEAVRLNNIELNNKEPW--NKMAVEICKVEKLVYITYPGSGDSCCKMKLAV 939 (1113)
T ss_pred ccccccceeehhhhhhHHHHhhhhhccccccccCcc--cccchhhheeeeeeeeeccCCCcchheeeeee
Confidence 58999999999999999999886422222 11221 33334568887776555555555555555543
No 22
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=58.01 E-value=29 Score=36.43 Aligned_cols=103 Identities=21% Similarity=0.223 Sum_probs=63.4
Q ss_pred CCCCCEEEE-E--EccCCcEEEEEEecCCCCCCCCCccccCCcccccHHHHHHHHHhcCCeEEEEEecCCC------CCc
Q 003544 205 LVAGDSVLF-I--WNEKNQLLLGIRRAIRPPTVMPSSVLSSDSMHIGLLAAAAHAAATNSCFTVFFNPRAS------PSE 275 (811)
Q Consensus 205 L~aGD~VvF-~--R~~~g~L~VGiRRa~r~~~~~pssv~s~~sm~~gvla~A~~aa~~~~~F~V~Y~Pras------~sE 275 (811)
+..|+.|.+ | |.++|+++---+ ...|...+-....-+--|-+|..-.+.|..|+|..-|-.. -.-
T Consensus 3 I~~~~vV~l~Y~l~~~dG~v~dst~------~~~Pl~~~~G~g~lipglE~aL~G~~~Gd~~~v~l~peeAyGe~d~~lV 76 (196)
T PRK10737 3 VAKDLVVSLAYQVRTEDGVLVDESP------VSAPLDYLHGHGSLISGLETALEGHEVGDKFDVAVGANDAYGQYDENLV 76 (196)
T ss_pred cCCCCEEEEEEEEEeCCCCEEEecC------CCCCeEEEeCCCcchHHHHHHHcCCCCCCEEEEEEChHHhcCCCChHHE
Confidence 456777776 3 346777643221 1235554443333333466777788888899998655432 234
Q ss_pred ceechhHHHHhhhcCCCccccEEEEeeeccccccceeeEEEEEecc
Q 003544 276 FVIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISD 321 (811)
Q Consensus 276 FVVp~~ky~~a~~~~~w~~GmRFkM~fe~Eds~~~r~~GTI~gi~d 321 (811)
..||++.|.. . ....+||||.+ ++++. .+.++|+.|.+
T Consensus 77 ~~vpr~~F~~-~--~~l~~G~~~~~--~~~~G---~~~~~V~ev~~ 114 (196)
T PRK10737 77 QRVPKDVFMG-V--DELQVGMRFLA--ETDQG---PVPVEITAVED 114 (196)
T ss_pred EEecHHHCCC-c--cCCCCCCEEEE--eCCCC---cEEEEEEEEcC
Confidence 5778776532 2 24789999886 45553 46889999975
No 23
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=45.60 E-value=31 Score=28.65 Aligned_cols=28 Identities=14% Similarity=0.259 Sum_probs=24.0
Q ss_pred CCccccEEEEeeeccccccceeeEEEEEecc
Q 003544 291 RVSVGMRFRMLFETEESSVRRYMGTITGISD 321 (811)
Q Consensus 291 ~w~~GmRFkM~fe~Eds~~~r~~GTI~gi~d 321 (811)
.|.+|+++-..++.++ .||.|+|+.+..
T Consensus 2 ~~~~G~~Ve~~~~~~~---~W~~a~V~~~~~ 29 (61)
T smart00743 2 DFKKGDRVEVFSKEED---SWWEAVVTKVLG 29 (61)
T ss_pred CcCCCCEEEEEECCCC---EEEEEEEEEECC
Confidence 5889999999997544 799999999964
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=42.08 E-value=30 Score=27.76 Aligned_cols=37 Identities=14% Similarity=0.190 Sum_probs=27.0
Q ss_pred CCCCceeecccchhhhcccCCCCCCEEEEEEccCCcEEEE
Q 003544 185 GQPKRHLLTTGWSVFVSAKRLVAGDSVLFIWNEKNQLLLG 224 (811)
Q Consensus 185 g~prrhlLTtGWs~FV~~K~L~aGD~VvF~R~~~g~L~VG 224 (811)
|++..-.|-. .|.++.+|.+||.|.|.-.++|++.|-
T Consensus 4 g~s~~v~iPk---~~~~~l~l~~Gd~v~i~~~~~g~i~i~ 40 (47)
T PF04014_consen 4 GNSGQVTIPK---EIREKLGLKPGDEVEIEVEGDGKIVIR 40 (47)
T ss_dssp TTCSEEEE-H---HHHHHTTSSTTTEEEEEEETTSEEEEE
T ss_pred CCCceEECCH---HHHHHcCCCCCCEEEEEEeCCCEEEEE
Confidence 4444444443 567788999999999999998876654
No 25
>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=41.60 E-value=85 Score=27.36 Aligned_cols=68 Identities=18% Similarity=0.227 Sum_probs=49.0
Q ss_pred eeEEEeeccc----cceeeccCCCCChHHHHHHHHHhhcCccccCCCCCCCcEEE-EEc-CCCceEec-CCcchhHHhhc
Q 003544 692 TFVKVYKSGS----VGRSLDISRFSSYNELREELGQMFGIEGKFEDPLRSGWQLV-FVD-RENDVLLL-GDDPWEAFVSN 764 (811)
Q Consensus 692 ~~vKV~m~G~----igRkvDL~~~~sY~eL~~~L~~MF~~~g~L~d~~~s~~~lv-Y~D-~EGD~mLv-GD~PWe~F~~~ 764 (811)
.++||+.... .-++|-++....-.|++..+.+.|++.+ ...+|.|+ +.- ......|- .+.|+..+...
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~-----~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~ 77 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAE-----DPSDYCLVEVEESGGEERPLDDDECPLQIQLQW 77 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSS-----SGGGEEEEEEECTTTEEEEETTTSBHHHHHHTT
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCC-----CCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhC
Confidence 5899999763 2799999999999999999999999932 24579995 444 44444443 34566655543
No 26
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=39.85 E-value=34 Score=40.21 Aligned_cols=43 Identities=28% Similarity=0.687 Sum_probs=29.4
Q ss_pred CccccEEEEeeeccccccceeeEEEEEeccCCCCCCCCCCccceeeccCCCCCCCCC
Q 003544 292 VSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQ 348 (811)
Q Consensus 292 w~~GmRFkM~fe~Eds~~~r~~GTI~gi~d~Dp~rWp~S~WR~LkV~WDe~~~~~~~ 348 (811)
..+|.|+|..+|- ...||.|+|.| |++ +| +.|.||++.-+.+.
T Consensus 3 ~~IG~RvkI~~~~---~Tvr~iG~V~g--------~~~-~w--~GvEWDd~~RGKH~ 45 (505)
T KOG3207|consen 3 MEIGTRVKIGGEI---ATVRYIGEVEG--------NNS-KW--YGVEWDDPVRGKHD 45 (505)
T ss_pred eeccceEEEcCEE---EEEEEEEEEcC--------CCC-cc--eeeEecCCCccccC
Confidence 5789999987642 22466666644 444 34 78999999887654
No 27
>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=31.48 E-value=56 Score=24.96 Aligned_cols=26 Identities=23% Similarity=0.288 Sum_probs=22.5
Q ss_pred hhhcccCCCCCCEEEEEEccCCcEEE
Q 003544 198 VFVSAKRLVAGDSVLFIWNEKNQLLL 223 (811)
Q Consensus 198 ~FV~~K~L~aGD~VvF~R~~~g~L~V 223 (811)
.|.+.-++..||.|.+...++|.|.+
T Consensus 14 ~~r~~l~~~~gd~~~i~~~~~~~l~l 39 (43)
T TIGR01439 14 EIREKLGLKEGDRLEVIRVEDGEIIL 39 (43)
T ss_pred HHHHHcCcCCCCEEEEEEeCCCEEEE
Confidence 68889999999999999887787665
No 28
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=29.17 E-value=70 Score=29.87 Aligned_cols=28 Identities=21% Similarity=0.289 Sum_probs=22.6
Q ss_pred hhcccCCCCCCEEEEEEccCCcEEEEEE
Q 003544 199 FVSAKRLVAGDSVLFIWNEKNQLLLGIR 226 (811)
Q Consensus 199 FV~~K~L~aGD~VvF~R~~~g~L~VGiR 226 (811)
|.-...|++||.|+.+|.+.|+-++=+-
T Consensus 71 i~~~~~Lk~GD~V~ll~~~~gQ~yiVlD 98 (100)
T PF10844_consen 71 ITFTDGLKVGDKVLLLRVQGGQKYIVLD 98 (100)
T ss_pred EEEecCCcCCCEEEEEEecCCCEEEEEE
Confidence 4456789999999999999888776543
No 29
>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=27.94 E-value=57 Score=31.56 Aligned_cols=26 Identities=31% Similarity=0.543 Sum_probs=18.0
Q ss_pred cCCCCCCEEEEEEcc-CCcEEEEEEec
Q 003544 203 KRLVAGDSVLFIWNE-KNQLLLGIRRA 228 (811)
Q Consensus 203 K~L~aGD~VvF~R~~-~g~L~VGiRRa 228 (811)
++++.||.|+||... .++-++|+=+-
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 599999999999987 67778887654
No 30
>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=26.98 E-value=99 Score=24.95 Aligned_cols=52 Identities=15% Similarity=0.214 Sum_probs=36.2
Q ss_pred CCccccEEEEeeeccccccceeeEEEEEeccCCCCCCCCCCccceeeccCCCCCCCCCCCcccccceeC
Q 003544 291 RVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDESTAGERQPRVSLWEIEPL 359 (811)
Q Consensus 291 ~w~~GmRFkM~fe~Eds~~~r~~GTI~gi~d~Dp~rWp~S~WR~LkV~WDe~~~~~~~~RVSPWeIEpv 359 (811)
.|.+|..+...+ .+. .||.|+|+++.. + ....|.-++-+.. +-|...+|-++
T Consensus 2 ~~~~G~~~~a~~-~d~---~wyra~I~~~~~-------~---~~~~V~f~D~G~~---~~v~~~~l~~l 53 (57)
T smart00333 2 TFKVGDKVAARW-EDG---EWYRARIIKVDG-------E---QLYEVFFIDYGNE---EVVPPSDLRPL 53 (57)
T ss_pred CCCCCCEEEEEe-CCC---CEEEEEEEEECC-------C---CEEEEEEECCCcc---EEEeHHHeecC
Confidence 588999999999 444 899999999974 1 4567777764432 44555555443
No 31
>PF10411 DsbC_N: Disulfide bond isomerase protein N-terminus; InterPro: IPR018950 This is the N-terminal domain of the disulphide bond isomerase DsbC. The whole molecule is V-shaped, where each arm is a DsbC monomer of two domains linked by a hinge; and the N-termini of each monomer join to form the dimer interface at the base of the V, so are vital for dimerisation []. DsbC is required for disulphide bond formation and functions as a disulphide bond isomerase during oxidative protein-folding in bacterial periplasm. It also has chaperone activity []. ; PDB: 1EEJ_B 2IYJ_A 1TJD_A 1JZD_B 1JZO_A 1G0T_B 1T3B_A.
Probab=24.55 E-value=55 Score=27.55 Aligned_cols=17 Identities=24% Similarity=0.542 Sum_probs=14.8
Q ss_pred EEEEEcCCCceEecCCc
Q 003544 740 QLVFVDRENDVLLLGDD 756 (811)
Q Consensus 740 ~lvY~D~EGD~mLvGD~ 756 (811)
.++|.|.+|+.+++|+.
T Consensus 34 ~i~Y~~~dg~yli~G~l 50 (57)
T PF10411_consen 34 GILYVDEDGRYLIQGQL 50 (57)
T ss_dssp EEEEEETTSSEEEES-E
T ss_pred eEEEEcCCCCEEEEeEE
Confidence 69999999999999974
No 32
>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=23.66 E-value=1.3e+02 Score=25.55 Aligned_cols=31 Identities=19% Similarity=0.370 Sum_probs=24.3
Q ss_pred cccEEEEeeeccccccceeeEEEEEeccCCC
Q 003544 294 VGMRFRMLFETEESSVRRYMGTITGISDLDP 324 (811)
Q Consensus 294 ~GmRFkM~fe~Eds~~~r~~GTI~gi~d~Dp 324 (811)
+|-|+.-.||.++.++..+.|+|..--+..|
T Consensus 1 vGk~Veh~~~~g~g~~s~w~G~Vl~Qvp~~p 31 (50)
T PF02513_consen 1 VGKRVEHTWEDGDGPKSKWKGMVLHQVPAKP 31 (50)
T ss_dssp TT-EEEEEECTSTS-EEEEEEEEEEE-TTST
T ss_pred CCceEEEEEccCCCcccEEEEEEEEEeecCC
Confidence 5889999999998888888999999887655
No 33
>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=23.04 E-value=1.5e+02 Score=25.68 Aligned_cols=42 Identities=12% Similarity=0.082 Sum_probs=26.7
Q ss_pred CccccEEEEeeeccccccceeeEEEEEeccCCCCCCCCCCccceeeccCCCC
Q 003544 292 VSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWSNSHWRSVKVGWDEST 343 (811)
Q Consensus 292 w~~GmRFkM~fe~Eds~~~r~~GTI~gi~d~Dp~rWp~S~WR~LkV~WDe~~ 343 (811)
|..|+++-..-+.+...-.||.|||+.....+ .+.|+.+.-.
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~~----------~~~V~Y~~~~ 42 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENGDD----------KYLVEYDDLP 42 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEETT-----------EEEEEETT-S
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCCCc----------EEEEEECCcc
Confidence 46789998877655555679999999997532 7788886544
No 34
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=21.27 E-value=4.9e+02 Score=27.22 Aligned_cols=105 Identities=20% Similarity=0.276 Sum_probs=65.6
Q ss_pred CCCCCCEEEE---EEccCCcEEEEEEecCCCCCCCCCccccCCcccccHHHHHHHHHhcCCeEEEEEecCCCCCcc----
Q 003544 204 RLVAGDSVLF---IWNEKNQLLLGIRRAIRPPTVMPSSVLSSDSMHIGLLAAAAHAAATNSCFTVFFNPRASPSEF---- 276 (811)
Q Consensus 204 ~L~aGD~VvF---~R~~~g~L~VGiRRa~r~~~~~pssv~s~~sm~~gvla~A~~aa~~~~~F~V~Y~Pras~sEF---- 276 (811)
++..||.|.+ .|.++|+++=--.- ..-|..++-.+..-+.-|-+|..-..-|..|+|.--|-..-.|+
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 4567888877 24456665422111 11244444444443444778888888999999998877544443
Q ss_pred --eechhHHHHhhhcCCCccccEEEEeeeccccccceeeEEEEEecc
Q 003544 277 --VIPLTKYVKAVFHTRVSVGMRFRMLFETEESSVRRYMGTITGISD 321 (811)
Q Consensus 277 --VVp~~ky~~a~~~~~w~~GmRFkM~fe~Eds~~~r~~GTI~gi~d 321 (811)
.||+++|.+. ....+||+|.. ++++ .-.-|+|+.|..
T Consensus 77 vq~vp~~~F~~~---~~~~vGm~~~~--~~~~---~~~~~~V~~V~~ 115 (174)
T COG1047 77 VQRVPRDEFQGV---GELEVGMEVEA--EGGD---GEIPGVVTEVSG 115 (174)
T ss_pred eEEecHHHhCcC---CCCCCCcEEEE--cCCC---ceeeEEEEEEcC
Confidence 4666665332 15899999875 5555 456899999974
Done!