Query 005368
Match_columns 699
No_of_seqs 353 out of 825
Neff 4.5
Searched_HMMs 46136
Date Thu Mar 28 22:21:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005368.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005368hhsearch_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 9.1E-36 2E-40 299.5 0.0 94 582-675 107-215 (215)
2 PF06507 Auxin_resp: Auxin res 100.0 5.2E-34 1.1E-38 248.9 8.2 80 254-333 1-83 (83)
3 PF02362 B3: B3 DNA binding do 99.6 6.7E-16 1.4E-20 135.8 10.5 97 128-229 1-99 (100)
4 KOG0644 Uncharacterized conser 99.6 6.5E-16 1.4E-20 176.0 5.5 147 206-360 874-1046(1113)
5 PF09217 EcoRII-N: Restriction 98.4 1.6E-06 3.5E-11 84.1 9.4 90 124-215 6-110 (156)
6 PF03754 DUF313: Domain of unk 97.5 0.00019 4E-09 67.2 6.0 77 125-202 21-113 (114)
7 PF00564 PB1: PB1 domain; Int 96.8 0.0031 6.8E-08 54.1 6.2 67 586-658 3-70 (84)
8 smart00666 PB1 PB1 domain. Pho 96.3 0.016 3.5E-07 49.6 7.3 66 586-658 3-69 (81)
9 cd05992 PB1 The PB1 domain is 96.1 0.027 5.9E-07 47.9 7.6 66 586-658 2-69 (81)
10 cd06398 PB1_Joka2 The PB1 doma 96.0 0.019 4.2E-07 51.8 6.6 66 587-660 3-73 (91)
11 cd06407 PB1_NLP A PB1 domain i 96.0 0.024 5.1E-07 50.2 7.0 57 586-648 2-58 (82)
12 cd06403 PB1_Par6 The PB1 domai 95.5 0.063 1.4E-06 47.6 7.8 72 587-663 3-78 (80)
13 cd06396 PB1_NBR1 The PB1 domai 95.5 0.049 1.1E-06 48.4 7.0 64 586-656 2-66 (81)
14 cd06401 PB1_TFG The PB1 domain 94.2 0.26 5.6E-06 44.0 8.0 71 587-663 3-79 (81)
15 cd06409 PB1_MUG70 The MUG70 pr 93.2 0.13 2.8E-06 46.3 4.5 53 594-648 7-61 (86)
16 cd06404 PB1_aPKC PB1 domain is 92.4 0.38 8.2E-06 43.1 6.3 57 586-648 2-58 (83)
17 cd06408 PB1_NoxR The PB1 domai 90.9 0.6 1.3E-05 42.1 6.0 55 585-648 3-57 (86)
18 cd06402 PB1_p62 The PB1 domain 90.7 0.86 1.9E-05 41.2 6.7 62 586-653 2-68 (87)
19 cd06397 PB1_UP1 Uncharacterize 88.9 1.1 2.5E-05 40.0 6.0 66 587-659 3-69 (82)
20 cd06399 PB1_P40 The PB1 domain 77.2 3.4 7.4E-05 37.6 4.1 36 601-643 23-58 (92)
21 KOG0644 Uncharacterized conser 65.8 4.7 0.0001 49.0 3.0 66 37-103 872-939 (1113)
22 PRK10737 FKBP-type peptidyl-pr 65.8 21 0.00045 36.8 7.2 102 205-319 2-114 (196)
23 cd06406 PB1_P67 A PB1 domain i 54.8 50 0.0011 29.7 6.7 68 587-662 5-75 (80)
24 smart00743 Agenet Tudor-like d 53.1 21 0.00046 29.0 4.0 38 289-338 2-39 (61)
25 PF04014 Antitoxin-MazE: Antid 40.7 26 0.00056 27.5 2.6 27 199-225 14-40 (47)
26 KOG3207 Beta-tubulin folding c 36.2 27 0.00058 40.3 2.7 42 290-344 3-44 (505)
27 PF02513 Spin-Ssty: Spin/Ssty 36.2 53 0.0012 27.1 3.7 32 292-323 1-32 (50)
28 smart00333 TUDOR Tudor domain. 33.3 71 0.0015 25.3 4.0 52 289-356 2-53 (57)
29 PF10844 DUF2577: Protein of u 31.9 65 0.0014 29.5 4.0 28 200-227 71-98 (100)
30 PF05641 Agenet: Agenet domain 31.6 98 0.0021 26.2 4.8 42 290-340 1-42 (68)
31 TIGR01439 lp_hng_hel_AbrB loop 30.1 51 0.0011 24.7 2.6 26 199-224 14-39 (43)
32 PF01878 EVE: EVE domain; Int 29.2 53 0.0012 31.2 3.2 27 204-230 38-65 (143)
33 PF00788 RA: Ras association ( 25.6 1.2E+02 0.0027 25.8 4.6 69 585-656 3-77 (93)
34 COG1047 SlpA FKBP-type peptidy 25.1 3.7E+02 0.0081 27.5 8.4 103 205-319 2-115 (174)
35 KOG3938 RGS-GAIP interacting p 25.0 85 0.0018 34.3 4.0 74 591-672 61-142 (334)
36 cd06395 PB1_Map2k5 PB1 domain 24.0 1.1E+02 0.0023 28.0 3.8 48 592-645 9-56 (91)
37 KOG3606 Cell polarity protein 22.3 93 0.002 34.0 3.7 80 585-669 19-102 (358)
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=9.1e-36 Score=299.53 Aligned_cols=94 Identities=44% Similarity=0.762 Sum_probs=0.0
Q ss_pred CCCCeeEEEecCeeeeeeecCCCCCChHHHHHHHHHHH---hhc----------cc--cCCCCCceeEeecCCCCeEEcc
Q 005368 582 STRTRTKVQMQGIAVGRAVDLTALKGYDDLFDELEKMF---EIQ----------GQ--LRPRDKWAVVFTDDEGDMMLAG 646 (699)
Q Consensus 582 ~~~~~vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF---~~~----------g~--l~~~~~~~v~Y~D~eGD~mlvG 646 (699)
..++||||+|||++|||||||++|+||++|+.+|++|| +|. +. |...++|+|||+|+||||||||
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 665 22 3466799999999999999999
Q ss_pred CCChHHHHhcceeEEEecchhhcccCCCC
Q 005368 647 DDQWPEFCKMVKKIFIYSTEEVKNMATSS 675 (699)
Q Consensus 647 D~PW~~F~~~vkrl~I~~~~e~~~~~~~~ 675 (699)
||||+|||++||||+||+.+|+++|+|++
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=5.2e-34 Score=248.92 Aligned_cols=80 Identities=60% Similarity=1.045 Sum_probs=78.2
Q ss_pred HHHHHhcCCcEEEEEecCCC--cceeeHHHHHHHhccCCccCcEEEEEeecCCCCCceeeeEEEeeccCCC-CCCCCCcc
Q 005368 254 AAHAVKTSTLFIVYYKPRTS--QFIIGLNKYLEAVHHCFSVGMRFKMRFEGEDSPERRFTGTIVGVGDFSE-QWPGSKWR 330 (699)
Q Consensus 254 A~~a~~tg~~F~V~Y~PR~s--eFvV~~~~y~~A~~~~w~~GmRFkM~fE~eDs~~~~~~GTI~~v~~~dp-~wp~S~WR 330 (699)
|+|||++|++|+|+||||++ ||||++++|++||+++|++||||||+||+||+++++|+|||+||++.|| +||+|+||
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 005368 331 SLK 333 (699)
Q Consensus 331 ~L~ 333 (699)
|||
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=99.65 E-value=6.7e-16 Score=135.77 Aligned_cols=97 Identities=31% Similarity=0.434 Sum_probs=74.7
Q ss_pred EEEecCccCCCCCCceEEehhhhcccCCCCCCCCCCCCeEEEEeeCCCCeEEEEEEecCCCceeeecccccccccccCCC
Q 005368 128 FCKILTASDTSTHGGFSVLRKHATECLPPLDMTLATPTQELAAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLV 207 (699)
Q Consensus 128 F~K~LT~SDv~~~grfsVPk~~Ae~~fP~Ld~~~~~p~q~L~~~D~~G~~W~Fr~~yr~~~rr~lLTtGWs~FV~~K~L~ 207 (699)
|.|+|+++|+...+++.||++.++.+. ++ ...++++.++|..|+.|.+++.|++++.+++|++||..||++++|+
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 899999999999999999999998872 11 1236789999999999999999999888899999999999999999
Q ss_pred CCCEEEEEeCC--CCcEEEEEEec
Q 005368 208 AGDAFVFLRGE--NGELRVGVRRL 229 (699)
Q Consensus 208 aGD~VvF~R~~--~G~l~vGiRRa 229 (699)
+||.++|.... ..++.|.|.|+
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 99999999864 45669999876
No 4
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=99.59 E-value=6.5e-16 Score=176.03 Aligned_cols=147 Identities=23% Similarity=0.416 Sum_probs=120.9
Q ss_pred CCCCCEEEEEeCCCCcEEEEEEeccccCC---------------------CCCCcccccCccccchHHHHHHHHhcCCcE
Q 005368 206 LVAGDAFVFLRGENGELRVGVRRLAHQQS---------------------SMPSSVISSQSMHLGVLATAAHAVKTSTLF 264 (699)
Q Consensus 206 L~aGD~VvF~R~~~G~l~vGiRRa~~~~~---------------------~~p~sv~~~~sm~~gvla~A~~a~~tg~~F 264 (699)
.+.||.|+++|.+..++.-.+|+.....+ ..|-+..+.|+|.|.||.-|.++. ...|
T Consensus 874 pQmgDEViyfrQghqeyl~~~~~n~~~~~~~~p~~~~~v~~~kv~kl~~~~y~~~~~s~c~m~l~~idp~s~~~--~k~F 951 (1113)
T KOG0644|consen 874 PQMGDEVIYFRQGHQEYLEAVRLNNIELNNKEPWNKMAVEICKVEKLVYITYPGSGDSCCKMKLAVIDPASKLM--DKSF 951 (1113)
T ss_pred ccccceeehhhhhhHHHHhhhhhccccccccCcccccchhhheeeeeeeeeccCCCcchheeeeeeecchhhhh--hccc
Confidence 34899999999877666555554433211 124555678999999999999763 5679
Q ss_pred EEEEecCCC--cceeeHHHHHHHhccCCccCcEEEEEeecCCCCC---ceeeeEEEeeccCCCCCCCCCcceeeeeccCC
Q 005368 265 IVYYKPRTS--QFIIGLNKYLEAVHHCFSVGMRFKMRFEGEDSPE---RRFTGTIVGVGDFSEQWPGSKWRSLKIQWDEP 339 (699)
Q Consensus 265 ~V~Y~PR~s--eFvV~~~~y~~A~~~~w~~GmRFkM~fE~eDs~~---~~~~GTI~~v~~~dp~wp~S~WR~L~V~WDe~ 339 (699)
.+.|..... ||+|.++.|++|+++||..+++||.-+. |+.+ +||.|+|.++++.+|++|+|+|.|+.|+||..
T Consensus 952 ~ltlpdlv~fpDFlV~rsrYd~AiQrnW~~~d~crvwwr--da~~e~g~WWeG~ils~~pksp~fpdSpwery~v~~~~~ 1029 (1113)
T KOG0644|consen 952 KLTLPDLVTFPDFLVERSRYDAAIQRNWTCRDKCRVWWR--DAGEEDGAWWEGRILSVKPKSPDFPDSPWERYIVRYDNT 1029 (1113)
T ss_pred eeecccccCcchhhhhhhhHHHHHhhccccccceeEEEc--cCCCcCCceeeeeeeeccCCCCCCCCCcceeEEEEecCC
Confidence 999997765 9999999999999999999999999985 3322 89999999999999999999999999999999
Q ss_pred CCCCCCCccccCcccccCCCC
Q 005368 340 ATVQRPERVSPWEIEPFVASA 360 (699)
Q Consensus 340 ~~~~~~~RVSPWeIEp~~~~~ 360 (699)
+ .+.-||||.|++....
T Consensus 1030 e----~~~~spwe~~~i~de~ 1046 (1113)
T KOG0644|consen 1030 E----TELHSPWEMEPIPDEV 1046 (1113)
T ss_pred c----ccccCccccCCCcccc
Confidence 8 5677999999987653
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=98.38 E-value=1.6e-06 Score=84.09 Aligned_cols=90 Identities=19% Similarity=0.250 Sum_probs=61.7
Q ss_pred ceeeEEEecCccCCCCCC----ceEEehhhhcccCCCCCC-CCCCCCeEEEEeeCCC--CeEEEEEEecCC------Cce
Q 005368 124 TVHSFCKILTASDTSTHG----GFSVLRKHATECLPPLDM-TLATPTQELAAKDLHG--YEWRFKHIFRGQ------PRR 190 (699)
Q Consensus 124 ~~~~F~K~LT~SDv~~~g----rfsVPk~~Ae~~fP~Ld~-~~~~p~q~L~~~D~~G--~~W~Fr~~yr~~------~rr 190 (699)
....|+|.|++.|++..| |+.|||..++..||.+.. +..+|...|.+++..+ ..|+||++|.|+ +..
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 357899999999999875 799999999999998766 5668999999999988 578999999987 457
Q ss_pred eeec--ccccccccccCCCCCCEEEEE
Q 005368 191 HLLT--TGWSTFVTSKRLVAGDAFVFL 215 (699)
Q Consensus 191 ~lLT--tGWs~FV~~K~L~aGD~VvF~ 215 (699)
|.|| ++=..|.+. =..||.+||-
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 8886 333334432 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=97.50 E-value=0.00019 Score=67.19 Aligned_cols=77 Identities=17% Similarity=0.169 Sum_probs=60.7
Q ss_pred eeeEEEecCccCCCCC-CceEEehhhhcccCCCCCC------------CCCCCCeEEEEeeCCCCeEEEEEEecCC---C
Q 005368 125 VHSFCKILTASDTSTH-GGFSVLRKHATECLPPLDM------------TLATPTQELAAKDLHGYEWRFKHIFRGQ---P 188 (699)
Q Consensus 125 ~~~F~K~LT~SDv~~~-grfsVPk~~Ae~~fP~Ld~------------~~~~p~q~L~~~D~~G~~W~Fr~~yr~~---~ 188 (699)
...|+|+|++||++.+ +||+||-..-.. ...|.. ....-++.+.+.|..++.|..++..|.. .
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 5789999999999965 899999875422 122211 1234588999999999999999999965 4
Q ss_pred ceeeeccccccccc
Q 005368 189 RRHLLTTGWSTFVT 202 (699)
Q Consensus 189 rr~lLTtGWs~FV~ 202 (699)
-.|+|++||..+|.
T Consensus 100 ~~YvL~~gWn~VV~ 113 (114)
T PF03754_consen 100 SNYVLNSGWNKVVE 113 (114)
T ss_pred eEEEEEcChHhhcc
Confidence 58999999999985
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=96.79 E-value=0.0031 Score=54.06 Aligned_cols=67 Identities=24% Similarity=0.478 Sum_probs=54.6
Q ss_pred eeEEEecCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccCC-ChHHHHhcce
Q 005368 586 RTKVQMQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGDD-QWPEFCKMVK 658 (699)
Q Consensus 586 ~vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~-PW~~F~~~vk 658 (699)
-+|++..|. +=|.+.+..--+|++|..++++.|++. ...+.+.|.|.||||..+.++ =|++.+..++
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 444688888889999999999999986 456899999999999888744 4677777764
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=96.28 E-value=0.016 Score=49.61 Aligned_cols=66 Identities=17% Similarity=0.369 Sum_probs=51.7
Q ss_pred eeEEEecCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccC-CChHHHHhcce
Q 005368 586 RTKVQMQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGD-DQWPEFCKMVK 658 (699)
Q Consensus 586 ~vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD-~PW~~F~~~vk 658 (699)
-+||.-.| -=|.+-+..--+|++|..++.+.|++.. ..+.|.|+|.|||+..+.+ +=|.+.+.+++
T Consensus 3 ~vK~~~~~--~~~~~~~~~~~s~~dL~~~i~~~~~~~~-----~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 3 DVKLRYGG--ETRRLSVPRDISFEDLRSKVAKRFGLDN-----QSFTLKYQDEDGDLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred cEEEEECC--EEEEEEECCCCCHHHHHHHHHHHhCCCC-----CCeEEEEECCCCCEEEecCHHHHHHHHHHHH
Confidence 36888755 3678888889999999999999999653 4589999999999986654 55666666555
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=96.06 E-value=0.027 Score=47.94 Aligned_cols=66 Identities=18% Similarity=0.387 Sum_probs=49.9
Q ss_pred eeEEEecCeeeeeeecCC-CCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccC-CChHHHHhcce
Q 005368 586 RTKVQMQGIAVGRAVDLT-ALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGD-DQWPEFCKMVK 658 (699)
Q Consensus 586 ~vKV~meG~~vGR~vDL~-~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD-~PW~~F~~~vk 658 (699)
-+||+-.|.. |.+=+. .--+|++|...|.+.|++.. ..+.+.|.|.|||+..+.+ .=|++.++.++
T Consensus 2 ~vK~~~~~~~--~~~~~~~~~~s~~~L~~~i~~~~~~~~-----~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~ 69 (81)
T cd05992 2 RVKVKYGGEI--RRFVVVSRSISFEDLRSKIAEKFGLDA-----VSFKLKYPDEDGDLVTISSDEDLEEAIEEAR 69 (81)
T ss_pred cEEEEecCCC--EEEEEecCCCCHHHHHHHHHHHhCCCC-----CcEEEEeeCCCCCEEEeCCHHHHHHHHHHHh
Confidence 3788888742 333333 88899999999999999753 4579999999999999887 44555555554
No 10
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=95.99 E-value=0.019 Score=51.79 Aligned_cols=66 Identities=21% Similarity=0.404 Sum_probs=52.9
Q ss_pred eEEEecCeeeeeeecCC-----CCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccCCChHHHHhcceeE
Q 005368 587 TKVQMQGIAVGRAVDLT-----ALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGDDQWPEFCKMVKKI 660 (699)
Q Consensus 587 vKV~meG~~vGR~vDL~-----~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~PW~~F~~~vkrl 660 (699)
+||.-+|+ -|.+-+. .--+|++|..++.+.|.+.. ..++.+.|.|.||||..+-++ .++...+.+.
T Consensus 3 vKv~y~~~--~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~----~~~~~l~Y~Dedgd~V~l~~D--~DL~~a~~~~ 73 (91)
T cd06398 3 VKVKYGGT--LRRFTFPVAENQLDLNMDGLREKVEELFSLSP----DADLSLTYTDEDGDVVTLVDD--NDLTDAIQYF 73 (91)
T ss_pred EEEEeCCE--EEEEEeccccccCCCCHHHHHHHHHHHhCCCC----CCcEEEEEECCCCCEEEEccH--HHHHHHHHHH
Confidence 79999996 4555444 35799999999999998743 467999999999999999877 7877766653
No 11
>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=95.98 E-value=0.024 Score=50.24 Aligned_cols=57 Identities=21% Similarity=0.335 Sum_probs=46.1
Q ss_pred eeEEEecCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccCC
Q 005368 586 RTKVQMQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGDD 648 (699)
Q Consensus 586 ~vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~ 648 (699)
-|||...|. -+.+-|..--+|++|..++.++|.+.. ...+.|-|.|.||||..+--+
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 489999886 455666666699999999999999852 356899999999999987544
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=95.55 E-value=0.063 Score=47.56 Aligned_cols=72 Identities=19% Similarity=0.359 Sum_probs=53.2
Q ss_pred eEEEecCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccCC-ChHHHHhcce---eEEE
Q 005368 587 TKVQMQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGDD-QWPEFCKMVK---KIFI 662 (699)
Q Consensus 587 vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~-PW~~F~~~vk---rl~I 662 (699)
||.+-+++=-==++|.....+|++++..|+.|+.|.+ -.+.|-|+|.+||.+-+-.+ -+..=+.+++ ||.|
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 6666676543336777788999999999999999865 45899999999999987654 4444455555 5555
Q ss_pred e
Q 005368 663 Y 663 (699)
Q Consensus 663 ~ 663 (699)
-
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=95.51 E-value=0.049 Score=48.45 Aligned_cols=64 Identities=14% Similarity=0.197 Sum_probs=50.1
Q ss_pred eeEEEecCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEcc-CCChHHHHhc
Q 005368 586 RTKVQMQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAG-DDQWPEFCKM 656 (699)
Q Consensus 586 ~vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvG-D~PW~~F~~~ 656 (699)
-+||.-.|.-+==+++-+.--+|++|..++.++|++. .+.|.|-|.||||.++- |.=-+|.++.
T Consensus 2 ~vKaty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~-------~f~lKYlDde~e~v~lssd~eLeE~~rl 66 (81)
T cd06396 2 NLKVTYNGESQSFLVSDSENTTWASVEAMVKVSFGLN-------DIQIKYVDEENEEVSVNSQGEYEEALKS 66 (81)
T ss_pred EEEEEECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC-------cceeEEEcCCCCEEEEEchhhHHHHHHH
Confidence 3789999977666777766889999999999999987 47899999999998764 3333444443
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=94.18 E-value=0.26 Score=43.97 Aligned_cols=71 Identities=21% Similarity=0.487 Sum_probs=50.0
Q ss_pred eEEEecCeeeeeeecCCCC-CChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccCCChHHH-----HhcceeE
Q 005368 587 TKVQMQGIAVGRAVDLTAL-KGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGDDQWPEF-----CKMVKKI 660 (699)
Q Consensus 587 vKV~meG~~vGR~vDL~~~-~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~PW~~F-----~~~vkrl 660 (699)
+|+..+| +|=| +=+..- -+|.+|...+.+.|.. .+.+.+.+.|.|.|.|||+.-+.+. +++ +...+||
T Consensus 3 iK~~~g~-DiR~-~~~~~~~~t~~~L~~~v~~~F~~--~~~~~~~flIKYkD~dGDlVTIts~--~dL~~A~~~~~~~~l 76 (81)
T cd06401 3 LKAQLGD-DIRR-IPIHNEDITYDELLLMMQRVFRG--KLGSSDDVLIKYKDEDGDLITIFDS--SDLSFAIQCSRILKL 76 (81)
T ss_pred EEEEeCC-eEEE-EeccCccccHHHHHHHHHHHhcc--ccCCcccEEEEEECCCCCEEEeccH--HHHHHHHhcCcceEE
Confidence 5666655 4544 544443 3999999999999993 3334567899999999999999876 444 4445556
Q ss_pred EEe
Q 005368 661 FIY 663 (699)
Q Consensus 661 ~I~ 663 (699)
+|.
T Consensus 77 ~~~ 79 (81)
T cd06401 77 TLF 79 (81)
T ss_pred EEe
Confidence 553
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=93.23 E-value=0.13 Score=46.26 Aligned_cols=53 Identities=21% Similarity=0.322 Sum_probs=41.6
Q ss_pred eeeeeeecCC--CCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccCC
Q 005368 594 IAVGRAVDLT--ALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGDD 648 (699)
Q Consensus 594 ~~vGR~vDL~--~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~ 648 (699)
.+-||.+=++ ...|+.+|..+..+=|+++... ...+.|.|.|+||||.++--+
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 3467765554 3689999999999999987642 456899999999999987544
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=92.44 E-value=0.38 Score=43.10 Aligned_cols=57 Identities=19% Similarity=0.350 Sum_probs=46.2
Q ss_pred eeEEEecCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccCC
Q 005368 586 RTKVQMQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGDD 648 (699)
Q Consensus 586 ~vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~ 648 (699)
.+|++-.|.-+-=.+|. .-+|++|..++.+||.+.. ...+++.|.|.|||.--+...
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 37999999766556666 6689999999999999743 456899999999998777665
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=90.95 E-value=0.6 Score=42.09 Aligned_cols=55 Identities=29% Similarity=0.504 Sum_probs=46.8
Q ss_pred CeeEEEecCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccCC
Q 005368 585 TRTKVQMQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGDD 648 (699)
Q Consensus 585 ~~vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~ 648 (699)
--|||+-+|. -|.|-+..--+|++|..++.++|++. ..+.|-|.|. ||+.-++|.
T Consensus 3 ikVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~~~------~~~~iKykDE-GD~iti~sq 57 (86)
T cd06408 3 IRVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFGFK------RRLKIKMKDD-GDMITMGDQ 57 (86)
T ss_pred EEEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhCCC------CceEEEEEcC-CCCccccCH
Confidence 4689999997 56777777778999999999999984 3579999999 999988876
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=90.66 E-value=0.86 Score=41.17 Aligned_cols=62 Identities=23% Similarity=0.459 Sum_probs=45.9
Q ss_pred eeEEEecC----eeeee-eecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccCCChHHH
Q 005368 586 RTKVQMQG----IAVGR-AVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGDDQWPEF 653 (699)
Q Consensus 586 ~vKV~meG----~~vGR-~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD~PW~~F 653 (699)
.||.+..| ..|=| ++|=....+|++|...+.++|..-. ...+.|.|.|.|||..-+..+ +++
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 57788777 34433 3455667799999999999995322 356899999999999877765 554
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=88.93 E-value=1.1 Score=39.98 Aligned_cols=66 Identities=17% Similarity=0.395 Sum_probs=49.9
Q ss_pred eEEEecCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccC-CChHHHHhccee
Q 005368 587 TKVQMQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGD-DQWPEFCKMVKK 659 (699)
Q Consensus 587 vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD-~PW~~F~~~vkr 659 (699)
-||.-+| --|++.-..-=+|.+|..+|+.+|.+.-. ...|+|.|.+||..-+-| +=-++|.+-..+
T Consensus 3 fKv~~~g--~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~-----~~~vtYiDeD~D~ITlssd~eL~d~~~~~~~ 69 (82)
T cd06397 3 FKSSFLG--DTRRIVFPDIPTWEALASKLENLYNLPEI-----KVGVTYIDNDNDEITLSSNKELQDFYRLSHR 69 (82)
T ss_pred EEEEeCC--ceEEEecCCCccHHHHHHHHHHHhCCChh-----HeEEEEEcCCCCEEEecchHHHHHHHHhccc
Confidence 4787777 57888888889999999999999998631 278999999999875544 444555554443
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=77.22 E-value=3.4 Score=37.61 Aligned_cols=36 Identities=28% Similarity=0.498 Sum_probs=30.8
Q ss_pred cCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeE
Q 005368 601 DLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMM 643 (699)
Q Consensus 601 DL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~m 643 (699)
||+..-+|.+|.....+-|..+. -.+-|+|.|||..
T Consensus 23 ~l~~~P~~kdLl~lmr~~f~~~d-------IaLNYrD~EGDLI 58 (92)
T cd06399 23 DLSSTPLLKDLLELTRREFQRED-------IALNYRDAEGDLI 58 (92)
T ss_pred ccccCccHHHHHHHHHHHhchhh-------eeeeeecCCCCEE
Confidence 78999999999999999998553 4778999999974
No 21
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=65.77 E-value=4.7 Score=49.00 Aligned_cols=66 Identities=29% Similarity=0.525 Sum_probs=42.7
Q ss_pred ccCCCCCeEEEecCcchhhhcccccc--ccccCCCCCCCCCcceEEEEEeeeecccCCceeEEEeeeec
Q 005368 37 EVPRNGERVYYFPQGHIEQLEASTNQ--ELTHQEPLFDLPSKILCRVVHIELLAEQETDEVYAQITLHP 103 (699)
Q Consensus 37 ~~P~~gs~V~YFPqGH~Eq~~~s~~~--~~~~~~p~~~lp~~ilC~V~~V~l~Ad~~TDEVyA~i~L~P 103 (699)
-||..|+.|.||-|||-|-+.+..-. ++....| -++-..=.|.|..+..--=+....--.+|+|.=
T Consensus 872 yipQmgDEViyfrQghqeyl~~~~~n~~~~~~~~p-~~~~~v~~~kv~kl~~~~y~~~~~s~c~m~l~~ 939 (1113)
T KOG0644|consen 872 YIPQMGDEVIYFRQGHQEYLEAVRLNNIELNNKEP-WNKMAVEICKVEKLVYITYPGSGDSCCKMKLAV 939 (1113)
T ss_pred ccccccceeehhhhhhHHHHhhhhhccccccccCc-ccccchhhheeeeeeeeeccCCCcchheeeeee
Confidence 48999999999999999999876421 1211111 133333478888876665555555566666543
No 22
>PRK10737 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=65.75 E-value=21 Score=36.82 Aligned_cols=102 Identities=19% Similarity=0.205 Sum_probs=64.9
Q ss_pred CCCCCCEEEE-E--eCCCCcEEEEEEeccccCCCCCCcccccCccccchHHHHHHHHhcCCcEEEEEecCC------C--
Q 005368 205 RLVAGDAFVF-L--RGENGELRVGVRRLAHQQSSMPSSVISSQSMHLGVLATAAHAVKTSTLFIVYYKPRT------S-- 273 (699)
Q Consensus 205 ~L~aGD~VvF-~--R~~~G~l~vGiRRa~~~~~~~p~sv~~~~sm~~gvla~A~~a~~tg~~F~V~Y~PR~------s-- 273 (699)
++..|+.|.+ | |.++|+++---+ ...|...+-....-+--|.+|..-...|..|+|..-|-. .
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 3556777766 3 356787643221 123544443333334456778888889999999987643 2
Q ss_pred cceeeHHHHHHHhccCCccCcEEEEEeecCCCCCceeeeEEEeecc
Q 005368 274 QFIIGLNKYLEAVHHCFSVGMRFKMRFEGEDSPERRFTGTIVGVGD 319 (699)
Q Consensus 274 eFvV~~~~y~~A~~~~w~~GmRFkM~fE~eDs~~~~~~GTI~~v~~ 319 (699)
-..|+++.|... ....+||||.+. +++. .+.++|+.|.+
T Consensus 76 V~~vpr~~F~~~--~~l~~G~~~~~~--~~~G---~~~~~V~ev~~ 114 (196)
T PRK10737 76 VQRVPKDVFMGV--DELQVGMRFLAE--TDQG---PVPVEITAVED 114 (196)
T ss_pred EEEecHHHCCCc--cCCCCCCEEEEe--CCCC---cEEEEEEEEcC
Confidence 567888777432 236899998864 4552 46889999975
No 23
>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=54.79 E-value=50 Score=29.71 Aligned_cols=68 Identities=13% Similarity=0.304 Sum_probs=51.5
Q ss_pred eEEEecCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCC-CeEEccCCChHHHHhcce--eEEE
Q 005368 587 TKVQMQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEG-DMMLAGDDQWPEFCKMVK--KIFI 662 (699)
Q Consensus 587 vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eG-D~mlvGD~PW~~F~~~vk--rl~I 662 (699)
||||-++ -| .|-...=-+|.+|+..|.+=+.+.++ .-+|-|.|.+. +...++|.=++.-.+.|+ +|+.
T Consensus 5 vKV~f~~-tI--aIrvp~~~~y~~L~~ki~~kLkl~~e-----~i~LsYkde~s~~~v~l~d~dle~aws~~~~~~lTL 75 (80)
T cd06406 5 VKVHFKY-TV--AIQVARGLSYATLLQKISSKLELPAE-----HITLSYKSEASGEDVILSDTNMEDVWSQAKDGCLTL 75 (80)
T ss_pred EEEEEEE-EE--EEEcCCCCCHHHHHHHHHHHhCCCch-----hcEEEeccCCCCCccCcChHHHHHHHHhhcCCeEEE
Confidence 7999998 23 44555666899999999999988643 24788998653 554559999999988888 6665
No 24
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=53.13 E-value=21 Score=29.04 Aligned_cols=38 Identities=16% Similarity=0.141 Sum_probs=29.6
Q ss_pred CCccCcEEEEEeecCCCCCceeeeEEEeeccCCCCCCCCCcceeeeeccC
Q 005368 289 CFSVGMRFKMRFEGEDSPERRFTGTIVGVGDFSEQWPGSKWRSLKIQWDE 338 (699)
Q Consensus 289 ~w~~GmRFkM~fE~eDs~~~~~~GTI~~v~~~dp~wp~S~WR~L~V~WDe 338 (699)
.|.+|+++-..++.++ .||.|+|+.+.. -..+.|.-+.
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 5899999999997544 899999999963 2235677665
No 25
>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=40.72 E-value=26 Score=27.51 Aligned_cols=27 Identities=15% Similarity=0.192 Sum_probs=22.1
Q ss_pred ccccccCCCCCCEEEEEeCCCCcEEEE
Q 005368 199 TFVTSKRLVAGDAFVFLRGENGELRVG 225 (699)
Q Consensus 199 ~FV~~K~L~aGD~VvF~R~~~G~l~vG 225 (699)
.|..+.+|.+||.|.|.-.++|++.+-
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 456777999999999999998876653
No 26
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=36.25 E-value=27 Score=40.34 Aligned_cols=42 Identities=29% Similarity=0.654 Sum_probs=29.8
Q ss_pred CccCcEEEEEeecCCCCCceeeeEEEeeccCCCCCCCCCcceeeeeccCCCCCCC
Q 005368 290 FSVGMRFKMRFEGEDSPERRFTGTIVGVGDFSEQWPGSKWRSLKIQWDEPATVQR 344 (699)
Q Consensus 290 w~~GmRFkM~fE~eDs~~~~~~GTI~~v~~~dp~wp~S~WR~L~V~WDe~~~~~~ 344 (699)
+.+|+|+|..+|- ...||.|+|.|. ++ +| |.|.||++.-.-+
T Consensus 3 ~~IG~RvkI~~~~---~Tvr~iG~V~g~-------~~-~w--~GvEWDd~~RGKH 44 (505)
T KOG3207|consen 3 MEIGTRVKIGGEI---ATVRYIGEVEGN-------NS-KW--YGVEWDDPVRGKH 44 (505)
T ss_pred eeccceEEEcCEE---EEEEEEEEEcCC-------CC-cc--eeeEecCCCcccc
Confidence 4689999988752 236677777665 33 44 7899999986544
No 27
>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=36.20 E-value=53 Score=27.14 Aligned_cols=32 Identities=22% Similarity=0.430 Sum_probs=24.6
Q ss_pred cCcEEEEEeecCCCCCceeeeEEEeeccCCCC
Q 005368 292 VGMRFKMRFEGEDSPERRFTGTIVGVGDFSEQ 323 (699)
Q Consensus 292 ~GmRFkM~fE~eDs~~~~~~GTI~~v~~~dp~ 323 (699)
+|-|+.-.||.++.+...|.|+|...-+..|.
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 58899999998888888899999998776654
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=33.26 E-value=71 Score=25.28 Aligned_cols=52 Identities=19% Similarity=0.415 Sum_probs=37.5
Q ss_pred CCccCcEEEEEeecCCCCCceeeeEEEeeccCCCCCCCCCcceeeeeccCCCCCCCCCccccCccccc
Q 005368 289 CFSVGMRFKMRFEGEDSPERRFTGTIVGVGDFSEQWPGSKWRSLKIQWDEPATVQRPERVSPWEIEPF 356 (699)
Q Consensus 289 ~w~~GmRFkM~fE~eDs~~~~~~GTI~~v~~~dp~wp~S~WR~L~V~WDe~~~~~~~~RVSPWeIEp~ 356 (699)
+|.+|..+..++ .+. .||.|+|+++.. + ....|.-++-.. .+-|...+|-++
T Consensus 2 ~~~~G~~~~a~~-~d~---~wyra~I~~~~~------~---~~~~V~f~D~G~---~~~v~~~~l~~l 53 (57)
T smart00333 2 TFKVGDKVAARW-EDG---EWYRARIIKVDG------E---QLYEVFFIDYGN---EEVVPPSDLRPL 53 (57)
T ss_pred CCCCCCEEEEEe-CCC---CEEEEEEEEECC------C---CEEEEEEECCCc---cEEEeHHHeecC
Confidence 688999999999 544 899999999963 2 567788877443 344566665543
No 29
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=31.86 E-value=65 Score=29.48 Aligned_cols=28 Identities=21% Similarity=0.361 Sum_probs=22.1
Q ss_pred cccccCCCCCCEEEEEeCCCCcEEEEEE
Q 005368 200 FVTSKRLVAGDAFVFLRGENGELRVGVR 227 (699)
Q Consensus 200 FV~~K~L~aGD~VvF~R~~~G~l~vGiR 227 (699)
|.-...|++||.|..+|...|+.++=+-
T Consensus 71 i~~~~~Lk~GD~V~ll~~~~gQ~yiVlD 98 (100)
T PF10844_consen 71 ITFTDGLKVGDKVLLLRVQGGQKYIVLD 98 (100)
T ss_pred EEEecCCcCCCEEEEEEecCCCEEEEEE
Confidence 5556689999999999988887666443
No 30
>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=31.59 E-value=98 Score=26.17 Aligned_cols=42 Identities=12% Similarity=0.225 Sum_probs=26.8
Q ss_pred CccCcEEEEEeecCCCCCceeeeEEEeeccCCCCCCCCCcceeeeeccCCC
Q 005368 290 FSVGMRFKMRFEGEDSPERRFTGTIVGVGDFSEQWPGSKWRSLKIQWDEPA 340 (699)
Q Consensus 290 w~~GmRFkM~fE~eDs~~~~~~GTI~~v~~~dp~wp~S~WR~L~V~WDe~~ 340 (699)
|..|+++-..-+.+...-.||.|||+..... + .+.|+.++-.
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V~~~~~~------~---~~~V~Y~~~~ 42 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATVLKENGD------D---KYLVEYDDLP 42 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEEEEEETT----------EEEEEETT-S
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEEEEeCCC------c---EEEEEECCcc
Confidence 5689999988765544449999999999742 2 7888886544
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=30.14 E-value=51 Score=24.68 Aligned_cols=26 Identities=27% Similarity=0.404 Sum_probs=21.7
Q ss_pred ccccccCCCCCCEEEEEeCCCCcEEE
Q 005368 199 TFVTSKRLVAGDAFVFLRGENGELRV 224 (699)
Q Consensus 199 ~FV~~K~L~aGD~VvF~R~~~G~l~v 224 (699)
.|.++-++..||.|.+...++|.+.+
T Consensus 14 ~~r~~l~~~~gd~~~i~~~~~~~l~l 39 (43)
T TIGR01439 14 EIREKLGLKEGDRLEVIRVEDGEIIL 39 (43)
T ss_pred HHHHHcCcCCCCEEEEEEeCCCEEEE
Confidence 67788899999999999877776654
No 32
>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=29.20 E-value=53 Score=31.19 Aligned_cols=27 Identities=22% Similarity=0.402 Sum_probs=18.7
Q ss_pred cCCCCCCEEEEEeCC-CCcEEEEEEecc
Q 005368 204 KRLVAGDAFVFLRGE-NGELRVGVRRLA 230 (699)
Q Consensus 204 K~L~aGD~VvF~R~~-~G~l~vGiRRa~ 230 (699)
++++.||.|+||... .+.-+||+=+..
T Consensus 38 ~~mk~GD~vifY~s~~~~~~ivai~~V~ 65 (143)
T PF01878_consen 38 KRMKPGDKVIFYHSGCKERGIVAIGEVV 65 (143)
T ss_dssp HC--TT-EEEEEETSSSS-EEEEEEEEE
T ss_pred hcCCCCCEEEEEEcCCCCCEEEEEEEEe
Confidence 589999999999987 567788877654
No 33
>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=25.63 E-value=1.2e+02 Score=25.82 Aligned_cols=69 Identities=6% Similarity=0.028 Sum_probs=50.1
Q ss_pred CeeEEEecCeee---eeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeE-e-ecCCCCeEEc-cCCChHHHHhc
Q 005368 585 TRTKVQMQGIAV---GRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVV-F-TDDEGDMMLA-GDDQWPEFCKM 656 (699)
Q Consensus 585 ~~vKV~meG~~v---GR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~-Y-~D~eGD~mlv-GD~PW~~F~~~ 656 (699)
..+||+++...- -++|-++....-.+++..+.+-|++.+ +..+|.|+ + ........|- .+.|+..+...
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 578999988653 789999999999999999999999933 35668884 4 4445555554 34466655544
No 34
>COG1047 SlpA FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]
Probab=25.09 E-value=3.7e+02 Score=27.51 Aligned_cols=103 Identities=20% Similarity=0.295 Sum_probs=64.8
Q ss_pred CCCCCCEEEE---EeCCCCcEEEEEEeccccCCCCCCcccccCccccchHHHHHHHHhcCCcEEEEEecCCC------cc
Q 005368 205 RLVAGDAFVF---LRGENGELRVGVRRLAHQQSSMPSSVISSQSMHLGVLATAAHAVKTSTLFIVYYKPRTS------QF 275 (699)
Q Consensus 205 ~L~aGD~VvF---~R~~~G~l~vGiRRa~~~~~~~p~sv~~~~sm~~gvla~A~~a~~tg~~F~V~Y~PR~s------eF 275 (699)
++..||.|.+ .|.++|+++=--.- ...|..++-++-.-+.-|.+|..-..-|.-|+|.--|-.. +.
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 5667888876 23456665421111 1224444444444444578888888999999999988542 22
Q ss_pred --eeeHHHHHHHhccCCccCcEEEEEeecCCCCCceeeeEEEeecc
Q 005368 276 --IIGLNKYLEAVHHCFSVGMRFKMRFEGEDSPERRFTGTIVGVGD 319 (699)
Q Consensus 276 --vV~~~~y~~A~~~~w~~GmRFkM~fE~eDs~~~~~~GTI~~v~~ 319 (699)
.|++++|...= ...+||+|. ++++| ...-|+|+.|..
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 46666665432 678999987 44455 456899999874
No 35
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=24.98 E-value=85 Score=34.25 Aligned_cols=74 Identities=16% Similarity=0.354 Sum_probs=54.2
Q ss_pred ecCeeeeeeecCCCCCChHHHHHHHHHHHhhccc--c-CCCCCceeEeecCCCCeEEccCCChHHHH-----hcceeEEE
Q 005368 591 MQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQ--L-RPRDKWAVVFTDDEGDMMLAGDDQWPEFC-----KMVKKIFI 662 (699)
Q Consensus 591 meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~--l-~~~~~~~v~Y~D~eGD~mlvGD~PW~~F~-----~~vkrl~I 662 (699)
-+|.|+|| +..|++-+|||..+++-|+|.-. | ..-+.+. .|=+-||-|-.-.++|+ .-.|.+.|
T Consensus 61 AHGSptg~---Ie~fsnv~ELY~kIAe~F~Is~~dIlfcTlNshK-----vDM~~llgGqigleDfiFAHvkGq~kEv~v 132 (334)
T KOG3938|consen 61 AHGSPTGR---IEGFSNVRELYQKIAEAFDISPDDILFCTLNSHK-----VDMKRLLGGQIGLEDFIFAHVKGQAKEVEV 132 (334)
T ss_pred ccCCccce---ecccccHHHHHHHHHHHhcCCccceEEEecCCCc-----ccHHHHhcCccChhhhhhhhhcCcceeEEE
Confidence 36888888 46789999999999999999643 1 1111111 23345889999999995 45678999
Q ss_pred ecchhhcccC
Q 005368 663 YSTEEVKNMA 672 (699)
Q Consensus 663 ~~~~e~~~~~ 672 (699)
++.+++-+++
T Consensus 133 ~KsedalGlT 142 (334)
T KOG3938|consen 133 VKSEDALGLT 142 (334)
T ss_pred EecccccceE
Confidence 9999987664
No 36
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving 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 Map2k5 protein contains a type I PB1 domain.
Probab=24.02 E-value=1.1e+02 Score=27.97 Aligned_cols=48 Identities=21% Similarity=0.304 Sum_probs=34.3
Q ss_pred cCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEc
Q 005368 592 QGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLA 645 (699)
Q Consensus 592 eG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlv 645 (699)
+|.++--+||....=++.+++..+.+..-- ..--..-|+|.+||..-|
T Consensus 9 ~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~------aT~tAFeYEDE~gDRITV 56 (91)
T cd06395 9 NGGAVDWTVQSGPQLLFRDVLDVIGQVLPE------ATTTAFEYEDEDGDRITV 56 (91)
T ss_pred CCCcccccccCcccccHHHHHHHHHHhccc------ccccceeeccccCCeeEe
Confidence 466788889988888999998887765431 112256699999995444
No 37
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=22.26 E-value=93 Score=34.04 Aligned_cols=80 Identities=14% Similarity=0.277 Sum_probs=55.1
Q ss_pred CeeEEEecCeeeeeeecCCCCCChHHHHHHHHHHHhhccccCCCCCceeEeecCCCCeEEccC-CChHHHHhcce---eE
Q 005368 585 TRTKVQMQGIAVGRAVDLTALKGYDDLFDELEKMFEIQGQLRPRDKWAVVFTDDEGDMMLAGD-DQWPEFCKMVK---KI 660 (699)
Q Consensus 585 ~~vKV~meG~~vGR~vDL~~~~sY~eL~~~L~~MF~~~g~l~~~~~~~v~Y~D~eGD~mlvGD-~PW~~F~~~vk---rl 660 (699)
.-||-+.+-+=--=.++-..-.+|++.+.-|+..-.|.+ -++.|-|.|.-||.+-+-. +-+..-+++++ ||
T Consensus 19 veVKSKFdaEfRRfsl~r~~~~~f~~F~~Lv~~~H~i~n-----vdvllgY~d~hgDLLPinNDDn~~ka~~sa~PlLR~ 93 (358)
T KOG3606|consen 19 VEVKSKFDAEFRRFSLPRHSASSFDEFYSLVEHLHHIPN-----VDVLLGYADTHGDLLPINNDDNLHKALSSARPLLRL 93 (358)
T ss_pred EEeeccccchhheecccccCcccHHHHHHHHHHHhcCCC-----ceEEEEEecCCCceecccCchhHHHHhhccCchhhh
Confidence 344544443321124555566799999999998888764 4578899999999997754 44444455555 89
Q ss_pred EEecchhhc
Q 005368 661 FIYSTEEVK 669 (699)
Q Consensus 661 ~I~~~~e~~ 669 (699)
.|-+++|+.
T Consensus 94 ~iQkr~ea~ 102 (358)
T KOG3606|consen 94 LIQKREEAD 102 (358)
T ss_pred hhhhhhhhh
Confidence 999998876
Done!