Query 005296
Match_columns 703
No_of_seqs 351 out of 853
Neff 4.6
Searched_HMMs 46136
Date Thu Mar 28 21:13:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005296.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005296hhsearch_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 1.3E-34 2.8E-39 252.8 8.9 83 292-375 1-83 (83)
2 PF02309 AUX_IAA: AUX/IAA fami 100.0 4E-33 8.8E-38 280.7 0.3 88 615-702 107-212 (215)
3 PF02362 B3: B3 DNA binding do 99.7 7.5E-17 1.6E-21 141.9 10.7 97 122-223 1-99 (100)
4 KOG0644 Uncharacterized conser 99.7 5.3E-17 1.1E-21 184.8 4.7 168 201-400 875-1044(1113)
5 PF09217 EcoRII-N: Restriction 98.1 9.6E-06 2.1E-10 78.8 8.4 90 118-209 6-110 (156)
6 PF03754 DUF313: Domain of unk 97.5 0.00014 3E-09 68.1 5.6 78 119-197 21-114 (114)
7 PF00564 PB1: PB1 domain; Int 96.4 0.01 2.2E-07 51.0 6.8 67 619-688 3-70 (84)
8 cd05992 PB1 The PB1 domain is 95.9 0.037 8E-07 47.2 7.6 65 620-688 3-69 (81)
9 cd06398 PB1_Joka2 The PB1 doma 95.9 0.028 6E-07 50.8 7.0 67 620-689 3-72 (91)
10 cd06407 PB1_NLP A PB1 domain i 95.9 0.028 6E-07 49.8 6.8 57 619-678 2-58 (82)
11 cd06396 PB1_NBR1 The PB1 domai 95.6 0.035 7.6E-07 49.4 6.6 64 619-686 2-66 (81)
12 smart00666 PB1 PB1 domain. Pho 95.5 0.063 1.4E-06 46.0 7.6 66 619-688 3-69 (81)
13 cd06403 PB1_Par6 The PB1 domai 94.8 0.091 2E-06 46.6 6.7 71 620-692 3-77 (80)
14 cd06409 PB1_MUG70 The MUG70 pr 93.1 0.13 2.9E-06 46.2 4.5 51 628-678 8-61 (86)
15 cd06404 PB1_aPKC PB1 domain is 92.0 0.44 9.6E-06 42.7 6.1 57 619-678 2-58 (83)
16 cd06401 PB1_TFG The PB1 domain 91.4 0.91 2E-05 40.6 7.5 72 620-693 3-79 (81)
17 cd06402 PB1_p62 The PB1 domain 89.4 1.2 2.6E-05 40.2 6.7 59 619-678 2-65 (87)
18 cd06408 PB1_NoxR The PB1 domai 88.0 1.3 2.8E-05 40.1 5.8 55 618-678 3-57 (86)
19 cd06397 PB1_UP1 Uncharacterize 86.5 1.9 4.1E-05 38.6 5.9 65 621-689 4-69 (82)
20 cd06406 PB1_P67 A PB1 domain i 68.7 18 0.00038 32.5 6.4 69 620-693 5-76 (80)
21 smart00743 Agenet Tudor-like d 62.9 11 0.00025 30.7 3.9 28 329-360 2-29 (61)
22 cd06399 PB1_P40 The PB1 domain 60.6 15 0.00033 33.5 4.6 41 634-678 23-63 (92)
23 KOG0644 Uncharacterized conser 58.4 6.7 0.00014 47.8 2.5 64 31-94 871-940 (1113)
24 PF04014 Antitoxin-MazE: Antid 43.7 31 0.00068 27.1 3.4 27 192-218 13-39 (47)
25 smart00333 TUDOR Tudor domain. 37.5 49 0.0011 26.2 3.8 38 329-381 2-39 (57)
26 PF10844 DUF2577: Protein of u 36.7 45 0.00097 30.6 3.8 28 194-221 71-98 (100)
27 PF05641 Agenet: Agenet domain 32.5 62 0.0013 27.4 3.8 42 330-382 1-42 (68)
28 TIGR01439 lp_hng_hel_AbrB loop 32.0 62 0.0013 24.2 3.4 27 192-218 13-39 (43)
29 PF00788 RA: Ras association ( 31.0 1.4E+02 0.0031 25.5 5.9 69 618-686 3-77 (93)
30 PF02513 Spin-Ssty: Spin/Ssty 27.6 1E+02 0.0022 25.5 4.0 31 332-363 1-31 (50)
31 PRK03760 hypothetical protein; 27.4 1.2E+02 0.0025 28.9 5.0 28 181-211 88-117 (117)
32 KOG3938 RGS-GAIP interacting p 25.6 1.3E+02 0.0028 33.0 5.4 74 619-696 57-136 (334)
33 cd01789 Alp11_N Ubiquitin-like 24.8 2.3E+02 0.005 25.0 6.1 38 629-670 15-52 (84)
34 KOG3207 Beta-tubulin folding c 24.1 77 0.0017 36.8 3.7 42 330-386 3-44 (505)
35 KOG3606 Cell polarity protein 23.4 1.1E+02 0.0023 33.7 4.3 80 618-699 19-102 (358)
36 cd06410 PB1_UP2 Uncharacterize 22.4 1.1E+02 0.0023 28.3 3.6 47 631-678 25-72 (97)
37 PF03120 DNA_ligase_OB: NAD-de 22.4 67 0.0014 28.9 2.3 32 192-223 42-74 (82)
38 PF01878 EVE: EVE domain; Int 22.2 79 0.0017 30.1 2.9 26 198-223 38-64 (143)
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=1.3e-34 Score=252.85 Aligned_cols=83 Identities=58% Similarity=0.913 Sum_probs=80.4
Q ss_pred HHHHHHcCCcEEEEEecCCCCCceeEehHHHHHHHhcCcccccEEEEEeecCCCCcceeeeeEEEEeecCCCCCCCCCCc
Q 005296 292 AATLAANRQPFEVVYYPRASTPEFCVKASMVKAALQIRWCSGMRFKMAFETEDSSRISWFMGTISSVQVSDPLYWPDSPW 371 (703)
Q Consensus 292 aa~~aa~g~~F~V~Y~Pr~~~~eFvV~~~~y~~A~~~~w~~GmRFkM~fE~EDss~~~w~~GTI~~v~~~dp~~wp~S~W 371 (703)
||++|++|++|+|+||||++++||||++++|++|++++|++||||||+||+||+++++ |+|||++|++.||++||+|+|
T Consensus 1 A~~aa~~~~~F~V~Y~PRa~~sEFVV~~~k~~~al~~~~~~GmRfkM~fE~eds~~~~-~~GtI~~v~~~dp~~w~~S~W 79 (83)
T PF06507_consen 1 AAHAAATGSPFEVFYYPRASPSEFVVPASKYDKALNHPWSVGMRFKMRFETEDSSERR-WQGTIVGVSDLDPIRWPGSKW 79 (83)
T ss_pred ChhHhhcCCeEEEEECCCCCCcceEEEHHHHHHHhcCCCCCCcEEEEEeccCCCccce-eeeEEeEeeccCCCCCCCCCc
Confidence 6889999999999999999999999999999999999999999999999999999965 599999999999999999999
Q ss_pred ccee
Q 005296 372 RLLQ 375 (703)
Q Consensus 372 R~L~ 375 (703)
||||
T Consensus 80 R~Lq 83 (83)
T PF06507_consen 80 RMLQ 83 (83)
T ss_pred ccCc
Confidence 9997
No 2
>PF02309 AUX_IAA: AUX/IAA family; InterPro: IPR003311 The Aux/IAA family of genes are key regulators of auxin-modified gene expression []. The plant hormone auxin (indole-3-acetic acid, IAA) regulates diverse cellular and developmental responses in plants, including cell division, expansion, differentiation and patterning of embryo responses []. Auxin can regulate the gene expression of several families, including GH3 and SAUR, as well as Aux/IAA itself. The Aux/IAA proteins act as repressors of auxin-induced gene expression, possibly through modulating the activity of DNA-binding auxin response factors (ARFs) (IPR010525 from INTERPRO). Aux/IAA and ARF are thought to interact through C-terminal protein-protein interaction domains found in both Aux/IAA and ARF. Recent evidence suggests that Aux/IAA proteins can also mediate light responses []. Some members of the AUX/IAA family are longer and contain an N-terminal DNA binding domain [] and may have an early function in the establishment of vascular and body patterns in embryonic and post-embryonic development in some plants.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P1N_F 2P1Q_C 2P1O_C.
Probab=99.97 E-value=4e-33 Score=280.65 Aligned_cols=88 Identities=34% Similarity=0.570 Sum_probs=0.0
Q ss_pred CcccceEEeecccceeeccccCCCCCHHHHHHHHHhhh---CCC----------Cc-C----cceeEEEEeCCCCEEEcC
Q 005296 615 LETGHCKVFMESEDVGRTLDLSLLGSYDELYKKLAEMF---GIE----------NA-E----TLSHLLYRDVTGAVKHIG 676 (703)
Q Consensus 615 ~~~~~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF---~i~----------~~-e----l~~~v~Y~D~eGD~mlvG 676 (703)
..+.||||+|||++|||||||++|+||++|+.+|++|| +|+ +. + ..|+|||+|+||||||||
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 35799999999999999999999999999999999999 666 11 1 147999999999999999
Q ss_pred CCChHHHHhhceEEEEecCCCCCCCC
Q 005296 677 DEPFSDFMKTARRLTILMDSGSDNVG 702 (703)
Q Consensus 677 D~PW~~F~~~vkrl~I~~~~~~~~~~ 702 (703)
||||++||++||||+||+.++..+|+
T Consensus 187 D~PW~~F~~~vkRl~I~~~~e~~~~~ 212 (215)
T PF02309_consen 187 DVPWEEFVKSVKRLRIMKSSEAKGLA 212 (215)
T ss_dssp --------------------------
T ss_pred CCCHHHHHHHhhccEEecHHHhcccC
Confidence 99999999999999999999988875
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=99.70 E-value=7.5e-17 Score=141.92 Aligned_cols=97 Identities=31% Similarity=0.414 Sum_probs=74.8
Q ss_pred EEEecccccCCCCCceEEccccccccCCCCCCCCCCCceEEEEEeCCCCeEEEEEEEeCCCCceeeccchhhhhhccCCC
Q 005296 122 FAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSADPPVQTILAKDVHGETWKFRHIYRGTPRRHLLTTGWSTFVNHKKLV 201 (703)
Q Consensus 122 F~K~LT~SDv~~~grfsVPk~~Ae~~FP~Ld~~~~~p~q~L~~~D~~G~~W~Fr~~yr~~~rr~~LTtGWs~FV~~K~L~ 201 (703)
|.|+|+++|+.+.++|.||+++++.+. ++. ...+++.++|..|++|.+++.+++.+.+++|++||..||++++|+
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--GNK---RKSREVTLKDPDGRSWPVKLKYRKNSGRYYLTGGWKKFVRDNGLK 75 (100)
T ss_dssp EEEE--TTCCCCTT-EEE-HHHHTTTS----S---S--CEEEEEETTTEEEEEEEEEECCTTEEEEETTHHHHHHHCT--
T ss_pred CEEEEEccCcCCCCEEEeCHHHHHHhC--CCc---CCCeEEEEEeCCCCEEEEEEEEEccCCeEEECCCHHHHHHHcCCC
Confidence 899999999999999999999999972 111 124789999999999999999999888999999999999999999
Q ss_pred CCCEEEEEEecC--CcEEEEEEEe
Q 005296 202 AGDSIVFLRAEN--GDLCVGIRRA 223 (703)
Q Consensus 202 aGD~VvF~R~~~--G~l~VGIRR~ 223 (703)
+||.|+|+...+ .++.|.|.|+
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 999999998864 4569999986
No 4
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=99.65 E-value=5.3e-17 Score=184.84 Aligned_cols=168 Identities=23% Similarity=0.410 Sum_probs=134.5
Q ss_pred CCCCEEEEEEecCCcEEEEEEEeccCcCCCCCCCCCCCCCCCCCCCCcccccccccchhhccCcCCCCCCCCCCCCcccc
Q 005296 201 VAGDSIVFLRAENGDLCVGIRRAKRGIGGGPEVTSGWNGNCVTPYGGFSAFLREDDNKLMRNGIGNVNGPSSNNGNNLMA 280 (703)
Q Consensus 201 ~aGD~VvF~R~~~G~l~VGIRR~~~~~~~~~~~~~~w~~~~~~~~~~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 280 (703)
..||.|+++|.++.++.-.+|+...-..+ ..+||.+ .++..+..++....|++.| +.++.|.
T Consensus 875 QmgDEViyfrQghqeyl~~~~~n~~~~~~----~~p~~~~----------~v~~~kv~kl~~~~y~~~~----~s~c~m~ 936 (1113)
T KOG0644|consen 875 QMGDEVIYFRQGHQEYLEAVRLNNIELNN----KEPWNKM----------AVEICKVEKLVYITYPGSG----DSCCKMK 936 (1113)
T ss_pred cccceeehhhhhhHHHHhhhhhccccccc----cCccccc----------chhhheeeeeeeeeccCCC----cchheee
Confidence 48999999999998887778777663222 3578773 3344444455455556544 4556677
Q ss_pred CCCCChHHHHHHHHHHHcCCcEEEEEecCCCCCceeEehHHHHHHHhcCcccccEEEEEee--cCCCCcceeeeeEEEEe
Q 005296 281 KGKVRPESVIEAATLAANRQPFEVVYYPRASTPEFCVKASMVKAALQIRWCSGMRFKMAFE--TEDSSRISWFMGTISSV 358 (703)
Q Consensus 281 ~g~v~~~~V~~aa~~aa~g~~F~V~Y~Pr~~~~eFvV~~~~y~~A~~~~w~~GmRFkM~fE--~EDss~~~w~~GTI~~v 358 (703)
+. |++.+. -+-.+.|.++|....+.+||+|.++.|++|++++|+++++||.-+. +|+- -+||.|+|.++
T Consensus 937 l~------~idp~s-~~~~k~F~ltlpdlv~fpDFlV~rsrYd~AiQrnW~~~d~crvwwrda~~e~--g~WWeG~ils~ 1007 (1113)
T KOG0644|consen 937 LA------VIDPAS-KLMDKSFKLTLPDLVTFPDFLVERSRYDAAIQRNWTCRDKCRVWWRDAGEED--GAWWEGRILSV 1007 (1113)
T ss_pred ee------eecchh-hhhhccceeecccccCcchhhhhhhhHHHHHhhccccccceeEEEccCCCcC--Cceeeeeeeec
Confidence 76 889777 4556789999999999999999999999999999999999999993 2222 26999999999
Q ss_pred ecCCCCCCCCCCccceecccCcccccCCCCccccceeeeccC
Q 005296 359 QVSDPLYWPDSPWRLLQVTWDEPDLLQNVKRVSPWLVELVSN 400 (703)
Q Consensus 359 ~~~dp~~wp~S~WR~L~V~WDe~~~~~~~~RVSPWeIE~v~~ 400 (703)
++..| .+|+|+|+|+.|+||..+ .+.-||||.|++..
T Consensus 1008 ~pksp-~fpdSpwery~v~~~~~e----~~~~spwe~~~i~d 1044 (1113)
T KOG0644|consen 1008 KPKSP-DFPDSPWERYIVRYDNTE----TELHSPWEMEPIPD 1044 (1113)
T ss_pred cCCCC-CCCCCcceeEEEEecCCc----ccccCccccCCCcc
Confidence 99999 999999999999999998 58889999998863
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=98.11 E-value=9.6e-06 Score=78.84 Aligned_cols=90 Identities=22% Similarity=0.291 Sum_probs=60.1
Q ss_pred cceEEEEecccccCCCCC----ceEEccccccccCCCCCC-CCCCCceEEEEEeCCC--CeEEEEEEEeCC------CCc
Q 005296 118 KPASFAKTLTQSDANNGG----GFSVPRYCAETIFPRLDY-SADPPVQTILAKDVHG--ETWKFRHIYRGT------PRR 184 (703)
Q Consensus 118 ~~~~F~K~LT~SDv~~~g----rfsVPk~~Ae~~FP~Ld~-~~~~p~q~L~~~D~~G--~~W~Fr~~yr~~------~rr 184 (703)
....|+|.|++.|++.+| |+.|||..++..||.+.. +...|..+|.+++..| ..|+||++|.|+ .+.
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 356899999999999665 799999999999998766 6677899999999887 668999999987 577
Q ss_pred eeec--cchhhhhhccCCCCCCEEEEE
Q 005296 185 HLLT--TGWSTFVNHKKLVAGDSIVFL 209 (703)
Q Consensus 185 ~~LT--tGWs~FV~~K~L~aGD~VvF~ 209 (703)
+.|| ++=..|.+. =..||-+||.
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 2367777775
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=97.53 E-value=0.00014 Score=68.11 Aligned_cols=78 Identities=18% Similarity=0.231 Sum_probs=60.4
Q ss_pred ceEEEEecccccCC-CCCceEEccccccccCCCCCC------------CCCCCceEEEEEeCCCCeEEEEEEEeCC---C
Q 005296 119 PASFAKTLTQSDAN-NGGGFSVPRYCAETIFPRLDY------------SADPPVQTILAKDVHGETWKFRHIYRGT---P 182 (703)
Q Consensus 119 ~~~F~K~LT~SDv~-~~grfsVPk~~Ae~~FP~Ld~------------~~~~p~q~L~~~D~~G~~W~Fr~~yr~~---~ 182 (703)
-..|.|+|++||+. .+.||+||-..... ...|.. ....-...+.+.|..++.|..++..|.. .
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 57999999999998 45899999986633 122221 1123357888999999999999999976 4
Q ss_pred Cceeeccchhhhhhc
Q 005296 183 RRHLLTTGWSTFVNH 197 (703)
Q Consensus 183 rr~~LTtGWs~FV~~ 197 (703)
..|+|++||..+|++
T Consensus 100 ~~YvL~~gWn~VV~~ 114 (114)
T PF03754_consen 100 SNYVLNSGWNKVVED 114 (114)
T ss_pred eEEEEEcChHhhccC
Confidence 789999999999864
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=96.42 E-value=0.01 Score=50.98 Aligned_cols=67 Identities=25% Similarity=0.426 Sum_probs=53.5
Q ss_pred ceEEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCCC-ChHHHHhhce
Q 005296 619 HCKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGDE-PFSDFMKTAR 688 (703)
Q Consensus 619 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD~-PW~~F~~~vk 688 (703)
.+|+...|. +=|.+.+..--+|++|..++++.|++. ...+.+.|.|.|||+..+-++ =|.+.++.++
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 478887664 444688888889999999999999997 234689999999999988755 4777777765
No 8
>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=95.88 E-value=0.037 Score=47.17 Aligned_cols=65 Identities=29% Similarity=0.396 Sum_probs=48.7
Q ss_pred eEEeecccceeeccccC-CCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCC-CChHHHHhhce
Q 005296 620 CKVFMESEDVGRTLDLS-LLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGD-EPFSDFMKTAR 688 (703)
Q Consensus 620 ~KV~meG~~vGR~vDLs-~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD-~PW~~F~~~vk 688 (703)
+||+-.|.. |.+=+. .--+|++|..+|.+.|++.. ..+.+.|.|.|||+..+.+ +=|++-++.++
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 677766542 333333 77899999999999999874 3468899999999999988 45666566554
No 9
>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=95.86 E-value=0.028 Score=50.82 Aligned_cols=67 Identities=24% Similarity=0.277 Sum_probs=52.4
Q ss_pred eEEeecccceeeccccC---CCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCCCChHHHHhhceE
Q 005296 620 CKVFMESEDVGRTLDLS---LLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGDEPFSDFMKTARR 689 (703)
Q Consensus 620 ~KV~meG~~vGR~vDLs---~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD~PW~~F~~~vkr 689 (703)
+||.-+|.-+==++++. .--+|++|..++++.|.+.. ...+.+.|.|.+|||..+-++ .++..++.+
T Consensus 3 vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~-~~~~~l~Y~Dedgd~V~l~~D--~DL~~a~~~ 72 (91)
T cd06398 3 VKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSP-DADLSLTYTDEDGDVVTLVDD--NDLTDAIQY 72 (91)
T ss_pred EEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCC-CCcEEEEEECCCCCEEEEccH--HHHHHHHHH
Confidence 68888777444455553 45799999999999999965 456788999999999999877 677666654
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=95.85 E-value=0.028 Score=49.84 Aligned_cols=57 Identities=18% Similarity=0.186 Sum_probs=43.8
Q ss_pred ceEEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCCC
Q 005296 619 HCKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGDE 678 (703)
Q Consensus 619 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD~ 678 (703)
.+||...|.- +.+-|..--+|++|.++++++|++.. .-.+.|-|.|+||||..+--+
T Consensus 2 ~vK~~~~~d~--~r~~l~~~~~~~~L~~~i~~r~~~~~-~~~f~LkY~Ddegd~v~ltsd 58 (82)
T cd06407 2 RVKATYGEEK--IRFRLPPSWGFTELKQEIAKRFKLDD-MSAFDLKYLDDDEEWVLLTCD 58 (82)
T ss_pred EEEEEeCCeE--EEEEcCCCCCHHHHHHHHHHHhCCCC-CCeeEEEEECCCCCeEEeecH
Confidence 4788887753 34445555599999999999999963 245788999999999987544
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=95.65 E-value=0.035 Score=49.38 Aligned_cols=64 Identities=14% Similarity=0.174 Sum_probs=50.9
Q ss_pred ceEEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcC-CCChHHHHhh
Q 005296 619 HCKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIG-DEPFSDFMKT 686 (703)
Q Consensus 619 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvG-D~PW~~F~~~ 686 (703)
.+||.-.|.-+==+++-+..-+|++|..+++++|++. .+.|-|.|.||||.++- |.=.++.++.
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 3688888877777777777889999999999999999 47899999999998764 3334454444
No 12
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=95.48 E-value=0.063 Score=46.00 Aligned_cols=66 Identities=21% Similarity=0.339 Sum_probs=50.1
Q ss_pred ceEEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCCC-ChHHHHhhce
Q 005296 619 HCKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGDE-PFSDFMKTAR 688 (703)
Q Consensus 619 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD~-PW~~F~~~vk 688 (703)
-+||.-.| -=|.+-+..--+|++|+.++.+.|++.. -.+.+-|+|.|||+..+.++ =|.+-+.+++
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 36777643 3577778788899999999999999864 23678899999999877654 5666666555
No 13
>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=94.85 E-value=0.091 Score=46.59 Aligned_cols=71 Identities=25% Similarity=0.356 Sum_probs=51.4
Q ss_pred eEEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCCC-ChHHHHhhce---EEEE
Q 005296 620 CKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGDE-PFSDFMKTAR---RLTI 692 (703)
Q Consensus 620 ~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD~-PW~~F~~~vk---rl~I 692 (703)
||...+.+=-=-.+|.....+|++++..|+.|+.|.+ +.+.|-|.|.+||.+-+-.+ -+..=+.+++ ||.|
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 4555555433336777788999999999999999986 55688899999999988755 3333344455 4444
No 14
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=93.14 E-value=0.13 Score=46.21 Aligned_cols=51 Identities=24% Similarity=0.299 Sum_probs=39.8
Q ss_pred ceeeccccC--CCCCHHHHHHHHHhhhCCCCc-CcceeEEEEeCCCCEEEcCCC
Q 005296 628 DVGRTLDLS--LLGSYDELYKKLAEMFGIENA-ETLSHLLYRDVTGAVKHIGDE 678 (703)
Q Consensus 628 ~vGR~vDLs--~~~sY~eL~~~L~~MF~i~~~-el~~~v~Y~D~eGD~mlvGD~ 678 (703)
+-||.+=++ ...|+.+|..+.++-|+++.. .-.+.+.|.|+||||.++--+
T Consensus 8 ~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~VllT~D 61 (86)
T cd06409 8 PKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVLITSD 61 (86)
T ss_pred CCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEEEecc
Confidence 356655444 368999999999999999863 246799999999999887544
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=91.96 E-value=0.44 Score=42.71 Aligned_cols=57 Identities=19% Similarity=0.211 Sum_probs=45.9
Q ss_pred ceEEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCCC
Q 005296 619 HCKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGDE 678 (703)
Q Consensus 619 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD~ 678 (703)
.+|++-.|.-+-=.+|. .-+|++|.+++.+||.... +-.+++-|.|.|||.--+...
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 36888877655555666 5689999999999999865 456799999999999888764
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=91.43 E-value=0.91 Score=40.58 Aligned_cols=72 Identities=22% Similarity=0.310 Sum_probs=49.0
Q ss_pred eEEeecccceeeccccCCC-CCHHHHHHHHHhhhCCC-CcCcceeEEEEeCCCCEEEcCCC---ChHHHHhhceEEEEe
Q 005296 620 CKVFMESEDVGRTLDLSLL-GSYDELYKKLAEMFGIE-NAETLSHLLYRDVTGAVKHIGDE---PFSDFMKTARRLTIL 693 (703)
Q Consensus 620 ~KV~meG~~vGR~vDLs~~-~sY~eL~~~L~~MF~i~-~~el~~~v~Y~D~eGD~mlvGD~---PW~~F~~~vkrl~I~ 693 (703)
+|+.. |.+|=| +=+..- -+|.+|...+.+.|... +..-...|-|.|.|||+.-+-+. -|..=+...+||+|.
T Consensus 3 iK~~~-g~DiR~-~~~~~~~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGDlVTIts~~dL~~A~~~~~~~~l~~~ 79 (81)
T cd06401 3 LKAQL-GDDIRR-IPIHNEDITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGDLITIFDSSDLSFAIQCSRILKLTLF 79 (81)
T ss_pred EEEEe-CCeEEE-EeccCccccHHHHHHHHHHHhccccCCcccEEEEEECCCCCEEEeccHHHHHHHHhcCcceEEEEe
Confidence 46664 666755 333332 39999999999999964 22234567799999999999876 333334556677664
No 17
>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=89.42 E-value=1.2 Score=40.23 Aligned_cols=59 Identities=20% Similarity=0.380 Sum_probs=41.9
Q ss_pred ceEEeecc----cceee-ccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCCC
Q 005296 619 HCKVFMES----EDVGR-TLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGDE 678 (703)
Q Consensus 619 ~~KV~meG----~~vGR-~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD~ 678 (703)
.||.+..| ..|=| +||=....+|++|+..+.++|..-. +-.+.+-|.|.|||..-+..+
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~~~~s~~~L~~~V~~~f~~l~-~~~ftlky~DeeGDlvtIssd 65 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDEDVSTSYEYLVEKVAAVFPSLR-GKNFQLFWKDEEGDLVAFSSD 65 (87)
T ss_pred eEEEeecCCCCccceEEEEecCCCCcCHHHHHHHHHHHccccC-CCcEEEEEECCCCCEEeecCH
Confidence 35666555 22322 3455667799999999999995432 244688999999999988765
No 18
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=88.01 E-value=1.3 Score=40.07 Aligned_cols=55 Identities=18% Similarity=0.346 Sum_probs=44.8
Q ss_pred cceEEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCCC
Q 005296 618 GHCKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGDE 678 (703)
Q Consensus 618 ~~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD~ 678 (703)
-.+||+-+|. -|.+-+..-=+|++|..++.++|++.. ...|-|.|. ||+.-+++.
T Consensus 3 ikVKv~~~~D--v~~i~v~~~i~f~dL~~kIrdkf~~~~---~~~iKykDE-GD~iti~sq 57 (86)
T cd06408 3 IRVKVHAQDD--TRYIMIGPDTGFADFEDKIRDKFGFKR---RLKIKMKDD-GDMITMGDQ 57 (86)
T ss_pred EEEEEEecCc--EEEEEcCCCCCHHHHHHHHHHHhCCCC---ceEEEEEcC-CCCccccCH
Confidence 4579998776 566666666679999999999999963 457889999 999999875
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=86.48 E-value=1.9 Score=38.64 Aligned_cols=65 Identities=15% Similarity=0.274 Sum_probs=49.0
Q ss_pred EEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCC-CChHHHHhhceE
Q 005296 621 KVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGD-EPFSDFMKTARR 689 (703)
Q Consensus 621 KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD-~PW~~F~~~vkr 689 (703)
||.-+| --|++....-=+|.+|.++|+.+|.|... ...|+|.|.+||..-+-| +=.++|.+-..|
T Consensus 4 Kv~~~g--~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~--~~~vtYiDeD~D~ITlssd~eL~d~~~~~~~ 69 (82)
T cd06397 4 KSSFLG--DTRRIVFPDIPTWEALASKLENLYNLPEI--KVGVTYIDNDNDEITLSSNKELQDFYRLSHR 69 (82)
T ss_pred EEEeCC--ceEEEecCCCccHHHHHHHHHHHhCCChh--HeEEEEEcCCCCEEEecchHHHHHHHHhccc
Confidence 666555 35777777788999999999999999742 268899999999875554 466677665555
No 20
>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=68.71 E-value=18 Score=32.54 Aligned_cols=69 Identities=20% Similarity=0.284 Sum_probs=51.8
Q ss_pred eEEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCC-CCEEEcCCCChHHHHhhce--EEEEe
Q 005296 620 CKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVT-GAVKHIGDEPFSDFMKTAR--RLTIL 693 (703)
Q Consensus 620 ~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~e-GD~mlvGD~PW~~F~~~vk--rl~I~ 693 (703)
+||+-++ -=+|-...=-+|.+|++.|.+-+.+.+++ .+|-|.|.+ |+...++|.=++.=.+.|| ||++.
T Consensus 5 vKV~f~~---tIaIrvp~~~~y~~L~~ki~~kLkl~~e~--i~LsYkde~s~~~v~l~d~dle~aws~~~~~~lTLw 76 (80)
T cd06406 5 VKVHFKY---TVAIQVARGLSYATLLQKISSKLELPAEH--ITLSYKSEASGEDVILSDTNMEDVWSQAKDGCLTLW 76 (80)
T ss_pred EEEEEEE---EEEEEcCCCCCHHHHHHHHHHHhCCCchh--cEEEeccCCCCCccCcChHHHHHHHHhhcCCeEEEE
Confidence 5999887 23455555668999999999999996533 477899865 3554559999998888887 77764
No 21
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=62.86 E-value=11 Score=30.67 Aligned_cols=28 Identities=25% Similarity=0.451 Sum_probs=23.9
Q ss_pred CcccccEEEEEeecCCCCcceeeeeEEEEeec
Q 005296 329 RWCSGMRFKMAFETEDSSRISWFMGTISSVQV 360 (703)
Q Consensus 329 ~w~~GmRFkM~fE~EDss~~~w~~GTI~~v~~ 360 (703)
.|.+|+++...++.++ +||.|+|+.+..
T Consensus 2 ~~~~G~~Ve~~~~~~~----~W~~a~V~~~~~ 29 (61)
T smart00743 2 DFKKGDRVEVFSKEED----SWWEAVVTKVLG 29 (61)
T ss_pred CcCCCCEEEEEECCCC----EEEEEEEEEECC
Confidence 5889999999996554 899999999964
No 22
>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=60.64 E-value=15 Score=33.54 Aligned_cols=41 Identities=27% Similarity=0.325 Sum_probs=34.8
Q ss_pred ccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCCC
Q 005296 634 DLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGDE 678 (703)
Q Consensus 634 DLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD~ 678 (703)
||+..-+|.+|.....+-|..+. ..+-|+|.|||..-+=|+
T Consensus 23 ~l~~~P~~kdLl~lmr~~f~~~d----IaLNYrD~EGDLIRlldd 63 (92)
T cd06399 23 DLSSTPLLKDLLELTRREFQRED----IALNYRDAEGDLIRLLSD 63 (92)
T ss_pred ccccCccHHHHHHHHHHHhchhh----eeeeeecCCCCEEEEcch
Confidence 78899999999999999999876 466799999998766544
No 23
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=58.39 E-value=6.7 Score=47.83 Aligned_cols=64 Identities=22% Similarity=0.450 Sum_probs=45.7
Q ss_pred ccCCCCCCeEEEeeccccccccCC----CCCCCC--CCCCCcceeeEeeeEeeeCCCccceeEEEEeecC
Q 005296 31 VQMPPVNSRVFYFPQGHAEHACGP----VDFRSC--RRIPPYILCRVSPIKFMADPETDEVYAKIKLVPV 94 (703)
Q Consensus 31 v~~P~~gs~V~YFPqGH~Eq~~~~----~~~~~~--~~~P~~ilCrV~~V~l~Ad~~TDEVyAki~L~P~ 94 (703)
-.||..|..|.||-|||-|-+.+. .++... .++-..=.|.|..+.+--=|....--.+|.|.=+
T Consensus 871 ryipQmgDEViyfrQghqeyl~~~~~n~~~~~~~~p~~~~~v~~~kv~kl~~~~y~~~~~s~c~m~l~~i 940 (1113)
T KOG0644|consen 871 RYIPQMGDEVIYFRQGHQEYLEAVRLNNIELNNKEPWNKMAVEICKVEKLVYITYPGSGDSCCKMKLAVI 940 (1113)
T ss_pred cccccccceeehhhhhhHHHHhhhhhccccccccCcccccchhhheeeeeeeeeccCCCcchheeeeeee
Confidence 368999999999999999999872 222211 1133456899988887777777777777777643
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=43.68 E-value=31 Score=27.07 Aligned_cols=27 Identities=15% Similarity=0.288 Sum_probs=22.4
Q ss_pred hhhhhccCCCCCCEEEEEEecCCcEEE
Q 005296 192 STFVNHKKLVAGDSIVFLRAENGDLCV 218 (703)
Q Consensus 192 s~FV~~K~L~aGD~VvF~R~~~G~l~V 218 (703)
..|.++.+|.+||.|.|.-.++|++.+
T Consensus 13 k~~~~~l~l~~Gd~v~i~~~~~g~i~i 39 (47)
T PF04014_consen 13 KEIREKLGLKPGDEVEIEVEGDGKIVI 39 (47)
T ss_dssp HHHHHHTTSSTTTEEEEEEETTSEEEE
T ss_pred HHHHHHcCCCCCCEEEEEEeCCCEEEE
Confidence 356788899999999999999886554
No 25
>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=37.51 E-value=49 Score=26.20 Aligned_cols=38 Identities=16% Similarity=0.374 Sum_probs=28.4
Q ss_pred CcccccEEEEEeecCCCCcceeeeeEEEEeecCCCCCCCCCCccceecccCcc
Q 005296 329 RWCSGMRFKMAFETEDSSRISWFMGTISSVQVSDPLYWPDSPWRLLQVTWDEP 381 (703)
Q Consensus 329 ~w~~GmRFkM~fE~EDss~~~w~~GTI~~v~~~dp~~wp~S~WR~L~V~WDe~ 381 (703)
.|.+|..+...+ .+. .||.|+|+++.. + ..+.|.-++-
T Consensus 2 ~~~~G~~~~a~~-~d~----~wyra~I~~~~~-------~---~~~~V~f~D~ 39 (57)
T smart00333 2 TFKVGDKVAARW-EDG----EWYRARIIKVDG-------E---QLYEVFFIDY 39 (57)
T ss_pred CCCCCCEEEEEe-CCC----CEEEEEEEEECC-------C---CEEEEEEECC
Confidence 588999999999 444 799999999963 1 3455666553
No 26
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=36.74 E-value=45 Score=30.57 Aligned_cols=28 Identities=21% Similarity=0.427 Sum_probs=22.6
Q ss_pred hhhccCCCCCCEEEEEEecCCcEEEEEE
Q 005296 194 FVNHKKLVAGDSIVFLRAENGDLCVGIR 221 (703)
Q Consensus 194 FV~~K~L~aGD~VvF~R~~~G~l~VGIR 221 (703)
|.-...|++||.|..+|..+|..++-+-
T Consensus 71 i~~~~~Lk~GD~V~ll~~~~gQ~yiVlD 98 (100)
T PF10844_consen 71 ITFTDGLKVGDKVLLLRVQGGQKYIVLD 98 (100)
T ss_pred EEEecCCcCCCEEEEEEecCCCEEEEEE
Confidence 5666789999999999998887666543
No 27
>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=32.50 E-value=62 Score=27.38 Aligned_cols=42 Identities=21% Similarity=0.347 Sum_probs=26.3
Q ss_pred cccccEEEEEeecCCCCcceeeeeEEEEeecCCCCCCCCCCccceecccCccc
Q 005296 330 WCSGMRFKMAFETEDSSRISWFMGTISSVQVSDPLYWPDSPWRLLQVTWDEPD 382 (703)
Q Consensus 330 w~~GmRFkM~fE~EDss~~~w~~GTI~~v~~~dp~~wp~S~WR~L~V~WDe~~ 382 (703)
|..|+++...-+ |+..+-+||.|||+..... + .+.|+.++-.
T Consensus 1 F~~G~~VEV~s~-e~g~~gaWf~a~V~~~~~~-------~---~~~V~Y~~~~ 42 (68)
T PF05641_consen 1 FKKGDEVEVSSD-EDGFRGAWFPATVLKENGD-------D---KYLVEYDDLP 42 (68)
T ss_dssp --TT-EEEEEE--SBTT--EEEEEEEEEEETT-----------EEEEEETT-S
T ss_pred CCCCCEEEEEEc-CCCCCcEEEEEEEEEeCCC-------c---EEEEEECCcc
Confidence 468999998765 4555779999999998742 1 6778886543
No 28
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=32.02 E-value=62 Score=24.21 Aligned_cols=27 Identities=22% Similarity=0.469 Sum_probs=22.4
Q ss_pred hhhhhccCCCCCCEEEEEEecCCcEEE
Q 005296 192 STFVNHKKLVAGDSIVFLRAENGDLCV 218 (703)
Q Consensus 192 s~FV~~K~L~aGD~VvF~R~~~G~l~V 218 (703)
..|.++-++..||.|.+....+|.+.+
T Consensus 13 ~~~r~~l~~~~gd~~~i~~~~~~~l~l 39 (43)
T TIGR01439 13 KEIREKLGLKEGDRLEVIRVEDGEIIL 39 (43)
T ss_pred HHHHHHcCcCCCCEEEEEEeCCCEEEE
Confidence 468899999999999999887776543
No 29
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=30.98 E-value=1.4e+02 Score=25.49 Aligned_cols=69 Identities=19% Similarity=0.209 Sum_probs=49.0
Q ss_pred cceEEeecccce---eeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEE-EEeCCCC-EEEcCCC-ChHHHHhh
Q 005296 618 GHCKVFMESEDV---GRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLL-YRDVTGA-VKHIGDE-PFSDFMKT 686 (703)
Q Consensus 618 ~~~KV~meG~~v---GR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~-Y~D~eGD-~mlvGD~-PW~~F~~~ 686 (703)
..+||+++...- -++|-++....-.|++..+.+.|++.+..-.|.|+ +.-..|. ..|-.|+ |+......
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 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQLQW 77 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHHHTT
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhC
Confidence 467999866653 68889999999999999999999995434457774 5544444 4443333 77766655
No 30
>PF02513 Spin-Ssty: Spin/Ssty Family; InterPro: IPR003671 Spindlin (Spin) and Ssty were first identified for their involvement in gametogenesis. Spindlin was identified as a maternal transcript present in the unfertilised egg and early embryo, and was subsequently shown to interact with the spindle apparatus during oogenesis, and may therefore be important for mitosis []. In addition, spindlin appears to be a target for cell cycle-dependent phosphorylation, and as such may play a role in cell cycle regulation during the transition from gamete to embryo []. Ssty is a multi-copy, Y-linked spermatogenesis-specific transcript that appears to be required for normal spermatogenesis []. Ssty may play an analogous role to spindlin in sperm cells, namely during the transition from sperm cells to early embryo, and in mitosis.; GO: 0007276 gamete generation; PDB: 2NS2_A.
Probab=27.56 E-value=1e+02 Score=25.51 Aligned_cols=31 Identities=19% Similarity=0.386 Sum_probs=22.7
Q ss_pred cccEEEEEeecCCCCcceeeeeEEEEeecCCC
Q 005296 332 SGMRFKMAFETEDSSRISWFMGTISSVQVSDP 363 (703)
Q Consensus 332 ~GmRFkM~fE~EDss~~~w~~GTI~~v~~~dp 363 (703)
+|-|+.-.||.++.+... |.|+|...-+..|
T Consensus 1 vGk~Veh~~~~g~g~~s~-w~G~Vl~Qvp~~p 31 (50)
T PF02513_consen 1 VGKRVEHTWEDGDGPKSK-WKGMVLHQVPAKP 31 (50)
T ss_dssp TT-EEEEEECTSTS-EEE-EEEEEEEE-TTST
T ss_pred CCceEEEEEccCCCcccE-EEEEEEEEeecCC
Confidence 588999999988888755 6999998876655
No 31
>PRK03760 hypothetical protein; Provisional
Probab=27.42 E-value=1.2e+02 Score=28.87 Aligned_cols=28 Identities=25% Similarity=0.484 Sum_probs=22.3
Q ss_pred CCCceee--ccchhhhhhccCCCCCCEEEEEEe
Q 005296 181 TPRRHLL--TTGWSTFVNHKKLVAGDSIVFLRA 211 (703)
Q Consensus 181 ~~rr~~L--TtGWs~FV~~K~L~aGD~VvF~R~ 211 (703)
.+-+|+| ..|| +.+.++++||.|.|.|+
T Consensus 88 ~~a~~VLEl~aG~---~~~~gi~~Gd~v~~~~~ 117 (117)
T PRK03760 88 KPARYIIEGPVGK---IRVLKVEVGDEIEWIDE 117 (117)
T ss_pred ccceEEEEeCCCh---HHHcCCCCCCEEEEeeC
Confidence 3466887 6777 78899999999998763
No 32
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.56 E-value=1.3e+02 Score=33.00 Aligned_cols=74 Identities=26% Similarity=0.409 Sum_probs=52.1
Q ss_pred ceEEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEE-EeCCCCEEEcCCCChHHHHhh-----ceEEEE
Q 005296 619 HCKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLY-RDVTGAVKHIGDEPFSDFMKT-----ARRLTI 692 (703)
Q Consensus 619 ~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y-~D~eGD~mlvGD~PW~~F~~~-----vkrl~I 692 (703)
+|..- +|.|+|| +..|++-+|||+.+++-|+|...++.+.-+- ---|=+-||-|-.=+++|+=. .|-+.|
T Consensus 57 ~~QLA-HGSptg~---Ie~fsnv~ELY~kIAe~F~Is~~dIlfcTlNshKvDM~~llgGqigleDfiFAHvkGq~kEv~v 132 (334)
T KOG3938|consen 57 HCQLA-HGSPTGR---IEGFSNVRELYQKIAEAFDISPDDILFCTLNSHKVDMKRLLGGQIGLEDFIFAHVKGQAKEVEV 132 (334)
T ss_pred eeeec-cCCccce---ecccccHHHHHHHHHHHhcCCccceEEEecCCCcccHHHHhcCccChhhhhhhhhcCcceeEEE
Confidence 44444 7999998 5678999999999999999987665432211 012334488899999998643 567888
Q ss_pred ecCC
Q 005296 693 LMDS 696 (703)
Q Consensus 693 ~~~~ 696 (703)
+++.
T Consensus 133 ~Kse 136 (334)
T KOG3938|consen 133 VKSE 136 (334)
T ss_pred Eecc
Confidence 7753
No 33
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=24.78 E-value=2.3e+02 Score=24.96 Aligned_cols=38 Identities=21% Similarity=0.126 Sum_probs=25.6
Q ss_pred eeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCC
Q 005296 629 VGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTG 670 (703)
Q Consensus 629 vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eG 670 (703)
.-|+++ ..-...+|..+|+.+||+.-+.+ ++.|.|.+|
T Consensus 15 ~ekr~~--~~~Tv~~lK~kl~~~~G~~~~~m--rL~l~~~~~ 52 (84)
T cd01789 15 FEKKYS--RGLTIAELKKKLELVVGTPASSM--RLQLFDGDD 52 (84)
T ss_pred eeEecC--CCCcHHHHHHHHHHHHCCCccce--EEEEEcCCC
Confidence 335554 55689999999999999976444 444444443
No 34
>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]
Probab=24.12 E-value=77 Score=36.84 Aligned_cols=42 Identities=24% Similarity=0.472 Sum_probs=27.3
Q ss_pred cccccEEEEEeecCCCCcceeeeeEEEEeecCCCCCCCCCCccceecccCcccccCC
Q 005296 330 WCSGMRFKMAFETEDSSRISWFMGTISSVQVSDPLYWPDSPWRLLQVTWDEPDLLQN 386 (703)
Q Consensus 330 w~~GmRFkM~fE~EDss~~~w~~GTI~~v~~~dp~~wp~S~WR~L~V~WDe~~~~~~ 386 (703)
..+|.|+|..+|- .. -+|.|+|.| |++ +| |.|.||++.-..+
T Consensus 3 ~~IG~RvkI~~~~---~T-vr~iG~V~g--------~~~-~w--~GvEWDd~~RGKH 44 (505)
T KOG3207|consen 3 MEIGTRVKIGGEI---AT-VRYIGEVEG--------NNS-KW--YGVEWDDPVRGKH 44 (505)
T ss_pred eeccceEEEcCEE---EE-EEEEEEEcC--------CCC-cc--eeeEecCCCcccc
Confidence 4689999987742 11 246666643 444 45 7899999975543
No 35
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=23.39 E-value=1.1e+02 Score=33.68 Aligned_cols=80 Identities=25% Similarity=0.295 Sum_probs=53.1
Q ss_pred cceEEeecccceeeccccCCCCCHHHHHHHHHhhhCCCCcCcceeEEEEeCCCCEEEcCCC-ChHHHHhhce---EEEEe
Q 005296 618 GHCKVFMESEDVGRTLDLSLLGSYDELYKKLAEMFGIENAETLSHLLYRDVTGAVKHIGDE-PFSDFMKTAR---RLTIL 693 (703)
Q Consensus 618 ~~~KV~meG~~vGR~vDLs~~~sY~eL~~~L~~MF~i~~~el~~~v~Y~D~eGD~mlvGD~-PW~~F~~~vk---rl~I~ 693 (703)
..||-..+-+=---.++-..-++|++.+.-|+++-.|.+ +...+-|.|.-||.+-+-.+ -+..=+++++ ||.|-
T Consensus 19 veVKSKFdaEfRRfsl~r~~~~~f~~F~~Lv~~~H~i~n--vdvllgY~d~hgDLLPinNDDn~~ka~~sa~PlLR~~iQ 96 (358)
T KOG3606|consen 19 VEVKSKFDAEFRRFSLPRHSASSFDEFYSLVEHLHHIPN--VDVLLGYADTHGDLLPINNDDNLHKALSSARPLLRLLIQ 96 (358)
T ss_pred EEeeccccchhheecccccCcccHHHHHHHHHHHhcCCC--ceEEEEEecCCCceecccCchhHHHHhhccCchhhhhhh
Confidence 344444433322224555666799999999999988876 33467799999999987655 4444444454 77887
Q ss_pred cCCCCC
Q 005296 694 MDSGSD 699 (703)
Q Consensus 694 ~~~~~~ 699 (703)
+.++.+
T Consensus 97 kr~ea~ 102 (358)
T KOG3606|consen 97 KREEAD 102 (358)
T ss_pred hhhhhh
Confidence 776654
No 36
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=22.43 E-value=1.1e+02 Score=28.31 Aligned_cols=47 Identities=26% Similarity=0.362 Sum_probs=29.8
Q ss_pred eccccCCCCCHHHHHHHHHhhhCCCCc-CcceeEEEEeCCCCEEEcCCC
Q 005296 631 RTLDLSLLGSYDELYKKLAEMFGIENA-ETLSHLLYRDVTGAVKHIGDE 678 (703)
Q Consensus 631 R~vDLs~~~sY~eL~~~L~~MF~i~~~-el~~~v~Y~D~eGD~mlvGD~ 678 (703)
|.|.+..--+|.||..+|.++|++... .++|++-.+|.+ -..-|-++
T Consensus 25 r~i~V~r~~s~~el~~kl~~~~~~~~~~~lky~Lp~edld-~Lisv~~D 72 (97)
T cd06410 25 RIVSVDRSISFKELVSKLSELFGAGVVVTLKYQLPDEDLD-ALISVSND 72 (97)
T ss_pred EEEEEcCCCCHHHHHHHHHHHhCCCCceEEEEEcCCCCcc-eeEEecCc
Confidence 333344445999999999999999763 345555554444 24445544
No 37
>PF03120 DNA_ligase_OB: NAD-dependent DNA ligase OB-fold domain; InterPro: IPR004150 DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This family is a small domain found after the adenylation domain DNA_ligase_N in NAD+-dependent ligases (IPR001679 from INTERPRO). OB-fold domains generally are involved in nucleic acid binding.; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 2OWO_A 1TAE_A 3UQ8_A 1DGS_A 1V9P_B 3SGI_A.
Probab=22.36 E-value=67 Score=28.93 Aligned_cols=32 Identities=19% Similarity=0.358 Sum_probs=22.0
Q ss_pred hhhhhccCCCCCCEEEEEEecCCcE-EEEEEEe
Q 005296 192 STFVNHKKLVAGDSIVFLRAENGDL-CVGIRRA 223 (703)
Q Consensus 192 s~FV~~K~L~aGD~VvF~R~~~G~l-~VGIRR~ 223 (703)
..|+++++|..||.|.++|..+.=- .+++-..
T Consensus 42 ~~~i~~~~i~~Gd~V~V~raGdVIP~I~~vv~~ 74 (82)
T PF03120_consen 42 YDYIKELDIRIGDTVLVTRAGDVIPKIVGVVKE 74 (82)
T ss_dssp HHHHHHTT-BBT-EEEEEEETTTEEEEEEE-GG
T ss_pred HHHHHHcCCCCCCEEEEEECCCccceEeEeehh
Confidence 4789999999999999999987632 3344433
No 38
>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=22.20 E-value=79 Score=30.05 Aligned_cols=26 Identities=23% Similarity=0.442 Sum_probs=17.3
Q ss_pred cCCCCCCEEEEEEec-CCcEEEEEEEe
Q 005296 198 KKLVAGDSIVFLRAE-NGDLCVGIRRA 223 (703)
Q Consensus 198 K~L~aGD~VvF~R~~-~G~l~VGIRR~ 223 (703)
++++.||.|+||... .+.-+|||=+-
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 489999999999998 56667766554
Done!