Query psy12053
Match_columns 167
No_of_seqs 134 out of 330
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 17:27:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12053.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12053hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00537 DCX Domain in the D 100.0 1.2E-33 2.7E-38 206.4 10.1 85 72-157 3-89 (89)
2 cd01617 DCX Ubiquitin-like dom 100.0 3.2E-31 7E-36 189.9 8.6 78 75-153 1-80 (80)
3 KOG3757|consensus 100.0 1.9E-29 4.1E-34 219.8 8.8 87 73-160 28-115 (301)
4 PF03607 DCX: Doublecortin; I 99.9 1.6E-24 3.6E-29 148.1 6.6 60 92-152 1-60 (60)
5 KOG3757|consensus 98.6 2.7E-08 5.9E-13 87.6 3.8 88 67-155 146-235 (301)
6 PF11834 DUF3354: Domain of un 98.0 2.8E-05 6.1E-10 55.3 7.2 64 74-144 1-67 (69)
7 cd01763 Sumo Small ubiquitin-r 78.0 14 0.0003 26.3 6.7 65 72-142 7-77 (87)
8 cd06408 PB1_NoxR The PB1 domai 70.8 16 0.00034 27.2 5.6 57 75-138 3-61 (86)
9 cd01615 CIDE_N CIDE_N domain, 66.3 22 0.00048 25.9 5.5 48 100-147 20-71 (78)
10 cd06538 CIDE_N_FSP27 CIDE_N do 60.6 64 0.0014 23.7 7.1 53 100-152 20-76 (79)
11 smart00266 CAD Domains present 59.9 26 0.00056 25.4 4.9 48 100-147 18-69 (74)
12 cd06406 PB1_P67 A PB1 domain i 56.6 15 0.00032 27.0 3.2 39 100-138 20-62 (80)
13 cd06539 CIDE_N_A CIDE_N domain 53.4 37 0.00079 24.9 4.8 48 100-147 20-71 (78)
14 smart00666 PB1 PB1 domain. Pho 52.9 49 0.0011 22.5 5.2 46 90-138 13-62 (81)
15 PF00564 PB1: PB1 domain; Int 52.5 20 0.00043 24.4 3.2 57 76-138 3-63 (84)
16 cd06535 CIDE_N_CAD CIDE_N doma 46.0 29 0.00063 25.3 3.3 46 100-147 20-70 (77)
17 cd06537 CIDE_N_B CIDE_N domain 45.7 1.2E+02 0.0026 22.4 7.3 53 100-152 20-76 (81)
18 cd05992 PB1 The PB1 domain is 45.7 91 0.002 20.9 5.8 57 76-138 2-62 (81)
19 PF14334 DUF4390: Domain of un 43.8 27 0.00058 27.7 3.1 56 69-146 73-128 (165)
20 COG3400 Uncharacterized protei 41.3 22 0.00048 33.4 2.5 50 69-119 172-231 (471)
21 PF02017 CIDE-N: CIDE-N domain 41.0 53 0.0012 23.9 4.0 46 101-146 21-70 (78)
22 cd06402 PB1_p62 The PB1 domain 38.7 1.6E+02 0.0035 21.7 6.6 62 76-138 2-69 (87)
23 cd06536 CIDE_N_ICAD CIDE_N dom 37.0 94 0.002 22.8 4.8 48 100-147 20-73 (80)
24 cd07301 PX_SNX21 The phosphoin 35.8 64 0.0014 24.2 3.9 39 72-114 18-56 (112)
25 cd06407 PB1_NLP A PB1 domain i 34.8 1.2E+02 0.0027 21.7 5.1 57 76-139 2-63 (82)
26 cd06880 PX_SNX22 The phosphoin 34.7 61 0.0013 24.1 3.7 45 73-125 20-65 (110)
27 PF01337 Barstar: Barstar (bar 34.4 47 0.001 23.3 2.9 25 92-117 1-25 (90)
28 cd03689 RF3_II RF3_II: this su 33.8 44 0.00096 23.6 2.6 32 120-151 45-76 (85)
29 COG0537 Hit Diadenosine tetrap 33.6 15 0.00032 28.6 0.1 59 73-132 20-83 (138)
30 PF15417 DUF4624: Domain of un 32.8 32 0.00069 27.3 1.9 62 80-146 28-105 (132)
31 PF01230 HIT: HIT domain; Int 30.6 44 0.00094 23.6 2.2 31 76-107 14-44 (98)
32 PF04941 LEF-8: Late expressio 28.7 65 0.0014 32.4 3.6 50 100-153 2-53 (748)
33 PF14533 USP7_C2: Ubiquitin-sp 28.3 90 0.002 25.8 4.0 45 72-119 18-62 (213)
34 PF11673 DUF3269: Protein of u 28.1 47 0.001 24.2 2.0 33 122-154 7-40 (73)
35 PF14275 DUF4362: Domain of un 28.1 40 0.00086 25.5 1.7 45 81-132 1-46 (98)
36 KOG1775|consensus 27.5 94 0.002 23.1 3.4 50 75-138 18-67 (84)
37 cd06410 PB1_UP2 Uncharacterize 25.7 2.1E+02 0.0044 21.3 5.1 44 78-128 17-60 (97)
38 cd07279 PX_SNX20_21_like The p 25.0 1.5E+02 0.0032 21.9 4.2 37 74-114 20-56 (112)
39 cd01732 LSm5 The eukaryotic Sm 24.3 32 0.0007 24.4 0.5 58 74-145 13-71 (76)
40 PHA03394 lef-8 DNA-directed RN 24.1 58 0.0012 33.2 2.4 50 100-153 5-56 (865)
41 cd07300 PX_SNX20 The phosphoin 23.9 1.6E+02 0.0035 22.2 4.3 36 75-114 21-56 (114)
42 cd01277 HINT_subgroup HINT (hi 23.6 1.1E+02 0.0024 21.3 3.3 35 73-108 19-53 (103)
43 cd03007 PDI_a_ERp29_N PDIa fam 23.3 1.4E+02 0.003 22.9 3.9 31 74-113 81-115 (116)
44 COG5435 Uncharacterized conser 22.5 3.7E+02 0.0081 21.9 6.4 27 71-97 16-42 (147)
45 COG3823 Glutamine cyclotransfe 22.4 40 0.00087 29.7 0.9 22 124-145 168-191 (262)
46 PRK00513 minC septum formation 20.7 1E+02 0.0022 25.7 2.9 42 88-132 16-62 (214)
No 1
>smart00537 DCX Domain in the Doublecortin (DCX) gene product. Tandemly-repeated domain in doublin, the Doublecortin gene product. Proposed to bind tubulin. Doublecortin (DCX) is mutated in human X-linked neuronal migration defects.
Probab=100.00 E-value=1.2e-33 Score=206.42 Aligned_cols=85 Identities=38% Similarity=0.730 Sum_probs=81.2
Q ss_pred CCceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHh--cCCCCCcceEEEccCCceecCccccccCCeEEEecCC
Q psy12053 72 WRARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSV--RMDLPRGARYVFSMDGVRILTLDELEDNASYVVSSYK 149 (167)
Q Consensus 72 ~kaKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTe--kV~Lp~GVR~LYT~dG~~V~sLddLedG~~YVasG~E 149 (167)
.+||+|+||||||++|+|++++|++ |.+++||+||++||+ .+.+|+|||+|||++|++|.+|+||+||+.|||||.|
T Consensus 3 ~k~k~i~~~rNGD~~~~g~~~~v~~-~~~~s~d~lL~~lt~~v~l~~~~~Vr~lyt~~G~~v~~l~~l~~g~~yVa~g~e 81 (89)
T smart00537 3 VKPKRIRFYRNGDRFFKGVRLVVNR-KRFKSFEALLQDLTEVVKLDLPHGVRKLYTLDGKKVTSLDELEDGGSYVASGTE 81 (89)
T ss_pred ccceEEEEEeCCCCCCCCEEEEECh-hhcCCHHHHHHHHhhhcccCCCCCeeEEEcCCCCEECCHHHhCcCCEEEEEcCC
Confidence 5999999999999999999999998 779999999999999 6677777999999999999999999999999999999
Q ss_pred CccccCcc
Q psy12053 150 TFKVRFYP 157 (167)
Q Consensus 150 ~FKkl~Y~ 157 (167)
+||+++|+
T Consensus 82 ~fk~~~Y~ 89 (89)
T smart00537 82 AFKKVDYG 89 (89)
T ss_pred cceeCCCC
Confidence 99999995
No 2
>cd01617 DCX Ubiquitin-like domain of DCX. DCX The ubiquitin-like DCX domain is present in tandem within the N-terminal half of the doublecortin protein. Doublecortin is expressed in migrating neurons. Mutations in the gene encoding doublecortin cause lissencephaly in males and 'double-cortex syndrome' in females.
Probab=99.97 E-value=3.2e-31 Score=189.94 Aligned_cols=78 Identities=40% Similarity=0.747 Sum_probs=74.2
Q ss_pred eEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCC-CCcceEEEccCC-ceecCccccccCCeEEEecCCCcc
Q psy12053 75 RKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDL-PRGARYVFSMDG-VRILTLDELEDNASYVVSSYKTFK 152 (167)
Q Consensus 75 KrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~L-p~GVR~LYT~dG-~~V~sLddLedG~~YVasG~E~FK 152 (167)
|+|+||||||++|+|++++|++ |.++|||+||++||++|+| +.|||+|||+|| +.|.+++||++|+.|||||.|+||
T Consensus 1 k~I~~~rNGD~~~~g~~~~i~~-~~~~sfd~lL~~lt~~l~l~~~~Vr~lyt~~g~~~v~~~~~l~~g~~yVa~g~e~fk 79 (80)
T cd01617 1 KRVVVYRNGDPFFKGVRLLVNR-RRFKSFDALLDDLTEKVQLDPGAVRKLYTLDGGHRVSLLDELEDGGVYVASGREPFK 79 (80)
T ss_pred CEEEEEECCCCCCCCEEEEECh-hhhCCHHHHHHHHHHHhCCCCCcEEEEEcCCCCeEeccHHHhcCCCEEEEECCCCCC
Confidence 6899999999999999999998 7799999999999999999 666999999999 778899999999999999999998
Q ss_pred c
Q psy12053 153 V 153 (167)
Q Consensus 153 k 153 (167)
+
T Consensus 80 ~ 80 (80)
T cd01617 80 K 80 (80)
T ss_pred C
Confidence 5
No 3
>KOG3757|consensus
Probab=99.96 E-value=1.9e-29 Score=219.76 Aligned_cols=87 Identities=45% Similarity=0.821 Sum_probs=83.7
Q ss_pred CceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCcceEEEccCC-ceecCccccccCCeEEEecCCCc
Q psy12053 73 RARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARYVFSMDG-VRILTLDELEDNASYVVSSYKTF 151 (167)
Q Consensus 73 kaKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~GVR~LYT~dG-~~V~sLddLedG~~YVasG~E~F 151 (167)
++|+|.||||||+||.|++++||+ |.+++||.||++||+.|+||+|||+|||+|| ++|.+|||||||++|||++.|.|
T Consensus 28 ~ak~i~fYrnGD~~~~Gv~~vv~~-~rv~sfe~Ll~~lt~~v~lp~Gvr~iyT~~G~~~I~sldeledG~sYV~ss~~~F 106 (301)
T KOG3757|consen 28 KAKRISFYRNGDPYFKGVKFVVNP-RRVKSFEPLLEDLTRRVQLPFGVRHIYTPDGGHRITSLDELEDGGSYVASSNENF 106 (301)
T ss_pred CceEEEEeccCCccCCceEEEecc-cccCchHHHHHhhccccCCCccceeeecCCCCceeccHHHhhcccceeccCcccc
Confidence 899999999999999999999999 6699999999999999999999999999999 78899999999999999999999
Q ss_pred cccCcccce
Q psy12053 152 KVRFYPFVF 160 (167)
Q Consensus 152 Kkl~Y~~i~ 160 (167)
++++|+.+.
T Consensus 107 kp~~Y~~~~ 115 (301)
T KOG3757|consen 107 KPVDYSKIR 115 (301)
T ss_pred ccccccccc
Confidence 999998753
No 4
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=99.91 E-value=1.6e-24 Score=148.11 Aligned_cols=60 Identities=42% Similarity=0.746 Sum_probs=54.6
Q ss_pred EEECCCCCCCCHHHHHHHHHhcCCCCCcceEEEccCCceecCccccccCCeEEEecCCCcc
Q psy12053 92 YRFKPGRDIPSLEALQDKLSVRMDLPRGARYVFSMDGVRILTLDELEDNASYVVSSYKTFK 152 (167)
Q Consensus 92 vvVs~~R~~ksfd~LLd~LTekV~Lp~GVR~LYT~dG~~V~sLddLedG~~YVasG~E~FK 152 (167)
++||+ |.++|||+||++||++|+||+|||+|||++|++|.+++||+||+.|||||.|+||
T Consensus 1 ~~i~~-r~~~s~e~lL~~it~~v~l~~gVr~lyt~~G~~V~~l~~l~dg~~yVa~g~e~fk 60 (60)
T PF03607_consen 1 VVINP-RRFRSFEQLLDEITEKVQLPSGVRKLYTLDGKRVKSLDELEDGGSYVASGREPFK 60 (60)
T ss_dssp EEEST-TTHSSHHHHHHHHHHSSSSTTS-SEEEETTSSEESSGGGS-TTEEEEEESSSS--
T ss_pred CeECh-hhhcCHHHHHHHHHhhcCCCcccceEECCCCCEeCCHHHHCCCCEEEEEcCCcCC
Confidence 68998 8899999999999999999999999999999999999999999999999999997
No 5
>KOG3757|consensus
Probab=98.62 E-value=2.7e-08 Score=87.56 Aligned_cols=88 Identities=19% Similarity=0.354 Sum_probs=79.4
Q ss_pred CCCCCCCceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCc-ceEEEccCCceecCccccc-cCCeEE
Q psy12053 67 DNLSYWRARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRG-ARYVFSMDGVRILTLDELE-DNASYV 144 (167)
Q Consensus 67 ~~l~~~kaKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~G-VR~LYT~dG~~V~sLddLe-dG~~YV 144 (167)
.+.....++.|.+.+||+..-+.+++.++. +.-.+||++|..++..|.|-.| |++|||.+|.++.++++|. +++.||
T Consensus 146 ~~~~~~~p~~v~~i~~~~k~R~~~r~~~n~-~~~~Sfd~vl~~~t~~v~~~sg~~~kl~t~~~~~~~~l~~~~~~~~vf~ 224 (301)
T KOG3757|consen 146 ERVPFQRPRIVTVIREGVKPRRAVRLLLNK-KTAMSFDQVLPDVTPAVRLDSGAVKKLYTLDGKRVLSLSDFFGDDDVFV 224 (301)
T ss_pred ccCCccceeeeeeecccccccchhhcccCc-ccccchhhccccccceeecccCccccccccccccccCHHHccccccEEE
Confidence 344457899999999999999999999998 7789999999999999999999 9999999999999999999 999999
Q ss_pred EecCCCccccC
Q psy12053 145 VSSYKTFKVRF 155 (167)
Q Consensus 145 asG~E~FKkl~ 155 (167)
|+|+..|.+..
T Consensus 225 a~gg~~~~~~~ 235 (301)
T KOG3757|consen 225 AYGGAEFFRGV 235 (301)
T ss_pred ecCCCccccch
Confidence 99766666553
No 6
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=98.02 E-value=2.8e-05 Score=55.27 Aligned_cols=64 Identities=28% Similarity=0.361 Sum_probs=54.0
Q ss_pred ceEEEEEEcCCCCC---CcEEEEECCCCCCCCHHHHHHHHHhcCCCCCcceEEEccCCceecCccccccCCeEE
Q psy12053 74 ARKVTFFKNGDPYF---PGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARYVFSMDGVRILTLDELEDNASYV 144 (167)
Q Consensus 74 aKrI~vYRNGD~~f---~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~GVR~LYT~dG~~V~sLddLedG~~YV 144 (167)
++||++|.|+-... .|+-+.+. .||++||...++|+..+ ..+||+.||..|.+++-|.||+..+
T Consensus 1 ~~RVtI~~~~~~~~~~~~GKvi~lP-----~SleeLl~ia~~kfg~~--~~~v~~~dgaeIdDI~~IRDgD~L~ 67 (69)
T PF11834_consen 1 PKRVTIFPNHPPEKGRRAGKVIWLP-----DSLEELLKIASEKFGFS--ATKVLNEDGAEIDDIDVIRDGDHLY 67 (69)
T ss_pred CcEEEEecCCCCcccCcCCEEEEcC-----ccHHHHHHHHHHHhCCC--ceEEEcCCCCEEeEEEEEEcCCEEE
Confidence 57999998876544 47655554 49999999999999996 8999999999999999999998743
No 7
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=78.03 E-value=14 Score=26.34 Aligned_cols=65 Identities=26% Similarity=0.379 Sum_probs=46.7
Q ss_pred CCceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCc-ceEEEccCCceec---Cccccc--cCCe
Q psy12053 72 WRARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRG-ARYVFSMDGVRIL---TLDELE--DNAS 142 (167)
Q Consensus 72 ~kaKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~G-VR~LYT~dG~~V~---sLddLe--dG~~ 142 (167)
.....|.++-.+..- +-+.+-|.+ -.++..|.+.+.++..+|.. +|-+| +|+++. ++++|. +|+.
T Consensus 7 ~~~~~i~I~v~~~~g-~~~~~~v~~---~~~l~~l~~~y~~~~gi~~~~~rf~f--~G~~L~~~~T~~~l~m~d~d~ 77 (87)
T cd01763 7 EISEHINLKVKGQDG-NEVFFKIKR---STPLKKLMEAYCQRQGLSMNSVRFLF--DGQRIRDNQTPDDLGMEDGDE 77 (87)
T ss_pred CCCCeEEEEEECCCC-CEEEEEEcC---CCHHHHHHHHHHHHhCCCccceEEEE--CCeECCCCCCHHHcCCCCCCE
Confidence 566788888877632 224555643 67999999999999999987 88888 488876 455544 6554
No 8
>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=70.78 E-value=16 Score=27.15 Aligned_cols=57 Identities=19% Similarity=0.284 Sum_probs=40.2
Q ss_pred eEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCcceEEEccCCceec--Cccccc
Q psy12053 75 RKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARYVFSMDGVRIL--TLDELE 138 (167)
Q Consensus 75 KrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~GVR~LYT~dG~~V~--sLddLe 138 (167)
-+|.++-|||. +-+.|.+ -=+|++|.+.|.++.++...++-=|--+|..++ |-+||+
T Consensus 3 ikVKv~~~~Dv----~~i~v~~---~i~f~dL~~kIrdkf~~~~~~~iKykDEGD~iti~sq~DLd 61 (86)
T cd06408 3 IRVKVHAQDDT----RYIMIGP---DTGFADFEDKIRDKFGFKRRLKIKMKDDGDMITMGDQDDLD 61 (86)
T ss_pred EEEEEEecCcE----EEEEcCC---CCCHHHHHHHHHHHhCCCCceEEEEEcCCCCccccCHHHHH
Confidence 36788889996 3466765 347999999999999987555444544577655 555554
No 9
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=66.26 E-value=22 Score=25.94 Aligned_cols=48 Identities=27% Similarity=0.422 Sum_probs=38.8
Q ss_pred CCCHHHHHHHHHhcCCCCCc-ceEEEccCCceecC---ccccccCCeEEEec
Q psy12053 100 IPSLEALQDKLSVRMDLPRG-ARYVFSMDGVRILT---LDELEDNASYVVSS 147 (167)
Q Consensus 100 ~ksfd~LLd~LTekV~Lp~G-VR~LYT~dG~~V~s---LddLedG~~YVasG 147 (167)
..|++.|++...+++.++.. ++-+..-||..|.+ ..-|.++-..|+..
T Consensus 20 A~sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEeYF~tLp~nT~l~~l~ 71 (78)
T cd01615 20 ASSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEEYFQTLPDNTVLMLLE 71 (78)
T ss_pred cCCHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHHHHhcCCCCcEEEEEC
Confidence 36999999999999999765 66666789999965 55677888888775
No 10
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=60.55 E-value=64 Score=23.66 Aligned_cols=53 Identities=28% Similarity=0.328 Sum_probs=40.2
Q ss_pred CCCHHHHHHHHHhcCCCCCcceEEEccCCceecC---ccccccCCeEEEec-CCCcc
Q psy12053 100 IPSLEALQDKLSVRMDLPRGARYVFSMDGVRILT---LDELEDNASYVVSS-YKTFK 152 (167)
Q Consensus 100 ~ksfd~LLd~LTekV~Lp~GVR~LYT~dG~~V~s---LddLedG~~YVasG-~E~FK 152 (167)
..|++.||+...+++.++.-++-...-||..|.+ +.-|.++-..|+.+ +|...
T Consensus 20 A~sL~eL~~K~~~~l~l~~~~~lvL~eDGT~Vd~EeyF~tLp~nt~l~vL~~gq~W~ 76 (79)
T cd06538 20 ADSLEDLLNKVLDALLLDCISSLVLDEDGTGVDTEEFFQALADNTVFMVLGKGQKWK 76 (79)
T ss_pred cCCHHHHHHHHHHHcCCCCccEEEEecCCcEEccHHHHhhCCCCcEEEEECCCCccC
Confidence 4699999999999999965455555679999965 55677888888876 45443
No 11
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=59.89 E-value=26 Score=25.39 Aligned_cols=48 Identities=27% Similarity=0.406 Sum_probs=37.7
Q ss_pred CCCHHHHHHHHHhcCCCCCc-ceEEEccCCceecC---ccccccCCeEEEec
Q psy12053 100 IPSLEALQDKLSVRMDLPRG-ARYVFSMDGVRILT---LDELEDNASYVVSS 147 (167)
Q Consensus 100 ~ksfd~LLd~LTekV~Lp~G-VR~LYT~dG~~V~s---LddLedG~~YVasG 147 (167)
..|++.|++...+++.++.+ ++-...-||..|.+ +.-|.++-..|+.-
T Consensus 18 A~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEeyF~tLp~nt~l~~L~ 69 (74)
T smart00266 18 ASSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEEYFQTLPDNTELMALE 69 (74)
T ss_pred cCCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHHHHhcCCCCcEEEEEc
Confidence 36999999999999999965 66666779999965 45566777777653
No 12
>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=56.62 E-value=15 Score=27.02 Aligned_cols=39 Identities=21% Similarity=0.363 Sum_probs=26.4
Q ss_pred CCCHHHHHHHHHhcCCCCCc-ceEEEcc--CCceec-Cccccc
Q psy12053 100 IPSLEALQDKLSVRMDLPRG-ARYVFSM--DGVRIL-TLDELE 138 (167)
Q Consensus 100 ~ksfd~LLd~LTekV~Lp~G-VR~LYT~--dG~~V~-sLddLe 138 (167)
--+|.+|++.|++++++|.- +.-=|.. +|..+. +=+||+
T Consensus 20 ~~~y~~L~~ki~~kLkl~~e~i~LsYkde~s~~~v~l~d~dle 62 (80)
T cd06406 20 GLSYATLLQKISSKLELPAEHITLSYKSEASGEDVILSDTNME 62 (80)
T ss_pred CCCHHHHHHHHHHHhCCCchhcEEEeccCCCCCccCcChHHHH
Confidence 35899999999999999722 6666765 445533 433443
No 13
>cd06539 CIDE_N_A CIDE_N domain of CIDE-A proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45, and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, the CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=53.41 E-value=37 Score=24.90 Aligned_cols=48 Identities=27% Similarity=0.370 Sum_probs=37.9
Q ss_pred CCCHHHHHHHHHhcCCCCCc-ceEEEccCCceecC---ccccccCCeEEEec
Q psy12053 100 IPSLEALQDKLSVRMDLPRG-ARYVFSMDGVRILT---LDELEDNASYVVSS 147 (167)
Q Consensus 100 ~ksfd~LLd~LTekV~Lp~G-VR~LYT~dG~~V~s---LddLedG~~YVasG 147 (167)
..|++.|+....+++.++.+ ++-...-||..|.+ +.-|.++-..|+--
T Consensus 20 A~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT~Vd~EeyF~~LpdnT~lm~L~ 71 (78)
T cd06539 20 ASSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEEFFQTLGDNTHFMVLE 71 (78)
T ss_pred ecCHHHHHHHHHHHhCCCCCCcEEEEeCCCCEEccHHHHhhCCCCCEEEEEC
Confidence 36999999999999999775 77777789999965 45566777777653
No 14
>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=52.93 E-value=49 Score=22.47 Aligned_cols=46 Identities=22% Similarity=0.259 Sum_probs=31.8
Q ss_pred EEEEECCCCCCCCHHHHHHHHHhcCCCCC-cceEEEc-cCCceec--Cccccc
Q psy12053 90 VEYRFKPGRDIPSLEALQDKLSVRMDLPR-GARYVFS-MDGVRIL--TLDELE 138 (167)
Q Consensus 90 v~vvVs~~R~~ksfd~LLd~LTekV~Lp~-GVR~LYT-~dG~~V~--sLddLe 138 (167)
+.+.+.+ --+|+.|.+.|.+++.++. .++--|. -+|..|. +=+||+
T Consensus 13 ~~~~~~~---~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~Dl~ 62 (81)
T smart00666 13 RRLSVPR---DISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDEDLE 62 (81)
T ss_pred EEEEECC---CCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHHHHH
Confidence 4577764 4699999999999999873 3544554 4787654 545554
No 15
>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=52.48 E-value=20 Score=24.44 Aligned_cols=57 Identities=19% Similarity=0.293 Sum_probs=39.6
Q ss_pred EEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCc-ceEEEc-cCCceec--Cccccc
Q psy12053 76 KVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRG-ARYVFS-MDGVRIL--TLDELE 138 (167)
Q Consensus 76 rI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~G-VR~LYT-~dG~~V~--sLddLe 138 (167)
+|.++-+||... .+.+.. .. +|+.|++.|.+++.++.+ ++--|. -+|..|. +=+||+
T Consensus 3 ~vK~~~~~~~~~---~~~~~~--~~-s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~Dl~ 63 (84)
T PF00564_consen 3 RVKVRYGGDIRR---IISLPS--DV-SFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDEDLQ 63 (84)
T ss_dssp EEEEEETTEEEE---EEEECS--TS-HHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHHHH
T ss_pred EEEEEECCeeEE---EEEcCC--CC-CHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHHHH
Confidence 466666666543 356653 34 999999999999998733 777775 4887654 666665
No 16
>cd06535 CIDE_N_CAD CIDE_N domain of CAD nuclease. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and the release of active DFF40/CAD nuclease.
Probab=46.01 E-value=29 Score=25.35 Aligned_cols=46 Identities=28% Similarity=0.408 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHhcCCCCCc-ceEEEccCCceecCccc----cccCCeEEEec
Q psy12053 100 IPSLEALQDKLSVRMDLPRG-ARYVFSMDGVRILTLDE----LEDNASYVVSS 147 (167)
Q Consensus 100 ~ksfd~LLd~LTekV~Lp~G-VR~LYT~dG~~V~sLdd----LedG~~YVasG 147 (167)
..|++.||+...+++.++.. ++-...-||..|. || |.++-..|+.-
T Consensus 20 A~sL~eL~~K~~~~l~l~~~~~~l~L~eDGTeVt--EeyF~tLp~nT~lmvL~ 70 (77)
T cd06535 20 AKNLKELLRKGCRLLQLPCAGSRLCLYEDGTEVT--EEYFPTLPDNTELVLLT 70 (77)
T ss_pred cCCHHHHHHHHHHHhCCCCCCcEEEEecCCcEeh--HHHHhcCCCCcEEEEEc
Confidence 36999999999999999875 6655677999994 55 44666666653
No 17
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45 and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=45.72 E-value=1.2e+02 Score=22.37 Aligned_cols=53 Identities=23% Similarity=0.270 Sum_probs=40.0
Q ss_pred CCCHHHHHHHHHhcCCCCCcceEEEccCCceecC---ccccccCCeEEEec-CCCcc
Q psy12053 100 IPSLEALQDKLSVRMDLPRGARYVFSMDGVRILT---LDELEDNASYVVSS-YKTFK 152 (167)
Q Consensus 100 ~ksfd~LLd~LTekV~Lp~GVR~LYT~dG~~V~s---LddLedG~~YVasG-~E~FK 152 (167)
..|++.||....+++.++..++-...-||..|.+ +.-|.|+-..|+-- +|...
T Consensus 20 A~sL~EL~~K~~~~L~~~~~~~lvLeeDGT~Vd~EeyF~tLpdnT~lm~L~~gq~W~ 76 (81)
T cd06537 20 AASLQELLAKALETLLLSGVLTLVLEEDGTAVDSEDFFELLEDDTCLMVLEQGQSWS 76 (81)
T ss_pred ccCHHHHHHHHHHHhCCCCceEEEEecCCCEEccHHHHhhCCCCCEEEEECCCCccC
Confidence 3699999999999999975577777789999965 55666777777654 44443
No 18
>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=45.68 E-value=91 Score=20.91 Aligned_cols=57 Identities=21% Similarity=0.305 Sum_probs=37.1
Q ss_pred EEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCc-ceEEE-ccCCceec--Cccccc
Q psy12053 76 KVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRG-ARYVF-SMDGVRIL--TLDELE 138 (167)
Q Consensus 76 rI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~G-VR~LY-T~dG~~V~--sLddLe 138 (167)
+|.++=|||. +++.+.. + --+|+.|.+.|.++++++.. ++-=| +.+|..|. +=+||+
T Consensus 2 ~vK~~~~~~~----~~~~~~~-~-~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd~Dl~ 62 (81)
T cd05992 2 RVKVKYGGEI----RRFVVVS-R-SISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSDEDLE 62 (81)
T ss_pred cEEEEecCCC----EEEEEec-C-CCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCHHHHH
Confidence 4566667764 4566663 2 46999999999999998743 43334 34776544 545554
No 19
>PF14334 DUF4390: Domain of unknown function (DUF4390)
Probab=43.79 E-value=27 Score=27.67 Aligned_cols=56 Identities=23% Similarity=0.305 Sum_probs=39.1
Q ss_pred CCCCCceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCcceEEEccCCceecCccccccCCeEEEe
Q psy12053 69 LSYWRARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARYVFSMDGVRILTLDELEDNASYVVS 146 (167)
Q Consensus 69 l~~~kaKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~GVR~LYT~dG~~V~sLddLedG~~YVas 146 (167)
|++..=++-+...+|+.. . .+.+.++++.|+.+.+...++ |..+++|+.|+.|.+.
T Consensus 73 L~Y~~Ltr~Y~v~~~~~~-------~--~~~~~sL~~Al~~l~~i~~~~-------------l~~~~~L~~g~~Y~~~ 128 (165)
T PF14334_consen 73 LSYDPLTREYRVTDGGSG-------L--QQSFASLDEALRALGRIRNWP-------------LAPLSDLEPGEDYQVR 128 (165)
T ss_pred EEEeccCeeEEEEeCCCc-------c--ceecCCHHHHHHHhhccCCcE-------------eccHHHCCCCCeEEEE
Confidence 444444555555555543 1 245899999999998766665 8888999999888765
No 20
>COG3400 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.26 E-value=22 Score=33.39 Aligned_cols=50 Identities=22% Similarity=0.357 Sum_probs=39.0
Q ss_pred CCCCCceEEEEEEcCCCCCCcEEEEECCCCCC-------CCHHHHHHHHHhcC---CCCCc
Q psy12053 69 LSYWRARKVTFFKNGDPYFPGVEYRFKPGRDI-------PSLEALQDKLSVRM---DLPRG 119 (167)
Q Consensus 69 l~~~kaKrI~vYRNGD~~f~Gv~vvVs~~R~~-------ksfd~LLd~LTekV---~Lp~G 119 (167)
++..+++-+.+||||-.+++-..+++-+ |+. ..+.++.-.+++++ ++|+|
T Consensus 172 I~qk~~RIvl~YRN~klll~~~slvlqp-~D~lLVvG~P~~ln~~~H~v~~~vgqFP~pfG 231 (471)
T COG3400 172 IRQKEYRIVLLYRNDKLLLSTKSLVLQP-RDILLVVGNPEILNAVYHQVKSNVGQFPAPFG 231 (471)
T ss_pred hhhheeEEEEEEECCEEEEeccceEecC-CCEEEEeCChHHHHHHHHHHhcccccCCCCCC
Confidence 4468999999999999988766777766 532 56778888888876 58888
No 21
>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.
Probab=41.03 E-value=53 Score=23.89 Aligned_cols=46 Identities=30% Similarity=0.486 Sum_probs=34.7
Q ss_pred CCHHHHHHHHHhcCCCCCc-ceEEEccCCceecC---ccccccCCeEEEe
Q psy12053 101 PSLEALQDKLSVRMDLPRG-ARYVFSMDGVRILT---LDELEDNASYVVS 146 (167)
Q Consensus 101 ksfd~LLd~LTekV~Lp~G-VR~LYT~dG~~V~s---LddLedG~~YVas 146 (167)
.|++.|++...+++.++.. ++-..--||..|.+ +.-|.++-..|+-
T Consensus 21 ~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEeyF~tLp~nT~lm~L 70 (78)
T PF02017_consen 21 SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEEYFQTLPDNTVLMLL 70 (78)
T ss_dssp SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCHHHCCSSSSEEEEEE
T ss_pred CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHHHHhhCCCCCEEEEE
Confidence 5999999999999999954 66666689999985 3445566666654
No 22
>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=38.69 E-value=1.6e+02 Score=21.74 Aligned_cols=62 Identities=16% Similarity=0.133 Sum_probs=43.4
Q ss_pred EEEEEEcCCCCC-CcEEEEECCCCCCCCHHHHHHHHHhcCCCCC--cceEEEc-cCCceec--Cccccc
Q psy12053 76 KVTFFKNGDPYF-PGVEYRFKPGRDIPSLEALQDKLSVRMDLPR--GARYVFS-MDGVRIL--TLDELE 138 (167)
Q Consensus 76 rI~vYRNGD~~f-~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~--GVR~LYT-~dG~~V~--sLddLe 138 (167)
.|..|-+|+.-. .=+++.+... ...+|+.|.+.+.+..+... ++.-=|. .+|..|+ +=+||+
T Consensus 2 ~vkayl~~~~~~~EIRRf~l~~~-~~~s~~~L~~~V~~~f~~l~~~~ftlky~DeeGDlvtIssdeEL~ 69 (87)
T cd06402 2 TVKAYLLGKDANAEIRRFAIDED-VSTSYEYLVEKVAAVFPSLRGKNFQLFWKDEEGDLVAFSSDEELV 69 (87)
T ss_pred eEEEeecCCCCccceEEEEecCC-CCcCHHHHHHHHHHHccccCCCcEEEEEECCCCCEEeecCHHHHH
Confidence 467888886443 3347888753 35799999999999886443 3665564 5899765 667776
No 23
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=37.02 E-value=94 Score=22.83 Aligned_cols=48 Identities=23% Similarity=0.278 Sum_probs=36.0
Q ss_pred CCCHHHHHHHHHhcCCCC-Cc--ceEEEccCCceecC---ccccccCCeEEEec
Q psy12053 100 IPSLEALQDKLSVRMDLP-RG--ARYVFSMDGVRILT---LDELEDNASYVVSS 147 (167)
Q Consensus 100 ~ksfd~LLd~LTekV~Lp-~G--VR~LYT~dG~~V~s---LddLedG~~YVasG 147 (167)
..|++.|++...+++.++ .+ ++-...-||..|.+ +.-|.++-..|+--
T Consensus 20 A~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDGT~VddEeyF~tLp~nT~l~~L~ 73 (80)
T cd06536 20 ASSLEELRIKACESLGFDSSSAPITLVLAEDGTIVEDEDYFLCLPPNTKFVLLA 73 (80)
T ss_pred cCCHHHHHHHHHHHhCCCCCCCceEEEEecCCcEEccHHHHhhCCCCcEEEEEC
Confidence 369999999999999998 33 55545679999965 45566777776653
No 24
>cd07301 PX_SNX21 The phosphoinositide binding Phox Homology domain of Sorting Nexin 21. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. SNX21, also called SNX-L, is distinctly and highly-expressed in fetal liver and may be involved in protein sorting and degradation during embryonic liver development.
Probab=35.83 E-value=64 Score=24.18 Aligned_cols=39 Identities=13% Similarity=0.234 Sum_probs=28.1
Q ss_pred CCceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcC
Q psy12053 72 WRARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRM 114 (167)
Q Consensus 72 ~kaKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV 114 (167)
...-+|.+.++|. +.+....|.+ | |.+|+.|-+.|.+..
T Consensus 18 yv~Y~I~v~~~~~--~~~~~~~V~R-R-YSdF~~L~~~L~~~~ 56 (112)
T cd07301 18 YVLYTIYVIQTGQ--YDPSPAYISR-R-YSDFERLHRRLRRLF 56 (112)
T ss_pred EEEEEEEEEecCC--CCCCceEEEe-e-hHhHHHHHHHHHHHC
Confidence 4556788887764 3344567765 5 999999999998754
No 25
>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=34.76 E-value=1.2e+02 Score=21.71 Aligned_cols=57 Identities=16% Similarity=0.267 Sum_probs=38.8
Q ss_pred EEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCC--cceEEEc-cCCcee--cCcccccc
Q psy12053 76 KVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPR--GARYVFS-MDGVRI--LTLDELED 139 (167)
Q Consensus 76 rI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~--GVR~LYT-~dG~~V--~sLddLed 139 (167)
+|.+.=|||. +++.+.+ --+|++|.++|.+++++.. ++.-=|. -+|..| .+=+||++
T Consensus 2 ~vK~~~~~d~----~r~~l~~---~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~e 63 (82)
T cd06407 2 RVKATYGEEK----IRFRLPP---SWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEE 63 (82)
T ss_pred EEEEEeCCeE----EEEEcCC---CCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHH
Confidence 4666668885 5677765 3489999999999999864 3444453 367754 46666653
No 26
>cd06880 PX_SNX22 The phosphoinositide binding Phox Homology domain of Sorting Nexin 22. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX22 may be involved in recruiting other proteins to the membrane via protein-protein and protein-ligand interaction. The biological function of SNX22 is not yet known.
Probab=34.66 E-value=61 Score=24.09 Aligned_cols=45 Identities=20% Similarity=0.270 Sum_probs=30.4
Q ss_pred CceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCC-CcceEEEc
Q psy12053 73 RARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLP-RGARYVFS 125 (167)
Q Consensus 73 kaKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp-~GVR~LYT 125 (167)
..-.|.|+.+|. ...|.+ | |..|+.|-+.|.+...+| +.=+++..
T Consensus 20 ~~Y~I~v~~~~~------~~~v~R-R-YseF~~Lh~~L~~~~~~p~~P~K~~~~ 65 (110)
T cd06880 20 TVFTIEVLVNGR------RHTVEK-R-YSEFHALHKKLKKSIKTPDFPPKRVRN 65 (110)
T ss_pred EEEEEEEEECCe------EEEEEc-c-HHHHHHHHHHHHHHCCCCCCCCCCccC
Confidence 445677777654 567765 5 999999999999887533 22444433
No 27
>PF01337 Barstar: Barstar (barnase inhibitor); InterPro: IPR000468 Barstar is a small single chain protein. Barnase is the extracellular ribonuclease IPR001887 from INTERPRO of Bacillus amyloliquefaciens, and barstar its specific intracellular inhibitor [, ]. Expression of barstar is necessary to counter the lethal effect of expressed active barnase. The structure of the barnase-barstar complex is known [].; PDB: 2CX6_A 1B2U_F 1A19_A 1X1U_F 1B27_E 1X1W_F 1BGS_E 1X1Y_D 1B3S_D 1B2S_D ....
Probab=34.44 E-value=47 Score=23.33 Aligned_cols=25 Identities=28% Similarity=0.445 Sum_probs=17.9
Q ss_pred EEECCCCCCCCHHHHHHHHHhcCCCC
Q psy12053 92 YRFKPGRDIPSLEALQDKLSVRMDLP 117 (167)
Q Consensus 92 vvVs~~R~~ksfd~LLd~LTekV~Lp 117 (167)
|.|+- +.++|.+.|++.|.+.+.+|
T Consensus 1 i~idg-~~i~~~~~~~~~l~~~l~fP 25 (90)
T PF01337_consen 1 ITIDG-RKIRDKEDFYDALAEALDFP 25 (90)
T ss_dssp EEEEC-CC-SSHHHHHHHHHHHTT--
T ss_pred CEEeC-CCCCCHHHHHHHHHHHcCCC
Confidence 34553 66899999999999999998
No 28
>cd03689 RF3_II RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the ribosome after release of the nascent polypeptide. RF3 in the GDP state binds to the ribosomal class I RF complex, followed by an exchange of GDP for GTP and release of the class I RF. Sequence comparison of class II release factors with elongation factors shows that prokaryotic RF3 is more similar to EF-G whereas eukaryotic eRF3 is more similar to eEF1A, implying that their precise function may differ.
Probab=33.75 E-value=44 Score=23.62 Aligned_cols=32 Identities=13% Similarity=-0.092 Sum_probs=27.7
Q ss_pred ceEEEccCCceecCccccccCCeEEEecCCCc
Q psy12053 120 ARYVFSMDGVRILTLDELEDNASYVVSSYKTF 151 (167)
Q Consensus 120 VR~LYT~dG~~V~sLddLedG~~YVasG~E~F 151 (167)
|.+||.+.|......+++.-|+..+++|-+.+
T Consensus 45 v~~l~~~~g~~~~~v~~a~aGdIv~v~gl~~~ 76 (85)
T cd03689 45 LSNPQQFFAQDRETVDEAYPGDIIGLVNPGNF 76 (85)
T ss_pred eeEeEEEecCCeeEcCEECCCCEEEEECCCCc
Confidence 67999999998888899999999999985543
No 29
>COG0537 Hit Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]
Probab=33.60 E-value=15 Score=28.61 Aligned_cols=59 Identities=24% Similarity=0.332 Sum_probs=39.4
Q ss_pred CceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHH----HHhcCC-CCCcceEEEccCCceec
Q psy12053 73 RARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDK----LSVRMD-LPRGARYVFSMDGVRIL 132 (167)
Q Consensus 73 kaKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~----LTekV~-Lp~GVR~LYT~dG~~V~ 132 (167)
.-+.+++|.+-.++.+|-.++|.+ +.+.+|..|=++ +...++ +-..++..|.+||..+.
T Consensus 20 e~~~~~afld~~P~~~gH~LviPk-~h~~~l~~l~~~~~~~l~~~~~~ia~al~~~~~~~g~ni~ 83 (138)
T COG0537 20 EDEHVLAFLDIYPAAPGHTLVIPK-RHVSDLEDLDPEELAELFLLAQKIAKALKEAFGADGYNIG 83 (138)
T ss_pred eCCCEEEEecCCCCCCCeEEEEec-cchhhhhhCCHHHHHHHHHHHHHHHHHHHHHhCCCceEEE
Confidence 455689999999999999999998 777777655433 222222 22236666777776653
No 30
>PF15417 DUF4624: Domain of unknown function (DUF4624)
Probab=32.84 E-value=32 Score=27.34 Aligned_cols=62 Identities=26% Similarity=0.482 Sum_probs=44.0
Q ss_pred EEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCcceE---------EEc------cCCceec-CccccccCCeE
Q psy12053 80 FKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARY---------VFS------MDGVRIL-TLDELEDNASY 143 (167)
Q Consensus 80 YRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~GVR~---------LYT------~dG~~V~-sLddLedG~~Y 143 (167)
|-+-|+|-.|+.+.|+. ++|+|=.+++=+|.--.|+-- |.. .+|..+. +|..|+-++.|
T Consensus 28 Y~~sDPF~N~rLFcVs~-----Die~L~aEv~f~mDGe~~iVEiKd~~~devLWsn~~~~~V~~dt~tisL~nlqk~kEY 102 (132)
T PF15417_consen 28 YSDSDPFENGRLFCVSE-----DIEALDAEVYFQMDGESGIVEIKDRKTDEVLWSNTWNGKVSGDTFTISLNNLQKEKEY 102 (132)
T ss_pred cCcCCccccceEEEEec-----chheeeeEEEEEEcCccceEEeccCCccceeeccccccccccceEEEEhhhcccCceE
Confidence 67789999999999974 688887777766665555222 221 1344444 89999999999
Q ss_pred EEe
Q psy12053 144 VVS 146 (167)
Q Consensus 144 Vas 146 (167)
+.|
T Consensus 103 ~V~ 105 (132)
T PF15417_consen 103 VVC 105 (132)
T ss_pred EEE
Confidence 877
No 31
>PF01230 HIT: HIT domain; InterPro: IPR001310 The Histidine Triad (HIT) motif, His-x-His-x-His-x-x (x, a hydrophobic amino acid) was identified as being highly conserved in a variety of organisms []. Crystal structure of rabbit Hint, purified as an adenosine and AMP-binding protein, showed that proteins in the HIT superfamily are conserved as nucleotide-binding proteins and that Hint homologues, which are found in all forms of life, are structurally related to Fhit homologues and GalT-related enzymes, which have more restricted phylogenetic profiles []. Hint homologues including rabbit Hint and yeast Hnt1 hydrolyse adenosine 5' monophosphoramide substrates such as AMP-NH2 and AMP-lysine to AMP plus the amine product and function as positive regulators of Cdk7/Kin28 in vivo []. Fhit homologues are diadenosine polyphosphate hydrolases [] and function as tumour suppressors in human and mouse [] though the tumour suppressing function of Fhit does not depend on ApppA hydrolysis []. The third branch of the HIT superfamily, which includes GalT homologues, contains a related His-X-His-X-Gln motif and transfers nucleoside monophosphate moieties to phosphorylated second substrates rather than hydrolysing them [].; PDB: 3LB5_B 1EMS_A 1Y23_A 3ANO_B 1KPE_B 1KPC_A 4EQE_B 1KPA_A 1KPB_B 4EQG_B ....
Probab=30.61 E-value=44 Score=23.57 Aligned_cols=31 Identities=26% Similarity=0.275 Sum_probs=25.1
Q ss_pred EEEEEEcCCCCCCcEEEEECCCCCCCCHHHHH
Q psy12053 76 KVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQ 107 (167)
Q Consensus 76 rI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LL 107 (167)
.+.++.+-++..+|-.++|.+ +.+.+|..|=
T Consensus 14 ~~~~~~~~~p~~~gh~LVipk-~H~~~l~dl~ 44 (98)
T PF01230_consen 14 HFVAFLDIFPISPGHLLVIPK-RHVESLSDLP 44 (98)
T ss_dssp SEEEEEESSTSSTTEEEEEES-STGSSGGGSH
T ss_pred CEEEEEcCCCCCCeEEEEEec-ccccchhcCC
Confidence 467889999999999999988 7787765543
No 32
>PF04941 LEF-8: Late expression factor 8 (LEF-8); InterPro: IPR007025 Late expression factor 8 (LEF-8) is one of the primary components of RNA polymerase produced by polyhedrosis viruses. LEF-8 shows homology to the second largest subunit of prokaryotic DNA-directed RNA polymerase[].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=28.74 E-value=65 Score=32.37 Aligned_cols=50 Identities=24% Similarity=0.352 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHhcCCCCCcceEEEccCCce--ecCccccccCCeEEEecCCCccc
Q psy12053 100 IPSLEALQDKLSVRMDLPRGARYVFSMDGVR--ILTLDELEDNASYVVSSYKTFKV 153 (167)
Q Consensus 100 ~ksfd~LLd~LTekV~Lp~GVR~LYT~dG~~--V~sLddLedG~~YVasG~E~FKk 153 (167)
+++|+.|-+.|.++-.|.+ .|-=.+ .. ..++.+|++-.+|+||....+++
T Consensus 2 v~DFn~LY~~l~~~~~L~f---~LnC~~-~~~~~~s~~~lqerkSY~CCa~~~~~~ 53 (748)
T PF04941_consen 2 VEDFNFLYDKLENKYNLQF---YLNCKD-KNVNPCSLKYLQERKSYFCCAVDSLKR 53 (748)
T ss_pred cccHHHHHHHHhcccCcEE---EEECCC-CCCCCccHHHHhhcceEEEEEEcCccc
Confidence 4689999999999877642 111112 22 24899999999999998776654
No 33
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=28.27 E-value=90 Score=25.84 Aligned_cols=45 Identities=16% Similarity=0.175 Sum_probs=27.6
Q ss_pred CCceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCc
Q psy12053 72 WRARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRG 119 (167)
Q Consensus 72 ~kaKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~G 119 (167)
.+.-+|++..+|-...+-..+.|++ -.+...||++|.+++.++.+
T Consensus 18 kk~~kv~w~~~~~~~~~~~~~~vpk---~~tV~Dll~~l~~k~~~~~~ 62 (213)
T PF14533_consen 18 KKQFKVTWLNDGLKEEQEYELLVPK---TGTVSDLLEELQKKVGFSEE 62 (213)
T ss_dssp B--EEEEEE-TTS-EE-EEEE--BT---T-BHHHHHHHHHTT----TT
T ss_pred ceEEEEEEECCCCcceeEEEEEECC---CCCHHHHHHHHHHHcCCCcC
Confidence 3567788888888888778899986 57999999999999998764
No 34
>PF11673 DUF3269: Protein of unknown function (DUF3269); InterPro: IPR021687 This entry is represented by Bacteriophage 92, Orf70. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=28.14 E-value=47 Score=24.18 Aligned_cols=33 Identities=21% Similarity=0.288 Sum_probs=26.4
Q ss_pred EEEccCCceecCccccccCCeEEEec-CCCcccc
Q psy12053 122 YVFSMDGVRILTLDELEDNASYVVSS-YKTFKVR 154 (167)
Q Consensus 122 ~LYT~dG~~V~sLddLedG~~YVasG-~E~FKkl 154 (167)
.||.+||....++.-+.+|..+|..= .-.|...
T Consensus 7 ~LY~~dg~e~v~V~~~~~~~~~v~~l~g~hfs~~ 40 (73)
T PF11673_consen 7 YLYRSDGWEMVKVIPRTDNVNNVKNLTGAHFSHI 40 (73)
T ss_pred EEEcCCCcEEEEEEEccCCceeecccccchhhcc
Confidence 69999999999999999999988762 3455544
No 35
>PF14275 DUF4362: Domain of unknown function (DUF4362)
Probab=28.13 E-value=40 Score=25.49 Aligned_cols=45 Identities=20% Similarity=0.232 Sum_probs=28.4
Q ss_pred EcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCcceEE-EccCCceec
Q psy12053 81 KNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARYV-FSMDGVRIL 132 (167)
Q Consensus 81 RNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~GVR~L-YT~dG~~V~ 132 (167)
+|||....+.. +.| ..-|++|++.+..+..- -||-+ ||.+|.+|.
T Consensus 1 ~~~DVi~~~~~-i~N----l~kl~~Fi~nv~~~k~d--~IrIv~yT~EGdPI~ 46 (98)
T PF14275_consen 1 KNNDVINKHGE-IEN----LDKLDQFIENVEQGKPD--KIRIVQYTIEGDPIF 46 (98)
T ss_pred CCCCEEEeCCe-EEe----HHHHHHHHHHHhcCCCC--EEEEEEecCCCCCEE
Confidence 46776554433 333 23489999988766542 26655 777888864
No 36
>KOG1775|consensus
Probab=27.50 E-value=94 Score=23.05 Aligned_cols=50 Identities=18% Similarity=0.327 Sum_probs=34.9
Q ss_pred eEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCcceEEEccCCceecCccccc
Q psy12053 75 RKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARYVFSMDGVRILTLDELE 138 (167)
Q Consensus 75 KrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~GVR~LYT~dG~~V~sLddLe 138 (167)
-+|++.--+|+-|-|.- .-||.+.+.+-+-+ +...-|++|++++.++++.
T Consensus 18 ski~iimksdkE~~GtL---------~GFDd~VNmvLeDv-----tEye~~~egr~~tk~~~iL 67 (84)
T KOG1775|consen 18 SKIWIIMKSDKEFVGTL---------VGFDDFVNMVLEDV-----TEYEITPEGRRMTKLDQIL 67 (84)
T ss_pred ceEEEEEccCceeeeEE---------echHHHHHHHHHhh-----hheeeCCCcceeeeeeeee
Confidence 47888888888887752 34776665543322 4456678899999999877
No 37
>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=25.70 E-value=2.1e+02 Score=21.33 Aligned_cols=44 Identities=16% Similarity=0.145 Sum_probs=31.9
Q ss_pred EEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCcceEEEccCC
Q psy12053 78 TFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARYVFSMDG 128 (167)
Q Consensus 78 ~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~GVR~LYT~dG 128 (167)
.-|..|+. .-+.|. |. -+|..|...|++......++.-=|..-|
T Consensus 17 l~Y~GG~t----r~i~V~--r~-~s~~el~~kl~~~~~~~~~~~lky~Lp~ 60 (97)
T cd06410 17 LRYVGGET----RIVSVD--RS-ISFKELVSKLSELFGAGVVVTLKYQLPD 60 (97)
T ss_pred EEEcCCce----EEEEEc--CC-CCHHHHHHHHHHHhCCCCceEEEEEcCC
Confidence 46888887 347775 55 5999999999999877755444565533
No 38
>cd07279 PX_SNX20_21_like The phosphoinositide binding Phox Homology domain of Sorting Nexins 20 and 21. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. This subfamily consists of SNX20, SNX21, and similar proteins. SNX20 interacts with P-Selectin glycoprotein ligand-1 (PSGL-1), a surface-expressed mucin that acts as a ligand for the selectin family of adhesion proteins. It may function in the sorting and cycling of PSGL-1 into endosomes. SNX21, also cal
Probab=24.97 E-value=1.5e+02 Score=21.86 Aligned_cols=37 Identities=14% Similarity=0.114 Sum_probs=25.2
Q ss_pred ceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcC
Q psy12053 74 ARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRM 114 (167)
Q Consensus 74 aKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV 114 (167)
.-.|.+...++ +.+....|.+ | |.+|+.|-+.|.+..
T Consensus 20 ~Y~I~v~~~~~--~~~~~~~v~R-R-YsdF~~L~~~L~~~~ 56 (112)
T cd07279 20 VYQLAVVQTGD--PDTQPAFIER-R-YSDFLKLYKALRKQH 56 (112)
T ss_pred EEEEEEEECCC--CCCceEEEec-c-hHhHHHHHHHHHHHC
Confidence 34566655553 2233577875 5 999999999999764
No 39
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=24.32 E-value=32 Score=24.44 Aligned_cols=58 Identities=17% Similarity=0.336 Sum_probs=34.9
Q ss_pred ceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcCCCCCcceEEEccCCceecCccccc-cCCeEEE
Q psy12053 74 ARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRMDLPRGARYVFSMDGVRILTLDELE-DNASYVV 145 (167)
Q Consensus 74 aKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV~Lp~GVR~LYT~dG~~V~sLddLe-dG~~YVa 145 (167)
-++|+|.-++.+.+.|+ ++.||++++ +-|...+...++++|..+..+..+. .|...++
T Consensus 13 ~~~V~V~l~~gr~~~G~---------L~g~D~~mN-----lvL~da~E~~~~~~~~~~~~lg~v~iRG~nV~~ 71 (76)
T cd01732 13 GSRIWIVMKSDKEFVGT---------LLGFDDYVN-----MVLEDVTEYEITPEGRKITKLDQILLNGNNICM 71 (76)
T ss_pred CCEEEEEECCCeEEEEE---------EEEeccceE-----EEEccEEEEEEcCCCceeeEcCeEEEeCCeEEE
Confidence 47888877766777775 345666665 3344445556677776555555544 6665444
No 40
>PHA03394 lef-8 DNA-directed RNA polymerase subunit beta-like protein; Provisional
Probab=24.09 E-value=58 Score=33.20 Aligned_cols=50 Identities=22% Similarity=0.393 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHhcCCCCCcceEEEcc-CCcee-cCccccccCCeEEEecCCCccc
Q psy12053 100 IPSLEALQDKLSVRMDLPRGARYVFSM-DGVRI-LTLDELEDNASYVVSSYKTFKV 153 (167)
Q Consensus 100 ~ksfd~LLd~LTekV~Lp~GVR~LYT~-dG~~V-~sLddLedG~~YVasG~E~FKk 153 (167)
+++|+.|.+.|..+-.| +-...= +-..+ .++.+|++-++|+||..+.+++
T Consensus 5 v~Dfn~LY~~l~~~y~l----~~~lnC~~~~~~~~~~~~l~erkSY~CCa~~~~~~ 56 (865)
T PHA03394 5 VRDFNHLYDKLENKYNL----QFYLNCKDKEKNENSLKYLQERKSYFCCAVDSLKR 56 (865)
T ss_pred HHHHHHHHHHHhcccCc----EEEEEcCCCCcccchHHHHhhcceEEEEEEccccc
Confidence 46899999999875544 333332 33333 5899999999999999877765
No 41
>cd07300 PX_SNX20 The phosphoinositide binding Phox Homology domain of Sorting Nexin 20. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. SNX20 interacts with P-Selectin glycoprotein ligand-1 (PSGL-1), a surface-expressed mucin that acts as a ligand for the selectin family of adhesion proteins. The PX dom
Probab=23.94 E-value=1.6e+02 Score=22.17 Aligned_cols=36 Identities=14% Similarity=0.253 Sum_probs=24.7
Q ss_pred eEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHHHHHhcC
Q psy12053 75 RKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQDKLSVRM 114 (167)
Q Consensus 75 KrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd~LTekV 114 (167)
-.|.+-+-|. ++.....|.+ | |.+|++|-+.|.++.
T Consensus 21 Y~i~~~~~g~--~~~~~~~v~R-R-YSdF~~L~~~L~~~~ 56 (114)
T cd07300 21 YQIIVIQTGS--FDCNKVVIER-R-YSDFLKLHQELLSDF 56 (114)
T ss_pred EEEEEEEecC--ccCceEEEEe-c-cHhHHHHHHHHHHHc
Confidence 3455444565 3334677875 5 999999999998754
No 42
>cd01277 HINT_subgroup HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life. Although the biochemical function has not been characterised for many of the members of this subgroup, the proteins from Yeast have been shown to be involved in secretion, peroxisome formation and gene expression.
Probab=23.57 E-value=1.1e+02 Score=21.26 Aligned_cols=35 Identities=17% Similarity=0.166 Sum_probs=28.4
Q ss_pred CceEEEEEEcCCCCCCcEEEEECCCCCCCCHHHHHH
Q psy12053 73 RARKVTFFKNGDPYFPGVEYRFKPGRDIPSLEALQD 108 (167)
Q Consensus 73 kaKrI~vYRNGD~~f~Gv~vvVs~~R~~ksfd~LLd 108 (167)
.-....+|.+-++.++|--+++++ |.+.+|.+|=+
T Consensus 19 e~~~~~a~~~~~~~~pg~~lI~Pk-~H~~~~~~l~~ 53 (103)
T cd01277 19 EDDHVLAFLDINPASKGHTLVIPK-KHYENLLDLDP 53 (103)
T ss_pred eCCCEEEEECCCCCCCeeEEEEec-cccCChhhCCH
Confidence 446778889999999999999998 88888876544
No 43
>cd03007 PDI_a_ERp29_N PDIa family, endoplasmic reticulum protein 29 (ERp29) subfamily; ERp29 is a ubiquitous ER-resident protein expressed in high levels in secretory cells. It forms homodimers and higher oligomers in vitro and in vivo. It contains a redox inactive TRX-like domain at the N-terminus, which is homologous to the redox active TRX (a) domains of PDI, and a C-terminal helical domain similar to the C-terminal domain of P5. The expression profile of ERp29 suggests a role in secretory protein production distinct from that of PDI. It has also been identified as a member of the thyroglobulin folding complex. The Drosophila homolog, Wind, is the product of windbeutel, an essential gene in the development of dorsal-ventral patterning. Wind is required for correct targeting of Pipe, a Golgi-resident type II transmembrane protein with homology to 2-O-sulfotransferase.
Probab=23.32 E-value=1.4e+02 Score=22.91 Aligned_cols=31 Identities=26% Similarity=0.328 Sum_probs=20.9
Q ss_pred ceEEEEEEcCCC----CCCcEEEEECCCCCCCCHHHHHHHHHhc
Q psy12053 74 ARKVTFFKNGDP----YFPGVEYRFKPGRDIPSLEALQDKLSVR 113 (167)
Q Consensus 74 aKrI~vYRNGD~----~f~Gv~vvVs~~R~~ksfd~LLd~LTek 113 (167)
--+|.+|+||+. .++| + =++.|.|+..|.++
T Consensus 81 yPTl~lF~~g~~~~~~~Y~G-------~--~r~~~~lv~~v~~~ 115 (116)
T cd03007 81 YPVIYLFHGGDFENPVPYSG-------A--DVTVDALQRFLKGN 115 (116)
T ss_pred CCEEEEEeCCCcCCCccCCC-------C--cccHHHHHHHHHhc
Confidence 448999999972 2333 1 05889888877654
No 44
>COG5435 Uncharacterized conserved protein [Function unknown]
Probab=22.50 E-value=3.7e+02 Score=21.90 Aligned_cols=27 Identities=26% Similarity=0.533 Sum_probs=23.6
Q ss_pred CCCceEEEEEEcCCCCCCcEEEEECCC
Q psy12053 71 YWRARKVTFFKNGDPYFPGVEYRFKPG 97 (167)
Q Consensus 71 ~~kaKrI~vYRNGD~~f~Gv~vvVs~~ 97 (167)
.+.-+.|.||.-||.-..|..++|+++
T Consensus 16 ~w~DrSvNvf~~~~~gt~~~sfvIsRd 42 (147)
T COG5435 16 AWQDRSVNVFVSGDNGTSGFSFVISRD 42 (147)
T ss_pred hhccceEEEEEecCCCcceeEEEEecC
Confidence 467889999999999988999999853
No 45
>COG3823 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]
Probab=22.44 E-value=40 Score=29.66 Aligned_cols=22 Identities=41% Similarity=0.601 Sum_probs=18.8
Q ss_pred EccCCceecCccccc--cCCeEEE
Q psy12053 124 FSMDGVRILTLDELE--DNASYVV 145 (167)
Q Consensus 124 YT~dG~~V~sLddLe--dG~~YVa 145 (167)
-|.||.+|..|.||| ||+.|--
T Consensus 168 VT~~g~pv~~LNELE~VdG~lyAN 191 (262)
T COG3823 168 VTDDGVPVSKLNELEWVDGELYAN 191 (262)
T ss_pred EEECCeecccccceeeeccEEEEe
Confidence 466999999999999 8988854
No 46
>PRK00513 minC septum formation inhibitor; Reviewed
Probab=20.66 E-value=1e+02 Score=25.70 Aligned_cols=42 Identities=14% Similarity=0.184 Sum_probs=30.8
Q ss_pred CcEEEEECCCCCCCCHHHHHHHHHhcCC----CCCc-ceEEEccCCceec
Q psy12053 88 PGVEYRFKPGRDIPSLEALQDKLSVRMD----LPRG-ARYVFSMDGVRIL 132 (167)
Q Consensus 88 ~Gv~vvVs~~R~~ksfd~LLd~LTekV~----Lp~G-VR~LYT~dG~~V~ 132 (167)
.|..+++.. ..+|++|+++|.+++. +-.| +.-+.+.+++...
T Consensus 16 ~gl~i~l~~---~~~~~~l~~~L~~kl~~~~~ff~~~~~v~l~~~~r~l~ 62 (214)
T PRK00513 16 DGLTLILDD---NCSFDELLQELKEKLSKGKYFWKGKATVHVKVGNRLLD 62 (214)
T ss_pred CcEEEEECC---CCCHHHHHHHHHHHHHhCchhcCCCeEEEEEECCCCCC
Confidence 367888876 4699999999999884 3345 6666777776543
Done!