Query 043438
Match_columns 146
No_of_seqs 125 out of 1081
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 05:03:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043438.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043438hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03210 Resistant to P. syrin 100.0 5.6E-48 1.2E-52 359.7 13.1 144 1-146 1-158 (1153)
2 PLN03194 putative disease resi 100.0 3E-45 6.5E-50 280.7 11.5 126 2-144 18-157 (187)
3 PF01582 TIR: TIR domain; Int 99.9 5.6E-23 1.2E-27 150.6 2.6 120 13-132 1-140 (141)
4 smart00255 TIR Toll - interleu 99.8 1.1E-19 2.5E-24 131.3 10.8 125 10-136 1-139 (140)
5 PF13676 TIR_2: TIR domain; PD 99.2 1.4E-11 2.9E-16 85.0 3.4 75 13-93 1-87 (102)
6 KOG3678 SARM protein (with ste 98.6 7E-08 1.5E-12 83.9 5.9 90 8-103 610-729 (832)
7 PF08937 DUF1863: MTH538 TIR-l 94.4 0.064 1.4E-06 38.5 4.0 76 11-91 1-106 (130)
8 PF08357 SEFIR: SEFIR domain; 91.0 1.3 2.8E-05 32.1 6.9 54 12-65 2-60 (150)
9 PF10137 TIR-like: Predicted n 61.7 20 0.00043 25.9 4.6 53 12-67 1-54 (125)
10 KOG2792 Putative cytochrome C 61.4 9.3 0.0002 31.4 3.1 30 68-97 154-187 (280)
11 PF12146 Hydrolase_4: Putative 52.2 17 0.00037 23.8 2.7 37 9-46 15-51 (79)
12 COG1658 Small primase-like pro 51.6 28 0.00062 25.3 4.0 54 11-65 30-83 (127)
13 PRK08350 hypothetical protein; 51.3 15 0.00032 31.2 2.8 33 8-40 279-311 (341)
14 PF00113 Enolase_C: Enolase, C 48.8 17 0.00037 30.1 2.8 42 9-53 227-268 (295)
15 COG0400 Predicted esterase [Ge 48.4 33 0.00072 26.8 4.3 55 8-63 144-200 (207)
16 COG0125 Tmk Thymidylate kinase 43.1 1.1E+02 0.0024 23.9 6.4 33 13-45 4-38 (208)
17 COG4916 Uncharacterized protei 40.3 39 0.00085 28.0 3.5 87 7-99 174-281 (329)
18 PRK07933 thymidylate kinase; V 39.2 59 0.0013 25.1 4.4 30 14-43 2-33 (213)
19 PTZ00081 enolase; Provisional 38.6 26 0.00056 30.6 2.5 42 9-53 375-416 (439)
20 cd00860 ThrRS_anticodon ThrRS 38.2 37 0.00079 21.7 2.7 35 11-46 2-36 (91)
21 PRK11784 tRNA 2-selenouridine 37.7 1E+02 0.0022 26.0 5.9 103 21-133 190-298 (345)
22 PRK13883 conjugal transfer pro 36.6 36 0.00079 25.6 2.7 34 10-46 52-85 (151)
23 cd02426 Pol_gamma_b_Cterm C-te 36.1 36 0.00078 24.4 2.5 24 23-46 42-65 (128)
24 cd01241 PH_Akt Akt pleckstrin 35.3 34 0.00074 23.3 2.2 17 119-135 86-102 (102)
25 COG0148 Eno Enolase [Carbohydr 35.2 37 0.00081 29.5 2.8 44 8-54 353-396 (423)
26 PF02223 Thymidylate_kin: Thym 34.8 1.4E+02 0.003 21.9 5.7 21 24-44 10-30 (186)
27 PF13271 DUF4062: Domain of un 33.6 92 0.002 20.3 4.0 30 12-42 1-30 (83)
28 PF03129 HGTP_anticodon: Antic 33.3 23 0.00051 23.1 1.1 23 24-46 15-37 (94)
29 cd03364 TOPRIM_DnaG_primases T 32.7 52 0.0011 21.0 2.7 10 37-46 44-53 (79)
30 PRK13762 tRNA-modifying enzyme 30.9 52 0.0011 27.3 3.0 37 10-46 130-166 (322)
31 cd01266 PH_Gab Gab (Grb2-assoc 30.9 45 0.00098 22.8 2.3 17 119-135 92-108 (108)
32 PF12128 DUF3584: Protein of u 30.7 11 0.00023 36.9 -1.3 28 85-113 34-61 (1201)
33 cd01251 PH_centaurin_alpha Cen 29.8 57 0.0012 22.2 2.6 19 119-137 84-102 (103)
34 PF09441 Abp2: ARS binding pro 28.8 15 0.00033 28.0 -0.5 56 68-132 56-111 (175)
35 cd04893 ACT_GcvR_1 ACT domains 28.6 68 0.0015 20.5 2.7 29 13-42 2-30 (77)
36 PRK01424 S-adenosylmethionine: 28.4 1.3E+02 0.0029 25.8 5.0 82 8-90 184-275 (366)
37 PF02337 Gag_p10: Retroviral G 27.7 44 0.00095 22.9 1.7 21 24-44 8-28 (90)
38 TIGR00334 5S_RNA_mat_M5 ribonu 27.5 99 0.0021 23.8 3.8 47 18-65 29-75 (174)
39 KOG1233 Alkyl-dihydroxyacetone 27.1 63 0.0014 28.5 2.9 24 68-91 168-191 (613)
40 PRK13976 thymidylate kinase; P 27.1 2.4E+02 0.0053 21.7 6.0 31 13-43 1-35 (209)
41 TIGR00295 conserved hypothetic 26.9 1.3E+02 0.0027 22.4 4.2 32 106-137 132-163 (164)
42 KOG1016 Predicted DNA helicase 26.8 52 0.0011 31.6 2.5 36 11-46 407-442 (1387)
43 KOG2670 Enolase [Carbohydrate 26.4 52 0.0011 28.2 2.2 32 10-41 366-397 (433)
44 smart00233 PH Pleckstrin homol 26.0 69 0.0015 19.6 2.4 16 120-135 86-101 (102)
45 PF03720 UDPG_MGDP_dh_C: UDP-g 25.9 60 0.0013 22.1 2.2 27 20-46 12-38 (106)
46 cd01219 PH_FGD FGD (faciogenit 25.6 68 0.0015 21.7 2.4 18 119-136 83-100 (101)
47 cd01238 PH_Tec Tec pleckstrin 25.5 59 0.0013 22.3 2.1 16 119-134 91-106 (106)
48 PRK05225 ketol-acid reductoiso 25.2 29 0.00064 30.8 0.6 60 68-133 252-335 (487)
49 PF13662 Toprim_4: Toprim doma 24.8 62 0.0013 20.8 2.0 22 37-59 47-68 (81)
50 KOG1136 Predicted cleavage and 24.4 88 0.0019 27.1 3.2 23 70-92 219-241 (501)
51 PF10579 Rapsyn_N: Rapsyn N-te 23.8 45 0.00098 22.4 1.1 19 121-139 23-41 (80)
52 cd01235 PH_SETbf Set binding f 23.8 75 0.0016 20.8 2.3 16 119-134 85-100 (101)
53 PLN02924 thymidylate kinase 23.6 3.6E+02 0.0077 21.0 7.9 31 12-42 16-48 (220)
54 PF13740 ACT_6: ACT domain; PD 23.4 1E+02 0.0023 19.5 2.8 29 13-42 3-31 (76)
55 cd01260 PH_CNK Connector enhan 22.9 73 0.0016 20.9 2.1 15 119-133 81-95 (96)
56 PRK09194 prolyl-tRNA synthetas 22.5 68 0.0015 28.7 2.3 38 9-46 467-506 (565)
57 PF00169 PH: PH domain; Inter 21.9 97 0.0021 19.4 2.5 17 119-135 87-103 (104)
58 PRK13973 thymidylate kinase; P 21.5 1.8E+02 0.0039 22.1 4.3 30 13-42 4-35 (213)
59 PF07283 TrbH: Conjugal transf 21.3 1.8E+02 0.0038 21.0 3.9 35 9-46 23-57 (121)
60 cd01244 PH_RasGAP_CG9209 RAS_G 21.0 79 0.0017 21.6 2.0 15 120-134 84-98 (98)
61 cd01423 MGS_CPS_I_III Methylgl 20.8 1.3E+02 0.0027 20.7 3.0 30 13-44 3-32 (116)
62 TIGR00789 flhB_rel flhB C-term 20.6 1.9E+02 0.0041 19.2 3.7 39 25-63 27-72 (82)
No 1
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=5.6e-48 Score=359.67 Aligned_cols=144 Identities=43% Similarity=0.712 Sum_probs=135.6
Q ss_pred CCCC--CCCCCcceEEeecccccccchhHHHHHHHHhcCCeeeeccCccCCCCcchHHHHHHhhhCccc-----------
Q 043438 1 MASF--SRNNKKYDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQLNRGDDISESLLNAMKHQPFQ----------- 67 (146)
Q Consensus 1 m~~~--s~~~~~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~~~~G~~i~~~l~~aI~~S~is----------- 67 (146)
||+| |++.++|||||||||+|||++|++||++||.++||++|+|+++++|+.|++++++||++|+++
T Consensus 1 ~~~~~~~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s 80 (1153)
T PLN03210 1 MASSSSSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYASS 80 (1153)
T ss_pred CCCCCCCCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCcccc
Confidence 5664 457889999999999999999999999999999999999988999999999999999999997
Q ss_pred -ccHHHHHHHHHHHhhCCcEEEeEEeeecCcccccccCchHHHHHHHHHHhccChHHHHHHHHHHHHhhcccCeeccCCC
Q 043438 68 -SCLDELEKILECKREYGQIVIPVFYRVDPSDVRNQTGSFGISFSKLEERFKENSEKLQTWRNALKAAASLSGFHSQNIR 146 (146)
Q Consensus 68 -wCl~EL~~i~~~~~~~~~~VlPVFY~V~psdVr~q~g~f~~af~~~~~~~~~~~e~v~~W~~AL~~v~~~~G~~~~~~~ 146 (146)
||||||++|++|+++.+++|+||||+|+|||||+|+|.||+||.+++++. +.+++++||+||++||+++||++++|+
T Consensus 81 ~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g~~~~~~~ 158 (1153)
T PLN03210 81 SWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNK--TEDEKIQWKQALTDVANILGYHSQNWP 158 (1153)
T ss_pred hHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCceecCCCC
Confidence 99999999999999999999999999999999999999999999998764 368999999999999999999998764
No 2
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=3e-45 Score=280.75 Aligned_cols=126 Identities=33% Similarity=0.550 Sum_probs=115.4
Q ss_pred CCCCCCCCcceEEeecccccccchhHHHHHHHHhcCCeeeeccCc-cCCCCcchHHHHHHhhhCccc------------c
Q 043438 2 ASFSRNNKKYDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQ-LNRGDDISESLLNAMKHQPFQ------------S 68 (146)
Q Consensus 2 ~~~s~~~~~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~-~~~G~~i~~~l~~aI~~S~is------------w 68 (146)
+|+|+...+|||||||||+|||++|++||+.+|+++||+||+|+. +++|+.|.+.|.+||++|+++ |
T Consensus 18 ~~~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~W 97 (187)
T PLN03194 18 PSSSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYF 97 (187)
T ss_pred ccCCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchh
Confidence 467788899999999999999999999999999999999999987 999999999999999999987 9
Q ss_pred cHHHHHHHHHHHhhCCcEEEeEEeeecCcccccc-cCchHHHHHHHHHHhccChHHHHHHHHHHHHhhcccCeeccC
Q 043438 69 CLDELEKILECKREYGQIVIPVFYRVDPSDVRNQ-TGSFGISFSKLEERFKENSEKLQTWRNALKAAASLSGFHSQN 144 (146)
Q Consensus 69 Cl~EL~~i~~~~~~~~~~VlPVFY~V~psdVr~q-~g~f~~af~~~~~~~~~~~e~v~~W~~AL~~v~~~~G~~~~~ 144 (146)
||+||++|++|. .+||||||+|+|+|||+| .|. .+.+++++||.||++|++++|+++..
T Consensus 98 CLdEL~~I~e~~----~~ViPIFY~VdPsdVr~q~~~~-------------~~~e~v~~Wr~AL~~va~l~G~~~~~ 157 (187)
T PLN03194 98 CLHELALIMESK----KRVIPIFCDVKPSQLRVVDNGT-------------CPDEEIRRFNWALEEAKYTVGLTFDS 157 (187)
T ss_pred HHHHHHHHHHcC----CEEEEEEecCCHHHhhccccCC-------------CCHHHHHHHHHHHHHHhccccccCCC
Confidence 999999999974 479999999999999997 442 13689999999999999999998753
No 3
>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo. In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....
Probab=99.86 E-value=5.6e-23 Score=150.59 Aligned_cols=120 Identities=30% Similarity=0.540 Sum_probs=105.0
Q ss_pred EEeecccccccchhHHHHHHHHhcC--CeeeeccCc-cCCCCcchHHHHHHhhhCccc------------ccHHHHHHHH
Q 043438 13 VFVSFRAEDTRDNFTSHLYSALSRQ--NIQTFIDDQ-LNRGDDISESLLNAMKHQPFQ------------SCLDELEKIL 77 (146)
Q Consensus 13 VFiSfrg~Dtr~~Fv~~L~~aL~~~--gi~~f~d~~-~~~G~~i~~~l~~aI~~S~is------------wCl~EL~~i~ 77 (146)
|||||++.+.+..|+++|..+|.++ |+++|++++ +.+|..+.+++.++|++|+.. ||+.||..++
T Consensus 1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~ 80 (141)
T PF01582_consen 1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL 80 (141)
T ss_dssp EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence 8999999566789999999999999 999999887 999999999999999999976 9999999999
Q ss_pred HHHhhCC--cEEEeEEeeecCcccc-cccCchHHHHHHHHHHhccC--hHHHHHHHHHHH
Q 043438 78 ECKREYG--QIVIPVFYRVDPSDVR-NQTGSFGISFSKLEERFKEN--SEKLQTWRNALK 132 (146)
Q Consensus 78 ~~~~~~~--~~VlPVFY~V~psdVr-~q~g~f~~af~~~~~~~~~~--~e~v~~W~~AL~ 132 (146)
++....+ .+|+||||+|.|++|+ .+++.|+..|..+..-...+ .++...|++++.
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~ 140 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY 140 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence 9987755 8999999999999999 79999999998887765543 578999999976
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.82 E-value=1.1e-19 Score=131.31 Aligned_cols=125 Identities=41% Similarity=0.642 Sum_probs=104.7
Q ss_pred cceEEeeccc-ccccchhHHHHHHHHhcCCeeeeccCccCCCCcchHHHHHHhhhCccc------------ccHHHHHHH
Q 043438 10 KYDVFVSFRA-EDTRDNFTSHLYSALSRQNIQTFIDDQLNRGDDISESLLNAMKHQPFQ------------SCLDELEKI 76 (146)
Q Consensus 10 ~ydVFiSfrg-~Dtr~~Fv~~L~~aL~~~gi~~f~d~~~~~G~~i~~~l~~aI~~S~is------------wCl~EL~~i 76 (146)
.|||||||++ +++...|+.+|..+|...|+.+|.|+....|... .++.++|++|+.. ||..|+..+
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~-~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a 79 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDL-EEIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA 79 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchH-HHHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence 4999999999 5677899999999999999999998763333333 3899999999875 999999999
Q ss_pred HHHHhh-CCcEEEeEEeeecCcccccccCchHHHHHHHHHHhccChHHHHHHHHHHHHhhc
Q 043438 77 LECKRE-YGQIVIPVFYRVDPSDVRNQTGSFGISFSKLEERFKENSEKLQTWRNALKAAAS 136 (146)
Q Consensus 77 ~~~~~~-~~~~VlPVFY~V~psdVr~q~g~f~~af~~~~~~~~~~~e~v~~W~~AL~~v~~ 136 (146)
+++... ....||||+|+..|+++..+.+.++.++..+.....++..+ +.|+.++..+++
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~~ 139 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVPS 139 (140)
T ss_pred HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhcc
Confidence 998755 66899999999999999999999999998886666543333 789999998764
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.19 E-value=1.4e-11 Score=84.97 Aligned_cols=75 Identities=29% Similarity=0.499 Sum_probs=60.5
Q ss_pred EEeecccccccchhHHHHHHHHhcCCeeeeccCccCCCCcchHHHHHHhhhCccc------------ccHHHHHHHHHHH
Q 043438 13 VFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQLNRGDDISESLLNAMKHQPFQ------------SCLDELEKILECK 80 (146)
Q Consensus 13 VFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~~~~G~~i~~~l~~aI~~S~is------------wCl~EL~~i~~~~ 80 (146)
|||||+++| ..++..|...|+..|+++|.|.++..|+.+...+.++|++|... ||..|+..+.
T Consensus 1 VFIS~~~~D--~~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~--- 75 (102)
T PF13676_consen 1 VFISYSSED--REFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAW--- 75 (102)
T ss_dssp EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHH---
T ss_pred eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHH---
Confidence 899999999 46999999999999999999977889999988999999998764 9999998873
Q ss_pred hhCCcEEEeEEee
Q 043438 81 REYGQIVIPVFYR 93 (146)
Q Consensus 81 ~~~~~~VlPVFY~ 93 (146)
..+..|+||..+
T Consensus 76 -~~~~~iipv~~~ 87 (102)
T PF13676_consen 76 -KRGKPIIPVRLD 87 (102)
T ss_dssp -CTSESEEEEECS
T ss_pred -HCCCEEEEEEEC
Confidence 345689999843
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=98.60 E-value=7e-08 Score=83.86 Aligned_cols=90 Identities=30% Similarity=0.433 Sum_probs=74.6
Q ss_pred CCcceEEeecccccccchhHHHHHHHHhcCCeeeeccCc-cCCCCcchHHHHHHhhhCccc-------------------
Q 043438 8 NKKYDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQ-LNRGDDISESLLNAMKHQPFQ------------------- 67 (146)
Q Consensus 8 ~~~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~-~~~G~~i~~~l~~aI~~S~is------------------- 67 (146)
..+.|||||||.. |.+..++.|...|+-+|.+||+|-+ +..|+- .+++++.|...+-.
T Consensus 610 skq~DVFISYRRs-tGnQLASLiKV~LQL~GyrVFIDVdKL~AGKF-dssLlkni~aAkhFiLVLtP~sLDr~lnD~nCe 687 (832)
T KOG3678|consen 610 SKQIDVFISYRRS-TGNQLASLIKVLLQLRGYRVFIDVDKLYAGKF-DSSLLKNIQAAKHFILVLTPNSLDRLLNDDNCE 687 (832)
T ss_pred cCCcceEEEeecc-ccHHHHHHHHHHHHhcCceEEEehhhhhcccc-cHHHHHHHHhhheeEEEeCcchHHHHhccccHH
Confidence 4568999999875 6788999999999999999999987 999975 56889999988754
Q ss_pred -ccHHHHHHHHHHHhhCCcEEEeEEee---------ecCccccccc
Q 043438 68 -SCLDELEKILECKREYGQIVIPVFYR---------VDPSDVRNQT 103 (146)
Q Consensus 68 -wCl~EL~~i~~~~~~~~~~VlPVFY~---------V~psdVr~q~ 103 (146)
|...||+..++|.+ .|+|||=. +-|.|+|.-+
T Consensus 688 DWVHKEl~~Afe~~K----NIiPI~D~aFE~Pt~ed~iPnDirmi~ 729 (832)
T KOG3678|consen 688 DWVHKELKCAFEHQK----NIIPIFDTAFEFPTKEDQIPNDIRMIT 729 (832)
T ss_pred HHHHHHHHHHHHhcC----CeeeeecccccCCCchhcCcHHHHHHH
Confidence 88999999888865 69999953 6677776543
No 7
>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments. The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.
Probab=94.43 E-value=0.064 Score=38.52 Aligned_cols=76 Identities=24% Similarity=0.388 Sum_probs=35.9
Q ss_pred ceEEeecccccccchhHHHHHHHHhcC-------Ceee-eccC---c-c------CCCCcchHHHHHHhhhCccc-----
Q 043438 11 YDVFVSFRAEDTRDNFTSHLYSALSRQ-------NIQT-FIDD---Q-L------NRGDDISESLLNAMKHQPFQ----- 67 (146)
Q Consensus 11 ydVFiSfrg~Dtr~~Fv~~L~~aL~~~-------gi~~-f~d~---~-~------~~G~~i~~~l~~aI~~S~is----- 67 (146)
|.|||||...|-. .....|..-+... .+.. |.+. + + ...+.|...|.++|..|.+.
T Consensus 1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig 79 (130)
T PF08937_consen 1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG 79 (130)
T ss_dssp ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence 5799999988743 3556666666552 2211 1111 1 1 12335777888889988864
Q ss_pred -------ccHHHHHHHHHHHhhCCcEEEeEE
Q 043438 68 -------SCLDELEKILECKREYGQIVIPVF 91 (146)
Q Consensus 68 -------wCl~EL~~i~~~~~~~~~~VlPVF 91 (146)
|+-.|+...++ .+..||-|-
T Consensus 80 ~~T~~s~wV~~EI~~A~~----~~~~Ii~V~ 106 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALK----KGKPIIGVY 106 (130)
T ss_dssp TT----HHHHHHHHHHTT----T---EEEEE
T ss_pred CCcccCcHHHHHHHHHHH----CCCCEEEEE
Confidence 99999998776 344566664
No 8
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=91.00 E-value=1.3 Score=32.06 Aligned_cols=54 Identities=17% Similarity=0.321 Sum_probs=36.5
Q ss_pred eEEeecccccc-cchhHHHHHHHHhcC-CeeeeccCc-cCC--CCcchHHHHHHhhhCc
Q 043438 12 DVFVSFRAEDT-RDNFTSHLYSALSRQ-NIQTFIDDQ-LNR--GDDISESLLNAMKHQP 65 (146)
Q Consensus 12 dVFiSfrg~Dt-r~~Fv~~L~~aL~~~-gi~~f~d~~-~~~--G~~i~~~l~~aI~~S~ 65 (146)
-|||||+.+.- ...-|-.|...|++. ||.|.+|.- ... +.....=+.+.|+++.
T Consensus 2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad 60 (150)
T PF08357_consen 2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREAD 60 (150)
T ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCC
Confidence 59999987432 346689999999999 999999864 322 3333344455565543
No 9
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=61.74 E-value=20 Score=25.90 Aligned_cols=53 Identities=23% Similarity=0.274 Sum_probs=37.1
Q ss_pred eEEeecccccccchhHHHHHHHHhcCCeeeeccCc-cCCCCcchHHHHHHhhhCccc
Q 043438 12 DVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQ-LNRGDDISESLLNAMKHQPFQ 67 (146)
Q Consensus 12 dVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~-~~~G~~i~~~l~~aI~~S~is 67 (146)
.|||-|. .|. .....+...|+..|+.+.+-.+ ...|..+-..+.+.+.++..+
T Consensus 1 kVFIvhg-~~~--~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~fa 54 (125)
T PF10137_consen 1 KVFIVHG-RDL--AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFA 54 (125)
T ss_pred CEEEEeC-CCH--HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEE
Confidence 4899995 663 5667788888878888776555 677777766666666655544
No 10
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=61.38 E-value=9.3 Score=31.37 Aligned_cols=30 Identities=40% Similarity=0.646 Sum_probs=23.1
Q ss_pred ccHHHHHHHHHHHh----hCCcEEEeEEeeecCc
Q 043438 68 SCLDELEKILECKR----EYGQIVIPVFYRVDPS 97 (146)
Q Consensus 68 wCl~EL~~i~~~~~----~~~~~VlPVFY~V~ps 97 (146)
-|-|||.++..... +.+..++|||--|||.
T Consensus 154 ICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 154 ICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred cChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 78999988776543 4556777999999994
No 11
>PF12146 Hydrolase_4: Putative lysophospholipase; InterPro: IPR022742 This domain is found in bacteria and eukaryotes and is approximately 110 amino acids in length. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins.
Probab=52.19 E-value=17 Score=23.80 Aligned_cols=37 Identities=22% Similarity=0.198 Sum_probs=28.1
Q ss_pred CcceEEeecccccccchhHHHHHHHHhcCCeeeeccCc
Q 043438 9 KKYDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQ 46 (146)
Q Consensus 9 ~~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~ 46 (146)
.+--|+|.|--.+ ....-.+|...|.++|+.||.-|.
T Consensus 15 ~k~~v~i~HG~~e-h~~ry~~~a~~L~~~G~~V~~~D~ 51 (79)
T PF12146_consen 15 PKAVVVIVHGFGE-HSGRYAHLAEFLAEQGYAVFAYDH 51 (79)
T ss_pred CCEEEEEeCCcHH-HHHHHHHHHHHHHhCCCEEEEECC
Confidence 4677899984333 445668999999999999997653
No 12
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=51.62 E-value=28 Score=25.33 Aligned_cols=54 Identities=11% Similarity=0.121 Sum_probs=40.5
Q ss_pred ceEEeecccccccchhHHHHHHHHhcCCeeeeccCccCCCCcchHHHHHHhhhCc
Q 043438 11 YDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQLNRGDDISESLLNAMKHQP 65 (146)
Q Consensus 11 ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~~~~G~~i~~~l~~aI~~S~ 65 (146)
.++|+-..+.-....++..|..++..+|+-++.|-+ .+|+.|...+.+.+..+.
T Consensus 30 ~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~~~ 83 (127)
T COG1658 30 AGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPGAK 83 (127)
T ss_pred CceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhcccc
Confidence 466776633222267899999999999999999864 789988887777777643
No 13
>PRK08350 hypothetical protein; Provisional
Probab=51.31 E-value=15 Score=31.16 Aligned_cols=33 Identities=12% Similarity=0.142 Sum_probs=29.4
Q ss_pred CCcceEEeecccccccchhHHHHHHHHhcCCee
Q 043438 8 NKKYDVFVSFRAEDTRDNFTSHLYSALSRQNIQ 40 (146)
Q Consensus 8 ~~~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~ 40 (146)
...|-+.+|||.=+|-++|+.||..+|..--|+
T Consensus 279 ~~g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 279 SERITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred HcCCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 346899999999889999999999999988786
No 14
>PF00113 Enolase_C: Enolase, C-terminal TIM barrel domain; InterPro: IPR020810 Enolase (2-phospho-D-glycerate hydrolase) is an essential glycolytic enzyme that catalyses the interconversion of 2-phosphoglycerate and phosphoenolpyruvate [, ]. In vertebrates, there are 3 different, tissue-specific isoenzymes, designated alpha, beta and gamma. Alpha is present in most tissues, beta is localised in muscle tissue, and gamma is found only in nervous tissue. The functional enzyme exists as a dimer of any 2 isoforms. In immature organs and in adult liver, it is usually an alpha homodimer, in adult skeletal muscle, a beta homodimer, and in adult neurons, a gamma homodimer. In developing muscle, it is usually an alpha/beta heterodimer, and in the developing nervous system, an alpha/gamma heterodimer []. The tissue specific forms display minor kinetic differences. Tau-crystallin, one of the major lens proteins in some fish, reptiles and birds, has been shown [] to be evolutionary related to enolase. Neuron-specific enolase is released in a variety of neurological diseases, such as multiple sclerosis and after seizures or acute stroke. Several tumour cells have also been found positive for neuron-specific enolase. Beta-enolase deficiency is associated with glycogenosis type XIII defect.; GO: 0000287 magnesium ion binding, 0004634 phosphopyruvate hydratase activity, 0006096 glycolysis, 0000015 phosphopyruvate hydratase complex; PDB: 2FYM_D 3H8A_C 1E9I_D 3TQP_B 2PU1_A 1OEP_A 2PA6_A 1PDY_A 1PDZ_A 3UJ2_E ....
Probab=48.81 E-value=17 Score=30.09 Aligned_cols=42 Identities=33% Similarity=0.444 Sum_probs=26.3
Q ss_pred CcceEEeecccccccchhHHHHHHHHhcCCeeeeccCccCCCCcc
Q 043438 9 KKYDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQLNRGDDI 53 (146)
Q Consensus 9 ~~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~~~~G~~i 53 (146)
..|.|.+|||.-+|-++|+.||..+|...-|++=- +.||+.+
T Consensus 227 ~g~~~vvS~rsgEteD~~iadLaVg~~a~~iK~G~---p~r~Er~ 268 (295)
T PF00113_consen 227 AGWGVVVSHRSGETEDTFIADLAVGLGAGQIKTGA---PCRGERI 268 (295)
T ss_dssp TT-EEEEE--SS--S--HHHHHHHHTT-SEEEEES---SSSHHHH
T ss_pred CCceeeccCCCCCcCchhHHHHHhccCcCeEeccc---chhhHHH
Confidence 35889999999999999999999999888776532 4556655
No 15
>COG0400 Predicted esterase [General function prediction only]
Probab=48.40 E-value=33 Score=26.79 Aligned_cols=55 Identities=16% Similarity=0.147 Sum_probs=42.3
Q ss_pred CCcceEEeecccccc--cchhHHHHHHHHhcCCeeeeccCccCCCCcchHHHHHHhhh
Q 043438 8 NKKYDVFVSFRAEDT--RDNFTSHLYSALSRQNIQTFIDDQLNRGDDISESLLNAMKH 63 (146)
Q Consensus 8 ~~~ydVFiSfrg~Dt--r~~Fv~~L~~aL~~~gi~~f~d~~~~~G~~i~~~l~~aI~~ 63 (146)
....-|||++-..|- ......+|.+.|+..|..+.... .+-|.+|.++-++++.+
T Consensus 144 ~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e~~~~~~~ 200 (207)
T COG0400 144 LAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPEELEAARS 200 (207)
T ss_pred cCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHHHHHHHHH
Confidence 456789999966665 46678999999999999888654 45788888777666553
No 16
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=43.10 E-value=1.1e+02 Score=23.87 Aligned_cols=33 Identities=15% Similarity=0.296 Sum_probs=27.4
Q ss_pred EEeecccccc--cchhHHHHHHHHhcCCeeeeccC
Q 043438 13 VFVSFRAEDT--RDNFTSHLYSALSRQNIQTFIDD 45 (146)
Q Consensus 13 VFiSfrg~Dt--r~~Fv~~L~~aL~~~gi~~f~d~ 45 (146)
.||.|-|-|- +.+-+..|+..|..+|+.|..-.
T Consensus 4 ~fI~iEGiDGaGKTT~~~~L~~~l~~~g~~v~~tr 38 (208)
T COG0125 4 MFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTR 38 (208)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 5899999876 57888999999999999776543
No 17
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=40.26 E-value=39 Score=27.95 Aligned_cols=87 Identities=20% Similarity=0.097 Sum_probs=54.2
Q ss_pred CCCcceEEeecccccccchhHHHHHHHHhc--CCeeeeccCc----cCCCCcchHHHHHHhhh--Cccc-----------
Q 043438 7 NNKKYDVFVSFRAEDTRDNFTSHLYSALSR--QNIQTFIDDQ----LNRGDDISESLLNAMKH--QPFQ----------- 67 (146)
Q Consensus 7 ~~~~ydVFiSfrg~Dtr~~Fv~~L~~aL~~--~gi~~f~d~~----~~~G~~i~~~l~~aI~~--S~is----------- 67 (146)
....|||=|||-|+- ++.|......++. --+..|.|.. +-+|+- ..++.-+.. |++.
T Consensus 174 ~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~sL--~~~L~~~Y~~rC~~~~VF~~~~Y~~K 249 (329)
T COG4916 174 SEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGSL--VSTLDPGYDIRCVVTTVFNTGSYICK 249 (329)
T ss_pred cccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCccH--HHhcccccCceEEEEEEEeCCceEEe
Confidence 466799999999985 5799999999984 4567788765 445542 234443333 3322
Q ss_pred -ccHHHHHHHHHHHhhCCcEEEeEEee-ecCccc
Q 043438 68 -SCLDELEKILECKREYGQIVIPVFYR-VDPSDV 99 (146)
Q Consensus 68 -wCl~EL~~i~~~~~~~~~~VlPVFY~-V~psdV 99 (146)
||.-|-..+-+-. .-....||-|. ++-+-+
T Consensus 250 ~~c~~E~~~~r~~~--~~d~~~rI~~~~~d~~a~ 281 (329)
T COG4916 250 STCHIEGLEGRLNP--ILDTGFRIKYLYADNIAI 281 (329)
T ss_pred eeeccchhhccccc--cccccceEEEEecCCccc
Confidence 9998876654421 12345666663 555443
No 18
>PRK07933 thymidylate kinase; Validated
Probab=39.19 E-value=59 Score=25.11 Aligned_cols=30 Identities=17% Similarity=0.254 Sum_probs=25.1
Q ss_pred Eeecccccc--cchhHHHHHHHHhcCCeeeec
Q 043438 14 FVSFRAEDT--RDNFTSHLYSALSRQNIQTFI 43 (146)
Q Consensus 14 FiSfrg~Dt--r~~Fv~~L~~aL~~~gi~~f~ 43 (146)
||.+-|.|. +.+.+..|.+.|..+|++|..
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~ 33 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVAT 33 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence 788888776 578899999999999987653
No 19
>PTZ00081 enolase; Provisional
Probab=38.64 E-value=26 Score=30.61 Aligned_cols=42 Identities=29% Similarity=0.419 Sum_probs=33.0
Q ss_pred CcceEEeecccccccchhHHHHHHHHhcCCeeeeccCccCCCCcc
Q 043438 9 KKYDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQLNRGDDI 53 (146)
Q Consensus 9 ~~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~~~~G~~i 53 (146)
..+.+.+|||.-+|..+|+-||..+|...-|++=- +.+|+.+
T Consensus 375 ~Gi~~iishrsgETed~~iadLAVa~~~~~iK~G~---~~r~er~ 416 (439)
T PTZ00081 375 NGWGVMVSHRSGETEDTFIADLVVGLGTGQIKTGA---PCRSERL 416 (439)
T ss_pred cCCcEEEeCCCchhHHHHHHHHHHHcCCCceecCC---CcchHHH
Confidence 45789999999889999999999999887776532 4455554
No 20
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=38.25 E-value=37 Score=21.67 Aligned_cols=35 Identities=17% Similarity=0.207 Sum_probs=25.8
Q ss_pred ceEEeecccccccchhHHHHHHHHhcCCeeeeccCc
Q 043438 11 YDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQ 46 (146)
Q Consensus 11 ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~ 46 (146)
++|+|..-+++. ..-+-.+...|++.|+.+-+|..
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~ 36 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLR 36 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECC
Confidence 677776644433 44677899999999999988763
No 21
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=37.75 E-value=1e+02 Score=25.95 Aligned_cols=103 Identities=19% Similarity=0.303 Sum_probs=63.7
Q ss_pred cccchhHHHHHHHHhcCCe--eeeccCc-cCCCC-cchHHHHHHhhhCcccccHHHHHHHHHHH-hhCCcEEEeEEeeec
Q 043438 21 DTRDNFTSHLYSALSRQNI--QTFIDDQ-LNRGD-DISESLLNAMKHQPFQSCLDELEKILECK-REYGQIVIPVFYRVD 95 (146)
Q Consensus 21 Dtr~~Fv~~L~~aL~~~gi--~~f~d~~-~~~G~-~i~~~l~~aI~~S~iswCl~EL~~i~~~~-~~~~~~VlPVFY~V~ 95 (146)
-+...|-+.|..+|....- .+|+.++ -+.|. .+++.++++++++...++-..+..=++.- +......
T Consensus 190 psQ~~Fe~~l~~~l~~~~~~~~i~vE~Es~~IG~~~lP~~l~~~m~~~~~v~i~~~~e~Rv~~l~~~Y~~~~-------- 261 (345)
T PRK11784 190 PSQKDFENLLAEALLKLDPARPIVVEDESRRIGRVHLPEALYEAMQQAPIVVVEAPLEERVERLLEDYVLRM-------- 261 (345)
T ss_pred cchHHHHHHHHHHHHcCCCCCeEEEEeccccccCccCCHHHHHHHhhCCEEEEECCHHHHHHHHHHHhhhhh--------
Confidence 3567899999999977544 5677666 56775 46789999999988765433333322221 1110000
Q ss_pred Ccc-cccccCchHHHHHHHHHHhccChHHHHHHHHHHHH
Q 043438 96 PSD-VRNQTGSFGISFSKLEERFKENSEKLQTWRNALKA 133 (146)
Q Consensus 96 psd-Vr~q~g~f~~af~~~~~~~~~~~e~v~~W~~AL~~ 133 (146)
+.+ .......+-+++....++.+ .++++.|..+|..
T Consensus 262 ~~~~~~~~~~~l~~~l~~i~k~lg--~~~~~~~~~~~~~ 298 (345)
T PRK11784 262 HAAGFQAYPEYLAEALQRIRKRLG--GERYQELLALLDA 298 (345)
T ss_pred hhhhhhccHHHHHHHHHHHHHhcC--HHHHHHHHHHHHc
Confidence 000 00112245677778888887 6999999988875
No 22
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=36.64 E-value=36 Score=25.55 Aligned_cols=34 Identities=18% Similarity=0.168 Sum_probs=26.3
Q ss_pred cceEEeecccccccchhHHHHHHHHhcCCeeeeccCc
Q 043438 10 KYDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQ 46 (146)
Q Consensus 10 ~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~ 46 (146)
+--+.|. .|+.+.|...|..+|+++|+-|-.+++
T Consensus 52 ~Tt~~l~---q~~~D~Fg~aL~~aLR~~GYaV~e~~~ 85 (151)
T PRK13883 52 QTRFELQ---QPTPDAFGQALVKALRDKGYALLEYNP 85 (151)
T ss_pred ceEEEEe---cCCCcHHHHHHHHHHHHcCeEEEecCC
Confidence 3445553 366678999999999999999987664
No 23
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=36.14 E-value=36 Score=24.38 Aligned_cols=24 Identities=8% Similarity=0.098 Sum_probs=21.1
Q ss_pred cchhHHHHHHHHhcCCeeeeccCc
Q 043438 23 RDNFTSHLYSALSRQNIQTFIDDQ 46 (146)
Q Consensus 23 r~~Fv~~L~~aL~~~gi~~f~d~~ 46 (146)
-...+..|+..|...||.+..|+.
T Consensus 42 ~~~~a~~l~~~L~~~gi~v~~D~r 65 (128)
T cd02426 42 LRDLCQGLKNELREAGLSVWPGYL 65 (128)
T ss_pred HHHHHHHHHHHHHHcCCEEEeccC
Confidence 456889999999999999998875
No 24
>cd01241 PH_Akt Akt pleckstrin homology (PH) domain. Akt pleckstrin homology (PH) domain. Akt (Protein Kinase B (PKB)) is a phosphatidylinositol 3'-kinase (PI3K)-dependent Ser/Thr kinase. The PH domain recruits Akt to the plasma membrane by binding to phosphoinositides (PtdIns-3,4-P2) and is required for activation. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=35.33 E-value=34 Score=23.26 Aligned_cols=17 Identities=29% Similarity=0.626 Sum_probs=14.1
Q ss_pred cChHHHHHHHHHHHHhh
Q 043438 119 ENSEKLQTWRNALKAAA 135 (146)
Q Consensus 119 ~~~e~v~~W~~AL~~v~ 135 (146)
++++..+.|..||..|+
T Consensus 86 ~s~ee~~eWi~ai~~v~ 102 (102)
T cd01241 86 ESPEEREEWIHAIQTVA 102 (102)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 35788999999998874
No 25
>COG0148 Eno Enolase [Carbohydrate transport and metabolism]
Probab=35.24 E-value=37 Score=29.53 Aligned_cols=44 Identities=25% Similarity=0.364 Sum_probs=35.3
Q ss_pred CCcceEEeecccccccchhHHHHHHHHhcCCeeeeccCccCCCCcch
Q 043438 8 NKKYDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQLNRGDDIS 54 (146)
Q Consensus 8 ~~~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~~~~G~~i~ 54 (146)
...|.+-||||.-+|-++|+.||..++..--|++=. +.||+.+.
T Consensus 353 ~~gy~~viSHRSGETeD~tIAdLAVa~~agqIKTGs---~sRseRia 396 (423)
T COG0148 353 DAGYTAVISHRSGETEDTTIADLAVATNAGQIKTGS---LSRSERVA 396 (423)
T ss_pred HCCCeEEEecCCCCcccchHHHHHHHhCCCeeecCC---CcchhHHH
Confidence 346889999999889999999999999988776643 55676653
No 26
>PF02223 Thymidylate_kin: Thymidylate kinase; InterPro: IPR018094 Thymidylate kinase (2.7.4.9 from EC; dTMP kinase) catalyzes the phosphorylation of thymidine 5'-monophosphate (dTMP) to form thymidine 5'-diphosphate (dTDP) in the presence of ATP and magnesium: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate Thymidylate kinase is an ubiquitous enzyme of about 25 Kd and is important in the dTTP synthesis pathway for DNA synthesis. The function of dTMP kinase in eukaryotes comes from the study of a cell cycle mutant, cdc8, in Saccharomyces cerevisiae. Structural and functional analyses suggest that the cDNA codes for authentic human dTMP kinase. The mRNA levels and enzyme activities corresponded to cell cycle progression and cell growth stages[]. ; GO: 0004798 thymidylate kinase activity, 0005524 ATP binding, 0006233 dTDP biosynthetic process; PDB: 2PLR_B 1NMX_A 1NN0_A 2XX3_A 1NN3_A 1E9F_A 1E2Q_A 1E2D_A 1E9A_A 1E99_A ....
Probab=34.78 E-value=1.4e+02 Score=21.91 Aligned_cols=21 Identities=19% Similarity=0.189 Sum_probs=17.3
Q ss_pred chhHHHHHHHHhcCCeeeecc
Q 043438 24 DNFTSHLYSALSRQNIQTFID 44 (146)
Q Consensus 24 ~~Fv~~L~~aL~~~gi~~f~d 44 (146)
.+.+..|.++|...|+++.+.
T Consensus 10 tT~~~~L~~~l~~~~~~~~~~ 30 (186)
T PF02223_consen 10 TTQIRLLAEALKEKGYKVIIT 30 (186)
T ss_dssp HHHHHHHHHHHHHTTEEEEEE
T ss_pred HHHHHHHHHHHHHcCCccccc
Confidence 567889999999999986654
No 27
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=33.60 E-value=92 Score=20.27 Aligned_cols=30 Identities=23% Similarity=0.289 Sum_probs=19.6
Q ss_pred eEEeecccccccchhHHHHHHHHhcCCeeee
Q 043438 12 DVFVSFRAEDTRDNFTSHLYSALSRQNIQTF 42 (146)
Q Consensus 12 dVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f 42 (146)
.||||-.-.|.. .-=..|.+.+.+.|..+.
T Consensus 1 rVFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~ 30 (83)
T PF13271_consen 1 RVFISSTFRDLK-EERDALIEAIRRLGCEPV 30 (83)
T ss_pred CEEEecChhhHH-HHHHHHHHHHHHCCCeee
Confidence 389998777753 233577777777776543
No 28
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=33.29 E-value=23 Score=23.09 Aligned_cols=23 Identities=22% Similarity=0.384 Sum_probs=20.2
Q ss_pred chhHHHHHHHHhcCCeeeeccCc
Q 043438 24 DNFTSHLYSALSRQNIQTFIDDQ 46 (146)
Q Consensus 24 ~~Fv~~L~~aL~~~gi~~f~d~~ 46 (146)
..++.+|...|++.||.+-+|+.
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~ 37 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDS 37 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESS
T ss_pred HHHHHHHHHHHHHCCCEEEEECC
Confidence 46789999999999999998874
No 29
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=32.69 E-value=52 Score=21.02 Aligned_cols=10 Identities=10% Similarity=0.225 Sum_probs=5.5
Q ss_pred CCeeeeccCc
Q 043438 37 QNIQTFIDDQ 46 (146)
Q Consensus 37 ~gi~~f~d~~ 46 (146)
+.|..+.|.+
T Consensus 44 ~~vii~~D~D 53 (79)
T cd03364 44 KEVILAFDGD 53 (79)
T ss_pred CeEEEEECCC
Confidence 4555565553
No 30
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=30.94 E-value=52 Score=27.32 Aligned_cols=37 Identities=19% Similarity=0.285 Sum_probs=31.5
Q ss_pred cceEEeecccccccchhHHHHHHHHhcCCeeeeccCc
Q 043438 10 KYDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQ 46 (146)
Q Consensus 10 ~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~ 46 (146)
.-+|-||+.||-+-+.++..|.+.+.++||+++++-.
T Consensus 130 ~~~v~iSl~GEPlL~p~l~eli~~~k~~Gi~~~L~TN 166 (322)
T PRK13762 130 PKHVAISLSGEPTLYPYLPELIEEFHKRGFTTFLVTN 166 (322)
T ss_pred CCEEEEeCCccccchhhHHHHHHHHHHcCCCEEEECC
Confidence 3478899889988777889999999999999998754
No 31
>cd01266 PH_Gab Gab (Grb2-associated binder) pleckstrin homology (PH) domain. Gab (Grb2-associated binder) pleckstrin homology (PH) domain. The Gab subfamily includes several Gab proteins, Drosophila DOS and C. elegans SOC-1. They are scaffolding adaptor proteins, which possess N-terminal PH domains and a C-terminus with proline-rich regions and multiple phosphorylation sites. Following activation of growth factor receptors, Gab proteins are tyrosine phosphorylated and activate PI3K, which generates 3-phosphoinositide lipids. By binding to these lipids via the PH domain, Gab proteins remain in proximity to the receptor, leading to further signaling. While not all Gab proteins depend on the PH domain for recruitment, it is required for Gab activity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display str
Probab=30.86 E-value=45 Score=22.78 Aligned_cols=17 Identities=24% Similarity=0.528 Sum_probs=14.5
Q ss_pred cChHHHHHHHHHHHHhh
Q 043438 119 ENSEKLQTWRNALKAAA 135 (146)
Q Consensus 119 ~~~e~v~~W~~AL~~v~ 135 (146)
++++.++.|..|+.+|+
T Consensus 92 ~s~ee~~~Wi~~I~~~~ 108 (108)
T cd01266 92 KNEEEMTLWVNCICKLC 108 (108)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 46789999999999875
No 32
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=30.68 E-value=11 Score=36.88 Aligned_cols=28 Identities=39% Similarity=0.532 Sum_probs=19.4
Q ss_pred cEEEeEEeeecCcccccccCchHHHHHHH
Q 043438 85 QIVIPVFYRVDPSDVRNQTGSFGISFSKL 113 (146)
Q Consensus 85 ~~VlPVFY~V~psdVr~q~g~f~~af~~~ 113 (146)
++.||+||+-+|+.|-..+ .=.+.|.+.
T Consensus 34 LRlip~FYGa~p~rlv~k~-~~rksF~~y 61 (1201)
T PF12128_consen 34 LRLIPFFYGADPSRLVPKT-SGRKSFDDY 61 (1201)
T ss_pred HHHHHHhcCCCccccCCcc-chhhhHHHH
Confidence 4689999999999985433 124555554
No 33
>cd01251 PH_centaurin_alpha Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha is a phophatidlyinositide binding protein consisting of an N-terminal ArfGAP domain and two PH domains. In response to growth factor activation, PI3K phosphorylates phosphatidylinositol 4,5-bisphosphate to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 1 is recruited to the plasma membrane following growth factor stimulation by specific binding of its PH domain to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 2 is constitutively bound to the plasma membrane since it binds phosphatidylinositol 4,5-bisphosphate and phosphatidylinositol 3,4,5-trisphosphate with equal affinity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specifici
Probab=29.82 E-value=57 Score=22.21 Aligned_cols=19 Identities=21% Similarity=0.382 Sum_probs=15.7
Q ss_pred cChHHHHHHHHHHHHhhcc
Q 043438 119 ENSEKLQTWRNALKAAASL 137 (146)
Q Consensus 119 ~~~e~v~~W~~AL~~v~~~ 137 (146)
++++....|.+||..|-+.
T Consensus 84 ~s~~e~~~Wi~ai~~v~~~ 102 (103)
T cd01251 84 ETEQDRREWIAAFQNVLSR 102 (103)
T ss_pred CCHHHHHHHHHHHHHHhcC
Confidence 4578899999999998764
No 34
>PF09441 Abp2: ARS binding protein 2; InterPro: IPR018562 This DNA-binding protein binds to the autonomously replicating sequence (ARS) binding element. It may play a role in regulating the cell cycle response to stress signals [].
Probab=28.79 E-value=15 Score=27.99 Aligned_cols=56 Identities=21% Similarity=0.309 Sum_probs=35.2
Q ss_pred ccHHHHHHHHHHHhhCCcEEEeEEeeecCcccccccCchHHHHHHHHHHhccChHHHHHHHHHHH
Q 043438 68 SCLDELEKILECKREYGQIVIPVFYRVDPSDVRNQTGSFGISFSKLEERFKENSEKLQTWRNALK 132 (146)
Q Consensus 68 wCl~EL~~i~~~~~~~~~~VlPVFY~V~psdVr~q~g~f~~af~~~~~~~~~~~e~v~~W~~AL~ 132 (146)
|-|-||+.-++.++.+.=.=|-+.-+|+|-++.+... .++.....-++++|+.|+.
T Consensus 56 ~~Lf~LI~k~~~keikTW~~La~~LGVepp~~ek~qS---------tQKvqQYaVRLKRWM~aMH 111 (175)
T PF09441_consen 56 FTLFELIRKLESKEIKTWAQLALELGVEPPDPEKGQS---------TQKVQQYAVRLKRWMRAMH 111 (175)
T ss_pred HHHHHHHHHHhhhhHhHHHHHHHHhCCCCCCcccccc---------hHHHHHHHHHHHHHHHHhh
Confidence 7788888777765433333344667899988765321 1111222477899999986
No 35
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=28.65 E-value=68 Score=20.50 Aligned_cols=29 Identities=21% Similarity=0.272 Sum_probs=24.6
Q ss_pred EEeecccccccchhHHHHHHHHhcCCeeee
Q 043438 13 VFVSFRAEDTRDNFTSHLYSALSRQNIQTF 42 (146)
Q Consensus 13 VFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f 42 (146)
+-|++.|+| |.+.+..+...|.++|.+.-
T Consensus 2 ~iltv~g~D-r~GiVa~vs~~la~~g~nI~ 30 (77)
T cd04893 2 LVISALGTD-RPGILNELTRAVSESGCNIL 30 (77)
T ss_pred EEEEEEeCC-CChHHHHHHHHHHHcCCCEE
Confidence 457888998 57999999999999998765
No 36
>PRK01424 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=28.40 E-value=1.3e+02 Score=25.82 Aligned_cols=82 Identities=21% Similarity=0.406 Sum_probs=47.1
Q ss_pred CCcce-EEeecccc----cccchhHHHHHHHHhcCCeee-eccCccCCCCcchHHHHHHhhhCccc--cc--HHHHHHHH
Q 043438 8 NKKYD-VFVSFRAE----DTRDNFTSHLYSALSRQNIQT-FIDDQLNRGDDISESLLNAMKHQPFQ--SC--LDELEKIL 77 (146)
Q Consensus 8 ~~~yd-VFiSfrg~----Dtr~~Fv~~L~~aL~~~gi~~-f~d~~~~~G~~i~~~l~~aI~~S~is--wC--l~EL~~i~ 77 (146)
...|+ ||=...|. -..-.|...|.++|+.+||.+ |+--..-.|.-. |--.+-|++-++. || -.|.+.++
T Consensus 184 ~~rYQTVyA~~~GSVAAPTAGLHFT~~ll~~L~~kGv~~a~vTLHVG~GTF~-PV~~e~i~~H~MH~E~~~I~~eta~~I 262 (366)
T PRK01424 184 NDRYQTVYSQIEGSVAAPTAGLHFTKDILDKLKAKGIQTAFLTLHVGAGTFL-PVKTENIHEHKMHTEYCSITPETAEII 262 (366)
T ss_pred hhhceeeecCCCCceecCCCcCCCCHHHHHHHHHCCCeEEEEEEeecCCCCc-CccccccccCCccceEEEECHHHHHHH
Confidence 34576 77766663 235689999999999999964 432112222211 1111224444444 44 35666666
Q ss_pred HHHhhCCcEEEeE
Q 043438 78 ECKREYGQIVIPV 90 (146)
Q Consensus 78 ~~~~~~~~~VlPV 90 (146)
...+..|.+|+.|
T Consensus 263 n~ak~~G~RIiAV 275 (366)
T PRK01424 263 NKAKQEGRRIIAV 275 (366)
T ss_pred HHHHHcCCeEEEE
Confidence 6656667777766
No 37
>PF02337 Gag_p10: Retroviral GAG p10 protein; InterPro: IPR003322 Retroviral matrix proteins (or major core proteins) are components of envelope-associated capsids, which line the inner surface of virus envelopes and are associated with viral membranes []. Matrix proteins are produced as part of Gag precursor polyproteins. During viral maturation, the Gag polyprotein is cleaved into major structural proteins by the viral protease, yielding the matrix (MA), capsid (CA), nucleocapsid (NC), and some smaller peptides. Gag-derived proteins govern the entire assembly and release of the virus particles, with matrix proteins playing key roles in Gag stability, capsid assembly, transport and budding. Although matrix proteins from different retroviruses appear to perform similar functions and can have similar structural folds, their primary sequences can be very different. This entry represents matrix proteins from beta-retroviruses such as Mason-Pfizer monkey virus (MPMV) (Simian Mason-Pfizer virus) and Mouse mammary tumor virus (MMTV) [, ]. This entry also identifies matrix proteins from several eukaryotic endogenous retroviruses, which arise when one or more copies of the retroviral genome becomes integrated into the host genome [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2F77_X 2F76_X.
Probab=27.74 E-value=44 Score=22.92 Aligned_cols=21 Identities=24% Similarity=0.232 Sum_probs=14.6
Q ss_pred chhHHHHHHHHhcCCeeeecc
Q 043438 24 DNFTSHLYSALSRQNIQTFID 44 (146)
Q Consensus 24 ~~Fv~~L~~aL~~~gi~~f~d 44 (146)
..|++.|...|+.+||++=..
T Consensus 8 ~~fv~~Lk~lLk~rGi~v~~~ 28 (90)
T PF02337_consen 8 QPFVSILKHLLKERGIRVKKK 28 (90)
T ss_dssp HHHHHHHHHHHHCCT----HH
T ss_pred hHHHHHHHHHHHHcCeeecHH
Confidence 369999999999999987543
No 38
>TIGR00334 5S_RNA_mat_M5 ribonuclease M5. This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.
Probab=27.55 E-value=99 Score=23.77 Aligned_cols=47 Identities=13% Similarity=0.198 Sum_probs=34.7
Q ss_pred ccccccchhHHHHHHHHhcCCeeeeccCccCCCCcchHHHHHHhhhCc
Q 043438 18 RAEDTRDNFTSHLYSALSRQNIQTFIDDQLNRGDDISESLLNAMKHQP 65 (146)
Q Consensus 18 rg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~~~~G~~i~~~l~~aI~~S~ 65 (146)
.|.-....-+..|..+...+||.+|.|-+ ..|+.|...+.+.+-++.
T Consensus 29 ~Gs~i~~~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~k 75 (174)
T TIGR00334 29 NGSALKDETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYE 75 (174)
T ss_pred CCCccCHHHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCe
Confidence 34444455677888889999999999864 678888777777666554
No 39
>KOG1233 consensus Alkyl-dihydroxyacetonephosphate synthase [General function prediction only]
Probab=27.11 E-value=63 Score=28.45 Aligned_cols=24 Identities=33% Similarity=0.497 Sum_probs=20.7
Q ss_pred ccHHHHHHHHHHHhhCCcEEEeEE
Q 043438 68 SCLDELEKILECKREYGQIVIPVF 91 (146)
Q Consensus 68 wCl~EL~~i~~~~~~~~~~VlPVF 91 (146)
-|.||+++|++-..+.+..++||=
T Consensus 168 ~chdevVkiv~lA~khN~~iiPiG 191 (613)
T KOG1233|consen 168 KCHDEVVKIVELAMKHNCAIIPIG 191 (613)
T ss_pred cchHHHHHHHHHHhhcCeEEEEeC
Confidence 499999999998777788899974
No 40
>PRK13976 thymidylate kinase; Provisional
Probab=27.09 E-value=2.4e+02 Score=21.67 Aligned_cols=31 Identities=19% Similarity=0.293 Sum_probs=24.1
Q ss_pred EEeecccccc--cchhHHHHHHHHhcC-Ce-eeec
Q 043438 13 VFVSFRAEDT--RDNFTSHLYSALSRQ-NI-QTFI 43 (146)
Q Consensus 13 VFiSfrg~Dt--r~~Fv~~L~~aL~~~-gi-~~f~ 43 (146)
.||.|.|-|. +.+-+..|.+.|+.+ |+ ++..
T Consensus 1 ~fIv~EGiDGsGKsTq~~~L~~~L~~~~g~~~v~~ 35 (209)
T PRK13976 1 MFITFEGIDGSGKTTQSRLLAEYLSDIYGENNVVL 35 (209)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHhcCCcceEE
Confidence 4888988886 477889999999987 64 5553
No 41
>TIGR00295 conserved hypothetical protein TIGR00295. This set of orthologs is narrowly defined, comprising proteins found in three Archaea but not in Pyrococcus horikoshii. The closest homologs are other archaeal proteins that appear to be represent distinct orthologous clusters.
Probab=26.89 E-value=1.3e+02 Score=22.37 Aligned_cols=32 Identities=25% Similarity=0.310 Sum_probs=27.0
Q ss_pred hHHHHHHHHHHhccChHHHHHHHHHHHHhhcc
Q 043438 106 FGISFSKLEERFKENSEKLQTWRNALKAAASL 137 (146)
Q Consensus 106 f~~af~~~~~~~~~~~e~v~~W~~AL~~v~~~ 137 (146)
..+.+.+...+++.++....+|+.+..+|.++
T Consensus 132 ~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (164)
T TIGR00295 132 IDEVIKKLEERLGKNHPSIERARKLKEELERL 163 (164)
T ss_pred HHHHHHHHHHHhCCChHHHHHHHHHHHHHHhh
Confidence 46777778888888888999999999998765
No 42
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=26.84 E-value=52 Score=31.64 Aligned_cols=36 Identities=28% Similarity=0.234 Sum_probs=31.4
Q ss_pred ceEEeecccccccchhHHHHHHHHhcCCeeeeccCc
Q 043438 11 YDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQ 46 (146)
Q Consensus 11 ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~ 46 (146)
.-+||--.++|.+..|.+.+++||-+.|=.+.+-|+
T Consensus 407 ~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDE 442 (1387)
T KOG1016|consen 407 SSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDE 442 (1387)
T ss_pred CCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecC
Confidence 567888889999999999999999999987777655
No 43
>KOG2670 consensus Enolase [Carbohydrate transport and metabolism]
Probab=26.40 E-value=52 Score=28.19 Aligned_cols=32 Identities=34% Similarity=0.538 Sum_probs=26.6
Q ss_pred cceEEeecccccccchhHHHHHHHHhcCCeee
Q 043438 10 KYDVFVSFRAEDTRDNFTSHLYSALSRQNIQT 41 (146)
Q Consensus 10 ~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~ 41 (146)
..-|-+|||.-+|.++|+..|...|.--.|++
T Consensus 366 gwgvmvSHRSGETeDtFIaDL~VGl~tgqIKt 397 (433)
T KOG2670|consen 366 GWGVMVSHRSGETEDTFIADLVVGLGTGQIKT 397 (433)
T ss_pred CceEEEeccCCCcccchHHHhhhhhccceeec
Confidence 46688999987889999999999997766654
No 44
>smart00233 PH Pleckstrin homology domain. Domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids.
Probab=25.97 E-value=69 Score=19.61 Aligned_cols=16 Identities=31% Similarity=0.626 Sum_probs=13.7
Q ss_pred ChHHHHHHHHHHHHhh
Q 043438 120 NSEKLQTWRNALKAAA 135 (146)
Q Consensus 120 ~~e~v~~W~~AL~~v~ 135 (146)
+.+..++|..||..+.
T Consensus 86 s~~~~~~W~~~i~~~~ 101 (102)
T smart00233 86 SEEEREEWVDALRKAI 101 (102)
T ss_pred CHHHHHHHHHHHHHhh
Confidence 5788999999998875
No 45
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=25.89 E-value=60 Score=22.10 Aligned_cols=27 Identities=19% Similarity=0.286 Sum_probs=19.9
Q ss_pred ccccchhHHHHHHHHhcCCeeeeccCc
Q 043438 20 EDTRDNFTSHLYSALSRQNIQTFIDDQ 46 (146)
Q Consensus 20 ~Dtr~~Fv~~L~~aL~~~gi~~f~d~~ 46 (146)
.|+|.+=+-.|.+.|.++|+.+...|.
T Consensus 12 ~D~R~Sp~~~l~~~L~~~g~~V~~~DP 38 (106)
T PF03720_consen 12 DDIRESPALELIEELKERGAEVSVYDP 38 (106)
T ss_dssp S--TT-HHHHHHHHHHHTT-EEEEE-T
T ss_pred cccccCHHHHHHHHHHHCCCEEEEECC
Confidence 588999999999999999999888664
No 46
>cd01219 PH_FGD FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD has a RhoGEF (DH) domain, followed by a PH domain, a FYVE domain and a C-terminal PH domain. FGD is a guanine nucleotide exchange factor that activates the Rho GTPase Cdc42. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=25.59 E-value=68 Score=21.70 Aligned_cols=18 Identities=11% Similarity=0.314 Sum_probs=14.9
Q ss_pred cChHHHHHHHHHHHHhhc
Q 043438 119 ENSEKLQTWRNALKAAAS 136 (146)
Q Consensus 119 ~~~e~v~~W~~AL~~v~~ 136 (146)
.+++...+|.+||..+.+
T Consensus 83 ~s~eEk~~W~~ai~~~i~ 100 (101)
T cd01219 83 RTQKEKNDWVQAIFSIID 100 (101)
T ss_pred CCHHHHHHHHHHHHHHhh
Confidence 357889999999998864
No 47
>cd01238 PH_Tec Tec pleckstrin homology (PH) domain. Tec pleckstrin homology (PH) domain. Proteins in the Tec family of cytoplasmic protein tyrosine kinases that includes Bruton's tyrosine kinase (BTK), BMX, IL2-inducible T-cell kinase (Itk) and Tec. These proteins generally have an N-terminal PH domain, followed by a Tek homology (TH) domain, a SH3 domain, a SH2 domain and a kinase domain. Tec PH domains tether these proteins to membranes following the activation of PI3K and its subsequent phosphorylation of phosphoinositides. The importance of PH domain membrane anchoring is confirmed by the discovery of a mutation of a critical arginine residue in the BTK PH domain, which causes X-linked agammaglobulinemia (XLA) in humans and a related disorder is mice. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few dis
Probab=25.48 E-value=59 Score=22.26 Aligned_cols=16 Identities=31% Similarity=0.478 Sum_probs=13.1
Q ss_pred cChHHHHHHHHHHHHh
Q 043438 119 ENSEKLQTWRNALKAA 134 (146)
Q Consensus 119 ~~~e~v~~W~~AL~~v 134 (146)
.+++..+.|..||.+|
T Consensus 91 ~s~~er~~WI~ai~~~ 106 (106)
T cd01238 91 PTEELRKRWIKALKQV 106 (106)
T ss_pred CCHHHHHHHHHHHHhC
Confidence 3578889999999875
No 48
>PRK05225 ketol-acid reductoisomerase; Validated
Probab=25.21 E-value=29 Score=30.80 Aligned_cols=60 Identities=22% Similarity=0.256 Sum_probs=38.1
Q ss_pred ccHHHHHHHHHHHhhCCcE------------------------EEeEEeeecCcccccccCchHHHHHHHHHHhccChHH
Q 043438 68 SCLDELEKILECKREYGQI------------------------VIPVFYRVDPSDVRNQTGSFGISFSKLEERFKENSEK 123 (146)
Q Consensus 68 wCl~EL~~i~~~~~~~~~~------------------------VlPVFY~V~psdVr~q~g~f~~af~~~~~~~~~~~e~ 123 (146)
-|+.++..|.+.....|.. .-|||=++-- .-|+|.|.+.+....++ +.-+
T Consensus 252 ~~~~~~E~I~e~i~e~GI~~m~d~~S~tak~ga~~~~~~~k~~m~p~f~~~~~---~I~sG~fak~~m~d~~~---~~~~ 325 (487)
T PRK05225 252 LIQFGWETITEALKQGGITLMMDRLSNPAKIRAFELSEQLKEIMAPLFQKHMD---DIISGEFSSTMMADWAN---DDKK 325 (487)
T ss_pred HHhhhHHHHHHHHHhccHHHHHHhccchhhcccccccHHHHHHHHHHHHHHHH---HhhccHHHHHHHHHHhc---CChH
Confidence 4677777787776544433 4466522111 22578888888766654 3577
Q ss_pred HHHHHHHHHH
Q 043438 124 LQTWRNALKA 133 (146)
Q Consensus 124 v~~W~~AL~~ 133 (146)
+.+||.++.+
T Consensus 326 l~~~r~~~~~ 335 (487)
T PRK05225 326 LLTWREETGK 335 (487)
T ss_pred HHHHHHHhhc
Confidence 8999998764
No 49
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=24.80 E-value=62 Score=20.77 Aligned_cols=22 Identities=9% Similarity=0.365 Sum_probs=11.0
Q ss_pred CCeeeeccCccCCCCcchHHHHH
Q 043438 37 QNIQTFIDDQLNRGDDISESLLN 59 (146)
Q Consensus 37 ~gi~~f~d~~~~~G~~i~~~l~~ 59 (146)
+.|-.+.|.+ ..|+.....+.+
T Consensus 47 ~~Vii~~D~D-~~G~~~a~~i~~ 68 (81)
T PF13662_consen 47 KEVIIAFDND-KAGEKAAQKIAK 68 (81)
T ss_dssp SEEEEEEESS-HHHHHHHHHHHH
T ss_pred ceEEEEeCcC-HHHHHHHHHHHH
Confidence 5566666653 345444444443
No 50
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=24.35 E-value=88 Score=27.07 Aligned_cols=23 Identities=43% Similarity=0.727 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHhhCCcEEEeEEe
Q 043438 70 LDELEKILECKREYGQIVIPVFY 92 (146)
Q Consensus 70 l~EL~~i~~~~~~~~~~VlPVFY 92 (146)
-+=|.+..+|....|.++||||=
T Consensus 219 RdFLk~VhecVa~GGkvlIPvFA 241 (501)
T KOG1136|consen 219 RDFLKKVHECVARGGKVLIPVFA 241 (501)
T ss_pred HHHHHHHHHHHhcCCeEEEEeee
Confidence 34578888999899999999994
No 51
>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane. Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane
Probab=23.82 E-value=45 Score=22.43 Aligned_cols=19 Identities=32% Similarity=0.590 Sum_probs=15.8
Q ss_pred hHHHHHHHHHHHHhhcccC
Q 043438 121 SEKLQTWRNALKAAASLSG 139 (146)
Q Consensus 121 ~e~v~~W~~AL~~v~~~~G 139 (146)
.+-+.+|+.||..+++-++
T Consensus 23 ~~Al~~W~~aL~k~~~~~~ 41 (80)
T PF10579_consen 23 QQALQKWRKALEKITDRED 41 (80)
T ss_pred HHHHHHHHHHHhhcCChHH
Confidence 5679999999999988654
No 52
>cd01235 PH_SETbf Set binding factor Pleckstrin Homology (PH) domain. Set binding factor Pleckstrin Homology (PH) domain. Set binding factor is a myotubularin-related pseudo-phosphatase consisting of a Denn domain, a Gram domain, an inactive phosphatase domain, a SID motif and a C-terminal PH domain. Its PH domain is predicted to bind lipids based upon its ability to respond to phosphatidylinositol 3-kinase .
Probab=23.76 E-value=75 Score=20.83 Aligned_cols=16 Identities=25% Similarity=0.646 Sum_probs=13.4
Q ss_pred cChHHHHHHHHHHHHh
Q 043438 119 ENSEKLQTWRNALKAA 134 (146)
Q Consensus 119 ~~~e~v~~W~~AL~~v 134 (146)
++++..+.|..||.++
T Consensus 85 ~s~~e~~~Wi~ai~~~ 100 (101)
T cd01235 85 ENINEAQRWKEKIQQC 100 (101)
T ss_pred CCHHHHHHHHHHHHhh
Confidence 4578899999999875
No 53
>PLN02924 thymidylate kinase
Probab=23.55 E-value=3.6e+02 Score=20.97 Aligned_cols=31 Identities=13% Similarity=0.169 Sum_probs=26.4
Q ss_pred eEEeecccccc--cchhHHHHHHHHhcCCeeee
Q 043438 12 DVFVSFRAEDT--RDNFTSHLYSALSRQNIQTF 42 (146)
Q Consensus 12 dVFiSfrg~Dt--r~~Fv~~L~~aL~~~gi~~f 42 (146)
-.||.+.|.|. +.+-+..|.+.|+.+|+.+-
T Consensus 16 g~~IviEGiDGsGKsTq~~~L~~~l~~~g~~v~ 48 (220)
T PLN02924 16 GALIVLEGLDRSGKSTQCAKLVSFLKGLGVAAE 48 (220)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCCCce
Confidence 47999999886 57888999999999999863
No 54
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=23.39 E-value=1e+02 Score=19.51 Aligned_cols=29 Identities=10% Similarity=0.204 Sum_probs=21.7
Q ss_pred EEeecccccccchhHHHHHHHHhcCCeeee
Q 043438 13 VFVSFRAEDTRDNFTSHLYSALSRQNIQTF 42 (146)
Q Consensus 13 VFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f 42 (146)
+-|+.-|+| |-+.+..|...|.+.|.++-
T Consensus 3 ~vItv~G~D-rpGiv~~v~~~l~~~g~ni~ 31 (76)
T PF13740_consen 3 LVITVVGPD-RPGIVAAVTGVLAEHGCNIE 31 (76)
T ss_dssp EEEEEEEE---TTHHHHHHHHHHCTT-EEE
T ss_pred EEEEEEecC-CCcHHHHHHHHHHHCCCcEE
Confidence 457888988 67899999999999998763
No 55
>cd01260 PH_CNK Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. CNK is believed to regulate the activity and the subcellular localization of RAS activated RAF. CNK is composed of N-terminal SAM and PDZ domains along with a central or C-terminal PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskelet
Probab=22.95 E-value=73 Score=20.91 Aligned_cols=15 Identities=33% Similarity=0.603 Sum_probs=12.6
Q ss_pred cChHHHHHHHHHHHH
Q 043438 119 ENSEKLQTWRNALKA 133 (146)
Q Consensus 119 ~~~e~v~~W~~AL~~ 133 (146)
++++.+++|..||..
T Consensus 81 ~s~~e~~~Wi~ai~~ 95 (96)
T cd01260 81 ETLDDLSQWVNHLIT 95 (96)
T ss_pred CCHHHHHHHHHHHHh
Confidence 457889999999975
No 56
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=22.50 E-value=68 Score=28.69 Aligned_cols=38 Identities=21% Similarity=0.477 Sum_probs=29.0
Q ss_pred CcceEEeeccc--ccccchhHHHHHHHHhcCCeeeeccCc
Q 043438 9 KKYDVFVSFRA--EDTRDNFTSHLYSALSRQNIQTFIDDQ 46 (146)
Q Consensus 9 ~~ydVFiSfrg--~Dtr~~Fv~~L~~aL~~~gi~~f~d~~ 46 (146)
-.|+|+|---+ .+.-...+..|+..|+..||.+.+|+.
T Consensus 467 aP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr 506 (565)
T PRK09194 467 APFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDR 506 (565)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECC
Confidence 45888876543 222356788999999999999999985
No 57
>PF00169 PH: PH domain; InterPro: IPR001849 The pleckstrin homology (PH) domain is a domain of about 100 residues that occurs in a wide range of proteins involved in intracellular signalling or as constituents of the cytoskeleton [, , , , , , ]. The pleckstrin homology domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids. The 3D structure of several PH domains has been determined []. All known cases have a common structure consisting of two perpendicular anti-parallel beta sheets, followed by a C-terminal amphipathic helix. The loops connecting the beta-strands differ greatly in length, making the PH domain relatively difficult to detect. There are no totally invariant residues within the PH domain. Proteins reported to contain one more PH domains belong to the following families: Pleckstrin, the protein where this domain was first detected, is the major substrate of protein kinase C in platelets. Pleckstrin is one of the rare proteins to contains two PH domains. Ser/Thr protein kinases such as the Akt/Rac family, the beta-adrenergic receptor kinases, the mu isoform of PKC and the trypanosomal NrkA family. Tyrosine protein kinases belonging to the Btk/Itk/Tec subfamily. Insulin Receptor Substrate 1 (IRS-1). Regulators of small G-proteins like guanine nucleotide releasing factor GNRP (Ras-GRF) (which contains 2 PH domains), guanine nucleotide exchange proteins like vav, dbl, SoS and Saccharomyces cerevisiae CDC24, GTPase activating proteins like rasGAP and BEM2/IPL2, and the human break point cluster protein bcr. Cytoskeletal proteins such as dynamin (see IPR001401 from INTERPRO), Caenorhabditis elegans kinesin-like protein unc-104 (see IPR001752 from INTERPRO), spectrin beta-chain, syntrophin (2 PH domains) and S. cerevisiae nuclear migration protein NUM1. Mammalian phosphatidylinositol-specific phospholipase C (PI-PLC) (see IPR000909 from INTERPRO) isoforms gamma and delta. Isoform gamma contains two PH domains, the second one is split into two parts separated by about 400 residues. Oxysterol binding proteins OSBP, S. cerevisiae OSH1 and YHR073w. Mouse protein citron, a putative rho/rac effector that binds to the GTP-bound forms of rho and rac. Several S. cerevisiae proteins involved in cell cycle regulation and bud formation like BEM2, BEM3, BUD4 and the BEM1-binding proteins BOI2 (BEB1) and BOI1 (BOB1). C. elegans protein MIG-10. C. elegans hypothetical proteins C04D8.1, K06H7.4 and ZK632.12. S. cerevisiae hypothetical proteins YBR129c and YHR155w. ; GO: 0005515 protein binding; PDB: 1DYN_B 2DYN_B 3SNH_A 3ZYS_C 1X05_A 2I5F_A 1ZM0_B 1XX0_A 2I5C_C 3A8P_D ....
Probab=21.92 E-value=97 Score=19.41 Aligned_cols=17 Identities=29% Similarity=0.569 Sum_probs=14.2
Q ss_pred cChHHHHHHHHHHHHhh
Q 043438 119 ENSEKLQTWRNALKAAA 135 (146)
Q Consensus 119 ~~~e~v~~W~~AL~~v~ 135 (146)
++.+....|..||..+.
T Consensus 87 ~s~~~~~~W~~~i~~~~ 103 (104)
T PF00169_consen 87 ESEEERKRWIQAIQKAI 103 (104)
T ss_dssp SSHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHh
Confidence 45788999999998874
No 58
>PRK13973 thymidylate kinase; Provisional
Probab=21.51 E-value=1.8e+02 Score=22.15 Aligned_cols=30 Identities=13% Similarity=0.265 Sum_probs=25.4
Q ss_pred EEeecccccc--cchhHHHHHHHHhcCCeeee
Q 043438 13 VFVSFRAEDT--RDNFTSHLYSALSRQNIQTF 42 (146)
Q Consensus 13 VFiSfrg~Dt--r~~Fv~~L~~aL~~~gi~~f 42 (146)
.||.|-|.|. +.+-+..|.+.|..+|+++.
T Consensus 4 ~~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~ 35 (213)
T PRK13973 4 RFITFEGGEGAGKSTQIRLLAERLRAAGYDVL 35 (213)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 6888888876 47788999999999998765
No 59
>PF07283 TrbH: Conjugal transfer protein TrbH; InterPro: IPR010837 This entry represents TrbH, a bacterial conjugal transfer protein approximately 150 residues long. TrbH contains a putative membrane lipoprotein lipid attachment site [].
Probab=21.34 E-value=1.8e+02 Score=20.99 Aligned_cols=35 Identities=23% Similarity=0.224 Sum_probs=26.1
Q ss_pred CcceEEeecccccccchhHHHHHHHHhcCCeeeeccCc
Q 043438 9 KKYDVFVSFRAEDTRDNFTSHLYSALSRQNIQTFIDDQ 46 (146)
Q Consensus 9 ~~ydVFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d~~ 46 (146)
-+--+.|.... .+.|...|.++|+++|.-|-.++.
T Consensus 23 A~Tt~~L~q~~---~d~Fg~aL~~~LR~~GYaV~e~~~ 57 (121)
T PF07283_consen 23 AKTTFELKQKD---PDPFGQALENALRAKGYAVIEDDP 57 (121)
T ss_pred CccEEEEEcCC---CChHHHHHHHHHHhcCcEEEecCC
Confidence 33455664433 358999999999999999887764
No 60
>cd01244 PH_RasGAP_CG9209 RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. This protein consists of two C2 domains, followed by a RasGAP domain, a PH domain and a BTK domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=20.96 E-value=79 Score=21.65 Aligned_cols=15 Identities=27% Similarity=0.468 Sum_probs=12.6
Q ss_pred ChHHHHHHHHHHHHh
Q 043438 120 NSEKLQTWRNALKAA 134 (146)
Q Consensus 120 ~~e~v~~W~~AL~~v 134 (146)
+++....|..||.+|
T Consensus 84 s~~E~~~Wi~al~k~ 98 (98)
T cd01244 84 APVEATDWLNALEKQ 98 (98)
T ss_pred CHHHHHHHHHHHhcC
Confidence 568889999999875
No 61
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=20.75 E-value=1.3e+02 Score=20.66 Aligned_cols=30 Identities=10% Similarity=0.211 Sum_probs=22.6
Q ss_pred EEeecccccccchhHHHHHHHHhcCCeeeecc
Q 043438 13 VFVSFRAEDTRDNFTSHLYSALSRQNIQTFID 44 (146)
Q Consensus 13 VFiSfrg~Dtr~~Fv~~L~~aL~~~gi~~f~d 44 (146)
||||....| +..+ ..+.+.|...|+++|--
T Consensus 3 vlisv~~~d-k~~~-~~~a~~l~~~G~~i~aT 32 (116)
T cd01423 3 ILISIGSYS-KPEL-LPTAQKLSKLGYKLYAT 32 (116)
T ss_pred EEEecCccc-chhH-HHHHHHHHHCCCEEEEc
Confidence 799997765 3344 58888899999998753
No 62
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=20.58 E-value=1.9e+02 Score=19.24 Aligned_cols=39 Identities=18% Similarity=0.334 Sum_probs=31.1
Q ss_pred hhHHHHHHHHhcCCeeeeccCc-------cCCCCcchHHHHHHhhh
Q 043438 25 NFTSHLYSALSRQNIQTFIDDQ-------LNRGDDISESLLNAMKH 63 (146)
Q Consensus 25 ~Fv~~L~~aL~~~gi~~f~d~~-------~~~G~~i~~~l~~aI~~ 63 (146)
..+..+.+--++.||.++.|.. ++.|+.|.+++++++-+
T Consensus 27 ~~A~~I~~~A~e~~VPi~~~~~LAr~L~~~~ig~~IP~~ly~aVAe 72 (82)
T TIGR00789 27 EVAERIIEIAKKHGIPIVEDPDLVDVLLKLDLDDEIPEELYEVVAE 72 (82)
T ss_pred HHHHHHHHHHHHcCCCEEeCHHHHHHHHhCCCCCccCHHHHHHHHH
Confidence 4667777777889999998754 47899999999987753
Done!