Query 037752
Match_columns 332
No_of_seqs 308 out of 2153
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 04:02:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037752.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037752hhsearch_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 7.4E-72 1.6E-76 596.9 28.0 325 1-331 1-529 (1153)
2 PLN03194 putative disease resi 100.0 1.5E-41 3.3E-46 284.6 14.3 130 13-159 24-155 (187)
3 KOG4658 Apoptotic ATPase [Sign 99.9 2.7E-26 5.9E-31 237.1 10.6 148 155-304 321-496 (889)
4 PF01582 TIR: TIR domain; Int 99.9 1.9E-24 4.2E-29 178.5 3.4 132 18-149 1-140 (141)
5 smart00255 TIR Toll - interleu 99.9 2.8E-21 6.1E-26 159.0 11.8 137 15-153 1-139 (140)
6 PF00931 NB-ARC: NB-ARC domain 99.6 2.6E-16 5.6E-21 144.7 3.3 109 162-270 166-284 (287)
7 PF13676 TIR_2: TIR domain; PD 99.6 1.1E-15 2.3E-20 119.0 3.2 87 18-110 1-87 (102)
8 KOG3678 SARM protein (with ste 98.5 7E-07 1.5E-11 84.7 8.9 94 11-110 608-710 (832)
9 PF08937 DUF1863: MTH538 TIR-l 98.2 3.7E-06 8E-11 68.2 5.8 88 16-108 1-106 (130)
10 PRK04841 transcriptional regul 97.2 0.0028 6.1E-08 67.4 11.6 125 178-306 206-335 (903)
11 PF08357 SEFIR: SEFIR domain; 97.0 0.0047 1E-07 51.1 8.7 62 17-78 2-68 (150)
12 PF10137 TIR-like: Predicted n 95.0 0.081 1.8E-06 42.4 6.2 59 18-79 2-61 (125)
13 COG4916 Uncharacterized protei 86.4 0.79 1.7E-05 40.9 3.5 98 11-114 173-279 (329)
14 PF13271 DUF4062: Domain of un 85.7 2.8 6.2E-05 30.8 5.8 65 18-83 2-67 (83)
15 PRK00080 ruvB Holliday junctio 84.6 0.54 1.2E-05 44.1 1.8 102 178-285 203-310 (328)
16 TIGR00635 ruvB Holliday juncti 84.1 5.2 0.00011 36.8 8.1 103 178-288 182-293 (305)
17 COG3903 Predicted ATPase [Gene 78.9 4.6 9.9E-05 38.9 5.7 124 177-302 169-313 (414)
18 COG4271 Predicted nucleotide-b 69.1 16 0.00034 31.6 6.0 65 12-81 80-146 (233)
19 PF05014 Nuc_deoxyrib_tr: Nucl 62.6 32 0.00069 26.6 6.4 68 29-97 13-89 (113)
20 PF13730 HTH_36: Helix-turn-he 52.1 23 0.0005 23.3 3.5 46 234-282 2-55 (55)
21 PF12802 MarR_2: MarR family; 50.4 18 0.00039 24.3 2.7 52 234-285 2-54 (62)
22 TIGR01610 phage_O_Nterm phage 50.3 48 0.001 24.9 5.3 63 230-292 18-89 (95)
23 cd00860 ThrRS_anticodon ThrRS 46.5 79 0.0017 22.7 6.0 46 16-65 2-47 (91)
24 COG2909 MalT ATP-dependent tra 46.3 78 0.0017 33.6 7.6 120 180-306 216-341 (894)
25 cd02042 ParA ParA and ParB of 45.1 84 0.0018 23.3 6.1 63 18-80 3-73 (104)
26 COG3899 Predicted ATPase [Gene 38.6 60 0.0013 34.8 5.7 109 176-284 239-355 (849)
27 PF03129 HGTP_anticodon: Antic 37.2 42 0.00091 24.6 3.2 46 29-78 15-61 (94)
28 PF09419 PGP_phosphatase: Mito 36.0 93 0.002 26.3 5.3 68 38-110 35-112 (168)
29 cd00923 Cyt_c_Oxidase_Va Cytoc 33.3 41 0.00089 25.8 2.5 65 154-218 21-88 (103)
30 cd00738 HGTP_anticodon HGTP an 32.8 1.7E+02 0.0037 20.9 6.0 59 16-78 2-63 (94)
31 PF14258 DUF4350: Domain of un 32.2 1.7E+02 0.0037 20.1 6.5 61 33-105 8-68 (70)
32 COG1658 Small primase-like pro 30.6 69 0.0015 25.7 3.5 56 15-71 29-84 (127)
33 cd00858 GlyRS_anticodon GlyRS 28.6 1.8E+02 0.0038 22.6 5.7 60 15-79 26-87 (121)
34 PF02310 B12-binding: B12 bind 28.2 1.9E+02 0.0042 22.0 5.8 69 32-108 17-86 (121)
35 PF13412 HTH_24: Winged helix- 27.8 70 0.0015 20.3 2.7 47 236-283 2-48 (48)
36 PF09441 Abp2: ARS binding pro 27.5 42 0.0009 28.0 1.8 62 82-152 53-114 (175)
37 PF13545 HTH_Crp_2: Crp-like h 26.3 46 0.001 23.3 1.7 42 253-294 29-70 (76)
38 PF03720 UDPG_MGDP_dh_C: UDP-g 25.8 65 0.0014 24.6 2.6 54 24-77 11-75 (106)
39 cd02426 Pol_gamma_b_Cterm C-te 25.4 56 0.0012 26.1 2.2 23 28-50 42-64 (128)
40 COG0512 PabA Anthranilate/para 23.7 1.1E+02 0.0023 26.5 3.7 45 26-79 8-54 (191)
41 PF00875 DNA_photolyase: DNA p 23.7 3.5E+02 0.0075 22.1 6.9 100 27-133 46-151 (165)
42 PF02284 COX5A: Cytochrome c o 21.8 48 0.0011 25.6 1.1 65 154-218 24-91 (108)
43 PF15385 SARG: Specifically an 21.7 48 0.001 33.0 1.3 16 231-246 7-22 (497)
44 COG0400 Predicted esterase [Ge 21.4 2.9E+02 0.0062 24.1 6.1 58 10-68 141-200 (207)
45 cd01424 MGS_CPS_II Methylglyox 21.4 3.1E+02 0.0068 20.7 5.7 29 18-48 3-31 (110)
46 PHA02456 zinc metallopeptidase 21.1 1.5E+02 0.0032 23.2 3.6 47 61-110 55-105 (141)
47 TIGR00334 5S_RNA_mat_M5 ribonu 21.1 1.4E+02 0.0031 25.3 3.8 36 32-68 38-73 (174)
48 PF09548 Spore_III_AB: Stage I 21.1 3.8E+02 0.0083 22.4 6.6 15 235-249 102-116 (170)
No 1
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=7.4e-72 Score=596.88 Aligned_cols=325 Identities=44% Similarity=0.761 Sum_probs=304.9
Q ss_pred CCCCCCCCCCCCCcceeEEEeccccccccchHHHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhhhcceEEEEeecCC
Q 037752 1 MASSSSSINMNPQIKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIEGSKISIVIFSKGY 80 (332)
Q Consensus 1 m~~~~s~~~~~~~~~ydvFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~y 80 (332)
|++|||| ++.++|||||||||+|+|.+|++||+++|.++||++|+|+++++|+.|.+++.+||++||++|||||+||
T Consensus 1 ~~~~~~~---~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~y 77 (1153)
T PLN03210 1 MASSSSS---SRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNY 77 (1153)
T ss_pred CCCCCCC---CCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCc
Confidence 6666555 4679999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCChhhHHHHHHHHHhhhhcCCeeEeeeeecCCCcccccccchhhhHHHHHHhhhhhhhHHHHHHHHHHhhhcccccccC
Q 037752 81 ASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEERFKEKIDMLQTWRIAMREAANLSGFDSH 160 (332)
Q Consensus 81 ~~S~wc~~El~~~~~~~~~~~~~vlpVfy~v~p~dv~~q~g~f~~~f~~~~~~~~~~~e~v~~W~~aL~~v~~~~g~~~~ 160 (332)
++|.||++||++|++|+++.+++|+||||+|+|+|||+|+|.||++|.++.+.. ..+++++|+.||++|++++||++.
T Consensus 78 a~s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g~~~~ 155 (1153)
T PLN03210 78 ASSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNK--TEDEKIQWKQALTDVANILGYHSQ 155 (1153)
T ss_pred ccchHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCceecC
Confidence 999999999999999999999999999999999999999999999999876653 345799999999999999999865
Q ss_pred C-------------------------------------------------------------------------------
Q 037752 161 G------------------------------------------------------------------------------- 161 (332)
Q Consensus 161 ~------------------------------------------------------------------------------- 161 (332)
.
T Consensus 156 ~~~~E~~~i~~Iv~~v~~~l~~~~~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F 235 (1153)
T PLN03210 156 NWPNEAKMIEEIANDVLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQF 235 (1153)
T ss_pred CCCCHHHHHHHHHHHHHHhhccccCcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcC
Confidence 3
Q ss_pred --------------------------------------------------------------------------------
Q 037752 162 -------------------------------------------------------------------------------- 161 (332)
Q Consensus 162 -------------------------------------------------------------------------------- 161 (332)
T Consensus 236 ~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~ 315 (1153)
T PLN03210 236 QSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALA 315 (1153)
T ss_pred CeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHHH
Confidence
Q ss_pred --------------------------------------------ccccccCCCCCCcchHHHHHHHHHHhcCCchHHHHh
Q 037752 162 --------------------------------------------ISRNAFGQNHPAAGYLELSNIVIKYAKGIPLALKVL 197 (332)
Q Consensus 162 --------------------------------------------F~~~AF~~~~~~~~~~~l~~~iv~~c~GlPLAl~~i 197 (332)
|+++||++..+++++++++.+|+++|+||||||+++
T Consensus 316 ~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vl 395 (1153)
T PLN03210 316 GQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVL 395 (1153)
T ss_pred hhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHH
Confidence 999999988777889999999999999999999999
Q ss_pred hhhhcCCCHHHHHHHHHHHhcCCCCchHHHHHHhhcCCCH-HHHHHHHhhcccCCCCCHHHHHHHHHHcCCChhHHHHHH
Q 037752 198 GRYLFGRSEEEWENAIEKLKRIPHMDIQKVLKVSYDGLDD-EEQNIFLDIACFFKGQHRDFVMNFQDACGFSAKIGICDL 276 (332)
Q Consensus 198 g~~L~~k~~~~w~~~l~~l~~~~~~~i~~~L~~Syd~L~~-~~k~~fl~~a~fp~~~~~~~l~~lw~~~g~~~~~~l~~L 276 (332)
|+.|++++.++|+.++++|+..++.+|..+|++||++|++ .+|.||++|||||.+.+.+.+..++..+++.+..+++.|
T Consensus 396 gs~L~~k~~~~W~~~l~~L~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L 475 (1153)
T PLN03210 396 GSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNL 475 (1153)
T ss_pred HHHHcCCCHHHHHHHHHHHHhCccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcCCCchhChHHH
Confidence 9999999999999999999988888899999999999987 699999999999999999988888888899899999999
Q ss_pred hhCCcceeeCCeEEecHHHHHHHHHHHhhcCcCCCCCcccccCcchHHHHHhhcC
Q 037752 277 VDKSLVIISNNKITMHDLLQEMGREIVRQESIKDSGKRSRLWHHEDIDQVLSKNT 331 (332)
Q Consensus 277 v~~sLl~~~~~~~~mHdlv~~~a~~i~~~e~~~~~~~~~rl~~~~~~~~~l~~~~ 331 (332)
+++|||++..++++||||+|+||++++++++ .+|++|+|||+++||++||.+++
T Consensus 476 ~~ksLi~~~~~~~~MHdLl~~~~r~i~~~~~-~~~~~r~~l~~~~di~~vl~~~~ 529 (1153)
T PLN03210 476 VDKSLIHVREDIVEMHSLLQEMGKEIVRAQS-NEPGEREFLVDAKDICDVLEDNT 529 (1153)
T ss_pred HhcCCEEEcCCeEEhhhHHHHHHHHHHHhhc-CCCCcceeEeCHHHHHHHHHhCc
Confidence 9999999888899999999999999999998 78999999999999999999875
No 2
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=1.5e-41 Score=284.60 Aligned_cols=130 Identities=32% Similarity=0.541 Sum_probs=121.1
Q ss_pred CcceeEEEeccccccccchHHHHHHHHhcCCCeeeecC-CCCCCCCchHHHHHHhhhcceEEEEeecCCcCChhhHHHHH
Q 037752 13 QIKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFIDD-KLNRGNEISPSLLSAIEGSKISIVIFSKGYASSRWCLNELV 91 (332)
Q Consensus 13 ~~~ydvFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~-~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~y~~S~wc~~El~ 91 (332)
..+|||||||+|+|+|.+|++||+.+|+++||++|+|+ ++++|+.|.+.|.+||++|+++|+|||+||++|.||++||+
T Consensus 24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~ 103 (187)
T PLN03194 24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELA 103 (187)
T ss_pred CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHH
Confidence 56799999999999999999999999999999999999 89999999999999999999999999999999999999999
Q ss_pred HHHHhhhhcCCeeEeeeeecCCCcccccc-cchhhhHHHHHHhhhhhhhHHHHHHHHHHhhhccccccc
Q 037752 92 KILESKNKYGQIVVPVFYLVDPSDVRNQT-GTFGDSFSKLEERFKEKIDMLQTWRIAMREAANLSGFDS 159 (332)
Q Consensus 92 ~~~~~~~~~~~~vlpVfy~v~p~dv~~q~-g~f~~~f~~~~~~~~~~~e~v~~W~~aL~~v~~~~g~~~ 159 (332)
+|+++. ..|+||||+|+|+||++|+ |. .+.+++++|+.||++|+++.|+++
T Consensus 104 ~I~e~~----~~ViPIFY~VdPsdVr~q~~~~-------------~~~e~v~~Wr~AL~~va~l~G~~~ 155 (187)
T PLN03194 104 LIMESK----KRVIPIFCDVKPSQLRVVDNGT-------------CPDEEIRRFNWALEEAKYTVGLTF 155 (187)
T ss_pred HHHHcC----CEEEEEEecCCHHHhhccccCC-------------CCHHHHHHHHHHHHHHhccccccC
Confidence 999975 4899999999999999973 32 134679999999999999999876
No 3
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]
Probab=99.93 E-value=2.7e-26 Score=237.07 Aligned_cols=148 Identities=30% Similarity=0.425 Sum_probs=130.2
Q ss_pred cccccCCccccccCCC-CCCcchHHHHHHHHHHhcCCchHHHHhhhhhcCC-CHHHHHHHHHHHhcC-----C--CCchH
Q 037752 155 SGFDSHGISRNAFGQN-HPAAGYLELSNIVIKYAKGIPLALKVLGRYLFGR-SEEEWENAIEKLKRI-----P--HMDIQ 225 (332)
Q Consensus 155 ~g~~~~~F~~~AF~~~-~~~~~~~~l~~~iv~~c~GlPLAl~~ig~~L~~k-~~~~w~~~l~~l~~~-----~--~~~i~ 225 (332)
..|++ |++.||... ...+.++++|++++++|+|||||++++|+.|+.| +..+|+.+.+.+.+. + ...|.
T Consensus 321 eaW~L--F~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~ 398 (889)
T KOG4658|consen 321 EAWDL--FQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESIL 398 (889)
T ss_pred ccHHH--HHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhH
Confidence 34666 999999864 4445699999999999999999999999999996 677999999988764 1 25688
Q ss_pred HHHHHhhcCCCHHHHHHHHhhcccCCC--CCHHHHHHHHHHcCCChh------------HHHHHHhhCCcceeeC-----
Q 037752 226 KVLKVSYDGLDDEEQNIFLDIACFFKG--QHRDFVMNFQDACGFSAK------------IGICDLVDKSLVIISN----- 286 (332)
Q Consensus 226 ~~L~~Syd~L~~~~k~~fl~~a~fp~~--~~~~~l~~lw~~~g~~~~------------~~l~~Lv~~sLl~~~~----- 286 (332)
.+|++|||.||++.|.||+|||+||+| ++++.|+.+|+++||+.. .++.+|+++||++...
T Consensus 399 ~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~ 478 (889)
T KOG4658|consen 399 PILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRK 478 (889)
T ss_pred HhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccce
Confidence 999999999999999999999999999 789999999999998633 3699999999999763
Q ss_pred CeEEecHHHHHHHHHHHh
Q 037752 287 NKITMHDLLQEMGREIVR 304 (332)
Q Consensus 287 ~~~~mHdlv~~~a~~i~~ 304 (332)
..++|||+||+||..++.
T Consensus 479 ~~~kmHDvvRe~al~ias 496 (889)
T KOG4658|consen 479 ETVKMHDVVREMALWIAS 496 (889)
T ss_pred eEEEeeHHHHHHHHHHhc
Confidence 578999999999999998
No 4
>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=99.89 E-value=1.9e-24 Score=178.52 Aligned_cols=132 Identities=36% Similarity=0.547 Sum_probs=115.2
Q ss_pred EEEeccccccccchHHHHHHHHhcC--CCeeeecC-CCCCCCCchHHHHHHhhhcceEEEEeecCCcCChhhHHHHHHHH
Q 037752 18 VFLSFRGKDVRHNFISHLNAALCRK--KIVTFIDD-KLNRGNEISPSLLSAIEGSKISIVIFSKGYASSRWCLNELVKIL 94 (332)
Q Consensus 18 vFis~~~~D~~~~f~~~L~~~L~~~--gi~~f~d~-~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~y~~S~wc~~El~~~~ 94 (332)
|||||++.+.+..|+.+|..+|+++ |+++|+++ |+.+|..+.+++.++|++||++|+|+|++|+.|.||+.||..++
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 8999999555677999999999999 99999998 99999999999999999999999999999999999999999999
Q ss_pred HhhhhcC--CeeEeeeeecCCCccc-ccccchhhhHHHHHHhhhhh--hhHHHHHHHHHH
Q 037752 95 ESKNKYG--QIVVPVFYLVDPSDVR-NQTGTFGDSFSKLEERFKEK--IDMLQTWRIAMR 149 (332)
Q Consensus 95 ~~~~~~~--~~vlpVfy~v~p~dv~-~q~g~f~~~f~~~~~~~~~~--~e~v~~W~~aL~ 149 (332)
++....+ .+|+||||++.++++. .+++.|+..|....+....+ ..+...|+.++.
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 9996644 8999999999999999 78999998888776665544 456788998764
No 5
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.86 E-value=2.8e-21 Score=159.00 Aligned_cols=137 Identities=41% Similarity=0.656 Sum_probs=115.2
Q ss_pred ceeEEEeccc-cccccchHHHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhhhcceEEEEeecCCcCChhhHHHHHHH
Q 037752 15 KYDVFLSFRG-KDVRHNFISHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIEGSKISIVIFSKGYASSRWCLNELVKI 93 (332)
Q Consensus 15 ~ydvFis~~~-~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~y~~S~wc~~El~~~ 93 (332)
+|||||||++ +++...|+.+|..+|...|+.+|.|+... |.....+|.++|++|++.|+|+|++|..|.||..|+..+
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~-~~~~~~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a 79 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEP-GGGDLEEIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA 79 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCccc-ccchHHHHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence 5999999999 45668899999999999999999987433 333334999999999999999999999999999999999
Q ss_pred HHhhhh-cCCeeEeeeeecCCCcccccccchhhhHHHHHHhhhhhhhHHHHHHHHHHhhhc
Q 037752 94 LESKNK-YGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEERFKEKIDMLQTWRIAMREAAN 153 (332)
Q Consensus 94 ~~~~~~-~~~~vlpVfy~v~p~dv~~q~g~f~~~f~~~~~~~~~~~e~v~~W~~aL~~v~~ 153 (332)
.++... ....|+||+++..|.++..+.+.++..+..+...+.++... ..|+.++..+++
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~~ 139 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVPS 139 (140)
T ss_pred HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhcc
Confidence 998854 66899999999889889999999999988775555544322 689998887764
No 6
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=99.61 E-value=2.6e-16 Score=144.67 Aligned_cols=109 Identities=28% Similarity=0.499 Sum_probs=89.0
Q ss_pred ccccccCCC-CCCcchHHHHHHHHHHhcCCchHHHHhhhhhcCC-CHHHHHHHHHHHhcCC------CCchHHHHHHhhc
Q 037752 162 ISRNAFGQN-HPAAGYLELSNIVIKYAKGIPLALKVLGRYLFGR-SEEEWENAIEKLKRIP------HMDIQKVLKVSYD 233 (332)
Q Consensus 162 F~~~AF~~~-~~~~~~~~l~~~iv~~c~GlPLAl~~ig~~L~~k-~~~~w~~~l~~l~~~~------~~~i~~~L~~Syd 233 (332)
|+..++... ...+.+.+++++|+++|+|+||||+++|+.|+.+ +..+|+.+++++.... ...+..++.+||+
T Consensus 166 ~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~s~~ 245 (287)
T PF00931_consen 166 FKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSALELSYD 245 (287)
T ss_dssp HHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHHHHHHHH
T ss_pred ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccceechh
Confidence 666676655 3455678899999999999999999999999653 6788999998876632 3568999999999
Q ss_pred CCCHHHHHHHHhhcccCCC--CCHHHHHHHHHHcCCChh
Q 037752 234 GLDDEEQNIFLDIACFFKG--QHRDFVMNFQDACGFSAK 270 (332)
Q Consensus 234 ~L~~~~k~~fl~~a~fp~~--~~~~~l~~lw~~~g~~~~ 270 (332)
.||++.|+||++||+||.+ ++.+.++++|.++|++..
T Consensus 246 ~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~ 284 (287)
T PF00931_consen 246 SLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISS 284 (287)
T ss_dssp SSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred cCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCcc
Confidence 9999999999999999988 679999999999998754
No 7
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.57 E-value=1.1e-15 Score=118.95 Aligned_cols=87 Identities=31% Similarity=0.508 Sum_probs=75.1
Q ss_pred EEEeccccccccchHHHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhhhcceEEEEeecCCcCChhhHHHHHHHHHhh
Q 037752 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIEGSKISIVIFSKGYASSRWCLNELVKILESK 97 (332)
Q Consensus 18 vFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~y~~S~wc~~El~~~~~~~ 97 (332)
|||||+++| ..++..|...|++.|+++|.|.++..|+.+.+.+.++|++|+..|+++|++|..|.||..|+..+.+
T Consensus 1 VFIS~~~~D--~~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~-- 76 (102)
T PF13676_consen 1 VFISYSSED--REFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK-- 76 (102)
T ss_dssp EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC--
T ss_pred eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH--
Confidence 899999999 6699999999999999999999899999999999999999999999999999999999999988733
Q ss_pred hhcCCeeEeeeee
Q 037752 98 NKYGQIVVPVFYL 110 (332)
Q Consensus 98 ~~~~~~vlpVfy~ 110 (332)
.+..|+||..+
T Consensus 77 --~~~~iipv~~~ 87 (102)
T PF13676_consen 77 --RGKPIIPVRLD 87 (102)
T ss_dssp --TSESEEEEECS
T ss_pred --CCCEEEEEEEC
Confidence 44589999844
No 8
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=98.46 E-value=7e-07 Score=84.65 Aligned_cols=94 Identities=27% Similarity=0.409 Sum_probs=76.3
Q ss_pred CCCcceeEEEeccccccccchHHHHHHHHhcCCCeeeecC-CCCCCCCchHHHHHHhhhcceEEEEeecCCcC----C--
Q 037752 11 NPQIKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFIDD-KLNRGNEISPSLLSAIEGSKISIVIFSKGYAS----S-- 83 (332)
Q Consensus 11 ~~~~~ydvFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~-~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~y~~----S-- 83 (332)
+...+.|||||||... ....++-+..-|+-.|+++|+|- .+..|.. .+.+.+.|+..+.+|.|+|||... .
T Consensus 608 ~~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGKF-dssLlkni~aAkhFiLVLtP~sLDr~lnD~n 685 (832)
T KOG3678|consen 608 MLSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGKF-DSSLLKNIQAAKHFILVLTPNSLDRLLNDDN 685 (832)
T ss_pred cccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhcccc-cHHHHHHHHhhheeEEEeCcchHHHHhcccc
Confidence 4457899999998764 44588888888999999999996 7888874 578999999999999999998643 2
Q ss_pred --hhhHHHHHHHHHhhhhcCCeeEeeeee
Q 037752 84 --RWCLNELVKILESKNKYGQIVVPVFYL 110 (332)
Q Consensus 84 --~wc~~El~~~~~~~~~~~~~vlpVfy~ 110 (332)
.|.-.||.-+.+|+ +.|+|||..
T Consensus 686 CeDWVHKEl~~Afe~~----KNIiPI~D~ 710 (832)
T KOG3678|consen 686 CEDWVHKELKCAFEHQ----KNIIPIFDT 710 (832)
T ss_pred HHHHHHHHHHHHHHhc----CCeeeeecc
Confidence 46667877777776 479999975
No 9
>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=98.17 E-value=3.7e-06 Score=68.23 Aligned_cols=88 Identities=23% Similarity=0.377 Sum_probs=46.0
Q ss_pred eeEEEeccccccccchHHHHHHHHhcC-------CCee-ee---------cC-CCCCCCCchHHHHHHhhhcceEEEEee
Q 037752 16 YDVFLSFRGKDVRHNFISHLNAALCRK-------KIVT-FI---------DD-KLNRGNEISPSLLSAIEGSKISIVIFS 77 (332)
Q Consensus 16 ydvFis~~~~D~~~~f~~~L~~~L~~~-------gi~~-f~---------d~-~~~~g~~i~~~i~~~i~~Sr~~i~v~S 77 (332)
|.|||||++.|.. .....|...+... .+.. |. +. +....+.|...|.+.|..|.+.||+.+
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 6799999999943 2666676666653 2211 11 11 222344788899999999999999999
Q ss_pred cCCcCChhhHHHHHHHHHhhhhcCCeeEeee
Q 037752 78 KGYASSRWCLNELVKILESKNKYGQIVVPVF 108 (332)
Q Consensus 78 ~~y~~S~wc~~El~~~~~~~~~~~~~vlpVf 108 (332)
++...|.|+..|+..+++. +..|+.|-
T Consensus 80 ~~T~~s~wV~~EI~~A~~~----~~~Ii~V~ 106 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALKK----GKPIIGVY 106 (130)
T ss_dssp TT----HHHHHHHHHHTTT-------EEEEE
T ss_pred CCcccCcHHHHHHHHHHHC----CCCEEEEE
Confidence 9999999999999987773 45666664
No 10
>PRK04841 transcriptional regulator MalT; Provisional
Probab=97.20 E-value=0.0028 Score=67.41 Aligned_cols=125 Identities=14% Similarity=0.191 Sum_probs=86.7
Q ss_pred HHHHHHHHHhcCCchHHHHhhhhhcCCCHHHHHHHHHHHhcCCCCchHHHHHHh-hcCCCHHHHHHHHhhcccCCCCCHH
Q 037752 178 ELSNIVIKYAKGIPLALKVLGRYLFGRSEEEWENAIEKLKRIPHMDIQKVLKVS-YDGLDDEEQNIFLDIACFFKGQHRD 256 (332)
Q Consensus 178 ~l~~~iv~~c~GlPLAl~~ig~~L~~k~~~~w~~~l~~l~~~~~~~i~~~L~~S-yd~L~~~~k~~fl~~a~fp~~~~~~ 256 (332)
+...++.+.|+|.|+++..++..+...+.. .......+...+...+...|.-. ++.||++.+..++.+|+++ .++.+
T Consensus 206 ~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~-~~~~~ 283 (903)
T PRK04841 206 AESSRLCDDVEGWATALQLIALSARQNNSS-LHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR-SMNDA 283 (903)
T ss_pred HHHHHHHHHhCChHHHHHHHHHHHhhCCCc-hhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc-cCCHH
Confidence 446789999999999999998877543210 11112222222234566655444 8899999999999999986 67766
Q ss_pred HHHHHHHHcCCChhHHHHHHhhCCcceee----CCeEEecHHHHHHHHHHHhhc
Q 037752 257 FVMNFQDACGFSAKIGICDLVDKSLVIIS----NNKITMHDLLQEMGREIVRQE 306 (332)
Q Consensus 257 ~l~~lw~~~g~~~~~~l~~Lv~~sLl~~~----~~~~~mHdlv~~~a~~i~~~e 306 (332)
.+..+.... .....++.|.+.+|+... ...|++|+|++++.++-...+
T Consensus 284 l~~~l~~~~--~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l~~~ 335 (903)
T PRK04841 284 LIVRVTGEE--NGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRCQWE 335 (903)
T ss_pred HHHHHcCCC--cHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHHHhc
Confidence 555555321 346689999999997532 237999999999998876444
No 11
>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=97.00 E-value=0.0047 Score=51.08 Aligned_cols=62 Identities=18% Similarity=0.285 Sum_probs=50.0
Q ss_pred eEEEecccccc-ccchHHHHHHHHhcC-CCeeeecC-CCCC--CCCchHHHHHHhhhcceEEEEeec
Q 037752 17 DVFLSFRGKDV-RHNFISHLNAALCRK-KIVTFIDD-KLNR--GNEISPSLLSAIEGSKISIVIFSK 78 (332)
Q Consensus 17 dvFis~~~~D~-~~~f~~~L~~~L~~~-gi~~f~d~-~~~~--g~~i~~~i~~~i~~Sr~~i~v~S~ 78 (332)
-|||||+.... ....|..|...|++. |+.+.+|. +... +.....=+.+.++++.+.|+|.|+
T Consensus 2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~ 68 (150)
T PF08357_consen 2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSP 68 (150)
T ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEecc
Confidence 39999988553 235689999999999 99999997 6532 545566778889999999999994
No 12
>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=94.97 E-value=0.081 Score=42.44 Aligned_cols=59 Identities=22% Similarity=0.296 Sum_probs=48.6
Q ss_pred EEEeccccccccchHHHHHHHHhcCCCeeeec-CCCCCCCCchHHHHHHhhhcceEEEEeecC
Q 037752 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFID-DKLNRGNEISPSLLSAIEGSKISIVIFSKG 79 (332)
Q Consensus 18 vFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d-~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~ 79 (332)
|||.|+ .| ......+...|+..|+.+.+= .....|..+.+.+.+.+.++..+|++++|+
T Consensus 2 VFIvhg-~~--~~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpD 61 (125)
T PF10137_consen 2 VFIVHG-RD--LAAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPD 61 (125)
T ss_pred EEEEeC-CC--HHHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEccc
Confidence 899986 66 357778888888778776553 356889999999999999999999999984
No 13
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=86.45 E-value=0.79 Score=40.89 Aligned_cols=98 Identities=18% Similarity=0.166 Sum_probs=65.3
Q ss_pred CCCcceeEEEeccccccccchHHHHHHHHh--cCCCeeeecCC----CCCCCCchHHHHHHhh--hcceEEEEeecCCcC
Q 037752 11 NPQIKYDVFLSFRGKDVRHNFISHLNAALC--RKKIVTFIDDK----LNRGNEISPSLLSAIE--GSKISIVIFSKGYAS 82 (332)
Q Consensus 11 ~~~~~ydvFis~~~~D~~~~f~~~L~~~L~--~~gi~~f~d~~----~~~g~~i~~~i~~~i~--~Sr~~i~v~S~~y~~ 82 (332)
...+.||+=+||.|+- ...|+....+++ .-.+..|.|.+ +-+|+ + ..++.-+. .|++.+|...+||..
T Consensus 173 ~~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L-~~~L~~~Y~~rC~~~~VF~~~~Y~~ 248 (329)
T COG4916 173 SSEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-L-VSTLDPGYDIRCVVTTVFNTGSYIC 248 (329)
T ss_pred ccccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCcc-H-HHhcccccCceEEEEEEEeCCceEE
Confidence 3467899999999997 569999999998 33455677742 33443 1 23333333 677788888999999
Q ss_pred ChhhHHHHHHHHHhhhhcCCeeEeeeee-cCCC
Q 037752 83 SRWCLNELVKILESKNKYGQIVVPVFYL-VDPS 114 (332)
Q Consensus 83 S~wc~~El~~~~~~~~~~~~~vlpVfy~-v~p~ 114 (332)
..||..|...+-+-. .-+...||.|. ++.+
T Consensus 249 K~~c~~E~~~~r~~~--~~d~~~rI~~~~~d~~ 279 (329)
T COG4916 249 KSTCHIEGLEGRLNP--ILDTGFRIKYLYADNI 279 (329)
T ss_pred eeeeccchhhccccc--cccccceEEEEecCCc
Confidence 999999876654322 12345566554 4444
No 14
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=85.72 E-value=2.8 Score=30.77 Aligned_cols=65 Identities=20% Similarity=0.177 Sum_probs=46.6
Q ss_pred EEEeccccccccchHHHHHHHHhcCCCeeeecCCC-CCCCCchHHHHHHhhhcceEEEEeecCCcCC
Q 037752 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFIDDKL-NRGNEISPSLLSAIEGSKISIVIFSKGYASS 83 (332)
Q Consensus 18 vFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~-~~g~~i~~~i~~~i~~Sr~~i~v~S~~y~~S 83 (332)
||||-.-.|-.. --..|.+.+.+.|..+..-+.+ ..+....+.+.+.|.+|++.|.++-.+|-..
T Consensus 2 VFiSSt~~Dl~~-eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~ 67 (83)
T PF13271_consen 2 VFISSTFRDLKE-ERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSV 67 (83)
T ss_pred EEEecChhhHHH-HHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCC
Confidence 899977777432 4467777777777665332222 2356666788999999999999999998654
No 15
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=84.58 E-value=0.54 Score=44.13 Aligned_cols=102 Identities=16% Similarity=0.083 Sum_probs=62.6
Q ss_pred HHHHHHHHHhcCCchHHHHhhhhhcCCCHHHHHHHHHHHhcCCC---CchHHHHHHhhcCCCHHHHHHHH-hhcccCCC-
Q 037752 178 ELSNIVIKYAKGIPLALKVLGRYLFGRSEEEWENAIEKLKRIPH---MDIQKVLKVSYDGLDDEEQNIFL-DIACFFKG- 252 (332)
Q Consensus 178 ~l~~~iv~~c~GlPLAl~~ig~~L~~k~~~~w~~~l~~l~~~~~---~~i~~~L~~Syd~L~~~~k~~fl-~~a~fp~~- 252 (332)
+....|++.|+|.|-.+..+...+ ..|..... -..... ......+...+..|++..+..+. .+..|..+
T Consensus 203 ~~~~~ia~~~~G~pR~a~~~l~~~-----~~~a~~~~-~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~ 276 (328)
T PRK00080 203 EGALEIARRSRGTPRIANRLLRRV-----RDFAQVKG-DGVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGP 276 (328)
T ss_pred HHHHHHHHHcCCCchHHHHHHHHH-----HHHHHHcC-CCCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCCc
Confidence 456788889999984332222221 11111100 000000 12334466778899998888886 66777765
Q ss_pred CCHHHHHHHHHHcCCChhHHHH-HHhhCCcceee
Q 037752 253 QHRDFVMNFQDACGFSAKIGIC-DLVDKSLVIIS 285 (332)
Q Consensus 253 ~~~~~l~~lw~~~g~~~~~~l~-~Lv~~sLl~~~ 285 (332)
+..+.+...+....-..+..++ .|++++||+..
T Consensus 277 ~~~~~~a~~lg~~~~~~~~~~e~~Li~~~li~~~ 310 (328)
T PRK00080 277 VGLDTLAAALGEERDTIEDVYEPYLIQQGFIQRT 310 (328)
T ss_pred eeHHHHHHHHCCCcchHHHHhhHHHHHcCCcccC
Confidence 7888888877665555666777 99999999754
No 16
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=84.09 E-value=5.2 Score=36.80 Aligned_cols=103 Identities=14% Similarity=0.093 Sum_probs=62.5
Q ss_pred HHHHHHHHHhcCCchHHHHhhhhhcCCCHHHHHHHHHHHhcC--CC---CchHHHHHHhhcCCCHHHHHHHH-hhcccCC
Q 037752 178 ELSNIVIKYAKGIPLALKVLGRYLFGRSEEEWENAIEKLKRI--PH---MDIQKVLKVSYDGLDDEEQNIFL-DIACFFK 251 (332)
Q Consensus 178 ~l~~~iv~~c~GlPLAl~~ig~~L~~k~~~~w~~~l~~l~~~--~~---~~i~~~L~~Syd~L~~~~k~~fl-~~a~fp~ 251 (332)
+....|++.|+|.|-.+..+...+ |..+ ...... .. ......+..+|..|+...+..+. .++.+..
T Consensus 182 ~al~~ia~~~~G~pR~~~~ll~~~-------~~~a-~~~~~~~it~~~v~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~ 253 (305)
T TIGR00635 182 EAALEIARRSRGTPRIANRLLRRV-------RDFA-QVRGQKIINRDIALKALEMLMIDELGLDEIDRKLLSVLIEQFQG 253 (305)
T ss_pred HHHHHHHHHhCCCcchHHHHHHHH-------HHHH-HHcCCCCcCHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHhCC
Confidence 456778899999995443333321 1110 000000 00 11222356678899998888766 5576754
Q ss_pred C-CCHHHHHHHHHHcCCChhHHHH-HHhhCCcceee-CCe
Q 037752 252 G-QHRDFVMNFQDACGFSAKIGIC-DLVDKSLVIIS-NNK 288 (332)
Q Consensus 252 ~-~~~~~l~~lw~~~g~~~~~~l~-~Lv~~sLl~~~-~~~ 288 (332)
+ ...+.+...+.......+..++ .|++++||... .|+
T Consensus 254 ~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~~~~~g~ 293 (305)
T TIGR00635 254 GPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRTPRGR 293 (305)
T ss_pred CcccHHHHHHHhCCCcchHHHhhhHHHHHcCCcccCCchh
Confidence 4 7778888777766666666788 69999999754 443
No 17
>COG3903 Predicted ATPase [General function prediction only]
Probab=78.93 E-value=4.6 Score=38.85 Aligned_cols=124 Identities=21% Similarity=0.249 Sum_probs=86.0
Q ss_pred HHHHHHHHHHhcCCchHHHHhhhhhcCCCHHHHHHHHHH----HhcC------CCCchHHHHHHhhcCCCHHHHHHHHhh
Q 037752 177 LELSNIVIKYAKGIPLALKVLGRYLFGRSEEEWENAIEK----LKRI------PHMDIQKVLKVSYDGLDDEEQNIFLDI 246 (332)
Q Consensus 177 ~~l~~~iv~~c~GlPLAl~~ig~~L~~k~~~~w~~~l~~----l~~~------~~~~i~~~L~~Syd~L~~~~k~~fl~~ 246 (332)
......|.++..|.||+|...+++.+.-...+.-..++. |... ........+.+||.-|...++-.|..+
T Consensus 169 ~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgwe~~~~~rL 248 (414)
T COG3903 169 AAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGWERALFGRL 248 (414)
T ss_pred hHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhHHHHHhcch
Confidence 345778999999999999999999988654444333322 2221 113467789999999999999999999
Q ss_pred cccCCCCCHHHHHHHHHHcCCC-------hhHHHHHHhhCCcceee----CCeEEecHHHHHHHHHH
Q 037752 247 ACFFKGQHRDFVMNFQDACGFS-------AKIGICDLVDKSLVIIS----NNKITMHDLLQEMGREI 302 (332)
Q Consensus 247 a~fp~~~~~~~l~~lw~~~g~~-------~~~~l~~Lv~~sLl~~~----~~~~~mHdlv~~~a~~i 302 (332)
+.|..+++.+ ...|.+.|-. .-..+..|++++++... .-+|+.-+-.|.|+.+.
T Consensus 249 a~~~g~f~~~--l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~Yalae 313 (414)
T COG3903 249 AVFVGGFDLG--LALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAE 313 (414)
T ss_pred hhhhhhhccc--HHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 9999888766 3344443332 22357889999998754 23456556666666554
No 18
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=69.09 E-value=16 Score=31.59 Aligned_cols=65 Identities=26% Similarity=0.289 Sum_probs=49.1
Q ss_pred CCcceeEEEeccccccccchHHHHHHHHhcC-C-CeeeecCCCCCCCCchHHHHHHhhhcceEEEEeecCCc
Q 037752 12 PQIKYDVFLSFRGKDVRHNFISHLNAALCRK-K-IVTFIDDKLNRGNEISPSLLSAIEGSKISIVIFSKGYA 81 (332)
Q Consensus 12 ~~~~ydvFis~~~~D~~~~f~~~L~~~L~~~-g-i~~f~d~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~y~ 81 (332)
++.+ -|||-|+++- .+....++|.+. . ..+|.|.-+..|..|.+.+.+-|.++..+|++.+|+=.
T Consensus 80 p~~k-kvFvv~ghd~----iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDk 146 (233)
T COG4271 80 PNLK-KVFVVSGHDA----IARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDK 146 (233)
T ss_pred CCce-eEEEEeccHH----HHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCccc
Confidence 3444 7999974433 555566666643 2 44576778899999999999999999999999999743
No 19
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=62.65 E-value=32 Score=26.56 Aligned_cols=68 Identities=18% Similarity=0.062 Sum_probs=48.3
Q ss_pred cchHHHHHHHHhcCCCeeeecC--CCC-------CCCCchHHHHHHhhhcceEEEEeecCCcCChhhHHHHHHHHHhh
Q 037752 29 HNFISHLNAALCRKKIVTFIDD--KLN-------RGNEISPSLLSAIEGSKISIVIFSKGYASSRWCLNELVKILESK 97 (332)
Q Consensus 29 ~~f~~~L~~~L~~~gi~~f~d~--~~~-------~g~~i~~~i~~~i~~Sr~~i~v~S~~y~~S~wc~~El~~~~~~~ 97 (332)
..+...+.++|+..|..+|... +.. ....|...-.++|++|++.|+++...- .+.-+..|+-.+....
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~alg 89 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYALG 89 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHCC
Confidence 5588999999999999888743 221 123355556689999999999998766 4555777876665543
No 20
>PF13730 HTH_36: Helix-turn-helix domain
Probab=52.11 E-value=23 Score=23.28 Aligned_cols=46 Identities=20% Similarity=0.312 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHhhcccCCC----C-CHHHHHHHHHHcCCC---hhHHHHHHhhCCcc
Q 037752 234 GLDDEEQNIFLDIACFFKG----Q-HRDFVMNFQDACGFS---AKIGICDLVDKSLV 282 (332)
Q Consensus 234 ~L~~~~k~~fl~~a~fp~~----~-~~~~l~~lw~~~g~~---~~~~l~~Lv~~sLl 282 (332)
.|++.++.++.++.-+..+ + +.+.+.... |.. ....+++|+++++|
T Consensus 2 ~Ls~~~~~v~~~l~~~~~~~~~~~pS~~~la~~~---g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 2 NLSPTAKLVYLYLASYANKNGGCFPSQETLAKDL---GVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CCCHHHHHHHHHHHHhcCCCCCCCcCHHHHHHHH---CcCHHHHHHHHHHHHHCcCC
Confidence 5888899999888877632 2 344444444 443 33479999999886
No 21
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=50.37 E-value=18 Score=24.32 Aligned_cols=52 Identities=13% Similarity=0.045 Sum_probs=39.5
Q ss_pred CCCHHHHHHHHhhcccCCC-CCHHHHHHHHHHcCCChhHHHHHHhhCCcceee
Q 037752 234 GLDDEEQNIFLDIACFFKG-QHRDFVMNFQDACGFSAKIGICDLVDKSLVIIS 285 (332)
Q Consensus 234 ~L~~~~k~~fl~~a~fp~~-~~~~~l~~lw~~~g~~~~~~l~~Lv~~sLl~~~ 285 (332)
+|++.+-.++.++...|.+ .+...+.+.+.-..-.....++.|..++||+..
T Consensus 2 glt~~q~~vL~~l~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~ 54 (62)
T PF12802_consen 2 GLTPSQFRVLMALARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERE 54 (62)
T ss_dssp TSTHHHHHHHHHHHHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred ccCHHHHHHHHHHHHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEe
Confidence 5777888888999988876 788887777754433445579999999999864
No 22
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=50.28 E-value=48 Score=24.92 Aligned_cols=63 Identities=10% Similarity=0.105 Sum_probs=43.3
Q ss_pred HhhcCCCHHHHHHHHhhcc-------cCCCCCHHHHHHHHHHcCCChhHHHHHHhhCCcceeeC--CeEEec
Q 037752 230 VSYDGLDDEEQNIFLDIAC-------FFKGQHRDFVMNFQDACGFSAKIGICDLVDKSLVIISN--NKITMH 292 (332)
Q Consensus 230 ~Syd~L~~~~k~~fl~~a~-------fp~~~~~~~l~~lw~~~g~~~~~~l~~Lv~~sLl~~~~--~~~~mH 292 (332)
+.+..+++.+..|++.++- ....++...+..+....---....++.|..+++|.... |.+.|.
T Consensus 18 l~~~~l~~r~~~vLl~L~~~~~G~~~~~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~r~~~~~~~~~n 89 (95)
T TIGR01610 18 LPGADLSGREFRVLLAIIRLTYGWNKKQDRVTATVIAELTGLSRTHVSDAIKSLARRRIIFRQGMMGIVGVN 89 (95)
T ss_pred HHhCCCCHHHHHHHHHHHHHHhCccccCCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCeeeecCCceeecC
Confidence 5577788888899988873 12236677666666443333455799999999998763 666553
No 23
>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=46.54 E-value=79 Score=22.68 Aligned_cols=46 Identities=13% Similarity=0.150 Sum_probs=30.7
Q ss_pred eeEEEeccccccccchHHHHHHHHhcCCCeeeecCCCCCCCCchHHHHHH
Q 037752 16 YDVFLSFRGKDVRHNFISHLNAALCRKKIVTFIDDKLNRGNEISPSLLSA 65 (332)
Q Consensus 16 ydvFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~ 65 (332)
|+|+|...+++.. .-+-.+...|.+.|+++-+|. .+..+...+..|
T Consensus 2 ~~v~ii~~~~~~~-~~a~~~~~~Lr~~g~~v~~d~---~~~~~~~~~~~a 47 (91)
T cd00860 2 VQVVVIPVTDEHL-DYAKEVAKKLSDAGIRVEVDL---RNEKLGKKIREA 47 (91)
T ss_pred eEEEEEeeCchHH-HHHHHHHHHHHHCCCEEEEEC---CCCCHHHHHHHH
Confidence 7887776555433 367788899999999998875 123444444444
No 24
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=46.26 E-value=78 Score=33.62 Aligned_cols=120 Identities=17% Similarity=0.202 Sum_probs=73.0
Q ss_pred HHHHHHHhcCCchHHHHhhhhhcC-CCHHHHHHHHHHHhcCCCCchHH-HHHHhhcCCCHHHHHHHHhhcccCCCCCHHH
Q 037752 180 SNIVIKYAKGIPLALKVLGRYLFG-RSEEEWENAIEKLKRIPHMDIQK-VLKVSYDGLDDEEQNIFLDIACFFKGQHRDF 257 (332)
Q Consensus 180 ~~~iv~~c~GlPLAl~~ig~~L~~-k~~~~w~~~l~~l~~~~~~~i~~-~L~~Syd~L~~~~k~~fl~~a~fp~~~~~~~ 257 (332)
++.+.+.-+|-+-|+..++-.+++ .+.+.-.. .|... ...|.+ ...-=+|.||+++|..++-||+++. ++ +.
T Consensus 216 ~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~---~LsG~-~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~~-f~-~e 289 (894)
T COG2909 216 LKALYDRTEGWAAALQLIALALRNNTSAEQSLR---GLSGA-ASHLSDYLVEEVLDRLPPELRDFLLQTSVLSR-FN-DE 289 (894)
T ss_pred HHHHHhhcccHHHHHHHHHHHccCCCcHHHHhh---hccch-HHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH-hh-HH
Confidence 556777777888888777766663 22211111 11100 011111 1223368899999999999998852 22 23
Q ss_pred HHHHHHHcCCChhHHHHHHhhCCcceee----CCeEEecHHHHHHHHHHHhhc
Q 037752 258 VMNFQDACGFSAKIGICDLVDKSLVIIS----NNKITMHDLLQEMGREIVRQE 306 (332)
Q Consensus 258 l~~lw~~~g~~~~~~l~~Lv~~sLl~~~----~~~~~mHdlv~~~a~~i~~~e 306 (332)
|..-+.+.+ .....+++|..++|+-+. ++.|+.|.|..+|-+.--..+
T Consensus 290 L~~~Ltg~~-ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~~ 341 (894)
T COG2909 290 LCNALTGEE-NGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQRE 341 (894)
T ss_pred HHHHHhcCC-cHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhhccc
Confidence 333333221 234468999999998644 678999999999988765443
No 25
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=45.10 E-value=84 Score=23.34 Aligned_cols=63 Identities=13% Similarity=0.120 Sum_probs=42.3
Q ss_pred EEEeccccccccchHHHHHHHHhcCCCeeeecC-CCC-------CCCCchHHHHHHhhhcceEEEEeecCC
Q 037752 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFIDD-KLN-------RGNEISPSLLSAIEGSKISIVIFSKGY 80 (332)
Q Consensus 18 vFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~-~~~-------~g~~i~~~i~~~i~~Sr~~i~v~S~~y 80 (332)
+|.|..|--.+..++.+|...|.++|.++..-+ |.. .+-...+....++..|+..|+++.+..
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~ 73 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSP 73 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCH
Confidence 467776666677788999999999998876532 321 222233455577788888888877643
No 26
>COG3899 Predicted ATPase [General function prediction only]
Probab=38.55 E-value=60 Score=34.79 Aligned_cols=109 Identities=14% Similarity=0.244 Sum_probs=72.0
Q ss_pred hHHHHHHHHHHhcCCchHHHHhhhhhcC-------CCHHHHHHHHHHHhcCCC-CchHHHHHHhhcCCCHHHHHHHHhhc
Q 037752 176 YLELSNIVIKYAKGIPLALKVLGRYLFG-------RSEEEWENAIEKLKRIPH-MDIQKVLKVSYDGLDDEEQNIFLDIA 247 (332)
Q Consensus 176 ~~~l~~~iv~~c~GlPLAl~~ig~~L~~-------k~~~~w~~~l~~l~~~~~-~~i~~~L~~Syd~L~~~~k~~fl~~a 247 (332)
..+....|+++-.|.|+=+.-+=..|.. .+...|..-..++...+. +++-+.+..-.+.||+..|+..-..|
T Consensus 239 ~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~~t~~Vl~~AA 318 (849)
T COG3899 239 PAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPGTTREVLKAAA 318 (849)
T ss_pred cchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 3567889999999999876554444432 123344333333322211 22444588889999999999999999
Q ss_pred ccCCCCCHHHHHHHHHHcCCChhHHHHHHhhCCccee
Q 037752 248 CFFKGQHRDFVMNFQDACGFSAKIGICDLVDKSLVII 284 (332)
Q Consensus 248 ~fp~~~~~~~l~~lw~~~g~~~~~~l~~Lv~~sLl~~ 284 (332)
|+...++.+.|..++...+...-..+-.....+++.+
T Consensus 319 ~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e~lI~~ 355 (849)
T COG3899 319 CIGNRFDLDTLAALAEDSPALEAAALLDALQEGLILP 355 (849)
T ss_pred HhCccCCHHHHHHHHhhchHHHHHHHHHHhHhhceec
Confidence 9999999999999888655444444444444555543
No 27
>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=37.18 E-value=42 Score=24.61 Aligned_cols=46 Identities=20% Similarity=0.299 Sum_probs=30.4
Q ss_pred cchHHHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhh-hcceEEEEeec
Q 037752 29 HNFISHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIE-GSKISIVIFSK 78 (332)
Q Consensus 29 ~~f~~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~-~Sr~~i~v~S~ 78 (332)
..++..+...|.+.|+.+.+|+ .+..+...+..|-. +..+ ++|+.+
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~---~~~~~~k~~~~a~~~g~p~-~iiiG~ 61 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDD---SDKSLGKQIKYADKLGIPF-IIIIGE 61 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEES---SSSTHHHHHHHHHHTTESE-EEEEEH
T ss_pred HHHHHHHHHHHHHCCCEEEEEC---CCCchhHHHHHHhhcCCeE-EEEECc
Confidence 3578999999999999999986 33445455555543 3444 444443
No 28
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=36.00 E-value=93 Score=26.26 Aligned_cols=68 Identities=29% Similarity=0.326 Sum_probs=44.7
Q ss_pred HHhcCCCeeee-c--CCCC--CCCCchHHHHHHhhhcce-----EEEEeecCCcCChhhHHHHHHHHHhhhhcCCeeEee
Q 037752 38 ALCRKKIVTFI-D--DKLN--RGNEISPSLLSAIEGSKI-----SIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPV 107 (332)
Q Consensus 38 ~L~~~gi~~f~-d--~~~~--~g~~i~~~i~~~i~~Sr~-----~i~v~S~~y~~S~wc~~El~~~~~~~~~~~~~vlpV 107 (332)
.|.++||+..+ | +-+. .-+.+.+++.+.+++.+. .|+|+|.+--++.---.+-+..++..- + +||
T Consensus 35 ~Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~d~~~~~a~~~~~~l--g---Ipv 109 (168)
T PF09419_consen 35 HLKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSDDPDGERAEALEKAL--G---IPV 109 (168)
T ss_pred hhhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCCCeEEEEECCCCcccCccHHHHHHHHHhh--C---CcE
Confidence 48999999766 3 3443 336788999988888774 389999998666533334444444432 2 787
Q ss_pred eee
Q 037752 108 FYL 110 (332)
Q Consensus 108 fy~ 110 (332)
+.+
T Consensus 110 l~h 112 (168)
T PF09419_consen 110 LRH 112 (168)
T ss_pred EEe
Confidence 744
No 29
>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.
Probab=33.27 E-value=41 Score=25.75 Aligned_cols=65 Identities=17% Similarity=0.269 Sum_probs=43.1
Q ss_pred ccccccCCccccccCCC-CCCcchHHHHHHHHHHhcCCchHHHHhhhhhcC-C-CHHHHHHHHHHHhc
Q 037752 154 LSGFDSHGISRNAFGQN-HPAAGYLELSNIVIKYAKGIPLALKVLGRYLFG-R-SEEEWENAIEKLKR 218 (332)
Q Consensus 154 ~~g~~~~~F~~~AF~~~-~~~~~~~~l~~~iv~~c~GlPLAl~~ig~~L~~-k-~~~~w~~~l~~l~~ 218 (332)
+.||+.+.-++..|+-. .|.|....-+-+.+++..-.|+|++++-+.-.. . ..+.|..+++.++.
T Consensus 21 iD~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~lqeikp 88 (103)
T cd00923 21 IDGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYILQEIKP 88 (103)
T ss_pred ccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHHHHHHhH
Confidence 44554433333444433 567778888888888888999999998875422 2 35568888877654
No 30
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain 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. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=32.79 E-value=1.7e+02 Score=20.93 Aligned_cols=59 Identities=20% Similarity=0.182 Sum_probs=35.4
Q ss_pred eeEEEecccc---ccccchHHHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhhhcceEEEEeec
Q 037752 16 YDVFLSFRGK---DVRHNFISHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIEGSKISIVIFSK 78 (332)
Q Consensus 16 ydvFis~~~~---D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~ 78 (332)
++|+|-.-+. .. ...+-.+...|...|+.+-+|. .+..+...+..+-..---.++++.+
T Consensus 2 ~~v~ii~~~~~~~~~-~~~a~~~~~~Lr~~g~~v~~~~---~~~~~~k~~~~a~~~g~~~~iiig~ 63 (94)
T cd00738 2 IDVAIVPLTDPRVEA-REYAQKLLNALLANGIRVLYDD---RERKIGKKFREADLRGVPFAVVVGE 63 (94)
T ss_pred eEEEEEECCCCcHHH-HHHHHHHHHHHHHCCCEEEecC---CCcCHhHHHHHHHhCCCCEEEEECC
Confidence 6777665443 22 3477788899999999998875 2344544444443322235666665
No 31
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=32.19 E-value=1.7e+02 Score=20.14 Aligned_cols=61 Identities=16% Similarity=0.089 Sum_probs=35.7
Q ss_pred HHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhhhcceEEEEeecCCcCChhhHHHHHHHHHhhhhcCCeeE
Q 037752 33 SHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVV 105 (332)
Q Consensus 33 ~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~y~~S~wc~~El~~~~~~~~~~~~~vl 105 (332)
.-+++-|++.|+.+-..+. ...++....-+++++++.+.-+. -.+...+.+-...++..|+
T Consensus 8 ~a~~~~L~~~g~~v~~~~~----------~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK----------PYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEecc----------cHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCEEEE
Confidence 4567788888988743221 12244557778999999865553 2444444444444455443
No 32
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=30.64 E-value=69 Score=25.73 Aligned_cols=56 Identities=18% Similarity=0.176 Sum_probs=37.5
Q ss_pred ceeEEEeccccccccchHHHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhhhcce
Q 037752 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIEGSKI 71 (332)
Q Consensus 15 ~ydvFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~~Sr~ 71 (332)
-.++|+-..+.=....+++.+..++..+|+-++.|-|. +|+.|...+.+.+.++..
T Consensus 29 ~~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D~-~Ge~Irk~l~~~l~~~~~ 84 (127)
T COG1658 29 DAGVIITNGSAINSLETIELIKKAQKYKGVIILTDPDR-KGERIRKKLKEYLPGAKG 84 (127)
T ss_pred CCceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCCc-chHHHHHHHHHHhccccc
Confidence 35667665443222457788888888888888887653 677777777777766444
No 33
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS 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=28.57 E-value=1.8e+02 Score=22.63 Aligned_cols=60 Identities=12% Similarity=-0.023 Sum_probs=37.1
Q ss_pred ceeEEEeccc--cccccchHHHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhhhcceEEEEeecC
Q 037752 15 KYDVFLSFRG--KDVRHNFISHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIEGSKISIVIFSKG 79 (332)
Q Consensus 15 ~ydvFis~~~--~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~ 79 (332)
.+||||-.-+ ++. ...+-.+...|.++|+.+-+|.. ..+...+..|-..---.++++.++
T Consensus 26 p~~v~Ii~~~~~~~~-~~~a~~la~~LR~~gi~v~~d~~----~sl~kqlk~A~k~g~~~~iiiG~~ 87 (121)
T cd00858 26 PIKVAVLPLVKRDEL-VEIAKEISEELRELGFSVKYDDS----GSIGRRYARQDEIGTPFCVTVDFD 87 (121)
T ss_pred CcEEEEEecCCcHHH-HHHHHHHHHHHHHCCCEEEEeCC----CCHHHHHHHhHhcCCCEEEEECcC
Confidence 5888887766 332 34667888999999999988742 355555544432222245555544
No 34
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=28.19 E-value=1.9e+02 Score=21.97 Aligned_cols=69 Identities=16% Similarity=0.135 Sum_probs=42.3
Q ss_pred HHHHHHHHhcCCCeee-ecCCCCCCCCchHHHHHHhhhcceEEEEeecCCcCChhhHHHHHHHHHhhhhcCCeeEeee
Q 037752 32 ISHLNAALCRKKIVTF-IDDKLNRGNEISPSLLSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVF 108 (332)
Q Consensus 32 ~~~L~~~L~~~gi~~f-~d~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~y~~S~wc~~El~~~~~~~~~~~~~vlpVf 108 (332)
...+...|+++|+.+- +|-.... +++.+.+.+.+.-++.+|-.+.. ...+...+.+..+.....+.-|+
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~~---~~~~~~~l~~~~k~~~p~~~iv~ 86 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMTP---NLPEAKRLARAIKERNPNIPIVV 86 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSST---HHHHHHHHHHHHHTTCTTSEEEE
T ss_pred HHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCcC---cHHHHHHHHHHHHhcCCCCEEEE
Confidence 3677888999999884 4433321 67788888888888888765443 44455555554443333333344
No 35
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=27.84 E-value=70 Score=20.27 Aligned_cols=47 Identities=11% Similarity=0.034 Sum_probs=26.0
Q ss_pred CHHHHHHHHhhcccCCCCCHHHHHHHHHHcCCChhHHHHHHhhCCcce
Q 037752 236 DDEEQNIFLDIACFFKGQHRDFVMNFQDACGFSAKIGICDLVDKSLVI 283 (332)
Q Consensus 236 ~~~~k~~fl~~a~fp~~~~~~~l~~lw~~~g~~~~~~l~~Lv~~sLl~ 283 (332)
+...++++.++.--|. ++...+...+.-..--....++.|.+.++|+
T Consensus 2 ~~~~~~Il~~l~~~~~-~t~~ela~~~~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 2 DETQRKILNYLRENPR-ITQKELAEKLGISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp -HHHHHHHHHHHHCTT-S-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred CHHHHHHHHHHHHcCC-CCHHHHHHHhCCCHHHHHHHHHHHHHCcCcC
Confidence 3455556655555333 6666666655332223445788999888874
No 36
>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=27.52 E-value=42 Score=27.96 Aligned_cols=62 Identities=26% Similarity=0.294 Sum_probs=37.7
Q ss_pred CChhhHHHHHHHHHhhhhcCCeeEeeeeecCCCcccccccchhhhHHHHHHhhhhhhhHHHHHHHHHHhhh
Q 037752 82 SSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEERFKEKIDMLQTWRIAMREAA 152 (332)
Q Consensus 82 ~S~wc~~El~~~~~~~~~~~~~vlpVfy~v~p~dv~~q~g~f~~~f~~~~~~~~~~~e~v~~W~~aL~~v~ 152 (332)
-|.|.+.||..-++....+.=.=|.+..+|.|.++.+... .++....--++++|..+..--|
T Consensus 53 Fs~~~Lf~LI~k~~~keikTW~~La~~LGVepp~~ek~qS---------tQKvqQYaVRLKRWM~aMHVDA 114 (175)
T PF09441_consen 53 FSTFTLFELIRKLESKEIKTWAQLALELGVEPPDPEKGQS---------TQKVQQYAVRLKRWMRAMHVDA 114 (175)
T ss_pred chHHHHHHHHHHHhhhhHhHHHHHHHHhCCCCCCcccccc---------hHHHHHHHHHHHHHHHHhhHHH
Confidence 3568888888877766444434455667899988876332 1111122235889988765443
No 37
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=26.27 E-value=46 Score=23.30 Aligned_cols=42 Identities=12% Similarity=0.147 Sum_probs=32.6
Q ss_pred CCHHHHHHHHHHcCCChhHHHHHHhhCCcceeeCCeEEecHH
Q 037752 253 QHRDFVMNFQDACGFSAKIGICDLVDKSLVIISNNKITMHDL 294 (332)
Q Consensus 253 ~~~~~l~~lw~~~g~~~~~~l~~Lv~~sLl~~~~~~~~mHdl 294 (332)
++.+.+..+....--.....++.|.+.++|+...+.+.++|.
T Consensus 29 lt~~~iA~~~g~sr~tv~r~l~~l~~~g~I~~~~~~i~I~d~ 70 (76)
T PF13545_consen 29 LTQEEIADMLGVSRETVSRILKRLKDEGIIEVKRGKIIILDP 70 (76)
T ss_dssp SSHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETTEEEESSH
T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEcCCEEEECCH
Confidence 677877777754433455579999999999988889999875
No 38
>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=25.78 E-value=65 Score=24.57 Aligned_cols=54 Identities=19% Similarity=0.253 Sum_probs=33.8
Q ss_pred ccccccchHHHHHHHHhcCCCeeeecC-CCC----------CCCCchHHHHHHhhhcceEEEEee
Q 037752 24 GKDVRHNFISHLNAALCRKKIVTFIDD-KLN----------RGNEISPSLLSAIEGSKISIVIFS 77 (332)
Q Consensus 24 ~~D~~~~f~~~L~~~L~~~gi~~f~d~-~~~----------~g~~i~~~i~~~i~~Sr~~i~v~S 77 (332)
..|+|.+=+-.|.+.|.+.|+.+...| -+. .|-.+.+.+.++++.+...|+...
T Consensus 11 ~~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~ 75 (106)
T PF03720_consen 11 TDDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATD 75 (106)
T ss_dssp SS--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS-
T ss_pred CcccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEec
Confidence 468899999999999999999987755 221 122233456788888888655444
No 39
>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=25.39 E-value=56 Score=26.07 Aligned_cols=23 Identities=9% Similarity=0.083 Sum_probs=20.2
Q ss_pred ccchHHHHHHHHhcCCCeeeecC
Q 037752 28 RHNFISHLNAALCRKKIVTFIDD 50 (332)
Q Consensus 28 ~~~f~~~L~~~L~~~gi~~f~d~ 50 (332)
-...+..|+..|...|+.++.|+
T Consensus 42 ~~~~a~~l~~~L~~~gi~v~~D~ 64 (128)
T cd02426 42 LRDLCQGLKNELREAGLSVWPGY 64 (128)
T ss_pred HHHHHHHHHHHHHHcCCEEEecc
Confidence 45588999999999999999987
No 40
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=23.74 E-value=1.1e+02 Score=26.50 Aligned_cols=45 Identities=27% Similarity=0.290 Sum_probs=31.5
Q ss_pred ccccchHHHHHHHHhcCC--CeeeecCCCCCCCCchHHHHHHhhhcceEEEEeecC
Q 037752 26 DVRHNFISHLNAALCRKK--IVTFIDDKLNRGNEISPSLLSAIEGSKISIVIFSKG 79 (332)
Q Consensus 26 D~~~~f~~~L~~~L~~~g--i~~f~d~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~ 79 (332)
|..++|+-.|...|.+.| +.++..++ +... .++..+--.+|+||-
T Consensus 8 DNyDSFtyNLv~yl~~lg~~v~V~rnd~------~~~~---~~~~~~pd~iviSPG 54 (191)
T COG0512 8 DNYDSFTYNLVQYLRELGAEVTVVRNDD------ISLE---LIEALKPDAIVISPG 54 (191)
T ss_pred ECccchHHHHHHHHHHcCCceEEEECCc------cCHH---HHhhcCCCEEEEcCC
Confidence 456789999999999987 66666542 2222 456666677899974
No 41
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=23.70 E-value=3.5e+02 Score=22.10 Aligned_cols=100 Identities=19% Similarity=0.258 Sum_probs=52.6
Q ss_pred cccchH----HHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhhhcceEEEEeecCCcCChhhHHHHHHHHHhhhhcCC
Q 037752 27 VRHNFI----SHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQ 102 (332)
Q Consensus 27 ~~~~f~----~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~~Sr~~i~v~S~~y~~S~wc~~El~~~~~~~~~~~~ 102 (332)
.|..|. ..|...|.+.|+...+- .|+. .+.+.+-+++..+..|++...|.... ...-..+.+.....+.
T Consensus 46 ~r~~Fl~~sL~~L~~~L~~~g~~L~v~----~g~~-~~~l~~l~~~~~~~~V~~~~~~~~~~--~~rd~~v~~~l~~~~i 118 (165)
T PF00875_consen 46 RRRRFLLESLADLQESLRKLGIPLLVL----RGDP-EEVLPELAKEYGATAVYFNEEYTPYE--RRRDERVRKALKKHGI 118 (165)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTS-EEEE----ESSH-HHHHHHHHHHHTESEEEEE---SHHH--HHHHHHHHHHHHHTTS
T ss_pred hHHHHHHHHHHHHHHHHHhcCcceEEE----ecch-HHHHHHHHHhcCcCeeEeccccCHHH--HHHHHHHHHHHHhcce
Confidence 444554 56777888899987653 4442 24555666777788889988887632 2222222232233333
Q ss_pred eeEeeeee--cCCCcccccccchhhhHHHHHHh
Q 037752 103 IVVPVFYL--VDPSDVRNQTGTFGDSFSKLEER 133 (332)
Q Consensus 103 ~vlpVfy~--v~p~dv~~q~g~f~~~f~~~~~~ 133 (332)
.+.-+-.+ +.|.++....|..-+.|....++
T Consensus 119 ~~~~~~~~~L~~~~~i~~~~~~~~~vFtpf~k~ 151 (165)
T PF00875_consen 119 KVHTFDDHTLVPPDDIPKKDGEPYKVFTPFRKK 151 (165)
T ss_dssp EEEEE--SSSS-HHHCHSTTSSSHSSHHHHHHH
T ss_pred EEEEECCcEEEeccccccCCCCCcccHHHHHHH
Confidence 33322222 66777877777666666544433
No 42
>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....
Probab=21.78 E-value=48 Score=25.62 Aligned_cols=65 Identities=18% Similarity=0.281 Sum_probs=37.4
Q ss_pred ccccccCCccccccCCC-CCCcchHHHHHHHHHHhcCCchHHHHhhhhhcC-CC-HHHHHHHHHHHhc
Q 037752 154 LSGFDSHGISRNAFGQN-HPAAGYLELSNIVIKYAKGIPLALKVLGRYLFG-RS-EEEWENAIEKLKR 218 (332)
Q Consensus 154 ~~g~~~~~F~~~AF~~~-~~~~~~~~l~~~iv~~c~GlPLAl~~ig~~L~~-k~-~~~w~~~l~~l~~ 218 (332)
+.||+++.-.++.|+.. .|.|.....+-+.+++..-.|+|++++-+.-.. .+ .+.|..+++.|+.
T Consensus 24 iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lqElkP 91 (108)
T PF02284_consen 24 IDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQELKP 91 (108)
T ss_dssp --HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHHHHhh
Confidence 33444333333344433 566778888888999999999999998775432 12 2367777776543
No 43
>PF15385 SARG: Specifically androgen-regulated gene protein
Probab=21.72 E-value=48 Score=33.01 Aligned_cols=16 Identities=38% Similarity=0.416 Sum_probs=14.7
Q ss_pred hhcCCCHHHHHHHHhh
Q 037752 231 SYDGLDDEEQNIFLDI 246 (332)
Q Consensus 231 Syd~L~~~~k~~fl~~ 246 (332)
||+.|+.++|.|+|++
T Consensus 7 Sl~~LS~EEkecLlFl 22 (497)
T PF15385_consen 7 SLDYLSAEEKECLLFL 22 (497)
T ss_pred cccccchhhHHHHHHH
Confidence 8999999999999874
No 44
>COG0400 Predicted esterase [General function prediction only]
Probab=21.43 E-value=2.9e+02 Score=24.09 Aligned_cols=58 Identities=19% Similarity=0.144 Sum_probs=42.2
Q ss_pred CCCCcceeEEEecccccc--ccchHHHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhhh
Q 037752 10 MNPQIKYDVFLSFRGKDV--RHNFISHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIEG 68 (332)
Q Consensus 10 ~~~~~~ydvFis~~~~D~--~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~~ 68 (332)
.+.....-|||+|-..|. -......|.+.|+..|..+.... ++-|=+|.++-.+++.+
T Consensus 141 ~~~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e~~~~~~~ 200 (207)
T COG0400 141 LPDLAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPEELEAARS 200 (207)
T ss_pred ccccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHHHHHHHHH
Confidence 334566779999987775 35578999999999999987654 33666777666655543
No 45
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=21.38 E-value=3.1e+02 Score=20.69 Aligned_cols=29 Identities=17% Similarity=0.222 Sum_probs=20.9
Q ss_pred EEEeccccccccchHHHHHHHHhcCCCeeee
Q 037752 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFI 48 (332)
Q Consensus 18 vFis~~~~D~~~~f~~~L~~~L~~~gi~~f~ 48 (332)
||+|.+..| +. -...+.+.|.+.|++.|-
T Consensus 3 vl~s~~~~~-k~-~~~~~~~~l~~~G~~l~a 31 (110)
T cd01424 3 VFISVADRD-KP-EAVEIAKRLAELGFKLVA 31 (110)
T ss_pred EEEEEEcCc-Hh-HHHHHHHHHHHCCCEEEE
Confidence 789987776 33 444777788888888865
No 46
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=21.15 E-value=1.5e+02 Score=23.17 Aligned_cols=47 Identities=21% Similarity=0.354 Sum_probs=34.8
Q ss_pred HHHHHhhhcceEEEEeecCCcCChhhHH----HHHHHHHhhhhcCCeeEeeeee
Q 037752 61 SLLSAIEGSKISIVIFSKGYASSRWCLN----ELVKILESKNKYGQIVVPVFYL 110 (332)
Q Consensus 61 ~i~~~i~~Sr~~i~v~S~~y~~S~wc~~----El~~~~~~~~~~~~~vlpVfy~ 110 (332)
++...++.+-..-+++.|||++.. |.+ ||..+.+.+ .--.|+||-|-
T Consensus 55 ~L~~~LCG~~~~~i~IDP~~~~KG-C~~TL~HEL~H~WQ~R--sYG~i~PITY~ 105 (141)
T PHA02456 55 ALPQDLCGQFVGWIEIDPDYANKG-CRDTLAHELNHAWQFR--TYGLVQPITYA 105 (141)
T ss_pred hcCcchhhcceeEEEECCcccccc-hHHHHHHHHHHHHhhh--ccceeeeeehh
Confidence 445667889999999999999975 765 566666655 22478999874
No 47
>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=21.08 E-value=1.4e+02 Score=25.35 Aligned_cols=36 Identities=17% Similarity=0.374 Sum_probs=15.1
Q ss_pred HHHHHHHHhcCCCeeeecCCCCCCCCchHHHHHHhhh
Q 037752 32 ISHLNAALCRKKIVTFIDDKLNRGNEISPSLLSAIEG 68 (332)
Q Consensus 32 ~~~L~~~L~~~gi~~f~d~~~~~g~~i~~~i~~~i~~ 68 (332)
...+..+...+|+.+|.|.|. +|+.|...|.+.+-+
T Consensus 38 i~~i~~~~~~rgVIIfTDpD~-~GekIRk~i~~~vp~ 73 (174)
T TIGR00334 38 INLIKKAQKKQGVIILTDPDF-PGEKIRKKIEQHLPG 73 (174)
T ss_pred HHHHHHHhhcCCEEEEeCCCC-chHHHHHHHHHHCCC
Confidence 334444444444444444332 344444444443333
No 48
>PF09548 Spore_III_AB: Stage III sporulation protein AB (spore_III_AB); InterPro: IPR014198 This entry represents the stage III sporulation protein AB, which is encoded in a spore formation operon: spoIIIAABCDEFGH that is under sigma G regulation []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=21.06 E-value=3.8e+02 Score=22.35 Aligned_cols=15 Identities=27% Similarity=0.536 Sum_probs=8.3
Q ss_pred CCHHHHHHHHhhccc
Q 037752 235 LDDEEQNIFLDIACF 249 (332)
Q Consensus 235 L~~~~k~~fl~~a~f 249 (332)
|..+++..+..++-.
T Consensus 102 L~~~d~e~L~~lg~~ 116 (170)
T PF09548_consen 102 LKKEDKEILLELGKS 116 (170)
T ss_pred CCHHHHHHHHHHHHH
Confidence 555566666555543
Done!