Query 015151
Match_columns 412
No_of_seqs 212 out of 1237
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 03:35:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015151.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015151hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03196 MOC1-like protein; Pr 100.0 6.8E-57 1.5E-61 463.5 22.7 333 65-405 95-470 (487)
2 PF02536 mTERF: mTERF; InterP 100.0 2.1E-47 4.6E-52 380.2 9.3 303 66-373 37-345 (345)
3 PLN03196 MOC1-like protein; Pr 100.0 3.4E-43 7.4E-48 362.0 19.8 299 65-375 66-412 (487)
4 PF02536 mTERF: mTERF; InterP 100.0 3E-38 6.5E-43 314.4 5.3 271 99-374 1-314 (345)
5 KOG1267 Mitochondrial transcri 100.0 3.9E-30 8.4E-35 262.1 16.4 281 58-342 54-368 (413)
6 KOG1267 Mitochondrial transcri 99.7 3.7E-16 8E-21 159.5 12.2 282 61-351 89-411 (413)
7 smart00733 Mterf Mitochondrial 97.1 0.00042 9.2E-09 43.0 2.8 30 289-319 2-31 (31)
8 smart00733 Mterf Mitochondrial 96.9 0.0007 1.5E-08 41.9 2.1 28 115-143 3-30 (31)
9 PF11955 PORR: Plant organelle 91.5 1.2 2.5E-05 44.4 9.4 222 103-329 45-317 (335)
10 cd04790 HTH_Cfa-like_unk Helix 87.0 2.1 4.5E-05 38.4 6.7 47 237-289 119-166 (172)
11 cd04790 HTH_Cfa-like_unk Helix 86.1 2.7 6E-05 37.7 7.0 115 97-221 49-167 (172)
12 PF04695 Pex14_N: Peroxisomal 76.5 3.8 8.3E-05 35.3 4.2 36 118-157 14-49 (136)
13 PF14490 HHH_4: Helix-hairpin- 71.9 14 0.0003 29.5 6.1 33 95-127 8-51 (94)
14 PF04695 Pex14_N: Peroxisomal 71.8 4.9 0.00011 34.6 3.7 30 269-298 22-51 (136)
15 PF00627 UBA: UBA/TS-N domain; 70.1 6.9 0.00015 25.4 3.3 24 271-294 3-26 (37)
16 smart00165 UBA Ubiquitin assoc 68.4 8.2 0.00018 24.8 3.4 23 272-294 3-25 (37)
17 PF11181 YflT: Heat induced st 67.8 14 0.00029 30.1 5.4 80 197-289 8-89 (103)
18 cd00194 UBA Ubiquitin Associat 64.0 11 0.00024 24.3 3.4 23 272-294 3-25 (38)
19 PF11212 DUF2999: Protein of u 55.5 43 0.00093 25.4 5.5 58 95-160 1-61 (82)
20 PF11212 DUF2999: Protein of u 52.2 40 0.00087 25.6 4.9 49 168-222 2-50 (82)
21 PF11955 PORR: Plant organelle 51.8 48 0.001 33.1 7.0 93 210-302 46-152 (335)
22 PF07499 RuvA_C: RuvA, C-termi 50.1 24 0.00051 24.3 3.3 24 96-119 4-27 (47)
23 PF07499 RuvA_C: RuvA, C-termi 49.8 31 0.00066 23.8 3.8 26 270-295 3-28 (47)
24 PF02787 CPSase_L_D3: Carbamoy 49.1 13 0.00028 31.5 2.2 34 90-124 8-41 (123)
25 PRK00116 ruvA Holliday junctio 47.5 25 0.00054 32.1 4.0 20 67-86 73-92 (192)
26 PF02022 Integrase_Zn: Integra 46.1 38 0.00082 22.7 3.6 31 268-298 6-37 (40)
27 COG3620 Predicted transcriptio 45.8 21 0.00044 31.8 2.9 30 221-250 69-98 (187)
28 COG1125 OpuBA ABC-type proline 45.6 40 0.00086 32.6 5.0 65 268-332 71-138 (309)
29 PF00356 LacI: Bacterial regul 45.0 33 0.00071 23.6 3.3 40 209-251 7-46 (46)
30 TIGR01448 recD_rel helicase, p 44.8 3.1E+02 0.0068 30.4 12.7 85 64-154 79-166 (720)
31 PRK00116 ruvA Holliday junctio 44.1 39 0.00084 30.8 4.7 25 95-119 149-173 (192)
32 PF03960 ArsC: ArsC family; I 42.9 46 0.00099 27.1 4.5 21 142-162 70-90 (110)
33 PHA02961 hypothetical protein; 42.7 86 0.0019 33.9 7.4 193 175-395 109-320 (658)
34 smart00354 HTH_LACI helix_turn 42.3 31 0.00068 25.7 3.2 39 210-251 9-47 (70)
35 PTZ00217 flap endonuclease-1; 42.1 3.6E+02 0.0077 27.6 11.7 23 269-291 304-327 (393)
36 TIGR01448 recD_rel helicase, p 41.8 72 0.0016 35.3 7.2 29 92-120 74-105 (720)
37 PF08671 SinI: Anti-repressor 41.1 35 0.00077 21.4 2.7 26 268-293 3-28 (30)
38 PF14490 HHH_4: Helix-hairpin- 38.8 93 0.002 24.7 5.6 34 221-254 39-74 (94)
39 cd08319 Death_RAIDD Death doma 37.8 90 0.0019 24.4 5.2 36 138-177 20-55 (83)
40 PRK08561 rps15p 30S ribosomal 37.4 93 0.002 27.3 5.6 50 304-358 90-139 (151)
41 PRK00117 recX recombination re 34.5 2.3E+02 0.0051 24.4 8.0 89 67-157 33-155 (157)
42 PF02631 RecX: RecX family; I 34.4 1E+02 0.0022 25.5 5.4 51 65-117 14-67 (121)
43 TIGR03060 PS_II_psb29 photosys 33.8 1.2E+02 0.0026 28.3 6.1 50 59-108 69-120 (214)
44 PLN03060 inositol phosphatase- 30.8 65 0.0014 29.8 3.9 56 60-115 68-125 (206)
45 PF13331 DUF4093: Domain of un 29.8 1.8E+02 0.0038 23.0 5.7 22 270-291 65-86 (87)
46 PF09288 UBA_3: Fungal ubiquit 29.4 73 0.0016 23.0 3.1 21 273-293 12-32 (55)
47 PF13331 DUF4093: Domain of un 29.4 1.6E+02 0.0034 23.3 5.4 52 63-116 30-86 (87)
48 PRK11613 folP dihydropteroate 29.3 1.2E+02 0.0025 29.6 5.5 66 304-377 164-229 (282)
49 cd08805 Death_ank1 Death domai 29.2 1.7E+02 0.0037 23.0 5.5 51 100-152 20-83 (84)
50 cd01392 HTH_LacI Helix-turn-he 29.1 69 0.0015 21.8 3.0 39 210-251 6-44 (52)
51 PF13543 KSR1-SAM: SAM like do 28.9 89 0.0019 26.7 4.1 51 67-118 71-124 (129)
52 PF13720 Acetyltransf_11: Udp 28.2 96 0.0021 24.2 3.9 18 102-119 23-40 (83)
53 KOG3120 Predicted haloacid deh 26.8 1.4E+02 0.003 28.1 5.3 45 93-143 57-101 (256)
54 cd08306 Death_FADD Fas-associa 26.7 1.3E+02 0.0029 23.4 4.6 36 137-176 19-54 (86)
55 KOG0400 40S ribosomal protein 26.3 81 0.0018 26.9 3.3 39 117-156 20-58 (151)
56 COG1725 Predicted transcriptio 26.3 82 0.0018 26.7 3.5 61 234-294 50-119 (125)
57 PF10440 WIYLD: Ubiquitin-bind 26.2 1.2E+02 0.0027 22.6 3.9 30 267-296 8-37 (65)
58 KOG2561 Adaptor protein NUB1, 24.5 2.7E+02 0.0058 29.0 7.2 88 95-190 303-398 (568)
59 PRK14605 ruvA Holliday junctio 24.3 2.7E+02 0.006 25.3 6.8 102 73-176 61-193 (194)
60 COG3930 Uncharacterized protei 23.8 1.1E+02 0.0025 30.5 4.3 71 43-117 267-344 (434)
61 KOG2629 Peroxisomal membrane a 23.6 1.3E+02 0.0028 29.2 4.6 26 268-293 20-45 (300)
62 PRK13266 Thf1-like protein; Re 23.3 2.3E+02 0.0051 26.6 6.2 48 59-106 69-118 (225)
63 COG0560 SerB Phosphoserine pho 23.2 1.8E+02 0.0038 26.9 5.4 66 158-225 7-75 (212)
64 PRK10026 arsenate reductase; P 23.1 1.3E+02 0.0028 26.1 4.1 21 281-301 75-95 (141)
65 smart00422 HTH_MERR helix_turn 23.1 2.9E+02 0.0063 19.8 5.7 18 99-116 50-67 (70)
66 PF08069 Ribosomal_S13_N: Ribo 22.0 37 0.00081 24.9 0.5 34 119-153 22-55 (60)
67 TIGR00601 rad23 UV excision re 21.7 1.5E+02 0.0032 30.2 4.9 43 268-319 154-196 (378)
68 PRK14136 recX recombination re 21.5 7.9E+02 0.017 24.3 11.7 106 166-294 195-302 (309)
69 PHA02591 hypothetical protein; 21.4 1.2E+02 0.0026 23.5 3.2 44 73-116 22-69 (83)
70 PF03960 ArsC: ArsC family; I 21.3 1.3E+02 0.0029 24.3 3.8 82 201-301 9-90 (110)
71 PRK07562 ribonucleotide-diphos 21.1 3E+02 0.0066 32.3 7.6 102 96-218 713-819 (1220)
72 cd08306 Death_FADD Fas-associa 20.8 2.3E+02 0.005 22.1 4.9 23 98-120 16-38 (86)
73 cd08315 Death_TRAILR_DR4_DR5 D 20.8 2.1E+02 0.0046 22.9 4.7 24 97-120 21-44 (96)
74 PF08004 DUF1699: Protein of u 20.8 3.1E+02 0.0068 23.3 5.8 82 107-192 28-118 (131)
75 cd08784 Death_DRs Death Domain 20.4 2.1E+02 0.0046 21.9 4.5 22 136-157 16-37 (79)
76 PF08069 Ribosomal_S13_N: Ribo 20.1 61 0.0013 23.8 1.3 40 254-293 17-56 (60)
77 PF09278 MerR-DNA-bind: MerR, 20.0 1E+02 0.0022 22.2 2.5 19 273-291 6-24 (65)
No 1
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=6.8e-57 Score=463.53 Aligned_cols=333 Identities=18% Similarity=0.288 Sum_probs=290.4
Q ss_pred hHHHhHHhcCCCHHHHHhhhcccccCCC-CChhHHHHHHHhCCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhCCC
Q 015151 65 TITYLIKSCGLPPDVAASLSKKVNFETP-EKPDLVLSILREHGFSDKHISKLVKKCPDLLVRRADKTLLPKLEFFASVGI 143 (412)
Q Consensus 65 ~v~yL~~s~Gls~~~a~~~~~~l~l~~~-~~~~~vl~~L~~~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~fL~~lGl 143 (412)
.++|| .++||+.+++.+ .+.+...++ +++.++++||+++|+++++|+++|.++|++|.++++++|.|+++||+++|+
T Consensus 95 ~l~~L-~s~G~~~~~i~~-~P~iL~~~v~~~l~Pvl~fL~~lG~s~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGv 172 (487)
T PLN03196 95 RVEFL-HKLGLTIEDINE-YPLVLGCSVKKNMIPVLDYLEKLGVTRSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDV 172 (487)
T ss_pred HHHHH-HHcCCChHHhcc-CcHHhhcCHhhhhHHHHHHHHHcCCCHHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCC
Confidence 45788 799999999973 455544444 679999999999999999999999999999999999999999999999999
Q ss_pred CchhHHHHhhhCCcccccccccchhhHHHHHHHhcCChHHHHHHHHHcccc--ccccccccchHHHHHHcCCChhhhhhh
Q 015151 144 SGTALADVLSSNPAILGRSLKKQIIPSYKFLKSLLSDDAKIVGALKRAAYL--HDVEKYISPNISALRDIGVTKSCISSL 221 (412)
Q Consensus 144 s~~~I~~il~~~P~lL~~sle~~L~p~v~fL~~lg~s~~~i~~~l~~~P~l--~s~e~~l~~~v~~L~~lGv~~~~i~~l 221 (412)
+.++|++++.++|++|+++++++|.|+++||.++|++.+++.+++.++|++ ++++++++|+++||+++|++.++|.++
T Consensus 173 s~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~~lGvs~~~i~~il~~~P~iL~~sve~~i~P~v~fL~~lGv~~~~I~~i 252 (487)
T PLN03196 173 KRQDIPRVLERYPELLGFKLEGTMSTSVAYLVSIGVAPRDIGPMLTRFPEILGMRVGNNIKPKVDYLESLGLPRLAVARI 252 (487)
T ss_pred CHHHHHHHHHhCchhhcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHhCcHHhhcChhhhHHHHHHHHHHcCCCHHHHHHH
Confidence 999999999999999999999999999999999999999999999999998 889889999999999999999999999
Q ss_pred cccCCcceeeccc-chHHHHHHHHHcCCCCCchhH--------------------------------------HHHHHHH
Q 015151 222 VISNPGVLCETSN-KFDESVKRVIHMGFSPSSGVF--------------------------------------VHALVAV 262 (412)
Q Consensus 222 l~~~P~il~~s~~-~~~~~v~~l~~lG~~~~~~~~--------------------------------------~~a~~~l 262 (412)
+.++|++|+++.+ ++++++++++++|++++...+ +.+.+.+
T Consensus 253 l~~~P~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~P~iL~~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P~i 332 (487)
T PLN03196 253 LEKRPYILGFDLEETVKPNVECLLEFGVRKEALPSVIAQYPDILGLDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLPQI 332 (487)
T ss_pred HHhCCceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcchh
Confidence 9999999999976 789999999999887654221 1122345
Q ss_pred HhCChHHHHHHHHHHHhcCCCHHHHHHHHHhCCcccccCHHHHHHHHHHHHHhhCCChHHHhhcccccccCCCCceehhH
Q 015151 263 STTTDQTWKQKVAVYSSWGWSQNEFWLAFKKYPRCMTLSVENINAKMDFYINQMGWQPSAVARVATVLAYSLKRRIIPRC 342 (412)
Q Consensus 263 ~~~s~~~l~~kv~~l~~lG~s~eev~~~i~~~P~iL~~S~~~L~~k~~fL~~~mg~~~~~I~~~P~lL~~Sle~ri~pR~ 342 (412)
...++++|++|++||+++||+.+||..||+++|++|++|+++|++|++||+++||++.++|+++|++|+||||+||+|||
T Consensus 333 l~lSe~kl~~kvefL~~~Gls~edI~~mv~k~P~lL~~S~~~l~~k~dFlvneMg~~~~~Iv~fP~~LsySLEkRI~PR~ 412 (487)
T PLN03196 333 VSLNRNVALKHVEFLRGRGFSAQDVAKMVVRCPQILALNLEIMKPSLEFFKKEMKRPLKELVEFPAYFTYGLESRIKPRY 412 (487)
T ss_pred hcccHHHHHHHHHHHHHcCCCHHHHHHHHHhCCceeeccHHHHHHHHHHHHHHhCCCHHHHHhChHHhccChhhhhHHHH
Confidence 66788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHcCCccCCcCccchhccchhHHHHHhcccCCC-ChhHHHHHHHhccccccccceecc
Q 015151 343 SVIRVLQLKDLIKENFSLSSVVISSDEYFTDAFVTKYQE-QVPQLLDIFRGKIELSELGIEFEQ 405 (412)
Q Consensus 343 ~~l~~L~~kGl~~~~~~l~~~l~~sd~~F~~~~v~~~~e-~~p~l~~~y~~~~~~~~~~~~~~~ 405 (412)
++ |+++|+ ++++.+++++||++|+++||.+|.| +..+-.-...|+....+-.-++|+
T Consensus 413 ~~---L~~kGl---~~sL~~~L~~sd~~F~~r~v~~y~e~~~~~~~~~~~~~~~~~~~~~~~~~ 470 (487)
T PLN03196 413 ER---VAKKGI---KCSLAWFLNCSDDKFEQRMSGDFIEGEEMEPLFSMGGKLEMPGSESVSDE 470 (487)
T ss_pred HH---HHHcCC---CCCHHHHhccCHHHHHHHHhhhcccccccCCCcccCCcccCCCCccccCc
Confidence 86 569999 7899999999999999999999986 334444456666665554444443
No 2
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=100.00 E-value=2.1e-47 Score=380.18 Aligned_cols=303 Identities=27% Similarity=0.448 Sum_probs=168.3
Q ss_pred HHHhHHhcCCCHHHHHhhh---cccccCC-CCChhHHHHHHHhCCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhC
Q 015151 66 ITYLIKSCGLPPDVAASLS---KKVNFET-PEKPDLVLSILREHGFSDKHISKLVKKCPDLLVRRADKTLLPKLEFFASV 141 (412)
Q Consensus 66 v~yL~~s~Gls~~~a~~~~---~~l~l~~-~~~~~~vl~~L~~~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~fL~~l 141 (412)
+.|| .+.|+|..++.++. +.+...+ .+++.++++||+++|.+++|+.+++.++|++|..+.+.++.|.++||.++
T Consensus 37 ~~fl-~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~~s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~~l 115 (345)
T PF02536_consen 37 LEFL-RSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIGLSDEDIVKVLKRYPRILSFSVEENLSPNVAFLRSL 115 (345)
T ss_dssp HHHH-HHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTSS-HHHHHHHHHH-SHHHHS---HHHHHHHHHHHHT
T ss_pred HHHH-HHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHcCCHHHHHHHHHhcchhhccchHhhhhhhhhHHhhc
Confidence 3444 34455544444431 2222222 23444444555554544444444444455444444443444455555555
Q ss_pred CCCchhHHHHhhhCCcccccccccchhhHHHHHHHhcCChHHHHHHHHHcccc--ccccccccchHHHHHHcCCChhhhh
Q 015151 142 GISGTALADVLSSNPAILGRSLKKQIIPSYKFLKSLLSDDAKIVGALKRAAYL--HDVEKYISPNISALRDIGVTKSCIS 219 (412)
Q Consensus 142 Gls~~~I~~il~~~P~lL~~sle~~L~p~v~fL~~lg~s~~~i~~~l~~~P~l--~s~e~~l~~~v~~L~~lGv~~~~i~ 219 (412)
|++.+.+.+++...|.++... +++.+.++++.++|++++++.+++.++|++ .+.++.++|++++|+++|++.+++.
T Consensus 116 Gv~~~~~~~~l~~~~~~~~~~--~~~~~~v~~l~~lG~~~~~~~~vi~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~ 193 (345)
T PF02536_consen 116 GVPPSQIISLLISRPPLFLSS--EKIKERVEFLKELGFDPEKIGRVIAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIG 193 (345)
T ss_dssp T--HHHHHHHHHH-CHHHHS---HHHHCHHHHHCCCTSSHHHHCCCHHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHH
T ss_pred CCcHHHHHHHHHhcCccccch--hHHHHHHHHHHHhCCCchhhcccccccchhhccccHHHHHHHHHHHHhhcccchhhh
Confidence 554444444444444433332 344455555555555555555555555532 4444445555555555555555555
Q ss_pred hhcccCCcceeecccchHHHHHHHHHcCCCCCchhHHHHHHHHHhCChHHHHHHHHHHHhcCCCHHHHHHHHHhCCcccc
Q 015151 220 SLVISNPGVLCETSNKFDESVKRVIHMGFSPSSGVFVHALVAVSTTTDQTWKQKVAVYSSWGWSQNEFWLAFKKYPRCMT 299 (412)
Q Consensus 220 ~ll~~~P~il~~s~~~~~~~v~~l~~lG~~~~~~~~~~a~~~l~~~s~~~l~~kv~~l~~lG~s~eev~~~i~~~P~iL~ 299 (412)
+++.++|+++..+.+++.+.+.++.+.|...++ .++...+.++..+.+++.+++++|+++|||++||.+|+.++|++|+
T Consensus 194 ~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~-~~i~~~p~il~~~~~~l~~~i~~L~~lG~s~~ei~~mv~~~P~iL~ 272 (345)
T PF02536_consen 194 KLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEE-RVIKKFPQILSLSEEKLKPKIEFLQSLGFSEEEIAKMVRRFPQILS 272 (345)
T ss_dssp HHHHHTTTGGGCGCHC----------------------------THHHHHHHHHHHHHHTTT--HHHHHHHHHHSGGGGG
T ss_pred HHhhcccceeccccccccccccccccccccccc-ccccccccccccchHhHHHHHHHHHHhcCcHHHHHHHHHhCcchhh
Confidence 555555555555554433333333333322222 3333344455566889999999999999999999999999999999
Q ss_pred cCHHHHHHHHHHHHHhhCCChHHHhhcccccccCCCCceehhHHHHHHHHHcCCccCCcCccchhccchhHHHH
Q 015151 300 LSVENINAKMDFYINQMGWQPSAVARVATVLAYSLKRRIIPRCSVIRVLQLKDLIKENFSLSSVVISSDEYFTD 373 (412)
Q Consensus 300 ~S~~~L~~k~~fL~~~mg~~~~~I~~~P~lL~~Sle~ri~pR~~~l~~L~~kGl~~~~~~l~~~l~~sd~~F~~ 373 (412)
+|+++|++|++||.++||++.++|+++|++|+||+|+||+|||+++++|+++|+ +.++++.+++.+||++|++
T Consensus 273 ~s~e~l~~k~~fl~~~m~~~~~~i~~~P~~l~~sLe~ri~PR~~~~~~l~~~g~-~~~~sl~~~l~~s~~~F~~ 345 (345)
T PF02536_consen 273 YSIEKLKPKFEFLVKEMGLPLEEIVEFPQYLSYSLEKRIKPRYEVLKVLKSKGL-IINPSLSSMLSCSDEEFLK 345 (345)
T ss_dssp S-HHHHHHHHHHHHHCCT--HHHHHHSCHHHCS-HHHHHHHHHHHHHTT--TTT-GGGGGS-HHHHHHHHHHT-
T ss_pred cchhhhhHHHHHHHHHhCcCHHHHhhCCceeEechhhhhhhHHHHHHHHHHCcC-CCCCCHHHHhhccHHHhcC
Confidence 999999999999999999999999999999999999999999999999999997 6789999999999999974
No 3
>PLN03196 MOC1-like protein; Provisional
Probab=100.00 E-value=3.4e-43 Score=362.00 Aligned_cols=299 Identities=17% Similarity=0.290 Sum_probs=251.7
Q ss_pred hHHHhHHhcCCCHHHHHhhhcccccCCCCChhHHHHHHHhCCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhCCCC
Q 015151 65 TITYLIKSCGLPPDVAASLSKKVNFETPEKPDLVLSILREHGFSDKHISKLVKKCPDLLVRRADKTLLPKLEFFASVGIS 144 (412)
Q Consensus 65 ~v~yL~~s~Gls~~~a~~~~~~l~l~~~~~~~~vl~~L~~~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~fL~~lGls 144 (412)
.++|| +++|++..++.+... -.+.+.+.++++||+++||+++||. ++|.+|.+++++++.|+++||+++|++
T Consensus 66 ~~~~L-~~lgi~~~~l~~~~~---p~~~~~~~~~l~~L~s~G~~~~~i~----~~P~iL~~~v~~~l~Pvl~fL~~lG~s 137 (487)
T PLN03196 66 VLDFL-RGIGIDPDELDGLEL---PSTVDVMRERVEFLHKLGLTIEDIN----EYPLVLGCSVKKNMIPVLDYLEKLGVT 137 (487)
T ss_pred HHHHH-HHcCCCchhhhccCC---CccHHHHHHHHHHHHHcCCChHHhc----cCcHHhhcCHhhhhHHHHHHHHHcCCC
Confidence 44999 699999999977431 1344678899999999999999987 799999999999999999999999999
Q ss_pred chhHHHHhhhCCcccccccccchhhHHHHHHHhcCChHHHHHHHHHcccc--ccccccccchHHHHHHcCCChhhhhhhc
Q 015151 145 GTALADVLSSNPAILGRSLKKQIIPSYKFLKSLLSDDAKIVGALKRAAYL--HDVEKYISPNISALRDIGVTKSCISSLV 222 (412)
Q Consensus 145 ~~~I~~il~~~P~lL~~sle~~L~p~v~fL~~lg~s~~~i~~~l~~~P~l--~s~e~~l~~~v~~L~~lGv~~~~i~~ll 222 (412)
+++|+++|.++|.+|.++++++|.|+++||+++|++++++.+++.++|++ +++++++.|+++||+++|++.++|.+++
T Consensus 138 ~~~i~~lI~~~P~lL~~sve~~L~P~v~fL~~lGvs~~~i~~~l~r~P~LL~~~~e~~l~p~v~fL~~lGvs~~~i~~il 217 (487)
T PLN03196 138 RSSLPELLRRYPQVLHASVVVDLAPVVKYLQGLDVKRQDIPRVLERYPELLGFKLEGTMSTSVAYLVSIGVAPRDIGPML 217 (487)
T ss_pred HHHHHHHHHhCCceecccHHHHHHHHHHHHHHcCCCHHHHHHHHHhCchhhcCCHHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999998 8999999999999999999999999999
Q ss_pred ccCCcceeeccc-chHHHHHHHHHcCCCCCch--hHHHHHHHHH-----------------------------------h
Q 015151 223 ISNPGVLCETSN-KFDESVKRVIHMGFSPSSG--VFVHALVAVS-----------------------------------T 264 (412)
Q Consensus 223 ~~~P~il~~s~~-~~~~~v~~l~~lG~~~~~~--~~~~a~~~l~-----------------------------------~ 264 (412)
.++|++|+++.+ ++.++++|++++|++.++. .+...+..++ +
T Consensus 218 ~~~P~iL~~sve~~i~P~v~fL~~lGv~~~~I~~il~~~P~iL~~sle~~lkp~v~~L~elGv~~~~i~~lI~~~P~iL~ 297 (487)
T PLN03196 218 TRFPEILGMRVGNNIKPKVDYLESLGLPRLAVARILEKRPYILGFDLEETVKPNVECLLEFGVRKEALPSVIAQYPDILG 297 (487)
T ss_pred HhCcHHhhcChhhhHHHHHHHHHHcCCCHHHHHHHHHhCCceeEcCHHHhHHHHHHHHHHcCCCHHHHHHHHHhCCceeE
Confidence 999999999976 6899999999999987642 1222211111 1
Q ss_pred C-ChHHHHHHHHHHH-hcCCCHHHHHHHHHhCCcccccCHHHHHHHHHHHHHhhCCChHHH----hhcccccccCCCCce
Q 015151 265 T-TDQTWKQKVAVYS-SWGWSQNEFWLAFKKYPRCMTLSVENINAKMDFYINQMGWQPSAV----ARVATVLAYSLKRRI 338 (412)
Q Consensus 265 ~-s~~~l~~kv~~l~-~lG~s~eev~~~i~~~P~iL~~S~~~L~~k~~fL~~~mg~~~~~I----~~~P~lL~~Sle~ri 338 (412)
. .+++++++++|+. ++||+.+++..++.++|+++++|++++++|++||.+ +||+.++| .++|.+|+||.+ .|
T Consensus 298 ~s~e~kl~~~~~fL~~~lG~s~e~i~~~v~k~P~il~lSe~kl~~kvefL~~-~Gls~edI~~mv~k~P~lL~~S~~-~l 375 (487)
T PLN03196 298 LDLKAKLAEQQYWLTSKLKIDPEDFGRVIEKLPQIVSLNRNVALKHVEFLRG-RGFSAQDVAKMVVRCPQILALNLE-IM 375 (487)
T ss_pred ecHHHhhhHHHHHHHHhhCCCHHHHHHHHHhcchhhcccHHHHHHHHHHHHH-cCCCHHHHHHHHHhCCceeeccHH-HH
Confidence 1 1345666777775 788888888888888888888888889999999987 99998887 589999999995 89
Q ss_pred ehhHHHHHHHHHcCCccCC-cCccchhccc-hhHHHHHh
Q 015151 339 IPRCSVIRVLQLKDLIKEN-FSLSSVVISS-DEYFTDAF 375 (412)
Q Consensus 339 ~pR~~~l~~L~~kGl~~~~-~~l~~~l~~s-d~~F~~~~ 375 (412)
+++..++. .++|.-..+ +..+.+|.+| |++-..||
T Consensus 376 ~~k~dFlv--neMg~~~~~Iv~fP~~LsySLEkRI~PR~ 412 (487)
T PLN03196 376 KPSLEFFK--KEMKRPLKELVEFPAYFTYGLESRIKPRY 412 (487)
T ss_pred HHHHHHHH--HHhCCCHHHHHhChHHhccChhhhhHHHH
Confidence 99888643 446663322 3567888888 66777776
No 4
>PF02536 mTERF: mTERF; InterPro: IPR003690 This family currently contains one sequence of known function human mitochondrial transcription termination factor (mTERF), a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions []. The precursors contain a mitochondrial targeting sequence, and the mature mTERF exhibits three leucine zippers, of which one is bipartite, and two widely spaced basic domains. Both basic domains and the three leucine zipper motifs are necessary for DNA binding. The leucine zippers are not implicated in a dimerisation role as in other leucine zippers []. The rest of the family consists of hypothetical proteins none of which have any functional information.; PDB: 3M66_A 3OPG_A 3MVA_O 3MVB_O 3N7Q_A 3N6S_A.
Probab=100.00 E-value=3e-38 Score=314.40 Aligned_cols=271 Identities=35% Similarity=0.583 Sum_probs=217.5
Q ss_pred HHHHHhCCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhCCCCchhHHHHhhhCCcccccccccchhhHHHHHHHhc
Q 015151 99 LSILREHGFSDKHISKLVKKCPDLLVRRADKTLLPKLEFFASVGISGTALADVLSSNPAILGRSLKKQIIPSYKFLKSLL 178 (412)
Q Consensus 99 l~~L~~~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~fL~~lGls~~~I~~il~~~P~lL~~sle~~L~p~v~fL~~lg 178 (412)
.++|+++||+++||.++++++|.+|.+++++++.|+++||.++|++.+||+++++++|.+|..+++++|.|.++||+++|
T Consensus 1 ~~~~~~~gf~~~~i~~~i~~~P~~l~~~~~~~l~pk~~fl~s~G~s~~~i~~il~~~P~il~~s~~~~i~p~~~~L~~~~ 80 (345)
T PF02536_consen 1 EDLLKNHGFSDSQISKLIRRYPRLLLCDPEKTLLPKLEFLRSLGFSSSDIAKILSKNPQILSRSLEKNIIPVFDFLKSIG 80 (345)
T ss_dssp -HHHHHHHHHTS-HHHHHH-H-HHHHT-SS-HHHHHHHHHHHTT--HHHHHHHHHH-GGGGGS--HHHHHHHHHHHTTTS
T ss_pred ChHHHHcCCCHHHHHHHHHhCCceEEecCccchhHHHHHHHHCCCCHHHHHHHHHhChHHHhccchhhHHHHHHHHHHHc
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CChHHHHHHHHHcccc--ccccccccchHHHHHHcCCChhhhhhhcccCCcceeecccchHHHHHHHHHcCCCCCchhH-
Q 015151 179 SDDAKIVGALKRAAYL--HDVEKYISPNISALRDIGVTKSCISSLVISNPGVLCETSNKFDESVKRVIHMGFSPSSGVF- 255 (412)
Q Consensus 179 ~s~~~i~~~l~~~P~l--~s~e~~l~~~v~~L~~lGv~~~~i~~ll~~~P~il~~s~~~~~~~v~~l~~lG~~~~~~~~- 255 (412)
++++++.+++.++|++ .+.+.++.+++.+|+++|++.+.+..++...|..+... +++++.++++.++|+++++..+
T Consensus 81 ~s~~d~~~~l~r~p~~l~~~~~~~l~~~v~~L~~lGv~~~~~~~~l~~~~~~~~~~-~~~~~~v~~l~~lG~~~~~~~~v 159 (345)
T PF02536_consen 81 LSDEDIVKVLKRYPRILSFSVEENLSPNVAFLRSLGVPPSQIISLLISRPPLFLSS-EKIKERVEFLKELGFDPEKIGRV 159 (345)
T ss_dssp S-HHHHHHHHHH-SHHHHS---HHHHHHHHHHHHTT--HHHHHHHHHH-CHHHHS--HHHHCHHHHHCCCTSSHHHHCCC
T ss_pred CCHHHHHHHHHhcchhhccchHhhhhhhhhHHhhcCCcHHHHHHHHHhcCccccch-hHHHHHHHHHHHhCCCchhhccc
Confidence 9999999999999998 66666899999999999999998888888888877766 8999999999999999998654
Q ss_pred -HHHHHHHHhCChHHHHHHHHHHHhcCCCHHHHHHHHHhCCcccccCHH-------------------------------
Q 015151 256 -VHALVAVSTTTDQTWKQKVAVYSSWGWSQNEFWLAFKKYPRCMTLSVE------------------------------- 303 (412)
Q Consensus 256 -~~a~~~l~~~s~~~l~~kv~~l~~lG~s~eev~~~i~~~P~iL~~S~~------------------------------- 303 (412)
...+..+...+++.|+++++||+++||+.+++.+++.++|+++..|.+
T Consensus 160 i~~~P~~l~~~~~~~~~~~v~~L~~~G~~~~~i~~~l~~~P~~l~~s~~~~l~~~~~l~~~~~~~~~~~i~~~p~il~~~ 239 (345)
T PF02536_consen 160 IAKNPRLLLSDSESELKPKVEFLRSLGFSKEDIGKLLRKCPRLLSLSVEKILEPVLYLLSSGGVEEERVIKKFPQILSLS 239 (345)
T ss_dssp HHHHHHHHCGSCCCCCHHHHHHHHHCTT-GHHHHHHHHHTTTGGGCGCHC---------------------------THH
T ss_pred ccccchhhccccHHHHHHHHHHHHhhcccchhhhHHhhcccceecccccccccccccccccccccccccccccccccccc
Confidence 444558888899999999999999999999999999999999998865
Q ss_pred --HHHHHHHHHHHhhCCChHHH----hhcccccccCCCCceehhHHHHHHHHHcCCccCC-cCccchhccc-hhHHHHH
Q 015151 304 --NINAKMDFYINQMGWQPSAV----ARVATVLAYSLKRRIIPRCSVIRVLQLKDLIKEN-FSLSSVVISS-DEYFTDA 374 (412)
Q Consensus 304 --~L~~k~~fL~~~mg~~~~~I----~~~P~lL~~Sle~ri~pR~~~l~~L~~kGl~~~~-~~l~~~l~~s-d~~F~~~ 374 (412)
+++++++||.+ +|++.++| .++|++|++|.|+ ++|+..++. .+.|+...+ +..+.+|.+| |++-..|
T Consensus 240 ~~~l~~~i~~L~~-lG~s~~ei~~mv~~~P~iL~~s~e~-l~~k~~fl~--~~m~~~~~~i~~~P~~l~~sLe~ri~PR 314 (345)
T PF02536_consen 240 EEKLKPKIEFLQS-LGFSEEEIAKMVRRFPQILSYSIEK-LKPKFEFLV--KEMGLPLEEIVEFPQYLSYSLEKRIKPR 314 (345)
T ss_dssp HHHHHHHHHHHHT-TT--HHHHHHHHHHSGGGGGS-HHH-HHHHHHHHH--HCCT--HHHHHHSCHHHCS-HHHHHHHH
T ss_pred hHhHHHHHHHHHH-hcCcHHHHHHHHHhCcchhhcchhh-hhHHHHHHH--HHhCcCHHHHhhCCceeEechhhhhhhH
Confidence 48999999998 99999886 4799999999995 999988643 346664332 3567888888 4566666
No 5
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.97 E-value=3.9e-30 Score=262.06 Aligned_cols=281 Identities=29% Similarity=0.485 Sum_probs=247.9
Q ss_pred ccCCCCchHHHhHHhcCCCHHHHHhhhcccccCCCCChhHHHHHHHhCCCCHHHHHHHHHhCCcccccCccccHHHHHHH
Q 015151 58 QNKEHSFTITYLIKSCGLPPDVAASLSKKVNFETPEKPDLVLSILREHGFSDKHISKLVKKCPDLLVRRADKTLLPKLEF 137 (412)
Q Consensus 58 ~~~~~~~~v~yL~~s~Gls~~~a~~~~~~l~l~~~~~~~~vl~~L~~~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~f 137 (412)
..++.+|++.|+++++|++...|..+++.+......++++++++|+++|+++.++.+++..+|+++..+.++.+.|++.+
T Consensus 54 ~~~~~~f~~s~~~~s~~~~~~~~~~~~~~~~~~~~~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~ 133 (413)
T KOG1267|consen 54 ELKGSNFESSYLVDSLGLSIKLARKLSREVSSEDSVNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRL 133 (413)
T ss_pred cccCCCcceeeeccccccchhhHHHHHHHHHhhhccCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhh
Confidence 44555899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhCCCCchhHHHHhhhCCcccccccccchhhHHHHHHHhc--CChHHHHHHHHHccccccccccccchHHHHHHcCCCh
Q 015151 138 FASVGISGTALADVLSSNPAILGRSLKKQIIPSYKFLKSLL--SDDAKIVGALKRAAYLHDVEKYISPNISALRDIGVTK 215 (412)
Q Consensus 138 L~~lGls~~~I~~il~~~P~lL~~sle~~L~p~v~fL~~lg--~s~~~i~~~l~~~P~l~s~e~~l~~~v~~L~~lGv~~ 215 (412)
|.+.|++.+++++++...|.+|..+.+.++.+.++|+++++ .....+.+.+...|.....+..+. ++++++++|+.+
T Consensus 134 l~~~g~~~s~l~~i~s~~~~il~~~~~~~~~~~~~~l~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~-~~~~~~~lg~~~ 212 (413)
T KOG1267|consen 134 LDSLGLPSSELSSIVSVVPKILLKSKGESLSTFIEFLKSIPPELLSSVVERLLTPVPSFLLNENSVE-RLDIRRELGVKP 212 (413)
T ss_pred hhccCccccccchhhhccHHHHHhhcCCchhhHHHHhhccchhhhhhHHHHhccccccccccccccc-cchhhHHhCCCH
Confidence 99999999999999999999999888889999999999985 666677777777775422222355 999999999999
Q ss_pred hhhhhhcccCCcceeecccchHHHHHHHHHcCCCCCchhHHHHHHHHHhCChHHHHHHHHHHHhcCCCHHHHHHHHHhCC
Q 015151 216 SCISSLVISNPGVLCETSNKFDESVKRVIHMGFSPSSGVFVHALVAVSTTTDQTWKQKVAVYSSWGWSQNEFWLAFKKYP 295 (412)
Q Consensus 216 ~~i~~ll~~~P~il~~s~~~~~~~v~~l~~lG~~~~~~~~~~a~~~l~~~s~~~l~~kv~~l~~lG~s~eev~~~i~~~P 295 (412)
..+..++...|..+.... .+...+.++.++|++|.+.+++.|+..+...+++++++|+++|+++||+.+||..|+.++|
T Consensus 213 ~~L~~~l~~~~~~~~~~~-~l~~~~~~i~~~g~~p~~~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf~~~di~~~~~k~P 291 (413)
T KOG1267|consen 213 RLLKSLLESQPRPVLLYL-KLKARLPFLLTLGFDPKTREFVKAPILLSYSSEKTLEPKVEVLKSLGFSREEIWKMVKKCP 291 (413)
T ss_pred HHHHHHHhcCccceeeeh-hhhhhhhhHHHhccCCchhHHHhhhhhhcccccccHHHHHHHHHHcCCCHHHHHHHHHhCc
Confidence 999999999999998765 7888899999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCHHH----------------------------HHHHHHHHHHhhCCChHHHh----hcccccccCCCCceehhH
Q 015151 296 RCMTLSVEN----------------------------INAKMDFYINQMGWQPSAVA----RVATVLAYSLKRRIIPRC 342 (412)
Q Consensus 296 ~iL~~S~~~----------------------------L~~k~~fL~~~mg~~~~~I~----~~P~lL~~Sle~ri~pR~ 342 (412)
+++++|+++ ++++++|+.. .|++..+++ ++|++++||+++ +.++.
T Consensus 292 ~~l~~s~~~~~~~~~~~~~~~~~~~k~p~~l~~s~~~l~~~ie~l~~-~g~~~~q~~~~~~~~Pq~l~~s~~~-~~~~~ 368 (413)
T KOG1267|consen 292 QILGYSVKKNLKTTEYLLKNPKHILKFPQLLRSSEDKLKPRIEFLLS-LGFSDVQILEMVKRFPQYLSFSLEK-ILKRK 368 (413)
T ss_pred hheEeehhhhhHHHHHHHhcchhhhhhhhhhhccchhhhhhHHHHHH-cCCcHHHHHHHHhhccHHhhhhHHh-hhhhh
Confidence 999999874 7788888887 687766654 468888888886 44444
No 6
>KOG1267 consensus Mitochondrial transcription termination factor, mTERF [Transcription; General function prediction only]
Probab=99.66 E-value=3.7e-16 Score=159.47 Aligned_cols=282 Identities=19% Similarity=0.338 Sum_probs=231.4
Q ss_pred CCCchHHHhHHhcCCCHHHHHhhh---cccccCCC-CChhHHHHHHHhCCCCHHHHHHHHHhCCcccccCccccHHHHHH
Q 015151 61 EHSFTITYLIKSCGLPPDVAASLS---KKVNFETP-EKPDLVLSILREHGFSDKHISKLVKKCPDLLVRRADKTLLPKLE 136 (412)
Q Consensus 61 ~~~~~v~yL~~s~Gls~~~a~~~~---~~l~l~~~-~~~~~vl~~L~~~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~ 136 (412)
..+..+--++++.|++..++.++. +++...++ .-+.+.+.+|+..|++..++.++++..|.+|...-+.++.+.++
T Consensus 89 ~~p~s~~~~l~s~g~~~~~i~s~i~~~p~ll~~~~~~~l~~~~~~l~~~g~~~s~l~~i~s~~~~il~~~~~~~~~~~~~ 168 (413)
T KOG1267|consen 89 VNPSSVLSSLRSLGFTDSQISSIILSSPKLLYLSSENILKPKLRLLDSLGLPSSELSSIVSVVPKILLKSKGESLSTFIE 168 (413)
T ss_pred cCcHHHHHHHHhcCCchhhcccccccCchhhhccchhhhhhhhhhhhccCccccccchhhhccHHHHHhhcCCchhhHHH
Confidence 344566334489999999999974 34433333 44677788999999999999999999999998877789999999
Q ss_pred HHHhCC--CCchhHHHHhhhCCcccccccccchhhHHHHHHHhcCChHHHHHHHHHc-----------------------
Q 015151 137 FFASVG--ISGTALADVLSSNPAILGRSLKKQIIPSYKFLKSLLSDDAKIVGALKRA----------------------- 191 (412)
Q Consensus 137 fL~~lG--ls~~~I~~il~~~P~lL~~sle~~L~p~v~fL~~lg~s~~~i~~~l~~~----------------------- 191 (412)
|+++++ ...+.+.++....|..... ++.+. ++++++++|...+.+...+..+
T Consensus 169 ~l~~~~~~~~~s~~~~~~~~~~~~~~~--~~~v~-~~~~~~~lg~~~~~L~~~l~~~~~~~~~~~~l~~~~~~i~~~g~~ 245 (413)
T KOG1267|consen 169 FLKSIPPELLSSVVERLLTPVPSFLLN--ENSVE-RLDIRRELGVKPRLLKSLLESQPRPVLLYLKLKARLPFLLTLGFD 245 (413)
T ss_pred HhhccchhhhhhHHHHhcccccccccc--ccccc-cchhhHHhCCCHHHHHHHHhcCccceeeehhhhhhhhhHHHhccC
Confidence 999974 7888888877777643322 12233 7777777777776666433333
Q ss_pred ---------ccc--ccccccccchHHHHHHcCCChhhhhhhcccCCcceeecccchHHHHHHHHHcCCCCCchhHHHHHH
Q 015151 192 ---------AYL--HDVEKYISPNISALRDIGVTKSCISSLVISNPGVLCETSNKFDESVKRVIHMGFSPSSGVFVHALV 260 (412)
Q Consensus 192 ---------P~l--~s~e~~l~~~v~~L~~lGv~~~~i~~ll~~~P~il~~s~~~~~~~v~~l~~lG~~~~~~~~~~a~~ 260 (412)
|.+ ++.++++++++++|+++|++.++|..++.++|++++++.+++...++++.+. .++ +...+
T Consensus 246 p~~~~~v~~~~~~~~~~~~~i~~kv~~l~~~Gf~~~di~~~~~k~P~~l~~s~~~~~~~~~~~~~~--~~~----~~k~p 319 (413)
T KOG1267|consen 246 PKTREFVKAPILLSYSSEKTLEPKVEVLKSLGFSREEIWKMVKKCPQILGYSVKKNLKTTEYLLKN--PKH----ILKFP 319 (413)
T ss_pred CchhHHHhhhhhhcccccccHHHHHHHHHHcCCCHHHHHHHHHhCchheEeehhhhhHHHHHHHhc--chh----hhhhh
Confidence 333 3588899999999999999999999999999999999999999999998776 222 44445
Q ss_pred HHHhCChHHHHHHHHHHHhcCCCHHHHHHHHHhCCcccccCHH-HHHHHHHHHHHhhCCChHHHhhcccccccCCCCcee
Q 015151 261 AVSTTTDQTWKQKVAVYSSWGWSQNEFWLAFKKYPRCMTLSVE-NINAKMDFYINQMGWQPSAVARVATVLAYSLKRRII 339 (412)
Q Consensus 261 ~l~~~s~~~l~~kv~~l~~lG~s~eev~~~i~~~P~iL~~S~~-~L~~k~~fL~~~mg~~~~~I~~~P~lL~~Sle~ri~ 339 (412)
.+...++..+.++++++..+|++.+|+..|++++|+++.+|.+ .++.+.+|+.+.|+++.++++.+|.++.|++|+|+.
T Consensus 320 ~~l~~s~~~l~~~ie~l~~~g~~~~q~~~~~~~~Pq~l~~s~~~~~~~~~~~~~~~~~~p~~~~~~~p~~~~y~le~ri~ 399 (413)
T KOG1267|consen 320 QLLRSSEDKLKPRIEFLLSLGFSDVQILEMVKRFPQYLSFSLEKILKRKYEYLLKGLLRPLSALVSFPAFFGYSLEKRIR 399 (413)
T ss_pred hhhhccchhhhhhHHHHHHcCCcHHHHHHHHhhccHHhhhhHHhhhhhhHHHHHHHcCchHHHHhccchhhccchhhcch
Confidence 5568899999999999999999999999999999999999988 899999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHc
Q 015151 340 PRCSVIRVLQLK 351 (412)
Q Consensus 340 pR~~~l~~L~~k 351 (412)
||+.++..+..+
T Consensus 400 pr~~~~~~~~~~ 411 (413)
T KOG1267|consen 400 PRFNVIKKLGVK 411 (413)
T ss_pred hHHHHHHHHhcc
Confidence 999998866543
No 7
>smart00733 Mterf Mitochondrial termination factor repeats. Human mitochondrial termination factor is a DNA-binding protein that acts as a transcription termination factor. Six repeats occur in human mTERF, that also are present in numerous plant proteins.
Probab=97.13 E-value=0.00042 Score=42.99 Aligned_cols=30 Identities=23% Similarity=0.598 Sum_probs=26.7
Q ss_pred HHHHhCCcccccCHHHHHHHHHHHHHhhCCC
Q 015151 289 LAFKKYPRCMTLSVENINAKMDFYINQMGWQ 319 (412)
Q Consensus 289 ~~i~~~P~iL~~S~~~L~~k~~fL~~~mg~~ 319 (412)
.++.++|+++++|+++|+++++||. .+|++
T Consensus 2 ~~~~~~P~il~~~~~~l~~~~~~l~-~~g~~ 31 (31)
T smart00733 2 KILKKFPQILGYSEKKLKPKVEFLK-ELGFS 31 (31)
T ss_pred chhhhCcCcccccHHHhhHHHHHHH-HcCCC
Confidence 4688999999999999999999999 58874
No 8
>smart00733 Mterf Mitochondrial termination factor repeats. Human mitochondrial termination factor is a DNA-binding protein that acts as a transcription termination factor. Six repeats occur in human mTERF, that also are present in numerous plant proteins.
Probab=96.87 E-value=0.0007 Score=41.95 Aligned_cols=28 Identities=39% Similarity=0.744 Sum_probs=17.7
Q ss_pred HHHhCCcccccCccccHHHHHHHHHhCCC
Q 015151 115 LVKKCPDLLVRRADKTLLPKLEFFASVGI 143 (412)
Q Consensus 115 iv~~~P~lL~~~~~~~L~p~l~fL~~lGl 143 (412)
++.++|.+|..+ ++++.|+++||+++|+
T Consensus 3 ~~~~~P~il~~~-~~~l~~~~~~l~~~g~ 30 (31)
T smart00733 3 ILKKFPQILGYS-EKKLKPKVEFLKELGF 30 (31)
T ss_pred hhhhCcCccccc-HHHhhHHHHHHHHcCC
Confidence 456666666666 4456666666666665
No 9
>PF11955 PORR: Plant organelle RNA recognition domain; InterPro: IPR021099 The plant organelle RNA recognition (PORR) domain, previously known as DUF860, is a component of group II intron ribonucleoprotein particles in maize chloroplasts. It is required for the splicing of the introns with which it associates, and promotes splicing in the context of a heterodimer with the RNase III-domain protein RNC1. Proteins containing this domain are predicted to localise to mitochondria or chloroplasts []. It seems likely that most PORR proteins function in organellar RNA metabolism [].
Probab=91.51 E-value=1.2 Score=44.42 Aligned_cols=222 Identities=14% Similarity=0.161 Sum_probs=118.8
Q ss_pred HhCCCCHHHHHHHHHhCCcccccCc-------cccHHHHHHHHHh--CCCCchhHHHHhhhCCcccccccccch-hhHHH
Q 015151 103 REHGFSDKHISKLVKKCPDLLVRRA-------DKTLLPKLEFFAS--VGISGTALADVLSSNPAILGRSLKKQI-IPSYK 172 (412)
Q Consensus 103 ~~~G~s~~~i~~iv~~~P~lL~~~~-------~~~L~p~l~fL~~--lGls~~~I~~il~~~P~lL~~sle~~L-~p~v~ 172 (412)
..+|+..-.+...+.+||.++.... -=.+-|...-|.+ ..+-.+.-..++.+--.+|-.+.++.| ..++.
T Consensus 45 ~~L~l~~~~~~~flrkyP~iF~~~~~~~~~~~~~~LT~~a~~L~~eE~~~~~~~e~~~v~rL~KLLMMS~~~rlpL~ki~ 124 (335)
T PF11955_consen 45 RQLGLKPRKVSRFLRKYPSIFEVFQHPSRSVPWFRLTPEAEDLLREERRVREEMEPDLVERLRKLLMMSKDRRLPLSKIA 124 (335)
T ss_pred HhcCCCcccHHHHHHhCCceEEEeccCCCCCceEEeCHHHHHHHHHHHHHHHhChHHHHHHHHHHhccCCCCcccHHHHH
Confidence 4799977889999999999985432 1123333333321 111111113334444456777766543 23566
Q ss_pred HHH-HhcCChHHHHHHHHHccccccc-c----ccccchHHHHHHcCCChhhhhhhc-------------ccCC----cce
Q 015151 173 FLK-SLLSDDAKIVGALKRAAYLHDV-E----KYISPNISALRDIGVTKSCISSLV-------------ISNP----GVL 229 (412)
Q Consensus 173 fL~-~lg~s~~~i~~~l~~~P~l~s~-e----~~l~~~v~~L~~lGv~~~~i~~ll-------------~~~P----~il 229 (412)
.++ ++|++++-...++.+||..+.+ + ...-.-+.|=.++.++.-+-.... -.+| .-+
T Consensus 125 ~l~~dLGLP~Df~~~lv~~yP~~Frvv~~~~~~~~LeLv~Wd~~LAvs~~E~~~~~~~~~~~~~~~~~~~~Fp~~fp~G~ 204 (335)
T PF11955_consen 125 HLRRDLGLPDDFRDSLVPKYPDYFRVVDLEDGGRYLELVSWDPELAVSALEKRAEKEYREKREDGFDRPLAFPVSFPKGF 204 (335)
T ss_pred HHHHHcCCChhhccchhhhCCCCcEEeecCCCCCEEEEeecCCccCcCccchhhhhccccccccccCCceeeeecCCCCc
Confidence 666 5999999988999999977111 1 111122222112334332222211 0122 211
Q ss_pred eecccchHHHHHHHHHc----------CCCCCchh-HHHH---HHHHHhCChHH--HHHHHHHHH-hcCCCHHHHHHHHH
Q 015151 230 CETSNKFDESVKRVIHM----------GFSPSSGV-FVHA---LVAVSTTTDQT--WKQKVAVYS-SWGWSQNEFWLAFK 292 (412)
Q Consensus 230 ~~s~~~~~~~v~~l~~l----------G~~~~~~~-~~~a---~~~l~~~s~~~--l~~kv~~l~-~lG~s~eev~~~i~ 292 (412)
.. ..+..++++.++++ |+++++.. =.+| ++-++.++.++ ...++..|+ ++|++ ..+..++.
T Consensus 205 ~l-~k~~~~~l~~fQ~lPy~SPYed~~~l~~~s~~~EKRaVaVlHElLSLTveKr~~~~~L~~fr~ef~lp-~k~~~~l~ 282 (335)
T PF11955_consen 205 RL-KKKFREWLEEFQKLPYISPYEDASHLDPGSDEAEKRAVAVLHELLSLTVEKRTEVDHLTHFRKEFGLP-QKFRRLLL 282 (335)
T ss_pred cc-cHHHHHHHHHHhcCCCCCCCCCccCCCCCChHHHhHHHHHHHHHHHhhhhhhccHHHHHHHHHHhCCc-HHHHHHHH
Confidence 11 12566777777766 44555432 2223 34445444333 456777887 79998 46888999
Q ss_pred hCCcccccCHHHHHHHHHHHHHhhCCChHH-Hhhcccc
Q 015151 293 KYPRCMTLSVENINAKMDFYINQMGWQPSA-VARVATV 329 (412)
Q Consensus 293 ~~P~iL~~S~~~L~~k~~fL~~~mg~~~~~-I~~~P~l 329 (412)
++|.|+..|.. -+.-.-||.+ ++...+ |-++|.+
T Consensus 283 rHPgIFYvS~k-g~~~TVfLrE--AY~~~~Liek~Pl~ 317 (335)
T PF11955_consen 283 RHPGIFYVSLK-GKRHTVFLRE--AYDGGELIEKHPLV 317 (335)
T ss_pred hCCCeEEEecc-CCceEEEEee--ccCCCCCCCCCchH
Confidence 99999999865 1222334444 233223 4456655
No 10
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=86.97 E-value=2.1 Score=38.43 Aligned_cols=47 Identities=11% Similarity=0.047 Sum_probs=27.9
Q ss_pred HHHHHHHHHcCCCCCch-hHHHHHHHHHhCChHHHHHHHHHHHhcCCCHHHHHH
Q 015151 237 DESVKRVIHMGFSPSSG-VFVHALVAVSTTTDQTWKQKVAVYSSWGWSQNEFWL 289 (412)
Q Consensus 237 ~~~v~~l~~lG~~~~~~-~~~~a~~~l~~~s~~~l~~kv~~l~~lG~s~eev~~ 289 (412)
...++.++.+|+++++. .....+. . ..=..-.+||.++|++++++..
T Consensus 119 ~~w~~l~~~~g~~~~~m~~wh~~fe---~---~~p~~h~~~l~~~g~~~~~~~~ 166 (172)
T cd04790 119 EKWVAILKAAGMDEADMRRWHIEFE---K---MEPEAHQEFLQSLGIPEDEIER 166 (172)
T ss_pred HHHHHHHHHcCCChHHHHHHHHHHH---H---hCcHHHHHHHHHcCCCHHHHHH
Confidence 45566667777776642 1211111 0 1123456899999999999864
No 11
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=86.13 E-value=2.7 Score=37.67 Aligned_cols=115 Identities=17% Similarity=0.139 Sum_probs=57.6
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHh----CCCCchhHHHHhhhCCcccccccccchhhHHH
Q 015151 97 LVLSILREHGFSDKHISKLVKKCPDLLVRRADKTLLPKLEFFAS----VGISGTALADVLSSNPAILGRSLKKQIIPSYK 172 (412)
Q Consensus 97 ~vl~~L~~~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~fL~~----lGls~~~I~~il~~~P~lL~~sle~~L~p~v~ 172 (412)
..+..|+++||+-++|..++..... +....+..+++.+.. +.-....|..++...+..-....- +...-++
T Consensus 49 ~~I~~lr~~G~sL~eI~~ll~~~~~----~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll~~~~~~~~~~~V-~~~~w~~ 123 (172)
T cd04790 49 EQICAYRSAGVSLEDIRSLLQQPGD----DATDVLRRRLAELNREIQRLRQQQRAIATLLKQPTLLKEQRLV-TKEKWVA 123 (172)
T ss_pred HHHHHHHHcCCCHHHHHHHHhcCCh----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccC-CHHHHHH
Confidence 4467788999999999998875432 111123333332221 111223344444333322111111 1233445
Q ss_pred HHHHhcCChHHHHHHHHHccccccccccccchHHHHHHcCCChhhhhhh
Q 015151 173 FLKSLLSDDAKIVGALKRAAYLHDVEKYISPNISALRDIGVTKSCISSL 221 (412)
Q Consensus 173 fL~~lg~s~~~i~~~l~~~P~l~s~e~~l~~~v~~L~~lGv~~~~i~~l 221 (412)
-++..|+++++..+.=..+-. ..-..-.+||..+|++.++|..+
T Consensus 124 l~~~~g~~~~~m~~wh~~fe~-----~~p~~h~~~l~~~g~~~~~~~~i 167 (172)
T cd04790 124 ILKAAGMDEADMRRWHIEFEK-----MEPEAHQEFLQSLGIPEDEIERI 167 (172)
T ss_pred HHHHcCCChHHHHHHHHHHHH-----hCcHHHHHHHHHcCCCHHHHHHH
Confidence 566677777665332222211 11234557888888888877654
No 12
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=76.52 E-value=3.8 Score=35.28 Aligned_cols=36 Identities=19% Similarity=0.349 Sum_probs=24.0
Q ss_pred hCCcccccCccccHHHHHHHHHhCCCCchhHHHHhhhCCc
Q 015151 118 KCPDLLVRRADKTLLPKLEFFASVGISGTALADVLSSNPA 157 (412)
Q Consensus 118 ~~P~lL~~~~~~~L~p~l~fL~~lGls~~~I~~il~~~P~ 157 (412)
.+|.|-... +..|++||++.|++.+||...+.+.+.
T Consensus 14 ~~p~V~~sp----~~~k~~FL~sKGLt~~EI~~al~~a~~ 49 (136)
T PF04695_consen 14 QDPKVRNSP----LEKKIAFLESKGLTEEEIDEALGRAGS 49 (136)
T ss_dssp CTTTCCCS-----HHHHHHHHHHCT--HHHHHHHHHHHT-
T ss_pred CCcccccCC----HHHHHHHHHcCCCCHHHHHHHHHhcCC
Confidence 466664433 567888888888888888888877654
No 13
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=71.91 E-value=14 Score=29.50 Aligned_cols=33 Identities=27% Similarity=0.373 Sum_probs=14.2
Q ss_pred hhHHHHHHHhCCCCHHHHHH-----------HHHhCCcccccCc
Q 015151 95 PDLVLSILREHGFSDKHISK-----------LVKKCPDLLVRRA 127 (412)
Q Consensus 95 ~~~vl~~L~~~G~s~~~i~~-----------iv~~~P~lL~~~~ 127 (412)
...++.+|..+|++...+.+ +++.+|..|..++
T Consensus 8 ~~~~~~~L~~~gl~~~~a~kl~~~yg~~ai~~l~~nPY~L~~~i 51 (94)
T PF14490_consen 8 LRELMAFLQEYGLSPKLAMKLYKKYGDDAIEILKENPYRLIEDI 51 (94)
T ss_dssp -HHHHHHHHHTT--HHHHHHHHHHH-TTHHHHHHH-STCCCB-S
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHhHHHHHHHHHChHHHHHHc
Confidence 34445555555555544444 4455555555543
No 14
>PF04695 Pex14_N: Peroxisomal membrane anchor protein (Pex14p) conserved region; InterPro: IPR006785 This conserved region defines a group of peroxisomal membrane anchor proteins which bind the PTS1 (peroxisomal targeting signal) receptor and are required for the import of PTS1-containing proteins into peroxisomes. Loss of functional Pex14p results in defects in both the PTS1 and PTS2-dependent import pathways. Deletion analysis of this conserved region implicates it in selective peroxisome degradation. In the majority of members this region is situated at the N terminus of the protein [, ].; GO: 0005777 peroxisome, 0016020 membrane; PDB: 2W85_A 2W84_A 3FF5_B.
Probab=71.80 E-value=4.9 Score=34.62 Aligned_cols=30 Identities=20% Similarity=0.146 Sum_probs=23.1
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHhCCccc
Q 015151 269 TWKQKVAVYSSWGWSQNEFWLAFKKYPRCM 298 (412)
Q Consensus 269 ~l~~kv~~l~~lG~s~eev~~~i~~~P~iL 298 (412)
.+.+|++||++=|++.+||..++.+.+.--
T Consensus 22 p~~~k~~FL~sKGLt~~EI~~al~~a~~~~ 51 (136)
T PF04695_consen 22 PLEKKIAFLESKGLTEEEIDEALGRAGSPP 51 (136)
T ss_dssp -HHHHHHHHHHCT--HHHHHHHHHHHT--S
T ss_pred CHHHHHHHHHcCCCCHHHHHHHHHhcCCcc
Confidence 478999999999999999999999877655
No 15
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=70.07 E-value=6.9 Score=25.41 Aligned_cols=24 Identities=21% Similarity=0.302 Sum_probs=17.2
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhC
Q 015151 271 KQKVAVYSSWGWSQNEFWLAFKKY 294 (412)
Q Consensus 271 ~~kv~~l~~lG~s~eev~~~i~~~ 294 (412)
+.+++-|.++||+.+++..++..+
T Consensus 3 ~~~v~~L~~mGf~~~~~~~AL~~~ 26 (37)
T PF00627_consen 3 EEKVQQLMEMGFSREQAREALRAC 26 (37)
T ss_dssp HHHHHHHHHHTS-HHHHHHHHHHT
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHc
Confidence 356777788888888888777654
No 16
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=68.35 E-value=8.2 Score=24.83 Aligned_cols=23 Identities=22% Similarity=0.307 Sum_probs=17.1
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhC
Q 015151 272 QKVAVYSSWGWSQNEFWLAFKKY 294 (412)
Q Consensus 272 ~kv~~l~~lG~s~eev~~~i~~~ 294 (412)
.+++-+.++||+++++..++.++
T Consensus 3 ~~v~~L~~mGf~~~~a~~aL~~~ 25 (37)
T smart00165 3 EKIDQLLEMGFSREEALKALRAA 25 (37)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 56777778888888887777654
No 17
>PF11181 YflT: Heat induced stress protein YflT
Probab=67.82 E-value=14 Score=30.08 Aligned_cols=80 Identities=19% Similarity=0.209 Sum_probs=44.6
Q ss_pred ccccccchHHHHHHcCCChhhhhhhcccCCcceeecccchHHHHHHH--HHcCCCCCchhHHHHHHHHHhCChHHHHHHH
Q 015151 197 VEKYISPNISALRDIGVTKSCISSLVISNPGVLCETSNKFDESVKRV--IHMGFSPSSGVFVHALVAVSTTTDQTWKQKV 274 (412)
Q Consensus 197 ~e~~l~~~v~~L~~lGv~~~~i~~ll~~~P~il~~s~~~~~~~v~~l--~~lG~~~~~~~~~~a~~~l~~~s~~~l~~kv 274 (412)
-+..+...|+-|+.-|++.++|. +++.+.++....-+.- ...|.. ...|.-.+..+.....+.++.+
T Consensus 8 ~~~E~~~~I~~L~~~Gy~~ddI~--------Vva~d~~~~~~l~~~t~~~~~~~~--~~~~~d~~~~~f~~~~d~~~~~- 76 (103)
T PF11181_consen 8 NEEEALSAIEELKAQGYSEDDIY--------VVAKDKDRTERLADQTDTNTVGAS--EESFWDKIKNFFTSGGDELRSK- 76 (103)
T ss_pred CHHHHHHHHHHHHHcCCCcccEE--------EEEcCchHHHHHHHhcCCceeccc--cccHHHHHHHhccCCcHHHHHH-
Confidence 33457788899999999999983 3443333332222111 011222 2345455554444445555544
Q ss_pred HHHHhcCCCHHHHHH
Q 015151 275 AVYSSWGWSQNEFWL 289 (412)
Q Consensus 275 ~~l~~lG~s~eev~~ 289 (412)
|.++|+++++...
T Consensus 77 --l~~lGl~~~ea~~ 89 (103)
T PF11181_consen 77 --LESLGLSEDEAER 89 (103)
T ss_pred --HHHcCCCHHHHHH
Confidence 4678999888753
No 18
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=64.04 E-value=11 Score=24.33 Aligned_cols=23 Identities=22% Similarity=0.284 Sum_probs=17.1
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhC
Q 015151 272 QKVAVYSSWGWSQNEFWLAFKKY 294 (412)
Q Consensus 272 ~kv~~l~~lG~s~eev~~~i~~~ 294 (412)
.+++-|.++||+++++..++..+
T Consensus 3 ~~v~~L~~mGf~~~~~~~AL~~~ 25 (38)
T cd00194 3 EKLEQLLEMGFSREEARKALRAT 25 (38)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHh
Confidence 46777778888888887777654
No 19
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=55.52 E-value=43 Score=25.43 Aligned_cols=58 Identities=28% Similarity=0.508 Sum_probs=40.5
Q ss_pred hhHHHHHHHhCCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhCCCCchhHHH---HhhhCCcccc
Q 015151 95 PDLVLSILREHGFSDKHISKLVKKCPDLLVRRADKTLLPKLEFFASVGISGTALAD---VLSSNPAILG 160 (412)
Q Consensus 95 ~~~vl~~L~~~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~fL~~lGls~~~I~~---il~~~P~lL~ 160 (412)
+.+.++.|+++.+|+++|..++.. |+.+ -.-.+.....+|++.+.+.. .+-.+|.++.
T Consensus 1 MNPIia~LKehnvsd~qi~elFq~----lT~N----Pl~AMa~i~qLGip~eKLQ~lm~~VMqnP~Lik 61 (82)
T PF11212_consen 1 MNPIIAILKEHNVSDEQINELFQA----LTQN----PLAAMATIQQLGIPQEKLQQLMAQVMQNPALIK 61 (82)
T ss_pred CchHHHHHHHcCCCHHHHHHHHHH----HhhC----HHHHHHHHHHcCCCHHHHHHHHHHHhcChHHHH
Confidence 357889999999999999888753 3333 34456778889998877654 3455665544
No 20
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=52.24 E-value=40 Score=25.57 Aligned_cols=49 Identities=14% Similarity=0.262 Sum_probs=27.3
Q ss_pred hhHHHHHHHhcCChHHHHHHHHHccccccccccccchHHHHHHcCCChhhhhhhc
Q 015151 168 IPSYKFLKSLLSDDAKIVGALKRAAYLHDVEKYISPNISALRDIGVTKSCISSLV 222 (412)
Q Consensus 168 ~p~v~fL~~lg~s~~~i~~~l~~~P~l~s~e~~l~~~v~~L~~lGv~~~~i~~ll 222 (412)
.|.+..|++-.+|++.+..++.... .+--.....+.++|++.+.+..++
T Consensus 2 NPIia~LKehnvsd~qi~elFq~lT------~NPl~AMa~i~qLGip~eKLQ~lm 50 (82)
T PF11212_consen 2 NPIIAILKEHNVSDEQINELFQALT------QNPLAAMATIQQLGIPQEKLQQLM 50 (82)
T ss_pred chHHHHHHHcCCCHHHHHHHHHHHh------hCHHHHHHHHHHcCCCHHHHHHHH
Confidence 3566677777777766655443221 112233455666777777665543
No 21
>PF11955 PORR: Plant organelle RNA recognition domain; InterPro: IPR021099 The plant organelle RNA recognition (PORR) domain, previously known as DUF860, is a component of group II intron ribonucleoprotein particles in maize chloroplasts. It is required for the splicing of the introns with which it associates, and promotes splicing in the context of a heterodimer with the RNase III-domain protein RNC1. Proteins containing this domain are predicted to localise to mitochondria or chloroplasts []. It seems likely that most PORR proteins function in organellar RNA metabolism [].
Probab=51.80 E-value=48 Score=33.10 Aligned_cols=93 Identities=12% Similarity=0.148 Sum_probs=55.7
Q ss_pred HcCCChhhhhhhcccCCcceeeccc--------chHHHHHHHH--HcCC-CCCchhHHHHHHHHHhCChHH--HHHHHHH
Q 015151 210 DIGVTKSCISSLVISNPGVLCETSN--------KFDESVKRVI--HMGF-SPSSGVFVHALVAVSTTTDQT--WKQKVAV 276 (412)
Q Consensus 210 ~lGv~~~~i~~ll~~~P~il~~s~~--------~~~~~v~~l~--~lG~-~~~~~~~~~a~~~l~~~s~~~--l~~kv~~ 276 (412)
.+|++...+..+|.++|.+|..... ++.+....+. |..+ ...+...+..+..++.++.+. --.++..
T Consensus 46 ~L~l~~~~~~~flrkyP~iF~~~~~~~~~~~~~~LT~~a~~L~~eE~~~~~~~e~~~v~rL~KLLMMS~~~rlpL~ki~~ 125 (335)
T PF11955_consen 46 QLGLKPRKVSRFLRKYPSIFEVFQHPSRSVPWFRLTPEAEDLLREERRVREEMEPDLVERLRKLLMMSKDRRLPLSKIAH 125 (335)
T ss_pred hcCCCcccHHHHHHhCCceEEEeccCCCCCceEEeCHHHHHHHHHHHHHHHhChHHHHHHHHHHhccCCCCcccHHHHHH
Confidence 4677656777777777777765320 2222222221 1111 111233444555555555433 3568888
Q ss_pred HH-hcCCCHHHHHHHHHhCCcccccCH
Q 015151 277 YS-SWGWSQNEFWLAFKKYPRCMTLSV 302 (412)
Q Consensus 277 l~-~lG~s~eev~~~i~~~P~iL~~S~ 302 (412)
++ ++|++.+=...++.++|+.+....
T Consensus 126 l~~dLGLP~Df~~~lv~~yP~~Frvv~ 152 (335)
T PF11955_consen 126 LRRDLGLPDDFRDSLVPKYPDYFRVVD 152 (335)
T ss_pred HHHHcCCChhhccchhhhCCCCcEEee
Confidence 88 899999888889999999888744
No 22
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=50.08 E-value=24 Score=24.32 Aligned_cols=24 Identities=29% Similarity=0.322 Sum_probs=18.0
Q ss_pred hHHHHHHHhCCCCHHHHHHHHHhC
Q 015151 96 DLVLSILREHGFSDKHISKLVKKC 119 (412)
Q Consensus 96 ~~vl~~L~~~G~s~~~i~~iv~~~ 119 (412)
+.+++-|.++||++.++.+++.+-
T Consensus 4 ~d~~~AL~~LGy~~~e~~~av~~~ 27 (47)
T PF07499_consen 4 EDALEALISLGYSKAEAQKAVSKL 27 (47)
T ss_dssp HHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHh
Confidence 467778888888888888888764
No 23
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=49.82 E-value=31 Score=23.75 Aligned_cols=26 Identities=23% Similarity=0.216 Sum_probs=19.6
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHhCC
Q 015151 270 WKQKVAVYSSWGWSQNEFWLAFKKYP 295 (412)
Q Consensus 270 l~~kv~~l~~lG~s~eev~~~i~~~P 295 (412)
+.+-++-|..+||++.++.+++.+..
T Consensus 3 ~~d~~~AL~~LGy~~~e~~~av~~~~ 28 (47)
T PF07499_consen 3 LEDALEALISLGYSKAEAQKAVSKLL 28 (47)
T ss_dssp HHHHHHHHHHTTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 45667788899999999988887653
No 24
>PF02787 CPSase_L_D3: Carbamoyl-phosphate synthetase large chain, oligomerisation domain; InterPro: IPR005480 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the oligomerisation domain found in the large subunit of carbamoyl phosphate synthases as well as in certain other carboxy phsophate domain-containing enzymes.; GO: 0006807 nitrogen compound metabolic process; PDB: 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A 1KEE_G 1CE8_A 1JDB_H ....
Probab=49.11 E-value=13 Score=31.48 Aligned_cols=34 Identities=32% Similarity=0.356 Sum_probs=18.9
Q ss_pred CCCCChhHHHHHHHhCCCCHHHHHHHHHhCCcccc
Q 015151 90 ETPEKPDLVLSILREHGFSDKHISKLVKKCPDLLV 124 (412)
Q Consensus 90 ~~~~~~~~vl~~L~~~G~s~~~i~~iv~~~P~lL~ 124 (412)
.+++.+-.+.+.|+ .|++-++|..+-.-+|++|.
T Consensus 8 Ptd~Rlf~i~eAlr-rG~sveeI~e~T~ID~wFL~ 41 (123)
T PF02787_consen 8 PTDERLFAIAEALR-RGYSVEEIHELTKIDPWFLE 41 (123)
T ss_dssp TBTTHHHHHHHHHH-TTB-HHHHHHHH---HHHHH
T ss_pred CCCcHHHHHHHHHH-cCCCHHHHHHHHCccHHHHH
Confidence 34455556666663 37777777777777777663
No 25
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=47.45 E-value=25 Score=32.06 Aligned_cols=20 Identities=25% Similarity=0.429 Sum_probs=11.5
Q ss_pred HHhHHhcCCCHHHHHhhhcc
Q 015151 67 TYLIKSCGLPPDVAASLSKK 86 (412)
Q Consensus 67 ~yL~~s~Gls~~~a~~~~~~ 86 (412)
..|.+=-|+.+..|.++...
T Consensus 73 ~~L~~i~GIGpk~A~~il~~ 92 (192)
T PRK00116 73 RLLISVSGVGPKLALAILSG 92 (192)
T ss_pred HHHhcCCCCCHHHHHHHHHh
Confidence 44444566677766666433
No 26
>PF02022 Integrase_Zn: Integrase Zinc binding domain The structure of the N-terminal zinc binding domain.; InterPro: IPR003308 Retroviral integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains: an N-terminal zinc binding domain, a central catalytic core and a C-terminal DNA-binding domain [, ]. Often found as part of the POL polyprotein.; GO: 0008270 zinc ion binding; PDB: 1E0E_A 3F9K_F 1E27_C 1K6Y_B 1WJD_A 1WJB_A 1WJF_A 1WJE_B 3HPG_B 3HPH_C ....
Probab=46.08 E-value=38 Score=22.71 Aligned_cols=31 Identities=10% Similarity=0.293 Sum_probs=23.5
Q ss_pred HHHHHHHHHHH-hcCCCHHHHHHHHHhCCccc
Q 015151 268 QTWKQKVAVYS-SWGWSQNEFWLAFKKYPRCM 298 (412)
Q Consensus 268 ~~l~~kv~~l~-~lG~s~eev~~~i~~~P~iL 298 (412)
+++-.....|. ++|++..+..+++..||.+-
T Consensus 6 ~k~H~n~~~L~~~f~ip~~vAk~IV~~C~~Cq 37 (40)
T PF02022_consen 6 EKYHSNAKALRHKFGIPRLVAKQIVNQCPKCQ 37 (40)
T ss_dssp HHHHH-HHHHHHHHT--HHHHHHHHHHSCCHH
T ss_pred HHHccCHHHHHHHHccCHHHHHHHHHHCHHHh
Confidence 45666778888 89999999999999999863
No 27
>COG3620 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]
Probab=45.79 E-value=21 Score=31.76 Aligned_cols=30 Identities=17% Similarity=0.298 Sum_probs=17.3
Q ss_pred hcccCCcceeecccchHHHHHHHHHcCCCC
Q 015151 221 LVISNPGVLCETSNKFDESVKRVIHMGFSP 250 (412)
Q Consensus 221 ll~~~P~il~~s~~~~~~~v~~l~~lG~~~ 250 (412)
-+...|-+...+.+.+...++..++-|++.
T Consensus 69 ~iM~spvv~v~pdDsi~~vv~lM~~~g~SQ 98 (187)
T COG3620 69 TIMHSPVVSVSPDDSISDVVNLMRDKGISQ 98 (187)
T ss_pred hhccCCeeEECchhhHHHHHHHHHHcCCcc
Confidence 344555555555556666666666666553
No 28
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=45.58 E-value=40 Score=32.55 Aligned_cols=65 Identities=17% Similarity=0.218 Sum_probs=43.9
Q ss_pred HHHHHHHHHHH-hcCC-CHHHHHHHHHhCCcccccCHHHHHHHHHHHHHhhCCChH-HHhhccccccc
Q 015151 268 QTWKQKVAVYS-SWGW-SQNEFWLAFKKYPRCMTLSVENINAKMDFYINQMGWQPS-AVARVATVLAY 332 (412)
Q Consensus 268 ~~l~~kv~~l~-~lG~-s~eev~~~i~~~P~iL~~S~~~L~~k~~fL~~~mg~~~~-~I~~~P~lL~~ 332 (412)
-++++++.|.- ..|+ +.-.|.+=|.-.|.+++++.++++.+.+=|.+-+|+++. ..-++|.=|+-
T Consensus 71 ~~LRr~IGYviQqigLFPh~Tv~eNIa~VP~L~~w~k~~i~~r~~ELl~lvgL~p~~~~~RyP~eLSG 138 (309)
T COG1125 71 VELRRKIGYVIQQIGLFPHLTVAENIATVPKLLGWDKERIKKRADELLDLVGLDPSEYADRYPHELSG 138 (309)
T ss_pred HHHHHhhhhhhhhcccCCCccHHHHHHhhhhhcCCCHHHHHHHHHHHHHHhCCCHHHHhhcCchhcCc
Confidence 34566666554 4443 223344445578999999999999999999998999875 34466665543
No 29
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=45.01 E-value=33 Score=23.64 Aligned_cols=40 Identities=23% Similarity=0.465 Sum_probs=24.9
Q ss_pred HHcCCChhhhhhhcccCCcceeecccchHHHHHHHHHcCCCCC
Q 015151 209 RDIGVTKSCISSLVISNPGVLCETSNKFDESVKRVIHMGFSPS 251 (412)
Q Consensus 209 ~~lGv~~~~i~~ll~~~P~il~~s~~~~~~~v~~l~~lG~~~~ 251 (412)
+.+|++...+.++|...| ..+++.-+...+..+++|+.|+
T Consensus 7 ~~agvS~~TVSr~ln~~~---~vs~~tr~rI~~~a~~lgY~pN 46 (46)
T PF00356_consen 7 REAGVSKSTVSRVLNGPP---RVSEETRERILEAAEELGYRPN 46 (46)
T ss_dssp HHHTSSHHHHHHHHTTCS---SSTHHHHHHHHHHHHHHTB-SS
T ss_pred HHHCcCHHHHHHHHhCCC---CCCHHHHHHHHHHHHHHCCCCC
Confidence 357888888888876553 2344444555566677777663
No 30
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=44.82 E-value=3.1e+02 Score=30.39 Aligned_cols=85 Identities=18% Similarity=0.129 Sum_probs=49.8
Q ss_pred chHHHhHH--hcCCCHHHHHhhhcccccCCCCChhHHHHHHHh-CCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHh
Q 015151 64 FTITYLIK--SCGLPPDVAASLSKKVNFETPEKPDLVLSILRE-HGFSDKHISKLVKKCPDLLVRRADKTLLPKLEFFAS 140 (412)
Q Consensus 64 ~~v~yL~~--s~Gls~~~a~~~~~~l~l~~~~~~~~vl~~L~~-~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~fL~~ 140 (412)
..+.||-+ =-|+-+..|.++..++.-+..+.++.-.+-|.+ -|+++..+..+...+.. .+.....+.||.+
T Consensus 79 ~i~~yL~s~~~~GIG~~~A~~iv~~fg~~~~~~i~~~~~~L~~v~gi~~~~~~~i~~~~~~------~~~~~~~~~~L~~ 152 (720)
T TIGR01448 79 GIVAYLSSRSIKGVGKKLAQRIVKTFGEAAFDVLDDDPEKLLEVPGISKANLEKFVSQWSQ------QGDERRLLAGLQG 152 (720)
T ss_pred HHHHHHhcCCCCCcCHHHHHHHHHHhCHhHHHHHHhCHHHHhcCCCCCHHHHHHHHHHHHH------hHHHHHHHHHHHH
Confidence 34577742 146777888777766643333333322334444 37777777777766521 1235666778888
Q ss_pred CCCCchhHHHHhhh
Q 015151 141 VGISGTALADVLSS 154 (412)
Q Consensus 141 lGls~~~I~~il~~ 154 (412)
+|++.....++...
T Consensus 153 ~gi~~~~a~ki~~~ 166 (720)
T TIGR01448 153 LGIGIKLAQRIYKF 166 (720)
T ss_pred cCCCHHHHHHHHHH
Confidence 88877666655544
No 31
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=44.12 E-value=39 Score=30.79 Aligned_cols=25 Identities=32% Similarity=0.324 Sum_probs=13.4
Q ss_pred hhHHHHHHHhCCCCHHHHHHHHHhC
Q 015151 95 PDLVLSILREHGFSDKHISKLVKKC 119 (412)
Q Consensus 95 ~~~vl~~L~~~G~s~~~i~~iv~~~ 119 (412)
...++.+|.++|+++.++.+++.++
T Consensus 149 ~~ev~~aL~~LG~~~~~a~~~~~~~ 173 (192)
T PRK00116 149 LEEAVSALVALGYKPKEASKAVAKI 173 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3455555555555555555555543
No 32
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=42.94 E-value=46 Score=27.13 Aligned_cols=21 Identities=29% Similarity=0.564 Sum_probs=11.3
Q ss_pred CCCchhHHHHhhhCCcccccc
Q 015151 142 GISGTALADVLSSNPAILGRS 162 (412)
Q Consensus 142 Gls~~~I~~il~~~P~lL~~s 162 (412)
.++.+++..++..+|.+|.+.
T Consensus 70 ~~s~~e~i~~l~~~p~LikRP 90 (110)
T PF03960_consen 70 DLSDEELIELLLENPKLIKRP 90 (110)
T ss_dssp TSBHHHHHHHHHHSGGGB-SS
T ss_pred hhhhHHHHHHHHhChhheeCC
Confidence 355555556666666555544
No 33
>PHA02961 hypothetical protein; Provisional
Probab=42.65 E-value=86 Score=33.86 Aligned_cols=193 Identities=6% Similarity=0.054 Sum_probs=91.3
Q ss_pred HHhcCChHHHHHHHHHcccc-ccccccccchHHHHHHcCCChhhhhhhcccCCcceeecc---c--chHHHHHHHHHcCC
Q 015151 175 KSLLSDDAKIVGALKRAAYL-HDVEKYISPNISALRDIGVTKSCISSLVISNPGVLCETS---N--KFDESVKRVIHMGF 248 (412)
Q Consensus 175 ~~lg~s~~~i~~~l~~~P~l-~s~e~~l~~~v~~L~~lGv~~~~i~~ll~~~P~il~~s~---~--~~~~~v~~l~~lG~ 248 (412)
....++++++.-++.++--- .++- ++.|..-. ...-++++++..++.+.|.-..-.. . .+.-...-+.+.|+
T Consensus 109 ~~m~ItdDDIR~Iidrfi~~~vdLl-kIN~~si~-~n~~FS~eeie~I~~~~p~~~~~~LY~hq~idl~fLl~M~~k~gI 186 (658)
T PHA02961 109 ESNIINLSDIRNIIDNRIKTPIEIA-LINSDLII-PGTHFSLDDIKTIFDNKGADNTKELYKKIDTPIHNILLMEEKFSI 186 (658)
T ss_pred HhcCccHHHHHHHHHhccCcchhHh-hCCHHHhh-ccccCCHHHHHHHHHcCchhhHHHHHhcCCcCHHHHHHHHHhcCC
Confidence 34556777777666666311 2222 25555544 5567888888888877754332211 1 11222222335688
Q ss_pred CCCchhHHHHHHHHHhCChHHHHHHHHHHHhcCCCHHHHHHHHHhCCcccccCHHHHHHHHHHHHHhhCCC-hHHHhhcc
Q 015151 249 SPSSGVFVHALVAVSTTTDQTWKQKVAVYSSWGWSQNEFWLAFKKYPRCMTLSVENINAKMDFYINQMGWQ-PSAVARVA 327 (412)
Q Consensus 249 ~~~~~~~~~a~~~l~~~s~~~l~~kv~~l~~lG~s~eev~~~i~~~P~iL~~S~~~L~~k~~fL~~~mg~~-~~~I~~~P 327 (412)
.|........ ...+.-++.+++. +.+++ +-.-|.-...+.+-++.-++... .|.| ...-+..+
T Consensus 187 pP~N~GL~~l---------~d~d~aIeLLkky--p~~DV---ID~Ln~~Vk~~~~fk~~Iie~I~--~g~P~I~~~iN~~ 250 (658)
T PHA02961 187 PPIHSSIYQL---------MDIDKAIFLIKKY--PDDDI---IDNINGIVKSHKDFIESIIDIIK--DKLPDILPCINKW 250 (658)
T ss_pred CCCChHHHhc---------CCHHHHHHHHHhC--CcHhH---HHhcCHHhcCcHHHHHHHHHHHH--cCCcchhhhhhhH
Confidence 7765443221 1233446666666 55665 23333333333333333333332 3443 11111111
Q ss_pred cccccCCCCceehhHHHHHHHHHcCCc-----c---C--CcCccch--hccchhHHHHHhcccCCCChhHHHHHHHhccc
Q 015151 328 TVLAYSLKRRIIPRCSVIRVLQLKDLI-----K---E--NFSLSSV--VISSDEYFTDAFVTKYQEQVPQLLDIFRGKIE 395 (412)
Q Consensus 328 ~lL~~Sle~ri~pR~~~l~~L~~kGl~-----~---~--~~~l~~~--l~~sd~~F~~~~v~~~~e~~p~l~~~y~~~~~ 395 (412)
-.-.|.-+ ++ +.+-|+- . . +++-... ++-+|..|..+|...|+..+.+++..++....
T Consensus 251 ya~eyl~D-~l---------i~~~GVy~~ifFd~~d~~~~id~y~~~~LT~~el~fIck~I~~YD~~~~~Fa~~FR~~i~ 320 (658)
T PHA02961 251 IATQLCPD-KL---------LAEFGIYFYALFDWIDIPLYIDKYLFLNITEDETKFICKHIDIYKKKSELFVNAFRWHLY 320 (658)
T ss_pred HHHHccHH-HH---------HHHhCceEEEEecccccccchhhhhhccCCHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 11112211 11 1233431 1 0 1111111 45567799999999998777777766655443
No 34
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=42.26 E-value=31 Score=25.71 Aligned_cols=39 Identities=21% Similarity=0.387 Sum_probs=25.6
Q ss_pred HcCCChhhhhhhcccCCcceeecccchHHHHHHHHHcCCCCC
Q 015151 210 DIGVTKSCISSLVISNPGVLCETSNKFDESVKRVIHMGFSPS 251 (412)
Q Consensus 210 ~lGv~~~~i~~ll~~~P~il~~s~~~~~~~v~~l~~lG~~~~ 251 (412)
.+|++...|.+++...+.+ +++..+...+.++++|+.++
T Consensus 9 ~~gvS~~TVSr~ln~~~~v---~~~t~~~i~~~~~~~gy~~~ 47 (70)
T smart00354 9 LAGVSKATVSRVLNGNGRV---SEETREKVLAAMEELGYIPN 47 (70)
T ss_pred HHCCCHHHHHHHHCCCCCC---CHHHHHHHHHHHHHhCCCCC
Confidence 4788888888777655554 34455555666677777664
No 35
>PTZ00217 flap endonuclease-1; Provisional
Probab=42.08 E-value=3.6e+02 Score=27.56 Aligned_cols=23 Identities=0% Similarity=-0.172 Sum_probs=17.0
Q ss_pred HHHHHHHHHH-hcCCCHHHHHHHH
Q 015151 269 TWKQKVAVYS-SWGWSQNEFWLAF 291 (412)
Q Consensus 269 ~l~~kv~~l~-~lG~s~eev~~~i 291 (412)
.+..-.+||. +.||+++.|...+
T Consensus 304 D~~~l~~fl~~e~~f~~~rv~~~i 327 (393)
T PTZ00217 304 DEEGLKKFLVKEKNFNEERVEKYI 327 (393)
T ss_pred CHHHHHHHHHhccCCCHHHHHHHH
Confidence 3566677886 7999988887654
No 36
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=41.83 E-value=72 Score=35.33 Aligned_cols=29 Identities=21% Similarity=0.384 Sum_probs=14.2
Q ss_pred CCChhHHHHHHHh---CCCCHHHHHHHHHhCC
Q 015151 92 PEKPDLVLSILRE---HGFSDKHISKLVKKCP 120 (412)
Q Consensus 92 ~~~~~~vl~~L~~---~G~s~~~i~~iv~~~P 120 (412)
|...+..+.||.+ .|+-+....+|+.++.
T Consensus 74 p~~~~~i~~yL~s~~~~GIG~~~A~~iv~~fg 105 (720)
T TIGR01448 74 PTSKEGIVAYLSSRSIKGVGKKLAQRIVKTFG 105 (720)
T ss_pred CCCHHHHHHHHhcCCCCCcCHHHHHHHHHHhC
Confidence 3444455555543 3444555555555444
No 37
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=41.05 E-value=35 Score=21.37 Aligned_cols=26 Identities=15% Similarity=0.228 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHh
Q 015151 268 QTWKQKVAVYSSWGWSQNEFWLAFKK 293 (412)
Q Consensus 268 ~~l~~kv~~l~~lG~s~eev~~~i~~ 293 (412)
..|..-+.--++.|+|.+||+..+..
T Consensus 3 ~EW~~Li~eA~~~Gls~eeir~FL~~ 28 (30)
T PF08671_consen 3 EEWVELIKEAKESGLSKEEIREFLEF 28 (30)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 34666666677899999999876653
No 38
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=38.79 E-value=93 Score=24.65 Aligned_cols=34 Identities=24% Similarity=0.388 Sum_probs=13.3
Q ss_pred hcccCCcceeeccc--chHHHHHHHHHcCCCCCchh
Q 015151 221 LVISNPGVLCETSN--KFDESVKRVIHMGFSPSSGV 254 (412)
Q Consensus 221 ll~~~P~il~~s~~--~~~~~v~~l~~lG~~~~~~~ 254 (412)
.|..+|..|..... .++..=+..+++|+++++..
T Consensus 39 ~l~~nPY~L~~~i~gi~F~~aD~iA~~~g~~~~d~~ 74 (94)
T PF14490_consen 39 ILKENPYRLIEDIDGIGFKTADKIALKLGIEPDDPR 74 (94)
T ss_dssp HHHH-STCCCB-SSSSBHHHHHHHHHTTT--TT-HH
T ss_pred HHHHChHHHHHHccCCCHHHHHHHHHHcCCCCCCHH
Confidence 34455555555332 22332233456777776643
No 39
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=37.79 E-value=90 Score=24.44 Aligned_cols=36 Identities=17% Similarity=0.306 Sum_probs=22.4
Q ss_pred HHhCCCCchhHHHHhhhCCcccccccccchhhHHHHHHHh
Q 015151 138 FASVGISGTALADVLSSNPAILGRSLKKQIIPSYKFLKSL 177 (412)
Q Consensus 138 L~~lGls~~~I~~il~~~P~lL~~sle~~L~p~v~fL~~l 177 (412)
...+|++..+|.++-..+|. ++..++...+.-|++-
T Consensus 20 ar~Lgls~~~I~~i~~~~p~----~l~eQv~~mL~~W~~r 55 (83)
T cd08319 20 LLDLGLSQTDIYRCKENHPH----NVQSQIVEALVKWRQR 55 (83)
T ss_pred HHHcCCCHHHHHHHHHhCCC----CHHHHHHHHHHHHHHh
Confidence 34677777777777777774 2333555555555553
No 40
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=37.36 E-value=93 Score=27.29 Aligned_cols=50 Identities=6% Similarity=0.054 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhhCCChHHHhhcccccccCCCCceehhHHHHHHHHHcCCccCCc
Q 015151 304 NINAKMDFYINQMGWQPSAVARVATVLAYSLKRRIIPRCSVIRVLQLKDLIKENF 358 (412)
Q Consensus 304 ~L~~k~~fL~~~mg~~~~~I~~~P~lL~~Sle~ri~pR~~~l~~L~~kGl~~~~~ 358 (412)
.|..++.-|.+++.....|....=.+ -..+--|.+.+++++.++.+.++-
T Consensus 90 ~L~~ri~~L~~HL~~nkKD~~skRgL-----~~~~skrrRLl~Yyk~~~~LP~~W 139 (151)
T PRK08561 90 NLIKKAVNLRKHLEENPKDLHNKRGL-----QLIESKIRRLVKYYKRTGVLPADW 139 (151)
T ss_pred HHHHHHHHHHHHHHhCCCcchhHHHH-----HHHHHHHHHHHHHHHhcCCCCCCC
Confidence 46677777777777666665322111 111223566778888877765543
No 41
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=34.50 E-value=2.3e+02 Score=24.42 Aligned_cols=89 Identities=20% Similarity=0.234 Sum_probs=0.0
Q ss_pred HHhHHhcCCCHHHHHhhhcccccCC------------------CCChhHHHHHHHhCCCCHHHHHHHHHhCC--------
Q 015151 67 TYLIKSCGLPPDVAASLSKKVNFET------------------PEKPDLVLSILREHGFSDKHISKLVKKCP-------- 120 (412)
Q Consensus 67 ~yL~~s~Gls~~~a~~~~~~l~l~~------------------~~~~~~vl~~L~~~G~s~~~i~~iv~~~P-------- 120 (412)
.+| ..-|++++.+..+..++.-.. ......+.+-|...|++.+.|..++...+
T Consensus 33 ~kL-~~kg~~~~~i~~vl~~l~~~~~ldD~~~a~~~~~~~~~~~~g~~~I~~~L~~kGi~~~~I~~~l~~~~~d~~e~a~ 111 (157)
T PRK00117 33 RKL-AAKGFSEEVIEAVLDRLKEEGLLDDERFAESFVRSRARKGYGPRRIRQELRQKGVDREIIEEALAELDIDWEELAR 111 (157)
T ss_pred HHH-HhcCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCCchHHHHHHHHHHcCCCHHHHHHHHHHcCccHHHHHH
Q ss_pred --------cccccCccccHHHHHHHHHhCCCCchhHHHHhhhCCc
Q 015151 121 --------DLLVRRADKTLLPKLEFFASVGISGTALADVLSSNPA 157 (412)
Q Consensus 121 --------~lL~~~~~~~L~p~l~fL~~lGls~~~I~~il~~~P~ 157 (412)
..-..+. +.-...+++|...|++.+.|.+++.....
T Consensus 112 ~~~~k~~~~~~~~~~-~~k~Ki~~~L~rkGF~~~~I~~~l~~~~~ 155 (157)
T PRK00117 112 ELARKKFRRPLPDDA-KEKAKLVRFLARRGFSMDVIQRVLRNALD 155 (157)
T ss_pred HHHHHHcCCCCCCCH-HHHHHHHHHHHHCCCCHHHHHHHHHhhhc
No 42
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=34.42 E-value=1e+02 Score=25.51 Aligned_cols=51 Identities=18% Similarity=0.225 Sum_probs=27.8
Q ss_pred hHHHhHHhcCCCHHHHHhhhccc--ccC-CCCChhHHHHHHHhCCCCHHHHHHHHH
Q 015151 65 TITYLIKSCGLPPDVAASLSKKV--NFE-TPEKPDLVLSILREHGFSDKHISKLVK 117 (412)
Q Consensus 65 ~v~yL~~s~Gls~~~a~~~~~~l--~l~-~~~~~~~vl~~L~~~G~s~~~i~~iv~ 117 (412)
++++|. .+|+=.+..-.- ..+ .+. ....+..+.+-|+..|++.+.|...+.
T Consensus 14 vi~~l~-~~gyidD~~ya~-~~v~~~~~~~~~G~~~I~~~L~~kGi~~~~i~~~l~ 67 (121)
T PF02631_consen 14 VIDRLK-ELGYIDDERYAE-SYVRSRLRRKGKGPRRIRQKLKQKGIDREIIEEALE 67 (121)
T ss_dssp HHHHHH-HTTSS-HHHHHH-HHHHHHHHHTT--HHHHHHHHHHTT--HHHHHHHHT
T ss_pred HHHHHH-HcCCCCHHHHHH-HHHHHhcccccccHHHHHHHHHHHCCChHHHHHHHH
Confidence 447773 566653333211 111 122 445677788888999999888888776
No 43
>TIGR03060 PS_II_psb29 photosystem II biogenesis protein Psp29. Psp29, originally designated sll1414 in Synechocystis 6803, is found universally in Cyanobacteria and in Arabidopsis. It was isolated and partially sequenced from purified photosystem II (PS II) in Synechocystis. While its function is unknown, mutant studies show an impairment in photosystem II biogenesis and/or stability, rather than in PS II core function.
Probab=33.75 E-value=1.2e+02 Score=28.25 Aligned_cols=50 Identities=24% Similarity=0.272 Sum_probs=37.8
Q ss_pred cCCCCchH-HHhHHhcCCCHHHHHhhhccc-ccCCCCChhHHHHHHHhCCCC
Q 015151 59 NKEHSFTI-TYLIKSCGLPPDVAASLSKKV-NFETPEKPDLVLSILREHGFS 108 (412)
Q Consensus 59 ~~~~~~~v-~yL~~s~Gls~~~a~~~~~~l-~l~~~~~~~~vl~~L~~~G~s 108 (412)
|..+..++ +.|++++|+++++....++.+ .......++.++.+|..-|-.
T Consensus 69 Pee~~~~IF~Alc~a~~~dp~~~r~dA~~l~~~a~~~s~~~i~~~l~~~~~~ 120 (214)
T TIGR03060 69 PEEHLDALFDALCNSNGFDPEQLREDAKQLLEQAKGKGLDEILSWLTQANLS 120 (214)
T ss_pred ChHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCHHHHHHHHhccccC
Confidence 34445555 899999999999999988775 445556788889999866644
No 44
>PLN03060 inositol phosphatase-like protein; Provisional
Probab=30.83 E-value=65 Score=29.80 Aligned_cols=56 Identities=14% Similarity=0.190 Sum_probs=33.6
Q ss_pred CCCCchH-HHhHHhcCCCHHHHHhhhccc-ccCCCCChhHHHHHHHhCCCCHHHHHHH
Q 015151 60 KEHSFTI-TYLIKSCGLPPDVAASLSKKV-NFETPEKPDLVLSILREHGFSDKHISKL 115 (412)
Q Consensus 60 ~~~~~~v-~yL~~s~Gls~~~a~~~~~~l-~l~~~~~~~~vl~~L~~~G~s~~~i~~i 115 (412)
..+..++ +.|++++|+++++....++.+ ......+...+.++|..-|-.+..+..+
T Consensus 68 ee~~~~IF~Alc~a~~~dp~~~r~dA~~l~~~a~~~s~~~l~~~l~~~~~~~~~l~~~ 125 (206)
T PLN03060 68 ATDRDAIFKAYIEALGEDPDQYRKDAKKLEEWASSQSASGIADFNSGDGEVEAVLKDI 125 (206)
T ss_pred hHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCHHHHHHHHhcccccchHHHHH
Confidence 3334444 777778888888777776654 3344456666677776666333444444
No 45
>PF13331 DUF4093: Domain of unknown function (DUF4093)
Probab=29.76 E-value=1.8e+02 Score=23.00 Aligned_cols=22 Identities=27% Similarity=0.294 Sum_probs=15.2
Q ss_pred HHHHHHHHHhcCCCHHHHHHHH
Q 015151 270 WKQKVAVYSSWGWSQNEFWLAF 291 (412)
Q Consensus 270 l~~kv~~l~~lG~s~eev~~~i 291 (412)
=+.-++.|-.+|+|.+|+.+++
T Consensus 65 ~KqllkrLN~f~it~~e~~~al 86 (87)
T PF13331_consen 65 AKQLLKRLNMFGITREEFEEAL 86 (87)
T ss_pred HHHHHHHHHHcCCCHHHHHHHh
Confidence 3444455567899999988765
No 46
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=29.38 E-value=73 Score=22.98 Aligned_cols=21 Identities=10% Similarity=0.354 Sum_probs=10.9
Q ss_pred HHHHHHhcCCCHHHHHHHHHh
Q 015151 273 KVAVYSSWGWSQNEFWLAFKK 293 (412)
Q Consensus 273 kv~~l~~lG~s~eev~~~i~~ 293 (412)
-|+-|..+||+.+.|..++++
T Consensus 12 lVd~F~~mGF~~dkVvevlrr 32 (55)
T PF09288_consen 12 LVDQFENMGFERDKVVEVLRR 32 (55)
T ss_dssp HHHHHHHHT--HHHHHHHHHH
T ss_pred HHHHHHHcCCcHHHHHHHHHH
Confidence 345555666666666665553
No 47
>PF13331 DUF4093: Domain of unknown function (DUF4093)
Probab=29.35 E-value=1.6e+02 Score=23.29 Aligned_cols=52 Identities=17% Similarity=0.197 Sum_probs=37.3
Q ss_pred CchHHHhHHhcCCCHH-HH--Hh--hhcccccCCCCChhHHHHHHHhCCCCHHHHHHHH
Q 015151 63 SFTITYLIKSCGLPPD-VA--AS--LSKKVNFETPEKPDLVLSILREHGFSDKHISKLV 116 (412)
Q Consensus 63 ~~~v~yL~~s~Gls~~-~a--~~--~~~~l~l~~~~~~~~vl~~L~~~G~s~~~i~~iv 116 (412)
.+|.+-|+ .+||+-. ++ .+ +...+.+ .-.|-.+.+.-|..+|+|.+++..++
T Consensus 30 ~it~~dL~-~~GL~g~~~s~~rR~~l~~~L~i-Gy~N~KqllkrLN~f~it~~e~~~al 86 (87)
T PF13331_consen 30 EITWEDLI-ELGLIGGPDSKERREKLGEYLGI-GYGNAKQLLKRLNMFGITREEFEEAL 86 (87)
T ss_pred cCCHHHHH-HCCCCCCccHHHHHHHHHHHHCC-CCCCHHHHHHHHHHcCCCHHHHHHHh
Confidence 58888886 7999633 11 11 2445665 44688888999999999999988776
No 48
>PRK11613 folP dihydropteroate synthase; Provisional
Probab=29.32 E-value=1.2e+02 Score=29.63 Aligned_cols=66 Identities=9% Similarity=0.117 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHhhCCChHHHhhcccccccCCCCceehhHHHHHHHHHcCCccCCcCccchhccchhHHHHHhcc
Q 015151 304 NINAKMDFYINQMGWQPSAVARVATVLAYSLKRRIIPRCSVIRVLQLKDLIKENFSLSSVVISSDEYFTDAFVT 377 (412)
Q Consensus 304 ~L~~k~~fL~~~mg~~~~~I~~~P~lL~~Sle~ri~pR~~~l~~L~~kGl~~~~~~l~~~l~~sd~~F~~~~v~ 377 (412)
-++.+++.+.+ .|++.+.|+=-|- +++ .|....-+.+++.|.. ++ ...++.++..|.|.|...+..
T Consensus 164 ~l~~~i~~a~~-~GI~~~~IilDPG-iGF--~k~~~~n~~ll~~l~~---l~-~lg~Pilvg~SRKsfig~~~~ 229 (282)
T PRK11613 164 YFIEQIARCEA-AGIAKEKLLLDPG-FGF--GKNLSHNYQLLARLAE---FH-HFNLPLLVGMSRKSMIGQLLN 229 (282)
T ss_pred HHHHHHHHHHH-cCCChhhEEEeCC-CCc--CCCHHHHHHHHHHHHH---HH-hCCCCEEEEecccHHHHhhcC
Confidence 45666777766 7999888887785 454 3445455555544432 11 345677889999999987764
No 49
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=29.17 E-value=1.7e+02 Score=22.95 Aligned_cols=51 Identities=18% Similarity=0.300 Sum_probs=0.0
Q ss_pred HHHHhCCCCHHHHHHHHHhCCc-------------ccccCccccHHHHHHHHHhCCCCchhHHHHh
Q 015151 100 SILREHGFSDKHISKLVKKCPD-------------LLVRRADKTLLPKLEFFASVGISGTALADVL 152 (412)
Q Consensus 100 ~~L~~~G~s~~~i~~iv~~~P~-------------lL~~~~~~~L~p~l~fL~~lGls~~~I~~il 152 (412)
.+-+.+||+.++|..|-..+|. .-....+.+....++-|.+.| +.||..++
T Consensus 20 ~Lar~L~vs~~dI~~I~~e~p~~l~~Q~~~~L~~W~~r~g~~At~~~L~~AL~~i~--R~div~~~ 83 (84)
T cd08805 20 ELARELQFSVEDINRIRVENPNSLLEQSTALLNLWVDREGENAKMSPLYPALYSID--RLTIVNML 83 (84)
T ss_pred HHHHHcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcCccchHHHHHHHHHHCC--hHHHHHhh
No 50
>cd01392 HTH_LacI Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators. HTH-DNA binding domain of the LacI (lactose operon repressor) family of bacterial transcriptional regulators and their putative homologs found in plants. The LacI family has more than 500 members distributed among almost all bacterial species. The monomeric proteins of the LacI family contain common structural features that include a small DNA-binding domain with a helix-turn-helix motif in the N-terminus, a regulatory ligand-binding domain which exhibits the type I periplasmic binding protein fold in the C-terminus for oligomerization and for effector binding, and an approximately 18-amino acid linker connecting these two functional domains. In LacI-like transcriptional regulators, the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. When the C-terminal domain of the LacI family repre
Probab=29.15 E-value=69 Score=21.80 Aligned_cols=39 Identities=15% Similarity=0.368 Sum_probs=22.4
Q ss_pred HcCCChhhhhhhcccCCcceeecccchHHHHHHHHHcCCCCC
Q 015151 210 DIGVTKSCISSLVISNPGVLCETSNKFDESVKRVIHMGFSPS 251 (412)
Q Consensus 210 ~lGv~~~~i~~ll~~~P~il~~s~~~~~~~v~~l~~lG~~~~ 251 (412)
.+|++...|.+++...+ ..+.+......+.+.++|+.++
T Consensus 6 ~~gvs~~tvs~~l~g~~---~vs~~~~~~i~~~~~~l~~~~~ 44 (52)
T cd01392 6 AAGVSVATVSRVLNGKP---RVSEETRERVLAAAEELGYRPN 44 (52)
T ss_pred HHCcCHHHHHHHHcCCC---CCCHHHHHHHHHHHHHhCCCCC
Confidence 46777777777765544 2233344444555566666554
No 51
>PF13543 KSR1-SAM: SAM like domain present in kinase suppressor RAS 1
Probab=28.87 E-value=89 Score=26.70 Aligned_cols=51 Identities=22% Similarity=0.403 Sum_probs=34.6
Q ss_pred HHhHHhcCCCHHHHHhhhccc-ccCCC--CChhHHHHHHHhCCCCHHHHHHHHHh
Q 015151 67 TYLIKSCGLPPDVAASLSKKV-NFETP--EKPDLVLSILREHGFSDKHISKLVKK 118 (412)
Q Consensus 67 ~yL~~s~Gls~~~a~~~~~~l-~l~~~--~~~~~vl~~L~~~G~s~~~i~~iv~~ 118 (412)
+|| +-.|++++.+..+.+++ .++.- -+-..+-+.|.++|.+.++..++.++
T Consensus 71 ~WL-~vVgl~~~~i~~i~~~~~tLe~Llemsd~el~~~l~~~g~~~EE~rRL~~A 124 (129)
T PF13543_consen 71 QWL-RVVGLRPESIQAILSKVLTLEALLEMSDEELKEILNRCGAREEECRRLCRA 124 (129)
T ss_pred HHh-hhcCCCHHHHHHHHHhhcCHHHHHhCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 788 68888888888885543 33222 23346667777888888888777654
No 52
>PF13720 Acetyltransf_11: Udp N-acetylglucosamine O-acyltransferase; Domain 2; PDB: 3I3A_A 3I3X_A 3HSQ_B 2JF2_A 1LXA_A 2AQ9_A 2QIV_X 2QIA_A 2JF3_A 4EQY_F ....
Probab=28.25 E-value=96 Score=24.17 Aligned_cols=18 Identities=44% Similarity=0.689 Sum_probs=7.9
Q ss_pred HHhCCCCHHHHHHHHHhC
Q 015151 102 LREHGFSDKHISKLVKKC 119 (412)
Q Consensus 102 L~~~G~s~~~i~~iv~~~ 119 (412)
|+..||++++|..+=..|
T Consensus 23 LrR~Gfs~~~i~~l~~ay 40 (83)
T PF13720_consen 23 LRRRGFSKEEISALRRAY 40 (83)
T ss_dssp HHHTTS-HHHHHHHHHHH
T ss_pred HHHcCCCHHHHHHHHHHH
Confidence 445555555544444333
No 53
>KOG3120 consensus Predicted haloacid dehalogenase-like hydrolase [General function prediction only]
Probab=26.85 E-value=1.4e+02 Score=28.13 Aligned_cols=45 Identities=22% Similarity=0.316 Sum_probs=38.1
Q ss_pred CChhHHHHHHHhCCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhCCC
Q 015151 93 EKPDLVLSILREHGFSDKHISKLVKKCPDLLVRRADKTLLPKLEFFASVGI 143 (412)
Q Consensus 93 ~~~~~vl~~L~~~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~fL~~lGl 143 (412)
+-++.|...|.+.|.+.++|.+++++-|.. | .+.+.++++.+.|-
T Consensus 57 e~M~rv~k~Lheqgv~~~~ik~~~r~iP~~----P--gmv~lik~~ak~g~ 101 (256)
T KOG3120|consen 57 ELMDRVFKELHEQGVRIAEIKQVLRSIPIV----P--GMVRLIKSAAKLGC 101 (256)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHhcCCCC----c--cHHHHHHHHHhCCC
Confidence 348899999999999999999999988764 4 37888999988873
No 54
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=26.68 E-value=1.3e+02 Score=23.45 Aligned_cols=36 Identities=22% Similarity=0.396 Sum_probs=18.7
Q ss_pred HHHhCCCCchhHHHHhhhCCcccccccccchhhHHHHHHH
Q 015151 137 FFASVGISGTALADVLSSNPAILGRSLKKQIIPSYKFLKS 176 (412)
Q Consensus 137 fL~~lGls~~~I~~il~~~P~lL~~sle~~L~p~v~fL~~ 176 (412)
+-+.+|++..+|..+-..+|. ++.++....+..|+.
T Consensus 19 laR~LGlse~~Id~i~~~~~~----~~~eq~~~mL~~W~~ 54 (86)
T cd08306 19 LARKLGLSETKIESIEEAHPR----NLREQVRQSLREWKK 54 (86)
T ss_pred HHHHcCCCHHHHHHHHHHCCC----CHHHHHHHHHHHHHH
Confidence 334566666666666666662 222344444444444
No 55
>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=26.33 E-value=81 Score=26.91 Aligned_cols=39 Identities=18% Similarity=0.302 Sum_probs=26.4
Q ss_pred HhCCcccccCccccHHHHHHHHHhCCCCchhHHHHhhhCC
Q 015151 117 KKCPDLLVRRADKTLLPKLEFFASVGISGTALADVLSSNP 156 (412)
Q Consensus 117 ~~~P~lL~~~~~~~L~p~l~fL~~lGls~~~I~~il~~~P 156 (412)
+..|.-|..++| ++..-|--|...|+++++|+-++...-
T Consensus 20 r~~PtWlK~~~d-dvkeqI~K~akKGltpsqIGviLRDsh 58 (151)
T KOG0400|consen 20 RSVPTWLKLTAD-DVKEQIYKLAKKGLTPSQIGVILRDSH 58 (151)
T ss_pred cCCcHHHhcCHH-HHHHHHHHHHHcCCChhHceeeeeccc
Confidence 456777777766 467777777778888888776554443
No 56
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=26.31 E-value=82 Score=26.74 Aligned_cols=61 Identities=15% Similarity=0.197 Sum_probs=36.9
Q ss_pred cchHHHHHHHHHcCCCCCc---hhHHHHH------HHHHhCChHHHHHHHHHHHhcCCCHHHHHHHHHhC
Q 015151 234 NKFDESVKRVIHMGFSPSS---GVFVHAL------VAVSTTTDQTWKQKVAVYSSWGWSQNEFWLAFKKY 294 (412)
Q Consensus 234 ~~~~~~v~~l~~lG~~~~~---~~~~~a~------~~l~~~s~~~l~~kv~~l~~lG~s~eev~~~i~~~ 294 (412)
+++......|.+.|+-... ..|+..- ..-.....+.+++-++-.+.+|+|.+++..++...
T Consensus 50 nTv~raY~eLE~eG~i~t~rg~G~fV~~~~~~~~~~~~~~~~~~~l~~~I~~~~~~G~s~eei~~~~~~~ 119 (125)
T COG1725 50 NTVQRAYQELEREGIVETKRGKGTFVTEDAKEILDQLKRELAEEELEEFIEEAKALGLSLEEILELLKEI 119 (125)
T ss_pred HHHHHHHHHHHHCCCEEEecCeeEEEcCCchhhHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 4455566777777763322 2233311 01122334567777888889999999999888753
No 57
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=26.25 E-value=1.2e+02 Score=22.62 Aligned_cols=30 Identities=10% Similarity=0.242 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHHhcCCCHHHHHHHHHhCCc
Q 015151 267 DQTWKQKVAVYSSWGWSQNEFWLAFKKYPR 296 (412)
Q Consensus 267 ~~~l~~kv~~l~~lG~s~eev~~~i~~~P~ 296 (412)
...+..-++.++.+||+.++|...+.+-=.
T Consensus 8 ~~R~daA~dam~~lG~~~~~v~~vl~~LL~ 37 (65)
T PF10440_consen 8 NERIDAALDAMRQLGFSKKQVRPVLKNLLK 37 (65)
T ss_pred cHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 456777778888899998888766654333
No 58
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=24.54 E-value=2.7e+02 Score=28.98 Aligned_cols=88 Identities=23% Similarity=0.295 Sum_probs=44.9
Q ss_pred hhHHHHHHHhCCCCHHHHHHHHHhCCcccccCccccHHHHHHHHHhCCCCchhHH-HHhhhCCcc-----cccc-cccch
Q 015151 95 PDLVLSILREHGFSDKHISKLVKKCPDLLVRRADKTLLPKLEFFASVGISGTALA-DVLSSNPAI-----LGRS-LKKQI 167 (412)
Q Consensus 95 ~~~vl~~L~~~G~s~~~i~~iv~~~P~lL~~~~~~~L~p~l~fL~~lGls~~~I~-~il~~~P~l-----L~~s-le~~L 167 (412)
++..+..+-++||.+.+....++.+-. ++...++|+.+---..++.+ +-..+--.+ +..+ ..+-+
T Consensus 303 ~d~~lsllv~mGfeesdaRlaLRsc~g--------~Vd~AvqfI~erre~laq~R~k~~a~Ere~~~r~k~~n~~~~~wv 374 (568)
T KOG2561|consen 303 NDETLSLLVGMGFEESDARLALRSCNG--------DVDSAVQFIIERREKLAQKREKDLAREREILERKKYGNTPMKKWV 374 (568)
T ss_pred cchHHHHHHHcCCCchHHHHHHHhccc--------cHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccccc
Confidence 456777788888888887766665432 45566666653211111111 000111111 1110 11122
Q ss_pred hh-HHHHHHHhcCChHHHHHHHHH
Q 015151 168 IP-SYKFLKSLLSDDAKIVGALKR 190 (412)
Q Consensus 168 ~p-~v~fL~~lg~s~~~i~~~l~~ 190 (412)
.| .+.+|.++|.+..-+..++.+
T Consensus 375 n~rs~~rL~~mGyer~la~eaL~r 398 (568)
T KOG2561|consen 375 NPRSLERLVSMGYERELAAEALRR 398 (568)
T ss_pred CHHHHHHHHhcchHhHHHHHHHHh
Confidence 23 467778888877777777766
No 59
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=24.26 E-value=2.7e+02 Score=25.33 Aligned_cols=102 Identities=17% Similarity=0.188 Sum_probs=0.0
Q ss_pred cCCCHHHHHhhhcccccCCCCChhHHHHHHHhCCCCHHHHHHHH-HhCCccccc--------------------------
Q 015151 73 CGLPPDVAASLSKKVNFETPEKPDLVLSILREHGFSDKHISKLV-KKCPDLLVR-------------------------- 125 (412)
Q Consensus 73 ~Gls~~~a~~~~~~l~l~~~~~~~~vl~~L~~~G~s~~~i~~iv-~~~P~lL~~-------------------------- 125 (412)
+||...+=+.+.+.+.--+-=.+..-+..|..+| ++++...+ ..++..|..
T Consensus 61 yGF~~~~Er~lF~~Li~V~GIGpK~Al~ILs~~~--~~~l~~aI~~~D~~~L~~vpGIGkKtAerIilELk~Ki~~~~~~ 138 (194)
T PRK14605 61 FGFATTEELSLFETLIDVSGIGPKLGLAMLSAMN--AEALASAIISGNAELLSTIPGIGKKTASRIVLELKDKIAKNWEA 138 (194)
T ss_pred eCCCCHHHHHHHHHHhCCCCCCHHHHHHHHHhCC--HHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHHHhhhhc
Q ss_pred ----CccccHHHHHHHHHhCCCCchhHHHHhhhCCcccccccccchhhHHHHHHH
Q 015151 126 ----RADKTLLPKLEFFASVGISGTALADVLSSNPAILGRSLKKQIIPSYKFLKS 176 (412)
Q Consensus 126 ----~~~~~L~p~l~fL~~lGls~~~I~~il~~~P~lL~~sle~~L~p~v~fL~~ 176 (412)
+..+.....+.+|.++|+++.++.+++...-.--..++++-++-.+..|..
T Consensus 139 ~~~~~~~~~~~e~~~aL~~LGy~~~~a~~ai~~~~~~~~~~~~~~ir~aLk~l~~ 193 (194)
T PRK14605 139 GVLSQVTEANSDILATLTALGYSSSEAAKAISSLGDNGDLPLEERIKLALNYFNN 193 (194)
T ss_pred cccccccchHHHHHHHHHHcCCCHHHHHHHHHHhhccCCCCHHHHHHHHHHHhhc
No 60
>COG3930 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.85 E-value=1.1e+02 Score=30.55 Aligned_cols=71 Identities=24% Similarity=0.308 Sum_probs=48.7
Q ss_pred cccccccccccccccccCCCCchH--HHhHHhcCCCHHHHHhhhccc-cc---CCCCChhHHHHHH-HhCCCCHHHHHHH
Q 015151 43 KPFSSIVAVTCENEKQNKEHSFTI--TYLIKSCGLPPDVAASLSKKV-NF---ETPEKPDLVLSIL-REHGFSDKHISKL 115 (412)
Q Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~~v--~yL~~s~Gls~~~a~~~~~~l-~l---~~~~~~~~vl~~L-~~~G~s~~~i~~i 115 (412)
-|||.|.+-.|.- ..-|..-+| +|+ .-|.+++.+..++.++ -+ ....+.-.|..|+ +++||+.++.-..
T Consensus 267 Qplr~F~~Glpg~--t~~QEGLAilaEyl--Ag~mt~eRLr~La~Rvla~~amldga~f~dvfh~ltrE~G~dredaf~~ 342 (434)
T COG3930 267 QPLRLFRAGLPGY--TGTQEGLAILAEYL--AGGMTPERLRLLANRVLACAAMLDGADFLDVFHFLTREHGFDREDAFNN 342 (434)
T ss_pred CceeeeeccCCCc--chhhhHHHHHHHHH--hcCCCHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHhhCcchHhHhhH
Confidence 4777776322321 223333666 888 7999999999998775 22 3446788999999 7999999885554
Q ss_pred HH
Q 015151 116 VK 117 (412)
Q Consensus 116 v~ 117 (412)
+.
T Consensus 343 ~~ 344 (434)
T COG3930 343 VL 344 (434)
T ss_pred HH
Confidence 43
No 61
>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.58 E-value=1.3e+02 Score=29.24 Aligned_cols=26 Identities=27% Similarity=0.298 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHh
Q 015151 268 QTWKQKVAVYSSWGWSQNEFWLAFKK 293 (412)
Q Consensus 268 ~~l~~kv~~l~~lG~s~eev~~~i~~ 293 (412)
.-+..|.+||++=|++++||..++++
T Consensus 20 aPli~kr~FLksKGLT~eEI~eAfk~ 45 (300)
T KOG2629|consen 20 APLIKKREFLKSKGLTEEEIQEAFKR 45 (300)
T ss_pred chHHHHHHHHHhcCCCHHHHHHHHHh
Confidence 34788999999999999999999986
No 62
>PRK13266 Thf1-like protein; Reviewed
Probab=23.33 E-value=2.3e+02 Score=26.58 Aligned_cols=48 Identities=19% Similarity=0.313 Sum_probs=37.0
Q ss_pred cCCCCchH-HHhHHhcCCCHHHHHhhhccc-ccCCCCChhHHHHHHHhCC
Q 015151 59 NKEHSFTI-TYLIKSCGLPPDVAASLSKKV-NFETPEKPDLVLSILREHG 106 (412)
Q Consensus 59 ~~~~~~~v-~yL~~s~Gls~~~a~~~~~~l-~l~~~~~~~~vl~~L~~~G 106 (412)
|..+..++ +.|++++|+++++....++.+ ......++..++++|..-|
T Consensus 69 Pee~~~~IF~Alc~a~~~dp~~~r~dA~~l~~~a~~~s~~~i~~~l~~~~ 118 (225)
T PRK13266 69 PEEHKDSIFNALCQAVGFDPEQLRQDAERLLELAKGKSLKEILSWLTQKA 118 (225)
T ss_pred ChHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCHHHHHHHHhccc
Confidence 34445555 899999999999999988775 5555667888889998654
No 63
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=23.25 E-value=1.8e+02 Score=26.87 Aligned_cols=66 Identities=14% Similarity=0.106 Sum_probs=29.4
Q ss_pred ccccccccchhh--HHHHHHHhcCChHHHHHHHHHcccc-ccccccccchHHHHHHcCCChhhhhhhcccC
Q 015151 158 ILGRSLKKQIIP--SYKFLKSLLSDDAKIVGALKRAAYL-HDVEKYISPNISALRDIGVTKSCISSLVISN 225 (412)
Q Consensus 158 lL~~sle~~L~p--~v~fL~~lg~s~~~i~~~l~~~P~l-~s~e~~l~~~v~~L~~lGv~~~~i~~ll~~~ 225 (412)
++.++++.+|.. .++++...-+....+..+..+.... .+.+..+...+..|+ |.+.+.+..+...+
T Consensus 7 L~vFD~D~TLi~~~~~~~~~~~~g~~~~v~~~t~~~~~~~~~~~~~~~~~v~~l~--g~~~~~v~~~~~~~ 75 (212)
T COG0560 7 LAVFDLDGTLINAELIDELARGAGVGEEVLAITERAMRGELDFEESLRLRVALLK--GLPVEVLEEVREEF 75 (212)
T ss_pred eEEEecccchhhHHHHHHHHHHhCCHHHHHHHHHHHhcccccHHHHHHHHHHHhC--CCCHHHHHHHHHhc
Confidence 444555555544 2344444444444454555444444 333333333333332 45555555554443
No 64
>PRK10026 arsenate reductase; Provisional
Probab=23.11 E-value=1.3e+02 Score=26.12 Aligned_cols=21 Identities=5% Similarity=0.104 Sum_probs=13.0
Q ss_pred CCCHHHHHHHHHhCCcccccC
Q 015151 281 GWSQNEFWLAFKKYPRCMTLS 301 (412)
Q Consensus 281 G~s~eev~~~i~~~P~iL~~S 301 (412)
++|.+++..++..+|.++.-.
T Consensus 75 ~ls~~e~l~ll~~~P~LIKRP 95 (141)
T PRK10026 75 KFTDDQLIDFMLQHPILINRP 95 (141)
T ss_pred CCCHHHHHHHHHhCccceeCc
Confidence 456666777777777665433
No 65
>smart00422 HTH_MERR helix_turn_helix, mercury resistance.
Probab=23.10 E-value=2.9e+02 Score=19.80 Aligned_cols=18 Identities=39% Similarity=0.619 Sum_probs=11.1
Q ss_pred HHHHHhCCCCHHHHHHHH
Q 015151 99 LSILREHGFSDKHISKLV 116 (412)
Q Consensus 99 l~~L~~~G~s~~~i~~iv 116 (412)
+..|++.|++.++|..++
T Consensus 50 i~~lr~~g~~~~~i~~~l 67 (70)
T smart00422 50 IKRLKELGFSLEEIKELL 67 (70)
T ss_pred HHHHHHcCCCHHHHHHHH
Confidence 444556777776666654
No 66
>PF08069 Ribosomal_S13_N: Ribosomal S13/S15 N-terminal domain; InterPro: IPR012606 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found at the N terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 2XZN_O 2XZM_O 3IZ6_O.
Probab=22.03 E-value=37 Score=24.93 Aligned_cols=34 Identities=15% Similarity=0.219 Sum_probs=16.2
Q ss_pred CCcccccCccccHHHHHHHHHhCCCCchhHHHHhh
Q 015151 119 CPDLLVRRADKTLLPKLEFFASVGISGTALADVLS 153 (412)
Q Consensus 119 ~P~lL~~~~~~~L~p~l~fL~~lGls~~~I~~il~ 153 (412)
.|.-+..+++ ++...|--|...|+++++|+-+|.
T Consensus 22 ~P~W~~~~~~-eVe~~I~klakkG~tpSqIG~iLR 55 (60)
T PF08069_consen 22 PPSWLKYSPE-EVEELIVKLAKKGLTPSQIGVILR 55 (60)
T ss_dssp --TT--S-HH-HHHHHHHHHCCTTHCHHHHHHHHH
T ss_pred CCCCcCCCHH-HHHHHHHHHHHcCCCHHHhhhhhh
Confidence 3555555554 455555555556666666655543
No 67
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.66 E-value=1.5e+02 Score=30.16 Aligned_cols=43 Identities=12% Similarity=0.289 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHhCCcccccCHHHHHHHHHHHHHhhCCC
Q 015151 268 QTWKQKVAVYSSWGWSQNEFWLAFKKYPRCMTLSVENINAKMDFYINQMGWQ 319 (412)
Q Consensus 268 ~~l~~kv~~l~~lG~s~eev~~~i~~~P~iL~~S~~~L~~k~~fL~~~mg~~ 319 (412)
+..+..|+-+.+|||.+++|.++++. +-.+=..-++||.. |++
T Consensus 154 ~~~e~~I~~i~eMGf~R~qV~~ALRA-------afNNPdRAVEYL~t--GIP 196 (378)
T TIGR00601 154 SERETTIEEIMEMGYEREEVERALRA-------AFNNPDRAVEYLLT--GIP 196 (378)
T ss_pred hHHHHHHHHHHHhCCCHHHHHHHHHH-------HhCCHHHHHHHHHh--CCC
Confidence 46778888888999999999887762 22334566899985 887
No 68
>PRK14136 recX recombination regulator RecX; Provisional
Probab=21.51 E-value=7.9e+02 Score=24.25 Aligned_cols=106 Identities=15% Similarity=0.129 Sum_probs=56.0
Q ss_pred chhhHHHHHHHhcC-ChHHHHHHHHHccccccccccccchHHHHHHcCCChhhhhhhcccCCcceeecccchHHHHHHHH
Q 015151 166 QIIPSYKFLKSLLS-DDAKIVGALKRAAYLHDVEKYISPNISALRDIGVTKSCISSLVISNPGVLCETSNKFDESVKRVI 244 (412)
Q Consensus 166 ~L~p~v~fL~~lg~-s~~~i~~~l~~~P~l~s~e~~l~~~v~~L~~lGv~~~~i~~ll~~~P~il~~s~~~~~~~v~~l~ 244 (412)
.|...|++|++.|. ++......+.+. .... .. -.....-|+.-||+.+.|...+... ..+.++...+.++
T Consensus 195 ~IE~VIerLke~gYLDDeRFAesyVr~-R~~k-kG-p~rIrqELrQKGId~eLIEqALeei------eEDE~E~A~~L~e 265 (309)
T PRK14136 195 SVEPLLDALEREGWLSDARFAESLVHR-RASR-VG-SARIVSELKRHAVGDALVESVGAQL------RETEFERAQAVWR 265 (309)
T ss_pred HHHHHHHHHHHcCCcCHHHHHHHHHHH-Hhhc-hh-HHHHHHHHHHcCCCHHHHHHHHHhc------cHhHHHHHHHHHH
Confidence 45566677777664 555555554433 2210 01 1223355667899988887766422 1111222222221
Q ss_pred -HcCCCCCchhHHHHHHHHHhCChHHHHHHHHHHHhcCCCHHHHHHHHHhC
Q 015151 245 -HMGFSPSSGVFVHALVAVSTTTDQTWKQKVAVYSSWGWSQNEFWLAFKKY 294 (412)
Q Consensus 245 -~lG~~~~~~~~~~a~~~l~~~s~~~l~~kv~~l~~lG~s~eev~~~i~~~ 294 (412)
.++-.+. ......+.+.||..=||+.+.|..++..+
T Consensus 266 KK~~~~~~--------------d~kek~K~iRfL~rRGFS~D~I~~vLk~~ 302 (309)
T PRK14136 266 KKFGALPQ--------------TPAERAKQARFLAARGFSSATIVKLLKVG 302 (309)
T ss_pred HHhcccCc--------------CHHHHHHHHHHHHHCCCCHHHHHHHHHhc
Confidence 1221111 12234455788889999999999888754
No 69
>PHA02591 hypothetical protein; Provisional
Probab=21.42 E-value=1.2e+02 Score=23.50 Aligned_cols=44 Identities=18% Similarity=0.269 Sum_probs=32.1
Q ss_pred cCCCHHHHHhhhc----ccccCCCCChhHHHHHHHhCCCCHHHHHHHH
Q 015151 73 CGLPPDVAASLSK----KVNFETPEKPDLVLSILREHGFSDKHISKLV 116 (412)
Q Consensus 73 ~Gls~~~a~~~~~----~l~l~~~~~~~~vl~~L~~~G~s~~~i~~iv 116 (412)
|-++.....++.. +-..++.++..++..-|.+.|++-.+|+..+
T Consensus 22 ~~~~~~~m~k~vqv~~~ryfi~~~dd~~~vA~eL~eqGlSqeqIA~~L 69 (83)
T PHA02591 22 CYIGEKKMQKVVQVGQTRYFVESEDDLISVTHELARKGFTVEKIASLL 69 (83)
T ss_pred EEhhhHhHHHhheeCCEEEEEeccchHHHHHHHHHHcCCCHHHHHHHh
Confidence 4555666666532 2234677889999999999999999999765
No 70
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=21.33 E-value=1.3e+02 Score=24.34 Aligned_cols=82 Identities=16% Similarity=0.221 Sum_probs=42.8
Q ss_pred ccchHHHHHHcCCChhhhhhhcccCCcceeecccchHHHHHHHHHcCCCCCchhHHHHHHHHHhCChHHHHHHHHHHHhc
Q 015151 201 ISPNISALRDIGVTKSCISSLVISNPGVLCETSNKFDESVKRVIHMGFSPSSGVFVHALVAVSTTTDQTWKQKVAVYSSW 280 (412)
Q Consensus 201 l~~~v~~L~~lGv~~~~i~~ll~~~P~il~~s~~~~~~~v~~l~~lG~~~~~~~~~~a~~~l~~~s~~~l~~kv~~l~~l 280 (412)
.+...+||++.|+.-..+. +. ..| -.-.+..+++..+|.+..+.. ......++. ..-+..-
T Consensus 9 ~rka~~~L~~~gi~~~~~d-~~-k~p-------~s~~el~~~l~~~~~~~~~li---------n~~~~~~k~-l~~~~~~ 69 (110)
T PF03960_consen 9 CRKALKWLEENGIEYEFID-YK-KEP-------LSREELRELLSKLGNGPDDLI---------NTRSKTYKE-LGKLKKD 69 (110)
T ss_dssp HHHHHHHHHHTT--EEEEE-TT-TS----------HHHHHHHHHHHTSSGGGGB----------TTSHHHHH-TTHHHCT
T ss_pred HHHHHHHHHHcCCCeEeeh-hh-hCC-------CCHHHHHHHHHHhcccHHHHh---------cCccchHhh-hhhhhhh
Confidence 5667788888888765322 11 222 123445566666665443211 011111221 1122345
Q ss_pred CCCHHHHHHHHHhCCcccccC
Q 015151 281 GWSQNEFWLAFKKYPRCMTLS 301 (412)
Q Consensus 281 G~s~eev~~~i~~~P~iL~~S 301 (412)
.++.+++..++..+|.++...
T Consensus 70 ~~s~~e~i~~l~~~p~LikRP 90 (110)
T PF03960_consen 70 DLSDEELIELLLENPKLIKRP 90 (110)
T ss_dssp TSBHHHHHHHHHHSGGGB-SS
T ss_pred hhhhHHHHHHHHhChhheeCC
Confidence 689999999999999998766
No 71
>PRK07562 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=21.14 E-value=3e+02 Score=32.32 Aligned_cols=102 Identities=17% Similarity=0.212 Sum_probs=0.0
Q ss_pred hHHHHHHHhCCCCHHHHHHHHH---hCCcccccCccccHHHHHHHHHhCCCCchhHHHHhhhCCcccccccc-cchhhHH
Q 015151 96 DLVLSILREHGFSDKHISKLVK---KCPDLLVRRADKTLLPKLEFFASVGISGTALADVLSSNPAILGRSLK-KQIIPSY 171 (412)
Q Consensus 96 ~~vl~~L~~~G~s~~~i~~iv~---~~P~lL~~~~~~~L~p~l~fL~~lGls~~~I~~il~~~P~lL~~sle-~~L~p~v 171 (412)
..+...|+.+|.+.+++..++. .+-.+-...--. -+.|...|+++++|.++=..-|..+.-..- +.+.=--
T Consensus 713 ~~l~~~L~~lG~~~~~i~~i~~~~~~~Gsl~~~~~i~-----~~~l~~~Gf~~~~~~~~~~~l~~~fdi~~~fn~~~lg~ 787 (1220)
T PRK07562 713 RAVPEALRTLGYSESQIAEIEAYAVGHGTLNQAPGIN-----HSTLKAKGFTDEKIEKVEAALKSAFDIKFAFNKWTLGE 787 (1220)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhhcCCCccCCCCCC-----HHHHhhcCCcHHHHHHHHHHhhhhhhhhhhhcccccch
Q ss_pred HHHHH-hcCChHHHHHHHHHccccccccccccchHHHHHHcCCChhhh
Q 015151 172 KFLKS-LLSDDAKIVGALKRAAYLHDVEKYISPNISALRDIGVTKSCI 218 (412)
Q Consensus 172 ~fL~~-lg~s~~~i~~~l~~~P~l~s~e~~l~~~v~~L~~lGv~~~~i 218 (412)
+|.++ +|++.+.+ -.|..+.|..+|++.++|
T Consensus 788 ~f~~~~lg~~~~~~----------------~~~~f~ll~~~g~t~~~i 819 (1220)
T PRK07562 788 DFCKDTLGIPAEQL----------------NDPSFDLLEHLGFSKKDI 819 (1220)
T ss_pred hhhhhcccCcHhhh----------------ccccchhhhhcccchhhH
No 72
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=20.84 E-value=2.3e+02 Score=22.10 Aligned_cols=23 Identities=22% Similarity=0.398 Sum_probs=18.2
Q ss_pred HHHHHHhCCCCHHHHHHHHHhCC
Q 015151 98 VLSILREHGFSDKHISKLVKKCP 120 (412)
Q Consensus 98 vl~~L~~~G~s~~~i~~iv~~~P 120 (412)
.-.+-+.+|++..+|..+-..+|
T Consensus 16 Wk~laR~LGlse~~Id~i~~~~~ 38 (86)
T cd08306 16 WRKLARKLGLSETKIESIEEAHP 38 (86)
T ss_pred HHHHHHHcCCCHHHHHHHHHHCC
Confidence 34566788899888888888887
No 73
>cd08315 Death_TRAILR_DR4_DR5 Death domain of Tumor necrosis factor-Related Apoptosis-Inducing Ligand Receptors. Death Domain (DD) found in Tumor necrosis factor-Related Apoptosis-Inducing Ligand (TRAIL) Receptors. In mammals, this family includes TRAILR1 (also called DR4 or TNFRSF10A) and TRAILR2 (also called DR5, TNFRSF10B, or KILLER). They function as receptors for the cytokine TRAIL and are involved in apoptosis signaling pathways. TRAIL preferentially induces apoptosis in cancer cells while exhibiting little toxicity in normal cells. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=20.82 E-value=2.1e+02 Score=22.92 Aligned_cols=24 Identities=17% Similarity=0.187 Sum_probs=11.7
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhCC
Q 015151 97 LVLSILREHGFSDKHISKLVKKCP 120 (412)
Q Consensus 97 ~vl~~L~~~G~s~~~i~~iv~~~P 120 (412)
..-.+.+.+|++..+|..+-..+|
T Consensus 21 ~Wk~laR~LGLse~~I~~i~~~~~ 44 (96)
T cd08315 21 SWNRLMRQLGLSENEIDVAKANER 44 (96)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHCC
Confidence 334444555555555555554444
No 74
>PF08004 DUF1699: Protein of unknown function (DUF1699); InterPro: IPR012546 This family contains many archaeal proteins which have very conserved sequences.
Probab=20.81 E-value=3.1e+02 Score=23.30 Aligned_cols=82 Identities=27% Similarity=0.321 Sum_probs=44.8
Q ss_pred CCHHHHHHHHHhCCccccc----CccccHHHHHH-HHHhCCCC--chhHHHHhhhCC-ccc-ccccccchhhHHHHHHHh
Q 015151 107 FSDKHISKLVKKCPDLLVR----RADKTLLPKLE-FFASVGIS--GTALADVLSSNP-AIL-GRSLKKQIIPSYKFLKSL 177 (412)
Q Consensus 107 ~s~~~i~~iv~~~P~lL~~----~~~~~L~p~l~-fL~~lGls--~~~I~~il~~~P-~lL-~~sle~~L~p~v~fL~~l 177 (412)
-|+.|+-+++.++|.+=.. +--+++...++ ||.--|+. ..|+- -+- .+= .+.+...+..++.-|++-
T Consensus 28 PSN~Dif~Lv~~CP~lk~iqiP~SY~~t~Sksi~mfL~mqgI~LleGDVw----GHRKDinEYy~i~~~vi~~I~el~~e 103 (131)
T PF08004_consen 28 PSNKDIFSLVERCPNLKAIQIPPSYYKTLSKSIKMFLEMQGIELLEGDVW----GHRKDINEYYEIPESVIERIKELKSE 103 (131)
T ss_pred CcchHHHHHHHhCCCCeEEeCChHHHHHHhHHHHHHHHhcCceeeccccc----cccCCCcccccCCHHHHHHHHHHHHc
Confidence 3667899999999988432 22344555554 44445653 11110 000 000 122344667777777777
Q ss_pred cCChHHHHHHHHHcc
Q 015151 178 LSDDAKIVGALKRAA 192 (412)
Q Consensus 178 g~s~~~i~~~l~~~P 192 (412)
|.+.+++..-+.+..
T Consensus 104 G~s~eei~~ki~~e~ 118 (131)
T PF08004_consen 104 GKSEEEIAEKISRET 118 (131)
T ss_pred CCCHHHHHHHHHHhh
Confidence 887777766665443
No 75
>cd08784 Death_DRs Death Domain of Death Receptors. Death domain (DD) found in death receptor proteins. Death receptors are members of the tumor necrosis factor (TNF) receptor superfamily, characterized by having a cytoplasmic DD. Known members of the family are Fas (CD95/APO-1), TNF-receptor 1 (TNFR1/TNFRSF1A/p55/CD120a), TNF-related apoptosis-inducing ligand receptor 1 (TRAIL-R1 /DR4), and receptor 2 (TRAIL-R2/DR5/APO-2/KILLER), as well as Death Receptor 3 (DR3/APO-3/TRAMP/WSL-1/LARD). They are involved in apoptosis signaling pathways. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=20.36 E-value=2.1e+02 Score=21.87 Aligned_cols=22 Identities=27% Similarity=0.520 Sum_probs=12.3
Q ss_pred HHHHhCCCCchhHHHHhhhCCc
Q 015151 136 EFFASVGISGTALADVLSSNPA 157 (412)
Q Consensus 136 ~fL~~lGls~~~I~~il~~~P~ 157 (412)
++.+.+|++..+|-.+-..+|.
T Consensus 16 ~laR~LGls~~~I~~ie~~~~~ 37 (79)
T cd08784 16 RFFRKLGLSDNEIKVAELDNPQ 37 (79)
T ss_pred HHHHHcCCCHHHHHHHHHcCCc
Confidence 3444556666666555555554
No 76
>PF08069 Ribosomal_S13_N: Ribosomal S13/S15 N-terminal domain; InterPro: IPR012606 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found at the N terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 2XZN_O 2XZM_O 3IZ6_O.
Probab=20.10 E-value=61 Score=23.81 Aligned_cols=40 Identities=3% Similarity=0.055 Sum_probs=24.7
Q ss_pred hHHHHHHHHHhCChHHHHHHHHHHHhcCCCHHHHHHHHHh
Q 015151 254 VFVHALVAVSTTTDQTWKQKVAVYSSWGWSQNEFWLAFKK 293 (412)
Q Consensus 254 ~~~~a~~~l~~~s~~~l~~kv~~l~~lG~s~eev~~~i~~ 293 (412)
-+....+.-+..+.+.+++.+--|.+-|++..+|..+++.
T Consensus 17 P~~~~~P~W~~~~~~eVe~~I~klakkG~tpSqIG~iLRD 56 (60)
T PF08069_consen 17 PYRRSPPSWLKYSPEEVEELIVKLAKKGLTPSQIGVILRD 56 (60)
T ss_dssp -S-SS--TT--S-HHHHHHHHHHHCCTTHCHHHHHHHHHH
T ss_pred CCCCCCCCCcCCCHHHHHHHHHHHHHcCCCHHHhhhhhhh
Confidence 3444444445566778888888888888998888877764
No 77
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=20.02 E-value=1e+02 Score=22.25 Aligned_cols=19 Identities=16% Similarity=0.164 Sum_probs=13.7
Q ss_pred HHHHHHhcCCCHHHHHHHH
Q 015151 273 KVAVYSSWGWSQNEFWLAF 291 (412)
Q Consensus 273 kv~~l~~lG~s~eev~~~i 291 (412)
-+..++.+|||-+||..++
T Consensus 6 ~I~~~r~lGfsL~eI~~~l 24 (65)
T PF09278_consen 6 FIRRLRELGFSLEEIRELL 24 (65)
T ss_dssp HHHHHHHTT--HHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHHHH
Confidence 3455678999999999998
Done!