Query 035795
Match_columns 164
No_of_seqs 109 out of 1114
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 06:31:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035795.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035795hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00437 glutaminyl-tRNA synth 100.0 2.7E-49 5.8E-54 361.7 14.3 163 1-163 244-492 (574)
2 PRK05347 glutaminyl-tRNA synth 100.0 3.5E-48 7.6E-53 353.8 14.4 164 1-164 227-484 (554)
3 PLN03233 putative glutamate-tR 100.0 1.1E-46 2.4E-51 342.5 13.1 164 1-164 204-443 (523)
4 PRK14703 glutaminyl-tRNA synth 100.0 1.9E-46 4.1E-51 353.2 14.4 164 1-164 229-487 (771)
5 KOG1147 Glutamyl-tRNA syntheta 100.0 1.2E-46 2.7E-51 340.3 8.1 164 1-164 393-637 (712)
6 PLN02859 glutamine-tRNA ligase 100.0 1.5E-45 3.3E-50 346.1 12.8 164 1-164 457-715 (788)
7 PLN02907 glutamate-tRNA ligase 100.0 2.5E-45 5.5E-50 344.3 14.1 164 1-164 406-650 (722)
8 KOG1148 Glutaminyl-tRNA synthe 100.0 3.5E-46 7.5E-51 339.8 7.9 163 1-163 442-691 (764)
9 TIGR00440 glnS glutaminyl-tRNA 100.0 2.1E-45 4.5E-50 334.3 12.8 164 1-164 198-454 (522)
10 PTZ00402 glutamyl-tRNA synthet 100.0 3.1E-45 6.6E-50 336.8 13.8 164 1-164 246-490 (601)
11 TIGR00463 gltX_arch glutamyl-t 100.0 8.3E-39 1.8E-43 293.1 12.5 163 1-163 286-520 (560)
12 PRK04156 gltX glutamyl-tRNA sy 100.0 1.3E-37 2.9E-42 285.6 11.6 150 1-151 296-511 (567)
13 PF03950 tRNA-synt_1c_C: tRNA 99.8 2.5E-19 5.3E-24 143.2 9.4 89 76-164 10-131 (174)
14 cd00807 GlnRS_core catalytic c 99.7 2E-18 4.4E-23 144.6 4.1 75 1-75 122-224 (238)
15 cd09287 GluRS_non_core catalyt 99.7 2E-17 4.2E-22 138.8 3.4 75 1-75 124-226 (240)
16 COG0008 GlnS Glutamyl- and glu 99.5 5.7E-16 1.2E-20 140.5 -2.3 113 1-117 207-379 (472)
17 PF00749 tRNA-synt_1c: tRNA sy 98.9 2.1E-10 4.4E-15 99.3 0.7 66 1-66 200-290 (314)
18 cd00418 GlxRS_core catalytic c 98.6 2.5E-08 5.3E-13 83.5 1.7 64 1-66 110-184 (230)
19 cd00808 GluRS_core catalytic c 98.4 7.5E-08 1.6E-12 80.9 1.9 64 1-66 119-193 (239)
20 PRK12558 glutamyl-tRNA synthet 98.4 1.2E-07 2.6E-12 85.9 3.3 62 1-66 197-271 (445)
21 PRK12410 glutamylglutaminyl-tR 98.1 1.8E-06 3.9E-11 78.2 3.3 62 1-66 191-266 (433)
22 PLN02627 glutamyl-tRNA synthet 97.9 1E-05 2.3E-10 75.0 3.3 62 1-66 250-324 (535)
23 TIGR03838 queuosine_YadB gluta 97.8 8.4E-06 1.8E-10 69.8 1.8 54 1-56 186-260 (272)
24 TIGR00464 gltX_bact glutamyl-t 97.6 4.8E-05 1E-09 69.4 3.1 61 1-66 198-272 (470)
25 PRK01406 gltX glutamyl-tRNA sy 97.4 9.5E-05 2.1E-09 67.6 3.0 60 1-66 208-282 (476)
26 PRK14895 gltX glutamyl-tRNA sy 96.9 0.00073 1.6E-08 62.6 3.4 62 1-66 197-271 (513)
27 KOG1149 Glutamyl-tRNA syntheta 94.3 0.043 9.3E-07 50.5 3.6 61 1-66 238-312 (524)
28 PRK05710 glutamyl-Q tRNA(Asp) 94.0 0.029 6.2E-07 48.8 1.8 58 1-66 193-263 (299)
29 PF13720 Acetyltransf_11: Udp 85.2 0.65 1.4E-05 32.9 2.0 18 43-60 18-35 (83)
30 smart00422 HTH_MERR helix_turn 64.5 7.8 0.00017 25.2 2.7 24 41-64 46-69 (70)
31 PF04447 DUF550: Protein of un 55.7 8.3 0.00018 28.7 1.8 51 14-64 4-71 (100)
32 PRK00117 recX recombination re 51.4 16 0.00035 27.9 2.9 26 41-66 129-154 (157)
33 PRK12461 UDP-N-acetylglucosami 50.5 10 0.00023 31.9 1.8 19 43-61 190-208 (255)
34 PF13411 MerR_1: MerR HTH fami 48.4 17 0.00037 23.6 2.3 23 41-63 45-67 (69)
35 PF11278 DUF3079: Protein of u 43.6 12 0.00026 24.6 0.9 25 84-112 3-27 (52)
36 cd01282 HTH_MerR-like_sg3 Heli 43.4 29 0.00063 25.4 3.1 28 38-65 42-69 (112)
37 PF02787 CPSase_L_D3: Carbamoy 43.1 24 0.00052 26.7 2.7 25 38-62 9-33 (123)
38 cd04764 HTH_MlrA-like_sg1 Heli 40.8 34 0.00074 22.2 2.8 22 41-62 45-66 (67)
39 cd04763 HTH_MlrA-like Helix-Tu 39.4 37 0.0008 22.2 2.8 22 41-62 46-67 (68)
40 COG1043 LpxA Acyl-[acyl carrie 39.4 11 0.00023 32.5 0.2 23 38-60 190-212 (260)
41 COG4058 McrA Methyl coenzyme M 38.7 13 0.00028 34.1 0.6 30 37-66 101-140 (553)
42 cd01105 HTH_GlnR-like Helix-Tu 37.9 44 0.00095 23.4 3.2 27 40-66 46-72 (88)
43 PRK14135 recX recombination re 37.0 36 0.00077 28.3 3.0 26 41-66 235-260 (263)
44 cd01104 HTH_MlrA-CarA Helix-Tu 36.9 40 0.00087 21.7 2.7 22 41-62 46-67 (68)
45 PF09278 MerR-DNA-bind: MerR, 36.7 41 0.00089 21.6 2.7 22 41-62 3-24 (65)
46 PF14068 YuiB: Putative membra 36.5 19 0.00041 26.9 1.1 11 44-54 90-100 (102)
47 PF02631 RecX: RecX family; I 36.5 26 0.00056 25.7 1.9 21 44-64 98-118 (121)
48 PF09124 Endonuc-dimeris: T4 r 35.3 11 0.00025 25.0 -0.2 22 15-36 8-29 (54)
49 PF08671 SinI: Anti-repressor 34.3 58 0.0013 19.0 2.7 20 45-64 9-28 (30)
50 PF02745 MCR_alpha_N: Methyl-c 34.3 6.3 0.00014 33.6 -1.9 30 37-66 97-136 (267)
51 cd04780 HTH_MerR-like_sg5 Heli 33.4 44 0.00095 23.9 2.6 30 39-68 44-74 (95)
52 cd04773 HTH_TioE_rpt2 Second H 33.4 57 0.0012 23.7 3.3 25 41-65 46-70 (108)
53 cd04778 HTH_MerR-like_sg2 Heli 33.0 50 0.0011 27.4 3.2 26 41-66 46-71 (219)
54 cd04767 HTH_HspR-like_MBC Heli 31.4 56 0.0012 24.8 3.0 26 41-66 45-71 (120)
55 PF08275 Toprim_N: DNA primase 30.2 28 0.00061 26.2 1.2 31 43-75 13-43 (128)
56 cd01106 HTH_TipAL-Mta Helix-Tu 29.6 66 0.0014 22.9 3.0 24 41-64 46-69 (103)
57 cd04782 HTH_BltR Helix-Turn-He 29.0 69 0.0015 22.7 3.0 24 41-64 46-69 (97)
58 PF10152 DUF2360: Predicted co 28.8 73 0.0016 24.8 3.3 30 37-66 111-140 (148)
59 cd01816 Raf_RBD Ubiquitin doma 28.5 36 0.00077 24.1 1.4 31 45-75 27-60 (74)
60 PF12554 MOZART1: Mitotic-spin 28.4 1.1E+02 0.0024 19.7 3.6 36 30-65 12-47 (48)
61 PF12244 DUF3606: Protein of u 28.3 54 0.0012 21.5 2.2 19 48-66 27-45 (57)
62 cd01111 HTH_MerD Helix-Turn-He 28.1 79 0.0017 23.1 3.2 26 40-65 45-70 (107)
63 TIGR03256 met_CoM_red_alp meth 28.1 22 0.00047 33.3 0.3 30 37-66 96-135 (548)
64 TIGR02051 MerR Hg(II)-responsi 27.5 68 0.0015 23.8 2.9 25 40-64 44-68 (124)
65 PRK05289 UDP-N-acetylglucosami 27.3 50 0.0011 27.6 2.3 27 37-63 185-214 (262)
66 cd04770 HTH_HMRTR Helix-Turn-H 26.9 76 0.0017 23.2 3.0 26 40-65 45-70 (123)
67 PF08057 Ery_res_leader2: Eryt 26.5 26 0.00057 17.0 0.3 6 1-6 1-6 (14)
68 cd04777 HTH_MerR-like_sg1 Heli 26.3 77 0.0017 22.7 2.9 25 40-64 43-67 (107)
69 cd01110 HTH_SoxR Helix-Turn-He 26.0 80 0.0017 24.1 3.1 25 40-64 45-69 (139)
70 PF00749 tRNA-synt_1c: tRNA sy 25.2 71 0.0015 27.7 3.0 23 44-66 254-276 (314)
71 PF13940 Ldr_toxin: Toxin Ldr, 25.0 18 0.0004 21.9 -0.5 13 37-49 11-23 (35)
72 PF01418 HTH_6: Helix-turn-hel 24.6 57 0.0012 22.1 1.8 28 39-66 31-59 (77)
73 PF08401 DUF1738: Domain of un 24.5 48 0.001 24.9 1.6 22 33-54 59-80 (125)
74 TIGR02044 CueR Cu(I)-responsiv 24.5 84 0.0018 23.3 2.9 27 38-64 43-69 (127)
75 cd01109 HTH_YyaN Helix-Turn-He 24.4 93 0.002 22.5 3.1 24 41-64 46-69 (113)
76 COG0007 CysG Uroporphyrinogen- 23.9 31 0.00067 29.4 0.4 18 32-49 8-25 (244)
77 TIGR03544 DivI1A_domain DivIVA 23.9 82 0.0018 18.3 2.2 16 51-66 16-31 (34)
78 PRK11152 ilvM acetolactate syn 23.8 18 0.0004 25.3 -0.8 15 45-59 20-35 (76)
79 cd04774 HTH_YfmP Helix-Turn-He 23.8 96 0.0021 22.1 3.0 25 40-64 44-69 (96)
80 cd04768 HTH_BmrR-like Helix-Tu 23.8 96 0.0021 21.9 3.0 27 38-64 43-69 (96)
81 cd00592 HTH_MerR-like Helix-Tu 23.7 98 0.0021 21.6 3.0 27 40-66 44-70 (100)
82 cd04784 HTH_CadR-PbrR Helix-Tu 23.3 92 0.002 23.0 2.9 24 41-64 46-69 (127)
83 cd04776 HTH_GnyR Helix-Turn-He 23.1 1E+02 0.0022 22.8 3.0 25 41-65 44-68 (118)
84 PRK14135 recX recombination re 22.9 79 0.0017 26.2 2.7 23 44-66 181-203 (263)
85 cd04766 HTH_HspR Helix-Turn-He 22.9 1.1E+02 0.0024 21.3 3.1 23 41-63 46-69 (91)
86 PRK09514 zntR zinc-responsive 22.8 93 0.002 23.7 2.9 25 40-64 46-70 (140)
87 cd01108 HTH_CueR Helix-Turn-He 22.7 96 0.0021 23.1 2.9 25 40-64 45-69 (127)
88 PF01244 Peptidase_M19: Membra 21.7 89 0.0019 27.2 2.9 21 42-62 289-310 (320)
89 cd04779 HTH_MerR-like_sg4 Heli 21.7 1.2E+02 0.0025 23.3 3.2 27 40-66 44-70 (134)
90 KOG2285 E3 ubiquitin ligase, C 21.4 97 0.0021 29.6 3.1 37 30-66 348-412 (777)
91 cd01301 rDP_like renal dipepti 21.3 91 0.002 27.1 2.8 22 41-62 280-302 (309)
92 cd04907 ACT_ThrD-I_2 Second of 21.2 47 0.001 23.1 0.9 13 54-66 11-23 (81)
93 TIGR02043 ZntR Zn(II)-responsi 21.1 1.1E+02 0.0023 23.0 2.9 26 39-64 45-70 (131)
94 PHA02891 hypothetical protein; 20.9 64 0.0014 24.3 1.5 29 51-79 14-42 (120)
95 COG2137 OraA Uncharacterized p 20.8 1E+02 0.0022 24.9 2.8 21 45-65 144-164 (174)
96 TIGR02047 CadR-PbrR Cd(II)/Pb( 20.7 1.1E+02 0.0024 22.8 2.9 27 38-64 43-69 (127)
97 cd04785 HTH_CadR-PbrR-like Hel 20.5 1.1E+02 0.0025 22.6 2.9 26 40-65 45-70 (126)
98 PRK13749 transcriptional regul 20.4 1.1E+02 0.0025 23.1 2.9 27 40-66 48-74 (121)
No 1
>PTZ00437 glutaminyl-tRNA synthetase; Provisional
Probab=100.00 E-value=2.7e-49 Score=361.68 Aligned_cols=163 Identities=15% Similarity=0.219 Sum_probs=140.6
Q ss_pred Cceeecccccccccchhhe--------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~pe 56 (164)
|||||||+||++|+++|+| |||||++|++ ++||++| |||||||||+|||||||+||
T Consensus 244 ITHvlct~Ef~~r~~~y~wl~~~l~l~~p~~~ef~rln~~~~~LSKRkl~~lV~~g~V~GWDDPRl~Ti~glrrrG~~pe 323 (574)
T PTZ00437 244 IDYSLCTLEFETRRESYFWLLEELNLWRPHVWEFSRLNVTGSLLSKRKINVLVRKGIVRGFDDPRLLTLAGMRRRGYTPA 323 (574)
T ss_pred CCEEeeechhhcccHHHHHHHHHhCCcccceEeeeeecCCCceeeccchHHhcccCccCCCCCCcchhHHHHHHCCCCHH
Confidence 8999999999999999998 9999999998 8889987 99999999999999999999
Q ss_pred HHHHHHHHhc----ceeeeeece--------------------eEEEEE------EEEeeccCCCCCCCceEEEEeccEE
Q 035795 57 SLMQFILELY----LLSLKWKTD--------------------FFIFTF------SVRIKLRHKTCKGVGVKATTYAKTI 106 (164)
Q Consensus 57 aIr~F~~~iG----~~~i~~~~l--------------------~v~v~i------~~~~~p~hP~~~~~G~R~v~~~~~i 106 (164)
||++||.++| +++|+|++| ||+|+| ..+++|+||++|++|+|++.|+++|
T Consensus 324 Ai~~f~~~~G~sk~~~~i~~~~Le~~nR~~ld~~a~R~~~V~dPv~v~I~n~~~~~~~~~p~hP~~~~~G~R~i~~~~~i 403 (574)
T PTZ00437 324 AINRFCELVGITRSMNVIQISMLENTLREDLDERCERRLMVIDPIKVVVDNWKGEREFECPNHPRKPELGSRKVMFTDTF 403 (574)
T ss_pred HHHHHHHHhCCCccceEeeHHHHHHHHHHHhcccCccceEEccceEEEEecCCCceEEeccCCCCCCcCceEEEEEcCeE
Confidence 9999999999 889999999 788888 5678999999999999999999999
Q ss_pred EEecCcccccc---------C-C-e--------------eecCCCcE---EEEEEcCCccccCceEEEeeCCC----cce
Q 035795 107 WMDLANAELIS---------G-T-N--------------FRNQDGNF---TGVVHLEGYKTTVLKLTWLLEIS----KLV 154 (164)
Q Consensus 107 yIe~~D~~~~~---------~-e-i--------------~~~~~g~v---~~~~~~e~~kk~k~~I~Wv~~~~----~~~ 154 (164)
|||++||+... + + . .++++|.| .+.+.++..+++|++|||||+.. +++
T Consensus 404 yIe~~D~~~~~~~~~f~rL~~g~~~vrL~~~~~i~~~~~~~d~~g~v~~~~~~~d~~~~~k~k~~IhWvs~~~~v~~evr 483 (574)
T PTZ00437 404 YVDRSDFRTEDNNSKFYGLAPGPRVVGLKYSGNVVCKGFEVDAAGQPSVIHVDIDFERKDKPKTNISWVSATACTPVEVR 483 (574)
T ss_pred EEEHHHhhcccccccceecCCCCeEEEeccEEEEEEEEEEECCCCCEEEEEEEecccccccCCCeEEEeecCCceeEEEE
Confidence 99999998421 1 1 2 23345655 24444555677888999999754 359
Q ss_pred eecCCCccC
Q 035795 155 GFDYLITKK 163 (164)
Q Consensus 155 ~yd~L~~~~ 163 (164)
+||+||+++
T Consensus 484 ~Yd~Lf~~~ 492 (574)
T PTZ00437 484 LYNALLKDD 492 (574)
T ss_pred eccccccCC
Confidence 999999985
No 2
>PRK05347 glutaminyl-tRNA synthetase; Provisional
Probab=100.00 E-value=3.5e-48 Score=353.84 Aligned_cols=164 Identities=15% Similarity=0.229 Sum_probs=142.9
Q ss_pred Cceeecccccccccchhhe---------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCH
Q 035795 1 MSFSLRSSEYNARNAQYHM---------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKI 55 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w---------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~p 55 (164)
|||||||+||++|+++|.| |||||++|++ ++||++| |||||||||+|||||||+|
T Consensus 227 ITHvlRg~E~~~~t~~~~~i~~alg~~~~P~~~~F~rln~~~~~LSKRkl~~lV~~g~v~GWDDPRl~Ti~~lrrrG~~P 306 (554)
T PRK05347 227 ITHSLCTLEFEDHRPLYDWVLDNLPIPPHPRQYEFSRLNLTYTVMSKRKLKQLVEEKHVDGWDDPRMPTISGLRRRGYTP 306 (554)
T ss_pred CceEEeccccccChHHHHHHHHHcCCCCCCceEEEEEECCCCCccccccchhccccCcccCccCCcchhHHHHHHCCCCH
Confidence 8999999999999999998 9999999998 7889887 9999999999999999999
Q ss_pred HHHHHHHHHhc----ceeeeeece--------------------eEEEEE--------EEEeeccCCCCCCCceEEEEec
Q 035795 56 ESLMQFILELY----LLSLKWKTD--------------------FFIFTF--------SVRIKLRHKTCKGVGVKATTYA 103 (164)
Q Consensus 56 eaIr~F~~~iG----~~~i~~~~l--------------------~v~v~i--------~~~~~p~hP~~~~~G~R~v~~~ 103 (164)
|||++||.++| +++|+|++| ||+|+| +.+++|+||+++++|+|++.|+
T Consensus 307 eAi~nf~~~lG~s~~~~~i~~~~L~~~nRk~ld~~a~R~m~V~~pv~v~i~n~~~~~~~~~~~p~hP~~~~~G~r~i~~~ 386 (554)
T PRK05347 307 ESIREFCERIGVTKQDSVIDMSMLESCIREDLNENAPRAMAVLDPLKLVITNYPEGQVEELEAPNHPEDPEMGTREVPFS 386 (554)
T ss_pred HHHHHHHHHhCCCCCCCeecHHHHHHHHHHHhccCCCceEEEcCCeEEEEEeCCCCceEEEEecCCCCCCcCceEEEEEc
Confidence 99999999999 789999999 688887 3579999999999999999999
Q ss_pred cEEEEecCccccccC---------C--------------eeecCCCcE---EEEEEcC-------CccccCceEEEeeCC
Q 035795 104 KTIWMDLANAELISG---------T--------------NFRNQDGNF---TGVVHLE-------GYKTTVLKLTWLLEI 150 (164)
Q Consensus 104 ~~iyIe~~D~~~~~~---------e--------------i~~~~~g~v---~~~~~~e-------~~kk~k~~I~Wv~~~ 150 (164)
++||||++||++.++ + +.++++|.| .|.++++ ++||+|++|||||+.
T Consensus 387 ~~iyIe~~D~~~~~~~~~~rl~~g~~vrL~~~~~i~~~~~~kd~~g~v~~~~~~~~~~~~~g~~~~~kk~k~~IhWv~~~ 466 (554)
T PRK05347 387 RELYIEREDFMEEPPKKYFRLVPGKEVRLRNAYVIKCEEVVKDADGNITEIHCTYDPDTLSGNPADGRKVKGTIHWVSAA 466 (554)
T ss_pred CeEEEEhHHhhccccccccccCCCCEEEecCEEEEEEEEEEEcCCCCEEEEEEEEccccccCCCccCcccCCEEEeeecC
Confidence 999999999985332 1 334566776 4667654 357888899999965
Q ss_pred C----cceeecCCCccCC
Q 035795 151 S----KLVGFDYLITKKK 164 (164)
Q Consensus 151 ~----~~~~yd~L~~~~k 164 (164)
. ++++||+||++++
T Consensus 467 ~~v~~~v~~yd~Lf~~~~ 484 (554)
T PRK05347 467 HAVPAEVRLYDRLFTVPN 484 (554)
T ss_pred CCEeEEEEEeccccCCCC
Confidence 4 3599999999874
No 3
>PLN03233 putative glutamate-tRNA ligase; Provisional
Probab=100.00 E-value=1.1e-46 Score=342.52 Aligned_cols=164 Identities=27% Similarity=0.469 Sum_probs=139.7
Q ss_pred Cceeecccccccccchhhe--------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~pe 56 (164)
|||+|||.||.+|+++|.| |+|||++|++ ++||++| |||||||||+|||||||+||
T Consensus 204 ITHviRg~E~~~~t~~q~~l~~aLg~~~P~~~~f~rln~~~~kLSKR~l~~lV~~g~v~GWDDPRlpTi~~lrrrG~~pe 283 (523)
T PLN03233 204 VTHALRTTEYDDRDAQFFWIQKALGLRRPRIHAFARMNFMNTVLSKRKLTWFVDNGHVTGWDDARFPTIRGISRRGIDID 283 (523)
T ss_pred CCeEEechhhhcCCHHHHHHHHHhCCCCCeeeeeEEECCCCCcccccCchhhhccCcccCccCCchHhHHHHHHCCCCHH
Confidence 8999999999999999998 9999999998 8899987 99999999999999999999
Q ss_pred HHHHHHHHhc----ceeeeeece----------------------eEEEEE----EE-----EeeccCCCCCCCceEEEE
Q 035795 57 SLMQFILELY----LLSLKWKTD----------------------FFIFTF----SV-----RIKLRHKTCKGVGVKATT 101 (164)
Q Consensus 57 aIr~F~~~iG----~~~i~~~~l----------------------~v~v~i----~~-----~~~p~hP~~~~~G~R~v~ 101 (164)
||++||.++| +++|+|++| ||+|+| .. +++|+||++|++|+|+++
T Consensus 284 Ai~~f~~~~G~s~~~~~i~~~~l~~~nR~~ld~~a~R~m~V~~~~pv~v~i~n~~~~~~~~~~~~p~hP~~~~~G~r~v~ 363 (523)
T PLN03233 284 ALKMFMCSQGASRRVVNLDWAKFWAENKKEIDKRAKRFMAIDKADHTALTVTNADEEADFAFSETDCHPKDPGFGKRAMR 363 (523)
T ss_pred HHHHHHHHhCCCCCCceecHHHHHHHHHHHhcccCCceEEEccCCcEEEEecCCCCccceeccccccCCCCCCCceEEEE
Confidence 9999999999 789999999 567777 11 279999999999999999
Q ss_pred eccEEEEecCccccccC-CeeecC-CCcEE---------EEEEcCC-ccccCceEEEeeCC-C----cceeecCCCccCC
Q 035795 102 YAKTIWMDLANAELISG-TNFRNQ-DGNFT---------GVVHLEG-YKTTVLKLTWLLEI-S----KLVGFDYLITKKK 164 (164)
Q Consensus 102 ~~~~iyIe~~D~~~~~~-ei~~~~-~g~v~---------~~~~~e~-~kk~k~~I~Wv~~~-~----~~~~yd~L~~~~k 164 (164)
|+++||||++||+.+.+ +.+++- .|+++ +++++++ .+++|++|||||+. . ++++||+||++++
T Consensus 364 ~~~~iyIe~~D~~~l~~g~~vrL~~~~~i~~~~~~~d~~~~~~~~~d~~~~k~~I~Wv~~~~~~~~~~~~~yd~L~~~~~ 443 (523)
T PLN03233 364 ICDEVLLEKADTEDIQLGEDIVLLRWGVIEISKIDGDLEGHFIPDGDFKAAKKKISWIADVSDNIPVVLSEFDNLIIKEK 443 (523)
T ss_pred ECCcEEEEHhHHhhcCCCCEEEeCceeeEEEEEEEecCceEEeeCCCCcccccEEEEcCCCCCccceEEEecccccCCCC
Confidence 99999999999997755 455552 24442 2344343 67888899999842 2 3599999999864
No 4
>PRK14703 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional
Probab=100.00 E-value=1.9e-46 Score=353.16 Aligned_cols=164 Identities=14% Similarity=0.174 Sum_probs=142.4
Q ss_pred Cceeecccccccccchhhe----------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCC
Q 035795 1 MSFSLRSSEYNARNAQYHM----------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLK 54 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w----------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~ 54 (164)
|||||||+||.+|+++|+| ||||||+||+ ++||++| |||||||||+|||||||+
T Consensus 229 ITHvlRg~E~~~~~~~~~~l~~~l~~~~~~P~~~~f~rl~l~~~~lSKRkl~~lV~~g~v~GWDDPRlpti~~lrrrG~~ 308 (771)
T PRK14703 229 VTHSICTLEFENNRAIYDWVLDHLGPWPPRPRQYEFARLALGYTVMSKRKLRELVEEGYVSGWDDPRMPTIAGQRRRGVT 308 (771)
T ss_pred CcEEEecHhhhhccHHHHHHHHHhCCCCCCcceeEEEEeccCCCcccccCchhccccCcccCCCCCchhhHHHHHHCCCC
Confidence 8999999999999999998 9999999998 7889887 999999999999999999
Q ss_pred HHHHHHHHHHhc----ceeeeeece--------------------eEEEEE--------EEEeeccCCCC-CCCceEEEE
Q 035795 55 IESLMQFILELY----LLSLKWKTD--------------------FFIFTF--------SVRIKLRHKTC-KGVGVKATT 101 (164)
Q Consensus 55 peaIr~F~~~iG----~~~i~~~~l--------------------~v~v~i--------~~~~~p~hP~~-~~~G~R~v~ 101 (164)
||||++||..+| +++|+|++| |++|+| +++++|+||++ |++|+|+++
T Consensus 309 peAi~~f~~~lG~s~~~~~i~~~~L~~~~R~~ld~~a~R~~~V~~p~~v~i~n~~~~~~~~~~~p~hp~~~~~~G~r~v~ 388 (771)
T PRK14703 309 PEAIRDFADQIGVAKTNSTVDIGVLEFAIRDDLNRRAPRVMAVLDPLKVVIENLPAGKVEELDLPYWPHDVPKEGSRKVP 388 (771)
T ss_pred HHHHHHHHHHhCCCccCceecHHHHHHHHHHHhccCCCceEEEcCCeEEEEEeCCCCceEEEeccCCCCCCccCceEEEE
Confidence 999999999999 889999999 688888 46789999997 899999999
Q ss_pred eccEEEEecCccccccC---------C--------------eeecCCCcE---EEEEEcCC------ccccCceEEEeeC
Q 035795 102 YAKTIWMDLANAELISG---------T--------------NFRNQDGNF---TGVVHLEG------YKTTVLKLTWLLE 149 (164)
Q Consensus 102 ~~~~iyIe~~D~~~~~~---------e--------------i~~~~~g~v---~~~~~~e~------~kk~k~~I~Wv~~ 149 (164)
|+++||||++||++.++ + +.++++|.| .|.+++++ .++++++|||||+
T Consensus 389 ~~~~iyIe~~D~~~~~~~~~~~l~~g~~vrL~~~~~i~~~~~~kd~~G~v~~~~~~~~~~~~~~~~~~~k~k~~ihWv~~ 468 (771)
T PRK14703 389 FTRELYIERDDFSEDPPKGFKRLTPGREVRLRGAYIIRCDEVVRDADGAVTELRCTYDPESAKGEDTGRKAAGVIHWVSA 468 (771)
T ss_pred EcCeEEEEhhHhhccccccccccCCCCEEEecceEEEEEEEEEEcCCCCEEEEEEEEeCCCcCCCccCCcCCcEEEEeec
Confidence 99999999999985432 1 345567876 46777655 2457788999996
Q ss_pred CC----cceeecCCCccCC
Q 035795 150 IS----KLVGFDYLITKKK 164 (164)
Q Consensus 150 ~~----~~~~yd~L~~~~k 164 (164)
.. ++|+||+||++++
T Consensus 469 ~~~v~~~vr~Yd~Lf~~~~ 487 (771)
T PRK14703 469 KHALPAEVRLYDRLFKVPQ 487 (771)
T ss_pred CCCeeEEEEecccccCCCC
Confidence 54 3599999999864
No 5
>KOG1147 consensus Glutamyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-46 Score=340.34 Aligned_cols=164 Identities=36% Similarity=0.635 Sum_probs=145.0
Q ss_pred Cceeecccccccccchhhe--------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~pe 56 (164)
|||+|||.||+||++|||| ||||||++|| .|+|++| ||||||||+||++|||+|.|
T Consensus 393 VThaLRttEYhDRn~Qyyw~i~al~LRkp~iwefsRlN~~nTvLSKRKLtwfVd~GlV~GWDDPRfpTVrGv~RrGmtvE 472 (712)
T KOG1147|consen 393 VTHALRTTEYHDRNAQYYWFIDALGLRKPHIWEFSRLNFVNTVLSKRKLTWFVDEGLVDGWDDPRFPTVRGVRRRGMTVE 472 (712)
T ss_pred hhhhhhhhhccccchHHHHHHHHhcCCccceeehhhhhhHhhhhhhhheeeeeccCcccCCCCCCcchhHHHHHcCccHH
Confidence 7999999999999999999 9999999999 6779988 99999999999999999999
Q ss_pred HHHHHHHHhc----ceeeeeece----------------------eEEEEE-------EEEeeccCCCCCCCceEEEEec
Q 035795 57 SLMQFILELY----LLSLKWKTD----------------------FFIFTF-------SVRIKLRHKTCKGVGVKATTYA 103 (164)
Q Consensus 57 aIr~F~~~iG----~~~i~~~~l----------------------~v~v~i-------~~~~~p~hP~~~~~G~R~v~~~ 103 (164)
||++||++|| .++|+|+++ .|.++| ..-..|.|||||++|.+++.|+
T Consensus 473 gLkqfIl~QG~Sk~v~~meWdkiWAfNKKvIDPVapRytav~~~~~V~v~i~~~~~~~~~~~~PkHkKn~~lG~K~v~~~ 552 (712)
T KOG1147|consen 473 GLKQFILAQGPSKNVVTMEWDKIWAFNKKVIDPVAPRYTAVVKEDRVEVTITNGPQEEYIEVSPKHKKNPELGEKKVIYS 552 (712)
T ss_pred HHHHHHHHhCCccceeeeehHhhhhhcccccCCCCccceeeccCceEEEecCCCCCcchhhccccCCCCcccCccceeec
Confidence 9999999999 679999999 145555 2335889999999999999999
Q ss_pred cEEEEecCccccccC-C--------------eeecCCCcE---EEEEEcCC-ccccCceEEEeeCCCc-----ceeecCC
Q 035795 104 KTIWMDLANAELISG-T--------------NFRNQDGNF---TGVVHLEG-YKTTVLKLTWLLEISK-----LVGFDYL 159 (164)
Q Consensus 104 ~~iyIe~~D~~~~~~-e--------------i~~~~~g~v---~~~~~~e~-~kk~k~~I~Wv~~~~~-----~~~yd~L 159 (164)
+.||||++|++.+++ | +.++++|.| .+.+++++ +|++|.+++|+++... +.+||||
T Consensus 553 ~~I~le~~Da~~l~~gEevTlmnWGN~~i~ki~kd~sg~vtsl~a~LnldgDfKkTk~KlTWLadt~~~vpv~lv~fd~l 632 (712)
T KOG1147|consen 553 KKILLEQADAEALKEGEEVTLMNWGNAIIKKINKDASGKVTSLSAKLNLDGDFKKTKLKLTWLADTNDSVPVDLVDFDHL 632 (712)
T ss_pred cceeEeccchhhhcCCcEEEEEeccceeeEEeeccCCceEEEEEEEeccCCccccccceeEEeccCCCccceEEeechhh
Confidence 999999999998877 3 334466777 68889998 9999999999998743 3999999
Q ss_pred CccCC
Q 035795 160 ITKKK 164 (164)
Q Consensus 160 ~~~~k 164 (164)
|+|++
T Consensus 633 ItK~~ 637 (712)
T KOG1147|consen 633 ITKDK 637 (712)
T ss_pred cchhh
Confidence 99874
No 6
>PLN02859 glutamine-tRNA ligase
Probab=100.00 E-value=1.5e-45 Score=346.09 Aligned_cols=164 Identities=15% Similarity=0.182 Sum_probs=139.2
Q ss_pred Cceeecccccccccchhhe--------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~pe 56 (164)
|||||||+||++|+++|+| |||||++||+ ++||++| |||||||||+|||||||+||
T Consensus 457 ITHvLRg~E~~~~~~~y~wl~~aLg~~~P~~~~f~rLn~~~t~LSKRkl~~lV~~g~V~GWDDPRl~Tl~glRrrG~~Pe 536 (788)
T PLN02859 457 ITHSLCTLEFETRRASYYWLLDSLGLYQPYVWEYSRLNVTNTVMSKRKLNRLVTEKYVDGWDDPRLLTLAGLRRRGVTPT 536 (788)
T ss_pred CceEeechhhhcCCHHHHHHHHHcCCCCCcEEeeeeECCCCCcccCcCchhccccCcccCCCCCcchhHHHHHHCCCCHH
Confidence 8999999999999999998 9999999998 7789877 99999999999999999999
Q ss_pred HHHHHHHHhc----ce-eeeeece--------------------eEEEEE--------EEEee---ccCCCCCCCceEEE
Q 035795 57 SLMQFILELY----LL-SLKWKTD--------------------FFIFTF--------SVRIK---LRHKTCKGVGVKAT 100 (164)
Q Consensus 57 aIr~F~~~iG----~~-~i~~~~l--------------------~v~v~i--------~~~~~---p~hP~~~~~G~R~v 100 (164)
||++||..+| ++ .|+|+.| |++|+| +.+++ |.||+++++|+|++
T Consensus 537 Ai~nFi~~lG~s~~~~e~i~~~~Le~~~r~~l~~~a~R~maV~dp~kv~i~n~~~~~~~~~~~~~~P~~p~~~~~g~r~v 616 (788)
T PLN02859 537 AINAFCRGIGITRSDNSLIRMDRLEHHIREELNKTAPRTMVVLHPLKVVITNLESGEVIELDAKRWPDAQNDDPSAFYKV 616 (788)
T ss_pred HHHHHHHHhCCCCCCCceecHHHHHhhCHHhhCCcCcchheecCCeEEEEecCCCCceeecccccCCCCCCCccCceEEE
Confidence 9999999999 55 7999988 688887 23445 66666788999999
Q ss_pred EeccEEEEecCccccccC-C----------------------ee-ecCCCcE---EEEEEcCCccccCceEEEeeCCC--
Q 035795 101 TYAKTIWMDLANAELISG-T----------------------NF-RNQDGNF---TGVVHLEGYKTTVLKLTWLLEIS-- 151 (164)
Q Consensus 101 ~~~~~iyIe~~D~~~~~~-e----------------------i~-~~~~g~v---~~~~~~e~~kk~k~~I~Wv~~~~-- 151 (164)
+|+++||||++||++.++ + ++ ++++|.| .|.++++...|+|++|||||+.+
T Consensus 617 ~f~~~iyIe~~D~~~~~~~~~~rL~pg~~V~L~~~~~i~~~~~~~~d~~g~v~el~~~~d~~~~~K~k~~ihWvs~~~~~ 696 (788)
T PLN02859 617 PFSRVVYIERSDFRLKDSKDYYGLAPGKSVLLRYAFPIKCTDVVLADDNETVVEIRAEYDPEKKTKPKGVLHWVAEPSPG 696 (788)
T ss_pred EECCeEEEEhHHhhccccccceecCCCCEEEEcceeEEEEEEEEEeCCCCCEEEEEEEEccCCCCccCceEEeeecCCCC
Confidence 999999999999986433 1 33 5677887 46667766567889999999641
Q ss_pred ------cceeecCCCccCC
Q 035795 152 ------KLVGFDYLITKKK 164 (164)
Q Consensus 152 ------~~~~yd~L~~~~k 164 (164)
++|+||+||++++
T Consensus 697 ~~~~~~e~r~yd~Lf~~~~ 715 (788)
T PLN02859 697 VEPLKVEVRLFDKLFLSEN 715 (788)
T ss_pred CCceeEEEEeehhhcCCCC
Confidence 2599999999864
No 7
>PLN02907 glutamate-tRNA ligase
Probab=100.00 E-value=2.5e-45 Score=344.31 Aligned_cols=164 Identities=52% Similarity=0.805 Sum_probs=144.0
Q ss_pred Cceeecccccccccchhhe--------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~pe 56 (164)
|||+|||.||.+|+++|.| |||||++|++ ++||++| ||||||||++|||||||+||
T Consensus 406 IThvlRg~e~~~~t~~q~~l~~~lg~~~p~~~~f~~l~~~~~~lSKR~l~~~v~~g~v~Gwddpr~pt~~~~rrrG~~~e 485 (722)
T PLN02907 406 VTHALRSSEYHDRNAQYYRILEDMGLRKVHIWEFSRLNFVYTLLSKRKLQWFVDNGKVEGWDDPRFPTVQGIVRRGLKIE 485 (722)
T ss_pred CceEeecHhhhhChHHHHHHHHHcCCCCCeeEEEEEEcCCCccccccchHhHhhcCcccCCCCCCcccHHHHHHcCCCHH
Confidence 8999999999999999998 9999999998 7889987 99999999999999999999
Q ss_pred HHHHHHHHhc----ceeeeeece--------------------e--EEEEE-------EEEeeccCCCCCCCceEEEEec
Q 035795 57 SLMQFILELY----LLSLKWKTD--------------------F--FIFTF-------SVRIKLRHKTCKGVGVKATTYA 103 (164)
Q Consensus 57 aIr~F~~~iG----~~~i~~~~l--------------------~--v~v~i-------~~~~~p~hP~~~~~G~R~v~~~ 103 (164)
||++||..+| ++.++|++| | |+|+| +.+++|+||+|+++|+|+++|+
T Consensus 486 ai~~f~~~~g~s~~~~~~~~~~l~~~nr~~id~~a~R~~~v~~p~~v~~~i~~~~~~~~~~~~p~hp~~~~~g~r~~~~~ 565 (722)
T PLN02907 486 ALKQFILSQGASKNLNLMEWDKLWTINKKIIDPVCPRHTAVLKEGRVLLTLTDGPETPFVRIIPRHKKYEGAGKKATTFT 565 (722)
T ss_pred HHHHHHHHhCCCcCCccccHHHHHHHHHHHhccCCCceeEEecCCEEEEEEcCCCCCceeeeccCCCCCCccceEEEEEC
Confidence 9999999999 789999999 4 67777 3568999999999999999999
Q ss_pred cEEEEecCccccccC-C--------------eeecCCCcE---EEEEEcCC-ccccCceEEEeeCCC-----cceeecCC
Q 035795 104 KTIWMDLANAELISG-T--------------NFRNQDGNF---TGVVHLEG-YKTTVLKLTWLLEIS-----KLVGFDYL 159 (164)
Q Consensus 104 ~~iyIe~~D~~~~~~-e--------------i~~~~~g~v---~~~~~~e~-~kk~k~~I~Wv~~~~-----~~~~yd~L 159 (164)
++||||++||+.+.+ + +.++++|.| .+++++++ +||+|++|||||+.. ++++||+|
T Consensus 566 ~~i~i~~~D~~~l~~g~~v~L~~~~~~~i~~~~~~~~g~v~~~~~~~~~~~~~~k~k~~i~Wv~~~~~~~~~~~~~~d~l 645 (722)
T PLN02907 566 NRIWLDYADAEAISEGEEVTLMDWGNAIIKEITKDEGGAVTALSGELHLEGSVKTTKLKLTWLPDTNELVPLSLVEFDYL 645 (722)
T ss_pred CcEEEEcchHhhcCCCCEEEEcccCCEEEEEEEECCCCcEEEEEEEEccccCCCcCCCeEEEecCCCCceEEEEEccccc
Confidence 999999999987655 2 344566776 46666665 788999999999652 25999999
Q ss_pred CccCC
Q 035795 160 ITKKK 164 (164)
Q Consensus 160 ~~~~k 164 (164)
|++++
T Consensus 646 ~~~~~ 650 (722)
T PLN02907 646 ITKKK 650 (722)
T ss_pred cccCC
Confidence 99874
No 8
>KOG1148 consensus Glutaminyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.5e-46 Score=339.83 Aligned_cols=163 Identities=16% Similarity=0.259 Sum_probs=141.8
Q ss_pred Cceeecccccccccchhhe--------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~pe 56 (164)
|||||||+||+.||.+|+| |||||++||| .+||.+| ||||||.||.||||||++||
T Consensus 442 ITHSlCT~EF~~rR~SY~WLcnaL~iY~P~qwEYgRLNv~~tv~SKRKi~~Lv~~~~V~~wDDPRLfTL~alRRRG~ppe 521 (764)
T KOG1148|consen 442 ITHSLCTKEFQTRRSSYYWLCNALEIYCPVQWEYGRLNVTYTVVSKRKILKLVTEGYVRGWDDPRLFTLTALRRRGFPPE 521 (764)
T ss_pred hhhHHHHHHHHHhhhhHHHHHhhhhcccchhhhhceeeeeeeeeehHHHHHHhhhcccccCCCccchhhhhHHhcCCCHH
Confidence 7999999999999999999 9999999998 6778877 99999999999999999999
Q ss_pred HHHHHHHHhc----ceeeeeece--------------------eEEEEE--------EEEeeccCCCCCCCceEEEEecc
Q 035795 57 SLMQFILELY----LLSLKWKTD--------------------FFIFTF--------SVRIKLRHKTCKGVGVKATTYAK 104 (164)
Q Consensus 57 aIr~F~~~iG----~~~i~~~~l--------------------~v~v~i--------~~~~~p~hP~~~~~G~R~v~~~~ 104 (164)
||++||.++| +++|+...| |++|+| +.+++|..|++|..|+|+++|++
T Consensus 522 AIn~F~~~lGvT~a~~~i~v~~lE~~VRd~Ln~tapR~M~VleplkVti~N~~~~~~~~i~iPd~P~dp~~g~~~Vpft~ 601 (764)
T KOG1148|consen 522 AINNFCASLGVTTAQTTIDVARLEAAVRDYLNDTAPRLMFVLEPLKVTIENLSDDYPESIEIPDFPGDPTSGFHKVPFTR 601 (764)
T ss_pred HHHHHHHHhCcceeeceecHHHHHHHHHHHHhccCcceEEeecceEEEEecCCcchhhhccCCCCCCCCccccccccccc
Confidence 9999999999 556777777 789999 46789999999999999999999
Q ss_pred EEEEecCccccccC-C-----------------------eeecCCCcE---EEEEEc-CCccccCceEEEeeCCC---cc
Q 035795 105 TIWMDLANAELISG-T-----------------------NFRNQDGNF---TGVVHL-EGYKTTVLKLTWLLEIS---KL 153 (164)
Q Consensus 105 ~iyIe~~D~~~~~~-e-----------------------i~~~~~g~v---~~~~~~-e~~kk~k~~I~Wv~~~~---~~ 153 (164)
.||||++||++.++ + +++++.|.| .+++.. +..+|+|+.|||||+.+ ++
T Consensus 602 vIYIErSDFkee~dK~f~RLtpgQpVGLr~~~~vi~~~~vvkD~~g~v~ei~v~yd~~s~~~KPK~fIhWVse~Pv~vEv 681 (764)
T KOG1148|consen 602 VIYIERSDFKEEDDKDFFRLTPGQPVGLRYAGYVIRVVKVVKDDEGTVIEIHVEYDPASKKKKPKAFIHWVSESPVKVEV 681 (764)
T ss_pred eEEEEcccccccCCcchhccCCCCcceeEeecceEEEEEEeeCCCCceEEEEEEecccccccCCceeEEeccCCCeEeeh
Confidence 99999999997654 2 456667776 345553 33678999999999755 46
Q ss_pred eeecCCCccC
Q 035795 154 VGFDYLITKK 163 (164)
Q Consensus 154 ~~yd~L~~~~ 163 (164)
|+|++||+.+
T Consensus 682 Rlye~LFks~ 691 (764)
T KOG1148|consen 682 RLYEQLFKSE 691 (764)
T ss_pred hHHHHHhccC
Confidence 9999999864
No 9
>TIGR00440 glnS glutaminyl-tRNA synthetase. This protein is a relatively rare aminoacyl-tRNA synthetase, found in the cytosolic compartment of eukaryotes, in E. coli and a number of other Gram-negative Bacteria, and in Deinococcus radiodurans. In contrast, the pathway to Gln-tRNA in mitochondria, Archaea, Gram-positive Bacteria, and a number of other lineages is by misacylation with Glu followed by transamidation to correct the aminoacylation to Gln. This enzyme is a class I tRNA synthetase (hit by the pfam model tRNA-synt_1c) and is quite closely related to glutamyl-tRNA synthetases.
Probab=100.00 E-value=2.1e-45 Score=334.27 Aligned_cols=164 Identities=14% Similarity=0.165 Sum_probs=140.4
Q ss_pred Cceeecccccccccchhhe---------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCH
Q 035795 1 MSFSLRSSEYNARNAQYHM---------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKI 55 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w---------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~p 55 (164)
|||+|||+||.+|+++|+| |||||++|++ ++||++| |||||||||+|||||||+|
T Consensus 198 ITHviRg~E~~~nt~~Y~~~~~~l~~~~~P~~~~F~rln~~~~kLSKRk~~~~V~~g~v~GWdDPRl~Ti~~lrrrG~~P 277 (522)
T TIGR00440 198 ITHSLCTLEFQDNRRLYDWVLDNIHIFPRPAQYEFSRLNLEGTVLSKRKLAQLVDDKFVRGWDDPRMPTISGLRRRGYTP 277 (522)
T ss_pred CceEeecHhhhhcHHHHHHHHHhcCccCCCceEEEEEECCCCCCcccccchhccccCcccCCCCCccccHHHHHHCCCCH
Confidence 8999999999999999998 8999999998 7789887 9999999999999999999
Q ss_pred HHHHHHHHHhc----ceeeeeece--------------------eEEEEE-------EEEeeccCCCCCCCceEEEEecc
Q 035795 56 ESLMQFILELY----LLSLKWKTD--------------------FFIFTF-------SVRIKLRHKTCKGVGVKATTYAK 104 (164)
Q Consensus 56 eaIr~F~~~iG----~~~i~~~~l--------------------~v~v~i-------~~~~~p~hP~~~~~G~R~v~~~~ 104 (164)
|||++||.++| +++++|.+| |++|+| +.+++|+||+++++|+|+++|++
T Consensus 278 eAi~nfl~~lG~s~~~~~~e~~~l~~~~r~f~~~~~~r~~av~d~~kl~i~~~~~~~~~~~~p~~p~~~~~g~r~v~~~~ 357 (522)
T TIGR00440 278 ASIREFCNRIGVTKQDNNIEVVRLESCIREDLNENAPRAMAVIDPVEVVIENLSDEYELATIPNHPNTPEFGERQVPFTN 357 (522)
T ss_pred HHHHHHHHHhCCCCCCCceehhhHHHHHHHhhhhcCcccccccccceEEEecCCCCceEEeccCCCCChhHeeEEEEecc
Confidence 99999999999 457899888 578877 26689999999999999999999
Q ss_pred EEEEecCccccccC---------C--------------eeecCCCcE---EEEEEcC-------CccccCceEEEeeCCC
Q 035795 105 TIWMDLANAELISG---------T--------------NFRNQDGNF---TGVVHLE-------GYKTTVLKLTWLLEIS 151 (164)
Q Consensus 105 ~iyIe~~D~~~~~~---------e--------------i~~~~~g~v---~~~~~~e-------~~kk~k~~I~Wv~~~~ 151 (164)
+||||++||++.++ + +.++++|.| .|.++++ ..+|+|++|||||+..
T Consensus 358 ~i~Ie~~D~~~~~~~~f~~l~~g~~vrL~~~~~i~~~~~~~d~~G~v~~~~~~~~~~~~~~~~~~~kk~k~~IhWv~~~~ 437 (522)
T TIGR00440 358 EFYIDRADFREEANKQYKRLVLGKEVRLRNAYVIKAERVEKDAAGKITTIFCTYDNKTLGKEPADGRKVKGVIHWVSASS 437 (522)
T ss_pred eeEEEHHHhhccccccccccCCCCEEEeCCEEEEEEEEEEecCCCCEEEEEEEEccccccCCccccccCCcEEEeeecCC
Confidence 99999999985322 1 334566877 3566653 2578888999999654
Q ss_pred c----ceeecCCCccCC
Q 035795 152 K----LVGFDYLITKKK 164 (164)
Q Consensus 152 ~----~~~yd~L~~~~k 164 (164)
. +|+||+||++++
T Consensus 438 ~~~~evr~yd~Lf~~~~ 454 (522)
T TIGR00440 438 KYPTETRLYDRLFKVPN 454 (522)
T ss_pred CeeEEEEecccccCCCC
Confidence 3 599999999874
No 10
>PTZ00402 glutamyl-tRNA synthetase; Provisional
Probab=100.00 E-value=3.1e-45 Score=336.82 Aligned_cols=164 Identities=33% Similarity=0.493 Sum_probs=140.7
Q ss_pred Cceeecccccccccchhhe--------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~pe 56 (164)
|||+|||.||.+++++|.| |+|||++|++ .++|++| |||||||||+|||||||+||
T Consensus 246 ITHvlRg~E~l~~tp~q~~L~~aLg~~~P~~~h~~rLn~~g~kLSKRkl~~lv~~g~v~GWdDprlpTi~glrRrG~~pe 325 (601)
T PTZ00402 246 VTHALRTNEYHDRNDQYYWFCDALGIRKPIVEDFSRLNMEYSVMSKRKLTQLVDTHVVDGWDDPRFPTVRALVRRGLKME 325 (601)
T ss_pred CceEeechhhhhCcHHHHHHHHHhCCCCceEEEEeeEcCCCCcccccCChhhhhcCcccccCCCccHhHHHHHHcCCCHH
Confidence 8999999999999999998 9999999998 8889877 99999999999999999999
Q ss_pred HHHHHHHHhc----ceeeeeece--------------------eEEEEE--------EEEeeccCCCCCCCceEEEEecc
Q 035795 57 SLMQFILELY----LLSLKWKTD--------------------FFIFTF--------SVRIKLRHKTCKGVGVKATTYAK 104 (164)
Q Consensus 57 aIr~F~~~iG----~~~i~~~~l--------------------~v~v~i--------~~~~~p~hP~~~~~G~R~v~~~~ 104 (164)
||++||..+| ++.++|++| |++|+| +.+++|+||++|++|+|+++|++
T Consensus 326 ai~~f~~~~Gvsk~~~~~d~~~L~~~nr~~l~~~a~R~maV~~p~kv~i~~~~~~~~~~~~~p~hP~~~~~G~r~i~~~~ 405 (601)
T PTZ00402 326 ALRQFVQEQGMSKTVNFMEWSKLWYFNTQILDPSVPRYTVVSNTLKVRCTVEGQIHLEACEKLLHKKVPDMGEKTYYKSD 405 (601)
T ss_pred HHHHHHHHhCCCCCCcccCHHHHHHHHHHHHhhcCCceEEEcCCCEEEEEECCCCcceEeeccCCCCCcccCceEEEECC
Confidence 9999999999 789999999 677655 46789999999999999999999
Q ss_pred EEEEecCccccccC-C-----------eee----cCCCcE-E--EEEEcCC-ccccCceEEEeeCC-Cc----ceeecCC
Q 035795 105 TIWMDLANAELISG-T-----------NFR----NQDGNF-T--GVVHLEG-YKTTVLKLTWLLEI-SK----LVGFDYL 159 (164)
Q Consensus 105 ~iyIe~~D~~~~~~-e-----------i~~----~~~g~v-~--~~~~~e~-~kk~k~~I~Wv~~~-~~----~~~yd~L 159 (164)
+||||++||+.+.+ + |++ +++|.| + +.+++++ ++|+|++|||||+. .. +|+||+|
T Consensus 406 ~iyIe~~D~~~l~~g~~vrL~~~gn~~i~~~~~~~~~g~v~~~~~~~~~~~~~kk~k~~IhWv~~~~~~~~~~~r~yd~L 485 (601)
T PTZ00402 406 VIFLDAEDVALLKEGDEVTLMDWGNAYIKNIRRSGEDALITDADIVLHLEGDVKKTKFKLTWVPESPKAEVMELNEYDHL 485 (601)
T ss_pred eEEEEhhhHhhcCCCCEEEEeccCCEEEEEEEeeCCCCcEEEEEEEECCCCCCCcCCCeEEEecCCCCcceEEEEecccc
Confidence 99999999987655 2 111 245766 3 3444444 78888999999975 22 5999999
Q ss_pred CccCC
Q 035795 160 ITKKK 164 (164)
Q Consensus 160 ~~~~k 164 (164)
|++++
T Consensus 486 f~~~~ 490 (601)
T PTZ00402 486 LTKKK 490 (601)
T ss_pred cCCCC
Confidence 99864
No 11
>TIGR00463 gltX_arch glutamyl-tRNA synthetase, archaeal and eukaryotic family. The glutamyl-tRNA synthetases of the eukaryotic cytosol and of the Archaea are more similar to glutaminyl-tRNA synthetases than to bacterial glutamyl-tRNA synthetases. This alignment models just the eukaryotic cytosolic and archaeal forms of the enzyme. In some eukaryotes, the glutamyl-tRNA synthetase is part of a longer, multifunctional aminoacyl-tRNA ligase. In many species, the charging of tRNA(gln) proceeds first through misacylation with Glu and then transamidation. For this reason, glutamyl-tRNA synthetases may act on both tRNA(gln) and tRNA(glu).
Probab=100.00 E-value=8.3e-39 Score=293.14 Aligned_cols=163 Identities=28% Similarity=0.392 Sum_probs=128.7
Q ss_pred Cceeeccccccc--ccchhhe------------eeeecccc--hh------HHHHH---CCCCCchhhhHHHhHhcCCCH
Q 035795 1 MSFSLRSSEYNA--RNAQYHM------------FNWLKIVY--MP------LWFVH---NGLDNPLFLALQRIIRRRLKI 55 (164)
Q Consensus 1 ITHslrt~E~~~--~~~~y~w------------f~RLnl~~--tv------~~lV~---~gWDDPRlpTi~glrRRG~~p 55 (164)
|||+|||.||.+ ++++|.| |+++++++ ++ +.+++ +||||||||||+|||||||+|
T Consensus 286 ITHviRg~E~~~nT~rq~yl~~~lg~~~P~~~h~~~l~~~~~~kLskk~k~~~l~~g~~~gWdDPr~~ti~~lrrrG~~p 365 (560)
T TIGR00463 286 VTHVLRGKDHIDNERKQQYIYMYFGWELPEFIHWGRLKINDVRTLSTSSKLKGIVRGDYSGWDDPRLPTLRAVRRRGITP 365 (560)
T ss_pred CCeEEechhhhcCCHHHHHHHHHcCCCCCeEEEEcceecCCCcEecchhhhhhhhccCccCcCCccHHHHHHHHHCCCCH
Confidence 899999999999 5667777 55555554 55 33444 249999999999999999999
Q ss_pred HHHHHHHHHhc----ceeeeeece--------------------eEEEEE------EEEeeccCCCCCCCceEEEEeccE
Q 035795 56 ESLMQFILELY----LLSLKWKTD--------------------FFIFTF------SVRIKLRHKTCKGVGVKATTYAKT 105 (164)
Q Consensus 56 eaIr~F~~~iG----~~~i~~~~l--------------------~v~v~i------~~~~~p~hP~~~~~G~R~v~~~~~ 105 (164)
|||++||.++| +++|+|++| |++|+| .++++|+||++|++|+|+++|+++
T Consensus 366 eAi~~f~~~~G~s~~~~~i~~~~l~~~nr~~id~~a~R~~~V~~p~~v~i~~~~~~~~~~~p~hp~~~~~G~r~v~~~~~ 445 (560)
T TIGR00463 366 EAIRNFMLSIGVKRNDVNLSWKNIYAFNKKIIDPIARRYFFIWNPVKIEIEGAPEPKIVERPLHPDNPEVGERKLIYYGE 445 (560)
T ss_pred HHHHHHHHHhCCCCCCceeeHHHHHHHHHHHhCcCCCceEEEcCCcEEEEecCCCCeeEEccCCCCCCCCceEEEEECCe
Confidence 99999999999 889999999 678888 356899999999999999999999
Q ss_pred EEEecCccccccCCeeecCC-CcE-----------EEEEEcCC-ccccCceEEEeeCCC----cceeecCCCccC
Q 035795 106 IWMDLANAELISGTNFRNQD-GNF-----------TGVVHLEG-YKTTVLKLTWLLEIS----KLVGFDYLITKK 163 (164)
Q Consensus 106 iyIe~~D~~~~~~ei~~~~~-g~v-----------~~~~~~e~-~kk~k~~I~Wv~~~~----~~~~yd~L~~~~ 163 (164)
||||++||+..+.+.+++-+ |++ .+..++++ .++++++|||||+.. +++.||+|+++.
T Consensus 446 i~i~~~D~~~~~g~~vrL~~~~ni~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Wv~~~~~v~~~~~~~d~l~~~~ 520 (560)
T TIGR00463 446 IYVDKDDLEVIEGEEVRLMDWGNVIITKKNDDGSMYHSLNLEGARKKGKHIIHWLPDKDAVKVKVIMPDHLITEG 520 (560)
T ss_pred EEEEHHHHhhCCCCEEEEeecccEEEEEEeCCCcEEeccccccccccCCCEEEECcCCCceEEEEEcCccccccC
Confidence 99999999865434333311 332 23344555 566778899999754 359999998754
No 12
>PRK04156 gltX glutamyl-tRNA synthetase; Provisional
Probab=100.00 E-value=1.3e-37 Score=285.57 Aligned_cols=150 Identities=17% Similarity=0.203 Sum_probs=128.4
Q ss_pred Cceeecccccccccchhhe--------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~pe 56 (164)
|||+|||.||.+|+++|.| |+|||++|++ +++|++| |||||||||+|||||||+||
T Consensus 296 ITHViRg~d~~~~t~~Q~~l~~~Lg~~~P~~~H~~~L~~~g~kLSKR~~~~~i~~g~~~gWDDpr~~Tl~~lrrrG~~Pe 375 (567)
T PRK04156 296 VTHVLRGKDHIDNTEKQRYIYDYFGWEYPETIHYGRLKIEGFVLSTSKIRKGIEEGEYSGWDDPRLPTLRALRRRGILPE 375 (567)
T ss_pred CCeEEcccccccChHHHHHHHHHcCCCCceEEEcceecCCCceeecccchhccccCccccccCCchHHHHHHHHcCCCHH
Confidence 8999999999999999997 9999999997 6778876 99999999999999999999
Q ss_pred HHHHHHHHhc----ceeeeeece--------------------eEEEEE-----EEEeeccCCCCCCCceEEEEeccEEE
Q 035795 57 SLMQFILELY----LLSLKWKTD--------------------FFIFTF-----SVRIKLRHKTCKGVGVKATTYAKTIW 107 (164)
Q Consensus 57 aIr~F~~~iG----~~~i~~~~l--------------------~v~v~i-----~~~~~p~hP~~~~~G~R~v~~~~~iy 107 (164)
||++||.++| +++++|++| ||+|+| .++++|+||+++++|+|+++|+++||
T Consensus 376 Ai~~fl~~lG~s~~~~~~~~~~L~~~nr~~ld~~a~R~~~V~~pv~v~i~~~~~~~~~~p~hP~~~~~G~r~v~~~~~i~ 455 (567)
T PRK04156 376 AIRELIIEVGVKETDATISWENLYAINRKLIDPIANRYFFVRDPVELEIEGAEPLEAKIPLHPDRPERGEREIPVGGKVY 455 (567)
T ss_pred HHHHHHHHhCCCCCCcccCHHHHHHHHHHHHhccCCceEEECCceEEEEcCCCceEEEcCCCCCCCCCceEEEEECCeEE
Confidence 9999999999 779999999 788988 57899999999999999999999999
Q ss_pred EecCccccccCCeeecCC-CcE--------EEEEEcC---CccccC-ceEEEeeCCC
Q 035795 108 MDLANAELISGTNFRNQD-GNF--------TGVVHLE---GYKTTV-LKLTWLLEIS 151 (164)
Q Consensus 108 Ie~~D~~~~~~ei~~~~~-g~v--------~~~~~~e---~~kk~k-~~I~Wv~~~~ 151 (164)
||++||+++ .+.+|+.+ |+| .++++.+ .++++| ++|||||+..
T Consensus 456 i~~~D~~~~-g~~vrL~~~~nv~~~~~~~~~~~~~~~~~~~~~k~~~~~i~Wv~~~~ 511 (567)
T PRK04156 456 VSSDDLEAE-GKMVRLMDLFNVEITGVSVDKARYHSDDLEEARKNKAPIIQWVPEDE 511 (567)
T ss_pred EEHHHHhhc-CCEEEeeeEEEEEEEEEEEEEEEEcCCccccccccCCCEEEEccCCC
Confidence 999999865 33445422 333 3455533 367777 4799999754
No 13
>PF03950 tRNA-synt_1c_C: tRNA synthetases class I (E and Q), anti-codon binding domain; InterPro: IPR020059 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Glutamyl-tRNA synthetase (6.1.1.17 from EC) is a class Ic synthetase and shows several similarities with glutaminyl-tRNA synthetase concerning structure and catalytic properties. It is an alpha2 dimer. To date one crystal structure of a glutamyl-tRNA synthetase (Thermus thermophilus) has been solved. The molecule has the form of a bent cylinder and consists of four domains. The N-terminal half (domains 1 and 2) contains the 'Rossman fold' typical for class I synthetases and resembles the corresponding part of Escherichia coli GlnRS, whereas the C-terminal half exhibits a GluRS-specific structure []. ; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 2HZ7_A 3AII_A 1ZJW_A 1GTS_A 2RD2_A 1QRU_A 1O0B_A 1NYL_A 1EUQ_A 2RE8_A ....
Probab=99.80 E-value=2.5e-19 Score=143.21 Aligned_cols=89 Identities=15% Similarity=0.185 Sum_probs=64.0
Q ss_pred eEEEEE--------EEEeeccCCCCCCCceEEEEeccEEEEecCccccccC-C--------------eeecCCCcE---E
Q 035795 76 FFIFTF--------SVRIKLRHKTCKGVGVKATTYAKTIWMDLANAELISG-T--------------NFRNQDGNF---T 129 (164)
Q Consensus 76 ~v~v~i--------~~~~~p~hP~~~~~G~R~v~~~~~iyIe~~D~~~~~~-e--------------i~~~~~g~v---~ 129 (164)
||+|+| .++++|+||+++++|+|++.|+++||||++||..+.+ + +.++.+|.+ .
T Consensus 10 Pv~v~I~n~~~~~~~~~~~p~hPk~~~~G~r~v~~~~~i~Ie~~D~~~l~~g~~v~L~~~~ni~i~~~~~~~~g~v~~l~ 89 (174)
T PF03950_consen 10 PVKVKITNFPEDEPEEIEVPLHPKNPELGTREVPFSKTIYIERSDFFRLAPGKEVRLMYWGNIKITSIEKDEDGKVTELK 89 (174)
T ss_dssp EEEEEECT--SSSEEEEEEESSTT-GGG-EEEEEECSEEEEEGGG--SEETTCEEEETTTEEEEEEEEEE-TTSSEEEEE
T ss_pred CEEEEEEcCCCCCEEEEEecCCCCCccCceEEEEECceEEEEhhHhhhccCCCEEEEeccceEEEEEeeecCCCCEEEEE
Confidence 788888 5889999999999999999999999999999987765 2 345566776 4
Q ss_pred EEEEcCC---ccccCceEEEeeCCCc----ceeecCCCccCC
Q 035795 130 GVVHLEG---YKTTVLKLTWLLEISK----LVGFDYLITKKK 164 (164)
Q Consensus 130 ~~~~~e~---~kk~k~~I~Wv~~~~~----~~~yd~L~~~~k 164 (164)
++++.++ ++|++++|||||+... +|+||+||++++
T Consensus 90 ~~~~~~~~~~~~k~k~~I~Wv~~~~~v~~e~r~yd~Lf~~~~ 131 (174)
T PF03950_consen 90 ARYDPEDKEGAKKPKAIIHWVSAKDSVPVEVRLYDHLFTVDN 131 (174)
T ss_dssp EEEECTTHHHHHHHT-EE-EEEGCC-EEEEEEEE--SBSSS-
T ss_pred EEEecccccCCcccCcEEEEccCCCCeeeEEEEehhhcCCCc
Confidence 7777655 3677889999997543 599999999864
No 14
>cd00807 GlnRS_core catalytic core domain of glutaminyl-tRNA synthetase. Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Gln to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. GlnRS contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme.
Probab=99.73 E-value=2e-18 Score=144.55 Aligned_cols=75 Identities=29% Similarity=0.503 Sum_probs=70.0
Q ss_pred Cceeecccccccccchhhe--------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~pe 56 (164)
|||++||.||.+++++|.| |++||.+|+. .++|++| |||||++|+++||++|++||
T Consensus 122 IThVvRG~D~l~~t~~Q~~l~~aLg~~~P~~~~~~hln~~g~kLSKR~~~~~i~~g~~~~wddpr~~~~~~l~~~G~~pe 201 (238)
T cd00807 122 ITHSLCTLEFEDRRPSYYWLCDALRLYRPHQWEFSRLNLTYTVMSKRKLLQLVDEGYVDGWDDPRLPTLRGLRRRGVTPE 201 (238)
T ss_pred CCeEEechhhhcCCHHHHHHHHHcCCCCCceeEEEEECCCCCCccCcCchhccccCCcccccCcchHHHHHHHHcCCCHH
Confidence 8999999999999999987 9999999986 5667775 99999999999999999999
Q ss_pred HHHHHHHHhc----ceeeeeece
Q 035795 57 SLMQFILELY----LLSLKWKTD 75 (164)
Q Consensus 57 aIr~F~~~iG----~~~i~~~~l 75 (164)
||++||..+| ++.++|++|
T Consensus 202 al~~~l~~lG~s~~~~~~~~~~l 224 (238)
T cd00807 202 AIRQFILRQGVSKADSTIDWDKL 224 (238)
T ss_pred HHHHHHHHhCCCCCCcccCHHHH
Confidence 9999999999 788999987
No 15
>cd09287 GluRS_non_core catalytic core domain of non-discriminating glutamyl-tRNA synthetase. Non-discriminating Glutamyl-tRNA synthetase (GluRS) cataytic core domain. These enzymes attach Glu to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme.
Probab=99.67 E-value=2e-17 Score=138.77 Aligned_cols=75 Identities=21% Similarity=0.334 Sum_probs=68.6
Q ss_pred Cceeecccccccccchhhe--------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~pe 56 (164)
|||++||.||.+++++|.| +++|+.+++. +++|++| |||||++|+++||++|++||
T Consensus 124 IThViRg~d~~~~t~~q~~l~~~Lg~~~P~~~H~pll~~~~~kLSKR~~~~~i~~~~~~~w~dp~~~~~~~lr~~G~~p~ 203 (240)
T cd09287 124 VTHVLRGKDHIDNTEKQRYIYEYFGWEYPETIHWGRLKIEGGKLSTSKIRKGIESGEYEGWDDPRLPTLRALRRRGIRPE 203 (240)
T ss_pred CCeEEechhhhhCCHHHHHHHHHcCCCCCcEEeeeeecCCCCeeccccccccccccccccccCcchHHHHHHHHCCCCHH
Confidence 8999999999999999987 8899988876 4577776 99999999999999999999
Q ss_pred HHHHHHHHhc----ceeeeeece
Q 035795 57 SLMQFILELY----LLSLKWKTD 75 (164)
Q Consensus 57 aIr~F~~~iG----~~~i~~~~l 75 (164)
||++|+..+| ++.++|++|
T Consensus 204 ai~~~~~~lG~s~~~~~~~~~~l 226 (240)
T cd09287 204 AIRDFIIEVGVKQTDATISWENL 226 (240)
T ss_pred HHHHHHHHhCCCCCCCccCHHHH
Confidence 9999999999 678999887
No 16
>COG0008 GlnS Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=99.52 E-value=5.7e-16 Score=140.52 Aligned_cols=113 Identities=14% Similarity=0.041 Sum_probs=89.0
Q ss_pred Cceeecccccccccchhhe--------------eeeecccch--h----------HHHHHCCCCCchhhhHHHhHhcCCC
Q 035795 1 MSFSLRSSEYNARNAQYHM--------------FNWLKIVYM--P----------LWFVHNGLDNPLFLALQRIIRRRLK 54 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w--------------f~RLnl~~t--v----------~~lV~~gWDDPRlpTi~glrRRG~~ 54 (164)
|||+|||.||.+|+++|.| |++|+. ++ . .++-+.||+||||+|+.||+|||++
T Consensus 207 ITHviRG~d~~~nt~~q~~l~~~lg~~~P~~~H~~li~~-~~g~kLSKr~~~~~~~~~~~~G~~~~al~~~~allg~~~~ 285 (472)
T COG0008 207 ITHVLRGEDHLDNTPRQIWLYEALGWPPPVYAHLPLLLN-EDGKKLSKRKGAVSIGEYRVEGWLPPALPNLLALLGRGYP 285 (472)
T ss_pred CceEEechhhccCCHHHHHHHHHcCCCCCcEEEeeeeec-CCCCeecCccCccccchhhhcCCCcHHHHHHHHHhcCCCC
Confidence 8999999999999999997 899888 44 2 3334578999999999999999999
Q ss_pred HHHHHHHHHHhc----ceeeeeece-------------------eEEEEE---------EEEeeccCCCCCCCceEEEEe
Q 035795 55 IESLMQFILELY----LLSLKWKTD-------------------FFIFTF---------SVRIKLRHKTCKGVGVKATTY 102 (164)
Q Consensus 55 peaIr~F~~~iG----~~~i~~~~l-------------------~v~v~i---------~~~~~p~hP~~~~~G~R~v~~ 102 (164)
|+++..|+.++| +.++.|+.+ |+++.+ ....+|+ ++++|.|.+++
T Consensus 286 ~~~~e~f~~~~~~~~fd~~~~~~~~~~fd~~kL~~~n~ry~~~~p~e~~~~~l~~~~~~~~~~~~~---~~e~~~~~~~l 362 (472)
T COG0008 286 PEAIEIFSLEEGIKWFDLTIVSKSPAAFDRKKLDWLNPRYMRVDPVEVVIENLKPHLEEEGATLPL---NPEMGERVVPL 362 (472)
T ss_pred hhhHHHHHHHHHHhhhhhhhhhcccccccHHHhHhhhHHHHHhCCHHHHHHhhhhhhhhhcccCCC---CHHHHhhhhhh
Confidence 999999999999 444444443 332222 1233444 67999999999
Q ss_pred cc--EEEEecCcccccc
Q 035795 103 AK--TIWMDLANAELIS 117 (164)
Q Consensus 103 ~~--~iyIe~~D~~~~~ 117 (164)
.+ .+||++.|+....
T Consensus 363 ~~~~~~~i~~~~~~~~~ 379 (472)
T COG0008 363 TKETLIEIERLDFFFFE 379 (472)
T ss_pred ccchHHHHhHHHHHHhc
Confidence 99 8999999987654
No 17
>PF00749 tRNA-synt_1c: tRNA synthetases class I (E and Q), catalytic domain; InterPro: IPR020058 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Glutamyl-tRNA synthetase (6.1.1.17 from EC) is a class Ic synthetase and shows several similarities with glutaminyl-tRNA synthetase concerning structure and catalytic properties. It is an alpha2 dimer. To date one crystal structure of a glutamyl-tRNA synthetase (Thermus thermophilus) has been solved. The molecule has the form of a bent cylinder and consists of four domains. The N-terminal half (domains 1 and 2) contains the 'Rossman fold' typical for class I synthetases and resembles the corresponding part of Escherichia coli GlnRS, whereas the C-terminal half exhibits a GluRS-specific structure []. ; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0016876 ligase activity, forming aminoacyl-tRNA and related compounds, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 2HZ7_A 2CFO_A 4A91_A 1NZJ_A 1N78_A 1G59_C 2CV2_A 2CV1_A 2CV0_B 1GLN_A ....
Probab=98.93 E-value=2.1e-10 Score=99.28 Aligned_cols=66 Identities=12% Similarity=0.035 Sum_probs=56.3
Q ss_pred Cceeecccccccccchhhe---------------eeeecccchh------HHHHHCC----CCCchhhhHHHhHhcCCCH
Q 035795 1 MSFSLRSSEYNARNAQYHM---------------FNWLKIVYMP------LWFVHNG----LDNPLFLALQRIIRRRLKI 55 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w---------------f~RLnl~~tv------~~lV~~g----WDDPRlpTi~glrRRG~~p 55 (164)
|||++||.||..++++|.| +.+||.+|+. ..+|+.+ |+||+++|+++|++||++|
T Consensus 200 ITHViRG~D~l~~t~~Q~~L~~~Lg~~~P~~~H~pl~l~~~g~kLSKR~~~~~i~~~~~r~~g~~~~~~l~~L~~lG~~~ 279 (314)
T PF00749_consen 200 ITHVIRGEDLLSSTPRQILLYEALGWPPPPYAHLPLILNEDGKKLSKRKGAKSIELGDYREWGDPPEATLNYLARLGWSP 279 (314)
T ss_dssp -SEEEEEGGGTTCHHHHHHHHHHCTSSS-EEEEEEEEEETTSSBSSTTCSHHBHHHHHHHHTT-THHHHHHHHHHTTB-H
T ss_pred cCeEEEccccccccHHHHHHHHHhCCCCcceEeeeeeecCCCcEechhhccccccccccccCCCCHHHHHHHHHHhcCCc
Confidence 8999999999999999987 7888888886 4454332 9999999999999999999
Q ss_pred HHHHHHHHHhc
Q 035795 56 ESLMQFILELY 66 (164)
Q Consensus 56 eaIr~F~~~iG 66 (164)
+++++|+...|
T Consensus 280 ~~~~e~~~~~~ 290 (314)
T PF00749_consen 280 EAIREFFSLDE 290 (314)
T ss_dssp CTHHCHHHHHH
T ss_pred chhhhhcCHHH
Confidence 99999999999
No 18
>cd00418 GlxRS_core catalytic core domain of glutamyl-tRNA and glutaminyl-tRNA synthetase. Glutamyl-tRNA synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Glu or Gln, respectively, to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea, cellular organelles, and some bacteria lack GlnRS. In these cases, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme. The discriminating form of GluRS differs from GlnRS and the non-discriminating form of GluRS in their C-terminal anti-codon bind
Probab=98.55 E-value=2.5e-08 Score=83.48 Aligned_cols=64 Identities=14% Similarity=0.103 Sum_probs=47.7
Q ss_pred Cceeecccccccccchhhe-eeeecccchh---HHHH--HCC-----CCCchhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 1 MSFSLRSSEYNARNAQYHM-FNWLKIVYMP---LWFV--HNG-----LDNPLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w-f~RLnl~~tv---~~lV--~~g-----WDDPRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
|||++||.|+.+++++|.| |-.|++.... -.++ ++| =++. +||+++|+||++|+||++|+..+|
T Consensus 110 IThViRG~D~l~st~~q~~l~~~Lg~~~P~~~H~pll~~~~g~KLSKr~~~--~~i~~~r~~G~~p~ai~~~l~~lG 184 (230)
T cd00418 110 ITHVLRGEDHLDNTPIQDWLYEALGWEPPRFYHFPRLLLEDGTKLSKRKLN--TTLRALRRRGYLPEALRNYLALIG 184 (230)
T ss_pred CCEEEECHhhhhchHHHHHHHHHcCCCCCeEEEeeeeeCCCCCCccCcCCC--cCHHHHHHCCCcHHHHHHHHHHcC
Confidence 8999999999999999998 4444443222 1111 111 1221 899999999999999999999999
No 19
>cd00808 GluRS_core catalytic core domain of discriminating glutamyl-tRNA synthetase. Discriminating Glutamyl-tRNA synthetase (GluRS) catalytic core domain . The discriminating form of GluRS is only found in bacteria and cellular organelles. GluRS is a monomer that attaches Glu to the appropriate tRNA. Like other class I tRNA synthetases, GluRS aminoacylates the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=98.44 E-value=7.5e-08 Score=80.91 Aligned_cols=64 Identities=13% Similarity=0.157 Sum_probs=47.4
Q ss_pred Cceeecccccccccchhhe-eeeecccchh---HHHH-H-CC-----CCCchhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 1 MSFSLRSSEYNARNAQYHM-FNWLKIVYMP---LWFV-H-NG-----LDNPLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w-f~RLnl~~tv---~~lV-~-~g-----WDDPRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
|||++||.||..+.++|.| +-.||+..-. -.++ + +| =+.. +||+++|+||++|+||.+|+..+|
T Consensus 119 ithViRG~D~~~~t~~q~~l~~aLg~~~p~~~h~pll~~~~g~KLSKR~~~--~~l~~lr~~G~~p~ai~~~l~~lG 193 (239)
T cd00808 119 ITHVIRGEEHLSSTPKQILLYEALGWEPPKFAHLPLILNPDGKKLSKRKGD--TSISDYREEGYLPEALLNYLALLG 193 (239)
T ss_pred CCEEEEChhhhhChHHHHHHHHHcCCCCCceEeeccccCCCCCcccCCCCC--ccHHHHHHCCCCHHHHHHHHHHcC
Confidence 7999999999999999998 4444433221 1111 1 11 1222 899999999999999999999999
No 20
>PRK12558 glutamyl-tRNA synthetase; Provisional
Probab=98.44 E-value=1.2e-07 Score=85.95 Aligned_cols=62 Identities=10% Similarity=0.098 Sum_probs=49.6
Q ss_pred Cceeecccccccccchhhe-----------eeeecccchh--HHHHHCCCCCchhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 1 MSFSLRSSEYNARNAQYHM-----------FNWLKIVYMP--LWFVHNGLDNPLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w-----------f~RLnl~~tv--~~lV~~gWDDPRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
|||++||.||.+|++.|.| |+.+.+-... ++|-+- +. -+||.++|++||.||||.+|+..+|
T Consensus 197 ITHViRG~d~l~~t~~q~~l~~alg~~~P~f~H~pli~~~~g~KLSKR--~g--~~sv~~~r~~G~~Peai~n~la~lG 271 (445)
T PRK12558 197 ITHIIRGEDHVTNTAVQIQIFEALGAKPPVFAHLSLLTGADGKGLSKR--LG--GLSIRSLREDGIEPMAIASLLARLG 271 (445)
T ss_pred CCEEEechhhhhCCHHHHHHHHHhCCCCCeEEEcccccCCCccccccc--CC--CcCHHHHHHCCCCHHHHHHHHHHHc
Confidence 8999999999999999987 6665554433 344321 22 2799999999999999999999999
No 21
>PRK12410 glutamylglutaminyl-tRNA synthetase; Provisional
Probab=98.11 E-value=1.8e-06 Score=78.21 Aligned_cols=62 Identities=10% Similarity=0.110 Sum_probs=46.3
Q ss_pred Cceeecccccccccchhhe-eeeecccch-h------------HHHHHCCCCCchhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 1 MSFSLRSSEYNARNAQYHM-FNWLKIVYM-P------------LWFVHNGLDNPLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w-f~RLnl~~t-v------------~~lV~~gWDDPRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
|||++||.||.++++.|-| |--|+.+.. . ++|-+ =+. -++|+++|++||.||||.+|+..+|
T Consensus 191 IThViRG~d~l~~tp~Qi~Ly~aLg~~~pp~f~Hlpli~~~~g~KLSK--R~~--~~~v~~~r~~G~~PeAi~n~l~~lG 266 (433)
T PRK12410 191 ISLIIRGEDHVSNTPKQILIREALGYNKEITYAHLPIILNEEGKKMSK--RDN--ASSVKWLLEQGFLPSAIANYLILLG 266 (433)
T ss_pred CCEEEechhhhhCcHHHHHHHHHcCCCCCCeEEEeeeeeCCCCCeeec--ccC--hhhHHHHHHCCCCHHHHHHHHHHhC
Confidence 8999999999999999987 333333211 0 23321 121 3699999999999999999999999
No 22
>PLN02627 glutamyl-tRNA synthetase
Probab=97.85 E-value=1e-05 Score=74.98 Aligned_cols=62 Identities=8% Similarity=0.184 Sum_probs=47.2
Q ss_pred Cceeecccccccccchhhe-----------eeeecccchh--HHHHHCCCCCchhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 1 MSFSLRSSEYNARNAQYHM-----------FNWLKIVYMP--LWFVHNGLDNPLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w-----------f~RLnl~~tv--~~lV~~gWDDPRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
|||++||.||.+|+++|.| |+.+.+--.- ++|-+ =++. .++..+|++||.||||.+|+..+|
T Consensus 250 ITHViRG~D~l~nTpkQi~ly~aLg~~~P~f~Hlpli~~~~g~KLSK--R~~~--~~v~~~r~~G~~PeAi~nyla~LG 324 (535)
T PLN02627 250 ITHVIRAEEHLPNTLRQALIYKALGFPMPRFAHVSLILAPDRSKLSK--RHGA--TSVGQFREMGYLPDAMVNYLALLG 324 (535)
T ss_pred CcEEEechhhhcChHHHHHHHHHcCCCCCeEEEccceeCCCCCcccc--ccCC--ccHHHHHHCCCCHHHHHHHHHHhC
Confidence 8999999999999999987 5555443211 33322 2222 368889999999999999999999
No 23
>TIGR03838 queuosine_YadB glutamyl-queuosine tRNA(Asp) synthetase. This protein resembles a shortened glutamyl-tRNA ligase, but its purpose is to modify tRNA(Asp) at a queuosine position in the anticodon rather than to charge a tRNA with its cognate amino acid.
Probab=97.81 E-value=8.4e-06 Score=69.76 Aligned_cols=54 Identities=9% Similarity=-0.015 Sum_probs=43.6
Q ss_pred Cceeecccccccccchhhe-----------eee----ecccchh------HHHHHCCCCCchhhhHHHhHhcCCCHH
Q 035795 1 MSFSLRSSEYNARNAQYHM-----------FNW----LKIVYMP------LWFVHNGLDNPLFLALQRIIRRRLKIE 56 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w-----------f~R----Lnl~~tv------~~lV~~gWDDPRlpTi~glrRRG~~pe 56 (164)
|||++||.||.+++++|.| |+. +|.+|+. ..+|+++ ||+++|+.+|+|+|++|.
T Consensus 186 IThViRG~D~l~~t~~q~~l~~aLg~~~P~y~H~pll~~~~g~kLSKR~~~~~i~~~--~~~~~~~~~l~~lG~~~~ 260 (272)
T TIGR03838 186 ITHVVRGADLLDSTPRQIYLQRLLGLPPPRYLHLPLVVNADGEKLSKQNGAPALDLS--HPLPALLAALRFLGLPPP 260 (272)
T ss_pred CCEEEeCHhhhhccHHHHHHHHHhCCCCCeEEechhhhCCCCCeeeccCCccchhcC--CcHHHHHHHHHHcCCCCC
Confidence 8999999999999999987 555 3666654 3345544 899999999999999975
No 24
>TIGR00464 gltX_bact glutamyl-tRNA synthetase, bacterial family. The glutamyl-tRNA synthetases of the eukaryotic cytosol and of the Archaea are more similar to glutaminyl-tRNA synthetases than to bacterial glutamyl-tRNA synthetases. This alignment models just the bacterial and mitochondrial forms of the enzyme. In many species, the charging of tRNA(gln) proceeds first through misacylation with Glu and then transamidation. For this reason, glutamyl-tRNA synthetases may act on both tRNA(gln) and tRNA(glu). This model is highly specific. Proteins with positive scores below the trusted cutoff may be fragments rather than full-length sequences.
Probab=97.57 E-value=4.8e-05 Score=69.41 Aligned_cols=61 Identities=11% Similarity=0.216 Sum_probs=47.2
Q ss_pred Cceeecccccccccchhhe-----------eeeecccchh--HHHHH-CCCCCchhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 1 MSFSLRSSEYNARNAQYHM-----------FNWLKIVYMP--LWFVH-NGLDNPLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w-----------f~RLnl~~tv--~~lV~-~gWDDPRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
|||++|+.||..+.++|.| |..+.+--.. ++|-. +| ..||++||++||.|+||.+|+..+|
T Consensus 198 ithvIrG~d~~~~t~~~~~l~~aLg~~~p~~~H~p~l~~~~g~kLSKR~g-----~~~l~~l~~~g~~p~a~~~~~~~lG 272 (470)
T TIGR00464 198 ITHVIRGEDHISNTPKQILIYQALGWKIPVFAHLPMILDEDGKKLSKRDG-----ATSIMQFKEQGYLPEALINYLALLG 272 (470)
T ss_pred CCEEEECchhhcCHHHHHHHHHHcCCCCCeEEEEeeeecCCCccccccCC-----CccHHHHHHCCCCHHHHHHHHHHcC
Confidence 7999999999999999987 5444431000 33322 33 6899999999999999999999998
No 25
>PRK01406 gltX glutamyl-tRNA synthetase; Reviewed
Probab=97.42 E-value=9.5e-05 Score=67.62 Aligned_cols=60 Identities=10% Similarity=0.136 Sum_probs=46.9
Q ss_pred Cceeecccccccccchhhe-----------eeeecccchh----HHHHHCCCCCchhhhHHHhHhcCCCHHHHHHHHHHh
Q 035795 1 MSFSLRSSEYNARNAQYHM-----------FNWLKIVYMP----LWFVHNGLDNPLFLALQRIIRRRLKIESLMQFILEL 65 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w-----------f~RLnl~~tv----~~lV~~gWDDPRlpTi~glrRRG~~peaIr~F~~~i 65 (164)
|||++|+.||..+.++|.| |..+.+ .+ ++|- +-+. -.||.++|++||.|+||.+|+..+
T Consensus 208 ithvIrG~d~~~~t~~q~~l~~alG~~~p~~~H~pl--i~~~~g~klS--KR~g--~~~l~~l~~~G~~p~Ai~n~l~~l 281 (476)
T PRK01406 208 ITHVIRGEDHLSNTPKQILLYEALGWEVPVFAHLPL--ILGPDGKKLS--KRHG--ATSVEQYRDMGYLPEALLNYLALL 281 (476)
T ss_pred CCEEEECchhhcCHHHHHHHHHHhCCCCCeEEEeee--eeCCCCCccc--CcCC--ccCHHHHHHCCCCHHHHHHHHHHh
Confidence 7999999999999999987 555433 11 2221 1444 469999999999999999999999
Q ss_pred c
Q 035795 66 Y 66 (164)
Q Consensus 66 G 66 (164)
|
T Consensus 282 G 282 (476)
T PRK01406 282 G 282 (476)
T ss_pred C
Confidence 8
No 26
>PRK14895 gltX glutamyl-tRNA synthetase; Provisional
Probab=96.92 E-value=0.00073 Score=62.64 Aligned_cols=62 Identities=13% Similarity=0.151 Sum_probs=44.0
Q ss_pred Cceeecccccccccchhhe-----------eeeecccchh--HHHHHCCCCCchhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 1 MSFSLRSSEYNARNAQYHM-----------FNWLKIVYMP--LWFVHNGLDNPLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w-----------f~RLnl~~tv--~~lV~~gWDDPRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
|||++|+.||..+.++|.. |..+.+.--. ++|-. =+.+ ..|+.+|++||.||||.+|+..+|
T Consensus 197 ithVIRG~d~~~~t~~q~~l~~aLG~~~p~~~H~plv~~~~g~KLSK--R~g~--~~i~~~r~~G~~Peai~n~la~LG 271 (513)
T PRK14895 197 ITHIIRGDDHLTNAARQLAIYQAFGYAVPSMTHIPLIHGADGAKLSK--RHGA--LGIEAYKDMGYLPESLCNYLLRLG 271 (513)
T ss_pred CCEEEECchHhhhHHHHHHHHHHcCCCCCeEEEEEeEEcCCCCcccc--ccCc--hhHHHHHHCCCCHHHHHHHHHHhC
Confidence 7999999999999888875 3333221100 22211 1111 368999999999999999999999
No 27
>KOG1149 consensus Glutamyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=94.34 E-value=0.043 Score=50.46 Aligned_cols=61 Identities=20% Similarity=0.342 Sum_probs=47.2
Q ss_pred Cceeecccccccccch----hh---e----eeeecccchh--HHHHH-CCCCCchhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 1 MSFSLRSSEYNARNAQ----YH---M----FNWLKIVYMP--LWFVH-NGLDNPLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 1 ITHslrt~E~~~~~~~----y~---w----f~RLnl~~tv--~~lV~-~gWDDPRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
|||+||+-|+..++.. |. | |+.|-|-=+. .+|-. +| | ..|+-+|++||-|||+-|||...|
T Consensus 238 IsHViRGeEWlpST~KH~lLYkAfgW~pPkFaHlpLl~n~d~sKLSKRqg--D---~~vs~~~e~G~LPeallN~ial~G 312 (524)
T KOG1149|consen 238 ISHVIRGEEWLPSTLKHILLYKAFGWQPPKFAHLPLLLNPDGSKLSKRQG--D---ASVSHYREQGYLPEALLNYIALLG 312 (524)
T ss_pred hhheeecchhccccHHHHHHHHHhCCCCCceeeeeeeecCCcchhhhhcC--c---chHHHHHHcCCChHHHHHHHHHcC
Confidence 7999999999987644 33 7 8888776555 55542 22 1 247789999999999999999999
No 28
>PRK05710 glutamyl-Q tRNA(Asp) synthetase; Reviewed
Probab=94.03 E-value=0.029 Score=48.84 Aligned_cols=58 Identities=12% Similarity=-0.004 Sum_probs=39.5
Q ss_pred Cceeecccccccccchhhe-eeeecccchh------------HHHHHCCCCCchhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 1 MSFSLRSSEYNARNAQYHM-FNWLKIVYMP------------LWFVHNGLDNPLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 1 ITHslrt~E~~~~~~~y~w-f~RLnl~~tv------------~~lV~~gWDDPRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
|||++|+.|+.+++++|.| |--|+...-. ++|-+. =.++ +|+. .|+.|+ |.+|...+|
T Consensus 193 IThVvRG~D~l~~t~~Q~~l~~aLg~~~P~y~H~pll~~~~g~kLSKr-~~~~---~i~~---~g~~p~-l~~~l~~lG 263 (299)
T PRK05710 193 VTHVVRGADLLDSTPRQIYLQQLLGLPTPRYLHLPLVLNADGQKLSKQ-NGAP---ALDA---AGPLPV-LAAALRFLG 263 (299)
T ss_pred CCEEEeChhhhhcCHHHHHHHHHcCCCCCeEEEeecccCCCCCccccc-CCcc---chhh---cCcCHH-HHHHHHHcC
Confidence 8999999999999999998 4433333221 222211 1222 2222 799999 999999999
No 29
>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=85.21 E-value=0.65 Score=32.93 Aligned_cols=18 Identities=28% Similarity=0.353 Sum_probs=13.5
Q ss_pred hhHHHhHhcCCCHHHHHH
Q 035795 43 LALQRIIRRRLKIESLMQ 60 (164)
Q Consensus 43 pTi~glrRRG~~peaIr~ 60 (164)
..+-||||||++++.|..
T Consensus 18 lN~vGLrR~Gfs~~~i~~ 35 (83)
T PF13720_consen 18 LNLVGLRRRGFSKEEISA 35 (83)
T ss_dssp E-HHHHHHTTS-HHHHHH
T ss_pred eeHHHHHHcCCCHHHHHH
Confidence 457899999999997765
No 30
>smart00422 HTH_MERR helix_turn_helix, mercury resistance.
Probab=64.48 E-value=7.8 Score=25.19 Aligned_cols=24 Identities=8% Similarity=0.185 Sum_probs=20.2
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 41 LFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~~ 64 (164)
++-.+..||..|+++++|+..+..
T Consensus 46 ~l~~i~~lr~~g~~~~~i~~~l~l 69 (70)
T smart00422 46 RLRFIKRLKELGFSLEEIKELLEL 69 (70)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHhc
Confidence 567788899999999999988753
No 31
>PF04447 DUF550: Protein of unknown function (DUF550); InterPro: IPR007538 This entry represents the N terminus of a protein of unknown function, found in a range of Proteobacteria and a few P22-like dsDNA virus particles.
Probab=55.65 E-value=8.3 Score=28.72 Aligned_cols=51 Identities=10% Similarity=-0.035 Sum_probs=38.9
Q ss_pred cchhhe----ee-eecccchh----HHHHH---CC-----CCCchhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 14 NAQYHM----FN-WLKIVYMP----LWFVH---NG-----LDNPLFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 14 ~~~y~w----f~-RLnl~~tv----~~lV~---~g-----WDDPRlpTi~glrRRG~~peaIr~F~~~ 64 (164)
+.+-.| || -.+-.+.+ +.++| +. |=|--+..+-|-||-|++|+.|-+-|..
T Consensus 4 ~~~a~wS~~TFGp~~~p~g~lkHl~kE~~E~~~~p~Dl~EwaDv~~Ll~D~~~RaGis~~~i~~A~~~ 71 (100)
T PF04447_consen 4 RRHAEWSDRTFGPGVGPVGPLKHLSKEALEAEAAPGDLSEWADVQILLWDGARRAGISPEQIIDAMEA 71 (100)
T ss_pred HHHHHHHHhhcCCCCCcchHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 445567 88 66666766 55543 22 9999999999999999999999886653
No 32
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=51.45 E-value=16 Score=27.94 Aligned_cols=26 Identities=8% Similarity=0.166 Sum_probs=21.8
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 41 LFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
+.-.++.|.||||+.+.|+..+.+..
T Consensus 129 k~Ki~~~L~rkGF~~~~I~~~l~~~~ 154 (157)
T PRK00117 129 KAKLVRFLARRGFSMDVIQRVLRNAL 154 (157)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHhhh
Confidence 45678889999999999999887653
No 33
>PRK12461 UDP-N-acetylglucosamine acyltransferase; Provisional
Probab=50.49 E-value=10 Score=31.90 Aligned_cols=19 Identities=16% Similarity=0.239 Sum_probs=15.8
Q ss_pred hhHHHhHhcCCCHHHHHHH
Q 035795 43 LALQRIIRRRLKIESLMQF 61 (164)
Q Consensus 43 pTi~glrRRG~~peaIr~F 61 (164)
..+-||||||+++|.|...
T Consensus 190 ~n~vgl~r~g~~~~~~~~~ 208 (255)
T PRK12461 190 LNAVGLRRRGFSSRAIRAL 208 (255)
T ss_pred cchhhhhhcCCCHHHHHHH
Confidence 4568999999999988754
No 34
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=48.43 E-value=17 Score=23.58 Aligned_cols=23 Identities=4% Similarity=0.306 Sum_probs=19.5
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHH
Q 035795 41 LFLALQRIIRRRLKIESLMQFIL 63 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~ 63 (164)
+|-.|..|++.|++.+.|++.+.
T Consensus 45 ~l~~i~~l~~~G~sl~~I~~~l~ 67 (69)
T PF13411_consen 45 RLREIKELRKQGMSLEEIKKLLK 67 (69)
T ss_dssp HHHHHHHHHHTTTHHHHHHHHH-
T ss_pred HHHHHHHHHHCcCCHHHHHHHHc
Confidence 57778899999999999998765
No 35
>PF11278 DUF3079: Protein of unknown function (DUF3079); InterPro: IPR021430 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=43.58 E-value=12 Score=24.56 Aligned_cols=25 Identities=4% Similarity=-0.080 Sum_probs=16.1
Q ss_pred EeeccCCCCCCCceEEEEeccEEEEecCc
Q 035795 84 RIKLRHKTCKGVGVKATTYAKTIWMDLAN 112 (164)
Q Consensus 84 ~~~p~hP~~~~~G~R~v~~~~~iyIe~~D 112 (164)
.+.|+||++|++ +..+=.-|-..+|
T Consensus 3 KkFPlhP~hPER----iCWGCD~YC~a~~ 27 (52)
T PF11278_consen 3 KKFPLHPKHPER----ICWGCDRYCPADS 27 (52)
T ss_pred CcCCCCCCCccc----eeeccccccChhh
Confidence 468999999985 4444445554444
No 36
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, 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 two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=43.43 E-value=29 Score=25.38 Aligned_cols=28 Identities=18% Similarity=0.319 Sum_probs=23.7
Q ss_pred CCchhhhHHHhHhcCCCHHHHHHHHHHh
Q 035795 38 DNPLFLALQRIIRRRLKIESLMQFILEL 65 (164)
Q Consensus 38 DDPRlpTi~glrRRG~~peaIr~F~~~i 65 (164)
|=.|+-.|+.||+-|++.+.|++++...
T Consensus 42 ~~~~l~~I~~lr~~G~sl~eI~~~l~~~ 69 (112)
T cd01282 42 AVDRVRQIRRLLAAGLTLEEIREFLPCL 69 (112)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 3457888999999999999999998753
No 37
>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=43.13 E-value=24 Score=26.69 Aligned_cols=25 Identities=16% Similarity=0.413 Sum_probs=20.5
Q ss_pred CCchhhhHHHhHhcCCCHHHHHHHH
Q 035795 38 DNPLFLALQRIIRRRLKIESLMQFI 62 (164)
Q Consensus 38 DDPRlpTi~glrRRG~~peaIr~F~ 62 (164)
+|=|+..|.-..|||++.|.|.+..
T Consensus 9 td~Rlf~i~eAlrrG~sveeI~e~T 33 (123)
T PF02787_consen 9 TDERLFAIAEALRRGYSVEEIHELT 33 (123)
T ss_dssp BTTHHHHHHHHHHTTB-HHHHHHHH
T ss_pred CCcHHHHHHHHHHcCCCHHHHHHHH
Confidence 5779999999999999999988743
No 38
>cd04764 HTH_MlrA-like_sg1 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 1). The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen in the N-terminal domains of typical MerR-like proteins.
Probab=40.77 E-value=34 Score=22.24 Aligned_cols=22 Identities=14% Similarity=0.481 Sum_probs=18.0
Q ss_pred hhhhHHHhHhcCCCHHHHHHHH
Q 035795 41 LFLALQRIIRRRLKIESLMQFI 62 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~ 62 (164)
++-.+..|+..|++.+.|++++
T Consensus 45 ~l~~i~~l~~~g~~l~~i~~~l 66 (67)
T cd04764 45 LLKKIKTLLEKGLSIKEIKEIL 66 (67)
T ss_pred HHHHHHHHHHCCCCHHHHHHHh
Confidence 5666777889999999998875
No 39
>cd04763 HTH_MlrA-like Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A) and related proteins, N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen
Probab=39.41 E-value=37 Score=22.19 Aligned_cols=22 Identities=14% Similarity=0.401 Sum_probs=17.7
Q ss_pred hhhhHHHhHhcCCCHHHHHHHH
Q 035795 41 LFLALQRIIRRRLKIESLMQFI 62 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~ 62 (164)
++-.|+.|+..|++.+.|++++
T Consensus 46 ~l~~i~~l~~~g~~l~~i~~~l 67 (68)
T cd04763 46 RILEIKRWIDNGVQVSKVKKLL 67 (68)
T ss_pred HHHHHHHHHHcCCCHHHHHHHh
Confidence 4556778888999999998864
No 40
>COG1043 LpxA Acyl-[acyl carrier protein]
Probab=39.40 E-value=11 Score=32.54 Aligned_cols=23 Identities=17% Similarity=0.121 Sum_probs=18.1
Q ss_pred CCchhhhHHHhHhcCCCHHHHHH
Q 035795 38 DNPLFLALQRIIRRRLKIESLMQ 60 (164)
Q Consensus 38 DDPRlpTi~glrRRG~~peaIr~ 60 (164)
-=||=..+-||+|||++.|+|..
T Consensus 190 a~l~GlN~vGlkRrgf~~e~i~a 212 (260)
T COG1043 190 ARLRGLNIVGLKRRGFSREEIHA 212 (260)
T ss_pred ccccccceeeeeccCCCHHHHHH
Confidence 34566788899999999996654
No 41
>COG4058 McrA Methyl coenzyme M reductase, alpha subunit [Coenzyme metabolism]
Probab=38.75 E-value=13 Score=34.05 Aligned_cols=30 Identities=13% Similarity=0.149 Sum_probs=25.6
Q ss_pred CCCchhhhHHHh--------HhcC--CCHHHHHHHHHHhc
Q 035795 37 LDNPLFLALQRI--------IRRR--LKIESLMQFILELY 66 (164)
Q Consensus 37 WDDPRlpTi~gl--------rRRG--~~peaIr~F~~~iG 66 (164)
|||.|-.-|-|| +|-| .|||.|+++|..+.
T Consensus 101 wddirrtvivgmd~ah~vlekrlg~evtpetin~ymet~n 140 (553)
T COG4058 101 WDDIRRTVIVGMDTAHAVLEKRLGKEVTPETINEYMETLN 140 (553)
T ss_pred HHHhhhheEeccchHHHHHHHHhCCccCHHHHHHHHHHhh
Confidence 999998877776 4656 79999999999987
No 42
>cd01105 HTH_GlnR-like Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator GlnR and related proteins, N-terminal domain. The GlnR and TnrA (also known as ScgR) proteins have been shown to regulate expression of glutamine synthetase as well as several genes involved in nitrogen metabolism. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=37.91 E-value=44 Score=23.36 Aligned_cols=27 Identities=4% Similarity=0.180 Sum_probs=22.9
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
-++-.|.-|+..|++++.|++.+.+-.
T Consensus 46 ~~l~~I~~Lr~~G~sl~~i~~~l~~~~ 72 (88)
T cd01105 46 DRLLVIKELLDEGFTLAAAVEKLRRRR 72 (88)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHcc
Confidence 467788899999999999999887654
No 43
>PRK14135 recX recombination regulator RecX; Provisional
Probab=36.97 E-value=36 Score=28.27 Aligned_cols=26 Identities=15% Similarity=0.160 Sum_probs=21.7
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 41 LFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
+.=..+-|.||||+.+.|+.++.+..
T Consensus 235 k~K~~~~L~rrGF~~~~I~~~l~~~~ 260 (263)
T PRK14135 235 KQKLKQALYRKGFSYDDIDSFLREYG 260 (263)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHhc
Confidence 45566789999999999999988764
No 44
>cd01104 HTH_MlrA-CarA Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA- and CarA-like proteins in this group appear to lack the long dimerization helix seen i
Probab=36.94 E-value=40 Score=21.67 Aligned_cols=22 Identities=9% Similarity=0.226 Sum_probs=18.0
Q ss_pred hhhhHHHhHhcCCCHHHHHHHH
Q 035795 41 LFLALQRIIRRRLKIESLMQFI 62 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~ 62 (164)
+|-.++.|+.-|++++.|+++.
T Consensus 46 ~l~~i~~l~~~g~~l~~i~~~~ 67 (68)
T cd01104 46 RLRLIRRLTSEGVRISQAAALA 67 (68)
T ss_pred HHHHHHHHHHCCCCHHHHHHHh
Confidence 4566788999999999998863
No 45
>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=36.74 E-value=41 Score=21.63 Aligned_cols=22 Identities=9% Similarity=0.286 Sum_probs=18.2
Q ss_pred hhhhHHHhHhcCCCHHHHHHHH
Q 035795 41 LFLALQRIIRRRLKIESLMQFI 62 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~ 62 (164)
|+--|..+|.-|+|-+-|++|+
T Consensus 3 rL~~I~~~r~lGfsL~eI~~~l 24 (65)
T PF09278_consen 3 RLQFIRRLRELGFSLEEIRELL 24 (65)
T ss_dssp HHHHHHHHHHTT--HHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHH
Confidence 5677899999999999999999
No 46
>PF14068 YuiB: Putative membrane protein
Probab=36.54 E-value=19 Score=26.92 Aligned_cols=11 Identities=0% Similarity=0.335 Sum_probs=10.2
Q ss_pred hHHHhHhcCCC
Q 035795 44 ALQRIIRRRLK 54 (164)
Q Consensus 44 Ti~glrRRG~~ 54 (164)
||+.||++||+
T Consensus 90 tIr~LRk~GYq 100 (102)
T PF14068_consen 90 TIRTLRKKGYQ 100 (102)
T ss_pred HHHHHHHcccc
Confidence 89999999996
No 47
>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=36.52 E-value=26 Score=25.67 Aligned_cols=21 Identities=19% Similarity=0.396 Sum_probs=15.4
Q ss_pred hHHHhHhcCCCHHHHHHHHHH
Q 035795 44 ALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 44 Ti~glrRRG~~peaIr~F~~~ 64 (164)
-++.|.||||+.+.|+..+.+
T Consensus 98 ~~~~L~rrGF~~~~i~~vi~~ 118 (121)
T PF02631_consen 98 LIRFLMRRGFSYDVIRRVISE 118 (121)
T ss_dssp HHHHHHHTT--HHHHHHHCHH
T ss_pred HHHHHHHCCCCHHHHHHHHhh
Confidence 457799999999999987654
No 48
>PF09124 Endonuc-dimeris: T4 recombination endonuclease VII, dimerisation; InterPro: IPR015208 This entry represents a dimerisation domain predominantly found in Bacteriophage T4 recombination endonuclease VII. It adopts a helical secondary structure, with three alpha helices oriented parallel to each other. As well as mediating dimerisation of the protein, this domain is also involved in binding to the DNA major groove []. ; PDB: 1EN7_B 1E7L_B 2QNF_A 2QNC_A 1E7D_A.
Probab=35.25 E-value=11 Score=24.99 Aligned_cols=22 Identities=18% Similarity=0.054 Sum_probs=16.0
Q ss_pred chhheeeeecccchhHHHHHCC
Q 035795 15 AQYHMFNWLKIVYMPLWFVHNG 36 (164)
Q Consensus 15 ~~y~wf~RLnl~~tv~~lV~~g 36 (164)
++-.|||||+...++..|...|
T Consensus 8 D~~K~FSRl~k~eMiaem~~~G 29 (54)
T PF09124_consen 8 DKVKWFSRLTKPEMIAEMDSYG 29 (54)
T ss_dssp HHHHHHHTS-HHHHHHHHHHTT
T ss_pred HHHHHHHhcCHHHHHHHHHHhC
Confidence 3445899999999987776666
No 49
>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=34.31 E-value=58 Score=19.02 Aligned_cols=20 Identities=15% Similarity=0.213 Sum_probs=14.0
Q ss_pred HHHhHhcCCCHHHHHHHHHH
Q 035795 45 LQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 45 i~glrRRG~~peaIr~F~~~ 64 (164)
+.--+.-|+++|-+|+|...
T Consensus 9 i~eA~~~Gls~eeir~FL~~ 28 (30)
T PF08671_consen 9 IKEAKESGLSKEEIREFLEF 28 (30)
T ss_dssp HHHHHHTT--HHHHHHHHHH
T ss_pred HHHHHHcCCCHHHHHHHHHh
Confidence 34457889999999999864
No 50
>PF02745 MCR_alpha_N: Methyl-coenzyme M reductase alpha subunit, N-terminal domain; InterPro: IPR003183 Methyl-coenzyme M reductase (MCR) catalyses the reduction of methyl-coenzyme M (CH3-SCoM) and coenzyme B (HS-CoB) to methane and the corresponding heterosulphide CoM-S-S-CoB (2.8.4.1 from EC), the final step in methane biosynthesis. This reaction proceeds under anaerobic conditions by methanogenic Archaea [], and requires a nickel-porphinoid prosthetic group, coenzyme F430, which is in the EPR-detectable Ni(I) oxidation state in the active enzyme. Studies on a catalytically inactive enzyme aerobically co-crystallized with coenzyme M displayed a fully occupied coenzyme M-binding site with no alternate conformations. The binding of coenzyme M appears to induce specific conformational changes that suggests a molecular mechanism by which the enzyme ensures that methyl-coenzyme M enters the substrate channel prior to coenzyme B, as required by the active-site geometry []. MCR is a hexamer composed of 2 alpha, 2 beta, and 2 gamma subunits with two identical nickel porphinoid active sites, which form two long active site channels with F430 embedded at the bottom [, ]. This entry represents the N-terminal domain of the alpha subunit, which has a ferredoxin-like alpha/beta-sandwich fold with a duplicated beta-alpha-beta topology. ; GO: 0050524 coenzyme-B sulfoethylthiotransferase activity, 0015948 methanogenesis; PDB: 1HBU_D 3M2V_D 3POT_A 3M2U_A 1HBN_A 1HBO_A 3M30_A 3M2R_A 3M1V_A 1HBM_A ....
Probab=34.28 E-value=6.3 Score=33.58 Aligned_cols=30 Identities=13% Similarity=0.132 Sum_probs=21.8
Q ss_pred CCCchhhhHHHh--------HhcC--CCHHHHHHHHHHhc
Q 035795 37 LDNPLFLALQRI--------IRRR--LKIESLMQFILELY 66 (164)
Q Consensus 37 WDDPRlpTi~gl--------rRRG--~~peaIr~F~~~iG 66 (164)
|||.|=.-|-|| +|-| .|||.|++|+.-+.
T Consensus 97 wDDirRtvIvgmd~AH~~LekRLGkEVTPETIn~Yle~lN 136 (267)
T PF02745_consen 97 WDDIRRTVIVGMDTAHETLEKRLGKEVTPETINEYLEVLN 136 (267)
T ss_dssp HHHHHTEEEEESHHHHHHHHHCC-----HHHHHHHHHHHH
T ss_pred HHHhhheeEecchhHHHHHHHHhCCccCHHHHHHHHHHHh
Confidence 999997666554 4656 69999999998775
No 51
>cd04780 HTH_MerR-like_sg5 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 5), N-terminal domain. Based on sequence similarity, 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 two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=33.38 E-value=44 Score=23.89 Aligned_cols=30 Identities=7% Similarity=0.036 Sum_probs=24.3
Q ss_pred CchhhhHHHhHh-cCCCHHHHHHHHHHhcce
Q 035795 39 NPLFLALQRIIR-RRLKIESLMQFILELYLL 68 (164)
Q Consensus 39 DPRlpTi~glrR-RG~~peaIr~F~~~iG~~ 68 (164)
=.|+-.|+-|++ -|++.+.|++++...|+.
T Consensus 44 v~~l~~I~~L~~~~G~~l~~I~~~l~~~~~~ 74 (95)
T cd04780 44 VERLRLIRALQQEGGLPISQIKEVLDAIADA 74 (95)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHhcCcc
Confidence 356777888888 799999999999887743
No 52
>cd04773 HTH_TioE_rpt2 Second Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD mainly contains the C-terminal or second repeat (rpt2) of these tandem MerR-like domain proteins.
Probab=33.36 E-value=57 Score=23.69 Aligned_cols=25 Identities=12% Similarity=0.107 Sum_probs=22.3
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHHHh
Q 035795 41 LFLALQRIIRRRLKIESLMQFILEL 65 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~~i 65 (164)
|+-.|+.|++.|++.+.|++++...
T Consensus 46 ~l~~I~~lr~~G~~l~~I~~~l~~~ 70 (108)
T cd04773 46 DARLIHLLRRGGYLLEQIATVVEQL 70 (108)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHh
Confidence 6778899999999999999998865
No 53
>cd04778 HTH_MerR-like_sg2 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 2). Based on sequence similarity, 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 two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=32.98 E-value=50 Score=27.38 Aligned_cols=26 Identities=4% Similarity=0.230 Sum_probs=23.1
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 41 LFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
|+-.|..|++.||+...|++++....
T Consensus 46 rL~~I~~l~~~G~~L~~I~~~l~~~~ 71 (219)
T cd04778 46 RLRLINQLLERGYTLAHIAELLAAWE 71 (219)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHhhh
Confidence 78889999999999999999998653
No 54
>cd04767 HTH_HspR-like_MBC Helix-Turn-Helix DNA binding domain of putative HspR-like transcription regulators. Putative helix-turn-helix (HTH) transcription regulator HspR-like proteins. Unlike the characterized HspR, these proteins have a C-terminal domain with putative metal binding cysteines (MBC). Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer 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 conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind spe
Probab=31.41 E-value=56 Score=24.78 Aligned_cols=26 Identities=15% Similarity=0.258 Sum_probs=21.6
Q ss_pred hhhhHHHhHh-cCCCHHHHHHHHHHhc
Q 035795 41 LFLALQRIIR-RRLKIESLMQFILELY 66 (164)
Q Consensus 41 RlpTi~glrR-RG~~peaIr~F~~~iG 66 (164)
||-.|.-|++ .|++.++|++++....
T Consensus 45 rL~~I~~L~~e~G~~l~eI~~~L~l~~ 71 (120)
T cd04767 45 RLRFIKKLINEKGLNIAGVKQILSMYP 71 (120)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHhCc
Confidence 5667778888 9999999999887654
No 55
>PF08275 Toprim_N: DNA primase catalytic core, N-terminal domain; InterPro: IPR013264 This is the N-terminal, catalytic core domain of DNA primases. DNA primase (2.7.7 from EC) is a nucleotidyltransferase which synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork. It can also prime the leading strand and has been implicated in cell division []. ; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A 2AU3_A.
Probab=30.22 E-value=28 Score=26.21 Aligned_cols=31 Identities=26% Similarity=0.382 Sum_probs=18.8
Q ss_pred hhHHHhHhcCCCHHHHHHHHHHhcceeeeeece
Q 035795 43 LALQRIIRRRLKIESLMQFILELYLLSLKWKTD 75 (164)
Q Consensus 43 pTi~glrRRG~~peaIr~F~~~iG~~~i~~~~l 75 (164)
.-++=|..||+++|.|..| .+|-+.-+|+.|
T Consensus 13 ~a~~YL~~Rgl~~e~i~~F--~lGyap~~~~~l 43 (128)
T PF08275_consen 13 EALEYLKKRGLSDETIKKF--QLGYAPGNWDSL 43 (128)
T ss_dssp HHHHHHHHTT--HHHHHHT--T-EEE-SCSCHH
T ss_pred HHHHHHHHcCCCHHHHHHh--CCCcccCcHHHH
Confidence 3455588999999999997 778433345444
No 56
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=29.61 E-value=66 Score=22.91 Aligned_cols=24 Identities=0% Similarity=0.123 Sum_probs=19.6
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 41 LFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~~ 64 (164)
++-.|..||+-|++.+.|++++..
T Consensus 46 ~l~~i~~lr~~g~~l~~i~~~~~~ 69 (103)
T cd01106 46 RLQQILFLKELGFSLKEIKELLKD 69 (103)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHc
Confidence 455668899999999999998754
No 57
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=28.99 E-value=69 Score=22.73 Aligned_cols=24 Identities=0% Similarity=0.095 Sum_probs=21.0
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 41 LFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~~ 64 (164)
|+-.|+-||.-|++.+.|++++..
T Consensus 46 ~l~~I~~lr~~G~~l~eI~~~l~~ 69 (97)
T cd04782 46 QLDIILLLKELGISLKEIKDYLDN 69 (97)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHhc
Confidence 677888899999999999998764
No 58
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=28.83 E-value=73 Score=24.76 Aligned_cols=30 Identities=13% Similarity=0.185 Sum_probs=28.0
Q ss_pred CCCchhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 37 LDNPLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 37 WDDPRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
=||||+-=---|.+-|+..+|++.=|..=|
T Consensus 111 ~~dP~y~kYfKMl~~GvP~~aVk~KM~~eG 140 (148)
T PF10152_consen 111 KDDPRYAKYFKMLKMGVPREAVKQKMQAEG 140 (148)
T ss_pred cCCccHHHHHHHHHcCCCHHHHHHHHHHcC
Confidence 599999999999999999999999998888
No 59
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=28.51 E-value=36 Score=24.07 Aligned_cols=31 Identities=29% Similarity=0.342 Sum_probs=22.5
Q ss_pred HHHhHhcCCCHHHHHHHHHHhc---ceeeeeece
Q 035795 45 LQRIIRRRLKIESLMQFILELY---LLSLKWKTD 75 (164)
Q Consensus 45 i~glrRRG~~peaIr~F~~~iG---~~~i~~~~l 75 (164)
..+|+.||++||--.=|...-| +..++|+..
T Consensus 27 ~KaLk~R~l~pe~C~V~~~~~~~~~~~~i~W~td 60 (74)
T cd01816 27 AKALKVRGLQPECCAVFRLGDGSSKKLRIDWDTD 60 (74)
T ss_pred HHHHHHcCCChhHeEEEEcCCCcccccccchhhh
Confidence 4679999999996555544334 578888876
No 60
>PF12554 MOZART1: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR022214 This family of proteins is found in eukaryotes. Proteins in this family are typically between 71 and 105 amino acids in length. There is a single completely conserved residue L that may be functionally important.
Probab=28.41 E-value=1.1e+02 Score=19.72 Aligned_cols=36 Identities=22% Similarity=0.251 Sum_probs=28.9
Q ss_pred HHHHHCCCCCchhhhHHHhHhcCCCHHHHHHHHHHh
Q 035795 30 LWFVHNGLDNPLFLALQRIIRRRLKIESLMQFILEL 65 (164)
Q Consensus 30 ~~lV~~gWDDPRlpTi~glrRRG~~peaIr~F~~~i 65 (164)
..+.+.|-|.--+-..-.|-..|+.|||+-.-+.++
T Consensus 12 S~lLntgLd~etL~ici~L~e~GVnPeaLA~vI~el 47 (48)
T PF12554_consen 12 SDLLNTGLDRETLSICIELCENGVNPEALAAVIKEL 47 (48)
T ss_pred HHHHcCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHh
Confidence 455566777777888888999999999998888764
No 61
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=28.28 E-value=54 Score=21.54 Aligned_cols=19 Identities=16% Similarity=0.020 Sum_probs=17.6
Q ss_pred hHhcCCCHHHHHHHHHHhc
Q 035795 48 IIRRRLKIESLMQFILELY 66 (164)
Q Consensus 48 lrRRG~~peaIr~F~~~iG 66 (164)
.++-|+|++.|++-+..+|
T Consensus 27 a~~~gvt~~~L~~AV~~vG 45 (57)
T PF12244_consen 27 AKRFGVTEEQLREAVRAVG 45 (57)
T ss_pred HHHHCcCHHHHHHHHHHHC
Confidence 4788999999999999999
No 62
>cd01111 HTH_MerD Helix-Turn-Helix DNA binding domain of the MerD transcription regulator. Helix-turn-helix (HTH) transcription regulator MerD. The putative secondary regulator of mercury resistance (mer) operons, MerD, has been shown to down-regulate the expression of this operon in gram-negative bacteria. It binds to the same operator DNA as MerR that activates transcription of the operon in the presence of mercury ions. The MerD protein shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily, which promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are conserved and contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules such as metal ions, drugs,
Probab=28.11 E-value=79 Score=23.06 Aligned_cols=26 Identities=8% Similarity=0.152 Sum_probs=22.9
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHHh
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILEL 65 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~i 65 (164)
.|+..|+.||.-|++.+.|++++...
T Consensus 45 ~~l~~I~~lr~~G~~l~~I~~~l~~~ 70 (107)
T cd01111 45 QRLRFVRAAFEAGIGLDELARLCRAL 70 (107)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 47888899999999999999998765
No 63
>TIGR03256 met_CoM_red_alp methyl-coenzyme M reductase, alpha subunit. Members of this protein family are the alpha subunit of methyl coenzyme M reductase, also called coenzyme-B sulfoethylthiotransferase (EC 2.8.4.1). This enzyme, with alpha, beta, and gamma subunits, catalyzes the last step in methanogenesis. Several methanogens have encode two such enzymes, designated I and II; this model does not separate the isozymes.
Probab=28.05 E-value=22 Score=33.29 Aligned_cols=30 Identities=13% Similarity=0.150 Sum_probs=25.5
Q ss_pred CCCchhhhHHHh--------HhcC--CCHHHHHHHHHHhc
Q 035795 37 LDNPLFLALQRI--------IRRR--LKIESLMQFILELY 66 (164)
Q Consensus 37 WDDPRlpTi~gl--------rRRG--~~peaIr~F~~~iG 66 (164)
|||.|-..|-|| +|-| +|||.|++|+.-+.
T Consensus 96 wddirrtvivg~d~ah~~lekrlg~evtpeti~~y~e~~n 135 (548)
T TIGR03256 96 WDDIRRTVIVGLDHAHRVLEKRLGKEVTPETINHYLETLN 135 (548)
T ss_pred HHHhhheEEeechhHHHHHHHHhCCccCHHHHHHHHHHHh
Confidence 999998887776 4666 69999999999886
No 64
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=27.54 E-value=68 Score=23.82 Aligned_cols=25 Identities=8% Similarity=0.040 Sum_probs=22.0
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~ 64 (164)
.|+-.|+.|+.-|++.+.|++++..
T Consensus 44 ~~l~~I~~l~~~G~sl~eI~~~l~~ 68 (124)
T TIGR02051 44 KRLRFIKRAQELGFSLEEIGGLLGL 68 (124)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHhc
Confidence 4778899999999999999998864
No 65
>PRK05289 UDP-N-acetylglucosamine acyltransferase; Provisional
Probab=27.28 E-value=50 Score=27.63 Aligned_cols=27 Identities=26% Similarity=0.258 Sum_probs=19.6
Q ss_pred CCCchh---hhHHHhHhcCCCHHHHHHHHH
Q 035795 37 LDNPLF---LALQRIIRRRLKIESLMQFIL 63 (164)
Q Consensus 37 WDDPRl---pTi~glrRRG~~peaIr~F~~ 63 (164)
|-.|-- ..+.||+|+|++||.+...-.
T Consensus 185 ~G~pa~~~~~n~~g~~~~~~~~~~~~~i~~ 214 (262)
T PRK05289 185 EGNPARLRGLNLVGLKRRGFSREEIHALRR 214 (262)
T ss_pred ecccCeEeccchhhhhhCCCCHHHHHHHHH
Confidence 555533 377899999999998865333
No 66
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal 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 two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=26.94 E-value=76 Score=23.18 Aligned_cols=26 Identities=4% Similarity=0.050 Sum_probs=22.3
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHHh
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILEL 65 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~i 65 (164)
.|+-.|.-||.-|++.+.|++++...
T Consensus 45 ~~l~~I~~lr~~G~sl~eI~~~l~~~ 70 (123)
T cd04770 45 ARLRFIRRAQALGFSLAEIRELLSLR 70 (123)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHhh
Confidence 36678888999999999999998754
No 67
>PF08057 Ery_res_leader2: Erythromycin resistance leader peptide; InterPro: IPR012559 This family consists of erythromycin resistance gene leader peptides. These leader peptides are involved in the transcriptional attenuation control of the synthesis of the macrolide-lincosamide -streptogramin B resistance protein. It acts as a transcriptional attenuator, in contrast to other inducible erm genes. The mRNA leader sequence can fold in either of two mutually exclusive conformations, one of which is postulated to form in the absence of induction, and to contain two rho factor-independent terminators [].; GO: 0046677 response to antibiotic
Probab=26.50 E-value=26 Score=16.95 Aligned_cols=6 Identities=50% Similarity=0.855 Sum_probs=3.4
Q ss_pred Cceeec
Q 035795 1 MSFSLR 6 (164)
Q Consensus 1 ITHslr 6 (164)
+|||+|
T Consensus 1 mthsmr 6 (14)
T PF08057_consen 1 MTHSMR 6 (14)
T ss_pred Ccccee
Confidence 466655
No 68
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. Based on sequence similarity, 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 two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=26.26 E-value=77 Score=22.70 Aligned_cols=25 Identities=0% Similarity=-0.088 Sum_probs=22.4
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~ 64 (164)
.|+-.|.-||.-|++-+.|++|+..
T Consensus 43 ~~l~~I~~lr~~G~sL~eI~~~l~~ 67 (107)
T cd04777 43 DDLEFILELKGLGFSLIEIQKIFSY 67 (107)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHh
Confidence 5788899999999999999999864
No 69
>cd01110 HTH_SoxR Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator. Helix-turn-helix (HTH) transcriptional regulator SoxR. The global regulator, SoxR, up-regulates gene expression of another transcription activator, SoxS, which directly stimulates the oxidative stress regulon genes in E. coli. The soxRS response renders the bacterial cell resistant to superoxide-generating agents, macrophage-generated nitric oxide, organic solvents, and antibiotics. The SoxR proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the unusually long spacer between the -35 and -10 promoter elements. They also harbor a regulatory C-terminal domain containing an iron-sulfur center.
Probab=25.96 E-value=80 Score=24.09 Aligned_cols=25 Identities=8% Similarity=0.077 Sum_probs=21.8
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~ 64 (164)
-|+-.|+.||.-|++.+.|++++..
T Consensus 45 ~~l~~I~~lr~~G~sl~eI~~~l~~ 69 (139)
T cd01110 45 RRIAFIKVAQRLGLSLAEIAEALAT 69 (139)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 3677889999999999999999864
No 70
>PF00749 tRNA-synt_1c: tRNA synthetases class I (E and Q), catalytic domain; InterPro: IPR020058 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Glutamyl-tRNA synthetase (6.1.1.17 from EC) is a class Ic synthetase and shows several similarities with glutaminyl-tRNA synthetase concerning structure and catalytic properties. It is an alpha2 dimer. To date one crystal structure of a glutamyl-tRNA synthetase (Thermus thermophilus) has been solved. The molecule has the form of a bent cylinder and consists of four domains. The N-terminal half (domains 1 and 2) contains the 'Rossman fold' typical for class I synthetases and resembles the corresponding part of Escherichia coli GlnRS, whereas the C-terminal half exhibits a GluRS-specific structure []. ; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0016876 ligase activity, forming aminoacyl-tRNA and related compounds, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 2HZ7_A 2CFO_A 4A91_A 1NZJ_A 1N78_A 1G59_C 2CV2_A 2CV1_A 2CV0_B 1GLN_A ....
Probab=25.24 E-value=71 Score=27.72 Aligned_cols=23 Identities=13% Similarity=0.063 Sum_probs=20.7
Q ss_pred hHHHhHhcCCCHHHHHHHHHHhc
Q 035795 44 ALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 44 Ti~glrRRG~~peaIr~F~~~iG 66 (164)
.+..+|..|+.|+|+.+|+...|
T Consensus 254 ~~~~~r~~g~~~~~~l~~L~~lG 276 (314)
T PF00749_consen 254 ELGDYREWGDPPEATLNYLARLG 276 (314)
T ss_dssp HHHHHHHTT-THHHHHHHHHHTT
T ss_pred cccccccCCCCHHHHHHHHHHhc
Confidence 47889999999999999999999
No 71
>PF13940 Ldr_toxin: Toxin Ldr, type I toxin-antitoxin system
Probab=24.99 E-value=18 Score=21.92 Aligned_cols=13 Identities=15% Similarity=0.069 Sum_probs=11.7
Q ss_pred CCCchhhhHHHhH
Q 035795 37 LDNPLFLALQRII 49 (164)
Q Consensus 37 WDDPRlpTi~glr 49 (164)
|+|--.|+|+|+.
T Consensus 11 WhDLAAP~iagIi 23 (35)
T PF13940_consen 11 WHDLAAPIIAGII 23 (35)
T ss_pred HHHhHhHHHHHHH
Confidence 9999999999864
No 72
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=24.62 E-value=57 Score=22.14 Aligned_cols=28 Identities=11% Similarity=0.293 Sum_probs=19.9
Q ss_pred CchhhhHHHh-HhcCCCHHHHHHHHHHhc
Q 035795 39 NPLFLALQRI-IRRRLKIESLMQFILELY 66 (164)
Q Consensus 39 DPRlpTi~gl-rRRG~~peaIr~F~~~iG 66 (164)
+--..|++.| .+-|+++.+|-.||..+|
T Consensus 31 ~~~~~si~elA~~~~vS~sti~Rf~kkLG 59 (77)
T PF01418_consen 31 EIAFMSISELAEKAGVSPSTIVRFCKKLG 59 (77)
T ss_dssp HHCT--HHHHHHHCTS-HHHHHHHHHHCT
T ss_pred HHHHccHHHHHHHcCCCHHHHHHHHHHhC
Confidence 3345677775 456999999999999999
No 73
>PF08401 DUF1738: Domain of unknown function (DUF1738); InterPro: IPR013610 This region is found in a number of bacterial hypothetical proteins. Some members are annotated as being similar to replication primases, and in fact this region is often found together with the Toprim domain (IPR006171 from INTERPRO).
Probab=24.54 E-value=48 Score=24.87 Aligned_cols=22 Identities=18% Similarity=0.336 Sum_probs=19.3
Q ss_pred HHCCCCCchhhhHHHhHhcCCC
Q 035795 33 VHNGLDNPLFLALQRIIRRRLK 54 (164)
Q Consensus 33 V~~gWDDPRlpTi~glrRRG~~ 54 (164)
.++|+.|||..|..-++..|..
T Consensus 59 ~~~gy~~prw~Tf~Qak~~G~~ 80 (125)
T PF08401_consen 59 EENGYKDPRWMTFKQAKELGGK 80 (125)
T ss_pred HHcCCCCCcEEcHHHHHHcCCc
Confidence 4678999999999999999943
No 74
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=24.51 E-value=84 Score=23.32 Aligned_cols=27 Identities=7% Similarity=0.027 Sum_probs=23.3
Q ss_pred CCchhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 38 DNPLFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 38 DDPRlpTi~glrRRG~~peaIr~F~~~ 64 (164)
|=.|+-.|+-+|+-|++.+.|++++..
T Consensus 43 ~l~~l~~I~~lr~~G~sL~eI~~~l~~ 69 (127)
T TIGR02044 43 HLDELRLISRARQVGFSLEECKELLNL 69 (127)
T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHh
Confidence 346788899999999999999999864
No 75
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, 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 domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=24.39 E-value=93 Score=22.50 Aligned_cols=24 Identities=4% Similarity=0.116 Sum_probs=20.8
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 41 LFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~~ 64 (164)
|+..|.-|+.-|++.+.|++++..
T Consensus 46 ~l~~I~~lr~~G~sL~eI~~~l~~ 69 (113)
T cd01109 46 WLEFIKCLRNTGMSIKDIKEYAEL 69 (113)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHH
Confidence 667778899999999999998864
No 76
>COG0007 CysG Uroporphyrinogen-III methylase [Coenzyme metabolism]
Probab=23.93 E-value=31 Score=29.45 Aligned_cols=18 Identities=28% Similarity=0.471 Sum_probs=15.0
Q ss_pred HHHCCCCCchhhhHHHhH
Q 035795 32 FVHNGLDNPLFLALQRII 49 (164)
Q Consensus 32 lV~~gWDDPRlpTi~glr 49 (164)
||-.||=||.|.|++|++
T Consensus 8 lVGAGPGdp~LLTlka~~ 25 (244)
T COG0007 8 LVGAGPGDPGLLTLRALR 25 (244)
T ss_pred EEecCCCChhhhhHHHHH
Confidence 455679999999999976
No 77
>TIGR03544 DivI1A_domain DivIVA domain. This model describes a domain found in Bacillus subtilis cell division initiation protein DivIVA, and homologs, toward the N-terminus. It is also found as a repeated domain in certain other proteins, including family TIGR03543.
Probab=23.86 E-value=82 Score=18.34 Aligned_cols=16 Identities=13% Similarity=0.169 Sum_probs=14.2
Q ss_pred cCCCHHHHHHHHHHhc
Q 035795 51 RRLKIESLMQFILELY 66 (164)
Q Consensus 51 RG~~peaIr~F~~~iG 66 (164)
|||.++....|+.++.
T Consensus 16 rGY~~~eVD~fLd~v~ 31 (34)
T TIGR03544 16 RGYDAAEVDAFLDRVA 31 (34)
T ss_pred CCCCHHHHHHHHHHHH
Confidence 8999999999998763
No 78
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=23.83 E-value=18 Score=25.25 Aligned_cols=15 Identities=20% Similarity=0.363 Sum_probs=10.9
Q ss_pred HHH-hHhcCCCHHHHH
Q 035795 45 LQR-IIRRRLKIESLM 59 (164)
Q Consensus 45 i~g-lrRRG~~peaIr 59 (164)
+.| ++||||..++|.
T Consensus 20 i~~lf~rRGfnI~sl~ 35 (76)
T PRK11152 20 VLRVVRHRGFQVCSMN 35 (76)
T ss_pred HHHHHhcCCeeeeeEE
Confidence 455 489999888764
No 79
>cd04774 HTH_YfmP Helix-Turn-Helix DNA binding domain of the YfmP transcription regulator. Helix-turn-helix (HTH) transcription regulator, YfmP, and related proteins; N-terminal domain. YfmP regulates the multidrug efflux protein, YfmO, and indirectly regulates the expression of the Bacillus subtilis copZA operon encoding a metallochaperone, CopZ, and a CPx-type ATPase efflux protein, CopA. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=23.81 E-value=96 Score=22.09 Aligned_cols=25 Identities=8% Similarity=0.214 Sum_probs=21.2
Q ss_pred chhhhHHHhHh-cCCCHHHHHHHHHH
Q 035795 40 PLFLALQRIIR-RRLKIESLMQFILE 64 (164)
Q Consensus 40 PRlpTi~glrR-RG~~peaIr~F~~~ 64 (164)
-|+-.|.-|+. -|++++.|+.++..
T Consensus 44 ~~l~~I~~L~~~~G~~l~ei~~~l~~ 69 (96)
T cd04774 44 KRLERILRLREVLGFSLQEVTHFLER 69 (96)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHhc
Confidence 46777788999 99999999998864
No 80
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=23.81 E-value=96 Score=21.93 Aligned_cols=27 Identities=0% Similarity=-0.049 Sum_probs=22.6
Q ss_pred CCchhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 38 DNPLFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 38 DDPRlpTi~glrRRG~~peaIr~F~~~ 64 (164)
|=.|+-.|+-||.-|++.+.|+++...
T Consensus 43 ~l~~l~~I~~lr~~G~~l~~I~~~l~~ 69 (96)
T cd04768 43 QLYQLQFILFLRELGFSLAEIKELLDT 69 (96)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHhc
Confidence 346788889999999999999998753
No 81
>cd00592 HTH_MerR-like Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators. Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=23.71 E-value=98 Score=21.56 Aligned_cols=27 Identities=7% Similarity=0.118 Sum_probs=22.3
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
.++-.+.-|++-|++++.|..++....
T Consensus 44 ~~l~~i~~l~~~g~~~~~i~~~l~~~~ 70 (100)
T cd00592 44 ERLRLIRRLRELGLSLKEIRELLDARD 70 (100)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHhccc
Confidence 466777888999999999999987654
No 82
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=23.30 E-value=92 Score=23.02 Aligned_cols=24 Identities=8% Similarity=0.202 Sum_probs=20.8
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 41 LFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~~ 64 (164)
|+-.|+-+|.-|++.+.|++|+..
T Consensus 46 ~l~~I~~lr~~G~sL~eI~~~l~~ 69 (127)
T cd04784 46 RLLFIRRCRSLDMSLDEIRTLLQL 69 (127)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHh
Confidence 556788899999999999999864
No 83
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer 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 conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=23.07 E-value=1e+02 Score=22.82 Aligned_cols=25 Identities=12% Similarity=0.093 Sum_probs=21.5
Q ss_pred hhhhHHHhHhcCCCHHHHHHHHHHh
Q 035795 41 LFLALQRIIRRRLKIESLMQFILEL 65 (164)
Q Consensus 41 RlpTi~glrRRG~~peaIr~F~~~i 65 (164)
|+-.|.-||+-|++.+.|++++...
T Consensus 44 ~l~~I~~lr~~G~~L~~I~~~l~~~ 68 (118)
T cd04776 44 RLKLILRGKRLGFSLEEIRELLDLY 68 (118)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHhh
Confidence 5667888999999999999998754
No 84
>PRK14135 recX recombination regulator RecX; Provisional
Probab=22.91 E-value=79 Score=26.19 Aligned_cols=23 Identities=17% Similarity=0.281 Sum_probs=20.1
Q ss_pred hHHHhHhcCCCHHHHHHHHHHhc
Q 035795 44 ALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 44 Ti~glrRRG~~peaIr~F~~~iG 66 (164)
..+.|.||||+.+.|++.+.++.
T Consensus 181 i~~~L~rkGf~~~~I~~~l~~~~ 203 (263)
T PRK14135 181 IIQSLLTKGFSYEVIKAALEELD 203 (263)
T ss_pred HHHHHHhCCCCHHHHHHHHHHcc
Confidence 56779999999999999988775
No 85
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer 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 conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=22.88 E-value=1.1e+02 Score=21.28 Aligned_cols=23 Identities=9% Similarity=0.239 Sum_probs=19.2
Q ss_pred hhhhHHHhHh-cCCCHHHHHHHHH
Q 035795 41 LFLALQRIIR-RRLKIESLMQFIL 63 (164)
Q Consensus 41 RlpTi~glrR-RG~~peaIr~F~~ 63 (164)
|+-.|.-|++ .|++.++|+.++.
T Consensus 46 ~l~~i~~L~~d~g~~l~~i~~~l~ 69 (91)
T cd04766 46 RLRRIQRLTQELGVNLAGVKRILE 69 (91)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHH
Confidence 5667778888 9999999998875
No 86
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=22.80 E-value=93 Score=23.71 Aligned_cols=25 Identities=8% Similarity=0.149 Sum_probs=22.3
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~ 64 (164)
.|+-.|.-||.-|++.+.|++|+..
T Consensus 46 ~~l~~I~~lr~~G~sL~eI~~~l~~ 70 (140)
T PRK09514 46 QRLRFIRRAKQLGFTLEEIRELLSI 70 (140)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 4788889999999999999999864
No 87
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=22.68 E-value=96 Score=23.06 Aligned_cols=25 Identities=8% Similarity=0.119 Sum_probs=22.4
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~ 64 (164)
-|+-.|.-|+.-|++.+.|++++..
T Consensus 45 ~~l~~I~~lr~~G~sL~eI~~~l~~ 69 (127)
T cd01108 45 EELRFIRRARDLGFSLEEIRELLAL 69 (127)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 4788899999999999999999864
No 88
>PF01244 Peptidase_M19: Membrane dipeptidase (Peptidase family M19); InterPro: IPR008257 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of peptidases belong to the MEROPS peptidase family M19 (membrane dipeptidase family, clan MJ). The protein fold of the peptidase domain for members of this family resembles that of Klebsiella urease, the type example for clan MJ. Renal dipeptidase (rDP) (3.4.13.19 from EC), also known as microsomal dipeptidase, is a zinc-dependent metalloenzyme that hydrolyzes a wide range of dipeptides. It is involved in renal metabolism of glutathione and its conjugates. It is a homodimeric disulphide-linked glycoprotein attached to the renal brush border microvilli membrane by a GPI-anchor. A glutamate residue has recently been shown [,] to be important for the catalytic activity of rDP. rDP seems to be evolutionary related to hypothetical proteins in the PQQ biosynthesis operons of Acinetobacter calcoaceticus and Klebsiella pneumoniae.; GO: 0008235 metalloexopeptidase activity, 0008239 dipeptidyl-peptidase activity, 0016805 dipeptidase activity, 0006508 proteolysis; PDB: 3NEH_B 2RAG_D 3LU2_A 3B40_A 3LY0_A 3FDG_B 2I5G_B 3S2J_A 3S2N_A 3S2L_A ....
Probab=21.73 E-value=89 Score=27.19 Aligned_cols=21 Identities=14% Similarity=0.373 Sum_probs=17.0
Q ss_pred hhhHHH-hHhcCCCHHHHHHHH
Q 035795 42 FLALQR-IIRRRLKIESLMQFI 62 (164)
Q Consensus 42 lpTi~g-lrRRG~~peaIr~F~ 62 (164)
+|.|.. |++|||+.+.|+..+
T Consensus 289 ~~~l~~~L~~rG~s~~~i~kI~ 310 (320)
T PF01244_consen 289 LPNLTEELLKRGYSEEDIEKIL 310 (320)
T ss_dssp HHHHHHHHHHTTS-HHHHHHHH
T ss_pred HHHHHHHHHHCCCCHHHHHHHH
Confidence 788765 999999999999865
No 89
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, 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 two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=21.67 E-value=1.2e+02 Score=23.27 Aligned_cols=27 Identities=11% Similarity=0.222 Sum_probs=22.8
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
-|+-.|.-++.-|++.+.|++|+...+
T Consensus 44 ~~l~~I~~lr~~G~sL~eI~~~l~~~~ 70 (134)
T cd04779 44 DRLQLIEHLKGQRLSLAEIKDQLEEVQ 70 (134)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHhhc
Confidence 366778889999999999999987655
No 90
>KOG2285 consensus E3 ubiquitin ligase, Cullin 1 component [Posttranslational modification, protein turnover, chaperones]
Probab=21.41 E-value=97 Score=29.56 Aligned_cols=37 Identities=30% Similarity=0.317 Sum_probs=28.8
Q ss_pred HHHHHCC-CCCchhhhHHH--------------------hHhcCCC-------HHHHHHHHHHhc
Q 035795 30 LWFVHNG-LDNPLFLALQR--------------------IIRRRLK-------IESLMQFILELY 66 (164)
Q Consensus 30 ~~lV~~g-WDDPRlpTi~g--------------------lrRRG~~-------peaIr~F~~~iG 66 (164)
..||.++ =||||+.|-+. ..-||+. ||-+-+||..+=
T Consensus 348 S~LVreaF~DDpRfLTARDkAfkaVVNDssiFK~Elp~~~kgrglkt~pESKCpELLANYCDmLL 412 (777)
T KOG2285|consen 348 SSLVREAFCDDPRFLTARDKAFKAVVNDSSIFKTELPNSKKGRGLKTAPESKCPELLANYCDMLL 412 (777)
T ss_pred HHHHHHHhcCChhhhhhhHHHHHHhhcchhhhhhhccchhcCCccccCcccccHHHHHHHHHHHH
Confidence 4567777 89999999764 3568887 778999998764
No 91
>cd01301 rDP_like renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics. Although the biological function of the enzyme is still unknown, it has been suggested to play a role in the renal glutathione metabolism.
Probab=21.30 E-value=91 Score=27.06 Aligned_cols=22 Identities=14% Similarity=0.199 Sum_probs=18.2
Q ss_pred hhhhH-HHhHhcCCCHHHHHHHH
Q 035795 41 LFLAL-QRIIRRRLKIESLMQFI 62 (164)
Q Consensus 41 RlpTi-~glrRRG~~peaIr~F~ 62 (164)
+||.+ ++|.+|||+.+.|+.++
T Consensus 280 ~~~~l~~~L~~rG~s~~~i~~i~ 302 (309)
T cd01301 280 DLPNLTAELLERGYSEEEIEKIA 302 (309)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH
Confidence 56776 55999999999999876
No 92
>cd04907 ACT_ThrD-I_2 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.20 E-value=47 Score=23.11 Aligned_cols=13 Identities=31% Similarity=0.485 Sum_probs=11.9
Q ss_pred CHHHHHHHHHHhc
Q 035795 54 KIESLMQFILELY 66 (164)
Q Consensus 54 ~peaIr~F~~~iG 66 (164)
.|.|+++||..+|
T Consensus 11 rpGal~~Fl~~l~ 23 (81)
T cd04907 11 RPGALKKFLNELL 23 (81)
T ss_pred CCCHHHHHHHHhC
Confidence 4789999999999
No 93
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=21.11 E-value=1.1e+02 Score=23.01 Aligned_cols=26 Identities=0% Similarity=0.060 Sum_probs=22.7
Q ss_pred CchhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 39 NPLFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 39 DPRlpTi~glrRRG~~peaIr~F~~~ 64 (164)
=.|+-.|+-||.-|++.+.|++++..
T Consensus 45 l~~l~~I~~lr~~G~sl~eI~~~l~~ 70 (131)
T TIGR02043 45 QKRLRFILKAKELGFTLDEIKELLSI 70 (131)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 35788889999999999999999874
No 94
>PHA02891 hypothetical protein; Provisional
Probab=20.92 E-value=64 Score=24.32 Aligned_cols=29 Identities=10% Similarity=-0.024 Sum_probs=20.3
Q ss_pred cCCCHHHHHHHHHHhcceeeeeeceeEEE
Q 035795 51 RRLKIESLMQFILELYLLSLKWKTDFFIF 79 (164)
Q Consensus 51 RG~~peaIr~F~~~iG~~~i~~~~l~v~v 79 (164)
+.+||..|..|+..+|.-..=.+-||+++
T Consensus 14 kDITPSMi~kFi~~ld~e~~~n~PLPI~L 42 (120)
T PHA02891 14 KDITPSMIKKFIELLDIEAAFNDPLPIKL 42 (120)
T ss_pred CCCCHHHHHHHHHHhcHHHHhcCCCceee
Confidence 67999999999999994333334444433
No 95
>COG2137 OraA Uncharacterized protein conserved in bacteria [General function prediction only]
Probab=20.80 E-value=1e+02 Score=24.88 Aligned_cols=21 Identities=19% Similarity=0.282 Sum_probs=17.5
Q ss_pred HHHhHhcCCCHHHHHHHHHHh
Q 035795 45 LQRIIRRRLKIESLMQFILEL 65 (164)
Q Consensus 45 i~glrRRG~~peaIr~F~~~i 65 (164)
.+.|.||||+++-|..-+.+.
T Consensus 144 ~r~L~~rGFs~~~i~~~l~~~ 164 (174)
T COG2137 144 QRFLLRRGFSYEVIKEALNEA 164 (174)
T ss_pred HHHHHHcCCCHHHHHHHHHHh
Confidence 567999999999998877654
No 96
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=20.68 E-value=1.1e+02 Score=22.79 Aligned_cols=27 Identities=4% Similarity=0.027 Sum_probs=22.7
Q ss_pred CCchhhhHHHhHhcCCCHHHHHHHHHH
Q 035795 38 DNPLFLALQRIIRRRLKIESLMQFILE 64 (164)
Q Consensus 38 DDPRlpTi~glrRRG~~peaIr~F~~~ 64 (164)
|=.|+-.|+-||.-|++.+.|++++..
T Consensus 43 ~l~~l~~I~~lr~lG~sL~eI~~~l~~ 69 (127)
T TIGR02047 43 HVERLAFIRNCRTLDMSLAEIRQLLRY 69 (127)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 335788888999999999999999863
No 97
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=20.52 E-value=1.1e+02 Score=22.63 Aligned_cols=26 Identities=8% Similarity=0.071 Sum_probs=22.6
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHHh
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILEL 65 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~i 65 (164)
.|+-.|+.||.-|++.+.|++++...
T Consensus 45 ~~l~~I~~lr~~G~sL~eI~~~l~~~ 70 (126)
T cd04785 45 ERLRFIRRARDLGFSLEEIRALLALS 70 (126)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHhhh
Confidence 57888899999999999999998643
No 98
>PRK13749 transcriptional regulator MerD; Provisional
Probab=20.38 E-value=1.1e+02 Score=23.05 Aligned_cols=27 Identities=7% Similarity=0.132 Sum_probs=23.0
Q ss_pred chhhhHHHhHhcCCCHHHHHHHHHHhc
Q 035795 40 PLFLALQRIIRRRLKIESLMQFILELY 66 (164)
Q Consensus 40 PRlpTi~glrRRG~~peaIr~F~~~iG 66 (164)
.|+--|..+|+-|++.+.|++++.-..
T Consensus 48 ~rL~~I~~~r~~G~sL~eI~~ll~l~~ 74 (121)
T PRK13749 48 QRLCFVRAAFEAGIGLDALARLCRALD 74 (121)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHhhhc
Confidence 467778888999999999999988765
Done!