Query 030081
Match_columns 183
No_of_seqs 114 out of 194
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 08:13:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030081.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030081hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1573 Aldehyde reductase [Ge 100.0 7.4E-68 1.6E-72 440.5 11.3 149 28-179 12-173 (204)
2 PF05153 DUF706: Family of unk 100.0 1.3E-63 2.9E-68 430.0 7.6 125 53-179 4-139 (253)
3 TIGR03276 Phn-HD phosphonate d 97.8 2.7E-05 6E-10 65.1 4.7 57 90-147 4-60 (179)
4 COG4341 Predicted HD phosphohy 96.0 0.0085 1.8E-07 51.0 4.1 59 94-155 13-71 (186)
5 TIGR00488 putative HD superfam 95.7 0.0054 1.2E-07 48.4 1.5 36 111-146 8-47 (158)
6 smart00471 HDc Metal dependent 94.4 0.014 3.1E-07 39.8 0.5 39 110-148 3-46 (124)
7 TIGR01596 cas3_HD CRISPR-assoc 93.4 0.028 6.1E-07 43.2 0.5 34 113-146 2-47 (177)
8 TIGR00277 HDIG uncharacterized 93.1 0.065 1.4E-06 35.6 1.9 35 113-147 6-44 (80)
9 PF01966 HD: HD domain; Inter 93.0 0.027 5.8E-07 39.4 -0.1 35 113-147 2-42 (122)
10 cd00077 HDc Metal dependent ph 92.0 0.061 1.3E-06 37.1 0.7 35 112-146 3-44 (145)
11 TIGR03319 YmdA_YtgF conserved 90.9 0.25 5.3E-06 47.0 3.6 55 91-147 311-369 (514)
12 PRK00106 hypothetical protein; 90.5 0.26 5.5E-06 47.5 3.5 55 91-147 332-390 (535)
13 COG2316 Predicted hydrolase (H 89.9 0.29 6.4E-06 42.3 3.0 55 86-146 28-86 (212)
14 PF08668 HDOD: HDOD domain; I 89.3 0.61 1.3E-05 36.9 4.1 69 80-148 47-136 (196)
15 PRK07152 nadD putative nicotin 85.7 0.43 9.3E-06 42.2 1.5 35 112-146 197-235 (342)
16 PRK12703 tRNA 2'-O-methylase; 85.1 1.2 2.6E-05 40.8 4.1 60 82-147 164-227 (339)
17 TIGR00295 conserved hypothetic 83.2 0.91 2E-05 36.5 2.3 36 112-147 14-58 (164)
18 PRK12705 hypothetical protein; 82.3 1.3 2.9E-05 42.5 3.3 35 112-146 324-362 (508)
19 TIGR02621 cas3_GSU0051 CRISPR- 80.8 1.1 2.5E-05 45.4 2.5 37 110-146 674-716 (844)
20 PF13328 HD_4: HD domain; PDB: 76.4 2.2 4.7E-05 33.3 2.4 36 106-142 14-49 (153)
21 PRK12704 phosphodiesterase; Pr 74.2 3.6 7.8E-05 39.3 3.7 54 91-146 317-374 (520)
22 COG2206 c-di-GMP phosphodieste 72.8 3.1 6.8E-05 37.0 2.7 43 101-147 142-191 (344)
23 TIGR03760 ICE_TraI_Pfluor inte 70.7 2.9 6.4E-05 35.8 2.0 36 112-147 68-122 (218)
24 PRK10885 cca multifunctional t 70.1 2 4.3E-05 39.6 0.9 36 110-146 226-261 (409)
25 PRK03381 PII uridylyl-transfer 70.0 2.8 6E-05 41.6 1.9 35 111-145 420-457 (774)
26 PRK05092 PII uridylyl-transfer 67.5 3.3 7E-05 41.8 1.9 32 114-145 496-545 (931)
27 PRK13480 3'-5' exoribonuclease 64.2 3.9 8.5E-05 36.9 1.5 33 116-148 167-201 (314)
28 PRK05007 PII uridylyl-transfer 62.9 5.3 0.00011 40.3 2.3 36 110-145 460-513 (884)
29 PRK00275 glnD PII uridylyl-tra 62.0 4.6 9.9E-05 40.9 1.7 36 110-145 459-512 (895)
30 PF15608 PELOTA_1: PELOTA RNA 58.7 32 0.0007 26.9 5.5 55 64-122 16-78 (100)
31 PRK01759 glnD PII uridylyl-tra 58.6 5.9 0.00013 39.8 1.8 35 110-144 435-487 (854)
32 PRK04374 PII uridylyl-transfer 58.0 7.6 0.00017 39.3 2.5 36 110-145 448-501 (869)
33 COG1418 Predicted HD superfami 56.4 11 0.00024 32.1 2.9 37 112-148 37-77 (222)
34 PRK03059 PII uridylyl-transfer 55.8 8 0.00017 39.0 2.2 36 110-145 439-492 (856)
35 PRK00227 glnD PII uridylyl-tra 54.9 7.7 0.00017 38.7 1.9 37 110-146 379-418 (693)
36 TIGR00691 spoT_relA (p)ppGpp s 54.1 12 0.00026 36.9 3.1 34 108-142 16-49 (683)
37 TIGR03401 cyanamide_fam HD dom 53.5 8.7 0.00019 33.0 1.8 39 108-146 55-98 (228)
38 TIGR01693 UTase_glnD [Protein- 50.9 8 0.00017 38.5 1.3 35 111-145 428-480 (850)
39 COG1639 Predicted signal trans 49.8 9.8 0.00021 34.5 1.6 82 78-162 67-169 (289)
40 COG1078 HD superfamily phospho 49.0 8.4 0.00018 36.1 1.1 16 133-148 86-101 (421)
41 PRK11092 bifunctional (p)ppGpp 48.5 24 0.00051 35.3 4.1 52 90-142 23-74 (702)
42 PRK14068 exodeoxyribonuclease 48.4 24 0.00051 26.0 3.2 42 85-126 3-45 (76)
43 PRK14064 exodeoxyribonuclease 46.3 28 0.00061 25.5 3.3 43 85-127 3-46 (75)
44 TIGR02692 tRNA_CCA_actino tRNA 46.0 18 0.00039 33.6 2.8 38 110-147 257-296 (466)
45 PF06784 UPF0240: Uncharacteri 43.7 13 0.00029 31.1 1.4 34 83-127 113-146 (179)
46 PTZ00100 DnaJ chaperone protei 43.5 81 0.0018 25.1 5.7 53 71-130 41-97 (116)
47 KOG4481 Uncharacterized conser 43.0 23 0.00049 30.8 2.7 34 83-127 112-145 (194)
48 PF07514 TraI_2: Putative heli 42.9 9.5 0.00021 34.4 0.4 37 111-147 66-121 (327)
49 PRK14067 exodeoxyribonuclease 40.8 35 0.00076 25.4 3.1 43 85-127 4-47 (80)
50 PRK13298 tRNA CCA-pyrophosphor 39.9 14 0.0003 34.9 1.1 36 111-147 228-263 (417)
51 PRK08071 L-aspartate oxidase; 37.5 31 0.00067 32.2 2.9 73 73-146 415-508 (510)
52 PRK10119 putative hydrolase; P 35.7 49 0.0011 28.7 3.7 44 101-144 18-62 (231)
53 COG3481 Predicted HD-superfami 34.3 38 0.00083 30.8 2.9 47 115-163 148-197 (287)
54 PF10809 DUF2732: Protein of u 33.6 1.3E+02 0.0027 22.6 5.1 62 38-99 3-64 (77)
55 TIGR01616 nitro_assoc nitrogen 32.5 78 0.0017 24.8 4.0 54 43-99 29-84 (126)
56 PF04752 ChaC: ChaC-like prote 32.3 90 0.0019 26.0 4.6 39 86-129 124-162 (178)
57 COG3437 Response regulator con 32.3 90 0.0019 29.4 5.0 52 91-146 169-227 (360)
58 PTZ00059 dynein light chain; P 31.9 18 0.00039 26.8 0.4 12 155-166 53-65 (90)
59 TIGR01346 isocit_lyase isocitr 31.0 38 0.00082 33.3 2.4 42 107-148 386-443 (527)
60 cd03381 PAP2_glucose_6_phospha 30.8 24 0.00051 30.7 1.0 32 117-148 190-226 (235)
61 COG1713 Predicted HD superfami 30.4 39 0.00085 29.0 2.2 49 91-146 4-56 (187)
62 PRK00977 exodeoxyribonuclease 29.8 73 0.0016 23.4 3.3 43 84-126 6-49 (80)
63 cd01282 HTH_MerR-like_sg3 Heli 28.5 2.3E+02 0.005 21.2 5.9 63 31-117 24-86 (112)
64 COG1099 Predicted metal-depend 28.1 66 0.0014 29.1 3.3 60 67-127 167-233 (254)
65 PRK07094 biotin synthase; Prov 26.5 64 0.0014 27.8 2.9 44 88-140 1-44 (323)
66 PRK14069 exodeoxyribonuclease 25.8 83 0.0018 24.4 3.1 42 86-127 6-48 (95)
67 PF11884 DUF3404: Domain of un 25.8 33 0.00072 30.9 1.0 81 53-147 12-118 (262)
68 PF03656 Pam16: Pam16; InterP 25.7 22 0.00048 28.5 -0.1 17 85-103 52-68 (127)
69 PRK01286 deoxyguanosinetriphos 25.6 65 0.0014 29.6 2.9 16 131-146 86-101 (336)
70 cd03035 ArsC_Yffb Arsenate Red 25.5 84 0.0018 23.6 3.0 54 43-99 27-83 (105)
71 TIGR01280 xseB exodeoxyribonuc 25.5 85 0.0018 22.4 2.9 38 88-125 1-39 (67)
72 PF14475 Mso1_Sec1_bdg: Sec1-b 25.3 1.3E+02 0.0028 20.3 3.5 33 101-133 9-41 (41)
73 KOG2681 Metal-dependent phosph 24.1 31 0.00067 33.7 0.5 75 59-148 50-125 (498)
74 COG3584 Uncharacterized protei 23.9 43 0.00094 26.7 1.2 21 140-164 59-79 (109)
75 COG0132 BioD Dethiobiotin synt 23.8 54 0.0012 28.4 1.9 30 98-127 130-164 (223)
76 PF00010 HLH: Helix-loop-helix 23.6 1.9E+02 0.0041 18.7 4.1 38 88-125 14-53 (55)
77 PRK14063 exodeoxyribonuclease 23.3 1E+02 0.0022 22.6 3.0 42 86-127 3-45 (76)
78 COG1896 Predicted hydrolases o 22.9 49 0.0011 27.8 1.4 37 110-146 32-77 (193)
79 COG1242 Predicted Fe-S oxidore 22.9 3.5E+02 0.0076 25.3 6.9 53 91-143 129-181 (312)
80 PRK14065 exodeoxyribonuclease 22.6 91 0.002 24.1 2.7 39 84-122 21-60 (86)
81 PRK10872 relA (p)ppGpp synthet 22.2 1.2E+02 0.0026 30.9 4.2 51 89-142 34-84 (743)
82 KOG2155 Tubulin-tyrosine ligas 21.9 50 0.0011 32.8 1.4 22 114-137 369-390 (631)
83 cd07958 Anticodon_Ia_Leu_BEm A 21.6 1.4E+02 0.0031 20.8 3.5 40 66-106 47-86 (117)
84 COG2517 Predicted RNA-binding 20.5 2.2E+02 0.0048 25.2 5.0 27 108-134 62-89 (219)
85 COG1023 Gnd Predicted 6-phosph 20.0 1E+02 0.0023 28.4 3.0 60 87-159 179-250 (300)
No 1
>KOG1573 consensus Aldehyde reductase [General function prediction only]
Probab=100.00 E-value=7.4e-68 Score=440.52 Aligned_cols=149 Identities=64% Similarity=1.071 Sum_probs=139.6
Q ss_pred ecCCCCCCCCccccccCCCCcc-chhhhHHHHHHHHHhhhhhhHHHHHHHHHHhcCCCCCcCCHHHHHHHhhhccCCCCC
Q 030081 28 LDGGFLVPQTNSFGHTFRDYDA-EGERQEGVENFYRINHINQTYDFVKKMREEYGKLNRVEMSIWECCELLNDVVDESDP 106 (183)
Q Consensus 28 ~dggf~~p~~~~~~~~FR~Y~~-~~~r~~~V~~fYr~~H~~QTvdFV~~~~~~~~~~~~~~MtI~EA~e~Ln~lVDeSDP 106 (183)
.|--|+.|++++++.+||+|++ ++++++||+.|||.||+|||||||++||++|+||++.+||||||||+||++||||||
T Consensus 12 v~e~~~~pe~~a~g~~fRdY~dt~~p~q~rV~~~Y~~qH~~QTvDFVk~mr~~~gkf~~~kM~i~ec~ell~~~vDESDP 91 (204)
T KOG1573|consen 12 VDEPFVAPEVNADGRQFRDYDDTEDPLQKRVRTTYRTQHTNQTVDFVKKMRAEYGKFDKMKMTIWECCELLNEVVDESDP 91 (204)
T ss_pred ccCCCCChhhhcchhhhccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHhcccchhheeHHHHHHHHHhhhcccCC
Confidence 3445999999999999999964 688999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcchHHHHHHHHHHHHhcCCCCCchhhhhhhhcccccccccCCCCCCCeeEecccCcC---------CCC---CCCCC
Q 030081 107 DLDEPQIEHLLQTAEAIRKDYPDEDWLHLTGLIHDLGKVLNLPSFGGLPQWAVVGELHFS---------FPP---PPNPN 174 (183)
Q Consensus 107 D~dlpqi~H~lQTAEaIR~d~p~pDW~qLtGLIHDLGKvl~l~~fg~epQWaVVGDTF~~---------~~~---~~np~ 174 (183)
|+|+|||+|||||||+||++||++||||||||||||||||. |||+||||||||||+- |-| .-|||
T Consensus 92 DlDepni~Ha~QtAE~iR~~~Pd~dWlHLtaLiHDLGKvl~---f~GepQWAVvGDTfpVGC~~~~s~V~~d~~F~~NpD 168 (204)
T KOG1573|consen 92 DLDEPNIQHALQTAEAIRKDYPDEDWLHLTALIHDLGKVLA---FGGEPQWAVVGDTFPVGCAFDASNVHHDKYFDGNPD 168 (204)
T ss_pred CCchHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHH---hcCCcceeeecCcccccccccccceechhhccCCCC
Confidence 99999999999999999999999999999999999999995 5889999999999964 444 67999
Q ss_pred CCccc
Q 030081 175 FLSKI 179 (183)
Q Consensus 175 ~~~~~ 179 (183)
+.||.
T Consensus 169 ~~np~ 173 (204)
T KOG1573|consen 169 INNPK 173 (204)
T ss_pred CCCcc
Confidence 99986
No 2
>PF05153 DUF706: Family of unknown function (DUF706) ; InterPro: IPR007828 Inositol oxygenase (1.13.99.1 from EC) is involved in the biosynthesis of UDP-glucuronic acid (UDP-GlcA), providing nucleotide sugars for cell-wall polymers. It may be also involved in plant ascorbate biosynthesis [, ].; GO: 0005506 iron ion binding, 0050113 inositol oxygenase activity, 0019310 inositol catabolic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 2HUO_A 3BXD_A 2IBN_A.
Probab=100.00 E-value=1.3e-63 Score=429.96 Aligned_cols=125 Identities=62% Similarity=1.012 Sum_probs=99.9
Q ss_pred hhHHHHHHHHHhhhhhhHHHHHHHHHHhcCCCCCcCCHHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcCCCCCc
Q 030081 53 RQEGVENFYRINHINQTYDFVKKMREEYGKLNRVEMSIWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDYPDEDW 132 (183)
Q Consensus 53 r~~~V~~fYr~~H~~QTvdFV~~~~~~~~~~~~~~MtI~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~p~pDW 132 (183)
+++||++|||+||++||||||++||++|++|+|++|||||||++||+||||||||+|+|||+||||||||||++||+|||
T Consensus 4 ~~~~V~~~Y~~~h~~QTv~fv~~~~~~~~~~~~~~Mti~eA~~~L~~LvDeSDPD~d~~~i~H~lQTAEaiR~d~~~~dW 83 (253)
T PF05153_consen 4 ACDRVKEFYRLQHTNQTVDFVKKMRAKYLKFDHAEMTIWEALELLNTLVDESDPDTDLPQIQHALQTAEAIRRDHPDPDW 83 (253)
T ss_dssp -HHHHHHHHHHHHCC--HHHHHHHHHHHTT--SEEE-HHHHHHHGGG---TT-TT--S-HHHHHHHHHHHHHHHSTT-HH
T ss_pred HhHHHHHHHHHHHHhhhHHHHHHHHHHHhCCCcceeeHHHHHHHHHHhccCccCCCchhHHHHHHHHHHHHHHhCCCcch
Confidence 56789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhhcccccccccCCCCCCCeeEecccCcC---------CCC--CCCCCCCccc
Q 030081 133 LHLTGLIHDLGKVLNLPSFGGLPQWAVVGELHFS---------FPP--PPNPNFLSKI 179 (183)
Q Consensus 133 ~qLtGLIHDLGKvl~l~~fg~epQWaVVGDTF~~---------~~~--~~np~~~~~~ 179 (183)
||||||||||||||++ ||++|||+|||||||= ||. +.|||+.+|+
T Consensus 84 ~~LtGLiHDLGKvl~~--~~~e~QW~vvGDTfpVGC~f~~~iv~~e~f~~NpD~~~~~ 139 (253)
T PF05153_consen 84 MQLTGLIHDLGKVLAL--FGGEPQWAVVGDTFPVGCAFSESIVFPEFFKDNPDSKNPR 139 (253)
T ss_dssp HHHHHHHTTGGGHHHH--C-T--GGGTSS---BSSS---TTSTTCCC-TT-GGGCSTT
T ss_pred hhheehhccchhhhhh--hcCCCCceeecCceeEecccCccccChhhHhhCCCCCCcc
Confidence 9999999999999999 8899999999999954 666 8999999996
No 3
>TIGR03276 Phn-HD phosphonate degradation operons associated HDIG domain protein. This small clade of proteins are found adjacent to other genes implicated in the catabolism of phosphonates. They are members of the TIGR00277 domain family and contain a series of five invariant histidines (the domain in general has only four).
Probab=97.80 E-value=2.7e-05 Score=65.13 Aligned_cols=57 Identities=25% Similarity=0.313 Sum_probs=42.9
Q ss_pred HHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcCCCCCchhhhhhhhccccccc
Q 030081 90 IWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDYPDEDWLHLTGLIHDLGKVLN 147 (183)
Q Consensus 90 I~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~p~pDW~qLtGLIHDLGKvl~ 147 (183)
|.+-..++.......----.+||++|+||||...++++- .+=+.+++|+||+|.++.
T Consensus 4 ~~~i~~l~~~~g~~~y~Ge~Vs~leH~LQ~A~lA~~~Ga-d~elvvAALLHDIGhll~ 60 (179)
T TIGR03276 4 LDEIFALFDEHGARQYGGEAVSQLEHALQCAQLAEAAGA-DDELIVAAFLHDIGHLLA 60 (179)
T ss_pred HHHHHHHHHhcCccccCCCCCcHHHHHHHHHHHHHHcCC-CHHHHHHHHHHhcchhhh
Confidence 445555555555443223459999999999999999984 555699999999999984
No 4
>COG4341 Predicted HD phosphohydrolase [General function prediction only]
Probab=96.01 E-value=0.0085 Score=51.00 Aligned_cols=59 Identities=29% Similarity=0.381 Sum_probs=43.6
Q ss_pred HHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcCCCCCchhhhhhhhcccccccccCCCCCC
Q 030081 94 CELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDYPDEDWLHLTGLIHDLGKVLNLPSFGGLP 155 (183)
Q Consensus 94 ~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~p~pDW~qLtGLIHDLGKvl~l~~fg~ep 155 (183)
..+....-||+=----++|++|+||+|-..-++| -++=+.-+.|+||+|.+.. .||..|
T Consensus 13 ~~~F~~~g~e~y~ge~VTq~eHaLQ~AtlAerdG-a~~~lVaaALLHDiGhl~~--~~g~~p 71 (186)
T COG4341 13 AYLFLRHGDEGYSGEPVTQLEHALQCATLAERDG-ADTALVAAALLHDIGHLYA--DYGHTP 71 (186)
T ss_pred HHHHHHccccccccCcchhhhhHHHHhHHHHhcC-CcHHHHHHHHHHhHHHHhh--hcCCCc
Confidence 3333344566555556899999999999999998 4555567899999999984 366433
No 5
>TIGR00488 putative HD superfamily hydrolase of NAD metabolism. The function of this protein family is unknown. Members of this family of uncharacterized proteins from the Mycoplasmas are longer at the amino end, fused to a region of nicotinamide nucleotide adenylyltransferase, an NAD salvage biosynthesis enzyme. Members are putative metal-dependent phosphohydrolases for NAD metabolism.
Probab=95.65 E-value=0.0054 Score=48.36 Aligned_cols=36 Identities=25% Similarity=0.397 Sum_probs=28.1
Q ss_pred chHHHHHHHHHHHH----hcCCCCCchhhhhhhhcccccc
Q 030081 111 PQIEHLLQTAEAIR----KDYPDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 111 pqi~H~lQTAEaIR----~d~p~pDW~qLtGLIHDLGKvl 146 (183)
.-..|.+.+|...| +-++++++..++||+||+||.+
T Consensus 8 ~r~~Hsl~Va~~a~~lA~~~~~d~e~a~~AGLLHDIGk~~ 47 (158)
T TIGR00488 8 HRYQHCLGVGQTAKQLAEANKLDSKKAEIAGAYHDLAKFL 47 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHhccC
Confidence 46789998776543 3346789999999999999964
No 6
>smart00471 HDc Metal dependent phosphohydrolases with conserved 'HD' motif. Includes eukaryotic cyclic nucleotide phosphodiesterases (PDEc). This profile/HMM does not detect HD homologues in bacterial glycine aminoacyl-tRNA synthetases (beta subunit).
Probab=94.40 E-value=0.014 Score=39.82 Aligned_cols=39 Identities=31% Similarity=0.303 Sum_probs=28.3
Q ss_pred cchHHHHHHHHHHHHhcC---C--CCCchhhhhhhhcccccccc
Q 030081 110 EPQIEHLLQTAEAIRKDY---P--DEDWLHLTGLIHDLGKVLNL 148 (183)
Q Consensus 110 lpqi~H~lQTAEaIR~d~---p--~pDW~qLtGLIHDLGKvl~l 148 (183)
.+..+|.+++|...+.-. + +.+.+-++||+||+||....
T Consensus 3 ~~~~~H~~~v~~~~~~l~~~~~~~~~~~~~~a~LlHDig~~~~~ 46 (124)
T smart00471 3 YHVFEHSLRVAQLAAALAEELGLLDIELLLLAALLHDIGKPGTP 46 (124)
T ss_pred chHHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHcccCccCC
Confidence 356778888777665332 1 35678899999999998853
No 7
>TIGR01596 cas3_HD CRISPR-associated endonuclease Cas3-HD. CRISPR/Cas systems are widespread, mobile systems for host defense against invasive elements such as phage. In these systems, Cas3 designates one of the core proteins shared widely by multiple types of CRISPR/Cas system. This model represents an HD-like endonuclease that occurs either separately or as the N-terminal region of Cas3, the helicase-containing CRISPR-associated protein.
Probab=93.36 E-value=0.028 Score=43.21 Aligned_cols=34 Identities=38% Similarity=0.493 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHh----------cC--CCCCchhhhhhhhcccccc
Q 030081 113 IEHLLQTAEAIRK----------DY--PDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 113 i~H~lQTAEaIR~----------d~--p~pDW~qLtGLIHDLGKvl 146 (183)
.+|++.||+..+. .. ..++++-++|++||+||+-
T Consensus 2 ~~H~~~v~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~lHDiGK~~ 47 (177)
T TIGR01596 2 NEHLLDVAAVAEKLKNLDIVIADLIGKLLRELLDLLALLHDIGKIN 47 (177)
T ss_pred HHHHHHHHHHHHHHhcccHHHHHHHhhHHHHHHHHHHHHccCccCC
Confidence 4688887776653 11 1368999999999999975
No 8
>TIGR00277 HDIG uncharacterized domain HDIG. This domain is found in a few known nucleotidyltransferes and in a large number of uncharacterized proteins. It contains four widely separated His residues, the second of which is part of an invariant dipeptide His-Asp in a region matched approximately by the motif HDIG.
Probab=93.12 E-value=0.065 Score=35.55 Aligned_cols=35 Identities=26% Similarity=0.382 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHH----hcCCCCCchhhhhhhhccccccc
Q 030081 113 IEHLLQTAEAIR----KDYPDEDWLHLTGLIHDLGKVLN 147 (183)
Q Consensus 113 i~H~lQTAEaIR----~d~p~pDW~qLtGLIHDLGKvl~ 147 (183)
..|.+.+|...+ +-+.+++.+-++||+||+||+..
T Consensus 6 ~~H~~~v~~~a~~la~~~~~~~~~l~~AalLHDiG~~~~ 44 (80)
T TIGR00277 6 LQHSLEVAKLAEALARELGLDVELARRGALLHDIGKPIT 44 (80)
T ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHccCCccc
Confidence 445544444333 22345567889999999999873
No 9
>PF01966 HD: HD domain; InterPro: IPR006674 This domain is found in a superfamily of enzymes with a predicted or known phosphohydrolase activity []. These enzymes appear to be involved in the nucleic acid metabolism, signal transduction and possibly other functions in bacteria, archaea and eukaryotes. The fact that all the highly conserved residues in the HD superfamily are histidines or aspartates suggests that coordination of divalent cations is essential for the activity of these proteins [].; GO: 0008081 phosphoric diester hydrolase activity, 0046872 metal ion binding; PDB: 2CQZ_A 2Q14_C 3CCG_A 2PAU_A 2PAQ_B 2PAR_B 3BG2_A 3NQW_A 2QGS_B 2DQB_D ....
Probab=92.98 E-value=0.027 Score=39.37 Aligned_cols=35 Identities=34% Similarity=0.631 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHh---cCC---CCCchhhhhhhhccccccc
Q 030081 113 IEHLLQTAEAIRK---DYP---DEDWLHLTGLIHDLGKVLN 147 (183)
Q Consensus 113 i~H~lQTAEaIR~---d~p---~pDW~qLtGLIHDLGKvl~ 147 (183)
++|.+.+|+..++ ..+ +.+++.++||+||+||...
T Consensus 2 ~~Hs~~V~~~a~~l~~~~~~~~~~~~l~~aaLlHDiGk~~~ 42 (122)
T PF01966_consen 2 FEHSLRVAELAERLADRLGLEEDRELLRIAALLHDIGKIPT 42 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHTTTTHHST
T ss_pred hhHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhcCCCCC
Confidence 4677766655443 222 5678999999999999884
No 10
>cd00077 HDc Metal dependent phosphohydrolases with conserved 'HD' motif
Probab=92.01 E-value=0.061 Score=37.11 Aligned_cols=35 Identities=37% Similarity=0.554 Sum_probs=23.4
Q ss_pred hHHHHHHHHHHHHhc---C----CCCCchhhhhhhhcccccc
Q 030081 112 QIEHLLQTAEAIRKD---Y----PDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 112 qi~H~lQTAEaIR~d---~----p~pDW~qLtGLIHDLGKvl 146 (183)
...|.++++..+..- . .+++.+-++||+||+||..
T Consensus 3 ~~~Hs~~v~~~~~~~~~~~~~~~~~~~~l~~aaLlHDig~~~ 44 (145)
T cd00077 3 RFEHSLRVAQLARRLAEELGLSEEDIELLRLAALLHDIGKPG 44 (145)
T ss_pred hHHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHhcCCcc
Confidence 456666555444322 1 2357788999999999975
No 11
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=90.86 E-value=0.25 Score=46.99 Aligned_cols=55 Identities=22% Similarity=0.283 Sum_probs=37.3
Q ss_pred HHHHHHhhhccCCCCCCCCcchHHHHHHHHHHH----HhcCCCCCchhhhhhhhccccccc
Q 030081 91 WECCELLNDVVDESDPDLDEPQIEHLLQTAEAI----RKDYPDEDWLHLTGLIHDLGKVLN 147 (183)
Q Consensus 91 ~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaI----R~d~p~pDW~qLtGLIHDLGKvl~ 147 (183)
.+++.+|..|---+....+ ...|.+.+|... +.-+.+++...++||+||+||++.
T Consensus 311 ~~~~~~l~~l~~r~~~~~~--~l~Hs~~VA~lA~~LA~~lgld~~~a~~AGLLHDIGK~~~ 369 (514)
T TIGR03319 311 PELIKLLGRLKFRTSYGQN--VLQHSIEVAHLAGIMAAELGEDVKLAKRAGLLHDIGKAVD 369 (514)
T ss_pred HHHHHHHHHhhccccCCcc--HHHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHhcCcccc
Confidence 4667777765433222211 578988887653 344567888999999999999864
No 12
>PRK00106 hypothetical protein; Provisional
Probab=90.53 E-value=0.26 Score=47.55 Aligned_cols=55 Identities=11% Similarity=0.196 Sum_probs=41.4
Q ss_pred HHHHHHhhhccCCCCCCCCcchHHHHHHHHHHH----HhcCCCCCchhhhhhhhccccccc
Q 030081 91 WECCELLNDVVDESDPDLDEPQIEHLLQTAEAI----RKDYPDEDWLHLTGLIHDLGKVLN 147 (183)
Q Consensus 91 ~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaI----R~d~p~pDW~qLtGLIHDLGKvl~ 147 (183)
.|++.+|-.|-.-+.-+- ....|.+.+|... +.-+.++++.-++||+||+||++-
T Consensus 332 ~e~~~~lg~l~~r~sy~q--nl~~HSv~VA~lA~~lA~~lgld~e~a~~AGLLHDIGK~v~ 390 (535)
T PRK00106 332 PDLIKIMGRLQFRTSYGQ--NVLRHSVEVGKLAGILAGELGENVALARRAGFLHDMGKAID 390 (535)
T ss_pred HHHHHHHHHHhhhccCCC--cHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHhccCccC
Confidence 478888887765543332 3789999998865 444567799999999999999964
No 13
>COG2316 Predicted hydrolase (HD superfamily) [General function prediction only]
Probab=89.91 E-value=0.29 Score=42.30 Aligned_cols=55 Identities=31% Similarity=0.349 Sum_probs=42.3
Q ss_pred CcCCHHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhc----CCCCCchhhhhhhhcccccc
Q 030081 86 VEMSIWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKD----YPDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 86 ~~MtI~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d----~p~pDW~qLtGLIHDLGKvl 146 (183)
+.||-+||+++|.+.|-. .+.+.|++.++..+|.- +-|..=..++||+||+--=+
T Consensus 28 ~~i~r~ea~eLlk~hv~~------e~L~kHcla~eavMr~lARe~gEDEEkw~~~GlLHD~DYe~ 86 (212)
T COG2316 28 AAINRDEAYELLKEHVPS------ESLQKHCLAVEAVMRWLAREWGEDEEKWAVTGLLHDFDYEL 86 (212)
T ss_pred HhhcchHHHHHHHHhCCc------HHHHHHHHHHHHHHHHHHHHhCccHHHHHHHhhhhhccHHh
Confidence 458889999999999843 56899999999988743 33444447899999986544
No 14
>PF08668 HDOD: HDOD domain; InterPro: IPR013976 This domain is found in a superfamily of enzymes with a predicted or known phosphohydrolase activity. These members appear to be involved in the nucleic acid metabolism and signal transduction or possibly other functions and are restricted to bacteria, primarily the proteobacteria. The fact that all the highly conserved residues in the HD superfamily are histidines or aspartates suggests that coordination of divalent cations is essential for the activity of these proteins [].; PDB: 1VQR_D 3LJX_A 3P3Q_B 3MEM_A 3M1T_A 3HC1_A 3I7A_A.
Probab=89.25 E-value=0.61 Score=36.85 Aligned_cols=69 Identities=32% Similarity=0.325 Sum_probs=44.3
Q ss_pred hcCCCCCcCCHHHHHHHhh--------------hccCCCC-CCCC-cchHHHHHHHHHHHHh----cCC-CCCchhhhhh
Q 030081 80 YGKLNRVEMSIWECCELLN--------------DVVDESD-PDLD-EPQIEHLLQTAEAIRK----DYP-DEDWLHLTGL 138 (183)
Q Consensus 80 ~~~~~~~~MtI~EA~e~Ln--------------~lVDeSD-PD~d-lpqi~H~lQTAEaIR~----d~p-~pDW~qLtGL 138 (183)
|.++.+.--||.+|+-.|= .....+. .... .....|.+.+|..+++ ... +++-.-++||
T Consensus 47 ~~~~~~~i~sl~~Ai~~LG~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~a~~a~~la~~~~~~~~~~a~~~gL 126 (196)
T PF08668_consen 47 YFGLRRPISSLEQAISRLGLDRIRNLALALSLRSLFPSSPPYQFNLERFWRHSLAAAAIARRLARELGFDDPDEAYLAGL 126 (196)
T ss_dssp TTTSTST--SHHHHHHHHHHHHHHHHHHHHHHHHHSCTTSCTTSCHHHHHHHHHHHHHHHHHHHHHCTCCHHHHHHHHHH
T ss_pred hcCCCCCCCCHHHHHHHhCHHHHHHHHHHHHHHHHccccchhhhhHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence 3346666779999987764 1222222 1222 4467888888877753 222 3488999999
Q ss_pred hhcccccccc
Q 030081 139 IHDLGKVLNL 148 (183)
Q Consensus 139 IHDLGKvl~l 148 (183)
+||+|+++..
T Consensus 127 L~~iG~l~l~ 136 (196)
T PF08668_consen 127 LHDIGKLLLL 136 (196)
T ss_dssp HTTHHHHHHH
T ss_pred HHHHhHHHHH
Confidence 9999999876
No 15
>PRK07152 nadD putative nicotinate-nucleotide adenylyltransferase; Validated
Probab=85.65 E-value=0.43 Score=42.22 Aligned_cols=35 Identities=26% Similarity=0.330 Sum_probs=25.9
Q ss_pred hHHHHHHHHHHHHh----cCCCCCchhhhhhhhcccccc
Q 030081 112 QIEHLLQTAEAIRK----DYPDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 112 qi~H~lQTAEaIR~----d~p~pDW~qLtGLIHDLGKvl 146 (183)
-..|.+.+|...+. -+.+++=..++||+||+||+.
T Consensus 197 ~~~HSl~VA~~A~~LA~~~g~d~~~a~~AGLLHDIGK~~ 235 (342)
T PRK07152 197 RYKHCLRVAQLAAELAKKNNLDPKKAYYAGLYHDITKEW 235 (342)
T ss_pred HHHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHhhccC
Confidence 66888888765432 233557777899999999975
No 16
>PRK12703 tRNA 2'-O-methylase; Reviewed
Probab=85.13 E-value=1.2 Score=40.85 Aligned_cols=60 Identities=22% Similarity=0.289 Sum_probs=40.0
Q ss_pred CCCCCcCCHHHHHHHhhhccCCCCCCCCcchHHHHHHHHHH---HHhc-CCCCCchhhhhhhhccccccc
Q 030081 82 KLNRVEMSIWECCELLNDVVDESDPDLDEPQIEHLLQTAEA---IRKD-YPDEDWLHLTGLIHDLGKVLN 147 (183)
Q Consensus 82 ~~~~~~MtI~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEa---IR~d-~p~pDW~qLtGLIHDLGKvl~ 147 (183)
|.....++..||+++|..+--+ + ..+.|.++.|.. |-+. ..+.+=+.++||+||+||...
T Consensus 164 k~v~~ip~~ee~l~Ll~k~~~~--e----~l~~Hs~rVa~lA~~LA~~~~~D~~ll~aAALLHDIGK~k~ 227 (339)
T PRK12703 164 KLVKIIPDEDQCLDLLKKYGAS--D----LLIRHVKTVYKLAMRIADCINADRRLVAAGALLHDIGRTKT 227 (339)
T ss_pred ccccCCCCHHHHHHHHHHcCCC--h----HHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhcccccc
Confidence 3444568999999999988321 1 168888765543 3232 234555667899999999764
No 17
>TIGR00295 conserved hypothetical protein TIGR00295. This set of orthologs is narrowly defined, comprising proteins found in three Archaea but not in Pyrococcus horikoshii. The closest homologs are other archaeal proteins that appear to be represent distinct orthologous clusters.
Probab=83.19 E-value=0.91 Score=36.48 Aligned_cols=36 Identities=25% Similarity=0.397 Sum_probs=24.8
Q ss_pred hHHHHHHHHHH---HHhcC------CCCCchhhhhhhhccccccc
Q 030081 112 QIEHLLQTAEA---IRKDY------PDEDWLHLTGLIHDLGKVLN 147 (183)
Q Consensus 112 qi~H~lQTAEa---IR~d~------p~pDW~qLtGLIHDLGKvl~ 147 (183)
.+.|.+..|.. |-+.. .+.+=+-++||+||+||+..
T Consensus 14 ~~~Hs~~Va~~A~~ia~~~~~~~~~~d~~~l~~aaLLHDIGK~~~ 58 (164)
T TIGR00295 14 VRRHCLAVARVAMELAENIRKKGHEVDMDLVLKGALLHDIGRART 58 (164)
T ss_pred HHHHHHHHHHHHHHHHHHhccccccCCHHHHHHHHHHhcCCcccC
Confidence 67787776654 22221 35567788999999999864
No 18
>PRK12705 hypothetical protein; Provisional
Probab=82.27 E-value=1.3 Score=42.52 Aligned_cols=35 Identities=29% Similarity=0.397 Sum_probs=27.5
Q ss_pred hHHHHHHHHHHHH----hcCCCCCchhhhhhhhcccccc
Q 030081 112 QIEHLLQTAEAIR----KDYPDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 112 qi~H~lQTAEaIR----~d~p~pDW~qLtGLIHDLGKvl 146 (183)
.+.|.+.+|...+ +-+-+++....+||+||+||..
T Consensus 324 vl~HSl~VA~lA~~LA~~lGld~d~a~~AGLLHDIGK~i 362 (508)
T PRK12705 324 VLSHSLEVAHLAGIIAAEIGLDPALAKRAGLLHDIGKSI 362 (508)
T ss_pred HHHHHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHcCCcc
Confidence 5889999888664 3344567778899999999986
No 19
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=80.84 E-value=1.1 Score=45.43 Aligned_cols=37 Identities=24% Similarity=0.226 Sum_probs=29.1
Q ss_pred cchHHHHHHHHHHHHhc---CCCCCc---hhhhhhhhcccccc
Q 030081 110 EPQIEHLLQTAEAIRKD---YPDEDW---LHLTGLIHDLGKVL 146 (183)
Q Consensus 110 lpqi~H~lQTAEaIR~d---~p~pDW---~qLtGLIHDLGKvl 146 (183)
-+.-+|+..+|+..+.- ...++| ..++|++|||||.-
T Consensus 674 q~L~eHl~~va~lA~~fa~~~gl~~~~~~~~laGllHDlGK~~ 716 (844)
T TIGR02621 674 VALSDHLDNVFEVAKNFVAKLGLGDLDKAVRQAARLHDLGKQR 716 (844)
T ss_pred EEHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHhcccccCC
Confidence 56789999998877643 335677 57999999999976
No 20
>PF13328 HD_4: HD domain; PDB: 3NR1_B.
Probab=76.36 E-value=2.2 Score=33.28 Aligned_cols=36 Identities=28% Similarity=0.317 Sum_probs=25.0
Q ss_pred CCCCcchHHHHHHHHHHHHhcCCCCCchhhhhhhhcc
Q 030081 106 PDLDEPQIEHLLQTAEAIRKDYPDEDWLHLTGLIHDL 142 (183)
Q Consensus 106 PD~dlpqi~H~lQTAEaIR~d~p~pDW~qLtGLIHDL 142 (183)
..+..|.+.|++++|+.+..-+ -..=...+||+||.
T Consensus 14 ~~~g~py~~H~~~va~~l~~~~-~d~~~i~aalLHD~ 49 (153)
T PF13328_consen 14 RKSGEPYISHPLEVAEILAELG-LDEETIAAALLHDV 49 (153)
T ss_dssp -ST--BTTHHHHHHHHHHHTS----HHHHHHHHHTTH
T ss_pred CCCCCcHHHHHHHHHHHHHHcC-CCHHHHhhheeecH
Confidence 3455899999999999996665 33347789999984
No 21
>PRK12704 phosphodiesterase; Provisional
Probab=74.24 E-value=3.6 Score=39.33 Aligned_cols=54 Identities=24% Similarity=0.256 Sum_probs=34.3
Q ss_pred HHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHH----hcCCCCCchhhhhhhhcccccc
Q 030081 91 WECCELLNDVVDESDPDLDEPQIEHLLQTAEAIR----KDYPDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 91 ~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR----~d~p~pDW~qLtGLIHDLGKvl 146 (183)
.+++.+|..+ .-.|+.+. ....|.+-+|-..+ .-+.+++-.-++||+||+||+.
T Consensus 317 ~~i~~ll~~l-~~R~~~~q-n~l~Hs~~Va~lA~~lA~~lgld~~~a~~AgLLHDIGK~~ 374 (520)
T PRK12704 317 PELIKLLGRL-KYRTSYGQ-NVLQHSIEVAHLAGLMAAELGLDVKLAKRAGLLHDIGKAL 374 (520)
T ss_pred HHHHHHHHHh-hccCcCCC-cHhHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHccCcCc
Confidence 3556666665 33333322 24678877665443 2234567788999999999996
No 22
>COG2206 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]
Probab=72.84 E-value=3.1 Score=37.03 Aligned_cols=43 Identities=28% Similarity=0.327 Sum_probs=29.2
Q ss_pred cCCCCCCCCcchHHHHHHHHHHHHhcC---CCC----Cchhhhhhhhccccccc
Q 030081 101 VDESDPDLDEPQIEHLLQTAEAIRKDY---PDE----DWLHLTGLIHDLGKVLN 147 (183)
Q Consensus 101 VDeSDPD~dlpqi~H~lQTAEaIR~d~---p~p----DW~qLtGLIHDLGKvl~ 147 (183)
++..|+- .-.|...+|+-.+.-+ .-+ .++-++|++||+||+-.
T Consensus 142 ~~~kd~~----t~~Hs~~va~~a~~ia~~lgl~~~~i~~l~~aalLHDIGKi~i 191 (344)
T COG2206 142 IKAKDDY----TYGHSVRVAELAEAIAKKLGLSEEKIEELALAGLLHDIGKIGI 191 (344)
T ss_pred ccccchh----HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhcccccC
Confidence 6666665 4568888776554432 122 46778999999999864
No 23
>TIGR03760 ICE_TraI_Pfluor integrating conjugative element relaxase, PFL_4751 family. Members of this protein family are the TraI putative relaxases required for transfer by a subclass of integrating conjugative elements (ICE) as found in Pseudomonas fluorescens Pf-5, and understood from study of two related ICE, SXT and R391. This model represents the N-terminal domain. Note that no homology is detected to the similarly named TraI relaxase of the F plasmid.
Probab=70.74 E-value=2.9 Score=35.75 Aligned_cols=36 Identities=31% Similarity=0.461 Sum_probs=23.3
Q ss_pred hHHHHHHH---HHHHHhcCCCC-------------C---chhhhhhhhccccccc
Q 030081 112 QIEHLLQT---AEAIRKDYPDE-------------D---WLHLTGLIHDLGKVLN 147 (183)
Q Consensus 112 qi~H~lQT---AEaIR~d~p~p-------------D---W~qLtGLIHDLGKvl~ 147 (183)
.++|-+.+ |-.+++-+.-| . =.-.+||+|||||++.
T Consensus 68 Ll~HtLev~~~a~~l~~~y~~p~~~~~e~~~~~~~~w~~~~~~aaLlHDlgK~~~ 122 (218)
T TIGR03760 68 LLDHTLEVTAAAVRLSKGYLLPPGAAPEEQAAQSDAWNAAVFYAALLHDLGKLAV 122 (218)
T ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCHHHHHHhhHHHHHHHHHHHHHHhhhhhhH
Confidence 56677666 44555555211 2 3556899999999964
No 24
>PRK10885 cca multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed
Probab=70.07 E-value=2 Score=39.59 Aligned_cols=36 Identities=28% Similarity=0.171 Sum_probs=27.6
Q ss_pred cchHHHHHHHHHHHHhcCCCCCchhhhhhhhcccccc
Q 030081 110 EPQIEHLLQTAEAIRKDYPDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 110 lpqi~H~lQTAEaIR~d~p~pDW~qLtGLIHDLGKvl 146 (183)
.+...|.+.+-+.+.+-- ....+-++.|+||+||-.
T Consensus 226 ~dv~~Htl~~l~~~~~l~-~~l~lr~AaLlHDlGK~~ 261 (409)
T PRK10885 226 IDTGIHTLMVLDQAAKLS-PSLDVRFAALCHDLGKGL 261 (409)
T ss_pred CcHHHHHHHHHHHHHhcC-CCHHHHHHHHhccccCCC
Confidence 456789888887776643 345688999999999976
No 25
>PRK03381 PII uridylyl-transferase; Provisional
Probab=70.03 E-value=2.8 Score=41.61 Aligned_cols=35 Identities=34% Similarity=0.451 Sum_probs=25.1
Q ss_pred chHHHHHHHHHHH---HhcCCCCCchhhhhhhhccccc
Q 030081 111 PQIEHLLQTAEAI---RKDYPDEDWLHLTGLIHDLGKV 145 (183)
Q Consensus 111 pqi~H~lQTAEaI---R~d~p~pDW~qLtGLIHDLGKv 145 (183)
+.-+|.+.|-+.+ ...-..++.+-|++|+||+||-
T Consensus 420 tVd~Htl~~l~~~~~~~~~~~~~~lL~lAaLlHDiGKg 457 (774)
T PRK03381 420 TVDRHLVETAVRAAALTRRVARPDLLLLGALLHDIGKG 457 (774)
T ss_pred hHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHhhcCC
Confidence 4445877774444 3344457899999999999994
No 26
>PRK05092 PII uridylyl-transferase; Provisional
Probab=67.53 E-value=3.3 Score=41.77 Aligned_cols=32 Identities=22% Similarity=0.300 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHhc------------------CCCCCchhhhhhhhccccc
Q 030081 114 EHLLQTAEAIRKD------------------YPDEDWLHLTGLIHDLGKV 145 (183)
Q Consensus 114 ~H~lQTAEaIR~d------------------~p~pDW~qLtGLIHDLGKv 145 (183)
.|.++|-+.+++- -+.++.+-|++|+||+||-
T Consensus 496 ~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~lAaLlHDIGKg 545 (931)
T PRK05092 496 EHTIRAIGVLAEIERGELADEHPLASELMPKIESRRALYVAVLLHDIAKG 545 (931)
T ss_pred HHHHHHHHHHHHHhcccccccchhHHHHHHhcCCHHHHHHHHHHHHhhcC
Confidence 5888777766531 2456789999999999994
No 27
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=64.15 E-value=3.9 Score=36.85 Aligned_cols=33 Identities=42% Similarity=0.697 Sum_probs=22.6
Q ss_pred HHHHHHHHHhcCC--CCCchhhhhhhhcccccccc
Q 030081 116 LLQTAEAIRKDYP--DEDWLHLTGLIHDLGKVLNL 148 (183)
Q Consensus 116 ~lQTAEaIR~d~p--~pDW~qLtGLIHDLGKvl~l 148 (183)
+++.|.+|-..|| +.|=+-...|+||+||+.-+
T Consensus 167 v~~~~~~l~~~y~~~n~dll~agalLHDiGKi~E~ 201 (314)
T PRK13480 167 MLRLAKSICDLYPSLNKDLLYAGIILHDLGKVIEL 201 (314)
T ss_pred HHHHHHHHHHhccccCHHHHHHHHHHHHhhhHHHh
Confidence 3444555555566 33556777899999999976
No 28
>PRK05007 PII uridylyl-transferase; Provisional
Probab=62.88 E-value=5.3 Score=40.30 Aligned_cols=36 Identities=25% Similarity=0.378 Sum_probs=26.7
Q ss_pred cchHHHHHHHHHHHHh------------------cCCCCCchhhhhhhhccccc
Q 030081 110 EPQIEHLLQTAEAIRK------------------DYPDEDWLHLTGLIHDLGKV 145 (183)
Q Consensus 110 lpqi~H~lQTAEaIR~------------------d~p~pDW~qLtGLIHDLGKv 145 (183)
.+.-.|.+.|-+.+++ .-++++.+-|++|+||+||-
T Consensus 460 ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~lL~lAaLlHDIGKg 513 (884)
T PRK05007 460 YTVDEHTIRVLLKLESFADEETRQRHPLCVELYPRLPKKELLLLAALFHDIAKG 513 (884)
T ss_pred CcHhHHHHHHHHHHHHHhcccccccchHHHHHHHhcCChhHHHHHHHHHhhcCC
Confidence 4555788888776642 12467899999999999993
No 29
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=61.98 E-value=4.6 Score=40.86 Aligned_cols=36 Identities=33% Similarity=0.480 Sum_probs=26.6
Q ss_pred cchHHHHHHHHHHHHhc------------------CCCCCchhhhhhhhccccc
Q 030081 110 EPQIEHLLQTAEAIRKD------------------YPDEDWLHLTGLIHDLGKV 145 (183)
Q Consensus 110 lpqi~H~lQTAEaIR~d------------------~p~pDW~qLtGLIHDLGKv 145 (183)
.+.-+|.+.|-+.+++- -.+++.+-|++|+||+||-
T Consensus 459 ytVdeHtl~~v~~l~~l~~~~~~~~~p~~~~l~~~l~~~~lL~lAaLlHDIGKg 512 (895)
T PRK00275 459 YTVDAHTLNLIKNLRKLRYPEVSEKFPLASKLMGRLPKPELLYIAGLYHDIGKG 512 (895)
T ss_pred CcHHHHHHHHHHHHHHhhcccccccCchHHHHHHhcCCHHHHHHHHHHHhhhcC
Confidence 45566888887766541 1246789999999999994
No 30
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=58.69 E-value=32 Score=26.87 Aligned_cols=55 Identities=33% Similarity=0.535 Sum_probs=43.7
Q ss_pred hhhhhhHHHHHHHHHHhc--CCCCCcCCHHHHHHHhhh------ccCCCCCCCCcchHHHHHHHHHH
Q 030081 64 NHINQTYDFVKKMREEYG--KLNRVEMSIWECCELLND------VVDESDPDLDEPQIEHLLQTAEA 122 (183)
Q Consensus 64 ~H~~QTvdFV~~~~~~~~--~~~~~~MtI~EA~e~Ln~------lVDeSDPD~dlpqi~H~lQTAEa 122 (183)
..+.|+.++|.+..++|+ +.|+-|-+|-||-..|-. ||++ ++ -|.+.|+++-||.
T Consensus 16 ~~~~~g~~~v~~i~~~~gI~diN~IKPGIgEaTRvLLRRvP~~vLVr~--~~--~pd~~Hl~~LA~e 78 (100)
T PF15608_consen 16 APTWQGWAEVERIAERYGISDINLIKPGIGEATRVLLRRVPWKVLVRD--PD--DPDLAHLLLLAEE 78 (100)
T ss_pred chhHHHHHHHHHHHHHhCCCCcccccCChhHHHHHHHhcCCCEEEECC--CC--CccHHHHHHHHHH
Confidence 456789999999999997 466889999999998873 3443 22 2788999999985
No 31
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=58.59 E-value=5.9 Score=39.82 Aligned_cols=35 Identities=26% Similarity=0.372 Sum_probs=26.2
Q ss_pred cchHHHHHHHHHHHHh------------------cCCCCCchhhhhhhhcccc
Q 030081 110 EPQIEHLLQTAEAIRK------------------DYPDEDWLHLTGLIHDLGK 144 (183)
Q Consensus 110 lpqi~H~lQTAEaIR~------------------d~p~pDW~qLtGLIHDLGK 144 (183)
.+.-+|.+.|=+.+++ .-+.+..+-|++|+||+||
T Consensus 435 ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~lAaLlHDIGK 487 (854)
T PRK01759 435 YTVDEHTLRVMLKLESFLDEESAEQHPICHQIFSQLSDRTLLYIAALFHDIAK 487 (854)
T ss_pred CcHHHHHHHHHHHHHHHhcccccccchhHHHHHHhcCCHHHHHHHHHHHhhcC
Confidence 4566788888776542 1246778899999999999
No 32
>PRK04374 PII uridylyl-transferase; Provisional
Probab=58.01 E-value=7.6 Score=39.34 Aligned_cols=36 Identities=28% Similarity=0.323 Sum_probs=25.7
Q ss_pred cchHHHHHHHHHHHHh------------------cCCCCCchhhhhhhhccccc
Q 030081 110 EPQIEHLLQTAEAIRK------------------DYPDEDWLHLTGLIHDLGKV 145 (183)
Q Consensus 110 lpqi~H~lQTAEaIR~------------------d~p~pDW~qLtGLIHDLGKv 145 (183)
.+.-+|.+.+=+.+++ .-+.++.+-|++|+||+||-
T Consensus 448 ytVd~Htl~~l~~l~~~~~~~~~~~~~~~~~~~~~l~~~~lL~lAaLlHDIGKg 501 (869)
T PRK04374 448 YTVDQHTLMVLRNIALFAAGRADERFSIAHEVWPRLRKPELLLLAGLFHDIAKG 501 (869)
T ss_pred CcHHHHHHHHHHHHHHHhccccccccccHHHHHhccCCccHHHHHHHHHhccCC
Confidence 4556687777665542 11347889999999999994
No 33
>COG1418 Predicted HD superfamily hydrolase [General function prediction only]
Probab=56.43 E-value=11 Score=32.12 Aligned_cols=37 Identities=32% Similarity=0.471 Sum_probs=25.7
Q ss_pred hHHHHHHH---HHHHHhc-CCCCCchhhhhhhhcccccccc
Q 030081 112 QIEHLLQT---AEAIRKD-YPDEDWLHLTGLIHDLGKVLNL 148 (183)
Q Consensus 112 qi~H~lQT---AEaIR~d-~p~pDW~qLtGLIHDLGKvl~l 148 (183)
.+.|.+.+ |..|-+. +-|++=...+||+||+||..-.
T Consensus 37 ~l~H~~~Va~lA~~Ia~~~g~D~~l~~~aaLLHDIg~~~~~ 77 (222)
T COG1418 37 VLEHSLRVAYLAYRIAEEEGVDPDLALRAALLHDIGKAIDH 77 (222)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhhcccccc
Confidence 45566554 4555555 4466677889999999999854
No 34
>PRK03059 PII uridylyl-transferase; Provisional
Probab=55.85 E-value=8 Score=38.99 Aligned_cols=36 Identities=22% Similarity=0.355 Sum_probs=26.3
Q ss_pred cchHHHHHHHHHHHHh------------------cCCCCCchhhhhhhhccccc
Q 030081 110 EPQIEHLLQTAEAIRK------------------DYPDEDWLHLTGLIHDLGKV 145 (183)
Q Consensus 110 lpqi~H~lQTAEaIR~------------------d~p~pDW~qLtGLIHDLGKv 145 (183)
.+.-+|.+.|-+.+++ .-..++.+.|++|+||+||-
T Consensus 439 ytVd~Htl~~v~~l~~~~~~~~~~~~p~~~~~~~~~~~~~lL~LAaLlHDIGKg 492 (856)
T PRK03059 439 YTVDQHILMVLRNLRRFAMAEHAHEYPFCSQLIANFDRPWLLYVAALFHDIAKG 492 (856)
T ss_pred CcHhHHHHHHHHHHHHhhccccccccchHHHHHHhcCChhHHHHHHHHHhhccC
Confidence 3556688888777654 11236788999999999994
No 35
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=54.91 E-value=7.7 Score=38.65 Aligned_cols=37 Identities=32% Similarity=0.332 Sum_probs=27.2
Q ss_pred cchHHHHHHHHHHHHh---cCCCCCchhhhhhhhcccccc
Q 030081 110 EPQIEHLLQTAEAIRK---DYPDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 110 lpqi~H~lQTAEaIR~---d~p~pDW~qLtGLIHDLGKvl 146 (183)
.+.-+|.+.|-+.+.+ ....|+=+-|++|+||+||-.
T Consensus 379 ytVDeHTL~~l~~~~~~~~~~~~~~lL~LAALlHDIGKg~ 418 (693)
T PRK00227 379 HTIDEHSLNTVANCALETVTVARPDLLLLGALYHDIGKGY 418 (693)
T ss_pred CcHHHHHHHHHHHHHHhhhccCccHHHHHHHHHHhhcCCC
Confidence 3556699988776543 334567788999999999964
No 36
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=54.09 E-value=12 Score=36.93 Aligned_cols=34 Identities=32% Similarity=0.342 Sum_probs=26.8
Q ss_pred CCcchHHHHHHHHHHHHhcCCCCCchhhhhhhhcc
Q 030081 108 LDEPQIEHLLQTAEAIRKDYPDEDWLHLTGLIHDL 142 (183)
Q Consensus 108 ~dlpqi~H~lQTAEaIR~d~p~pDW~qLtGLIHDL 142 (183)
+..|.+.|.+++|+.+..-+-+++ ...+||+||.
T Consensus 16 sg~PYi~Hpl~VA~iL~~~~~D~~-~i~AaLLHDv 49 (683)
T TIGR00691 16 SGEPYIIHPLAVALILAELGMDEE-TVCAALLHDV 49 (683)
T ss_pred CCCcHHHHHHHHHHHHHHhCCCHH-HHHHHhccch
Confidence 347899999999999997663333 5678999996
No 37
>TIGR03401 cyanamide_fam HD domain protein, cyanamide hydratase family. Members of this protein family are known, so far, in the Ascomycota, a branch of the Fungi, and contain an HD domain (pfam01966), found typically in various metal-dependent phosphohydrolases. The only characterized member of this family, from the soil fungus Myrothecium verrucaria, is cyanamide hydratase (EC 4.2.1.69), a zinc-containing homohexamer that adds water to the fertilizer cyanamide (NCNH2), a nitrile compound, to produce urea (NH2-CO-NH2). Homologs are likely to be nitrile hydratases.
Probab=53.51 E-value=8.7 Score=33.00 Aligned_cols=39 Identities=21% Similarity=0.174 Sum_probs=26.8
Q ss_pred CCcchHHHHHHHHHHHHh-c----CCCCCchhhhhhhhcccccc
Q 030081 108 LDEPQIEHLLQTAEAIRK-D----YPDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 108 ~dlpqi~H~lQTAEaIR~-d----~p~pDW~qLtGLIHDLGKvl 146 (183)
-++.-+...+..|.+|-+ . .-++.=+-+++|+||+|+.-
T Consensus 55 ~~~~Hs~RV~~~a~~ia~~e~~~~~~D~evl~lAALLHDIG~~~ 98 (228)
T TIGR03401 55 ETYNHSLRVYYYGLAIARDQFPEWDLSDETWFLTCLLHDIGTTD 98 (228)
T ss_pred hhhHHHHHHHHHHHHHHHHhccccCCCHHHHHHHHHHHhhcccc
Confidence 445566666677777743 2 23566688999999999853
No 38
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=50.86 E-value=8 Score=38.49 Aligned_cols=35 Identities=34% Similarity=0.409 Sum_probs=24.8
Q ss_pred chHHHHHHHHHHHHhcC------------------CCCCchhhhhhhhccccc
Q 030081 111 PQIEHLLQTAEAIRKDY------------------PDEDWLHLTGLIHDLGKV 145 (183)
Q Consensus 111 pqi~H~lQTAEaIR~d~------------------p~pDW~qLtGLIHDLGKv 145 (183)
+.-+|.+.+.+.+.+-. +.++.+-|++|+||+||-
T Consensus 428 tVd~Htl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~lAaLlHDiGKg 480 (850)
T TIGR01693 428 TVDEHTLRTVVHLAPFARGRLAREHPLASELMPKIEDPELLYLAALLHDIGKG 480 (850)
T ss_pred chhHHHHHHHHHHHHHhccccccccccHHHHHhccCCHHHHHHHHHHHHHhcC
Confidence 33458888777665421 135678999999999994
No 39
>COG1639 Predicted signal transduction protein [Signal transduction mechanisms]
Probab=49.82 E-value=9.8 Score=34.49 Aligned_cols=82 Identities=23% Similarity=0.241 Sum_probs=50.1
Q ss_pred HHhcCCCCCcCCHHHHHHHhh-----hcc-------CCCCCCCCcchHH----HHHHHHHHH----HhcC-CCCCchhhh
Q 030081 78 EEYGKLNRVEMSIWECCELLN-----DVV-------DESDPDLDEPQIE----HLLQTAEAI----RKDY-PDEDWLHLT 136 (183)
Q Consensus 78 ~~~~~~~~~~MtI~EA~e~Ln-----~lV-------DeSDPD~dlpqi~----H~lQTAEaI----R~d~-p~pDW~qLt 136 (183)
.-|.++.+.--||-||+..|= +|| --+.++..--+.+ +++-||-.+ |.-+ ++++-.-++
T Consensus 67 S~yfg~~~~i~tl~~Ai~rLG~~~v~NLv~a~a~~~~~~~~~~~~~~~~~~w~~a~~~A~ia~~La~~~g~~~~~~~y~~ 146 (289)
T COG1639 67 SPYFGFPREITTLNEAIVRLGIGLVINLVLALAEQAIQSVNSSSAEDRQLFWDTAIETAMIAEGLARALGRADSDEAYTA 146 (289)
T ss_pred chhcCCCCccCcHHHHHHHHhHHHHHHHHHHHHHHhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHHhCcccHHHHHHH
Confidence 456778888888998887553 222 1233333322333 444444332 3334 678899999
Q ss_pred hhhhcccccccccCCCCCCCeeEecc
Q 030081 137 GLIHDLGKVLNLPSFGGLPQWAVVGE 162 (183)
Q Consensus 137 GLIHDLGKvl~l~~fg~epQWaVVGD 162 (183)
||+|.+|+++++..| |+|+-++|
T Consensus 147 gLLh~lG~l~ll~~~---~~~~~~~~ 169 (289)
T COG1639 147 GLLHNLGILVLLTDF---PDHCELLD 169 (289)
T ss_pred HHHHHccHHHHHHHh---HHHHHHHH
Confidence 999999999998333 46654443
No 40
>COG1078 HD superfamily phosphohydrolases [General function prediction only]
Probab=49.00 E-value=8.4 Score=36.10 Aligned_cols=16 Identities=31% Similarity=0.505 Sum_probs=13.7
Q ss_pred hhhhhhhhcccccccc
Q 030081 133 LHLTGLIHDLGKVLNL 148 (183)
Q Consensus 133 ~qLtGLIHDLGKvl~l 148 (183)
.+++||+||+|.--+-
T Consensus 86 ~~~AALLHDIGHgPFS 101 (421)
T COG1078 86 VRLAALLHDIGHGPFS 101 (421)
T ss_pred HHHHHHHHccCCCccc
Confidence 6788999999998754
No 41
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=48.49 E-value=24 Score=35.29 Aligned_cols=52 Identities=19% Similarity=0.270 Sum_probs=33.6
Q ss_pred HHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcCCCCCchhhhhhhhcc
Q 030081 90 IWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDYPDEDWLHLTGLIHDL 142 (183)
Q Consensus 90 I~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~p~pDW~qLtGLIHDL 142 (183)
+..|+.+.......--.....|.+.|.+++|+.+..-+-+.+ ...+||+||.
T Consensus 23 l~~A~~~A~~aH~gQ~rksGePYi~Hpl~VA~iLa~l~~D~~-ti~AaLLHDv 74 (702)
T PRK11092 23 LRQAYLVARDAHEGQTRSSGEPYITHPVAVACILAEMRLDYE-TLMAALLHDV 74 (702)
T ss_pred HHHHHHHHHHhccCCcCCCCCcHHHHHHHHHHHHHHcCCCHH-HHHHhcccch
Confidence 445666654333221122346889999999999986553222 5789999997
No 42
>PRK14068 exodeoxyribonuclease VII small subunit; Provisional
Probab=48.42 E-value=24 Score=26.05 Aligned_cols=42 Identities=14% Similarity=0.152 Sum_probs=36.0
Q ss_pred CCcCCHHHHHHHhhhccCC-CCCCCCcchHHHHHHHHHHHHhc
Q 030081 85 RVEMSIWECCELLNDVVDE-SDPDLDEPQIEHLLQTAEAIRKD 126 (183)
Q Consensus 85 ~~~MtI~EA~e~Ln~lVDe-SDPD~dlpqi~H~lQTAEaIR~d 126 (183)
+.++|..+|++-|.++|.. .++|++|.++.-+|+.+-.+-+.
T Consensus 3 ~~~~sfEeal~~Le~IV~~LE~gdl~Leesl~lyeeG~~L~k~ 45 (76)
T PRK14068 3 KETQSFEEMMQELEQIVQKLDNETVSLEESLDLYQRGMKLSAA 45 (76)
T ss_pred CCccCHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence 4578999999999999977 78899999999999888766554
No 43
>PRK14064 exodeoxyribonuclease VII small subunit; Provisional
Probab=46.26 E-value=28 Score=25.50 Aligned_cols=43 Identities=12% Similarity=0.073 Sum_probs=36.5
Q ss_pred CCcCCHHHHHHHhhhccCC-CCCCCCcchHHHHHHHHHHHHhcC
Q 030081 85 RVEMSIWECCELLNDVVDE-SDPDLDEPQIEHLLQTAEAIRKDY 127 (183)
Q Consensus 85 ~~~MtI~EA~e~Ln~lVDe-SDPD~dlpqi~H~lQTAEaIR~d~ 127 (183)
++++|..+|+.-|.++|.. .++++.|..+.-+|+.+-.+-+..
T Consensus 3 ~k~~sfEe~l~~LE~IV~~LE~~~l~Leesl~~ye~G~~L~k~c 46 (75)
T PRK14064 3 TKKKTFEEAIAELETIVEALENGSASLEDSLDMYQKGIELTKLC 46 (75)
T ss_pred CCcCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
Confidence 4568999999999999977 678999999999999887776654
No 44
>TIGR02692 tRNA_CCA_actino tRNA adenylyltransferase. The enzyme tRNA adenylyltransferase, also called tRNA-nucleotidyltransferase and CCA-adding enzyme, can add or repair the required CCA triplet at the 3'-end of tRNA molecules. Genes encoding tRNA include the CCA tail in some but not all bacteria, and this enzyme may be required for viability. Members of this family represent a distinct clade within the larger family pfam01743 (tRNA nucleotidyltransferase/poly(A) polymerase family protein). The example from Streptomyces coelicolor was shown to act as a CCA-adding enzyme and not as a poly(A) polymerase.
Probab=46.00 E-value=18 Score=33.58 Aligned_cols=38 Identities=26% Similarity=0.291 Sum_probs=26.9
Q ss_pred cchHHHHHHHHHHHHhcCC-CCC-chhhhhhhhccccccc
Q 030081 110 EPQIEHLLQTAEAIRKDYP-DED-WLHLTGLIHDLGKVLN 147 (183)
Q Consensus 110 lpqi~H~lQTAEaIR~d~p-~pD-W~qLtGLIHDLGKvl~ 147 (183)
.+...|.++|-+.+.+-.. .++ .+.|+.|+||+||-.+
T Consensus 257 ~~v~~Htl~vl~~~~~l~~~~~~~~l~lAaLLHDiGK~~t 296 (466)
T TIGR02692 257 KDVYEHSLTVLRQAIDLEDDGPDLVLRWAALLHDIGKPAT 296 (466)
T ss_pred CcHHHHHHHHHHHHHhccccccCHHHHHHHHHhhccCCCC
Confidence 4667898888776643211 123 6899999999999764
No 45
>PF06784 UPF0240: Uncharacterised protein family (UPF0240); InterPro: IPR009622 This is a group of proteins of unknown function.
Probab=43.71 E-value=13 Score=31.11 Aligned_cols=34 Identities=32% Similarity=0.532 Sum_probs=27.4
Q ss_pred CCCCcCCHHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcC
Q 030081 83 LNRVEMSIWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDY 127 (183)
Q Consensus 83 ~~~~~MtI~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~ 127 (183)
..++++|+.||+++|+..- .+|. -+|||.|-..|
T Consensus 113 vPkGkltl~qal~lL~~Hq--~~P~---------~WtaekIA~eY 146 (179)
T PF06784_consen 113 VPKGKLTLRQALELLNNHQ--LDPE---------TWTAEKIAQEY 146 (179)
T ss_pred CCCCceeHHHHHHHHHHhc--cCcc---------ccCHHHHHHHh
Confidence 4589999999999999764 3343 36899999998
No 46
>PTZ00100 DnaJ chaperone protein; Provisional
Probab=43.45 E-value=81 Score=25.09 Aligned_cols=53 Identities=23% Similarity=0.330 Sum_probs=32.9
Q ss_pred HHHHHHHHHhcC--CC--CCcCCHHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcCCCC
Q 030081 71 DFVKKMREEYGK--LN--RVEMSIWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDYPDE 130 (183)
Q Consensus 71 dFV~~~~~~~~~--~~--~~~MtI~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~p~p 130 (183)
.|..++++-|.+ +. ...||..||++.|.- .|+.+...|.-++. +.+++-|||.
T Consensus 41 ~~~~~~~~~~~~~~~~~f~~~Ms~~eAy~ILGv-----~~~As~~eIkkaYR--rLa~~~HPDk 97 (116)
T PTZ00100 41 GFNPSLGSLFLKNDLKGFENPMSKSEAYKILNI-----SPTASKERIREAHK--QLMLRNHPDN 97 (116)
T ss_pred hhhHHHHHHHhccccccccCCCCHHHHHHHcCC-----CCCCCHHHHHHHHH--HHHHHhCCCC
Confidence 467778777744 33 458999999999982 23444445554443 3445556653
No 47
>KOG4481 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.00 E-value=23 Score=30.79 Aligned_cols=34 Identities=29% Similarity=0.469 Sum_probs=25.5
Q ss_pred CCCCcCCHHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcC
Q 030081 83 LNRVEMSIWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDY 127 (183)
Q Consensus 83 ~~~~~MtI~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~ 127 (183)
..+++.||-|||++||. -.-+|. -||||-|-..+
T Consensus 112 Ipkgkit~~eAL~~ln~--hkL~pe---------tw~AekIA~ey 145 (194)
T KOG4481|consen 112 IPKGKITIVEALTFLNN--HKLLPE---------TWTAEKIAQEY 145 (194)
T ss_pred CCCCceeHHHHHHHHhh--hhcChh---------hhHHHHHHHHH
Confidence 44789999999999996 233343 37888888876
No 48
>PF07514 TraI_2: Putative helicase; InterPro: IPR011119 The members of this family are restricted to the proteobacteria. Some members have been annotated as helicase, conjugative relaxase or nickase. The majority contain an HD domain, which is found in a superfamily of enzymes with a predicted or known phosphohydrolase activity. These enzymes appear to be involved in the nucleic acid metabolism, signal transduction and possibly other functions in bacteria.
Probab=42.86 E-value=9.5 Score=34.39 Aligned_cols=37 Identities=38% Similarity=0.697 Sum_probs=24.0
Q ss_pred chHHHHHHHHH-HHHhcC----C-----------CCCch---hhhhhhhccccccc
Q 030081 111 PQIEHLLQTAE-AIRKDY----P-----------DEDWL---HLTGLIHDLGKVLN 147 (183)
Q Consensus 111 pqi~H~lQTAE-aIR~d~----p-----------~pDW~---qLtGLIHDLGKvl~ 147 (183)
..+.|.|++|. |+|-.. | .+.|- -++||+|||||++.
T Consensus 66 Gll~h~LEva~~Alrl~~~~~lp~~a~pEe~~~q~~~W~~avf~AALlhdlgk~l~ 121 (327)
T PF07514_consen 66 GLLDHTLEVAAYALRLRQGYMLPPGATPEEQAAQEPAWRYAVFYAALLHDLGKPLT 121 (327)
T ss_pred cHHHHHHHHHHHHHHHhcCeecCCCCChhhHHHHHhhhHHHHHHHHHHhccCccee
Confidence 46778887764 344321 1 34664 47899999999665
No 49
>PRK14067 exodeoxyribonuclease VII small subunit; Provisional
Probab=40.80 E-value=35 Score=25.37 Aligned_cols=43 Identities=14% Similarity=0.156 Sum_probs=36.4
Q ss_pred CCcCCHHHHHHHhhhccCC-CCCCCCcchHHHHHHHHHHHHhcC
Q 030081 85 RVEMSIWECCELLNDVVDE-SDPDLDEPQIEHLLQTAEAIRKDY 127 (183)
Q Consensus 85 ~~~MtI~EA~e~Ln~lVDe-SDPD~dlpqi~H~lQTAEaIR~d~ 127 (183)
...+|..+|++.|.++|.. .+++++|.++.-+++-|-.+-+..
T Consensus 4 ~k~~sfEeal~~LEeIV~~LE~~~l~Lees~~lyeeG~~L~k~C 47 (80)
T PRK14067 4 KKTADFEQQLARLQEIVDALEGGDLPLEESVALYKEGLGLARAC 47 (80)
T ss_pred cccCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
Confidence 4679999999999999977 788999999999998877665553
No 50
>PRK13298 tRNA CCA-pyrophosphorylase; Provisional
Probab=39.95 E-value=14 Score=34.86 Aligned_cols=36 Identities=17% Similarity=0.067 Sum_probs=24.7
Q ss_pred chHHHHHHHHHHHHhcCCCCCchhhhhhhhccccccc
Q 030081 111 PQIEHLLQTAEAIRKDYPDEDWLHLTGLIHDLGKVLN 147 (183)
Q Consensus 111 pqi~H~lQTAEaIR~d~p~pDW~qLtGLIHDLGKvl~ 147 (183)
+...|.+.+-+.+.+.- .+-++-++.|+||+||-..
T Consensus 228 d~~~htl~~l~~~~~~~-~~l~lR~AaLlHDiGK~~t 263 (417)
T PRK13298 228 NLGNYILMGLSKISKLT-KDIDIRFSYLCQFLGSMIP 263 (417)
T ss_pred hHHHHHHHHHHHHHhcC-CCHHHHHHHHHhhhcCCCC
Confidence 34567666655555443 3457889999999999764
No 51
>PRK08071 L-aspartate oxidase; Provisional
Probab=37.52 E-value=31 Score=32.20 Aligned_cols=73 Identities=26% Similarity=0.418 Sum_probs=47.6
Q ss_pred HHHHHHHhcCCCCCcCCHHHHHHHhhhccCCC---CCC---CCcchHHHHHHHHHHH---------------HhcCCCCC
Q 030081 73 VKKMREEYGKLNRVEMSIWECCELLNDVVDES---DPD---LDEPQIEHLLQTAEAI---------------RKDYPDED 131 (183)
Q Consensus 73 V~~~~~~~~~~~~~~MtI~EA~e~Ln~lVDeS---DPD---~dlpqi~H~lQTAEaI---------------R~d~p~pD 131 (183)
.++...+|....|.+-.+.+|+..|+.|-... +.+ .+.-.+..++.+|+.| |.|||...
T Consensus 415 l~~~m~~~~gi~R~~~~L~~a~~~l~~l~~~~~~~~~~~~~~~~~e~~~~l~~a~~~~~aal~R~ESRG~H~R~D~P~~~ 494 (510)
T PRK08071 415 IQEKMMKYVGIVRTEQSLSEAKRWLEKYGVRNMILDHDALTNEEIELSHMLTVAKLIVVSALQRTESRGGHYRSDYPHRN 494 (510)
T ss_pred HHHHHHhhccEEEcHHHHHHHHHHHHHHHHhhhhccccccchhHHHHHhHHHHHHHHHHHHHhCCCCccceecCCCCccc
Confidence 45566778777788888999999999884111 111 1112456788889886 45578778
Q ss_pred chhhhhhhhcccccc
Q 030081 132 WLHLTGLIHDLGKVL 146 (183)
Q Consensus 132 W~qLtGLIHDLGKvl 146 (183)
|...+ ++-.-||+.
T Consensus 495 ~~~~~-~~~~~~~~~ 508 (510)
T PRK08071 495 WRGKE-IVRTKRKLQ 508 (510)
T ss_pred cCceE-EEecCCcee
Confidence 86555 555555553
No 52
>PRK10119 putative hydrolase; Provisional
Probab=35.71 E-value=49 Score=28.70 Aligned_cols=44 Identities=18% Similarity=0.139 Sum_probs=34.4
Q ss_pred cCCCCCCCCcchHHHHHHHHHHHHhc-CCCCCchhhhhhhhcccc
Q 030081 101 VDESDPDLDEPQIEHLLQTAEAIRKD-YPDEDWLHLTGLIHDLGK 144 (183)
Q Consensus 101 VDeSDPD~dlpqi~H~lQTAEaIR~d-~p~pDW~qLtGLIHDLGK 144 (183)
....|+.=|+.-+....++|..|-+. +.+..-+.++.++||+|-
T Consensus 18 l~~~~~~HD~~Hi~RV~~lA~~Ia~~e~~D~~vv~lAAlLHDv~d 62 (231)
T PRK10119 18 HQHQDAAHDICHFRRVWATAQKLAADDDVDMLVVLTACYFHDIVS 62 (231)
T ss_pred hhcCCCccChHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhhcch
Confidence 34457777888888888899888544 346778899999999986
No 53
>COG3481 Predicted HD-superfamily hydrolase [General function prediction only]
Probab=34.31 E-value=38 Score=30.75 Aligned_cols=47 Identities=32% Similarity=0.582 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhcCCCC--CchhhhhhhhcccccccccCCCC-CCCeeEeccc
Q 030081 115 HLLQTAEAIRKDYPDE--DWLHLTGLIHDLGKVLNLPSFGG-LPQWAVVGEL 163 (183)
Q Consensus 115 H~lQTAEaIR~d~p~p--DW~qLtGLIHDLGKvl~l~~fg~-epQWaVVGDT 163 (183)
-+++-|.+|-.-||.- +=++..+++||+||++-+ -|. .+-|.|=|+-
T Consensus 148 ~~~~l~~~~~~~y~~~n~dli~Ag~ilHdigK~~el--~~~~~~~yt~~g~l 197 (287)
T COG3481 148 TVLELYKRISEIYPTVNRELIYAGAILHDIGKVLEL--TGPEATEYTVRGNL 197 (287)
T ss_pred HHHHHHHHHHhhcccccHHHHHHHHHHhcccccccC--CCcccccceeccce
Confidence 3556666666656533 677899999999999976 232 2366666653
No 54
>PF10809 DUF2732: Protein of unknown function (DUF2732); InterPro: IPR020126 This entry represents a group of proteins with no known function
Probab=33.63 E-value=1.3e+02 Score=22.60 Aligned_cols=62 Identities=15% Similarity=0.147 Sum_probs=44.2
Q ss_pred ccccccCCCCccchhhhHHHHHHHHHhhhhhhHHHHHHHHHHhcCCCCCcCCHHHHHHHhhh
Q 030081 38 NSFGHTFRDYDAEGERQEGVENFYRINHINQTYDFVKKMREEYGKLNRVEMSIWECCELLND 99 (183)
Q Consensus 38 ~~~~~~FR~Y~~~~~r~~~V~~fYr~~H~~QTvdFV~~~~~~~~~~~~~~MtI~EA~e~Ln~ 99 (183)
|.+...|....++.....-+.+.=.+-++.|..-|..+..+==......+||--||+|||..
T Consensus 3 n~e~~~~~~~~d~~~l~~lL~~AR~eeRk~~A~~~S~RL~~LA~hi~~~~ls~~E~~ELLrq 64 (77)
T PF10809_consen 3 NTETRSMKTGADAASLNELLNKARMEERKDRADAFSSRLDALAAHIANEELSAVEAAELLRQ 64 (77)
T ss_pred cchhccccCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence 34444455554422245567777788899999999887776666666789999999999974
No 55
>TIGR01616 nitro_assoc nitrogenase-associated protein. This model describes a small family of uncharacterized proteins found so far in alpha and gamma proteobacteria and in Nostoc sp. PCC 7120, a cyanobacterium. The gene for this protein is associated with nitrogenase genes. This family shows sequence similarity to TIGR00014, a glutaredoxin-dependent arsenate reductase that converts arsentate to arsenite for disposal. This family is one of several included in Pfam model pfam03960.
Probab=32.51 E-value=78 Score=24.83 Aligned_cols=54 Identities=6% Similarity=0.022 Sum_probs=38.7
Q ss_pred cCCCCccchhhhHHHHHHHHHhhhhhhHHHHHHHHHHhcCCC--CCcCCHHHHHHHhhh
Q 030081 43 TFRDYDAEGERQEGVENFYRINHINQTYDFVKKMREEYGKLN--RVEMSIWECCELLND 99 (183)
Q Consensus 43 ~FR~Y~~~~~r~~~V~~fYr~~H~~QTvdFV~~~~~~~~~~~--~~~MtI~EA~e~Ln~ 99 (183)
+||+|-...-..+.++...... -.-+++.+.-..|.+++ ...||.-||+++|-+
T Consensus 29 ~~~d~~~~p~t~~eL~~~l~~~---g~~~lin~~~~~~r~l~~~~~~ls~~e~i~lm~~ 84 (126)
T TIGR01616 29 EVQDILKEPWHADTLRPYFGNK---PVGSWFNRAAPRVKSGEVNPDSIDEASALALMVS 84 (126)
T ss_pred EEEeccCCCcCHHHHHHHHHHc---CHHHHHhccchHhhhCCCCcccCCHHHHHHHHHh
Confidence 7999987555557788887764 35677777777886544 456888888888764
No 56
>PF04752 ChaC: ChaC-like protein; InterPro: IPR006840 The ChaC protein is thought to be associated with the putative ChaA Ca2+/H+ cation transport protein in Escherichia coli. Its function is not known. This family also includes homologues regions from several other bacterial and eukaryotic proteins.
Probab=32.31 E-value=90 Score=26.02 Aligned_cols=39 Identities=23% Similarity=0.257 Sum_probs=32.6
Q ss_pred CcCCHHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcCCC
Q 030081 86 VEMSIWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDYPD 129 (183)
Q Consensus 86 ~~MtI~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~p~ 129 (183)
+..++.+....+-+-...|.| |.+.+++||+++|+-+|+
T Consensus 124 g~~~~~~~A~~Ia~a~G~~G~-----N~eYL~~l~~~L~~~gp~ 162 (178)
T PF04752_consen 124 GPLPLEEIARIIATASGPSGS-----NREYLFNLAEALRELGPG 162 (178)
T ss_pred CCCCHHHHHHHHhheECcCcC-----CHHHHHHHHHHHHHhCCC
Confidence 367888888888888877775 788999999999999863
No 57
>COG3437 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]
Probab=32.26 E-value=90 Score=29.44 Aligned_cols=52 Identities=25% Similarity=0.271 Sum_probs=33.6
Q ss_pred HHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHh---cCC----CCCchhhhhhhhcccccc
Q 030081 91 WECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRK---DYP----DEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 91 ~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~---d~p----~pDW~qLtGLIHDLGKvl 146 (183)
.+.++-|..++..-|+. -..|+..+|..++. ... .-+=++++|.+||+|||-
T Consensus 169 ~~t~~~L~~~~E~R~~e----tg~H~~Rv~~~~~~lAe~lgLse~~v~~i~~AapLHDIGKva 227 (360)
T COG3437 169 DETLEELAALLEVRDYE----TGDHLERVAQYSELLAELLGLSEEEVDLIKKAAPLHDIGKVA 227 (360)
T ss_pred HHHHHHHHHHHHhcccc----hhhHHHHHHHHHHHHHHHhCCCHHHHHHHHhccchhhccccc
Confidence 37888888888555555 34566555444332 221 125678899999999986
No 58
>PTZ00059 dynein light chain; Provisional
Probab=31.86 E-value=18 Score=26.80 Aligned_cols=12 Identities=42% Similarity=0.825 Sum_probs=9.3
Q ss_pred CCe-eEecccCcC
Q 030081 155 PQW-AVVGELHFS 166 (183)
Q Consensus 155 pQW-aVVGDTF~~ 166 (183)
|-| +|||..|-|
T Consensus 53 ~~WhciVG~~Fgs 65 (90)
T PTZ00059 53 PTWHCIVGRNFGS 65 (90)
T ss_pred CCCEEEEecCeeE
Confidence 678 788988755
No 59
>TIGR01346 isocit_lyase isocitrate lyase. Isocitrate lyase and malate synthase are the enzymes of the glyoxylate shunt, a pathway associated with the TCA cycle.
Probab=31.01 E-value=38 Score=33.32 Aligned_cols=42 Identities=24% Similarity=0.578 Sum_probs=33.4
Q ss_pred CCCcchHHHHHHHHHHHHhcCCCC----------Cc------hhhhhhhhcccccccc
Q 030081 107 DLDEPQIEHLLQTAEAIRKDYPDE----------DW------LHLTGLIHDLGKVLNL 148 (183)
Q Consensus 107 D~dlpqi~H~lQTAEaIR~d~p~p----------DW------~qLtGLIHDLGKvl~l 148 (183)
.++-|.+..+-+-||+||+.+|+. .| =++.-|+-||||+=++
T Consensus 386 ET~~Pdl~~A~~Fa~~v~~~~P~k~LaYN~SPSFNW~~~~~d~~~~~F~~~L~~lGy~ 443 (527)
T TIGR01346 386 ETSTPDLELAKKFAEGVKSKFPDQLLAYNLSPSFNWSAHMEDDEIAKFIQELGDLGYK 443 (527)
T ss_pred cCCCCCHHHHHHHHHHHHHHCCCCeEEecCCCCccccccCCHHHHHHHHHHHHhcCce
Confidence 567889999999999999999854 33 2677889999995443
No 60
>cd03381 PAP2_glucose_6_phosphatase PAP2_like proteins, glucose-6-phosphatase subfamily. Glucose-6-phosphatase converts glucose-6-phosphate into free glucose and is active in the lumen of the endoplasmic reticulum, where it is bound to the membrane. The generation of free glucose is an important control point in metabolism, and stands at the end of gluconeogenesis and the release of glucose from glycogen. Deficiency of glucose-6-phosphatase leads to von Gierke's disease.
Probab=30.79 E-value=24 Score=30.72 Aligned_cols=32 Identities=31% Similarity=0.584 Sum_probs=27.3
Q ss_pred HHHHHHHHhcCCCCCchhh-----hhhhhcccccccc
Q 030081 117 LQTAEAIRKDYPDEDWLHL-----TGLIHDLGKVLNL 148 (183)
Q Consensus 117 lQTAEaIR~d~p~pDW~qL-----tGLIHDLGKvl~l 148 (183)
+.|.|...|-.++|+|+|+ .+|+.|+|-+|.+
T Consensus 190 ~ws~~~a~kwc~~p~~~~~~ttp~~~l~r~~g~l~gl 226 (235)
T cd03381 190 LWSLEKAFKWCERPEWVHIDTTPFASLLRNLGTLLGL 226 (235)
T ss_pred hhhHHHHHhccCCCceECCCCchHHHHHHHhhhHHHH
Confidence 4577778888899999996 6899999999876
No 61
>COG1713 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]
Probab=30.43 E-value=39 Score=29.00 Aligned_cols=49 Identities=31% Similarity=0.484 Sum_probs=31.3
Q ss_pred HHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHh---cC-CCCCchhhhhhhhcccccc
Q 030081 91 WECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRK---DY-PDEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 91 ~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~---d~-p~pDW~qLtGLIHDLGKvl 146 (183)
-++...+..++.+ +-++|.+--||+.++ .+ -++.=--++|++||++|-+
T Consensus 4 ~~l~~~~~~~l~~-------kR~~H~l~V~~~A~~LA~~y~~d~~kA~~AgilHD~aK~~ 56 (187)
T COG1713 4 EELLAIVKELLSE-------KRFEHCLGVAETAIELAEAYGLDPEKAYLAGILHDIAKEL 56 (187)
T ss_pred HHHHHHHHHhcCH-------HHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhC
Confidence 3444445555443 478898876665543 22 1334478999999999976
No 62
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=29.82 E-value=73 Score=23.45 Aligned_cols=43 Identities=16% Similarity=0.185 Sum_probs=35.4
Q ss_pred CCCcCCHHHHHHHhhhccCC-CCCCCCcchHHHHHHHHHHHHhc
Q 030081 84 NRVEMSIWECCELLNDVVDE-SDPDLDEPQIEHLLQTAEAIRKD 126 (183)
Q Consensus 84 ~~~~MtI~EA~e~Ln~lVDe-SDPD~dlpqi~H~lQTAEaIR~d 126 (183)
...++|..+|++.|.++|.. -+++++|..+..+++-|-.+-+.
T Consensus 6 ~~~~~sfEea~~~LEeIv~~LE~~~l~Lees~~lyeeg~~L~k~ 49 (80)
T PRK00977 6 KSKPLSFEEALAELEEIVTRLESGDLPLEESLAAFERGVALARQ 49 (80)
T ss_pred CCCcCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Confidence 45679999999999999977 66899999999988877665444
No 63
>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=28.50 E-value=2.3e+02 Score=21.23 Aligned_cols=63 Identities=22% Similarity=0.374 Sum_probs=34.2
Q ss_pred CCCCCCCccccccCCCCccchhhhHHHHHHHHHhhhhhhHHHHHHHHHHhcCCCCCcCCHHHHHHHhhhccCCCCCCCCc
Q 030081 31 GFLVPQTNSFGHTFRDYDAEGERQEGVENFYRINHINQTYDFVKKMREEYGKLNRVEMSIWECCELLNDVVDESDPDLDE 110 (183)
Q Consensus 31 gf~~p~~~~~~~~FR~Y~~~~~r~~~V~~fYr~~H~~QTvdFV~~~~~~~~~~~~~~MtI~EA~e~Ln~lVDeSDPD~dl 110 (183)
|...|.- ..+.+|.|+. .+ |. ++.+++..| ...||+.|.-++|+......++....
T Consensus 24 GLl~p~r--~~~g~R~Y~~-~~----~~----------~l~~I~~lr-------~~G~sl~eI~~~l~~~~~~~~~~~~~ 79 (112)
T cd01282 24 GLLVPER--SANGYRDYDE-AA----VD----------RVRQIRRLL-------AAGLTLEEIREFLPCLRGGEPTFRPC 79 (112)
T ss_pred CCCCCCc--CCCCCeecCH-HH----HH----------HHHHHHHHH-------HcCCCHHHHHHHHHHhhCCCccCCcc
Confidence 7777853 3457999985 21 22 233343333 23588888888777644433333334
Q ss_pred chHHHHH
Q 030081 111 PQIEHLL 117 (183)
Q Consensus 111 pqi~H~l 117 (183)
+.+..+|
T Consensus 80 ~~~~~~l 86 (112)
T cd01282 80 PDLLAVL 86 (112)
T ss_pred HHHHHHH
Confidence 4444444
No 64
>COG1099 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]
Probab=28.09 E-value=66 Score=29.06 Aligned_cols=60 Identities=20% Similarity=0.185 Sum_probs=43.2
Q ss_pred hhhHHHHHHHHHHhcCCC--CCcCCHHHHHHHhh-----hccCCCCCCCCcchHHHHHHHHHHHHhcC
Q 030081 67 NQTYDFVKKMREEYGKLN--RVEMSIWECCELLN-----DVVDESDPDLDEPQIEHLLQTAEAIRKDY 127 (183)
Q Consensus 67 ~QTvdFV~~~~~~~~~~~--~~~MtI~EA~e~Ln-----~lVDeSDPD~dlpqi~H~lQTAEaIR~d~ 127 (183)
.+||+.|.. ++=|-+|. .+|||.|||+|.+. .++=.||-+.-.+.+--.=.||=.+++.+
T Consensus 167 ~etv~~vld-~e~~vGlTvqPgKlt~~eAveIV~ey~~~r~ilnSD~~s~~sd~lavprtal~m~~~g 233 (254)
T COG1099 167 EETVDEVLD-EEFYVGLTVQPGKLTVEEAVEIVREYGAERIILNSDAGSAASDPLAVPRTALEMEERG 233 (254)
T ss_pred HHHHHHHHh-ccceEEEEecCCcCCHHHHHHHHHHhCcceEEEecccccccccchhhhHHHHHHHHhc
Confidence 478887764 45566654 68999999999996 45556777776777666667776666544
No 65
>PRK07094 biotin synthase; Provisional
Probab=26.50 E-value=64 Score=27.81 Aligned_cols=44 Identities=39% Similarity=0.607 Sum_probs=30.2
Q ss_pred CCHHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcCCCCCchhhhhhhh
Q 030081 88 MSIWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDYPDEDWLHLTGLIH 140 (183)
Q Consensus 88 MtI~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~p~pDW~qLtGLIH 140 (183)
+|..||+++|+. +| ....+-|+++|..||+.+ ..+=.++.|+|.
T Consensus 1 ~t~~e~~~ll~~----~~----~~~~~~L~~~A~~~r~~~-~g~~v~~~~~i~ 44 (323)
T PRK07094 1 LTRDEILELLSN----DD----EEELKYLFKAADEVRKKY-VGDEVHLRGLIE 44 (323)
T ss_pred CCHHHHHHHhcC----CC----HHHHHHHHHHHHHHHHHh-CCCEEEEEEEEE
Confidence 477899999853 12 224567999999999997 445455555544
No 66
>PRK14069 exodeoxyribonuclease VII small subunit; Provisional
Probab=25.81 E-value=83 Score=24.35 Aligned_cols=42 Identities=10% Similarity=0.147 Sum_probs=36.1
Q ss_pred CcCCHHHHHHHhhhccCC-CCCCCCcchHHHHHHHHHHHHhcC
Q 030081 86 VEMSIWECCELLNDVVDE-SDPDLDEPQIEHLLQTAEAIRKDY 127 (183)
Q Consensus 86 ~~MtI~EA~e~Ln~lVDe-SDPD~dlpqi~H~lQTAEaIR~d~ 127 (183)
.+||..+|+.-|+++|.. ..+|++|..+.-+|+-+-++-+..
T Consensus 6 ~~~sFEeal~~LEeIV~~LEsgdl~LEesl~lyeeGv~L~k~C 48 (95)
T PRK14069 6 SKISFEDALRELEQIAEKLERQDFSLEESLKAYERGMELKKIC 48 (95)
T ss_pred CCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
Confidence 479999999999999976 678999999999998887776664
No 67
>PF11884 DUF3404: Domain of unknown function (DUF3404); InterPro: IPR021821 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 260 amino acids in length. This domain is found associated with PF02518 from PFAM, PF00512 from PFAM.
Probab=25.80 E-value=33 Score=30.87 Aligned_cols=81 Identities=23% Similarity=0.382 Sum_probs=51.9
Q ss_pred hhHHHHHHHHHhhhhhhH-HHHHHH-HHHhcCCCCCcCCHHHHHHHhhhccCCCCCCCC---cchHHHHHHHHHHHHhcC
Q 030081 53 RQEGVENFYRINHINQTY-DFVKKM-REEYGKLNRVEMSIWECCELLNDVVDESDPDLD---EPQIEHLLQTAEAIRKDY 127 (183)
Q Consensus 53 r~~~V~~fYr~~H~~QTv-dFV~~~-~~~~~~~~~~~MtI~EA~e~Ln~lVDeSDPD~d---lpqi~H~lQTAEaIR~d~ 127 (183)
.+++...||++--..+.+ .|-.+. ..+|.+- || +-|.--|+++ +-.|+-+.|+|+-|+..-
T Consensus 12 Lper~~~f~~~~~~~~~~~~~~~~~lq~~YP~~------------LL--~p~S~yPq~~~yp~~diq~Ly~~~~~C~~~~ 77 (262)
T PF11884_consen 12 LPERWQAFYQLFWQSSAIASYDIRELQSQYPTR------------LL--TPDSMYPQFSQYPWQDIQQLYQLAQTCQGPL 77 (262)
T ss_pred hHHHHHHHHHHHhhhCcccccCHHHHHhhCChh------------hc--CccccCCCcccCCHHHHHHHHHHHhhcCCCC
Confidence 567889999988765533 332222 2255431 00 0122246655 667888888888887765
Q ss_pred C---------------------CCCchhhhhhhhccccccc
Q 030081 128 P---------------------DEDWLHLTGLIHDLGKVLN 147 (183)
Q Consensus 128 p---------------------~pDW~qLtGLIHDLGKvl~ 147 (183)
| .+.||.=.|+||-.|.-.+
T Consensus 78 p~sP~ite~l~FerAlC~g~~L~~~WFar~~~iHP~GGSYA 118 (262)
T PF11884_consen 78 PLSPLITEPLVFERALCQGTALPPRWFARSGLIHPGGGSYA 118 (262)
T ss_pred CCCcccccchHHHHHHhCCCCCChHHHHhCCCcCCCCCcHH
Confidence 4 5689999999999986553
No 68
>PF03656 Pam16: Pam16; InterPro: IPR005341 The Pam16 protein is the fifth essential subunit of the pre-sequence translocase-associated protein import motor (PAM) []. In Saccharomyces cerevisiae (Baker's yeast), Pam16 is required for preprotein translocation into the matrix, but not for protein insertion into the inner membrane [].; PDB: 2GUZ_J.
Probab=25.69 E-value=22 Score=28.52 Aligned_cols=17 Identities=35% Similarity=0.440 Sum_probs=9.4
Q ss_pred CCcCCHHHHHHHhhhccCC
Q 030081 85 RVEMSIWECCELLNDVVDE 103 (183)
Q Consensus 85 ~~~MtI~EA~e~Ln~lVDe 103 (183)
...||+.||+..|| |++
T Consensus 52 ~~~Mtl~EA~~ILn--v~~ 68 (127)
T PF03656_consen 52 SKGMTLDEARQILN--VKE 68 (127)
T ss_dssp -----HHHHHHHHT----G
T ss_pred cCCCCHHHHHHHcC--CCC
Confidence 34799999999999 555
No 69
>PRK01286 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional
Probab=25.61 E-value=65 Score=29.58 Aligned_cols=16 Identities=38% Similarity=0.437 Sum_probs=11.6
Q ss_pred Cchhhhhhhhcccccc
Q 030081 131 DWLHLTGLIHDLGKVL 146 (183)
Q Consensus 131 DW~qLtGLIHDLGKvl 146 (183)
+=.+..+|.||||.-=
T Consensus 86 ~l~~aaaL~HDiGh~P 101 (336)
T PRK01286 86 DLTEAIALGHDLGHTP 101 (336)
T ss_pred HHHHHHHHHhcCCCCC
Confidence 3345579999999754
No 70
>cd03035 ArsC_Yffb Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine suggest that it is likely to function as a glutathione (GSH)-dependent thiol reductase. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from GSH via glutaredoxin, through a single catalytic cysteine.
Probab=25.50 E-value=84 Score=23.55 Aligned_cols=54 Identities=19% Similarity=0.290 Sum_probs=38.6
Q ss_pred cCCCCccchhhhHHHHHHHHHhhhhhhHHHHHHHHHHhcCCCC---CcCCHHHHHHHhhh
Q 030081 43 TFRDYDAEGERQEGVENFYRINHINQTYDFVKKMREEYGKLNR---VEMSIWECCELLND 99 (183)
Q Consensus 43 ~FR~Y~~~~~r~~~V~~fYr~~H~~QTvdFV~~~~~~~~~~~~---~~MtI~EA~e~Ln~ 99 (183)
+||||...+...+.++...+.+- +-+.+.+.-..|.+++- ..||..|++++|-+
T Consensus 27 ~~~di~~~p~s~~eL~~~l~~~g---~~~li~~~~~~yk~l~l~~~~~~s~~e~~~~l~~ 83 (105)
T cd03035 27 TFHDYRKDGLDAATLERWLAKVG---WETLLNKRGTTWRKLDDAQKAALDAAKAIALMLE 83 (105)
T ss_pred EEEecccCCCCHHHHHHHHHHhC---hHHHHccCchHHHhCChhhhccCCHHHHHHHHHh
Confidence 68999875555566777777543 67777777788876553 35888888888763
No 71
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=25.48 E-value=85 Score=22.36 Aligned_cols=38 Identities=21% Similarity=0.290 Sum_probs=29.7
Q ss_pred CCHHHHHHHhhhccCC-CCCCCCcchHHHHHHHHHHHHh
Q 030081 88 MSIWECCELLNDVVDE-SDPDLDEPQIEHLLQTAEAIRK 125 (183)
Q Consensus 88 MtI~EA~e~Ln~lVDe-SDPD~dlpqi~H~lQTAEaIR~ 125 (183)
||..+|++.|.++|-. .++++++..+.-+++-|-.+-+
T Consensus 1 ~sfEe~l~~Le~Iv~~LE~~~l~Leesl~lyeeG~~L~k 39 (67)
T TIGR01280 1 LSFEEALSELEQIVQKLESGDLALEEALNLFERGMALAR 39 (67)
T ss_pred CCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Confidence 7889999999999966 6788888888777776655433
No 72
>PF14475 Mso1_Sec1_bdg: Sec1-binding region of Mso1
Probab=25.30 E-value=1.3e+02 Score=20.29 Aligned_cols=33 Identities=27% Similarity=0.336 Sum_probs=19.0
Q ss_pred cCCCCCCCCcchHHHHHHHHHHHHhcCCCCCch
Q 030081 101 VDESDPDLDEPQIEHLLQTAEAIRKDYPDEDWL 133 (183)
Q Consensus 101 VDeSDPD~dlpqi~H~lQTAEaIR~d~p~pDW~ 133 (183)
-.|+|+|++-+-..|=.--|=..-+--|-|+|+
T Consensus 9 ~~E~DGdteddT~v~r~l~~yY~~k~~~~P~WL 41 (41)
T PF14475_consen 9 SSESDGDTEDDTHVHRVLRKYYTEKGRPFPGWL 41 (41)
T ss_pred ccccCCCCcchhHHHHHHHHHHHHcCCCCCCcC
Confidence 478899887544444322233333344778986
No 73
>KOG2681 consensus Metal-dependent phosphohydrolase [Function unknown]
Probab=24.11 E-value=31 Score=33.67 Aligned_cols=75 Identities=19% Similarity=0.208 Sum_probs=47.6
Q ss_pred HHHHHhhhhhhH-HHHHHHHHHhcCCCCCcCCHHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcCCCCCchhhhh
Q 030081 59 NFYRINHINQTY-DFVKKMREEYGKLNRVEMSIWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDYPDEDWLHLTG 137 (183)
Q Consensus 59 ~fYr~~H~~QTv-dFV~~~~~~~~~~~~~~MtI~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~p~pDW~qLtG 137 (183)
+|-|+-|.+|+- -|..=..+.-..|.|.-=+-|=|=++++.|=--|-|..-+++ +-+|| .|++|
T Consensus 50 ~FqRLr~vkQlGl~~~vyp~A~HsRfeHsLG~~~lA~~~v~~L~~~q~~El~It~--~d~~~-------------vqvA~ 114 (498)
T KOG2681|consen 50 LFQRLRHVKQLGLRYLVYPGANHSRFEHSLGTYTLAGILVNALNKNQCPELCITE--VDLQA-------------VQVAA 114 (498)
T ss_pred HHHHHHHHHHhCceeeeccCCccchhhhhhhhHHHHHHHHHHHhhcCCCCCCCCH--HHHHH-------------HHHHH
Confidence 577777877762 122112233333445555667788888888888888877654 33444 46889
Q ss_pred hhhcccccccc
Q 030081 138 LIHDLGKVLNL 148 (183)
Q Consensus 138 LIHDLGKvl~l 148 (183)
|+||+|.==+-
T Consensus 115 LLHDIGHGPfS 125 (498)
T KOG2681|consen 115 LLHDIGHGPFS 125 (498)
T ss_pred HHhhcCCCchh
Confidence 99999975443
No 74
>COG3584 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.87 E-value=43 Score=26.72 Aligned_cols=21 Identities=29% Similarity=0.480 Sum_probs=17.2
Q ss_pred hcccccccccCCCCCCCeeEecccC
Q 030081 140 HDLGKVLNLPSFGGLPQWAVVGELH 164 (183)
Q Consensus 140 HDLGKvl~l~~fg~epQWaVVGDTF 164 (183)
=-||..++++.+| |+|++||=
T Consensus 59 iPlGs~v~V~gYG----~ava~DTG 79 (109)
T COG3584 59 IPLGSRVYVPGYG----VAVAEDTG 79 (109)
T ss_pred ecccCEEEEcCcc----EEEEeecC
Confidence 3689999997655 99999994
No 75
>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]
Probab=23.77 E-value=54 Score=28.44 Aligned_cols=30 Identities=30% Similarity=0.290 Sum_probs=23.5
Q ss_pred hhccCCCCC-----CCCcchHHHHHHHHHHHHhcC
Q 030081 98 NDVVDESDP-----DLDEPQIEHLLQTAEAIRKDY 127 (183)
Q Consensus 98 n~lVDeSDP-----D~dlpqi~H~lQTAEaIR~d~ 127 (183)
+=..+...| -+.+.-|.|++-|+|+||+.+
T Consensus 130 D~~~~~~lpvILV~~~~LGtINHtlLt~eal~~~g 164 (223)
T COG0132 130 DLAVQLQLPVILVVGIKLGTINHTLLTVEALRARG 164 (223)
T ss_pred HHHHHcCCCEEEEecCCccHHHHHHHHHHHHHHCC
Confidence 333455566 456889999999999999997
No 76
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=23.64 E-value=1.9e+02 Score=18.71 Aligned_cols=38 Identities=13% Similarity=0.253 Sum_probs=30.8
Q ss_pred CCHHHHHHHhhhccCCC--CCCCCcchHHHHHHHHHHHHh
Q 030081 88 MSIWECCELLNDVVDES--DPDLDEPQIEHLLQTAEAIRK 125 (183)
Q Consensus 88 MtI~EA~e~Ln~lVDeS--DPD~dlpqi~H~lQTAEaIR~ 125 (183)
..|-+|++.|.++|-.. ++..-++.+.-|-.|.+.|+.
T Consensus 14 ~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~ 53 (55)
T PF00010_consen 14 DRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQ 53 (55)
T ss_dssp HHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHH
Confidence 35778999999999775 466669999999999998874
No 77
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=23.34 E-value=1e+02 Score=22.59 Aligned_cols=42 Identities=14% Similarity=0.143 Sum_probs=33.4
Q ss_pred CcCCHHHHHHHhhhccCC-CCCCCCcchHHHHHHHHHHHHhcC
Q 030081 86 VEMSIWECCELLNDVVDE-SDPDLDEPQIEHLLQTAEAIRKDY 127 (183)
Q Consensus 86 ~~MtI~EA~e~Ln~lVDe-SDPD~dlpqi~H~lQTAEaIR~d~ 127 (183)
.+||..+|+..|..+|.. .++++++..+.-+|+-+-.+-+..
T Consensus 3 ~~~sfEeal~~LE~Iv~~LE~~~l~Leesl~lyeeG~~L~k~C 45 (76)
T PRK14063 3 NKLSFEEAISQLEHLVSKLEQGDVPLEEAISYFKEGMELSKLC 45 (76)
T ss_pred cccCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
Confidence 468999999999999976 678888888888887766555443
No 78
>COG1896 Predicted hydrolases of HD superfamily [General function prediction only]
Probab=22.87 E-value=49 Score=27.77 Aligned_cols=37 Identities=27% Similarity=0.415 Sum_probs=25.1
Q ss_pred cchHHHHHHHH-------HHHHhcCC--CCCchhhhhhhhcccccc
Q 030081 110 EPQIEHLLQTA-------EAIRKDYP--DEDWLHLTGLIHDLGKVL 146 (183)
Q Consensus 110 lpqi~H~lQTA-------EaIR~d~p--~pDW~qLtGLIHDLGKvl 146 (183)
.+...|.|++| ....+.+. ++.=..+.+|+||++-.+
T Consensus 32 eSvaeHs~~va~la~~la~~~~~~~~~vn~~k~~~~AL~HD~~E~~ 77 (193)
T COG1896 32 ESVAEHSFRVAILALLLADILNAKGGEVNPEKVALMALVHDLPEAL 77 (193)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHhcccccCHHHHHHHHHhcccHHHH
Confidence 67788877765 33334221 344567889999999887
No 79
>COG1242 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=22.87 E-value=3.5e+02 Score=25.26 Aligned_cols=53 Identities=9% Similarity=0.004 Sum_probs=28.2
Q ss_pred HHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcCCCCCchhhhhhhhccc
Q 030081 91 WECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDYPDEDWLHLTGLIHDLG 143 (183)
Q Consensus 91 ~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~p~pDW~qLtGLIHDLG 143 (183)
.|.+++|.++...-+==+++..=.-=-.|+..|.|.|--.....-+-=++-.|
T Consensus 129 d~VldlL~e~~~r~~vWvELGLQT~h~~Tlk~iNRgHd~~~y~dav~r~rkrg 181 (312)
T COG1242 129 DDVLDLLAEYNKRYEVWVELGLQTAHDKTLKRINRGHDFACYVDAVKRLRKRG 181 (312)
T ss_pred HHHHHHHHHHhhheEEEEEeccchhhHHHHHHHhcccchHHHHHHHHHHHHcC
Confidence 56677777777664333333322222467788988883333333333334443
No 80
>PRK14065 exodeoxyribonuclease VII small subunit; Provisional
Probab=22.62 E-value=91 Score=24.06 Aligned_cols=39 Identities=28% Similarity=0.295 Sum_probs=33.0
Q ss_pred CCCcCCHHHHHHHhhhccCC-CCCCCCcchHHHHHHHHHH
Q 030081 84 NRVEMSIWECCELLNDVVDE-SDPDLDEPQIEHLLQTAEA 122 (183)
Q Consensus 84 ~~~~MtI~EA~e~Ln~lVDe-SDPD~dlpqi~H~lQTAEa 122 (183)
+-.+++..+.++.++.+++. +||+++|..+.-++..|-.
T Consensus 21 n~ek~sFE~klerakeiLe~LndpeisL~eSvkLYkeG~~ 60 (86)
T PRK14065 21 NAPKKSFEEHVHSLEQAIDRLNDPNLSLKDGMDLYKTAMQ 60 (86)
T ss_pred ccccccHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH
Confidence 44589999999999999987 9999999999888876643
No 81
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=22.18 E-value=1.2e+02 Score=30.88 Aligned_cols=51 Identities=8% Similarity=-0.128 Sum_probs=35.7
Q ss_pred CHHHHHHHhhhccCCCCCCCCcchHHHHHHHHHHHHhcCCCCCchhhhhhhhcc
Q 030081 89 SIWECCELLNDVVDESDPDLDEPQIEHLLQTAEAIRKDYPDEDWLHLTGLIHDL 142 (183)
Q Consensus 89 tI~EA~e~Ln~lVDeSDPD~dlpqi~H~lQTAEaIR~d~p~pDW~qLtGLIHDL 142 (183)
-|..|+++....... ..+..|.|.|-+.+|+.+-.-+ -..=--.+||+||.
T Consensus 34 ~i~~A~~~a~~~H~g--r~sGepyi~Hpl~vA~iLa~~~-~D~~ti~AaLLHD~ 84 (743)
T PRK10872 34 RLAETWAYCLQQTQG--HPDASLLLWRGVEMVEILSTLS-MDIDTLRAALLFPL 84 (743)
T ss_pred HHHHHHHHHHHhccC--CCCCChhhhhHHHHHHHHHHcC-CCHHHHHHHHhhhh
Confidence 466777777555433 5556789999999999886543 33345678999985
No 82
>KOG2155 consensus Tubulin-tyrosine ligase-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=21.91 E-value=50 Score=32.77 Aligned_cols=22 Identities=41% Similarity=0.617 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHhcCCCCCchhhhh
Q 030081 114 EHLLQTAEAIRKDYPDEDWLHLTG 137 (183)
Q Consensus 114 ~H~lQTAEaIR~d~p~pDW~qLtG 137 (183)
.|+| |+-+|+++..++|+|+|=
T Consensus 369 Kd~L--A~~a~r~~g~~~Wlq~Ty 390 (631)
T KOG2155|consen 369 KDLL--AACAMRDPGKNDWLQLTY 390 (631)
T ss_pred HHHH--HHHHhhcCCCCccccccc
Confidence 4444 888899988899999873
No 83
>cd07958 Anticodon_Ia_Leu_BEm Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases. This domain is found in leucyl tRNA synthetases (LeuRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain. In contrast to other class Ia enzymes, the anticodon is not used as an identity element in LeuRS (with exceptions such as Saccharomyces cerevisiae and some other eukaryotes). No anticodon-binding site can be defined for this family, which includes bacterial and eukaryotic mitochondrial members, as well as LeuRS from the archaeal Halobacteria. LeuRS catalyzes the transfer of leucine to the 3'-end of its tRNA.
Probab=21.63 E-value=1.4e+02 Score=20.85 Aligned_cols=40 Identities=15% Similarity=0.164 Sum_probs=25.9
Q ss_pred hhhhHHHHHHHHHHhcCCCCCcCCHHHHHHHhhhccCCCCC
Q 030081 66 INQTYDFVKKMREEYGKLNRVEMSIWECCELLNDVVDESDP 106 (183)
Q Consensus 66 ~~QTvdFV~~~~~~~~~~~~~~MtI~EA~e~Ln~lVDeSDP 106 (183)
.+++++=+.+..++| +|..+-..+++.+..+|..++.+-|
T Consensus 47 ~~~~~~~~~~~~~~~-~~~~a~~~i~~~~~~~n~~~~~~~p 86 (117)
T cd07958 47 LHKTIKKVTEDIERL-RFNTAIAALMELVNALYKYKKKDAQ 86 (117)
T ss_pred HHHHHHHHHHHHhCC-cchHHHHHHHHHHHHHHHhhccccc
Confidence 345555555555555 5666666777888888888876655
No 84
>COG2517 Predicted RNA-binding protein containing a C-terminal EMAP domain [General function prediction only]
Probab=20.52 E-value=2.2e+02 Score=25.23 Aligned_cols=27 Identities=33% Similarity=0.549 Sum_probs=22.6
Q ss_pred CCcchHHHHHHHHHHHHhcCCCC-Cchh
Q 030081 108 LDEPQIEHLLQTAEAIRKDYPDE-DWLH 134 (183)
Q Consensus 108 ~dlpqi~H~lQTAEaIR~d~p~p-DW~q 134 (183)
+|.|+..-+.-+||.|++.-|.. ||..
T Consensus 62 ~~~e~~~~l~~~a~~ive~l~~ekdw~~ 89 (219)
T COG2517 62 VDTEQMKDLKEKAEGIVEALGGEKDWST 89 (219)
T ss_pred cccHHHHHHHHHHHHHHHhcCCcchHHH
Confidence 45789999999999999998766 8864
No 85
>COG1023 Gnd Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]
Probab=20.05 E-value=1e+02 Score=28.36 Aligned_cols=60 Identities=30% Similarity=0.427 Sum_probs=43.2
Q ss_pred cCCHHHHHHHhhhccCCCCCCCCcchHHH------------HHHHHHHHHhcCCCCCchhhhhhhhcccccccccCCCCC
Q 030081 87 EMSIWECCELLNDVVDESDPDLDEPQIEH------------LLQTAEAIRKDYPDEDWLHLTGLIHDLGKVLNLPSFGGL 154 (183)
Q Consensus 87 ~MtI~EA~e~Ln~lVDeSDPD~dlpqi~H------------~lQTAEaIR~d~p~pDW~qLtGLIHDLGKvl~l~~fg~e 154 (183)
+..+|+|+-.=-+|+-+|.=|.|++++-- +=-||||.|++ | |-=|+.|-+||- +|
T Consensus 179 EYGmM~a~aEGfelL~~s~fD~D~~~VA~vW~hGSVIrSWLldLt~~Af~~d-~--~L~q~~g~v~dS----------GE 245 (300)
T COG1023 179 EYGMMQAIAEGFELLKNSPFDYDLEAVAEVWNHGSVIRSWLLDLTAEAFKKD-P--DLDQISGRVSDS----------GE 245 (300)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHhCcchHHHHHHHHHHHHHhhC-C--CHHHhcCeeccC----------CC
Confidence 45677776555566677888999988754 33589999998 3 666888888874 46
Q ss_pred CCeeE
Q 030081 155 PQWAV 159 (183)
Q Consensus 155 pQWaV 159 (183)
+.|.|
T Consensus 246 GrWTv 250 (300)
T COG1023 246 GRWTV 250 (300)
T ss_pred ceeeh
Confidence 67764
Done!