Query 030939
Match_columns 169
No_of_seqs 135 out of 459
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 06:50:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030939.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030939hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01106 NifU: NifU-like domai 99.9 6.5E-23 1.4E-27 143.6 8.8 64 86-156 1-67 (68)
2 COG0694 Thioredoxin-like prote 99.9 1.7E-21 3.7E-26 145.8 7.9 71 82-159 10-86 (93)
3 TIGR03341 YhgI_GntY IscR-regul 99.8 9.2E-21 2E-25 154.8 10.0 75 81-162 105-184 (190)
4 PRK11190 Fe/S biogenesis prote 99.8 7.3E-21 1.6E-25 155.9 8.8 78 82-166 107-190 (192)
5 TIGR02000 NifU_proper Fe-S clu 99.8 5.6E-19 1.2E-23 152.1 8.7 68 82-157 220-290 (290)
6 KOG2358 NifU-like domain-conta 99.3 6.2E-13 1.4E-17 112.3 2.3 67 83-156 125-197 (213)
7 KOG2358 NifU-like domain-conta 98.4 1.4E-07 3.1E-12 80.1 2.4 78 72-156 68-148 (213)
8 PF01883 DUF59: Domain of unkn 97.8 9.2E-05 2E-09 50.6 6.2 69 83-156 1-72 (72)
9 TIGR02945 SUF_assoc FeS assemb 96.4 0.012 2.6E-07 42.5 5.9 70 83-157 3-76 (99)
10 COG2151 PaaD Predicted metal-s 96.1 0.052 1.1E-06 42.1 8.4 75 82-157 6-88 (111)
11 TIGR03406 FeS_long_SufT probab 94.9 0.092 2E-06 43.1 6.4 72 80-156 72-151 (174)
12 PRK11670 antiporter inner memb 93.9 0.19 4E-06 44.8 6.6 72 80-156 11-85 (369)
13 TIGR02159 PA_CoA_Oxy4 phenylac 91.7 0.68 1.5E-05 37.0 6.4 47 108-156 14-62 (146)
14 PRK03941 NTPase; Reviewed 85.8 0.93 2E-05 37.6 3.5 42 69-112 33-74 (174)
15 PRK11702 hypothetical protein; 83.4 6.7 0.00015 30.7 7.0 68 81-158 33-101 (108)
16 PF10646 Germane: Sporulation 82.5 6 0.00013 28.4 6.1 52 113-164 57-115 (117)
17 TIGR00258 inosine/xanthosine t 78.4 2.6 5.7E-05 34.5 3.5 43 69-112 29-72 (163)
18 PRK03114 NTPase; Reviewed 75.7 3.4 7.4E-05 34.1 3.4 43 69-112 29-72 (169)
19 PRK05074 inosine/xanthosine tr 73.2 3.8 8.2E-05 34.0 3.1 43 69-112 37-81 (173)
20 PF08925 DUF1907: Domain of Un 72.5 3.2 7E-05 37.1 2.7 56 88-146 165-221 (284)
21 PRK01170 phosphopantetheine ad 66.5 6.3 0.00014 35.5 3.3 39 70-112 184-222 (322)
22 PF13192 Thioredoxin_3: Thiore 65.0 8.8 0.00019 26.3 3.1 34 121-159 3-36 (76)
23 PF01545 Cation_efflux: Cation 62.8 38 0.00082 27.7 6.9 23 134-156 254-276 (284)
24 PF04320 DUF469: Protein with 62.7 47 0.001 25.7 7.0 68 81-158 27-95 (101)
25 PRK14429 acylphosphatase; Prov 59.8 36 0.00079 24.7 5.7 58 94-160 18-75 (90)
26 PRK14424 acylphosphatase; Prov 59.5 38 0.00082 25.2 5.8 56 94-158 23-78 (94)
27 PF11718 CPSF73-100_C: Pre-mRN 59.0 46 0.001 28.0 6.9 62 86-147 143-209 (216)
28 PRK14448 acylphosphatase; Prov 58.9 38 0.00082 24.7 5.7 61 94-163 18-78 (90)
29 PRK14432 acylphosphatase; Prov 58.6 34 0.00073 25.2 5.4 61 94-163 18-79 (93)
30 PF04246 RseC_MucC: Positive r 57.1 8.9 0.00019 29.2 2.2 21 113-133 1-23 (135)
31 PRK14445 acylphosphatase; Prov 56.3 59 0.0013 23.6 6.3 61 94-163 20-80 (91)
32 TIGR00532 HMG_CoA_R_NAD hydrox 56.0 97 0.0021 28.9 9.1 64 82-152 142-216 (393)
33 PF09883 DUF2110: Uncharacteri 56.0 35 0.00076 29.9 5.9 52 86-151 11-66 (225)
34 COG1986 Inosine/xanthosine tri 54.1 17 0.00037 30.7 3.6 44 69-113 34-78 (175)
35 PRK14446 acylphosphatase; Prov 54.0 58 0.0013 23.9 6.0 61 94-163 18-78 (88)
36 PRK14428 acylphosphatase; Prov 53.9 50 0.0011 24.8 5.8 61 94-163 24-84 (97)
37 PF01931 NTPase_I-T: Protein o 52.4 14 0.0003 30.3 2.8 43 69-112 30-74 (168)
38 PRK14427 acylphosphatase; Prov 51.8 60 0.0013 23.9 5.8 59 94-161 22-80 (94)
39 PRK14441 acylphosphatase; Prov 51.7 74 0.0016 23.3 6.3 58 94-160 21-78 (93)
40 PRK14426 acylphosphatase; Prov 50.6 55 0.0012 23.9 5.4 62 94-163 20-81 (92)
41 PRK14422 acylphosphatase; Prov 50.2 51 0.0011 24.2 5.2 57 94-159 22-78 (93)
42 COG1820 NagA N-acetylglucosami 50.0 17 0.00036 33.8 3.1 67 82-156 99-168 (380)
43 PRK14425 acylphosphatase; Prov 48.3 73 0.0016 23.4 5.8 61 94-163 22-82 (94)
44 CHL00123 rps6 ribosomal protei 47.6 35 0.00076 25.2 4.0 53 80-144 17-83 (97)
45 PF00958 GMP_synt_C: GMP synth 47.6 34 0.00074 25.9 4.0 51 103-156 24-81 (93)
46 PRK14436 acylphosphatase; Prov 47.4 76 0.0016 23.2 5.7 60 94-162 20-79 (91)
47 PRK10718 RpoE-regulated lipopr 46.7 25 0.00055 30.1 3.5 53 69-128 43-100 (191)
48 PRK14435 acylphosphatase; Prov 45.6 79 0.0017 23.0 5.6 61 94-163 18-78 (90)
49 PRK14444 acylphosphatase; Prov 45.2 79 0.0017 23.1 5.5 61 94-163 20-80 (92)
50 PRK14420 acylphosphatase; Prov 44.4 81 0.0017 22.7 5.4 61 94-163 18-78 (91)
51 PRK14442 acylphosphatase; Prov 43.5 87 0.0019 22.9 5.5 61 94-163 20-80 (91)
52 PRK14438 acylphosphatase; Prov 43.4 95 0.0021 22.6 5.7 56 94-158 19-74 (91)
53 TIGR02174 CXXU_selWTH selT/sel 41.0 45 0.00097 23.3 3.5 24 128-151 5-29 (72)
54 TIGR01327 PGDH D-3-phosphoglyc 40.6 19 0.00041 33.6 2.0 25 102-127 427-451 (525)
55 PRK00135 scpB segregation and 40.4 63 0.0014 26.8 4.9 33 81-120 32-64 (188)
56 PRK14434 acylphosphatase; Prov 40.4 87 0.0019 23.0 5.1 57 94-158 18-76 (92)
57 TIGR01297 CDF cation diffusion 39.5 1.3E+02 0.0027 24.6 6.5 37 121-157 227-264 (268)
58 PF00403 HMA: Heavy-metal-asso 39.2 25 0.00054 22.6 1.9 27 127-158 7-33 (62)
59 PRK14447 acylphosphatase; Prov 38.9 1.5E+02 0.0032 21.8 6.2 61 94-163 20-81 (95)
60 TIGR00719 sda_beta L-serine de 38.7 20 0.00044 29.6 1.7 45 102-147 124-172 (208)
61 PF03147 FDX-ACB: Ferredoxin-f 38.7 36 0.00078 24.4 2.8 24 79-102 67-90 (94)
62 COG0211 RpmA Ribosomal protein 38.6 40 0.00086 25.8 3.1 26 102-127 48-73 (87)
63 PF04079 DUF387: Putative tran 37.8 81 0.0018 25.5 5.0 40 82-129 25-64 (159)
64 PRK11688 hypothetical protein; 37.8 84 0.0018 24.2 5.0 43 81-132 4-50 (154)
65 PRK14423 acylphosphatase; Prov 37.7 1.6E+02 0.0034 21.5 6.1 58 94-160 21-78 (92)
66 PF02061 Lambda_CIII: Lambda P 37.4 34 0.00074 23.3 2.3 21 127-147 8-31 (45)
67 PRK14451 acylphosphatase; Prov 37.3 1.3E+02 0.0027 22.0 5.6 61 94-163 19-79 (89)
68 cd07028 RNAP_RPB3_like RPB3 su 36.8 1.1E+02 0.0025 25.7 5.9 45 110-158 2-48 (212)
69 PF00708 Acylphosphatase: Acyl 36.1 91 0.002 22.1 4.6 54 94-156 20-73 (91)
70 PRK14430 acylphosphatase; Prov 35.6 1.3E+02 0.0029 22.0 5.5 51 105-163 30-80 (92)
71 PF10865 DUF2703: Domain of un 34.5 68 0.0015 25.2 3.9 22 79-100 18-39 (120)
72 PRK00453 rpsF 30S ribosomal pr 34.4 74 0.0016 23.4 4.0 61 80-153 13-87 (108)
73 PRK13581 D-3-phosphoglycerate 34.2 26 0.00056 32.8 1.8 25 102-127 428-452 (526)
74 PRK14421 acylphosphatase; Prov 33.7 1.2E+02 0.0026 22.8 5.1 61 94-163 20-80 (99)
75 PF04455 Saccharop_dh_N: LOR/S 33.6 2.2E+02 0.0048 21.9 8.2 69 86-169 18-96 (103)
76 KOG1664 Vacuolar H+-ATPase V1 33.4 74 0.0016 27.9 4.4 65 81-152 137-210 (220)
77 PF09012 FeoC: FeoC like trans 33.3 64 0.0014 21.9 3.3 40 79-135 24-63 (69)
78 PF09650 PHA_gran_rgn: Putativ 33.1 1.9E+02 0.0042 21.1 6.5 66 78-148 6-83 (87)
79 PF01250 Ribosomal_S6: Ribosom 33.1 91 0.002 22.0 4.1 54 80-145 12-79 (92)
80 COG1999 Uncharacterized protei 32.0 69 0.0015 26.5 3.8 52 103-154 42-105 (207)
81 PF15092 UPF0728: Uncharacteri 31.6 1E+02 0.0022 23.7 4.3 33 89-128 26-59 (88)
82 cd01997 GMP_synthase_C The C-t 31.4 77 0.0017 27.9 4.2 74 80-156 186-283 (295)
83 PF01206 TusA: Sulfurtransfera 30.8 48 0.001 22.1 2.3 32 131-163 9-41 (70)
84 PF05258 DUF721: Protein of un 30.8 1.7E+02 0.0036 19.6 6.7 48 108-155 38-88 (89)
85 PRK06925 flagellar motor prote 30.7 3.2E+02 0.0069 22.8 8.3 65 84-155 81-154 (230)
86 PRK14437 acylphosphatase; Prov 30.7 1.8E+02 0.0039 22.2 5.7 61 94-163 39-99 (109)
87 PRK14431 acylphosphatase; Prov 30.3 2.2E+02 0.0047 20.8 5.9 60 94-162 18-77 (89)
88 PRK14439 acylphosphatase; Prov 29.7 1.4E+02 0.003 25.0 5.2 59 94-160 91-149 (163)
89 PRK14452 acylphosphatase; Prov 29.5 1.6E+02 0.0034 22.5 5.1 61 94-163 36-96 (107)
90 PRK14449 acylphosphatase; Prov 29.2 2E+02 0.0044 20.8 5.5 60 94-162 19-78 (90)
91 COG4551 Predicted protein tyro 29.1 95 0.002 24.6 3.9 56 65-121 27-88 (109)
92 PRK04217 hypothetical protein; 29.0 28 0.00062 26.9 1.0 22 36-57 19-40 (110)
93 cd03026 AhpF_NTD_C TRX-GRX-lik 29.0 1.6E+02 0.0034 21.0 4.9 29 122-152 17-45 (89)
94 PF11684 DUF3280: Protein of u 28.9 60 0.0013 26.0 2.9 46 84-137 28-76 (140)
95 PRK13613 lipoprotein LpqB; Pro 28.8 1.4E+02 0.0031 28.9 5.9 78 82-164 213-299 (599)
96 COG1514 LigT 2'-5' RNA ligase 28.7 1E+02 0.0022 25.3 4.2 43 83-133 10-52 (180)
97 PF03646 FlaG: FlaG protein; 28.6 2.3E+02 0.0051 20.6 5.9 44 79-129 32-76 (107)
98 PF04404 ERF: ERF superfamily; 28.0 1.4E+02 0.003 23.1 4.7 20 81-100 26-45 (160)
99 PF10262 Rdx: Rdx family; Int 28.0 94 0.002 21.5 3.4 34 120-156 2-37 (76)
100 PRK10862 SoxR reducing system 27.9 60 0.0013 25.9 2.7 23 111-133 6-30 (154)
101 TIGR00884 guaA_Cterm GMP synth 27.4 2.4E+02 0.0052 24.9 6.6 74 80-156 201-298 (311)
102 PRK13253 citrate lyase subunit 27.0 2.7E+02 0.006 21.0 6.0 54 105-159 12-68 (92)
103 TIGR01159 DRP1 density-regulat 27.0 1.1E+02 0.0024 25.5 4.2 49 93-158 120-172 (173)
104 PF03332 PMM: Eukaryotic phosp 26.8 2E+02 0.0042 25.1 5.8 71 80-156 64-148 (220)
105 cd07030 RNAP_D D subunit of Ar 25.7 2.3E+02 0.0049 23.9 5.9 44 110-157 2-47 (259)
106 COG0360 RpsF Ribosomal protein 25.4 1.1E+02 0.0023 23.8 3.7 30 80-116 12-41 (112)
107 PLN02199 shikimate kinase 25.3 2E+02 0.0043 26.0 5.8 74 27-100 10-103 (303)
108 COG2608 CopZ Copper chaperone 25.0 65 0.0014 22.2 2.2 34 122-160 5-39 (71)
109 PF02591 DUF164: Putative zinc 24.7 37 0.0008 22.4 0.9 22 126-147 22-43 (56)
110 PRK14450 acylphosphatase; Prov 24.6 2.7E+02 0.006 20.1 5.6 56 94-158 18-74 (91)
111 KOG4048 Uncharacterized conser 24.6 1.1E+02 0.0024 26.3 3.9 53 91-146 73-126 (201)
112 PF06857 ACP: Malonate decarbo 24.5 2.8E+02 0.0061 20.6 5.6 55 105-160 11-68 (87)
113 PRK14443 acylphosphatase; Prov 24.4 2.8E+02 0.006 20.6 5.6 57 94-158 20-76 (93)
114 PRK00783 DNA-directed RNA poly 24.4 2.2E+02 0.0048 24.0 5.7 44 110-157 2-47 (263)
115 COG3086 RseC Positive regulato 24.3 1.6E+02 0.0034 24.6 4.6 47 113-159 8-58 (150)
116 PRK00111 hypothetical protein; 24.1 2.8E+02 0.0061 23.3 6.1 54 109-162 105-161 (180)
117 PLN02557 phosphoribosylformylg 23.9 1.7E+02 0.0036 27.0 5.2 38 83-127 68-105 (379)
118 PF01590 GAF: GAF domain; Int 23.6 2.5E+02 0.0055 19.5 5.1 36 83-125 3-38 (154)
119 TIGR00281 segregation and cond 23.5 1.8E+02 0.0038 24.3 4.8 36 83-126 32-67 (186)
120 TIGR00166 S6 ribosomal protein 22.8 1.5E+02 0.0033 21.2 3.8 28 80-115 12-39 (93)
121 cd07304 Chorismate_synthase Ch 22.7 1.4E+02 0.003 27.5 4.4 63 81-161 181-247 (344)
122 PF05642 Sporozoite_P67: Sporo 22.6 74 0.0016 31.9 2.8 22 72-93 579-600 (727)
123 COG3449 DNA gyrase inhibitor [ 22.4 1.7E+02 0.0036 24.2 4.4 33 109-145 1-34 (154)
124 TIGR03274 methan_mark_7 putati 22.2 75 0.0016 29.1 2.5 23 78-100 196-218 (302)
125 COG1579 Zn-ribbon protein, pos 22.1 53 0.0011 28.7 1.5 28 119-146 189-217 (239)
126 cd00365 HMG-CoA_reductase Hydr 22.0 4.3E+02 0.0093 24.5 7.4 62 83-151 129-197 (376)
127 cd04733 OYE_like_2_FMN Old yel 22.0 2.7E+02 0.0058 24.3 5.8 68 22-93 82-151 (338)
128 PF07723 LRR_2: Leucine Rich R 21.6 77 0.0017 18.4 1.7 21 12-32 6-26 (26)
129 cd05568 PTS_IIB_bgl_like PTS_I 21.2 1.1E+02 0.0024 20.4 2.7 27 136-162 13-39 (85)
130 PF12957 DUF3846: Domain of un 21.2 1.1E+02 0.0025 22.0 2.9 27 107-133 27-54 (95)
131 cd07059 BMC_PduA 1,2-propanedi 20.4 1.5E+02 0.0033 21.7 3.5 34 108-141 23-59 (85)
132 PRK01220 malonate decarboxylas 20.2 4.2E+02 0.0091 20.6 6.5 53 105-158 23-77 (99)
133 PLN02754 chorismate synthase 20.1 1.7E+02 0.0037 27.8 4.5 61 82-160 215-279 (413)
134 COG3866 PelB Pectate lyase [Ca 20.1 46 0.001 30.9 0.8 44 9-56 188-236 (345)
135 PRK13523 NADPH dehydrogenase N 20.0 6.2E+02 0.014 22.5 8.7 70 22-100 81-152 (337)
No 1
>PF01106 NifU: NifU-like domain; InterPro: IPR001075 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents the C-terminal of NifU and homologous proteins. NifU contains two domains: an N-terminal (IPR002871 from INTERPRO) and a C-terminal domain []. These domains exist either together or on different polypeptides, both domains being found in organisms that do not fix nitrogen (e.g. yeast), so they have a broader significance in the cell than nitrogen fixation. ; GO: 0005506 iron ion binding, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly; PDB: 2JNV_A 2Z51_A 1TH5_A 1VEH_A 1XHJ_A.
Probab=99.89 E-value=6.5e-23 Score=143.59 Aligned_cols=64 Identities=27% Similarity=0.336 Sum_probs=61.2
Q ss_pred HHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCch---hhHHHHHHHHHHHhCCCceEEEe
Q 030939 86 VRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKR---STVIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 86 Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp---~Tlk~gIE~~Lke~IPEI~~V~i 156 (169)
|+++|++|||+|++| |||+||++++++.|+|||+|+|.+|| +|++.+||+.|++++|++++|+.
T Consensus 1 V~~~l~~IrP~L~~d-------GGdv~lv~v~~~~V~V~l~GaC~gC~~s~~Tl~~~Ie~~L~~~~~~v~~V~~ 67 (68)
T PF01106_consen 1 VEEVLEEIRPYLQSD-------GGDVELVDVDDGVVYVRLTGACSGCPSSDMTLKQGIEQALREAVPEVKRVVP 67 (68)
T ss_dssp HHHHHHHCHHHHHHT-------TEEEEEEEEETTEEEEEEESSCCSSCCHHHHHHHHHHHHHHHHSTT-SEEEE
T ss_pred CHHHHHHhChHHHhc-------CCcEEEEEecCCEEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHCCCCceEEE
Confidence 789999999999999 99999999999999999999999999 99999999999999999999975
No 2
>COG0694 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.85 E-value=1.7e-21 Score=145.83 Aligned_cols=71 Identities=31% Similarity=0.362 Sum_probs=66.8
Q ss_pred cHHHHHHHHH-HHHHHHhhccccCcCCcccEEEEEec--CCeEEEEEeecCCCch---hhHHHHHHHHHHHhCCCceEEE
Q 030939 82 TEDNVRQVIA-DARGELAQLFDTSVGITGVAELAELD--GPFVKIRLRGRFWHKR---STVIARLANYLKQRIPEILEVD 155 (169)
Q Consensus 82 teE~Ve~VLe-eiRP~L~~Df~~~vGiGGDVELVdvd--gg~VkVrL~GaC~~Cp---~Tlk~gIE~~Lke~IPEI~~V~ 155 (169)
..|+|+++|+ +|||+|++| ||||||++++ +|+|+|||.|||++|| +|+|++||+.|++.+||+++|+
T Consensus 10 ~~e~v~~~l~~~irP~l~~d-------GGdve~~~i~~~~g~V~l~l~GaC~gC~sS~~TLk~gIE~~L~~~i~ev~~V~ 82 (93)
T COG0694 10 LLERVEEVLDEKIRPQLAMD-------GGDVELVGIDEEDGVVYLRLGGACSGCPSSTVTLKNGIERQLKEEIPEVKEVE 82 (93)
T ss_pred HHHHHHHHHHhccCcceecc-------CCeEEEEEEecCCCeEEEEeCCcCCCCcccHHHHHHHHHHHHHHhCCccceEE
Confidence 4789999999 799999999 9999999998 7899999999999999 8999999999999999999998
Q ss_pred ecCC
Q 030939 156 IEDE 159 (169)
Q Consensus 156 i~d~ 159 (169)
.+..
T Consensus 83 ~v~~ 86 (93)
T COG0694 83 QVTE 86 (93)
T ss_pred EccC
Confidence 7654
No 3
>TIGR03341 YhgI_GntY IscR-regulated protein YhgI. IscR (TIGR02010) is an iron-sulfur cluster-binding transcriptional regulator (see Genome Property GenProp0138). Members of this protein family include YhgI, whose expression is under control of IscR, and show sequence similarity to IscA, a known protein of iron-sulfur cluster biosynthesis. These two lines of evidence strongly suggest a role as an iron-sulfur cluster biosynthesis protein. An older study designated this protein GntY and suggested a role for it and for the product of an adjacent gene, based on complementation studies, in gluconate utilization.
Probab=99.84 E-value=9.2e-21 Score=154.75 Aligned_cols=75 Identities=19% Similarity=0.235 Sum_probs=68.7
Q ss_pred ccHHHHHHHHH-HHHHHHhhccccCcCCcccEEEEEec-CCeEEEEEeecCCCch---hhHHHHHHHHHHHhCCCceEEE
Q 030939 81 LTEDNVRQVIA-DARGELAQLFDTSVGITGVAELAELD-GPFVKIRLRGRFWHKR---STVIARLANYLKQRIPEILEVD 155 (169)
Q Consensus 81 LteE~Ve~VLe-eiRP~L~~Df~~~vGiGGDVELVdvd-gg~VkVrL~GaC~~Cp---~Tlk~gIE~~Lke~IPEI~~V~ 155 (169)
-+.++|+++|+ +|||+|++| |||||||+++ +++|+|||+|+|.+|| +||+.+||+.|++++|||++|+
T Consensus 105 ~~~~~i~~~l~~~irP~l~~d-------GGdielv~v~~~~~v~v~l~GaC~gC~~s~~Tl~~~ie~~l~~~~p~v~~V~ 177 (190)
T TIGR03341 105 PLEERINYVLQSEINPQLASH-------GGKVTLVEITDDGVAVLQFGGGCNGCSMVDVTLKDGVEKTLLERFPELKGVR 177 (190)
T ss_pred HHHHHHHHHHHhccCHHHHhc-------CCceEEEEEcCCCEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCCcceEE
Confidence 36899999998 799999999 9999999997 5799999999999999 9999999999999999999999
Q ss_pred ecCCccc
Q 030939 156 IEDEKQL 162 (169)
Q Consensus 156 i~d~~ql 162 (169)
.+...+-
T Consensus 178 ~~~~~~~ 184 (190)
T TIGR03341 178 DATDHTR 184 (190)
T ss_pred EecCccc
Confidence 8655543
No 4
>PRK11190 Fe/S biogenesis protein NfuA; Provisional
Probab=99.84 E-value=7.3e-21 Score=155.94 Aligned_cols=78 Identities=19% Similarity=0.217 Sum_probs=71.1
Q ss_pred cHHHHHHHHH-HHHHHHhhccccCcCCcccEEEEEec-CCeEEEEEeecCCCch---hhHHHHHHHHHHHhCC-CceEEE
Q 030939 82 TEDNVRQVIA-DARGELAQLFDTSVGITGVAELAELD-GPFVKIRLRGRFWHKR---STVIARLANYLKQRIP-EILEVD 155 (169)
Q Consensus 82 teE~Ve~VLe-eiRP~L~~Df~~~vGiGGDVELVdvd-gg~VkVrL~GaC~~Cp---~Tlk~gIE~~Lke~IP-EI~~V~ 155 (169)
++++|+++|+ +|||+|++| |||||||+++ +++|+|||+|+|.+|| +||+.+||+.|++++| ||++|+
T Consensus 107 ~~~~i~~~l~~~irP~l~~d-------GGdielv~v~~~~~v~v~l~GaC~gC~~s~~Tl~~~Ie~~l~~~~p~~i~~v~ 179 (192)
T PRK11190 107 LMERVEYVLQSQINPQLAGH-------GGRVSLMEITEDGYAILQFGGGCNGCSMVDVTLKEGIEKQLLNEFPGELKGVR 179 (192)
T ss_pred HHHHHHHHHHhccChhHHhc-------CCcEEEEEEcCCCEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCHhhceEE
Confidence 5899999998 799999999 9999999997 5899999999999999 9999999999999999 999999
Q ss_pred ecCCcccCCCC
Q 030939 156 IEDEKQLDDSP 166 (169)
Q Consensus 156 i~d~~ql~d~~ 166 (169)
.+.+.+.-..|
T Consensus 180 ~v~~~~~~~~~ 190 (192)
T PRK11190 180 DLTEHQRGEHS 190 (192)
T ss_pred EecccccCCCC
Confidence 88776655443
No 5
>TIGR02000 NifU_proper Fe-S cluster assembly protein NifU. Three different but partially homologous Fe-S cluster assembly systems have been described: Isc, Suf, and Nif. The latter is associated with donation of an Fe-S cluster to nitrogenase in a number of nitrogen-fixing species. NifU, described here, consists of an N-terminal domain (pfam01592) and a C-terminal domain (pfam01106). Homologs with an equivalent domain archictecture from Helicobacter and Campylobacter, however, are excluded from this model by a high trusted cutoff. The model, therefore, is specific for NifU involved in nitrogenase maturation. The related model TIGR01999 homologous to the N-terminus of this model describes IscU from the Isc system as in E. coli, Saccharomyces cerevisiae, and Homo sapiens.
Probab=99.78 E-value=5.6e-19 Score=152.10 Aligned_cols=68 Identities=24% Similarity=0.315 Sum_probs=64.7
Q ss_pred cHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCch---hhHHHHHHHHHHHhCCCceEEEec
Q 030939 82 TEDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKR---STVIARLANYLKQRIPEILEVDIE 157 (169)
Q Consensus 82 teE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp---~Tlk~gIE~~Lke~IPEI~~V~i~ 157 (169)
..++|+++|++|||+|++| |||||||+|++++|+|||+|+|.+|| +||+. ||+.|++++|++++|+.+
T Consensus 220 ~~~~v~~~l~~irP~l~~d-------GGdv~lv~v~~~~v~v~l~GaC~gC~~s~~Tl~~-Ie~~l~~~~p~~~~V~~v 290 (290)
T TIGR02000 220 RIQLIQKVLEEVRPVLQAD-------GGDVELYDVDGKIVYVVLTGACSGCSMSTMTLKG-IQQRLRERLGEFVVVEAV 290 (290)
T ss_pred HHHHHHHHHHHhCchHhhc-------CCcEEEEEEeCCEEEEEEeeCCCCCcchHHHHHH-HHHHHHHhCCCceEEEeC
Confidence 3689999999999999999 99999999999999999999999999 99998 999999999999999863
No 6
>KOG2358 consensus NifU-like domain-containing proteins [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=6.2e-13 Score=112.34 Aligned_cols=67 Identities=18% Similarity=0.279 Sum_probs=61.1
Q ss_pred HHHHHHHHH-HHHHHHhhccccCcCCcccEEEEEecC--CeEEEEEeecCCCch---hhHHHHHHHHHHHhCCCceEEEe
Q 030939 83 EDNVRQVIA-DARGELAQLFDTSVGITGVAELAELDG--PFVKIRLRGRFWHKR---STVIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 83 eE~Ve~VLe-eiRP~L~~Df~~~vGiGGDVELVdvdg--g~VkVrL~GaC~~Cp---~Tlk~gIE~~Lke~IPEI~~V~i 156 (169)
-..+++.|| .|||.++.| |||+++++.|+ |.|++||+|+|.+|| .|+++|||+.|+..+|||+.|+-
T Consensus 125 t~~ikelietRiRp~i~ed-------ggdi~y~g~e~g~g~v~lklqgact~cpss~vtlk~Gie~mL~~y~~eVK~v~q 197 (213)
T KOG2358|consen 125 TMTIKELIETRIRPKIQED-------GGDEDYVGFETGLGLVSLKLQGACTECPSSLVTLKNGIENMLEIYVPEVKGVIQ 197 (213)
T ss_pred HHHHHHHHHHhhhhhhhcc-------CCceeeccccCccchHHHHHhhhhccCCcccchhhhhHHHHHHhhcceeeEEEe
Confidence 345667776 699999999 99999999987 699999999999999 89999999999999999999975
No 7
>KOG2358 consensus NifU-like domain-containing proteins [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=1.4e-07 Score=80.14 Aligned_cols=78 Identities=23% Similarity=0.210 Sum_probs=70.1
Q ss_pred CCCCCCCccccHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCch---hhHHHHHHHHHHHhC
Q 030939 72 GGVPPPPLDLTEDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKR---STVIARLANYLKQRI 148 (169)
Q Consensus 72 ~~~~~~~l~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp---~Tlk~gIE~~Lke~I 148 (169)
++....-..+++|++..+|+..||++.+| ||++-+=.++|.++.++++|+|..|+ +|+|++||..|+.+|
T Consensus 68 g~dfvtv~k~~ee~~w~~L~p~i~~~~sd-------~g~~g~pli~g~~~~~~~~~~~e~d~e~t~~ikelietRiRp~i 140 (213)
T KOG2358|consen 68 GPDFVTVTKLTEENVWSVLDPEIPSLMSD-------GGNVGLPLIDGNIVVLKLQGACESDPESTMTIKELIETRIRPKI 140 (213)
T ss_pred cCCeEEEeccchhhhHhhhchhhHHHHhc-------cccccchhhccchhhhhhcccccCChhHHHHHHHHHHHhhhhhh
Confidence 44444455689999999999999999999 99999999999999999999999999 999999999999999
Q ss_pred CCceEEEe
Q 030939 149 PEILEVDI 156 (169)
Q Consensus 149 PEI~~V~i 156 (169)
||+-.++.
T Consensus 141 ~edggdi~ 148 (213)
T KOG2358|consen 141 QEDGGDED 148 (213)
T ss_pred hccCCcee
Confidence 99877654
No 8
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=97.78 E-value=9.2e-05 Score=50.56 Aligned_cols=69 Identities=17% Similarity=0.216 Sum_probs=55.4
Q ss_pred HHHHHHHHHHH-HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCch--hhHHHHHHHHHHHhCCCceEEEe
Q 030939 83 EDNVRQVIADA-RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKR--STVIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 83 eE~Ve~VLeei-RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp--~Tlk~gIE~~Lke~IPEI~~V~i 156 (169)
+++|.++|..+ =|++..| +-=-|-|+=++++|+.|.|.|.-...+|+ ..++..|+++|+ .+|++.+|++
T Consensus 1 k~~V~~aL~~v~dP~~~~~----iv~~g~V~~i~i~~~~V~v~l~l~~~~~~~~~~l~~~i~~~l~-~l~gv~~V~V 72 (72)
T PF01883_consen 1 KQAVRDALKQVKDPELGKD----IVELGMVRDISIEGGKVSVSLELPTPACPAAEPLREEIREALK-ALPGVKSVKV 72 (72)
T ss_dssp HHHHHHHHTT-BETTTSSB----TTTTTSEEEEEECTCEEEEEE--SSTTHTTHHHHHHHHHHHHH-TSTT-SEEEE
T ss_pred CHHHHHHHhCCCCCCCCCC----HHHcCCeeEEEEECCEEEEEEEECCCCchHHHHHHHHHHHHHH-hCCCCceEeC
Confidence 57788888876 7777766 33367889999999999999999999999 889999999999 8999999875
No 9
>TIGR02945 SUF_assoc FeS assembly SUF system protein. Members of this family belong to the broader Pfam family pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene.
Probab=96.36 E-value=0.012 Score=42.49 Aligned_cols=70 Identities=16% Similarity=0.192 Sum_probs=53.7
Q ss_pred HHHHHHHHHHH-HHHHhhccccCcCCcccEEEEEecC-CeEEEEEeecCCCch--hhHHHHHHHHHHHhCCCceEEEec
Q 030939 83 EDNVRQVIADA-RGELAQLFDTSVGITGVAELAELDG-PFVKIRLRGRFWHKR--STVIARLANYLKQRIPEILEVDIE 157 (169)
Q Consensus 83 eE~Ve~VLeei-RP~L~~Df~~~vGiGGDVELVdvdg-g~VkVrL~GaC~~Cp--~Tlk~gIE~~Lke~IPEI~~V~i~ 157 (169)
+++|.++|+.+ =|.+..+ +.--|-|.=+++++ +.|.|.|.-.+.+|+ ..++..++..|.+ +|++..|.+.
T Consensus 3 ~~~I~~~L~~v~dP~l~~~----lv~~g~V~~i~v~~~~~v~i~l~l~~p~~~~~~~l~~~i~~al~~-l~gv~~v~v~ 76 (99)
T TIGR02945 3 KDAVIEALKTVYDPEIPVN----IYELGLIYDIDVDDDGHVDIQMTLTAPNCPVAGSMPGEVENAVRA-VPGVGSVTVE 76 (99)
T ss_pred HHHHHHHHcCCCCCCCCCC----eecCCCeeEEEECCCCeEEEEEEECCCCCChHHHHHHHHHHHHHh-CCCCceEEEE
Confidence 57788888876 6666665 33356677778885 899999999999999 6688888888864 8888877653
No 10
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=96.08 E-value=0.052 Score=42.12 Aligned_cols=75 Identities=20% Similarity=0.387 Sum_probs=49.7
Q ss_pred cHHHHHHHHHHHHHHHhhccccCcCCc----ccEEEEEec--CCeEEEEEeecCCCch--hhHHHHHHHHHHHhCCCceE
Q 030939 82 TEDNVRQVIADARGELAQLFDTSVGIT----GVAELAELD--GPFVKIRLRGRFWHKR--STVIARLANYLKQRIPEILE 153 (169)
Q Consensus 82 teE~Ve~VLeeiRP~L~~Df~~~vGiG----GDVELVdvd--gg~VkVrL~GaC~~Cp--~Tlk~gIE~~Lke~IPEI~~ 153 (169)
+++.++..++++.-+|.+-||.-+||- |=|.=|+++ ++.|+|+++..-.+|| .-+...++++|++ +|++..
T Consensus 6 ~~~~~~~~~~~i~~aL~~V~DPEi~idIvdLGLVy~v~i~~~~~~v~v~mtlT~~gCP~~~~i~~~v~~al~~-~~~v~~ 84 (111)
T COG2151 6 EEEAIKVTLEDILEALKTVIDPEIGIDIVDLGLVYEVDIDDVDGLVKVKMTLTSPGCPLAEVIADQVEAALEE-IPGVED 84 (111)
T ss_pred ccchhhhhHHHHHHHhhcCCCcccceeeEeeccEEEEEEecCCceEEEEEecCCCCCCccHHHHHHHHHHHHh-cCCcce
Confidence 344455555555555666565554443 223336665 4589999999999999 4566678777766 787887
Q ss_pred EEec
Q 030939 154 VDIE 157 (169)
Q Consensus 154 V~i~ 157 (169)
|+++
T Consensus 85 v~V~ 88 (111)
T COG2151 85 VEVE 88 (111)
T ss_pred EEEE
Confidence 7764
No 11
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=94.88 E-value=0.092 Score=43.13 Aligned_cols=72 Identities=14% Similarity=0.151 Sum_probs=52.4
Q ss_pred cccHHHHHHHHHHH-HHHHhhccccCcCCcccEEEEEecC---C--eEEEEEeecCCCch--hhHHHHHHHHHHHhCCCc
Q 030939 80 DLTEDNVRQVIADA-RGELAQLFDTSVGITGVAELAELDG---P--FVKIRLRGRFWHKR--STVIARLANYLKQRIPEI 151 (169)
Q Consensus 80 ~LteE~Ve~VLeei-RP~L~~Df~~~vGiGGDVELVdvdg---g--~VkVrL~GaC~~Cp--~Tlk~gIE~~Lke~IPEI 151 (169)
+.++++|.++|+.+ =|.+..+ +-=-|-|.=+++++ + .|.|.|+=.+.+|+ ..++.-|++.|++ +|++
T Consensus 72 ~~~ee~V~eaL~tV~DPei~~n----IVeLGlV~~I~Id~~~~~~~~V~I~mtLt~p~c~~~~~L~~dV~~aL~~-l~gV 146 (174)
T TIGR03406 72 EDNEDQVWEQLRTVYDPEIPVN----IVDLGLVYGCRVEKLGEGQFRVDIEMTLTAPGCGMGPVLVEDVEDKVLA-VPNV 146 (174)
T ss_pred cccHHHHHHHHcCCCCCCCCCC----hHHcCCeEEEEEecccCCCCEEEEEEEeCCCCCcHHHHHHHHHHHHHHh-CCCc
Confidence 45667788887776 6666654 11135566567765 5 89999999999999 5578888888864 8998
Q ss_pred eEEEe
Q 030939 152 LEVDI 156 (169)
Q Consensus 152 ~~V~i 156 (169)
.+|.+
T Consensus 147 ~~V~V 151 (174)
T TIGR03406 147 DEVEV 151 (174)
T ss_pred eeEEE
Confidence 88765
No 12
>PRK11670 antiporter inner membrane protein; Provisional
Probab=93.86 E-value=0.19 Score=44.81 Aligned_cols=72 Identities=14% Similarity=0.069 Sum_probs=57.3
Q ss_pred cccHHHHHHHHHHH-HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCch--hhHHHHHHHHHHHhCCCceEEEe
Q 030939 80 DLTEDNVRQVIADA-RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKR--STVIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 80 ~LteE~Ve~VLeei-RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp--~Tlk~gIE~~Lke~IPEI~~V~i 156 (169)
.+++++|.++|.++ -|.+..| +---|-|.=++++++.|.+.|.-.-..|| ..++..+++.|++ +|++.+|.+
T Consensus 11 ~~~~~~v~~~l~~v~~p~~~~~----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~ 85 (369)
T PRK11670 11 EALRAMVAGTLANFQHPTLKHN----LTTLKALHHVALLDDTLHIELVMPFVWNSAFEELKEQCSAELLR-ITGAKAIDW 85 (369)
T ss_pred cchHHHHHHHHhcCCCCCCCCC----hhhhCCeeEEEEeCCEEEEEEEECCCCchHHHHHHHHHHHHHHh-cCCCceEEE
Confidence 45779999999987 7877776 22145566678888999999999999999 6788899999985 899887765
No 13
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=91.70 E-value=0.68 Score=37.05 Aligned_cols=47 Identities=11% Similarity=0.210 Sum_probs=39.1
Q ss_pred cccEEEEEecCCeEEEEEeecCCCch--hhHHHHHHHHHHHhCCCceEEEe
Q 030939 108 TGVAELAELDGPFVKIRLRGRFWHKR--STVIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 108 GGDVELVdvdgg~VkVrL~GaC~~Cp--~Tlk~gIE~~Lke~IPEI~~V~i 156 (169)
-|-|.=|+++++.|.|.|+-...+|| ..++..|++.|++. ++..|++
T Consensus 14 LG~Vr~V~v~gd~V~VtIt~Ty~gcpa~e~L~~~I~~aL~~~--Gv~~V~V 62 (146)
T TIGR02159 14 LGMVREVDVDGGGVVVKFTPTYSGCPALEVIRQDIRDAVRAL--GVEVVEV 62 (146)
T ss_pred cCCeeEEEEECCEEEEEEEeCCCCCchHHHHHHHHHHHHHhc--CCCeEEE
Confidence 46777788888999999999999999 67888999999884 6666554
No 14
>PRK03941 NTPase; Reviewed
Probab=85.84 E-value=0.93 Score=37.58 Aligned_cols=42 Identities=33% Similarity=0.493 Sum_probs=37.2
Q ss_pred cccCCCCCCCccccHHHHHHHHHHHHHHHhhccccCcCCcccEE
Q 030939 69 TAAGGVPPPPLDLTEDNVRQVIADARGELAQLFDTSVGITGVAE 112 (169)
Q Consensus 69 ~~~~~~~~~~l~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVE 112 (169)
.+.++++++|+. +|.++.+++..+-.|++|.|.+|||-|.|+
T Consensus 33 ~v~SgV~~QP~g--eET~~GA~nRA~~A~~~~ad~gVGiEgGv~ 74 (174)
T PRK03941 33 EVDSGVPDQPFG--EETVKGAINRAKNAYSPDFDFSVGIEAGLF 74 (174)
T ss_pred cCCCCCCCCCCC--HHHHHHHHHHHHHHHhcCCCEEEEEeeeEe
Confidence 466889999997 999999999999999878889999988887
No 15
>PRK11702 hypothetical protein; Provisional
Probab=83.36 E-value=6.7 Score=30.70 Aligned_cols=68 Identities=9% Similarity=0.145 Sum_probs=47.2
Q ss_pred ccHHHHHHHHHHH-HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecC
Q 030939 81 LTEDNVRQVIADA-RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIED 158 (169)
Q Consensus 81 LteE~Ve~VLeei-RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d 158 (169)
+++|.+...+|+. .-++... |-+.|.||..+ . +|+|-..=. +.|...-+..|+.+|+.+ ++++|++.+
T Consensus 33 ~~~e~~D~~vD~fIde~Ie~n-gL~f~G~G~~~---~-eG~vc~~~~---gs~tEe~R~~V~~WL~~r--~v~~v~vse 101 (108)
T PRK11702 33 TSEEQIDATVDAFIDEVIEPN-GLAFDGSGYLA---W-EGLICLQKI---GKCTEEHRALVKKWLEGR--KLTDVEVSE 101 (108)
T ss_pred CCHHHHHHHHHHHHHHHHhcC-CceecCCccee---E-EEEEeeccc---CCCCHHHHHHHHHHHHhC--CCceEEeec
Confidence 5678888888763 5566665 45556566432 2 466664333 556778888999999999 999998754
No 16
>PF10646 Germane: Sporulation and spore germination; InterPro: IPR019606 The GerMN domain is a region of approximately 100 residues that is found, duplicated, in the Bacillus GerM protein and is implicated in both sporulation and spore germination. It is also found in lipoprotein LpqB. The domain is present in a number of different bacterial species both alone and in association with other domains such as Gmad1 and Gmad2. It is predicted to have a novel alpha-beta fold.
Probab=82.47 E-value=6 Score=28.39 Aligned_cols=52 Identities=23% Similarity=0.474 Sum_probs=39.4
Q ss_pred EEEec-CCeEEEEEeecCC----Cch-hhHHHHHHHHHHHhCCCceEEEe-cCCcccCC
Q 030939 113 LAELD-GPFVKIRLRGRFW----HKR-STVIARLANYLKQRIPEILEVDI-EDEKQLDD 164 (169)
Q Consensus 113 LVdvd-gg~VkVrL~GaC~----~Cp-~Tlk~gIE~~Lke~IPEI~~V~i-~d~~ql~d 164 (169)
=+.++ |+.++|.|..... .|. .-+.+.|-..|.+.+++|.+|.+ +|++.+++
T Consensus 57 ~v~~~~~~~~~Vd~s~~~~~~~~~~~~~~~~~~i~~Tl~~~~~~v~~V~i~vdG~~~~~ 115 (117)
T PF10646_consen 57 SVTVDDGNTLTVDFSSEFLNFLGSSQEALLLAQIVNTLTEQFPGVKKVQILVDGKPLES 115 (117)
T ss_pred eEEECCCCEEEEECCHHHhhcCChHHHHHHHHHHHHHHHHhcCCccEEEEEECCEEcCc
Confidence 35556 5599999988663 232 56777888999999999999997 78777764
No 17
>TIGR00258 inosine/xanthosine triphosphatase.
Probab=78.37 E-value=2.6 Score=34.53 Aligned_cols=43 Identities=30% Similarity=0.433 Sum_probs=37.0
Q ss_pred cccCCCCCCCccccHHHHHHHHHHHHHHHhh-ccccCcCCcccEE
Q 030939 69 TAAGGVPPPPLDLTEDNVRQVIADARGELAQ-LFDTSVGITGVAE 112 (169)
Q Consensus 69 ~~~~~~~~~~l~LteE~Ve~VLeeiRP~L~~-Df~~~vGiGGDVE 112 (169)
++.++++++|+. .+|.++.+++..+-.|+. |.|.+|||-|.|+
T Consensus 29 ~v~SgV~~QP~~-~eET~~GA~nRA~~a~~~~~ad~gVGiEgGv~ 72 (163)
T TIGR00258 29 EVESGVPEQPFG-LEETVRGARNRAKNAFRLLECDFSVGIEAGLD 72 (163)
T ss_pred cCCCCCCCCCCC-hHHHHHHHHHHHHHHHhccCCCEEEEEeeeEe
Confidence 466888999886 389999999999999988 6889999988886
No 18
>PRK03114 NTPase; Reviewed
Probab=75.73 E-value=3.4 Score=34.12 Aligned_cols=43 Identities=23% Similarity=0.421 Sum_probs=36.5
Q ss_pred cccCCCCCCCccccHHHHHHHHHHHHHHHhh-ccccCcCCcccEE
Q 030939 69 TAAGGVPPPPLDLTEDNVRQVIADARGELAQ-LFDTSVGITGVAE 112 (169)
Q Consensus 69 ~~~~~~~~~~l~LteE~Ve~VLeeiRP~L~~-Df~~~vGiGGDVE 112 (169)
.+.++++++|+.+ +|.++.+++.++-.+++ +.|.+|||-|.|+
T Consensus 29 ~v~SgV~~QP~g~-eET~~GA~nRA~~A~~~~~aD~~VGiEgGv~ 72 (169)
T PRK03114 29 SVPSGVAAQPFSD-EETMQGAINRAKRALEEGEADIGIGLEGGVM 72 (169)
T ss_pred ECCCCcCCCCCCh-HHHHHHHHHHHHHHHhccCCCEEEEEeeeEe
Confidence 4778899999863 89999999999888876 5778899998886
No 19
>PRK05074 inosine/xanthosine triphosphatase; Reviewed
Probab=73.24 E-value=3.8 Score=33.98 Aligned_cols=43 Identities=19% Similarity=0.211 Sum_probs=35.9
Q ss_pred cccCCCCCCCccccHHHHHHHHHHHHHHHhh--ccccCcCCcccEE
Q 030939 69 TAAGGVPPPPLDLTEDNVRQVIADARGELAQ--LFDTSVGITGVAE 112 (169)
Q Consensus 69 ~~~~~~~~~~l~LteE~Ve~VLeeiRP~L~~--Df~~~vGiGGDVE 112 (169)
.+.++++++|+.. +|.++.+++.++-.+++ |.|.+|||-|.|+
T Consensus 37 ~v~SgV~~QP~g~-eET~~GA~nRA~~a~~~~~~ad~gVGiEgGv~ 81 (173)
T PRK05074 37 AVPSGVPDQPMGS-EETRAGARNRVKNARQLRPEADFWVAIEAGID 81 (173)
T ss_pred ecCCCcCCCCCCh-HHHHHHHHHHHHHHHHhCCCCCEEEEEccccc
Confidence 4568888898863 89999999999888887 6888999988774
No 20
>PF08925 DUF1907: Domain of Unknown Function (DUF1907); InterPro: IPR015021 The structure of this domain displays an alpha-beta-beta-alpha four layer topology, with an HxHxxxxxxxxxH motif that coordinates a zinc ion, and an acetate anion at a site that likely supports the enzymatic activity of an ester hydrolase []. ; GO: 0005634 nucleus; PDB: 1XCR_B.
Probab=72.51 E-value=3.2 Score=37.07 Aligned_cols=56 Identities=20% Similarity=0.221 Sum_probs=37.6
Q ss_pred HHHHHHHHHHhhccc-cCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHH
Q 030939 88 QVIADARGELAQLFD-TSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQ 146 (169)
Q Consensus 88 ~VLeeiRP~L~~Df~-~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke 146 (169)
..++-||-.|+++|| ..||+||-. -|+.|.+++.+-=-++.||..-.+.|.+|||-
T Consensus 165 ~f~~~iR~~L~~~Yg~~~VglGG~F---~i~~Gkak~HVMpdFs~~Pl~s~~~v~~WLkf 221 (284)
T PF08925_consen 165 NFVTCIRKALEKHYGDKPVGLGGVF---LIKNGKAKQHVMPDFSKCPLNSDEDVNNWLKF 221 (284)
T ss_dssp -HHHHHHHHHHHHHTTS--EEEEEE---EEEESEEEEEE--S--SS---SHHHHHHHSEE
T ss_pred cHHHHHHHHHHHHcCCCceecceEE---EEeCCcEEEEecCCCCCCCcCCHHHHHHhhhe
Confidence 345567888999987 789999954 35789999999999999997777788999874
No 21
>PRK01170 phosphopantetheine adenylyltransferase/unknown domain fusion protein; Provisional
Probab=66.54 E-value=6.3 Score=35.50 Aligned_cols=39 Identities=23% Similarity=0.153 Sum_probs=33.4
Q ss_pred ccCCCCCCCccccHHHHHHHHHHHHHHHhhccccCcCCcccEE
Q 030939 70 AAGGVPPPPLDLTEDNVRQVIADARGELAQLFDTSVGITGVAE 112 (169)
Q Consensus 70 ~~~~~~~~~l~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVE 112 (169)
+.++ |++|+. +|.++.+++.++-+++ |.|.+|||-|.|+
T Consensus 184 v~Sg-~~QP~~--eET~~GA~nRA~~a~~-~ad~~VGiEgGv~ 222 (322)
T PRK01170 184 YKLE-TQQPFG--EETMKGATNRAMKALK-DNDYSVGIESGLF 222 (322)
T ss_pred CCCC-CCCCCc--HHHHHHHHHHHHHHHh-cCCEEEEEeceee
Confidence 4567 888885 9999999999988887 8889999998887
No 22
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=65.04 E-value=8.8 Score=26.25 Aligned_cols=34 Identities=21% Similarity=0.119 Sum_probs=22.1
Q ss_pred EEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCC
Q 030939 121 VKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDE 159 (169)
Q Consensus 121 VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~ 159 (169)
|+| +.=.|..|+.+.+ .++..+.+. + ..++++|.
T Consensus 3 I~v-~~~~C~~C~~~~~-~~~~~~~~~--~-i~~ei~~~ 36 (76)
T PF13192_consen 3 IKV-FSPGCPYCPELVQ-LLKEAAEEL--G-IEVEIIDI 36 (76)
T ss_dssp EEE-ECSSCTTHHHHHH-HHHHHHHHT--T-EEEEEEET
T ss_pred EEE-eCCCCCCcHHHHH-HHHHHHHhc--C-CeEEEEEc
Confidence 566 6667999995555 566666665 3 55566554
No 23
>PF01545 Cation_efflux: Cation efflux family; InterPro: IPR002524 Members of this family are integral membrane proteins, that are found to increase tolerance to divalent metal ions such as cadmium, zinc, and cobalt. These proteins are considered to be efflux pumps that remove these ions from cells [, ], however others are implicated in ion uptake []. The family has six predicted transmembrane domains. Members of the family are variable in length because of variably sized inserts, often containing low-complexity sequence.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3BYP_B 3BYR_A 3H90_B 2QFI_B 2ZZT_A.
Probab=62.76 E-value=38 Score=27.71 Aligned_cols=23 Identities=26% Similarity=0.579 Sum_probs=19.8
Q ss_pred hhHHHHHHHHHHHhCCCceEEEe
Q 030939 134 STVIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 134 ~Tlk~gIE~~Lke~IPEI~~V~i 156 (169)
..+...|++.|++++|+|.+|.+
T Consensus 254 ~~i~~~i~~~l~~~~~~i~~v~I 276 (284)
T PF01545_consen 254 HEIRERIEKRLREKFPGIYDVTI 276 (284)
T ss_dssp HHHHHHHHHHHHHHSTTCEEEEE
T ss_pred HHHHHHHHHHHHHhCCCcEEEEE
Confidence 45788999999999999998655
No 24
>PF04320 DUF469: Protein with unknown function (DUF469); InterPro: IPR007416 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.
Probab=62.70 E-value=47 Score=25.69 Aligned_cols=68 Identities=18% Similarity=0.284 Sum_probs=48.0
Q ss_pred ccHHHHHHHHHHH-HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecC
Q 030939 81 LTEDNVRQVIADA-RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIED 158 (169)
Q Consensus 81 LteE~Ve~VLeei-RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d 158 (169)
+++|.+...+|+. - ++..- |-+.|+||... . +|+|-..-.| +|...-+..|+.+|+. -|++.+|++.+
T Consensus 27 ~~~e~~D~~~D~fId-~Ie~~-gL~~~Ggg~~~---~-eG~vc~~~~g---s~tee~R~~v~~WL~~-~~ev~~v~vs~ 95 (101)
T PF04320_consen 27 TSEEQIDAFVDAFID-VIEPN-GLAFGGGGYEQ---W-EGFVCLQRYG---SCTEEDRAAVEAWLKA-RPEVSDVEVSE 95 (101)
T ss_pred CCHHHHHHHHHHHHH-HHHhC-CCEEecCCccC---E-eEEEEeccCC---CCCHHHHHHHHHHHHh-CCCcceEEecc
Confidence 5678888888874 5 77766 55666455221 1 4777666444 5667888899999988 58999998754
No 25
>PRK14429 acylphosphatase; Provisional
Probab=59.78 E-value=36 Score=24.69 Aligned_cols=58 Identities=19% Similarity=0.168 Sum_probs=36.6
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCc
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEK 160 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ 160 (169)
||+..+. -...|+.|-| -..+||.|.|-++|. +..+. ...++|++. |....|+-.+.+
T Consensus 18 R~~v~~~-A~~~gl~G~V--~N~~dG~Vei~~qG~----~~~i~-~f~~~l~~g-p~~a~V~~i~~~ 75 (90)
T PRK14429 18 RRATLTK-ARALGVTGYV--TNCEDGSVEILAQGS----DPAVD-NLIAWCEVG-VPCTEVLRVTVE 75 (90)
T ss_pred HHHHHHH-HHHhCCEEEE--EECCCCeEEEEEEeC----HHHHH-HHHHHHhhC-CCceEEEEEEEE
Confidence 5555444 3456788876 355789999999997 33344 455777776 655555544333
No 26
>PRK14424 acylphosphatase; Provisional
Probab=59.49 E-value=38 Score=25.18 Aligned_cols=56 Identities=18% Similarity=0.299 Sum_probs=36.6
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIED 158 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d 158 (169)
||+.... -...||.|-|. .+.+|.|.|.++|. +..+. ...++|++ -|....|.-.+
T Consensus 23 R~~v~~~-A~~~gl~G~V~--N~~dG~Vei~~qG~----~~~v~-~f~~~l~~-gp~~a~V~~v~ 78 (94)
T PRK14424 23 RHATVRE-AHALGLRGWVA--NLEDGTVEAMIQGP----AAQID-RMLAWLRH-GPPAARVTEVT 78 (94)
T ss_pred HHHHHHH-HHHcCCeEEEE--ECCCCCEEEEEEEC----HHHHH-HHHHHHHh-CCCCcEEEEEE
Confidence 5665544 33468899886 67789999999997 33443 45577774 56655554433
No 27
>PF11718 CPSF73-100_C: Pre-mRNA 3'-end-processing endonuclease polyadenylation factor C-term; InterPro: IPR021718 This is the C-terminal conserved region of the pre-mRNA 3'-end-processing of the polyadenylation factor CPSF-73/CPSF-100 proteins. The exact function of this domain is not known.
Probab=59.03 E-value=46 Score=27.95 Aligned_cols=62 Identities=16% Similarity=0.066 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHhhccccC-cCC--cccE-EEEEecCCeEEEEEeecCCCch-hhHHHHHHHHHHHh
Q 030939 86 VRQVIADARGELAQLFDTS-VGI--TGVA-ELAELDGPFVKIRLRGRFWHKR-STVIARLANYLKQR 147 (169)
Q Consensus 86 Ve~VLeeiRP~L~~Df~~~-vGi--GGDV-ELVdvdgg~VkVrL~GaC~~Cp-~Tlk~gIE~~Lke~ 147 (169)
-..-++.+.-+|++.||.+ +.. +|+. -.|.+++..+.|.+.-.--.|. ..++.+||..|+.-
T Consensus 143 ~~~~~~~l~~~L~~qFG~~~~~~~~~~~~~~~v~vd~~~A~I~~~t~~Vec~d~~Lk~rve~~l~r~ 209 (216)
T PF11718_consen 143 EEERLERLIELLEAQFGDVEVPDIEKPKEPLSVTVDGKVAHIDLSTLEVECEDEPLKQRVETALKRL 209 (216)
T ss_pred HHHHHHHHHHHHHHHcCCCccccccccceeEEEEeCCcEEEEecCCCceecCCHHHHHHHHHHHHHH
Confidence 3344556788899999966 544 3444 4578899999999988888888 88999999988764
No 28
>PRK14448 acylphosphatase; Provisional
Probab=58.87 E-value=38 Score=24.71 Aligned_cols=61 Identities=20% Similarity=0.163 Sum_probs=38.8
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||++.+. ....||.|-| -...||.|.|.++|. ...+. ...++|+ +-|.-..|+-.+.+..+
T Consensus 18 R~~v~~~-A~~lgl~G~V--~N~~dG~Vei~~~G~----~~~v~-~f~~~l~-~gp~~a~V~~v~~~~~~ 78 (90)
T PRK14448 18 RYFTWQE-ATKIGIKGYV--KNRPDGSVEVVAVGS----DAQIA-AFRDWLQ-HGPPTAVVCNVIEQDYQ 78 (90)
T ss_pred HHHHHHH-HHHhCCEEEE--EECCCCCEEEEEEeC----HHHHH-HHHHHHH-hCCCceEEEEEEEEEcC
Confidence 6665554 4456888877 456789999999997 34444 4456666 46766666554444333
No 29
>PRK14432 acylphosphatase; Provisional
Probab=58.62 E-value=34 Score=25.25 Aligned_cols=61 Identities=18% Similarity=0.178 Sum_probs=38.8
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEe-ecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLR-GRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~-GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.+.. -...||.|-| -.++||.|.+.++ |. +..+...+ .+|++. |....|+-.+.+.++
T Consensus 18 R~~v~~~-A~~lgl~G~V--~N~~dG~Vei~~~~G~----~~~v~~f~-~~l~~g-p~~a~V~~v~~~~~~ 79 (93)
T PRK14432 18 RFFTEQI-ANNMKLKGFV--KNLNDGRVEIVAFFNT----KEQMKKFE-KLLKNG-NKYSNIENIEKKVLD 79 (93)
T ss_pred hHHHHHH-HHHhCCEEEE--EECCCCCEEEEEEECC----HHHHHHHH-HHHHhC-CCccEEEEEEEEECC
Confidence 5555544 3346788876 3557899999998 87 34455444 577777 776666655554444
No 30
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=57.12 E-value=8.9 Score=29.16 Aligned_cols=21 Identities=5% Similarity=0.096 Sum_probs=16.5
Q ss_pred EEEecCCeEEEEE--eecCCCch
Q 030939 113 LAELDGPFVKIRL--RGRFWHKR 133 (169)
Q Consensus 113 LVdvdgg~VkVrL--~GaC~~Cp 133 (169)
+++++++.|.|+. +.+|++|.
T Consensus 1 Vv~v~~~~~~V~~~r~saC~~C~ 23 (135)
T PF04246_consen 1 VVAVEGGIAWVEVQRSSACGSCS 23 (135)
T ss_pred CEEEeCCEEEEEEccCCcCcccC
Confidence 3688898988877 57788887
No 31
>PRK14445 acylphosphatase; Provisional
Probab=56.33 E-value=59 Score=23.65 Aligned_cols=61 Identities=18% Similarity=0.207 Sum_probs=38.6
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.... -...||.|-|. ..+||.|.|-++|. +..+. ....+|+ +-|....|+-.+.+.++
T Consensus 20 R~~v~~~-A~~~gl~G~V~--N~~dG~Vei~~qG~----~~~l~-~f~~~l~-~gP~~a~V~~i~~~~~~ 80 (91)
T PRK14445 20 RMFIDRA-ASELNLSGWVR--NLPDGTVEIEAQGS----SGMID-ELIKQAE-RGPSRSSVTSIMVEELE 80 (91)
T ss_pred hHHHHHH-HhhCCCEEEEE--ECCCCeEEEEEEEC----HHHHH-HHHHHHH-hCCCCcEEEEEEEEEcC
Confidence 5555554 34578888763 55789999999997 44454 4446666 57775555544444333
No 32
>TIGR00532 HMG_CoA_R_NAD hydroxymethylglutaryl-CoA reductase, degradative. Most known examples of hydroxymethylglutaryl-CoA reductase are NADP-dependent (EC 1.1.1.34) from eukaryotes and archaea, involved in the biosynthesis of mevalonate from 3-hydroxy-3-methylglutaryl-CoA. This model, in contrast, is built from the two examples in completed genomes of sequences closely related to the degradative, NAD-dependent hydroxymethylglutaryl-CoA reductase of Pseudomonas mevalonii, a bacterium that can use mevalonate as its sole carbon source.
Probab=56.04 E-value=97 Score=28.86 Aligned_cols=64 Identities=11% Similarity=0.162 Sum_probs=48.3
Q ss_pred cHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEe------cCCeEEEEEeecCCCch-----hhHHHHHHHHHHHhCCC
Q 030939 82 TEDNVRQVIADARGELAQLFDTSVGITGVAELAEL------DGPFVKIRLRGRFWHKR-----STVIARLANYLKQRIPE 150 (169)
Q Consensus 82 teE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdv------dgg~VkVrL~GaC~~Cp-----~Tlk~gIE~~Lke~IPE 150 (169)
..+++.++.++.-|.+.+. ||.+..+++ .++.|+|++.--|.-=. .|..+.+-.+|++..|+
T Consensus 142 ~~~~i~~~a~~~~~~~~~r-------ggg~~~i~~r~~~~~~g~~v~l~~~~dtgDAMGaNmvn~~~Eav~~~i~~~~~~ 214 (393)
T TIGR00532 142 LGDEIIERAEECDPMLNNL-------GGGCKDIEARVIDIIEGGILILHIIVDTCDAMGANALNSIAEKVAEFIELEFGG 214 (393)
T ss_pred HHHHHHHHHHHhCHHHHhh-------cCCeEEEEEEeeecccCCEEEEEEEEecccccccHHHHHHHHHHHHHHHHhCCC
Confidence 4566777777888999999 888776653 46799999987766544 45677888899988887
Q ss_pred ce
Q 030939 151 IL 152 (169)
Q Consensus 151 I~ 152 (169)
-.
T Consensus 215 ~~ 216 (393)
T TIGR00532 215 EC 216 (393)
T ss_pred ce
Confidence 43
No 33
>PF09883 DUF2110: Uncharacterized protein conserved in archaea (DUF2110); InterPro: IPR016757 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=56.04 E-value=35 Score=29.94 Aligned_cols=52 Identities=21% Similarity=0.311 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHhhccccCcCCcccEEE-EEe---cCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCc
Q 030939 86 VRQVIADARGELAQLFDTSVGITGVAEL-AEL---DGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEI 151 (169)
Q Consensus 86 Ve~VLeeiRP~L~~Df~~~vGiGGDVEL-Vdv---dgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI 151 (169)
.+..|+.++..++++ =||+|+ .+| +++.|+|++.|.= ...-.|.|++++-|+
T Consensus 11 ~~r~ld~L~~~v~n~-------lgdLdV~~~i~~~~~~wv~vtl~GeD-------~eva~Nll~eefGei 66 (225)
T PF09883_consen 11 AERALDSLRSLVEND-------LGDLDVEWDIGITKDDWVKVTLEGED-------EEVAANLLREEFGEI 66 (225)
T ss_pred HHHHHHHHHHHHHHh-------hcCeeEEEEeccccCCceEEEEecCc-------HHHHHHHHHHHhCCC
Confidence 378899999999999 677665 244 5799999999982 224568999999887
No 34
>COG1986 Inosine/xanthosine triphosphatase [Nucleotide transport and metabolism]
Probab=54.11 E-value=17 Score=30.66 Aligned_cols=44 Identities=30% Similarity=0.413 Sum_probs=34.7
Q ss_pred cccCCCCCCCccccHHHHHHHHHHHHHHHhh-ccccCcCCcccEEE
Q 030939 69 TAAGGVPPPPLDLTEDNVRQVIADARGELAQ-LFDTSVGITGVAEL 113 (169)
Q Consensus 69 ~~~~~~~~~~l~LteE~Ve~VLeeiRP~L~~-Df~~~vGiGGDVEL 113 (169)
++-++++.+|+- .+|.++.+++..+-+++. |.+.+|||-+.+.-
T Consensus 34 ~v~sgv~~QPfg-~eeT~~GA~nRA~~A~~~~~~dy~VGIEaGi~~ 78 (175)
T COG1986 34 AVDSGVPPQPFG-DEETVQGARNRAKNALRAVDADYGVGIEAGIIR 78 (175)
T ss_pred ccCCCCCCCCcC-hHHHHHHHHHHHHHHHhhcCCcEEEEEeeeEee
Confidence 345677777775 489999999999999997 57899999777653
No 35
>PRK14446 acylphosphatase; Provisional
Probab=53.97 E-value=58 Score=23.92 Aligned_cols=61 Identities=16% Similarity=0.214 Sum_probs=38.9
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.... -...||.|-|. ...||.|.|.++|. +..+ +...++|+ +-|....|+-.+.++++
T Consensus 18 R~fv~~~-A~~lgl~G~V~--N~~dGsVei~~qG~----~~~l-~~f~~~l~-~gP~~a~V~~v~~~~~~ 78 (88)
T PRK14446 18 RASTRER-AVALGLVGHAR--NQADGSVEVVAAGS----AAAL-EALEAWLW-QGPPAATVAAVTRTPCA 78 (88)
T ss_pred hHHHHHH-HeeCCeEEEEE--ECCCCCEEEEEEeC----HHHH-HHHHHHHh-hCCCceEEEEEEEEEeC
Confidence 5555444 34567777653 56789999999997 3334 45557777 57777766655544443
No 36
>PRK14428 acylphosphatase; Provisional
Probab=53.89 E-value=50 Score=24.76 Aligned_cols=61 Identities=18% Similarity=0.162 Sum_probs=37.0
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.... -...||.|-|. ...||.|.+.++|. +..+. ..-++|+ +-|....|+-.+.++++
T Consensus 24 R~fv~~~-A~~lgL~G~V~--N~~dGsVei~~qG~----~~~i~-~fi~~l~-~gP~~a~V~~v~~~~~~ 84 (97)
T PRK14428 24 RYFTVTQ-ARRLGVQGWVR--NCRDGSVELEAQGS----SDAVQ-ALVEQLA-IGPRWSEVSHVAVHDMP 84 (97)
T ss_pred hHHHHHH-HHHcCCEEEEE--ECCCCEEEEEEEcC----HHHHH-HHHHHHh-hCCCccEEEEEEEEEcC
Confidence 5555443 23467888763 55789999999996 44444 3446666 46766555544444443
No 37
>PF01931 NTPase_I-T: Protein of unknown function DUF84; InterPro: IPR002786 This is a family of prokaryotic proteins of unknown function.; PDB: 1U5W_E 1ZNO_B 1ZWY_D 1U14_A.
Probab=52.39 E-value=14 Score=30.27 Aligned_cols=43 Identities=28% Similarity=0.465 Sum_probs=31.2
Q ss_pred cccCCCCCCCccccHHHHHHHHHHHHHHHhh--ccccCcCCcccEE
Q 030939 69 TAAGGVPPPPLDLTEDNVRQVIADARGELAQ--LFDTSVGITGVAE 112 (169)
Q Consensus 69 ~~~~~~~~~~l~LteE~Ve~VLeeiRP~L~~--Df~~~vGiGGDVE 112 (169)
++.++++++|+.+ +|.++.+++.++-.+++ |.+.+|||-|.|+
T Consensus 30 ~v~SgVs~QP~g~-eET~~GA~nRA~~a~~~~~~ad~gVGlEgGv~ 74 (168)
T PF01931_consen 30 SVPSGVSDQPMGD-EETIQGAINRAKAALEKVPDADYGVGLEGGVE 74 (168)
T ss_dssp E---SS-SS-BSH-HHHHHHHHHHHHHHHHHSTTSSEEEEEEEEEE
T ss_pred cCCCCCCCCCCCH-HHHHHHHHHHHHHHHHhCCCCCEEEEEcccee
Confidence 4568888888863 89999999999888884 3568899888887
No 38
>PRK14427 acylphosphatase; Provisional
Probab=51.78 E-value=60 Score=23.92 Aligned_cols=59 Identities=22% Similarity=0.248 Sum_probs=36.8
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcc
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQ 161 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~q 161 (169)
||+..+. -...||.|-|. ...||.|.|-++|. ...+. ...++|++. |.-..|+-.+.++
T Consensus 22 R~fv~~~-A~~lgl~G~V~--N~~dGsVei~~qG~----~~~i~-~f~~~l~~~-p~~a~V~~i~~~~ 80 (94)
T PRK14427 22 RYWTMRK-AEELGLTGTVR--NLDDGSVALVAEGT----GEQVE-KLLDWLNSD-RAPGRVERVDHTV 80 (94)
T ss_pred hHHHHHH-HHHcCCEEEEE--ECCCCeEEEEEEEC----HHHHH-HHHHHHhhC-CCCcEEEEEEEEE
Confidence 5555444 34568888773 55789999999996 33444 455677765 6545555444333
No 39
>PRK14441 acylphosphatase; Provisional
Probab=51.65 E-value=74 Score=23.31 Aligned_cols=58 Identities=22% Similarity=0.271 Sum_probs=37.0
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCc
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEK 160 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ 160 (169)
||+.... -.+.||.|-|. ..+||.|.+-++|. +..+. ...++|+ .-|....|+-.+.+
T Consensus 21 R~~v~~~-A~~lgL~G~V~--N~~dG~Vei~~qG~----~~~i~-~f~~~l~-~gp~~a~V~~v~~~ 78 (93)
T PRK14441 21 RQSAADE-ARRLGVEGWVR--NLPDGRVEAEAEGE----RAAVG-ALVRWCH-AGPPAARVDRVEVE 78 (93)
T ss_pred hHHHHHH-HhhcCcEEEEE--ECCCCEEEEEEEEC----HHHHH-HHHHHHh-hCCCCcEEEEEEEE
Confidence 5655554 45678888773 55789999999996 33444 4446676 56665555444333
No 40
>PRK14426 acylphosphatase; Provisional
Probab=50.63 E-value=55 Score=23.88 Aligned_cols=62 Identities=26% Similarity=0.285 Sum_probs=39.6
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.... -...||.|-| -..+||.|.+-++|. +..+. ...++|++..|....|+-.+.++++
T Consensus 20 R~~v~~~-A~~~gl~G~V--~N~~dG~Vei~~~G~----~~~i~-~f~~~l~~g~P~~a~V~~i~~~~~~ 81 (92)
T PRK14426 20 RYHTQHE-ALKLGLTGYA--KNLDDGSVEVVACGE----EEQVE-KLMEWLKEGGPRSARVDRVLTEPHS 81 (92)
T ss_pred hHHHHHH-HHHhCCEEEE--EECCCCcEEEEEEeC----HHHHH-HHHHHHhcCCCCCeEEEEEEEEEcC
Confidence 5555444 3346778875 355789999999997 44444 4557888876776666554444444
No 41
>PRK14422 acylphosphatase; Provisional
Probab=50.22 E-value=51 Score=24.21 Aligned_cols=57 Identities=25% Similarity=0.214 Sum_probs=35.8
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDE 159 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~ 159 (169)
||++.+. -.+.||.|-|. ...||.|.|-++|. ...+. ...++|++. |....|+-.+.
T Consensus 22 R~~v~~~-A~~~gl~G~V~--N~~dG~Vei~~~G~----~~~i~-~f~~~l~~g-p~~a~V~~i~~ 78 (93)
T PRK14422 22 RWWTRSR-ALELGLTGYAA--NLADGRVQVVAEGP----RAACE-KLLQLLRGD-DTPGRVDKVVE 78 (93)
T ss_pred HHHHHHH-HHHcCCEEEEE--ECCCCCEEEEEEcC----HHHHH-HHHHHHHhC-CCCcEEEEEEE
Confidence 5555544 34567888763 45789999999997 33343 455777776 66555554433
No 42
>COG1820 NagA N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]
Probab=50.00 E-value=17 Score=33.80 Aligned_cols=67 Identities=15% Similarity=0.167 Sum_probs=47.0
Q ss_pred cHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCch---hhHHHHHHHHHHHhCCCceEEEe
Q 030939 82 TEDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKR---STVIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 82 teE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp---~Tlk~gIE~~Lke~IPEI~~V~i 156 (169)
+.|++.++|+.+|.++++. |-.+-=+-++||++...-+|+=.-+- .+.. -+++++...=--|+.|.+
T Consensus 99 ~~e~i~~al~~~~e~~~~~-------ga~ilGiHLEGP~ls~~kkGAh~~~~ir~~~~~-~~~~~~~~a~g~i~~vTl 168 (380)
T COG1820 99 SLEKIKAALRAIREAIAKG-------GAQILGIHLEGPFLSPEKKGAHNPEYIRPPDPE-ELEQLIAAADGLIKLVTL 168 (380)
T ss_pred CHHHHHHHHHHHHHHHhcc-------CCceEEEEeecCccCHhhccCCCHHHhCCCCHH-HHHHHHhhccCceEEEEE
Confidence 7899999999999999977 66666678899999999999833222 3444 455555544323444444
No 43
>PRK14425 acylphosphatase; Provisional
Probab=48.34 E-value=73 Score=23.45 Aligned_cols=61 Identities=16% Similarity=0.153 Sum_probs=39.8
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.+.. -...||.|-| -...||.|.|-++|. ...+. ...++|+ +-|.-..|+-.+.++++
T Consensus 22 R~~v~~~-A~~~gl~G~V--~N~~dGsVei~~qG~----~~~le-~f~~~l~-~gp~~a~V~~i~~~~~~ 82 (94)
T PRK14425 22 RDWTRDE-AERLGLTGWV--RNESDGSVTALIAGP----DSAIS-AMIERFR-RGPPGASVSGVETEAAQ 82 (94)
T ss_pred hHHHHHH-HHHhCCEEEE--EECCCCeEEEEEEeC----HHHHH-HHHHHHh-hCCCceEEEEEEEEEcC
Confidence 5555444 3346778866 356789999999997 33344 4446777 46777777766666555
No 44
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=47.62 E-value=35 Score=25.21 Aligned_cols=53 Identities=19% Similarity=0.302 Sum_probs=37.7
Q ss_pred cccHHHHHHHHHHHHHHHhhccccCcCCcccEEEEE----------ec----CCeEEEEEeecCCCchhhHHHHHHHHH
Q 030939 80 DLTEDNVRQVIADARGELAQLFDTSVGITGVAELAE----------LD----GPFVKIRLRGRFWHKRSTVIARLANYL 144 (169)
Q Consensus 80 ~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVd----------vd----gg~VkVrL~GaC~~Cp~Tlk~gIE~~L 144 (169)
++++|+++++++.+.-.|.+. ||.+.-++ |+ |-.|.+.+.+. |..++ -+++.+
T Consensus 17 ~l~e~~~~~~~~~~~~~i~~~-------gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~----~~~i~-eler~l 83 (97)
T CHL00123 17 DLNEEELLKWIENYKKLLRKR-------GAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGN----GKLVN-SLEKAL 83 (97)
T ss_pred CCCHHHHHHHHHHHHHHHHHC-------CCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEEC----HHHHH-HHHHHh
Confidence 678999999999999999999 99876665 21 22466666665 33333 555655
No 45
>PF00958 GMP_synt_C: GMP synthase C terminal domain domain; InterPro: IPR001674 The amidotransferase family of enzymes utilises the ammonia derived from the hydrolysis of glutamine for a subsequent chemical reaction catalyzed by the same enzyme. The ammonia intermediate does not dissociate into solution during the chemical transformations []. GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. The C-terminal domain is specific to the GMP synthases 6.3.5.2 from EC. In prokaryotes this domain mediates dimerisation. Eukaryotic GMP synthases are monomers. This domain in eukaryotes includes several large insertions that may form globular domains [].; GO: 0003922 GMP synthase (glutamine-hydrolyzing) activity, 0005524 ATP binding, 0006164 purine nucleotide biosynthetic process, 0006177 GMP biosynthetic process; PDB: 2VXO_A 2YWC_D 2YWB_D 2DPL_B 3A4I_A 3UOW_B 3TQI_D 1GPM_C.
Probab=47.59 E-value=34 Score=25.94 Aligned_cols=51 Identities=16% Similarity=0.264 Sum_probs=35.8
Q ss_pred cCcCCcccEEEEEecCCeEEEE-------EeecCCCchhhHHHHHHHHHHHhCCCceEEEe
Q 030939 103 TSVGITGVAELAELDGPFVKIR-------LRGRFWHKRSTVIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 103 ~~vGiGGDVELVdvdgg~VkVr-------L~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i 156 (169)
.|||.-||-.-.+ ..|.|| +++.+..=|..+...|.+.|..++|+|.+|..
T Consensus 24 rsvGV~GD~RtY~---~~vvlR~v~s~D~MTa~~~~~p~~~L~~is~~I~n~v~~V~RV~y 81 (93)
T PF00958_consen 24 RSVGVQGDQRTYG---YVVVLRAVESEDFMTADWARLPWELLEEISSRITNEVPGVNRVVY 81 (93)
T ss_dssp EEEECCTTTCEEE---EEEEEEEEEESSSSSEEE-TB-HHHHHHHHHHHHHHSTTEEEEEE
T ss_pred CcccccCCcccee---eeEEEEEeecccccccccccCCHHHHHHHHHHHHHcCCCccEEEE
Confidence 6788777754332 235555 35666666777888999999999999999975
No 46
>PRK14436 acylphosphatase; Provisional
Probab=47.40 E-value=76 Score=23.23 Aligned_cols=60 Identities=22% Similarity=0.238 Sum_probs=37.5
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCccc
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQL 162 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql 162 (169)
||+.++. -...||.|-| -.+.||.|.|-++|. +..+...+ .+|++ -|....|+-.+.+.+
T Consensus 20 R~~v~~~-A~~l~l~G~V--~N~~dG~Vei~~qG~----~~~i~~f~-~~l~~-gp~~a~V~~v~~~~~ 79 (91)
T PRK14436 20 RWSMQRE-ARKLGVNGWV--RNLPDGSVEAVLEGD----EERVEALI-GWAHQ-GPPLARVTRVEVKWE 79 (91)
T ss_pred HHHHHHH-HHHcCCEEEE--EECCCCcEEEEEEcC----HHHHHHHH-HHHhh-CCCceEEEEEEEEEc
Confidence 5665554 3446778876 355789999999997 34455444 47774 566555555444433
No 47
>PRK10718 RpoE-regulated lipoprotein; Provisional
Probab=46.72 E-value=25 Score=30.05 Aligned_cols=53 Identities=15% Similarity=0.232 Sum_probs=35.2
Q ss_pred cccCCCCCCCccccHHHHHHHHHH---HHHHHhhccccCcCCcccEEE-EE-ecCCeEEEEEeec
Q 030939 69 TAAGGVPPPPLDLTEDNVRQVIAD---ARGELAQLFDTSVGITGVAEL-AE-LDGPFVKIRLRGR 128 (169)
Q Consensus 69 ~~~~~~~~~~l~LteE~Ve~VLee---iRP~L~~Df~~~vGiGGDVEL-Vd-vdgg~VkVrL~Ga 128 (169)
+-+.+.......+.++.|++.|+. +|+=.+.+ .|++-- .+ ++++.|++-+.|.
T Consensus 43 e~GVG~Ita~Tp~~~~aI~~~L~g~y~lrsGm~t~-------~G~iv~~~qa~~~d~v~lvi~G~ 100 (191)
T PRK10718 43 EQGVGGITASTPLQEQAIADALDGDYRLRSGMKTA-------NGNVVRFFQAMKGDQVAMVINGQ 100 (191)
T ss_pred cCccccccccCccCHHHHHhhcCCCceEeccccCC-------CCCEEEeeeeecCCceEEEEECC
Confidence 344455555556789999999974 48877766 665432 22 3677888888886
No 48
>PRK14435 acylphosphatase; Provisional
Probab=45.62 E-value=79 Score=23.04 Aligned_cols=61 Identities=20% Similarity=0.224 Sum_probs=36.3
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||++... -...||.|-| -..++|.|.+.++|. +..+. ...++|+ .-|....|+-.+.+.++
T Consensus 18 R~~v~~~-A~~~gl~G~V--~N~~dG~Vei~~~G~----~~~i~-~f~~~l~-~gp~~a~V~~v~~~~~~ 78 (90)
T PRK14435 18 RYFTRRV-AKSLGVKGYV--MNMDDGSVFIHAEGD----ENALR-RFLNEVA-KGPPAAVVTNVSVEETT 78 (90)
T ss_pred hHHHHHH-HHHhCCEEEE--EECCCCCEEEEEEEC----HHHHH-HHHHHHh-hCCCCcEEEEEEEEEcC
Confidence 4444443 2235778876 455689999999996 33444 4446666 45666555544444433
No 49
>PRK14444 acylphosphatase; Provisional
Probab=45.20 E-value=79 Score=23.13 Aligned_cols=61 Identities=16% Similarity=0.185 Sum_probs=38.3
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.... -...||.|-| -..+||.|.|-++|. +..+...+ ..|+ +-|....|+-.+.++++
T Consensus 20 R~~v~~~-A~~lgl~G~V--~N~~dG~Vei~~qG~----~~~i~~f~-~~l~-~gp~~a~V~~i~~~~~~ 80 (92)
T PRK14444 20 RAYTRDR-AREAGVKGWV--RNLSDGRVEAVFEGS----RPAVQKMI-SWCY-SGPSHARVERVEVHWEE 80 (92)
T ss_pred HHHHHHH-HHHhCCEEEE--EECCCCcEEEEEEcC----HHHHHHHH-HHHH-hCCCCcEEEEEEEEEcc
Confidence 5555544 3446788876 356789999999997 44455444 4466 46776666655444443
No 50
>PRK14420 acylphosphatase; Provisional
Probab=44.36 E-value=81 Score=22.74 Aligned_cols=61 Identities=15% Similarity=0.114 Sum_probs=36.5
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||++... -..-||.|-|. ..++|.|.|-++|. +..+. ....+|++. |....|+-.+.+..+
T Consensus 18 R~~~~~~-A~~~gl~G~V~--N~~dG~Vei~~qG~----~~~i~-~f~~~l~~~-p~~a~V~~i~~~~~~ 78 (91)
T PRK14420 18 RYFVQME-ADKRKLTGWVK--NRDDGTVEIEAEGP----EEALQ-LFLDAIEKG-SPFSKVTDVHIEERD 78 (91)
T ss_pred hHHHHHH-HHHcCCEEEEE--ECCCCcEEEEEEEC----HHHHH-HHHHHHHhC-CCCCEEEEEEEEEcC
Confidence 5555443 23467788753 44689999999997 34444 344666666 555555544444333
No 51
>PRK14442 acylphosphatase; Provisional
Probab=43.52 E-value=87 Score=22.85 Aligned_cols=61 Identities=21% Similarity=0.278 Sum_probs=38.3
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.... -...||.|-| -..+||.|.+.++|. +..+. ...++|+ .-|....|+-.+.++++
T Consensus 20 R~~~~~~-A~~~gl~G~V--~N~~dG~Vei~~qG~----~~~i~-~f~~~l~-~gp~~a~V~~v~~~~~~ 80 (91)
T PRK14442 20 RQATREE-ADRLELDGWV--RNLDDGRVEVVWEGE----EDRAK-ALERWLG-RGPRHAEVSAVEVEQMP 80 (91)
T ss_pred cHHHHHH-HHHcCCEEEE--EECCCCCEEEEEEcC----HHHHH-HHHHHHh-hCCCCeEEEEEEEEEcC
Confidence 5554443 3456788866 356789999999997 33444 4456676 46776666655554444
No 52
>PRK14438 acylphosphatase; Provisional
Probab=43.36 E-value=95 Score=22.61 Aligned_cols=56 Identities=18% Similarity=0.170 Sum_probs=35.2
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIED 158 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d 158 (169)
||+.+.. -...||.|-| -..+||.|.+.++|. +..+. ...++|+ +-|....|+-.+
T Consensus 19 R~~~~~~-A~~~gl~G~V--~N~~dG~Vei~~qG~----~~~i~-~f~~~l~-~gp~~a~V~~v~ 74 (91)
T PRK14438 19 RHHTQQT-AQRLNVSGWV--KNLPNGSVQGCFEGE----ETDVA-ALIDWCH-HGPSRARVSGVI 74 (91)
T ss_pred cHHHHHH-HHHcCCEEEE--EECCCCEEEEEEEEC----HHHHH-HHHHHHh-hCCCCcEEEEEE
Confidence 5555444 3456888876 456789999999997 33444 4446666 466655454433
No 53
>TIGR02174 CXXU_selWTH selT/selW/selH selenoprotein domain. This model represents a domain found in both bacteria and animals, including animal proteins SelT, SelW, and SelH, all of which are selenoproteins. In a CXXC motif near the N-terminus of the domain, selenocysteine may replace the second Cys. Proteins with this domain may include an insert of about 70 amino acids. This model is broader than the current SelW model pfam05169 in Pfam.
Probab=40.97 E-value=45 Score=23.25 Aligned_cols=24 Identities=17% Similarity=0.104 Sum_probs=18.7
Q ss_pred cCCCch-hhHHHHHHHHHHHhCCCc
Q 030939 128 RFWHKR-STVIARLANYLKQRIPEI 151 (169)
Q Consensus 128 aC~~Cp-~Tlk~gIE~~Lke~IPEI 151 (169)
-|.+|. ..--..+.+.|++.+|+.
T Consensus 5 yC~~C~y~~Ra~~l~q~L~~~Fp~~ 29 (72)
T TIGR02174 5 YCGSCGYKPRAAWLKQELLEEFPDL 29 (72)
T ss_pred ECCCCCChHHHHHHHHHHHHHCCCC
Confidence 488888 444455899999999996
No 54
>TIGR01327 PGDH D-3-phosphoglycerate dehydrogenase. This model represents a long form of D-3-phosphoglycerate dehydrogenase, the serA gene of one pathway of serine biosynthesis. Shorter forms, scoring between trusted and noise cutoff, include SerA from E. coli.
Probab=40.57 E-value=19 Score=33.60 Aligned_cols=25 Identities=28% Similarity=0.404 Sum_probs=20.7
Q ss_pred ccCcCCcccEEEEEecCCeEEEEEee
Q 030939 102 DTSVGITGVAELAELDGPFVKIRLRG 127 (169)
Q Consensus 102 ~~~vGiGGDVELVdvdgg~VkVrL~G 127 (169)
|+|+| ||.+++++|+|-.|.+...|
T Consensus 427 G~s~g-Gg~~~I~~ing~~v~~~~~~ 451 (525)
T TIGR01327 427 GTVFG-GFSPRIVEIDGFHVDLEPEG 451 (525)
T ss_pred EEEec-CCcEEEEEECCEEEEEecCc
Confidence 57788 89999999998777777665
No 55
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=40.40 E-value=63 Score=26.84 Aligned_cols=33 Identities=15% Similarity=0.254 Sum_probs=27.2
Q ss_pred ccHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCe
Q 030939 81 LTEDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPF 120 (169)
Q Consensus 81 LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~ 120 (169)
+..++|+++|++++-.+..+ +..++++++.|+.
T Consensus 32 ~~~~~v~~~l~~L~~~y~~~-------~~gi~i~~~~~~y 64 (188)
T PRK00135 32 LEPTEVQQLLEELQEKYEGD-------DRGLKLIEFNDVY 64 (188)
T ss_pred CCHHHHHHHHHHHHHHHhhC-------CCCEEEEEECCEE
Confidence 45678999999998888877 7789999997664
No 56
>PRK14434 acylphosphatase; Provisional
Probab=40.39 E-value=87 Score=23.00 Aligned_cols=57 Identities=18% Similarity=0.203 Sum_probs=35.0
Q ss_pred HHHHhhccccCcC-CcccEEEEEecCCeEEEEEeecCCCch-hhHHHHHHHHHHHhCCCceEEEecC
Q 030939 94 RGELAQLFDTSVG-ITGVAELAELDGPFVKIRLRGRFWHKR-STVIARLANYLKQRIPEILEVDIED 158 (169)
Q Consensus 94 RP~L~~Df~~~vG-iGGDVELVdvdgg~VkVrL~GaC~~Cp-~Tlk~gIE~~Lke~IPEI~~V~i~d 158 (169)
||+.... -...| |.|-| -...||.|.|.++|. + ..+. ...++|++.-|....|+-.+
T Consensus 18 R~fv~~~-A~~lg~l~G~V--~N~~dGsVei~~qG~----~~~~l~-~f~~~l~~g~pp~a~V~~v~ 76 (92)
T PRK14434 18 RYSVYSL-ALEIGDIYGRV--WNNDDGTVEILAQSD----DSAKLA-KFIQEIRKGPSKWAKVTYVD 76 (92)
T ss_pred hHHHHHH-HHHcCCcEEEE--EECCCCCEEEEEEcC----CHHHHH-HHHHHHhcCCCCCEEEEEEE
Confidence 5555443 23456 77765 345688999999995 2 2444 44567788777555554433
No 57
>TIGR01297 CDF cation diffusion facilitator family transporter. This model describes a broadly distributed family of transporters, a number of which have been shown to transport divalent cations of cobalt, cadmium and/or zinc. The family has six predicted transmembrane domains. Members of the family are variable in length because of variably sized inserts, often containing low-complexity sequence.
Probab=39.49 E-value=1.3e+02 Score=24.55 Aligned_cols=37 Identities=19% Similarity=0.256 Sum_probs=25.6
Q ss_pred EEEEEeecCCCch-hhHHHHHHHHHHHhCCCceEEEec
Q 030939 121 VKIRLRGRFWHKR-STVIARLANYLKQRIPEILEVDIE 157 (169)
Q Consensus 121 VkVrL~GaC~~Cp-~Tlk~gIE~~Lke~IPEI~~V~i~ 157 (169)
+.|.+.+.+.-.- -.+...+|+.+++++|++.+|.+.
T Consensus 227 ~~v~v~~~~~~~~ah~i~~~i~~~i~~~~~~v~~v~ih 264 (268)
T TIGR01297 227 VHVVVDPDLDLKQAHDIALEIEREILKRHPGIEHVTIQ 264 (268)
T ss_pred EEEEECCCCChhHHHHHHHHHHHHHHHhcCCCCeEEEE
Confidence 4555556543322 345668999999999999888773
No 58
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=39.22 E-value=25 Score=22.61 Aligned_cols=27 Identities=15% Similarity=0.101 Sum_probs=18.9
Q ss_pred ecCCCchhhHHHHHHHHHHHhCCCceEEEecC
Q 030939 127 GRFWHKRSTVIARLANYLKQRIPEILEVDIED 158 (169)
Q Consensus 127 GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d 158 (169)
-.|.+|...++ +.|++ +|+|..|.+.-
T Consensus 7 m~C~~C~~~v~----~~l~~-~~GV~~v~vd~ 33 (62)
T PF00403_consen 7 MTCEGCAKKVE----KALSK-LPGVKSVKVDL 33 (62)
T ss_dssp TTSHHHHHHHH----HHHHT-STTEEEEEEET
T ss_pred cccHHHHHHHH----HHHhc-CCCCcEEEEEC
Confidence 46888876555 55554 79999887743
No 59
>PRK14447 acylphosphatase; Provisional
Probab=38.89 E-value=1.5e+02 Score=21.81 Aligned_cols=61 Identities=18% Similarity=0.247 Sum_probs=38.0
Q ss_pred HHHHhhccccCcCCcccEEEEEecCC-eEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGP-FVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg-~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.++. -...||.|-|. ..+|| .|.+.++|. +..+...+ .+|+ .-|.-..|+-.+.+.++
T Consensus 20 R~~~~~~-A~~~gl~G~V~--N~~dG~~Vei~~qG~----~~~l~~f~-~~l~-~gp~~a~V~~v~~~~~~ 81 (95)
T PRK14447 20 RQSMKEV-ANRNGVRGWVR--NRSDGRTVEAVLEGP----RDAVLKVI-EWAR-VGPPGARVEDVEVKWEE 81 (95)
T ss_pred hHHHHHH-HhhcCeEEEEE--ECCCCCEEEEEEEeC----HHHHHHHH-HHHh-hCCCCeEEEEEEEEEcC
Confidence 6666554 44578888764 44788 699999997 45555444 4676 35665555554444333
No 60
>TIGR00719 sda_beta L-serine dehydratase, iron-sulfur-dependent, beta subunit. This family of enzymes is not homologous to the pyridoxal phosphate-dependent threonine deaminases and eukaryotic serine deaminases.
Probab=38.69 E-value=20 Score=29.56 Aligned_cols=45 Identities=27% Similarity=0.277 Sum_probs=30.4
Q ss_pred ccCcCCcccEEEEEecCCeEEEEEeecCCCch----hhHHHHHHHHHHHh
Q 030939 102 DTSVGITGVAELAELDGPFVKIRLRGRFWHKR----STVIARLANYLKQR 147 (169)
Q Consensus 102 ~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp----~Tlk~gIE~~Lke~ 147 (169)
++|+| ||.+++|+|||-.|.+...|.=--|. --+-..|.+.|-++
T Consensus 124 Gts~g-gg~~riv~idg~~vd~~~~g~~L~~~~~D~PG~Ig~vg~~Lg~~ 172 (208)
T TIGR00719 124 GISIG-GGAIEITEINGFAIEFRGEHPAILLEHNDKFGTIAGVANLLAGF 172 (208)
T ss_pred EEEeC-CCeEEEEEECCEEEEecCCccEEEEEeCCCCChHHHHHHHHHhC
Confidence 67788 89999999998778887776433332 22344566666554
No 61
>PF03147 FDX-ACB: Ferredoxin-fold anticodon binding domain; InterPro: IPR005121 Aminoacyl-tRNA synthetases (aaRSs) play a crucial role in the translation of the genetic code by means of covalent attachment of amino acids to their cognate tRNAs. Phenylalanine-tRNA synthetase (PheRS) is known to be among the most complex enzymes of the aaRS family. Bacterial and mitochondrial PheRSs share a ferredoxin-fold anticodon binding (FDX-ACB) domain, which represents a canonical double split alpha+beta motif having no insertions. The FDX-ACB domain displays a typical RNA recognition fold (RRM) (see PDOC00030 from PROSITEDOC) formed by the four-stranded antiparallel beta sheet, with two helices packed against it [, , , , ].; GO: 0000049 tRNA binding, 0000287 magnesium ion binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation, 0008033 tRNA processing; PDB: 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 3PCO_D 2RHS_D 2RHQ_B 2AKW_B 1B70_B ....
Probab=38.66 E-value=36 Score=24.38 Aligned_cols=24 Identities=17% Similarity=0.256 Sum_probs=18.5
Q ss_pred ccccHHHHHHHHHHHHHHHhhccc
Q 030939 79 LDLTEDNVRQVIADARGELAQLFD 102 (169)
Q Consensus 79 l~LteE~Ve~VLeeiRP~L~~Df~ 102 (169)
-+||.++|+++.++++-.|++.||
T Consensus 67 ~TLt~~ev~~~~~~i~~~l~~~~~ 90 (94)
T PF03147_consen 67 RTLTDEEVNEIHDKIIKALEKKLG 90 (94)
T ss_dssp S---HHHHHHHHHHHHHHHHHTCT
T ss_pred CCCCHHHHHHHHHHHHHHHHHHhC
Confidence 378999999999999999988743
No 62
>COG0211 RpmA Ribosomal protein L27 [Translation, ribosomal structure and biogenesis]
Probab=38.55 E-value=40 Score=25.82 Aligned_cols=26 Identities=27% Similarity=0.258 Sum_probs=23.7
Q ss_pred ccCcCCcccEEEEEecCCeEEEEEee
Q 030939 102 DTSVGITGVAELAELDGPFVKIRLRG 127 (169)
Q Consensus 102 ~~~vGiGGDVELVdvdgg~VkVrL~G 127 (169)
|..||+|.|=.|.-+.+|.|+...+|
T Consensus 48 G~NVG~GkDhTlFAl~dG~Vkf~~k~ 73 (87)
T COG0211 48 GVNVGRGKDHTLFALVDGVVKFETKG 73 (87)
T ss_pred CcccccCCCceEEEeeccEEEEEEcc
Confidence 57799999999999999999988876
No 63
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=37.81 E-value=81 Score=25.49 Aligned_cols=40 Identities=18% Similarity=0.298 Sum_probs=29.7
Q ss_pred cHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecC
Q 030939 82 TEDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRF 129 (169)
Q Consensus 82 teE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC 129 (169)
..+.|+++|++++-.+... +..++++++. +..++..+-.+
T Consensus 25 ~~~~v~~~l~~L~~~y~~~-------~~gl~l~~~~-~~y~l~tk~~~ 64 (159)
T PF04079_consen 25 SEDEVEEALEELQEEYNEE-------DRGLELVEVG-GGYRLQTKPEY 64 (159)
T ss_dssp -HHHHHHHHHHHHHHHHHC-------T-SEEEEEET-TEEEEEE-GGG
T ss_pred CHHHHHHHHHHHHHHhccC-------CCCEEEEEEC-CEEEEEEhHHH
Confidence 5889999999998888888 8899999995 55555565544
No 64
>PRK11688 hypothetical protein; Provisional
Probab=37.77 E-value=84 Score=24.20 Aligned_cols=43 Identities=19% Similarity=0.182 Sum_probs=29.9
Q ss_pred ccHHHHHHHHHHH----HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCc
Q 030939 81 LTEDNVRQVIADA----RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHK 132 (169)
Q Consensus 81 LteE~Ve~VLeei----RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~C 132 (169)
++++++.+-|+++ -|+.+.. .+++++++++.++++|.-.=.+|
T Consensus 4 ~~~~~~~~~~~~~~~~~~pf~~~l---------G~~~~~~~~g~~~~~l~~~~~~~ 50 (154)
T PRK11688 4 LTQEEALKLVGEIFVYHMPFNRLL---------GLELERLEPDFVELSFKMQPELV 50 (154)
T ss_pred cCHHHHHHHHHHHHHhcCCHHHHh---------CcEEEEEeCCEEEEEeeCCHHHc
Confidence 4555555555542 3666666 37899998899999998776666
No 65
>PRK14423 acylphosphatase; Provisional
Probab=37.68 E-value=1.6e+02 Score=21.52 Aligned_cols=58 Identities=17% Similarity=0.253 Sum_probs=35.8
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCc
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEK 160 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ 160 (169)
||+.... -...|+.|-| -.+.||.|.|.++|. +..+ +...+.|++ -|....|+-.+.+
T Consensus 21 R~~v~~~-A~~lgl~G~V--~N~~dG~Vei~~~G~----~~~i-~~f~~~l~~-gp~~a~V~~v~~~ 78 (92)
T PRK14423 21 RASTRDT-ARELGVDGWV--RNLDDGRVEAVFEGP----RDAV-EAMVEWCHE-GSPAAVVEDVEVE 78 (92)
T ss_pred hHHHHHH-HHHcCCEEEE--EECCCCeEEEEEEEC----HHHH-HHHHHHHHh-CCCceEEEEEEEE
Confidence 5555444 3456788876 456789999999996 3333 345577774 4555555544433
No 66
>PF02061 Lambda_CIII: Lambda Phage CIII; InterPro: IPR013056 Bacteriophage lambda regulatory protein CIII is a small protein that plays a role in stabilising the CII transcriptional activator, via a mechanism that is not yet fully understood [, ]. Stabilised CII activates CI, the gene for the repressor protein that prevents transcription of proteins required for lytic development. The central portion of the protein is well conserved and is both necessary and sufficient for the activity of the protein []. Comparative analysis of the CIII sequence in lambda, Bacteriophage HK022 and the lambdoid Enterobacteria phage P22 has led to the suggestion that this central region assumes an amphipathic alpha-helical structure []. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=37.36 E-value=34 Score=23.27 Aligned_cols=21 Identities=10% Similarity=0.077 Sum_probs=18.2
Q ss_pred ecCCCch---hhHHHHHHHHHHHh
Q 030939 127 GRFWHKR---STVIARLANYLKQR 147 (169)
Q Consensus 127 GaC~~Cp---~Tlk~gIE~~Lke~ 147 (169)
++|.+|+ .+|.++|-+.|++-
T Consensus 8 ~~~~G~~ql~ESLLdrItRklr~g 31 (45)
T PF02061_consen 8 WPRMGCPQLSESLLDRITRKLRDG 31 (45)
T ss_pred ccccCCchhhHHHHHHHHHHHHHH
Confidence 6899999 88999999998864
No 67
>PRK14451 acylphosphatase; Provisional
Probab=37.34 E-value=1.3e+02 Score=21.97 Aligned_cols=61 Identities=21% Similarity=0.289 Sum_probs=37.6
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.+.. -...||.|-| -..+||.|.+.++|. +..+. ....+|+ +-|....|+-.+.++++
T Consensus 19 R~~~~~~-A~~~gl~G~V--~N~~dG~Vei~~qG~----~~~i~-~f~~~l~-~gp~~a~V~~v~~~~~~ 79 (89)
T PRK14451 19 RASAKKL-AEQLMISGWA--RNLADGRVEVFACGK----EDKLE-EFYTWLQ-KGPLNARVDVCTRENLP 79 (89)
T ss_pred hHHHHHH-HHHhCCEEEE--EECCCCCEEEEEEEC----HHHHH-HHHHHHh-hCCCceEEEEEEEEEcC
Confidence 4444443 2346778876 356789999999997 44444 3446666 46766666554444443
No 68
>cd07028 RNAP_RPB3_like RPB3 subunit of RNA polymerase. The eukaryotic RPB3 subunit of RNA polymerase (RNAP), as well as its archaeal (D subunit) and bacterial (alpha subunit) counterparts, is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III, for the synthesis of ribosomal RNA precursor, mRNA precursor, and 5S and tRNA, respectively. A single distinct RNAP complex is found in prokaryotes and archaea, which may be responsible for the synthesis of all RNAs. The RPB3 subunit is similar to the bacterial RNAP alpha subunit in that it contains two subdomains: one subdomain is similar to the eukaryotic Rpb11/AC19/archaeal L subunit which is involved in dimerization; and
Probab=36.79 E-value=1.1e+02 Score=25.72 Aligned_cols=45 Identities=20% Similarity=0.293 Sum_probs=38.1
Q ss_pred cEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCC--ceEEEecC
Q 030939 110 VAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPE--ILEVDIED 158 (169)
Q Consensus 110 DVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPE--I~~V~i~d 158 (169)
.+++++.++..+++.|.|. ..|+-+.+.+.|-..+|. |..|.+.+
T Consensus 2 ~i~i~~~~~~~~~f~l~g~----~~t~aNaLRRiLLsevP~~AI~~V~I~~ 48 (212)
T cd07028 2 QVKIREADKDNVDFILSGV----DLAMANALRRVMIAEVPTMAVDSVEVET 48 (212)
T ss_pred cEEEEEcCCCEEEEEEEcc----ChhHHHHHHHHHHHcCcceEEEEEEEEc
Confidence 4788999999999999985 689999999999999998 45666644
No 69
>PF00708 Acylphosphatase: Acylphosphatase; InterPro: IPR001792 Acylphosphatase (3.6.1.7 from EC) is an enzyme of approximately 98 amino acid residues that specifically catalyses the hydrolysis of the carboxyl-phosphate bond of acylphosphates [], its substrates including 1,3-diphosphoglycerate and carbamyl phosphate []. The enzyme has a mainly beta-sheet structure with 2 short alpha-helical segments. It is distributed in a tissue-specific manner in a wide variety of species, although its physiological role is as yet unknown []: it may, however, play a part in the regulation of the glycolytic pathway and pyrimidine biosynthesis []. There are two known isozymes. One seems to be specific to muscular tissues, the other, called 'organ-common type', is found in many different tissues. While bacterial and archebacterial hypothetical proteins that are highly similar to that enzyme and that probably possess the same activity. These proteins include: Escherichia coli putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (gene yccX). Bacillus subtilis putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (gene yflL). Archaeoglobus fulgidus putative acylphosphatase (3.6.1.7 from EC) (acylphosphate phosphohydrolase) (O29440 from SWISSPROT). An acylphosphatase-like domain is also found in some prokaryotic hydrogenase maturation HypF carbamoyltransferases [, ].; PDB: 1APS_A 1GXT_A 1GXU_A 2HLT_A 2FHM_A 2HLU_A 3BR8_A 1ULR_A 3TRG_A 2BJD_A ....
Probab=36.05 E-value=91 Score=22.08 Aligned_cols=54 Identities=24% Similarity=0.377 Sum_probs=33.0
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEe
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i 156 (169)
||++.+. -...||.|-|. ..+||.|.+.++|. +..+. ..-++|++.-|. ..|.-
T Consensus 20 R~~v~~~-A~~~gl~G~V~--N~~dg~V~i~~~G~----~~~l~-~f~~~l~~g~p~-a~V~~ 73 (91)
T PF00708_consen 20 RPFVKRI-ARKLGLTGWVR--NLPDGSVEIEAEGE----EEQLE-EFIKWLKKGPPP-ARVDE 73 (91)
T ss_dssp HHHHHHH-HHHTT-EEEEE--E-TTSEEEEEEEEE----HHHHH-HHHHHHHHSSTT-SEEEE
T ss_pred hHHHHHH-HHHhCCceEEE--ECCCCEEEEEEEeC----HHHHH-HHHHHHHhCCCC-cEEEE
Confidence 5555443 23457788744 35789999999997 34444 555778887775 44443
No 70
>PRK14430 acylphosphatase; Provisional
Probab=35.56 E-value=1.3e+02 Score=22.02 Aligned_cols=51 Identities=14% Similarity=0.153 Sum_probs=32.2
Q ss_pred cCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 105 VGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 105 vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
.||.|-| -.++||.|.+-++|. +..+. ...++|++ -|....|+-.+.++.+
T Consensus 30 lgl~G~V--rN~~dGsVei~~qG~----~~~i~-~f~~~l~~-gp~~a~V~~v~~~~~~ 80 (92)
T PRK14430 30 LGLGGWV--RNRADGTVEVMASGT----VRQLE-ALRAWMEA-GPPAAQVTKVEVGPGA 80 (92)
T ss_pred hCCEEEE--EECCCCcEEEEEEcC----HHHHH-HHHHHHHh-CCCceEEEEEEEEEcC
Confidence 5777766 355789999999996 34454 34566644 6655555544444443
No 71
>PF10865 DUF2703: Domain of unknown function (DUF2703); InterPro: IPR021219 This family of protein has no known function.
Probab=34.45 E-value=68 Score=25.24 Aligned_cols=22 Identities=23% Similarity=0.276 Sum_probs=20.1
Q ss_pred ccccHHHHHHHHHHHHHHHhhc
Q 030939 79 LDLTEDNVRQVIADARGELAQL 100 (169)
Q Consensus 79 l~LteE~Ve~VLeeiRP~L~~D 100 (169)
-.-|.+++++++++++|.|+..
T Consensus 18 C~~Tg~~L~~av~~l~~~L~~~ 39 (120)
T PF10865_consen 18 CGDTGETLREAVKELAPVLAPL 39 (120)
T ss_pred hhhHHHHHHHHHHHHHHHHHhC
Confidence 3468999999999999999999
No 72
>PRK00453 rpsF 30S ribosomal protein S6; Reviewed
Probab=34.44 E-value=74 Score=23.44 Aligned_cols=61 Identities=20% Similarity=0.401 Sum_probs=40.9
Q ss_pred cccHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEec--------------CCeEEEEEeecCCCchhhHHHHHHHHHH
Q 030939 80 DLTEDNVRQVIADARGELAQLFDTSVGITGVAELAELD--------------GPFVKIRLRGRFWHKRSTVIARLANYLK 145 (169)
Q Consensus 80 ~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvd--------------gg~VkVrL~GaC~~Cp~Tlk~gIE~~Lk 145 (169)
++++++++++++++...|... ||.|.-++-- |-.+.+.+.+. |..+ .-+++.++
T Consensus 13 ~~~~~~~~~~~~~~~~~i~~~-------gg~i~~~~~~G~r~LAY~I~k~~~G~Y~~~~f~~~----~~~i-~el~~~l~ 80 (108)
T PRK00453 13 DLSEEQVKALVERFKGVITEN-------GGTIHKVEDWGRRRLAYPINKLRKGHYVLLNFEAP----PAAI-AELERLFR 80 (108)
T ss_pred CCCHHHHHHHHHHHHHHHHHC-------CCEEEEEecccccccceEcCCCcEEEEEEEEEEeC----HHHH-HHHHHHhC
Confidence 578999999999999999999 9988766531 23355555554 3334 35666665
Q ss_pred HhCCCceE
Q 030939 146 QRIPEILE 153 (169)
Q Consensus 146 e~IPEI~~ 153 (169)
-. +.|..
T Consensus 81 ~~-~~VlR 87 (108)
T PRK00453 81 IN-EDVLR 87 (108)
T ss_pred CC-CCeEE
Confidence 42 44443
No 73
>PRK13581 D-3-phosphoglycerate dehydrogenase; Provisional
Probab=34.15 E-value=26 Score=32.75 Aligned_cols=25 Identities=32% Similarity=0.514 Sum_probs=19.4
Q ss_pred ccCcCCcccEEEEEecCCeEEEEEee
Q 030939 102 DTSVGITGVAELAELDGPFVKIRLRG 127 (169)
Q Consensus 102 ~~~vGiGGDVELVdvdgg~VkVrL~G 127 (169)
|+|+| ||.+++++|+|-.|.+...|
T Consensus 428 G~s~g-gg~~~I~~ing~~v~~~~~~ 452 (526)
T PRK13581 428 GTVFG-DGEPRIVEIDGYRVDAKPEG 452 (526)
T ss_pred EEEec-CCceEEEEECCEEEEeeCCc
Confidence 57888 89999999998666655544
No 74
>PRK14421 acylphosphatase; Provisional
Probab=33.74 E-value=1.2e+02 Score=22.78 Aligned_cols=61 Identities=18% Similarity=0.239 Sum_probs=38.5
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.... -...|+.|-| -..++|.|.|.++|. +..+...+ .+|+ +-|....|+-.+.++++
T Consensus 20 R~fv~~~-A~~lgL~G~V--~N~~dG~Vei~~~G~----~~~i~~f~-~~l~-~gP~~a~V~~v~~~~~~ 80 (99)
T PRK14421 20 RAWVART-AEALGLEGWV--RNRRDGSVEALFAGP----ADAVAEMI-ARCR-RGPSAARVDAVEDEPAA 80 (99)
T ss_pred hHHHHHH-HHHhCCEEEE--EECCCCEEEEEEeCC----HHHHHHHH-HHHH-hCCCCcEEEEEEEEEcC
Confidence 5555544 2346788877 456789999999996 44455433 5666 56776666655544443
No 75
>PF04455 Saccharop_dh_N: LOR/SDH bifunctional enzyme conserved region ; InterPro: IPR007545 Lysine-oxoglutarate reductase/Saccharopine dehydrogenase (LOR/SDH) is a bifunctional enzyme. This conserved region is commonly found immediately N-terminal to saccharopine dehydrogenase conserved region (IPR005097 from INTERPRO) in eukaryotes [, ].; PDB: 3C2Q_B 3MGJ_A.
Probab=33.57 E-value=2.2e+02 Score=21.87 Aligned_cols=69 Identities=16% Similarity=0.308 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHhhccccCcCCcccEEEEEec-C------CeEEEEEeecCCCchhhHHHHHHHHHH---HhCCCceEEE
Q 030939 86 VRQVIADARGELAQLFDTSVGITGVAELAELD-G------PFVKIRLRGRFWHKRSTVIARLANYLK---QRIPEILEVD 155 (169)
Q Consensus 86 Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvd-g------g~VkVrL~GaC~~Cp~Tlk~gIE~~Lk---e~IPEI~~V~ 155 (169)
+.+|||.| ... ||+-++.+++ | ....+++.|. =+.+|.. |-..|. ...++..++.
T Consensus 18 l~~vLD~I----~d~-------GG~F~i~~~~vG~~~~d~S~a~l~V~a~---d~~~L~~-Il~~L~~lga~~~~~~d~~ 82 (103)
T PF04455_consen 18 LNRVLDII----MDM-------GGDFEILEFDVGKSKDDTSYARLQVSAP---DEEHLDE-ILDELHQLGAVPVEPQDAE 82 (103)
T ss_dssp HHHHHHHH----HHT-------T-EEEEEEEE--SSTTS-EEEEEEEEES---SHHHHHH-HHHHHHHHHHHSCCCCEEE
T ss_pred HHHHHHHH----Hhc-------CCCEEEEEEEeCCCCCCceeEEEEEecC---CHHHHHH-HHHHHHHHcCCCCCCcccE
Confidence 45666654 355 9999999984 2 2356666554 1233332 223332 3478899999
Q ss_pred ecCCcccCCCCCCC
Q 030939 156 IEDEKQLDDSPENF 169 (169)
Q Consensus 156 i~d~~ql~d~~~~~ 169 (169)
++.-++=-..|+||
T Consensus 83 l~~a~~d~V~P~~F 96 (103)
T PF04455_consen 83 LEPAPKDGVFPDDF 96 (103)
T ss_dssp ECESSCTTB--TTB
T ss_pred EEEcCCCCcCCCCc
Confidence 99888888889988
No 76
>KOG1664 consensus Vacuolar H+-ATPase V1 sector, subunit E [Energy production and conversion]
Probab=33.36 E-value=74 Score=27.90 Aligned_cols=65 Identities=22% Similarity=0.224 Sum_probs=41.2
Q ss_pred ccHHHHHHHHHHHHHHHhhccccCcCCcccEEEE---------EecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCc
Q 030939 81 LTEDNVRQVIADARGELAQLFDTSVGITGVAELA---------ELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEI 151 (169)
Q Consensus 81 LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELV---------dvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI 151 (169)
-..+-|+.+++++-+.++.- + |-.+|++ ++.||+|....-|. .-|.-||.++++-.-++.+|||
T Consensus 137 ~D~~lVe~~~~~a~~~y~~k--a----~~~~e~~id~~~fL~~~~~GGVvl~s~dgk-I~v~NTLesRLeli~~q~lPeI 209 (220)
T KOG1664|consen 137 KDLKLVEAALPKAIEEYKEK--A----GVGVEVQIDKKDFLPPDVAGGVVLYSRDGK-IKVSNTLESRLELIAEQKLPEI 209 (220)
T ss_pred hhhHHHHHHHHHHHHHHHHH--h----cCCceeeechhccCCccccCCeEEEcCCCc-eEecCcHHHHHHHHHHHhhHHH
Confidence 34566888888764444443 0 1123332 22345555555554 4567899999999999999998
Q ss_pred e
Q 030939 152 L 152 (169)
Q Consensus 152 ~ 152 (169)
.
T Consensus 210 R 210 (220)
T KOG1664|consen 210 R 210 (220)
T ss_pred H
Confidence 5
No 77
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=33.31 E-value=64 Score=21.87 Aligned_cols=40 Identities=10% Similarity=0.218 Sum_probs=22.4
Q ss_pred ccccHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhh
Q 030939 79 LDLTEDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRST 135 (169)
Q Consensus 79 l~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~T 135 (169)
+.++.+.|+..|+. |.+ -|.|+-++....- .|.|.+|+..
T Consensus 24 ~~~s~~~ve~mL~~----l~~--------kG~I~~~~~~~~~-----~~~C~~C~~~ 63 (69)
T PF09012_consen 24 FGISPEAVEAMLEQ----LIR--------KGYIRKVDMSSCC-----GGSCSSCGPA 63 (69)
T ss_dssp TT--HHHHHHHHHH----HHC--------CTSCEEEEEE--S-----SSSSSS-SS-
T ss_pred HCcCHHHHHHHHHH----HHH--------CCcEEEecCCCCC-----CCCCCCCCCc
Confidence 44566666666664 222 4778777775433 8899999843
No 78
>PF09650 PHA_gran_rgn: Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); InterPro: IPR013433 Proteins in this entry are encoded by genes involved in either polyhydroxyalkanoic acid (PHA) biosynthesis or utilisation, including proteins at found at the surface of PHA granules. These proteins have so far been predominantly found in the Pseudomonadales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=33.14 E-value=1.9e+02 Score=21.06 Aligned_cols=66 Identities=15% Similarity=0.371 Sum_probs=40.2
Q ss_pred CccccHHHHHHHHHHHHHHHhhccc------------cCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHH
Q 030939 78 PLDLTEDNVRQVIADARGELAQLFD------------TSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLK 145 (169)
Q Consensus 78 ~l~LteE~Ve~VLeeiRP~L~~Df~------------~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lk 145 (169)
+..|..++..+.+++.-..|++.|| +.-|+.|. ++|+++.|.|.++=..-- ..++..|++.|+
T Consensus 6 ~H~Lg~~eAr~~~~~~~~~l~~~~~~~~~W~gd~l~f~~~gv~G~---l~V~~d~v~l~v~Lg~Ll--~~f~~~Ie~~I~ 80 (87)
T PF09650_consen 6 PHSLGREEARRRAEELAEKLAEEYGVECTWEGDRLSFSGQGVDGT---LDVADDHVRLEVKLGFLL--SPFKGKIEQEIE 80 (87)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHhCCEEEEEcCEEEEEeCCceEE---EEEcCCEEEEEEEcHHHH--HHHHHHHHHHHH
Confidence 4567888888888887777777775 11244554 456667766665543221 445556666666
Q ss_pred HhC
Q 030939 146 QRI 148 (169)
Q Consensus 146 e~I 148 (169)
+.+
T Consensus 81 ~~L 83 (87)
T PF09650_consen 81 KNL 83 (87)
T ss_pred HHH
Confidence 554
No 79
>PF01250 Ribosomal_S6: Ribosomal protein S6; InterPro: IPR000529 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S6 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S6 is known to bind together with S18 to 16S ribosomal RNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities, groups bacterial, red algal chloroplast and cyanelle S6 ribosomal proteins.; GO: 0003735 structural constituent of ribosome, 0019843 rRNA binding, 0006412 translation, 0005840 ribosome; PDB: 3BBN_F 3R3T_B 3F1E_F 2QNH_g 2OW8_g 3PYQ_F 3PYS_F 3PYU_F 3MR8_F 3PYN_F ....
Probab=33.10 E-value=91 Score=22.02 Aligned_cols=54 Identities=20% Similarity=0.421 Sum_probs=39.0
Q ss_pred cccHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEe--------------cCCeEEEEEeecCCCchhhHHHHHHHHHH
Q 030939 80 DLTEDNVRQVIADARGELAQLFDTSVGITGVAELAEL--------------DGPFVKIRLRGRFWHKRSTVIARLANYLK 145 (169)
Q Consensus 80 ~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdv--------------dgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lk 145 (169)
++++++++++++.+.-.|... ||.|.-++- +|..+.+.+.+. .....-+++.++
T Consensus 12 ~~~~~~~~~~~~~~~~~i~~~-------gg~v~~~~~~G~r~LaY~i~k~~~G~Y~~~~f~~~-----~~~i~el~~~l~ 79 (92)
T PF01250_consen 12 DLSEEEIKKLIERVKKIIEKN-------GGVVRSVENWGKRRLAYPIKKQKEGHYFLFNFDAS-----PSAIKELERKLR 79 (92)
T ss_dssp TSCHHHHHHHHHHHHHHHHHT-------TEEEEEEEEEEEEEESSEETTECEEEEEEEEEEES-----TTHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHC-------CCEEEEEEEEeecccccCCCCCCEEEEEEEEEEeC-----HHHHHHHHHHhc
Confidence 568899999999999999999 999877654 123455555554 333446777776
No 80
>COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]
Probab=31.97 E-value=69 Score=26.46 Aligned_cols=52 Identities=37% Similarity=0.446 Sum_probs=31.8
Q ss_pred cCcCCcccEEEEEecC-CeEEEEEeec-------CCCch---hhHHHHHHHHHHHhC-CCceEE
Q 030939 103 TSVGITGVAELAELDG-PFVKIRLRGR-------FWHKR---STVIARLANYLKQRI-PEILEV 154 (169)
Q Consensus 103 ~~vGiGGDVELVdvdg-g~VkVrL~Ga-------C~~Cp---~Tlk~gIE~~Lke~I-PEI~~V 154 (169)
.++=+||+.+|++-+| ++..-.|+|. +.+|| -+....+.+.+++-- ++-.+|
T Consensus 42 ~~~~~~g~f~l~d~~G~~~~~~~l~Gk~~lv~FgyT~CpdVCP~~l~~l~~~~~~l~~~~~~~v 105 (207)
T COG1999 42 AAVYIGGDFELTDQDGKPFTLKDLKGKPSLVFFGYTHCPDVCPTTLAELKALLKKLGEGEGDDV 105 (207)
T ss_pred cccccCCceeeecCCCCEeeccccCCCEEEEEeecCCCCccChHHHHHHHHHHHHhccccCCCE
Confidence 3455677999988876 4555566664 56777 333335666666655 554444
No 81
>PF15092 UPF0728: Uncharacterised protein family UPF0728
Probab=31.63 E-value=1e+02 Score=23.68 Aligned_cols=33 Identities=15% Similarity=0.216 Sum_probs=27.3
Q ss_pred HHHHHHHHHhhccccCcCCcccEEEEEecC-CeEEEEEeec
Q 030939 89 VIADARGELAQLFDTSVGITGVAELAELDG-PFVKIRLRGR 128 (169)
Q Consensus 89 VLeeiRP~L~~Df~~~vGiGGDVELVdvdg-g~VkVrL~Ga 128 (169)
-|+-++-.|+.| |=.|+|..+++ +.|.+-+.|.
T Consensus 26 RL~GLqa~L~~d-------Gh~v~L~~~~d~n~vel~vnge 59 (88)
T PF15092_consen 26 RLEGLQAVLAKD-------GHEVILEKIEDWNVVELVVNGE 59 (88)
T ss_pred HHHHHHHHHHhC-------CcEEEEEEeccccEEEEEECCe
Confidence 356678889999 99999999977 8888877764
No 82
>cd01997 GMP_synthase_C The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched between helical layers. It has a signature nucleotide-binding motif, or P-loop, at the end of the first-beta strand.The dimerization domain formed by the C-terminal 115 amino acid for prokaryotic proteins. It is adjacent to teh ATP-binding site of the ATP-PPase subdomain. The largest difference between the primary sequence of prokaryotic and eukaryotic GMP synthetase map to the dimerization domain.Eukaryotic GMP synthetase has several large insertions relative to prokaryotes.
Probab=31.42 E-value=77 Score=27.86 Aligned_cols=74 Identities=20% Similarity=0.328 Sum_probs=52.3
Q ss_pred cccHHHHHHHH--HHH-HHHHhhc---------c-----ccCcCCcccEEEEEecCCeEEEE-------EeecCCCchhh
Q 030939 80 DLTEDNVRQVI--ADA-RGELAQL---------F-----DTSVGITGVAELAELDGPFVKIR-------LRGRFWHKRST 135 (169)
Q Consensus 80 ~LteE~Ve~VL--eei-RP~L~~D---------f-----~~~vGiGGDVELVdvdgg~VkVr-------L~GaC~~Cp~T 135 (169)
++|+|+++.+= |++ +-+|... | -.|||.-||-.--+ ..+.+| +++....=|.-
T Consensus 186 ~it~e~l~~~~~ae~~~~~~~~~~~~~~~~~q~~~~~~~~~~vgv~gd~r~y~---~~~~~r~~~~~d~mt~~~~~~~~~ 262 (295)
T cd01997 186 EVTEEKLEILREADAIVEEELEKAGLYDKIWQAFAVLLPIKSVGVMGDQRTYG---YVVALRAVESSDFMTADWARLPYE 262 (295)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHhcCcccccceeeEEeeCcccccccCCccccc---cEEEEEEEccCCcccCCCccCCHH
Confidence 57777765542 222 5555542 2 16899999876543 467777 67776666678
Q ss_pred HHHHHHHHHHHhCCCceEEEe
Q 030939 136 VIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 136 lk~gIE~~Lke~IPEI~~V~i 156 (169)
+...|.+.|-.++|+|..|.-
T Consensus 263 ~l~~~~~~i~~~~~~~~~v~~ 283 (295)
T cd01997 263 VLEKISNRITNEVPGVNRVVY 283 (295)
T ss_pred HHHHHHHHhhccCCCeeeeec
Confidence 888999999999999999974
No 83
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=30.78 E-value=48 Score=22.06 Aligned_cols=32 Identities=22% Similarity=0.319 Sum_probs=22.7
Q ss_pred CchhhHHHHHHHHHHH-hCCCceEEEecCCcccC
Q 030939 131 HKRSTVIARLANYLKQ-RIPEILEVDIEDEKQLD 163 (169)
Q Consensus 131 ~Cp~Tlk~gIE~~Lke-~IPEI~~V~i~d~~ql~ 163 (169)
.||+++. .+.++|++ ...++.+|...|+...+
T Consensus 9 ~CP~Pll-~~~~~l~~l~~G~~l~v~~d~~~~~~ 41 (70)
T PF01206_consen 9 SCPMPLL-KAKKALKELPPGEVLEVLVDDPAAVE 41 (70)
T ss_dssp STTHHHH-HHHHHHHTSGTT-EEEEEESSTTHHH
T ss_pred CCCHHHH-HHHHHHHhcCCCCEEEEEECCccHHH
Confidence 6998876 46677777 45678889888876543
No 84
>PF05258 DUF721: Protein of unknown function (DUF721); InterPro: IPR007922 This family contains several actinomycete proteins of unknown function, and related sequences from other species.
Probab=30.75 E-value=1.7e+02 Score=19.57 Aligned_cols=48 Identities=10% Similarity=0.252 Sum_probs=32.5
Q ss_pred cccEEEEEecCCeEEEEEeecCCCch-hhHHHHHHHHHHHhC--CCceEEE
Q 030939 108 TGVAELAELDGPFVKIRLRGRFWHKR-STVIARLANYLKQRI--PEILEVD 155 (169)
Q Consensus 108 GGDVELVdvdgg~VkVrL~GaC~~Cp-~Tlk~gIE~~Lke~I--PEI~~V~ 155 (169)
.+....+++++|++.|...-+=|--. .-++..|-..|++.. +.|.++.
T Consensus 38 ~~~~~~~~i~~g~L~i~v~~~~~~~~L~~~~~~il~~l~~~~g~~~i~~I~ 88 (89)
T PF05258_consen 38 AQHTRPVSIKDGTLVIEVDSSAWAQELRYMKPQILKKLNEFLGFPAIKDIR 88 (89)
T ss_pred HccEEEEEEECCEEEEEECCHHHHHHHHHHHHHHHHHHHHHcCCCCccEee
Confidence 46699999999999998776644433 344555666777777 4455554
No 85
>PRK06925 flagellar motor protein MotS; Reviewed
Probab=30.69 E-value=3.2e+02 Score=22.78 Aligned_cols=65 Identities=12% Similarity=0.237 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCC--ch-------hhHHHHHHHHHHHhCCCceEE
Q 030939 84 DNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWH--KR-------STVIARLANYLKQRIPEILEV 154 (169)
Q Consensus 84 E~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~--Cp-------~Tlk~gIE~~Lke~IPEI~~V 154 (169)
+++++..++++-+|+.. ++.++|++...++| +.|+|.+.--. -. ..+...|...|++ .|+.+.|
T Consensus 81 ~~~~~l~~~l~~~l~~~-----~~~~~v~v~~~~~g-~~i~l~~~v~F~~gsa~L~~~~~~~L~~ia~~l~~-~~~~I~I 153 (230)
T PRK06925 81 DQLDELLKKVNEYIEEN-----ELKSVITAKRDERG-VVLVLQEAVLFETGEADILKQAEPFLHKIGVLLST-IPNDIKV 153 (230)
T ss_pred HHHHHHHHHHHHHHHhh-----cccCceEEEEeCCE-EEEEeCCCcccCCCccccCHhHHHHHHHHHHHHHh-CCCeEEE
Confidence 34555666778888877 66788887765544 67778664222 22 3344567677765 5774444
Q ss_pred E
Q 030939 155 D 155 (169)
Q Consensus 155 ~ 155 (169)
+
T Consensus 154 ~ 154 (230)
T PRK06925 154 E 154 (230)
T ss_pred E
Confidence 3
No 86
>PRK14437 acylphosphatase; Provisional
Probab=30.69 E-value=1.8e+02 Score=22.21 Aligned_cols=61 Identities=18% Similarity=0.235 Sum_probs=40.2
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.... -...||.|-| -..+||.|.|-++|. +..+.. ..++|+ .-|....|+-.+.++++
T Consensus 39 R~fv~~~-A~~lgL~G~V--~N~~dG~Vei~~qG~----~~~ie~-f~~~L~-~gP~~a~V~~i~~~~~~ 99 (109)
T PRK14437 39 RESVRKK-AEELQLTGWV--KNLSHGDVELVACGE----RDSIMI-LTEWLW-EGPPQAAVSNVNWEEIV 99 (109)
T ss_pred hHHHHHH-HHHhCCeEEE--EECCCCCEEEEEEEC----HHHHHH-HHHHHH-hCCCceEEEEEEEEEcC
Confidence 6665544 3346778866 466789999999996 445554 557777 57877776665555444
No 87
>PRK14431 acylphosphatase; Provisional
Probab=30.30 E-value=2.2e+02 Score=20.78 Aligned_cols=60 Identities=17% Similarity=0.185 Sum_probs=35.9
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCccc
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQL 162 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql 162 (169)
||+..+. -...||.|-|. ..+|+ |.+-++|. +..+. ...++|++.-|.-..|+-.+.+++
T Consensus 18 R~~~~~~-A~~~gl~G~V~--N~~dg-Vei~~qG~----~~~l~-~f~~~l~~g~p~~a~V~~v~~~~~ 77 (89)
T PRK14431 18 RYFTQRI-AMNYNIVGTVQ--NVDDY-VEIYAQGD----DADLE-RFIQGVIEGASPASNVTSYQLEEL 77 (89)
T ss_pred hHHHHHH-HhhcCCEEEEE--ECCCc-EEEEEEcC----HHHHH-HHHHHHhcCCCCcEEEEEEEEEEe
Confidence 4544433 22367888773 34565 99999996 34444 555788887755555554444433
No 88
>PRK14439 acylphosphatase; Provisional
Probab=29.66 E-value=1.4e+02 Score=25.02 Aligned_cols=59 Identities=25% Similarity=0.279 Sum_probs=37.5
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCc
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEK 160 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ 160 (169)
||+.+.. -...||.|-| -..+||.|.|-++|. +..+. ...+.|++.-|....|+-.+.+
T Consensus 91 R~fv~~~-A~qlGLtGwV--rNl~DGsVEI~aQG~----ee~Ie-~Fi~~L~~~gPp~A~Ve~I~v~ 149 (163)
T PRK14439 91 RYTTQYE-AKKLGLTGYA--KNLDDGSVEVVACGE----EGQVE-KLMQWLKSGGPRSARVERVLSE 149 (163)
T ss_pred hHHHHHH-HHHhCCEEEE--EECCCCCEEEEEEcC----HHHHH-HHHHHHhhCCCCCeEEEEEEEE
Confidence 6665544 3457888876 355789999999996 34444 4446677766765555544433
No 89
>PRK14452 acylphosphatase; Provisional
Probab=29.46 E-value=1.6e+02 Score=22.53 Aligned_cols=61 Identities=18% Similarity=0.226 Sum_probs=38.2
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCcccC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQLD 163 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql~ 163 (169)
||+.... -...|+.|-| -..+||.|.|.++|. +..+... .+++++ -|....|+-.+.++++
T Consensus 36 R~~v~~~-A~~lgL~G~V--~N~~dGsVeI~~qG~----~~~ve~F-~~~l~~-gP~~A~V~~v~~~~~~ 96 (107)
T PRK14452 36 RASCCRR-ALDLGLSGWV--RNLSDGSVEVQAEGP----PLALSEL-RAWCER-GPPGARVKRVDPSQLP 96 (107)
T ss_pred hHHHHHH-HHHhCCEEEE--EECCCCCEEEEEEcC----HHHHHHH-HHHHhc-CCCCcEEEEEEEEEeC
Confidence 6655544 3446788876 356789999999997 3444433 455544 5666666655555544
No 90
>PRK14449 acylphosphatase; Provisional
Probab=29.24 E-value=2e+02 Score=20.77 Aligned_cols=60 Identities=28% Similarity=0.321 Sum_probs=35.1
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecCCccc
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIEDEKQL 162 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ql 162 (169)
||+..+. -...||.|-| -..+||.|.|.++|. ...+. ...++|++. |....|+-.+.++.
T Consensus 19 R~fv~~~-A~~lgl~G~V--~N~~dG~Vei~~~G~----~~~v~-~f~~~l~~~-~~~a~V~~i~~~~~ 78 (90)
T PRK14449 19 RYSVYQK-AVSLGITGYA--ENLYDGSVEVVAEGD----EENIK-ELINFIKTG-LRWARVDNVEERWS 78 (90)
T ss_pred HHHHHHH-HHHcCCEEEE--EECCCCeEEEEEEeC----HHHHH-HHHHHHhhC-CCceEEEEEEEEEe
Confidence 5655543 2345778875 456789999999997 33444 344666665 33444444333333
No 91
>COG4551 Predicted protein tyrosine phosphatase [General function prediction only]
Probab=29.10 E-value=95 Score=24.56 Aligned_cols=56 Identities=16% Similarity=0.191 Sum_probs=40.0
Q ss_pred chhhcccCCCCCCCccccHHHHH-----HHHHHH-HHHHhhccccCcCCcccEEEEEecCCeE
Q 030939 65 YLTRTAAGGVPPPPLDLTEDNVR-----QVIADA-RGELAQLFDTSVGITGVAELAELDGPFV 121 (169)
Q Consensus 65 ~~~~~~~~~~~~~~l~LteE~Ve-----~VLeei-RP~L~~Df~~~vGiGGDVELVdvdgg~V 121 (169)
.+-++.++.+......||.|+++ -|.|.. |..|++.|+.+.- |-.|--.||-|+.-
T Consensus 27 ~vetdSAGl~~dAe~Plt~e~leWAdiIfVMEr~HrqkL~krf~~~lk-~kRviCLDIPDdy~ 88 (109)
T COG4551 27 GVETDSAGLAHDAETPLTREQLEWADIIFVMERVHRQKLQKRFKASLK-GKRVICLDIPDDYE 88 (109)
T ss_pred CCcccccccccccCCCccHHHhhhhhhhhhHHHHHHHHHHHHhhHHhc-CCeEEEEeCCchHh
Confidence 45556777777777777887765 466776 9999999998887 66666667755443
No 92
>PRK04217 hypothetical protein; Provisional
Probab=29.01 E-value=28 Score=26.86 Aligned_cols=22 Identities=18% Similarity=0.043 Sum_probs=18.5
Q ss_pred cCccccchhcccccccCCCcce
Q 030939 36 AFNKQTTHCRQKKLSRRKPILL 57 (169)
Q Consensus 36 ~f~~~~~~~~~~~~~~~~p~~~ 57 (169)
||.||+.||+++-.|--+|...
T Consensus 19 ~~~~~~~~~~~~~~~~~~~~p~ 40 (110)
T PRK04217 19 GFIPQVRHFYPAIPPVGPPKPP 40 (110)
T ss_pred eccCCcceEeCCCCCccCCCCc
Confidence 7999999999998877776654
No 93
>cd03026 AhpF_NTD_C TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then reduces hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD containing two contiguous TRX-fold subdomains similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The catalytic CXXC motif of the NTD of AhpF is contained in its C-terminal TRX subdomain.
Probab=28.99 E-value=1.6e+02 Score=21.00 Aligned_cols=29 Identities=17% Similarity=0.077 Sum_probs=18.2
Q ss_pred EEEEeecCCCchhhHHHHHHHHHHHhCCCce
Q 030939 122 KIRLRGRFWHKRSTVIARLANYLKQRIPEIL 152 (169)
Q Consensus 122 kVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~ 152 (169)
.+=....|..||.+.. .+ +.|.+..|.|.
T Consensus 17 ~~F~~~~C~~C~~~~~-~~-~~l~~~~~~i~ 45 (89)
T cd03026 17 ETYVSLSCHNCPDVVQ-AL-NLMAVLNPNIE 45 (89)
T ss_pred EEEECCCCCCcHHHHH-HH-HHHHHHCCCce
Confidence 3334467999997765 33 55556678654
No 94
>PF11684 DUF3280: Protein of unknown function (DUF2380); InterPro: IPR021698 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=28.94 E-value=60 Score=25.97 Aligned_cols=46 Identities=11% Similarity=0.115 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHhhccccCcCCcccEEEEEec---CCeEEEEEeecCCCchhhHH
Q 030939 84 DNVRQVIADARGELAQLFDTSVGITGVAELAELD---GPFVKIRLRGRFWHKRSTVI 137 (169)
Q Consensus 84 E~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvd---gg~VkVrL~GaC~~Cp~Tlk 137 (169)
..+..+=+.+|-.|.+. |..++|+++ ...-...-...|.+|-..+-
T Consensus 28 ~RL~~~~~~lr~~L~~~--------G~y~vVd~~~~~a~i~~~~~l~~C~gC~~~~A 76 (140)
T PF11684_consen 28 ARLAALTDQLREALAES--------GRYRVVDLAPVAAEIAAAQNLRKCNGCEARIA 76 (140)
T ss_pred HHHHHHHHHHHHHHHhc--------CCeEEecCchhHHHhhccCCcccCCCHHHHHH
Confidence 34444445678888877 889999996 34455677899999985443
No 95
>PRK13613 lipoprotein LpqB; Provisional
Probab=28.80 E-value=1.4e+02 Score=28.95 Aligned_cols=78 Identities=18% Similarity=0.194 Sum_probs=49.7
Q ss_pred cHHHHHHHHHH----HHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCch----hhHHHHHHHHHHHhCCCceE
Q 030939 82 TEDNVRQVIAD----ARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKR----STVIARLANYLKQRIPEILE 153 (169)
Q Consensus 82 teE~Ve~VLee----iRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp----~Tlk~gIE~~Lke~IPEI~~ 153 (169)
-.+.|+..|+- ++|.....|+.....-+ |.++||.+.|-|.+....=. ..|.+.|...|.+ +|++..
T Consensus 213 ~t~lv~~LL~GP~~~L~~av~s~~P~gt~L~~----v~~~dg~a~Vdls~~~~~~~~~~~~~~~aQlv~TL~~-~~~v~~ 287 (599)
T PRK13613 213 ATQLVRALLAGPTTWLAPVVRSSFPTGTALRK----VPDDQNVLTVPLNHKADRAGPARCFGMAAQLLWTLQD-LPEIQV 287 (599)
T ss_pred HHHHHHHHHhCCchhhcccccccCCCCCEecc----eEecCCeEEEECCcccccCCHHHHHHHHHHHHHHHhc-CCCCce
Confidence 34456666653 45555555764444333 67789999999999664222 3355667666665 888888
Q ss_pred EEe-cCCcccCC
Q 030939 154 VDI-EDEKQLDD 164 (169)
Q Consensus 154 V~i-~d~~ql~d 164 (169)
|.+ +|.+.|++
T Consensus 288 v~l~vdG~pl~~ 299 (599)
T PRK13613 288 FTLRIDGEEVEL 299 (599)
T ss_pred EEEEECCEEeec
Confidence 876 67776654
No 96
>COG1514 LigT 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]
Probab=28.66 E-value=1e+02 Score=25.26 Aligned_cols=43 Identities=12% Similarity=0.227 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCch
Q 030939 83 EDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKR 133 (169)
Q Consensus 83 eE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp 133 (169)
.+.+.+.|..+|-.+... + ++..|+.++.-++++..|.+..-+
T Consensus 10 p~~i~~~i~~~~~~~~~~-------~-~~k~v~~en~HiTL~flGev~e~~ 52 (180)
T COG1514 10 PAEIAERLARIRARLKGA-------R-AIKWVEPENLHITLKFLGEVDEDK 52 (180)
T ss_pred CHHHHHHHHHHHHhcCcc-------c-ccccccccCceEEEEccCCcCchH
Confidence 467888889999999988 7 999999999999999999988765
No 97
>PF03646 FlaG: FlaG protein; InterPro: IPR005186 Although these proteins are known to be important for flagellar their exact function is unknown.; PDB: 2HC5_A.
Probab=28.63 E-value=2.3e+02 Score=20.58 Aligned_cols=44 Identities=7% Similarity=0.138 Sum_probs=29.5
Q ss_pred ccccHHHHHHHHHHHHHHHhhccccCcCCcccEEE-EEecCCeEEEEEeecC
Q 030939 79 LDLTEDNVRQVIADARGELAQLFDTSVGITGVAEL-AELDGPFVKIRLRGRF 129 (169)
Q Consensus 79 l~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVEL-Vdvdgg~VkVrL~GaC 129 (169)
.+.+.++++++++++.-+++.- +-.++| ++=+.|.++|++.-.=
T Consensus 32 ~~~~~e~l~~~v~~ln~~~~~~-------~~~l~F~vde~~~~~vVkViD~~ 76 (107)
T PF03646_consen 32 KEPSKEELEEAVEKLNEFLQAL-------NTSLRFSVDEESGRVVVKVIDKE 76 (107)
T ss_dssp ----HHHHHHHHHHHHHHHTTS-------S--EEEEEEEETTEEEEEEEETT
T ss_pred ccCCHHHHHHHHHHHHHHHHhc-------CCceEEEEecCCCcEEEEEEECC
Confidence 5678999999999999999997 667777 3334577777776553
No 98
>PF04404 ERF: ERF superfamily; InterPro: IPR007499 The DNA single-strand annealing proteins (SSAPs), such as RecT, Red-beta, ERF and Rad52, function in RecA-dependent and RecA-independent DNA recombination pathways. This family includes proteins related to ERF [].
Probab=28.02 E-value=1.4e+02 Score=23.10 Aligned_cols=20 Identities=5% Similarity=0.195 Sum_probs=16.9
Q ss_pred ccHHHHHHHHHHHHHHHhhc
Q 030939 81 LTEDNVRQVIADARGELAQL 100 (169)
Q Consensus 81 LteE~Ve~VLeeiRP~L~~D 100 (169)
-..-.++++++.+||.|..+
T Consensus 26 y~Y~~l~dI~~av~p~l~k~ 45 (160)
T PF04404_consen 26 YKYASLDDILDAVKPALSKH 45 (160)
T ss_pred cccccHHHHHHHHHHHHHHc
Confidence 35667889999999999988
No 99
>PF10262 Rdx: Rdx family; InterPro: IPR011893 This entry represents the Rdx family of selenoproteins, which includes mammalian selenoproteins SelW, SelV, SelT and SelH, bacterial SelW-like proteins and cysteine-containing proteins of unknown function in all three domains of life. Mammalian Rdx12 and its fish selenoprotein orthologues are also members of this family []. These proteins possess a thioredoxin-like fold and a conserved CXXC or CxxU (U is selenocysteine) motif near the N terminus, suggesting a redox function. Rdx proteins can use catalytic cysteine (or selenocysteine) to form transient mixed disulphides with substrate proteins. Selenium (Se) plays an essential role in cell survival and most of the effects of Se are probably mediated by selenoproteins. Selenoprotein W (SelW) plays an important role in protection of neurons from oxidative stress during neuronal development [], []. Selenoprotein T (SelT) is conserved from plants to humans. SelT is localized to the endoplasmic reticulum through a hydrophobic domain. The protein binds to UDP-glucose:glycoprotein glucosyltransferase (UGTR), the endoplasmic reticulum (ER)-resident protein, which is known to be involved in the quality control of protein folding [, ]. The function of SelT is unknown, although it may have a role in PACAP signaling during PC12 cell differentiation [, ]. Selenoprotein H (SelH) protects neurons against UVB-induced damage by inhibiting apoptotic cell death pathways, by preventing mitochondrial depolarization, and by promoting cell survival pathways [].; GO: 0008430 selenium binding, 0045454 cell redox homeostasis; PDB: 2OJL_B 2FA8_A 2P0G_C 2NPB_A 3DEX_C 2OKA_A 2OBK_G.
Probab=27.97 E-value=94 Score=21.54 Aligned_cols=34 Identities=29% Similarity=0.276 Sum_probs=22.3
Q ss_pred eEEEEEeecCCCch-hhHHHHHHHHHHHhCCC-ceEEEe
Q 030939 120 FVKIRLRGRFWHKR-STVIARLANYLKQRIPE-ILEVDI 156 (169)
Q Consensus 120 ~VkVrL~GaC~~Cp-~Tlk~gIE~~Lke~IPE-I~~V~i 156 (169)
.|.|.+ |..|. ..--..+++.|.+.+|+ +.+|..
T Consensus 2 ~V~IeY---C~~C~~~~~a~~l~~~l~~~fp~~~~~v~~ 37 (76)
T PF10262_consen 2 KVTIEY---CTSCGYRPRALELAQELLQTFPDRIAEVEL 37 (76)
T ss_dssp EEEEEE---ETTTTCHHHHHHHHHHHHHHSTTTCSEEEE
T ss_pred EEEEEE---CCCCCCHHHHHHHHHHHHHHCCCcceEEEE
Confidence 455555 66666 33445688999999999 345544
No 100
>PRK10862 SoxR reducing system protein RseC; Provisional
Probab=27.93 E-value=60 Score=25.95 Aligned_cols=23 Identities=9% Similarity=0.044 Sum_probs=18.0
Q ss_pred EEEEEecCCeEEEEE--eecCCCch
Q 030939 111 AELAELDGPFVKIRL--RGRFWHKR 133 (169)
Q Consensus 111 VELVdvdgg~VkVrL--~GaC~~Cp 133 (169)
-.+|+++++.++|+. +.+|++|.
T Consensus 6 ~~Vv~v~~~~a~Ve~~r~saCg~C~ 30 (154)
T PRK10862 6 ATVVSWQNGIALLRCEVKAGCSSCA 30 (154)
T ss_pred EEEEEEECCEEEEEEecCCCCcCcC
Confidence 367899999977664 57899888
No 101
>TIGR00884 guaA_Cterm GMP synthase (glutamine-hydrolyzing), C-terminal domain or B subunit. This protein of purine de novo biosynthesis is well-conserved. However, it appears to split into two separate polypeptide chains in most of the Archaea. This C-terminal region would be the larger subunit
Probab=27.39 E-value=2.4e+02 Score=24.89 Aligned_cols=74 Identities=19% Similarity=0.324 Sum_probs=48.1
Q ss_pred cccHHHHHHHHH--HH-HHHHhh---------cc----c-cCcCCcccEEEEEecCCeEEEEE-------eecCCCchhh
Q 030939 80 DLTEDNVRQVIA--DA-RGELAQ---------LF----D-TSVGITGVAELAELDGPFVKIRL-------RGRFWHKRST 135 (169)
Q Consensus 80 ~LteE~Ve~VLe--ei-RP~L~~---------Df----~-~~vGiGGDVELVdvdgg~VkVrL-------~GaC~~Cp~T 135 (169)
++|+|+++.+=+ .+ +-.|.. .| + .|||.-||-.- -+..|.+|- ++....=|.-
T Consensus 201 ~it~e~l~~~~~ae~~~~~~~~~~~~~~~~~q~~~~llp~~~vgv~gd~r~---y~~~~~lr~~~~~d~mt~~~~~~~~~ 277 (311)
T TIGR00884 201 EVTKEKLEILRRADAIVIEELKKAGLYDKVWQAFAVLLPVKSVGVMGDGRT---YGYVIALRAVESIDGMTADWARLPYD 277 (311)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHcCCccccccceEEEeCccccccCCCCCc---ccceEEEEEEecCCccccCcccCCHH
Confidence 688888776522 22 555543 23 1 67888887511 124455554 4555555677
Q ss_pred HHHHHHHHHHHhCCCceEEEe
Q 030939 136 VIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 136 lk~gIE~~Lke~IPEI~~V~i 156 (169)
+...|.+.+-.++|+|..|.-
T Consensus 278 ~l~~~~~~i~~~v~~v~rv~y 298 (311)
T TIGR00884 278 FLERISNRITNEVPGVNRVVY 298 (311)
T ss_pred HHHHHHHHHhhcCCCcceEEe
Confidence 778999999999999999974
No 102
>PRK13253 citrate lyase subunit gamma; Provisional
Probab=26.97 E-value=2.7e+02 Score=21.00 Aligned_cols=54 Identities=15% Similarity=0.114 Sum_probs=38.0
Q ss_pred cCCcccEEE-EEe-cCCeEEEEEeecCC-CchhhHHHHHHHHHHHhCCCceEEEecCC
Q 030939 105 VGITGVAEL-AEL-DGPFVKIRLRGRFW-HKRSTVIARLANYLKQRIPEILEVDIEDE 159 (169)
Q Consensus 105 vGiGGDVEL-Vdv-dgg~VkVrL~GaC~-~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~ 159 (169)
|| -||+++ |+. +++.+.|.++.... +=.-..+..|+++|++.=++=..|.+.|-
T Consensus 12 ve-SsDl~V~veP~~~~~i~i~i~SsV~~~Fg~~i~~vv~~~l~~~~v~~~~i~i~D~ 68 (92)
T PRK13253 12 LE-SSDVMIRIAPADTQGIDIQLESSVEKQFGDQIRAVILETLAKLGVENAQVKVDDK 68 (92)
T ss_pred cc-cCCEEEEEEeCCCCcEEEEEEeeHHhhhHHHHHHHHHHHHHhcCCCceEEEEEcC
Confidence 45 688886 666 35779999998866 33367888888888887445555666654
No 103
>TIGR01159 DRP1 density-regulated protein DRP1. This protein family shows weak but suggestive similarity to translation initiation factor SUI1 and its prokaryotic homologs.
Probab=26.96 E-value=1.1e+02 Score=25.51 Aligned_cols=49 Identities=35% Similarity=0.614 Sum_probs=30.9
Q ss_pred HHHHHhhccc--cCc--CCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecC
Q 030939 93 ARGELAQLFD--TSV--GITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIED 158 (169)
Q Consensus 93 iRP~L~~Df~--~~v--GiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d 158 (169)
+--.|+.-|. +|| |-+|+ -.|-+||- ....|..+|.+..|+|-+..|++
T Consensus 120 laK~lkkkfacG~SV~k~~~~~----------~eI~IQGD-------~~~~v~e~L~~~~~~v~e~~I~~ 172 (173)
T TIGR01159 120 ASKTFAQKFATGCSVSKSVTGK----------EEIVIQGD-------VMDDIEDYIHEKWPEVGDKDIKD 172 (173)
T ss_pred HHHHHHHHhCCCCccccCCCCC----------CEEEecCC-------HHHHHHHHHHHHcCCCCHHHeee
Confidence 3334777784 445 44443 33446665 45568899999999987766553
No 104
>PF03332 PMM: Eukaryotic phosphomannomutase; InterPro: IPR005002 This enzyme (5.4.2.8 from EC) is involved in the synthesis of the GDP-mannose and dolichol-phosphate-mannose required for a number of critical mannosyl transfer reactions.; GO: 0004615 phosphomannomutase activity, 0019307 mannose biosynthetic process, 0005737 cytoplasm; PDB: 2I55_B 2I54_C 3F9R_A 2FUE_A 2FUC_A 2AMY_A 2Q4R_A.
Probab=26.80 E-value=2e+02 Score=25.06 Aligned_cols=71 Identities=24% Similarity=0.415 Sum_probs=46.6
Q ss_pred cccHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCch-------------hhHHHHHHHHHHH
Q 030939 80 DLTEDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKR-------------STVIARLANYLKQ 146 (169)
Q Consensus 80 ~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp-------------~Tlk~gIE~~Lke 146 (169)
.|.+|+.+++++-+--|+... +-.+= -| ++||.-++-+.++-.|+ .|| ..++..+-+.|++
T Consensus 64 ~lgee~~~~~in~~l~~~~~l-~lp~k-rG--tfIE~R~gmIn~SpiGr--~a~~eer~~f~~~D~~~~iR~~~v~~L~~ 137 (220)
T PF03332_consen 64 FLGEEKLQKLINFCLRYISDL-DLPVK-RG--TFIEFRGGMINFSPIGR--NASQEERDEFDEYDKKHKIREKLVEALKK 137 (220)
T ss_dssp HHHHHHHHHHHHHHHHHHHT----S----S---SEEEESSEEEE-SS-T--TS-HHHHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred HcCHHHHHHHHHHHHHHHHhC-CCCcc-CC--CceeecCCcEEECcccC--cCCHHHHHhhhhcChhhhHHHHHHHHHHH
Confidence 478899999998877777654 21211 22 78888899999999998 777 3455667789999
Q ss_pred hCCCc-eEEEe
Q 030939 147 RIPEI-LEVDI 156 (169)
Q Consensus 147 ~IPEI-~~V~i 156 (169)
++|+. .++.+
T Consensus 138 ~f~d~~L~~si 148 (220)
T PF03332_consen 138 EFPDFGLTFSI 148 (220)
T ss_dssp HTCCCSEEEEE
T ss_pred HCCCCceEEec
Confidence 99984 44444
No 105
>cd07030 RNAP_D D subunit of Archaeal RNA polymerase. The D subunit of archaeal RNA polymerase (RNAP) is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. A single distinct RNAP complex is found in archaea, which may be responsible for the synthesis of all RNAs. The archaeal RNAP harbors homologues of all eukaryotic RNAP II subunits with two exceptions (RPB8 and RPB9). The 12 archaeal subunits are designated by letters and can be divided into three functional groups that are engaged in: (I) catalysis (A'/A", B'/B" or B); (II) assembly (L, N, D and P); and (III) auxiliary functions (F, E, H and K). The D subunit is equivalent to the RPB3 subunit of eukaryotic RNAP II. It contains two subdomains: one subdomain is similar the eukaryotic Rpb11/AC19/archaeal L subunit w
Probab=25.65 E-value=2.3e+02 Score=23.90 Aligned_cols=44 Identities=20% Similarity=0.255 Sum_probs=36.2
Q ss_pred cEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCC--ceEEEec
Q 030939 110 VAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPE--ILEVDIE 157 (169)
Q Consensus 110 DVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPE--I~~V~i~ 157 (169)
.|++++.++...++.+. +...|+-+.+.+.|-..+|. |..|.+.
T Consensus 2 ~~~~~~~~~~~~~f~~~----g~~~s~~NalRRills~vp~~Ai~~V~i~ 47 (259)
T cd07030 2 EIEVLELDDDRARFVLE----GVPPAFANAIRRAIISEVPTLAIDDVNIY 47 (259)
T ss_pred ceEEEecCCCEEEEEEe----CCCHHHHHHHHHHHHhcCCeeeEEEEEEE
Confidence 37888888888888887 45789999999999999998 4666664
No 106
>COG0360 RpsF Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]
Probab=25.40 E-value=1.1e+02 Score=23.82 Aligned_cols=30 Identities=27% Similarity=0.374 Sum_probs=26.3
Q ss_pred cccHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEe
Q 030939 80 DLTEDNVRQVIADARGELAQLFDTSVGITGVAELAEL 116 (169)
Q Consensus 80 ~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdv 116 (169)
++++|++.+.+++..-.|..+ ||.|.=++-
T Consensus 12 ~~see~~~~~ve~~~~~l~~~-------gg~i~~~e~ 41 (112)
T COG0360 12 DLSEEQVAALVEKYKGVLTNN-------GGEIHKVED 41 (112)
T ss_pred CCCHHHHHHHHHHHHHHHHHC-------CCEEEEehh
Confidence 678899999999999999999 898876653
No 107
>PLN02199 shikimate kinase
Probab=25.31 E-value=2e+02 Score=26.04 Aligned_cols=74 Identities=16% Similarity=0.145 Sum_probs=42.6
Q ss_pred HHhhcCccccC--ccccchhccc---ccccCCCcceeeec---cccchhhccc------CCCCCCCc------cccHHHH
Q 030939 27 ILSTCNHSKAF--NKQTTHCRQK---KLSRRKPILLSTSI---DRGYLTRTAA------GGVPPPPL------DLTEDNV 86 (169)
Q Consensus 27 ~~~~c~~s~~f--~~~~~~~~~~---~~~~~~p~~~~t~~---~r~~~~~~~~------~~~~~~~l------~LteE~V 86 (169)
-+|.|.++.+| -||+...+++ +-..|.+..+++-+ .+...+++++ ...+..-+ ...++.+
T Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~de~~L 89 (303)
T PLN02199 10 QYPSWVDCRKVECKPQRGSLRYSQQVKVDRRFRGLSLARLQPERRNDQRRAVSPAVSCSDNNSSALLETGSVYPFDEDIL 89 (303)
T ss_pred eeeceecHhhhcCCCCCcceehhhccccccceeEEEeccccccccchhhhccccccccCCCCchhhcccCCCCCCCHHHH
Confidence 36788999999 6666666554 34445567777744 3444555443 11111111 2356666
Q ss_pred HHHHHHHHHHHhhc
Q 030939 87 RQVIADARGELAQL 100 (169)
Q Consensus 87 e~VLeeiRP~L~~D 100 (169)
++.-++++++|...
T Consensus 90 k~~a~~i~~~l~~~ 103 (303)
T PLN02199 90 KRKAEEVKPYLNGR 103 (303)
T ss_pred HHHHHHHHHHcCCC
Confidence 66667888887644
No 108
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=25.04 E-value=65 Score=22.18 Aligned_cols=34 Identities=26% Similarity=0.371 Sum_probs=22.7
Q ss_pred EEEEee-cCCCchhhHHHHHHHHHHHhCCCceEEEecCCc
Q 030939 122 KIRLRG-RFWHKRSTVIARLANYLKQRIPEILEVDIEDEK 160 (169)
Q Consensus 122 kVrL~G-aC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d~~ 160 (169)
.+++.| .|.||..+++..|+ .++++..|++.=++
T Consensus 5 ~l~v~~MtC~~C~~~V~~al~-----~v~gv~~v~v~l~~ 39 (71)
T COG2608 5 TLKVEGMTCGHCVKTVEKALE-----EVDGVASVDVDLEK 39 (71)
T ss_pred EEEECCcCcHHHHHHHHHHHh-----cCCCeeEEEEEccc
Confidence 444555 59999988775553 47888887765444
No 109
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=24.74 E-value=37 Score=22.44 Aligned_cols=22 Identities=9% Similarity=0.007 Sum_probs=16.2
Q ss_pred eecCCCchhhHHHHHHHHHHHh
Q 030939 126 RGRFWHKRSTVIARLANYLKQR 147 (169)
Q Consensus 126 ~GaC~~Cp~Tlk~gIE~~Lke~ 147 (169)
.|+|++|.+++-...-+.|+..
T Consensus 22 ~~~C~gC~~~l~~~~~~~i~~~ 43 (56)
T PF02591_consen 22 GGTCSGCHMELPPQELNEIRKG 43 (56)
T ss_pred CCccCCCCEEcCHHHHHHHHcC
Confidence 3589999987776666666654
No 110
>PRK14450 acylphosphatase; Provisional
Probab=24.63 E-value=2.7e+02 Score=20.06 Aligned_cols=56 Identities=21% Similarity=0.314 Sum_probs=34.0
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCe-EEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPF-VKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIED 158 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~-VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d 158 (169)
||++... -..-||.|-| -.+++|. |.|-++|. +..+.. ..++|+ +-|....|+-.+
T Consensus 18 R~~v~~~-A~~~~l~G~V--~N~~dG~~Vei~~~G~----~~~v~~-f~~~l~-~gp~~a~V~~v~ 74 (91)
T PRK14450 18 RDFTRTQ-ATRLGLCGYA--KNLANGNEVEVVAEGD----KDSLLE-FLDLLR-SGPPRAEVKEVE 74 (91)
T ss_pred HHHHHHH-HHHcCCEEEE--EECCCCCEEEEEEEeC----HHHHHH-HHHHHh-hCCCCcEEEEEE
Confidence 5555544 2346778875 3556785 99989886 445554 446777 457655554433
No 111
>KOG4048 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.58 E-value=1.1e+02 Score=26.31 Aligned_cols=53 Identities=13% Similarity=0.161 Sum_probs=40.8
Q ss_pred HHHHHHHhhccc-cCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHH
Q 030939 91 ADARGELAQLFD-TSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQ 146 (169)
Q Consensus 91 eeiRP~L~~Df~-~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke 146 (169)
+=||--|+.+|| .-||+||.. =|+.|.-...+---+++||..--+-|..||+-
T Consensus 73 ~CiR~gLe~HyG~KivglgG~F---iIqkG~a~~hvm~dFs~cP~nsdeEVnkWL~f 126 (201)
T KOG4048|consen 73 NCIRDGLEEHYGKKIVGLGGQF---IIQKGKARLHVMADFSSCPLNSDEEVNKWLHF 126 (201)
T ss_pred HHHHHHHHHhcCcccccccceE---EEeccccccccccccCCCCCCCHHHHHHHHhH
Confidence 457999999998 569999964 24566777778888999996666678788763
No 112
>PF06857 ACP: Malonate decarboxylase delta subunit (MdcD); InterPro: IPR023439 This family consists of the acyl carrier protein found in malonate decarboxylase and citrate lyase. This subunit has the same covalently bound prosthetic group, derived from and similar to coenzyme A, as does citrate lyase, although this protein and the acyl carrier protein of citrate lyase do not show significant sequence similarity. Both malonyl and acetyl groups are transferred to the prosthetic group for catalysis.
Probab=24.52 E-value=2.8e+02 Score=20.62 Aligned_cols=55 Identities=18% Similarity=0.151 Sum_probs=36.4
Q ss_pred cCCcccEEE-EEec-CCeEEEEEeecCCCch-hhHHHHHHHHHHHhCCCceEEEecCCc
Q 030939 105 VGITGVAEL-AELD-GPFVKIRLRGRFWHKR-STVIARLANYLKQRIPEILEVDIEDEK 160 (169)
Q Consensus 105 vGiGGDVEL-Vdvd-gg~VkVrL~GaC~~Cp-~Tlk~gIE~~Lke~IPEI~~V~i~d~~ 160 (169)
+| -||+++ ++.. ++.+.|.|++....-- ...+..|++.|++.=.+=..|.+.|--
T Consensus 11 le-SsD~~V~v~p~~~~gi~i~l~S~v~~~fg~~i~~vi~~~l~~~~i~~~~v~i~D~G 68 (87)
T PF06857_consen 11 LE-SSDLEVTVEPAESGGIEIELESSVVKQFGDQIRAVIRETLEELGIEDAKVEINDKG 68 (87)
T ss_pred cc-cCcEEEEEEeCCCCcEEEEEEchHHhhhHHHHHHHHHHHHHhcCCCceEEEEEeCC
Confidence 44 678886 4443 5889999998833222 667777778877765555666666643
No 113
>PRK14443 acylphosphatase; Provisional
Probab=24.44 E-value=2.8e+02 Score=20.62 Aligned_cols=57 Identities=14% Similarity=0.140 Sum_probs=34.0
Q ss_pred HHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecC
Q 030939 94 RGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIED 158 (169)
Q Consensus 94 RP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d 158 (169)
||+.+.. -..-||.|-| -.+.||.|.|-++|. +..+. ...++|++.-|....|+-.+
T Consensus 20 R~~~~~~-A~~~gl~G~V--~N~~dG~Vei~~qG~----~~~l~-~f~~~l~~g~p~~a~V~~v~ 76 (93)
T PRK14443 20 RYTTKHV-AYKYDISGTV--KNLDDGSVEIHAIAE----EENLN-KFIDAIKKGPSPGCRIEHVY 76 (93)
T ss_pred cHHHHHH-HHHcCCEEEE--EECCCCEEEEEEECC----HHHHH-HHHHHHhcCCCCcEEEEEEE
Confidence 4444333 2235777765 456789999999996 34444 44466777666444444433
No 114
>PRK00783 DNA-directed RNA polymerase subunit D; Provisional
Probab=24.35 E-value=2.2e+02 Score=24.00 Aligned_cols=44 Identities=16% Similarity=0.203 Sum_probs=35.9
Q ss_pred cEEEEEecCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCC--ceEEEec
Q 030939 110 VAELAELDGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPE--ILEVDIE 157 (169)
Q Consensus 110 DVELVdvdgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPE--I~~V~i~ 157 (169)
.+++++.++...++.|+ |...|+-+.+.+.|...+|. |..|.+.
T Consensus 2 ~~~~~~~~~~~~~f~~~----g~~~t~~NalRRvlls~vp~~Ai~~v~i~ 47 (263)
T PRK00783 2 EIEILELDDRSARFVVE----GVTPAFANAIRRAMIADVPTMAIDDVRFY 47 (263)
T ss_pred ceEEEEcCCcEEEEEEe----CCCHHHHHHHHHHHHHcCCeeeEEEEEEE
Confidence 37888888888888885 45799999999999999998 4566663
No 115
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=24.28 E-value=1.6e+02 Score=24.57 Aligned_cols=47 Identities=11% Similarity=0.099 Sum_probs=28.5
Q ss_pred EEEecCCeEEEEE--eecCCCch--hhHHHHHHHHHHHhCCCceEEEecCC
Q 030939 113 LAELDGPFVKIRL--RGRFWHKR--STVIARLANYLKQRIPEILEVDIEDE 159 (169)
Q Consensus 113 LVdvdgg~VkVrL--~GaC~~Cp--~Tlk~gIE~~Lke~IPEI~~V~i~d~ 159 (169)
+|+.++|.++|+= +-+|++|+ ..=..++.+.|-.+--.+..|+...+
T Consensus 8 vv~~q~G~a~V~c~~~S~CgsC~a~~~CGs~~l~kLg~~~~h~~~~~t~~p 58 (150)
T COG3086 8 VVSWQNGQAKVSCQRQSACGSCAARAGCGSGLLSKLGPQTEHIFRVETDEP 58 (150)
T ss_pred EEEccCCeEEEEeeccCccccchhhcccchHHHHHhccccceEEEEecCCc
Confidence 4788888877765 67899999 33333455555333334554544433
No 116
>PRK00111 hypothetical protein; Provisional
Probab=24.12 E-value=2.8e+02 Score=23.29 Aligned_cols=54 Identities=9% Similarity=0.146 Sum_probs=37.7
Q ss_pred ccEEEEEecCCeEEEEEeecCCCch-hhHHHHHHHHHHHhCC--CceEEEecCCccc
Q 030939 109 GVAELAELDGPFVKIRLRGRFWHKR-STVIARLANYLKQRIP--EILEVDIEDEKQL 162 (169)
Q Consensus 109 GDVELVdvdgg~VkVrL~GaC~~Cp-~Tlk~gIE~~Lke~IP--EI~~V~i~d~~ql 162 (169)
-....+.|.+++++|+...+-|.-- .-++..|-+.|.+++. -|.++.+.-|.+.
T Consensus 105 ~hT~p~~ikdgvL~V~~sSsAWAtEL~~~r~~Il~rLNe~LG~~vV~dIri~GP~~p 161 (180)
T PRK00111 105 QHTKVEMIKDKKLFITCDSTAWATNLRMMQRQILQVIAEKVGPDIITELRIFGPQAP 161 (180)
T ss_pred hhcCceEEECCEEEEEeCCHHHHHHHHhHHHHHHHHHHHHcCcCceeEEEEECCCCC
Confidence 3367788889999997666544433 4456667788888885 3788888766643
No 117
>PLN02557 phosphoribosylformylglycinamidine cyclo-ligase
Probab=23.89 E-value=1.7e+02 Score=26.97 Aligned_cols=38 Identities=16% Similarity=0.235 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEee
Q 030939 83 EDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRG 127 (169)
Q Consensus 83 eE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~G 127 (169)
.+.-++.++.++..+. |||+|..++++.++.+.+.--|
T Consensus 68 i~~~~~li~~i~~~~~-------giGdDaavi~~~~~~LV~ttD~ 105 (379)
T PLN02557 68 IDAGSELVRRIAKMAP-------GIGGFGGLFPFGDSYLVAGTDG 105 (379)
T ss_pred HHHHHHHHHHHHHhCC-------CCCCCeEEEecCCCEEEEEeCC
Confidence 4556677777776553 7799999998876665544443
No 118
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases. cGMP-dependent 3',5'-cyclic phosphodiesterase (3.1.4.17 from EC) catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. A phytochrome is a regulatory photoreceptor which exists in 2 forms that are reversibly interconvertible by light, the PR form that absorbs maximally in the red region of the spectrum, and the PFR form that absorbs maximally in the far-red region. This domain is also found in NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54.; GO: 0005515 protein binding; PDB: 2Y8H_A 3DBA_B 3CI6_A 3E0Y_B 2W3G_B 2W3D_A 2W3E_A 2Y79_B 2W3H_A 2W3F_A ....
Probab=23.62 E-value=2.5e+02 Score=19.51 Aligned_cols=36 Identities=11% Similarity=0.093 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEE
Q 030939 83 EDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRL 125 (169)
Q Consensus 83 eE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL 125 (169)
++-++.+++.++.+|+.| .+-+.+++-++..++...
T Consensus 3 ~~~l~~~~~~l~~~l~~~-------~~~i~~~d~~~~~~~~~~ 38 (154)
T PF01590_consen 3 DELLQRILRELAELLGAD-------RASIFLLDPDGNRLYSVA 38 (154)
T ss_dssp HHHHHHHHHHHHHHHTES-------EEEEEEEETTTTEEEEEE
T ss_pred HHHHHHHHHHHHHHHCCC-------EEEEEEEecCCCeEEEEE
Confidence 566788889999999999 888888888877764444
No 119
>TIGR00281 segregation and condensation protein B. Shown to be required for chromosome segregation and condensation in B. subtilis.
Probab=23.47 E-value=1.8e+02 Score=24.30 Aligned_cols=36 Identities=8% Similarity=0.137 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEe
Q 030939 83 EDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLR 126 (169)
Q Consensus 83 eE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~ 126 (169)
.+.++.++++++-+...+ +..+|++++.|+ .++..+
T Consensus 32 ~~~~~~~l~~l~~~~~~~-------~~gl~l~~~~~~-y~l~tk 67 (186)
T TIGR00281 32 AEKLNAIMELLEDYLSRD-------TAGIEIIKFGQS-YSLVTK 67 (186)
T ss_pred hHHHHHHHHHHHHHHhcC-------CCCEEEEEECCE-EEEEEh
Confidence 467888889998888888 777999999654 444444
No 120
>TIGR00166 S6 ribosomal protein S6. MRP17 protein is a component of the small ribosomal subunit in mitochondria, and is shown here to be an ortholog of S6.
Probab=22.85 E-value=1.5e+02 Score=21.23 Aligned_cols=28 Identities=18% Similarity=0.153 Sum_probs=23.7
Q ss_pred cccHHHHHHHHHHHHHHHhhccccCcCCcccEEEEE
Q 030939 80 DLTEDNVRQVIADARGELAQLFDTSVGITGVAELAE 115 (169)
Q Consensus 80 ~LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVd 115 (169)
++++| ++++++++.-.|.+. ||.|.-++
T Consensus 12 ~~~~~-~~~~~~~~~~~i~~~-------gg~i~~~~ 39 (93)
T TIGR00166 12 TLSEE-VKGQIERYKKVITLN-------GAEIVRSE 39 (93)
T ss_pred CCcHH-HHHHHHHHHHHHHhC-------CCEEEEEE
Confidence 45677 999999999999999 99886665
No 121
>cd07304 Chorismate_synthase Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway. Chorismate synthase (CS; 5-enolpyruvylshikimate-3-phosphate phospholyase; 1-carboxyvinyl-3-phosphoshikimate phosphate-lyase; E.C. 4.2.3.5) catalyzes the seventh and final step in the shikimate pathway: the conversion of 5- enolpyruvylshikimate-3-phosphate (EPSP) to chorismate, a precursor for the biosynthesis of aromatic compounds. This process has an absolute requirement for reduced FMN as a co-factor which is thought to facilitate cleavage of C-O bonds by transiently donating an electron to the substrate, having no overall change its redox state. Depending on the capacity of these enzymes to regenerate the reduced form of FMN, chorismate synthases are divided into two classes: Enzymes, mostly from plants and eubacteria, that sequester CS from the cellular environment, are monofunctiona,l while those that can generate reduced FMN at the expense of NADPH, such as found in fun
Probab=22.72 E-value=1.4e+02 Score=27.51 Aligned_cols=63 Identities=30% Similarity=0.363 Sum_probs=36.5
Q ss_pred ccHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecCC--Cch--hhHHHHHHHHHHHhCCCceEEEe
Q 030939 81 LTEDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRFW--HKR--STVIARLANYLKQRIPEILEVDI 156 (169)
Q Consensus 81 LteE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC~--~Cp--~Tlk~gIE~~Lke~IPEI~~V~i 156 (169)
..++++.+.|+++|-.-- |+ ||-||.+ .+|-=. |.| -.|.+.|.+++.. ||-|+.|++
T Consensus 181 ~~~~~m~~~I~~ak~~gD-----Sl--GG~ve~~----------~~gvP~GLG~p~f~klda~la~a~~s-IpAvKgve~ 242 (344)
T cd07304 181 EAEEKMKELIDEAKKEGD-----SV--GGVVEVV----------ATGVPAGLGSPVFDKLDARLAQALMS-IPAVKGVEI 242 (344)
T ss_pred HHHHHHHHHHHHHHHcCC-----CC--ceEEEEE----------EECCCCCCCccccccchHHHHHHhcC-cCceeEEEE
Confidence 356778888887765333 44 4555554 332211 112 3455556555554 899999998
Q ss_pred cCCcc
Q 030939 157 EDEKQ 161 (169)
Q Consensus 157 ~d~~q 161 (169)
-+.-+
T Consensus 243 G~Gf~ 247 (344)
T cd07304 243 GSGFE 247 (344)
T ss_pred Ccchh
Confidence 75433
No 122
>PF05642 Sporozoite_P67: Sporozoite P67 surface antigen; InterPro: IPR008845 This family consists of several Theileria P67 surface antigens. A stage specific surface antigen of Theileria parva, p67, is the basis for the development of an anti-sporozoite vaccine for the control of East Coast fever (ECF) in Bos taurus. The antigen has been shown to contain five distinct linear peptide sequences recognised by sporozoite-neutralising murine monoclonal antibodies [].
Probab=22.59 E-value=74 Score=31.94 Aligned_cols=22 Identities=36% Similarity=0.646 Sum_probs=19.1
Q ss_pred CCCCCCCccccHHHHHHHHHHH
Q 030939 72 GGVPPPPLDLTEDNVRQVIADA 93 (169)
Q Consensus 72 ~~~~~~~l~LteE~Ve~VLeei 93 (169)
.+-+.-.+||++|+|+++|||+
T Consensus 579 ~ggslrg~dlteeev~kilde~ 600 (727)
T PF05642_consen 579 GGGSLRGLDLTEEEVKKILDEL 600 (727)
T ss_pred CCCcccCCccCHHHHHHHHHHH
Confidence 4567778999999999999996
No 123
>COG3449 DNA gyrase inhibitor [DNA replication, recombination, and repair]
Probab=22.35 E-value=1.7e+02 Score=24.24 Aligned_cols=33 Identities=21% Similarity=0.228 Sum_probs=26.9
Q ss_pred ccEEEEEecC-CeEEEEEeecCCCchhhHHHHHHHHHH
Q 030939 109 GVAELAELDG-PFVKIRLRGRFWHKRSTVIARLANYLK 145 (169)
Q Consensus 109 GDVELVdvdg-g~VkVrL~GaC~~Cp~Tlk~gIE~~Lk 145 (169)
.||+++++.+ ++..+|..| + +.|++..+++.++
T Consensus 1 mdv~I~e~p~~~VA~~rh~G--~--~~~~~~~~~~l~~ 34 (154)
T COG3449 1 MDVEIIELPPIPVAYLRHVG--D--PATLKQTFEQLIA 34 (154)
T ss_pred CCceEEecCCceEEEEEeeC--c--HHHHHHHHHHHHH
Confidence 4799999965 899999999 2 5888888877664
No 124
>TIGR03274 methan_mark_7 putative methanogenesis marker protein 7. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=22.17 E-value=75 Score=29.05 Aligned_cols=23 Identities=35% Similarity=0.421 Sum_probs=20.2
Q ss_pred CccccHHHHHHHHHHHHHHHhhc
Q 030939 78 PLDLTEDNVRQVIADARGELAQL 100 (169)
Q Consensus 78 ~l~LteE~Ve~VLeeiRP~L~~D 100 (169)
.++-+-|.|.++|++.|-.|..|
T Consensus 196 ~Ld~lv~~v~~~i~~rR~ela~D 218 (302)
T TIGR03274 196 ALDKLVEVVSKIIDERRRELAKD 218 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHhccC
Confidence 35667899999999999999999
No 125
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=22.07 E-value=53 Score=28.71 Aligned_cols=28 Identities=7% Similarity=-0.008 Sum_probs=17.4
Q ss_pred CeEEEEEee-cCCCchhhHHHHHHHHHHH
Q 030939 119 PFVKIRLRG-RFWHKRSTVIARLANYLKQ 146 (169)
Q Consensus 119 g~VkVrL~G-aC~~Cp~Tlk~gIE~~Lke 146 (169)
|.+.|.+.| +|+||.|-+-....+.+..
T Consensus 189 g~gvvpl~g~~C~GC~m~l~~~~~~~V~~ 217 (239)
T COG1579 189 GVGVVPLEGRVCGGCHMKLPSQTLSKVRK 217 (239)
T ss_pred CceEEeecCCcccCCeeeecHHHHHHHhc
Confidence 444555554 7999996665555555544
No 126
>cd00365 HMG-CoA_reductase Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR). Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR) is a tightly regulated enzyme, which catalyzes the synthesis of coenzyme A and mevalonate in isoprenoid synthesis. In mammals, this is the rate limiting committed step in cholesterol biosynthesis. Bacteria, such as Pseudomonas mevalonii, which rely solely on mevalonate for their carbon source, catalyze the reverse reaction, using an NAD-dependent HMGR to deacetylate mevalonate into 3-hydroxy-3-methylglutaryl-CoA. There are two classes of HMGR: class I enzymes which are found predominantly in eukaryotes and contain N-terminal membrane regions and class II enzymes which are found primarily in prokaryotes and are soluble as they lack the membrane region. With the exception of Archaeoglobus fulgidus, most archeae are assigned to class I, based on sequence similarity of the active site, even though they lack membrane regions. Yeast and human HMGR
Probab=21.98 E-value=4.3e+02 Score=24.54 Aligned_cols=62 Identities=16% Similarity=0.156 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHhhccccCcCCcccEEEEEe--cCCeEEEEEeecCCCch-----hhHHHHHHHHHHHhCCCc
Q 030939 83 EDNVRQVIADARGELAQLFDTSVGITGVAELAEL--DGPFVKIRLRGRFWHKR-----STVIARLANYLKQRIPEI 151 (169)
Q Consensus 83 eE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdv--dgg~VkVrL~GaC~~Cp-----~Tlk~gIE~~Lke~IPEI 151 (169)
+++|.++-++.-|+|.+. ||.+.=+++ .+..|+|++.--|.-=. .|..+.+-.+|++..|+.
T Consensus 129 ~~~i~~~a~~~~~~~~~r-------gggl~~i~~~~~~~~v~l~~~~dtgDAMGaNmvn~~~eav~~~i~~~~~~~ 197 (376)
T cd00365 129 KDEIIELANRKDQLLNSL-------GGGCRDIEVHTFGPMLVAHLIVDVGDAMGANMINTMAEAVAPLMEAYTGGM 197 (376)
T ss_pred HHHHHHHHhhhCcchhcc-------CccceEEEEEeeCCEEEEEEEEEccchhhchhHHHHHHHHHHHHHHHcCCC
Confidence 455555555666777777 776666655 46799999987765544 456777888888888874
No 127
>cd04733 OYE_like_2_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=21.97 E-value=2.7e+02 Score=24.26 Aligned_cols=68 Identities=13% Similarity=0.101 Sum_probs=36.4
Q ss_pred hHHHHHHhhc-CccccCccccchhcccccccCCCccee-eeccccchhhcccCCCCCCCccccHHHHHHHHHHH
Q 030939 22 CFLRKILSTC-NHSKAFNKQTTHCRQKKLSRRKPILLS-TSIDRGYLTRTAAGGVPPPPLDLTEDNVRQVIADA 93 (169)
Q Consensus 22 ~~l~~~~~~c-~~s~~f~~~~~~~~~~~~~~~~p~~~~-t~~~r~~~~~~~~~~~~~~~l~LteE~Ve~VLeei 93 (169)
+.|+++...| .+-+.+=-|++|.+....+.-....++ |+.. ...........+-+||+|+|+++++..
T Consensus 82 ~~~~~l~~~vh~~G~~~~~Ql~h~G~~~~~~~~~~~~~ps~~~----~~~~~~~~~~~p~~mt~~eI~~~i~~~ 151 (338)
T cd04733 82 EAFREWAAAAKANGALIWAQLNHPGRQSPAGLNQNPVAPSVAL----DPGGLGKLFGKPRAMTEEEIEDVIDRF 151 (338)
T ss_pred HHHHHHHHHHHhcCCEEEEEccCCCcCCCccCCCCCcCCCCCc----CcccccccCCCCCcCCHHHHHHHHHHH
Confidence 4577888877 444455678888776643322111111 1110 000000111235679999999999975
No 128
>PF07723 LRR_2: Leucine Rich Repeat; InterPro: IPR013101 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This entry includes some LRRs that fail to be detected by IPR001611 from INTERPRO [, ].
Probab=21.63 E-value=77 Score=18.42 Aligned_cols=21 Identities=24% Similarity=0.195 Sum_probs=14.6
Q ss_pred ccceeeecchhHHHHHHhhcC
Q 030939 12 EAIHVHCHRYCFLRKILSTCN 32 (169)
Q Consensus 12 ~~~~~~~~~~~~l~~~~~~c~ 32 (169)
+--.++..-...+.++||||.
T Consensus 6 ~L~~v~f~~~~~l~~LlS~CP 26 (26)
T PF07723_consen 6 HLDSVVFSDEDSLERLLSGCP 26 (26)
T ss_pred EeeEEEECChhHHHHhhccCc
Confidence 334455556667889999993
No 129
>cd05568 PTS_IIB_bgl_like PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved in sugar utilization. The domain architecture of the IIB-containing protein includes a region N-terminal to the IIB domain which is homologous to the BglG transcription antiterminator with an RNA-binding domain followed by two homologous domains, PRD1 and PRD2 (PTS Regulation Domains). C-terminal to the IIB domain is a domain similar to the PTS IIA domain. In this system, the BglG-like region and the IIB and IIA-like domains are all expressed together as a single multidomain protein. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include this sensory system with similarity to the bacterial
Probab=21.23 E-value=1.1e+02 Score=20.37 Aligned_cols=27 Identities=30% Similarity=0.363 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHhCCCceEEEecCCccc
Q 030939 136 VIARLANYLKQRIPEILEVDIEDEKQL 162 (169)
Q Consensus 136 lk~gIE~~Lke~IPEI~~V~i~d~~ql 162 (169)
....+++.|++.+|+...+......++
T Consensus 13 ~s~~l~~~l~~~~~~~~~v~~~~~~~~ 39 (85)
T cd05568 13 TSRLLKSKLKKLFPEIEIIDVISLREL 39 (85)
T ss_pred HHHHHHHHHHHHCCCceEEEEEeHHHH
Confidence 344688999999998777665544444
No 130
>PF12957 DUF3846: Domain of unknown function (DUF3846); InterPro: IPR024559 A family of uncharacterised proteins found by clustering human gut metagenomic sequences []. In a few cases it is found fused to the C terminus of ArdA (Pfam:PF07275). ArdA functions in bacterial conjugation to allow an unmodified plasmid to evade restriction in the recipient bacterium and yet acquire cognate modification [].
Probab=21.15 E-value=1.1e+02 Score=22.02 Aligned_cols=27 Identities=19% Similarity=0.208 Sum_probs=17.5
Q ss_pred CcccEEEEEecCCe-EEEEEeecCCCch
Q 030939 107 ITGVAELAELDGPF-VKIRLRGRFWHKR 133 (169)
Q Consensus 107 iGGDVELVdvdgg~-VkVrL~GaC~~Cp 133 (169)
+||++|.|.++++. .++==.|..-+=|
T Consensus 27 VgG~ie~v~l~~~~~l~~neeGk~~~lp 54 (95)
T PF12957_consen 27 VGGYIEVVYLDDGVVLYCNEEGKLKGLP 54 (95)
T ss_pred HCCeEEEEecCCCEEEEEeCccCcccCC
Confidence 38999999996544 5555555444433
No 131
>cd07059 BMC_PduA 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain. PduA is encoded within the 1,2-propanediol utilization (pdu) operon along with other homologous carboxysome shell proteins PduB, B', J, K, T, and U. PduA is thought to be required for the formation of the outer shell of bacterial pdu polyhedral organelles which are involved in coenzyme B12-dependent degradation of 1,2-propanediol. Although it has been suggested that PduA might form hexamers and further assemble into the flat facets of the polyhedral outer shell of pdu organelles, like PduU does, at present no experimental evidence directly supports this view.
Probab=20.44 E-value=1.5e+02 Score=21.74 Aligned_cols=34 Identities=21% Similarity=0.240 Sum_probs=25.0
Q ss_pred cccEEEEEec---CCeEEEEEeecCCCchhhHHHHHH
Q 030939 108 TGVAELAELD---GPFVKIRLRGRFWHKRSTVIARLA 141 (169)
Q Consensus 108 GGDVELVdvd---gg~VkVrL~GaC~~Cp~Tlk~gIE 141 (169)
..||+|+.++ +|.++|.++|--+.+..-+.++.+
T Consensus 23 aA~V~Li~~~~~~~G~~~v~v~GdVsaV~aAv~ag~~ 59 (85)
T cd07059 23 AANVTLVGKEQIGGGLVTVMVRGDVGAVKAATDAGAA 59 (85)
T ss_pred hCceEEEEEEecCCeEEEEEEEecHHHHHHHHHHHHH
Confidence 4689999883 689999999997665555554443
No 132
>PRK01220 malonate decarboxylase subunit delta; Provisional
Probab=20.21 E-value=4.2e+02 Score=20.56 Aligned_cols=53 Identities=21% Similarity=0.271 Sum_probs=39.5
Q ss_pred cCCcccEEEEEe--cCCeEEEEEeecCCCchhhHHHHHHHHHHHhCCCceEEEecC
Q 030939 105 VGITGVAELAEL--DGPFVKIRLRGRFWHKRSTVIARLANYLKQRIPEILEVDIED 158 (169)
Q Consensus 105 vGiGGDVELVdv--dgg~VkVrL~GaC~~Cp~Tlk~gIE~~Lke~IPEI~~V~i~d 158 (169)
|| -||+|+.=- .++.+.|+.+=+-.|=..+-++.++++..+.=|.=..++|-|
T Consensus 23 VG-SGdLEVL~ep~~~~~~~v~I~Tsv~Gf~~~Wqavl~rf~~~~~~~~~~i~InD 77 (99)
T PRK01220 23 VG-SGDLEVLLEPGDAGKLSIQVVTSVNGSAARWKALFERFFTAQTPPAANIDIHD 77 (99)
T ss_pred Ec-cCceEEEEEcCCCCcEEEEEEecccCcHHHHHHHHHHHHhhCCCCccEEEEeC
Confidence 66 899997533 468899999888777778888889998888744445555544
No 133
>PLN02754 chorismate synthase
Probab=20.11 E-value=1.7e+02 Score=27.76 Aligned_cols=61 Identities=20% Similarity=0.166 Sum_probs=35.2
Q ss_pred cHHHHHHHHHHHHHHHhhccccCcCCcccEEEEEecCCeEEEEEeecC--CCch--hhHHHHHHHHHHHhCCCceEEEec
Q 030939 82 TEDNVRQVIADARGELAQLFDTSVGITGVAELAELDGPFVKIRLRGRF--WHKR--STVIARLANYLKQRIPEILEVDIE 157 (169)
Q Consensus 82 teE~Ve~VLeeiRP~L~~Df~~~vGiGGDVELVdvdgg~VkVrL~GaC--~~Cp--~Tlk~gIE~~Lke~IPEI~~V~i~ 157 (169)
.++++++.|+++|-.-- |+ ||-||.+ .+|-- .|.| -.|.+.|.++|.. ||-|+.|++-
T Consensus 215 ~~~~m~~~I~~ak~~GD-----Sl--GGivev~----------~~gvP~GLG~pvfdkLda~LA~Al~S-IpAVKGVEfG 276 (413)
T PLN02754 215 YAEKMIAAIDAVRVRGD-----SV--GGVVTCI----------VRNVPRGLGSPVFDKLEAELAKAMMS-LPATKGFEIG 276 (413)
T ss_pred HHHHHHHHHHHHHHcCC-----Cc--ccEEEEE----------EECCCCCCCccccccchHHHHHHhcC-cCceeEEEEc
Confidence 45667777776664433 44 4555554 33321 1122 4455566666654 8999999997
Q ss_pred CCc
Q 030939 158 DEK 160 (169)
Q Consensus 158 d~~ 160 (169)
+.-
T Consensus 277 ~GF 279 (413)
T PLN02754 277 SGF 279 (413)
T ss_pred cch
Confidence 553
No 134
>COG3866 PelB Pectate lyase [Carbohydrate transport and metabolism]
Probab=20.09 E-value=46 Score=30.86 Aligned_cols=44 Identities=20% Similarity=0.298 Sum_probs=35.6
Q ss_pred cccccceeeecchhHHHHHHhhcCccccCc---c--ccchhcccccccCCCcc
Q 030939 9 VSMEAIHVHCHRYCFLRKILSTCNHSKAFN---K--QTTHCRQKKLSRRKPIL 56 (169)
Q Consensus 9 ~~~~~~~~~~~~~~~l~~~~~~c~~s~~f~---~--~~~~~~~~~~~~~~p~~ 56 (169)
|+|.--|+|-|-+++| + |-+|+.+.+ + -.-|.+++++-.|-|+.
T Consensus 188 ITiS~n~fhdh~Kssl--~--G~sD~~~~~~~~~kvT~hhNyFkn~~qR~Pri 236 (345)
T COG3866 188 ITISYNKFHDHDKSSL--L--GSSDSSNYDDGKYKVTIHHNYFKNLYQRGPRI 236 (345)
T ss_pred EEEEeeeeecCCeeee--e--ccCCcccccCCceeEEEeccccccccccCCce
Confidence 5667789999999987 2 668998887 3 34589999999999964
No 135
>PRK13523 NADPH dehydrogenase NamA; Provisional
Probab=20.00 E-value=6.2e+02 Score=22.46 Aligned_cols=70 Identities=13% Similarity=0.199 Sum_probs=38.3
Q ss_pred hHHHHHHhhc-CccccCccccchhcccccccCCCcceeeeccccchhhcccCCCCCCCccccHHHHHHHHHHH-HHHHhh
Q 030939 22 CFLRKILSTC-NHSKAFNKQTTHCRQKKLSRRKPILLSTSIDRGYLTRTAAGGVPPPPLDLTEDNVRQVIADA-RGELAQ 99 (169)
Q Consensus 22 ~~l~~~~~~c-~~s~~f~~~~~~~~~~~~~~~~p~~~~t~~~r~~~~~~~~~~~~~~~l~LteE~Ve~VLeei-RP~L~~ 99 (169)
+-++++.+.| .+.+..=.|++|.+........| .-.+.. . . ......+-+||+|+|+++++.. +-+..+
T Consensus 81 ~~~r~l~d~vh~~G~~i~~QL~H~G~~~~~~~~~-~~ps~~------~-~-~~~~~~p~~mt~eeI~~ii~~f~~aA~~a 151 (337)
T PRK13523 81 EGLHKLVTFIHDHGAKAAIQLAHAGRKAELEGDI-VAPSAI------P-F-DEKSKTPVEMTKEQIKETVLAFKQAAVRA 151 (337)
T ss_pred HHHHHHHHHHHhcCCEEEEEccCCCCCCCCCCCc-cCCCCC------C-C-CCCCCCCCcCCHHHHHHHHHHHHHHHHHH
Confidence 5678888888 44445567889987654211111 000000 0 0 0012234579999999999874 444444
Q ss_pred c
Q 030939 100 L 100 (169)
Q Consensus 100 D 100 (169)
.
T Consensus 152 ~ 152 (337)
T PRK13523 152 K 152 (337)
T ss_pred H
Confidence 3
Done!