Query psy14105
Match_columns 198
No_of_seqs 176 out of 1261
Neff 7.6
Searched_HMMs 46136
Date Fri Aug 16 19:40:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14105.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14105hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0846 SIR2 NAD-dependent pro 100.0 6.1E-56 1.3E-60 367.9 13.9 167 4-197 7-175 (250)
2 cd01413 SIR2_Af2 SIR2_Af2: Arc 100.0 2.5E-54 5.5E-59 354.8 13.7 165 6-198 1-165 (222)
3 cd01409 SIRT4 SIRT4: Eukaryoti 100.0 1.5E-52 3.2E-57 351.5 16.0 182 5-198 4-198 (260)
4 PRK14138 NAD-dependent deacety 100.0 6.4E-53 1.4E-57 350.8 13.4 167 4-198 6-172 (244)
5 PTZ00409 Sir2 (Silent Informat 100.0 6.5E-53 1.4E-57 354.9 12.6 169 5-198 24-193 (271)
6 PRK00481 NAD-dependent deacety 100.0 4E-52 8.7E-57 345.8 14.4 163 4-197 8-170 (242)
7 cd01407 SIR2-fam SIR2 family o 100.0 5E-52 1.1E-56 340.3 13.8 160 10-198 1-161 (218)
8 cd01408 SIRT1 SIRT1: Eukaryoti 100.0 3.9E-52 8.4E-57 344.4 12.2 159 10-197 1-168 (235)
9 cd01412 SIRT5_Af1_CobB SIRT5_A 100.0 1.1E-51 2.4E-56 339.5 14.2 157 10-197 1-157 (224)
10 cd01411 SIR2H SIR2H: Uncharact 100.0 1.3E-51 2.9E-56 339.3 14.2 159 5-198 4-165 (225)
11 PTZ00408 NAD-dependent deacety 100.0 2.4E-51 5.2E-56 340.6 15.1 162 7-197 2-168 (242)
12 PRK05333 NAD-dependent deacety 100.0 5.9E-50 1.3E-54 339.9 13.8 182 5-198 15-208 (285)
13 PTZ00410 NAD-dependent SIR2; P 100.0 8.7E-50 1.9E-54 343.8 12.8 161 9-196 29-198 (349)
14 cd01410 SIRT7 SIRT7: Eukaryoti 100.0 1.7E-49 3.8E-54 322.7 10.9 147 10-198 1-149 (206)
15 PF02146 SIR2: Sir2 family; I 100.0 5.2E-50 1.1E-54 318.9 7.4 153 17-197 1-156 (178)
16 cd00296 SIR2 SIR2 superfamily 100.0 1E-45 2.3E-50 302.7 14.4 158 10-197 1-162 (222)
17 KOG2683|consensus 100.0 2.8E-46 6.1E-51 301.6 10.0 184 5-197 41-239 (305)
18 KOG2684|consensus 100.0 2.6E-42 5.6E-47 297.4 8.8 163 4-196 83-272 (412)
19 KOG2682|consensus 100.0 2.7E-39 5.8E-44 261.5 4.9 162 5-196 32-204 (314)
20 KOG1905|consensus 100.0 1.2E-30 2.6E-35 216.9 3.6 157 5-198 51-210 (353)
21 cd01406 SIR2-like Sir2-like: P 99.3 1.3E-12 2.8E-17 108.3 5.7 110 10-124 1-150 (242)
22 smart00834 CxxC_CXXC_SSSS Puta 94.1 0.056 1.2E-06 32.0 2.6 14 120-133 3-16 (41)
23 PF09723 Zn-ribbon_8: Zinc rib 93.3 0.1 2.2E-06 31.5 2.8 14 120-133 3-16 (42)
24 TIGR02605 CxxC_CxxC_SSSS putat 89.5 0.41 8.9E-06 29.9 2.8 14 120-133 3-16 (52)
25 PF07295 DUF1451: Protein of u 88.9 0.35 7.6E-06 37.3 2.5 13 121-133 111-123 (146)
26 PRK11032 hypothetical protein; 88.1 0.44 9.6E-06 37.3 2.6 13 121-133 123-135 (160)
27 PF13289 SIR2_2: SIR2-like dom 83.1 0.65 1.4E-05 34.4 1.3 27 95-121 2-53 (143)
28 TIGR02098 MJ0042_CXXC MJ0042 f 82.6 0.88 1.9E-05 26.4 1.5 12 122-133 2-13 (38)
29 PF13717 zinc_ribbon_4: zinc-r 78.0 2.1 4.5E-05 24.9 2.1 13 122-134 2-14 (36)
30 COG2331 Uncharacterized protei 78.0 0.73 1.6E-05 31.5 0.1 22 165-188 31-57 (82)
31 PF05191 ADK_lid: Adenylate ki 77.7 2.3 5.1E-05 24.7 2.2 13 122-134 1-13 (36)
32 PF09845 DUF2072: Zn-ribbon co 77.6 1.2 2.7E-05 33.6 1.2 10 124-133 3-12 (131)
33 PF01475 FUR: Ferric uptake re 76.4 3.6 7.9E-05 29.9 3.5 54 70-134 39-92 (120)
34 COG3364 Zn-ribbon containing p 76.0 1.3 2.8E-05 32.0 0.9 12 123-134 3-14 (112)
35 PRK00398 rpoP DNA-directed RNA 75.0 3.1 6.7E-05 25.3 2.4 12 122-133 3-14 (46)
36 TIGR00853 pts-lac PTS system, 73.7 1.6 3.5E-05 31.0 1.0 16 8-23 2-17 (95)
37 PRK12496 hypothetical protein; 73.5 2.7 5.7E-05 33.0 2.2 12 122-133 127-138 (164)
38 cd00729 rubredoxin_SM Rubredox 73.3 3.9 8.4E-05 23.4 2.3 12 122-133 2-13 (34)
39 PF09538 FYDLN_acid: Protein o 72.5 2.5 5.5E-05 30.9 1.7 13 168-182 27-39 (108)
40 PRK09590 celB cellobiose phosp 71.2 1.8 4E-05 31.3 0.8 14 10-23 2-15 (104)
41 cd00350 rubredoxin_like Rubred 69.5 5.1 0.00011 22.6 2.3 12 122-133 1-12 (33)
42 PF02302 PTS_IIB: PTS system, 68.6 2.6 5.6E-05 28.9 1.0 14 11-24 1-14 (90)
43 COG1440 CelA Phosphotransferas 68.6 2.9 6.3E-05 30.2 1.3 14 10-23 2-15 (102)
44 PF00301 Rubredoxin: Rubredoxi 68.4 7.2 0.00016 24.1 2.9 13 122-134 1-13 (47)
45 PRK07591 threonine synthase; V 68.2 4.8 0.0001 36.2 2.9 14 120-133 16-29 (421)
46 PRK00564 hypA hydrogenase nick 66.9 4.4 9.6E-05 29.9 2.1 18 116-133 65-82 (117)
47 cd00730 rubredoxin Rubredoxin; 66.8 6.8 0.00015 24.6 2.6 12 123-134 2-13 (50)
48 PRK14717 putative glycine/sarc 66.5 14 0.0003 26.7 4.3 42 8-49 17-68 (107)
49 PF13719 zinc_ribbon_5: zinc-r 66.1 4.7 0.0001 23.4 1.7 12 122-133 2-13 (37)
50 cd05564 PTS_IIB_chitobiose_lic 65.8 3 6.5E-05 29.5 0.9 13 11-23 1-13 (96)
51 TIGR02300 FYDLN_acid conserved 65.4 4.8 0.0001 30.3 2.0 14 167-182 26-39 (129)
52 TIGR00354 polC DNA polymerase, 65.4 4.9 0.00011 39.8 2.5 85 68-183 914-1042(1095)
53 PRK10499 PTS system N,N'-diace 63.8 3.5 7.5E-05 29.9 1.0 15 10-24 4-18 (106)
54 TIGR00373 conserved hypothetic 62.3 5.1 0.00011 31.1 1.7 65 69-133 38-120 (158)
55 PRK06266 transcription initiat 61.9 4.9 0.00011 32.0 1.6 81 69-181 46-148 (178)
56 PRK04023 DNA polymerase II lar 61.2 6.5 0.00014 39.2 2.5 85 68-183 939-1067(1121)
57 smart00531 TFIIE Transcription 60.7 4.9 0.00011 30.7 1.4 17 69-85 25-41 (147)
58 smart00659 RPOLCX RNA polymera 60.3 9.3 0.0002 23.2 2.3 10 123-132 3-12 (44)
59 PRK14714 DNA polymerase II lar 59.5 7.1 0.00015 39.8 2.5 85 68-183 1155-1283(1337)
60 COG1579 Zn-ribbon protein, pos 58.8 3.8 8.1E-05 34.2 0.4 42 111-179 190-231 (239)
61 cd07153 Fur_like Ferric uptake 58.3 19 0.00042 25.7 4.2 53 69-134 31-85 (116)
62 COG1773 Rubredoxin [Energy pro 57.6 14 0.00031 23.7 2.8 14 121-134 2-15 (55)
63 PF13240 zinc_ribbon_2: zinc-r 57.6 5.4 0.00012 20.7 0.8 9 174-182 4-12 (23)
64 PRK10310 PTS system galactitol 56.5 5.2 0.00011 28.2 0.8 14 11-24 4-17 (94)
65 COG0735 Fur Fe2+/Zn2+ uptake r 55.7 26 0.00056 26.7 4.6 64 60-134 42-105 (145)
66 PRK09462 fur ferric uptake reg 54.1 25 0.00055 26.6 4.3 56 68-134 47-102 (148)
67 PF09151 DUF1936: Domain of un 54.0 6.5 0.00014 22.2 0.7 12 169-182 3-15 (36)
68 PRK03681 hypA hydrogenase nick 53.5 11 0.00023 27.7 2.1 14 120-133 68-81 (114)
69 COG1379 PHP family phosphoeste 53.1 3.1 6.8E-05 36.3 -0.9 43 113-183 237-279 (403)
70 PF13453 zf-TFIIB: Transcripti 52.4 5.4 0.00012 23.6 0.3 10 167-178 19-28 (41)
71 PF03604 DNA_RNApol_7kD: DNA d 52.2 15 0.00032 20.8 2.0 11 166-178 16-26 (32)
72 COG1996 RPC10 DNA-directed RNA 50.8 13 0.00027 23.3 1.7 11 122-132 6-16 (49)
73 PRK11788 tetratricopeptide rep 48.3 11 0.00025 32.3 1.8 17 167-185 368-386 (389)
74 COG3091 SprT Zn-dependent meta 48.2 3.2 6.9E-05 32.2 -1.5 81 76-180 70-151 (156)
75 PF12172 DUF35_N: Rubredoxin-l 47.7 11 0.00023 21.7 1.0 15 117-131 6-20 (37)
76 cd05567 PTS_IIB_mannitol PTS_I 47.6 9.9 0.00021 26.1 1.0 15 10-24 1-15 (87)
77 COG2051 RPS27A Ribosomal prote 46.5 13 0.00027 24.8 1.4 18 115-132 12-29 (67)
78 PRK03824 hypA hydrogenase nick 46.4 17 0.00037 27.5 2.2 14 121-134 69-82 (135)
79 PF05148 Methyltransf_8: Hypot 45.4 31 0.00067 28.4 3.7 39 48-86 32-70 (219)
80 PF02591 DUF164: Putative zinc 44.9 8.9 0.00019 24.2 0.4 13 165-179 44-56 (56)
81 KOG2278|consensus 44.8 14 0.0003 29.5 1.5 50 5-54 148-197 (207)
82 PRK12380 hydrogenase nickel in 44.6 18 0.0004 26.4 2.1 20 114-133 62-81 (113)
83 COG1439 Predicted nucleic acid 44.3 19 0.0004 28.7 2.2 12 122-133 139-150 (177)
84 PRK13265 glycine/sarcosine/bet 44.1 48 0.001 25.4 4.3 42 8-49 66-117 (154)
85 PRK14715 DNA polymerase II lar 43.5 18 0.0004 37.3 2.5 84 68-183 1444-1571(1627)
86 TIGR00100 hypA hydrogenase nic 42.9 20 0.00044 26.2 2.2 15 119-133 67-81 (115)
87 PF14169 YdjO: Cold-inducible 41.2 21 0.00046 23.2 1.7 19 165-185 37-55 (59)
88 PF11023 DUF2614: Protein of u 40.8 19 0.0004 26.6 1.6 12 121-132 68-79 (114)
89 PF07754 DUF1610: Domain of un 38.3 22 0.00048 18.8 1.2 8 167-176 16-23 (24)
90 cd05566 PTS_IIB_galactitol PTS 37.7 17 0.00037 24.7 1.0 15 10-24 1-15 (89)
91 cd05565 PTS_IIB_lactose PTS_II 36.7 17 0.00038 26.0 0.9 12 11-22 2-13 (99)
92 PF02150 RNA_POL_M_15KD: RNA p 36.5 15 0.00032 21.1 0.4 12 169-182 3-14 (35)
93 COG3357 Predicted transcriptio 36.5 23 0.00049 25.1 1.4 11 123-133 59-69 (97)
94 PRK00762 hypA hydrogenase nick 35.3 31 0.00068 25.6 2.2 12 121-133 69-80 (124)
95 cd05563 PTS_IIB_ascorbate PTS_ 34.9 20 0.00042 24.3 0.9 14 11-24 1-14 (86)
96 PRK11639 zinc uptake transcrip 34.3 1.2E+02 0.0025 23.7 5.4 57 68-134 55-112 (169)
97 PF01155 HypA: Hydrogenase exp 34.0 16 0.00036 26.6 0.4 21 113-133 61-81 (113)
98 PRK12775 putative trifunctiona 32.9 30 0.00065 34.8 2.2 12 168-181 839-850 (1006)
99 PLN02569 threonine synthase 32.6 34 0.00075 31.5 2.4 12 122-133 49-60 (484)
100 PF10571 UPF0547: Uncharacteri 30.9 34 0.00073 18.3 1.2 9 168-178 15-23 (26)
101 PF10263 SprT-like: SprT-like 30.4 34 0.00073 25.8 1.7 15 119-133 120-134 (157)
102 PF14353 CpXC: CpXC protein 29.9 31 0.00066 25.4 1.3 18 116-133 32-49 (128)
103 PTZ00127 cytochrome c oxidase 29.5 41 0.0009 30.2 2.3 21 12-37 85-105 (403)
104 PF04475 DUF555: Protein of un 29.5 37 0.0008 24.4 1.6 22 167-190 47-68 (102)
105 COG1592 Rubrerythrin [Energy p 29.4 46 0.001 26.2 2.3 12 122-133 134-145 (166)
106 PRK05452 anaerobic nitric oxid 29.2 59 0.0013 29.8 3.3 21 113-133 416-436 (479)
107 COG1545 Predicted nucleic-acid 29.1 44 0.00094 25.4 2.1 15 118-132 25-39 (140)
108 COG3414 SgaB Phosphotransferas 28.5 30 0.00065 24.5 1.0 15 10-24 2-16 (93)
109 PRK02935 hypothetical protein; 28.3 49 0.0011 24.1 2.1 16 168-185 87-102 (110)
110 PF13248 zf-ribbon_3: zinc-rib 28.0 30 0.00066 18.2 0.8 9 168-178 17-25 (26)
111 PRK00415 rps27e 30S ribosomal 27.8 40 0.00086 21.9 1.4 18 115-132 4-21 (59)
112 PF08274 PhnA_Zn_Ribbon: PhnA 27.7 26 0.00057 19.5 0.5 9 167-177 2-10 (30)
113 TIGR00155 pqiA_fam integral me 27.4 40 0.00087 30.3 1.9 15 164-180 30-44 (403)
114 PF12773 DZR: Double zinc ribb 27.1 70 0.0015 19.2 2.4 16 167-184 29-44 (50)
115 COG1198 PriA Primosomal protei 26.5 70 0.0015 31.2 3.4 15 168-187 476-490 (730)
116 PRK14873 primosome assembly pr 26.0 1.3E+02 0.0029 28.9 5.2 45 77-130 356-400 (665)
117 PF07191 zinc-ribbons_6: zinc- 25.6 31 0.00068 23.2 0.6 11 121-131 16-26 (70)
118 PRK03922 hypothetical protein; 25.5 46 0.001 24.4 1.5 22 167-190 49-70 (113)
119 PF09297 zf-NADH-PPase: NADH p 25.4 35 0.00076 18.8 0.7 13 168-182 4-16 (32)
120 TIGR01206 lysW lysine biosynth 25.4 48 0.001 21.1 1.4 14 165-180 20-33 (54)
121 COG1675 TFA1 Transcription ini 25.3 36 0.00077 27.1 1.0 11 168-180 133-143 (176)
122 PF04723 GRDA: Glycine reducta 25.2 1.3E+02 0.0029 23.0 4.0 42 8-49 65-116 (150)
123 PF01396 zf-C4_Topoisom: Topoi 25.2 40 0.00086 19.7 1.0 11 169-181 3-13 (39)
124 PF09788 Tmemb_55A: Transmembr 24.9 69 0.0015 27.0 2.7 25 111-135 72-98 (256)
125 COG1885 Uncharacterized protei 24.3 50 0.0011 24.1 1.5 22 167-190 49-70 (115)
126 PF04216 FdhE: Protein involve 24.2 47 0.001 28.2 1.6 23 112-134 183-209 (290)
127 PF08271 TF_Zn_Ribbon: TFIIB z 23.9 23 0.00049 21.0 -0.3 15 169-185 21-35 (43)
128 PRK04351 hypothetical protein; 23.8 65 0.0014 24.8 2.2 16 117-132 107-122 (149)
129 PF06906 DUF1272: Protein of u 23.6 41 0.0009 21.6 0.9 12 168-181 42-53 (57)
130 smart00731 SprT SprT homologue 23.5 65 0.0014 24.3 2.1 13 120-132 110-122 (146)
131 PRK05978 hypothetical protein; 23.0 59 0.0013 25.1 1.8 14 167-182 52-65 (148)
132 PF14803 Nudix_N_2: Nudix N-te 23.0 35 0.00075 19.5 0.4 14 169-184 2-15 (34)
133 KOG2960|consensus 23.0 36 0.00077 28.5 0.6 25 2-26 70-95 (328)
134 TIGR02321 Pphn_pyruv_hyd phosp 22.1 30 0.00064 29.7 -0.0 18 12-29 38-55 (290)
135 PF04606 Ogr_Delta: Ogr/Delta- 21.7 50 0.0011 20.0 1.0 10 169-180 1-10 (47)
136 PLN02294 cytochrome c oxidase 21.6 2E+02 0.0043 22.9 4.5 56 111-189 106-161 (174)
137 TIGR00595 priA primosomal prot 21.6 57 0.0012 30.1 1.7 24 118-179 209-232 (505)
138 cd05568 PTS_IIB_bgl_like PTS_I 21.2 42 0.00091 22.2 0.6 14 11-24 2-15 (85)
139 COG4161 ArtP ABC-type arginine 21.0 48 0.001 26.6 1.0 12 178-189 157-168 (242)
140 PF04810 zf-Sec23_Sec24: Sec23 20.9 57 0.0012 19.1 1.1 18 167-186 2-19 (40)
141 COG1933 Archaeal DNA polymeras 20.5 53 0.0011 27.5 1.1 34 70-103 71-108 (253)
No 1
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=100.00 E-value=6.1e-56 Score=367.85 Aligned_cols=167 Identities=44% Similarity=0.771 Sum_probs=150.5
Q ss_pred cccccCCcEEEEECCcccccCCCCCCCCCccccc-cCCcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHH
Q psy14105 4 SVGKWYKNVSQEIAIGISAESGIPTFRGDGGWWR-NNHVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALAR 82 (198)
Q Consensus 4 ~~~~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~-~~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~ 82 (198)
..+++|++|||+|||||||+|||||||+.+|+|. +++++++++++.|..||+.||.||.+++.....++||++|++|++
T Consensus 7 ~~l~~a~~ivvltGAGiSa~sGIpdFR~~~Gl~~~~~~p~~l~s~~~f~~~p~~~~~f~~~~~~~~~~a~Pn~~H~~la~ 86 (250)
T COG0846 7 QALKEAKRIVVLTGAGISAESGIPDFRSKDGLWSDKYDPEDLASPSGFRRDPELVWDFYSERLRLLYLAQPNKAHYALAE 86 (250)
T ss_pred HHHHhcCcEEEEeCCccccccCCCcccCCCCCCCCCCCHHHHhCHHHHhhCHHHHHHHHHHHHHhhhcCCCCHHHHHHHH
Confidence 3567899999999999999999999999999999 999999999999999999999999999888878999999999999
Q ss_pred HHHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccc
Q psy14105 83 FEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEI 162 (198)
Q Consensus 83 L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (198)
|++. |++++||||||||||++||+++|+||||++.+++|++|+..++..+. ....
T Consensus 87 le~~----~~~~~iiTQNiD~Lhe~AGs~~Vi~lHGsl~~~~C~~C~~~~~~~~~---------------------~~~~ 141 (250)
T COG0846 87 LEDK----GKLLRIITQNIDGLHERAGSKNVIELHGSLKRVRCSKCGNQYYDEDV---------------------IKFI 141 (250)
T ss_pred Hhhc----CCceEEEecccchHHHHcCCCcEEEeccceeeeEeCCCcCccchhhh---------------------hhhc
Confidence 9998 99999999999999999999999999999999999999987653210 0112
Q ss_pred cCCCCCCCCCCCCCC-eeccceEEcCCCCChHHHhh
Q psy14105 163 NVNDLPRCSDKACGG-LLRPDIVWFGEQLNPQYVKM 197 (198)
Q Consensus 163 ~~~~~P~C~~~~Cgg-~lrP~vv~fgE~l~~~~~~~ 197 (198)
....+|+|| .||+ .|||+||||||++|.+.++.
T Consensus 142 ~~~~~p~C~--~Cg~~~lrP~VV~fGE~lp~~~~~~ 175 (250)
T COG0846 142 EDGLIPRCP--KCGGPVLRPDVVWFGEPLPASFLDE 175 (250)
T ss_pred ccCCCCcCc--cCCCccccCCEEEeCCCCCHHHHHH
Confidence 223689999 9999 99999999999999987664
No 2
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=100.00 E-value=2.5e-54 Score=354.82 Aligned_cols=165 Identities=39% Similarity=0.693 Sum_probs=148.4
Q ss_pred cccCCcEEEEECCcccccCCCCCCCCCccccccCCcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHHHHH
Q psy14105 6 GKWYKNVSQEIAIGISAESGIPTFRGDGGWWRNNHVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALARFEE 85 (198)
Q Consensus 6 ~~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~L~~ 85 (198)
+++|++|||+||||||++|||||||+++|+|+++.+.++++..+|..+|+.+|+||..++..+.+++||.+|++|++|++
T Consensus 1 l~~a~~ivv~tGAGiS~~sGIp~FR~~~glw~~~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~a~Pn~~H~~La~L~~ 80 (222)
T cd01413 1 LTKSRKTVVLTGAGISTESGIPDFRSPDGLWKKYDPEEVASIDYFYRNPEEFWRFYKEIILGLLEAQPNKAHYFLAELEK 80 (222)
T ss_pred CCCCCeEEEEECchhhhhhCCCCccCcCCCcCCCCHHHhccHHHHhHCHHHHHHHHHHHhcccCCCCCCHHHHHHHHHHh
Confidence 36789999999999999999999999999999999999999999999999999999998876779999999999999998
Q ss_pred HHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCC
Q psy14105 86 ECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVN 165 (198)
Q Consensus 86 ~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 165 (198)
. |++.+||||||||||++||.++|+|+||++.+++|++|++.++.... ......
T Consensus 81 ~----~~~~~viTQNiDgLh~~AG~~~v~elHG~l~~~~C~~C~~~~~~~~~----------------------~~~~~~ 134 (222)
T cd01413 81 Q----GIIKAIITQNIDGLHQRAGSKNVIELHGTLQTAYCVNCGSKYDLEEV----------------------KYAKKH 134 (222)
T ss_pred c----CCCeEEEEeccchhhHHcCCCcEEEccCCcCcceECCCCCCcchhHH----------------------HHhccC
Confidence 7 89999999999999999999999999999999999999987653210 011224
Q ss_pred CCCCCCCCCCCCeeccceEEcCCCCChHHHhhC
Q psy14105 166 DLPRCSDKACGGLLRPDIVWFGEQLNPQYVKMA 198 (198)
Q Consensus 166 ~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~a 198 (198)
.+|+|| .|||.|||+||||||++|++.+++|
T Consensus 135 ~~p~C~--~Cgg~lrP~Vv~fgE~lp~~~~~~a 165 (222)
T cd01413 135 EVPRCP--KCGGIIRPDVVLFGEPLPQALLREA 165 (222)
T ss_pred CCCcCC--CCCCccCCCEEECCCCCCHHHHHHH
Confidence 579999 9999999999999999999877654
No 3
>cd01409 SIRT4 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=100.00 E-value=1.5e-52 Score=351.50 Aligned_cols=182 Identities=34% Similarity=0.542 Sum_probs=143.1
Q ss_pred ccccCCcEEEEECCcccccCCCCCCCCCcccccc-CCcccccChHhhhhChHHHHHHHHHHHH---HhccCCCCHHHHHH
Q psy14105 5 VGKWYKNVSQEIAIGISAESGIPTFRGDGGWWRN-NHVAHIANIESFKENPGRVWAFYNYRRQ---QAASKAPNKAHYAL 80 (198)
Q Consensus 5 ~~~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~~-~~~~~~~~~~~f~~~p~~~w~~~~~~~~---~~~~~~Pn~~H~~L 80 (198)
.++++++|||+||||||++||||||||++|+|++ +.+ ++.+.|..+|+.+|.||..+.. .+.+++||.+|++|
T Consensus 4 ~l~~sk~ivvlTGAGiSt~SGIPdFR~~~Glw~~~~~~---~~~~~f~~~p~~~~~~~~~~~~~~~~~~~~~Pn~~H~~l 80 (260)
T cd01409 4 FVARSRRLLVLTGAGISTESGIPDYRSEGGLYSRTFRP---MTHQEFMRSPAARQRYWARSFVGWPRFSAAQPNAAHRAL 80 (260)
T ss_pred HHhcCCCEEEEeCceeehhhCCCCCCCcCCcccCCCCC---CCHHHHHhCcHHHHHHHHHHHhhhhhhccCCCCHHHHHH
Confidence 4578999999999999999999999999999998 554 5678999999999988876543 35689999999999
Q ss_pred HHHHHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccC--------Cccchh-hcccCCCC
Q psy14105 81 ARFEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKI--------PIVPVL-DEAICNPN 151 (198)
Q Consensus 81 ~~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~--------~~~~~~-~~~~~~~~ 151 (198)
++|++. |++.+||||||||||++||+++|+|||||+.+++|+.|++.++.... |.+... ....|+++
T Consensus 81 a~L~~~----g~~~~viTQNIDgLh~~aG~~~vielHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 156 (260)
T cd01409 81 AALEAA----GRLHGLITQNVDGLHTKAGSRNVVELHGSLHRVVCLSCGFRTPRAELQDRLEALNPGFAEQAAGQAPDGD 156 (260)
T ss_pred HHHHHc----CCCeeEEeeccchhHHHcCCCCEEEEeeecCEEEeCCCcCccCHHHHHHHHhhcCcchhhhhcccCCCcc
Confidence 999998 99999999999999999999999999999999999999987652210 000000 00112222
Q ss_pred CCCCCCccccccCCCCCCCCCCCCCCeeccceEEcCCCCChHHHhhC
Q psy14105 152 ASDVWYSDEEINVNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVKMA 198 (198)
Q Consensus 152 ~~~~~~~~~~~~~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~a 198 (198)
... .........+|+|| .|||+|||+||||||+||.+.+++|
T Consensus 157 ~~~---~~~~~~~~~~p~C~--~Cgg~lrP~VV~FGE~lp~~~~~~a 198 (260)
T cd01409 157 VDL---EDEQVAGFRVPECE--RCGGVLKPDVVFFGENVPRDRVVTA 198 (260)
T ss_pred ccc---chhhcccCCCCCCC--CCCCEECCCEEECCCCCCHHHHHHH
Confidence 100 01112233579999 9999999999999999999877654
No 4
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=100.00 E-value=6.4e-53 Score=350.82 Aligned_cols=167 Identities=35% Similarity=0.573 Sum_probs=147.0
Q ss_pred cccccCCcEEEEECCcccccCCCCCCCCCccccccCCcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHHH
Q psy14105 4 SVGKWYKNVSQEIAIGISAESGIPTFRGDGGWWRNNHVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALARF 83 (198)
Q Consensus 4 ~~~~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~L 83 (198)
..+++|++|||+||||||++|||||||+++|+|+++ ++++++.++|..+|+.+|+||..++..+.+++||.+|++|++|
T Consensus 6 ~~l~~a~~ivv~tGAGiS~~SGIp~fR~~~gl~~~~-~~~~~~~~~~~~~p~~~w~~~~~~~~~~~~~~Pn~~H~ala~L 84 (244)
T PRK14138 6 ELLNESRLTVTLTGAGISTPSGIPDFRGPQGIYKKY-PQNVFDIDFFYSHPEEFYRFAKEGIFPMLEAKPNLAHVLLAKL 84 (244)
T ss_pred HHHHhCCCEEEEECcccchhhCCCCcCCCCCCccCC-cccccCHHHHHhCHHHHHHHHHHhhcccccCCCCHHHHHHHHH
Confidence 346789999999999999999999999999999986 4788999999999999999998877666689999999999999
Q ss_pred HHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCcccccc
Q psy14105 84 EEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEIN 163 (198)
Q Consensus 84 ~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (198)
++. |+..+||||||||||++||.++|+|+||++.+++|++|++.++..+. ...+.
T Consensus 85 ~~~----g~~~~viTQNIDgLh~~aG~~~VielHG~~~~~~C~~C~~~~~~~~~---------------------~~~~~ 139 (244)
T PRK14138 85 EEK----GLIEAVITQNIDRLHQKAGSKKVIELHGNVEEYYCVRCGKRYTVEDV---------------------IEKLE 139 (244)
T ss_pred HHc----CCceEEEeecccChhhHcCCCeEEEccCCcCeeEECCCCCcccHHHH---------------------HHHHh
Confidence 998 99999999999999999999999999999999999999987653210 01122
Q ss_pred CCCCCCCCCCCCCCeeccceEEcCCCCChHHHhhC
Q psy14105 164 VNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVKMA 198 (198)
Q Consensus 164 ~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~a 198 (198)
...+|+|| .|||.|||+||||||.+|++.+++|
T Consensus 140 ~~~~p~Cp--~Cgg~lrP~Vv~FgE~~p~~~~~~~ 172 (244)
T PRK14138 140 KSDVPRCD--DCSGLIRPNIVFFGEALPQDALREA 172 (244)
T ss_pred cCCCCCCC--CCCCeECCCEEECCCcCCHHHHHHH
Confidence 34589999 9999999999999999999887753
No 5
>PTZ00409 Sir2 (Silent Information Regulator) protein; Provisional
Probab=100.00 E-value=6.5e-53 Score=354.86 Aligned_cols=169 Identities=30% Similarity=0.527 Sum_probs=144.0
Q ss_pred ccccCCcEEEEECCcccccCCCCCCCCC-ccccccCCcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHHH
Q psy14105 5 VGKWYKNVSQEIAIGISAESGIPTFRGD-GGWWRNNHVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALARF 83 (198)
Q Consensus 5 ~~~~a~~ivi~tGAGiS~~sGiPdfr~~-~g~~~~~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~L 83 (198)
.++.+++|||+||||||++||||||||+ +|+|.+++++.++++..|..+|+.+|+||..+. ...+++||.+|++|++|
T Consensus 24 ~l~~s~~ivvlTGAGiSteSGIPdFR~~~~Glw~~~~~~~~~t~~~f~~~p~~~~~~~~~~~-~~~~a~PN~~H~aLa~L 102 (271)
T PTZ00409 24 MIRKCKYVVALTGSGTSAESNIPSFRGPSSSIWSKYDPKIYGTIWGFWKYPEKIWEVIRDIS-SDYEIELNPGHVALSTL 102 (271)
T ss_pred HHHhCCcEEEEECCeechhhCCCcccCCCCccccCCCHHHhccHHHHHHChHHHHHHHHHhh-hcccCCCCHHHHHHHHH
Confidence 4578899999999999999999999998 699999999999999999999999999998755 34578999999999999
Q ss_pred HHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCcccccc
Q psy14105 84 EEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEIN 163 (198)
Q Consensus 84 ~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (198)
++. |++.+||||||||||++||+++|+||||++.+++|++|+..+...+ .+.. ......
T Consensus 103 e~~----g~~~~vITQNIDgLh~rAGs~~V~ElHG~l~~~~C~~C~~~~~~~~-----~~~~------------~~~~~~ 161 (271)
T PTZ00409 103 ESL----GYLKFVVTQNVDGLHEESGNTKVIPLHGSVFEARCCTCRKTIQLNK-----IMLQ------------KTSHFM 161 (271)
T ss_pred Hhc----CCCcEEEeccccchHhHcCCCcEEEeccCcCcceeCCCCCCcccCH-----HHHh------------hhhhhc
Confidence 998 9999999999999999999999999999999999999998654221 0000 000111
Q ss_pred CCCCCCCCCCCCCCeeccceEEcCCCCChHHHhhC
Q psy14105 164 VNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVKMA 198 (198)
Q Consensus 164 ~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~a 198 (198)
...+|+|+ |||+|||+||||||++|++.+++|
T Consensus 162 ~~~~P~C~---Cgg~lrP~VV~FGE~lp~~~~~~a 193 (271)
T PTZ00409 162 HQLPPECP---CGGIFKPNVILFGEVIPKSLLKQA 193 (271)
T ss_pred cCCCCCCC---CCCcccCcEEEeCCcCCHHHHHHH
Confidence 22369998 999999999999999999887654
No 6
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=100.00 E-value=4e-52 Score=345.82 Aligned_cols=163 Identities=44% Similarity=0.758 Sum_probs=147.3
Q ss_pred cccccCCcEEEEECCcccccCCCCCCCCCccccccCCcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHHH
Q psy14105 4 SVGKWYKNVSQEIAIGISAESGIPTFRGDGGWWRNNHVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALARF 83 (198)
Q Consensus 4 ~~~~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~L 83 (198)
..++++++|||+||||||++|||||||+.+|+|+++.++++++..+|.++|+.+|+||..++..+.+++||++|++|++|
T Consensus 8 ~~i~~~~~ivi~tGAGiS~~sGip~FR~~~gl~~~~~~~~~~~~~~~~~~p~~~w~f~~~~~~~~~~~~Pn~~H~~L~~L 87 (242)
T PRK00481 8 EILDKAKRIVVLTGAGISAESGIPDFRSANGLWEEHRPEDVASPEGFARDPELVWKFYNERRRQLLDAKPNAAHRALAEL 87 (242)
T ss_pred HHHHhCCCEEEEeCCccccccCCCCccCCCcCccCCCHHHhccHHHHhhCHHHHHHHHHHHHHHhccCCCCHHHHHHHHH
Confidence 34678999999999999999999999999999999999999999999999999999999988777799999999999999
Q ss_pred HHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCcccccc
Q psy14105 84 EEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEIN 163 (198)
Q Consensus 84 ~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (198)
++. |++++||||||||||++||.++|+|+||++.+++|++|++.+.... .+
T Consensus 88 ~~~----~~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~------------------------~~- 138 (242)
T PRK00481 88 EKL----GKLVTVITQNIDGLHERAGSKNVIELHGSLLRARCTKCGQTYDLDE------------------------YL- 138 (242)
T ss_pred Hhc----CCCeEEEEeccchhHHHcCCCceeeccCCcCceeeCCCCCCcChhh------------------------hc-
Confidence 987 9999999999999999999999999999999999999988764321 01
Q ss_pred CCCCCCCCCCCCCCeeccceEEcCCCCChHHHhh
Q psy14105 164 VNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVKM 197 (198)
Q Consensus 164 ~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~ 197 (198)
...+|+|| .|||.|||+||||||.+|+..+++
T Consensus 139 ~~~~p~C~--~Cgg~lrP~Vv~fge~~~~~~~~~ 170 (242)
T PRK00481 139 KPEPPRCP--KCGGILRPDVVLFGEMLPELAIDE 170 (242)
T ss_pred cCCCCCCC--CCCCccCCCeEECCCCCCHHHHHH
Confidence 12378899 999999999999999999887654
No 7
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=100.00 E-value=5e-52 Score=340.34 Aligned_cols=160 Identities=46% Similarity=0.827 Sum_probs=142.8
Q ss_pred CcEEEEECCcccccCCCCCCCCCccccccCCccccc-ChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHh
Q psy14105 10 KNVSQEIAIGISAESGIPTFRGDGGWWRNNHVAHIA-NIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALARFEEECI 88 (198)
Q Consensus 10 ~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~~~~~~~-~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~L~~~~~ 88 (198)
++|||+||||||++|||||||+++|+|+++.+..+. +.++|.++|+.+|+||..++. ..+++||.+|++|++|++.
T Consensus 1 k~ivv~tGAGiS~~sGIpdfR~~~G~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~-~~~~~Pn~~H~~L~~L~~~-- 77 (218)
T cd01407 1 KRIVVLTGAGISTESGIPDFRSPGGLWARLDPEELAFSPEAFRRDPELFWGFYRERRY-PLNAQPNPAHRALAELERK-- 77 (218)
T ss_pred CcEEEEeCCccccccCCCcccCCCCccccCChhhccCCHHHHHHCHHHHHHHHHHhhh-hccCCCCHHHHHHHHHHhc--
Confidence 589999999999999999999999999999888886 999999999999999999887 7799999999999999988
Q ss_pred hCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCC
Q psy14105 89 RQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLP 168 (198)
Q Consensus 89 ~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P 168 (198)
|++.+||||||||||++||.++|+|+||++..++|+.|++.+.... + ...+....+|
T Consensus 78 --~~~~~viTQNiDgL~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~------~---------------~~~~~~~~~p 134 (218)
T cd01407 78 --GKLKRVITQNVDGLHQRAGSPKVIELHGSLFRVRCTKCGKEYPRDE------L---------------QADIDREEVP 134 (218)
T ss_pred --CCCeeEEEeccchhHHHcCCCCEEECcCCcCcceeCCCcCCCcHHH------H---------------hHhhccCCCC
Confidence 8999999999999999999999999999999999999998754211 0 0123345689
Q ss_pred CCCCCCCCCeeccceEEcCCCCChHHHhhC
Q psy14105 169 RCSDKACGGLLRPDIVWFGEQLNPQYVKMA 198 (198)
Q Consensus 169 ~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~a 198 (198)
+|| .|||.|||+||||||++|+. +++|
T Consensus 135 ~C~--~Cg~~lrP~Vv~fgE~~p~~-~~~a 161 (218)
T cd01407 135 RCP--KCGGLLRPDVVFFGESLPEE-LDEA 161 (218)
T ss_pred cCC--CCCCccCCCeEECCCCCcHH-HHHH
Confidence 999 99999999999999999987 6553
No 8
>cd01408 SIRT1 SIRT1: Eukaryotic group (class1) which includes human sirtuins SIRT1-3 and yeast Hst1-4; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The nuclear SIRT1 has been shown to target the p53 tumor suppressor protein for deacetylation to suppress DNA damage, and the cytoplasmic SIRT2 homolog has been shown to target alpha-tubulin for deacetylation for the maintenance of cell integrity.
Probab=100.00 E-value=3.9e-52 Score=344.45 Aligned_cols=159 Identities=32% Similarity=0.607 Sum_probs=136.9
Q ss_pred CcEEEEECCcccccCCCCCCCCCc-cccccC------CcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHH
Q psy14105 10 KNVSQEIAIGISAESGIPTFRGDG-GWWRNN------HVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALAR 82 (198)
Q Consensus 10 ~~ivi~tGAGiS~~sGiPdfr~~~-g~~~~~------~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~ 82 (198)
|+|||+||||||++||||||||++ |+|++. .+++++++++|.++|+.||.|+..+.. .+++||.+|++|++
T Consensus 1 k~ivvlTGAGiS~~SGIPdfR~~~~G~w~~~~~~~~~~~~~~~~~~~f~~~p~~~~~~~~~~~~--~~a~Pn~~H~~la~ 78 (235)
T cd01408 1 KKIVVLVGAGISTSAGIPDFRSPGTGLYANLARYNLPYPEAMFDISYFRKNPRPFYALAKELYP--GQFKPSVAHYFIKL 78 (235)
T ss_pred CcEEEEeCCccccccCCCCcCCCCCCcchhhhhccCCCHHHhcCHHHHHHChHHHHHHHHHHhc--CcCCCCHHHHHHHH
Confidence 579999999999999999999999 999873 457889999999999999998877542 58999999999999
Q ss_pred HHHHHhhCCCceEEEeccccchHhHhCCC--CccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccc
Q psy14105 83 FEEECIRQNKSFVLFTQNVDGYHQAAGSR--NVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDE 160 (198)
Q Consensus 83 L~~~~~~~g~~~~viTqNiD~L~~~aG~~--~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (198)
|++. |++.+||||||||||+|||.+ +|+||||++.+++|++|++.++.. .+ ..
T Consensus 79 L~~~----g~~~~viTQNiD~Lh~raG~~~~~V~elHG~l~~~~C~~C~~~~~~~------~~---------------~~ 133 (235)
T cd01408 79 LEDK----GLLLRNYTQNIDTLERVAGVPDDRIIEAHGSFATAHCIKCKHKYPGD------WM---------------RE 133 (235)
T ss_pred HHhc----CCceEEEEeccchHHHHcCCCccCEEEeCcCCCccccccCCCcCCHH------HH---------------HH
Confidence 9988 899999999999999999964 999999999999999999875431 11 11
Q ss_pred cccCCCCCCCCCCCCCCeeccceEEcCCCCChHHHhh
Q psy14105 161 EINVNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVKM 197 (198)
Q Consensus 161 ~~~~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~ 197 (198)
.+....+|+|| .|||.|||+||||||.+|++.+++
T Consensus 134 ~~~~~~~p~C~--~Cgg~lrP~Vv~FGE~lp~~~~~~ 168 (235)
T cd01408 134 DIFNQEVPKCP--RCGGLVKPDIVFFGESLPSRFFSH 168 (235)
T ss_pred HHhCCCCccCC--CCCCCccCcEEECCCCCCHHHHHH
Confidence 22233479999 999999999999999999976554
No 9
>cd01412 SIRT5_Af1_CobB SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. CobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase at an active site lysine to stimulate its enzymatic activity.
Probab=100.00 E-value=1.1e-51 Score=339.52 Aligned_cols=157 Identities=53% Similarity=0.908 Sum_probs=142.2
Q ss_pred CcEEEEECCcccccCCCCCCCCCccccccCCcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHhh
Q psy14105 10 KNVSQEIAIGISAESGIPTFRGDGGWWRNNHVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALARFEEECIR 89 (198)
Q Consensus 10 ~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~L~~~~~~ 89 (198)
++|||+||||||++|||||||+.+|+|+++.+++++++.+|.++|+.+|+||..++..+.+++||.+|++|++|++.
T Consensus 1 ~~ivi~tGAGiS~~sGIp~fR~~~g~~~~~~~~~~~~~~~f~~~p~~~w~f~~~~~~~~~~~~Pn~~H~~L~~L~~~--- 77 (224)
T cd01412 1 RRVVVLTGAGISAESGIPTFRDADGLWARFDPEELATPEAFARDPELVWEFYNWRRRKALRAQPNPAHLALAELERR--- 77 (224)
T ss_pred CcEEEEeCCccchhhCCCCccCcCCCcCCCChhhcCCHHHHHHCHHHHHHHHHHHHHHccccCCCHHHHHHHHHHhc---
Confidence 57999999999999999999999999999999999999999999999999999888777889999999999999988
Q ss_pred CCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCC
Q psy14105 90 QNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPR 169 (198)
Q Consensus 90 ~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~ 169 (198)
+++++||||||||||++||+++|+|+||++..++|+.|++.+... ..+....+|+
T Consensus 78 -~~~~~viTqNiDgL~~~aG~~~v~e~HG~~~~~~C~~C~~~~~~~------------------------~~~~~~~~p~ 132 (224)
T cd01412 78 -LPNVLLITQNVDGLHERAGSRNVIELHGSLFRVRCSSCGYVGENN------------------------EEIPEEELPR 132 (224)
T ss_pred -CCCeEEEEccchHhhHHhCCCceEeeCCCcCccccCCCCCCCCcc------------------------hhhhccCCCC
Confidence 779999999999999999999999999999999999999875421 1122345899
Q ss_pred CCCCCCCCeeccceEEcCCCCChHHHhh
Q psy14105 170 CSDKACGGLLRPDIVWFGEQLNPQYVKM 197 (198)
Q Consensus 170 C~~~~Cgg~lrP~vv~fgE~l~~~~~~~ 197 (198)
|| .|||.|||+||||||.+|. .+++
T Consensus 133 C~--~Cgg~lrp~Vv~fge~~p~-~~~~ 157 (224)
T cd01412 133 CP--KCGGLLRPGVVWFGESLPL-ALLE 157 (224)
T ss_pred CC--CCCCccCCceEECCCCCHH-HHHH
Confidence 99 9999999999999999998 5544
No 10
>cd01411 SIR2H SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=100.00 E-value=1.3e-51 Score=339.31 Aligned_cols=159 Identities=32% Similarity=0.550 Sum_probs=141.6
Q ss_pred ccccCCcEEEEECCcccccCCCCCCCCCcccccc---CCcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHH
Q psy14105 5 VGKWYKNVSQEIAIGISAESGIPTFRGDGGWWRN---NHVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALA 81 (198)
Q Consensus 5 ~~~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~~---~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~ 81 (198)
.+++|++|||+||||||++|||||||+++|+|++ +.++++++.++|..+|+.+|+||..+. .+.+++||.+|++|+
T Consensus 4 ~i~~a~~ivv~tGAGiS~~sGIpdfR~~~G~w~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~-~~~~~~Pn~~H~~La 82 (225)
T cd01411 4 ILKNAKRIVFFTGAGVSTASGIPDYRSKNGLYNEIYKYSPEYLLSHDFLEREPEKFYQFVKENL-YFPDAKPNIIHQKMA 82 (225)
T ss_pred HHhhCCCEEEEECCccccccCCCCccCCCcCccCcCCCChHHeecHHHHHHCHHHHHHHHHHHh-hCCCCCCCHHHHHHH
Confidence 4578999999999999999999999999999988 578899999999999999999998754 356899999999999
Q ss_pred HHHHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCcccc
Q psy14105 82 RFEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEE 161 (198)
Q Consensus 82 ~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (198)
+|++. + +.+||||||||||++||.++|+|+||++.+++|++|+..+++.+
T Consensus 83 ~L~~~----~-~~~viTQNvD~Lh~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~------------------------- 132 (225)
T cd01411 83 ELEKM----G-LKAVITQNIDGLHQKAGSKNVVEFHGSLYRIYCTVCGKTVDWEE------------------------- 132 (225)
T ss_pred HHHHc----C-CcEEEEeccchhhhhcCCCcEEEeCCCcCeeEeCCCCCccchhh-------------------------
Confidence 99987 6 89999999999999999999999999999999999987654310
Q ss_pred ccCCCCCCCCCCCCCCeeccceEEcCCCCChHHHhhC
Q psy14105 162 INVNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVKMA 198 (198)
Q Consensus 162 ~~~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~a 198 (198)
...+|+|| .|||+|||+||||||++|.+.+++|
T Consensus 133 --~~~~p~C~--~Cgg~lrP~vv~fge~~~~~~~~~~ 165 (225)
T cd01411 133 --YLKSPYHA--KCGGVIRPDIVLYEEMLNESVIEEA 165 (225)
T ss_pred --cCCCCCCC--CCCCEeCCCEEEcCCCCCHHHHHHH
Confidence 01369999 9999999999999999999877653
No 11
>PTZ00408 NAD-dependent deacetylase; Provisional
Probab=100.00 E-value=2.4e-51 Score=340.59 Aligned_cols=162 Identities=42% Similarity=0.734 Sum_probs=142.0
Q ss_pred ccCCcEEEEECCcccccCCCCCCCCCccccccCCcccccChHhhhhChHHHHHHHHHHHHHh--ccCCCCHHHHHHHHHH
Q psy14105 7 KWYKNVSQEIAIGISAESGIPTFRGDGGWWRNNHVAHIANIESFKENPGRVWAFYNYRRQQA--ASKAPNKAHYALARFE 84 (198)
Q Consensus 7 ~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~--~~~~Pn~~H~~L~~L~ 84 (198)
+.+++|||+||||||++|||||||+.+|+|+++.++++.++++|..+|+.+|+||..++..+ .+++||.+|++|++|+
T Consensus 2 ~~~~~ivvlTGAGiS~~SGIPdFR~~~Glw~~~~~~~~~~~~~f~~~p~~~~~f~~~~~~~~~~~~~~Pn~~H~~L~~Le 81 (242)
T PTZ00408 2 KACRCITILTGAGISAESGISTFRDGNGLWENHRVEDVATPDAFLRNPALVQRFYNERRRALLSSSVKPNKAHFALAKLE 81 (242)
T ss_pred CCCCeEEEEeCcchhhhhCCCcccCCCCCCCCCChhhcCCHHHHHhCHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHH
Confidence 46899999999999999999999999999999999999999999999999999999876543 5889999999999999
Q ss_pred HHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccC
Q psy14105 85 EECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINV 164 (198)
Q Consensus 85 ~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 164 (198)
+.+ .|+.++||||||||||++||.++|+|+||++++++|++|++.++... .+.
T Consensus 82 ~~~--~~~~~~iiTQNiDgLh~~AG~~~v~elHG~~~~~~C~~C~~~~~~~~------------------------~~~- 134 (242)
T PTZ00408 82 REY--RGGKVVVVTQNVDNLHERAGSTHVLHMHGELLKVRCTATGHVFDWTE------------------------DVV- 134 (242)
T ss_pred Hhh--cCCcEEEEeecccchhhHcCCCcEEEecCccceEEECCCCcccCchh------------------------hhh-
Confidence 752 16789999999999999999999999999999999999998654210 111
Q ss_pred CCCCCCCCCCCC--CeeccceEEcCC-CCChHHHhh
Q psy14105 165 NDLPRCSDKACG--GLLRPDIVWFGE-QLNPQYVKM 197 (198)
Q Consensus 165 ~~~P~C~~~~Cg--g~lrP~vv~fgE-~l~~~~~~~ 197 (198)
..+|+|| .|| |.|||+|||||| .+|.+.+++
T Consensus 135 ~~~p~C~--~Cg~~g~lrP~vV~FGE~~~~~~~~~~ 168 (242)
T PTZ00408 135 HGSSRCK--CCGCVGTLRPHIVWFGEMPLYMDEIES 168 (242)
T ss_pred cCCCccc--cCCCCCCCCCCEEEcCCCCCcHHHHHH
Confidence 2369999 898 999999999999 888877765
No 12
>PRK05333 NAD-dependent deacetylase; Provisional
Probab=100.00 E-value=5.9e-50 Score=339.90 Aligned_cols=182 Identities=32% Similarity=0.504 Sum_probs=138.5
Q ss_pred ccccCCcEEEEECCcccccCCCCCCCCCccccccCCcccccChHhhhhChHHHHHHHHHHHH---HhccCCCCHHHHHHH
Q psy14105 5 VGKWYKNVSQEIAIGISAESGIPTFRGDGGWWRNNHVAHIANIESFKENPGRVWAFYNYRRQ---QAASKAPNKAHYALA 81 (198)
Q Consensus 5 ~~~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~~~~~~~~~~~f~~~p~~~w~~~~~~~~---~~~~~~Pn~~H~~L~ 81 (198)
.++++++|||+||||||++||||||||++|+|.++.+. +...|..+|...|.||..... .+.+++||.+|++|+
T Consensus 15 ~i~~~~~ivvlTGAGiS~~SGIPdFR~~~G~w~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Pn~~H~aLa 91 (285)
T PRK05333 15 FVERHPRLFVLTGAGISTDSGIPDYRDRNGQWKRSPPI---TYQAFMGSDAARRRYWARSMVGWPVFGRAQPNAAHHALA 91 (285)
T ss_pred HHHhCCcEEEEeCCccccccCCCcccCCCCccccCCcc---cHHHHhcCchhhHHHHHHHHhhchhcccCCCCHHHHHHH
Confidence 45789999999999999999999999999999987663 445666667666666654432 456889999999999
Q ss_pred HHHHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCccccccc--------CCccchh-hcccCCCCC
Q psy14105 82 RFEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRK--------IPIVPVL-DEAICNPNA 152 (198)
Q Consensus 82 ~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~--------~~~~~~~-~~~~~~~~~ 152 (198)
+|++. |++++||||||||||++||.++|+|+||++..++|++|++.+.... .+.++.+ .+..|+.++
T Consensus 92 ~L~~~----g~~~~viTQNIDgLh~rAG~~~ViElHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 167 (285)
T PRK05333 92 RLGAA----GRIERLVTQNVDGLHQRAGSRDVIELHGRLDGVRCMGCGARHPRAEIQHVLEAANPEWLALEAAPAPDGDA 167 (285)
T ss_pred HHHHc----CCcccEEecccchhHHHcCCCCEEeecCCcCEEEECCCCCcCCHHHHHHHHhhcCcchhhhhcccCCCccc
Confidence 99998 9999999999999999999999999999999999999997654211 1111111 111122221
Q ss_pred CCCCCccccccCCCCCCCCCCCCCCeeccceEEcCCCCChHHHhhC
Q psy14105 153 SDVWYSDEEINVNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVKMA 198 (198)
Q Consensus 153 ~~~~~~~~~~~~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~a 198 (198)
.. .........+|+|| .|||.|||+||||||++|++.+++|
T Consensus 168 ~~---~~~~~~~~~iP~C~--~Cgg~lrP~Vv~FgE~lp~~~~~~a 208 (285)
T PRK05333 168 DL---EWAAFDHFRVPACP--ACGGILKPDVVFFGENVPRERVAAA 208 (285)
T ss_pred cc---cccccccCCCCCCC--CCCCcccCCEEEcCCCCCHHHHHHH
Confidence 10 00011234589999 9999999999999999999877653
No 13
>PTZ00410 NAD-dependent SIR2; Provisional
Probab=100.00 E-value=8.7e-50 Score=343.76 Aligned_cols=161 Identities=26% Similarity=0.498 Sum_probs=136.4
Q ss_pred CCcEEEEECCcccccCCCCCCCCC-ccccccC------CcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHH
Q psy14105 9 YKNVSQEIAIGISAESGIPTFRGD-GGWWRNN------HVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALA 81 (198)
Q Consensus 9 a~~ivi~tGAGiS~~sGiPdfr~~-~g~~~~~------~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~ 81 (198)
+++|||+||||||++|||||||++ +|+|.++ .++++++.+.|+++|+.||.|+......-.+++||.+|++|+
T Consensus 29 ak~IVvlTGAGISteSGIPdFRs~~~Glw~~~~~~~~~~pe~~fs~~~f~~~P~~f~~~~r~~~~~~~~a~Pn~aH~aLa 108 (349)
T PTZ00410 29 VTKILVMVGAGISVAAGIPDFRSPHTGIYAKLGKYNLNSPTDAFSLTLLREKPEVFYSIAREMDLWPGHFQPTAVHHFIR 108 (349)
T ss_pred CCCEEEEECcccccccCCCcccCcCCCcCccccccCCCCHHHHcCHHHHHHCHHHHHHHHHHhhcccCcCCCCHHHHHHH
Confidence 689999999999999999999999 5999874 467788999999999999999865432223689999999999
Q ss_pred HHHHHHhhCCCceEEEeccccchHhHhCC--CCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCcc
Q psy14105 82 RFEEECIRQNKSFVLFTQNVDGYHQAAGS--RNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSD 159 (198)
Q Consensus 82 ~L~~~~~~~g~~~~viTqNiD~L~~~aG~--~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 (198)
.|++. |++.+||||||||||++||. ++|+||||++.+++|.+|++.++... ..
T Consensus 109 ~Le~~----G~l~~vITQNIDgLh~rAG~~~~~ViElHGsl~~~~C~~C~~~~~~~~---------------------~~ 163 (349)
T PTZ00410 109 LLADE----GRLLRCCTQNIDGLERAAGVPPSLLVEAHGSFSAASCIECHTPYDIEQ---------------------AY 163 (349)
T ss_pred HHHhc----CCcceEEecchhhhHhhcCCCcccEEEeccCCCeeEeCCCCCCcchhH---------------------HH
Confidence 99988 99999999999999999995 58999999999999999997654321 00
Q ss_pred ccccCCCCCCCCCCCCCCeeccceEEcCCCCChHHHh
Q psy14105 160 EEINVNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVK 196 (198)
Q Consensus 160 ~~~~~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~ 196 (198)
..+....+|+|+ .|||+|||+||||||.+|++.++
T Consensus 164 ~~~~~~~vP~C~--~CgG~lRPdVVlFGE~lp~~~~~ 198 (349)
T PTZ00410 164 LEARSGKVPHCS--TCGGIVKPDVVFFGENLPDAFFN 198 (349)
T ss_pred HHhhcCCCCCCC--CCCCccCCcEEecCCcCCHHHHH
Confidence 112234589999 99999999999999999987553
No 14
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=100.00 E-value=1.7e-49 Score=322.65 Aligned_cols=147 Identities=33% Similarity=0.542 Sum_probs=124.7
Q ss_pred CcEEEEECCcccccCCCCCCCCCccccccCCcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHhh
Q psy14105 10 KNVSQEIAIGISAESGIPTFRGDGGWWRNNHVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALARFEEECIR 89 (198)
Q Consensus 10 ~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~L~~~~~~ 89 (198)
|+|||+||||||++|||||||+++|+|+++.+ |..+|..+|.|+ +++||.+|++|++|++.
T Consensus 1 k~ivvltGAGiS~~SGIP~fR~~~Glw~~~~~--------~~~~~~~~~~~~--------~~~Pn~~H~~La~l~~~--- 61 (206)
T cd01410 1 KHLVVFTGAGISTSAGIPDFRGPNGVWTLLPE--------DKGRRRFSWRFR--------RAEPTLTHMALVELERA--- 61 (206)
T ss_pred CcEEEEeCCcccHhhCCCcccCcCCCcccCCc--------cccChHHHhhhh--------cCCCCHHHHHHHHHHHC---
Confidence 57999999999999999999999999998654 567788888875 48999999999999987
Q ss_pred CCCceEEEeccccchHhHhCC--CCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCC
Q psy14105 90 QNKSFVLFTQNVDGYHQAAGS--RNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDL 167 (198)
Q Consensus 90 ~g~~~~viTqNiD~L~~~aG~--~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 167 (198)
|++.+||||||||||++||. ++|+|+||++.+++|++|+..+.... .. ........+
T Consensus 62 -g~~~~viTQNID~Lh~~AG~~~~~vielHG~~~~~~C~~C~~~~~~~~-----~~---------------~~~~~~~~~ 120 (206)
T cd01410 62 -GLLKFVISQNVDGLHLRSGLPREKLSELHGNMFIEVCKSCGPEYVRDD-----VV---------------ETRGDKETG 120 (206)
T ss_pred -CCCceEEecCccchHhHcCcCcccEEEecCCcCcccCCCCCCccchHH-----HH---------------HHhhcCCCC
Confidence 89999999999999999996 68999999999999999998654221 00 011123357
Q ss_pred CCCCCCCCCCeeccceEEcCCCCChHHHhhC
Q psy14105 168 PRCSDKACGGLLRPDIVWFGEQLNPQYVKMA 198 (198)
Q Consensus 168 P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~a 198 (198)
|+|+ .|||+|||+||||||++|...+++|
T Consensus 121 p~C~--~Cgg~lrP~VV~FgE~lp~~~~~~a 149 (206)
T cd01410 121 RRCH--ACGGILKDTIVDFGERLPPENWMGA 149 (206)
T ss_pred CcCC--CCcCccCCcEEECCCCCCHHHHHHH
Confidence 9999 9999999999999999999877653
No 15
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=100.00 E-value=5.2e-50 Score=318.90 Aligned_cols=153 Identities=46% Similarity=0.831 Sum_probs=126.4
Q ss_pred CCcccccCCCCCCCC-CccccccCCcccccChHhhhhChHHHHH-HHHHHHHHhc-cCCCCHHHHHHHHHHHHHhhCCCc
Q psy14105 17 AIGISAESGIPTFRG-DGGWWRNNHVAHIANIESFKENPGRVWA-FYNYRRQQAA-SKAPNKAHYALARFEEECIRQNKS 93 (198)
Q Consensus 17 GAGiS~~sGiPdfr~-~~g~~~~~~~~~~~~~~~f~~~p~~~w~-~~~~~~~~~~-~~~Pn~~H~~L~~L~~~~~~~g~~ 93 (198)
|||||++|||||||+ .+|+|+++....+.+++.|..+|..+|. ||..++.... +++||.+|++|++|++. |++
T Consensus 1 GAGiS~~SGIpdfR~~~~Glw~~~~~~~l~~~~~~~~~~~~~~~~f~~~~~~~~~~~a~Pn~~H~~La~L~~~----g~~ 76 (178)
T PF02146_consen 1 GAGISTASGIPDFRSDPDGLWTKYKPEELATPEAFFSDPEFVWEKFYRFRRKVISKDAEPNPGHRALAELEKK----GKL 76 (178)
T ss_dssp -GGGGGGGT--SSSSTTSCHHHHCHHHHHSSHHHHHHHHHHHHHHHHHHHHHHCTCTS---HHHHHHHHHHHT----TSE
T ss_pred CCccchhhCCCccccCCCCcceeeeccccccccccccccchhhhHHHHHhhhhccccCCCChhHHHHHHHHHh----hhh
Confidence 899999999999999 8999999998889999999999999999 9988887764 89999999999999998 999
Q ss_pred eEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCCCCCC
Q psy14105 94 FVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPRCSDK 173 (198)
Q Consensus 94 ~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~C~~~ 173 (198)
.+||||||||||++||.++|+||||++.+++|+.|++.++.... ...+.....|+||
T Consensus 77 ~~viTQNIDgLh~~AG~~~vielHG~l~~~~C~~C~~~~~~~~~---------------------~~~~~~~~~~~C~-- 133 (178)
T PF02146_consen 77 KRVITQNIDGLHQKAGSPKVIELHGSLFRLRCSKCGKEYDREDI---------------------VDSIDEEEPPRCP-- 133 (178)
T ss_dssp EEEEES-SSSHHHHTTESCEEETTEEEEEEEETTTSBEEEGHHH---------------------HHHHHTTSSCBCT--
T ss_pred ccceecccchhhhcccchhhHHHHhhhceeeecCCCccccchhh---------------------ccccccccccccc--
Confidence 99999999999999999999999999999999999997653210 1123345578999
Q ss_pred CCCCeeccceEEcCCCCChHHHhh
Q psy14105 174 ACGGLLRPDIVWFGEQLNPQYVKM 197 (198)
Q Consensus 174 ~Cgg~lrP~vv~fgE~l~~~~~~~ 197 (198)
.||+.|||+||||||.+| +.+++
T Consensus 134 ~C~~~lrp~vv~fgE~~~-~~~~~ 156 (178)
T PF02146_consen 134 KCGGLLRPDVVLFGESLP-EEIEE 156 (178)
T ss_dssp TTSCBEEEEE--BTSB-S-HHHHH
T ss_pred ccCccCCCCeeecCCCCH-HHHHH
Confidence 999999999999999999 65554
No 16
>cd00296 SIR2 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer. Also included in this superfamily is a group of uncharacterized Sir2-like proteins which lack certain key catalytic
Probab=100.00 E-value=1e-45 Score=302.75 Aligned_cols=158 Identities=46% Similarity=0.774 Sum_probs=139.9
Q ss_pred CcEEEEECCcccccCCCCCCCCCc-cccccCCccccc-ChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHH
Q psy14105 10 KNVSQEIAIGISAESGIPTFRGDG-GWWRNNHVAHIA-NIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALARFEEEC 87 (198)
Q Consensus 10 ~~ivi~tGAGiS~~sGiPdfr~~~-g~~~~~~~~~~~-~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~L~~~~ 87 (198)
++||++||||||++|||||||+.+ |+|+++...... +.+.|..+|+.+|.|+..+.....+++||.+|++|++|++.
T Consensus 1 k~iv~~tGAGiS~~sGiP~fr~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~H~~l~~l~~~- 79 (222)
T cd00296 1 KRVVVFTGAGISTESGIPDFRGLGTGLWTRLDPEELAFSPEAFRRDPELFWLFYKERRYTPLDAKPNPAHRALAELERK- 79 (222)
T ss_pred CCEEEEeCCccccccCCCCccccccchhhcCCcccccCCHHHHHHCHHHHHHHHHHHHhhhCcCCCCHHHHHHHHHHHc-
Confidence 579999999999999999999999 999998776664 88999999999999999887767799999999999999988
Q ss_pred hhCCCceEEEeccccchHhHhCCC--CccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCC
Q psy14105 88 IRQNKSFVLFTQNVDGYHQAAGSR--NVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVN 165 (198)
Q Consensus 88 ~~~g~~~~viTqNiD~L~~~aG~~--~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 165 (198)
|++.+|||||||+||++||.+ +|+++||++...+|+.|+..++... .....
T Consensus 80 ---~~~~~iiTqNiD~L~~~ag~~~~~v~~lHG~~~~~~C~~C~~~~~~~~------------------------~~~~~ 132 (222)
T cd00296 80 ---GKLKRIITQNVDGLHERAGSRRNRVIELHGSLDRVRCTSCGKEYPRDE------------------------VLERE 132 (222)
T ss_pred ---CCCceEEecChHHHHHHhCCCcCcEEEecCCCCccEECCCCCCcchhh------------------------hhhcc
Confidence 899999999999999999986 9999999999999999997654321 11124
Q ss_pred CCCCCCCCCCCCeeccceEEcCCCCChHHHhh
Q psy14105 166 DLPRCSDKACGGLLRPDIVWFGEQLNPQYVKM 197 (198)
Q Consensus 166 ~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~ 197 (198)
..|+|| .|||.|||+|++|||.+|+..+++
T Consensus 133 ~~p~C~--~C~~~l~p~v~~fge~~~~~~~~~ 162 (222)
T cd00296 133 KPPRCP--KCGGLLRPDVVDFGEALPKEWFDR 162 (222)
T ss_pred CCCCCC--CCCCcccCceEECCCCCCHHHHHH
Confidence 589999 999999999999999999875543
No 17
>KOG2683|consensus
Probab=100.00 E-value=2.8e-46 Score=301.61 Aligned_cols=184 Identities=32% Similarity=0.523 Sum_probs=150.4
Q ss_pred ccccCCcEEEEECCcccccCCCCCCCCCc-cccccCCcccccChHhhhhCh--HHHHHHHHHHHHHhccCCCCHHHHHHH
Q psy14105 5 VGKWYKNVSQEIAIGISAESGIPTFRGDG-GWWRNNHVAHIANIESFKENP--GRVWAFYNYRRQQAASKAPNKAHYALA 81 (198)
Q Consensus 5 ~~~~a~~ivi~tGAGiS~~sGiPdfr~~~-g~~~~~~~~~~~~~~~f~~~p--~~~w~~~~~~~~~~~~~~Pn~~H~~L~ 81 (198)
.+..+++++|+||||||++|||||||+++ |+|.+.....+...++.+..+ ++||+....-|..+..++||++|++|+
T Consensus 41 li~~~~rllvlTGAGISTEsGIPDYRS~~VGlYars~~kPI~hqdf~rSs~~RqRYWaRnf~gWprFs~aqPn~~H~ALs 120 (305)
T KOG2683|consen 41 LIGTSDRLLVLTGAGISTESGIPDYRSEDVGLYARSAHKPIQHQDFVRSSRCRQRYWARNFVGWPRFSAAQPNPAHYALS 120 (305)
T ss_pred HHccCCceEEEecCcccccCCCCcccCCCccceeecCCCcchHHHHhhhhHHHHHHHHHhhcCcchhhhcCCCchhHHHH
Confidence 45678999999999999999999999998 999987666665566665554 688986666666788999999999999
Q ss_pred HHHHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCcccccccC-----Cccchhhc-------ccCC
Q psy14105 82 RFEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEENRKI-----PIVPVLDE-------AICN 149 (198)
Q Consensus 82 ~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~~~~-----~~~~~~~~-------~~~~ 149 (198)
+||+. |+..++||||||+||.|||++.|.||||+...+.|..|+...++... .+.|.+.+ .+||
T Consensus 121 ~wE~~----~r~~wliTQNVD~LH~kAGS~~~tElHG~~~~VkCl~C~y~~~R~~~Qdrl~~~NP~fke~~~~~~~~~pD 196 (305)
T KOG2683|consen 121 KWEKA----GRFQWLITQNVDRLHTKAGSRMVTELHGSAYQVKCLSCGYIEPRQTFQDRLKYLNPGFKEAIVSPGHQRPD 196 (305)
T ss_pred HHhhc----CceEEEeeccchhhhhhccccceeeeccceEEEEecccCcccchHHHHHHHHhcCcchhhhccCccccCCC
Confidence 99998 99999999999999999999999999999999999999987653221 12233332 2677
Q ss_pred CCCCCCCCccccccCCCCCCCCCCCCCCeeccceEEcCCCCChHHHhh
Q psy14105 150 PNASDVWYSDEEINVNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVKM 197 (198)
Q Consensus 150 ~~~~~~~~~~~~~~~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~ 197 (198)
+|+.. +........+|.|+ +|||.|||+|+||||.+|.+.++.
T Consensus 197 gDv~l---pl~~e~gF~IPeC~--~CgG~lKpdV~fFGdnvn~dkv~~ 239 (305)
T KOG2683|consen 197 GDVEL---PLEFEEGFQIPECE--KCGGLLKPDVTFFGDNVNKDKVTF 239 (305)
T ss_pred CCeec---chhhhhcccCCccc--ccCCccCCceEEecCCCChHHHHH
Confidence 76633 23334566799999 999999999999999999987653
No 18
>KOG2684|consensus
Probab=100.00 E-value=2.6e-42 Score=297.39 Aligned_cols=163 Identities=29% Similarity=0.547 Sum_probs=136.2
Q ss_pred cccccCCcEEEEECCcccccCCCCCCCCCccccccC------CcccccChHhhhhChHHHHHHHHHHHHHhc-cCCCCHH
Q psy14105 4 SVGKWYKNVSQEIAIGISAESGIPTFRGDGGWWRNN------HVAHIANIESFKENPGRVWAFYNYRRQQAA-SKAPNKA 76 (198)
Q Consensus 4 ~~~~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~------~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~-~~~Pn~~ 76 (198)
..++.|++|||+||||||+++|||||||.+|+|+++ ++.+||+...|+++|..|+.|... ++. ...|++.
T Consensus 83 ~~l~kaKrIvVlTGAGVSvs~GIPDFRSs~G~ys~l~~~~l~sp~~mFd~~~fr~d~~~F~~~a~~---l~~~~~~ps~~ 159 (412)
T KOG2684|consen 83 KLLKKAKRIVVLTGAGVSVSAGIPDFRSSEGIYSKLKAPDLPSPQAMFDISYFRDDPSIFYRFARE---LKPPSNNPSAF 159 (412)
T ss_pred HHHHhcCeEEEEeCCceeeecCCCCccccccHHHHhhcccCCCHHHhccchhhhcccHHHHHHHHH---hcCCccCCchH
Confidence 356889999999999999999999999999999865 457888899999999765555543 332 5559999
Q ss_pred HHHHHHHHHHHhhCCCceEEEeccccchHhHhCCCC--ccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCC
Q psy14105 77 HYALARFEEECIRQNKSFVLFTQNVDGYHQAAGSRN--VIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASD 154 (198)
Q Consensus 77 H~~L~~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~--v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (198)
|.+|+.|++. ||+.++||||||+|+++||.+. ++++|||+....|++|+...+... +
T Consensus 160 H~Fi~~L~~~----gkLlR~YTQNID~LE~~aGl~~~~lVq~HGSf~t~sCt~C~~k~~~~~------~----------- 218 (412)
T KOG2684|consen 160 HEFIKLLEKK----GKLLRNYTQNIDGLERKAGLSTNKLVQCHGSFKTASCTKCGYKKPFEE------L----------- 218 (412)
T ss_pred HHHHHHHHhc----CceeEEeecccchhhhccCCCcCceEEeccccceeeecccccccChHH------H-----------
Confidence 9999999998 9999999999999999999755 999999999999999998655321 1
Q ss_pred CCCccccccCCCCCCCCCCCCCC------------------eeccceEEcCCCCChHHHh
Q psy14105 155 VWYSDEEINVNDLPRCSDKACGG------------------LLRPDIVWFGEQLNPQYVK 196 (198)
Q Consensus 155 ~~~~~~~~~~~~~P~C~~~~Cgg------------------~lrP~vv~fgE~l~~~~~~ 196 (198)
-..+....+|.|| .|.+ .|||+||||||.+|+..+.
T Consensus 219 ----~~~~~~~~vp~CP--~C~~~~~~r~~~g~r~~~~~vgvlrP~IvffgE~lP~~~~~ 272 (412)
T KOG2684|consen 219 ----REDIRNQEVPVCP--DCEGKNEKRRGAGKRCESEGVGVLRPDIVFFGENLPDSFHI 272 (412)
T ss_pred ----HHHHhcCcCccCc--ccccccccccCccccccccCccccccceEEecCCCChHHHh
Confidence 1134455678888 8865 9999999999999998654
No 19
>KOG2682|consensus
Probab=100.00 E-value=2.7e-39 Score=261.47 Aligned_cols=162 Identities=28% Similarity=0.560 Sum_probs=138.5
Q ss_pred ccccCCcEEEEECCcccccCCCCCCCCCc-cccccCC------cccccChHhhhhChHHHHHHHHHHHHHhc-cCCCCHH
Q psy14105 5 VGKWYKNVSQEIAIGISAESGIPTFRGDG-GWWRNNH------VAHIANIESFKENPGRVWAFYNYRRQQAA-SKAPNKA 76 (198)
Q Consensus 5 ~~~~a~~ivi~tGAGiS~~sGiPdfr~~~-g~~~~~~------~~~~~~~~~f~~~p~~~w~~~~~~~~~~~-~~~Pn~~ 76 (198)
+....++|++..|||||+++||||||+++ |+|.+++ ++.+++..+|+.||+.| |....+++. +.+||.+
T Consensus 32 ks~~~~rVi~mVGAGISTsaGIPDFRSP~tGlY~NLqr~~LPYpEAiFel~yF~~nP~PF---~tLAkELyPgnfkPt~~ 108 (314)
T KOG2682|consen 32 KSERCRRVIVMVGAGISTSAGIPDFRSPGTGLYDNLQRYHLPYPEAIFELSYFKKNPEPF---FTLAKELYPGNFKPTIT 108 (314)
T ss_pred hhCCcceEEEEecCccccccCCCCCCCCCchhhhhHHHhcCCChhhhhccHHhhcCCchH---HHHHHHhCCCCcCchhH
Confidence 45667899999999999999999999997 9998754 56778889999999975 444455665 7899999
Q ss_pred HHHHHHHHHHHhhCCCceEEEeccccchHhHhCC--CCccccccccceeeeCC-CCcccccccCCccchhhcccCCCCCC
Q psy14105 77 HYALARFEEECIRQNKSFVLFTQNVDGYHQAAGS--RNVIELHGSLWRTKCSW-CDKVEENRKIPIVPVLDEAICNPNAS 153 (198)
Q Consensus 77 H~~L~~L~~~~~~~g~~~~viTqNiD~L~~~aG~--~~v~elHG~~~~~~C~~-C~~~~~~~~~~~~~~~~~~~~~~~~~ 153 (198)
|++|+-|.++ |.+.++||||||+|.+.||. +.++|.||++...+|.. |++.++...
T Consensus 109 HYflrLl~DK----~lL~r~YTQNIDtLER~aGv~d~~lvEAHGtFa~s~Ci~~C~~~yp~e~----------------- 167 (314)
T KOG2682|consen 109 HYFLRLLHDK----GLLLRCYTQNIDTLERIAGVPDEDLVEAHGTFATSHCISSCRHEYPLEW----------------- 167 (314)
T ss_pred HHHHHHHccc----cHHHHHHhccchHHHHhcCCCHHHHHHhccceeeeeehhhhcCcCCHHH-----------------
Confidence 9999999988 89999999999999999995 78999999999999995 999876321
Q ss_pred CCCCccccccCCCCCCCCCCCCCCeeccceEEcCCCCChHHHh
Q psy14105 154 DVWYSDEEINVNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVK 196 (198)
Q Consensus 154 ~~~~~~~~~~~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~ 196 (198)
....+....+|+|+ .|+|++||+||||||.||..+.+
T Consensus 168 ----~ka~i~~~~vpkC~--vC~~lVKP~IVFfGE~LP~rF~e 204 (314)
T KOG2682|consen 168 ----MKAKIMSEVVPKCE--VCQGLVKPDIVFFGESLPARFFE 204 (314)
T ss_pred ----HHHHHHhccCCCCc--hhhccccccEEEecCCccHHHHH
Confidence 12345566789999 99999999999999999998764
No 20
>KOG1905|consensus
Probab=99.96 E-value=1.2e-30 Score=216.92 Aligned_cols=157 Identities=23% Similarity=0.378 Sum_probs=116.9
Q ss_pred ccccCCcEEEEECCcccccCCCCCCCCCccccccCCcccccChHhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHHHH
Q psy14105 5 VGKWYKNVSQEIAIGISAESGIPTFRGDGGWWRNNHVAHIANIESFKENPGRVWAFYNYRRQQAASKAPNKAHYALARFE 84 (198)
Q Consensus 5 ~~~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~~~~~~~~~~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~L~ 84 (198)
..++++.+|++||||||++||||||||+.|+|.-.....- .|. ..+..+.|+.+|.+|.+|+
T Consensus 51 li~~sk~lvv~tGAGISTaa~IPDfRGp~GVWTL~~kG~~----~~~--------------~df~~ArPt~THmai~~Lh 112 (353)
T KOG1905|consen 51 LIQQSKHLVVYTGAGISTAAGIPDFRGPQGVWTLQQKGKD----KFG--------------VDFSEARPTVTHMAIVALH 112 (353)
T ss_pred HHhhCCcEEEEeCCccccccCCCCccCCCceeehhhcCcc----ccC--------------CchhhcCCcchHHHHHHHH
Confidence 4578999999999999999999999999999975432110 011 1244789999999999999
Q ss_pred HHHhhCCCceEEEeccccchHhHhCC--CCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCcccc-
Q psy14105 85 EECIRQNKSFVLFTQNVDGYHQAAGS--RNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEE- 161 (198)
Q Consensus 85 ~~~~~~g~~~~viTqNiD~L~~~aG~--~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 161 (198)
+. |.+.+|||||+||||.|+|. +++.|||||++..+|.+|...+..+..- .... .. ....
T Consensus 113 r~----gll~~viSQNvDGLhlrsGlPr~~LsElHGNmfiEvC~sC~~~yvr~~~v--~t~g-------l~----at~R~ 175 (353)
T KOG1905|consen 113 RA----GLLKHVISQNVDGLHLRSGLPREKLSELHGNMFIEVCKSCRPEYVRDRVV--DTVG-------LK----ATGRH 175 (353)
T ss_pred Hc----chhhhhhhccccchhhccCCCHHHHHHHhcchHHHHhhhhcccceehhhe--eecc-------cc----ccccc
Confidence 98 99999999999999999996 7899999999999999999876543210 0000 00 0000
Q ss_pred ccCCCCCCCCCCCCCCeeccceEEcCCCCChHHHhhC
Q psy14105 162 INVNDLPRCSDKACGGLLRPDIVWFGEQLNPQYVKMA 198 (198)
Q Consensus 162 ~~~~~~P~C~~~~Cgg~lrP~vv~fgE~l~~~~~~~a 198 (198)
-......+|. .|-|.|+.++.=....+|...|+.|
T Consensus 176 ct~~k~~~~r--scrg~l~d~~ldwe~~lpln~l~~a 210 (353)
T KOG1905|consen 176 CTGRKCRKCR--SCRGTLRDFGLDWEDELPLNDLDRA 210 (353)
T ss_pred cccccccccc--ccccchhhccccccccCCchhhHHH
Confidence 0111234566 6667789999888889998877653
No 21
>cd01406 SIR2-like Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation.
Probab=99.34 E-value=1.3e-12 Score=108.35 Aligned_cols=110 Identities=18% Similarity=0.217 Sum_probs=67.9
Q ss_pred CcEEEEECCcccccCCCCCCCCC-ccccccCCccccc------Ch-------HhhhhChHHHHHHHH--HHHHH-hccCC
Q psy14105 10 KNVSQEIAIGISAESGIPTFRGD-GGWWRNNHVAHIA------NI-------ESFKENPGRVWAFYN--YRRQQ-AASKA 72 (198)
Q Consensus 10 ~~ivi~tGAGiS~~sGiPdfr~~-~g~~~~~~~~~~~------~~-------~~f~~~p~~~w~~~~--~~~~~-~~~~~ 72 (198)
+++|+|+|||+|+++|+|+|++- ..+++.+....-. .. +.+...-... .... ..... ....+
T Consensus 1 g~lvlFiGAG~S~~~glP~W~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 79 (242)
T cd01406 1 GRVVIFVGAGVSVSSGLPDWKTLLDEIASELGLEIDGYSVEAKDENDYLELAELLEKEFGTI-GIKINAVLEEKTRPDFE 79 (242)
T ss_pred CCEEEEecCccccccCCCChHHHHHHHHHHcCCccchhhccccchhhHHHHHHHHHHHhccc-hhhhHHHHHhccCCCCC
Confidence 47899999999999999999874 2343332211100 00 0111000000 0000 01111 23678
Q ss_pred CCHHHHHHHHHHHHHhhCCC-ceEEEeccccchHhHhC----------------------CCCccccccccceee
Q psy14105 73 PNKAHYALARFEEECIRQNK-SFVLFTQNVDGYHQAAG----------------------SRNVIELHGSLWRTK 124 (198)
Q Consensus 73 Pn~~H~~L~~L~~~~~~~g~-~~~viTqNiD~L~~~aG----------------------~~~v~elHG~~~~~~ 124 (198)
|+..|.+|++|... +. ...|||||+|.|.++|- ...|+.|||++....
T Consensus 80 ~~~~h~~i~~l~~~----~~~~~~iiTTNyD~llE~a~~~~~~~~~~~~~~~~~~~~~~~~~~i~klHG~~~~~~ 150 (242)
T cd01406 80 PSPLHELLLRLFIN----NEGDVIIITTNYDRLLETALKEINKVVKVIVSVQLALSASARFNGVYKIHGDVDDDE 150 (242)
T ss_pred CCHHHHHHHhchhc----cCCceEEEEcchHHHHHHHHHHcCCCCCcccCccccccccCCCceEEEEecccCCCC
Confidence 99999999999754 32 56899999999999762 137999999998753
No 22
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=94.06 E-value=0.056 Score=31.96 Aligned_cols=14 Identities=21% Similarity=0.631 Sum_probs=10.7
Q ss_pred cceeeeCCCCcccc
Q psy14105 120 LWRTKCSWCDKVEE 133 (198)
Q Consensus 120 ~~~~~C~~C~~~~~ 133 (198)
+...+|.+|++.+.
T Consensus 3 ~Y~y~C~~Cg~~fe 16 (41)
T smart00834 3 IYEYRCEDCGHTFE 16 (41)
T ss_pred CEEEEcCCCCCEEE
Confidence 34679999999764
No 23
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=93.32 E-value=0.1 Score=31.54 Aligned_cols=14 Identities=21% Similarity=0.608 Sum_probs=10.9
Q ss_pred cceeeeCCCCcccc
Q psy14105 120 LWRTKCSWCDKVEE 133 (198)
Q Consensus 120 ~~~~~C~~C~~~~~ 133 (198)
++..+|.+|+..+.
T Consensus 3 ~Yey~C~~Cg~~fe 16 (42)
T PF09723_consen 3 IYEYRCEECGHEFE 16 (42)
T ss_pred CEEEEeCCCCCEEE
Confidence 45789999998654
No 24
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=89.50 E-value=0.41 Score=29.85 Aligned_cols=14 Identities=21% Similarity=0.653 Sum_probs=10.8
Q ss_pred cceeeeCCCCcccc
Q psy14105 120 LWRTKCSWCDKVEE 133 (198)
Q Consensus 120 ~~~~~C~~C~~~~~ 133 (198)
++..+|.+|+..+.
T Consensus 3 ~Yey~C~~Cg~~fe 16 (52)
T TIGR02605 3 IYEYRCTACGHRFE 16 (52)
T ss_pred CEEEEeCCCCCEeE
Confidence 35679999998754
No 25
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=88.92 E-value=0.35 Score=37.32 Aligned_cols=13 Identities=23% Similarity=0.332 Sum_probs=9.9
Q ss_pred ceeeeCCCCcccc
Q psy14105 121 WRTKCSWCDKVEE 133 (198)
Q Consensus 121 ~~~~C~~C~~~~~ 133 (198)
..++|.+||....
T Consensus 111 G~l~C~~Cg~~~~ 123 (146)
T PF07295_consen 111 GTLVCENCGHEVE 123 (146)
T ss_pred ceEecccCCCEEE
Confidence 4678999998643
No 26
>PRK11032 hypothetical protein; Provisional
Probab=88.11 E-value=0.44 Score=37.32 Aligned_cols=13 Identities=15% Similarity=0.238 Sum_probs=9.8
Q ss_pred ceeeeCCCCcccc
Q psy14105 121 WRTKCSWCDKVEE 133 (198)
Q Consensus 121 ~~~~C~~C~~~~~ 133 (198)
..+.|.+||+...
T Consensus 123 G~LvC~~Cg~~~~ 135 (160)
T PRK11032 123 GNLVCEKCHHHLA 135 (160)
T ss_pred ceEEecCCCCEEE
Confidence 4678999998643
No 27
>PF13289 SIR2_2: SIR2-like domain
Probab=83.09 E-value=0.65 Score=34.41 Aligned_cols=27 Identities=33% Similarity=0.382 Sum_probs=21.8
Q ss_pred EEEeccccchHhHhCC-------------------------CCccccccccc
Q psy14105 95 VLFTQNVDGYHQAAGS-------------------------RNVIELHGSLW 121 (198)
Q Consensus 95 ~viTqNiD~L~~~aG~-------------------------~~v~elHG~~~ 121 (198)
.|||+|+|.|.++|-. ..|+.|||++.
T Consensus 2 ~iiTtNyD~llE~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~klHG~~~ 53 (143)
T PF13289_consen 2 TIITTNYDDLLEKALEEAGIPFIVWISDEDFSNESRSSSGRPPIYKLHGSLD 53 (143)
T ss_pred EEEECCHhHHHHHHHHHcCCCceeeeccccccccccccCCCcEEEEEecCcc
Confidence 6999999999998630 25889999993
No 28
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=82.61 E-value=0.88 Score=26.41 Aligned_cols=12 Identities=25% Similarity=0.598 Sum_probs=9.3
Q ss_pred eeeeCCCCcccc
Q psy14105 122 RTKCSWCDKVEE 133 (198)
Q Consensus 122 ~~~C~~C~~~~~ 133 (198)
...|.+|+..+.
T Consensus 2 ~~~CP~C~~~~~ 13 (38)
T TIGR02098 2 RIQCPNCKTSFR 13 (38)
T ss_pred EEECCCCCCEEE
Confidence 367999998754
No 29
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=78.05 E-value=2.1 Score=24.86 Aligned_cols=13 Identities=23% Similarity=0.355 Sum_probs=10.1
Q ss_pred eeeeCCCCccccc
Q psy14105 122 RTKCSWCDKVEEN 134 (198)
Q Consensus 122 ~~~C~~C~~~~~~ 134 (198)
...|.+|+..|..
T Consensus 2 ~i~Cp~C~~~y~i 14 (36)
T PF13717_consen 2 IITCPNCQAKYEI 14 (36)
T ss_pred EEECCCCCCEEeC
Confidence 4689999998753
No 30
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=77.99 E-value=0.73 Score=31.49 Aligned_cols=22 Identities=36% Similarity=0.753 Sum_probs=15.5
Q ss_pred CCCCCCCCCCCCCee-----ccceEEcCC
Q psy14105 165 NDLPRCSDKACGGLL-----RPDIVWFGE 188 (198)
Q Consensus 165 ~~~P~C~~~~Cgg~l-----rP~vv~fgE 188 (198)
..+-.|| .||+.| ++.|+|=|-
T Consensus 31 dplt~ce--~c~a~~kk~l~~vgi~fKGS 57 (82)
T COG2331 31 DPLTTCE--ECGARLKKLLNAVGIVFKGS 57 (82)
T ss_pred CccccCh--hhChHHHHhhccceEEEecc
Confidence 3456799 999865 577777653
No 31
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=77.71 E-value=2.3 Score=24.73 Aligned_cols=13 Identities=23% Similarity=0.593 Sum_probs=10.0
Q ss_pred eeeeCCCCccccc
Q psy14105 122 RTKCSWCDKVEEN 134 (198)
Q Consensus 122 ~~~C~~C~~~~~~ 134 (198)
+..|.+|+..|-.
T Consensus 1 Rr~C~~Cg~~Yh~ 13 (36)
T PF05191_consen 1 RRICPKCGRIYHI 13 (36)
T ss_dssp EEEETTTTEEEET
T ss_pred CcCcCCCCCcccc
Confidence 4579999998753
No 32
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=77.64 E-value=1.2 Score=33.62 Aligned_cols=10 Identities=40% Similarity=0.946 Sum_probs=8.7
Q ss_pred eeCCCCcccc
Q psy14105 124 KCSWCDKVEE 133 (198)
Q Consensus 124 ~C~~C~~~~~ 133 (198)
+|++|++.+.
T Consensus 3 ~Ct~Cg~~f~ 12 (131)
T PF09845_consen 3 QCTKCGRVFE 12 (131)
T ss_pred ccCcCCCCcC
Confidence 7999999875
No 33
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=76.43 E-value=3.6 Score=29.94 Aligned_cols=54 Identities=13% Similarity=0.038 Sum_probs=33.1
Q ss_pred cCCCCHHHHHHHHHHHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCccccc
Q psy14105 70 SKAPNKAHYALARFEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEEN 134 (198)
Q Consensus 70 ~~~Pn~~H~~L~~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~ 134 (198)
...++..|+.|..|++. |.+..+.+.|--..++.+. +..-.++.|..||+....
T Consensus 39 ~is~~TVYR~L~~L~e~----Gli~~~~~~~~~~~Y~~~~-------~~~h~h~iC~~Cg~v~~~ 92 (120)
T PF01475_consen 39 RISLATVYRTLDLLEEA----GLIRKIEFGDGESRYELST-------CHHHHHFICTQCGKVIDL 92 (120)
T ss_dssp T--HHHHHHHHHHHHHT----TSEEEEEETTSEEEEEESS-------SSSCEEEEETTTS-EEEE
T ss_pred CcCHHHHHHHHHHHHHC----CeEEEEEcCCCcceEeecC-------CCcceEEEECCCCCEEEe
Confidence 44455789999999998 8766665443222222221 345566899999997653
No 34
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=75.96 E-value=1.3 Score=32.01 Aligned_cols=12 Identities=25% Similarity=0.828 Sum_probs=9.5
Q ss_pred eeeCCCCccccc
Q psy14105 123 TKCSWCDKVEEN 134 (198)
Q Consensus 123 ~~C~~C~~~~~~ 134 (198)
-||++||+.++.
T Consensus 3 H~CtrCG~vf~~ 14 (112)
T COG3364 3 HQCTRCGEVFDD 14 (112)
T ss_pred ceeccccccccc
Confidence 389999998753
No 35
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=75.00 E-value=3.1 Score=25.27 Aligned_cols=12 Identities=33% Similarity=0.745 Sum_probs=9.3
Q ss_pred eeeeCCCCcccc
Q psy14105 122 RTKCSWCDKVEE 133 (198)
Q Consensus 122 ~~~C~~C~~~~~ 133 (198)
..+|.+||....
T Consensus 3 ~y~C~~CG~~~~ 14 (46)
T PRK00398 3 EYKCARCGREVE 14 (46)
T ss_pred EEECCCCCCEEE
Confidence 568999998654
No 36
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=73.71 E-value=1.6 Score=30.96 Aligned_cols=16 Identities=25% Similarity=0.144 Sum_probs=13.5
Q ss_pred cCCcEEEEECCccccc
Q psy14105 8 WYKNVSQEIAIGISAE 23 (198)
Q Consensus 8 ~a~~ivi~tGAGiS~~ 23 (198)
+.++|++++|+|+|++
T Consensus 2 ~~~~ILl~C~~G~sSS 17 (95)
T TIGR00853 2 NETNILLLCAAGMSTS 17 (95)
T ss_pred CccEEEEECCCchhHH
Confidence 3578999999999954
No 37
>PRK12496 hypothetical protein; Provisional
Probab=73.46 E-value=2.7 Score=33.00 Aligned_cols=12 Identities=33% Similarity=0.584 Sum_probs=9.4
Q ss_pred eeeeCCCCcccc
Q psy14105 122 RTKCSWCDKVEE 133 (198)
Q Consensus 122 ~~~C~~C~~~~~ 133 (198)
..+|..|++.++
T Consensus 127 ~~~C~gC~~~~~ 138 (164)
T PRK12496 127 RKVCKGCKKKYP 138 (164)
T ss_pred eEECCCCCcccc
Confidence 357999998764
No 38
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=73.30 E-value=3.9 Score=23.40 Aligned_cols=12 Identities=25% Similarity=0.520 Sum_probs=9.6
Q ss_pred eeeeCCCCcccc
Q psy14105 122 RTKCSWCDKVEE 133 (198)
Q Consensus 122 ~~~C~~C~~~~~ 133 (198)
.++|..||..+.
T Consensus 2 ~~~C~~CG~i~~ 13 (34)
T cd00729 2 VWVCPVCGYIHE 13 (34)
T ss_pred eEECCCCCCEeE
Confidence 578999998754
No 39
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=72.52 E-value=2.5 Score=30.91 Aligned_cols=13 Identities=31% Similarity=0.833 Sum_probs=10.0
Q ss_pred CCCCCCCCCCeeccc
Q psy14105 168 PRCSDKACGGLLRPD 182 (198)
Q Consensus 168 P~C~~~~Cgg~lrP~ 182 (198)
..|| +||....|.
T Consensus 27 ivCP--~CG~~~~~~ 39 (108)
T PF09538_consen 27 IVCP--KCGTEFPPE 39 (108)
T ss_pred ccCC--CCCCccCcc
Confidence 3499 999877666
No 40
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=71.16 E-value=1.8 Score=31.32 Aligned_cols=14 Identities=29% Similarity=0.252 Sum_probs=12.2
Q ss_pred CcEEEEECCccccc
Q psy14105 10 KNVSQEIAIGISAE 23 (198)
Q Consensus 10 ~~ivi~tGAGiS~~ 23 (198)
++|++++|+|+|++
T Consensus 2 kkILlvCg~G~STS 15 (104)
T PRK09590 2 KKALIICAAGMSSS 15 (104)
T ss_pred cEEEEECCCchHHH
Confidence 57999999999865
No 41
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=69.53 E-value=5.1 Score=22.61 Aligned_cols=12 Identities=17% Similarity=0.584 Sum_probs=9.4
Q ss_pred eeeeCCCCcccc
Q psy14105 122 RTKCSWCDKVEE 133 (198)
Q Consensus 122 ~~~C~~C~~~~~ 133 (198)
.++|..||.++.
T Consensus 1 ~~~C~~CGy~y~ 12 (33)
T cd00350 1 KYVCPVCGYIYD 12 (33)
T ss_pred CEECCCCCCEEC
Confidence 368999998764
No 42
>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....
Probab=68.63 E-value=2.6 Score=28.87 Aligned_cols=14 Identities=14% Similarity=0.138 Sum_probs=11.8
Q ss_pred cEEEEECCcccccC
Q psy14105 11 NVSQEIAIGISAES 24 (198)
Q Consensus 11 ~ivi~tGAGiS~~s 24 (198)
+|++.||+|+|++.
T Consensus 1 kIlvvC~~Gi~TS~ 14 (90)
T PF02302_consen 1 KILVVCGSGIGTSL 14 (90)
T ss_dssp EEEEEESSSSHHHH
T ss_pred CEEEECCChHHHHH
Confidence 58999999999754
No 43
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=68.56 E-value=2.9 Score=30.23 Aligned_cols=14 Identities=29% Similarity=0.337 Sum_probs=12.5
Q ss_pred CcEEEEECCccccc
Q psy14105 10 KNVSQEIAIGISAE 23 (198)
Q Consensus 10 ~~ivi~tGAGiS~~ 23 (198)
++|+++|+||+|++
T Consensus 2 k~IlLvC~aGmSTS 15 (102)
T COG1440 2 KKILLVCAAGMSTS 15 (102)
T ss_pred ceEEEEecCCCcHH
Confidence 68999999999974
No 44
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=68.39 E-value=7.2 Score=24.12 Aligned_cols=13 Identities=23% Similarity=0.606 Sum_probs=10.5
Q ss_pred eeeeCCCCccccc
Q psy14105 122 RTKCSWCDKVEEN 134 (198)
Q Consensus 122 ~~~C~~C~~~~~~ 134 (198)
+.+|..|+.+|+.
T Consensus 1 ky~C~~CgyvYd~ 13 (47)
T PF00301_consen 1 KYQCPVCGYVYDP 13 (47)
T ss_dssp EEEETTTSBEEET
T ss_pred CcCCCCCCEEEcC
Confidence 4689999998763
No 45
>PRK07591 threonine synthase; Validated
Probab=68.19 E-value=4.8 Score=36.23 Aligned_cols=14 Identities=21% Similarity=0.254 Sum_probs=11.0
Q ss_pred cceeeeCCCCcccc
Q psy14105 120 LWRTKCSWCDKVEE 133 (198)
Q Consensus 120 ~~~~~C~~C~~~~~ 133 (198)
+..++|..|++.++
T Consensus 16 ~~~l~C~~Cg~~~~ 29 (421)
T PRK07591 16 AVALKCRECGAEYP 29 (421)
T ss_pred eeEEEeCCCCCcCC
Confidence 44589999998764
No 46
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=66.93 E-value=4.4 Score=29.90 Aligned_cols=18 Identities=17% Similarity=0.305 Sum_probs=11.4
Q ss_pred cccccceeeeCCCCcccc
Q psy14105 116 LHGSLWRTKCSWCDKVEE 133 (198)
Q Consensus 116 lHG~~~~~~C~~C~~~~~ 133 (198)
+.=--...+|..|+..++
T Consensus 65 Ie~vp~~~~C~~Cg~~~~ 82 (117)
T PRK00564 65 IVDEKVELECKDCSHVFK 82 (117)
T ss_pred EEecCCEEEhhhCCCccc
Confidence 333344678999997543
No 47
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=66.77 E-value=6.8 Score=24.56 Aligned_cols=12 Identities=17% Similarity=0.570 Sum_probs=9.8
Q ss_pred eeeCCCCccccc
Q psy14105 123 TKCSWCDKVEEN 134 (198)
Q Consensus 123 ~~C~~C~~~~~~ 134 (198)
++|..|+.+|+.
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 689999998763
No 48
>PRK14717 putative glycine/sarcosine/betaine reductase complex protein A; Provisional
Probab=66.51 E-value=14 Score=26.68 Aligned_cols=42 Identities=33% Similarity=0.352 Sum_probs=26.7
Q ss_pred cCCcEEEEECC------ccccc---CCCCCCCCCc-cccccCCcccccChHh
Q psy14105 8 WYKNVSQEIAI------GISAE---SGIPTFRGDG-GWWRNNHVAHIANIES 49 (198)
Q Consensus 8 ~a~~ivi~tGA------GiS~~---sGiPdfr~~~-g~~~~~~~~~~~~~~~ 49 (198)
.+.++||+.|| ||.++ .|=|+|.|+- |.--.+...-++.++.
T Consensus 17 g~eNvvV~lG~aeaEaaglaAETVt~GDPTfAGPLaGV~LgL~vYHi~EpE~ 68 (107)
T PRK14717 17 GAENIVVILGAAEAEAAGLAAETVTNGDPTFAGPLAGVQLGLPVYHIVEPEI 68 (107)
T ss_pred CCccEEEEecCcchhhccceeeeeccCCCccccccccCccCceeeeecCHHH
Confidence 45788888876 44432 4569999983 6555555555566644
No 49
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=66.14 E-value=4.7 Score=23.43 Aligned_cols=12 Identities=17% Similarity=0.346 Sum_probs=9.5
Q ss_pred eeeeCCCCcccc
Q psy14105 122 RTKCSWCDKVEE 133 (198)
Q Consensus 122 ~~~C~~C~~~~~ 133 (198)
..+|.+|+..+.
T Consensus 2 ~i~CP~C~~~f~ 13 (37)
T PF13719_consen 2 IITCPNCQTRFR 13 (37)
T ss_pred EEECCCCCceEE
Confidence 468999998765
No 50
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=65.83 E-value=3 Score=29.53 Aligned_cols=13 Identities=15% Similarity=0.248 Sum_probs=11.5
Q ss_pred cEEEEECCccccc
Q psy14105 11 NVSQEIAIGISAE 23 (198)
Q Consensus 11 ~ivi~tGAGiS~~ 23 (198)
+|++++|+|+|++
T Consensus 1 kIl~~Cg~G~sTS 13 (96)
T cd05564 1 KILLVCSAGMSTS 13 (96)
T ss_pred CEEEEcCCCchHH
Confidence 4899999999976
No 51
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=65.41 E-value=4.8 Score=30.30 Aligned_cols=14 Identities=14% Similarity=0.226 Sum_probs=10.0
Q ss_pred CCCCCCCCCCCeeccc
Q psy14105 167 LPRCSDKACGGLLRPD 182 (198)
Q Consensus 167 ~P~C~~~~Cgg~lrP~ 182 (198)
...|| +||....|.
T Consensus 26 p~vcP--~cg~~~~~~ 39 (129)
T TIGR02300 26 PAVSP--YTGEQFPPE 39 (129)
T ss_pred CccCC--CcCCccCcc
Confidence 45799 999765554
No 52
>TIGR00354 polC DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.
Probab=65.37 E-value=4.9 Score=39.77 Aligned_cols=85 Identities=20% Similarity=0.398 Sum_probs=53.4
Q ss_pred hccCCCCHHHHHHHHHHHHHhh----CCCceEEEeccccc-----hHhHhCC------------------------CCcc
Q psy14105 68 AASKAPNKAHYALARFEEECIR----QNKSFVLFTQNVDG-----YHQAAGS------------------------RNVI 114 (198)
Q Consensus 68 ~~~~~Pn~~H~~L~~L~~~~~~----~g~~~~viTqNiD~-----L~~~aG~------------------------~~v~ 114 (198)
...+.|...-..+...++++.. .|..+++=|++|+- .+..-|+ ++|+
T Consensus 914 ~~~~~P~ev~~~i~~ve~rLgt~~qy~g~~fTHdTsdI~~Gp~~s~YktLgsM~dK~~aQl~la~kIRAVDe~dVAerVi 993 (1095)
T TIGR00354 914 MRFPSPKEVEDYVEKVEDRLGKPEQYCGLFFTHDTSRIDAGPKVCAYKSLKTMQEKVYSQMELARKIRAVDERDVAERVI 993 (1095)
T ss_pred hccCCHHHHHHHHHHHHHhcCCchhccccccccCcchhhcCcchhhhhhhhhHHHHHHHHHHHHHHHhhcchHHHHHHHH
Confidence 3467787777667666665432 23456777788763 1111111 4677
Q ss_pred ------ccccccce-----eeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCCCCCCCCCCeeccce
Q psy14105 115 ------ELHGSLWR-----TKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPRCSDKACGGLLRPDI 183 (198)
Q Consensus 115 ------elHG~~~~-----~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~C~~~~Cgg~lrP~v 183 (198)
.|-||++. ++|++|+..|.+ .|+ .-+|+ +|||.+-+.|
T Consensus 994 ~sHFlPDl~GNLRaFsrQ~fRC~kC~~kYRR--~PL---------------------------~G~C~--kCGg~lilTV 1042 (1095)
T TIGR00354 994 NSHFLPDIIGNLRAFSRQEVRCTKCNTKYRR--IPL---------------------------VGKCL--KCGNNLTLTV 1042 (1095)
T ss_pred HhccchHhhhhHhhhhccceeecccCCcccc--CCC---------------------------CCccc--ccCCeEEEEE
Confidence 45599864 689999998753 121 24799 9999777665
No 53
>PRK10499 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIB; Provisional
Probab=63.76 E-value=3.5 Score=29.88 Aligned_cols=15 Identities=20% Similarity=0.208 Sum_probs=12.9
Q ss_pred CcEEEEECCcccccC
Q psy14105 10 KNVSQEIAIGISAES 24 (198)
Q Consensus 10 ~~ivi~tGAGiS~~s 24 (198)
++|+++||+|+|++-
T Consensus 4 kkIllvC~~G~sTSl 18 (106)
T PRK10499 4 KHIYLFCSAGMSTSL 18 (106)
T ss_pred CEEEEECCCCccHHH
Confidence 579999999999753
No 54
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=62.26 E-value=5.1 Score=31.15 Aligned_cols=65 Identities=11% Similarity=-0.068 Sum_probs=37.1
Q ss_pred ccCCCCHHHHHHHHHHHH-Hh--------hCCCceEEEeccccchHhHhC---------CCCccccccccceeeeCCCCc
Q psy14105 69 ASKAPNKAHYALARFEEE-CI--------RQNKSFVLFTQNVDGYHQAAG---------SRNVIELHGSLWRTKCSWCDK 130 (198)
Q Consensus 69 ~~~~Pn~~H~~L~~L~~~-~~--------~~g~~~~viTqNiD~L~~~aG---------~~~v~elHG~~~~~~C~~C~~ 130 (198)
...+.|...+.|..|.+. +. ..|....+++-|.+.+...-- .++-.+-..+-....|..|+.
T Consensus 38 Lgi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~i~~~~i~d~Ik~~~~~~~~~lk~~l~~e~~~~~Y~Cp~c~~ 117 (158)
T TIGR00373 38 LGIKLNEVRKALYALYDAGLADYKRRKDDETGWYEYTWRINYEKALDVLKRKLEETAKKLREKLEFETNNMFFICPNMCV 117 (158)
T ss_pred HCCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEEEeCHHHHHHHHHHHHHHHHHHHHHHHhhccCCCeEECCCCCc
Confidence 367788888888888764 00 012222333345444433221 124445556666788999998
Q ss_pred ccc
Q psy14105 131 VEE 133 (198)
Q Consensus 131 ~~~ 133 (198)
.++
T Consensus 118 r~t 120 (158)
T TIGR00373 118 RFT 120 (158)
T ss_pred Eee
Confidence 775
No 55
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=61.93 E-value=4.9 Score=31.97 Aligned_cols=81 Identities=12% Similarity=0.153 Sum_probs=46.5
Q ss_pred ccCCCCHHHHHHHHHHHHHhhCCCce-------------EEEeccccchHhHhC---------CCCccccccccceeeeC
Q psy14105 69 ASKAPNKAHYALARFEEECIRQNKSF-------------VLFTQNVDGYHQAAG---------SRNVIELHGSLWRTKCS 126 (198)
Q Consensus 69 ~~~~Pn~~H~~L~~L~~~~~~~g~~~-------------~viTqNiD~L~~~aG---------~~~v~elHG~~~~~~C~ 126 (198)
.....+...+.|..|.+. |... .++.-|-+.+...-- .+.-.+--.+-....|.
T Consensus 46 Lgi~~~~VRk~L~~L~e~----gLv~~~r~r~~~~Gr~~y~w~l~~~~i~d~ik~~~~~~~~klk~~l~~e~~~~~Y~Cp 121 (178)
T PRK06266 46 TGIKLNTVRKILYKLYDA----RLADYKREKDEETNWYTYTWKPELEKLPEIIKKKKMEELKKLKEQLEEEENNMFFFCP 121 (178)
T ss_pred HCCCHHHHHHHHHHHHHC----CCeEEeeeeccCCCcEEEEEEeCHHHHHHHHHHHHHHHHHHHHHHhhhccCCCEEECC
Confidence 367788889999999875 4322 222222232222110 02333344455677899
Q ss_pred CCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCCCCCCCCCCeecc
Q psy14105 127 WCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPRCSDKACGGLLRP 181 (198)
Q Consensus 127 ~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~C~~~~Cgg~lrP 181 (198)
.|+..++..+ + + ..-..|| .||+.|..
T Consensus 122 ~C~~rytf~e-----A-------------------~--~~~F~Cp--~Cg~~L~~ 148 (178)
T PRK06266 122 NCHIRFTFDE-----A-------------------M--EYGFRCP--QCGEMLEE 148 (178)
T ss_pred CCCcEEeHHH-----H-------------------h--hcCCcCC--CCCCCCee
Confidence 9998776321 1 1 1247899 99998865
No 56
>PRK04023 DNA polymerase II large subunit; Validated
Probab=61.20 E-value=6.5 Score=39.20 Aligned_cols=85 Identities=22% Similarity=0.388 Sum_probs=52.6
Q ss_pred hccCCCCHHHHHHHHHHHHHhh----CCCceEEEeccccc-----hHhHhCC------------------------CCcc
Q psy14105 68 AASKAPNKAHYALARFEEECIR----QNKSFVLFTQNVDG-----YHQAAGS------------------------RNVI 114 (198)
Q Consensus 68 ~~~~~Pn~~H~~L~~L~~~~~~----~g~~~~viTqNiD~-----L~~~aG~------------------------~~v~ 114 (198)
+..+.|...-..+...++++.. .|..+++=|++|+. ++..-|+ ++|+
T Consensus 939 ~~~~~P~ev~~~i~~ve~rlgt~~qy~g~~fTHdTsdI~~Gp~~s~YktLgsM~dK~~aQl~La~kIRAVDe~dVAerVi 1018 (1121)
T PRK04023 939 LEGADPKEVEDIMDTVEDRLGTPEQYEGFMFTHDTSDIAAGPKVSAYKTLGSMEEKMEAQLELARKIRAVDERDVAERVI 1018 (1121)
T ss_pred hccCCHHHHHHHHHHHHHhcCCchhccCcccccCCchhhcCcchhhhhhhhhHHHHHHHHHHHHHHHhhcchHHHHHHHH
Confidence 4466787766666666655421 24456777778763 1111111 3677
Q ss_pred c------cccccce-----eeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCCCCCCCCCCeeccce
Q psy14105 115 E------LHGSLWR-----TKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPRCSDKACGGLLRPDI 183 (198)
Q Consensus 115 e------lHG~~~~-----~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~C~~~~Cgg~lrP~v 183 (198)
+ |-||++. ++|++|+..|.+ .|+ .-+|+ +|||.+-+.|
T Consensus 1019 ~sHFlPDl~GNLRaFsrQ~fRC~kC~~kYRR--~PL---------------------------~G~C~--kCGg~lilTV 1067 (1121)
T PRK04023 1019 SSHFLPDLIGNLRAFSRQEFRCTKCGAKYRR--PPL---------------------------SGKCP--KCGGNLILTV 1067 (1121)
T ss_pred HhccchhhhhhhhhhcccceeecccCccccc--CCC---------------------------CCcCc--cCCCeEEEEE
Confidence 4 4499874 689999998753 121 24699 9999877766
No 57
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=60.74 E-value=4.9 Score=30.75 Aligned_cols=17 Identities=6% Similarity=-0.058 Sum_probs=13.7
Q ss_pred ccCCCCHHHHHHHHHHH
Q psy14105 69 ASKAPNKAHYALARFEE 85 (198)
Q Consensus 69 ~~~~Pn~~H~~L~~L~~ 85 (198)
...++|...+.|..|.+
T Consensus 25 l~i~~n~vRkiL~~L~e 41 (147)
T smart00531 25 LGIKQKQLRKILYLLYD 41 (147)
T ss_pred hCCCHHHHHHHHHHHHh
Confidence 36778888888888877
No 58
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=60.26 E-value=9.3 Score=23.22 Aligned_cols=10 Identities=20% Similarity=0.564 Sum_probs=7.8
Q ss_pred eeeCCCCccc
Q psy14105 123 TKCSWCDKVE 132 (198)
Q Consensus 123 ~~C~~C~~~~ 132 (198)
..|..||...
T Consensus 3 Y~C~~Cg~~~ 12 (44)
T smart00659 3 YICGECGREN 12 (44)
T ss_pred EECCCCCCEe
Confidence 5799999854
No 59
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=59.48 E-value=7.1 Score=39.80 Aligned_cols=85 Identities=22% Similarity=0.402 Sum_probs=53.9
Q ss_pred hccCCCCHHHHHHHHHHHHHhh----CCCceEEEeccccc-----hHhHhCC------------------------CCcc
Q psy14105 68 AASKAPNKAHYALARFEEECIR----QNKSFVLFTQNVDG-----YHQAAGS------------------------RNVI 114 (198)
Q Consensus 68 ~~~~~Pn~~H~~L~~L~~~~~~----~g~~~~viTqNiD~-----L~~~aG~------------------------~~v~ 114 (198)
+..+.|...-..+...++++.. .|..+++=|++|+- ++..-|+ ++|+
T Consensus 1155 ~~~~~p~ev~~~i~~ve~rlg~~~~y~g~~fThdT~dI~~Gp~~s~Yk~LgsM~dK~~~Ql~la~kirAVDe~dvaervi 1234 (1337)
T PRK14714 1155 LEMADPKDVEDLIERVEDRLGTPEQYEGFGFTHDTSDIALGPKLSAYKTLGSMLDKMDAQLELARKIRAVDEHDVAERVI 1234 (1337)
T ss_pred hccCCHHHHHHHHHHHHHhcCCchhccccccccCCchhhcCcchhhhhhhhhHHHHHHHHHHHHHHHhhcchHHHHHHHH
Confidence 3466788777777777766532 23466777888763 1111121 4677
Q ss_pred ------ccccccce-----eeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCCCCCCCCCCeeccce
Q psy14105 115 ------ELHGSLWR-----TKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPRCSDKACGGLLRPDI 183 (198)
Q Consensus 115 ------elHG~~~~-----~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~C~~~~Cgg~lrP~v 183 (198)
-|-||++. ++|++|+..|.+ .|+ .-+|+ +|||.+-+.|
T Consensus 1235 ~sHflpDl~GNLraFsrQ~~RC~kC~~kyRR--~PL---------------------------~G~C~--kCGg~iilTv 1283 (1337)
T PRK14714 1235 NYHFIPDLIGNLRAFSRQEFRCLKCGTKYRR--MPL---------------------------AGKCR--KCGGRIILTV 1283 (1337)
T ss_pred HhccchhhhhhhhhhhccceeecccCccccc--CCC---------------------------CCccc--ccCCeEEEEE
Confidence 45599874 689999998753 121 24699 9999877665
No 60
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=58.78 E-value=3.8 Score=34.23 Aligned_cols=42 Identities=21% Similarity=0.494 Sum_probs=26.5
Q ss_pred CCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCCCCCCCCCCee
Q psy14105 111 RNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPRCSDKACGGLL 179 (198)
Q Consensus 111 ~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~C~~~~Cgg~l 179 (198)
..|+.+.|.. |..|+-..+.. + .......+.+++|| .||..|
T Consensus 190 ~gvvpl~g~~----C~GC~m~l~~~-------~--------------~~~V~~~d~iv~CP--~CgRIL 231 (239)
T COG1579 190 VGVVPLEGRV----CGGCHMKLPSQ-------T--------------LSKVRKKDEIVFCP--YCGRIL 231 (239)
T ss_pred ceEEeecCCc----ccCCeeeecHH-------H--------------HHHHhcCCCCccCC--ccchHH
Confidence 3577777765 99999754321 1 11123356689999 999754
No 61
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=58.29 E-value=19 Score=25.66 Aligned_cols=53 Identities=19% Similarity=0.125 Sum_probs=34.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhhCCCceEEEeccccchHhHhCCCCccccc--cccceeeeCCCCccccc
Q psy14105 69 ASKAPNKAHYALARFEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELH--GSLWRTKCSWCDKVEEN 134 (198)
Q Consensus 69 ~~~~Pn~~H~~L~~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elH--G~~~~~~C~~C~~~~~~ 134 (198)
....+...|+.|..|++. |.+..+-..|--. .+++. ..-.++.|.+||+....
T Consensus 31 ~~i~~~TVYR~L~~L~~~----Gli~~~~~~~~~~---------~y~~~~~~~h~H~~C~~Cg~i~~~ 85 (116)
T cd07153 31 PSISLATVYRTLELLEEA----GLVREIELGDGKA---------RYELNTDEHHHHLICTKCGKVIDF 85 (116)
T ss_pred CCCCHHHHHHHHHHHHhC----CCEEEEEeCCCce---------EEEeCCCCCCCceEeCCCCCEEEe
Confidence 355677889999999998 8776665444111 22211 22346999999997653
No 62
>COG1773 Rubredoxin [Energy production and conversion]
Probab=57.56 E-value=14 Score=23.66 Aligned_cols=14 Identities=36% Similarity=0.560 Sum_probs=11.4
Q ss_pred ceeeeCCCCccccc
Q psy14105 121 WRTKCSWCDKVEEN 134 (198)
Q Consensus 121 ~~~~C~~C~~~~~~ 134 (198)
.+++|..|+.+|.-
T Consensus 2 ~~~~C~~CG~vYd~ 15 (55)
T COG1773 2 KRWRCSVCGYVYDP 15 (55)
T ss_pred CceEecCCceEecc
Confidence 46899999998763
No 63
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=57.56 E-value=5.4 Score=20.75 Aligned_cols=9 Identities=33% Similarity=0.841 Sum_probs=4.0
Q ss_pred CCCCeeccc
Q psy14105 174 ACGGLLRPD 182 (198)
Q Consensus 174 ~Cgg~lrP~ 182 (198)
+||..+.++
T Consensus 4 ~CG~~~~~~ 12 (23)
T PF13240_consen 4 NCGAEIEDD 12 (23)
T ss_pred ccCCCCCCc
Confidence 444444443
No 64
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=56.52 E-value=5.2 Score=28.23 Aligned_cols=14 Identities=0% Similarity=0.062 Sum_probs=12.3
Q ss_pred cEEEEECCcccccC
Q psy14105 11 NVSQEIAIGISAES 24 (198)
Q Consensus 11 ~ivi~tGAGiS~~s 24 (198)
+|++.||+|++++.
T Consensus 4 kILvvCgsG~~TS~ 17 (94)
T PRK10310 4 KIIVACGGAVATST 17 (94)
T ss_pred eEEEECCCchhHHH
Confidence 69999999999765
No 65
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=55.68 E-value=26 Score=26.71 Aligned_cols=64 Identities=17% Similarity=0.094 Sum_probs=39.3
Q ss_pred HHHHHHHHhccCCCCHHHHHHHHHHHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCccccc
Q psy14105 60 FYNYRRQQAASKAPNKAHYALARFEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEEN 134 (198)
Q Consensus 60 ~~~~~~~~~~~~~Pn~~H~~L~~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~ 134 (198)
-|....+......+...|+.|..|++. |.+..+-..|-=-.++.. -|+.-..+.|..||+..+.
T Consensus 42 i~~~l~~~~p~islaTVYr~L~~l~e~----Glv~~~~~~~~~~~y~~~-------~~~~H~HliC~~CG~v~e~ 105 (145)
T COG0735 42 LYEELREEGPGISLATVYRTLKLLEEA----GLVHRLEFEGGKTRYELN-------SEPHHHHLICLDCGKVIEF 105 (145)
T ss_pred HHHHHHHhCCCCCHhHHHHHHHHHHHC----CCEEEEEeCCCEEEEecC-------CCCcccEEEecCCCCEEEe
Confidence 455445555567788899999999987 765544443311111111 1124667899999997653
No 66
>PRK09462 fur ferric uptake regulator; Provisional
Probab=54.12 E-value=25 Score=26.60 Aligned_cols=56 Identities=13% Similarity=0.031 Sum_probs=34.8
Q ss_pred hccCCCCHHHHHHHHHHHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCccccc
Q psy14105 68 AASKAPNKAHYALARFEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDKVEEN 134 (198)
Q Consensus 68 ~~~~~Pn~~H~~L~~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~~~~~ 134 (198)
.....+...|+.|..|++. |.+..+-..|--..++... .+.-.++.|..||++...
T Consensus 47 ~~~i~~aTVYR~L~~L~e~----Gli~~~~~~~~~~~y~~~~-------~~~H~H~iC~~Cg~i~~i 102 (148)
T PRK09462 47 GEEIGLATVYRVLNQFDDA----GIVTRHNFEGGKSVFELTQ-------QHHHDHLICLDCGKVIEF 102 (148)
T ss_pred CCCCCHHHHHHHHHHHHHC----CCEEEEEcCCCcEEEEeCC-------CCCCCceEECCCCCEEEe
Confidence 3455677889999999997 8766665544111221110 111246899999997654
No 67
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=54.03 E-value=6.5 Score=22.15 Aligned_cols=12 Identities=50% Similarity=1.245 Sum_probs=8.6
Q ss_pred CCCCCCCC-Ceeccc
Q psy14105 169 RCSDKACG-GLLRPD 182 (198)
Q Consensus 169 ~C~~~~Cg-g~lrP~ 182 (198)
.|| +|| |.|.|-
T Consensus 3 lcp--kcgvgvl~pv 15 (36)
T PF09151_consen 3 LCP--KCGVGVLEPV 15 (36)
T ss_dssp B-T--TTSSSBEEEE
T ss_pred cCC--ccCceEEEEe
Confidence 499 999 888774
No 68
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=53.51 E-value=11 Score=27.69 Aligned_cols=14 Identities=14% Similarity=0.216 Sum_probs=9.8
Q ss_pred cceeeeCCCCcccc
Q psy14105 120 LWRTKCSWCDKVEE 133 (198)
Q Consensus 120 ~~~~~C~~C~~~~~ 133 (198)
-...+|..|+..++
T Consensus 68 p~~~~C~~Cg~~~~ 81 (114)
T PRK03681 68 EAECWCETCQQYVT 81 (114)
T ss_pred CcEEEcccCCCeee
Confidence 34567999997543
No 69
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=53.05 E-value=3.1 Score=36.32 Aligned_cols=43 Identities=23% Similarity=0.383 Sum_probs=29.2
Q ss_pred ccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCCCCCCCCCCeeccce
Q psy14105 113 VIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPRCSDKACGGLLRPDI 183 (198)
Q Consensus 113 v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~C~~~~Cgg~lrP~v 183 (198)
+.-.-|.++..-|+.|...|...+ + ...--+|| +|||.++=.|
T Consensus 237 LdP~LGKY~~TAC~rC~t~y~le~-----A---------------------~~~~wrCp--kCGg~ikKGV 279 (403)
T COG1379 237 LDPRLGKYHLTACSRCYTRYSLEE-----A---------------------KSLRWRCP--KCGGKIKKGV 279 (403)
T ss_pred cCccccchhHHHHHHhhhccCcch-----h---------------------hhhcccCc--ccccchhhhH
Confidence 444568888889999998765321 1 01125799 9999887665
No 70
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=52.41 E-value=5.4 Score=23.58 Aligned_cols=10 Identities=40% Similarity=1.351 Sum_probs=8.1
Q ss_pred CCCCCCCCCCCe
Q psy14105 167 LPRCSDKACGGL 178 (198)
Q Consensus 167 ~P~C~~~~Cgg~ 178 (198)
+-.|+ .|+|+
T Consensus 19 id~C~--~C~G~ 28 (41)
T PF13453_consen 19 IDVCP--SCGGI 28 (41)
T ss_pred EEECC--CCCeE
Confidence 45799 99995
No 71
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=52.19 E-value=15 Score=20.83 Aligned_cols=11 Identities=45% Similarity=0.936 Sum_probs=7.4
Q ss_pred CCCCCCCCCCCCe
Q psy14105 166 DLPRCSDKACGGL 178 (198)
Q Consensus 166 ~~P~C~~~~Cgg~ 178 (198)
+.-+|+ .||..
T Consensus 16 ~~irC~--~CG~R 26 (32)
T PF03604_consen 16 DPIRCP--ECGHR 26 (32)
T ss_dssp STSSBS--SSS-S
T ss_pred CcEECC--cCCCe
Confidence 345899 99964
No 72
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=50.79 E-value=13 Score=23.32 Aligned_cols=11 Identities=27% Similarity=0.703 Sum_probs=8.5
Q ss_pred eeeeCCCCccc
Q psy14105 122 RTKCSWCDKVE 132 (198)
Q Consensus 122 ~~~C~~C~~~~ 132 (198)
...|..|++..
T Consensus 6 ~Y~C~~Cg~~~ 16 (49)
T COG1996 6 EYKCARCGREV 16 (49)
T ss_pred EEEhhhcCCee
Confidence 45799999865
No 73
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=48.34 E-value=11 Score=32.30 Aligned_cols=17 Identities=18% Similarity=0.415 Sum_probs=11.7
Q ss_pred CCCCCCCCCCC--eeccceEE
Q psy14105 167 LPRCSDKACGG--LLRPDIVW 185 (198)
Q Consensus 167 ~P~C~~~~Cgg--~lrP~vv~ 185 (198)
.|.|| +|++ .++|-.-+
T Consensus 368 ~~~c~--~c~~~~~~~~~~~~ 386 (389)
T PRK11788 368 YWHCP--SCKAWETIKPIRGL 386 (389)
T ss_pred eeECc--CCCCccCcCCcccC
Confidence 47899 9996 46665443
No 74
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=48.20 E-value=3.2 Score=32.22 Aligned_cols=81 Identities=21% Similarity=0.358 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHhhCCCceEEEeccccchHhHhC-CCCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCC
Q psy14105 76 AHYALARFEEECIRQNKSFVLFTQNVDGYHQAAG-SRNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASD 154 (198)
Q Consensus 76 ~H~~L~~L~~~~~~~g~~~~viTqNiD~L~~~aG-~~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (198)
+|..+-..-..+.-.|+.+..+-+.||+|--..- ...+-.+.|+.+..+|. |+..+-.-.
T Consensus 70 aHl~ly~~~gr~~phg~ewk~lm~qV~~l~~~~~h~~~~~~v~~~~~~Y~C~-C~q~~l~~R------------------ 130 (156)
T COG3091 70 AHLHLYQEFGRYKPHGKEWKLLMQQVLGLRFCRTHQFEVQSVRRTTYPYRCQ-CQQHYLRIR------------------ 130 (156)
T ss_pred HHHHHHHHcCCCCCCchhHHHHHHHhCCCCCCccchHHHhhccccceeEEee-cCCccchhh------------------
Confidence 4666655544333335667777888888754332 12355567788899999 998643100
Q ss_pred CCCccccccCCCCCCCCCCCCCCeec
Q psy14105 155 VWYSDEEINVNDLPRCSDKACGGLLR 180 (198)
Q Consensus 155 ~~~~~~~~~~~~~P~C~~~~Cgg~lr 180 (198)
....+..+..-+|. +|+|.|+
T Consensus 131 ---Rhn~~~~g~~YrC~--~C~gkL~ 151 (156)
T COG3091 131 ---RHNTVRRGEVYRCG--KCGGKLV 151 (156)
T ss_pred ---hcccccccceEEec--cCCceEE
Confidence 01122233467899 9999764
No 75
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=47.70 E-value=11 Score=21.67 Aligned_cols=15 Identities=33% Similarity=0.791 Sum_probs=8.5
Q ss_pred ccccceeeeCCCCcc
Q psy14105 117 HGSLWRTKCSWCDKV 131 (198)
Q Consensus 117 HG~~~~~~C~~C~~~ 131 (198)
.|.+...+|.+|+..
T Consensus 6 ~~~l~~~rC~~Cg~~ 20 (37)
T PF12172_consen 6 EGRLLGQRCRDCGRV 20 (37)
T ss_dssp TT-EEEEE-TTT--E
T ss_pred CCEEEEEEcCCCCCE
Confidence 366777899999985
No 76
>cd05567 PTS_IIB_mannitol PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIA, IIB, and IIC domains are expressed from the mtlA gene as a single protein, also known as the mannitol PTS permease, the mtl transporter, or MtlA. MtlA is only functional as a dimer with the dimer contacts occuring between the IIC domains. MtlA takes up exogenous mannitol releasing the phosphate ester into the cytoplasm in preparation for oxidation to fructose-6-phosphate by the NAD-dependent mannitol-P dehydrogenase (MtlD). 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 mannitol, chitobiose/lichenan, ascorbate, lactose, galactitol, fructose, and a s
Probab=47.57 E-value=9.9 Score=26.11 Aligned_cols=15 Identities=13% Similarity=0.295 Sum_probs=12.1
Q ss_pred CcEEEEECCcccccC
Q psy14105 10 KNVSQEIAIGISAES 24 (198)
Q Consensus 10 ~~ivi~tGAGiS~~s 24 (198)
++|++.+|+|++++.
T Consensus 1 ~kilvvCg~G~gtS~ 15 (87)
T cd05567 1 KKIVFACDAGMGSSA 15 (87)
T ss_pred CEEEEECCCCccHHH
Confidence 468999999998744
No 77
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=46.55 E-value=13 Score=24.80 Aligned_cols=18 Identities=28% Similarity=0.560 Sum_probs=15.7
Q ss_pred ccccccceeeeCCCCccc
Q psy14105 115 ELHGSLWRTKCSWCDKVE 132 (198)
Q Consensus 115 elHG~~~~~~C~~C~~~~ 132 (198)
+.+|.+-+++|..|+...
T Consensus 12 ~p~s~Fl~VkCpdC~N~q 29 (67)
T COG2051 12 EPRSRFLRVKCPDCGNEQ 29 (67)
T ss_pred CCCceEEEEECCCCCCEE
Confidence 788999999999999853
No 78
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=46.42 E-value=17 Score=27.50 Aligned_cols=14 Identities=21% Similarity=0.178 Sum_probs=10.9
Q ss_pred ceeeeCCCCccccc
Q psy14105 121 WRTKCSWCDKVEEN 134 (198)
Q Consensus 121 ~~~~C~~C~~~~~~ 134 (198)
..+.|..|+..+..
T Consensus 69 ~~~~C~~CG~~~~~ 82 (135)
T PRK03824 69 AVLKCRNCGNEWSL 82 (135)
T ss_pred eEEECCCCCCEEec
Confidence 56889999987653
No 79
>PF05148 Methyltransf_8: Hypothetical methyltransferase; InterPro: IPR007823 This family consists of uncharacterised eukaryotic proteins which are related to S-adenosyl-L-methionine-dependent methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 2ZFU_B.
Probab=45.40 E-value=31 Score=28.43 Aligned_cols=39 Identities=18% Similarity=0.185 Sum_probs=31.8
Q ss_pred HhhhhChHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHH
Q psy14105 48 ESFKENPGRVWAFYNYRRQQAASKAPNKAHYALARFEEE 86 (198)
Q Consensus 48 ~~f~~~p~~~w~~~~~~~~~~~~~~Pn~~H~~L~~L~~~ 86 (198)
+.|+++|+.|-.|+.-.++++.+++-|+....|..|.+.
T Consensus 32 ~lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~~~ 70 (219)
T PF05148_consen 32 KLFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLKKR 70 (219)
T ss_dssp HHHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHCTS
T ss_pred HHHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHhc
Confidence 568899999988888888889999999999999888653
No 80
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=44.93 E-value=8.9 Score=24.23 Aligned_cols=13 Identities=31% Similarity=0.979 Sum_probs=10.4
Q ss_pred CCCCCCCCCCCCCee
Q psy14105 165 NDLPRCSDKACGGLL 179 (198)
Q Consensus 165 ~~~P~C~~~~Cgg~l 179 (198)
..+..|| .||..|
T Consensus 44 ~~i~~Cp--~CgRiL 56 (56)
T PF02591_consen 44 DEIVFCP--NCGRIL 56 (56)
T ss_pred CCeEECc--CCCccC
Confidence 4678999 999764
No 81
>KOG2278|consensus
Probab=44.76 E-value=14 Score=29.51 Aligned_cols=50 Identities=24% Similarity=0.221 Sum_probs=35.8
Q ss_pred ccccCCcEEEEECCcccccCCCCCCCCCccccccCCcccccChHhhhhCh
Q psy14105 5 VGKWYKNVSQEIAIGISAESGIPTFRGDGGWWRNNHVAHIANIESFKENP 54 (198)
Q Consensus 5 ~~~~a~~ivi~tGAGiS~~sGiPdfr~~~g~~~~~~~~~~~~~~~f~~~p 54 (198)
-.+.+-++.||.-.----+-||+-||+.+|.+-...+..+....+|+..+
T Consensus 148 GmRss~nvyIfId~~~al~dgi~fyrS~N~ViLT~g~vgll~~~yfk~~e 197 (207)
T KOG2278|consen 148 GMRSSCNVYIFIDIKKALEDGIAFYRSDNGVILTEGIVGLLPVKYFKKIE 197 (207)
T ss_pred hhhccceEEEEecchHHHhhhhHHhhhcCceEeccCccccccHHHhccCC
Confidence 33444455555544477788999999999988776677788888887664
No 82
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=44.62 E-value=18 Score=26.42 Aligned_cols=20 Identities=20% Similarity=0.242 Sum_probs=12.6
Q ss_pred cccccccceeeeCCCCcccc
Q psy14105 114 IELHGSLWRTKCSWCDKVEE 133 (198)
Q Consensus 114 ~elHG~~~~~~C~~C~~~~~ 133 (198)
+++.=--...+|..|+..+.
T Consensus 62 L~I~~vp~~~~C~~Cg~~~~ 81 (113)
T PRK12380 62 LHIVYKPAQAWCWDCSQVVE 81 (113)
T ss_pred EEEEeeCcEEEcccCCCEEe
Confidence 33444445678999997653
No 83
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=44.31 E-value=19 Score=28.73 Aligned_cols=12 Identities=25% Similarity=0.744 Sum_probs=9.4
Q ss_pred eeeeCCCCcccc
Q psy14105 122 RTKCSWCDKVEE 133 (198)
Q Consensus 122 ~~~C~~C~~~~~ 133 (198)
..+|..|.+.++
T Consensus 139 ~~rC~GC~~~f~ 150 (177)
T COG1439 139 RLRCHGCKRIFP 150 (177)
T ss_pred eEEEecCceecC
Confidence 468999998764
No 84
>PRK13265 glycine/sarcosine/betaine reductase complex protein A; Reviewed
Probab=44.13 E-value=48 Score=25.45 Aligned_cols=42 Identities=33% Similarity=0.361 Sum_probs=26.6
Q ss_pred cCCcEEEEECC------ccccc---CCCCCCCCCc-cccccCCcccccChHh
Q psy14105 8 WYKNVSQEIAI------GISAE---SGIPTFRGDG-GWWRNNHVAHIANIES 49 (198)
Q Consensus 8 ~a~~ivi~tGA------GiS~~---sGiPdfr~~~-g~~~~~~~~~~~~~~~ 49 (198)
.+.++||+.|| ||.++ .|=|+|.++- |.--.+....++.++.
T Consensus 66 g~eNvvVllGaaeaEaaglaAETVt~GDPTfAGPLAGV~LgL~vYHivEpE~ 117 (154)
T PRK13265 66 GAENVVVILGAAEAEAAGLAAETVTNGDPTFAGPLAGVQLGLRVYHVVEPEI 117 (154)
T ss_pred CCccEEEEecccchhhccceeeeeccCCCcccccccCCccCceeEEecCHHH
Confidence 45788888876 44432 4569999983 6555555555566644
No 85
>PRK14715 DNA polymerase II large subunit; Provisional
Probab=43.46 E-value=18 Score=37.29 Aligned_cols=84 Identities=20% Similarity=0.398 Sum_probs=52.7
Q ss_pred hccCCCCHHHHHHHHHHHHHhh----CCCceEEEeccccc-----hHhHhCC------------------------CCcc
Q psy14105 68 AASKAPNKAHYALARFEEECIR----QNKSFVLFTQNVDG-----YHQAAGS------------------------RNVI 114 (198)
Q Consensus 68 ~~~~~Pn~~H~~L~~L~~~~~~----~g~~~~viTqNiD~-----L~~~aG~------------------------~~v~ 114 (198)
+.-+.|...-..+...++++.+ .|..+++=|++|+- ++..-|+ ++|+
T Consensus 1444 ~e~~~pkev~~~ie~ve~rlg~~~~y~g~~fTHdT~dI~~Gp~~s~Yk~LgsM~eK~~~Ql~la~kiRAvde~dVae~vi 1523 (1627)
T PRK14715 1444 LEMPSPKEVKEFIETVEDRLGKPEQYEGIGYTHETDDIGLGPKICAYKTLGSMLEKTARQLAVAEKIRATDERDVAEKVI 1523 (1627)
T ss_pred hccCCHHHHHHHHHHHHHhcCChhhcccccccccccccccCcchhhhhhhhhHHHHHHHHHHHHHHHhhcchHHHHHHHH
Confidence 3456777777777777776532 23466777888763 1222221 3677
Q ss_pred ------ccccccce-----eeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCCCCCCCCCCeeccce
Q psy14105 115 ------ELHGSLWR-----TKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPRCSDKACGGLLRPDI 183 (198)
Q Consensus 115 ------elHG~~~~-----~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~C~~~~Cgg~lrP~v 183 (198)
.|-||++. ++| +|+..|.+ .|+ .-+|| +|||.+-+.|
T Consensus 1524 ~sHf~PDl~GNLRaFsrQ~~RC-kC~~kyRR--~PL---------------------------~G~C~--kCGg~~ilTV 1571 (1627)
T PRK14715 1524 QSHFVPDLIGNLRAFSRQEFRC-KCGAKYRR--VPL---------------------------KGKCP--KCGSKLILTV 1571 (1627)
T ss_pred Hhccchhhhhhhhhhhccceee-cCCCcccc--CCC---------------------------CCcCc--ccCCeEEEEE
Confidence 45598864 689 99997653 121 24699 9999876665
No 86
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=42.94 E-value=20 Score=26.23 Aligned_cols=15 Identities=13% Similarity=0.280 Sum_probs=10.3
Q ss_pred ccceeeeCCCCcccc
Q psy14105 119 SLWRTKCSWCDKVEE 133 (198)
Q Consensus 119 ~~~~~~C~~C~~~~~ 133 (198)
--...+|..|+..+.
T Consensus 67 ~p~~~~C~~Cg~~~~ 81 (115)
T TIGR00100 67 EPVECECEDCSEEVS 81 (115)
T ss_pred eCcEEEcccCCCEEe
Confidence 334578999997654
No 87
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=41.19 E-value=21 Score=23.21 Aligned_cols=19 Identities=16% Similarity=0.410 Sum_probs=15.3
Q ss_pred CCCCCCCCCCCCCeeccceEE
Q psy14105 165 NDLPRCSDKACGGLLRPDIVW 185 (198)
Q Consensus 165 ~~~P~C~~~~Cgg~lrP~vv~ 185 (198)
...|.|| -|++.|+..+.+
T Consensus 37 ~~~p~CP--lC~s~M~~~~r~ 55 (59)
T PF14169_consen 37 EEEPVCP--LCKSPMVSGTRM 55 (59)
T ss_pred CCCccCC--CcCCccccceee
Confidence 4469999 999999887654
No 88
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=40.79 E-value=19 Score=26.57 Aligned_cols=12 Identities=25% Similarity=0.601 Sum_probs=9.2
Q ss_pred ceeeeCCCCccc
Q psy14105 121 WRTKCSWCDKVE 132 (198)
Q Consensus 121 ~~~~C~~C~~~~ 132 (198)
-.++|.+|++..
T Consensus 68 v~V~CP~C~K~T 79 (114)
T PF11023_consen 68 VQVECPNCGKQT 79 (114)
T ss_pred eeeECCCCCChH
Confidence 456799999853
No 89
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=38.27 E-value=22 Score=18.81 Aligned_cols=8 Identities=38% Similarity=0.945 Sum_probs=6.0
Q ss_pred CCCCCCCCCC
Q psy14105 167 LPRCSDKACG 176 (198)
Q Consensus 167 ~P~C~~~~Cg 176 (198)
.-.|| +||
T Consensus 16 ~f~CP--nCG 23 (24)
T PF07754_consen 16 PFPCP--NCG 23 (24)
T ss_pred eEeCC--CCC
Confidence 35699 898
No 90
>cd05566 PTS_IIB_galactitol PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. 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 galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and
Probab=37.72 E-value=17 Score=24.74 Aligned_cols=15 Identities=13% Similarity=0.344 Sum_probs=11.9
Q ss_pred CcEEEEECCcccccC
Q psy14105 10 KNVSQEIAIGISAES 24 (198)
Q Consensus 10 ~~ivi~tGAGiS~~s 24 (198)
++|+++||+|++++.
T Consensus 1 ~~ilivC~~G~~tS~ 15 (89)
T cd05566 1 KKILVACGTGVATST 15 (89)
T ss_pred CEEEEECCCCccHHH
Confidence 468999999998754
No 91
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. 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 lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=36.71 E-value=17 Score=25.98 Aligned_cols=12 Identities=33% Similarity=0.066 Sum_probs=9.9
Q ss_pred cEEEEECCcccc
Q psy14105 11 NVSQEIAIGISA 22 (198)
Q Consensus 11 ~ivi~tGAGiS~ 22 (198)
+|++++|+|+|+
T Consensus 2 ~Ill~C~~GaSS 13 (99)
T cd05565 2 NVLVLCAGGGTS 13 (99)
T ss_pred EEEEECCCCCCH
Confidence 488999999774
No 92
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=36.50 E-value=15 Score=21.14 Aligned_cols=12 Identities=50% Similarity=1.151 Sum_probs=10.0
Q ss_pred CCCCCCCCCeeccc
Q psy14105 169 RCSDKACGGLLRPD 182 (198)
Q Consensus 169 ~C~~~~Cgg~lrP~ 182 (198)
-|| .||.+|.|.
T Consensus 3 FCp--~C~nlL~p~ 14 (35)
T PF02150_consen 3 FCP--ECGNLLYPK 14 (35)
T ss_dssp BET--TTTSBEEEE
T ss_pred eCC--CCCccceEc
Confidence 499 999999874
No 93
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=36.47 E-value=23 Score=25.14 Aligned_cols=11 Identities=18% Similarity=0.434 Sum_probs=8.5
Q ss_pred eeeCCCCcccc
Q psy14105 123 TKCSWCDKVEE 133 (198)
Q Consensus 123 ~~C~~C~~~~~ 133 (198)
.+|-+||..+.
T Consensus 59 a~CkkCGfef~ 69 (97)
T COG3357 59 ARCKKCGFEFR 69 (97)
T ss_pred hhhcccCcccc
Confidence 57999998753
No 94
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=35.29 E-value=31 Score=25.61 Aligned_cols=12 Identities=17% Similarity=0.293 Sum_probs=8.6
Q ss_pred ceeeeCCCCcccc
Q psy14105 121 WRTKCSWCDKVEE 133 (198)
Q Consensus 121 ~~~~C~~C~~~~~ 133 (198)
...+| .|+..+.
T Consensus 69 ~~~~C-~Cg~~~~ 80 (124)
T PRK00762 69 VEIEC-ECGYEGV 80 (124)
T ss_pred eeEEe-eCcCccc
Confidence 45679 9997654
No 95
>cd05563 PTS_IIB_ascorbate PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a transmembrane channel IIC subunit. Subunits IIA, IIB, and IIC are encoded by the sgaA, sgaB, and sgaT genes of the E. coli sgaTBA operon. In some bacteria, the IIB (SgaB) domain is fused C-terminal to the IIA (SgaT) domain. 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 ascorbate, chitobiose/lichenan, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=34.89 E-value=20 Score=24.26 Aligned_cols=14 Identities=7% Similarity=0.152 Sum_probs=10.9
Q ss_pred cEEEEECCcccccC
Q psy14105 11 NVSQEIAIGISAES 24 (198)
Q Consensus 11 ~ivi~tGAGiS~~s 24 (198)
++++.||+|++++.
T Consensus 1 kilvvC~~G~~tS~ 14 (86)
T cd05563 1 KILAVCGSGLGSSL 14 (86)
T ss_pred CEEEECCCCccHHH
Confidence 47889999988754
No 96
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=34.31 E-value=1.2e+02 Score=23.65 Aligned_cols=57 Identities=16% Similarity=0.149 Sum_probs=33.6
Q ss_pred hccCCCCHHHHHHHHHHHHHhhCCCceEEEeccccchHhHhCCCCccccccc-cceeeeCCCCccccc
Q psy14105 68 AASKAPNKAHYALARFEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGS-LWRTKCSWCDKVEEN 134 (198)
Q Consensus 68 ~~~~~Pn~~H~~L~~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~-~~~~~C~~C~~~~~~ 134 (198)
.........|+.|..|++. |.+..+-..| + +... ..+.-|.. -.++.|.+||++...
T Consensus 55 ~~~is~aTVYRtL~~L~e~----Glv~~~~~~~--~-~~~~---~~~~~~~h~h~H~iC~~CGki~~i 112 (169)
T PRK11639 55 EPQAKPPTVYRALDFLLEQ----GFVHKVESTN--S-YVLC---HLFDQPTHTSAMFICDRCGAVKEE 112 (169)
T ss_pred CCCCCcchHHHHHHHHHHC----CCEEEEecCC--c-EEEe---ccCCCCCCCCCeEEeCCCCCEEEe
Confidence 3455667889999999987 7665553222 1 1111 01222222 246899999998654
No 97
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=34.01 E-value=16 Score=26.61 Aligned_cols=21 Identities=24% Similarity=0.384 Sum_probs=12.8
Q ss_pred ccccccccceeeeCCCCcccc
Q psy14105 113 VIELHGSLWRTKCSWCDKVEE 133 (198)
Q Consensus 113 v~elHG~~~~~~C~~C~~~~~ 133 (198)
.+++.=--...+|..|+..+.
T Consensus 61 ~L~Ie~~p~~~~C~~Cg~~~~ 81 (113)
T PF01155_consen 61 ELEIEEVPARARCRDCGHEFE 81 (113)
T ss_dssp EEEEEEE--EEEETTTS-EEE
T ss_pred EEEEEecCCcEECCCCCCEEe
Confidence 444555556788999999765
No 98
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=32.91 E-value=30 Score=34.81 Aligned_cols=12 Identities=50% Similarity=1.093 Sum_probs=9.4
Q ss_pred CCCCCCCCCCeecc
Q psy14105 168 PRCSDKACGGLLRP 181 (198)
Q Consensus 168 P~C~~~~Cgg~lrP 181 (198)
-.|| .|||.+.+
T Consensus 839 ~~~~--~~~~~~~~ 850 (1006)
T PRK12775 839 GMCP--ACGGKLQA 850 (1006)
T ss_pred CcCc--ccccchhh
Confidence 3799 99997654
No 99
>PLN02569 threonine synthase
Probab=32.56 E-value=34 Score=31.48 Aligned_cols=12 Identities=8% Similarity=0.127 Sum_probs=10.0
Q ss_pred eeeeCCCCcccc
Q psy14105 122 RTKCSWCDKVEE 133 (198)
Q Consensus 122 ~~~C~~C~~~~~ 133 (198)
.++|..|++.|+
T Consensus 49 ~l~C~~Cg~~y~ 60 (484)
T PLN02569 49 FLECPLTGEKYS 60 (484)
T ss_pred ccEeCCCCCcCC
Confidence 489999998765
No 100
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=30.86 E-value=34 Score=18.32 Aligned_cols=9 Identities=33% Similarity=0.645 Sum_probs=6.5
Q ss_pred CCCCCCCCCCe
Q psy14105 168 PRCSDKACGGL 178 (198)
Q Consensus 168 P~C~~~~Cgg~ 178 (198)
-.|| .||-.
T Consensus 15 ~~Cp--~CG~~ 23 (26)
T PF10571_consen 15 KFCP--HCGYD 23 (26)
T ss_pred CcCC--CCCCC
Confidence 4699 89853
No 101
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=30.41 E-value=34 Score=25.84 Aligned_cols=15 Identities=13% Similarity=0.454 Sum_probs=11.0
Q ss_pred ccceeeeCCCCcccc
Q psy14105 119 SLWRTKCSWCDKVEE 133 (198)
Q Consensus 119 ~~~~~~C~~C~~~~~ 133 (198)
.-..+.|..|+....
T Consensus 120 ~~~~~~C~~C~~~~~ 134 (157)
T PF10263_consen 120 KKYVYRCPSCGREYK 134 (157)
T ss_pred cceEEEcCCCCCEee
Confidence 456788999997643
No 102
>PF14353 CpXC: CpXC protein
Probab=29.86 E-value=31 Score=25.43 Aligned_cols=18 Identities=33% Similarity=0.632 Sum_probs=15.4
Q ss_pred cccccceeeeCCCCcccc
Q psy14105 116 LHGSLWRTKCSWCDKVEE 133 (198)
Q Consensus 116 lHG~~~~~~C~~C~~~~~ 133 (198)
+-|++....|.+||....
T Consensus 32 l~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 32 LDGSLFSFTCPSCGHKFR 49 (128)
T ss_pred HcCCcCEEECCCCCCcee
Confidence 379999999999998643
No 103
>PTZ00127 cytochrome c oxidase assembly protein; Provisional
Probab=29.53 E-value=41 Score=30.16 Aligned_cols=21 Identities=14% Similarity=0.126 Sum_probs=15.3
Q ss_pred EEEEECCcccccCCCCCCCCCccccc
Q psy14105 12 VSQEIAIGISAESGIPTFRGDGGWWR 37 (198)
Q Consensus 12 ivi~tGAGiS~~sGiPdfr~~~g~~~ 37 (198)
++=+||||+| +||+. -.|.+-
T Consensus 85 ~tRlT~SGLg----cpdWp-~~G~~~ 105 (403)
T PTZ00127 85 YTRLTESGLS----MTDWK-FIGVKP 105 (403)
T ss_pred hhcccccccC----CCCCC-CCCEEC
Confidence 4557888887 79998 767543
No 104
>PF04475 DUF555: Protein of unknown function (DUF555); InterPro: IPR007564 This is a family of uncharacterised, hypothetical archaeal proteins.
Probab=29.46 E-value=37 Score=24.44 Aligned_cols=22 Identities=27% Similarity=0.407 Sum_probs=17.8
Q ss_pred CCCCCCCCCCCeeccceEEcCCCC
Q psy14105 167 LPRCSDKACGGLLRPDIVWFGEQL 190 (198)
Q Consensus 167 ~P~C~~~~Cgg~lrP~vv~fgE~l 190 (198)
.-.|| .||..|.|..+.-+..|
T Consensus 47 ~~~cP--~Cge~~~~a~vva~taL 68 (102)
T PF04475_consen 47 DTICP--KCGEELDSAFVVADTAL 68 (102)
T ss_pred cccCC--CCCCccCceEEEeccce
Confidence 35799 99999999988776654
No 105
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=29.44 E-value=46 Score=26.22 Aligned_cols=12 Identities=25% Similarity=0.435 Sum_probs=9.9
Q ss_pred eeeeCCCCcccc
Q psy14105 122 RTKCSWCDKVEE 133 (198)
Q Consensus 122 ~~~C~~C~~~~~ 133 (198)
.+.|..||....
T Consensus 134 ~~vC~vCGy~~~ 145 (166)
T COG1592 134 VWVCPVCGYTHE 145 (166)
T ss_pred EEEcCCCCCccc
Confidence 789999998643
No 106
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=29.18 E-value=59 Score=29.80 Aligned_cols=21 Identities=19% Similarity=0.234 Sum_probs=16.3
Q ss_pred ccccccccceeeeCCCCcccc
Q psy14105 113 VIELHGSLWRTKCSWCDKVEE 133 (198)
Q Consensus 113 v~elHG~~~~~~C~~C~~~~~ 133 (198)
+..--+....++|..|+..|+
T Consensus 416 ~~~~~~~~~~~~c~~c~~~yd 436 (479)
T PRK05452 416 ATTTADLGPRMQCSVCQWIYD 436 (479)
T ss_pred cccccCCCCeEEECCCCeEEC
Confidence 445556777899999999876
No 107
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=29.13 E-value=44 Score=25.40 Aligned_cols=15 Identities=47% Similarity=0.840 Sum_probs=13.1
Q ss_pred cccceeeeCCCCccc
Q psy14105 118 GSLWRTKCSWCDKVE 132 (198)
Q Consensus 118 G~~~~~~C~~C~~~~ 132 (198)
|.+--.+|.+||..+
T Consensus 25 ~kl~g~kC~~CG~v~ 39 (140)
T COG1545 25 GKLLGTKCKKCGRVY 39 (140)
T ss_pred CcEEEEEcCCCCeEE
Confidence 788889999999975
No 108
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=28.50 E-value=30 Score=24.52 Aligned_cols=15 Identities=7% Similarity=0.202 Sum_probs=12.3
Q ss_pred CcEEEEECCcccccC
Q psy14105 10 KNVSQEIAIGISAES 24 (198)
Q Consensus 10 ~~ivi~tGAGiS~~s 24 (198)
.+|++.+|+|+.++-
T Consensus 2 ~KIL~aCG~GvgSS~ 16 (93)
T COG3414 2 IKILAACGNGVGSST 16 (93)
T ss_pred cEEEEECCCCccHHH
Confidence 579999999998653
No 109
>PRK02935 hypothetical protein; Provisional
Probab=28.32 E-value=49 Score=24.14 Aligned_cols=16 Identities=25% Similarity=0.391 Sum_probs=11.0
Q ss_pred CCCCCCCCCCeeccceEE
Q psy14105 168 PRCSDKACGGLLRPDIVW 185 (198)
Q Consensus 168 P~C~~~~Cgg~lrP~vv~ 185 (198)
-.|. .|+.+|.=+--+
T Consensus 87 D~CM--~C~~PLTLd~~l 102 (110)
T PRK02935 87 DACM--HCNQPLTLDRSL 102 (110)
T ss_pred eecC--cCCCcCCcCccc
Confidence 4699 999887654433
No 110
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=28.03 E-value=30 Score=18.23 Aligned_cols=9 Identities=33% Similarity=0.899 Sum_probs=4.6
Q ss_pred CCCCCCCCCCe
Q psy14105 168 PRCSDKACGGL 178 (198)
Q Consensus 168 P~C~~~~Cgg~ 178 (198)
..|| .||..
T Consensus 17 ~fC~--~CG~~ 25 (26)
T PF13248_consen 17 KFCP--NCGAK 25 (26)
T ss_pred ccCh--hhCCC
Confidence 4455 55543
No 111
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=27.79 E-value=40 Score=21.93 Aligned_cols=18 Identities=17% Similarity=0.488 Sum_probs=13.9
Q ss_pred ccccccceeeeCCCCccc
Q psy14105 115 ELHGSLWRTKCSWCDKVE 132 (198)
Q Consensus 115 elHG~~~~~~C~~C~~~~ 132 (198)
+..+.+-.++|..|+...
T Consensus 4 ~p~S~F~~VkCp~C~n~q 21 (59)
T PRK00415 4 QPRSRFLKVKCPDCGNEQ 21 (59)
T ss_pred CCCCeEEEEECCCCCCeE
Confidence 456777889999999853
No 112
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=27.69 E-value=26 Score=19.50 Aligned_cols=9 Identities=56% Similarity=1.608 Sum_probs=3.4
Q ss_pred CCCCCCCCCCC
Q psy14105 167 LPRCSDKACGG 177 (198)
Q Consensus 167 ~P~C~~~~Cgg 177 (198)
+|+|| .|++
T Consensus 2 ~p~Cp--~C~s 10 (30)
T PF08274_consen 2 LPKCP--LCGS 10 (30)
T ss_dssp S---T--TT--
T ss_pred CCCCC--CCCC
Confidence 58899 9986
No 113
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=27.45 E-value=40 Score=30.28 Aligned_cols=15 Identities=27% Similarity=0.638 Sum_probs=11.0
Q ss_pred CCCCCCCCCCCCCCeec
Q psy14105 164 VNDLPRCSDKACGGLLR 180 (198)
Q Consensus 164 ~~~~P~C~~~~Cgg~lr 180 (198)
.++..+|| +||..|.
T Consensus 30 ~g~~a~Cp--RCg~~L~ 44 (403)
T TIGR00155 30 SGQKAACP--RCGTTLT 44 (403)
T ss_pred CCCeeECC--CCCCCCc
Confidence 34456799 9998873
No 114
>PF12773 DZR: Double zinc ribbon
Probab=27.08 E-value=70 Score=19.22 Aligned_cols=16 Identities=25% Similarity=0.536 Sum_probs=11.7
Q ss_pred CCCCCCCCCCCeeccceE
Q psy14105 167 LPRCSDKACGGLLRPDIV 184 (198)
Q Consensus 167 ~P~C~~~~Cgg~lrP~vv 184 (198)
...|+ .||..+.++..
T Consensus 29 ~~~C~--~Cg~~~~~~~~ 44 (50)
T PF12773_consen 29 KKICP--NCGAENPPNAK 44 (50)
T ss_pred CCCCc--CCcCCCcCCcC
Confidence 45699 89988777654
No 115
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=26.46 E-value=70 Score=31.16 Aligned_cols=15 Identities=27% Similarity=0.700 Sum_probs=10.4
Q ss_pred CCCCCCCCCCeeccceEEcC
Q psy14105 168 PRCSDKACGGLLRPDIVWFG 187 (198)
Q Consensus 168 P~C~~~~Cgg~lrP~vv~fg 187 (198)
-.|| .||+. .++.+|
T Consensus 476 ~~Cp--~Cgs~---~L~~~G 490 (730)
T COG1198 476 QSCP--ECGSE---HLRAVG 490 (730)
T ss_pred CCCC--CCCCC---eeEEec
Confidence 4699 99997 444444
No 116
>PRK14873 primosome assembly protein PriA; Provisional
Probab=26.01 E-value=1.3e+02 Score=28.86 Aligned_cols=45 Identities=13% Similarity=0.132 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHhhCCCceEEEeccccchHhHhCCCCccccccccceeeeCCCCc
Q psy14105 77 HYALARFEEECIRQNKSFVLFTQNVDGYHQAAGSRNVIELHGSLWRTKCSWCDK 130 (198)
Q Consensus 77 H~~L~~L~~~~~~~g~~~~viTqNiD~L~~~aG~~~v~elHG~~~~~~C~~C~~ 130 (198)
+..+..+.+.+.+ | ..++=-|-.| ...++.++-.-...+|.+|+-
T Consensus 356 ~~l~~~i~~~L~~-g--qvll~lnRrG------yap~l~C~~Cg~~~~C~~C~~ 400 (665)
T PRK14873 356 SLAFRAARDALEH-G--PVLVQVPRRG------YVPSLACARCRTPARCRHCTG 400 (665)
T ss_pred HHHHHHHHHHHhc-C--cEEEEecCCC------CCCeeEhhhCcCeeECCCCCC
Confidence 3445555544321 4 4555445443 344555555555556666653
No 117
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=25.65 E-value=31 Score=23.21 Aligned_cols=11 Identities=27% Similarity=0.489 Sum_probs=4.8
Q ss_pred ceeeeCCCCcc
Q psy14105 121 WRTKCSWCDKV 131 (198)
Q Consensus 121 ~~~~C~~C~~~ 131 (198)
...+|..|...
T Consensus 16 ~~~~C~~C~~~ 26 (70)
T PF07191_consen 16 GHYHCEACQKD 26 (70)
T ss_dssp TEEEETTT--E
T ss_pred CEEECcccccc
Confidence 34456666554
No 118
>PRK03922 hypothetical protein; Provisional
Probab=25.54 E-value=46 Score=24.40 Aligned_cols=22 Identities=27% Similarity=0.505 Sum_probs=18.0
Q ss_pred CCCCCCCCCCCeeccceEEcCCCC
Q psy14105 167 LPRCSDKACGGLLRPDIVWFGEQL 190 (198)
Q Consensus 167 ~P~C~~~~Cgg~lrP~vv~fgE~l 190 (198)
...|| .||..+.|..+.-++.|
T Consensus 49 ~~~cP--~cge~~~~afvvA~taL 70 (113)
T PRK03922 49 LTICP--KCGEPFDSAFVVADTAL 70 (113)
T ss_pred cccCC--CCCCcCCcEEEEeccce
Confidence 35799 99999999988776654
No 119
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=25.39 E-value=35 Score=18.84 Aligned_cols=13 Identities=31% Similarity=0.825 Sum_probs=7.1
Q ss_pred CCCCCCCCCCeeccc
Q psy14105 168 PRCSDKACGGLLRPD 182 (198)
Q Consensus 168 P~C~~~~Cgg~lrP~ 182 (198)
..|+ .||+++++.
T Consensus 4 rfC~--~CG~~t~~~ 16 (32)
T PF09297_consen 4 RFCG--RCGAPTKPA 16 (32)
T ss_dssp SB-T--TT--BEEE-
T ss_pred cccC--cCCccccCC
Confidence 4699 999988764
No 120
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=25.38 E-value=48 Score=21.08 Aligned_cols=14 Identities=36% Similarity=0.835 Sum_probs=10.1
Q ss_pred CCCCCCCCCCCCCeec
Q psy14105 165 NDLPRCSDKACGGLLR 180 (198)
Q Consensus 165 ~~~P~C~~~~Cgg~lr 180 (198)
+.+-.|| .||..++
T Consensus 20 GeiV~Cp--~CGaele 33 (54)
T TIGR01206 20 GELVICD--ECGAELE 33 (54)
T ss_pred CCEEeCC--CCCCEEE
Confidence 3456899 9998654
No 121
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=25.34 E-value=36 Score=27.12 Aligned_cols=11 Identities=36% Similarity=0.764 Sum_probs=9.0
Q ss_pred CCCCCCCCCCeec
Q psy14105 168 PRCSDKACGGLLR 180 (198)
Q Consensus 168 P~C~~~~Cgg~lr 180 (198)
-.|| .||+.|.
T Consensus 133 F~Cp--~Cg~~L~ 143 (176)
T COG1675 133 FTCP--KCGEDLE 143 (176)
T ss_pred CCCC--CCCchhh
Confidence 6799 9999764
No 122
>PF04723 GRDA: Glycine reductase complex selenoprotein A; InterPro: IPR006812 Found in clostridia, this protein contains one active site selenocysteine and catalyses the reductive deamination of glycine, which is coupled to the esterification of orthophosphate resulting in the formation of ATP []. A member of this family may also exist in Treponema denticola [].; GO: 0030699 glycine reductase activity, 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process, 0030700 glycine reductase complex
Probab=25.20 E-value=1.3e+02 Score=23.04 Aligned_cols=42 Identities=31% Similarity=0.332 Sum_probs=25.2
Q ss_pred cCCcEEEEECC------cccc---cCCCCCCCCCc-cccccCCcccccChHh
Q psy14105 8 WYKNVSQEIAI------GISA---ESGIPTFRGDG-GWWRNNHVAHIANIES 49 (198)
Q Consensus 8 ~a~~ivi~tGA------GiS~---~sGiPdfr~~~-g~~~~~~~~~~~~~~~ 49 (198)
.+.++||+.|+ ||.+ ..|=|+|.|+- |.--.+...-++.++.
T Consensus 65 g~enlvVvlG~aeaE~a~laAETVt~GDPTfaGPLAgv~LgL~vYHi~EpE~ 116 (150)
T PF04723_consen 65 GAENLVVVLGAAEAEAAGLAAETVTNGDPTFAGPLAGVQLGLKVYHIVEPEI 116 (150)
T ss_pred CCccEEEEecCCChhhhhhhhhhhccCCCcccccccccccCceeEEecCHHH
Confidence 35677887775 4443 24669999973 5444444555555543
No 123
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=25.17 E-value=40 Score=19.73 Aligned_cols=11 Identities=45% Similarity=1.099 Sum_probs=8.6
Q ss_pred CCCCCCCCCeecc
Q psy14105 169 RCSDKACGGLLRP 181 (198)
Q Consensus 169 ~C~~~~Cgg~lrP 181 (198)
.|| .||+.|.-
T Consensus 3 ~CP--~Cg~~lv~ 13 (39)
T PF01396_consen 3 KCP--KCGGPLVL 13 (39)
T ss_pred CCC--CCCceeEE
Confidence 599 99987654
No 124
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=24.87 E-value=69 Score=27.00 Aligned_cols=25 Identities=28% Similarity=0.732 Sum_probs=19.4
Q ss_pred CCccccccccce--eeeCCCCcccccc
Q psy14105 111 RNVIELHGSLWR--TKCSWCDKVEENR 135 (198)
Q Consensus 111 ~~v~elHG~~~~--~~C~~C~~~~~~~ 135 (198)
..++.+-|..++ ++|..|++-.+..
T Consensus 72 q~~I~i~gk~~QhVVkC~~CnEATPIr 98 (256)
T PF09788_consen 72 QSLIDIEGKMHQHVVKCSVCNEATPIR 98 (256)
T ss_pred CceecccCccceeeEECCCCCcccccc
Confidence 568888888877 5899999876543
No 125
>COG1885 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.30 E-value=50 Score=24.05 Aligned_cols=22 Identities=23% Similarity=0.462 Sum_probs=17.1
Q ss_pred CCCCCCCCCCCeeccceEEcCCCC
Q psy14105 167 LPRCSDKACGGLLRPDIVWFGEQL 190 (198)
Q Consensus 167 ~P~C~~~~Cgg~lrP~vv~fgE~l 190 (198)
...|| +||..+.+-.+--+..|
T Consensus 49 ~t~CP--~Cg~~~e~~fvva~~aL 70 (115)
T COG1885 49 STSCP--KCGEPFESAFVVANTAL 70 (115)
T ss_pred cccCC--CCCCccceeEEEeccee
Confidence 46799 99999988877666544
No 126
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=24.20 E-value=47 Score=28.19 Aligned_cols=23 Identities=22% Similarity=0.250 Sum_probs=13.4
Q ss_pred Cccccccc----cceeeeCCCCccccc
Q psy14105 112 NVIELHGS----LWRTKCSWCDKVEEN 134 (198)
Q Consensus 112 ~v~elHG~----~~~~~C~~C~~~~~~ 134 (198)
.+..|+|. .++++|+-|+..|..
T Consensus 183 ~~s~l~~~~~~G~R~L~Cs~C~t~W~~ 209 (290)
T PF04216_consen 183 VLSVLRGGEREGKRYLHCSLCGTEWRF 209 (290)
T ss_dssp EEEEEE------EEEEEETTT--EEE-
T ss_pred ceEEEecCCCCccEEEEcCCCCCeeee
Confidence 45555554 488999999987753
No 127
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=23.87 E-value=23 Score=21.03 Aligned_cols=15 Identities=33% Similarity=0.736 Sum_probs=9.6
Q ss_pred CCCCCCCCCeeccceEE
Q psy14105 169 RCSDKACGGLLRPDIVW 185 (198)
Q Consensus 169 ~C~~~~Cgg~lrP~vv~ 185 (198)
.|+ .||.+|..+++.
T Consensus 21 vC~--~CG~Vl~e~~i~ 35 (43)
T PF08271_consen 21 VCP--NCGLVLEENIID 35 (43)
T ss_dssp EET--TT-BBEE-TTBS
T ss_pred ECC--CCCCEeeccccc
Confidence 699 998887766543
No 128
>PRK04351 hypothetical protein; Provisional
Probab=23.76 E-value=65 Score=24.82 Aligned_cols=16 Identities=13% Similarity=0.328 Sum_probs=12.0
Q ss_pred ccccceeeeCCCCccc
Q psy14105 117 HGSLWRTKCSWCDKVE 132 (198)
Q Consensus 117 HG~~~~~~C~~C~~~~ 132 (198)
-+.-...+|.+|+..+
T Consensus 107 ~~~~y~Y~C~~Cg~~~ 122 (149)
T PRK04351 107 QKKNYLYECQSCGQQY 122 (149)
T ss_pred CCceEEEECCCCCCEe
Confidence 3555778999999754
No 129
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=23.61 E-value=41 Score=21.63 Aligned_cols=12 Identities=42% Similarity=0.861 Sum_probs=9.1
Q ss_pred CCCCCCCCCCeecc
Q psy14105 168 PRCSDKACGGLLRP 181 (198)
Q Consensus 168 P~C~~~~Cgg~lrP 181 (198)
-.|| +|||.|-+
T Consensus 42 ~~CP--NCgGelv~ 53 (57)
T PF06906_consen 42 GVCP--NCGGELVR 53 (57)
T ss_pred CcCc--CCCCcccc
Confidence 5799 99997643
No 130
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=23.45 E-value=65 Score=24.34 Aligned_cols=13 Identities=15% Similarity=0.496 Sum_probs=10.1
Q ss_pred cceeeeCCCCccc
Q psy14105 120 LWRTKCSWCDKVE 132 (198)
Q Consensus 120 ~~~~~C~~C~~~~ 132 (198)
-..++|..|+..+
T Consensus 110 ~~~y~C~~C~~~~ 122 (146)
T smart00731 110 KYPYRCTGCGQRY 122 (146)
T ss_pred eEEEECCCCCCCC
Confidence 4678999999754
No 131
>PRK05978 hypothetical protein; Provisional
Probab=22.99 E-value=59 Score=25.12 Aligned_cols=14 Identities=29% Similarity=0.740 Sum_probs=10.2
Q ss_pred CCCCCCCCCCCeeccc
Q psy14105 167 LPRCSDKACGGLLRPD 182 (198)
Q Consensus 167 ~P~C~~~~Cgg~lrP~ 182 (198)
.++|+ .||..+.+.
T Consensus 52 ~~~C~--~CG~~~~~~ 65 (148)
T PRK05978 52 VDHCA--ACGEDFTHH 65 (148)
T ss_pred CCCcc--ccCCccccC
Confidence 47899 999765543
No 132
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=22.97 E-value=35 Score=19.54 Aligned_cols=14 Identities=43% Similarity=0.864 Sum_probs=6.3
Q ss_pred CCCCCCCCCeeccceE
Q psy14105 169 RCSDKACGGLLRPDIV 184 (198)
Q Consensus 169 ~C~~~~Cgg~lrP~vv 184 (198)
.|| .||+.|.-.|.
T Consensus 2 fC~--~CG~~l~~~ip 15 (34)
T PF14803_consen 2 FCP--QCGGPLERRIP 15 (34)
T ss_dssp B-T--TT--B-EEE--
T ss_pred ccc--cccChhhhhcC
Confidence 499 99999876664
No 133
>KOG2960|consensus
Probab=22.96 E-value=36 Score=28.48 Aligned_cols=25 Identities=24% Similarity=0.045 Sum_probs=19.3
Q ss_pred CccccccCCcEEEEECC-cccccCCC
Q psy14105 2 DFSVGKWYKNVSQEIAI-GISAESGI 26 (198)
Q Consensus 2 ~~~~~~~a~~ivi~tGA-GiS~~sGi 26 (198)
|+.+.++++.+++.+|+ |+|++-=|
T Consensus 70 DldkyAesDvviVGAGSaGLsAAY~I 95 (328)
T KOG2960|consen 70 DLDKYAESDVVIVGAGSAGLSAAYVI 95 (328)
T ss_pred HHHhhhccceEEECCCccccceeeee
Confidence 57777888888888775 88887555
No 134
>TIGR02321 Pphn_pyruv_hyd phosphonopyruvate hydrolase. This family consists of phosphonopyruvate hydrolase, an enzyme closely related to phosphoenolpyruvate phosphomutase. It cleaves the direct C-P bond of phosphonopyruvate. The characterized example is from Variovorax sp. Pal2.
Probab=22.05 E-value=30 Score=29.71 Aligned_cols=18 Identities=17% Similarity=0.093 Sum_probs=15.9
Q ss_pred EEEEECCcccccCCCCCC
Q psy14105 12 VSQEIAIGISAESGIPTF 29 (198)
Q Consensus 12 ivi~tGAGiS~~sGiPdf 29 (198)
.|..||+|+|++-|+||-
T Consensus 38 ai~~ss~~va~slG~pD~ 55 (290)
T TIGR02321 38 GIWGSGFELSASYAVPDA 55 (290)
T ss_pred EEEECHHHHHHHCCCCCc
Confidence 678899999999999984
No 135
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=21.71 E-value=50 Score=20.04 Aligned_cols=10 Identities=50% Similarity=1.189 Sum_probs=7.6
Q ss_pred CCCCCCCCCeec
Q psy14105 169 RCSDKACGGLLR 180 (198)
Q Consensus 169 ~C~~~~Cgg~lr 180 (198)
+|| .||+.++
T Consensus 1 ~CP--~Cg~~a~ 10 (47)
T PF04606_consen 1 RCP--HCGSKAR 10 (47)
T ss_pred CcC--CCCCeeE
Confidence 589 8998654
No 136
>PLN02294 cytochrome c oxidase subunit Vb
Probab=21.59 E-value=2e+02 Score=22.87 Aligned_cols=56 Identities=13% Similarity=0.120 Sum_probs=35.8
Q ss_pred CCccccccccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCCCCCCCCCCeeccceEEcCCC
Q psy14105 111 RNVIELHGSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPRCSDKACGGLLRPDIVWFGEQ 189 (198)
Q Consensus 111 ~~v~elHG~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~C~~~~Cgg~lrP~vv~fgE~ 189 (198)
..|+.=.++.+.+-|+ |+...+.. ..+| ..+.++..-+|| .||...+=.+|-=|+.
T Consensus 106 P~lVpS~~d~RiVGCt-g~~~eDsh-~v~W-------------------f~L~kGkp~RCp--eCG~~fkL~~vG~~~~ 161 (174)
T PLN02294 106 PAVVKSYYDKRIVGCP-GGEGEDEH-DVVW-------------------FWLEKGKSFECP--VCTQYFELEVVGPGGP 161 (174)
T ss_pred CcEeccCCCceEEeeC-CCCCCCCc-eeEE-------------------EEecCCCceeCC--CCCCEEEEEEeCCCCC
Confidence 4788888999999997 64321110 1111 124456677899 8999988887765553
No 137
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.55 E-value=57 Score=30.14 Aligned_cols=24 Identities=25% Similarity=0.468 Sum_probs=0.0
Q ss_pred cccceeeeCCCCcccccccCCccchhhcccCCCCCCCCCCccccccCCCCCCCCCCCCCCee
Q psy14105 118 GSLWRTKCSWCDKVEENRKIPIVPVLDEAICNPNASDVWYSDEEINVNDLPRCSDKACGGLL 179 (198)
Q Consensus 118 G~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~C~~~~Cgg~l 179 (198)
|-...+.|..|++ ..+|| +|++.|
T Consensus 209 Gya~~~~C~~Cg~------------------------------------~~~C~--~C~~~l 232 (505)
T TIGR00595 209 GYSKNLLCRSCGY------------------------------------ILCCP--NCDVSL 232 (505)
T ss_pred cCCCeeEhhhCcC------------------------------------ccCCC--CCCCce
No 138
>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=21.19 E-value=42 Score=22.19 Aligned_cols=14 Identities=14% Similarity=0.107 Sum_probs=11.3
Q ss_pred cEEEEECCcccccC
Q psy14105 11 NVSQEIAIGISAES 24 (198)
Q Consensus 11 ~ivi~tGAGiS~~s 24 (198)
+++++||+|++++.
T Consensus 2 kilivC~~G~~~s~ 15 (85)
T cd05568 2 KALVVCPSGIGTSR 15 (85)
T ss_pred eEEEECCCCHHHHH
Confidence 58888999988765
No 139
>COG4161 ArtP ABC-type arginine transport system, ATPase component [Amino acid transport and metabolism]
Probab=21.01 E-value=48 Score=26.60 Aligned_cols=12 Identities=25% Similarity=0.811 Sum_probs=10.9
Q ss_pred eeccceEEcCCC
Q psy14105 178 LLRPDIVWFGEQ 189 (198)
Q Consensus 178 ~lrP~vv~fgE~ 189 (198)
.|+|.|++|+|+
T Consensus 157 mmkpqvllfdep 168 (242)
T COG4161 157 MMEPQVLLFDEP 168 (242)
T ss_pred hcCCcEEeecCc
Confidence 589999999996
No 140
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=20.89 E-value=57 Score=19.07 Aligned_cols=18 Identities=28% Similarity=0.486 Sum_probs=10.4
Q ss_pred CCCCCCCCCCCeeccceEEc
Q psy14105 167 LPRCSDKACGGLLRPDIVWF 186 (198)
Q Consensus 167 ~P~C~~~~Cgg~lrP~vv~f 186 (198)
+++|. .|++.|=|-+.+-
T Consensus 2 p~rC~--~C~aylNp~~~~~ 19 (40)
T PF04810_consen 2 PVRCR--RCRAYLNPFCQFD 19 (40)
T ss_dssp S-B-T--TT--BS-TTSEEE
T ss_pred ccccC--CCCCEECCcceEc
Confidence 57899 9999998887664
No 141
>COG1933 Archaeal DNA polymerase II, large subunit [DNA replication, recombination, and repair]
Probab=20.50 E-value=53 Score=27.52 Aligned_cols=34 Identities=18% Similarity=0.169 Sum_probs=19.3
Q ss_pred cCCCCHHHHHHHHHHHHHhh----CCCceEEEeccccc
Q psy14105 70 SKAPNKAHYALARFEEECIR----QNKSFVLFTQNVDG 103 (198)
Q Consensus 70 ~~~Pn~~H~~L~~L~~~~~~----~g~~~~viTqNiD~ 103 (198)
.+.|...-..+...+.++.+ .|..+...|.+|+-
T Consensus 71 ~~~p~ei~~~~~~~~~rl~~~e~y~g~~~thdt~~I~~ 108 (253)
T COG1933 71 LKSPKELVGVIERVEDRLGKPEMYYGLKFTHDTDDIAL 108 (253)
T ss_pred CCCHHHHHHHHHHHHHhhcCcHhhccccccccccchhc
Confidence 44555554444444443221 25678888999884
Done!