Query 029051
Match_columns 200
No_of_seqs 90 out of 92
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 06:42:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029051.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029051hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02999 photosystem II oxygen 100.0 4.8E-68 1E-72 444.9 17.7 187 3-200 1-190 (190)
2 PLN02729 PSII-Q subunit 100.0 3.2E-64 6.9E-69 429.8 16.2 197 2-200 6-220 (220)
3 PF05757 PsbQ: Oxygen evolving 100.0 9.8E-58 2.1E-62 388.7 9.6 176 25-200 12-202 (202)
4 PLN02956 PSII-Q subunit 100.0 7.3E-42 1.6E-46 287.6 18.3 121 73-199 65-185 (185)
5 TIGR03042 PS_II_psbQ_bact phot 100.0 5.4E-30 1.2E-34 208.6 15.6 103 97-199 39-141 (142)
6 PRK14140 heat shock protein Gr 82.6 25 0.00053 30.3 10.9 54 147-200 78-135 (191)
7 PRK14150 heat shock protein Gr 78.1 33 0.00073 29.4 10.3 70 126-200 59-137 (193)
8 PRK14151 heat shock protein Gr 78.0 38 0.00082 28.7 10.4 53 148-200 62-119 (176)
9 PRK14145 heat shock protein Gr 73.7 51 0.0011 28.6 10.3 52 149-200 88-140 (196)
10 PRK14160 heat shock protein Gr 72.0 68 0.0015 28.1 11.4 90 102-200 62-156 (211)
11 PRK14154 heat shock protein Gr 69.7 70 0.0015 28.0 10.3 51 150-200 96-151 (208)
12 PRK14153 heat shock protein Gr 69.2 76 0.0016 27.5 10.3 70 126-200 54-131 (194)
13 PRK14143 heat shock protein Gr 68.8 85 0.0019 27.9 10.9 70 126-200 88-166 (238)
14 PF13801 Metal_resist: Heavy-m 67.4 42 0.00092 24.2 7.4 46 125-171 60-105 (125)
15 PF13413 HTH_25: Helix-turn-he 65.7 8.3 0.00018 27.1 3.2 53 91-143 8-62 (62)
16 PF10399 UCR_Fe-S_N: Ubiquitin 65.2 6.1 0.00013 26.3 2.2 21 37-58 5-25 (41)
17 PRK14158 heat shock protein Gr 58.8 1.2E+02 0.0026 26.2 10.6 53 148-200 82-137 (194)
18 PRK14141 heat shock protein Gr 58.5 1.3E+02 0.0028 26.4 10.4 54 147-200 72-135 (209)
19 PF11221 Med21: Subunit 21 of 55.8 63 0.0014 26.1 7.1 58 94-174 62-125 (144)
20 PRK14139 heat shock protein Gr 54.9 1.4E+02 0.003 25.7 9.7 52 149-200 75-128 (185)
21 PRK14156 heat shock protein Gr 52.7 1.5E+02 0.0032 25.3 10.4 73 127-200 49-122 (177)
22 PRK14147 heat shock protein Gr 52.0 1.4E+02 0.0031 25.1 10.7 54 147-200 59-114 (172)
23 PF10518 TAT_signal: TAT (twin 51.6 19 0.0004 21.5 2.5 19 41-59 2-20 (26)
24 PRK14155 heat shock protein Gr 50.7 91 0.002 27.2 7.7 52 149-200 56-114 (208)
25 CHL00102 rps20 ribosomal prote 49.4 65 0.0014 24.8 5.9 49 149-197 22-70 (93)
26 COG5420 Uncharacterized conser 49.3 45 0.00098 24.7 4.7 46 128-174 17-62 (71)
27 PRK14146 heat shock protein Gr 48.6 1.9E+02 0.0041 25.4 10.3 53 148-200 96-152 (215)
28 PF06248 Zw10: Centromere/kine 48.5 1.6E+02 0.0035 28.7 9.8 98 98-195 14-141 (593)
29 PF05960 DUF885: Bacterial pro 47.6 1.6E+02 0.0035 27.8 9.5 91 100-190 110-233 (549)
30 PRK14163 heat shock protein Gr 47.3 2E+02 0.0043 25.4 9.3 49 149-200 83-131 (214)
31 PRK10455 periplasmic protein; 46.3 1.7E+02 0.0038 24.3 9.7 15 44-58 2-16 (161)
32 PRK14164 heat shock protein Gr 45.7 1.7E+02 0.0036 25.9 8.6 50 149-200 113-162 (218)
33 PRK14161 heat shock protein Gr 42.4 2.1E+02 0.0046 24.3 10.5 54 147-200 60-119 (178)
34 PRK14149 heat shock protein Gr 41.6 1.7E+02 0.0036 25.3 7.8 54 147-200 77-134 (191)
35 PRK14142 heat shock protein Gr 41.3 1E+02 0.0023 27.4 6.7 50 149-200 76-125 (223)
36 PF01322 Cytochrom_C_2: Cytoch 41.3 82 0.0018 24.1 5.4 45 147-191 67-113 (122)
37 TIGR01042 V-ATPase_V1_A V-type 40.6 1.7E+02 0.0037 29.6 8.7 79 84-166 497-590 (591)
38 TIGR02811 formate_TAT formate 39.9 35 0.00077 24.6 3.0 15 40-54 8-22 (66)
39 PF12318 FAD-SLDH: Membrane bo 39.5 1.3E+02 0.0028 25.1 6.7 19 104-122 72-90 (168)
40 PRK14148 heat shock protein Gr 39.3 2.5E+02 0.0055 24.2 10.2 53 148-200 82-138 (195)
41 KOG4519 Phosphomevalonate kina 39.0 68 0.0015 30.9 5.4 66 110-175 247-330 (459)
42 PF08281 Sigma70_r4_2: Sigma-7 37.2 1.1E+02 0.0025 19.6 6.2 52 137-191 1-53 (54)
43 PRK10325 heat shock protein Gr 36.9 2.7E+02 0.0059 23.9 9.5 50 151-200 84-138 (197)
44 PRK14144 heat shock protein Gr 36.0 3E+02 0.0064 24.0 9.9 52 149-200 88-142 (199)
45 PF10907 DUF2749: Protein of u 34.7 24 0.00052 26.0 1.4 49 42-95 2-52 (66)
46 PF05082 Rop-like: Rop-like; 34.5 1E+02 0.0022 22.6 4.7 45 128-173 13-57 (66)
47 PF08006 DUF1700: Protein of u 34.0 1.4E+02 0.0031 24.3 6.1 26 140-165 10-35 (181)
48 PRK10803 tol-pal system protei 32.7 3.5E+02 0.0076 23.9 10.4 51 93-145 53-103 (263)
49 PRK14162 heat shock protein Gr 31.5 3.4E+02 0.0074 23.4 10.5 93 99-200 37-137 (194)
50 COG3678 CpxP P pilus assembly/ 31.5 3.1E+02 0.0068 22.9 8.8 87 71-172 31-119 (160)
51 PRK14159 heat shock protein Gr 31.2 3.3E+02 0.0072 23.1 9.6 54 147-200 64-121 (176)
52 PF08802 CytB6-F_Fe-S: Cytochr 31.0 55 0.0012 21.7 2.5 19 40-58 5-23 (39)
53 PF14425 Imm3: Immunity protei 31.0 2.6E+02 0.0056 22.6 6.8 77 90-168 21-108 (117)
54 PF01025 GrpE: GrpE; InterPro 30.7 2.8E+02 0.006 22.1 10.5 48 153-200 58-109 (165)
55 COG1426 Predicted transcriptio 30.5 56 0.0012 29.5 3.3 64 85-148 8-73 (284)
56 PLN00042 photosystem II oxygen 30.0 60 0.0013 29.5 3.4 28 28-56 37-64 (260)
57 cd00446 GrpE GrpE is the adeni 29.8 2.8E+02 0.006 21.8 7.7 52 149-200 28-83 (137)
58 PF05957 DUF883: Bacterial pro 29.7 2.3E+02 0.005 20.8 6.5 64 132-196 6-69 (94)
59 cd06845 Bcl-2_like Apoptosis r 29.4 2.6E+02 0.0056 22.0 6.7 55 92-165 28-82 (144)
60 TIGR01409 TAT_signal_seq Tat ( 28.8 54 0.0012 19.7 2.1 17 42-59 2-18 (29)
61 PRK09706 transcriptional repre 28.6 1E+02 0.0022 24.0 4.1 32 138-169 90-121 (135)
62 PLN03184 chloroplast Hsp70; Pr 28.5 6.2E+02 0.013 25.4 11.6 46 146-198 588-633 (673)
63 PF05055 DUF677: Protein of un 27.5 5.1E+02 0.011 24.2 9.1 19 159-177 270-288 (336)
64 PRK05685 fliS flagellar protei 27.0 3.2E+02 0.0069 21.6 7.1 63 135-199 10-72 (132)
65 PF08988 DUF1895: Protein of u 26.4 2.1E+02 0.0045 20.9 5.1 52 110-162 1-53 (68)
66 COG5057 LAG1 Phosphotyrosyl ph 26.0 76 0.0017 29.9 3.4 40 160-199 32-71 (353)
67 PRK00239 rpsT 30S ribosomal pr 25.5 2.8E+02 0.0062 21.0 5.9 29 169-197 35-63 (88)
68 COG0576 GrpE Molecular chapero 25.5 4.3E+02 0.0092 22.6 9.8 53 148-200 78-135 (193)
69 PLN00058 photosystem II reacti 25.2 72 0.0016 25.3 2.6 52 3-54 1-62 (103)
70 PF14276 DUF4363: Domain of un 24.5 3.2E+02 0.007 20.8 8.8 82 108-196 30-111 (121)
71 TIGR00029 S20 ribosomal protei 24.1 3.1E+02 0.0067 20.8 5.9 30 168-197 34-63 (87)
72 PRK11546 zraP zinc resistance 23.9 2E+02 0.0044 23.8 5.2 36 128-165 65-101 (143)
73 PRK07502 cyclohexadienyl dehyd 23.7 2.3E+02 0.0049 24.9 5.9 59 137-195 223-288 (307)
74 PF12732 YtxH: YtxH-like prote 23.2 2.7E+02 0.0059 19.6 5.2 26 149-174 25-50 (74)
75 PRK14157 heat shock protein Gr 23.1 5.4E+02 0.012 22.9 10.2 48 150-200 121-168 (227)
76 PF14304 CSTF_C: Transcription 23.1 68 0.0015 22.0 1.9 23 142-164 20-42 (46)
77 cd02682 MIT_AAA_Arch MIT: doma 22.8 1.2E+02 0.0027 22.4 3.4 24 174-197 18-41 (75)
78 KOG0375 Serine-threonine phosp 22.7 32 0.0007 33.4 0.4 60 83-146 49-109 (517)
79 PRK13474 cytochrome b6-f compl 22.7 93 0.002 26.1 3.1 14 37-50 8-21 (178)
80 PF01093 Clusterin: Clusterin; 22.6 1.6E+02 0.0036 28.6 5.1 59 100-174 15-75 (436)
81 cd07625 BAR_Vps17p The Bin/Amp 21.6 4.9E+02 0.011 23.0 7.5 107 84-195 25-131 (230)
82 PRK11582 flagella biosynthesis 21.3 77 0.0017 27.2 2.3 23 107-129 46-68 (169)
83 PF13324 GCIP: Grap2 and cycli 21.2 5.6E+02 0.012 22.4 9.2 96 102-198 39-141 (275)
84 PF12805 FUSC-like: FUSC-like 20.6 3E+02 0.0064 24.1 6.0 42 151-193 237-278 (284)
85 PF03272 Enhancin: Viral enhan 20.6 2.7E+02 0.0058 28.9 6.4 67 85-164 649-718 (775)
86 PF08066 PMC2NT: PMC2NT (NUC01 20.4 2.6E+02 0.0056 20.7 4.8 49 151-199 33-81 (91)
87 KOG4340 Uncharacterized conser 20.4 2.8E+02 0.006 26.8 5.9 119 77-198 289-412 (459)
88 TIGR02774 rexB_recomb ATP-depe 20.3 4.4E+02 0.0096 28.2 8.0 120 77-200 378-513 (1076)
89 TIGR03823 FliZ flagellar regul 20.3 83 0.0018 26.9 2.3 24 106-129 45-68 (168)
No 1
>PLN02999 photosystem II oxygen-evolving enhancer 3 protein (PsbQ)
Probab=100.00 E-value=4.8e-68 Score=444.93 Aligned_cols=187 Identities=53% Similarity=0.868 Sum_probs=178.8
Q ss_pred CCCCCCCccchhhc--cccccCCCCCCCCccCCccC-CCCCchhHHHHHHHHHHHHHHhhhccCCCCCCCCCcccccccc
Q 029051 3 SSSFSKATSLLQAH--NVTNNHNPKTSLPEIKPKAT-QNPIPSRRNFVTTLISTSLALVGLHGDGIGSSSGASVALAESW 79 (200)
Q Consensus 3 ~~s~~~~~~~~~~~--~~~~~~~~~~~~~~~~~s~~-~~~~~~RR~~l~~l~at~~a~~~~~~~~i~~~~~~p~~l~~~~ 79 (200)
||||||+| ++|++ ++..||+.+.+.+++.+|.+ ++++++||.+|++|+||+++|++ ..|++++|+|
T Consensus 1 m~s~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rr~~~~~~l~~~~~~~~----------~~~~~~~e~~ 69 (190)
T PLN02999 1 MSSFTTTN-TPPPYLLRKIYHRRVNQPFSVVCCTGEPQQDIFTRRRTLTSLITFTVIGGA----------TSSALAQEKW 69 (190)
T ss_pred CCcccCCC-CCCcccccccccccccCcchhhhcCCCchhhhHHHHHHHHHHHHHHHHhhc----------cCcHHHHhhh
Confidence 89999866 99997 55678888889999999998 99999999999999999998776 5688999999
Q ss_pred ccchhhhhccccCCCChHHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhcCChHhhHHHHHHH
Q 029051 80 GTRSFLKERFFEPGLSPEDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFSTLPEVRRREYVNTA 159 (200)
Q Consensus 80 ~tr~~lk~rf~~~~ls~~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La 159 (200)
|||||||||||+||+||+||++|||++|++|++||+|||+++|+|||+|||++++||+|||++||+++|+++|++|++|+
T Consensus 70 GtRsfLKerfy~p~lspeeAaaRiK~sA~dLl~vK~LId~~aW~YVq~~LRlkasyLryDL~tiIsskP~~eK~~L~~La 149 (190)
T PLN02999 70 GTRSFIKEKYFMPGLSPEDAAARIKQTAEGLRDMREMLDHMSWRYVIFYIRLKQAYLSQDLTNAMNILPESRRNDYVQAA 149 (190)
T ss_pred hhHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHhcCCHhhhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 160 NDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 160 ~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
++|||||++||||||+||++|+++||++||++|||||+.||
T Consensus 150 nkLFdnvt~LDyAAR~K~~~eae~yY~~Tv~slddVl~~l~ 190 (190)
T PLN02999 150 NELVENMSELDYYVRTPKVYESYLYYEKTLKSIDNVVELLA 190 (190)
T ss_pred HHHhhhHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHhC
Confidence 99999999999999999999999999999999999999986
No 2
>PLN02729 PSII-Q subunit
Probab=100.00 E-value=3.2e-64 Score=429.80 Aligned_cols=197 Identities=21% Similarity=0.235 Sum_probs=176.7
Q ss_pred CCCCCCCCccchhhccccccCCCC---CCCCccCCccC-CCCC--chhHHHHHHHHHHHHHHhhh-----ccC---CCCC
Q 029051 2 NSSSFSKATSLLQAHNVTNNHNPK---TSLPEIKPKAT-QNPI--PSRRNFVTTLISTSLALVGL-----HGD---GIGS 67 (200)
Q Consensus 2 ~~~s~~~~~~~~~~~~~~~~~~~~---~~~~~~~~s~~-~~~~--~~RR~~l~~l~at~~a~~~~-----~~~---~i~~ 67 (200)
|.++.|+ |.|.|+++...+++++ ..++.|+.... |++. ++||++|| |+|+||+++++ +++ |+||
T Consensus 6 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~~~~rr~~lg-l~a~~l~~~s~~~~~~A~~~~i~~~~ 83 (220)
T PLN02729 6 NLNGLTE-TLPAIPKLRNLQRTRKRGKIIGFLCKKAENFQEDSFQTTRRLALG-LASIALIGNSGNGVSLAEDNGFWLDG 83 (220)
T ss_pred ccccccc-ccccchhhhcchhhhhhhhhhhHhhhhhhhcccchhhhhHHHHHH-HHHHHHhcchhhhHHHhcccCceeCC
Confidence 6788888 8999999885555444 44888888887 4443 69999999 99999997754 322 9999
Q ss_pred CCCCcccc----ccccccchhhhhccccCCCChHHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHH
Q 029051 68 SSGASVAL----AESWGTRSFLKERFFEPGLSPEDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTA 143 (200)
Q Consensus 68 ~~~~p~~l----~~~~~tr~~lk~rf~~~~ls~~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tl 143 (200)
|+|||.-+ .|+||+|+|||||||+||++|+||++|||++|++|++||+|||+++|+|||+|||+|++||||||++|
T Consensus 84 P~P~pst~n~~~~e~~gtRsfLKerfy~~~l~p~~aa~RiK~sA~dLl~vKdLId~~sW~yVq~~LRLKAsyL~yDL~tv 163 (220)
T PLN02729 84 PLPVPSVDNKIVNEKTGTRSFLKKGIYMADIGTKGRMYRVKKYAFDLLALEDLIGPDTLNYVRKYLRLKSTFMYYDFDKL 163 (220)
T ss_pred CCCCCccccccccccchHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHH
Confidence 85555544 37899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCChHhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 144 FSTLPEVRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 144 isskPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
|+++|+++|++|++|+|+||++|++||||||+||++++++||++|+++|||||++++
T Consensus 164 IsskP~~eKk~L~~LankLFdn~~eLD~AaR~Ks~~eae~yY~~Tv~aLdeVl~k~~ 220 (220)
T PLN02729 164 ISAAPVDDKQPLTDLANRLFDNFEKLEDASKRKNLSETESSYKDTKTLLQEVMDRMA 220 (220)
T ss_pred hccCChhhhHHHHHHHHHHHhhHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999999999999999999999999999999999985
No 3
>PF05757 PsbQ: Oxygen evolving enhancer protein 3 (PsbQ); InterPro: IPR008797 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII OEC protein PsbQ. Both PsbQ and PsbP (IPR002683 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. The crystal structure of PsbQ from spinach revealed a 4-helical bundle polypeptide. The distribution of positive and negative charges on the protein surface might explain the ability of PsbQ to increase the binding of chloride and calcium ions and make them available to PSII [].; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 1VYK_A 1NZE_A 3LS1_A 3LS0_A.
Probab=100.00 E-value=9.8e-58 Score=388.70 Aligned_cols=176 Identities=36% Similarity=0.583 Sum_probs=105.4
Q ss_pred CCCCCccCCccC-CCCCchhHHHHHHHHHHHHHHhhhccC--------CCCCCCCCcccc---ccccccchh---hhhcc
Q 029051 25 KTSLPEIKPKAT-QNPIPSRRNFVTTLISTSLALVGLHGD--------GIGSSSGASVAL---AESWGTRSF---LKERF 89 (200)
Q Consensus 25 ~~~~~~~~~s~~-~~~~~~RR~~l~~l~at~~a~~~~~~~--------~i~~~~~~p~~l---~~~~~tr~~---lk~rf 89 (200)
..+.++||++.+ ++..++||++||+|+|++++++++++. +|++||||++++ .+.||+|+| +|+||
T Consensus 12 ~r~~~~vra~~~~~~~~~~RRa~l~~l~a~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~g~~~~~~aRd~~l~lk~rf 91 (202)
T PF05757_consen 12 RRAGVVVRASQSPAQQQTSRRAVLGSLLAAALAGGSFAQAAAAAAWAIKVGLPPPPSGNLPGTNNSDGARDFDLPLKERF 91 (202)
T ss_dssp ---------------------------------------------S-EE---------------------------TT--
T ss_pred ccccceeccccCcccccccHHHHHHHHHHHHHHhhhcccccccchhhhccCCCCCCCCCCCCccccccccccccchhhce
Confidence 345788999986 566689999999999999997764322 678877777654 599999999 99999
Q ss_pred ccCCCChHHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhcCChHhhHHHHHHHHHHHHhhHhH
Q 029051 90 FEPGLSPEDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFSTLPEVRRREYVNTANDLIDNMAEF 169 (200)
Q Consensus 90 ~~~~ls~~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La~kLF~~le~L 169 (200)
|+|++||+||++|||++|++|+.|++|||+++|+|||+|||+|++||||||++||+++|+++||++++|+|+||++||+|
T Consensus 92 ~~~~l~~~ea~~Rik~sa~~L~~lk~lIdk~sW~~v~~~LRlka~~Lr~DL~~liss~p~~~kk~l~~La~~lf~~ie~L 171 (202)
T PF05757_consen 92 YIQPLSPEEAAARIKESAKRLLSLKELIDKKSWPYVRNYLRLKAGYLRYDLNTLISSKPKDEKKALTDLANKLFDNIEEL 171 (202)
T ss_dssp EE----CCCHHHHHHHHHHHHCCCHHHHHTT-HHHHHHHHHCCCCCHHHHHHHHHCCS-HHHHHHHHHHHHHHHHHHHHH
T ss_pred ecCCCCHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHhHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhCCChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 170 DYYVRTPKVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 170 D~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
|||+|+||.+++++||++|+++|||||++||
T Consensus 172 D~Aar~K~~~~a~~~Y~~t~~~Ldevla~la 202 (202)
T PF05757_consen 172 DYAARSKDVPEAEKYYADTVKALDEVLAKLA 202 (202)
T ss_dssp HHHHHTT-HHHHHHHHHHHHHHHHHHHCCH-
T ss_pred HHHHHCCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence 9999999999999999999999999999987
No 4
>PLN02956 PSII-Q subunit
Probab=100.00 E-value=7.3e-42 Score=287.59 Aligned_cols=121 Identities=24% Similarity=0.413 Sum_probs=116.0
Q ss_pred cccccccccchhhhhccccCCCChHHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhcCChHhh
Q 029051 73 VALAESWGTRSFLKERFFEPGLSPEDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFSTLPEVRR 152 (200)
Q Consensus 73 ~~l~~~~~tr~~lk~rf~~~~ls~~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlisskPkd~K 152 (200)
+.-+..+|.| ||+|+++||||++|||++|++|++||+||++++|+|||||||+|++||+|||++||+++|+++|
T Consensus 65 ~~~a~~f~~~------~~~p~~speeA~ar~k~~A~~l~~LK~LI~k~~W~yvrn~LRgp~s~Lr~DL~~Ii~slpp~Dr 138 (185)
T PLN02956 65 VAIAFGFDLR------LTAPERTVEEAESGVRGHAENLLRVKALIESESWKEAQKALRRSASNLKQDLYAIIQAKPGKDR 138 (185)
T ss_pred hhhcccccee------ecCCCCCHHHHHHHHHHHHHHHHHHHHHhhhccHHHHHHHHHccHHHHHHHHHHHHHhcCHhHh
Confidence 3445666776 9999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHhh
Q 029051 153 REYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAMF 199 (200)
Q Consensus 153 k~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l 199 (200)
+++++|+++||++|++||||||.||.+++++||++|+++||+||++|
T Consensus 139 k~a~~La~~LFd~l~~LD~AAR~kd~~~a~k~Y~~tva~lD~Vl~~i 185 (185)
T PLN02956 139 PQLRRLYSDLFNSVTKLDYAARDKDETRVWEYYENIVASLDDIFSRI 185 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999999999986
No 5
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=99.97 E-value=5.4e-30 Score=208.59 Aligned_cols=103 Identities=16% Similarity=0.257 Sum_probs=99.7
Q ss_pred HHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhcCChHhhHHHHHHHHHHHHhhHhHHHHhhCC
Q 029051 97 EDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFSTLPEVRRREYVNTANDLIDNMAEFDYYVRTP 176 (200)
Q Consensus 97 ~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La~kLF~~le~LD~Aar~K 176 (200)
++-+.+|.+.+++|.+|+.||++++|++|||+||+++|+||+||++||+++|+++||++++|+++||+++++||+||+.|
T Consensus 39 ~~~~~~i~~~~~r~~eLk~lI~kk~W~~vrn~irgp~g~Lr~dl~~l~~sl~p~dqk~a~~L~~~Lf~~L~~LD~AA~~k 118 (142)
T TIGR03042 39 QRQAEGIEAAKDRLPELASLVAKEDWVFTRNLIHGPMGEVRREMTYLNQSLLPKDQKEALALAKELKDDLEKLDEAARLQ 118 (142)
T ss_pred HHHHHHHHHHHHhhHHHHHHHhhcchHHHHHHHhccHHHHHHHHHHHHHccCHHhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhh
Q 029051 177 KVYESYLYYEKALKNLDDIVAMF 199 (200)
Q Consensus 177 n~~~a~~~Y~~tv~~LdevLa~l 199 (200)
|.+++++||++++++||++++.|
T Consensus 119 d~~~a~k~Y~~av~~~dafl~~~ 141 (142)
T TIGR03042 119 DGPQAQKAYQKAAADFDAYLDLL 141 (142)
T ss_pred CHHHHHHHHHHHHHHHHHHHhhC
Confidence 99999999999999999999865
No 6
>PRK14140 heat shock protein GrpE; Provisional
Probab=82.58 E-value=25 Score=30.34 Aligned_cols=54 Identities=13% Similarity=0.063 Sum_probs=36.8
Q ss_pred CChHhhHHHHHHHHHHHHhhHhHHHHhhCCChHH----HHHHHHHHHHHHHHHHHhhC
Q 029051 147 LPEVRRREYVNTANDLIDNMAEFDYYVRTPKVYE----SYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 147 kPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~----a~~~Y~~tv~~LdevLa~l~ 200 (200)
.....+-...++..+|+.-+|+|+.|....+... ...-++-+.+.|..+|.+.|
T Consensus 78 ~~~~~~~a~~~~~~~LLpvlDnLerAl~~~~~~~~~~~i~~Gv~mi~k~l~~~L~k~G 135 (191)
T PRK14140 78 NEAAEKYRAQSLASDLLPALDNFERALQIEADDEQTKSLLKGVEMVHRQLLEALKKEG 135 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccchHHHHHHHHHHHHHHHHHHHHHCC
Confidence 3444555777889999999999999987543222 22334556777777777654
No 7
>PRK14150 heat shock protein GrpE; Provisional
Probab=78.14 E-value=33 Score=29.35 Aligned_cols=70 Identities=17% Similarity=0.152 Sum_probs=43.0
Q ss_pred HHHHhhhhhhhHHHHHHHhhc----CChHhhHHHHHHHHHHHHhhHhHHHHhhCCC--hH---HHHHHHHHHHHHHHHHH
Q 029051 126 IFYIRLKQAYLSQDLKTAFST----LPEVRRREYVNTANDLIDNMAEFDYYVRTPK--VY---ESYLYYEKALKNLDDIV 196 (200)
Q Consensus 126 r~~LRlka~~Lr~DL~tliss----kPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn--~~---~a~~~Y~~tv~~LdevL 196 (200)
-.|||+.+- +.++-.. +....+-....++.+|+.-+|+|+.|....+ .. ....-++-+.+.|..+|
T Consensus 59 d~~lR~~Ae-----feN~rkR~~kE~~~~~~~a~~~~~~~lL~v~DnlerAl~~~~~~~~~~~~~~~Gv~mi~~~l~~~L 133 (193)
T PRK14150 59 DSVLRARAE-----VENIRRRAEQDVEKAHKFALEKFANELLPVIDNLERALQAADKENEALKALIEGVELTLKSLLDTV 133 (193)
T ss_pred HHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHhcccccchhHHHHHHHHHHHHHHHHHHH
Confidence 456666664 4333322 3344455677889999999999999986322 12 22334455666777777
Q ss_pred HhhC
Q 029051 197 AMFA 200 (200)
Q Consensus 197 a~l~ 200 (200)
.+.|
T Consensus 134 ~~~G 137 (193)
T PRK14150 134 AKFG 137 (193)
T ss_pred HHCC
Confidence 6654
No 8
>PRK14151 heat shock protein GrpE; Provisional
Probab=77.99 E-value=38 Score=28.71 Aligned_cols=53 Identities=13% Similarity=0.121 Sum_probs=37.1
Q ss_pred ChHhhHHHHHHHHHHHHhhHhHHHHhhCCC-----hHHHHHHHHHHHHHHHHHHHhhC
Q 029051 148 PEVRRREYVNTANDLIDNMAEFDYYVRTPK-----VYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 148 Pkd~Kk~l~~La~kLF~~le~LD~Aar~Kn-----~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
....+-....++.+|+.-+|+|+.|....+ ......-++-+.+.|.++|.+.|
T Consensus 62 e~~~~~a~~~~~~~LLpv~DnlerAl~~~~~~~~~~~~~~~Gv~mi~k~l~~~L~k~G 119 (176)
T PRK14151 62 EKAHKFALEKFAGDLLPVVDSLERGLELSSADDEAIKPMREGVELTLKMFQDTLKRYQ 119 (176)
T ss_pred HHHHHHHHHHHHHHHhhHHhHHHHHHhcccccchhHHHHHHHHHHHHHHHHHHHHHCC
Confidence 344455667889999999999999976422 12334456667778888887765
No 9
>PRK14145 heat shock protein GrpE; Provisional
Probab=73.73 E-value=51 Score=28.58 Aligned_cols=52 Identities=13% Similarity=0.126 Sum_probs=37.0
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHHhhCC-ChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYYVRTP-KVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~Aar~K-n~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
...+-...+++.+|+.-+|+|+.|.... +......-.+-|.+.|..+|.+.|
T Consensus 88 ~~~~~a~e~~~~~LLpV~DnLerAl~~~~~~~~l~~Gv~mi~k~l~~vL~k~G 140 (196)
T PRK14145 88 EMVEYGKEQVILELLPVMDNFERALASSGDYNSLKEGIELIYRQFKKILDKFG 140 (196)
T ss_pred HHHHHHHHHHHHHHHhHHhHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHCC
Confidence 3445567788999999999999998662 333334456677777777777654
No 10
>PRK14160 heat shock protein GrpE; Provisional
Probab=72.05 E-value=68 Score=28.11 Aligned_cols=90 Identities=9% Similarity=0.060 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhc----CChHhhHHHHHHHHHHHHhhHhHHHHhhC-C
Q 029051 102 RIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFST----LPEVRRREYVNTANDLIDNMAEFDYYVRT-P 176 (200)
Q Consensus 102 RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tliss----kPkd~Kk~l~~La~kLF~~le~LD~Aar~-K 176 (200)
.+....+.+..++.-++ .+--.|||..+-| .+.-.. +....+-...++.++|+.-+|+|+.|... +
T Consensus 62 e~~~l~~~l~~l~~e~~----elkd~~lR~~Aef-----eN~RKR~~kE~e~~~~~a~e~~~~~LLpVlDnLerAl~~~~ 132 (211)
T PRK14160 62 ENNKLKEENKKLENELE----ALKDRLLRTVAEY-----DNYRKRTAKEKEGIYSDACEDVLKELLPVLDNLERAAAVEG 132 (211)
T ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHhccc
Confidence 33334444444444433 2234556666654 332222 34445667788999999999999999764 3
Q ss_pred ChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 177 KVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 177 n~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
+......-++-|.+.|..+|.+.|
T Consensus 133 ~~~~l~~Gv~mi~kql~~vL~k~G 156 (211)
T PRK14160 133 SVEDLKKGIEMTVKQFKTSLEKLG 156 (211)
T ss_pred chhHHHHHHHHHHHHHHHHHHHCC
Confidence 333344556667777777887765
No 11
>PRK14154 heat shock protein GrpE; Provisional
Probab=69.65 E-value=70 Score=28.04 Aligned_cols=51 Identities=12% Similarity=0.005 Sum_probs=33.4
Q ss_pred HhhHHHHHHHHHHHHhhHhHHHHhhCC--Ch---HHHHHHHHHHHHHHHHHHHhhC
Q 029051 150 VRRREYVNTANDLIDNMAEFDYYVRTP--KV---YESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 150 d~Kk~l~~La~kLF~~le~LD~Aar~K--n~---~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
..+-....++.+|+.-+|+|+.|...- .. .....=.+-+.+.|..+|.+.|
T Consensus 96 ~~~~a~e~~~~~LLpVlDnLeRAL~~~~~~~~~~~~l~eGvemi~k~l~~vL~k~G 151 (208)
T PRK14154 96 IIKFGSKQLITDLLPVADSLIHGLESPASEDPQVKSMRDGMSLTLDLLHNTLAKHG 151 (208)
T ss_pred HHHHHHHHHHHHHhhHHhHHHHHHhcccccchhHHHHHHHHHHHHHHHHHHHHHCC
Confidence 344566778899999999999998642 11 2223334456666777776654
No 12
>PRK14153 heat shock protein GrpE; Provisional
Probab=69.24 E-value=76 Score=27.47 Aligned_cols=70 Identities=14% Similarity=0.141 Sum_probs=43.0
Q ss_pred HHHHhhhhhhhHHHHHHHhhc----CChHhhHHHHHHHHHHHHhhHhHHHHhhCC----ChHHHHHHHHHHHHHHHHHHH
Q 029051 126 IFYIRLKQAYLSQDLKTAFST----LPEVRRREYVNTANDLIDNMAEFDYYVRTP----KVYESYLYYEKALKNLDDIVA 197 (200)
Q Consensus 126 r~~LRlka~~Lr~DL~tliss----kPkd~Kk~l~~La~kLF~~le~LD~Aar~K----n~~~a~~~Y~~tv~~LdevLa 197 (200)
-.|||+.+-| .+.... +-.-.+-....++.+|+.-+|+|+.|.... +......-++-+.+.|..+|.
T Consensus 54 d~~lR~~AEf-----eN~rKR~~kE~e~~~~~a~~~~~~~LLpv~DnLerAl~~~~~~~~~~~l~~Gvemi~k~~~~vL~ 128 (194)
T PRK14153 54 EQLFRLAAEF-----DNFRKRTAREMEENRKFVLEQVLLDLLEVTDNFERALESARTAEDMNSIVEGIEMVSKQFFSILE 128 (194)
T ss_pred HHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHhcccccchHHHHHHHHHHHHHHHHHHHH
Confidence 4456655543 333333 334445567788999999999999998643 222233345566677777776
Q ss_pred hhC
Q 029051 198 MFA 200 (200)
Q Consensus 198 ~l~ 200 (200)
+.|
T Consensus 129 k~G 131 (194)
T PRK14153 129 KYG 131 (194)
T ss_pred HCC
Confidence 654
No 13
>PRK14143 heat shock protein GrpE; Provisional
Probab=68.80 E-value=85 Score=27.92 Aligned_cols=70 Identities=14% Similarity=0.213 Sum_probs=44.6
Q ss_pred HHHHhhhhhhhHHHHHHHhhc----CChHhhHHHHHHHHHHHHhhHhHHHHhhCC-----ChHHHHHHHHHHHHHHHHHH
Q 029051 126 IFYIRLKQAYLSQDLKTAFST----LPEVRRREYVNTANDLIDNMAEFDYYVRTP-----KVYESYLYYEKALKNLDDIV 196 (200)
Q Consensus 126 r~~LRlka~~Lr~DL~tliss----kPkd~Kk~l~~La~kLF~~le~LD~Aar~K-----n~~~a~~~Y~~tv~~LdevL 196 (200)
-.|||+.+-| .+.-.. +-.-.+.....++.+|+.-+|+|+.|...- +...-.+-|+-+.+.|..+|
T Consensus 88 d~~lR~~Adf-----eN~RKR~~kE~e~~~~~a~~~~~~~lLpV~DnLerAl~~~~~~~~~~~~l~~Gve~i~k~l~~~L 162 (238)
T PRK14143 88 SQYMRIAADF-----DNFRKRTSREQEDLRLQLKCNTLSEILPVVDNFERARQQLKPEGEEAQALHRSYQGLYKQLVDVL 162 (238)
T ss_pred HHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhcccccchhHHHHHHHHHHHHHHHHHHH
Confidence 3466666644 333322 223345567788999999999999996531 12233455777778888888
Q ss_pred HhhC
Q 029051 197 AMFA 200 (200)
Q Consensus 197 a~l~ 200 (200)
.+.|
T Consensus 163 ~k~G 166 (238)
T PRK14143 163 KRLG 166 (238)
T ss_pred HHCC
Confidence 7765
No 14
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=67.37 E-value=42 Score=24.19 Aligned_cols=46 Identities=13% Similarity=0.143 Sum_probs=33.0
Q ss_pred HHHHHhhhhhhhHHHHHHHhhcCChHhhHHHHHHHHHHHHhhHhHHH
Q 029051 125 VIFYIRLKQAYLSQDLKTAFSTLPEVRRREYVNTANDLIDNMAEFDY 171 (200)
Q Consensus 125 vr~~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La~kLF~~le~LD~ 171 (200)
-...+|....-++.+|..++.+-+.|.. .+..+..++-+.-.+++.
T Consensus 60 ~~~~~r~~~~~~r~~l~~ll~~~~~D~~-~i~a~~~~~~~~~~~l~~ 105 (125)
T PF13801_consen 60 EMRALRQELRAARQELRALLAAPPPDEA-AIEALLEEIREAQAELRQ 105 (125)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCCSSS-HH-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHHHHHHHHH
Confidence 3456777778899999999999666555 677777777666555544
No 15
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=65.72 E-value=8.3 Score=27.10 Aligned_cols=53 Identities=23% Similarity=0.244 Sum_probs=38.5
Q ss_pred cCCCChHHHHHHHHHHHHHHHHhHHH-hhh-hcHHHHHHHHhhhhhhhHHHHHHH
Q 029051 91 EPGLSPEDAVARIKQTAEGMHSLREM-VDR-MAWRYVIFYIRLKQAYLSQDLKTA 143 (200)
Q Consensus 91 ~~~ls~~eA~~RIk~~A~~L~~lk~l-Id~-~sW~yvr~~LRlka~~Lr~DL~tl 143 (200)
..|+|.++....++-...-|.+||.. .+. ..+.|++.|||.=+.+|.-|-+.|
T Consensus 8 ~~glsl~~va~~t~I~~~~l~aiE~~~~~~lp~~~y~rg~lr~Ya~~Lgld~~~l 62 (62)
T PF13413_consen 8 AKGLSLEDVAEETKISVSYLEAIENGDFDSLPSPVYARGYLRKYARFLGLDPDEL 62 (62)
T ss_dssp CTT--HHHHHHHCS--HHHHHHHHCT-GCCSSSHHHHHHHHHHHHHHTT--HHHH
T ss_pred HcCCCHHHHHHHhCCCHHHHHHHHCcChhhCCcHHHHHHHHHHHHHHhCcCcccC
Confidence 46899999999999999999888874 333 368999999999999998886653
No 16
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=65.20 E-value=6.1 Score=26.25 Aligned_cols=21 Identities=29% Similarity=0.600 Sum_probs=10.2
Q ss_pred CCCCchhHHHHHHHHHHHHHHh
Q 029051 37 QNPIPSRRNFVTTLISTSLALV 58 (200)
Q Consensus 37 ~~~~~~RR~~l~~l~at~~a~~ 58 (200)
+....+||.||. +.+++++++
T Consensus 5 ~~~~~~RRdFL~-~at~~~gav 25 (41)
T PF10399_consen 5 EPVDPTRRDFLT-IATSAVGAV 25 (41)
T ss_dssp -----HHHHHHH-HHHHHHHHH
T ss_pred CCCCchHHHHHH-HHHHHHHHH
Confidence 334468999997 444444433
No 17
>PRK14158 heat shock protein GrpE; Provisional
Probab=58.78 E-value=1.2e+02 Score=26.20 Aligned_cols=53 Identities=8% Similarity=0.038 Sum_probs=36.4
Q ss_pred ChHhhHHHHHHHHHHHHhhHhHHHHhhCCC---hHHHHHHHHHHHHHHHHHHHhhC
Q 029051 148 PEVRRREYVNTANDLIDNMAEFDYYVRTPK---VYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 148 Pkd~Kk~l~~La~kLF~~le~LD~Aar~Kn---~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
-...+-...+++.+|+.-+|+|+.|....+ ......-++-|.+.|..+|.+.|
T Consensus 82 e~~~~~a~~~~~~~lLpV~DnLerAl~~~~~~~~~~i~~Gv~mi~k~l~~vLek~G 137 (194)
T PRK14158 82 EELLKYGNESLILEILPAVDNMERALDHADEESMSAIIEGIRMTLSMLLSTLKKFG 137 (194)
T ss_pred HHHHHHHHHHHHHHHHhHHhHHHHHHhccCcchHHHHHHHHHHHHHHHHHHHHHCC
Confidence 344555677889999999999999976543 23344455666667777776654
No 18
>PRK14141 heat shock protein GrpE; Provisional
Probab=58.47 E-value=1.3e+02 Score=26.38 Aligned_cols=54 Identities=7% Similarity=0.019 Sum_probs=37.1
Q ss_pred CChHhhHHHHHHHHHHHHhhHhHHHHhhCC----------ChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 147 LPEVRRREYVNTANDLIDNMAEFDYYVRTP----------KVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 147 kPkd~Kk~l~~La~kLF~~le~LD~Aar~K----------n~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
+-...+-....++.+|+.-+|.|+.|...- +......-++-|.+.|..+|.+.|
T Consensus 72 ~e~~~~~a~~~~~~dLLpViDnLerAl~~~~~~~~~~~~~~~~~l~eGv~mi~k~l~~vLek~G 135 (209)
T PRK14141 72 VADARAYGIAGFARDMLSVSDNLRRALDAIPAEARAAADAGLKALIEGVEMTERAMLNALERHG 135 (209)
T ss_pred HHHHHHHHHHHHHHHHhhhHhHHHHHHhccccccccccchhHHHHHHHHHHHHHHHHHHHHHCC
Confidence 344555677788999999999999997632 122333445566777888887765
No 19
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=55.80 E-value=63 Score=26.06 Aligned_cols=58 Identities=16% Similarity=0.211 Sum_probs=37.0
Q ss_pred CChHHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhcCCh------HhhHHHHHHHHHHHHhhH
Q 029051 94 LSPEDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFSTLPE------VRRREYVNTANDLIDNMA 167 (200)
Q Consensus 94 ls~~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlisskPk------d~Kk~l~~La~kLF~~le 167 (200)
.++++-...+++.|.+|.. --+++..||++||. +|-+.+++|-.++=.-=.
T Consensus 62 ~~~~~~~~~~~elA~dIi~-----------------------kakqIe~LIdsLPg~~~see~Q~~~i~~L~~E~~~~~~ 118 (144)
T PF11221_consen 62 DPPEEFEENIKELATDIIR-----------------------KAKQIEYLIDSLPGIEVSEEEQLKRIKELEEENEEAEE 118 (144)
T ss_dssp --HHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHSTTSSS-HHHHHHHHHHHHHHHHHHHH
T ss_pred CChhhHHHHHHHHHHHHHH-----------------------HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 4677778888888888764 23678899999997 445556666555544444
Q ss_pred hHHHHhh
Q 029051 168 EFDYYVR 174 (200)
Q Consensus 168 ~LD~Aar 174 (200)
+|-.+++
T Consensus 119 el~~~v~ 125 (144)
T PF11221_consen 119 ELQEAVK 125 (144)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 4444443
No 20
>PRK14139 heat shock protein GrpE; Provisional
Probab=54.95 E-value=1.4e+02 Score=25.67 Aligned_cols=52 Identities=12% Similarity=0.002 Sum_probs=37.2
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHHhhCCC--hHHHHHHHHHHHHHHHHHHHhhC
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYYVRTPK--VYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~Aar~Kn--~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
...+-...++..+|+.-+|+|+.|....+ ......=++-+.+.|..+|.+.|
T Consensus 75 ~~~~~a~~~~~~~LLpv~DnLerAl~~~~~~~~~l~~Gv~mi~k~l~~vL~k~G 128 (185)
T PRK14139 75 KAHKFAIESFAESLLPVKDSLEAALADESGDLEKLREGVELTLKQLTSAFEKGR 128 (185)
T ss_pred HHHHHHHHHHHHHHhhHHhHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHCC
Confidence 34445667889999999999999986543 33334556677778888887765
No 21
>PRK14156 heat shock protein GrpE; Provisional
Probab=52.66 E-value=1.5e+02 Score=25.32 Aligned_cols=73 Identities=10% Similarity=0.091 Sum_probs=44.2
Q ss_pred HHHhhhhhhhHHHHHHHhhcCChHhhHHHHHHHHHHHHhhHhHHHHhhCCChH-HHHHHHHHHHHHHHHHHHhhC
Q 029051 127 FYIRLKQAYLSQDLKTAFSTLPEVRRREYVNTANDLIDNMAEFDYYVRTPKVY-ESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 127 ~~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~-~a~~~Y~~tv~~LdevLa~l~ 200 (200)
.|+|..+-|=-|- ++...-+-...+-...+++.+|+.-+|+||.|....+.. .-..-++-+.+.|-.+|.+.|
T Consensus 49 ~~lR~~AEfeN~r-KR~~rE~e~~~~~a~~~~~~~LLpVlDnLerAl~~~~~~~~l~~Gv~mi~k~l~~~L~~~G 122 (177)
T PRK14156 49 KYLRAHAEMQNIQ-RRANEERQQLQRYRSQDLAKAILPSLDNLERALAVEGLTDDVKKGLEMVQESLIQALKEEG 122 (177)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHhCcccchhHHHHHHHHHHHHHHHHHHCC
Confidence 4566655442221 112222344456677889999999999999998754322 233456666667777776654
No 22
>PRK14147 heat shock protein GrpE; Provisional
Probab=52.05 E-value=1.4e+02 Score=25.07 Aligned_cols=54 Identities=13% Similarity=0.022 Sum_probs=36.3
Q ss_pred CChHhhHHHHHHHHHHHHhhHhHHHHhhCCC--hHHHHHHHHHHHHHHHHHHHhhC
Q 029051 147 LPEVRRREYVNTANDLIDNMAEFDYYVRTPK--VYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 147 kPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn--~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
+-...+-...+++.+|+.-+|+|+.|....+ ......-++-+.+.|..+|.+.|
T Consensus 59 ~e~~~~~a~~~~~~~lLpv~DnlerAl~~~~~~~~~l~~Gv~mi~k~l~~~L~~~G 114 (172)
T PRK14147 59 VEQARKFANEKLLGELLPVFDSLDAGLTAAGTEPSPLRDGLELTYKQLLKVAADNG 114 (172)
T ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHCC
Confidence 3444555677889999999999999976432 22223345556777777777654
No 23
>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []. Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].
Probab=51.64 E-value=19 Score=21.50 Aligned_cols=19 Identities=26% Similarity=0.197 Sum_probs=13.7
Q ss_pred chhHHHHHHHHHHHHHHhh
Q 029051 41 PSRRNFVTTLISTSLALVG 59 (200)
Q Consensus 41 ~~RR~~l~~l~at~~a~~~ 59 (200)
-|||.||-+..+++.+...
T Consensus 2 ~sRR~fLk~~~a~~a~~~~ 20 (26)
T PF10518_consen 2 LSRRQFLKGGAAAAAAAAL 20 (26)
T ss_pred CcHHHHHHHHHHHHHHHHh
Confidence 3799999977776665443
No 24
>PRK14155 heat shock protein GrpE; Provisional
Probab=50.74 E-value=91 Score=27.19 Aligned_cols=52 Identities=15% Similarity=0.059 Sum_probs=33.9
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHHhhCCC-------hHHHHHHHHHHHHHHHHHHHhhC
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYYVRTPK-------VYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~Aar~Kn-------~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
...+-...+++.+|+.-+|+|+.|...-. ......=.+-+.+.|..+|.+.|
T Consensus 56 ~~~~~a~~~~~~~LLpV~DnLerAl~~~~~~~~~~~~~~i~~Gvemi~k~~~~~L~k~G 114 (208)
T PRK14155 56 DARAYAIQKFARDLLGAADNLGRATAASPKDSADPAVKNFIIGVEMTEKELLGAFERNG 114 (208)
T ss_pred HHHHHHHHHHHHHHhhHHhhHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 34455677889999999999999986522 11222334555666666666554
No 25
>CHL00102 rps20 ribosomal protein S20
Probab=49.36 E-value=65 Score=24.82 Aligned_cols=49 Identities=6% Similarity=0.104 Sum_probs=35.6
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHH
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVA 197 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa 197 (200)
...|..++.+.++++..++..|.-...+|..+++..|..+.+.||-...
T Consensus 22 ~~~kS~~rT~iKk~~~ai~~~~~~~~~~d~~~a~~~l~~a~s~iDkaa~ 70 (93)
T CHL00102 22 KAYKSSVKTLIKKYLKNLEDYKTSPNSNNKKKVQETLSSVYSKIDKAVK 70 (93)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHHHHH
Confidence 3456667777777777776665555568888888888888888887654
No 26
>COG5420 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]
Probab=49.29 E-value=45 Score=24.69 Aligned_cols=46 Identities=20% Similarity=0.216 Sum_probs=41.3
Q ss_pred HHhhhhhhhHHHHHHHhhcCChHhhHHHHHHHHHHHHhhHhHHHHhh
Q 029051 128 YIRLKQAYLSQDLKTAFSTLPEVRRREYVNTANDLIDNMAEFDYYVR 174 (200)
Q Consensus 128 ~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La~kLF~~le~LD~Aar 174 (200)
-|.+++|...-||-.+...+|.+-- ++-+.|.+-|..+.+||.+-+
T Consensus 17 kLqsrAg~akm~LhDLAEgLP~~wt-ei~~VA~kt~~~yaeLD~~k~ 62 (71)
T COG5420 17 KLQSRAGQAKMELHDLAEGLPVKWT-EIMAVAEKTFEAYAELDAAKR 62 (71)
T ss_pred HHHHHHHHHHhhHHHHhccCCccHH-HHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999999998766 999999999999999998855
No 27
>PRK14146 heat shock protein GrpE; Provisional
Probab=48.63 E-value=1.9e+02 Score=25.37 Aligned_cols=53 Identities=8% Similarity=0.078 Sum_probs=37.1
Q ss_pred ChHhhHHHHHHHHHHHHhhHhHHHHhhCCC----hHHHHHHHHHHHHHHHHHHHhhC
Q 029051 148 PEVRRREYVNTANDLIDNMAEFDYYVRTPK----VYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 148 Pkd~Kk~l~~La~kLF~~le~LD~Aar~Kn----~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
-...+-....++.+|+.-+|+|+.|....+ ...-..-++-+.+.|..+|.+.|
T Consensus 96 e~~~~~a~e~~~~~lLpv~DnlerAl~~~~~~~~~~~l~~Gv~mi~k~l~~~L~k~G 152 (215)
T PRK14146 96 VSIRKEAVKSLVSGFLNPIDNLERVGATQNQSEELKPFVEGVKMILKEFYSVLEKSN 152 (215)
T ss_pred HHHHHHHHHHHHHHHhhHHhHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHCc
Confidence 444556777889999999999999976432 22233445667777778877765
No 28
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=48.49 E-value=1.6e+02 Score=28.65 Aligned_cols=98 Identities=10% Similarity=0.211 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHH-HhHHHhhhhc-----HHHHHHHHhhhhhhhHHHHHHHhhc-CChHhhHHHHHHHHH---------
Q 029051 98 DAVARIKQTAEGMH-SLREMVDRMA-----WRYVIFYIRLKQAYLSQDLKTAFST-LPEVRRREYVNTAND--------- 161 (200)
Q Consensus 98 eA~~RIk~~A~~L~-~lk~lId~~s-----W~yvr~~LRlka~~Lr~DL~tliss-kPkd~Kk~l~~La~k--------- 161 (200)
.++.++.+..+++. ++.++|++++ |-.--..|-.++.-|..|++.+.+. .+.+-+..+.+.+++
T Consensus 14 ~~I~~L~~~i~~~k~eV~~~I~~~y~df~~~~~~~~~L~~~~~~l~~eI~d~l~~~~~~~i~~~l~~a~~e~~~L~~eL~ 93 (593)
T PF06248_consen 14 KSISRLSRRIEELKEEVHSMINKKYSDFSPSLQSAKDLIERSKSLAREINDLLQSEIENEIQPQLRDAAEELQELKRELE 93 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHH
Confidence 34555555555554 5666776655 5555667777788888888777666 444444444433332
Q ss_pred -------HHH-------hhHhHHHHhhCCChHHHHHHHHHHHHHHHHH
Q 029051 162 -------LID-------NMAEFDYYVRTPKVYESYLYYEKALKNLDDI 195 (200)
Q Consensus 162 -------LF~-------~le~LD~Aar~Kn~~~a~~~Y~~tv~~Ldev 195 (200)
+.. .+++++.|..+++...|-...+++-..|+++
T Consensus 94 ~~~~~l~~L~~L~~i~~~l~~~~~al~~~~~~~Aa~~L~~~~~~L~~l 141 (593)
T PF06248_consen 94 ENEQLLEVLEQLQEIDELLEEVEEALKEGNYLDAADLLEELKSLLDDL 141 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhc
Confidence 222 3444555666777777777766666666653
No 29
>PF05960 DUF885: Bacterial protein of unknown function (DUF885); InterPro: IPR010281 This family consists of hypothetical bacterial proteins.; PDB: 3O0Y_B 3U24_A 3IUK_A.
Probab=47.61 E-value=1.6e+02 Score=27.82 Aligned_cols=91 Identities=15% Similarity=0.251 Sum_probs=60.7
Q ss_pred HHHHHHHHHHHHHhHHHhhhh----------cHHHHHHHHhhhhh------hhHHHHHHHhh-cCChHhhHHHHHHHHHH
Q 029051 100 VARIKQTAEGMHSLREMVDRM----------AWRYVIFYIRLKQA------YLSQDLKTAFS-TLPEVRRREYVNTANDL 162 (200)
Q Consensus 100 ~~RIk~~A~~L~~lk~lId~~----------sW~yvr~~LRlka~------~Lr~DL~tlis-skPkd~Kk~l~~La~kL 162 (200)
+.|++..-.-+....+.++.. ...-+...++.-.. +|..++...+. .+++++++.+..-+.+.
T Consensus 110 ~~rL~~ip~~l~~~~~~l~~~~~~g~~~p~~~~e~~i~q~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~~~l~~~~~~a 189 (549)
T PF05960_consen 110 LARLAAIPAYLDQAIANLKEGAKKGLTPPREWVERAIAQLRGFIDADPEESFLYEDFPERLAASLSEEQKEALIAQAREA 189 (549)
T ss_dssp HHHHTTHHHHHHHHHHHHHHHHHTT---BHHHHHHHHHHHHHHCSS-GGCTCHHHHHHHHHCCCS-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHcCCCCcHHHHHHHHHHHHHHHccCcccchHHHHHHHhccccCChhHHHHHHHHHHHH
Confidence 555554444444444444333 34456677777776 89999999999 68999999998888887
Q ss_pred HH-----hhHhHHHHhhC-----------CChHHHHHHHHHHHH
Q 029051 163 ID-----NMAEFDYYVRT-----------PKVYESYLYYEKALK 190 (200)
Q Consensus 163 F~-----~le~LD~Aar~-----------Kn~~~a~~~Y~~tv~ 190 (200)
+. .++++-...++ -+.+....+|+..+.
T Consensus 190 i~~~v~pA~~~~~~~L~~~~~~~~~~~G~~~~~~G~~~Y~~~l~ 233 (549)
T PF05960_consen 190 IEEYVIPAYERLRDFLESEYLPAANSSGLSDLPNGKEYYERLLR 233 (549)
T ss_dssp HHHTHHHHHHHHHHHHHHHTCCCCSHHSGCGSTTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhcccccCCCcccCCCcHHHHHHHHH
Confidence 77 78887666552 244566777776654
No 30
>PRK14163 heat shock protein GrpE; Provisional
Probab=47.31 E-value=2e+02 Score=25.35 Aligned_cols=49 Identities=12% Similarity=0.136 Sum_probs=36.0
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
...+-....++++|+.-+|+|+.|....+ ...-++-+.+.|..+|.+.|
T Consensus 83 ~~~~~a~~~~~~~LLpVlDnLerAl~~~~---l~~Gv~mi~k~l~~~L~k~G 131 (214)
T PRK14163 83 TVKEIAVANLLSELLPVLDDVGRAREHGE---LVGGFKSVAESLETTVAKLG 131 (214)
T ss_pred HHHHHHHHHHHHHHhhhHhHHHHHHhchh---HHHHHHHHHHHHHHHHHHCC
Confidence 33444667889999999999999987643 33456777777777877764
No 31
>PRK10455 periplasmic protein; Reviewed
Probab=46.26 E-value=1.7e+02 Score=24.30 Aligned_cols=15 Identities=27% Similarity=0.514 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHh
Q 029051 44 RNFVTTLISTSLALV 58 (200)
Q Consensus 44 R~~l~~l~at~~a~~ 58 (200)
|++-..+||+.|+.+
T Consensus 2 rk~t~~~~as~l~~g 16 (161)
T PRK10455 2 RKLTALFVASTLALG 16 (161)
T ss_pred hhHHHHHHHHHHHHH
Confidence 344444566666644
No 32
>PRK14164 heat shock protein GrpE; Provisional
Probab=45.68 E-value=1.7e+02 Score=25.85 Aligned_cols=50 Identities=14% Similarity=0.193 Sum_probs=34.6
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
...+-...+++++|+.-+++|+.|....+..+. -+..+.+.|..+|.+.|
T Consensus 113 ~~~~~a~~~~~~~LLpVlDnLerAl~~~~~~~g--~l~~i~~~l~~vL~k~G 162 (218)
T PRK14164 113 AIIETAKAGVATDLLPILDDLDLAEQHGDLNEG--PLKAFSDKLTNVLAGLK 162 (218)
T ss_pred HHHHHHHHHHHHHHhhHHhHHHHHHhccccccc--HHHHHHHHHHHHHHHCC
Confidence 344556778899999999999999876544221 13456667777777654
No 33
>PRK14161 heat shock protein GrpE; Provisional
Probab=42.37 E-value=2.1e+02 Score=24.25 Aligned_cols=54 Identities=9% Similarity=0.058 Sum_probs=36.6
Q ss_pred CChHhhHHHHHHHHHHHHhhHhHHHHhhCCCh------HHHHHHHHHHHHHHHHHHHhhC
Q 029051 147 LPEVRRREYVNTANDLIDNMAEFDYYVRTPKV------YESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 147 kPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn~------~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
.....+-...+++.+|+.-+|+|+.|...... .....=.+-|.+.|..+|.+.|
T Consensus 60 ~~~~~~~a~~~~~~~LLpv~DnlerAl~~~~~~~~~~~~~~~~Gv~mi~k~l~~vL~~~G 119 (178)
T PRK14161 60 RDEAKDYAIATFAKELLNVSDNLSRALAHKPANSDVEVTNIIAGVQMTKDELDKVFHKHH 119 (178)
T ss_pred HHHHHHHHHHHHHHHHhhHHhHHHHHHhcCccccchhHHHHHHHHHHHHHHHHHHHHHCC
Confidence 34455667788899999999999999775422 1223344556677777777654
No 34
>PRK14149 heat shock protein GrpE; Provisional
Probab=41.64 E-value=1.7e+02 Score=25.34 Aligned_cols=54 Identities=13% Similarity=0.082 Sum_probs=36.7
Q ss_pred CChHhhHHHHHHHHHHHHhhHhHHHHhhCCC----hHHHHHHHHHHHHHHHHHHHhhC
Q 029051 147 LPEVRRREYVNTANDLIDNMAEFDYYVRTPK----VYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 147 kPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn----~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
.....+-....++.+|+.-+|+|+.|....+ ......-++-|.+.|..+|.+.|
T Consensus 77 ~e~~~~~a~~~~~~~LLpVlDnLerAl~~~~~~~~~~~l~~Gv~mi~k~l~~vL~k~G 134 (191)
T PRK14149 77 KSMALEYAYEKIALDLLPVIDALLGALKSAAEVDKESALTKGLELTMEKLHEVLARHG 134 (191)
T ss_pred HHHHHHHHHHHHHHHHhhHHhHHHHHHhccccccchHHHHHHHHHHHHHHHHHHHHCC
Confidence 3444555677889999999999999976532 22233445567777777777654
No 35
>PRK14142 heat shock protein GrpE; Provisional
Probab=41.30 E-value=1e+02 Score=27.35 Aligned_cols=50 Identities=8% Similarity=0.120 Sum_probs=35.4
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
...+-...+++.+|+.-+|+|+.|....+... .-+..+.+.|..+|.++|
T Consensus 76 ~~~~~A~e~~~kdLLpVlDnLERAL~~~~~~~--~~v~~I~kqL~~iLek~G 125 (223)
T PRK14142 76 AAADRAKASVVSQLLGVLDDLERARKHGDLES--GPLKSVADKLDSALTGLG 125 (223)
T ss_pred HHHHHHHHHHHHHHhchHhHHHHHHhcccccc--HHHHHHHHHHHHHHHHCC
Confidence 34455677899999999999999987543221 125567777777777765
No 36
>PF01322 Cytochrom_C_2: Cytochrome C'; InterPro: IPR002321 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class II includes the high-spin cytC' and a number of low-spin cytochromes, e.g. cyt c-556. The haem-attachment site is close to the C terminus. The cytC' are capable of binding such ligands as CO, NO or CN(-), albeit with rate and equilibrium constants 100 to 1,000,000-fold smaller than other high-spin haemoproteins []. This, coupled with its relatively low redox potential, makes it unlikely that cytC' is a terminal oxidase. Thus cytC' probably functions as an electron transfer protein []. The 3D structures of a number of cytC' have been determined. The molecule usually exists as a dimer, each monomer folding as a four-alpha-helix bundle incorporating a covalently-bound haem group at the core []. The Chromatium vinosum cytC' exhibits dimer dissociation upon ligand binding [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0005746 mitochondrial respiratory chain; PDB: 1BBH_A 2J9B_B 2J8W_A 1JAF_B 3ZTM_A 2XLD_A 2XL6_A 1E86_A 2YLD_A 2YKZ_A ....
Probab=41.26 E-value=82 Score=24.05 Aligned_cols=45 Identities=9% Similarity=0.054 Sum_probs=38.5
Q ss_pred CC--hHhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHH
Q 029051 147 LP--EVRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKN 191 (200)
Q Consensus 147 kP--kd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~ 191 (200)
+| -++...+..++..|-.....|..|++++|...+...|.+.-.+
T Consensus 67 ~~~Iw~~~~~F~~~~~~~~~aa~~L~~aa~~~d~~~~~~a~~~v~~~ 113 (122)
T PF01322_consen 67 KPEIWEDPEDFKQLAQAFQKAAAALAAAAKSGDLAAIKAAFGEVGKS 113 (122)
T ss_dssp STHHHHTHHHHHHHHHHHHHHHHHHHHHHHHTSHHHHHHHHHHHHHH
T ss_pred cHHHHhCHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence 55 2457789999999999999999999999999999988876543
No 37
>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit. This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.
Probab=40.60 E-value=1.7e+02 Score=29.58 Aligned_cols=79 Identities=16% Similarity=0.190 Sum_probs=39.3
Q ss_pred hhhhccccCC--------CChHHHHHHHHHHHHHHHHhHHHhhhh-------cHHHHHHHHhhhhhhhHHHHHHHhhcCC
Q 029051 84 FLKERFFEPG--------LSPEDAVARIKQTAEGMHSLREMVDRM-------AWRYVIFYIRLKQAYLSQDLKTAFSTLP 148 (200)
Q Consensus 84 ~lk~rf~~~~--------ls~~eA~~RIk~~A~~L~~lk~lId~~-------sW~yvr~~LRlka~~Lr~DL~tlisskP 148 (200)
.++++|.+|+ .+++++...++..-.=-..-+..|++. .|..+++.+. -++.++..+=-..|
T Consensus 497 ~i~e~FLqQ~a~~~~d~~~~~~kt~~~L~~i~~~~~~~~~~~~~~~~~~~ki~~~~i~~~~~----~~~~~~~~~k~~~~ 572 (591)
T TIGR01042 497 LIKEDFLQQNGYTPYDRFCPFYKTVGMMRNMIAFYDLARQAVERTAQDDNKITWSIIKESLG----DLLYRLSSMKFEDP 572 (591)
T ss_pred HHHHHhCCCCCCCCccccCCHHHHHHHHHHHHHHHHHHHHHHHccCCccccccHHHHHHHHH----HHHHHHHHhcCCCc
Confidence 4667777777 344544444433321112233333332 2776664321 12222222222236
Q ss_pred hHhhHHHHHHHHHHHHhh
Q 029051 149 EVRRREYVNTANDLIDNM 166 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~l 166 (200)
++..+.+.++.++|++.|
T Consensus 573 ~~~~~~~~~~~~kl~~ei 590 (591)
T TIGR01042 573 SDGEAKIKADYEKLNEDM 590 (591)
T ss_pred cchHHHHHHHHHHHHHhh
Confidence 777778888888887765
No 38
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=39.89 E-value=35 Score=24.60 Aligned_cols=15 Identities=33% Similarity=0.421 Sum_probs=10.3
Q ss_pred CchhHHHHHHHHHHH
Q 029051 40 IPSRRNFVTTLISTS 54 (200)
Q Consensus 40 ~~~RR~~l~~l~at~ 54 (200)
..|||.||-++...+
T Consensus 8 ~~sRR~Flk~lg~~a 22 (66)
T TIGR02811 8 DPSRRDLLKGLGVGA 22 (66)
T ss_pred CccHHHHHHHHHHHH
Confidence 458999999544433
No 39
>PF12318 FAD-SLDH: Membrane bound FAD containing D-sorbitol dehydrogenase ; InterPro: IPR024651 There are two types of membrane-bound D-sorbitol dehydrogenase: PQQ-SLDH (pyrroloquinoline quinone sorbitol dehydrogenase) and FAD-SLDH (FAD-containing sorbitol dehydrogenase). FAD-SLDH is involved in oxidation of D-sorbitol to L-sorbose and consists of a large, small and cytochrome c subunits []. This entry represents the small subunit of the FAD-containing D-sorbitol dehydrogenase. This family of proteins is found in bacteria and contains a conserved ALM sequence motif. The role of the small subunit is unknown. Gluconate dehydrogenases and fructose dehydrogenases are also included in this entry.
Probab=39.50 E-value=1.3e+02 Score=25.09 Aligned_cols=19 Identities=5% Similarity=0.097 Sum_probs=13.1
Q ss_pred HHHHHHHHHhHHHhhhhcH
Q 029051 104 KQTAEGMHSLREMVDRMAW 122 (200)
Q Consensus 104 k~~A~~L~~lk~lId~~sW 122 (200)
.+....|..|..+|+.+.+
T Consensus 72 ~~f~~~l~~L~~ll~~~~~ 90 (168)
T PF12318_consen 72 PGFPAQLQALAALLAAQGI 90 (168)
T ss_pred cCHHHHHHHHHHHHHhCCc
Confidence 3556677778888876666
No 40
>PRK14148 heat shock protein GrpE; Provisional
Probab=39.32 E-value=2.5e+02 Score=24.24 Aligned_cols=53 Identities=15% Similarity=0.068 Sum_probs=35.7
Q ss_pred ChHhhHHHHHHHHHHHHhhHhHHHHhhCCCh----HHHHHHHHHHHHHHHHHHHhhC
Q 029051 148 PEVRRREYVNTANDLIDNMAEFDYYVRTPKV----YESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 148 Pkd~Kk~l~~La~kLF~~le~LD~Aar~Kn~----~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
-...+-....++.+|+.-+|+|+.|...... ..-..=++-+.+.|..+|.+.|
T Consensus 82 e~~~~~a~~~~~~~LLpV~DnlerAl~~~~~~~~~~~l~~Gv~mi~k~l~~vL~k~G 138 (195)
T PRK14148 82 SNARKFGIEKFAKELLPVIDSIEQALKHEVKLEEAIAMKEGIELTAKMLVDILKKNG 138 (195)
T ss_pred HHHHHHHHHHHHHHHhhHHhHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHHHCC
Confidence 3444556678899999999999999764322 1233345556777777777654
No 41
>KOG4519 consensus Phosphomevalonate kinase [Lipid transport and metabolism]
Probab=38.96 E-value=68 Score=30.90 Aligned_cols=66 Identities=14% Similarity=0.189 Sum_probs=49.9
Q ss_pred HHHhHHHhhhhcHHHHHHHHhhhhhh---------------hHHHHHHHhhc-CChHhh--HHHHHHHHHHHHhhHhHHH
Q 029051 110 MHSLREMVDRMAWRYVIFYIRLKQAY---------------LSQDLKTAFST-LPEVRR--REYVNTANDLIDNMAEFDY 171 (200)
Q Consensus 110 L~~lk~lId~~sW~yvr~~LRlka~~---------------Lr~DL~tliss-kPkd~K--k~l~~La~kLF~~le~LD~ 171 (200)
+.+|...++++.|+.+++.-++++++ |-+-.++---+ .|++.| +.+-+++.+|-+.+.+||.
T Consensus 247 ~~el~~~V~k~~W~~~~~~f~LP~~~~L~mGd~~gGSsTp~mV~kVk~Wq~s~~pe~~k~~~~lddansr~~~~l~kl~~ 326 (459)
T KOG4519|consen 247 LNELIGTVLKGKWDNKRTEFSLPPLMNLFMGDGSGGSSTPSMVGKVKKWQMSDPPEARKNWQNLDDANSRLETKLNKLSK 326 (459)
T ss_pred hHHHHHHhhhhhcccccccccCCceeeeeeecCCCCCCcHHHHHHHHHHhhcCChhHhhhhcchhhHHHHHHhhhhhhhH
Confidence 45788899999999999999999875 23333333334 466666 6788888899888888888
Q ss_pred HhhC
Q 029051 172 YVRT 175 (200)
Q Consensus 172 Aar~ 175 (200)
-+++
T Consensus 327 l~~~ 330 (459)
T KOG4519|consen 327 LAKD 330 (459)
T ss_pred hhhh
Confidence 7777
No 42
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, 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 []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=37.25 E-value=1.1e+02 Score=19.65 Aligned_cols=52 Identities=17% Similarity=0.160 Sum_probs=29.7
Q ss_pred HHHHHHHhhcCChHhhHHHHHHHHHHHHhhHhHHHHhhCC-ChHHHHHHHHHHHHH
Q 029051 137 SQDLKTAFSTLPEVRRREYVNTANDLIDNMAEFDYYVRTP-KVYESYLYYEKALKN 191 (200)
Q Consensus 137 r~DL~tlisskPkd~Kk~l~~La~kLF~~le~LD~Aar~K-n~~~a~~~Y~~tv~~ 191 (200)
|+.+...++.+|+.+|.-+. -..|+.++--+-|..-+ +...++..+..+.+.
T Consensus 1 r~~l~~~l~~L~~~~r~i~~---l~~~~g~s~~eIa~~l~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 1 REALQQALAQLPERQREIFL---LRYFQGMSYAEIAEILGISESTVKRRLRRARKK 53 (54)
T ss_dssp HHHHHHHHHCS-HHHHHHHH---HHHTS---HHHHHHHCTS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHCCCHHHHHHHH---HHHHHCcCHHHHHHHHCcCHHHHHHHHHHHHhh
Confidence 56788999999999994442 23445554444443333 666666666666554
No 43
>PRK10325 heat shock protein GrpE; Provisional
Probab=36.85 E-value=2.7e+02 Score=23.88 Aligned_cols=50 Identities=18% Similarity=0.201 Sum_probs=35.0
Q ss_pred hhHHHHHHHHHHHHhhHhHHHHhhCC-----ChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 151 RRREYVNTANDLIDNMAEFDYYVRTP-----KVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 151 ~Kk~l~~La~kLF~~le~LD~Aar~K-----n~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
.+-....++.+|+.-+|+||.|.... +......-++-|.+.|.++|.+.|
T Consensus 84 ~~~a~~~~~~~lLpv~DnlerAl~~~~~~~~~~~~l~~Gv~m~~~~l~~~L~~~G 138 (197)
T PRK10325 84 HKFALEKFINELLPVIDSLDRALEVADKANPDMSAMVEGIELTLKSMLDVVRKFG 138 (197)
T ss_pred HHHHHHHHHHHHhhHHhHHHHHHhcccccchhHHHHHHHHHHHHHHHHHHHHHCc
Confidence 34455678899999999999997642 223344556667777888887654
No 44
>PRK14144 heat shock protein GrpE; Provisional
Probab=35.97 E-value=3e+02 Score=24.01 Aligned_cols=52 Identities=10% Similarity=0.032 Sum_probs=35.5
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHHhhCCC---hHHHHHHHHHHHHHHHHHHHhhC
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYYVRTPK---VYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~Aar~Kn---~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
...+-...+++.+|+.-+|+|+.|..... ......-++-+.+.|..+|.+.|
T Consensus 88 ~~~~~a~~~~~~~LLpV~DnLerAl~~~~~~~~~~i~~Gv~mi~k~l~~~L~k~G 142 (199)
T PRK14144 88 NAHKYGVEKLISALLPVVDSLEQALQLADKNSDPSMHEGLELTMKLFLDALQKFD 142 (199)
T ss_pred HHHHHHHHHHHHHHhhHHhHHHHHHHcccccchhHHHHHHHHHHHHHHHHHHHCC
Confidence 33445677889999999999999975421 12334556666777777777654
No 45
>PF10907 DUF2749: Protein of unknown function (DUF2749); InterPro: IPR024475 This bacterial family of proteins represent the TrbJ and TrbK genes of the Ti plasmid conjugative transfer operon [].
Probab=34.67 E-value=24 Score=25.96 Aligned_cols=49 Identities=20% Similarity=0.239 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHHHHHhhhccCCC--CCCCCCccccccccccchhhhhccccCCCC
Q 029051 42 SRRNFVTTLISTSLALVGLHGDGI--GSSSGASVALAESWGTRSFLKERFFEPGLS 95 (200)
Q Consensus 42 ~RR~~l~~l~at~~a~~~~~~~~i--~~~~~~p~~l~~~~~tr~~lk~rf~~~~ls 95 (200)
+||-+|. |++. +++++-..+|| .|-+.+-++..|+.- --||+||=.+..
T Consensus 2 s~~viIa-L~~a-vaa~a~~atwviVq~~~a~~p~s~eeQr---~~re~ff~~~~~ 52 (66)
T PF10907_consen 2 SRRVIIA-LVVA-VAAAAGAATWVIVQPRPAGNPASSEEQR---AHREKFFGGDKD 52 (66)
T ss_pred CcchhHH-HHHH-HHhhhceeEEEEECCCCCCCCCChHHHH---HHHHHHcCCCCC
Confidence 4566666 5555 44343333332 222122223333222 236888866544
No 46
>PF05082 Rop-like: Rop-like; InterPro: IPR007774 This family contains several uncharacterised bacterial proteins. These proteins are found in nitrogen fixation operons, so are likely to play a role in this process.; PDB: 3CSX_A 2JS5_B.
Probab=34.48 E-value=1e+02 Score=22.58 Aligned_cols=45 Identities=24% Similarity=0.199 Sum_probs=39.9
Q ss_pred HHhhhhhhhHHHHHHHhhcCChHhhHHHHHHHHHHHHhhHhHHHHh
Q 029051 128 YIRLKQAYLSQDLKTAFSTLPEVRRREYVNTANDLIDNMAEFDYYV 173 (200)
Q Consensus 128 ~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La~kLF~~le~LD~Aa 173 (200)
-|..+++.+.-||--|.--+|-+=. .+-++|.+.|+-+.+||.|=
T Consensus 13 KL~~~A~~~kmdLHDLaEdLP~~w~-~i~~vA~~ty~a~~~l~~ak 57 (66)
T PF05082_consen 13 KLNRKATQAKMDLHDLAEDLPTNWE-EIPEVAQKTYDAYAELDEAK 57 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHCTTTTGG-GHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHccchhHH-HHHHHHHHHHHHHHHHHHHH
Confidence 3678899999999999999998776 89999999999999998773
No 47
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=33.95 E-value=1.4e+02 Score=24.35 Aligned_cols=26 Identities=27% Similarity=0.477 Sum_probs=21.4
Q ss_pred HHHHhhcCChHhhHHHHHHHHHHHHh
Q 029051 140 LKTAFSTLPEVRRREYVNTANDLIDN 165 (200)
Q Consensus 140 L~tlisskPkd~Kk~l~~La~kLF~~ 165 (200)
|+.-.+.+|+++|++..+=+++.|++
T Consensus 10 L~~~L~~lp~~e~~e~l~~Y~e~f~d 35 (181)
T PF08006_consen 10 LEKYLKKLPEEEREEILEYYEEYFDD 35 (181)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 44455568999999999999999987
No 48
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=32.71 E-value=3.5e+02 Score=23.90 Aligned_cols=51 Identities=12% Similarity=0.141 Sum_probs=40.7
Q ss_pred CCChHHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhh
Q 029051 93 GLSPEDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFS 145 (200)
Q Consensus 93 ~ls~~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlis 145 (200)
....-|-..+|.+...++..|++.|+... |=...|..+.-.+|.||+++++
T Consensus 53 ~~~~~~l~~ql~~lq~ev~~LrG~~E~~~--~~l~~~~~rq~~~y~dld~r~~ 103 (263)
T PRK10803 53 SQLLTQLQQQLSDNQSDIDSLRGQIQENQ--YQLNQVVERQKQIYLQIDSLSS 103 (263)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhHHHHHH--HHHHHHHHHHHHHHHHHHHHHh
Confidence 34455668889999999999999998874 4456677888899999999876
No 49
>PRK14162 heat shock protein GrpE; Provisional
Probab=31.48 E-value=3.4e+02 Score=23.42 Aligned_cols=93 Identities=10% Similarity=0.083 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhc----CChHhhHHHHHHHHHHHHhhHhHHHHhh
Q 029051 99 AVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFST----LPEVRRREYVNTANDLIDNMAEFDYYVR 174 (200)
Q Consensus 99 A~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tliss----kPkd~Kk~l~~La~kLF~~le~LD~Aar 174 (200)
....+......+..++.-+++- --.|||+.+-| .++-.. +-...+-....++.+|+.-+|+|+.|..
T Consensus 37 ~~~e~~~l~~~l~~l~~e~~el----kd~~lR~~AEf-----eN~rkR~~kE~e~~~~~a~~~~~~~LLpV~DnLerAl~ 107 (194)
T PRK14162 37 KQNPVEDLEKEIADLKAKNKDL----EDKYLRSQAEI-----QNMQNRYAKERAQLIKYESQSLAKDVLPAMDNLERALA 107 (194)
T ss_pred cchhHHHHHHHHHHHHHHHHHH----HHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHh
Confidence 3444444444555555444321 23456655543 332222 2333445667789999999999999986
Q ss_pred CCCh----HHHHHHHHHHHHHHHHHHHhhC
Q 029051 175 TPKV----YESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 175 ~Kn~----~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
.... ..-..-++-+.+.|..+|.+.|
T Consensus 108 ~~~~~~~~~~l~~Gvemi~k~l~~vL~~~G 137 (194)
T PRK14162 108 VKADDEAAKQLKKGVQMTLDHLVKALKDHG 137 (194)
T ss_pred ccccchhHHHHHHHHHHHHHHHHHHHHHCC
Confidence 5322 2233445556777777777654
No 50
>COG3678 CpxP P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]
Probab=31.47 E-value=3.1e+02 Score=22.94 Aligned_cols=87 Identities=10% Similarity=0.031 Sum_probs=47.9
Q ss_pred Cccccccc--cccchhhhhccccCCCChHHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhcCC
Q 029051 71 ASVALAES--WGTRSFLKERFFEPGLSPEDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFSTLP 148 (200)
Q Consensus 71 ~p~~l~~~--~~tr~~lk~rf~~~~ls~~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlisskP 148 (200)
+|++.... +|-..+...+-...+++..++. --.|+++.+..- .-.+...--=|+++..||++=.
T Consensus 31 ~~~~~~~~~~~g~~~~~~~~~~~~~l~lT~~Q---------rqqi~~i~~~~~-----~a~~~~~~~~r~~l~~li~a~~ 96 (160)
T COG3678 31 PPLPMADAHHGGQFGPRHQGGMFKGLDLTRAQ---------RQQIRDLMQAQR-----RAQREQLRSKRRALHELIAADQ 96 (160)
T ss_pred CCCCccccccCCCCCccccccccccccccHHH---------HHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHhcCC
Confidence 33444444 5666677888888888877652 112333333322 3333333344678888888844
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHH
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYY 172 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~A 172 (200)
.|+- ....++++.-+.-..++..
T Consensus 97 ~D~a-ka~a~~~~m~~~~~~~~~~ 119 (160)
T COG3678 97 FDEA-KARAQAEKMENQRQALREL 119 (160)
T ss_pred cCHH-HHHHHHHHHHHHHHHHHHH
Confidence 4443 4666666665555554443
No 51
>PRK14159 heat shock protein GrpE; Provisional
Probab=31.16 E-value=3.3e+02 Score=23.13 Aligned_cols=54 Identities=11% Similarity=-0.034 Sum_probs=35.2
Q ss_pred CChHhhHHHHHHHHHHHHhhHhHHHHhhCCChH----HHHHHHHHHHHHHHHHHHhhC
Q 029051 147 LPEVRRREYVNTANDLIDNMAEFDYYVRTPKVY----ESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 147 kPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~----~a~~~Y~~tv~~LdevLa~l~ 200 (200)
+-...+-....++.+|+.-+|+|+.|....... ....-.+-+.+.|..+|++.|
T Consensus 64 ~e~~~~~a~~~~~~~LLpV~DnlerAl~~~~~~~~~~~l~~Gv~mi~k~l~~vL~k~G 121 (176)
T PRK14159 64 KLSAMAYANESFAKDLLDVLDALEAAVNVECHDEISLKIKEGVQNTLDLFLKKLEKHG 121 (176)
T ss_pred HHHHHHHHHHHHHHHHhhHHhHHHHHHhcccccchHHHHHHHHHHHHHHHHHHHHHCc
Confidence 344556677889999999999999997643221 122334555666666666654
No 52
>PF08802 CytB6-F_Fe-S: Cytochrome B6-F complex Fe-S subunit ; InterPro: IPR014909 The cytochrome b6-f complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions. The cytochrome b6-f complex has 4 large subunits, these are: cytochrome b6, subunit IV (17 kDa polypeptide, PetD), cytochrome f and the Rieske protein, while the 4 small subunits are: PetG, PetL, PetM and PetN. The complex functions as a dimer. This protein corresponds to the alpha helical transmembrane domain of the cytochrome b6-f complex Rieske iron-sulphur subunit. ; GO: 0009496 plastoquinol-plastocyanin reductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process, 0042651 thylakoid membrane; PDB: 1Q90_R 1VF5_D 2E75_D 2E74_D 2E76_D 2D2C_Q 2ZT9_D.
Probab=31.04 E-value=55 Score=21.72 Aligned_cols=19 Identities=26% Similarity=0.357 Sum_probs=12.5
Q ss_pred CchhHHHHHHHHHHHHHHh
Q 029051 40 IPSRRNFVTTLISTSLALV 58 (200)
Q Consensus 40 ~~~RR~~l~~l~at~~a~~ 58 (200)
..+||.++..|+..+++..
T Consensus 5 dm~RR~lmN~ll~Gava~~ 23 (39)
T PF08802_consen 5 DMSRRQLMNLLLGGAVAVP 23 (39)
T ss_dssp -HHHHHHHHHHHHHHHHHH
T ss_pred ChhHHHHHHHHHHhhHHHH
Confidence 4689999996555555433
No 53
>PF14425 Imm3: Immunity protein Imm3
Probab=31.02 E-value=2.6e+02 Score=22.58 Aligned_cols=77 Identities=13% Similarity=0.154 Sum_probs=46.5
Q ss_pred ccCCCChHHHHHHHHHHHHHHHHhHHHhhh-----------hcHHHHHHHHhhhhhhhHHHHHHHhhcCChHhhHHHHHH
Q 029051 90 FEPGLSPEDAVARIKQTAEGMHSLREMVDR-----------MAWRYVIFYIRLKQAYLSQDLKTAFSTLPEVRRREYVNT 158 (200)
Q Consensus 90 ~~~~ls~~eA~~RIk~~A~~L~~lk~lId~-----------~sW~yvr~~LRlka~~Lr~DL~tlisskPkd~Kk~l~~L 158 (200)
-..+.|..+|++|+=.--+.|..++.+|=. +-.......+..... .+|+..+-..+..+|++.+...
T Consensus 21 ~~~d~s~~eaiar~~~eye~lg~~EkiIv~~~igEi~l~~~~i~~~~~~~i~~~L~--~~~~~~~~~eLt~eE~~dL~~R 98 (117)
T PF14425_consen 21 LNEDRSYSEAIARTFDEYENLGETEKIIVDTAIGEILLSHNKIFVGQKEGITKRLS--QFDFEEVKGELTQEEKEDLSQR 98 (117)
T ss_pred HHccCCHHHHHHHHHHHHHccCcHHHHHHHHHHHHHHhhcchHHhhHHHHHHHHHH--hcChHHHHhHhhHHHHHHHHHH
Confidence 346679999999987666666667666511 111111122221111 1234444455788888888888
Q ss_pred HHHHHHhhHh
Q 029051 159 ANDLIDNMAE 168 (200)
Q Consensus 159 a~kLF~~le~ 168 (200)
.+++.+.+++
T Consensus 99 ~nkVL~~l~~ 108 (117)
T PF14425_consen 99 INKVLDGLEK 108 (117)
T ss_pred HHHHHHHHhc
Confidence 8888888775
No 54
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=30.74 E-value=2.8e+02 Score=22.09 Aligned_cols=48 Identities=17% Similarity=0.140 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHhhHhHHHHhhC----CChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 153 REYVNTANDLIDNMAEFDYYVRT----PKVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 153 k~l~~La~kLF~~le~LD~Aar~----Kn~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
.....+..+|+.-+|.|+.|... .+......-|.-+...|.++|.+.|
T Consensus 58 ~~~~~~~~~ll~v~D~l~~a~~~~~~~~~~~~~~~g~~~~~~~l~~~L~~~G 109 (165)
T PF01025_consen 58 YALEKFLKDLLPVLDNLERALEAAKSNEEEESLLEGLEMILKQLEDILEKNG 109 (165)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHCC-SHHCTCHHHHHHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHCC
Confidence 35677788899999999999865 3455556778888888888888765
No 55
>COG1426 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]
Probab=30.52 E-value=56 Score=29.49 Aligned_cols=64 Identities=28% Similarity=0.277 Sum_probs=49.2
Q ss_pred hhhccccCCCChHHHHHHHHHHHHHHHHhHHH-h-hhhcHHHHHHHHhhhhhhhHHHHHHHhhcCC
Q 029051 85 LKERFFEPGLSPEDAVARIKQTAEGMHSLREM-V-DRMAWRYVIFYIRLKQAYLSQDLKTAFSTLP 148 (200)
Q Consensus 85 lk~rf~~~~ls~~eA~~RIk~~A~~L~~lk~l-I-d~~sW~yvr~~LRlka~~Lr~DL~tlisskP 148 (200)
||+.=-..|+|.+|.+.+++-.-.=|.+||+. + .--.=.|+|-|||.=+-||..|-+.++...+
T Consensus 8 Lr~~Re~~gLsL~dva~~t~I~~~~L~aiEeg~~~~lp~~~y~rG~ir~YA~~l~ld~~~l~~~~~ 73 (284)
T COG1426 8 LRQAREEKGLSLEDVAARTKIRKSYLRALEEGNFDKLPGPVYIRGYIRSYAKFLGLDEDELLQAFE 73 (284)
T ss_pred HHHHHHHcCCCHHHHHHHhCccHHHHHHHhcCccccccchHHHHHHHHHHHHHhCCCHHHHHHHhh
Confidence 33333457899999999998877777777763 1 1122479999999999999999999999844
No 56
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=29.99 E-value=60 Score=29.53 Aligned_cols=28 Identities=21% Similarity=0.252 Sum_probs=17.2
Q ss_pred CCccCCccCCCCCchhHHHHHHHHHHHHH
Q 029051 28 LPEIKPKATQNPIPSRRNFVTTLISTSLA 56 (200)
Q Consensus 28 ~~~~~~s~~~~~~~~RR~~l~~l~at~~a 56 (200)
...|++-..++...+||..|. +++..++
T Consensus 37 ~~~~~~~~~~~~~~srr~~l~-~~~ga~a 64 (260)
T PLN00042 37 QVVCRAQEEDNSAVSRRAALA-LLAGAAA 64 (260)
T ss_pred ceeeeccccccccccHHHHHH-HHHHHHH
Confidence 345555444445578998888 5555544
No 57
>cd00446 GrpE GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding. In eukaryotes, only the mitochondrial Hsp70, not the cytosolic form, is GrpE dependent.
Probab=29.77 E-value=2.8e+02 Score=21.83 Aligned_cols=52 Identities=21% Similarity=0.234 Sum_probs=36.7
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHHhhCCC----hHHHHHHHHHHHHHHHHHHHhhC
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYYVRTPK----VYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~Aar~Kn----~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
...+.....+..+|..-+|.|+.|..... .....+-++-+.+.|.++|.+.|
T Consensus 28 ~~~~~~~~~~~~~ll~v~D~le~a~~~~~~~~~~~~~~~g~~~i~~~l~~~L~~~G 83 (137)
T cd00446 28 EARKYAIEKFAKDLLPVLDNLERALEAAKKEEELKNLVEGVEMTLKQLLDVLEKHG 83 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHHHHHCC
Confidence 34555777888999999999999976532 23444556677777777777654
No 58
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=29.73 E-value=2.3e+02 Score=20.84 Aligned_cols=64 Identities=9% Similarity=0.067 Sum_probs=37.2
Q ss_pred hhhhhHHHHHHHhhcCChHhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHH
Q 029051 132 KQAYLSQDLKTAFSTLPEVRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIV 196 (200)
Q Consensus 132 ka~~Lr~DL~tlisskPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevL 196 (200)
...-|+-|+..++.+.-..-.+.+.++..++-+.++..-..+++.- .++...+.+++...++.+
T Consensus 6 ~l~~l~~d~~~l~~~~~~~~~~~~~~~r~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~~V 69 (94)
T PF05957_consen 6 ELEQLRADLEDLARSAADLAGEKADEARDRAEEALDDARDRAEDAA-DQAREQAREAAEQTEDYV 69 (94)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 3445677777777776555555666666666666555555544332 235555666666666554
No 59
>cd06845 Bcl-2_like Apoptosis regulator proteins of the Bcl-2 family, named after B-cell lymphoma 2. This alignment model spans what have been described as Bcl-2 homology regions BH1, BH2, BH3, and BH4. Many members of this family have an additional C-terminal transmembrane segment. Some homologous proteins, which are not included in this model, may miss either the BH4 (Bax, Bak) or the BH2 (Bcl-X(S)) region, and some appear to only share the BH3 region (Bik, Bim, Bad, Bid, Egl-1). This family is involved in the regulation of the outer mitochondrial membrane's permeability and in promoting or preventing the release of apoptogenic factors, which in turn may trigger apoptosis by activating caspases. Bcl-2 and the closely related Bcl-X(L) are anti-apoptotic key regulators of programmed cell death. They are assumed to function via heterodimeric protein-protein interactions, binding pro-apoptotic proteins such as Bad (BCL2-antagonist of cell death), Bid, and Bim, by specifically interacting
Probab=29.39 E-value=2.6e+02 Score=21.98 Aligned_cols=55 Identities=13% Similarity=0.362 Sum_probs=34.6
Q ss_pred CCCChHHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhcCChHhhHHHHHHHHHHHHh
Q 029051 92 PGLSPEDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFSTLPEVRRREYVNTANDLIDN 165 (200)
Q Consensus 92 ~~ls~~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La~kLF~~ 165 (200)
++..+.+....+++.+.+|.. +-..+..++-.-+..-|..-...+...++++|.+
T Consensus 28 ~~~~~~~~~~~Lr~~~dele~-------------------~~~~~f~~~~~~l~~~~~~~~~~f~~v~~~lf~d 82 (144)
T cd06845 28 SGSPPSEVAETLRRVGDELEE-------------------KHRRLFENMCRQLNISPDNAYEVFQEVARELFED 82 (144)
T ss_pred CCCchHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHhcc
Confidence 356677778888888877765 1112222222222233666777899999999988
No 60
>TIGR01409 TAT_signal_seq Tat (twin-arginine translocation) pathway signal sequence. Members with small amino acid side chains at the -1 and -3 positions from the C-terminus of the model should be predicted to be cleaved as are Sec pathway signal sequences. Members are almost exclusively bacterial, although archaeal sequences are also found. A large fraction of the members of this family may have bound redox-active cofactors.
Probab=28.81 E-value=54 Score=19.66 Aligned_cols=17 Identities=35% Similarity=0.468 Sum_probs=11.2
Q ss_pred hhHHHHHHHHHHHHHHhh
Q 029051 42 SRRNFVTTLISTSLALVG 59 (200)
Q Consensus 42 ~RR~~l~~l~at~~a~~~ 59 (200)
+||.||. +.+++.+.++
T Consensus 2 sRR~Flk-~~~~~~a~~~ 18 (29)
T TIGR01409 2 SRRDFLK-GAAAAGAAAG 18 (29)
T ss_pred chhhhHH-HHHHHHHHHh
Confidence 7999999 5555444333
No 61
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=28.59 E-value=1e+02 Score=24.02 Aligned_cols=32 Identities=19% Similarity=0.426 Sum_probs=25.1
Q ss_pred HHHHHHhhcCChHhhHHHHHHHHHHHHhhHhH
Q 029051 138 QDLKTAFSTLPEVRRREYVNTANDLIDNMAEF 169 (200)
Q Consensus 138 ~DL~tlisskPkd~Kk~l~~La~kLF~~le~L 169 (200)
.+|-.+...+|+++++.+.+......+.+++|
T Consensus 90 ~~ll~~~~~L~~~~~~~~l~~l~~~~~~~~~~ 121 (135)
T PRK09706 90 KELLELFDALPESEQDAQLSEMRARVENFNKL 121 (135)
T ss_pred HHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHH
Confidence 45667777799999988888888877777765
No 62
>PLN03184 chloroplast Hsp70; Provisional
Probab=28.50 E-value=6.2e+02 Score=25.44 Aligned_cols=46 Identities=11% Similarity=0.032 Sum_probs=32.4
Q ss_pred cCChHhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHh
Q 029051 146 TLPEVRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAM 198 (200)
Q Consensus 146 skPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~ 198 (200)
-.++++|+++.++-+++.+-|++ .+..+.+..|++....++.+..+
T Consensus 588 ~~~~eer~~l~~~l~~~e~wL~~-------~d~~~ik~~~~~l~~~l~~l~~~ 633 (673)
T PLN03184 588 KVPADVKEKVEAKLKELKDAIAS-------GSTQKMKDAMAALNQEVMQIGQS 633 (673)
T ss_pred hCCHHHHHHHHHHHHHHHHHHhc-------CCHHHHHHHHHHHHHHHHHHHHH
Confidence 36888998898888888877764 35556666677766666666544
No 63
>PF05055 DUF677: Protein of unknown function (DUF677); InterPro: IPR007749 This entry contains proteins belonging to the UPF0496 family, found in plants. This family includes AT14A like proteins from Arabidopsis thaliana. At14a contains a small domain that has sequence similarities to integrins from fungi, insects and humans. Transcripts of At14a are found in all Arabidopsis tissues and the protein localises partly to the plasma membrane [].
Probab=27.53 E-value=5.1e+02 Score=24.18 Aligned_cols=19 Identities=16% Similarity=0.218 Sum_probs=9.2
Q ss_pred HHHHHHhhHhHHHHhhCCC
Q 029051 159 ANDLIDNMAEFDYYVRTPK 177 (200)
Q Consensus 159 a~kLF~~le~LD~Aar~Kn 177 (200)
-.++=....-.|+|++.++
T Consensus 270 ~deIE~~~~~v~fave~~~ 288 (336)
T PF05055_consen 270 EDEIEHMKALVDFAVERGE 288 (336)
T ss_pred HHHHHHHHHHHHHHHhcCc
Confidence 3333334444566666654
No 64
>PRK05685 fliS flagellar protein FliS; Validated
Probab=27.03 E-value=3.2e+02 Score=21.63 Aligned_cols=63 Identities=10% Similarity=0.118 Sum_probs=49.4
Q ss_pred hhHHHHHHHhhcCChHhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHhh
Q 029051 135 YLSQDLKTAFSTLPEVRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAMF 199 (200)
Q Consensus 135 ~Lr~DL~tlisskPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l 199 (200)
|...++.+=+.+.++.+ -..-|+..+...+..-..|...++..++...-.++...|.++.+-|
T Consensus 10 Y~~~~~~~~v~tasp~~--Li~mLydgai~~l~~A~~ai~~~~~~~~~~~l~ka~~Ii~eL~~sL 72 (132)
T PRK05685 10 YQQVSVESQVSSASPHK--LIQMLYEGALSFLAQAKLAIEQGDIEAKGEYLSKAINIINGLRNSL 72 (132)
T ss_pred HHhccchhhhhcCCHHH--HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhhc
Confidence 44545544445544432 5788999999999999999999999999999999999998887644
No 65
>PF08988 DUF1895: Protein of unknown function (DUF1895); InterPro: IPR015081 The YscE protein, produced by the pathogen Yersinia, assumes a secondary structure composed of two anti-parallel alpha-helices separated by a flexible loop. The function of this protein is, as yet, unknown. ; PDB: 1ZW0_B 2P58_A 2UWJ_E 2Q1K_D 3PH0_B.
Probab=26.36 E-value=2.1e+02 Score=20.88 Aligned_cols=52 Identities=10% Similarity=0.025 Sum_probs=39.1
Q ss_pred HHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhc-CChHhhHHHHHHHHHH
Q 029051 110 MHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFST-LPEVRRREYVNTANDL 162 (200)
Q Consensus 110 L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tliss-kPkd~Kk~l~~La~kL 162 (200)
|-+|++.+.. +|++-..-|+.+.--...+++..+.. +..++=+.+...++.+
T Consensus 1 mT~LE~~L~~-~~~~~~~~i~~~L~~a~~~vkr~L~~G~~P~eyQq~q~~~~Ai 53 (68)
T PF08988_consen 1 MTNLEQRLSN-ASGEEARAIEQQLRQAQSQVKRKLDRGGTPQEYQQLQQQYDAI 53 (68)
T ss_dssp SCHHHHHHTC-TSHHHHHHHHHHHHHHHHHHHHHHTCTSSHHHHHHHHHHHHHH
T ss_pred CchHHHHHHh-ccHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence 3467888888 89999999999888888888888888 6555555666655443
No 66
>COG5057 LAG1 Phosphotyrosyl phosphatase activator [Cell division and chromosome partitioning / Signal transduction mechanisms]
Probab=25.98 E-value=76 Score=29.87 Aligned_cols=40 Identities=3% Similarity=0.059 Sum_probs=19.2
Q ss_pred HHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHhh
Q 029051 160 NDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAMF 199 (200)
Q Consensus 160 ~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l 199 (200)
..+++.+-+||.+++.++.++.-.-|...|..+..||++|
T Consensus 32 ~ri~~fi~~l~~sik~~~~~d~~~~~Sssv~~m~~vL~ri 71 (353)
T COG5057 32 ARIYNFILDLDESIKGCSDSDYHSEQSSSVNHMMNVLDRI 71 (353)
T ss_pred HHHHHHHHHHHHHhcCCCCCcccchhHHHHHHHHHHHHHH
Confidence 4444455555555555444444444444444444444443
No 67
>PRK00239 rpsT 30S ribosomal protein S20; Reviewed
Probab=25.52 E-value=2.8e+02 Score=20.96 Aligned_cols=29 Identities=7% Similarity=0.006 Sum_probs=20.5
Q ss_pred HHHHhhCCChHHHHHHHHHHHHHHHHHHH
Q 029051 169 FDYYVRTPKVYESYLYYEKALKNLDDIVA 197 (200)
Q Consensus 169 LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa 197 (200)
+..|+..+|..++...|..+.+.||-...
T Consensus 35 ~~~ai~~~~~~~a~~~~~~a~s~iDka~~ 63 (88)
T PRK00239 35 VEAAIAAGDKEAAEEALKAAQSKIDKAAS 63 (88)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHH
Confidence 33355567888888888888888886654
No 68
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=25.51 E-value=4.3e+02 Score=22.55 Aligned_cols=53 Identities=15% Similarity=0.151 Sum_probs=35.8
Q ss_pred ChHhhHHHHHHHHHHHHhhHhHHHHhhC-CChHH----HHHHHHHHHHHHHHHHHhhC
Q 029051 148 PEVRRREYVNTANDLIDNMAEFDYYVRT-PKVYE----SYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 148 Pkd~Kk~l~~La~kLF~~le~LD~Aar~-Kn~~~----a~~~Y~~tv~~LdevLa~l~ 200 (200)
-+..|-.+.+++.+|..-+|+|+.|... ++..+ -.+-++-|...|.++|.+.|
T Consensus 78 e~~~k~a~e~~~~dlLpviDnlerAl~~~~~~~d~~~~l~~Gvem~~~~l~~~L~k~G 135 (193)
T COG0576 78 EEAKKYAIEKFAKDLLPVIDNLERALEAAEDDKDPEKALLEGVEMTLDQLLDALEKLG 135 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHHHHHCC
Confidence 3445667888999999999999999444 22222 22446666777777776654
No 69
>PLN00058 photosystem II reaction center subunit T; Provisional
Probab=25.15 E-value=72 Score=25.27 Aligned_cols=52 Identities=13% Similarity=0.212 Sum_probs=26.6
Q ss_pred CCCCCCCccchhhccccccCCCCCCCCccCCccC-C---------CCCchhHHHHHHHHHHH
Q 029051 3 SSSFSKATSLLQAHNVTNNHNPKTSLPEIKPKAT-Q---------NPIPSRRNFVTTLISTS 54 (200)
Q Consensus 3 ~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~-~---------~~~~~RR~~l~~l~at~ 54 (200)
|-|||-++|.|.+--+---..+..+...++++-. + +....||.+.=...|..
T Consensus 1 MAS~TMtaSfl~~~~~~~~~~~rr~l~Vv~Aak~~~~e~v~~~~~e~~~gRR~~mfaaaAaa 62 (103)
T PLN00058 1 MASMTMTATFLPAVAKLPSATGGRRLSVVRASTSDNTPSLEVKEQQSTTMRRDLMFTAAAAA 62 (103)
T ss_pred CccchhHHHHHHHHhccCCcccCceEEEEEccccccccceeeccccchhhHHHHHHHHHHHH
Confidence 5688877777753322222333334455555543 1 23357887765344433
No 70
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=24.51 E-value=3.2e+02 Score=20.80 Aligned_cols=82 Identities=15% Similarity=0.204 Sum_probs=52.7
Q ss_pred HHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhcCChHhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHH
Q 029051 108 EGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFSTLPEVRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEK 187 (200)
Q Consensus 108 ~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~ 187 (200)
+.+..+++.|+++.|...++.+..=... -.......+-. -+..+. ..+=.++.+|..++..+|.+++...-..
T Consensus 30 ~~l~~i~~~i~~~dW~~A~~~~~~l~~~-W~k~~~~~~~~--~~h~ei----d~i~~sl~rl~~~i~~~dk~~~l~el~~ 102 (121)
T PF14276_consen 30 EQLEQIEEAIENEDWEKAYKETEELEKE-WDKNKKRWSIL--IEHQEI----DNIDISLARLKGYIEAKDKSESLAELAE 102 (121)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHH-HHhhchheeee--ecHHHH----HHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 4466899999999999998876432222 12222222221 122233 4466678899999999999888777776
Q ss_pred HHHHHHHHH
Q 029051 188 ALKNLDDIV 196 (200)
Q Consensus 188 tv~~LdevL 196 (200)
....++.+-
T Consensus 103 lk~~i~~i~ 111 (121)
T PF14276_consen 103 LKELIEHIP 111 (121)
T ss_pred HHHHHHHHH
Confidence 666666553
No 71
>TIGR00029 S20 ribosomal protein S20. This family consists of bacterial (and chloroplast) examples of the bacteria ribosomal small subunit protein S20.
Probab=24.08 E-value=3.1e+02 Score=20.78 Aligned_cols=30 Identities=13% Similarity=0.080 Sum_probs=20.3
Q ss_pred hHHHHhhCCChHHHHHHHHHHHHHHHHHHH
Q 029051 168 EFDYYVRTPKVYESYLYYEKALKNLDDIVA 197 (200)
Q Consensus 168 ~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa 197 (200)
++..|+..+|..+++..|.++.+.||-...
T Consensus 34 k~~~ai~~~d~~~a~~~l~~a~s~iDkaa~ 63 (87)
T TIGR00029 34 KVYAAIAAGDKDKAQEAFKEAAKKLDRAAR 63 (87)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence 344455557777788888888888776543
No 72
>PRK11546 zraP zinc resistance protein; Provisional
Probab=23.86 E-value=2e+02 Score=23.85 Aligned_cols=36 Identities=8% Similarity=0.153 Sum_probs=23.4
Q ss_pred HHhhhhhhhHHHHHHHhhc-CChHhhHHHHHHHHHHHHh
Q 029051 128 YIRLKQAYLSQDLKTAFST-LPEVRRREYVNTANDLIDN 165 (200)
Q Consensus 128 ~LRlka~~Lr~DL~tliss-kPkd~Kk~l~~La~kLF~~ 165 (200)
.||.+.---+.+|+.+.++ .|+++| +..|++++.+=
T Consensus 65 ~LRqqL~aKr~ELnALl~~~~pD~~k--I~aL~kEI~~L 101 (143)
T PRK11546 65 ALRQQLVSKRYEYNALLTANPPDSSK--INAVAKEMENL 101 (143)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCHHH--HHHHHHHHHHH
Confidence 4666666678999999999 555553 44455444443
No 73
>PRK07502 cyclohexadienyl dehydrogenase; Validated
Probab=23.67 E-value=2.3e+02 Score=24.89 Aligned_cols=59 Identities=8% Similarity=0.115 Sum_probs=49.5
Q ss_pred HHHHHHHhhcCCh-------HhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHH
Q 029051 137 SQDLKTAFSTLPE-------VRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDI 195 (200)
Q Consensus 137 r~DL~tlisskPk-------d~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~Ldev 195 (200)
..|+.+|.++-|. .-|+.+.+.-++|-+.++++=.+++.+|..+-+++++++...-+.+
T Consensus 223 frd~tRia~~~~~~w~~i~~~N~~~~~~~l~~~~~~l~~~~~~l~~~d~~~l~~~~~~~~~~r~~~ 288 (307)
T PRK07502 223 FRDFTRIAASDPTMWRDVFLHNKDAVLEMLGRFTEDLAALQRAIRWGDGDALFDLFTRTRAIRRGI 288 (307)
T ss_pred cccccccccCChHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence 3578888888777 6676788888999999999999999999999999999877666554
No 74
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=23.17 E-value=2.7e+02 Score=19.64 Aligned_cols=26 Identities=19% Similarity=0.253 Sum_probs=11.8
Q ss_pred hHhhHHHHHHHHHHHHhhHhHHHHhh
Q 029051 149 EVRRREYVNTANDLIDNMAEFDYYVR 174 (200)
Q Consensus 149 kd~Kk~l~~La~kLF~~le~LD~Aar 174 (200)
++-|+.+++-++++-+++.++=.-++
T Consensus 25 ~e~R~~l~~~~~~~~~~~~~~~~~~~ 50 (74)
T PF12732_consen 25 KETREKLKDKAEDLKDKAKDLYEEAK 50 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444443333
No 75
>PRK14157 heat shock protein GrpE; Provisional
Probab=23.15 E-value=5.4e+02 Score=22.93 Aligned_cols=48 Identities=10% Similarity=0.245 Sum_probs=34.7
Q ss_pred HhhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 150 VRRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 150 d~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
-.+-...++..+|+.-+|+|+.|....+.. .-|.-+.+.|..+|.+.|
T Consensus 121 ~~~~a~~~~~~dLLpvlDnLeRAl~~~~~~---~~~~~i~k~l~~vL~k~G 168 (227)
T PRK14157 121 FRQHGIIDVLTALLPALDDIDRIREHSEMD---DSFKAVAAKIDKAFEKFG 168 (227)
T ss_pred HHHHHHHHHHHHHhhhhhhHHHHHhccccc---hHHHHHHHHHHHHHHHCC
Confidence 344467788999999999999998654332 235567778888887764
No 76
>PF14304 CSTF_C: Transcription termination and cleavage factor C-terminal; PDB: 2J8P_A.
Probab=23.05 E-value=68 Score=22.00 Aligned_cols=23 Identities=17% Similarity=0.400 Sum_probs=17.0
Q ss_pred HHhhcCChHhhHHHHHHHHHHHH
Q 029051 142 TAFSTLPEVRRREYVNTANDLID 164 (200)
Q Consensus 142 tlisskPkd~Kk~l~~La~kLF~ 164 (200)
.-|+++|.++|.....|-..|-.
T Consensus 20 eQI~~LPp~qR~~I~~Lr~ql~~ 42 (46)
T PF14304_consen 20 EQINALPPDQRQQILQLRQQLMR 42 (46)
T ss_dssp HHHHTS-HHHHTHHHHHHHHHH-
T ss_pred HHHHhCCHHHHHHHHHHHHHHHh
Confidence 35788999999999888776643
No 77
>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.
Probab=22.80 E-value=1.2e+02 Score=22.44 Aligned_cols=24 Identities=25% Similarity=0.396 Sum_probs=21.1
Q ss_pred hCCChHHHHHHHHHHHHHHHHHHH
Q 029051 174 RTPKVYESYLYYEKALKNLDDIVA 197 (200)
Q Consensus 174 r~Kn~~~a~~~Y~~tv~~LdevLa 197 (200)
+.++..+|..||++.+..|-.++.
T Consensus 18 ~~gr~~eAi~~Y~~aIe~L~q~~~ 41 (75)
T cd02682 18 KEGNAEDAITNYKKAIEVLSQIVK 41 (75)
T ss_pred hcCCHHHHHHHHHHHHHHHHHHHH
Confidence 478899999999999999988874
No 78
>KOG0375 consensus Serine-threonine phosphatase 2B, catalytic subunit [General function prediction only]
Probab=22.69 E-value=32 Score=33.36 Aligned_cols=60 Identities=25% Similarity=0.249 Sum_probs=44.8
Q ss_pred hhhhhccccCC-CChHHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhc
Q 029051 83 SFLKERFFEPG-LSPEDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFST 146 (200)
Q Consensus 83 ~~lk~rf~~~~-ls~~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tliss 146 (200)
+|||++|.-.| ++-+.|..-|++.+.-|..=+.||+-++=.-|--+||++ +|||-.|..-
T Consensus 49 ~~Lr~Hf~~EGrl~ee~alrIi~~~a~llr~Eknmi~v~APiTVCGDIHGQ----f~DLmKLFEV 109 (517)
T KOG0375|consen 49 DVLRNHFIKEGRLEEEQALRIINEGAALLRQEKNMIEVEAPITVCGDIHGQ----FFDLMKLFEV 109 (517)
T ss_pred HHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCCceEeccCCeeEecccchH----HHHHHHHHHc
Confidence 47999999988 454445555555555555677799999988899999986 6888877654
No 79
>PRK13474 cytochrome b6-f complex iron-sulfur subunit; Provisional
Probab=22.66 E-value=93 Score=26.12 Aligned_cols=14 Identities=36% Similarity=0.581 Sum_probs=10.2
Q ss_pred CCCCchhHHHHHHH
Q 029051 37 QNPIPSRRNFVTTL 50 (200)
Q Consensus 37 ~~~~~~RR~~l~~l 50 (200)
+.+..+||.||..+
T Consensus 8 ~~~d~~RR~FL~~~ 21 (178)
T PRK13474 8 DVPSMGRRQFMNLL 21 (178)
T ss_pred CCCCccHHHHHHHH
Confidence 44457999999933
No 80
>PF01093 Clusterin: Clusterin; InterPro: IPR000753 Clusterin is a vertebrate glycoprotein [], the exact function of which is not yet clear. Clusterin expression is complex, appearing as different forms in different cell compartments. One set of proteins is directed for secretion, and other clusterin species are expressed in the cytoplasm and nucleus. The secretory form of the clusterin protein (sCLU) is targeted to the ER by an initial leader peptide. This ~60kDa pre-sCLU protein is further glycosylated and proteolytically cleaved into alpha- and beta-subunits, held together by disulphide bonds. External sCLU is an 80kDa protein and may act as a molecular chaperone, scavenging denatured proteins outside cells following specific stress-induced injury such as heat shock. sCLU possesses nonspecific binding activity to hydrophobic domains of various proteins in vitro []. A specific nuclear form of CLU (nCLU) acts as a pro-death signal, inhibiting cell growth and survival. The nCLU protein has two coiled-coil domains, one at its N terminus that is unable to bind Ku70, and a C-terminal coiled-coil domain that is uniquely able to associate with Ku70 and is minimally required for cell death. Clusterin is synthesized as a precursor polypeptide of about 400 amino acids which is post-translationally cleaved to form two subunits of about 200 amino acids each. The two subunits are linked by five disulphide bonds to form an antiparallel ladder-like structure []. In each of the mature subunits the five cysteines that are involved in disulphide bonds are clustered in domains of about 30 amino acids located in the central part of the subunits. This entry represents the clusterin precursor and related proteins.; GO: 0008219 cell death
Probab=22.58 E-value=1.6e+02 Score=28.56 Aligned_cols=59 Identities=17% Similarity=0.321 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhc--CChHhhHHHHHHHHHHHHhhHhHHHHhh
Q 029051 100 VARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFST--LPEVRRREYVNTANDLIDNMAEFDYYVR 174 (200)
Q Consensus 100 ~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tliss--kPkd~Kk~l~~La~kLF~~le~LD~Aar 174 (200)
=.-|+.+-.++-.||.++++.. .+-..|+.+ +.+++|+++.+|+++....|++-..-+.
T Consensus 15 deEik~Al~GvKqMK~~Mek~e----------------eeh~~Lm~tL~k~kk~KeeAl~l~~e~e~kLee~e~~Cn 75 (436)
T PF01093_consen 15 DEEIKNALNGVKQMKTMMEKTE----------------EEHKELMKTLEKSKKEKEEALKLANEVEEKLEEEEEVCN 75 (436)
T ss_pred HHHHHHHHHHHHHHHHHHHhhH----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4557778888888999998764 233455555 4689999999999999999887665543
No 81
>cd07625 BAR_Vps17p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps17p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=21.56 E-value=4.9e+02 Score=22.95 Aligned_cols=107 Identities=6% Similarity=0.072 Sum_probs=71.5
Q ss_pred hhhhccccCCCChHHHHHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhcCChHhhHHHHHHHHHHH
Q 029051 84 FLKERFFEPGLSPEDAVARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFSTLPEVRRREYVNTANDLI 163 (200)
Q Consensus 84 ~lk~rf~~~~ls~~eA~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La~kLF 163 (200)
|+=..||+--.....++.++-.+.++|-.-.....+.-=..-...-+...+.++..|..++.+...=+-.+. .++++
T Consensus 25 p~vk~~y~~~~~l~~~~~~lvk~rr~La~~~~dfg~~l~~Ls~~E~~~~L~~a~~kLg~v~~~v~dl~~~QA---~~d~~ 101 (230)
T cd07625 25 PLVKSIYLTAQDLQEKLLRVSKARKQLSLEEADFGQKLIQLSVEETHHGLGNLYEKFGKVLTAVGDIDSIQA---TVDMA 101 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHHHhhHHHHHH---HHHHH
Confidence 577789999999999999999999999877777666665566666677788888888888888644333233 34444
Q ss_pred HhhHhHHHHhhCCChHHHHHHHHHHHHHHHHH
Q 029051 164 DNMAEFDYYVRTPKVYESYLYYEKALKNLDDI 195 (200)
Q Consensus 164 ~~le~LD~Aar~Kn~~~a~~~Y~~tv~~Ldev 195 (200)
.--|-|+++++ +...+...+.+=...+++.
T Consensus 102 tl~d~L~~~~~--~~~~vKealtnR~~~~re~ 131 (230)
T cd07625 102 TLYDGLEWISR--DAYVVKEALTNRHLLMREL 131 (230)
T ss_pred HHHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
Confidence 44555555554 3444444444444444443
No 82
>PRK11582 flagella biosynthesis protein FliZ; Provisional
Probab=21.28 E-value=77 Score=27.16 Aligned_cols=23 Identities=9% Similarity=0.247 Sum_probs=19.7
Q ss_pred HHHHHHhHHHhhhhcHHHHHHHH
Q 029051 107 AEGMHSLREMVDRMAWRYVIFYI 129 (200)
Q Consensus 107 A~~L~~lk~lId~~sW~yvr~~L 129 (200)
.+.|-.|..+||+..|..+|..|
T Consensus 46 K~~Ia~md~liDd~~W~~lQ~~l 68 (169)
T PRK11582 46 KIAISRMDTLIDDNGWQKLQQEW 68 (169)
T ss_pred HHHHHHHhhhccHHHHHHHHHHH
Confidence 46678899999999999999754
No 83
>PF13324 GCIP: Grap2 and cyclin-D-interacting; PDB: 3AY5_A.
Probab=21.25 E-value=5.6e+02 Score=22.44 Aligned_cols=96 Identities=8% Similarity=0.027 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhh-------cCChHhhHHHHHHHHHHHHhhHhHHHHhh
Q 029051 102 RIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFS-------TLPEVRRREYVNTANDLIDNMAEFDYYVR 174 (200)
Q Consensus 102 RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlis-------skPkd~Kk~l~~La~kLF~~le~LD~Aar 174 (200)
.+.++-..|..+=-.+-...++-.++.||...-.+-.-+..|+. +..+++++.....++..++.-+.|-...+
T Consensus 39 ~~~~~l~~l~~~~~~~~~~~G~tL~~~i~~~v~~lv~~~~~L~~~~~~~~~s~~~~~~~~~~~~tG~VWeaCd~l~~lp~ 118 (275)
T PF13324_consen 39 SLFNALLGLLSLYHGLPKGQGPTLRKEIRSAVKSLVDSSIQLVEELVSAYGSSSQSEKNEVLQSTGRVWEACDQLKKLPK 118 (275)
T ss_dssp HHHHHHHHHHHHHTTS-GGG-HHHHHHHHHHHHHHHHHHHHHHHHHH-------------------HHHHHHHTTTTS-S
T ss_pred HHHHHHHHHHHHHhhCcHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcccCccchhHHHHhHHHHHHHHHHHhhh
Confidence 33344444444444445666666777777666665544444433 33577788888999999999999988777
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHh
Q 029051 175 TPKVYESYLYYEKALKNLDDIVAM 198 (200)
Q Consensus 175 ~Kn~~~a~~~Y~~tv~~LdevLa~ 198 (200)
+ |...+.+.-.+....++|.+.-
T Consensus 119 ~-n~~av~~~~~~~~~lvkDa~~E 141 (275)
T PF13324_consen 119 D-NKVAVLRRLKQSRDLVKDALEE 141 (275)
T ss_dssp S-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred h-hHHHHHHHHHHHHHHHHHHHHH
Confidence 5 5555666666666666666543
No 84
>PF12805 FUSC-like: FUSC-like inner membrane protein yccS
Probab=20.61 E-value=3e+02 Score=24.13 Aligned_cols=42 Identities=19% Similarity=0.237 Sum_probs=16.8
Q ss_pred hhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHH
Q 029051 151 RRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLD 193 (200)
Q Consensus 151 ~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~Ld 193 (200)
....+.....++-+.++.+-.. ..+...++.....+....|.
T Consensus 237 ~~~~l~~~l~~l~~~l~~~~~~-~~~~~~~~~~~l~~l~~~l~ 278 (284)
T PF12805_consen 237 HRNRLKRALEALEESLEFLRQQ-DQPENREALLALRNLLDNLR 278 (284)
T ss_pred CchHHHHHHHHHHHHHHHHHHh-cCccCHHHHHHHHHHHHHHH
Confidence 3334444444444444444333 33333333333333333333
No 85
>PF03272 Enhancin: Viral enhancin protein; InterPro: IPR004954 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M60 (enhancin family, clan MA(E)). The active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The viral enhancin protein, or enhancing factor, is involved in disruption of the peritrophic membrane and fusion of nucleocapsids with mid-gut cells.; GO: 0016032 viral reproduction
Probab=20.56 E-value=2.7e+02 Score=28.91 Aligned_cols=67 Identities=22% Similarity=0.327 Sum_probs=50.0
Q ss_pred hhhccccCCC--ChHHH-HHHHHHHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhcCChHhhHHHHHHHHH
Q 029051 85 LKERFFEPGL--SPEDA-VARIKQTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFSTLPEVRRREYVNTAND 161 (200)
Q Consensus 85 lk~rf~~~~l--s~~eA-~~RIk~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tlisskPkd~Kk~l~~La~k 161 (200)
.++|+..... +|+.. ..||.++++-|.+=-.++.-+ ..++-|+.-.|+.+|+.+|+.|.+...+
T Consensus 649 T~~GL~~~~~~~~~~~~l~~rI~~~~~~l~~~~~~l~~e-------------~~~kd~iyLai~~l~~~~~~~l~~~y~~ 715 (775)
T PF03272_consen 649 TKNGLENVDLNPDPEQRLIARIDNHAQWLDNNPSLLIIE-------------NEIKDDIYLAIQHLPDPDRQELMDKYAD 715 (775)
T ss_pred chhhcccCccCCCHHHHHHHHHHHHHHHHHcChhhhhhh-------------HHhHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence 5777777776 55554 889999999888644444322 2556677778999999999999999988
Q ss_pred HHH
Q 029051 162 LID 164 (200)
Q Consensus 162 LF~ 164 (200)
++-
T Consensus 716 ~lP 718 (775)
T PF03272_consen 716 YLP 718 (775)
T ss_pred hCc
Confidence 876
No 86
>PF08066 PMC2NT: PMC2NT (NUC016) domain; InterPro: IPR012588 Exosomes are nano-compartments that function in the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA) [, ]. Exosomes occur in both archaea and eukaryotes, and have a similar overall structure to each other and to bacterial/organelle PNPases (polynucleotide phosphorylases; 2.7.7.8 from EC) [], consisting of a barrel structure composed of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. There are two types of exosomes in eukaryotes, cytoplasmic exosomes that are responsible for 3'-5' exoribonuclease degradation of mRNAs, and nuclear exosomes that degrade pre-mRNAs (such as nonsense transcripts) and degrade rRNAs, snRNAs and snoRNAs. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. There are several accessory proteins that help degrade, unwind or polyadenylate RNA substrate before they enter the exosome. This entry represents the N-terminal domain of Rrp6 (exosome component 10 in humans), a nuclear exosome accessory factor that interacts with the bottom of the hexameric PH-ring opposite the cap. Rrp6 functions as a hydrolytic exonuclease, and is homologous to RNase-D in Escherichia coli. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0006396 RNA processing, 0000176 nuclear exosome (RNase complex)
Probab=20.42 E-value=2.6e+02 Score=20.73 Aligned_cols=49 Identities=8% Similarity=0.106 Sum_probs=29.5
Q ss_pred hhHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHhh
Q 029051 151 RRREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAMF 199 (200)
Q Consensus 151 ~Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~l 199 (200)
+-+.+..+.++|......=-.-....+.......|+..+..+|.+|.++
T Consensus 33 ~s~rll~l~n~ll~~~~~~~~~~~~~~~~d~d~~~~~vvd~~D~LlEk~ 81 (91)
T PF08066_consen 33 QSQRLLSLINSLLKSAGSKSNISSPDDVDDVDERWDSVVDVNDSLLEKA 81 (91)
T ss_pred HHHHHHHHHHHHHHhccccccccCCCccccHHHHHHHHHHHHHHHHHHH
Confidence 3345555666655554333222222234557778888999999988875
No 87
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.38 E-value=2.8e+02 Score=26.78 Aligned_cols=119 Identities=16% Similarity=0.169 Sum_probs=75.1
Q ss_pred cccccchhhhhccccCC-CChHHHHHHHH--HHHHHHHHhHHHhhhhcHHHHHHHHhhhhhhhHHHHHHHhhc--CChHh
Q 029051 77 ESWGTRSFLKERFFEPG-LSPEDAVARIK--QTAEGMHSLREMVDRMAWRYVIFYIRLKQAYLSQDLKTAFST--LPEVR 151 (200)
Q Consensus 77 ~~~~tr~~lk~rf~~~~-ls~~eA~~RIk--~~A~~L~~lk~lId~~sW~yvr~~LRlka~~Lr~DL~tliss--kPkd~ 151 (200)
+.+-+.++-|-.|-++- -=|.|.-+.|- =|--++..+-.+|=..+=...-++| ..||+-=|+.+|.. -|++.
T Consensus 289 ~~~p~~g~~KLqFLL~~nPfP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L---~~Yly~LLdaLIt~qT~pEea 365 (459)
T KOG4340|consen 289 DARPTEGFEKLQFLLQQNPFPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFL---TPYLYDLLDALITCQTAPEEA 365 (459)
T ss_pred cCCccccHHHHHHHHhcCCCChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHh---hHHHHHHHHHHHhCCCCHHHH
Confidence 56667777666665432 24666655442 2444555666655333333333444 45777778899987 68888
Q ss_pred hHHHHHHHHHHHHhhHhHHHHhhCCChHHHHHHHHHHHHHHHHHHHh
Q 029051 152 RREYVNTANDLIDNMAEFDYYVRTPKVYESYLYYEKALKNLDDIVAM 198 (200)
Q Consensus 152 Kk~l~~La~kLF~~le~LD~Aar~Kn~~~a~~~Y~~tv~~LdevLa~ 198 (200)
-|.|-.|++.+.+.+-++---+.++....-+....+++.+.|+-|.+
T Consensus 366 ~KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~ 412 (459)
T KOG4340|consen 366 FKKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAIRKAVNEYDETLEK 412 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence 88999999999999988866555443333345566777777776543
No 88
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=20.28 E-value=4.4e+02 Score=28.22 Aligned_cols=120 Identities=12% Similarity=0.129 Sum_probs=58.3
Q ss_pred cccccch---hhhhccccCCCChHHHHHHHHHHHHH--HHHhHHHhhhhcHHHHH--HHHhhhhhhhHHHHHHHhhcCCh
Q 029051 77 ESWGTRS---FLKERFFEPGLSPEDAVARIKQTAEG--MHSLREMVDRMAWRYVI--FYIRLKQAYLSQDLKTAFSTLPE 149 (200)
Q Consensus 77 ~~~~tr~---~lk~rf~~~~ls~~eA~~RIk~~A~~--L~~lk~lId~~sW~yvr--~~LRlka~~Lr~DL~tlisskPk 149 (200)
..|...+ +||-+++ ++++.++ +.++.+.... |..-+.. ++.|.+.+ .....+.--+|.-+-..+..+=+
T Consensus 378 ~~~~~e~v~~~Lkt~l~-~~~~~e~-id~lENyvl~~girG~~~w--~~~w~~~~~~~~~~~~ln~iR~~v~~~l~~~~~ 453 (1076)
T TIGR02774 378 YRFRAEDVLNLLKTGLY-GDFSQSD-IDAFEQYIRYADIKGLPKF--QKTFTKNHHGKFDLDRLNVLRQRILAPLEELFK 453 (1076)
T ss_pred cCCCHHHHHHHHccCCc-CCcCHHH-HHHHHHHHHHhCCCCchhh--CCccccchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555554 4899887 6555444 4444433221 1111011 23365542 11111222233333333333223
Q ss_pred HhhHHHHHHHHHHHHhhHhHHHH---------hhCCChHHHHHHHHHHHHHHHHHHHhhC
Q 029051 150 VRRREYVNTANDLIDNMAEFDYY---------VRTPKVYESYLYYEKALKNLDDIVAMFA 200 (200)
Q Consensus 150 d~Kk~l~~La~kLF~~le~LD~A---------ar~Kn~~~a~~~Y~~tv~~LdevLa~l~ 200 (200)
..++..++++..||+.+++++-. +......+-+.-|...+..||+++..+|
T Consensus 454 ~~~~~~~e~~~~Ly~fL~~~~v~~~L~~~~~~~~~~~a~e~~QvW~~~~~lLD~~v~ilG 513 (1076)
T TIGR02774 454 SRKQLGEKLLNKFSVFLKEIALTKNLQDLATTLSEVEQEKQEEVWKTFTDILEQFATIFG 513 (1076)
T ss_pred HHHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 34445889999999998886543 1111222334455566677777776654
No 89
>TIGR03823 FliZ flagellar regulatory protein FliZ. FliZ is involved in the regulation of flagellar assembly and possibly also the down-regulation of the motile phenotype. FliZ interacts with the flagellar translational activator FlhCD complex.
Probab=20.28 E-value=83 Score=26.95 Aligned_cols=24 Identities=13% Similarity=0.383 Sum_probs=20.2
Q ss_pred HHHHHHHhHHHhhhhcHHHHHHHH
Q 029051 106 TAEGMHSLREMVDRMAWRYVIFYI 129 (200)
Q Consensus 106 ~A~~L~~lk~lId~~sW~yvr~~L 129 (200)
..+.|-.|..+||+..|..+|..|
T Consensus 45 nK~~Ia~md~liDd~~W~~lQ~~l 68 (168)
T TIGR03823 45 NKESISRMDTLIDDNGWSVLQQEL 68 (168)
T ss_pred cHHHHHHHhhhccHHHHHHHHHHH
Confidence 346778899999999999999854
Done!