Query 032811
Match_columns 133
No_of_seqs 103 out of 432
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 06:15:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032811.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032811hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00316 profilin; Provisional 100.0 1.5E-49 3.3E-54 281.0 16.3 127 1-133 1-150 (150)
2 smart00392 PROF Profilin. Bind 100.0 2.7E-47 5.9E-52 266.6 16.1 127 1-133 1-129 (129)
3 cd00148 PROF Profilin binds ac 100.0 6.5E-47 1.4E-51 264.1 16.4 125 2-133 1-127 (127)
4 KOG1755 Profilin [Cytoskeleton 100.0 9.3E-44 2E-48 244.7 14.6 127 1-133 1-128 (128)
5 PF00235 Profilin: Profilin; 100.0 7.5E-42 1.6E-46 235.9 12.1 121 2-128 1-121 (121)
6 COG2018 Uncharacterized distan 85.1 10 0.00022 26.2 8.7 89 21-119 18-106 (119)
7 PF03259 Robl_LC7: Roadblock/L 80.9 1.2 2.6E-05 28.0 1.8 60 21-81 14-73 (91)
8 PF13734 Inhibitor_I69: Spi pr 76.4 11 0.00025 24.8 5.5 86 39-130 3-91 (96)
9 PF08923 MAPKK1_Int: Mitogen-a 72.3 26 0.00056 24.0 6.6 108 3-130 3-114 (119)
10 PHA02610 uvsY.-2 hypothetical 63.7 9.8 0.00021 22.4 2.6 31 94-124 4-36 (53)
11 TIGR00460 fmt methionyl-tRNA f 54.9 91 0.002 24.6 7.7 37 40-80 212-248 (313)
12 PRK00394 transcription factor; 54.8 37 0.00081 24.8 5.1 39 91-133 46-84 (179)
13 COG0223 Fmt Methionyl-tRNA for 52.6 83 0.0018 25.2 7.1 66 40-111 213-278 (307)
14 COG3382 Solo B3/4 domain (OB-f 51.6 47 0.001 25.5 5.3 35 97-131 181-215 (229)
15 PRK06901 aspartate-semialdehyd 50.9 92 0.002 25.1 7.1 89 27-133 226-322 (322)
16 PF08513 LisH: LisH; InterPro 46.7 15 0.00033 18.2 1.4 10 124-133 7-16 (27)
17 cd04516 TBP_eukaryotes eukaryo 46.7 62 0.0013 23.6 5.2 36 94-133 50-85 (174)
18 cd04518 TBP_archaea archaeal T 45.2 62 0.0013 23.6 5.0 39 91-133 47-85 (174)
19 PF10886 DUF2685: Protein of u 44.9 32 0.0007 20.4 2.8 31 94-124 4-36 (54)
20 PLN00062 TATA-box-binding prot 44.6 74 0.0016 23.3 5.3 37 93-133 49-85 (179)
21 PF12965 DUF3854: Domain of un 43.8 57 0.0012 22.5 4.4 35 99-133 67-103 (130)
22 PF05176 ATP-synt_10: ATP10 pr 42.6 27 0.00057 27.1 2.8 34 21-57 216-250 (252)
23 PRK06988 putative formyltransf 42.6 1.5E+02 0.0032 23.5 7.1 38 40-80 211-248 (312)
24 PF10144 SMP_2: Bacterial viru 41.2 39 0.00084 25.5 3.4 26 10-40 80-105 (210)
25 COG1157 FliI Flagellar biosynt 40.5 30 0.00066 29.0 3.0 34 100-133 219-253 (441)
26 cd00652 TBP_TLF TATA box bindi 40.4 84 0.0018 22.8 5.0 39 91-133 47-85 (174)
27 PF01509 TruB_N: TruB family p 39.7 45 0.00098 23.6 3.5 44 31-75 60-106 (149)
28 COG3377 Uncharacterized conser 39.5 1E+02 0.0022 20.3 4.7 32 64-95 4-36 (95)
29 cd01132 F1_ATPase_alpha F1 ATP 39.3 42 0.00092 26.4 3.5 33 101-133 128-161 (274)
30 TIGR02764 spore_ybaN_pdaB poly 39.0 64 0.0014 23.1 4.3 29 104-133 154-182 (191)
31 COG2139 RPL21A Ribosomal prote 38.9 48 0.001 22.0 3.2 24 89-112 57-80 (98)
32 smart00667 LisH Lissencephaly 38.3 20 0.00044 17.7 1.1 12 122-133 8-19 (34)
33 PRK13604 luxD acyl transferase 37.7 84 0.0018 25.1 5.0 28 101-133 38-65 (307)
34 PF02911 Formyl_trans_C: Formy 37.3 1.1E+02 0.0023 19.3 8.3 37 40-80 10-46 (100)
35 cd04517 TLF TBP-like factors ( 36.8 94 0.002 22.6 4.8 37 93-133 49-85 (174)
36 PF09176 Mpt_N: Methylene-tetr 36.7 12 0.00027 24.0 0.1 31 43-73 20-53 (81)
37 PF02789 Peptidase_M17_N: Cyto 36.3 89 0.0019 20.4 4.4 34 99-132 52-86 (126)
38 cd00861 ProRS_anticodon_short 36.3 75 0.0016 19.6 3.8 29 102-133 4-32 (94)
39 PF08479 POTRA_2: POTRA domain 35.6 42 0.00091 20.5 2.5 21 113-133 32-52 (76)
40 PRK11246 hypothetical protein; 35.1 82 0.0018 24.0 4.3 27 10-41 80-106 (218)
41 PF02770 Acyl-CoA_dh_M: Acyl-C 33.5 34 0.00074 19.4 1.7 18 63-80 23-40 (52)
42 PF07494 Reg_prop: Two compone 33.4 61 0.0013 15.4 2.5 16 25-40 9-24 (24)
43 PRK00005 fmt methionyl-tRNA fo 32.8 2.4E+02 0.0053 22.1 7.6 37 40-80 212-248 (309)
44 cd01134 V_A-ATPase_A V/A-type 32.0 51 0.0011 27.1 3.0 33 101-133 221-254 (369)
45 COG4725 IME4 Transcriptional a 31.5 73 0.0016 23.5 3.4 58 67-126 98-156 (198)
46 PF07244 Surf_Ag_VNR: Surface 31.2 59 0.0013 19.3 2.6 21 113-133 33-53 (78)
47 PF00352 TBP: Transcription fa 31.1 1.4E+02 0.003 18.7 6.1 36 93-132 51-86 (86)
48 PF14584 DUF4446: Protein of u 29.8 88 0.0019 22.3 3.6 29 26-55 116-150 (151)
49 PF11513 TA0956: Thermoplasma 29.7 1.7E+02 0.0037 19.4 4.7 38 93-133 66-104 (110)
50 PRK05922 type III secretion sy 29.5 65 0.0014 27.0 3.3 34 100-133 213-247 (434)
51 PF07799 DUF1643: Protein of u 28.9 86 0.0019 21.3 3.4 34 100-133 13-46 (136)
52 PTZ00414 10 kDa heat shock pro 28.1 66 0.0014 21.4 2.5 19 62-80 74-92 (100)
53 cd01133 F1-ATPase_beta F1 ATP 27.3 67 0.0015 25.2 2.9 34 100-133 128-163 (274)
54 PRK00364 groES co-chaperonin G 27.1 49 0.0011 21.6 1.8 18 63-80 71-88 (95)
55 COG1660 Predicted P-loop-conta 27.1 1.4E+02 0.003 23.7 4.5 34 98-132 239-272 (286)
56 cd00320 cpn10 Chaperonin 10 Kd 26.9 62 0.0013 21.0 2.2 18 63-80 70-87 (93)
57 PF14553 YqbF: YqbF, hypotheti 26.5 61 0.0013 18.3 1.8 13 121-133 22-34 (43)
58 PF08356 EF_assoc_2: EF hand a 26.2 44 0.00094 21.8 1.4 31 43-73 3-35 (89)
59 TIGR01043 ATP_syn_A_arch ATP s 26.0 76 0.0016 27.7 3.2 33 101-133 286-319 (578)
60 cd01136 ATPase_flagellum-secre 25.9 68 0.0015 25.8 2.7 33 101-133 126-159 (326)
61 TIGR03496 FliI_clade1 flagella 25.4 73 0.0016 26.4 2.9 32 102-133 195-227 (411)
62 PRK14533 groES co-chaperonin G 25.1 78 0.0017 20.6 2.4 19 62-80 65-83 (91)
63 PRK06936 type III secretion sy 25.1 74 0.0016 26.8 2.9 33 101-133 219-252 (439)
64 PF12146 Hydrolase_4: Putative 24.5 1.8E+02 0.0039 17.9 4.4 18 116-133 27-44 (79)
65 PRK08972 fliI flagellum-specif 24.3 77 0.0017 26.7 2.9 32 102-133 220-252 (444)
66 PHA02119 hypothetical protein 24.3 49 0.0011 20.8 1.3 11 123-133 58-68 (87)
67 PF00166 Cpn10: Chaperonin 10 24.2 72 0.0016 20.5 2.2 18 63-80 70-87 (93)
68 TIGR03497 FliI_clade2 flagella 24.1 85 0.0018 26.1 3.0 33 101-133 194-227 (413)
69 PRK08927 fliI flagellum-specif 24.0 79 0.0017 26.6 2.9 33 101-133 215-248 (442)
70 KOG0141 Isovaleryl-CoA dehydro 23.9 1.1E+02 0.0024 25.0 3.6 44 63-106 182-227 (421)
71 PRK04192 V-type ATP synthase s 23.5 87 0.0019 27.4 3.1 33 101-133 291-324 (586)
72 TIGR03498 FliI_clade3 flagella 23.4 87 0.0019 26.1 3.0 33 101-133 197-230 (418)
73 PRK09099 type III secretion sy 23.2 94 0.002 26.1 3.1 33 101-133 220-253 (441)
74 PF09695 YtfJ_HI0045: Bacteria 22.8 1.7E+02 0.0038 21.2 4.1 31 25-58 128-159 (160)
75 PF00006 ATP-synt_ab: ATP synt 22.6 86 0.0019 23.5 2.6 34 100-133 71-105 (215)
76 TIGR01752 flav_long flavodoxin 22.4 1.8E+02 0.0039 20.4 4.2 34 99-132 78-111 (167)
77 PF04312 DUF460: Protein of un 22.3 2.3E+02 0.0051 20.0 4.5 35 18-54 39-73 (138)
78 TIGR01042 V-ATPase_V1_A V-type 22.1 1E+02 0.0022 27.1 3.1 33 101-133 292-325 (591)
79 PRK09280 F0F1 ATP synthase sub 21.7 1E+02 0.0022 26.2 3.0 33 101-133 204-238 (463)
80 PRK12597 F0F1 ATP synthase sub 21.5 85 0.0019 26.5 2.6 33 101-133 203-237 (461)
81 PF13098 Thioredoxin_2: Thiore 21.4 1.1E+02 0.0024 19.4 2.6 27 25-53 86-112 (112)
82 PRK07721 fliI flagellum-specif 21.1 1.2E+02 0.0026 25.5 3.3 33 101-133 215-248 (438)
83 TIGR01626 ytfJ_HI0045 conserve 20.9 1.3E+02 0.0028 22.1 3.2 34 22-57 146-180 (184)
84 PRK02983 lysS lysyl-tRNA synth 20.8 4.1E+02 0.009 25.1 7.0 58 74-133 256-313 (1094)
85 KOG3222 Inosine triphosphate p 20.6 93 0.002 23.2 2.3 16 118-133 177-192 (195)
86 PRK12359 flavodoxin FldB; Prov 20.5 1.9E+02 0.0041 20.9 4.0 35 98-132 78-112 (172)
87 PF08127 Propeptide_C1: Peptid 20.4 65 0.0014 17.8 1.2 29 31-59 12-40 (41)
88 PF14080 DUF4261: Domain of un 20.1 2.1E+02 0.0046 17.6 3.7 23 110-132 18-40 (77)
No 1
>PTZ00316 profilin; Provisional
Probab=100.00 E-value=1.5e-49 Score=281.01 Aligned_cols=127 Identities=36% Similarity=0.641 Sum_probs=121.4
Q ss_pred CChHHHhhhhhcccccCCccccceEEEEec-CCCEEEEcCCCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEe
Q 032811 1 MSWQTYVDDHLMCDIDGQGQHLSASAIVGH-DGSVWAQSANFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQG 79 (133)
Q Consensus 1 MSW~~yv~~~L~~~~~~~g~~~~~aaI~g~-dG~~wA~s~~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~ 79 (133)
||||+|||++|++ +| ++++|||+|+ ||++||+|++| +++|+|++.|+++|+||+.++.+||+|+|+||+++|.
T Consensus 1 MSWQaYVD~~L~g----sg-~v~kAAIiG~~DGsvWA~S~gF-~lspeE~~~I~~~F~d~~~l~~~Gi~l~G~KY~~lr~ 74 (150)
T PTZ00316 1 MSWQAYVDDSLIG----SG-NMHSAAIVGLADGSYWAYGGSY-IPQPEEVAHILKCLGNFSLVQSSGVTIYGVKFFGLQS 74 (150)
T ss_pred CCHHHHHHhhhhc----cC-CcceEEEEecCCCCEeecCCCC-ccCHHHHHHHHHHhcCCccccCCCEEEcceEEEEEEe
Confidence 9999999999999 99 9999999998 99999999999 9999999999999999999999999999999999997
Q ss_pred CC---CceEEEecCCCcEEEEecCcEEEEEEeCC-------------------CCCcchHHHHHHHHHHHHHhCCC
Q 032811 80 EA---GAVIRGKKGSGGVTIKKTGQALVFGIYEE-------------------PVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 80 d~---~~~i~~kk~~~G~~i~kt~~~iVI~~~~~-------------------~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
++ +++|++||+++|++++||+|++|||+|++ +++|++|+.+||+|||||+++||
T Consensus 75 ~~d~d~~~i~gKKg~~G~~i~kT~qaiiI~~y~~~~~~~~~~~~~~~~~~~~~~~~pg~~~~~Ve~LadYL~~~gy 150 (150)
T PTZ00316 75 GTEGDMKYIFFKKGAAGGCIYTSKQTAIIAVYGNPGDTSSLQQDLEKNEAHAVAVNPADCNTTVKRIAEYLISLDY 150 (150)
T ss_pred ccCCCcceEEEecCCCeEEEEEcCCEEEEEEeCCcccccccccccccccccccccCHHHHHHHHHHHHHHHHHcCC
Confidence 32 37899999999999999999999999999 47999999999999999999998
No 2
>smart00392 PROF Profilin. Binds actin monomers, membrane polyphosphoinositides and poly-L-proline.
Probab=100.00 E-value=2.7e-47 Score=266.56 Aligned_cols=127 Identities=54% Similarity=0.876 Sum_probs=122.8
Q ss_pred CChHHHhhhhhcccccCCccccceEEEEecCCCEEEEcCC--CCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEE
Q 032811 1 MSWQTYVDDHLMCDIDGQGQHLSASAIVGHDGSVWAQSAN--FPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQ 78 (133)
Q Consensus 1 MSW~~yv~~~L~~~~~~~g~~~~~aaI~g~dG~~wA~s~~--f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r 78 (133)
||||+|||++|++ +| ++++|||+++||++||+|++ |..++|+|++.|++.|+||+.++.+||+|+|+||+++|
T Consensus 1 MsWq~yvd~~l~~----~g-~~~~AaI~g~dGsvWA~s~g~~f~~~~~~E~~~i~~~f~~~~~~~~~Gi~l~G~Ky~~~~ 75 (129)
T smart00392 1 MSWQAYVDNLLVG----SG-CVDAAAIGGKDGSVWAASAGGNFQKITPEEIAAIAALFNSLAAVFSNGLTLGGQKYMVIR 75 (129)
T ss_pred CChHHHHHHHhhc----cC-CCcEEEEEeCCCCeeeccCCCCCCcCCHHHHHHHHHHccCcchhccCCeEECCeEEEEEE
Confidence 9999999988998 88 99999999999999999999 75689999999999999998888999999999999999
Q ss_pred eCCCceEEEecCCCcEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 79 GEAGAVIRGKKGSGGVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 79 ~d~~~~i~~kk~~~G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
.| ++.+++||++.|++++||+++|||++|+++++|++|+++|++|||||+++||
T Consensus 76 ~d-~~~i~~kk~~~Gv~i~kT~~aivI~~y~e~~~~g~~~~~v~~ladYL~~~Gy 129 (129)
T smart00392 76 AD-DRSIMGKKGAGGVVIVKTKQALIIGMYKEGVQPGQANKTVEKLADYLRSSGY 129 (129)
T ss_pred ec-CcEEEeecCCceEEEEECCCEEEEEECCCCCChHHHHHHHHHHHHHHHHcCC
Confidence 99 8999999999999999999999999999999999999999999999999998
No 3
>cd00148 PROF Profilin binds actin monomers, membrane polyphosphoinositides such as PI(4,5)P2, and poly-L-proline. Profilin can inhibit actin polymerization into F-actin by binding to monomeric actin (G-actin) and terminal F-actin subunits, but - as a regulator of the cytoskeleton - it may also promote actin polymerization. It plays a role in the assembly of branched actin filament networks, by activating WASP via binding to WASP's proline rich domain. Profilin may link the cytoskeleton with major signalling pathways by interacting with components of the phosphatidylinositol cycle and Ras pathway.
Probab=100.00 E-value=6.5e-47 Score=264.06 Aligned_cols=125 Identities=57% Similarity=0.979 Sum_probs=122.0
Q ss_pred ChHHHhhhhhcccccCCccccceEEEEecC-CCEEEEcCC-CCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEe
Q 032811 2 SWQTYVDDHLMCDIDGQGQHLSASAIVGHD-GSVWAQSAN-FPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQG 79 (133)
Q Consensus 2 SW~~yv~~~L~~~~~~~g~~~~~aaI~g~d-G~~wA~s~~-f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~ 79 (133)
|||+|||++|++ +| +|++|||+|+| |++||+|++ | +++|+|+++|+++|+||+.++.+||+|+|+||+++|.
T Consensus 1 sWq~yvd~~L~~----~g-~~~~aAI~g~d~g~vwA~s~~~f-~~t~~E~~~i~~~f~d~~~~~~~Gi~l~G~KY~~l~~ 74 (127)
T cd00148 1 SWQAYVDDNLLG----TG-KVDSAAIVGHDDGSVWAASAGGF-NLTPEEVGTLVAGFKDPDGVFSTGLTLGGQKYMVIRA 74 (127)
T ss_pred ChHHHHHHHHhh----cC-CcCEEEEEecCCCCeEEecCCCC-ccCHHHHHHHHHHccCccccccCCEEECCeEEEEEec
Confidence 899999989999 88 99999999997 999999999 9 9999999999999999988899999999999999999
Q ss_pred CCCceEEEecCCCcEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 80 EAGAVIRGKKGSGGVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 80 d~~~~i~~kk~~~G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
| ++++++|++++|++++||+++||||+|+++++|++|+++|++|||||+++||
T Consensus 75 d-~~~i~~kk~~~Gi~i~kT~~~ivi~~y~e~~~~g~~~~~v~~ladYL~~~gy 127 (127)
T cd00148 75 D-DRSIYGKKGAGGVVIVKTKQALVIGMYEEGVQPGQANKVVEKLADYLRSQGY 127 (127)
T ss_pred C-ccEEEeeeCCCeEEEEECCCEEEEEEcCCCCCHHHHHHHHHHHHHHHHHcCC
Confidence 9 7999999999999999999999999999999999999999999999999998
No 4
>KOG1755 consensus Profilin [Cytoskeleton]
Probab=100.00 E-value=9.3e-44 Score=244.73 Aligned_cols=127 Identities=65% Similarity=1.121 Sum_probs=123.2
Q ss_pred CChHHHhhhhhcccccCCccccceEEEEecCC-CEEEEcCCCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEe
Q 032811 1 MSWQTYVDDHLMCDIDGQGQHLSASAIVGHDG-SVWAQSANFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQG 79 (133)
Q Consensus 1 MSW~~yv~~~L~~~~~~~g~~~~~aaI~g~dG-~~wA~s~~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~ 79 (133)
||||+|||++|++ ++ +|++|||++.|| ++||+|++| +++|+|+..++..|+|++.+..+|++|+|+||+++|.
T Consensus 1 ~~Wq~Yvd~~l~~----~~-~v~~AAIvg~~~~SVWA~S~~f-~~~~~e~~~~v~~F~d~~~~~~~Gl~L~Gqkylv~~g 74 (128)
T KOG1755|consen 1 MSWQAYVDDHLLG----TG-HVTRAAIVGYDGGSVWAASAGF-NVKPSEIPAIVAGFKDPGGLAGTGLTLGGQKYLVVRG 74 (128)
T ss_pred CCHHHHHHHhhcc----cc-ccceeeEEecCCCeeEEecCCC-cccHHHHHHHHhcccCcccccccceeecccEEEEEec
Confidence 8999999999999 88 999999999955 999999999 9999999999999999999999999999999999999
Q ss_pred CCCceEEEecCCCcEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 80 EAGAVIRGKKGSGGVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 80 d~~~~i~~kk~~~G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
|++..+++|++.+||++.||.+++|+++|+++++|++|+++||.|||||+++||
T Consensus 75 e~~~~~~gk~~~~gv~i~kT~~~li~~~y~e~v~~g~~~k~ve~LadYL~~~gy 128 (128)
T KOG1755|consen 75 EEGRVIRGKEGTGGVTIKKTGQALIFSIYKEGVQPGQCNKVVESLADYLRESGY 128 (128)
T ss_pred ccceEEecccCCCcEEEEEcceEEEEEEcCCCCCHHHHHHHHHHHHHHHHhcCC
Confidence 977889999999999999999999999999999999999999999999999998
No 5
>PF00235 Profilin: Profilin; InterPro: IPR002097 Profilin is a small eukaryotic protein that binds to monomeric actin (G-actin) in a 1:1 ratio thus preventing the polymerisation of actin into filaments (F-actin). It can also in certain circumstance promote actin polymerisation. Profilin also binds to polyphosphoinositides such as PIP2. Overall sequence similarity among profilin from organisms which belong to different phyla (ranging from fungi to mammals) is low, but the N-terminal region is relatively well conserved. That region is thought to be involved in the binding to actin. A protein structurally similar to profilin is present in the genome of Variola virus and Vaccinia virus (gene A42R). Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Ara t 8, Bet v 2, Cyn d 12, Hel a 2, Mer a 1 and Phl p 11.; GO: 0003779 actin binding, 0007010 cytoskeleton organization, 0015629 actin cytoskeleton; PDB: 1ACF_A 3NEC_C 2V8F_B 2V8C_A 2VK3_A 2JKF_A 2JKG_A 1F2K_B 2ACG_A 1YPR_B ....
Probab=100.00 E-value=7.5e-42 Score=235.94 Aligned_cols=121 Identities=48% Similarity=0.976 Sum_probs=116.5
Q ss_pred ChHHHhhhhhcccccCCccccceEEEEecCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEeCC
Q 032811 2 SWQTYVDDHLMCDIDGQGQHLSASAIVGHDGSVWAQSANFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQGEA 81 (133)
Q Consensus 2 SW~~yv~~~L~~~~~~~g~~~~~aaI~g~dG~~wA~s~~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~d~ 81 (133)
|||+||+++|++ +| ++++|||+|.||++||++++|++++|+|++.|+++|++|+.++.+||+|+|+||+++|.|
T Consensus 1 sW~~~i~~~L~~----~~-~~~~aaI~~~dG~vwA~s~~f~~~~~~E~~~i~~~f~~~~~~~~~gi~l~G~kY~~~~~d- 74 (121)
T PF00235_consen 1 SWQDYIDEQLIG----TG-NITKAAIIGSDGSVWASSPGFSNISPEEAKAIIKAFNNPSKFPSNGITLGGKKYIVLRAD- 74 (121)
T ss_dssp THHHHHHTHHHT----TS-SESEEEEEETTSSEEEEETTGGGCSHHHHHHHHHHHHSSSHHHHH-EEETTEEEEEEEEE-
T ss_pred ChhHHHHHHhcc----cC-cEeEEEEEcCCCCEEEecCCCCCCCHHHHHHHHHHhcCchhcccCCeEEcCcEeEEEecC-
Confidence 899999989999 88 899999999999999999999889999999999999999888899999999999999999
Q ss_pred CceEEEecCCCcEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHH
Q 032811 82 GAVIRGKKGSGGVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYL 128 (133)
Q Consensus 82 ~~~i~~kk~~~G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL 128 (133)
++++++|++++|++++||+++||||+|+++++|++|+++|++|||||
T Consensus 75 ~~~i~~k~~~~G~~i~kt~~~ivIg~y~~~~~~~~~~~~v~~lA~yL 121 (121)
T PF00235_consen 75 DNSIYGKKGKGGIIIVKTKQAIVIGMYDESIQPGNCNKAVEKLADYL 121 (121)
T ss_dssp TTEEEEEETTEEEEEEECSSEEEEEEEETTSTHHHHHHHHHHHHHHH
T ss_pred CceEEeeCCCCcEEEEECCCEEEEEEeCCCCCHHHHHHHHHHHHhhC
Confidence 88999999999999999999999999999999999999999999998
No 6
>COG2018 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]
Probab=85.09 E-value=10 Score=26.16 Aligned_cols=89 Identities=19% Similarity=0.220 Sum_probs=50.8
Q ss_pred ccceEEEEecCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEeCCCceEEEecCCCcEEEEecC
Q 032811 21 HLSASAIVGHDGSVWAQSANFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQGEAGAVIRGKKGSGGVTIKKTG 100 (133)
Q Consensus 21 ~~~~aaI~g~dG~~wA~s~~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~d~~~~i~~kk~~~G~~i~kt~ 100 (133)
.+..++|++.||-+-+++-.+ +...+=+..+....-........-|--+...++.++.+++..+.-.-|..
T Consensus 18 gv~ga~Ivs~DGL~ia~~~p~-~~d~e~vaA~~a~~~g~~er~~~~l~~g~leqi~I~g~~g~i~l~~~g~~-------- 88 (119)
T COG2018 18 GVRGALVVSKDGLPIAAELPG-NVDAEIVAAMAATALGLAERAADELGGGELEQIMIEGKKGKILLYDAGDD-------- 88 (119)
T ss_pred CceEEEEEccCCceEeecCCC-cccHHHHHHHHHHHHHHhHHHHHHhCCCCceEEEEeccccEEEEEEcCCc--------
Confidence 688999999999999987555 65555555555433221222344455566777777776333332223333
Q ss_pred cEEEEEEeCCCCCcchHHH
Q 032811 101 QALVFGIYEEPVTPGQCNM 119 (133)
Q Consensus 101 ~~iVI~~~~~~~~~~~~~~ 119 (133)
++++..-+...+-|...-
T Consensus 89 -~il~~~a~~~~nLGli~~ 106 (119)
T COG2018 89 -AILVVLADEGTNLGLIRM 106 (119)
T ss_pred -eEEEEEcCCCCcchhhhh
Confidence 444444555555554333
No 7
>PF03259 Robl_LC7: Roadblock/LC7 domain; InterPro: IPR004942 This family includes proteins that are about 100 amino acids long and have been shown to be related []. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is proposed that roadblock/LC7 family members may modulate specific dynein functions []. This family also includes Golgi-associated MP1 adapter protein (Q9Y2Q5 from SWISSPROT) and MglB from Myxococcus xanthus (Q50883 from SWISSPROT), a protein involved in gliding motility []. However the family also includes members from non-motile bacteria such as Streptomyces coelicolor, suggesting that the protein may play a structural or regulatory role.; PDB: 2B95_B 1Z09_A 2E8J_B 2HZ5_B 3KYE_A 2ZL1_B 1SKO_B 3CPT_B 1VEU_B 1VET_B ....
Probab=80.85 E-value=1.2 Score=27.96 Aligned_cols=60 Identities=18% Similarity=0.222 Sum_probs=33.8
Q ss_pred ccceEEEEecCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEeCC
Q 032811 21 HLSASAIVGHDGSVWAQSANFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQGEA 81 (133)
Q Consensus 21 ~~~~aaI~g~dG~~wA~s~~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~d~ 81 (133)
.+..++|++.||.+-++ .++....++.+..+...+-........-+..+.-+++.++.++
T Consensus 14 gv~~~~l~~~dG~~i~~-~~~~~~~~~~~aa~~a~~~~~~~~~~~~l~~~~~~~v~i~~~~ 73 (91)
T PF03259_consen 14 GVRGAVLVDKDGLVIAS-SGIDDDDAEKLAAMAASLLAAAEKLAKELGEGELEQVRIETEK 73 (91)
T ss_dssp TEEEEEEEETTSEEEEE-TSSSHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEEEEEEEESS
T ss_pred CeeEEEEEcCCCCEEEE-ecCCcccHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEEEECC
Confidence 78999999999999887 3332333444444433321100001112225677788888873
No 8
>PF13734 Inhibitor_I69: Spi protease inhibitor; PDB: 1PVJ_A 1DKI_D 2UZJ_A 2JTC_A 4D8E_A 4D8I_A 4D8B_A.
Probab=76.37 E-value=11 Score=24.84 Aligned_cols=86 Identities=20% Similarity=0.186 Sum_probs=38.4
Q ss_pred CCCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEeCCCceEEEecCCCcEEEEec--CcEEEEEEeCCCCC-cc
Q 032811 39 ANFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQGEAGAVIRGKKGSGGVTIKKT--GQALVFGIYEEPVT-PG 115 (133)
Q Consensus 39 ~~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~d~~~~i~~kk~~~G~~i~kt--~~~iVI~~~~~~~~-~~ 115 (133)
.+| +.|++|+..|+..|-....-...-+...... ...+..-.|+-. +..|++|+-- ...=|+|+-+++.- ..
T Consensus 3 ~~f-~rt~~eA~~IA~~F~~~~~~~k~~~~~~~~s---~~~~~~~YI~N~-~~~GFVIVSgDdr~~~ILaYS~~G~fd~~ 77 (96)
T PF13734_consen 3 ENF-QRTEKEALQIAKTFVQKNGQSKTKLRTRSTS---TPSDTPYYIFND-NNKGFVIVSGDDRMGPILAYSDEGSFDTN 77 (96)
T ss_dssp ----B--HHHHHHHHHHHHH--------EE----T---TT-SSSEEEEEE-TTS-EEEEESBTTS-SEEEEESSS----T
T ss_pred ccc-ccCHHHHHHHHHHHHHhcccccceeEecccC---CCCCCcEEEEEc-CCCEEEEEECCCCccceeEEcCCCCcCcc
Confidence 578 8899999999998843211111111111111 000101235545 6778888774 34678899998863 33
Q ss_pred hHHHHHHHHHHHHHh
Q 032811 116 QCNMIVERLGDYLID 130 (133)
Q Consensus 116 ~~~~~v~~lA~yL~~ 130 (133)
+ ...-.-|+.|+.+
T Consensus 78 ~-~n~~~~l~~y~~~ 91 (96)
T PF13734_consen 78 N-ANVRPGLQAYLEQ 91 (96)
T ss_dssp --HHHHHHHHHHHHH
T ss_pred c-hhHHHHHHHHHHH
Confidence 3 2345556666654
No 9
>PF08923 MAPKK1_Int: Mitogen-activated protein kinase kinase 1 interacting; InterPro: IPR015019 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry represents Mitogen-activated protein kinase kinase 1 interacting protein, which is a small subcellular adaptor protein required for MAPK signalling and ERK1/2 activation. The overall topology of this domain has a central five-stranded beta-sheet sandwiched between a two alpha-helix and a one alpha-helix layer []. ; PDB: 1VEU_A 1VET_A 1SKO_A 2ZL1_A 3CPT_A.
Probab=72.33 E-value=26 Score=24.02 Aligned_cols=108 Identities=17% Similarity=0.202 Sum_probs=62.3
Q ss_pred hHHHhhhhhcccccCCccccceEEEEecCCCEEEEc--CCCC--CCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEE
Q 032811 3 WQTYVDDHLMCDIDGQGQHLSASAIVGHDGSVWAQS--ANFP--KFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQ 78 (133)
Q Consensus 3 W~~yv~~~L~~~~~~~g~~~~~aaI~g~dG~~wA~s--~~f~--~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r 78 (133)
-+.|++ .|+. .-+.+....|.|+||-+.+.. +.-+ .+.|.-..++.-+. + +.+-+.+++.|+++..
T Consensus 3 l~~~L~-~ll~----~v~Gl~~I~itDrDGvpi~~v~~~~~~~~~~~~~~~~tf~~a~-~----Q~~KL~lG~nk~ii~~ 72 (119)
T PF08923_consen 3 LKRFLQ-KLLS----RVDGLQAIVITDRDGVPIAKVSSDSAPESAMRPSLLSTFAMAI-D----QASKLGLGKNKSIIAY 72 (119)
T ss_dssp HHHHHH-HHGG----GSTTEEEEEEEETTS-EEEEEE-TTS-GGGGSHHHHCCHHHHH-H----HHTTSSS-SEEEEEEE
T ss_pred HHHHHH-HHHh----ccCCeEEEEEECCCCcEEEEecCCCCcchhhhhHHHHHHHHHh-h----cccccCCCCceEEEEE
Confidence 356776 4554 222588888999999766652 2221 22333333333222 2 3456789999999999
Q ss_pred eCCCceEEEecCCCcEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHh
Q 032811 79 GEAGAVIRGKKGSGGVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLID 130 (133)
Q Consensus 79 ~d~~~~i~~kk~~~G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~ 130 (133)
.| +..+.-.. ....+|..+...+.+-|....--++|+++|.+
T Consensus 73 Y~-~~qvv~~~---------~~pl~it~ias~~aN~G~il~l~~~L~~~l~~ 114 (119)
T PF08923_consen 73 YD-SYQVVQFN---------KLPLYITFIASSNANTGLILSLEEELAPILNE 114 (119)
T ss_dssp ES-SEEEEEEE---------ETTEEEEEEEETTS-HHHHHHHHHHHHHHHHH
T ss_pred eC-CEEEEEEe---------CCCeEEEEEecCCCCHHHHHHhHHHHHHHHHH
Confidence 99 54433111 23356666666666777777777777777654
No 10
>PHA02610 uvsY.-2 hypothetical protein; Provisional
Probab=63.70 E-value=9.8 Score=22.37 Aligned_cols=31 Identities=39% Similarity=0.569 Sum_probs=23.5
Q ss_pred EEEEecC--cEEEEEEeCCCCCcchHHHHHHHH
Q 032811 94 VTIKKTG--QALVFGIYEEPVTPGQCNMIVERL 124 (133)
Q Consensus 94 ~~i~kt~--~~iVI~~~~~~~~~~~~~~~v~~l 124 (133)
+++.|++ +++.|-.-.++++||.|..-++.+
T Consensus 4 CvvCK~Pi~~al~v~T~~Gpvh~g~C~~y~~e~ 36 (53)
T PHA02610 4 CVVCKQPIEKALVVETEKGPVHPGPCYNYVEEL 36 (53)
T ss_pred eeeeCCchhhceEEecCCCCCCChhHHHHHHhc
Confidence 4555665 677777778889999999887765
No 11
>TIGR00460 fmt methionyl-tRNA formyltransferase. The top-scoring characterized proteins other than methionyl-tRNA formyltransferase (fmt) itself are formyltetrahydrofolate dehydrogenases. The mitochondrial methionyl-tRNA formyltransferases are so divergent that, in a multiple alignment of bacterial fmt, mitochondrial fmt, and formyltetrahydrofolate dehydrogenases, the mitochondrial fmt appears the most different. However, because both bacterial and mitochondrial fmt are included in the seed alignment, all credible fmt sequences score higher than any non-fmt sequence. This enzyme modifies Met on initiator tRNA to f-Met.
Probab=54.89 E-value=91 Score=24.62 Aligned_cols=37 Identities=14% Similarity=0.352 Sum_probs=27.9
Q ss_pred CCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEeC
Q 032811 40 NFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQGE 80 (133)
Q Consensus 40 ~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~d 80 (133)
+| +-+.+++..++++|. | ....-..++|+++.+.++.
T Consensus 212 dw-~~~a~~I~~~iRA~~-p--~pga~~~~~g~~i~i~~a~ 248 (313)
T TIGR00460 212 DW-NQSAEELLNKIRALN-P--WPTAWLTFEGKNIKIHKAK 248 (313)
T ss_pred Cc-cCCHHHHHHHHhccC-C--CCceEEEECCEEEEEEEEE
Confidence 46 567899999999996 3 2334468899999998754
No 12
>PRK00394 transcription factor; Reviewed
Probab=54.84 E-value=37 Score=24.83 Aligned_cols=39 Identities=15% Similarity=0.167 Sum_probs=29.6
Q ss_pred CCcEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 91 SGGVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 91 ~~G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.-+.|..+.+.++.|-. +..++..+++++++.|++.||
T Consensus 46 k~t~lIf~sGKiv~tGa~----S~~~a~~a~~~~~~~l~~~g~ 84 (179)
T PRK00394 46 KIAALIFRSGKVVCTGAK----SVEDLHEAVKIIIKKLKELGI 84 (179)
T ss_pred ceEEEEEcCCcEEEEccC----CHHHHHHHHHHHHHHHHHcCC
Confidence 445666677776666544 447999999999999999886
No 13
>COG0223 Fmt Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]
Probab=52.60 E-value=83 Score=25.18 Aligned_cols=66 Identities=14% Similarity=0.253 Sum_probs=44.1
Q ss_pred CCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEeCCCceEEEecCCCcEEEEecCcEEEEEEeCCC
Q 032811 40 NFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQGEAGAVIRGKKGSGGVTIKKTGQALVFGIYEEP 111 (133)
Q Consensus 40 ~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~d~~~~i~~kk~~~G~~i~kt~~~iVI~~~~~~ 111 (133)
+| +-+..++-..+++|. | ....-..++|+++.+.+++-.+.-.. ++-|-++...++.++|+..++.
T Consensus 213 dw-~~~a~~i~n~IRa~~-P--~Pga~~~~~~~~iki~~a~~~~~~~~--~~pG~i~~~~~~~l~Va~~~g~ 278 (307)
T COG0223 213 DW-SKPAAQILNKIRAFN-P--WPGAWTELGGKRIKIWEARVLEGASN--GKPGEILAADKKGLLVACGDGA 278 (307)
T ss_pred CC-ccCHHHHHHHHhccC-C--CCceEEEECCeEEEEEEEEEcccccc--CCCcceEEecCCcEEEEeCCce
Confidence 36 556778888888886 3 34566888999999988753211111 5667777777778888874443
No 14
>COG3382 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]
Probab=51.63 E-value=47 Score=25.49 Aligned_cols=35 Identities=17% Similarity=0.087 Sum_probs=31.7
Q ss_pred EecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhC
Q 032811 97 KKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQ 131 (133)
Q Consensus 97 ~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~ 131 (133)
-.|+++++|+..-+++......++.+.++++|.+.
T Consensus 181 ~~Tk~~l~I~e~vp~~~~~~l~~a~~~l~~~l~~~ 215 (229)
T COG3382 181 ESTKNVLLIAEGVPGVEVEDLVEALDSLADLLEKL 215 (229)
T ss_pred hccceEEEEEecCCCccHHHHHHHHHHHHHHHHHh
Confidence 46889999999999999999999999999999863
No 15
>PRK06901 aspartate-semialdehyde dehydrogenase; Provisional
Probab=50.90 E-value=92 Score=25.14 Aligned_cols=89 Identities=13% Similarity=0.065 Sum_probs=53.3
Q ss_pred EEecCCCEEEEcCCCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEE------eCCCc--eEEEecCCCcEEEEe
Q 032811 27 IVGHDGSVWAQSANFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQ------GEAGA--VIRGKKGSGGVTIKK 98 (133)
Q Consensus 27 I~g~dG~~wA~s~~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r------~d~~~--~i~~kk~~~G~~i~k 98 (133)
+.|+.-++|...+. .++.+|++.++.. ..|+.+-..+|-.-- ..+|. ...+|-..
T Consensus 226 ~~GHs~sV~ve~e~--~~~~e~~~~~l~~--------~~gv~l~d~~yPtPi~~~~~~~g~d~vvv~Vgrir~------- 288 (322)
T PRK06901 226 FYGLAQMVTALSEY--ELDIESQLAEWQQ--------NNLLRYHEEKLITPVLNGENENGEESVKLHISQLSA------- 288 (322)
T ss_pred eccEEEEEEEEECC--CCCHHHHHHHHHh--------CCCcEEeCCCCCCCcccccccCCCCCccEEEEcccc-------
Confidence 44445578888655 5799999988883 234555444343221 12233 22223211
Q ss_pred cCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 99 TGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 99 t~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
.+..+-+=...++...|.+.++|. +|++|.++||
T Consensus 289 ~~~~l~lwvvaDNlRkGAA~NAVq-IaE~l~~~~~ 322 (322)
T PRK06901 289 VENGVQFWSVADEQRFNLAFLAVK-LLELIYQQGY 322 (322)
T ss_pred CCCEEEEEEEechHHHHHHHHHHH-HHHHHHHccC
Confidence 234555555566677777777775 8999999998
No 16
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=46.75 E-value=15 Score=18.25 Aligned_cols=10 Identities=40% Similarity=0.946 Sum_probs=8.0
Q ss_pred HHHHHHhCCC
Q 032811 124 LGDYLIDQGL 133 (133)
Q Consensus 124 lA~yL~~~Gy 133 (133)
+.+||.++||
T Consensus 7 I~~YL~~~Gy 16 (27)
T PF08513_consen 7 IYDYLVENGY 16 (27)
T ss_dssp HHHHHHHCT-
T ss_pred HHHHHHHCCc
Confidence 6799999997
No 17
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=46.74 E-value=62 Score=23.59 Aligned_cols=36 Identities=11% Similarity=0.259 Sum_probs=26.7
Q ss_pred EEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 94 VTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 94 ~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.|..+.+.++-|-. +..++..++.++++.|++.||
T Consensus 50 ~lIF~SGKiviTGak----s~e~a~~a~~~i~~~L~~~g~ 85 (174)
T cd04516 50 ALIFSSGKMVCTGAK----SEDDSKLAARKYARIIQKLGF 85 (174)
T ss_pred EEEECCCeEEEEecC----CHHHHHHHHHHHHHHHHHcCC
Confidence 455566665555433 447899999999999999886
No 18
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=45.18 E-value=62 Score=23.59 Aligned_cols=39 Identities=18% Similarity=0.206 Sum_probs=28.3
Q ss_pred CCcEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 91 SGGVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 91 ~~G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.-+.|..+.+.++.|. .+..++..+++++++.|++.||
T Consensus 47 k~t~lIF~SGKiv~tGa----ks~~~a~~a~~~~~~~L~~~g~ 85 (174)
T cd04518 47 KIAALIFRSGKMVCTGA----KSVEDLHRAVKEIIKKLKDYGI 85 (174)
T ss_pred cEEEEEECCCeEEEEcc----CCHHHHHHHHHHHHHHHHhcCC
Confidence 33455566666665543 3558899999999999999886
No 19
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=44.87 E-value=32 Score=20.36 Aligned_cols=31 Identities=35% Similarity=0.546 Sum_probs=22.7
Q ss_pred EEEEecC--cEEEEEEeCCCCCcchHHHHHHHH
Q 032811 94 VTIKKTG--QALVFGIYEEPVTPGQCNMIVERL 124 (133)
Q Consensus 94 ~~i~kt~--~~iVI~~~~~~~~~~~~~~~v~~l 124 (133)
+++.|++ .+.+|-.-.+.++||.|..-++.+
T Consensus 4 CvVCKqpi~~a~~v~T~~G~VH~g~C~~y~~e~ 36 (54)
T PF10886_consen 4 CVVCKQPIDDALVVETESGPVHPGVCAQYLEEL 36 (54)
T ss_pred eeeeCCccCcceEEEcCCCccCcHHHHHHHHhc
Confidence 3455654 567777777778999999888765
No 20
>PLN00062 TATA-box-binding protein; Provisional
Probab=44.62 E-value=74 Score=23.33 Aligned_cols=37 Identities=11% Similarity=0.224 Sum_probs=27.2
Q ss_pred cEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 93 GVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 93 G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
-+.|..+.+.++-|.- +..++..++.++++.|.+.||
T Consensus 49 t~lIF~SGKiviTGak----s~e~a~~a~~~~~~~L~~lg~ 85 (179)
T PLN00062 49 TALIFASGKMVCTGAK----SEHDSKLAARKYARIIQKLGF 85 (179)
T ss_pred EEEEECCCeEEEEecC----CHHHHHHHHHHHHHHHHHcCC
Confidence 3555666666655433 447899999999999999886
No 21
>PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences [].
Probab=43.85 E-value=57 Score=22.54 Aligned_cols=35 Identities=17% Similarity=0.343 Sum_probs=26.9
Q ss_pred cCcEEEEEEeCCCCC--cchHHHHHHHHHHHHHhCCC
Q 032811 99 TGQALVFGIYEEPVT--PGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 99 t~~~iVI~~~~~~~~--~~~~~~~v~~lA~yL~~~Gy 133 (133)
..+-|+|++-.+... -.+.+.++.++++.|.+.|+
T Consensus 67 ~gr~v~iaFD~D~~~~Tn~~V~~a~~~l~~~L~~~G~ 103 (130)
T PF12965_consen 67 PGREVYIAFDADTKPKTNKNVRRAIKRLGKLLKEAGC 103 (130)
T ss_pred CCceEEEEecCCCccchhHHHHHHHHHHHHHHHHCCC
Confidence 346677777776433 37799999999999999884
No 22
>PF05176 ATP-synt_10: ATP10 protein; InterPro: IPR007849 This entry represents the ATPase assembly factor ATP10 found in mitochondria, which is essential for the assembly of the mitochondrial F1-F0 complex. A yeast nuclear gene (ATP10) encodes a product that is essential for the assembly of a functional mitochondrial ATPase complex. Mutations in ATP10 induce a loss of rutamycin sensitivity in the mitochondrial ATPase, but do not affect the respiratory enzymes. ATP10 has an Mr of 30,293 and its primary structure is not related to any known subunit of the yeast or mammalian mitochondrial ATPase complexes. ATP10 is associated with the mitochondrial membrane. It is suggested that the ATP10 product is not a subunit of the ATPase complex but rather a protein required for the assembly of the F0 sector of the complex [].; GO: 0033615 mitochondrial proton-transporting ATP synthase complex assembly, 0005743 mitochondrial inner membrane
Probab=42.64 E-value=27 Score=27.05 Aligned_cols=34 Identities=26% Similarity=0.413 Sum_probs=25.2
Q ss_pred ccceEEEEecCCC-EEEEcCCCCCCCHHHHHHHHHhcC
Q 032811 21 HLSASAIVGHDGS-VWAQSANFPKFKPEEIAGIMKDFD 57 (133)
Q Consensus 21 ~~~~aaI~g~dG~-~wA~s~~f~~~~~~E~~~l~~~f~ 57 (133)
.+--.-++|.+|. -||.+.. -+++|+..|.++.+
T Consensus 216 ~~GYvyLVD~~grIRWagsG~---At~~E~~~L~k~~~ 250 (252)
T PF05176_consen 216 YVGYVYLVDPNGRIRWAGSGP---ATPEELESLWKCVK 250 (252)
T ss_pred CcCeEEEECCCCeEEeCccCC---CCHHHHHHHHHHHh
Confidence 4444668888996 5997643 48999999998753
No 23
>PRK06988 putative formyltransferase; Provisional
Probab=42.58 E-value=1.5e+02 Score=23.46 Aligned_cols=38 Identities=16% Similarity=0.418 Sum_probs=28.5
Q ss_pred CCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEeC
Q 032811 40 NFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQGE 80 (133)
Q Consensus 40 ~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~d 80 (133)
+| +-+.+|+..++++|.+| ....=.+++|+|+.+.+++
T Consensus 211 dw-~~~a~~I~~~iRA~~~p--~pga~~~~~g~~v~i~~a~ 248 (312)
T PRK06988 211 DW-SKPAAQVYNLIRAVAPP--YPGAFTDLGGTRFVVARAR 248 (312)
T ss_pred CC-CCCHHHHHHHhccCCCC--CCeeEEEECCEEEEEEEEE
Confidence 46 55788999999999644 2233457899999999865
No 24
>PF10144 SMP_2: Bacterial virulence factor haemolysin; InterPro: IPR019305 This entry represents a group of bacterial proteins that are membrane proteins that effect the expression of haemolysin under anaerobic conditions [].
Probab=41.19 E-value=39 Score=25.50 Aligned_cols=26 Identities=27% Similarity=0.337 Sum_probs=21.8
Q ss_pred hhcccccCCccccceEEEEecCCCEEEEcCC
Q 032811 10 HLMCDIDGQGQHLSASAIVGHDGSVWAQSAN 40 (133)
Q Consensus 10 ~L~~~~~~~g~~~~~aaI~g~dG~~wA~s~~ 40 (133)
+|.. + +.|-+|+|++.+|...|+|.+
T Consensus 80 ~L~~----d-~~VldAsIYd~~G~lLA~S~~ 105 (210)
T PF10144_consen 80 QLAK----D-PFVLDASIYDADGVLLAQSGE 105 (210)
T ss_pred HHhc----C-CeEeEEEEECCCCCEEEEcCC
Confidence 5655 4 499999999999999999865
No 25
>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=40.52 E-value=30 Score=29.01 Aligned_cols=34 Identities=18% Similarity=0.308 Sum_probs=23.6
Q ss_pred CcEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 100 GQALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 100 ~~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
++.+|++.-|++. ..-++......+|+|.+++|.
T Consensus 219 rsViVvATSD~s~l~R~~aa~~At~IAEyFRDqG~ 253 (441)
T COG1157 219 RSVVVVATSDESALMRLKAAFTATTIAEYFRDQGK 253 (441)
T ss_pred ceEEEEECCCCCHHHHHHHHHHHHHHHHHHHhCCC
Confidence 3455555555543 445677788889999999983
No 26
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=40.38 E-value=84 Score=22.78 Aligned_cols=39 Identities=13% Similarity=0.254 Sum_probs=28.6
Q ss_pred CCcEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 91 SGGVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 91 ~~G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.-+.|..+.+.++.|-. +..++..+++++++.|++.||
T Consensus 47 ~~t~lIf~sGKivitGak----s~~~~~~a~~~~~~~L~~~g~ 85 (174)
T cd00652 47 KTTALIFSSGKMVITGAK----SEEDAKLAARKYARILQKLGF 85 (174)
T ss_pred cEEEEEECCCEEEEEecC----CHHHHHHHHHHHHHHHHHcCC
Confidence 344556666666655543 447899999999999999886
No 27
>PF01509 TruB_N: TruB family pseudouridylate synthase (N terminal domain); InterPro: IPR002501 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. TruB is responsible for the pseudouridine residue present in the T loops of virtually all tRNAs. TruB recognises the preformed 3-D structure of the T loop primarily through shape complementarity. It accesses its substrate uridyl residue by flipping out the nucleotide and disrupts the tertiary structure of tRNA []. This entry represents pseudouridine synthase TruB, as well as Cbf5p that modifies rRNA [].; GO: 0006396 RNA processing; PDB: 1SGV_B 2AUS_C 3UAI_A 3U28_A 2RFK_A 3LWV_A 3HJY_A 3HAX_A 3LWO_A 3HAY_A ....
Probab=39.69 E-value=45 Score=23.63 Aligned_cols=44 Identities=11% Similarity=0.228 Sum_probs=28.3
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHHHhcCC---CCCCCccceEEcCeEEE
Q 032811 31 DGSVWAQSANFPKFKPEEIAGIMKDFDQ---PGHLAPTGLHLGGTKYM 75 (133)
Q Consensus 31 dG~~wA~s~~f~~~~~~E~~~l~~~f~~---~~~~~~~Gi~i~g~KY~ 75 (133)
+|.+..+.+-. .++.+++..++..|.. ...-.-+.+.++|++-.
T Consensus 60 ~G~v~~~~~~~-~it~e~l~~~l~~f~G~~~Q~pP~ySAvki~G~raY 106 (149)
T PF01509_consen 60 EGEVTETKPYD-HITEEDLEKVLAKFQGEIEQVPPMYSAVKINGKRAY 106 (149)
T ss_dssp TSSEEEE---T-T--HHHHHHHHHHTSEEEEES-SSSSSSECTTCEHH
T ss_pred eeeEEEeeccc-cCCHHHHHHHHHhCcCCEeeeCchheeEcCCCccHH
Confidence 57788875444 8999999999999862 11124688999888744
No 28
>COG3377 Uncharacterized conserved protein [Function unknown]
Probab=39.49 E-value=1e+02 Score=20.33 Aligned_cols=32 Identities=16% Similarity=0.315 Sum_probs=21.3
Q ss_pred ccceEEcCeEEEEEEeCCCce-EEEecCCCcEE
Q 032811 64 PTGLHLGGTKYMVIQGEAGAV-IRGKKGSGGVT 95 (133)
Q Consensus 64 ~~Gi~i~g~KY~~~r~d~~~~-i~~kk~~~G~~ 95 (133)
-+-|.++|.+|..++.+=.+. +..-++..|.+
T Consensus 4 i~~i~i~gk~~l~~~~~L~napll~~~~ekgy~ 36 (95)
T COG3377 4 IEPIDIEGKKFLGLKVDLPNAPLLALKGEKGYA 36 (95)
T ss_pred eeeEeeCCeEEEEEEecCCCCcEEEEEccccEE
Confidence 356889999999999875443 44444444443
No 29
>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.
Probab=39.34 E-value=42 Score=26.35 Aligned_cols=33 Identities=18% Similarity=0.299 Sum_probs=23.2
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++..+++. ..-.+..+.-.+|||++++|+
T Consensus 128 tvvv~~t~d~~~~~r~~a~~~a~aiAE~fr~~G~ 161 (274)
T cd01132 128 TIVVAATASDPAPLQYLAPYTGCAMGEYFMDNGK 161 (274)
T ss_pred eEEEEeCCCCchhHHHHHHHHHHHHHHHHHHCCC
Confidence 466677766643 333466677889999999885
No 30
>TIGR02764 spore_ybaN_pdaB polysaccharide deacetylase family sporulation protein PdaB. This model describes the YbaN protein family, also called PdaB and SpoVIE, of Gram-positive bacteria. Although ybaN null mutants have only a mild sporulation defect, ybaN/ytrI double mutants show drastically reducted sporulation efficiencies. This synthetic defect suggests the role of this sigmaE-controlled gene in sporulation had been masked by functional redundancy. Members of this family are homologous to a characterized polysaccharide deacetylase; the exact function this protein family is unknown.
Probab=38.99 E-value=64 Score=23.09 Aligned_cols=29 Identities=10% Similarity=0.103 Sum_probs=20.5
Q ss_pred EEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 104 VFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 104 VI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
||-+++.. ......+++..+.++|++.||
T Consensus 154 Iil~Hd~~-~~~~t~~~l~~~i~~l~~~Gy 182 (191)
T TIGR02764 154 IILLHASD-SAKQTVKALPTIIKKLKEKGY 182 (191)
T ss_pred EEEEeCCC-CcHhHHHHHHHHHHHHHHCCC
Confidence 33344422 344567889999999999998
No 31
>COG2139 RPL21A Ribosomal protein L21E [Translation, ribosomal structure and biogenesis]
Probab=38.88 E-value=48 Score=22.03 Aligned_cols=24 Identities=21% Similarity=0.447 Sum_probs=21.6
Q ss_pred cCCCcEEEEecCcEEEEEEeCCCC
Q 032811 89 KGSGGVTIKKTGQALVFGIYEEPV 112 (133)
Q Consensus 89 k~~~G~~i~kt~~~iVI~~~~~~~ 112 (133)
.|..|.++-++..+++|.+++++.
T Consensus 57 ~G~TG~Vvg~~g~ay~V~v~~G~k 80 (98)
T COG2139 57 QGKTGTVVGVRGRAYKVEVYDGNK 80 (98)
T ss_pred cCcceEEEeccCCEEEEEEecCCc
Confidence 578899999999999999998764
No 32
>smart00667 LisH Lissencephaly type-1-like homology motif. Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.
Probab=38.26 E-value=20 Score=17.65 Aligned_cols=12 Identities=25% Similarity=0.581 Sum_probs=10.0
Q ss_pred HHHHHHHHhCCC
Q 032811 122 ERLGDYLIDQGL 133 (133)
Q Consensus 122 ~~lA~yL~~~Gy 133 (133)
.-+.+||...||
T Consensus 8 ~lI~~yL~~~g~ 19 (34)
T smart00667 8 RLILEYLLRNGY 19 (34)
T ss_pred HHHHHHHHHcCH
Confidence 358999999987
No 33
>PRK13604 luxD acyl transferase; Provisional
Probab=37.66 E-value=84 Score=25.10 Aligned_cols=28 Identities=14% Similarity=0.182 Sum_probs=19.8
Q ss_pred cEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
..+||+++-.... .-..++|+||.++||
T Consensus 38 ~~vIi~HGf~~~~-----~~~~~~A~~La~~G~ 65 (307)
T PRK13604 38 NTILIASGFARRM-----DHFAGLAEYLSSNGF 65 (307)
T ss_pred CEEEEeCCCCCCh-----HHHHHHHHHHHHCCC
Confidence 5666766555421 238899999999997
No 34
>PF02911 Formyl_trans_C: Formyl transferase, C-terminal domain; InterPro: IPR005793 Methionyl-tRNA formyltransferase (2.1.2.9 from EC) transfers a formyl group onto the amino terminus of the acyl moiety of the methionyl aminoacyl-tRNA. The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and by impairing its binding to EFTU-GTP. This family also includes formyltetrahydrofolate dehydrogenases, which produce formate from formyl-tetrahydrofolate. These enzymes contain an N-terminal domain in common with other formyl transferase enzymes (IPR002376 from INTERPRO). The C-terminal domain has an open beta-barrel fold [].; GO: 0016742 hydroxymethyl-, formyl- and related transferase activity, 0009058 biosynthetic process; PDB: 3RFO_D 1Z7E_C 2BLN_A 1YRW_A 1FMT_A 2FMT_B 3Q0I_A 3R8X_A 3TQQ_A 2BW0_A ....
Probab=37.31 E-value=1.1e+02 Score=19.29 Aligned_cols=37 Identities=16% Similarity=0.380 Sum_probs=28.1
Q ss_pred CCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEeC
Q 032811 40 NFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQGE 80 (133)
Q Consensus 40 ~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~d 80 (133)
+| +-+.+|+..++++|. |- ...-.+++|++..+.+++
T Consensus 10 dw-~~~A~~I~~~vRal~-p~--pga~~~~~~~~i~i~~~~ 46 (100)
T PF02911_consen 10 DW-NQSAEEIYNLVRALN-PY--PGAFTTFNGKRIKILKAE 46 (100)
T ss_dssp -T-TSBHHHHHHHHHHTT-TT--T-EEEEETTEEEEEEEEE
T ss_pred CC-CCCHHHHHHHHhCCC-CC--CCEEEeeCCeEEEEEeee
Confidence 47 778999999999997 42 234457899999999874
No 35
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=36.84 E-value=94 Score=22.58 Aligned_cols=37 Identities=14% Similarity=0.268 Sum_probs=26.6
Q ss_pred cEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 93 GVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 93 G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
-+.|..+.+.++.|. .+..++.++++++++.|++.||
T Consensus 49 t~lIF~sGKiviTGa----ks~~~~~~a~~~~~~~l~~~g~ 85 (174)
T cd04517 49 TASVWSSGKITITGA----TSEEEAKQAARRAARLLQKLGF 85 (174)
T ss_pred EEEEECCCeEEEEcc----CCHHHHHHHHHHHHHHHHHcCC
Confidence 345555665555443 3558899999999999999885
No 36
>PF09176 Mpt_N: Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; InterPro: IPR015259 Prokaryotic methylene-tetrahydromethanopterin dehydrogenase catalyses the dehydrogenation of methylene-tetrahydromethanopterin during growth on one-carbon compounds such as methanol. It can also catalyse the reversible dehydrogenation of methylene-tetrahydrofolate, though at much lower efficiency []. The pterin domain of this protein is composed of two alpha-beta segments found at the N- and C-terminal ends of the polypeptide respectivly. This entry represents the N-terminal segment of the pterin domain, with a core comprising three alpha/beta/alpha layers in which each sheet contains four strands. ; PDB: 1LUA_A 1LU9_C.
Probab=36.71 E-value=12 Score=24.00 Aligned_cols=31 Identities=32% Similarity=0.753 Sum_probs=21.5
Q ss_pred CCCHHHHHHHHHh--c-CCCCCCCccceEEcCeE
Q 032811 43 KFKPEEIAGIMKD--F-DQPGHLAPTGLHLGGTK 73 (133)
Q Consensus 43 ~~~~~E~~~l~~~--f-~~~~~~~~~Gi~i~g~K 73 (133)
+++++|+..|+.- | +.|+.+..+||.|+|..
T Consensus 20 ~V~~~~V~~LvqdaIFsR~P~~~~~TaiFIGG~d 53 (81)
T PF09176_consen 20 GVTPDEVRGLVQDAIFSRGPKDLKRTAIFIGGRD 53 (81)
T ss_dssp S--TTTHHHHHHHHHSSS-GGGGGGEEEEEE-S-
T ss_pred CcCHHHhhhhhcceeEccCCcCCceeEEEECCcc
Confidence 6799999999963 5 46677888999999863
No 37
>PF02789 Peptidase_M17_N: Cytosol aminopeptidase family, N-terminal domain; InterPro: IPR008283 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 M17 (leucyl aminopeptidase family, clan MF), the type example being leucyl aminopeptidase from Bos taurus (Bovine). Aminopeptidases are exopeptidases involved in the processing and regular turnover of intracellular proteins, although their precise role in cellular metabolism is unclear [, ]. Leucine aminopeptidases cleave leucine residues from the N-terminal of polypeptide chains, but substantial rates are evident for all amino acids []. The enzymes exist as homo-hexamers, comprising 2 trimers stacked on top of one another []. Each monomer binds 2 zinc ions and folds into 2 alpha/beta-type quasi-spherical globular domains, producing a comma-like shape []. The N-terminal 150 residues form a 5-stranded beta-sheet with 4 parallel and 1 anti-parallel strand sandwiched between 4 alpha-helices []. An alpha-helix extends into the C-terminal domain, which comprises a central 8-stranded saddle-shaped beta-sheet sandwiched between groups of helices, forming the monomer hydrophobic core []. A 3-stranded beta-sheet resides on the surface of the monomer, where it interacts with other members of the hexamer []. The two zinc ions and the active site are entirely located in the C-terminal catalytic domain [].; GO: 0004177 aminopeptidase activity, 0006508 proteolysis, 0005622 intracellular; PDB: 3PEI_A 1GYT_C 3JRU_A 3H8F_D 3H8G_F 3H8E_A 3KZW_L 1LAP_A 1LAN_A 1LCP_B ....
Probab=36.34 E-value=89 Score=20.44 Aligned_cols=34 Identities=12% Similarity=0.076 Sum_probs=28.8
Q ss_pred cCcEEEEEEeCCC-CCcchHHHHHHHHHHHHHhCC
Q 032811 99 TGQALVFGIYEEP-VTPGQCNMIVERLGDYLIDQG 132 (133)
Q Consensus 99 t~~~iVI~~~~~~-~~~~~~~~~v~~lA~yL~~~G 132 (133)
.++.++||..... .++...+++...+++.|.+.+
T Consensus 52 ~~~v~lvGlG~~~~~~~~~~r~a~~~~~~~l~~~~ 86 (126)
T PF02789_consen 52 AKRVLLVGLGKKEKLTAESLRKAGAAAARALKKLK 86 (126)
T ss_dssp CSEEEEEEEESCTGBCHHHHHHHHHHHHHHHHHTT
T ss_pred ccEEEEEECCCcCcCCHHHHHHHHHHHHHHHhhCC
Confidence 4678999999986 588999999999999998754
No 38
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=36.31 E-value=75 Score=19.60 Aligned_cols=29 Identities=14% Similarity=0.173 Sum_probs=20.0
Q ss_pred EEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 102 ALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 102 ~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
.+|+-+.+. + ......+.++|+.|+++||
T Consensus 4 v~i~p~~~~--~-~~~~~~a~~la~~Lr~~g~ 32 (94)
T cd00861 4 VVIIPMNMK--D-EVQQELAEKLYAELQAAGV 32 (94)
T ss_pred EEEEEcCCC--c-HHHHHHHHHHHHHHHHCCC
Confidence 444444433 2 4577788999999999886
No 39
>PF08479 POTRA_2: POTRA domain, ShlB-type; InterPro: IPR013686 The POTRA domain (for polypeptide-transport-associated domain) is found towards the N terminus of ShlB family proteins (IPR005565 from INTERPRO). ShlB is important in the secretion and activation of the haemolysin ShlA. It has been postulated that the POTRA domain has a chaperone-like function over ShlA; it may fold back into the C-terminal beta-barrel channel []. ; PDB: 2X8X_X 2QDZ_A 3NJT_A 3MC8_A 3MC9_B.
Probab=35.61 E-value=42 Score=20.46 Aligned_cols=21 Identities=19% Similarity=0.415 Sum_probs=17.4
Q ss_pred CcchHHHHHHHHHHHHHhCCC
Q 032811 113 TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 113 ~~~~~~~~v~~lA~yL~~~Gy 133 (133)
.....+..+..+.+++++.||
T Consensus 32 ~~~~l~~~~~~l~~~y~~~GY 52 (76)
T PF08479_consen 32 TLADLQQLADALTNYYREKGY 52 (76)
T ss_dssp -HHHHHHHHHHHHHHHHHTT-
T ss_pred CHHHHHHHHHHHHHHHHHcCc
Confidence 567789999999999999998
No 40
>PRK11246 hypothetical protein; Provisional
Probab=35.09 E-value=82 Score=24.02 Aligned_cols=27 Identities=15% Similarity=0.272 Sum_probs=22.6
Q ss_pred hhcccccCCccccceEEEEecCCCEEEEcCCC
Q 032811 10 HLMCDIDGQGQHLSASAIVGHDGSVWAQSANF 41 (133)
Q Consensus 10 ~L~~~~~~~g~~~~~aaI~g~dG~~wA~s~~f 41 (133)
+|.. +. .|-+|.|++.||...|++.+.
T Consensus 80 ~La~----d~-~VlDAsIY~~~G~llA~S~~~ 106 (218)
T PRK11246 80 QLTD----ES-RILDASVYDEQGDLIARSGES 106 (218)
T ss_pred HHhc----CC-ceeeEEEECCCCCEEEecCCC
Confidence 5655 44 899999999999999998765
No 41
>PF02770 Acyl-CoA_dh_M: Acyl-CoA dehydrogenase, middle domain; InterPro: IPR006091 Acyl-CoA dehydrogenases (1.3.99.3 from EC) are a family of flavoproteins that catalyse the alpha,beta-dehydrogenation of acyl-CoA thioesters to the corresponding trans 2,3-enoyl CoA-products with the concomitant reduction of enzyme-bound FAD. Different family members share a high sequence identity, catalytic mechanisms, and structural properties, but differ in the position of their catalytic bases and in their substrate binding specificity. Butyryl-CoA dehydrogenase [] prefers short chain substrates, medium chain- and long-chain acyl-CoA dehydrogenases prefer medium and long chain substrates, respectively, and Isovaleryl-CoA dehydrogenase [] prefers branched-chain substrates. The monomeric enzyme is folded into three domains of approximately equal size, where the N-terminal domain is all-alpha, the middle domain is an open (5,8) barrel, and the C-terminal domain is a four-helical bundle. The constituent families differ in the numbers of C-terminal domains. This entry represents the middle beta-barrel domain found in medium chain acyl-CoA dehydrogenases, as well as in the related peroxisomal acyl-CoA oxidase-II enzymes. Acyl-CoA oxidase (ACO; 1.3.3.6 from EC) catalyzes the first and rate-determining step of the peroxisomal beta-oxidation of fatty acids [].; GO: 0003995 acyl-CoA dehydrogenase activity, 0055114 oxidation-reduction process; PDB: 3MDD_B 1UDY_C 3MDE_B 2UXW_A 3B96_A 1SIQ_A 1SIR_A 2R0N_A 2R0M_A 2D29_B ....
Probab=33.55 E-value=34 Score=19.38 Aligned_cols=18 Identities=28% Similarity=0.351 Sum_probs=15.2
Q ss_pred CccceEEcCeEEEEEEeC
Q 032811 63 APTGLHLGGTKYMVIQGE 80 (133)
Q Consensus 63 ~~~Gi~i~g~KY~~~r~d 80 (133)
...|+.|+|+|+++....
T Consensus 23 ~~~~~~L~G~K~~v~~~~ 40 (52)
T PF02770_consen 23 DGDGYVLNGEKRFVSNAP 40 (52)
T ss_dssp ETTEEEEEEEEEEEETTT
T ss_pred ccceEEEeeEEEEECCcC
Confidence 357899999999999865
No 42
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=33.36 E-value=61 Score=15.35 Aligned_cols=16 Identities=31% Similarity=0.588 Sum_probs=11.0
Q ss_pred EEEEecCCCEEEEcCC
Q 032811 25 SAIVGHDGSVWAQSAN 40 (133)
Q Consensus 25 aaI~g~dG~~wA~s~~ 40 (133)
+...+.+|.+|..+.+
T Consensus 9 ~i~~D~~G~lWigT~~ 24 (24)
T PF07494_consen 9 SIYEDSDGNLWIGTYN 24 (24)
T ss_dssp EEEE-TTSCEEEEETS
T ss_pred EEEEcCCcCEEEEeCC
Confidence 5556679999987643
No 43
>PRK00005 fmt methionyl-tRNA formyltransferase; Reviewed
Probab=32.84 E-value=2.4e+02 Score=22.10 Aligned_cols=37 Identities=16% Similarity=0.419 Sum_probs=26.9
Q ss_pred CCCCCCHHHHHHHHHhcCCCCCCCccceEEcCeEEEEEEeC
Q 032811 40 NFPKFKPEEIAGIMKDFDQPGHLAPTGLHLGGTKYMVIQGE 80 (133)
Q Consensus 40 ~f~~~~~~E~~~l~~~f~~~~~~~~~Gi~i~g~KY~~~r~d 80 (133)
+| +-+.+|+..++++|. | ....=.+++|+++.+.+++
T Consensus 212 dw-~~~a~~I~~~iRA~~-p--~pga~~~~~g~~v~i~~a~ 248 (309)
T PRK00005 212 DW-SKPAAELENHIRGFN-P--WPGAWTELDGQRLKILEAE 248 (309)
T ss_pred cC-CCCHHHHHHHHhcCC-C--CCceEEEECCEEEEEEEEE
Confidence 36 447889999999994 3 2233456899999998864
No 44
>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.
Probab=31.96 E-value=51 Score=27.12 Aligned_cols=33 Identities=18% Similarity=0.258 Sum_probs=21.3
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++..+++. ....+..+.-.+|||++++||
T Consensus 221 tvlV~nts~~p~~~R~~s~yta~tiAEYfrd~G~ 254 (369)
T cd01134 221 TVLIANTSNMPVAAREASIYTGITIAEYFRDMGY 254 (369)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 445555555553 233455556669999999996
No 45
>COG4725 IME4 Transcriptional activator, adenine-specific DNA methyltransferase [Signal transduction mechanisms / Transcription]
Probab=31.49 E-value=73 Score=23.48 Aligned_cols=58 Identities=21% Similarity=0.284 Sum_probs=41.5
Q ss_pred eEEcCeEEEEEEeCCCceEEEecCCCcEEEEecCcEEEEEEeCCCC-CcchHHHHHHHHHH
Q 032811 67 LHLGGTKYMVIQGEAGAVIRGKKGSGGVTIKKTGQALVFGIYEEPV-TPGQCNMIVERLGD 126 (133)
Q Consensus 67 i~i~g~KY~~~r~d~~~~i~~kk~~~G~~i~kt~~~iVI~~~~~~~-~~~~~~~~v~~lA~ 126 (133)
++.+ +-|- +|..+++++.|.+|+-=-+-+.+...+|+.+..+.. .|.+....+|+||-
T Consensus 98 v~~G-tGhw-lr~S~Eh~~vg~~GNpK~~~~~~~i~li~S~~RE~SRKP~E~y~i~ErL~~ 156 (198)
T COG4725 98 VRMG-TGHW-LRTSGEHVFVGTLGNPKQSHVPPTISLIVSMTRETSRKPDELYGIAERLAG 156 (198)
T ss_pred EEee-ccee-ecCCCcEEEEEecCCchhhcCCCceEEEEccchhhccCCHHHHHHHHHhCC
Confidence 4444 4443 444546788888887666666677779999888865 78899999999874
No 46
>PF07244 Surf_Ag_VNR: Surface antigen variable number repeat; InterPro: IPR010827 This motif is found primarily in bacterial surface antigens, normally as variable number repeats at the N terminus. The C terminus of these proteins is normally represented by IPR000184 from INTERPRO. There may also be a relationship to haemolysin activator HlyB (IPR005565 from INTERPRO). The alignment centres on a -GY- or -GF- motif. Some members of this family are found in the mitochondria. It is predicted to have a mixed alpha/beta secondary structure.; GO: 0019867 outer membrane; PDB: 2X8X_X 3MC8_A 3OG5_A 3MC9_B 2QCZ_B 3EFC_A 3Q6B_A 2QDF_A 2V9H_A.
Probab=31.21 E-value=59 Score=19.28 Aligned_cols=21 Identities=38% Similarity=0.642 Sum_probs=19.1
Q ss_pred CcchHHHHHHHHHHHHHhCCC
Q 032811 113 TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 113 ~~~~~~~~v~~lA~yL~~~Gy 133 (133)
++....+...+|.+++.+.||
T Consensus 33 ~~~~i~~~~~~l~~~y~~~Gy 53 (78)
T PF07244_consen 33 NPEKIEEDIERLQDYYKDKGY 53 (78)
T ss_dssp CHHHHHHHHHHHHHHHHTTSC
T ss_pred CHHHHHHHHHHHHHHHHHcCC
Confidence 678899999999999999997
No 47
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=31.07 E-value=1.4e+02 Score=18.74 Aligned_cols=36 Identities=19% Similarity=0.298 Sum_probs=27.5
Q ss_pred cEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCC
Q 032811 93 GVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQG 132 (133)
Q Consensus 93 G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~G 132 (133)
-+.+..|.+.+|.|.- +..++..++.++.+.|.+.|
T Consensus 51 t~~IF~sGki~itGak----s~~~~~~a~~~i~~~L~~~~ 86 (86)
T PF00352_consen 51 TVLIFSSGKIVITGAK----SEEEAKKAIEKILPILQKLG 86 (86)
T ss_dssp EEEEETTSEEEEEEES----SHHHHHHHHHHHHHHHHHTT
T ss_pred EEEEEcCCEEEEEecC----CHHHHHHHHHHHHHHHHHcC
Confidence 3566667777766653 55899999999999999875
No 48
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=29.81 E-value=88 Score=22.31 Aligned_cols=29 Identities=21% Similarity=0.392 Sum_probs=19.4
Q ss_pred EEEecCCC-EEEEc-----CCCCCCCHHHHHHHHHh
Q 032811 26 AIVGHDGS-VWAQS-----ANFPKFKPEEIAGIMKD 55 (133)
Q Consensus 26 aI~g~dG~-~wA~s-----~~f~~~~~~E~~~l~~~ 55 (133)
.|.|.|++ +||.. +.. .++|||...|-.+
T Consensus 116 sI~~Re~s~~YaK~I~~G~S~~-~LS~EE~eal~~A 150 (151)
T PF14584_consen 116 SIHSREESRTYAKPIVNGQSSY-PLSEEEKEALEKA 150 (151)
T ss_pred eeecCCCcEEEEEEecCCcccc-cCCHHHHHHHHHh
Confidence 35555663 67753 124 7899999988765
No 49
>PF11513 TA0956: Thermoplasma acidophilum protein TA0956; InterPro: IPR021595 TA0956 is a protein from Thermoplasma acidophilum which currently has no known function however the structure has been determined. The protein has a two-layered alpha/beta-sandwich topology and is a putative Elongation factor 1-alpha binding motif. ; PDB: 2K24_A 2JMK_A.
Probab=29.71 E-value=1.7e+02 Score=19.40 Aligned_cols=38 Identities=11% Similarity=0.170 Sum_probs=22.8
Q ss_pred cEEEEec-CcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 93 GVTIKKT-GQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 93 G~~i~kt-~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
|++++.. |+.+-|.+.+-. .+..+.++..++-.++.||
T Consensus 66 GFvviN~dKK~mSvsFsdid---eNmK~~i~ei~kkykd~Gy 104 (110)
T PF11513_consen 66 GFVVINKDKKMMSVSFSDID---ENMKNSIEEIVKKYKDSGY 104 (110)
T ss_dssp EEEEEETTTTEEEEEE-S-----CCHHHHHHHHHHHHHCCS-
T ss_pred EEEEEecCCeEEEEEecchh---HHHHHHHHHHHHHhhcCCc
Confidence 4444443 445555544322 3458889999999999997
No 50
>PRK05922 type III secretion system ATPase; Validated
Probab=29.53 E-value=65 Score=27.02 Aligned_cols=34 Identities=18% Similarity=0.199 Sum_probs=24.5
Q ss_pred CcEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 100 GQALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 100 ~~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
++.+|++.-+++. ..-.+..+.-.+|||++++|+
T Consensus 213 rTVlv~atsd~~~~~r~~a~~~a~tiAEyfrd~G~ 247 (434)
T PRK05922 213 RTIIIASPAHETAPTKVIAGRAAMTIAEYFRDQGH 247 (434)
T ss_pred ceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 4456666666643 445677778889999999985
No 51
>PF07799 DUF1643: Protein of unknown function (DUF1643); InterPro: IPR012441 This entry is represented by Bacteriophage D3, Orf41.6. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The members of this family are all sequences found within hypothetical proteins expressed by various bacteria, archaea and phage. The region concerned is approximately 150 residues long.
Probab=28.94 E-value=86 Score=21.33 Aligned_cols=34 Identities=12% Similarity=0.164 Sum_probs=22.7
Q ss_pred CcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 100 GQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 100 ~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+++|++.+...++...=..+.++-.+.+..||
T Consensus 13 ~~~~~I~lNPS~A~~~~~D~T~~~~~~~a~~~gy 46 (136)
T PF07799_consen 13 PPLLFIGLNPSTADAEKDDPTIRRCINFARRWGY 46 (136)
T ss_pred CEEEEEEeCCCCCCCcCCCHHHHHHHHHHhhcCC
Confidence 4678889988876665555555555555566666
No 52
>PTZ00414 10 kDa heat shock protein; Provisional
Probab=28.06 E-value=66 Score=21.42 Aligned_cols=19 Identities=5% Similarity=0.427 Sum_probs=16.1
Q ss_pred CCccceEEcCeEEEEEEeC
Q 032811 62 LAPTGLHLGGTKYMVIQGE 80 (133)
Q Consensus 62 ~~~~Gi~i~g~KY~~~r~d 80 (133)
...+-+.++|++|+++|.+
T Consensus 74 y~Gtevk~dg~ey~i~~e~ 92 (100)
T PTZ00414 74 FGGSSVKVEGEEFFLYNED 92 (100)
T ss_pred CCCcEEEECCEEEEEEEhH
Confidence 3456799999999999987
No 53
>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.
Probab=27.28 E-value=67 Score=25.21 Aligned_cols=34 Identities=26% Similarity=0.498 Sum_probs=21.7
Q ss_pred CcEEEEEEeCCCC-CcchHHHHHHHHHHHHHhC-CC
Q 032811 100 GQALVFGIYEEPV-TPGQCNMIVERLGDYLIDQ-GL 133 (133)
Q Consensus 100 ~~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~-Gy 133 (133)
++.+|++..+++. ..-.+..+.-.+|||++++ |+
T Consensus 128 ~tvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~~g~ 163 (274)
T cd01133 128 KTALVYGQMNEPPGARARVALTGLTMAEYFRDEEGQ 163 (274)
T ss_pred eeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 3445555555542 3334556677799999987 74
No 54
>PRK00364 groES co-chaperonin GroES; Reviewed
Probab=27.15 E-value=49 Score=21.58 Aligned_cols=18 Identities=22% Similarity=0.610 Sum_probs=15.5
Q ss_pred CccceEEcCeEEEEEEeC
Q 032811 63 APTGLHLGGTKYMVIQGE 80 (133)
Q Consensus 63 ~~~Gi~i~g~KY~~~r~d 80 (133)
...-|.++|++|+++|.+
T Consensus 71 ~g~ev~~~~~~y~iv~~~ 88 (95)
T PRK00364 71 AGTEVKIDGEEYLILRES 88 (95)
T ss_pred CCeEEEECCEEEEEEEHH
Confidence 356799999999999987
No 55
>COG1660 Predicted P-loop-containing kinase [General function prediction only]
Probab=27.11 E-value=1.4e+02 Score=23.67 Aligned_cols=34 Identities=24% Similarity=0.234 Sum_probs=25.8
Q ss_pred ecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCC
Q 032811 98 KTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQG 132 (133)
Q Consensus 98 kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~G 132 (133)
..++.++||.+.-+.+.. ....+|+||+||++.|
T Consensus 239 egks~lTIaIGCTGGqHR-SV~iae~La~~l~~~~ 272 (286)
T COG1660 239 EGKSYLTIAIGCTGGQHR-SVYIAEQLAEYLRARG 272 (286)
T ss_pred cCCeEEEEEEccCCCccc-hHHHHHHHHHHHHhcc
Confidence 457899999987665543 4456899999999875
No 56
>cd00320 cpn10 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It forms heptameric rings with a dome-like structure, forming a lid to the large cavity of the tetradecameric cpn60 cylinder and thereby tightly regulating release and binding of proteins to the cpn60 surface.
Probab=26.92 E-value=62 Score=20.98 Aligned_cols=18 Identities=28% Similarity=0.632 Sum_probs=15.8
Q ss_pred CccceEEcCeEEEEEEeC
Q 032811 63 APTGLHLGGTKYMVIQGE 80 (133)
Q Consensus 63 ~~~Gi~i~g~KY~~~r~d 80 (133)
...-+.++|++|+++|.+
T Consensus 70 ~g~~v~~~~~~y~i~~~~ 87 (93)
T cd00320 70 AGTEVKLDGEEYLILRES 87 (93)
T ss_pred CceEEEECCEEEEEEEHH
Confidence 466799999999999987
No 57
>PF14553 YqbF: YqbF, hypothetical protein domain; PDB: 2HJQ_A.
Probab=26.46 E-value=61 Score=18.26 Aligned_cols=13 Identities=23% Similarity=0.501 Sum_probs=9.6
Q ss_pred HHHHHHHHHhCCC
Q 032811 121 VERLGDYLIDQGL 133 (133)
Q Consensus 121 v~~lA~yL~~~Gy 133 (133)
..++++||.++++
T Consensus 22 ~kk~y~YL~~ne~ 34 (43)
T PF14553_consen 22 SKKIYNYLNDNEF 34 (43)
T ss_dssp -HHHHHHHHHSTT
T ss_pred hHHHHHHHhcCCc
Confidence 4678899988864
No 58
>PF08356 EF_assoc_2: EF hand associated; InterPro: IPR013567 This region predominantly appears near EF-hands (IPR002048 from INTERPRO) in GTP-binding proteins. It is found in all three eukaryotic kingdoms.
Probab=26.21 E-value=44 Score=21.81 Aligned_cols=31 Identities=26% Similarity=0.498 Sum_probs=22.1
Q ss_pred CCCHHHHHHHHHhcCC--CCCCCccceEEcCeE
Q 032811 43 KFKPEEIAGIMKDFDQ--PGHLAPTGLHLGGTK 73 (133)
Q Consensus 43 ~~~~~E~~~l~~~f~~--~~~~~~~Gi~i~g~K 73 (133)
.++++|+..+.+.... |......||++.|-=
T Consensus 3 pL~~~el~~ik~~v~~~~~~gv~~~GiT~~GFl 35 (89)
T PF08356_consen 3 PLQPQELEDIKKVVRENIPDGVNDNGITLDGFL 35 (89)
T ss_pred CCCHHHHHHHHHHHHHHCCCCcCCCccchhhHH
Confidence 5789999888887642 344567888887743
No 59
>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit. Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.
Probab=25.99 E-value=76 Score=27.70 Aligned_cols=33 Identities=18% Similarity=0.258 Sum_probs=19.7
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++.-+.+. ....+.-+.-.+|||++++||
T Consensus 286 TvlVanTSn~p~~aR~~s~ytg~TiAEYfRD~G~ 319 (578)
T TIGR01043 286 TVLIANTSNMPVAAREASIYTGITIAEYFRDMGY 319 (578)
T ss_pred eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCC
Confidence 344444444443 223344455669999999997
No 60
>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.
Probab=25.91 E-value=68 Score=25.80 Aligned_cols=33 Identities=18% Similarity=0.290 Sum_probs=22.1
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++..+++. ..-.+....-.+|||++++|+
T Consensus 126 tvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~g~ 159 (326)
T cd01136 126 SVVVVATSDESPLLRVKAAYTATAIAEYFRDQGK 159 (326)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 345566566543 334566677779999999884
No 61
>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=25.42 E-value=73 Score=26.44 Aligned_cols=32 Identities=19% Similarity=0.283 Sum_probs=20.3
Q ss_pred EEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 102 ALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 102 ~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
.+|++.-+++. ..-.+..+.-.+|+|++++|+
T Consensus 195 vvv~~tsd~~~~~r~~a~~~a~tiAEyfr~~G~ 227 (411)
T TIGR03496 195 VVVAATADESPLMRLRAAFYATAIAEYFRDQGK 227 (411)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCC
Confidence 34444444432 233466667779999999885
No 62
>PRK14533 groES co-chaperonin GroES; Provisional
Probab=25.10 E-value=78 Score=20.60 Aligned_cols=19 Identities=21% Similarity=0.443 Sum_probs=16.0
Q ss_pred CCccceEEcCeEEEEEEeC
Q 032811 62 LAPTGLHLGGTKYMVIQGE 80 (133)
Q Consensus 62 ~~~~Gi~i~g~KY~~~r~d 80 (133)
...+-+.++|++|+++|.+
T Consensus 65 y~g~ev~~~~~~y~iv~e~ 83 (91)
T PRK14533 65 YAGTEIKIDDEDYIIIDVN 83 (91)
T ss_pred CCCeEEEECCEEEEEEEhH
Confidence 3456799999999999987
No 63
>PRK06936 type III secretion system ATPase; Provisional
Probab=25.07 E-value=74 Score=26.75 Aligned_cols=33 Identities=21% Similarity=0.474 Sum_probs=20.4
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++.-+++. ..-.+..+.-.+|||++++|+
T Consensus 219 tvvv~atsd~p~~~R~~a~~~a~tiAEyfrd~G~ 252 (439)
T PRK06936 219 AVLVVATSDRPSMERAKAGFVATSIAEYFRDQGK 252 (439)
T ss_pred eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 345555555432 223455556679999999985
No 64
>PF12146 Hydrolase_4: Putative lysophospholipase; InterPro: IPR022742 This domain is found in bacteria and eukaryotes and is approximately 110 amino acids in length. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins.
Probab=24.50 E-value=1.8e+02 Score=17.92 Aligned_cols=18 Identities=22% Similarity=0.416 Sum_probs=13.7
Q ss_pred hHHHHHHHHHHHHHhCCC
Q 032811 116 QCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 116 ~~~~~v~~lA~yL~~~Gy 133 (133)
.-...-..+|++|.++||
T Consensus 27 eh~~ry~~~a~~L~~~G~ 44 (79)
T PF12146_consen 27 EHSGRYAHLAEFLAEQGY 44 (79)
T ss_pred HHHHHHHHHHHHHHhCCC
Confidence 344457779999999987
No 65
>PRK08972 fliI flagellum-specific ATP synthase; Validated
Probab=24.35 E-value=77 Score=26.71 Aligned_cols=32 Identities=19% Similarity=0.213 Sum_probs=19.7
Q ss_pred EEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 102 ALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 102 ~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
.+|++.-+++. ..-.+..+.-.+|||+++.|+
T Consensus 220 vvv~atsd~p~~~R~~a~~~A~tiAEyfrd~G~ 252 (444)
T PRK08972 220 VVVAAPADTSPLMRLKGCETATTIAEYFRDQGL 252 (444)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 34444444432 223466666779999999885
No 66
>PHA02119 hypothetical protein
Probab=24.34 E-value=49 Score=20.76 Aligned_cols=11 Identities=36% Similarity=0.570 Sum_probs=8.3
Q ss_pred HHHHHHHhCCC
Q 032811 123 RLGDYLIDQGL 133 (133)
Q Consensus 123 ~lA~yL~~~Gy 133 (133)
.+.|||++.||
T Consensus 58 divdylr~lgy 68 (87)
T PHA02119 58 DIVDYLRSLGY 68 (87)
T ss_pred HHHHHHHHccc
Confidence 46788888887
No 67
>PF00166 Cpn10: Chaperonin 10 Kd subunit; InterPro: IPR020818 The chaperonins are `helper' molecules required for correct folding and subsequent assembly of some proteins []. These are required for normal cell growth [], and are stress-induced, acting to stabilise or protect disassembled polypeptides under heat-shock conditions. Type I chaperonins present in eubacteria, mitochondria and chloroplasts require the concerted action of 2 proteins, chaperonin 60 (cpn60) and chaperonin 10 (cpn10) []. The 10 kDa chaperonin (cpn10 - or groES in bacteria) exists as a ring-shaped oligomer of between six to eight identical subunits, while the 60 kDa chaperonin (cpn60 - or groEL in bacteria) forms a structure comprising 2 stacked rings, each ring containing 7 identical subunits []. These ring structures assemble by self-stimulation in the presence of Mg2+-ATP. The central cavity of the cylindrical cpn60 tetradecamer provides as isolated environment for protein folding whilst cpn-10 binds to cpn-60 and synchronizes the release of the folded protein in an Mg2+-ATP dependent manner []. The binding of cpn10 to cpn60 inhibits the weak ATPase activity of cpn60. Escherichia coli GroES has also been shown to bind ATP cooperatively, and with an affinity comparable to that of GroEL []. Each GroEL subunit contains three structurally distinct domains: an apical, an intermediate and an equatorial domain. The apical domain contains the binding sites for both GroES and the unfolded protein substrate. The equatorial domain contains the ATP-binding site and most of the oligomeric contacts. The intermediate domain links the apical and equatorial domains and transfers allosteric information between them. The GroEL oligomer is a tetradecamer, cylindrically shaped, that is organised in two heptameric rings stacked back to back. Each GroEL ring contains a central cavity, known as the `Anfinsen cage', that provides an isolated environment for protein folding. The identical 10 kDa subunits of GroES form a dome-like heptameric oligomer in solution. ATP binding to GroES may be important in charging the seven subunits of the interacting GroEL ring with ATP, to facilitate cooperative ATP binding and hydrolysis for substrate protein release.; GO: 0006457 protein folding, 0005737 cytoplasm; PDB: 1PF9_Q 1AON_P 1SX4_T 1SVT_R 2C7D_P 1PCQ_O 2C7C_Q 1GRU_Q 1WNR_F 1P3H_I ....
Probab=24.23 E-value=72 Score=20.53 Aligned_cols=18 Identities=28% Similarity=0.684 Sum_probs=15.8
Q ss_pred CccceEEcCeEEEEEEeC
Q 032811 63 APTGLHLGGTKYMVIQGE 80 (133)
Q Consensus 63 ~~~Gi~i~g~KY~~~r~d 80 (133)
...-+.++|++|+++|.+
T Consensus 70 ~g~~v~~~~~~~~~~~~~ 87 (93)
T PF00166_consen 70 AGTEVKFDGEKYLIVRED 87 (93)
T ss_dssp TSEEEEETTEEEEEEEGG
T ss_pred CceEEEECCEEEEEEEHH
Confidence 466899999999999987
No 68
>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=24.10 E-value=85 Score=26.08 Aligned_cols=33 Identities=18% Similarity=0.377 Sum_probs=22.1
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++..+++. ..-.+..+.-.+|||+++.|+
T Consensus 194 ~v~v~~tsd~~~~~r~~~~~~a~tiAEyfr~~G~ 227 (413)
T TIGR03497 194 SVVVVATSDQPALMRLKAAFTATAIAEYFRDQGK 227 (413)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCC
Confidence 456666666542 333466777789999999885
No 69
>PRK08927 fliI flagellum-specific ATP synthase; Validated
Probab=24.03 E-value=79 Score=26.60 Aligned_cols=33 Identities=24% Similarity=0.430 Sum_probs=21.9
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++.-+++. ..-.+..+.-.+|+|+++.|+
T Consensus 215 svvv~atsd~~~~~r~~a~~~a~tiAEyfrd~G~ 248 (442)
T PRK08927 215 SVVVVATSDEPALMRRQAAYLTLAIAEYFRDQGK 248 (442)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCC
Confidence 345555555532 333467777889999999885
No 70
>KOG0141 consensus Isovaleryl-CoA dehydrogenase [Amino acid transport and metabolism; Lipid transport and metabolism]
Probab=23.95 E-value=1.1e+02 Score=24.98 Aligned_cols=44 Identities=16% Similarity=0.280 Sum_probs=29.0
Q ss_pred CccceEEcCeEEEEEEeCCCc--eEEEecCCCcEEEEecCcEEEEE
Q 032811 63 APTGLHLGGTKYMVIQGEAGA--VIRGKKGSGGVTIKKTGQALVFG 106 (133)
Q Consensus 63 ~~~Gi~i~g~KY~~~r~d~~~--~i~~kk~~~G~~i~kt~~~iVI~ 106 (133)
..+...+||.||.++...+.. .+|+|.+.+++--.+.-+++||=
T Consensus 182 ~g~~yiLNGsK~witNG~~advliVyAkTd~~a~~~~hGIt~FiVE 227 (421)
T KOG0141|consen 182 KGDDYILNGSKFWITNGPDADVLIVYAKTDHSAVPPSHGITAFIVE 227 (421)
T ss_pred cCCcEEecCcEEEEecCCCCcEEEEEEecCCCCCCCcCceEEEEEc
Confidence 357789999999999875333 37888776654443444455553
No 71
>PRK04192 V-type ATP synthase subunit A; Provisional
Probab=23.51 E-value=87 Score=27.39 Aligned_cols=33 Identities=18% Similarity=0.238 Sum_probs=20.4
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++.-+.+. ....+.-+.-.+|||++++||
T Consensus 291 TvlVanTSn~Pv~aR~~s~ytgiTiAEYfRd~G~ 324 (586)
T PRK04192 291 TVLIANTSNMPVAAREASIYTGITIAEYYRDMGY 324 (586)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCC
Confidence 344444444443 223345556679999999997
No 72
>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=23.39 E-value=87 Score=26.10 Aligned_cols=33 Identities=21% Similarity=0.333 Sum_probs=21.0
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++.-+++. ..-.+..+.-.+|+|++++|+
T Consensus 197 tvvv~atsd~~~~~r~~a~~~a~~iAEyfrd~G~ 230 (418)
T TIGR03498 197 SVVVVATSDESPLMRRQAAYTATAIAEYFRDQGK 230 (418)
T ss_pred eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 345555555532 233466677779999999885
No 73
>PRK09099 type III secretion system ATPase; Provisional
Probab=23.23 E-value=94 Score=26.14 Aligned_cols=33 Identities=15% Similarity=0.394 Sum_probs=21.1
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++.-+++. ..-.+..+.-.+|||++++|+
T Consensus 220 tvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd~G~ 253 (441)
T PRK09099 220 SVVVCATSDRSSIERAKAAYVATAIAEYFRDRGL 253 (441)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 345555555543 333455666679999999985
No 74
>PF09695 YtfJ_HI0045: Bacterial protein of unknown function (YtfJ_HI0045); InterPro: IPR006513 These are sequences from gammaproteobacteria that are related to the Escherichia coli protein, YtfJ.
Probab=22.81 E-value=1.7e+02 Score=21.18 Aligned_cols=31 Identities=10% Similarity=0.374 Sum_probs=22.4
Q ss_pred EEEEecCCC-EEEEcCCCCCCCHHHHHHHHHhcCC
Q 032811 25 SAIVGHDGS-VWAQSANFPKFKPEEIAGIMKDFDQ 58 (133)
Q Consensus 25 aaI~g~dG~-~wA~s~~f~~~~~~E~~~l~~~f~~ 58 (133)
-.+++.+|. .|+. +| .|+++|++..+..++.
T Consensus 128 iiVlDK~G~V~F~k-~G--~Ls~~Ev~qVi~Ll~~ 159 (160)
T PF09695_consen 128 IIVLDKQGKVQFVK-EG--ALSPAEVQQVIALLKK 159 (160)
T ss_pred EEEEcCCccEEEEE-CC--CCCHHHHHHHHHHHhc
Confidence 346667886 4765 35 5799999999987653
No 75
>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....
Probab=22.61 E-value=86 Score=23.52 Aligned_cols=34 Identities=21% Similarity=0.301 Sum_probs=21.0
Q ss_pred CcEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 100 GQALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 100 ~~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
++.+|++..+++. ..-.+....-.+|||++++|+
T Consensus 71 ~t~vv~~t~~~~~~~r~~~~~~a~t~AEyfrd~G~ 105 (215)
T PF00006_consen 71 RTVVVAATSDEPPAARYRAPYTALTIAEYFRDQGK 105 (215)
T ss_dssp GEEEEEEETTS-HHHHHHHHHHHHHHHHHHHHTTS
T ss_pred ccccccccchhhHHHHhhhhccchhhhHHHhhcCC
Confidence 3455555555543 233455666778999999885
No 76
>TIGR01752 flav_long flavodoxin, long chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the long chain type, typical for nitrogen fixation but associated with pyruvate formate-lyase activation and cobalamin-dependent methionine synthase activity in E. coli.
Probab=22.35 E-value=1.8e+02 Score=20.44 Aligned_cols=34 Identities=15% Similarity=0.087 Sum_probs=21.1
Q ss_pred cCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCC
Q 032811 99 TGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQG 132 (133)
Q Consensus 99 t~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~G 132 (133)
.++..|+|.++....+..-..++..+.+.|.+.|
T Consensus 78 gk~v~~fg~g~~~~y~~~f~~a~~~l~~~l~~~G 111 (167)
T TIGR01752 78 GKTVALFGLGDQEGYSETFCDGMGILYDKIKARG 111 (167)
T ss_pred CCEEEEEecCCCCcccHHHHHHHHHHHHHHHHcC
Confidence 3566677766543344455666677777777766
No 77
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=22.28 E-value=2.3e+02 Score=20.00 Aligned_cols=35 Identities=17% Similarity=0.275 Sum_probs=20.6
Q ss_pred CccccceEEEEecCCCEEEEcCCCCCCCHHHHHHHHH
Q 032811 18 QGQHLSASAIVGHDGSVWAQSANFPKFKPEEIAGIMK 54 (133)
Q Consensus 18 ~g~~~~~aaI~g~dG~~wA~s~~f~~~~~~E~~~l~~ 54 (133)
-| .....||+++||.+......= +++..|+-.++.
T Consensus 39 PG-~ttgiAildL~G~~l~l~S~R-~~~~~evi~~I~ 73 (138)
T PF04312_consen 39 PG-TTTGIAILDLDGELLDLKSSR-NMSRSEVIEWIS 73 (138)
T ss_pred CC-ceeEEEEEecCCcEEEEEeec-CCCHHHHHHHHH
Confidence 35 667799999999865532211 334555444444
No 78
>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=22.06 E-value=1e+02 Score=27.07 Aligned_cols=33 Identities=24% Similarity=0.278 Sum_probs=20.4
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.+|++.-+.+. ....+.-+.-.+|+|++++||
T Consensus 292 tvlVa~tsd~p~~~R~~s~ytg~tiAEYfRD~G~ 325 (591)
T TIGR01042 292 TTLVANTSNMPVAAREASIYTGITLAEYFRDMGY 325 (591)
T ss_pred eEEEEEcCCCCHHHHHHHHHHHHHHHHHHHhcCC
Confidence 444555544443 223455555669999999997
No 79
>PRK09280 F0F1 ATP synthase subunit beta; Validated
Probab=21.70 E-value=1e+02 Score=26.20 Aligned_cols=33 Identities=30% Similarity=0.494 Sum_probs=20.4
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHh-CCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLID-QGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~-~Gy 133 (133)
+.+|++..+++. ..-.+..+.-.+|+|+++ +|+
T Consensus 204 svvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~ 238 (463)
T PRK09280 204 TALVFGQMNEPPGARLRVALTGLTMAEYFRDVEGQ 238 (463)
T ss_pred eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 344445444432 223455667789999999 885
No 80
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=21.53 E-value=85 Score=26.54 Aligned_cols=33 Identities=21% Similarity=0.360 Sum_probs=21.4
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhC-CC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQ-GL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~-Gy 133 (133)
+.+|++..+++. ..-.+..+.-.+|+|++++ |+
T Consensus 203 svvv~atsd~~~~~R~~a~~~a~tiAEyfrd~~G~ 237 (461)
T PRK12597 203 TVMVYGQMNEPPGARMRVVLTGLTIAEYLRDEEKE 237 (461)
T ss_pred eEEEecCCCCCHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 445555555542 3345677777899999987 74
No 81
>PF13098 Thioredoxin_2: Thioredoxin-like domain; PDB: 1T3B_A 2L57_A 1EEJ_B 1TJD_A 1JZD_B 1JZO_A 1G0T_B 3GV1_A 1V58_A 2H0H_A ....
Probab=21.35 E-value=1.1e+02 Score=19.39 Aligned_cols=27 Identities=19% Similarity=0.491 Sum_probs=18.7
Q ss_pred EEEEecCCCEEEEcCCCCCCCHHHHHHHH
Q 032811 25 SAIVGHDGSVWAQSANFPKFKPEEIAGIM 53 (133)
Q Consensus 25 aaI~g~dG~~wA~s~~f~~~~~~E~~~l~ 53 (133)
-.+++.||.+...-.|+ ++++|+.+++
T Consensus 86 ~~~~d~~G~~v~~~~G~--~~~~~l~~~L 112 (112)
T PF13098_consen 86 IVFLDKDGKIVYRIPGY--LSPEELLKML 112 (112)
T ss_dssp EEECTTTSCEEEEEESS----HHHHHHHH
T ss_pred EEEEcCCCCEEEEecCC--CCHHHHHhhC
Confidence 45666689877777787 6899988764
No 82
>PRK07721 fliI flagellum-specific ATP synthase; Validated
Probab=21.13 E-value=1.2e+02 Score=25.45 Aligned_cols=33 Identities=21% Similarity=0.385 Sum_probs=22.0
Q ss_pred cEEEEEEeCCCC-CcchHHHHHHHHHHHHHhCCC
Q 032811 101 QALVFGIYEEPV-TPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 101 ~~iVI~~~~~~~-~~~~~~~~v~~lA~yL~~~Gy 133 (133)
+.++++..+++. ..-.+..+...+|||++++|+
T Consensus 215 ~v~vv~~~~~~~~~r~~~~~~a~~iAEyfr~~g~ 248 (438)
T PRK07721 215 SIVVVATSDQPALMRIKGAYTATAIAEYFRDQGL 248 (438)
T ss_pred eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCC
Confidence 345555555543 334566777789999999985
No 83
>TIGR01626 ytfJ_HI0045 conserved hypothetical protein YtfJ-family, TIGR01626. This model represents sequences from gamma proteobacteria that are related to the E. coli protein, YtfJ.
Probab=20.87 E-value=1.3e+02 Score=22.14 Aligned_cols=34 Identities=9% Similarity=0.166 Sum_probs=25.8
Q ss_pred cceE-EEEecCCCEEEEcCCCCCCCHHHHHHHHHhcC
Q 032811 22 LSAS-AIVGHDGSVWAQSANFPKFKPEEIAGIMKDFD 57 (133)
Q Consensus 22 ~~~a-aI~g~dG~~wA~s~~f~~~~~~E~~~l~~~f~ 57 (133)
+-.. -|+|.+|.+...-.|. ++++|+..++..++
T Consensus 146 ~P~T~fVIDk~GkVv~~~~G~--l~~ee~e~~~~li~ 180 (184)
T TIGR01626 146 EDSAIIVLDKTGKVKFVKEGA--LSDSDIQTVISLVN 180 (184)
T ss_pred CCceEEEECCCCcEEEEEeCC--CCHHHHHHHHHHHH
Confidence 3345 6999999988887775 78998877776653
No 84
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=20.84 E-value=4.1e+02 Score=25.14 Aligned_cols=58 Identities=7% Similarity=0.067 Sum_probs=40.3
Q ss_pred EEEEEeCCCceEEEecCCCcEEEEecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCCC
Q 032811 74 YMVIQGEAGAVIRGKKGSGGVTIKKTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQGL 133 (133)
Q Consensus 74 Y~~~r~d~~~~i~~kk~~~G~~i~kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~Gy 133 (133)
|+.++.| ...++ -..+.+++.++...-+.|++++.=-.+..-..++..+.++-...|+
T Consensus 256 ~la~~~D-k~~~f-s~~g~a~i~Yrv~~~~~i~~GDPvG~~e~~~~~i~~F~~~a~~~g~ 313 (1094)
T PRK02983 256 YFATRRD-KSVVF-APSGRAAITYRVEVGVCLASGDPVGDPEAWPQAIDAWLALARTYGW 313 (1094)
T ss_pred eeeecCC-ceEEE-CCCCCEEEEEEEECCEEEEECCCCCCHHHHHHHHHHHHHHHHHcCC
Confidence 4445555 23333 3345678888777777777776656888889999999999888774
No 85
>KOG3222 consensus Inosine triphosphate pyrophosphatase [Nucleotide transport and metabolism]
Probab=20.56 E-value=93 Score=23.16 Aligned_cols=16 Identities=25% Similarity=0.605 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHhCCC
Q 032811 118 NMIVERLGDYLIDQGL 133 (133)
Q Consensus 118 ~~~v~~lA~yL~~~Gy 133 (133)
..|+++|.+||.++|+
T Consensus 177 y~A~~klk~yl~~~g~ 192 (195)
T KOG3222|consen 177 YRALAKLKEYLAENGV 192 (195)
T ss_pred HHHHHHHHHHHHhcCc
Confidence 5789999999999885
No 86
>PRK12359 flavodoxin FldB; Provisional
Probab=20.49 E-value=1.9e+02 Score=20.88 Aligned_cols=35 Identities=14% Similarity=0.072 Sum_probs=25.4
Q ss_pred ecCcEEEEEEeCCCCCcchHHHHHHHHHHHHHhCC
Q 032811 98 KTGQALVFGIYEEPVTPGQCNMIVERLGDYLIDQG 132 (133)
Q Consensus 98 kt~~~iVI~~~~~~~~~~~~~~~v~~lA~yL~~~G 132 (133)
+-|+..|.|.++....+..-..++..|.+.|.+.|
T Consensus 78 ~gK~vAlFG~Gd~~~y~~~f~~a~~~l~~~l~~~G 112 (172)
T PRK12359 78 EGKIVALYGMGDQLGYGEWFLDALGMLHDKLAPKG 112 (172)
T ss_pred CCCEEEEEeCCCCccchHHHHHHHHHHHHHHHhCC
Confidence 34566777776654556667888899999998766
No 87
>PF08127 Propeptide_C1: Peptidase family C1 propeptide; InterPro: IPR012599 This domain is found at the N-terminal of cathepsin B and cathepsin B-like peptidases that belong to MEROPS peptidase subfamily C1A. Cathepsin B are lysosomal cysteine proteinases belonging to the papain superfamily and are unique in their ability to act as both an endo- and an exopeptidases. They are synthesized as inactive zymogens. Activation of the peptidases occurs with the removal of the propeptide [, ]. ; GO: 0004197 cysteine-type endopeptidase activity, 0050790 regulation of catalytic activity; PDB: 1MIR_A 1PBH_A 2PBH_A 3PBH_A.
Probab=20.42 E-value=65 Score=17.77 Aligned_cols=29 Identities=21% Similarity=0.428 Sum_probs=16.4
Q ss_pred CCCEEEEcCCCCCCCHHHHHHHHHhcCCC
Q 032811 31 DGSVWAQSANFPKFKPEEIAGIMKDFDQP 59 (133)
Q Consensus 31 dG~~wA~s~~f~~~~~~E~~~l~~~f~~~ 59 (133)
..+.|-+..+|...+.+.++.|.....++
T Consensus 12 ~~~tWkAG~NF~~~~~~~ik~LlGv~~~~ 40 (41)
T PF08127_consen 12 KNTTWKAGRNFENTSIEYIKRLLGVLPDP 40 (41)
T ss_dssp CT-SEEE----SSB-HHHHHHCS-B-TTS
T ss_pred CCCcccCCCCCCCCCHHHHHHHcCCCCCC
Confidence 35689888889888999999888876554
No 88
>PF14080 DUF4261: Domain of unknown function (DUF4261)
Probab=20.12 E-value=2.1e+02 Score=17.55 Aligned_cols=23 Identities=13% Similarity=0.443 Sum_probs=20.3
Q ss_pred CCCCcchHHHHHHHHHHHHHhCC
Q 032811 110 EPVTPGQCNMIVERLGDYLIDQG 132 (133)
Q Consensus 110 ~~~~~~~~~~~v~~lA~yL~~~G 132 (133)
...+|.........+|.||.++|
T Consensus 18 ~~~~p~ev~~~l~~ia~Yil~~~ 40 (77)
T PF14080_consen 18 SDLDPEEVYNFLYNIAYYILENG 40 (77)
T ss_pred CCCCHHHHHHHHHHHHHHHHcCC
Confidence 55789999999999999999876
Done!