Query 033178
Match_columns 125
No_of_seqs 124 out of 171
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 10:46:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033178.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033178hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2925 Predicted translation 100.0 9.3E-34 2E-38 216.6 8.9 113 2-124 49-167 (167)
2 cd05792 S1_eIF1AD_like S1_eIF1 99.9 2.5E-25 5.4E-30 153.5 5.8 53 1-59 26-78 (78)
3 smart00652 eIF1a eukaryotic tr 99.8 1.3E-21 2.8E-26 135.8 5.3 52 2-60 32-83 (83)
4 cd04456 S1_IF1A_like S1_IF1A_l 99.8 3.5E-21 7.5E-26 132.4 5.3 53 1-59 26-78 (78)
5 TIGR00523 eIF-1A eukaryotic/ar 99.8 6.6E-20 1.4E-24 131.2 5.2 55 1-61 45-99 (99)
6 PLN00208 translation initiatio 99.8 2E-19 4.4E-24 136.5 5.2 59 1-66 58-116 (145)
7 PTZ00329 eukaryotic translatio 99.8 6E-19 1.3E-23 135.1 7.6 58 2-66 59-116 (155)
8 cd05793 S1_IF1A S1_IF1A: Trans 99.7 4.7E-18 1E-22 116.5 5.1 50 2-58 27-76 (77)
9 PRK04012 translation initiatio 99.7 5.6E-18 1.2E-22 121.5 5.2 53 2-61 48-100 (100)
10 PF01176 eIF-1a: Translation i 99.2 4.8E-12 1E-16 83.6 2.3 36 2-44 30-65 (65)
11 KOG3403 Translation initiation 99.0 5.3E-10 1.1E-14 84.1 5.0 57 3-66 60-116 (145)
12 COG0361 InfA Translation initi 98.5 5.8E-08 1.3E-12 66.9 2.4 41 2-49 34-75 (75)
13 TIGR00008 infA translation ini 97.9 5.9E-06 1.3E-10 55.9 2.5 36 2-44 32-68 (68)
14 PRK12442 translation initiatio 97.7 4E-05 8.6E-10 54.3 3.0 38 2-46 34-72 (87)
15 CHL00010 infA translation init 97.5 0.00012 2.6E-09 50.0 3.2 38 3-47 35-73 (78)
16 PRK00276 infA translation init 97.4 0.00018 3.9E-09 48.2 3.3 36 3-45 35-71 (72)
17 cd04451 S1_IF1 S1_IF1: Transla 95.7 0.01 2.2E-07 38.3 2.7 35 3-44 29-64 (64)
18 cd04466 S1_YloQ_GTPase S1_YloQ 86.8 0.79 1.7E-05 28.9 2.8 35 4-47 27-62 (68)
19 cd04721 BAH_plant_1 BAH, or Br 83.8 2.3 4.9E-05 31.4 4.4 49 8-57 2-59 (130)
20 PF11776 DUF3315: Domain of un 75.1 2.7 5.9E-05 26.6 2.2 13 11-23 30-43 (52)
21 PF11302 DUF3104: Protein of u 72.7 6.5 0.00014 27.2 3.7 36 12-47 4-39 (75)
22 PRK12281 rplX 50S ribosomal pr 71.2 5.7 0.00012 27.1 3.1 30 13-49 6-35 (76)
23 cd04717 BAH_polybromo BAH, or 67.0 9.6 0.00021 27.1 3.8 51 12-62 2-62 (121)
24 cd04714 BAH_BAHCC1 BAH, or Bro 66.1 10 0.00022 27.4 3.7 49 14-62 4-62 (121)
25 PF01455 HupF_HypC: HupF/HypC 65.3 8.5 0.00018 25.6 3.0 26 14-53 38-63 (68)
26 PF09378 HAS-barrel: HAS barre 63.4 9 0.00019 25.2 2.9 27 14-47 23-49 (91)
27 PRK01191 rpl24p 50S ribosomal 60.8 13 0.00027 27.8 3.5 39 4-49 35-74 (120)
28 TIGR00074 hypC_hupF hydrogenas 59.2 5.9 0.00013 27.1 1.4 10 14-23 36-45 (76)
29 cd04713 BAH_plant_3 BAH, or Br 59.1 19 0.00041 26.9 4.2 47 12-59 19-74 (146)
30 cd06555 ASCH_PF0470_like ASC-1 58.6 18 0.00039 26.3 3.9 39 12-56 30-68 (109)
31 PTZ00194 60S ribosomal protein 57.8 15 0.00032 28.2 3.5 38 4-48 36-74 (143)
32 TIGR01080 rplX_A_E ribosomal p 55.9 18 0.0004 26.5 3.6 38 4-48 31-69 (114)
33 PRK00004 rplX 50S ribosomal pr 54.9 16 0.00035 26.1 3.1 30 13-49 4-33 (105)
34 PF12961 DUF3850: Domain of Un 54.6 21 0.00046 24.4 3.5 32 15-48 30-61 (72)
35 cd04719 BAH_Orc1p_animal BAH, 54.1 12 0.00026 27.9 2.4 50 12-61 2-65 (128)
36 PRK04081 hypothetical protein; 53.9 20 0.00044 29.1 3.8 44 15-58 46-99 (207)
37 TIGR01439 lp_hng_hel_AbrB loop 53.4 6.4 0.00014 22.6 0.7 21 3-23 10-30 (43)
38 smart00357 CSP Cold shock prot 53.0 22 0.00048 21.2 3.2 28 14-45 37-64 (64)
39 PRK10413 hydrogenase 2 accesso 52.1 11 0.00024 26.2 1.8 10 14-23 43-52 (82)
40 TIGR01079 rplX_bact ribosomal 52.0 19 0.00041 25.9 3.1 29 14-49 4-32 (104)
41 CHL00141 rpl24 ribosomal prote 51.5 21 0.00045 24.6 3.1 32 11-49 6-37 (83)
42 COG0298 HypC Hydrogenase matur 51.4 26 0.00057 24.7 3.6 25 14-52 39-63 (82)
43 PF00717 Peptidase_S24: Peptid 46.9 8.3 0.00018 24.0 0.5 16 3-24 6-21 (70)
44 KOG2107 Uncharacterized conser 46.7 15 0.00033 29.2 2.0 13 11-23 117-129 (179)
45 PF08206 OB_RNB: Ribonuclease 46.2 18 0.00038 22.8 2.0 25 16-44 34-58 (58)
46 COG2932 Predicted transcriptio 46.0 18 0.0004 27.9 2.4 32 3-48 132-163 (214)
47 COG0198 RplX Ribosomal protein 45.5 30 0.00066 25.1 3.3 30 12-48 3-32 (104)
48 PF01426 BAH: BAH domain; Int 45.5 31 0.00067 23.4 3.3 12 14-25 3-14 (119)
49 PF10017 Methyltransf_33: Hist 44.8 55 0.0012 23.6 4.7 27 31-57 82-108 (127)
50 TIGR02754 sod_Ni_protease nick 44.4 29 0.00063 22.9 2.9 34 2-47 6-41 (90)
51 PRK10409 hydrogenase assembly 39.6 17 0.00036 25.8 1.2 11 13-23 41-51 (90)
52 PF09902 DUF2129: Uncharacteri 38.5 38 0.00082 23.0 2.8 22 38-59 2-23 (71)
53 PF09866 DUF2093: Uncharacteri 38.1 20 0.00042 22.4 1.2 14 14-27 2-15 (42)
54 cd06529 S24_LexA-like Peptidas 37.4 23 0.0005 22.3 1.5 27 14-48 14-40 (81)
55 cd06462 Peptidase_S24_S26 The 36.9 41 0.00088 21.0 2.6 28 14-48 14-41 (84)
56 cd03703 aeIF5B_II aeIF5B_II: T 35.5 44 0.00096 24.4 2.9 35 14-56 27-61 (110)
57 COG4043 Preprotein translocase 34.4 86 0.0019 23.2 4.2 34 13-56 33-66 (111)
58 cd04370 BAH BAH, or Bromo Adja 32.6 84 0.0018 21.0 3.8 42 14-55 4-57 (123)
59 smart00439 BAH Bromo adjacent 31.4 83 0.0018 21.2 3.6 49 14-62 2-61 (120)
60 PF04014 Antitoxin-MazE: Antid 30.3 14 0.0003 22.2 -0.4 21 3-23 10-30 (47)
61 TIGR02771 TraF_Ti conjugative 30.1 27 0.00059 26.7 1.1 23 2-24 32-57 (171)
62 PRK12288 GTPase RsgA; Reviewed 29.9 56 0.0012 27.7 3.0 36 4-48 66-102 (347)
63 PRK02302 hypothetical protein; 29.7 62 0.0013 23.0 2.8 24 36-59 6-29 (89)
64 smart00739 KOW KOW (Kyprides, 29.1 89 0.0019 15.9 3.2 25 14-45 2-26 (28)
65 PRK02886 hypothetical protein; 29.1 66 0.0014 22.8 2.8 24 36-59 4-27 (87)
66 PF13986 DUF4224: Domain of un 28.0 43 0.00093 20.7 1.5 14 45-58 16-29 (47)
67 PF07093 SGT1: SGT1 protein; 27.7 37 0.0008 30.7 1.7 19 5-23 116-134 (589)
68 PRK11712 ribonuclease G; Provi 27.4 39 0.00084 30.4 1.7 21 5-25 277-297 (489)
69 PF06094 AIG2: AIG2-like famil 27.3 1.2E+02 0.0026 20.0 3.8 40 10-56 33-72 (102)
70 COG4937 Predicted regulatory d 26.1 1.1E+02 0.0024 24.0 3.8 38 18-59 44-81 (171)
71 COG2123 RNase PH-related exori 26.1 19 0.00041 30.3 -0.4 42 11-57 197-239 (272)
72 cd06530 S26_SPase_I The S26 Ty 25.4 69 0.0015 20.6 2.3 11 14-24 14-24 (85)
73 TIGR00061 L21 ribosomal protei 25.3 1.1E+02 0.0023 21.9 3.4 14 10-23 9-22 (101)
74 cd05795 Ribosomal_P0_L10e Ribo 24.7 1.1E+02 0.0024 23.3 3.6 39 4-60 136-175 (175)
75 KOG0650 WD40 repeat nucleolar 23.9 89 0.0019 29.6 3.4 21 3-23 519-539 (733)
76 TIGR00757 RNaseEG ribonuclease 23.8 48 0.001 29.1 1.6 20 6-25 266-285 (414)
77 COG2002 AbrB Regulators of sta 23.6 43 0.00094 22.8 1.1 20 4-23 18-37 (89)
78 PRK00098 GTPase RsgA; Reviewed 23.4 85 0.0018 25.6 2.9 20 4-23 27-47 (298)
79 PHA02891 hypothetical protein; 23.2 15 0.00033 27.1 -1.3 57 2-65 18-76 (120)
80 cd01854 YjeQ_engC YjeQ/EngC. 23.1 79 0.0017 25.7 2.7 36 4-48 24-60 (287)
81 PF11871 DUF3391: Domain of un 23.0 1.8E+02 0.004 20.0 4.2 40 14-58 10-49 (128)
82 COG0681 LepB Signal peptidase 23.0 70 0.0015 22.8 2.1 17 2-24 39-55 (166)
83 COG0509 GcvH Glycine cleavage 22.9 60 0.0013 24.6 1.8 40 3-48 4-48 (131)
84 KOG2199 Signal transducing ada 22.8 34 0.00075 30.7 0.5 33 35-67 233-270 (462)
85 KOG3381 Uncharacterized conser 22.0 43 0.00094 26.2 0.9 20 2-21 107-126 (161)
86 PRK08577 hypothetical protein; 22.0 41 0.0009 24.3 0.8 20 4-23 17-36 (136)
87 PTZ00007 (NAP-L) nucleosome as 21.5 1.3E+02 0.0028 25.9 3.7 15 49-63 258-272 (337)
88 PRK12289 GTPase RsgA; Reviewed 21.1 98 0.0021 26.4 2.9 10 14-23 52-61 (352)
89 PHA00428 tail tubular protein 20.6 1.8E+02 0.0039 23.0 4.1 43 10-64 86-128 (193)
90 PF09894 DUF2121: Uncharacteri 20.6 1.5E+02 0.0033 23.9 3.7 19 8-26 89-107 (194)
91 PF10150 RNase_E_G: Ribonuclea 20.6 62 0.0013 26.5 1.6 21 5-25 154-174 (271)
92 cd04710 BAH_fungalPHD BAH, or 20.5 1.8E+02 0.004 21.5 4.0 16 10-25 8-23 (135)
93 PRK05943 50S ribosomal protein 20.4 1.1E+02 0.0024 21.0 2.6 27 37-63 4-30 (94)
94 PRK08225 acetyl-CoA carboxylas 20.2 62 0.0013 20.5 1.2 42 2-46 6-54 (70)
No 1
>KOG2925 consensus Predicted translation initiation factor related to eIF-1A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9.3e-34 Score=216.58 Aligned_cols=113 Identities=48% Similarity=0.718 Sum_probs=89.2
Q ss_pred CcchhhccceEeeeeCCEEEEecCCccccccc---CCceeEEEEEEechhHHHHHHHCCCCchhhhcCCCC-Cccchhhh
Q 033178 2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKD---GSKVACIVTKVLFYEQVRALQKSTEWPEIFKSTNSD-DANGSLER 77 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e---~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~~~~-~~~~~~~~ 77 (125)
-+||+||||+||||||+||||+ |+++ |+||+|+|++||+.+||+.|+|+|+||+.|.....- +.+...
T Consensus 49 vsmP~KfRksiWiRRg~FvvVd------piee~~~g~KVkgeI~yVl~~d~vr~lqk~g~WPe~F~d~alk~n~~~~t-- 120 (167)
T KOG2925|consen 49 VSMPAKFRKSIWIRRGSFVVVD------PIEEEKSGSKVKGEICYVLFFDQVRLLQKSGEWPEIFKDTALKPNEKSST-- 120 (167)
T ss_pred eeCCHhhhhceEEeeCCEEEEc------cccccccCCccceEEEEEEccHHHHHHHHcCCcchhhhhcccccccccCC--
Confidence 5899999999999999999999 6666 999999999999999999999999999999875422 222211
Q ss_pred hhccccc--ccCCCCCCCCCCCCcccccCCCCCCcccCCCcCCCCCCCC
Q 033178 78 QACNHEE--NDQSESDDDDGLPPLEANINRMKPMELQTESESDSESDTD 124 (125)
Q Consensus 78 ~~~~~~~--~~~~~sd~dDdl~pL~~NtNr~~~~~~~~~ses~s~~~~~ 124 (125)
...+.+ ..++++++||+ +|||+||||+++....++++.++..+||
T Consensus 121 -~e~~~dd~ls~sese~ddd-s~l~~ntnr~~~~~~eee~e~~~~a~s~ 167 (167)
T KOG2925|consen 121 -IEQHEDDGLSDSESEDDDD-SPLQANTNRLRPFGVEEEAETDSGADSD 167 (167)
T ss_pred -cccccccCCCCcccccccC-CchhccccccCcccccccCcccccCCCC
Confidence 111111 22334444455 9999999999999999999999888875
No 2
>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.
Probab=99.92 E-value=2.5e-25 Score=153.50 Aligned_cols=53 Identities=26% Similarity=0.478 Sum_probs=50.7
Q ss_pred CCcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCC
Q 033178 1 MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEW 59 (125)
Q Consensus 1 ~~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~W 59 (125)
|-+||+||||+|||||||||||+ |+++++|++|+|++||+++|||+|+++|+|
T Consensus 26 l~~iP~KfRk~iWIkrGd~VlV~------p~~~~~kvkgeIv~i~~~~qvk~L~k~g~W 78 (78)
T cd05792 26 LVSMPTKFRKNIWIKRGDFVLVE------PIEEGDKVKAEIVKILTRDHVKYIKEEGLW 78 (78)
T ss_pred EEEechhhcccEEEEeCCEEEEE------ecccCCceEEEEEEEECHHHHHHHHHcCCC
Confidence 45899999999999999999999 888889999999999999999999999999
No 3
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=99.85 E-value=1.3e-21 Score=135.77 Aligned_cols=52 Identities=25% Similarity=0.227 Sum_probs=48.2
Q ss_pred CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCc
Q 033178 2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWP 60 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP 60 (125)
.+||+||||+|||++||||||+ +++. ++++|+|+++|+++|||+|+++|+||
T Consensus 32 a~ipgK~Rk~iwI~~GD~VlVe------~~~~-~~~kg~Iv~r~~~~~vk~L~k~g~wp 83 (83)
T smart00652 32 ARIPGKMRKKVWIRRGDIVLVD------PWDF-QDVKADIIYKYTKDEVRWLKKEGELP 83 (83)
T ss_pred EEEchhhcccEEEcCCCEEEEE------ecCC-CCCEEEEEEEeCHHHHHHHHHcCCCC
Confidence 4799999999999999999999 4544 49999999999999999999999999
No 4
>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=99.83 E-value=3.5e-21 Score=132.39 Aligned_cols=53 Identities=25% Similarity=0.343 Sum_probs=49.6
Q ss_pred CCcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCC
Q 033178 1 MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEW 59 (125)
Q Consensus 1 ~~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~W 59 (125)
|.+||+||||+|||++||||||+ +++.|++++|+|+++|+++|||+|+++|+|
T Consensus 26 l~~i~gK~Rk~iwI~~GD~VlV~------~~~~~~~~kg~Iv~r~~~~~vk~L~k~g~w 78 (78)
T cd04456 26 LVSIPGKLRKNIWIKRGDFLIVD------PIEEGEDVKADIIFVYCKDHVRSLKKEGFL 78 (78)
T ss_pred EEEEchhhccCEEEcCCCEEEEE------ecccCCCceEEEEEEeCHHHHHHHHHcCcC
Confidence 35799999999999999999999 666678999999999999999999999998
No 5
>TIGR00523 eIF-1A eukaryotic/archaeal initiation factor 1A. Recommended nomenclature: eIF-1A for eukaryotes, aIF-1A for Archaea. Also called eIF-4C
Probab=99.80 E-value=6.6e-20 Score=131.19 Aligned_cols=55 Identities=16% Similarity=0.109 Sum_probs=51.2
Q ss_pred CCcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCch
Q 033178 1 MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPE 61 (125)
Q Consensus 1 ~~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~ 61 (125)
|..||+||||+|||++||||||. |++.+.+++|+|+|+|+++||++|+++|+||.
T Consensus 45 la~i~GK~Rk~iwI~~GD~VlVs------p~d~~~~~kg~Iv~r~~~~qv~~L~~~g~~p~ 99 (99)
T TIGR00523 45 LGRIPGKLKKRIWIREGDVVIVK------PWEFQGDDKCDIVWRYTKTQVEWLKRKGYLKE 99 (99)
T ss_pred EEEEchhhcccEEecCCCEEEEE------EccCCCCccEEEEEEcCHHHHHHHHHcCCCCC
Confidence 35799999999999999999998 77777799999999999999999999999994
No 6
>PLN00208 translation initiation factor (eIF); Provisional
Probab=99.78 E-value=2e-19 Score=136.48 Aligned_cols=59 Identities=20% Similarity=0.167 Sum_probs=53.6
Q ss_pred CCcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhhcC
Q 033178 1 MPDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKST 66 (125)
Q Consensus 1 ~~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~ 66 (125)
|..||+||||+|||++||+|||+.| ++++++|+|+|+|+++||++|++.|+||+.|..+
T Consensus 58 La~IpGKmRKrIWI~~GD~VlVel~-------~~d~~KgdIv~ry~~dqvr~Lkk~G~~P~~f~~~ 116 (145)
T PLN00208 58 LCHIRGKMRKKVWIAAGDIILVGLR-------DYQDDKADVILKYMPDEARLLKAYGELPENTRLN 116 (145)
T ss_pred EEEEeccceeeEEecCCCEEEEEcc-------CCCCCEEEEEEEcCHHHHHHHHHcCCCCcceeec
Confidence 3479999999999999999999933 3579999999999999999999999999999774
No 7
>PTZ00329 eukaryotic translation initiation factor 1A; Provisional
Probab=99.77 E-value=6e-19 Score=135.13 Aligned_cols=58 Identities=22% Similarity=0.165 Sum_probs=53.1
Q ss_pred CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhhcC
Q 033178 2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKST 66 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~ 66 (125)
..||+||||+|||++||+|||++| ++++++|.|+++|+++||++|++.|+||+.|..+
T Consensus 59 a~I~GKmRK~IWI~~GD~VlVel~-------~yd~~KgdIi~Ry~~devr~Lk~~g~~P~~~~~~ 116 (155)
T PTZ00329 59 CHIRGKMRKRVWINIGDIILVSLR-------DFQDSKADVILKYTPDEARALKQHGELPETAKIN 116 (155)
T ss_pred EEeeccceeeEEecCCCEEEEecc-------CCCCCEEEEEEEcCHHHHHHHHHcCCCCcceeec
Confidence 469999999999999999999933 3579999999999999999999999999999764
No 8
>cd05793 S1_IF1A S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=99.73 E-value=4.7e-18 Score=116.48 Aligned_cols=50 Identities=18% Similarity=0.084 Sum_probs=45.8
Q ss_pred CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCC
Q 033178 2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTE 58 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~ 58 (125)
..||+||||+|||++||||+|++ ++. ++++|+|+++|+++||++|+++|+
T Consensus 27 a~i~gK~rk~iwI~~GD~V~Ve~------~~~-d~~kg~Iv~r~~~~~v~~L~~~g~ 76 (77)
T cd05793 27 CRIRGKMRKRVWINEGDIVLVAP------WDF-QDDKADIIYKYTPDEVRWLKRKGE 76 (77)
T ss_pred EEEchhhcccEEEcCCCEEEEEe------ccc-cCCEEEEEEEcCHHHHHHHHHcCc
Confidence 47999999999999999999994 443 699999999999999999999986
No 9
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=99.72 E-value=5.6e-18 Score=121.48 Aligned_cols=53 Identities=15% Similarity=0.007 Sum_probs=48.3
Q ss_pred CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCch
Q 033178 2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPE 61 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~ 61 (125)
..||+||||+|||++||||+|+ +++.+ +.+|+|+++|+++||++|+++|+.|.
T Consensus 48 a~i~GK~Rk~IwI~~GD~VlVe------~~~~~-~~kg~Iv~r~~~~qv~~L~~~g~~~~ 100 (100)
T PRK04012 48 GRIPGKMKKRMWIREGDVVIVA------PWDFQ-DEKADIIWRYTKPQVDWLRRKGYISE 100 (100)
T ss_pred EEEchhhcccEEecCCCEEEEE------ecccC-CCEEEEEEEcCHHHHHHHHHcCCCCC
Confidence 4799999999999999999999 55544 89999999999999999999999884
No 10
>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.
Probab=99.22 E-value=4.8e-12 Score=83.58 Aligned_cols=36 Identities=22% Similarity=0.169 Sum_probs=27.2
Q ss_pred CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEE
Q 033178 2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKV 44 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~i 44 (125)
-.||+|||++|||++||||||++| + .++++|+|+|+
T Consensus 30 ~~i~gK~r~~iwI~~GD~V~V~~~------~-~d~~kG~Ii~r 65 (65)
T PF01176_consen 30 ARIPGKFRKRIWIKRGDFVLVEPS------P-YDKVKGRIIYR 65 (65)
T ss_dssp EEE-HHHHTCC---TTEEEEEEES------T-TCTTEEEEEEE
T ss_pred EEeccceeeeEecCCCCEEEEEec------c-cCCCeEEEEEC
Confidence 369999999999999999999944 3 34999999985
No 11
>KOG3403 consensus Translation initiation factor 1A (eIF-1A) [Translation, ribosomal structure and biogenesis]
Probab=99.00 E-value=5.3e-10 Score=84.13 Aligned_cols=57 Identities=21% Similarity=0.197 Sum_probs=53.2
Q ss_pred cchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhhcC
Q 033178 3 DMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFKST 66 (125)
Q Consensus 3 ~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~~~ 66 (125)
-+.+|+||+|||-.||+|||. +.+++.-+|+|++.|++++++.|+..|..|..|..+
T Consensus 60 hiRGklrkkVwi~~GDIiLv~-------lRD~qd~kaDvilKY~~dEar~LK~~Gelpe~~k~N 116 (145)
T KOG3403|consen 60 HIRGKLRKKVWINQGDIILVG-------LRDYQDDKADVILKYMPDEARILKAYGELPENAKIN 116 (145)
T ss_pred hhhccceeeEeecCCCEEEEe-------eecccccccceehhhChHHHHHHHhcCcCCcccccc
Confidence 468999999999999999999 778899999999999999999999999999988774
No 12
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=98.51 E-value=5.8e-08 Score=66.88 Aligned_cols=41 Identities=12% Similarity=0.016 Sum_probs=34.8
Q ss_pred Ccchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhH
Q 033178 2 PDMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQ 49 (125)
Q Consensus 2 ~~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dq 49 (125)
.-+|+|+|+ +|||..||.|+|++| |. +--+|.|++.|.++|
T Consensus 34 ahI~GKmr~~~i~I~~GD~V~Ve~~----~~---d~~kg~I~~Ry~~~~ 75 (75)
T COG0361 34 AHISGKMRKNRIRILPGDVVLVELS----PY---DLTKGRIVYRYKKDE 75 (75)
T ss_pred EEccCcchheeEEeCCCCEEEEEec----cc---ccccccEEEEecCCC
Confidence 458999999 999999999999955 33 478999999998764
No 13
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=97.95 E-value=5.9e-06 Score=55.93 Aligned_cols=36 Identities=14% Similarity=-0.045 Sum_probs=29.7
Q ss_pred Ccchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEE
Q 033178 2 PDMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKV 44 (125)
Q Consensus 2 ~~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~i 44 (125)
..+++|+|+ +|||..||.|+|+.| |. +..+|.|++.
T Consensus 32 a~i~GKmr~~rI~I~~GD~V~Ve~s----py---d~tkgrIi~R 68 (68)
T TIGR00008 32 AHISGKIRMHYIRILPGDKVKVELS----PY---DLTRGRITYR 68 (68)
T ss_pred EEecCcchhccEEECCCCEEEEEEC----cc---cCCcEeEEeC
Confidence 357999995 999999999999955 44 4778999873
No 14
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=97.66 E-value=4e-05 Score=54.25 Aligned_cols=38 Identities=13% Similarity=-0.126 Sum_probs=32.6
Q ss_pred Ccchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEec
Q 033178 2 PDMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLF 46 (125)
Q Consensus 2 ~~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~ 46 (125)
.-+++|+|+ +|||..||.|+|+.| |.+ -.+|.|++.+.
T Consensus 34 a~isGKmR~~rIrIl~GD~V~VE~s----pYD---ltkGRIiyR~~ 72 (87)
T PRK12442 34 AYASGRMRKHRIRILAGDRVTLELS----PYD---LTKGRINFRHK 72 (87)
T ss_pred EEeccceeeeeEEecCCCEEEEEEC----ccc---CCceeEEEEec
Confidence 357899998 999999999999966 443 57899999997
No 15
>CHL00010 infA translation initiation factor 1
Probab=97.46 E-value=0.00012 Score=50.03 Aligned_cols=38 Identities=13% Similarity=-0.085 Sum_probs=31.2
Q ss_pred cchhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEech
Q 033178 3 DMLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFY 47 (125)
Q Consensus 3 ~mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~ 47 (125)
.+++|||+ ++||..||+|.|++| +. +.-+|.|+|.|..
T Consensus 35 ~~rGklr~~~i~~~vGD~V~ve~~----~~---~~~~g~Ii~r~~~ 73 (78)
T CHL00010 35 YISGKIRRNSIRILPGDRVKVELS----PY---DLTKGRIIYRLRN 73 (78)
T ss_pred EeccceecCCcccCCCCEEEEEEc----cc---CCCeEEEEEEecC
Confidence 57899997 699999999999944 23 3567999999875
No 16
>PRK00276 infA translation initiation factor IF-1; Validated
Probab=97.39 E-value=0.00018 Score=48.23 Aligned_cols=36 Identities=14% Similarity=-0.020 Sum_probs=29.3
Q ss_pred cchhhcc-ceEeeeeCCEEEEecCCcccccccCCceeEEEEEEe
Q 033178 3 DMLENDI-KLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVL 45 (125)
Q Consensus 3 ~mp~KfR-K~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il 45 (125)
.+++||| +.+|+..||+|+|+.| +. +.-+|.|++.|
T Consensus 35 ~~~Gklr~~~i~i~vGD~V~ve~~----~~---~~~~g~Iv~r~ 71 (72)
T PRK00276 35 HISGKMRKNYIRILPGDKVTVELS----PY---DLTKGRITYRH 71 (72)
T ss_pred EEccceeeCCcccCCCCEEEEEEc----cc---CCCeEEEEEEe
Confidence 5789999 4899999999999944 22 35579999987
No 17
>cd04451 S1_IF1 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of th
Probab=95.70 E-value=0.01 Score=38.34 Aligned_cols=35 Identities=11% Similarity=-0.041 Sum_probs=25.8
Q ss_pred cchhhcc-ceEeeeeCCEEEEecCCcccccccCCceeEEEEEE
Q 033178 3 DMLENDI-KLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKV 44 (125)
Q Consensus 3 ~mp~KfR-K~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~i 44 (125)
.+++||| +++|+..||+|+++.+ +.. .-+|.|+|.
T Consensus 29 ~~rGklr~~~~~~~vGD~V~~~~~----~~~---~~~g~I~~~ 64 (64)
T cd04451 29 HISGKMRMNYIRILPGDRVKVELS----PYD---LTKGRIVYR 64 (64)
T ss_pred EECceeecCCcccCCCCEEEEEEe----ecC---CCEEEEEEC
Confidence 4788998 4899999999999933 112 335888873
No 18
>cd04466 S1_YloQ_GTPase S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of three domains: an N-terminal S1 domain, a central GTPase domain, and a C-terminal zinc finger domain. This N-terminal S1 domain binds ssRNA. The central GTPase domain contains nucleotide-binding signature motifs: G1 (walker A), G3 (walker B) and G4 motifs. Experiments show that the bacterial YloQ and YjeQ proteins have low intrinsic GTPase activity. The C-terminal zinc-finger domain has structural similarity to a portion of the DNA-repair protein Rad51. This suggests a possible role for this GTPase as a regulator of translation, perhaps as a translation initiation factor. This family is classified based on the N-terminal S1 domain.
Probab=86.77 E-value=0.79 Score=28.92 Aligned_cols=35 Identities=14% Similarity=0.031 Sum_probs=23.8
Q ss_pred chhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEech
Q 033178 4 MLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFY 47 (125)
Q Consensus 4 mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~ 47 (125)
++++|++ ..++-.||+|+++ +... -.+.|+.||-.
T Consensus 27 ~~~~~~~~~~~~~VGD~V~~~------~~~~---~~~~I~~vl~R 62 (68)
T cd04466 27 LRGKFRKDKNPPAVGDRVEFE------PEDD---GEGVIEEILPR 62 (68)
T ss_pred EccccccCCCCCCCCcEEEEE------ECCC---CcEEEEEEecc
Confidence 4667663 5788999999998 3221 24678788743
No 19
>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=83.80 E-value=2.3 Score=31.43 Aligned_cols=49 Identities=16% Similarity=-0.018 Sum_probs=34.1
Q ss_pred ccceEeeeeCCEEEEecCCccccc-------ccC--CceeEEEEEEechhHHHHHHHCC
Q 033178 8 DIKLVFNCAGSFVVVDESGKEKAI-------KDG--SKVACIVTKVLFYEQVRALQKST 57 (125)
Q Consensus 8 fRK~iWIKrGd~VlV~~~g~~~p~-------~e~--~KVkgeIv~il~~dqiK~Lrk~g 57 (125)
.|+.+.||.||+|+|.+.+ .+++ .++ +.....+.+-++++++..+++..
T Consensus 2 ~r~~~~i~vGD~V~v~~~~-~~~~va~Ie~i~ed~~g~~~v~v~WF~~p~E~~~~~~~~ 59 (130)
T cd04721 2 CRNGVTISVHDFVYVLSEE-EDRYVAYIEDLYEDKKGSKMVKVRWFHTTDEVGAALSPD 59 (130)
T ss_pred ccCCEEEECCCEEEEeCCC-CCcEEEEEEEEEEcCCCCEEEEEEEecCHHHhccccCCC
Confidence 4889999999999998543 1111 122 34567788888899988865544
No 20
>PF11776 DUF3315: Domain of unknown function (DUF3315); InterPro: IPR024572 This is a bacterial family of uncharacterised proteins, which include YohN from Escherichia coli K12.; PDB: 2L1S_A.
Probab=75.11 E-value=2.7 Score=26.59 Aligned_cols=13 Identities=23% Similarity=0.455 Sum_probs=9.4
Q ss_pred eEeeeeCC-EEEEe
Q 033178 11 LVFNCAGS-FVVVD 23 (125)
Q Consensus 11 ~iWIKrGd-~VlV~ 23 (125)
-=|++.|+ ||||+
T Consensus 30 ~~Wvrv~~dyvLv~ 43 (52)
T PF11776_consen 30 YHWVRVGGDYVLVA 43 (52)
T ss_dssp EEEEE-SSEEEEEE
T ss_pred CEeEEECCeEEEEE
Confidence 34888765 99999
No 21
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=72.73 E-value=6.5 Score=27.21 Aligned_cols=36 Identities=14% Similarity=-0.052 Sum_probs=20.5
Q ss_pred EeeeeCCEEEEecCCcccccccCCceeEEEEEEech
Q 033178 12 VFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFY 47 (125)
Q Consensus 12 iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~ 47 (125)
+-+|.||||||........-..++==-|.|+++---
T Consensus 4 L~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi~~~gg 39 (75)
T PF11302_consen 4 LSVKPGDTVIVQDEQEVGQKQDKDWWMGQVIHCEGG 39 (75)
T ss_pred cccCCCCEEEEecCccccccCCCCcEEEEEEEEecc
Confidence 358999999999442100011112245888877654
No 22
>PRK12281 rplX 50S ribosomal protein L24; Reviewed
Probab=71.17 E-value=5.7 Score=27.08 Aligned_cols=30 Identities=27% Similarity=0.164 Sum_probs=21.0
Q ss_pred eeeeCCEEEEecCCcccccccCCceeEEEEEEechhH
Q 033178 13 FNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQ 49 (125)
Q Consensus 13 WIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dq 49 (125)
=|++||-|.|=. |+++ + -.|.|..|+.+.+
T Consensus 6 ~I~kGD~V~Vi~-G~dK-----G-K~G~V~~V~~~~~ 35 (76)
T PRK12281 6 KVKKGDMVKVIA-GDDK-----G-KTGKVLAVLPKKN 35 (76)
T ss_pred cccCCCEEEEeE-cCCC-----C-cEEEEEEEEcCCC
Confidence 489999999882 2222 2 3499999988663
No 23
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=67.04 E-value=9.6 Score=27.06 Aligned_cols=51 Identities=14% Similarity=0.019 Sum_probs=34.6
Q ss_pred EeeeeCCEEEEecCCc-cccc--------c-cCCceeEEEEEEechhHHHHHHHCCCCchh
Q 033178 12 VFNCAGSFVVVDESGK-EKAI--------K-DGSKVACIVTKVLFYEQVRALQKSTEWPEI 62 (125)
Q Consensus 12 iWIKrGd~VlV~~~g~-~~p~--------~-e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~ 62 (125)
+.++.||+|+|...++ .++. . .++.....+.+-|+++++.+.+..-.+|.+
T Consensus 2 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~~~~Wf~rP~et~~~~~~~~~~~E 62 (121)
T cd04717 2 LQYRVGDCVYVANPEDPSKPIIFRIERLWKDEDGEKFFFGCWFYRPEETFHEPTRKFYKNE 62 (121)
T ss_pred CEEECCCEEEEeCCCCCCCCEEEEEeEEEECCCCCEEEEEEEEeChHHccCCCccccccCc
Confidence 4689999999985432 1111 1 124566788888999998776666666666
No 24
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=66.06 E-value=10 Score=27.36 Aligned_cols=49 Identities=12% Similarity=0.082 Sum_probs=33.5
Q ss_pred eeeCCEEEEecCCc-cccc--------c-cCCceeEEEEEEechhHHHHHHHCCCCchh
Q 033178 14 NCAGSFVVVDESGK-EKAI--------K-DGSKVACIVTKVLFYEQVRALQKSTEWPEI 62 (125)
Q Consensus 14 IKrGd~VlV~~~g~-~~p~--------~-e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~ 62 (125)
++.||+|+|...+. .+|+ + .++.....+.+-|.++++...++....|.+
T Consensus 4 ~~vGD~V~v~~~~~~~~pyIgrI~~i~e~~~g~~~~~v~WfyrPeEt~~~~~~~~~~~E 62 (121)
T cd04714 4 IRVGDCVLFKSPGRPSLPYVARIESLWEDPEGNMVVRVKWYYRPEETKGGRKPNHGEKE 62 (121)
T ss_pred EEcCCEEEEeCCCCCCCCEEEEEEEEEEcCCCCEEEEEEEEEcHHHccCcccccCCCCc
Confidence 68899999996543 2222 1 224568888999999998776665555555
No 25
>PF01455 HupF_HypC: HupF/HypC family; InterPro: IPR001109 The large subunit of [NiFe]-hydrogenase, as well as other nickel metalloenzymes, is synthesised as a precursor devoid of the metalloenzyme active site. This precursor then undergoes a complex post-translational maturation process that requires a number of accessory proteins. The hydrogenase expression/formation proteins (HupF/HypC) form a family of small proteins that are hydrogenase precursor-specific chaperones required for this maturation process []. They are believed to keep the hydrogenase precursor in a conformation accessible for metal incorporation [, ].; PDB: 3D3R_A 2Z1C_C 2OT2_A.
Probab=65.31 E-value=8.5 Score=25.60 Aligned_cols=26 Identities=19% Similarity=0.217 Sum_probs=16.6
Q ss_pred eeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHH
Q 033178 14 NCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRAL 53 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~L 53 (125)
++.||||||. .|-...++.+++.+..
T Consensus 38 v~~Gd~VLVH--------------aG~Ai~~ideeeA~e~ 63 (68)
T PF01455_consen 38 VKVGDYVLVH--------------AGFAIEKIDEEEAEET 63 (68)
T ss_dssp B-TT-EEEEE--------------TTEEEEEE-HHHHHHH
T ss_pred CCCCCEEEEe--------------cChhheeCCHHHHHHH
Confidence 6789999999 1356777887776654
No 26
>PF09378 HAS-barrel: HAS barrel domain; InterPro: IPR018538 The HAS barrel is named after HerA-ATP Synthase. In ATP synthases, this domain is implicated in the assembly of the catalytic toroid and docking of accessory subunits, such as the subunit of the ATP synthase complex. Similar roles in docking of the functional partner, the NurA nuclease, and assembly of the HerA toroid complex appear likely for the HAS-barrel of the HerA family []. ; PDB: 3OAA_I.
Probab=63.39 E-value=9 Score=25.21 Aligned_cols=27 Identities=33% Similarity=0.460 Sum_probs=19.8
Q ss_pred eeeCCEEEEecCCcccccccCCceeEEEEEEech
Q 033178 14 NCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFY 47 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~ 47 (125)
++.|+||.+. ...+.+|-|.|..|.+.
T Consensus 23 v~~GeyV~i~-------~~~~~~vlG~V~~i~~~ 49 (91)
T PF09378_consen 23 VRVGEYVVIE-------YDDGEKVLGMVTSISRG 49 (91)
T ss_dssp -BTTEEEEES-----------TTEEEEEEEEES-
T ss_pred CCcCeEEEEE-------EechhhhhhhhheeEEc
Confidence 6899999998 33578999999999985
No 27
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated
Probab=60.76 E-value=13 Score=27.76 Aligned_cols=39 Identities=18% Similarity=-0.022 Sum_probs=25.9
Q ss_pred chhhcc-ceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhH
Q 033178 4 MLENDI-KLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQ 49 (125)
Q Consensus 4 mp~KfR-K~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dq 49 (125)
|..++- +++=|++||.|.|-. | . ....+|.|+.|+...+
T Consensus 35 Lr~~y~ir~~~IkkGD~V~Vis-G-----~-~KGk~GkV~~V~~~~~ 74 (120)
T PRK01191 35 LREKYGIRSLPVRKGDTVKVMR-G-----D-FKGEEGKVVEVDLKRG 74 (120)
T ss_pred HHHHhCCccceEeCCCEEEEee-c-----C-CCCceEEEEEEEcCCC
Confidence 444444 445699999999982 2 1 1235599999987764
No 28
>TIGR00074 hypC_hupF hydrogenase assembly chaperone HypC/HupF. An additional proposed function is to shuttle the iron atom that has been liganded at the HypC/HypD complex to the precursor of the large hydrogenase (HycE) subunit. PubMed:12441107.
Probab=59.20 E-value=5.9 Score=27.10 Aligned_cols=10 Identities=30% Similarity=0.544 Sum_probs=8.3
Q ss_pred eeeCCEEEEe
Q 033178 14 NCAGSFVVVD 23 (125)
Q Consensus 14 IKrGd~VlV~ 23 (125)
++.||||||.
T Consensus 36 ~~vGD~VLVH 45 (76)
T TIGR00074 36 VKVGDYVLVH 45 (76)
T ss_pred CCCCCEEEEe
Confidence 5788888888
No 29
>cd04713 BAH_plant_3 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=59.06 E-value=19 Score=26.88 Aligned_cols=47 Identities=13% Similarity=0.099 Sum_probs=32.1
Q ss_pred EeeeeCCEEEEecCCcccc-------ccc--CCceeEEEEEEechhHHHHHHHCCCC
Q 033178 12 VFNCAGSFVVVDESGKEKA-------IKD--GSKVACIVTKVLFYEQVRALQKSTEW 59 (125)
Q Consensus 12 iWIKrGd~VlV~~~g~~~p-------~~e--~~KVkgeIv~il~~dqiK~Lrk~g~W 59 (125)
+=++.||+|+|.+.+..+| +.+ .+.....|.+-|++++|...+. +.|
T Consensus 19 ~~y~vgD~Vlv~~~~~~~pyI~~I~~i~~~~~~~~~v~V~WFyRpeEi~~~~~-~~~ 74 (146)
T cd04713 19 NKYRLEDCVLLVPEDDQKPYIAIIKDIYKQEEGSLKLEVQWLYRPEEIEKKKG-GNW 74 (146)
T ss_pred EEEECCCEEEEeCCCCCCCEEEEEEEEEEcCCCCEEEEEEeeECHHHhccccc-ccc
Confidence 4489999999986543333 212 2467888899999999876443 455
No 30
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=58.61 E-value=18 Score=26.28 Aligned_cols=39 Identities=15% Similarity=0.275 Sum_probs=31.9
Q ss_pred EeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHC
Q 033178 12 VFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKS 56 (125)
Q Consensus 12 iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~ 56 (125)
-=||.||.++.. -+..+.++..+|+.|-.-+.-++|-++
T Consensus 30 ~~ikvGD~I~f~------~~~~~~~l~v~V~~i~~Y~sF~~ll~~ 68 (109)
T cd06555 30 QQIKVGDKILFN------DLDTGQQLLVKVVDIRKYDSFRELLEE 68 (109)
T ss_pred hcCCCCCEEEEE------EcCCCcEEEEEEEEEEecCCHHHHHHh
Confidence 347999999998 344477899999999988888888776
No 31
>PTZ00194 60S ribosomal protein L26; Provisional
Probab=57.82 E-value=15 Score=28.22 Aligned_cols=38 Identities=16% Similarity=-0.021 Sum_probs=25.3
Q ss_pred chhhcc-ceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechh
Q 033178 4 MLENDI-KLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYE 48 (125)
Q Consensus 4 mp~KfR-K~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~d 48 (125)
|+.++- +.+=|++||-|+|-. |. + ....|.|+.|+...
T Consensus 36 Lr~k~~~Rs~~IkkGD~V~Vi~-Gk-----~-KGk~GkV~~V~~k~ 74 (143)
T PTZ00194 36 LRAKYNVRSMPVRKDDEVMVVR-GH-----H-KGREGKVTAVYRKK 74 (143)
T ss_pred HHHHhCCccceeecCCEEEEec-CC-----C-CCCceEEEEEEcCC
Confidence 455544 455699999999982 22 1 13449999998765
No 32
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic. This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by the related TIGR01079.
Probab=55.94 E-value=18 Score=26.53 Aligned_cols=38 Identities=18% Similarity=0.030 Sum_probs=26.0
Q ss_pred chhhc-cceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechh
Q 033178 4 MLEND-IKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYE 48 (125)
Q Consensus 4 mp~Kf-RK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~d 48 (125)
|..+| -+.+=|++||-|.|-. |. .....|.|+.|+...
T Consensus 31 lr~~y~~r~~~IkkGD~V~Vi~-Gk------~KGk~GkV~~V~~~~ 69 (114)
T TIGR01080 31 LREKYGKRALPVRKGDKVRIMR-GD------FKGHEGKVSKVDLKR 69 (114)
T ss_pred HHHHcCcccceeecCCEEEEec-CC------CCCCEEEEEEEEcCC
Confidence 34445 4566799999999982 21 224669999998654
No 33
>PRK00004 rplX 50S ribosomal protein L24; Reviewed
Probab=54.91 E-value=16 Score=26.14 Aligned_cols=30 Identities=30% Similarity=0.174 Sum_probs=20.8
Q ss_pred eeeeCCEEEEecCCcccccccCCceeEEEEEEechhH
Q 033178 13 FNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQ 49 (125)
Q Consensus 13 WIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dq 49 (125)
=|++||.|.|-. |++ ..-.|.|..|+...+
T Consensus 4 ~i~kGD~V~Vi~-G~d------KGk~G~V~~V~~~~~ 33 (105)
T PRK00004 4 KIKKGDTVIVIA-GKD------KGKRGKVLKVLPKKN 33 (105)
T ss_pred cccCCCEEEEeE-cCC------CCcEEEEEEEEcCCC
Confidence 488999999883 221 234599999987653
No 34
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=54.62 E-value=21 Score=24.39 Aligned_cols=32 Identities=22% Similarity=0.356 Sum_probs=21.7
Q ss_pred eeCCEEEEecCCcccccccCCceeEEEEEEechh
Q 033178 15 CAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYE 48 (125)
Q Consensus 15 KrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~d 48 (125)
+.||+++..++...+ . -|..+.++|++|+.-.
T Consensus 30 ~VGD~L~L~E~~~~~-Y-TGr~~~~~Ityi~~~~ 61 (72)
T PF12961_consen 30 QVGDILVLREWDNGE-Y-TGREIEAEITYITDYE 61 (72)
T ss_pred CCCCEEEEEEecCCC-c-cccEEEEEEEEEeecC
Confidence 357788888663211 1 2678999999998733
No 35
>cd04719 BAH_Orc1p_animal BAH, or Bromo Adjacent Homology domain, as present in animal homologs of Saccharomyces cerevisiae Orc1p. Orc1 is part of the Yeast Sir1-origin recognition complex. The Orc1p BAH doman functions in epigenetic silencing. In vertebrates, a similar ORC protein complex exists, which has been shown essential for DNA replication in Xenopus laevis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=54.10 E-value=12 Score=27.87 Aligned_cols=50 Identities=16% Similarity=0.169 Sum_probs=29.4
Q ss_pred EeeeeCCEEEEecCCcccc-------ccc-C----CceeEEEEEEechhHHHHHH--HCCCCch
Q 033178 12 VFNCAGSFVVVDESGKEKA-------IKD-G----SKVACIVTKVLFYEQVRALQ--KSTEWPE 61 (125)
Q Consensus 12 iWIKrGd~VlV~~~g~~~p-------~~e-~----~KVkgeIv~il~~dqiK~Lr--k~g~WP~ 61 (125)
|=|+.||||||...+...+ +-+ + ...++.|-+-+++.+|...+ ..|.||.
T Consensus 2 ~~i~vGd~VlI~~~d~~~~yVAkI~~i~e~~~~~~~~~~~~VqWy~R~~Ev~~~~~~~~~~~~~ 65 (128)
T cd04719 2 LTIEVGDFVLIEGEDADGPDVARILHLYEDGNEDDDPKRAIVQWFSRPSEVPKNKRKLLGREPH 65 (128)
T ss_pred eEEecCCEEEEECCCCCCCcEeeehhhhccccCCcccceEEEEcccChHHccccchhhccCCCC
Confidence 3489999999995431101 111 2 13567777778888774433 3356773
No 36
>PRK04081 hypothetical protein; Provisional
Probab=53.91 E-value=20 Score=29.10 Aligned_cols=44 Identities=30% Similarity=0.510 Sum_probs=27.9
Q ss_pred eeCCEEEEecC--CcccccccC--CceeEEE------EEEechhHHHHHHHCCC
Q 033178 15 CAGSFVVVDES--GKEKAIKDG--SKVACIV------TKVLFYEQVRALQKSTE 58 (125)
Q Consensus 15 KrGd~VlV~~~--g~~~p~~e~--~KVkgeI------v~il~~dqiK~Lrk~g~ 58 (125)
|.|-||+|++. |.+|-+++. .+.+..| .+||++++|+.|.++..
T Consensus 46 kqGafviIeE~a~G~YKI~eE~Ps~~Trvilr~~dG~ER~LS~eE~dkLi~eE~ 99 (207)
T PRK04081 46 QQGAFVIIEEQADGSYKILEEYPSSETRVVLRDLDGTERVLSQEEIDKLIKEEE 99 (207)
T ss_pred hcCcEEEEEecCCCceEeeeecCCCcceEEEecCCCcccccCHHHHHHHHHHHH
Confidence 56778888843 555544432 2333333 35899999999998753
No 37
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=53.40 E-value=6.4 Score=22.58 Aligned_cols=21 Identities=10% Similarity=-0.211 Sum_probs=19.5
Q ss_pred cchhhccceEeeeeCCEEEEe
Q 033178 3 DMLENDIKLVFNCAGSFVVVD 23 (125)
Q Consensus 3 ~mp~KfRK~iWIKrGd~VlV~ 23 (125)
.||.+||+.+=++.|+.|.+.
T Consensus 10 ~iP~~~r~~l~~~~gd~~~i~ 30 (43)
T TIGR01439 10 VIPKEIREKLGLKEGDRLEVI 30 (43)
T ss_pred EecHHHHHHcCcCCCCEEEEE
Confidence 489999999999999999988
No 38
>smart00357 CSP Cold shock protein domain. RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.
Probab=52.99 E-value=22 Score=21.23 Aligned_cols=28 Identities=18% Similarity=0.039 Sum_probs=14.7
Q ss_pred eeeCCEEEEecCCcccccccCCceeEEEEEEe
Q 033178 14 NCAGSFVVVDESGKEKAIKDGSKVACIVTKVL 45 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il 45 (125)
++.||.|+|... ......+-.|.|+.||
T Consensus 37 ~~~Gd~V~~~i~----~~~~~~~~~a~~v~~~ 64 (64)
T smart00357 37 LREGDEVEFKVV----SPRGGGKPEAENVVKL 64 (64)
T ss_pred CCCCCEEEEEEE----EccCCCCcEEEEEEeC
Confidence 345777777721 0112234567777664
No 39
>PRK10413 hydrogenase 2 accessory protein HypG; Provisional
Probab=52.10 E-value=11 Score=26.16 Aligned_cols=10 Identities=30% Similarity=0.630 Sum_probs=8.8
Q ss_pred eeeCCEEEEe
Q 033178 14 NCAGSFVVVD 23 (125)
Q Consensus 14 IKrGd~VlV~ 23 (125)
++.||||||.
T Consensus 43 ~~vGDyVLVH 52 (82)
T PRK10413 43 DLLGQWVLVH 52 (82)
T ss_pred cccCCEEEEe
Confidence 5789999999
No 40
>TIGR01079 rplX_bact ribosomal protein L24, bacterial/organelle. This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes.
Probab=52.03 E-value=19 Score=25.86 Aligned_cols=29 Identities=31% Similarity=0.150 Sum_probs=20.6
Q ss_pred eeeCCEEEEecCCcccccccCCceeEEEEEEechhH
Q 033178 14 NCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQ 49 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dq 49 (125)
|++||-|.|-. |++ ..-.|.|..|+...+
T Consensus 4 ikkGD~V~Vi~-G~d------KGK~G~V~~V~~~~~ 32 (104)
T TIGR01079 4 IKKGDTVKVIS-GKD------KGKRGKVLKVLPKTN 32 (104)
T ss_pred ccCCCEEEEeE-cCC------CCcEEEEEEEEcCCC
Confidence 88999998883 222 234599999988764
No 41
>CHL00141 rpl24 ribosomal protein L24; Validated
Probab=51.52 E-value=21 Score=24.64 Aligned_cols=32 Identities=19% Similarity=0.114 Sum_probs=22.6
Q ss_pred eEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhH
Q 033178 11 LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQ 49 (125)
Q Consensus 11 ~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dq 49 (125)
++=|++||-|.|-. |+++ .-.|.|..|+...+
T Consensus 6 ~~~I~~GD~V~Vi~-G~dK------GK~G~V~~V~~~~~ 37 (83)
T CHL00141 6 KMHVKIGDTVKIIS-GSDK------GKIGEVLKIIKKSN 37 (83)
T ss_pred eCcccCCCEEEEeE-cCCC------CcEEEEEEEEcCCC
Confidence 45789999999883 2222 24599999988763
No 42
>COG0298 HypC Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=51.40 E-value=26 Score=24.67 Aligned_cols=25 Identities=16% Similarity=0.228 Sum_probs=17.1
Q ss_pred eeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHH
Q 033178 14 NCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRA 52 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~ 52 (125)
+|.||||||. .|--..++..+..|.
T Consensus 39 v~~GdyVLVH--------------vGfAi~~idEeeAke 63 (82)
T COG0298 39 VKVGDYVLVH--------------VGFAMSKIDEEEAKE 63 (82)
T ss_pred cccCCEEEEE--------------eeEEEeecCHHHHHH
Confidence 5789999998 244456777775544
No 43
>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification. ; InterPro: IPR019759 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....
Probab=46.88 E-value=8.3 Score=23.96 Aligned_cols=16 Identities=31% Similarity=0.349 Sum_probs=11.7
Q ss_pred cchhhccceEeeeeCCEEEEec
Q 033178 3 DMLENDIKLVFNCAGSFVVVDE 24 (125)
Q Consensus 3 ~mp~KfRK~iWIKrGd~VlV~~ 24 (125)
||.+.|+ .||+|+|++
T Consensus 6 SM~P~i~------~Gd~v~v~~ 21 (70)
T PF00717_consen 6 SMEPTIK------DGDIVLVDP 21 (70)
T ss_dssp TTGGTSS------TTEEEEEEE
T ss_pred CcccCee------CCCEEEEEE
Confidence 6666655 789999884
No 44
>KOG2107 consensus Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=46.72 E-value=15 Score=29.19 Aligned_cols=13 Identities=23% Similarity=0.488 Sum_probs=11.8
Q ss_pred eEeeeeCCEEEEe
Q 033178 11 LVFNCAGSFVVVD 23 (125)
Q Consensus 11 ~iWIKrGd~VlV~ 23 (125)
+||+++||+||+-
T Consensus 117 Ri~vekGDlivlP 129 (179)
T KOG2107|consen 117 RIFVEKGDLIVLP 129 (179)
T ss_pred EEEEecCCEEEec
Confidence 6999999999987
No 45
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=46.21 E-value=18 Score=22.82 Aligned_cols=25 Identities=24% Similarity=0.255 Sum_probs=14.3
Q ss_pred eCCEEEEecCCcccccccCCceeEEEEEE
Q 033178 16 AGSFVVVDESGKEKAIKDGSKVACIVTKV 44 (125)
Q Consensus 16 rGd~VlV~~~g~~~p~~e~~KVkgeIv~i 44 (125)
-||.|+|... +...+.+-.|+|+.|
T Consensus 34 ~gD~V~v~i~----~~~~~~~~eg~vv~V 58 (58)
T PF08206_consen 34 DGDKVLVRIT----PPSRGKRPEGEVVEV 58 (58)
T ss_dssp TT-EEEEEEE----ESSSEEEEEEEEEE-
T ss_pred CCCEEEEEEe----cCCCCCCCCEEEEeC
Confidence 4888888732 212345677888775
No 46
>COG2932 Predicted transcriptional regulator [Transcription]
Probab=46.01 E-value=18 Score=27.86 Aligned_cols=32 Identities=16% Similarity=-0.057 Sum_probs=20.9
Q ss_pred cchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechh
Q 033178 3 DMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYE 48 (125)
Q Consensus 3 ~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~d 48 (125)
||.++|+ -||+|||+++ . .-.+|.++.+.+..
T Consensus 132 SMeP~~~------~Gd~ilVd~~------~--~~~~gd~v~v~~~g 163 (214)
T COG2932 132 SMEPTYE------DGDTLLVDPG------V--NTRRGDRVYVETDG 163 (214)
T ss_pred ccccccc------CCCEEEECCC------C--ceeeCCEEEEEEeC
Confidence 5666665 7999999943 1 34566666666654
No 47
>COG0198 RplX Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]
Probab=45.53 E-value=30 Score=25.14 Aligned_cols=30 Identities=30% Similarity=0.116 Sum_probs=21.0
Q ss_pred EeeeeCCEEEEecCCcccccccCCceeEEEEEEechh
Q 033178 12 VFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYE 48 (125)
Q Consensus 12 iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~d 48 (125)
+=|++||.|+|-. |. ..--.|.|+.||.+.
T Consensus 3 ~~IrkGD~V~Vi~-Gk------dKGk~GkVl~v~~k~ 32 (104)
T COG0198 3 MKVKKGDTVKVIA-GK------DKGKEGKVLKVLPKK 32 (104)
T ss_pred cceecCCEEEEEe-cC------CCCcceEEEEEecCe
Confidence 4589999999982 21 123568888888764
No 48
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [].; GO: 0003677 DNA binding; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 3SWR_A 3PTA_A 1M4Z_A 1ZBX_A ....
Probab=45.51 E-value=31 Score=23.39 Aligned_cols=12 Identities=33% Similarity=0.451 Sum_probs=10.2
Q ss_pred eeeCCEEEEecC
Q 033178 14 NCAGSFVVVDES 25 (125)
Q Consensus 14 IKrGd~VlV~~~ 25 (125)
++.||+|+|.+.
T Consensus 3 ~~vGD~V~v~~~ 14 (119)
T PF01426_consen 3 YKVGDFVYVKPD 14 (119)
T ss_dssp EETTSEEEEECT
T ss_pred EeCCCEEEEeCC
Confidence 688999999954
No 49
>PF10017 Methyltransf_33: Histidine-specific methyltransferase, SAM-dependent; InterPro: IPR019257 This domain is found in methyltransferases and various hypothetical proteins.
Probab=44.77 E-value=55 Score=23.59 Aligned_cols=27 Identities=19% Similarity=0.238 Sum_probs=24.0
Q ss_pred cccCCceeEEEEEEechhHHHHHHHCC
Q 033178 31 IKDGSKVACIVTKVLFYEQVRALQKST 57 (125)
Q Consensus 31 ~~e~~KVkgeIv~il~~dqiK~Lrk~g 57 (125)
+..|.++.-++.+.|++++++.|-.+.
T Consensus 82 ~~~GE~I~~e~S~Ky~~~~~~~l~~~a 108 (127)
T PF10017_consen 82 FKEGERIHTENSYKYSPEEFEALAEQA 108 (127)
T ss_pred ECCCCEEEEEEeeCcCHHHHHHHHHHC
Confidence 567899999999999999999987764
No 50
>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease. Members of this protein family are apparent proteases encoded adjacent to the genes for a nickel-type superoxide dismutase. This family belongs to the same larger family (see Pfam model pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad.
Probab=44.39 E-value=29 Score=22.89 Aligned_cols=34 Identities=15% Similarity=-0.126 Sum_probs=20.7
Q ss_pred CcchhhccceEeeeeCCEEEEecCCcccccc--cCCceeEEEEEEech
Q 033178 2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIK--DGSKVACIVTKVLFY 47 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~--e~~KVkgeIv~il~~ 47 (125)
.||-+.|+ .||+|||+ ++. ......|+|+-+..+
T Consensus 6 ~SM~P~l~------~GD~vlv~------~~~~~~~~~~~Gdivv~~~~ 41 (90)
T TIGR02754 6 VSMSPTLP------PGDRIIVV------PWLKIFRVPPIGNVVVVRHP 41 (90)
T ss_pred CCccCccC------CCCEEEEE------EccccCCCCCCCeEEEEecC
Confidence 36777664 79999999 322 111224777766654
No 51
>PRK10409 hydrogenase assembly chaperone; Provisional
Probab=39.63 E-value=17 Score=25.78 Aligned_cols=11 Identities=27% Similarity=0.419 Sum_probs=9.7
Q ss_pred eeeeCCEEEEe
Q 033178 13 FNCAGSFVVVD 23 (125)
Q Consensus 13 WIKrGd~VlV~ 23 (125)
.++.||||||.
T Consensus 41 ~~~vGDyVLVH 51 (90)
T PRK10409 41 QPRVGQWVLVH 51 (90)
T ss_pred ccCCCCEEEEe
Confidence 36899999999
No 52
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=38.54 E-value=38 Score=22.95 Aligned_cols=22 Identities=14% Similarity=0.199 Sum_probs=20.0
Q ss_pred eEEEEEEechhHHHHHHHCCCC
Q 033178 38 ACIVTKVLFYEQVRALQKSTEW 59 (125)
Q Consensus 38 kgeIv~il~~dqiK~Lrk~g~W 59 (125)
.|-||++++--++|.|++-|..
T Consensus 2 ~gliVyl~~~k~~r~L~kfG~i 23 (71)
T PF09902_consen 2 QGLIVYLYSLKDARQLRKFGDI 23 (71)
T ss_pred eEEEEEEechHhHHhHhhcccE
Confidence 5899999999999999999964
No 53
>PF09866 DUF2093: Uncharacterized protein conserved in bacteria (DUF2093); InterPro: IPR018661 This family of various hypothetical prokaryotic proteins has no known function.
Probab=38.09 E-value=20 Score=22.37 Aligned_cols=14 Identities=36% Similarity=0.525 Sum_probs=11.0
Q ss_pred eeeCCEEEEecCCc
Q 033178 14 NCAGSFVVVDESGK 27 (125)
Q Consensus 14 IKrGd~VlV~~~g~ 27 (125)
|+.|+||++.-+|.
T Consensus 2 l~pG~~V~CAVTg~ 15 (42)
T PF09866_consen 2 LSPGSFVRCAVTGQ 15 (42)
T ss_pred ccCCCEEEEEeeCC
Confidence 67899999996543
No 54
>cd06529 S24_LexA-like Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The LexA-like proteins contain two-domains: an N-terminal DNA binding domain and a C-terminal domain (CTD) that provides LexA dimerization as well as cleavage activity. They undergo autolysis, cleaving at an Ala-Gly or a Cys-Gly bond, separating the DNA-binding domain from the rest of the
Probab=37.42 E-value=23 Score=22.32 Aligned_cols=27 Identities=19% Similarity=0.089 Sum_probs=16.7
Q ss_pred eeeCCEEEEecCCcccccccCCceeEEEEEEechh
Q 033178 14 NCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYE 48 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~d 48 (125)
|+.||+|+|++.. . -..|+|+-+...+
T Consensus 14 i~~gd~lii~~~~------~--~~~g~i~~~~~~~ 40 (81)
T cd06529 14 IPDGDLVLVDPSD------T--PRDGDIVVARLDG 40 (81)
T ss_pred cCCCCEEEEcCCC------C--CCCCCEEEEEECC
Confidence 6789999999431 1 2345565555544
No 55
>cd06462 Peptidase_S24_S26 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the tr
Probab=36.93 E-value=41 Score=21.04 Aligned_cols=28 Identities=18% Similarity=0.071 Sum_probs=17.4
Q ss_pred eeeCCEEEEecCCcccccccCCceeEEEEEEechh
Q 033178 14 NCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYE 48 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~d 48 (125)
|+.||+|+|++. .. .-..|+|+-+....
T Consensus 14 i~~gd~v~i~~~------~~-~~~~G~iv~~~~~~ 41 (84)
T cd06462 14 IPDGDLVLVDKS------SY-EPKRGDIVVFRLPG 41 (84)
T ss_pred ccCCCEEEEEec------CC-CCcCCEEEEEEcCC
Confidence 678999999943 11 23456666555543
No 56
>cd03703 aeIF5B_II aeIF5B_II: This family represents the domain II of archeal and eukaryotic aeIF5B. aeIF5B is a homologue of prokaryotic Initiation Factor 2 (IF2). Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of joining of 60S subunits. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains of EF1A, eEF1A and aeIF2gamma.
Probab=35.52 E-value=44 Score=24.37 Aligned_cols=35 Identities=17% Similarity=0.205 Sum_probs=26.0
Q ss_pred eeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHC
Q 033178 14 NCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKS 56 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~ 56 (125)
++.||+|+|.. . .+.+.+.|..+|.+.-.++||-.
T Consensus 27 L~~GD~Iv~g~------~--~Gpi~tkVRaLl~~~~~~E~r~~ 61 (110)
T cd03703 27 LREGDTIVVCG------L--NGPIVTKVRALLKPQPLKELRVK 61 (110)
T ss_pred EecCCEEEEcc------C--CCCceEEEeEecCCCCchhhccc
Confidence 68999999982 2 34667788888888777778733
No 57
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.44 E-value=86 Score=23.18 Aligned_cols=34 Identities=18% Similarity=0.326 Sum_probs=25.3
Q ss_pred eeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHC
Q 033178 13 FNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKS 56 (125)
Q Consensus 13 WIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~ 56 (125)
=||+||.++.. |.+++.+|..|-.-+--+++-+.
T Consensus 33 ~ik~GD~IiF~----------~~~l~v~V~~vr~Y~tF~~mlre 66 (111)
T COG4043 33 QIKPGDKIIFN----------GDKLKVEVIDVRVYDTFEEMLRE 66 (111)
T ss_pred CCCCCCEEEEc----------CCeeEEEEEEEeehhHHHHHHHh
Confidence 48999999987 57888888877666666665544
No 58
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=32.57 E-value=84 Score=21.00 Aligned_cols=42 Identities=12% Similarity=-0.013 Sum_probs=24.2
Q ss_pred eeeCCEEEEecCCc---cccc-------cc--CCceeEEEEEEechhHHHHHHH
Q 033178 14 NCAGSFVVVDESGK---EKAI-------KD--GSKVACIVTKVLFYEQVRALQK 55 (125)
Q Consensus 14 IKrGd~VlV~~~g~---~~p~-------~e--~~KVkgeIv~il~~dqiK~Lrk 55 (125)
++.||+|+|.+.+. +.++ .+ .+.....+.+-|+++++....+
T Consensus 4 y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~~~~~~~~~~v~wf~rp~e~~~~~~ 57 (123)
T cd04370 4 YEVGDSVYVEPDDSIKSDPPYIARIEELWEDTNGSKQVKVRWFYRPEETPKGLS 57 (123)
T ss_pred EecCCEEEEecCCcCCCCCCEEEEEeeeeECCCCCEEEEEEEEEchhHhccccc
Confidence 57899999985432 1110 11 1235566666777777765444
No 59
>smart00439 BAH Bromo adjacent homology domain.
Probab=31.41 E-value=83 Score=21.19 Aligned_cols=49 Identities=14% Similarity=0.037 Sum_probs=28.5
Q ss_pred eeeCCEEEEecCCcccc--------ccc--CCc-eeEEEEEEechhHHHHHHHCCCCchh
Q 033178 14 NCAGSFVVVDESGKEKA--------IKD--GSK-VACIVTKVLFYEQVRALQKSTEWPEI 62 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p--------~~e--~~K-VkgeIv~il~~dqiK~Lrk~g~WP~~ 62 (125)
|+.||+|+|......++ +.. ++. +...+.+-+.++++...+..-.-|.+
T Consensus 2 ~~vgd~V~v~~~~~~~~~~i~~I~~i~~~~~~~~~~~~v~Wf~rp~e~~~~~~~~~~~~E 61 (120)
T smart00439 2 IRVGDFVLVEPDDADEPYYIGRIEEIFETKKNSEKMVRVRWFYRPEETVLEKAALFDKNE 61 (120)
T ss_pred cccCCEEEEeCCCCCCCCEEEEEEEEEECCCCCEEEEEEEEEEChhhccccccccCCCcc
Confidence 57899999984421000 101 223 57777777888877765554444444
No 60
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=30.32 E-value=14 Score=22.23 Aligned_cols=21 Identities=10% Similarity=-0.048 Sum_probs=18.5
Q ss_pred cchhhccceEeeeeCCEEEEe
Q 033178 3 DMLENDIKLVFNCAGSFVVVD 23 (125)
Q Consensus 3 ~mp~KfRK~iWIKrGd~VlV~ 23 (125)
.||..||+.+=|+.||.|.+.
T Consensus 10 ~iPk~~~~~l~l~~Gd~v~i~ 30 (47)
T PF04014_consen 10 TIPKEIREKLGLKPGDEVEIE 30 (47)
T ss_dssp EE-HHHHHHTTSSTTTEEEEE
T ss_pred ECCHHHHHHcCCCCCCEEEEE
Confidence 589999999999999999988
No 61
>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF. This protein is found in apparent operons encoding elements of conjugative transfer systems. This family is homologous to a broader family of signal (leader) peptidases such as lepB. This family is present in both Ti-type and I-type conjugative systems.
Probab=30.07 E-value=27 Score=26.73 Aligned_cols=23 Identities=13% Similarity=-0.065 Sum_probs=16.0
Q ss_pred CcchhhccceEe---eeeCCEEEEec
Q 033178 2 PDMLENDIKLVF---NCAGSFVVVDE 24 (125)
Q Consensus 2 ~~mp~KfRK~iW---IKrGd~VlV~~ 24 (125)
+|||.-+-+... ++|||+|++..
T Consensus 32 ~S~P~g~Y~~~~~~~~~rGDiVvf~~ 57 (171)
T TIGR02771 32 KSLPLGLYWTTSSKPVERGDYVVFCP 57 (171)
T ss_pred CCCcceEEEeCCCCCCCCCcEEEEeC
Confidence 567766644222 78999999983
No 62
>PRK12288 GTPase RsgA; Reviewed
Probab=29.89 E-value=56 Score=27.73 Aligned_cols=36 Identities=19% Similarity=0.038 Sum_probs=22.1
Q ss_pred chhhccceEeeeeCCEEEEecCCcccccccCC-ceeEEEEEEechh
Q 033178 4 MLENDIKLVFNCAGSFVVVDESGKEKAIKDGS-KVACIVTKVLFYE 48 (125)
Q Consensus 4 mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~-KVkgeIv~il~~d 48 (125)
+.++|++ +-.||+|+++ +...+. ...|.|+.||-..
T Consensus 66 ~~g~~~~---~~vGD~V~~~------~~~~~~~~~~~~I~~il~R~ 102 (347)
T PRK12288 66 IRRTIRS---LVTGDRVVWR------PGKEALEGVSGVVEAVHPRT 102 (347)
T ss_pred ecccCCC---CCCCcEEEEE------eCCCcccccceEEEEEeccc
Confidence 3455543 6789999998 222111 2347888887765
No 63
>PRK02302 hypothetical protein; Provisional
Probab=29.72 E-value=62 Score=22.97 Aligned_cols=24 Identities=13% Similarity=0.234 Sum_probs=21.5
Q ss_pred ceeEEEEEEechhHHHHHHHCCCC
Q 033178 36 KVACIVTKVLFYEQVRALQKSTEW 59 (125)
Q Consensus 36 KVkgeIv~il~~dqiK~Lrk~g~W 59 (125)
+-.|-||++++--++|.|+|-|..
T Consensus 6 ~R~glIVyl~~~k~~r~LrkfG~I 29 (89)
T PRK02302 6 ERIGLIVYLYYNRDARKLSKYGDI 29 (89)
T ss_pred ceeEEEEEEeecHhHHHHhhcCcE
Confidence 457999999999999999999974
No 64
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=29.14 E-value=89 Score=15.93 Aligned_cols=25 Identities=20% Similarity=-0.029 Sum_probs=15.9
Q ss_pred eeeCCEEEEecCCcccccccCCceeEEEEEEe
Q 033178 14 NCAGSFVVVDESGKEKAIKDGSKVACIVTKVL 45 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il 45 (125)
++.|+.|.|-.. ++ ....|.|+.|-
T Consensus 2 ~~~G~~V~I~~G----~~---~g~~g~i~~i~ 26 (28)
T smart00739 2 FEVGDTVRVIAG----PF---KGKVGKVLEVD 26 (28)
T ss_pred CCCCCEEEEeEC----CC---CCcEEEEEEEc
Confidence 468999988832 22 24567777663
No 65
>PRK02886 hypothetical protein; Provisional
Probab=29.10 E-value=66 Score=22.76 Aligned_cols=24 Identities=17% Similarity=0.098 Sum_probs=21.3
Q ss_pred ceeEEEEEEechhHHHHHHHCCCC
Q 033178 36 KVACIVTKVLFYEQVRALQKSTEW 59 (125)
Q Consensus 36 KVkgeIv~il~~dqiK~Lrk~g~W 59 (125)
.-.|-||++.+--+++.|++-|..
T Consensus 4 ~R~glIVyl~~~k~~r~LrkyG~I 27 (87)
T PRK02886 4 NRQGIIVWLHSLKQAKQLRKFGNV 27 (87)
T ss_pred CeeEEEEEEeecHhHHHHhhcCcE
Confidence 457999999999999999999974
No 66
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=28.03 E-value=43 Score=20.69 Aligned_cols=14 Identities=21% Similarity=0.133 Sum_probs=11.5
Q ss_pred echhHHHHHHHCCC
Q 033178 45 LFYEQVRALQKSTE 58 (125)
Q Consensus 45 l~~dqiK~Lrk~g~ 58 (125)
....|+++|+++|.
T Consensus 16 ~~~~Q~~~L~~~Gi 29 (47)
T PF13986_consen 16 RPSKQIRWLRRNGI 29 (47)
T ss_pred CHHHHHHHHHHCCC
Confidence 45689999999984
No 67
>PF07093 SGT1: SGT1 protein; InterPro: IPR010770 This family consists of several eukaryotic SGT1 proteins. Human SGT1 or hSGT1 is known to suppress GCR2 and is highly expressed in the muscle and heart. The function of this family is unknown although it has been speculated that SGT1 may be functionally analogous to the Gcr2p protein of Saccharomyces cerevisiae which is known to be a regulatory factor of glycolytic gene expression [].
Probab=27.69 E-value=37 Score=30.73 Aligned_cols=19 Identities=21% Similarity=0.288 Sum_probs=13.9
Q ss_pred hhhccceEeeeeCCEEEEe
Q 033178 5 LENDIKLVFNCAGSFVVVD 23 (125)
Q Consensus 5 p~KfRK~iWIKrGd~VlV~ 23 (125)
|....+||||..|-+.||-
T Consensus 116 p~~~~NRvwi~~G~l~iIp 134 (589)
T PF07093_consen 116 PENSENRVWIHNGKLHIIP 134 (589)
T ss_pred CCCcCCCEEEECCEEEEeC
Confidence 4456777888888877776
No 68
>PRK11712 ribonuclease G; Provisional
Probab=27.43 E-value=39 Score=30.38 Aligned_cols=21 Identities=14% Similarity=0.243 Sum_probs=17.7
Q ss_pred hhhccceEeeeeCCEEEEecC
Q 033178 5 LENDIKLVFNCAGSFVVVDES 25 (125)
Q Consensus 5 p~KfRK~iWIKrGd~VlV~~~ 25 (125)
-.=|+++||++-|.|++++++
T Consensus 277 ~~~l~~~V~L~sGg~lvIe~T 297 (489)
T PRK11712 277 QRALERKVELKSGGYLIIDQT 297 (489)
T ss_pred HHHhcCcEEcCCCcEEEEecc
Confidence 345789999999999999954
No 69
>PF06094 AIG2: AIG2-like family; InterPro: IPR009288 AIG2 is an Arabidopsis protein that exhibit RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae pv maculicola strain ES4326 carrying avrRpt2 []. Its structure consists of a five-stranded beta-barrel surrounded by two alpha-helices and a small beta-sheet. A long flexible alpha-helix protrudes from the structure at the C-terminal end. Conserved residues in a hydrophilic cavity, which are able to bind small ligands, may act as an active site in AIG2-like proteins [].; PDB: 1XHS_A 2KL2_A 1VKB_A 3JUD_A 3JUB_A 3JUC_A 2JQV_A 2QIK_A 2G0Q_A 1V30_A.
Probab=27.33 E-value=1.2e+02 Score=20.00 Aligned_cols=40 Identities=13% Similarity=0.091 Sum_probs=23.8
Q ss_pred ceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHC
Q 033178 10 KLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKS 56 (125)
Q Consensus 10 K~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~ 56 (125)
...|++.|.|=.+- +-..++.|.|+|-.| +..+++.|-.-
T Consensus 33 ~~~~~~~~~yP~l~------~~~~~~~V~G~l~~v-~~~~l~~LD~~ 72 (102)
T PF06094_consen 33 GRYLYGGGGYPALV------PGEGSGRVEGELYEV-DDEELARLDEY 72 (102)
T ss_dssp EEEEETTSSCEEEE------SCTTSSEEEEEEEEE--HHHHHHHHHH
T ss_pred eEEEeCCCCCCEEE------EcCCCCEEEEEEEEE-CHHHHHhhHhh
Confidence 45666667766655 222223899995554 77777766543
No 70
>COG4937 Predicted regulatory domain of prephenate dehydrogenase [Translation, ribosomal structure and biogenesis]
Probab=26.12 E-value=1.1e+02 Score=24.01 Aligned_cols=38 Identities=24% Similarity=0.386 Sum_probs=27.9
Q ss_pred CEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCC
Q 033178 18 SFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEW 59 (125)
Q Consensus 18 d~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~W 59 (125)
||+|...+|+.+ -.|.+=.=+++|..++.+.|++..+=
T Consensus 44 dy~iL~kSGk~k----~~Kfki~nvrvlse~ELr~wk~e~L~ 81 (171)
T COG4937 44 DYLILNKSGKGK----EQKFKILNVRVLSEDELRKWKKEHLE 81 (171)
T ss_pred CEEEEeecCCCc----EEEEEEeEEEEccHHHHHHHHHHhhh
Confidence 688886554222 23667777889999999999998763
No 71
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Probab=26.08 E-value=19 Score=30.33 Aligned_cols=42 Identities=24% Similarity=0.301 Sum_probs=28.7
Q ss_pred eEeeeeCCEEEEecCCcccccccCCceeEEEEEEechh-HHHHHHHCC
Q 033178 11 LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYE-QVRALQKST 57 (125)
Q Consensus 11 ~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~d-qiK~Lrk~g 57 (125)
-+|.|-|+++||+|+ ++|...-.|.|+-.++++ +|-+++|.|
T Consensus 197 vt~a~ig~~lvvDPs-----leEe~v~d~~ltit~~~~~~Iv~iqK~g 239 (272)
T COG2123 197 VTFAKIGNVLVVDPS-----LEEELVADGRLTITVNEDGEIVAIQKVG 239 (272)
T ss_pred EEEEEECCEEEeCCC-----cchhhhcCceEEEEECCCCcEEEEEEcC
Confidence 478999999999975 444444555666666665 556666665
No 72
>cd06530 S26_SPase_I The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa
Probab=25.39 E-value=69 Score=20.63 Aligned_cols=11 Identities=27% Similarity=0.486 Sum_probs=8.1
Q ss_pred eeeCCEEEEec
Q 033178 14 NCAGSFVVVDE 24 (125)
Q Consensus 14 IKrGd~VlV~~ 24 (125)
|+.||+|+|.+
T Consensus 14 i~~gd~v~v~~ 24 (85)
T cd06530 14 LQPGDLVLVNK 24 (85)
T ss_pred ccCCCEEEEEE
Confidence 46788888883
No 73
>TIGR00061 L21 ribosomal protein L21. Eubacterial and chloroplast.
Probab=25.35 E-value=1.1e+02 Score=21.93 Aligned_cols=14 Identities=21% Similarity=0.093 Sum_probs=9.5
Q ss_pred ceEeeeeCCEEEEe
Q 033178 10 KLVFNCAGSFVVVD 23 (125)
Q Consensus 10 K~iWIKrGd~VlV~ 23 (125)
|-.||..||++.|+
T Consensus 9 kQykV~~Gd~i~Ve 22 (101)
T TIGR00061 9 KQYKVEEGQTVRIE 22 (101)
T ss_pred EEEEEeCCCEEEEc
Confidence 34577777777776
No 74
>cd05795 Ribosomal_P0_L10e Ribosomal protein L10 family, P0 and L10e subfamily; composed of eukaryotic 60S ribosomal protein P0 and the archaeal P0 homolog, L10e. P0 or L10e forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. The stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WASP-interacting protein (WIP). These eukaryotic and archaeal P0 sequences have an additional C-terminal domain homologous with acidic proteins P1 and P2.
Probab=24.73 E-value=1.1e+02 Score=23.28 Aligned_cols=39 Identities=21% Similarity=0.103 Sum_probs=27.0
Q ss_pred chhhccc-eEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCc
Q 033178 4 MLENDIK-LVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWP 60 (125)
Q Consensus 4 mp~KfRK-~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP 60 (125)
||+|..| .||| ..||+||.+ |. +++++|.+.|++-|.=|
T Consensus 136 iptki~~G~i~i-~~d~~v~k~---------G~--------~v~~~~A~lL~~l~i~P 175 (175)
T cd05795 136 IPTKIEKGKIEI-ISDVVVVKK---------GE--------KVGASEATLLNKLNIKP 175 (175)
T ss_pred CceEEecCEEEE-ecCeEEecC---------CC--------CcCHHHHHHHHHcCCCC
Confidence 5666553 5777 458888882 32 46789999999887644
No 75
>KOG0650 consensus WD40 repeat nucleolar protein Bop1, involved in ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=23.93 E-value=89 Score=29.63 Aligned_cols=21 Identities=5% Similarity=0.153 Sum_probs=18.3
Q ss_pred cchhhccceEeeeeCCEEEEe
Q 033178 3 DMLENDIKLVFNCAGSFVVVD 23 (125)
Q Consensus 3 ~mp~KfRK~iWIKrGd~VlV~ 23 (125)
.+|.++|..-|=++|||+.+-
T Consensus 519 ~~~k~i~~vtWHrkGDYlatV 539 (733)
T KOG0650|consen 519 KHPKSIRQVTWHRKGDYLATV 539 (733)
T ss_pred ecCCccceeeeecCCceEEEe
Confidence 578899999999999987665
No 76
>TIGR00757 RNaseEG ribonuclease, Rne/Rng family. The C-terminal half of RNase E (excluded from the seed alignment for this model) lacks ribonuclease activity but participates in mRNA degradation by organizing the degradosome.
Probab=23.83 E-value=48 Score=29.05 Aligned_cols=20 Identities=20% Similarity=0.521 Sum_probs=17.3
Q ss_pred hhccceEeeeeCCEEEEecC
Q 033178 6 ENDIKLVFNCAGSFVVVDES 25 (125)
Q Consensus 6 ~KfRK~iWIKrGd~VlV~~~ 25 (125)
.-|.++||++-|.|+++++.
T Consensus 266 ~~l~~~V~L~~Gg~lvIe~T 285 (414)
T TIGR00757 266 KATQRKVWLPSGGYIVIDQT 285 (414)
T ss_pred HhcCCcEECCCCeEEEEecC
Confidence 34789999999999999954
No 77
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=23.63 E-value=43 Score=22.82 Aligned_cols=20 Identities=5% Similarity=-0.105 Sum_probs=18.8
Q ss_pred chhhccceEeeeeCCEEEEe
Q 033178 4 MLENDIKLVFNCAGSFVVVD 23 (125)
Q Consensus 4 mp~KfRK~iWIKrGd~VlV~ 23 (125)
+|..+|+++=|+.||.|.+.
T Consensus 18 IPkeiR~~lgi~~Gd~lei~ 37 (89)
T COG2002 18 IPKEIREALGIKEGDVLEII 37 (89)
T ss_pred ecHHHHHHhCCCCCCEEEEE
Confidence 68999999999999999988
No 78
>PRK00098 GTPase RsgA; Reviewed
Probab=23.36 E-value=85 Score=25.63 Aligned_cols=20 Identities=15% Similarity=-0.107 Sum_probs=13.6
Q ss_pred chhhccc-eEeeeeCCEEEEe
Q 033178 4 MLENDIK-LVFNCAGSFVVVD 23 (125)
Q Consensus 4 mp~KfRK-~iWIKrGd~VlV~ 23 (125)
+.++||+ +.-+-.||+|+|+
T Consensus 27 ~~g~~~~~~~~~~vGD~V~~~ 47 (298)
T PRK00098 27 ARGKFRKKTNTPAVGDRVEFS 47 (298)
T ss_pred eccccccCCCCcCCCCEEEEE
Confidence 4566663 3345679999998
No 79
>PHA02891 hypothetical protein; Provisional
Probab=23.20 E-value=15 Score=27.10 Aligned_cols=57 Identities=25% Similarity=0.262 Sum_probs=35.3
Q ss_pred CcchhhccceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHC--CCCchhhhc
Q 033178 2 PDMLENDIKLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKS--TEWPEIFKS 65 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~--g~WP~~F~~ 65 (125)
|||=.||-+.+=++. ++-+|. |+.-++|.-..=.-+|+++||+.+..- ||.|+.-++
T Consensus 18 PSMi~kFi~~ld~e~---~~n~PL----PI~L~Sk~iT~r~IiYS~dHi~gMIqifYGYiPk~IKk 76 (120)
T PHA02891 18 PSMIKKFIELLDIEA---AFNDPL----PIKLGSKMITDKNIIYSEDHIKGMIQIFYGYIPKIIKK 76 (120)
T ss_pred HHHHHHHHHHhcHHH---HhcCCC----ceeeccccccCcceeecHHHHHHHHHHHhhhhhHHHHH
Confidence 677777776654432 122222 333344544334457999999999886 999987543
No 80
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=23.12 E-value=79 Score=25.66 Aligned_cols=36 Identities=17% Similarity=0.117 Sum_probs=22.3
Q ss_pred chhhccce-EeeeeCCEEEEecCCcccccccCCceeEEEEEEechh
Q 033178 4 MLENDIKL-VFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYE 48 (125)
Q Consensus 4 mp~KfRK~-iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~d 48 (125)
+.++||+. .-+-.||+|+++. .. .-.|.|+.||-..
T Consensus 24 ~~g~~~~~~~~~~vGD~V~~~~------~~---~~~~~i~~i~~R~ 60 (287)
T cd01854 24 ARGKLRKKGIKPVVGDWVEVEP------DD---DGEGVIVRVLPRK 60 (287)
T ss_pred eccccccCCCCccCCCEEEEEe------cC---CCcEEEEEEECCC
Confidence 45667642 3377899999983 22 1246777777554
No 81
>PF11871 DUF3391: Domain of unknown function (DUF3391); InterPro: IPR021812 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is typically between 122 to 139 amino acids in length. This domain is found associated with PF01966 from PFAM.
Probab=23.05 E-value=1.8e+02 Score=20.05 Aligned_cols=40 Identities=8% Similarity=-0.046 Sum_probs=24.2
Q ss_pred eeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCC
Q 033178 14 NCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTE 58 (125)
Q Consensus 14 IKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~ 58 (125)
++.|.||.--.. +|.. ...---=-.|.+.++|..|++.|+
T Consensus 10 L~~GM~V~~~~~----~w~~-~pfl~~~f~I~s~~~I~~L~~~gi 49 (128)
T PF11871_consen 10 LKPGMYVSRLDR----SWLE-HPFLFQGFLIKSQADIEKLRRLGI 49 (128)
T ss_pred CCCCcEEEecCC----CccC-CCeeeeceeECCHHHHHHHHHCCC
Confidence 467999875421 2221 111111234678999999999996
No 82
>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]
Probab=22.97 E-value=70 Score=22.80 Aligned_cols=17 Identities=24% Similarity=0.157 Sum_probs=13.3
Q ss_pred CcchhhccceEeeeeCCEEEEec
Q 033178 2 PDMLENDIKLVFNCAGSFVVVDE 24 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~VlV~~ 24 (125)
.||-+-|+ +||+|+|..
T Consensus 39 ~SM~Ptl~------~GD~v~v~k 55 (166)
T COG0681 39 GSMEPTLN------VGDRVLVKK 55 (166)
T ss_pred Cccccccc------cCCEEEEEe
Confidence 36777776 999999993
No 83
>COG0509 GcvH Glycine cleavage system H protein (lipoate-binding) [Amino acid transport and metabolism]
Probab=22.88 E-value=60 Score=24.58 Aligned_cols=40 Identities=10% Similarity=-0.011 Sum_probs=25.0
Q ss_pred cchhhcc---ceEeeee-C-CEEEEecCCcccccccCCceeEEEEEEechh
Q 033178 3 DMLENDI---KLVFNCA-G-SFVVVDESGKEKAIKDGSKVACIVTKVLFYE 48 (125)
Q Consensus 3 ~mp~KfR---K~iWIKr-G-d~VlV~~~g~~~p~~e~~KVkgeIv~il~~d 48 (125)
.||..++ ...|||. | +.+.|.-+ ...+.--|+|++|=.++
T Consensus 4 ~~p~~l~Y~~~heWvr~e~d~~~tvGiT------~~aq~~lGdiv~Velpe 48 (131)
T COG0509 4 NIPDDLKYTAEHEWVRVEGDGTATVGIT------DYAQDQLGDIVFVELPE 48 (131)
T ss_pred cccccceeccceEEEEecCCCEEEEeCC------HHHHHhcCCEEEEEcCC
Confidence 3555544 5789998 4 57777622 23456667777776655
No 84
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=22.80 E-value=34 Score=30.70 Aligned_cols=33 Identities=18% Similarity=0.070 Sum_probs=27.4
Q ss_pred CceeEEEEEEechhHHHHHHHC-----CCCchhhhcCC
Q 033178 35 SKVACIVTKVLFYEQVRALQKS-----TEWPEIFKSTN 67 (125)
Q Consensus 35 ~KVkgeIv~il~~dqiK~Lrk~-----g~WP~~F~~~~ 67 (125)
.=++|+|+.||..-.-.||+-. |+.|..|....
T Consensus 233 sFkaGdIItVLd~s~~~WWKG~~~~~~GlFPsnfVT~~ 270 (462)
T KOG2199|consen 233 SFKAGDIITVLDDSDPNWWKGENHRGIGLFPSNFVTAD 270 (462)
T ss_pred ceecCcEEEEcccCCcchhccccCCcccccchhhhhhh
Confidence 3578999999998888888754 99999997743
No 85
>KOG3381 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.03 E-value=43 Score=26.23 Aligned_cols=20 Identities=10% Similarity=-0.016 Sum_probs=17.4
Q ss_pred CcchhhccceEeeeeCCEEE
Q 033178 2 PDMLENDIKLVFNCAGSFVV 21 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~Vl 21 (125)
-+||.|||=-|.|+.|...-
T Consensus 107 RsLp~rfkvdV~I~~GtH~t 126 (161)
T KOG3381|consen 107 RSLPPRFKVDVYIKPGTHAT 126 (161)
T ss_pred ecCCCceeEEEEEcCCCcCC
Confidence 37999999999999998754
No 86
>PRK08577 hypothetical protein; Provisional
Probab=22.01 E-value=41 Score=24.28 Aligned_cols=20 Identities=10% Similarity=-0.044 Sum_probs=18.4
Q ss_pred chhhccceEeeeeCCEEEEe
Q 033178 4 MLENDIKLVFNCAGSFVVVD 23 (125)
Q Consensus 4 mp~KfRK~iWIKrGd~VlV~ 23 (125)
+|..+|+++=|+.||+|.+-
T Consensus 17 ip~~~r~~l~~~~g~~~~~~ 36 (136)
T PRK08577 17 IPLEIREALGIREGMYVLLI 36 (136)
T ss_pred ecHHHHHHcCcCCCCEEEEE
Confidence 79999999999999999876
No 87
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=21.49 E-value=1.3e+02 Score=25.93 Aligned_cols=15 Identities=7% Similarity=0.062 Sum_probs=12.4
Q ss_pred HHHHHHHCCCCchhh
Q 033178 49 QVRALQKSTEWPEIF 63 (125)
Q Consensus 49 qiK~Lrk~g~WP~~F 63 (125)
+|-...+...||...
T Consensus 258 eiG~~ikd~IIP~AV 272 (337)
T PTZ00007 258 EIGITIRDKLIPYAV 272 (337)
T ss_pred HHHHHHHHhcccccH
Confidence 677888999999873
No 88
>PRK12289 GTPase RsgA; Reviewed
Probab=21.10 E-value=98 Score=26.38 Aligned_cols=10 Identities=30% Similarity=0.451 Sum_probs=9.0
Q ss_pred eeeCCEEEEe
Q 033178 14 NCAGSFVVVD 23 (125)
Q Consensus 14 IKrGd~VlV~ 23 (125)
+-.||+|+++
T Consensus 52 ~~vGD~V~~~ 61 (352)
T PRK12289 52 VMVGDRVIVE 61 (352)
T ss_pred cccCCEEEEe
Confidence 7789999998
No 89
>PHA00428 tail tubular protein A
Probab=20.65 E-value=1.8e+02 Score=23.00 Aligned_cols=43 Identities=21% Similarity=0.364 Sum_probs=32.7
Q ss_pred ceEeeeeCCEEEEecCCcccccccCCceeEEEEEEechhHHHHHHHCCCCchhhh
Q 033178 10 KLVFNCAGSFVVVDESGKEKAIKDGSKVACIVTKVLFYEQVRALQKSTEWPEIFK 64 (125)
Q Consensus 10 K~iWIKrGd~VlV~~~g~~~p~~e~~KVkgeIv~il~~dqiK~Lrk~g~WP~~F~ 64 (125)
+..|+.||.+|+-...+ ....+..|++.|+.-+-.++ +|..|.
T Consensus 86 ~~~yv~rG~~lyd~~~~---t~~f~~pv~~~~v~~~df~~---------~p~~~~ 128 (193)
T PHA00428 86 DSQYVNRGGYVYDRSTG---TDRFGSPVTVRIVLLRPFDE---------MPECFR 128 (193)
T ss_pred cceEEEECCEEEEcCCC---ceecCCCeEEEEEEcCChhH---------CCHHHH
Confidence 45699999999988443 34456788999999997764 788773
No 90
>PF09894 DUF2121: Uncharacterized protein conserved in archaea (DUF2121); InterPro: IPR016754 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. They do show distant similarity to NTPases and to nucleic acid binding enzymes.
Probab=20.62 E-value=1.5e+02 Score=23.89 Aligned_cols=19 Identities=11% Similarity=0.433 Sum_probs=16.2
Q ss_pred ccceEeeeeCCEEEEecCC
Q 033178 8 DIKLVFNCAGSFVVVDESG 26 (125)
Q Consensus 8 fRK~iWIKrGd~VlV~~~g 26 (125)
-|++|+.-.|.|+||+-.|
T Consensus 89 kRRRiY~t~g~~~Ivei~~ 107 (194)
T PF09894_consen 89 KRRRIYATKGKYAIVEIEN 107 (194)
T ss_pred eeeEEEecCCCEEEEEecC
Confidence 4889999999999999443
No 91
>PF10150 RNase_E_G: Ribonuclease E/G family; InterPro: IPR019307 Ribonuclease E and Ribonuclease G are related enzymes that cleave a wide variety of RNAs []. RNA-binding protein AU-1 binds to RNA loop regions that are with AU-rich sequences [].; PDB: 2BX2_L 2VRT_D 2VMK_D 2C4R_L 1SMX_B 1SLJ_A 2C0B_L 1SN8_B.
Probab=20.60 E-value=62 Score=26.50 Aligned_cols=21 Identities=14% Similarity=0.336 Sum_probs=15.0
Q ss_pred hhhccceEeeeeCCEEEEecC
Q 033178 5 LENDIKLVFNCAGSFVVVDES 25 (125)
Q Consensus 5 p~KfRK~iWIKrGd~VlV~~~ 25 (125)
-.-+.++||++-|.|+++++.
T Consensus 154 ~~~~~~~v~l~~Gg~l~Ie~T 174 (271)
T PF10150_consen 154 EKALSRRVWLPSGGYLVIEQT 174 (271)
T ss_dssp HHTTSSEEE-TTS-EEEEEE-
T ss_pred HHHhCCeEEeCCCeEEEEecC
Confidence 345689999999999999943
No 92
>cd04710 BAH_fungalPHD BAH, or Bromo Adjacent Homology domain, as present in fungal proteins containing PHD domains. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=20.49 E-value=1.8e+02 Score=21.51 Aligned_cols=16 Identities=0% Similarity=-0.078 Sum_probs=12.6
Q ss_pred ceEeeeeCCEEEEecC
Q 033178 10 KLVFNCAGSFVVVDES 25 (125)
Q Consensus 10 K~iWIKrGd~VlV~~~ 25 (125)
+..=++.||+|+|.+.
T Consensus 8 ~g~~~~vgD~Vyv~~~ 23 (135)
T cd04710 8 NGELLKVNDHIYMSSE 23 (135)
T ss_pred CCeEEeCCCEEEEecC
Confidence 4456899999999954
No 93
>PRK05943 50S ribosomal protein L25; Reviewed
Probab=20.36 E-value=1.1e+02 Score=20.99 Aligned_cols=27 Identities=19% Similarity=0.250 Sum_probs=20.3
Q ss_pred eeEEEEEEechhHHHHHHHCCCCchhh
Q 033178 37 VACIVTKVLFYEQVRALQKSTEWPEIF 63 (125)
Q Consensus 37 VkgeIv~il~~dqiK~Lrk~g~WP~~F 63 (125)
+.+.......+...|.||++|+.|.-.
T Consensus 4 l~a~~R~~~gk~~~r~lR~~G~vPaVi 30 (94)
T PRK05943 4 INAEVRPEQGKGASRRLRRAGKFPAII 30 (94)
T ss_pred EEEEEeCcCCChHHHHHHHCCCCCEEE
Confidence 345555556677889999999999865
No 94
>PRK08225 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=20.21 E-value=62 Score=20.47 Aligned_cols=42 Identities=31% Similarity=0.188 Sum_probs=24.1
Q ss_pred CcchhhccceEeeeeCCEEEEe------cCCc-ccccccCCceeEEEEEEec
Q 033178 2 PDMLENDIKLVFNCAGSFVVVD------ESGK-EKAIKDGSKVACIVTKVLF 46 (125)
Q Consensus 2 ~~mp~KfRK~iWIKrGd~VlV~------~~g~-~~p~~e~~KVkgeIv~il~ 46 (125)
..||++|.+ ++++.|+.|-.. ++++ .-++ -..+.|.|++++.
T Consensus 6 a~~~G~i~~-~~v~~G~~V~~g~~l~~ve~~k~~~~v--~s~~~G~v~~~~~ 54 (70)
T PRK08225 6 ASMAGNVWK-IVVKVGDTVEEGQDVVILESMKMEIPI--VAEEAGTVKKINV 54 (70)
T ss_pred CCCCEEEEE-EEeCCCCEECCCCEEEEEEcCCCcceE--eCCCCEEEEEEEe
Confidence 357888876 678888876443 1111 1111 1356777777764
Done!