Query 033156
Match_columns 126
No_of_seqs 108 out of 290
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 10:30:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033156.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033156hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1348 Asparaginyl peptidases 100.0 1.5E-39 3.3E-44 279.2 9.6 86 39-126 42-127 (477)
2 KOG1349 Gpi-anchor transamidas 100.0 2.6E-39 5.6E-44 267.4 9.8 87 39-125 25-111 (309)
3 PF01650 Peptidase_C13: Peptid 100.0 1E-37 2.2E-42 252.5 7.1 82 43-126 1-82 (256)
4 COG5206 GPI8 Glycosylphosphati 100.0 5.9E-34 1.3E-38 238.3 9.1 88 38-125 24-111 (382)
5 COG2949 SanA Uncharacterized m 93.0 0.36 7.8E-06 40.0 6.4 47 36-82 51-130 (235)
6 PRK10629 EnvZ/OmpR regulon mod 91.9 0.96 2.1E-05 33.9 7.0 68 2-81 1-70 (127)
7 KOG1017 Predicted uracil phosp 85.0 0.91 2E-05 37.8 3.0 39 62-100 204-245 (267)
8 PF02698 DUF218: DUF218 domain 69.8 5.7 0.00012 28.6 3.1 35 46-82 41-75 (155)
9 PRK10834 vancomycin high tempe 66.3 6 0.00013 32.7 2.9 21 62-82 98-118 (239)
10 PF13721 SecD-TM1: SecD export 66.3 39 0.00085 24.0 6.8 38 41-81 29-66 (101)
11 cd06259 YdcF-like YdcF-like. Y 64.6 5.9 0.00013 28.4 2.3 36 45-82 37-72 (150)
12 PRK12933 secD preprotein trans 63.6 28 0.00061 32.5 6.9 66 5-81 7-73 (604)
13 PF11181 YflT: Heat induced st 62.6 13 0.00028 26.0 3.7 31 57-87 6-36 (103)
14 PRK10494 hypothetical protein; 58.3 9.3 0.0002 31.2 2.6 38 43-82 121-158 (259)
15 cd06183 cyt_b5_reduct_like Cyt 57.2 8.1 0.00018 29.1 2.0 35 42-83 200-234 (234)
16 PF00656 Peptidase_C14: Caspas 52.9 14 0.00031 27.8 2.7 38 43-80 1-41 (248)
17 PF10686 DUF2493: Protein of u 52.1 19 0.00041 24.2 3.0 23 45-67 5-27 (71)
18 PF11121 DUF2639: Protein of u 51.2 8.4 0.00018 24.1 1.0 16 50-76 3-18 (40)
19 KOG1360 5-aminolevulinate synt 50.1 15 0.00033 33.6 2.9 34 58-91 431-468 (570)
20 PF14681 UPRTase: Uracil phosp 50.0 14 0.0003 29.0 2.3 24 61-84 135-158 (207)
21 COG2143 Thioredoxin-related pr 47.3 35 0.00076 27.5 4.2 42 14-55 3-55 (182)
22 PF00691 OmpA: OmpA family; I 43.1 49 0.0011 21.7 3.9 24 64-87 57-80 (97)
23 PRK14125 cell division suppres 41.7 1.2E+02 0.0025 21.8 5.9 19 41-59 34-52 (103)
24 PF11153 DUF2931: Protein of u 41.3 47 0.001 25.9 4.1 32 23-54 9-40 (216)
25 cd06212 monooxygenase_like The 40.9 21 0.00046 27.2 2.1 31 44-82 198-228 (232)
26 KOG1552 Predicted alpha/beta h 40.3 31 0.00066 29.1 3.0 42 60-104 112-161 (258)
27 PTZ00450 macrophage migration 39.8 42 0.00091 24.3 3.4 30 55-86 73-102 (113)
28 PF03032 Brevenin: Brevenin/es 38.7 22 0.00048 22.5 1.5 19 14-32 5-23 (46)
29 PF11337 DUF3139: Protein of u 38.5 61 0.0013 22.0 3.9 45 58-106 33-79 (85)
30 PLN02541 uracil phosphoribosyl 38.2 42 0.0009 27.6 3.5 25 61-85 171-195 (244)
31 TIGR01689 EcbF-BcbF capsule bi 37.6 71 0.0015 23.6 4.3 42 41-82 38-85 (126)
32 KOG3339 Predicted glycosyltran 36.6 2.5E+02 0.0053 23.3 8.1 68 17-90 13-80 (211)
33 TIGR00756 PPR pentatricopeptid 35.5 27 0.00058 17.9 1.4 20 59-78 15-34 (35)
34 PF15240 Pro-rich: Proline-ric 33.3 29 0.00063 27.8 1.8 20 15-34 1-20 (179)
35 PF00233 PDEase_I: 3'5'-cyclic 33.1 32 0.0007 27.4 2.0 22 54-75 1-23 (237)
36 PF00061 Lipocalin: Lipocalin 32.8 36 0.00077 23.3 2.0 22 63-84 120-141 (144)
37 cd01844 SGNH_hydrolase_like_6 32.7 1.9E+02 0.0042 20.9 6.2 45 41-86 57-102 (177)
38 PF12606 RELT: Tumour necrosis 32.1 46 0.001 21.5 2.2 8 56-63 28-35 (50)
39 cd06209 BenDO_FAD_NAD Benzoate 31.7 36 0.00079 25.8 2.0 32 43-82 193-224 (228)
40 cd06215 FNR_iron_sulfur_bindin 31.7 26 0.00056 26.5 1.2 29 45-81 199-227 (231)
41 TIGR01653 lactococcin_972 bact 31.7 56 0.0012 23.5 2.9 26 36-61 28-53 (92)
42 PF04911 ATP-synt_J: ATP synth 31.3 14 0.00031 24.4 -0.2 18 81-98 30-47 (54)
43 COG4669 EscJ Type III secretor 29.9 2.1E+02 0.0046 24.1 6.3 24 59-82 62-85 (246)
44 PF10655 DUF2482: Hypothetical 29.9 54 0.0012 24.2 2.5 24 55-78 74-97 (100)
45 PF13041 PPR_2: PPR repeat fam 29.6 36 0.00078 20.0 1.4 23 57-79 16-38 (50)
46 COG3119 AslA Arylsulfatase A a 29.5 54 0.0012 28.6 3.0 25 65-89 275-299 (475)
47 PF08869 XisI: XisI protein; 29.5 31 0.00068 25.5 1.3 44 38-84 35-97 (111)
48 cd06217 FNR_iron_sulfur_bindin 28.7 29 0.00063 26.2 1.1 29 45-81 203-231 (235)
49 COG0035 Upp Uracil phosphoribo 27.9 71 0.0015 26.1 3.2 23 61-84 138-160 (210)
50 cd06185 PDR_like Phthalate dio 27.5 81 0.0018 23.5 3.3 31 44-82 177-207 (211)
51 PF13812 PPR_3: Pentatricopept 27.2 60 0.0013 16.9 1.9 18 60-77 17-34 (34)
52 PF07859 Abhydrolase_3: alpha/ 27.1 36 0.00078 24.9 1.3 25 59-83 48-76 (211)
53 TIGR02911 sulfite_red_B sulfit 26.2 61 0.0013 25.8 2.5 39 44-90 191-229 (261)
54 KOG1546 Metacaspase involved i 26.0 71 0.0015 28.3 3.0 45 38-87 59-112 (362)
55 COG2859 Uncharacterized protei 25.1 86 0.0019 26.3 3.2 16 68-83 84-99 (237)
56 PTZ00397 macrophage migration 25.1 98 0.0021 21.7 3.2 28 58-87 76-103 (116)
57 PF07804 HipA_C: HipA-like C-t 24.9 83 0.0018 20.6 2.6 17 37-54 56-72 (79)
58 PF12273 RCR: Chitin synthesis 24.4 67 0.0015 23.3 2.3 9 38-46 33-41 (130)
59 cd06221 sulfite_reductase_like 24.2 67 0.0015 25.3 2.4 34 43-84 190-223 (253)
60 PF11823 DUF3343: Protein of u 24.0 73 0.0016 20.8 2.2 24 57-81 8-31 (73)
61 PF01187 MIF: Macrophage migra 23.7 63 0.0014 22.8 2.0 30 55-86 71-100 (114)
62 PF02662 FlpD: Methyl-viologen 23.5 1.9E+02 0.0042 21.0 4.6 40 44-83 54-99 (124)
63 PTZ00319 NADH-cytochrome B5 re 23.2 56 0.0012 26.7 1.8 35 42-83 266-300 (300)
64 COG0657 Aes Esterase/lipase [L 22.9 97 0.0021 24.7 3.1 25 59-83 129-157 (312)
65 PF10717 ODV-E18: Occlusion-de 22.9 1E+02 0.0022 22.1 2.9 7 50-56 59-65 (85)
66 PRK12419 riboflavin synthase s 22.1 3.1E+02 0.0066 21.4 5.6 39 41-83 10-49 (158)
67 cd01826 acyloxyacyl_hydrolase_ 21.9 1.4E+02 0.0031 25.6 4.0 41 56-96 148-194 (305)
68 cd06301 PBP1_rhizopine_binding 21.5 1.3E+02 0.0028 22.5 3.4 28 64-91 196-223 (272)
69 KOG1600 Fatty acid desaturase 21.5 68 0.0015 28.0 2.0 23 38-60 248-270 (321)
70 PRK08221 anaerobic sulfite red 21.3 82 0.0018 25.1 2.4 39 44-90 193-231 (263)
71 PF08579 RPM2: Mitochondrial r 21.2 72 0.0016 24.2 1.9 14 62-75 43-56 (120)
72 PRK10727 DNA-binding transcrip 21.0 1.3E+02 0.0028 23.9 3.4 28 63-90 249-277 (343)
73 PRK02710 plastocyanin; Provisi 20.4 1.8E+02 0.004 20.6 3.8 16 40-55 27-42 (119)
74 PF08541 ACP_syn_III_C: 3-Oxoa 20.2 47 0.001 21.8 0.7 24 59-82 17-40 (90)
75 cd01540 PBP1_arabinose_binding 20.1 1.6E+02 0.0035 22.3 3.7 42 63-104 206-253 (289)
No 1
>KOG1348 consensus Asparaginyl peptidases [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.5e-39 Score=279.18 Aligned_cols=86 Identities=31% Similarity=0.537 Sum_probs=82.4
Q ss_pred cCCCcEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEEEecCccCCCCCCCCCCeEEeCCCCCCCccCCceeec
Q 033156 39 MHTNNWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIILMLADDMACNARNKYPAQVFNNENHKLNLYGDNVEVG 118 (126)
Q Consensus 39 ~~~~nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~~DDia~nprNp~pG~if~~~~~~~nlYg~~v~ID 118 (126)
..+.+||||||||+||||||||||+||+||+||++|||+||||+|||||||+||+||+||+|+|.|+|+ ++| ++|..|
T Consensus 42 dggt~waVLVAGSngyyNYRHQADvcHAYqiLrkgGikeEnIvv~MYDDIA~~~~NPrpG~iiN~P~G~-DvY-~GvpkD 119 (477)
T KOG1348|consen 42 DGGTRWAVLVAGSNGYYNYRHQADVCHAYQILRKGGIKEENIVVMMYDDIANNEENPRPGVIINRPNGK-DVY-QGVPKD 119 (477)
T ss_pred cCceeEEEEEecCCcccchhhhhhHHHHHHHHHhcCCCchhEEEEEehhhhcCCCCCCCceeecCCCch-hhh-cCCCCc
Confidence 346999999999999999999999999999999999999999999999999999999999999999995 999 789999
Q ss_pred ccCCcCCC
Q 033156 119 TVFSRYSA 126 (126)
Q Consensus 119 Y~~~~v~~ 126 (126)
|++++|++
T Consensus 120 Ytg~~Vt~ 127 (477)
T KOG1348|consen 120 YTGEDVTP 127 (477)
T ss_pred ccCCcCCH
Confidence 99999984
No 2
>KOG1349 consensus Gpi-anchor transamidase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.6e-39 Score=267.43 Aligned_cols=87 Identities=72% Similarity=1.194 Sum_probs=85.2
Q ss_pred cCCCcEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEEEecCccCCCCCCCCCCeEEeCCCCCCCccCCceeec
Q 033156 39 MHTNNWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIILMLADDMACNARNKYPAQVFNNENHKLNLYGDNVEVG 118 (126)
Q Consensus 39 ~~~~nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~~DDia~nprNp~pG~if~~~~~~~nlYg~~v~ID 118 (126)
.|++||||||+||||||||||.|||+.+|+.+||+||||+|||+|++||+|||+|||+||+||++.++..|+||++||||
T Consensus 25 ~htnNwAVLv~tSRfwfNYRH~aNvl~~YrsvKrlGipDsqIilmladd~acn~RN~~pg~Vy~n~~~~~nlygd~vevd 104 (309)
T KOG1349|consen 25 GHTNNWAVLVCTSRFWFNYRHVANVLSVYRSVKRLGIPDSQIILMLADDMACNSRNPRPGTVYNNENHALNLYGDDVEVD 104 (309)
T ss_pred hccCceEEEEecchhhhhHHHHHHHHHHHHHHHHcCCCcccEEEEeccccccccCCCCCcceeccccccccccCCcceee
Confidence 39999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCcCC
Q 033156 119 TVFSRYS 125 (126)
Q Consensus 119 Y~~~~v~ 125 (126)
||+..||
T Consensus 105 yrgyevt 111 (309)
T KOG1349|consen 105 YRGYEVT 111 (309)
T ss_pred cccchhH
Confidence 9999886
No 3
>PF01650 Peptidase_C13: Peptidase C13 family; InterPro: IPR001096 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C13 (legumain family, clan CD). A type example is legumain from Canavalia ensiformis (Jack bean, Horse bean). The blood fluke parasite Schistosoma mansoni has two cysteine proteases in its digestive tract, one a cathepsin B-like protease, the other termed hemoglobinase [, ]. The latter has been hard to purify, free of cathepsin B, and expressed forms in Escherichia coli prove to be inactive, suggesting that hemoglobinase may act in association with cathepsin B [, ]. Plant vacuolar processing enzyme and legumain from legumes [] have been shown to have sequence and functional similarity to hemoglobinase. The catalytic residues of the family are currently unknown, but sequence alignments reveal one totally conserved cysteine and two totally conserved histidines.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=100.00 E-value=1e-37 Score=252.47 Aligned_cols=82 Identities=48% Similarity=0.859 Sum_probs=79.1
Q ss_pred cEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEEEecCccCCCCCCCCCCeEEeCCCCCCCccCCceeecccCC
Q 033156 43 NWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIILMLADDMACNARNKYPAQVFNNENHKLNLYGDNVEVGTVFS 122 (126)
Q Consensus 43 nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~~DDia~nprNp~pG~if~~~~~~~nlYg~~v~IDY~~~ 122 (126)
|||||||||++|+|||||||+|++||+||++|+||||||||++||+||||+||+||+||+++++ .|+|.+ ++|||++.
T Consensus 1 ~wAvlvagS~~~~NYRh~ad~~~~Y~~l~~~G~~~~~Iil~~~dd~a~~~~Np~~g~i~~~~~~-~n~y~~-~~iDY~g~ 78 (256)
T PF01650_consen 1 NWAVLVAGSNGWFNYRHQADVCHAYQLLKRNGIPDENIILMMYDDIACNPRNPFPGKIFNDPDG-TNVYKG-VEIDYRGE 78 (256)
T ss_pred CEEEEEeccCCceeeeEehHHHHHHHHHHHcCCCCceEEEEecCCccchhhCCCCceEEeCCCc-ccccCC-cccccccc
Confidence 7999999999999999999999999999999999999999999999999999999999999997 699965 99999999
Q ss_pred cCCC
Q 033156 123 RYSA 126 (126)
Q Consensus 123 ~v~~ 126 (126)
+|++
T Consensus 79 ~v~~ 82 (256)
T PF01650_consen 79 DVTP 82 (256)
T ss_pred ccCH
Confidence 9974
No 4
>COG5206 GPI8 Glycosylphosphatidylinositol transamidase (GPIT), subunit GPI8 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=5.9e-34 Score=238.34 Aligned_cols=88 Identities=57% Similarity=0.986 Sum_probs=85.6
Q ss_pred ccCCCcEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEEEecCccCCCCCCCCCCeEEeCCCCCCCccCCceee
Q 033156 38 TMHTNNWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIILMLADDMACNARNKYPAQVFNNENHKLNLYGDNVEV 117 (126)
Q Consensus 38 ~~~~~nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~~DDia~nprNp~pG~if~~~~~~~nlYg~~v~I 117 (126)
.++++|||||++||||||||||.|||+.+|+.+||+||||++||+|.+||.|||.||-|||.||++.++..++||+++||
T Consensus 24 ~t~tnNwAvLlstSRfwfNYRHmANVl~~Yr~vkrlGipDsQIilm~~dd~acnsRnlfpgsvf~N~Dra~dlyge~~ei 103 (382)
T COG5206 24 RTNTNNWAVLLSTSRFWFNYRHMANVLVFYRVVKRLGIPDSQIILMSYDDQACNSRNLFPGSVFNNSDRAGDLYGEDSEI 103 (382)
T ss_pred cccCCceEEEEecccceeehhhhhhHHHHHHHHHHcCCCcceEEEEechhhhhhhcccCCcccccCcccccceeCccccc
Confidence 47899999999999999999999999999999999999999999999999999999999999999999889999999999
Q ss_pred cccCCcCC
Q 033156 118 GTVFSRYS 125 (126)
Q Consensus 118 DY~~~~v~ 125 (126)
||++-.||
T Consensus 104 dY~gyevT 111 (382)
T COG5206 104 DYSGYEVT 111 (382)
T ss_pred ccccccch
Confidence 99998886
No 5
>COG2949 SanA Uncharacterized membrane protein [Function unknown]
Probab=92.97 E-value=0.36 Score=39.99 Aligned_cols=47 Identities=23% Similarity=0.456 Sum_probs=38.0
Q ss_pred ccccCCCcEEEEEecCCC--------ccchhhhHHHH-------------------------HHHHHHHhCCCCCCCEEE
Q 033156 36 ETTMHTNNWAVLVCTSRF--------WFNYRHMANTL-------------------------SLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 36 ~~~~~~~nwAVlvagS~~--------w~NYRHqAdv~-------------------------~~Y~~Lk~~Gi~denIIl 82 (126)
.++-+..+.+|++.||++ ||-||-+|-+- .|.+.|++.|+|.++|.+
T Consensus 51 ~~~lP~r~vgvVLGtsky~~~g~~N~yy~~Ri~aA~~ly~~gKV~~LLlSGDN~~~sYnEp~tM~kdL~~~GVp~~~i~l 130 (235)
T COG2949 51 IQDLPARQVGVVLGTSKYLAKGPPNRYYTYRIDAAIALYKAGKVNYLLLSGDNATVSYNEPRTMRKDLIAAGVPAKNIFL 130 (235)
T ss_pred hhhCCccceEEEEeccccccCCCccHhHHHHHHHHHHHHhcCCeeEEEEecCCCcccccchHHHHHHHHHcCCCHHHeee
Confidence 356788999999998855 67789887543 677899999999999875
No 6
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=91.87 E-value=0.96 Score=33.85 Aligned_cols=68 Identities=12% Similarity=0.047 Sum_probs=43.0
Q ss_pred cchhhhhhhhh-HHHHHHHHHHHHHHHhhhhhcccccccCCCcEEEEEecC-CCccchhhhHHHHHHHHHHHhCCCCCCC
Q 033156 2 MVRFKMYNSFG-FKSLAAMLLFFILSISISYRASAETTMHTNNWAVLVCTS-RFWFNYRHMANTLSLYRTVKRLGVPDER 79 (126)
Q Consensus 2 ~~~~~~~~~~~-~~~~~~~~l~~~~~~s~~~~~~~~~~~~~~nwAVlvagS-~~w~NYRHqAdv~~~Y~~Lk~~Gi~den 79 (126)
|.+.+|-+|+- .|-++.+++++ + +++.++- -++.-||=|+++ +|--- .+...+|+.|++.||+.+.
T Consensus 1 ~~~~~m~nryp~WKylli~~vl~-~-lyAlPnl------ygedpavQIs~~~~g~~~----~~~~~v~~~L~~~gI~~ks 68 (127)
T PRK10629 1 MINPRMSLRQLAWLGAVLLLLAA-L-LLAWSAL------RQQESTLAIRAVHQGASL----PDGFYVYQHLDANGIHIKS 68 (127)
T ss_pred CCcchhccccHHHHHHHHHHHHH-H-HHHChhc------cCCCceEEEecCCCCCcc----chHHHHHHHHHHCCCCcce
Confidence 56777878877 45443333333 2 2222222 145557878876 55321 8999999999999998777
Q ss_pred EE
Q 033156 80 II 81 (126)
Q Consensus 80 II 81 (126)
|.
T Consensus 69 i~ 70 (127)
T PRK10629 69 IT 70 (127)
T ss_pred EE
Confidence 64
No 7
>KOG1017 consensus Predicted uracil phosphoribosyltransferase [General function prediction only]
Probab=85.03 E-value=0.91 Score=37.84 Aligned_cols=39 Identities=31% Similarity=0.393 Sum_probs=28.8
Q ss_pred HHHHHHHHHHhCCCCCCCEEEEe---cCccCCCCCCCCCCeE
Q 033156 62 NTLSLYRTVKRLGVPDERIILML---ADDMACNARNKYPAQV 100 (126)
Q Consensus 62 dv~~~Y~~Lk~~Gi~denIIlm~---~DDia~nprNp~pG~i 100 (126)
-||-+-..||++|+||++|||.. .-.-|.+-.+.||-.-
T Consensus 204 TV~~Av~VL~EhgVp~s~IiL~sLF~tP~gak~i~~~fP~it 245 (267)
T KOG1017|consen 204 TVCKAVEVLKEHGVPDSNIILVSLFITPTGAKNITRKFPYIT 245 (267)
T ss_pred cHHHHHHHHHHcCCCcccEEEEEeeecchhhHHHHHhCCeEE
Confidence 58999999999999999999754 3334444455666543
No 8
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=69.81 E-value=5.7 Score=28.60 Aligned_cols=35 Identities=29% Similarity=0.355 Sum_probs=20.5
Q ss_pred EEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEE
Q 033156 46 VLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 46 VlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIl 82 (126)
|+++|..+... ....+-.+-+.+.+.|+|+++|++
T Consensus 41 il~SGg~~~~~--~~~ea~~~~~~l~~~gvp~~~I~~ 75 (155)
T PF02698_consen 41 ILFSGGYGHGD--GRSEAEAMRDYLIELGVPEERIIL 75 (155)
T ss_dssp EEEE--SSTTH--TS-HHHHHHHHHHHT---GGGEEE
T ss_pred EEECCCCCCCC--CCCHHHHHHHHHHhcccchheeEc
Confidence 77777666554 345555566777888999999886
No 9
>PRK10834 vancomycin high temperature exclusion protein; Provisional
Probab=66.27 E-value=6 Score=32.66 Aligned_cols=21 Identities=19% Similarity=0.422 Sum_probs=15.3
Q ss_pred HHHHHHHHHHhCCCCCCCEEE
Q 033156 62 NTLSLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 62 dv~~~Y~~Lk~~Gi~denIIl 82 (126)
.+-.|.+.|.++|||+|.|++
T Consensus 98 Ea~~M~~yLi~~GVp~e~Ii~ 118 (239)
T PRK10834 98 EPMTMRKDLIAAGVDPSDIVL 118 (239)
T ss_pred HHHHHHHHHHHcCCCHHHEEe
Confidence 344577788888888888874
No 10
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=66.26 E-value=39 Score=24.02 Aligned_cols=38 Identities=16% Similarity=0.211 Sum_probs=26.7
Q ss_pred CCcEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEE
Q 033156 41 TNNWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERII 81 (126)
Q Consensus 41 ~~nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denII 81 (126)
++.=||-|++++.=- ...+...+++.|++.||+.+.|.
T Consensus 29 ge~pAvqIs~~~~~~---~~~~~~~v~~~L~~~~I~~k~i~ 66 (101)
T PF13721_consen 29 GEDPAVQISASSAGV---QLPDAFQVEQALKAAGIAVKSIE 66 (101)
T ss_pred CCCCcEEEecCCCCc---cCChHHHHHHHHHHCCCCcceEE
Confidence 344477777754222 34556799999999999988775
No 11
>cd06259 YdcF-like YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX, which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.
Probab=64.59 E-value=5.9 Score=28.37 Aligned_cols=36 Identities=25% Similarity=0.273 Sum_probs=26.1
Q ss_pred EEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEE
Q 033156 45 AVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 45 AVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIl 82 (126)
-||++|..+-... .+.+-.+.+.+.+.|+|++.|++
T Consensus 37 ~ii~sGg~~~~~~--~~ea~~m~~~l~~~gv~~~~I~~ 72 (150)
T cd06259 37 KLIVSGGQGPGEG--YSEAEAMARYLIELGVPAEAILL 72 (150)
T ss_pred EEEEcCCCCCCCC--CCHHHHHHHHHHHcCCCHHHeee
Confidence 5677777665533 34555667889999999999885
No 12
>PRK12933 secD preprotein translocase subunit SecD; Reviewed
Probab=63.65 E-value=28 Score=32.47 Aligned_cols=66 Identities=21% Similarity=0.222 Sum_probs=45.9
Q ss_pred hhhhhhhh-HHHHHHHHHHHHHHHhhhhhcccccccCCCcEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEE
Q 033156 5 FKMYNSFG-FKSLAAMLLFFILSISISYRASAETTMHTNNWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERII 81 (126)
Q Consensus 5 ~~~~~~~~-~~~~~~~~l~~~~~~s~~~~~~~~~~~~~~nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denII 81 (126)
++|-+|+- .|-++.++.+.+..+++.++- =++.-||-+++.++ .++....+.+.|++.||+.+.+.
T Consensus 7 ~~m~n~yp~wky~~i~~~l~~~~lyalPn~------y~~~pavqis~~~~-----~~~~~~~~~~~l~~~~i~~~~~~ 73 (604)
T PRK12933 7 KKLLNHYSAWKYVVLIVTIIILLLSAIPTW------YGEDAAVQVSAKAG-----LLLNVVELRQLLQAQGINVKRID 73 (604)
T ss_pred chhhccChhHHHHHHHHHHHHHHHHhChhc------cCCCCeEEEecCCC-----CcchHHHHHHHHHHCCCCCceEE
Confidence 45777777 566555555444444444443 24555888888877 78889999999999999877654
No 13
>PF11181 YflT: Heat induced stress protein YflT
Probab=62.59 E-value=13 Score=26.01 Aligned_cols=31 Identities=23% Similarity=0.398 Sum_probs=26.5
Q ss_pred hhhhHHHHHHHHHHHhCCCCCCCEEEEecCc
Q 033156 57 YRHMANTLSLYRTVKRLGVPDERIILMLADD 87 (126)
Q Consensus 57 YRHqAdv~~~Y~~Lk~~Gi~denIIlm~~DD 87 (126)
|.=+..+..+=+.|++.|+..++|.++..|+
T Consensus 6 ~~~~~E~~~~I~~L~~~Gy~~ddI~Vva~d~ 36 (103)
T PF11181_consen 6 YDNEEEALSAIEELKAQGYSEDDIYVVAKDK 36 (103)
T ss_pred ECCHHHHHHHHHHHHHcCCCcccEEEEEcCc
Confidence 3447788999999999999999999998654
No 14
>PRK10494 hypothetical protein; Provisional
Probab=58.27 E-value=9.3 Score=31.18 Aligned_cols=38 Identities=24% Similarity=0.226 Sum_probs=28.1
Q ss_pred cEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEE
Q 033156 43 NWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 43 nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIl 82 (126)
.--||++|..+..+ -.+++-.+-+.+++.|+|++.|++
T Consensus 121 ~~~ii~SGg~~~~~--~~sEA~~~~~~l~~lGVp~~~Ii~ 158 (259)
T PRK10494 121 GAKLIFTGGAAKTN--TVSTAEVGARVAQSLGVPREDIIT 158 (259)
T ss_pred CCEEEEECCCCCCC--CCCHHHHHHHHHHHcCCCHHHeee
Confidence 34578888776443 245666778888999999999975
No 15
>cd06183 cyt_b5_reduct_like Cytochrome b5 reductase catalyzes the reduction of 2 molecules of cytochrome b5 using NADH as an electron donor. Like ferredoxin reductases, these proteins have an N-terminal FAD binding subdomain and a C-terminal NADH binding subdomain, separated by a cleft, which accepts FAD. The NADH-binding moiety interacts with part of the FAD and resembles a Rossmann fold. However, NAD is bound differently than in canonical Rossmann fold proteins. Nitrate reductases, flavoproteins similar to pyridine nucleotide cytochrome reductases, catalyze the reduction of nitrate to nitrite. The enzyme can be divided into three functional fragments that bind the cofactors molybdopterin, heme-iron, and FAD/NADH.
Probab=57.22 E-value=8.1 Score=29.14 Aligned_cols=35 Identities=20% Similarity=0.303 Sum_probs=25.7
Q ss_pred CcEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEEE
Q 033156 42 NNWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIILM 83 (126)
Q Consensus 42 ~nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm 83 (126)
..-.+++||+.+.-+ -.+.+.|++.|+|+++|.+|
T Consensus 200 ~~~~~~icGp~~~~~-------~~~~~~l~~~G~~~~~i~~~ 234 (234)
T cd06183 200 EDTLVLVCGPPPMIE-------GAVKGLLKELGYKKDNVFKF 234 (234)
T ss_pred CCeEEEEECCHHHHH-------HHHHHHHHHcCCCHHHEEeC
Confidence 345678888877643 15667788999999999875
No 16
>PF00656 Peptidase_C14: Caspase domain; InterPro: IPR011600 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of sequences represent the p20 (20kDa) and p10 (10kDa) subunits of caspases, which together form the catalytic domain of the caspase and are derived from the p45 (45 kDa) precursor (IPR002398 from INTERPRO) []. Caspases (Cysteine-dependent ASPartyl-specific proteASE) are cysteine peptidases that belong to the MEROPS peptidase family C14 (caspase family, clan CD) based on the architecture of their catalytic dyad or triad []. Caspases are tightly regulated proteins that require zymogen activation to become active, and once active can be regulated by caspase inhibitors. Activated caspases act as cysteine proteases, using the sulphydryl group of a cysteine side chain for catalysing peptide bond cleavage at aspartyl residues in their substrates. The catalytic cysteine and histidine residues are on the p20 subunit after cleavage of the p45 precursor. Caspases are mainly involved in mediating cell death (apoptosis) [, , ]. They have two main roles within the apoptosis cascade: as initiators that trigger the cell death process, and as effectors of the process itself. Caspase-mediated apoptosis follows two main pathways, one extrinsic and the other intrinsic or mitochondrial-mediated. The extrinsic pathway involves the stimulation of various TNF (tumour necrosis factor) cell surface receptors on cells targeted to die by various TNF cytokines that are produced by cells such as cytotoxic T cells. The activated receptor transmits the signal to the cytoplasm by recruiting FADD, which forms a death-inducing signalling complex (DISC) with caspase-8. The subsequent activation of caspase-8 initiates the apoptosis cascade involving caspases 3, 4, 6, 7, 9 and 10. The intrinsic pathway arises from signals that originate within the cell as a consequence of cellular stress or DNA damage. The stimulation or inhibition of different Bcl-2 family receptors results in the leakage of cytochrome c from the mitochondria, and the formation of an apoptosome composed of cytochrome c, Apaf1 and caspase-9. The subsequent activation of caspase-9 initiates the apoptosis cascade involving caspases 3 and 7, among others. At the end of the cascade, caspases act on a variety of signal transduction proteins, cytoskeletal and nuclear proteins, chromatin-modifying proteins, DNA repair proteins and endonucleases that destroy the cell by disintegrating its contents, including its DNA. The different caspases have different domain architectures depending upon where they fit into the apoptosis cascades, however they all carry the catalytic p10 and p20 subunits. Caspases can have roles other than in apoptosis, such as caspase-1 (interleukin-1 beta convertase) (3.4.22.36 from EC), which is involved in the inflammatory process. The activation of apoptosis can sometimes lead to caspase-1 activation, providing a link between apoptosis and inflammation, such as during the targeting of infected cells. Caspases may also be involved in cell differentiation [].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 1M72_C 2NN3_C 3V4L_A 3IBF_B 2QLF_D 2QLB_C 3IBC_B 2QL9_A 3R5K_B 3H1P_A ....
Probab=52.86 E-value=14 Score=27.83 Aligned_cols=38 Identities=13% Similarity=0.205 Sum_probs=29.3
Q ss_pred cEEEEEecCCCcc-chhh--hHHHHHHHHHHHhCCCCCCCE
Q 033156 43 NWAVLVCTSRFWF-NYRH--MANTLSLYRTVKRLGVPDERI 80 (126)
Q Consensus 43 nwAVlvagS~~w~-NYRH--qAdv~~~Y~~Lk~~Gi~denI 80 (126)
+|||||+-+.+=. +-++ ..|+-.+.+.|++.|++.++|
T Consensus 1 ~~AliIg~~~y~~~~~L~~~~~D~~~~~~~L~~~gf~~~~~ 41 (248)
T PF00656_consen 1 KRALIIGVNYYQNPPPLPGAVNDAEAMAEALEKLGFDVENI 41 (248)
T ss_dssp EEEEEEEESSTSSTCHCTTHHHHHHHHHHHHHHTTEEEEEE
T ss_pred CEEEEEEeeCCCCCCCCCCHHHHHHHHHHHHHHcCCceeec
Confidence 5899998876411 1222 478999999999999999998
No 17
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
Probab=52.08 E-value=19 Score=24.16 Aligned_cols=23 Identities=22% Similarity=0.290 Sum_probs=18.2
Q ss_pred EEEEecCCCccchhhhHHHHHHH
Q 033156 45 AVLVCTSRFWFNYRHMANTLSLY 67 (126)
Q Consensus 45 AVlvagS~~w~NYRHqAdv~~~Y 67 (126)
-|||+|||.|.++...-++|-.+
T Consensus 5 rVli~GgR~~~D~~~i~~~Ld~~ 27 (71)
T PF10686_consen 5 RVLITGGRDWTDHELIWAALDKV 27 (71)
T ss_pred EEEEEECCccccHHHHHHHHHHH
Confidence 58999999999888866666543
No 18
>PF11121 DUF2639: Protein of unknown function (DUF2639); InterPro: IPR022580 This family is conserved in the Bacillaceae family. Several members are named as being YflJ, but the function is not known.
Probab=51.22 E-value=8.4 Score=24.13 Aligned_cols=16 Identities=31% Similarity=0.831 Sum_probs=12.8
Q ss_pred cCCCccchhhhHHHHHHHHHHHhCCCC
Q 033156 50 TSRFWFNYRHMANTLSLYRTVKRLGVP 76 (126)
Q Consensus 50 gS~~w~NYRHqAdv~~~Y~~Lk~~Gi~ 76 (126)
||+||| -+.||+.||.
T Consensus 3 gSKGw~-----------V~eLKk~GI~ 18 (40)
T PF11121_consen 3 GSKGWY-----------VKELKKLGIR 18 (40)
T ss_pred CcchHH-----------HHHHHHhCcc
Confidence 788998 3678999875
No 19
>KOG1360 consensus 5-aminolevulinate synthase [Coenzyme transport and metabolism]
Probab=50.07 E-value=15 Score=33.64 Aligned_cols=34 Identities=26% Similarity=0.371 Sum_probs=29.2
Q ss_pred hhhHHHHHHHHHHHhCCCC----CCCEEEEecCccCCC
Q 033156 58 RHMANTLSLYRTVKRLGVP----DERIILMLADDMACN 91 (126)
Q Consensus 58 RHqAdv~~~Y~~Lk~~Gi~----denIIlm~~DDia~n 91 (126)
-||.||-++-|.|.+.||| ++|||-.+--|.+-+
T Consensus 431 ~hqrnv~~~kq~l~~~GiPVi~~pSHIiPv~vgda~l~ 468 (570)
T KOG1360|consen 431 QHQRNVKYVKQLLMELGIPVIPNPSHIIPVRVGDAALA 468 (570)
T ss_pred HHHHHHHHHHHHHHHcCCcccCCCcceeeeeccCHHHH
Confidence 4999999999999999988 889998887766544
No 20
>PF14681 UPRTase: Uracil phosphoribosyltransferase; PDB: 1V9S_B 1UPF_A 1UPU_D 1JLR_B 1BD4_A 1BD3_C 1JLS_D 1XTV_C 1XTU_H 3G6W_C ....
Probab=50.00 E-value=14 Score=29.02 Aligned_cols=24 Identities=29% Similarity=0.581 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHhCCCCCCCEEEEe
Q 033156 61 ANTLSLYRTVKRLGVPDERIILML 84 (126)
Q Consensus 61 Adv~~~Y~~Lk~~Gi~denIIlm~ 84 (126)
..++.+.+.|+++|+++++|+++.
T Consensus 135 ~s~~~ai~~L~~~G~~~~~I~~v~ 158 (207)
T PF14681_consen 135 GSAIAAIEILKEHGVPEENIIIVS 158 (207)
T ss_dssp HHHHHHHHHHHHTTG-GGEEEEEE
T ss_pred hhHHHHHHHHHHcCCCcceEEEEE
Confidence 578999999999999999999874
No 21
>COG2143 Thioredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=47.31 E-value=35 Score=27.47 Aligned_cols=42 Identities=17% Similarity=0.184 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHhhhhhcc-----------cccccCCCcEEEEEecCCCcc
Q 033156 14 KSLAAMLLFFILSISISYRAS-----------AETTMHTNNWAVLVCTSRFWF 55 (126)
Q Consensus 14 ~~~~~~~l~~~~~~s~~~~~~-----------~~~~~~~~nwAVlvagS~~w~ 55 (126)
+.+..++|+.+++++++.+.. ..+....+++++|+-+|++-+
T Consensus 3 Rvl~i~Lliis~fl~a~~s~~ek~s~~~~~~d~ksi~~~~Kylllmfes~~C~ 55 (182)
T COG2143 3 RVLLIVLLIISLFLSACKSNNEKRSNIDVFDDNKSISPNDKYLLLMFESNGCS 55 (182)
T ss_pred chHHHHHHHHHHHHHHHhCCchhhhhhhhHHHHHhcCccCcEEEEEEcCCCCh
Confidence 445445555555566666551 124568899999999998854
No 22
>PF00691 OmpA: OmpA family; InterPro: IPR006665 This entry represents domain with a beta/alpha/beta/alpha-beta(2) structure found in the C-terminal region of many Gram-negative bacterial outer membrane proteins [], such as porin-like integral membrane proteins (such as ompA) [], small lipid-anchored proteins (such as pal) [], and MotB proton channels []. The N-terminal half is variable although some of the proteins in this group have the OmpA-like transmembrane domain IPR000498 from INTERPRO at the N terminus. OmpA from Escherichia coli is required for pathogenesis, and can interact with host receptor molecules []. MotB (and MotA) serves two functions in E. coli, the MotA(4)-MotB(2) complex attaches to the cell wall via MotB to form the stator of the flagellar motor, and the MotA-MotB complex couples the flow of ions across the cell membrane to movement of the rotor [].; GO: 0009279 cell outer membrane; PDB: 1OAP_A 2W8B_G 2HQS_C 4ERH_A 2ZF8_A 2ZOV_A 2ZVZ_B 2ZVY_A 3TD4_B 3TD5_D ....
Probab=43.13 E-value=49 Score=21.71 Aligned_cols=24 Identities=21% Similarity=0.304 Sum_probs=20.0
Q ss_pred HHHHHHHHhCCCCCCCEEEEecCc
Q 033156 64 LSLYRTVKRLGVPDERIILMLADD 87 (126)
Q Consensus 64 ~~~Y~~Lk~~Gi~denIIlm~~DD 87 (126)
-.+-+.|.+.||++++|.+.-+-+
T Consensus 57 ~~V~~~L~~~gi~~~ri~~~~~G~ 80 (97)
T PF00691_consen 57 EAVKQYLVENGIPPERISVVGYGE 80 (97)
T ss_dssp HHHHHHHHHTTSSGGGEEEEEETT
T ss_pred HHHHHHHHHcCCChHhEEEEEEcc
Confidence 366788999999999998877765
No 23
>PRK14125 cell division suppressor protein YneA; Provisional
Probab=41.65 E-value=1.2e+02 Score=21.79 Aligned_cols=19 Identities=5% Similarity=0.006 Sum_probs=11.2
Q ss_pred CCcEEEEEecCCCccchhh
Q 033156 41 TNNWAVLVCTSRFWFNYRH 59 (126)
Q Consensus 41 ~~nwAVlvagS~~w~NYRH 59 (126)
.+-|.+.|....-.|..-+
T Consensus 34 ~~~~~~tV~~GDTLW~IA~ 52 (103)
T PRK14125 34 NQYVEITVQEGDTLWALAD 52 (103)
T ss_pred CCcEEEEECCCCCHHHHHH
Confidence 5556667766666654433
No 24
>PF11153 DUF2931: Protein of unknown function (DUF2931); InterPro: IPR021326 Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed. Currently, there is no known function.
Probab=41.34 E-value=47 Score=25.94 Aligned_cols=32 Identities=13% Similarity=0.225 Sum_probs=18.3
Q ss_pred HHHHHhhhhhcccccccCCCcEEEEEecCCCc
Q 033156 23 FILSISISYRASAETTMHTNNWAVLVCTSRFW 54 (126)
Q Consensus 23 ~~~~~s~~~~~~~~~~~~~~nwAVlvagS~~w 54 (126)
++|+++.|.............|-+-+++.+++
T Consensus 9 l~lll~~C~~~~~~~~~~~~~W~~~~~~P~~y 40 (216)
T PF11153_consen 9 LLLLLTGCSTNPNEPLQPYFEWRFGVAAPKHY 40 (216)
T ss_pred HHHHHHhhcCCCccCCCCCCccEEEEecCCCC
Confidence 33345556555333333667777777766664
No 25
>cd06212 monooxygenase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. These flavoprotein monooxygenases use molecular oxygen as a substrate and require reduced FAD. One atom of oxygen is incorportated into the aromatic compond, while the other is used to form a molecule of water. In contrast dioxygenases add both atoms of oxygen to the substrate.
Probab=40.85 E-value=21 Score=27.16 Aligned_cols=31 Identities=19% Similarity=0.310 Sum_probs=23.2
Q ss_pred EEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEE
Q 033156 44 WAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 44 wAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIl 82 (126)
.-|.+||+.++ +-.+.+.|++.|+|.+||..
T Consensus 198 ~~v~~CGp~~~--------~~~v~~~l~~~G~~~~~i~~ 228 (232)
T cd06212 198 CDVYLCGPPPM--------IDAALPVLEMSGVPPDQIFY 228 (232)
T ss_pred CEEEEECCHHH--------HHHHHHHHHHcCCCHHHeee
Confidence 35777777765 33667889999999999863
No 26
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=40.28 E-value=31 Score=29.08 Aligned_cols=42 Identities=31% Similarity=0.438 Sum_probs=31.8
Q ss_pred hHHHHHHHHHHHhC-CCCCCCEEEEecC-------ccCCCCCCCCCCeEEeCC
Q 033156 60 MANTLSLYRTVKRL-GVPDERIILMLAD-------DMACNARNKYPAQVFNNE 104 (126)
Q Consensus 60 qAdv~~~Y~~Lk~~-Gi~denIIlm~~D-------Dia~nprNp~pG~if~~~ 104 (126)
-+|+-++|+.||+. | ++|+|||+-.- |.|+ |+|..|.|-..|
T Consensus 112 y~Di~avye~Lr~~~g-~~~~Iil~G~SiGt~~tv~Las--r~~~~alVL~SP 161 (258)
T KOG1552|consen 112 YADIKAVYEWLRNRYG-SPERIILYGQSIGTVPTVDLAS--RYPLAAVVLHSP 161 (258)
T ss_pred hhhHHHHHHHHHhhcC-CCceEEEEEecCCchhhhhHhh--cCCcceEEEecc
Confidence 58999999999887 6 99999998542 3333 355778877776
No 27
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=39.82 E-value=42 Score=24.34 Aligned_cols=30 Identities=20% Similarity=0.226 Sum_probs=23.5
Q ss_pred cchhhhHHHHHHHHHHHhCCCCCCCEEEEecC
Q 033156 55 FNYRHMANTLSLYRTVKRLGVPDERIILMLAD 86 (126)
Q Consensus 55 ~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~~D 86 (126)
-|=.|.+.+|...+ ++.|||.|+|.+-..|
T Consensus 73 ~n~~~s~~i~~~l~--~~LgIp~dRiYI~f~d 102 (113)
T PTZ00450 73 KPKMMTPRITAAIT--KECGIPAERIYVFYYS 102 (113)
T ss_pred HHHHHHHHHHHHHH--HHcCCCcccEEEEEEc
Confidence 34567777777766 7889999999987776
No 28
>PF03032 Brevenin: Brevenin/esculentin/gaegurin/rugosin family; InterPro: IPR004275 In addition to the highly specific cell-mediated immune system, vertebrates possess an efficient host-defence mechanism against invading microorganisms which involves the synthesis of highly potent antimicrobial peptides with a large spectrum of activity. This entry represents a number of these defence peptides secreted from the skin of amphibians, including the opiate-like dermorphins and deltorphins, and the antimicrobial dermoseptins and temporins.; GO: 0006952 defense response, 0042742 defense response to bacterium, 0005576 extracellular region
Probab=38.70 E-value=22 Score=22.53 Aligned_cols=19 Identities=26% Similarity=0.363 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHhhhhh
Q 033156 14 KSLAAMLLFFILSISISYR 32 (126)
Q Consensus 14 ~~~~~~~l~~~~~~s~~~~ 32 (126)
|+++.+|++++.++|.|--
T Consensus 5 KsllLlfflG~ISlSlCee 23 (46)
T PF03032_consen 5 KSLLLLFFLGTISLSLCEE 23 (46)
T ss_pred HHHHHHHHHHHcccchHHH
Confidence 5667777777778888753
No 29
>PF11337 DUF3139: Protein of unknown function (DUF3139); InterPro: IPR021486 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=38.49 E-value=61 Score=21.97 Aligned_cols=45 Identities=18% Similarity=0.308 Sum_probs=26.8
Q ss_pred hhhHHHHHHHHHHHhCCCCCCCEEEEecCccCCCCCCC--CCCeEEeCCCC
Q 033156 58 RHMANTLSLYRTVKRLGVPDERIILMLADDMACNARNK--YPAQVFNNENH 106 (126)
Q Consensus 58 RHqAdv~~~Y~~Lk~~Gi~denIIlm~~DDia~nprNp--~pG~if~~~~~ 106 (126)
||++ --...+.|.+.|+++|+|- ..+...++... +.-.+|-|+.+
T Consensus 33 k~~~-~k~i~~yL~e~gy~e~~I~---~i~~~~~~k~g~yy~~V~fKDeP~ 79 (85)
T PF11337_consen 33 KHKA-EKAIDWYLQEQGYKESDIK---SIKIKYDYKKGGYYKEVVFKDEPN 79 (85)
T ss_pred HHHH-HHHHHHHHHHcCCcHHHhh---hhhheeecccCceEEEEEEecCCC
Confidence 4555 3456778899999999994 44444444333 33334655544
No 30
>PLN02541 uracil phosphoribosyltransferase
Probab=38.16 E-value=42 Score=27.63 Aligned_cols=25 Identities=16% Similarity=0.187 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHhCCCCCCCEEEEec
Q 033156 61 ANTLSLYRTVKRLGVPDERIILMLA 85 (126)
Q Consensus 61 Adv~~~Y~~Lk~~Gi~denIIlm~~ 85 (126)
+.++.+.+.|+++|.+.++|+++..
T Consensus 171 gS~~~ai~~L~~~Gv~~~~I~~v~~ 195 (244)
T PLN02541 171 GTIVAAIDELVSRGASVEQIRVVCA 195 (244)
T ss_pred HHHHHHHHHHHHcCCCcccEEEEEE
Confidence 4678999999999999999987754
No 31
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=37.59 E-value=71 Score=23.61 Aligned_cols=42 Identities=14% Similarity=0.263 Sum_probs=29.3
Q ss_pred CCcEEEEEecCCCccchh------hhHHHHHHHHHHHhCCCCCCCEEE
Q 033156 41 TNNWAVLVCTSRFWFNYR------HMANTLSLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 41 ~~nwAVlvagS~~w~NYR------HqAdv~~~Y~~Lk~~Gi~denIIl 82 (126)
.+.+-|+++|+|...-+. .+...-...+.|+++|+|=++|++
T Consensus 38 ~~G~~IiiaTGR~~~~~~~n~~~i~~~~~~~t~~wL~k~~ipYd~l~~ 85 (126)
T TIGR01689 38 ALGFEIVISSSRNMRTYEGNVGKINIHTLPIIILWLNQHNVPYDEIYV 85 (126)
T ss_pred HCCCEEEEECCCCchhhhccccccchhhHHHHHHHHHHcCCCCceEEe
Confidence 345678889999876555 112222456788999999999885
No 32
>KOG3339 consensus Predicted glycosyltransferase [General function prediction only]
Probab=36.55 E-value=2.5e+02 Score=23.25 Aligned_cols=68 Identities=18% Similarity=0.201 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHhhhhhcccccccCCCcEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEEEecCccCC
Q 033156 17 AAMLLFFILSISISYRASAETTMHTNNWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIILMLADDMAC 90 (126)
Q Consensus 17 ~~~~l~~~~~~s~~~~~~~~~~~~~~nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~~DDia~ 90 (126)
.++.|+.++++-..+..+........---.+|.||-| |++..|..-+-|++. +.+..+|+--.|.+.-
T Consensus 13 ~~~~li~~~v~~~~~~~~k~~Pk~~s~~~lVvlGSGG-----HT~EMlrLl~~l~~~-y~~r~yI~a~tD~mS~ 80 (211)
T KOG3339|consen 13 YVIVLIALLVFRHTQRSTKKDPKDKSLSTLVVLGSGG-----HTGEMLRLLEALQDL-YSPRSYIAADTDEMSE 80 (211)
T ss_pred HHHHHHHHHHHHHHHhccCCCCcCCcceEEEEEcCCC-----cHHHHHHHHHHHHhh-cCceEEEEecCchhhH
Confidence 3455555555444444422111112123566778887 999999999988655 8888888555555443
No 33
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=35.54 E-value=27 Score=17.95 Aligned_cols=20 Identities=15% Similarity=0.476 Sum_probs=16.5
Q ss_pred hhHHHHHHHHHHHhCCCCCC
Q 033156 59 HMANTLSLYRTVKRLGVPDE 78 (126)
Q Consensus 59 HqAdv~~~Y~~Lk~~Gi~de 78 (126)
...++...|+.+++.|++++
T Consensus 15 ~~~~a~~~~~~M~~~g~~p~ 34 (35)
T TIGR00756 15 RVEEALELFKEMLERGIEPD 34 (35)
T ss_pred CHHHHHHHHHHHHHcCCCCC
Confidence 45678899999999998765
No 34
>PF15240 Pro-rich: Proline-rich
Probab=33.27 E-value=29 Score=27.80 Aligned_cols=20 Identities=20% Similarity=0.258 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHhhhhhcc
Q 033156 15 SLAAMLLFFILSISISYRAS 34 (126)
Q Consensus 15 ~~~~~~l~~~~~~s~~~~~~ 34 (126)
|||+||...||++|.|-+..
T Consensus 1 MLlVLLSvALLALSSAQ~~d 20 (179)
T PF15240_consen 1 MLLVLLSVALLALSSAQSTD 20 (179)
T ss_pred ChhHHHHHHHHHhhhccccc
Confidence 46677777778888887753
No 35
>PF00233 PDEase_I: 3'5'-cyclic nucleotide phosphodiesterase; InterPro: IPR002073 The cyclic nucleotide phosphodiesterases (PDE) comprise a group of enzymes that degrade the phosphodiester bond in the second messenger molecules cAMP and cGMP. They are divided into 11 families. They regulate the localisation, duration and amplitude of cyclic nucleotide signalling within subcellular domains. PDEs are therefore important for signal transduction. PDE enzymes are often targets for pharmacological inhibition due to their unique tissue distribution, structural properties, and functional properties. Inhibitors include: Roflumilast for chronic obstructive pulmonary disease and asthma [], Sildenafil for erectile dysfunction [] and Cilostazol for peripheral arterial occlusive disease [], amongst others. Retinal 3',5'-cGMP phosphodiesterase is located in photoreceptor outer segments: it is light activated, playing a pivotal role in signal transduction. In rod cells, PDE is oligomeric, comprising an alpha-, a beta- and 2 gamma-subunits, while in cones, PDE is a homodimer of alpha chains, which are associated with several smaller subunits. Both rod and cone PDEs catalyse the hydrolysis of cAMP or cGMP to the corresponding nucleoside 5' monophosphates, both enzymes also binding cGMP with high affinity. The cGMP-binding sites are located in the N-terminal half of the protein sequence, while the catalytic core resides in the C-terminal portion. This entry represents the catalytic domain of PDE which is multihelical and can be divided into three subdomains.; GO: 0004114 3',5'-cyclic-nucleotide phosphodiesterase activity, 0007165 signal transduction; PDB: 3I8V_A 3TVX_A 2QYK_A 1ZKL_A 3G3N_A 4DFF_B 2OUS_B 3SNL_A 2OUY_A 2OUP_B ....
Probab=33.15 E-value=32 Score=27.41 Aligned_cols=22 Identities=32% Similarity=0.673 Sum_probs=16.8
Q ss_pred ccchhhhHHHHH-HHHHHHhCCC
Q 033156 54 WFNYRHMANTLS-LYRTVKRLGV 75 (126)
Q Consensus 54 w~NYRHqAdv~~-~Y~~Lk~~Gi 75 (126)
|.|.+|.+||++ +|.+|++.++
T Consensus 1 yHN~~Ha~dV~q~~~~ll~~~~~ 23 (237)
T PF00233_consen 1 YHNFRHAADVLQFVYYLLSNGGL 23 (237)
T ss_dssp SSSHHHHHHHHHHHHHHHHHGGG
T ss_pred CCCHHHHHHHHHHHHHHHHccCc
Confidence 679999999996 4666666554
No 36
>PF00061 Lipocalin: Lipocalin / cytosolic fatty-acid binding protein family fatty acid-binding protein signature lipocalin signature; InterPro: IPR000566 Proteins which transport small hydrophobic molecules such as steroids, bilins, retinoids, and lipids share limited regions of sequence homology and a common tertiary structure architecture [, , , , ]. This is an eight stranded antiparallel beta-barrel with a repeated + 1 topology enclosing a internal ligand binding site [, ]. The name 'lipocalin' has been proposed [] for this protein family, but cytosolic fatty-acid binding proteins are also included. The sequences of most members of the family, the core or kernal lipocalins, are characterised by three short conserved stretches of residues, while others, the outlier lipocalin group, share only one or two of these [, ]. Proteins known to belong to this family include alpha-1-microglobulin (protein HC); alpha-1-acid glycoprotein (orosomucoid) []; aphrodisin; apolipoprotein D; beta-lactoglobulin; complement component C8 gamma chain []; crustacyanin []; epididymal-retinoic acid binding protein (E-RABP) []; insectacyanin; odorant-binding protein (OBP); human pregnancy-associated endometrial alpha-2 globulin; probasin (PB), a rat prostatic protein; prostaglandin D synthase (5.3.99.2 from EC) []; purpurin; Von Ebner's gland protein (VEGP) []; and lizard epididymal secretory protein IV (LESP IV) [].; GO: 0005488 binding; PDB: 1I05_A 1MUP_A 2LB6_A 1I04_A 1I06_A 1DC9_A 1URE_A 1AEL_A 1T8V_A 1ICM_A ....
Probab=32.80 E-value=36 Score=23.27 Aligned_cols=22 Identities=23% Similarity=0.386 Sum_probs=18.8
Q ss_pred HHHHHHHHHhCCCCCCCEEEEe
Q 033156 63 TLSLYRTVKRLGVPDERIILML 84 (126)
Q Consensus 63 v~~~Y~~Lk~~Gi~denIIlm~ 84 (126)
.-.+.+.+++.||++++|+.+-
T Consensus 120 ~~~f~~~~~~~gi~~~~i~~~~ 141 (144)
T PF00061_consen 120 LEKFKKFAKSLGIDEENIVRTF 141 (144)
T ss_dssp HHHHHHHHHHTTETGGCEEEEE
T ss_pred HHHHHHHHHhCCCCHHeEEECC
Confidence 4478899999999999999764
No 37
>cd01844 SGNH_hydrolase_like_6 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=32.67 E-value=1.9e+02 Score=20.89 Aligned_cols=45 Identities=13% Similarity=0.168 Sum_probs=34.9
Q ss_pred CCcEEEEEecCCCccchh-hhHHHHHHHHHHHhCCCCCCCEEEEecC
Q 033156 41 TNNWAVLVCTSRFWFNYR-HMANTLSLYRTVKRLGVPDERIILMLAD 86 (126)
Q Consensus 41 ~~nwAVlvagS~~w~NYR-HqAdv~~~Y~~Lk~~Gi~denIIlm~~D 86 (126)
.-+..||..|+|.|..-. -..+...+.+.+++.+ |+-.|+++.+=
T Consensus 57 ~pd~vii~~G~ND~~~~~~~~~~~~~~i~~i~~~~-p~~~iil~~~~ 102 (177)
T cd01844 57 PADLYIIDCGPNIVGAEAMVRERLGPLVKGLRETH-PDTPILLVSPR 102 (177)
T ss_pred CCCEEEEEeccCCCccHHHHHHHHHHHHHHHHHHC-cCCCEEEEecC
Confidence 446788889999987653 4677888889998875 77889988753
No 38
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=32.09 E-value=46 Score=21.46 Aligned_cols=8 Identities=25% Similarity=0.779 Sum_probs=5.9
Q ss_pred chhhhHHH
Q 033156 56 NYRHMANT 63 (126)
Q Consensus 56 NYRHqAdv 63 (126)
.|||+.|.
T Consensus 28 gYkht~d~ 35 (50)
T PF12606_consen 28 GYKHTVDP 35 (50)
T ss_pred ccccccCC
Confidence 48888774
No 39
>cd06209 BenDO_FAD_NAD Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal ferredoxin at the end fused to an FAD/NADP(P) domain. In dioxygenase FAD/NAD(P) binding domain, the reductase transfers 2 electrons from NAD(P)H to the oxygenase which insert into an aromatic substrate, an initial step in microbial aerobic degradation of aromatic rings. Flavin oxidoreductases use flavins as substrates, unlike flavoenzymes which have a flavin prosthetic group.
Probab=31.71 E-value=36 Score=25.82 Aligned_cols=32 Identities=9% Similarity=0.140 Sum_probs=22.4
Q ss_pred cEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEE
Q 033156 43 NWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 43 nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIl 82 (126)
++.|.++|+.++ +-.+.+.|++.|+|+++|..
T Consensus 193 ~~~v~icGp~~m--------~~~~~~~l~~~G~~~~~i~~ 224 (228)
T cd06209 193 DVDVYLCGPPPM--------VDAVRSWLDEQGIEPANFYY 224 (228)
T ss_pred CcEEEEeCCHHH--------HHHHHHHHHHcCCCHHHEee
Confidence 445667776554 33567788889999998864
No 40
>cd06215 FNR_iron_sulfur_binding_1 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal portion of the FAD/NAD binding domain contains most of the NADP(H) binding residues and the N-terminal sub-domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. In this ferredoxin like sub-group, the FAD/NAD sub-domains is typically fused to a C-terminal iron-sulfur binding domain. Iron-sulfur pr
Probab=31.69 E-value=26 Score=26.46 Aligned_cols=29 Identities=24% Similarity=0.408 Sum_probs=22.6
Q ss_pred EEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEE
Q 033156 45 AVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERII 81 (126)
Q Consensus 45 AVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denII 81 (126)
.|.+||+.+. +-.+.+.|++.|+|.+||.
T Consensus 199 ~v~icGp~~m--------~~~~~~~l~~~gv~~~~i~ 227 (231)
T cd06215 199 TVFVCGPAGF--------MKAVKSLLAELGFPMSRFH 227 (231)
T ss_pred eEEEECCHHH--------HHHHHHHHHHcCCCHHHee
Confidence 4777777655 4578889999999999885
No 41
>TIGR01653 lactococcin_972 bacteriocin, lactococcin 972 family. This model represents bacteriocins related to lactococcin 972. Members tend to be found in association with a seven transmembrane putative immunity protein.
Probab=31.66 E-value=56 Score=23.48 Aligned_cols=26 Identities=19% Similarity=0.328 Sum_probs=16.2
Q ss_pred ccccCCCcEEEEEecCCCccchhhhH
Q 033156 36 ETTMHTNNWAVLVCTSRFWFNYRHMA 61 (126)
Q Consensus 36 ~~~~~~~nwAVlvagS~~w~NYRHqA 61 (126)
.....+-.|=.-...++-|.||.|-.
T Consensus 28 ~~~~~Ggtw~~~~G~g~~ySnY~H~~ 53 (92)
T TIGR01653 28 AQSTQGGTWWKTYGMGRHYSNYWHNK 53 (92)
T ss_pred eEEecCcceEeccCCCceeeeeecCC
Confidence 34455566665555666688887753
No 42
>PF04911 ATP-synt_J: ATP synthase j chain; InterPro: IPR006995 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. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit J found in the F0 complex of F-ATPases from fungal mitochondria. This subunit does not appear to display sequence similarity with subunits of F-ATPases found in other organisms []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o)
Probab=31.29 E-value=14 Score=24.38 Aligned_cols=18 Identities=28% Similarity=0.418 Sum_probs=14.3
Q ss_pred EEEecCccCCCCCCCCCC
Q 033156 81 ILMLADDMACNARNKYPA 98 (126)
Q Consensus 81 Ilm~~DDia~nprNp~pG 98 (126)
..|-.|+-.+|||||+-.
T Consensus 30 a~~ns~E~~NDPRNP~~~ 47 (54)
T PF04911_consen 30 AMMNSDEFKNDPRNPRAA 47 (54)
T ss_pred HHhcCHHHhcCCCChhhh
Confidence 456678889999999754
No 43
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=29.94 E-value=2.1e+02 Score=24.12 Aligned_cols=24 Identities=8% Similarity=0.221 Sum_probs=21.2
Q ss_pred hhHHHHHHHHHHHhCCCCCCCEEE
Q 033156 59 HMANTLSLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 59 HqAdv~~~Y~~Lk~~Gi~denIIl 82 (126)
-.+|...+-.+||++|+|.+.-+.
T Consensus 62 e~~~fa~Av~iL~~~GlPr~~f~~ 85 (246)
T COG4669 62 EESDFAEAVEILNQNGLPRKKFTT 85 (246)
T ss_pred cHHHHHHHHHHHHhcCCCCCCCCc
Confidence 488999999999999999988764
No 44
>PF10655 DUF2482: Hypothetical protein of unknown function (DUF2482); InterPro: IPR018917 This entry is represented by Bacteriophage 80, Orf10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. All the members of this very small, very short family are derived from bacteriophages, of the SA bacteriophages 11, Mu50B, system, and from the Staphylococcal_phi-Mu50B-like_prophages subsystem. All members are hypothetical proteins.
Probab=29.92 E-value=54 Score=24.15 Aligned_cols=24 Identities=25% Similarity=0.506 Sum_probs=22.0
Q ss_pred cchhhhHHHHHHHHHHHhCCCCCC
Q 033156 55 FNYRHMANTLSLYRTVKRLGVPDE 78 (126)
Q Consensus 55 ~NYRHqAdv~~~Y~~Lk~~Gi~de 78 (126)
-||+-.+|+..+++..|-.|++|+
T Consensus 74 ~~f~dI~nvi~~~Klqk~l~idd~ 97 (100)
T PF10655_consen 74 DNFKDIVNVIQMRKLQKFLGIDDN 97 (100)
T ss_pred hhHHHHHHHHHHHHHHHHhcccCc
Confidence 479999999999999999999876
No 45
>PF13041 PPR_2: PPR repeat family
Probab=29.59 E-value=36 Score=20.02 Aligned_cols=23 Identities=17% Similarity=0.472 Sum_probs=18.5
Q ss_pred hhhhHHHHHHHHHHHhCCCCCCC
Q 033156 57 YRHMANTLSLYRTVKRLGVPDER 79 (126)
Q Consensus 57 YRHqAdv~~~Y~~Lk~~Gi~den 79 (126)
-+.-..+...|+.+++.|++++-
T Consensus 16 ~~~~~~a~~l~~~M~~~g~~P~~ 38 (50)
T PF13041_consen 16 AGKFEEALKLFKEMKKRGIKPDS 38 (50)
T ss_pred CcCHHHHHHHHHHHHHcCCCCCH
Confidence 34567788999999999988764
No 46
>COG3119 AslA Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]
Probab=29.53 E-value=54 Score=28.63 Aligned_cols=25 Identities=32% Similarity=0.525 Sum_probs=22.8
Q ss_pred HHHHHHHhCCCCCCCEEEEecCccC
Q 033156 65 SLYRTVKRLGVPDERIILMLADDMA 89 (126)
Q Consensus 65 ~~Y~~Lk~~Gi~denIIlm~~DDia 89 (126)
..++.|++.|.-|+.||++..|.=+
T Consensus 275 rll~~L~~~g~~DnTivvftsDhG~ 299 (475)
T COG3119 275 RLLDALKELGLLDNTIVVFTSDHGA 299 (475)
T ss_pred HHHHHHHHhCCccCcEEEEeCCCCC
Confidence 7889999999999999999998765
No 47
>PF08869 XisI: XisI protein; InterPro: IPR014968 The fdxN element, along with two other DNA elements, is excised from the chromosome during heterocyst differentiation in cyanobacteria. The xisH as well as the xisF and xisI genes are required []. ; PDB: 3D7Q_A 2NWV_A 2NVM_A 2NLV_B.
Probab=29.53 E-value=31 Score=25.53 Aligned_cols=44 Identities=23% Similarity=0.445 Sum_probs=26.3
Q ss_pred ccCCCcEEEEEecCCCccchhhhHHHH-------------------HHHHHHHhCCCCCCCEEEEe
Q 033156 38 TMHTNNWAVLVCTSRFWFNYRHMANTL-------------------SLYRTVKRLGVPDERIILML 84 (126)
Q Consensus 38 ~~~~~nwAVlvagS~~w~NYRHqAdv~-------------------~~Y~~Lk~~Gi~denIIlm~ 84 (126)
+...++|.++-. ||.|-|..-..+ .+=+.|-+.|||.++|+|=+
T Consensus 35 D~e~dhYll~~~---GW~~~~ri~g~~iH~dI~dgKIWIq~d~TE~gIa~eLve~GVpk~dIVLgF 97 (111)
T PF08869_consen 35 DTERDHYLLMSV---GWDNQRRIHGCLIHLDIKDGKIWIQRDGTEDGIAEELVEAGVPKEDIVLGF 97 (111)
T ss_dssp ETTTTEEEEEEE---EEETTEEEEEEEEEEEEETTEEEEEEESSSSHHHHHHHHTT--GGGEEETT
T ss_pred eCCCCEEEEEEe---eEECCEEEEEEEEEEEEECCeEEEEcCchhhHHHHHHHHcCCCHHHEEEcc
Confidence 334566666654 788766432111 34467889999999999743
No 48
>cd06217 FNR_iron_sulfur_binding_3 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap between the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form
Probab=28.70 E-value=29 Score=26.25 Aligned_cols=29 Identities=34% Similarity=0.535 Sum_probs=22.4
Q ss_pred EEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEE
Q 033156 45 AVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERII 81 (126)
Q Consensus 45 AVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denII 81 (126)
.|.+||+..+- -...+.|++.|+|.++|.
T Consensus 203 ~v~icGp~~m~--------~~v~~~l~~~Gv~~~~i~ 231 (235)
T cd06217 203 RVYVCGPPAFV--------EAATRLLLELGVPRDRIR 231 (235)
T ss_pred EEEEECCHHHH--------HHHHHHHHHcCCCHHHEe
Confidence 57778876543 367788999999999985
No 49
>COG0035 Upp Uracil phosphoribosyltransferase [Nucleotide transport and metabolism]
Probab=27.86 E-value=71 Score=26.13 Aligned_cols=23 Identities=13% Similarity=0.247 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHhCCCCCCCEEEEe
Q 033156 61 ANTLSLYRTVKRLGVPDERIILML 84 (126)
Q Consensus 61 Adv~~~Y~~Lk~~Gi~denIIlm~ 84 (126)
+.++.+-+.||++| ++++|+++.
T Consensus 138 ~s~i~ai~~L~~~G-~~~~I~~v~ 160 (210)
T COG0035 138 GSAIAAIDLLKKRG-GPKNIKVVS 160 (210)
T ss_pred HhHHHHHHHHHHhC-CCceEEEEE
Confidence 46789999999999 999999875
No 50
>cd06185 PDR_like Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur [2Fe-2S] cluster domain. Although structurally homologous to FNR, PDR binds FMN rather than FAD in it's FNR-like domain. Electron transfer between pyrimidines and iron-sulfur clusters (Rieske center [2Fe-2S]) or heme groups is mediated by flavins in respiration, photosynthesis, and oxygenase systems. Type I dioxygenase systems, including the hydroxylate phthalate system, have 2 components, a monomeric reductase consisting of a flavin and a 2Fe-2S center and a multimeric oxygenase. In contrast to other Rieske dioxygenases the ferredoxin like domain is C-, not N-terminal.
Probab=27.49 E-value=81 Score=23.46 Aligned_cols=31 Identities=23% Similarity=0.310 Sum_probs=23.9
Q ss_pred EEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEE
Q 033156 44 WAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 44 wAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIl 82 (126)
-.|.+||+... +-.+.+.|++.|++.++|..
T Consensus 177 ~~vyicGp~~m--------~~~~~~~l~~~gv~~~~i~~ 207 (211)
T cd06185 177 THVYVCGPEGM--------MDAVRAAAAALGWPEARLHF 207 (211)
T ss_pred CEEEEECCHHH--------HHHHHHHHHHcCCChhheEe
Confidence 46788888643 44677889999999999974
No 51
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=27.18 E-value=60 Score=16.89 Aligned_cols=18 Identities=28% Similarity=0.423 Sum_probs=14.6
Q ss_pred hHHHHHHHHHHHhCCCCC
Q 033156 60 MANTLSLYRTVKRLGVPD 77 (126)
Q Consensus 60 qAdv~~~Y~~Lk~~Gi~d 77 (126)
...++..++.+++.|+++
T Consensus 17 ~~~a~~~~~~M~~~gv~P 34 (34)
T PF13812_consen 17 PDAALQLFDEMKEQGVKP 34 (34)
T ss_pred HHHHHHHHHHHHHhCCCC
Confidence 455788999999999875
No 52
>PF07859 Abhydrolase_3: alpha/beta hydrolase fold A web page of Esterases and alpha/beta hydrolases.; InterPro: IPR013094 The alpha/beta hydrolase fold [] is common to a number of hydrolytic enzymes of widely differing phylogenetic origin and catalytic function. The core of each enzyme is an alpha/beta-sheet (rather than a barrel), containing 8 strands connected by helices []. The enzymes are believed to have diverged from a common ancestor, preserving the arrangement of the catalytic residues. All have a catalytic triad, the elements of which are borne on loops, which are the best conserved structural features of the fold. Esterase (EST) from Pseudomonas putida is a member of the alpha/beta hydrolase fold superfamily of enzymes []. In most of the family members the beta-strands are parallels, but some have an inversion of the first strands, which gives it an antiparallel orientation. The catalytic triad residues are presented on loops. One of these is the nucleophile elbow and is the most conserved feature of the fold. Some other members lack one or all of the catalytic residues. Some members are therefore inactive but others are involved in surface recognition. The ESTHER database [] gathers and annotates all the published information related to gene and protein sequences of this superfamily []. This entry represents the catalytic domain fold-3 of alpha/beta hydrolase. ; GO: 0016787 hydrolase activity, 0008152 metabolic process; PDB: 3D7R_B 2C7B_B 3ZWQ_B 2YH2_B 3BXP_A 3D3N_A 1LZK_A 1LZL_A 2O7V_A 2O7R_A ....
Probab=27.05 E-value=36 Score=24.94 Aligned_cols=25 Identities=28% Similarity=0.542 Sum_probs=22.2
Q ss_pred hhHHHHHHHHHHHhC----CCCCCCEEEE
Q 033156 59 HMANTLSLYRTVKRL----GVPDERIILM 83 (126)
Q Consensus 59 HqAdv~~~Y~~Lk~~----Gi~denIIlm 83 (126)
..-|+..+|+.++++ |++.++|+++
T Consensus 48 ~~~D~~~a~~~l~~~~~~~~~d~~~i~l~ 76 (211)
T PF07859_consen 48 ALEDVKAAYRWLLKNADKLGIDPERIVLI 76 (211)
T ss_dssp HHHHHHHHHHHHHHTHHHHTEEEEEEEEE
T ss_pred cccccccceeeeccccccccccccceEEe
Confidence 567899999999998 8999999986
No 53
>TIGR02911 sulfite_red_B sulfite reductase, subunit B. Members of this protein family include the B subunit, one of three subunits, of the anaerobic sulfite reductase of Salmonella, and close homologs from various Clostridum species, where the three-gene neighborhood is preserved. Two such gene clusters are found in Clostridium perfringens, but it may be that these sets of genes correspond to the distinct assimilatory and dissimilatory forms as seen in Clostridium pasteurianum.
Probab=26.16 E-value=61 Score=25.81 Aligned_cols=39 Identities=15% Similarity=0.281 Sum_probs=29.7
Q ss_pred EEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEEEecCccCC
Q 033156 44 WAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIILMLADDMAC 90 (126)
Q Consensus 44 wAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~~DDia~ 90 (126)
.-|+++|+.+.- -.+-+.|++.|+++++|.+.+-.-+.|
T Consensus 191 ~~v~lCGp~~mv--------~~~~~~L~~~Gv~~~~i~~~~~~~m~c 229 (261)
T TIGR02911 191 VQAIVVGPPIMM--------KFTVQELLKKGIKEENIWVSYERKMCC 229 (261)
T ss_pred eEEEEECCHHHH--------HHHHHHHHHcCCCHHHEEEEeccceec
Confidence 457777776654 236677899999999999988877766
No 54
>KOG1546 consensus Metacaspase involved in regulation of apoptosis [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=25.95 E-value=71 Score=28.27 Aligned_cols=45 Identities=22% Similarity=0.428 Sum_probs=32.2
Q ss_pred ccCCCcEEEEEecCCCccchhhh--------HHHHHHHHHHH-hCCCCCCCEEEEecCc
Q 033156 38 TMHTNNWAVLVCTSRFWFNYRHM--------ANTLSLYRTVK-RLGVPDERIILMLADD 87 (126)
Q Consensus 38 ~~~~~nwAVlvagS~~w~NYRHq--------Adv~~~Y~~Lk-~~Gi~denIIlm~~DD 87 (126)
..++++-|||+.- ||+-+ .||-+|.+.|. |.||+.|+|.++.-+|
T Consensus 59 ~~~gkrrAvLiGI-----NY~gTk~ELrGCINDv~~M~~~Lv~rfGFs~ddI~~LtDt~ 112 (362)
T KOG1546|consen 59 QMAGKRRAVLIGI-----NYPGTKNELRGCINDVHRMRKLLVERFGFSEDDILMLTDTD 112 (362)
T ss_pred cccccceEEEEee-----cCCCcHHHHhhhHHHHHHHHHHHHHhhCCChhheEEEecCC
Confidence 4567888999984 56554 46778888665 5699999987655444
No 55
>COG2859 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.11 E-value=86 Score=26.29 Aligned_cols=16 Identities=19% Similarity=0.422 Sum_probs=13.2
Q ss_pred HHHHhCCCCCCCEEEE
Q 033156 68 RTVKRLGVPDERIILM 83 (126)
Q Consensus 68 ~~Lk~~Gi~denIIlm 83 (126)
+.|.++|||+++|++=
T Consensus 84 afl~~~gi~e~~Ismg 99 (237)
T COG2859 84 AFLQAQGIPEAEISMG 99 (237)
T ss_pred HHHHHcCCCHHHhhcC
Confidence 4678899999999864
No 56
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=25.07 E-value=98 Score=21.68 Aligned_cols=28 Identities=21% Similarity=0.250 Sum_probs=18.4
Q ss_pred hhhHHHHHHHHHHHhCCCCCCCEEEEecCc
Q 033156 58 RHMANTLSLYRTVKRLGVPDERIILMLADD 87 (126)
Q Consensus 58 RHqAdv~~~Y~~Lk~~Gi~denIIlm~~DD 87 (126)
++.+.++..-+ +..|+|+|+|.+.+.|-
T Consensus 76 ~l~~~i~~~l~--~~lgi~~~rv~I~f~~~ 103 (116)
T PTZ00397 76 SIAAAITKILA--SHLKVKSERVYIEFKDC 103 (116)
T ss_pred HHHHHHHHHHH--HHhCcCcccEEEEEEEC
Confidence 34444444433 56799999999877653
No 57
>PF07804 HipA_C: HipA-like C-terminal domain; InterPro: IPR012893 The members of this entry are similar to a region close to the C terminus of the HipA protein expressed by various bacterial species (for example P23874 from SWISSPROT). This protein is known to be involved in high-frequency persistence to the lethal effects of inhibition of either DNA or peptidoglycan synthesis []. When expressed alone, it is toxic to bacterial cells [], but it is usually tightly associated with HipB [], and the HipA-HipB complex may be involved in autoregulation of the hip operon. The hip proteins may be involved in cell division control and may interact with cell division genes or their products []. ; PDB: 3AKL_D 3AKJ_B 3AKK_D 2WIU_C 3HZI_A 3DNT_B 3FBR_A 3DNU_A 3DNV_A.
Probab=24.87 E-value=83 Score=20.65 Aligned_cols=17 Identities=29% Similarity=0.452 Sum_probs=11.8
Q ss_pred cccCCCcEEEEEecCCCc
Q 033156 37 TTMHTNNWAVLVCTSRFW 54 (126)
Q Consensus 37 ~~~~~~nwAVlvagS~~w 54 (126)
.+.|.+||+++.. +.+|
T Consensus 56 ~D~H~kN~s~l~~-~~~~ 72 (79)
T PF07804_consen 56 TDRHLKNFSFLYD-GGGW 72 (79)
T ss_dssp S---CCCSEEEEE-CCEE
T ss_pred CcCCcCCEEEEEc-CCeE
Confidence 5789999999999 6666
No 58
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=24.39 E-value=67 Score=23.27 Aligned_cols=9 Identities=11% Similarity=0.508 Sum_probs=4.9
Q ss_pred ccCCCcEEE
Q 033156 38 TMHTNNWAV 46 (126)
Q Consensus 38 ~~~~~nwAV 46 (126)
......|.+
T Consensus 33 P~~gt~w~~ 41 (130)
T PF12273_consen 33 PIYGTRWMA 41 (130)
T ss_pred CcCCceecC
Confidence 445566665
No 59
>cd06221 sulfite_reductase_like Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is linked to ferredoxin and reduces NH2OH and SeO3 at a lesser rate than it's normal substate SO3(2-). Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+.
Probab=24.18 E-value=67 Score=25.28 Aligned_cols=34 Identities=29% Similarity=0.507 Sum_probs=26.5
Q ss_pred cEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEEEe
Q 033156 43 NWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIILML 84 (126)
Q Consensus 43 nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~ 84 (126)
+-.|.++|+.++ +-.+-+.|++.|+++++|...+
T Consensus 190 ~~~vyicGp~~m--------v~~~~~~L~~~Gv~~~~i~~~~ 223 (253)
T cd06221 190 NTVAIVCGPPIM--------MRFVAKELLKLGVPEEQIWVSL 223 (253)
T ss_pred CcEEEEECCHHH--------HHHHHHHHHHcCCCHHHEEEeh
Confidence 346788888776 2346678899999999999887
No 60
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=24.04 E-value=73 Score=20.75 Aligned_cols=24 Identities=21% Similarity=0.520 Sum_probs=18.8
Q ss_pred hhhhHHHHHHHHHHHhCCCCCCCEE
Q 033156 57 YRHMANTLSLYRTVKRLGVPDERII 81 (126)
Q Consensus 57 YRHqAdv~~~Y~~Lk~~Gi~denII 81 (126)
...+.+++.+.+.||++|++ -.+|
T Consensus 8 F~st~~a~~~ek~lk~~gi~-~~li 31 (73)
T PF11823_consen 8 FPSTHDAMKAEKLLKKNGIP-VRLI 31 (73)
T ss_pred ECCHHHHHHHHHHHHHCCCc-EEEe
Confidence 34688999999999999993 3444
No 61
>PF01187 MIF: Macrophage migration inhibitory factor (MIF); InterPro: IPR001398 Macrophage migration inhibitory factor (MIF) is a key regulatory cytokine within innate and adaptive immune responses, capable of promoting and modulating the magnitude of the response []. MIF is released from T-cells and macrophages, and acts within the neuroendocrine system. MIF is capable of tautomerase activity, although its biological function has not been fully characterised. It is induced by glucocorticoid and is capable of overriding the anti-inflammatory actions of glucocorticoid []. MIF regulates cytokine secretion and the expression of receptors involved in the immune response. It can be taken up into target cells in order to interact with intracellular signalling molecules, inhibiting p53 function, and/or activating components of the mitogen-activated protein kinase and Jun-activation domain-binding protein-1 (Jab-1) []. MIF has been linked to various inflammatory diseases, such as rheumatoid arthritis and atherosclerosis []. The MIF homologue D-dopachrome tautomerase (4.1.1.84 from EC) is involved in detoxification through the conversion of dopaminechrome (and possibly norepinephrinechrome), the toxic quinine product of the neurotransmitter dopamine (and norepinephrine), to an indole derivative that can serve as a precursor to neuromelanin [, ].; PDB: 1UIZ_C 3FWT_A 1HFO_F 2WKB_D 3RF4_B 2OS5_A 3RF5_A 2XCZ_A 3FWU_A 3B64_A ....
Probab=23.71 E-value=63 Score=22.78 Aligned_cols=30 Identities=27% Similarity=0.450 Sum_probs=19.8
Q ss_pred cchhhhHHHHHHHHHHHhCCCCCCCEEEEecC
Q 033156 55 FNYRHMANTLSLYRTVKRLGVPDERIILMLAD 86 (126)
Q Consensus 55 ~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~~D 86 (126)
-|=++.+.++...+ ++.|||.++|.+-..|
T Consensus 71 ~n~~~s~~i~~~l~--~~LgIp~~Riyi~f~d 100 (114)
T PF01187_consen 71 QNKKYSAAITEFLE--EELGIPPDRIYINFHD 100 (114)
T ss_dssp HHHHHHHHHHHHHH--HHHT--GGGEEEEEEE
T ss_pred HHHHHHHHHHHHHH--HHhCCCcCceEEEEEE
Confidence 34466666666655 7889999999887654
No 62
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=23.50 E-value=1.9e+02 Score=21.00 Aligned_cols=40 Identities=30% Similarity=0.301 Sum_probs=31.9
Q ss_pred EEEEEecCC------CccchhhhHHHHHHHHHHHhCCCCCCCEEEE
Q 033156 44 WAVLVCTSR------FWFNYRHMANTLSLYRTVKRLGVPDERIILM 83 (126)
Q Consensus 44 wAVlvagS~------~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm 83 (126)
..|+|.|=. .+-||+=..-+-.+-++|.+.|+++|+|-+.
T Consensus 54 DGV~V~gC~~g~Ch~~~Gn~~a~~Rv~~~k~~L~~~Gi~~eRv~~~ 99 (124)
T PF02662_consen 54 DGVLVAGCHPGDCHYREGNYRAEKRVERLKKLLEELGIEPERVRLY 99 (124)
T ss_pred CEEEEeCCCCCCCCcchhhHHHHHHHHHHHHHHHHcCCChhHeEEE
Confidence 367775544 3678888888889999999999999999874
No 63
>PTZ00319 NADH-cytochrome B5 reductase; Provisional
Probab=23.18 E-value=56 Score=26.75 Aligned_cols=35 Identities=9% Similarity=0.312 Sum_probs=25.6
Q ss_pred CcEEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEEE
Q 033156 42 NNWAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIILM 83 (126)
Q Consensus 42 ~nwAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm 83 (126)
++.-|.+||+.+.-.. ...+.|++.|++.+||..|
T Consensus 266 ~~~~vyiCGp~~mv~~-------~~~~~L~~~G~~~~~i~~~ 300 (300)
T PTZ00319 266 KKVMALMCGPPPMLQM-------AVKPNLEKIGYTADNMFTF 300 (300)
T ss_pred CCeEEEEECCHHHHHH-------HHHHHHHHcCCCHHHEEEC
Confidence 3467888888776421 2367899999999999754
No 64
>COG0657 Aes Esterase/lipase [Lipid metabolism]
Probab=22.95 E-value=97 Score=24.67 Aligned_cols=25 Identities=20% Similarity=0.429 Sum_probs=21.1
Q ss_pred hhHHHHHHHHHHHhC----CCCCCCEEEE
Q 033156 59 HMANTLSLYRTVKRL----GVPDERIILM 83 (126)
Q Consensus 59 HqAdv~~~Y~~Lk~~----Gi~denIIlm 83 (126)
+--|+..+|+.++++ |++.++|+++
T Consensus 129 ~~~d~~~a~~~l~~~~~~~g~dp~~i~v~ 157 (312)
T COG0657 129 ALEDAYAAYRWLRANAAELGIDPSRIAVA 157 (312)
T ss_pred hHHHHHHHHHHHHhhhHhhCCCccceEEE
Confidence 456788999999877 7999999986
No 65
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=22.92 E-value=1e+02 Score=22.12 Aligned_cols=7 Identities=14% Similarity=-0.064 Sum_probs=3.4
Q ss_pred cCCCccc
Q 033156 50 TSRFWFN 56 (126)
Q Consensus 50 gS~~w~N 56 (126)
+-.+|.|
T Consensus 59 ~~~~f~N 65 (85)
T PF10717_consen 59 PQMGFTN 65 (85)
T ss_pred Ccccccc
Confidence 3345554
No 66
>PRK12419 riboflavin synthase subunit beta; Provisional
Probab=22.14 E-value=3.1e+02 Score=21.42 Aligned_cols=39 Identities=10% Similarity=0.246 Sum_probs=26.0
Q ss_pred CCcEEEEEecCCCccchhhhHHHH-HHHHHHHhCCCCCCCEEEE
Q 033156 41 TNNWAVLVCTSRFWFNYRHMANTL-SLYRTVKRLGVPDERIILM 83 (126)
Q Consensus 41 ~~nwAVlvagS~~w~NYRHqAdv~-~~Y~~Lk~~Gi~denIIlm 83 (126)
.-+.+|+++ | | |-..+...+ .+.+.|+++|+++++|-++
T Consensus 10 ~~riaIV~s--r-f-n~~It~~Ll~gA~~~l~~~G~~~~~i~v~ 49 (158)
T PRK12419 10 PQRIAFIQA--R-W-HADIVDQARKGFVAEIAARGGAASQVDIF 49 (158)
T ss_pred CCEEEEEEe--c-C-CHHHHHHHHHHHHHHHHHcCCCccceEEE
Confidence 346777765 3 3 333333333 6788999999999998766
No 67
>cd01826 acyloxyacyl_hydrolase_like Acyloxyacyl-hydrolase like subfamily of the SGNH-hydrolase family. Acyloxyacyl-hydrolase is a leukocyte-secreted enzyme that deacetylates bacterial lipopolysaccharides.
Probab=21.87 E-value=1.4e+02 Score=25.65 Aligned_cols=41 Identities=12% Similarity=0.030 Sum_probs=30.8
Q ss_pred chhhhHHHHHHHHHHHhCCCCCCCEEEEecCc------cCCCCCCCC
Q 033156 56 NYRHMANTLSLYRTVKRLGVPDERIILMLADD------MACNARNKY 96 (126)
Q Consensus 56 NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~~DD------ia~nprNp~ 96 (126)
--.+.+|...+.+.||+.+-|..+|+++---| ..|+...|+
T Consensus 148 ~eefr~NL~~~L~~Lr~~lP~~s~ViLvgmpd~~~L~~~~~~r~hpl 194 (305)
T cd01826 148 PEEFYENVMEALKYLDTKLPNGSHVILVGLVDGRILYDTLHNRLHPI 194 (305)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCEEEEEeccchhhhhhhhccccccc
Confidence 35677899999999999987778999994444 555555554
No 68
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=21.54 E-value=1.3e+02 Score=22.53 Aligned_cols=28 Identities=18% Similarity=0.156 Sum_probs=22.7
Q ss_pred HHHHHHHHhCCCCCCCEEEEecCccCCC
Q 033156 64 LSLYRTVKRLGVPDERIILMLADDMACN 91 (126)
Q Consensus 64 ~~~Y~~Lk~~Gi~denIIlm~~DDia~n 91 (126)
..+.+.|+++|++++.+.++-+|+....
T Consensus 196 ~~~~~~l~~~g~~~~di~ivg~d~~~~~ 223 (272)
T cd06301 196 LGAIMALKAAGKSDKDVPVAGIDGTPDA 223 (272)
T ss_pred HHHHHHHHHcCCCCCCcEEEeeCCCHHH
Confidence 3678899999998888999999887543
No 69
>KOG1600 consensus Fatty acid desaturase [Lipid transport and metabolism]
Probab=21.51 E-value=68 Score=27.97 Aligned_cols=23 Identities=30% Similarity=0.650 Sum_probs=18.3
Q ss_pred ccCCCcEEEEEecCCCccchhhh
Q 033156 38 TMHTNNWAVLVCTSRFWFNYRHM 60 (126)
Q Consensus 38 ~~~~~nwAVlvagS~~w~NYRHq 60 (126)
++..+-|..+++-..||.||.|.
T Consensus 248 ~s~nn~~~s~~t~GEgwHNyHH~ 270 (321)
T KOG1600|consen 248 TSRNNWWVSILTFGEGWHNYHHA 270 (321)
T ss_pred CcccceEEEEEEecccccccccc
Confidence 44555677788999999999985
No 70
>PRK08221 anaerobic sulfite reductase subunit B; Provisional
Probab=21.28 E-value=82 Score=25.10 Aligned_cols=39 Identities=18% Similarity=0.301 Sum_probs=26.2
Q ss_pred EEEEEecCCCccchhhhHHHHHHHHHHHhCCCCCCCEEEEecCccCC
Q 033156 44 WAVLVCTSRFWFNYRHMANTLSLYRTVKRLGVPDERIILMLADDMAC 90 (126)
Q Consensus 44 wAVlvagS~~w~NYRHqAdv~~~Y~~Lk~~Gi~denIIlm~~DDia~ 90 (126)
.-++++|+.++-. .+-+.|++.|+|+++|..-+-.-++|
T Consensus 193 ~~vylCGp~~mv~--------~~~~~L~~~Gv~~~~i~~~~~~~m~c 231 (263)
T PRK08221 193 MQVIVVGPPIMMK--------FTVLEFLKRGIKEENIWVSYERKMCC 231 (263)
T ss_pred eEEEEECCHHHHH--------HHHHHHHHcCCCHHHEEEEecceeEc
Confidence 3466666665543 35567889999999998765554444
No 71
>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends. Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].
Probab=21.21 E-value=72 Score=24.15 Aligned_cols=14 Identities=36% Similarity=0.600 Sum_probs=12.3
Q ss_pred HHHHHHHHHHhCCC
Q 033156 62 NTLSLYRTVKRLGV 75 (126)
Q Consensus 62 dv~~~Y~~Lk~~Gi 75 (126)
-+...||-|||+|+
T Consensus 43 ~I~~lYqslkRN~i 56 (120)
T PF08579_consen 43 IINPLYQSLKRNGI 56 (120)
T ss_pred HHHHHHHHHHhcCC
Confidence 46789999999998
No 72
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=21.01 E-value=1.3e+02 Score=23.93 Aligned_cols=28 Identities=18% Similarity=0.197 Sum_probs=22.9
Q ss_pred HHHHHHHHHhCCCC-CCCEEEEecCccCC
Q 033156 63 TLSLYRTVKRLGVP-DERIILMLADDMAC 90 (126)
Q Consensus 63 v~~~Y~~Lk~~Gi~-denIIlm~~DDia~ 90 (126)
++.+++.|+++|+. ++.|.++-+||...
T Consensus 249 A~g~~~al~~~G~~vP~disVigfD~~~~ 277 (343)
T PRK10727 249 AAGAMGVLNDNGIDVPGEISLIGFDDVLV 277 (343)
T ss_pred HHHHHHHHHHcCCCCCcceeEEeecCcHH
Confidence 45788999999975 67799999999753
No 73
>PRK02710 plastocyanin; Provisional
Probab=20.42 E-value=1.8e+02 Score=20.64 Aligned_cols=16 Identities=6% Similarity=-0.053 Sum_probs=9.1
Q ss_pred CCCcEEEEEecCCCcc
Q 033156 40 HTNNWAVLVCTSRFWF 55 (126)
Q Consensus 40 ~~~nwAVlvagS~~w~ 55 (126)
.++..-|.+.+..+++
T Consensus 27 ~a~~~~V~~~~~~~~~ 42 (119)
T PRK02710 27 SAETVEVKMGSDAGML 42 (119)
T ss_pred ccceEEEEEccCCCee
Confidence 4556667776544444
No 74
>PF08541 ACP_syn_III_C: 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal ; InterPro: IPR013747 This domain is found on 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III 2.3.1.41 from EC, the enzyme responsible for initiating the chain of reactions of the fatty acid synthase in plants and bacteria. ; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups, 0008610 lipid biosynthetic process; PDB: 3IL3_A 1ZOW_C 3GWE_B 3GWA_B 1UB7_B 3LED_B 2EBD_A 1HNJ_A 2EFT_B 1HN9_B ....
Probab=20.18 E-value=47 Score=21.84 Aligned_cols=24 Identities=42% Similarity=0.504 Sum_probs=16.6
Q ss_pred hhHHHHHHHHHHHhCCCCCCCEEE
Q 033156 59 HMANTLSLYRTVKRLGVPDERIIL 82 (126)
Q Consensus 59 HqAdv~~~Y~~Lk~~Gi~denIIl 82 (126)
||.+.-..-++.++.|+|.|+++.
T Consensus 17 hq~~~~~~~~~~~~lgi~~~~~~~ 40 (90)
T PF08541_consen 17 HQASKKILDSIAKRLGIPPERFPD 40 (90)
T ss_dssp -SSSHHHHHHHHHHHTS-GGGBE-
T ss_pred CCCCHHHHHHHHHHcCCcHHHHHH
Confidence 777777777788888999887764
No 75
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=20.12 E-value=1.6e+02 Score=22.31 Aligned_cols=42 Identities=12% Similarity=0.169 Sum_probs=30.5
Q ss_pred HHHHHHHHHhCCCCCCCEEEEecCccCCCC------CCCCCCeEEeCC
Q 033156 63 TLSLYRTVKRLGVPDERIILMLADDMACNA------RNKYPAQVFNNE 104 (126)
Q Consensus 63 v~~~Y~~Lk~~Gi~denIIlm~~DDia~np------rNp~pG~if~~~ 104 (126)
+..+++.+++.|+.++.|.++-.|+....+ .+|.-+.|..++
T Consensus 206 a~g~~~al~~~g~~~~di~vig~d~~~~~~~~~~~~~~~~~ttv~~~~ 253 (289)
T cd01540 206 VLGAVRATEQSGIAAADVIGVGINGSDAADEESKKQPTGFYGTVLISP 253 (289)
T ss_pred HHHHHHHHHHcCCCCcceEEEecCCchhHHHHhcccCCceEEEEeeCh
Confidence 456889999999988899999999875443 244456665554
Done!