Query psy4704
Match_columns 123
No_of_seqs 171 out of 522
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 23:44:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4704.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4704hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1233|consensus 99.8 1.6E-19 3.4E-24 155.6 4.4 56 5-61 115-170 (613)
2 PF00183 HSP90: Hsp90 protein; 99.0 1.6E-10 3.5E-15 101.6 1.0 69 54-123 462-531 (531)
3 KOG0020|consensus 98.9 5.1E-10 1.1E-14 99.4 2.6 43 53-95 710-752 (785)
4 PTZ00272 heat shock protein 83 98.6 2.2E-08 4.9E-13 90.9 3.0 67 54-123 635-701 (701)
5 KOG0019|consensus 98.5 2.3E-08 5E-13 89.7 1.1 38 54-91 612-649 (656)
6 PTZ00130 heat shock protein 90 97.9 2.9E-06 6.4E-11 78.4 1.4 41 54-94 723-763 (814)
7 PRK05218 heat shock protein 90 96.6 0.00065 1.4E-08 61.0 0.8 35 54-88 579-613 (613)
8 COG0326 HtpG Molecular chapero 96.1 0.0019 4.1E-08 58.6 0.8 63 25-87 546-622 (623)
9 PRK14083 HSP90 family protein; 95.1 0.0071 1.5E-07 54.6 0.5 37 54-90 558-596 (601)
10 cd07581 nitrilase_3 Uncharacte 61.3 10 0.00022 29.1 3.2 21 50-72 29-49 (255)
11 PLN02805 D-lactate dehydrogena 59.8 12 0.00026 33.6 3.8 49 5-61 94-143 (555)
12 TIGR00546 lnt apolipoprotein N 57.5 10 0.00023 31.6 2.9 32 51-84 197-228 (391)
13 PF02401 LYTB: LytB protein; 55.9 7.9 0.00017 32.1 1.9 61 6-85 40-106 (281)
14 cd07580 nitrilase_2 Uncharacte 55.9 9.2 0.0002 29.8 2.2 21 51-73 32-52 (268)
15 TIGR02263 benz_CoA_red_C benzo 50.6 19 0.00042 30.4 3.5 72 7-84 145-221 (380)
16 PRK00302 lnt apolipoprotein N- 50.2 18 0.00039 31.4 3.2 33 50-84 256-288 (505)
17 cd07197 nitrilase Nitrilase su 49.7 21 0.00045 26.9 3.2 21 50-72 30-50 (253)
18 PF03540 TFIID_30kDa: Transcri 47.1 6.6 0.00014 25.0 0.1 28 51-85 3-30 (51)
19 cd07583 nitrilase_5 Uncharacte 46.8 24 0.00051 27.1 3.1 21 50-72 31-51 (253)
20 PRK12360 4-hydroxy-3-methylbut 46.8 13 0.00028 30.9 1.8 47 6-54 43-97 (281)
21 TIGR00216 ispH_lytB (E)-4-hydr 45.4 17 0.00037 30.1 2.3 47 6-54 41-94 (280)
22 cd07577 Ph0642_like Pyrococcus 45.2 19 0.00041 27.8 2.4 19 52-72 30-48 (259)
23 PRK09198 putative nicotinate p 44.3 6.2 0.00013 35.1 -0.5 80 5-84 61-158 (463)
24 PRK01045 ispH 4-hydroxy-3-meth 43.8 15 0.00034 30.7 1.8 47 6-54 42-94 (298)
25 cd07570 GAT_Gln-NAD-synth Glut 42.7 11 0.00025 29.0 0.8 20 50-71 31-50 (261)
26 cd07572 nit Nit1, Nit 2, and r 42.5 17 0.00036 28.0 1.7 20 50-71 30-49 (265)
27 cd07585 nitrilase_7 Uncharacte 41.3 16 0.00035 28.1 1.5 21 50-72 31-51 (261)
28 cd07571 ALP_N-acyl_transferase 40.3 33 0.00073 27.1 3.2 32 50-84 38-69 (270)
29 PRK01964 4-oxalocrotonate taut 39.0 23 0.0005 22.0 1.7 30 63-92 8-37 (64)
30 cd07576 R-amidase_like Pseudom 38.9 19 0.00041 27.5 1.5 19 50-70 31-49 (254)
31 cd07578 nitrilase_1_R1 First n 38.6 25 0.00055 27.2 2.2 19 52-72 34-52 (258)
32 PRK13287 amiF formamidase; Pro 38.2 16 0.00034 30.4 1.0 17 52-70 53-69 (333)
33 PF06858 NOG1: Nucleolar GTP-b 37.7 29 0.00062 22.7 2.0 34 50-83 12-45 (58)
34 PRK11183 D-lactate dehydrogena 36.8 45 0.00098 30.6 3.8 45 6-61 2-48 (564)
35 PLN02821 1-hydroxy-2-methyl-2- 36.6 23 0.0005 31.7 1.8 46 6-53 148-205 (460)
36 cd03769 SR_IS607_transposase_l 35.9 94 0.002 22.3 4.7 53 19-84 65-117 (134)
37 cd07584 nitrilase_6 Uncharacte 35.6 23 0.00049 27.3 1.5 18 51-70 32-49 (258)
38 cd07575 Xc-1258_like Xanthomon 35.4 50 0.0011 25.5 3.4 19 51-71 32-50 (252)
39 PRK13981 NAD synthetase; Provi 34.9 36 0.00078 29.9 2.8 20 50-71 32-51 (540)
40 COG3002 Uncharacterized protei 33.9 24 0.00052 33.4 1.6 31 56-86 528-558 (880)
41 PF11848 DUF3368: Domain of un 33.6 43 0.00093 20.3 2.2 27 7-33 22-48 (48)
42 PF12993 DUF3877: Domain of un 33.2 46 0.001 26.2 2.8 17 28-44 103-119 (175)
43 cd07586 nitrilase_8 Uncharacte 33.1 24 0.00052 27.3 1.3 21 50-72 31-51 (269)
44 PRK00087 4-hydroxy-3-methylbut 32.6 32 0.0007 31.2 2.1 47 6-54 42-94 (647)
45 TIGR01529 argR_whole arginine 32.5 40 0.00088 25.0 2.4 29 5-33 18-46 (146)
46 PRK10219 DNA-binding transcrip 32.4 22 0.00047 24.1 0.8 64 18-83 31-96 (107)
47 PF01646 Herpes_UL24: Herpes v 32.3 74 0.0016 24.9 3.9 44 39-85 53-111 (179)
48 COG0815 Lnt Apolipoprotein N-a 31.8 42 0.0009 30.0 2.7 32 50-84 267-298 (518)
49 PRK13371 4-hydroxy-3-methylbut 31.1 32 0.00069 30.1 1.8 47 6-54 80-138 (387)
50 PRK14328 (dimethylallyl)adenos 30.6 1.2E+02 0.0026 26.0 5.2 80 4-87 241-328 (439)
51 cd07579 nitrilase_1_R2 Second 30.4 50 0.0011 26.4 2.7 18 50-69 30-47 (279)
52 PF13592 HTH_33: Winged helix- 29.9 41 0.00089 21.0 1.7 28 9-36 10-38 (60)
53 PTZ00372 endonuclease 4-like p 29.7 88 0.0019 27.5 4.3 49 30-80 281-330 (413)
54 PRK06294 coproporphyrinogen II 29.6 1.9E+02 0.0041 24.3 6.1 73 4-87 100-184 (370)
55 PRK00745 4-oxalocrotonate taut 29.5 43 0.00094 20.4 1.8 30 63-92 8-37 (62)
56 cd07573 CPA N-carbamoylputresc 29.3 33 0.0007 26.8 1.4 20 50-71 31-50 (284)
57 PF08241 Methyltransf_11: Meth 29.1 22 0.00047 22.1 0.3 57 17-85 24-89 (95)
58 TIGR03381 agmatine_aguB N-carb 29.1 35 0.00075 26.5 1.6 20 50-71 31-50 (279)
59 TIGR03190 benz_CoA_bzdN benzoy 29.0 69 0.0015 27.0 3.4 73 7-84 141-217 (377)
60 PRK12291 apolipoprotein N-acyl 28.8 51 0.0011 28.4 2.6 29 51-82 233-261 (418)
61 KOG3423|consensus 28.4 20 0.00043 28.3 0.1 43 35-85 72-114 (176)
62 PRK13255 thiopurine S-methyltr 28.1 31 0.00067 27.0 1.1 77 5-86 50-148 (218)
63 PF01316 Arg_repressor: Argini 28.1 54 0.0012 21.8 2.2 26 5-30 21-46 (70)
64 cd07582 nitrilase_4 Uncharacte 28.1 34 0.00074 27.3 1.4 19 52-72 43-61 (294)
65 COG0316 sufA Fe-S cluster asse 27.7 17 0.00037 26.3 -0.4 25 50-74 74-98 (110)
66 cd08315 Death_TRAILR_DR4_DR5 D 27.5 67 0.0015 22.3 2.6 27 19-45 16-42 (96)
67 PRK10438 C-N hydrolase family 27.5 38 0.00083 26.5 1.6 18 52-71 35-52 (256)
68 PRK09249 coproporphyrinogen II 27.5 1.8E+02 0.004 25.0 5.8 75 4-87 148-232 (453)
69 TIGR03840 TMPT_Se_Te thiopurin 27.3 29 0.00064 27.0 0.9 76 6-86 48-145 (213)
70 PRK09331 Sep-tRNA:Cys-tRNA syn 27.1 39 0.00085 27.9 1.6 35 8-42 335-371 (387)
71 PRK13347 coproporphyrinogen II 26.7 2.3E+02 0.005 24.4 6.3 74 3-87 148-233 (453)
72 TIGR02383 Hfq RNA chaperone Hf 26.4 46 0.001 21.9 1.5 18 4-21 2-19 (61)
73 KOG3883|consensus 26.2 42 0.00092 26.7 1.6 41 34-75 42-100 (198)
74 cd07566 ScNTA1_like Saccharomy 26.0 57 0.0012 26.6 2.4 20 51-72 36-55 (295)
75 PF08410 DUF1737: Domain of un 25.8 71 0.0015 20.5 2.3 20 70-89 12-31 (54)
76 PF12774 AAA_6: Hydrolytic ATP 25.7 31 0.00067 27.5 0.7 34 50-85 165-198 (231)
77 PF07905 PucR: Purine cataboli 25.5 79 0.0017 22.3 2.8 28 58-85 42-71 (123)
78 KOG2278|consensus 24.6 50 0.0011 26.5 1.7 26 27-52 44-69 (207)
79 PF04435 SPK: Domain of unknow 24.0 27 0.00059 23.7 0.1 28 2-30 72-99 (109)
80 TIGR00013 taut 4-oxalocrotonat 24.0 69 0.0015 19.5 2.0 28 65-92 10-37 (63)
81 PF06294 DUF1042: Domain of Un 23.9 44 0.00095 25.3 1.2 37 5-44 60-97 (158)
82 TIGR01574 miaB-methiolase tRNA 23.8 1.6E+02 0.0034 25.3 4.7 79 4-88 241-329 (438)
83 cd00491 4Oxalocrotonate_Tautom 23.3 72 0.0016 18.9 1.9 30 63-92 7-36 (58)
84 PRK14327 (dimethylallyl)adenos 23.3 1.6E+02 0.0034 26.3 4.8 79 4-88 306-394 (509)
85 cd07565 aliphatic_amidase alip 22.7 52 0.0011 26.5 1.5 17 51-69 39-55 (291)
86 PF13660 DUF4147: Domain of un 22.5 2.7E+02 0.0059 22.6 5.6 59 27-87 148-224 (238)
87 PRK02220 4-oxalocrotonate taut 22.4 67 0.0015 19.5 1.7 30 63-92 8-37 (61)
88 PTZ00397 macrophage migration 22.3 70 0.0015 22.2 1.9 28 65-92 67-94 (116)
89 PRK08446 coproporphyrinogen II 22.0 3.2E+02 0.007 22.6 6.1 73 4-87 95-179 (350)
90 COG4865 Glutamate mutase epsil 21.4 17 0.00036 32.2 -1.7 46 40-91 146-213 (485)
91 PF13373 DUF2407_C: DUF2407 C- 21.1 70 0.0015 23.9 1.8 22 24-47 2-23 (140)
92 smart00518 AP2Ec AP endonuclea 21.0 3.9E+02 0.0085 20.6 6.1 63 17-81 133-196 (273)
93 PF04343 DUF488: Protein of un 21.0 69 0.0015 22.4 1.7 32 42-76 9-40 (122)
94 PRK09502 iscA iron-sulfur clus 20.7 24 0.00053 24.6 -0.7 22 53-74 74-95 (107)
95 PRK00395 hfq RNA-binding prote 20.3 72 0.0016 22.1 1.6 40 3-63 5-44 (79)
96 PF01993 MTD: methylene-5,6,7, 20.3 2.4E+02 0.0053 23.7 4.9 63 4-79 134-197 (276)
No 1
>KOG1233|consensus
Probab=99.77 E-value=1.6e-19 Score=155.55 Aligned_cols=56 Identities=38% Similarity=0.689 Sum_probs=53.8
Q ss_pred HHHHHHHHHHhcccccccchhhhhhhccCchHHHHHHhhcCCccccccceEeecccc
Q psy4704 5 LQRSVLSLLEDTGVSLSTEGEDRLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYI 61 (123)
Q Consensus 5 ~~~~fl~~l~~~~~~~s~d~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetA 61 (123)
-|+.||..|++++|+||+++.|||||+||||+||||+||+|+| +||||+||||.|-
T Consensus 115 eNedflh~Lket~isyS~Ea~dRl~R~HGhtlhdi~~Lregkf-~RiPDiVvWP~ch 170 (613)
T KOG1233|consen 115 ENEDFLHFLKETKISYSNEARDRLMRGHGHTLHDIINLREGKF-PRIPDIVVWPKCH 170 (613)
T ss_pred cchHHHHHHHhccCccchhHHHHHHhhcCchHHHHHHHhcCcc-CCCCceEecccch
Confidence 4899999999999999999999999999999999999999999 7999999999873
No 2
>PF00183 HSP90: Hsp90 protein; InterPro: IPR001404 Molecular chaperones, or heat shock proteins (Hsps) are ubiquitous proteins that act to maintain proper protein folding within the cell []. They assist in the folding of nascent polypeptide chains, and are also involved in the re-folding of denatured proteins following proteotoxic stress. As their name implies, the heat shock proteins were first identified as proteins that were up-regulated under conditions of elevated temperature. However, subsequent studies have shown that increased Hsp expression is induced by a variety of cellular stresses, including oxidative stress and inflammation. Five major Hsp families have been determined, and are categorized according to their molecular size (Hsp100, Hsp90, Hsp70, Hsp60, and the small Hsps). Hsps are involved in a variety of cellular processes that are ATP-dependent. These include: prevention of protein aggregation, protein degradation, protein trafficking, and maintenance of signalling proteins in a conformation that permits activation. Hsp90 chaperones are unique in their ability to regulate a specific subset of cellular signalling proteins that have been implicated in disease processes, including intracellular protein kinases, steroid hormone receptors, and growth factor receptors [].; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding, 0006950 response to stress; PDB: 3K99_D 2H55_A 3RLP_A 1OSF_A 3R4M_A 1YES_A 1UY9_A 3FT8_A 2YE2_A 2QF6_A ....
Probab=98.96 E-value=1.6e-10 Score=101.60 Aligned_cols=69 Identities=32% Similarity=0.536 Sum_probs=39.5
Q ss_pred eEeeccccccccCCCCCChHHHHHHHHHHHHhcCCCCcccccccCCCCC-CCCCCCCCCccccccccccCC
Q psy4704 54 VVMWPEYIVLSSGFTLEEPQVHAARIHRMIKLGLGIEDEDEVATGDDVK-AGDIPVAEGEAEDASRMEEVD 123 (123)
Q Consensus 54 ~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~~L~i~~~~~~~~~e~~~-~~e~p~~e~~~~~~s~~EevD 123 (123)
+.++|++|+|+|||+++||+.|++||++||+.+||++.++.+.+++..+ .+++++.++.. +++++|+||
T Consensus 462 a~~LyD~AlL~~G~~l~dp~~F~~Ri~~lL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~e~vd 531 (531)
T PF00183_consen 462 AEQLYDTALLASGFELEDPAAFAKRINKLLEKSLGVDPDAEVEEEDEEEEEEEEEEEEEDK-EDSEMEEVD 531 (531)
T ss_dssp HHHHHHHHHHHTTSS-SSHHHHHHHHHHHHHHTTC--STTTTTTGGG-GGG---------------SSS--
T ss_pred HHHHhhhhhhhcCCCcccHHHHHHHHHHHHHHhcCCCcCCcccccccccccCCCCCCcCCC-cccccccCC
Confidence 6889999999999999999999999999999999998654432221111 11222222222 456788876
No 3
>KOG0020|consensus
Probab=98.92 E-value=5.1e-10 Score=99.35 Aligned_cols=43 Identities=33% Similarity=0.496 Sum_probs=39.6
Q ss_pred ceEeeccccccccCCCCCChHHHHHHHHHHHHhcCCCCccccc
Q psy4704 53 DVVMWPEYIVLSSGFTLEEPQVHAARIHRMIKLGLGIEDEDEV 95 (123)
Q Consensus 53 d~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~~L~i~~~~~~ 95 (123)
-++|+|+||+|.|||.+.||..||.||+.||+++|+|+.++.+
T Consensus 710 ~A~lmf~TAtlrSGf~L~d~~~fadrIe~~lr~sL~is~Da~v 752 (785)
T KOG0020|consen 710 TAVLMFETATLRSGFILQDTKDFADRIENMLRQSLNISPDAQV 752 (785)
T ss_pred HHHHHHHHHHhhcCccccchHHHHHHHHHHHHhhcCCCccccc
Confidence 4789999999999999999999999999999999999976543
No 4
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=98.60 E-value=2.2e-08 Score=90.87 Aligned_cols=67 Identities=43% Similarity=0.617 Sum_probs=49.2
Q ss_pred eEeeccccccccCCCCCChHHHHHHHHHHHHhcCCCCcccccccCCCCCCCCCCCCCCccccccccccCC
Q psy4704 54 VVMWPEYIVLSSGFTLEEPQVHAARIHRMIKLGLGIEDEDEVATGDDVKAGDIPVAEGEAEDASRMEEVD 123 (123)
Q Consensus 54 ~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~~L~i~~~~~~~~~e~~~~~e~p~~e~~~~~~s~~EevD 123 (123)
+.++|++|+|++||.++||..|++||++||+.+||++.++.+.+++ .++..++++..+ +++.+++||
T Consensus 635 a~~LyD~AlL~~G~~leDp~~f~~Ri~~lL~~~l~~~~~~~~~~~~--~~~~~~~~~~~~-~~~~~~~v~ 701 (701)
T PTZ00272 635 VFLLFDTSLLTSGFQLEDPTGYAERINRMIKLGLSLDEEEEEAAEA--PVAETAPAEVTA-GTSSMEQVD 701 (701)
T ss_pred HHHHHHHHHHhCCCCccCHHHHHHHHHHHHHHhcCCCccccccccc--cccccCCccccc-cccccccCC
Confidence 6799999999999999999999999999998899999654331111 122224444433 457888876
No 5
>KOG0019|consensus
Probab=98.53 E-value=2.3e-08 Score=89.65 Aligned_cols=38 Identities=39% Similarity=0.711 Sum_probs=36.4
Q ss_pred eEeeccccccccCCCCCChHHHHHHHHHHHHhcCCCCc
Q psy4704 54 VVMWPEYIVLSSGFTLEEPQVHAARIHRMIKLGLGIED 91 (123)
Q Consensus 54 ~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~~L~i~~ 91 (123)
++++|+||+|+|||+++||+.|+.|||+||++|||++.
T Consensus 612 v~llfetALlssGfsl~dP~~~~~ri~~ml~~~l~~~e 649 (656)
T KOG0019|consen 612 VEQLYETALISAGFSLDDPQTMVGRINRLLKSGLGRDE 649 (656)
T ss_pred HHHHHHHHHHHcCCCcCChHHHhhHHHHHHHHHhccCC
Confidence 67899999999999999999999999999999999984
No 6
>PTZ00130 heat shock protein 90; Provisional
Probab=97.95 E-value=2.9e-06 Score=78.41 Aligned_cols=41 Identities=24% Similarity=0.331 Sum_probs=37.9
Q ss_pred eEeeccccccccCCCCCChHHHHHHHHHHHHhcCCCCcccc
Q psy4704 54 VVMWPEYIVLSSGFTLEEPQVHAARIHRMIKLGLGIEDEDE 94 (123)
Q Consensus 54 ~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~~L~i~~~~~ 94 (123)
+.++|++|+|++||.|+||..|++||++||..+|+++.++.
T Consensus 723 a~~Lyd~AlL~~G~~l~DP~~fa~ri~~ll~~~l~~~~~~~ 763 (814)
T PTZ00130 723 IKIIYQSAKLASGFDLEDTADLAQIVYDHINQKLGVDNNLK 763 (814)
T ss_pred HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCCcccc
Confidence 77999999999999999999999999999999999986544
No 7
>PRK05218 heat shock protein 90; Provisional
Probab=96.63 E-value=0.00065 Score=61.04 Aligned_cols=35 Identities=20% Similarity=0.338 Sum_probs=31.7
Q ss_pred eEeeccccccccCCCCCChHHHHHHHHHHHHhcCC
Q psy4704 54 VVMWPEYIVLSSGFTLEEPQVHAARIHRMIKLGLG 88 (123)
Q Consensus 54 ~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~~L~ 88 (123)
+.++|++|+|.+||.++||..|+.|+++||...++
T Consensus 579 ~~~Lyd~AlL~~G~~~~d~~~~~~r~~~ll~~~~~ 613 (613)
T PRK05218 579 AELLYDQALLAEGGSLEDPAAFVKRLNELLLKLLA 613 (613)
T ss_pred HHHHHHHHHHhCCCCccCHHHHHHHHHHHHHHhhC
Confidence 45899999999999999999999999999987553
No 8
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.0019 Score=58.64 Aligned_cols=63 Identities=22% Similarity=0.429 Sum_probs=45.9
Q ss_pred hhhhhhccCchHH---HHHHhhcCC-ccccccc----------eEeeccccccccCCCCCChHHHHHHHHHHHHhcC
Q psy4704 25 EDRLYRSHGQTNT---EIYQLKYTS-IMKRMPD----------VVMWPEYIVLSSGFTLEEPQVHAARIHRMIKLGL 87 (123)
Q Consensus 25 ~dRl~r~HGhtl~---di~~LR~g~-~~~Ripd----------~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~~L 87 (123)
++|++++-|+... -|+.|=..+ ..+++-. +.|+|++|+|.+||.++||+.|+.|+.++|..++
T Consensus 546 m~r~l~~~~~~~~~~k~ilEiNp~h~lv~~L~~~~d~~~~~~~~~llydqAll~eg~~~~dp~~F~~rln~ll~~~~ 622 (623)
T COG0326 546 MERLLKAQGQEVPESKKILEINPNHPLVKKLASLEDEASVADLVELLYDQALLAEGGPLEDPAAFIERLNDLLSRLL 622 (623)
T ss_pred HHHHHHhccccCCccccceeeCcccHHHHHHHhcccHHHHHHHHHHHHHHHHHhCCCCccCHHHHHHHHHHHHHHhc
Confidence 5599999888775 233332222 0022223 3399999999999999999999999999998765
No 9
>PRK14083 HSP90 family protein; Provisional
Probab=95.09 E-value=0.0071 Score=54.57 Aligned_cols=37 Identities=16% Similarity=0.125 Sum_probs=33.9
Q ss_pred eEeeccccccccCCCCC--ChHHHHHHHHHHHHhcCCCC
Q psy4704 54 VVMWPEYIVLSSGFTLE--EPQVHAARIHRMIKLGLGIE 90 (123)
Q Consensus 54 ~vllpetAlL~SGF~le--dp~~Fa~RI~~m~~~~L~i~ 90 (123)
+.++|+.|+|.+||.|+ +|+.|+.++++||.++|+-+
T Consensus 558 ~~~Lyd~AlL~~g~~l~~~e~~~~~~~~~~l~~~~l~~~ 596 (601)
T PRK14083 558 VEALYVQALLLGHRPLRPAEMALLNRSLLGLLELALDAD 596 (601)
T ss_pred HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence 45899999999999999 99999999999999988754
No 10
>cd07581 nitrilase_3 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=61.29 E-value=10 Score=29.07 Aligned_cols=21 Identities=29% Similarity=0.461 Sum_probs=17.0
Q ss_pred cccceEeeccccccccCCCCCCh
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEP 72 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp 72 (123)
+=+|++||||+++ +||..+++
T Consensus 29 ~g~dlivfPE~~l--~g~~~~~~ 49 (255)
T cd07581 29 AGADLVVFPEYTM--ARFGDGLD 49 (255)
T ss_pred cCCCEEECcchhc--CCCCcchh
Confidence 4589999999987 58987664
No 11
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=59.78 E-value=12 Score=33.64 Aligned_cols=49 Identities=16% Similarity=0.409 Sum_probs=34.8
Q ss_pred HHHHHHHHHHhc-ccccccchhhhhhhccCchHHHHHHhhcCCccccccceEeecccc
Q psy4704 5 LQRSVLSLLEDT-GVSLSTEGEDRLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYI 61 (123)
Q Consensus 5 ~~~~fl~~l~~~-~~~~s~d~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetA 61 (123)
+...|+++|+.. +-.+++|..+|..+++++. +.... .+.|+++++|.+.
T Consensus 94 ~~~~~~~~L~~~l~~~v~~~~~~~~~y~~d~~-------~~~~~-~~~P~~Vv~P~s~ 143 (555)
T PLN02805 94 VPQELIDELKAILQDNMTLDYDERYFHGKPQN-------SFHKA-VNIPDVVVFPRSE 143 (555)
T ss_pred chHHHHHHHHHhcCCceecCHHHHHHhccCcc-------ccccc-CCCCCEEEEcCCH
Confidence 446788888863 4458889999999888763 11112 2579999999874
No 12
>TIGR00546 lnt apolipoprotein N-acyltransferase. This enzyme transfers the acyl group to lipoproteins in the lgt/lsp/lnt system which is found broadly in bacteria but not in archaea. This model represents one component of the "lipoprotein lgt/lsp/lnt system" genome property.
Probab=57.48 E-value=10 Score=31.61 Aligned_cols=32 Identities=31% Similarity=0.459 Sum_probs=23.5
Q ss_pred ccceEeeccccccccCCCCCChHHHHHHHHHHHH
Q psy4704 51 MPDVVMWPEYIVLSSGFTLEEPQVHAARIHRMIK 84 (123)
Q Consensus 51 ipd~vllpetAlL~SGF~ledp~~Fa~RI~~m~~ 84 (123)
=||++||||+|+- ||..+++..+.+++..+.+
T Consensus 197 ~~dlVv~PE~a~~--~~~~~~~~~~~~~l~~~a~ 228 (391)
T TIGR00546 197 KPDLVVWPETAFP--FDLENSPQKLADRLKLLVL 228 (391)
T ss_pred CCCEEEcCccccc--cchhhCcHHHHHHHHHHHH
Confidence 3899999999875 6766666656667666654
No 13
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=55.92 E-value=7.9 Score=32.10 Aligned_cols=61 Identities=21% Similarity=0.352 Sum_probs=39.7
Q ss_pred HHHHHHHHHhcccccccchh------hhhhhccCchHHHHHHhhcCCccccccceEeeccccccccCCCCCChHHHHHHH
Q psy4704 6 QRSVLSLLEDTGVSLSTEGE------DRLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQVHAARI 79 (123)
Q Consensus 6 ~~~fl~~l~~~~~~~s~d~~------dRl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetAlL~SGF~ledp~~Fa~RI 79 (123)
|+..++.|++.|+.+-.+-. -=++|+||-+.+..-.|+.-++ +|.|+ ++-|..++
T Consensus 40 N~~vv~~L~~~Gv~~v~~~~~~~~g~~ViirAHGv~~~~~~~l~~~g~--~viDa-----------------TCP~V~k~ 100 (281)
T PF02401_consen 40 NPQVVERLEKRGVKVVDDIDEVPEGDTVIIRAHGVPPEVYEELKERGL--EVIDA-----------------TCPFVKKI 100 (281)
T ss_dssp -HHHHHHHHHCTEEEESSGCGS-TTEEEEE-TT---HHHHHHHHHTTE--EEEE--------------------HHHHHH
T ss_pred CHHHHHHHHHCCCEEecCccccCCCCEEEEeCCCCCHHHHHHHHHcCC--EEEEC-----------------CChhHHHH
Confidence 78899999999987655522 2589999999999999996544 45543 45677788
Q ss_pred HHHHHh
Q psy4704 80 HRMIKL 85 (123)
Q Consensus 80 ~~m~~~ 85 (123)
++.++.
T Consensus 101 ~~~v~~ 106 (281)
T PF02401_consen 101 HKIVRK 106 (281)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 877763
No 14
>cd07580 nitrilase_2 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=55.90 E-value=9.2 Score=29.79 Aligned_cols=21 Identities=24% Similarity=0.513 Sum_probs=16.9
Q ss_pred ccceEeeccccccccCCCCCChH
Q psy4704 51 MPDVVMWPEYIVLSSGFTLEEPQ 73 (123)
Q Consensus 51 ipd~vllpetAlL~SGF~ledp~ 73 (123)
=+|++||||+++ +||...+..
T Consensus 32 g~dlvvfPE~~l--~g~~~~~~~ 52 (268)
T cd07580 32 GANLVVLPELAN--TGYVFESRD 52 (268)
T ss_pred CCCEEEcCCccc--ccCCCCCHH
Confidence 379999999987 589887753
No 15
>TIGR02263 benz_CoA_red_C benzoyl-CoA reductase, subunit C. This model describes C subunit of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA. This enzyme acts under anaerobic conditions.
Probab=50.59 E-value=19 Score=30.41 Aligned_cols=72 Identities=14% Similarity=0.289 Sum_probs=50.0
Q ss_pred HHHHHHHHh-cccccccchhh---hhhhccCchHHHHHHhhcCCccccccceEeeccc-cccccCCCCCChHHHHHHHHH
Q psy4704 7 RSVLSLLED-TGVSLSTEGED---RLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEY-IVLSSGFTLEEPQVHAARIHR 81 (123)
Q Consensus 7 ~~fl~~l~~-~~~~~s~d~~d---Rl~r~HGhtl~di~~LR~g~~~~Ripd~vllpet-AlL~SGF~ledp~~Fa~RI~~ 81 (123)
+.|.+.|++ .|+.++.|... ++.+.+-+-+.+++.||..+ |...-..+. .++.++|.+. +..|.+.+..
T Consensus 145 ~~l~~~LE~~~G~~it~e~L~~aI~~~N~~R~~~~~l~~l~~~~-----p~pitg~e~~~~~~~~~~~~-~~e~~~~L~~ 218 (380)
T TIGR02263 145 NELCEGLEHLSGKKITDDAIRASIAVFNDNRKLIQALYGLRADE-----PWKVPSADLYLLLRAGLVIP-VEEHNQMLAD 218 (380)
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhC-----CCCCCHHHHHHHHHhhccCC-HHHHHHHHHH
Confidence 357778887 68999999988 55566778888999999442 221113322 3566777776 7888888877
Q ss_pred HHH
Q psy4704 82 MIK 84 (123)
Q Consensus 82 m~~ 84 (123)
++.
T Consensus 219 ~l~ 221 (380)
T TIGR02263 219 YLA 221 (380)
T ss_pred HHH
Confidence 775
No 16
>PRK00302 lnt apolipoprotein N-acyltransferase; Reviewed
Probab=50.19 E-value=18 Score=31.40 Aligned_cols=33 Identities=18% Similarity=0.440 Sum_probs=22.8
Q ss_pred cccceEeeccccccccCCCCCChHHHHHHHHHHHH
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEPQVHAARIHRMIK 84 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp~~Fa~RI~~m~~ 84 (123)
+=+|++||||+++ .||.-+++..+.+++.++.+
T Consensus 256 ~~~dlvV~PE~a~--p~~~~~~~~~~~~~l~~~a~ 288 (505)
T PRK00302 256 GPADLIIWPETAI--PFLLEDLPQAFLKALDDLAR 288 (505)
T ss_pred CCCCEEEeCCccc--ccccccccHHHHHHHHHHHH
Confidence 4589999999987 45543445556667766654
No 17
>cd07197 nitrilase Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes. This superfamily (also known as the C-N hydrolase superfamily) contains hydrolases that break carbon-nitrogen bonds; it includes nitrilases, cyanide dihydratases, aliphatic amidases, N-terminal amidases, beta-ureidopropionases, biotinidases, pantotheinase, N-carbamyl-D-amino acid amidohydrolases, the glutaminase domain of glutamine-dependent NAD+ synthetase, apolipoprotein N-acyltransferases, and N-carbamoylputrescine amidohydrolases, among others. These enzymes depend on a Glu-Lys-Cys catalytic triad, and work through a thiol acylenzyme intermediate. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. These oligomers include dimers, tetramers, hexamers, octamers, tetradecamers, octadecamers, as well as variable length helical arrangements and homo-oligomeric spirals. These proteins have roles in vitamin and
Probab=49.67 E-value=21 Score=26.89 Aligned_cols=21 Identities=24% Similarity=0.692 Sum_probs=16.3
Q ss_pred cccceEeeccccccccCCCCCCh
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEP 72 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp 72 (123)
.=+|++||||+++ +||...++
T Consensus 30 ~g~dlvvfPE~~l--~g~~~~~~ 50 (253)
T cd07197 30 QGADLIVLPELFL--TGYSFESA 50 (253)
T ss_pred CCCCEEEcCCccc--cCCccccc
Confidence 4589999999886 58877654
No 18
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=47.14 E-value=6.6 Score=25.03 Aligned_cols=28 Identities=36% Similarity=0.638 Sum_probs=20.8
Q ss_pred ccceEeeccccccccCCCCCChHHHHHHHHHHHHh
Q psy4704 51 MPDVVMWPEYIVLSSGFTLEEPQVHAARIHRMIKL 85 (123)
Q Consensus 51 ipd~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~ 85 (123)
|||.++-+ -|=.|||.-.|| ||.||+.+
T Consensus 3 IPD~v~~~--yL~~~G~~~~D~-----rv~RLvSL 30 (51)
T PF03540_consen 3 IPDEVTDY--YLERSGFQTSDP-----RVKRLVSL 30 (51)
T ss_pred CCHHHHHH--HHHHCCCCCCCH-----hHHHHHHH
Confidence 67766654 677899999998 56677664
No 19
>cd07583 nitrilase_5 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=46.83 E-value=24 Score=27.10 Aligned_cols=21 Identities=24% Similarity=0.506 Sum_probs=16.3
Q ss_pred cccceEeeccccccccCCCCCCh
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEP 72 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp 72 (123)
+=+|++||||+++ +||...+.
T Consensus 31 ~g~dlvv~PE~~l--~g~~~~~~ 51 (253)
T cd07583 31 AGADLIVLPEMWN--TGYFLDDL 51 (253)
T ss_pred CCCCEEEcCCccC--CCCChhhH
Confidence 4589999999988 58876543
No 20
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=46.79 E-value=13 Score=30.89 Aligned_cols=47 Identities=30% Similarity=0.369 Sum_probs=35.3
Q ss_pred HHHHHHHHHhcccccc--cchh------hhhhhccCchHHHHHHhhcCCccccccce
Q psy4704 6 QRSVLSLLEDTGVSLS--TEGE------DRLYRSHGQTNTEIYQLKYTSIMKRMPDV 54 (123)
Q Consensus 6 ~~~fl~~l~~~~~~~s--~d~~------dRl~r~HGhtl~di~~LR~g~~~~Ripd~ 54 (123)
|..-++.|++.|+.+- .+-. -=++|+||-+.+..-.||.-++ +|.|+
T Consensus 43 N~~Vv~~L~~~Gv~~v~~~~~~~v~~~~~ViirAHGv~~~~~~~~~~~g~--~viDa 97 (281)
T PRK12360 43 NNQVVSDLEEKGVKTIEESEIDSLKEGDVVIIRSHGVSKKVYKDLKDKGL--EIIDA 97 (281)
T ss_pred CHHHHHHHHHCcCEEECcCchhhCCCCCEEEEeCCCCCHHHHHHHHHCCC--eEEeC
Confidence 7788999999888665 3311 2478999999999999996554 55554
No 21
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.
Probab=45.41 E-value=17 Score=30.15 Aligned_cols=47 Identities=21% Similarity=0.360 Sum_probs=33.7
Q ss_pred HHHHHHHHHhccc-ccccc------hhhhhhhccCchHHHHHHhhcCCccccccce
Q psy4704 6 QRSVLSLLEDTGV-SLSTE------GEDRLYRSHGQTNTEIYQLKYTSIMKRMPDV 54 (123)
Q Consensus 6 ~~~fl~~l~~~~~-~~s~d------~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~ 54 (123)
|..-++.|++.|+ .+-.+ +.-=++|+||-+.+..-.|+.-++ ++.|+
T Consensus 41 N~~Vv~~L~~~Gv~~~v~~~~~v~~~~~ViirAHGv~~~~~~~~~~~gl--~viDa 94 (280)
T TIGR00216 41 NPQVVERLRERGVFFFLEDLDEVAAGDTVIIRAHGVPPEVREELEKKGL--EVIDA 94 (280)
T ss_pred CHHHHHHHHHCCCEEeecCcccCCCCCEEEEeCCCCCHHHHHHHHHCCC--eEEeC
Confidence 7788999999996 43222 112478999999999999996554 45554
No 22
>cd07577 Ph0642_like Pyrococcus horikoshii Ph0642 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases). Uncharacterized subgroup of the nitrilase superfamily. This superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. Pyrococcus horikoshii Ph0642 is a hypothetical protein belonging to this subgroup. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). This subgroup was classified as belonging to class 13, which represents proteins that at the time were difficult to place in a distinct similarity group. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=45.24 E-value=19 Score=27.85 Aligned_cols=19 Identities=21% Similarity=0.585 Sum_probs=15.5
Q ss_pred cceEeeccccccccCCCCCCh
Q psy4704 52 PDVVMWPEYIVLSSGFTLEEP 72 (123)
Q Consensus 52 pd~vllpetAlL~SGF~ledp 72 (123)
+|++||||+++. ||...+.
T Consensus 30 adlvvfPE~~l~--gy~~~~~ 48 (259)
T cd07577 30 ADLIVLPELFNT--GYAFTSK 48 (259)
T ss_pred CCEEEccccccc--CCCcCCH
Confidence 899999999884 8886543
No 23
>PRK09198 putative nicotinate phosphoribosyltransferase; Provisional
Probab=44.34 E-value=6.2 Score=35.05 Aligned_cols=80 Identities=10% Similarity=0.095 Sum_probs=51.2
Q ss_pred HHHHHHHHHHhcc----cccccchhhhhhhcc-CchHHHHHHhhcCCc-cccccceEe------------eccccccccC
Q psy4704 5 LQRSVLSLLEDTG----VSLSTEGEDRLYRSH-GQTNTEIYQLKYTSI-MKRMPDVVM------------WPEYIVLSSG 66 (123)
Q Consensus 5 ~~~~fl~~l~~~~----~~~s~d~~dRl~r~H-Ghtl~di~~LR~g~~-~~Ripd~vl------------lpetAlL~SG 66 (123)
.++++++.+++.. ..|+.++.+.+.+.| |+---+|+++..|.. +.+.|=+.| |.||++|+.=
T Consensus 61 ft~~~i~~~~~~~~~~~~~f~~~~~~~~~~~~~g~~p~~I~AvpEGtvv~~~~Pll~V~~~~~e~~wL~~~lET~lL~~i 140 (463)
T PRK09198 61 ITEAFIDEAKALLVAHGLPFNRAGWRRIVDKYGGYLPLRIKAVPEGSVVPVHNVLMTIENTDPEFFWLPNYLETLLLRNV 140 (463)
T ss_pred CCHHHHHHHHhhhhhccCccCHHHHHHHHHhcCCCCceEEEEecCCceecCCCCEEEEEeCcHHHhhhhhHHHHHHHHHH
Confidence 5678888888652 247777888999988 576669999999983 255663332 6888888621
Q ss_pred CCCCChHHHHHHHHHHHH
Q psy4704 67 FTLEEPQVHAARIHRMIK 84 (123)
Q Consensus 67 F~ledp~~Fa~RI~~m~~ 84 (123)
+-..-.+.-|.||-.+++
T Consensus 141 ~~~s~vAT~A~r~~~~~~ 158 (463)
T PRK09198 141 WYPSTVATISWEYKQLIR 158 (463)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 111123334555555544
No 24
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=43.76 E-value=15 Score=30.69 Aligned_cols=47 Identities=21% Similarity=0.256 Sum_probs=35.2
Q ss_pred HHHHHHHHHhcccccccch------hhhhhhccCchHHHHHHhhcCCccccccce
Q psy4704 6 QRSVLSLLEDTGVSLSTEG------EDRLYRSHGQTNTEIYQLKYTSIMKRMPDV 54 (123)
Q Consensus 6 ~~~fl~~l~~~~~~~s~d~------~dRl~r~HGhtl~di~~LR~g~~~~Ripd~ 54 (123)
|..-++.|+..|+.+-.+- .-=++|+||-+.+..-.||.-++ +|.|+
T Consensus 42 N~~vv~~L~~~GV~~v~~~~~v~~~~~ViirAHGv~~~~~~~~~~~g~--~viDa 94 (298)
T PRK01045 42 NRYVVERLEKKGAIFVEELDEVPDGAIVIFSAHGVSPAVREEAKERGL--TVIDA 94 (298)
T ss_pred CHHHHHHHHHCCCEEecCcccCCCCCEEEEeCCCCCHHHHHHHHHCCC--eEEeC
Confidence 7788999999888554332 22488999999999999996655 55554
No 25
>cd07570 GAT_Gln-NAD-synth Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases). Glutamine-dependent NAD synthetases are bifunctional enzymes, which have an N-terminal GAT domain and a C-terminal NAD+ synthetase domain. The GAT domain is a glutaminase (EC 3.5.1.2) which hydrolyses L-glutamine to L-glutamate and ammonia. The ammonia is used by the NAD+ synthetase domain in the ATP-dependent amidation of nicotinic acid adenine dinucleotide. Glutamine aminotransferases are categorized depending on their active site residues into different unrelated classes. This class of GAT domain belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this sub
Probab=42.75 E-value=11 Score=28.99 Aligned_cols=20 Identities=30% Similarity=0.698 Sum_probs=15.8
Q ss_pred cccceEeeccccccccCCCCCC
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEE 71 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~led 71 (123)
+=+|++||||+++ +||...+
T Consensus 31 ~gadlvvfPE~~l--~gy~~~~ 50 (261)
T cd07570 31 QGADLVVFPELSL--TGYPPED 50 (261)
T ss_pred cCCCEEEccchhc--cCCChHH
Confidence 4489999999886 6887654
No 26
>cd07572 nit Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases). This subgroup includes mammalian Nit1 and Nit2, the Nit1-like domain of the invertebrate NitFhit, and various uncharacterized bacterial and archaeal Nit-like proteins. Nit1 and Nit2 are candidate tumor suppressor proteins. In NitFhit, the Nit1-like domain is encoded as a fusion protein with the non-homologous tumor suppressor, fragile histidine triad (Fhit). Mammalian Nit1 and Fhit may affect distinct signal pathways, and both may participate in DNA damage-induced apoptosis. Nit1 is a negative regulator in T cells. Overexpression of Nit2 in HeLa cells leads to a suppression of cell growth through cell cycle arrest in G2. These Nit proteins and the Nit1-like domain of NitFhit belong to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in t
Probab=42.50 E-value=17 Score=28.01 Aligned_cols=20 Identities=15% Similarity=0.102 Sum_probs=15.8
Q ss_pred cccceEeeccccccccCCCCCC
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEE 71 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~led 71 (123)
+=+|++||||+++ +||..++
T Consensus 30 ~g~dlivfPE~~l--~g~~~~~ 49 (265)
T cd07572 30 QGAKLVVLPECFN--YPGGTDA 49 (265)
T ss_pred CCCCEEECCcccc--CcCcchh
Confidence 4589999999986 5887544
No 27
>cd07585 nitrilase_7 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=41.26 E-value=16 Score=28.13 Aligned_cols=21 Identities=24% Similarity=0.548 Sum_probs=16.4
Q ss_pred cccceEeeccccccccCCCCCCh
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEP 72 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp 72 (123)
+=+|++||||+++ +||...++
T Consensus 31 ~gadliv~PE~~l--~g~~~~~~ 51 (261)
T cd07585 31 QGAELVCFPEMCI--TGYTHVRA 51 (261)
T ss_pred cCCCEEEeccccc--ccccCCcc
Confidence 4479999999886 58887654
No 28
>cd07571 ALP_N-acyl_transferase Apolipoprotein N-acyl transferase (class 9 nitrilases). ALP N-acyl transferase (Lnt), is an essential membrane-bound enzyme in gram-negative bacteria, which catalyzes the N-acylation of apolipoproteins, the final step in lipoprotein maturation. This is a reverse amidase (i.e. condensation) reaction. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 9.
Probab=40.35 E-value=33 Score=27.07 Aligned_cols=32 Identities=28% Similarity=0.452 Sum_probs=22.7
Q ss_pred cccceEeeccccccccCCCCCChHHHHHHHHHHHH
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEPQVHAARIHRMIK 84 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp~~Fa~RI~~m~~ 84 (123)
+-+|++||||+++ +||. ..+..+.+++-.+.+
T Consensus 38 ~ga~lvvfPE~~l--~g~~-~~~~~~~~~l~~~ak 69 (270)
T cd07571 38 EKPDLVVWPETAL--PFDL-QRDPDALARLARAAR 69 (270)
T ss_pred CCCCEEEecCCcC--Cccc-ccCHHHHHHHHHHHH
Confidence 4589999999874 6886 344556666666654
No 29
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=38.99 E-value=23 Score=22.04 Aligned_cols=30 Identities=20% Similarity=0.185 Sum_probs=26.5
Q ss_pred cccCCCCCChHHHHHHHHHHHHhcCCCCcc
Q psy4704 63 LSSGFTLEEPQVHAARIHRMIKLGLGIEDE 92 (123)
Q Consensus 63 L~SGF~ledp~~Fa~RI~~m~~~~L~i~~~ 92 (123)
+..|.+.+.-..++++|.+.+...+|++.+
T Consensus 8 l~~grt~eqk~~l~~~it~~l~~~lg~p~~ 37 (64)
T PRK01964 8 LLEGRPEEKIKNLIREVTEAISATLDVPKE 37 (64)
T ss_pred EeCCCCHHHHHHHHHHHHHHHHHHhCcChh
Confidence 456899999999999999999999999854
No 30
>cd07576 R-amidase_like Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases). Pseudomonas sp. MCI3434 R-amidase hydrolyzes (R,S)-piperazine-2-tert-butylcarboxamide to form (R)-piperazine-2-carboxylic acid. It does so with strict R-stereoselectively. Its preferred substrates are carboxamide compounds which have the amino or imino group connected to their beta- or gamma-carbon. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), class 13 represents proteins that at the time were difficult to place in a distinct similarity group. It has been suggested that this subgroup represents a new class. Members of the nitrilase superfamily generally form homomeric compl
Probab=38.91 E-value=19 Score=27.52 Aligned_cols=19 Identities=21% Similarity=0.691 Sum_probs=15.1
Q ss_pred cccceEeeccccccccCCCCC
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLE 70 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~le 70 (123)
.=+|++||||+++ +||...
T Consensus 31 ~ga~lvv~PE~~l--~g~~~~ 49 (254)
T cd07576 31 AGADLLVFPELFL--TGYNIG 49 (254)
T ss_pred cCCCEEEccCccc--cCCCCc
Confidence 4479999999986 588774
No 31
>cd07578 nitrilase_1_R1 First nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). Members of this subgroup have two nitrilase domains. This is the first of those two domains. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=38.58 E-value=25 Score=27.20 Aligned_cols=19 Identities=16% Similarity=0.428 Sum_probs=15.1
Q ss_pred cceEeeccccccccCCCCCCh
Q psy4704 52 PDVVMWPEYIVLSSGFTLEEP 72 (123)
Q Consensus 52 pd~vllpetAlL~SGF~ledp 72 (123)
+|++||||+++ +||...+.
T Consensus 34 adlivfPE~~l--~gy~~~~~ 52 (258)
T cd07578 34 ARLIVTPEMAT--TGYCWYDR 52 (258)
T ss_pred CCEEEcccccc--cCCCcCCH
Confidence 79999999876 48876554
No 32
>PRK13287 amiF formamidase; Provisional
Probab=38.18 E-value=16 Score=30.44 Aligned_cols=17 Identities=29% Similarity=0.763 Sum_probs=14.2
Q ss_pred cceEeeccccccccCCCCC
Q psy4704 52 PDVVMWPEYIVLSSGFTLE 70 (123)
Q Consensus 52 pd~vllpetAlL~SGF~le 70 (123)
+|++||||+++ +||..+
T Consensus 53 adLVVfPE~~l--~G~~~~ 69 (333)
T PRK13287 53 LDLIVFPEYST--QGLNTK 69 (333)
T ss_pred CcEEEcCCccc--ccCCcc
Confidence 69999999986 588765
No 33
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=37.74 E-value=29 Score=22.66 Aligned_cols=34 Identities=15% Similarity=0.271 Sum_probs=23.9
Q ss_pred cccceEeeccccccccCCCCCChHHHHHHHHHHH
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEPQVHAARIHRMI 83 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp~~Fa~RI~~m~ 83 (123)
-+|+++||.=-..=.|||++++--..-..|-.+.
T Consensus 12 hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F 45 (58)
T PF06858_consen 12 HLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF 45 (58)
T ss_dssp GT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT
T ss_pred hhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc
Confidence 4688999998889999999999887766665553
No 34
>PRK11183 D-lactate dehydrogenase; Provisional
Probab=36.84 E-value=45 Score=30.59 Aligned_cols=45 Identities=13% Similarity=0.203 Sum_probs=32.5
Q ss_pred HHHHHHHHHhc-c-cccccchhhhhhhccCchHHHHHHhhcCCccccccceEeecccc
Q psy4704 6 QRSVLSLLEDT-G-VSLSTEGEDRLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYI 61 (123)
Q Consensus 6 ~~~fl~~l~~~-~-~~~s~d~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetA 61 (123)
|+.++++|+.. + -.+.+|..+|...++|. |.+ +..|++||+|.|.
T Consensus 2 ~~~li~~L~~IvG~~~Vltd~~~l~~Y~~D~--------r~~---~g~P~AVV~P~St 48 (564)
T PRK11183 2 NKALINELTRIVGSSHVLTDPAKTERYRKGF--------RSG---QGDALAVVFPGTL 48 (564)
T ss_pred hHHHHHHHHHhcCcccEecCHHHHHHhccCc--------ccc---CCCCCEEEecCCH
Confidence 56788888863 3 34778888888887772 433 3579999999875
No 35
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=36.60 E-value=23 Score=31.68 Aligned_cols=46 Identities=20% Similarity=0.304 Sum_probs=33.8
Q ss_pred HHHHHHHHHhcccccccc------------hhhhhhhccCchHHHHHHhhcCCccccccc
Q psy4704 6 QRSVLSLLEDTGVSLSTE------------GEDRLYRSHGQTNTEIYQLKYTSIMKRMPD 53 (123)
Q Consensus 6 ~~~fl~~l~~~~~~~s~d------------~~dRl~r~HGhtl~di~~LR~g~~~~Ripd 53 (123)
|..-++.|+++||.+-.+ +.-=|+|+||-+.+++-.|+.-+. .|.|
T Consensus 148 Np~Vv~~L~~~GV~~I~~~~~~~~~~~v~~gdvVIirAHGvs~~~~~~l~~kg~--~IVD 205 (460)
T PLN02821 148 NPTVNKRLEEMNVQFIEVEEGGKDFSVVGEGDVVILPAFGASVEEMQTLNDKNV--QIVD 205 (460)
T ss_pred CHHHHHHHHHCCCEEecccccccccccCCCCCEEEEeCCCCCHHHHHHHHHCCC--eEEe
Confidence 677888999888754432 122589999999999999996654 4544
No 36
>cd03769 SR_IS607_transposase_like Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.
Probab=35.92 E-value=94 Score=22.28 Aligned_cols=53 Identities=19% Similarity=0.219 Sum_probs=31.8
Q ss_pred ccccchhhhhhhccCchHHHHHHhhcCCccccccceEeeccccccccCCCCCChHHHHHHHHHHHH
Q psy4704 19 SLSTEGEDRLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQVHAARIHRMIK 84 (123)
Q Consensus 19 ~~s~d~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetAlL~SGF~ledp~~Fa~RI~~m~~ 84 (123)
-+=....|||-|+..+.+..++.. +| . + ++. ++.|+....|..+...|..|+.
T Consensus 65 ~lvV~~ldRl~R~~~d~~~~~l~~-~g-v--~---l~~------~~~~~d~~~~~~l~~~~~~~~~ 117 (134)
T cd03769 65 RVVITYKDRLARFGFELLEELFKA-YG-V--E---IVV------INQEENEELEQELVEDLIEIIT 117 (134)
T ss_pred EEEEEeccHHHHhhHHHHHHHHHH-CC-C--E---EEE------EeCCCCCCCHHHHHHHHHHHHH
Confidence 355567889999987766544332 23 2 1 111 2346666667777777777765
No 37
>cd07584 nitrilase_6 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=35.60 E-value=23 Score=27.28 Aligned_cols=18 Identities=22% Similarity=0.610 Sum_probs=14.3
Q ss_pred ccceEeeccccccccCCCCC
Q psy4704 51 MPDVVMWPEYIVLSSGFTLE 70 (123)
Q Consensus 51 ipd~vllpetAlL~SGF~le 70 (123)
=+|++||||+++ +||...
T Consensus 32 ga~liv~PE~~l--~g~~~~ 49 (258)
T cd07584 32 GADLICFPELAT--TGYRPD 49 (258)
T ss_pred CCCEEEcccccc--cCCCcc
Confidence 369999999887 488754
No 38
>cd07575 Xc-1258_like Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases). Uncharacterized subgroup belonging to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup either represents a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. XC1258 is a homotetramer.
Probab=35.37 E-value=50 Score=25.53 Aligned_cols=19 Identities=26% Similarity=0.728 Sum_probs=14.7
Q ss_pred ccceEeeccccccccCCCCCC
Q psy4704 51 MPDVVMWPEYIVLSSGFTLEE 71 (123)
Q Consensus 51 ipd~vllpetAlL~SGF~led 71 (123)
=+|++||||+++ +||...+
T Consensus 32 gadlvvfPE~~l--~g~~~~~ 50 (252)
T cd07575 32 KTDLIVLPEMFT--TGFSMNA 50 (252)
T ss_pred CCCEEEeCCcCc--CCCCccH
Confidence 479999999875 5897643
No 39
>PRK13981 NAD synthetase; Provisional
Probab=34.92 E-value=36 Score=29.91 Aligned_cols=20 Identities=30% Similarity=0.715 Sum_probs=16.2
Q ss_pred cccceEeeccccccccCCCCCC
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEE 71 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~led 71 (123)
.=+|++||||+++ +||...+
T Consensus 32 ~gadLIVfPEl~l--tGy~~~d 51 (540)
T PRK13981 32 AGADLLLFPELFL--SGYPPED 51 (540)
T ss_pred CCCCEEECcchhh--cCCChhh
Confidence 3479999999986 6998765
No 40
>COG3002 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.89 E-value=24 Score=33.44 Aligned_cols=31 Identities=32% Similarity=0.424 Sum_probs=27.0
Q ss_pred eeccccccccCCCCCChHHHHHHHHHHHHhc
Q psy4704 56 MWPEYIVLSSGFTLEEPQVHAARIHRMIKLG 86 (123)
Q Consensus 56 llpetAlL~SGF~ledp~~Fa~RI~~m~~~~ 86 (123)
.=|.|+++--||++++..+||.++.+||.+.
T Consensus 528 ~d~~t~~~~vGFT~~Eq~~~a~qaLKmmgLt 558 (880)
T COG3002 528 RDPQTLAQPVGFTLDEQAQMAAQALKMMGLT 558 (880)
T ss_pred cCchhhhcccCCchHHHHHHHHHHHHHhCch
Confidence 3455999999999999999999999998753
No 41
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=33.55 E-value=43 Score=20.30 Aligned_cols=27 Identities=22% Similarity=0.449 Sum_probs=21.3
Q ss_pred HHHHHHHHhcccccccchhhhhhhccC
Q psy4704 7 RSVLSLLEDTGVSLSTEGEDRLYRSHG 33 (123)
Q Consensus 7 ~~fl~~l~~~~~~~s~d~~dRl~r~HG 33 (123)
+.+++.|++.|+.+|.+-.+++.+..|
T Consensus 22 ~~~l~~l~~~g~~is~~l~~~~L~~~g 48 (48)
T PF11848_consen 22 KPLLDRLQQAGFRISPKLIEEILRRAG 48 (48)
T ss_pred HHHHHHHHHcCcccCHHHHHHHHHHcC
Confidence 567888888899999988888776544
No 42
>PF12993 DUF3877: Domain of unknown function, E. rectale Gene description (DUF3877); InterPro: IPR024539 This entry represents proteins of unknown function found primarily in Firmicutes. The Eubacterium rectale gene appears to be upregulated in the presence of Bacteroides thetaiotaomicron compared to growth in pure culture [].
Probab=33.20 E-value=46 Score=26.23 Aligned_cols=17 Identities=35% Similarity=0.364 Sum_probs=13.7
Q ss_pred hhhccCchHHHHHHhhc
Q psy4704 28 LYRSHGQTNTEIYQLKY 44 (123)
Q Consensus 28 l~r~HGhtl~di~~LR~ 44 (123)
++-.||.|+.||..|=+
T Consensus 103 ~v~~hgcT~e~I~~~F~ 119 (175)
T PF12993_consen 103 LVGKHGCTLEDILELFH 119 (175)
T ss_pred HHhcCCcCHHHHHHHHH
Confidence 55669999999998853
No 43
>cd07586 nitrilase_8 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=33.13 E-value=24 Score=27.30 Aligned_cols=21 Identities=33% Similarity=0.716 Sum_probs=16.4
Q ss_pred cccceEeeccccccccCCCCCCh
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEP 72 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp 72 (123)
+=+|++||||+++ +||...+.
T Consensus 31 ~ga~liv~PE~~~--~g~~~~~~ 51 (269)
T cd07586 31 RGADLVVFPELSL--TGYNLGDL 51 (269)
T ss_pred cCCCEEEecchhc--cCCCchhh
Confidence 4479999999886 68987653
No 44
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=32.56 E-value=32 Score=31.25 Aligned_cols=47 Identities=21% Similarity=0.359 Sum_probs=35.5
Q ss_pred HHHHHHHHHhcccccccchhh------hhhhccCchHHHHHHhhcCCccccccce
Q psy4704 6 QRSVLSLLEDTGVSLSTEGED------RLYRSHGQTNTEIYQLKYTSIMKRMPDV 54 (123)
Q Consensus 6 ~~~fl~~l~~~~~~~s~d~~d------Rl~r~HGhtl~di~~LR~g~~~~Ripd~ 54 (123)
|..-++.|++.|+.+-.+-.+ =++|+||-+.+..-.++.-++ .+.|+
T Consensus 42 N~~vv~~l~~~Gv~~v~~~~~~~~~~~vii~aHG~~~~~~~~~~~~~~--~viDa 94 (647)
T PRK00087 42 NNQVVEKLKKKGIKPIEDIDELNEGDTIIIRSHGVPPEVLEELKDKGL--KVIDA 94 (647)
T ss_pred CHHHHHHHHHCCCEEeCCHhhCCCCCEEEEeCCCCCHHHHHHHHHCCC--eEEEC
Confidence 778899999988876644221 368999999999999987655 45554
No 45
>TIGR01529 argR_whole arginine repressor. This model includes most members of the arginine-responsive transcriptional regulator family ArgR. This hexameric protein binds DNA at its amino end to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbor-joining tree, some of these paralogous sequences show long branches and differ significantly in an otherwise well-conserved C-terminal region motif GT[VIL][AC]GDDT. These paralogs are excluded from the seed and score in the gray zone of this model, between trusted and noise cutoffs.
Probab=32.51 E-value=40 Score=25.04 Aligned_cols=29 Identities=24% Similarity=0.421 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhcccccccchhhhhhhccC
Q psy4704 5 LQRSVLSLLEDTGVSLSTEGEDRLYRSHG 33 (123)
Q Consensus 5 ~~~~fl~~l~~~~~~~s~d~~dRl~r~HG 33 (123)
-++++.+.|++.|+.+|+...-|.++..|
T Consensus 18 tqeeL~~~L~~~G~~vsqaTIsRdL~elg 46 (146)
T TIGR01529 18 TQEELVALLKAEGIEVTQATVSRDLRELG 46 (146)
T ss_pred CHHHHHHHHHHhCCCcCHHHHHHHHHHcC
Confidence 36788899988899999999888555443
No 46
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=32.42 E-value=22 Score=24.07 Aligned_cols=64 Identities=16% Similarity=0.079 Sum_probs=39.0
Q ss_pred cccccchhhhhhhcc-CchHHHHH-HhhcCCccccccceEeeccccccccCCCCCChHHHHHHHHHHH
Q psy4704 18 VSLSTEGEDRLYRSH-GQTNTEIY-QLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQVHAARIHRMI 83 (123)
Q Consensus 18 ~~~s~d~~dRl~r~H-Ghtl~di~-~LR~g~~~~Ripd~vllpetAlL~SGF~ledp~~Fa~RI~~m~ 83 (123)
.-+|..-..|+|+.+ |.|..+.. .+|-......+-.--.=-..++...||. |+..|.....+..
T Consensus 31 ~~~S~~~l~r~f~~~~g~s~~~~i~~~Rl~~a~~~L~~~~~~i~~iA~~~Gf~--~~s~f~~~Fk~~~ 96 (107)
T PRK10219 31 SGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYV--SQQTFSRVFRRQF 96 (107)
T ss_pred HCCCHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHCCC--CHHHHHHHHHHHH
Confidence 347777788999996 99999844 3442221111111111123466778886 8888888777664
No 47
>PF01646 Herpes_UL24: Herpes virus protein UL24; InterPro: IPR002580 This entry consists of the human herpes virus protein UL24 and its orthologues, which are universally present in avian, mammalian and reptilian herpes viruses. Though the functions of these proteins are not known, computational analysis suggests that they may belong to the restriction endonuclease-like fold superfamily, which contains a variety of endonucleases, DNA repair enzymes and exonucleases []. Proteins in this entry contain an absolutely conserved PD-(D/E)XK motif thought to be critical for nucleotide-cleaving activity.
Probab=32.26 E-value=74 Score=24.85 Aligned_cols=44 Identities=14% Similarity=0.195 Sum_probs=32.1
Q ss_pred HHHhhcCCccccccceEeecccc---------------ccccCCCCCChHHHHHHHHHHHHh
Q psy4704 39 IYQLKYTSIMKRMPDVVMWPEYI---------------VLSSGFTLEEPQVHAARIHRMIKL 85 (123)
Q Consensus 39 i~~LR~g~~~~Ripd~vllpetA---------------lL~SGF~ledp~~Fa~RI~~m~~~ 85 (123)
+|..+-| .||||+++++++. ...|-+.+.++..-++|..+|=.+
T Consensus 53 ~FEV~LG---~R~PDCI~v~~~~~~~~~~vCyiiElKTc~~~~~~~~t~tk~~Qr~qGl~QL 111 (179)
T PF01646_consen 53 FFEVNLG---RRRPDCICVFSSESSGGKGVCYIIELKTCRFSASNMNTATKRLQRAQGLRQL 111 (179)
T ss_pred EEEEecC---CCCCCEEEEEecCCCCcceEEEEEEeehhcccccCCCCHHHHHHHHHhHHHH
Confidence 4555555 7999999999888 123336788888888888887553
No 48
>COG0815 Lnt Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]
Probab=31.80 E-value=42 Score=30.04 Aligned_cols=32 Identities=25% Similarity=0.468 Sum_probs=19.9
Q ss_pred cccceEeeccccccccCCCCCChHHHHHHHHHHHH
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEPQVHAARIHRMIK 84 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp~~Fa~RI~~m~~ 84 (123)
--||+|||||||+--.-+...+. ..++..++.
T Consensus 267 ~~~dlVIwPEtA~p~~~~~~~~~---~~~~~~~~~ 298 (518)
T COG0815 267 QKPDLVVWPETALPFDLTRHPDA---LARLAEALQ 298 (518)
T ss_pred CCCCEEEccccccccchhhcchH---HHHHHHHHH
Confidence 45899999999997444333332 334445444
No 49
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=31.12 E-value=32 Score=30.07 Aligned_cols=47 Identities=23% Similarity=0.283 Sum_probs=34.6
Q ss_pred HHHHHHHHHhcccccccc------------hhhhhhhccCchHHHHHHhhcCCccccccce
Q psy4704 6 QRSVLSLLEDTGVSLSTE------------GEDRLYRSHGQTNTEIYQLKYTSIMKRMPDV 54 (123)
Q Consensus 6 ~~~fl~~l~~~~~~~s~d------------~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~ 54 (123)
|...++.|+..|+.+-.+ +.-=++|+||-+.+..-.||.-+. .|.|+
T Consensus 80 Np~Vv~~L~~~Gv~~v~~~~~~~~~~~v~~~~~VIIrAHGv~~~v~~~~~~rgl--~iiDA 138 (387)
T PRK13371 80 NPSVNQHLREMGVRFIPVEKGVKDFSVVTPGDVVILPAFGATVQEMQLLNEKGC--HIVDT 138 (387)
T ss_pred CHHHHHHHHhCCCEEEcCcCcccchhcCCCCCEEEEeCCCCCHHHHHHHHHCCC--eEEec
Confidence 778899999988755532 112478999999999999996654 45443
No 50
>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=30.61 E-value=1.2e+02 Score=26.00 Aligned_cols=80 Identities=18% Similarity=0.295 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHhcc-----cccc-cchhhhhhhcc--CchHHHHHHhhcCCccccccceEeeccccccccCCCCCChHHH
Q psy4704 4 SLQRSVLSLLEDTG-----VSLS-TEGEDRLYRSH--GQTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQVH 75 (123)
Q Consensus 4 ~~~~~fl~~l~~~~-----~~~s-~d~~dRl~r~H--Ghtl~di~~LR~g~~~~Ripd~vllpetAlL~SGF~ledp~~F 75 (123)
.+++++++.|++.+ +.+. +.+.+++.+.- |+|..++...-.- +.+.+|++.+ ++-+--||.=+...+|
T Consensus 241 ~i~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~~~~~~~~~~i~~-lr~~~~~i~i---~~d~IvG~PgET~ed~ 316 (439)
T PRK14328 241 DLSDDLIEAIADCDKVCEHIHLPVQSGSNRILKKMNRHYTREYYLELVEK-IKSNIPDVAI---TTDIIVGFPGETEEDF 316 (439)
T ss_pred hcCHHHHHHHHhCCCcCceeeeCCCcCCHHHHHhCCCCCCHHHHHHHHHH-HHHhCCCCEE---EEEEEEECCCCCHHHH
Confidence 36788999998542 3333 22333333321 5677776665422 3145677655 3456679999999999
Q ss_pred HHHHHHHHHhcC
Q psy4704 76 AARIHRMIKLGL 87 (123)
Q Consensus 76 a~RI~~m~~~~L 87 (123)
..-+.-+-++++
T Consensus 317 ~~tl~~i~~l~~ 328 (439)
T PRK14328 317 EETLDLVKEVRY 328 (439)
T ss_pred HHHHHHHHhcCC
Confidence 888877766543
No 51
>cd07579 nitrilase_1_R2 Second nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). Members of this subgroup have two nitrilase domains. This is the second of those two domains. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=30.38 E-value=50 Score=26.39 Aligned_cols=18 Identities=22% Similarity=0.519 Sum_probs=14.4
Q ss_pred cccceEeeccccccccCCCC
Q psy4704 50 RMPDVVMWPEYIVLSSGFTL 69 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~l 69 (123)
+=+|++||||+++ +||..
T Consensus 30 ~gadlvvfPE~~l--tG~~~ 47 (279)
T cd07579 30 TGAELVVFPELAL--TGLDD 47 (279)
T ss_pred CCCCEEEeCCccc--cCCCC
Confidence 4589999999886 58864
No 52
>PF13592 HTH_33: Winged helix-turn helix
Probab=29.90 E-value=41 Score=21.02 Aligned_cols=28 Identities=29% Similarity=0.451 Sum_probs=21.8
Q ss_pred HHHHHHh-cccccccchhhhhhhccCchH
Q psy4704 9 VLSLLED-TGVSLSTEGEDRLYRSHGQTN 36 (123)
Q Consensus 9 fl~~l~~-~~~~~s~d~~dRl~r~HGhtl 36 (123)
+-+-|+. .||.||..+.-||++.||-+.
T Consensus 10 i~~~I~~~fgv~ys~~~v~~lL~r~G~s~ 38 (60)
T PF13592_consen 10 IAAYIEEEFGVKYSPSGVYRLLKRLGFSY 38 (60)
T ss_pred HHHHHHHHHCCEEcHHHHHHHHHHcCCcc
Confidence 3344554 589999999999999999664
No 53
>PTZ00372 endonuclease 4-like protein; Provisional
Probab=29.73 E-value=88 Score=27.47 Aligned_cols=49 Identities=8% Similarity=0.192 Sum_probs=36.3
Q ss_pred hccCchHHHHHHhhcCCccccccceEeecccc-ccccCCCCCChHHHHHHHH
Q psy4704 30 RSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYI-VLSSGFTLEEPQVHAARIH 80 (123)
Q Consensus 30 r~HGhtl~di~~LR~g~~~~Ripd~vllpetA-lL~SGF~ledp~~Fa~RI~ 80 (123)
..-|.+.+++-.|..+ + ...+.+-+-+||+ +..+||.+.++..|..-+.
T Consensus 281 ~~lG~~~eeL~~Iid~-v-~~~~rlGvCLDTcHafaAGydl~t~e~~~~~l~ 330 (413)
T PTZ00372 281 NSVGSKFEDLRDIIAL-V-EDKSRVGVCLDTCHLFAAGYDIRTKESFDKVMK 330 (413)
T ss_pred CcccCCHHHHHHHHHh-c-CCcCCeEEEEEHHHHHhcCCCCCcHHHHHHHHH
Confidence 3457889998888755 4 2346688889988 6789999998887665553
No 54
>PRK06294 coproporphyrinogen III oxidase; Provisional
Probab=29.58 E-value=1.9e+02 Score=24.27 Aligned_cols=73 Identities=16% Similarity=0.216 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHhccc--------ccccchhhhhhhccCchHHHHH----HhhcCCccccccceEeeccccccccCCCCCC
Q psy4704 4 SLQRSVLSLLEDTGV--------SLSTEGEDRLYRSHGQTNTEIY----QLKYTSIMKRMPDVVMWPEYIVLSSGFTLEE 71 (123)
Q Consensus 4 ~~~~~fl~~l~~~~~--------~~s~d~~dRl~r~HGhtl~di~----~LR~g~~~~Ripd~vllpetAlL~SGF~led 71 (123)
++++++++.|++.|+ +++.+...+|-| +|+..++. .+|.-+| . .+.+ =|--|+.-+.
T Consensus 100 ~~~~~~l~~l~~~G~nrislGvQS~~~~~L~~l~R--~~~~~~~~~ai~~~~~~g~-~---~v~~-----Dli~GlPgqt 168 (370)
T PRK06294 100 NLSESYIRALALTGINRISIGVQTFDDPLLKLLGR--THSSSKAIDAVQECSEHGF-S---NLSI-----DLIYGLPTQS 168 (370)
T ss_pred CCCHHHHHHHHHCCCCEEEEccccCCHHHHHHcCC--CCCHHHHHHHHHHHHHcCC-C---eEEE-----EeecCCCCCC
Confidence 567899999998654 234444456666 44555543 4665545 1 1111 1455999999
Q ss_pred hHHHHHHHHHHHHhcC
Q psy4704 72 PQVHAARIHRMIKLGL 87 (123)
Q Consensus 72 p~~Fa~RI~~m~~~~L 87 (123)
+..|..-+..++.++.
T Consensus 169 ~~~~~~~l~~~~~l~~ 184 (370)
T PRK06294 169 LSDFIVDLHQAITLPI 184 (370)
T ss_pred HHHHHHHHHHHHccCC
Confidence 9999999999987653
No 55
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=29.53 E-value=43 Score=20.41 Aligned_cols=30 Identities=30% Similarity=0.312 Sum_probs=26.0
Q ss_pred cccCCCCCChHHHHHHHHHHHHhcCCCCcc
Q psy4704 63 LSSGFTLEEPQVHAARIHRMIKLGLGIEDE 92 (123)
Q Consensus 63 L~SGF~ledp~~Fa~RI~~m~~~~L~i~~~ 92 (123)
+..|.+.+.-..++++|...+..-+|++.+
T Consensus 8 ~~~grs~eqk~~l~~~it~~l~~~~~~p~~ 37 (62)
T PRK00745 8 LFEGRTVEQKRKLVEEITRVTVETLGCPPE 37 (62)
T ss_pred EcCCCCHHHHHHHHHHHHHHHHHHcCCChh
Confidence 456889999999999999999999998853
No 56
>cd07573 CPA N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases). CPA (EC 3.5.1.53, also known as N-carbamoylputrescine amidase and carbamoylputrescine hydrolase) converts N-carbamoylputrescine to putrescine, a step in polyamine biosynthesis in plants and bacteria. This subgroup includes Arabidopsis thaliana CPA, also known as nitrilase-like 1 (NLP1), and Pseudomonas aeruginosa AguB. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 11. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer; P. aeruginosa AugB is a homohexamer, Arabidopsis thaliana NLP1 is a homooctomer.
Probab=29.33 E-value=33 Score=26.80 Aligned_cols=20 Identities=15% Similarity=0.222 Sum_probs=15.5
Q ss_pred cccceEeeccccccccCCCCCC
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEE 71 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~led 71 (123)
+=+|++||||+++ +||...+
T Consensus 31 ~gadlivfPE~~l--~g~~~~~ 50 (284)
T cd07573 31 QGAQIVCLQELFE--TPYFCQE 50 (284)
T ss_pred CCCcEEEcccccc--CCCCccc
Confidence 4479999999886 5887653
No 57
>PF08241 Methyltransf_11: Methyltransferase domain; InterPro: IPR013216 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Arsenite methyltransferase (2.1.1.137 from EC) which converts arsenical compounds to their methylated forms [] Biotin synthesis protein bioC, which is involved in the early stages of biotin biosyntheis [] Arginine N-methyltransferase 1, an arginine-methylating enzyme which acts on residues present in a glycine and argine-rich domain and can methylate histones [] Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Sterol 24-C-methyltransferase (2.1.1.41 from EC), shown to participate in ergosterol biosynthesis [] 3-demethylubiquinone-9 3-methyltransferase (2.1.1.64 from EC) involved in ubiquinone biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ]. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 3CGG_B 3CCF_B 3BKW_B 2PXX_A 3I9F_A 2YQZ_B 2YR0_A 3BUS_A 3EGE_A 3G5L_B ....
Probab=29.14 E-value=22 Score=22.14 Aligned_cols=57 Identities=25% Similarity=0.423 Sum_probs=33.9
Q ss_pred ccccccchhhhhhhc---cCchHHHHHHhhcCCcccccc------ceEeeccccccccCCCCCChHHHHHHHHHHHHh
Q psy4704 17 GVSLSTEGEDRLYRS---HGQTNTEIYQLKYTSIMKRMP------DVVMWPEYIVLSSGFTLEEPQVHAARIHRMIKL 85 (123)
Q Consensus 17 ~~~~s~d~~dRl~r~---HGhtl~di~~LR~g~~~~Rip------d~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~ 85 (123)
++++|.....+..+. .+.. ++.+.+ ..+| |+++...+... ++++..+...|+++++-
T Consensus 24 ~~D~~~~~~~~~~~~~~~~~~~------~~~~d~-~~l~~~~~sfD~v~~~~~~~~-----~~~~~~~l~e~~rvLk~ 89 (95)
T PF08241_consen 24 GIDISEEMLEQARKRLKNEGVS------FRQGDA-EDLPFPDNSFDVVFSNSVLHH-----LEDPEAALREIYRVLKP 89 (95)
T ss_dssp EEES-HHHHHHHHHHTTTSTEE------EEESBT-TSSSS-TT-EEEEEEESHGGG-----SSHHHHHHHHHHHHEEE
T ss_pred EEeCCHHHHHHHHhcccccCch------heeehH-HhCccccccccccccccceee-----ccCHHHHHHHHHHHcCc
Confidence 566777765544333 2322 566665 4555 55544433322 38999999999999874
No 58
>TIGR03381 agmatine_aguB N-carbamoylputrescine amidase. Members of this family are N-carbamoylputrescine amidase (3.5.1.53). Bacterial genes are designated AguB. The AguAB pathway replaces SpeB for conversion of agmatine to putrescine in two steps rather than one.
Probab=29.08 E-value=35 Score=26.49 Aligned_cols=20 Identities=15% Similarity=0.419 Sum_probs=15.3
Q ss_pred cccceEeeccccccccCCCCCC
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEE 71 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~led 71 (123)
+=+|++||||+++ +||...+
T Consensus 31 ~gadlivfPE~~~--~gy~~~~ 50 (279)
T TIGR03381 31 RGAQIILLPELFE--GPYFCKD 50 (279)
T ss_pred CCCCEEEcccccC--CCCcCCc
Confidence 4589999999875 6886543
No 59
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=29.03 E-value=69 Score=27.04 Aligned_cols=73 Identities=8% Similarity=0.154 Sum_probs=45.1
Q ss_pred HHHHHHHHh-cccccccchhh---hhhhccCchHHHHHHhhcCCccccccceEeeccccccccCCCCCChHHHHHHHHHH
Q psy4704 7 RSVLSLLED-TGVSLSTEGED---RLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQVHAARIHRM 82 (123)
Q Consensus 7 ~~fl~~l~~-~~~~~s~d~~d---Rl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetAlL~SGF~ledp~~Fa~RI~~m 82 (123)
+.|.+.|++ +|..++.+... ++.+.+-+-+++++.||.-+- ..++-...+. ++.+++ .-++..+..-+..+
T Consensus 141 ~~l~~~LE~~~G~~i~~e~L~~ai~~~n~~r~~~~~~~~l~~~~p-~pitg~e~~~---~~~~~~-~~~~~~~~~~l~~l 215 (377)
T TIGR03190 141 QRFRVFLQTLTGKEITDDMLRDALAVCDENRRLLRELFDYRKEAD-PKVTGVEALY---ASLTAQ-FIDKREHNEMLKKV 215 (377)
T ss_pred HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHccCC-CCcCHHHHHH---HHHHhc-CCCHHHHHHHHHHH
Confidence 467777877 68999999887 445557777889999994432 2333222222 233333 24677777666666
Q ss_pred HH
Q psy4704 83 IK 84 (123)
Q Consensus 83 ~~ 84 (123)
+.
T Consensus 216 ~~ 217 (377)
T TIGR03190 216 LA 217 (377)
T ss_pred HH
Confidence 54
No 60
>PRK12291 apolipoprotein N-acyltransferase; Reviewed
Probab=28.84 E-value=51 Score=28.42 Aligned_cols=29 Identities=14% Similarity=0.280 Sum_probs=17.2
Q ss_pred ccceEeeccccccccCCCCCChHHHHHHHHHH
Q psy4704 51 MPDVVMWPEYIVLSSGFTLEEPQVHAARIHRM 82 (123)
Q Consensus 51 ipd~vllpetAlL~SGF~ledp~~Fa~RI~~m 82 (123)
-+|++||||||. .+|.-.++ .+.+++-++
T Consensus 233 ~~dLVVwPEta~--p~~~~~~~-~~~~~l~~~ 261 (418)
T PRK12291 233 KKDLIVLPETAF--PLALNNSP-ILLDKLKEL 261 (418)
T ss_pred CCCEEEeCCccc--ccchhhCH-HHHHHHHHh
Confidence 479999999985 23433333 344444443
No 61
>KOG3423|consensus
Probab=28.41 E-value=20 Score=28.26 Aligned_cols=43 Identities=23% Similarity=0.388 Sum_probs=29.5
Q ss_pred hHHHHHHhhcCCccccccceEeeccccccccCCCCCChHHHHHHHHHHHHh
Q psy4704 35 TNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQVHAARIHRMIKL 85 (123)
Q Consensus 35 tl~di~~LR~g~~~~Ripd~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~ 85 (123)
+|.|+.+-=-. +..-|||+|+.+ -|=.+||.-.|| ||-|||.+
T Consensus 72 ~l~efl~qLdd-YtP~IPDavt~~--yL~~aGf~~~D~-----rv~RLvsL 114 (176)
T KOG3423|consen 72 HLEEFLAQLDD-YTPTIPDAVTDH--YLKKAGFQTSDP-----RVKRLVSL 114 (176)
T ss_pred HHHHHHHHHhc-CCCCCcHHHHHH--HHHhcCCCcCcH-----HHHHHHHH
Confidence 45565543323 336899998877 677899999998 45555554
No 62
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=28.12 E-value=31 Score=26.97 Aligned_cols=77 Identities=18% Similarity=0.233 Sum_probs=48.8
Q ss_pred HHHHHHHHHHh--cccccccchhhhhhhccCch--------------------HHHHHHhhcCCccccccceEeeccccc
Q psy4704 5 LQRSVLSLLED--TGVSLSTEGEDRLYRSHGQT--------------------NTEIYQLKYTSIMKRMPDVVMWPEYIV 62 (123)
Q Consensus 5 ~~~~fl~~l~~--~~~~~s~d~~dRl~r~HGht--------------------l~di~~LR~g~~~~Ripd~vllpetAl 62 (123)
-|-.||++..- +++++|..+.++.++.+|.+ +.|++.+.... .+-..+.|+.+.
T Consensus 50 ~da~~LA~~G~~V~avD~s~~Ai~~~~~~~~l~~~~~~~~~~~~~~~~~v~~~~~D~~~l~~~~----~~~fd~v~D~~~ 125 (218)
T PRK13255 50 LDMLWLAEQGHEVLGVELSELAVEQFFAENGLTPQTRQSGEFEHYQAGEITIYCGDFFALTAAD----LADVDAVYDRAA 125 (218)
T ss_pred HhHHHHHhCCCeEEEEccCHHHHHHHHHHcCCCccccccccccccccCceEEEECcccCCCccc----CCCeeEEEehHh
Confidence 45566766442 47899999999988777754 34555553221 133455666665
Q ss_pred cccCCCCCChHHHHHHHHHHHHhc
Q psy4704 63 LSSGFTLEEPQVHAARIHRMIKLG 86 (123)
Q Consensus 63 L~SGF~ledp~~Fa~RI~~m~~~~ 86 (123)
+. =+..+.=..|.++|.++++-|
T Consensus 126 ~~-~l~~~~R~~~~~~l~~lL~pg 148 (218)
T PRK13255 126 LI-ALPEEMRERYVQQLAALLPAG 148 (218)
T ss_pred Hh-hCCHHHHHHHHHHHHHHcCCC
Confidence 54 334444467899999998865
No 63
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=28.05 E-value=54 Score=21.77 Aligned_cols=26 Identities=23% Similarity=0.418 Sum_probs=17.1
Q ss_pred HHHHHHHHHHhcccccccchhhhhhh
Q psy4704 5 LQRSVLSLLEDTGVSLSTEGEDRLYR 30 (123)
Q Consensus 5 ~~~~fl~~l~~~~~~~s~d~~dRl~r 30 (123)
-|+++++.|+..|+.+|+-..-|-++
T Consensus 21 sQ~eL~~~L~~~Gi~vTQaTiSRDLk 46 (70)
T PF01316_consen 21 SQEELVELLEEEGIEVTQATISRDLK 46 (70)
T ss_dssp SHHHHHHHHHHTT-T--HHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCcchhHHHHHHH
Confidence 36788888888888888877777544
No 64
>cd07582 nitrilase_4 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=28.05 E-value=34 Score=27.26 Aligned_cols=19 Identities=42% Similarity=0.896 Sum_probs=15.5
Q ss_pred cceEeeccccccccCCCCCCh
Q psy4704 52 PDVVMWPEYIVLSSGFTLEEP 72 (123)
Q Consensus 52 pd~vllpetAlL~SGF~ledp 72 (123)
+|++||||.++ +||...+.
T Consensus 43 adlivfPE~~l--tGy~~~~~ 61 (294)
T cd07582 43 VRLVVLPEYAL--QGFPMGEP 61 (294)
T ss_pred ceEEEcCcccc--ccCCcccc
Confidence 69999999887 58987653
No 65
>COG0316 sufA Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]
Probab=27.66 E-value=17 Score=26.28 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=21.0
Q ss_pred cccceEeeccccccccCCCCCChHH
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEPQV 74 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp~~ 74 (123)
.+-++.+=|-+-++.|||.+.||++
T Consensus 74 ~L~G~~IDyv~~~~g~~F~~~NPNA 98 (110)
T COG0316 74 YLEGTEIDYVEDLLGSGFTFKNPNA 98 (110)
T ss_pred hhcCCEEEEEEcCcCCceEEECCCC
Confidence 3446778888999999999999985
No 66
>cd08315 Death_TRAILR_DR4_DR5 Death domain of Tumor necrosis factor-Related Apoptosis-Inducing Ligand Receptors. Death Domain (DD) found in Tumor necrosis factor-Related Apoptosis-Inducing Ligand (TRAIL) Receptors. In mammals, this family includes TRAILR1 (also called DR4 or TNFRSF10A) and TRAILR2 (also called DR5, TNFRSF10B, or KILLER). They function as receptors for the cytokine TRAIL and are involved in apoptosis signaling pathways. TRAIL preferentially induces apoptosis in cancer cells while exhibiting little toxicity in normal cells. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=27.53 E-value=67 Score=22.29 Aligned_cols=27 Identities=26% Similarity=0.300 Sum_probs=23.5
Q ss_pred ccccchhhhhhhccCchHHHHHHhhcC
Q psy4704 19 SLSTEGEDRLYRSHGQTNTEIYQLKYT 45 (123)
Q Consensus 19 ~~s~d~~dRl~r~HGhtl~di~~LR~g 45 (123)
.++.+.+.+|+|..|-|-.+|..+++.
T Consensus 16 ~V~~~~Wk~laR~LGLse~~I~~i~~~ 42 (96)
T cd08315 16 EVPFDSWNRLMRQLGLSENEIDVAKAN 42 (96)
T ss_pred HCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 455678889999999999999999966
No 67
>PRK10438 C-N hydrolase family amidase; Provisional
Probab=27.52 E-value=38 Score=26.51 Aligned_cols=18 Identities=39% Similarity=0.839 Sum_probs=14.2
Q ss_pred cceEeeccccccccCCCCCC
Q psy4704 52 PDVVMWPEYIVLSSGFTLEE 71 (123)
Q Consensus 52 pd~vllpetAlL~SGF~led 71 (123)
.|++||||+++ +||..++
T Consensus 35 adLivfPE~~~--~Gy~~~~ 52 (256)
T PRK10438 35 RDVIVLPEMFT--TGFAMEA 52 (256)
T ss_pred CCEEEeCCccc--CCCcccc
Confidence 69999999775 6997644
No 68
>PRK09249 coproporphyrinogen III oxidase; Provisional
Probab=27.47 E-value=1.8e+02 Score=24.99 Aligned_cols=75 Identities=19% Similarity=0.252 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHhccc---ccccc-----hhhhhhhccC--chHHHHHHhhcCCccccccceEeeccccccccCCCCCChH
Q psy4704 4 SLQRSVLSLLEDTGV---SLSTE-----GEDRLYRSHG--QTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQ 73 (123)
Q Consensus 4 ~~~~~fl~~l~~~~~---~~s~d-----~~dRl~r~HG--htl~di~~LR~g~~~~Ripd~vllpetAlL~SGF~ledp~ 73 (123)
+++++.++.|++.|+ +++.+ ..+++.|.|. +..+-|-.||.-+| ..+ ..-|.-|+.-+++.
T Consensus 148 ~lt~e~l~~l~~aG~~risiGvqS~~~~~L~~l~r~~~~~~~~~ai~~l~~~G~-~~v--------~~dli~GlPgqt~e 218 (453)
T PRK09249 148 ELDLEMLDALRELGFNRLSLGVQDFDPEVQKAVNRIQPFEFTFALVEAARELGF-TSI--------NIDLIYGLPKQTPE 218 (453)
T ss_pred cCCHHHHHHHHHcCCCEEEECCCCCCHHHHHHhCCCCCHHHHHHHHHHHHHcCC-CcE--------EEEEEccCCCCCHH
Confidence 577899999998653 33333 3335555332 23344556665445 221 23345588899999
Q ss_pred HHHHHHHHHHHhcC
Q psy4704 74 VHAARIHRMIKLGL 87 (123)
Q Consensus 74 ~Fa~RI~~m~~~~L 87 (123)
.|..-+..+++++.
T Consensus 219 ~~~~~l~~~~~l~~ 232 (453)
T PRK09249 219 SFARTLEKVLELRP 232 (453)
T ss_pred HHHHHHHHHHhcCC
Confidence 99999888887553
No 69
>TIGR03840 TMPT_Se_Te thiopurine S-methyltransferase, Se/Te detoxification family. Members of this family are thiopurine S-methyltransferase from a branch in which at least some member proteins can perform selenium methylation as a means to detoxify selenium, or perform a related detoxification of tellurium. Note that the EC number definition does not specify a particular thiopurine, but rather represents a class of activity.
Probab=27.34 E-value=29 Score=27.01 Aligned_cols=76 Identities=20% Similarity=0.211 Sum_probs=44.5
Q ss_pred HHHHHHHHHh--cccccccchhhhhhhccCch--------------------HHHHHHhhcCCccccccceEeecccccc
Q psy4704 6 QRSVLSLLED--TGVSLSTEGEDRLYRSHGQT--------------------NTEIYQLKYTSIMKRMPDVVMWPEYIVL 63 (123)
Q Consensus 6 ~~~fl~~l~~--~~~~~s~d~~dRl~r~HGht--------------------l~di~~LR~g~~~~Ripd~vllpetAlL 63 (123)
|-.||++..- +++++|..+.+++++.+|.+ +.|++.+.... .+..-+.++.+.+
T Consensus 48 da~~LA~~G~~V~gvD~S~~Ai~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~D~~~~~~~~----~~~fD~i~D~~~~ 123 (213)
T TIGR03840 48 DLAWLAEQGHRVLGVELSEIAVEQFFAENGLTPTVTQQGEFTRYRAGNIEIFCGDFFALTAAD----LGPVDAVYDRAAL 123 (213)
T ss_pred HHHHHHhCCCeEEEEeCCHHHHHHHHHHcCCCcceeccccceeeecCceEEEEccCCCCCccc----CCCcCEEEechhh
Confidence 4556665432 57899999999877666543 33333332100 0112334555544
Q ss_pred ccCCCCCChHHHHHHHHHHHHhc
Q psy4704 64 SSGFTLEEPQVHAARIHRMIKLG 86 (123)
Q Consensus 64 ~SGF~ledp~~Fa~RI~~m~~~~ 86 (123)
. .+..+.-..|+++|.++++-|
T Consensus 124 ~-~l~~~~R~~~~~~l~~lLkpg 145 (213)
T TIGR03840 124 I-ALPEEMRQRYAAHLLALLPPG 145 (213)
T ss_pred c-cCCHHHHHHHHHHHHHHcCCC
Confidence 3 455555566999999999865
No 70
>PRK09331 Sep-tRNA:Cys-tRNA synthetase; Provisional
Probab=27.08 E-value=39 Score=27.92 Aligned_cols=35 Identities=14% Similarity=0.218 Sum_probs=20.5
Q ss_pred HHHHHHHhcccccccchhhhhhhc-c-CchHHHHHHh
Q psy4704 8 SVLSLLEDTGVSLSTEGEDRLYRS-H-GQTNTEIYQL 42 (123)
Q Consensus 8 ~fl~~l~~~~~~~s~d~~dRl~r~-H-Ghtl~di~~L 42 (123)
.|.+.|++.||..-.-+..|++|. | |||-+||-.|
T Consensus 335 ~~~~~L~~~gI~~~~~~~~~i~ri~~~g~t~~di~~l 371 (387)
T PRK09331 335 FLYEELKKRGIHGIKPGATKEFKLSTYGLTWEQVEYV 371 (387)
T ss_pred hHHHHHHHcCceEEccCCceEEEEEeccCCHHHHHHH
Confidence 466777766664222334566665 4 7777776644
No 71
>PRK13347 coproporphyrinogen III oxidase; Provisional
Probab=26.73 E-value=2.3e+02 Score=24.41 Aligned_cols=74 Identities=15% Similarity=0.254 Sum_probs=45.7
Q ss_pred hHHHHHHHHHHHhccc---cccc-----chhhhhhhccCchHHH----HHHhhcCCccccccceEeeccccccccCCCCC
Q psy4704 3 TSLQRSVLSLLEDTGV---SLST-----EGEDRLYRSHGQTNTE----IYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLE 70 (123)
Q Consensus 3 ~~~~~~fl~~l~~~~~---~~s~-----d~~dRl~r~HGhtl~d----i~~LR~g~~~~Ripd~vllpetAlL~SGF~le 70 (123)
.+++++.++.|++.|+ ++.. +..+.+.|. |+..+ |-.+|.-+| ..+ . .-|--|+.-+
T Consensus 148 ~~lt~e~l~~L~~~G~~rvsiGvQS~~~~vl~~l~R~--~~~~~~~~ai~~lr~~G~-~~v-~-------~dli~GlPgq 216 (453)
T PRK13347 148 RTVTAEMLQALAALGFNRASFGVQDFDPQVQKAINRI--QPEEMVARAVELLRAAGF-ESI-N-------FDLIYGLPHQ 216 (453)
T ss_pred ccCCHHHHHHHHHcCCCEEEECCCCCCHHHHHHhCCC--CCHHHHHHHHHHHHhcCC-CcE-E-------EeEEEeCCCC
Confidence 3578899999998653 3333 333345453 44444 445665445 111 1 2234588888
Q ss_pred ChHHHHHHHHHHHHhcC
Q psy4704 71 EPQVHAARIHRMIKLGL 87 (123)
Q Consensus 71 dp~~Fa~RI~~m~~~~L 87 (123)
++..|..-+..+++++.
T Consensus 217 t~e~~~~tl~~~~~l~p 233 (453)
T PRK13347 217 TVESFRETLDKVIALSP 233 (453)
T ss_pred CHHHHHHHHHHHHhcCC
Confidence 99999999999887654
No 72
>TIGR02383 Hfq RNA chaperone Hfq. This model represents the RNA-binding pleiotropic regulator Hfq, a small, Sm-like protein of bacteria. It helps pair regulatory noncoding RNAs with complementary mRNA target regions. It enhances the elongation of poly(A) tails on mRNA. It appears also to protect RNase E recognition sites (A/U-rich sequences with adjacent stem-loop structures) from cleavage. Being pleiotropic, it differs in some of its activities in different species. Hfq binds the non-coding regulatory RNA DsrA (see Rfam RF00014) in the few species known to have it: Escherichia coli, Shigella flexneri, Salmonella spp. In Azorhizobium caulinodans, an hfq mutant is unable to express nifA, and Hfq is called NrfA, for nif regulatory factor (see PubMed:8197116). The name hfq reflects phenomenology as a host factor for phage Q-beta RNA replication.
Probab=26.37 E-value=46 Score=21.88 Aligned_cols=18 Identities=22% Similarity=0.405 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHhcccccc
Q psy4704 4 SLQRSVLSLLEDTGVSLS 21 (123)
Q Consensus 4 ~~~~~fl~~l~~~~~~~s 21 (123)
.||+.||+.+|..++.++
T Consensus 2 nlQd~fln~~r~~~~~Vt 19 (61)
T TIGR02383 2 NLQDQFLNTLRKERIPVT 19 (61)
T ss_pred chHHHHHHHHHHcCCcEE
Confidence 589999999997666654
No 73
>KOG3883|consensus
Probab=26.19 E-value=42 Score=26.66 Aligned_cols=41 Identities=15% Similarity=0.217 Sum_probs=26.8
Q ss_pred chHHHHHHhhcCCccccccceEeeccccccccC------------------CCCCChHHH
Q psy4704 34 QTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSG------------------FTLEEPQVH 75 (123)
Q Consensus 34 htl~di~~LR~g~~~~Ripd~vllpetAlL~SG------------------F~ledp~~F 75 (123)
-|.+|||.---..= +-.-....+|+||-|+.| |+..||.+|
T Consensus 42 pTiEDiY~~svet~-rgarE~l~lyDTaGlq~~~~eLprhy~q~aDafVLVYs~~d~eSf 100 (198)
T KOG3883|consen 42 PTIEDIYVASVETD-RGAREQLRLYDTAGLQGGQQELPRHYFQFADAFVLVYSPMDPESF 100 (198)
T ss_pred cchhhheeEeeecC-CChhheEEEeecccccCchhhhhHhHhccCceEEEEecCCCHHHH
Confidence 36777776432221 223356778999999888 677778777
No 74
>cd07566 ScNTA1_like Saccharomyces cerevisiae N-terminal amidase NTA1, and related proteins (class 3 nitrilases). Saccharomyces cerevisiae NTA1 functions in the N-end rule protein degradation pathway. It specifically deaminates the N-terminal asparagine and glutamine residues of substrates of this pathway, to aspartate and glutamate respectively, these latter are the destabilizing residues. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 3.
Probab=26.01 E-value=57 Score=26.58 Aligned_cols=20 Identities=25% Similarity=0.715 Sum_probs=15.6
Q ss_pred ccceEeeccccccccCCCCCCh
Q psy4704 51 MPDVVMWPEYIVLSSGFTLEEP 72 (123)
Q Consensus 51 ipd~vllpetAlL~SGF~ledp 72 (123)
=+|++||||.++ +||...+.
T Consensus 36 gadLIVfPEl~l--tGY~~~~~ 55 (295)
T cd07566 36 KPDILVLPELAL--TGYNFHSL 55 (295)
T ss_pred CCcEEEcCCCCc--ccCCcccH
Confidence 469999999765 58987654
No 75
>PF08410 DUF1737: Domain of unknown function (DUF1737); InterPro: IPR013619 This domain of unknown function is found at the N terminus of bacterial and viral hypothetical proteins.
Probab=25.83 E-value=71 Score=20.48 Aligned_cols=20 Identities=10% Similarity=0.287 Sum_probs=16.8
Q ss_pred CChHHHHHHHHHHHHhcCCC
Q psy4704 70 EEPQVHAARIHRMIKLGLGI 89 (123)
Q Consensus 70 edp~~Fa~RI~~m~~~~L~i 89 (123)
.|+.+|+.||-..|+.|-.+
T Consensus 12 ~d~~~fc~rVt~aL~~GW~l 31 (54)
T PF08410_consen 12 PDDSAFCHRVTEALNEGWQL 31 (54)
T ss_pred CChHHHHHHHHHHHHcCCEe
Confidence 58999999999999977543
No 76
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=25.72 E-value=31 Score=27.47 Aligned_cols=34 Identities=26% Similarity=0.581 Sum_probs=27.3
Q ss_pred cccceEeeccccccccCCCCCChHHHHHHHHHHHHh
Q psy4704 50 RMPDVVMWPEYIVLSSGFTLEEPQVHAARIHRMIKL 85 (123)
Q Consensus 50 Ripd~vllpetAlL~SGF~ledp~~Fa~RI~~m~~~ 85 (123)
..||..+.-+.-|++.|| .+++..|++|..+.++
T Consensus 165 ~~PD~~~I~ei~L~s~GF--~~a~~La~kl~~l~~l 198 (231)
T PF12774_consen 165 MVPDLSLIAEILLLSQGF--KDAKSLAKKLVSLFQL 198 (231)
T ss_dssp -S--HHHHHHHHHHCCCT--SSHHHHHHHHHHHHHH
T ss_pred eCCCHHHHHHHHHHHcCc--hhHHHHHHHHHHHHHH
Confidence 468888888999999999 5999999999887764
No 77
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=25.47 E-value=79 Score=22.29 Aligned_cols=28 Identities=18% Similarity=0.325 Sum_probs=21.6
Q ss_pred ccccccccCCCCCC--hHHHHHHHHHHHHh
Q psy4704 58 PEYIVLSSGFTLEE--PQVHAARIHRMIKL 85 (123)
Q Consensus 58 petAlL~SGF~led--p~~Fa~RI~~m~~~ 85 (123)
+.--+|+|||.+.+ +..+.+-|.++.+.
T Consensus 42 ~gElvlttg~~~~~~~~~~~~~~i~~L~~~ 71 (123)
T PF07905_consen 42 GGELVLTTGYALRDDDEEELREFIRELAEK 71 (123)
T ss_pred CCeEEEECCcccCCCCHHHHHHHHHHHHHC
Confidence 34457899999988 66688888888775
No 78
>KOG2278|consensus
Probab=24.55 E-value=50 Score=26.49 Aligned_cols=26 Identities=15% Similarity=0.239 Sum_probs=20.6
Q ss_pred hhhhccCchHHHHHHhhcCCcccccc
Q psy4704 27 RLYRSHGQTNTEIYQLKYTSIMKRMP 52 (123)
Q Consensus 27 Rl~r~HGhtl~di~~LR~g~~~~Rip 52 (123)
-.+|+|+||..||..+=.++=++|.-
T Consensus 44 nq~r~~~~t~ddi~riVk~ndKqRF~ 69 (207)
T KOG2278|consen 44 NQFRGANHTIDDIRRIVKRNDKQRFS 69 (207)
T ss_pred chhcccCCcHHHHHHHHhccccceEE
Confidence 46899999999999987776546753
No 79
>PF04435 SPK: Domain of unknown function (DUF545) ; InterPro: IPR006570 SPK is a domain of unknown function found in SET and PHD domain containing proteins and protein kinases.
Probab=24.04 E-value=27 Score=23.71 Aligned_cols=28 Identities=14% Similarity=0.267 Sum_probs=18.8
Q ss_pred chHHHHHHHHHHHhcccccccchhhhhhh
Q psy4704 2 STSLQRSVLSLLEDTGVSLSTEGEDRLYR 30 (123)
Q Consensus 2 ~~~~~~~fl~~l~~~~~~~s~d~~dRl~r 30 (123)
+..++++|++.|+..+. +-.|..-||..
T Consensus 72 ~~pV~~~fl~~L~~~a~-v~lD~~~rI~~ 99 (109)
T PF04435_consen 72 SIPVDEEFLKELRKHAD-VELDEKGRIIK 99 (109)
T ss_pred CCCcCHHHHHHHHhCcE-EEEcCCCCEEE
Confidence 55678999999997543 44455556653
No 80
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=24.02 E-value=69 Score=19.47 Aligned_cols=28 Identities=21% Similarity=0.170 Sum_probs=25.1
Q ss_pred cCCCCCChHHHHHHHHHHHHhcCCCCcc
Q psy4704 65 SGFTLEEPQVHAARIHRMIKLGLGIEDE 92 (123)
Q Consensus 65 SGF~ledp~~Fa~RI~~m~~~~L~i~~~ 92 (123)
.|.+.+.-..++..|+..+...||++.+
T Consensus 10 ~grt~eqK~~l~~~it~~l~~~lg~~~~ 37 (63)
T TIGR00013 10 EGRTDEQKRQLIEGVTEAMAETLGANLE 37 (63)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 6889999999999999999999998853
No 81
>PF06294 DUF1042: Domain of Unknown Function (DUF1042); InterPro: IPR010441 This is a family of proteins of unknown function.; PDB: 2EE7_A.
Probab=23.89 E-value=44 Score=25.25 Aligned_cols=37 Identities=27% Similarity=0.464 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhcccccccchhhhhhhc-cCchHHHHHHhhc
Q psy4704 5 LQRSVLSLLEDTGVSLSTEGEDRLYRS-HGQTNTEIYQLKY 44 (123)
Q Consensus 5 ~~~~fl~~l~~~~~~~s~d~~dRl~r~-HGhtl~di~~LR~ 44 (123)
||+.|+ +..++.++.+..+.+++| +|--..-+|.|+.
T Consensus 60 Ln~kvl---~kl~~~l~~~~i~~i~~~~~Gaae~lL~~L~~ 97 (158)
T PF06294_consen 60 LNEKVL---KKLGIKLDKEDIEGIINCKPGAAESLLYQLYT 97 (158)
T ss_dssp HHHHTT---GGGT----HHHHHHHHTT-TTTTHHHHHHHHH
T ss_pred HHHHHH---HHcCCCCCHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 444444 445689999999999999 9988777777763
No 82
>TIGR01574 miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-37 thiotransferase enzyme MiaB. Hits to this model span all major groups of bacteria and eukaryotes, but not archaea, which are known to lack this particular tRNA modification. The enzyme from Thermotoga maritima has been cloned, expressed, spectroscopically characterized and shown to complement the E. coli MiaB enzyme.
Probab=23.84 E-value=1.6e+02 Score=25.29 Aligned_cols=79 Identities=14% Similarity=0.177 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHhcc--cc--------cccchhhhhhhccCchHHHHHHhhcCCccccccceEeeccccccccCCCCCChH
Q psy4704 4 SLQRSVLSLLEDTG--VS--------LSTEGEDRLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQ 73 (123)
Q Consensus 4 ~~~~~fl~~l~~~~--~~--------~s~d~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetAlL~SGF~ledp~ 73 (123)
.+++++++.|++.+ .. .|..-..++.| |+|..++...=. .+.+.+|++.+ ++-+--||.=+.+.
T Consensus 241 ~l~~ell~~l~~~g~~~~~l~iglQSgsd~vLk~m~R--~~t~~~~~~~v~-~ir~~~~~i~i---~~d~IvG~PgEt~e 314 (438)
T TIGR01574 241 DFDDDLIEVFANNPKLCKSMHLPVQSGSSEILKLMKR--GYTREWYLNLVR-KLRAACPNVSI---STDIIVGFPGETEE 314 (438)
T ss_pred cCCHHHHHHHHhCCCccCceeeCCCcCCHHHHHhcCC--CCCHHHHHHHHH-HHHHhCCCCeE---eeCEEEeCCCCCHH
Confidence 35788999998644 21 23333334444 578777665321 12123577655 34566699999999
Q ss_pred HHHHHHHHHHHhcCC
Q psy4704 74 VHAARIHRMIKLGLG 88 (123)
Q Consensus 74 ~Fa~RI~~m~~~~L~ 88 (123)
.|..-+.-+-+.++.
T Consensus 315 d~~~tl~~i~~~~~~ 329 (438)
T TIGR01574 315 DFEETLDLLREVEFD 329 (438)
T ss_pred HHHHHHHHHHhcCCC
Confidence 999888777765543
No 83
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=23.33 E-value=72 Score=18.94 Aligned_cols=30 Identities=20% Similarity=0.218 Sum_probs=25.6
Q ss_pred cccCCCCCChHHHHHHHHHHHHhcCCCCcc
Q psy4704 63 LSSGFTLEEPQVHAARIHRMIKLGLGIEDE 92 (123)
Q Consensus 63 L~SGF~ledp~~Fa~RI~~m~~~~L~i~~~ 92 (123)
+..|.+.+.-..+++.|.+.+...+|++.+
T Consensus 7 ~~~grt~eqk~~l~~~i~~~l~~~~g~~~~ 36 (58)
T cd00491 7 ILEGRTDEQKRELIERVTEAVSEILGAPEA 36 (58)
T ss_pred EcCCCCHHHHHHHHHHHHHHHHHHhCcCcc
Confidence 456888888999999999999999998743
No 84
>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=23.29 E-value=1.6e+02 Score=26.33 Aligned_cols=79 Identities=20% Similarity=0.278 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHhcc-----c-----ccccchhhhhhhccCchHHHHHHhhcCCccccccceEeeccccccccCCCCCChH
Q psy4704 4 SLQRSVLSLLEDTG-----V-----SLSTEGEDRLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQ 73 (123)
Q Consensus 4 ~~~~~fl~~l~~~~-----~-----~~s~d~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetAlL~SGF~ledp~ 73 (123)
.+++++++.++..+ + +.|.....++.| |+|..++..+=.- +.+++|++.+. +-+--||.=+...
T Consensus 306 ~i~deli~~m~~~g~~~~~l~lgvQSgsd~vLk~M~R--~~t~e~~~~~v~~-lr~~~p~i~i~---tdiIvGfPgET~e 379 (509)
T PRK14327 306 DFDDHLIEVLAKGGNLVEHIHLPVQSGSTEVLKIMAR--KYTRESYLELVRK-IKEAIPNVALT---TDIIVGFPNETDE 379 (509)
T ss_pred cCCHHHHHHHHhcCCccceEEeccCCCCHHHHHhcCC--CCCHHHHHHHHHH-HHHhCCCcEEe---eeEEEeCCCCCHH
Confidence 36788999998654 1 234444445555 5677766544322 21457887653 3456799999999
Q ss_pred HHHHHHHHHHHhcCC
Q psy4704 74 VHAARIHRMIKLGLG 88 (123)
Q Consensus 74 ~Fa~RI~~m~~~~L~ 88 (123)
+|..-+--+.++++.
T Consensus 380 df~~Tl~~v~~l~~d 394 (509)
T PRK14327 380 QFEETLSLYREVGFD 394 (509)
T ss_pred HHHHHHHHHHHcCCC
Confidence 999988777665443
No 85
>cd07565 aliphatic_amidase aliphatic amidases (class 2 nitrilases). Aliphatic amidases catalyze the hydrolysis of short-chain aliphatic amides to form ammonia and the corresponding organic acid. This group includes Pseudomonas aeruginosa (Pa) AmiE, the amidase from Geobacillus pallidus RAPc8 (RAPc8 amidase), and Helicobacter pylori (Hp) AmiE and AmiF. PaAimE and HpAmiE hydrolyze various very short aliphatic amides, including propionamide, acetamide and acrylamide. HpAmiF is a formamidase which specifically hydrolyzes formamide. These proteins belong to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 2. Members of this superfamily generally form homomeric complexes, the basic
Probab=22.72 E-value=52 Score=26.48 Aligned_cols=17 Identities=29% Similarity=0.673 Sum_probs=13.9
Q ss_pred ccceEeeccccccccCCCC
Q psy4704 51 MPDVVMWPEYIVLSSGFTL 69 (123)
Q Consensus 51 ipd~vllpetAlL~SGF~l 69 (123)
=+|++||||+++ +||..
T Consensus 39 gadLvvfPE~~l--tGy~~ 55 (291)
T cd07565 39 GMDLIVFPEYST--QGLMY 55 (291)
T ss_pred CCeEEEeCCccc--ccCCC
Confidence 369999999986 68874
No 86
>PF13660 DUF4147: Domain of unknown function (DUF4147); PDB: 1X3L_A 2B8N_A.
Probab=22.55 E-value=2.7e+02 Score=22.56 Aligned_cols=59 Identities=25% Similarity=0.375 Sum_probs=31.3
Q ss_pred hhhhccCchHHHHHHhhcCCcccccc-----------ceEeec-------cccccccCCCCCChHHHHHHHHHHHHhcC
Q psy4704 27 RLYRSHGQTNTEIYQLKYTSIMKRMP-----------DVVMWP-------EYIVLSSGFTLEEPQVHAARIHRMIKLGL 87 (123)
Q Consensus 27 Rl~r~HGhtl~di~~LR~g~~~~Rip-----------d~vllp-------etAlL~SGF~ledp~~Fa~RI~~m~~~~L 87 (123)
|++=..|-+.+||..+|.. + .||- .++.|. +-..+.||=++.||..|..-.-=+-+-+|
T Consensus 148 ~~Ll~sGa~I~EiN~VRkh-L-S~vKGG~La~~~~~a~v~sLilSDV~Gd~l~~IaSGPt~pd~st~~da~~il~ky~l 224 (238)
T PF13660_consen 148 KLLLRSGADIHEINTVRKH-L-SRVKGGRLARAAAPARVVSLILSDVPGDDLSVIASGPTVPDPSTFEDALAILEKYGL 224 (238)
T ss_dssp HHHHHCT--HHHHHHHHHT-T-BSSTTTHHHHCHTTSEEEEEEE--STT--TTTGGG-TTS-----HHHHHHHHHHTT-
T ss_pred HHHHHCCCCHHHHHHHHHH-H-hcCCchHHHHHhcCCeEEEEEecCCCCCChhhcccCCccCCCCCHHHHHHHHHHcCC
Confidence 3333489999999999976 5 3553 122211 44688999999999999885544444444
No 87
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=22.44 E-value=67 Score=19.45 Aligned_cols=30 Identities=20% Similarity=0.201 Sum_probs=26.1
Q ss_pred cccCCCCCChHHHHHHHHHHHHhcCCCCcc
Q psy4704 63 LSSGFTLEEPQVHAARIHRMIKLGLGIEDE 92 (123)
Q Consensus 63 L~SGF~ledp~~Fa~RI~~m~~~~L~i~~~ 92 (123)
+..|.+.+.-..++..|...+...+|++.+
T Consensus 8 ~~~Grs~eqk~~l~~~it~~l~~~~~~p~~ 37 (61)
T PRK02220 8 LIEGRTEEQLKALVKDVTAAVSKNTGAPAE 37 (61)
T ss_pred EcCCCCHHHHHHHHHHHHHHHHHHhCcChh
Confidence 455899999999999999999999998743
No 88
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=22.28 E-value=70 Score=22.22 Aligned_cols=28 Identities=21% Similarity=0.332 Sum_probs=25.4
Q ss_pred cCCCCCChHHHHHHHHHHHHhcCCCCcc
Q psy4704 65 SGFTLEEPQVHAARIHRMIKLGLGIEDE 92 (123)
Q Consensus 65 SGF~ledp~~Fa~RI~~m~~~~L~i~~~ 92 (123)
+|.+.+.-..|+++|.+.+...|||+.+
T Consensus 67 g~~~~e~k~~l~~~i~~~l~~~lgi~~~ 94 (116)
T PTZ00397 67 GGISRSNNSSIAAAITKILASHLKVKSE 94 (116)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHhCcCcc
Confidence 7788888999999999999999999964
No 89
>PRK08446 coproporphyrinogen III oxidase; Provisional
Probab=22.04 E-value=3.2e+02 Score=22.62 Aligned_cols=73 Identities=18% Similarity=0.214 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHhccc---ccccch-----hhhhhhccCchHHHHH----HhhcCCccccccceEeeccccccccCCCCCC
Q psy4704 4 SLQRSVLSLLEDTGV---SLSTEG-----EDRLYRSHGQTNTEIY----QLKYTSIMKRMPDVVMWPEYIVLSSGFTLEE 71 (123)
Q Consensus 4 ~~~~~fl~~l~~~~~---~~s~d~-----~dRl~r~HGhtl~di~----~LR~g~~~~Ripd~vllpetAlL~SGF~led 71 (123)
+++++.++.|++.|+ ++..+. ...|-| +|+..++. .+|.-+| ..| . .-|--|++-++
T Consensus 95 ~~~~e~l~~l~~~GvnRiSiGvQS~~~~~L~~lgR--~~~~~~~~~ai~~lr~~g~-~~v-~-------iDli~GlPgqt 163 (350)
T PRK08446 95 SATKAWLKGMKNLGVNRISFGVQSFNEDKLKFLGR--IHSQKQIIKAIENAKKAGF-ENI-S-------IDLIYDTPLDN 163 (350)
T ss_pred CCCHHHHHHHHHcCCCEEEEecccCCHHHHHHcCC--CCCHHHHHHHHHHHHHcCC-CEE-E-------EEeecCCCCCC
Confidence 567899999998653 333333 334434 45655543 5665545 111 1 22344888899
Q ss_pred hHHHHHHHHHHHHhcC
Q psy4704 72 PQVHAARIHRMIKLGL 87 (123)
Q Consensus 72 p~~Fa~RI~~m~~~~L 87 (123)
+..|..-+..+++++.
T Consensus 164 ~~~~~~~l~~~~~l~~ 179 (350)
T PRK08446 164 KKLLKEELKLAKELPI 179 (350)
T ss_pred HHHHHHHHHHHHhcCC
Confidence 9999999988877553
No 90
>COG4865 Glutamate mutase epsilon subunit [Amino acid transport and metabolism]
Probab=21.40 E-value=17 Score=32.18 Aligned_cols=46 Identities=28% Similarity=0.454 Sum_probs=30.4
Q ss_pred HHhhcCCccccccceEeeccccccccCCC------------------CCChHHHHHHHHHHHH----hcCCCCc
Q psy4704 40 YQLKYTSIMKRMPDVVMWPEYIVLSSGFT------------------LEEPQVHAARIHRMIK----LGLGIED 91 (123)
Q Consensus 40 ~~LR~g~~~~Ripd~vllpetAlL~SGF~------------------ledp~~Fa~RI~~m~~----~~L~i~~ 91 (123)
.++|||. ||+.||-+.+|+ |||+ +++.-++-+-|-|++. .|..|+.
T Consensus 146 lQirHGt-----PDARLLaeV~La-sGF~sFeGGgIsyNiPy~k~~~Le~siE~WqYVDRL~G~YeE~Gi~INR 213 (485)
T COG4865 146 LQIRHGT-----PDARLLAEVSLA-SGFTSFEGGGISYNIPYAKRVTLEKSIEDWQYVDRLMGMYEEHGIRINR 213 (485)
T ss_pred eeeccCC-----ccHHHHHHHHHh-cccccccCCceeeccccceeccHHhhHHHHHHHHHHHhHHHhcCeeecc
Confidence 4688884 899999988765 5664 5666665555566554 3455553
No 91
>PF13373 DUF2407_C: DUF2407 C-terminal domain
Probab=21.08 E-value=70 Score=23.94 Aligned_cols=22 Identities=36% Similarity=0.517 Sum_probs=18.6
Q ss_pred hhhhhhhccCchHHHHHHhhcCCc
Q psy4704 24 GEDRLYRSHGQTNTEIYQLKYTSI 47 (123)
Q Consensus 24 ~~dRl~r~HGhtl~di~~LR~g~~ 47 (123)
|=|||..+ |=|-+||-.||.- |
T Consensus 2 GFDRLl~~-GFS~~eI~~LR~Q-F 23 (140)
T PF13373_consen 2 GFDRLLSA-GFSPEEIQDLRSQ-F 23 (140)
T ss_pred chhHHHHc-CCCHHHHHHHHHH-H
Confidence 45899877 9999999999965 6
No 92
>smart00518 AP2Ec AP endonuclease family 2. These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites
Probab=21.01 E-value=3.9e+02 Score=20.58 Aligned_cols=63 Identities=13% Similarity=0.167 Sum_probs=41.3
Q ss_pred ccccccchhhhhhhccCchHHHHHHhhcCCccccccceEeeccccc-cccCCCCCChHHHHHHHHH
Q psy4704 17 GVSLSTEGEDRLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYIV-LSSGFTLEEPQVHAARIHR 81 (123)
Q Consensus 17 ~~~~s~d~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetAl-L~SGF~ledp~~Fa~RI~~ 81 (123)
++.+..+.+-+.....|.|..++..+-.. + ...|.+-+.+|++- ..+|..+.+|..+..-|-+
T Consensus 133 gv~l~lEn~~~~~~~~~~~~~~~~~ll~~-v-~~~~~~g~~lD~gH~~~~g~d~~~~~~~~~~i~~ 196 (273)
T smart00518 133 GVVILLETTAGKGSQIGSTFEDLKEIIDL-I-KELDRIGVCIDTCHIFAAGYDINTVEGFEKVLEE 196 (273)
T ss_pred CcEEEEeccCCCCCccCCCHHHHHHHHHh-c-CCCCCeEEEEEccchhhccCCCCCHHHHHHHHHH
Confidence 45555555444444567788888887743 4 34488999999995 4578876666666555443
No 93
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=21.00 E-value=69 Score=22.45 Aligned_cols=32 Identities=31% Similarity=0.548 Sum_probs=23.1
Q ss_pred hhcCCccccccceEeeccccccccCCCCCChHHHH
Q psy4704 42 LKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQVHA 76 (123)
Q Consensus 42 LR~g~~~~Ripd~vllpetAlL~SGF~ledp~~Fa 76 (123)
|+..++ ..+.||..||.+- .-||+=++-..+.
T Consensus 9 l~~~~i-~~lVDVR~~P~S~--~~~~~k~~l~~~l 40 (122)
T PF04343_consen 9 LKKNGI-RVLVDVRLWPRSR--KPGFNKEDLASFL 40 (122)
T ss_pred HHHCCC-eEEEEECCCCCCC--CCCCCHHHHHHHH
Confidence 666667 6899999999766 7788765544443
No 94
>PRK09502 iscA iron-sulfur cluster assembly protein; Provisional
Probab=20.74 E-value=24 Score=24.56 Aligned_cols=22 Identities=23% Similarity=0.240 Sum_probs=17.8
Q ss_pred ceEeeccccccccCCCCCChHH
Q psy4704 53 DVVMWPEYIVLSSGFTLEEPQV 74 (123)
Q Consensus 53 d~vllpetAlL~SGF~ledp~~ 74 (123)
++.|=|...++.+||.+.||++
T Consensus 74 g~~IDy~~~~~~~~F~f~NPna 95 (107)
T PRK09502 74 GTQLDFVKEGLNEGFKFTNPNV 95 (107)
T ss_pred CCEEEEeeCCCCceEEEECCCC
Confidence 4566667788899999999985
No 95
>PRK00395 hfq RNA-binding protein Hfq; Provisional
Probab=20.30 E-value=72 Score=22.05 Aligned_cols=40 Identities=20% Similarity=0.246 Sum_probs=29.1
Q ss_pred hHHHHHHHHHHHhcccccccchhhhhhhccCchHHHHHHhhcCCccccccceEeecccccc
Q psy4704 3 TSLQRSVLSLLEDTGVSLSTEGEDRLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYIVL 63 (123)
Q Consensus 3 ~~~~~~fl~~l~~~~~~~s~d~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetAlL 63 (123)
.+||+.||+.+|..++.++. -|.+| | |+...++.+|.=.+
T Consensus 5 ~nlQd~fLn~lr~~~~~Vti------------------fL~NG-~--~l~G~I~~fD~ftV 44 (79)
T PRK00395 5 QNLQDPFLNALRKERVPVTI------------------YLVNG-I--KLQGQIESFDNFVV 44 (79)
T ss_pred cchHHHHHHHHHHcCCCEEE------------------EEeCC-c--EEEEEEEEEccEEE
Confidence 46899999999987766652 25557 4 78888888875443
No 96
>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1.5.99.9 from EC. The enzyme requires coenzyme F420 [].; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis, 0055114 oxidation-reduction process; PDB: 1U6I_D 3IQF_G 1QV9_C 3IQE_F 1U6J_G 3IQZ_D 1U6K_B.
Probab=20.27 E-value=2.4e+02 Score=23.71 Aligned_cols=63 Identities=29% Similarity=0.403 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHhcc-cccccchhhhhhhccCchHHHHHHhhcCCccccccceEeeccccccccCCCCCChHHHHHHH
Q psy4704 4 SLQRSVLSLLEDTG-VSLSTEGEDRLYRSHGQTNTEIYQLKYTSIMKRMPDVVMWPEYIVLSSGFTLEEPQVHAARI 79 (123)
Q Consensus 4 ~~~~~fl~~l~~~~-~~~s~d~~dRl~r~HGhtl~di~~LR~g~~~~Ripd~vllpetAlL~SGF~ledp~~Fa~RI 79 (123)
+.|-..+.-|..+| +++=|...|+++ -++..|+- ...|-+++-++.|.=..||+ ||-+.|+-+
T Consensus 134 ~fNaD~~kVLa~tGa~RlvQ~elD~vi----------~~v~~Gk~-~~LPkiv~~~~kave~~~F~--NPYAkAKA~ 197 (276)
T PF01993_consen 134 LFNADVLKVLAITGAFRLVQEELDKVI----------DQVKAGKE-PELPKIVITPEKAVEAAEFS--NPYAKAKAM 197 (276)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHHHH----------HHHTTT-G-GGS-EEEESGGGGGGSS--S--SHHHHHHHH
T ss_pred HhhhhHHHHHHhhhHHHHHHHHHHHHH----------HHHHcCCC-CCCCeEEEcHHHHHHhhccC--CHHHHHHHH
Confidence 56888888888776 466677777764 46777764 48999999999999999997 776665544
Done!