Query 042824
Match_columns 94
No_of_seqs 121 out of 1234
Neff 9.8
Searched_HMMs 46136
Date Fri Mar 29 09:53:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042824.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042824hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0498 K+-channel ERG and rel 99.8 1.5E-20 3.3E-25 131.6 9.8 87 2-88 392-478 (727)
2 KOG0500 Cyclic nucleotide-gate 99.7 7.3E-16 1.6E-20 103.5 8.7 82 4-85 282-363 (536)
3 PLN03192 Voltage-dependent pot 99.6 4.7E-15 1E-19 106.5 10.4 88 4-92 349-436 (823)
4 KOG0499 Cyclic nucleotide-gate 99.4 8.5E-14 1.8E-18 95.7 3.7 88 3-91 501-588 (815)
5 KOG0501 K+-channel KCNQ [Inorg 99.3 1.1E-12 2.3E-17 90.6 4.2 86 2-87 521-606 (971)
6 PRK09392 ftrB transcriptional 99.2 4.1E-11 8.8E-16 75.1 6.6 64 28-92 6-69 (236)
7 PLN02868 acyl-CoA thioesterase 99.2 1.2E-10 2.7E-15 78.5 8.1 63 28-90 7-69 (413)
8 smart00100 cNMP Cyclic nucleot 99.2 1.9E-10 4.1E-15 63.8 6.8 57 36-92 1-57 (120)
9 cd00038 CAP_ED effector domain 99.2 2.4E-10 5.1E-15 63.2 6.8 58 36-93 1-58 (115)
10 KOG0614 cGMP-dependent protein 99.1 3.6E-10 7.7E-15 77.6 6.9 65 25-89 268-332 (732)
11 PRK11161 fumarate/nitrate redu 99.1 4.3E-10 9.3E-15 70.4 6.6 63 31-93 15-78 (235)
12 PRK11753 DNA-binding transcrip 99.0 1.2E-09 2.6E-14 67.2 6.8 57 37-93 5-61 (211)
13 KOG1113 cAMP-dependent protein 98.9 6.6E-09 1.4E-13 68.1 7.0 60 27-86 120-179 (368)
14 PRK10402 DNA-binding transcrip 98.8 8.2E-09 1.8E-13 64.6 4.9 49 45-93 24-72 (226)
15 COG0664 Crp cAMP-binding prote 98.8 1.8E-08 3.9E-13 61.5 6.2 62 32-93 3-64 (214)
16 PRK13918 CRP/FNR family transc 98.7 5E-08 1.1E-12 59.8 4.8 43 51-93 5-49 (202)
17 COG2905 Predicted signal-trans 98.7 1.1E-07 2.4E-12 65.8 6.7 59 27-85 5-63 (610)
18 PRK09391 fixK transcriptional 98.6 5.9E-08 1.3E-12 60.9 4.4 47 47-93 33-79 (230)
19 PF00027 cNMP_binding: Cyclic 98.6 1.6E-07 3.4E-12 50.2 4.6 38 55-92 2-39 (91)
20 KOG0614 cGMP-dependent protein 98.6 1.2E-07 2.5E-12 65.6 4.9 73 13-85 138-210 (732)
21 KOG1113 cAMP-dependent protein 98.5 1.2E-07 2.5E-12 62.4 3.5 64 24-87 235-298 (368)
22 TIGR03697 NtcA_cyano global ni 98.1 4E-06 8.6E-11 50.9 4.1 34 60-93 1-34 (193)
23 KOG3542 cAMP-regulated guanine 97.5 0.00023 5E-09 51.2 4.9 66 25-92 277-343 (1283)
24 KOG3542 cAMP-regulated guanine 97.0 0.00053 1.2E-08 49.5 2.7 56 29-84 37-92 (1283)
25 KOG2968 Predicted esterase of 95.7 0.022 4.8E-07 42.5 4.6 44 50-93 113-156 (1158)
26 KOG2968 Predicted esterase of 95.7 0.0074 1.6E-07 44.9 2.1 47 45-91 501-547 (1158)
27 PF04831 Popeye: Popeye protei 89.9 2.1 4.6E-05 25.6 5.6 47 39-85 14-62 (153)
28 PRK11832 putative DNA-binding 89.4 1.9 4.1E-05 27.1 5.5 41 45-85 15-56 (207)
29 PF07883 Cupin_2: Cupin domain 81.9 2.7 5.8E-05 20.8 3.0 31 55-85 3-34 (71)
30 PF07697 7TMR-HDED: 7TM-HD ext 79.5 3.1 6.7E-05 25.7 3.2 32 40-71 174-207 (222)
31 PF14633 SH2_2: SH2 domain; PD 73.7 13 0.00027 23.7 4.8 55 31-90 35-93 (220)
32 PHA00672 hypothetical protein 66.8 10 0.00022 22.2 3.0 32 53-85 50-81 (152)
33 PF10330 Stb3: Putative Sin3 b 63.7 23 0.00049 19.4 4.2 37 29-66 29-66 (92)
34 smart00835 Cupin_1 Cupin. This 62.3 18 0.0004 21.0 3.7 35 54-88 34-69 (146)
35 PF13080 DUF3926: Protein of u 61.2 16 0.00035 16.9 2.7 28 9-36 2-31 (44)
36 COG0662 {ManC} Mannose-6-phosp 61.0 18 0.00038 20.7 3.4 34 52-85 38-72 (127)
37 PF05899 Cupin_3: Protein of u 55.9 18 0.00039 18.6 2.6 31 57-91 14-44 (74)
38 TIGR03404 bicupin_oxalic bicup 55.4 20 0.00043 24.6 3.3 37 55-91 250-287 (367)
39 cd00173 SH2 Src homology 2 dom 54.0 31 0.00068 18.0 3.7 40 38-82 5-47 (94)
40 PF14157 YmzC: YmzC-like prote 52.0 29 0.00063 17.6 2.8 22 71-92 30-52 (63)
41 COG1480 Predicted membrane-ass 51.0 48 0.001 24.9 4.7 32 40-71 224-255 (700)
42 cd06944 NR_LBD_Ftz-F1_like The 48.7 57 0.0012 20.7 4.5 27 27-53 54-80 (237)
43 PF13128 DUF3954: Protein of u 47.3 35 0.00075 16.5 2.7 17 70-86 9-25 (50)
44 COG2140 Thermophilic glucose-6 45.2 61 0.0013 20.6 4.1 21 71-91 104-124 (209)
45 smart00252 SH2 Src homology 2 43.7 47 0.001 17.0 3.7 46 35-85 2-51 (84)
46 TIGR03404 bicupin_oxalic bicup 42.9 51 0.0011 22.6 3.8 38 55-92 72-109 (367)
47 PRK04190 glucose-6-phosphate i 42.7 83 0.0018 19.6 5.1 21 70-90 97-117 (191)
48 KOG1758 Mitochondrial F1F0-ATP 40.6 62 0.0014 19.5 3.4 30 55-84 69-98 (159)
49 PF12973 Cupin_7: ChrR Cupin-l 40.3 41 0.00089 17.8 2.6 31 52-82 26-56 (91)
50 COG1917 Uncharacterized conser 40.2 68 0.0015 18.1 3.6 34 53-86 46-80 (131)
51 PF00017 SH2: SH2 domain; Int 39.9 29 0.00062 17.5 1.8 43 39-85 5-50 (77)
52 PF14841 FliG_M: FliG middle d 39.4 59 0.0013 16.9 3.2 38 8-53 30-67 (79)
53 PRK13290 ectC L-ectoine syntha 38.0 60 0.0013 18.6 3.1 30 55-84 40-69 (125)
54 PF14377 DUF4414: Domain of un 37.6 52 0.0011 18.3 2.7 19 8-26 3-21 (108)
55 PRK11171 hypothetical protein; 35.8 74 0.0016 20.7 3.6 34 52-85 186-220 (266)
56 cd06929 NR_LBD_F1 Ligand-bindi 35.7 73 0.0016 18.8 3.4 27 27-53 18-44 (174)
57 PF05271 Tobravirus_2B: Tobrav 35.3 30 0.00066 19.4 1.5 50 37-87 44-93 (116)
58 KOG0498 K+-channel ERG and rel 34.4 48 0.001 25.1 2.8 43 12-54 371-418 (727)
59 PF09313 DUF1971: Domain of un 34.0 67 0.0015 17.1 2.7 19 73-91 28-46 (82)
60 KOG1236 Predicted unusual prot 33.2 1.9E+02 0.004 21.2 5.2 66 1-79 326-393 (565)
61 cd06930 NR_LBD_F2 Ligand-bindi 33.1 1E+02 0.0022 17.8 4.5 26 27-52 15-40 (165)
62 PF11898 DUF3418: Domain of un 32.8 66 0.0014 23.7 3.2 62 9-72 195-258 (586)
63 PF00190 Cupin_1: Cupin; Inte 31.5 1E+02 0.0023 17.7 3.5 36 55-90 39-74 (144)
64 cd06949 NR_LBD_ER Ligand bindi 31.3 1.4E+02 0.0031 19.0 4.7 26 28-53 49-74 (235)
65 PLN02804 chalcone isomerase 29.4 1.5E+02 0.0034 18.8 4.7 40 27-66 107-146 (206)
66 TIGR02451 anti_sig_ChrR anti-s 28.9 68 0.0015 20.2 2.5 30 52-81 129-158 (215)
67 PLN02559 chalcone--flavonone i 27.7 1.8E+02 0.0038 18.9 5.1 43 27-69 113-155 (230)
68 PF02823 ATP-synt_DE_N: ATP sy 27.1 95 0.0021 16.0 2.6 29 56-84 41-69 (80)
69 cd06940 NR_LBD_REV_ERB The lig 26.0 1.4E+02 0.003 18.2 3.5 27 27-53 28-54 (189)
70 cd06938 NR_LBD_EcR The ligand 25.7 1.5E+02 0.0032 18.7 3.7 26 27-52 55-80 (231)
71 COG5458 Uncharacterized conser 25.2 69 0.0015 18.6 1.8 15 69-83 54-68 (144)
72 PF11922 DUF3440: Domain of un 24.8 1.8E+02 0.004 18.1 4.9 40 10-51 74-115 (181)
73 PF07370 DUF1489: Protein of u 24.7 93 0.002 18.4 2.4 15 70-84 47-61 (137)
74 PF02938 GAD: GAD domain; Int 24.6 92 0.002 16.7 2.3 28 34-64 55-82 (95)
75 COG3257 GlxB Uncharacterized p 24.3 1.6E+02 0.0034 19.2 3.5 25 61-85 74-98 (264)
76 cd06954 NR_LBD_LXR The ligand 23.5 1.8E+02 0.004 18.3 3.8 27 27-53 59-85 (236)
77 KOG4764 Uncharacterized conser 23.5 54 0.0012 16.9 1.1 25 1-25 41-65 (70)
78 cd07070 NR_LBD_SF-1 The ligand 22.9 2.1E+02 0.0046 18.2 4.2 26 28-53 55-80 (237)
79 PF07107 WI12: Wound-induced p 22.6 1.1E+02 0.0025 17.3 2.4 18 60-77 25-43 (109)
80 PTZ00490 Ferredoxin superfamil 22.5 60 0.0013 19.3 1.3 19 74-92 29-47 (143)
81 PF05523 FdtA: WxcM-like, C-te 22.3 1.1E+02 0.0024 17.6 2.4 19 69-87 53-71 (131)
82 smart00430 HOLI Ligand binding 21.1 1.4E+02 0.003 16.8 2.7 25 27-51 8-32 (163)
83 PRK12335 tellurite resistance 21.0 1.6E+02 0.0035 19.2 3.2 21 72-92 35-55 (287)
84 TIGR03214 ura-cupin putative a 20.8 1.5E+02 0.0032 19.3 3.0 36 50-85 179-215 (260)
85 COG4046 Uncharacterized protei 20.2 3.1E+02 0.0066 19.0 6.1 54 24-77 182-235 (368)
86 cd06935 NR_LBD_TR The ligand b 20.1 1.8E+02 0.0039 18.6 3.3 28 27-54 68-95 (243)
87 PF00122 E1-E2_ATPase: E1-E2 A 20.0 1E+02 0.0022 19.0 2.1 34 52-85 47-82 (230)
No 1
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=99.84 E-value=1.5e-20 Score=131.60 Aligned_cols=87 Identities=30% Similarity=0.658 Sum_probs=84.3
Q ss_pred CcccchhHHHhhCcHHHHHHHHHHHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEE
Q 042824 2 ESSYTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVL 81 (94)
Q Consensus 2 ~~~~~~~~~l~~lp~~l~~~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v 81 (94)
++|+||+++|..+|+.||.++.++++.++++++|+|+++++.++..|+.+++...|.||++|+++||+++.||||.+|.+
T Consensus 392 t~Gvdee~lL~~LP~~LR~dI~~hL~~~lv~~vpLF~~md~~~L~al~~rlk~~~f~pge~iireGd~v~~myFI~rG~l 471 (727)
T KOG0498|consen 392 TRGVDEEELLQSLPKDLRRDIKRHLCLDLVRKVPLFAGMDDGLLDALCSRLKPEYFTPGEYIIREGDPVTDMYFIVRGSL 471 (727)
T ss_pred ccCcCHHHHHHhCCHHHHHHHHHHHhHHHHhhCchhhcCCHHHHHHHHHHhhhhccCCCCeEEecCCccceeEEEEeeeE
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeeCC
Q 042824 82 EEVGVGE 88 (94)
Q Consensus 82 ~v~~~~~ 88 (94)
+++..+.
T Consensus 472 e~~~~~~ 478 (727)
T KOG0498|consen 472 ESITTDG 478 (727)
T ss_pred EEEEccC
Confidence 9998653
No 2
>KOG0500 consensus Cyclic nucleotide-gated cation channel CNGA1-3 and related proteins [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=99.66 E-value=7.3e-16 Score=103.50 Aligned_cols=82 Identities=28% Similarity=0.558 Sum_probs=80.0
Q ss_pred ccchhHHHhhCcHHHHHHHHHHHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEE
Q 042824 4 SYTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEE 83 (94)
Q Consensus 4 ~~~~~~~l~~lp~~l~~~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v 83 (94)
..||+++++.||+.|+.+++.+++...|+++++|....+.++..++..+++..|.|||+||++||.++.||+|..|.+.|
T Consensus 282 ~~DEeevl~~LP~kL~aeIA~nvh~dTLkkV~iF~~ce~~lL~elVLklk~qvfSPgDyICrKGdvgkEMyIVk~G~L~V 361 (536)
T KOG0500|consen 282 IVDEEEVLKLLPDKLKAEIAINVHLDTLKKVRIFQDCEAGLLVELVLKLKPQVFSPGDYICRKGDVGKEMYIVKEGKLAV 361 (536)
T ss_pred cccHHHHHHhCCHHHHhHhHHHHHHHHHHhhhHHHhcchhHHHHHHHHhcceeeCCCCeEEecCcccceEEEEEccEEEE
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Ee
Q 042824 84 VG 85 (94)
Q Consensus 84 ~~ 85 (94)
..
T Consensus 362 v~ 363 (536)
T KOG0500|consen 362 VA 363 (536)
T ss_pred Ee
Confidence 97
No 3
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=99.62 E-value=4.7e-15 Score=106.54 Aligned_cols=88 Identities=34% Similarity=0.595 Sum_probs=82.0
Q ss_pred ccchhHHHhhCcHHHHHHHHHHHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEE
Q 042824 4 SYTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEE 83 (94)
Q Consensus 4 ~~~~~~~l~~lp~~l~~~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v 83 (94)
+.+++++++.+|+.||.++..+++.+.++++++|+++++.++..++..++.+.|.|||.|+.+|+.++.+|||.+|.|++
T Consensus 349 ~~~~~~~l~~Lp~~Lr~~i~~~l~~~~l~~~~lF~~~s~~~l~~L~~~~~~~~~~pge~I~~qge~~~~lY~I~~G~V~i 428 (823)
T PLN03192 349 SLNQQQLIDQLPKSICKSICQHLFLPVVEKVYLFKGVSREILLLLVTKMKAEYIPPREDVIMQNEAPDDVYIVVSGEVEI 428 (823)
T ss_pred cccHHHHHHHcCHHHHHHHHHHHHHHHHhhCcchhcCCHHHHHHHHHhhheeeeCCCCEEEECCCCCceEEEEEecEEEE
Confidence 57889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeCCCCCc
Q 042824 84 VGVGEDGSE 92 (94)
Q Consensus 84 ~~~~~~g~e 92 (94)
+. ..+|++
T Consensus 429 ~~-~~~~~e 436 (823)
T PLN03192 429 ID-SEGEKE 436 (823)
T ss_pred EE-ecCCcc
Confidence 86 345554
No 4
>KOG0499 consensus Cyclic nucleotide-gated cation channel CNCG4 [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=99.44 E-value=8.5e-14 Score=95.75 Aligned_cols=88 Identities=26% Similarity=0.683 Sum_probs=83.5
Q ss_pred cccchhHHHhhCcHHHHHHHHHHHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEE
Q 042824 3 SSYTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLE 82 (94)
Q Consensus 3 ~~~~~~~~l~~lp~~l~~~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~ 82 (94)
+..||.+++..||..||.+++.+++-..|..+.+|.++++..+..++.++..+.|-|||+||+.|+.+..||+|..|.|.
T Consensus 501 r~LDEs~ll~~LP~klq~dlAi~V~y~~lSKVqLFq~Cdr~mirDmllrLRsV~yLPgDfVCkKGeiGkEMYIIk~GqvQ 580 (815)
T KOG0499|consen 501 RMLDESDLLKTLPTKLQLDLAIDVNYSILSKVQLFQGCDRQMIRDMLLRLRSVLYLPGDFVCKKGEIGKEMYIIKHGQVQ 580 (815)
T ss_pred ccccHHHHHHhcchhheeeeeEEeehhhhhHHHHhhhhHHHHHHHHHHHhhceeecCCceeeecccccceeEEeecceEE
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeCCCCC
Q 042824 83 EVGVGEDGS 91 (94)
Q Consensus 83 v~~~~~~g~ 91 (94)
|.- +++|+
T Consensus 581 VlG-Gp~~~ 588 (815)
T KOG0499|consen 581 VLG-GPDGT 588 (815)
T ss_pred Eec-CCCCC
Confidence 996 56665
No 5
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=99.34 E-value=1.1e-12 Score=90.59 Aligned_cols=86 Identities=22% Similarity=0.361 Sum_probs=82.7
Q ss_pred CcccchhHHHhhCcHHHHHHHHHHHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEE
Q 042824 2 ESSYTEASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVL 81 (94)
Q Consensus 2 ~~~~~~~~~l~~lp~~l~~~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v 81 (94)
.+|+|++++|..+|+-+|.++.-+++.+.....|.|+-.++.+++.++-.++..+..|||.+++.|+..+.++||++|++
T Consensus 521 tkGiDTeKVL~~CPKDMkADICVHLNRKVFnEHpaFRLASDGCLRaLAm~f~~~H~APGDLlYHtGESvDaLcFvVsGSL 600 (971)
T KOG0501|consen 521 TKGIDTEKVLGYCPKDMKADICVHLNRKVFNEHPAFRLASDGCLRALAMEFQTNHCAPGDLLYHTGESVDALCFVVSGSL 600 (971)
T ss_pred hcCcCHHHHhhhCccccccceeeecchhhhccCcceeeccchhHHHHHHHHHhccCCCcceeeecCCccceEEEEEecce
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeeC
Q 042824 82 EEVGVG 87 (94)
Q Consensus 82 ~v~~~~ 87 (94)
+|+..+
T Consensus 601 EVIQDD 606 (971)
T KOG0501|consen 601 EVIQDD 606 (971)
T ss_pred EEeecC
Confidence 999743
No 6
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=99.23 E-value=4.1e-11 Score=75.15 Aligned_cols=64 Identities=19% Similarity=0.396 Sum_probs=58.7
Q ss_pred HHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCc
Q 042824 28 MPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSE 92 (94)
Q Consensus 28 ~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e 92 (94)
..+++.+|+|..+++..+..++..++.+.|++|++|+++|+.++.+|+|.+|.++++... +|++
T Consensus 6 ~~~l~~~~~f~~L~~~~~~~l~~~~~~~~~~~ge~l~~~g~~~~~~~~v~~G~v~~~~~~-~~~~ 69 (236)
T PRK09392 6 LIRLRNLPLFADMADATFERLMRGAFLQRFPPGTMLITEGEPADFLFVVLDGLVELSASS-QDRE 69 (236)
T ss_pred HHHHhcCccccCCCHHHHHHHHhhcceeecCCCCEEEeCCCccceEEEEEeCEEEEEEcC-CCce
Confidence 457889999999999999999999999999999999999999999999999999999864 5544
No 7
>PLN02868 acyl-CoA thioesterase family protein
Probab=99.19 E-value=1.2e-10 Score=78.51 Aligned_cols=63 Identities=24% Similarity=0.425 Sum_probs=59.3
Q ss_pred HHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCC
Q 042824 28 MPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDG 90 (94)
Q Consensus 28 ~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g 90 (94)
..++.++++|+++++..+..++..++.+.|++|++|+++|+..+.+|+|.+|.++++..+.+|
T Consensus 7 ~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~Ge~I~~~Gd~~~~lyiI~~G~V~v~~~~~~g 69 (413)
T PLN02868 7 VEFLGSVPLLQRLPSSSLKKIAEVVVPKRYGKGEYVVREGEPGDGLYFIWKGEAEVSGPAEEE 69 (413)
T ss_pred HHHHhcCcccccCCHHHHHHHHHhceEEEECCCCEEEeCCCcCceEEEEEeCEEEEEEECCCC
Confidence 456789999999999999999999999999999999999999999999999999999987776
No 8
>smart00100 cNMP Cyclic nucleotide-monophosphate binding domain. Catabolite gene activator protein (CAP) is a prokaryotic homologue of eukaryotic cNMP-binding domains, present in ion channels, and cNMP-dependent kinases.
Probab=99.17 E-value=1.9e-10 Score=63.84 Aligned_cols=57 Identities=35% Similarity=0.543 Sum_probs=53.0
Q ss_pred CCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCc
Q 042824 36 LFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSE 92 (94)
Q Consensus 36 ~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e 92 (94)
+|.++++..+..++..++.+.+.+|++|+++|+..+.+|+|.+|.++++..+.+|++
T Consensus 1 ~f~~l~~~~~~~l~~~~~~~~~~~g~~l~~~g~~~~~~y~v~~G~v~~~~~~~~g~~ 57 (120)
T smart00100 1 LFKNLDAEELRELADALEPVRYPAGEVIIRQGDVGDSFYIILSGEVRVYKVLEDGRE 57 (120)
T ss_pred CcCCCCHHHHHHHHHhceEEEeCCCCEEEeCCCcCCcEEEEEeeEEEEEEECCCCce
Confidence 578899999999999999999999999999999999999999999999987777764
No 9
>cd00038 CAP_ED effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO sensor. In all cases binding of the effector leads to conformational changes and the ability to activate transcription. Cyclic nucleotide-binding domain similar to CAP are also present in cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) and vertebrate cyclic nucleotide-gated ion-channels. Cyclic nucleotide-monophosphate binding domain; proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues; the best studied is the prokaryotic catabolite gene activator, CAP, where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure; three conserved glycine residues are thought to be essential for maintenance of
Probab=99.16 E-value=2.4e-10 Score=63.18 Aligned_cols=58 Identities=40% Similarity=0.651 Sum_probs=53.7
Q ss_pred CCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCcC
Q 042824 36 LFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSEE 93 (94)
Q Consensus 36 ~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e~ 93 (94)
+|..+++..+..++..++...+.+|+.|+.+|+..+++|+|.+|.++++..+++|++.
T Consensus 1 ~f~~l~~~~~~~l~~~~~~~~~~~g~~l~~~~~~~~~~~~i~~G~v~~~~~~~~g~~~ 58 (115)
T cd00038 1 LFSGLDDEELEELADALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGREQ 58 (115)
T ss_pred CcccCCHHHHHHHHhhceeeeeCCCCEEEcCCCCCCeEEEEEeCEEEEEEECCCCcEE
Confidence 5788999999999999999999999999999999999999999999999988877653
No 10
>KOG0614 consensus cGMP-dependent protein kinase [Signal transduction mechanisms]
Probab=99.10 E-value=3.6e-10 Score=77.61 Aligned_cols=65 Identities=28% Similarity=0.552 Sum_probs=60.5
Q ss_pred HHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCC
Q 042824 25 TLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGED 89 (94)
Q Consensus 25 ~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~ 89 (94)
..+.++|+++|+|.+++++.+..++..++...|..|+.|+++|+.++.||+|..|+|.+...++.
T Consensus 268 ~~~~~fLrsv~~~q~l~Ee~L~KiaD~le~~~Yd~g~yIirqge~G~~ffii~~G~V~vtq~~e~ 332 (732)
T KOG0614|consen 268 EQYMNFLRSVPLFQNLPEELLLKIADVLEEEYYDAGEYIIRQGEKGDTFFIISKGTVKVTQQDEG 332 (732)
T ss_pred HHHHHHHHhhhhhccCCHHHHHHHHHHHHHHhhcCCceEEeecCCCCeEEEEecceEEEeecCCC
Confidence 35678999999999999999999999999999999999999999999999999999999986543
No 11
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=99.09 E-value=4.3e-10 Score=70.45 Aligned_cols=63 Identities=16% Similarity=0.343 Sum_probs=55.1
Q ss_pred hhcCcCCCCCCHHHHHHHHhhccc-ceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCcC
Q 042824 31 IEKVSLFKGCSSEFINQIVTRLHE-EFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSEE 93 (94)
Q Consensus 31 l~~~~~f~~l~~~~~~~l~~~~~~-~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e~ 93 (94)
+++.+.|..+++..+..+...... ..|++|+.|+++|+..+++|+|.+|.++++..+++|++.
T Consensus 15 ~~~~~~~~~l~~~~l~~L~~~~~~~~~~~kge~l~~~Gd~~~~ly~v~~G~v~~~~~~~~G~e~ 78 (235)
T PRK11161 15 ISQLCIPFTLNEHELDQLDNIIERKKPIQKGQTLFKAGDELKSLYAIRSGTIKSYTITEQGDEQ 78 (235)
T ss_pred ccccccccCCCHHHHHHHHHhhhhceeecCCCEeECCCCCcceEEEEeeceEEEEEECCCCCEE
Confidence 445556667999999999988754 679999999999999999999999999999998899875
No 12
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=99.03 E-value=1.2e-09 Score=67.25 Aligned_cols=57 Identities=16% Similarity=0.299 Sum_probs=52.8
Q ss_pred CCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCcC
Q 042824 37 FKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSEE 93 (94)
Q Consensus 37 f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e~ 93 (94)
-+.+++..+..++..++.+.|++|++|+.+|+..+.+|+|.+|.++++..+.+|++.
T Consensus 5 ~~~~~~~~~~~l~~~~~~~~~~kg~~l~~~g~~~~~~y~V~~G~v~~~~~~~~g~~~ 61 (211)
T PRK11753 5 GKPQTDPTLEWFLSHCHIHKYPAKSTLIHAGEKAETLYYIVKGSVAVLIKDEEGKEM 61 (211)
T ss_pred cCCCCHHHHHHHHhhCeEEEeCCCCEEEeCCCCCCeEEEEEeCEEEEEEECCCCCEE
Confidence 356899999999999999999999999999999999999999999999888888764
No 13
>KOG1113 consensus cAMP-dependent protein kinase types I and II, regulatory subunit [Signal transduction mechanisms]
Probab=98.91 E-value=6.6e-09 Score=68.12 Aligned_cols=60 Identities=22% Similarity=0.347 Sum_probs=56.6
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEee
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGV 86 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~ 86 (94)
...++++.-+|.+++++.+..++..|..+.+..|+.|+.+|+.++.||+|.+|+++|+..
T Consensus 120 L~~a~r~~~LF~~Ld~eq~~~v~dam~~~~v~~G~~Vi~qGdeGd~fYvI~kGt~dVyv~ 179 (368)
T KOG1113|consen 120 LEEAFRKNLLFANLDDEQLSQVLDAMFEKRVKAGETVIKQGDEGDNFYVIDKGTFDVYVN 179 (368)
T ss_pred HHHHHHhccccccCCHHHHHHHHHhhceeeecCCcEEEecCCcCCcEEEEecceEEEEEC
Confidence 456788899999999999999999999999999999999999999999999999999984
No 14
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=98.82 E-value=8.2e-09 Score=64.56 Aligned_cols=49 Identities=16% Similarity=0.243 Sum_probs=44.1
Q ss_pred HHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCcC
Q 042824 45 INQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSEE 93 (94)
Q Consensus 45 ~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e~ 93 (94)
...+.+.++.+.|++|++|+.+|+..+++|+|.+|.++++..+.+|++.
T Consensus 24 ~~~i~~~~~~~~~~kge~l~~~G~~~~~~y~V~~G~v~v~~~~~~G~e~ 72 (226)
T PRK10402 24 SFDVSADTELFHFLAREYIVQEGQQPSYLFYLTRGRAKLYATLANGKVS 72 (226)
T ss_pred CHHHHhhhhheeeCCCCEEEcCCCCCceEEEEEeCEEEEEEECCCCCEe
Confidence 3357777888999999999999999999999999999999998899875
No 15
>COG0664 Crp cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
Probab=98.81 E-value=1.8e-08 Score=61.46 Aligned_cols=62 Identities=26% Similarity=0.435 Sum_probs=53.8
Q ss_pred hcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCcC
Q 042824 32 EKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSEE 93 (94)
Q Consensus 32 ~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e~ 93 (94)
...+.|..++......+......+.+++|+.|+++|+.++.+|+|.+|.++++..+++|++.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~l~~~g~~~~~~y~v~~G~v~~~~~~~~G~~~ 64 (214)
T COG0664 3 KENPLLNLLPSELLELLALKLEVRKLPKGEVLFTEGEEADSLYIILSGIVKLYANTEDGREI 64 (214)
T ss_pred ccccccccCCHHHHHHHhhhceeEeeCCCCEEEcCCCcCceEEEEEEeEEEEEEECCCCcEE
Confidence 34566776777777777788899999999999999999999999999999999999888764
No 16
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=98.66 E-value=5e-08 Score=59.76 Aligned_cols=43 Identities=28% Similarity=0.417 Sum_probs=39.0
Q ss_pred hcccceeccCCeEEecCC--ccCeEEEEeccEEEEEeeCCCCCcC
Q 042824 51 RLHEEFFLPGEVIMEQGN--VVDQLYFVCHGVLEEVGVGEDGSEE 93 (94)
Q Consensus 51 ~~~~~~~~~ge~i~~~g~--~~~~~y~i~~G~v~v~~~~~~g~e~ 93 (94)
.++...|++|++|+++|+ ..+++|+|.+|.++++..+++|++.
T Consensus 5 ~~~~~~~~kg~~l~~~Gd~~~~~~~y~I~~G~vr~~~~~~~G~e~ 49 (202)
T PRK13918 5 VVDTVTYRPGAVILYPGVPGPSDMLYRVRSGLVRLHTVDDEGNAL 49 (202)
T ss_pred ccceeEecCCCEEEcCCCCCCCCeEEEEEeeEEEEEEECCCCCEE
Confidence 356688999999999999 7799999999999999999999875
No 17
>COG2905 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]
Probab=98.65 E-value=1.1e-07 Score=65.79 Aligned_cols=59 Identities=24% Similarity=0.435 Sum_probs=56.3
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEe
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVG 85 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~ 85 (94)
-.+++...|.|..++++.+..|...+....|.+||+|+..|.+..++|+|.+|.|+++.
T Consensus 5 ~~~Fl~~~pPF~~L~~eel~~L~~~l~v~yy~kge~ii~~~~p~~~l~vi~kG~vev~~ 63 (610)
T COG2905 5 PDQFLQQHPPFSQLPAEELEQLMGALEVKYYRKGEIIIYAGSPVHYLYVIRKGVVEVRS 63 (610)
T ss_pred HHHHHhcCCCcccCCHHHHHHHHhhhccccccCCCeeecCCCCcceeEEEEeceeeEEc
Confidence 35788999999999999999999999999999999999999999999999999999987
No 18
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=98.62 E-value=5.9e-08 Score=60.91 Aligned_cols=47 Identities=23% Similarity=0.273 Sum_probs=41.9
Q ss_pred HHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCcC
Q 042824 47 QIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSEE 93 (94)
Q Consensus 47 ~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e~ 93 (94)
++....+...|++|++|+.+|+.++++|+|.+|.++++..+++|++.
T Consensus 33 ~~~~~~~~~~~~kge~l~~~Gd~~~~ly~I~~G~vkl~~~~~~G~e~ 79 (230)
T PRK09391 33 HAGLVASEFSYKKGEEIYGEGEPADYVYQVESGAVRTYRLLSDGRRQ 79 (230)
T ss_pred cccceeeeEEECCCCEEECCCCCCCeEEEEEeCEEEEEEECCCCcEE
Confidence 34556677899999999999999999999999999999998899864
No 19
>PF00027 cNMP_binding: Cyclic nucleotide-binding domain; InterPro: IPR000595 Proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues [, , ]. The best studied of these proteins is the prokaryotic catabolite gene activator (also known as the cAMP receptor protein) (gene crp) where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure. There are six invariant amino acids in this domain, three of which are glycine residues that are thought to be essential for maintenance of the structural integrity of the beta-barrel. cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) contain two tandem copies of the cyclic nucleotide-binding domain. The cAPK's are composed of two different subunits, a catalytic chain and a regulatory chain, which contains both copies of the domain. The cGPK's are single chain enzymes that include the two copies of the domain in their N-terminal section. Vertebrate cyclic nucleotide-gated ion-channels also contain this domain. Two such cations channels have been fully characterised, one is found in rod cells where it plays a role in visual signal transduction.; PDB: 1O7F_A 2BYV_E 3E97_A 3U10_A 2H6B_A 3SHR_A 2OZ6_A 1WGP_A 3LA2_A 3LA3_B ....
Probab=98.57 E-value=1.6e-07 Score=50.16 Aligned_cols=38 Identities=34% Similarity=0.659 Sum_probs=35.2
Q ss_pred ceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCc
Q 042824 55 EFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSE 92 (94)
Q Consensus 55 ~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e 92 (94)
+.|++|++|+++|+..+.+|+|.+|.++++..+.+|+.
T Consensus 2 ~~~~~g~~i~~~g~~~~~~~~i~~G~v~~~~~~~~~~~ 39 (91)
T PF00027_consen 2 KTYKKGEVIYRQGDPCDHIYIILSGEVKVSSINEDGKE 39 (91)
T ss_dssp EEESTTEEEEETTSBESEEEEEEESEEEEEEETTTSEE
T ss_pred eEECCCCEEEeCCCcCCEEEEEEECceEEEeceeccee
Confidence 57999999999999999999999999999998887764
No 20
>KOG0614 consensus cGMP-dependent protein kinase [Signal transduction mechanisms]
Probab=98.56 E-value=1.2e-07 Score=65.60 Aligned_cols=73 Identities=19% Similarity=0.261 Sum_probs=65.7
Q ss_pred hCcHHHHHHHHHHHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEe
Q 042824 13 DIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVG 85 (94)
Q Consensus 13 ~lp~~l~~~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~ 85 (94)
.+|..-++.-...+....+....|+++++...+..++..|-+..|.+|.+|+++|+.++.+|++..|.+.|.+
T Consensus 138 ~l~~~~Kd~~~k~lI~dAi~~NdFLknLd~~Qi~e~v~~Myp~~~~~gs~IIrege~Gs~~yV~aeG~~~V~~ 210 (732)
T KOG0614|consen 138 TLPRYNKDVGAKQLIRDAIQKNDFLKNLDASQIKELVDCMYPVEYRAGSWIIREGEPGSHLYVSAEGELQVSR 210 (732)
T ss_pred ccccccCCccHHHHHHHHHHhhHHHHhhhHHHHHHHHHhhCcccccCCcEEEecCCCCceEEEeecceEEEee
Confidence 3555566566677778889999999999999999999999999999999999999999999999999999997
No 21
>KOG1113 consensus cAMP-dependent protein kinase types I and II, regulatory subunit [Signal transduction mechanisms]
Probab=98.51 E-value=1.2e-07 Score=62.42 Aligned_cols=64 Identities=17% Similarity=0.394 Sum_probs=59.5
Q ss_pred HHHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeC
Q 042824 24 QTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVG 87 (94)
Q Consensus 24 ~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~ 87 (94)
..++..+|+++|++..+.......++..+....|.+|+.|+++|+.++.||+|.+|.|.+....
T Consensus 235 rkMy~~~l~s~pil~~l~k~er~kv~dal~~k~y~~G~~Vi~qg~~ge~f~~i~eGEvdv~~~~ 298 (368)
T KOG1113|consen 235 RKMYEPFLESVPILESLEKLERAKVADALGTKSYKDGERVIVQGDQGEHFYIIEEGEVDVLKKR 298 (368)
T ss_pred hhhhhhhhhcchhhHHHHHHHHHhhhcccceeeccCCceEEeccCCcceEEEecccccchhhcc
Confidence 3457788999999999999999999999999999999999999999999999999999998754
No 22
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=98.14 E-value=4e-06 Score=50.88 Aligned_cols=34 Identities=29% Similarity=0.525 Sum_probs=31.9
Q ss_pred CCeEEecCCccCeEEEEeccEEEEEeeCCCCCcC
Q 042824 60 GEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSEE 93 (94)
Q Consensus 60 ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e~ 93 (94)
|+.|+++|+..+++|+|.+|.|+++..+++|++.
T Consensus 1 g~~l~~~g~~~~~~~~i~~G~v~~~~~~~~G~e~ 34 (193)
T TIGR03697 1 GKTIFFPGDPAEKVYFLRRGAVKLSRVYESGEEI 34 (193)
T ss_pred CCceecCCCCCCcEEEEEecEEEEEEeCCCCcEe
Confidence 6889999999999999999999999999999875
No 23
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=97.50 E-value=0.00023 Score=51.20 Aligned_cols=66 Identities=14% Similarity=0.289 Sum_probs=57.0
Q ss_pred HHhHHHhhcCcCCCCCCHHHHHHHHhhccc-ceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCc
Q 042824 25 TLYMPYIEKVSLFKGCSSEFINQIVTRLHE-EFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSE 92 (94)
Q Consensus 25 ~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~-~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e 92 (94)
....+++...|-|.+++-...+.+|..|.. +.-.+|.+|+..|+..++.++|+.|.|++.. ++|+-
T Consensus 277 eqLLeFMhqlpAFAnmtMSvrReLC~vMvFaVVe~AGtivL~dgeeLDSWsVIlNG~VEv~~--PdGk~ 343 (1283)
T KOG3542|consen 277 EQLLEFMHQLPAFANMTMSVRRELCLVMVFAVVEDAGTIVLADGEELDSWSVILNGCVEVVK--PDGKR 343 (1283)
T ss_pred HHHHHHHHhchHhhcccHHHHHHHHHHHHHHHHhhcCeEEecCCcccceeEEEecceEEEec--CCCce
Confidence 456788899999999999999999888755 3458999999999999999999999999998 56654
No 24
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=97.03 E-value=0.00053 Score=49.45 Aligned_cols=56 Identities=11% Similarity=0.149 Sum_probs=50.5
Q ss_pred HHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEE
Q 042824 29 PYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEV 84 (94)
Q Consensus 29 ~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~ 84 (94)
..|.+...|.++-...++.++.......++...++|+.|+.+...|++++|.|-+-
T Consensus 37 ~~lh~ld~~snl~~~~lk~l~~~aryer~~g~~ilf~~~~var~wyillsgsv~v~ 92 (1283)
T KOG3542|consen 37 EQLHQLDTFSNLFIGPLKALCKTARYERHPGQYILFRDGDVARSWYILLSGSVFVE 92 (1283)
T ss_pred HHHhhhhhhhhhhhhhHHHhhhhhhhhcCCCceEEecccchhhheeeeeccceEee
Confidence 35677889999999999999999999999999999999999999999999997654
No 25
>KOG2968 consensus Predicted esterase of the alpha-beta hydrolase superfamily (Neuropathy target esterase), contains cAMP-binding domains [General function prediction only]
Probab=95.75 E-value=0.022 Score=42.51 Aligned_cols=44 Identities=25% Similarity=0.323 Sum_probs=40.0
Q ss_pred hhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCcC
Q 042824 50 TRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSEE 93 (94)
Q Consensus 50 ~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e~ 93 (94)
.++....+..|+++++.|++.+.+|.+.+|..++...+.+|+++
T Consensus 113 rh~~t~~l~~Gd~i~~~~~~dd~i~vv~sg~l~v~~~~~~g~~~ 156 (1158)
T KOG2968|consen 113 RHIETLSLDAGDYIFKPGESDDSIYVVISGELTVHIRNGDGKEY 156 (1158)
T ss_pred hhhhhhcccCCceeccCCCCCceEEEEeccceEEEecCCCCcee
Confidence 67777889999999999999999999999999999988888764
No 26
>KOG2968 consensus Predicted esterase of the alpha-beta hydrolase superfamily (Neuropathy target esterase), contains cAMP-binding domains [General function prediction only]
Probab=95.71 E-value=0.0074 Score=44.87 Aligned_cols=47 Identities=26% Similarity=0.393 Sum_probs=37.3
Q ss_pred HHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCC
Q 042824 45 INQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGS 91 (94)
Q Consensus 45 ~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~ 91 (94)
+..+--.+...+..+|+.++++||..+.+|+|++|+++.......|+
T Consensus 501 lr~~D~AldWv~l~~g~alyrqgD~Sd~iyvVl~GRlRsv~~~~~~k 547 (1158)
T KOG2968|consen 501 LRKLDFALDWVRLEPGQALYRQGDSSDSIYVVLNGRLRSVIRQSGGK 547 (1158)
T ss_pred HhhhhhhcceEEeccccHHHhcCCccCcEEEEecCeehhhhhccCcc
Confidence 33444445667889999999999999999999999999887644443
No 27
>PF04831 Popeye: Popeye protein conserved region; InterPro: IPR006916 The Popeye (POP) family of proteins, is restricted to vertebrates and is preferentially expressed in developing and adult striated muscle. It is represented by a conserved region which includes three potential transmembrane domains []. The strong conservation of POP genes during evolution and their preferential expression in heart and skeletal muscle suggest that these novel proteins may have an important function in these tissues in vertebrates.; GO: 0016020 membrane
Probab=89.85 E-value=2.1 Score=25.64 Aligned_cols=47 Identities=19% Similarity=0.227 Sum_probs=37.8
Q ss_pred CCCHHHHHHHHhh-cccceeccCCeEEecCC-ccCeEEEEeccEEEEEe
Q 042824 39 GCSSEFINQIVTR-LHEEFFLPGEVIMEQGN-VVDQLYFVCHGVLEEVG 85 (94)
Q Consensus 39 ~l~~~~~~~l~~~-~~~~~~~~ge~i~~~g~-~~~~~y~i~~G~v~v~~ 85 (94)
+++....+.++.. .+.....+|+.-..+|. +.+.+-++++|++.|+.
T Consensus 14 ~Vs~~~Fk~iv~~~~~i~~L~~~~~YAvE~~T~~drLSlLLsGr~~Vs~ 62 (153)
T PF04831_consen 14 KVSRQQFKKIVGCCCEIRTLKKGETYAVEGKTPIDRLSLLLSGRMRVSC 62 (153)
T ss_pred CCCHHHHHHHHhhhceEEEecCCceeeecCCcccceEeEEEcCcEEEEE
Confidence 4678888888777 56678899998776665 45689999999999987
No 28
>PRK11832 putative DNA-binding transcriptional regulator; Provisional
Probab=89.38 E-value=1.9 Score=27.14 Aligned_cols=41 Identities=7% Similarity=-0.001 Sum_probs=31.2
Q ss_pred HHHHHhhcccceeccCCeE-EecCCccCeEEEEeccEEEEEe
Q 042824 45 INQIVTRLHEEFFLPGEVI-MEQGNVVDQLYFVCHGVLEEVG 85 (94)
Q Consensus 45 ~~~l~~~~~~~~~~~ge~i-~~~g~~~~~~y~i~~G~v~v~~ 85 (94)
...+....+...+++|..+ +........++++.+|.+.+.+
T Consensus 15 ~~~L~~~g~~~~~~~~~~~i~~~~~~~~~~~ll~~G~vsirr 56 (207)
T PRK11832 15 DKCLSRYGTRFEFNNEKQVIFSSDVNNEDTFVILEGVISLRR 56 (207)
T ss_pred HHHhhccCCeEecCCCcEEeccccCCCceEEEEEeceEEEEe
Confidence 4456666777889999986 5555555789999999999943
No 29
>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel). ; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....
Probab=81.91 E-value=2.7 Score=20.84 Aligned_cols=31 Identities=16% Similarity=0.193 Sum_probs=22.7
Q ss_pred ceeccCCeEEecCCccC-eEEEEeccEEEEEe
Q 042824 55 EFFLPGEVIMEQGNVVD-QLYFVCHGVLEEVG 85 (94)
Q Consensus 55 ~~~~~ge~i~~~g~~~~-~~y~i~~G~v~v~~ 85 (94)
..++||...-..-.... .+++|++|.+.+..
T Consensus 3 ~~~~pG~~~~~h~H~~~~e~~~vl~G~~~~~~ 34 (71)
T PF07883_consen 3 VTLPPGGSIPPHRHPGEDEFFYVLSGEGTLTV 34 (71)
T ss_dssp EEEETTEEEEEEEESSEEEEEEEEESEEEEEE
T ss_pred EEECCCCCCCCEECCCCCEEEEEEECCEEEEE
Confidence 35677776555555555 89999999998884
No 30
>PF07697 7TMR-HDED: 7TM-HD extracellular; InterPro: IPR011624 This entry represents the extracellular domain of the 7TM-HD (7TM Receptors with HD hydrolase) protein family []. These proteins are known or predicted, to posses metal-dependent phospohydrolase activity.
Probab=79.53 E-value=3.1 Score=25.67 Aligned_cols=32 Identities=19% Similarity=0.326 Sum_probs=25.2
Q ss_pred CCHHHHHHHHhhcccce--eccCCeEEecCCccC
Q 042824 40 CSSEFINQIVTRLHEEF--FLPGEVIMEQGNVVD 71 (94)
Q Consensus 40 l~~~~~~~l~~~~~~~~--~~~ge~i~~~g~~~~ 71 (94)
..+......+....+.. +.+|+.|+++|+..+
T Consensus 174 ~T~~~~~~a~~~V~pv~~~V~~Ge~IV~kGe~VT 207 (222)
T PF07697_consen 174 ATEKAREEALASVSPVRGMVKKGEVIVRKGEIVT 207 (222)
T ss_pred HHHHHHHHHHhcCCchHhhccCCCEEecCCcEeC
Confidence 44555666777777777 999999999999765
No 31
>PF14633 SH2_2: SH2 domain; PDB: 3GXX_A 3GXW_B 3PJP_B 2XP1_A.
Probab=73.72 E-value=13 Score=23.75 Aligned_cols=55 Identities=24% Similarity=0.329 Sum_probs=35.6
Q ss_pred hhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccC-e---EEEEeccEEEEEeeCCCC
Q 042824 31 IEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVD-Q---LYFVCHGVLEEVGVGEDG 90 (94)
Q Consensus 31 l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~-~---~y~i~~G~v~v~~~~~~g 90 (94)
.-..|.|.+++-......++.. ..||+|+|+...+. + .+=|..|...-....+.+
T Consensus 35 ~I~HP~F~n~~~~qAe~~L~~~-----~~Ge~iIRPSSkG~dhL~vTwKv~d~vyqHidV~E~~ 93 (220)
T PF14633_consen 35 VIKHPLFKNFNYKQAEEYLADQ-----DVGEVIIRPSSKGPDHLTVTWKVADGVYQHIDVKEED 93 (220)
T ss_dssp HHCSTTEESS-HHHHHHHHCCS------TT-EEEEE-TTTTTEEEEEEEEETTEEEEEEEEEEC
T ss_pred cccCCCccCCCHHHHHHHHhcC-----CCCCEEEeeCCCCCCeEEEEEEEcCCcEEEEEEEECC
Confidence 3468999999988888877765 36999999998874 3 344667765444433333
No 32
>PHA00672 hypothetical protein
Probab=66.77 E-value=10 Score=22.16 Aligned_cols=32 Identities=9% Similarity=-0.023 Sum_probs=26.7
Q ss_pred ccceeccCCeEEecCCccCeEEEEeccEEEEEe
Q 042824 53 HEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVG 85 (94)
Q Consensus 53 ~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~ 85 (94)
..+++++|.++.-.=...+++ +|.+|.+.|+.
T Consensus 50 Rei~IPkGt~LtG~~hkf~~~-ii~sG~itV~t 81 (152)
T PHA00672 50 RTIRIPAGVALTGALIKVSTV-LIFSGHATVFI 81 (152)
T ss_pred EEEeccCceeeeeeeeEeeEE-EEecccEEEEe
Confidence 446789998888777777788 99999999997
No 33
>PF10330 Stb3: Putative Sin3 binding protein; InterPro: IPR018818 This entry represents Sin3 binding proteins conserved in fungi. Sin3p does not bind DNA directly even though the yeast SIN3 gene functions as a transcriptional repressor. Sin3p is part of a large multiprotein complex []. Stb3 appears to bind directly to ribosomal RNA Processing Elements (RRPE) although there are no obvious domains which would accord with this, implying that Stb3 may be a novel RNA-binding protein [].
Probab=63.71 E-value=23 Score=19.43 Aligned_cols=37 Identities=19% Similarity=0.171 Sum_probs=23.2
Q ss_pred HHhhcCcCCCCCCHHHHHHH-HhhcccceeccCCeEEec
Q 042824 29 PYIEKVSLFKGCSSEFINQI-VTRLHEEFFLPGEVIMEQ 66 (94)
Q Consensus 29 ~~l~~~~~f~~l~~~~~~~l-~~~~~~~~~~~ge~i~~~ 66 (94)
.+-.++|-|+.+++.-.+.| ...+. .-=..|+++|++
T Consensus 29 ~Lt~~vPgF~~ls~sKqRRLi~~ALE-~gd~~~~VvFEK 66 (92)
T PF10330_consen 29 YLTTSVPGFSDLSPSKQRRLIMAALE-GGDKDGDVVFEK 66 (92)
T ss_pred HHhccCCCcccCCHHHHHHHHHHHHh-cCCCCCCEEEEE
Confidence 34568999999999876665 44444 222344555544
No 34
>smart00835 Cupin_1 Cupin. This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant.
Probab=62.25 E-value=18 Score=20.97 Aligned_cols=35 Identities=17% Similarity=0.156 Sum_probs=23.6
Q ss_pred cceeccCCeEEecCCc-cCeEEEEeccEEEEEeeCC
Q 042824 54 EEFFLPGEVIMEQGNV-VDQLYFVCHGVLEEVGVGE 88 (94)
Q Consensus 54 ~~~~~~ge~i~~~g~~-~~~~y~i~~G~v~v~~~~~ 88 (94)
...+.+|...-..-.. ...+++|++|...+...+.
T Consensus 34 ~~~i~pg~~~~~h~H~~~~e~~~Vl~G~~~~~~~~~ 69 (146)
T smart00835 34 RVNLEPGGMLPPHYHPRATELLYVVRGEGRVGVVDP 69 (146)
T ss_pred EEEecCCcCcCCeeCCCCCEEEEEEeCeEEEEEEeC
Confidence 3456777665444332 5679999999999887544
No 35
>PF13080 DUF3926: Protein of unknown function (DUF3926)
Probab=61.22 E-value=16 Score=16.94 Aligned_cols=28 Identities=14% Similarity=0.336 Sum_probs=17.5
Q ss_pred HHHhhCcHHHHHHHHH--HHhHHHhhcCcC
Q 042824 9 SVLHDIPVSIRAKISQ--TLYMPYIEKVSL 36 (94)
Q Consensus 9 ~~l~~lp~~l~~~~~~--~~~~~~l~~~~~ 36 (94)
.+++.+|.+++..... .+..+-|.+++-
T Consensus 2 ~IleELP~PiqQsAkqmlnILQEELssy~~ 31 (44)
T PF13080_consen 2 HILEELPTPIQQSAKQMLNILQEELSSYPQ 31 (44)
T ss_pred chHhhcCchHHHHHHHHHHHHHHHHHhchh
Confidence 4789999999887543 333344444443
No 36
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=60.99 E-value=18 Score=20.65 Aligned_cols=34 Identities=21% Similarity=0.323 Sum_probs=23.2
Q ss_pred cccceeccCCeE-EecCCccCeEEEEeccEEEEEe
Q 042824 52 LHEEFFLPGEVI-MEQGNVVDQLYFVCHGVLEEVG 85 (94)
Q Consensus 52 ~~~~~~~~ge~i-~~~g~~~~~~y~i~~G~v~v~~ 85 (94)
++...+.+|+-+ ...-.-.+.+|+|++|+..+..
T Consensus 38 ~~~~~v~pg~~~~~~~H~~~dE~~~Vl~G~g~v~~ 72 (127)
T COG0662 38 IARILVKPGEEISLHHHHHRDEHWYVLEGTGKVTI 72 (127)
T ss_pred EEEEEECCCcccCcccccCcceEEEEEeeEEEEEE
Confidence 344556666653 4333335889999999999987
No 37
>PF05899 Cupin_3: Protein of unknown function (DUF861); InterPro: IPR008579 The function of the proteins in this entry are unknown. They contain the conserved barrel domain of the 'cupin' superfamily and members are specific to plants and bacteria.; PDB: 1RC6_A 3MYX_A 1O5U_A 2K9Z_A 1LKN_A 3ES4_A 1SFN_B 3BCW_A.
Probab=55.93 E-value=18 Score=18.59 Aligned_cols=31 Identities=26% Similarity=0.473 Sum_probs=20.0
Q ss_pred eccCCeEEecCCccCeEEEEeccEEEEEeeCCCCC
Q 042824 57 FLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGS 91 (94)
Q Consensus 57 ~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~ 91 (94)
..+|..-..-. .+.+.+|++|.+.+.. .+|.
T Consensus 14 ~~pg~~~~~~~--~~E~~~vleG~v~it~--~~G~ 44 (74)
T PF05899_consen 14 CTPGKFPWPYP--EDEFFYVLEGEVTITD--EDGE 44 (74)
T ss_dssp EECEEEEEEES--SEEEEEEEEEEEEEEE--TTTE
T ss_pred ECCceeEeeCC--CCEEEEEEEeEEEEEE--CCCC
Confidence 34555433332 2778899999999986 3554
No 38
>TIGR03404 bicupin_oxalic bicupin, oxalate decarboxylase family. Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.
Probab=55.39 E-value=20 Score=24.61 Aligned_cols=37 Identities=14% Similarity=0.115 Sum_probs=24.7
Q ss_pred ceeccCCeEEecC-CccCeEEEEeccEEEEEeeCCCCC
Q 042824 55 EFFLPGEVIMEQG-NVVDQLYFVCHGVLEEVGVGEDGS 91 (94)
Q Consensus 55 ~~~~~ge~i~~~g-~~~~~~y~i~~G~v~v~~~~~~g~ 91 (94)
..+.+|...-..- ...+.+++|++|++++...+.+|+
T Consensus 250 ~~l~PG~~~~~H~H~~~~E~~yvl~G~~~~~v~d~~g~ 287 (367)
T TIGR03404 250 VTVEPGAMRELHWHPNADEWQYFIQGQARMTVFAAGGN 287 (367)
T ss_pred EEECCCCccCCeeCcCCCeEEEEEEEEEEEEEEecCCc
Confidence 4556666543332 335689999999999987655554
No 39
>cd00173 SH2 Src homology 2 domains; Signal transduction, involved in recognition of phosphorylated tyrosine (pTyr). SH2 domains typically bind pTyr-containing ligands via two surface pockets, a pTyr and hydrophobic binding pocket, allowing proteins with SH2 domains to localize to tyrosine phosphorylated sites.
Probab=53.95 E-value=31 Score=17.96 Aligned_cols=40 Identities=13% Similarity=0.164 Sum_probs=25.3
Q ss_pred CCCCHHHHHHHHhhcccceeccCCeEEecCCccCe---EEEEeccEEE
Q 042824 38 KGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQ---LYFVCHGVLE 82 (94)
Q Consensus 38 ~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~---~y~i~~G~v~ 82 (94)
..++....+.++.. -..|++++|..+...+ +-+...|.+.
T Consensus 5 g~i~r~~Ae~~L~~-----~~~G~FLiR~s~~~~~~~~Lsv~~~~~v~ 47 (94)
T cd00173 5 GPISREEAEELLKK-----KPDGTFLVRDSESSPGDYVLSVRVKGKVK 47 (94)
T ss_pred cCCCHHHHHHHHhc-----CCCceEEEEecCCCCCCEEEEEEECCEEE
Confidence 35777777776665 5789999999874333 3334444443
No 40
>PF14157 YmzC: YmzC-like protein; PDB: 3KVP_E.
Probab=52.00 E-value=29 Score=17.62 Aligned_cols=22 Identities=23% Similarity=0.308 Sum_probs=17.4
Q ss_pred CeEEEE-eccEEEEEeeCCCCCc
Q 042824 71 DQLYFV-CHGVLEEVGVGEDGSE 92 (94)
Q Consensus 71 ~~~y~i-~~G~v~v~~~~~~g~e 92 (94)
..|.++ .+|.+++++.+++-.+
T Consensus 30 N~Fav~~e~~~iKIfkyd~~tNe 52 (63)
T PF14157_consen 30 NHFAVVDEDGQIKIFKYDEDTNE 52 (63)
T ss_dssp TEEEEE-ETTEEEEEEEETTTTE
T ss_pred CEEEEEecCCeEEEEEeCCCCCe
Confidence 567778 8999999998876443
No 41
>COG1480 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]
Probab=50.98 E-value=48 Score=24.94 Aligned_cols=32 Identities=9% Similarity=0.374 Sum_probs=26.2
Q ss_pred CCHHHHHHHHhhcccceeccCCeEEecCCccC
Q 042824 40 CSSEFINQIVTRLHEEFFLPGEVIMEQGNVVD 71 (94)
Q Consensus 40 l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~ 71 (94)
.++...+..+..+.++.+..|++|+++|+..+
T Consensus 224 ~T~~~~~ea~~~v~~V~I~~gqiIv~~ge~It 255 (700)
T COG1480 224 QTENLRQEALSKVEPVKISKGQIIVKEGEIIT 255 (700)
T ss_pred HHHHHHHHHHhccCceEEecCceEeecCceec
Confidence 34556777888999999999999999998765
No 42
>cd06944 NR_LBD_Ftz-F1_like The ligand binding domain of FTZ-F1 like nuclear receptors. The ligand binding domain of FTZ-F1 like nuclear receptors: This nuclear receptor family includes at least three subgroups of receptors that function in embryo development and differentiation, and other processes. FTZ-F1 interacts with the cis-acting DNA motif of ftz gene, which required at several stages of development. Particularly, FTZ-F1 genes are strongly linked to steroid biosynthesis and sex-determination; LRH-1 is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. SF-1 is an essential regulator of endocrine development and function and is considered a master regulator of reproduction; SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). However, the ligand for FTZ-F1 has not
Probab=48.71 E-value=57 Score=20.74 Aligned_cols=27 Identities=7% Similarity=0.127 Sum_probs=20.3
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhcc
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRLH 53 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~~ 53 (94)
..+..+++|.|..++.+....+++...
T Consensus 54 ~VewaK~lp~F~~L~~~DQi~LLk~~w 80 (237)
T cd06944 54 IVEWARNSVFFKELKVDDQMKLLQNCW 80 (237)
T ss_pred HHHHHHhCCChhcCCHHHHHHHHHHHh
Confidence 346788999999999887776655443
No 43
>PF13128 DUF3954: Protein of unknown function (DUF3954)
Probab=47.34 E-value=35 Score=16.54 Aligned_cols=17 Identities=18% Similarity=0.294 Sum_probs=14.1
Q ss_pred cCeEEEEeccEEEEEee
Q 042824 70 VDQLYFVCHGVLEEVGV 86 (94)
Q Consensus 70 ~~~~y~i~~G~v~v~~~ 86 (94)
.+.+|++.+|.+..+..
T Consensus 9 ~ngiYiV~~G~v~~i~p 25 (50)
T PF13128_consen 9 ENGIYIVKDGEVTFIEP 25 (50)
T ss_pred CCeEEEEECCeEEEcCC
Confidence 47899999999988854
No 44
>COG2140 Thermophilic glucose-6-phosphate isomerase and related metalloenzymes [Carbohydrate transport and metabolism / General function prediction only]
Probab=45.19 E-value=61 Score=20.63 Aligned_cols=21 Identities=19% Similarity=0.363 Sum_probs=17.7
Q ss_pred CeEEEEeccEEEEEeeCCCCC
Q 042824 71 DQLYFVCHGVLEEVGVGEDGS 91 (94)
Q Consensus 71 ~~~y~i~~G~v~v~~~~~~g~ 91 (94)
..+|++++|...++..+++|+
T Consensus 104 ~E~y~vi~G~g~m~v~~~~G~ 124 (209)
T COG2140 104 PEIYYVLKGEGRMLVQKPEGE 124 (209)
T ss_pred ccEEEEEeccEEEEEEcCCCc
Confidence 349999999999998887765
No 45
>smart00252 SH2 Src homology 2 domains. Src homology 2 domains bind phosphotyrosine-containing polypeptides via 2 surface pockets. Specificity is provided via interaction with residues that are distinct from the phosphotyrosine. Only a single occurrence of a SH2 domain has been found in S. cerevisiae.
Probab=43.74 E-value=47 Score=17.01 Aligned_cols=46 Identities=11% Similarity=0.135 Sum_probs=27.9
Q ss_pred cCCC-CCCHHHHHHHHhhcccceeccCCeEEecCCccCe---EEEEeccEEEEEe
Q 042824 35 SLFK-GCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQ---LYFVCHGVLEEVG 85 (94)
Q Consensus 35 ~~f~-~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~---~y~i~~G~v~v~~ 85 (94)
|+|. .++....+.++... ++|++++|..+.... +-+...+.+.-+.
T Consensus 2 ~w~~g~i~r~~Ae~lL~~~-----~~G~FLvR~s~~~~~~~~Lsv~~~~~~~h~~ 51 (84)
T smart00252 2 PWYHGFISREEAEKLLKNE-----GDGDFLVRDSESEPGDYVLSVRVKGKVKHYR 51 (84)
T ss_pred CeecccCCHHHHHHHHhcC-----CCcEEEEEcCCCCCCCEEEEEEECCEEEEEE
Confidence 3444 57777777776652 389999999876333 3334445544443
No 46
>TIGR03404 bicupin_oxalic bicupin, oxalate decarboxylase family. Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.
Probab=42.88 E-value=51 Score=22.64 Aligned_cols=38 Identities=18% Similarity=0.187 Sum_probs=25.8
Q ss_pred ceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCCCc
Q 042824 55 EFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDGSE 92 (94)
Q Consensus 55 ~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g~e 92 (94)
..+.+|...--.-.....+.++++|++.+...+++|+.
T Consensus 72 ~~l~pG~~~~~HwH~~~E~~yVl~G~~~v~~~d~~g~~ 109 (367)
T TIGR03404 72 MRLEPGAIRELHWHKEAEWAYVLYGSCRITAVDENGRN 109 (367)
T ss_pred EEEcCCCCCCcccCCCceEEEEEeeEEEEEEEcCCCcE
Confidence 46677765433223456799999999999987666654
No 47
>PRK04190 glucose-6-phosphate isomerase; Provisional
Probab=42.66 E-value=83 Score=19.59 Aligned_cols=21 Identities=14% Similarity=0.183 Sum_probs=16.4
Q ss_pred cCeEEEEeccEEEEEeeCCCC
Q 042824 70 VDQLYFVCHGVLEEVGVGEDG 90 (94)
Q Consensus 70 ~~~~y~i~~G~v~v~~~~~~g 90 (94)
...+|++++|...++..+.+|
T Consensus 97 ~~EiyyvlsG~g~~~l~~~~G 117 (191)
T PRK04190 97 RAEIYYGLKGKGLMLLQDPEG 117 (191)
T ss_pred CCEEEEEEeCEEEEEEecCCC
Confidence 348999999999988755544
No 48
>KOG1758 consensus Mitochondrial F1F0-ATP synthase, subunit delta/ATP16 [Energy production and conversion]
Probab=40.65 E-value=62 Score=19.54 Aligned_cols=30 Identities=27% Similarity=0.462 Sum_probs=25.9
Q ss_pred ceeccCCeEEecCCccCeEEEEeccEEEEE
Q 042824 55 EFFLPGEVIMEQGNVVDQLYFVCHGVLEEV 84 (94)
Q Consensus 55 ~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~ 84 (94)
...+||=+-++.|+....=|||.+|.+.+-
T Consensus 69 ~~LkPGvvsV~~~~~~~~k~FvSsGfa~v~ 98 (159)
T KOG1758|consen 69 QVLKPGVVSVHEGSGTKSKYFVSSGFATVN 98 (159)
T ss_pred heeccceEEEEeCCCcEEEEEEecceEEEc
Confidence 467899999999998888999999998765
No 49
>PF12973 Cupin_7: ChrR Cupin-like domain; PDB: 3O14_B 2Z2S_F 2Q1Z_B 3EBR_A.
Probab=40.32 E-value=41 Score=17.78 Aligned_cols=31 Identities=16% Similarity=0.150 Sum_probs=20.2
Q ss_pred cccceeccCCeEEecCCccCeEEEEeccEEE
Q 042824 52 LHEEFFLPGEVIMEQGNVVDQLYFVCHGVLE 82 (94)
Q Consensus 52 ~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~ 82 (94)
+....+.+|..+-.....+....+|++|...
T Consensus 26 ~~L~r~~pG~~~p~H~H~g~ee~~VLeG~~~ 56 (91)
T PF12973_consen 26 VSLLRLEPGASLPRHRHPGGEEILVLEGELS 56 (91)
T ss_dssp EEEEEE-TTEEEEEEEESS-EEEEEEECEEE
T ss_pred EEEEEECCCCCcCccCCCCcEEEEEEEEEEE
Confidence 3445677777776666667777788888865
No 50
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=40.19 E-value=68 Score=18.08 Aligned_cols=34 Identities=24% Similarity=0.078 Sum_probs=27.6
Q ss_pred ccceeccCCeEEecCCc-cCeEEEEeccEEEEEee
Q 042824 53 HEEFFLPGEVIMEQGNV-VDQLYFVCHGVLEEVGV 86 (94)
Q Consensus 53 ~~~~~~~ge~i~~~g~~-~~~~y~i~~G~v~v~~~ 86 (94)
....+.+|..+-..-.+ .....+|++|.+.+...
T Consensus 46 ~~v~~~~G~~~~~H~hp~~~~~~~Vl~G~~~~~~~ 80 (131)
T COG1917 46 VLVTFEPGAVIPWHTHPLGEQTIYVLEGEGTVQLE 80 (131)
T ss_pred EEEEECCCcccccccCCCcceEEEEEecEEEEEec
Confidence 34678898888877776 77899999999998873
No 51
>PF00017 SH2: SH2 domain; InterPro: IPR000980 The Src homology 2 (SH2) domain is a protein domain of about 100 amino-acid residues first identified as a conserved sequence region between the oncoproteins Src and Fps []. Similar sequences were later found in many other intracellular signal-transducing proteins []. SH2 domains function as regulatory modules of intracellular signalling cascades by interacting with high affinity to phosphotyrosine-containing target peptides in a sequence-specific, SH2 domains recognise between 3-6 residues C-terminal to the phosphorylated tyrosine in a fashion that differs from one SH2 domain to another, and strictly phosphorylation-dependent manner [, , , ]. They are found in a wide variety of protein contexts e.g., in association with catalytic domains of phospholipase Cy (PLCy) and the non-receptor protein tyrosine kinases; within structural proteins such as fodrin and tensin; and in a group of small adaptor molecules, i.e Crk and Nck. The domains are frequently found as repeats in a single protein sequence and will then often bind both mono- and di-phosphorylated substrates. The structure of the SH2 domain belongs to the alpha+beta class, its overall shape forming a compact flattened hemisphere. The core structural elements comprise a central hydrophobic anti-parallel beta-sheet, flanked by 2 short alpha-helices. The loop between strands 2 and 3 provides many of the binding interactions with the phosphate group of its phosphopeptide ligand, and is hence designated the phosphate binding loop, the phosphorylated ligand binds perpendicular to the beta-sheet and typically interacts with the phosphate binding loop and a hydrophobic binding pocket that interacts with a pY+3 side chain. The N- and C-termini of the domain are close together in space and on the opposite face from the phosphopeptide binding surface and it has been speculated that this has facilitated their integration into surface-exposed regions of host proteins [].; GO: 0005515 protein binding; PDB: 1M27_A 1KA6_A 1D4W_B 1D4T_A 1D1Z_B 1KA7_A 1UUR_A 1UUS_A 1BLJ_A 1BLK_A ....
Probab=39.88 E-value=29 Score=17.53 Aligned_cols=43 Identities=9% Similarity=0.037 Sum_probs=26.6
Q ss_pred CCCHHHHHHHHhhcccceeccCCeEEecCCccCe---EEEEeccEEEEEe
Q 042824 39 GCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQ---LYFVCHGVLEEVG 85 (94)
Q Consensus 39 ~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~---~y~i~~G~v~v~~ 85 (94)
.++....+.++.. .-+.|.+++|..+...+ +.+...|.+.-+.
T Consensus 5 ~isr~~Ae~~L~~----~~~~G~FLvR~s~~~~~~~~Lsv~~~~~v~h~~ 50 (77)
T PF00017_consen 5 FISRQEAERLLMQ----GKPDGTFLVRPSSSKPGKYVLSVRFDGKVKHFR 50 (77)
T ss_dssp SSHHHHHHHHHHT----TSSTTEEEEEEESSSTTSEEEEEEETTEEEEEE
T ss_pred CCCHHHHHHHHHh----cCCCCeEEEEeccccccccccccccccccEEEE
Confidence 4555555555554 46789999999885332 4445566655444
No 52
>PF14841 FliG_M: FliG middle domain; PDB: 3HJL_A 3AJC_A 1LKV_X 3SOH_D 3USY_B 3USW_A.
Probab=39.38 E-value=59 Score=16.93 Aligned_cols=38 Identities=29% Similarity=0.524 Sum_probs=23.9
Q ss_pred hHHHhhCcHHHHHHHHHHHhHHHhhcCcCCCCCCHHHHHHHHhhcc
Q 042824 8 ASVLHDIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLH 53 (94)
Q Consensus 8 ~~~l~~lp~~l~~~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~ 53 (94)
.++|..+|..+|.++.. ++.-+..+++..+..+-..++
T Consensus 30 A~VL~~lp~e~r~~v~~--------Ria~~~~v~~~~i~~ie~~L~ 67 (79)
T PF14841_consen 30 AEVLSQLPEELRAEVVR--------RIARLESVSPEVIEEIEEVLE 67 (79)
T ss_dssp HHHHHTS-HHHHHHHHH--------HHHTCCCCSHHHHHHHHHHHH
T ss_pred HHHHHHCCHHHHHHHHH--------HHHccCCCCHHHHHHHHHHHH
Confidence 34667777777666543 445566778888777766554
No 53
>PRK13290 ectC L-ectoine synthase; Reviewed
Probab=37.96 E-value=60 Score=18.62 Aligned_cols=30 Identities=10% Similarity=-0.079 Sum_probs=19.2
Q ss_pred ceeccCCeEEecCCccCeEEEEeccEEEEE
Q 042824 55 EFFLPGEVIMEQGNVVDQLYFVCHGVLEEV 84 (94)
Q Consensus 55 ~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~ 84 (94)
..+.||...-..-.....+++|++|++.+.
T Consensus 40 ~~l~pG~~~~~h~h~~~E~~yVL~G~~~~~ 69 (125)
T PRK13290 40 TTIYAGTETHLHYKNHLEAVYCIEGEGEVE 69 (125)
T ss_pred EEECCCCcccceeCCCEEEEEEEeCEEEEE
Confidence 466777644322111235899999999987
No 54
>PF14377 DUF4414: Domain of unknown function (DUF4414)
Probab=37.56 E-value=52 Score=18.29 Aligned_cols=19 Identities=21% Similarity=0.380 Sum_probs=15.9
Q ss_pred hHHHhhCcHHHHHHHHHHH
Q 042824 8 ASVLHDIPVSIRAKISQTL 26 (94)
Q Consensus 8 ~~~l~~lp~~l~~~~~~~~ 26 (94)
..+|..||.-||.++....
T Consensus 3 p~fLaaLPeDiR~Evl~~~ 21 (108)
T PF14377_consen 3 PEFLAALPEDIREEVLAQQ 21 (108)
T ss_pred HHHHHHCCHHHHHHHHHHH
Confidence 4688999999999987554
No 55
>PRK11171 hypothetical protein; Provisional
Probab=35.77 E-value=74 Score=20.70 Aligned_cols=34 Identities=21% Similarity=0.144 Sum_probs=26.0
Q ss_pred cccceeccCCeEEe-cCCccCeEEEEeccEEEEEe
Q 042824 52 LHEEFFLPGEVIME-QGNVVDQLYFVCHGVLEEVG 85 (94)
Q Consensus 52 ~~~~~~~~ge~i~~-~g~~~~~~y~i~~G~v~v~~ 85 (94)
+....++||.-+-. ........++|++|++.+..
T Consensus 186 ~~~~~l~PG~~~~~~~~~~~ee~i~Vl~G~~~~~~ 220 (266)
T PRK11171 186 VNIVTFEPGASIPFVETHVMEHGLYVLEGKGVYRL 220 (266)
T ss_pred EEEEEECCCCEEccCcCCCceEEEEEEeCEEEEEE
Confidence 44467788877665 36667789999999999875
No 56
>cd06929 NR_LBD_F1 Ligand-binding domain of nuclear receptor family 1. Ligand-binding domain (LBD) of nuclear receptor (NR) family 1: This is one of the major subfamily of nuclear receptors, including thyroid receptor, retinoid acid receptor, ecdysone receptor, farnesoid X receptor, vitamin D receptor, and other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=35.65 E-value=73 Score=18.76 Aligned_cols=27 Identities=11% Similarity=0.117 Sum_probs=21.2
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhcc
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRLH 53 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~~ 53 (94)
..++.+++|.|..++.+....+++...
T Consensus 18 ~v~~ak~ip~F~~L~~~Dq~~Llk~~~ 44 (174)
T cd06929 18 VVEFAKRIPGFRELSQEDQIALLKGGC 44 (174)
T ss_pred HHhhccCCcCcccCChhHHHHHHHhcH
Confidence 456788999999999888777766543
No 57
>PF05271 Tobravirus_2B: Tobravirus 2B protein; InterPro: IPR007935 This family consists of several tobravirus 2B proteins. It is known that the 2B protein is required for transmission by both Paratrichodorus pachydermus and Paratrichodorus anemones nematodes []. Transmission of the tobraviruses Tobacco rattle virus by trichodorid vector nematodes requires the viral coat protein (CP) and the 2B protein, a nonstructural protein encoded by RNA2, the smaller of the two viral genomic RNAs. It is hypothesized that the 2B protein functions by interacting with a small, flexible domain located at the C terminus of the CP, forming a bridge between the virus particle and the internal surface of the vector nematode feeding apparatus [].; GO: 0019089 transmission of virus
Probab=35.32 E-value=30 Score=19.35 Aligned_cols=50 Identities=22% Similarity=0.240 Sum_probs=38.2
Q ss_pred CCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEeccEEEEEeeC
Q 042824 37 FKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVG 87 (94)
Q Consensus 37 f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~ 87 (94)
+..++..++..+-.++..-.-.+|.+-+|-| .++..|...-|.+.+.+.+
T Consensus 44 ls~IPksfiSFiDnR~PMCINhkG~vyirV~-~~~d~yYQKfGelDvS~F~ 93 (116)
T PF05271_consen 44 LSMIPKSFISFIDNRLPMCINHKGWVYIRVK-DGEDVYYQKFGELDVSSFG 93 (116)
T ss_pred hhhccHhHhhhhcCCcceEEcccceEEEEec-cCccchhhhcccccccccc
Confidence 4456667777776666655568899999999 5788899999999998764
No 58
>KOG0498 consensus K+-channel ERG and related proteins, contain PAS/PAC sensor domain [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=34.37 E-value=48 Score=25.14 Aligned_cols=43 Identities=14% Similarity=0.297 Sum_probs=32.5
Q ss_pred hhCcHHHHHHHHHHHhHHHhh-----cCcCCCCCCHHHHHHHHhhccc
Q 042824 12 HDIPVSIRAKISQTLYMPYIE-----KVSLFKGCSSEFINQIVTRLHE 54 (94)
Q Consensus 12 ~~lp~~l~~~~~~~~~~~~l~-----~~~~f~~l~~~~~~~l~~~~~~ 54 (94)
+.||+.||+.+......+... ...++.++|++..+.|+.++..
T Consensus 371 ~~LP~~LRqRi~~y~q~kw~~t~Gvdee~lL~~LP~~LR~dI~~hL~~ 418 (727)
T KOG0498|consen 371 RQLPPDLRQRIRRYEQYKWLATRGVDEEELLQSLPKDLRRDIKRHLCL 418 (727)
T ss_pred ccCCHHHHHHHHHHHHHHHhhccCcCHHHHHHhCCHHHHHHHHHHHhH
Confidence 489999999988776554333 3468899999999888887643
No 59
>PF09313 DUF1971: Domain of unknown function (DUF1971); InterPro: IPR015392 This uncharacterised domain is predominantly found in bacterial Tellurite resistance proteins. ; PDB: 3BB6_C 3M70_A 3DL3_I.
Probab=34.02 E-value=67 Score=17.10 Aligned_cols=19 Identities=32% Similarity=0.413 Sum_probs=14.7
Q ss_pred EEEEeccEEEEEeeCCCCC
Q 042824 73 LYFVCHGVLEEVGVGEDGS 91 (94)
Q Consensus 73 ~y~i~~G~v~v~~~~~~g~ 91 (94)
..-|++|.++.+..+++|.
T Consensus 28 ~l~Vl~G~L~f~~~~~~~~ 46 (82)
T PF09313_consen 28 KLRVLEGELKFYGLDEEGE 46 (82)
T ss_dssp EEEEEESEEEEEEESSTT-
T ss_pred EEEEEeeEEEEEEECCCCC
Confidence 5678899999998877654
No 60
>KOG1236 consensus Predicted unusual protein kinase [General function prediction only]
Probab=33.18 E-value=1.9e+02 Score=21.15 Aligned_cols=66 Identities=18% Similarity=0.231 Sum_probs=41.5
Q ss_pred CCcccchhHHHh--hCcHHHHHHHHHHHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEec
Q 042824 1 YESSYTEASVLH--DIPVSIRAKISQTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVCH 78 (94)
Q Consensus 1 ~~~~~~~~~~l~--~lp~~l~~~~~~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~~ 78 (94)
|++|......++ ..|+.++..++.-....++ ...+++.+..-...||.++++..+..+..-.+.+
T Consensus 326 ~~~Gl~v~~~v~~~~~pe~l~kkva~lg~~All-------------kMl~vDNFvHaDlHPGNVlirf~~t~~~~~~~~~ 392 (565)
T KOG1236|consen 326 YERGLSVLRFVKWKSQPEALVKKVAKLGVNALL-------------KMLIVDNFVHADLHPGNVLIRFNKTEDNLRGVHK 392 (565)
T ss_pred ccccccHHhhhhcccChHHHHHHHHHHHHHHHH-------------HHHHhhcceecccCCCcEEEEecCCCcccccccc
Confidence 556666666666 3455466666544433322 2345777777788999999998887666555544
Q ss_pred c
Q 042824 79 G 79 (94)
Q Consensus 79 G 79 (94)
.
T Consensus 393 ~ 393 (565)
T KOG1236|consen 393 A 393 (565)
T ss_pred c
Confidence 3
No 61
>cd06930 NR_LBD_F2 Ligand-binding domain of nuclear receptor family 2. Ligand-binding domain (LBD) of nuclear receptor (NR) family 2: This is one of the major subfamily of nuclear receptors, including some well known nuclear receptors such as glucocorticoid receptor (GR), mineralocorticoid receptor (MR), estrogen receptor (ER), progesterone receptor (PR), and androgen receptor (AR), other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=33.09 E-value=1e+02 Score=17.84 Aligned_cols=26 Identities=4% Similarity=0.109 Sum_probs=20.2
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhc
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRL 52 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~ 52 (94)
..+..+..|.|..++.+....+++..
T Consensus 15 ~ie~ak~~p~F~~L~~~Dq~~Llk~~ 40 (165)
T cd06930 15 TVDWAKNLPAFRNLPLDDQLTLLQNS 40 (165)
T ss_pred HHHHHHcCCccccCChHHHHHHHHHH
Confidence 34677899999999988877766553
No 62
>PF11898 DUF3418: Domain of unknown function (DUF3418); InterPro: IPR024590 This entry represents the uncharacterised C-terminal domain of HrpA.
Probab=32.82 E-value=66 Score=23.71 Aligned_cols=62 Identities=11% Similarity=0.267 Sum_probs=37.1
Q ss_pred HHHhhCcHHHHHHHH--HHHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCe
Q 042824 9 SVLHDIPVSIRAKIS--QTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQ 72 (94)
Q Consensus 9 ~~l~~lp~~l~~~~~--~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~ 72 (94)
.+++.||+.+|..+. .+....++..++...+--...+...+..+.-..+.+.+. .....+.+
T Consensus 195 aLiksLPK~lRr~lVP~Pd~a~~~~~~l~~~~~~L~~aLa~~l~~~~G~~i~~~d~--~~~~Lp~H 258 (586)
T PF11898_consen 195 ALIKSLPKALRRNLVPAPDFAAAILERLEPRQGPLLEALARALRRMTGVRIPPDDW--DEERLPPH 258 (586)
T ss_pred HHHHhCCHHHHhhccCchHHHHHHHHhCCCCcCCHHHHHHHHHHHHHCCCCChHhC--CcccCCHh
Confidence 578899999999965 444556677776654433344444455555556666553 33344444
No 63
>PF00190 Cupin_1: Cupin; InterPro: IPR006045 This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant. ; GO: 0045735 nutrient reservoir activity; PDB: 2E9Q_A 2EVX_A 1OD5_A 1UCX_A 1UD1_C 1FXZ_C 3KGL_C 3KSC_D 1UIJ_F 1IPK_B ....
Probab=31.48 E-value=1e+02 Score=17.70 Aligned_cols=36 Identities=22% Similarity=0.283 Sum_probs=24.6
Q ss_pred ceeccCCeEEecCCccCeEEEEeccEEEEEeeCCCC
Q 042824 55 EFFLPGEVIMEQGNVVDQLYFVCHGVLEEVGVGEDG 90 (94)
Q Consensus 55 ~~~~~ge~i~~~g~~~~~~y~i~~G~v~v~~~~~~g 90 (94)
..+.+|-...-.-.....+.+|.+|++.+....+++
T Consensus 39 ~~i~pg~~~~Ph~h~a~~i~~V~~G~~~~~~v~~~~ 74 (144)
T PF00190_consen 39 VLIEPGGLRAPHYHNADEIVYVIEGRGRVGVVGPGG 74 (144)
T ss_dssp EEEETTEEEEEEEESSEEEEEEEESEEEEEEEETTC
T ss_pred eehhcCCccceeEeeeeEEeeeeccceEEEEEecCC
Confidence 344677665533336788999999999976665554
No 64
>cd06949 NR_LBD_ER Ligand binding domain of Estrogen receptor, which are activated by the hormone 17beta-estradiol (estrogen). The ligand binding domain (LBD) of Estrogen receptor (ER): Estrogen receptor, a member of nuclear receptor superfamily, is activated by the hormone estrogen. Estrogen regulates many physiological processes including reproduction, bone integrity, cardiovascular health, and behavior. The main mechanism of action of the estrogen receptor is as a transcription factor by binding to the estrogen response element of target genes upon activation by estrogen and then recruiting coactivator proteins which are responsible for the transcription of target genes. Additionally some ERs may associate with other membrane proteins and can be rapidly activated by exposure of cells to estrogen. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ER has a central well conserved DNA binding domain (DBD), a variable N-terminal doma
Probab=31.32 E-value=1.4e+02 Score=18.96 Aligned_cols=26 Identities=12% Similarity=0.101 Sum_probs=20.0
Q ss_pred HHHhhcCcCCCCCCHHHHHHHHhhcc
Q 042824 28 MPYIEKVSLFKGCSSEFINQIVTRLH 53 (94)
Q Consensus 28 ~~~l~~~~~f~~l~~~~~~~l~~~~~ 53 (94)
.+..+.+|.|..++......+++...
T Consensus 49 VewAK~iP~F~~L~~~DQi~LLk~~w 74 (235)
T cd06949 49 INWAKKIPGFVDLSLHDQVHLLESAW 74 (235)
T ss_pred HHHHHhCCCcccCCHHHHHHHHHHhH
Confidence 46778999999999887776665443
No 65
>PLN02804 chalcone isomerase
Probab=29.38 E-value=1.5e+02 Score=18.77 Aligned_cols=40 Identities=10% Similarity=0.222 Sum_probs=30.8
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEec
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQ 66 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~ 66 (94)
+...++..-...+-....++.+...++.+.++||..|.-.
T Consensus 107 ~~~rlk~~~~y~d~e~~aL~kf~~~Fk~~~fp~Gs~I~ft 146 (206)
T PLN02804 107 VRDRLAEDDKYEEEEEEALEKVVEFFQSKYFKKNSIITYH 146 (206)
T ss_pred HHHHHhcCCCCcchHHHHHHHHHHHhCCCcCCCCCEEEEE
Confidence 4555666666666667889999999999999999987644
No 66
>TIGR02451 anti_sig_ChrR anti-sigma factor, putative, ChrR family. The member of this family from Rhodobacter sphaeroides has been shown both to form a complex with sigma(E) and to negatively regulate tetrapyrrole biosynthesis. This protein likely contains (at least) two distinct functional domains; several smaller homologs (excluded by the model) show homology only to the C-terminal, including a motif PxHxHxGxE.
Probab=28.90 E-value=68 Score=20.21 Aligned_cols=30 Identities=20% Similarity=0.282 Sum_probs=24.2
Q ss_pred cccceeccCCeEEecCCccCeEEEEeccEE
Q 042824 52 LHEEFFLPGEVIMEQGNVVDQLYFVCHGVL 81 (94)
Q Consensus 52 ~~~~~~~~ge~i~~~g~~~~~~y~i~~G~v 81 (94)
....++.+|..+-.....+..+.+|++|..
T Consensus 129 v~Ll~i~pG~~~p~H~H~G~E~tlVLeG~f 158 (215)
T TIGR02451 129 VRLLYIEAGQSIPQHTHKGFELTLVLHGAF 158 (215)
T ss_pred EEEEEECCCCccCCCcCCCcEEEEEEEEEE
Confidence 345677888888888888888889999995
No 67
>PLN02559 chalcone--flavonone isomerase
Probab=27.69 E-value=1.8e+02 Score=18.90 Aligned_cols=43 Identities=14% Similarity=0.324 Sum_probs=32.2
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCc
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNV 69 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~ 69 (94)
+..++++.-.+.+-....++.+...++.+.+++|..|.-.-.+
T Consensus 113 ~~a~~ks~g~y~daE~~aLekF~~~Fk~~~fp~Gs~I~ft~sp 155 (230)
T PLN02559 113 CVAIWKSLGIYTDAEAKAVEKFKEAFKEETFPPGSSILFTHSP 155 (230)
T ss_pred HHHHHHhcCCcchhHHHHHHHHHHHhcCCCCCCCCEEEEEECC
Confidence 3455666666666677889999999999999999976644333
No 68
>PF02823 ATP-synt_DE_N: ATP synthase, Delta/Epsilon chain, beta-sandwich domain; InterPro: IPR020546 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This family represents subunits called delta (in mitochondrial ATPase) or epsilon (in bacteria or chloroplast ATPase). The interaction site of subunit C of the F0 complex with the delta or epsilon subunit of the F1 complex may be important for connecting the rotor of F1 (gamma subunit) to the rotor of F0 (C subunit) []. In bacterial species, the delta subunit is the equivalent of the Oligomycin sensitive subunit (OSCP, IPR000711 from INTERPRO) in metazoans. The C-terminal domain of the epsilon subunit appears to act as an inhibitor of ATPase activity []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015986 ATP synthesis coupled proton transport, 0045261 proton-transporting ATP synthase complex, catalytic core F(1); PDB: 2WSS_H 1E79_H 2JDI_H 2W6I_H 2W6H_H 2W6J_H 2CK3_H 2V7Q_H 1H8E_H 2XND_H ....
Probab=27.12 E-value=95 Score=15.99 Aligned_cols=29 Identities=24% Similarity=0.399 Sum_probs=18.0
Q ss_pred eeccCCeEEecCCccCeEEEEeccEEEEE
Q 042824 56 FFLPGEVIMEQGNVVDQLYFVCHGVLEEV 84 (94)
Q Consensus 56 ~~~~ge~i~~~g~~~~~~y~i~~G~v~v~ 84 (94)
...+|.+-++..+.....+++..|-+.+.
T Consensus 41 ~l~~G~~~i~~~~~~~~~~~v~~G~~~v~ 69 (80)
T PF02823_consen 41 ALKPGELRIKDADGEEKKFAVSGGFLEVK 69 (80)
T ss_dssp EEESEEEEEEESSSEEEEEEESSEEEEEE
T ss_pred eccceEEEEEEcCCCEEEEEEcCEEEEEE
Confidence 34666666665555556667777766654
No 69
>cd06940 NR_LBD_REV_ERB The ligand binding domain of REV-ERB receptors, members of the nuclear receptor superfamily. The ligand binding domain (LBD) of REV-ERB receptors: REV-ERBs are transcriptional regulators belonging to the nuclear receptor superfamily. They regulate a number of physiological functions including the circadian rhythm, lipid metabolism, and cellular differentiation. The LBD domain of REV-ERB is unusual in the nuclear receptor family by lacking the AF-2 region that is responsible for coactivator interaction. REV-ERBs act as constitutive repressors because of their inability to bind coactivators. REV-ERB receptors can bind to two classes of DNA response elements as either a monomer or heterodimer, indicating functional diversity. When bound to the DNA, they recruit corepressors (NcoR/histone deacetylase 3) to the promoter, resulting in repression of the target gene. The porphyrin heme has been demonstrated to function as a ligand for REV-ERB. Like other members of
Probab=26.03 E-value=1.4e+02 Score=18.23 Aligned_cols=27 Identities=7% Similarity=0.116 Sum_probs=20.8
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhcc
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRLH 53 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~~ 53 (94)
..+..+++|-|..++.+....++....
T Consensus 28 ~V~waK~iPgF~~L~~~DQi~LLk~~w 54 (189)
T cd06940 28 VVEFAKRIPGFRDLSQHDQVTLLKAGT 54 (189)
T ss_pred HHHHHhcCCCcccCChhhHHHHHHHhh
Confidence 456788999999999887777665544
No 70
>cd06938 NR_LBD_EcR The ligand binding domain (LBD) of the Ecdysone receptor, a member of the nuclear receptors super family. The ligand binding domain (LBD) of the ecdysone receptor: The ecdysone receptor (EcR) belongs to the superfamily of nuclear receptors (NRs) of ligand-dependent transcription factors. Ecdysone receptor is present only in invertebrates and regulates the expression of a large number of genes during development and reproduction. ECR functions as a heterodimer by partnering with ultraspiracle protein (USP), the ortholog of the vertebrate retinoid X receptor (RXR). The natural ligands of ecdysone receptor are ecdysteroids#the endogenous steroidal hormones found in invertebrates. In addition, insecticide bisacylhydrazine used against pests has shown to act on EcR. EcR must be dimerised with a USP for high-affinity ligand binding to occur. The ligand binding triggers a conformational change in the C-terminal part of the EcR ligand-binding domain that leads to transcript
Probab=25.74 E-value=1.5e+02 Score=18.72 Aligned_cols=26 Identities=12% Similarity=0.134 Sum_probs=20.1
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhc
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRL 52 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~ 52 (94)
..++.+++|.|..++......+++..
T Consensus 55 iIefaK~lp~F~~L~~~DQi~LLK~~ 80 (231)
T cd06938 55 IVEFAKRLPGFDKLSREDQITLLKAC 80 (231)
T ss_pred HHHHHhcCCccccCChhHHHHHHHHH
Confidence 45788999999999987766665544
No 71
>COG5458 Uncharacterized conserved protein [Function unknown]
Probab=25.20 E-value=69 Score=18.60 Aligned_cols=15 Identities=27% Similarity=0.401 Sum_probs=12.0
Q ss_pred ccCeEEEEeccEEEE
Q 042824 69 VVDQLYFVCHGVLEE 83 (94)
Q Consensus 69 ~~~~~y~i~~G~v~v 83 (94)
.+.++|+|.+|.|.-
T Consensus 54 ~GgSLYwViKG~Vqc 68 (144)
T COG5458 54 DGGSLYWVIKGQVQC 68 (144)
T ss_pred cCCeEEEEEeceeeh
Confidence 356899999999753
No 72
>PF11922 DUF3440: Domain of unknown function (DUF3440); InterPro: IPR021845 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is typically between 53 to 190 amino acids in length. This domain is found associated with PF01507 from PFAM. This domain has a conserved KND sequence motif.
Probab=24.83 E-value=1.8e+02 Score=18.09 Aligned_cols=40 Identities=15% Similarity=0.258 Sum_probs=26.7
Q ss_pred HHhhCcHHHHHHHHHHH--hHHHhhcCcCCCCCCHHHHHHHHhh
Q 042824 10 VLHDIPVSIRAKISQTL--YMPYIEKVSLFKGCSSEFINQIVTR 51 (94)
Q Consensus 10 ~l~~lp~~l~~~~~~~~--~~~~l~~~~~f~~l~~~~~~~l~~~ 51 (94)
||+++|+.++......+ +.+.-+..- ..++++.+..|...
T Consensus 74 LL~TlP~~tr~~Y~~Ki~~~i~~w~~~g--~~lpde~i~~L~~~ 115 (181)
T PF11922_consen 74 LLDTLPEKTREHYRNKIAVSIRWWRKKG--GCLPDETIQELEEA 115 (181)
T ss_pred HHHcCCHHHHHHHHHHHHHHHHHHHHcC--CCCCHHHHHHHHhc
Confidence 78899999998876443 223333333 56888888887653
No 73
>PF07370 DUF1489: Protein of unknown function (DUF1489); InterPro: IPR008320 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.67 E-value=93 Score=18.43 Aligned_cols=15 Identities=27% Similarity=0.443 Sum_probs=12.2
Q ss_pred cCeEEEEeccEEEEE
Q 042824 70 VDQLYFVCHGVLEEV 84 (94)
Q Consensus 70 ~~~~y~i~~G~v~v~ 84 (94)
+.++|+|.+|.+..-
T Consensus 47 GGSlYWVikg~i~~R 61 (137)
T PF07370_consen 47 GGSLYWVIKGQIQCR 61 (137)
T ss_pred CCcEEEEECCEEEEe
Confidence 467999999997654
No 74
>PF02938 GAD: GAD domain; InterPro: IPR004115 This entry represetns an 2 layer alpha/beta insertion domain found in some glutamyl-tRNA amidotransferases and aspartyl tRNA synthetases [, ]. The function of this domain is not yet known.; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0005737 cytoplasm; PDB: 1ZQ1_D 1EQR_B 1IL2_B 1C0A_A 1L0W_A 1G51_B 1EFW_B 2D6F_D.
Probab=24.62 E-value=92 Score=16.73 Aligned_cols=28 Identities=25% Similarity=0.371 Sum_probs=20.1
Q ss_pred CcCCCCCCHHHHHHHHhhcccceeccCCeEE
Q 042824 34 VSLFKGCSSEFINQIVTRLHEEFFLPGEVIM 64 (94)
Q Consensus 34 ~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~ 64 (94)
.|+.+.++++.+..|...+ ...+||+++
T Consensus 55 s~i~kfl~e~~~~~l~~~~---~a~~GD~ll 82 (95)
T PF02938_consen 55 SPIAKFLSEEELKALIERL---GAKPGDLLL 82 (95)
T ss_dssp CTTCCCCHHHHHHHHHHHT---T--TTEEEE
T ss_pred CcccccCCHHHHHHHHHHh---CCCCCCEEE
Confidence 4677778899999998886 567777755
No 75
>COG3257 GlxB Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]
Probab=24.33 E-value=1.6e+02 Score=19.19 Aligned_cols=25 Identities=16% Similarity=0.182 Sum_probs=19.6
Q ss_pred CeEEecCCccCeEEEEeccEEEEEe
Q 042824 61 EVIMEQGNVVDQLYFVCHGVLEEVG 85 (94)
Q Consensus 61 e~i~~~g~~~~~~y~i~~G~v~v~~ 85 (94)
.---..++..+.+.||++|.+.+..
T Consensus 74 s~~~e~d~~ae~~lfVv~Ge~tv~~ 98 (264)
T COG3257 74 SQRPEGDEGAETFLFVVSGEITVKA 98 (264)
T ss_pred CCCCCCCCcceEEEEEEeeeEEEEE
Confidence 4444566677889999999999876
No 76
>cd06954 NR_LBD_LXR The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors. The ligand binding domain of Liver X receptors: Liver X receptors (LXRs) belong to a family of nuclear receptors of ligand-activated transcription factors. LXRs operate as cholesterol sensors which protect from cholesterol overload by stimulating reverse cholesterol transport from peripheral tissues to the liver and its excretion in the bile. Oxidized cholesterol derivatives or oxysterols were identified as specific ligands for LXRs. Upon ligand binding a conformational change leads to recruitment of co-factors, which stimulates expression of target genes. Among the LXR target genes are several genes involved in cholesterol efflux from peripheral tissues such as the ATP-binding-cassette transporters ABCA1, ABCG1 and ApoE. There are two LXR isoforms in mammals, LXRalpha and LXRbeta. LXRalpha is expressed mainly in the liver, intestine, kidney, splee
Probab=23.54 E-value=1.8e+02 Score=18.30 Aligned_cols=27 Identities=7% Similarity=0.058 Sum_probs=20.9
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhcc
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRLH 53 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~~ 53 (94)
..++.+++|.|..++.+....++....
T Consensus 59 ~VefaK~lP~F~~L~~~DQi~LLK~~~ 85 (236)
T cd06954 59 IVDFAKQLPGFLTLTREDQIALLKAST 85 (236)
T ss_pred HHHHHcCCCCcccCChHHHHHHHHHhH
Confidence 457889999999999887777665443
No 77
>KOG4764 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.45 E-value=54 Score=16.94 Aligned_cols=25 Identities=16% Similarity=0.466 Sum_probs=18.6
Q ss_pred CCcccchhHHHhhCcHHHHHHHHHH
Q 042824 1 YESSYTEASVLHDIPVSIRAKISQT 25 (94)
Q Consensus 1 ~~~~~~~~~~l~~lp~~l~~~~~~~ 25 (94)
|+..+|+..+-...+.+||.++...
T Consensus 41 WEdnWDDd~veDDFS~QLkaELek~ 65 (70)
T KOG4764|consen 41 WEDNWDDDDVEDDFSNQLKAELEKK 65 (70)
T ss_pred hhhcCCccchhhHHHHHHHHHHHhc
Confidence 5667777788778888888876543
No 78
>cd07070 NR_LBD_SF-1 The ligand binding domain of nuclear receptor steroidogenic factor 1, a member of nuclear receptor superfamily. The ligand binding domain of nuclear receptor steroidogenic factor 1 (SF-1): SF-1, a member of the nuclear hormone receptor superfamily, is an essential regulator of endocrine development and function and is considered a master regulator of reproduction. Most nuclear receptors function as homodimer or heterodimers, however SF-1 binds to its target genes as a monomer, recognizing the variations of the DNA sequence motif, T/CCA AGGTCA. SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been determined as potential ligands of SF-1. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, SF-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=22.87 E-value=2.1e+02 Score=18.18 Aligned_cols=26 Identities=8% Similarity=0.115 Sum_probs=19.8
Q ss_pred HHHhhcCcCCCCCCHHHHHHHHhhcc
Q 042824 28 MPYIEKVSLFKGCSSEFINQIVTRLH 53 (94)
Q Consensus 28 ~~~l~~~~~f~~l~~~~~~~l~~~~~ 53 (94)
.+..+++|.|..++.+....++....
T Consensus 55 VeWaK~lP~F~~L~~~DQi~LLk~~w 80 (237)
T cd07070 55 VDWARRCMVFKELEVADQMTLLQNCW 80 (237)
T ss_pred HHHHHhCCChhhCCHHHHHHHHHHHH
Confidence 46788999999999887776655443
No 79
>PF07107 WI12: Wound-induced protein WI12; InterPro: IPR009798 This entry consists of several plant wound-induced protein sequences related to WI12 from Mesembryanthemum crystallinum (Common ice plant) (Q9XES3 from SWISSPROT). Wounding, methyl jasmonate, and pathogen infection is known to induce local WI12 expression. WI12 expression is also thought to be developmentally controlled in the placenta and developing seeds. WI12 preferentially accumulates in the cell wall and it has been suggested that it plays a role in the reinforcement of cell wall composition after wounding and during plant development [].
Probab=22.56 E-value=1.1e+02 Score=17.31 Aligned_cols=18 Identities=22% Similarity=0.671 Sum_probs=14.3
Q ss_pred CCeEEecC-CccCeEEEEe
Q 042824 60 GEVIMEQG-NVVDQLYFVC 77 (94)
Q Consensus 60 ge~i~~~g-~~~~~~y~i~ 77 (94)
|+.++-+| +.....|+|.
T Consensus 25 G~~ViaEG~~~~~~~yWVH 43 (109)
T PF07107_consen 25 GSTVIAEGCDETRSVYWVH 43 (109)
T ss_pred CCEEEEecccCcCcEEEEE
Confidence 88999999 6677777765
No 80
>PTZ00490 Ferredoxin superfamily; Provisional
Probab=22.52 E-value=60 Score=19.27 Aligned_cols=19 Identities=16% Similarity=0.282 Sum_probs=13.0
Q ss_pred EEEeccEEEEEeeCCCCCc
Q 042824 74 YFVCHGVLEEVGVGEDGSE 92 (94)
Q Consensus 74 y~i~~G~v~v~~~~~~g~e 92 (94)
+++-+|.|++...+.+|++
T Consensus 29 ~~~~~g~v~I~~~~~dG~~ 47 (143)
T PTZ00490 29 LYSTPGKVKVCVKKRDGTH 47 (143)
T ss_pred eccCCCcEEEEEEcCCCCE
Confidence 3446788888877777754
No 81
>PF05523 FdtA: WxcM-like, C-terminal ; InterPro: IPR008894 This entry includes FdtA (Q6T1W8 from SWISSPROT) from Aneurinibacillus thermoaerophilus, which has been characterised as a dTDP-6-deoxy-3,4-keto-hexulose isomerase []. It also includes WxcM (Q93S92 from SWISSPROT) from Xanthomonas campestris pv campestris) []. ; PDB: 2PAK_A 2PAE_A 2PA7_B 2PAM_A.
Probab=22.28 E-value=1.1e+02 Score=17.57 Aligned_cols=19 Identities=21% Similarity=0.198 Sum_probs=12.9
Q ss_pred ccCeEEEEeccEEEEEeeC
Q 042824 69 VVDQLYFVCHGVLEEVGVG 87 (94)
Q Consensus 69 ~~~~~y~i~~G~v~v~~~~ 87 (94)
....++++++|++.+...+
T Consensus 53 ~~~~~~~~l~Gs~~v~~~d 71 (131)
T PF05523_consen 53 KTTQWFIVLSGSFKVVLDD 71 (131)
T ss_dssp S--EEEEEEES-EEEEEE-
T ss_pred cccEEEEEEeCEEEEEEec
Confidence 4567899999999999754
No 82
>smart00430 HOLI Ligand binding domain of hormone receptors.
Probab=21.11 E-value=1.4e+02 Score=16.84 Aligned_cols=25 Identities=12% Similarity=0.178 Sum_probs=19.2
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhh
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTR 51 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~ 51 (94)
..+.++..|.|..++.+....+++.
T Consensus 8 ~~~~~~~~~~f~~L~~~dq~~Llk~ 32 (163)
T smart00430 8 AVEWAKTFPFFRELSQEDKLILLKH 32 (163)
T ss_pred HHHHHHhChhHhhCCHHHHHHHHHH
Confidence 3456778999999998887777653
No 83
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=20.99 E-value=1.6e+02 Score=19.19 Aligned_cols=21 Identities=33% Similarity=0.343 Sum_probs=17.5
Q ss_pred eEEEEeccEEEEEeeCCCCCc
Q 042824 72 QLYFVCHGVLEEVGVGEDGSE 92 (94)
Q Consensus 72 ~~y~i~~G~v~v~~~~~~g~e 92 (94)
..+.|++|.+.++..+++|.+
T Consensus 35 ~~~~vl~G~l~~~~~de~g~~ 55 (287)
T PRK12335 35 AKLTVLKGELKFYELTEDGEE 55 (287)
T ss_pred eEEEEEeeeEEEEEECCCCCe
Confidence 688899999999988877754
No 84
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=20.80 E-value=1.5e+02 Score=19.28 Aligned_cols=36 Identities=19% Similarity=0.116 Sum_probs=25.8
Q ss_pred hhcccceeccCCeEE-ecCCccCeEEEEeccEEEEEe
Q 042824 50 TRLHEEFFLPGEVIM-EQGNVVDQLYFVCHGVLEEVG 85 (94)
Q Consensus 50 ~~~~~~~~~~ge~i~-~~g~~~~~~y~i~~G~v~v~~ 85 (94)
..+....+.||..+- .+-......++|++|+..+..
T Consensus 179 ~~~~~~~~~PG~~~~~~~~H~~eh~~yiL~G~G~~~~ 215 (260)
T TIGR03214 179 MNVHILSFEPGASHPYIETHVMEHGLYVLEGKGVYNL 215 (260)
T ss_pred cEEEEEEECCCcccCCcccccceeEEEEEeceEEEEE
Confidence 344557788888874 455556778899999987764
No 85
>COG4046 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.22 E-value=3.1e+02 Score=18.97 Aligned_cols=54 Identities=13% Similarity=0.076 Sum_probs=41.1
Q ss_pred HHHhHHHhhcCcCCCCCCHHHHHHHHhhcccceeccCCeEEecCCccCeEEEEe
Q 042824 24 QTLYMPYIEKVSLFKGCSSEFINQIVTRLHEEFFLPGEVIMEQGNVVDQLYFVC 77 (94)
Q Consensus 24 ~~~~~~~l~~~~~f~~l~~~~~~~l~~~~~~~~~~~ge~i~~~g~~~~~~y~i~ 77 (94)
+..+..+++.+|.=.+..+-....++.+...+...++.+.....=.++.+|++.
T Consensus 182 ~~a~nafikgvPIGDsaGPlvA~~L~~~~~~~e~~~etV~~e~e~eGRkl~IvK 235 (368)
T COG4046 182 MEACNAFIKGVPIGDSAGPLVAARLIGNRDVREHEKETVYAEKELEGRKLYIVK 235 (368)
T ss_pred HHHHHHHHcCcccCCCcchHHHHHHHhccccccccccceEEEEeecCcEEEEEe
Confidence 334567899999999999988888888887777666666666666677788774
No 86
>cd06935 NR_LBD_TR The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors. The ligand binding domain (LBD) of thyroid hormone receptors: Thyroid hormone receptors are members of a superfamily of nuclear receptors. Thyroid hormone receptors (TR) mediate the actions of thyroid hormones, which play critical roles in growth, development, and homeostasis in mammals. They regulate overall metabolic rate, cholesterol and triglyceride levels, and heart rate, and affect mood. TRs are expressed from two separate genes (alpha and beta) in human and each gene generates two isoforms of the receptor through differential promoter usage or splicing. TRalpha functions in the heart to regulate heart rate and rhythm and TRbeta is active in the liver and other tissues. The unliganded TRs function as transcription repressors, by binding to thyroid hormone response elements (TRE) predominantly as homodimers, or as heterodimers with retinoid X-receptors (RXR), a
Probab=20.05 E-value=1.8e+02 Score=18.59 Aligned_cols=28 Identities=11% Similarity=0.123 Sum_probs=21.0
Q ss_pred hHHHhhcCcCCCCCCHHHHHHHHhhccc
Q 042824 27 YMPYIEKVSLFKGCSSEFINQIVTRLHE 54 (94)
Q Consensus 27 ~~~~l~~~~~f~~l~~~~~~~l~~~~~~ 54 (94)
..++.+++|.|..++.+....++.....
T Consensus 68 iVefAK~iPgF~~L~~~DQi~LLk~~~~ 95 (243)
T cd06935 68 VVDFAKKLPMFTELPCEDQIILLKGCCM 95 (243)
T ss_pred HHHHHhcCCccccCChHHHHHHHHHhHH
Confidence 3467889999999998877666655433
No 87
>PF00122 E1-E2_ATPase: E1-E2 ATPase p-type cation-transporting ATPase superfamily signature H+-transporting ATPase (proton pump) signature sodium/potassium-transporting ATPase signature; InterPro: IPR008250 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the actuator (A) domain, and some transmembrane helices found in P-type ATPases []. It contains the TGES-loop which is essential for the metal ion binding which results in tight association between the A and P (phosphorylation) domains []. It does not contain the phosphorylation site. It is thought that the large movement of the actuator domain, which is transmitted to the transmembrane helices, is essential to the long distance coupling between formation/decomposition of the acyl phosphate in the cytoplasmic P-domain and the changes in the ion-binding sites buried deep in the membranous region []. This domain has a modulatory effect on the phosphoenzyme processing steps through its nucleotide binding [],[]. P-type (or E1-E2-type) ATPases that form an aspartyl phosphate intermediate in the course of ATP hydrolysis, can be divided into 4 major groups []: (1) Ca2+-transporting ATPases; (2) Na+/K+- and gastric H+/K+-transporting ATPases; (3) plasma membrane H+-transporting ATPases (proton pumps) of plants, fungi and lower eukaryotes; and (4) all bacterial P-type ATPases, except the g2+-ATPase of Salmonella typhimurium, which is more similar to the eukaryotic sequences. However, great variety of sequence analysis methods results in diversity of classification. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0000166 nucleotide binding, 0046872 metal ion binding; PDB: 2XZB_A 1MHS_B 3TLM_A 3A3Y_A 2ZXE_A 3NAL_A 3NAM_A 3NAN_A 2YJ6_B 2IYE_A ....
Probab=20.04 E-value=1e+02 Score=19.02 Aligned_cols=34 Identities=18% Similarity=0.335 Sum_probs=22.0
Q ss_pred cccceeccCCeE-EecCCccCeEEEEec-cEEEEEe
Q 042824 52 LHEEFFLPGEVI-MEQGNVVDQLYFVCH-GVLEEVG 85 (94)
Q Consensus 52 ~~~~~~~~ge~i-~~~g~~~~~~y~i~~-G~v~v~~ 85 (94)
.......+||+| +++|+....=..+++ |.+.+-.
T Consensus 47 i~~~~L~~GDiI~l~~g~~vPaD~~ll~~g~~~vd~ 82 (230)
T PF00122_consen 47 IPSSELVPGDIIILKAGDIVPADGILLESGSAYVDE 82 (230)
T ss_dssp EEGGGT-TTSEEEEETTEBESSEEEEEESSEEEEEC
T ss_pred chHhhccceeeeecccccccccCccceecccccccc
Confidence 344567899996 688886665444444 8877754
Done!