Query psy15967
Match_columns 280
No_of_seqs 332 out of 2257
Neff 6.4
Searched_HMMs 46136
Date Fri Aug 16 17:38:00 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15967.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15967hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0500|consensus 99.9 2.3E-20 4.9E-25 179.9 18.0 177 10-232 329-505 (536)
2 PRK09391 fixK transcriptional 99.7 3E-17 6.5E-22 146.7 9.4 162 10-187 37-226 (230)
3 PRK13918 CRP/FNR family transc 99.7 5.2E-17 1.1E-21 140.9 10.6 161 10-189 5-197 (202)
4 TIGR03697 NtcA_cyano global ni 99.7 1.9E-17 4.2E-22 142.3 6.8 157 19-188 1-190 (193)
5 PRK11161 fumarate/nitrate redu 99.7 5.7E-17 1.2E-21 144.2 7.8 163 13-188 39-231 (235)
6 PRK11753 DNA-binding transcrip 99.7 7.6E-15 1.6E-19 128.0 18.9 186 10-261 19-209 (211)
7 PRK10402 DNA-binding transcrip 99.6 5.4E-15 1.2E-19 131.6 16.5 173 9-255 29-205 (226)
8 PRK09392 ftrB transcriptional 99.6 2.8E-15 6.1E-20 133.6 10.9 182 10-260 29-212 (236)
9 COG0664 Crp cAMP-binding prote 99.6 3.5E-15 7.7E-20 128.1 10.0 137 10-207 22-161 (214)
10 PF00027 cNMP_binding: Cyclic 99.5 3.2E-13 7E-18 101.1 10.3 87 14-152 2-91 (91)
11 cd00038 CAP_ED effector domain 99.3 1.6E-11 3.4E-16 94.2 10.1 96 10-157 16-114 (115)
12 PLN03192 Voltage-dependent pot 99.2 6.7E-11 1.5E-15 123.8 13.2 109 10-170 396-506 (823)
13 smart00100 cNMP Cyclic nucleot 99.2 1.8E-10 3.9E-15 88.5 11.4 100 10-159 16-118 (120)
14 KOG0498|consensus 99.2 6.7E-11 1.5E-15 121.1 9.2 107 10-167 441-553 (727)
15 COG2905 Predicted signal-trans 99.2 3.6E-10 7.7E-15 111.7 12.8 105 10-167 29-133 (610)
16 KOG0499|consensus 99.1 9.3E-10 2E-14 109.0 12.4 112 10-170 549-661 (815)
17 PLN02868 acyl-CoA thioesterase 98.9 5.2E-09 1.1E-13 101.6 10.1 90 10-153 30-121 (413)
18 KOG0501|consensus 98.5 1.3E-07 2.8E-12 94.0 4.8 98 10-159 570-667 (971)
19 KOG0614|consensus 98.4 7.5E-07 1.6E-11 88.0 9.0 86 10-149 176-261 (732)
20 KOG1113|consensus 98.4 4.9E-07 1.1E-11 85.3 5.8 95 10-158 144-238 (368)
21 KOG2968|consensus 98.2 2.2E-06 4.7E-11 88.8 6.8 104 10-165 507-613 (1158)
22 KOG0614|consensus 98.1 1.1E-06 2.4E-11 86.8 2.4 93 10-154 294-391 (732)
23 KOG1113|consensus 97.9 2E-05 4.3E-10 74.6 6.7 86 10-149 262-348 (368)
24 TIGR03697 NtcA_cyano global ni 97.7 2.6E-05 5.6E-10 66.8 3.3 116 124-254 59-178 (193)
25 KOG2968|consensus 97.7 0.00017 3.6E-09 75.3 9.0 115 10-169 114-231 (1158)
26 PRK11753 DNA-binding transcrip 97.5 3.7E-05 8E-10 66.8 0.8 100 65-177 95-204 (211)
27 PRK10402 DNA-binding transcrip 97.4 6.5E-05 1.4E-09 66.8 1.1 104 65-190 105-218 (226)
28 PRK11832 putative DNA-binding 97.1 0.022 4.7E-07 50.9 14.3 89 10-151 21-110 (207)
29 PRK09392 ftrB transcriptional 97.1 0.00019 4.2E-09 63.7 1.4 106 65-187 103-218 (236)
30 PF04831 Popeye: Popeye protei 97.1 0.017 3.7E-07 49.1 12.7 104 10-162 27-131 (153)
31 PRK09391 fixK transcriptional 97.0 0.001 2.2E-08 59.4 5.3 123 120-259 95-219 (230)
32 PRK11161 fumarate/nitrate redu 96.8 0.015 3.2E-07 51.5 11.2 121 122-255 98-220 (235)
33 PF13545 HTH_Crp_2: Crp-like h 95.6 0.0033 7.2E-08 46.1 0.0 45 144-188 31-75 (76)
34 KOG3542|consensus 95.3 0.042 9.1E-07 56.5 6.5 46 16-63 310-355 (1283)
35 PRK13918 CRP/FNR family transc 95.1 0.014 3.1E-07 50.2 2.5 119 120-260 67-189 (202)
36 PF00325 Crp: Bacterial regula 95.0 0.02 4.4E-07 36.1 2.3 28 144-171 5-32 (32)
37 COG0664 Crp cAMP-binding prote 93.8 0.057 1.2E-06 45.8 3.1 99 65-176 97-206 (214)
38 PF07883 Cupin_2: Cupin domain 86.3 1.6 3.4E-05 30.8 4.6 47 14-63 3-50 (71)
39 PF05899 Cupin_3: Protein of u 82.1 3.9 8.5E-05 30.1 5.2 44 16-63 14-57 (74)
40 TIGR03404 bicupin_oxalic bicup 80.0 4.6 9.9E-05 39.1 6.3 61 3-63 61-123 (367)
41 PRK08032 fliD flagellar cappin 77.5 9.1 0.0002 38.1 7.7 94 135-243 354-461 (462)
42 COG1917 Uncharacterized conser 74.2 9.2 0.0002 30.8 5.7 51 10-63 44-95 (131)
43 PRK06798 fliD flagellar cappin 72.5 15 0.00033 36.4 7.7 94 134-236 329-427 (440)
44 KOG3542|consensus 72.2 4.7 0.0001 42.1 4.2 34 10-43 59-92 (1283)
45 smart00835 Cupin_1 Cupin. This 72.2 11 0.00025 31.0 5.9 55 9-63 30-88 (146)
46 PRK13290 ectC L-ectoine syntha 69.7 14 0.0003 30.2 5.7 50 12-63 38-88 (125)
47 PF06825 HSBP1: Heat shock fac 66.0 14 0.00031 26.0 4.4 42 188-229 3-44 (54)
48 TIGR03404 bicupin_oxalic bicup 65.8 15 0.00033 35.5 6.1 61 3-63 239-302 (367)
49 cd00092 HTH_CRP helix_turn_hel 62.2 6.6 0.00014 27.3 2.2 32 144-175 28-59 (67)
50 PRK06664 fliD flagellar hook-a 61.1 31 0.00066 36.2 7.6 93 135-242 543-654 (661)
51 COG0662 {ManC} Mannose-6-phosp 60.8 27 0.00059 28.2 5.9 48 10-60 37-85 (127)
52 PRK04190 glucose-6-phosphate i 60.0 45 0.00097 29.4 7.5 53 11-63 70-133 (191)
53 TIGR01610 phage_O_Nterm phage 58.4 9.8 0.00021 29.4 2.7 65 92-173 14-79 (95)
54 PF07195 FliD_C: Flagellar hoo 57.8 77 0.0017 28.4 8.9 90 134-224 132-236 (239)
55 PRK08724 fliD flagellar cappin 54.9 56 0.0012 34.3 8.2 84 135-226 568-662 (673)
56 TIGR03037 anthran_nbaC 3-hydro 54.2 43 0.00093 28.8 6.1 40 23-63 43-83 (159)
57 PF00190 Cupin_1: Cupin; Inte 51.1 40 0.00087 27.6 5.5 52 12-63 37-97 (144)
58 smart00419 HTH_CRP helix_turn_ 48.0 16 0.00036 23.4 2.2 30 144-173 11-40 (48)
59 PRK06798 fliD flagellar cappin 47.9 92 0.002 30.9 8.3 65 138-203 344-408 (440)
60 PHA00672 hypothetical protein 45.9 1.3E+02 0.0027 25.2 7.3 36 10-46 48-83 (152)
61 PRK13264 3-hydroxyanthranilate 43.6 73 0.0016 27.9 6.0 37 27-63 52-89 (177)
62 PRK08453 fliD flagellar cappin 42.5 1.3E+02 0.0028 31.8 8.6 97 134-236 558-669 (673)
63 smart00345 HTH_GNTR helix_turn 42.2 18 0.00038 24.2 1.7 30 144-173 23-52 (60)
64 PRK07737 fliD flagellar cappin 41.9 1.3E+02 0.0029 30.3 8.5 101 135-242 378-495 (501)
65 COG3450 Predicted enzyme of th 41.5 89 0.0019 25.4 5.9 43 16-62 52-94 (116)
66 PRK11171 hypothetical protein; 41.5 78 0.0017 29.0 6.3 51 10-63 185-236 (266)
67 cd07377 WHTH_GntR Winged helix 41.1 19 0.00041 24.6 1.7 30 144-173 28-57 (66)
68 PRK08724 fliD flagellar cappin 40.7 1.8E+02 0.0039 30.7 9.3 56 186-241 615-670 (673)
69 PF01325 Fe_dep_repress: Iron 39.9 20 0.00044 25.4 1.7 31 144-174 25-55 (60)
70 PF13412 HTH_24: Winged helix- 39.0 24 0.00052 23.2 1.9 29 144-172 20-48 (48)
71 COG3837 Uncharacterized conser 38.1 46 0.001 28.6 3.8 52 10-64 43-96 (161)
72 PF13730 HTH_36: Helix-turn-he 36.8 28 0.00061 23.4 2.0 28 144-171 28-55 (55)
73 PRK08032 fliD flagellar cappin 35.7 2.1E+02 0.0045 28.5 8.7 18 188-205 424-441 (462)
74 COG2140 Thermophilic glucose-6 34.2 98 0.0021 27.8 5.4 30 31-60 105-136 (209)
75 PRK09943 DNA-binding transcrip 33.0 1.1E+02 0.0024 26.1 5.6 46 15-63 113-159 (185)
76 TIGR02698 CopY_TcrY copper tra 32.8 1.2E+02 0.0025 24.8 5.4 34 140-173 21-54 (130)
77 COG4101 Predicted mannose-6-ph 32.2 90 0.002 25.8 4.5 53 11-63 48-101 (142)
78 PF12802 MarR_2: MarR family; 31.1 37 0.0008 23.1 1.9 30 144-173 24-53 (62)
79 PRK11171 hypothetical protein; 30.6 1.2E+02 0.0026 27.8 5.7 50 11-63 63-114 (266)
80 PRK06664 fliD flagellar hook-a 29.7 2.9E+02 0.0063 29.1 8.9 14 29-43 390-403 (661)
81 COG1345 FliD Flagellar capping 28.4 3.4E+02 0.0075 27.4 8.8 85 134-226 368-467 (483)
82 PF01050 MannoseP_isomer: Mann 28.2 2.3E+02 0.0049 23.9 6.5 48 10-60 64-112 (151)
83 TIGR03214 ura-cupin putative a 27.9 1.7E+02 0.0036 26.8 6.1 52 9-63 179-231 (260)
84 PF00392 GntR: Bacterial regul 27.7 45 0.00098 23.3 1.9 31 144-174 27-57 (64)
85 PF01047 MarR: MarR family; I 27.2 48 0.001 22.5 1.9 30 144-173 20-49 (59)
86 smart00529 HTH_DTXR Helix-turn 26.3 1.8E+02 0.0038 21.6 5.1 31 145-175 3-33 (96)
87 PF01022 HTH_5: Bacterial regu 26.0 49 0.0011 21.8 1.7 29 144-172 18-46 (47)
88 CHL00024 psbI photosystem II p 25.5 20 0.00042 23.2 -0.3 16 256-275 17-32 (36)
89 KOG4196|consensus 25.4 4E+02 0.0087 22.2 7.5 79 128-211 22-104 (135)
90 COG3030 FxsA Protein affecting 25.4 11 0.00025 32.3 -1.9 12 254-265 82-93 (158)
91 PRK10870 transcriptional repre 24.4 2E+02 0.0043 24.6 5.6 30 144-173 74-103 (176)
92 TIGR02451 anti_sig_ChrR anti-s 24.4 1.4E+02 0.0031 26.5 4.9 47 10-63 128-174 (215)
93 PF02311 AraC_binding: AraC-li 23.9 1.3E+02 0.0028 22.8 4.1 31 27-60 21-51 (136)
94 PRK15418 transcriptional regul 23.6 39 0.00084 32.0 1.1 30 144-173 32-61 (318)
95 PF08222 HTH_CodY: CodY helix- 21.7 84 0.0018 22.6 2.2 30 144-173 7-36 (61)
96 PF13128 DUF3954: Protein of u 20.4 1.8E+02 0.004 20.2 3.6 24 29-52 9-36 (50)
97 PF11699 CENP-C_C: Mif2/CENP-C 20.1 2.3E+02 0.0049 21.6 4.5 32 29-63 33-64 (85)
No 1
>KOG0500|consensus
Probab=99.85 E-value=2.3e-20 Score=179.94 Aligned_cols=177 Identities=59% Similarity=0.905 Sum_probs=162.7
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecchhhhhccccccccccccCCCCchhhhH
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTKW 89 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~~~ 89 (280)
..+...|+|||+|++.||.+..+|||.+|++.|..+||..++..+.+|++|||.
T Consensus 329 klk~qvfSPgDyICrKGdvgkEMyIVk~G~L~Vv~dDg~t~~~~L~~G~~FGEi-------------------------- 382 (536)
T KOG0500|consen 329 KLKPQVFSPGDYICRKGDVGKEMYIVKEGKLAVVADDGVTVFVTLKAGSVFGEI-------------------------- 382 (536)
T ss_pred HhcceeeCCCCeEEecCcccceEEEEEccEEEEEecCCcEEEEEecCCceeeee--------------------------
Confidence 678899999999999999999999999999999999998889999999999999
Q ss_pred HhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHcc
Q psy15967 90 LNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDG 169 (280)
Q Consensus 90 ~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~g 169 (280)
++++..+.++|++++++++.+.+|++++++|+|+.+.|.+||.....++...-+-|.++|
T Consensus 383 --------------------sIlni~g~~~gNRRtanvrSvGYSDlfvLskdDl~~aL~eYP~a~~~L~~kgr~iL~kd~ 442 (536)
T KOG0500|consen 383 --------------------SILNIKGNKNGNRRTANVRSVGYSDLFVLSKDDLWEALSEYPDARKRLEEKGRQILHKDG 442 (536)
T ss_pred --------------------EEEEEcCcccCCcceeeeeeeccceeeEeeHHHHHHHHHhCCHHHHHHHHHHHHHhhhcc
Confidence 999999999999999999999999999999999999999999999999988888999999
Q ss_pred cchHHHhhchhhhhhhhccHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhcccch
Q psy15967 170 LLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRLALLEQGASVN 232 (280)
Q Consensus 170 li~~~~~~~~~~~~~~l~~~~~rl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~ 232 (280)
+++.+......-..+..++..+-|...+..+++|++++.+|+-+.+.+|+||+..+|......
T Consensus 443 lld~~~~~~~~~~~d~~E~~~~~Le~~~~~l~~Rl~~i~~e~~~~~~km~qr~~~le~~~~~~ 505 (536)
T KOG0500|consen 443 LLDENELGAMQDPSDDEEKRDESLENEVVLLQLRLARILDEYHSSQQKMKQRLSVLEKQLKPG 505 (536)
T ss_pred ccchhhhhhccCcccchhHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHhhhh
Confidence 999877755555556566666668999999999999999999999999999999999877665
No 2
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=99.71 E-value=3e-17 Score=146.75 Aligned_cols=162 Identities=19% Similarity=0.223 Sum_probs=133.2
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEE--cCC-cEEEEEecCCCEecchh--------------hhhccccc
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVA--DDE-ETVLATLSAGSVFGEVR--------------HVLGVDLG 72 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~--~dG-e~il~~l~~GD~fGe~~--------------~v~~i~~~ 72 (280)
.+..+.|+||++||.+||+++++|+|++|.|+++. ++| +.++.++.|||+||+.. +++.||.+
T Consensus 37 ~~~~~~~~kge~l~~~Gd~~~~ly~I~~G~vkl~~~~~~G~e~i~~~~~~Gd~fG~~~~~~~~~~~~A~~ds~v~~i~~~ 116 (230)
T PRK09391 37 VASEFSYKKGEEIYGEGEPADYVYQVESGAVRTYRLLSDGRRQIGAFHLPGDVFGLESGSTHRFTAEAIVDTTVRLIKRR 116 (230)
T ss_pred eeeeEEECCCCEEECCCCCCCeEEEEEeCEEEEEEECCCCcEEEEEEecCCceecccCCCcCCeEEEEcCceEEEEEEHH
Confidence 67889999999999999999999999999999994 457 45799999999999876 88999999
Q ss_pred cccccccCCCCchhhhHHhHHHhhc----------cchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHH
Q psy15967 73 RITSFCSKGYEIPNTKWLNLIVKAQ----------PMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRD 142 (280)
Q Consensus 73 ~l~~~~~~~~~~~~~~~~~l~~k~~----------~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~ 142 (280)
.+..++.++|.+...+++.+..++. ..+.++|++ .+|.......+. ...+.+..+
T Consensus 117 ~f~~l~~~~p~l~~~l~~~l~~~l~~~~~~~~~l~~~~~~~Rla---~~Ll~l~~~~g~---~~~i~i~lt--------- 181 (230)
T PRK09391 117 SLEQAAATDVDVARALLSLTAGGLRHAQDHMLLLGRKTAMERVA---AFLLEMDERLGG---AGMMALPMS--------- 181 (230)
T ss_pred HHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHH---HHHHHHHHHhCC---CCEEEecCC---------
Confidence 9999999999999999998885554 578999999 888644333222 112334445
Q ss_pred HHHHHhhCHHHHHHHHHHHHHHHHHcccchHHH-hhchhhhhhhhc
Q psy15967 143 LWETLADYPEARHSLMERGCQLLRKDGLLDEEA-FRNSQVEHEALK 187 (280)
Q Consensus 143 ~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~-~~~~~~~~~~l~ 187 (280)
++.||++.+++++.++|++++|+++|+|+... ..+.+.|...|.
T Consensus 182 -~~~IA~~lGisretlsR~L~~L~~~GlI~~~~~~~i~I~D~~~L~ 226 (230)
T PRK09391 182 -RRDIADYLGLTIETVSRALSQLQDRGLIGLSGARQIELRNRQALR 226 (230)
T ss_pred -HHHHHHHHCCCHHHHHHHHHHHHHCCcEEecCCceEEEcCHHHHH
Confidence 89999999999999999999999999998654 455555555554
No 3
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=99.71 E-value=5.2e-17 Score=140.92 Aligned_cols=161 Identities=14% Similarity=0.164 Sum_probs=121.9
Q ss_pred CCEEEEeCCCCEEEcCCC--cCCeEEEEeeeEEEEEE--cCCc-EEEEEecCCCEecchh----------------hhhc
Q psy15967 10 TALNFVFSPGDYICRKGD--VGKEMYIVKRGKLNVVA--DDEE-TVLATLSAGSVFGEVR----------------HVLG 68 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd--~~~~iyiIlsG~Vkv~~--~dGe-~il~~l~~GD~fGe~~----------------~v~~ 68 (280)
..+.+.|+||++||.+|| +++++|+|++|.|+++. +||+ .+++++.|||+||+.. .++.
T Consensus 5 ~~~~~~~~kg~~l~~~Gd~~~~~~~y~I~~G~vr~~~~~~~G~e~~l~~~~~Gd~~G~~~~~~~~~~~~~~A~~~~~v~~ 84 (202)
T PRK13918 5 VVDTVTYRPGAVILYPGVPGPSDMLYRVRSGLVRLHTVDDEGNALTLRYVRPGEYFGEEALAGAERAYFAEAVTDSRIDV 84 (202)
T ss_pred ccceeEecCCCEEEcCCCCCCCCeEEEEEeeEEEEEEECCCCCEEEEEEecCCCeechHHhcCCCCCceEEEcCceEEEE
Confidence 467889999999999999 77999999999999994 5674 5699999999999974 5666
Q ss_pred cccccccccccCCCCchhhhHHhHHHhhc----------cchhhhhhhcchhhhhhcccccCC-cccceEEEccccceee
Q psy15967 69 VDLGRITSFCSKGYEIPNTKWLNLIVKAQ----------PMKLRKTVLNKVSVLEIAGNRTGN-RRTANVRSLGYSDLFC 137 (280)
Q Consensus 69 i~~~~l~~~~~~~~~~~~~~~~~l~~k~~----------~~~~~~rl~~~~~lL~~~~~~~~~-~~~~~v~alt~s~l~~ 137 (280)
||.+.+ .|.+...++..+..++. ..+.++|++ .+|...+...+. ........++.+
T Consensus 85 i~~~~~------~~~~~~~l~~~l~~~~~~~~~~~~~l~~~~~~~Rla---~~Ll~l~~~~~~~~~~~~~~~~~~t---- 151 (202)
T PRK13918 85 LNPALM------SAEDNLVLTQHLVRTLARAYESIYRLVGQRLKNRIA---AALLELSDTPLATQEDSGETMIYAT---- 151 (202)
T ss_pred EEHHHc------ChhhHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHH---HHHHHHHHHhCCCCCCCCeEEecCC----
Confidence 666554 46666777766663322 778999999 887544432221 111223344555
Q ss_pred echHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhccH
Q psy15967 138 LAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDT 189 (280)
Q Consensus 138 l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~~~ 189 (280)
++.||++.+++++.++|++++|+++|+|......+.+.|...|++.
T Consensus 152 ------~~~iA~~lG~tretvsR~l~~l~~~g~I~~~~~~i~I~d~~~L~~~ 197 (202)
T PRK13918 152 ------HDELAAAVGSVRETVTKVIGELSREGYIRSGYGKIQLLDLKGLEEL 197 (202)
T ss_pred ------HHHHHHHhCccHHHHHHHHHHHHHCCCEEcCCCEEEEECHHHHHHH
Confidence 8999999999999999999999999999876666667776666543
No 4
>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=99.70 E-value=1.9e-17 Score=142.29 Aligned_cols=157 Identities=20% Similarity=0.244 Sum_probs=129.5
Q ss_pred CCEEEcCCCcCCeEEEEeeeEEEEEE--cCCcE-EEEEecCCCEecchh-------------------hhhccccccccc
Q psy15967 19 GDYICRKGDVGKEMYIVKRGKLNVVA--DDEET-VLATLSAGSVFGEVR-------------------HVLGVDLGRITS 76 (280)
Q Consensus 19 GeiI~~qGd~~~~iyiIlsG~Vkv~~--~dGe~-il~~l~~GD~fGe~~-------------------~v~~i~~~~l~~ 76 (280)
|++||.+||+++++|+|++|.|+++. +||++ ++.++.|||+||+.. +++.||...+..
T Consensus 1 g~~l~~~g~~~~~~~~i~~G~v~~~~~~~~G~e~~l~~~~~g~~~G~~~~~~~~~~~~~~~~~A~~~~~v~~i~~~~~~~ 80 (193)
T TIGR03697 1 GKTIFFPGDPAEKVYFLRRGAVKLSRVYESGEEITVALLRENSVFGVLSLITGHRSDRFYHAVAFTRVELLAVPIEQVEK 80 (193)
T ss_pred CCceecCCCCCCcEEEEEecEEEEEEeCCCCcEeeeEEccCCCEeeeeeeccCCCCccceEEEEecceEEEEeeHHHHHH
Confidence 78999999999999999999999994 55754 599999999999753 899999999999
Q ss_pred cccCCCCchhhhHHhHHHhhc----------cchhhhhhhcchhhhhhcccccCCcccce-EEEccccceeeechHHHHH
Q psy15967 77 FCSKGYEIPNTKWLNLIVKAQ----------PMKLRKTVLNKVSVLEIAGNRTGNRRTAN-VRSLGYSDLFCLAKRDLWE 145 (280)
Q Consensus 77 ~~~~~~~~~~~~~~~l~~k~~----------~~~~~~rl~~~~~lL~~~~~~~~~~~~~~-v~alt~s~l~~l~~~~~~~ 145 (280)
++.++|.+...+++.+..++. ..+.++|++ .+|...+...+.+.... .+.++.+ ++
T Consensus 81 l~~~~p~l~~~~~~~l~~~l~~~~~~~~~l~~~~~~~Rla---~~L~~l~~~~~~~~~~~~~~~~~~t----------~~ 147 (193)
T TIGR03697 81 AIEEDPDLSMLLLQGLSSRILQTEMMIETLAHRDMGSRLV---SFLLILCRDFGVPGQRGVTIDLRLS----------HQ 147 (193)
T ss_pred HHHHChHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHH---HHHHHHHHHhCCCCCCeEEecCCCC----------HH
Confidence 999999999999999885554 678899999 88765444434332222 3345666 89
Q ss_pred HHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhcc
Q psy15967 146 TLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKD 188 (280)
Q Consensus 146 lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~~ 188 (280)
.||++.+++++.++|++++|+++|+|......+.+.|.+.|.+
T Consensus 148 ~iA~~lG~tretvsR~l~~l~~~g~I~~~~~~i~I~d~~~L~~ 190 (193)
T TIGR03697 148 AIAEAIGSTRVTITRLLGDLRKKKLISIHKKKITVHDPIALGQ 190 (193)
T ss_pred HHHHHhCCcHHHHHHHHHHHHHCCCEEecCCEEEEeCHHHHHH
Confidence 9999999999999999999999999988777766777666654
No 5
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=99.68 E-value=5.7e-17 Score=144.22 Aligned_cols=163 Identities=13% Similarity=0.167 Sum_probs=132.7
Q ss_pred EEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEE--cCCc-EEEEEecCCCEecchh----------------hhhcccccc
Q psy15967 13 NFVFSPGDYICRKGDVGKEMYIVKRGKLNVVA--DDEE-TVLATLSAGSVFGEVR----------------HVLGVDLGR 73 (280)
Q Consensus 13 ~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~--~dGe-~il~~l~~GD~fGe~~----------------~v~~i~~~~ 73 (280)
.+.|+||++|+.+||+++++|+|.+|.++++. +||+ .++.++.|||+||+.. +++.||.+.
T Consensus 39 ~~~~~kge~l~~~Gd~~~~ly~v~~G~v~~~~~~~~G~e~i~~~~~~gd~~g~~~~~~~~~~~~~~a~~~~~i~~ip~~~ 118 (235)
T PRK11161 39 KKPIQKGQTLFKAGDELKSLYAIRSGTIKSYTITEQGDEQITGFHLAGDLVGFDAIGSGQHPSFAQALETSMVCEIPFET 118 (235)
T ss_pred ceeecCCCEeECCCCCcceEEEEeeceEEEEEECCCCCEEEEEeccCCceeccccccCCCCcceEEEeccEEEEEEEHHH
Confidence 46899999999999999999999999999994 4575 4699999999999764 789999999
Q ss_pred ccccccCCCCchhhhHHhHHHhhc----------cchhhhhhhcchhhhhhcccccCCcc-cceEEEccccceeeechHH
Q psy15967 74 ITSFCSKGYEIPNTKWLNLIVKAQ----------PMKLRKTVLNKVSVLEIAGNRTGNRR-TANVRSLGYSDLFCLAKRD 142 (280)
Q Consensus 74 l~~~~~~~~~~~~~~~~~l~~k~~----------~~~~~~rl~~~~~lL~~~~~~~~~~~-~~~v~alt~s~l~~l~~~~ 142 (280)
+..++.++|.+...+++.+..++. ..+.++|++ .+|.......+... ....+.++.+
T Consensus 119 f~~l~~~~p~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~Rla---~~L~~l~~~~~~~~~~~~~~~~~lt--------- 186 (235)
T PRK11161 119 LDDLSGKMPKLRQQIMRLMSGEIKGDQEMILLLSKKNAEERLA---AFIYNLSRRFAQRGFSPREFRLTMT--------- 186 (235)
T ss_pred HHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHH---HHHHHHHHHHhhcCCCCceeEcccc---------
Confidence 999999999999999998884443 678899999 88865433322211 1123344555
Q ss_pred HHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhcc
Q psy15967 143 LWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKD 188 (280)
Q Consensus 143 ~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~~ 188 (280)
++.+|++.+++++.++|++++|+++|+|+.....+.+.|..+|++
T Consensus 187 -~~~iA~~lG~sr~tvsR~l~~l~~~g~I~~~~~~i~i~d~~~L~~ 231 (235)
T PRK11161 187 -RGDIGNYLGLTVETISRLLGRFQKSGMLAVKGKYITIENNDALAQ 231 (235)
T ss_pred -HHHHHHHhCCcHHHHHHHHHHHHHCCCEEecCCEEEEcCHHHHHH
Confidence 899999999999999999999999999998877777776666654
No 6
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=99.67 E-value=7.6e-15 Score=128.00 Aligned_cols=186 Identities=17% Similarity=0.261 Sum_probs=136.0
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEE--cCC-cEEEEEecCCCEecchhhhhccccccccccccCCCCchh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVA--DDE-ETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPN 86 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~--~dG-e~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~ 86 (280)
.+..+.|+||++|+.+|++++++|+|++|.++++. .|| +.++.++.|||+||+.
T Consensus 19 ~~~~~~~~kg~~l~~~g~~~~~~y~V~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~----------------------- 75 (211)
T PRK11753 19 HCHIHKYPAKSTLIHAGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGEL----------------------- 75 (211)
T ss_pred hCeEEEeCCCCEEEeCCCCCCeEEEEEeCEEEEEEECCCCCEEEEEEcCCCCEEeeh-----------------------
Confidence 67899999999999999999999999999999994 456 4569999999999999
Q ss_pred hhHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHH
Q psy15967 87 TKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLR 166 (280)
Q Consensus 87 ~~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~ 166 (280)
.++. ...++..+++|.++|.++.+++++|.++++++|.+...++..+.+++.
T Consensus 76 -----------------------~~~~-----~~~~~~~~~~a~~~~~v~~i~~~~~~~l~~~~p~~~~~~~~~~~~~l~ 127 (211)
T PRK11753 76 -----------------------GLFE-----EGQERSAWVRAKTACEVAEISYKKFRQLIQVNPDILMALSAQMARRLQ 127 (211)
T ss_pred -----------------------hhcc-----CCCCceEEEEEcCcEEEEEEcHHHHHHHHHHCHHHHHHHHHHHHHHHH
Confidence 6764 134567789999999999999999999999999999999888888876
Q ss_pred HcccchHHHhhchhhhhhhhccHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHh--hcccchhccccccccCCC
Q psy15967 167 KDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRLALLE--QGASVNQATSSKRNSQAE 244 (280)
Q Consensus 167 ~~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e--~~~~~~~~t~~~~~~~~~ 244 (280)
.... ......+.+...|++..|..+.++++.... . ..+..+++.-| .-..++..|.|..-++++
T Consensus 128 ~~~~---------~~~~~~~~~~~~Rl~~~L~~l~~~~~~~~~----~-~~~~~~~t~~~lA~~lG~tr~tvsR~l~~l~ 193 (211)
T PRK11753 128 NTSR---------KVGDLAFLDVTGRIAQTLLDLAKQPDAMTH----P-DGMQIKITRQEIGRIVGCSREMVGRVLKMLE 193 (211)
T ss_pred HHHH---------HHHHHHhcChhhHHHHHHHHHHHhcCCcCC----C-CceecCCCHHHHHHHhCCCHHHHHHHHHHHH
Confidence 5211 122334578999999999888765532110 0 11233444444 223333444444455678
Q ss_pred CCCCCCCCCCceeeccC
Q psy15967 245 PTHPEDVRNSKCLLSPG 261 (280)
Q Consensus 245 ~~~~~~~~~~~~~~~~~ 261 (280)
.++.-... ++++.+|+
T Consensus 194 ~~gii~~~-~~~i~i~~ 209 (211)
T PRK11753 194 DQGLISAH-GKTIVVYG 209 (211)
T ss_pred HCCCEEec-CCEEEEec
Confidence 88876544 45577665
No 7
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=99.65 E-value=5.4e-15 Score=131.60 Aligned_cols=173 Identities=14% Similarity=0.106 Sum_probs=126.7
Q ss_pred cCCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEE--cCC-cEEEEEecCCCEecchhhhhccccccccccccCCCCch
Q psy15967 9 YTALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVA--DDE-ETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIP 85 (280)
Q Consensus 9 ~~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~--~dG-e~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~ 85 (280)
..+..+.|++|++|+.+||+++++|+|++|.|+++. ++| +.++.++.|||+||+.
T Consensus 29 ~~~~~~~~~kge~l~~~G~~~~~~y~V~~G~v~v~~~~~~G~e~~~~~~~~g~~~G~~---------------------- 86 (226)
T PRK10402 29 ADTELFHFLAREYIVQEGQQPSYLFYLTRGRAKLYATLANGKVSLIDFFAAPCFIGEI---------------------- 86 (226)
T ss_pred hhhhheeeCCCCEEEcCCCCCceEEEEEeCEEEEEEECCCCCEeeeeecCCCCeEEee----------------------
Confidence 357889999999999999999999999999999994 457 4569999999999999
Q ss_pred hhhHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHH
Q psy15967 86 NTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLL 165 (280)
Q Consensus 86 ~~~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL 165 (280)
+++. +.++..++.|+++|.++.+++.+|.+++.++|.+...++..+..++
T Consensus 87 ------------------------~~~~------~~~~~~~~~A~~~~~i~~i~~~~~~~ll~~~p~~~~~~~~~l~~~~ 136 (226)
T PRK10402 87 ------------------------ELID------KDHETKAVQAIEECWCLALPMKDCRPLLLNDALFLRKLCKFLSHKN 136 (226)
T ss_pred ------------------------hhhc------CCCCCccEEEeccEEEEEEEHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence 7774 6778889999999999999999999999999999999988888776
Q ss_pred HHc-ccchHHHhhchhhhhhhhccHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhcccchhccccccccCCC
Q psy15967 166 RKD-GLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSSKRNSQAE 244 (280)
Q Consensus 166 ~~~-gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~t~~~~~~~~~ 244 (280)
... ..+.. ....++..|++..|..+... + .+ .++ -..+-....++.-|-|..-++++
T Consensus 137 ~~~~~~~~~----------~~~~~~~~Rla~~L~~~~~~-~----~~-----~~t--~~~lA~~lG~sretvsR~L~~L~ 194 (226)
T PRK10402 137 YRNIVSLTQ----------NQSFPLENRLAAFILLTQEG-D----LY-----HEK--HTQAAEYLGVSYRHLLYVLAQFI 194 (226)
T ss_pred HHHHHHHHH----------hccChHHHHHHHHHHhcccC-C----cc-----cch--HHHHHHHHCCcHHHHHHHHHHHH
Confidence 431 11111 11347888999988754211 0 00 011 12222223344444444455678
Q ss_pred CCCCCCCCCCc
Q psy15967 245 PTHPEDVRNSK 255 (280)
Q Consensus 245 ~~~~~~~~~~~ 255 (280)
..|.-...+++
T Consensus 195 ~~G~I~~~~~~ 205 (226)
T PRK10402 195 QDGYLKKSKRG 205 (226)
T ss_pred HCCCEEeeCCE
Confidence 88877665543
No 8
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=99.62 E-value=2.8e-15 Score=133.56 Aligned_cols=182 Identities=16% Similarity=0.187 Sum_probs=134.3
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEE-cC-CcEEEEEecCCCEecchhhhhccccccccccccCCCCchhh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVA-DD-EETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNT 87 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~-~d-Ge~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~ 87 (280)
.++.+.|++|++|+++|++++++|+|++|.++++. .+ |+.++.++.+|++||+.
T Consensus 29 ~~~~~~~~~ge~l~~~g~~~~~~~~v~~G~v~~~~~~~~~~~~i~~~~~g~~~g~~------------------------ 84 (236)
T PRK09392 29 GAFLQRFPPGTMLITEGEPADFLFVVLDGLVELSASSQDRETTLAILRPVSTFILA------------------------ 84 (236)
T ss_pred hcceeecCCCCEEEeCCCccceEEEEEeCEEEEEEcCCCceEEEEEeCCCchhhhH------------------------
Confidence 67889999999999999999999999999999994 23 46679999999999999
Q ss_pred hHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHH
Q psy15967 88 KWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRK 167 (280)
Q Consensus 88 ~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~ 167 (280)
+++. +.++..+++|+++|.++.+++++|++++.++|.+.+.++..+..++..
T Consensus 85 ----------------------~~~~------~~~~~~~~~A~~~~~~~~i~~~~~~~l~~~~p~l~~~~~~~l~~~~~~ 136 (236)
T PRK09392 85 ----------------------AVVL------DAPYLMSARTLTRSRVLMIPAELVREAMSEDPGFMRAVVFELAGCYRG 136 (236)
T ss_pred ----------------------HHhC------CCCCceEEEEcCceEEEEEeHHHHHHHHHHCHHHHHHHHHHHHHHHHH
Confidence 8874 677888999999999999999999999999999999999888888776
Q ss_pred cccchHHHhhchhhhhhhhccHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhcccchhccccccccCCCCCC
Q psy15967 168 DGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSSKRNSQAEPTH 247 (280)
Q Consensus 168 ~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~t~~~~~~~~~~~~ 247 (280)
... ........++..|++..|..+.++.+. .....++..-..+..-..++..|.+...+.++..+
T Consensus 137 ~~~---------~~~~~~~~~~~~Rla~~Ll~~~~~~~~------~~~~~i~~t~~~iA~~lG~tretvsR~l~~L~~~g 201 (236)
T PRK09392 137 LVK---------SLKNQKLRSSAERLANYLLKQSLRQGG------ADVVTLPYEKRVLASYLGMTPENLSRAFAALASHG 201 (236)
T ss_pred HHH---------HHHHhhcCCHHHHHHHHHHHhccccCC------CcEEEeeCCHHHHHHHhCCChhHHHHHHHHHHhCC
Confidence 211 112233468999999999877665421 11111222112233334445555555556678888
Q ss_pred CCCCCCCceeecc
Q psy15967 248 PEDVRNSKCLLSP 260 (280)
Q Consensus 248 ~~~~~~~~~~~~~ 260 (280)
. .. +++.+.++
T Consensus 202 l-~~-~~~~i~I~ 212 (236)
T PRK09392 202 V-HV-DGSAVTIT 212 (236)
T ss_pred e-Ee-eCCEEEEc
Confidence 5 33 33455554
No 9
>COG0664 Crp cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
Probab=99.60 E-value=3.5e-15 Score=128.07 Aligned_cols=137 Identities=26% Similarity=0.370 Sum_probs=116.9
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEE--cCC-cEEEEEecCCCEecchhhhhccccccccccccCCCCchh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVA--DDE-ETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPN 86 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~--~dG-e~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~ 86 (280)
....+.|++|++||.+||+.+++|+|.+|.++++. ++| +.++.++.|||+||+.
T Consensus 22 ~~~~~~~~~g~~l~~~g~~~~~~y~v~~G~v~~~~~~~~G~~~~~~~~~~g~~fg~~----------------------- 78 (214)
T COG0664 22 KLEVRKLPKGEVLFTEGEEADSLYIILSGIVKLYANTEDGREIILGFLGPGDFFGEL----------------------- 78 (214)
T ss_pred hceeEeeCCCCEEEcCCCcCceEEEEEEeEEEEEEECCCCcEEEEEEecCCchhhhH-----------------------
Confidence 67889999999999999999999999999999994 557 5669999999999999
Q ss_pred hhHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHH
Q psy15967 87 TKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLR 166 (280)
Q Consensus 87 ~~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~ 166 (280)
+++. +.++..++++++++.++.+++.+|.++++++|.+...++..+..+++
T Consensus 79 -----------------------~l~~------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~p~l~~~l~~~~~~~l~ 129 (214)
T COG0664 79 -----------------------ALLG------GDPRSASAVALTDVEVLEIPRKDFLELLAESPKLALALLRLLARRLR 129 (214)
T ss_pred -----------------------HHhc------CCCccceEEEcceEEEEEecHHHHHHHHhhCcHHHHHHHHHHHHHHH
Confidence 7774 44789999999999999999999999988899999999999998888
Q ss_pred HcccchHHHhhchhhhhhhhccHHHHHHHHHHHHHHHHHHH
Q psy15967 167 KDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTRFARL 207 (280)
Q Consensus 167 ~~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~~~~~~~~~ 207 (280)
....... .....+...|++..+..+..+++..
T Consensus 130 ~~~~~~~---------~~~~~~~~~r~~~~l~~l~~~~~~~ 161 (214)
T COG0664 130 QALERLS---------LLARKDVEERLARFLLNLGRRLGIA 161 (214)
T ss_pred HHHHHHH---------HHhhccHHHHHHHHHHHHhhccCCC
Confidence 7322211 1234689999999999998887643
No 10
>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=99.48 E-value=3.2e-13 Score=101.09 Aligned_cols=87 Identities=28% Similarity=0.535 Sum_probs=79.0
Q ss_pred EEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEc--CCc-EEEEEecCCCEecchhhhhccccccccccccCCCCchhhhHH
Q psy15967 14 FVFSPGDYICRKGDVGKEMYIVKRGKLNVVAD--DEE-TVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTKWL 90 (280)
Q Consensus 14 ~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~--dGe-~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~~~~ 90 (280)
+.|+||++|+.+|++++.+|+|++|.++++.. +|+ .++..+.+|++||+.
T Consensus 2 ~~~~~g~~i~~~g~~~~~~~~i~~G~v~~~~~~~~~~~~~~~~~~~g~~~g~~--------------------------- 54 (91)
T PF00027_consen 2 KTYKKGEVIYRQGDPCDHIYIILSGEVKVSSINEDGKEQIIFFLGPGDIFGEI--------------------------- 54 (91)
T ss_dssp EEESTTEEEEETTSBESEEEEEEESEEEEEEETTTSEEEEEEEEETTEEESGH---------------------------
T ss_pred eEECCCCEEEeCCCcCCEEEEEEECceEEEeceecceeeeecceeeeccccce---------------------------
Confidence 68999999999999999999999999999953 354 469999999999999
Q ss_pred hHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHH
Q psy15967 91 NLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPE 152 (280)
Q Consensus 91 ~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~ 152 (280)
.++. +.++..+++|.++|.++.|++.+|.+++.++|+
T Consensus 55 -------------------~~~~------~~~~~~~~~a~~~~~~~~i~~~~~~~~~~~~p~ 91 (91)
T PF00027_consen 55 -------------------ELLT------GKPSPFTVIALTDSEVLRIPREDFLQLLQQDPE 91 (91)
T ss_dssp -------------------HHHH------TSBBSSEEEESSSEEEEEEEHHHHHHHHHHSHH
T ss_pred -------------------eecC------CCccEEEEEEccCEEEEEEeHHHHHHHHHhCcC
Confidence 7775 568899999999999999999999999999985
No 11
>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=99.31 E-value=1.6e-11 Score=94.20 Aligned_cols=96 Identities=34% Similarity=0.610 Sum_probs=85.0
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEE--cCC-cEEEEEecCCCEecchhhhhccccccccccccCCCCchh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVA--DDE-ETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPN 86 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~--~dG-e~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~ 86 (280)
.++.+.|.+|++|+.+|++.+++|+|.+|.++++. ++| +.++..+.+|++||..
T Consensus 16 ~~~~~~~~~g~~l~~~~~~~~~~~~i~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~----------------------- 72 (115)
T cd00038 16 ALEERRFPAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGREQIVGFLGPGDLFGEL----------------------- 72 (115)
T ss_pred hceeeeeCCCCEEEcCCCCCCeEEEEEeCEEEEEEECCCCcEEEEEecCCccCcChH-----------------------
Confidence 57889999999999999999999999999999994 345 4569999999999999
Q ss_pred hhHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHH
Q psy15967 87 TKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSL 157 (280)
Q Consensus 87 ~~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~ 157 (280)
.++. +.++..++.+.+.|.++.++.++|.++++++|.+...+
T Consensus 73 -----------------------~~~~------~~~~~~~~~a~~~~~~~~i~~~~~~~~~~~~~~~~~~~ 114 (115)
T cd00038 73 -----------------------ALLG------NGPRSATVRALTDSELLVLPRSDFRRLLQEYPELARRL 114 (115)
T ss_pred -----------------------HHhc------CCCCCceEEEcCceEEEEEeHHHHHHHHHHCcHhHHhc
Confidence 6663 56778889999999999999999999999999887654
No 12
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=99.24 E-value=6.7e-11 Score=123.81 Aligned_cols=109 Identities=22% Similarity=0.328 Sum_probs=98.8
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEcC-C-cEEEEEecCCCEecchhhhhccccccccccccCCCCchhh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADD-E-ETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNT 87 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~d-G-e~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~ 87 (280)
.++.+.|+|||+|+.+||.++.+|||.+|.|+++..+ | +.++..+.+||+|||.
T Consensus 396 ~~~~~~~~pge~I~~qge~~~~lY~I~~G~V~i~~~~~~~e~~l~~l~~Gd~FGE~------------------------ 451 (823)
T PLN03192 396 KMKAEYIPPREDVIMQNEAPDDVYIVVSGEVEIIDSEGEKERVVGTLGCGDIFGEV------------------------ 451 (823)
T ss_pred hhheeeeCCCCEEEECCCCCceEEEEEecEEEEEEecCCcceeeEEccCCCEecch------------------------
Confidence 6788899999999999999999999999999999533 4 5679999999999999
Q ss_pred hHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHH
Q psy15967 88 KWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRK 167 (280)
Q Consensus 88 ~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~ 167 (280)
+++. +.++..++++.+.|+++.|++++|.+.+..+|.....++..+.+++++
T Consensus 452 ----------------------~~l~------~~p~~~t~ra~~~s~ll~l~~~~f~~ll~~~p~d~~~i~~~~l~~~~~ 503 (823)
T PLN03192 452 ----------------------GALC------CRPQSFTFRTKTLSQLLRLKTSTLIEAMQTRQEDNVVILKNFLQHHKE 503 (823)
T ss_pred ----------------------HHhc------CCCCCCeEEEcccEEEEEEEHHHHHHHHHHhhHHHHHHHHHHHHHhhh
Confidence 8884 788899999999999999999999999999999999999999988876
Q ss_pred ccc
Q psy15967 168 DGL 170 (280)
Q Consensus 168 ~gl 170 (280)
.+.
T Consensus 504 l~~ 506 (823)
T PLN03192 504 LHD 506 (823)
T ss_pred hcc
Confidence 443
No 13
>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=99.22 E-value=1.8e-10 Score=88.49 Aligned_cols=100 Identities=28% Similarity=0.489 Sum_probs=83.9
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEc--CC-cEEEEEecCCCEecchhhhhccccccccccccCCCCchh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVAD--DE-ETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPN 86 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~--dG-e~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~ 86 (280)
.++.+.|++|++|+.+|++++++|+|.+|.++++.. +| +.++..+.+|++||+.
T Consensus 16 ~~~~~~~~~g~~l~~~g~~~~~~y~v~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~----------------------- 72 (120)
T smart00100 16 ALEPVRYPAGEVIIRQGDVGDSFYIILSGEVRVYKVLEDGREQILGILGPGDFFGEL----------------------- 72 (120)
T ss_pred hceEEEeCCCCEEEeCCCcCCcEEEEEeeEEEEEEECCCCceEEEEeecCCceechh-----------------------
Confidence 567899999999999999999999999999999954 45 4569999999999999
Q ss_pred hhHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHH
Q psy15967 87 TKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLME 159 (280)
Q Consensus 87 ~~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~ls 159 (280)
.++.. ...+...++.+.+++.++.++.+++.+.+.+++.+....+.
T Consensus 73 -----------------------~~~~~----~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~ 118 (120)
T smart00100 73 -----------------------ALLTN----SRRAASATAVALELATLLRIDFRDFLQLLQENPQLLLELLL 118 (120)
T ss_pred -----------------------hhccC----CCcccceEEEEEeeEEEEccCHHHHHHHHHHhHHHHHHHHh
Confidence 65520 13456778889999999999999999999988887666543
No 14
>KOG0498|consensus
Probab=99.18 E-value=6.7e-11 Score=121.14 Aligned_cols=107 Identities=33% Similarity=0.517 Sum_probs=92.3
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEcC--CcEEEEEecCCCEec-chhhhhccccccccccccCCCCchh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADD--EETVLATLSAGSVFG-EVRHVLGVDLGRITSFCSKGYEIPN 86 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~d--Ge~il~~l~~GD~fG-e~~~v~~i~~~~l~~~~~~~~~~~~ 86 (280)
.++...|+||++|++|||+.+.+|||.+|.+++...+ |+.+...++|||+|| |.
T Consensus 441 rlk~~~f~pge~iireGd~v~~myFI~rG~le~~~~~~g~~~~~~~L~~Gd~~GeEl----------------------- 497 (727)
T KOG0498|consen 441 RLKPEYFTPGEYIIREGDPVTDMYFIVRGSLESITTDGGGFFVVAILGPGDFFGEEL----------------------- 497 (727)
T ss_pred HhhhhccCCCCeEEecCCccceeEEEEeeeEEEEEccCCceEEEEEecCCCccchHH-----------------------
Confidence 7888999999999999999999999999999999644 477899999999999 55
Q ss_pred hhHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHH---HHHH
Q psy15967 87 TKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLME---RGCQ 163 (280)
Q Consensus 87 ~~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~ls---r~~~ 163 (280)
..+. ...+.+.+|+|++.|++++|+++||...+..|+.+.+..++ +..+
T Consensus 498 -----------------------~~~~-----~~~p~t~TVralt~~el~~L~~~dL~~V~~~f~~~~~~~l~~~~r~~s 549 (727)
T KOG0498|consen 498 -----------------------LTWC-----LDLPQTRTVRALTYCELFRLSADDLKEVLQQFRRLGSKFLQHTFRYYS 549 (727)
T ss_pred -----------------------HHHH-----hcCCCCceeehhhhhhHHhccHHHHHHHHHHhHHHHHHHHHhHHHHhh
Confidence 4443 11456899999999999999999999999999999999998 5555
Q ss_pred HHHH
Q psy15967 164 LLRK 167 (280)
Q Consensus 164 rL~~ 167 (280)
...+
T Consensus 550 ~~~r 553 (727)
T KOG0498|consen 550 HLWR 553 (727)
T ss_pred hhhh
Confidence 5544
No 15
>COG2905 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]
Probab=99.15 E-value=3.6e-10 Score=111.67 Aligned_cols=105 Identities=22% Similarity=0.319 Sum_probs=95.5
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecchhhhhccccccccccccCCCCchhhhH
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTKW 89 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~~~ 89 (280)
.+.+++|.||++|...|.+.+++|+|.+|.|+++.++|+ +++.+..||+||..
T Consensus 29 ~l~v~yy~kge~ii~~~~p~~~l~vi~kG~vev~~~~g~-v~~~~~~gdlFg~~-------------------------- 81 (610)
T COG2905 29 ALEVKYYRKGEIIIYAGSPVHYLYVIRKGVVEVRSDGGE-VLDRLAAGDLFGFS-------------------------- 81 (610)
T ss_pred hhccccccCCCeeecCCCCcceeEEEEeceeeEEcCCCe-eeeeeccCccccch--------------------------
Confidence 678999999999999999999999999999999998887 89999999999999
Q ss_pred HhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHH
Q psy15967 90 LNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRK 167 (280)
Q Consensus 90 ~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~ 167 (280)
+++. +........+.++|.++.||++.|.++..++|.+++.+.....+|+++
T Consensus 82 --------------------~l~~------~~~~~~~~~aeedsl~y~lp~s~F~ql~~~n~~f~~ff~~~~akR~~~ 133 (610)
T COG2905 82 --------------------SLFT------ELNKQRYMAAEEDSLCYLLPKSVFMQLMEENPEFADFFLRSLAKRLRD 133 (610)
T ss_pred --------------------hhcc------cCCCcceeEeeccceEEecCHHHHHHHHHhCcHHHHHHHHHHHHHHHH
Confidence 8885 444555677888999999999999999999999999999888888874
No 16
>KOG0499|consensus
Probab=99.09 E-value=9.3e-10 Score=109.01 Aligned_cols=112 Identities=46% Similarity=0.857 Sum_probs=100.7
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEE-EcCCcEEEEEecCCCEecchhhhhccccccccccccCCCCchhhh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVV-ADDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTK 88 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~-~~dGe~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~~ 88 (280)
..+.+.|-|||+|+..||.+..||||..|.|.|. .+||+.|+..+.+|.+|||+
T Consensus 549 rLRsV~yLPgDfVCkKGeiGkEMYIIk~GqvQVlGGp~~~~Vl~tL~~GsVFGEI------------------------- 603 (815)
T KOG0499|consen 549 RLRSVLYLPGDFVCKKGEIGKEMYIIKHGQVQVLGGPDGTKVLVTLKAGSVFGEI------------------------- 603 (815)
T ss_pred HhhceeecCCceeeecccccceeEEeecceEEEecCCCCCEEEEEecccceeeee-------------------------
Confidence 4677899999999999999999999999999999 57899999999999999999
Q ss_pred HHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHc
Q psy15967 89 WLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKD 168 (280)
Q Consensus 89 ~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~ 168 (280)
++|... +++++++++++-..|.|+.++|.|+.++|..||...+-+.+++...|++.
T Consensus 604 ---------------------SLLaig---G~nRRTAnV~a~Gf~nLfvL~KkdLneil~~YP~sq~iLrkkAr~llk~n 659 (815)
T KOG0499|consen 604 ---------------------SLLAIG---GGNRRTANVVAHGFANLFVLDKKDLNEILVHYPDSQRILRKKARVLLKQN 659 (815)
T ss_pred ---------------------eeeeec---CCCccchhhhhcccceeeEecHhHHHHHHHhCccHHHHHHHHHHHHHHhc
Confidence 777532 35789999999999999999999999999999999998888888878774
Q ss_pred cc
Q psy15967 169 GL 170 (280)
Q Consensus 169 gl 170 (280)
..
T Consensus 660 ak 661 (815)
T KOG0499|consen 660 AK 661 (815)
T ss_pred cc
Confidence 43
No 17
>PLN02868 acyl-CoA thioesterase family protein
Probab=98.92 E-value=5.2e-09 Score=101.63 Aligned_cols=90 Identities=19% Similarity=0.308 Sum_probs=78.0
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEE--cCCcEEEEEecCCCEecchhhhhccccccccccccCCCCchhh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVA--DDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNT 87 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~--~dGe~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~ 87 (280)
.++.+.|++|++||++||.++++|+|++|.|+++. .+|+.++..+.+||+||+
T Consensus 30 ~~~~~~~~~Ge~I~~~Gd~~~~lyiI~~G~V~v~~~~~~ge~~l~~l~~Gd~fG~------------------------- 84 (413)
T PLN02868 30 VVVPKRYGKGEYVVREGEPGDGLYFIWKGEAEVSGPAEEESRPEFLLKRYDYFGY------------------------- 84 (413)
T ss_pred hceEEEECCCCEEEeCCCcCceEEEEEeCEEEEEEECCCCcEEEEEeCCCCEeeh-------------------------
Confidence 67899999999999999999999999999999995 446677999999999995
Q ss_pred hHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHH
Q psy15967 88 KWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEA 153 (280)
Q Consensus 88 ~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~ 153 (280)
. + .+.++..++++.++|.++.|++++|+.....++-.
T Consensus 85 ----------------------~-l------~~~~~~~~~~A~~d~~v~~ip~~~~~~~~~~~~~~ 121 (413)
T PLN02868 85 ----------------------G-L------SGSVHSADVVAVSELTCLVLPHEHCHLLSPKSIWD 121 (413)
T ss_pred ----------------------h-h------CCCCcccEEEECCCEEEEEEcHHHHhhhccccccc
Confidence 4 2 25678889999999999999999998877666543
No 18
>KOG0501|consensus
Probab=98.48 E-value=1.3e-07 Score=93.98 Aligned_cols=98 Identities=32% Similarity=0.535 Sum_probs=83.1
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecchhhhhccccccccccccCCCCchhhhH
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTKW 89 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~~~ 89 (280)
.+...+..||+.||+.|+..+.++||++|.++|..+| +++++++.||+||..+ |
T Consensus 570 ~f~~~H~APGDLlYHtGESvDaLcFvVsGSLEVIQDD--EVVAILGKGDVFGD~F------------------------W 623 (971)
T KOG0501|consen 570 EFQTNHCAPGDLLYHTGESVDALCFVVSGSLEVIQDD--EVVAILGKGDVFGDEF------------------------W 623 (971)
T ss_pred HHHhccCCCcceeeecCCccceEEEEEecceEEeecC--cEEEEeecCccchhHH------------------------h
Confidence 4566788999999999999999999999999999877 7899999999999983 2
Q ss_pred HhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHH
Q psy15967 90 LNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLME 159 (280)
Q Consensus 90 ~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~ls 159 (280)
.. +-+ ....++++|+++|++..|.++.+.+.|.=|..++..+.+
T Consensus 624 K~------------------~t~--------~qs~ANVRALTYcDLH~IKrd~Ll~VLdFYtAFanSFaR 667 (971)
T KOG0501|consen 624 KE------------------NTL--------GQSAANVRALTYCDLHMIKRDKLLKVLDFYTAFANSFAR 667 (971)
T ss_pred hh------------------hhh--------hhhhhhhhhhhhhhhhHHhHHHHHHHHHHHHHHHHHhhh
Confidence 22 222 346789999999999999999999999888888776654
No 19
>KOG0614|consensus
Probab=98.44 E-value=7.5e-07 Score=87.97 Aligned_cols=86 Identities=28% Similarity=0.551 Sum_probs=78.0
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecchhhhhccccccccccccCCCCchhhhH
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTKW 89 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~~~ 89 (280)
.|..+.|.+|.+|+++||+++.+|++-+|.+.|...+ .++..+++|..|||.
T Consensus 176 ~Myp~~~~~gs~IIrege~Gs~~yV~aeG~~~V~~~g--~ll~~m~~gtvFGEL-------------------------- 227 (732)
T KOG0614|consen 176 CMYPVEYRAGSWIIREGEPGSHLYVSAEGELQVSREG--KLLGKMGAGTVFGEL-------------------------- 227 (732)
T ss_pred hhCcccccCCcEEEecCCCCceEEEeecceEEEeeCC--eeeeccCCchhhhHH--------------------------
Confidence 6788999999999999999999999999999998865 689999999999999
Q ss_pred HhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhh
Q psy15967 90 LNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLAD 149 (280)
Q Consensus 90 ~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~ 149 (280)
++|. +..+++++.+++++.+|.|+++.|+.++..
T Consensus 228 --------------------AILy------nctRtAsV~alt~~~lWaidR~vFq~IM~~ 261 (732)
T KOG0614|consen 228 --------------------AILY------NCTRTASVRALTDVRLWAIDREVFQAIMMR 261 (732)
T ss_pred --------------------HHHh------CCcchhhhhhhhhhhHHHHHHHHHHHHHHH
Confidence 7774 678999999999999999999999877644
No 20
>KOG1113|consensus
Probab=98.38 E-value=4.9e-07 Score=85.27 Aligned_cols=95 Identities=20% Similarity=0.427 Sum_probs=82.3
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecchhhhhccccccccccccCCCCchhhhH
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTKW 89 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~~~ 89 (280)
.+..+.++.|+.|+.||+.++.+|+|-+|.+.||..+ ..+..+.||..|||.
T Consensus 144 am~~~~v~~G~~Vi~qGdeGd~fYvI~kGt~dVyv~~--~~v~~~~~g~sFGEl-------------------------- 195 (368)
T KOG1113|consen 144 AMFEKRVKAGETVIKQGDEGDNFYVIDKGTFDVYVNG--TYVTTYSPGGSFGEL-------------------------- 195 (368)
T ss_pred hhceeeecCCcEEEecCCcCCcEEEEecceEEEEECC--eEEeeeCCCCchhhh--------------------------
Confidence 5788899999999999999999999999999999764 468889999999999
Q ss_pred HhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHH
Q psy15967 90 LNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLM 158 (280)
Q Consensus 90 ~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~l 158 (280)
+++. +.++.+++++.+++.+|.+.+..|+..+-.+-...+.+.
T Consensus 196 --------------------ALmy------n~PRaATv~a~t~~klWgldr~SFrrIi~~s~~kkrkMy 238 (368)
T KOG1113|consen 196 --------------------ALMY------NPPRAATVVAKSLKKLWGLDRTSFRRIIMKSCIKKRKMY 238 (368)
T ss_pred --------------------Hhhh------CCCcccceeeccccceEEEeeceeEEEeeccchhhhhhh
Confidence 7874 789999999999999999998888877766555555443
No 21
>KOG2968|consensus
Probab=98.22 E-value=2.2e-06 Score=88.75 Aligned_cols=104 Identities=22% Similarity=0.359 Sum_probs=93.0
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEE--EcCCc-EEEEEecCCCEecchhhhhccccccccccccCCCCchh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVV--ADDEE-TVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPN 86 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~--~~dGe-~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~ 86 (280)
......+.+|+.+|++||..+.+|+|++|+++.. ..+|+ .++..++.||.+|+.
T Consensus 507 AldWv~l~~g~alyrqgD~Sd~iyvVl~GRlRsv~~~~~~k~~i~~EygrGd~iG~~----------------------- 563 (1158)
T KOG2968|consen 507 ALDWVRLEPGQALYRQGDSSDSIYVVLNGRLRSVIRQSGGKKEIVGEYGRGDLIGEV----------------------- 563 (1158)
T ss_pred hcceEEeccccHHHhcCCccCcEEEEecCeehhhhhccCccchhhhhccCcceeehh-----------------------
Confidence 5678899999999999999999999999999987 34464 479999999999999
Q ss_pred hhHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHH
Q psy15967 87 TKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLL 165 (280)
Q Consensus 87 ~~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL 165 (280)
..+. +.++..++.|+-++++.+||..-|..+..+||.+...+.+.+.+++
T Consensus 564 -----------------------E~lt------~~~R~tTv~AvRdSelariPe~l~~~ik~ryP~v~~rl~~ll~~~~ 613 (1158)
T KOG2968|consen 564 -----------------------EMLT------KQPRATTVMAVRDSELARIPEGLLNFIKLRYPQVVTRLIKLLAEKI 613 (1158)
T ss_pred -----------------------HHhh------cCCccceEEEEeehhhhhccHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence 6663 7888889999999999999999999999999999988888888777
No 22
>KOG0614|consensus
Probab=98.13 E-value=1.1e-06 Score=86.82 Aligned_cols=93 Identities=27% Similarity=0.499 Sum_probs=78.9
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEcC---C-cEEEEEecCCCEecchhhhhccccccccccccCCCCch
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADD---E-ETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIP 85 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~d---G-e~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~ 85 (280)
.+....|..|++|+++|+.++.+|+|.+|.|++...+ + ++.+..+..||+|||.
T Consensus 294 ~le~~~Yd~g~yIirqge~G~~ffii~~G~V~vtq~~e~~~q~~~lr~l~kGd~FGE~---------------------- 351 (732)
T KOG0614|consen 294 VLEEEYYDAGEYIIRQGEKGDTFFIISKGTVKVTQQDEGSTQPQELRTLNKGDYFGER---------------------- 351 (732)
T ss_pred HHHHHhhcCCceEEeecCCCCeEEEEecceEEEeecCCCCCchhHHhhccccchhhHH----------------------
Confidence 4667789999999999999999999999999999543 2 4469999999999999
Q ss_pred hhhHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccc-cceeeechHHHHHHHhhCHHHH
Q psy15967 86 NTKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGY-SDLFCLAKRDLWETLADYPEAR 154 (280)
Q Consensus 86 ~~~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~-s~l~~l~~~~~~~lLa~~~~~~ 154 (280)
.++. ...+++++++... +.++.|+++.|.+++.+.-.+.
T Consensus 352 ------------------------al~~------edvRtAniia~~~gv~cl~lDresF~~liG~l~~l~ 391 (732)
T KOG0614|consen 352 ------------------------ALLG------EDVRTANIIAQAPGVECLTLDRESFKKLIGDLEELK 391 (732)
T ss_pred ------------------------Hhhc------cCccchhhhccCCCceEEEecHHHHHHhcccHHHhh
Confidence 7884 6778899999877 8889999999988877655554
No 23
>KOG1113|consensus
Probab=97.93 E-value=2e-05 Score=74.61 Aligned_cols=86 Identities=26% Similarity=0.411 Sum_probs=74.2
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEE-EcCCcEEEEEecCCCEecchhhhhccccccccccccCCCCchhhh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVV-ADDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTK 88 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~-~~dGe~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~~ 88 (280)
....+.|++|+.|..+|+.++.+|+|.+|.+.+. ..+| .++ .+.+||+||+.
T Consensus 262 al~~k~y~~G~~Vi~qg~~ge~f~~i~eGEvdv~~~~~~-v~v-kl~~~dyfge~------------------------- 314 (368)
T KOG1113|consen 262 ALGTKSYKDGERVIVQGDQGEHFYIIEEGEVDVLKKRDG-VEV-KLKKGDYFGEL------------------------- 314 (368)
T ss_pred ccceeeccCCceEEeccCCcceEEEecccccchhhccCC-eEE-EechhhhcchH-------------------------
Confidence 5678899999999999999999999999999998 3445 335 99999999999
Q ss_pred HHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhh
Q psy15967 89 WLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLAD 149 (280)
Q Consensus 89 ~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~ 149 (280)
.++. ..++.+++.+.+...+..+.+..|+.++.-
T Consensus 315 ---------------------al~~------~~pr~Atv~a~~~~kc~~~dk~~ferllgp 348 (368)
T KOG1113|consen 315 ---------------------ALLK------NLPRAATVVAKGRLKCAKLDKPRFERLLGP 348 (368)
T ss_pred ---------------------HHHh------hchhhceeeccCCceeeeeChHHHHHHhhH
Confidence 7774 688899999999999999998888777654
No 24
>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=97.71 E-value=2.6e-05 Score=66.77 Aligned_cols=116 Identities=11% Similarity=0.095 Sum_probs=81.3
Q ss_pred cceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhccHHHHHHHHHHHHHHH
Q psy15967 124 TANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTR 203 (280)
Q Consensus 124 ~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~~~~~ 203 (280)
..+++|+++|.++.+++++|+++++++|.+.+.++..+..++..... ........++..|++..|..+.++
T Consensus 59 ~~~~~A~~~~~v~~i~~~~~~~l~~~~p~l~~~~~~~l~~~l~~~~~---------~~~~l~~~~~~~Rla~~L~~l~~~ 129 (193)
T TIGR03697 59 FYHAVAFTRVELLAVPIEQVEKAIEEDPDLSMLLLQGLSSRILQTEM---------MIETLAHRDMGSRLVSFLLILCRD 129 (193)
T ss_pred ceEEEEecceEEEEeeHHHHHHHHHHChHHHHHHHHHHHHHHHHHHH---------HHHHHHhCCHHHHHHHHHHHHHHH
Confidence 46789999999999999999999999999999999998888876221 112233468999999999988877
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHhhcccchhcccccccc----CCCCCCCCCCCCC
Q psy15967 204 FARLMAEYLSQQAKMKQRLALLEQGASVNQATSSKRNS----QAEPTHPEDVRNS 254 (280)
Q Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~t~~~~~~----~~~~~~~~~~~~~ 254 (280)
++....+ ...+..+++.-| .+..-|++++++| +++..|.-....+
T Consensus 130 ~~~~~~~----~~~~~~~~t~~~--iA~~lG~tretvsR~l~~l~~~g~I~~~~~ 178 (193)
T TIGR03697 130 FGVPGQR----GVTIDLRLSHQA--IAEAIGSTRVTITRLLGDLRKKKLISIHKK 178 (193)
T ss_pred hCCCCCC----eEEecCCCCHHH--HHHHhCCcHHHHHHHHHHHHHCCCEEecCC
Confidence 7532211 112334455555 4444556666554 5677776665543
No 25
>KOG2968|consensus
Probab=97.67 E-value=0.00017 Score=75.26 Aligned_cols=115 Identities=21% Similarity=0.330 Sum_probs=93.0
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEE--EcCC-cEEEEEecCCCEecchhhhhccccccccccccCCCCchh
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVV--ADDE-ETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPN 86 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~--~~dG-e~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~ 86 (280)
++....+..|++||..|++.+.+|++.+|.++|+ ..+| +.++..+.||+.|-...
T Consensus 114 h~~t~~l~~Gd~i~~~~~~dd~i~vv~sg~l~v~~~~~~g~~~llk~V~~G~~~tSll---------------------- 171 (1158)
T KOG2968|consen 114 HIETLSLDAGDYIFKPGESDDSIYVVISGELTVHIRNGDGKEYLLKTVPPGGSFTSLL---------------------- 171 (1158)
T ss_pred hhhhhcccCCceeccCCCCCceEEEEeccceEEEecCCCCceeeEeeccCCCchHhHH----------------------
Confidence 6777889999999999999999999999999999 3556 45799999998875553
Q ss_pred hhHHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHH
Q psy15967 87 TKWLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLR 166 (280)
Q Consensus 87 ~~~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~ 166 (280)
++|+.....-.......+.|.++|.+..+|...|++...++|.....++..+..||+
T Consensus 172 -----------------------SiLd~l~~~ps~~~~i~akA~t~~tv~~~p~~sF~~~~~k~P~s~iriiQvvmTRLq 228 (1158)
T KOG2968|consen 172 -----------------------SILDSLPGFPSLSRTIAAKAATDCTVARIPYTSFRESFHKNPESSIRIIQVVMTRLQ 228 (1158)
T ss_pred -----------------------HHHHhccCCCcccceeeeeeecCceEEEeccchhhhhhccChHHHHHHHHHHHHHHH
Confidence 444322111122344578899999999999999999999999999999999999998
Q ss_pred Hcc
Q psy15967 167 KDG 169 (280)
Q Consensus 167 ~~g 169 (280)
..-
T Consensus 229 ~vT 231 (1158)
T KOG2968|consen 229 RVT 231 (1158)
T ss_pred Hhh
Confidence 633
No 26
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=97.46 E-value=3.7e-05 Score=66.83 Aligned_cols=100 Identities=8% Similarity=0.103 Sum_probs=75.3
Q ss_pred hhhccccccccccccCCCCchhhhHHhHHHhhc----------cchhhhhhhcchhhhhhcccccCCcccceEEEccccc
Q psy15967 65 HVLGVDLGRITSFCSKGYEIPNTKWLNLIVKAQ----------PMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSD 134 (280)
Q Consensus 65 ~v~~i~~~~l~~~~~~~~~~~~~~~~~l~~k~~----------~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~ 134 (280)
+++.||.+++..++..+|.+...+++.+.+++. ..+.++|++ .+|...+...+.........++.+
T Consensus 95 ~v~~i~~~~~~~l~~~~p~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~Rl~---~~L~~l~~~~~~~~~~~~~~~~~t- 170 (211)
T PRK11753 95 EVAEISYKKFRQLIQVNPDILMALSAQMARRLQNTSRKVGDLAFLDVTGRIA---QTLLDLAKQPDAMTHPDGMQIKIT- 170 (211)
T ss_pred EEEEEcHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHhcChhhHHH---HHHHHHHHhcCCcCCCCceecCCC-
Confidence 789999999999999999999998888875543 778889998 776533322221111111223334
Q ss_pred eeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhh
Q psy15967 135 LFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFR 177 (280)
Q Consensus 135 l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~ 177 (280)
++.||++.++++..++|++++|+++|+|......
T Consensus 171 ---------~~~lA~~lG~tr~tvsR~l~~l~~~gii~~~~~~ 204 (211)
T PRK11753 171 ---------RQEIGRIVGCSREMVGRVLKMLEDQGLISAHGKT 204 (211)
T ss_pred ---------HHHHHHHhCCCHHHHHHHHHHHHHCCCEEecCCE
Confidence 8999999999999999999999999999765543
No 27
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=97.36 E-value=6.5e-05 Score=66.76 Aligned_cols=104 Identities=10% Similarity=0.017 Sum_probs=81.6
Q ss_pred hhhccccccccccccCCCCchhhhHHhHHHhhc----------cchhhhhhhcchhhhhhcccccCCcccceEEEccccc
Q psy15967 65 HVLGVDLGRITSFCSKGYEIPNTKWLNLIVKAQ----------PMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSD 134 (280)
Q Consensus 65 ~v~~i~~~~l~~~~~~~~~~~~~~~~~l~~k~~----------~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~ 134 (280)
+++.||.+.+..++..+|.+...+++.+..++. ..++++|++ .+|.... .. . ...
T Consensus 105 ~i~~i~~~~~~~ll~~~p~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~Rla---~~L~~~~---~~----~--~~~--- 169 (226)
T PRK10402 105 WCLALPMKDCRPLLLNDALFLRKLCKFLSHKNYRNIVSLTQNQSFPLENRLA---AFILLTQ---EG----D--LYH--- 169 (226)
T ss_pred EEEEEEHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHhccChHHHHHH---HHHHhcc---cC----C--ccc---
Confidence 889999999999999999999999998886643 447899999 8885211 11 0 011
Q ss_pred eeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhccHH
Q psy15967 135 LFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTV 190 (280)
Q Consensus 135 l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~~~~ 190 (280)
++ ++.+|++.+++++.++|++++|+++|+|......+.+.|..+|....
T Consensus 170 ---~t----~~~lA~~lG~sretvsR~L~~L~~~G~I~~~~~~i~I~d~~~L~~~~ 218 (226)
T PRK10402 170 ---EK----HTQAAEYLGVSYRHLLYVLAQFIQDGYLKKSKRGYLIKNRKQLSGLA 218 (226)
T ss_pred ---ch----HHHHHHHHCCcHHHHHHHHHHHHHCCCEEeeCCEEEEeCHHHHHHHH
Confidence 22 78999999999999999999999999998877766677766665443
No 28
>PRK11832 putative DNA-binding transcriptional regulator; Provisional
Probab=97.10 E-value=0.022 Score=50.91 Aligned_cols=89 Identities=11% Similarity=0.188 Sum_probs=71.1
Q ss_pred CCEEEEeCCCCEE-EcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecchhhhhccccccccccccCCCCchhhh
Q psy15967 10 TALNFVFSPGDYI-CRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTK 88 (280)
Q Consensus 10 ~~~~~~f~kGeiI-~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~~ 88 (280)
.+..+.+++|..+ +........+++|++|.+.+...|| .++....+.-+||..
T Consensus 21 ~g~~~~~~~~~~~i~~~~~~~~~~~ll~~G~vsirr~d~-ll~~t~~aP~IlGl~------------------------- 74 (207)
T PRK11832 21 YGTRFEFNNEKQVIFSSDVNNEDTFVILEGVISLRREEN-VLIGITQAPYIMGLA------------------------- 74 (207)
T ss_pred cCCeEecCCCcEEeccccCCCceEEEEEeceEEEEecCC-eEEEeccCCeEeecc-------------------------
Confidence 6788899999997 6555555789999999999976665 568888999999998
Q ss_pred HHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCH
Q psy15967 89 WLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYP 151 (280)
Q Consensus 89 ~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~ 151 (280)
..+. ........++.++|.++.++.++|.+.++++.
T Consensus 75 ---------------------~~~~------~~~~~~~l~ae~~c~~~~i~~~~~~~iie~~~ 110 (207)
T PRK11832 75 ---------------------DGLM------KNDIPYKLISEGNCTGYHLPAKQTITLIEQNQ 110 (207)
T ss_pred ---------------------cccC------CCCceEEEEEcCccEEEEeeHHHHHHHHHHhc
Confidence 3332 23334578899999999999999999998765
No 29
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=97.10 E-value=0.00019 Score=63.73 Aligned_cols=106 Identities=17% Similarity=0.126 Sum_probs=79.8
Q ss_pred hhhccccccccccccCCCCchhhhHHhHHHhhc----------cchhhhhhhcchhhhhhcccccCCcccceEEEccccc
Q psy15967 65 HVLGVDLGRITSFCSKGYEIPNTKWLNLIVKAQ----------PMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSD 134 (280)
Q Consensus 65 ~v~~i~~~~l~~~~~~~~~~~~~~~~~l~~k~~----------~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~ 134 (280)
+++.||.+.+..++.++|.+...+++.+..++. ..+.++|++ .++...+...+ ......++.+
T Consensus 103 ~~~~i~~~~~~~l~~~~p~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~Rla---~~Ll~~~~~~~---~~~~~~i~~t- 175 (236)
T PRK09392 103 RVLMIPAELVREAMSEDPGFMRAVVFELAGCYRGLVKSLKNQKLRSSAERLA---NYLLKQSLRQG---GADVVTLPYE- 175 (236)
T ss_pred EEEEEeHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHH---HHHHHhccccC---CCcEEEeeCC-
Confidence 788999999999999999999999888874433 778999999 88764332221 1123445555
Q ss_pred eeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhc
Q psy15967 135 LFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALK 187 (280)
Q Consensus 135 l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~ 187 (280)
++.+|++.+++++.++|++++|++.|+ ......+.+.|...|+
T Consensus 176 ---------~~~iA~~lG~tretvsR~l~~L~~~gl-~~~~~~i~I~d~~~L~ 218 (236)
T PRK09392 176 ---------KRVLASYLGMTPENLSRAFAALASHGV-HVDGSAVTITDPAGLA 218 (236)
T ss_pred ---------HHHHHHHhCCChhHHHHHHHHHHhCCe-EeeCCEEEEcCHHHHH
Confidence 789999999999999999999999996 4434444455555554
No 30
>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=97.08 E-value=0.017 Score=49.06 Aligned_cols=104 Identities=11% Similarity=0.118 Sum_probs=80.9
Q ss_pred CCEEEEeCCCCEEEcCCC-cCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecchhhhhccccccccccccCCCCchhhh
Q psy15967 10 TALNFVFSPGDYICRKGD-VGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVRHVLGVDLGRITSFCSKGYEIPNTK 88 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd-~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~~~v~~i~~~~l~~~~~~~~~~~~~~ 88 (280)
.+.+....+|+.---||. +.+++-++++|+++|+..+ ..+.++.|-+|+...
T Consensus 27 ~~~i~~L~~~~~YAvE~~T~~drLSlLLsGr~~Vs~~g--~fLH~I~p~qFlDSP------------------------- 79 (153)
T PF04831_consen 27 CCEIRTLKKGETYAVEGKTPIDRLSLLLSGRMRVSCDG--RFLHYIYPYQFLDSP------------------------- 79 (153)
T ss_pred hceEEEecCCceeeecCCcccceEeEEEcCcEEEEECC--EeeEeecccccccCh-------------------------
Confidence 478899999999988874 5789999999999998754 567888888887666
Q ss_pred HHhHHHhhccchhhhhhhcchhhhhhcccccCCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHH
Q psy15967 89 WLNLIVKAQPMKLRKTVLNKVSVLEIAGNRTGNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGC 162 (280)
Q Consensus 89 ~~~l~~k~~~~~~~~rl~~~~~lL~~~~~~~~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~ 162 (280)
.+..... ..++....++.|.++|..++.+++.+...++++|-+...+-..+.
T Consensus 80 ---------------------EW~s~~~-s~~~~FQVTitA~~~Cryl~W~R~kL~~~l~~~~~L~~vF~~liG 131 (153)
T PF04831_consen 80 ---------------------EWESLRP-SEDDKFQVTITAEEDCRYLCWPREKLYLLLAKDPFLAAVFSNLIG 131 (153)
T ss_pred ---------------------hhhcccc-CCCCeEEEEEEEcCCcEEEEEEHHHHHHHHhhCHHHHHHHHHHHH
Confidence 3332111 024567789999999999999999999999999987775544333
No 31
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=97.03 E-value=0.001 Score=59.44 Aligned_cols=123 Identities=13% Similarity=0.095 Sum_probs=84.3
Q ss_pred CCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhccHHHHHHHHHHH
Q psy15967 120 GNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEH 199 (280)
Q Consensus 120 ~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~ 199 (280)
+.++..+++|+++|.++.+++++|++++.++|.+.+.++..+..+++.... .+......++..|++..|..
T Consensus 95 ~~~~~~~~~A~~ds~v~~i~~~~f~~l~~~~p~l~~~l~~~l~~~l~~~~~---------~~~~l~~~~~~~Rla~~Ll~ 165 (230)
T PRK09391 95 GSTHRFTAEAIVDTTVRLIKRRSLEQAAATDVDVARALLSLTAGGLRHAQD---------HMLLLGRKTAMERVAAFLLE 165 (230)
T ss_pred CCcCCeEEEEcCceEEEEEEHHHHHHHHhhChHHHHHHHHHHHHHHHHHHH---------HHHHHcCCCHHHHHHHHHHH
Confidence 445678899999999999999999999999999999999999988876211 11223346899999999998
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHh--hcccchhccccccccCCCCCCCCCCCCCceeec
Q psy15967 200 LQTRFARLMAEYLSQQAKMKQRLALLE--QGASVNQATSSKRNSQAEPTHPEDVRNSKCLLS 259 (280)
Q Consensus 200 ~~~~~~~~~~~~~~~~~~~~~~~~~~e--~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~ 259 (280)
+..+++.. ..+..+++.-| .-..+...|-|...++++..|.-...+++.+.+
T Consensus 166 l~~~~g~~--------~~i~i~lt~~~IA~~lGisretlsR~L~~L~~~GlI~~~~~~~i~I 219 (230)
T PRK09391 166 MDERLGGA--------GMMALPMSRRDIADYLGLTIETVSRALSQLQDRGLIGLSGARQIEL 219 (230)
T ss_pred HHHHhCCC--------CEEEecCCHHHHHHHHCCCHHHHHHHHHHHHHCCcEEecCCceEEE
Confidence 87665420 11222333333 223334444444455788888877766555554
No 32
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=96.85 E-value=0.015 Score=51.49 Aligned_cols=121 Identities=14% Similarity=0.098 Sum_probs=81.5
Q ss_pred cccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhccHHHHHHHHHHHHH
Q psy15967 122 RRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQ 201 (280)
Q Consensus 122 ~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~~~ 201 (280)
.+..++++++++.++.+++++|++++.++|.+...++..+..++..... ........++..|++..|.++.
T Consensus 98 ~~~~~~~a~~~~~i~~ip~~~f~~l~~~~p~~~~~~~~~~~~~~~~~~~---------~~~~l~~~~~~~Rla~~L~~l~ 168 (235)
T PRK11161 98 QHPSFAQALETSMVCEIPFETLDDLSGKMPKLRQQIMRLMSGEIKGDQE---------MILLLSKKNAEERLAAFIYNLS 168 (235)
T ss_pred CCcceEEEeccEEEEEEEHHHHHHHHHHChHHHHHHHHHHHHHHHHHHH---------HHHHHhCCCHHHHHHHHHHHHH
Confidence 4456789999999999999999999999999999999988887765111 1122335689999999999998
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHh--hcccchhccccccccCCCCCCCCCCCCCc
Q psy15967 202 TRFARLMAEYLSQQAKMKQRLALLE--QGASVNQATSSKRNSQAEPTHPEDVRNSK 255 (280)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~e--~~~~~~~~t~~~~~~~~~~~~~~~~~~~~ 255 (280)
.+++..... ...+..+++.-| .-+.+...|.|...++++..|.-...+++
T Consensus 169 ~~~~~~~~~----~~~~~~~lt~~~iA~~lG~sr~tvsR~l~~l~~~g~I~~~~~~ 220 (235)
T PRK11161 169 RRFAQRGFS----PREFRLTMTRGDIGNYLGLTVETISRLLGRFQKSGMLAVKGKY 220 (235)
T ss_pred HHHhhcCCC----CceeEccccHHHHHHHhCCcHHHHHHHHHHHHHCCCEEecCCE
Confidence 887643211 111223333333 22344444444445567777776665554
No 33
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=95.58 E-value=0.0033 Score=46.12 Aligned_cols=45 Identities=18% Similarity=0.264 Sum_probs=39.0
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhcc
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKD 188 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~~ 188 (280)
++.+|++.++++..+++.+++|+++|+|......+.+.|.+.|++
T Consensus 31 ~~~iA~~~g~sr~tv~r~l~~l~~~g~I~~~~~~i~I~d~~~L~~ 75 (76)
T PF13545_consen 31 QEEIADMLGVSRETVSRILKRLKDEGIIEVKRGKIIILDPERLEE 75 (76)
T ss_dssp HHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETTEEEESSHHHHHH
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHCCCEEEcCCEEEECCHHHHhc
Confidence 899999999999999999999999999987777666767666553
No 34
>KOG3542|consensus
Probab=95.25 E-value=0.042 Score=56.50 Aligned_cols=46 Identities=22% Similarity=0.350 Sum_probs=40.5
Q ss_pred eCCCCEEEcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 16 f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
=..|.+|...|+..+.+++|++|.|+|.++||+. ..+.-|+.||..
T Consensus 310 e~AGtivL~dgeeLDSWsVIlNG~VEv~~PdGk~--e~l~mGnSFG~~ 355 (1283)
T KOG3542|consen 310 EDAGTIVLADGEELDSWSVILNGCVEVVKPDGKR--EELKMGNSFGAE 355 (1283)
T ss_pred hhcCeEEecCCcccceeEEEecceEEEecCCCce--EEeecccccCCC
Confidence 3789999999999999999999999999999963 345678999987
No 35
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=95.11 E-value=0.014 Score=50.21 Aligned_cols=119 Identities=9% Similarity=-0.043 Sum_probs=75.8
Q ss_pred CCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhccHHHHHHHHHHH
Q psy15967 120 GNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEH 199 (280)
Q Consensus 120 ~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~ 199 (280)
+.++..++.|+++|.++.+++.+| +|.+...++..+..++..... .+......++..||+..|..
T Consensus 67 ~~~~~~~~~A~~~~~v~~i~~~~~------~~~~~~~l~~~l~~~~~~~~~---------~~~~l~~~~~~~Rla~~Ll~ 131 (202)
T PRK13918 67 GAERAYFAEAVTDSRIDVLNPALM------SAEDNLVLTQHLVRTLARAYE---------SIYRLVGQRLKNRIAAALLE 131 (202)
T ss_pred CCCCCceEEEcCceEEEEEEHHHc------ChhhHHHHHHHHHHHHHHHHH---------HHHHHHhCchHHHHHHHHHH
Confidence 456778899999999999998776 567777777777766665211 12233456889999999999
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHhhcccchhccccccc----cCCCCCCCCCCCCCceeecc
Q psy15967 200 LQTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSSKRN----SQAEPTHPEDVRNSKCLLSP 260 (280)
Q Consensus 200 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~t~~~~~----~~~~~~~~~~~~~~~~~~~~ 260 (280)
+.++++..... ...+..+++.-| .+..-|+++++. ++++..|.-. .+++++.++
T Consensus 132 l~~~~~~~~~~----~~~~~~~~t~~~--iA~~lG~tretvsR~l~~l~~~g~I~-~~~~~i~I~ 189 (202)
T PRK13918 132 LSDTPLATQED----SGETMIYATHDE--LAAAVGSVRETVTKVIGELSREGYIR-SGYGKIQLL 189 (202)
T ss_pred HHHHhCCCCCC----CCeEEecCCHHH--HHHHhCccHHHHHHHHHHHHHCCCEE-cCCCEEEEE
Confidence 88776432211 112334455555 444455555554 4577888776 344555543
No 36
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=95.04 E-value=0.02 Score=36.10 Aligned_cols=28 Identities=25% Similarity=0.407 Sum_probs=25.7
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccc
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLL 171 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli 171 (280)
++.+|++.+++++.++|.+++|++.|+|
T Consensus 5 r~diA~~lG~t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 5 RQDIADYLGLTRETVSRILKKLERQGLI 32 (32)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHhCCcHHHHHHHHHHHHHcCCC
Confidence 8899999999999999999999999886
No 37
>COG0664 Crp cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
Probab=93.76 E-value=0.057 Score=45.83 Aligned_cols=99 Identities=18% Similarity=0.196 Sum_probs=74.1
Q ss_pred hhhccccccccccccCCCCchhhhHHhHHHhhc----------cchhhhhhhcchhhhhhcccccCCcccce-EEEcccc
Q psy15967 65 HVLGVDLGRITSFCSKGYEIPNTKWLNLIVKAQ----------PMKLRKTVLNKVSVLEIAGNRTGNRRTAN-VRSLGYS 133 (280)
Q Consensus 65 ~v~~i~~~~l~~~~~~~~~~~~~~~~~l~~k~~----------~~~~~~rl~~~~~lL~~~~~~~~~~~~~~-v~alt~s 133 (280)
+++.+|.+.+..++..+|.+...++..+..++. .++..+|++ .++...+...+...... ......+
T Consensus 97 ~~~~~~~~~~~~~~~~~p~l~~~l~~~~~~~l~~~~~~~~~~~~~~~~~r~~---~~l~~l~~~~~~~~~~~~~~~~~~~ 173 (214)
T COG0664 97 EVLEIPRKDFLELLAESPKLALALLRLLARRLRQALERLSLLARKDVEERLA---RFLLNLGRRLGIATEDGILIPLPLT 173 (214)
T ss_pred EEEEecHHHHHHHHhhCcHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHH---HHHHHHhhccCCCCCCCcEEeccCC
Confidence 788999999999887799999999988885555 678888888 77654443333222211 2233334
Q ss_pred ceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHh
Q psy15967 134 DLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAF 176 (280)
Q Consensus 134 ~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~ 176 (280)
++.++.+.+.+++.+++.+.++++.|++.....
T Consensus 174 ----------~~~ia~~~g~~~~~vsr~l~~l~~~g~i~~~~~ 206 (214)
T COG0664 174 ----------HKDLAEYLGLSRETVSRILKELRKDGLISVRGK 206 (214)
T ss_pred ----------HHHHHHHhCCchhhHHHHHHHHHhCCcEeeCCc
Confidence 889999999999999999999999999876543
No 38
>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=86.28 E-value=1.6 Score=30.77 Aligned_cols=47 Identities=23% Similarity=0.312 Sum_probs=34.1
Q ss_pred EEeCCCCEEEcCCCcCC-eEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 14 FVFSPGDYICRKGDVGK-EMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 14 ~~f~kGeiI~~qGd~~~-~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
..++||+..-..-.+.. .+++|++|.+.+. .||+ ...+.+||.+=..
T Consensus 3 ~~~~pG~~~~~h~H~~~~e~~~vl~G~~~~~-~~~~--~~~l~~Gd~~~i~ 50 (71)
T PF07883_consen 3 VTLPPGGSIPPHRHPGEDEFFYVLSGEGTLT-VDGE--RVELKPGDAIYIP 50 (71)
T ss_dssp EEEETTEEEEEEEESSEEEEEEEEESEEEEE-ETTE--EEEEETTEEEEEE
T ss_pred EEECCCCCCCCEECCCCCEEEEEEECCEEEE-EccE--EeEccCCEEEEEC
Confidence 56788887655555555 8999999999998 4543 4567888876444
No 39
>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=82.07 E-value=3.9 Score=30.14 Aligned_cols=44 Identities=27% Similarity=0.485 Sum_probs=30.8
Q ss_pred eCCCCEEEcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 16 f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
..+|..-..... +.+.+|++|.+.+..++|+. ..+.|||.|=..
T Consensus 14 ~~pg~~~~~~~~--~E~~~vleG~v~it~~~G~~--~~~~aGD~~~~p 57 (74)
T PF05899_consen 14 CTPGKFPWPYPE--DEFFYVLEGEVTITDEDGET--VTFKAGDAFFLP 57 (74)
T ss_dssp EECEEEEEEESS--EEEEEEEEEEEEEEETTTEE--EEEETTEEEEE-
T ss_pred ECCceeEeeCCC--CEEEEEEEeEEEEEECCCCE--EEEcCCcEEEEC
Confidence 345554333322 67779999999999988865 678899987554
No 40
>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=80.05 E-value=4.6 Score=39.10 Aligned_cols=61 Identities=16% Similarity=0.177 Sum_probs=44.0
Q ss_pred chhhhhcCCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEc--CCcEEEEEecCCCEecch
Q psy15967 3 FPAYYSYTALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVAD--DEETVLATLSAGSVFGEV 63 (280)
Q Consensus 3 fp~~~~~~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~--dGe~il~~l~~GD~fGe~ 63 (280)
||.+..+.+....+.+|.+.-..-.....+.+|++|.+++.-. +|+.....+.+||+|=..
T Consensus 61 lP~l~~ls~~~~~l~pG~~~~~HwH~~~E~~yVl~G~~~v~~~d~~g~~~~~~L~~GD~~~fP 123 (367)
T TIGR03404 61 LPISTAIAGVNMRLEPGAIRELHWHKEAEWAYVLYGSCRITAVDENGRNYIDDVGAGDLWYFP 123 (367)
T ss_pred ccCcccccceEEEEcCCCCCCcccCCCceEEEEEeeEEEEEEEcCCCcEEEeEECCCCEEEEC
Confidence 5555455666778888887643333455799999999999943 467666789999998555
No 41
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=77.51 E-value=9.1 Score=38.09 Aligned_cols=94 Identities=15% Similarity=0.221 Sum_probs=55.3
Q ss_pred eeeechHHHHHHHhhCHHHHHHHHH------HHHHHHHH--------cccchHHHhhchhhhhhhhccHHHHHHHHHHHH
Q psy15967 135 LFCLAKRDLWETLADYPEARHSLME------RGCQLLRK--------DGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHL 200 (280)
Q Consensus 135 l~~l~~~~~~~lLa~~~~~~r~~ls------r~~~rL~~--------~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~~ 200 (280)
-+.|+...|.+.|+++|.--..++. -+..+|.+ .|++.. ....+.+...+++..++.+
T Consensus 354 ~L~lD~~kl~~al~~np~~V~~lF~~~~~~~G~~~~l~~~l~~~~~~~G~l~~--------~~~~l~~~i~~l~~~i~~~ 425 (462)
T PRK08032 354 KLEIDDDKLTKALKEDPAGVKALFVGDGKKTGITTQIATNLKSWLSTTGIIKT--------ATDGVNKTLKKLTKQYNAV 425 (462)
T ss_pred eEEEcHHHHHHHHHHCHHHHHHHhCCCCCCCcHHHHHHHHHHHHHcCCccchh--------HHhHHHHHHHHHHHHHHHH
Confidence 4677888999999999988776652 23333333 233221 1233455556666666666
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHhhcccchhccccccccCC
Q psy15967 201 QTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSSKRNSQA 243 (280)
Q Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~t~~~~~~~~ 243 (280)
..|+.+..+. +..+.+.+|...+..+++.+-..+|.
T Consensus 426 ~~rl~~~e~r-------l~~qF~ame~~~s~mns~~s~L~~q~ 461 (462)
T PRK08032 426 SDSIDATIAR-------YKAQFTQLDKLMTSLNSTSSYLTQQF 461 (462)
T ss_pred HHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 6666555444 45556666666666666665555543
No 42
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=74.25 E-value=9.2 Score=30.75 Aligned_cols=51 Identities=25% Similarity=0.287 Sum_probs=41.1
Q ss_pred CCEEEEeCCCCEEEcCCCc-CCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 10 TALNFVFSPGDYICRKGDV-GKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~-~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
.+....|.||+.+-..-.+ .....+|++|.+++... |+ ...+.+||++-..
T Consensus 44 ~~~~v~~~~G~~~~~H~hp~~~~~~~Vl~G~~~~~~~-g~--~~~l~~Gd~i~ip 95 (131)
T COG1917 44 SVVLVTFEPGAVIPWHTHPLGEQTIYVLEGEGTVQLE-GE--KKELKAGDVIIIP 95 (131)
T ss_pred EEEEEEECCCcccccccCCCcceEEEEEecEEEEEec-CC--ceEecCCCEEEEC
Confidence 3567789999999887776 77999999999999866 43 2568899998776
No 43
>PRK06798 fliD flagellar capping protein; Validated
Probab=72.47 E-value=15 Score=36.44 Aligned_cols=94 Identities=14% Similarity=0.224 Sum_probs=49.1
Q ss_pred ceeeechHHHHHHHhhCHHHHHHHHH---HHHHHHHH--cccchHHHhhchhhhhhhhccHHHHHHHHHHHHHHHHHHHH
Q psy15967 134 DLFCLAKRDLWETLADYPEARHSLME---RGCQLLRK--DGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTRFARLM 208 (280)
Q Consensus 134 ~l~~l~~~~~~~lLa~~~~~~r~~ls---r~~~rL~~--~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~~~~~~~~~~ 208 (280)
=.+.|+...|.+.|+++|.--..++. -+..+|.+ .+.+..... .......+.+...+++..++.+..|+.+..
T Consensus 329 G~L~lD~~kL~~al~~np~~V~~lF~g~~Gia~~l~~~l~~~~~~~G~--i~~r~~~l~~~i~~l~~~~~~~e~rl~~~e 406 (440)
T PRK06798 329 GTMKVDEEALKKALKENPDAAKQFFFGINGLGKEMEKSLDKIFGDEGI--IGERSKSIDNRVSKLDLKITDIDTQNKQKQ 406 (440)
T ss_pred CCEEEcHHHHHHHHHHCHHHHHHHhcCCCcHHHHHHHHHHhhhCCCce--eehhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688899999999999988777652 24444443 011110000 011123344555555555555555555444
Q ss_pred HHHhhHHHHHHHHHHHHhhcccchhccc
Q psy15967 209 AEYLSQQAKMKQRLALLEQGASVNQATS 236 (280)
Q Consensus 209 ~~~~~~~~~~~~~~~~~e~~~~~~~~t~ 236 (280)
+. +..+.+.+|...+..+++.
T Consensus 407 ~~-------l~~qf~ale~~ms~lnsQ~ 427 (440)
T PRK06798 407 DN-------IVDKYQKLESTLAALDSQL 427 (440)
T ss_pred HH-------HHHHHHHHHHHHHHHHHHH
Confidence 44 4555555555554444444
No 44
>KOG3542|consensus
Probab=72.24 E-value=4.7 Score=42.09 Aligned_cols=34 Identities=29% Similarity=0.316 Sum_probs=29.6
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEE
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVV 43 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~ 43 (280)
.++...++...++|+.|+.+..+||+++|.|-|.
T Consensus 59 ~aryer~~g~~ilf~~~~var~wyillsgsv~v~ 92 (1283)
T KOG3542|consen 59 TARYERHPGQYILFRDGDVARSWYILLSGSVFVE 92 (1283)
T ss_pred hhhhhcCCCceEEecccchhhheeeeeccceEee
Confidence 4566678888999999999999999999998774
No 45
>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=72.24 E-value=11 Score=30.97 Aligned_cols=55 Identities=24% Similarity=0.247 Sum_probs=39.6
Q ss_pred cCCEEEEeCCCCEEEcCCCc-CCeEEEEeeeEEEEEE--cCC-cEEEEEecCCCEecch
Q psy15967 9 YTALNFVFSPGDYICRKGDV-GKEMYIVKRGKLNVVA--DDE-ETVLATLSAGSVFGEV 63 (280)
Q Consensus 9 ~~~~~~~f~kGeiI~~qGd~-~~~iyiIlsG~Vkv~~--~dG-e~il~~l~~GD~fGe~ 63 (280)
+.+....+.+|...-..-.+ ...+++|++|...+.. .+| +.....+.+||.+-..
T Consensus 30 ~~~~~~~i~pg~~~~~h~H~~~~e~~~Vl~G~~~~~~~~~~~~~~~~~~l~~GD~~~ip 88 (146)
T smart00835 30 ISAARVNLEPGGMLPPHYHPRATELLYVVRGEGRVGVVDPNGNKVYDARLREGDVFVVP 88 (146)
T ss_pred eEEEEEEecCCcCcCCeeCCCCCEEEEEEeCeEEEEEEeCCCCeEEEEEecCCCEEEEC
Confidence 34556678888876544332 5689999999999984 223 4567889999987665
No 46
>PRK13290 ectC L-ectoine synthase; Reviewed
Probab=69.70 E-value=14 Score=30.23 Aligned_cols=50 Identities=12% Similarity=0.040 Sum_probs=34.4
Q ss_pred EEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEE-EcCCcEEEEEecCCCEecch
Q psy15967 12 LNFVFSPGDYICRKGDVGKEMYIVKRGKLNVV-ADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 12 ~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~-~~dGe~il~~l~~GD~fGe~ 63 (280)
....++||+.+-..-.....+++|++|.+.+. ..||+. ..+.+||++-..
T Consensus 38 ~~~~l~pG~~~~~h~h~~~E~~yVL~G~~~~~~i~~g~~--~~L~aGD~i~~~ 88 (125)
T PRK13290 38 HETTIYAGTETHLHYKNHLEAVYCIEGEGEVEDLATGEV--HPIRPGTMYALD 88 (125)
T ss_pred EEEEECCCCcccceeCCCEEEEEEEeCEEEEEEcCCCEE--EEeCCCeEEEEC
Confidence 34588999766432222236899999999998 444543 678999998665
No 47
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=65.98 E-value=14 Score=26.00 Aligned_cols=42 Identities=19% Similarity=0.356 Sum_probs=35.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhcc
Q psy15967 188 DTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRLALLEQGA 229 (280)
Q Consensus 188 ~~~~rl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 229 (280)
+...-+.+.|..++.||..+..+....-..|..||..||+..
T Consensus 3 elt~~v~~lL~qmq~kFq~mS~~I~~riDeM~~RIDdLE~si 44 (54)
T PF06825_consen 3 ELTAFVQNLLQQMQDKFQTMSDQILGRIDEMSSRIDDLEKSI 44 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 344567889999999999999999999999999999999543
No 48
>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=65.84 E-value=15 Score=35.48 Aligned_cols=61 Identities=16% Similarity=0.095 Sum_probs=41.7
Q ss_pred chhhhhcCCEEEEeCCCCEEEcCCCc-CCeEEEEeeeEEEEEE--cCCcEEEEEecCCCEecch
Q psy15967 3 FPAYYSYTALNFVFSPGDYICRKGDV-GKEMYIVKRGKLNVVA--DDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 3 fp~~~~~~~~~~~f~kGeiI~~qGd~-~~~iyiIlsG~Vkv~~--~dGe~il~~l~~GD~fGe~ 63 (280)
||......+....+.+|...-..=.+ .+.+++|++|.+++.- .+|+.-...+.+||++=..
T Consensus 239 ~p~~~~~s~~~~~l~PG~~~~~H~H~~~~E~~yvl~G~~~~~v~d~~g~~~~~~l~~GD~~~iP 302 (367)
T TIGR03404 239 FPVSKTIAAAIVTVEPGAMRELHWHPNADEWQYFIQGQARMTVFAAGGNARTFDYQAGDVGYVP 302 (367)
T ss_pred ccCcceEEEEEEEECCCCccCCeeCcCCCeEEEEEEEEEEEEEEecCCcEEEEEECCCCEEEEC
Confidence 44444445667788999877543333 5789999999999883 3344334569999986444
No 49
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=62.25 E-value=6.6 Score=27.31 Aligned_cols=32 Identities=22% Similarity=0.405 Sum_probs=28.6
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchHHH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDEEA 175 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~ 175 (280)
.+.+++..++++..+++.+++|.+.|++....
T Consensus 28 ~~ela~~~g~s~~tv~r~l~~L~~~g~i~~~~ 59 (67)
T cd00092 28 RQEIADYLGLTRETVSRTLKELEEEGLISRRG 59 (67)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHCCCEEecC
Confidence 78899999999999999999999999986543
No 50
>PRK06664 fliD flagellar hook-associated protein FliD; Validated
Probab=61.06 E-value=31 Score=36.16 Aligned_cols=93 Identities=15% Similarity=0.264 Sum_probs=52.2
Q ss_pred eeeechHHHHHHHhhCHHHHHHHHH-----------HHHHHHHH--------cccchHHHhhchhhhhhhhccHHHHHHH
Q psy15967 135 LFCLAKRDLWETLADYPEARHSLME-----------RGCQLLRK--------DGLLDEEAFRNSQVEHEALKDTVRRLDT 195 (280)
Q Consensus 135 l~~l~~~~~~~lLa~~~~~~r~~ls-----------r~~~rL~~--------~gli~~~~~~~~~~~~~~l~~~~~rl~~ 195 (280)
-+.|+...|.+.|+++|.--..++. -+..+|.+ .|++.. ....+.+...+++.
T Consensus 543 ~L~lDe~KL~~AL~~np~~V~~lF~~~~~g~~~~~~Gla~~l~~~l~~~t~~~G~i~~--------r~~~l~~~i~~l~~ 614 (661)
T PRK06664 543 YLELDEKKLDEVLKENPDSVRELFAFDSNGDAVMDNGVAKMLLEYLSPYTQAGGIIYN--------KVKGLDERIADNNK 614 (661)
T ss_pred cEEEcHHHHHHHHHhCHHHHHHHhcCCCcccccccCcHHHHHHHHHHHHHcCCCceeh--------HHHHHHHHHHHHHH
Confidence 3578888999999999988776653 23444433 122211 12234444455555
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhcccchhccccccccC
Q psy15967 196 TLEHLQTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSSKRNSQ 242 (280)
Q Consensus 196 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~t~~~~~~~ 242 (280)
.++.+..|+.... .++..+.+.+|...+..+++++-..++
T Consensus 615 ~i~~~e~rl~~~e-------~rl~~QFtaME~~msqmnsqss~L~~~ 654 (661)
T PRK06664 615 KIEEYEKKLESKE-------RKLKGKYLTMDQTVKKMKEQSNYLKNF 654 (661)
T ss_pred HHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555555554444 445555556666555555665554443
No 51
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=60.82 E-value=27 Score=28.18 Aligned_cols=48 Identities=23% Similarity=0.336 Sum_probs=34.3
Q ss_pred CCEEEEeCCCCEE-EcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEe
Q psy15967 10 TALNFVFSPGDYI-CRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVF 60 (280)
Q Consensus 10 ~~~~~~f~kGeiI-~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~f 60 (280)
......+++|+-+ ..--...+.+|+|++|...+...|.. ..+++||++
T Consensus 37 ~~~~~~v~pg~~~~~~~H~~~dE~~~Vl~G~g~v~~~~~~---~~v~~gd~~ 85 (127)
T COG0662 37 SIARILVKPGEEISLHHHHHRDEHWYVLEGTGKVTIGGEE---VEVKAGDSV 85 (127)
T ss_pred EEEEEEECCCcccCcccccCcceEEEEEeeEEEEEECCEE---EEecCCCEE
Confidence 4556677888875 44444478999999999999875532 346777765
No 52
>PRK04190 glucose-6-phosphate isomerase; Provisional
Probab=60.03 E-value=45 Score=29.40 Aligned_cols=53 Identities=17% Similarity=0.107 Sum_probs=36.3
Q ss_pred CEEEEeCCCCEE---------EcCCCcCCeEEEEeeeEEEEEE--cCCcEEEEEecCCCEecch
Q psy15967 11 ALNFVFSPGDYI---------CRKGDVGKEMYIVKRGKLNVVA--DDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 11 ~~~~~f~kGeiI---------~~qGd~~~~iyiIlsG~Vkv~~--~dGe~il~~l~~GD~fGe~ 63 (280)
.-...+.||... ++.......+|+|++|...+.- .+|+.....+.|||++=..
T Consensus 70 ~g~t~l~PG~~g~e~~mt~gH~H~~~~~~EiyyvlsG~g~~~l~~~~G~~~~~~v~pGd~v~IP 133 (191)
T PRK04190 70 FGTTRLYPGKVGDEYFMTKGHFHAKADRAEIYYGLKGKGLMLLQDPEGEARWIEMEPGTVVYVP 133 (191)
T ss_pred EEEEEECCCcEecccccCCCeEcCCCCCCEEEEEEeCEEEEEEecCCCcEEEEEECCCCEEEEC
Confidence 344566777753 3443344589999999999883 4455557789999986544
No 53
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=58.35 E-value=9.8 Score=29.40 Aligned_cols=65 Identities=12% Similarity=0.038 Sum_probs=43.7
Q ss_pred HHHhhccchhhhhhhcchhhhhhccccc-CCcccceEEEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHHccc
Q psy15967 92 LIVKAQPMKLRKTVLNKVSVLEIAGNRT-GNRRTANVRSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRKDGL 170 (280)
Q Consensus 92 l~~k~~~~~~~~rl~~~~~lL~~~~~~~-~~~~~~~v~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gl 170 (280)
+.+.+.+..+..|++ .+|....... |.. ......+ ++.|++..++++..+++++++|.+.|+
T Consensus 14 ~~e~l~~~~l~~r~~---~vLl~L~~~~~G~~----~~~~~is----------~~eLa~~~g~sr~tVsr~L~~Le~~Gl 76 (95)
T TIGR01610 14 LQEALPGADLSGREF---RVLLAIIRLTYGWN----KKQDRVT----------ATVIAELTGLSRTHVSDAIKSLARRRI 76 (95)
T ss_pred HHHHHHhCCCCHHHH---HHHHHHHHHHhCcc----ccCCccC----------HHHHHHHHCcCHHHHHHHHHHHHHCCC
Confidence 345555667777777 6654332211 111 1122333 789999999999999999999999999
Q ss_pred chH
Q psy15967 171 LDE 173 (280)
Q Consensus 171 i~~ 173 (280)
|.-
T Consensus 77 I~r 79 (95)
T TIGR01610 77 IFR 79 (95)
T ss_pred eee
Confidence 964
No 54
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=57.83 E-value=77 Score=28.42 Aligned_cols=90 Identities=18% Similarity=0.261 Sum_probs=49.3
Q ss_pred ceeeechHHHHHHHhhCHHHHHHHHHH-------------HHHHHHH--cccchHHHhhchhhhhhhhccHHHHHHHHHH
Q psy15967 134 DLFCLAKRDLWETLADYPEARHSLMER-------------GCQLLRK--DGLLDEEAFRNSQVEHEALKDTVRRLDTTLE 198 (280)
Q Consensus 134 ~l~~l~~~~~~~lLa~~~~~~r~~lsr-------------~~~rL~~--~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~ 198 (280)
=-+.++...|.+.|+.+|.--..++.. +..+|.+ ...+... ..........+.+...+++..+.
T Consensus 132 G~L~iD~~kl~~Al~~np~~V~~lF~~~~~~~~~~~~~~Gi~~~l~~~l~~~~~~~-~G~i~~~~~~l~~~~~~~~~~i~ 210 (239)
T PF07195_consen 132 GTLSIDETKLDKALAENPDAVQALFAGDGTKDGTVYSTSGIATRLNDYLDSYTGSS-TGSITSRIDSLNSQIKSLDKQIE 210 (239)
T ss_pred CeEEEeHHHHHHHHhhCHHHHHHHHccCccccccccccccHHHHHHHHHHHHhCCC-CcchhhHHHHHHHHHHHHHHHHH
Confidence 356789999999999999888877543 4444433 0111100 00001223345555666666666
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHH
Q psy15967 199 HLQTRFARLMAEYLSQQAKMKQRLAL 224 (280)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 224 (280)
.+.+|+....+.|..+...|...++.
T Consensus 211 ~~~~rl~~~~~~l~~qf~~me~~i~~ 236 (239)
T PF07195_consen 211 DLEERLESKEERLRKQFSAMESLISQ 236 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66666655555554444444444443
No 55
>PRK08724 fliD flagellar capping protein; Validated
Probab=54.93 E-value=56 Score=34.34 Aligned_cols=84 Identities=13% Similarity=0.137 Sum_probs=49.5
Q ss_pred eeeechHHHHHHHhhCHHHHHHHH---HHHHHHHHH--------cccchHHHhhchhhhhhhhccHHHHHHHHHHHHHHH
Q psy15967 135 LFCLAKRDLWETLADYPEARHSLM---ERGCQLLRK--------DGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTR 203 (280)
Q Consensus 135 l~~l~~~~~~~lLa~~~~~~r~~l---sr~~~rL~~--------~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~~~~~ 203 (280)
.+.|+...|.+.|.++|+--..++ .-+..+|.. .|.|.. ....+.+...+++.....+..|
T Consensus 568 ~LsiD~~KL~~AL~~npd~V~~LF~g~~GlA~rL~~~L~~~~~t~G~I~~--------R~~sL~~~i~~l~dqi~~Le~R 639 (673)
T PRK08724 568 TLEINYDMLDRQLNNNFNKLEEFFGGNTGFAKRVEDAIQSMTGVTGSIRT--------REKSLREQNYRLNDDQVALDRR 639 (673)
T ss_pred cEEecHHHHHHHHHhCHHHHHHHhcCCchHHHHHHHHHHHHhccCCchhH--------HHHHHHHHHHHHHHHHHHHHHH
Confidence 467788889999999998766654 223333332 233321 1233556666777777777777
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHh
Q psy15967 204 FARLMAEYLSQQAKMKQRLALLE 226 (280)
Q Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~e 226 (280)
+.++.++|..+...|..-++.+.
T Consensus 640 le~~E~Ry~~QFtAMD~~msqMn 662 (673)
T PRK08724 640 MESLEKRTHAKFAAMQDATGKMQ 662 (673)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 76666666555444444444443
No 56
>TIGR03037 anthran_nbaC 3-hydroxyanthranilate 3,4-dioxygenase. Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase. This enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.
Probab=54.18 E-value=43 Score=28.80 Aligned_cols=40 Identities=13% Similarity=0.304 Sum_probs=28.2
Q ss_pred EcCCCcCCeEEEEeeeEEEEEE-cCCcEEEEEecCCCEecch
Q psy15967 23 CRKGDVGKEMYIVKRGKLNVVA-DDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 23 ~~qGd~~~~iyiIlsG~Vkv~~-~dGe~il~~l~~GD~fGe~ 63 (280)
++..+ .+.++++++|.+.+.- ++|+.-.-.+.+||+|=-.
T Consensus 43 ~H~~~-tdE~FyqleG~~~l~v~d~g~~~~v~L~eGd~flvP 83 (159)
T TIGR03037 43 FHDDP-GEEFFYQLKGEMYLKVTEEGKREDVPIREGDIFLLP 83 (159)
T ss_pred cccCC-CceEEEEEcceEEEEEEcCCcEEEEEECCCCEEEeC
Confidence 44433 6889999999999974 3354235678999997444
No 57
>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=51.12 E-value=40 Score=27.56 Aligned_cols=52 Identities=21% Similarity=0.219 Sum_probs=35.5
Q ss_pred EEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEE--EcCC-----cEEEE--EecCCCEecch
Q psy15967 12 LNFVFSPGDYICRKGDVGKEMYIVKRGKLNVV--ADDE-----ETVLA--TLSAGSVFGEV 63 (280)
Q Consensus 12 ~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~--~~dG-----e~il~--~l~~GD~fGe~ 63 (280)
....+.+|-.....=..+..+++|++|+.++. .+++ +.... .+.+||+|-..
T Consensus 37 ~~~~i~pg~~~~Ph~h~a~~i~~V~~G~~~~~~v~~~~~~~~~~~~~~~v~l~~Gdv~~vP 97 (144)
T PF00190_consen 37 RRVLIEPGGLRAPHYHNADEIVYVIEGRGRVGVVGPGGPQEEFRDFSQKVRLKAGDVFVVP 97 (144)
T ss_dssp EEEEEETTEEEEEEEESSEEEEEEEESEEEEEEEETTCSSSEEEEEEEEEEEETTEEEEE-
T ss_pred EeeehhcCCccceeEeeeeEEeeeeccceEEEEEecCCccccceeeeceeeeecccceeec
Confidence 34455787777544447889999999999966 4443 12233 49999998766
No 58
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=47.96 E-value=16 Score=23.43 Aligned_cols=30 Identities=20% Similarity=0.343 Sum_probs=27.4
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDE 173 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~ 173 (280)
...+++..++++..+++.+++|.+.|++..
T Consensus 11 ~~~la~~l~~s~~tv~~~l~~L~~~g~l~~ 40 (48)
T smart00419 11 RQEIAELLGLTRETVSRTLKRLEKEGLISR 40 (48)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 678999999999999999999999999864
No 59
>PRK06798 fliD flagellar capping protein; Validated
Probab=47.89 E-value=92 Score=30.91 Aligned_cols=65 Identities=9% Similarity=0.057 Sum_probs=36.1
Q ss_pred echHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchHHHhhchhhhhhhhccHHHHHHHHHHHHHHH
Q psy15967 138 LAKRDLWETLADYPEARHSLMERGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLEHLQTR 203 (280)
Q Consensus 138 l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~~~~~~ 203 (280)
=..+++.+++...-++...+-..+-..+...|.|....... ..+...+.+...+++..++...+|
T Consensus 344 ~np~~V~~lF~g~~Gia~~l~~~l~~~~~~~G~i~~r~~~l-~~~i~~l~~~~~~~e~rl~~~e~~ 408 (440)
T PRK06798 344 ENPDAAKQFFFGINGLGKEMEKSLDKIFGDEGIIGERSKSI-DNRVSKLDLKITDIDTQNKQKQDN 408 (440)
T ss_pred HCHHHHHHHhcCCCcHHHHHHHHHHhhhCCCceeehhhhHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35567777777777888877766666665678775432211 122334444444444444443333
No 60
>PHA00672 hypothetical protein
Probab=45.89 E-value=1.3e+02 Score=25.20 Aligned_cols=36 Identities=11% Similarity=0.022 Sum_probs=30.4
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEcC
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADD 46 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~d 46 (280)
.++..+.+||..|.-.=-..+.+ +|.+|.+.||.++
T Consensus 48 YARei~IPkGt~LtG~~hkf~~~-ii~sG~itV~tdg 83 (152)
T PHA00672 48 YARTIRIPAGVALTGALIKVSTV-LIFSGHATVFIGG 83 (152)
T ss_pred eEEEEeccCceeeeeeeeEeeEE-EEecccEEEEeCC
Confidence 46777889999998777777888 9999999999754
No 61
>PRK13264 3-hydroxyanthranilate 3,4-dioxygenase; Provisional
Probab=43.57 E-value=73 Score=27.86 Aligned_cols=37 Identities=19% Similarity=0.315 Sum_probs=27.1
Q ss_pred CcCCeEEEEeeeEEEEEEc-CCcEEEEEecCCCEecch
Q psy15967 27 DVGKEMYIVKRGKLNVVAD-DEETVLATLSAGSVFGEV 63 (280)
Q Consensus 27 d~~~~iyiIlsG~Vkv~~~-dGe~il~~l~~GD~fGe~ 63 (280)
++.+.++++++|.+.+.-. +|+.-.-.+.+||+|=..
T Consensus 52 ~~tdE~FyqleG~~~l~v~d~g~~~~v~L~eGd~fllP 89 (177)
T PRK13264 52 DPGEEFFYQLEGDMYLKVQEDGKRRDVPIREGEMFLLP 89 (177)
T ss_pred CCCceEEEEECCeEEEEEEcCCceeeEEECCCCEEEeC
Confidence 4567899999999998854 454235678999997444
No 62
>PRK08453 fliD flagellar capping protein; Validated
Probab=42.46 E-value=1.3e+02 Score=31.78 Aligned_cols=97 Identities=13% Similarity=0.076 Sum_probs=53.4
Q ss_pred ceeeechHHHHHHHhhCHHHHHHHHH---------------HHHHHHHHcccchHHHhhchhhhhhhhccHHHHHHHHHH
Q psy15967 134 DLFCLAKRDLWETLADYPEARHSLME---------------RGCQLLRKDGLLDEEAFRNSQVEHEALKDTVRRLDTTLE 198 (280)
Q Consensus 134 ~l~~l~~~~~~~lLa~~~~~~r~~ls---------------r~~~rL~~~gli~~~~~~~~~~~~~~l~~~~~rl~~~l~ 198 (280)
=-+.|+...|.+.|+++|.-...++. -+..+|.. .++.... -....+....+.|...+.
T Consensus 558 G~L~iDe~kL~~AL~~npd~V~~lF~g~~~~~~~g~~~~~~Gi~~rl~~--~L~~~i~----g~~G~l~~~~~sL~~q~k 631 (673)
T PRK08453 558 GVMTLDEAKLSSALNSDPKATQDFFYGSDSKDMGGREIHQEGIFSKFNQ--VIANLID----GGNAKLKIYEDSLTRDAK 631 (673)
T ss_pred CcEEEcHHHHHHHHHHCHHHHHHHhcCCCcccccccccccCcHHHHHHH--HHHHHhc----CCCceehhHHHHHHHHHH
Confidence 34678899999999999988887763 23333333 1111000 001123334444555555
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHhhcccchhccc
Q psy15967 199 HLQTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATS 236 (280)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~t~ 236 (280)
.+.++..++.+++.....++..+.+.+|...+...++.
T Consensus 632 ~L~~q~~~~e~rL~~ry~rl~~qFsAmDs~IsqmNsq~ 669 (673)
T PRK08453 632 SLTKDKENAQELLKTRYDIMAERFAAYDSQISKANQKF 669 (673)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 55555555555555555666666777776665555443
No 63
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=42.23 E-value=18 Score=24.21 Aligned_cols=30 Identities=17% Similarity=0.200 Sum_probs=27.0
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDE 173 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~ 173 (280)
...+++..++++..+.+.+++|.+.|++..
T Consensus 23 ~~~la~~~~vs~~tv~~~l~~L~~~g~i~~ 52 (60)
T smart00345 23 ERELAAQLGVSRTTVREALSRLEAEGLVQR 52 (60)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 578899999999999999999999999853
No 64
>PRK07737 fliD flagellar capping protein; Validated
Probab=41.93 E-value=1.3e+02 Score=30.31 Aligned_cols=101 Identities=13% Similarity=0.216 Sum_probs=55.4
Q ss_pred eeeechHHHHHHHhhCHHHHHHHHH-----------HHHHHHHH--cccchHH---H-hhchhhhhhhhccHHHHHHHHH
Q psy15967 135 LFCLAKRDLWETLADYPEARHSLME-----------RGCQLLRK--DGLLDEE---A-FRNSQVEHEALKDTVRRLDTTL 197 (280)
Q Consensus 135 l~~l~~~~~~~lLa~~~~~~r~~ls-----------r~~~rL~~--~gli~~~---~-~~~~~~~~~~l~~~~~rl~~~l 197 (280)
.+.|+...|.+.|+++|.--..++. -+..+|.+ ...+... . ..........+.+...+++..+
T Consensus 378 ~L~iD~~kl~~Al~~n~~~V~~lF~~~~~~~~~~~~Gia~~l~~~l~~~~~~~~~~~g~g~~~~~~~~l~~~i~~l~~~i 457 (501)
T PRK07737 378 KLEIDETKLRQKIKENPDAVYQLFNSGGSSSNYNEKGIARRLRDTLKETIKSIEQKAGNTTMTNQQFAIGKDLNQIETQI 457 (501)
T ss_pred eEEEcHHHHHHHHHHCHHHHHHHhcCCCCCcccccCcHHHHHHHHHHHHHhhhhhhcCCccccchhHHHHHHHHHHHHHH
Confidence 3578889999999999988776653 23444443 1111100 0 0000011223444455555555
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHhhcccchhccccccccC
Q psy15967 198 EHLQTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSSKRNSQ 242 (280)
Q Consensus 198 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~t~~~~~~~ 242 (280)
..+..|+.+..+ +...+.+.+|...+..+++++-..+|
T Consensus 458 ~~~~~rl~~~e~-------ry~~qf~ale~~~s~mnsq~s~L~~~ 495 (501)
T PRK07737 458 DRFQDRLKQIED-------RYYKKFSAMEKAIQKANEQSMYLMNA 495 (501)
T ss_pred HHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555544 44666667776666666666655544
No 65
>COG3450 Predicted enzyme of the cupin superfamily [General function prediction only]
Probab=41.52 E-value=89 Score=25.44 Aligned_cols=43 Identities=26% Similarity=0.463 Sum_probs=28.9
Q ss_pred eCCCCEEEcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecc
Q psy15967 16 FSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGE 62 (280)
Q Consensus 16 f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe 62 (280)
..+|+.=...++ +.+.-|++|.+.+..++|+.+ .+++||.|=.
T Consensus 52 ~TpG~~r~~y~~--~E~chil~G~v~~T~d~Ge~v--~~~aGD~~~~ 94 (116)
T COG3450 52 CTPGKFRVTYDE--DEFCHILEGRVEVTPDGGEPV--EVRAGDSFVF 94 (116)
T ss_pred ecCccceEEccc--ceEEEEEeeEEEEECCCCeEE--EEcCCCEEEE
Confidence 344444444443 567778999999988888753 5789997633
No 66
>PRK11171 hypothetical protein; Provisional
Probab=41.47 E-value=78 Score=29.04 Aligned_cols=51 Identities=20% Similarity=0.135 Sum_probs=38.5
Q ss_pred CCEEEEeCCCCEEEc-CCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 10 TALNFVFSPGDYICR-KGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~-qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
.+....+++|..+-. ........++|++|...+...+ + ...+.+||++-..
T Consensus 185 ~~~~~~l~PG~~~~~~~~~~~ee~i~Vl~G~~~~~~~~-~--~~~l~~GD~i~~~ 236 (266)
T PRK11171 185 HVNIVTFEPGASIPFVETHVMEHGLYVLEGKGVYRLNN-D--WVEVEAGDFIWMR 236 (266)
T ss_pred EEEEEEECCCCEEccCcCCCceEEEEEEeCEEEEEECC-E--EEEeCCCCEEEEC
Confidence 345578899988865 4666779999999999987543 2 3568899987655
No 67
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=41.07 E-value=19 Score=24.62 Aligned_cols=30 Identities=17% Similarity=0.250 Sum_probs=27.0
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDE 173 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~ 173 (280)
.+.|++..++++..++..+++|.+.|++..
T Consensus 28 ~~~la~~~~is~~~v~~~l~~L~~~G~i~~ 57 (66)
T cd07377 28 ERELAEELGVSRTTVREALRELEAEGLVER 57 (66)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 568899999999999999999999999854
No 68
>PRK08724 fliD flagellar capping protein; Validated
Probab=40.68 E-value=1.8e+02 Score=30.67 Aligned_cols=56 Identities=11% Similarity=0.087 Sum_probs=37.8
Q ss_pred hccHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhcccchhcccccccc
Q psy15967 186 LKDTVRRLDTTLEHLQTRFARLMAEYLSQQAKMKQRLALLEQGASVNQATSSKRNS 241 (280)
Q Consensus 186 l~~~~~rl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~t~~~~~~ 241 (280)
+......|...+..+.++...+..++-..+.+...+.+.+|...+..+.+.+-..+
T Consensus 615 I~~R~~sL~~~i~~l~dqi~~Le~Rle~~E~Ry~~QFtAMD~~msqMnsQ~s~L~s 670 (673)
T PRK08724 615 IRTREKSLREQNYRLNDDQVALDRRMESLEKRTHAKFAAMQDATGKMQGQLGGMMN 670 (673)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445556666777777777777766666777777778888777777766665444
No 69
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=39.95 E-value=20 Score=25.38 Aligned_cols=31 Identities=16% Similarity=0.173 Sum_probs=26.9
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchHH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDEE 174 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~ 174 (280)
...||+.++++...++.++++|.+.|++...
T Consensus 25 ~~~iA~~L~vs~~tvt~ml~~L~~~GlV~~~ 55 (60)
T PF01325_consen 25 TKDIAERLGVSPPTVTEMLKRLAEKGLVEYE 55 (60)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHCCChHHHHHHHHHHHHCCCEEec
Confidence 4689999999999999999999999998654
No 70
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=38.96 E-value=24 Score=23.20 Aligned_cols=29 Identities=24% Similarity=0.302 Sum_probs=25.5
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccch
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLD 172 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~ 172 (280)
...+++..+++...+++.+++|.+.|+|+
T Consensus 20 ~~ela~~~~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 20 QKELAEKLGISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHCcCcC
Confidence 67899999999999999999999999873
No 71
>COG3837 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=38.12 E-value=46 Score=28.63 Aligned_cols=52 Identities=17% Similarity=0.170 Sum_probs=37.0
Q ss_pred CCEEEEeCCCC--EEEcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecchh
Q psy15967 10 TALNFVFSPGD--YICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEVR 64 (280)
Q Consensus 10 ~~~~~~f~kGe--iI~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~~ 64 (280)
..-...++||- ..++-...-+.+++|++|...+.-.+|+ ..++|||+.|...
T Consensus 43 Gvn~~~v~PG~~Ss~~H~Hs~edEfv~ILeGE~~l~~d~~e---~~lrpGD~~gFpA 96 (161)
T COG3837 43 GVNLEIVEPGGESSLRHWHSAEDEFVYILEGEGTLREDGGE---TRLRPGDSAGFPA 96 (161)
T ss_pred ccceEEeCCCCccccccccccCceEEEEEcCceEEEECCee---EEecCCceeeccC
Confidence 34445555553 3444455667899999999998877765 5689999999873
No 72
>PF13730 HTH_36: Helix-turn-helix domain
Probab=36.79 E-value=28 Score=23.44 Aligned_cols=28 Identities=29% Similarity=0.347 Sum_probs=25.7
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccc
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLL 171 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli 171 (280)
.+.|++..++++..+.+.++.|.+.|.|
T Consensus 28 ~~~la~~~g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 28 QETLAKDLGVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred HHHHHHHHCcCHHHHHHHHHHHHHCcCC
Confidence 6789999999999999999999998875
No 73
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=35.71 E-value=2.1e+02 Score=28.52 Aligned_cols=18 Identities=17% Similarity=0.434 Sum_probs=9.0
Q ss_pred cHHHHHHHHHHHHHHHHH
Q psy15967 188 DTVRRLDTTLEHLQTRFA 205 (280)
Q Consensus 188 ~~~~rl~~~l~~~~~~~~ 205 (280)
...+|++..-+++..+|.
T Consensus 424 ~~~~rl~~~e~rl~~qF~ 441 (462)
T PRK08032 424 AVSDSIDATIARYKAQFT 441 (462)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444455555555555554
No 74
>COG2140 Thermophilic glucose-6-phosphate isomerase and related metalloenzymes [Carbohydrate transport and metabolism / General function prediction only]
Probab=34.24 E-value=98 Score=27.83 Aligned_cols=30 Identities=27% Similarity=0.494 Sum_probs=25.5
Q ss_pred eEEEEeeeEEEEE--EcCCcEEEEEecCCCEe
Q psy15967 31 EMYIVKRGKLNVV--ADDEETVLATLSAGSVF 60 (280)
Q Consensus 31 ~iyiIlsG~Vkv~--~~dGe~il~~l~~GD~f 60 (280)
.+|++++|..... +++|+.++..+++||++
T Consensus 105 E~y~vi~G~g~m~v~~~~G~~~v~~~~~Gd~i 136 (209)
T COG2140 105 EIYYVLKGEGRMLVQKPEGEARVIAVRAGDVI 136 (209)
T ss_pred cEEEEEeccEEEEEEcCCCcEEEEEecCCcEE
Confidence 4999999999887 56688888889999975
No 75
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=33.03 E-value=1.1e+02 Score=26.07 Aligned_cols=46 Identities=20% Similarity=0.298 Sum_probs=30.1
Q ss_pred EeCCCCEEEc-CCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 15 VFSPGDYICR-KGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 15 ~f~kGeiI~~-qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
.|.||..... .-.+...+++|++|.+.+.-.+ + ...+.+||++=..
T Consensus 113 ~~~pg~~~~~~~~h~~~E~~~Vl~G~~~~~~~~-~--~~~l~~Gd~~~~~ 159 (185)
T PRK09943 113 TYQPGTTTGERIKHQGEEIGTVLEGEIVLTING-Q--DYHLVAGQSYAIN 159 (185)
T ss_pred EccCCCCcccccccCCcEEEEEEEeEEEEEECC-E--EEEecCCCEEEEc
Confidence 5566664221 1133468899999999987544 2 2568999987555
No 76
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=32.77 E-value=1.2e+02 Score=24.81 Aligned_cols=34 Identities=24% Similarity=0.230 Sum_probs=27.5
Q ss_pred hHHHHHHHhhCHHHHHHHHHHHHHHHHHcccchH
Q psy15967 140 KRDLWETLADYPEARHSLMERGCQLLRKDGLLDE 173 (280)
Q Consensus 140 ~~~~~~lLa~~~~~~r~~lsr~~~rL~~~gli~~ 173 (280)
..++.+.+++..++....+..+++||.+.|++..
T Consensus 21 ~~eI~~~l~~~~~~~~tTv~T~L~rL~~KG~v~~ 54 (130)
T TIGR02698 21 SRDIIRILAEKKDWSDSTIKTLLGRLVDKGCLTT 54 (130)
T ss_pred HHHHHHHHhhccCCcHHHHHHHHHHHHHCCceee
Confidence 3455666777678899999999999999999863
No 77
>COG4101 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=32.16 E-value=90 Score=25.84 Aligned_cols=53 Identities=13% Similarity=0.067 Sum_probs=33.1
Q ss_pred CEEEEeCCCCEEE-cCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 11 ALNFVFSPGDYIC-RKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 11 ~~~~~f~kGeiI~-~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
+...+.++|---- .-.+.-+...++++|.+.+...+.-+.-....|||||=..
T Consensus 48 ~~~vTi~pgAkakaH~H~~hEtaIYvlsG~ah~w~G~rLE~ha~~~pGDf~YiP 101 (142)
T COG4101 48 MHLVTIPPGAKAKAHLHEEHETAIYVLSGEAHTWYGNRLEEHAEVGPGDFFYIP 101 (142)
T ss_pred EEEEeeCCCccccccccccccEEEEEEeceeeeeeccceeeeEEecCCCeEEcC
Confidence 4445555553321 1122345677889999998865643345678999998665
No 78
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=31.07 E-value=37 Score=23.14 Aligned_cols=30 Identities=27% Similarity=0.302 Sum_probs=26.1
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDE 173 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~ 173 (280)
...|++..++....+++.+++|.+.|++.-
T Consensus 24 ~~~la~~l~~~~~~vs~~v~~L~~~Glv~r 53 (62)
T PF12802_consen 24 QSELAERLGISKSTVSRIVKRLEKKGLVER 53 (62)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHCcCHHHHHHHHHHHHHCCCEEE
Confidence 568899999999999999999999999853
No 79
>PRK11171 hypothetical protein; Provisional
Probab=30.56 E-value=1.2e+02 Score=27.76 Aligned_cols=50 Identities=14% Similarity=0.119 Sum_probs=33.0
Q ss_pred CEEEEeCCCCEEEcCCC--cCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 11 ALNFVFSPGDYICRKGD--VGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 11 ~~~~~f~kGeiI~~qGd--~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
+....+++|.-.-.... ..+.+++|++|.+.+.-. |+ ...+.+||.+=..
T Consensus 63 ~~~~~l~PG~~~~~~~h~~~~eE~~~VlsG~l~v~~~-g~--~~~L~~GDsi~~p 114 (266)
T PRK11171 63 QYLVEVEPGGGSDQPEPDEGAETFLFVVEGEITLTLE-GK--THALSEGGYAYLP 114 (266)
T ss_pred EEEEEECCCCcCCCCCCCCCceEEEEEEeCEEEEEEC-CE--EEEECCCCEEEEC
Confidence 35567778765433322 236789999999999853 32 3568888876554
No 80
>PRK06664 fliD flagellar hook-associated protein FliD; Validated
Probab=29.69 E-value=2.9e+02 Score=29.05 Aligned_cols=14 Identities=29% Similarity=0.313 Sum_probs=7.3
Q ss_pred CCeEEEEeeeEEEEE
Q psy15967 29 GKEMYIVKRGKLNVV 43 (280)
Q Consensus 29 ~~~iyiIlsG~Vkv~ 43 (280)
+...-|-+.| +.+.
T Consensus 390 AqDA~itvdG-i~it 403 (661)
T PRK06664 390 AKDAKIKFDG-VEVE 403 (661)
T ss_pred ccccEEEECC-EEEE
Confidence 4445555666 3444
No 81
>COG1345 FliD Flagellar capping protein [Cell motility and secretion]
Probab=28.40 E-value=3.4e+02 Score=27.39 Aligned_cols=85 Identities=14% Similarity=0.278 Sum_probs=47.4
Q ss_pred ceeeechHHHHHHHhhCHHHHHHHHHH----------HHHH----HHHc-ccchHHHhhchhhhhhhhccHHHHHHHHHH
Q psy15967 134 DLFCLAKRDLWETLADYPEARHSLMER----------GCQL----LRKD-GLLDEEAFRNSQVEHEALKDTVRRLDTTLE 198 (280)
Q Consensus 134 ~l~~l~~~~~~~lLa~~~~~~r~~lsr----------~~~r----L~~~-gli~~~~~~~~~~~~~~l~~~~~rl~~~l~ 198 (280)
=.+.|+...|.+.|.++|.-.++++.- +..- +... |.+. .....+.....+|+..+.
T Consensus 368 G~LeiDe~KL~~al~~~p~~v~~~F~gd~~~~Gia~~l~~~l~s~~~~t~g~i~--------~~~~~l~~~i~~l~~~i~ 439 (483)
T COG1345 368 GTLEIDEAKLKAALNEDPDSVREFFGGDGKDTGIAKTLGEGLNSLLAVTGGIIT--------GRTDSLNKQIKSLDKDIK 439 (483)
T ss_pred ceEEECHHHHHHHHHhChHHHHHHhcCCccccchHHHHhhhhHHHHhhccceee--------ccccchhHHHHHHHHHHH
Confidence 357889999999999999888877655 1111 1112 2222 122334445555555555
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHh
Q psy15967 199 HLQTRFARLMAEYLSQQAKMKQRLALLE 226 (280)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~e 226 (280)
++.+|+....++|..+...|...++.+.
T Consensus 440 ~~~~rl~~~e~~~~~qf~~m~~~~~~m~ 467 (483)
T COG1345 440 SLDKRLEAAEERYKTQFNTLDDMMTQMN 467 (483)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555555555555444444444444443
No 82
>PF01050 MannoseP_isomer: Mannose-6-phosphate isomerase; InterPro: IPR001538 Mannose-6-phosphate isomerase or phosphomannose isomerase (5.3.1.8 from EC) (PMI) is the enzyme that catalyses the interconversion of mannose-6-phosphate and fructose-6-phosphate. In eukaryotes PMI is involved in the synthesis of GDP-mannose, a constituent of N- and O-linked glycans and GPI anchors and in prokaryotes it participates in a variety of pathways, including capsular polysaccharide biosynthesis and D-mannose metabolism. PMI's belong to the cupin superfamily whose functions range from isomerase and epimerase activities involved in the modification of cell wall carbohydrates in bacteria and plants, to non-enzymatic storage proteins in plant seeds, and transcription factors linked to congenital baldness in mammals []. Three classes of PMI have been defined []. The type II phosphomannose isomerases are bifunctional enzymes 5.3.1.8 from EC. This entry covers the isomerase region of the protein []. The guanosine diphospho-D-mannose pyrophosphorylase region is described in another InterPro entry (see IPR005836 from INTERPRO).; GO: 0016779 nucleotidyltransferase activity, 0005976 polysaccharide metabolic process
Probab=28.16 E-value=2.3e+02 Score=23.91 Aligned_cols=48 Identities=25% Similarity=0.336 Sum_probs=35.2
Q ss_pred CCEEEEeCCCCEEEcC-CCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEe
Q psy15967 10 TALNFVFSPGDYICRK-GDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVF 60 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~q-Gd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~f 60 (280)
..+...+.||.-|-.+ .......++|++|..++...|. ...+.+||.+
T Consensus 64 ~vkri~V~pG~~lSlq~H~~R~E~W~Vv~G~a~v~~~~~---~~~~~~g~sv 112 (151)
T PF01050_consen 64 KVKRITVNPGKRLSLQYHHHRSEHWTVVSGTAEVTLDDE---EFTLKEGDSV 112 (151)
T ss_pred EEEEEEEcCCCccceeeecccccEEEEEeCeEEEEECCE---EEEEcCCCEE
Confidence 4566778899888544 5667788999999999996552 2456777764
No 83
>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=27.95 E-value=1.7e+02 Score=26.79 Aligned_cols=52 Identities=19% Similarity=0.095 Sum_probs=37.3
Q ss_pred cCCEEEEeCCCCEEE-cCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 9 YTALNFVFSPGDYIC-RKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 9 ~~~~~~~f~kGeiI~-~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
..+...+++||..+- .+-..-.+.++|++|+..+.. ||+ ...+.+||++=..
T Consensus 179 ~~~~~~~~~PG~~~~~~~~H~~eh~~yiL~G~G~~~~-~g~--~~~V~~GD~i~i~ 231 (260)
T TIGR03214 179 MNVHILSFEPGASHPYIETHVMEHGLYVLEGKGVYNL-DNN--WVPVEAGDYIWMG 231 (260)
T ss_pred cEEEEEEECCCcccCCcccccceeEEEEEeceEEEEE-CCE--EEEecCCCEEEEC
Confidence 356678999999994 455556788999999998754 443 3567899985443
No 84
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=27.70 E-value=45 Score=23.33 Aligned_cols=31 Identities=16% Similarity=0.264 Sum_probs=26.8
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchHH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDEE 174 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~~ 174 (280)
...|++..++++..+.+++.+|.++|++...
T Consensus 27 ~~~la~~~~vsr~tvr~al~~L~~~g~i~~~ 57 (64)
T PF00392_consen 27 ERELAERYGVSRTTVREALRRLEAEGLIERR 57 (64)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHhccCCcHHHHHHHHHHHCCcEEEE
Confidence 5789999999999999999999999998643
No 85
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=27.17 E-value=48 Score=22.46 Aligned_cols=30 Identities=27% Similarity=0.294 Sum_probs=25.9
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDE 173 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~ 173 (280)
...|++..++++..+++.+++|.+.|+|.-
T Consensus 20 ~~~la~~~~~~~~~~t~~i~~L~~~g~I~r 49 (59)
T PF01047_consen 20 QSELAEKLGISRSTVTRIIKRLEKKGLIER 49 (59)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHCCChhHHHHHHHHHHHCCCEEe
Confidence 468899999999999999999999999853
No 86
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=26.35 E-value=1.8e+02 Score=21.57 Aligned_cols=31 Identities=23% Similarity=0.310 Sum_probs=26.6
Q ss_pred HHHhhCHHHHHHHHHHHHHHHHHcccchHHH
Q psy15967 145 ETLADYPEARHSLMERGCQLLRKDGLLDEEA 175 (280)
Q Consensus 145 ~lLa~~~~~~r~~lsr~~~rL~~~gli~~~~ 175 (280)
..+++..++++..+++.+.+|.+.|+|....
T Consensus 3 ~ela~~l~is~stvs~~l~~L~~~glI~r~~ 33 (96)
T smart00529 3 SEIAERLNVSPPTVTQMLKKLEKDGLVEYEP 33 (96)
T ss_pred HHHHHHhCCChHHHHHHHHHHHHCCCEEEcC
Confidence 4677888999999999999999999986544
No 87
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=26.00 E-value=49 Score=21.79 Aligned_cols=29 Identities=24% Similarity=0.290 Sum_probs=25.0
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccch
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLD 172 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~ 172 (280)
-..+++..++++..+++-++.|++.|++.
T Consensus 18 ~~el~~~l~~s~~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 18 VSELAEELGLSQSTVSHHLKKLREAGLVE 46 (47)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred hhhHHHhccccchHHHHHHHHHHHCcCee
Confidence 45888999999999999999999999874
No 88
>CHL00024 psbI photosystem II protein I
Probab=25.51 E-value=20 Score=23.16 Aligned_cols=16 Identities=44% Similarity=0.719 Sum_probs=11.6
Q ss_pred eeeccCccCCCcccccCCCC
Q psy15967 256 CLLSPGFLSDGLVEDTTTSP 275 (280)
Q Consensus 256 ~~~~~~~~~~~~~~~~~~~~ 275 (280)
||+++||||. |.+..|
T Consensus 17 sLFifGFlsn----Dp~RnP 32 (36)
T CHL00024 17 SLFIFGFLSN----DPGRNP 32 (36)
T ss_pred HHHHccccCC----CCCCCC
Confidence 7899999985 444444
No 89
>KOG4196|consensus
Probab=25.39 E-value=4e+02 Score=22.24 Aligned_cols=79 Identities=22% Similarity=0.246 Sum_probs=54.7
Q ss_pred EEccccceeeechHHHHHHHhhCHHHHHHHHHHHHHHHHH---cccchHHHhhchh-hhhhhhccHHHHHHHHHHHHHHH
Q psy15967 128 RSLGYSDLFCLAKRDLWETLADYPEARHSLMERGCQLLRK---DGLLDEEAFRNSQ-VEHEALKDTVRRLDTTLEHLQTR 203 (280)
Q Consensus 128 ~alt~s~l~~l~~~~~~~lLa~~~~~~r~~lsr~~~rL~~---~gli~~~~~~~~~-~~~~~l~~~~~rl~~~l~~~~~~ 203 (280)
-.++|-.|.+|+-++|.+.| -|++++-+-++-++=+. .|.-. .-++.. .+...|+.....|...+++|...
T Consensus 22 d~lsDd~LvsmSVReLNr~L---rG~~reEVvrlKQrRRTLKNRGYA~--sCR~KRv~Qk~eLE~~k~~L~qqv~~L~~e 96 (135)
T KOG4196|consen 22 DRLSDDELVSMSVRELNRHL---RGLSREEVVRLKQRRRTLKNRGYAQ--SCRVKRVQQKHELEKEKAELQQQVEKLKEE 96 (135)
T ss_pred CCcCHHHHHHhhHHHHHHHh---cCCCHHHHHHHHHHHHHHhhhhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36788889999988777744 56777766666655333 34322 222222 34677888899999999999998
Q ss_pred HHHHHHHH
Q psy15967 204 FARLMAEY 211 (280)
Q Consensus 204 ~~~~~~~~ 211 (280)
.+++..|.
T Consensus 97 ~s~~~~E~ 104 (135)
T KOG4196|consen 97 NSRLRREL 104 (135)
T ss_pred HHHHHHHH
Confidence 88887773
No 90
>COG3030 FxsA Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]
Probab=25.38 E-value=11 Score=32.27 Aligned_cols=12 Identities=50% Similarity=0.894 Sum_probs=9.9
Q ss_pred CceeeccCccCC
Q psy15967 254 SKCLLSPGFLSD 265 (280)
Q Consensus 254 ~~~~~~~~~~~~ 265 (280)
.-||++|||++|
T Consensus 82 giLLl~PGFvTd 93 (158)
T COG3030 82 GILLLIPGFVTD 93 (158)
T ss_pred HHHHHcchHHHH
Confidence 357899999987
No 91
>PRK10870 transcriptional repressor MprA; Provisional
Probab=24.41 E-value=2e+02 Score=24.56 Aligned_cols=30 Identities=17% Similarity=0.100 Sum_probs=27.1
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDE 173 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~ 173 (280)
...|++..++.+..+++++.+|.+.|+|.-
T Consensus 74 ~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R 103 (176)
T PRK10870 74 PSELSCALGSSRTNATRIADELEKRGWIER 103 (176)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 468899999999999999999999999853
No 92
>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=24.35 E-value=1.4e+02 Score=26.47 Aligned_cols=47 Identities=15% Similarity=0.191 Sum_probs=35.8
Q ss_pred CCEEEEeCCCCEEEcCCCcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 10 TALNFVFSPGDYICRKGDVGKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 10 ~~~~~~f~kGeiI~~qGd~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
......+++|..+-........+.+|++|... +++| .+.+|||+=..
T Consensus 128 ~v~Ll~i~pG~~~p~H~H~G~E~tlVLeG~f~--de~g-----~y~~Gd~i~~p 174 (215)
T TIGR02451 128 RVRLLYIEAGQSIPQHTHKGFELTLVLHGAFS--DETG-----VYGVGDFEEAD 174 (215)
T ss_pred EEEEEEECCCCccCCCcCCCcEEEEEEEEEEE--cCCC-----ccCCCeEEECC
Confidence 45677889999998888888889999999953 3332 47889886554
No 93
>PF02311 AraC_binding: AraC-like ligand binding domain; InterPro: IPR003313 This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC. The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1XJA_B 2ARA_A 2AAC_B 2ARC_A.
Probab=23.91 E-value=1.3e+02 Score=22.82 Aligned_cols=31 Identities=26% Similarity=0.294 Sum_probs=18.4
Q ss_pred CcCCeEEEEeeeEEEEEEcCCcEEEEEecCCCEe
Q psy15967 27 DVGKEMYIVKRGKLNVVADDEETVLATLSAGSVF 60 (280)
Q Consensus 27 d~~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~f 60 (280)
...-.+.++.+|...+...+++ ..+.|||+|
T Consensus 21 h~~~~i~~v~~G~~~~~~~~~~---~~l~~g~~~ 51 (136)
T PF02311_consen 21 HDFYEIIYVLSGEGTLHIDGQE---YPLKPGDLF 51 (136)
T ss_dssp T-SEEEEEEEEE-EEEEETTEE---EEE-TT-EE
T ss_pred CCCEEEEEEeCCEEEEEECCEE---EEEECCEEE
Confidence 3355788999999998654432 556777765
No 94
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=23.59 E-value=39 Score=31.96 Aligned_cols=30 Identities=10% Similarity=0.069 Sum_probs=28.0
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDE 173 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~ 173 (280)
++.+|+.++++|..++|++++-++.|+++.
T Consensus 32 Q~eIA~~lgiSR~~VsRlL~~Ar~~GiV~I 61 (318)
T PRK15418 32 QSEIGERLGLTRLKVSRLLEKGRQSGIIRV 61 (318)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHcCcEEE
Confidence 889999999999999999999999998743
No 95
>PF08222 HTH_CodY: CodY helix-turn-helix domain; InterPro: IPR013198 This family consists of the C-terminal helix-turn-helix domain found in several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; PDB: 2B0L_C.
Probab=21.75 E-value=84 Score=22.60 Aligned_cols=30 Identities=17% Similarity=0.262 Sum_probs=25.0
Q ss_pred HHHHhhCHHHHHHHHHHHHHHHHHcccchH
Q psy15967 144 WETLADYPEARHSLMERGCQLLRKDGLLDE 173 (280)
Q Consensus 144 ~~lLa~~~~~~r~~lsr~~~rL~~~gli~~ 173 (280)
-..+|+..+++|.++-..+++|...|+|+.
T Consensus 7 as~iAd~~GiTRSvIVNALRKleSaGvIes 36 (61)
T PF08222_consen 7 ASKIADRVGITRSVIVNALRKLESAGVIES 36 (61)
T ss_dssp HHHHHHHHT--HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHhCccHHHHHHHHHHHHhcCceee
Confidence 357899999999999999999999999964
No 96
>PF13128 DUF3954: Protein of unknown function (DUF3954)
Probab=20.43 E-value=1.8e+02 Score=20.19 Aligned_cols=24 Identities=29% Similarity=0.614 Sum_probs=17.8
Q ss_pred CCeEEEEeeeEEEEEE-cC---CcEEEE
Q psy15967 29 GKEMYIVKRGKLNVVA-DD---EETVLA 52 (280)
Q Consensus 29 ~~~iyiIlsG~Vkv~~-~d---Ge~il~ 52 (280)
.+.+|+|.+|.+.... +. |++++.
T Consensus 9 ~ngiYiV~~G~v~~i~pP~sGfGeq~~~ 36 (50)
T PF13128_consen 9 ENGIYIVKDGEVTFIEPPESGFGEQVIV 36 (50)
T ss_pred CCeEEEEECCeEEEcCCCCCCcceEEEE
Confidence 4789999999999884 22 566543
No 97
>PF11699 CENP-C_C: Mif2/CENP-C like; PDB: 2VPV_B.
Probab=20.13 E-value=2.3e+02 Score=21.64 Aligned_cols=32 Identities=19% Similarity=0.349 Sum_probs=20.6
Q ss_pred CCeEEEEeeeEEEEEEcCCcEEEEEecCCCEecch
Q psy15967 29 GKEMYIVKRGKLNVVADDEETVLATLSAGSVFGEV 63 (280)
Q Consensus 29 ~~~iyiIlsG~Vkv~~~dGe~il~~l~~GD~fGe~ 63 (280)
...+++|++|.|++.-.+. -..+.+|++|=-.
T Consensus 33 ~~~vF~V~~G~v~Vti~~~---~f~v~~G~~F~VP 64 (85)
T PF11699_consen 33 NTMVFYVIKGKVEVTIHET---SFVVTKGGSFQVP 64 (85)
T ss_dssp EEEEEEEEESEEEEEETTE---EEEEETT-EEEE-
T ss_pred cEEEEEEEeCEEEEEEcCc---EEEEeCCCEEEEC
Confidence 3457899999999985442 2346778776433
Done!