Query psy680
Match_columns 122
No_of_seqs 102 out of 1022
Neff 8.0
Searched_HMMs 46136
Date Fri Aug 16 18:41:04 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy680.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/680hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK11061 fused phosphoenolpyru 99.4 1.6E-12 3.4E-17 109.0 7.9 92 2-101 7-98 (748)
2 TIGR01817 nifA Nif-specific re 99.2 2.1E-11 4.6E-16 98.8 6.1 92 2-102 9-100 (534)
3 COG3605 PtsP Signal transducti 99.1 4.2E-10 9E-15 91.2 7.0 91 2-100 7-97 (756)
4 PF01590 GAF: GAF domain; Int 98.7 3.3E-08 7.3E-13 66.1 6.0 87 12-106 1-87 (154)
5 PRK15429 formate hydrogenlyase 98.6 1.1E-07 2.3E-12 79.4 6.5 92 1-99 188-280 (686)
6 KOG3689|consensus 98.4 1.2E-07 2.6E-12 78.8 1.7 97 9-109 3-100 (707)
7 COG1956 GAF domain-containing 98.4 2E-06 4.3E-11 59.8 6.9 58 30-101 51-108 (163)
8 PRK05022 anaerobic nitric oxid 98.2 3.9E-06 8.4E-11 68.0 5.8 89 1-100 7-96 (509)
9 PRK15429 formate hydrogenlyase 98.1 9.7E-06 2.1E-10 67.8 7.1 92 1-100 12-103 (686)
10 PF13492 GAF_3: GAF domain; PD 98.1 9E-06 2E-10 52.6 5.3 76 12-97 1-76 (129)
11 KOG3689|consensus 97.9 2.3E-06 4.9E-11 71.3 0.4 100 2-104 171-275 (707)
12 smart00065 GAF Domain present 97.9 5.3E-05 1.1E-09 48.3 6.7 78 12-97 1-78 (149)
13 PF13185 GAF_2: GAF domain; PD 97.0 0.0027 5.8E-08 41.8 5.7 32 11-42 2-33 (148)
14 COG3604 FhlA Transcriptional r 97.0 0.00089 1.9E-08 54.3 3.7 93 2-104 38-130 (550)
15 COG2203 FhlA FOG: GAF domain [ 94.8 0.018 3.9E-07 37.7 1.7 96 2-101 8-104 (175)
16 TIGR02916 PEP_his_kin putative 87.8 0.75 1.6E-05 38.6 4.0 41 2-42 309-349 (679)
17 PF14215 bHLH-MYC_N: bHLH-MYC 86.3 0.83 1.8E-05 31.9 2.9 28 69-96 85-112 (163)
18 COG4251 Bacteriophytochrome (l 84.3 2.8 6.1E-05 35.6 5.5 39 6-44 141-179 (750)
19 PF11044 TMEMspv1-c74-12: Plec 70.6 3.8 8.2E-05 22.5 1.7 13 109-121 34-46 (49)
20 PF04340 DUF484: Protein of un 68.1 16 0.00034 26.5 5.1 40 3-42 83-122 (225)
21 PRK13558 bacterio-opsin activa 67.3 30 0.00065 28.8 7.2 39 4-42 294-332 (665)
22 PF11849 DUF3369: Domain of un 51.1 32 0.0007 23.9 4.1 36 2-37 26-61 (174)
23 TIGR02431 pcaR_pcaU beta-ketoa 50.6 52 0.0011 24.0 5.3 79 2-87 69-147 (248)
24 COG1414 IclR Transcriptional r 50.4 44 0.00095 24.6 4.9 79 2-87 66-144 (246)
25 PF12221 HflK_N: Bacterial mem 46.3 23 0.00049 19.2 2.1 19 11-29 21-39 (42)
26 PRK10490 sensor protein KdpD; 42.1 55 0.0012 28.8 4.9 38 2-40 517-554 (895)
27 COG2205 KdpD Osmosensitive K+ 40.7 59 0.0013 28.7 4.8 40 1-41 513-552 (890)
28 PRK10163 DNA-binding transcrip 40.3 94 0.002 23.1 5.4 78 2-86 87-164 (271)
29 PRK11569 transcriptional repre 33.5 1.5E+02 0.0032 22.0 5.6 81 2-87 90-170 (274)
30 PRK15090 DNA-binding transcrip 31.9 1.2E+02 0.0026 22.2 4.8 79 2-87 75-153 (257)
31 PRK10600 nitrate/nitrite senso 31.1 90 0.0019 25.5 4.3 40 2-41 224-263 (569)
32 COG3851 UhpB Signal transducti 30.9 1.4E+02 0.0031 24.2 5.1 30 11-40 409-438 (497)
33 PRK10963 hypothetical protein; 28.4 1.6E+02 0.0036 21.3 4.9 38 3-41 80-117 (223)
34 KOG1534|consensus 27.3 86 0.0019 23.5 3.2 25 15-40 116-140 (273)
35 COG1942 Uncharacterized protei 26.0 1.3E+02 0.0027 18.0 3.3 26 14-39 19-44 (69)
36 PF00360 PHY: Phytochrome regi 24.0 35 0.00077 24.0 0.7 37 2-38 7-43 (182)
37 PF12868 DUF3824: Domain of un 23.3 50 0.0011 22.5 1.3 9 110-118 30-38 (137)
38 KOG3045|consensus 23.0 42 0.00092 25.8 1.0 13 103-115 32-44 (325)
39 KOG3360|consensus 20.0 61 0.0013 20.8 1.1 13 75-87 34-46 (98)
No 1
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=99.37 E-value=1.6e-12 Score=109.01 Aligned_cols=92 Identities=22% Similarity=0.357 Sum_probs=76.3
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+|++.|++..|++++|..+++.+++++++++|+||++|+++ ..+...+ .. ++.......+++++|+|++|+|
T Consensus 7 eIs~~L~s~~dL~e~L~~Iv~~~~~~l~~d~~sI~L~D~~~---~~L~~~a---s~--Gl~~~~~~~~~l~~geGi~G~V 78 (748)
T PRK11061 7 EIVEKVASAPRLNEALDILVTETCLAMDTEVCSVYLADHDR---RCYYLMA---TR--GLKKPRGRTVTLAFDEGIVGLV 78 (748)
T ss_pred HHHHHHhccCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCC---CEEEEEE---ee--CCChHhccceeccCCcchHHHH
Confidence 68899999999999999999999999999999999999865 3344332 12 2211144567899999999999
Q ss_pred eccCCeEeccCCCCCCCCCh
Q psy680 82 AVTGETVNLQKKKEKKKKKK 101 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~rF~~ 101 (122)
+.+|+|++|+|+..||+|..
T Consensus 79 a~tg~pV~V~Dv~~dprf~~ 98 (748)
T PRK11061 79 GRLAEPINLADAQKHPSFKY 98 (748)
T ss_pred hccCceEEECCcccCccccc
Confidence 99999999999999999964
No 2
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=99.21 E-value=2.1e-11 Score=98.77 Aligned_cols=92 Identities=11% Similarity=0.140 Sum_probs=74.5
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+|++.|+...|++++++.+++.+.+++++++|+|+++|++. ..+....++... ......++++++|++|+|
T Consensus 9 ~is~~l~~~~dl~~lL~~il~~l~~~l~a~~~~I~L~d~~~---~~l~~aa~g~~~------~~~~~~~~~~~~gi~g~v 79 (534)
T TIGR01817 9 EISKILSAPTRLEKTLANVLNVLSNDLGMRHGLITLSDSEG---EPLLVAAIGWSE------EGFAPIRYRVGEGAIGQI 79 (534)
T ss_pred HHHHHHhccCCHHHHHHHHHHHHHHhcCCCEEEEEEECCCC---CEEEEEEeCCCh------hhcccccccCCccHHHHH
Confidence 68889999999999999999999999999999999998853 233322322211 123346788999999999
Q ss_pred eccCCeEeccCCCCCCCCChH
Q psy680 82 AVTGETVNLQKKKEKKKKKKK 102 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~rF~~~ 102 (122)
+.+|+|++|+|+..||+|...
T Consensus 80 ~~~~~pvii~Dv~~d~~~~~~ 100 (534)
T TIGR01817 80 VATGNSLVVPDVAAEPLFLDR 100 (534)
T ss_pred HhcCCeEEecccccCchhhhc
Confidence 999999999999999999653
No 3
>COG3605 PtsP Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]
Probab=99.06 E-value=4.2e-10 Score=91.23 Aligned_cols=91 Identities=22% Similarity=0.372 Sum_probs=75.5
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+|...+.+..++.+.|..|+.+++..|.++.||+|+.+.+. .-.+|++ +. |+.+.....+.+.+|+|++|.|
T Consensus 7 ~i~E~va~~~~~qe~Ld~iVr~i~~aM~tEVCSvYl~~~d~-~~leL~A-----Te--GLnk~av~~~~l~~~eGLVG~v 78 (756)
T COG3605 7 RIVEKVASALELQEALDIIVRDIALAMVTEVCSVYLLRADR-RVLELMA-----TE--GLNKPAVHLVQLAFGEGLVGLV 78 (756)
T ss_pred HHHHHHhcccCHHHHHHHHHHHHHHHhhhhheeEEEEcCCC-cEEEEEe-----cc--ccCccccceEEecCCCchhhhh
Confidence 46677788899999999999999999999999999999864 1123432 22 4443366788999999999999
Q ss_pred eccCCeEeccCCCCCCCCC
Q psy680 82 AVTGETVNLQKKKEKKKKK 100 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~rF~ 100 (122)
+++.+|+|..|+.+||.|.
T Consensus 79 ~~~aePlNLsdAqsHPsF~ 97 (756)
T COG3605 79 GRSAEPLNLADAQSHPSFK 97 (756)
T ss_pred hhccCCCChhhhhhCCccc
Confidence 9999999999999999984
No 4
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases. cGMP-dependent 3',5'-cyclic phosphodiesterase (3.1.4.17 from EC) catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. A phytochrome is a regulatory photoreceptor which exists in 2 forms that are reversibly interconvertible by light, the PR form that absorbs maximally in the red region of the spectrum, and the PFR form that absorbs maximally in the far-red region. This domain is also found in NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54.; GO: 0005515 protein binding; PDB: 2Y8H_A 3DBA_B 3CI6_A 3E0Y_B 2W3G_B 2W3D_A 2W3E_A 2Y79_B 2W3H_A 2W3F_A ....
Probab=98.73 E-value=3.3e-08 Score=66.14 Aligned_cols=87 Identities=18% Similarity=0.196 Sum_probs=67.1
Q ss_pred CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEecc
Q psy680 12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91 (122)
Q Consensus 12 dl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i~ 91 (122)
|+++++..+++.+.+++++++|+|+++|++. ..+....-.... ........++.+.+++++++.+++|++|+
T Consensus 1 Dl~~~l~~~~~~l~~~l~~~~~~i~~~d~~~---~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ 72 (154)
T PF01590_consen 1 DLDELLQRILRELAELLGADRASIFLLDPDG---NRLYSVAGVGLP-----DPPPGGRRLSMDESICGQVLQSREPIVIS 72 (154)
T ss_dssp SHHHHHHHHHHHHHHHHTESEEEEEEEETTT---TEEEEEEEEEGG-----GSEHHHEEEETTSSHHHHHHHHTSCEEES
T ss_pred CHHHHHHHHHHHHHHHHCCCEEEEEEEecCC---CeEEEEEeeccc-----ccccccccccccccHHHHHHhCCCeEeec
Confidence 7899999999999999999999999999865 223211101111 11234567788889999999999999999
Q ss_pred CCCCCCCCChHHHHh
Q psy680 92 KKKEKKKKKKKKKKK 106 (122)
Q Consensus 92 Dv~~d~rF~~~~~~~ 106 (122)
|+..+|+|.......
T Consensus 73 d~~~~~~~~~~~~~~ 87 (154)
T PF01590_consen 73 DVAADPRFAPQIAAQ 87 (154)
T ss_dssp SSGGSTTSSCHHHHH
T ss_pred ccccccccccccccc
Confidence 999999998776543
No 5
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=98.59 E-value=1.1e-07 Score=79.40 Aligned_cols=92 Identities=16% Similarity=0.185 Sum_probs=68.7
Q ss_pred ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeee-eccccCCCcccCCCceeeeeCCCceee
Q psy680 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKV-FDLHSGAGLVYSTADEVEVPWGVGILG 79 (122)
Q Consensus 1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~-f~~~~~~~~~~~~~~~i~~~~g~GI~G 79 (122)
++|++.+.+..|+++++..+++.+.+++++++|+|+++|++. + .|...+ ++... ... ......++.+.|++|
T Consensus 188 ~eIs~~l~s~~dl~ell~~I~~~i~~~~~a~~~~I~L~d~~~-~--~L~~~aa~g~~~--~~~--~~~~~~~~~~~~l~g 260 (686)
T PRK15429 188 VAITNAVLSRLDMDELVSEVAKEIHYYFDIDAISIVLRSHRK-N--KLNIYSTHYLDK--QHP--AHEQSEVDEAGTLTE 260 (686)
T ss_pred HHHHHHHccCCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCC-C--cEEEEEecccCh--hhc--ccccccCCcccchHH
Confidence 368888889999999999999999999999999999999865 2 333221 11100 000 222345566779999
Q ss_pred eeeccCCeEeccCCCCCCCC
Q psy680 80 HVAVTGETVNLQKKKEKKKK 99 (122)
Q Consensus 80 ~Va~tg~pi~i~Dv~~d~rF 99 (122)
+|+++|+|++++|+..|++.
T Consensus 261 ~V~~~~~p~lv~~~~~d~~~ 280 (686)
T PRK15429 261 RVFKSKEMLLINLHERDDLA 280 (686)
T ss_pred HHHhcCceEEEECccCcccc
Confidence 99999999999998877653
No 6
>KOG3689|consensus
Probab=98.39 E-value=1.2e-07 Score=78.80 Aligned_cols=97 Identities=34% Similarity=0.520 Sum_probs=72.9
Q ss_pred hccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccC-CCceeeeeCCCceeeeeeccCCe
Q psy680 9 RDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYS-TADEVEVPWGVGILGHVAVTGET 87 (122)
Q Consensus 9 ~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~-~~~~i~~~~g~GI~G~Va~tg~p 87 (122)
++++.+.+-..++..++-+++++||+.|++ + +| .++....+...++...... .....+++++.||+|||+.++++
T Consensus 3 ~~l~~~~~~~~~l~~~~~l~~a~r~~~f~~-~--~g-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~a~~~~~ 78 (707)
T KOG3689|consen 3 SSLDTEALCHKILQRVAGLLQADRCSLFLV-R--NG-AELASRLISVLPDVCEESTLEEPDNRFPWGKGIVGHVAETGET 78 (707)
T ss_pred cccccccccchhhhhccccCCCCCcCeeee-c--cC-ccccccccccCcccccccccccccccccccceeeeeecccccc
Confidence 456778888999999999999999999999 3 34 4555444443333222110 11112889999999999999999
Q ss_pred EeccCCCCCCCCChHHHHhHHH
Q psy680 88 VNLQKKKEKKKKKKKKKKKKKK 109 (122)
Q Consensus 88 i~i~Dv~~d~rF~~~~~~~~~~ 109 (122)
.+++|+.+|++|...+|...-.
T Consensus 79 ~~~~~~~~~~~f~~~~d~~t~~ 100 (707)
T KOG3689|consen 79 LNIPDAYEDSRFNSETDKLTGY 100 (707)
T ss_pred cCccccccccccccccccccCC
Confidence 9999999999999999887643
No 7
>COG1956 GAF domain-containing protein [Signal transduction mechanisms]
Probab=98.36 E-value=2e-06 Score=59.78 Aligned_cols=58 Identities=26% Similarity=0.388 Sum_probs=48.9
Q ss_pred CCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEeccCCCCCCCCCh
Q psy680 30 ADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKKKKK 101 (122)
Q Consensus 30 ~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i~Dv~~d~rF~~ 101 (122)
..++.+|+++. .+|+...|.+. ..-+++|+|+||+|.+++++++++|.||+..|.+..
T Consensus 51 ~nW~GFYl~~~-----~~LvLgPFqG~---------~acv~I~~GkGVCg~A~~~~~t~~V~DV~~~~ghia 108 (163)
T COG1956 51 VNWVGFYLLEG-----DELVLGPFQGK---------VACVRIPFGKGVCGTAAATGETVRVDDVHAFPGHIA 108 (163)
T ss_pred CceEEEEEecC-----CeEEEecccCC---------cceEEeccCcchhHHHHhcCCeEEecccccCCCccc
Confidence 77889999994 36887777653 356789999999999999999999999999988753
No 8
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=98.16 E-value=3.9e-06 Score=68.04 Aligned_cols=89 Identities=15% Similarity=0.207 Sum_probs=69.3
Q ss_pred ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCc-eee
Q psy680 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVG-ILG 79 (122)
Q Consensus 1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~G-I~G 79 (122)
+++++.|++++|++++|..++..+.+++.++.++|+++++.. ...++ . . ++.+ ......++.++| ++|
T Consensus 7 ~eis~~L~~s~d~~e~L~~vl~~l~~~l~~~~~~l~l~~~~~---l~~~a-s----~--gl~~-~~~~~~~~~geGP~l~ 75 (509)
T PRK05022 7 LPIALDLSRGLPHQDRFQRLLTTLRQVLPCDASALLRLDGDQ---LVPLA-I----D--GLSP-DVLGRRFALEEHPRLE 75 (509)
T ss_pred HHHHHHHhcCCCHHHHHHHHHHHHHHHcCCCEEEEEecCCCc---EEEEE-E----c--CCCh-HhhCCccCCCcchHHH
Confidence 478999999999999999999999999999999999998521 22221 1 1 1111 123347889998 899
Q ss_pred eeeccCCeEeccCCCCCCCCC
Q psy680 80 HVAVTGETVNLQKKKEKKKKK 100 (122)
Q Consensus 80 ~Va~tg~pi~i~Dv~~d~rF~ 100 (122)
.|+++|+|+.|+|...+|.|.
T Consensus 76 av~~~g~~v~v~~~~~~p~~~ 96 (509)
T PRK05022 76 AILRAGDPVRFPADSELPDPY 96 (509)
T ss_pred HHHhcCCeEEEecCCCCCccc
Confidence 999999999999988888864
No 9
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=98.10 E-value=9.7e-06 Score=67.81 Aligned_cols=92 Identities=16% Similarity=0.089 Sum_probs=67.1
Q ss_pred ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH 80 (122)
Q Consensus 1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~ 80 (122)
|+|++.+.+..|+++++..+...+.+++.+|+++|.++|+.+ + ..+. |.... ...+ ....-...+++|++|+
T Consensus 12 ~~is~~~~~~~~~~~l~~~l~~~~~~~~~ad~~~i~l~d~~~-~---~~~~-~~~~~--~~~~-~~~~~~~~~~~g~~g~ 83 (686)
T PRK15429 12 FDITRTLLQQPDLASLCEALSQLVKRSALADNAAIVLWQAQT-Q---RASY-YASRE--KGTP-VKYEDETVLAHGPVRR 83 (686)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHhhcccceEEEEEEcCCC-C---eeee-eeccc--cccc-hhccchhhhccCcceE
Confidence 578899999999999999999999999999999999999965 2 2221 22211 1111 1111234578999999
Q ss_pred eeccCCeEeccCCCCCCCCC
Q psy680 81 VAVTGETVNLQKKKEKKKKK 100 (122)
Q Consensus 81 Va~tg~pi~i~Dv~~d~rF~ 100 (122)
|.++++|+.+++..-..+|+
T Consensus 84 vl~~~~~l~~~~~~~~~~~~ 103 (686)
T PRK15429 84 ILSRPDTLHCSYEEFCETWP 103 (686)
T ss_pred EeecCceEEEchHHhhhccH
Confidence 99999999888755554443
No 10
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=98.08 E-value=9e-06 Score=52.62 Aligned_cols=76 Identities=25% Similarity=0.354 Sum_probs=53.6
Q ss_pred CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEecc
Q psy680 12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91 (122)
Q Consensus 12 dl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i~ 91 (122)
|++++++.++..+.++++++++.||++|++. ..+.... .. .+ . ....-.+|.+.++++++..+++++.++
T Consensus 1 dl~~l~~~i~~~l~~~~~~~~~~l~~~d~~~---~~~~~~~-~~-~~---~--~~~~~~l~~~~~~~~~~~~~~~~~~~~ 70 (129)
T PF13492_consen 1 DLDELLERILELLRELLGADRAALFLLDEDG---NRLRVVA-GW-GG---D--PRLSESLPEDDPLIGRALETGEPVSVP 70 (129)
T ss_dssp -HHHHHHHHHHHHHHHST-SEEEEEEEETTC---ECEEEEE-EE-SS------GCGHHCEETTSHHHHHHHHHTS-EEES
T ss_pred CHHHHHHHHHHHHHHHhCCCEEEEEEEECCC---CEEEEEE-Ee-CC---C--ccccccCCCCccHHHHHHhhCCeEEec
Confidence 6899999999999999999999999999764 2233221 11 10 1 112226788899999999999999999
Q ss_pred CCCCCC
Q psy680 92 KKKEKK 97 (122)
Q Consensus 92 Dv~~d~ 97 (122)
+...++
T Consensus 71 ~~~~~~ 76 (129)
T PF13492_consen 71 DIDERD 76 (129)
T ss_dssp TCCC-T
T ss_pred cccccc
Confidence 876654
No 11
>KOG3689|consensus
Probab=97.94 E-value=2.3e-06 Score=71.30 Aligned_cols=100 Identities=20% Similarity=0.174 Sum_probs=72.1
Q ss_pred hhHHHHHhc-cCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccC----CCceeeeeCCCc
Q psy680 2 AIVRDIARD-LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYS----TADEVEVPWGVG 76 (122)
Q Consensus 2 ei~~~l~~~-ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~----~~~~i~~~~g~G 76 (122)
+++..+++. .+++..+..++..+..++.+.+|++.+++.++ .+++...|+........++ .....+..++.+
T Consensus 171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~si~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~ 247 (707)
T KOG3689|consen 171 DLADLMFEEQTDRESIFPKILYTARSLLQCTRCSIQLLDMST---LEEFSWVLDVLETEQTKPSTSDMAEIEFKKLLDYG 247 (707)
T ss_pred hhhhHHHHHhcchhcccchhhhhhhhhhhhcccceeeecccc---chhhhhhhHHHhhhhcCCCCchhhhHHHHhhhhhh
Confidence 445556654 48888999999999999999999999999865 3333333333211101110 112224457889
Q ss_pred eeeeeeccCCeEeccCCCCCCCCChHHH
Q psy680 77 ILGHVAVTGETVNLQKKKEKKKKKKKKK 104 (122)
Q Consensus 77 I~G~Va~tg~pi~i~Dv~~d~rF~~~~~ 104 (122)
++|+|+.+|++++|+|++.+++|+..+|
T Consensus 248 l~g~va~t~~~~ni~~~~~~~~f~~q~d 275 (707)
T KOG3689|consen 248 LRGYVASTGEGLNISNAIADPRFDKQVD 275 (707)
T ss_pred hhheeecccCcCCCCCcccccccccccc
Confidence 9999999999999999999999999887
No 12
>smart00065 GAF Domain present in phytochromes and cGMP-specific phosphodiesterases. Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa.
Probab=97.93 E-value=5.3e-05 Score=48.29 Aligned_cols=78 Identities=26% Similarity=0.368 Sum_probs=58.1
Q ss_pred CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEecc
Q psy680 12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91 (122)
Q Consensus 12 dl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i~ 91 (122)
|+++++..++..+..+++++++.|++++++.. ..+....+... . . ......++.+.+..+++..+++++.++
T Consensus 1 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~--~~~~~~~~~~~---~-~--~~~~~~~~~~~~~~~~~~~~~~~~~~~ 72 (149)
T smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDEDDR--GELVLVAADGL---T-L--PLLGLRYPLGEGLAGRVAETGRPLNIP 72 (149)
T ss_pred CHHHHHHHHHHHHHHHhCCceEEEEEEecCCC--CcEEEEEecCC---C-c--ccceEEecCCCChHHHHHHcCCeEEee
Confidence 57899999999999999999999999998321 22332221111 1 1 234556778889999999999999999
Q ss_pred CCCCCC
Q psy680 92 KKKEKK 97 (122)
Q Consensus 92 Dv~~d~ 97 (122)
|+..++
T Consensus 73 ~~~~~~ 78 (149)
T smart00065 73 DVEADP 78 (149)
T ss_pred chhhCC
Confidence 988766
No 13
>PF13185 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_A 3KSH_A 3MMH_A 3RFB_B 1F5M_A 3KO6_B 3HCY_A ....
Probab=96.97 E-value=0.0027 Score=41.77 Aligned_cols=32 Identities=22% Similarity=0.386 Sum_probs=28.2
Q ss_pred cCHHHHHHHHHHHHHHHhcCCeEEEEEEeccC
Q psy680 11 LDLKSLSKKTVDNVSVLLDADGASLFFVERRR 42 (122)
Q Consensus 11 ldl~~ll~~il~~~~~~l~~er~si~l~d~~~ 42 (122)
.|+++++..+++.+.++++++.++|+++|+++
T Consensus 2 ~~~~ell~~~~~~~~~~~~~~~~~i~l~d~~~ 33 (148)
T PF13185_consen 2 EDLEELLQQILDALLELTGADAGAIYLYDPDG 33 (148)
T ss_dssp HHHHHHHHHHHHHHHHHHS-SEEEEEEEETTS
T ss_pred cCHHHHHHHHHHHHHHHhCCCEEEEEEEECCC
Confidence 47899999999999999999999999998753
No 14
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=96.95 E-value=0.00089 Score=54.30 Aligned_cols=93 Identities=15% Similarity=0.174 Sum_probs=64.7
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
++...++...+++.++..+.+.+..+++|+...|+.++.++ ...+.+ ++...+.+ .........++++.++|
T Consensus 38 el~~~l~~~~~~e~ll~~v~~~l~~~~~~~~~~ll~~d~~~--l~~~~~---~gl~~~~~---~~~~~~~~~~~~~l~~i 109 (550)
T COG3604 38 ELTNALLSPLRLERLLAEVAKELHSLFGCDASALLRLDSKN--LIPLAT---DGLSKDHL---GREQRFVVEGHPLLEQI 109 (550)
T ss_pred HhhhhhcCchhHHHHHHHHHHHHHHHhcCCeeEEEEecccc--cchhhh---hccccccc---ccccccccCcchHHHHH
Confidence 56667777779999999999999999999999999999753 111111 11110001 22223445678999999
Q ss_pred eccCCeEeccCCCCCCCCChHHH
Q psy680 82 AVTGETVNLQKKKEKKKKKKKKK 104 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~rF~~~~~ 104 (122)
+.+|.|+.+ +..|+-|.+..+
T Consensus 110 ~~~~~p~~~--~~~d~~~~~~~~ 130 (550)
T COG3604 110 LKAGRPLVF--HPADSLFPDPYD 130 (550)
T ss_pred HhCCCcEEE--ecCCcccCCccc
Confidence 999999999 666766765543
No 15
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]
Probab=94.80 E-value=0.018 Score=37.68 Aligned_cols=96 Identities=18% Similarity=0.275 Sum_probs=63.6
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeee-eCCCceeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEV-PWGVGILGH 80 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~-~~g~GI~G~ 80 (122)
++...+....++++++..+++.+...++++++.++.++++......++... ... +..+........ +...+..++
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~---~~~-~~~~~~~~~~~~~~~~~~~~~~ 83 (175)
T COG2203 8 ELAAKIAQDLDLEEILQAALELLAELLGADRGLIYLLDEDGLLDGALVAEA---AEA-GLEQLIDELFGLVILPACLIGI 83 (175)
T ss_pred HHHHHHHHHCCHHHHHHHHHHHHHHHhhccHHhhheeccccccchHHHHHH---hcc-hhhhhHHHHhcccCcchhhhhh
Confidence 456667778899999999999999999999999999998631000111110 000 000000001111 233447889
Q ss_pred eeccCCeEeccCCCCCCCCCh
Q psy680 81 VAVTGETVNLQKKKEKKKKKK 101 (122)
Q Consensus 81 Va~tg~pi~i~Dv~~d~rF~~ 101 (122)
+...+.++.++|+..++++..
T Consensus 84 ~~~~~~~~~~~~~~~~~~~~~ 104 (175)
T COG2203 84 ALREGRPVVVEDILQDPRFRD 104 (175)
T ss_pred hhcCCceEEeeccccCccccc
Confidence 999999999999999999975
No 16
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase. Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.
Probab=87.84 E-value=0.75 Score=38.57 Aligned_cols=41 Identities=10% Similarity=0.306 Sum_probs=36.4
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccC
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRR 42 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~ 42 (122)
...+.|++..+.+++++.+++.+.++++++.+.+|+.+++.
T Consensus 309 ~~~~~L~~~~~~~~l~~~~~~~l~~~l~~~~g~l~l~~~~~ 349 (679)
T TIGR02916 309 RFTQTLSEARSSDDLGERVIRALAQLVESPGGVLWLKSGND 349 (679)
T ss_pred HHHHHHhCCCCCccHHHHHHHHHHHHhCCCCceEEEEcCCC
Confidence 46678888889999999999999999999999999998753
No 17
>PF14215 bHLH-MYC_N: bHLH-MYC and R2R3-MYB transcription factors N-terminal
Probab=86.31 E-value=0.83 Score=31.91 Aligned_cols=28 Identities=25% Similarity=0.481 Sum_probs=24.0
Q ss_pred eeeeCCCceeeeeeccCCeEeccCCCCC
Q psy680 69 VEVPWGVGILGHVAVTGETVNLQKKKEK 96 (122)
Q Consensus 69 i~~~~g~GI~G~Va~tg~pi~i~Dv~~d 96 (122)
+.+++|+|++|+|+.+|+++.+.+....
T Consensus 85 ~~~sfg~G~~G~a~~sg~~~Wi~~~~~~ 112 (163)
T PF14215_consen 85 MSYSFGEGIPGRAAASGQHIWISGANEL 112 (163)
T ss_pred eeEEecCCccEEEeecCccEEEeCCCcc
Confidence 4567799999999999999999987653
No 18
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=84.33 E-value=2.8 Score=35.58 Aligned_cols=39 Identities=18% Similarity=0.315 Sum_probs=34.3
Q ss_pred HHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCC
Q psy680 6 DIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGG 44 (122)
Q Consensus 6 ~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~ 44 (122)
.|.+.-++.+++..+.+.+++.+|.||..+|-++++..|
T Consensus 141 ~lq~a~~l~~l~~~~tqeVr~~tGfDRVMlYrF~~d~~G 179 (750)
T COG4251 141 RLQSAANLRDLLSRTTQEVRRMTGFDRVMLYRFDEDGSG 179 (750)
T ss_pred HHhcCccHHHHHHHHHHHHHHhcCCceEEEEeecCCCCc
Confidence 455567999999999999999999999999999987555
No 19
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=70.64 E-value=3.8 Score=22.54 Aligned_cols=13 Identities=69% Similarity=0.820 Sum_probs=8.0
Q ss_pred HHHHHHHHHhhhc
Q psy680 109 KKKKKKAEIERKR 121 (122)
Q Consensus 109 ~~~~~~~~~~~~~ 121 (122)
.|||.|.|+|+++
T Consensus 34 gKkk~KKeie~ke 46 (49)
T PF11044_consen 34 GKKKEKKEIERKE 46 (49)
T ss_pred hhhhhHHHHHHHh
Confidence 3445556777775
No 20
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=68.06 E-value=16 Score=26.53 Aligned_cols=40 Identities=18% Similarity=0.204 Sum_probs=30.0
Q ss_pred hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccC
Q psy680 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRR 42 (122)
Q Consensus 3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~ 42 (122)
+...|.+..++.+++..+...++..++.+.+++.++++..
T Consensus 83 l~l~LL~a~sl~~l~~~L~~~l~~~f~~~~v~L~L~~~~~ 122 (225)
T PF04340_consen 83 LVLALLAARSLQELLQALDDGLREDFDVDAVRLRLFDDDA 122 (225)
T ss_dssp HHHHHHC--SHHHHHHHHHHHHHHTS--SEEEEEEE-SS-
T ss_pred HHHHHhcCCCHHHHHHHHHHHHHHhcCCCeEEEEeecccc
Confidence 4456666779999999999999999999999999999753
No 21
>PRK13558 bacterio-opsin activator; Provisional
Probab=67.32 E-value=30 Score=28.80 Aligned_cols=39 Identities=18% Similarity=0.144 Sum_probs=32.2
Q ss_pred HHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccC
Q psy680 4 VRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRR 42 (122)
Q Consensus 4 ~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~ 42 (122)
...+....+...++..+.+.+....+++.++|+++++..
T Consensus 294 ~~~l~~~~~~~~l~~~v~~~l~~~~~~~~awi~~~d~~~ 332 (665)
T PRK13558 294 TSALVRATDREEIEAAVCDRVGAGGEYDGAWIGEYDPTS 332 (665)
T ss_pred HHHHHhcCCHHHHHHHHHHHHHhccCcceEEEeeecCCC
Confidence 344455568889999999999999999999999999864
No 22
>PF11849 DUF3369: Domain of unknown function (DUF3369); InterPro: IPR021800 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 170 amino acids in length.
Probab=51.06 E-value=32 Score=23.89 Aligned_cols=36 Identities=14% Similarity=0.253 Sum_probs=32.2
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEE
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFF 37 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l 37 (122)
+.+..|++..++.+...-+|.++..+++.+...++.
T Consensus 26 ~as~~L~~~~sl~~fa~gvL~Ql~~Ll~~~~~~l~~ 61 (174)
T PF11849_consen 26 EASASLFQIRSLQEFASGVLTQLSALLGLEDDGLYC 61 (174)
T ss_pred HHHHHHHccCCHHHHHHHHHHHHHHHhCCCCCeEEE
Confidence 456778888899999999999999999999888887
No 23
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=50.57 E-value=52 Score=23.97 Aligned_cols=79 Identities=10% Similarity=0.088 Sum_probs=48.0
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+++.......++-++...+|..+.+.++. .+.+.+++.. ..++........ ...-......++|+..+-+|.+
T Consensus 69 ~lg~~~~~~~~l~~~a~p~l~~L~~~~g~-tv~L~v~~g~----~~v~i~~~~~~~--~~~~~~~~G~~~pl~~sA~Gk~ 141 (248)
T TIGR02431 69 RLGYAYLSSAPLPKVAQPLLERLSAQTHE-SCSVAVLDGD----EIVYVARSPTHR--IMSVGLSVGTRLPAYCTSMGRV 141 (248)
T ss_pred HHHHHHHhcCchHHHHHHHHHHHHHHHCC-eEEEEEEeCC----EEEEEEEeccCc--eeeeccCCCcccccccchHHHH
Confidence 35556666778999999999999999988 6677777753 223322211111 0000123344667777777887
Q ss_pred eccCCe
Q psy680 82 AVTGET 87 (122)
Q Consensus 82 a~tg~p 87 (122)
.....+
T Consensus 142 lLA~~~ 147 (248)
T TIGR02431 142 LLAGLD 147 (248)
T ss_pred HHcCCC
Confidence 776544
No 24
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=50.38 E-value=44 Score=24.63 Aligned_cols=79 Identities=10% Similarity=0.066 Sum_probs=51.5
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+++....+..|+-.+..-+|..+.+.++ +-+.+.++|... .++...++........ ..-..++|+..+-+|.|
T Consensus 66 ~lg~~~l~~~~l~~~a~p~l~~L~~~tg-etv~L~v~dg~~----~v~i~~~e~~~~~~~~--~~vG~rlPl~~tA~Gk~ 138 (246)
T COG1414 66 ELGAAALSSLDLVSLARPLLEELAEETG-ETVHLSVLDGDE----AVYIARVESSRPLRVR--SRVGRRLPLYATASGKA 138 (246)
T ss_pred HHHHHHHhcCCHHHHhHHHHHHHHHHhC-CcEEEEEEeCCE----EEEEEEecCCCceeEE--ecCCcccCccccHHHHH
Confidence 4566667778999999999999999999 899999999642 3333322211100001 23344667777777777
Q ss_pred eccCCe
Q psy680 82 AVTGET 87 (122)
Q Consensus 82 a~tg~p 87 (122)
...-.|
T Consensus 139 lLA~l~ 144 (246)
T COG1414 139 LLAFLP 144 (246)
T ss_pred HHhcCC
Confidence 766655
No 25
>PF12221 HflK_N: Bacterial membrane protein N terminal; InterPro: IPR020980 HflK is a bacterial membrane protein which is thought, together with the HflC protein, to form a membrane protease complex whose activity is modulated by the GTPase HflX []. This entry represents the N-terminal, membrane-spanning, region of of HflK responsible for anchoring the protein in the bacterial membrane. It is often found in association with PF01145 from PFAM.
Probab=46.29 E-value=23 Score=19.16 Aligned_cols=19 Identities=32% Similarity=0.386 Sum_probs=16.3
Q ss_pred cCHHHHHHHHHHHHHHHhc
Q psy680 11 LDLKSLSKKTVDNVSVLLD 29 (122)
Q Consensus 11 ldl~~ll~~il~~~~~~l~ 29 (122)
.||+++++.+...+..+++
T Consensus 21 PDLdel~r~l~~kl~~~fg 39 (42)
T PF12221_consen 21 PDLDELFRKLQDKLGGLFG 39 (42)
T ss_pred CCHHHHHHHHHHHHhcccC
Confidence 4899999999999887764
No 26
>PRK10490 sensor protein KdpD; Provisional
Probab=42.14 E-value=55 Score=28.84 Aligned_cols=38 Identities=11% Similarity=0.233 Sum_probs=32.5
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEec
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVER 40 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~ 40 (122)
++++.|++..+.++++..+...+..++++.. .+|+.++
T Consensus 517 els~~L~~a~~~~~i~~~~~~~l~~~~~~~~-~l~l~~~ 554 (895)
T PRK10490 517 EMSKALAVGLSPEDIAATSEHFLASTFQARS-QLLLPDD 554 (895)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHhhCCCE-EEEEEcC
Confidence 5788899889999999999999999999854 5677765
No 27
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=40.74 E-value=59 Score=28.75 Aligned_cols=40 Identities=8% Similarity=0.185 Sum_probs=35.2
Q ss_pred ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEecc
Q psy680 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERR 41 (122)
Q Consensus 1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~ 41 (122)
++.++.|+...+.+.++.....++.+.++. ++.+|+.++.
T Consensus 513 ye~s~~L~~a~t~~~vl~~~~~qi~~~~~~-~v~i~l~~~~ 552 (890)
T COG2205 513 YEFSKKLAGARTREDILAAAGQQIASLLNQ-RVVILLPDDN 552 (890)
T ss_pred HHHHHHHHhcCCHHHHHHHHHHHHHHHhCC-ceEEEEecCC
Confidence 467899999999999999999999999998 7777888764
No 28
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=40.28 E-value=94 Score=23.10 Aligned_cols=78 Identities=8% Similarity=0.055 Sum_probs=47.1
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
.++..+....++.++..-+|..+.+.++. .+.+.+++.. ..++............. .....++|+..+-+|.|
T Consensus 87 ~Lg~~~~~~~~l~~~a~p~l~~La~~~ge-tv~l~v~~g~----~~v~i~~~~s~~~~~~~--~~~G~~~pl~~tA~Gka 159 (271)
T PRK10163 87 NVGAAYIHNRDVLSVAGPFMRRLMLLSGE-TVNVAIRNGN----EAVLIGQLECKSMVRMC--APLGSRLPLHASGAGKA 159 (271)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHHCC-eEEEEEEECC----EEEEEEEecCCCceeee--cCCCCcccccccHHHHH
Confidence 45666777789999999999999998876 7777777753 23333322211100011 22334566767777777
Q ss_pred eccCC
Q psy680 82 AVTGE 86 (122)
Q Consensus 82 a~tg~ 86 (122)
...-.
T Consensus 160 lLA~l 164 (271)
T PRK10163 160 LLYPL 164 (271)
T ss_pred HHhCC
Confidence 65543
No 29
>PRK11569 transcriptional repressor IclR; Provisional
Probab=33.53 E-value=1.5e+02 Score=22.00 Aligned_cols=81 Identities=7% Similarity=0.067 Sum_probs=47.8
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+++.......++-.+...+|..+.+.++. .+.|.+++.+. ...++........ .+.-......++|+..+-+|.+
T Consensus 90 ~Lg~~~~~~~~l~~~a~p~l~~La~~~ge-tv~L~v~~g~~--~~~v~i~~~~~~~--~~~~~~~vG~r~Pl~~tA~Gka 164 (274)
T PRK11569 90 IVGSSFLQSRNLLAIVHPILRNLMEDSGE-TVNLAVLDQSD--HQAIIIDQVQCTA--LMRMSAPIGGKLPMHASGAGKA 164 (274)
T ss_pred HHHHHHHhhCcHHHHHHHHHHHHHHHHCC-eEEEEEEeCCC--CeEEEEEEecCCC--ceeeECCCCCccccccCHHHHH
Confidence 45556666778999999999999999887 67777787531 1223322211111 0100022334566766777777
Q ss_pred eccCCe
Q psy680 82 AVTGET 87 (122)
Q Consensus 82 a~tg~p 87 (122)
.....+
T Consensus 165 lLA~l~ 170 (274)
T PRK11569 165 FLAQLS 170 (274)
T ss_pred HHcCCC
Confidence 766554
No 30
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=31.92 E-value=1.2e+02 Score=22.21 Aligned_cols=79 Identities=11% Similarity=0.066 Sum_probs=45.9
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+++.......++-.....+|..+..-++. .+.+.+++.. ..++............. .....++|+..+-+|.+
T Consensus 75 ~lg~~~~~~~~l~~~a~p~l~~La~~~~e-tv~L~v~~g~----~~v~l~~~~~~~~~~~~--~~~G~~~Pl~~tA~Gka 147 (257)
T PRK15090 75 ELGAKALQNVDLIRSADIQMREISRLTKE-TIHLGALDED----SIVYIHKIDSMYNLRMY--SRIGRRNPLYSTAIGKV 147 (257)
T ss_pred HHHHHHHhhCcHHHHHHHHHHHHHHHhCC-eEEEEEEECC----EEEEEEEecCCCceEEE--ccCCCccchhhhhHHHH
Confidence 45556666778889999999999998877 6777777753 22332221111000000 22233566666677777
Q ss_pred eccCCe
Q psy680 82 AVTGET 87 (122)
Q Consensus 82 a~tg~p 87 (122)
...-.|
T Consensus 148 lLA~~~ 153 (257)
T PRK15090 148 LLAWRD 153 (257)
T ss_pred HHhCCC
Confidence 666544
No 31
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=31.12 E-value=90 Score=25.53 Aligned_cols=40 Identities=13% Similarity=0.012 Sum_probs=34.7
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEecc
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERR 41 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~ 41 (122)
+.++.+....++.+.+..++..+..+++++.+.+-++++.
T Consensus 224 ~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~ 263 (569)
T PRK10600 224 QANRRLHSRAPLCERLSPVLNGLQNLTLLRDIELRVYETD 263 (569)
T ss_pred HHHHHHhcCcchHHHHHHHHHHHHHhcCCCceEEEEeccc
Confidence 4567777778889999999999999999999999998864
No 32
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=30.93 E-value=1.4e+02 Score=24.21 Aligned_cols=30 Identities=17% Similarity=0.309 Sum_probs=25.6
Q ss_pred cCHHHHHHHHHHHHHHHhcCCeEEEEEEec
Q psy680 11 LDLKSLSKKTVDNVSVLLDADGASLFFVER 40 (122)
Q Consensus 11 ldl~~ll~~il~~~~~~l~~er~si~l~d~ 40 (122)
..+=++.++.+++++++-+|.+.+|-+.-.
T Consensus 409 vTLyRl~QE~LNNI~KHA~AS~V~i~l~~~ 438 (497)
T COG3851 409 VTLYRLCQELLNNICKHADASAVTIQLWQQ 438 (497)
T ss_pred EeHHHHHHHHHHHHHhccccceEEEEEeeC
Confidence 357788999999999999999999888764
No 33
>PRK10963 hypothetical protein; Provisional
Probab=28.42 E-value=1.6e+02 Score=21.31 Aligned_cols=38 Identities=16% Similarity=0.146 Sum_probs=30.9
Q ss_pred hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEecc
Q psy680 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERR 41 (122)
Q Consensus 3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~ 41 (122)
+...|.+..++.+++..+- .+++.++.+.+++.|+++.
T Consensus 80 l~l~Ll~a~~~~~l~~~L~-~~~~~f~~~~v~l~L~~~~ 117 (223)
T PRK10963 80 LQSRLAAADSLQDMLMRLH-RWARDLGLAGAKIRLFPDR 117 (223)
T ss_pred HHHHHhcCCCHHHHHHHHH-HHHHHcCCCceEEEEeccc
Confidence 4556667789999999986 6799999999999997653
No 34
>KOG1534|consensus
Probab=27.28 E-value=86 Score=23.53 Aligned_cols=25 Identities=4% Similarity=0.263 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEEEec
Q psy680 15 SLSKKTVDNVSVLLDADGASLFFVER 40 (122)
Q Consensus 15 ~ll~~il~~~~~~l~~er~si~l~d~ 40 (122)
.++..+++++.+ ++...|++|+++.
T Consensus 116 pVm~~iv~hl~~-~~F~~c~Vyllds 140 (273)
T KOG1534|consen 116 PVMPQIVEHLKQ-WNFNVCVVYLLDS 140 (273)
T ss_pred hhHHHHHHHHhc-ccCceeEEEEecc
Confidence 478889999999 7899999999984
No 35
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=26.00 E-value=1.3e+02 Score=17.95 Aligned_cols=26 Identities=12% Similarity=0.184 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEEe
Q psy680 14 KSLSKKTVDNVSVLLDADGASLFFVE 39 (122)
Q Consensus 14 ~~ll~~il~~~~~~l~~er~si~l~d 39 (122)
.+|...+.+.+.+.+|+++.+++++=
T Consensus 19 ~~la~~vT~~~~~~lg~~~~~i~Vii 44 (69)
T COG1942 19 AELAAEVTEVTVETLGKDPSAIHVII 44 (69)
T ss_pred HHHHHHHHHHHHHHhCCCcccEEEEE
Confidence 35788899999999999999988663
No 36
>PF00360 PHY: Phytochrome region; InterPro: IPR013515 Phytochrome belongs to a family of plant photoreceptors that mediate physiological and developmental responses to changes in red and far-red light conditions []. The protein undergoes reversible photochemical conversion between a biologically-inactive red light-absorbing form and the active far-red light-absorbing form. Phytochrome is a dimer of identical 124 kDa subunits, each of which contains a linear tetrapyrrole chromophore, covalently-attached via a Cys residue. This domain represents a region specific to phytochrome proteins.; GO: 0008020 G-protein coupled photoreceptor activity, 0006355 regulation of transcription, DNA-dependent, 0009584 detection of visible light, 0018298 protein-chromophore linkage; PDB: 3C2W_G 3NHQ_B 3G6O_B 3IBR_A 2VEA_A 3ZQ5_A.
Probab=23.95 E-value=35 Score=24.00 Aligned_cols=37 Identities=22% Similarity=0.304 Sum_probs=29.5
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEE
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFV 38 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~ 38 (122)
.++..++...++.+.|..-...+.++++|+...|++-
T Consensus 7 ~L~~~~~~~~~~~~~l~~~~~~ll~l~~AdG~al~~~ 43 (182)
T PF00360_consen 7 RLLEALSSSRDLLEALISQAPDLLDLVDADGVALVID 43 (182)
T ss_dssp HHHHHHHCSSSHHHHHCTTCCCHHHCTT-SEEEEEET
T ss_pred HHHHHHccCCChhHhhHhccHHHHhhccCCEEEEEEC
Confidence 3566777778999999999999999999988887653
No 37
>PF12868 DUF3824: Domain of unknwon function (DUF3824); InterPro: IPR024436 This repeating domain is proline-rich but its function is unknown.
Probab=23.26 E-value=50 Score=22.51 Aligned_cols=9 Identities=67% Similarity=0.697 Sum_probs=3.6
Q ss_pred HHHHHHHHh
Q psy680 110 KKKKKAEIE 118 (122)
Q Consensus 110 ~~~~~~~~~ 118 (122)
|+||++|-|
T Consensus 30 k~kK~~ere 38 (137)
T PF12868_consen 30 KEKKKEERE 38 (137)
T ss_pred Hhhhhhhhc
Confidence 333344433
No 38
>KOG3045|consensus
Probab=22.98 E-value=42 Score=25.81 Aligned_cols=13 Identities=62% Similarity=0.802 Sum_probs=5.2
Q ss_pred HHHhHHHHHHHHH
Q psy680 103 KKKKKKKKKKKKA 115 (122)
Q Consensus 103 ~~~~~~~~~~~~~ 115 (122)
++..+||||+||.
T Consensus 32 ~~~~kKkkKRkk~ 44 (325)
T KOG3045|consen 32 TKEEKKKKKRKKG 44 (325)
T ss_pred cchhhhhhhhhhH
Confidence 3333344444444
No 39
>KOG3360|consensus
Probab=20.04 E-value=61 Score=20.82 Aligned_cols=13 Identities=38% Similarity=0.532 Sum_probs=10.9
Q ss_pred CceeeeeeccCCe
Q psy680 75 VGILGHVAVTGET 87 (122)
Q Consensus 75 ~GI~G~Va~tg~p 87 (122)
-||.|||+.+.+-
T Consensus 34 lGlrGWv~Nt~~G 46 (98)
T KOG3360|consen 34 LGLRGWVMNTSEG 46 (98)
T ss_pred hcceEEEEecCCc
Confidence 4999999998765
Done!