Query 030628
Match_columns 174
No_of_seqs 21 out of 23
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 16:37:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030628.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030628hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11833 DUF3353: Protein of u 99.4 1.4E-12 3.1E-17 107.9 8.8 140 1-172 38-193 (194)
2 PF06143 Baculo_11_kDa: Baculo 70.0 9.6 0.00021 28.8 4.4 41 102-142 20-63 (84)
3 PF11744 ALMT: Aluminium activ 67.7 9 0.0002 35.5 4.6 86 59-172 82-167 (406)
4 PF10999 DUF2839: Protein of u 59.0 6.9 0.00015 28.5 1.8 38 24-63 15-59 (68)
5 PF10731 Anophelin: Thrombin i 52.6 20 0.00044 26.2 3.3 32 71-103 8-39 (65)
6 PF00001 7tm_1: 7 transmembran 47.2 1.2E+02 0.0025 22.6 7.2 41 103-144 189-229 (257)
7 COG3790 Predicted membrane pro 46.4 23 0.00051 27.6 3.0 37 110-149 12-49 (97)
8 PRK10245 adrA diguanylate cycl 45.3 29 0.00064 30.6 3.9 46 88-133 10-57 (366)
9 cd00922 Cyt_c_Oxidase_IV Cytoc 42.4 88 0.0019 24.9 5.8 86 3-115 34-120 (136)
10 PF06963 FPN1: Ferroportin1 (F 41.4 52 0.0011 30.6 5.0 44 59-102 183-226 (432)
11 TIGR00297 conserved hypothetic 36.6 66 0.0014 28.2 4.6 34 45-80 86-119 (237)
12 COG0786 GltS Na+/glutamate sym 32.1 1E+02 0.0023 29.2 5.4 48 79-126 179-232 (404)
13 PF10507 DUF2453: Protein of u 31.3 81 0.0018 25.0 3.9 44 79-127 59-102 (111)
14 PHA03234 DNA packaging protein 30.7 2E+02 0.0044 25.1 6.7 46 70-133 209-254 (338)
15 PF10319 7TM_GPCR_Srj: Serpent 29.8 98 0.0021 28.2 4.7 68 72-154 212-284 (310)
16 PF15420 Abhydrolase_9_N: Alph 29.0 2.9E+02 0.0063 23.4 7.1 23 47-69 50-74 (208)
17 PF09577 Spore_YpjB: Sporulati 28.9 52 0.0011 28.6 2.7 18 119-136 203-220 (232)
18 COG0690 SecE Preprotein transl 27.2 1.7E+02 0.0037 21.0 4.7 32 111-142 39-70 (73)
19 PF02936 COX4: Cytochrome c ox 26.4 47 0.001 26.7 1.9 75 3-99 34-109 (142)
20 PF07343 DUF1475: Protein of u 26.4 3.7E+02 0.0081 24.3 7.6 95 33-135 45-156 (254)
21 PRK13554 fumarate reductase cy 25.7 1.7E+02 0.0037 25.5 5.3 31 77-127 184-214 (241)
22 COG1836 Predicted membrane pro 25.6 26 0.00055 31.3 0.3 41 82-137 150-190 (247)
23 PF02529 PetG: Cytochrome B6-F 25.4 1.1E+02 0.0024 20.2 3.1 20 118-137 7-28 (37)
24 PF03209 PUCC: PUCC protein; 25.2 4E+02 0.0088 25.1 8.0 97 48-144 136-236 (403)
25 KOG4219 G protein-coupled rece 25.1 1.8E+02 0.004 27.8 5.8 57 70-132 221-277 (423)
26 PF10749 DUF2534: Protein of u 25.0 76 0.0016 24.3 2.7 20 108-127 9-28 (85)
27 KOG4075 Cytochrome c oxidase, 24.9 1.7E+02 0.0037 24.8 5.0 47 34-100 89-135 (167)
28 COG3038 CybB Cytochrome B561 [ 24.7 2E+02 0.0042 24.2 5.3 69 76-156 59-135 (181)
29 KOG1962 B-cell receptor-associ 24.3 1.9E+02 0.0041 25.3 5.3 85 32-127 21-114 (216)
30 PRK10588 hypothetical protein; 24.1 1E+02 0.0023 23.8 3.3 36 109-147 11-48 (97)
31 PF04290 DctQ: Tripartite ATP- 23.3 2.5E+02 0.0054 20.3 5.1 39 108-146 58-98 (133)
32 PRK13817 ribosome-binding fact 22.6 33 0.00071 26.6 0.3 23 8-32 28-50 (119)
33 PF09125 COX2-transmemb: Cytoc 21.7 2.4E+02 0.0053 18.8 4.2 26 110-135 5-36 (38)
34 PRK10921 twin-arginine protein 21.5 2.1E+02 0.0047 24.7 5.1 30 110-142 16-45 (258)
35 KOG4455 Uncharacterized conser 21.5 1.1E+02 0.0024 24.5 3.0 29 107-136 18-50 (110)
36 TIGR02112 cyd_oper_ybgE cyd op 21.2 1.2E+02 0.0027 23.2 3.2 35 109-146 7-43 (93)
37 PHA03235 DNA packaging protein 20.7 4E+02 0.0086 24.2 6.8 23 111-133 239-261 (409)
38 cd03512 Alkane-hydroxylase Alk 20.7 2.9E+02 0.0062 24.5 5.8 29 72-100 3-31 (314)
39 TIGR00367 K+-dependent Na+/Ca+ 20.6 5.7E+02 0.012 22.2 9.9 8 137-144 195-202 (307)
No 1
>PF11833 DUF3353: Protein of unknown function (DUF3353); InterPro: IPR021788 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 205 to 258 amino acids in length.
Probab=99.39 E-value=1.4e-12 Score=107.85 Aligned_cols=140 Identities=27% Similarity=0.422 Sum_probs=102.0
Q ss_pred ChhhhhhhhcCccccceeeehhhccccC-----------CCCccCCCC----CCCCCcchhhHhHHHHHHHHHHHHhhcc
Q 030628 1 MMEQLSKRKKGVTFGSFKVSKEIKFADK-----------QPIFPWGPR----FAKSSPQDIRINLAISAAFTAWIAIKRY 65 (174)
Q Consensus 1 MmaQLs~RkkG~t~Gs~~VsKdikYADk-----------qp~~PW~PR----~~~s~~kDi~IN~aIsa~~~~wi~~~~~ 65 (174)
||++|..|+|| .++|+++|||||+ ++..||.+| +...+.+|+.+..++-+++.+|......
T Consensus 38 LM~rL~~Rq~G----ki~v~~~ir~ad~~~~~~~~~~~~~~~p~wl~~~~~~~~~P~~~~l~~~~~~f~~L~~~~~~~~~ 113 (194)
T PF11833_consen 38 LMERLRQRQKG----KIKVPERIRYADREEPKPPNPKPSNPSPPWLQRLLPSFDTPSSQDLLIRAAAFGALGLWSLLFPA 113 (194)
T ss_pred HHHHHHHHHcC----CCCccHHHHHhhhccccccCCCCCCccchHHHhcccceeCCCcchHHHHHHHHHHHHHHHHHHcC
Confidence 69999999999 6899999999999 777899999 5888899999999998999999998877
Q ss_pred cccchHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHHHHHHhhhHHhHH-HHHHHhCc
Q 030628 66 AEYKPLQFLAFAFVYRFFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLLRCLALVFGVIAVSSLAYTGIL-NLIEYAGG 144 (174)
Q Consensus 66 a~~kPl~f~af~~v~r~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~lRsl~LvfG~~~v~sL~yT~~l-n~ie~~g~ 144 (174)
++...+|.+ ++. ...+..|++ -++|+.|++++.+|++++ .+.....+ +.+.. .
T Consensus 114 ~~~~~l~La-l~~-~~~iyfl~~---------------------K~~~~~rA~~~~~~~L~~-G~~lGs~l~~~l~~--~ 167 (194)
T PF11833_consen 114 ASGPGLQLA-LGL-GACIYFLNR---------------------KERKLGRAFLWTLGGLVV-GLILGSLLASWLPV--D 167 (194)
T ss_pred CCCcchHHH-HHH-HHHHHHHHH---------------------hcchHHHHHHHHHHHHHH-HHHHHHHHHhhccc--c
Confidence 777777733 322 223333322 178999999999999988 44444444 33322 1
Q ss_pred ccchheeccceeeeehhhhHHHHhhhhc
Q 030628 145 FIPAFLFDNQELIVTGSSAVLLFIMASY 172 (174)
Q Consensus 145 ~iP~~~y~~Qel~vt~~~~v~L~~~~s~ 172 (174)
.+| .-.+=|.++|..+-++|....+|
T Consensus 168 ~~p--~~~s~~~~~sl~~~i~lwl~s~f 193 (194)
T PF11833_consen 168 IVP--GPWSPEQLVSLFTYILLWLVSLF 193 (194)
T ss_pred cCC--CCCCHHHHHHHHHHHHHHHHHhc
Confidence 223 34455777777777777766555
No 2
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=70.01 E-value=9.6 Score=28.85 Aligned_cols=41 Identities=20% Similarity=0.190 Sum_probs=32.3
Q ss_pred CCchhhhhhhHHHHHHHHHHHHHHHH---HhhhHHhHHHHHHHh
Q 030628 102 DDDGRALRMGKRLLRCLALVFGVIAV---SSLAYTGILNLIEYA 142 (174)
Q Consensus 102 e~~gr~~r~~KR~lRsl~LvfG~~~v---~sL~yT~~ln~ie~~ 142 (174)
|-=+.=.+-|.-++|.|.||..|+++ +.||++...++...+
T Consensus 20 DQL~qlVsrN~sfirdFvLVic~~lVfVii~lFi~ll~~i~~~~ 63 (84)
T PF06143_consen 20 DQLEQLVSRNRSFIRDFVLVICCFLVFVIIVLFILLLYNINKNA 63 (84)
T ss_pred HHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445567788999999999999877 899999988765543
No 3
>PF11744 ALMT: Aluminium activated malate transporter; InterPro: IPR020966 This entry represents an malate transporter which has been is identified as being critical for aluminium tolerance in Arabidopsis thaliana [].; GO: 0010044 response to aluminum ion
Probab=67.66 E-value=9 Score=35.55 Aligned_cols=86 Identities=20% Similarity=0.264 Sum_probs=61.1
Q ss_pred HHHhhcccccchHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHHHHHHhhhHHhHHHH
Q 030628 59 WIAIKRYAEYKPLQFLAFAFVYRFFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLLRCLALVFGVIAVSSLAYTGILNL 138 (174)
Q Consensus 59 wi~~~~~a~~kPl~f~af~~v~r~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~lRsl~LvfG~~~v~sL~yT~~ln~ 138 (174)
|++......++|++...+.|+...+-+.-++.|..++.||= + .+-|.|-| ++
T Consensus 82 ~la~~~g~~~~~~~i~~~vFi~~~~atf~r~~P~~k~rydY-------g-------~~Vf~LTf--------------~l 133 (406)
T PF11744_consen 82 WLASLSGDPGEPIVIGISVFIIGFIATFVRFIPKIKARYDY-------G-------GLVFILTF--------------CL 133 (406)
T ss_pred HHHHhcCccchhHHHHHHHHHHHHHHHHHHhchhhhhhhhH-------H-------HHHHHHHH--------------Hh
Confidence 66655444799999999999999999999999999988854 1 11111111 24
Q ss_pred HHHhCcccchheeccceeeeehhhhHHHHhhhhc
Q 030628 139 IEYAGGFIPAFLFDNQELIVTGSSAVLLFIMASY 172 (174)
Q Consensus 139 ie~~g~~iP~~~y~~Qel~vt~~~~v~L~~~~s~ 172 (174)
+-+.|......+..-++.+.+.+.|+.++++.|.
T Consensus 134 V~vs~yr~~~~~~~A~~R~~~I~iGv~i~l~vsi 167 (406)
T PF11744_consen 134 VAVSGYRTDEFLMLAVWRLLTIVIGVAICLLVSI 167 (406)
T ss_pred heeecCCcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555566666667778899999999988773
No 4
>PF10999 DUF2839: Protein of unknown function (DUF2839); InterPro: IPR021262 This bacterial family of unknown function appear to be restricted to Cyanobacteria.
Probab=58.96 E-value=6.9 Score=28.51 Aligned_cols=38 Identities=18% Similarity=0.513 Sum_probs=22.8
Q ss_pred ccccCCCCccCCCCCCCCCcchhhHh-------HHHHHHHHHHHHhh
Q 030628 24 KFADKQPIFPWGPRFAKSSPQDIRIN-------LAISAAFTAWIAIK 63 (174)
Q Consensus 24 kYADkqp~~PW~PR~~~s~~kDi~IN-------~aIsa~~~~wi~~~ 63 (174)
||-++++++||.|.--.- .|...| ++|+.+.+.|+++-
T Consensus 15 r~~k~~~~~~wlP~tk~q--~~~~~~~ttkg~w~gig~l~~~wi~vr 59 (68)
T PF10999_consen 15 RYKKEERILPWLPITKSQ--AKQFYKLTTKGPWIGIGILVLIWIIVR 59 (68)
T ss_pred ccCCcccccccCcccHHH--HHHHHHHhhcccchhHHHHHHHHHHHH
Confidence 455666799999974332 233332 45666666677653
No 5
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=52.61 E-value=20 Score=26.16 Aligned_cols=32 Identities=28% Similarity=0.628 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCC
Q 030628 71 LQFLAFAFVYRFFEKLKSFEPAVSPTYTEEGDD 103 (174)
Q Consensus 71 l~f~af~~v~r~f~KL~~~ePp~~~~~~e~ge~ 103 (174)
+-|||++-+. +.|---++-|+..|.|||+-.+
T Consensus 8 ialLC~aLva-~vQ~APQYa~GeeP~YDEdd~d 39 (65)
T PF10731_consen 8 IALLCVALVA-IVQSAPQYAPGEEPSYDEDDDD 39 (65)
T ss_pred HHHHHHHHHH-HHhcCcccCCCCCCCcCcccCc
Confidence 3466666666 6677778899999999998643
No 6
>PF00001 7tm_1: 7 transmembrane receptor (rhodopsin family) Rhodopsin-like GPCR superfamily signature 5-hydroxytryptamine 7 receptor signature bradykinin receptor signature gastrin receptor signature melatonin receptor signature olfactory receptor signature; InterPro: IPR000276 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The rhodopsin-like GPCRs themselves represent a widespread protein family that includes hormone, neurotransmitter and light receptors, all of which transduce extracellular signals through interaction with guanine nucleotide-binding (G) proteins. Although their activating ligands vary widely in structure and character, the amino acid sequences of the receptors are very similar and are believed to adopt a common structural framework comprising 7 transmembrane (TM) helices [, , ].; GO: 0007186 G-protein coupled receptor protein signaling pathway, 0016021 integral to membrane; PDB: 2KI9_A 3QAK_A 2YDV_A 3VGA_A 3PWH_A 3RFM_A 3EML_A 3VG9_A 3REY_A 3UZA_A ....
Probab=47.16 E-value=1.2e+02 Score=22.59 Aligned_cols=41 Identities=22% Similarity=0.254 Sum_probs=27.7
Q ss_pred CchhhhhhhHHHHHHHHHHHHHHHHHhhhHHhHHHHHHHhCc
Q 030628 103 DDGRALRMGKRLLRCLALVFGVIAVSSLAYTGILNLIEYAGG 144 (174)
Q Consensus 103 ~~gr~~r~~KR~lRsl~LvfG~~~v~sL~yT~~ln~ie~~g~ 144 (174)
...+..+..+|..|.+.++.++++++.+-|... .+++....
T Consensus 189 ~~~~~~~~~~~~~~~~~~i~~~f~~~~~P~~i~-~~~~~~~~ 229 (257)
T PF00001_consen 189 SSRRRSRRERRAARTLLIIVLVFLLCWLPYFIL-SLLSVFSP 229 (257)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHSS
T ss_pred ccccccccccccccccccccccccccCCceeHH-HHHHHHcC
Confidence 345566778899999999999998866555433 33444333
No 7
>COG3790 Predicted membrane protein [Function unknown]
Probab=46.39 E-value=23 Score=27.63 Aligned_cols=37 Identities=22% Similarity=0.199 Sum_probs=26.1
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhHHhHH-HHHHHhCcccchh
Q 030628 110 MGKRLLRCLALVFGVIAVSSLAYTGIL-NLIEYAGGFIPAF 149 (174)
Q Consensus 110 ~~KR~lRsl~LvfG~~~v~sL~yT~~l-n~ie~~g~~iP~~ 149 (174)
|.|+.||+|..|++-..+ ++-+|+ |=..--=+..|+|
T Consensus 12 ~dK~~LraLSfvla~~la---~~~fwdpn~faa~~~s~~a~ 49 (97)
T COG3790 12 MDKGPLRALSFVLAFLLA---GCVFWDPNRFAARTSSLEAW 49 (97)
T ss_pred hccccHHHHHHHHHHHHH---HHHhcChHHHHHHhcCchHH
Confidence 789999999999987776 677777 6333333344544
No 8
>PRK10245 adrA diguanylate cyclase AdrA; Provisional
Probab=45.30 E-value=29 Score=30.59 Aligned_cols=46 Identities=17% Similarity=0.289 Sum_probs=30.2
Q ss_pred hcCCCCCCCCCCCCCCchhhhhhhHHH--HHHHHHHHHHHHHHhhhHH
Q 030628 88 SFEPAVSPTYTEEGDDDGRALRMGKRL--LRCLALVFGVIAVSSLAYT 133 (174)
Q Consensus 88 ~~ePp~~~~~~e~ge~~gr~~r~~KR~--lRsl~LvfG~~~v~sL~yT 133 (174)
++.+...+......+..++|+|-.+|+ +|.+|+..|.+-+.|..+.
T Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~r~~g~~~~~~~~~~~~~~ 57 (366)
T PRK10245 10 AAAHGEEPPLTPQNEHQRSGLRFARRVRLPRAVGLAGMFLPIASTLVS 57 (366)
T ss_pred hhccccCCCCcchhhhccccchhHHHHHHHHHHHHHHhHHHHHHHHHh
Confidence 333333333333455677888888885 6799999988888666554
No 9
>cd00922 Cyt_c_Oxidase_IV Cytochrome c oxidase subunit IV. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit IV is the largest of the nuclear-encoded subunits. It binds ATP at the matrix side, leading to an allosteric inhibition of enzyme activity at high intramitochondrial ATP/ADP ratios. In mammals, subunit IV has a lung-specific isoform and a ubiquitously expressed isoform.
Probab=42.39 E-value=88 Score=24.93 Aligned_cols=86 Identities=22% Similarity=0.263 Sum_probs=47.5
Q ss_pred hhhhhhhcCccccceeeehhhccccCCCCc-cCCCCCCCCCcchhhHhHHHHHHHHHHHHhhcccccchHHHHHHHHHHH
Q 030628 3 EQLSKRKKGVTFGSFKVSKEIKFADKQPIF-PWGPRFAKSSPQDIRINLAISAAFTAWIAIKRYAEYKPLQFLAFAFVYR 81 (174)
Q Consensus 3 aQLs~RkkG~t~Gs~~VsKdikYADkqp~~-PW~PR~~~s~~kDi~IN~aIsa~~~~wi~~~~~a~~kPl~f~af~~v~r 81 (174)
.||..|.||. -. +.|.+=|-|=---.| +|+||.-..+. |-..=++.. ++++++..+.-
T Consensus 34 ~~Lrekek~d-W~--~LT~~EKkAlY~isfg~~~~e~~~~~~-ewk~v~~~~-----------------~~~i~~s~~~~ 92 (136)
T cd00922 34 KALREKEKGD-WK--QLTLEEKKALYRISFGETGPEMNAPTG-EWKTVFGGV-----------------LAFIGITGVIF 92 (136)
T ss_pred HHHHHHhhCC-Hh--hCCHHHHhhHhhhhhccccccccCCCc-cHHHHHHHH-----------------HHHHHHHHHHH
Confidence 5788888884 24 566665555433334 99999955543 544322222 23345555566
Q ss_pred HHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHH
Q 030628 82 FFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLL 115 (174)
Q Consensus 82 ~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~l 115 (174)
+++++....|+|. +++++ ....+.+|++
T Consensus 93 ~~~r~~~~~~~P~-T~t~E-----wqea~~er~~ 120 (136)
T cd00922 93 GLQRAFVYGPKPH-TFTEE-----WQEAQLERML 120 (136)
T ss_pred HHHHHhccCCCCC-CcCHH-----HHHHHHHHHH
Confidence 6666666555554 44442 2444555554
No 10
>PF06963 FPN1: Ferroportin1 (FPN1); InterPro: IPR009716 This entry represents the solute carrier family 40 member 1 family of proteins, also known as Ferroportin 1. It is thought to be involved in iron export from duodenal epithelial cells and also in transfer of iron between maternal and fetal circulation. This family of proteins is known to be localised in the basolateral membrane of polarized epithelial cells [].; GO: 0005381 iron ion transmembrane transporter activity, 0034755 iron ion transmembrane transport, 0016021 integral to membrane
Probab=41.37 E-value=52 Score=30.55 Aligned_cols=44 Identities=9% Similarity=0.063 Sum_probs=32.3
Q ss_pred HHHhhcccccchHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCC
Q 030628 59 WIAIKRYAEYKPLQFLAFAFVYRFFEKLKSFEPAVSPTYTEEGD 102 (174)
Q Consensus 59 wi~~~~~a~~kPl~f~af~~v~r~f~KL~~~ePp~~~~~~e~ge 102 (174)
++...-|.-.=++++.++.-+|+..-.|..-+.+.....+++++
T Consensus 183 ~~i~~~N~~S~~vEy~~l~~VY~~~P~L~~~~~~~~~~~~~~~~ 226 (432)
T PF06963_consen 183 IFIAGWNLASVFVEYFLLARVYNSVPALAVKKRSSESESSSDEE 226 (432)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhChHhcCCCCCcccccccccc
Confidence 44444555566889999999999999998877777666655443
No 11
>TIGR00297 conserved hypothetical protein TIGR00297.
Probab=36.62 E-value=66 Score=28.16 Aligned_cols=34 Identities=21% Similarity=0.143 Sum_probs=21.1
Q ss_pred hhhHhHHHHHHHHHHHHhhcccccchHHHHHHHHHH
Q 030628 45 DIRINLAISAAFTAWIAIKRYAEYKPLQFLAFAFVY 80 (174)
Q Consensus 45 Di~IN~aIsa~~~~wi~~~~~a~~kPl~f~af~~v~ 80 (174)
-+.=|-+++++++.-.... .+++|...++|+..+
T Consensus 86 qVlaNg~~~~~~al~~~~~--~~~~~~~~~~f~~s~ 119 (237)
T TIGR00297 86 NVWGNGLTPALFALAIAFG--PEWDLWLALGYVASV 119 (237)
T ss_pred HHHHhhHHHHHHHHHHHhc--ccchHHHHHHHHHHH
Confidence 3888999988776633332 226777656655543
No 12
>COG0786 GltS Na+/glutamate symporter [Amino acid transport and metabolism]
Probab=32.15 E-value=1e+02 Score=29.23 Aligned_cols=48 Identities=19% Similarity=0.198 Sum_probs=26.6
Q ss_pred HHHHHHHhhhcCCCCCCCC-CCCCCCchhhhhh-----hHHHHHHHHHHHHHHH
Q 030628 79 VYRFFEKLKSFEPAVSPTY-TEEGDDDGRALRM-----GKRLLRCLALVFGVIA 126 (174)
Q Consensus 79 v~r~f~KL~~~ePp~~~~~-~e~ge~~gr~~r~-----~KR~lRsl~LvfG~~~ 126 (174)
+.|.+.|=+..+|-+++.. ++..+++-|+.+. ..++.++++++.=|++
T Consensus 179 va~~li~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~l~~~~~~i~i~~~ 232 (404)
T COG0786 179 VARWLIKKNKLKPDPTKDPDDDLVDVAFEGPKSTRLITAEPLIETLAIIAICLA 232 (404)
T ss_pred HHHHHHHhcCCCCCCCCCchhhcchhhhhcccccccccHHHHHHHHHHHHHHHH
Confidence 6788888888888887664 3333333333222 2344445555444443
No 13
>PF10507 DUF2453: Protein of unknown function (DUF2453); InterPro: IPR019537 The function of these transmembrane protein is not known.
Probab=31.31 E-value=81 Score=24.96 Aligned_cols=44 Identities=23% Similarity=0.339 Sum_probs=29.1
Q ss_pred HHHHHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHHHHH
Q 030628 79 VYRFFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLLRCLALVFGVIAV 127 (174)
Q Consensus 79 v~r~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~lRsl~LvfG~~~v 127 (174)
+=|.-+|+. -+.|..+++ .-+.+.-|..+++=|+.|+.+||.+-
T Consensus 59 vE~~~~rlg----~~~P~Lt~~-Q~~~~~~r~a~~~G~~~Gv~iGClLG 102 (111)
T PF10507_consen 59 VERLAQRLG----LKAPVLTPA-QLNSRSTRWASNLGRAIGVTIGCLLG 102 (111)
T ss_pred HHHHHHHhC----CCCCCCCHH-HHhChHHHHHHHHHHHHHHHHHHHHH
Confidence 445555655 233344442 22456778899999999999999875
No 14
>PHA03234 DNA packaging protein UL33; Provisional
Probab=30.75 E-value=2e+02 Score=25.07 Aligned_cols=46 Identities=15% Similarity=0.283 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHHHHHHhhhHH
Q 030628 70 PLQFLAFAFVYRFFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLLRCLALVFGVIAVSSLAYT 133 (174)
Q Consensus 70 Pl~f~af~~v~r~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~lRsl~LvfG~~~v~sL~yT 133 (174)
|+...++.|. +++.+|++- ..+..||..|.+.++..+|++|=+=|.
T Consensus 209 Pl~im~~cY~-~I~~~L~~~-----------------~~~~~~k~~k~i~~vv~vF~iCWlPy~ 254 (338)
T PHA03234 209 PTMIFSFFYV-IFCKALHAL-----------------TEKKHKKTLFFIRILILSFLCIQIPNI 254 (338)
T ss_pred HHHHHHHHHH-HHHHHHHhh-----------------hhhhhhhhhhHHHHHHHHHHHHHhHHH
Confidence 6666777775 788888762 012347889999999999999555543
No 15
>PF10319 7TM_GPCR_Srj: Serpentine type 7TM GPCR chemoreceptor Srj; InterPro: IPR019423 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class j (Srj) from the Str superfamily [, ]. The Srj family is designated as the out-group based on its location in preliminary phylogenetic analyses of the entire superfamily [].
Probab=29.85 E-value=98 Score=28.18 Aligned_cols=68 Identities=16% Similarity=0.232 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHHHHHHHH-----HHHHHHHhhhHHhHHHHHHHhCccc
Q 030628 72 QFLAFAFVYRFFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLLRCLALV-----FGVIAVSSLAYTGILNLIEYAGGFI 146 (174)
Q Consensus 72 ~f~af~~v~r~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~lRsl~Lv-----fG~~~v~sL~yT~~ln~ie~~g~~i 146 (174)
+-+.|...+.+..||+.-. ..-+.+++|+-|+++|+|..= +-|+.=|.+..-+ -..|...
T Consensus 212 i~~y~vlg~~I~~kL~~~~----------~~mS~~T~~lq~qL~~AL~vQT~IPi~vsf~Pc~~~wy~-----pif~i~~ 276 (310)
T PF10319_consen 212 IILYFVLGYKIMKKLNKMS----------STMSKKTKRLQRQLFKALIVQTVIPICVSFSPCVLSWYG-----PIFGIDL 276 (310)
T ss_pred HHHHHHHHHHHHHHHhhch----------hhhCHhHHHHHHHHHHHHHHHHHhHHHHhhccHHHHHhH-----HHHcCCh
Confidence 4466777889999998432 223567999999999988753 4444334443333 3445566
Q ss_pred chheeccc
Q 030628 147 PAFLFDNQ 154 (174)
Q Consensus 147 P~~~y~~Q 154 (174)
.+|+++..
T Consensus 277 ~~~~n~~~ 284 (310)
T PF10319_consen 277 GRWNNYFS 284 (310)
T ss_pred hHHHHHHH
Confidence 67766543
No 16
>PF15420 Abhydrolase_9_N: Alpha/beta-hydrolase family N-terminus
Probab=28.99 E-value=2.9e+02 Score=23.38 Aligned_cols=23 Identities=22% Similarity=0.361 Sum_probs=12.0
Q ss_pred hHhHHHHHHHHHHHHhh--cccccc
Q 030628 47 RINLAISAAFTAWIAIK--RYAEYK 69 (174)
Q Consensus 47 ~IN~aIsa~~~~wi~~~--~~a~~k 69 (174)
.++.++..++++..+.. ..++||
T Consensus 50 ~~~~~~~~~~~~~~~~~l~~~~~WQ 74 (208)
T PF15420_consen 50 RLRWALAVAAAVVTVVALWRAARWQ 74 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666665555533332 555555
No 17
>PF09577 Spore_YpjB: Sporulation protein YpjB (SpoYpjB); InterPro: IPR014231 Proteins in thie entry, typified by YpjB, are restricted to a subset of the endospore-forming bacteria which includes Bacillus species, but not species. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon []. Sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect, but this gene is not, however, a part of the endospore formation minimal gene set.
Probab=28.90 E-value=52 Score=28.63 Aligned_cols=18 Identities=33% Similarity=0.565 Sum_probs=15.7
Q ss_pred HHHHHHHHHHhhhHHhHH
Q 030628 119 ALVFGVIAVSSLAYTGIL 136 (174)
Q Consensus 119 ~LvfG~~~v~sL~yT~~l 136 (174)
.+..|++++++|.|+||-
T Consensus 203 ~l~iG~iIi~tLtYvGwR 220 (232)
T PF09577_consen 203 MLSIGGIIIATLTYVGWR 220 (232)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 566899999999999995
No 18
>COG0690 SecE Preprotein translocase subunit SecE [Intracellular trafficking and secretion]
Probab=27.20 E-value=1.7e+02 Score=20.95 Aligned_cols=32 Identities=34% Similarity=0.364 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHHHHHHHHhhhHHhHHHHHHHh
Q 030628 111 GKRLLRCLALVFGVIAVSSLAYTGILNLIEYA 142 (174)
Q Consensus 111 ~KR~lRsl~LvfG~~~v~sL~yT~~ln~ie~~ 142 (174)
-|-+.|++..|+..+++.|+++-+.|.++..+
T Consensus 39 rke~~~~t~~Vl~~v~~~s~~~~~~D~l~~~~ 70 (73)
T COG0690 39 RKELIRSTLIVLVVVAFFSLFLYGLDQLIGKL 70 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46688999999999999999999998766543
No 19
>PF02936 COX4: Cytochrome c oxidase subunit IV; InterPro: IPR004203 Cytochrome c oxidase, a 13 sub-unit complex (1.9.3.1 from EC) is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of cytochrome c oxidase subunit IV. The Dictyostelium discoideum (Slime mould) member of this family is called COX VI. The Saccharomyces cerevisiae protein YGX6_YEAST appears to be the yeast COX IV subunit.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3ABK_Q 3AG1_Q 3ASN_Q 1OCZ_D 2EIN_Q 2OCC_D 2YBB_O 3AG3_D 1OCO_Q 1V55_Q ....
Probab=26.44 E-value=47 Score=26.65 Aligned_cols=75 Identities=23% Similarity=0.384 Sum_probs=35.3
Q ss_pred hhhhhhhcCccccceeeehhhccccCCCCc-cCCCCCCCCCcchhhHhHHHHHHHHHHHHhhcccccchHHHHHHHHHHH
Q 030628 3 EQLSKRKKGVTFGSFKVSKEIKFADKQPIF-PWGPRFAKSSPQDIRINLAISAAFTAWIAIKRYAEYKPLQFLAFAFVYR 81 (174)
Q Consensus 3 aQLs~RkkG~t~Gs~~VsKdikYADkqp~~-PW~PR~~~s~~kDi~IN~aIsa~~~~wi~~~~~a~~kPl~f~af~~v~r 81 (174)
.+|..|.||. .. +.|.|=|.|==-..| +|+||+..++..-..| ++.+ +.++++..+.-
T Consensus 34 ~~LkeKekg~-Wk--~LS~eEKkalY~isFg~~g~r~~~~~gewk~v---~~~~---------------~~~i~~s~~l~ 92 (142)
T PF02936_consen 34 EALKEKEKGD-WK--KLSLEEKKALYRISFGQTGPRMKAPTGEWKKV---FGGV---------------FIFIGFSVLLF 92 (142)
T ss_dssp HHHHHHTTS--GG--GS-HHHHHHHHHHH-SS-HHHHT---SHHHHH---HHHH---------------HHHHHHHHHHH
T ss_pred HHHHHHHhCC-Hh--hCCHHHHHHHHHhhhcCcccccccCCcchHHH---HHHH---------------HHHHHHHHHHH
Confidence 5788888883 23 467665544322233 9999977665544444 2222 23455566666
Q ss_pred HHHHhhhcCCCCCCCCCC
Q 030628 82 FFEKLKSFEPAVSPTYTE 99 (174)
Q Consensus 82 ~f~KL~~~ePp~~~~~~e 99 (174)
+++++-...|.| .+.++
T Consensus 93 ~~~r~~~~~~~P-~T~~~ 109 (142)
T PF02936_consen 93 IWQRSYVYPPLP-HTFSK 109 (142)
T ss_dssp HHHHHHT------GGGSH
T ss_pred HHHHHHhCCCCC-CCcCH
Confidence 666666554424 44444
No 20
>PF07343 DUF1475: Protein of unknown function (DUF1475); InterPro: IPR009943 This family consists of several hypothetical plant proteins of around 250 residues in length. Members of this family seem to be found exclusively in Arabidopsis thaliana. The function of this family is unknown.
Probab=26.36 E-value=3.7e+02 Score=24.26 Aligned_cols=95 Identities=25% Similarity=0.357 Sum_probs=55.1
Q ss_pred cCCCCCCCCCcchhhHhHHHHHHHHHHHHhhcccccchHHHHHHHHHHHH----------HHHhhhcCCCCCCCC-----
Q 030628 33 PWGPRFAKSSPQDIRINLAISAAFTAWIAIKRYAEYKPLQFLAFAFVYRF----------FEKLKSFEPAVSPTY----- 97 (174)
Q Consensus 33 PW~PR~~~s~~kDi~IN~aIsa~~~~wi~~~~~a~~kPl~f~af~~v~r~----------f~KL~~~ePp~~~~~----- 97 (174)
||+ ..+.-|.-+|+.+++ +||.++..--..-+.|...++.+.+ +-||..-||--.|.|
T Consensus 45 PWm----~aTL~DfYin~v~~A---~WI~ykE~nwlssi~Wivll~~lGsi~t~~Yl~i~l~~L~~~~~~qdp~~~~llr 117 (254)
T PF07343_consen 45 PWM----VATLIDFYINFVAIA---AWIAYKESNWLSSIFWIVLLICLGSIATCAYLVIQLLKLSPQESSQDPMYYLLLR 117 (254)
T ss_pred hHH----HHHHHHHHHHHHHHH---HHhhhccccHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhccccccccchHHHHhh
Confidence 675 356678888887654 4666664444444444444443332 334554454444433
Q ss_pred --CCCCCCchhhhhhhHHHHHHHHHHHHHHHHHhhhHHhH
Q 030628 98 --TEEGDDDGRALRMGKRLLRCLALVFGVIAVSSLAYTGI 135 (174)
Q Consensus 98 --~e~ge~~gr~~r~~KR~lRsl~LvfG~~~v~sL~yT~~ 135 (174)
+.+|. +-|.|....-..|..-.++|++..+.+.||.+
T Consensus 118 ~~~~~g~-~~~~~~s~vv~ar~vf~iLGavMl~vliyt~i 156 (254)
T PF07343_consen 118 NPIKQGN-GPRRKSSFVVTARIVFSILGAVMLFVLIYTLI 156 (254)
T ss_pred cccccCc-ccccccchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 22343 33344556667787778888888888889854
No 21
>PRK13554 fumarate reductase cytochrome b-556 subunit; Provisional
Probab=25.68 E-value=1.7e+02 Score=25.47 Aligned_cols=31 Identities=23% Similarity=0.143 Sum_probs=21.0
Q ss_pred HHHHHHHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHHHHH
Q 030628 77 AFVYRFFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLLRCLALVFGVIAV 127 (174)
Q Consensus 77 ~~v~r~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~lRsl~LvfG~~~v 127 (174)
-+++|.++|+=- ...||.+|.++.++.++++
T Consensus 184 hGl~s~~qtwG~--------------------~~~r~~~r~~~~v~~~~~i 214 (241)
T PRK13554 184 IGLYRVAVKWGL--------------------TTNRSGLRKVAKVLIIYLL 214 (241)
T ss_pred HHHHHHHhHhcc--------------------CCCcHHHHHHHHHHHHHHH
Confidence 468999999843 2234777777777755555
No 22
>COG1836 Predicted membrane protein [Function unknown]
Probab=25.61 E-value=26 Score=31.27 Aligned_cols=41 Identities=27% Similarity=0.345 Sum_probs=28.8
Q ss_pred HHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHHHHHHhhhHHhHHH
Q 030628 82 FFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLLRCLALVFGVIAVSSLAYTGILN 137 (174)
Q Consensus 82 ~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~lRsl~LvfG~~~v~sL~yT~~ln 137 (174)
++-++|++||+.+.--...|| ++-++||++++-++|-...+
T Consensus 150 lITtfkrV~~Gt~GaVS~~Ge---------------lAav~Ga~iIal~~~l~~~~ 190 (247)
T COG1836 150 LITTFKRVEPGTSGAVSLVGE---------------LAAVAGAFIIALLSYLVGYI 190 (247)
T ss_pred EEEeeeEcCCCCCCccchhhh---------------HHHHHHHHHHHHHHHHHHhc
Confidence 445577778777766666655 78888998887777665554
No 23
>PF02529 PetG: Cytochrome B6-F complex subunit 5; InterPro: IPR003683 This family consists of cytochrome b6/f complex subunit 5 (PetG). The cytochrome bf complex, found in green plants, eukaryotic algae and cyanobacteria, connects photosystem I to photosystem II in the electron transport chain, functioning as a plastoquinol:plastocyanin/cytochrome c6 oxidoreductase []. The purified complex from the unicellular alga Chlamydomonas reinhardtii contains seven subunits; namely four high molecular weight subunits (cytochrome f, Rieske iron-sulphur protein, cytochrome b6, and subunit IV) and three approximately miniproteins (PetG, PetL, and PetX) []. Stoichiometry measurements are consistent with every subunit being present as two copies per b6/f dimer. The absence of PetG affects either the assembly or stability of the cytochrome bf complex in C. reinhardtii [].; GO: 0009512 cytochrome b6f complex; PDB: 1Q90_G 2ZT9_G 1VF5_G 2D2C_G 2E74_G 2E75_G 2E76_G.
Probab=25.40 E-value=1.1e+02 Score=20.25 Aligned_cols=20 Identities=30% Similarity=0.499 Sum_probs=14.3
Q ss_pred HHHHHHHHHH--HhhhHHhHHH
Q 030628 118 LALVFGVIAV--SSLAYTGILN 137 (174)
Q Consensus 118 l~LvfG~~~v--~sL~yT~~ln 137 (174)
+|.|+|++.+ +-|++|.+++
T Consensus 7 ~GiVlGli~vtl~Glfv~Ay~Q 28 (37)
T PF02529_consen 7 SGIVLGLIPVTLAGLFVAAYLQ 28 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHhHHHHHHHHHHHHHHH
Confidence 6888998877 5566666654
No 24
>PF03209 PUCC: PUCC protein; InterPro: IPR004896 This protein is required for high-level transcription of the PUC operon. It is an integral membrane protein. The family includes other proteins form Rhodobacter eg. bacteriochlorophyll synthase.
Probab=25.24 E-value=4e+02 Score=25.11 Aligned_cols=97 Identities=14% Similarity=0.042 Sum_probs=55.0
Q ss_pred HhHHHHHHHHHHHHhh--cccccchHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHHH--HHHHHHH
Q 030628 48 INLAISAAFTAWIAIK--RYAEYKPLQFLAFAFVYRFFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLLR--CLALVFG 123 (174)
Q Consensus 48 IN~aIsa~~~~wi~~~--~~a~~kPl~f~af~~v~r~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~lR--sl~LvfG 123 (174)
+-+.+|+....+.+.. ..+=.|.+|-.+++-+.=++.-+-..||..+..-+++.+++..-+..-+++.+ --...|.
T Consensus 136 ~G~iv~ai~~g~lL~~~s~~rL~~v~~~~a~i~~~l~~ia~wg~E~r~~~~~~~~~~~~~~f~~a~~~~~~~~~a~~f~~ 215 (403)
T PF03209_consen 136 VGIIVSAIVFGRLLDPFSPERLIQVIQGVALIALLLNLIALWGQEPRRSRRAAAAERPRPPFREAWRQVWASPQARRFFV 215 (403)
T ss_pred HHHHHHHHHHHHHccccCHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcccccCCCCCCccHHHHHHHHHhCCChhHHHH
Confidence 3444555555566555 44455667777777777788888888988866663333333334333444443 2334444
Q ss_pred HHHHHhhhHHhHHHHHHHhCc
Q 030628 124 VIAVSSLAYTGILNLIEYAGG 144 (174)
Q Consensus 124 ~~~v~sL~yT~~ln~ie~~g~ 144 (174)
-++++.++|..=+-+.|-.|.
T Consensus 216 fl~l~t~a~~~QD~iLEPygg 236 (403)
T PF03209_consen 216 FLFLGTLAFFMQDVILEPYGG 236 (403)
T ss_pred HHHHHHHHHHhhHHHcCCchh
Confidence 455556666655555554443
No 25
>KOG4219 consensus G protein-coupled receptor [Signal transduction mechanisms]
Probab=25.14 E-value=1.8e+02 Score=27.83 Aligned_cols=57 Identities=21% Similarity=0.289 Sum_probs=39.8
Q ss_pred hHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHHHHHHHHHHHHHHHhhhH
Q 030628 70 PLQFLAFAFVYRFFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLLRCLALVFGVIAVSSLAY 132 (174)
Q Consensus 70 Pl~f~af~~v~r~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~lRsl~LvfG~~~v~sL~y 132 (174)
|++.+.+++ .++=.+|-..+-|... -|++. +.++.-|.++|.+.+|--+|++|=|=|
T Consensus 221 PliVl~~~Y-t~iav~LW~~~~~gd~-~d~~~----~~~kak~K~vkmliiVV~~FaicWlPy 277 (423)
T KOG4219|consen 221 PLIVLGLAY-TVIAVTLWGRRIPGDQ-QDRKH----EQLKAKKKVVKMLIIVVVIFAICWLPY 277 (423)
T ss_pred HHHHHHHHH-HHHHHHHHhccCccch-hchhh----HHHHHHHHHHHHHHHHHHHHHHhccCh
Confidence 777777777 7788888777633211 11222 377777889999999999999965433
No 26
>PF10749 DUF2534: Protein of unknown function (DUF2534); InterPro: IPR019685 This entry represents proteins with unknown function, and appear to be restricted to Enterobacteriaceae.
Probab=24.97 E-value=76 Score=24.34 Aligned_cols=20 Identities=40% Similarity=0.600 Sum_probs=16.6
Q ss_pred hhhhHHHHHHHHHHHHHHHH
Q 030628 108 LRMGKRLLRCLALVFGVIAV 127 (174)
Q Consensus 108 ~r~~KR~lRsl~LvfG~~~v 127 (174)
-+++|+++++++.||-+.+.
T Consensus 9 ~~~~kkFl~~l~~vfiia~~ 28 (85)
T PF10749_consen 9 TKEGKKFLLALAIVFIIAAT 28 (85)
T ss_pred ChhhhHHHHHHHHHHHHHHH
Confidence 46799999999999877665
No 27
>KOG4075 consensus Cytochrome c oxidase, subunit IV/COX5b [Energy production and conversion]
Probab=24.94 E-value=1.7e+02 Score=24.79 Aligned_cols=47 Identities=19% Similarity=0.210 Sum_probs=32.8
Q ss_pred CCCCCCCCCcchhhHhHHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHHhhhcCCCCCCCCCCC
Q 030628 34 WGPRFAKSSPQDIRINLAISAAFTAWIAIKRYAEYKPLQFLAFAFVYRFFEKLKSFEPAVSPTYTEE 100 (174)
Q Consensus 34 W~PR~~~s~~kDi~IN~aIsa~~~~wi~~~~~a~~kPl~f~af~~v~r~f~KL~~~ePp~~~~~~e~ 100 (174)
|+||-..+..-|+.. +.+ +.|++|...+.+|+|.. +.||...+.|.+
T Consensus 89 ~ae~~~~~~ewKtv~---g~~----------------~~f~Gl~~~v~l~~~v~-vy~~~P~Tf~~E 135 (167)
T KOG4075|consen 89 FAERNRGSNEWKTVF---GVA----------------GFFLGLTISVILFGKVR-VYGPLPKTFNKE 135 (167)
T ss_pred cccccCCCCcccchh---hHH----------------HHHHHHHHHHHHHHhhe-ecCCCCcchhHH
Confidence 777777776666554 222 23778888888999998 777777777763
No 28
>COG3038 CybB Cytochrome B561 [Energy production and conversion]
Probab=24.71 E-value=2e+02 Score=24.24 Aligned_cols=69 Identities=26% Similarity=0.343 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhhhcCCCCCCCCCCCCCCchhhhhhhHHHHH-HHHHHHHHHHHHhhhHHhHH------HHHHHhCc-ccc
Q 030628 76 FAFVYRFFEKLKSFEPAVSPTYTEEGDDDGRALRMGKRLLR-CLALVFGVIAVSSLAYTGIL------NLIEYAGG-FIP 147 (174)
Q Consensus 76 f~~v~r~f~KL~~~ePp~~~~~~e~ge~~gr~~r~~KR~lR-sl~LvfG~~~v~sL~yT~~l------n~ie~~g~-~iP 147 (174)
...+.|++-+++.-.||+.+.+.+ -.|...++.- +|=+.+.++-+ +|++ .-++++|. .+|
T Consensus 59 ~L~v~Rl~wrl~~~~p~~~~~~~~-------~~~~aA~~~Hl~LY~l~lalPl-----sG~l~~~~~g~~~~~FG~~~~p 126 (181)
T COG3038 59 ALMVLRLLWRLRNPAPPIVPGPPP-------WQRKAAKLGHLALYLLMLALPL-----SGYLLSTASGRPISVFGLFTVP 126 (181)
T ss_pred HHHHHHHHHHHcCCCCCCCCCCCh-------HHHHHHHHHHHHHHHHHHHHHH-----HHHHHHhcCCCCceecchhhcc
Confidence 356789999999988888776554 2233333333 22222333222 2322 35678887 888
Q ss_pred hheecccee
Q 030628 148 AFLFDNQEL 156 (174)
Q Consensus 148 ~~~y~~Qel 156 (174)
...-.++|+
T Consensus 127 ~~~~~~~~~ 135 (181)
T COG3038 127 ATLLPNPAL 135 (181)
T ss_pred CccCCCHHH
Confidence 888877554
No 29
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=24.28 E-value=1.9e+02 Score=25.29 Aligned_cols=85 Identities=14% Similarity=0.136 Sum_probs=48.6
Q ss_pred ccCCCCCCCCCcchhhHhHHHHH-HHHHHHHhhcccccchHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCchhhhhh
Q 030628 32 FPWGPRFAKSSPQDIRINLAISA-AFTAWIAIKRYAEYKPLQFLAFAFVYRFFEKLKSFEPAVSPTYTEEGDDDGRALRM 110 (174)
Q Consensus 32 ~PW~PR~~~s~~kDi~IN~aIsa-~~~~wi~~~~~a~~kPl~f~af~~v~r~f~KL~~~ePp~~~~~~e~ge~~gr~~r~ 110 (174)
+||-||.++.--+|.. +.+.+- +-..-.+++ -++++-|+...|-++|-.+.+-......|-+.. ..|-
T Consensus 21 Lpip~r~~~~~~~~~~-~~~~~~~~~~~i~~~~------~villlfiDsvr~i~~~~~~~~~~~n~~~~~~a----~~~~ 89 (216)
T KOG1962|consen 21 LPIPPRRRRKIFKDRL-KSGLAPQVLKTIATTM------IVILLLFIDSVRRIQKYVSEYGSMANPTDQPLA----RTHL 89 (216)
T ss_pred cCCCHHHHHHHHHHHH-HHhhhhHHHHHHHHHH------HHHHHHHHHHHHHHHHhhhhhhcccCCccchHH----HHHH
Confidence 5998888887666643 233332 111111111 246677788888888888776333323333222 4455
Q ss_pred hHHHHHH--------HHHHHHHHHH
Q 030628 111 GKRLLRC--------LALVFGVIAV 127 (174)
Q Consensus 111 ~KR~lRs--------l~LvfG~~~v 127 (174)
-.+++|+ |.|.|+-++-
T Consensus 90 ~~~l~raqrn~YisGf~LFL~lvI~ 114 (216)
T KOG1962|consen 90 LEALFRAQRNLYISGFVLFLSLVIR 114 (216)
T ss_pred HHHHHHHHhhhHHhHHHHHHHHHHH
Confidence 6778887 7777766554
No 30
>PRK10588 hypothetical protein; Provisional
Probab=24.11 E-value=1e+02 Score=23.80 Aligned_cols=36 Identities=22% Similarity=0.204 Sum_probs=24.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhHHhHH-H-HHHHhCcccc
Q 030628 109 RMGKRLLRCLALVFGVIAVSSLAYTGIL-N-LIEYAGGFIP 147 (174)
Q Consensus 109 r~~KR~lRsl~LvfG~~~v~sL~yT~~l-n-~ie~~g~~iP 147 (174)
-+.|+.+|++.++++...+ +.-.|+ | ..+-.|..-|
T Consensus 11 l~dK~plRaLSliLAl~la---~~v~w~P~~fa~~~~~~~~ 48 (97)
T PRK10588 11 VMDKRPLRALSLVMALLLA---GCMFWDPSRFAAKTSSLEI 48 (97)
T ss_pred HHhcchHHHHHHHHHHHHH---HHHHcCHHHHHHHcCCccH
Confidence 4789999999999988877 334444 3 5555554433
No 31
>PF04290 DctQ: Tripartite ATP-independent periplasmic transporters, DctQ component; InterPro: IPR007387 The function of the members of this family is unknown, but DctQ homologues are invariably found in the tripartite ATP-independent periplasmic transporters [].
Probab=23.30 E-value=2.5e+02 Score=20.30 Aligned_cols=39 Identities=18% Similarity=0.109 Sum_probs=27.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhhhHHhHH--HHHHHhCccc
Q 030628 108 LRMGKRLLRCLALVFGVIAVSSLAYTGIL--NLIEYAGGFI 146 (174)
Q Consensus 108 ~r~~KR~lRsl~LvfG~~~v~sL~yT~~l--n~ie~~g~~i 146 (174)
.+..||.++.++.+++.++..-+.|.++. ...+..+...
T Consensus 58 ~~~~~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 98 (133)
T PF04290_consen 58 PPRLRRILDIIASLLILVFFAVLAWYGWEYALAAFRSGQTT 98 (133)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcC
Confidence 44578889988888888888888899994 3444444433
No 32
>PRK13817 ribosome-binding factor A; Provisional
Probab=22.63 E-value=33 Score=26.57 Aligned_cols=23 Identities=17% Similarity=0.384 Sum_probs=19.5
Q ss_pred hhcCccccceeeehhhccccCCCCc
Q 030628 8 RKKGVTFGSFKVSKEIKFADKQPIF 32 (174)
Q Consensus 8 RkkG~t~Gs~~VsKdikYADkqp~~ 32 (174)
|.+++|.-.|+||+|.++|. .++
T Consensus 28 ~l~~vtVt~V~vS~Dl~~Ak--Vyv 50 (119)
T PRK13817 28 RLSKISLTAVSISPDLKQAK--VFY 50 (119)
T ss_pred CCCceEEeEEEECCCCCEEE--EEE
Confidence 56678888999999999998 555
No 33
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=21.67 E-value=2.4e+02 Score=18.76 Aligned_cols=26 Identities=19% Similarity=0.246 Sum_probs=19.7
Q ss_pred hhHHHHH------HHHHHHHHHHHHhhhHHhH
Q 030628 110 MGKRLLR------CLALVFGVIAVSSLAYTGI 135 (174)
Q Consensus 110 ~~KR~lR------sl~LvfG~~~v~sL~yT~~ 135 (174)
.-|-++| .|+|++=.++++..+||..
T Consensus 5 ~hkai~aYEr~Wi~F~l~mi~vFi~li~ytl~ 36 (38)
T PF09125_consen 5 AHKAIEAYERGWIAFALAMILVFIALIGYTLA 36 (38)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHh
Confidence 3455555 7888888888888999964
No 34
>PRK10921 twin-arginine protein translocation system subunit TatC; Provisional
Probab=21.54 E-value=2.1e+02 Score=24.74 Aligned_cols=30 Identities=20% Similarity=0.291 Sum_probs=19.5
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhHHhHHHHHHHh
Q 030628 110 MGKRLLRCLALVFGVIAVSSLAYTGILNLIEYA 142 (174)
Q Consensus 110 ~~KR~lRsl~LvfG~~~v~sL~yT~~ln~ie~~ 142 (174)
.-+|++|++..++.+++++ |.+...+++.+
T Consensus 16 LR~Rli~~li~~~i~~~~~---~~~~~~l~~~l 45 (258)
T PRK10921 16 LRKRLLNCIIAVLVIFLAL---VYFANDIYHLV 45 (258)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH
Confidence 4689999998888777663 33333444444
No 35
>KOG4455 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.47 E-value=1.1e+02 Score=24.46 Aligned_cols=29 Identities=31% Similarity=0.409 Sum_probs=21.4
Q ss_pred hhhhhHHHHH----HHHHHHHHHHHHhhhHHhHH
Q 030628 107 ALRMGKRLLR----CLALVFGVIAVSSLAYTGIL 136 (174)
Q Consensus 107 ~~r~~KR~lR----sl~LvfG~~~v~sL~yT~~l 136 (174)
..|||+..+- +.+.++||.+- -|+.|+..
T Consensus 18 av~nN~kvl~f~Rt~~s~i~G~aAG-ILGltg~~ 50 (110)
T KOG4455|consen 18 AVRNNKKVLEFVRTSSSAIAGCAAG-ILGLTGLH 50 (110)
T ss_pred HHhcCHHHHHHHHHHHHHHHHHHHH-HhhhhhHH
Confidence 7888887664 77889999876 66666544
No 36
>TIGR02112 cyd_oper_ybgE cyd operon protein YbgE. This model describes a small protein of unknown function, about 100 amino acids in length, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It appears to be an integral membrane protein. It is found so far only in the Proteobacteria.
Probab=21.17 E-value=1.2e+02 Score=23.18 Aligned_cols=35 Identities=29% Similarity=0.387 Sum_probs=23.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhHHhHH-H-HHHHhCccc
Q 030628 109 RMGKRLLRCLALVFGVIAVSSLAYTGIL-N-LIEYAGGFI 146 (174)
Q Consensus 109 r~~KR~lRsl~LvfG~~~v~sL~yT~~l-n-~ie~~g~~i 146 (174)
-+.|+.+|++.++++...+ +.-.|+ | +.+-.|..-
T Consensus 7 ~~dK~~lraLSlilAl~la---~~v~w~P~~fa~~~g~~~ 43 (93)
T TIGR02112 7 LMDKGLLRALSFILAFLLA---GCVFWDPNRFAAAIGGFN 43 (93)
T ss_pred HHhcchHHHHHHHHHHHHH---HHHHcCHHHHHHHcCCcc
Confidence 4789999999999988777 233444 4 555555443
No 37
>PHA03235 DNA packaging protein UL33; Provisional
Probab=20.74 E-value=4e+02 Score=24.19 Aligned_cols=23 Identities=9% Similarity=0.161 Sum_probs=16.1
Q ss_pred hHHHHHHHHHHHHHHHHHhhhHH
Q 030628 111 GKRLLRCLALVFGVIAVSSLAYT 133 (174)
Q Consensus 111 ~KR~lRsl~LvfG~~~v~sL~yT 133 (174)
.+|..+.+.++.++|++|-+=|-
T Consensus 239 ~~k~~~~v~iivv~F~iCWlPy~ 261 (409)
T PHA03235 239 RSRTLTFVCILLLSFLCLQTPFV 261 (409)
T ss_pred chhhhhhHHHHHHHHHHHHhHHH
Confidence 35667777778888888665553
No 38
>cd03512 Alkane-hydroxylase Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes in Pseudomonas oleovorans encode conversion of alkanes to acyl CoA. The alkane omega-hydroxylase (AlkB) system is responsible for the initial oxidation of inactivated alkanes. It is a three-component system comprising a soluble NADH-rubredoxin reductase (AlkT), a soluble rubredoxin (AlkG), and the integral membrane oxygenase (AlkB). AlkB utilizes the oxygen rebound mechanism to hydroxylate alkanes. This mechanism involves homolytic cleavage of the C-H bond by an electrophilic metal-oxo intermediate to generate a substrate-based radical. As with other members of this superfamily, this domain family has extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. The active
Probab=20.66 E-value=2.9e+02 Score=24.45 Aligned_cols=29 Identities=17% Similarity=0.202 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCCCCCCCC
Q 030628 72 QFLAFAFVYRFFEKLKSFEPAVSPTYTEE 100 (174)
Q Consensus 72 ~f~af~~v~r~f~KL~~~ePp~~~~~~e~ 100 (174)
.++++++++-++--|-.+-|.+..+.+|+
T Consensus 3 ~~~~~~~~~~~~~~lD~~~~~d~~~~~~~ 31 (314)
T cd03512 3 AWLGLLFITVLIPLLDALLGLDLSNPPEE 31 (314)
T ss_pred hHHHHHHHHHHHHHHHHHhCCCCCCCCch
Confidence 35666777777777777777777776664
No 39
>TIGR00367 K+-dependent Na+/Ca+ exchanger related-protein. This alignment models a family of bacterial and archaeal proteins that is homologous, except for lacking a central region of ~ 250 amino acids and an N-terminal region of 100 residues, to a functionally proven potassium-dependent sodium-calcium exchanger of the rat.
Probab=20.62 E-value=5.7e+02 Score=22.23 Aligned_cols=8 Identities=25% Similarity=0.227 Sum_probs=3.8
Q ss_pred HHHHHhCc
Q 030628 137 NLIEYAGG 144 (174)
Q Consensus 137 n~ie~~g~ 144 (174)
.+.|.+|.
T Consensus 195 ~i~~~lgi 202 (307)
T TIGR00367 195 QIAEIFGI 202 (307)
T ss_pred HHHHHhCC
Confidence 45555443
Done!