Query psy8730
Match_columns 287
No_of_seqs 155 out of 721
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 17:46:04 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8730.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8730hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PHA01886 TM2 domain-containing 99.8 1.2E-21 2.5E-26 152.8 5.6 63 29-92 1-63 (78)
2 PF05154 TM2: TM2 domain; Int 99.5 2.4E-14 5.3E-19 102.8 4.8 51 28-78 1-51 (51)
3 KOG4272|consensus 99.5 4.1E-14 8.8E-19 123.1 5.0 75 13-88 81-156 (164)
4 COG2314 XynA Predicted membran 98.2 1.3E-06 2.9E-11 69.7 4.0 54 27-84 5-58 (95)
5 PF06609 TRI12: Fungal trichot 65.2 25 0.00053 37.1 7.8 65 101-165 29-103 (599)
6 PF07712 SURNod19: Stress up-r 62.1 3.5 7.5E-05 41.2 0.9 26 245-270 45-71 (381)
7 TIGR02235 menA_cyano-plnt 1,4- 59.7 40 0.00086 32.0 7.5 57 113-169 132-189 (285)
8 PRK05951 ubiA prenyltransferas 58.4 45 0.00098 31.5 7.7 65 106-170 134-200 (296)
9 TIGR00802 nico high-affinity n 53.3 48 0.001 32.1 6.9 131 61-203 86-234 (280)
10 TIGR03747 conj_TIGR03747 integ 52.1 49 0.0011 31.0 6.7 54 99-158 168-221 (233)
11 PHA03029 hypothetical protein; 51.9 14 0.00031 29.6 2.6 40 119-158 23-72 (92)
12 COG1575 MenA 1,4-dihydroxy-2-n 47.0 1.3E+02 0.0027 29.5 8.8 52 114-165 148-200 (303)
13 PF04922 DIE2_ALG10: DIE2/ALG1 46.5 27 0.00059 34.8 4.3 45 230-274 206-259 (379)
14 PRK12392 bacteriochlorophyll c 45.6 72 0.0016 31.0 6.9 79 104-187 141-222 (331)
15 PF11833 DUF3353: Protein of u 43.9 2.2E+02 0.0048 25.9 9.4 19 73-91 32-50 (194)
16 PRK07419 1,4-dihydroxy-2-napht 43.5 1.1E+02 0.0024 29.4 7.8 53 113-165 145-198 (304)
17 COG5336 Uncharacterized protei 43.4 47 0.001 28.3 4.6 44 111-160 49-92 (116)
18 PF01534 Frizzled: Frizzled/Sm 43.1 69 0.0015 31.3 6.4 102 142-246 139-247 (328)
19 COG3376 HoxN High-affinity nic 42.6 1.6E+02 0.0034 29.3 8.6 119 71-203 146-285 (342)
20 PRK00259 intracellular septati 42.0 83 0.0018 28.2 6.3 18 260-277 134-151 (179)
21 TIGR00353 nrfE c-type cytochro 41.6 4.6E+02 0.0099 27.8 12.6 43 219-261 425-467 (576)
22 PRK13387 1,4-dihydroxy-2-napht 39.7 1.3E+02 0.0028 28.9 7.7 18 113-130 140-157 (317)
23 PF07694 5TM-5TMR_LYT: 5TMR of 38.5 2.1E+02 0.0045 24.0 7.9 22 114-135 15-36 (169)
24 PRK10654 dcuC C4-dicarboxylate 37.3 1.3E+02 0.0028 30.7 7.5 71 81-160 90-160 (455)
25 TIGR02046 sdhC_b558_fam succin 34.6 1.1E+02 0.0023 28.1 5.9 56 218-274 92-152 (214)
26 PLN02922 prenyltransferase 34.4 2.2E+02 0.0047 27.5 8.3 52 113-165 149-212 (315)
27 TIGR03145 cyt_nit_nrfE cytochr 34.1 6.2E+02 0.013 27.2 12.9 43 219-261 482-524 (628)
28 COG5130 YIP3 Prenylated rab ac 33.3 29 0.00062 30.9 1.9 35 145-180 83-126 (169)
29 PF02366 PMT: Dolichyl-phospha 33.1 1.6E+02 0.0034 26.3 6.7 14 105-118 44-57 (245)
30 COG3300 MHYT domain (predicted 32.8 1.7E+02 0.0037 27.8 7.0 124 126-255 61-209 (236)
31 TIGR00751 menA 1,4-dihydroxy-2 31.8 2.3E+02 0.005 26.9 7.9 58 113-170 135-193 (284)
32 PF12676 DUF3796: Protein of u 31.4 3.1E+02 0.0067 23.1 7.7 25 41-65 12-36 (118)
33 COG2142 SdhD Succinate dehydro 28.0 1.3E+02 0.0028 25.4 4.9 45 223-276 17-62 (117)
34 cd03495 SQR_TypeC_SdhD_like Su 27.6 78 0.0017 25.5 3.4 41 227-275 7-47 (100)
35 KOG2642|consensus 26.7 48 0.001 33.6 2.4 32 231-265 228-259 (446)
36 PRK06080 1,4-dihydroxy-2-napht 26.0 2.7E+02 0.0059 25.8 7.2 58 113-170 139-197 (293)
37 PF02632 BioY: BioY family; I 25.0 4E+02 0.0087 23.0 7.6 56 28-86 23-79 (148)
38 TIGR02230 ATPase_gene1 F0F1-AT 24.6 2.1E+02 0.0045 23.7 5.4 26 135-160 67-92 (100)
39 CHL00196 psbY photosystem II p 24.3 58 0.0012 22.5 1.7 24 141-165 2-25 (36)
40 TIGR03144 cytochr_II_ccsB cyto 23.7 5.7E+02 0.012 23.4 9.6 23 219-241 148-170 (243)
41 PRK00754 signal recognition pa 23.5 26 0.00056 28.6 -0.1 34 242-279 11-44 (95)
42 PRK15097 cytochrome d terminal 23.5 1.8E+02 0.0038 30.7 5.8 67 106-172 380-455 (522)
43 TIGR02921 PEP_integral PEP-CTE 23.4 8.8E+02 0.019 26.8 10.9 71 194-264 218-302 (952)
44 PRK12489 anaerobic C4-dicarbox 23.4 2.4E+02 0.0051 28.9 6.6 11 147-157 363-373 (443)
45 PF10974 DUF2804: Protein of u 23.2 30 0.00066 33.3 0.3 19 244-262 305-323 (333)
46 PF06298 PsbY: Photosystem II 22.4 67 0.0014 22.2 1.7 24 141-165 2-25 (36)
47 PF03613 EIID-AGA: PTS system 22.3 4.2E+02 0.0091 25.2 7.7 143 108-265 60-219 (264)
48 COG1784 Predicted membrane pro 21.7 2E+02 0.0043 29.3 5.6 52 28-81 148-200 (395)
49 PRK02251 putative septation in 21.5 1.3E+02 0.0029 24.3 3.6 27 105-131 29-55 (87)
50 PF05231 MASE1: MASE1; InterP 21.5 5.4E+02 0.012 23.3 8.1 71 143-218 28-103 (299)
51 COG3254 Uncharacterized conser 20.7 30 0.00066 29.0 -0.2 14 267-280 90-103 (105)
No 1
>PHA01886 TM2 domain-containing protein
Probab=99.84 E-value=1.2e-21 Score=152.83 Aligned_cols=63 Identities=40% Similarity=0.827 Sum_probs=59.7
Q ss_pred CccHHHHHHHHHHhhhcccceeecCCchhHHHHHHhhhhhhhHHHHHHHHHhhhhhHhhhhchh
Q psy8730 29 EKSLYITYLLWLVGGIFGVHHFYLGRDIQGFLWWCTLGGYFGFGWLRDIFHIQNYVADANKDRD 92 (287)
Q Consensus 29 ~Ks~~vAylLwlflG~fG~HrFYLGr~~~gil~l~T~gGlfgIgwliD~f~I~~~V~~~N~~~~ 92 (287)
.||+.+||+||+|+|.+|+||||+||+++|++|++|+ |++||||++|+|+||++++++|.+.+
T Consensus 1 ~Ks~~~AylL~~flG~~G~HRFYlG~~~~Gi~~l~t~-G~~gig~liD~flIp~~v~~~N~~~~ 63 (78)
T PHA01886 1 MKSTAIAYVLWFFLGFFGIHRFYTGNIATGIIWLFTG-GLFGIGWFIDLFLTAGLVQSSNVRWR 63 (78)
T ss_pred CCcHHHHHHHHHHHhhcccchhhcCChhHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4899999999999999999999999999999999999 45899999999999999999999864
No 2
>PF05154 TM2: TM2 domain; InterPro: IPR007829 This domain is composed of a pair of transmembrane alpha helices connected by a short linker. The function of this domain is unknown, however it occurs in a wide range or protein contexts.
Probab=99.50 E-value=2.4e-14 Score=102.79 Aligned_cols=51 Identities=43% Similarity=0.795 Sum_probs=47.7
Q ss_pred CCccHHHHHHHHHHhhhcccceeecCCchhHHHHHHhhhhhhhHHHHHHHH
Q psy8730 28 AEKSLYITYLLWLVGGIFGVHHFYLGRDIQGFLWWCTLGGYFGFGWLRDIF 78 (287)
Q Consensus 28 ~~Ks~~vAylLwlflG~fG~HrFYLGr~~~gil~l~T~gGlfgIgwliD~f 78 (287)
++||+.+|++|++++|.+|+||||+||+..|++++++..|++++|+++|++
T Consensus 1 ~~K~~~~a~lL~~~lG~~G~hrfYlg~~~~g~~~l~~~~g~~~i~~lid~i 51 (51)
T PF05154_consen 1 RQKSKWIAYLLSFFLGWFGLHRFYLGKYGKGILYLLTFIGILGIWWLIDLI 51 (51)
T ss_pred CCcCHHHHHHHHHHHhhccccceecCchHHHHHHHHHHHHHHHHHHHHHhC
Confidence 579999999999999999999999999999999999986668999999975
No 3
>KOG4272|consensus
Probab=99.47 E-value=4.1e-14 Score=123.10 Aligned_cols=75 Identities=36% Similarity=0.473 Sum_probs=65.1
Q ss_pred CCCccccCCccccccCCccHHHHHHHHHHhhhcccceeecCCchhHHHHHHhhhhhhhHHHHHHHHHhh-hhhHhhh
Q psy8730 13 VTSRTYNNSDKTKVHAEKSLYITYLLWLVGGIFGVHHFYLGRDIQGFLWWCTLGGYFGFGWLRDIFHIQ-NYVADAN 88 (287)
Q Consensus 13 ~~~~~y~~~~~~~~~~~Ks~~vAylLwlflG~fG~HrFYLGr~~~gil~l~T~gGlfgIgwliD~f~I~-~~V~~~N 88 (287)
-++|||-++-.+......+...+.+|.+|||+||++|||||.+..|+.+++|+|| +|||||+|+++|. ..+..++
T Consensus 81 ~~~rtF~k~~pC~~~~Gy~~~ttlllSifLG~fG~DRFyLGy~~~glgKl~tlGG-lgIw~lVDiiLI~lg~vgPaD 156 (164)
T KOG4272|consen 81 HGNRTFPKEIPCNWTNGYSWTTTLLLSIFLGGFGADRFYLGYWALGLGKLFTLGG-LGIWWLVDIILISLGYVGPAD 156 (164)
T ss_pred ecccccccccceeeecCeEehHHHHHHHHhhhccccEEEeCchHHhHhhhhcccc-chhHHHHHHHHHHhcccccCC
Confidence 3478887766666678889999999999999999999999999999999999988 8999999999996 5555543
No 4
>COG2314 XynA Predicted membrane protein [Function unknown]
Probab=98.21 E-value=1.3e-06 Score=69.71 Aligned_cols=54 Identities=31% Similarity=0.362 Sum_probs=40.9
Q ss_pred cCCccHHHHHHHHHHhhhcccceeecCCchhHHHHHHhhhhhhhHHHHHHHHHhhhhh
Q psy8730 27 HAEKSLYITYLLWLVGGIFGVHHFYLGRDIQGFLWWCTLGGYFGFGWLRDIFHIQNYV 84 (287)
Q Consensus 27 ~~~Ks~~vAylLwlflG~fG~HrFYLGr~~~gil~l~T~gGlfgIgwliD~f~I~~~V 84 (287)
.++|++.++.++++++|.+|+||||+||.++|++++... ++++.+++..|+...
T Consensus 5 ~~~~~k~~~~~~~~~~g~~G~hkfYlg~~~~gi~~~~~~----~~~i~~i~~~i~~~~ 58 (95)
T COG2314 5 KPKKNKLIAGLLAALFGIFGLHKFYLGQGGKGILTLLLN----WTGIFLILLLIGYLG 58 (95)
T ss_pred hhhhhHHHHHHHHHHhcccchHHHHcCCchhhhHHHHHH----hhHHHHHHHHHHHHH
Confidence 466777888788888889999999999999999966655 345555566655443
No 5
>PF06609 TRI12: Fungal trichothecene efflux pump (TRI12); InterPro: IPR010573 This family consists of several fungal specific trichothecene efflux pump proteins. Many of the genes involved in trichothecene toxin biosynthesis in Fusarium sporotrichioides are present within a gene cluster. It has been suggested that TRI12 may play a role in F. sporotrichioides self-protection against trichothecenes [].
Probab=65.17 E-value=25 Score=37.13 Aligned_cols=65 Identities=18% Similarity=0.249 Sum_probs=32.6
Q ss_pred hcCCCCCCCchhhHHHHH------HHHHHHHHHHHhh----cCCcccCCCChhhHHHHHHHHHhhhhhhhhcccc
Q psy8730 101 LRSYKYPPFSTIRFTGMT------VVAYLWSTVVSMA----IPEEDIGGLPWKYLHFLLPIACALGVWSVGNIGH 165 (287)
Q Consensus 101 ~~~~~~Pp~s~~RF~~q~------~vg~~fG~l~~~A----ip~~~~~g~~~~~~~~~iplavalGV~~VgniG~ 165 (287)
....+.+-+...||++.+ +++.+++.....+ |-++....-++.++...--++.+.+.=++|...+
T Consensus 29 ~~~~p~g~~~s~~~i~~~~~~~~~~~~~~~~~~~~a~~l~~I~~diG~~~~~~w~~~~~~l~~av~~~~~G~LSD 103 (599)
T PF06609_consen 29 ADELPDGYYRSPRFIASFAAFSLAVIAAYFVLVLPASILPYINADIGGSDNWSWFSTAWTLASAVSFPFVGRLSD 103 (599)
T ss_pred hhhCCCCceeCHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHhhHHHHH
Confidence 334456667778998886 2334555554322 2233222334445544444444444445555444
No 6
>PF07712 SURNod19: Stress up-regulated Nod 19; InterPro: IPR011692 This family of plant proteins have been implicated in nodule development [] in the legume Medicago truncatula (Barrel medic). MtN-19 was shown by Northern blot to be induced during nodulation []. The molecular function of these proteins is unknown.
Probab=62.14 E-value=3.5 Score=41.21 Aligned_cols=26 Identities=38% Similarity=0.806 Sum_probs=22.6
Q ss_pred hcceEecCCCCccchhHH-Hhhhhcch
Q psy8730 245 FNAKITDGEGEEIPLNEA-IHHFFKSP 270 (287)
Q Consensus 245 fN~~iT~~~g~ev~~~ea-~~~f~~Sp 270 (287)
||+++-|++|..||+||. |||.+.-+
T Consensus 45 FnAEvVDe~GnpVPL~EtYLHHWvv~~ 71 (381)
T PF07712_consen 45 FNAEVVDEAGNPVPLHETYLHHWVVIK 71 (381)
T ss_pred ccceeeccCCCccchhhheecceeeee
Confidence 899999999999999998 67766544
No 7
>TIGR02235 menA_cyano-plnt 1,4-dihydroxy-2-naphthoate phytyltransferase. This family of phytyltransferases, found in plants and cyanobacteria, are involved in the biosythesis of phylloquinone (Vitamin K1). Phylloquinone is a critical component of photosystem I. The closely related MenA enzyme from bacteria transfers a prenyl group (which only differs in the saturation of the isoprenyl groups) in the biosynthesis of menaquinone. Activity towards both substrates in certain organisms should be considered a possibility.
Probab=59.70 E-value=40 Score=31.99 Aligned_cols=57 Identities=5% Similarity=-0.069 Sum_probs=37.7
Q ss_pred hHHHHHHHHHHHHHHHHhhcCCcccCCCChhhHHHHHHHHHhh-hhhhhhccccccch
Q psy8730 113 RFTGMTVVAYLWSTVVSMAIPEEDIGGLPWKYLHFLLPIACAL-GVWSVGNIGHETGT 169 (287)
Q Consensus 113 RF~~q~~vg~~fG~l~~~Aip~~~~~g~~~~~~~~~iplaval-GV~~VgniG~q~~~ 169 (287)
|-+||+.++..+|.+.-.+.--.....+++..+...+|++... ++-++-|+.+...|
T Consensus 132 ~gLGE~~v~l~~G~l~v~g~~yvqt~~~~~~~~l~sl~~gl~~~~iL~~Nn~rD~e~D 189 (285)
T TIGR02235 132 QGLGEPICWLCFGPLAIAAALYAQSQSFSLIPWKASILVGLATTLILFCSHFHQVEDD 189 (285)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHhCCcCcHHHHHHHHHHHHHHHHHHHhcCCccchhH
Confidence 5679999999999888755422222455666677777777543 57777776664443
No 8
>PRK05951 ubiA prenyltransferase; Reviewed
Probab=58.41 E-value=45 Score=31.50 Aligned_cols=65 Identities=25% Similarity=0.288 Sum_probs=37.8
Q ss_pred CCCCchh-hHHHHHHHHHHHHHHHHhhcCCcccCCCChhhHHHHHHHHHh-hhhhhhhccccccchH
Q psy8730 106 YPPFSTI-RFTGMTVVAYLWSTVVSMAIPEEDIGGLPWKYLHFLLPIACA-LGVWSVGNIGHETGTI 170 (287)
Q Consensus 106 ~Pp~s~~-RF~~q~~vg~~fG~l~~~Aip~~~~~g~~~~~~~~~iplava-lGV~~VgniG~q~~~l 170 (287)
.||+... |..|++.+++.+|.+.-++.--......++.-+...+|++.. ..+.++.|+.+...|-
T Consensus 134 ~~P~~lky~glGe~~v~~~~g~~~vlg~~~~~~~~~~~~~~~~sl~~~l~~~~il~~n~~~D~e~D~ 200 (296)
T PRK05951 134 GPPFFLKYRWLGEHLVFYAWSHMLVMGLIYVWLGNLSSPNLLAGVPLGLLMALVLLSNNLRDIEDDE 200 (296)
T ss_pred CCCcccCCCCchHHHHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHCCCccchhHH
Confidence 3554444 889999999999965554432211223344545556666532 4577777776644443
No 9
>TIGR00802 nico high-affinity nickel-transporter, HoxN/HupN/NixA family. This family is found in both Gram-negative and Gram-positive bacteria. The functionally characterized members of the family catalyze uptake of either Ni2+ or Co2+ in a proton motive force-dependent process. Topological analyses with the HoxN Ni2+ transporter of Ralstonia eutropha (Alcaligenes eutrophus) suggest that it possesses 8 TMSs with its N- and C-termini in the cytoplasm.
Probab=53.33 E-value=48 Score=32.10 Aligned_cols=131 Identities=18% Similarity=0.224 Sum_probs=69.3
Q ss_pred HHHhhhhhhhHHHHHHHHHhhhhhHhhhhchhhHHHhhhhhcCCC-------CCCCc-hhhHHHHHHHHHHHHH------
Q psy8730 61 WWCTLGGYFGFGWLRDIFHIQNYVADANKDRDYLDKFNHNLRSYK-------YPPFS-TIRFTGMTVVAYLWST------ 126 (287)
Q Consensus 61 ~l~T~gGlfgIgwliD~f~I~~~V~~~N~~~~~~~~~~~~~~~~~-------~Pp~s-~~RF~~q~~vg~~fG~------ 126 (287)
+++.+ |+.=+.-++|+++.-+.+++.+.+.+..++. ...+ .|.|. ..|---+-.+|.+||+
T Consensus 86 FL~~i-g~~Nl~iL~~~~~~~r~~r~g~~~~~~l~~~----l~~rG~~~Rll~~lf~~v~~pw~mypvG~LFGLGFDTAT 160 (280)
T TIGR00802 86 FLLII-ALLNLVILRNLLRLFRKVRRGIYDEADLEAL----LGNRGLLTRLLGPLFRLVTKSWHMYPVGFLFGLGFDTAT 160 (280)
T ss_pred HHHHH-HHHHHHHHHHHHHHHHHhhccccchhhHHHh----hhccCcHHHHHHHHHHHhcCchHHHHHHHHHHcccchHH
Confidence 44444 4355667788888777666543333222221 1111 12222 1122223478888885
Q ss_pred -HHHhhcCCcccC-CCChhhHHHHHHHHHhhhhhhhhccccccchHHHHHHHHhhhcce--eeeecCchhHHHHHHHHHH
Q psy8730 127 -VVSMAIPEEDIG-GLPWKYLHFLLPIACALGVWSVGNIGHETGTIWWCLAAAYACYPV--YWYVDESTACTVMVLASAL 202 (287)
Q Consensus 127 -l~~~Aip~~~~~-g~~~~~~~~~iplavalGV~~VgniG~q~~~l~~~l~aA~~~~p~--~y~~de~~~~~~~sl~sa~ 202 (287)
++.++++..... |.+ .+...+.|+--++|.-++-.+-.--=+--|.+ || .-|. +|| |+.++.+|.+.|+
T Consensus 161 EIaLL~isa~~a~~g~~-~~~il~lP~LFtaGM~L~DT~Dg~lM~~aY~w--Af-~~P~rklyY---N~tiT~iSv~vA~ 233 (280)
T TIGR00802 161 EVALLGLSASAAARGLS-IAAVLSLPVLFAAGMALFDTADSLFMVGAYGW--AF-SDPLRKLYY---NITITGASVAVAL 233 (280)
T ss_pred HHHHHHHHHHHhccCCC-hHHHHHHHHHHHhhhHHhcCccHHHHHHHHHH--Hh-cCccceeee---ehhHHHHHHHHHH
Confidence 666666655433 544 45666779999999877766544111111111 33 3465 466 6777777766665
Q ss_pred h
Q psy8730 203 A 203 (287)
Q Consensus 203 ~ 203 (287)
.
T Consensus 234 ~ 234 (280)
T TIGR00802 234 F 234 (280)
T ss_pred H
Confidence 4
No 10
>TIGR03747 conj_TIGR03747 integrating conjugative element membrane protein, PFL_4697 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=52.11 E-value=49 Score=31.05 Aligned_cols=54 Identities=17% Similarity=0.140 Sum_probs=40.1
Q ss_pred hhhcCCCCCCCchhhHHHHHHHHHHHHHHHHhhcCCcccCCCChhhHHHHHHHHHhhhhh
Q psy8730 99 HNLRSYKYPPFSTIRFTGMTVVAYLWSTVVSMAIPEEDIGGLPWKYLHFLLPIACALGVW 158 (287)
Q Consensus 99 ~~~~~~~~Pp~s~~RF~~q~~vg~~fG~l~~~Aip~~~~~g~~~~~~~~~iplavalGV~ 158 (287)
+|-...+.-||--+|---.+.=.++...+..+|+|.. ..+..+++|.|+.+|+-
T Consensus 168 Rr~gaGrESsfvyH~Akr~~~p~~~~p~~lYLslP~s------v~P~~illP~a~llg~~ 221 (233)
T TIGR03747 168 RRFGAGRESSFVYHHAKRFVKPLMILPWVLYLSLPIS------IYPNLILLPAALLLGLA 221 (233)
T ss_pred HHhcCCccCcHHHHHHHHHHHHHHHHHHHHHHhcccc------cChhHHHHHHHHHHHHH
Confidence 3444556677877776666666777788899999987 46678889999998853
No 11
>PHA03029 hypothetical protein; Provisional
Probab=51.88 E-value=14 Score=29.59 Aligned_cols=40 Identities=30% Similarity=0.612 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHh-----hcCCcc---cCCC--ChhhHHHHHHHHHhhhhh
Q psy8730 119 VVAYLWSTVVSM-----AIPEED---IGGL--PWKYLHFLLPIACALGVW 158 (287)
Q Consensus 119 ~vg~~fG~l~~~-----Aip~~~---~~g~--~~~~~~~~iplavalGV~ 158 (287)
++|..||++.++ |+.|.. ..|+ -.+|+.|++|++.+.|.|
T Consensus 23 ~igiiwg~llsi~k~raai~qnirsrrkg~ywflnf~fwllp~al~a~fy 72 (92)
T PHA03029 23 IIGIIWGFLLSINKIRAAIDQNIRSRRKGLYWFLNFLFWLLPFALAAAFY 72 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 568888988763 666665 3465 346889999999998843
No 12
>COG1575 MenA 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]
Probab=46.97 E-value=1.3e+02 Score=29.54 Aligned_cols=52 Identities=17% Similarity=0.303 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHhhcCCcccCCCChhhHHHHHHHHHhhh-hhhhhcccc
Q psy8730 114 FTGMTVVAYLWSTVVSMAIPEEDIGGLPWKYLHFLLPIACALG-VWSVGNIGH 165 (287)
Q Consensus 114 F~~q~~vg~~fG~l~~~Aip~~~~~g~~~~~~~~~iplavalG-V~~VgniG~ 165 (287)
-+||+++|..||.+.-.+.=-.-...+++.-+...+|.++..+ |-+.-|+.+
T Consensus 148 gLGEi~~~vffG~l~v~g~~yiqt~~~~~~~ll~slp~gil~~~Il~aNNirD 200 (303)
T COG1575 148 GLGEIFVGVFFGPLIVLGAYYIQTGRLSWAILLPSLPVGILIANILLANNLRD 200 (303)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHhccccc
Confidence 4799999999999876544322234455666677777777765 444444443
No 13
>PF04922 DIE2_ALG10: DIE2/ALG10 family; InterPro: IPR007006 Members of this entry are glycosyltransferases, belonging to the ALG10 family. The majority of the members are annotated as alpha-1,2 glucosyltransferas. The ALG10 protein from Saccharomyces cerevisiae (Baker's yeast) encodes the alpha-1,2 glucosyltransferase of the endoplasmic reticulum. This protein has been characterised in Rat as potassium channel regulator 1 [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0016021 integral to membrane
Probab=46.46 E-value=27 Score=34.77 Aligned_cols=45 Identities=20% Similarity=0.393 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHhhhcceEecCCCCc--cchhH-------HHhhhhcchhhhh
Q psy8730 230 ACALLYSSLWGSYLYFNAKITDGEGEE--IPLNE-------AIHHFFKSPWWVD 274 (287)
Q Consensus 230 ~a~l~y~~l~~~~~yfN~~iT~~~g~e--v~~~e-------a~~~f~~Sp~W~d 274 (287)
..+++-.++-+.+++.||.|+.-|.|. +.+|= ++--||+.|.|..
T Consensus 206 ~Py~~v~~~F~~FV~~NGgIVlGDKsnH~a~~H~~Ql~Yf~~f~~~fs~P~~l~ 259 (379)
T PF04922_consen 206 LPYILVLAAFAAFVYWNGGIVLGDKSNHVATLHLPQLFYFWLFFAFFSWPLLLS 259 (379)
T ss_pred HHHHHHHHHHHHhheEcCeEEECccccCCccccHHHHHHHHHHHHHHHhHHHHh
Confidence 466777788889999999999999876 22221 1334678887764
No 14
>PRK12392 bacteriochlorophyll c synthase; Provisional
Probab=45.58 E-value=72 Score=31.04 Aligned_cols=79 Identities=11% Similarity=0.110 Sum_probs=44.0
Q ss_pred CCCCCCchhh--HHHHHHHHHHHHHHHHhhcCCcccCCCChh-hHHHHHHHHHhhhhhhhhccccccchHHHHHHHHhhh
Q psy8730 104 YKYPPFSTIR--FTGMTVVAYLWSTVVSMAIPEEDIGGLPWK-YLHFLLPIACALGVWSVGNIGHETGTIWWCLAAAYAC 180 (287)
Q Consensus 104 ~~~Pp~s~~R--F~~q~~vg~~fG~l~~~Aip~~~~~g~~~~-~~~~~iplavalGV~~VgniG~q~~~l~~~l~aA~~~ 180 (287)
+..||+...| +.+...+|.-+|.+..++-... ....++. +...+.+.....+.-++-++-+..+|.+. ..-|
T Consensus 141 YS~~P~~lKr~~~~g~~~vGl~~~~~~~~~~~a~-~g~~~~~~~~l~~~~~l~~~~~~~i~d~~D~egD~~~----G~kT 215 (331)
T PRK12392 141 YSAPPLKLKKNILTSAPAVGFSYGFITFLSANAL-FSDIRPEVVWLAGLNFFMAIALIIMNDFKSVEGDKEG----GLKS 215 (331)
T ss_pred hcCCchhhhccchhHHHHHHHHHHHHHHHHHHHH-hcCCCHHHHHHHHHHHHHHHHHHHHHcccchhhHHHc----CCee
Confidence 4457777777 7788889998887655442111 0112221 12222233333444445577777676653 5567
Q ss_pred cceeeee
Q psy8730 181 YPVYWYV 187 (287)
Q Consensus 181 ~p~~y~~ 187 (287)
.|++++.
T Consensus 216 lpV~~G~ 222 (331)
T PRK12392 216 LTVMIGA 222 (331)
T ss_pred eEeEEcH
Confidence 7888886
No 15
>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=43.91 E-value=2.2e+02 Score=25.87 Aligned_cols=19 Identities=5% Similarity=-0.067 Sum_probs=12.9
Q ss_pred HHHHHHHhhhhhHhhhhch
Q psy8730 73 WLRDIFHIQNYVADANKDR 91 (287)
Q Consensus 73 wliD~f~I~~~V~~~N~~~ 91 (287)
.-+|.++|-+.-.+.+.+.
T Consensus 32 aAYD~ILM~rL~~Rq~Gki 50 (194)
T PF11833_consen 32 AAYDAILMERLRQRQKGKI 50 (194)
T ss_pred HHHHHHHHHHHHHHHcCCC
Confidence 4578888877666655555
No 16
>PRK07419 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=43.54 E-value=1.1e+02 Score=29.37 Aligned_cols=53 Identities=8% Similarity=-0.056 Sum_probs=33.7
Q ss_pred hHHHHHHHHHHHHHHHHhhcCCcccCCCChhhHHHHHHHHHh-hhhhhhhcccc
Q psy8730 113 RFTGMTVVAYLWSTVVSMAIPEEDIGGLPWKYLHFLLPIACA-LGVWSVGNIGH 165 (287)
Q Consensus 113 RF~~q~~vg~~fG~l~~~Aip~~~~~g~~~~~~~~~iplava-lGV~~VgniG~ 165 (287)
|-+|++.++..||.+.-.+.---....+++..+...+|++.. ..+-++-|+.+
T Consensus 145 ~gLGE~~v~l~~G~l~v~g~~yv~t~~~~~~~~~~sl~~gll~~~IL~~Nn~rD 198 (304)
T PRK07419 145 QGLGEPLCFLAFGPLAVAAALYSQTPSWSLIPLAASIILGLATSLILFCSHFHQ 198 (304)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHcCCcc
Confidence 668999999999988776553222344566666666666643 24555666544
No 17
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.36 E-value=47 Score=28.27 Aligned_cols=44 Identities=18% Similarity=0.133 Sum_probs=31.0
Q ss_pred hhhHHHHHHHHHHHHHHHHhhcCCcccCCCChhhHHHHHHHHHhhhhhhh
Q psy8730 111 TIRFTGMTVVAYLWSTVVSMAIPEEDIGGLPWKYLHFLLPIACALGVWSV 160 (287)
Q Consensus 111 ~~RF~~q~~vg~~fG~l~~~Aip~~~~~g~~~~~~~~~iplavalGV~~V 160 (287)
.+-|++-++||..+|++.= -.+|-.+-++++++=++.++||..|
T Consensus 49 ssefIsGilVGa~iG~llD------~~agTsPwglIv~lllGf~AG~lnv 92 (116)
T COG5336 49 SSEFISGILVGAGIGWLLD------KFAGTSPWGLIVFLLLGFGAGVLNV 92 (116)
T ss_pred HHHHHHHHHHHHHHHHHHH------HhcCCCcHHHHHHHHHHHHHHHHHH
Confidence 3457888888888888763 3344434558888889999997654
No 18
>PF01534 Frizzled: Frizzled/Smoothened family membrane region; InterPro: IPR000539 The frizzled (fz) locus of Drosophila coordinates the cytoskeletons of epidermal cells, producing a parallel array of cuticular hairs and bristles [, ]. In fz mutants, the orientation of individual hairs with respect both to their neighbours and to the organism as a whole is altered. In the wild-type wing, all hairs point towards the distal tip []. In the developing wing, fz has 2 functions: it is required for the proximal-distal transmission of an intracellular polarity signal; and it is required for cells to respond to the polarity signal. Fz produces an mRNA that encodes an integral membrane protein with 7 putative transmembrane (TM) domains. This protein should contain both extracellular and cytoplasmic domains, which could function in the transmission and interpretation of polarity information []. This signature is usually found downstream of the Fz domain (IPR000024 from INTERPRO); GO: 0007166 cell surface receptor linked signaling pathway, 0016020 membrane
Probab=43.06 E-value=69 Score=31.29 Aligned_cols=102 Identities=11% Similarity=0.182 Sum_probs=52.6
Q ss_pred hhhHHHHHHHHHhhhhhhhhccccc-------cchHHHHHHHHhhhcceeeeecCchhHHHHHHHHHHhccccccccccC
Q psy8730 142 WKYLHFLLPIACALGVWSVGNIGHE-------TGTIWWCLAAAYACYPVYWYVDESTACTVMVLASALAFDTLSKRWQTK 214 (287)
Q Consensus 142 ~~~~~~~iplavalGV~~VgniG~q-------~~~l~~~l~aA~~~~p~~y~~de~~~~~~~sl~sa~~~d~~sk~wr~~ 214 (287)
.-...|.+|+.-+..|-..+.+... -|+-.......|+.-|...+-=-...+++..+++-.-- .+.-+..
T Consensus 139 fH~~aW~iP~~~ti~vL~~~~VdgD~ltGiC~Vg~~~~~~l~~fvl~Pl~i~l~iG~~fL~~G~~~l~ri---r~~~~~~ 215 (328)
T PF01534_consen 139 FHLVAWGIPAVLTIAVLALRKVDGDELTGICFVGNQNPSALRGFVLAPLFIYLLIGTVFLLAGFVSLFRI---RRSMKHD 215 (328)
T ss_pred hhhHHhhhhHHHHHHHHHhcccccccccceeEEeCCCHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhcc---hhhhccc
Confidence 3455688999988888887775441 11112223444555555433211334444555442222 2222222
Q ss_pred CCCCccchhhHHHHHHHHHHHHHHHHHHhhhc
Q psy8730 215 PKPRKRFLRRCLTIGACALLYSSLWGSYLYFN 246 (287)
Q Consensus 215 ~~~~~~~~~R~~~l~~a~l~y~~l~~~~~yfN 246 (287)
.++.+++-+=+.|+|+-.++|+.|....+..+
T Consensus 216 ~~~~~Kl~klm~RiGiFsvly~vp~~~~i~c~ 247 (328)
T PF01534_consen 216 GTKTSKLEKLMIRIGIFSVLYLVPALIVIACH 247 (328)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 23333444444677888888887777655443
No 19
>COG3376 HoxN High-affinity nickel permease [Inorganic ion transport and metabolism]
Probab=42.56 E-value=1.6e+02 Score=29.30 Aligned_cols=119 Identities=21% Similarity=0.310 Sum_probs=63.9
Q ss_pred HHHHHHHHHhhhhhHhhhhchhhHHHhhhhhcCCCCCCCchhhHHHHH-----------HHHHHHHH-------HHHhhc
Q psy8730 71 FGWLRDIFHIQNYVADANKDRDYLDKFNHNLRSYKYPPFSTIRFTGMT-----------VVAYLWST-------VVSMAI 132 (287)
Q Consensus 71 IgwliD~f~I~~~V~~~N~~~~~~~~~~~~~~~~~~Pp~s~~RF~~q~-----------~vg~~fG~-------l~~~Ai 132 (287)
.=.++++++.-..+++...+.+.++++.. + +. -..||.+-+ .||.+||+ ++.+|+
T Consensus 146 liiLi~l~k~f~~~~~~~~~e~ele~ll~---~-rG---ll~R~f~~lFrlvtksWhmypvGFLFGLGFDTATEiaLL~i 218 (342)
T COG3376 146 LIILVGLYKIFKKVRRSDQQEAELEELLT---S-RG---LLNRFFGRLFRLVTKSWHMYPVGFLFGLGFDTATEIALLAI 218 (342)
T ss_pred HHHHHHHHHHHHHHHHhhhchHHHHHHHh---c-Cc---HHHHHHHHHHHHhcCcceEeehhhhhccccchHHHHHHHHH
Confidence 33567777776666664433333333332 1 11 255666544 47888774 344454
Q ss_pred CCcc-cCCCChhhHHHHHHHHHhhhhhhhhccccccchHHHHHHHHhhhccee--eeecCchhHHHHHHHHHHh
Q psy8730 133 PEED-IGGLPWKYLHFLLPIACALGVWSVGNIGHETGTIWWCLAAAYACYPVY--WYVDESTACTVMVLASALA 203 (287)
Q Consensus 133 p~~~-~~g~~~~~~~~~iplavalGV~~VgniG~q~~~l~~~l~aA~~~~p~~--y~~de~~~~~~~sl~sa~~ 203 (287)
+..- .-|.+ .+-+.+.|+--|.|.-++-+.-+-- ...+-.=||.+ |+| || |+.++.+|+..|+.
T Consensus 219 sa~~a~~gi~-~~~il~fPiLFaaGM~L~DtlDg~f--M~~AYgWAF~~-P~RKiyY---NiTiTaiSV~iA~~ 285 (342)
T COG3376 219 SAASAAIGIP-IYAILVFPILFAAGMSLLDTLDGFF--MNGAYGWAFSS-PLRKIYY---NITITAISVLIALF 285 (342)
T ss_pred hhHhhhcCCC-hHHHHHHHHHHHccchhhhccccHH--HhhhhhhhhcC-hhhhHhh---heeHHHHHHHHHHH
Confidence 4422 24655 4466778998888876665543310 11111224443 774 66 66676677666654
No 20
>PRK00259 intracellular septation protein A; Reviewed
Probab=42.01 E-value=83 Score=28.21 Aligned_cols=18 Identities=22% Similarity=0.423 Sum_probs=11.0
Q ss_pred hHHHhhhhcchhhhhhhh
Q psy8730 260 NEAIHHFFKSPWWVDLLA 277 (287)
Q Consensus 260 ~ea~~~f~~Sp~W~d~k~ 277 (287)
+|.+...++-.+|.++|-
T Consensus 134 n~~v~~~~s~~~Wv~fK~ 151 (179)
T PRK00259 134 NLYVARNFSTDTWVNFKV 151 (179)
T ss_pred HHHHHHHCCccHHHHHHH
Confidence 333433456668999984
No 21
>TIGR00353 nrfE c-type cytochrome biogenesis protein CcmF. The product of this gene is required for the biogenesis of C-type cytochromes. This gene is thought to have eleven transmembrane helices. Disruption of this gene in Paracoccus denitrificans, encoding a putative transporter, results in formation of an unstable apocytochrome c and deficiency in siderophore production.
Probab=41.60 E-value=4.6e+02 Score=27.83 Aligned_cols=43 Identities=7% Similarity=0.115 Sum_probs=29.8
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHhhhcceEecCCCCccchhH
Q psy8730 219 KRFLRRCLTIGACALLYSSLWGSYLYFNAKITDGEGEEIPLNE 261 (287)
Q Consensus 219 ~~~~~R~~~l~~a~l~y~~l~~~~~yfN~~iT~~~g~ev~~~e 261 (287)
+...--+.-+|++.++.-...++..---.+++.+.||++.+.+
T Consensus 425 ~~~g~~laH~Gval~~~Gi~~ss~~~~e~~~~L~pGet~~~~~ 467 (576)
T TIGR00353 425 SQWGMLLAHLGVALTAAGIVFSQNFSVEIDVRLKPGQSVTLGG 467 (576)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHcccceeEEEEECCCCcEEEcC
Confidence 3445566778888877766666555556677788899887654
No 22
>PRK13387 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=39.66 E-value=1.3e+02 Score=28.93 Aligned_cols=18 Identities=6% Similarity=-0.136 Sum_probs=13.8
Q ss_pred hHHHHHHHHHHHHHHHHh
Q psy8730 113 RFTGMTVVAYLWSTVVSM 130 (287)
Q Consensus 113 RF~~q~~vg~~fG~l~~~ 130 (287)
|=+|++.++..+|.+.-.
T Consensus 140 ~gLGe~~v~i~~G~~~v~ 157 (317)
T PRK13387 140 MPLGEIFSGLTMGFGIFL 157 (317)
T ss_pred CccHHHHHHHHHHHHHHH
Confidence 447999999998876543
No 23
>PF07694 5TM-5TMR_LYT: 5TMR of 5TMR-LYT; InterPro: IPR011620 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the transmembrane region of the 5TM-Lyt (5TM Receptors of the LytS-YhcK type) histidine kinase []. The two-component regulatory system LytS/LytT probably regulates genes involved in cell wall metabolism. ; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0007047 cellular cell wall organization, 0016021 integral to membrane
Probab=38.52 E-value=2.1e+02 Score=23.99 Aligned_cols=22 Identities=9% Similarity=0.156 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHhhcCCc
Q psy8730 114 FTGMTVVAYLWSTVVSMAIPEE 135 (287)
Q Consensus 114 F~~q~~vg~~fG~l~~~Aip~~ 135 (287)
.--++++|.++|.+..+.+-..
T Consensus 15 ~~~~~~~g~~~g~~~il~m~~~ 36 (169)
T PF07694_consen 15 FKRKILIGLLFGILGILLMYFP 36 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHccC
Confidence 3346777777777665444433
No 24
>PRK10654 dcuC C4-dicarboxylate transporter DcuC; Provisional
Probab=37.25 E-value=1.3e+02 Score=30.66 Aligned_cols=71 Identities=17% Similarity=0.336 Sum_probs=43.4
Q ss_pred hhhhHhhhhchhhHHHhhhhhcCCCCCCCchhhHHHHHHHHHHHHHHHHhhcCCcccCCCChhhHHHHHHHHHhhhhhhh
Q psy8730 81 QNYVADANKDRDYLDKFNHNLRSYKYPPFSTIRFTGMTVVAYLWSTVVSMAIPEEDIGGLPWKYLHFLLPIACALGVWSV 160 (287)
Q Consensus 81 ~~~V~~~N~~~~~~~~~~~~~~~~~~Pp~s~~RF~~q~~vg~~fG~l~~~Aip~~~~~g~~~~~~~~~iplavalGV~~V 160 (287)
..+.+.-.-++..++-..+-++.-|.| +- -+..++..|.+..+++|+. +|...-.....+|+.+++|+--.
T Consensus 90 a~yM~~iGa~~~lv~l~~~pl~~ir~p-~~------~l~~~~l~~~~~~~~i~Sa--~glg~~lm~~l~Pvl~~~Gv~~~ 160 (455)
T PRK10654 90 AAYMTHIGANDMVVKLASKPLQYINSP-YL------LMIAAYFVACLMSLAVSSA--TGLGVLLMATLFPVMVNVGISRG 160 (455)
T ss_pred HHHHhhcCchHHHHHHHHHHHhccCCc-hh------HHHHHHHHHHHHHHHHhhH--HHHHHHHHHHHHHHHHhCCCCHH
Confidence 444444444444444444555555554 32 2466778899999999988 44444445557888888886544
No 25
>TIGR02046 sdhC_b558_fam succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family. This family consists of the succinate dehydrogenase subunit C of Bacillus subtilis, designated cytochrome b-558, and related sequences that include a fumarate reductase subunit C. This subfamily is only weakly similar to the main group of succinate dehydrogenase cytochrome b subunits described by Pfam model pfam01127.
Probab=34.61 E-value=1.1e+02 Score=28.06 Aligned_cols=56 Identities=14% Similarity=0.151 Sum_probs=32.8
Q ss_pred CccchhhHHHHHHHHHHHHHHHHHHhhh----cceEecCCCC-ccchhHHHhhhhcchhhhh
Q psy8730 218 RKRFLRRCLTIGACALLYSSLWGSYLYF----NAKITDGEGE-EIPLNEAIHHFFKSPWWVD 274 (287)
Q Consensus 218 ~~~~~~R~~~l~~a~l~y~~l~~~~~yf----N~~iT~~~g~-ev~~~ea~~~f~~Sp~W~d 274 (287)
+.+...|..+++...++....|=-.-+- |.+++. +++ .-.+.+.+.+=|.+|||.=
T Consensus 92 ~~t~a~~~m~~tG~ill~Fiv~Hl~~f~~~~~~~~~~~-~~~~~~d~y~~v~~~f~~p~~~~ 152 (214)
T TIGR02046 92 GVSWASRTMRVTGIIVLIFIGWHVLDFTIGAQMGEIFH-MGVARHDGYDMVVLTFSSPIMLS 152 (214)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHhhccccCccccc-ccccchhHHHHHHHHHccHHHHH
Confidence 3556778888877777665554333221 222211 122 2346788999999999874
No 26
>PLN02922 prenyltransferase
Probab=34.43 E-value=2.2e+02 Score=27.52 Aligned_cols=52 Identities=8% Similarity=0.010 Sum_probs=29.2
Q ss_pred hHHHHHHHHHHHHHHHHhhcCCcccCC-----------CChhhHHHHHHHHHhh-hhhhhhcccc
Q psy8730 113 RFTGMTVVAYLWSTVVSMAIPEEDIGG-----------LPWKYLHFLLPIACAL-GVWSVGNIGH 165 (287)
Q Consensus 113 RF~~q~~vg~~fG~l~~~Aip~~~~~g-----------~~~~~~~~~iplaval-GV~~VgniG~ 165 (287)
|-+||+.++..||.++-.+. -....| .++..+...+|++... ++-++-|+-+
T Consensus 149 ~gLGE~~v~i~fG~l~v~g~-y~~~~~~~~~~~~~~~~~~~~~~l~slp~gll~~~iL~~Nn~rD 212 (315)
T PLN02922 149 KGLGEPLCFAAFGPLATTAF-YLALASGAGGSEMAILPLTPTVLSASVLVGLTTTLILFCSHFHQ 212 (315)
T ss_pred CcchHHHHHHHHHHHHHHHH-HHHhcccccccccccccccHHHHHHHHHHHHHHHHHHHHccCcc
Confidence 56799999999998776542 010111 2333344555555443 4666666554
No 27
>TIGR03145 cyt_nit_nrfE cytochrome c nitrate reductase biogenesis protein NrfE. Members of this protein family closely resemble the CcmF protein of the CcmABCDEFGH system, or system I, for c-type cytochrome biogenesis (GenProp0678). Members are found, as a rule, next to closely related paralogs of CcmG and CcmH and always located near other genes associated with the cytochrome c nitrite reductase enzyme complex. As a rule, members are found in species that also encode bona fide members of the CcmF, CcmG, and CcmH families.
Probab=34.07 E-value=6.2e+02 Score=27.19 Aligned_cols=43 Identities=12% Similarity=0.124 Sum_probs=29.9
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHhhhcceEecCCCCccchhH
Q psy8730 219 KRFLRRCLTIGACALLYSSLWGSYLYFNAKITDGEGEEIPLNE 261 (287)
Q Consensus 219 ~~~~~R~~~l~~a~l~y~~l~~~~~yfN~~iT~~~g~ev~~~e 261 (287)
+...--+.-+|+|.++.-...++..=--.+++.+.||++++.+
T Consensus 482 ~~~G~~laH~Gval~~~Gi~~ss~~~~e~~~~l~~Ge~~~~~~ 524 (628)
T TIGR03145 482 RQLGMVLAHLGVAICAIGAIMVSYFGSEIGVRLAPQQQQPLGG 524 (628)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccceeEEEECCCCeEEEcC
Confidence 3445566778888887776666644455567788899988766
No 28
>COG5130 YIP3 Prenylated rab acceptor 1 and related proteins [Intracellular trafficking and secretion / Signal transduction mechanisms]
Probab=33.25 E-value=29 Score=30.95 Aligned_cols=35 Identities=23% Similarity=0.290 Sum_probs=25.5
Q ss_pred HHHHHHHHHhhhhh---------hhhccccccchHHHHHHHHhhh
Q psy8730 145 LHFLLPIACALGVW---------SVGNIGHETGTIWWCLAAAYAC 180 (287)
Q Consensus 145 ~~~~iplavalGV~---------~VgniG~q~~~l~~~l~aA~~~ 180 (287)
+++++.+.| .||| +|-|++-++++--++-+++.+.
T Consensus 83 LlivIgivv-aGvygi~kl~g~~lv~~~~~~~~~~ly~glvcvli 126 (169)
T COG5130 83 LLIVIGIVV-AGVYGIRKLRGRPLVCNIELEPRSVLYAGLVCVLI 126 (169)
T ss_pred HHHHHhhhh-heeeehhhcccCccccccceeecchhhhhHHHHHH
Confidence 444555543 4888 8889999988888888888765
No 29
>PF02366 PMT: Dolichyl-phosphate-mannose-protein mannosyltransferase ; InterPro: IPR003342 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Dolichyl-phosphate-mannose-protein mannosyltransferase proteins 2.4.1.109 from EC belong to the glycosyltransferase family 39 (GT39 from CAZY) and are responsible for O-linked glycosylation of proteins. They catalyse the reaction: Dolichyl phosphate D-mannose + protein -> dolichyl phosphate + O-D-mannosyl-protein. The transfer of mannose to seryl and threonyl residues of secretory proteins is catalyzed by a family of protein mannosyltransferases in Saccharomyces cerevisiae coded for by seven genes (PMT1-7). Protein O-glycosylation is essential for cell wall rigidity and cell integrity and this protein modification is vital for S. cerevisiae [].; GO: 0000030 mannosyltransferase activity, 0006493 protein O-linked glycosylation, 0016020 membrane
Probab=33.11 E-value=1.6e+02 Score=26.34 Aligned_cols=14 Identities=21% Similarity=0.420 Sum_probs=9.4
Q ss_pred CCCCCchhhHHHHH
Q psy8730 105 KYPPFSTIRFTGMT 118 (287)
Q Consensus 105 ~~Pp~s~~RF~~q~ 118 (287)
.+||+.+.++-+..
T Consensus 44 ~~p~~~~~~~~~~~ 57 (245)
T PF02366_consen 44 EHPPLGKLLFALGA 57 (245)
T ss_pred cCCcccchhhhhhh
Confidence 56888887775333
No 30
>COG3300 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]
Probab=32.84 E-value=1.7e+02 Score=27.78 Aligned_cols=124 Identities=15% Similarity=0.116 Sum_probs=67.1
Q ss_pred HHHHhhcCCcccCCCChhhHHHHHHHHHhh---hhhhhhccccccchHHHHHH-----------------HHhhhcceee
Q psy8730 126 TVVSMAIPEEDIGGLPWKYLHFLLPIACAL---GVWSVGNIGHETGTIWWCLA-----------------AAYACYPVYW 185 (287)
Q Consensus 126 ~l~~~Aip~~~~~g~~~~~~~~~iplaval---GV~~VgniG~q~~~l~~~l~-----------------aA~~~~p~~y 185 (287)
+++.+|.....--|+|+.+-.+.+-+||+. |.| +.+++..+.+.+. +|+-+-+..+
T Consensus 61 FVaMLAf~~~ipi~YDp~~T~lSl~iAv~~s~~al~----vs~~~~~~~~~l~Gg~llGlgIAaMHYtGMaA~~~~g~I~ 136 (236)
T COG3300 61 FVAMLAFHPGIPIGYDPFLTGLSLLIAVAGSAAALW----VSAARLRLYRLLVGGLLLGLGIAAMHYTGMAAMEVQGTIV 136 (236)
T ss_pred HHHHHhccCCCCcccChHHHHHHHHHHHHHHHHHHH----HHhccccccchhHHHHHHhhhHHHHHHhhHHHHHHcceee
Confidence 344455444444456665555555555554 445 4444444544444 4455557778
Q ss_pred eecCc---hhHHHHHHHHHHhccccccccccCCCCC--ccchhhHHHHHHHHHHHHHHHHHHhhhcceEecCCCC
Q psy8730 186 YVDES---TACTVMVLASALAFDTLSKRWQTKPKPR--KRFLRRCLTIGACALLYSSLWGSYLYFNAKITDGEGE 255 (287)
Q Consensus 186 ~~de~---~~~~~~sl~sa~~~d~~sk~wr~~~~~~--~~~~~R~~~l~~a~l~y~~l~~~~~yfN~~iT~~~g~ 255 (287)
|. -. .|+++-+.+|.++...+.+ =|...+.+ +-..--+..++.|.+=|++-=+-.+-.+..++-+|.+
T Consensus 137 y~-~~~v~~Svliav~as~~AL~~~~r-lr~s~~~~~~~~~~a~ll~laI~gmHfTgMaA~~f~~d~~~~~~~~~ 209 (236)
T COG3300 137 YD-PALVALSVLIAVAASFVALWLFFR-LRGSRRSRLRRAVAALLLGLAIVGMHFTGMAAAVFPPDPSIPGPHQG 209 (236)
T ss_pred ec-hHHHHHHHHHHHHHHHHHHHHHHH-HhccchhHHHHHHHHHHHHHHHHHHHHHhhhceeecCCCCCCCCCCC
Confidence 84 22 3443444444444422222 11111111 1233446778888899999988888888888877765
No 31
>TIGR00751 menA 1,4-dihydroxy-2-naphthoate octaprenyltransferase. This membrane-associated enzyme converts 1,4-dihydroxy-2-naphthoic acid (DHNA) to demethylmenaquinone, a step in menaquinone biosynthesis.
Probab=31.75 E-value=2.3e+02 Score=26.85 Aligned_cols=58 Identities=10% Similarity=0.081 Sum_probs=34.6
Q ss_pred hHHHHHHHHHHHHHHHHhhcCCcccCCCChhhHHHHHHHHH-hhhhhhhhccccccchH
Q psy8730 113 RFTGMTVVAYLWSTVVSMAIPEEDIGGLPWKYLHFLLPIAC-ALGVWSVGNIGHETGTI 170 (287)
Q Consensus 113 RF~~q~~vg~~fG~l~~~Aip~~~~~g~~~~~~~~~iplav-alGV~~VgniG~q~~~l 170 (287)
|=+||+.++..||.+.-.+.---....+++..+...+|.+. ...+-++-|+-+...|.
T Consensus 135 ~gLGE~~v~i~~G~l~v~g~~yvq~~~~~~~~ll~sl~~g~l~~~il~~Nn~~D~~~D~ 193 (284)
T TIGR00751 135 AGLGDISVLVFFGPLAVLGTQYLQAHRVDWVGILPAVATGLLACAVLNINNLRDIPTDA 193 (284)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHcCcccchhHH
Confidence 45799999999998776553211123455555555565554 23566666665544443
No 32
>PF12676 DUF3796: Protein of unknown function (DUF3796); InterPro: IPR024257 This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 120 amino acids in length.
Probab=31.43 E-value=3.1e+02 Score=23.07 Aligned_cols=25 Identities=20% Similarity=0.424 Sum_probs=15.1
Q ss_pred HhhhcccceeecCCchhHHHHHHhh
Q psy8730 41 VGGIFGVHHFYLGRDIQGFLWWCTL 65 (287)
Q Consensus 41 flG~fG~HrFYLGr~~~gil~l~T~ 65 (287)
++|.+|..-|.-++......+++-+
T Consensus 12 flGflG~~~f~~~~~~~~~~fF~FF 36 (118)
T PF12676_consen 12 FLGFLGLWYFSTDNGSFLFYFFCFF 36 (118)
T ss_pred HHHHcchHHHhcCCccHHHHHHHHH
Confidence 5677777777666655553444444
No 33
>COG2142 SdhD Succinate dehydrogenase, hydrophobic anchor subunit [Energy production and conversion]
Probab=28.01 E-value=1.3e+02 Score=25.43 Aligned_cols=45 Identities=20% Similarity=0.359 Sum_probs=29.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHhh-hcceEecCCCCccchhHHHhhhhcchhhhhhh
Q psy8730 223 RRCLTIGACALLYSSLWGSYLY-FNAKITDGEGEEIPLNEAIHHFFKSPWWVDLL 276 (287)
Q Consensus 223 ~R~~~l~~a~l~y~~l~~~~~y-fN~~iT~~~g~ev~~~ea~~~f~~Sp~W~d~k 276 (287)
+=+-|.+...++++..|--++. ++. |+ -+++..++|++|||.-+-
T Consensus 17 ~l~qRvTav~Lv~l~~~~l~~~l~~~-----~~----~y~~~~~~~s~p~~~v~~ 62 (117)
T COG2142 17 WLLQRVTAVILVLLVIWHLYFLLTWL-----NA----TYAAWVAFLANPFWKVFL 62 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcC-----CC----CHHHHHHHHhCHHHHHHH
Confidence 3445666777777777766555 332 22 256667999999997553
No 34
>cd03495 SQR_TypeC_SdhD_like Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory Complex II SdhD subunit of the only eukaryotic member, Reclinomonas americana. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. It is also called succinate dehydrogenase or Complex II, and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. E. coli SQR is classified as Type C SQRs because it contains two transmembrane subunits and one heme group. The SdhD and SdhC subunits are membrane anchor subunits containing heme and quinone binding sites. The two-electron oxidation of succinate in the flavoprotein active site is
Probab=27.56 E-value=78 Score=25.47 Aligned_cols=41 Identities=17% Similarity=0.237 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHhhhcceEecCCCCccchhHHHhhhhcchhhhhh
Q psy8730 227 TIGACALLYSSLWGSYLYFNAKITDGEGEEIPLNEAIHHFFKSPWWVDL 275 (287)
Q Consensus 227 ~l~~a~l~y~~l~~~~~yfN~~iT~~~g~ev~~~ea~~~f~~Sp~W~d~ 275 (287)
|++..+++...+|--+.... ..+.| +|..+.+|++|+|.-+
T Consensus 7 RvTav~L~~l~~~~v~~~~~--~~~~~------y~~~~~~~~~p~~~i~ 47 (100)
T cd03495 7 RVTAVALVPLVLWFVFSVAL--LLGAS------YAEVVAWLAHPFNAIL 47 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHH--hCCCC------HHHHHHHHhChHHHHH
Confidence 56666777777764433222 22222 7899999999998643
No 35
>KOG2642|consensus
Probab=26.70 E-value=48 Score=33.63 Aligned_cols=32 Identities=25% Similarity=0.404 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHhhhcceEecCCCCccchhHHHhh
Q psy8730 231 CALLYSSLWGSYLYFNAKITDGEGEEIPLNEAIHH 265 (287)
Q Consensus 231 a~l~y~~l~~~~~yfN~~iT~~~g~ev~~~ea~~~ 265 (287)
-++.+..+.+.++..|+.|+..|... |+|.-|
T Consensus 228 Pyi~~~~lF~~fl~wn~sIvLGDkss---Hqa~lH 259 (446)
T KOG2642|consen 228 PYILLGFLFCAFLVWNGSIVLGDKSS---HQACLH 259 (446)
T ss_pred HHHHHHHHhheeeEecCeEEEccccc---cccccc
Confidence 34555566667788999999988654 666555
No 36
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=26.03 E-value=2.7e+02 Score=25.81 Aligned_cols=58 Identities=16% Similarity=0.044 Sum_probs=29.1
Q ss_pred hHHHHHHHHHHHHHHHHhhcCCcccCCCChhhHHHHHHHHHh-hhhhhhhccccccchH
Q psy8730 113 RFTGMTVVAYLWSTVVSMAIPEEDIGGLPWKYLHFLLPIACA-LGVWSVGNIGHETGTI 170 (287)
Q Consensus 113 RF~~q~~vg~~fG~l~~~Aip~~~~~g~~~~~~~~~iplava-lGV~~VgniG~q~~~l 170 (287)
|-.+++.+|..+|.+...+.--......++..+...+|.+.- .++.++-|+.+..+|-
T Consensus 139 ~glge~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~n~~~D~~~D~ 197 (293)
T PRK06080 139 TGLGELFVGVFFGLVIVLGTYYLQAGTVDSAVFLPALPCGLLIGAVLLANNIRDIETDR 197 (293)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhcCCCcchhHH
Confidence 446888888888876654321111122333334444444322 2344555666655554
No 37
>PF02632 BioY: BioY family; InterPro: IPR003784 BioMNY proteins are considered to constitute tripartite biotin transporters in prokaryotes. One-third of the widespread bioY genes are linked to bioMN. Many bioY genes are located at loci encoding biotin biosynthesis, while others are unlinked to biotin metabolic or transport genes. BioY is a high-capacity transporter that is converted to a high-affinity system in the presence of BioMN. BioMNY-mediated biotin uptake is severely impaired by the replacement of the Walker A lysine residue in BioM, demonstrating the dependency of high-affinity transport on a functional ATPase [].
Probab=25.03 E-value=4e+02 Score=22.99 Aligned_cols=56 Identities=21% Similarity=0.374 Sum_probs=41.2
Q ss_pred CCccHHHHHHHHHHhhhcccceeecCCchhHHHHHHh-hhhhhhHHHHHHHHHhhhhhHh
Q psy8730 28 AEKSLYITYLLWLVGGIFGVHHFYLGRDIQGFLWWCT-LGGYFGFGWLRDIFHIQNYVAD 86 (287)
Q Consensus 28 ~~Ks~~vAylLwlflG~fG~HrFYLGr~~~gil~l~T-~gGlfgIgwliD~f~I~~~V~~ 86 (287)
.+|.-..+.++++++|.+|+-=|-=|+- |+-+++. -+| +.+|+++-.+.+....++
T Consensus 23 g~~~g~~s~~~YlllG~~GlPVFagg~g--G~~~l~gPTgG-yl~gf~~~a~i~g~~~~~ 79 (148)
T PF02632_consen 23 GPRRGFLSVLLYLLLGAIGLPVFAGGSG--GLGYLLGPTGG-YLLGFPLAALIIGLLAER 79 (148)
T ss_pred ChHHHHHHHHHHHHHHHHCCchhcCCCC--chHHHhcCCCh-HHHHHHHHHHHHHHHHHh
Confidence 4566788999999999999999998874 4555552 236 578888877776655544
No 38
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=24.64 E-value=2.1e+02 Score=23.68 Aligned_cols=26 Identities=12% Similarity=0.259 Sum_probs=16.0
Q ss_pred cccCCCChhhHHHHHHHHHhhhhhhh
Q psy8730 135 EDIGGLPWKYLHFLLPIACALGVWSV 160 (287)
Q Consensus 135 ~~~~g~~~~~~~~~iplavalGV~~V 160 (287)
|..++-...|...++-++|++|.|-+
T Consensus 67 D~~~~t~~~~tl~~lllGv~~G~~n~ 92 (100)
T TIGR02230 67 DRHYPSPFSWTLTMLIVGVVIGCLNA 92 (100)
T ss_pred HhhcCCCcHHHHHHHHHHHHHHHHHH
Confidence 44444445666777777777776643
No 39
>CHL00196 psbY photosystem II protein Y; Provisional
Probab=24.29 E-value=58 Score=22.52 Aligned_cols=24 Identities=29% Similarity=0.523 Sum_probs=18.7
Q ss_pred ChhhHHHHHHHHHhhhhhhhhcccc
Q psy8730 141 PWKYLHFLLPIACALGVWSVGNIGH 165 (287)
Q Consensus 141 ~~~~~~~~iplavalGV~~VgniG~ 165 (287)
|+..+.++.|+..|.| |.+=|||+
T Consensus 2 D~RlliVl~Pil~A~~-Wa~fNIg~ 25 (36)
T CHL00196 2 DTRLLVIAAPVLAAAS-WALFNIGR 25 (36)
T ss_pred ChhHHHHHHHHHHHHH-HHHHHhHH
Confidence 4667788899987765 88888887
No 40
>TIGR03144 cytochr_II_ccsB cytochrome c-type biogenesis protein CcsB. Members of this protein family represent one of two essential proteins of system II for c-type cytochrome biogenesis. Additional proteins tend to be part of the system but can be replaced by chemical reductants such as dithiothreitol. This protein is designated CcsB in Bordetella pertussis and some other bacteria, resC in Bacillus (where there is additional N-terminal sequence), and CcsA in chloroplast. We use the CcsB designation here. Member sequences show regions of strong sequence conservation and variable-length, poorly conserved regions in between; sparsely filled columns were removed from the seed alignment prior to model construction.
Probab=23.65 E-value=5.7e+02 Score=23.38 Aligned_cols=23 Identities=22% Similarity=0.267 Sum_probs=12.0
Q ss_pred ccchhhHHHHHHHHHHHHHHHHH
Q psy8730 219 KRFLRRCLTIGACALLYSSLWGS 241 (287)
Q Consensus 219 ~~~~~R~~~l~~a~l~y~~l~~~ 241 (287)
+++..|...+|...+...-.-|+
T Consensus 148 d~l~~~~~~~Gf~~ltl~li~G~ 170 (243)
T TIGR03144 148 DNLSYRTIAIGFPLLTIGIISGA 170 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33555666666665544433333
No 41
>PRK00754 signal recognition particle protein Srp19; Provisional
Probab=23.52 E-value=26 Score=28.57 Aligned_cols=34 Identities=18% Similarity=0.330 Sum_probs=26.6
Q ss_pred HhhhcceEecCCCCccchhHHHhhhhcchhhhhhhhhh
Q psy8730 242 YLYFNAKITDGEGEEIPLNEAIHHFFKSPWWVDLLAVE 279 (287)
Q Consensus 242 ~~yfN~~iT~~~g~ev~~~ea~~~f~~Sp~W~d~k~~~ 279 (287)
=.|||.+.|-+||-.||-..|+.| |-=.|+.+++
T Consensus 11 P~Y~d~~~tr~eGRrv~k~~aV~~----P~~~EI~~a~ 44 (95)
T PRK00754 11 PAYIDSTRSRSEGRIISRKLAVKE----PRLEEIIEAA 44 (95)
T ss_pred eccccCCCChhhcCccCHHHhccC----CCHHHHHHHH
Confidence 369999999999999999988754 5555555544
No 42
>PRK15097 cytochrome d terminal oxidase subunit 1; Provisional
Probab=23.47 E-value=1.8e+02 Score=30.65 Aligned_cols=67 Identities=18% Similarity=0.242 Sum_probs=34.1
Q ss_pred CCCCchhhHHHHHHHHH--HHHHHHHhhcCCcccCCC-ChhhHH----HHHHHHH--hhhhhhhhccccccchHHH
Q psy8730 106 YPPFSTIRFTGMTVVAY--LWSTVVSMAIPEEDIGGL-PWKYLH----FLLPIAC--ALGVWSVGNIGHETGTIWW 172 (287)
Q Consensus 106 ~Pp~s~~RF~~q~~vg~--~fG~l~~~Aip~~~~~g~-~~~~~~----~~iplav--alGV~~VgniG~q~~~l~~ 172 (287)
.||....-..-.+|||. ++..++.+++=.....-. +..+++ +.+|+.. ...=|+|..+|||-=..+.
T Consensus 380 ~PpV~~vf~sFriMVg~G~l~~~l~~~~l~l~~r~~l~~~rw~L~~~~~~~plp~iA~~~GWi~tEvGRQPWiVyg 455 (522)
T PRK15097 380 IPRVAPLYFAFRIMVACGFLMLAIIALSFWSVIRNRIGEKKWLLRAALYGIPLPWIAVEAGWFVAEYGRQPWAIGE 455 (522)
T ss_pred CCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCccccCcHHHHHHHHHHHHHHHHHHhhhhheecCCCCeEEec
Confidence 47765666666666665 444444444422211111 123343 3334332 2235999999998654433
No 43
>TIGR02921 PEP_integral PEP-CTERM family integral membrane protein. Members of this protein family, found in three different species so far, have a PEP-CTERM sequence at the carboxyl-terminus (see model TIGR02595), but are unusual among PEP-CTERM proteins in having multiple predicted transmembrane segments. The function is unknown. It is proposed that a member of the EpsH family, to be designated exosortase (see TIGR02602), recognizes and cleaves PEP-CTERM proteins in a manner analogous to the cleavage of LPXTG proteins by sortase (see Haft, et al., 2006).
Probab=23.43 E-value=8.8e+02 Score=26.79 Aligned_cols=71 Identities=28% Similarity=0.302 Sum_probs=44.1
Q ss_pred HHHHHHHHHhccccccccccCCCCC---ccchhhHHHHHHHHHHHHHH------HHHHhhhcceEecCCCCccch-----
Q psy8730 194 TVMVLASALAFDTLSKRWQTKPKPR---KRFLRRCLTIGACALLYSSL------WGSYLYFNAKITDGEGEEIPL----- 259 (287)
Q Consensus 194 ~~~sl~sa~~~d~~sk~wr~~~~~~---~~~~~R~~~l~~a~l~y~~l------~~~~~yfN~~iT~~~g~ev~~----- 259 (287)
.+.+...++-.-.+.|.||-..... +-+-.-.-++.+-.++|.++ -+..+.-|.--.|+|||+|+-
T Consensus 218 ~lp~~lt~lyi~~~~k~~k~~~a~~g~~ka~a~aa~ii~~~a~~f~~l~qqpq~~~f~~la~~~~~~~~~~ti~sipre~ 297 (952)
T TIGR02921 218 ALPFALTALYIHEFAKELKAAAAEHGNAKAFAGAAAIIAAFALLFASLNQQPQQEAFELLAFADKNDQDGETIISIPREE 297 (952)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhhHHHHHHHHHHHHHHHhcchHHHHHHHHhcCCccCCCCCccccCchhh
Confidence 3344444444556788888744322 23334445555556666654 356677788889999999875
Q ss_pred hHHHh
Q psy8730 260 NEAIH 264 (287)
Q Consensus 260 ~ea~~ 264 (287)
|||++
T Consensus 298 ~~~ir 302 (952)
T TIGR02921 298 HDAIR 302 (952)
T ss_pred HHHHH
Confidence 77765
No 44
>PRK12489 anaerobic C4-dicarboxylate transporter; Reviewed
Probab=23.42 E-value=2.4e+02 Score=28.95 Aligned_cols=11 Identities=36% Similarity=0.812 Sum_probs=10.2
Q ss_pred HHHHHHHhhhh
Q psy8730 147 FLLPIACALGV 157 (287)
Q Consensus 147 ~~iplavalGV 157 (287)
+..|+|.++||
T Consensus 363 il~Pl~~~LGi 373 (443)
T PRK12489 363 AIVPVGLALGL 373 (443)
T ss_pred HHHHHHHHcCC
Confidence 78999999998
No 45
>PF10974 DUF2804: Protein of unknown function (DUF2804); InterPro: IPR021243 This is a family of proteins with unknown function.
Probab=23.17 E-value=30 Score=33.27 Aligned_cols=19 Identities=26% Similarity=0.562 Sum_probs=17.1
Q ss_pred hhcceEecCCCCccchhHH
Q psy8730 244 YFNAKITDGEGEEIPLNEA 262 (287)
Q Consensus 244 yfN~~iT~~~g~ev~~~ea 262 (287)
.|||+|.++||++|++++.
T Consensus 305 ~f~G~~~~~dG~~i~l~~~ 323 (333)
T PF10974_consen 305 RFSGTLRLDDGEKIELDDV 323 (333)
T ss_pred EEEEEEEcCCCCEEEECCe
Confidence 6999999999999999764
No 46
>PF06298 PsbY: Photosystem II protein Y (PsbY); InterPro: IPR009388 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbY found in PSII. In higher plants, two related PsbY proteins exist, PsbY-1 and PsbY-2, which appear to function as a heterodimer. In spinach and Arabidopsis, these two proteins arise from a single-copy nuclear gene that is processed in the chloroplast. By contrast, prokaryotic and organellar chromosomes encode a single PsbY protein, as found in cyanobacteria and red algae, indicating a duplication event in the evolution of higher plants []. PsbY has two low manganese-dependent activities: a catalase-like activity and an L-arginine metabolising activity that converts L-arginine into ornithine and urea []. In addition, a redox-active group is thought to be present in the protein. In cyanobacteria, PsbY deletion mutants have a slightly impaired PSII that is less capable of coping with low levels of calcium ions than the wild-type.; GO: 0030145 manganese ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0016021 integral to membrane
Probab=22.37 E-value=67 Score=22.19 Aligned_cols=24 Identities=50% Similarity=0.945 Sum_probs=18.7
Q ss_pred ChhhHHHHHHHHHhhhhhhhhcccc
Q psy8730 141 PWKYLHFLLPIACALGVWSVGNIGH 165 (287)
Q Consensus 141 ~~~~~~~~iplavalGV~~VgniG~ 165 (287)
|+..+.++.|+..|.| |.+=|||+
T Consensus 2 D~R~liVl~Pil~A~g-Wa~fNIg~ 25 (36)
T PF06298_consen 2 DWRLLIVLLPILPAAG-WALFNIGR 25 (36)
T ss_pred CchhHHHHHHHHHHHH-HHHHHhHH
Confidence 4667888889887755 88888887
No 47
>PF03613 EIID-AGA: PTS system mannose/fructose/sorbose family IID component; InterPro: IPR004704 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine,N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IID subunits of this family of PTS transporters.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane
Probab=22.25 E-value=4.2e+02 Score=25.21 Aligned_cols=143 Identities=17% Similarity=0.185 Sum_probs=85.0
Q ss_pred CCchhhHHHHHHHHHHHHHHHHhhcCC---cc-----------cCCC-ChhhHHHHHHHHHhhhhhhhhccccccchHHH
Q psy8730 108 PFSTIRFTGMTVVAYLWSTVVSMAIPE---ED-----------IGGL-PWKYLHFLLPIACALGVWSVGNIGHETGTIWW 172 (287)
Q Consensus 108 p~s~~RF~~q~~vg~~fG~l~~~Aip~---~~-----------~~g~-~~~~~~~~iplavalGV~~VgniG~q~~~l~~ 172 (287)
.|+++=+.+..++|...+..=--|-.+ +. .+|+ |+.|...+.|++.+.|+.+.-+ |+--|.+-+
T Consensus 60 fFNT~p~~~~~I~Gi~~amEe~~a~~~~~~~~I~~iKt~LMGPlAGIGDslf~~tl~pI~~~i~~~la~~-Gn~lGpil~ 138 (264)
T PF03613_consen 60 FFNTEPFLGPFILGIVLAMEEQKANGEIDDEAINSIKTALMGPLAGIGDSLFWGTLRPILASIAASLALQ-GNILGPILF 138 (264)
T ss_pred HHCCCChhhhHHHHHHHHHHHhccccCCChHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHHHHHc-CCccHHHHH
Confidence 466666788899999888776666555 11 2344 7778888999999999877633 554444444
Q ss_pred HHHHHhhhcceeeee-cCchhHHHHHHHHHHhccccccccccCCCCCccchhhHHHHHHHHHHHHHHHHHHhhhcceEec
Q psy8730 173 CLAAAYACYPVYWYV-DESTACTVMVLASALAFDTLSKRWQTKPKPRKRFLRRCLTIGACALLYSSLWGSYLYFNAKITD 251 (287)
Q Consensus 173 ~l~aA~~~~p~~y~~-de~~~~~~~sl~sa~~~d~~sk~wr~~~~~~~~~~~R~~~l~~a~l~y~~l~~~~~yfN~~iT~ 251 (287)
.++--.....++|+. ...|-. -+.++..+ - ...-++.....-.+|+. ..-++-++++-.|+.++-
T Consensus 139 ~~~~~~~~~~~r~~~~~~GY~~-G~~~i~~l-~----------~~~~~~i~~~asilGl~--vvGal~as~V~v~~~l~~ 204 (264)
T PF03613_consen 139 LLLYNIIHFFIRYFGFFLGYKL-GTSFITKL-Q----------SGLLQKITEAASILGLM--VVGALIASYVNVSTPLTI 204 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHH-H----------hhHHHHHHHHHHHHHHH--HHHHHHHHeEEEeeeEEE
Confidence 444334334455544 222222 22222222 1 00012344455555543 346778888999999887
Q ss_pred CC-CCccchhHHHhh
Q psy8730 252 GE-GEEIPLNEAIHH 265 (287)
Q Consensus 252 ~~-g~ev~~~ea~~~ 265 (287)
.. +++++++|-++.
T Consensus 205 ~~g~~~~~lQ~~lD~ 219 (264)
T PF03613_consen 205 TIGGVTISLQEILDG 219 (264)
T ss_pred ecCCceeeHHHhHHh
Confidence 77 567788886654
No 48
>COG1784 Predicted membrane protein [Function unknown]
Probab=21.68 E-value=2e+02 Score=29.27 Aligned_cols=52 Identities=23% Similarity=0.309 Sum_probs=38.0
Q ss_pred CCccHHHHHHHHHHhhhcccceeecC-CchhHHHHHHhhhhhhhHHHHHHHHHhh
Q psy8730 28 AEKSLYITYLLWLVGGIFGVHHFYLG-RDIQGFLWWCTLGGYFGFGWLRDIFHIQ 81 (287)
Q Consensus 28 ~~Ks~~vAylLwlflG~fG~HrFYLG-r~~~gil~l~T~gGlfgIgwliD~f~I~ 81 (287)
.+++++.|.++.++-|.+|.--|+.- .....+.=++| |+||+..++..++-+
T Consensus 148 ~~r~~l~allvf~~SG~lG~v~f~~~lpv~~~l~pLft--GlFg~p~li~~~~~~ 200 (395)
T COG1784 148 GERNKLWALLVFLLSGALGFVTFQGSLPVGSPLLPLFT--GLFGLPLLIEALSNP 200 (395)
T ss_pred hhhhhHHHHHHHHHhCcceeEEEeccCCccchHHHHHH--HhhccHHHHHHhcCC
Confidence 44677888888888899999999955 22333444444 789999998887765
No 49
>PRK02251 putative septation inhibitor protein; Reviewed
Probab=21.52 E-value=1.3e+02 Score=24.35 Aligned_cols=27 Identities=15% Similarity=0.458 Sum_probs=16.7
Q ss_pred CCCCCchhhHHHHHHHHHHHHHHHHhh
Q psy8730 105 KYPPFSTIRFTGMTVVAYLWSTVVSMA 131 (287)
Q Consensus 105 ~~Pp~s~~RF~~q~~vg~~fG~l~~~A 131 (287)
+.|+.-..=+++-+++|..|=.+.-++
T Consensus 29 ~sP~W~~~~m~~lm~~Gl~WlvvyYl~ 55 (87)
T PRK02251 29 SNPRWFVPLFVALMIIGLIWLVVYYLS 55 (87)
T ss_pred CCCchHHHHHHHHHHHHHHHHHHHhhh
Confidence 345444445667777777776666664
No 50
>PF05231 MASE1: MASE1; InterPro: IPR007895 This is a domain of unknown function found in proteins of unknown function.
Probab=21.48 E-value=5.4e+02 Score=23.33 Aligned_cols=71 Identities=13% Similarity=0.006 Sum_probs=37.1
Q ss_pred hhHHHHHHHHHhhhhhhhhccccccchHHHHHHHHhhhc---ceeeee--cCchhHHHHHHHHHHhccccccccccCCCC
Q psy8730 143 KYLHFLLPIACALGVWSVGNIGHETGTIWWCLAAAYACY---PVYWYV--DESTACTVMVLASALAFDTLSKRWQTKPKP 217 (287)
Q Consensus 143 ~~~~~~iplavalGV~~VgniG~q~~~l~~~l~aA~~~~---p~~y~~--de~~~~~~~sl~sa~~~d~~sk~wr~~~~~ 217 (287)
.-..| .|-|++++..+.. | .+.+-..++++++.. ...... ..+..+.....+.+....-.-|++..++.+
T Consensus 28 ~~~~W-pp~Gl~la~ll~~--g--~r~~p~i~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~llr~~~~~~~~ 102 (299)
T PF05231_consen 28 VAPVW-PPAGLALAALLLF--G--RRYWPAIFLGSFLANLAVNLLSGLPLLLALLFALANTLEAALAAWLLRRFWPRPSP 102 (299)
T ss_pred hhHhH-HHHHHHHHHHHHc--C--cccchHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHhccCccc
Confidence 34567 8999999876655 2 244666666666654 112222 333444444444444443334444444443
Q ss_pred C
Q psy8730 218 R 218 (287)
Q Consensus 218 ~ 218 (287)
.
T Consensus 103 ~ 103 (299)
T PF05231_consen 103 L 103 (299)
T ss_pred c
Confidence 3
No 51
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=20.73 E-value=30 Score=28.97 Aligned_cols=14 Identities=36% Similarity=0.380 Sum_probs=12.2
Q ss_pred hcchhhhhhhhhhc
Q psy8730 267 FKSPWWVDLLAVEL 280 (287)
Q Consensus 267 ~~Sp~W~d~k~~~~ 280 (287)
=+||||.+++++||
T Consensus 90 ~~~~~~~~l~EVFh 103 (105)
T COG3254 90 DNSPVWAPLEEVFH 103 (105)
T ss_pred CCCcccccchheec
Confidence 35899999999997
Done!