Query 022355
Match_columns 298
No_of_seqs 91 out of 93
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 02:54:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022355.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022355hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06799 DUF1230: Protein of u 100.0 1.2E-67 2.7E-72 450.9 12.2 132 67-199 1-144 (144)
2 TIGR02745 ccoG_rdxA_fixG cytoc 57.3 38 0.00082 34.3 7.2 88 132-223 57-152 (434)
3 PF00807 Apidaecin: Apidaecin; 47.1 6.8 0.00015 26.2 0.1 15 263-277 3-17 (28)
4 PF04277 OAD_gamma: Oxaloaceta 44.8 52 0.0011 24.8 4.7 24 191-214 4-27 (79)
5 PF02009 Rifin_STEVOR: Rifin/s 44.6 25 0.00054 34.2 3.5 47 122-168 247-293 (299)
6 PF02628 COX15-CtaA: Cytochrom 43.9 2.7E+02 0.0058 26.0 10.1 76 76-161 49-125 (302)
7 KOG2077 JNK/SAPK-associated pr 37.1 35 0.00075 36.9 3.5 48 219-266 448-509 (832)
8 PF03419 Peptidase_U4: Sporula 35.8 66 0.0014 30.0 4.8 77 93-177 79-167 (293)
9 PF12794 MscS_TM: Mechanosensi 34.1 3.4E+02 0.0075 26.2 9.5 25 87-111 114-138 (340)
10 PF01569 PAP2: PAP2 superfamil 31.9 50 0.0011 25.5 2.9 26 135-160 81-106 (129)
11 PF14800 DUF4481: Domain of un 30.3 1.8E+02 0.0039 28.9 6.9 112 60-176 19-152 (308)
12 PF11992 DUF3488: Domain of un 29.9 97 0.0021 29.5 4.9 89 186-287 150-238 (325)
13 TIGR00936 ahcY adenosylhomocys 28.0 45 0.00099 33.5 2.5 26 257-284 68-98 (406)
14 cd01610 PAP2_like PAP2_like pr 26.9 77 0.0017 23.7 3.1 28 134-161 81-108 (122)
15 PF10163 EnY2: Transcription f 26.4 19 0.00042 28.4 -0.3 8 169-176 28-35 (86)
16 PF11174 DUF2970: Protein of u 24.8 91 0.002 23.5 3.0 23 125-147 27-49 (56)
17 PRK11017 codB cytosine permeas 21.9 1.7E+02 0.0037 28.5 5.1 7 68-74 3-9 (404)
18 PF12129 Phtf-FEM1B_bdg: Male 21.7 11 0.00025 33.9 -2.7 13 172-184 15-27 (159)
19 cd03392 PAP2_like_2 PAP2_like_ 21.7 1.1E+02 0.0024 26.0 3.4 26 136-161 137-162 (182)
20 cd03395 PAP2_like_4 PAP2_like_ 21.6 1.1E+02 0.0023 26.2 3.3 23 139-161 135-157 (177)
21 TIGR03647 Na_symport_sm probab 20.7 2.8E+02 0.0062 22.1 5.2 60 97-161 8-69 (77)
22 PF14231 GXWXG: GXWXG protein 20.7 26 0.00057 26.7 -0.5 20 169-189 35-54 (60)
23 KOG0667 Dual-specificity tyros 20.1 41 0.0009 35.7 0.6 25 271-295 343-370 (586)
24 PF05221 AdoHcyase: S-adenosyl 20.0 60 0.0013 31.4 1.5 26 257-284 79-109 (268)
No 1
>PF06799 DUF1230: Protein of unknown function (DUF1230); InterPro: IPR009631 This family represents Ycf36, which is found in plants, encoded in the genomes of algal chloroplasts and in cyanobacteria. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=100.00 E-value=1.2e-67 Score=450.90 Aligned_cols=132 Identities=55% Similarity=1.046 Sum_probs=129.3
Q ss_pred CCCCCCCCchhHHHhhhcCCCccccCCCchhHHHHHHHHHHHHHHHhhhhcccceeCCCCchHHHHHHHHHHHHHHHHHH
Q 022355 67 IEVPSEQRPVNEYSSLKDGVLYSWGELGQGPFILRLGGLWLVAFMVLGVPTAAASFDPSREPLRFVLAAGTGTLFLVSLI 146 (298)
Q Consensus 67 CPVP~EQrPvNEY~eLk~SwfFsW~tl~~~~y~~rL~~~w~~~~~iv~~PIAa~Sf~p~~~pl~fiL~a~~ga~~l~~Lv 146 (298)
||||.||||+|||+|||+|||||||+++..+|.+||+++|++++++ ++|||++||+|+++|+||+++|++||+++++|+
T Consensus 1 CPVP~eQqP~nEy~~L~~S~~FsW~~~~~~~y~~~l~~~w~~~~~~-~~pia~~S~~~~~~~~~~~l~~~~ga~~~~~l~ 79 (144)
T PF06799_consen 1 CPVPPEQQPLNEYQELKESWFFSWPTLELKSYLKRLLWIWLISFLV-FGPIAAGSFPPEKDPLEFILSGAVGALLLLLLV 79 (144)
T ss_pred CccCccccCHHHHHHHhhCcCccCccCChHHHHHHHHHHHHHHHHH-HHhhheeecCccccHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999995 779999999999999999999999999999999
Q ss_pred HHHHHhChHHHHhhhccCcccccccCccCCccccCCCC------------chHHHHHHHHHHHHH
Q 022355 147 VLRIYLGWSYVGDRLLSAVIPYEESGWYDGQMWVKPPE------------VKPVIKMLKQTLVGT 199 (298)
Q Consensus 147 lLRLYLGWsYV~dRLlSatVeYEESGWYDGQvWvKP~E------------VkPIL~RLk~Tl~~l 199 (298)
++||||||+||+|||+|+|||||||||||||+|+||+| |||||+|||+|+.++
T Consensus 80 llRlyLGW~YV~~RL~s~tV~YEESGWYDGQ~W~Kp~e~l~rDrLi~~yqVkPiL~RL~~tl~~l 144 (144)
T PF06799_consen 80 LLRLYLGWSYVGDRLLSATVEYEESGWYDGQVWVKPPEVLARDRLIGSYQVKPILSRLKQTLSIL 144 (144)
T ss_pred HHHHHhChHHHHhhhccCcccccccCccCCccccCCHHHHHHHHHHhhhhhhHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999 999999999999763
No 2
>TIGR02745 ccoG_rdxA_fixG cytochrome c oxidase accessory protein FixG. Member of this ferredoxin-like protein family are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else, and is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum.
Probab=57.26 E-value=38 Score=34.33 Aligned_cols=88 Identities=19% Similarity=0.215 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhChHHHHhh--hccCcccccccCccCCc------cccCCCCchHHHHHHHHHHHHHHHHH
Q 022355 132 VLAAGTGTLFLVSLIVLRIYLGWSYVGDR--LLSAVIPYEESGWYDGQ------MWVKPPEVKPVIKMLKQTLVGTGALL 203 (298)
Q Consensus 132 iL~a~~ga~~l~~LvlLRLYLGWsYV~dR--LlSatVeYEESGWYDGQ------vWvKP~EVkPIL~RLk~Tl~~la~ll 203 (298)
.+...+.++++++.++.|.|-||.==..= -+..-|+ -|=+|. .-.+|....++++++-+.++.+.+.+
T Consensus 57 ~li~~~~~l~~~t~~~grvwCGw~CPqtv~t~~~~~ie----~k~~g~r~~~~kl~~~~~~~~k~~k~~~k~~~~l~is~ 132 (434)
T TIGR02745 57 LLIIAALGLFFITTLAGRVWCGYACPQTVWTDLFDWIE----RKIEGDRNKRMKLDKAPWTFDKVWKKTLKHLLWLVISL 132 (434)
T ss_pred HHHHHHHHHHHHHHHHHHeeecCcCCchHHHHHHHHHH----HHhcCchhhhhhhcccccchhHHHHHHHHHHHHHHHHH
Confidence 55557777888888899999999521110 0011111 111221 00112235677777777777788888
Q ss_pred HHHHHHHhhcCCcchhhhcc
Q 022355 204 VTATLLFIFATPVEQFFQST 223 (298)
Q Consensus 204 ~~~~llw~~~~p~~~~~~~~ 223 (298)
++|...+.+++|..++....
T Consensus 133 ~~g~~~~~yf~~~~~l~~~l 152 (434)
T TIGR02745 133 VTGGTFIFYFVPAPDLFAYL 152 (434)
T ss_pred HHHHHHHhhcCCHHHHHHHH
Confidence 88888889999998877444
No 3
>PF00807 Apidaecin: Apidaecin; InterPro: IPR004828 These antibacterial peptides are found in bees. These heat-stable, non-helical peptides are active against a wide range of plant-associated bacteria and some human pathogens []. This family contains a conserved region including the propeptide and apidaecin sequence.; PDB: 4E81_C.
Probab=47.14 E-value=6.8 Score=26.18 Aligned_cols=15 Identities=47% Similarity=0.767 Sum_probs=1.5
Q ss_pred HHHHHHHcCCCceec
Q 022355 263 AAAAAEAADGRPVYC 277 (298)
Q Consensus 263 Aaa~a~aa~grP~yc 277 (298)
|.-+||.+|+||||-
T Consensus 3 ~~peaep~nnrpvyi 17 (28)
T PF00807_consen 3 AEPEAEPGNNRPVYI 17 (28)
T ss_dssp -------------EE
T ss_pred cccccCCCCCCceec
Confidence 445789999999995
No 4
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=44.84 E-value=52 Score=24.77 Aligned_cols=24 Identities=21% Similarity=0.467 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC
Q 022355 191 MLKQTLVGTGALLVTATLLFIFAT 214 (298)
Q Consensus 191 RLk~Tl~~la~ll~~~~llw~~~~ 214 (298)
=+.-++.|.++.+++-++|+.++.
T Consensus 4 gl~i~i~Gm~iVF~~L~lL~~~i~ 27 (79)
T PF04277_consen 4 GLQIMIIGMGIVFLVLILLILVIS 27 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666665555555544443
No 5
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=44.57 E-value=25 Score=34.16 Aligned_cols=47 Identities=19% Similarity=0.369 Sum_probs=37.8
Q ss_pred eCCCCchHHHHHHHHHHHHHHHHHHHHHHHhChHHHHhhhccCcccc
Q 022355 122 FDPSREPLRFVLAAGTGTLFLVSLIVLRIYLGWSYVGDRLLSAVIPY 168 (298)
Q Consensus 122 f~p~~~pl~fiL~a~~ga~~l~~LvlLRLYLGWsYV~dRLlSatVeY 168 (298)
+.+....+...+.+.+.++++++|+.+=+||=|+|=|+|=++....|
T Consensus 247 i~~~~~~~~t~I~aSiiaIliIVLIMvIIYLILRYRRKKKmkKKlQY 293 (299)
T PF02009_consen 247 INSTYASLTTAIIASIIAILIIVLIMVIIYLILRYRRKKKMKKKLQY 293 (299)
T ss_pred ccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 33444456777888888999999999999999999998877777666
No 6
>PF02628 COX15-CtaA: Cytochrome oxidase assembly protein; InterPro: IPR003780 This entry represents 2 activities required for heme biosynthesis: Protoheme IX farnesyltransferase converts heme B (protoheme IX) to heme O by substitution of the vinyl group on carbon 2 of heme B porphyrin ring with a hydroxyethyl farnesyl side group. Heme A synthase catalyzes the oxidation of the C8 methyl side group on heme O porphyrin ring into a formyl group. The entry contains CtaA, which is required for cytochrome aa3 biosynthesis and sporulation in Bacillus subtilis [] and in Saccharomyces cerevisiae (Baker's yeast) the COX15 protein is required for cytochrome c oxidase assembly.; GO: 0016627 oxidoreductase activity, acting on the CH-CH group of donors, 0006461 protein complex assembly, 0055114 oxidation-reduction process, 0016020 membrane
Probab=43.86 E-value=2.7e+02 Score=25.96 Aligned_cols=76 Identities=17% Similarity=0.088 Sum_probs=46.8
Q ss_pred hhHHHhhhcCCCccccCCCchhHHHHHHHHHHHHHHHhhhhccc-ceeCCCCchHHHHHHHHHHHHHHHHHHHHHHHhCh
Q 022355 76 VNEYSSLKDGVLYSWGELGQGPFILRLGGLWLVAFMVLGVPTAA-ASFDPSREPLRFVLAAGTGTLFLVSLIVLRIYLGW 154 (298)
Q Consensus 76 vNEY~eLk~SwfFsW~tl~~~~y~~rL~~~w~~~~~iv~~PIAa-~Sf~p~~~pl~fiL~a~~ga~~l~~LvlLRLYLGW 154 (298)
-+|++.-|+..+|.+ ....+|.-|+...-+....+ ..-+.+ -...-++.+. ..+.+++.++++.-.+||
T Consensus 49 ~~~~~~y~~~~~~~~--~~~~E~~HR~~~~~~gl~~l-~~~~~~~~~~~~~~~~~-------~~~~~~~~l~~~Q~~lG~ 118 (302)
T PF02628_consen 49 AAEFEKYKQTPFFKF--HTWIEWGHRLLAGLVGLLIL-ALAVWAWRKRRIRRRLR-------WLALLALVLVILQGLLGA 118 (302)
T ss_pred HHHHHhCcCCccchh--hhhHHHHHHHHHHHHHHHHH-HHHHHHHHhcccCcchH-------HHHHHHHHHHHHHHHHHH
Confidence 378888888888777 45678999997754444432 222222 2222232221 234455667778888898
Q ss_pred HHHHhhh
Q 022355 155 SYVGDRL 161 (298)
Q Consensus 155 sYV~dRL 161 (298)
.=|...|
T Consensus 119 ~~V~~~l 125 (302)
T PF02628_consen 119 WTVLSGL 125 (302)
T ss_pred HHHHhcc
Confidence 8888877
No 7
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=37.13 E-value=35 Score=36.91 Aligned_cols=48 Identities=25% Similarity=0.472 Sum_probs=34.1
Q ss_pred hhhccccCCCCCCccCCcccccccc--------cchHhhhcC------CccccCchHHHHHH
Q 022355 219 FFQSTMTTKENPAIVPASKTKKNFN--------IRKEELLQL------PAEVMSDDDLAAAA 266 (298)
Q Consensus 219 ~~~~~~~~~~~~~~~~~~~~~~~~~--------~r~~~ll~l------~~~~~~DDd~Aaa~ 266 (298)
||.+.|+...++...|.+..+.+|+ .|..++.++ |.+...|||+--++
T Consensus 448 FFSrLfssSs~p~~~P~psvn~~y~ap~t~g~~~Rs~~~~~p~~~~s~~~~f~~~~d~~s~~ 509 (832)
T KOG2077|consen 448 FFSRLFSSSSNPTKKPEPSVNLKYNAPVTPGVKKRSSTLSQPPGDKSKAFDFLSEEDASSAS 509 (832)
T ss_pred HHHHHhcCCCCCCCCCCCCcccccCCCCCccccccccccccCCccccccccccChhhhhhHH
Confidence 4557777777777777777776664 588889988 45677788775444
No 8
>PF03419 Peptidase_U4: Sporulation factor SpoIIGA This family belongs to family U4 of the peptidase classification.; InterPro: IPR005081 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This group of peptidases belong to the MEROPS peptidase family U4 (SpoIIGA peptidase family, clan U-). Sporulation in bacteria such as Bacillus subtilis involves the formation of a polar septum, which divides the sporangium into a mother cell and a forespore. The sigma E factor, which is encoded within the spoIIG operon, is a cell-specific regulatory protein that directs gene transcription in the mother cell. Sigma E is synthesised as an inactive proprotein pro-sigma E, which is converted to the mature factor by the putative processing enzyme SpoIIGA []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis, 0030436 asexual sporulation
Probab=35.84 E-value=66 Score=30.04 Aligned_cols=77 Identities=21% Similarity=0.173 Sum_probs=43.2
Q ss_pred CCchhHHHHHHHHHHHHHHHhhhhcccceeCCCCch------------HHHHHHHHHHHHHHHHHHHHHHHhChHHHHhh
Q 022355 93 LGQGPFILRLGGLWLVAFMVLGVPTAAASFDPSREP------------LRFVLAAGTGTLFLVSLIVLRIYLGWSYVGDR 160 (298)
Q Consensus 93 l~~~~y~~rL~~~w~~~~~iv~~PIAa~Sf~p~~~p------------l~fiL~a~~ga~~l~~LvlLRLYLGWsYV~dR 160 (298)
...+.|.+.+++.++.+|++ ++-+-+..+...... ..+++.+++++. +=++.+|.|+.+|
T Consensus 79 ~~~~~~~k~~~~fy~~sf~~-gG~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~~~~~~i~~~ 150 (293)
T PF03419_consen 79 KRWRQFIKALLIFYLVSFLL-GGIMFALYYFLRSGGFIQNGIFYFNISWLFLLIGFIIAY-------LLLKRLWKYIKRR 150 (293)
T ss_pred CcHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHcCcchhccceeeccchHHHHHHHHHHHH-------HHHHHHHHHHHHH
Confidence 45667888888888888884 555443322211111 122222222221 1125689999998
Q ss_pred hccCcccccccCccCCc
Q 022355 161 LLSAVIPYEESGWYDGQ 177 (298)
Q Consensus 161 LlSatVeYEESGWYDGQ 177 (298)
-......|+=+=.++|+
T Consensus 151 ~~~~~~~~~v~i~~~~~ 167 (293)
T PF03419_consen 151 RIKKDYLYPVTIEIGGK 167 (293)
T ss_pred HhcCcEEEEEEEEECCE
Confidence 87777666655444543
No 9
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=34.08 E-value=3.4e+02 Score=26.23 Aligned_cols=25 Identities=16% Similarity=0.129 Sum_probs=16.6
Q ss_pred CccccCCCchhHHHHHHHHHHHHHH
Q 022355 87 LYSWGELGQGPFILRLGGLWLVAFM 111 (298)
Q Consensus 87 fFsW~tl~~~~y~~rL~~~w~~~~~ 111 (298)
-|.|+......+.+.+.++.....+
T Consensus 114 HF~w~~~~~~~~r~~l~~~~~~~~p 138 (340)
T PF12794_consen 114 HFGWPKERVQRLRRQLRWLIWVLVP 138 (340)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3899988877777766655444444
No 10
>PF01569 PAP2: PAP2 superfamily This family includes the following Prosite family; InterPro: IPR000326 This entry represents type 2 phosphatidic acid phosphatase (PAP2; 3.1.3.4 from EC) enzymes, such as phosphatidylglycerophosphatase B 3.1.3.27 from EC from Escherichia coli. PAP2 enzymes have a core structure consisting of a 5-helical bundle, where the beginning of the third helix binds the cofactor []. PAP2 enzymes catalyse the dephosphorylation of phosphatidate, yielding diacylglycerol and inorganic phosphate []. In eukaryotic cells, PAP activity has a central role in the synthesis of phospholipids and triacylglycerol through its product diacylglycerol, and it also generates and/or degrades lipid-signalling molecules that are related to phosphatidate. Other related enzymes have a similar core structure, including haloperoxidases such as bromoperoxidase (contains one core bundle, but forms a dimer), chloroperoxidases (contains two core bundles arranged as in other family dimers), bacitracin transport permease from Bacillus licheniformis, glucose-6-phosphatase from rat. The vanadium-dependent haloperoxidases exclusively catalyse the oxidation of halides, and act as histidine phosphatases, using histidine for the nucleophilic attack in the first step of the reaction []. Amino acid residues involved in binding phosphate/vanadate are conserved between the two families, supporting a proposal that vanadium passes through a tetrahedral intermediate during the reaction mechanism.; GO: 0003824 catalytic activity, 0016020 membrane; PDB: 1QI9_B 1IW8_A 1EOI_A 1D2T_A 1QHB_D 1UP8_C 2IPB_A 1VNS_A 1VNF_A 1VNE_A ....
Probab=31.87 E-value=50 Score=25.48 Aligned_cols=26 Identities=19% Similarity=0.308 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHhChHHHHhh
Q 022355 135 AGTGTLFLVSLIVLRIYLGWSYVGDR 160 (298)
Q Consensus 135 a~~ga~~l~~LvlLRLYLGWsYV~dR 160 (298)
......+.....+.|+|+|+.|+.|=
T Consensus 81 ~~~~~~~~~~v~~srv~~g~H~~~Dv 106 (129)
T PF01569_consen 81 FLLAIVLAFLVALSRVYLGAHFFSDV 106 (129)
T ss_dssp HHHHHHHHHHHHHHHHHTTSS-HHHH
T ss_pred hHHHHHHHHHhhcCEEEcCeEehHHH
Confidence 34445556667789999999999874
No 11
>PF14800 DUF4481: Domain of unknown function (DUF4481)
Probab=30.29 E-value=1.8e+02 Score=28.93 Aligned_cols=112 Identities=21% Similarity=0.262 Sum_probs=62.3
Q ss_pred CCCCCCcCCCCCC------CCchhHHHhhhcCCCcc----ccCCCchhHHHHHHHHHHHHHHHhhhhcccce-eCCCCch
Q 022355 60 SWEPGLEIEVPSE------QRPVNEYSSLKDGVLYS----WGELGQGPFILRLGGLWLVAFMVLGVPTAAAS-FDPSREP 128 (298)
Q Consensus 60 ~~~p~~eCPVP~E------QrPvNEY~eLk~SwfFs----W~tl~~~~y~~rL~~~w~~~~~iv~~PIAa~S-f~p~~~p 128 (298)
+.||++ ||.| |-|+.||..+-++-.-- +=+.- .+-.+|++..|++...+.+.-.+..+ |.....-
T Consensus 19 ~F~~e~---~~E~L~a~Glqlp~e~y~~~~E~al~~p~VRRy~~y-Ns~~fr~~~a~I~yivlw~~l~Stl~l~slg~~w 94 (308)
T PF14800_consen 19 SFDPEL---CPEELMAQGLQLPVEDYVHLMESALLDPQVRRYTLY-NSRYFRLLVAVIFYIVLWANLYSTLQLFSLGSHW 94 (308)
T ss_pred ccChhh---CHHHHHhhCccccHHHHHHHHHHhccchhheeeeee-cchHHHHHHHHHHHHHHHHHHHccchhhhcccHH
Confidence 555554 5554 88999999998874422 11111 13455677778877666566555432 3333333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-----------hChHHHHhhhccCcccccccCccCC
Q 022355 129 LRFVLAAGTGTLFLVSLIVLRIY-----------LGWSYVGDRLLSAVIPYEESGWYDG 176 (298)
Q Consensus 129 l~fiL~a~~ga~~l~~LvlLRLY-----------LGWsYV~dRLlSatVeYEESGWYDG 176 (298)
. ..|.-.++|+++.+.+.+.+- +-=.-|.++|+.-.|--==+.|=+|
T Consensus 95 v-~~Llv~l~ai~lt~~l~lv~~~~~rKlN~n~D~rLa~vN~~L~rHkiLLGv~D~v~~ 152 (308)
T PF14800_consen 95 V-GWLLVNLAAIFLTMALILVFMRHQRKLNMNTDVRLAAVNEALLRHKILLGVTDRVEG 152 (308)
T ss_pred H-HHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhhhheEEEecccccc
Confidence 3 333334445555555544322 1124577788877776666666655
No 12
>PF11992 DUF3488: Domain of unknown function (DUF3488); InterPro: IPR021878 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is typically between 323 to 339 amino acids in length. This domain is found associated with PF01841 from PFAM. This domain has a conserved PLW sequence motif. This domain contains 6 transmembrane helices.
Probab=29.91 E-value=97 Score=29.53 Aligned_cols=89 Identities=18% Similarity=0.254 Sum_probs=51.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcchhhhccccCCCCCCccCCcccccccccchHhhhcCCccccCchHHHHH
Q 022355 186 KPVIKMLKQTLVGTGALLVTATLLFIFATPVEQFFQSTMTTKENPAIVPASKTKKNFNIRKEELLQLPAEVMSDDDLAAA 265 (298)
Q Consensus 186 kPIL~RLk~Tl~~la~ll~~~~llw~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~ll~l~~~~~~DDd~Aaa 265 (298)
++..+.+|..+..++..+-.++++|.++.=..+.- ++ +... ....+|-.-+++--|+.+| .+||++|=-
T Consensus 150 ~~~~~~~~~~~~l~l~alpl~~vlFl~fPR~~plw-~~---~~~~---~~a~TG~Sd~m~pG~i~~L----~~s~~~afR 218 (325)
T PF11992_consen 150 RSLRQLLRRALKLLLQALPLALVLFLLFPRLGPLW-SM---PQSS---QQATTGFSDSMSPGDISEL----AQSDEVAFR 218 (325)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhc-CC---CCCC---CCCCCCCCCCcCCccchhh----hcCCceEEE
Confidence 45567777777777666777777777776554433 22 1111 1122344445666677754 778877643
Q ss_pred HHHHcCCCceeccchhHhhhcC
Q 022355 266 AAEAADGRPVYCRDRYYRALAG 287 (298)
Q Consensus 266 ~a~aa~grP~yc~dryyra~Ag 287 (298)
+ +-.+..| -=+++|.|++.=
T Consensus 219 v-~f~~~~P-~~~~lYWRg~Vl 238 (325)
T PF11992_consen 219 V-EFDGAPP-PPSELYWRGLVL 238 (325)
T ss_pred E-EeCCCCC-CcCCceEEEEee
Confidence 3 2223345 567899998753
No 13
>TIGR00936 ahcY adenosylhomocysteinase. This enzyme hydrolyzes adenosylhomocysteine as part of a cycle for the regeneration of the methyl donor S-adenosylmethionine. Species that lack this enzyme are likely to have adenosylhomocysteine nucleosidase (EC 3.2.2.9), an enzyme which also acts as 5'-methyladenosine nucleosidase (see TIGR01704).
Probab=28.03 E-value=45 Score=33.48 Aligned_cols=26 Identities=46% Similarity=0.783 Sum_probs=20.9
Q ss_pred cCchHHHHHHHHHcCCCcee-----ccchhHhh
Q 022355 257 MSDDDLAAAAAEAADGRPVY-----CRDRYYRA 284 (298)
Q Consensus 257 ~~DDd~Aaa~a~aa~grP~y-----c~dryyra 284 (298)
.++||+||+-++ .|.||| ..+.||..
T Consensus 68 stqd~vaaaL~~--~gi~v~a~~~~~~~ey~~~ 98 (406)
T TIGR00936 68 STQDDVAAALAK--AGIPVFAWRGETNEEYYWA 98 (406)
T ss_pred cccHHHHHHHHh--CCceEEEecCCCHHHHHHH
Confidence 689999998874 699999 56677664
No 14
>cd01610 PAP2_like PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid phosphatase, vanadium chloroperoxidases, vanadium bromoperoxidases, and several other mostly uncharacterized subfamilies. Several members of this superfamily have been predicted to be transmembrane proteins.
Probab=26.90 E-value=77 Score=23.65 Aligned_cols=28 Identities=29% Similarity=0.310 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHhChHHHHhhh
Q 022355 134 AAGTGTLFLVSLIVLRIYLGWSYVGDRL 161 (298)
Q Consensus 134 ~a~~ga~~l~~LvlLRLYLGWsYV~dRL 161 (298)
...+...+......-|+|+|+.|..|=.
T Consensus 81 ~~~~~~~~~~~~~~sri~~g~H~~~Dv~ 108 (122)
T cd01610 81 LGLLLLLLALLVGLSRVYLGVHYPSDVL 108 (122)
T ss_pred HHHHHHHHHHHHHHHHHHhcccCHHHHH
Confidence 3455666667777899999999998743
No 15
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=26.35 E-value=19 Score=28.38 Aligned_cols=8 Identities=50% Similarity=0.995 Sum_probs=6.3
Q ss_pred cccCccCC
Q 022355 169 EESGWYDG 176 (298)
Q Consensus 169 EESGWYDG 176 (298)
.|+||+|.
T Consensus 28 ~e~GW~d~ 35 (86)
T PF10163_consen 28 IECGWRDE 35 (86)
T ss_dssp HHTTHHHH
T ss_pred HHCChHHH
Confidence 48999984
No 16
>PF11174 DUF2970: Protein of unknown function (DUF2970); InterPro: IPR021344 This short family is conserved in Proteobacteria. The function is not known.
Probab=24.83 E-value=91 Score=23.49 Aligned_cols=23 Identities=17% Similarity=0.336 Sum_probs=17.8
Q ss_pred CCchHHHHHHHHHHHHHHHHHHH
Q 022355 125 SREPLRFVLAAGTGTLFLVSLIV 147 (298)
Q Consensus 125 ~~~pl~fiL~a~~ga~~l~~Lvl 147 (298)
+.+|+++++.|.+.+.+++..++
T Consensus 27 ~~~p~~~Ii~gii~~~~fV~~Lv 49 (56)
T PF11174_consen 27 QGSPVHFIIVGIILAALFVAGLV 49 (56)
T ss_pred cCCCchHHHHHHHHHHHHHHHHH
Confidence 45799999999888877666543
No 17
>PRK11017 codB cytosine permease; Provisional
Probab=21.91 E-value=1.7e+02 Score=28.49 Aligned_cols=7 Identities=43% Similarity=0.733 Sum_probs=5.9
Q ss_pred CCCCCCC
Q 022355 68 EVPSEQR 74 (298)
Q Consensus 68 PVP~EQr 74 (298)
|||.|+|
T Consensus 3 pvp~~~r 9 (404)
T PRK11017 3 PVPQSAR 9 (404)
T ss_pred CCCHHHh
Confidence 6888888
No 18
>PF12129 Phtf-FEM1B_bdg: Male germ-cell putative homeodomain transcription factor; InterPro: IPR021980 This domain is found in bacteria and eukaryotes, and is typically between 101 and 140 amino acids in length. Phtf proteins do not display any sequence similarity to known or predicted proteins, but their conservation among species suggests an essential function. The 84 kDa Phtf1 protein is an integral membrane protein, anchored to a cell membrane by six to eight trans-membrane domains, that is associated with a domain of the endoplasmic reticulum (ER) juxtaposed to the Golgi apparatus. It is present during meiosis and spermiogenesis, and, by the end of spermiogenesis, is released from the mature spermatozoon within the residual bodies []. Phtf1 enhances the binding of FEM1B -feminisation homologue 1B - to cell membranes. Fem-1 was initially identified in the signaling pathway for sex determination, as well as being implicated in apoptosis, but its biochemical role is still unclear, and neither FEM1B nor PHTF1 is directly implicated in apoptosis in spermatogenesis. It is the ANK domain of FEM1B that is necessary for the interaction with the N-terminal region of Phtf1 [].
Probab=21.71 E-value=11 Score=33.90 Aligned_cols=13 Identities=54% Similarity=0.958 Sum_probs=11.8
Q ss_pred CccCCccccCCCC
Q 022355 172 GWYDGQMWVKPPE 184 (298)
Q Consensus 172 GWYDGQvWvKP~E 184 (298)
|=||-|+|+|..|
T Consensus 15 g~YD~q~WEksve 27 (159)
T PF12129_consen 15 GAYDQQIWEKSVE 27 (159)
T ss_pred hhhHHHHHHHHHH
Confidence 6699999999988
No 19
>cd03392 PAP2_like_2 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase.
Probab=21.71 E-value=1.1e+02 Score=25.95 Aligned_cols=26 Identities=27% Similarity=0.460 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHhChHHHHhhh
Q 022355 136 GTGTLFLVSLIVLRIYLGWSYVGDRL 161 (298)
Q Consensus 136 ~~ga~~l~~LvlLRLYLGWsYV~dRL 161 (298)
.++....+.....|+|+|..|..|=+
T Consensus 137 ~~~~~~~~~v~~sRv~lg~H~~sDvl 162 (182)
T cd03392 137 ILAAILILLVGLSRLYLGVHYPSDVL 162 (182)
T ss_pred HHHHHHHHHHHHHHHHhcccchhHHH
Confidence 34445666677899999999998854
No 20
>cd03395 PAP2_like_4 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase.
Probab=21.65 E-value=1.1e+02 Score=26.25 Aligned_cols=23 Identities=30% Similarity=0.554 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHhChHHHHhhh
Q 022355 139 TLFLVSLIVLRIYLGWSYVGDRL 161 (298)
Q Consensus 139 a~~l~~LvlLRLYLGWsYV~dRL 161 (298)
....++..+-|+|+|-.|..|=+
T Consensus 135 ~~~~~~v~~SRvylG~H~psDVl 157 (177)
T cd03395 135 LLWALLVGYSRVYVGVHYPGDVI 157 (177)
T ss_pred HHHHHHHHHHHHHhCCcCHHHHH
Confidence 44455667899999999998843
No 21
>TIGR03647 Na_symport_sm probable solute:sodium symporter small subunit. Members of this family are highly hydrophobic bacterial proteins of about 90 amino acids in length. Members usually are found immediately upstream (sometimes fused to) a member of the solute:sodium symporter family, and therefore are a putative sodium:solute symporter small subunit. Members tend to be found in aquatic species, especially those from marine or other high salt environments.
Probab=20.70 E-value=2.8e+02 Score=22.06 Aligned_cols=60 Identities=28% Similarity=0.387 Sum_probs=34.5
Q ss_pred hHHHHHHHHHHHHHHHhhhhccc--ceeCCCCchHHHHHHHHHHHHHHHHHHHHHHHhChHHHHhhh
Q 022355 97 PFILRLGGLWLVAFMVLGVPTAA--ASFDPSREPLRFVLAAGTGTLFLVSLIVLRIYLGWSYVGDRL 161 (298)
Q Consensus 97 ~y~~rL~~~w~~~~~iv~~PIAa--~Sf~p~~~pl~fiL~a~~ga~~l~~LvlLRLYLGWsYV~dRL 161 (298)
.+...++.+|......++.-.+. -.+..-.-|++|-+++-.+-.+.+.|+.. .+...|||
T Consensus 8 ~li~~lL~iWf~vsfg~~~lf~~~Ln~~~~~GfPlgfw~aaQGsi~~fviLi~~-----Ya~~m~rl 69 (77)
T TIGR03647 8 RLIAVLLAIWFVVSFGAGILFADELNSFTFFGFPLGFWFAQQGSIYVFVVLIFV-----YAWRMNRL 69 (77)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHcCCeeCCCChHHHHHHhhHHHHHHHHHHH-----HHHHHHHH
Confidence 35556677787755532221222 14456678999999886555555554432 34556665
No 22
>PF14231 GXWXG: GXWXG protein
Probab=20.68 E-value=26 Score=26.73 Aligned_cols=20 Identities=40% Similarity=1.019 Sum_probs=14.2
Q ss_pred cccCccCCccccCCCCchHHH
Q 022355 169 EESGWYDGQMWVKPPEVKPVI 189 (298)
Q Consensus 169 EESGWYDGQvWvKP~EVkPIL 189 (298)
|.++|| |+...-+..|.|+|
T Consensus 35 ~~~~Wy-GK~F~s~~~v~PLl 54 (60)
T PF14231_consen 35 EASGWY-GKRFRSAEDVHPLL 54 (60)
T ss_pred HhCCCc-ccEECCccccceEE
Confidence 567888 67666666677765
No 23
>KOG0667 consensus Dual-specificity tyrosine-phosphorylation regulated kinase [General function prediction only]
Probab=20.13 E-value=41 Score=35.71 Aligned_cols=25 Identities=32% Similarity=0.466 Sum_probs=20.0
Q ss_pred CCCceeccchhHhh---hcCCccccccc
Q 022355 271 DGRPVYCRDRYYRA---LAGGQYCKWED 295 (298)
Q Consensus 271 ~grP~yc~dryyra---~Aggq~c~~~~ 295 (298)
.+.=.||-+||||| +-|+.||+==|
T Consensus 343 q~vytYiQSRfYRAPEVILGlpY~~~ID 370 (586)
T KOG0667|consen 343 QRVYTYIQSRFYRAPEVILGLPYDTAID 370 (586)
T ss_pred CcceeeeeccccccchhhccCCCCCccc
Confidence 34458999999998 78999997544
No 24
>PF05221 AdoHcyase: S-adenosyl-L-homocysteine hydrolase; InterPro: IPR000043 Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase, 3.3.1.1 from EC) (AdoHcyase) is an enzyme of the activated methyl cycle, responsible for the reversible hydration of S-adenosyl-L-homocysteine into adenosine and homocysteine. This enzyme is ubiquitous, highly conserved, and may play a key role in the regulation of the intracellular concentration of adenosylhomocysteine. AdoHcyase requires NAD+ as a cofactor and contains a central glycine-rich region which is thought to be involved in NAD-binding.; GO: 0004013 adenosylhomocysteinase activity, 0006730 one-carbon metabolic process; PDB: 3N58_B 3H9U_C 2ZJ1_C 3DHY_B 2ZIZ_C 2ZJ0_D 3CE6_B 1K0U_F 1B3R_A 1XWF_D ....
Probab=20.01 E-value=60 Score=31.44 Aligned_cols=26 Identities=38% Similarity=0.723 Sum_probs=17.9
Q ss_pred cCchHHHHHHHHHcCCCceecc-----chhHhh
Q 022355 257 MSDDDLAAAAAEAADGRPVYCR-----DRYYRA 284 (298)
Q Consensus 257 ~~DDd~Aaa~a~aa~grP~yc~-----dryyra 284 (298)
.+.||+|||-+ ..|.|||.. +.||+.
T Consensus 79 STQDdvaAAL~--~~Gi~V~A~~get~eey~~~ 109 (268)
T PF05221_consen 79 STQDDVAAALA--EEGIPVFAWKGETDEEYWWC 109 (268)
T ss_dssp T--HHHHHHHH--HTTEEEEE-TT--HHHHHHH
T ss_pred ccchHHHHHhc--cCCceEEEeCCCCHHHHHHH
Confidence 68899998887 569999983 456654
Done!