Query 015503
Match_columns 405
No_of_seqs 110 out of 141
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 06:55:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015503.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015503hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11891 DUF3411: Domain of un 100.0 3.2E-75 7E-80 533.7 13.8 178 171-348 1-179 (180)
2 COG4907 Predicted membrane pro 88.1 0.36 7.9E-06 51.7 2.8 7 71-77 568-574 (595)
3 COG4907 Predicted membrane pro 85.9 0.56 1.2E-05 50.3 2.7 7 74-80 574-580 (595)
4 KOG3915 Transcription regulato 80.1 1.7 3.8E-05 46.8 3.6 9 73-81 61-69 (641)
5 PF04285 DUF444: Protein of un 70.0 6.6 0.00014 41.6 4.8 26 98-123 103-130 (421)
6 PLN02705 beta-amylase 66.6 9.2 0.0002 42.6 5.1 13 268-280 303-315 (681)
7 PF02979 NHase_alpha: Nitrile 65.1 7.5 0.00016 37.3 3.7 45 137-181 16-68 (188)
8 PRK05325 hypothetical protein; 62.6 12 0.00026 39.5 5.0 21 108-132 99-119 (401)
9 PF02957 TT_ORF2: TT viral ORF 61.8 8.2 0.00018 33.5 3.1 15 105-119 103-117 (122)
10 PHA00370 III attachment protei 56.9 13 0.00027 37.7 3.8 12 20-31 19-31 (297)
11 TIGR02877 spore_yhbH sporulati 55.4 19 0.00041 37.8 4.9 29 100-132 101-131 (371)
12 PF08671 SinI: Anti-repressor 52.8 17 0.00037 25.4 2.8 22 134-156 9-30 (30)
13 PF02957 TT_ORF2: TT viral ORF 45.5 30 0.00065 30.0 3.9 16 108-123 103-118 (122)
14 COG4371 Predicted membrane pro 43.2 20 0.00043 36.5 2.7 20 247-266 231-250 (334)
15 PF05297 Herpes_LMP1: Herpesvi 39.2 10 0.00022 39.2 0.0 7 21-27 191-197 (381)
16 PHA00370 III attachment protei 37.2 91 0.002 31.8 6.2 7 254-260 244-250 (297)
17 PF02084 Bindin: Bindin; Inte 37.0 58 0.0013 32.4 4.8 25 115-142 108-132 (238)
18 PLN02590 probable tyrosine dec 35.1 50 0.0011 35.9 4.5 25 212-236 145-169 (539)
19 PF05084 GRA6: Granule antigen 35.0 50 0.0011 31.7 3.9 11 28-38 129-139 (215)
20 PRK05255 hypothetical protein; 32.6 1.9E+02 0.0041 27.4 7.3 68 117-184 26-128 (171)
21 KOG0105 Alternative splicing f 31.9 41 0.00089 33.0 2.8 6 83-88 92-97 (241)
22 KOG3973 Uncharacterized conser 31.2 46 0.00099 35.3 3.2 9 8-16 270-278 (465)
23 COG4371 Predicted membrane pro 29.3 62 0.0013 33.1 3.7 13 76-88 75-87 (334)
24 TIGR01323 nitrile_alph nitrile 28.9 61 0.0013 31.2 3.4 44 137-180 10-61 (185)
25 COG2718 Uncharacterized conser 27.2 62 0.0013 34.6 3.4 26 97-122 102-129 (423)
26 KOG4096 Uncharacterized conser 26.9 10 0.00022 31.6 -1.8 20 323-342 52-71 (75)
27 PRK05325 hypothetical protein; 26.5 90 0.002 33.2 4.5 12 380-391 358-369 (401)
28 PF07631 PSD4: Protein of unkn 26.1 1.3E+02 0.0028 26.8 4.8 33 129-179 17-51 (128)
29 TIGR03793 TOMM_pelo TOMM prope 25.4 41 0.00088 27.8 1.4 15 165-179 15-29 (77)
30 PF10415 FumaraseC_C: Fumarase 23.2 1.4E+02 0.0029 23.1 3.8 40 114-156 12-51 (55)
31 KOG1456 Heterogeneous nuclear 22.6 65 0.0014 34.5 2.5 22 208-229 164-185 (494)
32 PF07096 DUF1358: Protein of u 21.2 1.2E+02 0.0027 27.6 3.7 52 282-336 31-91 (124)
No 1
>PF11891 DUF3411: Domain of unknown function (DUF3411); InterPro: IPR021825 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 168 to 186 amino acids in length. This domain has a conserved RYQ sequence motif.
Probab=100.00 E-value=3.2e-75 Score=533.73 Aligned_cols=178 Identities=51% Similarity=0.746 Sum_probs=174.5
Q ss_pred hhhhcchhhHHHHHHHHhhhhhhhhhhhhhccCcchHhHHHHHHHHHHHHHHHHHhhhhccccccccccccccccC-chh
Q 015503 171 ERLLADDLFLAKVLFECGVGIFTKTAAEYDRRRENFFKELEIVFADVVMAIIADFMLVYLPAPTVALRSSFAVHAG-PIS 249 (405)
Q Consensus 171 ~RlLADP~FlfKl~iE~~I~i~~~~~aE~~~Rge~F~~ElDfV~sdvv~g~i~nfaLV~LLAPt~s~g~~~a~~aG-~l~ 249 (405)
|||||||+|||||++||+||++|+++|||++|||+||+|||||+||+++++|+||+||||||||++++++++...| .++
T Consensus 1 ~RllADP~Fl~Kl~~E~~i~i~~~~~~e~~~R~e~f~~E~d~v~~d~v~~~i~n~~lv~llAPt~s~~~~~~~~~~~~~~ 80 (180)
T PF11891_consen 1 ERLLADPSFLFKLAIEEVIGIGCATAAEYAKRGERFWNELDFVFSDVVVGSIVNFALVWLLAPTRSFGSPAASSPGGGLQ 80 (180)
T ss_pred CcccccchHHHHHHHHHHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHHHhccchHhhCcccccccchHHH
Confidence 7999999999999999999999999999999999999999999999999999999999999999999998876555 899
Q ss_pred hHhhcCCchhhhcccCCCCcchhhhHHHHhhcchhhhhhhhhHhhHHHHHHHHHHHHhhhcCCCCCCCcCCCCccchhhh
Q 015503 250 KFFYNCPDNAFQVALSGTSYSLLQRLGAIARNGAKLFAVGTTSSLVGTAVTNALINARKAVDKSSEGEVENVPILSTSVA 329 (405)
Q Consensus 250 k~~~~lP~n~Fq~~~pg~~fsl~qR~~a~v~KGa~l~~VGf~aGlvG~glsN~L~~~RK~~d~s~e~~~~~pPvl~tal~ 329 (405)
|++++||+|+||+++|+++||++||++||+|||++|++|||+||++||++||+|+++||++||+||+++++||+++||++
T Consensus 81 ~~~~~~P~n~Fq~~~~g~~fsl~qR~~~~~~kg~~l~~VG~~ag~vg~~lsn~L~~~rk~~~~~~e~~~~~ppv~~ta~~ 160 (180)
T PF11891_consen 81 KFLGSLPNNAFQKGYPGRSFSLAQRIGAFVYKGAKLAAVGFIAGLVGTGLSNALIAARKKVDPSFEPSVPVPPVLKTALG 160 (180)
T ss_pred HHHHhChHHHhccCCCCCcccHHHHHHHHHHcchHhhhhHHHHHHHHHHHHHHHHHHHHhcCccccCCCCCCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHhhcchhhhHHHHHhH
Q 015503 330 YGVYMAVSSNLRYQVLAGV 348 (405)
Q Consensus 330 wG~fMGvSSNlRYQilnGl 348 (405)
||+|||+|||+|||+|||+
T Consensus 161 ~g~fmGvSsNlRYQil~Gi 179 (180)
T PF11891_consen 161 WGAFMGVSSNLRYQILNGI 179 (180)
T ss_pred HHHHHhhhHhHHHHHHcCC
Confidence 9999999999999999998
No 2
>COG4907 Predicted membrane protein [Function unknown]
Probab=88.10 E-value=0.36 Score=51.69 Aligned_cols=7 Identities=0% Similarity=0.140 Sum_probs=2.5
Q ss_pred cccCCCC
Q 015503 71 TPTSSGG 77 (405)
Q Consensus 71 ~~~~~~~ 77 (405)
||.+++|
T Consensus 568 a~S~~~~ 574 (595)
T COG4907 568 ASSRRSS 574 (595)
T ss_pred cccccCC
Confidence 3333333
No 3
>COG4907 Predicted membrane protein [Function unknown]
Probab=85.86 E-value=0.56 Score=50.32 Aligned_cols=7 Identities=86% Similarity=1.483 Sum_probs=2.7
Q ss_pred CCCCCCC
Q 015503 74 SSGGGGG 80 (405)
Q Consensus 74 ~~~~~~~ 80 (405)
|++|||+
T Consensus 574 ~~~GGG~ 580 (595)
T COG4907 574 SSSGGGG 580 (595)
T ss_pred CCCCCCC
Confidence 3444333
No 4
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=80.10 E-value=1.7 Score=46.75 Aligned_cols=9 Identities=78% Similarity=1.453 Sum_probs=3.5
Q ss_pred cCCCCCCCC
Q 015503 73 TSSGGGGGD 81 (405)
Q Consensus 73 ~~~~~~~~~ 81 (405)
|+.|||+++
T Consensus 61 ~~~~~g~~g 69 (641)
T KOG3915|consen 61 TSTGGGGGG 69 (641)
T ss_pred ecccCCCCC
Confidence 333433333
No 5
>PF04285 DUF444: Protein of unknown function (DUF444); InterPro: IPR006698 This entry is represented by Thermus phage phiYS40, Orf56. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches [].
Probab=69.97 E-value=6.6 Score=41.62 Aligned_cols=26 Identities=46% Similarity=0.611 Sum_probs=15.1
Q ss_pred CCCCCCCCCC--ccccCHHHHHHHHHHH
Q 015503 98 NNDGDGDGEN--AGEKNREEALIVLAEA 123 (405)
Q Consensus 98 ~~~g~~~~~~--~~~~~R~ei~~Vl~e~ 123 (405)
++.|+++|+| .-+-.++|...+|=|-
T Consensus 103 ~gag~geGeD~fe~els~eE~~~llfEd 130 (421)
T PF04285_consen 103 QGAGDGEGEDDFEFELSREEFLDLLFED 130 (421)
T ss_pred CCCCCCCCCCeEEEEEEHHHHHHHhHHH
Confidence 3345555555 3566778887666554
No 6
>PLN02705 beta-amylase
Probab=66.59 E-value=9.2 Score=42.61 Aligned_cols=13 Identities=31% Similarity=0.238 Sum_probs=6.3
Q ss_pred CcchhhhHHHHhh
Q 015503 268 SYSLLQRLGAIAR 280 (405)
Q Consensus 268 ~fsl~qR~~a~v~ 280 (405)
+|+--+++..++.
T Consensus 303 dWsgY~~L~~mvr 315 (681)
T PLN02705 303 VWSGYRELFNIIR 315 (681)
T ss_pred CcHHHHHHHHHHH
Confidence 4444455555444
No 7
>PF02979 NHase_alpha: Nitrile hydratase, alpha chain; InterPro: IPR004232 Nitrile hydratases (4.2.1.84 from EC) are bacterial enzymes that catalyse the hydration of nitrile compounds to the corresponding amides. They are used as biocatalysts in acrylamide production, one of the few commercial scale bioprocesses, as well as in environmental remediation for the removal of nitriles from waste streams. Nitrile hydratases are composed of two subunits, alpha and beta, and are normally active as a tetramer, alpha(2)beta(2). Nitrile hydratases contain either a non-haem iron or a non-corrinoid cobalt centre, both types sharing a highly conserved peptide sequence in the alpha subunit (CXLCSC) that provides all the residues involved in coordinating the metal ion. Each type of nitrile hydratase specifically incorporated its metal with the help of activator proteins encoded by flanking regions of the nitrile hydratase genes that are necessary for metal insertion. The Fe-containing enzyme is photo-regulated: in the dark the enzyme is inactivated due to the association of nitric oxide (NO) to the iron, while in the light the enzyme is active by photo-dissociation of NO. The NO is held in place by a claw setting formed through specific oxygen atoms in two modified cysteines and a serine residue in the active site [, ]. The cobalt-containing enzyme is unaffected by NO, but was shown to undergo a similar effect with carbon monoxide [, ]. Fe- and cobalt-containing enzymes also display different inhibition patterns with nitrophenols. Thiocyanate hydrolase (SCNase) is a cobalt-containing metalloenzyme with a cysteine-sulphinic acid ligand that hydrolyses thiocyanate to carbonyl sulphide and ammonia []. The two enzymes, nitrile hydratase and SCNase, are homologous over regions corresponding to almost the entire coding regions of the genes: the beta and alpha subunits of thiocyanate hydrolase were homologous to the amino- and carboxyl-terminal halves of the beta subunit of nitrile hydratase, and the gamma subunit of thiocyanate hydrolase was homologous to the alpha subunit of nitrile hydratase []. This entry represents the structural domain of the alpha subunit of both iron- and cobalt-containing nitrile hydratases; the alpha subunit is a duplication of two structural repeats, each consisting of 4 layers, alpha/beta/beta/alpha []. This structure is also found in the related protein, the gamma subunit of thiocyanate hydrolase (SCNase).; GO: 0003824 catalytic activity, 0046914 transition metal ion binding, 0006807 nitrogen compound metabolic process; PDB: 2DPP_A 3HHT_A 1V29_A 2ZZD_I 2DXC_F 2DXB_F 2DD5_C 2DD4_C 2ZPH_A 2CYZ_A ....
Probab=65.09 E-value=7.5 Score=37.31 Aligned_cols=45 Identities=31% Similarity=0.275 Sum_probs=31.6
Q ss_pred HHHcCCCCHHHHHHHHHhhhh---hh--hHHHHh---hhchhhhhhcchhhHH
Q 015503 137 AIKDGRIPGAVLSRYFELEKS---GL--FKWLMQ---FGGFKERLLADDLFLA 181 (405)
Q Consensus 137 A~e~G~vs~~~L~rfl~l~~~---p~--~~~L~~---~~gfR~RlLADP~Flf 181 (405)
-+|.|.|+++.+.++.+...+ |. .+.+.+ -++||+|||+||.=..
T Consensus 16 l~ekg~~~~~~~~~~~~~~~~~~~P~~GarvVArAW~Dp~FK~rLLaD~~aA~ 68 (188)
T PF02979_consen 16 LIEKGLITPAEVDRIIETYESRVGPRNGARVVARAWTDPAFKARLLADPTAAI 68 (188)
T ss_dssp HHHTTSS-HHHHHHHHHHHHHTSSHHHHHHHHHHHHH-HHHHHHHHHSHHHHH
T ss_pred HHHcCCCCHHHHHHHHHHHHhccCccccceeehhhhCCHHHHHHHHHCHHHHH
Confidence 368999999999999887764 32 112222 4999999999997443
No 8
>PRK05325 hypothetical protein; Provisional
Probab=62.55 E-value=12 Score=39.49 Aligned_cols=21 Identities=38% Similarity=0.295 Sum_probs=14.7
Q ss_pred ccccCHHHHHHHHHHHhhccccchH
Q 015503 108 AGEKNREEALIVLAEAKRSMESLPK 132 (405)
Q Consensus 108 ~~~~~R~ei~~Vl~e~grt~~sLP~ 132 (405)
.-+-.++|...+|=|-- .||.
T Consensus 99 e~els~eE~~~~lfEdL----eLPn 119 (401)
T PRK05325 99 EFEISLEELLDLLFEDL----ELPN 119 (401)
T ss_pred EEEecHHHHHHHHHhhc----CCCC
Confidence 45778888888877654 5654
No 9
>PF02957 TT_ORF2: TT viral ORF2; InterPro: IPR004118 This entry represents the Gyroviral VP2 protein and TT viral ORF2. Torque teno virus (TTV) is a nonenveloped and single-stranded DNA virus that was initially isolated from a Japanese patient with hepatitis of unknown aetiology, and which has since been found to infect both healthy and diseased individuals []. Numerous prevalence studies have raised questions about its role in unexplained hepatitis. ORF2 is a 150 residue protein of unknown function. Gyroviruses are small circular single stranded viruses, such as the Chicken anaemia virus. The VP2 protein contains a set of conserved cysteine and histidine residues suggesting a zinc binding domain. VP2 may act as a scaffold protein in virion assembly and may also play a role in intracellular signaling during viral replication.
Probab=61.81 E-value=8.2 Score=33.47 Aligned_cols=15 Identities=27% Similarity=0.479 Sum_probs=6.9
Q ss_pred CCCccccCHHHHHHH
Q 015503 105 GENAGEKNREEALIV 119 (405)
Q Consensus 105 ~~~~~~~~R~ei~~V 119 (405)
++|.++.+-+++.+.
T Consensus 103 ~ed~~~~dld~L~aa 117 (122)
T PF02957_consen 103 GEDYDEEDLDELFAA 117 (122)
T ss_pred ccCCChHHHHHHhhh
Confidence 344555444444433
No 10
>PHA00370 III attachment protein
Probab=56.94 E-value=13 Score=37.66 Aligned_cols=12 Identities=42% Similarity=0.756 Sum_probs=6.3
Q ss_pred CCCc-ccCCCCCC
Q 015503 20 NTPE-LNLNRPSP 31 (405)
Q Consensus 20 ~~~~-~~~~~~~~ 31 (405)
.||| .-|.+|+.
T Consensus 19 ~~~eE~ClaKP~~ 31 (297)
T PHA00370 19 QTPEEICLAKPPI 31 (297)
T ss_pred CCcHHHHhcCCcc
Confidence 4443 36666653
No 11
>TIGR02877 spore_yhbH sporulation protein YhbH. This protein family, typified by YhbH in Bacillus subtilis, is found in nearly every endospore-forming bacterium and in no other genome (but note that the trusted cutoff score is set high to exclude a single high-scoring sequence from Nitrosococcus oceani ATCC 19707, which is classified in the Gammaproteobacteria). The gene in Bacillus subtilis was shown to be in the regulon of the sporulation sigma factor, sigma-E, and its mutation was shown to create a sporulation defect.
Probab=55.41 E-value=19 Score=37.79 Aligned_cols=29 Identities=38% Similarity=0.539 Sum_probs=18.4
Q ss_pred CCCCCCCC--ccccCHHHHHHHHHHHhhccccchH
Q 015503 100 DGDGDGEN--AGEKNREEALIVLAEAKRSMESLPK 132 (405)
Q Consensus 100 ~g~~~~~~--~~~~~R~ei~~Vl~e~grt~~sLP~ 132 (405)
.|+|+|+| .-+-.++|...+|=|-- .||.
T Consensus 101 ag~geGed~fe~e~s~eE~~~~lfEdL----eLPn 131 (371)
T TIGR02877 101 AGDQEGEDYYETEVTLEELFELLFEDL----ELPN 131 (371)
T ss_pred CCCCCCcceEEEEecHHHHHHHHHhhc----cCCC
Confidence 44444554 35778888888776654 5664
No 12
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=52.80 E-value=17 Score=25.36 Aligned_cols=22 Identities=18% Similarity=0.471 Sum_probs=16.2
Q ss_pred HHHHHHcCCCCHHHHHHHHHhhh
Q 015503 134 LAAAIKDGRIPGAVLSRYFELEK 156 (405)
Q Consensus 134 l~~A~e~G~vs~~~L~rfl~l~~ 156 (405)
|.+|.++| ++.+++.+||+.++
T Consensus 9 i~eA~~~G-ls~eeir~FL~~~k 30 (30)
T PF08671_consen 9 IKEAKESG-LSKEEIREFLEFNK 30 (30)
T ss_dssp HHHHHHTT---HHHHHHHHHHHH
T ss_pred HHHHHHcC-CCHHHHHHHHHhCC
Confidence 66777776 89999999998764
No 13
>PF02957 TT_ORF2: TT viral ORF2; InterPro: IPR004118 This entry represents the Gyroviral VP2 protein and TT viral ORF2. Torque teno virus (TTV) is a nonenveloped and single-stranded DNA virus that was initially isolated from a Japanese patient with hepatitis of unknown aetiology, and which has since been found to infect both healthy and diseased individuals []. Numerous prevalence studies have raised questions about its role in unexplained hepatitis. ORF2 is a 150 residue protein of unknown function. Gyroviruses are small circular single stranded viruses, such as the Chicken anaemia virus. The VP2 protein contains a set of conserved cysteine and histidine residues suggesting a zinc binding domain. VP2 may act as a scaffold protein in virion assembly and may also play a role in intracellular signaling during viral replication.
Probab=45.50 E-value=30 Score=29.99 Aligned_cols=16 Identities=19% Similarity=0.208 Sum_probs=9.1
Q ss_pred ccccCHHHHHHHHHHH
Q 015503 108 AGEKNREEALIVLAEA 123 (405)
Q Consensus 108 ~~~~~R~ei~~Vl~e~ 123 (405)
+++-+-+.+++++++.
T Consensus 103 ~ed~~~~dld~L~aa~ 118 (122)
T PF02957_consen 103 GEDYDEEDLDELFAAA 118 (122)
T ss_pred ccCCChHHHHHHhhhh
Confidence 3445556666666654
No 14
>COG4371 Predicted membrane protein [Function unknown]
Probab=43.25 E-value=20 Score=36.47 Aligned_cols=20 Identities=30% Similarity=0.541 Sum_probs=12.2
Q ss_pred chhhHhhcCCchhhhcccCC
Q 015503 247 PISKFFYNCPDNAFQVALSG 266 (405)
Q Consensus 247 ~l~k~~~~lP~n~Fq~~~pg 266 (405)
.+.++-..+|+-=||-..++
T Consensus 231 TlSN~nNql~~~g~~~a~~g 250 (334)
T COG4371 231 TLSNYNNQLPNTGFQHATDG 250 (334)
T ss_pred HHhhhhccCcccCccccCCC
Confidence 34444456777777766554
No 15
>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4). LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.
Probab=39.21 E-value=10 Score=39.16 Aligned_cols=7 Identities=29% Similarity=0.283 Sum_probs=0.0
Q ss_pred CCcccCC
Q 015503 21 TPELNLN 27 (405)
Q Consensus 21 ~~~~~~~ 27 (405)
.+|-|..
T Consensus 191 ~~e~~~d 197 (381)
T PF05297_consen 191 AEEHNHD 197 (381)
T ss_dssp -------
T ss_pred Ccccccc
Confidence 4565554
No 16
>PHA00370 III attachment protein
Probab=37.19 E-value=91 Score=31.79 Aligned_cols=7 Identities=29% Similarity=0.729 Sum_probs=3.4
Q ss_pred cCCchhh
Q 015503 254 NCPDNAF 260 (405)
Q Consensus 254 ~lP~n~F 260 (405)
.||+-+|
T Consensus 244 ~C~~FV~ 250 (297)
T PHA00370 244 GCTPFVF 250 (297)
T ss_pred CCCccee
Confidence 4555444
No 17
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=36.99 E-value=58 Score=32.40 Aligned_cols=25 Identities=24% Similarity=0.267 Sum_probs=19.1
Q ss_pred HHHHHHHHHhhccccchHHHHHHHHcCC
Q 015503 115 EALIVLAEAKRSMESLPKDLAAAIKDGR 142 (405)
Q Consensus 115 ei~~Vl~e~grt~~sLP~Dl~~A~e~G~ 142 (405)
.|.+|| +.|.-+||-||-+=++.|+
T Consensus 108 ~ikavL---gaTKiDLPVDINDPYDlGL 132 (238)
T PF02084_consen 108 DIKAVL---GATKIDLPVDINDPYDLGL 132 (238)
T ss_pred HHHHHh---cccccccccccCChhhHHH
Confidence 344444 5677899999999999985
No 18
>PLN02590 probable tyrosine decarboxylase
Probab=35.14 E-value=50 Score=35.93 Aligned_cols=25 Identities=12% Similarity=0.238 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHhhhhccccccc
Q 015503 212 IVFADVVMAIIADFMLVYLPAPTVA 236 (405)
Q Consensus 212 fV~sdvv~g~i~nfaLV~LLAPt~s 236 (405)
=++.|++++.+...+..|..+|..+
T Consensus 145 ~~lgd~l~sa~n~~~~~~~~sPa~t 169 (539)
T PLN02590 145 GFLGEMLNAGLSVVGFTWLTSPAAT 169 (539)
T ss_pred HHHHHHHHHhcccccCCcccCchhH
Confidence 4677777777777777887777665
No 19
>PF05084 GRA6: Granule antigen protein (GRA6); InterPro: IPR008119 Toxoplasma gondii is an obligate intracellular apicomplexan protozoan parasite, with a complex lifestyle involving varied hosts []. It has two phases of growth: an intestinal phase in feline hosts, and an extra-intestinal phase in other mammals. Oocysts from infected cats develop into tachyzoites, and eventually, bradyzoites and zoitocysts in the extraintestinal host []. Transmission of the parasite occurs through contact with infected cats or raw/undercooked meat; in immunocompromised individuals, it can cause severe and often lethal toxoplasmosis. Acute infection in healthy humans can sometimes also cause tissue damage []. The protozoan utilises a variety of secretory and antigenic proteins to invade a host and gain access to the intracellular environment []. These originate from distinct organelles in the T. gondii cell termed micronemes, rhoptries, and dense granules. They are released at specific times during invasion to ensure the proteins are allocated to their correct target destinations []. Dense granule antigens (GRAs) are released from the T. gondii tachyzoite while still encapsulated in a host vacuole. Gra6, one of these moieties, is associated with the parasitophorous vacuole []. It possesses a hydrophobic central region flanked by two hydrophilic domains, and is present as a single copy gene in the Toxoplasma gondii genome []. Gra6 shares a similar function with Gra2, in that it is rapidly targeted to a network of membranous tubules that connect with the vacuolar membrane []. Indeed, these two proteins, together with Gra4, form a multimeric complex that stabilises the parasite within the vacuole.
Probab=35.02 E-value=50 Score=31.74 Aligned_cols=11 Identities=9% Similarity=-0.052 Sum_probs=4.7
Q ss_pred CCCCCCceeee
Q 015503 28 RPSPLPLRLSV 38 (405)
Q Consensus 28 ~~~~~~~~~~~ 38 (405)
||.+.+.|-..
T Consensus 129 ~~r~~~V~~~~ 139 (215)
T PF05084_consen 129 RRRYSSVQEPQ 139 (215)
T ss_pred CCCCccccccc
Confidence 44444444333
No 20
>PRK05255 hypothetical protein; Provisional
Probab=32.65 E-value=1.9e+02 Score=27.41 Aligned_cols=68 Identities=25% Similarity=0.298 Sum_probs=38.8
Q ss_pred HHHHHHHhhccccc----------hHHHHHHHHcC-CC-CHHHHHH-------------------HHHhhhhh---hhHH
Q 015503 117 LIVLAEAKRSMESL----------PKDLAAAIKDG-RI-PGAVLSR-------------------YFELEKSG---LFKW 162 (405)
Q Consensus 117 ~~Vl~e~grt~~sL----------P~Dl~~A~e~G-~v-s~~~L~r-------------------fl~l~~~p---~~~~ 162 (405)
..-|++.|..+..| |.+|++|+... .| +.+...| +++....+ -...
T Consensus 26 ~~alq~LG~~L~~Ls~~ql~~lpL~e~L~~Ai~ea~ri~~~eA~RRqlqyIGKLmR~~d~e~I~~al~~~~~~~~~~~~~ 105 (171)
T PRK05255 26 AEALQDLGEELVELSKDQLAKLPLDEDLRDAILEAQRITSHEARRRQLQYIGKLMRNEDVEPIRAALDKLKNKHNQETAR 105 (171)
T ss_pred HHHHHHHHHHHHhCCHHHHhcCCCCHHHHHHHHHHhhhccchHHHHHHHHHHHHHhhCCHHHHHHHHHHHhchhHHHHHH
Confidence 35677788877665 45677776543 35 2333333 33332222 1234
Q ss_pred HHhhhchhhhhhc-chhhHHHHH
Q 015503 163 LMQFGGFKERLLA-DDLFLAKVL 184 (405)
Q Consensus 163 L~~~~gfR~RlLA-DP~FlfKl~ 184 (405)
+++.-.||+||++ |+.-+..+.
T Consensus 106 ~h~lE~wRdrLi~~~d~al~e~~ 128 (171)
T PRK05255 106 FHKLERWRDRLLAEGDDALTEFL 128 (171)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHH
Confidence 5566789999999 565444443
No 21
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=31.85 E-value=41 Score=32.99 Aligned_cols=6 Identities=33% Similarity=0.944 Sum_probs=2.6
Q ss_pred CCCCCC
Q 015503 83 NYNNNG 88 (405)
Q Consensus 83 ~~~~~~ 88 (405)
+|+++|
T Consensus 92 ~y~ggg 97 (241)
T KOG0105|consen 92 SYSGGG 97 (241)
T ss_pred ccCCCC
Confidence 444444
No 22
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=31.22 E-value=46 Score=35.29 Aligned_cols=9 Identities=33% Similarity=0.205 Sum_probs=3.8
Q ss_pred hcccccccc
Q 015503 8 FASASLSTI 16 (405)
Q Consensus 8 ~~~~~~~~~ 16 (405)
-|..+|+.|
T Consensus 270 aArsdL~~I 278 (465)
T KOG3973|consen 270 AARSDLLYI 278 (465)
T ss_pred HhhhhHHHH
Confidence 344444444
No 23
>COG4371 Predicted membrane protein [Function unknown]
Probab=29.35 E-value=62 Score=33.07 Aligned_cols=13 Identities=38% Similarity=0.843 Sum_probs=5.7
Q ss_pred CCCCCCCCCCCCC
Q 015503 76 GGGGGDDNYNNNG 88 (405)
Q Consensus 76 ~~~~~~~~~~~~~ 88 (405)
|||+++..|.|||
T Consensus 75 GGgY~gg~Y~GGG 87 (334)
T COG4371 75 GGGYSGGGYSGGG 87 (334)
T ss_pred CCCCCCCCCCCCC
Confidence 3444444444444
No 24
>TIGR01323 nitrile_alph nitrile hydratase, alpha subunit. This model describes both iron- and cobalt-containing nitrile hydratase alpha chains. It excludes the thiocyanate hydrolase gamma subunit of Thiobacillus thioparus, a sequence that appears to have evolved from within the family of nitrile hydratase alpha subunits but which differs by several indels and a more rapid accumulation of point mutations.
Probab=28.88 E-value=61 Score=31.23 Aligned_cols=44 Identities=20% Similarity=0.167 Sum_probs=31.4
Q ss_pred HHHcCCCCHHHHHHHHHhhhh---hhh--HHHHh---hhchhhhhhcchhhH
Q 015503 137 AIKDGRIPGAVLSRYFELEKS---GLF--KWLMQ---FGGFKERLLADDLFL 180 (405)
Q Consensus 137 A~e~G~vs~~~L~rfl~l~~~---p~~--~~L~~---~~gfR~RlLADP~Fl 180 (405)
-+|.|.|+++.+.+.++.... |.. +-+.+ -|.||.|||+|..=.
T Consensus 10 l~eKGli~~~~id~~i~~~~~~~gP~nGA~vVArAW~Dp~fk~~Ll~d~~aa 61 (185)
T TIGR01323 10 LKSKGLIPEGAVDQLTSLYENEWGPENGAKVVAKAWVDPEFRALLLKDATAA 61 (185)
T ss_pred HHHcCCCCHHHHHHHHHHHHhccCCcchhhhhhHHhcCHHHHHHHHhChHHH
Confidence 368899999999998886654 421 12222 489999999998643
No 25
>COG2718 Uncharacterized conserved protein [Function unknown]
Probab=27.22 E-value=62 Score=34.59 Aligned_cols=26 Identities=42% Similarity=0.618 Sum_probs=13.7
Q ss_pred CCCCCCCCCCC--ccccCHHHHHHHHHH
Q 015503 97 NNNDGDGDGEN--AGEKNREEALIVLAE 122 (405)
Q Consensus 97 ~~~~g~~~~~~--~~~~~R~ei~~Vl~e 122 (405)
|++.|+++++| ...--|+|+...|=|
T Consensus 102 g~~ag~~egED~F~~~is~~e~~dllFe 129 (423)
T COG2718 102 GQAAGDGEGEDEFVFQISREEVLDLLFE 129 (423)
T ss_pred CCccCCCCCcchhheeeehhHHHHHHHH
Confidence 33344444444 356667777655543
No 26
>KOG4096 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.89 E-value=10 Score=31.62 Aligned_cols=20 Identities=25% Similarity=0.718 Sum_probs=17.3
Q ss_pred ccchhhhhHHHhhcchhhhH
Q 015503 323 ILSTSVAYGVYMAVSSNLRY 342 (405)
Q Consensus 323 vl~tal~wG~fMGvSSNlRY 342 (405)
+++++.++|+||++-+-+||
T Consensus 52 ~~~SagtFG~FM~igs~Ir~ 71 (75)
T KOG4096|consen 52 MLQSAGTFGLFMGIGSGIRC 71 (75)
T ss_pred HHhccchhhhhhhhhhheec
Confidence 46777899999999998887
No 27
>PRK05325 hypothetical protein; Provisional
Probab=26.46 E-value=90 Score=33.18 Aligned_cols=12 Identities=42% Similarity=0.861 Sum_probs=6.3
Q ss_pred hhHHHHHHHHHh
Q 015503 380 GSLLWVDYARLI 391 (405)
Q Consensus 380 Gg~~fVd~AR~t 391 (405)
.+.+|-.|.+..
T Consensus 358 ~~~l~~~y~~i~ 369 (401)
T PRK05325 358 HQTLWREYERLQ 369 (401)
T ss_pred chHHHHHHHHhh
Confidence 455565555443
No 28
>PF07631 PSD4: Protein of unknown function (DUF1592); InterPro: IPR013042 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013043 from INTERPRO.
Probab=26.08 E-value=1.3e+02 Score=26.82 Aligned_cols=33 Identities=33% Similarity=0.377 Sum_probs=22.6
Q ss_pred cch-HHHHHHHHcCCC-CHHHHHHHHHhhhhhhhHHHHhhhchhhhhhcchhh
Q 015503 129 SLP-KDLAAAIKDGRI-PGAVLSRYFELEKSGLFKWLMQFGGFKERLLADDLF 179 (405)
Q Consensus 129 sLP-~Dl~~A~e~G~v-s~~~L~rfl~l~~~p~~~~L~~~~gfR~RlLADP~F 179 (405)
+.| +.|.+|++.|.+ ++++|.+ -.+|||+||.+
T Consensus 17 s~PD~~L~~aA~~g~L~~~~~l~~------------------q~~RML~dpr~ 51 (128)
T PF07631_consen 17 SPPDAELLDAAAAGELRTPEQLRA------------------QAERMLADPRA 51 (128)
T ss_pred CCCCHHHHHHHHhCCCCCHHHHHH------------------HHHHHHcCccH
Confidence 344 457888888887 4444433 45799999987
No 29
>TIGR03793 TOMM_pelo TOMM propeptide domain. This model represents a domain that is conserved among a large number of putative thiazole/oxazole-modified microcins (TOMM). Oddly, most of this seqence region appears homologous to nitrile hydratase subunits. This family is expanded especially in Pelotomaculum thermopropionicum SI.
Probab=25.36 E-value=41 Score=27.85 Aligned_cols=15 Identities=27% Similarity=0.275 Sum_probs=12.7
Q ss_pred hhhchhhhhhcchhh
Q 015503 165 QFGGFKERLLADDLF 179 (405)
Q Consensus 165 ~~~gfR~RlLADP~F 179 (405)
.-+.||.||++||.=
T Consensus 15 ~Dp~Fr~~Ll~DPra 29 (77)
T TIGR03793 15 EDEAFKQALLTNPKE 29 (77)
T ss_pred cCHHHHHHHHHCHHH
Confidence 458999999999973
No 30
>PF10415 FumaraseC_C: Fumarase C C-terminus; InterPro: IPR018951 Fumarase C catalyses the stereo-specific interconversion of fumarate to L-malate as part of the Krebs cycle. The full-length protein forms a tetramer with visible globular shape. FumaraseC_C is the C-terminal 65 residues referred to as domain 3. The core of the molecule consists of a bundle of 20 alpha-helices from the five-helix bundle of domain 2. The projections from the core of the tetramer are generated from domains 1 and 3 of each subunit []. This entry does not appear to be part of either the active site or the activation site but is helical in structure forming a little bundle. ; GO: 0016829 lyase activity, 0006099 tricarboxylic acid cycle; PDB: 3RRP_A 3OCE_D 3OCF_D 3E04_B 3GTD_A 3R6V_F 3R6Q_F 1J3U_B 1FUR_A 1YFE_A ....
Probab=23.20 E-value=1.4e+02 Score=23.13 Aligned_cols=40 Identities=20% Similarity=0.265 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhhccccchHHHHHHHHcCCCCHHHHHHHHHhhh
Q 015503 114 EEALIVLAEAKRSMESLPKDLAAAIKDGRIPGAVLSRYFELEK 156 (405)
Q Consensus 114 ~ei~~Vl~e~grt~~sLP~Dl~~A~e~G~vs~~~L~rfl~l~~ 156 (405)
+.+.++.+++.++..++..- +++.|.++.+++.+.|+.+.
T Consensus 12 e~aa~iAk~A~~~g~svre~---v~~~g~lt~ee~d~ll~p~~ 51 (55)
T PF10415_consen 12 EKAAEIAKEALAEGRSVREV---VLEEGLLTEEELDELLDPER 51 (55)
T ss_dssp HHHHHHHHHHHHHT--HHHH---HHHTTSS-HHHHHHHTSHHH
T ss_pred HHHHHHHHHHHHcCCCHHHH---HHHcCCCCHHHHHHHcCHHH
Confidence 35567788888888877643 45889999999999988653
No 31
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=22.62 E-value=65 Score=34.53 Aligned_cols=22 Identities=14% Similarity=0.001 Sum_probs=13.1
Q ss_pred hHHHHHHHHHHHHHHHHHhhhh
Q 015503 208 KELEIVFADVVMAIIADFMLVY 229 (405)
Q Consensus 208 ~ElDfV~sdvv~g~i~nfaLV~ 229 (405)
=|||=|-+-.-.=..+|-+=.|
T Consensus 164 VEFdsv~~AqrAk~alNGADIY 185 (494)
T KOG1456|consen 164 VEFDSVEVAQRAKAALNGADIY 185 (494)
T ss_pred EeechhHHHHHHHhhccccccc
Confidence 3777666555555556666555
No 32
>PF07096 DUF1358: Protein of unknown function (DUF1358); InterPro: IPR009792 This family consists of several hypothetical eukaryotic proteins of around 125 residues in length. The function of this family is unknown.
Probab=21.19 E-value=1.2e+02 Score=27.56 Aligned_cols=52 Identities=25% Similarity=0.302 Sum_probs=27.8
Q ss_pred chhhhhhhhhHhhHHHHHHHHHHHHhhhcCCC-CCCCcCCC------C--ccchhhhhHHHhhc
Q 015503 282 GAKLFAVGTTSSLVGTAVTNALINARKAVDKS-SEGEVENV------P--ILSTSVAYGVYMAV 336 (405)
Q Consensus 282 Ga~l~~VGf~aGlvG~glsN~L~~~RK~~d~s-~e~~~~~p------P--vl~tal~wG~fMGv 336 (405)
++.++.|+.++-++|-+ ..|..+||+ ||. |..-+... + .-..||+||..+.+
T Consensus 31 ~~FL~~Va~~s~~aGF~--~tl~~aKKk-~p~~F~kg~~~~~~l~esGasLAlRALgWGTlyA~ 91 (124)
T PF07096_consen 31 GAFLGGVAGASALAGFG--TTLALAKKK-SPKWFSKGISQTKALHESGASLALRALGWGTLYAV 91 (124)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHhc-CcHHHhccCcCcccCCcchHHHHHHHHhHHHHHHH
Confidence 34455566666655554 456666766 444 43222111 1 13456899977665
Done!