Query 030319
Match_columns 179
No_of_seqs 148 out of 587
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 11:56:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030319.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030319hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00781 ketosteroid_isomerase 99.4 2.6E-12 5.7E-17 95.3 10.3 88 84-172 3-91 (122)
2 TIGR02096 conserved hypothetic 99.4 3E-12 6.5E-17 95.4 10.2 79 88-167 2-80 (129)
3 PF12680 SnoaL_2: SnoaL-like d 99.3 5.7E-12 1.2E-16 88.1 8.6 74 90-168 1-75 (102)
4 PF07366 SnoaL: SnoaL-like pol 99.3 2.5E-11 5.4E-16 91.0 7.8 78 89-170 2-81 (126)
5 PRK08241 RNA polymerase factor 99.0 2.5E-09 5.4E-14 93.2 10.7 74 82-156 212-286 (339)
6 PF07858 LEH: Limonene-1,2-epo 98.9 2.9E-09 6.2E-14 83.0 6.5 68 85-154 2-70 (125)
7 TIGR02246 conserved hypothetic 98.9 3.2E-08 6.9E-13 73.0 10.5 84 85-169 5-92 (128)
8 TIGR02960 SigX5 RNA polymerase 98.9 2.1E-08 4.5E-13 86.5 10.6 65 83-148 203-269 (324)
9 PF13474 SnoaL_3: SnoaL-like d 98.7 2.1E-07 4.6E-12 67.6 9.6 65 87-152 2-66 (121)
10 PRK09636 RNA polymerase sigma 98.6 2.7E-07 5.9E-12 79.4 9.9 59 84-142 171-235 (293)
11 COG4319 Ketosteroid isomerase 98.4 1.8E-06 3.9E-11 68.4 9.6 71 85-156 11-84 (137)
12 PF14534 DUF4440: Domain of un 98.4 1.4E-06 3.1E-11 61.5 7.1 83 87-172 2-85 (107)
13 cd00531 NTF2_like Nuclear tran 98.4 5.1E-06 1.1E-10 58.8 9.4 84 87-170 2-92 (124)
14 TIGR02957 SigX4 RNA polymerase 98.2 4.9E-06 1.1E-10 71.5 8.4 65 85-149 165-235 (281)
15 COG3631 Ketosteroid isomerase- 98.1 2.2E-05 4.7E-10 61.7 8.3 81 84-166 4-89 (133)
16 PF13577 SnoaL_4: SnoaL-like d 98.0 2.3E-05 5.1E-10 57.5 7.6 83 86-168 9-92 (127)
17 PRK09635 sigI RNA polymerase s 97.7 0.00013 2.9E-09 63.4 7.9 55 85-139 175-230 (290)
18 PF02136 NTF2: Nuclear transpo 97.6 0.00016 3.4E-09 53.4 5.5 84 86-172 2-91 (118)
19 COG4922 Uncharacterized protei 97.6 0.00055 1.2E-08 53.2 8.3 82 84-171 5-88 (129)
20 PF10184 DUF2358: Uncharacteri 97.6 0.00056 1.2E-08 51.7 8.3 66 99-168 16-84 (113)
21 COG4308 LimA Limonene-1,2-epox 97.4 0.00049 1.1E-08 53.7 5.8 69 84-154 6-75 (130)
22 PF07080 DUF1348: Protein of u 97.3 0.0017 3.7E-08 51.6 8.2 84 84-172 10-94 (143)
23 PF08332 CaMKII_AD: Calcium/ca 97.2 0.0017 3.8E-08 50.8 7.7 65 87-151 6-71 (128)
24 COG5485 Predicted ester cyclas 97.1 0.0021 4.5E-08 50.5 6.9 75 88-168 10-85 (131)
25 COG4538 Uncharacterized conser 96.8 0.015 3.2E-07 44.2 9.0 63 85-149 4-66 (112)
26 PF09150 Carot_N: Orange carot 96.5 0.00012 2.6E-09 59.3 -4.4 23 46-68 136-158 (159)
27 cd00667 ring_hydroxylating_dio 96.4 0.029 6.3E-07 43.8 9.0 55 86-140 6-75 (160)
28 PF12893 Lumazine_bd_2: Putati 96.1 0.019 4.1E-07 42.7 5.9 87 86-176 6-97 (116)
29 cd00780 NTF2 Nuclear transport 96.0 0.16 3.4E-06 38.0 10.5 81 85-170 5-89 (119)
30 PF05223 MecA_N: NTF2-like N-t 95.7 0.032 7E-07 42.1 5.9 77 85-169 2-81 (118)
31 PF11533 DUF3225: Protein of u 95.5 0.12 2.5E-06 40.6 8.5 52 86-137 12-63 (125)
32 COG4875 Uncharacterized protei 94.9 0.3 6.6E-06 38.8 9.1 57 85-142 34-95 (156)
33 PF12870 Lumazine_bd: Lumazine 94.8 0.11 2.3E-06 37.1 5.9 32 83-114 6-37 (111)
34 PRK10069 3-phenylpropionate di 93.4 0.88 1.9E-05 36.9 9.4 55 85-139 21-95 (183)
35 COG3558 Uncharacterized protei 92.8 0.019 4.1E-07 45.3 -1.2 85 84-173 12-97 (154)
36 PF03284 PHZA_PHZB: Phenazine 90.3 0.91 2E-05 36.8 5.9 81 84-166 18-103 (162)
37 KOG4457 Uncharacterized conser 82.2 5 0.00011 33.4 6.3 64 107-170 57-124 (202)
38 TIGR03231 anthran_1_2_B anthra 80.9 2.3 5E-05 33.9 3.8 32 88-119 3-34 (155)
39 PF11453 DUF2950: Protein of u 76.9 7.6 0.00016 34.2 6.1 53 84-139 5-57 (271)
40 PLN02382 probable sucrose-phos 74.3 27 0.00059 32.0 9.3 58 92-152 292-358 (413)
41 COG4460 Uncharacterized protei 74.0 11 0.00024 29.4 5.7 61 89-152 15-75 (130)
42 TIGR03232 benzo_1_2_benB benzo 64.0 5.8 0.00012 31.6 2.3 24 96-119 11-34 (155)
43 PF06020 Roughex: Drosophila r 58.9 8.4 0.00018 34.5 2.6 51 83-138 8-58 (334)
44 PRK13316 heme-degrading monoox 54.5 24 0.00051 27.5 4.2 42 137-178 34-75 (121)
45 KOG4353 RNA export factor NXT1 53.5 32 0.0007 27.4 4.8 50 85-137 15-64 (139)
46 PF00866 Ring_hydroxyl_B: Ring 52.0 9.5 0.00021 29.7 1.7 43 96-138 5-62 (145)
47 KOG0116 RasGAP SH3 binding pro 47.0 1.2E+02 0.0027 28.2 8.4 87 82-172 13-106 (419)
48 PF15063 TC1: Thyroid cancer p 39.0 17 0.00036 26.4 1.1 17 3-19 1-17 (79)
49 PF04280 Tim44: Tim44-like dom 38.0 19 0.00041 27.3 1.4 30 85-114 23-52 (147)
50 COG5517 Small subunit of pheny 37.7 42 0.0009 27.6 3.3 25 95-119 19-43 (164)
51 KOG2104 Nuclear transport fact 30.8 2.7E+02 0.0058 21.9 7.6 79 85-170 9-92 (126)
52 PRK13613 lipoprotein LpqB; Pro 29.9 59 0.0013 31.6 3.6 33 83-115 59-93 (599)
53 PRK13315 heme-degrading monoox 27.9 69 0.0015 24.2 3.0 40 138-178 28-67 (107)
54 PRK13616 lipoprotein LpqB; Pro 26.1 73 0.0016 30.8 3.5 33 83-115 53-87 (591)
55 PRK13615 lipoprotein LpqB; Pro 25.1 82 0.0018 30.4 3.6 33 83-115 50-84 (557)
56 PF01170 UPF0020: Putative RNA 21.4 1E+02 0.0022 24.7 3.0 31 110-140 106-136 (179)
57 PRK13614 lipoprotein LpqB; Pro 21.3 1.1E+02 0.0025 29.6 3.8 33 83-115 59-93 (573)
No 1
>cd00781 ketosteroid_isomerase ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon. Ketosteroid isomerases are important members of this class of enzymes which are the most proficient of all enzymes known and have served as a paradigm for enzymatic enolizations since its discovery in 1954. This CD includes members of this class that calalyze the isomerization of various beta,gamma-unsaturated isomers at nearly a diffusion-controlled rate. These enzymes are widely distributed in bacteria.
Probab=99.40 E-value=2.6e-12 Score=95.25 Aligned_cols=88 Identities=22% Similarity=0.212 Sum_probs=69.6
Q ss_pred CcHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEe-eecCCCceEEE
Q 030319 84 GGGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDD-ISAEDSSANGK 162 (179)
Q Consensus 84 ~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~e-v~egD~~aV~v 162 (179)
...++++++|+++||++|++.+.+||+||++|++|..+.|++|++++++++..+.+..+ ++++.+.. +..|+..++.+
T Consensus 3 ~~~~~~v~~~~~a~~~~D~~~~~~l~aed~~~~~p~~~~~~~G~~~i~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~ 81 (122)
T cd00781 3 QEMKAAVQRYVEAVNAGDPEGIVALFADDATVEDPVGSPPRSGRAAIAAFYAQSLGGAK-RLELTGPVRASHGGEAAFAF 81 (122)
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHcCCCeEEeCCCCCCCccCHHHHHHHHHHHhccCc-eEEecCceeeecCCEEEEEE
Confidence 34788999999999999999999999999999998766689999999999999987754 56665544 34566445555
Q ss_pred EEEEEeCCce
Q 030319 163 ESHFLSAKVA 172 (179)
Q Consensus 163 ~w~lew~~~~ 172 (179)
+|+...++..
T Consensus 82 ~~~~~~~g~~ 91 (122)
T cd00781 82 RVEFEWEGQP 91 (122)
T ss_pred EEEEEeCCce
Confidence 6666666543
No 2
>TIGR02096 conserved hypothetical protein, steroid delta-isomerase-related. This family of proteins about 135 amino acids in length largely restricted to the Proteobacteria. This family and a delta5-3-ketosteroid isomerase from Pseudomonas testosteroni appear homologous, especially toward their respective N-termini. Members, therefore, probably are enzymes.
Probab=99.40 E-value=3e-12 Score=95.43 Aligned_cols=79 Identities=18% Similarity=0.260 Sum_probs=67.9
Q ss_pred HHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEeeecCCCceEEEEEEEE
Q 030319 88 VVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDISAEDSSANGKESHFL 167 (179)
Q Consensus 88 ~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev~egD~~aV~v~w~le 167 (179)
+++++||++||++|++.+.++|+||++|++|+.+.++.|++++++++..+++.++ ++++++.++..++...+.+.|+++
T Consensus 2 ~iv~~~~~a~~~~d~~~~~~~~~~d~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~-~~~~~i~~~~~~~~~~v~~~~~~~ 80 (129)
T TIGR02096 2 ELAQHWIEAFNRGDMDAVLALLAEDVLYDDNQGGRVLGGKAQLARFLAPYRTAFP-DLLVDVVVCRNDEGVRVAAEWTVH 80 (129)
T ss_pred HHHHHHHHHHHCCCHHHHHHhcCCCeEEEcCCCCcEeccHHHHHHHHHHHHHhCc-hhhceeEEEEecCCcEEEEEEEEe
Confidence 6899999999999999999999999999998877778889999999999999997 789999987544333666666654
No 3
>PF12680 SnoaL_2: SnoaL-like domain; PDB: 3F40_A 3RGA_A 3G8Z_A 3DMC_A 3FH1_A 1TUH_A 3F14_A 3ER7_A 1Z1S_A 3F7X_A ....
Probab=99.35 E-value=5.7e-12 Score=88.06 Aligned_cols=74 Identities=35% Similarity=0.527 Sum_probs=64.4
Q ss_pred HHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEeee-cCCCceEEEEEEEEe
Q 030319 90 VRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDIS-AEDSSANGKESHFLS 168 (179)
Q Consensus 90 VrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev~-egD~~aV~v~w~lew 168 (179)
|++||++||++|++.+.++|+||++|++| .+ ++.|+++++++++.++..++ +.++++.++. +|| .+.+.|++..
T Consensus 1 V~~~~~a~~~~d~~~i~~~~~~d~~~~~~-~~-~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~~~gd--~v~~~~~~~~ 75 (102)
T PF12680_consen 1 VRRFFEAWNAGDLDAIAALFAPDAVFHDP-GG-TLRGREAIREFFEEFFESFP-DIRFEIHDIFADGD--RVVVEWTVTG 75 (102)
T ss_dssp HHHHHHHHHTTHHHHHHHTEEEEEEEEET-TS-EEESHHHHHHHHHHHHHHEE-EEEEEEEEEEEETT--EEEEEEEEEE
T ss_pred CHHHHHHHHcCCHHHHHHHcCCCEEEEeC-CC-cccCHHHHHHHHHHHHhcCC-ceEEEEEEEEEcCC--EEEEEEEEEE
Confidence 78999999999999999999999999988 44 58999999999999999886 7899999965 555 6666777764
No 4
>PF07366 SnoaL: SnoaL-like polyketide cyclase; InterPro: IPR009959 This domain is found in SnoaL [] a polyketide cyclase involved in nogalamycin biosynthesis. This domain was formerly known as DUF1486. It adopts a distorted alpha-beta barrel fold []. Structural data together with site-directed mutagenesis experiments have shown that SnoaL has a different mechanism to that of the classical aldolase for catalysing intramolecular aldol condensation [].; PDB: 2GEY_C 3F9S_A 2GEX_A 3EHC_B 2F99_D 2F98_D 1SJW_A 3K0Z_B.
Probab=99.25 E-value=2.5e-11 Score=91.00 Aligned_cols=78 Identities=33% Similarity=0.546 Sum_probs=62.9
Q ss_pred HHHHHH-HHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEeee-cCCCceEEEEEEE
Q 030319 89 VVRRFY-AGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDIS-AEDSSANGKESHF 166 (179)
Q Consensus 89 vVrrfy-eA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev~-egD~~aV~v~w~l 166 (179)
+|+++| ++||++|++.+.++++||+++++++. ++..|++++++++..++.+|| |++++++++. +|| .|.++|++
T Consensus 2 ~v~~~~~~~~n~~d~~~~~~~~~~d~~~~~~~~-~~~~G~~~~~~~~~~~~~afP-D~~~~i~~~~~~gd--~v~~~~~~ 77 (126)
T PF07366_consen 2 IVRRFYEEVWNRGDLDALDELVAPDVVFHDPGP-GPPVGREGFKEFLKELRAAFP-DLRFEIEDVVAEGD--RVAVRWTF 77 (126)
T ss_dssp HHHHHHHHHHHTT-GCHHHGTEEEEEEEEGCTT-TEEEHHHHHHHHHHHHHHHST-TTEEEEEEEEEETT--EEEEEEEE
T ss_pred HHHHHHHHHHhCCCHHHHHHhcCCCEEEEecCC-CCCCCHHHHHHHHHHHHHHCC-CCEEEEEEEEEECC--EEEEEEEE
Confidence 455555 57899999999999999999998766 578899999999999999998 8999999964 666 55566655
Q ss_pred EeCC
Q 030319 167 LSAK 170 (179)
Q Consensus 167 ew~~ 170 (179)
+-.+
T Consensus 78 ~Gth 81 (126)
T PF07366_consen 78 TGTH 81 (126)
T ss_dssp EEEE
T ss_pred EEee
Confidence 4443
No 5
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=99.01 E-value=2.5e-09 Score=93.23 Aligned_cols=74 Identities=19% Similarity=0.306 Sum_probs=60.4
Q ss_pred CCCcHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcC-CCeEEEEEeeecCC
Q 030319 82 DDGGGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSIS-SDLQFVIDDISAED 156 (179)
Q Consensus 82 ~~~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp-~dl~~~I~ev~egD 156 (179)
....++++|++||+||++||++++.+||+||++|++|++++|++|++++++||..+..... .+.++... +..|+
T Consensus 212 ~~~~~~~~v~~~~~A~~~gD~~~l~~lla~Dv~~~~p~~~~~~~G~~~v~~~~~~~~~~~~~~~~~~~~~-~~~g~ 286 (339)
T PRK08241 212 DDPEERALLARYVAAFEAYDVDALVALLTEDATWSMPPFPLWYRGRDAIAAFLAGQCPGAGCGGSRLVPT-RANGQ 286 (339)
T ss_pred CChHHHHHHHHHHHHHhcCCHHHHHHHhcCCEEEEcCCCCCcccCHHHHHHHHHhhccccCCCceEEEEe-ecCCC
Confidence 3478999999999999999999999999999999999988889999999999999754432 24444333 33444
No 6
>PF07858 LEH: Limonene-1,2-epoxide hydrolase catalytic domain; InterPro: IPR013100 Epoxide hydrolases catalyse the hydrolysis of epoxides to corresponding diols, which is important in detoxification, synthesis of signal molecules, or metabolism. Limonene-1,2- epoxide hydrolase (LEH) differs from many other epoxide hydrolases in its structure and its novel one-step catalytic mechanism. Its main fold consists of a six-stranded mixed beta-sheet, with three N-terminal alpha helices packed to one side to create a pocket that extends into the protein core. A fourth helix lies in such a way that it acts as a rim to this pocket. Although mainly lined by hydrophobic residues, this pocket features a cluster of polar groups that lie at its deepest point and constitute the enzymes active site []. ; PDB: 2BNG_C 1NWW_A 1NU3_B.
Probab=98.91 E-value=2.9e-09 Score=82.99 Aligned_cols=68 Identities=38% Similarity=0.665 Sum_probs=56.1
Q ss_pred cHHHHHHHHHHHHhCCCHHH-HHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEeeec
Q 030319 85 GGAVVVRRFYAGINGRDLAS-VEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDISA 154 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~da-l~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev~e 154 (179)
.+.++|++|+++|...|+++ +..++++|++||+.|++ |++|+++++++++.+...+. .+++.++.++.
T Consensus 2 ~~~~vV~~F~~a~~~~D~~~a~~~~~~~d~vy~Nvplp-~i~G~~~~~~~l~~~~~~~~-~~e~~i~~iaa 70 (125)
T PF07858_consen 2 TPEEVVRAFLAALEDRDVDAALASLFDDDAVYHNVPLP-PIRGRDAIRAFLRGFLDSLS-GFEFDIHRIAA 70 (125)
T ss_dssp HHHHHHHHHHHHHHHT-HHHHHHHCEECC-EEEETTTE-EEESHHHHHHHHHCCHCCCE-EEEEEEEEEEE
T ss_pred ChHHHHHHHHHHHHcCCHHHHHHHhcCCCcEEEeCCCC-CcccHHHHHHHHHHHhcccc-eeEEEEEEEee
Confidence 47899999999999999875 56799999999999999 79999999999999965553 67777777653
No 7
>TIGR02246 conserved hypothetical protein. This family consists of uncharacterized proteins found in a number of genera and species, including Streptomyces, Xanthomonas, Oceanobacillus iheyensis, Caulobacter crescentus CB15, and Xylella fastidiosa. The function is unknown.
Probab=98.87 E-value=3.2e-08 Score=73.02 Aligned_cols=84 Identities=12% Similarity=0.108 Sum_probs=62.1
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCC--eEEEEEeee-cCCCc-eE
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSD--LQFVIDDIS-AEDSS-AN 160 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~d--l~~~I~ev~-egD~~-aV 160 (179)
..++++.+|+++||++|.+.+.++|++|++|..++ +.++.|+++++++|+.++..++.. +++++.++. .|+.. .+
T Consensus 5 ~i~~l~~~~~~a~~~~D~~~~~~~~~~Da~~~~~~-g~~~~G~~~i~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~A~~ 83 (128)
T TIGR02246 5 AIRALVATWEAAWAAGDAEGFADLFTPDGVFVTVP-GQVWKGREAIAAAHEAFLAGPYKGTRVTIDVIEVRFLGPDLAIV 83 (128)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHhhCCCceEECCC-CCeecCHHHHHHHHHHHhcccCCCcEEEeeeEEEEecCCCEEEE
Confidence 46789999999999999999999999999998543 347899999999999988777644 455544543 45422 23
Q ss_pred EEEEEEEeC
Q 030319 161 GKESHFLSA 169 (179)
Q Consensus 161 ~v~w~lew~ 169 (179)
...+++...
T Consensus 84 ~~~~~~~~~ 92 (128)
T TIGR02246 84 HAIQTITAP 92 (128)
T ss_pred EEEEEEEcC
Confidence 334445443
No 8
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=98.86 E-value=2.1e-08 Score=86.51 Aligned_cols=65 Identities=17% Similarity=0.388 Sum_probs=56.4
Q ss_pred CCcHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHH--HHhcCCCeEEE
Q 030319 83 DGGGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKF--SDSISSDLQFV 148 (179)
Q Consensus 83 ~~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~--~~afp~dl~~~ 148 (179)
...+.+++.+||++|++||++++.+|++||++|++|+..+|+.|++++.+||..+ ...++ +.++.
T Consensus 203 ~~~~~~~v~~~~~a~~~gD~~~l~~Lla~Dv~~~~p~~~~~~~G~~~v~~~~~~~~~~~~~~-~~~~~ 269 (324)
T TIGR02960 203 SPEEQDLLERYIAAFESYDLDALTALLHEDAIWEMPPYTLWYQGRPAIVGFIHTVCPGEGAA-GMRLL 269 (324)
T ss_pred CHHHHHHHHHHHHHHHcCCHHHHHHHhcCCeEEEcCCCCcceeCHHHHHHHHHHhcccccCC-ceeEE
Confidence 3567899999999999999999999999999999998888999999999999998 44443 44443
No 9
>PF13474 SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE7_A 3BB9_E 3CNX_A 3F7S_A 3GWR_B.
Probab=98.68 E-value=2.1e-07 Score=67.63 Aligned_cols=65 Identities=17% Similarity=0.318 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEee
Q 030319 87 AVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDI 152 (179)
Q Consensus 87 ~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev 152 (179)
++++.+|+++|+++|++.+.++|+||+++-++.-++...|+++++++++..++.++ .+++++.++
T Consensus 2 ~~~~~~~~~a~~~~D~~~~~~~~~~d~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~ 66 (121)
T PF13474_consen 2 EALLEEWIEAFERGDIDALLSLFSDDFVFFGTGPGEIWRGREAIRAYFERDFESFR-PISIEFEDV 66 (121)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHEEEEEEEEETTSSSEEESHHHHHHHHHHHHHTHS-EEEEEEEEE
T ss_pred HHHHHHHHHHHHhCCHHHHHHhhCCCEEEEcCCCCceECCHHHHHHHHHHHhhhCc-eEEEEEEEE
Confidence 57899999999999999999999999999886666667899999999999998774 788888774
No 10
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=98.61 E-value=2.7e-07 Score=79.36 Aligned_cols=59 Identities=27% Similarity=0.436 Sum_probs=51.4
Q ss_pred CcHHHHHHHHHHHHhCCCHHHHHhhhccCceEee------CCCCCCccCHHHHHHHHHHHHHhcC
Q 030319 84 GGGAVVVRRFYAGINGRDLASVEELIADDCVYED------LIFPRPFLGRKATLDFFKKFSDSIS 142 (179)
Q Consensus 84 ~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~d------p~~~~Pi~Greav~~ff~~~~~afp 142 (179)
..+.+++++|++|+++||++++.+|++||++|+. ++..+|+.|++++.+||..+...++
T Consensus 171 ~~~~~~v~~f~~A~~~gD~~~l~~Lla~Dv~~~~dggg~~~~~~~~~~G~~~v~~~l~~~~~~~~ 235 (293)
T PRK09636 171 EEGAELVEAFFAALASGDLDALVALLAPDVVLHADGGGKVPTALRPIYGADKVARFFLGLARRYG 235 (293)
T ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHHhhCeEEEecCCCccCCCCccccCHHHHHHHHHHHhhhcc
Confidence 4578899999999999999999999999999995 2334578999999999999987654
No 11
>COG4319 Ketosteroid isomerase homolog [Function unknown]
Probab=98.44 E-value=1.8e-06 Score=68.39 Aligned_cols=71 Identities=17% Similarity=0.222 Sum_probs=60.9
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEeee---cCC
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDIS---AED 156 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev~---egD 156 (179)
..++++..|-+|+|++|++++.++|+||+++-+++ +-+..|++++++.|+..+..+...++|+.+++. .||
T Consensus 11 ~I~a~i~dw~~Av~a~D~~av~~~YtdDav~f~~~-~~~~~Gk~~i~k~~~~~~~~~~~~~~f~~~el~v~~~GD 84 (137)
T COG4319 11 AIRAAIADWAAAVRAKDADAVADFYTDDAVVFPPP-GLQRKGKAAIRKAFEGIFAMGIGPLKFTLEELQVHESGD 84 (137)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHhcCCceEEecCC-CCcccCHHHHHHHHHHHHHhccCCCcceeeeeeeeccCC
Confidence 45677788888999999999999999999999776 446899999999999999887778899998864 455
No 12
>PF14534 DUF4440: Domain of unknown function (DUF4440); PDB: 3HX8_A 3SOY_A 3ROB_B 3GZR_A 3B7C_A 3CU3_A 3FSD_A 2R4I_C 1TP6_A.
Probab=98.39 E-value=1.4e-06 Score=61.47 Aligned_cols=83 Identities=20% Similarity=0.242 Sum_probs=62.3
Q ss_pred HHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEeee-cCCCceEEEEEE
Q 030319 87 AVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDIS-AEDSSANGKESH 165 (179)
Q Consensus 87 ~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev~-egD~~aV~v~w~ 165 (179)
.++.++|.+|++++|++++.++|+||+++..+. + +..|++++.+.+....... ..++++..++. .||...+..+|+
T Consensus 2 ~a~~~~~~~A~~~~D~~~~~~~~~~d~~~~~~~-g-~~~~~~~~l~~~~~~~~~~-~~~~~~~~~v~~~gd~a~~~~~~~ 78 (107)
T PF14534_consen 2 RALEEQYEDAFNAGDIDALASLYADDFVFVGPG-G-TILGKEAILAAFKSGFARF-SSIKFEDVEVRVLGDTAVVRGRWT 78 (107)
T ss_dssp HHHHHHHHHHHHTTHHHHHHTTEEEEEEEEETT-S-EEEEHHHHHHHHHHHCEEE-EEEEEEEEEEEEETTEEEEEEEEE
T ss_pred HHHHHHHHHHHHhCCHHHHHhhhCCCEEEECCC-C-CEeCHHHHHHHHhhccCCC-ceEEEEEEEEEEECCEEEEEEEEE
Confidence 478899999999999999999999999998654 3 4569999998888743222 24555555542 477666667888
Q ss_pred EEeCCce
Q 030319 166 FLSAKVA 172 (179)
Q Consensus 166 lew~~~~ 172 (179)
+++.+..
T Consensus 79 ~~~~~~g 85 (107)
T PF14534_consen 79 FTWRGDG 85 (107)
T ss_dssp EEETTTT
T ss_pred EEEecCC
Confidence 8887643
No 13
>cd00531 NTF2_like Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of divergent evolution wherein the proteins have many common structural details but diverge greatly in their function. For example, nuclear transport factor 2 (NTF2) mediates the nuclear import of RanGDP and binds to both RanGDP and FxFG repeat-containing nucleoporins while Ketosteroid isomerases catalyze the isomerization of delta-5-3-ketosteroid to delta-4-3-ketosteroid, by intramolecular transfer of the C4-beta proton to the C6-beta position. While the function of the beta sub-unit of the Ring hydroxylating dioxygenases is not known, Scytalone Dehydratases catalyzes two reactions in the biosynthetic pathway that produces fungal melanin. Members of the NTF2-like superfamily are widely distributed among bacteria, archaea
Probab=98.35 E-value=5.1e-06 Score=58.78 Aligned_cols=84 Identities=18% Similarity=0.101 Sum_probs=60.2
Q ss_pred HHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCC---CCCccCHHHHHHHHHHHHHhcCCCeEEEEEe-eecCCC---ce
Q 030319 87 AVVVRRFYAGINGRDLASVEELIADDCVYEDLIF---PRPFLGRKATLDFFKKFSDSISSDLQFVIDD-ISAEDS---SA 159 (179)
Q Consensus 87 ~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~---~~Pi~Greav~~ff~~~~~afp~dl~~~I~e-v~egD~---~a 159 (179)
++++.+|+++++.+|.+.+..+|+||++++.+.. ..+..|+++++++++.+....+...|+.... +...+. ..
T Consensus 2 ~~l~~~y~~~ld~~~~~~l~~~~~~d~~~~~~~~~~~~~~~~g~~~i~~~~~~~~~~~~~~~h~~~~~~~~~~~~~~~~~ 81 (124)
T cd00531 2 EQFLYRYARLLDAGDREWLALLYADDAYFEPPGGDGLIYPDDGREAIEDRVRRLPFGPSRTRHLVSNVDVQPGDDGEGVV 81 (124)
T ss_pred HHHHHHHHHHhCCchHHHHHhhCcCcEEEEEccCCEEEEcCChHHHHHHHHHhcCCCCCceEEEEEeEEEEeCCCCEEEE
Confidence 5789999999999999999999999999997664 2568999999999998875322233442222 222221 34
Q ss_pred EEEEEEEEeCC
Q 030319 160 NGKESHFLSAK 170 (179)
Q Consensus 160 V~v~w~lew~~ 170 (179)
+.+.|.++..+
T Consensus 82 ~~~~~~~~~~~ 92 (124)
T cd00531 82 VSVFGVLRTRG 92 (124)
T ss_pred EEEEEEEEEcc
Confidence 55566776665
No 14
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=98.24 E-value=4.9e-06 Score=71.50 Aligned_cols=65 Identities=22% Similarity=0.283 Sum_probs=53.7
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCceEee------CCCCCCccCHHHHHHHHHHHHHhcCCCeEEEE
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCVYED------LIFPRPFLGRKATLDFFKKFSDSISSDLQFVI 149 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~d------p~~~~Pi~Greav~~ff~~~~~afp~dl~~~I 149 (179)
...+++.+|.+|+++||++++.+|++||+++.- ++...|++|++.|.+|+......+..+.++..
T Consensus 165 ~~~~~~~~f~~a~~~gD~~~l~~lL~~dv~~~~dggg~~~~~~~p~~G~~~v~~~~~~~~~~~~~~~~~~~ 235 (281)
T TIGR02957 165 ESRQLLERFVEAAQTGDLDGLLELLAEDVVLYGDGGGKVRAALRPIYGADRVARFFFGLVRRLGPGGRVDP 235 (281)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHhhceEEEecCCCcCCCCCcccccHHHHHHHHHHHhcccCCCceEEE
Confidence 456899999999999999999999999999985 56677899999999999887654433444443
No 15
>COG3631 Ketosteroid isomerase-related protein [General function prediction only]
Probab=98.07 E-value=2.2e-05 Score=61.67 Aligned_cols=81 Identities=22% Similarity=0.256 Sum_probs=61.2
Q ss_pred CcHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCC----CCCccCHHHHHHHHHHHHHhcCCCeEEEEEee-ecCCCc
Q 030319 84 GGGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIF----PRPFLGRKATLDFFKKFSDSISSDLQFVIDDI-SAEDSS 158 (179)
Q Consensus 84 ~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~----~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev-~egD~~ 158 (179)
+.+.++|+++|+++.+||.+.+.+|+++|++|.-|.. +....|++..+.+|..+-..+. ...++++.+ .+||.+
T Consensus 4 ~~~~~~v~~~f~a~~~GD~~~~~~l~a~D~v~~~p~~~~~~~~~~~g~~~~~~~~~~~~r~~~-~~~~~~~~~~~~gD~~ 82 (133)
T COG3631 4 MDNTDLVRRYFAALSRGDLDGLLALLAEDVVWEVPGTPPLSGTFRGGVAIRRDVFALLPRLIE-DGRFTVETVYVSGDPV 82 (133)
T ss_pred chhhhHHHHHHHHHhcCCHHHHHhhccCceEEEeeCCCCCccccccchhhhhHHhhhChhhcc-cccccceEEEEcCCce
Confidence 5789999999999999999999999999999985332 2334577777888888877763 567888775 467744
Q ss_pred eEEEEEEE
Q 030319 159 ANGKESHF 166 (179)
Q Consensus 159 aV~v~w~l 166 (179)
. .+.|..
T Consensus 83 ~-~v~~~~ 89 (133)
T COG3631 83 G-AVFRTR 89 (133)
T ss_pred E-EEEEec
Confidence 4 344443
No 16
>PF13577 SnoaL_4: SnoaL-like domain; PDB: 3S5C_B 3EJV_A 2RFR_A 3B8L_F 2CHC_A 3A76_A 3EF8_B.
Probab=98.05 E-value=2.3e-05 Score=57.52 Aligned_cols=83 Identities=18% Similarity=0.270 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCC-CCCccCHHHHHHHHHHHHHhcCCCeEEEEEeeecCCCceEEEEE
Q 030319 86 GAVVVRRFYAGINGRDLASVEELIADDCVYEDLIF-PRPFLGRKATLDFFKKFSDSISSDLQFVIDDISAEDSSANGKES 164 (179)
Q Consensus 86 ~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~-~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev~egD~~aV~v~w 164 (179)
.++++.+|..++..+|++.+.++|++|+++.-+++ .+.+.|++++.+++...........|+....+++-|+..+.++|
T Consensus 9 I~~l~~~~~~~~D~~~~~~~~~lft~d~~~~~~~~~~~~~~G~~~i~~~~~~~~~~~~~~~H~~~~~~v~~dgd~A~~~~ 88 (127)
T PF13577_consen 9 IRDLIARYARALDTGDWEEWADLFTEDAVFDFPGFGFGRYRGRDAIRAFLRARFDGFAATRHMVTNPVVDVDGDTATVRS 88 (127)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHTTEEEEEEEEETTTCEEEEESHHHHHHHHHHHHHHEEEEEEEEEEEEEEEETTEEEEEE
T ss_pred HHHHHHHHHHHhhCCCHHHHHhccCCcEEEEEeCccccccCCHHHHHHHHHHhcccccceeEEccceEEEEcCCEEEEEE
Confidence 56788899999999999999999999999987765 34689999999999999876654445544443322233566666
Q ss_pred EEEe
Q 030319 165 HFLS 168 (179)
Q Consensus 165 ~lew 168 (179)
.+..
T Consensus 89 ~~~~ 92 (127)
T PF13577_consen 89 YVLA 92 (127)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 5543
No 17
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=97.72 E-value=0.00013 Score=63.43 Aligned_cols=55 Identities=16% Similarity=0.063 Sum_probs=47.8
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeC-CCCCCccCHHHHHHHHHHHHH
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCVYEDL-IFPRPFLGRKATLDFFKKFSD 139 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp-~~~~Pi~Greav~~ff~~~~~ 139 (179)
...+++.+|.+|+++||++++.+|++||++.-.+ +.+.|++|++.|.+||.....
T Consensus 175 ~~~~~~~~f~~a~~~gd~~~l~~ll~~d~~~~~~~~~~~~~~G~~~v~~~~~~~~~ 230 (290)
T PRK09635 175 QHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWS 230 (290)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHhhhhhcCCCcCCCCccccCHHHHHHHHHHhhc
Confidence 4578999999999999999999999999986544 456789999999999987653
No 18
>PF02136 NTF2: Nuclear transport factor 2 (NTF2) domain; InterPro: IPR002075 Nuclear transport factor 2 (NTF2) is a homodimer which stimulates efficient nuclear import of a cargo protein. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins. NTF2 folds into a cone with a deep hydrophobic cavity, the opening of which is surrounded by several negatively charged residues. RanGDP binds to NTF2 by inserting a conserved phenylalanine residue into the hydrophobic pocket of NTF2 and making electrostatic interactions with the conserved negatively charged residues that surround the cavity []. This entry represent the main structural domain of NTF2 and related domains which are found in other nuclear import proteins.; GO: 0006810 transport, 0005622 intracellular; PDB: 3UJM_B 1JKG_B 1JN5_B 1M98_A 3MG1_A 3MG2_A 3MG3_B 2Z76_A 2Z7A_D 2Z77_A ....
Probab=97.58 E-value=0.00016 Score=53.36 Aligned_cols=84 Identities=20% Similarity=0.353 Sum_probs=64.1
Q ss_pred HHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEee--e----cCCCce
Q 030319 86 GAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDI--S----AEDSSA 159 (179)
Q Consensus 86 ~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev--~----egD~~a 159 (179)
....|++||++++++|.+.|..+|++|+.+..+....+++|+++|.++|..+-.. ..++.+..+ . .++...
T Consensus 2 ~~~Fv~~Yy~~~d~~~~~~L~~~Y~~~~s~~~~~~~~~~~G~~~I~~~~~~l~~~---~~~~~i~~~d~qp~~~~~~~i~ 78 (118)
T PF02136_consen 2 ANSFVQQYYQLFDSGDREGLHKLYHDDASFLTWNGNRPVVGREAIQEFFQSLPAT---GVQHRITSVDCQPSPSSDGSIL 78 (118)
T ss_dssp HHHHHHHHHHHHHHTHGGGGGGGEEEEEEEEEETTECEEESHHHHHHHHHHHTTS---SEEEEEEEEEEEEEEECCSEEE
T ss_pred HHHHHHHHHHHHccCCHHHHHHHHcCCCeeecCCCchhhhhHHHHHHHHhcCCCc---ccEEEecccccccccccCCcEE
Confidence 4678999999999999999999999888887655444799999999999988543 135555443 2 234567
Q ss_pred EEEEEEEEeCCce
Q 030319 160 NGKESHFLSAKVA 172 (179)
Q Consensus 160 V~v~w~lew~~~~ 172 (179)
+.|.+.++..+..
T Consensus 79 i~v~G~~~~~~~~ 91 (118)
T PF02136_consen 79 ITVTGQFKEDDNP 91 (118)
T ss_dssp EEEEEEEEETTSE
T ss_pred EEEEeEEEecCCC
Confidence 7778888887775
No 19
>COG4922 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.56 E-value=0.00055 Score=53.18 Aligned_cols=82 Identities=17% Similarity=0.289 Sum_probs=65.3
Q ss_pred CcHHHHHHHHHH-HHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEe-eecCCCceEE
Q 030319 84 GGGAVVVRRFYA-GINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDD-ISAEDSSANG 161 (179)
Q Consensus 84 ~~~~~vVrrfye-A~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~e-v~egD~~aV~ 161 (179)
..|++++-.||. +|++|.++.+.+++.|-..=|+|..+. ||+++.+||.+++..-| ..+..|-. +++|| -|.
T Consensus 5 ~~N~~~v~~~y~~~~~~g~veka~a~~vd~YiQHnp~vpd---Gk~~fv~fFt~ffk~~P-~~~~kiVr~iadGd--LV~ 78 (129)
T COG4922 5 HANKQVVIQFYRTLFEAGEVEKADAYLVDRYIQHNPMVPD---GKDGFVRFFTEFFKEKP-RISTKIVRVIADGD--LVT 78 (129)
T ss_pred hhhHHHHHHHHHHHHHCCCHHHhhhhhhhHHHhcCCCCCC---chHHHHHHHHHHHHhCc-cccceeeEEeccCC--EEE
Confidence 357888999998 689999999999999888878887774 99999999999998776 45555555 55666 666
Q ss_pred EEEEEEeCCc
Q 030319 162 KESHFLSAKV 171 (179)
Q Consensus 162 v~w~lew~~~ 171 (179)
+..|=.|+..
T Consensus 79 vh~hqt~~~p 88 (129)
T COG4922 79 VHYHQTVSEP 88 (129)
T ss_pred EEEeeeeCCC
Confidence 7777777763
No 20
>PF10184 DUF2358: Uncharacterized conserved protein (DUF2358); InterPro: IPR018790 This entry represents a family of conserved proteins. The function is unknown.
Probab=97.56 E-value=0.00056 Score=51.73 Aligned_cols=66 Identities=17% Similarity=0.171 Sum_probs=50.1
Q ss_pred CCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHH---HHHHHHhcCCCeEEEEEeeecCCCceEEEEEEEEe
Q 030319 99 GRDLASVEELIADDCVYEDLIFPRPFLGRKATLDF---FKKFSDSISSDLQFVIDDISAEDSSANGKESHFLS 168 (179)
Q Consensus 99 a~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~f---f~~~~~afp~dl~~~I~ev~egD~~aV~v~w~lew 168 (179)
.++.+ .++|+|||+|.||-.. +.|++.+++. ++-+...+-.++++++.++...+...+.++|++.+
T Consensus 16 ~~~~~--~~iY~~dv~F~Dp~~~--f~g~~~Y~~~~~~l~~l~~~~~~~~~~~v~~i~~~~~~~I~~rW~~~g 84 (113)
T PF10184_consen 16 TGDLD--YSIYDEDVVFIDPIVS--FKGLDRYKRNLWALRFLGRLFFSDPSLEVLSIEQDGEDTIRARWRLRG 84 (113)
T ss_pred cCCCC--hhhcCCCeEEECCCCc--eecHHHHHHHHHHHHHHHhhccCCcEEEEEEEEECCCCEEEEEEEEEE
Confidence 44444 4599999999997654 8999999988 55555534358999999987544349999999965
No 21
>COG4308 LimA Limonene-1,2-epoxide hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=97.35 E-value=0.00049 Score=53.72 Aligned_cols=69 Identities=22% Similarity=0.263 Sum_probs=56.2
Q ss_pred CcHHHHHHHHHHHHhCCCHHHHHh-hhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEeeec
Q 030319 84 GGGAVVVRRFYAGINGRDLASVEE-LIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDISA 154 (179)
Q Consensus 84 ~~~~~vVrrfyeA~Na~D~dal~e-LfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev~e 154 (179)
..+.++|+.|+.||..-|.+++.. |+.+|-+|.+++++. ++|+++..++++..+... ...+|.|+.++.
T Consensus 6 ~~pi~~V~aF~aA~~~~d~~~avr~~~~~d~v~~n~gis~-i~G~~~~ia~l~~~~~~~-~~~ef~I~riAa 75 (130)
T COG4308 6 PEPIRTVEAFLAALQEDDGDAAVRRLGTPDTVYNNVGIST-IHGPAETIALLRPRMAGI-LGFEFKILRIAA 75 (130)
T ss_pred CCcHHHHHHHHHHHHhcCccHHHHHhcCCCeeeccCCccc-ccchhhhhhhhccccCCc-ceeEEEEEEEec
Confidence 458899999999999999987775 666999999999985 899999999999654443 257888887754
No 22
>PF07080 DUF1348: Protein of unknown function (DUF1348); InterPro: IPR009783 This family consists of several highly conserved hypothetical proteins of around 150 residues in length. The function of this family is unknown.; PDB: 2IMJ_B.
Probab=97.28 E-value=0.0017 Score=51.63 Aligned_cols=84 Identities=15% Similarity=0.143 Sum_probs=62.0
Q ss_pred CcHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEee-ecCCCceEEE
Q 030319 84 GGGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDI-SAEDSSANGK 162 (179)
Q Consensus 84 ~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev-~egD~~aV~v 162 (179)
.++.+-|+.--++||.+|.+.+.--|++|++|.+=. +=+.|+++|.+|+.+=.+.= .+.+. +.++ +-. ...++|
T Consensus 10 etA~~KVr~AEdaWNsrdP~~ValaYT~Ds~WRNR~--eF~~GR~~I~~FLtrKW~rE-~~YrL-iKELwaf~-~nRIAV 84 (143)
T PF07080_consen 10 ETAIQKVRAAEDAWNSRDPEKVALAYTPDSVWRNRD--EFLTGREEIVAFLTRKWERE-LDYRL-IKELWAFT-DNRIAV 84 (143)
T ss_dssp HHHHHHHHHHHHHHTTT-HHHHHTTEEEEEEEEETT--EEE-SHHHHHHHHHHHHHHS-EEEEE-EEEEEEEE-TTEEEE
T ss_pred HHHHHHHHHHHhccccCChhHheeccCCCCcccCcc--cccCcHHHHHHHHHHHHHHh-hhhhh-HHhhhhcc-CCeEEE
Confidence 457778888889999999999999999999999732 23789999999999887542 23333 3454 322 259999
Q ss_pred EEEEEeCCce
Q 030319 163 ESHFLSAKVA 172 (179)
Q Consensus 163 ~w~lew~~~~ 172 (179)
+..-||.+.+
T Consensus 85 RF~YE~~d~~ 94 (143)
T PF07080_consen 85 RFAYEWHDDS 94 (143)
T ss_dssp EEEEEEE-TT
T ss_pred EEeEEEEcCC
Confidence 9999998865
No 23
>PF08332 CaMKII_AD: Calcium/calmodulin dependent protein kinase II Association; InterPro: IPR013543 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain is found at the C terminus of the Calcium/calmodulin dependent protein kinases II (CaMKII). These proteins also have a Ser/Thr protein kinase domain (IPR000719 from INTERPRO) at their N terminus []. The function of the CaMKII association domain is the assembly of the single proteins into large (8 to 14 subunits) multimers [] and is a prominent kinase in the central nervous system that may function in long-term potentiation and neurotransmitter release. ; GO: 0004683 calmodulin-dependent protein kinase activity, 0005516 calmodulin binding, 0006468 protein phosphorylation; PDB: 2W2C_F 3H51_B 3SOA_A 2UX0_A 1HKX_M 2F86_B.
Probab=97.22 E-value=0.0017 Score=50.78 Aligned_cols=65 Identities=20% Similarity=0.238 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHhCCCHHHHHhhhccC-ceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEe
Q 030319 87 AVVVRRFYAGINGRDLASVEELIADD-CVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDD 151 (179)
Q Consensus 87 ~~vVrrfyeA~Na~D~dal~eLfApD-~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~e 151 (179)
.++..++.++++.||++...+|++|| .+++...-+.+..|.+.++.||..++..=|...+..|.+
T Consensus 6 ~~l~~~w~~ai~tgD~~~~~~ly~~d~av~~Pt~s~~~~~g~~~~~~YF~~~l~~~~~~~~~tI~~ 71 (128)
T PF08332_consen 6 AALFDRWNDAIQTGDPETYAKLYAPDVAVFEPTVSNQLREGLEFHKFYFDHFLAKKPQGVNTTILN 71 (128)
T ss_dssp HHHHHHHHHHHHHT-HHHHHHHEEEEEEEEEGGGTTSEEESCHHHHHHHHHTGTTTSSCEEEEEEE
T ss_pred HHHHHHHHHHHHcCCHHHHhhhcCCCeeEeccccCCceecChHHHHHHHhcccccCCCceeeEecC
Confidence 45677888899999999999999999 777744446788999999999999987766566556655
No 24
>COG5485 Predicted ester cyclase [General function prediction only]
Probab=97.10 E-value=0.0021 Score=50.45 Aligned_cols=75 Identities=16% Similarity=0.201 Sum_probs=57.4
Q ss_pred HHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEe-eecCCCceEEEEEEE
Q 030319 88 VVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDD-ISAEDSSANGKESHF 166 (179)
Q Consensus 88 ~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~e-v~egD~~aV~v~w~l 166 (179)
+..+.|++.+|..+.+.+-. +-+|++.++ + ...|.++++++..+.+.++| |+.|+++. |+++|.++...+..+
T Consensus 10 ~~y~Ay~d~ln~q~~~~l~~-fv~~~v~~n---g-~~~glsgyr~ml~~df~aiP-dl~f~ie~lvae~~~vaarl~Fdc 83 (131)
T COG5485 10 DRYRAYLDCLNRQAWDELGS-FVDGNVMHN---G-RLQGLSGYREMLVRDFSAIP-DLSFEIERLVAEGDRVAARLTFDC 83 (131)
T ss_pred HHHHHHHHhhhhhhhhhccc-CCcCeeeeC---C-ceechHHHHHHHHhhHhhCC-CcceEEEEEeecCCceEEEEEEcc
Confidence 78899999999999887754 445666664 3 25699999999999999998 89999999 567875555555544
Q ss_pred Ee
Q 030319 167 LS 168 (179)
Q Consensus 167 ew 168 (179)
+-
T Consensus 84 tp 85 (131)
T COG5485 84 TP 85 (131)
T ss_pred Cc
Confidence 43
No 25
>COG4538 Uncharacterized conserved protein [Function unknown]
Probab=96.80 E-value=0.015 Score=44.20 Aligned_cols=63 Identities=17% Similarity=0.086 Sum_probs=48.1
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEE
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVI 149 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I 149 (179)
.++.++++=.+|.|++|+++....|++||++...+.-----|.+++++++.+.+.. | +++..+
T Consensus 4 e~ed~vq~Ql~AYNa~Dvdaf~a~f~DD~vv~~f~a~~~~gg~aaira~y~e~FaE-p-~~~~~l 66 (112)
T COG4538 4 EPEDVVQRQLAAYNAGDVDAFAAEFDDDAVVTTFDALDGDGGTAAIRAAYGEQFAE-P-APEISL 66 (112)
T ss_pred chhHHHHHHHHhhccccHHHHHhhcccceEEEecccccccCcHHHHHHHHHHHhcC-C-Ccccee
Confidence 36789999999999999999999999999998533211123889999999888865 3 444443
No 26
>PF09150 Carot_N: Orange carotenoid protein, N-terminal ; InterPro: IPR015233 Carotenoids such as beta-carotene, lycopene, lutein and beta-cryptoxanthine are produced in plants and certain bacteria, algae and fungi, where they function as accessory photosynthetic pigments and as scavengers of oxygen radicals for photoprotection. They are also essential dietary nutrients in animals. Orange carotenoid-binding proteins (OCP) were first identified in cyanobacterial species, where they occur associated with phycobilisome in the cellular thylakoid membrane. These proteins function in photoprotection, and are essential for inhibiting white and blue-green light non-photochemical quenching (NPQ) [, ]. Carotenoids improve the photoprotectant activity by broadening OCP's absorption spectrum and facilitating the dissipation of absorbed energy. OCP acts as a homodimer, and binds one molecule of carotenoid (3'-hydroxyechinenone) and one chloride ion per subunit, where the carotenoid binding site is lined with a striking number of methionine residues. The carotenoid 3'-hydroxyechinenone is not found in higher plants. OCP has two domains: an N-terminal helical domain and a C-terminal domain that resembles a NTF2 (nuclear transport factor 2) domain. OCP can be proteolytically cleaved into a red form (RCP), which lacks 15 residues from the N terminus and approximately 150 residues from the C terminus []. This entry represents the N-terminal domain found predominantly in prokaryotic orange carotenoid proteins and related carotenoid-binding proteins. It adopts an alpha-helical structure consisting of two four-helix bundles [].; GO: 0031404 chloride ion binding, 0016037 light absorption, 0030089 phycobilisome; PDB: 3MG3_B 3MG1_A 3MG2_A 1M98_A.
Probab=96.47 E-value=0.00012 Score=59.27 Aligned_cols=23 Identities=13% Similarity=0.041 Sum_probs=19.2
Q ss_pred cccCCCCCcEEEecccccccccc
Q 030319 46 RKRLAPLSKLRISSSENNRTAVD 68 (179)
Q Consensus 46 ~~~l~~~qqi~v~~~~~~~~~~~ 68 (179)
.|+||.+|||||+||.|++||||
T Consensus 136 I~~Ldf~QQItvlR~~V~~MG~d 158 (159)
T PF09150_consen 136 IKQLDFEQQITVLRNIVVDMGFD 158 (159)
T ss_dssp HHCS-HHHHHHHHHHHHHT-SS-
T ss_pred HHcCChhhHHHHHHHHHHHcCCC
Confidence 39999999999999999999996
No 27
>cd00667 ring_hydroxylating_dioxygenases_beta Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the substrate by nonheme iron-containing dioxygenases. These enzymes consist of two or three soluble proteins that interact to form an electron-transport chain that transfers electrons from reduced nucleotides (NADH) via flavin and [2Fe-2S] redox centers to a terminal dioxygenase. Aromatic-ring-hydroxylating dioxygenases oxidize aromatic hydrocarbons and related compounds to cis-arene diols. These enzymes utilize a mononuclear non-heme iron center to catalyze the addition of dioxygen to their respective substrates. The active site of these enzymes however is in the alpha sub-unit. No functional role has been attributed to the beta sub-unit except for a structural role.
Probab=96.44 E-value=0.029 Score=43.81 Aligned_cols=55 Identities=16% Similarity=0.055 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCC---------------ccCHHHHHHHHHHHHHh
Q 030319 86 GAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRP---------------FLGRKATLDFFKKFSDS 140 (179)
Q Consensus 86 ~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~P---------------i~Greav~~ff~~~~~a 140 (179)
..+++-+|..+++.+|++...+||++|++|.-|+.+.. ..|++.+++.+..+...
T Consensus 6 I~~ll~~ya~~LD~~~~~~w~~lft~D~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~rv~~l~~~ 75 (160)
T cd00667 6 VEQFLYREARLLDDRRWDEWLALFAEDCHYWVPARENRERRDEDPGLELSAIYDDDRRMLEDRVVRLRTG 75 (160)
T ss_pred HHHHHHHHHHHhcccCHHHHHHhhccccEEEcceeechhhhccCCCCCeeEEEeCCHHHHHHHHHHHhcC
Confidence 35677777788999999999999999999986554321 14788888887777653
No 28
>PF12893 Lumazine_bd_2: Putative lumazine-binding; PDB: 3BLZ_C 3DUK_F 3FKA_C.
Probab=96.08 E-value=0.019 Score=42.71 Aligned_cols=87 Identities=10% Similarity=0.098 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCC--ccCHHHHHHHHHHHH--HhcCCCeEEEEEeee-cCCCceE
Q 030319 86 GAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRP--FLGRKATLDFFKKFS--DSISSDLQFVIDDIS-AEDSSAN 160 (179)
Q Consensus 86 ~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~P--i~Greav~~ff~~~~--~afp~dl~~~I~ev~-egD~~aV 160 (179)
-+++|..|++++..+|.+.+.++|+||+.+.... .++ ....+++.+++.... ..........+..+. .|+ ..
T Consensus 6 I~~~v~~Y~dg~~~gD~~~l~~~f~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~i~~i~i~g~--~A 82 (116)
T PF12893_consen 6 IEATVQDYFDGLYNGDSEKLRSAFHPDARLQGVR-KGKLRTMPIEEFIARVKSRVSPKPPGQERKESILSIDIDGD--VA 82 (116)
T ss_dssp HHHHHHHHHHHHHHT-HHHHGGGEEEEEEEEEEE-TTEEEEEETHHHHHHHHHC---H-SSTT-EEEEEEEEEETT--EE
T ss_pred HHHHHHHHHHHHHhcCHHHHHHhhCCCcEEEEEc-CCceEEeCHHHHHHHHHhhccccCCCCCceeEEEEEEEECC--EE
Confidence 4689999999999999999999999999987533 221 235566666666542 233346777777764 454 44
Q ss_pred EEEEEEEeCCceeeee
Q 030319 161 GKESHFLSAKVAAFIN 176 (179)
Q Consensus 161 ~v~w~lew~~~~~~~~ 176 (179)
.+..++++. ..-|++
T Consensus 83 ~a~v~~~~~-~~~~~d 97 (116)
T PF12893_consen 83 SAKVEYEFP-GFWFVD 97 (116)
T ss_dssp EEEEEEEEE-TEEEEE
T ss_pred EEEEEEEEC-CCceEE
Confidence 455555544 334443
No 29
>cd00780 NTF2 Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many soluble factors that includes GDP-binding protein Ran (RanGDP). RanGDP is required for both import and export of proteins and poly(A) RNA. RanGDP also has been implicated in cell cycle control, specifically in mitotic spindle assembly. In interphase cells, RanGDP is predominately nuclear and thought to be GTP bound, but it is also present in the cytoplasm, probably in the GDP-bound state. NTF2 mediates the nuclear import of RanGDP. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins.
Probab=95.96 E-value=0.16 Score=37.96 Aligned_cols=81 Identities=10% Similarity=0.143 Sum_probs=57.7
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEee----ecCCCceE
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDI----SAEDSSAN 160 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev----~egD~~aV 160 (179)
...+.|+.||..++ .|.+.|..+|+++..+...+ ..++.|+++|.+++..+-. ...++.+..+ ..++..-+
T Consensus 5 v~~~Fv~~YY~~l~-~~~~~L~~fY~~~s~~~~~~-~~~~~g~~~I~~~l~~lp~---~~~~~~i~~~d~q~~~~~~ili 79 (119)
T cd00780 5 VAKAFVQQYYSIFD-NNREGLHRLYGDTSMLSREG-MKQVTGRDAIVEKLSSLPF---QKTKHKITTVDSQPTPSGGVIV 79 (119)
T ss_pred HHHHHHHHHHHHHh-cCHHHHHhhcCCCcEEEECC-ceEecCHHHHHHHHHhCCC---cceEEEEEEEeeeEcCCCCEEE
Confidence 35678999999998 88999999999999997654 3468899999998876531 1345555443 23344566
Q ss_pred EEEEEEEeCC
Q 030319 161 GKESHFLSAK 170 (179)
Q Consensus 161 ~v~w~lew~~ 170 (179)
.|...+..++
T Consensus 80 ~V~G~~~~~~ 89 (119)
T cd00780 80 MVTGSLKLDE 89 (119)
T ss_pred EEEEEEEECC
Confidence 6666666554
No 30
>PF05223 MecA_N: NTF2-like N-terminal transpeptidase domain; InterPro: IPR007887 The multiple antibiotic resistance of methicillin-resistant strains of Staphylococcus aureus (MRSA) has become a major clinical problem worldwide. Methicillin resistance in MRSA strains is due to the acquisition of the mecA gene via horizontal transfer from an unidentified species which encodes penicillin-binding protein 2a (PBP2a). The structure of the N-terminal domain from MecA is known [] Q53707 from SWISSPROT and is found to be similar to that found in NTF2 IPR002075 from INTERPRO. The length of the PBP2A N-terminal domain (which positions the transpeptidase active site more than 100A from the expected C terminus of the transmembrane anchor) suggests a possible structural role and potentially gives the transpeptidase domain substantial reach from the cell membrane. This domain seems unlikely to have an enzymatic function.; GO: 0046677 response to antibiotic; PDB: 1MWS_B 1MWT_B 1MWR_A 1MWU_A 1VQQ_A.
Probab=95.72 E-value=0.032 Score=42.07 Aligned_cols=77 Identities=10% Similarity=0.226 Sum_probs=47.6
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCC-CeEEEEEeeec--CCCceEE
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISS-DLQFVIDDISA--EDSSANG 161 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~-dl~~~I~ev~e--gD~~aV~ 161 (179)
.+++++.+|+++|+++|++++-++.+++. +--.+++.+.+.++.+++++.. ++++....+.. ++...+.
T Consensus 2 ~p~~~~~~f~~aw~~~dy~~m~~~~~~~~--------k~~~s~~~~~~~~~~i~~~l~~~~l~v~~~~~~~~~~~~~~~~ 73 (118)
T PF05223_consen 2 SPEETAEAFLEAWEKGDYAAMYELTSDPS--------KSQYSKEDFVERYQNIYEGLGAENLKVEAEKVKKDEDDTATVP 73 (118)
T ss_dssp ---HHHHHHHHHHHTT-HHHHHHTB-HHH--------HHHHHHHHHHTHHHHHHHHHT--EEEEEEEEEEECCTTEEEEE
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHhhchhh--------hccccHHHHHHHHHHHHhhCCccceEEEeccceecCCCceEEE
Confidence 46889999999999999999999888775 1134677888888888887763 34553344433 3323444
Q ss_pred EEEEEEeC
Q 030319 162 KESHFLSA 169 (179)
Q Consensus 162 v~w~lew~ 169 (179)
++..+++.
T Consensus 74 ~~~~~~t~ 81 (118)
T PF05223_consen 74 YTVTMDTP 81 (118)
T ss_dssp EEEEEEET
T ss_pred EEEEEEeC
Confidence 44444443
No 31
>PF11533 DUF3225: Protein of unknown function (DUF3225); InterPro: IPR024507 This family of proteins has no known function.; PDB: 2OWP_A 2RCD_B.
Probab=95.52 E-value=0.12 Score=40.62 Aligned_cols=52 Identities=15% Similarity=0.124 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHH
Q 030319 86 GAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKF 137 (179)
Q Consensus 86 ~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~ 137 (179)
-.+...+|.+|+.++|++.|++||.+|-.--.-+..+.+.|.++|++|-..-
T Consensus 12 v~aaf~~YE~AL~~nDv~~Ld~lFw~~p~TvRyg~~E~LyG~~aI~aFR~~R 63 (125)
T PF11533_consen 12 VTAAFDRYERALMANDVDALDALFWDDPRTVRYGAGENLYGHDAIRAFRAAR 63 (125)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHCB--STT-EEEETTEEEESHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHhhCCHHHHHHHhccCCceEEECCCccccCHHHHHHHHhcC
Confidence 4567889999999999999999999886554445566799999999765554
No 32
>COG4875 Uncharacterized protein conserved in bacteria with a cystatin-like fold [Function unknown]
Probab=94.89 E-value=0.3 Score=38.79 Aligned_cols=57 Identities=19% Similarity=0.186 Sum_probs=41.9
Q ss_pred cHHHHHHHHHHH----HhCCCHHHHHhhhccCceEeeCCCC-CCccCHHHHHHHHHHHHHhcC
Q 030319 85 GGAVVVRRFYAG----INGRDLASVEELIADDCVYEDLIFP-RPFLGRKATLDFFKKFSDSIS 142 (179)
Q Consensus 85 ~~~~vVrrfyeA----~Na~D~dal~eLfApD~v~~dp~~~-~Pi~Greav~~ff~~~~~afp 142 (179)
..++-|...++. +..||.+.+.+.++||+|.- |-+. ++-.-+.+++.||..|+..=|
T Consensus 34 ~t~~~vAaLFdrWN~~L~TGdP~kV~anyApDaVLL-PT~Sn~vR~s~~ei~DYF~~FLk~KP 95 (156)
T COG4875 34 VTEREVAALFDRWNAALTTGDPNKVAANYAPDAVLL-PTMSNQVRSSRSEILDYFSHFLKLKP 95 (156)
T ss_pred ccHHHHHHHHHHHHhhhhcCChHHHHhhcCCceEee-cccccccccCHHHHHHHHHHHhccCC
Confidence 344444455554 55799999999999999987 5554 344578889999999986544
No 33
>PF12870 Lumazine_bd: Lumazine-binding domain; InterPro: IPR024267 This entry represents a lumazine-binding domain found in a family of putative lipoproteins from bacteria. Lumazine is a fluorescent accessory protein having 6,7-dimethyl-8-(1'-D-ribityl) lumazine (DMRL) as its authentic chromophore; it modulates the emission of bacterial luciferase to shorter wavelengths with increasing luminous strength.; PDB: 3K7C_C.
Probab=94.77 E-value=0.11 Score=37.06 Aligned_cols=32 Identities=13% Similarity=0.289 Sum_probs=24.0
Q ss_pred CCcHHHHHHHHHHHHhCCCHHHHHhhhccCce
Q 030319 83 DGGGAVVVRRFYAGINGRDLASVEELIADDCV 114 (179)
Q Consensus 83 ~~~~~~vVrrfyeA~Na~D~dal~eLfApD~v 114 (179)
...+++++..||+|++.||++.+.+++.++..
T Consensus 6 ~~~P~~~v~~f~~al~~gd~~~a~~~~~~~~~ 37 (111)
T PF12870_consen 6 SSTPEEVVKNFFDALKNGDYEKAYAYLSPESR 37 (111)
T ss_dssp ---HHHHHHHHHHHHCTT-HHHHHHTB--TT-
T ss_pred CCCHHHHHHHHHHHHHcCCHHHHHHhhCcccc
Confidence 36789999999999999999999999998855
No 34
>PRK10069 3-phenylpropionate dioxygenase subunit beta; Provisional
Probab=93.39 E-value=0.88 Score=36.92 Aligned_cols=55 Identities=9% Similarity=-0.039 Sum_probs=39.6
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccC--------------------HHHHHHHHHHHHH
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLG--------------------RKATLDFFKKFSD 139 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~G--------------------reav~~ff~~~~~ 139 (179)
...+++-++-.+++.+|++...+||+|||.|.-|..+.+..| ++.+++.+..+..
T Consensus 21 eI~~~l~~eA~lLD~~d~~~Wl~lft~D~~Y~~P~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~L~~Rv~rl~~ 95 (183)
T PRK10069 21 EISQFLYREARLLDEWRYDDWLALLAEDIHYTMPMRTTVNAQRRDRREGVQTPPTMAWFDDNKDQLERRVARLET 95 (183)
T ss_pred HHHHHHHHHHHHhchhhHHHHHHhhccccEEEccccccccccccccccccCCCcccEEEcCCHhHHHHHHHHHhC
Confidence 345566666668999999999999999999985433333443 4667777777653
No 35
>COG3558 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=92.80 E-value=0.019 Score=45.30 Aligned_cols=85 Identities=16% Similarity=0.175 Sum_probs=60.6
Q ss_pred CcHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEee-ecCCCceEEE
Q 030319 84 GGGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDI-SAEDSSANGK 162 (179)
Q Consensus 84 ~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev-~egD~~aV~v 162 (179)
....+-|+---++||++|.+.+.=.|++|-.|.+-. +=++|+|.+.+|+.+-.+.= .+.+. |.++ +-+ +..++|
T Consensus 12 eta~~kvr~aed~wnsrdp~kv~layt~ds~wrnra--ef~~gre~i~~fl~rkw~re-~~yrl-ikelwaf~-gnriav 86 (154)
T COG3558 12 ETAIQKVRMAEDAWNSRDPAKVALAYTEDSFWRNRA--EFFQGREKIQEFLTRKWDRE-LEYRL-IKELWAFT-GNRIAV 86 (154)
T ss_pred HHHHHHHHHhHhccccCChhheeeeeccchhhhhHH--HHHccHHHHHHHHHhhhhHH-HHHHH-HHHHHhhc-CCeEEE
Confidence 456677777778999999999999999999998632 23679999999998765421 11111 2332 222 358999
Q ss_pred EEEEEeCCcee
Q 030319 163 ESHFLSAKVAA 173 (179)
Q Consensus 163 ~w~lew~~~~~ 173 (179)
++.-||.+++.
T Consensus 87 rfayew~dd~g 97 (154)
T COG3558 87 RFAYEWHDDSG 97 (154)
T ss_pred EEeEeeecccc
Confidence 99999998864
No 36
>PF03284 PHZA_PHZB: Phenazine biosynthesis protein A/B; InterPro: IPR004964 The phenazine biosynthesis proteins A and B are involved in the biosynthesis of this antibiotic. Phenazine is a nitrogen-containing heterocyclic molecule with important implications in virulence, competition and biological control.; GO: 0017000 antibiotic biosynthetic process; PDB: 3EX9_A 3JUP_B 3DZL_A 3JUN_A 3JUO_A 3CNM_A 3JUM_B 3JUQ_A 3B4O_A 3B4P_B ....
Probab=90.35 E-value=0.91 Score=36.84 Aligned_cols=81 Identities=16% Similarity=0.053 Sum_probs=54.4
Q ss_pred CcHHHHHHHHHHHHhCCCHHHHHhhhccCceEee----CCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEeee-cCCCc
Q 030319 84 GGGAVVVRRFYAGINGRDLASVEELIADDCVYED----LIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDIS-AEDSS 158 (179)
Q Consensus 84 ~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~d----p~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev~-egD~~ 158 (179)
..|.++|..||. .+..|--.=.+||++|..--. .+.|--++|++.++++.....+-|| |++|.--.+. ..|..
T Consensus 18 ~~NR~~Ve~Ym~-t~g~~RL~Rh~LF~eDG~~glwtTdtG~Piv~~G~~~L~~havwslkcFP-DWeW~nv~ifeT~DP~ 95 (162)
T PF03284_consen 18 RINRATVEQYMN-TKGQDRLRRHELFTEDGCGGLWTTDTGEPIVIRGRDRLAEHAVWSLKCFP-DWEWYNVRIFETQDPN 95 (162)
T ss_dssp HHHHHHHHHHHC---GGGGGGGGGGEEEEEEEEESS-TTSS-EEEESHHHHHHHHHHHHHHST-T-EEEEEEEEEBSSTT
T ss_pred HhhHHHHHHHHH-cCchhhhhhheeeccCCccccccCCCCceEEEEhHHHHHHHHHHHHHHCC-CcEEEEEEeecccCCC
Confidence 567888888876 333343344589999998642 2333336899999999999999997 8888866664 35555
Q ss_pred eEEEEEEE
Q 030319 159 ANGKESHF 166 (179)
Q Consensus 159 aV~v~w~l 166 (179)
.+-|...+
T Consensus 96 ~fwVEcdG 103 (162)
T PF03284_consen 96 HFWVECDG 103 (162)
T ss_dssp EEEEEEEE
T ss_pred EEEEEecC
Confidence 55555444
No 37
>KOG4457 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.18 E-value=5 Score=33.45 Aligned_cols=64 Identities=11% Similarity=0.197 Sum_probs=45.2
Q ss_pred hhhccCceEeeCCCCCCccCHHHHHHHHHHHH---HhcCCCeEEEEEeeec-CCCceEEEEEEEEeCC
Q 030319 107 ELIADDCVYEDLIFPRPFLGRKATLDFFKKFS---DSISSDLQFVIDDISA-EDSSANGKESHFLSAK 170 (179)
Q Consensus 107 eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~---~afp~dl~~~I~ev~e-gD~~aV~v~w~lew~~ 170 (179)
.+|++|++|+|--+....+|++-+..-|.... ..+=..+++++-.++. -|...|..||++.--.
T Consensus 57 S~Ys~dvvf~n~I~~v~t~G~~~y~~~~~~~rtlg~~~~ahv~~EvL~vt~h~d~~Tvr~RWRv~gvs 124 (202)
T KOG4457|consen 57 SFYSKDVVFDNQIFSVETRGIEQYMSHFGMIRTLGQVFLAHVEMEVLSVTPHIDEGTVRCRWRVKGVS 124 (202)
T ss_pred eeecCCeEEeecccceeehhHHHHHHHHHHHHHHHHHhhhheeeEeEeecccCCCceEEEEEEEecce
Confidence 58999999999888877789887765554432 2222367888877652 3446899999987554
No 38
>TIGR03231 anthran_1_2_B anthranilate 1,2-dioxygenase, small subunit. Anthranilate (2-aminobenzoate) is an intermediate of tryptophan (Trp) biosynthesis and degradation. Members of this family are the small subunit of anthranilate 1,2-dioxygenase, which acts in Trp degradation by converting anthranilate to catechol. Closely related paralogs typically are the benzoate 1,2-dioxygenase small subunit, among the larger set of ring-hydroxylating dioxygenases.
Probab=80.94 E-value=2.3 Score=33.91 Aligned_cols=32 Identities=13% Similarity=0.083 Sum_probs=26.7
Q ss_pred HHHHHHHHHHhCCCHHHHHhhhccCceEeeCC
Q 030319 88 VVVRRFYAGINGRDLASVEELIADDCVYEDLI 119 (179)
Q Consensus 88 ~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~ 119 (179)
+.+-++-..+++++++...+||++||.|+-|.
T Consensus 3 ~~l~~ea~llD~~~~~~W~~lf~~d~~Y~vP~ 34 (155)
T TIGR03231 3 QFLYRKAELCDAQDWDAYLDLFDEDSEFHLPQ 34 (155)
T ss_pred hHHHHHHHHhcccCHHHHHHHhCcCceEEeec
Confidence 45556666789999999999999999999654
No 39
>PF11453 DUF2950: Protein of unknown function (DUF2950); InterPro: IPR021556 This is a bacterial family of uncharacterised proteins.
Probab=76.88 E-value=7.6 Score=34.23 Aligned_cols=53 Identities=8% Similarity=0.154 Sum_probs=43.7
Q ss_pred CcHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHH
Q 030319 84 GGGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSD 139 (179)
Q Consensus 84 ~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~ 139 (179)
.++++.+..|.+|+..+|.++|.++|.+|..-- ..++. .+++.+.+|++....
T Consensus 5 ~tPe~Aa~Al~~Av~~~d~~aL~~vLG~~~~~~--vp~~~-~d~~~~~~Fl~~w~~ 57 (271)
T PF11453_consen 5 PTPEAAADALVDAVATNDEDALAKVLGPDWRDL--VPSGG-ADREDRYRFLRAWAE 57 (271)
T ss_pred CCHHHHHHHHHHHHhcCCHHHHHHHhCccHHhc--cCCCC-ccHHHHHHHHHHHHh
Confidence 568999999999999999999999999995533 22322 579999999998864
No 40
>PLN02382 probable sucrose-phosphatase
Probab=74.31 E-value=27 Score=32.00 Aligned_cols=58 Identities=10% Similarity=0.138 Sum_probs=45.5
Q ss_pred HHHHHHhCCC-------HHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCC--eEEEEEee
Q 030319 92 RFYAGINGRD-------LASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSD--LQFVIDDI 152 (179)
Q Consensus 92 rfyeA~Na~D-------~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~d--l~~~I~ev 152 (179)
.+|+.|-+++ ++.+.+.|+|++++--|. + ....++++.+.|+...+.-| + +++.|+++
T Consensus 292 ~~~e~W~~~~~~~~~~~~~~l~~~~~p~~~~v~p~-G-~~~~~~~~~~~~~~~~G~~~-g~~~~i~vd~~ 358 (413)
T PLN02382 292 LFYEKWRRGEVENSDEVFQRLKSSCAPNGVFVHPS-G-VEKSLHDSIDELRSCYGDKK-GKKFRVWVDRV 358 (413)
T ss_pred HHHHHHhcCCCCCcHHHHHHHHHhcCCCeeEECCC-c-ccCCHHHHHHHHHHhhCCCC-CCEEEEEEeeE
Confidence 4556786655 788999999999997554 3 35688999999999998765 6 88888774
No 41
>COG4460 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=73.99 E-value=11 Score=29.41 Aligned_cols=61 Identities=20% Similarity=0.258 Sum_probs=46.3
Q ss_pred HHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHHHhcCCCeEEEEEee
Q 030319 89 VVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFSDSISSDLQFVIDDI 152 (179)
Q Consensus 89 vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~~afp~dl~~~I~ev 152 (179)
.+.+|+.+=.++-+|++..-|++|...-.|. + -+-.++++.++|+.-... .+++.+.|+++
T Consensus 15 ai~dWl~~~~adtldal~arfaedftMitP~-G-viLD~~Alg~~frs~rac-rpGl~I~ie~i 75 (130)
T COG4460 15 AIVDWLVAARADTLDALRARFAEDFTMITPS-G-VILDRDALGDHFRSSRAC-RPGLAISIEDI 75 (130)
T ss_pred HHHHHHHhcccccHHHHHHHHhcCceEecCC-c-eEeccHHHHHHHHhccCC-CCCeEEEEecc
Confidence 3445555445667889998999999987553 3 377999999999998764 45899999885
No 42
>TIGR03232 benzo_1_2_benB benzoate 1,2-dioxygenase, small subunit. Benzoate 1,2-dioxygenase (EC 1.14.12.10) belongs to the larger family of aromatic ring-hydroxylating dioxygenases. Members of this family should all act on benzoate, but several have additional known activities on various benozate analogs. Some members actually may be named more suitably according to such alternate an activity, such as 2-chlorobenzoate 1,2-dioxygenase (1.14.12.13).
Probab=63.98 E-value=5.8 Score=31.64 Aligned_cols=24 Identities=8% Similarity=-0.060 Sum_probs=21.5
Q ss_pred HHhCCCHHHHHhhhccCceEeeCC
Q 030319 96 GINGRDLASVEELIADDCVYEDLI 119 (179)
Q Consensus 96 A~Na~D~dal~eLfApD~v~~dp~ 119 (179)
.++.++++.-.+||++||.|+-|.
T Consensus 11 LLD~~~~~eWl~L~~eD~~Y~vP~ 34 (155)
T TIGR03232 11 LLDDEQWDDWLECYRADASFWMPA 34 (155)
T ss_pred HhhhhhHHHHHHhcccCeEEEEEe
Confidence 479999999999999999998665
No 43
>PF06020 Roughex: Drosophila roughex protein; InterPro: IPR009259 This family consists of several roughex (RUX) proteins specific to Drosophila species. Roughex can influence the intracellular distribution of cyclin A and is therefore defined as a distinct and specialised cell cycle inhibitor for cyclin A-dependent kinase activity []. Rux is though to regulate the metaphase to anaphase transition during development [].
Probab=58.91 E-value=8.4 Score=34.54 Aligned_cols=51 Identities=22% Similarity=0.468 Sum_probs=41.8
Q ss_pred CCcHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHHH
Q 030319 83 DGGGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKFS 138 (179)
Q Consensus 83 ~~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~~ 138 (179)
+..+.++|++|+..++.|.+ ..=+++||++. -|+.-++|..+|..|++..+
T Consensus 8 ~~tp~evi~~Fi~~vddG~i---RrdLaeDCILS--~~gR~VrGa~AVTGflRtQl 58 (334)
T PF06020_consen 8 KETPSEVIHEFIQGVDDGTI---RRDLAEDCILS--FYGRNVRGAKAVTGFLRTQL 58 (334)
T ss_pred ccCHHHHHHHHHhhcCcccH---hhhhhhhHhHH--HhccccccchhhHHHHHHHH
Confidence 47899999999999988765 45678999976 35667999999999998764
No 44
>PRK13316 heme-degrading monooxygenase IsdG; Provisional
Probab=54.48 E-value=24 Score=27.55 Aligned_cols=42 Identities=17% Similarity=0.025 Sum_probs=27.5
Q ss_pred HHHhcCCCeEEEEEeeecCCCceEEEEEEEEeCCceeeeecc
Q 030319 137 FSDSISSDLQFVIDDISAEDSSANGKESHFLSAKVAAFINWR 178 (179)
Q Consensus 137 ~~~afp~dl~~~I~ev~egD~~aV~v~w~lew~~~~~~~~~~ 178 (179)
..+.++.=+.|.+-....++.....+..+..|.+.++|.+|.
T Consensus 34 ~ie~~pGFv~f~lL~~~~~~~~~~e~~V~T~WeSeeaF~aW~ 75 (121)
T PRK13316 34 DIAEVEGFLGFELWHSKPEDKDYEEVVVTSKWESEEAQRNWV 75 (121)
T ss_pred chhcCCCceEEEEeeccCCCCCceEEEEEEEECCHHHHHHHh
Confidence 456666556777655332222344556689999999999995
No 45
>KOG4353 consensus RNA export factor NXT1 [RNA processing and modification]
Probab=53.48 E-value=32 Score=27.41 Aligned_cols=50 Identities=18% Similarity=0.341 Sum_probs=38.6
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHH
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKF 137 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~ 137 (179)
..++.++.||+.+..+ =.+|..||-+....-.- +.|+.|.|.+-.||.++
T Consensus 15 ~A~eFv~~YY~smD~r-R~~i~rlY~~~atlvWN--Gn~v~g~esls~ff~~L 64 (139)
T KOG4353|consen 15 AAEEFVNVYYSSMDKR-RRGIGRLYLDNATLVWN--GNPVSGTESLSEFFNML 64 (139)
T ss_pred HHHHHHHHHHHHHHHH-HHHhHHHhhccceEEEc--CCcchhHHHHHHHHHhC
Confidence 4678899999999543 46788999998876533 56799999888888765
No 46
>PF00866 Ring_hydroxyl_B: Ring hydroxylating beta subunit; InterPro: IPR000391 The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the substrate by nonhaem iron-containing dioxygenases. These enzymes consist of two or three soluble proteins that interact to form an electron-transport chain that transfers electrons from reduced nucleotides (NADH) via flavin and [2Fe-2S] redox centres to a terminal dioxygenase []. Aromatic-ring-hydroxylating dioxygenases oxidise aromatic hydrocarbons and related compounds to cis-arene diols. These enzymes utilise a mononuclear non-haem iron centre to catalyse the addition of dioxygen to their respective substrates. Naphthalene 1,2-dioxygenase (NDO) from Pseudomonas sp. NCIB9816-4 has a domain structure and iron coordination of the Rieske domain is very similar to that of the cytochrome bc1 domain. The active-site iron centre of one of the alpha subunits is directly connected by hydrogen bonds through a single amino acid, Asp205, to the Rieske [2Fe-2S] centre in a neighbouring alpha subunit. This may be the main route for electron transfer [].; GO: 0003824 catalytic activity, 0006725 cellular aromatic compound metabolic process, 0055114 oxidation-reduction process; PDB: 1ULJ_B 1ULI_D 1WQL_B 2GBX_D 2GBW_B 2XSH_D 2XR8_X 2XRX_V 2YFL_B 2YFJ_J ....
Probab=51.96 E-value=9.5 Score=29.75 Aligned_cols=43 Identities=19% Similarity=0.162 Sum_probs=31.0
Q ss_pred HHhCCCHHHHHhhhccCceEeeCCCCC-------C--------ccCHHHHHHHHHHHH
Q 030319 96 GINGRDLASVEELIADDCVYEDLIFPR-------P--------FLGRKATLDFFKKFS 138 (179)
Q Consensus 96 A~Na~D~dal~eLfApD~v~~dp~~~~-------P--------i~Greav~~ff~~~~ 138 (179)
.++.++++.-.+||++||.|.-|.... | ..++..++.-...+.
T Consensus 5 lLD~~~~~eWl~l~~~D~~Y~vp~~~~~~~~~~~~~~~~~~~~~d~~~~L~~RV~rl~ 62 (145)
T PF00866_consen 5 LLDERRYDEWLALFTEDCHYWVPARENRDRRDRDPGSEEMLIFDDDRGMLEDRVERLR 62 (145)
T ss_dssp HHHTT-HHHHHHTEEEEEEEEEEEBGGC-TTGGGGSBTSEEEEEESHHHHHHHHHHHH
T ss_pred HhhhhHHHHHHHHhccCeEEEEEeccCccccccCCCCceEEEEeCCHhHHHHHHHHHh
Confidence 578999999999999999998654321 1 147777777666664
No 47
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=47.05 E-value=1.2e+02 Score=28.24 Aligned_cols=87 Identities=13% Similarity=0.101 Sum_probs=65.9
Q ss_pred CCCcHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCC---CccCHHHHHHHHHHHHHhcCCCeEEEEEeee----c
Q 030319 82 DDGGGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPR---PFLGRKATLDFFKKFSDSISSDLQFVIDDIS----A 154 (179)
Q Consensus 82 ~~~~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~---Pi~Greav~~ff~~~~~afp~dl~~~I~ev~----e 154 (179)
.+....+.|+.||..| ....+.|..+|.+|-.+..|...+ -+.|.++|-..+-.+ .+. .++++|..+. -
T Consensus 13 ~~~vg~~Fv~qYY~~L-~~~P~~lhrfY~~~S~ltr~~~dg~m~s~t~~~~I~~~i~sl--d~~-~~s~eI~tvdsQ~S~ 88 (419)
T KOG0116|consen 13 PQLVGNEFVRQYYNVL-QNSPSKLHRFYMDDSVLTRPGLDGKMVSVTGLEAIHEKIMSL--DYE-VCSVEISTVDSQASL 88 (419)
T ss_pred HHHHHHHHHHHHHHHH-hhChHHHHHHhhccceeeccCCCCceEEEecHHHhhhheeec--CCC-ceeEEEEEEehhhhc
Confidence 3467788999999988 467899999999999998777643 357888886555444 233 5688887763 3
Q ss_pred CCCceEEEEEEEEeCCce
Q 030319 155 EDSSANGKESHFLSAKVA 172 (179)
Q Consensus 155 gD~~aV~v~w~lew~~~~ 172 (179)
+++..|.|+..|.|++..
T Consensus 89 ~~GvvI~VtG~lt~~~~~ 106 (419)
T KOG0116|consen 89 EKGVVIMVTGYLTNKDGP 106 (419)
T ss_pred cCCeEEEEEEEEEeCCCc
Confidence 567899999999999875
No 48
>PF15063 TC1: Thyroid cancer protein 1
Probab=39.00 E-value=17 Score=26.41 Aligned_cols=17 Identities=47% Similarity=0.548 Sum_probs=14.6
Q ss_pred ccccccCCccccCCCCC
Q 030319 3 MTSSISSSSLRTSPSSL 19 (179)
Q Consensus 3 ~~~~~~~~~~~~~~~~~ 19 (179)
|++.+++.|+|.+||..
T Consensus 1 ~~~~~~~~S~~v~Ps~~ 17 (79)
T PF15063_consen 1 MSSYATSASVRVSPSVH 17 (79)
T ss_pred CCCccCCcceeccCCCC
Confidence 78889999999998764
No 49
>PF04280 Tim44: Tim44-like domain; InterPro: IPR007379 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane []. Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region [].; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0005744 mitochondrial inner membrane presequence translocase complex; PDB: 2CW9_A 2FXT_A 3QK9_A.
Probab=37.96 E-value=19 Score=27.33 Aligned_cols=30 Identities=10% Similarity=0.133 Sum_probs=23.2
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCce
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCV 114 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v 114 (179)
..+++.....+||..+|.+.|..++++++-
T Consensus 23 ~ak~~f~~i~~A~~~~D~~~l~~~~t~~~~ 52 (147)
T PF04280_consen 23 EAKEAFLPIQEAWAKGDLEALRPLLTEELY 52 (147)
T ss_dssp HHHHTHHHHHHHHHHT-HHHHHHHB-HHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHhCHHHH
Confidence 356777778889999999999999998754
No 50
>COG5517 Small subunit of phenylpropionate dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=37.73 E-value=42 Score=27.57 Aligned_cols=25 Identities=12% Similarity=0.025 Sum_probs=22.6
Q ss_pred HHHhCCCHHHHHhhhccCceEeeCC
Q 030319 95 AGINGRDLASVEELIADDCVYEDLI 119 (179)
Q Consensus 95 eA~Na~D~dal~eLfApD~v~~dp~ 119 (179)
+++..+|+++-.++|.++|.|+-|+
T Consensus 19 ~llDd~dwd~Wla~f~e~~~y~m~~ 43 (164)
T COG5517 19 ELLDDRDWDAWLAQFDEQAEYWMPP 43 (164)
T ss_pred HHhccccHHHHHHHHHhhheEeCCc
Confidence 3579999999999999999999776
No 51
>KOG2104 consensus Nuclear transport factor 2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.77 E-value=2.7e+02 Score=21.95 Aligned_cols=79 Identities=14% Similarity=0.177 Sum_probs=48.7
Q ss_pred cHHHHHHHHHHHHhCCCHHHHHhhhccCceEeeCCCCCCccCHHHHHHHHHHH-HHhcCCCeEEEE---Ee-eecCCCce
Q 030319 85 GGAVVVRRFYAGINGRDLASVEELIADDCVYEDLIFPRPFLGRKATLDFFKKF-SDSISSDLQFVI---DD-ISAEDSSA 159 (179)
Q Consensus 85 ~~~~vVrrfyeA~Na~D~dal~eLfApD~v~~dp~~~~Pi~Greav~~ff~~~-~~afp~dl~~~I---~e-v~egD~~a 159 (179)
..++.+..||.-|. .|-..+.+||-+.-...-- +..+.|++++.+=+..+ ++.. +..| +. +...++.-
T Consensus 9 v~~~FvqhYY~~FD-~dR~ql~~lY~~~S~LTfE--Gqq~qG~~~IveKl~sLpFqki----qh~IttvD~QPt~~g~il 81 (126)
T KOG2104|consen 9 VAKAFVQHYYSLFD-NDRSQLGALYIDTSMLTFE--GQQIQGKDAIVEKLTSLPFQKI----QHSITTVDSQPTPDGGIL 81 (126)
T ss_pred HHHHHHHHHHHHhc-CchhHhhhhhcccceeeEc--chhhcchHHHHHHHhcCChhhh----hceeeecccccCCCCcEE
Confidence 46788999999997 6667799999887332211 34589999988777655 3332 3222 22 33333455
Q ss_pred EEEEEEEEeCC
Q 030319 160 NGKESHFLSAK 170 (179)
Q Consensus 160 V~v~w~lew~~ 170 (179)
|-|...+...+
T Consensus 82 v~V~G~Lk~dE 92 (126)
T KOG2104|consen 82 VMVVGQLKLDE 92 (126)
T ss_pred EEEeeeeeecc
Confidence 55555555543
No 52
>PRK13613 lipoprotein LpqB; Provisional
Probab=29.93 E-value=59 Score=31.57 Aligned_cols=33 Identities=15% Similarity=0.321 Sum_probs=28.3
Q ss_pred CCcHHHHHHHHHHHHh--CCCHHHHHhhhccCceE
Q 030319 83 DGGGAVVVRRFYAGIN--GRDLASVEELIADDCVY 115 (179)
Q Consensus 83 ~~~~~~vVrrfyeA~N--a~D~dal~eLfApD~v~ 115 (179)
...+.++|+.|++|.. .+|++.+.+++++++.-
T Consensus 59 ga~P~~iVrgFl~A~a~~~~dy~~AR~yLT~~aa~ 93 (599)
T PRK13613 59 GAAPAEIVQGFLEALTSFDPDYETARKYLTGDAAK 93 (599)
T ss_pred CCCHHHHHHHHHHhccCCcccHHHHHHHcCHhHHc
Confidence 3569999999999873 56999999999999954
No 53
>PRK13315 heme-degrading monooxygenase IsdG; Provisional
Probab=27.95 E-value=69 Score=24.23 Aligned_cols=40 Identities=13% Similarity=0.143 Sum_probs=24.4
Q ss_pred HHhcCCCeEEEEEeeecCCCceEEEEEEEEeCCceeeeecc
Q 030319 138 SDSISSDLQFVIDDISAEDSSANGKESHFLSAKVAAFINWR 178 (179)
Q Consensus 138 ~~afp~dl~~~I~ev~egD~~aV~v~w~lew~~~~~~~~~~ 178 (179)
.+.+|.=+.+.+-....++ ..-.+..+..|.+.++|.+|+
T Consensus 28 le~~pGFv~~~lLr~~~~~-~~~~~~v~T~Wes~eaF~aW~ 67 (107)
T PRK13315 28 LEELEGFHKVEVWLIDNDD-EYDEMYVNMWWETEEDFEAWR 67 (107)
T ss_pred ccCCCCeEEEEEeccCCCC-CCceEEEEEEECCHHHHHHHh
Confidence 3455544566665543322 122333378999999999996
No 54
>PRK13616 lipoprotein LpqB; Provisional
Probab=26.13 E-value=73 Score=30.78 Aligned_cols=33 Identities=6% Similarity=0.168 Sum_probs=28.2
Q ss_pred CCcHHHHHHHHHHHH--hCCCHHHHHhhhccCceE
Q 030319 83 DGGGAVVVRRFYAGI--NGRDLASVEELIADDCVY 115 (179)
Q Consensus 83 ~~~~~~vVrrfyeA~--Na~D~dal~eLfApD~v~ 115 (179)
...+.++|+.|++|. -.+|++.+.+++++++.-
T Consensus 53 ga~p~~iVrgFl~A~a~p~~~y~~AR~fLt~~aa~ 87 (591)
T PRK13616 53 GMDPDLLLRDFLKASADPANRHLAARQFLTESASN 87 (591)
T ss_pred CCCHHHHHHHHHHhccCCcchHHHHHHhcCHHHHc
Confidence 466999999999985 357899999999999844
No 55
>PRK13615 lipoprotein LpqB; Provisional
Probab=25.08 E-value=82 Score=30.43 Aligned_cols=33 Identities=12% Similarity=0.248 Sum_probs=28.4
Q ss_pred CCcHHHHHHHHHHHH--hCCCHHHHHhhhccCceE
Q 030319 83 DGGGAVVVRRFYAGI--NGRDLASVEELIADDCVY 115 (179)
Q Consensus 83 ~~~~~~vVrrfyeA~--Na~D~dal~eLfApD~v~ 115 (179)
...+.++|+.||+|. -.+|++.+.+++++++.-
T Consensus 50 ga~Pd~iVrgFl~A~a~p~~dy~~AR~fLT~~Aa~ 84 (557)
T PRK13615 50 GDGPDDVIAGFVDAATSSADQYGVARQFLSSDFAS 84 (557)
T ss_pred CCCHHHHHHHHHHhccCCCccHHHHHHHcChhHHc
Confidence 366999999999986 367999999999999844
No 56
>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.
Probab=21.36 E-value=1e+02 Score=24.70 Aligned_cols=31 Identities=13% Similarity=0.281 Sum_probs=19.7
Q ss_pred ccCceEeeCCCCCCccCHHHHHHHHHHHHHh
Q 030319 110 ADDCVYEDLIFPRPFLGRKATLDFFKKFSDS 140 (179)
Q Consensus 110 ApD~v~~dp~~~~Pi~Greav~~ff~~~~~a 140 (179)
..|.+..|||++..+..++....++..+.+.
T Consensus 106 ~~d~IvtnPPyG~r~~~~~~~~~ly~~~~~~ 136 (179)
T PF01170_consen 106 SVDAIVTNPPYGRRLGSKKDLEKLYRQFLRE 136 (179)
T ss_dssp BSCEEEEE--STTSHCHHHHHHHHHHHHHHH
T ss_pred CCCEEEECcchhhhccCHHHHHHHHHHHHHH
Confidence 5689999999997664445566666666543
No 57
>PRK13614 lipoprotein LpqB; Provisional
Probab=21.34 E-value=1.1e+02 Score=29.57 Aligned_cols=33 Identities=18% Similarity=0.274 Sum_probs=28.3
Q ss_pred CCcHHHHHHHHHHHH--hCCCHHHHHhhhccCceE
Q 030319 83 DGGGAVVVRRFYAGI--NGRDLASVEELIADDCVY 115 (179)
Q Consensus 83 ~~~~~~vVrrfyeA~--Na~D~dal~eLfApD~v~ 115 (179)
...+.++|+.||+|. -..|++.+.+++++++.-
T Consensus 59 ga~p~~iVrgFl~A~a~~~~~y~~AR~fLT~~aa~ 93 (573)
T PRK13614 59 GASPETVIEGFYAAGSGYEDDYAVARQYLTQAAAT 93 (573)
T ss_pred CCCHHHHHHHHHHhccCCcccHHHHHHHcChHHHh
Confidence 356999999999986 366999999999999854
Done!