Query 023448
Match_columns 282
No_of_seqs 163 out of 239
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 04:05:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023448.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023448hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02096 conserved hypothetic 99.7 1.1E-15 2.5E-20 122.1 12.6 108 82-195 2-120 (129)
2 PF12680 SnoaL_2: SnoaL-like d 99.7 4.5E-16 9.8E-21 116.5 9.5 96 84-186 1-100 (102)
3 cd00781 ketosteroid_isomerase 99.6 4.7E-15 1E-19 118.0 10.0 106 77-186 2-109 (122)
4 PF07366 SnoaL: SnoaL-like pol 99.6 6.2E-15 1.3E-19 118.6 10.0 105 83-193 3-119 (126)
5 PRK08241 RNA polymerase factor 99.4 2.7E-12 5.8E-17 120.2 14.0 116 73-196 209-325 (339)
6 TIGR02960 SigX5 RNA polymerase 99.3 2.8E-11 6E-16 112.2 12.1 113 75-196 201-315 (324)
7 PF07858 LEH: Limonene-1,2-epo 98.9 1.2E-08 2.6E-13 85.8 8.9 108 79-195 2-115 (125)
8 TIGR02246 conserved hypothetic 98.9 1.1E-07 2.5E-12 75.1 13.9 68 79-147 5-74 (128)
9 PRK09636 RNA polymerase sigma 98.8 8E-08 1.7E-12 89.0 11.5 106 77-194 170-281 (293)
10 COG3631 Ketosteroid isomerase- 98.6 4.2E-07 9.2E-12 77.0 11.2 115 77-198 3-125 (133)
11 PF13474 SnoaL_3: SnoaL-like d 98.6 7.2E-07 1.6E-11 69.5 10.1 107 81-190 2-114 (121)
12 cd00531 NTF2_like Nuclear tran 98.5 2.3E-06 5E-11 64.9 11.7 106 81-187 2-116 (124)
13 COG4319 Ketosteroid isomerase 98.4 5.5E-06 1.2E-10 70.9 12.5 104 79-183 11-121 (137)
14 TIGR02957 SigX4 RNA polymerase 98.2 1.6E-05 3.4E-10 73.6 12.6 66 79-144 165-236 (281)
15 PF14534 DUF4440: Domain of un 98.2 1E-05 2.2E-10 61.2 8.2 81 81-165 2-84 (107)
16 PF13577 SnoaL_4: SnoaL-like d 98.0 6.7E-05 1.5E-09 59.1 10.7 84 80-163 9-93 (127)
17 COG4922 Uncharacterized protei 97.9 8.3E-05 1.8E-09 62.3 9.7 98 79-186 6-107 (129)
18 PF10184 DUF2358: Uncharacteri 97.9 0.00016 3.5E-09 59.0 10.0 88 93-186 16-111 (113)
19 PRK09635 sigI RNA polymerase s 97.8 0.00023 5E-09 66.8 11.4 63 79-143 175-238 (290)
20 COG4538 Uncharacterized conser 97.6 0.0009 1.9E-08 54.8 10.6 101 79-186 4-105 (112)
21 COG5485 Predicted ester cyclas 97.5 0.00086 1.9E-08 56.8 9.7 96 82-186 10-115 (131)
22 PF02136 NTF2: Nuclear transpo 97.5 0.00067 1.5E-08 53.8 8.3 83 80-165 2-90 (118)
23 COG4308 LimA Limonene-1,2-epox 97.4 0.00033 7.2E-09 59.1 6.1 110 79-195 7-118 (130)
24 PF08332 CaMKII_AD: Calcium/ca 97.2 0.0031 6.7E-08 53.3 9.8 65 81-145 6-71 (128)
25 PF07080 DUF1348: Protein of u 97.1 0.0076 1.6E-07 51.9 10.5 106 79-189 11-118 (143)
26 PF05223 MecA_N: NTF2-like N-t 96.3 0.022 4.9E-07 46.4 8.0 77 79-163 2-79 (118)
27 COG4875 Uncharacterized protei 95.8 0.096 2.1E-06 45.0 9.6 58 79-136 38-95 (156)
28 PF12893 Lumazine_bd_2: Putati 95.8 0.12 2.7E-06 41.3 9.8 102 80-187 6-110 (116)
29 cd00667 ring_hydroxylating_dio 95.0 0.67 1.4E-05 39.0 12.3 81 80-160 6-109 (160)
30 cd00780 NTF2 Nuclear transport 94.5 1.6 3.4E-05 35.1 12.8 61 80-145 6-66 (119)
31 COG3558 Uncharacterized protei 92.2 0.033 7.2E-07 47.6 -0.6 88 73-164 4-94 (154)
32 PF12870 Lumazine_bd: Lumazine 91.8 0.62 1.3E-05 35.6 6.2 31 78-108 7-37 (111)
33 PRK10069 3-phenylpropionate di 91.4 6.7 0.00015 34.4 13.1 55 79-133 21-95 (183)
34 PF03284 PHZA_PHZB: Phenazine 87.9 6.3 0.00014 34.8 9.8 114 79-198 19-143 (162)
35 PF11533 DUF3225: Protein of u 87.6 3.7 8E-05 35.0 8.0 68 80-148 12-79 (125)
36 PF11453 DUF2950: Protein of u 79.0 5.1 0.00011 38.2 6.1 52 79-133 6-57 (271)
37 KOG4457 Uncharacterized conser 78.7 9.4 0.0002 34.5 7.3 85 101-186 57-162 (202)
38 TIGR03231 anthran_1_2_B anthra 76.5 49 0.0011 28.5 12.0 105 82-187 3-134 (155)
39 PF14975 DUF4512: Domain of un 59.6 8.8 0.00019 30.9 2.6 26 229-254 4-29 (88)
40 PLN02382 probable sucrose-phos 58.9 1E+02 0.0022 30.6 10.6 64 80-146 284-358 (413)
41 PF08869 XisI: XisI protein; 57.5 80 0.0017 26.4 8.1 68 122-195 9-76 (111)
42 PF06020 Roughex: Drosophila r 56.6 9 0.0002 37.2 2.6 51 75-130 6-56 (334)
43 PF07217 Het-C: Heterokaryon i 56.6 22 0.00048 37.4 5.6 51 204-258 385-435 (606)
44 PHA00099 minor capsid protein 44.5 27 0.00059 30.3 3.4 35 204-238 66-101 (147)
45 TIGR03232 benzo_1_2_benB benzo 44.0 2.1E+02 0.0046 24.6 10.7 98 90-187 11-134 (155)
46 TIGR02763 chlamy_scaf chlamydi 41.2 42 0.00091 28.1 3.9 34 205-238 37-71 (114)
47 PF05499 DMAP1: DNA methyltran 41.1 24 0.00051 31.8 2.7 59 15-90 78-136 (176)
48 KOG0116 RasGAP SH3 binding pro 40.5 1.7E+02 0.0037 29.7 8.8 106 80-194 17-137 (419)
49 PF12971 NAGLU_N: Alpha-N-acet 40.3 75 0.0016 24.8 5.1 18 171-188 29-47 (86)
50 PF04280 Tim44: Tim44-like dom 37.8 17 0.00038 29.8 1.2 29 80-108 24-52 (147)
51 COG4460 Uncharacterized protei 37.4 78 0.0017 27.0 5.0 53 93-148 25-77 (130)
52 PF09675 Chlamy_scaf: Chlamydi 32.0 76 0.0016 26.8 4.1 34 204-237 36-70 (114)
53 PF05120 GvpG: Gas vesicle pro 31.4 98 0.0021 24.3 4.4 38 207-244 8-45 (79)
54 PF08989 DUF1896: Domain of un 30.6 30 0.00065 30.3 1.6 41 197-243 91-131 (144)
55 KOG0670 U4/U6-associated splic 30.2 42 0.00091 35.6 2.8 36 171-220 621-656 (752)
56 PF06847 Arc_PepC_II: Archaeal 27.5 34 0.00074 27.5 1.3 13 246-258 74-86 (93)
57 PF02197 RIIa: Regulatory subu 23.6 87 0.0019 21.0 2.5 31 212-244 4-34 (38)
58 KOG4353 RNA export factor NXT1 21.8 1.3E+02 0.0028 26.2 3.8 50 79-131 15-64 (139)
59 PF04971 Lysis_S: Lysis protei 21.5 1E+02 0.0023 23.8 2.9 24 259-282 33-56 (68)
60 cd07959 Anticodon_Ia_Leu_AEc A 21.4 2.2E+02 0.0047 21.9 4.8 23 232-255 90-112 (117)
No 1
>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=99.67 E-value=1.1e-15 Score=122.06 Aligned_cols=108 Identities=14% Similarity=0.328 Sum_probs=91.2
Q ss_pred HHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEEEEEEE
Q 023448 82 NTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGINWHLE 161 (282)
Q Consensus 82 eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVavrW~lE 161 (282)
+++++||++||++|++++.++++||++|+++..+.+..|+++++++++.+.+.+| ++++++.++..++++.+++.|+++
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 6899999999999999999999999999998887788899999999999999997 799999987766666899999886
Q ss_pred Ec-----------CccccCCCceEEEEEeecCceEEEEEeeeecc
Q 023448 162 WK-----------GKQVPFTRGCSFYECSLEGETLLIKKARVVIE 195 (282)
Q Consensus 162 W~-----------G~~lP~tRGcSFyri~~~~GKIvI~y~rd~~E 195 (282)
.+ |+++. .+|+++|+++ +|||+ ..+++.+
T Consensus 81 g~~~g~~~g~~~~g~~~~-~~~~~~~~~~--~gkI~--~~~~y~D 120 (129)
T TIGR02096 81 GTYRTAFLGLPASGKTYS-IRGVTFFVFD--DGKIK--RETTYYN 120 (129)
T ss_pred eeeccccCCCCCCCCEEE-eeeeEEEEEe--CCEEE--EEEEEec
Confidence 43 33332 3899999996 79987 5555554
No 2
>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=99.66 E-value=4.5e-16 Score=116.47 Aligned_cols=96 Identities=22% Similarity=0.597 Sum_probs=85.0
Q ss_pred HHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEEEEEEEE-
Q 023448 84 IREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGINWHLEW- 162 (282)
Q Consensus 84 VrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVavrW~lEW- 162 (282)
|++|++|||++|.+++.++++||++++++ ..+..|+++++++++.+.+.++ +.++++.++. .+|+.+.++|+.+.
T Consensus 1 V~~~~~a~~~~d~~~i~~~~~~d~~~~~~--~~~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~-~~gd~v~~~~~~~~~ 76 (102)
T PF12680_consen 1 VRRFFEAWNAGDLDAIAALFAPDAVFHDP--GGTLRGREAIREFFEEFFESFP-DIRFEIHDIF-ADGDRVVVEWTVTGT 76 (102)
T ss_dssp HHHHHHHHHTTHHHHHHHTEEEEEEEEET--TSEEESHHHHHHHHHHHHHHEE-EEEEEEEEEE-EETTEEEEEEEEEEE
T ss_pred CHHHHHHHHcCCHHHHHHHcCCCEEEEeC--CCcccCHHHHHHHHHHHHhcCC-ceEEEEEEEE-EcCCEEEEEEEEEEE
Confidence 68999999999999999999999999988 3458999999999999999887 8999999976 46789999999986
Q ss_pred ---cCccccCCCceEEEEEeecCceEE
Q 023448 163 ---KGKQVPFTRGCSFYECSLEGETLL 186 (282)
Q Consensus 163 ---~G~~lP~tRGcSFyri~~~~GKIv 186 (282)
+|+++.+ +||++|++ +||||+
T Consensus 77 ~~~~g~~~~~-~~~~~~~~--~dgkI~ 100 (102)
T PF12680_consen 77 TPPTGQPISF-RGCSVFRF--EDGKIV 100 (102)
T ss_dssp ETTTSCEEEE-EEEEEEEE--ETTEEE
T ss_pred EcCCCCEEEE-EEEEEEEE--ECCEEE
Confidence 5666664 99999999 469987
No 3
>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=99.60 E-value=4.7e-15 Score=117.97 Aligned_cols=106 Identities=15% Similarity=0.284 Sum_probs=84.7
Q ss_pred CCCHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEE
Q 023448 77 PFSASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGI 156 (282)
Q Consensus 77 ~~sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVav 156 (282)
++..++++++|+++||++|++++.+|++||++++++..++|+.|++++++++..+.++.+ ++++....... +|+.+++
T Consensus 2 ~~~~~~~v~~~~~a~~~~D~~~~~~l~aed~~~~~p~~~~~~~G~~~i~~~~~~~~~~~~-~~~~~~~~~~~-~g~~~~~ 79 (122)
T cd00781 2 PQEMKAAVQRYVEAVNAGDPEGIVALFADDATVEDPVGSPPRSGRAAIAAFYAQSLGGAK-RLELTGPVRAS-HGGEAAF 79 (122)
T ss_pred cHHHHHHHHHHHHHHHCCCHHHHHHHcCCCeEEeCCCCCCCccCHHHHHHHHHHHhccCc-eEEecCceeee-cCCEEEE
Confidence 457889999999999999999999999999999998777789999999999999987654 67776655433 3345555
Q ss_pred EE--EEEEcCccccCCCceEEEEEeecCceEE
Q 023448 157 NW--HLEWKGKQVPFTRGCSFYECSLEGETLL 186 (282)
Q Consensus 157 rW--~lEW~G~~lP~tRGcSFyri~~~~GKIv 186 (282)
.| +...+|+++.+ +|+++|++++ +|||+
T Consensus 80 ~~~~~~~~~g~~~~~-~~~~v~~~~~-dGkI~ 109 (122)
T cd00781 80 AFRVEFEWEGQPCVV-RVIDVMRFDA-DGRIV 109 (122)
T ss_pred EEEEEEEeCCceEEE-EEEEEEEECC-CccCh
Confidence 55 45666766543 7999999963 58987
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=99.60 E-value=6.2e-15 Score=118.63 Aligned_cols=105 Identities=20% Similarity=0.333 Sum_probs=84.8
Q ss_pred HHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEEEEEEEE
Q 023448 83 TIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGINWHLEW 162 (282)
Q Consensus 83 VVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVavrW~lEW 162 (282)
+.+.|.++||++|.+.+.++++||++++++.. ++..|+++++++++.++++|| |++++++++.. +|+.|+++|+++.
T Consensus 3 v~~~~~~~~n~~d~~~~~~~~~~d~~~~~~~~-~~~~G~~~~~~~~~~~~~afP-D~~~~i~~~~~-~gd~v~~~~~~~G 79 (126)
T PF07366_consen 3 VRRFYEEVWNRGDLDALDELVAPDVVFHDPGP-GPPVGREGFKEFLKELRAAFP-DLRFEIEDVVA-EGDRVAVRWTFTG 79 (126)
T ss_dssp HHHHHHHHHHTT-GCHHHGTEEEEEEEEGCTT-TEEEHHHHHHHHHHHHHHHST-TTEEEEEEEEE-ETTEEEEEEEEEE
T ss_pred HHHHHHHHHhCCCHHHHHHhcCCCEEEEecCC-CCCCCHHHHHHHHHHHHHHCC-CCEEEEEEEEE-ECCEEEEEEEEEE
Confidence 34444457899999999999999999998766 778999999999999999998 89999999774 5699999999976
Q ss_pred cC-----------ccccCCCceEEEEEeecCceEE-EEEeeee
Q 023448 163 KG-----------KQVPFTRGCSFYECSLEGETLL-IKKARVV 193 (282)
Q Consensus 163 ~G-----------~~lP~tRGcSFyri~~~~GKIv-I~y~rd~ 193 (282)
+. +++- .+|+++|+++ +|||+ .+-..|.
T Consensus 80 th~g~~~g~~ptgk~v~-~~~~~~~~~~--~gkI~e~~~~~D~ 119 (126)
T PF07366_consen 80 THTGEFMGIPPTGKPVE-FRGMSIFRFE--DGKIVEEWVYFDE 119 (126)
T ss_dssp EESSEBTTBE-TTEEEE-EEEEEEEEEE--TTEEEEEEEEECH
T ss_pred eecCCcCCcCCCCCEEE-EEEEEEEEEE--CCEEEEEEEEECH
Confidence 63 2222 1799999996 59999 5555543
No 5
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=99.42 E-value=2.7e-12 Score=120.24 Aligned_cols=116 Identities=12% Similarity=0.198 Sum_probs=89.9
Q ss_pred CCCCCCCHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcC-CCeEEEEeeeeeCCC
Q 023448 73 IEIVPFSASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMG-QNVKFSVEQVCEGDE 151 (282)
Q Consensus 73 ~~~~~~sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP-~DlrfvIedI~egDG 151 (282)
.+..+....++|++|++|||+||++++.+|++|||+|++++.++|+.|++++++||..+....+ .+.++. ... .+|
T Consensus 209 ~~~~~~~~~~~v~~~~~A~~~gD~~~l~~lla~Dv~~~~p~~~~~~~G~~~v~~~~~~~~~~~~~~~~~~~--~~~-~~g 285 (339)
T PRK08241 209 REPDDPEERALLARYVAAFEAYDVDALVALLTEDATWSMPPFPLWYRGRDAIAAFLAGQCPGAGCGGSRLV--PTR-ANG 285 (339)
T ss_pred CCCCChHHHHHHHHHHHHHhcCCHHHHHHHhcCCEEEEcCCCCCcccCHHHHHHHHHhhccccCCCceEEE--Eee-cCC
Confidence 3355678999999999999999999999999999999999888889999999999999754432 245553 333 466
Q ss_pred CeEEEEEEEEEcCccccCCCceEEEEEeecCceEEEEEeeeeccC
Q 023448 152 FTAGINWHLEWKGKQVPFTRGCSFYECSLEGETLLIKKARVVIES 196 (282)
Q Consensus 152 ~aVavrW~lEW~G~~lP~tRGcSFyri~~~~GKIvI~y~rd~~E~ 196 (282)
+.+.+.+....+|+++. .+|+++|+++ ||||+ .++++..+
T Consensus 286 ~~v~~~~~~~~~g~~~~-~~~v~v~~v~--dGkI~--~~~~y~d~ 325 (339)
T PRK08241 286 QPAFAQYMRDPDGGGHR-PWALHVLELR--GGRIA--HVTSFLDT 325 (339)
T ss_pred CeEEEEEEEcCCCCeee-cceEEEEEEe--CCEEE--EEEEEcCh
Confidence 77766554344455443 3899999996 69988 67787775
No 6
>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=99.29 E-value=2.8e-11 Score=112.21 Aligned_cols=113 Identities=10% Similarity=0.193 Sum_probs=88.5
Q ss_pred CCCCCHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHH--HHHcCCCeEEEEeeeeeCCCC
Q 023448 75 IVPFSASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQL--VTSMGQNVKFSVEQVCEGDEF 152 (282)
Q Consensus 75 ~~~~sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~--~~AfP~DlrfvIedI~egDG~ 152 (282)
..+....+++++|++|||+||++++.+|++|||++++++..+|+.|+++|..||..+ ...++ ++++.. +. .||+
T Consensus 201 ~~~~~~~~~v~~~~~a~~~gD~~~l~~Lla~Dv~~~~p~~~~~~~G~~~v~~~~~~~~~~~~~~-~~~~~~--~~-~~g~ 276 (324)
T TIGR02960 201 PPSPEEQDLLERYIAAFESYDLDALTALLHEDAIWEMPPYTLWYQGRPAIVGFIHTVCPGEGAA-GMRLLP--TI-ANGQ 276 (324)
T ss_pred CCCHHHHHHHHHHHHHHHcCCHHHHHHHhcCCeEEEcCCCCcceeCHHHHHHHHHHhcccccCC-ceeEEE--ee-ecCC
Confidence 445577899999999999999999999999999999998889999999999999998 55554 566643 33 4677
Q ss_pred eEEEEEEEEEcCccccCCCceEEEEEeecCceEEEEEeeeeccC
Q 023448 153 TAGINWHLEWKGKQVPFTRGCSFYECSLEGETLLIKKARVVIES 196 (282)
Q Consensus 153 aVavrW~lEW~G~~lP~tRGcSFyri~~~~GKIvI~y~rd~~E~ 196 (282)
.+++.|..+-+|+++. ..||.+++++ ||||+ .++.+...
T Consensus 277 ~~~v~~~~~~~~~~~~-~~~v~~~~~~--dGkI~--~~~~~~~~ 315 (324)
T TIGR02960 277 PAAAMYMRRPDAERHT-AFQLHVLEIR--GGRIT--HVTAFLDG 315 (324)
T ss_pred ceEEEEEEcCCCCeee-eeEEEEEEEc--CCcEE--EEEEEcCC
Confidence 7777775444444443 3899999994 79998 56666554
No 7
>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=98.86 E-value=1.2e-08 Score=85.79 Aligned_cols=108 Identities=18% Similarity=0.518 Sum_probs=77.6
Q ss_pred CHHHHHHHHHHHHhccCHH-HHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEEE
Q 023448 79 SASNTIREFYACINEKNLE-RLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGIN 157 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dle-al~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVavr 157 (282)
++.++|++|.+||...|.+ ++..+++||+|||+.++| |..|+++++++++.+...+ ..+++.+.+++. ||+.| ++
T Consensus 2 ~~~~vV~~F~~a~~~~D~~~a~~~~~~~d~vy~Nvplp-~i~G~~~~~~~l~~~~~~~-~~~e~~i~~iaa-dg~~V-lt 77 (125)
T PF07858_consen 2 TPEEVVRAFLAALEDRDVDAALASLFDDDAVYHNVPLP-PIRGRDAIRAFLRGFLDSL-SGFEFDIHRIAA-DGDVV-LT 77 (125)
T ss_dssp HHHHHHHHHHHHHHHT-HHHHHHHCEECC-EEEETTTE-EEESHHHHHHHHHCCHCCC-EEEEEEEEEEEE-ETTEE-EE
T ss_pred ChHHHHHHHHHHHHcCCHHHHHHHhcCCCcEEEeCCCC-CcccHHHHHHHHHHHhccc-ceeEEEEEEEee-cCCEE-EE
Confidence 5789999999999999976 567899999999998886 6899999999999995444 368888888775 56544 55
Q ss_pred EEE---EE-cC-ccccCCCceEEEEEeecCceEEEEEeeeecc
Q 023448 158 WHL---EW-KG-KQVPFTRGCSFYECSLEGETLLIKKARVVIE 195 (282)
Q Consensus 158 W~l---EW-~G-~~lP~tRGcSFyri~~~~GKIvI~y~rd~~E 195 (282)
.+. +. +| ..+.+ .=|..|+++ +|||+. =||..+
T Consensus 78 ER~D~l~~~dG~~~~~~-~V~GvfEv~--dGkI~~--WRDYFD 115 (125)
T PF07858_consen 78 ERTDVLRFADGPLRIQF-PVCGVFEVR--DGKITL--WRDYFD 115 (125)
T ss_dssp EEEEEEEETTTTEEEEE-EEEEEEEEE--TTEEEE--EEEE--
T ss_pred EeEeeeeeecCCeEEEE-EEEEEEEEE--CCEEEE--EeccCC
Confidence 555 34 13 22222 358888885 699983 466654
No 8
>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=98.85 E-value=1.1e-07 Score=75.13 Aligned_cols=68 Identities=13% Similarity=0.203 Sum_probs=56.0
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCC--eEEEEeeee
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQN--VKFSVEQVC 147 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~D--lrfvIedI~ 147 (282)
..++++.+|+++||++|++++++++++|+++.... +.+..|+++++++|+.++...+.+ +++++.++.
T Consensus 5 ~i~~l~~~~~~a~~~~D~~~~~~~~~~Da~~~~~~-g~~~~G~~~i~~~~~~~~~~~~~~~~~~~~~~~i~ 74 (128)
T TIGR02246 5 AIRALVATWEAAWAAGDAEGFADLFTPDGVFVTVP-GQVWKGREAIAAAHEAFLAGPYKGTRVTIDVIEVR 74 (128)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHhhCCCceEECCC-CCeecCHHHHHHHHHHHhcccCCCcEEEeeeEEEE
Confidence 35789999999999999999999999999997543 348899999999999998877654 555544543
No 9
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=98.75 E-value=8e-08 Score=88.97 Aligned_cols=106 Identities=14% Similarity=0.179 Sum_probs=70.7
Q ss_pred CCCHHHHHHHHHHHHhccCHHHHhhcccCCeeeec------CCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCC
Q 023448 77 PFSASNTIREFYACINEKNLERLETYISDDCCFED------CSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGD 150 (282)
Q Consensus 77 ~~sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD------~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egD 150 (282)
+....+++++|++|+++||++++.+|++||++++. ++...|+.|+++|.+|+..+...+++.....+..+.. +
T Consensus 170 ~~~~~~~v~~f~~A~~~gD~~~l~~Lla~Dv~~~~dggg~~~~~~~~~~G~~~v~~~l~~~~~~~~~~~~~~~~~~~v-n 248 (293)
T PRK09636 170 DEEGAELVEAFFAALASGDLDALVALLAPDVVLHADGGGKVPTALRPIYGADKVARFFLGLARRYGPGGSTLVRLALV-N 248 (293)
T ss_pred chHHHHHHHHHHHHHHhCCHHHHHHHHhhCeEEEecCCCccCCCCccccCHHHHHHHHHHHhhhccCCCceEEEEEEE-C
Confidence 33678899999999999999999999999999974 2234679999999999999987665323333333322 3
Q ss_pred CCeEEEEEEEEEcCccccCCCceEEEEEeecCceEEEEEeeeec
Q 023448 151 EFTAGINWHLEWKGKQVPFTRGCSFYECSLEGETLLIKKARVVI 194 (282)
Q Consensus 151 G~aVavrW~lEW~G~~lP~tRGcSFyri~~~~GKIvI~y~rd~~ 194 (282)
|+-..+. . +. | +..+...++..+|||+ -+..+.
T Consensus 249 G~~a~~~-~-~~-~------~~~~~~~~~~~~g~I~--~i~~~~ 281 (293)
T PRK09636 249 GLPGFVT-A-EA-D------GEPQTTALEVEDGKIV--AIYDVR 281 (293)
T ss_pred CceeEEE-E-eC-C------ceEEEEEEEEECCEEE--EEEEEc
Confidence 3322111 1 11 2 2234455555689888 445554
No 10
>COG3631 Ketosteroid isomerase-related protein [General function prediction only]
Probab=98.63 E-value=4.2e-07 Score=76.95 Aligned_cols=115 Identities=16% Similarity=0.228 Sum_probs=84.0
Q ss_pred CCCHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCC----CCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCC
Q 023448 77 PFSASNTIREFYACINEKNLERLETYISDDCCFEDCSFP----KPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEF 152 (282)
Q Consensus 77 ~~sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p----~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~ 152 (282)
.|++.++|+++|+||.+||.+.+.+|+++|++|+-+..+ +...|++..++.+..+-..+. +..++++.+.+ +|+
T Consensus 3 ~~~~~~~v~~~f~a~~~GD~~~~~~l~a~D~v~~~p~~~~~~~~~~~g~~~~~~~~~~~~r~~~-~~~~~~~~~~~-~gD 80 (133)
T COG3631 3 EMDNTDLVRRYFAALSRGDLDGLLALLAEDVVWEVPGTPPLSGTFRGGVAIRRDVFALLPRLIE-DGRFTVETVYV-SGD 80 (133)
T ss_pred cchhhhHHHHHHHHHhcCCHHHHHhhccCceEEEeeCCCCCccccccchhhhhHHhhhChhhcc-cccccceEEEE-cCC
Confidence 578999999999999999999999999999999743332 234577777888888776663 57888888664 334
Q ss_pred eEE-EEEEE---EEcCccccCCCceEEEEEeecCceEEEEEeeeeccCCC
Q 023448 153 TAG-INWHL---EWKGKQVPFTRGCSFYECSLEGETLLIKKARVVIESPI 198 (282)
Q Consensus 153 aVa-vrW~l---EW~G~~lP~tRGcSFyri~~~~GKIvI~y~rd~~E~~i 198 (282)
.++ +.|.- .-+|+++. .+=+.++++ ++|||+ ..+++..+..
T Consensus 81 ~~~~v~~~~~~~~~~G~~~~-~~~~~v~~v--rdGrI~--~~~~y~D~~~ 125 (133)
T COG3631 81 PVGAVFRTRGRVSRTGKPYE-NRYAFVIRV--RDGRIT--RYREYVDTLA 125 (133)
T ss_pred ceEEEEEecCcccccCceee-cceEEEEEE--eCCEEE--EEEEEechHh
Confidence 443 44433 44566554 266777777 579998 5788877654
No 11
>PF13474 SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE7_A 3BB9_E 3CNX_A 3F7S_A 3GWR_B.
Probab=98.56 E-value=7.2e-07 Score=69.51 Aligned_cols=107 Identities=14% Similarity=0.230 Sum_probs=74.6
Q ss_pred HHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeee-CCCCeEEEEEE
Q 023448 81 SNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCE-GDEFTAGINWH 159 (282)
Q Consensus 81 ~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~e-gDG~aVavrW~ 159 (282)
.+++++|+++|+++|++++.++++||+++-++..+..+.|+++++++++..++.++ .++++..++.. .+++.+.+.+.
T Consensus 2 ~~~~~~~~~a~~~~D~~~~~~~~~~d~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~v~~~~~~a~~~~~ 80 (121)
T PF13474_consen 2 EALLEEWIEAFERGDIDALLSLFSDDFVFFGTGPGEIWRGREAIRAYFERDFESFR-PISIEFEDVQVSVSGDVAVVTGE 80 (121)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHEEEEEEEEETTSSSEEESHHHHHHHHHHHHHTHS-EEEEEEEEEEEEEETTEEEEEEE
T ss_pred HHHHHHHHHHHHhCCHHHHHHhhCCCEEEEcCCCCceECCHHHHHHHHHHHhhhCc-eEEEEEEEEEEEECCCEEEEEEE
Confidence 57899999999999999999999999999877666778899999999999988774 78888876222 34555555555
Q ss_pred EEEc----CccccC-CCceEEEEEeecCceEEEEEe
Q 023448 160 LEWK----GKQVPF-TRGCSFYECSLEGETLLIKKA 190 (282)
Q Consensus 160 lEW~----G~~lP~-tRGcSFyri~~~~GKIvI~y~ 190 (282)
.++. |++... .|....|+-+ +|.-.|...
T Consensus 81 ~~~~~~~~~~~~~~~~r~t~v~~k~--~~~Wki~h~ 114 (121)
T PF13474_consen 81 FRLRFRNDGEEIEMRGRATFVFRKE--DGGWKIVHI 114 (121)
T ss_dssp EEEEEECTTCEEEEEEEEEEEEEEE--TTEEEEEEE
T ss_pred EEEEEecCCccceeeEEEEEEEEEE--CCEEEEEEE
Confidence 5442 333321 2555555443 454444333
No 12
>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=98.52 E-value=2.3e-06 Score=64.91 Aligned_cols=106 Identities=17% Similarity=0.168 Sum_probs=71.1
Q ss_pred HHHHHHHHHHHhccCHHHHhhcccCCeeeecCCC---CCCccCHHHHHHHHHHHHHHcCCCeEEEEee-eeeCCC---Ce
Q 023448 81 SNTIREFYACINEKNLERLETYISDDCCFEDCSF---PKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQ-VCEGDE---FT 153 (282)
Q Consensus 81 ~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~---p~P~~GreaVr~ff~~~~~AfP~DlrfvIed-I~egDG---~a 153 (282)
++++.+|+++++++|.+.+..+++||++++.+.. ..+..|+++++++++.+....+...++.... +...++ ..
T Consensus 2 ~~l~~~y~~~ld~~~~~~l~~~~~~d~~~~~~~~~~~~~~~~g~~~i~~~~~~~~~~~~~~~h~~~~~~~~~~~~~~~~~ 81 (124)
T cd00531 2 EQFLYRYARLLDAGDREWLALLYADDAYFEPPGGDGLIYPDDGREAIEDRVRRLPFGPSRTRHLVSNVDVQPGDDGEGVV 81 (124)
T ss_pred HHHHHHHHHHhCCchHHHHHhhCcCcEEEEEccCCEEEEcCChHHHHHHHHHhcCCCCCceEEEEEeEEEEeCCCCEEEE
Confidence 5789999999999999999999999999987764 3678999999999998865322223332222 222222 33
Q ss_pred EEEEEEEEEcCc--cccCCCceEEEEEeecCceEEE
Q 023448 154 AGINWHLEWKGK--QVPFTRGCSFYECSLEGETLLI 187 (282)
Q Consensus 154 VavrW~lEW~G~--~lP~tRGcSFyri~~~~GKIvI 187 (282)
..+.|.++..+. +.. ..|...+++...+|.-.|
T Consensus 82 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~g~w~i 116 (124)
T cd00531 82 VSVFGVLRTRGDGEQDV-FAGGQTFVLRPQGGGGKI 116 (124)
T ss_pred EEEEEEEEEccCCceeE-EEEEEEEEEEEeCCEEEE
Confidence 445677776653 333 256666666554554444
No 13
>COG4319 Ketosteroid isomerase homolog [Function unknown]
Probab=98.41 E-value=5.5e-06 Score=70.91 Aligned_cols=104 Identities=14% Similarity=0.160 Sum_probs=77.5
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeee-eCCCCeEE--
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVC-EGDEFTAG-- 155 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~-egDG~aVa-- 155 (282)
..++++..|-+|+|++|+++++++++||+++-+++ +.+..|+++++++|+..+...-..++|+.+++. .+.|+.+=
T Consensus 11 ~I~a~i~dw~~Av~a~D~~av~~~YtdDav~f~~~-~~~~~Gk~~i~k~~~~~~~~~~~~~~f~~~el~v~~~GD~a~~~ 89 (137)
T COG4319 11 AIRAAIADWAAAVRAKDADAVADFYTDDAVVFPPP-GLQRKGKAAIRKAFEGIFAMGIGPLKFTLEELQVHESGDVAFVT 89 (137)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHhcCCceEEecCC-CCcccCHHHHHHHHHHHHHhccCCCcceeeeeeeeccCCEEEEE
Confidence 45677888888999999999999999999998776 557899999999999999887677899888854 12344322
Q ss_pred EEEEEEEcC---ccccC-CCceEEEEEeecCc
Q 023448 156 INWHLEWKG---KQVPF-TRGCSFYECSLEGE 183 (282)
Q Consensus 156 vrW~lEW~G---~~lP~-tRGcSFyri~~~~G 183 (282)
-.|+++.++ ++-+. +|-...||=+..||
T Consensus 90 ~~~~~~~~~~dg~~~~~~~Rat~v~rK~~dg~ 121 (137)
T COG4319 90 ALLLLTGTKKDGPPADLAGRATYVFRKEADGG 121 (137)
T ss_pred EeeeeeccCCCCcchhheeeeEEEEEEcCCCC
Confidence 267777653 22333 26777777665434
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=98.25 E-value=1.6e-05 Score=73.63 Aligned_cols=66 Identities=17% Similarity=0.310 Sum_probs=54.2
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeec------CCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEe
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFED------CSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVE 144 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD------~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIe 144 (282)
...+++++|.+|+++||++++.+|++||+++.. ++...|+.|++.|..|+..+...++++.+++..
T Consensus 165 ~~~~~~~~f~~a~~~gD~~~l~~lL~~dv~~~~dggg~~~~~~~p~~G~~~v~~~~~~~~~~~~~~~~~~~~ 236 (281)
T TIGR02957 165 ESRQLLERFVEAAQTGDLDGLLELLAEDVVLYGDGGGKVRAALRPIYGADRVARFFFGLVRRLGPGGRVDPV 236 (281)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHhhceEEEecCCCcCCCCCcccccHHHHHHHHHHHhcccCCCceEEEE
Confidence 456899999999999999999999999999974 566679999999999998876554434554443
No 15
>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=98.18 E-value=1e-05 Score=61.20 Aligned_cols=81 Identities=19% Similarity=0.331 Sum_probs=58.3
Q ss_pred HHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEE--EEE
Q 023448 81 SNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAG--INW 158 (282)
Q Consensus 81 ~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVa--vrW 158 (282)
.++.++|.+|+|++|+++++++++||+++-.+. ++..|++++.+.+..-.... .+++++..++... |+.+. .+|
T Consensus 2 ~a~~~~~~~A~~~~D~~~~~~~~~~d~~~~~~~--g~~~~~~~~l~~~~~~~~~~-~~~~~~~~~v~~~-gd~a~~~~~~ 77 (107)
T PF14534_consen 2 RALEEQYEDAFNAGDIDALASLYADDFVFVGPG--GTILGKEAILAAFKSGFARF-SSIKFEDVEVRVL-GDTAVVRGRW 77 (107)
T ss_dssp HHHHHHHHHHHHTTHHHHHHTTEEEEEEEEETT--SEEEEHHHHHHHHHHHCEEE-EEEEEEEEEEEEE-TTEEEEEEEE
T ss_pred HHHHHHHHHHHHhCCHHHHHhhhCCCEEEECCC--CCEeCHHHHHHHHhhccCCC-ceEEEEEEEEEEE-CCEEEEEEEE
Confidence 468899999999999999999999999986443 44569999988887732222 3566666554432 34433 478
Q ss_pred EEEEcCc
Q 023448 159 HLEWKGK 165 (282)
Q Consensus 159 ~lEW~G~ 165 (282)
++++.+.
T Consensus 78 ~~~~~~~ 84 (107)
T PF14534_consen 78 TFTWRGD 84 (107)
T ss_dssp EEEETTT
T ss_pred EEEEecC
Confidence 8887653
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=6.7e-05 Score=59.14 Aligned_cols=84 Identities=14% Similarity=0.232 Sum_probs=66.1
Q ss_pred HHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCC-CCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEEEE
Q 023448 80 ASNTIREFYACINEKNLERLETYISDDCCFEDCSF-PKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGINW 158 (282)
Q Consensus 80 a~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~-p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVavrW 158 (282)
..+++.+|..+++.+|.+.+.+++++|+++.-... ++.+.|++++.++++......+...+.....+++-||+.+.++|
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 46788899999999999999999999999976554 45789999999999999877664455555555455778888888
Q ss_pred EEEEc
Q 023448 159 HLEWK 163 (282)
Q Consensus 159 ~lEW~ 163 (282)
.+...
T Consensus 89 ~~~~~ 93 (127)
T PF13577_consen 89 YVLAT 93 (127)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 87654
No 17
>COG4922 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.94 E-value=8.3e-05 Score=62.35 Aligned_cols=98 Identities=13% Similarity=0.303 Sum_probs=77.2
Q ss_pred CHHHHHHHHHH-HHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEEE
Q 023448 79 SASNTIREFYA-CINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGIN 157 (282)
Q Consensus 79 sa~eVVrrfye-A~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVavr 157 (282)
.++.++-.||. +|+.|..+....++.|-..-|++..| .||+++.+||.++++.-| ..+..|-.+. .||+-|.+.
T Consensus 6 ~N~~~v~~~y~~~~~~g~veka~a~~vd~YiQHnp~vp---dGk~~fv~fFt~ffk~~P-~~~~kiVr~i-adGdLV~vh 80 (129)
T COG4922 6 ANKQVVIQFYRTLFEAGEVEKADAYLVDRYIQHNPMVP---DGKDGFVRFFTEFFKEKP-RISTKIVRVI-ADGDLVTVH 80 (129)
T ss_pred hhHHHHHHHHHHHHHCCCHHHhhhhhhhHHHhcCCCCC---CchHHHHHHHHHHHHhCc-cccceeeEEe-ccCCEEEEE
Confidence 45677778887 68999999999999988887877664 899999999999999887 5666655544 588999999
Q ss_pred EEEEEcCccccCCC---ceEEEEEeecCceEE
Q 023448 158 WHLEWKGKQVPFTR---GCSFYECSLEGETLL 186 (282)
Q Consensus 158 W~lEW~G~~lP~tR---GcSFyri~~~~GKIv 186 (282)
.|-.|++ |-.+ -.++||++ +|||+
T Consensus 81 ~hqt~~~---pg~~~~v~~DtfR~d--dgkiv 107 (129)
T COG4922 81 YHQTVSE---PGSYTTVTFDTFRID--DGKIV 107 (129)
T ss_pred EeeeeCC---CCcceeEEEEEEEee--CCcee
Confidence 9999987 3222 35677774 57887
No 18
>PF10184 DUF2358: Uncharacterized conserved protein (DUF2358); InterPro: IPR018790 This entry represents a family of conserved proteins. The function is unknown.
Probab=97.85 E-value=0.00016 Score=59.02 Aligned_cols=88 Identities=19% Similarity=0.240 Sum_probs=65.3
Q ss_pred ccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHH---HHHHHHHcCCCeEEEEeeeeeCCCCeEEEEEEEEEcCccccC
Q 023448 93 EKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQF---LEQLVTSMGQNVKFSVEQVCEGDEFTAGINWHLEWKGKQVPF 169 (282)
Q Consensus 93 ~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~f---f~~~~~AfP~DlrfvIedI~egDG~aVavrW~lEW~G~~lP~ 169 (282)
.++.+ .+++++||+|.|+. ..++|++..++. ++.+...+-.+.++++.++...+++.+.++|++.+.- .+|.
T Consensus 16 ~~~~~--~~iY~~dv~F~Dp~--~~f~g~~~Y~~~~~~l~~l~~~~~~~~~~~v~~i~~~~~~~I~~rW~~~g~~-~l~w 90 (113)
T PF10184_consen 16 TGDLD--YSIYDEDVVFIDPI--VSFKGLDRYKRNLWALRFLGRLFFSDPSLEVLSIEQDGEDTIRARWRLRGVP-RLPW 90 (113)
T ss_pred cCCCC--hhhcCCCeEEECCC--CceecHHHHHHHHHHHHHHHhhccCCcEEEEEEEEECCCCEEEEEEEEEEEe-CCCc
Confidence 45544 45999999999987 468999999888 5555553445899999998876656899999997642 1221
Q ss_pred -----CCceEEEEEeecCceEE
Q 023448 170 -----TRGCSFYECSLEGETLL 186 (282)
Q Consensus 170 -----tRGcSFyri~~~~GKIv 186 (282)
-.|.|-|+++. +|+|.
T Consensus 91 ~p~~~~~G~S~~~ln~-~g~I~ 111 (113)
T PF10184_consen 91 RPRISFDGTSTYTLNS-DGLIY 111 (113)
T ss_pred CCcEEEEEEEEEEECC-CCcEE
Confidence 26999999987 56653
No 19
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=97.80 E-value=0.00023 Score=66.82 Aligned_cols=63 Identities=11% Similarity=0.009 Sum_probs=51.1
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeecC-CCCCCccCHHHHHHHHHHHHHHcCCCeEEEE
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFEDC-SFPKPFQGKKEVMQFLEQLVTSMGQNVKFSV 143 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~-~~p~P~~GreaVr~ff~~~~~AfP~DlrfvI 143 (282)
.-.+++++|.+|+++||++++.+|++||++...+ +.+.|+.|++.|..||...... + +.+++.
T Consensus 175 ~~~~~~~~f~~a~~~gd~~~l~~ll~~d~~~~~~~~~~~~~~G~~~v~~~~~~~~~~-~-~~~~~~ 238 (290)
T PRK09635 175 QHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSH-P-ATVLVA 238 (290)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHhhhhhcCCCcCCCCccccCHHHHHHHHHHhhcc-C-ceEEEE
Confidence 4568999999999999999999999999997555 4467999999999999876532 2 445443
No 20
>COG4538 Uncharacterized conserved protein [Function unknown]
Probab=97.61 E-value=0.0009 Score=54.84 Aligned_cols=101 Identities=10% Similarity=0.042 Sum_probs=69.7
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEee-eeeCCCCeEEEE
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQ-VCEGDEFTAGIN 157 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIed-I~egDG~aVavr 157 (282)
.+++++++=.+|.|.+|+++.+..++|||++...+..----|.++++.++.+-+.. | +.+..+-+ |+.| ..|.=+
T Consensus 4 e~ed~vq~Ql~AYNa~Dvdaf~a~f~DD~vv~~f~a~~~~gg~aaira~y~e~FaE-p-~~~~~ll~Rv~vG--s~ViDH 79 (112)
T COG4538 4 EPEDVVQRQLAAYNAGDVDAFAAEFDDDAVVTTFDALDGDGGTAAIRAAYGEQFAE-P-APEISLLDRVSVG--SYVIDH 79 (112)
T ss_pred chhHHHHHHHHhhccccHHHHHhhcccceEEEecccccccCcHHHHHHHHHHHhcC-C-CccceeeeeEEec--cEEecc
Confidence 47899999999999999999999999999996544433346899999988877755 5 56665544 5433 555445
Q ss_pred EEEEEcCccccCCCceEEEEEeecCceEE
Q 023448 158 WHLEWKGKQVPFTRGCSFYECSLEGETLL 186 (282)
Q Consensus 158 W~lEW~G~~lP~tRGcSFyri~~~~GKIv 186 (282)
=|++.+...-|+. -.-.|++ ++|+|.
T Consensus 80 Ehvtr~~g~ge~d-vaciYtv--~~g~Ia 105 (112)
T COG4538 80 EHVTRGTGGGERD-VACIYTV--VEGLIA 105 (112)
T ss_pred eeeccCCCCCcee-EEEEEEE--eCCeee
Confidence 5666532222321 2345778 468877
No 21
>COG5485 Predicted ester cyclase [General function prediction only]
Probab=97.52 E-value=0.00086 Score=56.81 Aligned_cols=96 Identities=15% Similarity=0.390 Sum_probs=73.1
Q ss_pred HHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEEEEEEE
Q 023448 82 NTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGINWHLE 161 (282)
Q Consensus 82 eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVavrW~lE 161 (282)
+..+.|++..|+.+-+.+...+. |||.++ +...|-++.+++...-+.++| |++|+++.+. .+|++|+.|-++.
T Consensus 10 ~~y~Ay~d~ln~q~~~~l~~fv~-~~v~~n----g~~~glsgyr~ml~~df~aiP-dl~f~ie~lv-ae~~~vaarl~Fd 82 (131)
T COG5485 10 DRYRAYLDCLNRQAWDELGSFVD-GNVMHN----GRLQGLSGYREMLVRDFSAIP-DLSFEIERLV-AEGDRVAARLTFD 82 (131)
T ss_pred HHHHHHHHhhhhhhhhhcccCCc-CeeeeC----CceechHHHHHHHHhhHhhCC-CcceEEEEEe-ecCCceEEEEEEc
Confidence 78899999999999998877664 555543 233899999999999999998 8999999966 4789999998887
Q ss_pred EcCc----ccc-CCCceEE-----EEEeecCceEE
Q 023448 162 WKGK----QVP-FTRGCSF-----YECSLEGETLL 186 (282)
Q Consensus 162 W~G~----~lP-~tRGcSF-----yri~~~~GKIv 186 (282)
.+.+ ++| .+|-++| |++ .+|||+
T Consensus 83 ctp~G~i~Gip~nGkrV~Fse~vfy~f--~~~KI~ 115 (131)
T COG5485 83 CTPSGEIMGIPPNGKRVRFSENVFYEF--ENGKIV 115 (131)
T ss_pred cCcCceEeccCCCCcEEEeehhhhhhh--cCCeEE
Confidence 6532 233 4455554 666 468988
No 22
>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=97.49 E-value=0.00067 Score=53.78 Aligned_cols=83 Identities=16% Similarity=0.319 Sum_probs=60.4
Q ss_pred HHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeee------CCCCe
Q 023448 80 ASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCE------GDEFT 153 (282)
Q Consensus 80 a~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~e------gDG~a 153 (282)
+...+++||++++++|.+.+.+++++|+.+.+.....+++|+++|.++++.+-.. ..++.+..+.. .++-.
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 4678999999999999999999999999887776655899999999999988532 23666654222 22333
Q ss_pred EEEEEEEEEcCc
Q 023448 154 AGINWHLEWKGK 165 (282)
Q Consensus 154 VavrW~lEW~G~ 165 (282)
+.+...++.++.
T Consensus 79 i~v~G~~~~~~~ 90 (118)
T PF02136_consen 79 ITVTGQFKEDDN 90 (118)
T ss_dssp EEEEEEEEETTS
T ss_pred EEEEeEEEecCC
Confidence 444555555554
No 23
>COG4308 LimA Limonene-1,2-epoxide hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=97.43 E-value=0.00033 Score=59.08 Aligned_cols=110 Identities=13% Similarity=0.217 Sum_probs=74.9
Q ss_pred CHHHHHHHHHHHHhccCHHHH-hhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEE-
Q 023448 79 SASNTIREFYACINEKNLERL-ETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGI- 156 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal-~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVav- 156 (282)
++.++|+.|.+|+.+-|.++. ..+..+|-+|++.+.++ ..|+++..++++..+...- .++|.|..+. .||.+|-.
T Consensus 7 ~pi~~V~aF~aA~~~~d~~~avr~~~~~d~v~~n~gis~-i~G~~~~ia~l~~~~~~~~-~~ef~I~riA-adg~~VltE 83 (130)
T COG4308 7 EPIRTVEAFLAALQEDDGDAAVRRLGTPDTVYNNVGIST-IHGPAETIALLRPRMAGIL-GFEFKILRIA-ADGGAVLTE 83 (130)
T ss_pred CcHHHHHHHHHHHHhcCccHHHHHhcCCCeeeccCCccc-ccchhhhhhhhccccCCcc-eeEEEEEEEe-cccceehhh
Confidence 789999999999988888755 55677888888887765 5999999999996544432 5788888876 57776622
Q ss_pred EEEEEEcCccccCCCceEEEEEeecCceEEEEEeeeecc
Q 023448 157 NWHLEWKGKQVPFTRGCSFYECSLEGETLLIKKARVVIE 195 (282)
Q Consensus 157 rW~lEW~G~~lP~tRGcSFyri~~~~GKIvI~y~rd~~E 195 (282)
|-.....|-.+--..=|..|+++ ||||+ +=||..+
T Consensus 84 R~D~~~~g~~~~~~~V~GvfEV~--~~rI~--~WRDYFD 118 (130)
T COG4308 84 RLDARIDGPLWVQFWVCGVFEVE--DGRIV--LWRDYFD 118 (130)
T ss_pred hhhhhccCCcEEEEEEEEEEEEe--CCEEE--eehhhhh
Confidence 11111112110001358889995 68998 5666644
No 24
>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=0.0031 Score=53.35 Aligned_cols=65 Identities=12% Similarity=0.172 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHhccCHHHHhhcccCC-eeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEee
Q 023448 81 SNTIREFYACINEKNLERLETYISDD-CCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQ 145 (282)
Q Consensus 81 ~eVVrrfyeA~N~~Dleal~eL~AdD-cVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIed 145 (282)
.++.++|.+|++.||.+...+++++| .+++...-+.+..|.+..+.+|+.+.+.-|...+-.|.+
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 46778999999999999999999999 888877777899999999999999987767666566543
No 25
>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=97.06 E-value=0.0076 Score=51.90 Aligned_cols=106 Identities=12% Similarity=0.251 Sum_probs=71.3
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEEEE
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGINW 158 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVavrW 158 (282)
++..-|+.--+|||.+|++.+.--+++|+++.+-. +=+.|+++|.+|++.-++-= -|.+.+ .++-+-+|++++|+.
T Consensus 11 tA~~KVr~AEdaWNsrdP~~ValaYT~Ds~WRNR~--eF~~GR~~I~~FLtrKW~rE-~~YrLi-KELwaf~~nRIAVRF 86 (143)
T PF07080_consen 11 TAIQKVRAAEDAWNSRDPEKVALAYTPDSVWRNRD--EFLTGREEIVAFLTRKWERE-LDYRLI-KELWAFTDNRIAVRF 86 (143)
T ss_dssp HHHHHHHHHHHHHTTT-HHHHHTTEEEEEEEEETT--EEE-SHHHHHHHHHHHHHHS-EEEEEE-EEEEEEETTEEEEEE
T ss_pred HHHHHHHHHHhccccCChhHheeccCCCCcccCcc--cccCcHHHHHHHHHHHHHHh-hhhhhH-HhhhhccCCeEEEEE
Confidence 45566777778999999999999999999997543 34799999999999887652 245554 344445679999999
Q ss_pred EEEEcCccccC--CCceEEEEEeecCceEEEEE
Q 023448 159 HLEWKGKQVPF--TRGCSFYECSLEGETLLIKK 189 (282)
Q Consensus 159 ~lEW~G~~lP~--tRGcSFyri~~~~GKIvI~y 189 (282)
..||.+..--. +=|-.-.++++ +|...-|.
T Consensus 87 ~YE~~d~~gqW~RsyGnEnWeFd~-~GlM~~R~ 118 (143)
T PF07080_consen 87 AYEWHDDSGQWFRSYGNENWEFDE-DGLMRRRH 118 (143)
T ss_dssp EEEEE-TTS-EEEEEEEEEEEE-T-TS-EEEEE
T ss_pred eEEEEcCCCCEEecccccccccCC-CccHHHhh
Confidence 99998632111 12555566654 56666443
No 26
>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=96.32 E-value=0.022 Score=46.38 Aligned_cols=77 Identities=17% Similarity=0.280 Sum_probs=51.9
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcC-CCeEEEEeeeeeCCCCeEEEE
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMG-QNVKFSVEQVCEGDEFTAGIN 157 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP-~DlrfvIedI~egDG~aVavr 157 (282)
+|.+.+++|.++|+++|.+++.++.+++.- -..++++..+.++.+++++. .++++....+...+++...+.
T Consensus 2 ~p~~~~~~f~~aw~~~dy~~m~~~~~~~~k--------~~~s~~~~~~~~~~i~~~l~~~~l~v~~~~~~~~~~~~~~~~ 73 (118)
T PF05223_consen 2 SPEETAEAFLEAWEKGDYAAMYELTSDPSK--------SQYSKEDFVERYQNIYEGLGAENLKVEAEKVKKDEDDTATVP 73 (118)
T ss_dssp ---HHHHHHHHHHHTT-HHHHHHTB-HHHH--------HHHHHHHHHTHHHHHHHHHT--EEEEEEEEEEECCTTEEEEE
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHhhchhhh--------ccccHHHHHHHHHHHHhhCCccceEEEeccceecCCCceEEE
Confidence 578999999999999999999998887662 12556777888888888775 347775555555555666665
Q ss_pred EEEEEc
Q 023448 158 WHLEWK 163 (282)
Q Consensus 158 W~lEW~ 163 (282)
.++.|+
T Consensus 74 ~~~~~~ 79 (118)
T PF05223_consen 74 YTVTMD 79 (118)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 555554
No 27
>COG4875 Uncharacterized protein conserved in bacteria with a cystatin-like fold [Function unknown]
Probab=95.80 E-value=0.096 Score=44.99 Aligned_cols=58 Identities=5% Similarity=0.163 Sum_probs=44.8
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcC
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMG 136 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP 136 (282)
...++..||.++.-.||++.+.+.+|+|.|.--..--++...+.+++++|..|...=|
T Consensus 38 ~vAaLFdrWN~~L~TGdP~kV~anyApDaVLLPT~Sn~vR~s~~ei~DYF~~FLk~KP 95 (156)
T COG4875 38 EVAALFDRWNAALTTGDPNKVAANYAPDAVLLPTMSNQVRSSRSEILDYFSHFLKLKP 95 (156)
T ss_pred HHHHHHHHHHhhhhcCChHHHHhhcCCceEeecccccccccCHHHHHHHHHHHhccCC
Confidence 3344556666666789999999999999998533333577889999999999987655
No 28
>PF12893 Lumazine_bd_2: Putative lumazine-binding; PDB: 3BLZ_C 3DUK_F 3FKA_C.
Probab=95.76 E-value=0.12 Score=41.32 Aligned_cols=102 Identities=16% Similarity=0.158 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCC-CccCHHHHHHHHHHHH--HHcCCCeEEEEeeeeeCCCCeEEE
Q 023448 80 ASNTIREFYACINEKNLERLETYISDDCCFEDCSFPK-PFQGKKEVMQFLEQLV--TSMGQNVKFSVEQVCEGDEFTAGI 156 (282)
Q Consensus 80 a~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~-P~~GreaVr~ff~~~~--~AfP~DlrfvIedI~egDG~aVav 156 (282)
..++|+.|++++..+|.+.+.++++||+.+....-.+ .....++..++++.-. .....+....+..|.. +|+.+.+
T Consensus 6 I~~~v~~Y~dg~~~gD~~~l~~~f~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~i~~i~i-~g~~A~a 84 (116)
T PF12893_consen 6 IEATVQDYFDGLYNGDSEKLRSAFHPDARLQGVRKGKLRTMPIEEFIARVKSRVSPKPPGQERKESILSIDI-DGDVASA 84 (116)
T ss_dssp HHHHHHHHHHHHHHT-HHHHGGGEEEEEEEEEEETTEEEEEETHHHHHHHHHC---H-SSTT-EEEEEEEEE-ETTEEEE
T ss_pred HHHHHHHHHHHHHhcCHHHHHHhhCCCcEEEEEcCCceEEeCHHHHHHHHHhhccccCCCCCceeEEEEEEE-ECCEEEE
Confidence 4688999999999999999999999999874433111 2334455555555432 2333466777766543 4566666
Q ss_pred EEEEEEcCccccCCCceEEEEEeecCceEEE
Q 023448 157 NWHLEWKGKQVPFTRGCSFYECSLEGETLLI 187 (282)
Q Consensus 157 rW~lEW~G~~lP~tRGcSFyri~~~~GKIvI 187 (282)
..++++.+. ++.+++.+--.+|+=.|
T Consensus 85 ~v~~~~~~~-----~~~d~~~L~K~dg~WkI 110 (116)
T PF12893_consen 85 KVEYEFPGF-----WFVDYFTLVKTDGGWKI 110 (116)
T ss_dssp EEEEEEETE-----EEEEEEEEEEETTEEEE
T ss_pred EEEEEECCC-----ceEEEEEEEEECCEEEE
Confidence 777777643 56788887666775443
No 29
>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=95.01 E-value=0.67 Score=38.99 Aligned_cols=81 Identities=11% Similarity=0.134 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCC----------C-----ccCHHHHHHHHHHHHHHc-----CC-C
Q 023448 80 ASNTIREFYACINEKNLERLETYISDDCCFEDCSFPK----------P-----FQGKKEVMQFLEQLVTSM-----GQ-N 138 (282)
Q Consensus 80 a~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~----------P-----~~GreaVr~ff~~~~~Af-----P~-D 138 (282)
..+++-+|-.+++.+|.++..+||+|||+|.-++.+. + ..|+..+++.++.+.+.. |. .
T Consensus 6 I~~ll~~ya~~LD~~~~~~w~~lft~D~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~rv~~l~~~~~~~~~~~~~ 85 (160)
T cd00667 6 VEQFLYREARLLDDRRWDEWLALFAEDCHYWVPARENRERRDEDPGLELSAIYDDDRRMLEDRVVRLRTGRAWSEDPPSR 85 (160)
T ss_pred HHHHHHHHHHHhcccCHHHHHHhhccccEEEcceeechhhhccCCCCCeeEEEeCCHHHHHHHHHHHhcCCccccCCCCc
Confidence 4567777888899999999999999999996443321 1 358888888888777632 21 2
Q ss_pred eEEEEee--eeeCCCCeEEEEEEE
Q 023448 139 VKFSVEQ--VCEGDEFTAGINWHL 160 (282)
Q Consensus 139 lrfvIed--I~egDG~aVavrW~l 160 (282)
.+..+.. |...+|+.+.++..+
T Consensus 86 ~rH~vsn~~i~~~~~d~a~~~s~~ 109 (160)
T cd00667 86 TRHLVSNVRVLEGDGGEIEVRSNF 109 (160)
T ss_pred ceEEEccEEEEecCCCEEEEEEEE
Confidence 3333332 333456776665543
No 30
>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=94.51 E-value=1.6 Score=35.11 Aligned_cols=61 Identities=20% Similarity=0.341 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEee
Q 023448 80 ASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQ 145 (282)
Q Consensus 80 a~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIed 145 (282)
+.+-|++||..++ .|.+.+..++.+|..+--.. ..+..|+++|.+++..+-. ...++.+..
T Consensus 6 ~~~Fv~~YY~~l~-~~~~~L~~fY~~~s~~~~~~-~~~~~g~~~I~~~l~~lp~---~~~~~~i~~ 66 (119)
T cd00780 6 AKAFVQQYYSIFD-NNREGLHRLYGDTSMLSREG-MKQVTGRDAIVEKLSSLPF---QKTKHKITT 66 (119)
T ss_pred HHHHHHHHHHHHh-cCHHHHHhhcCCCcEEEECC-ceEecCHHHHHHHHHhCCC---cceEEEEEE
Confidence 4677999999999 78999999999999984332 3578999999998876531 145666654
No 31
>COG3558 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=92.16 E-value=0.033 Score=47.58 Aligned_cols=88 Identities=15% Similarity=0.325 Sum_probs=60.7
Q ss_pred CCCCCCCHHHH---HHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeeeC
Q 023448 73 IEIVPFSASNT---IREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCEG 149 (282)
Q Consensus 73 ~~~~~~sa~eV---VrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~eg 149 (282)
++++|.+++.. |+---++||.+|++.+.=-+++|-++.+-+ +-++|+|.+.+|+..-++-= .+.+.+ .++-+=
T Consensus 4 ppvppft~eta~~kvr~aed~wnsrdp~kv~layt~ds~wrnra--ef~~gre~i~~fl~rkw~re-~~yrli-kelwaf 79 (154)
T COG3558 4 PPVPPFTAETAIQKVRMAEDAWNSRDPAKVALAYTEDSFWRNRA--EFFQGREKIQEFLTRKWDRE-LEYRLI-KELWAF 79 (154)
T ss_pred CCCCCchHHHHHHHHHHhHhccccCChhheeeeeccchhhhhHH--HHHccHHHHHHHHHhhhhHH-HHHHHH-HHHHhh
Confidence 34556655544 455566899999999999999999985432 34799999999998765321 122222 222223
Q ss_pred CCCeEEEEEEEEEcC
Q 023448 150 DEFTAGINWHLEWKG 164 (282)
Q Consensus 150 DG~aVavrW~lEW~G 164 (282)
.|++++|+...||.+
T Consensus 80 ~gnriavrfayew~d 94 (154)
T COG3558 80 TGNRIAVRFAYEWHD 94 (154)
T ss_pred cCCeEEEEEeEeeec
Confidence 478999999999975
No 32
>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=91.81 E-value=0.62 Score=35.63 Aligned_cols=31 Identities=13% Similarity=0.435 Sum_probs=24.1
Q ss_pred CCHHHHHHHHHHHHhccCHHHHhhcccCCee
Q 023448 78 FSASNTIREFYACINEKNLERLETYISDDCC 108 (282)
Q Consensus 78 ~sa~eVVrrfyeA~N~~Dleal~eL~AdDcV 108 (282)
.+|.++++.|++|+++||.+++.++++++-.
T Consensus 7 ~~P~~~v~~f~~al~~gd~~~a~~~~~~~~~ 37 (111)
T PF12870_consen 7 STPEEVVKNFFDALKNGDYEKAYAYLSPESR 37 (111)
T ss_dssp --HHHHHHHHHHHHCTT-HHHHHHTB--TT-
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHhhCcccc
Confidence 4899999999999999999999999998765
No 33
>PRK10069 3-phenylpropionate dioxygenase subunit beta; Provisional
Probab=91.41 E-value=6.7 Score=34.39 Aligned_cols=55 Identities=11% Similarity=0.044 Sum_probs=39.3
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccC--------------------HHHHHHHHHHHHH
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQG--------------------KKEVMQFLEQLVT 133 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~G--------------------reaVr~ff~~~~~ 133 (282)
...+++-++-.+++++|.++..+||++||+|.-|..+.+..| ++.+++.+..+..
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 344556666667899999999999999999864433333333 5777888887753
No 34
>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=87.89 E-value=6.3 Score=34.78 Aligned_cols=114 Identities=13% Similarity=0.161 Sum_probs=66.2
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeee----ecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeee-CCCCe
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCF----EDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCE-GDEFT 153 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVy----eD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~e-gDG~a 153 (282)
.+.+.|++|+. -...|-=.=-+||+||-.- .|...|--++|++..+++-.-..+.|| |.+|.--.+.+ .|++.
T Consensus 19 ~NR~~Ve~Ym~-t~g~~RL~Rh~LF~eDG~~glwtTdtG~Piv~~G~~~L~~havwslkcFP-DWeW~nv~ifeT~DP~~ 96 (162)
T PF03284_consen 19 INRATVEQYMN-TKGQDRLRRHELFTEDGCGGLWTTDTGEPIVIRGRDRLAEHAVWSLKCFP-DWEWYNVRIFETQDPNH 96 (162)
T ss_dssp HHHHHHHHHHC---GGGGGGGGGGEEEEEEEEESS-TTSS-EEEESHHHHHHHHHHHHHHST-T-EEEEEEEEEBSSTTE
T ss_pred hhHHHHHHHHH-cCchhhhhhheeeccCCccccccCCCCceEEEEhHHHHHHHHHHHHHHCC-CcEEEEEEeecccCCCE
Confidence 34566666665 2222222335799999875 344444458999999999999999998 89998777666 55665
Q ss_pred EEEEEEEEEcCcc-cc---CC--CceEEEEEeecCceEEEEEeeeeccCCC
Q 023448 154 AGINWHLEWKGKQ-VP---FT--RGCSFYECSLEGETLLIKKARVVIESPI 198 (282)
Q Consensus 154 VavrW~lEW~G~~-lP---~t--RGcSFyri~~~~GKIvI~y~rd~~E~~i 198 (282)
+-|...-+ |+- +| -+ +-.-.+-++-++|||. .-|.++.|--
T Consensus 97 fwVEcdG~--G~i~fpGypeg~y~NHfiHsFel~nGkI~--~~REFmNp~q 143 (162)
T PF03284_consen 97 FWVECDGR--GKILFPGYPEGYYENHFIHSFELENGKIK--RNREFMNPFQ 143 (162)
T ss_dssp EEEEEEEE--EEE--TTS--EEEEEEEEEEEEEETTEEE--EEEEEE-HHH
T ss_pred EEEEecCc--cceecCCCCcccceeeeEEEEEeeCCEEE--eehhhcCHHH
Confidence 53333322 221 22 11 1111222344679988 5788887743
No 35
>PF11533 DUF3225: Protein of unknown function (DUF3225); InterPro: IPR024507 This family of proteins has no known function.; PDB: 2OWP_A 2RCD_B.
Probab=87.60 E-value=3.7 Score=35.03 Aligned_cols=68 Identities=7% Similarity=0.084 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeee
Q 023448 80 ASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCE 148 (282)
Q Consensus 80 a~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~e 148 (282)
..+...+|.+|+..+|++.+++||.+|-.---....+...|.++|++|=..--.+-| +-+..-..|..
T Consensus 12 v~aaf~~YE~AL~~nDv~~Ld~lFw~~p~TvRyg~~E~LyG~~aI~aFR~~R~~~~~-~R~l~~~~itt 79 (125)
T PF11533_consen 12 VTAAFDRYERALMANDVDALDALFWDDPRTVRYGAGENLYGHDAIRAFRAARPGGGP-ARTLERTVITT 79 (125)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHCB--STT-EEEETTEEEESHHHHHHHHHHS--TTT-T-EEEEEEEEE
T ss_pred HHHHHHHHHHHHhhCCHHHHHHHhccCCceEEECCCccccCHHHHHHHHhcCCCCCC-CcEEEEEEEEE
Confidence 346678999999999999999999887542222345678999999876554323323 33443333443
No 36
>PF11453 DUF2950: Protein of unknown function (DUF2950); InterPro: IPR021556 This is a bacterial family of uncharacterised proteins.
Probab=79.00 E-value=5.1 Score=38.21 Aligned_cols=52 Identities=10% Similarity=0.173 Sum_probs=43.4
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHH
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVT 133 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~ 133 (282)
+|++.+..|.+|+..+|.++|.+++.+|.. +...++. .+++.+.+|.+...+
T Consensus 6 tPe~Aa~Al~~Av~~~d~~aL~~vLG~~~~--~~vp~~~-~d~~~~~~Fl~~w~~ 57 (271)
T PF11453_consen 6 TPEAAADALVDAVATNDEDALAKVLGPDWR--DLVPSGG-ADREDRYRFLRAWAE 57 (271)
T ss_pred CHHHHHHHHHHHHhcCCHHHHHHHhCccHH--hccCCCC-ccHHHHHHHHHHHHh
Confidence 789999999999999999999999999975 3444433 679999999888754
No 37
>KOG4457 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.68 E-value=9.4 Score=34.53 Aligned_cols=85 Identities=18% Similarity=0.249 Sum_probs=56.9
Q ss_pred hcccCCeeeecCCCCCCccCHHHHHHHHHHHH---HHcCCCeEEEEeeeee-CCCCeEEEEEEEEEcC------------
Q 023448 101 TYISDDCCFEDCSFPKPFQGKKEVMQFLEQLV---TSMGQNVKFSVEQVCE-GDEFTAGINWHLEWKG------------ 164 (282)
Q Consensus 101 eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~---~AfP~DlrfvIedI~e-gDG~aVavrW~lEW~G------------ 164 (282)
.+++.|++|+|-.+...-+|++....-|.-.. ..+=+.+++++-.++. -|..+|-.||++..-.
T Consensus 57 S~Ys~dvvf~n~I~~v~t~G~~~y~~~~~~~rtlg~~~~ahv~~EvL~vt~h~d~~Tvr~RWRv~gvsv~~~f~~~~l~~ 136 (202)
T KOG4457|consen 57 SFYSKDVVFDNQIFSVETRGIEQYMSHFGMIRTLGQVFLAHVEMEVLSVTPHIDEGTVRCRWRVKGVSVTRIFMNPRLLR 136 (202)
T ss_pred eeecCCeEEeecccceeehhHHHHHHHHHHHHHHHHHhhhheeeEeEeecccCCCceEEEEEEEecceEeeeeechHHhh
Confidence 48999999999988877799987765444332 1222368888877655 4567888999984321
Q ss_pred -----ccccCCCceEEEEEeecCceEE
Q 023448 165 -----KQVPFTRGCSFYECSLEGETLL 186 (282)
Q Consensus 165 -----~~lP~tRGcSFyri~~~~GKIv 186 (282)
+.+..-.|-|.+.+++ +|-|.
T Consensus 137 ~de~~~~~swyDgYSv~yl~~-~GlI~ 162 (202)
T KOG4457|consen 137 FDERMQNLSWYDGYSVLYLDG-NGLIY 162 (202)
T ss_pred HHHHhcccccccceeEEEECC-CceEE
Confidence 1122226899999975 55554
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=76.46 E-value=49 Score=28.49 Aligned_cols=105 Identities=13% Similarity=0.220 Sum_probs=57.5
Q ss_pred HHHHHHHHHHhccCHHHHhhcccCCeeeecCCC-C------CC--------ccCHHHHHHHHHHHHH-----HcCCCeE-
Q 023448 82 NTIREFYACINEKNLERLETYISDDCCFEDCSF-P------KP--------FQGKKEVMQFLEQLVT-----SMGQNVK- 140 (282)
Q Consensus 82 eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~-p------~P--------~~GreaVr~ff~~~~~-----AfP~Dlr- 140 (282)
+.+-++-..++++|.++-.+++++||.|.-|.. + .| ..++..++.-..++.+ ..|+...
T Consensus 3 ~~l~~ea~llD~~~~~~W~~lf~~d~~Y~vP~~~~~~~~~~d~~~~~~li~~d~~~~L~~RV~rl~~~~a~s~~P~srtr 82 (155)
T TIGR03231 3 QFLYRKAELCDAQDWDAYLDLFDEDSEFHLPQWISEHNYTRDPKRELSLIYYEDRSGLEDRVFRIRTGKAASTTPMPRTL 82 (155)
T ss_pred hHHHHHHHHhcccCHHHHHHHhCcCceEEeeccCCccccccCCCCCceEEEcCChhHHHHHHHHHhCCCeeecCCCCeeE
Confidence 445566667899999999999999998854331 0 11 3455555666666643 3564422
Q ss_pred EEEee--eeeCCCCeEEE--EEEE-EEc-CccccCCCceEEEEEeecCceEEE
Q 023448 141 FSVEQ--VCEGDEFTAGI--NWHL-EWK-GKQVPFTRGCSFYECSLEGETLLI 187 (282)
Q Consensus 141 fvIed--I~egDG~aVav--rW~l-EW~-G~~lP~tRGcSFyri~~~~GKIvI 187 (282)
..+.. |.+.+++.+.+ .+++ +.. ++.--+. |...|++...+|.+.|
T Consensus 83 h~vsnv~v~~~~~~~i~v~s~f~~~~~r~~~~~~~~-g~~~~~Lrr~~~g~kI 134 (155)
T TIGR03231 83 HNIHNVRIAELEDGLLRVRVNWRTLFNRLGLEGCFY-GHATYVLKPTGDSWLI 134 (155)
T ss_pred EEEcCEEEEecCCCEEEEEEEEEEEEEcCCCcEEEE-EEEEEEEEEeCCEEEE
Confidence 33322 33344444444 3432 222 2222222 6666777644554444
No 39
>PF14975 DUF4512: Domain of unknown function (DUF4512)
Probab=59.58 E-value=8.8 Score=30.92 Aligned_cols=26 Identities=31% Similarity=0.675 Sum_probs=21.3
Q ss_pred hhHHHHHHHHHHHHhhhhhhHhHHHH
Q 023448 229 PHVISTFLLKAYTIFLAPFVRPILAG 254 (282)
Q Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 254 (282)
|=-+|=.++-||++||.|+|-|++.-
T Consensus 4 PCivIPvLLwIykkFlqP~i~~~~sp 29 (88)
T PF14975_consen 4 PCIVIPVLLWIYKKFLQPYIYPFWSP 29 (88)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHhCc
Confidence 33467788999999999999988765
No 40
>PLN02382 probable sucrose-phosphatase
Probab=58.91 E-value=1e+02 Score=30.63 Aligned_cols=64 Identities=16% Similarity=0.181 Sum_probs=48.9
Q ss_pred HHHHH--HHHHHHHhccC-------HHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCC--eEEEEeee
Q 023448 80 ASNTI--REFYACINEKN-------LERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQN--VKFSVEQV 146 (282)
Q Consensus 80 a~eVV--rrfyeA~N~~D-------leal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~D--lrfvIedI 146 (282)
..+|| ..+|+.|=+++ ++.+.+.+++|+++=.+. +.....++..+.|+..+..-| + +++.|+++
T Consensus 284 ~~evv~~~~~~e~W~~~~~~~~~~~~~~l~~~~~p~~~~v~p~--G~~~~~~~~~~~~~~~~G~~~-g~~~~i~vd~~ 358 (413)
T PLN02382 284 AHEVVKFYLFYEKWRRGEVENSDEVFQRLKSSCAPNGVFVHPS--GVEKSLHDSIDELRSCYGDKK-GKKFRVWVDRV 358 (413)
T ss_pred HHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHhcCCCeeEECCC--cccCCHHHHHHHHHHhhCCCC-CCEEEEEEeeE
Confidence 55555 56677886655 778999999999985443 455778899999999997776 6 88888874
No 41
>PF08869 XisI: XisI protein; InterPro: IPR014968 The fdxN element, along with two other DNA elements, is excised from the chromosome during heterocyst differentiation in cyanobacteria. The xisH as well as the xisF and xisI genes are required []. ; PDB: 3D7Q_A 2NWV_A 2NVM_A 2NLV_B.
Probab=57.55 E-value=80 Score=26.41 Aligned_cols=68 Identities=15% Similarity=0.263 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHcCCCeEEEEeeeeeCCCCeEEEEEEEEEcCccccCCCceEEEEEeecCceEEEEEeeeecc
Q 023448 122 KEVMQFLEQLVTSMGQNVKFSVEQVCEGDEFTAGINWHLEWKGKQVPFTRGCSFYECSLEGETLLIKKARVVIE 195 (282)
Q Consensus 122 eaVr~ff~~~~~AfP~DlrfvIedI~egDG~aVavrW~lEW~G~~lP~tRGcSFyri~~~~GKIvI~y~rd~~E 195 (282)
+-+++.+++..+--|.+-.++.+-|++.+.+.- .-.++.|.+..- ..||.++ ++-.+|||+|. +|-.|
T Consensus 9 ~iI~~iL~~ya~~~~~~~~ie~~~ifD~e~dhY-ll~~~GW~~~~r--i~g~~iH-~dI~dgKIWIq--~d~TE 76 (111)
T PF08869_consen 9 QIIKQILEEYAQIKPSNGDIETQLIFDTERDHY-LLMSVGWDNQRR--IHGCLIH-LDIKDGKIWIQ--RDGTE 76 (111)
T ss_dssp HHHHHHHHHHHHHCHSSTCEEEEEEEETTTTEE-EEEEEEEETTEE--EEEEEEE-EEEETTEEEEE--EESSS
T ss_pred HHHHHHHHHHhcCCCCCCCeEEEEEEeCCCCEE-EEEEeeEECCEE--EEEEEEE-EEEECCeEEEE--cCchh
Confidence 345556665554434455566666665443332 234678987543 2588765 88889999985 34444
No 42
>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=56.65 E-value=9 Score=37.17 Aligned_cols=51 Identities=24% Similarity=0.466 Sum_probs=39.8
Q ss_pred CCCCCHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHH
Q 023448 75 IVPFSASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQ 130 (282)
Q Consensus 75 ~~~~sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~ 130 (282)
+.-.++.+||++|...++.|.+.. =++|||+.- .++.-++|..+|.-|++.
T Consensus 6 ~~~~tp~evi~~Fi~~vddG~iRr---dLaeDCILS--~~gR~VrGa~AVTGflRt 56 (334)
T PF06020_consen 6 EHKETPSEVIHEFIQGVDDGTIRR---DLAEDCILS--FYGRNVRGAKAVTGFLRT 56 (334)
T ss_pred hcccCHHHHHHHHHhhcCcccHhh---hhhhhHhHH--HhccccccchhhHHHHHH
Confidence 344589999999999999888654 358999962 345578999999988864
No 43
>PF07217 Het-C: Heterokaryon incompatibility protein Het-C; InterPro: IPR010816 In filamentous fungi, het loci (for heterokaryon incompatibility) are believed to regulate self/nonself-recognition during vegetative growth. As filamentous fungi grow, hyphal fusion occurs within an individual colony to form a network. Hyphal fusion can occur also between different individuals to form a heterokaryon, in which genetically distinct nuclei occupy a common cytoplasm. However, heterokaryotic cells are viable only if the individuals involved have identical alleles at all het loci [].
Probab=56.56 E-value=22 Score=37.44 Aligned_cols=51 Identities=24% Similarity=0.322 Sum_probs=36.7
Q ss_pred HHHHHHHHHHhhhhchhHHHHhhcChhHHHHHHHHHHHHhhhhhhHhHHHHHHHH
Q 023448 204 VLTLLKNLTSLSDDFPKATEWLLNSPHVISTFLLKAYTIFLAPFVRPILAGYINM 258 (282)
Q Consensus 204 ~l~~l~~vt~l~~~fp~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 258 (282)
.=.+.|.++..+++-|-|.+.+- .|.+.+..+--++|||||.|++..-...
T Consensus 385 rD~i~k~I~~~IekIPgL~~l~e----~i~e~l~~fVfs~laPfi~Pii~q~~~~ 435 (606)
T PF07217_consen 385 RDRIMKSISEAIEKIPGLESLIE----KISEQLTVFVFSLLAPFIRPIIKQVSSE 435 (606)
T ss_pred HHHHHHHHHHHHhcCCCcHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33677888888889888887764 4445555555678999999998755443
No 44
>PHA00099 minor capsid protein
Probab=44.55 E-value=27 Score=30.27 Aligned_cols=35 Identities=26% Similarity=0.371 Sum_probs=26.1
Q ss_pred HHHHHHHHHHhhhhch-hHHHHhhcChhHHHHHHHH
Q 023448 204 VLTLLKNLTSLSDDFP-KATEWLLNSPHVISTFLLK 238 (282)
Q Consensus 204 ~l~~l~~vt~l~~~fp-~~a~~~l~~~~~~~~~~~~ 238 (282)
+|.++--+-..||.+| ++-++|-|+||+.+|++.+
T Consensus 66 Al~~V~~~qeaFdsLPA~iR~~F~NdP~eml~~L~d 101 (147)
T PHA00099 66 ALNVVIEAQEAFDSLPAKIRERFGNDPEEMLDFLSD 101 (147)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHhCCCHHHHHHHHcC
Confidence 3444444556777777 5788999999999999864
No 45
>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=44.05 E-value=2.1e+02 Score=24.64 Aligned_cols=98 Identities=14% Similarity=0.226 Sum_probs=52.6
Q ss_pred HHhccCHHHHhhcccCCeeeecCC------------CCCC---ccCHHHHHHHHHHHH-----HHcCCC-eEEEEee--e
Q 023448 90 CINEKNLERLETYISDDCCFEDCS------------FPKP---FQGKKEVMQFLEQLV-----TSMGQN-VKFSVEQ--V 146 (282)
Q Consensus 90 A~N~~Dleal~eL~AdDcVyeD~~------------~p~P---~~GreaVr~ff~~~~-----~AfP~D-lrfvIed--I 146 (282)
.+++++.++=.+|++|||.|.=|. .+.. ..++...+.-..++. +..|+. .+..|.. +
T Consensus 11 LLD~~~~~eWl~L~~eD~~Y~vP~~~~~~~~~~~~~~~~~~~~~d~~~~L~~RV~rL~t~~a~se~P~srtrh~vsnv~v 90 (155)
T TIGR03232 11 LLDDEQWDDWLECYRADASFWMPAWDDDDQLTEDPQSEISLIYYPNRQGLEDRVFRIKTERSSATVPDTRTSHNISNVEI 90 (155)
T ss_pred HhhhhhHHHHHHhcccCeEEEEEeeeCccccccCCCCceeEEEcCChhHHHHHHHHHhcCCceecCCCCeeeEEEcCEEE
Confidence 369999999999999999874332 1111 256766666666663 344533 2233332 3
Q ss_pred eeCCCCeEEE--EEEE-EEcCccccCCCceEEEEEeecCceEEE
Q 023448 147 CEGDEFTAGI--NWHL-EWKGKQVPFTRGCSFYECSLEGETLLI 187 (282)
Q Consensus 147 ~egDG~aVav--rW~l-EW~G~~lP~tRGcSFyri~~~~GKIvI 187 (282)
.+.+|+.+.+ .+++ +.....-...-|..-|++...+|.+.|
T Consensus 91 ~~~~~~~i~v~s~f~v~~~R~~~~~~~~g~~~~~Lr~~~~~~ki 134 (155)
T TIGR03232 91 EEQDGDVITVRFNWHTLSFRYKTTDSYFGMSRYTIDFSGESPKI 134 (155)
T ss_pred EecCCCEEEEEEEEEEEEEcCCCeEEEEEEEEEEEEEcCCeeEE
Confidence 3344443333 4433 333222222246666677654554443
No 46
>TIGR02763 chlamy_scaf chlamydiaphage internal scaffolding protein. Members of this protein family are encoded by genes in chlamydiaphage such as Chp2, viruses with around eight genes that infect obligately intracellular bacterial pathogens of the genus Chlamydia. This protein, initially designated VP3 (as if a structural protein of mature viral particles), is displaced from procapsids as DNA is packaged, and therefore is described as a scafolding protein.
Probab=41.24 E-value=42 Score=28.08 Aligned_cols=34 Identities=24% Similarity=0.322 Sum_probs=25.1
Q ss_pred HHHHHHHHHhhhhch-hHHHHhhcChhHHHHHHHH
Q 023448 205 LTLLKNLTSLSDDFP-KATEWLLNSPHVISTFLLK 238 (282)
Q Consensus 205 l~~l~~vt~l~~~fp-~~a~~~l~~~~~~~~~~~~ 238 (282)
|.++--+-..||.+| +.-++|-|+||+.+|++..
T Consensus 37 ln~Vie~~eaFdsLPAkvRe~FgNdPeeml~~L~d 71 (114)
T TIGR02763 37 LNIVIEGEEAFDSLPAKVRENFGNDPEEMLSWLED 71 (114)
T ss_pred HHHHHHHHHHHHHhhHHHHHHhCCCHHHHHHHHhC
Confidence 444444456677777 5678899999999999864
No 47
>PF05499 DMAP1: DNA methyltransferase 1-associated protein 1 (DMAP1); InterPro: IPR008468 DNA methylation can contribute to transcriptional silencing through several transcriptionally repressive complexes, which include methyl-CpG binding domain proteins (MBDs) and histone deacetylases (HDACs). The chief enzyme that maintains mammalian DNA methylation, DNMT1, can also establish a repressive transcription complex. The non-catalytic N terminus of DNMT1 binds to HDAC2 and DMAP1 (for DNMT1 associated protein), and can mediate transcriptional repression. DMAP1 has intrinsic transcription repressive activity, and binds to the transcriptional co-repressor TSG101. DMAP1 is targeted to replication foci through interaction with the far N terminus of DNMT1 throughout S phase, whereas HDAC2 joins DNMT1 and DMAP1 only during late S phase, providing a platform for how histones may become deacetylated in heterochromatin following replication [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=41.11 E-value=24 Score=31.82 Aligned_cols=59 Identities=19% Similarity=0.334 Sum_probs=46.2
Q ss_pred eeeeeecccCcccccCCCCchhhhhhccccchhhcccchhhhhhcCCCccccCCCCCCCCCCCCCHHHHHHHHHHH
Q 023448 15 RLCFRALGGNGIVLNSLPSKISCQLMQNTSKIEHHGISIRSLAKCKPSTLVPSASDDSIEIVPFSASNTIREFYAC 90 (282)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~sa~eVVrrfyeA 90 (282)
.|-|.-.=++|..|+|.=.|-+++.-|++.+.-.. ++.+. ..+++||...+|++.|.+-
T Consensus 78 gikFpd~k~~GV~LRSq~mklp~~vGqKk~K~iEq--~L~el---------------gv~~~PmPTe~Ic~~fneL 136 (176)
T PF05499_consen 78 GIKFPDFKSAGVHLRSQRMKLPSSVGQKKTKAIEQ--FLQEL---------------GVDLNPMPTEEICQEFNEL 136 (176)
T ss_pred ccccccccCCceEeeecccccCcchhhHHHHHHHH--HHHHc---------------CCCCCCCChHHHHHHHHHH
Confidence 45565556789999999999999999999987554 34444 4567889999999988774
No 48
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=40.46 E-value=1.7e+02 Score=29.71 Aligned_cols=106 Identities=10% Similarity=0.185 Sum_probs=71.1
Q ss_pred HHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCC---CccCHHHHHHHHHHHHHHcCCCeEEEEeeeee----CCCC
Q 023448 80 ASNTIREFYACINEKNLERLETYISDDCCFEDCSFPK---PFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCE----GDEF 152 (282)
Q Consensus 80 a~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~---P~~GreaVr~ff~~~~~AfP~DlrfvIedI~e----gDG~ 152 (282)
..+.|+.||.-++ ..++.|..+|.+|-++-.+...+ -+.|.++|.+..-.+ -+. +.+++|..+.. .+|-
T Consensus 17 g~~Fv~qYY~~L~-~~P~~lhrfY~~~S~ltr~~~dg~m~s~t~~~~I~~~i~sl--d~~-~~s~eI~tvdsQ~S~~~Gv 92 (419)
T KOG0116|consen 17 GNEFVRQYYNVLQ-NSPSKLHRFYMDDSVLTRPGLDGKMVSVTGLEAIHEKIMSL--DYE-VCSVEISTVDSQASLEKGV 92 (419)
T ss_pred HHHHHHHHHHHHh-hChHHHHHHhhccceeeccCCCCceEEEecHHHhhhheeec--CCC-ceeEEEEEEehhhhccCCe
Confidence 4466888888775 47889999999999986555443 478899987766555 222 45777755433 4577
Q ss_pred eEEEEEEEEEcCccc-cC------C-CceEEEEEeecCceEEEEEeeeec
Q 023448 153 TAGINWHLEWKGKQV-PF------T-RGCSFYECSLEGETLLIKKARVVI 194 (282)
Q Consensus 153 aVavrW~lEW~G~~l-P~------t-RGcSFyri~~~~GKIvI~y~rd~~ 194 (282)
.|-|+=.+.|++++. .| . .+-+||-+++ .|||+++..
T Consensus 93 vI~VtG~lt~~~~~rRkF~QtFfLapq~~~yfVlND-----iFRfvde~~ 137 (419)
T KOG0116|consen 93 VIMVTGYLTNKDGPRRKFSQTFFLAPQEKGYFVLND-----IFRFVDEEF 137 (419)
T ss_pred EEEEEEEEEeCCCcceEEEEEEEEeecCCceEEEec-----hhhhccccc
Confidence 777777888887542 11 1 3446776654 588888664
No 49
>PF12971 NAGLU_N: Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; InterPro: IPR024240 Alpha-N-acetylglucosaminidase, is a lysosomal enzyme required for the stepwise degradation of heparan sulphate []. Mutations on the alpha-N-acetylglucosaminidase (NAGLU) gene can lead to Mucopolysaccharidosis type IIIB (MPS IIIB; or Sanfilippo syndrome type B) characterised by neurological dysfunction but relatively mild somatic manifestations []. The structure shows that the enzyme is composed of three domains. This entry represents the N-terminal domain of Alpha-N-acetylglucosaminidase which has an alpha-beta fold [].; PDB: 4A4A_A 2VC9_A 2VCC_A 2VCB_A 2VCA_A.
Probab=40.31 E-value=75 Score=24.75 Aligned_cols=18 Identities=22% Similarity=0.477 Sum_probs=14.6
Q ss_pred CceEEEEEee-cCceEEEE
Q 023448 171 RGCSFYECSL-EGETLLIK 188 (282)
Q Consensus 171 RGcSFyri~~-~~GKIvI~ 188 (282)
+|.+.|+++. .+|||+|+
T Consensus 29 ~~~d~F~l~~~~~gki~I~ 47 (86)
T PF12971_consen 29 NGKDVFELSSADNGKIVIR 47 (86)
T ss_dssp TTBEEEEEEE-SSS-EEEE
T ss_pred CCCCEEEEEeCCCCeEEEE
Confidence 4788899997 99999986
No 50
>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=37.75 E-value=17 Score=29.85 Aligned_cols=29 Identities=14% Similarity=0.249 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHhccCHHHHhhcccCCee
Q 023448 80 ASNTIREFYACINEKNLERLETYISDDCC 108 (282)
Q Consensus 80 a~eVVrrfyeA~N~~Dleal~eL~AdDcV 108 (282)
++++.....+||.++|.+.+.+++++++.
T Consensus 24 ak~~f~~i~~A~~~~D~~~l~~~~t~~~~ 52 (147)
T PF04280_consen 24 AKEAFLPIQEAWAKGDLEALRPLLTEELY 52 (147)
T ss_dssp HHHTHHHHHHHHHHT-HHHHHHHB-HHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHhCHHHH
Confidence 55666778889999999999999998874
No 51
>COG4460 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.38 E-value=78 Score=26.98 Aligned_cols=53 Identities=9% Similarity=0.142 Sum_probs=39.2
Q ss_pred ccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHHHHHcCCCeEEEEeeeee
Q 023448 93 EKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQLVTSMGQNVKFSVEQVCE 148 (282)
Q Consensus 93 ~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~~~AfP~DlrfvIedI~e 148 (282)
.+-+|++..=|++|...-.| .+-.-.++++-++|+.-... .+++.++||++.-
T Consensus 25 adtldal~arfaedftMitP--~GviLD~~Alg~~frs~rac-rpGl~I~ie~i~l 77 (130)
T COG4460 25 ADTLDALRARFAEDFTMITP--SGVILDRDALGDHFRSSRAC-RPGLAISIEDIRL 77 (130)
T ss_pred cccHHHHHHHHhcCceEecC--CceEeccHHHHHHHHhccCC-CCCeEEEEecccc
Confidence 44577777778888876433 24567889999999998864 4589999998543
No 52
>PF09675 Chlamy_scaf: Chlamydia-phage Chp2 scaffold (Chlamy_scaf); InterPro: IPR014131 Members of this entry are encoded by genes in chlamydiaphage such as Vp3. These viruses have around eight genes and infect obligately intracellular bacterial pathogens of the genus Chlamydia. This protein is annotated as VP3 or structural protein (as if a protein of mature viral particles), however, it is displaced from procapsids as DNA is packaged, and therefore is more correctly described as a scaffolding protein.
Probab=32.00 E-value=76 Score=26.77 Aligned_cols=34 Identities=24% Similarity=0.393 Sum_probs=28.9
Q ss_pred HHHHHHHHHHhhhhch-hHHHHhhcChhHHHHHHH
Q 023448 204 VLTLLKNLTSLSDDFP-KATEWLLNSPHVISTFLL 237 (282)
Q Consensus 204 ~l~~l~~vt~l~~~fp-~~a~~~l~~~~~~~~~~~ 237 (282)
+|.++.-+-.+||.+| +.-++|-|+|++.++|+.
T Consensus 36 Aln~V~e~~eaFd~LPa~iRe~F~N~P~efl~f~~ 70 (114)
T PF09675_consen 36 ALNMVAEANEAFDELPAHIRERFNNDPEEFLEFLN 70 (114)
T ss_pred HHHHHHHHHHHHHHchHHHHHHhCCCHHHHHHHHh
Confidence 5777777888999999 578889999999999875
No 53
>PF05120 GvpG: Gas vesicle protein G ; InterPro: IPR007804 Gas vesicles are intracellular, protein-coated, and hollow organelles found in cyanobacteria and halophilic archaea. They are permeable to ambient gases by diffusion and provide buoyancy, enabling cells to move upwards in water to access oxygen and/or light. Proteins containing this family are involved in the formation of gas vesicles [].
Probab=31.42 E-value=98 Score=24.35 Aligned_cols=38 Identities=13% Similarity=0.163 Sum_probs=34.2
Q ss_pred HHHHHHHhhhhchhHHHHhhcChhHHHHHHHHHHHHhh
Q 023448 207 LLKNLTSLSDDFPKATEWLLNSPHVISTFLLKAYTIFL 244 (282)
Q Consensus 207 ~l~~vt~l~~~fp~~a~~~l~~~~~~~~~~~~~~~~~~ 244 (282)
=+|+|.|+.++-=..|+.-+.+|..|-+-+..++..+-
T Consensus 8 Pvrgv~wv~e~I~~~Ae~E~~Dp~~i~~~L~~L~~~~e 45 (79)
T PF05120_consen 8 PVRGVVWVAEQIQEQAERELYDPAAIRRELAELQEALE 45 (79)
T ss_pred hHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHH
Confidence 36899999999999999999999999999998887653
No 54
>PF08989 DUF1896: Domain of unknown function (DUF1896); InterPro: IPR015082 This domain is found in a set of hypothetical bacterial proteins. ; PDB: 2APL_A.
Probab=30.57 E-value=30 Score=30.26 Aligned_cols=41 Identities=20% Similarity=0.180 Sum_probs=30.0
Q ss_pred CCCCchHHHHHHHHHHHhhhhchhHHHHhhcChhHHHHHHHHHHHHh
Q 023448 197 PIKPGGIVLTLLKNLTSLSDDFPKATEWLLNSPHVISTFLLKAYTIF 243 (282)
Q Consensus 197 ~iKpG~~~l~~l~~vt~l~~~fp~~a~~~l~~~~~~~~~~~~~~~~~ 243 (282)
+=++..+++++++.+.++|++|| +.|-+-.+|+ .-++|+-+
T Consensus 91 ~~~~~~~al~Llp~~~~vF~kY~-l~DdFa~sp~-----yd~LyTEL 131 (144)
T PF08989_consen 91 EEKRERFALKLLPACEPVFAKYE-LSDDFAYSPE-----YDLLYTEL 131 (144)
T ss_dssp TTHHHHHHHHHHHHHHHHHTTS----TTGGGSTH-----HHHHHHHH
T ss_pred cchHHHHHHHHHHHHHHHHhcCC-CCcccccchh-----HHHHHHHH
Confidence 34678999999999999999999 5666888886 34556543
No 55
>KOG0670 consensus U4/U6-associated splicing factor PRP4 [RNA processing and modification]
Probab=30.23 E-value=42 Score=35.64 Aligned_cols=36 Identities=31% Similarity=0.634 Sum_probs=33.7
Q ss_pred CceEEEEEeecCceEEEEEeeeeccCCCCCchHHHHHHHHHHHhhhhchh
Q 023448 171 RGCSFYECSLEGETLLIKKARVVIESPIKPGGIVLTLLKNLTSLSDDFPK 220 (282)
Q Consensus 171 RGcSFyri~~~~GKIvI~y~rd~~E~~iKpG~~~l~~l~~vt~l~~~fp~ 220 (282)
=||++|++ +.|||.| ||..-=-+||..+-+--+||+
T Consensus 621 vgctLYEl--YtGkIlF------------pG~TNN~MLrl~me~KGk~p~ 656 (752)
T KOG0670|consen 621 VGCTLYEL--YTGKILF------------PGRTNNQMLRLFMELKGKFPN 656 (752)
T ss_pred eceeeEEe--eccceec------------CCCCcHHHHHHHHHhcCCCcH
Confidence 69999999 8899997 999999999999999999997
No 56
>PF06847 Arc_PepC_II: Archaeal Peptidase A24 C-terminus Type II; InterPro: IPR009655 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This region is of unknown function, which is found at the C terminus of archaeal preflagellin aspartic acid signal peptidases []. The preflagellin peptidase is a membrane-bound enzyme topologically similar to its counterpart in the type IV pilus system (prepilin peptidase); the two enzymes utilizing the same catalytic mechanism []. The preflagellin peptidase is required for the removal of the leader peptide from archaeal flagellin []. Preflagellin aspartic acid signal peptidases belong to the MEROPS peptidase family A24B (preflagellin peptidase, clan AD).; GO: 0008233 peptidase activity; PDB: 3S0X_B.
Probab=27.54 E-value=34 Score=27.48 Aligned_cols=13 Identities=62% Similarity=1.076 Sum_probs=10.3
Q ss_pred hhhHhHHHHHHHH
Q 023448 246 PFVRPILAGYINM 258 (282)
Q Consensus 246 ~~~~~~~~~~~~~ 258 (282)
||+.|+.+||+=.
T Consensus 74 PFlvpIt~G~iia 86 (93)
T PF06847_consen 74 PFLVPITAGYIIA 86 (93)
T ss_dssp -THHHHHHHHHHH
T ss_pred cCHHHHHHHHHHH
Confidence 9999999999743
No 57
>PF02197 RIIa: Regulatory subunit of type II PKA R-subunit; InterPro: IPR003117 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 []. In the absence of cAMP, Protein Kinase A (PKA) exists as an equimolar tetramer of regulatory (R) and catalytic (C) subunits []. In addition to its role as an inhibitor of the C subunit, the R subunit anchors the holoenzyme to specific intracellular locations and prevents the C subunit from entering the nucleus. All R subunits have a conserved domain structure consisting of the N-terminal dimerization domain, inhibitory region, cAMP-binding domain A and cAMP-binding domain B. R subunits interact with C subunits primarily through the inhibitory site. The cAMP-binding domains show extensive sequence similarity and bind cAMP cooperatively. Two types of regulatory (R) subunits exist - types I and I - which differ in molecular weight, sequence, autophosphorylation cabaility, cellular location and tissue distribution. Types I and II were further sub-divided into alpha and beta subtypes, based mainly on sequence similarity. This entry represents types I-alpha, I-beta, II-alpha and II-beta regulatory subunits of PKA proteins. These subunits contain the dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).; GO: 0008603 cAMP-dependent protein kinase regulator activity, 0007165 signal transduction; PDB: 2IZY_E 1R2A_A 1L6E_A 2IZX_B 2KYG_A 2EZW_B 3IM4_B 3IM3_A 4F9K_C 2HWN_B ....
Probab=23.58 E-value=87 Score=21.03 Aligned_cols=31 Identities=23% Similarity=0.309 Sum_probs=19.9
Q ss_pred HHhhhhchhHHHHhhcChhHHHHHHHHHHHHhh
Q 023448 212 TSLSDDFPKATEWLLNSPHVISTFLLKAYTIFL 244 (282)
Q Consensus 212 t~l~~~fp~~a~~~l~~~~~~~~~~~~~~~~~~ 244 (282)
+.|++.| ..+-+.+.|..++||+..-++.+.
T Consensus 4 ~~lL~~~--~~~vl~~qP~Di~~F~a~yF~~L~ 34 (38)
T PF02197_consen 4 QELLKEF--TREVLREQPDDILQFAADYFEKLE 34 (38)
T ss_dssp HHHHHHH--HHHHHHH--S-HHHHHHHHHHHHH
T ss_pred HHHHHHH--HHHHHHHCCCcHHHHHHHHHHHHH
Confidence 3344443 357789999999999998887664
No 58
>KOG4353 consensus RNA export factor NXT1 [RNA processing and modification]
Probab=21.82 E-value=1.3e+02 Score=26.17 Aligned_cols=50 Identities=14% Similarity=0.346 Sum_probs=37.0
Q ss_pred CHHHHHHHHHHHHhccCHHHHhhcccCCeeeecCCCCCCccCHHHHHHHHHHH
Q 023448 79 SASNTIREFYACINEKNLERLETYISDDCCFEDCSFPKPFQGKKEVMQFLEQL 131 (282)
Q Consensus 79 sa~eVVrrfyeA~N~~Dleal~eL~AdDcVyeD~~~p~P~~GreaVr~ff~~~ 131 (282)
.+++.++.||+..+++ -..+.+|+-++...-- ...|..|.|.+-.||+.+
T Consensus 15 ~A~eFv~~YY~smD~r-R~~i~rlY~~~atlvW--NGn~v~g~esls~ff~~L 64 (139)
T KOG4353|consen 15 AAEEFVNVYYSSMDKR-RRGIGRLYLDNATLVW--NGNPVSGTESLSEFFNML 64 (139)
T ss_pred HHHHHHHHHHHHHHHH-HHHhHHHhhccceEEE--cCCcchhHHHHHHHHHhC
Confidence 4678899999988544 3678889988886421 245889999888777755
No 59
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=21.53 E-value=1e+02 Score=23.77 Aligned_cols=24 Identities=29% Similarity=0.717 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC
Q 023448 259 WNFIARLLGLAFNILIYILKIFSK 282 (282)
Q Consensus 259 ~~~~~~~~~~~~~~~~~~~~~~~~ 282 (282)
|+.|+-+..+++-.+-.+.++|||
T Consensus 33 W~aIGvi~gi~~~~lt~ltN~YFK 56 (68)
T PF04971_consen 33 WAAIGVIGGIFFGLLTYLTNLYFK 56 (68)
T ss_pred chhHHHHHHHHHHHHHHHhHhhhh
Confidence 999998888999999999999987
No 60
>cd07959 Anticodon_Ia_Leu_AEc Anticodon-binding domain of archaeal and eukaryotic cytoplasmic leucyl tRNA synthetases. This domain is found in leucyl tRNA synthetases (LeuRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain. In contrast to other class Ia enzymes, the anticodon is not used as an identity element in LeuRS (with exceptions such as Saccharomyces cerevisiae and some other eukaryotes). No anticodon-binding site can be defined for this family, which includes archaeal and eukaryotic cytoplasmic members. LeuRS catalyzes the transfer of leucine to the 3'-end of its tRNA.
Probab=21.44 E-value=2.2e+02 Score=21.87 Aligned_cols=23 Identities=35% Similarity=0.566 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHhhhhhhHhHHHHH
Q 023448 232 ISTFLLKAYTIFLAPFVRPILAGY 255 (282)
Q Consensus 232 ~~~~~~~~~~~~~~~~~~~~~~~~ 255 (282)
+.--+.+...++|+||+ |.++.+
T Consensus 90 ~~~~~l~~~~~lL~P~~-P~~aee 112 (117)
T cd07959 90 LLRRFIEVWTRLLAPFA-PHLAEE 112 (117)
T ss_pred HHHHHHHHHHHHHcCcc-hHhHHH
Confidence 45556677778888876 666665
Done!