Query 045966
Match_columns 145
No_of_seqs 126 out of 664
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 07:24:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045966.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045966hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02150 terpene synthase/cycl 100.0 7.1E-42 1.5E-46 241.7 10.4 95 35-130 1-96 (96)
2 cd00684 Terpene_cyclase_plant_ 100.0 1.9E-36 4.2E-41 267.1 11.5 124 1-127 418-542 (542)
3 PLN02279 ent-kaur-16-ene synth 100.0 1.4E-36 3E-41 276.9 10.7 126 1-132 652-780 (784)
4 PLN02592 ent-copalyl diphospha 99.6 5E-16 1.1E-20 142.6 9.0 98 12-129 701-800 (800)
5 cd00868 Terpene_cyclase_C1 Ter 99.6 5.7E-15 1.2E-19 118.3 9.1 99 3-103 186-284 (284)
6 PF03936 Terpene_synth_C: Terp 99.3 2E-12 4.2E-17 102.9 3.4 69 4-74 202-270 (270)
7 cd00687 Terpene_cyclase_nonpla 99.2 5.3E-11 1.2E-15 97.1 6.4 66 12-77 199-265 (303)
8 cd00385 Isoprenoid_Biosyn_C1 I 98.8 5.4E-09 1.2E-13 79.3 5.1 85 12-97 146-243 (243)
9 KOG1719 Dual specificity phosp 92.5 0.11 2.4E-06 40.3 2.6 62 12-75 93-165 (183)
10 COG3707 AmiR Response regulato 85.1 0.79 1.7E-05 36.4 2.6 49 20-68 126-175 (194)
11 PF12368 DUF3650: Protein of u 83.1 0.92 2E-05 25.1 1.6 18 46-63 9-26 (28)
12 cd00686 Terpene_cyclase_cis_tr 79.3 11 0.00025 32.5 7.6 73 23-99 222-295 (357)
13 PF03861 ANTAR: ANTAR domain; 76.1 1.8 3.9E-05 27.0 1.5 34 37-70 12-45 (56)
14 KOG1720 Protein tyrosine phosp 71.9 4 8.6E-05 33.0 2.9 28 38-65 159-187 (225)
15 smart00463 SMR Small MutS-rela 71.3 6.2 0.00014 25.9 3.3 23 51-73 7-29 (80)
16 PF01713 Smr: Smr domain; Int 70.3 6 0.00013 26.1 3.1 24 51-74 4-27 (83)
17 PTZ00393 protein tyrosine phos 62.9 8.5 0.00018 31.5 3.1 29 37-65 181-209 (241)
18 PF06330 TRI5: Trichodiene syn 62.5 23 0.00049 30.9 5.8 63 17-80 213-279 (376)
19 PF10397 ADSL_C: Adenylosuccin 60.5 14 0.00031 24.5 3.5 32 41-72 6-37 (81)
20 COG1308 EGD2 Transcription fac 59.4 10 0.00022 28.0 2.7 23 42-64 86-108 (122)
21 PF05402 PqqD: Coenzyme PQQ sy 55.8 24 0.00051 22.1 3.8 33 39-71 31-63 (68)
22 KOG4077 Cytochrome c oxidase, 54.6 92 0.002 23.6 7.2 85 13-99 4-97 (149)
23 smart00195 DSPc Dual specifici 51.3 19 0.00041 25.5 3.1 52 12-63 58-116 (138)
24 PF13798 PCYCGC: Protein of un 49.1 17 0.00037 28.0 2.6 68 14-86 62-157 (158)
25 PF12550 GCR1_C: Transcription 48.0 15 0.00032 24.6 1.9 30 35-64 50-79 (81)
26 PRK14744 leu operon leader pep 47.2 8.3 0.00018 21.1 0.5 18 12-29 10-27 (28)
27 COG1093 SUI2 Translation initi 46.4 43 0.00094 27.9 4.7 57 40-97 103-169 (269)
28 COG2511 GatE Archaeal Glu-tRNA 44.8 84 0.0018 29.0 6.6 77 40-123 456-532 (631)
29 cd00737 endolysin_autolysin En 44.1 89 0.0019 22.4 5.7 40 52-94 42-81 (133)
30 PF14805 THDPS_N_2: Tetrahydro 43.8 79 0.0017 20.9 4.9 33 60-95 1-33 (70)
31 PF13189 Cytidylate_kin2: Cyti 43.6 8.9 0.00019 29.1 0.3 40 39-79 123-162 (179)
32 PRK06369 nac nascent polypepti 43.3 24 0.00052 25.7 2.5 28 37-64 73-100 (115)
33 COG2937 PlsB Glycerol-3-phosph 42.7 44 0.00096 31.7 4.7 51 40-94 225-275 (810)
34 TIGR00264 alpha-NAC-related pr 42.4 26 0.00056 25.7 2.6 27 38-64 76-102 (116)
35 cd05175 PI3Kc_IA_alpha Phospho 42.2 21 0.00045 31.0 2.4 29 47-75 323-359 (366)
36 PHA01748 hypothetical protein 41.8 59 0.0013 20.6 3.9 32 41-72 14-46 (60)
37 PF03701 UPF0181: Uncharacteri 41.5 49 0.0011 20.8 3.4 46 25-72 2-47 (51)
38 PTZ00242 protein tyrosine phos 41.2 29 0.00062 26.3 2.8 29 37-65 109-138 (166)
39 PF02372 IL15: Interleukin 15; 40.7 12 0.00026 27.8 0.6 38 40-77 55-95 (135)
40 PF00782 DSPc: Dual specificit 39.5 25 0.00055 24.5 2.2 28 38-65 85-113 (133)
41 PF07741 BRF1: Brf1-like TBP-b 39.4 30 0.00066 24.0 2.5 27 44-79 4-30 (97)
42 COG3140 Uncharacterized protei 38.5 29 0.00063 22.3 2.0 49 26-76 3-51 (60)
43 cd05173 PI3Kc_IA_beta Phosphoi 38.4 37 0.00081 29.3 3.4 26 46-71 317-345 (362)
44 smart00400 ZnF_CHCC zinc finge 38.4 36 0.00078 20.8 2.5 22 41-62 33-54 (55)
45 cd00867 Trans_IPPS Trans-Isopr 37.7 1.4E+02 0.003 22.9 6.3 53 12-75 152-214 (236)
46 cd07921 PCA_45_Doxase_A_like S 37.0 35 0.00076 24.6 2.5 27 45-75 37-63 (106)
47 PF09682 Holin_LLH: Phage holi 37.0 28 0.00061 24.6 2.0 35 39-77 72-108 (108)
48 KOG0904 Phosphatidylinositol 3 36.7 33 0.00072 33.3 2.9 25 46-70 1033-1060(1076)
49 PHA02676 A-type inclusion prot 36.2 47 0.001 30.1 3.6 43 54-100 3-45 (520)
50 PF10249 NDUFB10: NADH-ubiquin 35.7 19 0.00041 26.8 1.0 14 38-51 107-120 (128)
51 PF03000 NPH3: NPH3 family; I 35.4 30 0.00066 28.5 2.3 18 42-59 224-242 (258)
52 KOG0871 Class 2 transcription 32.9 86 0.0019 24.0 4.2 25 48-72 109-133 (156)
53 COG2840 Uncharacterized protei 32.9 56 0.0012 25.7 3.3 38 36-75 89-126 (184)
54 cd00894 PI3Kc_IB_gamma Phospho 32.2 46 0.001 28.8 3.0 25 46-70 321-348 (365)
55 PF08285 DPM3: Dolichol-phosph 32.1 58 0.0013 22.6 3.0 21 55-75 66-86 (91)
56 cd00895 PI3Kc_C2_beta Phosphoi 32.0 46 0.00099 28.7 2.9 24 46-69 311-337 (354)
57 PRK13735 conjugal transfer mat 31.8 39 0.00085 32.9 2.7 30 36-65 586-615 (942)
58 PF08328 ASL_C: Adenylosuccina 31.5 53 0.0012 24.0 2.8 53 39-96 54-110 (115)
59 PHA02699 hypothetical protein; 31.5 1.4E+02 0.0029 26.5 5.6 50 40-96 380-430 (466)
60 PF09011 HMG_box_2: HMG-box do 31.4 33 0.00071 22.0 1.5 37 40-76 7-49 (73)
61 KOG4681 Uncharacterized conser 31.4 25 0.00054 29.3 1.1 24 12-35 222-245 (280)
62 cd05176 PI3Kc_C2_alpha Phospho 30.8 49 0.0011 28.5 2.9 25 46-70 310-337 (353)
63 cd05165 PI3Kc_I Phosphoinositi 30.3 52 0.0011 28.5 3.0 26 46-71 322-350 (366)
64 PF15581 Imm35: Immunity prote 30.1 45 0.00097 23.4 2.0 30 46-75 19-48 (93)
65 TIGR01806 CM_mono2 chorismate 30.0 96 0.0021 22.2 3.9 60 12-71 7-74 (114)
66 cd05174 PI3Kc_IA_delta Phospho 29.9 54 0.0012 28.4 3.0 25 46-70 317-344 (361)
67 TIGR02660 nifV_homocitr homoci 29.8 1E+02 0.0022 26.2 4.6 77 46-124 98-181 (365)
68 PF08519 RFC1: Replication fac 29.8 18 0.00038 27.4 0.0 46 39-92 104-149 (155)
69 cd07321 Extradiol_Dioxygenase_ 29.3 37 0.0008 22.7 1.5 27 45-75 27-53 (77)
70 PHA02896 A-type inclusion like 29.0 1E+02 0.0022 28.3 4.6 45 52-100 5-49 (616)
71 TIGR01542 A118_put_portal phag 28.3 72 0.0016 28.5 3.6 31 38-69 440-470 (476)
72 cd05177 PI3Kc_C2_gamma Phospho 28.1 58 0.0013 28.0 2.9 25 46-70 311-338 (354)
73 PF10540 Membr_traf_MHD: Munc1 28.0 97 0.0021 22.7 3.7 24 87-110 83-106 (137)
74 cd05166 PI3Kc_II Phosphoinosit 27.6 60 0.0013 27.9 2.9 25 46-70 310-337 (353)
75 cd00891 PI3Kc Phosphoinositide 27.3 62 0.0013 27.7 2.9 30 42-72 306-338 (352)
76 PRK04946 hypothetical protein; 26.4 86 0.0019 24.4 3.3 23 50-72 100-122 (181)
77 PRK11858 aksA trans-homoaconit 26.4 1.2E+02 0.0026 25.9 4.6 78 46-124 101-184 (378)
78 PF10728 DUF2520: Domain of un 26.2 1.1E+02 0.0023 22.4 3.7 40 47-86 59-100 (132)
79 PF13224 DUF4032: Domain of un 26.1 27 0.00058 27.1 0.4 22 13-34 64-91 (165)
80 cd00751 thiolase Thiolase are 26.0 94 0.002 26.3 3.8 40 40-79 152-191 (386)
81 KOG0506 Glutaminase (contains 25.9 37 0.00079 30.9 1.3 26 27-52 326-351 (622)
82 PRK15364 pathogenicity island 25.8 60 0.0013 25.7 2.3 23 33-55 92-114 (196)
83 cd07939 DRE_TIM_NifV Streptomy 25.7 1.4E+02 0.0031 23.8 4.6 77 47-124 96-178 (259)
84 PF12668 DUF3791: Protein of u 25.5 82 0.0018 19.8 2.6 24 41-64 5-28 (62)
85 PF06183 DinI: DinI-like famil 25.1 87 0.0019 20.3 2.7 20 52-72 40-59 (65)
86 PF13904 DUF4207: Domain of un 25.1 79 0.0017 25.8 3.1 15 115-129 249-263 (264)
87 PF08769 Spo0A_C: Sporulation 25.0 56 0.0012 23.1 1.9 29 49-77 48-76 (106)
88 cd07977 TFIIE_beta_winged_heli 24.7 87 0.0019 20.8 2.7 25 38-63 9-36 (75)
89 cd06199 SiR Cytochrome p450- l 24.5 83 0.0018 26.5 3.2 25 44-68 328-352 (360)
90 TIGR01930 AcCoA-C-Actrans acet 24.5 1E+02 0.0022 26.2 3.7 46 40-86 153-198 (386)
91 PHA02593 62 clamp loader small 24.3 84 0.0018 24.9 2.9 33 43-75 127-164 (191)
92 PF00959 Phage_lysozyme: Phage 24.2 1.8E+02 0.0039 19.8 4.4 42 53-96 19-64 (110)
93 PF08711 Med26: TFIIS helical 24.2 1.7E+02 0.0036 17.5 3.8 35 36-73 17-51 (53)
94 PF10602 RPN7: 26S proteasome 24.1 79 0.0017 24.1 2.7 45 21-67 35-81 (177)
95 TIGR03859 PQQ_PqqD coenzyme PQ 23.7 1.1E+02 0.0023 20.3 3.0 31 39-70 45-75 (81)
96 PF12807 eIF3_p135: Translatio 23.5 3.2E+02 0.0069 20.4 6.2 20 62-81 46-65 (169)
97 cd00896 PI3Kc_III Phosphoinosi 23.1 82 0.0018 27.0 2.9 25 46-70 305-332 (350)
98 KOG4833 Uncharacterized conser 22.6 95 0.0021 27.7 3.2 29 42-70 18-47 (573)
99 PF07637 PSD5: Protein of unkn 22.5 1.6E+02 0.0034 18.7 3.5 55 57-127 2-56 (64)
100 cd05167 PI4Kc_III_alpha Phosph 22.5 87 0.0019 26.4 2.9 25 46-70 265-292 (311)
101 cd00127 DSPc Dual specificity 22.5 1.1E+02 0.0024 21.2 3.1 27 39-65 94-121 (139)
102 PF12469 DUF3692: CRISPR-assoc 22.4 1.3E+02 0.0029 21.3 3.5 23 54-76 94-116 (117)
103 PF11251 DUF3050: Protein of u 22.1 1.9E+02 0.0041 23.7 4.6 69 19-91 55-128 (232)
104 cd06203 methionine_synthase_re 22.1 1E+02 0.0022 26.5 3.2 25 44-68 366-390 (398)
105 cd07925 LigA_like_1 The A subu 21.9 1.4E+02 0.0031 21.4 3.5 27 45-75 37-63 (106)
106 PF03681 UPF0150: Uncharacteri 21.7 88 0.0019 18.3 2.1 18 51-68 27-44 (48)
107 cd07940 DRE_TIM_IPMS 2-isoprop 21.5 1.6E+02 0.0035 23.6 4.2 71 52-124 106-182 (268)
108 KOG1151 Tousled-like protein k 21.5 1E+02 0.0022 28.4 3.1 40 33-76 547-587 (775)
109 cd00893 PI4Kc_III Phosphoinosi 21.5 98 0.0021 25.8 3.0 28 42-70 240-270 (289)
110 PRK05114 hypothetical protein; 21.3 1.6E+02 0.0034 19.0 3.2 45 25-71 2-46 (59)
111 cd08054 gp6 Head-Tail Connecto 21.3 1.8E+02 0.004 18.7 3.8 58 48-109 5-71 (91)
112 TIGR02698 CopY_TcrY copper tra 20.6 1.7E+02 0.0038 21.1 3.9 18 68-86 87-104 (130)
113 cd07942 DRE_TIM_LeuA Mycobacte 20.4 4E+02 0.0087 22.0 6.4 78 46-124 105-201 (284)
114 cd07923 Gallate_dioxygenase_C 20.4 68 0.0015 22.6 1.5 27 45-75 29-55 (94)
115 PF00505 HMG_box: HMG (high mo 20.3 1.2E+02 0.0027 18.5 2.7 18 59-76 28-45 (69)
116 PF09205 DUF1955: Domain of un 20.3 4.1E+02 0.0088 20.4 6.7 43 19-61 51-95 (161)
No 1
>PLN02150 terpene synthase/cyclase family protein
Probab=100.00 E-value=7.1e-42 Score=241.70 Aligned_cols=95 Identities=29% Similarity=0.515 Sum_probs=92.0
Q ss_pred hccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHHHhhhhhhc-cccCCCCCCCc
Q 045966 35 LKRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLNLVRASHFM-YLHGDGHGVQN 113 (145)
Q Consensus 35 ~~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N~aR~~~~~-Y~~~Dg~t~~~ 113 (145)
|+|||+||+|+|||||||+|+|||+++|+++|+++||+||+|+|+++ ++|++++++++|+||+++|+ |+++||||.++
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~iN~e~l~~~-~~p~~~~~~~~NlaR~~~~~~Y~~~Dg~t~~~ 79 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIVMEEFLTIK-DVPRPVLVRCLNLARLIDVYCYNEGDGFTYPH 79 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHcCCC-CCCHHHHHHHHHHHHHHHhheecCCCCCCCCc
Confidence 58999999999999999999999999999999999999999999988 89999999999999999999 99999999887
Q ss_pred hhHHHHHHhhccccccC
Q 045966 114 QETMDVAFTLLFRPIPL 130 (145)
Q Consensus 114 ~~~k~~I~sll~~Pi~i 130 (145)
..+|++|++||++|||+
T Consensus 80 ~~~K~~I~sLlv~pi~i 96 (96)
T PLN02150 80 GKLKDLITSLFFHPLPL 96 (96)
T ss_pred HHHHHHHHHHhccCCCC
Confidence 78999999999999985
No 2
>cd00684 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, Class 1. This CD includes a diverse group of monomeric plant terpene cyclases (Tspa-Tspf) that convert the acyclic isoprenoid diphosphates, geranyl diphosphate (GPP), farnesyl diphosphate (FPP), or geranylgeranyl diphosphate (GGPP) into cyclic monoterpenes, diterpenes, or sesquiterpenes, respectively; a few form acyclic species. Terpnoid cyclases are soluble enzymes localized to the cytosol (sesquiterpene synthases) or plastids (mono- and diterpene synthases). All monoterpene and diterpene synthases have restrict substrate specificity, however, some sesquiterpene synthases can accept both FPP and GPP. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl diphosphates, via bridging Mg2+ ions (K+ preferred by gymnosperm cyclases), inducing conformational changes such that an N-terminal regi
Probab=100.00 E-value=1.9e-36 Score=267.07 Aligned_cols=124 Identities=42% Similarity=0.651 Sum_probs=120.1
Q ss_pred CcccccccCCchhHHHHHHHHHHhhcCcccchhhhccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcC
Q 045966 1 KELEFLESNNIPDIIQWSSKIFRLQDDLGTSTDELKRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRANK 80 (145)
Q Consensus 1 e~~ew~~~~~~p~l~~~~~~i~RL~NDi~t~~~E~~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~ 80 (145)
++++|+..+ |+|+++++.++||+|||+||++|++||+++|+|+|||+|+|+|+|+|+++++++|+++||+||++++++
T Consensus 418 e~~e~~~~~--~~l~~~~~~i~rL~NDi~S~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~e~l~~ 495 (542)
T cd00684 418 EAFEWLESR--PKLVRASSTIGRLMNDIATYEDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNEEFLKP 495 (542)
T ss_pred HHHHHHhcc--HHHHHHHHHHHHHhcChhhhHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 468999988 999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred -CCCCcHHHHHHHHHHhhhhhhccccCCCCCCCchhHHHHHHhhcccc
Q 045966 81 -DSPLSQTTADFMLNLVRASHFMYLHGDGHGVQNQETMDVAFTLLFRP 127 (145)
Q Consensus 81 -~~~vp~~~~~~~~N~aR~~~~~Y~~~Dg~t~~~~~~k~~I~sll~~P 127 (145)
+ ++|++|++++||+||+++++|+++||||.|++.+|++|++||++|
T Consensus 496 ~~-~~p~~~~~~~~n~~r~~~~~Y~~~D~~t~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 496 SS-DVPRPIKQRFLNLARVIDVFYKEGDGFTHPEGEIKDHITSLLFEP 542 (542)
T ss_pred CC-CCCHHHHHHHHHHHHHHHHHhcCCCCCCCccHHHHHHHHHHhcCC
Confidence 5 899999999999999999999999999998778999999999998
No 3
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=1.4e-36 Score=276.95 Aligned_cols=126 Identities=18% Similarity=0.316 Sum_probs=117.9
Q ss_pred CcccccccCCchhHHHHHHHHHHhhcCcccchhhhccCCchhHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHHHhhhhh
Q 045966 1 KELEFLESNNIPDIIQWSSKIFRLQDDLGTSTDELKRGDVWKSIQCYMHET--GVSEELAREHIKDLMRQMWKKVNAYRA 78 (145)
Q Consensus 1 e~~ew~~~~~~p~l~~~~~~i~RL~NDi~t~~~E~~rG~~~ssV~cYMke~--gvSeEeA~~~i~~lie~~wK~lN~e~l 78 (145)
++++|. ++ |+|+++++.|+||+|||+||++|++||++ |+|+|||||| |+|+|||+++++++|+++||+||++++
T Consensus 652 ev~e~~-~~--~~L~~l~s~I~RLlNDI~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn~~~l 727 (784)
T PLN02279 652 EVVDSP-EL--HKLYKLMSTCGRLLNDIRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIESQRRELLRLVL 727 (784)
T ss_pred HHHhCc-ch--hHHHHHHHHHHHHHHhccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467896 78 99999999999999999999999999998 9999999997 899999999999999999999999999
Q ss_pred cCC-CCCcHHHHHHHHHHhhhhhhccccCCCCCCCchhHHHHHHhhccccccCCC
Q 045966 79 NKD-SPLSQTTADFMLNLVRASHFMYLHGDGHGVQNQETMDVAFTLLFRPIPLED 132 (145)
Q Consensus 79 ~~~-~~vp~~~~~~~~N~aR~~~~~Y~~~Dg~t~~~~~~k~~I~sll~~Pi~i~~ 132 (145)
+++ +++|++|++++||+||++++||+++||||.+ .||++|++||++|||+.+
T Consensus 728 ~~~~~~vp~~~~~~~ln~aR~~~~~Y~~~Dgyt~~--~~k~~i~~ll~ePi~l~~ 780 (784)
T PLN02279 728 QEKGSNVPRECKDLFWKMSKVLHLFYRKDDGFTSN--DMMSLVKSVIYEPVSLQE 780 (784)
T ss_pred ccCCCCCCHHHHHHHHHHHHhhhhheeCCCCCChH--HHHHHHHHHhccCCcCCc
Confidence 742 2799999999999999999999999999964 799999999999999865
No 4
>PLN02592 ent-copalyl diphosphate synthase
Probab=99.64 E-value=5e-16 Score=142.57 Aligned_cols=98 Identities=9% Similarity=0.069 Sum_probs=86.7
Q ss_pred hhHHHHHHHHHHhhcCcccchhhhccCCchhHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHhhhhhc-CCCCCcHHHH
Q 045966 12 PDIIQWSSKIFRLQDDLGTSTDELKRGDVWKSIQCYMHETG-VSEELAREHIKDLMRQMWKKVNAYRAN-KDSPLSQTTA 89 (145)
Q Consensus 12 p~l~~~~~~i~RL~NDi~t~~~E~~rG~~~ssV~cYMke~g-vSeEeA~~~i~~lie~~wK~lN~e~l~-~~~~vp~~~~ 89 (145)
|++.++++++.||+||++||++|+. ..| .|+ +|++++++.|+..+++|.+.+++ ..+.+|++||
T Consensus 701 ~~~~~l~~li~Rl~nDl~t~~~e~~-------------~~~~~~~-~a~~~~~~~ie~~~~eL~~lvl~~~~~~vp~~cK 766 (800)
T PLN02592 701 PQYEQLAQLTNRICYQLGHYKKNKV-------------HINTYNP-EEKSKTTPSIESDMQELVQLVLQNSSDDIDPVIK 766 (800)
T ss_pred hhHHHHHHHHHHHHHhhhHHhhhcc-------------cCCcccH-HHHHHHHHHHHHHHHHHHHHHhhcCCCCCCHHHH
Confidence 8999999999999999999999874 123 455 89999999999999999999997 3336999999
Q ss_pred HHHHHHhhhhhhccccCCCCCCCchhHHHHHHhhcccccc
Q 045966 90 DFMLNLVRASHFMYLHGDGHGVQNQETMDVAFTLLFRPIP 129 (145)
Q Consensus 90 ~~~~N~aR~~~~~Y~~~Dg~t~~~~~~k~~I~sll~~Pi~ 129 (145)
+.||+++| +||.. ||+.| ++|+.||+.+|++||+
T Consensus 767 ~~f~~~~k---~fy~~--~~~~~-~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 767 QTFLMVAK---SFYYA--AYCDP-GTINYHIAKVLFERVA 800 (800)
T ss_pred HHHHHHHH---HHHHh--hcCCH-HHHHHHHHHHhCCCCC
Confidence 99999999 56766 99998 7999999999999985
No 5
>cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1. Terpene cyclases, Class 1 (C1) of the class 1 family of isoprenoid biosynthesis enzymes, which share the 'isoprenoid synthase fold' and convert linear, all-trans, isoprenoids, geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate into numerous cyclic forms of monoterpenes, diterpenes, and sesquiterpenes. Also included in this CD are the cis-trans terpene cyclases such as trichodiene synthase. The class I terpene cyclization reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl phosphates via bridging Mg2+ ions, inducing proposed conformational ch
Probab=99.59 E-value=5.7e-15 Score=118.30 Aligned_cols=99 Identities=35% Similarity=0.601 Sum_probs=88.7
Q ss_pred ccccccCCchhHHHHHHHHHHhhcCcccchhhhccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcCCC
Q 045966 3 LEFLESNNIPDIIQWSSKIFRLQDDLGTSTDELKRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRANKDS 82 (145)
Q Consensus 3 ~ew~~~~~~p~l~~~~~~i~RL~NDi~t~~~E~~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~ 82 (145)
+.+.... .++++.++.+.+|+||+.||++|+.+|+..|+|.|||+++|+|.++|++++.+++++.|+++++.+.....
T Consensus 186 ~~~~~~~--~~l~~~~~~~~~l~NDl~S~~kE~~~g~~~N~v~vl~~~~~~~~~eA~~~~~~~~~~~~~~~~~~~~~~~~ 263 (284)
T cd00868 186 FEWLPSY--PKLVRASSTIGRLLNDIASYEKEIARGEVANSVECYMKEYGVSEEEALEELRKMIEEAWKELNEEVLKLSS 263 (284)
T ss_pred HHHhhhh--HHHHHHHHHHHHHhccchHHHHHHccCCcccHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 3455555 88999999999999999999999999999999999999999999999999999999999999999885312
Q ss_pred CCcHHHHHHHHHHhhhhhhcc
Q 045966 83 PLSQTTADFMLNLVRASHFMY 103 (145)
Q Consensus 83 ~vp~~~~~~~~N~aR~~~~~Y 103 (145)
+.++.+++.+.+..|.....|
T Consensus 264 ~~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 264 DVPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred CCCHHHHHHHHHHHHhhhhcC
Confidence 578999999999999887665
No 6
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf []. Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT . Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein [].; GO: 0000287 magnesium ion binding, 0016829 lyase activity; PDB: 3PYB_A 3PYA_A 3G4F_A 3G4D_B 3CKE_A 2OA6_D 2E4O_B 3BNY_B 3BNX_A 3LG5_A ....
Probab=99.28 E-value=2e-12 Score=102.92 Aligned_cols=69 Identities=30% Similarity=0.492 Sum_probs=65.6
Q ss_pred cccccCCchhHHHHHHHHHHhhcCcccchhhhccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHh
Q 045966 4 EFLESNNIPDIIQWSSKIFRLQDDLGTSTDELKRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVN 74 (145)
Q Consensus 4 ew~~~~~~p~l~~~~~~i~RL~NDi~t~~~E~~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN 74 (145)
+|+.+. |.+.++++.+++|.|||.||++|..+|++.|.|.|+|+++|+|.|+|++++.+++.++++++|
T Consensus 202 ~~~~~~--~~l~~~~~~~~~l~NDl~S~~KE~~~g~~~N~v~~l~~~~~~s~e~A~~~v~~~~~~~~~efn 270 (270)
T PF03936_consen 202 EVLEHP--PMLRRLAADIIRLVNDLYSYKKEIARGDVHNLVVVLMNEHGLSLEEAVDEVAEMINECIREFN 270 (270)
T ss_dssp HHHHTT--HHHHHHHHHHHHHHHHHHHHHHHHHTTSCCSHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhc--hHHHHHHHHHHHHhcccchhhcchhhcccccHHHHhhhhcCCCHHHHHHHHHHHHHHHHHhcC
Confidence 466666 779999999999999999999999999999999999999999999999999999999999998
No 7
>cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1. This CD includes terpenoid cyclases such as pentalenene synthase and aristolochene synthase which, using an all-trans pathway, catalyze the ionization of farnesyl diphosphate, followed by the formation of a macrocyclic intermediate by bond formation between C1 with either C10 (aristolochene synthase) or C11 (pentalenene synthase), resulting in production of tricyclic hydrocarbon pentalenene or bicyclic hydrocarbon aristolochene. As with other enzymes with the 'terpenoid synthase fold', they have two conserved metal binding motifs, proposed to coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP to the enzymes. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function in the monomeric form and are found in
Probab=99.17 E-value=5.3e-11 Score=97.13 Aligned_cols=66 Identities=18% Similarity=0.276 Sum_probs=61.7
Q ss_pred hhHHHHHHHHHHhhcCcccchhhh-ccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhh
Q 045966 12 PDIIQWSSKIFRLQDDLGTSTDEL-KRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYR 77 (145)
Q Consensus 12 p~l~~~~~~i~RL~NDi~t~~~E~-~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~ 77 (145)
.++.++++.++||+|||.||++|+ +.|++.|.|.|+|+++|+|.|+|++++..++.+.++++.+..
T Consensus 199 ~~l~~~~~~~~~l~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~eA~~~~~~~~~~~~~~f~~~~ 265 (303)
T cd00687 199 RALEALASDAIALVNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEEAISVVRDMHNERITQFEELE 265 (303)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 459999999999999999999999 899999999999999999999999999999999999877644
No 8
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1. Superfamily of trans-isoprenyl diphosphate synthases (IPPS) and class I terpene cyclases which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, and diterpenes; and are widely distributed among archaea, bacteria, and eukaryota.The enzymes in this superfamily share the same 'isoprenoid synthase fold' and include several subgroups. The head-to-tail (HT) IPPS catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. Cyclic monoter
Probab=98.82 E-value=5.4e-09 Score=79.29 Aligned_cols=85 Identities=25% Similarity=0.246 Sum_probs=73.8
Q ss_pred hhHHHHHHHHHHhhcCcccchhhhccC-CchhHHHHHHhcCCC------------CHHHHHHHHHHHHHHHHHHHhhhhh
Q 045966 12 PDIIQWSSKIFRLQDDLGTSTDELKRG-DVWKSIQCYMHETGV------------SEELAREHIKDLMRQMWKKVNAYRA 78 (145)
Q Consensus 12 p~l~~~~~~i~RL~NDi~t~~~E~~rG-~~~ssV~cYMke~gv------------SeEeA~~~i~~lie~~wK~lN~e~l 78 (145)
.++....+.+.+|.||+.++..|.++| ...+.+.+||+++|. +.++|.+++..++++.|+++++...
T Consensus 146 ~~~~~~~g~~~ql~nDl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~ 225 (243)
T cd00385 146 RKLGRALGLAFQLTNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELIL 225 (243)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 678889999999999999999999985 556999999999998 8899999999999999999998776
Q ss_pred cCCCCCcHHHHHHHHHHhh
Q 045966 79 NKDSPLSQTTADFMLNLVR 97 (145)
Q Consensus 79 ~~~~~vp~~~~~~~~N~aR 97 (145)
... ..++.+++.+++++|
T Consensus 226 ~~~-~~~~~~~~~~~~~~~ 243 (243)
T cd00385 226 SLP-DVPRALLALALNLYR 243 (243)
T ss_pred CcH-HHHHHHHHHHHHHhC
Confidence 533 467788888887764
No 9
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=92.49 E-value=0.11 Score=40.28 Aligned_cols=62 Identities=18% Similarity=0.257 Sum_probs=40.4
Q ss_pred hhHHHHHHHHHHhhcCccc----chhhhccCCchhHHHHHHhcC-CCCHHHHHHHHHHH------HHHHHHHHhh
Q 045966 12 PDIIQWSSKIFRLQDDLGT----STDELKRGDVWKSIQCYMHET-GVSEELAREHIKDL------MRQMWKKVNA 75 (145)
Q Consensus 12 p~l~~~~~~i~RL~NDi~t----~~~E~~rG~~~ssV~cYMke~-gvSeEeA~~~i~~l------ie~~wK~lN~ 75 (145)
.+|.++...|-+..-==+| .| -.||..++.|.||+-++ +.|.|+|.++++++ --..|+-+++
T Consensus 93 ~~i~~aVeFi~k~asLGktvYVHCK--AGRtRSaTvV~cYLmq~~~wtpe~A~~~vr~iRp~VlL~~~Qw~~l~e 165 (183)
T KOG1719|consen 93 ENIQKAVEFIHKNASLGKTVYVHCK--AGRTRSATVVACYLMQHKNWTPEAAVEHVRKIRPRVLLRPAQWDVLKE 165 (183)
T ss_pred HHHHHHHHHHHhccccCCeEEEEec--CCCccchhhhhhhhhhhcCCCHHHHHHHHHhcCcceeecHHHHHHHHH
Confidence 4456666655554311111 12 24677899999999888 89999999999874 2345655554
No 10
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=85.08 E-value=0.79 Score=36.35 Aligned_cols=49 Identities=20% Similarity=0.224 Sum_probs=35.2
Q ss_pred HHHHhhcCcccchhhhcc-CCchhHHHHHHhcCCCCHHHHHHHHHHHHHH
Q 045966 20 KIFRLQDDLGTSTDELKR-GDVWKSIQCYMHETGVSEELAREHIKDLMRQ 68 (145)
Q Consensus 20 ~i~RL~NDi~t~~~E~~r-G~~~ssV~cYMke~gvSeEeA~~~i~~lie~ 68 (145)
..-+|--++...|+..++ .-+..+=-..|+.+|.||+||+++++++.=+
T Consensus 126 ~~~~L~~el~~~k~~L~~rK~ierAKglLM~~~g~sE~EAy~~lR~~AM~ 175 (194)
T COG3707 126 ERRALRRELAKLKDRLEERKVIERAKGLLMKRRGLSEEEAYKLLRRTAMD 175 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence 344566677777776443 3345555579999999999999999987533
No 11
>PF12368 DUF3650: Protein of unknown function (DUF3650) ; InterPro: IPR022111 This domain family is found in bacteria, and is approximately 30 amino acids in length. The family is found in association with PF00581 from PFAM. There is a single completely conserved residue N that may be functionally important.
Probab=83.09 E-value=0.92 Score=25.12 Aligned_cols=18 Identities=39% Similarity=0.597 Sum_probs=14.9
Q ss_pred HHHhcCCCCHHHHHHHHH
Q 045966 46 CYMHETGVSEELAREHIK 63 (145)
Q Consensus 46 cYMke~gvSeEeA~~~i~ 63 (145)
-|.++||+|+||..+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 699999999998776654
No 12
>cd00686 Terpene_cyclase_cis_trans_C1 Cis, Trans, Terpene Cyclases, Class 1. This CD includes the terpenoid cyclase, trichodiene synthase, which catalyzes the cyclization of farnesyl diphosphate (FPP) to trichodiene using a cis-trans pathway, and is the first committed step in the biosynthesis of trichothecene toxins and antibiotics. As with other enzymes with the 'terpenoid synthase fold', this enzyme has two conserved metal binding motifs that coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function as homodimers and are found in several genera of fungi.
Probab=79.32 E-value=11 Score=32.47 Aligned_cols=73 Identities=15% Similarity=0.090 Sum_probs=48.7
Q ss_pred HhhcCcccchhhhc-cCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHHHhhhh
Q 045966 23 RLQDDLGTSTDELK-RGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLNLVRAS 99 (145)
Q Consensus 23 RL~NDi~t~~~E~~-rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N~aR~~ 99 (145)
=.+|||-||-.|-- .++-+|-|.-|-+.+|+|..+|.+++..-.-.+-+.+.+ .|.++ . | .++..+-++.+..
T Consensus 222 ~~~NDILSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~~-VLse~-d-p-~l~~av~~Fi~GY 295 (357)
T cd00686 222 VWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVA-VFSDK-D-P-QVMDTIECFMHGY 295 (357)
T ss_pred HhhhhhhheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHHH-HhcCC-C-h-HHHHHHHHHHHHH
Confidence 37899999988864 355668888888889999999999776555555556544 56554 2 3 2334444444443
No 13
>PF03861 ANTAR: ANTAR domain; InterPro: IPR005561 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins []. This domain has been detected in various response regulators of two-component systems, which are structured around two proteins, a histidine kinase and a response regulator. This domain is also found in one-component sensory regulators from a variety of bacteria. Most response regulators interact with DNA, however ANTAR-containing regulators interact with RNA. The majority of the domain consists of a coiled-coil.; PDB: 4AKK_A 1SD5_A 1S8N_A 1QO0_E.
Probab=76.12 E-value=1.8 Score=27.01 Aligned_cols=34 Identities=18% Similarity=0.126 Sum_probs=24.9
Q ss_pred cCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Q 045966 37 RGDVWKSIQCYMHETGVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 37 rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~w 70 (145)
|.-+.-++...|..+|+|+++|.+.++...-+.-
T Consensus 12 r~~I~~AkgiLm~~~g~~e~~A~~~Lr~~Am~~~ 45 (56)
T PF03861_consen 12 RRVIEQAKGILMARYGLSEDEAYRLLRRQAMRRR 45 (56)
T ss_dssp HHHHHHHHHHHHHHHT--HHHHHHHHHHHHHHCT
T ss_pred hHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHcC
Confidence 3346677888999999999999999988755443
No 14
>KOG1720 consensus Protein tyrosine phosphatase CDC14 [Defense mechanisms]
Probab=71.93 E-value=4 Score=33.04 Aligned_cols=28 Identities=25% Similarity=0.373 Sum_probs=22.8
Q ss_pred CCchhHHHHHH-hcCCCCHHHHHHHHHHH
Q 045966 38 GDVWKSIQCYM-HETGVSEELAREHIKDL 65 (145)
Q Consensus 38 G~~~ssV~cYM-ke~gvSeEeA~~~i~~l 65 (145)
|....-|.||| +++|+|.+||+..++.+
T Consensus 159 GRTG~liAc~lmy~~g~ta~eaI~~lR~~ 187 (225)
T KOG1720|consen 159 GRTGTLIACYLMYEYGMTAGEAIAWLRIC 187 (225)
T ss_pred CchhHHHHHHHHHHhCCCHHHHHHHHHhc
Confidence 55668899997 67899999999887653
No 15
>smart00463 SMR Small MutS-related domain.
Probab=71.25 E-value=6.2 Score=25.87 Aligned_cols=23 Identities=17% Similarity=0.189 Sum_probs=20.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHH
Q 045966 51 TGVSEELAREHIKDLMRQMWKKV 73 (145)
Q Consensus 51 ~gvSeEeA~~~i~~lie~~wK~l 73 (145)
||.|.++|+..+...+.++|+.-
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~ 29 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKG 29 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcC
Confidence 69999999999999999999764
No 16
>PF01713 Smr: Smr domain; InterPro: IPR002625 This family includes the Smr (Small MutS Related) proteins, and the C-terminal region of the MutS2 protein. It has been suggested that this domain interacts with the MutS1 (P23909 from SWISSPROT) protein in the case of Smr proteins and with the N-terminal MutS related region of MutS2, P94545 from SWISSPROT [].; PDB: 3QD7_X 2D9I_A 3FAU_A 2VKC_A 2ZQE_A.
Probab=70.26 E-value=6 Score=26.13 Aligned_cols=24 Identities=13% Similarity=0.238 Sum_probs=20.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHh
Q 045966 51 TGVSEELAREHIKDLMRQMWKKVN 74 (145)
Q Consensus 51 ~gvSeEeA~~~i~~lie~~wK~lN 74 (145)
||.+.++|...+...++++|+.-.
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~ 27 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGI 27 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTH
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCC
Confidence 699999999999999999996644
No 17
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=62.91 E-value=8.5 Score=31.53 Aligned_cols=29 Identities=21% Similarity=0.040 Sum_probs=25.2
Q ss_pred cCCchhHHHHHHhcCCCCHHHHHHHHHHH
Q 045966 37 RGDVWKSIQCYMHETGVSEELAREHIKDL 65 (145)
Q Consensus 37 rG~~~ssV~cYMke~gvSeEeA~~~i~~l 65 (145)
.|-.+..+-|||-++|+|.++|++.|++.
T Consensus 181 lGRTGtl~AayLI~~GmspeeAI~~VR~~ 209 (241)
T PTZ00393 181 LGRAPVLASIVLIEFGMDPIDAIVFIRDR 209 (241)
T ss_pred CCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 46677888999999999999999999864
No 18
>PF06330 TRI5: Trichodiene synthase (TRI5); InterPro: IPR024652 This family consists of several fungal trichodiene synthase proteins (EC:4.2.3.6). TRI5 encodes the enzyme trichodiene synthase, which has been shown to catalyse the first step in the trichothecene pathways of Fusarium and Trichothecium species [, ].; GO: 0045482 trichodiene synthase activity, 0016106 sesquiterpenoid biosynthetic process; PDB: 1YYT_A 2PS5_A 2AEL_A 1YYS_A 1YJ4_A 2Q9Y_A 2PS4_A 2AEK_B 1KIY_B 2PS7_A ....
Probab=62.45 E-value=23 Score=30.91 Aligned_cols=63 Identities=17% Similarity=0.095 Sum_probs=42.9
Q ss_pred HHHHHHH---hhcCcccchhhhc-cCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcC
Q 045966 17 WSSKIFR---LQDDLGTSTDELK-RGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRANK 80 (145)
Q Consensus 17 ~~~~i~R---L~NDi~t~~~E~~-rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~ 80 (145)
+..-+.+ ++|||-||-.|.- .|+..|.|.-|-.-+|+|..+|.+.+..-.-.+-+.+.+ .|.+
T Consensus 213 AIpdl~~fi~~~NDILSFYKE~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv~~-vL~~ 279 (376)
T PF06330_consen 213 AIPDLMRFINYVNDILSFYKEELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERVRR-VLSD 279 (376)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHHH-HHTT
T ss_pred HHHHHHHHHHhhhhHHHHHHhhcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHHHH-Hhcc
Confidence 4444444 8899999988866 788889998887778999999999874444444444444 3443
No 19
>PF10397 ADSL_C: Adenylosuccinate lyase C-terminus; InterPro: IPR019468 Adenylosuccinate lyase catalyses two steps in the synthesis of purine nucleotides: the conversion of succinylaminoimidazole-carboxamide ribotide into aminoimidazole-carboxamide ribotide (the fifth step of de novo IMP biosynthesis); the formation of adenosine monophosphate (AMP) from adenylosuccinate (the final step in the synthesis of AMP from IMP) []. This entry represents the C-terminal, seven alpha-helical, domain of adenylosuccinate lyase [].; PDB: 1YIS_A 1C3U_B 1C3C_A 3C8T_A 2PFM_B 1RE5_D 1Q5N_A 2VD6_D 2J91_B 2X75_A.
Probab=60.50 E-value=14 Score=24.52 Aligned_cols=32 Identities=16% Similarity=0.371 Sum_probs=26.4
Q ss_pred hhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Q 045966 41 WKSIQCYMHETGVSEELAREHIKDLMRQMWKK 72 (145)
Q Consensus 41 ~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~ 72 (145)
+..|-..+-+.|++.++|.+-+++..-.+|++
T Consensus 6 SE~v~~~L~~~G~gR~~Ah~lv~~~a~~a~~~ 37 (81)
T PF10397_consen 6 SERVMLALAEKGLGRQEAHELVQEAAMEAWEN 37 (81)
T ss_dssp HHHHHHHHHHTTH-HHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHH
Confidence 34566677788999999999999999999985
No 20
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=59.37 E-value=10 Score=28.01 Aligned_cols=23 Identities=30% Similarity=0.466 Sum_probs=19.4
Q ss_pred hHHHHHHhcCCCCHHHHHHHHHH
Q 045966 42 KSIQCYMHETGVSEELAREHIKD 64 (145)
Q Consensus 42 ssV~cYMke~gvSeEeA~~~i~~ 64 (145)
-=|..-|.|.|+|+|+|++.+.+
T Consensus 86 eDIkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 86 EDIKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHH
Confidence 45788999999999999987754
No 21
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=55.85 E-value=24 Score=22.12 Aligned_cols=33 Identities=21% Similarity=0.333 Sum_probs=23.9
Q ss_pred CchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Q 045966 39 DVWKSIQCYMHETGVSEELAREHIKDLMRQMWK 71 (145)
Q Consensus 39 ~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK 71 (145)
.+...++....+++++.++|.+.+...+..-++
T Consensus 31 t~~ei~~~l~~~y~~~~~~~~~dv~~fl~~L~~ 63 (68)
T PF05402_consen 31 TVEEIVDALAEEYDVDPEEAEEDVEEFLEQLRE 63 (68)
T ss_dssp -HHHHHHHHHHHTT--HHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence 455666777778899999999999999887664
No 22
>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]
Probab=54.56 E-value=92 Score=23.57 Aligned_cols=85 Identities=16% Similarity=0.065 Sum_probs=52.7
Q ss_pred hHHHHHHHHHHhhcCcccchhhhccCCchhHHHHHHhcCCC-CHHHHHHHHHH----HHHHHH---HHHhhhhhcCCCCC
Q 045966 13 DIIQWSSKIFRLQDDLGTSTDELKRGDVWKSIQCYMHETGV-SEELAREHIKD----LMRQMW---KKVNAYRANKDSPL 84 (145)
Q Consensus 13 ~l~~~~~~i~RL~NDi~t~~~E~~rG~~~ssV~cYMke~gv-SeEeA~~~i~~----lie~~w---K~lN~e~l~~~~~v 84 (145)
+-++-.++++|-.=+-...-+=...|..++.+.-|--+||. |-||=-.+..+ -.-+.| |-||. ++.-+ -+
T Consensus 4 rAv~r~~i~~r~~~~a~~~~~~~~s~~~a~~~~~~~~~hg~et~EEfd~ry~~yf~r~~iD~wEvrkglN~-l~~yD-lV 81 (149)
T KOG4077|consen 4 RAVTRLAIAGRTLVRARPSTRTPASGLGANTFIKYSMEHGPETAEEFDARYEKYFNRPEIDGWEVRKGLNN-LFDYD-LV 81 (149)
T ss_pred HHHHHHHHHhhhHhccccccccccCCccchhhhhhHhhcCcccHHHHHHHHHHHcCcccchHHHHHHHHHh-hhccc-cC
Confidence 45566778888877776666556667778887777778987 66663333322 223555 55666 44444 57
Q ss_pred cHH-HHHHHHHHhhhh
Q 045966 85 SQT-TADFMLNLVRAS 99 (145)
Q Consensus 85 p~~-~~~~~~N~aR~~ 99 (145)
|.| +++..+..||=+
T Consensus 82 P~pkvIEaaLRA~RRv 97 (149)
T KOG4077|consen 82 PSPKVIEAALRACRRV 97 (149)
T ss_pred CChHHHHHHHHHHHHh
Confidence 764 566666665543
No 23
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=51.26 E-value=19 Score=25.48 Aligned_cols=52 Identities=15% Similarity=0.138 Sum_probs=31.6
Q ss_pred hhHHHHHHHHHHhhcCcccchh------hhccCCchhHHHHH-HhcCCCCHHHHHHHHH
Q 045966 12 PDIIQWSSKIFRLQDDLGTSTD------ELKRGDVWKSIQCY-MHETGVSEELAREHIK 63 (145)
Q Consensus 12 p~l~~~~~~i~RL~NDi~t~~~------E~~rG~~~ssV~cY-Mke~gvSeEeA~~~i~ 63 (145)
+.+......+.++++....... -...|-.+..+-|| |+..|.|.++|.+.++
T Consensus 58 ~~~~~~~~~~~~~i~~~~~~~~~VlVHC~~G~~RS~~v~~~yl~~~~~~~~~~A~~~v~ 116 (138)
T smart00195 58 TKISPYFPEAVEFIEDAEKKGGKVLVHCQAGVSRSATLIIAYLMKYRNLSLNDAYDFVK 116 (138)
T ss_pred CChHHHHHHHHHHHHHHhcCCCeEEEECCCCCchHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 3455566666666665432100 01234455667787 5667999999999885
No 24
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=49.10 E-value=17 Score=27.96 Aligned_cols=68 Identities=16% Similarity=0.308 Sum_probs=38.6
Q ss_pred HHHHHHHHHHhhcCcccchh-hhccCCchhHHHHHHh-----------cCCCC----HHHH------------HHHHHHH
Q 045966 14 IIQWSSKIFRLQDDLGTSTD-ELKRGDVWKSIQCYMH-----------ETGVS----EELA------------REHIKDL 65 (145)
Q Consensus 14 l~~~~~~i~RL~NDi~t~~~-E~~rG~~~ssV~cYMk-----------e~gvS----eEeA------------~~~i~~l 65 (145)
+...+...--|++-|--|=- +...||- |-..||.. .||+. .+.| .++||..
T Consensus 62 ~Y~~A~~~~~~L~~iPCYCGCges~gH~-Sn~~Cfi~e~~~dG~Vvwd~Hg~~C~vCl~ia~~a~~~~~~Gks~~eIR~~ 140 (158)
T PF13798_consen 62 AYQMAAKHPELLEYIPCYCGCGESAGHK-SNLDCFIDEIKEDGSVVWDDHGTRCGVCLDIAVQAVQMYQEGKSPKEIRQY 140 (158)
T ss_pred HHHHHHHhHHHHHcCCcccCCCCCCCCc-cccccceeeccCCCceeecccccccHHHHHHHHHHHHHHHcCCCHHHHHHH
Confidence 33444555556655544432 2245665 55677764 23322 2332 4678999
Q ss_pred HHHHHHHHhhhhhcCCCCCcH
Q 045966 66 MRQMWKKVNAYRANKDSPLSQ 86 (145)
Q Consensus 66 ie~~wK~lN~e~l~~~~~vp~ 86 (145)
|++.||+- +.+|+ +-|+
T Consensus 141 ID~kYk~g---~~~pT-pTp~ 157 (158)
T PF13798_consen 141 IDEKYKEG---YAKPT-PTPM 157 (158)
T ss_pred HHHHHHhC---CCCCC-CCCC
Confidence 99999863 66676 5554
No 25
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=47.99 E-value=15 Score=24.60 Aligned_cols=30 Identities=30% Similarity=0.358 Sum_probs=25.4
Q ss_pred hccCCchhHHHHHHhcCCCCHHHHHHHHHH
Q 045966 35 LKRGDVWKSIQCYMHETGVSEELAREHIKD 64 (145)
Q Consensus 35 ~~rG~~~ssV~cYMke~gvSeEeA~~~i~~ 64 (145)
+.|..+-..|+.+.++.|.|.++|++.+..
T Consensus 50 ~rRK~Ii~~I~~l~~~~g~~~~~ai~~le~ 79 (81)
T PF12550_consen 50 SRRKVIIDFIERLANERGISEEEAIEILEE 79 (81)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 357778899999999999999999987754
No 26
>PRK14744 leu operon leader peptide; Provisional
Probab=47.22 E-value=8.3 Score=21.07 Aligned_cols=18 Identities=6% Similarity=-0.267 Sum_probs=15.6
Q ss_pred hhHHHHHHHHHHhhcCcc
Q 045966 12 PDIIQWSSKIFRLQDDLG 29 (145)
Q Consensus 12 p~l~~~~~~i~RL~NDi~ 29 (145)
+-++.++++=+||.+||+
T Consensus 10 lLLLNA~~lRGR~v~giQ 27 (28)
T PRK14744 10 LLLLNAFIVRGRPVGGIQ 27 (28)
T ss_pred HHHhhhHhhcCccccccc
Confidence 457899999999999986
No 27
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=46.36 E-value=43 Score=27.89 Aligned_cols=57 Identities=11% Similarity=0.102 Sum_probs=41.9
Q ss_pred chhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHH----------hhhhhcCCCCCcHHHHHHHHHHhh
Q 045966 40 VWKSIQCYMHETGVSEELAREHIKDLMRQMWKKV----------NAYRANKDSPLSQTTADFMLNLVR 97 (145)
Q Consensus 40 ~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~l----------N~e~l~~~~~vp~~~~~~~~N~aR 97 (145)
..+.++.-++..|.+.|+|.+++---+++.|=++ +.++|.+. ++|...+..+.++||
T Consensus 103 a~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l~~~-~~~~~~~~~l~e~a~ 169 (269)
T COG1093 103 ADKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVLDDE-GVPEEWKEVLKEIAR 169 (269)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCcccccC-CCCHHHHHHHHHHHH
Confidence 4566777777889999999988877777766544 33445444 688888888888887
No 28
>COG2511 GatE Archaeal Glu-tRNAGln amidotransferase subunit E (contains GAD domain) [Translation, ribosomal structure and biogenesis]
Probab=44.78 E-value=84 Score=29.01 Aligned_cols=77 Identities=14% Similarity=0.144 Sum_probs=46.9
Q ss_pred chhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHHHhhhhhhccccCCCCCCCchhHHHH
Q 045966 40 VWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLNLVRASHFMYLHGDGHGVQNQETMDV 119 (145)
Q Consensus 40 ~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N~aR~~~~~Y~~~Dg~t~~~~~~k~~ 119 (145)
...-++-|++++|.|++-|.+-+....-+...++-+..+. |.-......|+.+-+.==+..-|+++. ..++..
T Consensus 456 ~~ek~~r~~~eygLs~~LA~~~~~~~~~~~FEel~e~~v~-----p~~~A~~L~~~~~~L~reg~~i~~l~~--~~i~~~ 528 (631)
T COG2511 456 PEEKVERYVKEYGLSKELAEQLASDPRVDLFEELVEKGVD-----PTLIASTLVNTLPELRREGVEIDNLDD--EHIEEL 528 (631)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHhhhhHHHHHHHHHcCCC-----HHHHHHHHHHHHHHHHhcCCccccCCH--HHHHHH
Confidence 3456789999999999999988888877777776665333 334455555555433322233344443 234444
Q ss_pred HHhh
Q 045966 120 AFTL 123 (145)
Q Consensus 120 I~sl 123 (145)
++.+
T Consensus 529 ~~~~ 532 (631)
T COG2511 529 LRLV 532 (631)
T ss_pred HHHH
Confidence 4443
No 29
>cd00737 endolysin_autolysin Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell walls. Similarly, bacteria produce autolysins to facilitate the biosynthesis of its cell wall hetropolymer peptidoglycan and cell division. Both endolysin and autolysin enzymes cleave the glycosidic beta 1,4-bonds between the N-acetylmuramic acid and the N-acetylglucosamine of the peptidoglycan.
Probab=44.05 E-value=89 Score=22.38 Aligned_cols=40 Identities=25% Similarity=0.283 Sum_probs=29.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHH
Q 045966 52 GVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLN 94 (145)
Q Consensus 52 gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N 94 (145)
.+|+++|.+-+..-++...+.+++.+ .. ++|..-..+.+.
T Consensus 42 ~iT~~qa~~ll~~dl~~~~~~v~~~~--~~-~l~~~~~dALvs 81 (133)
T cd00737 42 TITEEQADALLAKDLAKAERAVNRAV--KV-PLTQNQFDALVS 81 (133)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHc--CC-CCCHHHHHHHHH
Confidence 58999999999999999999977644 23 567654444433
No 30
>PF14805 THDPS_N_2: Tetrahydrodipicolinate N-succinyltransferase N-terminal; PDB: 3EG4_A 3TDT_A 2TDT_A 1KGT_A 1TDT_A 1KGQ_A 3BXY_A 3GOS_A 3TK8_A.
Probab=43.75 E-value=79 Score=20.91 Aligned_cols=33 Identities=6% Similarity=0.239 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHHH
Q 045966 60 EHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLNL 95 (145)
Q Consensus 60 ~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N~ 95 (145)
+.++..||.+|.. ++-+.+. ..+...+..+-.+
T Consensus 1 ~~l~~~Ie~aw~~--r~~l~~~-~~~~~~~~av~~~ 33 (70)
T PF14805_consen 1 SQLQKIIEAAWEN--RDELTPS-NADPELRDAVEEV 33 (70)
T ss_dssp HHHHHHHHHHHHG--GGG-BTT-T--HHHHHHHHHH
T ss_pred ChHHHHHHHHHHh--HhhCCCc-cCCHHHHHHHHHH
Confidence 3578999999987 7777665 5666666655443
No 31
>PF13189 Cytidylate_kin2: Cytidylate kinase-like family; PDB: 3FDI_A.
Probab=43.62 E-value=8.9 Score=29.09 Aligned_cols=40 Identities=23% Similarity=0.240 Sum_probs=25.5
Q ss_pred CchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhc
Q 045966 39 DVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRAN 79 (145)
Q Consensus 39 ~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~ 79 (145)
+...-|+--|+.+|+|+++|.+.|+. .+..++.--+.+..
T Consensus 123 ~~~~Rv~ri~~~~~~s~~~A~~~i~~-~D~~R~~~~~~~~~ 162 (179)
T PF13189_consen 123 PLEFRVERIMEREGISEEEAEKLIKK-EDKRRRAYYKYYTG 162 (179)
T ss_dssp -HHHHHHHHHHHHT--HHHHHHHHHH-HHHHHHHHHHHH-S
T ss_pred CHHHHHHHHHHHcCCCHHHHHHHHHH-HHHHHHHHHHHHhC
Confidence 34456777788889999999988865 46666665555553
No 32
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=43.28 E-value=24 Score=25.72 Aligned_cols=28 Identities=32% Similarity=0.321 Sum_probs=23.0
Q ss_pred cCCchhHHHHHHhcCCCCHHHHHHHHHH
Q 045966 37 RGDVWKSIQCYMHETGVSEELAREHIKD 64 (145)
Q Consensus 37 rG~~~ssV~cYMke~gvSeEeA~~~i~~ 64 (145)
-|-...-|+.-|.+.|+|.++|++.+.+
T Consensus 73 ~~i~~edI~lv~~q~gvs~~~A~~AL~~ 100 (115)
T PRK06369 73 VEIPEEDIELVAEQTGVSEEEARKALEE 100 (115)
T ss_pred CCCCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 3556778999999999999999987754
No 33
>COG2937 PlsB Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]
Probab=42.71 E-value=44 Score=31.71 Aligned_cols=51 Identities=16% Similarity=0.073 Sum_probs=39.9
Q ss_pred chhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHH
Q 045966 40 VWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLN 94 (145)
Q Consensus 40 ~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N 94 (145)
+..+|.-+-|..|+|.|+|.+...++..+.|-+...+.++- ---++...||
T Consensus 225 ir~aia~eak~~~is~EkA~k~a~~~a~eiaa~fS~~~vr~----~dr~ls~~wn 275 (810)
T COG2937 225 IRKAIADEARSKGISVEKAQKMADELATEIAADFSYELIRV----LDRILSRGWN 275 (810)
T ss_pred HHHHHhhHhhccCCCHHHHHHHHHHHHHHHHHhccHHHHHH----HHHHHHHhhh
Confidence 34567888899999999999999999999999988777642 2245555555
No 34
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=42.39 E-value=26 Score=25.65 Aligned_cols=27 Identities=26% Similarity=0.282 Sum_probs=22.0
Q ss_pred CCchhHHHHHHhcCCCCHHHHHHHHHH
Q 045966 38 GDVWKSIQCYMHETGVSEELAREHIKD 64 (145)
Q Consensus 38 G~~~ssV~cYMke~gvSeEeA~~~i~~ 64 (145)
+-...-|+.-|.+.|+|.++|++.+.+
T Consensus 76 ~i~~eDI~lV~eq~gvs~e~A~~AL~~ 102 (116)
T TIGR00264 76 EITEDDIELVMKQCNVSKEEARRALEE 102 (116)
T ss_pred CCCHHHHHHHHHHhCcCHHHHHHHHHH
Confidence 345677899999999999999987753
No 35
>cd05175 PI3Kc_IA_alpha Phosphoinositide 3-kinase (PI3K), class IA, alpha isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. Class I enzymes are heterodimers and exist in multiple isoforms consisting of one catalytic subunit (out of four isoforms) and one of several regulatory subunits. They are further classified into class IA (alpha, beta and
Probab=42.21 E-value=21 Score=30.99 Aligned_cols=29 Identities=28% Similarity=0.456 Sum_probs=24.1
Q ss_pred HHhcC---CCCHHHHHHHHHHHHHHH----HH-HHhh
Q 045966 47 YMHET---GVSEELAREHIKDLMRQM----WK-KVNA 75 (145)
Q Consensus 47 YMke~---gvSeEeA~~~i~~lie~~----wK-~lN~ 75 (145)
|+++. +.|+|||.+++..+|.++ |+ .+|.
T Consensus 323 ~lr~rf~l~~sd~eA~~~f~~~I~~s~~~~w~t~~n~ 359 (366)
T cd05175 323 YIRKTLALDKTEQEALEYFMKQMNDAHHGGWTTKMDW 359 (366)
T ss_pred HHHHhcCCCCCHHHHHHHHHHHHHHHHhcCceeeehH
Confidence 88887 689999999999999877 65 3554
No 36
>PHA01748 hypothetical protein
Probab=41.78 E-value=59 Score=20.62 Aligned_cols=32 Identities=19% Similarity=0.361 Sum_probs=24.0
Q ss_pred hhHHHHHHhcCCCCHHH-HHHHHHHHHHHHHHH
Q 045966 41 WKSIQCYMHETGVSEEL-AREHIKDLMRQMWKK 72 (145)
Q Consensus 41 ~ssV~cYMke~gvSeEe-A~~~i~~lie~~wK~ 72 (145)
..-++-|.+++|+|..+ .++.|+..+++.|.+
T Consensus 14 ~~eld~~a~~~g~~RSE~Ir~Ai~~~~~~~~~~ 46 (60)
T PHA01748 14 LELLDRYAIKHGLNRSEAIRKAIEKMVKDELKK 46 (60)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHh
Confidence 45678899999998755 455668888888865
No 37
>PF03701 UPF0181: Uncharacterised protein family (UPF0181); InterPro: IPR005371 This family contains small proteins of about 50 amino acids of unknown function. The family includes YoaH P76260 from SWISSPROT.
Probab=41.51 E-value=49 Score=20.76 Aligned_cols=46 Identities=26% Similarity=0.263 Sum_probs=31.7
Q ss_pred hcCcccchhhhccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Q 045966 25 QDDLGTSTDELKRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKK 72 (145)
Q Consensus 25 ~NDi~t~~~E~~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~ 72 (145)
+||+-+...|+..--| .-|+-.| ..|+|.-||+..+-.-|.+.-+.
T Consensus 2 ~~~lp~LtHeeQQ~Av-E~Iq~LM-aqGmSsgEAI~~VA~~iRe~~~~ 47 (51)
T PF03701_consen 2 FNDLPSLTHEEQQQAV-ERIQELM-AQGMSSGEAIAIVAQEIREEHQG 47 (51)
T ss_pred CCCCCCCCHHHHHHHH-HHHHHHH-HhcccHHHHHHHHHHHHHHHHHh
Confidence 3566666665554333 6677788 56899999998888877766543
No 38
>PTZ00242 protein tyrosine phosphatase; Provisional
Probab=41.25 E-value=29 Score=26.29 Aligned_cols=29 Identities=14% Similarity=0.045 Sum_probs=23.3
Q ss_pred cCCchhHHHHHHhcC-CCCHHHHHHHHHHH
Q 045966 37 RGDVWKSIQCYMHET-GVSEELAREHIKDL 65 (145)
Q Consensus 37 rG~~~ssV~cYMke~-gvSeEeA~~~i~~l 65 (145)
.|-.++.+-|||-++ |+|.++|++.+++.
T Consensus 109 igRSgt~~a~yL~~~~~~s~~eAi~~vr~~ 138 (166)
T PTZ00242 109 LGRAPILVALALVEYGGMEPLDAVGFVREK 138 (166)
T ss_pred CCHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 456678889999888 59999999888654
No 39
>PF02372 IL15: Interleukin 15; InterPro: IPR003443 Interleukins (IL) are a group of cytokines that play an important role in the immune system. They modulate inflammation and immunity by regulating growth, mobility and differentiation of lymphoid and other cells. Interleukin-15 (IL-15) has a variety of biological functions, including stimulation and maintenance of cellular immune responses []. It is required for division of CD8+ T cells of memory phenotype, a process that is increased by inhibition of IL-2 []. The numbers of CD8+ memory T cells in animals may, therefore, be controlled by a balance between IL-15 and -2. ; GO: 0005126 cytokine receptor binding, 0006955 immune response, 0005576 extracellular region; PDB: 2PSM_A 3TGX_N 2OQP_A 2Z3R_O 2Z3Q_C 2XQB_A.
Probab=40.70 E-value=12 Score=27.79 Aligned_cols=38 Identities=18% Similarity=0.364 Sum_probs=23.4
Q ss_pred chhHHHHHHhcCC-CCHHH--HHHHHHHHHHHHHHHHhhhh
Q 045966 40 VWKSIQCYMHETG-VSEEL--AREHIKDLMRQMWKKVNAYR 77 (145)
Q Consensus 40 ~~ssV~cYMke~g-vSeEe--A~~~i~~lie~~wK~lN~e~ 77 (145)
.-++.+||++|-. +..|. .-..+.+.+...++.+|+-.
T Consensus 55 ~~sal~CF~~El~vvl~E~~~~~~~~~~~i~~~i~~~~~~l 95 (135)
T PF02372_consen 55 KVSALKCFQKELKVVLKESNIDNSEINETIENLIKQINRNL 95 (135)
T ss_dssp HHHHHHHHHHHHHHHHHHCSTCHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHhhhc
Confidence 3489999999873 33333 34445566666666665543
No 40
>PF00782 DSPc: Dual specificity phosphatase, catalytic domain; InterPro: IPR000340 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents dual specificity protein-tyrosine phosphatases. Ser/Thr and Tyr dual specificity phosphatases are a group of enzymes with both Ser/Thr (3.1.3.16 from EC) and tyrosine specific protein phosphatase (3.1.3.48 from EC) activity able to remove both the serine/threonine or tyrosine-bound phosphate group from a wide range of phosphoproteins, including a number of enzymes which have been phosphorylated under the action of a kinase. Dual specificity protein phosphatases (DSPs) regulate mitogenic signal transduction and control the cell cycle. The crystal structure of a human DSP, vaccinia H1-related phosphatase (or VHR), has been determined at 2.1 angstrom resolution []. A shallow active site pocket in VHR allows for the hydrolysis of phosphorylated serine, threonine, or tyrosine protein residues, whereas the deeper active site of protein tyrosine phosphatases (PTPs) restricts substrate specificity to only phosphotyrosine. Positively charged crevices near the active site may explain the enzyme's preference for substrates with two phosphorylated residues. The VHR structure defines a conserved structural scaffold for both DSPs and PTPs. A "recognition region" connecting helix alpha1 to strand beta1, may determine differences in substrate specificity between VHR, the PTPs, and other DSPs. These proteins may also have inactive phosphatase domains, and dependent on the domain composition this loss of catalytic activity has different effects on protein function. Inactive single domain phosphatases can still specifically bind substrates, and protect again dephosphorylation, while the inactive domains of tandem phosphatases can be further subdivided into two classes. Those which bind phosphorylated tyrosine residues may recruit multi-phosphorylated substrates for the adjacent active domains and are more conserved, while the other class have accumulated several variable amino acid substitutions and have a complete loss of tyrosine binding capability. The second class shows a release of evolutionary constraint for the sites around the catalytic centre, which emphasises a difference in function from the first group. There is a region of higher conservation common to both classes, suggesting a new regulatory centre [].; GO: 0008138 protein tyrosine/serine/threonine phosphatase activity, 0006470 protein dephosphorylation; PDB: 2G6Z_A 1MKP_A 1YZ4_A 2P4D_A 1M3G_A 1ZZW_A 2OUD_A 2HXP_A 3LJ8_A 1OHD_A ....
Probab=39.48 E-value=25 Score=24.55 Aligned_cols=28 Identities=21% Similarity=0.217 Sum_probs=20.9
Q ss_pred CCchhHHHHHHhc-CCCCHHHHHHHHHHH
Q 045966 38 GDVWKSIQCYMHE-TGVSEELAREHIKDL 65 (145)
Q Consensus 38 G~~~ssV~cYMke-~gvSeEeA~~~i~~l 65 (145)
|-.++.+-||+-. +|+|.++|.+++++.
T Consensus 85 ~RS~~v~~ayLm~~~~~~~~~A~~~v~~~ 113 (133)
T PF00782_consen 85 SRSGAVAAAYLMKKNGMSLEEAIEYVRSR 113 (133)
T ss_dssp SHHHHHHHHHHHHHHTSSHHHHHHHHHHH
T ss_pred ccchHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3456777787766 499999999988543
No 41
>PF07741 BRF1: Brf1-like TBP-binding domain; InterPro: IPR011665 The Vaccinia virus has an infection-induced host cell cycle control mechanism. p53 and Rb, which are associated with the is inactivated Rb, which are associated with the RNA polymerase III transcription factor B (TFIIIB) subunits, TBP and Brf1, are inactivated [, ]. TFIIB, Brf1, and Brf2 share related N-terminal zinc ribbon and core domains. TFIIB bridges RNA polymerase II (Pol II) with the promoter-bound pre-initiation complex, whereas Brf1 and Brf2 are involved in the recruitment of Pol III. Brf1 and Brf2 both have a C-terminal extension absent in TFIIB, but their C-terminal extensions are unrelated. In yeast Brf1, the C-terminal extension interacts with the TBP/TATA box complex and contributes to the recruitment of Bdp1 []. It is suggested that the structure of the TBP-DNA complex may be altered upon entry of Brf1 and Bdp1 into the complex. Entry of Brf1 and Bdp1 into the complex imposes a strict sequence preference for the downstream half of the TATA box []. This region covers both the Brf homology II and III regions []. ; GO: 0008270 zinc ion binding, 0045893 positive regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NGM_J.
Probab=39.37 E-value=30 Score=24.00 Aligned_cols=27 Identities=26% Similarity=0.550 Sum_probs=18.2
Q ss_pred HHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhc
Q 045966 44 IQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRAN 79 (145)
Q Consensus 44 V~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~ 79 (145)
|++|+ .|++|+. +-+.-|-++|++||.
T Consensus 4 id~~i----l~eeE~~-----~K~~iW~~~NkdyL~ 30 (97)
T PF07741_consen 4 IDNYI----LSEEEVK-----IKERIWMEMNKDYLE 30 (97)
T ss_dssp HHTTC------HHHHH-----HHHHHHHHHTHHHHH
T ss_pred HHHhh----CCHHHHH-----HHHHHHHHHHHHHHH
Confidence 45565 5888774 344679999999984
No 42
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.51 E-value=29 Score=22.28 Aligned_cols=49 Identities=27% Similarity=0.236 Sum_probs=35.2
Q ss_pred cCcccchhhhccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhh
Q 045966 26 DDLGTSTDELKRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAY 76 (145)
Q Consensus 26 NDi~t~~~E~~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e 76 (145)
+++-+...|+...-| .-|+-.|. -|+|.-||+.-+-.-+.+.-|..|+-
T Consensus 3 ~~lp~LtHeqQQ~AV-E~Iq~lMa-eGmSsGEAIa~VA~elRe~hk~~~~~ 51 (60)
T COG3140 3 AGLPSLTHEQQQKAV-ERIQELMA-EGMSSGEAIALVAQELRENHKGENRI 51 (60)
T ss_pred CccccccHHHHHHHH-HHHHHHHH-ccccchhHHHHHHHHHHHHhcccccc
Confidence 455555666665444 56777784 48888999998888888888877763
No 43
>cd05173 PI3Kc_IA_beta Phosphoinositide 3-kinase (PI3K), class IA, beta isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. Class I enzymes are heterodimers and exist in multiple isoforms consisting of one catalytic subunit (out of four isoforms) and one of several regulatory subunits. They are further classified into class IA (alpha, beta and de
Probab=38.42 E-value=37 Score=29.30 Aligned_cols=26 Identities=23% Similarity=0.436 Sum_probs=22.1
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQMWK 71 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~wK 71 (145)
-|+++. +.|+|+|.++++.+|+++-+
T Consensus 317 ~~l~~r~~l~~se~eA~~~f~~~i~~s~~ 345 (362)
T cd05173 317 QYLKDSLALGKSEEEALKQFRQKFDEALR 345 (362)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence 578777 78999999999999998763
No 44
>smart00400 ZnF_CHCC zinc finger.
Probab=38.40 E-value=36 Score=20.82 Aligned_cols=22 Identities=18% Similarity=0.013 Sum_probs=18.6
Q ss_pred hhHHHHHHhcCCCCHHHHHHHH
Q 045966 41 WKSIQCYMHETGVSEELAREHI 62 (145)
Q Consensus 41 ~ssV~cYMke~gvSeEeA~~~i 62 (145)
.+.|+.||+-+|+|-.||.+.+
T Consensus 33 Gd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 33 GNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCHHHHHHHHHCcCHHHHHHHh
Confidence 4679999998899999998765
No 45
>cd00867 Trans_IPPS Trans-Isoprenyl Diphosphate Synthases. Trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) of class 1 isoprenoid biosynthesis enzymes which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, diterpenes, ubiquinone, and archaeal ether linked lipids; and are widely distributed among archaea, bacteria, and eukareya. The enzymes in this family share the same 'isoprenoid synthase fold' and include the head-to-tail (HT) IPPS which catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates
Probab=37.65 E-value=1.4e+02 Score=22.94 Aligned_cols=53 Identities=19% Similarity=0.229 Sum_probs=38.2
Q ss_pred hhHHHHHHHHHHhhcCcccchhhh----------ccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhh
Q 045966 12 PDIIQWSSKIFRLQDDLGTSTDEL----------KRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNA 75 (145)
Q Consensus 12 p~l~~~~~~i~RL~NDi~t~~~E~----------~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~ 75 (145)
-++.+..++..-+.||+..+.... ++|.+ +....++ .+.+...++.+++.+.+
T Consensus 152 ~~~~~~lG~a~Qi~dd~~D~~~d~~~~gk~~~D~~~gr~-tlp~~~~----------~~~~~~~~~~~~~~~~~ 214 (236)
T cd00867 152 KDYGRALGLAFQLTDDLLDVFGDAEELGKVGSDLREGRI-TLPVILA----------RERAAEYAEEAYAALEA 214 (236)
T ss_pred HHHHHHHHHHHHHHHHhccccCChHHHCccHHHHHcCCc-hHHHHHH----------HHHHHHHHHHHHHHHHh
Confidence 457788899999999999987655 55655 5555555 66677777777776654
No 46
>cd07921 PCA_45_Doxase_A_like Subunit A of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and similar enzymes. This subfamily includes the A subunit of protocatechuate (PCA) 4,5-dioxygenase (LigAB) and two subfamilies of unknown function. The A subunit is the smaller, non-catalytic subunit of LigAB. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds. PCA 4,5-dioxygenase is one of the aromatic ring opening dioxygenases which play key roles in the degradation of aromatic compounds. As members of the Class III extradiol dioxygenase family, the enzymes use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like class III enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit.
Probab=37.04 E-value=35 Score=24.56 Aligned_cols=27 Identities=19% Similarity=0.509 Sum_probs=20.6
Q ss_pred HHHHhcCCCCHHHHHHHHHHHHHHHHHHHhh
Q 045966 45 QCYMHETGVSEELAREHIKDLMRQMWKKVNA 75 (145)
Q Consensus 45 ~cYMke~gvSeEeA~~~i~~lie~~wK~lN~ 75 (145)
++||.++|.|+||.. -+.+.-|..|..
T Consensus 37 eAy~~~~gLTeEe~~----AV~~rD~~~Li~ 63 (106)
T cd07921 37 EAYCDKFGLTEEQKQ----AVLDRDWLRLLE 63 (106)
T ss_pred HHHHHHcCCCHHHHH----HHHhCCHHHHHH
Confidence 789999999998754 355667777665
No 47
>PF09682 Holin_LLH: Phage holin protein (Holin_LLH); InterPro: IPR010026 This entry represents the Bacteriophage LL-H, Orf107, holin protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. It is thought that the temporal precision of holin-mediated lysis may occur through the build-up of a holin oligomer which causes the lysis [].
Probab=36.97 E-value=28 Score=24.56 Aligned_cols=35 Identities=14% Similarity=0.277 Sum_probs=25.3
Q ss_pred CchhHHHHHHhcCCC--CHHHHHHHHHHHHHHHHHHHhhhh
Q 045966 39 DVWKSIQCYMHETGV--SEELAREHIKDLMRQMWKKVNAYR 77 (145)
Q Consensus 39 ~~~ssV~cYMke~gv--SeEeA~~~i~~lie~~wK~lN~e~ 77 (145)
...+.|.-+++++|+ |+++ +..+||.+.++||.++
T Consensus 72 ~A~~~v~~~L~~~gi~~t~~~----i~~~IEaAV~~m~~~~ 108 (108)
T PF09682_consen 72 EAVQYVKERLKKKGIKVTDEQ----IEGAIEAAVKEMNDEW 108 (108)
T ss_pred HHHHHHHHHHHHcCCCCCHHH----HHHHHHHHHHHHhhcC
Confidence 334566777888874 4443 7789999999999753
No 48
>KOG0904 consensus Phosphatidylinositol 3-kinase catalytic subunit (p110) [Signal transduction mechanisms]
Probab=36.66 E-value=33 Score=33.32 Aligned_cols=25 Identities=28% Similarity=0.425 Sum_probs=21.8
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~w 70 (145)
-|+|+. |-|||||+++++...+++.
T Consensus 1033 ~ylrdtL~l~ktEEeA~k~F~~k~~eA~ 1060 (1076)
T KOG0904|consen 1033 DYLRDTLALGKTEEEALKYFRDKFEEAL 1060 (1076)
T ss_pred HHHHHHHhcCCcHHHHHHHHHHHHHHHH
Confidence 488887 7899999999999998875
No 49
>PHA02676 A-type inclusion protein; Provisional
Probab=36.15 E-value=47 Score=30.08 Aligned_cols=43 Identities=14% Similarity=0.228 Sum_probs=33.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHHHhhhhh
Q 045966 54 SEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLNLVRASH 100 (145)
Q Consensus 54 SeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N~aR~~~ 100 (145)
|.|.-+++++.||++.|+.-..+ .+ .+|+.-.+++=|+-|---
T Consensus 3 ~~eklV~~FkslV~~tW~~~Ln~---~s-CIpR~~RKiIRnVlR~YI 45 (520)
T PHA02676 3 SMESLVAEFKSLVQRHWHHPLNS---VS-CIPREDRKLIRDILREYI 45 (520)
T ss_pred cHHHHHHHHHHHHHHhcCCcccc---cc-cccHHHHHHHHHHHHHHH
Confidence 67889999999999999763321 33 799999999888888543
No 50
>PF10249 NDUFB10: NADH-ubiquinone oxidoreductase subunit 10; InterPro: IPR019377 NADH-ubiquinone oxidoreductase subunit 10 of (NDUFB10) is a member of a family of conserved proteins of up to 180 residues. It is one of the 41 protein subunits within the hydrophobic fraction of the NADH:ubiquinone oxidoreductase (complex I), a multiprotein complex located in the inner mitochondrial membrane whose main function is the transport of electrons from NADH to ubiquinone, which is accompanied by translocation of protons from the mitochondrial matrix to the intermembrane space. NDUFB10 is encoded in the nucleus.
Probab=35.70 E-value=19 Score=26.79 Aligned_cols=14 Identities=14% Similarity=0.209 Sum_probs=11.9
Q ss_pred CCchhHHHHHHhcC
Q 045966 38 GDVWKSIQCYMHET 51 (145)
Q Consensus 38 G~~~ssV~cYMke~ 51 (145)
|..+|+..|||||.
T Consensus 107 g~~~~~~~~~mKQK 120 (128)
T PF10249_consen 107 GAYGSARKALMKQK 120 (128)
T ss_pred CccccHHHHHHHHH
Confidence 56679999999986
No 51
>PF03000 NPH3: NPH3 family; InterPro: IPR004249 The RPT2 protein is a signal transducer of the phototropic response in Arabidopsis thaliana. The RPT2 gene is light inducible; encodes a novel protein with putative phosphorylation sites, a nuclear localization signal, a BTB/POZ domain (IPR000210 from INTERPRO), and a coiled-coil domain. RPT2 belongs to a large gene family that includes the recently isolated NPH3 gene []. The NPH3 protein is a NPH1 photoreceptor-interacting protein that is essential for phototropism. Phototropism of A. thaliana seedlings in response to a blue light source is initiated by nonphototropic hypocotyl 1 (NPH1), a light-activated serine-threonine protein kinase []. NPH3 is a member of a large protein family, apparently specific to higher plants, and may function as an adapter or scaffold protein to bring together the enzymatic components of a NPH1-activated phosphorelay []. Many of the proteins in this group also contain the BTB/POZ domain (IPR000210 from INTERPRO) at the N-terminal.; GO: 0004871 signal transducer activity, 0009416 response to light stimulus
Probab=35.36 E-value=30 Score=28.46 Aligned_cols=18 Identities=33% Similarity=0.660 Sum_probs=16.4
Q ss_pred hHHHHHHhcC-CCCHHHHH
Q 045966 42 KSIQCYMHET-GVSEELAR 59 (145)
Q Consensus 42 ssV~cYMke~-gvSeEeA~ 59 (145)
.||..|+|.| ++|++|-.
T Consensus 224 rAID~YLk~Hp~ls~~Er~ 242 (258)
T PF03000_consen 224 RAIDIYLKAHPGLSEEERK 242 (258)
T ss_pred HHHHHHHHHcccCCHHHHH
Confidence 8999999999 89998865
No 52
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=32.93 E-value=86 Score=24.02 Aligned_cols=25 Identities=16% Similarity=0.351 Sum_probs=19.9
Q ss_pred HhcCCCCHHHHHHHHHHHHHHHHHH
Q 045966 48 MHETGVSEELAREHIKDLMRQMWKK 72 (145)
Q Consensus 48 Mke~gvSeEeA~~~i~~lie~~wK~ 72 (145)
++..|+|+||+.+.=++|..+++-.
T Consensus 109 ~e~~Gi~eEEL~~qQqeLf~~ARar 133 (156)
T KOG0871|consen 109 FEKSGIPEEELLRQQQELFAKARAR 133 (156)
T ss_pred HHhcCCCHHHHHHHHHHHHHHHHHH
Confidence 3456888988888888888888855
No 53
>COG2840 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.93 E-value=56 Score=25.69 Aligned_cols=38 Identities=16% Similarity=0.273 Sum_probs=27.8
Q ss_pred ccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhh
Q 045966 36 KRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNA 75 (145)
Q Consensus 36 ~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~ 75 (145)
.||.. .++.-+-=||+|.+||+..+..+|..+.++-.+
T Consensus 89 rrG~~--~~e~~LDLHG~tq~eAr~~L~~Fi~~a~~~~~r 126 (184)
T COG2840 89 RRGRY--PPEARLDLHGLTQEEARQELGAFIARARAEGLR 126 (184)
T ss_pred hcCCC--CcceeeeccCCCHHHHHHHHHHHHHHHHHhCCc
Confidence 35665 344455557999999999999999888865443
No 54
>cd00894 PI3Kc_IB_gamma Phosphoinositide 3-kinase (PI3K), class IB, gamma isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. Class I enzymes are heterodimers and exist in multiple isoforms consisting of one catalytic subunit (out of four isoforms) and one of several regulatory subunits. They are further classified into class IA (alpha, beta and
Probab=32.24 E-value=46 Score=28.80 Aligned_cols=25 Identities=32% Similarity=0.464 Sum_probs=21.7
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~w 70 (145)
-|+++. +.|+|+|.+++..+|+++-
T Consensus 321 ~~l~~~~~l~~se~eA~~~f~~~I~~s~ 348 (365)
T cd00894 321 EYIRDALTVGKSEEDAKKHFLDQIEVCR 348 (365)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 477776 7899999999999999874
No 55
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=32.09 E-value=58 Score=22.60 Aligned_cols=21 Identities=5% Similarity=0.060 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 045966 55 EELAREHIKDLMRQMWKKVNA 75 (145)
Q Consensus 55 eEeA~~~i~~lie~~wK~lN~ 75 (145)
.+||.+++++.|+++.++|-+
T Consensus 66 cpeA~~eL~~eI~eAK~dLr~ 86 (91)
T PF08285_consen 66 CPEAAKELQKEIKEAKADLRK 86 (91)
T ss_pred CHHHHHHHHHHHHHHHHHHHH
Confidence 588999999999999998754
No 56
>cd00895 PI3Kc_C2_beta Phosphoinositide 3-kinase (PI3K), class II, beta isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class II PI3Ks preferentially use PtdIns as a substrate to produce PtdIns(3)P, but can also phosphorylate PtdIns(4)P. They function as monomers and do not
Probab=32.04 E-value=46 Score=28.74 Aligned_cols=24 Identities=17% Similarity=0.159 Sum_probs=21.0
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQM 69 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~ 69 (145)
-|+++. +.|+|||.+++.++|+++
T Consensus 311 ~~l~~rf~l~~se~eA~~~f~~lI~~s 337 (354)
T cd00895 311 KYVYDALRPQDTEADATTYFTRLIESS 337 (354)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 477765 799999999999999987
No 57
>PRK13735 conjugal transfer mating pair stabilization protein TraG; Provisional
Probab=31.79 E-value=39 Score=32.85 Aligned_cols=30 Identities=13% Similarity=0.282 Sum_probs=25.5
Q ss_pred ccCCchhHHHHHHhcCCCCHHHHHHHHHHH
Q 045966 36 KRGDVWKSIQCYMHETGVSEELAREHIKDL 65 (145)
Q Consensus 36 ~rG~~~ssV~cYMke~gvSeEeA~~~i~~l 65 (145)
.-.++.++|+-|-|++|+|+|+|..++...
T Consensus 586 ~~s~m~sav~~~ak~~~iS~~qa~~~l~~~ 615 (942)
T PRK13735 586 MASRMRSAVESYAKAHNISNEQATQELASR 615 (942)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 345678999999999999999999888654
No 58
>PF08328 ASL_C: Adenylosuccinate lyase C-terminal; InterPro: IPR013539 This domain is found at the C terminus of adenylosuccinate lyase(ASL; PurB in Escherichia coli). It has been identified in bacteria, eukaryotes and archaea and is found together with the lyase domain IPR000362 from INTERPRO. ASL catalyses the cleavage of succinylaminoimidazole carboxamide ribotide to aminoimidazole carboxamide ribotide and fumarate and the cleavage of adenylosuccinate to adenylate and fumarate []. ; GO: 0004018 N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity, 0006188 IMP biosynthetic process; PDB: 2HVG_A 2QGA_C 2PTS_A 2PTR_A 2PTQ_B 3BHG_A 3GZH_A.
Probab=31.49 E-value=53 Score=23.98 Aligned_cols=53 Identities=21% Similarity=0.233 Sum_probs=34.4
Q ss_pred CchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhh----hhhcCCCCCcHHHHHHHHHHh
Q 045966 39 DVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNA----YRANKDSPLSQTTADFMLNLV 96 (145)
Q Consensus 39 ~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~----e~l~~~~~vp~~~~~~~~N~a 96 (145)
=+|.+||.-|+-+|+ +++++.++++-... .+++ +|...- .+|...+....+++
T Consensus 54 VlaEpIQTvmRr~g~--~~pYE~LK~lTRg~--~it~~~l~~fI~~L-~ip~~~k~~L~~lt 110 (115)
T PF08328_consen 54 VLAEPIQTVMRRYGI--PNPYEKLKELTRGK--KITKEDLREFIESL-DIPEEAKARLLALT 110 (115)
T ss_dssp GGHHHHHHHHHHTT---SSHHHHHHHHHTTS-----HHHHHHHHHTS-SS-HHHHHHHHH--
T ss_pred HHHHHHHHHHHHcCC--CCHHHHHHHHHcCC--CCCHHHHHHHHHhC-CCCHHHHHHHHhcC
Confidence 368899999999997 67888888776543 4444 444444 79999888877764
No 59
>PHA02699 hypothetical protein; Provisional
Probab=31.48 E-value=1.4e+02 Score=26.45 Aligned_cols=50 Identities=16% Similarity=0.248 Sum_probs=36.9
Q ss_pred chhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcH-HHHHHHHHHh
Q 045966 40 VWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQ-TTADFMLNLV 96 (145)
Q Consensus 40 ~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~-~~~~~~~N~a 96 (145)
-+.|++.|| |+-..+++.-.-+.|.++.+..-.-++.+|+ .|++.|+..-
T Consensus 380 ~pdsl~~~m-------e~dl~~~~~~~~elwd~i~~~asdlds~lp~ce~ierfi~~~ 430 (466)
T PHA02699 380 HPDSLMARM-------EKDLQDLYARFSELWDDILEKAADLDSTLPRCECIEKFIHHM 430 (466)
T ss_pred CchHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHhhhhhcCCcchHHHHHHHHH
Confidence 457888888 5667788888889999998877653336887 5777776553
No 60
>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins. It has no known function. ; GO: 0005634 nucleus; PDB: 2EQZ_A 1V64_A 2CTO_A 1H5P_A 3TQ6_A 3FGH_A 3TMM_A 1J3X_A 2YRQ_A 1AAB_A ....
Probab=31.39 E-value=33 Score=22.04 Aligned_cols=37 Identities=14% Similarity=0.212 Sum_probs=23.9
Q ss_pred chhHHHHHHhcCCCC-HHH-----HHHHHHHHHHHHHHHHhhh
Q 045966 40 VWKSIQCYMHETGVS-EEL-----AREHIKDLMRQMWKKVNAY 76 (145)
Q Consensus 40 ~~ssV~cYMke~gvS-eEe-----A~~~i~~lie~~wK~lN~e 76 (145)
..|+-.+||+++-.. .+. ...++...|.+.|+.|..+
T Consensus 7 ~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls~~ 49 (73)
T PF09011_consen 7 PPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLSEE 49 (73)
T ss_dssp SSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-HH
T ss_pred CCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcCHH
Confidence 347888899876221 111 3456778899999998753
No 61
>KOG4681 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.39 E-value=25 Score=29.29 Aligned_cols=24 Identities=29% Similarity=0.260 Sum_probs=20.1
Q ss_pred hhHHHHHHHHHHhhcCcccchhhh
Q 045966 12 PDIIQWSSKIFRLQDDLGTSTDEL 35 (145)
Q Consensus 12 p~l~~~~~~i~RL~NDi~t~~~E~ 35 (145)
.++-.+.+.|.|||||-.||+-++
T Consensus 222 tDvs~lg~fIy~lC~~rktYkL~r 245 (280)
T KOG4681|consen 222 TDVSTLGSFIYRLCNDRKTYKLRR 245 (280)
T ss_pred ccHHHHHHHHHHHhccchhhhhhH
Confidence 456677889999999999999765
No 62
>cd05176 PI3Kc_C2_alpha Phosphoinositide 3-kinase (PI3K), class II, alpha isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class II PI3Ks preferentially use PtdIns as a substrate to produce PtdIns(3)P, but can also phosphorylate PtdIns(4)P. They function as monomers and do n
Probab=30.82 E-value=49 Score=28.53 Aligned_cols=25 Identities=12% Similarity=0.179 Sum_probs=21.6
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~w 70 (145)
-|+++. +.|+|||..+++++|+++-
T Consensus 310 ~~l~~r~~l~~sd~ea~~~f~~lI~~s~ 337 (353)
T cd05176 310 KYVYDALQPQTTDAEATIFFTRLIESSL 337 (353)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 488875 7999999999999999873
No 63
>cd05165 PI3Kc_I Phosphoinositide 3-kinase (PI3K), class I, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. In vitro, they can also phosphorylate the substrates P
Probab=30.25 E-value=52 Score=28.45 Aligned_cols=26 Identities=31% Similarity=0.364 Sum_probs=22.3
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQMWK 71 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~wK 71 (145)
-|+++. +.|+|+|.++++.+|.++-.
T Consensus 322 ~~lr~rf~l~~se~eA~~~f~~~I~~s~~ 350 (366)
T cd05165 322 EYLRDTLALGKSEEEALKYFLDKFNEALD 350 (366)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHHh
Confidence 578885 78999999999999998764
No 64
>PF15581 Imm35: Immunity protein 35
Probab=30.07 E-value=45 Score=23.37 Aligned_cols=30 Identities=13% Similarity=0.409 Sum_probs=19.7
Q ss_pred HHHhcCCCCHHHHHHHHHHHHHHHHHHHhh
Q 045966 46 CYMHETGVSEELAREHIKDLMRQMWKKVNA 75 (145)
Q Consensus 46 cYMke~gvSeEeA~~~i~~lie~~wK~lN~ 75 (145)
.|..+.-=|.-.-++-+..+||..||-|-+
T Consensus 19 sY~~q~~esa~~~i~~l~~lIe~eWRGl~~ 48 (93)
T PF15581_consen 19 SYLRQGEESARRTIRNLESLIEHEWRGLPE 48 (93)
T ss_pred HHHhcchhHHHHHHHHHHHHHHHHHcCCCH
Confidence 466554444555556667889999987654
No 65
>TIGR01806 CM_mono2 chorismate mutase, putative. This model represents a clade of probable chorismate mutases from alpha, beta and gamma proteobacteria as well as Mycobacterium tuberculosis and a clade of nematodes. Although the most likely function for the enzymes represented by this model is as a chorismate mutase, in no species are these enzymes the sole chorismate mutase in the genome. Also, in no case are these enzymes located in a region of the genome proximal to any other enzymes involved in chorismate pathways. Although the Pantoea enzyme has been shown to complement a CM-free mutant of E. coli, this was also shown to be the case with isochorismate-pyruvate lyase which only has a secondary (non-physiologically relevant) chorismate mutase activity. This enzyme is believed to be a homodimer and be localized to the periplasm.
Probab=29.97 E-value=96 Score=22.18 Aligned_cols=60 Identities=10% Similarity=0.188 Sum_probs=37.1
Q ss_pred hhHHHHHHHHHHhhcCcccchhhhcc--------CCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Q 045966 12 PDIIQWSSKIFRLQDDLGTSTDELKR--------GDVWKSIQCYMHETGVSEELAREHIKDLMRQMWK 71 (145)
Q Consensus 12 p~l~~~~~~i~RL~NDi~t~~~E~~r--------G~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK 71 (145)
..|+.+.+-=.+++.+++.+|.+... ..+-..+.-.-+++|++++.+..-++.+++.++.
T Consensus 7 ~eLv~Ll~eR~~la~eVa~~K~~~~~pI~Dp~RE~~Vl~~~~~~a~~~gL~~~~i~~if~~Ii~~Sk~ 74 (114)
T TIGR01806 7 GQLVDAANERLQLADDVAGYKARNNLPIEDSPREEQVLDSLRAQAQSAGLDPDYVTRFFQAQINANKA 74 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCChHHHHHHHHHHHHHhHcCCCCHHHHHHHHHHHHHHHHH
Confidence 45777777777888888888865321 0111222222345677777777777777776664
No 66
>cd05174 PI3Kc_IA_delta Phosphoinositide 3-kinase (PI3K), class IA, delta isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. Class I enzymes are heterodimers and exist in multiple isoforms consisting of one catalytic subunit (out of four isoforms) and one of several regulatory subunits. They are further classified into class IA (alpha, beta and
Probab=29.90 E-value=54 Score=28.37 Aligned_cols=25 Identities=24% Similarity=0.429 Sum_probs=20.4
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~w 70 (145)
-|+++. +.|+|||.++++.+|+++-
T Consensus 317 ~~l~~~~~l~~se~ea~~~f~~~i~~s~ 344 (361)
T cd05174 317 QYLKDSLALGKTEEEALKHFRVKFNEAL 344 (361)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 588877 7899999999888876554
No 67
>TIGR02660 nifV_homocitr homocitrate synthase NifV. This family consists of the NifV clade of homocitrate synthases, most of which are found in operons for nitrogen fixation. Members are closely homologous to enzymes that include 2-isopropylmalate synthase, (R)-citramalate synthase, and homocitrate synthases associated with other processes. The homocitrate made by this enzyme becomes a part of the iron-molybdenum cofactor of nitrogenase.
Probab=29.83 E-value=1e+02 Score=26.20 Aligned_cols=77 Identities=13% Similarity=0.131 Sum_probs=45.1
Q ss_pred HHHhcC-CCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHHHhhhh------hhccccCCCCCCCchhHHH
Q 045966 46 CYMHET-GVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLNLVRAS------HFMYLHGDGHGVQNQETMD 118 (145)
Q Consensus 46 cYMke~-gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N~aR~~------~~~Y~~~Dg~t~~~~~~k~ 118 (145)
.+++.. |.|.+++++.+.+.|+.+.+.=.+-.+... ..++.=.+.++.+++.+ .+.+.+.-|...| ..+.+
T Consensus 98 ~~~~~~~~~s~~e~l~~~~~~i~~ak~~g~~v~~~~e-d~~r~~~~~l~~~~~~~~~~Ga~~i~l~DT~G~~~P-~~v~~ 175 (365)
T TIGR02660 98 LQIEAKLRKDRAWVLERLARLVSFARDRGLFVSVGGE-DASRADPDFLVELAEVAAEAGADRFRFADTVGILDP-FSTYE 175 (365)
T ss_pred HHHHHHhCcCHHHHHHHHHHHHHHHHhCCCEEEEeec-CCCCCCHHHHHHHHHHHHHcCcCEEEEcccCCCCCH-HHHHH
Confidence 444444 789999999999999988654222223222 22222223333333321 2344677888888 57888
Q ss_pred HHHhhc
Q 045966 119 VAFTLL 124 (145)
Q Consensus 119 ~I~sll 124 (145)
.|+.+.
T Consensus 176 lv~~l~ 181 (365)
T TIGR02660 176 LVRALR 181 (365)
T ss_pred HHHHHH
Confidence 887774
No 68
>PF08519 RFC1: Replication factor RFC1 C terminal domain; InterPro: IPR013725 This is the C-terminal domain of replication factor C, RFC1. RFC complexes hydrolyse ATP and load sliding clamps such as PCNA (proliferating cell nuclear antigen) onto double-stranded DNA. RFC1 is essential for RFC function in vivo [, ]. ; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_A.
Probab=29.80 E-value=18 Score=27.43 Aligned_cols=46 Identities=20% Similarity=0.275 Sum_probs=0.0
Q ss_pred CchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHH
Q 045966 39 DVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFM 92 (145)
Q Consensus 39 ~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~ 92 (145)
.+..+|+ +|.+|+.|.|+. +.|.++. .|..... .+ . .+|..+|-.|
T Consensus 104 ~v~~vi~-~Md~Y~Ltred~-d~i~el~--~~~~~~~-~~--~-~i~tkvKaaf 149 (155)
T PF08519_consen 104 GVDEVID-LMDEYGLTREDW-DNIMELS--KWPGKED-PL--K-KIDTKVKAAF 149 (155)
T ss_dssp ------------------------------------------------------
T ss_pred cHHHHHH-HHHHhCCCHHHH-HHHHHhc--cCCCCcc-cc--c-CCcHHHHHHH
Confidence 5655554 788888888887 7777776 4544222 11 1 3565555543
No 69
>cd07321 Extradiol_Dioxygenase_3A_like Subunit A of Class III extradiol dioxygenases. Extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. There are two major groups of dioxygenases according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents subunit A of c
Probab=29.26 E-value=37 Score=22.68 Aligned_cols=27 Identities=15% Similarity=0.185 Sum_probs=19.6
Q ss_pred HHHHhcCCCCHHHHHHHHHHHHHHHHHHHhh
Q 045966 45 QCYMHETGVSEELAREHIKDLMRQMWKKVNA 75 (145)
Q Consensus 45 ~cYMke~gvSeEeA~~~i~~lie~~wK~lN~ 75 (145)
+.||.++|.|+||-. -+.+--|..|..
T Consensus 27 ~a~~~~~~Lt~eE~~----al~~rD~~~L~~ 53 (77)
T cd07321 27 EAVLAEYGLTPEEKA----ALLARDVGALYV 53 (77)
T ss_pred HHHHHHcCCCHHHHH----HHHcCCHHHHHH
Confidence 689999999998743 345566766655
No 70
>PHA02896 A-type inclusion like protein; Provisional
Probab=29.01 E-value=1e+02 Score=28.32 Aligned_cols=45 Identities=13% Similarity=0.273 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHHHhhhhh
Q 045966 52 GVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLNLVRASH 100 (145)
Q Consensus 52 gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N~aR~~~ 100 (145)
|...|.-+..++.+|++.|.+ +.-+.+ .+|+.-..++=|+-|-.-
T Consensus 5 ~~giEKcV~eFkSlVertWnk---~Lns~S-CIpRk~RKiIRNILR~YI 49 (616)
T PHA02896 5 GCGIDKCIRKFESLIIRTWDH---DLNERS-FLNRKDRKIIRNIFRCFI 49 (616)
T ss_pred ccChHHHHHHHHHHHHHhhCC---cccccc-CcCHHHHHHHHHHHHHHH
Confidence 455688889999999999954 222244 799999999999988543
No 71
>TIGR01542 A118_put_portal phage portal protein, putative, A118 family. This model represents a family of phage minor structural proteins. The protein is suggested to be the head-tail connector, or portal protein, on the basis of its position in the phage gene order, its presence in mature phage, its size, and its conservation across a number of complete genomes of tailed phage that lack other candidate portal proteins. Several other known portal protein families lack clear homology to this family and to each other.
Probab=28.26 E-value=72 Score=28.51 Aligned_cols=31 Identities=16% Similarity=0.129 Sum_probs=23.0
Q ss_pred CCchhHHHHHHhcCCCCHHHHHHHHHHHHHHH
Q 045966 38 GDVWKSIQCYMHETGVSEELAREHIKDLMRQM 69 (145)
Q Consensus 38 G~~~ssV~cYMke~gvSeEeA~~~i~~lie~~ 69 (145)
|-+ |--++.||-+|.|+|||.+.+.++-++.
T Consensus 440 G~m-s~~~yl~k~yg~~eeeA~~~~~~i~~e~ 470 (476)
T TIGR01542 440 GMI-PLKIALQRAWNITEEEADEWAAMIAKEK 470 (476)
T ss_pred CCC-CHHHHHHHccCCCHHHHHHHHHHHhhhh
Confidence 433 5556777766999999999998776554
No 72
>cd05177 PI3Kc_C2_gamma Phosphoinositide 3-kinase (PI3K), class II, gamma isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class II PI3Ks preferentially use PtdIns as a substrate to produce PtdIns(3)P, but can also phosphorylate PtdIns(4)P. They function as monomers and do n
Probab=28.08 E-value=58 Score=28.03 Aligned_cols=25 Identities=8% Similarity=0.069 Sum_probs=21.5
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~w 70 (145)
-|+++. +.|+|||.+++..+|.++-
T Consensus 311 ~~l~~~~~l~~sd~eA~~~f~~lI~~s~ 338 (354)
T cd05177 311 KYVYNNLRPQDTDLEATSYFTKKIKESL 338 (354)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 477765 7899999999999999875
No 73
>PF10540 Membr_traf_MHD: Munc13 (mammalian uncoordinated) homology domain; InterPro: IPR019558 Mammalian uncoordinated homology 13 (Munc13) proteins constitute a family of three highly homologous molecules (Munc13-1, Munc13-2 and Munc13-3) with homology to Caenorhabditis elegans unc-13p. Munc13 proteins contain a phorbol ester-binding C1 domain and two C2 domains, which are Ca2+/phospholipid binding domains. Sequence analyses have uncovered two regions called Munc13 homology domains 1 (MHD1) and 2 (MHD2) that are arranged between two flanking C2 domains. MHD1 and MHD2 domains are present in a wide variety of proteins from Arabidopsis thaliana (Mouse-ear cress), C. elegans, Drosophila melanogaster (Fruit fly), Mus musculus (Mouse), Rattus norvegicus (Rat) and Homo sapiens (Human), some of which may function in a Munc13-like manner to regulate membrane trafficking. The MHD1 and MHD2 domains are predicted to be alpha-helical. ; PDB: 3SWH_A.
Probab=27.97 E-value=97 Score=22.72 Aligned_cols=24 Identities=17% Similarity=0.203 Sum_probs=14.3
Q ss_pred HHHHHHHHHhhhhhhccccCCCCC
Q 045966 87 TTADFMLNLVRASHFMYLHGDGHG 110 (145)
Q Consensus 87 ~~~~~~~N~aR~~~~~Y~~~Dg~t 110 (145)
.|..+..=+--+.+|||.+|+|-.
T Consensus 83 q~~~l~~~L~~L~~FFhA~G~Gl~ 106 (137)
T PF10540_consen 83 QCDRLFKWLDTLKDFFHAEGNGLP 106 (137)
T ss_dssp CHHHHHHHHHHHHHHHHCCCTS--
T ss_pred HHHHHHHHHHHHHHHHhCCCCCCC
Confidence 344444444445789999888855
No 74
>cd05166 PI3Kc_II Phosphoinositide 3-kinase (PI3K), class II, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class II PI3Ks preferentially use PtdIns as a substrate to produce PtdIns(3)P, but can also phosphorylate PtdIns(4)P. They function as monomers and do not associate with any
Probab=27.65 E-value=60 Score=27.87 Aligned_cols=25 Identities=8% Similarity=0.267 Sum_probs=21.3
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~w 70 (145)
-|+++. +.|+|+|.+++.++|.++-
T Consensus 310 ~~l~~r~~l~~s~~ea~~~~~~~I~~s~ 337 (353)
T cd05166 310 KYVRDALRPQLTDAEATIQFTKMIQSSL 337 (353)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 477776 7899999999999999874
No 75
>cd00891 PI3Kc Phosphoinositide 3-kinase (PI3K), catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. Class I enzymes are heterodimers and exist in multiple isoforms c
Probab=27.26 E-value=62 Score=27.74 Aligned_cols=30 Identities=23% Similarity=0.461 Sum_probs=24.3
Q ss_pred hHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHH
Q 045966 42 KSIQCYMHET---GVSEELAREHIKDLMRQMWKK 72 (145)
Q Consensus 42 ssV~cYMke~---gvSeEeA~~~i~~lie~~wK~ 72 (145)
..|. ||++. +.|+++|.+++..+|+++-..
T Consensus 306 ~~i~-~l~~r~~l~~s~~~a~~~~~~lI~~s~~~ 338 (352)
T cd00891 306 EDIE-YLRDALALDKSDEEATEYFRKLIHESLNS 338 (352)
T ss_pred HHHH-HHHHHhCCCCCHHHHHHHHHHHHHHHHhc
Confidence 3454 88877 799999999999999988643
No 76
>PRK04946 hypothetical protein; Provisional
Probab=26.38 E-value=86 Score=24.45 Aligned_cols=23 Identities=17% Similarity=0.296 Sum_probs=20.2
Q ss_pred cCCCCHHHHHHHHHHHHHHHHHH
Q 045966 50 ETGVSEELAREHIKDLMRQMWKK 72 (145)
Q Consensus 50 e~gvSeEeA~~~i~~lie~~wK~ 72 (145)
=||.+.|||+..+...|.++.+.
T Consensus 100 LhG~~~eeA~~~L~~fl~~a~~~ 122 (181)
T PRK04946 100 LHGLTQLQAKQELGALIAACRKE 122 (181)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHc
Confidence 46999999999999999988864
No 77
>PRK11858 aksA trans-homoaconitate synthase; Reviewed
Probab=26.37 E-value=1.2e+02 Score=25.91 Aligned_cols=78 Identities=8% Similarity=-0.069 Sum_probs=45.9
Q ss_pred HHHhcC-CCCHHHHHHHHHHHHHHHHHHHhhhhhcC-C-CCCcHHHHHHHHHHhhh---hhhccccCCCCCCCchhHHHH
Q 045966 46 CYMHET-GVSEELAREHIKDLMRQMWKKVNAYRANK-D-SPLSQTTADFMLNLVRA---SHFMYLHGDGHGVQNQETMDV 119 (145)
Q Consensus 46 cYMke~-gvSeEeA~~~i~~lie~~wK~lN~e~l~~-~-~~vp~~~~~~~~N~aR~---~~~~Y~~~Dg~t~~~~~~k~~ 119 (145)
.+++.. |.|.+++.+.+.+.++.+...=-+-++.. + +..+..++..++..++- -.+.+.+.-|...| ..+.+.
T Consensus 101 ~h~~~~~~~s~~~~l~~~~~~v~~a~~~G~~v~~~~ed~~r~~~~~l~~~~~~~~~~Ga~~I~l~DT~G~~~P-~~v~~l 179 (378)
T PRK11858 101 IHIKHKLKKTREEVLERMVEAVEYAKDHGLYVSFSAEDASRTDLDFLIEFAKAAEEAGADRVRFCDTVGILDP-FTMYEL 179 (378)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHHHHHCCCeEEEEeccCCCCCHHHHHHHHHHHHhCCCCEEEEeccCCCCCH-HHHHHH
Confidence 455555 88999999999999998765422223321 1 12333333333333221 12445677888888 478877
Q ss_pred HHhhc
Q 045966 120 AFTLL 124 (145)
Q Consensus 120 I~sll 124 (145)
|..+.
T Consensus 180 v~~l~ 184 (378)
T PRK11858 180 VKELV 184 (378)
T ss_pred HHHHH
Confidence 77764
No 78
>PF10728 DUF2520: Domain of unknown function (DUF2520); InterPro: IPR018931 This presumed domain is found C-terminal to a Rossmann-like domain suggesting that these proteins are oxidoreductases. ; PDB: 3D1L_A 2I76_A 3DFU_A.
Probab=26.18 E-value=1.1e+02 Score=22.40 Aligned_cols=40 Identities=18% Similarity=0.297 Sum_probs=26.7
Q ss_pred HHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhh--cCCCCCcH
Q 045966 47 YMHETGVSEELAREHIKDLMRQMWKKVNAYRA--NKDSPLSQ 86 (145)
Q Consensus 47 YMke~gvSeEeA~~~i~~lie~~wK~lN~e~l--~~~~~vp~ 86 (145)
++++.|++.++|.+.+.-+++.+.+.+.+.-. ..+||+.|
T Consensus 59 ll~~~gi~~~~a~~~L~PLi~~t~~n~~~~g~~~alTGP~~R 100 (132)
T PF10728_consen 59 LLEQAGIDFEEALEALLPLIRETLENILQLGPADALTGPAAR 100 (132)
T ss_dssp HHHHTT-SHHH--HHHHHHHHHHHHHHHHS-HHHH--SCCHC
T ss_pred HHHHcCCCchhHHHHHHHHHHHHHHHHHhcCchhccCCCccc
Confidence 34678999999999999999999999876433 12336654
No 79
>PF13224 DUF4032: Domain of unknown function (DUF4032)
Probab=26.11 E-value=27 Score=27.05 Aligned_cols=22 Identities=14% Similarity=0.299 Sum_probs=16.2
Q ss_pred hHHHHHHH------HHHhhcCcccchhh
Q 045966 13 DIIQWSSK------IFRLQDDLGTSTDE 34 (145)
Q Consensus 13 ~l~~~~~~------i~RL~NDi~t~~~E 34 (145)
+|++++++ .-||+|||.+|..-
T Consensus 64 rL~rLTGLdv~E~QArrlLndi~~yra~ 91 (165)
T PF13224_consen 64 RLLRLTGLDVQENQARRLLNDIDSYRAQ 91 (165)
T ss_pred HHHHHhCCCccHHHHHHHHHHHHHHHhh
Confidence 35566654 35999999999875
No 80
>cd00751 thiolase Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and eukaryotes (cytosol, microbodies and mitochondria). There are 2 functional different classes: thiolase-I (3-ketoacyl-CoA thiolase) and thiolase-II (acetoacetyl-CoA thiolase). Thiolase-I can cleave longer fatty acid molecules and plays an important role in the beta-oxidative degradation of fatty acids. Thiolase-II has a high substrate specificity. Although it can cleave acetoacyl-CoA, its main function is the synthesis of acetoacyl-CoA from two molecules of acetyl-CoA, which gives it importance in several biosynthetic pathways.
Probab=25.99 E-value=94 Score=26.34 Aligned_cols=40 Identities=15% Similarity=0.022 Sum_probs=27.4
Q ss_pred chhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhc
Q 045966 40 VWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRAN 79 (145)
Q Consensus 40 ~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~ 79 (145)
.+..-+-||++||+|.|+-=+---+.=.++|+-.|...+.
T Consensus 152 ~a~~a~~~~~~yg~tre~la~vav~~~~~a~~~~~~~~~~ 191 (386)
T cd00751 152 MGITAENVAEKYGISREEQDEFALRSHQRAAAAQEAGRFK 191 (386)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHcCCCc
Confidence 3556789999999998874444445556777776665553
No 81
>KOG0506 consensus Glutaminase (contains ankyrin repeat) [Amino acid transport and metabolism]
Probab=25.89 E-value=37 Score=30.92 Aligned_cols=26 Identities=27% Similarity=0.257 Sum_probs=23.2
Q ss_pred CcccchhhhccCCchhHHHHHHhcCC
Q 045966 27 DLGTSTDELKRGDVWKSIQCYMHETG 52 (145)
Q Consensus 27 Di~t~~~E~~rG~~~ssV~cYMke~g 52 (145)
|=+||.-|++.|+-.=|+.-||||+.
T Consensus 326 ~NatFlSEretaDRNyAlsYymkE~k 351 (622)
T KOG0506|consen 326 DNATFLSERETADRNYALSYYMKEKK 351 (622)
T ss_pred cchhhhcchhcccchhHHHHHHHhcc
Confidence 55788999999999999999999994
No 82
>PRK15364 pathogenicity island 2 effector protein SseB; Provisional
Probab=25.85 E-value=60 Score=25.69 Aligned_cols=23 Identities=22% Similarity=0.387 Sum_probs=19.4
Q ss_pred hhhccCCchhHHHHHHhcCCCCH
Q 045966 33 DELKRGDVWKSIQCYMHETGVSE 55 (145)
Q Consensus 33 ~E~~rG~~~ssV~cYMke~gvSe 55 (145)
.++.++.+|-.|--||++||++.
T Consensus 92 ddK~k~~LPddVI~YmrdNgI~V 114 (196)
T PRK15364 92 DAKTKEEVPEDVIKYMRDNGILI 114 (196)
T ss_pred CCcccccCCHHHHHHHHHcCcee
Confidence 55677899999999999999765
No 83
>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain. FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox
Probab=25.66 E-value=1.4e+02 Score=23.81 Aligned_cols=77 Identities=8% Similarity=-0.008 Sum_probs=44.5
Q ss_pred HHhcC-CCCHHHHHHHHHHHHHHHHHHHhhhhhcCC--CCCcHHHHHHHHHHhhh--hhhcc-ccCCCCCCCchhHHHHH
Q 045966 47 YMHET-GVSEELAREHIKDLMRQMWKKVNAYRANKD--SPLSQTTADFMLNLVRA--SHFMY-LHGDGHGVQNQETMDVA 120 (145)
Q Consensus 47 YMke~-gvSeEeA~~~i~~lie~~wK~lN~e~l~~~--~~vp~~~~~~~~N~aR~--~~~~Y-~~~Dg~t~~~~~~k~~I 120 (145)
+++.+ |.|.+++.+.+...++.+.+.=-+-.+... +..+...+.-++..+.- ++.+| .+.-|.-.| ..+.+.|
T Consensus 96 ~~~~~~~~~~~~~~~~~~~~i~~a~~~G~~v~~~~~~~~~~~~~~~~~~~~~~~~~G~~~i~l~DT~G~~~P-~~v~~lv 174 (259)
T cd07939 96 HLAHKLGKDRAWVLDQLRRLVGRAKDRGLFVSVGAEDASRADPDFLIEFAEVAQEAGADRLRFADTVGILDP-FTTYELI 174 (259)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHHHHHCCCeEEEeeccCCCCCHHHHHHHHHHHHHCCCCEEEeCCCCCCCCH-HHHHHHH
Confidence 44444 788999999999999988765222233322 12333222222222111 23344 677888888 5788888
Q ss_pred Hhhc
Q 045966 121 FTLL 124 (145)
Q Consensus 121 ~sll 124 (145)
..+.
T Consensus 175 ~~l~ 178 (259)
T cd07939 175 RRLR 178 (259)
T ss_pred HHHH
Confidence 7775
No 84
>PF12668 DUF3791: Protein of unknown function (DUF3791); InterPro: IPR024269 This entry represents proteins of unknown function.
Probab=25.53 E-value=82 Score=19.83 Aligned_cols=24 Identities=21% Similarity=0.151 Sum_probs=19.0
Q ss_pred hhHHHHHHhcCCCCHHHHHHHHHH
Q 045966 41 WKSIQCYMHETGVSEELAREHIKD 64 (145)
Q Consensus 41 ~ssV~cYMke~gvSeEeA~~~i~~ 64 (145)
...|+.|-+..|+|.++|.+.+++
T Consensus 5 v~~Ie~~A~~~~~s~~ea~~~~~~ 28 (62)
T PF12668_consen 5 VFCIEEFAKKLNISGEEAYNYFKR 28 (62)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHH
Confidence 356788888889999999887764
No 85
>PF06183 DinI: DinI-like family; InterPro: IPR010391 This family of short proteins includes DNA-damage-inducible protein I (DinI) and related proteins. The SOS response, a set of cellular phenomena exhibited by eubacteria, is initiated by various causes that include DNA damage-induced replication arrest, and is positively regulated by the co- protease activity of RecA. Escherichia coli DinI, a LexA-regulated SOS gene product, shuts off the initiation of the SOS response when overexpressed in vivo. Biochemical and genetic studies indicated that DinI physically interacts with RecA to inhibit its co-protease activity []. The structure of DinI is known [].; PDB: 1GHH_A.
Probab=25.12 E-value=87 Score=20.30 Aligned_cols=20 Identities=25% Similarity=0.785 Sum_probs=15.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHH
Q 045966 52 GVSEELAREHIKDLMRQMWKK 72 (145)
Q Consensus 52 gvSeEeA~~~i~~lie~~wK~ 72 (145)
|...++ ++.|.+++++.|.+
T Consensus 40 g~~~~~-k~~i~~iLqe~we~ 59 (65)
T PF06183_consen 40 GGKKDD-KERIEEILQEMWED 59 (65)
T ss_dssp S--HHH-HHHHHHHHHHHHHT
T ss_pred CcCchH-HHHHHHHHHHHHhc
Confidence 455555 99999999999965
No 86
>PF13904 DUF4207: Domain of unknown function (DUF4207)
Probab=25.08 E-value=79 Score=25.84 Aligned_cols=15 Identities=20% Similarity=0.344 Sum_probs=11.1
Q ss_pred hHHHHHHhhcccccc
Q 045966 115 ETMDVAFTLLFRPIP 129 (145)
Q Consensus 115 ~~k~~I~sll~~Pi~ 129 (145)
.|.++|.-+|++|||
T Consensus 249 ~Lrgt~s~~y~NP~p 263 (264)
T PF13904_consen 249 TLRGTYSPIYINPIP 263 (264)
T ss_pred cccCcCCccccCCCC
Confidence 456666678899987
No 87
>PF08769 Spo0A_C: Sporulation initiation factor Spo0A C terminal; InterPro: IPR014879 The response regulator Spo0A is comprised of a phophoacceptor domain and a transcription activation domain. This domain corresponds to the transcription activation domain and forms an alpha helical structure comprising of 6 alpha helices. The structure contains a helix-turn-helix and binds DNA [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0005509 calcium ion binding, 0006355 regulation of transcription, DNA-dependent, 0042173 regulation of sporulation resulting in formation of a cellular spore, 0005737 cytoplasm; PDB: 1FC3_C 1LQ1_D.
Probab=24.98 E-value=56 Score=23.14 Aligned_cols=29 Identities=14% Similarity=0.290 Sum_probs=22.2
Q ss_pred hcCCCCHHHHHHHHHHHHHHHHHHHhhhh
Q 045966 49 HETGVSEELAREHIKDLMRQMWKKVNAYR 77 (145)
Q Consensus 49 ke~gvSeEeA~~~i~~lie~~wK~lN~e~ 77 (145)
+.||+|.....+.|+..|+.+|..=|.+.
T Consensus 48 ~k~~TT~s~VERaIR~aI~~~w~~g~~~~ 76 (106)
T PF08769_consen 48 KKYGTTPSRVERAIRHAIEVAWTRGNPEL 76 (106)
T ss_dssp HHTTS-HHHHHHHHHHHHHHHHHCS-CCC
T ss_pred HHHCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence 57899998888889999999998555544
No 88
>cd07977 TFIIE_beta_winged_helix TFIIE_beta_winged_helix domain, located at the central core region of TFIIE beta, with double-stranded DNA binding activity. Transcription Factor IIE (TFIIE) beta winged-helix (or forkhead) domain is located at the central core region of TFIIE beta. The winged-helix is a form of helix-turn-helix (HTH) domain which typically binds DNA with the 3rd helix. The winged-helix domain is distinguished by the presence of a C-terminal beta-strand hairpin unit (the wing) that packs against the cleft of the tri-helical core. Although most winged-helix domains are multi-member families, TFIIE beta winged-helix domain is typically found as a single orthologous group. TFIIE is one of the six eukaryotic general transcription factors (TFIIA, TFIIB, TFIID, TFIIE, TFIIF and TFIIH) that are required for transcription initiation of protein-coding genes. TFIIE is a heterotetramer consisting of two copies each of alpha and beta subunits. TFIIE beta contains several functional
Probab=24.74 E-value=87 Score=20.79 Aligned_cols=25 Identities=12% Similarity=0.222 Sum_probs=17.9
Q ss_pred CCchhHHHHHHhcCC---CCHHHHHHHHH
Q 045966 38 GDVWKSIQCYMHETG---VSEELAREHIK 63 (145)
Q Consensus 38 G~~~ssV~cYMke~g---vSeEeA~~~i~ 63 (145)
+.++.+|+ |||+.+ +|-+|-..++.
T Consensus 9 t~l~~aV~-ymK~r~~~Plt~~EIl~~ls 36 (75)
T cd07977 9 TQLAKIVD-YMKKRHQHPLTLDEILDYLS 36 (75)
T ss_pred hhHHHHHH-HHHhcCCCCccHHHHHHHHh
Confidence 45666665 999886 67777777766
No 89
>cd06199 SiR Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ gene) are of the cytochrome p450 (CyPor) family having FAD and FMN as prosthetic groups and utilizing NADPH. Cypor (including cyt -450 reductase, nitric oxide synthase, and methionine synthase reductase) are ferredoxin reductase (FNR)-like proteins with an additional N-terminal FMN domain and a connecting sub-domain inserted within the flavin binding portion of the FNR-like domain. The connecting domain orients the N-terminal FMN domain with the C-terminal FNR domain.
Probab=24.50 E-value=83 Score=26.54 Aligned_cols=25 Identities=28% Similarity=0.438 Sum_probs=18.9
Q ss_pred HHHHHhcCCCCHHHHHHHHHHHHHH
Q 045966 44 IQCYMHETGVSEELAREHIKDLMRQ 68 (145)
Q Consensus 44 V~cYMke~gvSeEeA~~~i~~lie~ 68 (145)
.+|++++.|+|+|+|.+.+++|-.+
T Consensus 328 ~~i~~~~~~~~~~~a~~~~~~l~~~ 352 (360)
T cd06199 328 LDIIATEGGMDEEEAEAYLKELKKE 352 (360)
T ss_pred HHHHHHhCCCCHHHHHHHHHHHHHc
Confidence 4567776689999999988777543
No 90
>TIGR01930 AcCoA-C-Actrans acetyl-CoA acetyltransferases. This model represents a large family of enzymes which catalyze the thiolysis of a linear fatty acid CoA (or acetoacetyl-CoA) using a second CoA molecule to produce acetyl-CoA and a CoA-ester product two carbons shorter (or, alternatively, the condensation of two molecules of acetyl-CoA to produce acetoacetyl-CoA and CoA). This enzyme is also known as "thiolase", "3-ketoacyl-CoA thiolase", "beta-ketothiolase" and "Fatty oxidation complex beta subunit". When catalyzing the degradative reaction on fatty acids the corresponding EC number is 2.3.1.16. The condensation reaction corresponds to 2.3.1.9. Note that the enzymes which catalyze the condensation are generally not involved in fatty acid biosynthesis, which is carried out by a decarboxylating condensation of acetyl and malonyl esters of acyl carrier proteins. Rather, this activity may produce acetoacetyl-CoA for pathways such as IPP biosynthesis in the absence of sufficient fatt
Probab=24.48 E-value=1e+02 Score=26.24 Aligned_cols=46 Identities=11% Similarity=-0.026 Sum_probs=27.3
Q ss_pred chhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcH
Q 045966 40 VWKSIQCYMHETGVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQ 86 (145)
Q Consensus 40 ~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~ 86 (145)
.+-.-+-||++||+|.|+-=+---+.=.++.+..|...++.. .+|.
T Consensus 153 ~a~~a~~y~~~yG~t~e~la~vav~~~~~A~~n~~~g~~~~~-i~P~ 198 (386)
T TIGR01930 153 MGLTAENLAKKYGISREEQDEYALRSHQRAAKAWEEGLFKDE-IVPV 198 (386)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHcCCCCCe-EEEE
Confidence 445567899999999876333333333455554455555544 4564
No 91
>PHA02593 62 clamp loader small subunit; Provisional
Probab=24.35 E-value=84 Score=24.94 Aligned_cols=33 Identities=21% Similarity=0.235 Sum_probs=24.9
Q ss_pred HHHHHHhcCCCCHHHHHHHHHHHHHHH-----HHHHhh
Q 045966 43 SIQCYMHETGVSEELAREHIKDLMRQM-----WKKVNA 75 (145)
Q Consensus 43 sV~cYMke~gvSeEeA~~~i~~lie~~-----wK~lN~ 75 (145)
.|..-|+-||++.+.|++.++-+-.+. ||.+..
T Consensus 127 ~i~ll~~~Y~vn~~kA~eyl~iltk~~~l~~~lk~~k~ 164 (191)
T PHA02593 127 IIKLLAKAYSVNTDDAREYLDILKKKGKLPDVLKRLKG 164 (191)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHhccccchHHHHHHHHH
Confidence 345555666999999999998876666 777654
No 92
>PF00959 Phage_lysozyme: Phage lysozyme; InterPro: IPR002196 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 24 GH24 from CAZY comprises enzymes with only one known activity; lysozyme (3.2.1.17 from EC). This entry includes Bacteriophage lambda lysozyme and Escherichia coli endolysin []. Lysozyme helps to release mature phage particles from the cell wall by breaking down the peptidoglycan. The enzyme hydrolyses the 1,4-beta linkages between N-acetyl-D-glucosamine and N-acetylmuramic acid in peptidoglycan heteropolymers of prokaryotic cell walls. E. coli endolysin also functions in bacterial cell lysis and acts as a transglycosylase. The Bacteriophage T4 lysozyme structure contains 2 domains, the interface between which forms the active-site cleft. The N terminus of the 2 domains undergoes a 'hinge-bending' motion about an axis passing through the molecular waist [, ]. This mobility is thought to be important in allowing access of substrates to the enzyme active site.; GO: 0003796 lysozyme activity, 0009253 peptidoglycan catabolic process, 0016998 cell wall macromolecule catabolic process; PDB: 1XJT_A 1XJU_A 1K28_A 1WTH_A 2Z6B_A 1AM7_C 3D3D_B 1D9U_B 2ANX_A 2ANV_B ....
Probab=24.22 E-value=1.8e+02 Score=19.76 Aligned_cols=42 Identities=24% Similarity=0.306 Sum_probs=31.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcH----HHHHHHHHHh
Q 045966 53 VSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQ----TTADFMLNLV 96 (145)
Q Consensus 53 vSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~----~~~~~~~N~a 96 (145)
.|+++|-.-++..+....+.+++..-. . ++|. .+..+++|+.
T Consensus 19 it~~qa~~ll~~d~~~~~~~v~~~~~~-~-~l~~~~~dal~s~~yN~G 64 (110)
T PF00959_consen 19 ITEAQADELLQKDLQKAEAAVRRYVPV-D-DLNQNQFDALVSFAYNVG 64 (110)
T ss_dssp TEHHHHHHHHHHHHHHHHHHHHHHTTS-H-HSSHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHHHHHHHhhhccc-C-CcCHHHHHHHHhcccccC
Confidence 799999999999999888888774432 2 3554 4667777775
No 93
>PF08711 Med26: TFIIS helical bundle-like domain; InterPro: IPR017923 Transcription factor IIS (TFIIS) is a transcription elongation factor that increases the overall transcription rate of RNA polymerase II by reactivating transcription elongation complexes that have arrested transcription. The three structural domains of TFIIS are conserved from yeast to human. The 80 or so N-terminal residues form a protein interaction domain containing a conserved motif, which has been called the LW motif because of the invariant leucine and tryptophan residues it contains. Although the N-terminal domain is not needed for transcriptional activity, a similar sequence has been identified in other transcription factors and proteins that are predominantly nuclear localized [, ]: MED26 (also known as CRSP70 and ARC70), a subunit of the Mediator complex, which is required for the activity of the enhancer-binding protein Sp1. Elongin A, a subunit of a transcription elongation factor previously known as SIII. It increases the rate of transcription by suppressing transient pausing of the elongation complex. PPP1R10, a nuclear regulatory subunit of protein phosphatase 1 that was previously known as p99, FB19 or PNUTS. PIBP, a small hypothetical protein that could be a phosphoinositide binding protein. IWS1, which is thought to function in both transcription initiation and elongation. The TFIIS N-terminal domain is a compact four-helix bundle. The hydrophobic core residues of helices 2, 3, and 4 are well conserved among TFIIS domains, although helix 1 is less conserved []. ; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent, 0005634 nucleus; PDB: 1EO0_A 3OAK_A 3NFQ_B 3O8Z_A 1WJT_A 2XPL_A 2XPO_A 2XPP_A 2XPN_A.
Probab=24.19 E-value=1.7e+02 Score=17.48 Aligned_cols=35 Identities=17% Similarity=0.311 Sum_probs=20.5
Q ss_pred ccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHH
Q 045966 36 KRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWKKV 73 (145)
Q Consensus 36 ~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK~l 73 (145)
++..++.+|..+-|. ++...+..+-.-+-+.||.+
T Consensus 17 ~~T~IGk~V~~l~k~---~~~~~i~~~A~~Li~~Wk~~ 51 (53)
T PF08711_consen 17 KSTGIGKAVNKLRKH---SENPEIRKLAKELIKKWKRI 51 (53)
T ss_dssp HHHSHHHHHHHHHHC---TS-HHHHHHHHHHHHHHHHH
T ss_pred HhCChhHHHHHHHcC---CCCHHHHHHHHHHHHHHhHh
Confidence 344566666655544 44455555666666889876
No 94
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=24.15 E-value=79 Score=24.09 Aligned_cols=45 Identities=20% Similarity=0.244 Sum_probs=28.7
Q ss_pred HHHhhcCcccchhhhccCCchhHHHHHHh--cCCCCHHHHHHHHHHHHH
Q 045966 21 IFRLQDDLGTSTDELKRGDVWKSIQCYMH--ETGVSEELAREHIKDLMR 67 (145)
Q Consensus 21 i~RL~NDi~t~~~E~~rG~~~ssV~cYMk--e~gvSeEeA~~~i~~lie 67 (145)
|-|-+.|++.|- -+.|+..+|+.||.+ ++.+|...-++-.-.+|+
T Consensus 35 ir~~~~~l~~~~--~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~ir 81 (177)
T PF10602_consen 35 IRMALEDLADHY--CKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIR 81 (177)
T ss_pred HHHHHHHHHHHH--HHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHH
Confidence 445666777655 466888899999986 446666655554444443
No 95
>TIGR03859 PQQ_PqqD coenzyme PQQ biosynthesis protein PqqD. This model identifies PqqD, a protein involved in the final steps of the biosynthesis of pyrroloquinoline quinone, coenzyme PQQ.
Probab=23.70 E-value=1.1e+02 Score=20.33 Aligned_cols=31 Identities=10% Similarity=0.041 Sum_probs=23.8
Q ss_pred CchhHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Q 045966 39 DVWKSIQCYMHETGVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 39 ~~~ssV~cYMke~gvSeEeA~~~i~~lie~~w 70 (145)
.+...++-.+.+|++ .+.|.+.+..+++..-
T Consensus 45 tv~eI~~~L~~~Y~~-~e~~~~dV~~fL~~L~ 75 (81)
T TIGR03859 45 SLAEIIQELAQRFPA-AEEIEDDVIAFLAVAR 75 (81)
T ss_pred cHHHHHHHHHHHcCC-hhhHHHHHHHHHHHHH
Confidence 455667778889999 8888888888877543
No 96
>PF12807 eIF3_p135: Translation initiation factor eIF3 subunit 135
Probab=23.54 E-value=3.2e+02 Score=20.42 Aligned_cols=20 Identities=5% Similarity=0.069 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHhhhhhcCC
Q 045966 62 IKDLMRQMWKKVNAYRANKD 81 (145)
Q Consensus 62 i~~lie~~wK~lN~e~l~~~ 81 (145)
+.+||..+.|-+-++.++..
T Consensus 46 ~~EmiaR~~K~i~r~~l~~~ 65 (169)
T PF12807_consen 46 LQEMIARAAKHILREYLRSV 65 (169)
T ss_pred HHHHHHHHHHHHHHHHHHcc
Confidence 37899999999999999743
No 97
>cd00896 PI3Kc_III Phosphoinositide 3-kinase (PI3K), class III, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class III PI3Ks, also called Vps34 (vacuolar protein sorting 34), contain an N-terminal lipid binding C2 domain, a PI3K homology domain of unknown function, and a C-termin
Probab=23.14 E-value=82 Score=26.99 Aligned_cols=25 Identities=24% Similarity=0.349 Sum_probs=21.3
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~w 70 (145)
-|+++. +.|+++|.+++..+|+++-
T Consensus 305 ~~l~~rf~l~~s~~ea~~~~~~lI~~s~ 332 (350)
T cd00896 305 LKVQEKFRLDLSDEEAIKHFQNLINDSV 332 (350)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 467766 6999999999999999874
No 98
>KOG4833 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.57 E-value=95 Score=27.73 Aligned_cols=29 Identities=21% Similarity=0.397 Sum_probs=23.8
Q ss_pred hHHHHHHhcC-CCCHHHHHHHHHHHHHHHH
Q 045966 42 KSIQCYMHET-GVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 42 ssV~cYMke~-gvSeEeA~~~i~~lie~~w 70 (145)
--++|||.|. |.|-..|.+-+++.++..-
T Consensus 18 iLlecsleedYggTddsakellQdeidmqa 47 (573)
T KOG4833|consen 18 ILLECSLEEDYGGTDDSAKELLQDEIDMQA 47 (573)
T ss_pred HHHHHHHHHhhCCchHHHHHHHHHHHHHHH
Confidence 5689999865 9999999999988887543
No 99
>PF07637 PSD5: Protein of unknown function (DUF1595); InterPro: IPR013043 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013042 from INTERPRO.
Probab=22.52 E-value=1.6e+02 Score=18.66 Aligned_cols=55 Identities=22% Similarity=0.417 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHHHhhhhhhccccCCCCCCCchhHHHHHHhhcccc
Q 045966 57 LAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLNLVRASHFMYLHGDGHGVQNQETMDVAFTLLFRP 127 (145)
Q Consensus 57 eA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N~aR~~~~~Y~~~Dg~t~~~~~~k~~I~sll~~P 127 (145)
.|++-|+.....+|+. +++..=++.++.+..- -+..|++|. ..++..+..+|.-|
T Consensus 2 ~a~~~l~~Fa~rAfRR----------p~~~~e~~~~~~~~~~---~~~~g~~~~---~a~~~~l~aiL~SP 56 (64)
T PF07637_consen 2 CAREILRRFARRAFRR----------PLTDEEVDRYLALYDS---ARAQGEDFE---EALKEALQAILCSP 56 (64)
T ss_pred hHHHHHHHHHHHHhCC----------CCCHHHHHHHHHHHHH---HHHcCCCHH---HHHHHHHHHHHcCc
Confidence 4666777777777743 5666556666665542 244455544 46999999999887
No 100
>cd05167 PI4Kc_III_alpha Phosphoinositide 4-kinase (PI4K), Type III, alpha isoform, catalytic domain; The PI4K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI4Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 4-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) to generate PtdIns(4)P, the major precursor in the synthesis of other phosphoinositides including PtdIns(4,5)P2, PtdIns(3,4)P2, and PtdIns(3,4,5)P3. Two isoforms of type III PI4K, alpha and beta, exist in most eukaryotes. PI4KIIIalpha is a 220 kDa protein found in the plasma membrane and the endoplasmic reticulum (ER). The role of PI4KIIIalpha in the ER remains unclear. In the plasma membrane, it provides PtdIns(4)P, which is then converted by PI5Ks to PtdIns(4,5)P2, an important signaling mole
Probab=22.50 E-value=87 Score=26.44 Aligned_cols=25 Identities=20% Similarity=0.243 Sum_probs=20.7
Q ss_pred HHHhcC---CCCHHHHHHHHHHHHHHHH
Q 045966 46 CYMHET---GVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 46 cYMke~---gvSeEeA~~~i~~lie~~w 70 (145)
-|+++. +.|+++|.+++..+|+++-
T Consensus 265 ~~l~~rf~l~~se~~a~~~~~~lI~~s~ 292 (311)
T cd05167 265 KNLRQRFAPEKSEREAAEFMLSLIAESY 292 (311)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 356665 7899999999999999874
No 101
>cd00127 DSPc Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or Cdc25-like.
Probab=22.49 E-value=1.1e+02 Score=21.20 Aligned_cols=27 Identities=22% Similarity=0.155 Sum_probs=18.4
Q ss_pred CchhHHHH-HHhcCCCCHHHHHHHHHHH
Q 045966 39 DVWKSIQC-YMHETGVSEELAREHIKDL 65 (145)
Q Consensus 39 ~~~ssV~c-YMke~gvSeEeA~~~i~~l 65 (145)
..+..+-+ +|+..|.+-++|.+++++.
T Consensus 94 Rs~~~~~~~l~~~~~~~~~~a~~~vr~~ 121 (139)
T cd00127 94 RSATLVIAYLMKTLGLSLREAYEFVKSR 121 (139)
T ss_pred hhHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 33344344 4667799999999988763
No 102
>PF12469 DUF3692: CRISPR-associated protein ; InterPro: IPR024615 This uncharacterised N-terminal domain family is typically between 101 and 138 amino acids in length. ; PDB: 3UNG_C 4DOZ_A 3UR3_C.
Probab=22.37 E-value=1.3e+02 Score=21.32 Aligned_cols=23 Identities=26% Similarity=0.502 Sum_probs=18.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHhhh
Q 045966 54 SEELAREHIKDLMRQMWKKVNAY 76 (145)
Q Consensus 54 SeEeA~~~i~~lie~~wK~lN~e 76 (145)
..++..+++++.+.+.|+++-+.
T Consensus 94 ~~~~~~~~~k~~~~~~w~~i~~~ 116 (117)
T PF12469_consen 94 EAEELAEEAKEAIREAWKEIAEK 116 (117)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 46888999999999999998664
No 103
>PF11251 DUF3050: Protein of unknown function (DUF3050); InterPro: IPR024423 This family of proteins has no known function.
Probab=22.14 E-value=1.9e+02 Score=23.67 Aligned_cols=69 Identities=17% Similarity=0.273 Sum_probs=39.3
Q ss_pred HHHHHhhcCcccchh--hhccCCchhHHHHH---HhcCCCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHH
Q 045966 19 SKIFRLQDDLGTSTD--ELKRGDVWKSIQCY---MHETGVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADF 91 (145)
Q Consensus 19 ~~i~RL~NDi~t~~~--E~~rG~~~ssV~cY---Mke~gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~ 91 (145)
....||+|+|+--+. +...|...|=-+.| |+|-|++.+.-..-+. .+.+. +.+ .+.++.. .+|.+.+++
T Consensus 55 p~~rrlINEIVl~EESD~~~~g~~~SHFElYl~AM~e~GAdt~~I~~fl~-~~~~g-~~v-~~Al~~~-~~p~~~~~F 128 (232)
T PF11251_consen 55 PETRRLINEIVLGEESDEDPDGGYISHFELYLDAMEEVGADTSPIDRFLS-LLREG-TSV-FEALQQA-DVPEPAKRF 128 (232)
T ss_pred chHHHHhhhhhhhhccccCCCCCcccHHHHHHHHHHHcCCChHHHHHHHH-HHHcC-CCH-HHHHHhc-CCCHHHHHH
Confidence 356899999986442 34456555778888 5688887654433332 22221 112 2234334 588776554
No 104
>cd06203 methionine_synthase_red Human methionine synthase reductase (MSR) restores methionine sythase which is responsible for the regeneration of methionine from homocysteine, as well as the coversion of methyltetrahydrofolate to tetrahydrofolate. In MSR, electrons are transferred from NADPH to FAD to FMN to cob(II)alamin. MSR resembles proteins of the cytochrome p450 family including nitric oxide synthase, the alpha subunit of sulfite reductase, but contains an extended hinge region. NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD and FMN. CYPORs resemble ferredoxin reductase (FNR) but have a connecting subdomain inserted within the flavin binding region, which helps orient the FMN binding doamin with the FNR module. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme
Probab=22.06 E-value=1e+02 Score=26.48 Aligned_cols=25 Identities=16% Similarity=0.296 Sum_probs=18.5
Q ss_pred HHHHHhcCCCCHHHHHHHHHHHHHH
Q 045966 44 IQCYMHETGVSEELAREHIKDLMRQ 68 (145)
Q Consensus 44 V~cYMke~gvSeEeA~~~i~~lie~ 68 (145)
+++++++.|+|+|+|.+.+++|..+
T Consensus 366 ~~i~~~~~~~~~~~a~~~~~~l~~~ 390 (398)
T cd06203 366 VDILSKELGLDKLEAKKLLARLRKE 390 (398)
T ss_pred HHHHHHcCCCCHHHHHHHHHHHHHc
Confidence 3466666699999999888776543
No 105
>cd07925 LigA_like_1 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB). The proteins of unknown function in this subfamily are similar to the A subunit of the Protocatechuate (PCA) 4,5-dioxygenase (LigAB). LigAB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Dioxygenases play key roles in the degradation of aromatic compounds. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds.
Probab=21.88 E-value=1.4e+02 Score=21.44 Aligned_cols=27 Identities=11% Similarity=0.202 Sum_probs=20.1
Q ss_pred HHHHhcCCCCHHHHHHHHHHHHHHHHHHHhh
Q 045966 45 QCYMHETGVSEELAREHIKDLMRQMWKKVNA 75 (145)
Q Consensus 45 ~cYMke~gvSeEeA~~~i~~lie~~wK~lN~ 75 (145)
++|+.++|.|+|+.. -+.+.-|..|.+
T Consensus 37 ~Ay~~~~~Lteeqr~----av~~RD~~~li~ 63 (106)
T cd07925 37 EAYCEKFGLTPEQKQ----AVRNRDVLRMLE 63 (106)
T ss_pred HHHHHHcCCCHHHHH----HHHHhhHHHHHH
Confidence 789999999998865 245566766655
No 106
>PF03681 UPF0150: Uncharacterised protein family (UPF0150); InterPro: IPR005357 This family of small proteins is uncharacterised. In Q9A3L8 from SWISSPROT this domain is found next to a DNA binding helix-turn-helix domain IPR002145 from INTERPRO, which suggests that this is some kind of ligand binding domain.; PDB: 2DSY_C 2YZT_A 3KWR_A.
Probab=21.65 E-value=88 Score=18.31 Aligned_cols=18 Identities=28% Similarity=0.255 Sum_probs=14.5
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 045966 51 TGVSEELAREHIKDLMRQ 68 (145)
Q Consensus 51 ~gvSeEeA~~~i~~lie~ 68 (145)
.|-|.|||++.+++.++.
T Consensus 27 ~G~t~eea~~~~~eal~~ 44 (48)
T PF03681_consen 27 QGDTLEEALENAKEALEL 44 (48)
T ss_dssp EESSHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHHH
Confidence 477999999998887753
No 107
>cd07940 DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain. 2-isopropylmalate synthase (IPMS) catalyzes an aldol-type condensation of acetyl-CoA and 2-oxoisovalerate yielding 2-isopropylmalate and CoA, the first committed step in leucine biosynthesis. This family includes the Arabidopsis thaliana IPMS1 and IPMS2 proteins, the Glycine max GmN56 protein, and the Brassica insularis BatIMS protein. This family also includes a group of archeal IPMS-like proteins represented by the Methanocaldococcus jannaschii AksA protein. AksA catalyzes the condensation of alpha-ketoglutarate and acetyl-CoA to form trans-homoaconitate, one of 13 steps in the conversion of alpha-ketoglutarate and acetylCoA to alpha-ketosuberate, a precursor to coenzyme B and biotin. AksA also catalyzes the condensation of alpha-ketoadipate or alpha-ketopimelate with acetylCoA to form, respectively, the (R)-homocitrate homologs (R)-2-hydroxy-1,2,5-pentanetricarboxylic acid and (R)-2-h
Probab=21.53 E-value=1.6e+02 Score=23.58 Aligned_cols=71 Identities=14% Similarity=0.072 Sum_probs=43.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCcHHHHHHHHHHhhhh------hhccccCCCCCCCchhHHHHHHhhc
Q 045966 52 GVSEELAREHIKDLMRQMWKKVNAYRANKDSPLSQTTADFMLNLVRAS------HFMYLHGDGHGVQNQETMDVAFTLL 124 (145)
Q Consensus 52 gvSeEeA~~~i~~lie~~wK~lN~e~l~~~~~vp~~~~~~~~N~aR~~------~~~Y~~~Dg~t~~~~~~k~~I~sll 124 (145)
|.|.+++.+.+...++.+-+.=.+-++... ..++.-.+.+.++++.+ .+.+.+.-|...| ..+.+.++.+-
T Consensus 106 ~~~~~~~~~~~~~~i~~a~~~G~~v~~~~~-~~~~~~~~~~~~~~~~~~~~G~~~i~l~DT~G~~~P-~~v~~lv~~l~ 182 (268)
T cd07940 106 KKTREEVLERAVEAVEYAKSHGLDVEFSAE-DATRTDLDFLIEVVEAAIEAGATTINIPDTVGYLTP-EEFGELIKKLK 182 (268)
T ss_pred CCCHHHHHHHHHHHHHHHHHcCCeEEEeee-cCCCCCHHHHHHHHHHHHHcCCCEEEECCCCCCCCH-HHHHHHHHHHH
Confidence 788899999999999988765334444422 22222223333333322 2344677888888 47888777773
No 108
>KOG1151 consensus Tousled-like protein kinase [Signal transduction mechanisms]
Probab=21.51 E-value=1e+02 Score=28.39 Aligned_cols=40 Identities=25% Similarity=0.337 Sum_probs=30.3
Q ss_pred hhhccCCchhHHHHHHhcC-CCCHHHHHHHHHHHHHHHHHHHhhh
Q 045966 33 DELKRGDVWKSIQCYMHET-GVSEELAREHIKDLMRQMWKKVNAY 76 (145)
Q Consensus 33 ~E~~rG~~~ssV~cYMke~-gvSeEeA~~~i~~lie~~wK~lN~e 76 (145)
.|--.| +-+.-|+|+| -+||.||+.-|..+| ++-+=||+-
T Consensus 547 LEYceG---NDLDFYLKQhklmSEKEARSIiMQiV-nAL~YLNEi 587 (775)
T KOG1151|consen 547 LEYCEG---NDLDFYLKQHKLMSEKEARSIIMQIV-NALKYLNEI 587 (775)
T ss_pred eeecCC---CchhHHHHhhhhhhHHHHHHHHHHHH-HHHHHHhcc
Confidence 344455 4478999999 599999998886554 678888874
No 109
>cd00893 PI4Kc_III Phosphoinositide 4-kinase (PI4K), Type III, catalytic domain; The PI4K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases. PI4Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 4-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) to generate PtdIns(4)P, the major precursor in the synthesis of other phosphoinositides including PtdIns(4,5)P2, PtdIns(3,4)P2, and PtdIns(3,4,5)P3. There are two types of PI4Ks, types II and III. Type II PI4Ks lack the characteristic catalytic kinase domain present in PI3Ks and type III PI4Ks, and are excluded from this family. Two isoforms of type III PI4K, alpha and beta, exist in most eukaryotes.
Probab=21.49 E-value=98 Score=25.83 Aligned_cols=28 Identities=18% Similarity=0.234 Sum_probs=22.4
Q ss_pred hHHHHHHhcC---CCCHHHHHHHHHHHHHHHH
Q 045966 42 KSIQCYMHET---GVSEELAREHIKDLMRQMW 70 (145)
Q Consensus 42 ssV~cYMke~---gvSeEeA~~~i~~lie~~w 70 (145)
+.| -|+++. +.|+++|.+++..+|+++-
T Consensus 240 ~~i-~~l~~r~~l~~s~~~a~~~~~~lI~~s~ 270 (289)
T cd00893 240 STI-KKLKERLCLNMSEKEAINTVMKKIDSSY 270 (289)
T ss_pred HHH-HHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 344 367766 6899999999999999875
No 110
>PRK05114 hypothetical protein; Provisional
Probab=21.31 E-value=1.6e+02 Score=19.01 Aligned_cols=45 Identities=24% Similarity=0.234 Sum_probs=30.4
Q ss_pred hcCcccchhhhccCCchhHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Q 045966 25 QDDLGTSTDELKRGDVWKSIQCYMHETGVSEELAREHIKDLMRQMWK 71 (145)
Q Consensus 25 ~NDi~t~~~E~~rG~~~ssV~cYMke~gvSeEeA~~~i~~lie~~wK 71 (145)
+||+-+...|+..--| .-|+-.| ..|+|.-||+.-+-..|.+..+
T Consensus 2 ~~~lp~LtHeeQQ~AV-ErIq~LM-aqGmSsgEAI~~VA~eiRe~~~ 46 (59)
T PRK05114 2 FAGLPSLTHEQQQKAV-ERIQELM-AQGMSSGEAIALVAEELRANHQ 46 (59)
T ss_pred CCCcccCCHHHHHHHH-HHHHHHH-HccccHHHHHHHHHHHHHHHHh
Confidence 4565555555444333 5677788 5689999999888887777654
No 111
>cd08054 gp6 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins. The bacteriophage HK97 gp6 protein is critical in the assembly of the connector, a specialized structure that serves as an interface for head and tail attachment, as well as a point at which DNA exits the head during infection by the bacteriophage. It forms a dodecameric ring structure that comprises the middle ring of the connector, located between the portal protein (attached to the head) and the gp7 ring (attached to the tail). It is a component of the mature phage and the absence of HK97 gp6 results in defective head-tail joining and the absence of mature phage particles. Although the crystal structure of HK97 gp6 shows an unexpected 13-mer ring, the biological form present in the mature phage is believed to be a dodecamer.
Probab=21.25 E-value=1.8e+02 Score=18.71 Aligned_cols=58 Identities=12% Similarity=0.151 Sum_probs=33.2
Q ss_pred HhcC-CCCHHHHHHHHHHHHHHHHHHHhhhhhc--------CCCCCcHHHHHHHHHHhhhhhhccccCCCC
Q 045966 48 MHET-GVSEELAREHIKDLMRQMWKKVNAYRAN--------KDSPLSQTTADFMLNLVRASHFMYLHGDGH 109 (145)
Q Consensus 48 Mke~-gvSeEeA~~~i~~lie~~wK~lN~e~l~--------~~~~vp~~~~~~~~N~aR~~~~~Y~~~Dg~ 109 (145)
+|+| ++..++-=..|+.+|..+...+-..+=. .. .+|..++.+++-++- .+|.+..+.
T Consensus 5 ~K~~Lrid~d~dD~~i~~li~aA~~~i~~~~g~~~~~~~~~~~-~~~~~~~~Ail~l~~---~~Y~nR~~~ 71 (91)
T cd08054 5 AKAHLRIDHDDDDALIELLIDAAEEYIENYTGRDLDEQTADAE-EVPALIKLAVLLLVA---HLYENREAV 71 (91)
T ss_pred HHhHcCCCCCCCHHHHHHHHHHHHHHHHHHhCCchhhcCCccc-cCCHHHHHHHHHHHH---HHHhCccch
Confidence 4555 5543332445555666665544332211 22 689999999888764 568776664
No 112
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=20.58 E-value=1.7e+02 Score=21.08 Aligned_cols=18 Identities=33% Similarity=0.230 Sum_probs=8.6
Q ss_pred HHHHHHhhhhhcCCCCCcH
Q 045966 68 QMWKKVNAYRANKDSPLSQ 86 (145)
Q Consensus 68 ~~wK~lN~e~l~~~~~vp~ 86 (145)
.+.+.+...++... .++.
T Consensus 87 gs~~~ll~~l~~~~-~ls~ 104 (130)
T TIGR02698 87 RKVGAVIADLIEES-PLSQ 104 (130)
T ss_pred CCHHHHHHHHHhcC-CCCH
Confidence 35555555555433 3443
No 113
>cd07942 DRE_TIM_LeuA Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain. Alpha-isopropylmalate synthase (LeuA), a key enzyme in leucine biosynthesis, catalyzes the first committed step in the pathway, converting acetyl-CoA and alpha-ketoisovalerate to alpha-isopropyl malate and CoA. Although the reaction catalyzed by LeuA is similar to that of the Arabidopsis thaliana IPMS1 protein, the two fall into phylogenetically distinct families within the same superfamily. LeuA has and N-terminal TIM barrel catalytic domain, a helical linker domain, and a C-terminal regulatory domain. LeuA forms a homodimer in which the linker domain of one monomer sits over the catalytic domain of the other, inserting residues into the active site that may be important for catalysis. Homologs of LeuA are found in bacteria as well as fungi. This family includes alpha-isopropylmalate synthases I (LEU4) and II (LEU9) from Saccharomyces cerevisiae. This family belong
Probab=20.45 E-value=4e+02 Score=21.99 Aligned_cols=78 Identities=12% Similarity=-0.145 Sum_probs=48.9
Q ss_pred HHHhcC-CCCHHHHHHHHHHHHHHHHHHHhh-------hhhcC--CCCCcHHHHHHHHHHhhhh---------hhccccC
Q 045966 46 CYMHET-GVSEELAREHIKDLMRQMWKKVNA-------YRANK--DSPLSQTTADFMLNLVRAS---------HFMYLHG 106 (145)
Q Consensus 46 cYMke~-gvSeEeA~~~i~~lie~~wK~lN~-------e~l~~--~~~vp~~~~~~~~N~aR~~---------~~~Y~~~ 106 (145)
.+++.+ |.|.+|+++.+.++|+.+...=.+ -.+.. .+..|..++..+++.+.-+ .+-+-+.
T Consensus 105 ~h~~~~~~~s~~e~~~~~~~~v~~a~~~g~~~~~~~~~~~~~~EDasr~~~~~l~~~~~~~~~~~~~g~~~~~~i~laDT 184 (284)
T cd07942 105 LQRRVVFGKSKEEIIEIAVDGAKLVKELAAKYPETDWRFEYSPESFSDTELDFALEVCEAVIDVWQPTPENKIILNLPAT 184 (284)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHHHHHhcccccCceEEEEECCccCCCCCHHHHHHHHHHHHHhhcCCCCcceEEEcccc
Confidence 445545 899999999999999988754111 01111 1135555554444444222 3567777
Q ss_pred CCCCCCchhHHHHHHhhc
Q 045966 107 DGHGVQNQETMDVAFTLL 124 (145)
Q Consensus 107 Dg~t~~~~~~k~~I~sll 124 (145)
=|...| .++.+.|..+.
T Consensus 185 vG~a~P-~~v~~~~~~l~ 201 (284)
T cd07942 185 VEVATP-NVYADQIEWFC 201 (284)
T ss_pred ccccCH-HHHHHHHHHHH
Confidence 888888 57888888875
No 114
>cd07923 Gallate_dioxygenase_C The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of the PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. This model represents the C-terminal domain, which is similar to the A subunit of PCA 4,5-dioxygenase (or LigAB). The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. Since enzymes in this subfamily have fused A and B subunits, the dimer interface may resemble the tetramer interface of classical LigAB enzymes. This enzyme belongs to the class III extradiol dioxygenase family, composed of enzymes whi
Probab=20.43 E-value=68 Score=22.59 Aligned_cols=27 Identities=19% Similarity=0.335 Sum_probs=18.4
Q ss_pred HHHHhcCCCCHHHHHHHHHHHHHHHHHHHhh
Q 045966 45 QCYMHETGVSEELAREHIKDLMRQMWKKVNA 75 (145)
Q Consensus 45 ~cYMke~gvSeEeA~~~i~~lie~~wK~lN~ 75 (145)
+-||.++|.|+||.- -+.+--|..|.+
T Consensus 29 ea~~~e~gLt~Ee~~----av~~rD~~~li~ 55 (94)
T cd07923 29 EALFDEAGLTEEERT----LIRNRDWIGMIR 55 (94)
T ss_pred HHHHHHcCCCHHHHH----HHHcchHHHHHH
Confidence 679999999997754 344455655443
No 115
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....
Probab=20.30 E-value=1.2e+02 Score=18.49 Aligned_cols=18 Identities=28% Similarity=0.680 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 045966 59 REHIKDLMRQMWKKVNAY 76 (145)
Q Consensus 59 ~~~i~~lie~~wK~lN~e 76 (145)
...|..++...|+.|-.+
T Consensus 28 ~~~i~~~~~~~W~~l~~~ 45 (69)
T PF00505_consen 28 NKEISKILAQMWKNLSEE 45 (69)
T ss_dssp HHHHHHHHHHHHHCSHHH
T ss_pred cccchhhHHHHHhcCCHH
Confidence 556777888889876543
No 116
>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus. Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.
Probab=20.28 E-value=4.1e+02 Score=20.41 Aligned_cols=43 Identities=28% Similarity=0.460 Sum_probs=28.0
Q ss_pred HHHHHhhcCcccchhhhccCCchhHHHHHHhcCCCCH--HHHHHH
Q 045966 19 SKIFRLQDDLGTSTDELKRGDVWKSIQCYMHETGVSE--ELAREH 61 (145)
Q Consensus 19 ~~i~RL~NDi~t~~~E~~rG~~~ssV~cYMke~gvSe--EeA~~~ 61 (145)
..+.--+++|+++-+=..=|.+-+.|+||++-+-.|| .-|...
T Consensus 51 ~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n~~se~vD~ALd~ 95 (161)
T PF09205_consen 51 DYVVETLDSIGKIFDISKCGNLKRVIECYAKRNKLSEYVDLALDI 95 (161)
T ss_dssp HHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT---HHHHHHHHH
T ss_pred hHHHHHHHHHhhhcCchhhcchHHHHHHHHHhcchHHHHHHHHHH
Confidence 3456678889888777777999999999999887776 445543
Done!