Query 048580
Match_columns 108
No_of_seqs 110 out of 639
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 10:51:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048580.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048580hhsearch_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 1.2E-43 2.7E-48 233.5 10.3 93 14-108 1-95 (96)
2 cd00684 Terpene_cyclase_plant_ 100.0 2.2E-32 4.8E-37 223.5 11.0 101 4-106 440-542 (542)
3 PLN02279 ent-kaur-16-ene synth 100.0 5.3E-32 1.1E-36 228.5 9.6 101 4-108 673-777 (784)
4 cd00868 Terpene_cyclase_C1 Ter 99.4 4.2E-13 9E-18 99.9 8.4 78 4-82 206-284 (284)
5 PLN02592 ent-copalyl diphospha 99.4 3.8E-13 8.3E-18 114.6 7.7 84 4-108 714-800 (800)
6 PF03936 Terpene_synth_C: Terp 98.9 5E-10 1.1E-14 82.8 1.4 50 4-53 221-270 (270)
7 cd00687 Terpene_cyclase_nonpla 98.8 6E-09 1.3E-13 79.0 4.0 53 4-56 212-265 (303)
8 cd00385 Isoprenoid_Biosyn_C1 I 98.3 3E-07 6.6E-12 64.9 2.7 72 4-76 159-243 (243)
9 KOG1719 Dual specificity phosp 94.7 0.026 5.6E-07 40.6 2.4 40 15-54 119-165 (183)
10 COG3707 AmiR Response regulato 89.2 0.3 6.6E-06 35.9 2.2 29 21-49 149-177 (194)
11 cd00686 Terpene_cyclase_cis_tr 88.7 1.3 2.7E-05 35.5 5.5 75 4-82 224-299 (357)
12 PF12368 DUF3650: Protein of u 88.5 0.35 7.6E-06 24.9 1.5 19 24-42 8-26 (28)
13 KOG1720 Protein tyrosine phosp 83.6 1 2.2E-05 33.8 2.5 27 17-43 159-186 (225)
14 smart00463 SMR Small MutS-rela 80.6 2.8 6E-05 25.7 3.3 24 30-53 7-30 (80)
15 PF01713 Smr: Smr domain; Int 80.5 2.5 5.4E-05 26.1 3.1 27 30-56 4-30 (83)
16 PF03861 ANTAR: ANTAR domain; 80.4 1.2 2.7E-05 25.8 1.6 32 18-49 14-45 (56)
17 PTZ00393 protein tyrosine phos 74.4 2.7 5.9E-05 31.9 2.3 29 16-44 181-209 (241)
18 PF10397 ADSL_C: Adenylosuccin 72.5 4.6 9.9E-05 25.1 2.7 31 21-51 7-37 (81)
19 COG1308 EGD2 Transcription fac 72.2 4.1 8.8E-05 27.9 2.6 21 23-43 88-108 (122)
20 PF13798 PCYCGC: Protein of un 72.2 4.3 9.4E-05 29.0 2.8 25 38-66 134-158 (158)
21 PF07741 BRF1: Brf1-like TBP-b 70.0 5.9 0.00013 25.7 2.9 21 32-57 9-29 (97)
22 PF14805 THDPS_N_2: Tetrahydro 66.6 24 0.00052 21.7 5.0 34 40-76 2-35 (70)
23 PF06330 TRI5: Trichodiene syn 65.1 7.4 0.00016 31.5 3.1 82 4-90 224-306 (376)
24 PHA02896 A-type inclusion like 64.5 14 0.00029 31.4 4.6 45 30-78 4-48 (616)
25 smart00400 ZnF_CHCC zinc finge 62.9 9.3 0.0002 21.9 2.5 24 18-41 31-54 (55)
26 PRK06369 nac nascent polypepti 59.6 9.4 0.0002 25.9 2.4 27 17-43 74-100 (115)
27 PF05402 PqqD: Coenzyme PQQ sy 59.2 12 0.00027 21.8 2.7 47 4-50 15-63 (68)
28 PF00782 DSPc: Dual specificit 58.9 5.7 0.00012 26.0 1.3 26 19-44 87-113 (133)
29 TIGR00264 alpha-NAC-related pr 58.8 9.9 0.00022 25.8 2.4 26 18-43 77-102 (116)
30 PTZ00242 protein tyrosine phos 57.5 8.3 0.00018 27.2 2.0 28 17-44 110-138 (166)
31 cd00737 endolysin_autolysin En 57.3 46 0.001 22.2 5.6 38 31-71 42-79 (133)
32 cd05175 PI3Kc_IA_alpha Phospho 57.2 9.9 0.00021 30.6 2.6 32 23-55 321-360 (366)
33 cd07921 PCA_45_Doxase_A_like S 55.7 12 0.00027 25.0 2.4 28 24-55 37-64 (106)
34 KOG1151 Tousled-like protein k 54.2 16 0.00034 31.1 3.3 33 21-54 553-586 (775)
35 PHA01748 hypothetical protein 53.5 32 0.00069 20.3 3.8 31 21-51 15-46 (60)
36 TIGR01542 A118_put_portal phag 52.9 19 0.00041 29.9 3.6 28 21-48 443-470 (476)
37 PF09682 Holin_LLH: Phage holi 52.1 9.5 0.00021 25.1 1.5 32 21-56 75-108 (108)
38 PF03000 NPH3: NPH3 family; I 51.3 12 0.00026 28.6 2.1 18 21-38 224-242 (258)
39 KOG0506 Glutaminase (contains 51.0 8.1 0.00018 32.5 1.2 27 6-32 326-352 (622)
40 PF09011 HMG_box_2: HMG-box do 49.2 13 0.00028 22.3 1.6 37 19-55 7-49 (73)
41 PF12550 GCR1_C: Transcription 48.8 11 0.00025 23.4 1.4 29 15-43 51-79 (81)
42 COG1093 SUI2 Translation initi 48.0 25 0.00055 27.2 3.4 57 19-76 103-169 (269)
43 cd05173 PI3Kc_IA_beta Phosphoi 47.0 25 0.00053 28.3 3.3 26 25-50 317-345 (362)
44 COG2840 Uncharacterized protei 44.0 33 0.0007 25.1 3.3 35 16-52 90-124 (184)
45 PF11084 DUF2621: Protein of u 43.9 1.1E+02 0.0024 21.4 5.9 70 28-100 38-113 (141)
46 cd07321 Extradiol_Dioxygenase_ 43.6 23 0.0005 22.0 2.2 28 24-55 27-54 (77)
47 PRK01285 pyruvoyl-dependent ar 43.5 24 0.00053 25.1 2.5 25 26-50 96-122 (155)
48 PF08285 DPM3: Dolichol-phosph 42.9 34 0.00074 22.1 3.0 21 34-54 66-86 (91)
49 cd00894 PI3Kc_IB_gamma Phospho 42.8 26 0.00057 28.1 2.9 25 25-49 321-348 (365)
50 PF11989 Dsl1_C: Retrograde tr 42.2 21 0.00046 27.8 2.2 30 74-105 241-271 (291)
51 cd07942 DRE_TIM_LeuA Mycobacte 42.0 1E+02 0.0023 23.6 6.0 78 23-103 103-201 (284)
52 PF02372 IL15: Interleukin 15; 41.4 9.7 0.00021 26.2 0.2 38 20-57 56-96 (135)
53 cd00895 PI3Kc_C2_beta Phosphoi 41.0 28 0.00061 27.9 2.8 24 25-48 311-337 (354)
54 PF15581 Imm35: Immunity prote 41.0 25 0.00054 22.9 2.0 31 25-55 19-49 (93)
55 PF08769 Spo0A_C: Sporulation 40.7 20 0.00042 23.7 1.6 28 28-55 48-75 (106)
56 PRK13735 conjugal transfer mat 40.3 27 0.00058 31.6 2.8 31 15-45 586-616 (942)
57 cd05165 PI3Kc_I Phosphoinositi 40.3 31 0.00066 27.8 2.9 26 25-50 322-350 (366)
58 cd05176 PI3Kc_C2_alpha Phospho 40.3 30 0.00064 27.7 2.8 24 25-48 310-336 (353)
59 smart00195 DSPc Dual specifici 40.2 25 0.00053 23.1 2.1 24 19-42 92-116 (138)
60 TIGR02660 nifV_homocitr homoci 40.1 57 0.0012 25.8 4.4 77 24-102 97-180 (365)
61 PF13348 Y_phosphatase3C: Tyro 40.1 35 0.00076 20.0 2.6 20 23-43 45-65 (68)
62 COG2937 PlsB Glycerol-3-phosph 40.0 48 0.001 29.3 4.2 37 21-57 227-263 (810)
63 PF10249 NDUFB10: NADH-ubiquin 40.0 15 0.00032 25.4 0.9 14 17-30 107-120 (128)
64 cd05174 PI3Kc_IA_delta Phospho 39.8 31 0.00068 27.7 2.9 25 25-49 317-344 (361)
65 KOG0871 Class 2 transcription 39.6 62 0.0013 23.0 4.0 27 26-52 108-134 (156)
66 KOG0904 Phosphatidylinositol 3 38.3 32 0.00069 31.2 2.9 25 26-50 1034-1061(1076)
67 PRK04946 hypothetical protein; 38.2 46 0.001 24.1 3.3 23 29-51 100-122 (181)
68 PRK11858 aksA trans-homoaconit 38.2 58 0.0013 25.9 4.2 77 24-102 100-183 (378)
69 cd05177 PI3Kc_C2_gamma Phospho 38.0 34 0.00073 27.4 2.8 25 25-49 311-338 (354)
70 PF12668 DUF3791: Protein of u 37.9 27 0.0006 20.5 1.8 23 21-43 6-28 (62)
71 cd07018 S49_SppA_67K_type Sign 37.7 90 0.002 22.7 4.9 41 31-73 152-192 (222)
72 TIGR00554 panK_bact pantothena 37.7 36 0.00078 26.3 2.9 36 24-64 230-266 (290)
73 PHA02676 A-type inclusion prot 37.3 52 0.0011 27.7 3.8 42 33-78 3-44 (520)
74 PF01807 zf-CHC2: CHC2 zinc fi 37.0 31 0.00068 22.1 2.1 27 19-45 63-89 (97)
75 cd08054 gp6 Head-Tail Connecto 36.8 94 0.002 18.7 4.3 59 27-89 5-71 (91)
76 PF00959 Phage_lysozyme: Phage 36.2 93 0.002 19.7 4.3 42 32-75 19-64 (110)
77 PF12469 DUF3692: CRISPR-assoc 35.5 64 0.0014 21.3 3.5 23 33-55 94-116 (117)
78 cd07939 DRE_TIM_NifV Streptomy 35.4 79 0.0017 23.5 4.4 79 24-103 94-178 (259)
79 PF03681 UPF0150: Uncharacteri 35.3 39 0.00084 18.5 2.1 18 30-47 27-44 (48)
80 COG3492 Uncharacterized protei 35.2 23 0.0005 23.3 1.2 23 32-54 63-85 (104)
81 cd05166 PI3Kc_II Phosphoinosit 34.6 41 0.00089 26.8 2.8 25 25-49 310-337 (353)
82 PRK05225 ketol-acid reductoiso 34.0 1.1E+02 0.0023 25.8 5.2 29 23-55 233-263 (487)
83 PF06183 DinI: DinI-like famil 33.9 55 0.0012 19.7 2.7 19 32-51 41-59 (65)
84 cd07940 DRE_TIM_IPMS 2-isoprop 33.7 97 0.0021 23.1 4.6 75 26-102 100-181 (268)
85 cd00891 PI3Kc Phosphoinositide 33.5 44 0.00095 26.6 2.8 28 22-50 307-337 (352)
86 PF13904 DUF4207: Domain of un 33.4 69 0.0015 24.3 3.8 14 95-108 250-263 (264)
87 cd05026 S-100Z S-100Z: S-100Z 32.9 90 0.002 19.5 3.8 39 64-102 2-41 (93)
88 cd07922 CarBa CarBa is the A s 32.9 43 0.00093 21.2 2.2 30 24-57 28-57 (81)
89 PF00505 HMG_box: HMG (high mo 32.1 60 0.0013 18.5 2.7 18 38-55 28-45 (69)
90 PF08519 RFC1: Replication fac 32.0 15 0.00033 25.8 0.0 49 14-70 100-148 (155)
91 cd00127 DSPc Dual specificity 31.9 59 0.0013 21.0 2.9 23 22-44 98-121 (139)
92 cd00751 thiolase Thiolase are 31.5 53 0.0012 25.9 3.0 37 21-57 154-190 (386)
93 PF10728 DUF2520: Domain of un 31.1 86 0.0019 21.3 3.6 29 26-54 59-87 (132)
94 PRK00915 2-isopropylmalate syn 30.3 1.1E+02 0.0024 25.5 4.7 79 22-102 102-187 (513)
95 PHA03369 capsid maturational p 30.0 84 0.0018 27.2 4.0 22 66-88 300-321 (663)
96 PF06086 Pox_A30L_A26L: Orthop 30.0 1.1E+02 0.0024 23.1 4.2 42 38-83 23-64 (220)
97 cd05167 PI4Kc_III_alpha Phosph 29.9 56 0.0012 25.6 2.8 24 26-49 266-292 (311)
98 cd00893 PI4Kc_III Phosphoinosi 29.7 59 0.0013 25.2 2.9 25 25-49 243-270 (289)
99 PF05341 DUF708: Protein of un 29.4 70 0.0015 21.4 2.8 35 46-83 20-54 (105)
100 PF10540 Membr_traf_MHD: Munc1 29.3 1.4E+02 0.0029 20.4 4.4 26 64-90 81-106 (137)
101 TIGR01930 AcCoA-C-Actrans acet 29.0 62 0.0013 25.6 3.0 43 22-65 156-198 (386)
102 PF01458 UPF0051: Uncharacteri 28.7 43 0.00093 24.4 1.9 25 17-41 201-225 (229)
103 TIGR03465 HpnD squalene syntha 28.5 2.5E+02 0.0054 20.8 6.3 41 27-68 171-220 (266)
104 PF11613 UCN2: Agonist of cort 28.4 42 0.0009 18.3 1.3 17 62-78 6-22 (38)
105 cd07923 Gallate_dioxygenase_C 28.1 74 0.0016 20.8 2.7 27 24-54 29-55 (94)
106 PHA02593 62 clamp loader small 27.8 69 0.0015 23.6 2.8 32 23-54 128-164 (191)
107 KOG0051 RNA polymerase I termi 27.5 1.8E+02 0.004 25.1 5.6 64 34-104 391-456 (607)
108 TIGR03859 PQQ_PqqD coenzyme PQ 27.4 61 0.0013 20.0 2.2 45 3-48 28-74 (81)
109 cd07925 LigA_like_1 The A subu 27.1 1.1E+02 0.0023 20.5 3.4 27 24-54 37-63 (106)
110 COG2511 GatE Archaeal Glu-tRNA 27.1 90 0.002 26.8 3.7 52 21-77 458-509 (631)
111 PF08383 Maf_N: Maf N-terminal 26.8 53 0.0012 17.6 1.5 12 31-42 22-33 (35)
112 COG3140 Uncharacterized protei 26.6 65 0.0014 19.2 2.0 47 6-54 4-50 (60)
113 PLN02746 hydroxymethylglutaryl 26.5 2.6E+02 0.0056 22.3 6.1 77 23-103 145-236 (347)
114 cd06199 SiR Cytochrome p450- l 26.4 76 0.0016 24.9 3.0 24 23-46 328-351 (360)
115 PF13189 Cytidylate_kin2: Cyti 26.2 56 0.0012 22.9 2.1 34 23-57 128-161 (179)
116 cd07019 S49_SppA_1 Signal pept 25.9 1.5E+02 0.0033 21.3 4.4 40 31-72 142-181 (211)
117 cd00896 PI3Kc_III Phosphoinosi 25.9 74 0.0016 25.3 2.9 25 25-49 305-332 (350)
118 PF09650 PHA_gran_rgn: Putativ 25.8 1.2E+02 0.0027 19.1 3.4 25 28-52 5-29 (87)
119 PF10835 DUF2573: Protein of u 25.7 98 0.0021 19.7 2.9 28 29-57 49-77 (82)
120 PRK09389 (R)-citramalate synth 25.6 1.1E+02 0.0024 25.4 4.0 77 24-102 98-181 (488)
121 PF12674 Zn_ribbon_2: Putative 25.6 64 0.0014 20.3 2.0 28 22-49 29-59 (81)
122 PF01484 Col_cuticle_N: Nemato 25.5 86 0.0019 17.2 2.4 18 35-52 36-53 (53)
123 smart00398 HMG high mobility g 25.3 93 0.002 17.5 2.7 18 38-55 29-46 (70)
124 PF13864 Enkurin: Calmodulin-b 25.3 1.3E+02 0.0027 19.2 3.5 25 32-57 37-61 (98)
125 COG1775 HgdB Benzoyl-CoA reduc 25.3 1.4E+02 0.0031 24.3 4.4 64 32-101 160-227 (379)
126 TIGR02698 CopY_TcrY copper tra 25.1 97 0.0021 20.8 3.0 31 17-48 87-117 (130)
127 TIGR00706 SppA_dom signal pept 24.5 2.3E+02 0.005 20.3 5.1 41 31-73 134-174 (207)
128 cd06203 methionine_synthase_re 24.3 88 0.0019 24.9 3.1 23 24-46 367-389 (398)
129 cd07977 TFIIE_beta_winged_heli 24.0 71 0.0015 19.7 2.0 24 18-42 10-36 (75)
130 PF13053 DUF3914: Protein of u 23.9 1.3E+02 0.0028 19.4 3.2 29 40-76 59-87 (92)
131 PF00494 SQS_PSY: Squalene/phy 23.8 2.9E+02 0.0062 20.2 5.6 30 27-56 180-219 (267)
132 PF02861 Clp_N: Clp amino term 23.7 1E+02 0.0022 16.5 2.5 25 21-45 28-52 (53)
133 KOG1257 NADP+-dependent malic 23.7 31 0.00068 29.3 0.4 31 20-50 326-361 (582)
134 PF11592 AvrPto: Central core 23.6 1.7E+02 0.0036 19.5 3.8 25 31-56 71-95 (105)
135 PRK13145 araD L-ribulose-5-pho 23.3 3.1E+02 0.0068 20.2 5.9 59 24-83 165-230 (234)
136 PRK14137 recX recombination re 23.3 2.7E+02 0.0058 20.3 5.2 81 16-105 100-182 (195)
137 cd01886 EF-G Elongation factor 23.3 2.8E+02 0.006 20.9 5.5 68 34-104 196-268 (270)
138 PLN02644 acetyl-CoA C-acetyltr 22.9 99 0.0022 24.6 3.1 36 22-57 159-194 (394)
139 KOG4511 Uncharacterized conser 22.8 74 0.0016 25.1 2.3 24 20-43 62-85 (335)
140 PRK12361 hypothetical protein; 22.6 83 0.0018 26.1 2.7 27 17-43 187-215 (547)
141 cd07945 DRE_TIM_CMS Leptospira 22.6 1.3E+02 0.0029 22.9 3.7 76 24-103 99-186 (280)
142 PF06844 DUF1244: Protein of u 22.5 39 0.00085 20.8 0.6 23 32-54 32-54 (68)
143 TIGR00977 LeuA_rel 2-isopropyl 22.4 2.8E+02 0.0061 23.3 5.8 80 23-103 105-193 (526)
144 TIGR00973 leuA_bact 2-isopropy 22.4 1.6E+02 0.0035 24.4 4.3 77 24-102 101-184 (494)
145 COG5222 Uncharacterized conser 22.3 1E+02 0.0022 24.7 3.0 28 30-57 124-151 (427)
146 TIGR02090 LEU1_arch isopropylm 21.8 1.5E+02 0.0032 23.4 3.9 77 25-103 97-180 (363)
147 cd01389 MATA_HMG-box MATA_HMG- 21.4 81 0.0018 18.8 1.9 19 38-56 29-47 (77)
148 KOG4833 Uncharacterized conser 21.3 1.1E+02 0.0023 25.5 3.0 26 22-47 19-45 (573)
149 PF12244 DUF3606: Protein of u 21.1 1.1E+02 0.0023 17.8 2.3 23 21-43 21-43 (57)
150 PRK09282 pyruvate carboxylase 20.8 3E+02 0.0064 23.6 5.7 92 2-106 284-376 (592)
151 PRK06690 acetyl-CoA acetyltran 20.5 1.4E+02 0.003 23.7 3.5 17 20-36 134-150 (361)
152 PRK11830 dapD 2,3,4,5-tetrahyd 20.4 2.4E+02 0.0053 21.7 4.7 32 40-74 3-34 (272)
153 cd06204 CYPOR NADPH cytochrome 20.3 1.2E+02 0.0025 24.4 3.0 23 24-46 385-407 (416)
154 TIGR00965 dapD 2,3,4,5-tetrahy 20.3 2E+02 0.0043 22.2 4.2 30 41-73 2-31 (269)
155 cd06202 Nitric_oxide_synthase 20.3 1.1E+02 0.0024 24.4 3.0 24 23-46 370-393 (406)
No 1
>PLN02150 terpene synthase/cyclase family protein
Probab=100.00 E-value=1.2e-43 Score=233.46 Aligned_cols=93 Identities=31% Similarity=0.549 Sum_probs=90.3
Q ss_pred hhcCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhhhhh-cccCCCCCCCc
Q 048580 14 QKREHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSADFM-YNDAQDRFTHS 92 (108)
Q Consensus 14 ~~rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~~~~-Y~~~~Dg~t~~ 92 (108)
|+||+++|+|+|||||||+|+|||+++|+++|+++||+||+|+| +++++|++++++++|+||+++|+ |+ ++||||.+
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~iN~e~l-~~~~~p~~~~~~~~NlaR~~~~~~Y~-~~Dg~t~~ 78 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIVMEEFL-TIKDVPRPVLVRCLNLARLIDVYCYN-EGDGFTYP 78 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHhheec-CCCCCCCC
Confidence 57999999999999999999999999999999999999999999 88899999999999999999999 99 99999987
Q ss_pred -hhHHHHHHhhhcccCC
Q 048580 93 -TMMKDQVDLVLRDPIS 108 (108)
Q Consensus 93 -~~~k~~I~sll~~Pi~ 108 (108)
..+|++|++||++|||
T Consensus 79 ~~~~K~~I~sLlv~pi~ 95 (96)
T PLN02150 79 HGKLKDLITSLFFHPLP 95 (96)
T ss_pred cHHHHHHHHHHhccCCC
Confidence 7899999999999986
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=99.98 E-value=2.2e-32 Score=223.45 Aligned_cols=101 Identities=35% Similarity=0.609 Sum_probs=98.5
Q ss_pred CCCCCchHHhhhcCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHhcCC-CCCCHHHHHHHHHHHhhhhhhc
Q 048580 4 GGGRVPPQFEQKREHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELLLNP-TAIPLPLLQVIFDLSCSADFMY 82 (108)
Q Consensus 4 ~nDi~s~~~E~~rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~-~~~p~~~~~~~~N~aR~~~~~Y 82 (108)
+||++||++|+++|+++|+|+|||+|+|+|+|||+++++++|+++||+||++++ ++ +++|++|++++||+||+++++|
T Consensus 440 ~NDi~S~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~e~l-~~~~~~p~~~~~~~~n~~r~~~~~Y 518 (542)
T cd00684 440 MNDIATYEDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNEEFL-KPSSDVPRPIKQRFLNLARVIDVFY 518 (542)
T ss_pred hcChhhhHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHh-cCCCCCCHHHHHHHHHHHHHHHHHh
Confidence 699999999999999999999999999999999999999999999999999999 87 7899999999999999999999
Q ss_pred ccCCCCCCCc-hhHHHHHHhhhccc
Q 048580 83 NDAQDRFTHS-TMMKDQVDLVLRDP 106 (108)
Q Consensus 83 ~~~~Dg~t~~-~~~k~~I~sll~~P 106 (108)
+ ++||||.| ..+|++|++||++|
T Consensus 519 ~-~~D~~t~~~~~~~~~i~~ll~~p 542 (542)
T cd00684 519 K-EGDGFTHPEGEIKDHITSLLFEP 542 (542)
T ss_pred c-CCCCCCCccHHHHHHHHHHhcCC
Confidence 9 99999998 78999999999998
No 3
>PLN02279 ent-kaur-16-ene synthase
Probab=99.97 E-value=5.3e-32 Score=228.53 Aligned_cols=101 Identities=20% Similarity=0.231 Sum_probs=96.4
Q ss_pred CCCCCchHHhhhcCCCcchhhhhhhcC--CCCHHHHHHHHHHHHHHHHHHHhHhHhcCC--CCCCHHHHHHHHHHHhhhh
Q 048580 4 GGGRVPPQFEQKREHSPSAVECYKNQL--GVSEEEAVKALSLAVANSWKVINEELLLNP--TAIPLPLLQVIFDLSCSAD 79 (108)
Q Consensus 4 ~nDi~s~~~E~~rg~~~s~v~cYMke~--g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~--~~~p~~~~~~~~N~aR~~~ 79 (108)
.|||+||++|++||++ |+|+|||+|| |+|+|||+++|+++|+++||+||++++ ++ +++|++|++++||+||+++
T Consensus 673 lNDI~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn~~~l-~~~~~~vp~~~~~~~ln~aR~~~ 750 (784)
T PLN02279 673 LNDIRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIESQRRELLRLVL-QEKGSNVPRECKDLFWKMSKVLH 750 (784)
T ss_pred HHhccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHh-ccCCCCCCHHHHHHHHHHHHhhh
Confidence 6999999999999998 9999999997 899999999999999999999999999 65 4699999999999999999
Q ss_pred hhcccCCCCCCCchhHHHHHHhhhcccCC
Q 048580 80 FMYNDAQDRFTHSTMMKDQVDLVLRDPIS 108 (108)
Q Consensus 80 ~~Y~~~~Dg~t~~~~~k~~I~sll~~Pi~ 108 (108)
+||+ ++||||.+ .||++|++||++||+
T Consensus 751 ~~Y~-~~Dgyt~~-~~k~~i~~ll~ePi~ 777 (784)
T PLN02279 751 LFYR-KDDGFTSN-DMMSLVKSVIYEPVS 777 (784)
T ss_pred hhee-CCCCCChH-HHHHHHHHHhccCCc
Confidence 9999 99999976 899999999999986
No 4
>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=99.44 E-value=4.2e-13 Score=99.94 Aligned_cols=78 Identities=31% Similarity=0.526 Sum_probs=72.4
Q ss_pred CCCCCchHHhhhcCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHhcCC-CCCCHHHHHHHHHHHhhhhhhc
Q 048580 4 GGGRVPPQFEQKREHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELLLNP-TAIPLPLLQVIFDLSCSADFMY 82 (108)
Q Consensus 4 ~nDi~s~~~E~~rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~-~~~p~~~~~~~~N~aR~~~~~Y 82 (108)
+||+.||++|+.+|+..|.|.|||+++|+|.++|++++.+++++.|+++++.+. +. ++.|+.+++.+.+++|.....|
T Consensus 206 ~NDl~S~~kE~~~g~~~N~v~vl~~~~~~~~~eA~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 206 LNDIASYEKEIARGEVANSVECYMKEYGVSEEEALEELRKMIEEAWKELNEEVL-KLSSDVPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred hccchHHHHHHccCCcccHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHh-cCCCCCCHHHHHHHHHHHHhhhhcC
Confidence 699999999999999999999999999999999999999999999999999998 54 3678999999999999987665
No 5
>PLN02592 ent-copalyl diphosphate synthase
Probab=99.42 E-value=3.8e-13 Score=114.58 Aligned_cols=84 Identities=10% Similarity=0.086 Sum_probs=73.4
Q ss_pred CCCCCchHHhhhcCCCcchhhhhhhcCC-CCHHHHHHHHHHHHHHHHHHHhHhHhcC-C-CCCCHHHHHHHHHHHhhhhh
Q 048580 4 GGGRVPPQFEQKREHSPSAVECYKNQLG-VSEEEAVKALSLAVANSWKVINEELLLN-P-TAIPLPLLQVIFDLSCSADF 80 (108)
Q Consensus 4 ~nDi~s~~~E~~rg~~~s~v~cYMke~g-~s~EeA~~~i~~~ie~~wK~ln~e~l~~-~-~~~p~~~~~~~~N~aR~~~~ 80 (108)
|||++||++|+.. .| +|+ +|.+++++.|+..+++|.+.++ + . +.+|++|+++||+++| +
T Consensus 714 ~nDl~t~~~e~~~-------------~~~~~~-~a~~~~~~~ie~~~~eL~~lvl-~~~~~~vp~~cK~~f~~~~k---~ 775 (800)
T PLN02592 714 CYQLGHYKKNKVH-------------INTYNP-EEKSKTTPSIESDMQELVQLVL-QNSSDDIDPVIKQTFLMVAK---S 775 (800)
T ss_pred HHhhhHHhhhccc-------------CCcccH-HHHHHHHHHHHHHHHHHHHHHh-hcCCCCCCHHHHHHHHHHHH---H
Confidence 6999999998741 23 455 8999999999999999999999 6 3 4699999999999999 5
Q ss_pred hcccCCCCCCCchhHHHHHHhhhcccCC
Q 048580 81 MYNDAQDRFTHSTMMKDQVDLVLRDPIS 108 (108)
Q Consensus 81 ~Y~~~~Dg~t~~~~~k~~I~sll~~Pi~ 108 (108)
||. . ||+.|.+|+.||..+|++|++
T Consensus 776 fy~-~--~~~~~~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 776 FYY-A--AYCDPGTINYHIAKVLFERVA 800 (800)
T ss_pred HHH-h--hcCCHHHHHHHHHHHhCCCCC
Confidence 777 4 999999999999999999985
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=98.89 E-value=5e-10 Score=82.82 Aligned_cols=50 Identities=22% Similarity=0.166 Sum_probs=48.6
Q ss_pred CCCCCchHHhhhcCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHh
Q 048580 4 GGGRVPPQFEQKREHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVIN 53 (108)
Q Consensus 4 ~nDi~s~~~E~~rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln 53 (108)
.|||.||++|..+|+..|.|.++|+++|+|.|+|+.++.+++++.++++|
T Consensus 221 ~NDl~S~~KE~~~g~~~N~v~~l~~~~~~s~e~A~~~v~~~~~~~~~efn 270 (270)
T PF03936_consen 221 VNDLYSYKKEIARGDVHNLVVVLMNEHGLSLEEAVDEVAEMINECIREFN 270 (270)
T ss_dssp HHHHHHHHHHHHTTSCCSHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hcccchhhcchhhcccccHHHHhhhhcCCCHHHHHHHHHHHHHHHHHhcC
Confidence 49999999999999999999999999999999999999999999999998
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=98.78 E-value=6e-09 Score=78.99 Aligned_cols=53 Identities=15% Similarity=0.039 Sum_probs=49.4
Q ss_pred CCCCCchHHhh-hcCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhH
Q 048580 4 GGGRVPPQFEQ-KREHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVINEEL 56 (108)
Q Consensus 4 ~nDi~s~~~E~-~rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~ 56 (108)
+||+.||++|+ ..|+..|.|.|+|+++|+|.++|++++..++...++++.+..
T Consensus 212 ~NDl~S~~KE~~~~g~~~N~V~vl~~~~g~s~~eA~~~~~~~~~~~~~~f~~~~ 265 (303)
T cd00687 212 VNDIYSYEKEIKANGEVHNLVKVLAEEHGLSLEEAISVVRDMHNERITQFEELE 265 (303)
T ss_pred HHHHHhhHHHHHhCCccchHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 69999999999 889989999999999999999999999999999998877654
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=98.34 E-value=3e-07 Score=64.88 Aligned_cols=72 Identities=24% Similarity=0.265 Sum_probs=60.3
Q ss_pred CCCCCchHHhhhcC-CCcchhhhhhhcCCC------------CHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHH
Q 048580 4 GGGRVPPQFEQKRE-HSPSAVECYKNQLGV------------SEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQV 70 (108)
Q Consensus 4 ~nDi~s~~~E~~rg-~~~s~v~cYMke~g~------------s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~ 70 (108)
.||+.++..|.+++ ...+.+.+||+++|+ +.++|.+++..+++..|+++++... .....++.+++.
T Consensus 159 ~nDl~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 237 (243)
T cd00385 159 TNDLLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELIL-SLPDVPRALLAL 237 (243)
T ss_pred HHHHHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCC-CcHHHHHHHHHH
Confidence 49999999999885 556999999999998 8899999999999999999998766 433456778888
Q ss_pred HHHHHh
Q 048580 71 IFDLSC 76 (108)
Q Consensus 71 ~~N~aR 76 (108)
+++++|
T Consensus 238 ~~~~~~ 243 (243)
T cd00385 238 ALNLYR 243 (243)
T ss_pred HHHHhC
Confidence 777764
No 9
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=94.68 E-value=0.026 Score=40.63 Aligned_cols=40 Identities=30% Similarity=0.486 Sum_probs=30.8
Q ss_pred hcCCCcchhhhhhhcC-CCCHHHHHHHHHHH------HHHHHHHHhH
Q 048580 15 KREHSPSAVECYKNQL-GVSEEEAVKALSLA------VANSWKVINE 54 (108)
Q Consensus 15 ~rg~~~s~v~cYMke~-g~s~EeA~~~i~~~------ie~~wK~ln~ 54 (108)
.||..++.|.||+-+| +.|.|+|.++++++ -...|+-+++
T Consensus 119 GRtRSaTvV~cYLmq~~~wtpe~A~~~vr~iRp~VlL~~~Qw~~l~e 165 (183)
T KOG1719|consen 119 GRTRSATVVACYLMQHKNWTPEAAVEHVRKIRPRVLLRPAQWDVLKE 165 (183)
T ss_pred CCccchhhhhhhhhhhcCCCHHHHHHHHHhcCcceeecHHHHHHHHH
Confidence 4667788899998887 99999999999874 2345655544
No 10
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=89.17 E-value=0.3 Score=35.92 Aligned_cols=29 Identities=31% Similarity=0.273 Sum_probs=22.7
Q ss_pred chhhhhhhcCCCCHHHHHHHHHHHHHHHH
Q 048580 21 SAVECYKNQLGVSEEEAVKALSLAVANSW 49 (108)
Q Consensus 21 s~v~cYMke~g~s~EeA~~~i~~~ie~~w 49 (108)
-+=...|+.||+||+||+++++++.-+-.
T Consensus 149 rAKglLM~~~g~sE~EAy~~lR~~AM~Rr 177 (194)
T COG3707 149 RAKGLLMKRRGLSEEEAYKLLRRTAMDRR 177 (194)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHhcc
Confidence 33346899999999999999998754433
No 11
>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=88.70 E-value=1.3 Score=35.48 Aligned_cols=75 Identities=16% Similarity=0.049 Sum_probs=48.8
Q ss_pred CCCCCchHHhhh-cCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhhhhhc
Q 048580 4 GGGRVPPQFEQK-REHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSADFMY 82 (108)
Q Consensus 4 ~nDi~s~~~E~~-rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~~~~Y 82 (108)
.|||-||-+|-. .++-+|-|.-|-+.||+|..+|.+.+..-.-.+-+.+.+ .| .+.. | .+++.+-++++..-.++
T Consensus 224 ~NDILSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~~-VL-se~d-p-~l~~av~~Fi~GYI~~H 299 (357)
T cd00686 224 VNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVA-VF-SDKD-P-QVMDTIECFMHGYVTWH 299 (357)
T ss_pred hhhhhheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHHH-Hh-cCCC-h-HHHHHHHHHHHHHhhhh
Confidence 699999988874 355668888888899999999999766554444455544 35 4432 3 33444444555443333
No 12
>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=88.51 E-value=0.35 Score=24.91 Aligned_cols=19 Identities=37% Similarity=0.574 Sum_probs=15.4
Q ss_pred hhhhhcCCCCHHHHHHHHH
Q 048580 24 ECYKNQLGVSEEEAVKALS 42 (108)
Q Consensus 24 ~cYMke~g~s~EeA~~~i~ 42 (108)
.-|.++||+|+||-.+.+.
T Consensus 8 NrYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 8 NRYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhhHHhcCCCHHHHHHHHH
Confidence 4699999999998776654
No 13
>KOG1720 consensus Protein tyrosine phosphatase CDC14 [Defense mechanisms]
Probab=83.59 E-value=1 Score=33.83 Aligned_cols=27 Identities=22% Similarity=0.518 Sum_probs=21.4
Q ss_pred CCCcchhhhh-hhcCCCCHHHHHHHHHH
Q 048580 17 EHSPSAVECY-KNQLGVSEEEAVKALSL 43 (108)
Q Consensus 17 g~~~s~v~cY-Mke~g~s~EeA~~~i~~ 43 (108)
|.....|.|| |+++|.|.+||+..|+.
T Consensus 159 GRTG~liAc~lmy~~g~ta~eaI~~lR~ 186 (225)
T KOG1720|consen 159 GRTGTLIACYLMYEYGMTAGEAIAWLRI 186 (225)
T ss_pred CchhHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 4556779999 57789999999987654
No 14
>smart00463 SMR Small MutS-related domain.
Probab=80.55 E-value=2.8 Score=25.66 Aligned_cols=24 Identities=29% Similarity=0.191 Sum_probs=21.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHh
Q 048580 30 LGVSEEEAVKALSLAVANSWKVIN 53 (108)
Q Consensus 30 ~g~s~EeA~~~i~~~ie~~wK~ln 53 (108)
||.|.+||+..+...|..+|+.-.
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~~ 30 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKGL 30 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcCC
Confidence 799999999999999999887643
No 15
>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=80.48 E-value=2.5 Score=26.07 Aligned_cols=27 Identities=30% Similarity=0.295 Sum_probs=21.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHhHhH
Q 048580 30 LGVSEEEAVKALSLAVANSWKVINEEL 56 (108)
Q Consensus 30 ~g~s~EeA~~~i~~~ie~~wK~ln~e~ 56 (108)
||.+.+||+..+...|+.+|+.-.+.+
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~~~~ 30 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGIREL 30 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTHSEE
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCCCEE
Confidence 799999999999999999997654443
No 16
>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=80.43 E-value=1.2 Score=25.82 Aligned_cols=32 Identities=22% Similarity=0.180 Sum_probs=23.0
Q ss_pred CCcchhhhhhhcCCCCHHHHHHHHHHHHHHHH
Q 048580 18 HSPSAVECYKNQLGVSEEEAVKALSLAVANSW 49 (108)
Q Consensus 18 ~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~w 49 (108)
-+.-++..-|..+|+|+++|...++....+.-
T Consensus 14 ~I~~AkgiLm~~~g~~e~~A~~~Lr~~Am~~~ 45 (56)
T PF03861_consen 14 VIEQAKGILMARYGLSEDEAYRLLRRQAMRRR 45 (56)
T ss_dssp HHHHHHHHHHHHHT--HHHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHHhCcCHHHHHHHHHHHHHHcC
Confidence 34556778899999999999999987755433
No 17
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=74.37 E-value=2.7 Score=31.93 Aligned_cols=29 Identities=10% Similarity=0.102 Sum_probs=24.0
Q ss_pred cCCCcchhhhhhhcCCCCHHHHHHHHHHH
Q 048580 16 REHSPSAVECYKNQLGVSEEEAVKALSLA 44 (108)
Q Consensus 16 rg~~~s~v~cYMke~g~s~EeA~~~i~~~ 44 (108)
.|-.+..+.|||-++|++.+||++.|+..
T Consensus 181 lGRTGtl~AayLI~~GmspeeAI~~VR~~ 209 (241)
T PTZ00393 181 LGRAPVLASIVLIEFGMDPIDAIVFIRDR 209 (241)
T ss_pred CCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 34556778899999999999999999864
No 18
>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=72.46 E-value=4.6 Score=25.05 Aligned_cols=31 Identities=19% Similarity=0.277 Sum_probs=25.8
Q ss_pred chhhhhhhcCCCCHHHHHHHHHHHHHHHHHH
Q 048580 21 SAVECYKNQLGVSEEEAVKALSLAVANSWKV 51 (108)
Q Consensus 21 s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ 51 (108)
..|...+-+.|++.++|.+-|++..-.+|++
T Consensus 7 E~v~~~L~~~G~gR~~Ah~lv~~~a~~a~~~ 37 (81)
T PF10397_consen 7 ERVMLALAEKGLGRQEAHELVQEAAMEAWEN 37 (81)
T ss_dssp HHHHHHHHHTTH-HHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHccCHHHHHHHHHHHHHHHHHH
Confidence 4466677788999999999999999999984
No 19
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=72.21 E-value=4.1 Score=27.94 Aligned_cols=21 Identities=48% Similarity=0.556 Sum_probs=18.6
Q ss_pred hhhhhhcCCCCHHHHHHHHHH
Q 048580 23 VECYKNQLGVSEEEAVKALSL 43 (108)
Q Consensus 23 v~cYMke~g~s~EeA~~~i~~ 43 (108)
|..=|.|-|||+|+|++.+.+
T Consensus 88 IkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 88 IKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHhCCCHHHHHHHHHH
Confidence 788899999999999988754
No 20
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=72.17 E-value=4.3 Score=29.00 Aligned_cols=25 Identities=24% Similarity=0.481 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHhHhHhcCCCCCCHH
Q 048580 38 VKALSLAVANSWKVINEELLLNPTAIPLP 66 (108)
Q Consensus 38 ~~~i~~~ie~~wK~ln~e~l~~~~~~p~~ 66 (108)
.++||..|++.||+ .+. +|++-|+|
T Consensus 134 ~~eIR~~ID~kYk~---g~~-~pTpTp~P 158 (158)
T PF13798_consen 134 PKEIRQYIDEKYKE---GYA-KPTPTPMP 158 (158)
T ss_pred HHHHHHHHHHHHHh---CCC-CCCCCCCC
Confidence 35699999999984 466 77766654
No 21
>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=70.02 E-value=5.9 Score=25.68 Aligned_cols=21 Identities=33% Similarity=0.572 Sum_probs=14.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhHhHh
Q 048580 32 VSEEEAVKALSLAVANSWKVINEELL 57 (108)
Q Consensus 32 ~s~EeA~~~i~~~ie~~wK~ln~e~l 57 (108)
.|++|+. +++. -|-++|++||
T Consensus 9 l~eeE~~--~K~~---iW~~~NkdyL 29 (97)
T PF07741_consen 9 LSEEEVK--IKER---IWMEMNKDYL 29 (97)
T ss_dssp --HHHHH--HHHH---HHHHHTHHHH
T ss_pred CCHHHHH--HHHH---HHHHHHHHHH
Confidence 5777763 4443 5999999998
No 22
>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=66.58 E-value=24 Score=21.74 Aligned_cols=34 Identities=15% Similarity=0.288 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHh
Q 048580 40 ALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSC 76 (108)
Q Consensus 40 ~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR 76 (108)
.++..||.+|.. ++-+ .+...+...++.+..+-.
T Consensus 2 ~l~~~Ie~aw~~--r~~l-~~~~~~~~~~~av~~~i~ 35 (70)
T PF14805_consen 2 QLQKIIEAAWEN--RDEL-TPSNADPELRDAVEEVIE 35 (70)
T ss_dssp HHHHHHHHHHHG--GGG--BTTT--HHHHHHHHHHHH
T ss_pred hHHHHHHHHHHh--HhhC-CCccCCHHHHHHHHHHHH
Confidence 578999999985 7777 666677777777665543
No 23
>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=65.13 E-value=7.4 Score=31.45 Aligned_cols=82 Identities=15% Similarity=0.059 Sum_probs=49.5
Q ss_pred CCCCCchHHhhh-cCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhhhhhc
Q 048580 4 GGGRVPPQFEQK-REHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSADFMY 82 (108)
Q Consensus 4 ~nDi~s~~~E~~-rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~~~~Y 82 (108)
.|||-||-+|.. .|+.+|.|.-|-.-+|+|..+|.+.+..-.-.+-+.+.+. | .+. =| ..++.+-++++..-.+.
T Consensus 224 ~NDILSFYKE~l~a~E~~NyI~n~A~~~g~S~~eaL~~l~~eti~a~~rv~~v-L-~~~-dp-~ll~a~~~Fi~GYi~~H 299 (376)
T PF06330_consen 224 VNDILSFYKEELVAGETGNYIHNRARVHGVSILEALRELTDETIEAVERVRRV-L-SDK-DP-ELLAAWDSFIQGYIAFH 299 (376)
T ss_dssp HHHHHHHHHHHTTSSSSSSHHHHHHHHHT--HHHHHHHHHHHHHHHHHHHHHH-H-TTS--H-HHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHhhcccccccchhhhhhhccCCCHHHHHHHHHHHHHHHHHHHHHH-h-ccC-Ch-HHHHHHHHHHHHHHHhh
Confidence 599999988877 7888899987777789999999988744433343444443 4 221 12 34445555555544444
Q ss_pred ccCCCCCC
Q 048580 83 NDAQDRFT 90 (108)
Q Consensus 83 ~~~~Dg~t 90 (108)
- ....|.
T Consensus 300 ~-~~~RYR 306 (376)
T PF06330_consen 300 T-SNPRYR 306 (376)
T ss_dssp H-HSGGGT
T ss_pred c-CCCccC
Confidence 3 334444
No 24
>PHA02896 A-type inclusion like protein; Provisional
Probab=64.50 E-value=14 Score=31.40 Aligned_cols=45 Identities=9% Similarity=0.203 Sum_probs=36.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhh
Q 048580 30 LGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSA 78 (108)
Q Consensus 30 ~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~ 78 (108)
.|+..|.-+..+..+|+..|. ++.= +.+.+|+.-.+++=|+-|-.
T Consensus 4 ~~~giEKcV~eFkSlVertWn---k~Ln-s~SCIpRk~RKiIRNILR~Y 48 (616)
T PHA02896 4 DGCGIDKCIRKFESLIIRTWD---HDLN-ERSFLNRKDRKIIRNIFRCF 48 (616)
T ss_pred cccChHHHHHHHHHHHHHhhC---Cccc-cccCcCHHHHHHHHHHHHHH
Confidence 377889999999999999994 3333 45679999999999999864
No 25
>smart00400 ZnF_CHCC zinc finger.
Probab=62.85 E-value=9.3 Score=21.86 Aligned_cols=24 Identities=25% Similarity=0.120 Sum_probs=19.8
Q ss_pred CCcchhhhhhhcCCCCHHHHHHHH
Q 048580 18 HSPSAVECYKNQLGVSEEEAVKAL 41 (108)
Q Consensus 18 ~~~s~v~cYMke~g~s~EeA~~~i 41 (108)
.-.+.|+.||+-+|+|-.||++.|
T Consensus 31 ~gGd~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 31 AGGNVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CCCCHHHHHHHHHCcCHHHHHHHh
Confidence 344779999999999999998765
No 26
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=59.55 E-value=9.4 Score=25.89 Aligned_cols=27 Identities=48% Similarity=0.465 Sum_probs=21.6
Q ss_pred CCCcchhhhhhhcCCCCHHHHHHHHHH
Q 048580 17 EHSPSAVECYKNQLGVSEEEAVKALSL 43 (108)
Q Consensus 17 g~~~s~v~cYMke~g~s~EeA~~~i~~ 43 (108)
|-...-|+.-|.+-|+|.++|++.+.+
T Consensus 74 ~i~~edI~lv~~q~gvs~~~A~~AL~~ 100 (115)
T PRK06369 74 EIPEEDIELVAEQTGVSEEEARKALEE 100 (115)
T ss_pred CCCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 334566898899999999999987754
No 27
>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=59.22 E-value=12 Score=21.77 Aligned_cols=47 Identities=13% Similarity=0.056 Sum_probs=27.9
Q ss_pred CCCCCchHHhhhcC--CCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHH
Q 048580 4 GGGRVPPQFEQKRE--HSPSAVECYKNQLGVSEEEAVKALSLAVANSWK 50 (108)
Q Consensus 4 ~nDi~s~~~E~~rg--~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK 50 (108)
.|+++++=-+.-.| .+...++....+++++.+++.+.+...++..++
T Consensus 15 Ln~~a~~Iw~~~~g~~t~~ei~~~l~~~y~~~~~~~~~dv~~fl~~L~~ 63 (68)
T PF05402_consen 15 LNETAAFIWELLDGPRTVEEIVDALAEEYDVDPEEAEEDVEEFLEQLRE 63 (68)
T ss_dssp --THHHHHHHH--SSS-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHccCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence 45666665554444 244445655667799999999999998887664
No 28
>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=58.89 E-value=5.7 Score=25.98 Aligned_cols=26 Identities=27% Similarity=0.291 Sum_probs=19.8
Q ss_pred Ccchhhhhhhc-CCCCHHHHHHHHHHH
Q 048580 19 SPSAVECYKNQ-LGVSEEEAVKALSLA 44 (108)
Q Consensus 19 ~~s~v~cYMke-~g~s~EeA~~~i~~~ 44 (108)
.++.+-+||-. +|+|.++|.+.++..
T Consensus 87 S~~v~~ayLm~~~~~~~~~A~~~v~~~ 113 (133)
T PF00782_consen 87 SGAVAAAYLMKKNGMSLEEAIEYVRSR 113 (133)
T ss_dssp HHHHHHHHHHHHHTSSHHHHHHHHHHH
T ss_pred chHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 45667888666 599999999988543
No 29
>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=58.82 E-value=9.9 Score=25.83 Aligned_cols=26 Identities=35% Similarity=0.322 Sum_probs=20.9
Q ss_pred CCcchhhhhhhcCCCCHHHHHHHHHH
Q 048580 18 HSPSAVECYKNQLGVSEEEAVKALSL 43 (108)
Q Consensus 18 ~~~s~v~cYMke~g~s~EeA~~~i~~ 43 (108)
-...-|+.-|.+-|+|.++|++.+.+
T Consensus 77 i~~eDI~lV~eq~gvs~e~A~~AL~~ 102 (116)
T TIGR00264 77 ITEDDIELVMKQCNVSKEEARRALEE 102 (116)
T ss_pred CCHHHHHHHHHHhCcCHHHHHHHHHH
Confidence 34456888899999999999987754
No 30
>PTZ00242 protein tyrosine phosphatase; Provisional
Probab=57.47 E-value=8.3 Score=27.19 Aligned_cols=28 Identities=18% Similarity=0.135 Sum_probs=21.7
Q ss_pred CCCcchhhhhhhcC-CCCHHHHHHHHHHH
Q 048580 17 EHSPSAVECYKNQL-GVSEEEAVKALSLA 44 (108)
Q Consensus 17 g~~~s~v~cYMke~-g~s~EeA~~~i~~~ 44 (108)
|-.+..+-|||.++ |++.+||++.++..
T Consensus 110 gRSgt~~a~yL~~~~~~s~~eAi~~vr~~ 138 (166)
T PTZ00242 110 GRAPILVALALVEYGGMEPLDAVGFVREK 138 (166)
T ss_pred CHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 44556688998887 59999999988653
No 31
>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=57.30 E-value=46 Score=22.19 Aligned_cols=38 Identities=16% Similarity=0.261 Sum_probs=28.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHH
Q 048580 31 GVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVI 71 (108)
Q Consensus 31 g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~ 71 (108)
.+|+++|.+-+..-++...+.+++.+. .++|..-.+..
T Consensus 42 ~iT~~qa~~ll~~dl~~~~~~v~~~~~---~~l~~~~~dAL 79 (133)
T cd00737 42 TITEEQADALLAKDLAKAERAVNRAVK---VPLTQNQFDAL 79 (133)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHcC---CCCCHHHHHHH
Confidence 589999999999999999998765432 34666544443
No 32
>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=57.23 E-value=9.9 Score=30.59 Aligned_cols=32 Identities=16% Similarity=0.361 Sum_probs=25.5
Q ss_pred hhhhhhcC---CCCHHHHHHHHHHHHHHH----HH-HHhHh
Q 048580 23 VECYKNQL---GVSEEEAVKALSLAVANS----WK-VINEE 55 (108)
Q Consensus 23 v~cYMke~---g~s~EeA~~~i~~~ie~~----wK-~ln~e 55 (108)
++ |+++. +.|+|||.+++..+|.++ |+ .+|+-
T Consensus 321 i~-~lr~rf~l~~sd~eA~~~f~~~I~~s~~~~w~t~~n~~ 360 (366)
T cd05175 321 IA-YIRKTLALDKTEQEALEYFMKQMNDAHHGGWTTKMDWI 360 (366)
T ss_pred HH-HHHHhcCCCCCHHHHHHHHHHHHHHHHhcCceeeehHH
Confidence 44 88885 789999999999999876 76 46653
No 33
>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=55.71 E-value=12 Score=24.99 Aligned_cols=28 Identities=25% Similarity=0.520 Sum_probs=21.1
Q ss_pred hhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 048580 24 ECYKNQLGVSEEEAVKALSLAVANSWKVINEE 55 (108)
Q Consensus 24 ~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e 55 (108)
++||.++|.|+||.. .+.+.-|..|...
T Consensus 37 eAy~~~~gLTeEe~~----AV~~rD~~~Li~l 64 (106)
T cd07921 37 EAYCDKFGLTEEQKQ----AVLDRDWLRLLEL 64 (106)
T ss_pred HHHHHHcCCCHHHHH----HHHhCCHHHHHHh
Confidence 789999999998843 4555678777653
No 34
>KOG1151 consensus Tousled-like protein kinase [Signal transduction mechanisms]
Probab=54.16 E-value=16 Score=31.11 Aligned_cols=33 Identities=33% Similarity=0.385 Sum_probs=27.0
Q ss_pred chhhhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhH
Q 048580 21 SAVECYKNQL-GVSEEEAVKALSLAVANSWKVINE 54 (108)
Q Consensus 21 s~v~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~ 54 (108)
+-+..|+|+| -+||.||+.-|..++ ++-+=||+
T Consensus 553 NDLDFYLKQhklmSEKEARSIiMQiV-nAL~YLNE 586 (775)
T KOG1151|consen 553 NDLDFYLKQHKLMSEKEARSIIMQIV-NALKYLNE 586 (775)
T ss_pred CchhHHHHhhhhhhHHHHHHHHHHHH-HHHHHHhc
Confidence 3468999999 689999999887665 47788887
No 35
>PHA01748 hypothetical protein
Probab=53.47 E-value=32 Score=20.30 Aligned_cols=31 Identities=23% Similarity=0.388 Sum_probs=22.8
Q ss_pred chhhhhhhcCCCCHHHHHH-HHHHHHHHHHHH
Q 048580 21 SAVECYKNQLGVSEEEAVK-ALSLAVANSWKV 51 (108)
Q Consensus 21 s~v~cYMke~g~s~EeA~~-~i~~~ie~~wK~ 51 (108)
.-++-|.+++|++..|+++ .|+..+++.|.+
T Consensus 15 ~eld~~a~~~g~~RSE~Ir~Ai~~~~~~~~~~ 46 (60)
T PHA01748 15 ELLDRYAIKHGLNRSEAIRKAIEKMVKDELKK 46 (60)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHh
Confidence 4577889999999766654 467788777753
No 36
>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=52.90 E-value=19 Score=29.86 Aligned_cols=28 Identities=14% Similarity=0.141 Sum_probs=20.9
Q ss_pred chhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 048580 21 SAVECYKNQLGVSEEEAVKALSLAVANS 48 (108)
Q Consensus 21 s~v~cYMke~g~s~EeA~~~i~~~ie~~ 48 (108)
|--++.||-+|+|+|||.+.+.++-++.
T Consensus 443 s~~~yl~k~yg~~eeeA~~~~~~i~~e~ 470 (476)
T TIGR01542 443 PLKIALQRAWNITEEEADEWAAMIAKEK 470 (476)
T ss_pred CHHHHHHHccCCCHHHHHHHHHHHhhhh
Confidence 4445556656999999999998776544
No 37
>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=52.06 E-value=9.5 Score=25.08 Aligned_cols=32 Identities=22% Similarity=0.320 Sum_probs=24.1
Q ss_pred chhhhhhhcCCC--CHHHHHHHHHHHHHHHHHHHhHhH
Q 048580 21 SAVECYKNQLGV--SEEEAVKALSLAVANSWKVINEEL 56 (108)
Q Consensus 21 s~v~cYMke~g~--s~EeA~~~i~~~ie~~wK~ln~e~ 56 (108)
+.|.-+++++|+ |+++ |..+||.+.++||.++
T Consensus 75 ~~v~~~L~~~gi~~t~~~----i~~~IEaAV~~m~~~~ 108 (108)
T PF09682_consen 75 QYVKERLKKKGIKVTDEQ----IEGAIEAAVKEMNDEW 108 (108)
T ss_pred HHHHHHHHHcCCCCCHHH----HHHHHHHHHHHHhhcC
Confidence 456667888775 5544 8899999999999763
No 38
>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=51.26 E-value=12 Score=28.63 Aligned_cols=18 Identities=39% Similarity=0.564 Sum_probs=15.9
Q ss_pred chhhhhhhcC-CCCHHHHH
Q 048580 21 SAVECYKNQL-GVSEEEAV 38 (108)
Q Consensus 21 s~v~cYMke~-g~s~EeA~ 38 (108)
.+|+.|+|.| ++|++|-.
T Consensus 224 rAID~YLk~Hp~ls~~Er~ 242 (258)
T PF03000_consen 224 RAIDIYLKAHPGLSEEERK 242 (258)
T ss_pred HHHHHHHHHcccCCHHHHH
Confidence 6899999999 99999855
No 39
>KOG0506 consensus Glutaminase (contains ankyrin repeat) [Amino acid transport and metabolism]
Probab=50.96 E-value=8.1 Score=32.53 Aligned_cols=27 Identities=11% Similarity=0.070 Sum_probs=24.3
Q ss_pred CCCchHHhhhcCCCcchhhhhhhcCCC
Q 048580 6 GRVPPQFEQKREHSPSAVECYKNQLGV 32 (108)
Q Consensus 6 Di~s~~~E~~rg~~~s~v~cYMke~g~ 32 (108)
|=++|..|++.++-+-++.-||||+.+
T Consensus 326 ~NatFlSEretaDRNyAlsYymkE~kc 352 (622)
T KOG0506|consen 326 DNATFLSERETADRNYALSYYMKEKKC 352 (622)
T ss_pred cchhhhcchhcccchhHHHHHHHhccc
Confidence 568899999999999999999999975
No 40
>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=49.19 E-value=13 Score=22.29 Aligned_cols=37 Identities=24% Similarity=0.543 Sum_probs=24.0
Q ss_pred CcchhhhhhhcCCCC-HHH-----HHHHHHHHHHHHHHHHhHh
Q 048580 19 SPSAVECYKNQLGVS-EEE-----AVKALSLAVANSWKVINEE 55 (108)
Q Consensus 19 ~~s~v~cYMke~g~s-~Ee-----A~~~i~~~ie~~wK~ln~e 55 (108)
..|+-.+||+++-.. .++ ....+...|...|+.|..+
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 347788899876221 112 3556778899999988754
No 41
>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=48.85 E-value=11 Score=23.36 Aligned_cols=29 Identities=34% Similarity=0.436 Sum_probs=22.3
Q ss_pred hcCCCcchhhhhhhcCCCCHHHHHHHHHH
Q 048580 15 KREHSPSAVECYKNQLGVSEEEAVKALSL 43 (108)
Q Consensus 15 ~rg~~~s~v~cYMke~g~s~EeA~~~i~~ 43 (108)
.|..+-..|+-+.++.|.|.++|++.+..
T Consensus 51 rRK~Ii~~I~~l~~~~g~~~~~ai~~le~ 79 (81)
T PF12550_consen 51 RRKVIIDFIERLANERGISEEEAIEILEE 79 (81)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 35556677887788889999999987753
No 42
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=48.00 E-value=25 Score=27.18 Aligned_cols=57 Identities=18% Similarity=0.306 Sum_probs=42.8
Q ss_pred CcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHH----------hHhHhcCCCCCCHHHHHHHHHHHh
Q 048580 19 SPSAVECYKNQLGVSEEEAVKALSLAVANSWKVI----------NEELLLNPTAIPLPLLQVIFDLSC 76 (108)
Q Consensus 19 ~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~l----------n~e~l~~~~~~p~~~~~~~~N~aR 76 (108)
..+..+.-++..|.+.|+|.+++.--+++.|=++ +.++| ...++|...+..+.++||
T Consensus 103 a~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l-~~~~~~~~~~~~l~e~a~ 169 (269)
T COG1093 103 ADKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVL-DDEGVPEEWKEVLKEIAR 169 (269)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCccc-ccCCCCHHHHHHHHHHHH
Confidence 3455677777889999999999988777777554 33344 444788889999999998
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=47.02 E-value=25 Score=28.25 Aligned_cols=26 Identities=31% Similarity=0.406 Sum_probs=21.5
Q ss_pred hhhhcC---CCCHHHHHHHHHHHHHHHHH
Q 048580 25 CYKNQL---GVSEEEAVKALSLAVANSWK 50 (108)
Q Consensus 25 cYMke~---g~s~EeA~~~i~~~ie~~wK 50 (108)
-|+++. +.|+|||.++++.+|+++-+
T Consensus 317 ~~l~~r~~l~~se~eA~~~f~~~i~~s~~ 345 (362)
T cd05173 317 QYLKDSLALGKSEEEALKQFRQKFDEALR 345 (362)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence 478875 78999999999999987653
No 44
>COG2840 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.02 E-value=33 Score=25.09 Aligned_cols=35 Identities=23% Similarity=0.193 Sum_probs=25.9
Q ss_pred cCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHH
Q 048580 16 REHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVI 52 (108)
Q Consensus 16 rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~l 52 (108)
+|.. .++.-+-=||.|.+||+..+..+|..+.++-
T Consensus 90 rG~~--~~e~~LDLHG~tq~eAr~~L~~Fi~~a~~~~ 124 (184)
T COG2840 90 RGRY--PPEARLDLHGLTQEEARQELGAFIARARAEG 124 (184)
T ss_pred cCCC--CcceeeeccCCCHHHHHHHHHHHHHHHHHhC
Confidence 4544 2344444589999999999999999888643
No 45
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=43.91 E-value=1.1e+02 Score=21.37 Aligned_cols=70 Identities=14% Similarity=0.164 Sum_probs=41.0
Q ss_pred hcCCCCH----HHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHH--HHhhhhhhcccCCCCCCCchhHHHHHH
Q 048580 28 NQLGVSE----EEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFD--LSCSADFMYNDAQDRFTHSTMMKDQVD 100 (108)
Q Consensus 28 ke~g~s~----EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N--~aR~~~~~Y~~~~Dg~t~~~~~k~~I~ 100 (108)
||.|-|+ |.=+++-+.+=.+.=|++.+|.+ +|+|..+.+++=. .+|+-++--....+.-|....++.+|.
T Consensus 38 KeDGkS~LDWq~~yi~~trhlW~de~K~lL~eLV---~PVPelFRdvAk~kIAgkIgelAl~e~a~~it~d~iIrGYI~ 113 (141)
T PF11084_consen 38 KEDGKSILDWQEYYIEKTRHLWTDEQKALLEELV---SPVPELFRDVAKHKIAGKIGELALEEKASEITRDLIIRGYIL 113 (141)
T ss_pred cccCcccccHHHHHHHHhHhhcCHHHHHHHHHHh---hcCcHHHHHHHHHHHHHHHHHHHHHcCcccccHHHHHhhhhh
Confidence 4666663 44444445554555566777776 4699999887765 567777766512244333344555553
No 46
>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=43.56 E-value=23 Score=22.00 Aligned_cols=28 Identities=18% Similarity=0.184 Sum_probs=20.3
Q ss_pred hhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 048580 24 ECYKNQLGVSEEEAVKALSLAVANSWKVINEE 55 (108)
Q Consensus 24 ~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e 55 (108)
+.||.++|.|+||- +.+.+.-|..|.+.
T Consensus 27 ~a~~~~~~Lt~eE~----~al~~rD~~~L~~l 54 (77)
T cd07321 27 EAVLAEYGLTPEEK----AALLARDVGALYVL 54 (77)
T ss_pred HHHHHHcCCCHHHH----HHHHcCCHHHHHHc
Confidence 68999999999873 34555667766653
No 47
>PRK01285 pyruvoyl-dependent arginine decarboxylase; Reviewed
Probab=43.52 E-value=24 Score=25.07 Aligned_cols=25 Identities=24% Similarity=0.347 Sum_probs=20.4
Q ss_pred hhhcC-C-CCHHHHHHHHHHHHHHHHH
Q 048580 26 YKNQL-G-VSEEEAVKALSLAVANSWK 50 (108)
Q Consensus 26 YMke~-g-~s~EeA~~~i~~~ie~~wK 50 (108)
|.-|| | .++|+|.+.+..|++..|+
T Consensus 96 ~i~E~~g~~~~e~ae~~a~~Ml~~~~~ 122 (155)
T PRK01285 96 YISEHHGFGEKEEAEDLAATMLEEGFK 122 (155)
T ss_pred EEEEeccCCCHHHHHHHHHHHHHHHHH
Confidence 55666 6 6789999999999988776
No 48
>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=42.87 E-value=34 Score=22.06 Aligned_cols=21 Identities=19% Similarity=0.162 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhH
Q 048580 34 EEEAVKALSLAVANSWKVINE 54 (108)
Q Consensus 34 ~EeA~~~i~~~ie~~wK~ln~ 54 (108)
-+||.+++++.|+++.++|-+
T Consensus 66 cpeA~~eL~~eI~eAK~dLr~ 86 (91)
T PF08285_consen 66 CPEAAKELQKEIKEAKADLRK 86 (91)
T ss_pred CHHHHHHHHHHHHHHHHHHHH
Confidence 588999999999999998754
No 49
>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=42.77 E-value=26 Score=28.13 Aligned_cols=25 Identities=28% Similarity=0.240 Sum_probs=21.3
Q ss_pred hhhhcC---CCCHHHHHHHHHHHHHHHH
Q 048580 25 CYKNQL---GVSEEEAVKALSLAVANSW 49 (108)
Q Consensus 25 cYMke~---g~s~EeA~~~i~~~ie~~w 49 (108)
-|+++. +.|+|||.+++..+|+++-
T Consensus 321 ~~l~~~~~l~~se~eA~~~f~~~I~~s~ 348 (365)
T cd00894 321 EYIRDALTVGKSEEDAKKHFLDQIEVCR 348 (365)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 377774 7899999999999999874
No 50
>PF11989 Dsl1_C: Retrograde transport protein Dsl1 C terminal; InterPro: IPR021876 Dsl1 is a peripheral membrane protein required for transport between the Golgi and the endoplasmic reticulum []. It is localised to the ER membrane, and in vitro it specifically binds to coatomer, the major component of the protein coat of COPI vesicles []. Binding sites for coatomer are found on a disorganised region between the C and N termini of Dsl1 []. The C-terminal domain is involved in binding to the Sec39 subunit of the Dsl1p complex []. The N-terminal complexes with another subunit of the Dsl1p complex called Tip20 which forms heterodimers by pairing the N termini of each protein []. ; PDB: 3K8P_C.
Probab=42.19 E-value=21 Score=27.79 Aligned_cols=30 Identities=13% Similarity=0.300 Sum_probs=23.0
Q ss_pred HHhhhhhhcccCCCCCCCc-hhHHHHHHhhhcc
Q 048580 74 LSCSADFMYNDAQDRFTHS-TMMKDQVDLVLRD 105 (108)
Q Consensus 74 ~aR~~~~~Y~~~~Dg~t~~-~~~k~~I~sll~~ 105 (108)
++=++..||+ ||=|-++ .++-+.|++||.+
T Consensus 241 LkDIm~~Fy~--Gel~~fsTdElI~lIkslFad 271 (291)
T PF11989_consen 241 LKDIMEMFYQ--GELYDFSTDELIQLIKSLFAD 271 (291)
T ss_dssp HHHHHHHHHT--TGGGGS-HHHHHHHHHHHS--
T ss_pred HHHHHHHHhc--CchhcccHHHHHHHHHHHhcC
Confidence 6778889998 7666677 7999999999986
No 51
>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=41.96 E-value=1e+02 Score=23.65 Aligned_cols=78 Identities=12% Similarity=0.118 Sum_probs=50.1
Q ss_pred hhhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhH--------hcCC---CCCCHHHHHHHHHHHhhh---------hhh
Q 048580 23 VECYKNQL-GVSEEEAVKALSLAVANSWKVINEEL--------LLNP---TAIPLPLLQVIFDLSCSA---------DFM 81 (108)
Q Consensus 23 v~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~--------l~~~---~~~p~~~~~~~~N~aR~~---------~~~ 81 (108)
-+.+++.+ +.|.+|+++.+.++++.+... ...+ + .. +..|..++..++..++-. .+-
T Consensus 103 Sd~h~~~~~~~s~~e~~~~~~~~v~~a~~~-g~~~~~~~~~~~~-~~EDasr~~~~~l~~~~~~~~~~~~~g~~~~~~i~ 180 (284)
T cd07942 103 SPLQRRVVFGKSKEEIIEIAVDGAKLVKEL-AAKYPETDWRFEY-SPESFSDTELDFALEVCEAVIDVWQPTPENKIILN 180 (284)
T ss_pred CHHHHHHHhCCCHHHHHHHHHHHHHHHHHh-cccccCceEEEEE-CCccCCCCCHHHHHHHHHHHHHhhcCCCCcceEEE
Confidence 35566665 999999999999999987753 2111 1 11 135655555555554322 355
Q ss_pred cccCCCCCCCchhHHHHHHhhh
Q 048580 82 YNDAQDRFTHSTMMKDQVDLVL 103 (108)
Q Consensus 82 Y~~~~Dg~t~~~~~k~~I~sll 103 (108)
+- +.=|.-.|.++.+.|..+.
T Consensus 181 la-DTvG~a~P~~v~~~~~~l~ 201 (284)
T cd07942 181 LP-ATVEVATPNVYADQIEWFC 201 (284)
T ss_pred cc-ccccccCHHHHHHHHHHHH
Confidence 66 6678888877777777664
No 52
>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=41.44 E-value=9.7 Score=26.24 Aligned_cols=38 Identities=29% Similarity=0.424 Sum_probs=24.2
Q ss_pred cchhhhhhhcC-CCCHHH--HHHHHHHHHHHHHHHHhHhHh
Q 048580 20 PSAVECYKNQL-GVSEEE--AVKALSLAVANSWKVINEELL 57 (108)
Q Consensus 20 ~s~v~cYMke~-g~s~Ee--A~~~i~~~ie~~wK~ln~e~l 57 (108)
-++..||++|- .+..|. .-..+.+.+...++.+|+-+-
T Consensus 56 ~sal~CF~~El~vvl~E~~~~~~~~~~~i~~~i~~~~~~l~ 96 (135)
T PF02372_consen 56 VSALKCFQKELKVVLKESNIDNSEINETIENLIKQINRNLS 96 (135)
T ss_dssp HHHHHHHHHHHHHHHHHCSTCHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHhhhcc
Confidence 37889999987 343333 344556666667777666554
No 53
>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=41.03 E-value=28 Score=27.86 Aligned_cols=24 Identities=17% Similarity=0.170 Sum_probs=20.7
Q ss_pred hhhhcC---CCCHHHHHHHHHHHHHHH
Q 048580 25 CYKNQL---GVSEEEAVKALSLAVANS 48 (108)
Q Consensus 25 cYMke~---g~s~EeA~~~i~~~ie~~ 48 (108)
-|+++. +.|+|||.+++.++|+++
T Consensus 311 ~~l~~rf~l~~se~eA~~~f~~lI~~s 337 (354)
T cd00895 311 KYVYDALRPQDTEADATTYFTRLIESS 337 (354)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 377764 789999999999999987
No 54
>PF15581 Imm35: Immunity protein 35
Probab=40.97 E-value=25 Score=22.86 Aligned_cols=31 Identities=23% Similarity=0.419 Sum_probs=20.7
Q ss_pred hhhhcCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 048580 25 CYKNQLGVSEEEAVKALSLAVANSWKVINEE 55 (108)
Q Consensus 25 cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e 55 (108)
.|..|.-=|.-..++-+..+||..||-|-++
T Consensus 19 sY~~q~~esa~~~i~~l~~lIe~eWRGl~~~ 49 (93)
T PF15581_consen 19 SYLRQGEESARRTIRNLESLIEHEWRGLPEE 49 (93)
T ss_pred HHHhcchhHHHHHHHHHHHHHHHHHcCCCHH
Confidence 4665554455556667788999999865544
No 55
>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=40.71 E-value=20 Score=23.70 Aligned_cols=28 Identities=21% Similarity=0.401 Sum_probs=21.5
Q ss_pred hcCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 048580 28 NQLGVSEEEAVKALSLAVANSWKVINEE 55 (108)
Q Consensus 28 ke~g~s~EeA~~~i~~~ie~~wK~ln~e 55 (108)
+.||+|...-.+.|+..|+.+|..=|.+
T Consensus 48 ~k~~TT~s~VERaIR~aI~~~w~~g~~~ 75 (106)
T PF08769_consen 48 KKYGTTPSRVERAIRHAIEVAWTRGNPE 75 (106)
T ss_dssp HHTTS-HHHHHHHHHHHHHHHHHCS-CC
T ss_pred HHHCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence 5789999888889999999999844443
No 56
>PRK13735 conjugal transfer mating pair stabilization protein TraG; Provisional
Probab=40.31 E-value=27 Score=31.58 Aligned_cols=31 Identities=29% Similarity=0.340 Sum_probs=25.9
Q ss_pred hcCCCcchhhhhhhcCCCCHHHHHHHHHHHH
Q 048580 15 KREHSPSAVECYKNQLGVSEEEAVKALSLAV 45 (108)
Q Consensus 15 ~rg~~~s~v~cYMke~g~s~EeA~~~i~~~i 45 (108)
.-.++.|+|+-|-|+||+|+|+|..++...-
T Consensus 586 ~~s~m~sav~~~ak~~~iS~~qa~~~l~~~s 616 (942)
T PRK13735 586 MASRMRSAVESYAKAHNISNEQATQELASRS 616 (942)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 3346778999999999999999999887554
No 57
>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=40.26 E-value=31 Score=27.76 Aligned_cols=26 Identities=31% Similarity=0.294 Sum_probs=21.8
Q ss_pred hhhhcC---CCCHHHHHHHHHHHHHHHHH
Q 048580 25 CYKNQL---GVSEEEAVKALSLAVANSWK 50 (108)
Q Consensus 25 cYMke~---g~s~EeA~~~i~~~ie~~wK 50 (108)
-|+++. +.|+|||.++++.+|+++-.
T Consensus 322 ~~lr~rf~l~~se~eA~~~f~~~I~~s~~ 350 (366)
T cd05165 322 EYLRDTLALGKSEEEALKYFLDKFNEALD 350 (366)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHHh
Confidence 478884 78999999999999988753
No 58
>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=40.26 E-value=30 Score=27.74 Aligned_cols=24 Identities=17% Similarity=0.178 Sum_probs=21.0
Q ss_pred hhhhcC---CCCHHHHHHHHHHHHHHH
Q 048580 25 CYKNQL---GVSEEEAVKALSLAVANS 48 (108)
Q Consensus 25 cYMke~---g~s~EeA~~~i~~~ie~~ 48 (108)
-|+++. +.|+|||.++++++|+++
T Consensus 310 ~~l~~r~~l~~sd~ea~~~f~~lI~~s 336 (353)
T cd05176 310 KYVYDALQPQTTDAEATIFFTRLIESS 336 (353)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 378874 789999999999999987
No 59
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=40.16 E-value=25 Score=23.12 Aligned_cols=24 Identities=17% Similarity=0.191 Sum_probs=18.3
Q ss_pred Ccchhhhh-hhcCCCCHHHHHHHHH
Q 048580 19 SPSAVECY-KNQLGVSEEEAVKALS 42 (108)
Q Consensus 19 ~~s~v~cY-Mke~g~s~EeA~~~i~ 42 (108)
.+..+-|| |...|.|.++|.+.++
T Consensus 92 S~~v~~~yl~~~~~~~~~~A~~~v~ 116 (138)
T smart00195 92 SATLIIAYLMKYRNLSLNDAYDFVK 116 (138)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 44556788 5567999999999885
No 60
>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=40.14 E-value=57 Score=25.76 Aligned_cols=77 Identities=9% Similarity=-0.043 Sum_probs=45.1
Q ss_pred hhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhh-----h-hhcccCCCCCCCchhHH
Q 048580 24 ECYKNQL-GVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSA-----D-FMYNDAQDRFTHSTMMK 96 (108)
Q Consensus 24 ~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~-----~-~~Y~~~~Dg~t~~~~~k 96 (108)
+.+++.+ +.|.+++++.+.+.|+.+.+.=.+-.+ .+...++.=.+.++.+++.+ + +... +.-|...|..+.
T Consensus 97 d~~~~~~~~~s~~e~l~~~~~~i~~ak~~g~~v~~-~~ed~~r~~~~~l~~~~~~~~~~Ga~~i~l~-DT~G~~~P~~v~ 174 (365)
T TIGR02660 97 DLQIEAKLRKDRAWVLERLARLVSFARDRGLFVSV-GGEDASRADPDFLVELAEVAAEAGADRFRFA-DTVGILDPFSTY 174 (365)
T ss_pred HHHHHHHhCcCHHHHHHHHHHHHHHHHhCCCEEEE-eecCCCCCCHHHHHHHHHHHHHcCcCEEEEc-ccCCCCCHHHHH
Confidence 4556665 889999999999999977653222223 22222222223333333322 2 3345 667888887777
Q ss_pred HHHHhh
Q 048580 97 DQVDLV 102 (108)
Q Consensus 97 ~~I~sl 102 (108)
+.|+.+
T Consensus 175 ~lv~~l 180 (365)
T TIGR02660 175 ELVRAL 180 (365)
T ss_pred HHHHHH
Confidence 777766
No 61
>PF13348 Y_phosphatase3C: Tyrosine phosphatase family C-terminal region; PDB: 1YWF_A 2OZ5_B.
Probab=40.12 E-value=35 Score=19.97 Aligned_cols=20 Identities=40% Similarity=0.589 Sum_probs=12.3
Q ss_pred hhhhhhcC-CCCHHHHHHHHHH
Q 048580 23 VECYKNQL-GVSEEEAVKALSL 43 (108)
Q Consensus 23 v~cYMke~-g~s~EeA~~~i~~ 43 (108)
++-|+++. |+|.++ ++.++.
T Consensus 45 ~e~Yl~~~lgl~~~~-i~~Lr~ 65 (68)
T PF13348_consen 45 VENYLREELGLSEED-IERLRE 65 (68)
T ss_dssp HHHHHHHT-T--HHH-HHHHHH
T ss_pred HHHHHHHcCCCCHHH-HHHHHH
Confidence 68899887 999866 444443
No 62
>COG2937 PlsB Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]
Probab=40.03 E-value=48 Score=29.30 Aligned_cols=37 Identities=22% Similarity=0.126 Sum_probs=32.2
Q ss_pred chhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHh
Q 048580 21 SAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELL 57 (108)
Q Consensus 21 s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l 57 (108)
.+|.-+-|..|+|.|+|.+...++..+.|.+..-+.+
T Consensus 227 ~aia~eak~~~is~EkA~k~a~~~a~eiaa~fS~~~v 263 (810)
T COG2937 227 KAIADEARSKGISVEKAQKMADELATEIAADFSYELI 263 (810)
T ss_pred HHHhhHhhccCCCHHHHHHHHHHHHHHHHHhccHHHH
Confidence 3567778888999999999999999999998887766
No 63
>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=39.97 E-value=15 Score=25.40 Aligned_cols=14 Identities=21% Similarity=-0.016 Sum_probs=11.7
Q ss_pred CCCcchhhhhhhcC
Q 048580 17 EHSPSAVECYKNQL 30 (108)
Q Consensus 17 g~~~s~v~cYMke~ 30 (108)
|.-+|+..|||||.
T Consensus 107 g~~~~~~~~~mKQK 120 (128)
T PF10249_consen 107 GAYGSARKALMKQK 120 (128)
T ss_pred CccccHHHHHHHHH
Confidence 55679999999985
No 64
>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=39.81 E-value=31 Score=27.67 Aligned_cols=25 Identities=28% Similarity=0.415 Sum_probs=19.7
Q ss_pred hhhhcC---CCCHHHHHHHHHHHHHHHH
Q 048580 25 CYKNQL---GVSEEEAVKALSLAVANSW 49 (108)
Q Consensus 25 cYMke~---g~s~EeA~~~i~~~ie~~w 49 (108)
-|+++. +.|+|||.++++.+|+++-
T Consensus 317 ~~l~~~~~l~~se~ea~~~f~~~i~~s~ 344 (361)
T cd05174 317 QYLKDSLALGKTEEEALKHFRVKFNEAL 344 (361)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 478885 7899999999888875543
No 65
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=39.65 E-value=62 Score=23.02 Aligned_cols=27 Identities=19% Similarity=0.208 Sum_probs=23.0
Q ss_pred hhhcCCCCHHHHHHHHHHHHHHHHHHH
Q 048580 26 YKNQLGVSEEEAVKALSLAVANSWKVI 52 (108)
Q Consensus 26 YMke~g~s~EeA~~~i~~~ie~~wK~l 52 (108)
-++.-|+|+||+.+.=++|...+.-.+
T Consensus 108 k~e~~Gi~eEEL~~qQqeLf~~ARar~ 134 (156)
T KOG0871|consen 108 KFEKSGIPEEELLRQQQELFAKARARL 134 (156)
T ss_pred hHHhcCCCHHHHHHHHHHHHHHHHHHH
Confidence 355679999999999999999999663
No 66
>KOG0904 consensus Phosphatidylinositol 3-kinase catalytic subunit (p110) [Signal transduction mechanisms]
Probab=38.29 E-value=32 Score=31.15 Aligned_cols=25 Identities=28% Similarity=0.395 Sum_probs=20.7
Q ss_pred hhhcC---CCCHHHHHHHHHHHHHHHHH
Q 048580 26 YKNQL---GVSEEEAVKALSLAVANSWK 50 (108)
Q Consensus 26 YMke~---g~s~EeA~~~i~~~ie~~wK 50 (108)
|+|+- |-|||||+++++...+++..
T Consensus 1034 ylrdtL~l~ktEEeA~k~F~~k~~eA~~ 1061 (1076)
T KOG0904|consen 1034 YLRDTLALGKTEEEALKYFRDKFEEALR 1061 (1076)
T ss_pred HHHHHHhcCCcHHHHHHHHHHHHHHHHh
Confidence 77774 77999999999999888753
No 67
>PRK04946 hypothetical protein; Provisional
Probab=38.19 E-value=46 Score=24.11 Aligned_cols=23 Identities=22% Similarity=0.237 Sum_probs=20.5
Q ss_pred cCCCCHHHHHHHHHHHHHHHHHH
Q 048580 29 QLGVSEEEAVKALSLAVANSWKV 51 (108)
Q Consensus 29 e~g~s~EeA~~~i~~~ie~~wK~ 51 (108)
=||.+.|||+..+...|.++.+.
T Consensus 100 LhG~~~eeA~~~L~~fl~~a~~~ 122 (181)
T PRK04946 100 LHGLTQLQAKQELGALIAACRKE 122 (181)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHc
Confidence 47999999999999999998863
No 68
>PRK11858 aksA trans-homoaconitate synthase; Reviewed
Probab=38.17 E-value=58 Score=25.89 Aligned_cols=77 Identities=12% Similarity=-0.000 Sum_probs=45.8
Q ss_pred hhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhcCC---CCCCHHHHHHHHHHHhh--h-hhhcccCCCCCCCchhHH
Q 048580 24 ECYKNQL-GVSEEEAVKALSLAVANSWKVINEELLLNP---TAIPLPLLQVIFDLSCS--A-DFMYNDAQDRFTHSTMMK 96 (108)
Q Consensus 24 ~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~---~~~p~~~~~~~~N~aR~--~-~~~Y~~~~Dg~t~~~~~k 96 (108)
+.+++.+ +.|.+++.+.+...++.+...=-+-++ .+ +..+..++..++..++- + .+.+. +.-|...|..+.
T Consensus 100 d~h~~~~~~~s~~~~l~~~~~~v~~a~~~G~~v~~-~~ed~~r~~~~~l~~~~~~~~~~Ga~~I~l~-DT~G~~~P~~v~ 177 (378)
T PRK11858 100 DIHIKHKLKKTREEVLERMVEAVEYAKDHGLYVSF-SAEDASRTDLDFLIEFAKAAEEAGADRVRFC-DTVGILDPFTMY 177 (378)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCeEEE-EeccCCCCCHHHHHHHHHHHHhCCCCEEEEe-ccCCCCCHHHHH
Confidence 5566666 899999999999999987643222223 22 12344443333333321 1 23345 667888887777
Q ss_pred HHHHhh
Q 048580 97 DQVDLV 102 (108)
Q Consensus 97 ~~I~sl 102 (108)
+.|+.+
T Consensus 178 ~lv~~l 183 (378)
T PRK11858 178 ELVKEL 183 (378)
T ss_pred HHHHHH
Confidence 777665
No 69
>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=37.98 E-value=34 Score=27.38 Aligned_cols=25 Identities=16% Similarity=0.097 Sum_probs=21.1
Q ss_pred hhhhcC---CCCHHHHHHHHHHHHHHHH
Q 048580 25 CYKNQL---GVSEEEAVKALSLAVANSW 49 (108)
Q Consensus 25 cYMke~---g~s~EeA~~~i~~~ie~~w 49 (108)
-|+++. +.|+|||.++++.+|+++-
T Consensus 311 ~~l~~~~~l~~sd~eA~~~f~~lI~~s~ 338 (354)
T cd05177 311 KYVYNNLRPQDTDLEATSYFTKKIKESL 338 (354)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 377774 7899999999999999874
No 70
>PF12668 DUF3791: Protein of unknown function (DUF3791); InterPro: IPR024269 This entry represents proteins of unknown function.
Probab=37.88 E-value=27 Score=20.48 Aligned_cols=23 Identities=26% Similarity=0.353 Sum_probs=18.2
Q ss_pred chhhhhhhcCCCCHHHHHHHHHH
Q 048580 21 SAVECYKNQLGVSEEEAVKALSL 43 (108)
Q Consensus 21 s~v~cYMke~g~s~EeA~~~i~~ 43 (108)
.+|+.|-+.+|+|.++|.+.+.+
T Consensus 6 ~~Ie~~A~~~~~s~~ea~~~~~~ 28 (62)
T PF12668_consen 6 FCIEEFAKKLNISGEEAYNYFKR 28 (62)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHH
Confidence 56788888889999998877753
No 71
>cd07018 S49_SppA_67K_type Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 67K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily contain an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown that members in this subfamily, mostly bacterial, are serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys
Probab=37.69 E-value=90 Score=22.69 Aligned_cols=41 Identities=15% Similarity=0.259 Sum_probs=31.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHH
Q 048580 31 GVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFD 73 (108)
Q Consensus 31 g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N 73 (108)
..|+ ++++.++.++++.|...-+.+- +.+.++...++.+.+
T Consensus 152 ~~s~-~~r~~~~~~l~~~~~~f~~~Va-~~R~~~~~~~~~~~~ 192 (222)
T cd07018 152 DMSP-EAREQTQALLDSLWDQYLADVA-ASRGLSPDALEALID 192 (222)
T ss_pred cCCH-HHHHHHHHHHHHHHHHHHHHHH-HHcCCCHHHHHHHHH
Confidence 3444 5688999999999999998888 667777776665554
No 72
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=37.68 E-value=36 Score=26.31 Aligned_cols=36 Identities=33% Similarity=0.482 Sum_probs=26.5
Q ss_pred hhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCC
Q 048580 24 ECYKNQL-GVSEEEAVKALSLAVANSWKVINEELLLNPTAIP 64 (108)
Q Consensus 24 ~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p 64 (108)
+.|..++ |.|+|||++.... -|..+|+.-+ .....|
T Consensus 230 ~s~~~~~~~~~~~ea~~~~~~----~w~~~~~~nl-~~~I~P 266 (290)
T TIGR00554 230 DSYFHNYAKLSKEEAIKTAMT----IWKEINWLNL-KQNILP 266 (290)
T ss_pred chhhhhhccCCHHHHHHHHHH----HHHHcchhhH-HhhCCC
Confidence 4578888 9999999976654 4999998777 433344
No 73
>PHA02676 A-type inclusion protein; Provisional
Probab=37.29 E-value=52 Score=27.72 Aligned_cols=42 Identities=21% Similarity=0.201 Sum_probs=33.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhh
Q 048580 33 SEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSA 78 (108)
Q Consensus 33 s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~ 78 (108)
|.|.-+++++.||++.|..-.. +.+.+|+.-.+++=|+-|-.
T Consensus 3 ~~eklV~~FkslV~~tW~~~Ln----~~sCIpR~~RKiIRnVlR~Y 44 (520)
T PHA02676 3 SMESLVAEFKSLVQRHWHHPLN----SVSCIPREDRKLIRDILREY 44 (520)
T ss_pred cHHHHHHHHHHHHHHhcCCccc----ccccccHHHHHHHHHHHHHH
Confidence 5678899999999999974332 34569999999999999853
No 74
>PF01807 zf-CHC2: CHC2 zinc finger; InterPro: IPR002694 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents CycHisCysCys (CHC2) type zinc finger domains, which are found in bacteria and viruses. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0003896 DNA primase activity, 0008270 zinc ion binding, 0006260 DNA replication; PDB: 1D0Q_B 2AU3_A.
Probab=37.01 E-value=31 Score=22.06 Aligned_cols=27 Identities=26% Similarity=0.196 Sum_probs=19.2
Q ss_pred CcchhhhhhhcCCCCHHHHHHHHHHHH
Q 048580 19 SPSAVECYKNQLGVSEEEAVKALSLAV 45 (108)
Q Consensus 19 ~~s~v~cYMke~g~s~EeA~~~i~~~i 45 (108)
-+++|+.+|+-+|+|-.||++.+.+..
T Consensus 63 ~Gd~i~~v~~~~~~~f~eAv~~l~~~~ 89 (97)
T PF01807_consen 63 GGDVIDFVMKYEGCSFKEAVKWLAEEF 89 (97)
T ss_dssp EE-HHHHHHHHHT--HHHHHHHHHHHH
T ss_pred CCcHHhHHHHHhCCCHHHHHHHHHHHh
Confidence 346788888888999999998887654
No 75
>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=36.82 E-value=94 Score=18.72 Aligned_cols=59 Identities=8% Similarity=0.174 Sum_probs=35.0
Q ss_pred hhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhc--C-----CCCCCHHHHHHHHHHHhhhhhhcccCCCCC
Q 048580 27 KNQL-GVSEEEAVKALSLAVANSWKVINEELLL--N-----PTAIPLPLLQVIFDLSCSADFMYNDAQDRF 89 (108)
Q Consensus 27 Mke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~--~-----~~~~p~~~~~~~~N~aR~~~~~Y~~~~Dg~ 89 (108)
+|+| ++..++-=..|+.+|..+...+-..+-. . ...+|..++..++-++- .+|. +..+.
T Consensus 5 ~K~~Lrid~d~dD~~i~~li~aA~~~i~~~~g~~~~~~~~~~~~~~~~~~~Ail~l~~---~~Y~-nR~~~ 71 (91)
T cd08054 5 AKAHLRIDHDDDDALIELLIDAAEEYIENYTGRDLDEQTADAEEVPALIKLAVLLLVA---HLYE-NREAV 71 (91)
T ss_pred HHhHcCCCCCCCHHHHHHHHHHHHHHHHHHhCCchhhcCCccccCCHHHHHHHHHHHH---HHHh-Cccch
Confidence 4666 6543333455677777776655443320 1 23688889888887764 4687 66554
No 76
>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=36.23 E-value=93 Score=19.71 Aligned_cols=42 Identities=10% Similarity=0.189 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCH----HHHHHHHHHH
Q 048580 32 VSEEEAVKALSLAVANSWKVINEELLLNPTAIPL----PLLQVIFDLS 75 (108)
Q Consensus 32 ~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~----~~~~~~~N~a 75 (108)
+|+++|-.-++..+....+.+++..- . .++|. .++.+++|+.
T Consensus 19 it~~qa~~ll~~d~~~~~~~v~~~~~-~-~~l~~~~~dal~s~~yN~G 64 (110)
T PF00959_consen 19 ITEAQADELLQKDLQKAEAAVRRYVP-V-DDLNQNQFDALVSFAYNVG 64 (110)
T ss_dssp TEHHHHHHHHHHHHHHHHHHHHHHTT-S-HHSSHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHHHHHHHhhhcc-c-CCcCHHHHHHHHhcccccC
Confidence 89999999999999988877766443 2 24664 4666666664
No 77
>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=35.54 E-value=64 Score=21.34 Aligned_cols=23 Identities=30% Similarity=0.501 Sum_probs=18.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHhHh
Q 048580 33 SEEEAVKALSLAVANSWKVINEE 55 (108)
Q Consensus 33 s~EeA~~~i~~~ie~~wK~ln~e 55 (108)
..++..+++++.+.+.|+++-+.
T Consensus 94 ~~~~~~~~~k~~~~~~w~~i~~~ 116 (117)
T PF12469_consen 94 EAEELAEEAKEAIREAWKEIAEK 116 (117)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 46888999999999999998764
No 78
>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=35.38 E-value=79 Score=23.48 Aligned_cols=79 Identities=8% Similarity=-0.079 Sum_probs=44.9
Q ss_pred hhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCC---CCCHHHHHHHHHHHh--hhhhhcccCCCCCCCchhHHH
Q 048580 24 ECYKNQL-GVSEEEAVKALSLAVANSWKVINEELLLNPT---AIPLPLLQVIFDLSC--SADFMYNDAQDRFTHSTMMKD 97 (108)
Q Consensus 24 ~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~---~~p~~~~~~~~N~aR--~~~~~Y~~~~Dg~t~~~~~k~ 97 (108)
+.+++.+ +.|.+++.+.+..+++.+.+.=-+-.+ .+. ..+...+.-++..+. .++.+|--+.-|.-.|..+.+
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~i~~a~~~G~~v~~-~~~~~~~~~~~~~~~~~~~~~~~G~~~i~l~DT~G~~~P~~v~~ 172 (259)
T cd07939 94 DIHLAHKLGKDRAWVLDQLRRLVGRAKDRGLFVSV-GAEDASRADPDFLIEFAEVAQEAGADRLRFADTVGILDPFTTYE 172 (259)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCeEEE-eeccCCCCCHHHHHHHHHHHHHCCCCEEEeCCCCCCCCHHHHHH
Confidence 4455555 889999999999999987763222223 221 233332222222211 133445316678778877777
Q ss_pred HHHhhh
Q 048580 98 QVDLVL 103 (108)
Q Consensus 98 ~I~sll 103 (108)
.|..+.
T Consensus 173 lv~~l~ 178 (259)
T cd07939 173 LIRRLR 178 (259)
T ss_pred HHHHHH
Confidence 777664
No 79
>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=35.32 E-value=39 Score=18.47 Aligned_cols=18 Identities=28% Similarity=0.195 Sum_probs=14.6
Q ss_pred CCCCHHHHHHHHHHHHHH
Q 048580 30 LGVSEEEAVKALSLAVAN 47 (108)
Q Consensus 30 ~g~s~EeA~~~i~~~ie~ 47 (108)
.|-|.|||++.+++.++.
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 367999999999888763
No 80
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.25 E-value=23 Score=23.27 Aligned_cols=23 Identities=17% Similarity=0.286 Sum_probs=21.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhH
Q 048580 32 VSEEEAVKALSLAVANSWKVINE 54 (108)
Q Consensus 32 ~s~EeA~~~i~~~ie~~wK~ln~ 54 (108)
+|+++|++.+..|--..||..++
T Consensus 63 lskd~aRE~VyGMpy~eWka~~Q 85 (104)
T COG3492 63 LSKDQAREIVYGMPYAEWKAQHQ 85 (104)
T ss_pred ccHHHHHHHHhCCCHHHHHHhcC
Confidence 69999999999999999998775
No 81
>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=34.63 E-value=41 Score=26.81 Aligned_cols=25 Identities=16% Similarity=0.242 Sum_probs=21.0
Q ss_pred hhhhcC---CCCHHHHHHHHHHHHHHHH
Q 048580 25 CYKNQL---GVSEEEAVKALSLAVANSW 49 (108)
Q Consensus 25 cYMke~---g~s~EeA~~~i~~~ie~~w 49 (108)
-|+++. +.|++||.+++.++|+++-
T Consensus 310 ~~l~~r~~l~~s~~ea~~~~~~~I~~s~ 337 (353)
T cd05166 310 KYVRDALRPQLTDAEATIQFTKMIQSSL 337 (353)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 377774 7899999999999998864
No 82
>PRK05225 ketol-acid reductoisomerase; Validated
Probab=33.99 E-value=1.1e+02 Score=25.78 Aligned_cols=29 Identities=24% Similarity=0.502 Sum_probs=21.6
Q ss_pred hhhh--hhcCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 048580 23 VECY--KNQLGVSEEEAVKALSLAVANSWKVINEE 55 (108)
Q Consensus 23 v~cY--Mke~g~s~EeA~~~i~~~ie~~wK~ln~e 55 (108)
+.|| |.+.|.+.|+|...++. .|+.|.+.
T Consensus 233 ~~~Fe~lve~G~~pe~A~k~~~~----~~E~I~e~ 263 (487)
T PRK05225 233 LLCFDKLVAEGTDPAYAEKLIQF----GWETITEA 263 (487)
T ss_pred HHHHHHHHHcCCCHHHHHHHHhh----hHHHHHHH
Confidence 4566 67889999999977654 58777643
No 83
>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=33.92 E-value=55 Score=19.74 Aligned_cols=19 Identities=5% Similarity=0.270 Sum_probs=14.3
Q ss_pred CCHHHHHHHHHHHHHHHHHH
Q 048580 32 VSEEEAVKALSLAVANSWKV 51 (108)
Q Consensus 32 ~s~EeA~~~i~~~ie~~wK~ 51 (108)
...++ ++.|.+++++.|.+
T Consensus 41 ~~~~~-k~~i~~iLqe~we~ 59 (65)
T PF06183_consen 41 GKKDD-KERIEEILQEMWED 59 (65)
T ss_dssp --HHH-HHHHHHHHHHHHHT
T ss_pred cCchH-HHHHHHHHHHHHhc
Confidence 34455 99999999999964
No 84
>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=33.74 E-value=97 Score=23.14 Aligned_cols=75 Identities=8% Similarity=-0.010 Sum_probs=44.7
Q ss_pred hhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhh-----hhh-cccCCCCCCCchhHHHH
Q 048580 26 YKNQL-GVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSA-----DFM-YNDAQDRFTHSTMMKDQ 98 (108)
Q Consensus 26 YMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~-----~~~-Y~~~~Dg~t~~~~~k~~ 98 (108)
.++.+ +.|.+++.+.+...++.+-+.=.+-++ .+...++.=.+.+.++++-+ +-+ .. +.-|.-.|..+.+.
T Consensus 100 ~~~~~~~~~~~~~~~~~~~~i~~a~~~G~~v~~-~~~~~~~~~~~~~~~~~~~~~~~G~~~i~l~-DT~G~~~P~~v~~l 177 (268)
T cd07940 100 HLKYKLKKTREEVLERAVEAVEYAKSHGLDVEF-SAEDATRTDLDFLIEVVEAAIEAGATTINIP-DTVGYLTPEEFGEL 177 (268)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHHHHHcCCeEEE-eeecCCCCCHHHHHHHHHHHHHcCCCEEEEC-CCCCCCCHHHHHHH
Confidence 44554 889999999999999988764333344 33223322233333333332 233 45 66777778777777
Q ss_pred HHhh
Q 048580 99 VDLV 102 (108)
Q Consensus 99 I~sl 102 (108)
++.+
T Consensus 178 v~~l 181 (268)
T cd07940 178 IKKL 181 (268)
T ss_pred HHHH
Confidence 7665
No 85
>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=33.46 E-value=44 Score=26.58 Aligned_cols=28 Identities=25% Similarity=0.335 Sum_probs=23.0
Q ss_pred hhhhhhhcC---CCCHHHHHHHHHHHHHHHHH
Q 048580 22 AVECYKNQL---GVSEEEAVKALSLAVANSWK 50 (108)
Q Consensus 22 ~v~cYMke~---g~s~EeA~~~i~~~ie~~wK 50 (108)
.|. ||++. +.|+++|..++..+|+++-.
T Consensus 307 ~i~-~l~~r~~l~~s~~~a~~~~~~lI~~s~~ 337 (352)
T cd00891 307 DIE-YLRDALALDKSDEEATEYFRKLIHESLN 337 (352)
T ss_pred HHH-HHHHHhCCCCCHHHHHHHHHHHHHHHHh
Confidence 454 88885 78999999999999998754
No 86
>PF13904 DUF4207: Domain of unknown function (DUF4207)
Probab=33.44 E-value=69 Score=24.33 Aligned_cols=14 Identities=14% Similarity=0.420 Sum_probs=10.4
Q ss_pred HHHHHHhhhcccCC
Q 048580 95 MKDQVDLVLRDPIS 108 (108)
Q Consensus 95 ~k~~I~sll~~Pi~ 108 (108)
|.++|.-+|++|+|
T Consensus 250 Lrgt~s~~y~NP~p 263 (264)
T PF13904_consen 250 LRGTYSPIYINPIP 263 (264)
T ss_pred ccCcCCccccCCCC
Confidence 45556678999987
No 87
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately.S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=32.92 E-value=90 Score=19.52 Aligned_cols=39 Identities=18% Similarity=0.112 Sum_probs=22.6
Q ss_pred CHHHHHHHHHHHhhhhhhcccCCCCCCCc-hhHHHHHHhh
Q 048580 64 PLPLLQVIFDLSCSADFMYNDAQDRFTHS-TMMKDQVDLV 102 (108)
Q Consensus 64 p~~~~~~~~N~aR~~~~~Y~~~~Dg~t~~-~~~k~~I~sl 102 (108)
|.++=..+-.+.++.+.+=..++||++.+ .+++..+.+.
T Consensus 2 ~~~le~a~~~~~~~F~~~dd~dgdg~~Is~~EL~~ll~~~ 41 (93)
T cd05026 2 PTQLEGAMDTLIRIFHNYSGKEGDRYKLSKGELKELLQRE 41 (93)
T ss_pred CcHHHHHHHHHHHHHHHHHccCCCCCEECHHHHHHHHHHH
Confidence 33444445555555554331157787666 7888887664
No 88
>cd07922 CarBa CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. 2-aminophenol 1,6-dioxygenase is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB 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. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, the enzyme has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=32.87 E-value=43 Score=21.21 Aligned_cols=30 Identities=7% Similarity=0.103 Sum_probs=22.5
Q ss_pred hhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHh
Q 048580 24 ECYKNQLGVSEEEAVKALSLAVANSWKVINEELL 57 (108)
Q Consensus 24 ~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l 57 (108)
++.|+++|.|+|| ..-+.+--|..|..--.
T Consensus 28 ea~~~~~gLt~eE----~~aL~~~D~~~L~~lGv 57 (81)
T cd07922 28 SAVFEEYGLTPAE----RAALREGTFGALTSIGV 57 (81)
T ss_pred HHHHHHcCCCHHH----HHHHHccCHHHHHHcCC
Confidence 6778999999887 44566678888876544
No 89
>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=32.07 E-value=60 Score=18.54 Aligned_cols=18 Identities=39% Similarity=0.606 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHhHh
Q 048580 38 VKALSLAVANSWKVINEE 55 (108)
Q Consensus 38 ~~~i~~~ie~~wK~ln~e 55 (108)
...|..++...|+.|-.+
T Consensus 28 ~~~i~~~~~~~W~~l~~~ 45 (69)
T PF00505_consen 28 NKEISKILAQMWKNLSEE 45 (69)
T ss_dssp HHHHHHHHHHHHHCSHHH
T ss_pred cccchhhHHHHHhcCCHH
Confidence 556778888899876544
No 90
>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=31.99 E-value=15 Score=25.78 Aligned_cols=49 Identities=12% Similarity=0.249 Sum_probs=0.0
Q ss_pred hhcCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHH
Q 048580 14 QKREHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQV 70 (108)
Q Consensus 14 ~~rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~ 70 (108)
++.+.+..+|+ +|.+|+.|.|+. +.|.++. .|..... .+ ..+|..++..
T Consensus 100 ~~~~~v~~vi~-~Md~Y~Ltred~-d~i~el~--~~~~~~~-~~---~~i~tkvKaa 148 (155)
T PF08519_consen 100 QGKDGVDEVID-LMDEYGLTREDW-DNIMELS--KWPGKED-PL---KKIDTKVKAA 148 (155)
T ss_dssp ---------------------------------------------------------
T ss_pred cCcccHHHHHH-HHHHhCCCHHHH-HHHHHhc--cCCCCcc-cc---cCCcHHHHHH
Confidence 33335667775 899999999998 8888887 4554221 11 2366555544
No 91
>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=31.94 E-value=59 Score=21.03 Aligned_cols=23 Identities=30% Similarity=0.326 Sum_probs=16.9
Q ss_pred hhhhh-hhcCCCCHHHHHHHHHHH
Q 048580 22 AVECY-KNQLGVSEEEAVKALSLA 44 (108)
Q Consensus 22 ~v~cY-Mke~g~s~EeA~~~i~~~ 44 (108)
.+-+| |+..+.+.++|.+++++.
T Consensus 98 ~~~~~l~~~~~~~~~~a~~~vr~~ 121 (139)
T cd00127 98 LVIAYLMKTLGLSLREAYEFVKSR 121 (139)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHH
Confidence 33445 667799999999988663
No 92
>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=31.49 E-value=53 Score=25.85 Aligned_cols=37 Identities=14% Similarity=0.055 Sum_probs=25.2
Q ss_pred chhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHh
Q 048580 21 SAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELL 57 (108)
Q Consensus 21 s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l 57 (108)
..-+-||++||+|.|+-=+---+.-.++|+-.|...+
T Consensus 154 ~~a~~~~~~yg~tre~la~vav~~~~~a~~~~~~~~~ 190 (386)
T cd00751 154 ITAENVAEKYGISREEQDEFALRSHQRAAAAQEAGRF 190 (386)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 4468899999999876444444455567776665555
No 93
>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=31.11 E-value=86 Score=21.27 Aligned_cols=29 Identities=28% Similarity=0.299 Sum_probs=22.7
Q ss_pred hhhcCCCCHHHHHHHHHHHHHHHHHHHhH
Q 048580 26 YKNQLGVSEEEAVKALSLAVANSWKVINE 54 (108)
Q Consensus 26 YMke~g~s~EeA~~~i~~~ie~~wK~ln~ 54 (108)
++++.|++.++|.+.+.-+++.+.+.+.+
T Consensus 59 ll~~~gi~~~~a~~~L~PLi~~t~~n~~~ 87 (132)
T PF10728_consen 59 LLEQAGIDFEEALEALLPLIRETLENILQ 87 (132)
T ss_dssp HHHHTT-SHHH--HHHHHHHHHHHHHHHH
T ss_pred HHHHcCCCchhHHHHHHHHHHHHHHHHHh
Confidence 45678999999999999999999998865
No 94
>PRK00915 2-isopropylmalate synthase; Validated
Probab=30.34 E-value=1.1e+02 Score=25.49 Aligned_cols=79 Identities=11% Similarity=0.084 Sum_probs=48.4
Q ss_pred hhhhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCC---CCCHHHHHHHHHHHhh--hh-hhcccCCCCCCCchh
Q 048580 22 AVECYKNQL-GVSEEEAVKALSLAVANSWKVINEELLLNPT---AIPLPLLQVIFDLSCS--AD-FMYNDAQDRFTHSTM 94 (108)
Q Consensus 22 ~v~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~---~~p~~~~~~~~N~aR~--~~-~~Y~~~~Dg~t~~~~ 94 (108)
+-+.+++.. +.|.+++++.+.+.++.+.+.=.+-.+ .+- ..+..++..++..+.= ++ +... +.-|+..|..
T Consensus 102 ~Sd~h~~~~l~~s~~e~l~~~~~~v~~ak~~g~~v~f-~~ed~~r~d~~~l~~~~~~~~~~Ga~~i~l~-DTvG~~~P~~ 179 (513)
T PRK00915 102 TSPIHMEYKLKMSREEVLEMAVEAVKYARSYTDDVEF-SAEDATRTDLDFLCRVVEAAIDAGATTINIP-DTVGYTTPEE 179 (513)
T ss_pred CcHHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCeEEE-EeCCCCCCCHHHHHHHHHHHHHcCCCEEEEc-cCCCCCCHHH
Confidence 335566666 899999999999999988654333334 331 2333333333332211 22 3345 7789999977
Q ss_pred HHHHHHhh
Q 048580 95 MKDQVDLV 102 (108)
Q Consensus 95 ~k~~I~sl 102 (108)
+.+.|+.+
T Consensus 180 ~~~~i~~l 187 (513)
T PRK00915 180 FGELIKTL 187 (513)
T ss_pred HHHHHHHH
Confidence 88887776
No 95
>PHA03369 capsid maturational protease; Provisional
Probab=29.99 E-value=84 Score=27.24 Aligned_cols=22 Identities=18% Similarity=0.226 Sum_probs=17.7
Q ss_pred HHHHHHHHHHhhhhhhcccCCCC
Q 048580 66 PLLQVIFDLSCSADFMYNDAQDR 88 (108)
Q Consensus 66 ~~~~~~~N~aR~~~~~Y~~~~Dg 88 (108)
.+.+.+.|+.|++..+|+ +.|+
T Consensus 300 ~~~~ql~~~~k~l~~~~~-~kde 321 (663)
T PHA03369 300 ALADQLNNLYKLLRTIYK-HKDE 321 (663)
T ss_pred HHHHHHHHHHHHHHHhcc-Cccc
Confidence 344578889999999999 7776
No 96
>PF06086 Pox_A30L_A26L: Orthopoxvirus A26L/A30L protein; InterPro: IPR009285 This family consists of several Orthopoxvirus A26L and A30L proteins. The Vaccinia A30L gene is regulated by a late promoter and encodes a protein of approximately 9 kDa. It is thought that the A30L protein is needed for vaccinia virus morphogenesis, specifically the association of the dense viroplasm with viral membranes [].
Probab=29.98 E-value=1.1e+02 Score=23.07 Aligned_cols=42 Identities=12% Similarity=0.140 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhhhhhcc
Q 048580 38 VKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSADFMYN 83 (108)
Q Consensus 38 ~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~~~~Y~ 83 (108)
+.+++.+|++.|..-.. +.+.+|+.-.+++=|+-|-.-.-+.
T Consensus 23 I~~F~slV~~~W~~~L~----~~sCI~R~~RKiIRnViR~ym~s~p 64 (220)
T PF06086_consen 23 IREFKSLVSETWNKPLN----ENSCIPREDRKIIRNVIREYMKSAP 64 (220)
T ss_pred HHHHHHHHHHhcCCccc----cccccCHHHHHHHHHHHHHHHHhCC
Confidence 77899999999974332 4456999999999999997555554
No 97
>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=29.93 E-value=56 Score=25.65 Aligned_cols=24 Identities=29% Similarity=0.225 Sum_probs=19.8
Q ss_pred hhhcC---CCCHHHHHHHHHHHHHHHH
Q 048580 26 YKNQL---GVSEEEAVKALSLAVANSW 49 (108)
Q Consensus 26 YMke~---g~s~EeA~~~i~~~ie~~w 49 (108)
|+++. +.|+++|.+++..+|+++-
T Consensus 266 ~l~~rf~l~~se~~a~~~~~~lI~~s~ 292 (311)
T cd05167 266 NLRQRFAPEKSEREAAEFMLSLIAESY 292 (311)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 56663 7899999999999998864
No 98
>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=29.71 E-value=59 Score=25.21 Aligned_cols=25 Identities=20% Similarity=0.278 Sum_probs=20.8
Q ss_pred hhhhcC---CCCHHHHHHHHHHHHHHHH
Q 048580 25 CYKNQL---GVSEEEAVKALSLAVANSW 49 (108)
Q Consensus 25 cYMke~---g~s~EeA~~~i~~~ie~~w 49 (108)
-|+++. +.|+++|.+++..+|+++-
T Consensus 243 ~~l~~r~~l~~s~~~a~~~~~~lI~~s~ 270 (289)
T cd00893 243 KKLKERLCLNMSEKEAINTVMKKIDSSY 270 (289)
T ss_pred HHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 367764 6899999999999999874
No 99
>PF05341 DUF708: Protein of unknown function (DUF708); InterPro: IPR008005 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf68; it is a family of uncharacterised viral proteins.
Probab=29.44 E-value=70 Score=21.35 Aligned_cols=35 Identities=23% Similarity=0.388 Sum_probs=23.8
Q ss_pred HHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhhhhhcc
Q 048580 46 ANSWKVINEELLLNPTAIPLPLLQVIFDLSCSADFMYN 83 (108)
Q Consensus 46 e~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~~~~Y~ 83 (108)
|.|||+|-=..+ ..+ |..--+..++-|-+-+|=|+
T Consensus 20 e~AWkdLii~~l-~~t--P~~tyRt~l~ka~~EnFDYk 54 (105)
T PF05341_consen 20 EHAWKDLIILLL-RNT--PRSTYRTMLRKANFENFDYK 54 (105)
T ss_pred HHHHHHHHHHHH-hcC--cHHHHHhhhhhhhhhccCCC
Confidence 579999998888 554 55444466777766666564
No 100
>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=29.33 E-value=1.4e+02 Score=20.37 Aligned_cols=26 Identities=15% Similarity=0.133 Sum_probs=14.8
Q ss_pred CHHHHHHHHHHHhhhhhhcccCCCCCC
Q 048580 64 PLPLLQVIFDLSCSADFMYNDAQDRFT 90 (108)
Q Consensus 64 p~~~~~~~~N~aR~~~~~Y~~~~Dg~t 90 (108)
|+.|..+..=+--+.+|||. +|+|-.
T Consensus 81 ~~q~~~l~~~L~~L~~FFhA-~G~Gl~ 106 (137)
T PF10540_consen 81 PKQCDRLFKWLDTLKDFFHA-EGNGLP 106 (137)
T ss_dssp -TCHHHHHHHHHHHHHHHHC-CCTS--
T ss_pred HHHHHHHHHHHHHHHHHHhC-CCCCCC
Confidence 33344444444445799999 999854
No 101
>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=29.00 E-value=62 Score=25.61 Aligned_cols=43 Identities=21% Similarity=0.264 Sum_probs=24.1
Q ss_pred hhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCH
Q 048580 22 AVECYKNQLGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPL 65 (108)
Q Consensus 22 ~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~ 65 (108)
.-+-||++||+|.|+-=+--.+.=..+.+-.|...+ +...+|.
T Consensus 156 ~a~~y~~~yG~t~e~la~vav~~~~~A~~n~~~g~~-~~~i~P~ 198 (386)
T TIGR01930 156 TAENLAKKYGISREEQDEYALRSHQRAAKAWEEGLF-KDEIVPV 198 (386)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHcCCC-CCeEEEE
Confidence 356799999999875333333333444444444455 4434453
No 102
>PF01458 UPF0051: Uncharacterized protein family (UPF0051); InterPro: IPR000825 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents SufB and SufD proteins that form part of the SufBCD complex in the SUF system. No specific functions have been assigned to these proteins.; GO: 0016226 iron-sulfur cluster assembly; PDB: 1VH4_B 2ZU0_A 4DN7_A.
Probab=28.74 E-value=43 Score=24.44 Aligned_cols=25 Identities=32% Similarity=0.283 Sum_probs=16.2
Q ss_pred CCCcchhhhhhhcCCCCHHHHHHHH
Q 048580 17 EHSPSAVECYKNQLGVSEEEAVKAL 41 (108)
Q Consensus 17 g~~~s~v~cYMke~g~s~EeA~~~i 41 (108)
|++.-=--.||...|++++||++-|
T Consensus 201 G~idee~LFYL~SRGl~~~eA~~Li 225 (229)
T PF01458_consen 201 GQIDEEQLFYLMSRGLSEEEARKLI 225 (229)
T ss_dssp EES-HHHHHHHHCTT--HHHHHHHH
T ss_pred ecCCHHHHHHHHHcCCCHHHHHHHH
Confidence 3333334579999999999999755
No 103
>TIGR03465 HpnD squalene synthase HpnD. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnC gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=28.50 E-value=2.5e+02 Score=20.85 Aligned_cols=41 Identities=10% Similarity=-0.044 Sum_probs=26.4
Q ss_pred hhcCCCCHH---------HHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHH
Q 048580 27 KNQLGVSEE---------EAVKALSLAVANSWKVINEELLLNPTAIPLPLL 68 (108)
Q Consensus 27 Mke~g~s~E---------eA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~ 68 (108)
|.++|+|+| ....-++.+++.+..-+.+..- --..+|....
T Consensus 171 l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~-~~~~~p~~~~ 220 (266)
T TIGR03465 171 LQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADA-LLPACDRRAQ 220 (266)
T ss_pred HHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHH-hhhhCCHhhh
Confidence 467888876 4566677888888877666543 2235775443
No 104
>PF11613 UCN2: Agonist of corticotropin releasing factor R2, Urocortin-2; InterPro: IPR024270 This entry represents urocortin II and III, which are members of the corticotropin-releasing factor (CRF) family of neuropeptides. Urocortin II and III are secreted peptides and bind with high affinity to CRF receptors 2-alpha and 2-beta. They are involved in the suppression of food intake, the delay of gastric emptying, and may represent endogenous ligands for maintaining homeostasis after stress. Their backbone is mainly alpha-helical, but contains a helix-loop-helix motif [].; GO: 0051431 corticotropin-releasing hormone receptor 2 binding, 0006950 response to stress, 0007586 digestion, 0005615 extracellular space; PDB: 2RMH_A 3N93_C 3N95_F 2RMG_A.
Probab=28.44 E-value=42 Score=18.28 Aligned_cols=17 Identities=12% Similarity=0.616 Sum_probs=15.0
Q ss_pred CCCHHHHHHHHHHHhhh
Q 048580 62 AIPLPLLQVIFDLSCSA 78 (108)
Q Consensus 62 ~~p~~~~~~~~N~aR~~ 78 (108)
.+|..++++.+|.||.=
T Consensus 6 DVPt~im~iL~~~Akak 22 (38)
T PF11613_consen 6 DVPTNIMNILFNIAKAK 22 (38)
T ss_dssp STTHHHHHHHHHCCHHH
T ss_pred cCchhHHHHHHHHHHHH
Confidence 59999999999999863
No 105
>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=28.12 E-value=74 Score=20.79 Aligned_cols=27 Identities=26% Similarity=0.423 Sum_probs=18.4
Q ss_pred hhhhhcCCCCHHHHHHHHHHHHHHHHHHHhH
Q 048580 24 ECYKNQLGVSEEEAVKALSLAVANSWKVINE 54 (108)
Q Consensus 24 ~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~ 54 (108)
+.||.++|.|+||.- -+.+--|..|.+
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 679999999998743 344445655543
No 106
>PHA02593 62 clamp loader small subunit; Provisional
Probab=27.76 E-value=69 Score=23.60 Aligned_cols=32 Identities=13% Similarity=0.220 Sum_probs=23.7
Q ss_pred hhhhhhcCCCCHHHHHHHHHHHHHHH-----HHHHhH
Q 048580 23 VECYKNQLGVSEEEAVKALSLAVANS-----WKVINE 54 (108)
Q Consensus 23 v~cYMke~g~s~EeA~~~i~~~ie~~-----wK~ln~ 54 (108)
|..-|+-||++.+.|++.++-+-.+. ||.+..
T Consensus 128 i~ll~~~Y~vn~~kA~eyl~iltk~~~l~~~lk~~k~ 164 (191)
T PHA02593 128 IKLLAKAYSVNTDDAREYLDILKKKGKLPDVLKRLKG 164 (191)
T ss_pred HHHHHHHhCCCHHHHHHHHHHhccccchHHHHHHHHH
Confidence 34444556999999999998887666 776654
No 107
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=27.50 E-value=1.8e+02 Score=25.13 Aligned_cols=64 Identities=20% Similarity=0.294 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhhhhhcccCCCCCCCc--hhHHHHHHhhhc
Q 048580 34 EEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSADFMYNDAQDRFTHS--TMMKDQVDLVLR 104 (108)
Q Consensus 34 ~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~~~~Y~~~~Dg~t~~--~~~k~~I~sll~ 104 (108)
+++=...+.......|++|++..- ..|..|+++.-+..+.-.- . ..+..|.. ..|.+.|..++.
T Consensus 391 e~eeL~~l~~~~g~~W~~Ig~~lg----r~P~~crd~wr~~~~~g~~--~-~r~~Ws~eEe~~Llk~V~~~~~ 456 (607)
T KOG0051|consen 391 EEEELKKLVVEHGNDWKEIGKALG----RMPMDCRDRWRQYVKCGSK--R-NRGAWSIEEEEKLLKTVNEMIR 456 (607)
T ss_pred hHHHHHHHHHHhcccHHHHHHHHc----cCcHHHHHHHHHhhccccc--c-ccCcchHHHHHHHHHHHHHHHH
Confidence 455567788888999999998554 4799999998887765322 2 44677765 567777776654
No 108
>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=27.43 E-value=61 Score=19.98 Aligned_cols=45 Identities=9% Similarity=-0.006 Sum_probs=30.5
Q ss_pred CCCCCCchHHhhhcCC--CcchhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 048580 3 SGGGRVPPQFEQKREH--SPSAVECYKNQLGVSEEEAVKALSLAVANS 48 (108)
Q Consensus 3 ~~nDi~s~~~E~~rg~--~~s~v~cYMke~g~s~EeA~~~i~~~ie~~ 48 (108)
..|+++++=-+.-.|. +...++-.+.+|++ .+.|.+.+..+++..
T Consensus 28 ~Ln~~g~~Iw~lldg~~tv~eI~~~L~~~Y~~-~e~~~~dV~~fL~~L 74 (81)
T TIGR03859 28 KLNDSAGEILELCDGKRSLAEIIQELAQRFPA-AEEIEDDVIAFLAVA 74 (81)
T ss_pred eeChHHHHHHHHccCCCcHHHHHHHHHHHcCC-hhhHHHHHHHHHHHH
Confidence 4567777666655442 33445667788888 888888888887754
No 109
>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=27.13 E-value=1.1e+02 Score=20.54 Aligned_cols=27 Identities=19% Similarity=0.260 Sum_probs=19.9
Q ss_pred hhhhhcCCCCHHHHHHHHHHHHHHHHHHHhH
Q 048580 24 ECYKNQLGVSEEEAVKALSLAVANSWKVINE 54 (108)
Q Consensus 24 ~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~ 54 (108)
++|+.++|.|+|+... +.+.-|..|.+
T Consensus 37 ~Ay~~~~~Lteeqr~a----v~~RD~~~li~ 63 (106)
T cd07925 37 EAYCEKFGLTPEQKQA----VRNRDVLRMLE 63 (106)
T ss_pred HHHHHHcCCCHHHHHH----HHHhhHHHHHH
Confidence 7899999999988543 34556766665
No 110
>COG2511 GatE Archaeal Glu-tRNAGln amidotransferase subunit E (contains GAD domain) [Translation, ribosomal structure and biogenesis]
Probab=27.07 E-value=90 Score=26.84 Aligned_cols=52 Identities=19% Similarity=0.185 Sum_probs=35.9
Q ss_pred chhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhh
Q 048580 21 SAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCS 77 (108)
Q Consensus 21 s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~ 77 (108)
.-++-|++++|.|++-|..-+....-+.+.++-+..+ =|........|+.+-
T Consensus 458 ek~~r~~~eygLs~~LA~~~~~~~~~~~FEel~e~~v-----~p~~~A~~L~~~~~~ 509 (631)
T COG2511 458 EKVERYVKEYGLSKELAEQLASDPRVDLFEELVEKGV-----DPTLIASTLVNTLPE 509 (631)
T ss_pred HHHHHHHHHhCCCHHHHHHHHhhhhHHHHHHHHHcCC-----CHHHHHHHHHHHHHH
Confidence 4468899999999999998888777666666555433 244555555555543
No 111
>PF08383 Maf_N: Maf N-terminal region; InterPro: IPR013592 This region is found in various leucine zipper transcription factors of the Maf family. These are implicated in the regulation of insulin gene expression [], in erythroid differentiation [], and in differentiation of the neuroretina [].
Probab=26.79 E-value=53 Score=17.65 Aligned_cols=12 Identities=50% Similarity=0.758 Sum_probs=10.1
Q ss_pred CCCHHHHHHHHH
Q 048580 31 GVSEEEAVKALS 42 (108)
Q Consensus 31 g~s~EeA~~~i~ 42 (108)
|.|.|+|++.+.
T Consensus 22 ~LtpEDAvEaLi 33 (35)
T PF08383_consen 22 GLTPEDAVEALI 33 (35)
T ss_pred CCCHHHHHHHHh
Confidence 689999998764
No 112
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.65 E-value=65 Score=19.20 Aligned_cols=47 Identities=19% Similarity=0.235 Sum_probs=28.0
Q ss_pred CCCchHHhhhcCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhH
Q 048580 6 GRVPPQFEQKREHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVINE 54 (108)
Q Consensus 6 Di~s~~~E~~rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~ 54 (108)
++-+-..|+...-+ .-|+=.|-| |+|--||++-+..-+...-|..|+
T Consensus 4 ~lp~LtHeqQQ~AV-E~Iq~lMae-GmSsGEAIa~VA~elRe~hk~~~~ 50 (60)
T COG3140 4 GLPSLTHEQQQKAV-ERIQELMAE-GMSSGEAIALVAQELRENHKGENR 50 (60)
T ss_pred ccccccHHHHHHHH-HHHHHHHHc-cccchhHHHHHHHHHHHHhccccc
Confidence 34444444444323 445555655 677778888887777766665554
No 113
>PLN02746 hydroxymethylglutaryl-CoA lyase
Probab=26.52 E-value=2.6e+02 Score=22.28 Aligned_cols=77 Identities=10% Similarity=0.044 Sum_probs=47.0
Q ss_pred hhhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhH------hcCC--CCCCHHHHHHHHHHHhh-----h-hhhcccCCC
Q 048580 23 VECYKNQL-GVSEEEAVKALSLAVANSWKVINEEL------LLNP--TAIPLPLLQVIFDLSCS-----A-DFMYNDAQD 87 (108)
Q Consensus 23 v~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~------l~~~--~~~p~~~~~~~~N~aR~-----~-~~~Y~~~~D 87 (108)
-+.+.+.+ +.|.+|+.+.+.++|+.+.+.=.+-. +-.+ +..+. +.++++++. + .+.+. +.-
T Consensus 145 Sd~h~~~n~~~t~~e~l~~~~~~v~~Ak~~Gl~v~~~is~~fg~p~~~r~~~---~~l~~~~~~~~~~Gad~I~l~-DT~ 220 (347)
T PLN02746 145 SESFSKSNINCSIEESLVRYREVALAAKKHSIPVRGYVSCVVGCPIEGPVPP---SKVAYVAKELYDMGCYEISLG-DTI 220 (347)
T ss_pred CHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCeEEEEEEeeecCCccCCCCH---HHHHHHHHHHHHcCCCEEEec-CCc
Confidence 35566776 89999999999999998875311110 1001 22332 233333332 2 23456 778
Q ss_pred CCCCchhHHHHHHhhh
Q 048580 88 RFTHSTMMKDQVDLVL 103 (108)
Q Consensus 88 g~t~~~~~k~~I~sll 103 (108)
|.-.|..+.+.|+.|.
T Consensus 221 G~a~P~~v~~lv~~l~ 236 (347)
T PLN02746 221 GVGTPGTVVPMLEAVM 236 (347)
T ss_pred CCcCHHHHHHHHHHHH
Confidence 8888877888887774
No 114
>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=26.41 E-value=76 Score=24.89 Aligned_cols=24 Identities=25% Similarity=0.217 Sum_probs=17.3
Q ss_pred hhhhhhcCCCCHHHHHHHHHHHHH
Q 048580 23 VECYKNQLGVSEEEAVKALSLAVA 46 (108)
Q Consensus 23 v~cYMke~g~s~EeA~~~i~~~ie 46 (108)
.++++++.|+|+|+|.+.+++|-.
T Consensus 328 ~~i~~~~~~~~~~~a~~~~~~l~~ 351 (360)
T cd06199 328 LDIIATEGGMDEEEAEAYLKELKK 351 (360)
T ss_pred HHHHHHhCCCCHHHHHHHHHHHHH
Confidence 355666668899999888876643
No 115
>PF13189 Cytidylate_kin2: Cytidylate kinase-like family; PDB: 3FDI_A.
Probab=26.24 E-value=56 Score=22.89 Aligned_cols=34 Identities=26% Similarity=0.246 Sum_probs=21.0
Q ss_pred hhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHh
Q 048580 23 VECYKNQLGVSEEEAVKALSLAVANSWKVINEELL 57 (108)
Q Consensus 23 v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l 57 (108)
|+--|+.+|+|+++|.+.|+.. +..++.--+.+.
T Consensus 128 v~ri~~~~~~s~~~A~~~i~~~-D~~R~~~~~~~~ 161 (179)
T PF13189_consen 128 VERIMEREGISEEEAEKLIKKE-DKRRRAYYKYYT 161 (179)
T ss_dssp HHHHHHHHT--HHHHHHHHHHH-HHHHHHHHHHH-
T ss_pred HHHHHHHcCCCHHHHHHHHHHH-HHHHHHHHHHHh
Confidence 5555777899999999888654 455555555454
No 116
>cd07019 S49_SppA_1 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppAs in this subfamily are found in all three domains of life and are involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members, the E. coli SppA contains an amino-te
Probab=25.89 E-value=1.5e+02 Score=21.28 Aligned_cols=40 Identities=18% Similarity=0.185 Sum_probs=31.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHH
Q 048580 31 GVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIF 72 (108)
Q Consensus 31 g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~ 72 (108)
..|+| +++.++.++++.|....+.+- +.+.+|..-++.+.
T Consensus 142 ~~s~e-~r~~~~~~ld~~~~~f~~~Va-~~R~~~~~~l~~~~ 181 (211)
T cd07019 142 ALPPE-AQLGLQLSIENGYKRFITLVA-DARHSTPEQIDKIA 181 (211)
T ss_pred CCCHH-HHHHHHHHHHHHHHHHHHHHH-hhCCCCHHHHHHhc
Confidence 46765 789999999999999998887 77777766554443
No 117
>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=25.89 E-value=74 Score=25.33 Aligned_cols=25 Identities=24% Similarity=0.262 Sum_probs=21.0
Q ss_pred hhhhcC---CCCHHHHHHHHHHHHHHHH
Q 048580 25 CYKNQL---GVSEEEAVKALSLAVANSW 49 (108)
Q Consensus 25 cYMke~---g~s~EeA~~~i~~~ie~~w 49 (108)
-++++. +.|++||.++++.+|+++-
T Consensus 305 ~~l~~rf~l~~s~~ea~~~~~~lI~~s~ 332 (350)
T cd00896 305 LKVQEKFRLDLSDEEAIKHFQNLINDSV 332 (350)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 377774 6899999999999999874
No 118
>PF09650 PHA_gran_rgn: Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); InterPro: IPR013433 Proteins in this entry are encoded by genes involved in either polyhydroxyalkanoic acid (PHA) biosynthesis or utilisation, including proteins at found at the surface of PHA granules. These proteins have so far been predominantly found in the Pseudomonadales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=25.80 E-value=1.2e+02 Score=19.07 Aligned_cols=25 Identities=12% Similarity=-0.001 Sum_probs=20.3
Q ss_pred hcCCCCHHHHHHHHHHHHHHHHHHH
Q 048580 28 NQLGVSEEEAVKALSLAVANSWKVI 52 (108)
Q Consensus 28 ke~g~s~EeA~~~i~~~ie~~wK~l 52 (108)
++|..+.+||++.+.+.++..-.+.
T Consensus 5 r~H~Lg~~eAr~~~~~~~~~l~~~~ 29 (87)
T PF09650_consen 5 RPHSLGREEARRRAEELAEKLAEEY 29 (87)
T ss_pred ecCCCCHHHHHHHHHHHHHHHHHHh
Confidence 4689999999999999988765543
No 119
>PF10835 DUF2573: Protein of unknown function (DUF2573); InterPro: IPR020393 This entry contains proteins with no known function.
Probab=25.69 E-value=98 Score=19.70 Aligned_cols=28 Identities=18% Similarity=0.114 Sum_probs=21.8
Q ss_pred cC-CCCHHHHHHHHHHHHHHHHHHHhHhHh
Q 048580 29 QL-GVSEEEAVKALSLAVANSWKVINEELL 57 (108)
Q Consensus 29 e~-g~s~EeA~~~i~~~ie~~wK~ln~e~l 57 (108)
.| +-+--||.+.|+++|++ -|+||++--
T Consensus 49 kHWN~~~PeaK~~ik~li~~-Ik~lNe~~r 77 (82)
T PF10835_consen 49 KHWNGTYPEAKEEIKELIEE-IKQLNEAHR 77 (82)
T ss_pred HhhcccCchHHHHHHHHHHH-HHHHHHHHH
Confidence 44 66677899999999985 679998754
No 120
>PRK09389 (R)-citramalate synthase; Provisional
Probab=25.64 E-value=1.1e+02 Score=25.38 Aligned_cols=77 Identities=12% Similarity=0.022 Sum_probs=45.5
Q ss_pred hhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCC---CCCHHHHHHHHHHHhh--hh-hhcccCCCCCCCchhHH
Q 048580 24 ECYKNQL-GVSEEEAVKALSLAVANSWKVINEELLLNPT---AIPLPLLQVIFDLSCS--AD-FMYNDAQDRFTHSTMMK 96 (108)
Q Consensus 24 ~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~---~~p~~~~~~~~N~aR~--~~-~~Y~~~~Dg~t~~~~~k 96 (108)
..+++.. +.|.+|+.+.+.+.++.+.+.=-+-.+ .+. ..+..++..+++.+.- ++ +... +.-|+..|..+.
T Consensus 98 d~h~~~~l~~s~~e~l~~~~~~v~~ak~~g~~v~~-~~ed~~r~~~~~l~~~~~~~~~~Ga~~i~l~-DTvG~~~P~~~~ 175 (488)
T PRK09389 98 DLHIEYKLKKTREEVLETAVEAVEYAKDHGLIVEL-SGEDASRADLDFLKELYKAGIEAGADRICFC-DTVGILTPEKTY 175 (488)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCEEEE-EEeeCCCCCHHHHHHHHHHHHhCCCCEEEEe-cCCCCcCHHHHH
Confidence 5566666 899999999999999877653111122 221 2333333333332211 22 3345 677888887788
Q ss_pred HHHHhh
Q 048580 97 DQVDLV 102 (108)
Q Consensus 97 ~~I~sl 102 (108)
+.|+.|
T Consensus 176 ~lv~~l 181 (488)
T PRK09389 176 ELFKRL 181 (488)
T ss_pred HHHHHH
Confidence 877766
No 121
>PF12674 Zn_ribbon_2: Putative zinc ribbon domain
Probab=25.58 E-value=64 Score=20.27 Aligned_cols=28 Identities=18% Similarity=0.210 Sum_probs=18.2
Q ss_pred hhhhhhhcC---CCCHHHHHHHHHHHHHHHH
Q 048580 22 AVECYKNQL---GVSEEEAVKALSLAVANSW 49 (108)
Q Consensus 22 ~v~cYMke~---g~s~EeA~~~i~~~ie~~w 49 (108)
.+-||-... .+|.||.++.....+.+.-
T Consensus 29 C~yCy~~G~Ft~~~t~eemie~~~~~~~~~~ 59 (81)
T PF12674_consen 29 CSYCYQNGEFTQDITMEEMIEFCVPFMDEFN 59 (81)
T ss_pred HHHHhcCCceeecCCHHHHHHHHHHHHHHhC
Confidence 456776532 4688888887777766543
No 122
>PF01484 Col_cuticle_N: Nematode cuticle collagen N-terminal domain; InterPro: IPR002486 The function of this domain is unknown. It is found in the N-terminal region of nematode cuticle collagens (see IPR008160 from INTERPRO). Cuticle is a tough elastic structure secreted by hypodermal cells and is primarily composed of collagen proteins [, ].; GO: 0042302 structural constituent of cuticle
Probab=25.52 E-value=86 Score=17.19 Aligned_cols=18 Identities=6% Similarity=0.451 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 048580 35 EEAVKALSLAVANSWKVI 52 (108)
Q Consensus 35 EeA~~~i~~~ie~~wK~l 52 (108)
+.-.+.++...++.|++|
T Consensus 36 ~~em~~fk~~s~d~W~~m 53 (53)
T PF01484_consen 36 DDEMEEFKEISDDAWNEM 53 (53)
T ss_pred HHHHHHHHHHHHHHHhhC
Confidence 344567888888888875
No 123
>smart00398 HMG high mobility group.
Probab=25.28 E-value=93 Score=17.51 Aligned_cols=18 Identities=28% Similarity=0.612 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHhHh
Q 048580 38 VKALSLAVANSWKVINEE 55 (108)
Q Consensus 38 ~~~i~~~ie~~wK~ln~e 55 (108)
...|..++...|+.|..+
T Consensus 29 ~~~i~~~~~~~W~~l~~~ 46 (70)
T smart00398 29 NAEISKKLGERWKLLSEE 46 (70)
T ss_pred HHHHHHHHHHHHHcCCHH
Confidence 566778888999877654
No 124
>PF13864 Enkurin: Calmodulin-binding
Probab=25.28 E-value=1.3e+02 Score=19.21 Aligned_cols=25 Identities=32% Similarity=0.529 Sum_probs=19.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhHhHh
Q 048580 32 VSEEEAVKALSLAVANSWKVINEELL 57 (108)
Q Consensus 32 ~s~EeA~~~i~~~ie~~wK~ln~e~l 57 (108)
++++| +..+..-+...|.+||.++.
T Consensus 37 l~eeE-R~~lL~~Lk~~~~el~~ey~ 61 (98)
T PF13864_consen 37 LSEEE-RQELLEGLKKNWDELNKEYQ 61 (98)
T ss_pred CCHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 45555 55667788899999999997
No 125
>COG1775 HgdB Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]
Probab=25.27 E-value=1.4e+02 Score=24.25 Aligned_cols=64 Identities=9% Similarity=0.150 Sum_probs=40.7
Q ss_pred CCH---HHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhhhhhcccCCCCCCCc-hhHHHHHHh
Q 048580 32 VSE---EEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSADFMYNDAQDRFTHS-TMMKDQVDL 101 (108)
Q Consensus 32 ~s~---EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~~~~Y~~~~Dg~t~~-~~~k~~I~s 101 (108)
+|+ ++|++..++. .++|+++-+... .+|-|..+-+++++++ ..+++. ..|.++.- ..|.+-+..
T Consensus 160 iT~e~L~da~~r~N~~-rea~~k~~kL~~--~~P~plsg~D~~~~~~--~~~~~~-d~d~~~~~l~~l~eelek 227 (379)
T COG1775 160 ITEEKLRDAIARYNRL-REALAKLYKLAK--HKPSPLSGSDAFNVMA--FAVFLR-DKDAFIEELEELIEELEK 227 (379)
T ss_pred ccHHHHHHHHHHHHHH-HHHHHHHHhhhc--cCCCCCchhHHHHHhh--HHHHhc-chHHHHHHHHHHHHHHHH
Confidence 675 4555555444 447777765433 4678999999999988 345666 77887654 455544443
No 126
>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=25.12 E-value=97 Score=20.83 Aligned_cols=31 Identities=6% Similarity=0.145 Sum_probs=18.7
Q ss_pred CCCcchhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 048580 17 EHSPSAVECYKNQLGVSEEEAVKALSLAVANS 48 (108)
Q Consensus 17 g~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~ 48 (108)
|+..+.+.-++.+..+|+|| +++|+.+|++.
T Consensus 87 gs~~~ll~~l~~~~~ls~ee-le~L~~li~~~ 117 (130)
T TIGR02698 87 RKVGAVIADLIEESPLSQTD-IEKLEKLLSEK 117 (130)
T ss_pred CCHHHHHHHHHhcCCCCHHH-HHHHHHHHHhc
Confidence 44445555555555777766 55677766643
No 127
>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type. The member of this family from Bacillus subtilis was shown to have properties consistent with a role in degrading signal peptides after cleavage from precursor proteins, although it was not demonstrated conclusively.
Probab=24.45 E-value=2.3e+02 Score=20.29 Aligned_cols=41 Identities=15% Similarity=0.196 Sum_probs=30.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHH
Q 048580 31 GVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFD 73 (108)
Q Consensus 31 g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N 73 (108)
..| ++.++.++.++++.|..+-..+- +.+.++..-++.+++
T Consensus 134 ~~s-~~~~e~~~~~l~~~~~~f~~~va-~~R~~~~~~~~~~~~ 174 (207)
T TIGR00706 134 ELT-PEERDILQNLVNESYEQFVQVVA-KGRNLPVEDVKKFAD 174 (207)
T ss_pred CCC-HHHHHHHHHHHHHHHHHHHHHHH-hcCCCCHHHHHHHhc
Confidence 344 47788999999999999988888 666777665554443
No 128
>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=24.34 E-value=88 Score=24.91 Aligned_cols=23 Identities=26% Similarity=0.307 Sum_probs=16.5
Q ss_pred hhhhhcCCCCHHHHHHHHHHHHH
Q 048580 24 ECYKNQLGVSEEEAVKALSLAVA 46 (108)
Q Consensus 24 ~cYMke~g~s~EeA~~~i~~~ie 46 (108)
++++++.|+|+|+|.+.+++|..
T Consensus 367 ~i~~~~~~~~~~~a~~~~~~l~~ 389 (398)
T cd06203 367 DILSKELGLDKLEAKKLLARLRK 389 (398)
T ss_pred HHHHHcCCCCHHHHHHHHHHHHH
Confidence 45555668899888888876643
No 129
>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=24.01 E-value=71 Score=19.70 Aligned_cols=24 Identities=21% Similarity=0.310 Sum_probs=16.4
Q ss_pred CCcchhhhhhhcCC---CCHHHHHHHHH
Q 048580 18 HSPSAVECYKNQLG---VSEEEAVKALS 42 (108)
Q Consensus 18 ~~~s~v~cYMke~g---~s~EeA~~~i~ 42 (108)
.++.+|+ |||+++ +|-+|-..++.
T Consensus 10 ~l~~aV~-ymK~r~~~Plt~~EIl~~ls 36 (75)
T cd07977 10 QLAKIVD-YMKKRHQHPLTLDEILDYLS 36 (75)
T ss_pred hHHHHHH-HHHhcCCCCccHHHHHHHHh
Confidence 4556665 999876 67777666655
No 130
>PF13053 DUF3914: Protein of unknown function (DUF3914)
Probab=23.91 E-value=1.3e+02 Score=19.39 Aligned_cols=29 Identities=14% Similarity=0.367 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHh
Q 048580 40 ALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSC 76 (108)
Q Consensus 40 ~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR 76 (108)
++.++ +.||-| +...+|.-++--+++=+|
T Consensus 59 KF~El--DLWkmL------kdKGVPlWiIlemL~K~r 87 (92)
T PF13053_consen 59 KFTEL--DLWKML------KDKGVPLWIILEMLQKFR 87 (92)
T ss_pred cchHh--HHHHHH------HhcCCcHHHHHHHHHHHH
Confidence 44444 678754 455688887777776665
No 131
>PF00494 SQS_PSY: Squalene/phytoene synthase; InterPro: IPR002060 Squalene synthase 2.5.1.21 from EC (farnesyl-diphosphate farnesyltransferase) (SQS) and Phytoene synthase 2.5.1.32 from EC (PSY) share a number of functional similarities. These similarities are also reflected at the level of their primary structure [, , ]. In particular three well conserved regions are shared by SQS and PSY; they could be involved in substrate binding and/or the catalytic mechanism. SQS catalyzes the conversion of two molecules of farnesyl diphosphate (FPP) into squalene. It is the first committed step in the cholesterol biosynthetic pathway. The reaction carried out by SQS is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of FPP to form presqualene diphosphate; this intermediate is then rearranged in a NADP-dependent reduction, to form squalene: 2 FPP -> presqualene diphosphate + NADP -> squalene SQS is found in eukaryotes. In yeast it is encoded by the ERG9 gene, in mammals by the FDFT1 gene. SQS seems to be membrane-bound. PSY catalyzes the conversion of two molecules of geranylgeranyl diphosphate (GGPP) into phytoene. It is the second step in the biosynthesis of carotenoids from isopentenyl diphosphate. The reaction carried out by PSY is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of GGPP to form prephytoene diphosphate; this intermediate is then rearranged to form phytoene. 2 GGPP -> prephytoene diphosphate -> phytoene PSY is found in all organisms that synthesize carotenoids: plants and photosynthetic bacteria as well as some non- photosynthetic bacteria and fungi. In bacteria PSY is encoded by the gene crtB. In plants PSY is localized in the chloroplast.; GO: 0016740 transferase activity, 0009058 biosynthetic process; PDB: 3NRI_A 3NPR_A 2ZCR_A 2ZCP_B 4F6V_A 4EA0_A 3ACW_A 4F6X_A 3VJE_B 3ACX_A ....
Probab=23.75 E-value=2.9e+02 Score=20.22 Aligned_cols=30 Identities=17% Similarity=0.275 Sum_probs=19.9
Q ss_pred hhcCCCCHHHHHHH----------HHHHHHHHHHHHhHhH
Q 048580 27 KNQLGVSEEEAVKA----------LSLAVANSWKVINEEL 56 (108)
Q Consensus 27 Mke~g~s~EeA~~~----------i~~~ie~~wK~ln~e~ 56 (108)
|.+||+|+|+-.+. +..+++.++..+.+..
T Consensus 180 l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~~A~~~l~~a~ 219 (267)
T PF00494_consen 180 LRRFGVTPEDLLAGRPRSERLRALIRELAARARAHLDEAR 219 (267)
T ss_dssp HHHTTSSHHHHHHHG-GGHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHcCCCHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 68899987765432 5666777776666554
No 132
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site []. The proteins are thought to be subunits of ATP-dependent proteases which act as chaperones to target the proteases to substrates.; GO: 0019538 protein metabolic process; PDB: 3FH2_A 3ZRJ_A 3ZRI_A 1QVR_C 3FES_C 2Y1R_F 3PXG_D 2Y1Q_A 3PXI_C 2K77_A ....
Probab=23.70 E-value=1e+02 Score=16.50 Aligned_cols=25 Identities=24% Similarity=0.295 Sum_probs=18.9
Q ss_pred chhhhhhhcCCCCHHHHHHHHHHHH
Q 048580 21 SAVECYKNQLGVSEEEAVKALSLAV 45 (108)
Q Consensus 21 s~v~cYMke~g~s~EeA~~~i~~~i 45 (108)
+.+...+++.|++.++..+.+.+++
T Consensus 28 ~~~~~il~~~~id~~~l~~~i~~~l 52 (53)
T PF02861_consen 28 SIAARILKKLGIDPEQLKAAIEKAL 52 (53)
T ss_dssp SHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 4456778888999888888877654
No 133
>KOG1257 consensus NADP+-dependent malic enzyme [Energy production and conversion]
Probab=23.68 E-value=31 Score=29.34 Aligned_cols=31 Identities=26% Similarity=0.234 Sum_probs=21.3
Q ss_pred cchhhhhhhcCCCCHHHHHHHH-----HHHHHHHHH
Q 048580 20 PSAVECYKNQLGVSEEEAVKAL-----SLAVANSWK 50 (108)
Q Consensus 20 ~s~v~cYMke~g~s~EeA~~~i-----~~~ie~~wK 50 (108)
|+.+--.|...|+|+|||+++| +.+|-...|
T Consensus 326 A~l~v~~m~~~Gl~~eeA~kkIwlvD~~GLi~~~r~ 361 (582)
T KOG1257|consen 326 ANLIVMAMVKEGLSEEEARKKIWLVDSKGLITKGRK 361 (582)
T ss_pred HHHHHHHHHHcCCCHHHHhccEEEEecCceeecccc
Confidence 4445556777799999999987 445555554
No 134
>PF11592 AvrPto: Central core of the bacterial effector protein AvrPto; InterPro: IPR020996 This entry represents the bacterial effector protein AvrPto, from Pseudomonas syringae and in particular the central core region of the protein that consists of a three-helix bundle motif. AvrPto is part of a type III secretion system from P.syringae which is involved in the bacterial speck disease of tomato. In resistant plants, AvrPto interacts with the host Pto kinase, which elicits an antibacterial defence response. In plants lacking resistance, the Pto kinase is not present and AvrPto acts as a virulence factor, promoting bacterial growth []. ; PDB: 1R5E_A 2QKW_A.
Probab=23.59 E-value=1.7e+02 Score=19.54 Aligned_cols=25 Identities=28% Similarity=0.622 Sum_probs=20.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHhHhH
Q 048580 31 GVSEEEAVKALSLAVANSWKVINEEL 56 (108)
Q Consensus 31 g~s~EeA~~~i~~~ie~~wK~ln~e~ 56 (108)
|.+.+|-+..|+..|. +|-+|+++.
T Consensus 71 g~~~~e~V~~m~s~is-~W~dMReaL 95 (105)
T PF11592_consen 71 GTTPHENVNSMRSAIS-AWSDMREAL 95 (105)
T ss_dssp SS-HHHHHHHHHHHHH-HHHHHHHHH
T ss_pred CCChHHHHHHHHHHHH-HHHHHHHHH
Confidence 6789999999999986 799998765
No 135
>PRK13145 araD L-ribulose-5-phosphate 4-epimerase; Provisional
Probab=23.34 E-value=3.1e+02 Score=20.25 Aligned_cols=59 Identities=15% Similarity=0.099 Sum_probs=36.2
Q ss_pred hhhhhcCCC-----CHHHHHHHHHHHHHHHHHHHhHhHhcCC--CCCCHHHHHHHHHHHhhhhhhcc
Q 048580 24 ECYKNQLGV-----SEEEAVKALSLAVANSWKVINEELLLNP--TAIPLPLLQVIFDLSCSADFMYN 83 (108)
Q Consensus 24 ~cYMke~g~-----s~EeA~~~i~~~ie~~wK~ln~e~l~~~--~~~p~~~~~~~~N~aR~~~~~Y~ 83 (108)
-+.|+.||+ |.++|...+..+-+.+.-.+.-..+ .+ .++|...++.....-+.....|+
T Consensus 165 avLL~nHG~v~~G~~l~eA~~~~e~lE~~A~~~~~a~~l-g~~~~~~~~~~~~~~~~~~~~~~~~~~ 230 (234)
T PRK13145 165 GIVVRNHGPFTWGKNPEQAVYHSVVLEEVAKMNRLTEQI-NPRVEPAPQYIMDKHYLRKHGPNAYYG 230 (234)
T ss_pred EEEEcCCCeeEecCCHHHHHHHHHHHHHHHHHHHHHHhc-CCCCCCCCHHHHHHHHHHhccCCcccC
Confidence 366788884 7899998876555555544444444 32 36788877776554443333355
No 136
>PRK14137 recX recombination regulator RecX; Provisional
Probab=23.28 E-value=2.7e+02 Score=20.26 Aligned_cols=81 Identities=14% Similarity=0.075 Sum_probs=44.6
Q ss_pred cCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHhcCCC--CCCHHHHHHHHHHHhhhhhhcccCCCCCCCch
Q 048580 16 REHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELLLNPT--AIPLPLLQVIFDLSCSADFMYNDAQDRFTHST 93 (108)
Q Consensus 16 rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~--~~p~~~~~~~~N~aR~~~~~Y~~~~Dg~t~~~ 93 (108)
+|.-+..|..-+++.|++.+..-..+...-.+.|.+.-...+ ... .+... .. .-.|+..+++. -||+..
T Consensus 100 k~~Gp~rI~~eL~qKGI~~~lI~~al~~~d~ede~e~a~~l~-~KK~~~~~~~-~~---~k~K~~~~L~r---RGFs~~- 170 (195)
T PRK14137 100 RGVGALRVRQTLRRRGVEETLIEETLAARDPQEEQQEARNLL-ERRWSSFARK-RD---PRASAYAFLAR---RGFSGA- 170 (195)
T ss_pred cCchHHHHHHHHHHcCCCHHHHHHHHHhcCchhHHHHHHHHH-HHhccccCcc-hh---HHHHHHHHHHH---CCCCHH-
Confidence 455566788889999999766666565443345666555555 221 11111 11 12344444432 288764
Q ss_pred hHHHHHHhhhcc
Q 048580 94 MMKDQVDLVLRD 105 (108)
Q Consensus 94 ~~k~~I~sll~~ 105 (108)
.+...|..++-.
T Consensus 171 ~I~~al~~~~~~ 182 (195)
T PRK14137 171 VIWPAIREVAAL 182 (195)
T ss_pred HHHHHHHHHHHh
Confidence 566666666543
No 137
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=23.27 E-value=2.8e+02 Score=20.88 Aligned_cols=68 Identities=16% Similarity=0.048 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHH----HHhhhhhhcccCC-CCCCCchhHHHHHHhhhc
Q 048580 34 EEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFD----LSCSADFMYNDAQ-DRFTHSTMMKDQVDLVLR 104 (108)
Q Consensus 34 ~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N----~aR~~~~~Y~~~~-Dg~t~~~~~k~~I~sll~ 104 (108)
.++++..+-+.|.+.=.+|.+.|| ....++..-+...+. -.+++.+|.. .. -+... ..+.+.|...+-
T Consensus 196 ~~~~r~~l~e~vae~dd~L~e~yl-~~~~~~~~el~~~l~~~~~~~~~~PV~~g-Sa~~~~Gi-~~lld~i~~~~p 268 (270)
T cd01886 196 AEEAREELIETLAEFDDELMEKYL-EGEEITEEEIKAAIRKGTIANKIVPVLCG-SAFKNKGV-QPLLDAVVDYLP 268 (270)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHh-CCCCCCHHHHHHHHHHHHHcCcEEEEEeC-cCCCCcCH-HHHHHHHHHhcC
Confidence 357777887888888889999999 776676644333333 4667777765 32 33322 577888877773
No 138
>PLN02644 acetyl-CoA C-acetyltransferase
Probab=22.91 E-value=99 Score=24.57 Aligned_cols=36 Identities=14% Similarity=0.076 Sum_probs=21.6
Q ss_pred hhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHh
Q 048580 22 AVECYKNQLGVSEEEAVKALSLAVANSWKVINEELL 57 (108)
Q Consensus 22 ~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l 57 (108)
.-+-||++||+|+|+--+--.+.=..+|+-.|...+
T Consensus 159 ~A~~~~~~yG~tre~la~vav~s~~~a~~a~~~~~~ 194 (394)
T PLN02644 159 CAELCADQYSISREEQDAYAIQSYERAIAAQEAGAF 194 (394)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHHHHHHhHHcCCC
Confidence 346699999999876333333333456666664333
No 139
>KOG4511 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.81 E-value=74 Score=25.06 Aligned_cols=24 Identities=25% Similarity=0.574 Sum_probs=17.7
Q ss_pred cchhhhhhhcCCCCHHHHHHHHHH
Q 048580 20 PSAVECYKNQLGVSEEEAVKALSL 43 (108)
Q Consensus 20 ~s~v~cYMke~g~s~EeA~~~i~~ 43 (108)
..-++|||+|-|+|+++=...++.
T Consensus 62 d~lle~f~eevgi~p~qf~~Ac~~ 85 (335)
T KOG4511|consen 62 DTLLECFCEEVGITPTQFVAACQL 85 (335)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHhc
Confidence 356899999999998765554443
No 140
>PRK12361 hypothetical protein; Provisional
Probab=22.65 E-value=83 Score=26.08 Aligned_cols=27 Identities=15% Similarity=0.194 Sum_probs=20.5
Q ss_pred CCCcchhhhhhh-c-CCCCHHHHHHHHHH
Q 048580 17 EHSPSAVECYKN-Q-LGVSEEEAVKALSL 43 (108)
Q Consensus 17 g~~~s~v~cYMk-e-~g~s~EeA~~~i~~ 43 (108)
|-.++.+-|||- . ++.|.+||.+.|++
T Consensus 187 sRSa~vv~ayLm~~~~~~~~~eA~~~vr~ 215 (547)
T PRK12361 187 GRSVLVLAAYLLCKDPDLTVEEVLQQIKQ 215 (547)
T ss_pred CcHHHHHHHHHHHhccCCCHHHHHHHHHH
Confidence 445677889965 3 48999999999964
No 141
>cd07945 DRE_TIM_CMS Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain. Citramalate synthase (CMS) catalyzes the conversion of pyruvate and acetyl-CoA to (R)-citramalate in the first dedicated step of the citramalate pathway. Citramalate is only found in Leptospira interrogans and a few other microorganisms. 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, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center con
Probab=22.64 E-value=1.3e+02 Score=22.91 Aligned_cols=76 Identities=9% Similarity=-0.073 Sum_probs=44.8
Q ss_pred hhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhc-CC----CCCCHHHHHHHHHHHhh-----hh-hhcccCCCCCCC
Q 048580 24 ECYKNQL-GVSEEEAVKALSLAVANSWKVINEELLL-NP----TAIPLPLLQVIFDLSCS-----AD-FMYNDAQDRFTH 91 (108)
Q Consensus 24 ~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~-~~----~~~p~~~~~~~~N~aR~-----~~-~~Y~~~~Dg~t~ 91 (108)
+.+++.+ +.|.+++.+.+.++++.+...=.+-.+. .. ...+.. .+..+++. ++ +.+. +.-|+..
T Consensus 99 ~~h~~~~~~~t~~e~l~~~~~~i~~a~~~G~~v~~~~~d~~~~~r~~~~---~~~~~~~~~~~~G~~~i~l~-DT~G~~~ 174 (280)
T cd07945 99 LKHCTEQLRKTPEEHFADIREVIEYAIKNGIEVNIYLEDWSNGMRDSPD---YVFQLVDFLSDLPIKRIMLP-DTLGILS 174 (280)
T ss_pred HHHHHHHHCcCHHHHHHHHHHHHHHHHhCCCEEEEEEEeCCCCCcCCHH---HHHHHHHHHHHcCCCEEEec-CCCCCCC
Confidence 4466666 8999999999999999886532221220 11 022332 33333332 22 3345 7778888
Q ss_pred chhHHHHHHhhh
Q 048580 92 STMMKDQVDLVL 103 (108)
Q Consensus 92 ~~~~k~~I~sll 103 (108)
|..+.+.++.+.
T Consensus 175 P~~v~~l~~~l~ 186 (280)
T cd07945 175 PFETYTYISDMV 186 (280)
T ss_pred HHHHHHHHHHHH
Confidence 877777777664
No 142
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=22.47 E-value=39 Score=20.80 Aligned_cols=23 Identities=17% Similarity=0.319 Sum_probs=17.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhH
Q 048580 32 VSEEEAVKALSLAVANSWKVINE 54 (108)
Q Consensus 32 ~s~EeA~~~i~~~ie~~wK~ln~ 54 (108)
++.++|++.|..|=-+.||...|
T Consensus 32 ~~~d~ARE~vYGMPy~eWK~~~Q 54 (68)
T PF06844_consen 32 MDKDEAREIVYGMPYDEWKAKHQ 54 (68)
T ss_dssp --HHHHHHHHHSS-HHHHCHCH-
T ss_pred CCHHHHHHHHhCCCHHHHHHHHC
Confidence 68999999999999999997554
No 143
>TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein. This model represents uncharacterized proteins related to 2-isopropylmalate synthases and homocitrate synthases but phylogenetically distint. Each species represented in the seed alignment also has a member of a known family of 2-isopropylmalate synthases.
Probab=22.42 E-value=2.8e+02 Score=23.29 Aligned_cols=80 Identities=10% Similarity=-0.085 Sum_probs=48.6
Q ss_pred hhhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhc-----CCCCCCHHHHHHHHHHHhh--h-hhhcccCCCCCCCch
Q 048580 23 VECYKNQL-GVSEEEAVKALSLAVANSWKVINEELLL-----NPTAIPLPLLQVIFDLSCS--A-DFMYNDAQDRFTHST 93 (108)
Q Consensus 23 v~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~-----~~~~~p~~~~~~~~N~aR~--~-~~~Y~~~~Dg~t~~~ 93 (108)
...+++.. +.|.||+++.+.+.++.+...--+-.+. .....+..++--+++.+.- + .+... +.=|+..|.
T Consensus 105 Sd~h~~~~l~~s~ee~l~~~~~~v~~ak~~g~~V~~~~e~f~D~~r~~~~~l~~~~~~a~~aGad~i~i~-DTvG~~~P~ 183 (526)
T TIGR00977 105 WDLHVLEALQTTLEENLAMIYDTVAYLKRQGDEVIYDAEHFFDGYKANPEYALATLATAQQAGADWLVLC-DTNGGTLPH 183 (526)
T ss_pred CHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCeEEEEeeeeeecccCCHHHHHHHHHHHHhCCCCeEEEe-cCCCCcCHH
Confidence 35566766 8999999999999999877532221110 1112344444444444321 2 23345 677999998
Q ss_pred hHHHHHHhhh
Q 048580 94 MMKDQVDLVL 103 (108)
Q Consensus 94 ~~k~~I~sll 103 (108)
++.+.|..+.
T Consensus 184 ~v~~li~~l~ 193 (526)
T TIGR00977 184 EISEITTKVK 193 (526)
T ss_pred HHHHHHHHHH
Confidence 8888887763
No 144
>TIGR00973 leuA_bact 2-isopropylmalate synthase, bacterial type. A larger family of homologous proteins includes homocitrate synthase, distinct lineages of 2-isopropylmalate synthase, several distinct, uncharacterized, orthologous sets in the Archaea, and other related enzymes. This model describes a family of 2-isopropylmalate synthases found primarily in Bacteria. The homologous families in the Archaea may represent isozymes and/or related enzymes.
Probab=22.38 E-value=1.6e+02 Score=24.44 Aligned_cols=77 Identities=6% Similarity=0.056 Sum_probs=48.4
Q ss_pred hhhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhcCC---CCCCHHHHHHHHHHHh---hhhhhcccCCCCCCCchhHH
Q 048580 24 ECYKNQL-GVSEEEAVKALSLAVANSWKVINEELLLNP---TAIPLPLLQVIFDLSC---SADFMYNDAQDRFTHSTMMK 96 (108)
Q Consensus 24 ~cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~---~~~p~~~~~~~~N~aR---~~~~~Y~~~~Dg~t~~~~~k 96 (108)
..+++.. +.|.+++++.+.+.++.+...-..-.+ .+ +..+..++..+++.+. .-.+... +.-|+..|..+.
T Consensus 101 ~~h~~~~l~~s~~e~l~~~~~~v~~a~~~g~~v~f-~~Ed~~r~d~~~l~~~~~~~~~~Ga~~i~l~-DTvG~~~P~~~~ 178 (494)
T TIGR00973 101 PIHLEHKLKMTRDEVLERAVGMVKYAKNFTDDVEF-SCEDAGRTEIPFLARIVEAAINAGATTINIP-DTVGYALPAEYG 178 (494)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCeEEE-EcCCCCCCCHHHHHHHHHHHHHcCCCEEEeC-CCCCCCCHHHHH
Confidence 4455555 899999999999999988654322223 22 2345445444444332 1123446 778999997777
Q ss_pred HHHHhh
Q 048580 97 DQVDLV 102 (108)
Q Consensus 97 ~~I~sl 102 (108)
+.|..+
T Consensus 179 ~~i~~l 184 (494)
T TIGR00973 179 NLIKGL 184 (494)
T ss_pred HHHHHH
Confidence 777766
No 145
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=22.29 E-value=1e+02 Score=24.67 Aligned_cols=28 Identities=14% Similarity=0.404 Sum_probs=23.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHhHhHh
Q 048580 30 LGVSEEEAVKALSLAVANSWKVINEELL 57 (108)
Q Consensus 30 ~g~s~EeA~~~i~~~ie~~wK~ln~e~l 57 (108)
.|.|||+|+..+-..-++.|++--.+.-
T Consensus 124 ~~ssed~~i~~mf~~~~~qw~etqd~ms 151 (427)
T COG5222 124 QSSSEDAAIQQMFQVSSDQWRETQDKMS 151 (427)
T ss_pred ccccHHHHHHHHhhhhhhhhHHhhhhcc
Confidence 3789999999999999999998755443
No 146
>TIGR02090 LEU1_arch isopropylmalate/citramalate/homocitrate synthases. Methanogens, then should and aparrently do contain all three of these enzymes. Unfortunately, phylogenetic trees do not resolve into three unambiguous clades, making assignment of function to particular genes problematic. Other archaea which lack a threonine dehydratase (mainly Euryarchaeota) should contain both a CimA and a LeuA gene. This is true of, for example, archaeoglobus fulgidis, but not for the Pyrococci which have none in this clade, but one in TIGR00973 and one in TIGRT00977 which may fulfill these roles. Other species which have only one hit to this model and lack threonine dehydratase are very likely LeuA enzymes.
Probab=21.75 E-value=1.5e+02 Score=23.43 Aligned_cols=77 Identities=9% Similarity=-0.050 Sum_probs=44.4
Q ss_pred hhhhcC-CCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhh-----h-hhcccCCCCCCCchhHHH
Q 048580 25 CYKNQL-GVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSA-----D-FMYNDAQDRFTHSTMMKD 97 (108)
Q Consensus 25 cYMke~-g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~-----~-~~Y~~~~Dg~t~~~~~k~ 97 (108)
.+++.+ +.|.+++.+.+.+.++.+.+.=-+-.+ .....++.-.+.++.+++.+ + +.+. +.-|...|..+.+
T Consensus 97 ~~~~~~~~~~~~~~~~~~~~~i~~ak~~G~~v~~-~~eda~r~~~~~l~~~~~~~~~~g~~~i~l~-DT~G~~~P~~v~~ 174 (363)
T TIGR02090 97 IHLKYKLKKSRDEVLEKAVEAVEYAKEHGLIVEF-SAEDATRTDIDFLIKVFKRAEEAGADRINIA-DTVGVLTPQKMEE 174 (363)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHHHHHcCCEEEE-EEeecCCCCHHHHHHHHHHHHhCCCCEEEEe-CCCCccCHHHHHH
Confidence 345554 889999999999999988653222223 22122222233333333332 2 3345 5667778877888
Q ss_pred HHHhhh
Q 048580 98 QVDLVL 103 (108)
Q Consensus 98 ~I~sll 103 (108)
.|..+.
T Consensus 175 li~~l~ 180 (363)
T TIGR02090 175 LIKKLK 180 (363)
T ss_pred HHHHHh
Confidence 877764
No 147
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=21.42 E-value=81 Score=18.84 Aligned_cols=19 Identities=16% Similarity=0.389 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHhHhH
Q 048580 38 VKALSLAVANSWKVINEEL 56 (108)
Q Consensus 38 ~~~i~~~ie~~wK~ln~e~ 56 (108)
..+|..+|...|+.|..+-
T Consensus 29 ~~eisk~~g~~Wk~ls~ee 47 (77)
T cd01389 29 NNEISRIIGRMWRSESPEV 47 (77)
T ss_pred HHHHHHHHHHHHhhCCHHH
Confidence 5678899999999876543
No 148
>KOG4833 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.29 E-value=1.1e+02 Score=25.50 Aligned_cols=26 Identities=19% Similarity=0.337 Sum_probs=21.6
Q ss_pred hhhhhhhc-CCCCHHHHHHHHHHHHHH
Q 048580 22 AVECYKNQ-LGVSEEEAVKALSLAVAN 47 (108)
Q Consensus 22 ~v~cYMke-~g~s~EeA~~~i~~~ie~ 47 (108)
-++|||.| ||.|...|.+-+|+.+..
T Consensus 19 LlecsleedYggTddsakellQdeidm 45 (573)
T KOG4833|consen 19 LLECSLEEDYGGTDDSAKELLQDEIDM 45 (573)
T ss_pred HHHHHHHHhhCCchHHHHHHHHHHHHH
Confidence 47999987 599999998888887764
No 149
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=21.10 E-value=1.1e+02 Score=17.83 Aligned_cols=23 Identities=26% Similarity=0.445 Sum_probs=17.0
Q ss_pred chhhhhhhcCCCCHHHHHHHHHH
Q 048580 21 SAVECYKNQLGVSEEEAVKALSL 43 (108)
Q Consensus 21 s~v~cYMke~g~s~EeA~~~i~~ 43 (108)
.-|.-..++.|+|+++..+.|+.
T Consensus 21 ~ev~ywa~~~gvt~~~L~~AV~~ 43 (57)
T PF12244_consen 21 YEVRYWAKRFGVTEEQLREAVRA 43 (57)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHH
Confidence 44665677789999988877754
No 150
>PRK09282 pyruvate carboxylase subunit B; Validated
Probab=20.80 E-value=3e+02 Score=23.55 Aligned_cols=92 Identities=10% Similarity=0.086 Sum_probs=53.8
Q ss_pred CCCCCCCchHHhhhcCCCcchhhhhhhcCCCCHHHHHHHHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHHHhhhhhh
Q 048580 2 LSGGGRVPPQFEQKREHSPSAVECYKNQLGVSEEEAVKALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDLSCSADFM 81 (108)
Q Consensus 2 ~~~nDi~s~~~E~~rg~~~s~v~cYMke~g~s~EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~aR~~~~~ 81 (108)
+.+||..-+..|...|-. |.+.--+++.|. .+-..+|.+.+...|+++= -+ +.=.|.=+++.++|-+ + +
T Consensus 284 ~~~~~~~v~~~~~pGg~~-snl~~q~~~~g~--~d~~~~vl~e~~~v~~~lG-----~~-~~VTP~Sq~vg~~A~~-n-v 352 (592)
T PRK09282 284 FTIVDTRVLIHQVPGGMI-SNLVSQLKEQNA--LDKLDEVLEEIPRVREDLG-----YP-PLVTPTSQIVGTQAVL-N-V 352 (592)
T ss_pred cccCCccEEEEcCCCcHH-HHHHHHHHHCCc--HHHHHHHHHHHHHHHHHcC-----CC-CeECChhHhHHHHHHH-H-H
Confidence 346777777777777766 556667888888 3444445555544444432 11 1122555666666632 2 3
Q ss_pred cccCCCCCC-CchhHHHHHHhhhccc
Q 048580 82 YNDAQDRFT-HSTMMKDQVDLVLRDP 106 (108)
Q Consensus 82 Y~~~~Dg~t-~~~~~k~~I~sll~~P 106 (108)
+. ++.|. .|.++++++.-.+-.|
T Consensus 353 ~~--~~~~~~~~~~~~~~~~G~~G~~ 376 (592)
T PRK09282 353 LT--GERYKVITKEVKDYVKGLYGRP 376 (592)
T ss_pred Hc--CCccccCCHHHHHHhCcCCCCC
Confidence 44 33343 5678898888777554
No 151
>PRK06690 acetyl-CoA acetyltransferase; Provisional
Probab=20.52 E-value=1.4e+02 Score=23.73 Aligned_cols=17 Identities=18% Similarity=0.216 Sum_probs=13.8
Q ss_pred cchhhhhhhcCCCCHHH
Q 048580 20 PSAVECYKNQLGVSEEE 36 (108)
Q Consensus 20 ~s~v~cYMke~g~s~Ee 36 (108)
+..-+-||++||+|.|+
T Consensus 134 ~~~a~~~~~~ygitre~ 150 (361)
T PRK06690 134 GVAAEYVAERYNITREM 150 (361)
T ss_pred HHHHHHHHHHhCCCHHH
Confidence 34457799999999987
No 152
>PRK11830 dapD 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional
Probab=20.42 E-value=2.4e+02 Score=21.67 Aligned_cols=32 Identities=13% Similarity=0.338 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHHH
Q 048580 40 ALSLAVANSWKVINEELLLNPTAIPLPLLQVIFDL 74 (108)
Q Consensus 40 ~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N~ 74 (108)
.++..||++|.+ ++-+ .+...+...++.+..+
T Consensus 3 ~~~~~i~~~~~~--~~~~-~~~~~~~~~~~~~~~~ 34 (272)
T PRK11830 3 QLQKIIEEAWER--RAEL-TPATADTEVREAVEEV 34 (272)
T ss_pred HHHHHHHHHHHh--HhhC-CccCCCHHHHHHHHHH
Confidence 478899999985 4445 5555665555555443
No 153
>cd06204 CYPOR 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. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredo
Probab=20.33 E-value=1.2e+02 Score=24.43 Aligned_cols=23 Identities=26% Similarity=0.221 Sum_probs=16.2
Q ss_pred hhhhhcCCCCHHHHHHHHHHHHH
Q 048580 24 ECYKNQLGVSEEEAVKALSLAVA 46 (108)
Q Consensus 24 ~cYMke~g~s~EeA~~~i~~~ie 46 (108)
++++++.|+|+|+|.+.+.+|..
T Consensus 385 ~i~~~~~~~~~~~A~~~l~~l~~ 407 (416)
T cd06204 385 EILAEQGGMTETEAEEYVKKLKT 407 (416)
T ss_pred HHHHHhCCCCHHHHHHHHHHHHH
Confidence 45555568888888888766643
No 154
>TIGR00965 dapD 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase. The closely related TabB protein of Pseudomonas syringae (pv. tabaci) appears to act in the biosynthesis of tabtoxin rather than lysine. The trusted cutoff is set high enough to exclude this gene. Sequences below trusted also include a version of this enzyme which apparently utilize acetate rather than succinate (EC: 2.3.1.89).
Probab=20.31 E-value=2e+02 Score=22.22 Aligned_cols=30 Identities=7% Similarity=0.149 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHhHhHhcCCCCCCHHHHHHHHH
Q 048580 41 LSLAVANSWKVINEELLLNPTAIPLPLLQVIFD 73 (108)
Q Consensus 41 i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N 73 (108)
+++.|+++|.+ ++-+ .+...+...++.+..
T Consensus 2 ~~~~i~~~~~~--~~~~-~~~~~~~~~~~~~~~ 31 (269)
T TIGR00965 2 LQNIIETAFER--RAEI-TPANADTVTKEAVNE 31 (269)
T ss_pred HHHHHHHHHHH--HHhC-CCcCCCHHHHHHHHH
Confidence 67889999986 4446 555555555555444
No 155
>cd06202 Nitric_oxide_synthase The ferredoxin-reductase (FNR) like C-terminal domain of the nitric oxide synthase (NOS) fuses with a heme-containing N-terminal oxidase domain. The reductase portion is similar in structure to NADPH dependent cytochrome-450 reductase (CYPOR), having an inserted connecting sub-domain within the FAD binding portion of FNR. NOS differs from CYPOR in a requirement for the cofactor tetrahydrobiopterin and unlike most CYPOR is dimeric. Nitric oxide synthase produces nitric oxide in the conversion of L-arginine to L-citruline. NOS has been implicated in a variety of processes including cytotoxicity, anti-inflamation, neurotransmission, and vascular smooth muscle relaxation.
Probab=20.25 E-value=1.1e+02 Score=24.40 Aligned_cols=24 Identities=17% Similarity=0.016 Sum_probs=17.1
Q ss_pred hhhhhhcCCCCHHHHHHHHHHHHH
Q 048580 23 VECYKNQLGVSEEEAVKALSLAVA 46 (108)
Q Consensus 23 v~cYMke~g~s~EeA~~~i~~~ie 46 (108)
.+++++..|+|+|+|.+.+++|-.
T Consensus 370 ~~i~~~~~~~s~~~A~~~~~~l~~ 393 (406)
T cd06202 370 QRILAEHGNMSAEEAEEFILKLRD 393 (406)
T ss_pred HHHHHHhCCCCHHHHHHHHHHHHH
Confidence 456666668899998888766643
Done!