Query 044570
Match_columns 109
No_of_seqs 136 out of 653
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 04:35:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044570.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044570hhsearch_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 2.6E-44 5.7E-49 237.8 10.0 94 14-109 1-95 (96)
2 cd00684 Terpene_cyclase_plant_ 100.0 5E-31 1.1E-35 216.4 10.4 99 7-107 443-542 (542)
3 PLN02279 ent-kaur-16-ene synth 100.0 3.5E-30 7.6E-35 218.5 8.6 98 7-109 676-777 (784)
4 PLN02592 ent-copalyl diphospha 99.2 3.8E-11 8.3E-16 103.0 6.8 69 32-109 730-800 (800)
5 cd00868 Terpene_cyclase_C1 Ter 99.2 1.2E-10 2.5E-15 87.1 7.5 75 7-82 209-284 (284)
6 PF03936 Terpene_synth_C: Terp 98.5 6.2E-08 1.4E-12 71.9 2.7 47 7-53 224-270 (270)
7 cd00687 Terpene_cyclase_nonpla 98.3 1.1E-06 2.4E-11 66.9 5.0 50 7-56 215-265 (303)
8 cd00385 Isoprenoid_Biosyn_C1 I 97.9 2.4E-05 5.1E-10 55.3 4.8 69 7-76 162-243 (243)
9 KOG1719 Dual specificity phosp 93.8 0.06 1.3E-06 39.0 2.8 30 15-44 119-149 (183)
10 COG3707 AmiR Response regulato 88.1 0.46 1E-05 35.1 2.6 25 24-48 152-176 (194)
11 PF12368 DUF3650: Protein of u 85.5 0.76 1.6E-05 23.8 1.8 18 25-42 9-26 (28)
12 PF03861 ANTAR: ANTAR domain; 81.2 1.6 3.5E-05 25.4 2.3 34 16-49 12-45 (56)
13 smart00463 SMR Small MutS-rela 77.0 4 8.7E-05 25.0 3.3 24 30-53 7-30 (80)
14 PF01713 Smr: Smr domain; Int 76.8 3.9 8.4E-05 25.3 3.2 28 30-57 4-31 (83)
15 COG1308 EGD2 Transcription fac 73.6 4.6 9.9E-05 27.8 3.1 23 21-43 86-108 (122)
16 PTZ00393 protein tyrosine phos 72.2 5.3 0.00012 30.5 3.5 29 16-44 181-209 (241)
17 PF10397 ADSL_C: Adenylosuccin 68.5 12 0.00026 23.2 4.0 32 20-51 6-37 (81)
18 TIGR00264 alpha-NAC-related pr 65.6 10 0.00022 25.9 3.4 27 17-43 76-102 (116)
19 PRK06369 nac nascent polypepti 62.6 13 0.00028 25.4 3.5 27 17-43 74-100 (115)
20 PF14805 THDPS_N_2: Tetrahydro 58.2 42 0.00091 20.7 5.3 34 40-76 2-35 (70)
21 COG2937 PlsB Glycerol-3-phosph 56.8 21 0.00046 31.5 4.6 50 20-73 226-275 (810)
22 PF00782 DSPc: Dual specificit 55.8 14 0.0003 24.2 2.7 26 18-43 86-112 (133)
23 cd00737 endolysin_autolysin En 55.1 48 0.001 22.2 5.4 33 31-66 42-74 (133)
24 cd05175 PI3Kc_IA_alpha Phospho 55.1 12 0.00026 30.3 2.7 32 22-54 320-359 (366)
25 smart00195 DSPc Dual specifici 54.2 21 0.00045 23.6 3.4 26 17-42 90-116 (138)
26 PF08769 Spo0A_C: Sporulation 54.2 51 0.0011 21.8 5.3 30 28-57 48-77 (106)
27 KOG0904 Phosphatidylinositol 3 53.8 15 0.00033 33.2 3.3 26 25-50 1033-1061(1076)
28 PHA01748 hypothetical protein 52.3 39 0.00085 20.0 4.1 32 20-51 14-46 (60)
29 PF02372 IL15: Interleukin 15; 52.2 7.1 0.00015 27.1 0.9 35 20-54 56-97 (135)
30 PF12550 GCR1_C: Transcription 51.1 17 0.00037 22.7 2.4 29 15-43 51-79 (81)
31 cd05173 PI3Kc_IA_beta Phosphoi 50.7 23 0.0005 28.5 3.7 26 25-50 317-345 (362)
32 COG1093 SUI2 Translation initi 50.3 53 0.0011 25.6 5.4 64 9-76 96-169 (269)
33 PTZ00242 protein tyrosine phos 50.0 22 0.00049 25.1 3.2 29 16-44 109-138 (166)
34 PF03000 NPH3: NPH3 family; I 49.3 17 0.00036 28.0 2.6 19 20-38 223-242 (258)
35 smart00400 ZnF_CHCC zinc finge 49.3 26 0.00056 20.0 2.9 21 21-41 34-54 (55)
36 PF09682 Holin_LLH: Phage holi 49.1 19 0.00041 23.7 2.6 34 20-55 74-107 (108)
37 cd00894 PI3Kc_IB_gamma Phospho 49.0 22 0.00048 28.7 3.3 25 25-49 321-348 (365)
38 PF05402 PqqD: Coenzyme PQQ sy 48.8 52 0.0011 19.1 4.5 34 17-50 30-63 (68)
39 PF08285 DPM3: Dolichol-phosph 48.6 23 0.00051 22.9 2.9 21 34-54 66-86 (91)
40 PF07637 PSD5: Protein of unkn 48.1 58 0.0013 19.3 4.5 55 36-107 2-56 (64)
41 cd00686 Terpene_cyclase_cis_tr 47.1 1.2E+02 0.0026 24.6 7.1 53 7-60 228-280 (357)
42 cd05174 PI3Kc_IA_delta Phospho 46.7 25 0.00054 28.3 3.3 27 22-49 315-344 (361)
43 cd00895 PI3Kc_C2_beta Phosphoi 46.4 25 0.00054 28.3 3.3 24 25-48 311-337 (354)
44 cd05165 PI3Kc_I Phosphoinositi 45.7 26 0.00057 28.2 3.3 26 25-50 322-350 (366)
45 PF08519 RFC1: Replication fac 45.5 6.9 0.00015 27.7 0.0 37 11-51 97-133 (155)
46 PF11084 DUF2621: Protein of u 45.5 84 0.0018 22.1 5.3 70 28-102 38-114 (141)
47 PF10249 NDUFB10: NADH-ubiquin 45.5 13 0.00028 25.8 1.4 15 16-30 106-120 (128)
48 PF13798 PCYCGC: Protein of un 45.4 29 0.00064 24.9 3.2 21 38-61 134-154 (158)
49 cd05176 PI3Kc_C2_alpha Phospho 45.0 27 0.00059 28.1 3.3 25 25-49 310-337 (353)
50 PRK13735 conjugal transfer mat 44.8 19 0.00042 32.5 2.6 32 14-45 585-616 (942)
51 PF08328 ASL_C: Adenylosuccina 43.9 31 0.00066 23.6 2.9 52 19-75 55-110 (115)
52 cd05177 PI3Kc_C2_gamma Phospho 43.6 29 0.00063 27.9 3.3 26 25-50 311-339 (354)
53 PHA02896 A-type inclusion like 43.3 60 0.0013 27.8 5.1 45 31-79 5-49 (616)
54 PF09011 HMG_box_2: HMG-box do 41.9 23 0.00051 21.2 2.0 36 20-55 8-49 (73)
55 cd05166 PI3Kc_II Phosphoinosit 41.0 34 0.00073 27.4 3.3 27 22-49 308-337 (353)
56 KOG0506 Glutaminase (contains 40.8 16 0.00036 30.9 1.5 24 8-31 328-351 (622)
57 cd07921 PCA_45_Doxase_A_like S 40.7 22 0.00048 23.9 1.8 28 24-55 37-64 (106)
58 PF06086 Pox_A30L_A26L: Orthop 40.6 69 0.0015 24.2 4.7 47 37-87 22-68 (220)
59 PF15581 Imm35: Immunity prote 40.5 29 0.00063 22.7 2.3 31 25-55 19-49 (93)
60 cd00891 PI3Kc Phosphoinositide 39.7 36 0.00079 27.2 3.3 30 21-51 306-338 (352)
61 PHA02676 A-type inclusion prot 39.1 50 0.0011 27.9 4.0 46 33-82 3-48 (520)
62 PF12668 DUF3791: Protein of u 38.9 49 0.0011 19.5 3.0 24 20-43 5-28 (62)
63 TIGR01542 A118_put_portal phag 38.3 52 0.0011 27.4 4.1 28 21-48 443-470 (476)
64 PF12952 DUF3841: Domain of un 38.0 47 0.001 23.8 3.4 44 3-52 104-153 (178)
65 cd07321 Extradiol_Dioxygenase_ 37.4 27 0.00059 21.7 1.8 28 24-55 27-54 (77)
66 PF06183 DinI: DinI-like famil 36.8 49 0.0011 20.1 2.8 20 31-51 40-59 (65)
67 PF13189 Cytidylate_kin2: Cyti 35.7 43 0.00092 23.6 2.8 37 20-57 125-161 (179)
68 cd00896 PI3Kc_III Phosphoinosi 35.4 47 0.001 26.5 3.3 25 25-49 305-332 (350)
69 COG3140 Uncharacterized protei 35.0 70 0.0015 19.1 3.2 34 21-55 18-51 (60)
70 COG5226 CEG1 mRNA capping enzy 34.9 1.3E+02 0.0028 24.3 5.6 52 2-54 321-374 (404)
71 COG2840 Uncharacterized protei 34.7 55 0.0012 24.0 3.3 40 15-56 89-128 (184)
72 cd05167 PI4Kc_III_alpha Phosph 34.6 50 0.0011 26.0 3.3 25 25-49 265-292 (311)
73 KOG1720 Protein tyrosine phosp 34.6 52 0.0011 24.9 3.2 27 17-43 159-186 (225)
74 cd00893 PI4Kc_III Phosphoinosi 32.9 57 0.0012 25.4 3.3 28 21-49 240-270 (289)
75 TIGR02698 CopY_TcrY copper tra 32.6 90 0.002 21.1 3.9 35 16-51 86-120 (130)
76 PF10540 Membr_traf_MHD: Munc1 32.1 87 0.0019 21.4 3.8 25 65-89 82-106 (137)
77 PF03681 UPF0150: Uncharacteri 32.0 47 0.001 18.2 2.1 17 31-47 28-44 (48)
78 PRK04946 hypothetical protein; 31.9 66 0.0014 23.4 3.3 22 30-51 101-122 (181)
79 KOG0871 Class 2 transcription 31.8 1.1E+02 0.0024 21.9 4.3 26 27-52 109-134 (156)
80 PF00959 Phage_lysozyme: Phage 31.3 1.1E+02 0.0024 19.4 4.1 42 32-75 19-64 (110)
81 cd07977 TFIIE_beta_winged_heli 30.9 60 0.0013 20.1 2.6 25 17-42 9-36 (75)
82 COG2511 GatE Archaeal Glu-tRNA 30.3 1E+02 0.0023 26.6 4.6 66 20-90 457-522 (631)
83 TIGR01930 AcCoA-C-Actrans acet 29.7 98 0.0021 24.6 4.2 41 19-59 153-193 (386)
84 KOG1151 Tousled-like protein k 29.4 72 0.0016 27.4 3.5 34 21-55 553-587 (775)
85 PF00505 HMG_box: HMG (high mo 29.2 82 0.0018 18.0 2.9 18 38-55 28-45 (69)
86 PF12469 DUF3692: CRISPR-assoc 29.0 78 0.0017 21.0 3.1 22 34-55 95-116 (117)
87 PF08153 NGP1NT: NGP1NT (NUC09 28.3 66 0.0014 22.4 2.7 38 33-71 44-81 (130)
88 cd08054 gp6 Head-Tail Connecto 28.3 1.3E+02 0.0029 18.1 3.9 58 27-88 5-71 (91)
89 PF10728 DUF2520: Domain of un 28.2 1E+02 0.0022 21.0 3.6 30 26-55 59-88 (132)
90 PF01484 Col_cuticle_N: Nemato 28.0 59 0.0013 18.0 2.0 18 35-52 36-53 (53)
91 cd07923 Gallate_dioxygenase_C 27.9 48 0.001 21.8 1.8 27 24-54 29-55 (94)
92 PF13348 Y_phosphatase3C: Tyro 27.9 38 0.00083 19.9 1.3 15 22-36 44-59 (68)
93 PF08708 PriCT_1: Primase C te 27.9 1.4E+02 0.0029 17.6 4.7 48 13-66 9-56 (71)
94 cd00127 DSPc Dual specificity 27.8 99 0.0022 20.0 3.5 23 21-43 97-120 (139)
95 cd07922 CarBa CarBa is the A s 26.9 52 0.0011 20.9 1.8 29 24-56 28-56 (81)
96 PF09618 Cas_Csy4: CRISPR-asso 26.8 26 0.00056 25.4 0.4 39 9-47 95-133 (183)
97 cd06199 SiR Cytochrome p450- l 26.4 87 0.0019 24.7 3.4 24 23-46 328-351 (360)
98 PF12244 DUF3606: Protein of u 26.3 1.2E+02 0.0026 17.7 3.2 26 18-43 18-43 (57)
99 cd05168 PI4Kc_III_beta Phospho 26.1 86 0.0019 24.4 3.3 25 26-50 248-275 (293)
100 cd00751 thiolase Thiolase are 26.1 1.6E+02 0.0035 23.2 4.9 39 19-57 152-190 (386)
101 PF02861 Clp_N: Clp amino term 26.0 1.1E+02 0.0024 16.5 2.9 25 21-45 28-52 (53)
102 PRK01285 pyruvoyl-dependent ar 25.8 45 0.00097 23.8 1.5 26 26-51 96-123 (155)
103 KOG4833 Uncharacterized conser 25.7 94 0.002 26.0 3.5 37 21-57 18-56 (573)
104 PRK15364 pathogenicity island 25.5 44 0.00096 24.7 1.4 23 12-34 92-114 (196)
105 PF11989 Dsl1_C: Retrograde tr 25.4 56 0.0012 25.6 2.1 31 74-106 241-271 (291)
106 cd04470 S1_EF-P_repeat_1 S1_EF 25.4 13 0.00028 22.1 -1.2 14 76-89 3-16 (61)
107 TIGR02660 nifV_homocitr homoci 25.4 2.5E+02 0.0053 22.2 5.8 77 24-103 97-180 (365)
108 PRK09282 pyruvate carboxylase 25.3 4.4E+02 0.0095 22.6 8.0 81 14-107 296-376 (592)
109 COG3492 Uncharacterized protei 24.9 49 0.0011 21.9 1.4 25 31-55 62-86 (104)
110 cd05026 S-100Z S-100Z: S-100Z 24.9 1.7E+02 0.0036 18.4 4.0 37 66-103 4-41 (93)
111 cd06203 methionine_synthase_re 24.7 94 0.002 24.8 3.3 24 24-47 367-390 (398)
112 PF01807 zf-CHC2: CHC2 zinc fi 24.6 1E+02 0.0022 19.7 3.0 26 20-45 64-89 (97)
113 COG5499 Predicted transcriptio 24.0 79 0.0017 21.6 2.3 33 4-36 43-78 (120)
114 KOG1257 NADP+-dependent malic 23.8 49 0.0011 28.4 1.6 36 19-54 325-366 (582)
115 TIGR03465 HpnD squalene syntha 23.4 3.2E+02 0.0069 20.3 6.1 44 27-71 171-223 (266)
116 PF10440 WIYLD: Ubiquitin-bind 23.3 1.9E+02 0.0041 17.7 4.7 49 19-72 11-59 (65)
117 PF02512 UK: Virulence determi 23.2 98 0.0021 20.0 2.5 24 32-55 38-62 (96)
118 PHA02593 62 clamp loader small 23.0 1E+02 0.0022 22.8 2.9 34 22-55 127-165 (191)
119 cd07939 DRE_TIM_NifV Streptomy 23.0 3.2E+02 0.0069 20.3 5.8 78 25-104 95-178 (259)
120 PRK11858 aksA trans-homoaconit 22.9 2.7E+02 0.0058 22.2 5.6 77 24-103 100-183 (378)
121 PF02061 Lambda_CIII: Lambda P 22.8 1.6E+02 0.0034 16.6 3.8 25 31-55 12-38 (45)
122 PF12674 Zn_ribbon_2: Putative 22.8 93 0.002 19.6 2.4 16 32-47 42-57 (81)
123 PF03949 Malic_M: Malic enzyme 22.4 40 0.00086 25.9 0.8 34 20-53 41-79 (255)
124 PLN02644 acetyl-CoA C-acetyltr 22.4 1.6E+02 0.0036 23.4 4.3 36 19-54 156-191 (394)
125 PF09317 DUF1974: Domain of un 22.3 3.8E+02 0.0083 20.9 8.1 74 21-107 113-192 (284)
126 PF01132 EFP: Elongation facto 22.2 10 0.00023 22.0 -2.0 15 76-90 2-16 (55)
127 smart00398 HMG high mobility g 22.0 1.6E+02 0.0035 16.5 3.4 18 38-55 29-46 (70)
128 PF03701 UPF0181: Uncharacteri 21.6 1.8E+02 0.004 16.9 4.1 44 3-50 3-46 (51)
129 PF05341 DUF708: Protein of un 21.3 82 0.0018 21.1 2.0 35 46-83 20-54 (105)
130 PF00816 Histone_HNS: H-NS his 21.3 60 0.0013 20.5 1.3 23 15-37 21-43 (93)
131 PF09111 SLIDE: SLIDE; InterP 21.2 1.5E+02 0.0032 20.0 3.3 54 21-77 58-112 (118)
132 PRK06065 acetyl-CoA acetyltran 21.1 98 0.0021 24.9 2.8 14 23-36 156-169 (392)
133 KOG4511 Uncharacterized conser 21.1 1.1E+02 0.0024 24.2 3.0 23 19-41 61-86 (335)
134 COG4046 Uncharacterized protei 21.1 89 0.0019 25.2 2.5 60 37-98 100-160 (368)
135 KOG3109 Haloacid dehalogenase- 21.1 1E+02 0.0023 23.6 2.7 24 20-43 38-62 (244)
136 TIGR00134 gatE_arch glutamyl-t 20.7 3.9E+02 0.0084 23.3 6.4 53 20-76 449-501 (620)
137 cd06202 Nitric_oxide_synthase 20.5 1.3E+02 0.0027 24.2 3.3 24 23-46 370-393 (406)
138 cd07925 LigA_like_1 The A subu 20.3 1.7E+02 0.0038 19.6 3.4 28 24-55 37-64 (106)
139 KOG4841 Dolichol-phosphate man 20.3 1.4E+02 0.003 19.5 2.8 21 34-54 70-90 (95)
No 1
>PLN02150 terpene synthase/cyclase family protein
Probab=100.00 E-value=2.6e-44 Score=237.75 Aligned_cols=94 Identities=24% Similarity=0.469 Sum_probs=91.0
Q ss_pred HhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHhhh-cccCCCCcCCc
Q 044570 14 LKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQCM-YQFGEGHRHGV 92 (109)
Q Consensus 14 ~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~~~-Y~~~Dgyt~~~ 92 (109)
|+|||+||+|+|||||||+|+|||+++|+++|+++||+||+|+|++++ +|.+++++++|+||+++|+ |+++||||. +
T Consensus 1 ~~rg~vaSsIeCYMke~g~seeeA~~~i~~li~~~WK~iN~e~l~~~~-~p~~~~~~~~NlaR~~~~~~Y~~~Dg~t~-~ 78 (96)
T PLN02150 1 MRRGEVANGVNCYMKQHGVTKEEAVSELKKMIRDNYKIVMEEFLTIKD-VPRPVLVRCLNLARLIDVYCYNEGDGFTY-P 78 (96)
T ss_pred CCCCcchHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHcCCCC-CCHHHHHHHHHHHHHHHhheecCCCCCCC-C
Confidence 579999999999999999999999999999999999999999999888 9999999999999999999 999999998 6
Q ss_pred hhHHHHHHHhcccCcCC
Q 044570 93 QEITKARVLSLIIDPIA 109 (109)
Q Consensus 93 ~~~~k~~I~sll~~Pi~ 109 (109)
+..+|++|.+||++|||
T Consensus 79 ~~~~K~~I~sLlv~pi~ 95 (96)
T PLN02150 79 HGKLKDLITSLFFHPLP 95 (96)
T ss_pred cHHHHHHHHHHhccCCC
Confidence 77999999999999986
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=99.97 E-value=5e-31 Score=216.45 Aligned_cols=99 Identities=38% Similarity=0.647 Sum_probs=95.9
Q ss_pred eeeehhHHhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCC-CCcCcHHHHHHHHHHHhhHhhhcccC
Q 044570 7 SVAAPDELKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGN-PHFVSDVFVGIAMNLARMSQCMYQFG 85 (109)
Q Consensus 7 i~s~~~E~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~-~~~~p~~~~~~~~NlaR~~~~~Y~~~ 85 (109)
|+||++|+++|+++|+|+|||+|+|+|+|+|+++++++|+++||+||++++++ ++ +|++|+++++|+||+++++|+++
T Consensus 443 i~S~~kE~~rGdv~n~V~~ymke~g~s~eeA~~~i~~~ie~~wk~ln~e~l~~~~~-~p~~~~~~~~n~~r~~~~~Y~~~ 521 (542)
T cd00684 443 IATYEDEMKRGDVASSIECYMKEYGVSEEEAREEIKKMIEDAWKELNEEFLKPSSD-VPRPIKQRFLNLARVIDVFYKEG 521 (542)
T ss_pred hhhhHHHHhcCCcccHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCC-CCHHHHHHHHHHHHHHHHHhcCC
Confidence 68999999999999999999999999999999999999999999999999987 67 99999999999999999999999
Q ss_pred CCCcCCchhHHHHHHHhcccCc
Q 044570 86 EGHRHGVQEITKARVLSLIIDP 107 (109)
Q Consensus 86 Dgyt~~~~~~~k~~I~sll~~P 107 (109)
||||. |++.+|++|++||++|
T Consensus 522 D~~t~-~~~~~~~~i~~ll~~p 542 (542)
T cd00684 522 DGFTH-PEGEIKDHITSLLFEP 542 (542)
T ss_pred CCCCC-ccHHHHHHHHHHhcCC
Confidence 99999 7778999999999998
No 3
>PLN02279 ent-kaur-16-ene synthase
Probab=99.96 E-value=3.5e-30 Score=218.52 Aligned_cols=98 Identities=18% Similarity=0.243 Sum_probs=93.0
Q ss_pred eeeehhHHhcCCchhHHHHHHhhc--CCCHHHHHHHHHHHHHHHHHhhchhhcCC--CCcCcHHHHHHHHHHHhhHhhhc
Q 044570 7 SVAAPDELKRGDVHKSIQCYMHEA--GVSEREAREHIHDLIAQTWMKMNRDRFGN--PHFVSDVFVGIAMNLARMSQCMY 82 (109)
Q Consensus 7 i~s~~~E~~rg~~~ssI~cYMke~--g~seEeA~~~i~~~ie~~wK~ln~e~l~~--~~~~p~~~~~~~~NlaR~~~~~Y 82 (109)
|+||++|++|||+ |+|+|||||| |+|+|||+++|+++|+++||+||++++++ ++ +|++|++++||++|++++||
T Consensus 676 I~S~e~E~~rG~~-nsV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn~~~l~~~~~~-vp~~~~~~~ln~aR~~~~~Y 753 (784)
T PLN02279 676 IRGFKRESKEGKL-NAVSLHMIHGNGNSTEEEAIESMKGLIESQRRELLRLVLQEKGSN-VPRECKDLFWKMSKVLHLFY 753 (784)
T ss_pred ccccHhHHhCCCc-ceehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCC-CCHHHHHHHHHHHHhhhhhe
Confidence 7899999999998 9999999997 89999999999999999999999999964 45 99999999999999999999
Q ss_pred ccCCCCcCCchhHHHHHHHhcccCcCC
Q 044570 83 QFGEGHRHGVQEITKARVLSLIIDPIA 109 (109)
Q Consensus 83 ~~~Dgyt~~~~~~~k~~I~sll~~Pi~ 109 (109)
+++||||. + .||++|++||++||+
T Consensus 754 ~~~Dgyt~-~--~~k~~i~~ll~ePi~ 777 (784)
T PLN02279 754 RKDDGFTS-N--DMMSLVKSVIYEPVS 777 (784)
T ss_pred eCCCCCCh-H--HHHHHHHHHhccCCc
Confidence 99999997 4 699999999999986
No 4
>PLN02592 ent-copalyl diphosphate synthase
Probab=99.19 E-value=3.8e-11 Score=102.99 Aligned_cols=69 Identities=10% Similarity=0.138 Sum_probs=61.1
Q ss_pred CCHHHHHHHHHHHHHHHHHhhchhhcCC--CCcCcHHHHHHHHHHHhhHhhhcccCCCCcCCchhHHHHHHHhcccCcCC
Q 044570 32 VSEREAREHIHDLIAQTWMKMNRDRFGN--PHFVSDVFVGIAMNLARMSQCMYQFGEGHRHGVQEITKARVLSLIIDPIA 109 (109)
Q Consensus 32 ~seEeA~~~i~~~ie~~wK~ln~e~l~~--~~~~p~~~~~~~~NlaR~~~~~Y~~~Dgyt~~~~~~~k~~I~sll~~Pi~ 109 (109)
.|+ +|++++++.|+..+++|.+.+++. +. +|++|+++||+++| +||.. ||+. | ++|++||.++|++||+
T Consensus 730 ~~~-~a~~~~~~~ie~~~~eL~~lvl~~~~~~-vp~~cK~~f~~~~k---~fy~~--~~~~-~-~~~~~~i~~vl~epv~ 800 (800)
T PLN02592 730 YNP-EEKSKTTPSIESDMQELVQLVLQNSSDD-IDPVIKQTFLMVAK---SFYYA--AYCD-P-GTINYHIAKVLFERVA 800 (800)
T ss_pred ccH-HHHHHHHHHHHHHHHHHHHHHhhcCCCC-CCHHHHHHHHHHHH---HHHHh--hcCC-H-HHHHHHHHHHhCCCCC
Confidence 444 899999999999999999999963 35 99999999999999 46666 9998 6 6899999999999985
No 5
>cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1. Terpene cyclases, Class 1 (C1) of the class 1 family of isoprenoid biosynthesis enzymes, which share the 'isoprenoid synthase fold' and convert linear, all-trans, isoprenoids, geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate into numerous cyclic forms of monoterpenes, diterpenes, and sesquiterpenes. Also included in this CD are the cis-trans terpene cyclases such as trichodiene synthase. The class I terpene cyclization reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl phosphates via bridging Mg2+ ions, inducing proposed conformational ch
Probab=99.16 E-value=1.2e-10 Score=87.09 Aligned_cols=75 Identities=33% Similarity=0.583 Sum_probs=68.8
Q ss_pred eeeehhHHhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCC-CCcCcHHHHHHHHHHHhhHhhhc
Q 044570 7 SVAAPDELKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGN-PHFVSDVFVGIAMNLARMSQCMY 82 (109)
Q Consensus 7 i~s~~~E~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~-~~~~p~~~~~~~~NlaR~~~~~Y 82 (109)
+.||++|+.+|+..|.|.|||+++|+|.++|++++.+++++.|+++++.+.+. .+ .|+.+++.+.+..|.....|
T Consensus 209 l~S~~kE~~~g~~~N~v~vl~~~~~~~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~g~~~w~ 284 (284)
T cd00868 209 IASYEKEIARGEVANSVECYMKEYGVSEEEALEELRKMIEEAWKELNEEVLKLSSD-VPRAVLETLLNLARGIYVWY 284 (284)
T ss_pred chHHHHHHccCCcccHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCC-CCHHHHHHHHHHHHhhhhcC
Confidence 57999999999999999999999999999999999999999999999999864 35 78999999999999887654
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=98.51 E-value=6.2e-08 Score=71.85 Aligned_cols=47 Identities=30% Similarity=0.474 Sum_probs=45.5
Q ss_pred eeeehhHHhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhc
Q 044570 7 SVAAPDELKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMN 53 (109)
Q Consensus 7 i~s~~~E~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln 53 (109)
|.||++|..+|+..|.|.|+|+++|+|.|+|+.++.++++++++++|
T Consensus 224 l~S~~KE~~~g~~~N~v~~l~~~~~~s~e~A~~~v~~~~~~~~~efn 270 (270)
T PF03936_consen 224 LYSYKKEIARGDVHNLVVVLMNEHGLSLEEAVDEVAEMINECIREFN 270 (270)
T ss_dssp HHHHHHHHHTTSCCSHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cchhhcchhhcccccHHHHhhhhcCCCHHHHHHHHHHHHHHHHHhcC
Confidence 67999999999999999999999999999999999999999999997
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=98.29 E-value=1.1e-06 Score=66.86 Aligned_cols=50 Identities=20% Similarity=0.304 Sum_probs=46.2
Q ss_pred eeeehhHH-hcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhh
Q 044570 7 SVAAPDEL-KRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDR 56 (109)
Q Consensus 7 i~s~~~E~-~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~ 56 (109)
|.||++|+ ..|++.|.|.|+|+++|+|.++|++++..++.+.++++.+..
T Consensus 215 l~S~~KE~~~~g~~~N~V~vl~~~~g~s~~eA~~~~~~~~~~~~~~f~~~~ 265 (303)
T cd00687 215 IYSYEKEIKANGEVHNLVKVLAEEHGLSLEEAISVVRDMHNERITQFEELE 265 (303)
T ss_pred HHhhHHHHHhCCccchHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67999999 899999999999999999999999999999999998876654
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=97.88 E-value=2.4e-05 Score=55.32 Aligned_cols=69 Identities=26% Similarity=0.319 Sum_probs=56.9
Q ss_pred eeeehhHHhcC-CchhHHHHHHhhcCC------------CHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHH
Q 044570 7 SVAAPDELKRG-DVHKSIQCYMHEAGV------------SEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMN 73 (109)
Q Consensus 7 i~s~~~E~~rg-~~~ssI~cYMke~g~------------seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N 73 (109)
+.++..|.+++ +..+.+.+||+++|. +.++|.+++..+++++|+++++....... .++.+++.+.+
T Consensus 162 l~~~~~e~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 240 (243)
T cd00385 162 LLDYEGDAERGEGKCTLPVLYALEYGVPAEDLLLVEKSGSLEEALEELAKLAEEALKELNELILSLPD-VPRALLALALN 240 (243)
T ss_pred HHhccCCHHHhCCchHHHHHHHHHhCChhhHHHHHHHCChHHHHHHHHHHHHHHHHHHHhcCCCCcHH-HHHHHHHHHHH
Confidence 45778888774 566999999999998 78999999999999999999998765334 67778888877
Q ss_pred HHh
Q 044570 74 LAR 76 (109)
Q Consensus 74 laR 76 (109)
+.|
T Consensus 241 ~~~ 243 (243)
T cd00385 241 LYR 243 (243)
T ss_pred HhC
Confidence 754
No 9
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=93.84 E-value=0.06 Score=38.97 Aligned_cols=30 Identities=20% Similarity=0.449 Sum_probs=26.8
Q ss_pred hcCCchhHHHHHHhhc-CCCHHHHHHHHHHH
Q 044570 15 KRGDVHKSIQCYMHEA-GVSEREAREHIHDL 44 (109)
Q Consensus 15 ~rg~~~ssI~cYMke~-g~seEeA~~~i~~~ 44 (109)
.||..++.|-||+-++ +.|.|+|.++++++
T Consensus 119 GRtRSaTvV~cYLmq~~~wtpe~A~~~vr~i 149 (183)
T KOG1719|consen 119 GRTRSATVVACYLMQHKNWTPEAAVEHVRKI 149 (183)
T ss_pred CCccchhhhhhhhhhhcCCCHHHHHHHHHhc
Confidence 5677789999999998 99999999999874
No 10
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=88.07 E-value=0.46 Score=35.13 Aligned_cols=25 Identities=24% Similarity=0.286 Sum_probs=21.1
Q ss_pred HHHHhhcCCCHHHHHHHHHHHHHHH
Q 044570 24 QCYMHEAGVSEREAREHIHDLIAQT 48 (109)
Q Consensus 24 ~cYMke~g~seEeA~~~i~~~ie~~ 48 (109)
-..|+.+|.||+||+++++++.-+-
T Consensus 152 glLM~~~g~sE~EAy~~lR~~AM~R 176 (194)
T COG3707 152 GLLMKRRGLSEEEAYKLLRRTAMDR 176 (194)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHhc
Confidence 3579999999999999999876443
No 11
>PF12368 DUF3650: Protein of unknown function (DUF3650) ; InterPro: IPR022111 This domain family is found in bacteria, and is approximately 30 amino acids in length. The family is found in association with PF00581 from PFAM. There is a single completely conserved residue N that may be functionally important.
Probab=85.51 E-value=0.76 Score=23.79 Aligned_cols=18 Identities=39% Similarity=0.639 Sum_probs=14.7
Q ss_pred HHHhhcCCCHHHHHHHHH
Q 044570 25 CYMHEAGVSEREAREHIH 42 (109)
Q Consensus 25 cYMke~g~seEeA~~~i~ 42 (109)
-|.++||.|+|+-.+.+.
T Consensus 9 rYV~eh~ls~ee~~~RL~ 26 (28)
T PF12368_consen 9 RYVKEHGLSEEEVAERLA 26 (28)
T ss_pred hhHHhcCCCHHHHHHHHH
Confidence 599999999998766554
No 12
>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=81.24 E-value=1.6 Score=25.41 Aligned_cols=34 Identities=21% Similarity=0.205 Sum_probs=24.9
Q ss_pred cCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHH
Q 044570 16 RGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTW 49 (109)
Q Consensus 16 rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~w 49 (109)
|.-+.-|.-.-|..+|+|+++|.+.++..-.+.-
T Consensus 12 r~~I~~AkgiLm~~~g~~e~~A~~~Lr~~Am~~~ 45 (56)
T PF03861_consen 12 RRVIEQAKGILMARYGLSEDEAYRLLRRQAMRRR 45 (56)
T ss_dssp HHHHHHHHHHHHHHHT--HHHHHHHHHHHHHHCT
T ss_pred hHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHcC
Confidence 3345677888999999999999999988765543
No 13
>smart00463 SMR Small MutS-related domain.
Probab=76.97 E-value=4 Score=25.01 Aligned_cols=24 Identities=17% Similarity=0.250 Sum_probs=21.9
Q ss_pred cCCCHHHHHHHHHHHHHHHHHhhc
Q 044570 30 AGVSEREAREHIHDLIAQTWMKMN 53 (109)
Q Consensus 30 ~g~seEeA~~~i~~~ie~~wK~ln 53 (109)
||.|.++|+..+...|+++|+.-.
T Consensus 7 HG~~~~eA~~~l~~~l~~~~~~~~ 30 (80)
T smart00463 7 HGLTVEEALTALDKFLNNARLKGL 30 (80)
T ss_pred CCCCHHHHHHHHHHHHHHHHHcCC
Confidence 699999999999999999998754
No 14
>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=76.78 E-value=3.9 Score=25.28 Aligned_cols=28 Identities=14% Similarity=0.234 Sum_probs=23.1
Q ss_pred cCCCHHHHHHHHHHHHHHHHHhhchhhc
Q 044570 30 AGVSEREAREHIHDLIAQTWMKMNRDRF 57 (109)
Q Consensus 30 ~g~seEeA~~~i~~~ie~~wK~ln~e~l 57 (109)
||.+.++|...+...|+.+|+.-.+.+.
T Consensus 4 HG~~~~eA~~~l~~~l~~~~~~~~~~~~ 31 (83)
T PF01713_consen 4 HGLTVEEALRALEEFLDEARQRGIRELR 31 (83)
T ss_dssp TTS-HHHHHHHHHHHHHHHHHTTHSEEE
T ss_pred CCCcHHHHHHHHHHHHHHHHHcCCCEEE
Confidence 6999999999999999999976665543
No 15
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=73.59 E-value=4.6 Score=27.84 Aligned_cols=23 Identities=35% Similarity=0.527 Sum_probs=19.5
Q ss_pred hHHHHHHhhcCCCHHHHHHHHHH
Q 044570 21 KSIQCYMHEAGVSEREAREHIHD 43 (109)
Q Consensus 21 ssI~cYMke~g~seEeA~~~i~~ 43 (109)
-=|..-|.|.|+|.|+|++.+.+
T Consensus 86 eDIkLV~eQa~VsreeA~kAL~e 108 (122)
T COG1308 86 EDIKLVMEQAGVSREEAIKALEE 108 (122)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHH
Confidence 45788999999999999987764
No 16
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=72.22 E-value=5.3 Score=30.51 Aligned_cols=29 Identities=21% Similarity=0.140 Sum_probs=24.9
Q ss_pred cCCchhHHHHHHhhcCCCHHHHHHHHHHH
Q 044570 16 RGDVHKSIQCYMHEAGVSEREAREHIHDL 44 (109)
Q Consensus 16 rg~~~ssI~cYMke~g~seEeA~~~i~~~ 44 (109)
.|-.+..+-|||-++|.|.++|++.|+..
T Consensus 181 lGRTGtl~AayLI~~GmspeeAI~~VR~~ 209 (241)
T PTZ00393 181 LGRAPVLASIVLIEFGMDPIDAIVFIRDR 209 (241)
T ss_pred CCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 45567889999999999999999999864
No 17
>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=68.53 E-value=12 Score=23.22 Aligned_cols=32 Identities=19% Similarity=0.449 Sum_probs=27.0
Q ss_pred hhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHh
Q 044570 20 HKSIQCYMHEAGVSEREAREHIHDLIAQTWMK 51 (109)
Q Consensus 20 ~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ 51 (109)
+.+|...+-+.|++.++|.+-+++..-.+|++
T Consensus 6 SE~v~~~L~~~G~gR~~Ah~lv~~~a~~a~~~ 37 (81)
T PF10397_consen 6 SERVMLALAEKGLGRQEAHELVQEAAMEAWEN 37 (81)
T ss_dssp HHHHHHHHHHTTH-HHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHH
Confidence 45677777888999999999999999999984
No 18
>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=65.64 E-value=10 Score=25.95 Aligned_cols=27 Identities=26% Similarity=0.382 Sum_probs=22.2
Q ss_pred CCchhHHHHHHhhcCCCHHHHHHHHHH
Q 044570 17 GDVHKSIQCYMHEAGVSEREAREHIHD 43 (109)
Q Consensus 17 g~~~ssI~cYMke~g~seEeA~~~i~~ 43 (109)
+=...-|+.-|.+.|+|.++|++.+.+
T Consensus 76 ~i~~eDI~lV~eq~gvs~e~A~~AL~~ 102 (116)
T TIGR00264 76 EITEDDIELVMKQCNVSKEEARRALEE 102 (116)
T ss_pred CCCHHHHHHHHHHhCcCHHHHHHHHHH
Confidence 344678999999999999999987753
No 19
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=62.63 E-value=13 Score=25.37 Aligned_cols=27 Identities=30% Similarity=0.421 Sum_probs=22.6
Q ss_pred CCchhHHHHHHhhcCCCHHHHHHHHHH
Q 044570 17 GDVHKSIQCYMHEAGVSEREAREHIHD 43 (109)
Q Consensus 17 g~~~ssI~cYMke~g~seEeA~~~i~~ 43 (109)
|-...-|+.-|.+.|+|.++|++.+.+
T Consensus 74 ~i~~edI~lv~~q~gvs~~~A~~AL~~ 100 (115)
T PRK06369 74 EIPEEDIELVAEQTGVSEEEARKALEE 100 (115)
T ss_pred CCCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 445788999999999999999987754
No 20
>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=58.25 E-value=42 Score=20.75 Aligned_cols=34 Identities=12% Similarity=0.345 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHh
Q 044570 40 HIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLAR 76 (109)
Q Consensus 40 ~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR 76 (109)
.++..|+.+|.. ++-+.+.. .+...+..+..+-.
T Consensus 2 ~l~~~Ie~aw~~--r~~l~~~~-~~~~~~~av~~~i~ 35 (70)
T PF14805_consen 2 QLQKIIEAAWEN--RDELTPSN-ADPELRDAVEEVIE 35 (70)
T ss_dssp HHHHHHHHHHHG--GGG-BTTT---HHHHHHHHHHHH
T ss_pred hHHHHHHHHHHh--HhhCCCcc-CCHHHHHHHHHHHH
Confidence 578999999987 66666555 66666666655433
No 21
>COG2937 PlsB Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]
Probab=56.76 E-value=21 Score=31.55 Aligned_cols=50 Identities=18% Similarity=0.206 Sum_probs=39.2
Q ss_pred hhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHH
Q 044570 20 HKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMN 73 (109)
Q Consensus 20 ~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N 73 (109)
-.||.-+-|..|+|.|+|.+...++.++.|.+.+-+.++ +-.-++...||
T Consensus 226 r~aia~eak~~~is~EkA~k~a~~~a~eiaa~fS~~~vr----~~dr~ls~~wn 275 (810)
T COG2937 226 RKAIADEARSKGISVEKAQKMADELATEIAADFSYELIR----VLDRILSRGWN 275 (810)
T ss_pred HHHHhhHhhccCCCHHHHHHHHHHHHHHHHHhccHHHHH----HHHHHHHHhhh
Confidence 356788888999999999999999999999998877664 22245555555
No 22
>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=55.78 E-value=14 Score=24.22 Aligned_cols=26 Identities=23% Similarity=0.293 Sum_probs=20.7
Q ss_pred CchhHHHHHHhhc-CCCHHHHHHHHHH
Q 044570 18 DVHKSIQCYMHEA-GVSEREAREHIHD 43 (109)
Q Consensus 18 ~~~ssI~cYMke~-g~seEeA~~~i~~ 43 (109)
-.+..+-+|+-.. |.|.++|.++++.
T Consensus 86 RS~~v~~ayLm~~~~~~~~~A~~~v~~ 112 (133)
T PF00782_consen 86 RSGAVAAAYLMKKNGMSLEEAIEYVRS 112 (133)
T ss_dssp HHHHHHHHHHHHHHTSSHHHHHHHHHH
T ss_pred cchHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 3467788888775 9999999998854
No 23
>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=55.13 E-value=48 Score=22.22 Aligned_cols=33 Identities=15% Similarity=0.128 Sum_probs=26.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHH
Q 044570 31 GVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDV 66 (109)
Q Consensus 31 g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~ 66 (109)
.+|+++|.+-+...++...+.+++.+. .+ +|+.
T Consensus 42 ~iT~~qa~~ll~~dl~~~~~~v~~~~~--~~-l~~~ 74 (133)
T cd00737 42 TITEEQADALLAKDLAKAERAVNRAVK--VP-LTQN 74 (133)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHcC--CC-CCHH
Confidence 689999999999999999999876542 34 6654
No 24
>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=55.05 E-value=12 Score=30.29 Aligned_cols=32 Identities=28% Similarity=0.534 Sum_probs=25.4
Q ss_pred HHHHHHhhc---CCCHHHHHHHHHHHHHHH----HH-hhch
Q 044570 22 SIQCYMHEA---GVSEREAREHIHDLIAQT----WM-KMNR 54 (109)
Q Consensus 22 sI~cYMke~---g~seEeA~~~i~~~ie~~----wK-~ln~ 54 (109)
.|+ |+++. +.|+|||.+++..+|.++ |+ .+|+
T Consensus 320 ~i~-~lr~rf~l~~sd~eA~~~f~~~I~~s~~~~w~t~~n~ 359 (366)
T cd05175 320 DIA-YIRKTLALDKTEQEALEYFMKQMNDAHHGGWTTKMDW 359 (366)
T ss_pred HHH-HHHHhcCCCCCHHHHHHHHHHHHHHHHhcCceeeehH
Confidence 354 89986 789999999999999887 65 3554
No 25
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=54.25 E-value=21 Score=23.60 Aligned_cols=26 Identities=15% Similarity=0.236 Sum_probs=19.3
Q ss_pred CCchhHHHHHH-hhcCCCHHHHHHHHH
Q 044570 17 GDVHKSIQCYM-HEAGVSEREAREHIH 42 (109)
Q Consensus 17 g~~~ssI~cYM-ke~g~seEeA~~~i~ 42 (109)
|-.+..+-||+ ...|.|.++|.+.++
T Consensus 90 ~RS~~v~~~yl~~~~~~~~~~A~~~v~ 116 (138)
T smart00195 90 SRSATLIIAYLMKYRNLSLNDAYDFVK 116 (138)
T ss_pred chHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 34456677885 556999999999885
No 26
>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=54.23 E-value=51 Score=21.80 Aligned_cols=30 Identities=17% Similarity=0.364 Sum_probs=22.6
Q ss_pred hhcCCCHHHHHHHHHHHHHHHHHhhchhhc
Q 044570 28 HEAGVSEREAREHIHDLIAQTWMKMNRDRF 57 (109)
Q Consensus 28 ke~g~seEeA~~~i~~~ie~~wK~ln~e~l 57 (109)
+.||+|...-.+.|+..|+.+|..=|.+++
T Consensus 48 ~k~~TT~s~VERaIR~aI~~~w~~g~~~~l 77 (106)
T PF08769_consen 48 KKYGTTPSRVERAIRHAIEVAWTRGNPELL 77 (106)
T ss_dssp HHTTS-HHHHHHHHHHHHHHHHHCS-CCCC
T ss_pred HHHCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence 467999888888999999999996555543
No 27
>KOG0904 consensus Phosphatidylinositol 3-kinase catalytic subunit (p110) [Signal transduction mechanisms]
Probab=53.80 E-value=15 Score=33.17 Aligned_cols=26 Identities=23% Similarity=0.381 Sum_probs=22.4
Q ss_pred HHHhhc---CCCHHHHHHHHHHHHHHHHH
Q 044570 25 CYMHEA---GVSEREAREHIHDLIAQTWM 50 (109)
Q Consensus 25 cYMke~---g~seEeA~~~i~~~ie~~wK 50 (109)
-|+|+. |-|||||+++++..+++|..
T Consensus 1033 ~ylrdtL~l~ktEEeA~k~F~~k~~eA~~ 1061 (1076)
T KOG0904|consen 1033 DYLRDTLALGKTEEEALKYFRDKFEEALR 1061 (1076)
T ss_pred HHHHHHHhcCCcHHHHHHHHHHHHHHHHh
Confidence 388886 88999999999999998843
No 28
>PHA01748 hypothetical protein
Probab=52.30 E-value=39 Score=20.02 Aligned_cols=32 Identities=19% Similarity=0.352 Sum_probs=24.6
Q ss_pred hhHHHHHHhhcCCCHHH-HHHHHHHHHHHHHHh
Q 044570 20 HKSIQCYMHEAGVSERE-AREHIHDLIAQTWMK 51 (109)
Q Consensus 20 ~ssI~cYMke~g~seEe-A~~~i~~~ie~~wK~ 51 (109)
..-++-|.+++|++..+ .++.|+..+++.|.+
T Consensus 14 ~~eld~~a~~~g~~RSE~Ir~Ai~~~~~~~~~~ 46 (60)
T PHA01748 14 LELLDRYAIKHGLNRSEAIRKAIEKMVKDELKK 46 (60)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHh
Confidence 46688899999998744 556678888888865
No 29
>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=52.23 E-value=7.1 Score=27.06 Aligned_cols=35 Identities=26% Similarity=0.409 Sum_probs=19.3
Q ss_pred hhHHHHHHhhc-CCCH------HHHHHHHHHHHHHHHHhhch
Q 044570 20 HKSIQCYMHEA-GVSE------REAREHIHDLIAQTWMKMNR 54 (109)
Q Consensus 20 ~ssI~cYMke~-g~se------EeA~~~i~~~ie~~wK~ln~ 54 (109)
-++++||++|- .+.. .+..+.+..+|...-+.|+.
T Consensus 56 ~sal~CF~~El~vvl~E~~~~~~~~~~~i~~~i~~~~~~l~~ 97 (135)
T PF02372_consen 56 VSALKCFQKELKVVLKESNIDNSEINETIENLIKQINRNLSS 97 (135)
T ss_dssp HHHHHHHHHHHHHHHHHCSTCHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHhhhcch
Confidence 48999999986 3332 22334444444444444443
No 30
>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=51.07 E-value=17 Score=22.67 Aligned_cols=29 Identities=31% Similarity=0.413 Sum_probs=23.5
Q ss_pred hcCCchhHHHHHHhhcCCCHHHHHHHHHH
Q 044570 15 KRGDVHKSIQCYMHEAGVSEREAREHIHD 43 (109)
Q Consensus 15 ~rg~~~ssI~cYMke~g~seEeA~~~i~~ 43 (109)
.|..+-..|+.+.++.|.|.++|++.+-.
T Consensus 51 rRK~Ii~~I~~l~~~~g~~~~~ai~~le~ 79 (81)
T PF12550_consen 51 RRKVIIDFIERLANERGISEEEAIEILEE 79 (81)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 45567788988888899999999987654
No 31
>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=50.66 E-value=23 Score=28.54 Aligned_cols=26 Identities=23% Similarity=0.397 Sum_probs=22.4
Q ss_pred HHHhhc---CCCHHHHHHHHHHHHHHHHH
Q 044570 25 CYMHEA---GVSEREAREHIHDLIAQTWM 50 (109)
Q Consensus 25 cYMke~---g~seEeA~~~i~~~ie~~wK 50 (109)
-|+++. +.|+|+|.++++++|+++-+
T Consensus 317 ~~l~~r~~l~~se~eA~~~f~~~i~~s~~ 345 (362)
T cd05173 317 QYLKDSLALGKSEEEALKQFRQKFDEALR 345 (362)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence 488886 88999999999999998764
No 32
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=50.26 E-value=53 Score=25.58 Aligned_cols=64 Identities=16% Similarity=0.190 Sum_probs=46.9
Q ss_pred eehhHHhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhh----------chhhcCCCCcCcHHHHHHHHHHHh
Q 044570 9 AAPDELKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKM----------NRDRFGNPHFVSDVFVGIAMNLAR 76 (109)
Q Consensus 9 s~~~E~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~l----------n~e~l~~~~~~p~~~~~~~~NlaR 76 (109)
.+++||+ ..+-++.-++..|.+.++|.+.+---+++.+=++ +.++|.+.+ +|...+..+.++||
T Consensus 96 ~wk~~qk---a~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~~g~~~l~~~~-~~~~~~~~l~e~a~ 169 (269)
T COG1093 96 EWKKEQK---ADKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAKEGGEVLDDEG-VPEEWKEVLKEIAR 169 (269)
T ss_pred HHHHHHH---HHHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHhcCCcccccCC-CCHHHHHHHHHHHH
Confidence 3455544 3466777888889999999999888777776544 344555556 88889999999887
No 33
>PTZ00242 protein tyrosine phosphatase; Provisional
Probab=49.99 E-value=22 Score=25.07 Aligned_cols=29 Identities=14% Similarity=0.146 Sum_probs=23.1
Q ss_pred cCCchhHHHHHHhhc-CCCHHHHHHHHHHH
Q 044570 16 RGDVHKSIQCYMHEA-GVSEREAREHIHDL 44 (109)
Q Consensus 16 rg~~~ssI~cYMke~-g~seEeA~~~i~~~ 44 (109)
.|-.+..+-|||-++ |.|.++|++.++..
T Consensus 109 igRSgt~~a~yL~~~~~~s~~eAi~~vr~~ 138 (166)
T PTZ00242 109 LGRAPILVALALVEYGGMEPLDAVGFVREK 138 (166)
T ss_pred CCHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence 455677889999888 59999999888653
No 34
>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=49.34 E-value=17 Score=27.96 Aligned_cols=19 Identities=32% Similarity=0.634 Sum_probs=16.6
Q ss_pred hhHHHHHHhhc-CCCHHHHH
Q 044570 20 HKSIQCYMHEA-GVSEREAR 38 (109)
Q Consensus 20 ~ssI~cYMke~-g~seEeA~ 38 (109)
=.||..|+|.| ++|++|-.
T Consensus 223 YrAID~YLk~Hp~ls~~Er~ 242 (258)
T PF03000_consen 223 YRAIDIYLKAHPGLSEEERK 242 (258)
T ss_pred HHHHHHHHHHcccCCHHHHH
Confidence 37999999999 99998865
No 35
>smart00400 ZnF_CHCC zinc finger.
Probab=49.31 E-value=26 Score=20.03 Aligned_cols=21 Identities=24% Similarity=0.172 Sum_probs=18.3
Q ss_pred hHHHHHHhhcCCCHHHHHHHH
Q 044570 21 KSIQCYMHEAGVSEREAREHI 41 (109)
Q Consensus 21 ssI~cYMke~g~seEeA~~~i 41 (109)
++|+.||+-+|+|-.||.+.|
T Consensus 34 d~i~fv~~~~~~sf~eA~~~L 54 (55)
T smart00400 34 NVISFLMKYDKLSFVEAVKKL 54 (55)
T ss_pred CHHHHHHHHHCcCHHHHHHHh
Confidence 679999999999999998765
No 36
>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=49.08 E-value=19 Score=23.73 Aligned_cols=34 Identities=15% Similarity=0.282 Sum_probs=24.0
Q ss_pred hhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchh
Q 044570 20 HKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 20 ~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e 55 (109)
-+.|.-+++++|++.-++ .|..+||.+.++||.+
T Consensus 74 ~~~v~~~L~~~gi~~t~~--~i~~~IEaAV~~m~~~ 107 (108)
T PF09682_consen 74 VQYVKERLKKKGIKVTDE--QIEGAIEAAVKEMNDE 107 (108)
T ss_pred HHHHHHHHHHcCCCCCHH--HHHHHHHHHHHHHhhc
Confidence 356667788887533222 3889999999999975
No 37
>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=48.99 E-value=22 Score=28.71 Aligned_cols=25 Identities=36% Similarity=0.557 Sum_probs=22.0
Q ss_pred HHHhhc---CCCHHHHHHHHHHHHHHHH
Q 044570 25 CYMHEA---GVSEREAREHIHDLIAQTW 49 (109)
Q Consensus 25 cYMke~---g~seEeA~~~i~~~ie~~w 49 (109)
-|+++. +.|+++|.+++.++|+++-
T Consensus 321 ~~l~~~~~l~~se~eA~~~f~~~I~~s~ 348 (365)
T cd00894 321 EYIRDALTVGKSEEDAKKHFLDQIEVCR 348 (365)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 388886 8999999999999999874
No 38
>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=48.83 E-value=52 Score=19.06 Aligned_cols=34 Identities=21% Similarity=0.305 Sum_probs=22.6
Q ss_pred CCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHH
Q 044570 17 GDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWM 50 (109)
Q Consensus 17 g~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK 50 (109)
..+...++....+++++.++|.+.+...++..++
T Consensus 30 ~t~~ei~~~l~~~y~~~~~~~~~dv~~fl~~L~~ 63 (68)
T PF05402_consen 30 RTVEEIVDALAEEYDVDPEEAEEDVEEFLEQLRE 63 (68)
T ss_dssp S-HHHHHHHHHHHTT--HHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence 3455566666667799999888888888877654
No 39
>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=48.59 E-value=23 Score=22.95 Aligned_cols=21 Identities=14% Similarity=0.205 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHhhch
Q 044570 34 EREAREHIHDLIAQTWMKMNR 54 (109)
Q Consensus 34 eEeA~~~i~~~ie~~wK~ln~ 54 (109)
-+||.+++++.|++|.++|-+
T Consensus 66 cpeA~~eL~~eI~eAK~dLr~ 86 (91)
T PF08285_consen 66 CPEAAKELQKEIKEAKADLRK 86 (91)
T ss_pred CHHHHHHHHHHHHHHHHHHHH
Confidence 488888999999999998754
No 40
>PF07637 PSD5: Protein of unknown function (DUF1595); InterPro: IPR013043 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013042 from INTERPRO.
Probab=48.14 E-value=58 Score=19.34 Aligned_cols=55 Identities=18% Similarity=0.236 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHhhhcccCCCCcCCchhHHHHHHHhcccCc
Q 044570 36 EAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQCMYQFGEGHRHGVQEITKARVLSLIIDP 107 (109)
Q Consensus 36 eA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~~~Y~~~Dgyt~~~~~~~k~~I~sll~~P 107 (109)
.|++-|......+|+. + ++..=++..+.+..- -+..|++|.. .++.-+..+|..|
T Consensus 2 ~a~~~l~~Fa~rAfRR---------p-~~~~e~~~~~~~~~~---~~~~g~~~~~----a~~~~l~aiL~SP 56 (64)
T PF07637_consen 2 CAREILRRFARRAFRR---------P-LTDEEVDRYLALYDS---ARAQGEDFEE----ALKEALQAILCSP 56 (64)
T ss_pred hHHHHHHHHHHHHhCC---------C-CCHHHHHHHHHHHHH---HHHcCCCHHH----HHHHHHHHHHcCc
Confidence 4677778888888853 3 555546666555443 3455666543 6899999999887
No 41
>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=47.06 E-value=1.2e+02 Score=24.60 Aligned_cols=53 Identities=15% Similarity=0.079 Sum_probs=35.5
Q ss_pred eeeehhHHhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCCC
Q 044570 7 SVAAPDELKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGNP 60 (109)
Q Consensus 7 i~s~~~E~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~~ 60 (109)
+.=||.|...++-.+-|.-|-+.+|+|..+|.+.+..-.-.+-+.+.+ .|.++
T Consensus 228 LSFYKEe~~~~E~~n~V~Nya~~~GiS~~eAL~~lt~dTv~~s~rv~~-VLse~ 280 (357)
T cd00686 228 MSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVA-VFSDK 280 (357)
T ss_pred hheehhhcccccccchHHHhhhhcCCCHHHHHHHHHHHHHHHHHHHHH-HhcCC
Confidence 334555555566678888899999999999998775554444455533 34433
No 42
>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=46.68 E-value=25 Score=28.34 Aligned_cols=27 Identities=26% Similarity=0.463 Sum_probs=22.1
Q ss_pred HHHHHHhhc---CCCHHHHHHHHHHHHHHHH
Q 044570 22 SIQCYMHEA---GVSEREAREHIHDLIAQTW 49 (109)
Q Consensus 22 sI~cYMke~---g~seEeA~~~i~~~ie~~w 49 (109)
.| -|+++. +.|+|||.++++.+|+++-
T Consensus 315 ~i-~~l~~~~~l~~se~ea~~~f~~~i~~s~ 344 (361)
T cd05174 315 DI-QYLKDSLALGKTEEEALKHFRVKFNEAL 344 (361)
T ss_pred HH-HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 45 588886 8999999999999887664
No 43
>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=46.38 E-value=25 Score=28.29 Aligned_cols=24 Identities=25% Similarity=0.318 Sum_probs=21.2
Q ss_pred HHHhhc---CCCHHHHHHHHHHHHHHH
Q 044570 25 CYMHEA---GVSEREAREHIHDLIAQT 48 (109)
Q Consensus 25 cYMke~---g~seEeA~~~i~~~ie~~ 48 (109)
-|+++. +.|+|||..++.++|+++
T Consensus 311 ~~l~~rf~l~~se~eA~~~f~~lI~~s 337 (354)
T cd00895 311 KYVYDALRPQDTEADATTYFTRLIESS 337 (354)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 478875 899999999999999987
No 44
>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=45.69 E-value=26 Score=28.23 Aligned_cols=26 Identities=27% Similarity=0.340 Sum_probs=22.5
Q ss_pred HHHhhc---CCCHHHHHHHHHHHHHHHHH
Q 044570 25 CYMHEA---GVSEREAREHIHDLIAQTWM 50 (109)
Q Consensus 25 cYMke~---g~seEeA~~~i~~~ie~~wK 50 (109)
-|+++. +.|+|+|.++++++|+++-.
T Consensus 322 ~~lr~rf~l~~se~eA~~~f~~~I~~s~~ 350 (366)
T cd05165 322 EYLRDTLALGKSEEEALKYFLDKFNEALD 350 (366)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHHh
Confidence 488885 89999999999999998864
No 45
>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=45.55 E-value=6.9 Score=27.65 Aligned_cols=37 Identities=24% Similarity=0.405 Sum_probs=0.0
Q ss_pred hhHHhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHh
Q 044570 11 PDELKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMK 51 (109)
Q Consensus 11 ~~E~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ 51 (109)
-.+++.+.+..+|+ +|.+|+.|.|+. +.|.++. .|..
T Consensus 97 L~~~~~~~v~~vi~-~Md~Y~Ltred~-d~i~el~--~~~~ 133 (155)
T PF08519_consen 97 LIEQGKDGVDEVID-LMDEYGLTREDW-DNIMELS--KWPG 133 (155)
T ss_dssp -----------------------------------------
T ss_pred HHHcCcccHHHHHH-HHHHhCCCHHHH-HHHHHhc--cCCC
Confidence 33455557878886 899999999998 8888888 4544
No 46
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=45.53 E-value=84 Score=22.06 Aligned_cols=70 Identities=14% Similarity=0.163 Sum_probs=43.6
Q ss_pred hhcCCCH----HHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHH--HHhhHhhhcccC-CCCcCCchhHHHHHH
Q 044570 28 HEAGVSE----REAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMN--LARMSQCMYQFG-EGHRHGVQEITKARV 100 (109)
Q Consensus 28 ke~g~se----EeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~N--laR~~~~~Y~~~-Dgyt~~~~~~~k~~I 100 (109)
||-|-|+ +.=+++-+-+=.+.=|++..|.++ | ||..+++.+=. .+|+.++--.++ +.-|. +..++.+|
T Consensus 38 KeDGkS~LDWq~~yi~~trhlW~de~K~lL~eLV~--P-VPelFRdvAk~kIAgkIgelAl~e~a~~it~--d~iIrGYI 112 (141)
T PF11084_consen 38 KEDGKSILDWQEYYIEKTRHLWTDEQKALLEELVS--P-VPELFRDVAKHKIAGKIGELALEEKASEITR--DLIIRGYI 112 (141)
T ss_pred cccCcccccHHHHHHHHhHhhcCHHHHHHHHHHhh--c-CcHHHHHHHHHHHHHHHHHHHHHcCcccccH--HHHHhhhh
Confidence 3556663 334444444545555667677665 5 99998888765 567777776655 55554 55677776
Q ss_pred Hh
Q 044570 101 LS 102 (109)
Q Consensus 101 ~s 102 (109)
.+
T Consensus 113 ~A 114 (141)
T PF11084_consen 113 LA 114 (141)
T ss_pred hc
Confidence 54
No 47
>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=45.50 E-value=13 Score=25.78 Aligned_cols=15 Identities=13% Similarity=0.193 Sum_probs=12.3
Q ss_pred cCCchhHHHHHHhhc
Q 044570 16 RGDVHKSIQCYMHEA 30 (109)
Q Consensus 16 rg~~~ssI~cYMke~ 30 (109)
=|..+|+..|||||.
T Consensus 106 lg~~~~~~~~~mKQK 120 (128)
T PF10249_consen 106 LGAYGSARKALMKQK 120 (128)
T ss_pred cCccccHHHHHHHHH
Confidence 366689999999985
No 48
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=45.40 E-value=29 Score=24.91 Aligned_cols=21 Identities=10% Similarity=0.139 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHhhchhhcCCCC
Q 044570 38 REHIHDLIAQTWMKMNRDRFGNPH 61 (109)
Q Consensus 38 ~~~i~~~ie~~wK~ln~e~l~~~~ 61 (109)
.++||..|++.||+ .+.+|++
T Consensus 134 ~~eIR~~ID~kYk~---g~~~pTp 154 (158)
T PF13798_consen 134 PKEIRQYIDEKYKE---GYAKPTP 154 (158)
T ss_pred HHHHHHHHHHHHHh---CCCCCCC
Confidence 45789999999986 3666666
No 49
>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=45.00 E-value=27 Score=28.09 Aligned_cols=25 Identities=24% Similarity=0.328 Sum_probs=21.8
Q ss_pred HHHhhc---CCCHHHHHHHHHHHHHHHH
Q 044570 25 CYMHEA---GVSEREAREHIHDLIAQTW 49 (109)
Q Consensus 25 cYMke~---g~seEeA~~~i~~~ie~~w 49 (109)
-|+++. +.|+|||..+++++|+++-
T Consensus 310 ~~l~~r~~l~~sd~ea~~~f~~lI~~s~ 337 (353)
T cd05176 310 KYVYDALQPQTTDAEATIFFTRLIESSL 337 (353)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 388885 8999999999999999883
No 50
>PRK13735 conjugal transfer mating pair stabilization protein TraG; Provisional
Probab=44.84 E-value=19 Score=32.54 Aligned_cols=32 Identities=9% Similarity=0.289 Sum_probs=26.6
Q ss_pred HhcCCchhHHHHHHhhcCCCHHHHHHHHHHHH
Q 044570 14 LKRGDVHKSIQCYMHEAGVSEREAREHIHDLI 45 (109)
Q Consensus 14 ~~rg~~~ssI~cYMke~g~seEeA~~~i~~~i 45 (109)
+.-.++.|+|+-|-|++|+|+|+|..++...-
T Consensus 585 ~~~s~m~sav~~~ak~~~iS~~qa~~~l~~~s 616 (942)
T PRK13735 585 MMASRMRSAVESYAKAHNISNEQATQELASRS 616 (942)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 34456789999999999999999998887554
No 51
>PF08328 ASL_C: Adenylosuccinate lyase C-terminal; InterPro: IPR013539 This domain is found at the C terminus of adenylosuccinate lyase(ASL; PurB in Escherichia coli). It has been identified in bacteria, eukaryotes and archaea and is found together with the lyase domain IPR000362 from INTERPRO. ASL catalyses the cleavage of succinylaminoimidazole carboxamide ribotide to aminoimidazole carboxamide ribotide and fumarate and the cleavage of adenylosuccinate to adenylate and fumarate []. ; GO: 0004018 N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity, 0006188 IMP biosynthetic process; PDB: 2HVG_A 2QGA_C 2PTS_A 2PTR_A 2PTQ_B 3BHG_A 3GZH_A.
Probab=43.94 E-value=31 Score=23.55 Aligned_cols=52 Identities=15% Similarity=0.278 Sum_probs=33.1
Q ss_pred chhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhch----hhcCCCCcCcHHHHHHHHHHH
Q 044570 19 VHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNR----DRFGNPHFVSDVFVGIAMNLA 75 (109)
Q Consensus 19 ~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~----e~l~~~~~~p~~~~~~~~Nla 75 (109)
+|.+||.-|+-+|+ +++++.++++-... .+++ +|+..-+ +|...+....+++
T Consensus 55 laEpIQTvmRr~g~--~~pYE~LK~lTRg~--~it~~~l~~fI~~L~-ip~~~k~~L~~lt 110 (115)
T PF08328_consen 55 LAEPIQTVMRRYGI--PNPYEKLKELTRGK--KITKEDLREFIESLD-IPEEAKARLLALT 110 (115)
T ss_dssp GHHHHHHHHHHTT---SSHHHHHHHHHTTS-----HHHHHHHHHTSS-S-HHHHHHHHH--
T ss_pred HHHHHHHHHHHcCC--CCHHHHHHHHHcCC--CCCHHHHHHHHHhCC-CCHHHHHHHHhcC
Confidence 57899999999987 66777777776543 4444 4454456 8888888877664
No 52
>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=43.62 E-value=29 Score=27.86 Aligned_cols=26 Identities=15% Similarity=0.132 Sum_probs=22.2
Q ss_pred HHHhhc---CCCHHHHHHHHHHHHHHHHH
Q 044570 25 CYMHEA---GVSEREAREHIHDLIAQTWM 50 (109)
Q Consensus 25 cYMke~---g~seEeA~~~i~~~ie~~wK 50 (109)
-|+++. +.|++||.+++.++|+++-.
T Consensus 311 ~~l~~~~~l~~sd~eA~~~f~~lI~~s~~ 339 (354)
T cd05177 311 KYVYNNLRPQDTDLEATSYFTKKIKESLE 339 (354)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHHh
Confidence 477775 79999999999999998853
No 53
>PHA02896 A-type inclusion like protein; Provisional
Probab=43.26 E-value=60 Score=27.81 Aligned_cols=45 Identities=18% Similarity=0.160 Sum_probs=35.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHh
Q 044570 31 GVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQ 79 (109)
Q Consensus 31 g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~ 79 (109)
|...|..+..++.+|++.|.+=.. +.+. +|+.-..++=|+-|-.-
T Consensus 5 ~~giEKcV~eFkSlVertWnk~Ln---s~SC-IpRk~RKiIRNILR~YI 49 (616)
T PHA02896 5 GCGIDKCIRKFESLIIRTWDHDLN---ERSF-LNRKDRKIIRNIFRCFI 49 (616)
T ss_pred ccChHHHHHHHHHHHHHhhCCccc---cccC-cCHHHHHHHHHHHHHHH
Confidence 566788999999999999964222 2456 99999999999998643
No 54
>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=41.88 E-value=23 Score=21.22 Aligned_cols=36 Identities=14% Similarity=0.331 Sum_probs=23.7
Q ss_pred hhHHHHHHhhcCCCH-HH-----HHHHHHHHHHHHHHhhchh
Q 044570 20 HKSIQCYMHEAGVSE-RE-----AREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 20 ~ssI~cYMke~g~se-Ee-----A~~~i~~~ie~~wK~ln~e 55 (109)
.|+-.+||+++-... .. ...++...|.+.|+.|..+
T Consensus 8 ~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls~~ 49 (73)
T PF09011_consen 8 PSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLSEE 49 (73)
T ss_dssp SSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-HH
T ss_pred CCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcCHH
Confidence 477888998862211 11 3457778899999998654
No 55
>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=40.99 E-value=34 Score=27.40 Aligned_cols=27 Identities=19% Similarity=0.410 Sum_probs=22.5
Q ss_pred HHHHHHhhc---CCCHHHHHHHHHHHHHHHH
Q 044570 22 SIQCYMHEA---GVSEREAREHIHDLIAQTW 49 (109)
Q Consensus 22 sI~cYMke~---g~seEeA~~~i~~~ie~~w 49 (109)
+| -|+++. +.|+++|.+++.++|+++-
T Consensus 308 ~i-~~l~~r~~l~~s~~ea~~~~~~~I~~s~ 337 (353)
T cd05166 308 DL-KYVRDALRPQLTDAEATIQFTKMIQSSL 337 (353)
T ss_pred HH-HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 44 378876 7999999999999999874
No 56
>KOG0506 consensus Glutaminase (contains ankyrin repeat) [Amino acid transport and metabolism]
Probab=40.77 E-value=16 Score=30.92 Aligned_cols=24 Identities=21% Similarity=0.275 Sum_probs=21.8
Q ss_pred eeehhHHhcCCchhHHHHHHhhcC
Q 044570 8 VAAPDELKRGDVHKSIQCYMHEAG 31 (109)
Q Consensus 8 ~s~~~E~~rg~~~ssI~cYMke~g 31 (109)
+||.-|++.+|-+-|+.-||||+.
T Consensus 328 atFlSEretaDRNyAlsYymkE~k 351 (622)
T KOG0506|consen 328 ATFLSERETADRNYALSYYMKEKK 351 (622)
T ss_pred hhhhcchhcccchhHHHHHHHhcc
Confidence 578889999999999999999994
No 57
>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=40.68 E-value=22 Score=23.90 Aligned_cols=28 Identities=14% Similarity=0.554 Sum_probs=20.9
Q ss_pred HHHHhhcCCCHHHHHHHHHHHHHHHHHhhchh
Q 044570 24 QCYMHEAGVSEREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 24 ~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e 55 (109)
++||.++|.|+|+.. -+.+.-|..|...
T Consensus 37 eAy~~~~gLTeEe~~----AV~~rD~~~Li~l 64 (106)
T cd07921 37 EAYCDKFGLTEEQKQ----AVLDRDWLRLLEL 64 (106)
T ss_pred HHHHHHcCCCHHHHH----HHHhCCHHHHHHh
Confidence 789999999998743 4556667776654
No 58
>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=40.64 E-value=69 Score=24.22 Aligned_cols=47 Identities=17% Similarity=0.130 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHhhhcccCCC
Q 044570 37 AREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQCMYQFGEG 87 (109)
Q Consensus 37 A~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~~~Y~~~Dg 87 (109)
.+.+++.+|++.|..-..+ .+. +|+.-++++=|+-|-.-.-+..-|+
T Consensus 22 ~I~~F~slV~~~W~~~L~~---~sC-I~R~~RKiIRnViR~ym~s~p~~d~ 68 (220)
T PF06086_consen 22 SIREFKSLVSETWNKPLNE---NSC-IPREDRKIIRNVIREYMKSAPKMDE 68 (220)
T ss_pred hHHHHHHHHHHhcCCcccc---ccc-cCHHHHHHHHHHHHHHHHhCCCCCc
Confidence 3789999999999865443 456 9999999999999976555654344
No 59
>PF15581 Imm35: Immunity protein 35
Probab=40.52 E-value=29 Score=22.67 Aligned_cols=31 Identities=19% Similarity=0.507 Sum_probs=19.2
Q ss_pred HHHhhcCCCHHHHHHHHHHHHHHHHHhhchh
Q 044570 25 CYMHEAGVSEREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 25 cYMke~g~seEeA~~~i~~~ie~~wK~ln~e 55 (109)
.|..+.-=|.-.-++-+..+||..||-|-++
T Consensus 19 sY~~q~~esa~~~i~~l~~lIe~eWRGl~~~ 49 (93)
T PF15581_consen 19 SYLRQGEESARRTIRNLESLIEHEWRGLPEE 49 (93)
T ss_pred HHHhcchhHHHHHHHHHHHHHHHHHcCCCHH
Confidence 4555543344445556677899999876544
No 60
>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=39.70 E-value=36 Score=27.16 Aligned_cols=30 Identities=30% Similarity=0.493 Sum_probs=24.7
Q ss_pred hHHHHHHhhc---CCCHHHHHHHHHHHHHHHHHh
Q 044570 21 KSIQCYMHEA---GVSEREAREHIHDLIAQTWMK 51 (109)
Q Consensus 21 ssI~cYMke~---g~seEeA~~~i~~~ie~~wK~ 51 (109)
+.|. ||++. +.|+++|..++.++|+++-..
T Consensus 306 ~~i~-~l~~r~~l~~s~~~a~~~~~~lI~~s~~~ 338 (352)
T cd00891 306 EDIE-YLRDALALDKSDEEATEYFRKLIHESLNS 338 (352)
T ss_pred HHHH-HHHHHhCCCCCHHHHHHHHHHHHHHHHhc
Confidence 4554 88886 899999999999999988643
No 61
>PHA02676 A-type inclusion protein; Provisional
Probab=39.09 E-value=50 Score=27.92 Aligned_cols=46 Identities=9% Similarity=0.068 Sum_probs=35.7
Q ss_pred CHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHhhhc
Q 044570 33 SEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQCMY 82 (109)
Q Consensus 33 seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~~~Y 82 (109)
|.|.-+++++.+|++.|..-..+ .+. +|+.-.+++=|+-|---..+
T Consensus 3 ~~eklV~~FkslV~~tW~~~Ln~---~sC-IpR~~RKiIRnVlR~YI~~a 48 (520)
T PHA02676 3 SMESLVAEFKSLVQRHWHHPLNS---VSC-IPREDRKLIRDILREYIRLA 48 (520)
T ss_pred cHHHHHHHHHHHHHHhcCCcccc---ccc-ccHHHHHHHHHHHHHHHHhC
Confidence 56888999999999999865443 345 99999999999988643333
No 62
>PF12668 DUF3791: Protein of unknown function (DUF3791); InterPro: IPR024269 This entry represents proteins of unknown function.
Probab=38.94 E-value=49 Score=19.46 Aligned_cols=24 Identities=17% Similarity=0.169 Sum_probs=18.7
Q ss_pred hhHHHHHHhhcCCCHHHHHHHHHH
Q 044570 20 HKSIQCYMHEAGVSEREAREHIHD 43 (109)
Q Consensus 20 ~ssI~cYMke~g~seEeA~~~i~~ 43 (109)
...|+.|-+..|+|.++|.+.+++
T Consensus 5 v~~Ie~~A~~~~~s~~ea~~~~~~ 28 (62)
T PF12668_consen 5 VFCIEEFAKKLNISGEEAYNYFKR 28 (62)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHH
Confidence 356788888889999988877664
No 63
>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=38.33 E-value=52 Score=27.44 Aligned_cols=28 Identities=14% Similarity=0.075 Sum_probs=21.7
Q ss_pred hHHHHHHhhcCCCHHHHHHHHHHHHHHH
Q 044570 21 KSIQCYMHEAGVSEREAREHIHDLIAQT 48 (109)
Q Consensus 21 ssI~cYMke~g~seEeA~~~i~~~ie~~ 48 (109)
|--++.||-+|.|+|||.+.+.++-++.
T Consensus 443 s~~~yl~k~yg~~eeeA~~~~~~i~~e~ 470 (476)
T TIGR01542 443 PLKIALQRAWNITEEEADEWAAMIAKEK 470 (476)
T ss_pred CHHHHHHHccCCCHHHHHHHHHHHhhhh
Confidence 5556666656999999999998776655
No 64
>PF12952 DUF3841: Domain of unknown function (DUF3841); InterPro: IPR024211 This family of proteins has no known function.
Probab=38.02 E-value=47 Score=23.85 Aligned_cols=44 Identities=14% Similarity=0.372 Sum_probs=28.9
Q ss_pred cceeeeeehhHHhcCCchhHHHHHHhhcCCC-HHHHHH-----HHHHHHHHHHHhh
Q 044570 3 NAWISVAAPDELKRGDVHKSIQCYMHEAGVS-EREARE-----HIHDLIAQTWMKM 52 (109)
Q Consensus 3 ~~~~i~s~~~E~~rg~~~ssI~cYMke~g~s-eEeA~~-----~i~~~ie~~wK~l 52 (109)
|+|-|...+.+. ...+-.++.+|++ +.++.. +++..|.++|+.|
T Consensus 104 N~~yi~~~e~D~------~~~~~~l~~~Gi~~~~~~~~s~~yp~~k~~i~~SW~ri 153 (178)
T PF12952_consen 104 NYWYIPEDEEDE------RAFEEELKKYGISNDFDIFLSNFYPELKREIEKSWERI 153 (178)
T ss_pred hcccCCcccchH------HHHHHHHHHcCCCchhhhhccccCHHHHHHHHHHHHHH
Confidence 556565554332 2345566788887 555554 7889999999885
No 65
>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=37.42 E-value=27 Score=21.75 Aligned_cols=28 Identities=18% Similarity=0.195 Sum_probs=19.7
Q ss_pred HHHHhhcCCCHHHHHHHHHHHHHHHHHhhchh
Q 044570 24 QCYMHEAGVSEREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 24 ~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e 55 (109)
+.||.++|.|+||-- -+.+.-|..|...
T Consensus 27 ~a~~~~~~Lt~eE~~----al~~rD~~~L~~l 54 (77)
T cd07321 27 EAVLAEYGLTPEEKA----ALLARDVGALYVL 54 (77)
T ss_pred HHHHHHcCCCHHHHH----HHHcCCHHHHHHc
Confidence 689999999998643 3455666666553
No 66
>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=36.78 E-value=49 Score=20.06 Aligned_cols=20 Identities=20% Similarity=0.670 Sum_probs=14.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHh
Q 044570 31 GVSEREAREHIHDLIAQTWMK 51 (109)
Q Consensus 31 g~seEeA~~~i~~~ie~~wK~ 51 (109)
|...++ ++.|.+++++.|.+
T Consensus 40 g~~~~~-k~~i~~iLqe~we~ 59 (65)
T PF06183_consen 40 GGKKDD-KERIEEILQEMWED 59 (65)
T ss_dssp S--HHH-HHHHHHHHHHHHHT
T ss_pred CcCchH-HHHHHHHHHHHHhc
Confidence 444555 99999999999965
No 67
>PF13189 Cytidylate_kin2: Cytidylate kinase-like family; PDB: 3FDI_A.
Probab=35.73 E-value=43 Score=23.59 Aligned_cols=37 Identities=19% Similarity=0.178 Sum_probs=23.6
Q ss_pred hhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhc
Q 044570 20 HKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRF 57 (109)
Q Consensus 20 ~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l 57 (109)
..-|+--|+.+|+|+++|.+.|+. .+..++.--+.+.
T Consensus 125 ~~Rv~ri~~~~~~s~~~A~~~i~~-~D~~R~~~~~~~~ 161 (179)
T PF13189_consen 125 EFRVERIMEREGISEEEAEKLIKK-EDKRRRAYYKYYT 161 (179)
T ss_dssp HHHHHHHHHHHT--HHHHHHHHHH-HHHHHHHHHHHH-
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHH-HHHHHHHHHHHHh
Confidence 345677788889999999977765 4555555555554
No 68
>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=35.43 E-value=47 Score=26.55 Aligned_cols=25 Identities=28% Similarity=0.432 Sum_probs=21.5
Q ss_pred HHHhhc---CCCHHHHHHHHHHHHHHHH
Q 044570 25 CYMHEA---GVSEREAREHIHDLIAQTW 49 (109)
Q Consensus 25 cYMke~---g~seEeA~~~i~~~ie~~w 49 (109)
-++++. +.|+++|.+++.++|+++-
T Consensus 305 ~~l~~rf~l~~s~~ea~~~~~~lI~~s~ 332 (350)
T cd00896 305 LKVQEKFRLDLSDEEAIKHFQNLINDSV 332 (350)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 377775 7999999999999999874
No 69
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.97 E-value=70 Score=19.14 Aligned_cols=34 Identities=29% Similarity=0.269 Sum_probs=26.4
Q ss_pred hHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchh
Q 044570 21 KSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 21 ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e 55 (109)
.-|+-.|.| |+|.-||+.-+-..+.+.-|..|+-
T Consensus 18 E~Iq~lMae-GmSsGEAIa~VA~elRe~hk~~~~~ 51 (60)
T COG3140 18 ERIQELMAE-GMSSGEAIALVAQELRENHKGENRI 51 (60)
T ss_pred HHHHHHHHc-cccchhHHHHHHHHHHHHhcccccc
Confidence 557778877 8888899988888888777776664
No 70
>COG5226 CEG1 mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]
Probab=34.88 E-value=1.3e+02 Score=24.33 Aligned_cols=52 Identities=13% Similarity=0.180 Sum_probs=39.4
Q ss_pred CcceeeeeehhHHhcCCchhHHHHHHhh--cCCCHHHHHHHHHHHHHHHHHhhch
Q 044570 2 ENAWISVAAPDELKRGDVHKSIQCYMHE--AGVSEREAREHIHDLIAQTWMKMNR 54 (109)
Q Consensus 2 ~~~~~i~s~~~E~~rg~~~ssI~cYMke--~g~seEeA~~~i~~~ie~~wK~ln~ 54 (109)
|++|-+--+.+++..+.-.|.|.--+.. -|+|.|+-. .+-..|.++|+.=-+
T Consensus 321 e~~W~~lrfRdDK~~~NhisvV~~VLeSi~D~vs~EdL~-~~~~vire~~~~R~k 374 (404)
T COG5226 321 EGAWKLLRFRDDKDTPNHISVVCNVLESIRDNVSIEDLS-TFYSVIRENSKRREK 374 (404)
T ss_pred CCceEEEEeecCCCCCchhhHHHHHHHHHhccCcHHHHH-HHHHHHHHHHHhhhh
Confidence 6899999998888777665777555543 289988865 788899999987544
No 71
>COG2840 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.67 E-value=55 Score=24.01 Aligned_cols=40 Identities=23% Similarity=0.324 Sum_probs=28.7
Q ss_pred hcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhh
Q 044570 15 KRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDR 56 (109)
Q Consensus 15 ~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~ 56 (109)
.+|+. .++.-+-=||.|.+||+..+...|..+-++-.+-+
T Consensus 89 rrG~~--~~e~~LDLHG~tq~eAr~~L~~Fi~~a~~~~~rcv 128 (184)
T COG2840 89 RRGRY--PPEARLDLHGLTQEEARQELGAFIARARAEGLRCV 128 (184)
T ss_pred hcCCC--CcceeeeccCCCHHHHHHHHHHHHHHHHHhCCcEE
Confidence 34554 23444445799999999999999999997654443
No 72
>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=34.59 E-value=50 Score=26.01 Aligned_cols=25 Identities=36% Similarity=0.481 Sum_probs=20.7
Q ss_pred HHHhhc---CCCHHHHHHHHHHHHHHHH
Q 044570 25 CYMHEA---GVSEREAREHIHDLIAQTW 49 (109)
Q Consensus 25 cYMke~---g~seEeA~~~i~~~ie~~w 49 (109)
-|+++. +.|+++|.+++.++|+++-
T Consensus 265 ~~l~~rf~l~~se~~a~~~~~~lI~~s~ 292 (311)
T cd05167 265 KNLRQRFAPEKSEREAAEFMLSLIAESY 292 (311)
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 357764 7899999999999999874
No 73
>KOG1720 consensus Protein tyrosine phosphatase CDC14 [Defense mechanisms]
Probab=34.58 E-value=52 Score=24.94 Aligned_cols=27 Identities=30% Similarity=0.484 Sum_probs=21.6
Q ss_pred CCchhHHHHHH-hhcCCCHHHHHHHHHH
Q 044570 17 GDVHKSIQCYM-HEAGVSEREAREHIHD 43 (109)
Q Consensus 17 g~~~ssI~cYM-ke~g~seEeA~~~i~~ 43 (109)
|.....|-||| +++|.|.+||+..|+.
T Consensus 159 GRTG~liAc~lmy~~g~ta~eaI~~lR~ 186 (225)
T KOG1720|consen 159 GRTGTLIACYLMYEYGMTAGEAIAWLRI 186 (225)
T ss_pred CchhHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 45567899997 5669999999987764
No 74
>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=32.94 E-value=57 Score=25.38 Aligned_cols=28 Identities=25% Similarity=0.376 Sum_probs=22.6
Q ss_pred hHHHHHHhhc---CCCHHHHHHHHHHHHHHHH
Q 044570 21 KSIQCYMHEA---GVSEREAREHIHDLIAQTW 49 (109)
Q Consensus 21 ssI~cYMke~---g~seEeA~~~i~~~ie~~w 49 (109)
++| -++++. +.|+++|.+++..+|+++-
T Consensus 240 ~~i-~~l~~r~~l~~s~~~a~~~~~~lI~~s~ 270 (289)
T cd00893 240 STI-KKLKERLCLNMSEKEAINTVMKKIDSSY 270 (289)
T ss_pred HHH-HHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 345 377775 7899999999999999874
No 75
>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=32.64 E-value=90 Score=21.09 Aligned_cols=35 Identities=17% Similarity=0.241 Sum_probs=24.4
Q ss_pred cCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHh
Q 044570 16 RGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMK 51 (109)
Q Consensus 16 rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ 51 (109)
.|+..+.|.-++.+..+|.|| +++|+++|++.-+.
T Consensus 86 ~gs~~~ll~~l~~~~~ls~ee-le~L~~li~~~~~~ 120 (130)
T TIGR02698 86 SRKVGAVIADLIEESPLSQTD-IEKLEKLLSEKKST 120 (130)
T ss_pred CCCHHHHHHHHHhcCCCCHHH-HHHHHHHHHhcccC
Confidence 467767777777766888877 55888888765443
No 76
>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=32.10 E-value=87 Score=21.43 Aligned_cols=25 Identities=12% Similarity=0.041 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHhhHhhhcccCCCCc
Q 044570 65 DVFVGIAMNLARMSQCMYQFGEGHR 89 (109)
Q Consensus 65 ~~~~~~~~NlaR~~~~~Y~~~Dgyt 89 (109)
+.|..+..=+--+.+||+.+|+|-.
T Consensus 82 ~q~~~l~~~L~~L~~FFhA~G~Gl~ 106 (137)
T PF10540_consen 82 KQCDRLFKWLDTLKDFFHAEGNGLP 106 (137)
T ss_dssp TCHHHHHHHHHHHHHHHHCCCTS--
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCCC
Confidence 3344444445455799999999855
No 77
>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=31.98 E-value=47 Score=18.20 Aligned_cols=17 Identities=24% Similarity=0.274 Sum_probs=14.3
Q ss_pred CCCHHHHHHHHHHHHHH
Q 044570 31 GVSEREAREHIHDLIAQ 47 (109)
Q Consensus 31 g~seEeA~~~i~~~ie~ 47 (109)
|-|.|||++.+++.++.
T Consensus 28 G~t~eea~~~~~eal~~ 44 (48)
T PF03681_consen 28 GDTLEEALENAKEALEL 44 (48)
T ss_dssp ESSHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHH
Confidence 77899999999888764
No 78
>PRK04946 hypothetical protein; Provisional
Probab=31.89 E-value=66 Score=23.42 Aligned_cols=22 Identities=23% Similarity=0.403 Sum_probs=20.4
Q ss_pred cCCCHHHHHHHHHHHHHHHHHh
Q 044570 30 AGVSEREAREHIHDLIAQTWMK 51 (109)
Q Consensus 30 ~g~seEeA~~~i~~~ie~~wK~ 51 (109)
||.+.|||+..+...|.++.+.
T Consensus 101 hG~~~eeA~~~L~~fl~~a~~~ 122 (181)
T PRK04946 101 HGLTQLQAKQELGALIAACRKE 122 (181)
T ss_pred CCCCHHHHHHHHHHHHHHHHHc
Confidence 6999999999999999999874
No 79
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=31.80 E-value=1.1e+02 Score=21.89 Aligned_cols=26 Identities=19% Similarity=0.449 Sum_probs=22.4
Q ss_pred HhhcCCCHHHHHHHHHHHHHHHHHhh
Q 044570 27 MHEAGVSEREAREHIHDLIAQTWMKM 52 (109)
Q Consensus 27 Mke~g~seEeA~~~i~~~ie~~wK~l 52 (109)
++..|+|+||+.+.=++|+..++-.+
T Consensus 109 ~e~~Gi~eEEL~~qQqeLf~~ARar~ 134 (156)
T KOG0871|consen 109 FEKSGIPEEELLRQQQELFAKARARL 134 (156)
T ss_pred HHhcCCCHHHHHHHHHHHHHHHHHHH
Confidence 45569999999999999999999663
No 80
>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=31.32 E-value=1.1e+02 Score=19.44 Aligned_cols=42 Identities=17% Similarity=0.209 Sum_probs=32.3
Q ss_pred CCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcH----HHHHHHHHHH
Q 044570 32 VSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSD----VFVGIAMNLA 75 (109)
Q Consensus 32 ~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~----~~~~~~~Nla 75 (109)
.|+++|-.-++..+..+...+++..-. .+ +|. .++.+++|+.
T Consensus 19 it~~qa~~ll~~d~~~~~~~v~~~~~~-~~-l~~~~~dal~s~~yN~G 64 (110)
T PF00959_consen 19 ITEAQADELLQKDLQKAEAAVRRYVPV-DD-LNQNQFDALVSFAYNVG 64 (110)
T ss_dssp TEHHHHHHHHHHHHHHHHHHHHHHTTS-HH-SSHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHHHHHHHhhhccc-CC-cCHHHHHHHHhcccccC
Confidence 899999999999999888888776543 23 553 5777788875
No 81
>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=30.91 E-value=60 Score=20.11 Aligned_cols=25 Identities=16% Similarity=0.295 Sum_probs=18.1
Q ss_pred CCchhHHHHHHhhcC---CCHHHHHHHHH
Q 044570 17 GDVHKSIQCYMHEAG---VSEREAREHIH 42 (109)
Q Consensus 17 g~~~ssI~cYMke~g---~seEeA~~~i~ 42 (109)
+.++.+|+ |||+.+ +|-+|-..++.
T Consensus 9 t~l~~aV~-ymK~r~~~Plt~~EIl~~ls 36 (75)
T cd07977 9 TQLAKIVD-YMKKRHQHPLTLDEILDYLS 36 (75)
T ss_pred hhHHHHHH-HHHhcCCCCccHHHHHHHHh
Confidence 45667776 999876 67777776666
No 82
>COG2511 GatE Archaeal Glu-tRNAGln amidotransferase subunit E (contains GAD domain) [Translation, ribosomal structure and biogenesis]
Probab=30.26 E-value=1e+02 Score=26.57 Aligned_cols=66 Identities=11% Similarity=0.075 Sum_probs=42.0
Q ss_pred hhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHhhhcccCCCCcC
Q 044570 20 HKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQCMYQFGEGHRH 90 (109)
Q Consensus 20 ~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~~~Y~~~Dgyt~ 90 (109)
..-++-|++++|.|++-|.+-+....-+...++-+..+. |........|+.+-+.==+..-|+.+.
T Consensus 457 ~ek~~r~~~eygLs~~LA~~~~~~~~~~~FEel~e~~v~-----p~~~A~~L~~~~~~L~reg~~i~~l~~ 522 (631)
T COG2511 457 EEKVERYVKEYGLSKELAEQLASDPRVDLFEELVEKGVD-----PTLIASTLVNTLPELRREGVEIDNLDD 522 (631)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHhhhhHHHHHHHHHcCCC-----HHHHHHHHHHHHHHHHhcCCccccCCH
Confidence 456789999999999999988888877777766665332 334455555554433322233344443
No 83
>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=29.68 E-value=98 Score=24.58 Aligned_cols=41 Identities=12% Similarity=0.086 Sum_probs=24.6
Q ss_pred chhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCC
Q 044570 19 VHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGN 59 (109)
Q Consensus 19 ~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~ 59 (109)
.+-.-+-||++||+|.|+--+---+.=.++.+-.|...++.
T Consensus 153 ~a~~a~~y~~~yG~t~e~la~vav~~~~~A~~n~~~g~~~~ 193 (386)
T TIGR01930 153 MGLTAENLAKKYGISREEQDEYALRSHQRAAKAWEEGLFKD 193 (386)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence 44567789999999987633333333445555445455543
No 84
>KOG1151 consensus Tousled-like protein kinase [Signal transduction mechanisms]
Probab=29.38 E-value=72 Score=27.40 Aligned_cols=34 Identities=24% Similarity=0.369 Sum_probs=26.6
Q ss_pred hHHHHHHhhc-CCCHHHHHHHHHHHHHHHHHhhchh
Q 044570 21 KSIQCYMHEA-GVSEREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 21 ssI~cYMke~-g~seEeA~~~i~~~ie~~wK~ln~e 55 (109)
+-+..|+|+| -+||.||+.-|-.+ -+|-+=||+-
T Consensus 553 NDLDFYLKQhklmSEKEARSIiMQi-VnAL~YLNEi 587 (775)
T KOG1151|consen 553 NDLDFYLKQHKLMSEKEARSIIMQI-VNALKYLNEI 587 (775)
T ss_pred CchhHHHHhhhhhhHHHHHHHHHHH-HHHHHHHhcc
Confidence 4468999999 69999999766654 4677888874
No 85
>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=29.16 E-value=82 Score=18.02 Aligned_cols=18 Identities=22% Similarity=0.680 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHhhchh
Q 044570 38 REHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 38 ~~~i~~~ie~~wK~ln~e 55 (109)
...|..++...|+.|-.+
T Consensus 28 ~~~i~~~~~~~W~~l~~~ 45 (69)
T PF00505_consen 28 NKEISKILAQMWKNLSEE 45 (69)
T ss_dssp HHHHHHHHHHHHHCSHHH
T ss_pred cccchhhHHHHHhcCCHH
Confidence 567888899999886543
No 86
>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=29.02 E-value=78 Score=21.00 Aligned_cols=22 Identities=18% Similarity=0.460 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHhhchh
Q 044570 34 EREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 34 eEeA~~~i~~~ie~~wK~ln~e 55 (109)
.++..+++++.+.++|+++-+.
T Consensus 95 ~~~~~~~~k~~~~~~w~~i~~~ 116 (117)
T PF12469_consen 95 AEELAEEAKEAIREAWKEIAEK 116 (117)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 5788889999999999998654
No 87
>PF08153 NGP1NT: NGP1NT (NUC091) domain; InterPro: IPR012971 This N-terminal domain is found in a subfamily of hypothetical nucleolar GTP-binding proteins similar to human NGP1 [].
Probab=28.35 E-value=66 Score=22.36 Aligned_cols=38 Identities=8% Similarity=0.021 Sum_probs=32.7
Q ss_pred CHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHH
Q 044570 33 SEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIA 71 (109)
Q Consensus 33 seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~ 71 (109)
-.+++.+++++-++..-++=-.-+|+.+. +|.++++=.
T Consensus 44 I~Q~~L~~FReem~~~~~DPy~VlLk~~K-LPmsLL~d~ 81 (130)
T PF08153_consen 44 ISQEALEKFREEMGEKVKDPYSVLLKRSK-LPMSLLQDS 81 (130)
T ss_pred ECHHHHHHHHHHHHHhhcCCceEeeeCCc-CCHHHhccc
Confidence 35899999999999999998888888777 999988765
No 88
>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=28.33 E-value=1.3e+02 Score=18.11 Aligned_cols=58 Identities=12% Similarity=0.048 Sum_probs=33.7
Q ss_pred Hhhc-CCCHHHHHHHHHHHHHHHHHhhchhhcC--------CCCcCcHHHHHHHHHHHhhHhhhcccCCCC
Q 044570 27 MHEA-GVSEREAREHIHDLIAQTWMKMNRDRFG--------NPHFVSDVFVGIAMNLARMSQCMYQFGEGH 88 (109)
Q Consensus 27 Mke~-g~seEeA~~~i~~~ie~~wK~ln~e~l~--------~~~~~p~~~~~~~~NlaR~~~~~Y~~~Dgy 88 (109)
+|+| ++..++-=..|..+|..|...+-..+=. ... +|..++..++-++- .+|.+.++.
T Consensus 5 ~K~~Lrid~d~dD~~i~~li~aA~~~i~~~~g~~~~~~~~~~~~-~~~~~~~Ail~l~~---~~Y~nR~~~ 71 (91)
T cd08054 5 AKAHLRIDHDDDDALIELLIDAAEEYIENYTGRDLDEQTADAEE-VPALIKLAVLLLVA---HLYENREAV 71 (91)
T ss_pred HHhHcCCCCCCCHHHHHHHHHHHHHHHHHHhCCchhhcCCcccc-CCHHHHHHHHHHHH---HHHhCccch
Confidence 4566 5543332445666666666544333221 224 88899988888763 468776554
No 89
>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=28.25 E-value=1e+02 Score=21.02 Aligned_cols=30 Identities=27% Similarity=0.307 Sum_probs=23.2
Q ss_pred HHhhcCCCHHHHHHHHHHHHHHHHHhhchh
Q 044570 26 YMHEAGVSEREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 26 YMke~g~seEeA~~~i~~~ie~~wK~ln~e 55 (109)
++.+.|++.++|.+.+.-+++.+.+.+.+.
T Consensus 59 ll~~~gi~~~~a~~~L~PLi~~t~~n~~~~ 88 (132)
T PF10728_consen 59 LLEQAGIDFEEALEALLPLIRETLENILQL 88 (132)
T ss_dssp HHHHTT-SHHH--HHHHHHHHHHHHHHHHS
T ss_pred HHHHcCCCchhHHHHHHHHHHHHHHHHHhc
Confidence 456779999999999999999999988653
No 90
>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=28.00 E-value=59 Score=18.00 Aligned_cols=18 Identities=17% Similarity=0.532 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 044570 35 REAREHIHDLIAQTWMKM 52 (109)
Q Consensus 35 EeA~~~i~~~ie~~wK~l 52 (109)
+.=.+.+|..-+++|++|
T Consensus 36 ~~em~~fk~~s~d~W~~m 53 (53)
T PF01484_consen 36 DDEMEEFKEISDDAWNEM 53 (53)
T ss_pred HHHHHHHHHHHHHHHhhC
Confidence 455678899999999886
No 91
>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=27.93 E-value=48 Score=21.78 Aligned_cols=27 Identities=30% Similarity=0.572 Sum_probs=18.3
Q ss_pred HHHHhhcCCCHHHHHHHHHHHHHHHHHhhch
Q 044570 24 QCYMHEAGVSEREAREHIHDLIAQTWMKMNR 54 (109)
Q Consensus 24 ~cYMke~g~seEeA~~~i~~~ie~~wK~ln~ 54 (109)
+.||.++|.|+|+.- -+.+.-|..|.+
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 789999999997643 344555655544
No 92
>PF13348 Y_phosphatase3C: Tyrosine phosphatase family C-terminal region; PDB: 1YWF_A 2OZ5_B.
Probab=27.92 E-value=38 Score=19.91 Aligned_cols=15 Identities=40% Similarity=0.829 Sum_probs=10.0
Q ss_pred HHHHHHhhc-CCCHHH
Q 044570 22 SIQCYMHEA-GVSERE 36 (109)
Q Consensus 22 sI~cYMke~-g~seEe 36 (109)
+++-|+++. |+|.++
T Consensus 44 s~e~Yl~~~lgl~~~~ 59 (68)
T PF13348_consen 44 SVENYLREELGLSEED 59 (68)
T ss_dssp SHHHHHHHT-T--HHH
T ss_pred CHHHHHHHcCCCCHHH
Confidence 358899888 999765
No 93
>PF08708 PriCT_1: Primase C terminal 1 (PriCT-1); InterPro: IPR014820 This alpha helical domain is found at the C-terminal of primases.
Probab=27.91 E-value=1.4e+02 Score=17.63 Aligned_cols=48 Identities=15% Similarity=0.149 Sum_probs=33.5
Q ss_pred HHhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHH
Q 044570 13 ELKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDV 66 (109)
Q Consensus 13 E~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~ 66 (109)
|-+|....-.+-|++...|++.+. .+...+...=..+|..+ ..| +|..
T Consensus 9 ~g~RN~~lf~~a~~~~~~~v~~~~---~~~~~v~~~~~~~N~~~--~~P-L~~~ 56 (71)
T PF08708_consen 9 EGGRNCTLFRLARRLAYRGVDQEE---QFRQEVLSLAQAINSNF--SPP-LPES 56 (71)
T ss_pred CCCcHHHHHHHHHHHHHhCCCHhH---HHHHHHHHHHHHHHHHc--CCC-CCHH
Confidence 344555555667899888999888 66666777777888886 345 7764
No 94
>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=27.80 E-value=99 Score=19.98 Aligned_cols=23 Identities=30% Similarity=0.403 Sum_probs=16.6
Q ss_pred hHHHH-HHhhcCCCHHHHHHHHHH
Q 044570 21 KSIQC-YMHEAGVSEREAREHIHD 43 (109)
Q Consensus 21 ssI~c-YMke~g~seEeA~~~i~~ 43 (109)
..+-+ .|+..+.+.++|.+++++
T Consensus 97 ~~~~~~l~~~~~~~~~~a~~~vr~ 120 (139)
T cd00127 97 TLVIAYLMKTLGLSLREAYEFVKS 120 (139)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHH
Confidence 33344 456679999999998876
No 95
>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=26.86 E-value=52 Score=20.94 Aligned_cols=29 Identities=17% Similarity=0.151 Sum_probs=21.2
Q ss_pred HHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhh
Q 044570 24 QCYMHEAGVSEREAREHIHDLIAQTWMKMNRDR 56 (109)
Q Consensus 24 ~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~ 56 (109)
++.|+++|.|+|| ..-+.+.-|..|..--
T Consensus 28 ea~~~~~gLt~eE----~~aL~~~D~~~L~~lG 56 (81)
T cd07922 28 SAVFEEYGLTPAE----RAALREGTFGALTSIG 56 (81)
T ss_pred HHHHHHcCCCHHH----HHHHHccCHHHHHHcC
Confidence 6778999999875 3445667788877653
No 96
>PF09618 Cas_Csy4: CRISPR-associated protein (Cas_Csy4); InterPro: IPR013396 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This protein family, typified by YPO2462 of Yersinia pestis, is a CRISPR-associated (Cas) family strictly associated with the Ypest subtype of CRISPR/Cas locus. It is designated Csy4, for CRISPR/Cas Subtype Ypest protein 4.; PDB: 4AL7_A 2XLK_A 2XLJ_A 2XLI_A 4AL5_A 4AL6_A.
Probab=26.81 E-value=26 Score=25.42 Aligned_cols=39 Identities=21% Similarity=0.234 Sum_probs=22.0
Q ss_pred eehhHHhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHH
Q 044570 9 AAPDELKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQ 47 (109)
Q Consensus 9 s~~~E~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~ 47 (109)
+|.+-|..+....-..-+||-+|.++|+|...+....+.
T Consensus 95 ~~~R~q~k~s~~r~~rR~~kR~~~~~eea~~~~~~~~~~ 133 (183)
T PF09618_consen 95 SYRRVQVKSSKERRARRSMKRHGLTEEEARQRIPKSKEQ 133 (183)
T ss_dssp -EEEE-----HHHHHHHHHHHHT--HHHHHHHS-GGG--
T ss_pred EEEEecccCCHHHHHHHHHHhCCCCHHHHHHHHhhhhhh
Confidence 455556666555566789999999999999888776653
No 97
>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=26.40 E-value=87 Score=24.66 Aligned_cols=24 Identities=25% Similarity=0.411 Sum_probs=16.8
Q ss_pred HHHHHhhcCCCHHHHHHHHHHHHH
Q 044570 23 IQCYMHEAGVSEREAREHIHDLIA 46 (109)
Q Consensus 23 I~cYMke~g~seEeA~~~i~~~ie 46 (109)
.++++++.|.|+|+|.+.+++|-.
T Consensus 328 ~~i~~~~~~~~~~~a~~~~~~l~~ 351 (360)
T cd06199 328 LDIIATEGGMDEEEAEAYLKELKK 351 (360)
T ss_pred HHHHHHhCCCCHHHHHHHHHHHHH
Confidence 345555558889999888877654
No 98
>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=26.32 E-value=1.2e+02 Score=17.70 Aligned_cols=26 Identities=19% Similarity=0.369 Sum_probs=19.5
Q ss_pred CchhHHHHHHhhcCCCHHHHHHHHHH
Q 044570 18 DVHKSIQCYMHEAGVSEREAREHIHD 43 (109)
Q Consensus 18 ~~~ssI~cYMke~g~seEeA~~~i~~ 43 (109)
+-+.-|.-..++.|+|+++.++.|+.
T Consensus 18 ~e~~ev~ywa~~~gvt~~~L~~AV~~ 43 (57)
T PF12244_consen 18 SEPYEVRYWAKRFGVTEEQLREAVRA 43 (57)
T ss_pred CCHHHHHHHHHHHCcCHHHHHHHHHH
Confidence 34567887888889999887766654
No 99
>cd05168 PI4Kc_III_beta Phosphoinositide 4-kinase (PI4K), Type III, beta 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. PI4KIIIbeta (also called Pik1p in yeast) is a 110 kDa protein that is localized to the Golgi and the nucleus. It is required for maintaining the structural integrity of the Golgi complex (GC), and is a key regulator of protein transport from the GC to the plasma membrane. PI4KII
Probab=26.13 E-value=86 Score=24.44 Aligned_cols=25 Identities=16% Similarity=0.332 Sum_probs=20.5
Q ss_pred HHhhc---CCCHHHHHHHHHHHHHHHHH
Q 044570 26 YMHEA---GVSEREAREHIHDLIAQTWM 50 (109)
Q Consensus 26 YMke~---g~seEeA~~~i~~~ie~~wK 50 (109)
++++. +.|+++|.+++.++|+++-.
T Consensus 248 ~l~~r~~l~~se~~a~~~~~~lI~~s~~ 275 (293)
T cd05168 248 QLRDRFMLNLTEEQLEVFVDELINQSLD 275 (293)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHHHHh
Confidence 56664 78999999999999998843
No 100
>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=26.08 E-value=1.6e+02 Score=23.19 Aligned_cols=39 Identities=15% Similarity=0.144 Sum_probs=27.1
Q ss_pred chhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhc
Q 044570 19 VHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRF 57 (109)
Q Consensus 19 ~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l 57 (109)
.+..-+-||++||+|.|+--+---+.-.++|+-.|...+
T Consensus 152 ~a~~a~~~~~~yg~tre~la~vav~~~~~a~~~~~~~~~ 190 (386)
T cd00751 152 MGITAENVAEKYGISREEQDEFALRSHQRAAAAQEAGRF 190 (386)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 356778999999999887444444555677766666555
No 101
>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=25.95 E-value=1.1e+02 Score=16.48 Aligned_cols=25 Identities=8% Similarity=0.226 Sum_probs=19.2
Q ss_pred hHHHHHHhhcCCCHHHHHHHHHHHH
Q 044570 21 KSIQCYMHEAGVSEREAREHIHDLI 45 (109)
Q Consensus 21 ssI~cYMke~g~seEeA~~~i~~~i 45 (109)
+.+...+++.|++.++.++.+.+++
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 4556778888999988888877654
No 102
>PRK01285 pyruvoyl-dependent arginine decarboxylase; Reviewed
Probab=25.80 E-value=45 Score=23.84 Aligned_cols=26 Identities=19% Similarity=0.394 Sum_probs=20.9
Q ss_pred HHhhc-C-CCHHHHHHHHHHHHHHHHHh
Q 044570 26 YMHEA-G-VSEREAREHIHDLIAQTWMK 51 (109)
Q Consensus 26 YMke~-g-~seEeA~~~i~~~ie~~wK~ 51 (109)
|.-|| | .+.|+|.+.+..|++..|+-
T Consensus 96 ~i~E~~g~~~~e~ae~~a~~Ml~~~~~~ 123 (155)
T PRK01285 96 YISEHHGFGEKEEAEDLAATMLEEGFKM 123 (155)
T ss_pred EEEEeccCCCHHHHHHHHHHHHHHHHHh
Confidence 55576 6 57799999999999988863
No 103
>KOG4833 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.73 E-value=94 Score=25.96 Aligned_cols=37 Identities=19% Similarity=0.350 Sum_probs=26.6
Q ss_pred hHHHHHHhhc-CCCHHHHHHHHHHHHHHH-HHhhchhhc
Q 044570 21 KSIQCYMHEA-GVSEREAREHIHDLIAQT-WMKMNRDRF 57 (109)
Q Consensus 21 ssI~cYMke~-g~seEeA~~~i~~~ie~~-wK~ln~e~l 57 (109)
--++|||.|- |.|-..|.+-+++.++.. .--+|..|.
T Consensus 18 iLlecsleedYggTddsakellQdeidmqafihiiacfv 56 (573)
T KOG4833|consen 18 ILLECSLEEDYGGTDDSAKELLQDEIDMQAFIHIIACFV 56 (573)
T ss_pred HHHHHHHHHhhCCchHHHHHHHHHHHHHHHHHHHhhheE
Confidence 4579999875 999999998888887754 333444443
No 104
>PRK15364 pathogenicity island 2 effector protein SseB; Provisional
Probab=25.48 E-value=44 Score=24.69 Aligned_cols=23 Identities=22% Similarity=0.432 Sum_probs=17.9
Q ss_pred hHHhcCCchhHHHHHHhhcCCCH
Q 044570 12 DELKRGDVHKSIQCYMHEAGVSE 34 (109)
Q Consensus 12 ~E~~rg~~~ssI~cYMke~g~se 34 (109)
.+..++.+|-.|--||++||++.
T Consensus 92 ddK~k~~LPddVI~YmrdNgI~V 114 (196)
T PRK15364 92 DAKTKEEVPEDVIKYMRDNGILI 114 (196)
T ss_pred CCcccccCCHHHHHHHHHcCcee
Confidence 34556788888999999998764
No 105
>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=25.44 E-value=56 Score=25.58 Aligned_cols=31 Identities=19% Similarity=0.105 Sum_probs=19.8
Q ss_pred HHhhHhhhcccCCCCcCCchhHHHHHHHhcccC
Q 044570 74 LARMSQCMYQFGEGHRHGVQEITKARVLSLIID 106 (109)
Q Consensus 74 laR~~~~~Y~~~Dgyt~~~~~~~k~~I~sll~~ 106 (109)
|+=++..||.+. =|-. +..++-+.|++||.+
T Consensus 241 LkDIm~~Fy~Ge-l~~f-sTdElI~lIkslFad 271 (291)
T PF11989_consen 241 LKDIMEMFYQGE-LYDF-STDELIQLIKSLFAD 271 (291)
T ss_dssp HHHHHHHHHTTG-GGGS--HHHHHHHHHHHS--
T ss_pred HHHHHHHHhcCc-hhcc-cHHHHHHHHHHHhcC
Confidence 566677777654 3333 236999999999986
No 106
>cd04470 S1_EF-P_repeat_1 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-tRNA and puromycine in vitro. EF-P binds to both the 30S and 50S ribosomal subunits. EF-P binds near the streptomycine binding site of the 16S rRNA in the 30S subunit. EF-P interacts with domains 2 and 5 of the 23S rRNA. The L16 ribosomal protein of the 50S or its N-terminal fragment are required for EF-P mediated peptide bond synthesis, whereas L11, L15, and L7/L12 are not required in this reaction, suggesting that EF-P may function at a different ribosomal site than most other translation factors. EF-P is essential for cell viability and is required for protein synthesis. EF-P is mainly present in bacteria. The EF-P homologs in archaea and eukaryotes are the initiation factors aIF5A and eIF5A, respectively. EF-P
Probab=25.39 E-value=13 Score=22.13 Aligned_cols=14 Identities=29% Similarity=0.396 Sum_probs=11.1
Q ss_pred hhHhhhcccCCCCc
Q 044570 76 RMSQCMYQFGEGHR 89 (109)
Q Consensus 76 R~~~~~Y~~~Dgyt 89 (109)
|-++++|++||+|.
T Consensus 3 ~~~qylY~dg~~~~ 16 (61)
T cd04470 3 REMQYLYKDGDNYV 16 (61)
T ss_pred ceEEEEEeCCCEEE
Confidence 45688999998875
No 107
>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=25.38 E-value=2.5e+02 Score=22.23 Aligned_cols=77 Identities=13% Similarity=-0.007 Sum_probs=43.8
Q ss_pred HHHHhhc-CCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHh------hhcccCCCCcCCchhHH
Q 044570 24 QCYMHEA-GVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQ------CMYQFGEGHRHGVQEIT 96 (109)
Q Consensus 24 ~cYMke~-g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~------~~Y~~~Dgyt~~~~~~~ 96 (109)
+.+++.. +.|.+++++.+.+.|+.+.+.=.+-.+.... .++.=.+.++.+++.+. +...+.-|... | ..+
T Consensus 97 d~~~~~~~~~s~~e~l~~~~~~i~~ak~~g~~v~~~~ed-~~r~~~~~l~~~~~~~~~~Ga~~i~l~DT~G~~~-P-~~v 173 (365)
T TIGR02660 97 DLQIEAKLRKDRAWVLERLARLVSFARDRGLFVSVGGED-ASRADPDFLVELAEVAAEAGADRFRFADTVGILD-P-FST 173 (365)
T ss_pred HHHHHHHhCcCHHHHHHHHHHHHHHHHhCCCEEEEeecC-CCCCCHHHHHHHHHHHHHcCcCEEEEcccCCCCC-H-HHH
Confidence 4455555 8899999999999999886532222233222 22222233333333222 23356678777 6 467
Q ss_pred HHHHHhc
Q 044570 97 KARVLSL 103 (109)
Q Consensus 97 k~~I~sl 103 (109)
.+.|..+
T Consensus 174 ~~lv~~l 180 (365)
T TIGR02660 174 YELVRAL 180 (365)
T ss_pred HHHHHHH
Confidence 7777665
No 108
>PRK09282 pyruvate carboxylase subunit B; Validated
Probab=25.32 E-value=4.4e+02 Score=22.64 Aligned_cols=81 Identities=14% Similarity=0.112 Sum_probs=48.6
Q ss_pred HhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHhhhcccCCCCcCCch
Q 044570 14 LKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQCMYQFGEGHRHGVQ 93 (109)
Q Consensus 14 ~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~~~Y~~~Dgyt~~~~ 93 (109)
.-.|-. |.+.--+++.|. .+-..+|.+.+.+.|++|=.-.+= + |.=+.+.++|- +++ + .|+.|.. -.
T Consensus 296 ~pGg~~-snl~~q~~~~g~--~d~~~~vl~e~~~v~~~lG~~~~V-T-----P~Sq~vg~~A~-~nv-~-~~~~~~~-~~ 362 (592)
T PRK09282 296 VPGGMI-SNLVSQLKEQNA--LDKLDEVLEEIPRVREDLGYPPLV-T-----PTSQIVGTQAV-LNV-L-TGERYKV-IT 362 (592)
T ss_pred CCCcHH-HHHHHHHHHCCc--HHHHHHHHHHHHHHHHHcCCCCeE-C-----ChhHhHHHHHH-HHH-H-cCCcccc-CC
Confidence 344433 777778888888 456667777777777665333221 1 33366666663 333 3 3455664 34
Q ss_pred hHHHHHHHhcccCc
Q 044570 94 EITKARVLSLIIDP 107 (109)
Q Consensus 94 ~~~k~~I~sll~~P 107 (109)
++++++++-.+-.|
T Consensus 363 ~~~~~~~~G~~G~~ 376 (592)
T PRK09282 363 KEVKDYVKGLYGRP 376 (592)
T ss_pred HHHHHHhCcCCCCC
Confidence 67888888777554
No 109
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.90 E-value=49 Score=21.87 Aligned_cols=25 Identities=20% Similarity=0.381 Sum_probs=22.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHhhchh
Q 044570 31 GVSEREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 31 g~seEeA~~~i~~~ie~~wK~ln~e 55 (109)
.+|.++|++.+.+|=-..||..++-
T Consensus 62 ~lskd~aRE~VyGMpy~eWka~~Q~ 86 (104)
T COG3492 62 DLSKDQAREIVYGMPYAEWKAQHQS 86 (104)
T ss_pred CccHHHHHHHHhCCCHHHHHHhcCC
Confidence 3689999999999999999998873
No 110
>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=24.88 E-value=1.7e+02 Score=18.36 Aligned_cols=37 Identities=14% Similarity=0.043 Sum_probs=22.1
Q ss_pred HHHHHHHHHHhhHhhhc-ccCCCCcCCchhHHHHHHHhc
Q 044570 66 VFVGIAMNLARMSQCMY-QFGEGHRHGVQEITKARVLSL 103 (109)
Q Consensus 66 ~~~~~~~NlaR~~~~~Y-~~~Dgyt~~~~~~~k~~I~sl 103 (109)
++=..+-.+.++.+.+= ++|||++. +..+++..+.+.
T Consensus 4 ~le~a~~~~~~~F~~~dd~dgdg~~I-s~~EL~~ll~~~ 41 (93)
T cd05026 4 QLEGAMDTLIRIFHNYSGKEGDRYKL-SKGELKELLQRE 41 (93)
T ss_pred HHHHHHHHHHHHHHHHHccCCCCCEE-CHHHHHHHHHHH
Confidence 34444555556665433 35788765 456888887664
No 111
>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=24.66 E-value=94 Score=24.84 Aligned_cols=24 Identities=21% Similarity=0.306 Sum_probs=16.9
Q ss_pred HHHHhhcCCCHHHHHHHHHHHHHH
Q 044570 24 QCYMHEAGVSEREAREHIHDLIAQ 47 (109)
Q Consensus 24 ~cYMke~g~seEeA~~~i~~~ie~ 47 (109)
++++++.|+|+|+|.+.+++|..+
T Consensus 367 ~i~~~~~~~~~~~a~~~~~~l~~~ 390 (398)
T cd06203 367 DILSKELGLDKLEAKKLLARLRKE 390 (398)
T ss_pred HHHHHcCCCCHHHHHHHHHHHHHc
Confidence 445555588999998888776543
No 112
>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=24.62 E-value=1e+02 Score=19.70 Aligned_cols=26 Identities=23% Similarity=0.235 Sum_probs=18.7
Q ss_pred hhHHHHHHhhcCCCHHHHHHHHHHHH
Q 044570 20 HKSIQCYMHEAGVSEREAREHIHDLI 45 (109)
Q Consensus 20 ~ssI~cYMke~g~seEeA~~~i~~~i 45 (109)
.++|+-+|+-+|+|-.||++.+.+..
T Consensus 64 Gd~i~~v~~~~~~~f~eAv~~l~~~~ 89 (97)
T PF01807_consen 64 GDVIDFVMKYEGCSFKEAVKWLAEEF 89 (97)
T ss_dssp E-HHHHHHHHHT--HHHHHHHHHHHH
T ss_pred CcHHhHHHHHhCCCHHHHHHHHHHHh
Confidence 36788888888999999998887754
No 113
>COG5499 Predicted transcription regulator containing HTH domain [Transcription]
Probab=23.99 E-value=79 Score=21.58 Aligned_cols=33 Identities=18% Similarity=0.145 Sum_probs=23.4
Q ss_pred ceeeeeehhH---HhcCCchhHHHHHHhhcCCCHHH
Q 044570 4 AWISVAAPDE---LKRGDVHKSIQCYMHEAGVSERE 36 (109)
Q Consensus 4 ~~~i~s~~~E---~~rg~~~ssI~cYMke~g~seEe 36 (109)
+|++..|+++ ++--+..++|..||.++|.|..+
T Consensus 43 atl~eAyE~kh~~i~aP~pve~I~t~Md~~glt~~d 78 (120)
T COG5499 43 ATLIEAYEFKHYPIAAPDPVEVIRTLMDQYGLTLAD 78 (120)
T ss_pred HHHHhhhhhhhchhhcCCHHHHHHHHHHHhCCcHHH
Confidence 4666667665 23344458999999999988654
No 114
>KOG1257 consensus NADP+-dependent malic enzyme [Energy production and conversion]
Probab=23.82 E-value=49 Score=28.37 Aligned_cols=36 Identities=31% Similarity=0.422 Sum_probs=26.7
Q ss_pred chhHHHHHHhhcCCCHHHHHHHH-----HHHHHHHHH-hhch
Q 044570 19 VHKSIQCYMHEAGVSEREAREHI-----HDLIAQTWM-KMNR 54 (109)
Q Consensus 19 ~~ssI~cYMke~g~seEeA~~~i-----~~~ie~~wK-~ln~ 54 (109)
+|+-+--.|...|+|+|||++.| +.+|-...| .+..
T Consensus 325 IA~l~v~~m~~~Gl~~eeA~kkIwlvD~~GLi~~~r~~~l~~ 366 (582)
T KOG1257|consen 325 IANLIVMAMVKEGLSEEEARKKIWLVDSKGLITKGRKASLTE 366 (582)
T ss_pred HHHHHHHHHHHcCCCHHHHhccEEEEecCceeeccccCCCCh
Confidence 56667777888899999999987 466666676 4443
No 115
>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=23.41 E-value=3.2e+02 Score=20.35 Aligned_cols=44 Identities=9% Similarity=-0.053 Sum_probs=27.9
Q ss_pred HhhcCCCHH---------HHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHH
Q 044570 27 MHEAGVSER---------EAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIA 71 (109)
Q Consensus 27 Mke~g~seE---------eA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~ 71 (109)
|.++|+|+| ....-+..+++.+..-+.+..---.. +|......+
T Consensus 171 l~~~gv~~~~l~~~~~~~~~~~~~~~l~~~A~~~l~~a~~~~~~-~p~~~~~~~ 223 (266)
T TIGR03465 171 LQRFGVPAADILEGRYSPALAALCRFQAERARAHYAEADALLPA-CDRRAQRAA 223 (266)
T ss_pred HHHcCCCHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhh-CCHhhhHHH
Confidence 467898876 45677888888888777666422224 675433333
No 116
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=23.30 E-value=1.9e+02 Score=17.68 Aligned_cols=49 Identities=14% Similarity=0.281 Sum_probs=32.9
Q ss_pred chhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHH
Q 044570 19 VHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAM 72 (109)
Q Consensus 19 ~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~ 72 (109)
+..|+. -|++.|.+++..+.-+++++.-- +=|++++...+ =+.+.+.++
T Consensus 11 ~daA~d-am~~lG~~~~~v~~vl~~LL~lY--~~nW~lIEed~--Y~~L~dai~ 59 (65)
T PF10440_consen 11 IDAALD-AMRQLGFSKKQVRPVLKNLLKLY--DGNWELIEEDN--YRVLADAIF 59 (65)
T ss_pred HHHHHH-HHHHcCCCHHHHHHHHHHHHHHH--cCCchhhhccc--HHHHHHHHH
Confidence 445665 69999999999998888888765 33467665432 234444444
No 117
>PF02512 UK: Virulence determinant
Probab=23.21 E-value=98 Score=19.98 Aligned_cols=24 Identities=25% Similarity=0.508 Sum_probs=17.1
Q ss_pred CCHHHH-HHHHHHHHHHHHHhhchh
Q 044570 32 VSEREA-REHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 32 ~seEeA-~~~i~~~ie~~wK~ln~e 55 (109)
++|..| ..--.+-|.+-||.||+.
T Consensus 38 i~EKsa~~mtssewiaeywkgi~rg 62 (96)
T PF02512_consen 38 IPEKSAREMTSSEWIAEYWKGIKRG 62 (96)
T ss_pred cchhHHhhhhhHHHHHHHHHhcccC
Confidence 556666 334456799999999985
No 118
>PHA02593 62 clamp loader small subunit; Provisional
Probab=23.05 E-value=1e+02 Score=22.84 Aligned_cols=34 Identities=18% Similarity=0.158 Sum_probs=24.0
Q ss_pred HHHHHHhhcCCCHHHHHHHHHHHHHHH-----HHhhchh
Q 044570 22 SIQCYMHEAGVSEREAREHIHDLIAQT-----WMKMNRD 55 (109)
Q Consensus 22 sI~cYMke~g~seEeA~~~i~~~ie~~-----wK~ln~e 55 (109)
.|..-|+-||++.+.|++.++-+=.+. ||.+...
T Consensus 127 ~i~ll~~~Y~vn~~kA~eyl~iltk~~~l~~~lk~~k~~ 165 (191)
T PHA02593 127 IIKLLAKAYSVNTDDAREYLDILKKKGKLPDVLKRLKGL 165 (191)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHhccccchHHHHHHHHHh
Confidence 345445556999999999998776655 6665543
No 119
>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=22.97 E-value=3.2e+02 Score=20.30 Aligned_cols=78 Identities=9% Similarity=-0.041 Sum_probs=42.8
Q ss_pred HHHhhc-CCCHHHHHHHHHHHHHHHHHhhchhhcCCCC-c-CcHH-HHHHHHHHHhh-Hhhhc-ccCCCCcCCchhHHHH
Q 044570 25 CYMHEA-GVSEREAREHIHDLIAQTWMKMNRDRFGNPH-F-VSDV-FVGIAMNLARM-SQCMY-QFGEGHRHGVQEITKA 98 (109)
Q Consensus 25 cYMke~-g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~-~-~p~~-~~~~~~NlaR~-~~~~Y-~~~Dgyt~~~~~~~k~ 98 (109)
-+++.+ |.|.+++.+.+...++.+.+.=-+-.+.... + .+.. +++++-.+... ++.+| .+.-|.-. | ..+.+
T Consensus 95 ~~~~~~~~~~~~~~~~~~~~~i~~a~~~G~~v~~~~~~~~~~~~~~~~~~~~~~~~~G~~~i~l~DT~G~~~-P-~~v~~ 172 (259)
T cd07939 95 IHLAHKLGKDRAWVLDQLRRLVGRAKDRGLFVSVGAEDASRADPDFLIEFAEVAQEAGADRLRFADTVGILD-P-FTTYE 172 (259)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHHHHHCCCeEEEeeccCCCCCHHHHHHHHHHHHHCCCCEEEeCCCCCCCC-H-HHHHH
Confidence 344555 8889999999999999887642222333211 0 2222 22222221111 22334 56677777 6 46777
Q ss_pred HHHhcc
Q 044570 99 RVLSLI 104 (109)
Q Consensus 99 ~I~sll 104 (109)
.|..+.
T Consensus 173 lv~~l~ 178 (259)
T cd07939 173 LIRRLR 178 (259)
T ss_pred HHHHHH
Confidence 776653
No 120
>PRK11858 aksA trans-homoaconitate synthase; Reviewed
Probab=22.89 E-value=2.7e+02 Score=22.22 Aligned_cols=77 Identities=10% Similarity=0.010 Sum_probs=43.7
Q ss_pred HHHHhhc-CCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHh------hhcccCCCCcCCchhHH
Q 044570 24 QCYMHEA-GVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQ------CMYQFGEGHRHGVQEIT 96 (109)
Q Consensus 24 ~cYMke~-g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~------~~Y~~~Dgyt~~~~~~~ 96 (109)
+.+++.. |.|.+++.+.+...|+.+...=-+-++.... .++.=.+.++.+++.+. +.+.+.-|... | ..+
T Consensus 100 d~h~~~~~~~s~~~~l~~~~~~v~~a~~~G~~v~~~~ed-~~r~~~~~l~~~~~~~~~~Ga~~I~l~DT~G~~~-P-~~v 176 (378)
T PRK11858 100 DIHIKHKLKKTREEVLERMVEAVEYAKDHGLYVSFSAED-ASRTDLDFLIEFAKAAEEAGADRVRFCDTVGILD-P-FTM 176 (378)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCeEEEEecc-CCCCCHHHHHHHHHHHHhCCCCEEEEeccCCCCC-H-HHH
Confidence 3455555 8899999999999999886532222332211 22222233333333322 33466678887 6 467
Q ss_pred HHHHHhc
Q 044570 97 KARVLSL 103 (109)
Q Consensus 97 k~~I~sl 103 (109)
.+.|..+
T Consensus 177 ~~lv~~l 183 (378)
T PRK11858 177 YELVKEL 183 (378)
T ss_pred HHHHHHH
Confidence 7776655
No 121
>PF02061 Lambda_CIII: Lambda Phage CIII; InterPro: IPR013056 Bacteriophage lambda regulatory protein CIII is a small protein that plays a role in stabilising the CII transcriptional activator, via a mechanism that is not yet fully understood [, ]. Stabilised CII activates CI, the gene for the repressor protein that prevents transcription of proteins required for lytic development. The central portion of the protein is well conserved and is both necessary and sufficient for the activity of the protein []. Comparative analysis of the CIII sequence in lambda, Bacteriophage HK022 and the lambdoid Enterobacteria phage P22 has led to the suggestion that this central region assumes an amphipathic alpha-helical structure []. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=22.83 E-value=1.6e+02 Score=16.61 Aligned_cols=25 Identities=12% Similarity=0.290 Sum_probs=18.6
Q ss_pred CCC--HHHHHHHHHHHHHHHHHhhchh
Q 044570 31 GVS--EREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 31 g~s--eEeA~~~i~~~ie~~wK~ln~e 55 (109)
|++ .|.-.+.|..-+.+.||.|-+-
T Consensus 12 G~~ql~ESLLdrItRklr~gwKRl~~i 38 (45)
T PF02061_consen 12 GCPQLSESLLDRITRKLRDGWKRLWDI 38 (45)
T ss_pred CCchhhHHHHHHHHHHHHHHHHHHHHH
Confidence 455 4677788888899999987443
No 122
>PF12674 Zn_ribbon_2: Putative zinc ribbon domain
Probab=22.82 E-value=93 Score=19.60 Aligned_cols=16 Identities=13% Similarity=0.191 Sum_probs=7.6
Q ss_pred CCHHHHHHHHHHHHHH
Q 044570 32 VSEREAREHIHDLIAQ 47 (109)
Q Consensus 32 ~seEeA~~~i~~~ie~ 47 (109)
.|.||.++.....+.+
T Consensus 42 ~t~eemie~~~~~~~~ 57 (81)
T PF12674_consen 42 ITMEEMIEFCVPFMDE 57 (81)
T ss_pred CCHHHHHHHHHHHHHH
Confidence 4455555444444443
No 123
>PF03949 Malic_M: Malic enzyme, NAD binding domain; InterPro: IPR012302 Malic enzymes (malate oxidoreductases) catalyse the oxidative decarboxylation of malate to form pyruvate [], a reaction important in a number of metabolic pathways - e.g. carbon dioxide released from the reaction may be used in sugar production during the Calvin cycle of photosynthesis []. There are 3 forms of the enzyme []: an NAD-dependent form that decarboxylates oxaloacetate; an NAD-dependent form that does not decarboxylate oxalo-acetate; and an NADPH-dependent form []. Other proteins known to be similar to malic enzymes are the Escherichia coli scfA protein; an enzyme from Zea mays (Maize), formerly thought to be cinnamyl-alcohol dehydrogenase []; and the hypothetical Saccharomyces cerevisiae protein YKL029c. Studies on the duck liver malic enzyme reveals that it can be alkylated by bromopyruvate, resulting in the loss of oxidative decarboxylation and the subsequent enhancement of pyruvate reductase activity []. The alkylated form is able to bind NADPH but not L-malate, indicating impaired substrate-or divalent metal ion-binding in the active site []. Sequence analysis has highlighted a cysteine residue as the point of alkylation, suggesting that it may play an important role in the activity of the enzyme [], although it is absent in the sequences from some species. There are three well conserved regions in the enzyme sequences. Two of them seem to be involved in the binding NAD or NADP. The significance of the third one, located in the central part of the enzymes, is not yet known.; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 2DVM_B 1WW8_A 3NV9_A 1PJ2_A 1PJL_B 1GZ3_A 1PJ4_A 1PJ3_C 1EFL_A 1EFK_B ....
Probab=22.42 E-value=40 Score=25.91 Aligned_cols=34 Identities=29% Similarity=0.436 Sum_probs=21.5
Q ss_pred hhHHHHHHhhcCCCHHHHHHHHH-----HHHHHHHHhhc
Q 044570 20 HKSIQCYMHEAGVSEREAREHIH-----DLIAQTWMKMN 53 (109)
Q Consensus 20 ~ssI~cYMke~g~seEeA~~~i~-----~~ie~~wK~ln 53 (109)
+.-+--+|...|+|+|||++.|. .+|-+..++|+
T Consensus 41 a~ll~~~~~~~G~~~~eA~~~i~lvD~~Gll~~~r~~l~ 79 (255)
T PF03949_consen 41 ARLLVAAMVREGLSEEEARKRIWLVDSKGLLTDDREDLN 79 (255)
T ss_dssp HHHHHHHHHCTTS-HHHHHTTEEEEETTEEEBTTTSSHS
T ss_pred HHHHHHHHHHhcCCHHHHhccEEEEeccceEeccCccCC
Confidence 44556677777999999998873 34444444443
No 124
>PLN02644 acetyl-CoA C-acetyltransferase
Probab=22.38 E-value=1.6e+02 Score=23.42 Aligned_cols=36 Identities=6% Similarity=-0.019 Sum_probs=21.8
Q ss_pred chhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhch
Q 044570 19 VHKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNR 54 (109)
Q Consensus 19 ~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~ 54 (109)
.+..-+-||++||+|.|+--+---+.=.++|+-.|.
T Consensus 156 ~~~~A~~~~~~yG~tre~la~vav~s~~~a~~a~~~ 191 (394)
T PLN02644 156 MGVCAELCADQYSISREEQDAYAIQSYERAIAAQEA 191 (394)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhHHc
Confidence 334556799999999886333333333455655554
No 125
>PF09317 DUF1974: Domain of unknown function (DUF1974); InterPro: IPR015396 This C-terminal domain is functionally uncharacterised and is predominantly found in various prokaryotic acyl-coenzyme a dehydrogenases. ; GO: 0003995 acyl-CoA dehydrogenase activity, 0033539 fatty acid beta-oxidation using acyl-CoA dehydrogenase, 0055114 oxidation-reduction process
Probab=22.29 E-value=3.8e+02 Score=20.89 Aligned_cols=74 Identities=15% Similarity=0.233 Sum_probs=45.7
Q ss_pred hHHHHHHhhcCCCHHH------HHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHhhhcccCCCCcCCchh
Q 044570 21 KSIQCYMHEAGVSERE------AREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQCMYQFGEGHRHGVQE 94 (109)
Q Consensus 21 ssI~cYMke~g~seEe------A~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~~~Y~~~Dgyt~~~~~ 94 (109)
|++--+-.+.|-.+++ |.++--..|+++..++.. + +|.+.+..++ |.+ ++--|-.|.. |++
T Consensus 113 sAvLKr~ed~Gr~~~Dlplv~wa~~~~l~~~q~Al~~~~~------N-fP~r~~~~ll---R~l--~fP~G~~~~~-PsD 179 (284)
T PF09317_consen 113 SAVLKRFEDEGRPEEDLPLVHWAMQDALYRIQEALDGILR------N-FPNRALAWLL---RAL--VFPLGRRYRK-PSD 179 (284)
T ss_pred HHHHHHHHhcCCChhhHHHHHHHHHHHHHHHHHHHHHHHH------h-CCChHHHHHH---HHh--hcCCCCCCCC-CCh
Confidence 4444333455765554 555666666666655433 3 6655554444 333 4556666777 888
Q ss_pred HHHHHHHhcccCc
Q 044570 95 ITKARVLSLIIDP 107 (109)
Q Consensus 95 ~~k~~I~sll~~P 107 (109)
++...|..++.+|
T Consensus 180 ~l~~~vA~~l~~p 192 (284)
T PF09317_consen 180 KLGHEVARLLMTP 192 (284)
T ss_pred HHHHHHHHHHcCC
Confidence 9999999998887
No 126
>PF01132 EFP: Elongation factor P (EF-P) OB domain; InterPro: IPR001059 Elongation factor P (EF-P) is a prokaryotic protein translation factor required for efficient peptide bond synthesis on 70S ribosomes from fMet-tRNAfMet []. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase. This entry reresents the central domain of elongation factor P and its homologues. It forms an oligonucleotide-binding (OB) fold, though it is not clear if this region is involved in binding nucleic acids [].; GO: 0003746 translation elongation factor activity, 0006414 translational elongation; PDB: 1YBY_A 3A5Z_H 3TRE_A 1UEB_B 3HUW_V 3HUY_V 3OYY_B.
Probab=22.25 E-value=10 Score=21.99 Aligned_cols=15 Identities=27% Similarity=0.368 Sum_probs=11.5
Q ss_pred hhHhhhcccCCCCcC
Q 044570 76 RMSQCMYQFGEGHRH 90 (109)
Q Consensus 76 R~~~~~Y~~~Dgyt~ 90 (109)
|-++++|++||+|..
T Consensus 2 r~~qylY~dgd~~~F 16 (55)
T PF01132_consen 2 REMQYLYKDGDNYVF 16 (55)
T ss_dssp EEEEEEEEESSEEEE
T ss_pred ceEEEEEeCCCEEEE
Confidence 346788999998874
No 127
>smart00398 HMG high mobility group.
Probab=22.03 E-value=1.6e+02 Score=16.50 Aligned_cols=18 Identities=11% Similarity=0.468 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHhhchh
Q 044570 38 REHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 38 ~~~i~~~ie~~wK~ln~e 55 (109)
...|..++...|+.|..+
T Consensus 29 ~~~i~~~~~~~W~~l~~~ 46 (70)
T smart00398 29 NAEISKKLGERWKLLSEE 46 (70)
T ss_pred HHHHHHHHHHHHHcCCHH
Confidence 567788899999887654
No 128
>PF03701 UPF0181: Uncharacterised protein family (UPF0181); InterPro: IPR005371 This family contains small proteins of about 50 amino acids of unknown function. The family includes YoaH P76260 from SWISSPROT.
Probab=21.56 E-value=1.8e+02 Score=16.95 Aligned_cols=44 Identities=23% Similarity=0.227 Sum_probs=28.3
Q ss_pred cceeeeeehhHHhcCCchhHHHHHHhhcCCCHHHHHHHHHHHHHHHHH
Q 044570 3 NAWISVAAPDELKRGDVHKSIQCYMHEAGVSEREAREHIHDLIAQTWM 50 (109)
Q Consensus 3 ~~~~i~s~~~E~~rg~~~ssI~cYMke~g~seEeA~~~i~~~ie~~wK 50 (109)
|-+.--||+.-|+- ..-|+-.|.+ |+|.-||+.-+-..|.+.-+
T Consensus 3 ~~lp~LtHeeQQ~A---vE~Iq~LMaq-GmSsgEAI~~VA~~iRe~~~ 46 (51)
T PF03701_consen 3 NDLPSLTHEEQQQA---VERIQELMAQ-GMSSGEAIAIVAQEIREEHQ 46 (51)
T ss_pred CCCCCCCHHHHHHH---HHHHHHHHHh-cccHHHHHHHHHHHHHHHHH
Confidence 34444555543332 3557777776 99999999888777766543
No 129
>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=21.34 E-value=82 Score=21.12 Aligned_cols=35 Identities=11% Similarity=0.146 Sum_probs=23.0
Q ss_pred HHHHHhhchhhcCCCCcCcHHHHHHHHHHHhhHhhhcc
Q 044570 46 AQTWMKMNRDRFGNPHFVSDVFVGIAMNLARMSQCMYQ 83 (109)
Q Consensus 46 e~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR~~~~~Y~ 83 (109)
|.|||+|-=..+..+| ..--+..++-|-+-+|=|+
T Consensus 20 e~AWkdLii~~l~~tP---~~tyRt~l~ka~~EnFDYk 54 (105)
T PF05341_consen 20 EHAWKDLIILLLRNTP---RSTYRTMLRKANFENFDYK 54 (105)
T ss_pred HHHHHHHHHHHHhcCc---HHHHHhhhhhhhhhccCCC
Confidence 6899999988887554 3333445566666665554
No 130
>PF00816 Histone_HNS: H-NS histone family Partial NMR structure.; InterPro: IPR001801 The histone-like nucleoid-structuring (H-NS) protein belongs to a family of bacterial proteins that play a role in the formation of nucleoid structure and affect gene expression under certain conditions [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2LEV_A 1HNS_A 1LR1_B 1HNR_A 1NI8_A 1OV9_A 2JR1_A 3NR7_A 2L93_A 2L92_A.
Probab=21.31 E-value=60 Score=20.45 Aligned_cols=23 Identities=30% Similarity=0.394 Sum_probs=12.6
Q ss_pred hcCCchhHHHHHHhhcCCCHHHH
Q 044570 15 KRGDVHKSIQCYMHEAGVSEREA 37 (109)
Q Consensus 15 ~rg~~~ssI~cYMke~g~seEeA 37 (109)
++...-+.|.-.|.++|+|.+|-
T Consensus 21 e~~~~~~~i~~~~~~~Gis~~el 43 (93)
T PF00816_consen 21 EREEAIAEIRELMAEYGISPEEL 43 (93)
T ss_dssp CCHHHHHHHHHHHHHTT--HHHC
T ss_pred HHHHHHHHHHHHHHHhCCCHHHh
Confidence 33444566666777777776554
No 131
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=21.21 E-value=1.5e+02 Score=20.05 Aligned_cols=54 Identities=13% Similarity=0.203 Sum_probs=35.7
Q ss_pred hHHHHHHhhcCCCHHHHHHHHHHHHHHHHHh-hchhhcCCCCcCcHHHHHHHHHHHhh
Q 044570 21 KSIQCYMHEAGVSEREAREHIHDLIAQTWMK-MNRDRFGNPHFVSDVFVGIAMNLARM 77 (109)
Q Consensus 21 ssI~cYMke~g~seEeA~~~i~~~ie~~wK~-ln~e~l~~~~~~p~~~~~~~~NlaR~ 77 (109)
.-+-|.+..+|...+...+.|+..|-.++.= .+. |++.. -|..+-+++--|-+.
T Consensus 58 RfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDw-f~kSR--t~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 58 RFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDW-FFKSR--TPQELQRRCNTLIKL 112 (118)
T ss_dssp HHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-H-HHHTS---HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccch-hcccC--CHHHHHHHHHHHHHH
Confidence 4577999999998899999999999998742 222 33322 356666666555544
No 132
>PRK06065 acetyl-CoA acetyltransferase; Provisional
Probab=21.13 E-value=98 Score=24.87 Aligned_cols=14 Identities=29% Similarity=0.608 Sum_probs=12.3
Q ss_pred HHHHHhhcCCCHHH
Q 044570 23 IQCYMHEAGVSERE 36 (109)
Q Consensus 23 I~cYMke~g~seEe 36 (109)
-+-||++||+|+|+
T Consensus 156 a~rym~~yG~~~e~ 169 (392)
T PRK06065 156 MHRYMATYGIKKEE 169 (392)
T ss_pred HHHHHHHHCcCHHH
Confidence 47899999999876
No 133
>KOG4511 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.13 E-value=1.1e+02 Score=24.20 Aligned_cols=23 Identities=22% Similarity=0.570 Sum_probs=17.8
Q ss_pred chhHHHHHHhhcCCCHHH---HHHHH
Q 044570 19 VHKSIQCYMHEAGVSERE---AREHI 41 (109)
Q Consensus 19 ~~ssI~cYMke~g~seEe---A~~~i 41 (109)
+..-++|||+|-|+|+++ |+...
T Consensus 61 Vd~lle~f~eevgi~p~qf~~Ac~~~ 86 (335)
T KOG4511|consen 61 VDTLLECFCEEVGITPTQFVAACQLF 86 (335)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHhcc
Confidence 457789999999999754 65554
No 134
>COG4046 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.12 E-value=89 Score=25.21 Aligned_cols=60 Identities=13% Similarity=0.160 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHhhchhhcCC-CCcCcHHHHHHHHHHHhhHhhhcccCCCCcCCchhHHHH
Q 044570 37 AREHIHDLIAQTWMKMNRDRFGN-PHFVSDVFVGIAMNLARMSQCMYQFGEGHRHGVQEITKA 98 (109)
Q Consensus 37 A~~~i~~~ie~~wK~ln~e~l~~-~~~~p~~~~~~~~NlaR~~~~~Y~~~Dgyt~~~~~~~k~ 98 (109)
-.+|+-++=++..+++-+-+... +. +.++=+..++..++.++++||+-+.|-. ...++++
T Consensus 100 R~~~Ll~~~~dr~~~~v~r~~p~~D~-v~r~~l~~a~ev~~~m~~I~K~vrH~l~-~ArKt~n 160 (368)
T COG4046 100 RLRHLLEMGEDRFRKLVRRLVPAADG-VRRSNLEMALEVAASMNFIYKYVRHYLL-LARKTNN 160 (368)
T ss_pred HHHHHHHhhhHHHHHHHHHcCCcccc-eehhhHHHHHHHHHHHHHHHHHHHHHHH-HHHHhcc
Confidence 34555555566666666555431 34 8889999999999999999998887764 3334433
No 135
>KOG3109 consensus Haloacid dehalogenase-like hydrolase [General function prediction only]
Probab=21.08 E-value=1e+02 Score=23.59 Aligned_cols=24 Identities=38% Similarity=0.506 Sum_probs=18.9
Q ss_pred hhHHHHHHhhc-CCCHHHHHHHHHH
Q 044570 20 HKSIQCYMHEA-GVSEREAREHIHD 43 (109)
Q Consensus 20 ~ssI~cYMke~-g~seEeA~~~i~~ 43 (109)
.+.|+-||.|+ |.++|+|.+....
T Consensus 38 ~~nI~~f~~eklgi~~e~a~~L~~~ 62 (244)
T KOG3109|consen 38 RNNIQEFFVEKLGISEEEAEELRES 62 (244)
T ss_pred HHHHHHHHHHHhCCChhhhHHHHHH
Confidence 46788999999 9999998765443
No 136
>TIGR00134 gatE_arch glutamyl-tRNA(Gln) amidotransferase, subunit E. The Archaea have an Asp-tRNA(Asn) amidotransferase instead of an Asp--tRNA ligase, but the genes have not been identified. It is likely that this protein replaces gatB in Asp-tRNA(Asn) amidotransferase but that both enzymes share gatA.
Probab=20.66 E-value=3.9e+02 Score=23.29 Aligned_cols=53 Identities=15% Similarity=0.144 Sum_probs=35.6
Q ss_pred hhHHHHHHhhcCCCHHHHHHHHHHHHHHHHHhhchhhcCCCCcCcHHHHHHHHHHHh
Q 044570 20 HKSIQCYMHEAGVSEREAREHIHDLIAQTWMKMNRDRFGNPHFVSDVFVGIAMNLAR 76 (109)
Q Consensus 20 ~ssI~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e~l~~~~~~p~~~~~~~~NlaR 76 (109)
..-.+-|+++||+|+++|..-+.....+-..++.+.+ .. -|+.....+++..|
T Consensus 449 ~~~~~r~~~~ygls~~~A~~l~~~~~~~~fe~~~~~~---~~-~~~~~an~l~~~~~ 501 (620)
T TIGR00134 449 EEKKERIMREYGLSEDLASQLVKSNYVDEFEALTEKF---RV-DPTVIASLLAYTLR 501 (620)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHhchHHHHHHHHHHhc---CC-CHHHHHHHHHHHHH
Confidence 3467889999999999998877776655565555432 12 35555566666543
No 137
>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=20.46 E-value=1.3e+02 Score=24.23 Aligned_cols=24 Identities=25% Similarity=0.245 Sum_probs=16.7
Q ss_pred HHHHHhhcCCCHHHHHHHHHHHHH
Q 044570 23 IQCYMHEAGVSEREAREHIHDLIA 46 (109)
Q Consensus 23 I~cYMke~g~seEeA~~~i~~~ie 46 (109)
.+++++..|+|+|+|.+.+++|-.
T Consensus 370 ~~i~~~~~~~s~~~A~~~~~~l~~ 393 (406)
T cd06202 370 QRILAEHGNMSAEEAEEFILKLRD 393 (406)
T ss_pred HHHHHHhCCCCHHHHHHHHHHHHH
Confidence 445555558888888888776643
No 138
>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=20.33 E-value=1.7e+02 Score=19.60 Aligned_cols=28 Identities=11% Similarity=0.306 Sum_probs=20.3
Q ss_pred HHHHhhcCCCHHHHHHHHHHHHHHHHHhhchh
Q 044570 24 QCYMHEAGVSEREAREHIHDLIAQTWMKMNRD 55 (109)
Q Consensus 24 ~cYMke~g~seEeA~~~i~~~ie~~wK~ln~e 55 (109)
++|+.++|.|+|+.. -+.+.-|..|.+.
T Consensus 37 ~Ay~~~~~Lteeqr~----av~~RD~~~li~~ 64 (106)
T cd07925 37 EAYCEKFGLTPEQKQ----AVRNRDVLRMLEA 64 (106)
T ss_pred HHHHHHcCCCHHHHH----HHHHhhHHHHHHc
Confidence 789999999998754 3445667666553
No 139
>KOG4841 consensus Dolichol-phosphate mannosyltransferase, subunit 3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=20.31 E-value=1.4e+02 Score=19.52 Aligned_cols=21 Identities=19% Similarity=0.248 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHhhch
Q 044570 34 EREAREHIHDLIAQTWMKMNR 54 (109)
Q Consensus 34 eEeA~~~i~~~ie~~wK~ln~ 54 (109)
.+||..++.+.|.++..+|-+
T Consensus 70 c~eA~veL~~~IkEAr~~L~r 90 (95)
T KOG4841|consen 70 CEEAAVELQSQIKEARADLAR 90 (95)
T ss_pred cHHHHHHHHHHHHHHHHHHHH
Confidence 588999999999999988755
Done!