Query 036052
Match_columns 115
No_of_seqs 113 out of 355
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 08:56:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036052.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036052hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04800 ETC_C1_NDUFA4: ETC co 100.0 7.6E-54 1.6E-58 302.6 7.4 96 12-110 1-97 (101)
2 KOG3389 NADH:ubiquinone oxidor 100.0 6.7E-53 1.5E-57 316.7 8.1 111 2-113 65-176 (178)
3 PF09954 DUF2188: Uncharacteri 86.4 0.58 1.3E-05 29.4 2.0 35 65-99 22-61 (62)
4 PHA02552 4 head completion pro 83.7 1.1 2.3E-05 34.0 2.7 69 12-91 60-140 (151)
5 PF05573 NosL: NosL; InterPro 82.0 1.5 3.3E-05 32.1 2.9 51 31-82 76-135 (149)
6 PRK05370 argininosuccinate syn 81.2 1.5 3.2E-05 38.5 2.9 22 66-87 164-185 (447)
7 PF08727 P3A: Poliovirus 3A pr 79.9 1.2 2.5E-05 29.0 1.4 16 72-87 30-45 (57)
8 PF08722 Tn7_Tnp_TnsA_N: TnsA 73.8 4 8.7E-05 26.9 2.8 19 71-89 69-87 (88)
9 PF11360 DUF3110: Protein of u 66.8 4.6 0.0001 27.7 2.0 27 65-91 26-77 (86)
10 PF03462 PCRF: PCRF domain; I 66.0 4.9 0.00011 28.4 2.0 15 75-89 73-87 (115)
11 PF02844 GARS_N: Phosphoribosy 61.3 11 0.00024 26.5 3.1 29 65-93 45-73 (100)
12 PF12518 DUF3721: Protein of u 60.0 9.2 0.0002 22.3 2.1 16 68-83 1-16 (34)
13 PF06194 Phage_Orf51: Phage Co 59.2 8.5 0.00018 26.4 2.1 23 65-87 51-73 (80)
14 PF07045 DUF1330: Protein of u 57.3 9.8 0.00021 23.9 2.1 14 65-78 43-56 (65)
15 PRK04527 argininosuccinate syn 55.9 8 0.00017 33.3 2.0 20 67-86 150-169 (400)
16 PF13031 DUF3892: Protein of u 55.8 11 0.00025 24.9 2.3 22 67-88 29-50 (85)
17 KOG2854 Possible pfkB family c 53.1 11 0.00024 32.2 2.3 22 65-86 216-237 (343)
18 PF10075 PCI_Csn8: COP9 signal 53.0 8.9 0.00019 27.3 1.6 20 66-86 107-126 (143)
19 PF01693 Cauli_VI: Caulimoviru 49.4 14 0.00029 21.8 1.7 13 65-77 32-44 (44)
20 KOG4748 Subunit of Golgi manno 48.0 12 0.00027 32.0 1.9 22 70-91 127-148 (364)
21 PRK05773 3,4-dihydroxy-2-butan 47.9 17 0.00036 29.0 2.5 18 68-85 190-207 (219)
22 PF01071 GARS_A: Phosphoribosy 46.7 19 0.00041 28.1 2.6 26 65-90 20-45 (194)
23 PLN00139 hypothetical protein; 46.6 18 0.0004 29.8 2.6 26 66-91 195-220 (320)
24 COG0108 RibB 3,4-dihydroxy-2-b 46.2 16 0.00035 29.0 2.2 20 69-88 172-191 (203)
25 PRK00823 phhB pterin-4-alpha-c 45.2 23 0.00049 24.2 2.5 34 46-81 16-49 (97)
26 PF08803 ydhR: Putative mono-o 44.7 12 0.00026 26.5 1.1 29 51-81 38-66 (97)
27 cd00913 PCD_DCoH_subfamily_a P 44.0 32 0.0007 22.3 3.0 29 50-80 1-29 (76)
28 PF03108 DBD_Tnp_Mut: MuDR fam 43.6 31 0.00067 21.5 2.8 30 65-94 7-40 (67)
29 PF03793 PASTA: PASTA domain; 43.3 29 0.00063 21.0 2.6 22 69-90 9-30 (63)
30 PF10566 Glyco_hydro_97: Glyco 42.1 20 0.00043 29.4 2.2 25 65-89 28-52 (273)
31 PF09383 NIL: NIL domain; Int 41.2 30 0.00066 21.9 2.5 24 65-88 49-76 (76)
32 COG0290 InfC Translation initi 40.8 39 0.00085 26.4 3.5 37 65-101 30-68 (176)
33 smart00461 WH1 WASP homology r 40.2 25 0.00054 24.4 2.1 16 65-80 86-101 (106)
34 cd00914 PCD_DCoH_subfamily_b P 40.2 30 0.00065 22.5 2.4 29 50-80 1-29 (76)
35 PF08759 DUF1792: Domain of un 40.0 16 0.00034 29.4 1.2 23 3-25 128-153 (225)
36 COG0137 ArgG Argininosuccinate 40.0 30 0.00065 30.2 3.0 21 67-88 151-171 (403)
37 PF07014 Hs1pro-1_C: Hs1pro-1 39.9 13 0.00029 30.4 0.8 26 52-77 228-253 (261)
38 PF00568 WH1: WH1 domain; Int 39.7 26 0.00057 24.2 2.2 16 65-80 91-106 (111)
39 KOG1468 Predicted translation 39.6 30 0.00066 29.4 2.9 51 52-110 245-295 (354)
40 PF07862 Nif11: Nitrogen fixat 39.5 29 0.00063 20.5 2.1 20 68-87 26-45 (49)
41 COG5470 Uncharacterized conser 39.3 29 0.00063 24.6 2.3 20 55-77 50-69 (96)
42 KOG0237 Glycinamide ribonucleo 38.7 35 0.00076 31.8 3.3 60 33-93 18-79 (788)
43 COG4314 NosL Predicted lipopro 38.4 24 0.00052 27.4 2.0 20 66-85 131-150 (176)
44 PF03682 UPF0158: Uncharacteri 38.2 25 0.00054 26.5 2.0 20 71-90 127-146 (163)
45 PF05198 IF3_N: Translation in 38.1 41 0.0009 22.3 2.9 27 66-92 25-51 (76)
46 cd00837 EVH1 EVH1 (Enabled, Va 37.5 30 0.00065 23.8 2.2 16 65-80 84-99 (104)
47 PF14791 DNA_pol_B_thumb: DNA 37.4 3.7 8.1E-05 26.5 -2.2 14 48-61 2-15 (64)
48 PF01329 Pterin_4a: Pterin 4 a 37.1 33 0.00071 23.3 2.3 30 47-80 16-46 (95)
49 smart00156 PP2Ac Protein phosp 37.0 60 0.0013 26.0 4.1 40 43-89 176-218 (271)
50 COG3341 Predicted double-stran 36.9 22 0.00048 28.7 1.6 14 67-80 39-52 (225)
51 PF14259 RRM_6: RNA recognitio 36.2 34 0.00073 20.6 2.1 19 64-82 42-60 (70)
52 PRK08179 prfH peptide chain re 36.2 28 0.00062 27.3 2.1 18 75-92 27-44 (200)
53 PLN00200 argininosuccinate syn 35.3 27 0.00059 30.1 2.0 19 67-85 152-170 (404)
54 PRK13820 argininosuccinate syn 35.2 52 0.0011 28.2 3.7 18 70-87 148-165 (394)
55 cd01207 Ena-Vasp Enabled-VASP- 35.1 31 0.00068 24.8 2.0 63 13-81 33-103 (111)
56 PRK11118 putative monooxygenas 34.9 43 0.00093 23.9 2.7 29 51-81 41-69 (100)
57 cd01206 Homer Homer type EVH1 34.8 41 0.0009 24.4 2.6 33 46-80 62-102 (111)
58 PF05406 WGR: WGR domain; Int 34.8 36 0.00079 22.1 2.2 47 29-80 17-64 (81)
59 TIGR00506 ribB 3,4-dihydroxy-2 34.1 37 0.00081 26.6 2.5 19 68-86 172-190 (199)
60 PF12745 HGTP_anticodon2: Anti 34.1 46 0.001 27.1 3.1 24 68-91 43-66 (273)
61 PRK01792 ribB 3,4-dihydroxy-2- 33.9 38 0.00082 27.0 2.5 19 68-86 182-200 (214)
62 PF14657 Integrase_AP2: AP2-li 33.9 36 0.00079 20.0 1.9 13 68-80 24-36 (46)
63 PRK13864 type IV secretion sys 33.9 62 0.0013 26.3 3.8 29 63-91 67-98 (245)
64 PF00076 RRM_1: RNA recognitio 33.9 49 0.0011 19.3 2.5 19 64-82 42-61 (70)
65 PRK09437 bcp thioredoxin-depen 33.8 48 0.001 23.2 2.8 26 65-90 69-94 (154)
66 TIGR01465 cobM_cbiF precorrin- 33.6 59 0.0013 24.5 3.5 33 50-90 75-107 (229)
67 smart00757 CRA CT11-RanBPM. pr 33.5 31 0.00068 22.4 1.7 17 70-86 2-18 (99)
68 TIGR03728 glyco_access_1 glyco 32.5 23 0.00049 29.3 1.1 23 3-25 146-171 (265)
69 KOG1706 Argininosuccinate synt 31.6 29 0.00063 30.0 1.6 22 67-88 154-175 (412)
70 PF02177 APP_N: Amyloid A4 N-t 31.5 36 0.00078 24.3 1.8 23 65-87 31-53 (102)
71 COG0216 PrfA Protein chain rel 31.4 35 0.00076 29.4 2.1 19 75-93 139-157 (363)
72 PF00926 DHBP_synthase: 3,4-di 31.4 46 0.00099 26.0 2.6 19 68-86 167-185 (194)
73 PF10009 DUF2252: Uncharacteri 31.4 30 0.00066 29.3 1.7 41 43-83 288-335 (385)
74 TIGR03072 release_prfH putativ 31.0 39 0.00085 26.6 2.1 17 75-91 26-42 (200)
75 PRK00910 ribB 3,4-dihydroxy-2- 30.4 46 0.001 26.5 2.5 19 68-86 183-201 (218)
76 cd06576 PASTA_Pbp2x-like_1 PAS 30.1 88 0.0019 17.5 3.1 22 69-90 8-29 (55)
77 PF03795 YCII: YCII-related do 29.9 29 0.00064 22.5 1.1 16 65-80 62-77 (95)
78 PRK00014 ribB 3,4-dihydroxy-2- 29.3 50 0.0011 26.7 2.5 19 68-86 187-205 (230)
79 PF14542 Acetyltransf_CG: GCN5 29.2 52 0.0011 21.4 2.2 19 71-89 44-62 (78)
80 cd07202 cPLA2_Grp-IVC Group IV 29.1 27 0.00059 30.6 1.0 23 68-90 321-343 (430)
81 COG5453 Uncharacterized conser 29.0 35 0.00077 24.2 1.4 19 67-85 68-86 (96)
82 PF05637 Glyco_transf_34: gala 29.0 36 0.00078 26.8 1.6 17 72-88 31-47 (239)
83 COG0007 CysG Uroporphyrinogen- 28.8 72 0.0016 25.9 3.4 31 54-92 89-119 (244)
84 PF07611 DUF1574: Protein of u 28.7 34 0.00074 29.0 1.5 27 66-92 249-275 (345)
85 PF02786 CPSase_L_D2: Carbamoy 28.6 54 0.0012 25.3 2.5 22 68-89 24-45 (211)
86 PF12123 Amidase02_C: N-acetyl 28.3 75 0.0016 19.4 2.6 18 70-87 28-45 (45)
87 PF09691 PulS_OutS: Bacterial 27.8 40 0.00087 24.2 1.6 15 72-86 53-67 (109)
88 cd00488 PCD_DCoH PCD_DCoH: The 27.6 82 0.0018 20.2 2.9 16 65-80 13-28 (75)
89 PRK00923 sirohydrochlorin coba 27.3 91 0.002 21.5 3.3 27 66-92 43-69 (126)
90 smart00481 POLIIIAc DNA polyme 27.2 93 0.002 18.9 3.0 24 69-92 15-38 (67)
91 PF01910 DUF77: Domain of unkn 26.8 60 0.0013 22.1 2.2 18 72-89 20-37 (92)
92 PTZ00056 glutathione peroxidas 26.4 66 0.0014 24.4 2.6 21 69-89 89-109 (199)
93 PF00331 Glyco_hydro_10: Glyco 26.4 42 0.00091 27.3 1.6 22 65-86 55-76 (320)
94 PF04895 DUF651: Archaeal prot 26.2 51 0.0011 23.7 1.9 17 65-81 67-83 (110)
95 KOG0098 GTPase Rab2, small G p 25.9 54 0.0012 26.3 2.1 18 69-86 129-146 (216)
96 cd03017 PRX_BCP Peroxiredoxin 25.8 84 0.0018 21.2 2.9 27 65-91 62-88 (140)
97 COG2154 Pterin-4a-carbinolamin 25.8 78 0.0017 22.5 2.7 34 45-80 15-48 (101)
98 PF00764 Arginosuc_synth: Argi 25.4 49 0.0011 28.5 1.9 18 71-88 147-164 (388)
99 KOG0097 GTPase Rab14, small G 25.2 56 0.0012 25.5 2.0 43 45-87 99-152 (215)
100 cd00860 ThrRS_anticodon ThrRS 25.0 1E+02 0.0022 19.2 3.0 23 68-90 37-59 (91)
101 KOG2741 Dimeric dihydrodiol de 24.4 54 0.0012 28.1 2.0 20 65-84 37-56 (351)
102 cd03421 SirA_like_N SirA_like_ 24.4 85 0.0019 19.3 2.5 21 70-90 37-57 (67)
103 PF10686 DUF2493: Protein of u 24.1 89 0.0019 20.3 2.6 19 73-91 48-66 (71)
104 KOG0081 GTPase Rab27, small G 24.1 58 0.0013 25.8 2.0 23 67-89 140-162 (219)
105 PF03960 ArsC: ArsC family; I 23.6 74 0.0016 21.6 2.2 22 70-91 8-29 (110)
106 cd01992 PP-ATPase N-terminal d 23.6 92 0.002 22.3 2.9 23 67-89 145-167 (185)
107 PRK00509 argininosuccinate syn 23.4 60 0.0013 28.0 2.1 20 67-86 148-167 (399)
108 TIGR01004 PulS_OutS lipoprotei 23.3 55 0.0012 24.3 1.6 14 73-86 70-83 (128)
109 COG4100 Cystathionine beta-lya 23.2 68 0.0015 27.8 2.4 16 65-80 325-340 (416)
110 PF05389 MecA: Negative regula 23.2 49 0.0011 25.4 1.4 19 65-83 133-151 (220)
111 PRK06746 peptide chain release 23.2 63 0.0014 27.3 2.2 16 75-90 113-128 (326)
112 PF00059 Lectin_C: Lectin C-ty 23.1 58 0.0013 20.2 1.6 20 70-89 4-23 (105)
113 PRK12354 carbamate kinase; Rev 23.1 76 0.0017 26.5 2.6 22 67-88 125-146 (307)
114 cd03012 TlpA_like_DipZ_like Tl 23.1 72 0.0016 21.6 2.1 22 69-90 71-92 (126)
115 COG1979 Uncharacterized oxidor 23.0 51 0.0011 28.6 1.6 22 67-88 70-91 (384)
116 cd03412 CbiK_N Anaerobic cobal 22.9 1E+02 0.0022 21.7 3.0 27 66-92 53-79 (127)
117 PF13911 AhpC-TSA_2: AhpC/TSA 22.9 76 0.0016 21.3 2.2 28 65-92 18-45 (115)
118 KOG1769 Ubiquitin-like protein 22.7 46 0.00099 23.7 1.0 14 75-88 48-61 (99)
119 PF11387 DUF2795: Protein of u 22.7 91 0.002 18.5 2.2 23 67-89 5-28 (44)
120 COG5079 SAC3 Nuclear protein e 22.7 49 0.0011 30.3 1.4 25 65-89 356-380 (646)
121 TIGR03798 ocin_TIGR03798 bacte 22.6 82 0.0018 19.7 2.1 23 67-89 23-45 (64)
122 cd06575 PASTA_Pbp2x-like_2 PAS 22.5 1.3E+02 0.0029 16.5 2.9 21 69-89 8-28 (54)
123 PRK13010 purU formyltetrahydro 22.4 1.1E+02 0.0024 25.0 3.4 27 65-91 124-150 (289)
124 COG5495 Uncharacterized conser 22.3 14 0.0003 30.7 -1.9 62 43-105 118-187 (289)
125 TIGR03748 conj_PilL conjugativ 22.0 79 0.0017 22.6 2.2 29 55-85 18-52 (105)
126 PF07476 MAAL_C: Methylasparta 21.9 77 0.0017 26.0 2.3 19 70-88 177-195 (248)
127 cd00859 HisRS_anticodon HisRS 21.7 1.3E+02 0.0028 18.2 2.9 20 70-89 39-58 (91)
128 smart00633 Glyco_10 Glycosyl h 21.4 93 0.002 24.2 2.7 21 65-85 12-32 (254)
129 cd00248 Mth938-like Mth938-lik 21.3 1.3E+02 0.0028 20.9 3.1 24 65-89 63-86 (109)
130 TIGR02432 lysidine_TilS_N tRNA 21.2 1E+02 0.0023 22.3 2.8 21 70-90 46-66 (189)
131 smart00034 CLECT C-type lectin 21.1 85 0.0018 20.0 2.0 20 69-88 20-39 (126)
132 PF14555 UBA_4: UBA-like domai 20.9 98 0.0021 17.9 2.1 17 70-86 14-30 (43)
133 PF02811 PHP: PHP domain; Int 20.9 93 0.002 21.5 2.4 23 69-91 16-38 (175)
134 cd07415 MPP_PP2A_PP4_PP6 PP2A, 20.7 1.9E+02 0.0042 23.4 4.5 24 65-89 209-232 (285)
135 PRK00578 prfB peptide chain re 20.6 76 0.0016 27.1 2.1 17 75-91 151-167 (367)
136 PRK03353 ribB 3,4-dihydroxy-2- 20.6 92 0.002 24.6 2.5 18 68-85 182-199 (217)
137 PLN02626 malate synthase 20.6 41 0.00088 30.5 0.5 46 2-50 81-133 (551)
138 KOG0091 GTPase Rab39, small G 20.6 91 0.002 24.8 2.4 20 70-89 135-154 (213)
139 PF03129 HGTP_anticodon: Antic 20.6 1.4E+02 0.0029 19.1 3.0 22 68-89 38-59 (94)
140 cd03593 CLECT_NK_receptors_lik 20.5 83 0.0018 20.5 2.0 21 69-89 20-40 (116)
141 TIGR01344 malate_syn_A malate 20.4 53 0.0012 29.4 1.2 42 2-46 57-105 (511)
142 cd03592 CLECT_selectins_like C 20.4 82 0.0018 20.8 1.9 19 69-87 10-28 (115)
143 KOG0369 Pyruvate carboxylase [ 20.4 90 0.0019 30.0 2.7 23 68-90 170-192 (1176)
144 cd08578 GDPD_NUC-2_fungi Putat 20.3 71 0.0015 26.3 1.9 24 66-89 226-249 (300)
145 PF05159 Capsule_synth: Capsul 20.2 1E+02 0.0022 23.9 2.6 23 69-91 11-33 (269)
146 cd02977 ArsC_family Arsenate R 20.2 93 0.002 20.7 2.2 22 70-91 11-32 (105)
147 cd07420 MPP_RdgC Drosophila me 20.2 2E+02 0.0043 24.0 4.5 24 65-89 248-271 (321)
148 PF04377 ATE_C: Arginine-tRNA- 20.1 1.1E+02 0.0025 22.1 2.7 33 73-105 86-118 (128)
149 cd05560 Xcc1710_like Xcc1710_l 20.1 1.1E+02 0.0024 21.2 2.6 24 65-89 63-86 (109)
No 1
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=100.00 E-value=7.6e-54 Score=302.61 Aligned_cols=96 Identities=46% Similarity=0.968 Sum_probs=60.8
Q ss_pred CeEEEecCCCCCCCCCCCCCCCcEEEccCCCCCCCCCCCccCCCCcccc-cCCceeecCCHHHHHHHHHHcCccEEEecC
Q 036052 12 RRVVIYTPARTATQQGSGKIGRWKINFMSKQKWENPLMGWTSTGDPYAN-VGDAGLSFDSEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 12 r~vrIy~pak~amQSG~~~t~~W~lefe~~~~~~~PLMGWtss~D~~~q-v~~~~l~F~skE~Ai~yaek~G~~y~V~~p 90 (115)
|+||||+|+|+|||||++++++|+|||+..++|+|||||||||+||++| | +|+|+|+||||+|||+|||+|+|++|
T Consensus 1 r~arIy~pak~amQSG~~~t~~W~lefe~~~~~~~PLMGWtss~D~~~q~v---~l~F~skE~Ai~yaer~G~~Y~V~~p 77 (101)
T PF04800_consen 1 RKARIYQPAKNAMQSGTANTKKWVLEFETRARWENPLMGWTSSGDPLSQSV---RLKFDSKEDAIAYAERNGWDYEVEEP 77 (101)
T ss_dssp -EEEEE--SS--STTTT-SS--EEEEEEESSS---TTT-SSSS--SEEE-C---EEEESSHHHHHHHHHHCT-EEEEE-S
T ss_pred CeEEEeCCCCCCCCCCCCCCCCEEEeecCcCCcCCCccCCCCCCChhhCee---EeeeCCHHHHHHHHHHcCCeEEEeCC
Confidence 6899999999999999999999999999889999999999999999998 8 99999999999999999999999999
Q ss_pred CCCcCCCccccccCCCCCCC
Q 036052 91 HRPLLNVKSYAEHFKWKGPP 110 (115)
Q Consensus 91 ~~~~~~~ksYadNF~~~~~~ 110 (115)
+.++.++|||||||+|+++.
T Consensus 78 ~~r~~~~ksY~dNF~~~r~~ 97 (101)
T PF04800_consen 78 KKRKRRPKSYADNFSWNRRT 97 (101)
T ss_dssp TT------------------
T ss_pred CCCcCCcccHHHhCCcCCCC
Confidence 99999999999999999864
No 2
>KOG3389 consensus NADH:ubiquinone oxidoreductase, NDUFS4/18 kDa subunit [Energy production and conversion]
Probab=100.00 E-value=6.7e-53 Score=316.70 Aligned_cols=111 Identities=58% Similarity=1.135 Sum_probs=107.3
Q ss_pred CCCCccccc-CCeEEEecCCCCCCCCCCCCCCCcEEEccCCCCCCCCCCCccCCCCcccccCCceeecCCHHHHHHHHHH
Q 036052 2 VSGIPEEHL-RRRVVIYTPARTATQQGSGKIGRWKINFMSKQKWENPLMGWTSTGDPYANVGDAGLSFDSEEAAREFAER 80 (115)
Q Consensus 2 vsg~P~~~~-~r~vrIy~pak~amQSG~~~t~~W~lefe~~~~~~~PLMGWtss~D~~~qv~~~~l~F~skE~Ai~yaek 80 (115)
|+|+|+||+ .|+||||+|+|++||||.++++.|+|||+.+.+|+||||||+|++|||++|+ +.|.|+|+|||++||||
T Consensus 65 v~GvPeeH~~sRkvrIf~PAR~~tQSg~gntkkWkiefd~r~rWENPLMGWtsTaDPlsNvg-m~L~F~tkEdA~sFaEk 143 (178)
T KOG3389|consen 65 VSGVPEEHLDSRKVRIFSPARTATQSGSGNTKKWKIEFDSRLRWENPLMGWTSTADPLSNVG-MALAFDTKEDAKSFAEK 143 (178)
T ss_pred ccCCChHHhcceeEEEecchhhhhhcccCCccceEEEecchhhccCccccccccCCcccccc-eeeeeccHHHHHHHHHH
Confidence 799999999 6999999999999999999999999999999999999999999999999997 58999999999999999
Q ss_pred cCccEEEecCCCCcCCCccccccCCCCCCCCCC
Q 036052 81 HGWEYVVRKPHRPLLNVKSYAEHFKWKGPPKTD 113 (115)
Q Consensus 81 ~G~~y~V~~p~~~~~~~ksYadNF~~~~~~~~~ 113 (115)
|||+|.|++|+.++.++||||+||+|||++.-+
T Consensus 144 ngW~ydveep~~pk~K~KsYg~NFsWn~rtr~~ 176 (178)
T KOG3389|consen 144 NGWDYDVEEPNTPKLKVKSYGDNFSWNGRTRPE 176 (178)
T ss_pred cCCcccccCCCCCccccccccccccccCCCCCC
Confidence 999999999999999999999999999998654
No 3
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=86.43 E-value=0.58 Score=29.42 Aligned_cols=35 Identities=23% Similarity=0.327 Sum_probs=22.5
Q ss_pred eeecCCHHHHHHHHHH----c-CccEEEecCCCCcCCCcc
Q 036052 65 GLSFDSEEAAREFAER----H-GWEYVVRKPHRPLLNVKS 99 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek----~-G~~y~V~~p~~~~~~~ks 99 (115)
...|+|+++||++|++ + +-+..|....-+.....|
T Consensus 22 ~~~~~Tk~eAi~~Ar~~a~~~~~~el~Ih~~dG~i~~~~s 61 (62)
T PF09954_consen 22 SKTFDTKAEAIEAARELAKNQGGGELIIHGRDGKIREERS 61 (62)
T ss_pred ccccCcHHHHHHHHHHHHHhCCCcEEEEECCCCeEEEeec
Confidence 5689999999998764 4 566666554433333333
No 4
>PHA02552 4 head completion protein; Provisional
Probab=83.66 E-value=1.1 Score=33.95 Aligned_cols=69 Identities=19% Similarity=0.263 Sum_probs=41.1
Q ss_pred CeEEEecCCCCC-CCCCCCCCCCcEEEccCCCCCCCCCCCccCCCCcccccCCceeecC-----------CHHHHHHHHH
Q 036052 12 RRVVIYTPARTA-TQQGSGKIGRWKINFMSKQKWENPLMGWTSTGDPYANVGDAGLSFD-----------SEEAAREFAE 79 (115)
Q Consensus 12 r~vrIy~pak~a-mQSG~~~t~~W~lefe~~~~~~~PLMGWtss~D~~~qv~~~~l~F~-----------skE~Ai~yae 79 (115)
.++|.|-|.=-+ +..| ....+|..+.....+|.+- ..-|+.+ ...|. --++|.+||+
T Consensus 60 Gk~r~Y~PDFLV~~~dG----~~~lvEVKp~~~~~~p~~~--~~~~~~~-----~~~~~~~~~~w~~~~~K~~Aa~~~a~ 128 (151)
T PHA02552 60 GKRRRYFMDFYVKVDNG----QKFLIEVKPKKETQPPKKP--AKMTTAA-----KKRFINEVYTWSVNTDKWKAARALCE 128 (151)
T ss_pred CCeeeEcCcEEEEEeCC----CEEEEEEccHHHccCcccc--cccchhh-----hhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 456777776333 1233 4678888887666666442 1111100 11222 2478999999
Q ss_pred HcCccEEEecCC
Q 036052 80 RHGWEYVVRKPH 91 (115)
Q Consensus 80 k~G~~y~V~~p~ 91 (115)
++||.|.|....
T Consensus 129 ~~Gw~F~iiTE~ 140 (151)
T PHA02552 129 KKGWKFKIITED 140 (151)
T ss_pred HcCCEEEEEEHH
Confidence 999999987644
No 5
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=82.02 E-value=1.5 Score=32.10 Aligned_cols=51 Identities=25% Similarity=0.565 Sum_probs=29.0
Q ss_pred CCCcEEEccCCCCCCCCCC-CccCC--------CCcccccCCceeecCCHHHHHHHHHHcC
Q 036052 31 IGRWKINFMSKQKWENPLM-GWTST--------GDPYANVGDAGLSFDSEEAAREFAERHG 82 (115)
Q Consensus 31 t~~W~lefe~~~~~~~PLM-GWtss--------~D~~~qv~~~~l~F~skE~Ai~yaek~G 82 (115)
...|+-+|.. ..|.+|-- -|... +|-.+-++..-+-|.++++|.+|++++|
T Consensus 76 ~~~~V~D~~~-~~~~~p~~~~~Ida~~A~yV~gs~~~~pMg~~~~aF~~~~~A~~F~~~~G 135 (149)
T PF05573_consen 76 AAIYVTDYST-TDWDQPGDGEWIDAKKAYYVVGSDVRGPMGPDLIAFASKEDAEAFAKEHG 135 (149)
T ss_dssp EEEEEEES-T-S-TT-S---EEEEGGGSEEEEESSSS-TTS--EEEES-HHHHHHHHHHTE
T ss_pred cEEEEEeccc-ccccCCCCCceEEcceEEEEECCCcCCCCCCcccccCCHHHHHHHHHHcC
Confidence 3668888887 55555542 34333 2222233334678999999999999997
No 6
>PRK05370 argininosuccinate synthase; Validated
Probab=81.20 E-value=1.5 Score=38.49 Aligned_cols=22 Identities=23% Similarity=0.469 Sum_probs=19.5
Q ss_pred eecCCHHHHHHHHHHcCccEEE
Q 036052 66 LSFDSEEAAREFAERHGWEYVV 87 (115)
Q Consensus 66 l~F~skE~Ai~yaek~G~~y~V 87 (115)
-.|+|+++.|+||++||++..+
T Consensus 164 ~~f~sR~e~i~Ya~~hGIpv~~ 185 (447)
T PRK05370 164 DELGGRAEMSEFLIAHGFDYKM 185 (447)
T ss_pred cccCCHHHHHHHHHHcCCCCCc
Confidence 3689999999999999999854
No 7
>PF08727 P3A: Poliovirus 3A protein like; InterPro: IPR014838 The 3A protein is found in positive-strand RNA viruses. It is a critical component of the poliovirus replication complex, and is also an inhibitor of host cell ER to Golgi transport. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1NG7_A.
Probab=79.85 E-value=1.2 Score=28.97 Aligned_cols=16 Identities=31% Similarity=0.717 Sum_probs=11.0
Q ss_pred HHHHHHHHHcCccEEE
Q 036052 72 EAAREFAERHGWEYVV 87 (115)
Q Consensus 72 E~Ai~yaek~G~~y~V 87 (115)
++-++||+++||-..+
T Consensus 30 ~eV~~YC~~~GWIip~ 45 (57)
T PF08727_consen 30 PEVREYCEEQGWIIPA 45 (57)
T ss_dssp HHHHHHHHHHT--TT-
T ss_pred HHHHHHHHHCCccccC
Confidence 5589999999996544
No 8
>PF08722 Tn7_Tnp_TnsA_N: TnsA endonuclease N terminal; InterPro: IPR014833 The Tn7 transposase is composed of proteins TnsA and TnsB. DNA breakage at the 5'-end of the transposon is carried out by TnsA, and breakage and joining at the 3'-end is carried out by TnsB. The N-terminal domain of TnsA is catalytic. ; PDB: 1F1Z_B 1T0F_B.
Probab=73.77 E-value=4 Score=26.90 Aligned_cols=19 Identities=26% Similarity=0.415 Sum_probs=13.6
Q ss_pred HHHHHHHHHHcCccEEEec
Q 036052 71 EEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 71 kE~Ai~yaek~G~~y~V~~ 89 (115)
.+.|-.||+++||.|.|..
T Consensus 69 ~~~~~~y~~~~g~~f~ivT 87 (88)
T PF08722_consen 69 LEIEREYWEEQGIPFRIVT 87 (88)
T ss_dssp HHHHHHHHHHCT--EEEE-
T ss_pred HHHHHHHHHHcCCeEEEEc
Confidence 4568899999999999863
No 9
>PF11360 DUF3110: Protein of unknown function (DUF3110); InterPro: IPR021503 This family of proteins has no known function.
Probab=66.81 E-value=4.6 Score=27.69 Aligned_cols=27 Identities=33% Similarity=0.648 Sum_probs=20.2
Q ss_pred eeecCCHHHHHH-------------------------HHHHcCccEEEecCC
Q 036052 65 GLSFDSEEAARE-------------------------FAERHGWEYVVRKPH 91 (115)
Q Consensus 65 ~l~F~skE~Ai~-------------------------yaek~G~~y~V~~p~ 91 (115)
.|-|.+.+||.+ ||+.+|+.|+|..+.
T Consensus 26 Vl~FE~edDA~RYa~lLEAqd~~~p~Ve~id~~~i~~fC~~~gy~~~iv~~g 77 (86)
T PF11360_consen 26 VLMFEDEDDAERYAGLLEAQDFPDPTVEEIDPEEIEEFCRSAGYEYEIVPPG 77 (86)
T ss_pred EEEEccHHHHHHHHHHHHhcCCCCCCeEEECHHHHHHHHHHCCceEEEECCC
Confidence 677777777765 567788888887765
No 10
>PF03462 PCRF: PCRF domain; InterPro: IPR005139 This domain is found in peptide chain release factors. Peptide chain release factors are important for protein synthesis since they direct the termination of translation in response to the peptide chain termination codons UAG and UAA. These are structurally distinct but both contain the PCRF domain [].; GO: 0016149 translation release factor activity, codon specific, 0006415 translational termination, 0005737 cytoplasm; PDB: 3D5A_X 3D5C_X 3MR8_V 3MS0_V 3F1G_X 3F1E_X 1ZBT_A 2IHR_1 2X9R_Y 2X9T_Y ....
Probab=66.01 E-value=4.9 Score=28.37 Aligned_cols=15 Identities=40% Similarity=0.866 Sum_probs=12.6
Q ss_pred HHHHHHcCccEEEec
Q 036052 75 REFAERHGWEYVVRK 89 (115)
Q Consensus 75 i~yaek~G~~y~V~~ 89 (115)
.+||+++||+|+|..
T Consensus 73 ~~~a~~~gw~~~~l~ 87 (115)
T PF03462_consen 73 QRYAERRGWKVEVLD 87 (115)
T ss_dssp HHHHHHTT-EEEEEE
T ss_pred HHHHHHcCCEEEEEe
Confidence 489999999999976
No 11
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=61.33 E-value=11 Score=26.52 Aligned_cols=29 Identities=24% Similarity=0.437 Sum_probs=23.5
Q ss_pred eeecCCHHHHHHHHHHcCccEEEecCCCC
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRKPHRP 93 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~p~~~ 93 (115)
.+...+.++-++||+++++++.|..|..+
T Consensus 45 ~~~~~d~~~l~~~a~~~~idlvvvGPE~p 73 (100)
T PF02844_consen 45 PIDITDPEELADFAKENKIDLVVVGPEAP 73 (100)
T ss_dssp -S-TT-HHHHHHHHHHTTESEEEESSHHH
T ss_pred CCCCCCHHHHHHHHHHcCCCEEEECChHH
Confidence 34678999999999999999999998764
No 12
>PF12518 DUF3721: Protein of unknown function; InterPro: IPR022196 This domain family is found in bacteria and eukaryotes, and is approximately 30 amino acids in length. There is a conserved WMPC sequence motif. There are two completely conserved residues (A and C) that may be functionally important.
Probab=59.95 E-value=9.2 Score=22.33 Aligned_cols=16 Identities=19% Similarity=0.326 Sum_probs=14.2
Q ss_pred cCCHHHHHHHHHHcCc
Q 036052 68 FDSEEAAREFAERHGW 83 (115)
Q Consensus 68 F~skE~Ai~yaek~G~ 83 (115)
|+|+++|.+=|.+.|-
T Consensus 1 y~tk~eAe~~A~~~GC 16 (34)
T PF12518_consen 1 YPTKAEAEKRAKELGC 16 (34)
T ss_pred CCcHHHHHHHHHHcCC
Confidence 8999999999998774
No 13
>PF06194 Phage_Orf51: Phage Conserved Open Reading Frame 51; InterPro: IPR009338 This entry is represented by the Staphylococcus phage PVL (bacteriophage phi-PVL), Orf51. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=59.15 E-value=8.5 Score=26.43 Aligned_cols=23 Identities=13% Similarity=0.325 Sum_probs=21.3
Q ss_pred eeecCCHHHHHHHHHHcCccEEE
Q 036052 65 GLSFDSEEAAREFAERHGWEYVV 87 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V 87 (115)
+..|+|+++-..|-+.+++.|+=
T Consensus 51 KktFn~~~Ef~~Yi~~~~L~~ee 73 (80)
T PF06194_consen 51 KKTFNNKEEFENYIKQHELYFEE 73 (80)
T ss_pred hhhcCcHHHHHHHHHHcCCceeh
Confidence 88999999999999999999873
No 14
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=57.26 E-value=9.8 Score=23.92 Aligned_cols=14 Identities=36% Similarity=0.418 Sum_probs=12.7
Q ss_pred eeecCCHHHHHHHH
Q 036052 65 GLSFDSEEAAREFA 78 (115)
Q Consensus 65 ~l~F~skE~Ai~ya 78 (115)
-|.|+|.++|.+|-
T Consensus 43 iieFPs~~aa~~~~ 56 (65)
T PF07045_consen 43 IIEFPSMEAAKAWY 56 (65)
T ss_dssp EEEESSHHHHHHHH
T ss_pred EEECCCHHHHHHHH
Confidence 79999999999873
No 15
>PRK04527 argininosuccinate synthase; Provisional
Probab=55.86 E-value=8 Score=33.31 Aligned_cols=20 Identities=10% Similarity=0.263 Sum_probs=17.5
Q ss_pred ecCCHHHHHHHHHHcCccEE
Q 036052 67 SFDSEEAAREFAERHGWEYV 86 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y~ 86 (115)
+++++++.|+||++|||+..
T Consensus 150 k~~~R~~~i~ya~~~gipv~ 169 (400)
T PRK04527 150 HTQTRAYEQKYLEERGFGVR 169 (400)
T ss_pred ccccHHHHHHHHHHcCCCCC
Confidence 45799999999999999873
No 16
>PF13031 DUF3892: Protein of unknown function (DUF3892)
Probab=55.78 E-value=11 Score=24.88 Aligned_cols=22 Identities=27% Similarity=0.353 Sum_probs=19.5
Q ss_pred ecCCHHHHHHHHHHcCccEEEe
Q 036052 67 SFDSEEAAREFAERHGWEYVVR 88 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y~V~ 88 (115)
-.-|+++||+++|+..+.|.|.
T Consensus 29 ~~~s~~~~i~~ie~g~~~~yv~ 50 (85)
T PF13031_consen 29 WKYSREEAIAWIENGKWSFYVE 50 (85)
T ss_pred ccccHHHHHHHHHcCCceEEeC
Confidence 4558999999999998999998
No 17
>KOG2854 consensus Possible pfkB family carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=53.08 E-value=11 Score=32.18 Aligned_cols=22 Identities=41% Similarity=0.806 Sum_probs=19.8
Q ss_pred eeecCCHHHHHHHHHHcCccEE
Q 036052 65 GLSFDSEEAAREFAERHGWEYV 86 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~ 86 (115)
-+-|.+.+||.+||+.+||+-.
T Consensus 216 DiifgNe~EA~af~~~~~~~t~ 237 (343)
T KOG2854|consen 216 DIIFGNEDEAAAFARAHGWETK 237 (343)
T ss_pred eEEEcCHHHHHHHHHhhCCccc
Confidence 5789999999999999999863
No 18
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=52.99 E-value=8.9 Score=27.34 Aligned_cols=20 Identities=30% Similarity=0.650 Sum_probs=15.2
Q ss_pred eecCCHHHHHHHHHHcCccEE
Q 036052 66 LSFDSEEAAREFAERHGWEYV 86 (115)
Q Consensus 66 l~F~skE~Ai~yaek~G~~y~ 86 (115)
|-|+ .+++++||+++||.++
T Consensus 107 Lg~~-~~el~~~~~~~gW~~d 126 (143)
T PF10075_consen 107 LGLS-EEELEKFIKSRGWTVD 126 (143)
T ss_dssp TTS--HHHHHHHHHHHT-EE-
T ss_pred hCCC-HHHHHHHHHHcCCEEC
Confidence 4566 8999999999999986
No 19
>PF01693 Cauli_VI: Caulimovirus viroplasmin; InterPro: IPR011320 This entry represents the N-terminal domain of RNase HI, which has a 3-layer alpha/beta/alpha structure []. This domain is lacking in retroviral and prokaryotic enzymes, but shows a striking structural similarity to the ribosomal protein L9 N-terminal domain, and may function as a regulatory RNA-binding module. However, the topology of this domain differs from structures of known RNA binding domains such as the double-stranded RNA binding domain (dsRBD), the hnRNP K homology (KH) domain and the RNP motif. Eukaryotic RNases HI possess either one or two copies of this small N-terminal domain, in addition to the well-conserved catalytic RNase H domain. RNase HI belongs to the family of ribonuclease H enzymes that recognise RNA:DNA hybrids and degrade the RNA component. ; PDB: 1QHK_A 3BSU_C.
Probab=49.35 E-value=14 Score=21.82 Aligned_cols=13 Identities=46% Similarity=0.577 Sum_probs=11.5
Q ss_pred eeecCCHHHHHHH
Q 036052 65 GLSFDSEEAAREF 77 (115)
Q Consensus 65 ~l~F~skE~Ai~y 77 (115)
..+|.|+|+|.+|
T Consensus 32 ~k~F~t~~eA~~~ 44 (44)
T PF01693_consen 32 YKSFKTREEAEEF 44 (44)
T ss_dssp EEEESSHHHHHHH
T ss_pred ECCcCCHHHHhhC
Confidence 5789999999986
No 20
>KOG4748 consensus Subunit of Golgi mannosyltransferase complex [Carbohydrate transport and metabolism; Cell wall/membrane/envelope biogenesis]
Probab=47.98 E-value=12 Score=32.03 Aligned_cols=22 Identities=27% Similarity=0.585 Sum_probs=18.5
Q ss_pred CHHHHHHHHHHcCccEEEecCC
Q 036052 70 SEEAAREFAERHGWEYVVRKPH 91 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V~~p~ 91 (115)
+-+.=|+||++||+++++..-.
T Consensus 127 ~ikNridYA~rHgy~~~~~~~~ 148 (364)
T KOG4748|consen 127 SIKNRIDYARRHGYEFEYKNAT 148 (364)
T ss_pred HHHhHHHHHHHhCCeEEEEecc
Confidence 6777899999999999987644
No 21
>PRK05773 3,4-dihydroxy-2-butanone 4-phosphate synthase; Validated
Probab=47.94 E-value=17 Score=29.02 Aligned_cols=18 Identities=28% Similarity=0.350 Sum_probs=16.1
Q ss_pred cCCHHHHHHHHHHcCccE
Q 036052 68 FDSEEAAREFAERHGWEY 85 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y 85 (115)
--++++|++||++||+++
T Consensus 190 ~~~~~~~~~fA~~~~l~~ 207 (219)
T PRK05773 190 SLSKEKAKKIAKNLGFPL 207 (219)
T ss_pred CcCHHHHHHHHHHcCCcE
Confidence 347999999999999998
No 22
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=46.71 E-value=19 Score=28.06 Aligned_cols=26 Identities=38% Similarity=0.515 Sum_probs=21.5
Q ss_pred eeecCCHHHHHHHHHHcCccEEEecC
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~p 90 (115)
--.|.+.++|++|.++++..+.|..+
T Consensus 20 ~~~f~~~~~A~~~l~~~~~p~~ViKa 45 (194)
T PF01071_consen 20 YKVFTDYEEALEYLEEQGYPYVVIKA 45 (194)
T ss_dssp EEEESSHHHHHHHHHHHSSSEEEEEE
T ss_pred eeEECCHHHHHHHHHhcCCCceEEcc
Confidence 34799999999999999999944443
No 23
>PLN00139 hypothetical protein; Provisional
Probab=46.58 E-value=18 Score=29.83 Aligned_cols=26 Identities=12% Similarity=0.028 Sum_probs=21.5
Q ss_pred eecCCHHHHHHHHHHcCccEEEecCC
Q 036052 66 LSFDSEEAAREFAERHGWEYVVRKPH 91 (115)
Q Consensus 66 l~F~skE~Ai~yaek~G~~y~V~~p~ 91 (115)
..-++++++.+||.++|++|+-.+..
T Consensus 195 F~t~d~~eve~~~~~~g~~~eW~~dg 220 (320)
T PLN00139 195 FGTSDKAEAERRAKALGMDMEWLPNG 220 (320)
T ss_pred hCCCCHHHHHHHHHHcCCeEEEcCCC
Confidence 34578999999999999999986544
No 24
>COG0108 RibB 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]
Probab=46.20 E-value=16 Score=29.01 Aligned_cols=20 Identities=25% Similarity=0.351 Sum_probs=16.9
Q ss_pred CCHHHHHHHHHHcCccEEEe
Q 036052 69 DSEEAAREFAERHGWEYVVR 88 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~ 88 (115)
..++++++||++||+++.-.
T Consensus 172 ar~~~~~~fa~~h~l~~iti 191 (203)
T COG0108 172 ARLPELEEFAKEHGLPVITI 191 (203)
T ss_pred cChHHHHHHHHHcCCcEEEH
Confidence 46899999999999998543
No 25
>PRK00823 phhB pterin-4-alpha-carbinolamine dehydratase; Validated
Probab=45.18 E-value=23 Score=24.18 Aligned_cols=34 Identities=32% Similarity=0.480 Sum_probs=24.4
Q ss_pred CCCCCccCCCCcccccCCceeecCCHHHHHHHHHHc
Q 036052 46 NPLMGWTSTGDPYANVGDAGLSFDSEEAAREFAERH 81 (115)
Q Consensus 46 ~PLMGWtss~D~~~qv~~~~l~F~skE~Ai~yaek~ 81 (115)
..|-||.-..|+.. +. .+.+|++-.+|++|+.+-
T Consensus 16 ~~l~gW~~~~~~~~-l~-r~f~f~~f~~a~~f~~~V 49 (97)
T PRK00823 16 PQLPGWTLVGDRDA-IE-RTFKFKNFNEAFAFMNRV 49 (97)
T ss_pred hcCCCCeEeCCcCe-EE-EEEEeCCHHHHHHHHHHH
Confidence 45679988877431 21 378899999999887653
No 26
>PF08803 ydhR: Putative mono-oxygenase ydhR; InterPro: IPR014910 YdhR is a homodimeric protein that comprises of a central four-stranded beta sheet and four surrounding alpha helices []. It shows structural homology to the ActVA-Orf6 and YgiN proteins which indicates it could be a mono-oxygenase. ; PDB: 1WD6_B 2HIQ_B 2ASY_B.
Probab=44.69 E-value=12 Score=26.53 Aligned_cols=29 Identities=28% Similarity=0.519 Sum_probs=22.0
Q ss_pred ccCCCCcccccCCceeecCCHHHHHHHHHHc
Q 036052 51 WTSTGDPYANVGDAGLSFDSEEAAREFAERH 81 (115)
Q Consensus 51 Wtss~D~~~qv~~~~l~F~skE~Ai~yaek~ 81 (115)
||.+.++.. .++ ---|+|+++|.+|+++|
T Consensus 38 Wten~~t~e-aGG-iYLFe~e~~A~aY~~~h 66 (97)
T PF08803_consen 38 WTENEETGE-AGG-IYLFEDEASAEAYLEMH 66 (97)
T ss_dssp EEEETTTTE-EEE-EEEESSHHHHHHHHHHH
T ss_pred EEecCCCCc-cce-EEEECCHHHHHHHHHHH
Confidence 777766642 233 56699999999999987
No 27
>cd00913 PCD_DCoH_subfamily_a PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by associating with specific DNA binding proteins such as HNF-1alpha (hepatocyte nuclear factor-1) and Xenopus enhancer of rudimentary homologue (XERH). DCoH also catalyzes the dehydration of 4alpha- hydroxy- tetrahydrobiopterin (4alpha-OH-BH4) to quinoiddihydrobiopterin, a percursor of the phenylalanine hydroxylase cofactor BH4 (tetrahydrobiopterin). The DCoH homodimer has a saddle-shaped structure similar to that of TBP (TATA binding protein).
Probab=43.99 E-value=32 Score=22.32 Aligned_cols=29 Identities=24% Similarity=0.425 Sum_probs=20.9
Q ss_pred CccCCCCcccccCCceeecCCHHHHHHHHHH
Q 036052 50 GWTSTGDPYANVGDAGLSFDSEEAAREFAER 80 (115)
Q Consensus 50 GWtss~D~~~qv~~~~l~F~skE~Ai~yaek 80 (115)
||.-..|+.. +. .+..|.+-.+|++|+.+
T Consensus 1 gW~~~~~~~~-l~-r~f~f~~f~~a~~f~~~ 29 (76)
T cd00913 1 GWELADDGLK-LE-RTFRFKNFVEALEFVNA 29 (76)
T ss_pred CCcCcCCCCe-EE-EEEEcCCHHHHHHHHHH
Confidence 7887776521 11 37889999999999765
No 28
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=43.60 E-value=31 Score=21.46 Aligned_cols=30 Identities=37% Similarity=0.686 Sum_probs=23.4
Q ss_pred eeecCCHHHH----HHHHHHcCccEEEecCCCCc
Q 036052 65 GLSFDSEEAA----REFAERHGWEYVVRKPHRPL 94 (115)
Q Consensus 65 ~l~F~skE~A----i~yaek~G~~y~V~~p~~~~ 94 (115)
.+.|+|+++. ..||-+++.+|.|..-...+
T Consensus 7 G~~F~~~~e~k~av~~yai~~~~~~~v~ksd~~r 40 (67)
T PF03108_consen 7 GQTFPSKEEFKEAVREYAIKNGFEFKVKKSDKKR 40 (67)
T ss_pred CCEECCHHHHHHHHHHHHHhcCcEEEEeccCCEE
Confidence 6799999876 46899999999997655433
No 29
>PF03793 PASTA: PASTA domain; InterPro: IPR005543 The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBP) and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate. In PknB of Mycobacterium tuberculosis (P71584 from SWISSPROT), all of the extracellular portion is predicted to be made up of four PASTA domains, which strongly suggests that it is a signal-binding sensor domain. The domain has also been found in proteins involved in cell wall biosynthesis, where it is implicated in localizing the biosynthesis complex to unlinked peptidoglycan. PASTA is a small globular fold consisting of 3 beta-sheets and an alpha-helix, with a loop region of variable length between the first and second beta-strands. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain [].; GO: 0008658 penicillin binding; PDB: 2ZC3_C 1QME_A 1RP5_B 2Z2M_C 2Z2L_F 2ZC4_C 1QMF_A 3M9G_A 3PY9_A 1K25_B ....
Probab=43.35 E-value=29 Score=20.97 Aligned_cols=22 Identities=18% Similarity=0.160 Sum_probs=17.6
Q ss_pred CCHHHHHHHHHHcCccEEEecC
Q 036052 69 DSEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~~p 90 (115)
-|.++|.+..+..||.+.+...
T Consensus 9 ~~~~~a~~~l~~~g~~~~~~~~ 30 (63)
T PF03793_consen 9 MTYDEAKSILEAAGLTVNVVEE 30 (63)
T ss_dssp SBHHHHHHHHHHTT-EEEEEEE
T ss_pred CcHHHHHHHHHHCCCEEEEEEE
Confidence 4789999999999998877653
No 30
>PF10566 Glyco_hydro_97: Glycoside hydrolase 97 ; InterPro: IPR019563 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. This is the 97th family of glycosidases, in this case bacterial. The central part of the GH97 family protein sequences represents a typical and complete (beta/alpha)8-barrel or catalytic TIM-barrel type domain. The N- and C-terminal parts of the sequences, mainly consisting of beta-strands, most probably form two additional non-catalytic domains with as yet unknown functions. The non-catalytic domains of glycosidases from the alpha-galactosidase and alpha-glucosidase superfamilies are also predominantly composed of beta-strands, and at least some of these domains are involved in oligomerisation and carbohydrate binding. In all known glycosidases with the (beta-alpha)8-barrel fold, the amino acid residues at the active site are located on the C-termini of the beta-strands []. ; PDB: 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A 3A24_A.
Probab=42.11 E-value=20 Score=29.36 Aligned_cols=25 Identities=28% Similarity=0.503 Sum_probs=20.5
Q ss_pred eeecCCHHHHHHHHHHcCccEEEec
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
.+.+++-..=|+||.++||+|.+..
T Consensus 28 g~~t~~~k~yIDfAa~~G~eYvlvD 52 (273)
T PF10566_consen 28 GATTETQKRYIDFAAEMGIEYVLVD 52 (273)
T ss_dssp SSSHHHHHHHHHHHHHTT-SEEEEB
T ss_pred CCCHHHHHHHHHHHHHcCCCEEEec
Confidence 3477888888999999999999983
No 31
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=41.21 E-value=30 Score=21.92 Aligned_cols=24 Identities=25% Similarity=0.188 Sum_probs=18.7
Q ss_pred eeecC----CHHHHHHHHHHcCccEEEe
Q 036052 65 GLSFD----SEEAAREFAERHGWEYVVR 88 (115)
Q Consensus 65 ~l~F~----skE~Ai~yaek~G~~y~V~ 88 (115)
.|.+. ..++|++|.+++|+..||.
T Consensus 49 ~l~l~g~~~~~~~a~~~L~~~~v~vEvl 76 (76)
T PF09383_consen 49 ILELPGDDEEIEKAIAYLREQGVEVEVL 76 (76)
T ss_dssp EEEEES-HHHHHHHHHHHHHTTEEEEEE
T ss_pred EEEEECCHHHHHHHHHHHHHCCCeEEEC
Confidence 56662 2478999999999999874
No 32
>COG0290 InfC Translation initiation factor 3 (IF-3) [Translation, ribosomal structure and biogenesis]
Probab=40.84 E-value=39 Score=26.37 Aligned_cols=37 Identities=27% Similarity=0.330 Sum_probs=28.3
Q ss_pred eeecCCHHHHHHHHHHcCccEEEecCCCCc--CCCcccc
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRKPHRPL--LNVKSYA 101 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~p~~~~--~~~ksYa 101 (115)
.|---|.++|+..|+..|++..+..|+... -+.-.||
T Consensus 30 qlGiv~~~eAL~lA~e~~LDLV~Ispna~PPVcKImDYG 68 (176)
T COG0290 30 QLGIVSIEEALKLAEEAGLDLVEISPNAKPPVCKIMDYG 68 (176)
T ss_pred EEcceeHHHHHHHHHHcCCCEEEECCCCCCCeeEeeecc
Confidence 344568999999999999999999988533 3444565
No 33
>smart00461 WH1 WASP homology region 1. Region of the Wiskott-Aldrich syndrome protein (WASp) that contains point mutations in the majority of patients with WAS. Unknown function. Ena-like WH1 domains bind polyproline-containing peptides, and that Homer contains a WH1 domain.
Probab=40.20 E-value=25 Score=24.36 Aligned_cols=16 Identities=50% Similarity=0.920 Sum_probs=14.9
Q ss_pred eeecCCHHHHHHHHHH
Q 036052 65 GLSFDSEEAAREFAER 80 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek 80 (115)
-|.|.|.+||-+|.++
T Consensus 86 GLnF~se~EA~~F~~~ 101 (106)
T smart00461 86 GLNFASEEEAKKFRKK 101 (106)
T ss_pred EeecCCHHHHHHHHHH
Confidence 7999999999999876
No 34
>cd00914 PCD_DCoH_subfamily_b PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by associating with specific DNA binding proteins such as HNF-1alpha (hepatocyte nuclear factor-1) and Xenopus enhancer of rudimentary homologue (XERH). DCoH also catalyzes the dehydration of 4alpha- hydroxy- tetrahydrobiopterin (4alpha-OH-BH4) to quinoiddihydrobiopterin, a percursor of the phenylalanine hydroxylase cofactor BH4 (tetrahydrobiopterin). The DCoH homodimer has a saddle-shaped structure similar to that of TBP (TATA binding protein). Two DCoH proteins have been identifed in humans: DCoH1 and DCoH2. Mutations in human DCoH1 cause hyperphenylalaninemia. Loss of enzymic activity of DCoH in humans is associated with the depigmentation disorder vitiligo. DCoH1 has been reported to be overexpessed in colon
Probab=40.19 E-value=30 Score=22.53 Aligned_cols=29 Identities=28% Similarity=0.440 Sum_probs=20.9
Q ss_pred CccCCCCcccccCCceeecCCHHHHHHHHHH
Q 036052 50 GWTSTGDPYANVGDAGLSFDSEEAAREFAER 80 (115)
Q Consensus 50 GWtss~D~~~qv~~~~l~F~skE~Ai~yaek 80 (115)
||.-..++.. +. .+.+|++-.+|++|+.+
T Consensus 1 gW~~~~~~~~-l~-r~f~f~~f~~a~~f~~~ 29 (76)
T cd00914 1 GWTLVDGRDA-IH-KSFKFKDFNEAFGFMTR 29 (76)
T ss_pred CCeEeCCCCe-EE-EEEEeCCHHHHHHHHHH
Confidence 6777666531 21 37899999999999765
No 35
>PF08759 DUF1792: Domain of unknown function (DUF1792); InterPro: IPR014869 This domain is found at the C terminus of proteins such as Q97P75 from SWISSPROT that also contain the glycosyl transferase domain at the N terminus. Sometimes it is found independently.
Probab=39.96 E-value=16 Score=29.45 Aligned_cols=23 Identities=22% Similarity=0.470 Sum_probs=17.6
Q ss_pred CCCcccccC--CeE-EEecCCCCCCC
Q 036052 3 SGIPEEHLR--RRV-VIYTPARTATQ 25 (115)
Q Consensus 3 sg~P~~~~~--r~v-rIy~pak~amQ 25 (115)
+|+..+++. +.| ||+.|+|+|=+
T Consensus 128 ~GvgnDLFdnaksI~rIicPsknAf~ 153 (225)
T PF08759_consen 128 SGVGNDLFDNAKSIKRIICPSKNAFS 153 (225)
T ss_pred cCCCchhhhCccceEEEECCchhhHH
Confidence 677777773 556 99999999843
No 36
>COG0137 ArgG Argininosuccinate synthase [Amino acid transport and metabolism]
Probab=39.95 E-value=30 Score=30.16 Aligned_cols=21 Identities=29% Similarity=0.430 Sum_probs=18.8
Q ss_pred ecCCHHHHHHHHHHcCccEEEe
Q 036052 67 SFDSEEAAREFAERHGWEYVVR 88 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y~V~ 88 (115)
.|. +|+.|+||+++||++.+.
T Consensus 151 ~~~-R~~~i~Ya~~~gipv~~~ 171 (403)
T COG0137 151 NLT-REEEIEYAEEHGIPVKAT 171 (403)
T ss_pred ccC-hHHHHHHHHHcCCCcccc
Confidence 466 999999999999999876
No 37
>PF07014 Hs1pro-1_C: Hs1pro-1 protein C-terminus; InterPro: IPR009743 This entry represents the C terminus (approximately 270 residues) of a number of plant Hs1pro-1 proteins, which are believed to confer nematode resistance [].
Probab=39.94 E-value=13 Score=30.35 Aligned_cols=26 Identities=23% Similarity=0.263 Sum_probs=21.2
Q ss_pred cCCCCcccccCCceeecCCHHHHHHH
Q 036052 52 TSTGDPYANVGDAGLSFDSEEAAREF 77 (115)
Q Consensus 52 tss~D~~~qv~~~~l~F~skE~Ai~y 77 (115)
++++|+++|+--.--+|+|+++|--|
T Consensus 228 ~~~~D~Lsq~flEPtYfPSLDaAKTF 253 (261)
T PF07014_consen 228 IESADSLSQIFLEPTYFPSLDAAKTF 253 (261)
T ss_pred ccccchHHHHhcCCCCCCchhHHHHH
Confidence 57899999984444579999999887
No 38
>PF00568 WH1: WH1 domain; InterPro: IPR000697 The EVH1 (WH1, RanBP1-WASP) domain is found in multi-domain proteins implicated in a diverse range of signalling, nuclear transport and cytoskeletal events. This domain of around 115 amino acids is present in species ranging from yeast to mammals. Many EVH1-containing proteins associate with actin-based structures and play a role in cytoskeletal organisation. EVH1 domains recognise and bind the proline-rich motif FPPPP with low-affinity, further interactions then form between flanking residues [][]. WASP family proteins contain a EVH1 (WH1) in their N-terminals which bind proline-rich sequences in the WASP interacting protein. Proteins of the RanBP1 family contain a WH1 domain in their N-terminal region, which seems to bind a different sequence motif present in the C-terminal part of RanGTP protein [,]. Tertiary structure of the WH1 domain of the Mena protein revealed structure similarities with the pleckstrin homology (PH) domain. The overall fold consists of a compact parallel beta-sandwich, closed along one edge by a long alpha-helix. A highly conserved cluster of three surface-exposed aromatic side-chains forms the recognition site for the molecules target ligands. [].; GO: 0005515 protein binding; PDB: 1I2H_A 1DDV_A 1DDW_A 1EGX_A 3SYX_A 1TJ6_B 1XOD_B 1EVH_A 1I7A_B 2JP2_A ....
Probab=39.67 E-value=26 Score=24.20 Aligned_cols=16 Identities=50% Similarity=0.835 Sum_probs=14.9
Q ss_pred eeecCCHHHHHHHHHH
Q 036052 65 GLSFDSEEAAREFAER 80 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek 80 (115)
-|.|.|.+||-.|+++
T Consensus 91 GLnF~se~eA~~F~~~ 106 (111)
T PF00568_consen 91 GLNFASEEEADQFYKK 106 (111)
T ss_dssp EEEESSHHHHHHHHHH
T ss_pred EEecCCHHHHHHHHHH
Confidence 8999999999999875
No 39
>KOG1468 consensus Predicted translation initiation factor related to eIF-2B alpha/beta/delta subunits (CIG2/IDI2) [Translation, ribosomal structure and biogenesis]
Probab=39.60 E-value=30 Score=29.39 Aligned_cols=51 Identities=18% Similarity=0.288 Sum_probs=33.0
Q ss_pred cCCCCcccccCCceeecCCHHHHHHHHHHcCccEEEecCCCCcCCCccccccCCCCCCC
Q 036052 52 TSTGDPYANVGDAGLSFDSEEAAREFAERHGWEYVVRKPHRPLLNVKSYAEHFKWKGPP 110 (115)
Q Consensus 52 tss~D~~~qv~~~~l~F~skE~Ai~yaek~G~~y~V~~p~~~~~~~ksYadNF~~~~~~ 110 (115)
++.||+...| .|-.=|| .||.+|++|.|..|....-..-+-||.-.-..+|
T Consensus 245 arNGDTANKI-------GTy~LAv-~aKhhgipFyvaaP~tsid~~l~tG~eIiIEERp 295 (354)
T KOG1468|consen 245 ARNGDTANKI-------GTYQLAV-LAKHHGIPFYVAAPFTSIDLSLATGDEIIIEERP 295 (354)
T ss_pred eccCcchhhh-------hhhHHHH-HHHhcCCceEEeccccccccccCCCCeeEEeecC
Confidence 4567775554 5666676 6999999999999987654444444444333333
No 40
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=39.53 E-value=29 Score=20.53 Aligned_cols=20 Identities=15% Similarity=0.388 Sum_probs=17.5
Q ss_pred cCCHHHHHHHHHHcCccEEE
Q 036052 68 FDSEEAAREFAERHGWEYVV 87 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~V 87 (115)
..+.|+-|++|+.+|+.+..
T Consensus 26 ~~~~~e~~~lA~~~Gy~ft~ 45 (49)
T PF07862_consen 26 CQNPEEVVALAREAGYDFTE 45 (49)
T ss_pred cCCHHHHHHHHHHcCCCCCH
Confidence 45999999999999998864
No 41
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=39.25 E-value=29 Score=24.64 Aligned_cols=20 Identities=45% Similarity=0.474 Sum_probs=16.2
Q ss_pred CCcccccCCceeecCCHHHHHHH
Q 036052 55 GDPYANVGDAGLSFDSEEAAREF 77 (115)
Q Consensus 55 ~D~~~qv~~~~l~F~skE~Ai~y 77 (115)
.+|-..| .+.|+|+|.|.++
T Consensus 50 w~ptr~v---viEFps~~~ar~~ 69 (96)
T COG5470 50 WRPTRNV---VIEFPSLEAARDC 69 (96)
T ss_pred CCcccEE---EEEcCCHHHHHHH
Confidence 4665666 8999999999876
No 42
>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]
Probab=38.70 E-value=35 Score=31.79 Aligned_cols=60 Identities=30% Similarity=0.469 Sum_probs=42.8
Q ss_pred CcEEEccCC--CCCCCCCCCccCCCCcccccCCceeecCCHHHHHHHHHHcCccEEEecCCCC
Q 036052 33 RWKINFMSK--QKWENPLMGWTSTGDPYANVGDAGLSFDSEEAAREFAERHGWEYVVRKPHRP 93 (115)
Q Consensus 33 ~W~lefe~~--~~~~~PLMGWtss~D~~~qv~~~~l~F~skE~Ai~yaek~G~~y~V~~p~~~ 93 (115)
-|+|--.|. .-+.-|=-|=|+++|+ +.|.+..+.-.+.|+-+.||+++.+.+.|..|..+
T Consensus 18 ~wkL~qSp~v~~v~vaPGn~G~a~~~~-~~~~~~dI~~~d~~ala~f~~e~~I~lVvvGPE~P 79 (788)
T KOG0237|consen 18 AWKLKQSPKVKKVYVAPGNGGTASGDA-SKVPNLDISVADFEALASFCKEHNINLVVVGPELP 79 (788)
T ss_pred HHHhhcCCccceEEEccCCCCcccCcc-ccCcccccChhhHHHHHHHHHHcceeEEEECCchh
Confidence 477766654 2333565666777775 23333367777899999999999999999999874
No 43
>COG4314 NosL Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]
Probab=38.37 E-value=24 Score=27.43 Aligned_cols=20 Identities=40% Similarity=0.522 Sum_probs=17.4
Q ss_pred eecCCHHHHHHHHHHcCccE
Q 036052 66 LSFDSEEAAREFAERHGWEY 85 (115)
Q Consensus 66 l~F~skE~Ai~yaek~G~~y 85 (115)
+-|.++|+|.+||.++|=..
T Consensus 131 ~pF~~e~aA~~faa~~GGrv 150 (176)
T COG4314 131 SPFSDEEAAERFAADNGGRV 150 (176)
T ss_pred ccccCHHHHHHHHHhcCCeE
Confidence 34999999999999999654
No 44
>PF03682 UPF0158: Uncharacterised protein family (UPF0158); InterPro: IPR005361 This is a small family of hypothetical bacterial proteins of unknown function.
Probab=38.24 E-value=25 Score=26.45 Aligned_cols=20 Identities=35% Similarity=0.406 Sum_probs=17.7
Q ss_pred HHHHHHHHHHcCccEEEecC
Q 036052 71 EEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 71 kE~Ai~yaek~G~~y~V~~p 90 (115)
++.|+..|+.|||.|...++
T Consensus 127 r~~a~eWleen~I~~~~~~~ 146 (163)
T PF03682_consen 127 RERAIEWLEENGIEPVFEED 146 (163)
T ss_pred HHHHHHHHHHcCCCcccccc
Confidence 67899999999999988775
No 45
>PF05198 IF3_N: Translation initiation factor IF-3, N-terminal domain; InterPro: IPR019814 Initiation factor 3 (IF-3) (gene infC) is one of the three factors required for the initiation of protein biosynthesis in bacteria. IF-3 is thought to function as a fidelity factor during the assembly of the ternary initiation complex which consist of the 30S ribosomal subunit, the initiator tRNA and the messenger RNA. IF-3 is a basic protein that binds to the 30S ribosomal subunit []. The chloroplast initiation factor IF-3(chl) is a protein that enhances the poly(A,U,G)-dependent binding of the initiator tRNA to chloroplast ribosomal 30s subunits in which the central section is evolutionary related to the sequence of bacterial IF-3 []. ; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1TIF_A.
Probab=38.10 E-value=41 Score=22.33 Aligned_cols=27 Identities=26% Similarity=0.309 Sum_probs=21.4
Q ss_pred eecCCHHHHHHHHHHcCccEEEecCCC
Q 036052 66 LSFDSEEAAREFAERHGWEYVVRKPHR 92 (115)
Q Consensus 66 l~F~skE~Ai~yaek~G~~y~V~~p~~ 92 (115)
|-.=+.++|++-|++.|++.....|..
T Consensus 25 lGv~~~~eAl~~A~~~~lDLV~v~~~~ 51 (76)
T PF05198_consen 25 LGVMSLREALRLAKEKGLDLVEVSPNA 51 (76)
T ss_dssp EEEEEHHHHHHHHHHTT-EEEEEETTS
T ss_pred eceEEHHHHHHHHHHcCCcEEEEcCCC
Confidence 345578999999999999998877654
No 46
>cd00837 EVH1 EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. The EVH1 domain binds to other proteins at proline rich sequences in either FPPPP or PPXXF motifs. It is found in the cytoskeletal reorganization proteins Enabled VASP, and WASP, and in the synaptic scaffolding protein Homer. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=37.50 E-value=30 Score=23.79 Aligned_cols=16 Identities=50% Similarity=0.862 Sum_probs=14.8
Q ss_pred eeecCCHHHHHHHHHH
Q 036052 65 GLSFDSEEAAREFAER 80 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek 80 (115)
-|.|.|.+||-+|.++
T Consensus 84 GL~F~se~eA~~F~~~ 99 (104)
T cd00837 84 GLNFASEEEAAQFRKK 99 (104)
T ss_pred EEeeCCHHHHHHHHHH
Confidence 7999999999999875
No 47
>PF14791 DNA_pol_B_thumb: DNA polymerase beta thumb ; PDB: 1HUZ_A 3K75_D 1HUO_A 2BPC_A 1RPL_A 1NOM_A 1ZQX_A 1ZQU_A 1ZQZ_A 1ZQV_A ....
Probab=37.43 E-value=3.7 Score=26.51 Aligned_cols=14 Identities=14% Similarity=0.254 Sum_probs=8.1
Q ss_pred CCCccCCCCccccc
Q 036052 48 LMGWTSTGDPYANV 61 (115)
Q Consensus 48 LMGWtss~D~~~qv 61 (115)
|.+||||.+-...|
T Consensus 2 ll~~TGs~~fnr~l 15 (64)
T PF14791_consen 2 LLYFTGSKEFNRDL 15 (64)
T ss_dssp HHHHHS-HHHHHHH
T ss_pred cccccCCHHHHHHH
Confidence 56788877765443
No 48
>PF01329 Pterin_4a: Pterin 4 alpha carbinolamine dehydratase; InterPro: IPR001533 DCoH is the dimerisation cofactor of hepatocyte nuclear factor 1 (HNF-1) that functions as both a transcriptional coactivator and a pterin dehydratase []. X-ray crystallographic studies have shown that the ligand binds at four sites per tetrameric enzyme, with little apparent conformational change in the protein.; GO: 0008124 4-alpha-hydroxytetrahydrobiopterin dehydratase activity, 0006729 tetrahydrobiopterin biosynthetic process; PDB: 2V6T_B 2V6U_A 2V6S_B 2EBB_A 1USM_A 1F93_B 1DCP_C 1DCH_E 3HXA_E 1DCO_C ....
Probab=37.13 E-value=33 Score=23.25 Aligned_cols=30 Identities=30% Similarity=0.522 Sum_probs=21.8
Q ss_pred CCCCccCCC-CcccccCCceeecCCHHHHHHHHHH
Q 036052 47 PLMGWTSTG-DPYANVGDAGLSFDSEEAAREFAER 80 (115)
Q Consensus 47 PLMGWtss~-D~~~qv~~~~l~F~skE~Ai~yaek 80 (115)
.|-||.-.+ ..+. ....|++-..|++|..+
T Consensus 16 ~l~~W~~~~~~~l~----r~f~f~~f~~a~~f~~~ 46 (95)
T PF01329_consen 16 ELPGWKLDGGGRLE----RTFKFKDFAEAVEFVNR 46 (95)
T ss_dssp TSTTSEEETSSEEE----EEEE-SSHHHHHHHHHH
T ss_pred cCcCCEECCCCcEE----EEEEeCCHHHHHHHHHH
Confidence 577999888 3332 37899999999998654
No 49
>smart00156 PP2Ac Protein phosphatase 2A homologues, catalytic domain. Large family of serine/threonine phosphatases, that includes PP1, PP2A and PP2B (calcineurin) family members.
Probab=37.02 E-value=60 Score=26.00 Aligned_cols=40 Identities=23% Similarity=0.546 Sum_probs=27.9
Q ss_pred CCCCC---CCCccCCCCcccccCCceeecCCHHHHHHHHHHcCccEEEec
Q 036052 43 KWENP---LMGWTSTGDPYANVGDAGLSFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 43 ~~~~P---LMGWtss~D~~~qv~~~~l~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
-|.|| .-||..|. . . ....|. .+++.+|++++|+++.|..
T Consensus 176 lWsDP~~~~~~~~~~~--R-g---~g~~fg-~~~~~~Fl~~n~l~~iiR~ 218 (271)
T smart00156 176 LWSDPDQPVDGFQPSI--R-G---ASYYFG-PDAVDEFLKKNNLKLIIRA 218 (271)
T ss_pred eecCCCcccCCCccCC--C-C---CccccC-HHHHHHHHHHCCCeEEEec
Confidence 67777 35665442 1 1 245775 7888899999999999865
No 50
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=36.94 E-value=22 Score=28.71 Aligned_cols=14 Identities=43% Similarity=0.567 Sum_probs=13.0
Q ss_pred ecCCHHHHHHHHHH
Q 036052 67 SFDSEEAAREFAER 80 (115)
Q Consensus 67 ~F~skE~Ai~yaek 80 (115)
.|.|+|+|.+||+-
T Consensus 39 sf~s~EeA~a~~~g 52 (225)
T COG3341 39 SFKSYEEAEAYCEG 52 (225)
T ss_pred ccccHHHHHHHhcc
Confidence 59999999999995
No 51
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=36.24 E-value=34 Score=20.56 Aligned_cols=19 Identities=37% Similarity=0.312 Sum_probs=16.8
Q ss_pred ceeecCCHHHHHHHHHHcC
Q 036052 64 AGLSFDSEEAAREFAERHG 82 (115)
Q Consensus 64 ~~l~F~skE~Ai~yaek~G 82 (115)
+-+.|.|.|+|...++.++
T Consensus 42 a~v~f~~~~~a~~al~~~~ 60 (70)
T PF14259_consen 42 AFVEFSSEEDAKRALELLN 60 (70)
T ss_dssp EEEEESSHHHHHHHHHHHT
T ss_pred EEEEeCCHHHHHHHHHHCC
Confidence 3689999999999999876
No 52
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=36.23 E-value=28 Score=27.31 Aligned_cols=18 Identities=22% Similarity=0.176 Sum_probs=15.0
Q ss_pred HHHHHHcCccEEEecCCC
Q 036052 75 REFAERHGWEYVVRKPHR 92 (115)
Q Consensus 75 i~yaek~G~~y~V~~p~~ 92 (115)
+.||+++||+++|.+-..
T Consensus 27 ~~~a~~~g~~~~ii~~~~ 44 (200)
T PRK08179 27 LKEAARQGVRVTVLETET 44 (200)
T ss_pred HHHHHHcCCeEEEEeCCC
Confidence 579999999999987443
No 53
>PLN00200 argininosuccinate synthase; Provisional
Probab=35.34 E-value=27 Score=30.07 Aligned_cols=19 Identities=21% Similarity=0.361 Sum_probs=16.6
Q ss_pred ecCCHHHHHHHHHHcCccE
Q 036052 67 SFDSEEAAREFAERHGWEY 85 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y 85 (115)
.|.||++.++||+++|++.
T Consensus 152 ~~~~r~e~~~~A~~~Gipv 170 (404)
T PLN00200 152 DIKGREDLIEYAKKHNIPV 170 (404)
T ss_pred CCCCHHHHHHHHHHcCCCC
Confidence 4569999999999999975
No 54
>PRK13820 argininosuccinate synthase; Provisional
Probab=35.18 E-value=52 Score=28.25 Aligned_cols=18 Identities=28% Similarity=0.327 Sum_probs=16.5
Q ss_pred CHHHHHHHHHHcCccEEE
Q 036052 70 SEEAAREFAERHGWEYVV 87 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V 87 (115)
||++-++||+++|+++..
T Consensus 148 tK~ei~~ya~~~gip~~~ 165 (394)
T PRK13820 148 TREWEIEYAKEKGIPVPV 165 (394)
T ss_pred CHHHHHHHHHHcCCCCCc
Confidence 999999999999998843
No 55
>cd01207 Ena-Vasp Enabled-VASP-type homology (EVH1) domain. Enabled-VASP-type homology (EVH1) domain. The EVH1 domain binds to other proteins at proline rich sequences. It is found in proteins involved in cytoskeletal reorganization such as Enabled and VASP. Ena-VASP type EVH1 domains specifically recognize FPPPP motifs in the focal adhesion proteins zyxin and vinculin, and the ActA surface protein of Listeria monocytogenes. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=35.13 E-value=31 Score=24.75 Aligned_cols=63 Identities=27% Similarity=0.284 Sum_probs=34.1
Q ss_pred eEEEecCCCCCCC---CCCCCCCCcEEEccCCC-----CCCCCCCCccCCCCcccccCCceeecCCHHHHHHHHHHc
Q 036052 13 RVVIYTPARTATQ---QGSGKIGRWKINFMSKQ-----KWENPLMGWTSTGDPYANVGDAGLSFDSEEAAREFAERH 81 (115)
Q Consensus 13 ~vrIy~pak~amQ---SG~~~t~~W~lefe~~~-----~~~~PLMGWtss~D~~~qv~~~~l~F~skE~Ai~yaek~ 81 (115)
+|.||+.+..-+= +=..+.+..+||.+-.. +-.-.+.-|.+. -.+. -|.|.|+|||-+|.+..
T Consensus 33 ~V~~~~~~~~~~yrIvg~~~~~~~~v~e~~l~~~l~y~k~~p~Fh~w~~~---~~v~---GLnF~Se~eA~~F~~~v 103 (111)
T cd01207 33 RVQIYHHPRNNTFRVVGRKLQDHQVVINCAIVKGLKYNQATPTFHQWRDA---RQVY---GLNFGSKEDATMFASAM 103 (111)
T ss_pred eEEEEEcCCCCEEEEEEeecCCCcEEEEEEecCCceeeecCCcceeeecC---CeEE---eeccCCHHHHHHHHHHH
Confidence 5777776421110 10112356666666431 111233334433 2444 79999999999998753
No 56
>PRK11118 putative monooxygenase; Provisional
Probab=34.94 E-value=43 Score=23.93 Aligned_cols=29 Identities=28% Similarity=0.520 Sum_probs=21.9
Q ss_pred ccCCCCcccccCCceeecCCHHHHHHHHHHc
Q 036052 51 WTSTGDPYANVGDAGLSFDSEEAAREFAERH 81 (115)
Q Consensus 51 Wtss~D~~~qv~~~~l~F~skE~Ai~yaek~ 81 (115)
||.+.++.. .++ -.-|++.++|-+|.++|
T Consensus 41 WTen~~t~e-aGG-iYlF~~e~~a~aYl~mH 69 (100)
T PRK11118 41 WTENEKTQE-AGG-IYLFEDEASAEAYLEMH 69 (100)
T ss_pred eecCCCCcc-cce-EEEECCHHHHHHHHHHH
Confidence 777776642 233 67799999999999875
No 57
>cd01206 Homer Homer type EVH1 domain. Homer type EVH1 domain. Homer is a synaptic scaffolding protein, involved in neuronal signaling. It contains an EVH1 domain, which binds to both neurotransmitter receptors, such as the metabotropic glutamate receptor (mGluR) and to other scaffolding proteins via PPXXF motifs, in order to target them to the synaptic junction. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=34.83 E-value=41 Score=24.43 Aligned_cols=33 Identities=45% Similarity=0.668 Sum_probs=23.8
Q ss_pred CCCCCccCCC-------Cccc-ccCCceeecCCHHHHHHHHHH
Q 036052 46 NPLMGWTSTG-------DPYA-NVGDAGLSFDSEEAAREFAER 80 (115)
Q Consensus 46 ~PLMGWtss~-------D~~~-qv~~~~l~F~skE~Ai~yaek 80 (115)
-|=|+++.+. |+.+ +| --|.|.|+|||-.|+++
T Consensus 62 ~~~~~y~kas~~FhQWrD~R~~tV--yGLnF~Sk~ea~~F~~~ 102 (111)
T cd01206 62 TPNMTFTKTSQKFGQWADSRANTV--YGLGFSSEQQLTKFAEK 102 (111)
T ss_pred cCCcceeeccccccccccccccee--eecccCCHHHHHHHHHH
Confidence 4556666663 5552 45 36899999999999875
No 58
>PF05406 WGR: WGR domain; InterPro: IPR008893 This domain is named after the most conserved central motif of the domain. It is found in a variety of polyA polymerases as well as the Escherichia coli molybdate metabolism regulator P33345 from SWISSPROT and other proteins of unknown function.The domain is found in isolation in proteins such as Q9JN21 from SWISSPROT and is between 70 and 80 residues in length. ; PDB: 2EOC_A 2RA8_A 4DQY_C 2CR9_A.
Probab=34.82 E-value=36 Score=22.10 Aligned_cols=47 Identities=21% Similarity=0.245 Sum_probs=26.4
Q ss_pred CCCCCcEEEccCCCCCC-CCCCCccCCCCcccccCCceeecCCHHHHHHHHHH
Q 036052 29 GKIGRWKINFMSKQKWE-NPLMGWTSTGDPYANVGDAGLSFDSEEAAREFAER 80 (115)
Q Consensus 29 ~~t~~W~lefe~~~~~~-~PLMGWtss~D~~~qv~~~~l~F~skE~Ai~yaek 80 (115)
...+.|.|+..+..-|. --==|-.++. ...+ .-.|+|.|+|++.+++
T Consensus 17 n~~kfY~iql~~~~~~~v~~~wGRiG~~-gq~~----~~~f~s~~eA~~~f~~ 64 (81)
T PF05406_consen 17 NSNKFYRIQLLPDLEWVVFRRWGRIGSK-GQTR----IKPFDSEEEAIKEFEK 64 (81)
T ss_dssp TEEEEEEEEEEEETTEEEEEEEEETTSS-EEEE----EEEESSHHHHHHHHHH
T ss_pred CcEEEEEEEEEeCCCeEEEEEECCCCCc-CcEE----EEeCCCHHHHHHHHHH
Confidence 33467787776432000 0001334444 3333 3479999999998876
No 59
>TIGR00506 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase. Several members of the family are bifunctional, involving both ribA and ribB function. In these cases, ribA tends to be on the C-terminal end of the protein and ribB tends to be on the N-terminal.
Probab=34.10 E-value=37 Score=26.61 Aligned_cols=19 Identities=16% Similarity=0.420 Sum_probs=16.7
Q ss_pred cCCHHHHHHHHHHcCccEE
Q 036052 68 FDSEEAAREFAERHGWEYV 86 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~ 86 (115)
-.+++++.+||++||+++.
T Consensus 172 m~~~~~~~~fA~~~~l~~i 190 (199)
T TIGR00506 172 MARKPELMEYAKKHNLKLI 190 (199)
T ss_pred ccCHHHHHHHHHHcCCcEE
Confidence 5688999999999999983
No 60
>PF12745 HGTP_anticodon2: Anticodon binding domain of tRNAs; InterPro: IPR024435 This is an anticodon binding domain, found largely on Gcn2 proteins which bind tRNA to down regulate translation in certain stress situations [].; GO: 0000049 tRNA binding
Probab=34.08 E-value=46 Score=27.05 Aligned_cols=24 Identities=17% Similarity=0.321 Sum_probs=20.4
Q ss_pred cCCHHHHHHHHHHcCccEEEecCC
Q 036052 68 FDSEEAAREFAERHGWEYVVRKPH 91 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~V~~p~ 91 (115)
..|.||.+.+|..+|+.|.|.--+
T Consensus 43 ~~S~Eel~~~~~~~gi~wiViikq 66 (273)
T PF12745_consen 43 SPSQEELQSYCREDGISWIVIIKQ 66 (273)
T ss_pred CCCHHHHHHHHHHCCCCEEEEEec
Confidence 359999999999999999886533
No 61
>PRK01792 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=33.94 E-value=38 Score=26.99 Aligned_cols=19 Identities=26% Similarity=0.483 Sum_probs=16.9
Q ss_pred cCCHHHHHHHHHHcCccEE
Q 036052 68 FDSEEAAREFAERHGWEYV 86 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~ 86 (115)
..+++++++||++||+++.
T Consensus 182 ma~~~~~~~fA~~~~l~~i 200 (214)
T PRK01792 182 MARTPEIVEFAKKFGYAVV 200 (214)
T ss_pred ccCHHHHHHHHHHcCCcEE
Confidence 5689999999999999983
No 62
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=33.92 E-value=36 Score=19.98 Aligned_cols=13 Identities=15% Similarity=0.376 Sum_probs=11.9
Q ss_pred cCCHHHHHHHHHH
Q 036052 68 FDSEEAAREFAER 80 (115)
Q Consensus 68 F~skE~Ai~yaek 80 (115)
|.|+.||..++.+
T Consensus 24 F~TkkeA~~~~~~ 36 (46)
T PF14657_consen 24 FKTKKEAEKALAK 36 (46)
T ss_pred CCcHHHHHHHHHH
Confidence 9999999999875
No 63
>PRK13864 type IV secretion system lytic transglycosylase VirB1; Provisional
Probab=33.90 E-value=62 Score=26.34 Aligned_cols=29 Identities=10% Similarity=0.053 Sum_probs=21.3
Q ss_pred CceeecCCHHHHHHHHHH---cCccEEEecCC
Q 036052 63 DAGLSFDSEEAAREFAER---HGWEYVVRKPH 91 (115)
Q Consensus 63 ~~~l~F~skE~Ai~yaek---~G~~y~V~~p~ 91 (115)
+..|.|.++++||+.+++ .|..|.|---+
T Consensus 67 G~~l~~qs~~EAi~~a~~l~~~g~s~DvGLmQ 98 (245)
T PRK13864 67 GETLHWQNHAQATQSVRHRLEARHSLDVGLMQ 98 (245)
T ss_pred CCccCCCCHHHHHHHHHHHHhcCCceeeechh
Confidence 346889999999998864 67777774433
No 64
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=33.89 E-value=49 Score=19.26 Aligned_cols=19 Identities=42% Similarity=0.487 Sum_probs=15.9
Q ss_pred ceeecCCHHHHHHHHH-HcC
Q 036052 64 AGLSFDSEEAAREFAE-RHG 82 (115)
Q Consensus 64 ~~l~F~skE~Ai~yae-k~G 82 (115)
.-+.|.+.++|....+ -+|
T Consensus 42 a~V~F~~~~~a~~a~~~l~g 61 (70)
T PF00076_consen 42 AFVEFESEEDAEKALEELNG 61 (70)
T ss_dssp EEEEESSHHHHHHHHHHHTT
T ss_pred EEEEEcCHHHHHHHHHHcCC
Confidence 3689999999999888 566
No 65
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=33.78 E-value=48 Score=23.18 Aligned_cols=26 Identities=27% Similarity=0.410 Sum_probs=23.0
Q ss_pred eeecCCHHHHHHHHHHcCccEEEecC
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~p 90 (115)
.+..++.+++.+|++++|+.|.+...
T Consensus 69 ~Is~d~~~~~~~~~~~~~~~~~~l~D 94 (154)
T PRK09437 69 GISTDKPEKLSRFAEKELLNFTLLSD 94 (154)
T ss_pred EEcCCCHHHHHHHHHHhCCCCeEEEC
Confidence 67889999999999999999988763
No 66
>TIGR01465 cobM_cbiF precorrin-4 C11-methyltransferase. This model represents precorrin-4 C11-methyltransferase, one of two methyltransferases commonly referred to as precorrin-3 methylase (the other is precorrin-3B C17-methyltransferase, EC 2.1.1.131). This enzyme participates in the pathway toward the biosynthesis of cobalamin and related products.
Probab=33.62 E-value=59 Score=24.47 Aligned_cols=33 Identities=24% Similarity=0.264 Sum_probs=25.7
Q ss_pred CccCCCCcccccCCceeecCCHHHHHHHHHHcCccEEEecC
Q 036052 50 GWTSTGDPYANVGDAGLSFDSEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 50 GWtss~D~~~qv~~~~l~F~skE~Ai~yaek~G~~y~V~~p 90 (115)
..-.+|||. .|.+--.-+.+++++|++++|..-
T Consensus 75 ~~L~~GDP~--------~~~~~~~l~~~~~~~g~~veviPG 107 (229)
T TIGR01465 75 VRLHTGDPS--------IYGAIAEQMQLLEALGIPYEVVPG 107 (229)
T ss_pred EEEeCcCcc--------ccccHHHHHHHHHHCCCCEEEECC
Confidence 445678883 577778888899999999999753
No 67
>smart00757 CRA CT11-RanBPM. protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)
Probab=33.46 E-value=31 Score=22.38 Aligned_cols=17 Identities=18% Similarity=0.087 Sum_probs=13.3
Q ss_pred CHHHHHHHHHHcCccEE
Q 036052 70 SEEAAREFAERHGWEYV 86 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~ 86 (115)
+.++||.||+++=-+|.
T Consensus 2 ~~~eAi~yar~~l~~~~ 18 (99)
T smart00757 2 KIEEALAYARELLAPFA 18 (99)
T ss_pred cHHHHHHHHHHHHhhhc
Confidence 46899999998866554
No 68
>TIGR03728 glyco_access_1 glycosyltransferase, SP_1767 family. Members of this protein family are putative glycosyltransferases. Some members are found close to genes for the accessory secretory (SecA2) system, and are suggested by Partial Phylogenetic Profiling to correlate with SecA2 systems. Glycosylation, therefore, may occur in the cytosol prior to secretion.
Probab=32.53 E-value=23 Score=29.26 Aligned_cols=23 Identities=22% Similarity=0.470 Sum_probs=17.7
Q ss_pred CCCcccccC--CeE-EEecCCCCCCC
Q 036052 3 SGIPEEHLR--RRV-VIYTPARTATQ 25 (115)
Q Consensus 3 sg~P~~~~~--r~v-rIy~pak~amQ 25 (115)
+|+..+++. +.+ ||+.|+|+|-+
T Consensus 146 ~GvGndLF~naksI~rIicPsknAy~ 171 (265)
T TIGR03728 146 SGVGNDLFDNAKSIKRIICPSKNAFS 171 (265)
T ss_pred ccCchhhhhCcccEEEEeCCChhHHH
Confidence 677777763 566 99999999854
No 69
>KOG1706 consensus Argininosuccinate synthase [Amino acid transport and metabolism]
Probab=31.62 E-value=29 Score=29.96 Aligned_cols=22 Identities=27% Similarity=0.456 Sum_probs=20.0
Q ss_pred ecCCHHHHHHHHHHcCccEEEe
Q 036052 67 SFDSEEAAREFAERHGWEYVVR 88 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y~V~ 88 (115)
+|.-++|++.||+++||+.-|.
T Consensus 154 rf~Gr~Dl~eYakq~giPvpvT 175 (412)
T KOG1706|consen 154 RFKGRKDLLEYAKQHGIPVPVT 175 (412)
T ss_pred hhcCchHHHHHHHhcCCCcccc
Confidence 6899999999999999998774
No 70
>PF02177 APP_N: Amyloid A4 N-terminal heparin-binding; InterPro: IPR015849 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. This entry represents a heparin-binding domain found at the N-terminal of the extracellular domain, which is itself found at the N-terminal of amyloidogenic glycoproteins such as amyloid-beta precursor protein (APP, or A4). The core of the heparin-binding domain has an unusual disulphide-rich fold, consisting of a beta-x-alpha-beta-loop-beta topology []. More information about these protein can be found at Protein of the Month: Amyloid-beta Precursor Protein [].; GO: 0005488 binding, 0016021 integral to membrane; PDB: 3KTM_E 1MWP_A 2FKL_A 1OWT_A.
Probab=31.47 E-value=36 Score=24.29 Aligned_cols=23 Identities=9% Similarity=0.109 Sum_probs=15.5
Q ss_pred eeecCCHHHHHHHHHHcCccEEE
Q 036052 65 GLSFDSEEAAREFAERHGWEYVV 87 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V 87 (115)
.--|.++++.++||++.--++.|
T Consensus 31 ~~C~~~k~eIL~YCrkvYP~l~I 53 (102)
T PF02177_consen 31 ASCLKDKEEILKYCRKVYPELQI 53 (102)
T ss_dssp -B---SHHHHHHHHHHHSTTS-E
T ss_pred ccccCChHHHHHHHHHhCCCCce
Confidence 45899999999999998766654
No 71
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=31.42 E-value=35 Score=29.36 Aligned_cols=19 Identities=21% Similarity=0.573 Sum_probs=15.9
Q ss_pred HHHHHHcCccEEEecCCCC
Q 036052 75 REFAERHGWEYVVRKPHRP 93 (115)
Q Consensus 75 i~yaek~G~~y~V~~p~~~ 93 (115)
..||+.+||.++|..-...
T Consensus 139 ~rYAe~kgWk~ei~s~se~ 157 (363)
T COG0216 139 SRYAESKGWKVEILSASES 157 (363)
T ss_pred HHHHHhCCCEEEEeecCcc
Confidence 3899999999999886653
No 72
>PF00926 DHBP_synthase: 3,4-dihydroxy-2-butanone 4-phosphate synthase; InterPro: IPR000422 3,4-dihydroxy-2-butanone 4-phosphate synthase (4.1.99.12 from EC) (DHBP synthase) (RibB) catalyses the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate, the latter serving as the biosynthetic precursor for the xylene ring of riboflavin []. In Photobacterium leiognathi, the riboflavin synthesis genes ribB (DHBP synthase), ribE (riboflavin synthase), ribH (lumazone synthase) and ribA (GTP cyclohydrolase II) all reside in the lux operon []. RibB is sometimes found as a bifunctional enzyme with GTP cyclohydrolase II that catalyses the first committed step in the biosynthesis of riboflavin (IPR000926 from INTERPRO). No sequences with significant homology to DHBP synthase are found in the metazoa.; GO: 0008686 3,4-dihydroxy-2-butanone-4-phosphate synthase activity, 0009231 riboflavin biosynthetic process; PDB: 1K4O_A 1K4L_A 1K4P_A 1K49_A 1K4I_A 1TKU_A 1TKS_B 2RIS_A 2RIU_A 3MIO_A ....
Probab=31.39 E-value=46 Score=25.95 Aligned_cols=19 Identities=32% Similarity=0.604 Sum_probs=15.6
Q ss_pred cCCHHHHHHHHHHcCccEE
Q 036052 68 FDSEEAAREFAERHGWEYV 86 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~ 86 (115)
-.+++++.+||++||+++.
T Consensus 167 ~~~~~~~~~fA~~~~l~~v 185 (194)
T PF00926_consen 167 MARRDELEEFAKKHGLPIV 185 (194)
T ss_dssp BHCHHHHHHHHHHTT-EEE
T ss_pred cCCHHHHHHHHHHcCCcEE
Confidence 4578999999999999875
No 73
>PF10009 DUF2252: Uncharacterized protein conserved in bacteria (DUF2252); InterPro: IPR018721 This domain has no known function.
Probab=31.38 E-value=30 Score=29.30 Aligned_cols=41 Identities=20% Similarity=0.389 Sum_probs=26.9
Q ss_pred CCCCCCCCccCCCCc---ccccCCceeecC----CHHHHHHHHHHcCc
Q 036052 43 KWENPLMGWTSTGDP---YANVGDAGLSFD----SEEAAREFAERHGW 83 (115)
Q Consensus 43 ~~~~PLMGWtss~D~---~~qv~~~~l~F~----skE~Ai~yaek~G~ 83 (115)
.-.||++||++.++- ..|+...+.+|+ +.++...||+-.|+
T Consensus 288 ~~sD~~LG~~~~~g~~f~VRql~p~k~~~d~~~l~~~~~~~~a~~~g~ 335 (385)
T PF10009_consen 288 AASDPFLGWVTIDGRDFYVRQLRPMKGSVDLEDLDPEELQDYARLCGR 335 (385)
T ss_pred hcCCcccCceeeCCceEEEEECCCcCCCcChhhCCHHHHHHHHHHHHH
Confidence 456999999998662 123322233433 67888888887775
No 74
>TIGR03072 release_prfH putative peptide chain release factor H. Members of this protein family are bacterial proteins homologous to peptide chain release factors 1 (RF-1, product of the prfA gene), and 2 (RF-2, product of the prfB gene). The member from Escherichia coli K-12, designated prfH, appears to be a pseudogene. This class I release factor is always found as the downstream gene of a two-gene operon.
Probab=30.97 E-value=39 Score=26.55 Aligned_cols=17 Identities=18% Similarity=0.055 Sum_probs=14.6
Q ss_pred HHHHHHcCccEEEecCC
Q 036052 75 REFAERHGWEYVVRKPH 91 (115)
Q Consensus 75 i~yaek~G~~y~V~~p~ 91 (115)
.+||+++||+++|.+-.
T Consensus 26 ~~~a~~~g~~~eii~~~ 42 (200)
T TIGR03072 26 TREAAARGVRVEVLEQE 42 (200)
T ss_pred HHHHHHcCCeEEEEeCC
Confidence 57999999999998744
No 75
>PRK00910 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=30.43 E-value=46 Score=26.55 Aligned_cols=19 Identities=11% Similarity=0.172 Sum_probs=17.0
Q ss_pred cCCHHHHHHHHHHcCccEE
Q 036052 68 FDSEEAAREFAERHGWEYV 86 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~ 86 (115)
..+++++++||++||+++.
T Consensus 183 ma~~~~l~~fA~~h~l~~i 201 (218)
T PRK00910 183 MAKTPEIIAFGKLHNMPVL 201 (218)
T ss_pred cCCHHHHHHHHHHcCCcEE
Confidence 5689999999999999984
No 76
>cd06576 PASTA_Pbp2x-like_1 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by acylating the active site serine. PBPs catalyze key steps in the synthesis of the peptidoglycan, such as the interconnecting of glycan chains (polymers of N-glucosamine and N-acetylmuramic acid residues) and the cross-linking (transpeptidation) of short stem peptides, which are connected to glycan chains. Peptidoglycan is essential in cell division and protects bacteria from osmotic shock and lysis. PBP2x is one of the two monofunctional high molecular mass PBPs in Streptococcus pneumoniae and has been seen as the primary PBP target in beta-lactam-resistant strains. The PASTA domain is found at the C-termini of several PBPs and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine
Probab=30.12 E-value=88 Score=17.54 Aligned_cols=22 Identities=27% Similarity=0.203 Sum_probs=18.9
Q ss_pred CCHHHHHHHHHHcCccEEEecC
Q 036052 69 DSEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~~p 90 (115)
.+.++|.+.+++.|+.+++..+
T Consensus 8 ~~~~~a~~~l~~~g~~~~~~~~ 29 (55)
T cd06576 8 KSVEEAKKELKEAGLQPVVIGN 29 (55)
T ss_pred CCHHHHHHHHHHCCCEEEEeCC
Confidence 5789999999999999987654
No 77
>PF03795 YCII: YCII-related domain; InterPro: IPR005545 The majority of proteins in this group contain a single copy of this domain, though it is also found as a repeat (e.g. in Q9AJZ7 from SWISSPROT). A strongly conserved histidine and a aspartate suggest that the domain has an enzymatic function. This entry also covers what was previously known as the DGPF domain (COG3795). Although its function is unknown it is found fused to a sigma-70 factor family domain in Q9A8M4 from SWISSPROT, suggesting that this domain may plays a role in transcription initiation. This domain is named after the most conserved motif in the alignment.; PDB: 1S7I_A 1MWQ_A.
Probab=29.86 E-value=29 Score=22.47 Aligned_cols=16 Identities=31% Similarity=0.324 Sum_probs=14.2
Q ss_pred eeecCCHHHHHHHHHH
Q 036052 65 GLSFDSEEAAREFAER 80 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek 80 (115)
.+..+|+|+|+++|++
T Consensus 62 i~~a~s~e~A~~~~~~ 77 (95)
T PF03795_consen 62 IVEAESREEAEEIAKE 77 (95)
T ss_dssp EEEESSHHHHHHHHCT
T ss_pred EEEeCCHHHHHHHHHh
Confidence 6789999999999875
No 78
>PRK00014 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=29.33 E-value=50 Score=26.66 Aligned_cols=19 Identities=11% Similarity=0.221 Sum_probs=16.9
Q ss_pred cCCHHHHHHHHHHcCccEE
Q 036052 68 FDSEEAAREFAERHGWEYV 86 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~ 86 (115)
..+++++++||++||+.+.
T Consensus 187 ma~~~~l~~fA~~~~l~ii 205 (230)
T PRK00014 187 MMRGASLERYAAKEGLVAL 205 (230)
T ss_pred ccCHHHHHHHHHHcCCcEE
Confidence 5688999999999999983
No 79
>PF14542 Acetyltransf_CG: GCN5-related N-acetyl-transferase; PDB: 2H5M_A 2Q44_A 1XMT_A 2Q4Y_A 2IL4_A 2EVN_A 1R57_A.
Probab=29.24 E-value=52 Score=21.42 Aligned_cols=19 Identities=32% Similarity=0.372 Sum_probs=14.7
Q ss_pred HHHHHHHHHHcCccEEEec
Q 036052 71 EEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 71 kE~Ai~yaek~G~~y~V~~ 89 (115)
.++|++||+++|+.....=
T Consensus 44 ~~~~l~~a~~~~~kv~p~C 62 (78)
T PF14542_consen 44 VEAALDYARENGLKVVPTC 62 (78)
T ss_dssp HHHHHHHHHHTT-EEEETS
T ss_pred HHHHHHHHHHCCCEEEEEC
Confidence 4789999999999876543
No 80
>cd07202 cPLA2_Grp-IVC Group IVC cytoplasmic phospholipase A2; catalytic domain; Ca-independent. Group IVC cPLA2, a small 61 kDa protein, is a single domain alpha/beta hydrolase. It lacks a C2 domain; therefore, it has no Ca-dependence. Group IVC cPLA2 is also referred to as cPLA2-gamma. The cPLA2-gamma enzyme is predominantly found in cardiac and skeletal muscles, and to a lesser extent in the brain. Human cPLA2-gamma is approximately 30% identical to cPLA2-alpha. The catalytic domain of cytosolic phospholipase A2 (PLA2; EC 3.1.1.4) hydrolyzes the sn-2-acyl ester bond of phospholipids to release arachidonic acid. At the active site, cPLA2 contains a serine nucleophile through which the catalytic mechanism is initiated. The active site is partially covered by a solvent-accessible flexible lid. cPLA2 displays interfacial activation as it exists in both "closed lid" and "open lid" forms. Movement of the cPLA2 lid possibly exposes a greater hydrophobic surface and the active site. cPLA2 be
Probab=29.07 E-value=27 Score=30.60 Aligned_cols=23 Identities=13% Similarity=0.372 Sum_probs=18.0
Q ss_pred cCCHHHHHHHHHHcCccEEEecC
Q 036052 68 FDSEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~V~~p 90 (115)
|.+...|.+||++|||+|-=++|
T Consensus 321 f~~l~~~~~~c~~~~ipfp~i~~ 343 (430)
T cd07202 321 FETIKDTAEYCRKHNIPFPQVDE 343 (430)
T ss_pred hHHHHHHHHHHHHcCCCCCCcCc
Confidence 55778999999999999933333
No 81
>COG5453 Uncharacterized conserved protein [Function unknown]
Probab=29.05 E-value=35 Score=24.16 Aligned_cols=19 Identities=32% Similarity=0.363 Sum_probs=16.1
Q ss_pred ecCCHHHHHHHHHHcCccE
Q 036052 67 SFDSEEAAREFAERHGWEY 85 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y 85 (115)
.|.+++|||+++-+.|.-+
T Consensus 68 ~ft~~~DAve~~lkKg~qi 86 (96)
T COG5453 68 LFTSLDDAVEIALKKGRQI 86 (96)
T ss_pred hccchhHHHHHHHHHHHHH
Confidence 4999999999999988643
No 82
>PF05637 Glyco_transf_34: galactosyl transferase GMA12/MNN10 family; InterPro: IPR008630 This family contains a number of glycosyltransferase enzymes that contain a DXD motif. This family includes a number of Caenorhabditis elegans homologues where the DXD is replaced by DXH. Some members of this family are included in glycosyltransferase family 34.; GO: 0016758 transferase activity, transferring hexosyl groups, 0016021 integral to membrane; PDB: 2P72_B 2P73_A 2P6W_A.
Probab=29.02 E-value=36 Score=26.76 Aligned_cols=17 Identities=29% Similarity=0.706 Sum_probs=12.1
Q ss_pred HHHHHHHHHcCccEEEe
Q 036052 72 EAAREFAERHGWEYVVR 88 (115)
Q Consensus 72 E~Ai~yaek~G~~y~V~ 88 (115)
+-=+.||++||++|.+.
T Consensus 31 ~Nr~~Ya~~HgY~~~~~ 47 (239)
T PF05637_consen 31 QNRVDYARRHGYDLYYR 47 (239)
T ss_dssp --HHHHHHHHT-EEEEE
T ss_pred HHHHHHHHhcCCEEEEE
Confidence 33468999999999984
No 83
>COG0007 CysG Uroporphyrinogen-III methylase [Coenzyme metabolism]
Probab=28.82 E-value=72 Score=25.89 Aligned_cols=31 Identities=29% Similarity=0.375 Sum_probs=24.2
Q ss_pred CCCcccccCCceeecCCHHHHHHHHHHcCccEEEecCCC
Q 036052 54 TGDPYANVGDAGLSFDSEEAAREFAERHGWEYVVRKPHR 92 (115)
Q Consensus 54 s~D~~~qv~~~~l~F~skE~Ai~yaek~G~~y~V~~p~~ 92 (115)
+|||+ -|.=--+=++++.++|++|+|..--.
T Consensus 89 gGDP~--------iFGRggEE~~~l~~~gI~~eVVPGiT 119 (244)
T COG0007 89 GGDPY--------IFGRGGEEIEALAEAGIEFEVVPGIT 119 (244)
T ss_pred CCCCC--------eecCcHHHHHHHHHcCCceEEeCccc
Confidence 37885 57767777889999999999986443
No 84
>PF07611 DUF1574: Protein of unknown function (DUF1574); InterPro: IPR011468 This is a family of hypothetical proteins found in Leptospira interrogans and other bacteria.
Probab=28.74 E-value=34 Score=29.02 Aligned_cols=27 Identities=22% Similarity=0.155 Sum_probs=24.4
Q ss_pred eecCCHHHHHHHHHHcCccEEEecCCC
Q 036052 66 LSFDSEEAAREFAERHGWEYVVRKPHR 92 (115)
Q Consensus 66 l~F~skE~Ai~yaek~G~~y~V~~p~~ 92 (115)
+.|.-.|++++.||++||++.|.-|+.
T Consensus 249 ~q~~F~e~~L~~ake~~I~~vl~~P~V 275 (345)
T PF07611_consen 249 TQFFFLEKFLKLAKENGIPVVLWWPKV 275 (345)
T ss_pred hHHHHHHHHHHHHHHcCCcEEEEEecc
Confidence 467779999999999999999999887
No 85
>PF02786 CPSase_L_D2: Carbamoyl-phosphate synthase L chain, ATP binding domain; InterPro: IPR005479 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the ATP-binding domain found in the large subunit of carbamoyl phosphate synthase, as well as in related proteins.; GO: 0003824 catalytic activity, 0005524 ATP binding, 0008152 metabolic process; PDB: 3U9S_A 3U9T_A 2C00_B 2VQD_A 1W96_B 1W93_A 1M6V_C 1CS0_C 1C30_E 1C3O_G ....
Probab=28.58 E-value=54 Score=25.32 Aligned_cols=22 Identities=36% Similarity=0.557 Sum_probs=18.1
Q ss_pred cCCHHHHHHHHHHcCccEEEec
Q 036052 68 FDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~V~~ 89 (115)
-.|.|+|+++|++.|++.-|..
T Consensus 24 ~~~~eea~~~a~~iGyPVliKa 45 (211)
T PF02786_consen 24 ISSVEEALEFAEEIGYPVLIKA 45 (211)
T ss_dssp BSSHHHHHHHHHHH-SSEEEEE
T ss_pred CCCHHHHHHHHHhcCCceEEee
Confidence 3789999999999999988754
No 86
>PF12123 Amidase02_C: N-acetylmuramoyl-l-alanine amidase; InterPro: IPR021976 This domain is found in bacteria and viruses. This domain is about 50 amino acids in length. This domain is classified with the enzyme classification code 3.5.1.28 from EC. This domain is the C-terminal of the enzyme which hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain cell-wall glycopeptides. ; PDB: 2L48_B.
Probab=28.33 E-value=75 Score=19.45 Aligned_cols=18 Identities=22% Similarity=0.540 Sum_probs=13.9
Q ss_pred CHHHHHHHHHHcCccEEE
Q 036052 70 SEEAAREFAERHGWEYVV 87 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V 87 (115)
.++.+-+|-.++||-|+|
T Consensus 28 ~L~k~~~wld~rgWwYe~ 45 (45)
T PF12123_consen 28 ELDKFTAWLDERGWWYEV 45 (45)
T ss_dssp HHHHHHHHHHHTT--EEE
T ss_pred HHHHHHHHHHhcCcEEeC
Confidence 468889999999999987
No 87
>PF09691 PulS_OutS: Bacterial chaperone lipoprotein (PulS_OutS); InterPro: IPR019114 This family comprises lipoproteins from gamma proteobacterial species: pullulanase secretion protein PulS protein of Klebsiella pneumoniae (P20440 from SWISSPROT), the lipoprotein OutS protein of Erwinia chrysanthemi (Q01567 from SWISSPROT) and the functionally uncharacterised type II secretion protein EtpO (Q7BSV3 from SWISSPROT) from Escherichia coli O157:H7. PulS and OutS have been shown to interact with and facilitate insertion of secretins into the outer membrane, suggesting a chaperone-like, or piloting function for members of this family. In addition to the PulS/OutS proteins this entry also includes other functionally uncharacterised proteins, such as YacC from Escherischia coli (P0AA95 from SWISSPROT).; PDB: 3SOL_A 3UYM_A 3UTK_A 4A56_A.
Probab=27.80 E-value=40 Score=24.15 Aligned_cols=15 Identities=40% Similarity=0.762 Sum_probs=10.9
Q ss_pred HHHHHHHHHcCccEE
Q 036052 72 EAAREFAERHGWEYV 86 (115)
Q Consensus 72 E~Ai~yaek~G~~y~ 86 (115)
-.||.||+++||+..
T Consensus 53 ~~a~~~A~~~gWd~~ 67 (109)
T PF09691_consen 53 RAAVIFAQQRGWDTS 67 (109)
T ss_dssp HHHHHHHHHTT--CG
T ss_pred HHHHHHHHHcCCCcc
Confidence 369999999999864
No 88
>cd00488 PCD_DCoH PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by associating with specific DNA binding proteins such as HNF-1alpha (hepatocyte nuclear factor-1) and Xenopus enhancer of rudimentary homologue (XERH). DCoH also catalyzes the dehydration of 4alpha- hydroxy- tetrahydrobiopterin (4alpha-OH-BH4) to quinoiddihydrobiopterin, a percursor of the phenylalanine hydroxylase cofactor BH4 (tetrahydrobiopterin). The DCoH homodimer has a saddle-shaped structure similar to that of TBP (TATA binding protein). Two DCoH proteins have been identifed in humans: DCoH1 and DCoH2. Mutations in human DCoH1 cause hyperphenylalaninemia. Loss of enzymic activity of DCoH in humans is associated with the depigmentation disorder vitiligo. DCoH1 has been reported to be overexpessed in colon cancer carc
Probab=27.65 E-value=82 Score=20.23 Aligned_cols=16 Identities=25% Similarity=0.397 Sum_probs=14.2
Q ss_pred eeecCCHHHHHHHHHH
Q 036052 65 GLSFDSEEAAREFAER 80 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek 80 (115)
+.+|++-.+|++|+.+
T Consensus 13 ~f~f~~f~~a~~f~~~ 28 (75)
T cd00488 13 TFKFKDFKEAIAFVNR 28 (75)
T ss_pred EEEcCCHHHHHHHHHH
Confidence 7899999999998765
No 89
>PRK00923 sirohydrochlorin cobaltochelatase; Reviewed
Probab=27.26 E-value=91 Score=21.47 Aligned_cols=27 Identities=11% Similarity=-0.022 Sum_probs=22.5
Q ss_pred eecCCHHHHHHHHHHcCccEEEecCCC
Q 036052 66 LSFDSEEAAREFAERHGWEYVVRKPHR 92 (115)
Q Consensus 66 l~F~skE~Ai~yaek~G~~y~V~~p~~ 92 (115)
+..+|.+++++-|.++|..-.|.-|-.
T Consensus 43 ~~~P~l~~~l~~l~~~g~~~v~vvPlf 69 (126)
T PRK00923 43 FNEPTIPEALKKLIGTGADKIIVVPVF 69 (126)
T ss_pred cCCCCHHHHHHHHHHcCCCEEEEEchh
Confidence 356899999999999999987776654
No 90
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=27.23 E-value=93 Score=18.94 Aligned_cols=24 Identities=21% Similarity=0.118 Sum_probs=20.4
Q ss_pred CCHHHHHHHHHHcCccEEEecCCC
Q 036052 69 DSEEAAREFAERHGWEYVVRKPHR 92 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~~p~~ 92 (115)
.+.++.++.|+++|++......+.
T Consensus 15 ~~~~~~~~~a~~~g~~~v~iTDh~ 38 (67)
T smart00481 15 LSPEELVKRAKELGLKAIAITDHG 38 (67)
T ss_pred CCHHHHHHHHHHcCCCEEEEeeCC
Confidence 368999999999999998876654
No 91
>PF01910 DUF77: Domain of unknown function DUF77; InterPro: IPR002767 This entry contains several hypothetical proteins of unknown function found in archaebacteria, eukaryotes and eubacteria. The structures of YBL001c from Saccharomyces cerevisiae and its homologue MTH1187 from the archaea Methanobacterium thermoautotrophicum have been determined []. These proteins have a ferredoxin-like alpha/beta sandwich structure with anti-parallel beta-sheets. Generally, they have two domains that form a single beta-sheet dimer, where two dimers pack sheet-to-sheet into a tetramer, some proteins having an extra C-terminal helix. ; PDB: 1LXJ_A 1YQH_A 2EKY_G 2EPI_A 1VK8_D 2IBO_C 1LXN_B.
Probab=26.79 E-value=60 Score=22.12 Aligned_cols=18 Identities=28% Similarity=0.355 Sum_probs=16.2
Q ss_pred HHHHHHHHHcCccEEEec
Q 036052 72 EAAREFAERHGWEYVVRK 89 (115)
Q Consensus 72 E~Ai~yaek~G~~y~V~~ 89 (115)
.+||++.++.|++|+|-.
T Consensus 20 ~~~i~~i~~sgl~y~v~p 37 (92)
T PF01910_consen 20 AEAIEVIKESGLKYEVGP 37 (92)
T ss_dssp HHHHHHHHTSSSEEEEET
T ss_pred HHHHHHHHHcCCceEEcC
Confidence 789999999999999864
No 92
>PTZ00056 glutathione peroxidase; Provisional
Probab=26.38 E-value=66 Score=24.37 Aligned_cols=21 Identities=14% Similarity=0.341 Sum_probs=18.7
Q ss_pred CCHHHHHHHHHHcCccEEEec
Q 036052 69 DSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~~ 89 (115)
++.|++.+|++++|+.|.|..
T Consensus 89 d~~e~~~~f~~~~~~~fpvl~ 109 (199)
T PTZ00056 89 PNTKDIRKFNDKNKIKYNFFE 109 (199)
T ss_pred CCHHHHHHHHHHcCCCceeee
Confidence 688999999999999998853
No 93
>PF00331 Glyco_hydro_10: Glycosyl hydrolase family 10; InterPro: IPR001000 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 10 GH10 from CAZY comprises enzymes with a number of known activities; xylanase (3.2.1.8 from EC); endo-1,3-beta-xylanase (3.2.1.32 from EC); cellobiohydrolase (3.2.1.91 from EC). These enzymes were formerly known as cellulase family F. The microbial degradation of cellulose and xylans requires several types of enzymes such as endoglucanases (3.2.1.4 from EC), cellobiohydrolases (3.2.1.91 from EC) (exoglucanases), or xylanases (3.2.1.8 from EC) [, ]. Fungi and bacteria produces a spectrum of cellulolytic enzymes (cellulases) and xylanases which, on the basis of sequence similarities, can be classified into families. One of these families is known as the cellulase family F [] or as the glycosyl hydrolases family 10 []. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1UQZ_A 1UQY_A 1UR2_A 1UR1_A 2CNC_A 1OD8_A 1E0W_A 1E0V_A 1V0M_A 1E0X_B ....
Probab=26.36 E-value=42 Score=27.34 Aligned_cols=22 Identities=23% Similarity=0.448 Sum_probs=18.5
Q ss_pred eeecCCHHHHHHHHHHcCccEE
Q 036052 65 GLSFDSEEAAREFAERHGWEYV 86 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~ 86 (115)
++.|++.++.++||+++|+...
T Consensus 55 ~~~~~~~D~~~~~a~~~g~~vr 76 (320)
T PF00331_consen 55 RFNFESADAILDWARENGIKVR 76 (320)
T ss_dssp BEE-HHHHHHHHHHHHTT-EEE
T ss_pred ccCccchhHHHHHHHhcCccee
Confidence 6799999999999999999986
No 94
>PF04895 DUF651: Archaeal protein of unknown function (DUF651); InterPro: IPR006979 This conserved region is found in the C-terminal region of a number of conserved archaeal proteins of unknown function.
Probab=26.24 E-value=51 Score=23.68 Aligned_cols=17 Identities=24% Similarity=0.341 Sum_probs=15.0
Q ss_pred eeecCCHHHHHHHHHHc
Q 036052 65 GLSFDSEEAAREFAERH 81 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~ 81 (115)
-..|+|.++|+.|+...
T Consensus 67 p~~f~~l~eAl~~~~~~ 83 (110)
T PF04895_consen 67 PEKFETLEEALEYVSSR 83 (110)
T ss_pred CcccCCHHHHHHHHHHH
Confidence 57999999999999864
No 95
>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.87 E-value=54 Score=26.33 Aligned_cols=18 Identities=33% Similarity=0.577 Sum_probs=16.3
Q ss_pred CCHHHHHHHHHHcCccEE
Q 036052 69 DSEEAAREFAERHGWEYV 86 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~ 86 (115)
=|+|+-.+||++||+-|-
T Consensus 129 Vs~EEGeaFA~ehgLifm 146 (216)
T KOG0098|consen 129 VSKEEGEAFAREHGLIFM 146 (216)
T ss_pred ccHHHHHHHHHHcCceee
Confidence 478999999999999885
No 96
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=25.84 E-value=84 Score=21.16 Aligned_cols=27 Identities=33% Similarity=0.450 Sum_probs=23.0
Q ss_pred eeecCCHHHHHHHHHHcCccEEEecCC
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRKPH 91 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~p~ 91 (115)
.+..++.+++.+|++++|+.|.+....
T Consensus 62 ~is~d~~~~~~~~~~~~~~~~~~l~D~ 88 (140)
T cd03017 62 GVSPDSVESHAKFAEKYGLPFPLLSDP 88 (140)
T ss_pred EEcCCCHHHHHHHHHHhCCCceEEECC
Confidence 566789999999999999999887643
No 97
>COG2154 Pterin-4a-carbinolamine dehydratase [Coenzyme metabolism]
Probab=25.80 E-value=78 Score=22.48 Aligned_cols=34 Identities=26% Similarity=0.435 Sum_probs=25.3
Q ss_pred CCCCCCccCCCCcccccCCceeecCCHHHHHHHHHH
Q 036052 45 ENPLMGWTSTGDPYANVGDAGLSFDSEEAAREFAER 80 (115)
Q Consensus 45 ~~PLMGWtss~D~~~qv~~~~l~F~skE~Ai~yaek 80 (115)
...|-||.-..|= ..+. ...+|.+-.+|++|.-+
T Consensus 15 l~~l~gW~l~~~~-~~l~-r~f~FknF~~a~~F~~~ 48 (101)
T COG2154 15 LRALPGWELADDG-AKLT-RTFKFKNFKQAIAFVNR 48 (101)
T ss_pred hcCCCCCEEecCc-ceEE-EEEEcCCHHHHHHHHHH
Confidence 3678999999881 1121 37899999999999654
No 98
>PF00764 Arginosuc_synth: Arginosuccinate synthase; InterPro: IPR001518 Argininosuccinate synthase (6.3.4.5 from EC) (AS) is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate [, ]. In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterised by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity.; GO: 0004055 argininosuccinate synthase activity, 0005524 ATP binding, 0006526 arginine biosynthetic process; PDB: 1K97_A 1KP2_A 1K92_A 1KP3_A 2NZ2_A 1VL2_A 1J1Z_D 1KOR_C 1J20_D 1KH2_C ....
Probab=25.38 E-value=49 Score=28.50 Aligned_cols=18 Identities=33% Similarity=0.505 Sum_probs=12.8
Q ss_pred HHHHHHHHHHcCccEEEe
Q 036052 71 EEAAREFAERHGWEYVVR 88 (115)
Q Consensus 71 kE~Ai~yaek~G~~y~V~ 88 (115)
+|+.|+||+++||+..+.
T Consensus 147 R~~~i~ya~~~gIpv~~~ 164 (388)
T PF00764_consen 147 REEEIEYAKKHGIPVPVT 164 (388)
T ss_dssp HHHHHHHHHHTT----SS
T ss_pred HHHHHHHHHHcCCCCCCC
Confidence 999999999999987653
No 99
>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.21 E-value=56 Score=25.49 Aligned_cols=43 Identities=26% Similarity=0.345 Sum_probs=26.8
Q ss_pred CCCCCCccCCCCcccccCCcee-----------ecCCHHHHHHHHHHcCccEEE
Q 036052 45 ENPLMGWTSTGDPYANVGDAGL-----------SFDSEEAAREFAERHGWEYVV 87 (115)
Q Consensus 45 ~~PLMGWtss~D~~~qv~~~~l-----------~F~skE~Ai~yaek~G~~y~V 87 (115)
.|.|..|-..+-.+.+-..+.+ +=-+-|+|-+|||++|+-|--
T Consensus 99 ynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fle 152 (215)
T KOG0097|consen 99 YNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLE 152 (215)
T ss_pred hhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEE
Confidence 3778888766544433210011 113568999999999998853
No 100
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=25.04 E-value=1e+02 Score=19.20 Aligned_cols=23 Identities=9% Similarity=-0.048 Sum_probs=19.3
Q ss_pred cCCHHHHHHHHHHcCccEEEecC
Q 036052 68 FDSEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~V~~p 90 (115)
=.+....+.||++.|++|.|.-.
T Consensus 37 ~~~~~~~~~~a~~~g~~~~iiig 59 (91)
T cd00860 37 NEKLGKKIREAQLQKIPYILVVG 59 (91)
T ss_pred CCCHHHHHHHHHHcCCCEEEEEC
Confidence 35788999999999999987654
No 101
>KOG2741 consensus Dimeric dihydrodiol dehydrogenase [Carbohydrate transport and metabolism; Secondary metabolites biosynthesis, transport and catabolism]
Probab=24.44 E-value=54 Score=28.13 Aligned_cols=20 Identities=40% Similarity=0.488 Sum_probs=17.0
Q ss_pred eeecCCHHHHHHHHHHcCcc
Q 036052 65 GLSFDSEEAAREFAERHGWE 84 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~ 84 (115)
-+.=+|.|-|++||++|+|+
T Consensus 37 ava~~s~~~A~~fAq~~~~~ 56 (351)
T KOG2741|consen 37 AVADPSLERAKEFAQRHNIP 56 (351)
T ss_pred EEecccHHHHHHHHHhcCCC
Confidence 45566999999999999994
No 102
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=24.37 E-value=85 Score=19.33 Aligned_cols=21 Identities=33% Similarity=0.570 Sum_probs=16.9
Q ss_pred CHHHHHHHHHHcCccEEEecC
Q 036052 70 SEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V~~p 90 (115)
+.++-.+||+++|..+.+.+.
T Consensus 37 s~~~i~~~~~~~G~~~~~~~~ 57 (67)
T cd03421 37 AKENVSRFAESRGYEVSVEEK 57 (67)
T ss_pred HHHHHHHHHHHcCCEEEEEec
Confidence 346888999999999977653
No 103
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
Probab=24.14 E-value=89 Score=20.34 Aligned_cols=19 Identities=16% Similarity=0.163 Sum_probs=15.8
Q ss_pred HHHHHHHHcCccEEEecCC
Q 036052 73 AAREFAERHGWEYVVRKPH 91 (115)
Q Consensus 73 ~Ai~yaek~G~~y~V~~p~ 91 (115)
-|..||+++|+..++..|.
T Consensus 48 iA~~wA~~~gv~~~~~~ad 66 (71)
T PF10686_consen 48 IAARWARERGVPVIRFPAD 66 (71)
T ss_pred HHHHHHHHCCCeeEEeCcC
Confidence 4778999999999887654
No 104
>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.14 E-value=58 Score=25.83 Aligned_cols=23 Identities=26% Similarity=0.378 Sum_probs=19.0
Q ss_pred ecCCHHHHHHHHHHcCccEEEec
Q 036052 67 SFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
+--|.++|++.|++.|++|.-..
T Consensus 140 R~Vs~~qa~~La~kyglPYfETS 162 (219)
T KOG0081|consen 140 RVVSEDQAAALADKYGLPYFETS 162 (219)
T ss_pred hhhhHHHHHHHHHHhCCCeeeec
Confidence 45688999999999999996443
No 105
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=23.63 E-value=74 Score=21.56 Aligned_cols=22 Identities=23% Similarity=0.267 Sum_probs=16.2
Q ss_pred CHHHHHHHHHHcCccEEEecCC
Q 036052 70 SEEAAREFAERHGWEYVVRKPH 91 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V~~p~ 91 (115)
|-..|+++.+.+|++|++..-.
T Consensus 8 t~rka~~~L~~~gi~~~~~d~~ 29 (110)
T PF03960_consen 8 TCRKALKWLEENGIEYEFIDYK 29 (110)
T ss_dssp HHHHHHHHHHHTT--EEEEETT
T ss_pred HHHHHHHHHHHcCCCeEeehhh
Confidence 4567999999999999987643
No 106
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=23.58 E-value=92 Score=22.29 Aligned_cols=23 Identities=4% Similarity=0.008 Sum_probs=19.1
Q ss_pred ecCCHHHHHHHHHHcCccEEEec
Q 036052 67 SFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
..=+++|-.+||++.|++|....
T Consensus 145 ~~~~k~eI~~~~~~~~l~~~~~~ 167 (185)
T cd01992 145 LGITRAEIEAYLRENGLPWWEDP 167 (185)
T ss_pred CCCCHHHHHHHHHHcCCCeEECC
Confidence 34589999999999999988653
No 107
>PRK00509 argininosuccinate synthase; Provisional
Probab=23.42 E-value=60 Score=27.96 Aligned_cols=20 Identities=30% Similarity=0.416 Sum_probs=17.1
Q ss_pred ecCCHHHHHHHHHHcCccEE
Q 036052 67 SFDSEEAAREFAERHGWEYV 86 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y~ 86 (115)
.|.||++-++||+++|++..
T Consensus 148 ~~~tK~eir~~A~~~Gipv~ 167 (399)
T PRK00509 148 DLKSREELIAYAEEHGIPIP 167 (399)
T ss_pred CCCCHHHHHHHHHHcCCCCC
Confidence 45599999999999999753
No 108
>TIGR01004 PulS_OutS lipoprotein, PulS/OutS family. This family comprises lipoproteins from four gamma proteobacterial species: PulS protein of Klebsiella pneumoniae, the OutS protein of Erwinia chrysanthemi and Pectobacterium chrysanthemi, and the functionally uncharacterized E. coli protein EtpO. PulS and OutS have been shown to interact with and facilitate insertion of secretins into the outer membrane, suggesting a chaperone-like, or piloting function for members of this family.
Probab=23.34 E-value=55 Score=24.33 Aligned_cols=14 Identities=29% Similarity=0.522 Sum_probs=12.0
Q ss_pred HHHHHHHHcCccEE
Q 036052 73 AAREFAERHGWEYV 86 (115)
Q Consensus 73 ~Ai~yaek~G~~y~ 86 (115)
.||.||+.+||+-.
T Consensus 70 aai~~A~~~gWd~~ 83 (128)
T TIGR01004 70 TANNVAIGKGWDSG 83 (128)
T ss_pred HHHHHHHHcCCchh
Confidence 79999999999643
No 109
>COG4100 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]
Probab=23.23 E-value=68 Score=27.80 Aligned_cols=16 Identities=25% Similarity=0.451 Sum_probs=14.7
Q ss_pred eeecCCHHHHHHHHHH
Q 036052 65 GLSFDSEEAAREFAER 80 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek 80 (115)
.++|.|+|.-|+||+.
T Consensus 325 avkf~~~eKmIaFcqa 340 (416)
T COG4100 325 AVKFGSKEKMIAFCQA 340 (416)
T ss_pred heecCCHHHHHHHHHH
Confidence 5799999999999986
No 110
>PF05389 MecA: Negative regulator of genetic competence (MecA); InterPro: IPR008681 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. This family contains several bacterial MecA proteins. In complex media competence development is poor, and there is little or no expression of late competence genes. Overexpression of MecA inhibits comG transcription [, , ]. MecA enables the recognition and targeting of unfolded and aggregated proteins to the ClpC protease or to other proteins involved in proteolysis. Acts negatively in the development of competence by binding ComK and recruiting it to the ClpCP protease. When overexpressed, inhibits sporulation. Also involved in Spx degradation by ClpC. ; PDB: 3JTP_C 2Y1R_O 3PXI_c 3PXG_b 3JTO_D 3JTN_A.
Probab=23.23 E-value=49 Score=25.41 Aligned_cols=19 Identities=26% Similarity=0.214 Sum_probs=17.0
Q ss_pred eeecCCHHHHHHHHHHcCc
Q 036052 65 GLSFDSEEAAREFAERHGW 83 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~ 83 (115)
.+.|++.|++|.+|+...-
T Consensus 133 v~~F~dfedvI~la~~l~~ 151 (220)
T PF05389_consen 133 VFEFDDFEDVIQLAKRLQD 151 (220)
T ss_dssp EEEESSHHHHHHHHCHCCH
T ss_pred EEEcCCHHHHHHHHhhccc
Confidence 6899999999999998754
No 111
>PRK06746 peptide chain release factor 2; Provisional
Probab=23.22 E-value=63 Score=27.30 Aligned_cols=16 Identities=19% Similarity=0.353 Sum_probs=13.8
Q ss_pred HHHHHHcCccEEEecC
Q 036052 75 REFAERHGWEYVVRKP 90 (115)
Q Consensus 75 i~yaek~G~~y~V~~p 90 (115)
..||+++||+++|.+-
T Consensus 113 ~r~a~~~g~~~evi~~ 128 (326)
T PRK06746 113 TRWAEKRGFKVETVDY 128 (326)
T ss_pred HHHHHHcCCEEEEEec
Confidence 4699999999999763
No 112
>PF00059 Lectin_C: Lectin C-type domain; InterPro: IPR001304 Lectins occur in plants, animals, bacteria and viruses. Initially described for their carbohydrate-binding activity [], they are now recognised as a more diverse group of proteins, some of which are involved in protein-protein, protein-lipid or protein-nucleic acid interactions []. There are at least twelve structural families of lectins: C-type lectins, which are Ca+-dependent. S-type (galectins), a widespread family of glycan-binding proteins []. I-type, which have an immunoglobulin-like fold and can recognise sialic acids, other sugars and glycosaminoglycans []. P-type, which bind phosphomannosyl receptors []. Pentraxins []. (Trout) egg lectins. Calreticulin and calnexin, which act as molecular chaperones of the endoplasmic reticulum []. ERGIC-53 and VIP-36 []. Discoidins []. Eel aggutinins (fucolectins) []. Annexin lectins []. Fibrinogen-type lectins, which includes ficolins, tachylectins 5A and 5B, and Limax flavus (Spotted garden slug) agglutinin (these proteins have clear distinctions from one another, but they share a homologous fibrinogen-like domain used for carbohydrate binding). Also unclassified orphan lectins, including amphoterin, Cel-II, complement factor H, thrombospondin, sailic acid-binding lectins, adherence lectin, and cytokins (such as tumour necrosis factor and several interleukins). C-type lectins can be further divided into seven subgroups based on additional non-lectin domains and gene structure: (I) hyalectans, (II) asialoglycoprotein receptors, (III) collectins, (IV) selectins, (V) NK group transmembrane receptors, (VI) macrophage mannose receptors, and (VII) simple (single domain) lectins []. Therefore, lectins are a diverse group of proteins, both in terms of structure and activity. Carbohydrate binding ability may have evolved independently and sporadically in numerous unrelated families, where each evolved a structure that was conserved to fulfil some other activity and function. In general, animal lectins act as recognition molecules within the immune system, their functions involving defence against pathogens, cell trafficking, immune regulation and the prevention of autoimmunity [].; GO: 0005488 binding; PDB: 1T8D_A 2H2T_B 1T8C_A 2H2R_A 1TN3_A 1RJH_A 1HTN_A 3G8K_B 2E3X_B 1UMR_D ....
Probab=23.11 E-value=58 Score=20.16 Aligned_cols=20 Identities=15% Similarity=0.220 Sum_probs=13.9
Q ss_pred CHHHHHHHHHHcCccEEEec
Q 036052 70 SEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V~~ 89 (115)
|-++|..+|+++|=..-+..
T Consensus 4 ~~~~A~~~C~~~~~~L~~i~ 23 (105)
T PF00059_consen 4 TWEEAQQYCQSMGAHLASIN 23 (105)
T ss_dssp EHHHHHHHHHHTTSEEB-GS
T ss_pred CHHHHHHHHhcCCCEEeEeC
Confidence 34789999999876654443
No 113
>PRK12354 carbamate kinase; Reviewed
Probab=23.10 E-value=76 Score=26.46 Aligned_cols=22 Identities=23% Similarity=0.404 Sum_probs=19.3
Q ss_pred ecCCHHHHHHHHHHcCccEEEe
Q 036052 67 SFDSEEAAREFAERHGWEYVVR 88 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y~V~ 88 (115)
.|-|+|+|.+.++++||.+...
T Consensus 125 ~~y~~~~a~~~~~e~g~~~~~d 146 (307)
T PRK12354 125 PVYDEAEAERLAAEKGWTIKPD 146 (307)
T ss_pred cccCHHHHHHHHHhcCCEEeec
Confidence 5899999999999999976655
No 114
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=23.05 E-value=72 Score=21.59 Aligned_cols=22 Identities=18% Similarity=0.172 Sum_probs=18.8
Q ss_pred CCHHHHHHHHHHcCccEEEecC
Q 036052 69 DSEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~~p 90 (115)
++.++..+|++++|+.|.+...
T Consensus 71 ~~~~~~~~~~~~~~~~~p~~~D 92 (126)
T cd03012 71 RDLANVKSAVLRYGITYPVAND 92 (126)
T ss_pred cCHHHHHHHHHHcCCCCCEEEC
Confidence 5689999999999999987653
No 115
>COG1979 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]
Probab=22.96 E-value=51 Score=28.55 Aligned_cols=22 Identities=9% Similarity=0.270 Sum_probs=19.5
Q ss_pred ecCCHHHHHHHHHHcCccEEEe
Q 036052 67 SFDSEEAAREFAERHGWEYVVR 88 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y~V~ 88 (115)
++.|...||+.|+++|++|.+-
T Consensus 70 ~~~Tv~kaV~i~kee~idflLA 91 (384)
T COG1979 70 RLETLMKAVEICKEENIDFLLA 91 (384)
T ss_pred hHHHHHHHHHHHHHcCceEEEE
Confidence 5678999999999999999874
No 116
>cd03412 CbiK_N Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=22.94 E-value=1e+02 Score=21.73 Aligned_cols=27 Identities=19% Similarity=0.260 Sum_probs=23.8
Q ss_pred eecCCHHHHHHHHHHcCccEEEecCCC
Q 036052 66 LSFDSEEAAREFAERHGWEYVVRKPHR 92 (115)
Q Consensus 66 l~F~skE~Ai~yaek~G~~y~V~~p~~ 92 (115)
+.++|.++|++-+.++|+.=.+..|--
T Consensus 53 ~~~p~~~eaL~~l~~~G~~~V~V~Pl~ 79 (127)
T cd03412 53 IEVDTPEEALAKLAADGYTEVIVQSLH 79 (127)
T ss_pred CCCCCHHHHHHHHHHCCCCEEEEEeCe
Confidence 568999999999999999988887764
No 117
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=22.89 E-value=76 Score=21.29 Aligned_cols=28 Identities=18% Similarity=0.291 Sum_probs=23.2
Q ss_pred eeecCCHHHHHHHHHHcCccEEEecCCC
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRKPHR 92 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~p~~ 92 (115)
-+.+.+.+.+.+||+..+|++.|.....
T Consensus 18 ~I~~g~~~~~~~f~~~~~~p~~ly~D~~ 45 (115)
T PF13911_consen 18 VIGCGSPEGIEKFCELTGFPFPLYVDPE 45 (115)
T ss_pred EEEcCCHHHHHHHHhccCCCCcEEEeCc
Confidence 4668999889999999999999765444
No 118
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=22.70 E-value=46 Score=23.73 Aligned_cols=14 Identities=21% Similarity=0.437 Sum_probs=11.3
Q ss_pred HHHHHHcCccEEEe
Q 036052 75 REFAERHGWEYVVR 88 (115)
Q Consensus 75 i~yaek~G~~y~V~ 88 (115)
-+||+++|+++.-.
T Consensus 48 ~aYc~r~Gl~~~s~ 61 (99)
T KOG1769|consen 48 KAYCERQGLSMNSL 61 (99)
T ss_pred HHHHHHcCCccceE
Confidence 48999999988543
No 119
>PF11387 DUF2795: Protein of unknown function (DUF2795); InterPro: IPR021527 This family of proteins has no known function.
Probab=22.69 E-value=91 Score=18.52 Aligned_cols=23 Identities=17% Similarity=0.205 Sum_probs=18.2
Q ss_pred ec-CCHHHHHHHHHHcCccEEEec
Q 036052 67 SF-DSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 67 ~F-~skE~Ai~yaek~G~~y~V~~ 89 (115)
.| .||++=|++|+++|.+=.|..
T Consensus 5 dyPa~k~~Lv~~A~~~gA~~~vl~ 28 (44)
T PF11387_consen 5 DYPADKDELVRHARRNGAPDDVLD 28 (44)
T ss_pred CCCCCHHHHHHHHHHcCCCHHHHH
Confidence 44 489999999999998766543
No 120
>COG5079 SAC3 Nuclear protein export factor [Intracellular trafficking and secretion / Cell division and chromosome partitioning]
Probab=22.68 E-value=49 Score=30.31 Aligned_cols=25 Identities=24% Similarity=0.405 Sum_probs=22.3
Q ss_pred eeecCCHHHHHHHHHHcCccEEEec
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
.|.|+++++++.||+-+|++..+..
T Consensus 356 il~f~~~~e~~efckyy~lei~~ed 380 (646)
T COG5079 356 ILDFEEKGEGEEFCKYYGLEIRIED 380 (646)
T ss_pred hccccccchhHHHhhhcceeeeccc
Confidence 6899999999999999999987554
No 121
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=22.56 E-value=82 Score=19.73 Aligned_cols=23 Identities=17% Similarity=0.333 Sum_probs=19.5
Q ss_pred ecCCHHHHHHHHHHcCccEEEec
Q 036052 67 SFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 67 ~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
...+.++-|++|+.+|+++...+
T Consensus 23 ~~~~~e~~~~lA~~~Gf~ft~~e 45 (64)
T TIGR03798 23 AAEDPEDRVAIAKEAGFEFTGED 45 (64)
T ss_pred HcCCHHHHHHHHHHcCCCCCHHH
Confidence 46789999999999999987654
No 122
>cd06575 PASTA_Pbp2x-like_2 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by acylating the active site serine. PBPs catalyze key steps in the synthesis of the peptidoglycan, such as the interconnecting of glycan chains (polymers of N-glucosamine and N-acetylmuramic acid residues) and the cross-linking (transpeptidation) of short stem peptides, which are attached to glycan chains. Peptidoglycan is essential in cell division and protects bacteria from osmotic shock and lysis. PBP2x is one of the two monofunctional high molecular mass PBPs in Streptococcus pneumoniae and has been seen as the primary PBP target in beta-lactam-resistant strains. The PASTA domain is found at the C-termini of several PBPs and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine
Probab=22.52 E-value=1.3e+02 Score=16.48 Aligned_cols=21 Identities=19% Similarity=0.052 Sum_probs=18.2
Q ss_pred CCHHHHHHHHHHcCccEEEec
Q 036052 69 DSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~~ 89 (115)
.+.++|.+..++.|+.+.+..
T Consensus 8 ~~~~~a~~~l~~~g~~~~~~~ 28 (54)
T cd06575 8 WSKRDALKLLELLGLKVKFSG 28 (54)
T ss_pred CCHHHHHHHHHHCCCeEEEee
Confidence 588999999999999987754
No 123
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=22.43 E-value=1.1e+02 Score=25.01 Aligned_cols=27 Identities=7% Similarity=-0.043 Sum_probs=23.3
Q ss_pred eeecCCHHHHHHHHHHcCccEEEecCC
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRKPH 91 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~p~ 91 (115)
.+-..++.+|..+|+++|+++.+...+
T Consensus 124 ~~visn~~~~~~~A~~~gIp~~~~~~~ 150 (289)
T PRK13010 124 VGIISNHPDLQPLAVQHDIPFHHLPVT 150 (289)
T ss_pred EEEEECChhHHHHHHHcCCCEEEeCCC
Confidence 677889999999999999999986543
No 124
>COG5495 Uncharacterized conserved protein [Function unknown]
Probab=22.33 E-value=14 Score=30.73 Aligned_cols=62 Identities=13% Similarity=0.092 Sum_probs=46.6
Q ss_pred CCCCCCCCccCCCCcccccCCceeecCCHHHHHH------HHHHcCccEEEecCCCCc--CCCccccccCC
Q 036052 43 KWENPLMGWTSTGDPYANVGDAGLSFDSEEAARE------FAERHGWEYVVRKPHRPL--LNVKSYAEHFK 105 (115)
Q Consensus 43 ~~~~PLMGWtss~D~~~qv~~~~l~F~skE~Ai~------yaek~G~~y~V~~p~~~~--~~~ksYadNF~ 105 (115)
--+.|+|-.+|+.|-++++-+ ...|-++.|++- .++++|=+|-+..+..|+ +-.-.|+.||-
T Consensus 118 asiHP~f~Fsgl~edl~rl~d-~~~~i~eaD~~g~ai~q~la~emgg~~f~V~~~~r~lYHaaa~~asnf~ 187 (289)
T COG5495 118 ASIHPAFSFSGLDEDLSRLKD-TIFGITEADDVGYAIVQSLALEMGGEPFCVREEARILYHAAAVHASNFI 187 (289)
T ss_pred eeecccccccCCHHHHHhCcc-cEEEeecccccccHHHHHHHHHhCCCceeechhHHHHHHHHHHHhhccH
Confidence 457999999999998887755 566777777654 467888888777766653 56668888883
No 125
>TIGR03748 conj_PilL conjugative transfer region protein, TIGR03748 family. This model describes the conserved N-terminal region of a variable length protein family associated with laterally transfered regions flanked by markers of conjugative plasmid integration and/or transposition. Most members of the family have the lipoprotein signal peptide motif. A member of the family from a pathogenicity island in Salmonella enterica serovar Dublin strain was designated PilL for nomenclature consistency with a neighboring gene for the pilin structural protein PilS. However, the species distribution of this protein family tracks much better with markers of conjugal transfer than with markers of PilS-like pilin structure.
Probab=22.02 E-value=79 Score=22.64 Aligned_cols=29 Identities=17% Similarity=0.286 Sum_probs=22.3
Q ss_pred CCcccccCCceeecC-----CHHHHHHHHHH-cCccE
Q 036052 55 GDPYANVGDAGLSFD-----SEEAAREFAER-HGWEY 85 (115)
Q Consensus 55 ~D~~~qv~~~~l~F~-----skE~Ai~yaek-~G~~y 85 (115)
-||+.|+ ..+.|+ |-.||+.|.-+ -|+..
T Consensus 18 ~dpL~qv--v~v~~P~~~~~TVGdAl~~~L~~SGY~L 52 (105)
T TIGR03748 18 RDLLNQV--IDITIPPSLVATVGDALRYLLRRSGYSL 52 (105)
T ss_pred hChHhhe--eEEECCccccCCHHHHHHHHHHccCcCc
Confidence 5788888 589999 99999999854 45443
No 126
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=21.86 E-value=77 Score=26.01 Aligned_cols=19 Identities=16% Similarity=0.170 Sum_probs=14.2
Q ss_pred CHHHHHHHHHHcCccEEEe
Q 036052 70 SEEAAREFAERHGWEYVVR 88 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V~ 88 (115)
+--+||-||+++|..-++-
T Consensus 177 ntieAvlyCk~~gvgaY~G 195 (248)
T PF07476_consen 177 NTIEAVLYCKEHGVGAYLG 195 (248)
T ss_dssp HHHHHHHHHHHTT-EEEE-
T ss_pred hHHHHHHHHHhcCCceeec
Confidence 3468999999999987763
No 127
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=21.74 E-value=1.3e+02 Score=18.18 Aligned_cols=20 Identities=20% Similarity=0.303 Sum_probs=17.1
Q ss_pred CHHHHHHHHHHcCccEEEec
Q 036052 70 SEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V~~ 89 (115)
+....+.||++.|+.+.|.-
T Consensus 39 ~~~~~~~~a~~~~~~~~i~i 58 (91)
T cd00859 39 KLKKQFKYADRSGARFAVIL 58 (91)
T ss_pred CHHHHHHHHHHcCCCEEEEE
Confidence 67899999999999986654
No 128
>smart00633 Glyco_10 Glycosyl hydrolase family 10.
Probab=21.40 E-value=93 Score=24.16 Aligned_cols=21 Identities=24% Similarity=0.479 Sum_probs=19.1
Q ss_pred eeecCCHHHHHHHHHHcCccE
Q 036052 65 GLSFDSEEAAREFAERHGWEY 85 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y 85 (115)
+..|...++++++|+++|+.+
T Consensus 12 ~~n~~~~D~~~~~a~~~gi~v 32 (254)
T smart00633 12 QFNFSGADAIVNFAKENGIKV 32 (254)
T ss_pred ccChHHHHHHHHHHHHCCCEE
Confidence 568999999999999999996
No 129
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. 2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=21.29 E-value=1.3e+02 Score=20.87 Aligned_cols=24 Identities=17% Similarity=0.123 Sum_probs=18.9
Q ss_pred eeecCCHHHHHHHHHHcCccEEEec
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
+..|.+.+ ..++++++|+..+|..
T Consensus 63 ~~~~~~~~-~~~~l~~~gI~vE~m~ 86 (109)
T cd00248 63 EIAFLPRA-LRAALRAAGIGVEVMS 86 (109)
T ss_pred CCCcCCHH-HHHHHHHcCCeEEEeC
Confidence 34677765 6788999999999975
No 130
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=21.16 E-value=1e+02 Score=22.25 Aligned_cols=21 Identities=14% Similarity=0.283 Sum_probs=17.7
Q ss_pred CHHHHHHHHHHcCccEEEecC
Q 036052 70 SEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V~~p 90 (115)
..+.|..+|+..|+++.+..-
T Consensus 46 ~~~~~~~~~~~~gi~~~~~~~ 66 (189)
T TIGR02432 46 EAEFVQQFCKKLNIPLEIKKV 66 (189)
T ss_pred HHHHHHHHHHHcCCCEEEEEe
Confidence 368899999999999988653
No 131
>smart00034 CLECT C-type lectin (CTL) or carbohydrate-recognition domain (CRD). Many of these domains function as calcium-dependent carbohydrate binding modules.
Probab=21.06 E-value=85 Score=19.97 Aligned_cols=20 Identities=15% Similarity=0.144 Sum_probs=15.0
Q ss_pred CCHHHHHHHHHHcCccEEEe
Q 036052 69 DSEEAAREFAERHGWEYVVR 88 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~ 88 (115)
.+-++|.++|+++|=.....
T Consensus 20 ~~~~~A~~~C~~~~~~La~i 39 (126)
T smart00034 20 KTWADAQAFCQSLGAHLASI 39 (126)
T ss_pred cCHHHHHHHHHhcCCEEccc
Confidence 67789999999998544433
No 132
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=20.92 E-value=98 Score=17.85 Aligned_cols=17 Identities=24% Similarity=0.630 Sum_probs=14.1
Q ss_pred CHHHHHHHHHHcCccEE
Q 036052 70 SEEAAREFAERHGWEYV 86 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~ 86 (115)
+.+.|+.|-++++|+.+
T Consensus 14 ~~~~A~~~L~~~~wdle 30 (43)
T PF14555_consen 14 DEDVAIQYLEANNWDLE 30 (43)
T ss_dssp SHHHHHHHHHHTTT-HH
T ss_pred CHHHHHHHHHHcCCCHH
Confidence 77999999999999853
No 133
>PF02811 PHP: PHP domain; InterPro: IPR004013 The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain. This family is often associated with an N-terminal region IPR003141 from INTERPRO.; GO: 0003824 catalytic activity; PDB: 2WJE_A 3QY8_A 2WJD_A 2WJF_A 1PB0_B 1M68_A 1M65_A 3E38_B 2W9M_A 3E0F_A ....
Probab=20.86 E-value=93 Score=21.52 Aligned_cols=23 Identities=30% Similarity=0.349 Sum_probs=20.7
Q ss_pred CCHHHHHHHHHHcCccEEEecCC
Q 036052 69 DSEEAAREFAERHGWEYVVRKPH 91 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~~p~ 91 (115)
.|.|+.|+.|+++|++......+
T Consensus 16 ~~~~e~v~~A~~~Gl~~i~iTDH 38 (175)
T PF02811_consen 16 DSPEEYVEQAKEKGLDAIAITDH 38 (175)
T ss_dssp SSHHHHHHHHHHTTESEEEEEEE
T ss_pred CCHHHHHHHHHHcCCCEEEEcCC
Confidence 48999999999999999888776
No 134
>cd07415 MPP_PP2A_PP4_PP6 PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain. PP2A-like family of phosphoprotein phosphatases (PPP's) including PP4 and PP6. PP2A (Protein phosphatase 2A) is a critical regulator of many cellular activities. PP2A comprises about 1% of total cellular proteins. PP2A, together with protein phosphatase 1 (PP1), accounts for more than 90% of all serine/threonine phosphatase activities in most cells and tissues. The PP2A subunit in addition to having a catalytic domain homologous to PP1, has a unique C-terminal tail, containing a motif that is conserved in the catalytic subunits of all PP2A-like phosphatases including PP4 and PP6, and has an important role in PP2A regulation. The PP2A-like family of phosphatases all share a similar heterotrimeric architecture, that includes: a 65kDa scaffolding subunit (A), a 36kDa catalytic subunit (C), and one of 18 regulatory subunits (B). The PPP (phosphoprotein phosphatase) family, to which PP2
Probab=20.73 E-value=1.9e+02 Score=23.41 Aligned_cols=24 Identities=25% Similarity=0.584 Sum_probs=20.2
Q ss_pred eeecCCHHHHHHHHHHcCccEEEec
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
...|. .+++.+|++++|+++.|..
T Consensus 209 g~~fg-~~~~~~Fl~~n~l~~iiR~ 232 (285)
T cd07415 209 GYLFG-QDVVEEFNHNNGLTLICRA 232 (285)
T ss_pred ccccC-HHHHHHHHHHCCCeEEEEc
Confidence 45665 7899999999999999865
No 135
>PRK00578 prfB peptide chain release factor 2; Validated
Probab=20.62 E-value=76 Score=27.13 Aligned_cols=17 Identities=35% Similarity=0.497 Sum_probs=14.3
Q ss_pred HHHHHHcCccEEEecCC
Q 036052 75 REFAERHGWEYVVRKPH 91 (115)
Q Consensus 75 i~yaek~G~~y~V~~p~ 91 (115)
.+||+++||+++|.+-.
T Consensus 151 ~~~a~~~g~~~evi~~~ 167 (367)
T PRK00578 151 LRWAERHGFKVEVLDYS 167 (367)
T ss_pred HHHHHHcCCEEEEEecC
Confidence 57999999999997743
No 136
>PRK03353 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=20.61 E-value=92 Score=24.61 Aligned_cols=18 Identities=17% Similarity=0.272 Sum_probs=15.8
Q ss_pred cCCHHHHHHHHHHcCccE
Q 036052 68 FDSEEAAREFAERHGWEY 85 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y 85 (115)
...++++++||++||+.+
T Consensus 182 ~~~~~~~~~fA~~~~l~~ 199 (217)
T PRK03353 182 MARAPECIAFAKQHNMPV 199 (217)
T ss_pred cccHHHHHHHHHHcCCcE
Confidence 346899999999999998
No 137
>PLN02626 malate synthase
Probab=20.57 E-value=41 Score=30.46 Aligned_cols=46 Identities=28% Similarity=0.490 Sum_probs=35.4
Q ss_pred CCCCcccccCCeEEEecCCC-----CCCCCCCCCCCCcEEEccCC--CCCCCCCCC
Q 036052 2 VSGIPEEHLRRRVVIYTPAR-----TATQQGSGKIGRWKINFMSK--QKWENPLMG 50 (115)
Q Consensus 2 vsg~P~~~~~r~vrIy~pak-----~amQSG~~~t~~W~lefe~~--~~~~~PLMG 50 (115)
|..+|.++..|+|-|--|.- ||+.|| .+.|..|||.. +.|.|-+-|
T Consensus 81 va~~p~~L~dRrvEItgP~drkm~inalNSg---a~~~maDfEDs~sPtW~n~i~G 133 (551)
T PLN02626 81 CAPVPPAVADRRVEITGPVERKMVINALNSG---AKVFMADFEDSLSPTWENLMRG 133 (551)
T ss_pred eCCCChhhccceeeecCCCcHHHHHHHHcCC---CCEEEecCCccCCCcchhHHHH
Confidence 46789999999999987762 566665 36799999975 688776655
No 138
>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]
Probab=20.57 E-value=91 Score=24.83 Aligned_cols=20 Identities=30% Similarity=0.524 Sum_probs=17.4
Q ss_pred CHHHHHHHHHHcCccEEEec
Q 036052 70 SEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V~~ 89 (115)
|.|+|..||+.+|..|.=..
T Consensus 135 t~EEaEklAa~hgM~FVETS 154 (213)
T KOG0091|consen 135 TAEEAEKLAASHGMAFVETS 154 (213)
T ss_pred cHHHHHHHHHhcCceEEEec
Confidence 89999999999999996443
No 139
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=20.56 E-value=1.4e+02 Score=19.07 Aligned_cols=22 Identities=14% Similarity=0.227 Sum_probs=18.4
Q ss_pred cCCHHHHHHHHHHcCccEEEec
Q 036052 68 FDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~V~~ 89 (115)
-.+.-..+.+|++.|++|.|.-
T Consensus 38 ~~~~~k~~~~a~~~g~p~~iii 59 (94)
T PF03129_consen 38 DKSLGKQIKYADKLGIPFIIII 59 (94)
T ss_dssp SSTHHHHHHHHHHTTESEEEEE
T ss_pred CCchhHHHHHHhhcCCeEEEEE
Confidence 3467789999999999998854
No 140
>cd03593 CLECT_NK_receptors_like C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs). CLECT_NK_receptors_like: C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs), including proteins similar to oxidized low density lipoprotein (OxLDL) receptor (LOX-1), CD94, CD69, NKG2-A and -D, osteoclast inhibitory lectin (OCIL), dendritic cell-associated C-type lectin-1 (dectin-1), human myeloid inhibitory C-type lectin-like receptor (MICL), mast cell-associated functional antigen (MAFA), killer cell lectin-like receptors: subfamily F, member 1 (KLRF1) and subfamily B, member 1 (KLRB1), and lys49 receptors. CTLD refers to a domain homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins. NKRs are variously associated with activation or inhibition of natural killer (NK) cells. Activating NKRs stimulate cytolysis by NK cells of virally infected or transformed cells; inhibitory NKRs block cytolysis up
Probab=20.50 E-value=83 Score=20.50 Aligned_cols=21 Identities=5% Similarity=0.007 Sum_probs=16.1
Q ss_pred CCHHHHHHHHHHcCccEEEec
Q 036052 69 DSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~~ 89 (115)
.|=.+|..+|+++|=...++.
T Consensus 20 ~~w~~A~~~C~~~g~~La~i~ 40 (116)
T cd03593 20 KTWNESKEACSSKNSSLLKID 40 (116)
T ss_pred CCHHHHHHHHHhCCCcEEEEC
Confidence 467889999999997765544
No 141
>TIGR01344 malate_syn_A malate synthase A. This model represents plant malate synthase and one of two bacterial forms, designated malate synthase A. The distantly related malate synthase G is described by a separate model. This enzyme and isocitrate lyase are the two characteristic enzymes of the glyoxylate shunt. The shunt enables the cell to use acetyl-CoA to generate increased levels of TCA cycle intermediates for biosynthetic pathways such as gluconeogenesis.
Probab=20.41 E-value=53 Score=29.37 Aligned_cols=42 Identities=29% Similarity=0.514 Sum_probs=32.2
Q ss_pred CCCCcccccCCeEEEecCCCCCC-----CCCCCCCCCcEEEccCC--CCCCC
Q 036052 2 VSGIPEEHLRRRVVIYTPARTAT-----QQGSGKIGRWKINFMSK--QKWEN 46 (115)
Q Consensus 2 vsg~P~~~~~r~vrIy~pak~am-----QSG~~~t~~W~lefe~~--~~~~~ 46 (115)
|..+|.++..|+|-||-|.-.-| .|| .+.|.+|||.. +.|.|
T Consensus 57 va~~p~~l~~RRveitgP~d~km~inAlnsg---ad~~m~D~EDa~aPtwkn 105 (511)
T TIGR01344 57 IAPIPPDLQDRRVEITGPVDRKMVINALNAG---AKVFMADFEDSSSPTWEN 105 (511)
T ss_pred cCCCChhhcCCeeEEeCCCCHHHHHHHhcCC---CCEEEeCcccCCCCCchh
Confidence 56788999999999999984333 343 47799999975 68877
No 142
>cd03592 CLECT_selectins_like C-type lectin-like domain (CTLD) of the type found in the type 1 transmembrane proteins: P(platlet)-, E(endothelial)-, and L(leukocyte)- selectins (sels). CLECT_selectins_like: C-type lectin-like domain (CTLD) of the type found in the type 1 transmembrane proteins: P(platlet)-, E(endothelial)-, and L(leukocyte)- selectins (sels). CTLD refers to a domain homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins. P- E- and L-sels are cell adhesion receptors that mediate the initial attachment, tethering, and rolling of lymphocytes on inflamed vascular walls enabling subsequent lymphocyte adhesion and transmigration. L- sel is expressed constitutively on most leukocytes. P-sel is stored in the Weibel-Palade bodies of endothelial cells and in the alpha granules of platlets. E- sels are present on endothelial cells. Following platelet and/or endothelial cell activation P- sel is rapidly translocated to the cell surface and E-sel exp
Probab=20.38 E-value=82 Score=20.82 Aligned_cols=19 Identities=16% Similarity=0.240 Sum_probs=14.4
Q ss_pred CCHHHHHHHHHHcCccEEE
Q 036052 69 DSEEAAREFAERHGWEYVV 87 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V 87 (115)
.|=++|.+||+++|-....
T Consensus 10 ~~w~~A~~~C~~~g~~La~ 28 (115)
T cd03592 10 MTFNEAVKYCKSRGTDLVA 28 (115)
T ss_pred cCHHHHHHHHHHcCCeEee
Confidence 3557899999999965544
No 143
>KOG0369 consensus Pyruvate carboxylase [Energy production and conversion]
Probab=20.38 E-value=90 Score=29.95 Aligned_cols=23 Identities=22% Similarity=0.401 Sum_probs=19.9
Q ss_pred cCCHHHHHHHHHHcCccEEEecC
Q 036052 68 FDSEEAAREFAERHGWEYVVRKP 90 (115)
Q Consensus 68 F~skE~Ai~yaek~G~~y~V~~p 90 (115)
..|.|+|++||+++|++..+...
T Consensus 170 itt~~EA~eF~k~yG~PvI~KAA 192 (1176)
T KOG0369|consen 170 ITTVEEALEFVKEYGLPVIIKAA 192 (1176)
T ss_pred cccHHHHHHHHHhcCCcEEEeec
Confidence 46899999999999999888653
No 144
>cd08578 GDPD_NUC-2_fungi Putative glycerophosphodiester phosphodiesterase domain of ankyrin repeat protein NUC-2 and similar proteins. This subfamily corresponds to a putative glycerophosphodiester phosphodiesterase domain (GDPD) present in Neurospora crassa ankyrin repeat protein NUC-2 and its Saccharomyces cerevisiae counterpart, Phosphate system positive regulatory protein PHO81. Some uncharecaterized NUC-2 sequence homologs are also included in this family. NUC-2 plays an important role in the phosphate-regulated signal transduction pathway in Neurospora crassa. It shows high similarity to a cyclin-dependent kinase inhibitory protein PHO81, which is part of the phosphate regulatory cascade in S. cerevisiae. Both NUC-2 and PHO81 have multi-domain architecture, including an SPX N-terminal domain following by several ankyrin repeats and a putative C-terminal GDPD domain with unknown function. Although the putative GDPD domain displays sequence homology to that of bacterial glycerophos
Probab=20.35 E-value=71 Score=26.26 Aligned_cols=24 Identities=17% Similarity=0.044 Sum_probs=19.2
Q ss_pred eecCCHHHHHHHHHHcCccEEEec
Q 036052 66 LSFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 66 l~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
.+=.|.++||.||..+|+-=.|..
T Consensus 226 ~r~~Si~~Av~fA~~~nL~Giv~~ 249 (300)
T cd08578 226 PRSRSIKEAVRFAKNNNLLGLILP 249 (300)
T ss_pred chhhhHHHHHHHHHHcCCcEEEec
Confidence 455689999999999998766654
No 145
>PF05159 Capsule_synth: Capsule polysaccharide biosynthesis protein; InterPro: IPR007833 This family includes export proteins involved in capsule polysaccharide biosynthesis, such as KpsS P42218 from SWISSPROT and LipB P57038 from SWISSPROT. Capsule polysaccharide modification protein lipB/A is involved in the phospholipid modification of the capsular polysaccharide and is a strong requirement for its translocation to the cell surface. The capsule of Neisseria meningitidis serogroup B and of other meningococcal serogroups and other Gram-negative bacterial pathogens, are anchored in the outer membrane through a 1,2-diacylglycerol moiety. The lipA and lipB genes are located on the 3' end of the ctr operon. lipA and lipB do not encode proteins responsible for diacylglycerophosphatidic acid substitution of the meningococcal capsule polymer, but they are required for proper translocation and surface expression of the lipidated polymer []. KpsS is an unusual sulphate-modified form of the capsular polysaccharide in Rhizobium loti (Mesorhizobium loti). Many plants, including R. loti, enter into symbiotic relationships with bacteria that allow survival in nutrient-limiting environments. KpsS functions as a fucosyl sulphotransferase in vitro. The kpsS gene product shares no significant amino acid similarity with previously identified sulphotransferases []. Sulphated cell surface polysaccharides are required for optimum nodule formation but limit growth rate and nodule colonisation in M. loti [].; GO: 0000271 polysaccharide biosynthetic process, 0015774 polysaccharide transport
Probab=20.23 E-value=1e+02 Score=23.86 Aligned_cols=23 Identities=22% Similarity=0.128 Sum_probs=18.6
Q ss_pred CCHHHHHHHHHHcCccEEEecCC
Q 036052 69 DSEEAAREFAERHGWEYVVRKPH 91 (115)
Q Consensus 69 ~skE~Ai~yaek~G~~y~V~~p~ 91 (115)
.....|+..|+++|+++.+.|.-
T Consensus 11 ~~~~~~~~~a~~~~i~~~~~E~G 33 (269)
T PF05159_consen 11 PYHRAAIEVAKELGIPVIFFEDG 33 (269)
T ss_pred cHHHHHHHHHHHhCCCEEEEecC
Confidence 34457889999999999998844
No 146
>cd02977 ArsC_family Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX), through a single catalytic cysteine. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases. Spx is a general regulator that exerts negative and positive control over transcription initiation by binding to the C-terminal domain of the alpha subunit of RNA polymerase.
Probab=20.20 E-value=93 Score=20.71 Aligned_cols=22 Identities=27% Similarity=0.332 Sum_probs=18.1
Q ss_pred CHHHHHHHHHHcCccEEEecCC
Q 036052 70 SEEAAREFAERHGWEYVVRKPH 91 (115)
Q Consensus 70 skE~Ai~yaek~G~~y~V~~p~ 91 (115)
+-..|.+|.+++|++|++..-.
T Consensus 11 ~c~ka~~~L~~~~i~~~~idi~ 32 (105)
T cd02977 11 TSRKALAWLEEHGIEYEFIDYL 32 (105)
T ss_pred HHHHHHHHHHHcCCCcEEEeec
Confidence 4567999999999999887643
No 147
>cd07420 MPP_RdgC Drosophila melanogaster RdgC and related proteins, metallophosphatase domain. RdgC (retinal degeneration C) is a vertebrate serine-threonine protein phosphatase that is required to prevent light-induced retinal degeneration. In addition to its catalytic domain, RdgC has two C-terminal EF hands. Homologs of RdgC include the human phosphatases protein phosphatase with EF hands 1 and -2 (PPEF-1 and -2). PPEF-1 transcripts are present at low levels in the retina, PPEF-2 transcripts and PPEF-2 protein are present at high levels in photoreceptors. The PPP (phosphoprotein phosphatase) family, to which RdgC belongs, is one of two known protein phosphatase families specific for serine and threonine. The PPP family also includes: PP1, PP2A, PP2B (calcineurin), PP4, PP5, PP6, PP7, Bsu1, PrpE, PrpA/PrpB, and ApA4 hydrolase. The PPP catalytic domain is defined by three conserved motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The PPP enzyme family is ancient with members found in all
Probab=20.18 E-value=2e+02 Score=23.96 Aligned_cols=24 Identities=21% Similarity=0.547 Sum_probs=19.6
Q ss_pred eeecCCHHHHHHHHHHcCccEEEec
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
...|. .++..+||++||+++.|..
T Consensus 248 g~~FG-~~~~~~Fl~~n~l~~IIR~ 271 (321)
T cd07420 248 GCYFG-PDVTSKVLQKHGLSLLIRS 271 (321)
T ss_pred ccccC-HHHHHHHHHHCCCcEEEEc
Confidence 45666 7777899999999999865
No 148
>PF04377 ATE_C: Arginine-tRNA-protein transferase, C terminus; InterPro: IPR007472 Arginine-tRNA-protein transferase catalyses the post-translational conjugation of arginine to the N terminus of a protein. In eukaryotes, this functions as part of the N terminus rule pathway of protein degradation by conjugating a destabilising amino acid to the N-terminal aspartate or glutamate of a protein, targeting the protein for ubiquitin-dependent proteolysis. N-terminal cysteine is sometimes modified []. In Saccharomyces cerevisiae, Cys20, 23, 94 and/or 95 are thought to be important for activity []. Of these, only Cys 94 appears to be completely conserved in this family. This entry represents the C-terminal region of the enzyme arginine-tRNA-protein transferase, found in both eukaryotic and prokaryotic enzymes.; GO: 0004057 arginyltransferase activity, 0016598 protein arginylation
Probab=20.07 E-value=1.1e+02 Score=22.14 Aligned_cols=33 Identities=18% Similarity=0.132 Sum_probs=20.2
Q ss_pred HHHHHHHHcCccEEEecCCCCcCCCccccccCC
Q 036052 73 AAREFAERHGWEYVVRKPHRPLLNVKSYAEHFK 105 (115)
Q Consensus 73 ~Ai~yaek~G~~y~V~~p~~~~~~~ksYadNF~ 105 (115)
.-|++|++.|++|.=..--...-.+-+|=.+|.
T Consensus 86 ~eI~~a~~~~l~y~YLGY~I~~c~kM~YK~~f~ 118 (128)
T PF04377_consen 86 REIELARELGLPYYYLGYWIHGCPKMNYKARFR 118 (128)
T ss_pred HHHHHHHHcCCCEEeeCeEeCCCCcccchhcCC
Confidence 459999999998865443333333345555553
No 149
>cd05560 Xcc1710_like Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. Their three-dimensional structures have been determined, but their functions are unknown.
Probab=20.05 E-value=1.1e+02 Score=21.23 Aligned_cols=24 Identities=17% Similarity=-0.040 Sum_probs=19.4
Q ss_pred eeecCCHHHHHHHHHHcCccEEEec
Q 036052 65 GLSFDSEEAAREFAERHGWEYVVRK 89 (115)
Q Consensus 65 ~l~F~skE~Ai~yaek~G~~y~V~~ 89 (115)
+..|. ..+..++++++|+..+|..
T Consensus 63 ~~~~~-~~~~~~~l~~~gi~vE~m~ 86 (109)
T cd05560 63 RQRFP-PPALLAPLLARGIGVEVMD 86 (109)
T ss_pred CCCcC-CHHHHHHHHHcCCeEEEEC
Confidence 45688 4677789999999999975
Done!