Query 039224
Match_columns 179
No_of_seqs 105 out of 474
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 07:34:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039224.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039224hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG3688 Predicted RNA-binding 100.0 2.3E-44 5.1E-49 289.6 12.7 134 40-173 1-135 (173)
2 PF05991 NYN_YacP: YacP-like N 100.0 3.7E-43 7.9E-48 283.3 15.0 130 45-175 1-132 (166)
3 smart00475 53EXOc 5'-3' exonuc 98.3 2.2E-06 4.8E-11 74.0 7.0 125 43-170 2-167 (259)
4 PF02739 5_3_exonuc_N: 5'-3' e 98.2 2.1E-06 4.6E-11 69.6 4.6 111 42-155 1-143 (169)
5 PRK14976 5'-3' exonuclease; Pr 98.1 1.3E-05 2.9E-10 69.8 9.1 128 40-170 1-172 (281)
6 cd00008 53EXOc 5'-3' exonuclea 98.0 2.1E-05 4.5E-10 66.9 7.7 109 43-153 2-140 (240)
7 PRK09482 flap endonuclease-lik 97.8 5.4E-05 1.2E-09 65.6 6.8 108 42-153 3-139 (256)
8 PHA02567 rnh RnaseH; Provision 97.7 0.0001 2.2E-09 65.5 7.3 119 41-161 13-170 (304)
9 PHA00439 exonuclease 97.7 9.3E-05 2E-09 65.2 6.9 111 41-153 5-153 (286)
10 PRK05755 DNA polymerase I; Pro 97.6 0.00022 4.8E-09 70.6 7.9 108 43-153 3-141 (880)
11 TIGR00593 pola DNA polymerase 97.0 0.0013 2.7E-08 65.8 6.5 107 44-153 1-139 (887)
12 PF02639 DUF188: Uncharacteriz 96.7 0.0039 8.5E-08 49.0 5.6 70 83-164 6-77 (130)
13 COG0258 Exo 5'-3' exonuclease 96.7 0.0024 5.2E-08 56.0 4.6 115 40-156 9-154 (310)
14 PRK00124 hypothetical protein; 96.2 0.021 4.5E-07 46.2 6.9 71 84-164 21-93 (151)
15 PF11977 RNase_Zc3h12a: Zc3h12 96.0 0.0085 1.8E-07 47.6 3.9 92 42-148 2-111 (155)
16 COG1671 Uncharacterized protei 95.3 0.074 1.6E-06 43.1 7.0 75 78-164 16-92 (150)
17 COG2454 Uncharacterized conser 95.1 0.045 9.7E-07 46.4 5.3 101 41-152 65-188 (211)
18 COG1412 Uncharacterized protei 95.0 0.05 1.1E-06 43.3 5.1 51 108-164 74-124 (136)
19 PTZ00217 flap endonuclease-1; 93.9 0.16 3.5E-06 46.5 6.5 36 109-150 150-185 (393)
20 TIGR03674 fen_arch flap struct 92.1 0.26 5.7E-06 44.1 5.0 65 35-100 13-85 (338)
21 cd06167 LabA_like LabA_like pr 92.0 0.44 9.6E-06 36.4 5.6 110 43-161 3-127 (149)
22 PRK13764 ATPase; Provisional 91.9 0.47 1E-05 45.9 6.8 101 58-176 38-140 (602)
23 PF13638 PIN_4: PIN domain; PD 91.1 0.36 7.7E-06 36.3 4.1 45 119-163 87-132 (133)
24 PF00752 XPG_N: XPG N-terminal 90.4 0.2 4.3E-06 36.5 2.1 58 42-100 26-85 (101)
25 PF04900 Fcf1: Fcf1; InterPro 88.8 0.69 1.5E-05 34.0 3.9 40 118-162 50-90 (101)
26 PRK04358 hypothetical protein; 87.4 1.1 2.4E-05 38.4 4.8 36 139-174 175-210 (217)
27 TIGR03875 RNA_lig_partner RNA 86.6 1.2 2.6E-05 37.9 4.6 34 139-172 171-204 (206)
28 TIGR00288 conserved hypothetic 85.5 6.8 0.00015 32.0 8.3 116 40-169 22-148 (160)
29 smart00485 XPGN Xeroderma pigm 85.5 0.38 8.2E-06 35.0 0.9 59 40-100 22-83 (99)
30 COG1212 KdsB CMP-2-keto-3-deox 85.1 2 4.4E-05 37.3 5.3 39 123-161 29-67 (247)
31 cd00128 XPG Xeroderma pigmento 84.9 0.93 2E-05 39.6 3.3 58 41-99 23-82 (316)
32 PF01927 Mut7-C: Mut7-C RNAse 81.0 5.4 0.00012 31.4 6.0 61 107-174 17-78 (147)
33 PF08745 UPF0278: UPF0278 fami 80.0 3.2 6.9E-05 35.3 4.5 34 140-173 169-202 (205)
34 cd02064 FAD_synthetase_N FAD s 79.7 14 0.00029 29.8 8.0 99 69-171 12-156 (180)
35 PF02348 CTP_transf_3: Cytidyl 75.2 8.5 0.00018 30.8 5.7 39 124-162 26-65 (217)
36 COG1855 ATPase (PilT family) [ 72.5 13 0.00028 35.8 6.8 58 89-161 72-129 (604)
37 COG1458 Predicted DNA-binding 69.9 7.2 0.00016 33.3 4.1 34 140-173 176-209 (221)
38 PRK05601 DNA polymerase III su 69.6 13 0.00028 34.3 6.1 67 107-173 294-370 (377)
39 COG1439 Predicted nucleic acid 68.9 9.7 0.00021 31.7 4.6 41 120-162 85-125 (177)
40 TIGR01170 rplA_mito ribosomal 66.1 11 0.00025 29.9 4.4 35 138-172 53-87 (141)
41 COG2342 Predicted extracellula 65.2 31 0.00068 30.9 7.3 115 45-164 146-281 (300)
42 PRK05627 bifunctional riboflav 64.9 26 0.00057 31.0 6.9 98 70-171 27-171 (305)
43 PF00884 Sulfatase: Sulfatase; 64.4 6.3 0.00014 32.3 2.7 33 119-151 218-252 (308)
44 PF10673 DUF2487: Protein of u 59.7 16 0.00035 29.3 4.1 51 113-163 58-112 (142)
45 PF08459 UvrC_HhH_N: UvrC Heli 59.1 1.9 4.2E-05 34.9 -1.2 40 7-49 43-87 (155)
46 TIGR03709 PPK2_rel_1 polyphosp 57.2 1.1E+02 0.0024 26.8 9.3 104 68-174 35-149 (264)
47 TIGR00083 ribF riboflavin kina 56.5 36 0.00079 29.9 6.2 99 69-171 11-154 (288)
48 PF14794 DUF4479: Domain of un 53.8 8.3 0.00018 27.5 1.5 45 49-95 28-72 (73)
49 COG2326 Uncharacterized conser 52.9 30 0.00064 30.7 5.0 61 75-135 60-131 (270)
50 COG2185 Sbm Methylmalonyl-CoA 50.8 12 0.00026 30.1 2.1 63 94-161 22-95 (143)
51 PF06574 FAD_syn: FAD syntheta 50.7 48 0.001 26.4 5.6 77 67-147 16-116 (157)
52 PRK06063 DNA polymerase III su 49.2 60 0.0013 28.7 6.5 65 108-173 233-308 (313)
53 PRK13368 3-deoxy-manno-octulos 48.1 48 0.001 26.9 5.4 37 125-161 30-67 (238)
54 KOG3165 Predicted nucleic-acid 46.9 26 0.00057 29.3 3.6 32 120-156 137-168 (195)
55 TIGR00466 kdsB 3-deoxy-D-manno 45.7 51 0.0011 27.5 5.3 38 124-161 26-63 (238)
56 TIGR01169 rplA_bact ribosomal 45.7 39 0.00083 28.8 4.6 84 67-172 20-104 (227)
57 TIGR00108 eRF peptide chain re 45.2 86 0.0019 28.9 7.1 36 123-159 363-399 (409)
58 cd00027 BRCT Breast Cancer Sup 45.0 44 0.00095 20.6 3.8 61 110-170 1-71 (72)
59 TIGR03584 PseF pseudaminic aci 44.8 59 0.0013 26.9 5.5 38 124-161 26-64 (222)
60 cd05017 SIS_PGI_PMI_1 The memb 44.5 1.2E+02 0.0027 22.2 9.4 70 87-162 26-95 (119)
61 CHL00129 rpl1 ribosomal protei 44.4 41 0.0009 28.7 4.6 34 138-172 72-105 (229)
62 cd00851 MTH1175 This uncharact 44.1 37 0.00079 23.9 3.6 51 72-128 52-102 (103)
63 PF12804 NTP_transf_3: MobA-li 40.7 54 0.0012 24.7 4.3 41 123-163 25-65 (160)
64 PRK02842 light-independent pro 39.9 1.1E+02 0.0024 28.0 6.9 88 67-158 269-361 (427)
65 PF01676 Metalloenzyme: Metall 39.2 26 0.00057 29.6 2.6 27 119-147 168-194 (252)
66 PF00072 Response_reg: Respons 39.0 64 0.0014 22.2 4.2 58 111-171 44-112 (112)
67 PRK06195 DNA polymerase III su 38.9 1.2E+02 0.0025 26.6 6.6 65 107-173 220-309 (309)
68 smart00292 BRCT breast cancer 38.7 71 0.0015 20.1 4.1 64 108-171 3-78 (80)
69 PRK05424 rplA 50S ribosomal pr 38.2 63 0.0014 27.6 4.7 83 67-171 21-104 (230)
70 PF11977 RNase_Zc3h12a: Zc3h12 37.9 21 0.00046 28.1 1.7 28 145-172 90-117 (155)
71 PF01663 Phosphodiest: Type I 37.8 32 0.00069 29.2 2.9 34 119-152 213-248 (365)
72 PF02887 PK_C: Pyruvate kinase 37.3 42 0.00091 24.8 3.2 51 110-167 18-70 (117)
73 TIGR03552 F420_cofC 2-phospho- 36.7 1.2E+02 0.0026 23.8 6.0 44 120-163 28-71 (195)
74 cd05013 SIS_RpiR RpiR-like pro 36.2 53 0.0012 23.6 3.5 59 87-148 39-98 (139)
75 COG0669 CoaD Phosphopantethein 36.0 47 0.001 27.3 3.4 40 120-161 47-86 (159)
76 PF09843 DUF2070: Predicted me 35.8 1.5E+02 0.0032 24.0 6.4 123 46-173 1-142 (179)
77 PF01650 Peptidase_C13: Peptid 35.3 97 0.0021 26.7 5.5 97 77-174 26-143 (256)
78 PF03465 eRF1_3: eRF1 domain 3 34.8 89 0.0019 23.5 4.6 35 124-159 70-105 (113)
79 PF12909 DUF3832: Protein of u 34.6 20 0.00044 26.5 1.0 30 55-84 22-51 (89)
80 COG2909 MalT ATP-dependent tra 33.8 53 0.0012 33.6 4.0 65 20-98 75-139 (894)
81 TIGR02128 G6PI_arch bifunction 32.7 3.5E+02 0.0075 23.9 8.9 67 88-161 50-117 (308)
82 PHA03003 palmytilated EEV memb 31.1 56 0.0012 29.4 3.5 70 16-98 17-87 (369)
83 PRK05450 3-deoxy-manno-octulos 30.8 1.4E+02 0.0029 24.3 5.5 38 124-161 29-66 (245)
84 PF10236 DAP3: Mitochondrial r 30.5 64 0.0014 28.3 3.7 57 41-98 156-216 (309)
85 smart00785 AARP2CN AARP2CN (NU 30.4 24 0.00053 25.5 0.9 33 22-54 3-35 (83)
86 cd00403 Ribosomal_L1 Ribosomal 29.9 86 0.0019 25.5 4.1 35 138-173 53-87 (208)
87 PF14202 TnpW: Transposon-enco 29.6 74 0.0016 19.7 2.8 22 110-131 13-36 (37)
88 PF02439 Adeno_E3_CR2: Adenovi 29.4 32 0.0007 21.8 1.2 14 166-179 16-29 (38)
89 PF13716 CRAL_TRIO_2: Divergen 27.7 1.5E+02 0.0033 22.2 4.9 47 40-98 12-58 (149)
90 cd01974 Nitrogenase_MoFe_beta 27.6 1.6E+02 0.0034 27.0 5.8 93 67-159 282-379 (435)
91 COG3119 AslA Arylsulfatase A a 27.6 59 0.0013 30.1 3.1 30 119-148 267-298 (475)
92 TIGR00640 acid_CoA_mut_C methy 27.4 1E+02 0.0022 23.9 3.9 21 109-129 29-50 (132)
93 PF13280 WYL: WYL domain 26.9 1.2E+02 0.0026 22.6 4.2 35 140-174 131-168 (172)
94 cd09215 Thaumatin-like the swe 26.7 26 0.00057 28.4 0.5 11 43-53 101-111 (157)
95 PRK13759 arylsulfatase; Provis 26.1 74 0.0016 29.5 3.4 31 120-150 276-308 (485)
96 cd02517 CMP-KDO-Synthetase CMP 25.5 1.9E+02 0.0042 23.3 5.5 38 124-161 28-66 (239)
97 PF08476 VD10_N: Viral D10 N-t 25.4 27 0.00059 23.0 0.3 30 26-57 7-36 (45)
98 TIGR01283 nifE nitrogenase mol 25.2 1.7E+02 0.0036 27.0 5.6 88 68-160 306-398 (456)
99 TIGR00017 cmk cytidylate kinas 25.1 1.2E+02 0.0026 25.2 4.2 69 44-118 76-147 (217)
100 cd00984 DnaB_C DnaB helicase C 25.0 1.6E+02 0.0035 23.8 4.9 49 41-95 123-171 (242)
101 PF09837 DUF2064: Uncharacteri 24.9 1.3E+02 0.0029 22.8 4.1 68 79-147 2-70 (122)
102 COG3083 Predicted hydrolase of 24.8 74 0.0016 31.0 3.2 77 73-149 379-462 (600)
103 TIGR03708 poly_P_AMP_trns poly 24.8 2.1E+02 0.0046 27.3 6.2 77 68-147 279-366 (493)
104 PF04536 TPM: TLP18.3, Psb32 a 24.8 88 0.0019 22.5 3.0 78 70-166 5-88 (119)
105 TIGR01279 DPOR_bchN light-inde 24.7 1.6E+02 0.0035 26.7 5.3 88 68-158 254-344 (407)
106 PRK03094 hypothetical protein; 24.6 2.7E+02 0.0059 20.2 5.5 22 107-128 54-75 (80)
107 COG0224 AtpG F0F1-type ATP syn 24.6 1.1E+02 0.0023 27.3 4.0 49 48-99 126-174 (287)
108 smart00803 TAF TATA box bindin 24.4 1.4E+02 0.003 20.5 3.8 20 147-166 6-25 (65)
109 COG0503 Apt Adenine/guanine ph 24.4 42 0.00091 27.3 1.3 37 12-48 87-123 (179)
110 PF11181 YflT: Heat induced st 24.4 1.4E+02 0.0031 21.8 4.1 54 118-173 9-65 (103)
111 PRK12306 uvrC excinuclease ABC 24.3 34 0.00075 32.7 0.9 52 7-75 398-454 (519)
112 cd09219 TLP-F thaumatin-like p 24.3 31 0.00067 29.8 0.5 12 43-54 105-116 (229)
113 PRK14669 uvrC excinuclease ABC 24.2 35 0.00075 33.5 0.9 52 7-75 428-484 (624)
114 TIGR03310 matur_ygfJ molybdenu 24.1 1.3E+02 0.0029 23.0 4.1 26 123-148 26-51 (188)
115 cd01979 Pchlide_reductase_N Pc 24.1 1.9E+02 0.004 26.1 5.6 91 67-161 255-349 (396)
116 TIGR03708 poly_P_AMP_trns poly 24.0 1.9E+02 0.0041 27.7 5.7 104 67-173 18-132 (493)
117 TIGR03417 chol_sulfatase choli 23.9 86 0.0019 29.2 3.4 32 120-151 261-294 (500)
118 KOG2518 5'-3' exonuclease [Rep 23.6 96 0.0021 30.1 3.7 57 40-100 22-83 (556)
119 PF12098 DUF3574: Protein of u 23.6 2E+02 0.0044 21.8 4.8 54 92-145 39-98 (104)
120 PRK12496 hypothetical protein; 23.6 1.2E+02 0.0027 24.4 3.9 39 120-164 78-116 (164)
121 smart00205 THN Thaumatin famil 23.0 33 0.00073 29.2 0.5 11 43-53 102-112 (218)
122 PF14367 DUF4411: Domain of un 23.0 67 0.0015 25.5 2.2 47 119-171 103-159 (162)
123 PF02579 Nitro_FeMo-Co: Dinitr 22.9 93 0.002 21.4 2.7 52 73-130 43-94 (94)
124 PRK11440 putative hydrolase; P 22.5 1.8E+02 0.0039 23.1 4.6 50 119-169 129-187 (188)
125 cd09218 TLP-PA allergenic/anti 22.5 34 0.00074 29.2 0.4 12 42-53 102-113 (219)
126 PF13481 AAA_25: AAA domain; P 22.1 1.5E+02 0.0033 22.9 4.1 44 42-93 142-185 (193)
127 PF03159 XRN_N: XRN 5'-3' exon 22.1 2.3E+02 0.005 24.3 5.5 49 109-157 171-226 (237)
128 PRK00558 uvrC excinuclease ABC 21.9 42 0.0009 32.6 1.0 52 7-75 415-471 (598)
129 PHA00520 packaging NTPase P4 21.9 85 0.0018 28.5 2.8 54 109-163 226-281 (330)
130 PRK12363 phosphoglycerol trans 21.8 94 0.002 31.0 3.4 29 120-148 363-393 (703)
131 cd01981 Pchlide_reductase_B Pc 21.7 1.2E+02 0.0026 27.5 3.9 90 67-161 275-374 (430)
132 cd02513 CMP-NeuAc_Synthase CMP 21.5 2.6E+02 0.0057 22.0 5.4 35 124-158 28-63 (223)
133 PTZ00029 60S ribosomal protein 21.5 1.6E+02 0.0034 24.8 4.2 31 138-169 62-92 (216)
134 TIGR01696 deoB phosphopentomut 21.5 82 0.0018 29.1 2.7 28 119-149 298-325 (381)
135 PF12813 XPG_I_2: XPG domain c 21.4 93 0.002 26.7 2.9 33 110-149 20-52 (246)
136 PRK14351 ligA NAD-dependent DN 21.3 3.5E+02 0.0075 27.0 7.1 66 107-172 609-684 (689)
137 cd03089 PMM_PGM The phosphoman 21.2 6.3E+02 0.014 23.0 9.0 77 76-163 214-295 (443)
138 PRK14671 uvrC excinuclease ABC 21.2 44 0.00095 32.7 0.9 40 7-49 447-491 (621)
139 COG0081 RplA Ribosomal protein 21.0 1.6E+02 0.0034 25.5 4.2 35 138-173 73-107 (228)
140 cd08961 GH64-TLP-SF glycoside 20.8 40 0.00088 27.2 0.5 11 43-53 101-111 (153)
141 smart00417 H4 Histone H4. 20.8 1.6E+02 0.0035 21.0 3.6 19 146-164 16-34 (74)
142 PF12965 DUF3854: Domain of un 20.7 81 0.0018 24.5 2.2 24 74-98 56-79 (130)
143 TIGR01668 YqeG_hyp_ppase HAD s 20.5 4.2E+02 0.0092 20.7 6.6 110 40-161 23-133 (170)
144 PRK13856 two-component respons 20.3 3.3E+02 0.0072 21.6 5.8 92 71-173 13-116 (241)
No 1
>COG3688 Predicted RNA-binding protein containing a PIN domain [General function prediction only]
Probab=100.00 E-value=2.3e-44 Score=289.58 Aligned_cols=134 Identities=37% Similarity=0.549 Sum_probs=124.1
Q ss_pred CCccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCC-
Q 039224 40 NAVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGE- 118 (179)
Q Consensus 40 ~~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~- 118 (179)
|.+.+|||||||+||+||.|+.+..+.+||.||++||+.|++|+.+.|++|+|||||+..++.+......+|+|+||++
T Consensus 1 ~~~~iLLVDGYNmIgaWp~Lk~lkd~~~LE~AR~~LIe~l~~Y~s~~g~~iivVFDA~~v~g~~~~~~~~~vsvvyT~~~ 80 (173)
T COG3688 1 MKMRILLVDGYNMIGAWPELKQLKDRNGLEAARDKLIEALAEYQSFTGYKIIVVFDAHYVPGVGREYKNHRVSVVYTKEG 80 (173)
T ss_pred CCceEEEeccchhccccHHHHHHHhhccHHHHHHHHHHHHHHhhcccCceEEEEEEccccccccccccccceEEEEecCC
Confidence 5778999999999999999999877779999999999999999999999999999999988776666778899999999
Q ss_pred CChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHH
Q 039224 119 TCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLI 173 (179)
Q Consensus 119 ~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~ 173 (179)
+|||++|||++.+++.....+|.|||||.++|++++|+||.|+||+||+.+++.+
T Consensus 81 ETADs~IEr~~~el~~~~t~~V~VaTSD~~EQ~~Ifg~GA~r~Sarel~~ev~~~ 135 (173)
T COG3688 81 ETADSFIERYVAELRNAATHQVIVATSDRAEQWTIFGQGALRMSARELYQEVETI 135 (173)
T ss_pred ccHHHHHHHHHHHHhccccceEEEEeCchhhhhhhhccchHHHhHHHHHHHHHHH
Confidence 6999999999999995444589999999999999999999999999999999875
No 2
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=100.00 E-value=3.7e-43 Score=283.34 Aligned_cols=130 Identities=38% Similarity=0.561 Sum_probs=118.5
Q ss_pred EEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCCCC-CCCceeecCeEEEeCCC-CChH
Q 039224 45 LLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSGL-PTHKEEFIGVDIVFPGE-TCAD 122 (179)
Q Consensus 45 lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~~-~~~~~~~~gi~VvfT~~-~TAD 122 (179)
||||||||||+||+|+.+...++|+.||++|++.|.+|++.+|++|+|||||+..++ .+..+..+||+|+||++ +|||
T Consensus 1 LlIDGYNli~~~~~l~~~~~~~~l~~aR~~Li~~L~~y~~~~~~~v~VVFDa~~~~~~~~~~~~~~gi~Vvft~~~~tAD 80 (166)
T PF05991_consen 1 LLIDGYNLIHAWPELRSLAERGDLEAARERLIEMLSEYAQFSGYEVIVVFDAYKVPGGSEEREEYGGIEVVFTKEGETAD 80 (166)
T ss_pred CeEcchhhhCCCHHHHhhcCcCCHHHHHHHHHHHHHHHhcccCCEEEEEEeCCcCCCCCceeeeeCceEEEECCCCCCHH
Confidence 699999999999999996557899999999999999999999999999999998655 44455778999999998 6999
Q ss_pred HHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHHHh
Q 039224 123 AWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLIIY 175 (179)
Q Consensus 123 ~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~~~ 175 (179)
+|||+++.++.+. +.+|+|||||+++|++|+++||.+|||++|+.+++....
T Consensus 81 ~~Ie~~v~~~~~~-~~~v~VVTSD~~iq~~~~~~GA~~iss~ef~~~l~~~~~ 132 (166)
T PF05991_consen 81 DYIERLVRELKNR-PRQVTVVTSDREIQRAARGRGAKRISSEEFLRELKAAKR 132 (166)
T ss_pred HHHHHHHHHhccC-CCeEEEEeCCHHHHHHHhhCCCEEEcHHHHHHHHHHHHH
Confidence 9999999999963 379999999999999999999999999999999987654
No 3
>smart00475 53EXOc 5'-3' exonuclease.
Probab=98.27 E-value=2.2e-06 Score=73.95 Aligned_cols=125 Identities=22% Similarity=0.253 Sum_probs=80.3
Q ss_pred cEEEEecccccC----ccccchhhhcCCCHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCC------------CCCCc
Q 039224 43 PVLLVDGYNVCG----YWPKLENHFIKGRLDVARQKLIEELVEFSM-IREVKVVVVFDALMSG------------LPTHK 105 (179)
Q Consensus 43 ~~lIVDGYNvI~----a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~------------~~~~~ 105 (179)
+++||||+|+|+ +.|.|.. ..+..-.|-..++..|..... .+-..++||||+.... ....+
T Consensus 2 ~lllIDg~~~i~R~~~a~~~l~~--~~G~~t~a~~g~~~~l~~l~~~~~p~~~~~~fD~~~~~~R~~l~p~YKa~R~~~p 79 (259)
T smart00475 2 KLLLVDGSSLAFRAYFALPPLKN--SKGEPTNAVYGFLRMLLKLIKEEKPTYVAVVFDAKGKTFRHELYPEYKANRPKTP 79 (259)
T ss_pred cEEEEeCcHHHHHHHHCCCcccC--CCCCcccHHHHHHHHHHHHHHHcCCCeEEEEEeCCCCccccchhHHHHhCCCCCC
Confidence 589999999997 5555433 133445666677777777654 4446799999984210 01111
Q ss_pred ee-------------ecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHh--------C---CceEe
Q 039224 106 EE-------------FIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYG--------A---GAFVW 161 (179)
Q Consensus 106 ~~-------------~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~--------~---GA~~i 161 (179)
+. .-|+.++-.+.-.||+.|--++......| ..++|+|+|+...+.+-. . +...+
T Consensus 80 e~L~~q~~~~~~~l~~~gi~~i~~~g~EADD~iatla~~~~~~g-~~~~IvS~DkDl~ql~~~~v~~~~~~~~~~~~~~~ 158 (259)
T smart00475 80 DELLEQIPLIKELLDALGIPVLEVEGYEADDVIATLAKKAEAEG-YEVRIVSGDKDLLQLVSDKVSVLDPTKGIKEFELY 158 (259)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEeeCCcCHHHHHHHHHHHHHhCC-CeEEEEeCCCcHhhcCCCCEEEEeccCCCCccEEE
Confidence 11 14675544434499999999999877543 689999999998877521 1 12456
Q ss_pred cHHHHHHHH
Q 039224 162 SSKALVSEV 170 (179)
Q Consensus 162 Ss~ef~~~l 170 (179)
+.+++.+..
T Consensus 159 ~~~~v~~~~ 167 (259)
T smart00475 159 TPENVIEKY 167 (259)
T ss_pred cHHHHHHHh
Confidence 666665543
No 4
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=98.18 E-value=2.1e-06 Score=69.64 Aligned_cols=111 Identities=23% Similarity=0.215 Sum_probs=71.6
Q ss_pred ccEEEEeccccc----Cccc--cchhhhcCCCHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCC-----CCC------
Q 039224 42 VPVLLVDGYNVC----GYWP--KLENHFIKGRLDVARQKLIEELVEFSM-IREVKVVVVFDALMSG-----LPT------ 103 (179)
Q Consensus 42 ~~~lIVDGYNvI----~a~p--~L~~~~~~~~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~-----~~~------ 103 (179)
+++|||||.|++ |+.| .+... ..... .|-.-+++.|..... .+...++|+||+.... .+.
T Consensus 1 k~llLIDg~~l~~Ra~~a~~~~~l~~~-~G~~t-~ai~g~~~~l~~l~~~~~p~~~vv~fD~~~~~fR~~l~p~YKanR~ 78 (169)
T PF02739_consen 1 KKLLLIDGNSLLFRAYYALPKDPLRNS-DGEPT-NAIYGFLRMLLKLLKDFKPDYVVVAFDSKGPTFRKELYPEYKANRK 78 (169)
T ss_dssp -EEEEEEHHHHHHHCCCCCTTST-BET-TSEB--HHHHHHHHHHHHHHHHTTEEEEEEEEEBSSCHHHHHCCTTTTHHHH
T ss_pred CeEEEEechHHHHHHHHhhccCCCcCC-CCCCh-HHHHHHHHHHHHHHHHcCCceEEEEecCCCcchHHHHHHHHHhCCC
Confidence 478999999999 4445 33331 12122 355667777777654 3446799999987530 011
Q ss_pred -Cce-------------eecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHh
Q 039224 104 -HKE-------------EFIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYG 155 (179)
Q Consensus 104 -~~~-------------~~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~ 155 (179)
.++ ..-|+.++-.++-.||++|--++......+ ..|+|||+|+.+.+.+..
T Consensus 79 ~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~-~~v~IvS~DkD~~QLv~~ 143 (169)
T PF02739_consen 79 PMPEELIPQLPYIKELLEALGIPVLEVPGYEADDVIATLAKKASEEG-FEVIIVSGDKDLLQLVDE 143 (169)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSEEEEETTB-HHHHHHHHHHHHHHTT-CEEEEE-SSGGGGGGTCS
T ss_pred CCCHHHHHHHHHHHHHHHHCCCCEecCCCCcHHHHHHHHHhhhccCC-CEEEEEcCCCCHHHhcCC
Confidence 011 013888776544499999999999998754 689999999998887755
No 5
>PRK14976 5'-3' exonuclease; Provisional
Probab=98.14 E-value=1.3e-05 Score=69.84 Aligned_cols=128 Identities=20% Similarity=0.188 Sum_probs=83.3
Q ss_pred CCccEEEEecccccCc----c----ccchhhhcCCCHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCC----------
Q 039224 40 NAVPVLLVDGYNVCGY----W----PKLENHFIKGRLDVARQKLIEELVEFSM-IREVKVVVVFDALMSG---------- 100 (179)
Q Consensus 40 ~~~~~lIVDGYNvI~a----~----p~L~~~~~~~~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~---------- 100 (179)
|.++++||||+|+|+. . |.+.. ..+.-..|-.-+++.|..... .+-..++||||+....
T Consensus 1 m~~~~lliDg~~~~~ra~~a~~~~~~~l~~--~~G~~t~a~~gf~~~l~~ll~~~~p~~~~v~fD~~~~~~R~~l~p~YK 78 (281)
T PRK14976 1 MMKKALLIDGNSLIFRSYYATLKQGPKLKN--NKGLPTNAIHTFLTMIFKILKKLNPSYILIAFDAGRKTFRHQLYDEYK 78 (281)
T ss_pred CCCcEEEEeCcHHHHHHHHccCccCCCccC--CCCCCchHHHHHHHHHHHHHHhcCCCEEEEEEECCCCcccccccHHHh
Confidence 4557999999999974 1 22222 233444566667777777664 3446799999985311
Q ss_pred --CCCCcee-------------ecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHH--------hCC
Q 039224 101 --LPTHKEE-------------FIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAY--------GAG 157 (179)
Q Consensus 101 --~~~~~~~-------------~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~--------~~G 157 (179)
....++. .-|+.++=.++-.||+.|--++......+ ..|+|||+|+...+.+- ..|
T Consensus 79 anR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDviatla~~~~~~g-~~v~IvS~DkDl~ql~~~~v~~~~~~~~ 157 (281)
T PRK14976 79 QGRKKTPESLISQIPLLKKILKLAGIKWEEQPGYEADDLIGSLAKKLSKQN-ITVLIYSSDKDLLQLVNENTDVLLKKKG 157 (281)
T ss_pred cCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHCC-CeEEEEeCCCCcCccCCCCeEEEEecCC
Confidence 0111110 12777776655599999999999887653 58999999999977762 233
Q ss_pred --ceEecHHHHHHHH
Q 039224 158 --AFVWSSKALVSEV 170 (179)
Q Consensus 158 --A~~iSs~ef~~~l 170 (179)
-..++.+.+.++.
T Consensus 158 ~~~~~~~~~~v~~~~ 172 (281)
T PRK14976 158 TSHFILNTNNFFELY 172 (281)
T ss_pred CCcEEEcHHHHHHHh
Confidence 2467777766554
No 6
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=98.01 E-value=2.1e-05 Score=66.86 Aligned_cols=109 Identities=26% Similarity=0.233 Sum_probs=70.7
Q ss_pred cEEEEecccccCc----cccchhhhcCCCHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCC------------CCCCc
Q 039224 43 PVLLVDGYNVCGY----WPKLENHFIKGRLDVARQKLIEELVEFSM-IREVKVVVVFDALMSG------------LPTHK 105 (179)
Q Consensus 43 ~~lIVDGYNvI~a----~p~L~~~~~~~~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~------------~~~~~ 105 (179)
++++|||+|+++. .+.+.. ...+....|-..++..|..+.. .+-..+++|||+.... ....+
T Consensus 2 ~~llIDg~~l~yr~~~a~~~~~~-~~~g~~t~ai~g~~~~l~~~~~~~~p~~~~~~fD~~~~~~R~~l~p~YK~~R~~~p 80 (240)
T cd00008 2 RLLLIDGSSLAYRAYFALPPLKN-SPKGLPTNAVYGFLNMLLKLIKEYKPTYVAVVFDAGGKTFRHELYPEYKANRKKMP 80 (240)
T ss_pred cEEEEEChHHHHHHHHCCCCcCC-CCCCcCchHHHHHHHHHHHHHHhcCCCeEEEEEeCCCCcccccccHHHHcCCCCCC
Confidence 5899999999964 222211 0022334566666666666654 3345799999997311 00111
Q ss_pred ee-------------ecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHH
Q 039224 106 EE-------------FIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAA 153 (179)
Q Consensus 106 ~~-------------~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a 153 (179)
+. .-|+.++=.++-.||+.|--++......| ..++|+|+|..+.+.+
T Consensus 81 ~~l~~q~~~~~~~l~~~gi~~i~~~~~EADD~ia~la~~~~~~g-~~~~I~S~DkD~~ql~ 140 (240)
T cd00008 81 EELREQIPLIKELLEALGIPVLEIEGYEADDVIGTLAKKAEAEG-YKVVIVSGDKDLLQLV 140 (240)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHcC-CeEEEEeCCCChhhhC
Confidence 10 02777765554599999999998877653 6899999999998876
No 7
>PRK09482 flap endonuclease-like protein; Provisional
Probab=97.81 E-value=5.4e-05 Score=65.60 Aligned_cols=108 Identities=17% Similarity=0.153 Sum_probs=66.1
Q ss_pred ccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCC--------------CCCCce
Q 039224 42 VPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSM-IREVKVVVVFDALMSG--------------LPTHKE 106 (179)
Q Consensus 42 ~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~--------------~~~~~~ 106 (179)
+++|||||+|+++.. +.......+.-.|=--++..|..... ..-..++|+||+.... ....++
T Consensus 3 ~~llLiDg~~l~~R~--~~a~~~~~g~t~av~gf~~~l~~ll~~~~p~~i~v~fD~~~~~~~fR~~l~p~YKa~R~~~Pe 80 (256)
T PRK09482 3 NHLLIIDALNLIRRI--HAVQPSPNDINACVETCQHALDKLIRHSQPTHAVAVFDGDARSSGWRHQLLPDYKAGRKPMPE 80 (256)
T ss_pred CeEEEEeCcHHHHHH--HhCCCCCCCcchHHHHHHHHHHHHHHHcCCCEEEEEEeCCCCCcccHHHHhHHHhcCCCCCcH
Confidence 369999999999742 11100011123444444555555443 3335689999985321 011111
Q ss_pred e-------------ecCeEEEeCCCC-ChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHH
Q 039224 107 E-------------FIGVDIVFPGET-CADAWIEKEIVALREDGCPKVWVVTSDHLQQHAA 153 (179)
Q Consensus 107 ~-------------~~gi~VvfT~~~-TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a 153 (179)
. .-|+.++ ...+ .||++|--++.+..+.+ ..|++||+|+.+.+.+
T Consensus 81 ~l~~Q~~~i~~~l~~~gi~~~-~~~g~EADDvIatla~~~~~~~-~~v~I~S~DKDl~Qlv 139 (256)
T PRK09482 81 ALQQGLPAIRAAFEELGIDSW-HADGNEADDLIATLAVKVAQAG-HQATIVSTDKGYCQLL 139 (256)
T ss_pred HHHHHHHHHHHHHHhCCCCEe-ccCCcCHHHHHHHHHHHHHHCC-CeEEEEECCCCccccC
Confidence 1 1377664 4455 99999999999887653 6899999999987765
No 8
>PHA02567 rnh RnaseH; Provisional
Probab=97.72 E-value=0.0001 Score=65.50 Aligned_cols=119 Identities=18% Similarity=0.149 Sum_probs=75.9
Q ss_pred CccEEEEecccccCccc--cchhhhcCCCHHHHHHHHHHHHHhccc-cC--CceEEEEEcCCCCC-------------CC
Q 039224 41 AVPVLLVDGYNVCGYWP--KLENHFIKGRLDVARQKLIEELVEFSM-IR--EVKVVVVFDALMSG-------------LP 102 (179)
Q Consensus 41 ~~~~lIVDGYNvI~a~p--~L~~~~~~~~Le~AR~~Li~~L~~y~~-~~--g~~V~VVFDa~~~~-------------~~ 102 (179)
+..++||||.|++++.= .|... ...+-..-|..+++.|..... .+ .-.++|+||+...+ ..
T Consensus 13 ~~~~~LiDgs~i~~~~~~a~l~~~-~~~~~~~ir~~v~nsL~~~v~~~k~~~~~i~vaFD~~~~~tfR~elyp~YKAnR~ 91 (304)
T PHA02567 13 KEGVNLIDFSQIIIATIMANFKPK-DKINEAMVRHLVLNSIRYNVKKFKEEYPEIVLAFDNSKSGYWRRDIAWYYKKNRK 91 (304)
T ss_pred CCCEEEEehHHHHHHHHHhhCCCC-CCCcHHHHHHHHHHHHHHHHHHhcCCCCeEEEEEeCCCCCCchhhhhhHhhcCCC
Confidence 67899999999995431 23221 133445556667777776543 22 23599999996311 01
Q ss_pred CCcee---------------e------cCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 103 THKEE---------------F------IGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 103 ~~~~~---------------~------~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
..++. . -|+.++-.+.-.||++|--++......| ..|+|||+|+.+.+.+..-|...+
T Consensus 92 ~~Peel~~q~~~l~~~l~~ii~el~~~~gi~~l~~~g~EADDvIgTLA~k~~~~g-~~VvIvS~DKDl~QLv~~~~v~~~ 170 (304)
T PHA02567 92 KDREESPWDWEGLFEAINKIVDEIKENMPYKVMKIDKAEADDIIAVLTKKFSAEG-RPVLIVSSDGDFTQLHKYPGVKQW 170 (304)
T ss_pred CCChHHHHHHHHhhhhHHHHHHHHHHHCCCCEEEeCCccHHHHHHHHHHHHHhCC-CcEEEEeCCCChhhccCCCCeEEe
Confidence 11111 0 1666554444599999999999888653 689999999999888753455544
No 9
>PHA00439 exonuclease
Probab=97.72 E-value=9.3e-05 Score=65.22 Aligned_cols=111 Identities=14% Similarity=0.056 Sum_probs=71.7
Q ss_pred CccEEEEecccccC----cc-------ccchhhhcCCCHHHHHHHHHHHHHhccc----cCCceEEEEEcCCCCC-----
Q 039224 41 AVPVLLVDGYNVCG----YW-------PKLENHFIKGRLDVARQKLIEELVEFSM----IREVKVVVVFDALMSG----- 100 (179)
Q Consensus 41 ~~~~lIVDGYNvI~----a~-------p~L~~~~~~~~Le~AR~~Li~~L~~y~~----~~g~~V~VVFDa~~~~----- 100 (179)
++.+|||||+++++ +. +.+.. ..+..-.|+.-++++|..+.. ++--.++|+||+..+-
T Consensus 5 ~~~llLIDG~~l~fRA~~A~~~~~~~~~~l~~--~~G~~t~A~~gf~~~L~kl~~~~k~~~p~~i~vaFD~~~tfR~ely 82 (286)
T PHA00439 5 DKGVLVMDGDYLVFQAMAAAEVETDWGEDIWT--LECDHAKARQILEDSIKSYKTRKKAWKDAPIVLAFTDSVNWRKEVV 82 (286)
T ss_pred CCcEEEEeCcHHHHHHHHccCcccccCCCCCC--CCCeeccHHHHHHHHHHHHHHhhccCCCCeEEEEECCCCChHhhhh
Confidence 67899999999996 33 12321 234455677777777777653 3556799999964310
Q ss_pred ------CCCCce----------e--ecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHH
Q 039224 101 ------LPTHKE----------E--FIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAA 153 (179)
Q Consensus 101 ------~~~~~~----------~--~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a 153 (179)
.+..++ . ..|+.++-...-.||++|--++......+..+|+|||+|+.+.+.+
T Consensus 83 p~YKanR~~~p~~~~~~~~i~el~~~~gi~~i~~~G~EADDvIgtla~~~~~~g~~~vvIvS~DKDl~QLv 153 (286)
T PHA00439 83 PTYKANRKAKRKPVGYRKFLEELMAREEWKSILEPGLEGDDVMGIIGTNPSLFGFKKAVLVSCDKDFKTIP 153 (286)
T ss_pred hHhcCCCCCCCCchhhHHHHHHHHHhCCCCEEeeCCccHHHHHHHHHHHHHHCCCCeEEEEeCCCCHhhcC
Confidence 000000 0 1355444333349999999999887754323899999999988875
No 10
>PRK05755 DNA polymerase I; Provisional
Probab=97.56 E-value=0.00022 Score=70.56 Aligned_cols=108 Identities=24% Similarity=0.255 Sum_probs=72.9
Q ss_pred cEEEEecccccCc-c----ccchhhhcCCCHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCC------------CCCC
Q 039224 43 PVLLVDGYNVCGY-W----PKLENHFIKGRLDVARQKLIEELVEFSM-IREVKVVVVFDALMSG------------LPTH 104 (179)
Q Consensus 43 ~~lIVDGYNvI~a-~----p~L~~~~~~~~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~------------~~~~ 104 (179)
+++||||+|+++. + |.+.. ..+..-.|-.-+++.|..+.. .+-..++||||+.... .+..
T Consensus 3 ~~~liDg~~~~~r~~~a~~~~~~~--~~g~~~~a~~g~~~~l~~~~~~~~p~~~~v~fD~~~~~~R~~~~~~YK~~R~~~ 80 (880)
T PRK05755 3 TLLLIDGSSLLFRAFYALLPTLRN--SDGLPTGAVYGFLNMLLKLLKEEKPTHVAVAFDAKGKTFRHELYPEYKANRPPM 80 (880)
T ss_pred eEEEEeCcHHHHHHHHCCCCcccC--CCCCcccHHHHHHHHHHHHHHhcCCCEEEEEEECCCCccccccCHHHhCCCCCC
Confidence 5899999999974 2 33322 133445666777777777664 4456799999984310 0111
Q ss_pred cee-------------ecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHH
Q 039224 105 KEE-------------FIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAA 153 (179)
Q Consensus 105 ~~~-------------~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a 153 (179)
++. .-|+.++-.++-.||+.|--++......| ..++|+|+|+.+-+.+
T Consensus 81 p~~l~~q~~~~~~~l~~~gi~~~~~~g~EADD~ia~la~~~~~~~-~~~~i~S~DkD~~ql~ 141 (880)
T PRK05755 81 PEDLREQIPLIRELLRALGIPLLELEGYEADDVIGTLAKQAEAAG-YEVLIVTGDKDLLQLV 141 (880)
T ss_pred cHHHHHHHHHHHHHHHHCCCCEEeeCCccHHHHHHHHHHHHHhCC-CcEEEEcCCCChhhhC
Confidence 110 14776665544599999999998877653 6899999999988776
No 11
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.04 E-value=0.0013 Score=65.76 Aligned_cols=107 Identities=22% Similarity=0.218 Sum_probs=65.0
Q ss_pred EEEEecccccCc----cc--cchhhhcCCCHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCC------------CCCC
Q 039224 44 VLLVDGYNVCGY----WP--KLENHFIKGRLDVARQKLIEELVEFSM-IREVKVVVVFDALMSG------------LPTH 104 (179)
Q Consensus 44 ~lIVDGYNvI~a----~p--~L~~~~~~~~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~------------~~~~ 104 (179)
++||||+|+|+. .| .|.. ..+.--.|---++.+|..... .+-..++||||+..+. .+..
T Consensus 1 l~lIDg~~l~~Ra~~a~~~~~l~~--~~G~~t~av~Gf~~~l~~ll~~~~p~~i~v~FD~~~~tfR~~~~~~YKa~R~~~ 78 (887)
T TIGR00593 1 LLLIDGHSLAFRAYFALKNKPLTN--SKGEPTNAVYGFTKMLLKLLKEEKPTYVAVAFDSGTPTFRHEAYAEYKANRAPT 78 (887)
T ss_pred CEEEeCcHHHHHHHHCCCcccCcC--CCCCEecHHHHHHHHHHHHHHhcCCCEEEEEEcCCCCcchHHHHHHHHhCCCCC
Confidence 489999999963 22 1211 112222333334444444432 3345799999986421 0111
Q ss_pred cee-------------ecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHH
Q 039224 105 KEE-------------FIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAA 153 (179)
Q Consensus 105 ~~~-------------~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a 153 (179)
++. .-||.++-.++-.||++|--++......| ..|+|||+|+...+.+
T Consensus 79 Pe~l~~Q~~~i~~~l~~~gi~~i~~~g~EADDiIatla~~~~~~g-~~v~IvS~DkDllQLv 139 (887)
T TIGR00593 79 PEELIEQIPLIKELLDALGIPILEVEGYEADDVIATLAKQAEKEG-YEVRIISGDKDLLQLV 139 (887)
T ss_pred hHHHHHHHHHHHHHHHHCCCcEEeeCCccHHHHHHHHHHHHHhCC-CcEEEEECCCChhhcC
Confidence 111 13676654433499999999999887653 6899999999988776
No 12
>PF02639 DUF188: Uncharacterized BCR, YaiI/YqxD family COG1671; InterPro: IPR003791 This entry describes proteins of unknown function.
Probab=96.71 E-value=0.0039 Score=48.99 Aligned_cols=70 Identities=17% Similarity=0.118 Sum_probs=52.3
Q ss_pred cccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCC--CChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceE
Q 039224 83 SMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGE--TCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFV 160 (179)
Q Consensus 83 ~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~--~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~ 160 (179)
+...+..+++|=|...... ....+++++-.. ..||.||-..+.. .=+|||.|--+...+.++||.+
T Consensus 6 a~r~~i~vi~Van~~h~~~-----~~~~~~~i~Vd~g~DaaD~~I~~~~~~-------gDiVITqDigLA~~~l~Kga~v 73 (130)
T PF02639_consen 6 AKRYGIPVIFVANYSHRLP-----RSPYVEMIVVDSGFDAADFYIVNHAKP-------GDIVITQDIGLASLLLAKGAYV 73 (130)
T ss_pred HHHHCCEEEEEeCCCccCC-----CCCCeEEEEECCCCChHHHHHHHcCCC-------CCEEEECCHHHHHHHHHCCCEE
Confidence 3455688888888653321 125667777765 5999999885432 3579999999999999999999
Q ss_pred ecHH
Q 039224 161 WSSK 164 (179)
Q Consensus 161 iSs~ 164 (179)
|+++
T Consensus 74 l~~r 77 (130)
T PF02639_consen 74 LNPR 77 (130)
T ss_pred ECCC
Confidence 9976
No 13
>COG0258 Exo 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair]
Probab=96.67 E-value=0.0024 Score=55.96 Aligned_cols=115 Identities=18% Similarity=0.128 Sum_probs=69.5
Q ss_pred CCccEEEEecccccCcccc-chhhhcCCCHH--HHHHHHHHHHHhccc-cCCceEEEEEcCCCCCC--------C-CCce
Q 039224 40 NAVPVLLVDGYNVCGYWPK-LENHFIKGRLD--VARQKLIEELVEFSM-IREVKVVVVFDALMSGL--------P-THKE 106 (179)
Q Consensus 40 ~~~~~lIVDGYNvI~a~p~-L~~~~~~~~Le--~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~~--------~-~~~~ 106 (179)
..+++++|||+|+++.+=. ++..+...... .|=.-+..+|.+... .+-..++|||||..+.. . .+..
T Consensus 9 ~~~~l~~IDg~~~lyr~~~a~~~~~~~~~g~~~~~~~~~~~~l~~~~~~~~~~~~~~vFD~~~~tfR~~~~~~yK~~R~~ 88 (310)
T COG0258 9 KSGKLLLIDGSSLLYRALHALPQPLGNPLGDPTGAVSGFLGMLYRLIRLLEPTHPVVVFDGKPPTFRHELLEEYKANREK 88 (310)
T ss_pred ccCcEEEEechHHHHHHHHhcchhcCCCCCCCccHHHHHHHHHHHHHHhcCCCcEEEEEcCCCCcchHHHHHHHHhCCCc
Confidence 3458999999999865521 10001111111 155666777766654 33389999999953210 0 0001
Q ss_pred -ee----------------cCeEEEeCCCC-ChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhC
Q 039224 107 -EF----------------IGVDIVFPGET-CADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGA 156 (179)
Q Consensus 107 -~~----------------~gi~VvfT~~~-TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~ 156 (179)
.. -|+... .-.+ .||+.|+-++....+.| ..++++|+|....+.+-..
T Consensus 89 ~~p~~l~~q~~~i~~~~~~~~~~~l-~~~G~eadd~i~t~A~~a~~~g-~~~~I~S~DkD~lql~~~~ 154 (310)
T COG0258 89 EMPDELAPQIPILTELLVALGIPLL-ELMGIEADDPIETLAQKAYKKG-DVVLIISGDKDLLQLVSPN 154 (310)
T ss_pred cCHHHHHHHHHHHHHHHHHhCcHhh-hcCCCCcchhHHHHHHHHHhcC-CeEEEEeCCcchhhhcCCC
Confidence 00 133222 2223 69999999999888543 6899999999998887554
No 14
>PRK00124 hypothetical protein; Validated
Probab=96.16 E-value=0.021 Score=46.19 Aligned_cols=71 Identities=18% Similarity=-0.004 Sum_probs=50.0
Q ss_pred ccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCC--CChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 84 MIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGE--TCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 84 ~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~--~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
...+..+++|=+-...-. ......++.++-.. ..||.||.+.+.. .=+|||.|--+...+.++||.+|
T Consensus 21 ~r~~i~v~~Vas~n~~~~---~~~~~~v~~v~V~~g~D~AD~~Iv~~~~~-------gDiVIT~Di~LAa~~l~Kga~vl 90 (151)
T PRK00124 21 ERHGIPVTLVASFNHFLR---VPYSPFIRTVYVDAGFDAADNEIVQLAEK-------GDIVITQDYGLAALALEKGAIVL 90 (151)
T ss_pred HHHCCeEEEEEeCCcccC---CCCCCceEEEEeCCCCChHHHHHHHhCCC-------CCEEEeCCHHHHHHHHHCCCEEE
Confidence 345577788774222110 11234567777765 5999999885442 36899999999999999999999
Q ss_pred cHH
Q 039224 162 SSK 164 (179)
Q Consensus 162 Ss~ 164 (179)
+++
T Consensus 91 ~pr 93 (151)
T PRK00124 91 NPR 93 (151)
T ss_pred CCC
Confidence 975
No 15
>PF11977 RNase_Zc3h12a: Zc3h12a-like Ribonuclease NYN domain; InterPro: IPR021869 This domain is found in the Zc3h12a protein which has shown to be a ribonuclease that controls the stability of a set of inflammatory genes []. It has been suggested that this domain belongs to the PIN domain superfamily []. ; PDB: 3V33_A 3V34_B 3V32_B.
Probab=96.00 E-value=0.0085 Score=47.59 Aligned_cols=92 Identities=21% Similarity=0.215 Sum_probs=44.7
Q ss_pred ccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCC----CC-CCCc----eeecCeE
Q 039224 42 VPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMS----GL-PTHK----EEFIGVD 112 (179)
Q Consensus 42 ~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~----~~-~~~~----~~~~gi~ 112 (179)
.+.+||||-||- |-.... ..+. -+-|..+.+|....|+++++|||.... .. .... +-...=.
T Consensus 2 ~r~VVIDG~NVA--~~~~~~----~~f~---~~~i~~~v~~~~~rG~~~v~v~~~~~~~~~~~~~~~~~~~L~~l~~~~~ 72 (155)
T PF11977_consen 2 LRPVVIDGSNVA--YSHGNQ----KFFS---VRGIQIAVEYFKSRGHEVVVVFPPNYRYKKLAKKSDDQEELEKLIRKGI 72 (155)
T ss_dssp B--EEEEHHHHH--HHHTTT----TSEE---HHHHHHHHHHHHHTT---EEEEEEGGGGS-TTS-EESTCHHHHHHHTTS
T ss_pred CCEEEEeCHHHH--hhcCCC----CCcC---HHHHHHHHHHHHHcCCCeEEEEcchhhhccccCCCChHHHHHHHHHCCe
Confidence 467999999993 211111 1111 234555666666779999999997652 11 1000 0112223
Q ss_pred EEeCCCCC---------hHHHHHHHHHHHhhCCCCcEEEEcCCHH
Q 039224 113 IVFPGETC---------ADAWIEKEIVALREDGCPKVWVVTSDHL 148 (179)
Q Consensus 113 VvfT~~~T---------AD~~IErlv~~~~~~~~~~V~VVTSD~~ 148 (179)
|++|+.++ +|.+|..++.+. .-.|||+|+.
T Consensus 73 i~~tp~~~~~g~~~~~ydD~~il~~A~~~------~a~IVSND~f 111 (155)
T PF11977_consen 73 IYFTPSGSNYGSRSRNYDDRYILYYAEEK------DAVIVSNDRF 111 (155)
T ss_dssp EEEE-EEEETTEEEEB-HHHHHHHHHHHT------T-EEE-S---
T ss_pred EEEcCCCCCCCCcccccchHHHHHHHHHc------CCEEEeCchH
Confidence 67777654 788887776653 2467788864
No 16
>COG1671 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=95.34 E-value=0.074 Score=43.06 Aligned_cols=75 Identities=21% Similarity=0.145 Sum_probs=55.0
Q ss_pred HHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCC--CChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHh
Q 039224 78 ELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGE--TCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYG 155 (179)
Q Consensus 78 ~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~--~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~ 155 (179)
.+...+...|..|++|=...... + ....++.++... ..||.||.+++.. .=+|||.|--+...+..
T Consensus 16 ~i~r~A~r~~~~v~~Van~~~~~----~-~~~~i~~v~V~~g~DaaD~~Iv~~a~~-------gDlVVT~Di~LA~~ll~ 83 (150)
T COG1671 16 EIYRVAERMGLKVTFVANFPHRV----P-PSPEIRTVVVDAGFDAADDWIVNLAEK-------GDLVVTADIPLASLLLD 83 (150)
T ss_pred HHHHHHHHhCCeEEEEeCCCccC----C-CCCceeEEEecCCcchHHHHHHHhCCC-------CCEEEECchHHHHHHHh
Confidence 34445556678999987654332 1 335567777765 5999999885432 35899999999999999
Q ss_pred CCceEecHH
Q 039224 156 AGAFVWSSK 164 (179)
Q Consensus 156 ~GA~~iSs~ 164 (179)
.||.+|+++
T Consensus 84 kg~~v~~pr 92 (150)
T COG1671 84 KGAAVLNPR 92 (150)
T ss_pred cCCEEECCC
Confidence 999999875
No 17
>COG2454 Uncharacterized conserved protein [Function unknown]
Probab=95.12 E-value=0.045 Score=46.43 Aligned_cols=101 Identities=26% Similarity=0.222 Sum_probs=50.3
Q ss_pred CccEEEEecccccCccc----------------cchhhhcCCCHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCCCCC
Q 039224 41 AVPVLLVDGYNVCGYWP----------------KLENHFIKGRLDVARQKLIEELVEFSM-IREVKVVVVFDALMSGLPT 103 (179)
Q Consensus 41 ~~~~lIVDGYNvI~a~p----------------~L~~~~~~~~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~~~~ 103 (179)
+...|+||||||+=... +++-....--+.+--++-+++|.+|-. ..-..+++.||+..+.+..
T Consensus 65 rg~~l~iDGyNvLItleSl~~g~~vlcdDg~iRDl~~~~gkyk~~E~t~~Al~lil~~lk~~~~k~vi~L~d~~vs~SGe 144 (211)
T COG2454 65 RGQDLVIDGYNVLITLESLLKGEAVLCDDGVIRDLRGVQGKYKINEKTDKALDLLLEFLKDVEPKSVIFLFDAPVSKSGE 144 (211)
T ss_pred ccceEEEechhhhhhHHHHhcCcEEEecCchhhhhhhhccchhhhhHHHHHHHHHHHHHHHcCCceEEEEeCCCCCccHH
Confidence 34679999999983221 111000001111222334444444433 4455678888887643211
Q ss_pred ---C-ce--eecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHH
Q 039224 104 ---H-KE--EFIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHA 152 (179)
Q Consensus 104 ---~-~~--~~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~ 152 (179)
. ++ ..-+|.+-=.-..+||..+. +. . .|+|||..|-..
T Consensus 145 l~~~i~~~mK~~~I~g~~~lvk~~D~eLk-------~~---e-~VaTsD~~IIds 188 (211)
T COG2454 145 LAGRIEEKMKSLGIPGEASLVKNADFELK-------EL---E-VVATSDSGIIDS 188 (211)
T ss_pred HHHHHHHHHHhcCCCceeEeccCcCHHHH-------hc---C-ceeecCeeeeee
Confidence 1 11 22344432222368887665 11 2 899999766544
No 18
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=95.02 E-value=0.05 Score=43.29 Aligned_cols=51 Identities=14% Similarity=0.094 Sum_probs=43.3
Q ss_pred ecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEecHH
Q 039224 108 FIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVWSSK 164 (179)
Q Consensus 108 ~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~iSs~ 164 (179)
..+.+++.+ .+-||+.|.+.+.++. .++|+|+|+++.+.++..|.-+++-+
T Consensus 74 ~er~~~~~~-~~~aDe~i~~~a~~~~-----~~iVaTnD~eLk~rlr~~GIPvi~lr 124 (136)
T COG1412 74 AERLECIHK-GRYADECLLEAALKHG-----RYIVATNDKELKRRLRENGIPVITLR 124 (136)
T ss_pred hhccCcccc-CCChHHHHHHHHHHcC-----CEEEEeCCHHHHHHHHHcCCCEEEEe
Confidence 456788888 7788999999888764 59999999999999999998887643
No 19
>PTZ00217 flap endonuclease-1; Provisional
Probab=93.91 E-value=0.16 Score=46.54 Aligned_cols=36 Identities=19% Similarity=0.131 Sum_probs=25.4
Q ss_pred cCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHH
Q 039224 109 IGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQ 150 (179)
Q Consensus 109 ~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq 150 (179)
-||.++-++. .||+.+-.+.. .| .-..|+|.|..+-
T Consensus 150 ~Gip~i~AP~-EAdaq~A~L~~----~g-~v~~ViS~D~D~l 185 (393)
T PTZ00217 150 MGIPVIEAPC-EAEAQCAELVK----KG-KVYAVATEDMDAL 185 (393)
T ss_pred cCCceEECCc-CHHHHHHHHHH----CC-CeEEEeCCCcCee
Confidence 4888887765 89997777653 22 3466899998654
No 20
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=92.12 E-value=0.26 Score=44.10 Aligned_cols=65 Identities=18% Similarity=0.235 Sum_probs=36.4
Q ss_pred CCCCC-CCccEEEEecccccCcccc-ch-----hhh-cCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCCC
Q 039224 35 NQGID-NAVPVLLVDGYNVCGYWPK-LE-----NHF-IKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSG 100 (179)
Q Consensus 35 ~~~~~-~~~~~lIVDGYNvI~a~p~-L~-----~~~-~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~ 100 (179)
...++ .+.+.+.|||++.||..=. .+ .+. ..+..-.+=..++..+.++. ..|.+.++||||...+
T Consensus 13 ~~~l~~~~gk~vaIDas~~L~r~~~a~~~~~g~~l~~~~G~~t~~l~g~~~~~~~ll-~~~i~Pv~VFDG~~p~ 85 (338)
T TIGR03674 13 EIELEDLSGKVVAVDAFNALYQFLSSIRQPDGTPLMDSRGRITSHLSGLFYRTINLL-ENGIKPVYVFDGKPPE 85 (338)
T ss_pred ccCHHHhCCCEEEEeHHHHHHHHHHHHhccccchhhhccCCCcHHHHHHHHHHHHHH-HCCCeEEEEECCCChh
Confidence 33444 4567999999999984310 10 000 01111123344455555553 3568889999998643
No 21
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=92.02 E-value=0.44 Score=36.37 Aligned_cols=110 Identities=12% Similarity=0.045 Sum_probs=59.5
Q ss_pred cEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCC--CCC--CCceeecCeEEEeCC-
Q 039224 43 PVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMS--GLP--THKEEFIGVDIVFPG- 117 (179)
Q Consensus 43 ~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~--~~~--~~~~~~~gi~VvfT~- 117 (179)
-.++|||-|+-.+...... ...++....+.+... ......-+|-.... ... ...-...|++++...
T Consensus 3 ~~ifiD~~Nl~~~~~~~~~--~~~d~~~l~~~~~~~-------~~~~~~r~y~~~~~~~~~~~~~~~L~~~g~~~~~~~~ 73 (149)
T cd06167 3 VAVFIDGENLYYSLRDLGG--KRFDYRKLLEFLRDG-------GEIVLARAYGNWTSPERQRGFLDALRRLGFEPIQKPL 73 (149)
T ss_pred EEEEEeHHHHHHHHHHhcC--CCcCHHHHHHHHHhC-------CeEEEEEEEEecCCchhHHHHHHHHHHCCcEEEEEcc
Confidence 5789999999865543321 123444333333322 22333344433321 100 011234677776554
Q ss_pred ------CCChHHHH-HHHHHHHhhCCCCcEEEEcCCHHHH---HHHHhCCceEe
Q 039224 118 ------ETCADAWI-EKEIVALREDGCPKVWVVTSDHLQQ---HAAYGAGAFVW 161 (179)
Q Consensus 118 ------~~TAD~~I-Erlv~~~~~~~~~~V~VVTSD~~iq---~~a~~~GA~~i 161 (179)
++.+|..| .+++..+...+...+++||+|...- +.++..|..++
T Consensus 74 ~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~G~~V~ 127 (149)
T cd06167 74 RTRGSGKKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVERLRELGKRVI 127 (149)
T ss_pred eecCCcccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHcCCEEE
Confidence 25899777 4555555544446799999998754 34556666653
No 22
>PRK13764 ATPase; Provisional
Probab=91.92 E-value=0.47 Score=45.92 Aligned_cols=101 Identities=20% Similarity=0.140 Sum_probs=61.3
Q ss_pred cchhhhcCCCHHHHHHH--HHHHHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCCChHHHHHHHHHHHhhC
Q 039224 58 KLENHFIKGRLDVARQK--LIEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGETCADAWIEKEIVALRED 135 (179)
Q Consensus 58 ~L~~~~~~~~Le~AR~~--Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~TAD~~IErlv~~~~~~ 135 (179)
+|.. .++...+..|.. .+..|.+... +-.+.|.|.+..+. . -.+-..+.+..|+.|.+++.+.
T Consensus 38 ELe~-~A~~~r~~G~~gLeeL~~L~~l~~--~g~i~ie~~~~~p~---~------~~~~~~~~gevD~~I~~~A~~~--- 102 (602)
T PRK13764 38 ELEA-QANQGREIGFSGLEELKKLRELAE--EGLIELEFVGERPT---L------EQIKLAKGGEIDALIREVAKEL--- 102 (602)
T ss_pred HHHH-HhhccchhhHHHHHHHHHHHHhhc--cCceEEEEeccccc---h------hhcccccCCCHHHHHHHHHHHc---
Confidence 4555 344455555544 3444554432 23455556543211 0 0123344468999999988853
Q ss_pred CCCcEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHHHhh
Q 039224 136 GCPKVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLIIYY 176 (179)
Q Consensus 136 ~~~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~~~~ 176 (179)
.+++||+|..++..|+..|..++.-+.-.+.+.-..||
T Consensus 103 ---~~~lvT~D~~l~~~A~~~GI~V~~l~~~~~~L~ie~~~ 140 (602)
T PRK13764 103 ---GATLVTSDRVQAEVARAKGIDVIYLKPEREPLEIEKFF 140 (602)
T ss_pred ---CCEEEeCCHHHHHHHHHcCCEEEEeCCCCCccchHHHh
Confidence 58999999999999999999998766543334444444
No 23
>PF13638 PIN_4: PIN domain; PDB: 2HWW_C 2HWX_A 2DOK_B 2HWY_B 2WP8_J.
Probab=91.12 E-value=0.36 Score=36.27 Aligned_cols=45 Identities=27% Similarity=0.156 Sum_probs=33.6
Q ss_pred CChHHHHHHHHHHHhhCC-CCcEEEEcCCHHHHHHHHhCCceEecH
Q 039224 119 TCADAWIEKEIVALREDG-CPKVWVVTSDHLQQHAAYGAGAFVWSS 163 (179)
Q Consensus 119 ~TAD~~IErlv~~~~~~~-~~~V~VVTSD~~iq~~a~~~GA~~iSs 163 (179)
.+.|+.|-..+..+.... ...|+++|+|..++..|.+.|-.+.|-
T Consensus 87 ~~~D~~Il~~a~~~~~~~~~~~vvLvT~D~~l~~~A~~~gi~~~~~ 132 (133)
T PF13638_consen 87 QRNDDRILNCALYLQEENPGRKVVLVTNDKNLRLKARAEGIPAVSY 132 (133)
T ss_dssp -HHHHHHHHHHHHHHHHCGCEEEEEEE--HHHHHHHHHTT--EE--
T ss_pred cccHHHHHHHHHHHHHhcCCCeEEEEeCCHHHHHHHhhcccccccC
Confidence 599999999998887642 458999999999999999999988874
No 24
>PF00752 XPG_N: XPG N-terminal domain; InterPro: IPR006085 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. People's skin cells with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-G is one of the most rare and phenotypically heterogeneous of XP, showing anything from slight to extreme dysfunction in DNA excision repair [, ]. XP-G can be corrected by a 133 Kd nuclear protein, XPGC []. XPGC is an acidic protein that confers normal UV resistance in expressing cells []. It is a magnesium-dependent, single-strand DNA endonuclease that makes structure-specific endonucleolytic incisions in a DNA substrate containing a duplex region and single-stranded arms [, ]. XPGC cleaves one strand of the duplex at the border with the single-stranded region []. XPG belongs to a family of proteins that includes RAD2 from Saccharomyces cerevisiae (Baker's yeast) and rad13 from Schizosaccharomyces pombe (Fission yeast), which are single-stranded DNA endonucleases [, ]; mouse and human FEN-1, a structure-specific endonuclease; RAD2 from fission yeast and RAD27 from budding yeast; fission yeast exo1, a 5'-3' double-stranded DNA exonuclease that may act in a pathway that corrects mismatched base pairs; yeast DHS1, and yeast DIN7. Sequence alignment of this family of proteins reveals that similarities are largely confined to two regions. The first is located at the N-terminal extremity (N-region) and corresponds to the first 95 to 105 amino acids. The second region is internal (I-region) and found towards the C terminus; it spans about 140 residues and contains a highly conserved core of 27 amino acids that includes a conserved pentapeptide (E-A-[DE]-A-[QS]). It is possible that the conserved acidic residues are involved in the catalytic mechanism of DNA excision repair in XPG. The amino acids linking the N- and I-regions are not conserved. This entry represents the N-terminal of XPG.; GO: 0004518 nuclease activity, 0006281 DNA repair; PDB: 1A77_A 1A76_A 1MC8_B 3QEB_Z 3QEA_Z 3QE9_Y 1UL1_Z 3Q8K_A 3Q8M_A 3Q8L_A ....
Probab=90.38 E-value=0.2 Score=36.48 Aligned_cols=58 Identities=14% Similarity=0.082 Sum_probs=30.7
Q ss_pred ccEEEEecccccCccccchhhhcCCCH--HHHHHHHHHHHHhccccCCceEEEEEcCCCCC
Q 039224 42 VPVLLVDGYNVCGYWPKLENHFIKGRL--DVARQKLIEELVEFSMIREVKVVVVFDALMSG 100 (179)
Q Consensus 42 ~~~lIVDGYNvI~a~p~L~~~~~~~~L--e~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~ 100 (179)
...+-|||++.|+..-.-...-...+. ..-...++..+..+ ...|...++||||...+
T Consensus 26 g~~vaID~s~wl~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~L-~~~gI~PifVFDG~~~~ 85 (101)
T PF00752_consen 26 GKRVAIDASCWLHQFLFSCREELGQGVGTDSHLRGLFSRLCRL-LEHGIKPIFVFDGKPPP 85 (101)
T ss_dssp TCEEEEEHHHHHHHHHHHSBCTTSCB-BS-HHHHHHHHHHHHH-HHTTEEEEEEE--STTG
T ss_pred CCEEEEEcHHHHHHHHHHhHHHhccccchHHHHHHHHHHHHHH-HHCCCEEEEEECCCCch
Confidence 378999999999753110000000111 23334555555544 35579999999998543
No 25
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=88.78 E-value=0.69 Score=34.00 Aligned_cols=40 Identities=23% Similarity=0.005 Sum_probs=32.0
Q ss_pred CCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHH-hCCceEec
Q 039224 118 ETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAY-GAGAFVWS 162 (179)
Q Consensus 118 ~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~-~~GA~~iS 162 (179)
..+||+-|.+++...+ ..+|+|.|..+++..+ ..|.-+|.
T Consensus 50 ~~~addci~~~~~~~~-----~~~VaT~D~~Lr~~lr~~~GvPvi~ 90 (101)
T PF04900_consen 50 PGSADDCILDLAGKNN-----KYIVATQDKELRRRLRKIPGVPVIY 90 (101)
T ss_pred CcCHHHHHHHHhccCC-----eEEEEecCHHHHHHHhcCCCCCEEE
Confidence 3489999999986322 2999999999999999 77776654
No 26
>PRK04358 hypothetical protein; Provisional
Probab=87.40 E-value=1.1 Score=38.37 Aligned_cols=36 Identities=14% Similarity=0.040 Sum_probs=32.8
Q ss_pred cEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHHH
Q 039224 139 KVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLII 174 (179)
Q Consensus 139 ~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~~ 174 (179)
..+|||+|..+|+.|...|-..+++..|...+++..
T Consensus 175 da~lvTdD~giqn~A~~LGI~~~~~~~F~~~Lee~l 210 (217)
T PRK04358 175 DAAVVSADEGIRKWAERLGLRFVDARKFPRMLEEYL 210 (217)
T ss_pred CCEEEeCCHHHHHHHHHcCCeeecHHHHHHHHHHHH
Confidence 479999999999999999999999999998887643
No 27
>TIGR03875 RNA_lig_partner RNA ligase partner, MJ_0950 family. This uncharacterized protein family is found almost perfectly in the same set of genomes as the Pab1020 family described by model TIGR01209. These pairs are found mostly in Archaea, but also in a few bacteria (e.g. Alkalilimnicola ehrlichei MLHE-1, Aquifex aeolicus). While the partner protein has been described as homodimeric ligase that has RNA circularization activity, the function of this protein (also called UPF0278) is unknown.
Probab=86.63 E-value=1.2 Score=37.86 Aligned_cols=34 Identities=15% Similarity=0.027 Sum_probs=31.8
Q ss_pred cEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHH
Q 039224 139 KVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSL 172 (179)
Q Consensus 139 ~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~ 172 (179)
..+|||+|..+|+.|...|-..+++..|...++.
T Consensus 171 da~lvTdD~giqn~A~~Lgi~~~~~~~f~~~L~e 204 (206)
T TIGR03875 171 DAAVVSADEGIRKWAERLGLRFVDARNFPEMLEE 204 (206)
T ss_pred CcEEEeCcHHHHHHHHHcCCeeecHHHHHHHHHH
Confidence 5899999999999999999999999999988875
No 28
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=85.53 E-value=6.8 Score=31.98 Aligned_cols=116 Identities=22% Similarity=0.151 Sum_probs=63.3
Q ss_pred CCccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCC
Q 039224 40 NAVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGET 119 (179)
Q Consensus 40 ~~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~ 119 (179)
+++--++|||=|+-. +.+ ..+++ .+++.|+.+....-.++.+ |++........-...|++.++++.
T Consensus 22 ~~riAvfID~~Nv~~------~~~-~~d~~----~i~~~ls~~G~i~~~R~Y~--~a~a~~~l~~~l~~~Gf~pv~~kG- 87 (160)
T TIGR00288 22 EKKIGLLVDGPNMLR------KEF-NIDLD----EIREILSEYGDIKIGKVLL--NQYASDKLIEAVVNQGFEPIIVAG- 87 (160)
T ss_pred CCcEEEEEeCCccCh------hhh-ccCHH----HHHHHHHhcCCeEEEEEEe--chhccHHHHHHHHHCCceEEEecC-
Confidence 555789999999952 111 23443 4556666665433223332 443322111122447888887755
Q ss_pred ChHHHH-HHHHHHHhhCCCCcEEEEcCCHHHHHHH---HhCCceE-------ecHHHHHHH
Q 039224 120 CADAWI-EKEIVALREDGCPKVWVVTSDHLQQHAA---YGAGAFV-------WSSKALVSE 169 (179)
Q Consensus 120 TAD~~I-Erlv~~~~~~~~~~V~VVTSD~~iq~~a---~~~GA~~-------iSs~ef~~~ 169 (179)
+.|--| .+.+.-+-.+.-..+.+||||..-...+ +..|..+ .+|..|.+.
T Consensus 88 ~~Dv~laIDame~~~~~~iD~~vLvSgD~DF~~Lv~~lre~G~~V~v~g~~~~ts~~L~~a 148 (160)
T TIGR00288 88 DVDVRMAVEAMELIYNPNIDAVALVTRDADFLPVINKAKENGKETIVIGAEPGFSTALQNS 148 (160)
T ss_pred cccHHHHHHHHHHhccCCCCEEEEEeccHhHHHHHHHHHHCCCEEEEEeCCCCChHHHHHh
Confidence 556433 4444444222235699999999766554 4566554 355555543
No 29
>smart00485 XPGN Xeroderma pigmentosum G N-region. domain in nucleases
Probab=85.51 E-value=0.38 Score=35.01 Aligned_cols=59 Identities=12% Similarity=-0.112 Sum_probs=33.1
Q ss_pred CCccEEEEecccccCccccch---hhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCCC
Q 039224 40 NAVPVLLVDGYNVCGYWPKLE---NHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSG 100 (179)
Q Consensus 40 ~~~~~lIVDGYNvI~a~p~L~---~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~ 100 (179)
...+.+-|||++.|+..-.-. ......+.. .-.-++..+..+. ..|...++||||...+
T Consensus 22 l~g~~vaIDa~~wl~~~~~~~~~~~~~~~~~~~-~l~~~~~rl~~L~-~~~I~PifVFDG~~~~ 83 (99)
T smart00485 22 LRGKTLAIDASIWLYQFLTACREKLGTPLPNSK-HLMGLFYRTCRLL-EFGIKPIFVFDGKPPP 83 (99)
T ss_pred hCCceEeccHHHHHHHHHHHHhhhhcCCCCchH-HHHHHHHHHHHHH-HCCCeEEEEECCCCch
Confidence 446789999999986431100 000011111 2233444444444 4779999999998643
No 30
>COG1212 KdsB CMP-2-keto-3-deoxyoctulosonic acid synthetase [Cell envelope biogenesis, outer membrane]
Probab=85.06 E-value=2 Score=37.35 Aligned_cols=39 Identities=21% Similarity=0.126 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 123 AWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 123 ~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
..|++...+..+.+..+|+|+|.|..+...+.+.|+.++
T Consensus 29 pmI~rV~e~a~~s~~~rvvVATDde~I~~av~~~G~~av 67 (247)
T COG1212 29 PMIVRVAERALKSGADRVVVATDDERIAEAVQAFGGEAV 67 (247)
T ss_pred hHHHHHHHHHHHcCCCeEEEEcCCHHHHHHHHHhCCEEE
Confidence 468888888887667899999999999999999998865
No 31
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=84.92 E-value=0.93 Score=39.64 Aligned_cols=58 Identities=16% Similarity=0.015 Sum_probs=33.7
Q ss_pred CccEEEEecccccCcccc-chhh-hcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCC
Q 039224 41 AVPVLLVDGYNVCGYWPK-LENH-FIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMS 99 (179)
Q Consensus 41 ~~~~lIVDGYNvI~a~p~-L~~~-~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~ 99 (179)
+.+.+.||||+.||..-. .... ...+.-..+-..++..|..+.. .+...++||||...
T Consensus 23 ~gk~laID~~~~l~r~~~a~~~~~~~~g~~~~~l~~~~~rl~~L~~-~~i~pvfVFDG~~~ 82 (316)
T cd00128 23 RGKKVAIDASIWLYQFLKACRQELGSGGETTSHLQGFFYRTCRLLE-LGIKPVFVFDGKPP 82 (316)
T ss_pred CCcEEEecHHHHHHHHHHHhhhhccCCCCCcHHHHHHHHHHHHHHH-CCCEEEEEEcCCCc
Confidence 457899999999964310 0000 0112223344555555555553 45899999999643
No 32
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=81.02 E-value=5.4 Score=31.36 Aligned_cols=61 Identities=13% Similarity=0.130 Sum_probs=45.2
Q ss_pred eecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCc-eEecHHHHHHHHHHHH
Q 039224 107 EFIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGA-FVWSSKALVSEVSLII 174 (179)
Q Consensus 107 ~~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA-~~iSs~ef~~~l~~~~ 174 (179)
..-|+.++|.. +-.|..|.+++.+ ..-+++|.|+.+...+...|+ ..+.+....+++.+.+
T Consensus 17 R~lG~Dt~~~~-~~~D~~il~~A~~------e~RillTrd~~l~~~~~~~~~~~li~~~~~~~QL~ev~ 78 (147)
T PF01927_consen 17 RLLGYDTLYSR-DIDDDEILELARE------EGRILLTRDRDLLKRRRVSGGVILIRSDDPEEQLREVL 78 (147)
T ss_pred HHCCCcEEEeC-CCChHHHHHHhhh------CCeEEEECCHHHHHHhhccCCEEEEcCCCHHHHHHHHH
Confidence 34577777776 3367777665543 346899999999999998876 7888888888877663
No 33
>PF08745 UPF0278: UPF0278 family; InterPro: IPR022785 This entry contains proteins of the UPF0278 family and proteins containing PIN domains. Members of the UPF0278 family are uncharacterised and about 200 amino acids in length.; PDB: 2LCQ_A.
Probab=80.02 E-value=3.2 Score=35.28 Aligned_cols=34 Identities=18% Similarity=0.012 Sum_probs=14.9
Q ss_pred EEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHH
Q 039224 140 VWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLI 173 (179)
Q Consensus 140 V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~ 173 (179)
-.|||+|..+|..|...|-+.+.+..|...++..
T Consensus 169 a~lvt~D~gi~~~A~~lGi~~i~~~~F~~~Leey 202 (205)
T PF08745_consen 169 AVLVTDDYGIQNWAEKLGIRFIDARDFPRMLEEY 202 (205)
T ss_dssp --EE---HHHHHHHHHTT--EE------------
T ss_pred CEEEeCCHhHHHHHHHCCCEEEeccccccccccc
Confidence 5799999999999999999999999998888754
No 34
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=79.69 E-value=14 Score=29.76 Aligned_cols=99 Identities=27% Similarity=0.292 Sum_probs=63.2
Q ss_pred HHHHHHHHHHHHhccccCC-ceEEEEEcCCCC----CC----C-CC-ce-----eecCeEEE----eCCC--C-ChHHHH
Q 039224 69 DVARQKLIEELVEFSMIRE-VKVVVVFDALMS----GL----P-TH-KE-----EFIGVDIV----FPGE--T-CADAWI 125 (179)
Q Consensus 69 e~AR~~Li~~L~~y~~~~g-~~V~VVFDa~~~----~~----~-~~-~~-----~~~gi~Vv----fT~~--~-TAD~~I 125 (179)
...=.+|++.+.+.+...+ ..++|.||.+.. +. + .. .+ ..-|+..+ |+.+ + +|+++|
T Consensus 12 H~GH~~ll~~a~~~a~~~~~~~vvv~f~~~p~~~~~~~~~~~~l~~~e~R~~~l~~l~vd~v~~~~f~~~~~~~s~~~Fi 91 (180)
T cd02064 12 HLGHQALIKTLKKIARERGLPSAVLTFDPHPREVFLPDKAPPRLTTLEEKLELLESLGVDYLLVLPFDKEFASLSAEEFV 91 (180)
T ss_pred CHHHHHHHHHHHHHHHHcCCCeEEEEECCCHHHHhCCCCCCCcCCCHHHHHHHHHHcCCCEEEEeCCCHHHHcCCHHHHH
Confidence 3344778888888887544 467888998641 11 0 00 01 11233222 5553 3 999999
Q ss_pred HHHHHHHhhCCCCcEEEEcCCHH-----------HHHHHHhCCc------------eEecHHHHHHHHH
Q 039224 126 EKEIVALREDGCPKVWVVTSDHL-----------QQHAAYGAGA------------FVWSSKALVSEVS 171 (179)
Q Consensus 126 Erlv~~~~~~~~~~V~VVTSD~~-----------iq~~a~~~GA------------~~iSs~ef~~~l~ 171 (179)
+.++...+ ...+||..|.. ++..+..+|. ..+||-...+.|.
T Consensus 92 ~~il~~~~----~~~ivvG~Df~FG~~~~g~~~~L~~~~~~~g~~v~~v~~~~~~~~~iSST~IR~~i~ 156 (180)
T cd02064 92 EDLLVKLN----AKHVVVGFDFRFGKGRSGDAELLKELGKKYGFEVTVVPPVTLDGERVSSTRIREALA 156 (180)
T ss_pred HHHHhhcC----CeEEEEccCCCCCCCCCCCHHHHHHhhhhcCcEEEEeCcEecCCcEEcHHHHHHHHH
Confidence 99887652 46899999983 6677776664 3478887777664
No 35
>PF02348 CTP_transf_3: Cytidylyltransferase; InterPro: IPR003329 Synonym(s): CMP-N-acetylneuraminic acid synthetase Acylneuraminate cytidylyltransferase (2.7.7.43 from EC) (CMP-NeuAc synthetase) catalyzes the reaction of CTP and NeuAc to form CMP-NeuAc, which is the nucleotide sugar donor used by sialyltransferases []. The outer membrane lipooligosaccharides of some microorganisms contain terminal sialic acid attached to N-acetyllactosamine and so this modification may be important in pathogenesis.; GO: 0009103 lipopolysaccharide biosynthetic process; PDB: 3K8D_C 1VH1_B 3K8E_C 1QWJ_A 3EWI_A 1VIC_B 3DUV_A 1VH3_C 3TQD_A 2Y6P_C ....
Probab=75.23 E-value=8.5 Score=30.81 Aligned_cols=39 Identities=26% Similarity=0.135 Sum_probs=28.2
Q ss_pred HHHHHHHHHhhCC-CCcEEEEcCCHHHHHHHHhCCceEec
Q 039224 124 WIEKEIVALREDG-CPKVWVVTSDHLQQHAAYGAGAFVWS 162 (179)
Q Consensus 124 ~IErlv~~~~~~~-~~~V~VVTSD~~iq~~a~~~GA~~iS 162 (179)
+|+..+.++.+.+ -.+|+|.|+|..+...+..+|+.++-
T Consensus 26 Li~~~i~~a~~s~~~d~IvVaTd~~~i~~~~~~~g~~v~~ 65 (217)
T PF02348_consen 26 LIEYVIERAKQSKLIDEIVVATDDEEIDDIAEEYGAKVIF 65 (217)
T ss_dssp HHHHHHHHHHHTTTTSEEEEEESSHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHhCCCCCeEEEeCCCHHHHHHHHHcCCeeEE
Confidence 3444444444422 25799999999999999999987753
No 36
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=72.52 E-value=13 Score=35.81 Aligned_cols=58 Identities=24% Similarity=0.137 Sum_probs=43.7
Q ss_pred eEEEEEcCCCCCCCCCceeecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 89 KVVVVFDALMSGLPTHKEEFIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 89 ~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
.+.++|=|-.+. +=+|--++++..|.+|.+.+.+. ..+.||||+..+..|++.|-.+.
T Consensus 72 ~i~~~~~gerp~---------~~~Ik~ak~GEid~miR~vA~e~------~a~lVTsD~vQ~~va~a~Giev~ 129 (604)
T COG1855 72 KIELEFVGERPT---------LEEIKRAKSGEIDAMIREVALEY------GATLVTSDRVQRDVARAKGIEVE 129 (604)
T ss_pred cEEEEEEeccCc---------hhhhcccccccHHHHHHHHHHHh------CcEEEechHHHHHHHHhcCceEE
Confidence 477777655332 11344456689999999988875 37899999999999999998765
No 37
>COG1458 Predicted DNA-binding protein containing PIN domain [General function prediction only]
Probab=69.93 E-value=7.2 Score=33.32 Aligned_cols=34 Identities=18% Similarity=-0.043 Sum_probs=31.2
Q ss_pred EEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHH
Q 039224 140 VWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLI 173 (179)
Q Consensus 140 V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~ 173 (179)
-.|||||.-|+.-|...|-+.+.+-.|-+.|++.
T Consensus 176 aavVssD~Gir~WAe~LGlrfv~a~~Fp~ml~ey 209 (221)
T COG1458 176 AAVVSSDEGIRTWAEKLGLRFVDAFKFPEMLEEY 209 (221)
T ss_pred ceEEecchhHHHHHHHhCCeeeCHhhhHHHHHHH
Confidence 5799999999999999999999999999888764
No 38
>PRK05601 DNA polymerase III subunit epsilon; Validated
Probab=69.61 E-value=13 Score=34.31 Aligned_cols=67 Identities=21% Similarity=0.134 Sum_probs=50.2
Q ss_pred eecCeEEEeCCC-C-ChHHHHHHHHHHHhh----CCCCcEEEEcCCHH----HHHHHHhCCceEecHHHHHHHHHHH
Q 039224 107 EFIGVDIVFPGE-T-CADAWIEKEIVALRE----DGCPKVWVVTSDHL----QQHAAYGAGAFVWSSKALVSEVSLI 173 (179)
Q Consensus 107 ~~~gi~VvfT~~-~-TAD~~IErlv~~~~~----~~~~~V~VVTSD~~----iq~~a~~~GA~~iSs~ef~~~l~~~ 173 (179)
-..||+|++|++ . +-|++|++.+..--. -.+..=.||++|.. =..+|...|--.||-++|+..++.+
T Consensus 294 lv~Gm~v~~~~e~~~~~d~li~~~~~agL~y~~~~~r~tslvv~n~~~~~~gk~~~a~~~gipl~~d~~fl~~~~~v 370 (377)
T PRK05601 294 LVAGMEVVVAPEITMDPDIIIQAIVRAGLAYSEKLTRQTSVVVCNQTRDLDGKAMHAQRKGIPLLSDVAFLAAVERV 370 (377)
T ss_pred cccCcEEEEeCCccCCHHHHHHHHHHccchhhhccccceeEEEeCCCCCccchhhhhhhcCCCccCHHHHHHHHHHh
Confidence 457999999998 4 999999998853211 01244678887743 3456788999999999999998765
No 39
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=68.89 E-value=9.7 Score=31.70 Aligned_cols=41 Identities=27% Similarity=0.151 Sum_probs=31.6
Q ss_pred ChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEec
Q 039224 120 CADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVWS 162 (179)
Q Consensus 120 TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~iS 162 (179)
.||--.-.++-++... .+|+++|.|..+|+.|...|-..++
T Consensus 85 ~tDi~VlalAlel~~~--~~v~l~TdDysvQNVa~~Lgi~~~~ 125 (177)
T COG1439 85 PTDIEVLALALELGEE--VQVALATDDYSVQNVALQLGLNVRS 125 (177)
T ss_pred hhhHHHHHHHHhhccc--cceeEEecchHHHHHHHHhCceEEe
Confidence 4554445555566543 5699999999999999999999886
No 40
>TIGR01170 rplA_mito ribosomal protein L1, mitochondrial. This model represents the mitochondrial homolog of bacterial ribosomal protein L1. Unlike chloroplast L1, this form was not sufficiently similar to bacterial forms to include in a single bacterial/organellar L1.
Probab=66.11 E-value=11 Score=29.89 Aligned_cols=35 Identities=26% Similarity=0.248 Sum_probs=30.7
Q ss_pred CcEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHH
Q 039224 138 PKVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSL 172 (179)
Q Consensus 138 ~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~ 172 (179)
.+|.|.+++......|+..||..+..++++++|.+
T Consensus 53 ~kV~Vf~~~~~~~~~Ak~aGa~~vg~edLi~~i~~ 87 (141)
T TIGR01170 53 PKIAVFTKGASEVEEAREAGADYVGGDDLIKKIED 87 (141)
T ss_pred CEEEEECCChHHHHHHHHcCCCEeCHHHHHHHHhc
Confidence 47999999988677899999999999999998864
No 41
>COG2342 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]
Probab=65.17 E-value=31 Score=30.92 Aligned_cols=115 Identities=20% Similarity=0.206 Sum_probs=67.4
Q ss_pred EEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEE-------EcCCCCCCCCCceeecCeEEEeCC
Q 039224 45 LLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVV-------FDALMSGLPTHKEEFIGVDIVFPG 117 (179)
Q Consensus 45 lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VV-------FDa~~~~~~~~~~~~~gi~VvfT~ 117 (179)
=.||+| .-|....+ ....+....+.+.+..+++|.+.......|+ ||+...+...+-.-...++-+|+.
T Consensus 146 D~VD~y---~Y~~~~~~-~~~~~~~k~m~~~i~~i~~~~ra~~~~~~Vi~qng~~l~d~~~a~l~~~~~~~~~vE~~~~d 221 (300)
T COG2342 146 DVVDAY---WYVEWNDR-ETGVNAAKKMVKFIAAIAEYARAANPLFRVIPQNGAELFDADGAGLLPRLGFGVAVETVFYD 221 (300)
T ss_pred eeechH---HHHHHhcc-cccccHHHHHHHHHHHHHHHHHhcCCcEEEEecccHhhcCccccchhhccccceEEEEEEec
Confidence 379999 33333332 2456788888889999999986443334333 565532211111111235556665
Q ss_pred C--C-ChHHHHHHHHHHHhhCCCCcEEEEc-----CCHH------HHHHHHhCCceEecHH
Q 039224 118 E--T-CADAWIEKEIVALREDGCPKVWVVT-----SDHL------QQHAAYGAGAFVWSSK 164 (179)
Q Consensus 118 ~--~-TAD~~IErlv~~~~~~~~~~V~VVT-----SD~~------iq~~a~~~GA~~iSs~ 164 (179)
. . ++++.-|..++.+.+.| .-|.|+- +|.. +-..+++.|....+++
T Consensus 222 ~~~~~~~~~~~e~~Lr~l~~~G-~~V~vieY~~d~~~~~~~r~~~~~~ktr~~g~~p~~~~ 281 (300)
T COG2342 222 DERPLESADTFEEYLRKLCRLG-KPVYVIEYALDPTDPRESRLEDLFEKTRAEGVYPYVAR 281 (300)
T ss_pred CccCCCchhhHHHHHHHHHhcC-CcEEEEEecCCCCchhhHHHHHHHHHhhccceEEeeec
Confidence 4 3 66777778888888654 5688872 2222 3455667777766654
No 42
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=64.92 E-value=26 Score=30.99 Aligned_cols=98 Identities=28% Similarity=0.309 Sum_probs=61.3
Q ss_pred HHHHHHHHHHHhccccCCce-EEEEEcCCCC-----C-CCC---C-ce-----eecCeEE----EeCCC--C-ChHHHHH
Q 039224 70 VARQKLIEELVEFSMIREVK-VVVVFDALMS-----G-LPT---H-KE-----EFIGVDI----VFPGE--T-CADAWIE 126 (179)
Q Consensus 70 ~AR~~Li~~L~~y~~~~g~~-V~VVFDa~~~-----~-~~~---~-~~-----~~~gi~V----vfT~~--~-TAD~~IE 126 (179)
..=.+|++.+.+++...+.. +++.||-+.. . .+. . .+ ..-||.. -|+++ + ||+++|+
T Consensus 27 ~GHq~Ll~~a~~~a~~~~~~~~vitFd~~p~~~~~~~~~~~~l~t~eeR~~~l~~~gVD~~~~~~F~~~~~~ls~e~Fi~ 106 (305)
T PRK05627 27 RGHQALLARAREIARERGLPSVVMTFEPHPREVFAPDKAPARLTPLRDKAELLAELGVDYVLVLPFDEEFAKLSAEEFIE 106 (305)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEEecCCHHHHcCCCCCCcCCCCHHHHHHHHHHcCCCEEEEecCCHHHhcCCHHHHHH
Confidence 34478999999998766654 5777996542 0 000 0 01 1124432 36754 3 9999999
Q ss_pred HHHHH-HhhCCCCcEEEEcCCHH-----------HHHHHHhCCce------------EecHHHHHHHHH
Q 039224 127 KEIVA-LREDGCPKVWVVTSDHL-----------QQHAAYGAGAF------------VWSSKALVSEVS 171 (179)
Q Consensus 127 rlv~~-~~~~~~~~V~VVTSD~~-----------iq~~a~~~GA~------------~iSs~ef~~~l~ 171 (179)
+++.. ++ -..+||-.|.. ++..+..+|.. .+||-...+.|.
T Consensus 107 ~~l~~~l~----~~~iVvG~Df~FG~~~~G~~~~L~~~~~~~g~~v~~v~~~~~~~~~ISST~IR~~I~ 171 (305)
T PRK05627 107 DLLVKGLN----AKHVVVGFDFRFGKKRAGDFELLKEAGKEFGFEVTIVPEVKEDGERVSSTAIRQALA 171 (305)
T ss_pred HHHHhccC----CCEEEECCCCCCCCCCCCCHHHHHHHHHHcCcEEEEeccEecCCCcCchHHHHHHHH
Confidence 96654 43 46899999874 66666666764 567776666554
No 43
>PF00884 Sulfatase: Sulfatase; InterPro: IPR000917 Sulphatases 3.1.6. from EC are enzymes that hydrolyze various sulphate esters. The sequence of different types of sulphatases are available and have shown to be structurally related [, , ]; these include: arylsulphatase A 3.1.6.8 from EC (ASA), a lysosomal enzyme which hydrolyses cerebroside sulphate; arylsulphatase B 3.1.6.12 from EC (ASB), which hydrolyses the sulphate ester group from N-acetylgalactosamine 4-sulphate residues of dermatan sulphate; arylsulphatase C (ASD) and E (ASE); steryl-sulphatase 3.1.6.2 from EC (STS), a membrane bound microsomal enzyme which hydrolyses 3-beta-hydroxy steroid sulphates; iduronate 2-sulphatase precursor 3.1.6.13 from EC (IDS), a lysosomal enzyme that hydrolyses the 2-sulphate groups from non-reducing-terminal iduronic acid residues in dermatan sulphate and heparan sulphate; N-acetylgalactosamine-6-sulphatase 3.1.6.4 from EC, which hydrolyses the 6-sulphate groups of the N-acetyl-d-galactosamine 6-sulphate units of chondroitin sulphate and the D-galactose 6-sulphate units of keratan sulphate; glucosamine-6-sulphatase 3.1.6.14 from EC (G6S), which hydrolyses the N-acetyl-D-glucosamine 6-sulphate units of heparan sulphate and keratan sulphate; N-sulphoglucosamine sulphohydrolase 3.10.1.1 from EC (sulphamidase), the lysosomal enzyme that catalyses the hydrolysis of N-sulpho-d-glucosamine into glucosamine and sulphate; sea urchin embryo arylsulphatase 3.1.6.1 from EC; green algae arylsulphatase 3.1.6.1 from EC, which plays an important role in the mineralisation of sulphates; and arylsulphatase 3.1.6.1 from EC from Escherichia coli (aslA), Klebsiella aerogenes (gene atsA) and Pseudomonas aeruginosa (gene atsA). ; GO: 0008484 sulfuric ester hydrolase activity, 0008152 metabolic process; PDB: 1P49_A 1FSU_A 2QZU_A 2W5Q_A 2W5T_A 2W5S_A 2W5R_A 3LXQ_A 1HDH_B 1E33_P ....
Probab=64.41 E-value=6.3 Score=32.33 Aligned_cols=33 Identities=27% Similarity=0.389 Sum_probs=25.6
Q ss_pred CChHHHHHHHHHHHhhCCC--CcEEEEcCCHHHHH
Q 039224 119 TCADAWIEKEIVALREDGC--PKVWVVTSDHLQQH 151 (179)
Q Consensus 119 ~TAD~~IErlv~~~~~~~~--~~V~VVTSD~~iq~ 151 (179)
.-.|..|.+++..+++.+. ..++|+||||...-
T Consensus 218 ~~~D~~l~~~~~~l~~~~~~d~TiiiitsDHG~~~ 252 (308)
T PF00884_consen 218 AYVDDQLGRFIEYLKEQGLYDNTIIIITSDHGESF 252 (308)
T ss_dssp HHHHHHHHHHHHHHHHTTCGGGEEEEEEESSSSST
T ss_pred HHHHHHhhhhhhhhhhcCCcccceeEEecCcCccc
Confidence 4789999999999955432 35999999997643
No 44
>PF10673 DUF2487: Protein of unknown function (DUF2487); InterPro: IPR019615 This entry represents proteins with unknown function that appears to be restricted to Bacillus sp.
Probab=59.65 E-value=16 Score=29.28 Aligned_cols=51 Identities=16% Similarity=0.192 Sum_probs=34.8
Q ss_pred EEeCCCCChH---HHHHHHHHHHhhCCCCcEEEEcCCHHHH-HHHHhCCceEecH
Q 039224 113 IVFPGETCAD---AWIEKEIVALREDGCPKVWVVTSDHLQQ-HAAYGAGAFVWSS 163 (179)
Q Consensus 113 VvfT~~~TAD---~~IErlv~~~~~~~~~~V~VVTSD~~iq-~~a~~~GA~~iSs 163 (179)
+.|.+++.++ +.+.+....+++.|-+-|.++|||+.-+ .....-...+++|
T Consensus 58 ~~Y~~~~~~~~~~~~L~~w~~~l~~~GFkhV~~lT~D~~Wk~~~~~~~~liwlPa 112 (142)
T PF10673_consen 58 FTYLKEEDEEELVERLNDWCEELKESGFKHVFYLTSDSEWKQEEELEGSLIWLPA 112 (142)
T ss_pred eeeecccchhHHHHHHHHHHHHHHhcCCcEEEEEecCcccccccCCCCcEEEEeC
Confidence 3455554344 5667778899888777899999999988 3333444555555
No 45
>PF08459 UvrC_HhH_N: UvrC Helix-hairpin-helix N-terminal; InterPro: IPR001162 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. The UvrC proteins contain 4 conserved regions: a central region which interacts with UvrB (Uvr domain), a Helix hairpin Helix (HhH) domain important for 5 prime incision of damage DNA and the homology regions 1 and 2 of unknown function. UvrC homology region 2 is specific for UvrC proteins, whereas UvrC homology region 1 is also shared by few other nucleases. Proteins that contain the UvrC homology region 1, IPR000305 from INTERPRO, are listed below: Prokaryotic UvrC proteins. Bacteriophage T4 END2 protein. Small subunit of ribonucleotide reductase enzyme. T4 TEV1 protein. Endonuclease specific to the thymidylate synthase (td) gene splice junction. Found in putative intron-homing endonucleases encoded by group I introns of fungi and phage. Mycobacterium hypothetical protein Y002. Exonuclease by similarity. Bacillus subtilis hypothetical protein YURQ. ; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3C65_A 2NRZ_A 2NRR_A 2NRX_A 2NRV_A 2NRT_A 2NRW_A.
Probab=59.06 E-value=1.9 Score=34.85 Aligned_cols=40 Identities=25% Similarity=0.425 Sum_probs=24.0
Q ss_pred hhhhhhhhcccCCCccc-----ccccccceeecCCCCCCCccEEEEec
Q 039224 7 SYRRKKVEKEELPEDTE-----LYRFFSYIYNTNQGIDNAVPVLLVDG 49 (179)
Q Consensus 7 ~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~lIVDG 49 (179)
.|||-++...+-+.|.+ ++|.|+.+...+. .-|+++||||
T Consensus 43 ~YR~f~i~~~~~~dDy~~M~Evl~RR~~~~~~~~~---~lPDLilIDG 87 (155)
T PF08459_consen 43 EYRRFNIKTVDGGDDYAAMREVLTRRFKRLKEEKE---PLPDLILIDG 87 (155)
T ss_dssp G-EEEEEE--STT-HHHHHHHHHHHHHCCCHHHT-------SEEEESS
T ss_pred hCceEecCCCCCCcHHHHHHHHHHHHHhcccccCC---CCCCEEEEcC
Confidence 58888888666666654 6788877665433 6689999999
No 46
>TIGR03709 PPK2_rel_1 polyphosphate:nucleotide phosphotransferase, PPK2 family. Members of this protein family belong to the polyphosphate kinase 2 (PPK2) family, which is not related in sequence to PPK1. While PPK1 tends to act in the biosynthesis of polyphosphate, or poly(P), members of the PPK2 family tend to use the terminal phosphate of poly(P) to regenerate ATP or GTP from the corresponding nucleoside diphosphate, or ADP from AMP as is the case with polyphosphate:AMP phosphotransferase (PAP). Members of this protein family most likely transfer the terminal phosphate between poly(P) and some nucleotide, but it is not clear which.
Probab=57.18 E-value=1.1e+02 Score=26.77 Aligned_cols=104 Identities=11% Similarity=0.016 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHHHhccccCCceEEEEEcCCCCCCCCC-------ceeecCeEEEeCCCCChH----HHHHHHHHHHhhCC
Q 039224 68 LDVARQKLIEELVEFSMIREVKVVVVFDALMSGLPTH-------KEEFIGVDIVFPGETCAD----AWIEKEIVALREDG 136 (179)
Q Consensus 68 Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~-------~~~~~gi~VvfT~~~TAD----~~IErlv~~~~~~~ 136 (179)
++..|.+|.+.-....+..+..|+|||.|....+.+. .....|++|+=....|.. .+.=|+-..++..
T Consensus 35 l~~l~~~L~~LQ~~l~~~~~~~vlIv~eG~DaAGKG~~I~~l~~~lDPRg~~V~s~~~Pt~eE~~~p~lWRfw~~lP~~- 113 (264)
T TIGR03709 35 LAELVARLSDLQEKLYAEGRRSLLLVLQAMDAAGKDGTIRHVMSGVNPQGCQVTSFKAPSAEELDHDFLWRIHKALPER- 113 (264)
T ss_pred HHHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCCchHHHHHHHHhcCCCeeEEEeCCCCCHHHHcCchHHHHHHhCCCC-
Confidence 4445555555444444445689999999986433221 124578888766544444 7889999999864
Q ss_pred CCcEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHHH
Q 039224 137 CPKVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLII 174 (179)
Q Consensus 137 ~~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~~ 174 (179)
.+|.|----+-..-.+.... .-++.+++-..+..+-
T Consensus 114 -G~i~IF~RSWY~~vl~~rv~-g~~~~~~~~~~~~~I~ 149 (264)
T TIGR03709 114 -GEIGIFNRSHYEDVLVVRVH-GLIPKAIWERRYEDIN 149 (264)
T ss_pred -CeEEEEcCccccchhhhhhc-CCCCHHHHHHHHHHHH
Confidence 46777654443333332211 2255666665555443
No 47
>TIGR00083 ribF riboflavin kinase/FMN adenylyltransferase. multifunctional enzyme: riboflavin kinase (EC 2.7.1.26) (flavokinase) / FMN adenylyltransferase (EC 2.7.7.2) (FAD pyrophosphorylase) (FAD synthetase).
Probab=56.52 E-value=36 Score=29.94 Aligned_cols=99 Identities=29% Similarity=0.344 Sum_probs=62.2
Q ss_pred HHHHHHHHHHHHhccccCC-ceEEEEEcCCCCC----C--C--CC-ce-----eecCe----EEEeCCC--C-ChHHHHH
Q 039224 69 DVARQKLIEELVEFSMIRE-VKVVVVFDALMSG----L--P--TH-KE-----EFIGV----DIVFPGE--T-CADAWIE 126 (179)
Q Consensus 69 e~AR~~Li~~L~~y~~~~g-~~V~VVFDa~~~~----~--~--~~-~~-----~~~gi----~VvfT~~--~-TAD~~IE 126 (179)
...=++|++.+.+.+...+ ..+++.||-++.. . + .. .+ ..-|+ -+-|+++ + ||+++|+
T Consensus 11 H~GHq~Li~~~~~~a~~~~~~~~V~tF~phP~~~~~~~~~~~l~~~~~k~~~l~~~Gvd~~~~~~F~~~~a~ls~e~Fi~ 90 (288)
T TIGR00083 11 HLGHQALLQELKQIAEEKGLPPAVLLFEPHPSEQFNWLTAPALTPLEDKARQLQIKGVEQLLVVVFDEEFANLSALQFID 90 (288)
T ss_pred CHHHHHHHHHHHHHHHHhCCCEEEEEeCCChHHHhCccCCCCCCCHHHHHHHHHHcCCCEEEEeCCCHHHHcCCHHHHHH
Confidence 3344889999999988766 4678889987421 1 0 00 01 11243 4457765 4 9999999
Q ss_pred HHHHH-HhhCCCCcEEEEcCCH-----------HHHHHHHhCCce-----------EecHHHHHHHHH
Q 039224 127 KEIVA-LREDGCPKVWVVTSDH-----------LQQHAAYGAGAF-----------VWSSKALVSEVS 171 (179)
Q Consensus 127 rlv~~-~~~~~~~~V~VVTSD~-----------~iq~~a~~~GA~-----------~iSs~ef~~~l~ 171 (179)
+++.. +. -+.+||-.|. .++..+...|-. .+||-...+.|.
T Consensus 91 ~~l~~~l~----~~~ivvG~Df~FG~~~~G~~~~L~~~~~~~g~~v~~~~~~~~~~~ISST~IR~~l~ 154 (288)
T TIGR00083 91 QLIVKHLH----VKFLVVGDDFRFGHDRQGDFLLLQLFGNTTIFCVIVKQLFCQDIRISSSAIRQALK 154 (288)
T ss_pred HHHHhccC----CcEEEECCCccCCCCCCCCHHHHHHhccccCcEEEEeccccCCCeECHHHHHHHHH
Confidence 98864 44 3578888775 355555555533 477776655553
No 48
>PF14794 DUF4479: Domain of unknown function (DUF4479); PDB: 3BU2_C.
Probab=53.77 E-value=8.3 Score=27.46 Aligned_cols=45 Identities=18% Similarity=0.141 Sum_probs=23.1
Q ss_pred cccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEc
Q 039224 49 GYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFD 95 (179)
Q Consensus 49 GYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFD 95 (179)
|||+.++...|.- -..+.. ..-+.+++.|.......|....+++|
T Consensus 28 GyNif~~S~~l~i-~~~G~V-~Lt~eqv~~LN~~l~~~Gf~~~L~~D 72 (73)
T PF14794_consen 28 GYNIFNASSYLEI-EGNGQV-FLTEEQVAKLNQALQKAGFDEELEAD 72 (73)
T ss_dssp EEEEETGGGTS-------------HHHHHHHHHHHHHTT--------
T ss_pred EEEEEccccceee-cCCcCE-EcCHHHHHHHHHHHHHcCCCceeccC
Confidence 9999999987732 233333 35678889999888888888887776
No 49
>COG2326 Uncharacterized conserved protein [Function unknown]
Probab=52.94 E-value=30 Score=30.67 Aligned_cols=61 Identities=16% Similarity=0.265 Sum_probs=41.9
Q ss_pred HHHHHHhccccCCceEEEEEcCCCC---CCCCCc----eeecCeEEE-eCCC---CChHHHHHHHHHHHhhC
Q 039224 75 LIEELVEFSMIREVKVVVVFDALMS---GLPTHK----EEFIGVDIV-FPGE---TCADAWIEKEIVALRED 135 (179)
Q Consensus 75 Li~~L~~y~~~~g~~V~VVFDa~~~---~~~~~~----~~~~gi~Vv-fT~~---~TAD~~IErlv~~~~~~ 135 (179)
++..|..+.+.+|.+|+|||.|... ++.-+. -...|.+|+ |.+. +.+=.|.-|++..++..
T Consensus 60 el~klq~~~~~~~~~vvivfEGrDAAGKgG~Ikri~~~lNPR~~rvval~aPt~~E~~qwY~qRy~~~lPa~ 131 (270)
T COG2326 60 ELVKLQRWVAETGQRVVIVFEGRDAAGKGGAIKRITEALNPRGARVVALPAPTDRERGQWYFQRYVAHLPAA 131 (270)
T ss_pred HHHHHHHHHHhcCCeEEEEEecccccCCCchhHHHhhhcCCceeEEeecCCCChHhhccHHHHHHHHhCCCC
Confidence 4556666778999999999988853 322111 134677776 4332 36778899999999964
No 50
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=50.78 E-value=12 Score=30.07 Aligned_cols=63 Identities=16% Similarity=0.012 Sum_probs=40.5
Q ss_pred EcCCCCCC--CCCceeecCeEEEeCCC-CChHHHHHHHHHHHhhCCCCcEEEEcCC--------HHHHHHHHhCCceEe
Q 039224 94 FDALMSGL--PTHKEEFIGVDIVFPGE-TCADAWIEKEIVALREDGCPKVWVVTSD--------HLQQHAAYGAGAFVW 161 (179)
Q Consensus 94 FDa~~~~~--~~~~~~~~gi~VvfT~~-~TAD~~IErlv~~~~~~~~~~V~VVTSD--------~~iq~~a~~~GA~~i 161 (179)
+|||..+. ..+.....|++|+|+.- .|-|+.+...+.+- ..+++|||= ..+....+.+|+..|
T Consensus 22 lDgHd~gakvia~~l~d~GfeVi~~g~~~tp~e~v~aA~~~d-----v~vIgvSsl~g~h~~l~~~lve~lre~G~~~i 95 (143)
T COG2185 22 LDGHDRGAKVIARALADAGFEVINLGLFQTPEEAVRAAVEED-----VDVIGVSSLDGGHLTLVPGLVEALREAGVEDI 95 (143)
T ss_pred ccccccchHHHHHHHHhCCceEEecCCcCCHHHHHHHHHhcC-----CCEEEEEeccchHHHHHHHHHHHHHHhCCcce
Confidence 68886553 12234568999999988 68888777664432 468888883 234455556665544
No 51
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=50.74 E-value=48 Score=26.39 Aligned_cols=77 Identities=32% Similarity=0.464 Sum_probs=47.9
Q ss_pred CHHHHHHHHHHHHHhccccCCc-eEEEEEcCCC----C-CCCCC-----ce-----eecC----eEEEeCCC--C-ChHH
Q 039224 67 RLDVARQKLIEELVEFSMIREV-KVVVVFDALM----S-GLPTH-----KE-----EFIG----VDIVFPGE--T-CADA 123 (179)
Q Consensus 67 ~Le~AR~~Li~~L~~y~~~~g~-~V~VVFDa~~----~-~~~~~-----~~-----~~~g----i~VvfT~~--~-TAD~ 123 (179)
.+...=++|++.+.+++...+. -+++.||-++ . ..... .+ ..-| +.+-|+.+ . +|++
T Consensus 16 GvH~GHq~Li~~~~~~a~~~~~~~~v~tF~~~P~~~~~~~~~~~~l~s~~ek~~~l~~~Gvd~~~~~~F~~~~~~ls~~~ 95 (157)
T PF06574_consen 16 GVHLGHQKLIKKAVEIAKEKGLKSVVLTFDPHPKEVLNPDKPPKLLTSLEEKLELLESLGVDYVIVIPFTEEFANLSPED 95 (157)
T ss_dssp T--HHHHHHHHHHHHHHHHCT-EEEEEEESS-CHHHHSCTCCGGBSS-HHHHHHHHHHTTESEEEEE-CCCHHCCS-HHH
T ss_pred CccHHHHHHHHHHhhhhhhcccceEEEEcccCHHHHhcCCCcccCCCCHHHHHHHHHHcCCCEEEEecchHHHHcCCHHH
Confidence 4555668999999999987765 4678999875 1 11100 11 1124 44558876 4 9999
Q ss_pred HHHHHHH-HHhhCCCCcEEEEcCCH
Q 039224 124 WIEKEIV-ALREDGCPKVWVVTSDH 147 (179)
Q Consensus 124 ~IErlv~-~~~~~~~~~V~VVTSD~ 147 (179)
+|+.++. .+. -..+||..|.
T Consensus 96 Fi~~iL~~~l~----~~~ivvG~Df 116 (157)
T PF06574_consen 96 FIEKILKEKLN----VKHIVVGEDF 116 (157)
T ss_dssp HHHHHCCCHCT----EEEEEEETT-
T ss_pred HHHHHHHhcCC----ccEEEEccCc
Confidence 9999777 554 4689999984
No 52
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=49.22 E-value=60 Score=28.70 Aligned_cols=65 Identities=12% Similarity=0.123 Sum_probs=42.8
Q ss_pred ecCeEEEeCCC-C-ChHHHHHHHHHHHhhC------CCCcEEEEc-CCH--HHHHHHHhCCceEecHHHHHHHHHHH
Q 039224 108 FIGVDIVFPGE-T-CADAWIEKEIVALRED------GCPKVWVVT-SDH--LQQHAAYGAGAFVWSSKALVSEVSLI 173 (179)
Q Consensus 108 ~~gi~VvfT~~-~-TAD~~IErlv~~~~~~------~~~~V~VVT-SD~--~iq~~a~~~GA~~iSs~ef~~~l~~~ 173 (179)
..|.+||||.+ . +=|+ +++++.++... +.....|+- .|. .=...|+..|-.+||-++|++.|..+
T Consensus 233 ~~g~~~v~TG~l~~~R~e-~~~~~~~~G~~v~~sVs~~t~~lv~g~~~~~ssK~~kA~~~gi~ii~e~~f~~ll~~~ 308 (313)
T PRK06063 233 VQGMRVALSAEVSRTHEE-LVERILHAGLAYSDSVDRDTSLVVCNDPAPEQGKGYHARQLGVPVLDEAAFLELLRAV 308 (313)
T ss_pred cCCCEEEEecCCCCCHHH-HHHHHHHcCCEecCccccCccEEEECCCCCcccHHHHHHHcCCccccHHHHHHHHHhh
Confidence 47999999998 5 4444 45555554421 112344432 123 34677888999999999999998764
No 53
>PRK13368 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional
Probab=48.13 E-value=48 Score=26.87 Aligned_cols=37 Identities=24% Similarity=0.259 Sum_probs=24.3
Q ss_pred HHHHHHHHhhC-CCCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 125 IEKEIVALRED-GCPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 125 IErlv~~~~~~-~~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
|+..+..+.+. +-.+|+|+|+|..++..+...|..++
T Consensus 30 i~~~i~~l~~~~~~~~ivv~t~~~~i~~~~~~~~~~v~ 67 (238)
T PRK13368 30 IQHVYERAAQAAGVEEVYVATDDQRIEDAVEAFGGKVV 67 (238)
T ss_pred HHHHHHHHHhcCCCCeEEEECChHHHHHHHHHcCCeEE
Confidence 44444444432 34678888888888888877777654
No 54
>KOG3165 consensus Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=46.90 E-value=26 Score=29.26 Aligned_cols=32 Identities=16% Similarity=0.109 Sum_probs=27.4
Q ss_pred ChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhC
Q 039224 120 CADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGA 156 (179)
Q Consensus 120 TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~ 156 (179)
=||+-|..-|.+++ =-+|+|+|+.+.+.++.-
T Consensus 137 YADDClv~RV~qHk-----CYIVAT~D~dLK~RIrkI 168 (195)
T KOG3165|consen 137 YADDCLVQRVTQHK-----CYIVATNDRDLKQRIRKI 168 (195)
T ss_pred chhhHHHHHHhhcc-----eEEEEeccHHHHHHHhcC
Confidence 79999998888865 389999999999998853
No 55
>TIGR00466 kdsB 3-deoxy-D-manno-octulosonate cytidylyltransferase.
Probab=45.71 E-value=51 Score=27.54 Aligned_cols=38 Identities=21% Similarity=0.148 Sum_probs=25.5
Q ss_pred HHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 124 WIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 124 ~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
.|++.+..+...+..+|+|||+|..+...+...|+..+
T Consensus 26 li~~~le~~~~~~~d~VvVvt~~~~i~~~~~~~g~~~v 63 (238)
T TIGR00466 26 MIVHVAENANESGADRCIVATDDESVAQTCQKFGIEVC 63 (238)
T ss_pred HHHHHHHHHHhCCCCeEEEEeCHHHHHHHHHHcCCEEE
Confidence 34444444433334678999988888888888888654
No 56
>TIGR01169 rplA_bact ribosomal protein L1, bacterial/chloroplast. This model describes bacterial (and chloroplast) ribosomal protein L1. The apparent mitochondrial L1 is sufficiently diverged to be the subject of a separate model.
Probab=45.67 E-value=39 Score=28.79 Aligned_cols=84 Identities=21% Similarity=0.187 Sum_probs=50.7
Q ss_pred CHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcC
Q 039224 67 RLDVARQKLIEELVEFSM-IREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTS 145 (179)
Q Consensus 67 ~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTS 145 (179)
++++|-+.|.+ ..... ..-.++.|-+ +.....+.. ... -.|.+...- .. ..+|.|.++
T Consensus 20 ~l~eAi~~lk~--~~~~~f~esvel~i~L-~id~kK~~~--~ir-g~v~LP~~~-------------gk--~~kV~Vfa~ 78 (227)
T TIGR01169 20 SLDEAIALLKE--TATAKFDETVEVAIRL-GIDPRKSDQ--QVR-GTVVLPHGT-------------GK--TVRVAVFAK 78 (227)
T ss_pred CHHHHHHHHHh--hccCCCCCCEEEEEEE-CcCCCcCCC--eee-EEEECCCCC-------------CC--CcEEEEEcC
Confidence 56677666664 22222 2346788887 442211111 112 245555431 11 246999986
Q ss_pred CHHHHHHHHhCCceEecHHHHHHHHHH
Q 039224 146 DHLQQHAAYGAGAFVWSSKALVSEVSL 172 (179)
Q Consensus 146 D~~iq~~a~~~GA~~iSs~ef~~~l~~ 172 (179)
+ +....|+..||..+..+||.+.+++
T Consensus 79 ~-~~~~~Ak~aGa~~vg~~eLi~~ik~ 104 (227)
T TIGR01169 79 G-EKAEEAKAAGADYVGSDDLIEKIKK 104 (227)
T ss_pred c-hhHHHHHHcCCCEeCHHHHHHHHHc
Confidence 5 5677889999999999999998865
No 57
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=45.18 E-value=86 Score=28.93 Aligned_cols=36 Identities=14% Similarity=0.062 Sum_probs=25.9
Q ss_pred HHHHHHHHHHhhCCCCcEEEEcCCHHHHH-HHHhCCce
Q 039224 123 AWIEKEIVALREDGCPKVWVVTSDHLQQH-AAYGAGAF 159 (179)
Q Consensus 123 ~~IErlv~~~~~~~~~~V~VVTSD~~iq~-~a~~~GA~ 159 (179)
.+|+.++....+.| .+|.+||++++.-. ...+.|+.
T Consensus 363 ~~ve~L~e~a~~~G-a~V~iiS~~~eeG~ql~~~fGGI 399 (409)
T TIGR00108 363 DLIEWLSELAENFG-AKLEFISTESEEGAQLLTAFGGI 399 (409)
T ss_pred hHHHHHHHHHHHcC-CEEEEECCCChhHHHHHHhCCCE
Confidence 56788887777654 68999999998843 33666643
No 58
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=45.05 E-value=44 Score=20.59 Aligned_cols=61 Identities=18% Similarity=0.135 Sum_probs=36.7
Q ss_pred CeEEEeCCC--CChHHHHHHHHHHHhhCC------CCcEEEEcCCHH-H-HHHHHhCCceEecHHHHHHHH
Q 039224 110 GVDIVFPGE--TCADAWIEKEIVALREDG------CPKVWVVTSDHL-Q-QHAAYGAGAFVWSSKALVSEV 170 (179)
Q Consensus 110 gi~VvfT~~--~TAD~~IErlv~~~~~~~------~~~V~VVTSD~~-i-q~~a~~~GA~~iSs~ef~~~l 170 (179)
|+.+.++.. +...+.+++++..++..- .....|+.+... . ...+...|..+++++++.+-+
T Consensus 1 ~~~~~i~g~~~~~~~~~l~~~i~~~Gg~v~~~~~~~~thvI~~~~~~~~~~~~~~~~~~~iV~~~Wi~~~~ 71 (72)
T cd00027 1 GLTFVITGDLPSEERDELKELIEKLGGKVTSSVSKKTTHVIVGSDAGPKKLLKAIKLGIPIVTPEWLLDCL 71 (72)
T ss_pred CCEEEEEecCCCcCHHHHHHHHHHcCCEEeccccCCceEEEECCCCCchHHHHHHHcCCeEecHHHHHHHh
Confidence 456667765 466677777777766310 112223333222 1 456778999999999887644
No 59
>TIGR03584 PseF pseudaminic acid CMP-transferase. The sequences in this family include the pfam02348 (cytidyltransferase) domain and are homologous to the NeuA protein responsible for the transfer of CMP to neuraminic acid. According to, this gene is responsible for the transfer of CMP to the structurally related sugar, pseudaminic acid which is observed as a component of sugar modifications of flagellin in Campylobacter species. This gene is commonly observed in apparent operons with other genes responsible for the biosynthesis of pseudaminic acid and as a component of flagellar and exopolysaccharide biosynthesis loci.
Probab=44.75 E-value=59 Score=26.93 Aligned_cols=38 Identities=34% Similarity=0.194 Sum_probs=25.6
Q ss_pred HHHHHHHHHhhCC-CCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 124 WIEKEIVALREDG-CPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 124 ~IErlv~~~~~~~-~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
+|...+..+.+.+ ...|+|+|.|..++..+...|+.++
T Consensus 26 Li~~ti~~a~~s~~~d~IvVstd~~~i~~~a~~~g~~v~ 64 (222)
T TIGR03584 26 MIAYSIEAALNSGLFDKVVVSTDDEEIAEVAKSYGASVP 64 (222)
T ss_pred HHHHHHHHHHhCCCCCEEEEeCCCHHHHHHHHHcCCEeE
Confidence 3444444443322 3568888888999999999999763
No 60
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=44.50 E-value=1.2e+02 Score=22.16 Aligned_cols=70 Identities=19% Similarity=0.117 Sum_probs=46.6
Q ss_pred CceEEEEEcCCCCCCCCCceeecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEec
Q 039224 87 EVKVVVVFDALMSGLPTHKEEFIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVWS 162 (179)
Q Consensus 87 g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~iS 162 (179)
|..++..-|..... ....+.+-|++|.+++..+.|+ .++.+++.+ -.++++|++..+...+...|+..+-
T Consensus 26 ~~~~~~~~~~~~~~----~~~~~dl~I~iS~SG~t~e~i~-~~~~a~~~g-~~iI~IT~~~~l~~~~~~~~~~~~~ 95 (119)
T cd05017 26 KIPVYVVKDYTLPA----FVDRKTLVIAVSYSGNTEETLS-AVEQAKERG-AKIVAITSGGKLLEMAREHGVPVII 95 (119)
T ss_pred CCCEEEecCccCcC----CCCCCCEEEEEECCCCCHHHHH-HHHHHHHCC-CEEEEEeCCchHHHHHHHcCCcEEE
Confidence 66777766643221 1234678999999864444444 344445443 5799999999999999888877763
No 61
>CHL00129 rpl1 ribosomal protein L1; Reviewed
Probab=44.45 E-value=41 Score=28.74 Aligned_cols=34 Identities=26% Similarity=0.308 Sum_probs=28.5
Q ss_pred CcEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHH
Q 039224 138 PKVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSL 172 (179)
Q Consensus 138 ~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~ 172 (179)
.+|.|.+++.. ...|+..||..+..+||.+.+++
T Consensus 72 ~kV~Vfa~~~~-~~eAk~aGad~vg~edLi~~ik~ 105 (229)
T CHL00129 72 IRIAVLTNEEK-ITEAKNAGADIVGSDDLIEEITK 105 (229)
T ss_pred cEEEEECChHh-HHHHHHcCCCEeCHHHHHHHHHc
Confidence 57999988854 56689999999999999998865
No 62
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=44.09 E-value=37 Score=23.93 Aligned_cols=51 Identities=24% Similarity=0.186 Sum_probs=33.2
Q ss_pred HHHHHHHHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCCChHHHHHHH
Q 039224 72 RQKLIEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGETCADAWIEKE 128 (179)
Q Consensus 72 R~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~TAD~~IErl 128 (179)
-..+.+.|.. .+++++|+ +.-.+..-..-...||+|+.+.+++.++.|+++
T Consensus 52 ~~~~~~~l~~----~~v~~vi~--~~iG~~~~~~l~~~gI~v~~~~~~~i~~vl~~~ 102 (103)
T cd00851 52 GGKAAEFLAD----EGVDVVIV--GGIGPRALNKLRNAGIKVYKGAEGTVEEAIEAL 102 (103)
T ss_pred chHHHHHHHH----cCCCEEEe--CCCCcCHHHHHHHCCCEEEEcCCCCHHHHHHhh
Confidence 3556666655 67888888 221111112235689999988878999988765
No 63
>PF12804 NTP_transf_3: MobA-like NTP transferase domain; PDB: 3FWW_A 2XME_D 2XMH_C 2DPW_A 2WAW_A 2OI5_B 1HV9_B 1FWY_A 2OI6_A 2OI7_B ....
Probab=40.70 E-value=54 Score=24.71 Aligned_cols=41 Identities=29% Similarity=0.250 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEecH
Q 039224 123 AWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVWSS 163 (179)
Q Consensus 123 ~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~iSs 163 (179)
..|++.+..+.+.+..+|+||+.+..+.......|...+..
T Consensus 25 ~li~~~l~~l~~~~~~~Ivvv~~~~~~~~~~~~~~~~~v~~ 65 (160)
T PF12804_consen 25 PLIERVLEALREAGVDDIVVVTGEEEIYEYLERYGIKVVVD 65 (160)
T ss_dssp EHHHHHHHHHHHHTESEEEEEESTHHHHHHHTTTTSEEEE-
T ss_pred cHHHHHHHHhhccCCceEEEecChHHHHHHHhccCceEEEe
Confidence 45666666666543468999999987777777778777654
No 64
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=39.92 E-value=1.1e+02 Score=27.99 Aligned_cols=88 Identities=16% Similarity=0.157 Sum_probs=53.5
Q ss_pred CHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCCCCCCceee-cCeEEEeCCCC-ChHHHHHHHHHHHhhCCCCcEEEE
Q 039224 67 RLDVARQKLIEELVEFSM-IREVKVVVVFDALMSGLPTHKEEF-IGVDIVFPGET-CADAWIEKEIVALREDGCPKVWVV 143 (179)
Q Consensus 67 ~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~~~~~~~~~-~gi~VvfT~~~-TAD~~IErlv~~~~~~~~~~V~VV 143 (179)
.++..|.++.+.|..|.. ..|.++.|+-|+...-+..+--.. -|++++..... .-..++++.+..+.. .+.|+
T Consensus 269 ~~~~er~~~~~~l~~~~~~l~Gkrvai~g~~~~~~~la~~L~eelGm~~v~v~t~~~~~~~~~~~~~~l~~----~~~v~ 344 (427)
T PRK02842 269 REAPAWERARKALEPYRELLRGKRVFFLPDSQLEIPLARFLSRECGMELVEVGTPYLNRRFLAAELALLPD----GVRIV 344 (427)
T ss_pred HHHHHHHHHHHHHHHhhhhcCCcEEEEECCchhHHHHHHHHHHhCCCEEEEeCCCCCCHHHHHHHHHhccC----CCEEE
Confidence 367788889999999976 778888777665432222221233 69999988763 334455666666642 33444
Q ss_pred c-CCHHH-HHHHHhCCc
Q 039224 144 T-SDHLQ-QHAAYGAGA 158 (179)
Q Consensus 144 T-SD~~i-q~~a~~~GA 158 (179)
. .|... .+.++..++
T Consensus 345 ~~~D~~~l~~~i~~~~p 361 (427)
T PRK02842 345 EGQDVERQLDRIRALRP 361 (427)
T ss_pred ECCCHHHHHHHHHHcCC
Confidence 3 46543 555555444
No 65
>PF01676 Metalloenzyme: Metalloenzyme superfamily; InterPro: IPR006124 This domain unites alkaline phosphatase, N-acetylgalactosamine-4-sulphatase, and cerebroside sulphatase, enzymes with known three-dimensional structures, with phosphopentomutase, 2,3-bisphosphoglycerate-independent phosphoglycerate mutase, phosphoglycerol transferase, phosphonate monoesterase, streptomycin-6-phosphate phosphatase, alkaline phosphodiesterase/nucleotide pyrophosphatase PC-1, and several closely related sulphatases. This domain is also related to alkaline phosphatase IPR001952 from INTERPRO []. The most conserved residues are probably involved in metal binding and catalysis.; GO: 0003824 catalytic activity, 0046872 metal ion binding; PDB: 1EQJ_A 1EJJ_A 1O99_A 1O98_A 3UN5_F 3UN3_B 3M8Y_C 3UO0_B 3UN2_B 3UNY_E ....
Probab=39.15 E-value=26 Score=29.62 Aligned_cols=27 Identities=22% Similarity=0.480 Sum_probs=23.2
Q ss_pred CChHHHHHHHHHHHhhCCCCcEEEEcCCH
Q 039224 119 TCADAWIEKEIVALREDGCPKVWVVTSDH 147 (179)
Q Consensus 119 ~TAD~~IErlv~~~~~~~~~~V~VVTSD~ 147 (179)
+..|..|.+++..+..+ ..++||||||
T Consensus 168 e~~D~~l~~l~~~~~~~--~~~liiTaDH 194 (252)
T PF01676_consen 168 ERIDRFLGRLLEALDKE--DDLLIITADH 194 (252)
T ss_dssp HHHHHHHHHHHHHHHHT--TEEEEEEESS
T ss_pred HHHHHHHHHHHHHHhcC--CCEEEEECCC
Confidence 58999999999999543 5799999997
No 66
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=38.96 E-value=64 Score=22.15 Aligned_cols=58 Identities=21% Similarity=0.150 Sum_probs=39.2
Q ss_pred eEEEeCC---C-CChHHHHHHHHHHHhhCCCCcEEEEc--CCHHHHHHHHhCCce-----EecHHHHHHHHH
Q 039224 111 VDIVFPG---E-TCADAWIEKEIVALREDGCPKVWVVT--SDHLQQHAAYGAGAF-----VWSSKALVSEVS 171 (179)
Q Consensus 111 i~VvfT~---~-~TAD~~IErlv~~~~~~~~~~V~VVT--SD~~iq~~a~~~GA~-----~iSs~ef~~~l~ 171 (179)
..+++-. . .++.++++.+-.... ...++++| +|......+...||. .++.++|...|+
T Consensus 44 ~d~iiid~~~~~~~~~~~~~~i~~~~~---~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~ 112 (112)
T PF00072_consen 44 PDLIIIDLELPDGDGLELLEQIRQINP---SIPIIVVTDEDDSDEVQEALRAGADDYLSKPFSPEELRAAIN 112 (112)
T ss_dssp ESEEEEESSSSSSBHHHHHHHHHHHTT---TSEEEEEESSTSHHHHHHHHHTTESEEEESSSSHHHHHHHHH
T ss_pred ceEEEEEeeeccccccccccccccccc---cccEEEecCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHhhC
Confidence 4555543 3 488888888855542 25788888 556677778888875 457777777653
No 67
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=38.88 E-value=1.2e+02 Score=26.65 Aligned_cols=65 Identities=11% Similarity=0.045 Sum_probs=40.7
Q ss_pred eecCeEEEeCCC-C--ChHHHHHHHHHHHhhC------CCCcEEEEcCCH------------HHHH----HHHhCCceEe
Q 039224 107 EFIGVDIVFPGE-T--CADAWIEKEIVALRED------GCPKVWVVTSDH------------LQQH----AAYGAGAFVW 161 (179)
Q Consensus 107 ~~~gi~VvfT~~-~--TAD~~IErlv~~~~~~------~~~~V~VVTSD~------------~iq~----~a~~~GA~~i 161 (179)
...|.+|+||.. + += +-++.++..++.. +.....|+ .|. -++. ..+|.|-..|
T Consensus 220 ~l~g~~~vfTG~l~~~~R-~~~~~~~~~~Gg~v~~sVs~~t~~lV~-G~~~~~~~~~~~~~~K~~kA~~l~~~g~~i~ii 297 (309)
T PRK06195 220 AFKEEVVVFTGGLASMTR-DEAMILVRRLGGTVGSSVTKKTTYLVT-NTKDIEDLNREEMSNKLKKAIDLKKKGQNIKFL 297 (309)
T ss_pred cccCCEEEEccccCCCCH-HHHHHHHHHhCCEecCCcccCceEEEE-CCCcchhhcccCcChHHHHHHHHHhCCCCcEEe
Confidence 367999999987 4 43 4456666666532 11234444 321 2222 2346699999
Q ss_pred cHHHHHHHHHHH
Q 039224 162 SSKALVSEVSLI 173 (179)
Q Consensus 162 Ss~ef~~~l~~~ 173 (179)
|-++|++.|+++
T Consensus 298 ~E~~f~~l~~~~ 309 (309)
T PRK06195 298 NEEEFLQKCKEK 309 (309)
T ss_pred cHHHHHHHHhhC
Confidence 999999998753
No 68
>smart00292 BRCT breast cancer carboxy-terminal domain.
Probab=38.73 E-value=71 Score=20.13 Aligned_cols=64 Identities=19% Similarity=0.100 Sum_probs=40.3
Q ss_pred ecCeEEEeCC-C-CChHHHHHHHHHHHhhC-----CC-C-cEEEEcCCHHH---HHHHHhCCceEecHHHHHHHHH
Q 039224 108 FIGVDIVFPG-E-TCADAWIEKEIVALRED-----GC-P-KVWVVTSDHLQ---QHAAYGAGAFVWSSKALVSEVS 171 (179)
Q Consensus 108 ~~gi~VvfT~-~-~TAD~~IErlv~~~~~~-----~~-~-~V~VVTSD~~i---q~~a~~~GA~~iSs~ef~~~l~ 171 (179)
..|+.+.++. . ......+++++..++.. .+ . ...|+++.... ...+...|..+++++++.+-++
T Consensus 3 f~g~~~~~~g~~~~~~~~~l~~~i~~~Gg~~~~~~~~~~~thvi~~~~~~~~~~~~~~~~~~~~iV~~~Wi~~~~~ 78 (80)
T smart00292 3 FKGKVFVITGKFDKNERDELKELIEALGGKVTSSLSSKTTTHVIVGSPEGGKLELLLAIALGIPIVTEDWLLDCLK 78 (80)
T ss_pred cCCeEEEEeCCCCCccHHHHHHHHHHcCCEEecccCccceeEEEEcCCCCccHHHHHHHHcCCCCccHHHHHHHHH
Confidence 4677888886 3 47777788888776632 00 1 22233332221 2556689999999999987765
No 69
>PRK05424 rplA 50S ribosomal protein L1; Validated
Probab=38.19 E-value=63 Score=27.56 Aligned_cols=83 Identities=19% Similarity=0.181 Sum_probs=49.5
Q ss_pred CHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcC
Q 039224 67 RLDVARQKLIEELVEFSM-IREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTS 145 (179)
Q Consensus 67 ~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTS 145 (179)
++++|-+.|.+ ..... ....++.|.+ +.....+.. ... -.|.+...- .. ..+|.|.+
T Consensus 21 ~l~eAi~~lk~--~~~~kF~esvel~v~L-~id~kK~~~--~ir-g~v~LP~~~-------------gk--~~kI~Vfa- 78 (230)
T PRK05424 21 SLEEAIALVKE--TATAKFDETVDVAVNL-GVDPRKADQ--QVR-GAVVLPHGT-------------GK--TVRVAVFA- 78 (230)
T ss_pred CHHHHHHHHHh--hccCCCCCcEEEEEEe-CCCCCCCCC--eee-EEEECCCCC-------------CC--CcEEEEEC-
Confidence 67777777664 22222 2346788877 332211111 112 245555331 11 24688888
Q ss_pred CHHHHHHHHhCCceEecHHHHHHHHH
Q 039224 146 DHLQQHAAYGAGAFVWSSKALVSEVS 171 (179)
Q Consensus 146 D~~iq~~a~~~GA~~iSs~ef~~~l~ 171 (179)
|.+....|+..||..+..+||.+.+.
T Consensus 79 ~~~~~~~Ak~aGa~~vg~eeLi~~ik 104 (230)
T PRK05424 79 KGEKAEEAKAAGADIVGGEDLIEKIK 104 (230)
T ss_pred ChHhHHHHHHcCCCEeCHHHHHHHHh
Confidence 45567778999999999999998775
No 70
>PF11977 RNase_Zc3h12a: Zc3h12a-like Ribonuclease NYN domain; InterPro: IPR021869 This domain is found in the Zc3h12a protein which has shown to be a ribonuclease that controls the stability of a set of inflammatory genes []. It has been suggested that this domain belongs to the PIN domain superfamily []. ; PDB: 3V33_A 3V34_B 3V32_B.
Probab=37.92 E-value=21 Score=28.09 Aligned_cols=28 Identities=14% Similarity=0.013 Sum_probs=20.2
Q ss_pred CCHHHHHHHHhCCceEecHHHHHHHHHH
Q 039224 145 SDHLQQHAAYGAGAFVWSSKALVSEVSL 172 (179)
Q Consensus 145 SD~~iq~~a~~~GA~~iSs~ef~~~l~~ 172 (179)
.|+.+-..|...||.++|-++|.+.+.+
T Consensus 90 dD~~il~~A~~~~a~IVSND~frD~~~~ 117 (155)
T PF11977_consen 90 DDRYILYYAEEKDAVIVSNDRFRDHIFE 117 (155)
T ss_dssp HHHHHHHHHHHTT-EEE-S---HHHHHH
T ss_pred chHHHHHHHHHcCCEEEeCchHHHHhhc
Confidence 5899999999999999999999887763
No 71
>PF01663 Phosphodiest: Type I phosphodiesterase / nucleotide pyrophosphatase; InterPro: IPR002591 This family consists of phosphodiesterases, including human plasma-cell membrane glycoprotein PC-1 / alkaline phosphodiesterase I / nucleotide pyrophosphatase (nppase). These enzymes catalyse the cleavage of phosphodiester and phosphosulphate bonds in NAD, deoxynucleotides and nucleotide sugars []. Another member of this family is ATX an autotaxin, tumor cell motility-stimulating protein which exhibits type I phosphodiesterases activity []. The alignment encompasses the active site [, ]. Also present within this family is 60 kDa Ca2+-ATPase from Myroides odoratus []. This signature also hits a number of ethanolamine phosphate transferase involved in glycosylphosphatidylinositol-anchor biosynthesis.; GO: 0003824 catalytic activity; PDB: 2XRG_A 2XR9_A 3T02_A 3T01_A 3SZZ_A 3SZY_A 3T00_A 3NKM_A 3NKN_A 3NKR_A ....
Probab=37.76 E-value=32 Score=29.18 Aligned_cols=34 Identities=32% Similarity=0.277 Sum_probs=24.0
Q ss_pred CChHHHHHHHHHHHhhCC--CCcEEEEcCCHHHHHH
Q 039224 119 TCADAWIEKEIVALREDG--CPKVWVVTSDHLQQHA 152 (179)
Q Consensus 119 ~TAD~~IErlv~~~~~~~--~~~V~VVTSD~~iq~~ 152 (179)
..+|..|.+++..+.+.+ ..-.+||||||-....
T Consensus 213 ~~~D~~ig~l~~~l~~~~~~~~~~iiv~SDHG~~~~ 248 (365)
T PF01663_consen 213 RRIDQAIGRLLEALDENGLLEDTNIIVTSDHGMTPV 248 (365)
T ss_dssp HHHHHHHHHHHHHHHHTT-TTTEEEEEEES---EEE
T ss_pred HHHHHHHHHHHHHHHhhCCCCceEEEEEccCccccc
Confidence 489999999999998641 1358899999976543
No 72
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=37.29 E-value=42 Score=24.84 Aligned_cols=51 Identities=16% Similarity=0.096 Sum_probs=32.4
Q ss_pred CeEEEeCCCC-ChHHHHHHHHHHHhhCCCCcEEEEcCCHHHH-HHHHhCCceEecHHHHH
Q 039224 110 GVDIVFPGET-CADAWIEKEIVALREDGCPKVWVVTSDHLQQ-HAAYGAGAFVWSSKALV 167 (179)
Q Consensus 110 gi~VvfT~~~-TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq-~~a~~~GA~~iSs~ef~ 167 (179)
..-|+||.++ || +++.+.+. +..|+++|+|..+. +...-+|...+-..++.
T Consensus 18 k~Ivv~T~sG~ta-----~~isk~RP--~~pIiavt~~~~~~r~l~l~~GV~p~~~~~~~ 70 (117)
T PF02887_consen 18 KAIVVFTESGRTA-----RLISKYRP--KVPIIAVTPNESVARQLSLYWGVYPVLIEEFD 70 (117)
T ss_dssp SEEEEE-SSSHHH-----HHHHHT-T--SSEEEEEESSHHHHHHGGGSTTEEEEECSSHS
T ss_pred CEEEEECCCchHH-----HHHHhhCC--CCeEEEEcCcHHHHhhhhcccceEEEEecccc
Confidence 4567888876 65 45555653 35799999887764 45668898886444333
No 73
>TIGR03552 F420_cofC 2-phospho-L-lactate guanylyltransferase CofC. Members of this protein family are the CofC enzyme of coenzyme F420 biosynthesis.
Probab=36.73 E-value=1.2e+02 Score=23.84 Aligned_cols=44 Identities=36% Similarity=0.309 Sum_probs=32.0
Q ss_pred ChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEecH
Q 039224 120 CADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVWSS 163 (179)
Q Consensus 120 TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~iSs 163 (179)
-+-.+|++.+..+...+...++|||++..+...+...|+.++.-
T Consensus 28 l~~~ll~~~l~~l~~~~~~~vvvv~~~~~~~~~~~~~~v~~i~~ 71 (195)
T TIGR03552 28 LALAMLRDVITALRGAGAGAVLVVSPDPALLEAARNLGAPVLRD 71 (195)
T ss_pred HHHHHHHHHHHHHHhcCCCCEEEECCCHHHHHHHHhcCCEEEec
Confidence 34467888887777543256899999888888777888877643
No 74
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=36.24 E-value=53 Score=23.62 Aligned_cols=59 Identities=17% Similarity=0.088 Sum_probs=35.4
Q ss_pred CceEEEEEcCCCCCCCCCceeecCeEEEeCCCC-ChHHHHHHHHHHHhhCCCCcEEEEcCCHH
Q 039224 87 EVKVVVVFDALMSGLPTHKEEFIGVDIVFPGET-CADAWIEKEIVALREDGCPKVWVVTSDHL 148 (179)
Q Consensus 87 g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~-TAD~~IErlv~~~~~~~~~~V~VVTSD~~ 148 (179)
|..+..+-|...............+-|++|..+ +.+ +.+++..+++.+ -.++++|+...
T Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~iS~~g~~~~--~~~~~~~a~~~g-~~iv~iT~~~~ 98 (139)
T cd05013 39 GKPVVLLSDPHLQLMSAANLTPGDVVIAISFSGETKE--TVEAAEIAKERG-AKVIAITDSAN 98 (139)
T ss_pred CCceEEecCHHHHHHHHHcCCCCCEEEEEeCCCCCHH--HHHHHHHHHHcC-CeEEEEcCCCC
Confidence 456666655443211111123467999999885 654 566666666553 57889998753
No 75
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=36.04 E-value=47 Score=27.27 Aligned_cols=40 Identities=28% Similarity=0.139 Sum_probs=29.8
Q ss_pred ChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 120 CADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 120 TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
+-|+-++=+-.... . -.+|.|++.|..+-.+|+..||..|
T Consensus 47 sleER~~l~~~~~~-~-l~nV~V~~f~~Llvd~ak~~~a~~i 86 (159)
T COG0669 47 SLEERVELIREATK-H-LPNVEVVGFSGLLVDYAKKLGATVL 86 (159)
T ss_pred CHHHHHHHHHHHhc-C-CCceEEEecccHHHHHHHHcCCCEE
Confidence 66665543333333 2 3589999999999999999999886
No 76
>PF09843 DUF2070: Predicted membrane protein (DUF2070); InterPro: IPR019204 This domain of unknown function is found in various bacterial and archael hypothetical proteins, as well as in prokaryotic polyketide synthase.
Probab=35.81 E-value=1.5e+02 Score=23.98 Aligned_cols=123 Identities=23% Similarity=0.156 Sum_probs=62.9
Q ss_pred EEecccccCcc--ccchhhhcCCCHHHHHHHHHHHH---HhccccCCceEEEEEcCCCCCCC-CC-c---eeecC--eEE
Q 039224 46 LVDGYNVCGYW--PKLENHFIKGRLDVARQKLIEEL---VEFSMIREVKVVVVFDALMSGLP-TH-K---EEFIG--VDI 113 (179)
Q Consensus 46 IVDGYNvI~a~--p~L~~~~~~~~Le~AR~~Li~~L---~~y~~~~g~~V~VVFDa~~~~~~-~~-~---~~~~g--i~V 113 (179)
|||-+|=+... |.-. ....++.+=..+.+.+ .++.-.-|+-...-|++...+-. .. . ...+| .-+
T Consensus 1 lvD~hN~~~~~v~p~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~lg~~gi~~~~v~~~g~~~~l 77 (179)
T PF09843_consen 1 LVDAHNCFGGEVVPGSE---DGFLLDPALKLALEALGFKEEYPLEVGYAEAEPFLGEHEGLGIGGISALVVEVGGQRSAL 77 (179)
T ss_pred CeeCCccCCCccCCCCC---cHHHHHHHHHHHHHhhcCccccccccceEeccCCCCCCCCcCccccEEEEEEeCCcEEEE
Confidence 58888888764 2211 1234555555555555 34444556655555666543211 11 0 11212 233
Q ss_pred EeCCCCChHHHH-HHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCc------eEecHHHHHHHHHHH
Q 039224 114 VFPGETCADAWI-EKEIVALREDGCPKVWVVTSDHLQQHAAYGAGA------FVWSSKALVSEVSLI 173 (179)
Q Consensus 114 vfT~~~TAD~~I-Erlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA------~~iSs~ef~~~l~~~ 173 (179)
++...+-.|.-. +++...+.+. ...+.|+|+|--.-.... .|+ ..++++++.+.+...
T Consensus 78 v~~DsNNm~~~lr~~i~~~~~~~-~d~~ev~TTDtH~~~~~~-~g~~y~~vG~~~~~~~i~~~~~~~ 142 (179)
T PF09843_consen 78 VLADSNNMEPGLREKIREALGDV-VDEVEVMTTDTHFVNGES-GGNGYWPVGPLIPPREIIESRREA 142 (179)
T ss_pred EEEECCCCCHHHHHHHHHHHhhh-cceeEEecCcccEEccEE-CCccceeccccCCHHHHHHHHHHH
Confidence 444445555444 4444444432 368999999976665552 233 112677777666543
No 77
>PF01650 Peptidase_C13: Peptidase C13 family; InterPro: IPR001096 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C13 (legumain family, clan CD). A type example is legumain from Canavalia ensiformis (Jack bean, Horse bean). The blood fluke parasite Schistosoma mansoni has two cysteine proteases in its digestive tract, one a cathepsin B-like protease, the other termed hemoglobinase [, ]. The latter has been hard to purify, free of cathepsin B, and expressed forms in Escherichia coli prove to be inactive, suggesting that hemoglobinase may act in association with cathepsin B [, ]. Plant vacuolar processing enzyme and legumain from legumes [] have been shown to have sequence and functional similarity to hemoglobinase. The catalytic residues of the family are currently unknown, but sequence alignments reveal one totally conserved cysteine and two totally conserved histidines.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=35.31 E-value=97 Score=26.73 Aligned_cols=97 Identities=12% Similarity=0.192 Sum_probs=62.7
Q ss_pred HHHHhccccCCceEEEE-EcCC--C--CCCCC-------CceeecCeEEEeCCCC-ChHHHHHHHHHHHh--------hC
Q 039224 77 EELVEFSMIREVKVVVV-FDAL--M--SGLPT-------HKEEFIGVDIVFPGET-CADAWIEKEIVALR--------ED 135 (179)
Q Consensus 77 ~~L~~y~~~~g~~V~VV-FDa~--~--~~~~~-------~~~~~~gi~VvfT~~~-TAD~~IErlv~~~~--------~~ 135 (179)
+.|.+ .+..+..|+++ .|.. . ++.++ ......|+.|-|+..+ ++..++--|..... ..
T Consensus 26 ~~l~~-~G~~~~~Iil~~~dd~a~~~~Np~~g~i~~~~~~~n~y~~~~iDY~g~~v~~~~fl~vL~G~~~~~~~kvl~s~ 104 (256)
T PF01650_consen 26 QLLKR-NGIPDENIILMMYDDIACNPRNPFPGKIFNDPDGTNVYKGVEIDYRGEDVTPENFLNVLTGDKSVPSGKVLNST 104 (256)
T ss_pred HHHHH-cCCCCceEEEEecCCccchhhCCCCceEEeCCCcccccCCccccccccccCHHHHHHHhcCCCCCCccccccCC
Confidence 33444 45555555555 4542 1 34343 3345678999999987 88877765553332 11
Q ss_pred CCCcEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHHH
Q 039224 136 GCPKVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLII 174 (179)
Q Consensus 136 ~~~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~~ 174 (179)
....|.|--+||--.....-..-..|++.+|...|+.+.
T Consensus 105 ~~D~vfiy~~~HG~~~~l~~~~~~~l~~~~L~~~L~~m~ 143 (256)
T PF01650_consen 105 ENDNVFIYFTGHGGPGFLKFPDGEELTADDLADALDKMH 143 (256)
T ss_pred CCCeEEEEEeccCCCCcccCCCcccccHHHHHHHHHHHH
Confidence 125699999998877755444689999999999987653
No 78
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....
Probab=34.83 E-value=89 Score=23.47 Aligned_cols=35 Identities=29% Similarity=0.407 Sum_probs=26.2
Q ss_pred HHHHHHHHHhhCCCCcEEEEcCCHHHHHHH-HhCCce
Q 039224 124 WIEKEIVALREDGCPKVWVVTSDHLQQHAA-YGAGAF 159 (179)
Q Consensus 124 ~IErlv~~~~~~~~~~V~VVTSD~~iq~~a-~~~GA~ 159 (179)
.|+.++....+.| .+|.|||+++..-..- .+.|..
T Consensus 70 ~i~~l~~~a~~~g-~~v~iis~~~e~G~~L~~~~gGI 105 (113)
T PF03465_consen 70 LIEELIELAEQSG-AKVEIISSEHEEGEQLLKGFGGI 105 (113)
T ss_dssp HHHHHHHHHHHTT-SEEEEE-TTSHHHHHHHHCTTTE
T ss_pred HHHHHHHHHHHcC-CEEEEEcCCCccHHHHHhcCCcE
Confidence 6777777777654 6999999999886666 777764
No 79
>PF12909 DUF3832: Protein of unknown function (DUF3832); InterPro: IPR024308 This domain found in bacteria and Acanthamoeba polyphaga mimivirus (APMV) L591 protein has no known function. In Q0AZ30 from SWISSPROT and other uncharacterised proteins this domain is found C-terminal, while the N terminus shows remote homology to the bacterial toxin/antitoxin 'addiction module' (PF12910 from PFAM).; PDB: 3K6Q_C.
Probab=34.60 E-value=20 Score=26.52 Aligned_cols=30 Identities=27% Similarity=0.336 Sum_probs=22.9
Q ss_pred ccccchhhhcCCCHHHHHHHHHHHHHhccc
Q 039224 55 YWPKLENHFIKGRLDVARQKLIEELVEFSM 84 (179)
Q Consensus 55 a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~ 84 (179)
+.|++.-.....++++|-+.|++.|.+|+.
T Consensus 22 ~l~~ldi~~~g~T~eeA~~~lie~l~dYAe 51 (89)
T PF12909_consen 22 SLPELDIYANGPTLEEAIEDLIEDLRDYAE 51 (89)
T ss_dssp EECCGTEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred EecCeeEEecCCCHHHHHHHHHHHHHHHHH
Confidence 344444434467899999999999999986
No 80
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=33.83 E-value=53 Score=33.61 Aligned_cols=65 Identities=22% Similarity=0.263 Sum_probs=44.7
Q ss_pred CcccccccccceeecCCCCCCCccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCC
Q 039224 20 EDTELYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALM 98 (179)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~ 98 (179)
+|.+-+||++|++.+=+..... +|=|.. ..+.+ -...+++.-=..|++.|++|... +.+|||-|.
T Consensus 75 ~dndp~rF~~yLi~al~~~~p~------~~~~a~---~l~q~-~~~~~l~~l~~~L~~Ela~~~~p----l~LVlDDyH 139 (894)
T COG2909 75 SDNDPARFLSYLIAALQQATPT------LGDEAQ---TLLQK-HQYVSLESLLSSLLNELASYEGP----LYLVLDDYH 139 (894)
T ss_pred ccCCHHHHHHHHHHHHHHhCcc------ccHHHH---HHHHh-cccccHHHHHHHHHHHHHhhcCc----eEEEecccc
Confidence 5788899999998764432221 233444 22333 24567888888899999998754 899999885
No 81
>TIGR02128 G6PI_arch bifunctional phosphoglucose/phosphomannose isomerase. This bifunctional isomerase is a member of the larger PGI superfamily and only distantly related to other glucose-6-phosphate isomerases. The family is limited to the archaea.
Probab=32.74 E-value=3.5e+02 Score=23.86 Aligned_cols=67 Identities=19% Similarity=0.100 Sum_probs=42.5
Q ss_pred ceEEEEEcCCCCCCCCCceeecCeEEEeCCCC-ChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 88 VKVVVVFDALMSGLPTHKEEFIGVDIVFPGET-CADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 88 ~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~-TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
..++++.|-.... ......+-|++|.++ |.+. +. .+....+.+ ..++++|++..+...+..+|...+
T Consensus 50 ~~v~~~~d~~l~~----~~~~~dlvI~iS~SG~t~e~-~~-a~~~A~~~g-~~ii~iT~~g~L~~~a~~~~~~~i 117 (308)
T TIGR02128 50 GPVFVVKDYRLPR----FVDGKTLLIAVSYSGNTEET-LS-AVEEAKKKG-AKVIAITSGGRLEEMAKERGLDVI 117 (308)
T ss_pred ccEEEEcCccccc----cCCCCeEEEEEcCCCCCHHH-HH-HHHHHHHcC-CEEEEECCCcHHHHHHHhcCCeEE
Confidence 4566655532211 123355788889885 6553 33 344444443 579999999999999988887765
No 82
>PHA03003 palmytilated EEV membrane glycoprotein; Provisional
Probab=31.07 E-value=56 Score=29.40 Aligned_cols=70 Identities=17% Similarity=0.210 Sum_probs=43.0
Q ss_pred ccCCCcccccccccceeec-CCCCCCCccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEE
Q 039224 16 EELPEDTELYRFFSYIYNT-NQGIDNAVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVF 94 (179)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVF 94 (179)
|.+|+++.+-..+.+.+.. -.-++.++..+.|.=|=.+.... . .=+++++.|.+-+. .|.+|-|++
T Consensus 17 ~~~p~~~~~~~~~~~~~~~l~~~I~~Ak~~I~i~~yi~~~~~d---------~---~g~~i~~aL~~aa~-rGV~Vril~ 83 (369)
T PHA03003 17 ETLPKSLGIATQHMSTYECFDEIISQAKKYIYIASFCCNLRST---------P---EGRLILDKLKEAAE-SGVKVTILV 83 (369)
T ss_pred EeCCCCCCCCCCCCCHHHHHHHHHHhhhhEEEEEEEEecccCC---------c---hHHHHHHHHHHhcc-CCCeEEEEe
Confidence 5688888544322211111 23456777888888775433221 1 12567777777664 999999999
Q ss_pred cCCC
Q 039224 95 DALM 98 (179)
Q Consensus 95 Da~~ 98 (179)
|+..
T Consensus 84 D~~~ 87 (369)
T PHA03003 84 DEQS 87 (369)
T ss_pred cCCC
Confidence 9864
No 83
>PRK05450 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional
Probab=30.82 E-value=1.4e+02 Score=24.31 Aligned_cols=38 Identities=24% Similarity=0.158 Sum_probs=23.1
Q ss_pred HHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 124 WIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 124 ~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
+|+..+..+.+.+..+|+|||++..++..+...|...+
T Consensus 29 ll~~~l~~l~~~~i~~ivvv~~~~~i~~~~~~~~~~v~ 66 (245)
T PRK05450 29 MIVRVYERASKAGADRVVVATDDERIADAVEAFGGEVV 66 (245)
T ss_pred HHHHHHHHHHhcCCCeEEEECCcHHHHHHHHHcCCEEE
Confidence 44444544443334578888877777776666666554
No 84
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=30.50 E-value=64 Score=28.34 Aligned_cols=57 Identities=14% Similarity=0.092 Sum_probs=38.1
Q ss_pred CccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhc--c--ccCCceEEEEEcCCC
Q 039224 41 AVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEF--S--MIREVKVVVVFDALM 98 (179)
Q Consensus 41 ~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y--~--~~~g~~V~VVFDa~~ 98 (179)
.|-++-|||||-++.-..++. .....++.-.-.|+..+.++ . ....--++++-++..
T Consensus 156 ~PVL~avD~~n~l~~~S~Y~~-~~~~~I~~~~L~l~~~f~~~~s~~~~~~nG~~v~~l~~t~ 216 (309)
T PF10236_consen 156 PPVLVAVDGFNALFGPSAYRD-PDFKPIHPHDLTLVRLFLDLLSGKRDFKNGAVVTALAATS 216 (309)
T ss_pred CceEEEehhhHHhhCCccccC-CCCccccHHHhhHHHHHHHHhcCccccCCCeEEEEEeccc
Confidence 566889999999988776664 23445666666677777777 2 334444555677765
No 85
>smart00785 AARP2CN AARP2CN (NUC121) domain. This domain is the central domain of AARP2. It is weakly similar to the GTP-binding domain of elongation factor TU PUBMED:15112237.
Probab=30.40 E-value=24 Score=25.47 Aligned_cols=33 Identities=21% Similarity=0.257 Sum_probs=28.9
Q ss_pred ccccccccceeecCCCCCCCccEEEEecccccC
Q 039224 22 TELYRFFSYIYNTNQGIDNAVPVLLVDGYNVCG 54 (179)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~lIVDGYNvI~ 54 (179)
..|.||++..+..+..-...++|+|+|.+..+.
T Consensus 3 ~nL~R~i~~~k~~~l~WR~~rpY~lad~~e~~~ 35 (83)
T smart00785 3 LNLLRFLSVMKPRPLSWRDQHPYMLADRVEDIT 35 (83)
T ss_pred HHHHHHHHhccCCCCcccCCCCeEEEEEeEecC
Confidence 457899999999999999999999999997773
No 86
>cd00403 Ribosomal_L1 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds its own mRNA. Like several other large ribosomal subunit proteins, L1 displays RNA chaperone activity. L1 is one of the largest ribosomal proteins. It is composed of two domains that cycle between open and closed conformations via a hinge motion. The RNA-binding site of L1 is highly conserved, with both mRNA and rRNA binding the same binding site.
Probab=29.87 E-value=86 Score=25.47 Aligned_cols=35 Identities=29% Similarity=0.206 Sum_probs=28.8
Q ss_pred CcEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHH
Q 039224 138 PKVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLI 173 (179)
Q Consensus 138 ~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~ 173 (179)
.+|.|++.|.. +..+...||.+++.++|...+..-
T Consensus 53 ~~i~v~~~d~~-~~~a~~~~a~vig~~~L~~~~~~~ 87 (208)
T cd00403 53 VKVCVFAKDEQ-AKEAKAAGADVVGGEDLKKKIKNG 87 (208)
T ss_pred eEEEEEcChHh-HHHHHHcCCCEEcHHHHHHHhhcc
Confidence 57999999755 567888899999999999887543
No 87
>PF14202 TnpW: Transposon-encoded protein TnpW
Probab=29.56 E-value=74 Score=19.71 Aligned_cols=22 Identities=18% Similarity=0.195 Sum_probs=18.1
Q ss_pred CeEEEeCCC--CChHHHHHHHHHH
Q 039224 110 GVDIVFPGE--TCADAWIEKEIVA 131 (179)
Q Consensus 110 gi~VvfT~~--~TAD~~IErlv~~ 131 (179)
-+.++|++. +|+-+-|.|++..
T Consensus 13 ~V~~~F~~~s~et~~DKi~rli~~ 36 (37)
T PF14202_consen 13 VVEVHFSETSKETMQDKIKRLIRR 36 (37)
T ss_pred EEEEEECCCccccHHHHHHHHHhc
Confidence 478999987 5999999998863
No 88
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=29.43 E-value=32 Score=21.82 Aligned_cols=14 Identities=29% Similarity=0.973 Sum_probs=10.0
Q ss_pred HHHHHHHHHhhhcC
Q 039224 166 LVSEVSLIIYYTCC 179 (179)
Q Consensus 166 f~~~l~~~~~~~~~ 179 (179)
|.--+--++||+||
T Consensus 16 ~~iiii~~~~YaCc 29 (38)
T PF02439_consen 16 MAIIIICMFYYACC 29 (38)
T ss_pred HHHHHHHHHHHHHH
Confidence 33445678899998
No 89
>PF13716 CRAL_TRIO_2: Divergent CRAL/TRIO domain; PDB: 2D4Q_B 3PG7_B 2E2X_B 3P7Z_B 3PEG_A.
Probab=27.73 E-value=1.5e+02 Score=22.24 Aligned_cols=47 Identities=19% Similarity=0.138 Sum_probs=27.4
Q ss_pred CCccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCC
Q 039224 40 NAVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALM 98 (179)
Q Consensus 40 ~~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~ 98 (179)
...+++++++-|+ .+ ..+++..-.-|+..|..- ......+||+|+..
T Consensus 12 ~g~pV~~~~~~~~--~~--------~~~~~~ll~yl~~~l~~~--~~~~~f~vVid~~~ 58 (149)
T PF13716_consen 12 EGRPVVVFIASRL--PS--------SDDLERLLLYLLSTLSEE--VVDKPFSVVIDHTG 58 (149)
T ss_dssp TS-EEEEEEGGG---C---------TTHHHHHHHHHHHHH-TT--TTTS-EEEEEE-TT
T ss_pred CcCEEEEEECCcC--cc--------hhhHHHHHHHHHHhhhHH--hcCCCEEEEEEcCC
Confidence 5679999999999 21 125565555666666333 34445899999886
No 90
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=27.59 E-value=1.6e+02 Score=26.97 Aligned_cols=93 Identities=12% Similarity=0.004 Sum_probs=48.0
Q ss_pred CHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCC-ChHHHHHHHHHHHhh--CCCCcEEE
Q 039224 67 RLDVARQKLIEELVEFSM-IREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGET-CADAWIEKEIVALRE--DGCPKVWV 142 (179)
Q Consensus 67 ~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~-TAD~~IErlv~~~~~--~~~~~V~V 142 (179)
.++..|.++.+.+..+.. ..|.++.|+=|+...-+..+--..-|++|+..... ..+.+-+++...+.. .+..-.++
T Consensus 282 ~i~~er~~~~~~~~~~~~~l~gkrv~i~g~~~~~~~la~~L~elGm~v~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~ 361 (435)
T cd01974 282 ELEEERGRLVDAMTDSHQYLHGKKFALYGDPDFLIGLTSFLLELGMEPVHVLTGNGGKRFEKEMQALLDASPYGAGAKVY 361 (435)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCEEEEEcChHHHHHHHHHHHHCCCEEEEEEeCCCCHHHHHHHHHHHhhcCCCCCcEEE
Confidence 477888999999999865 77888877766543211111112357777554332 222333333322321 11122344
Q ss_pred EcCCHH-HHHHHHhCCce
Q 039224 143 VTSDHL-QQHAAYGAGAF 159 (179)
Q Consensus 143 VTSD~~-iq~~a~~~GA~ 159 (179)
.+.|.. +...++..++-
T Consensus 362 ~~~d~~e~~~~i~~~~pD 379 (435)
T cd01974 362 PGKDLWHLRSLLFTEPVD 379 (435)
T ss_pred ECCCHHHHHHHHhhcCCC
Confidence 566743 33444555553
No 91
>COG3119 AslA Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]
Probab=27.57 E-value=59 Score=30.14 Aligned_cols=30 Identities=37% Similarity=0.344 Sum_probs=24.2
Q ss_pred CChHHHHHHHHHHHhhCCC--CcEEEEcCCHH
Q 039224 119 TCADAWIEKEIVALREDGC--PKVWVVTSDHL 148 (179)
Q Consensus 119 ~TAD~~IErlv~~~~~~~~--~~V~VVTSD~~ 148 (179)
...|.-|-|++..|.+.|- ..++|+|||+-
T Consensus 267 ~~~D~~iGrll~~L~~~g~~DnTivvftsDhG 298 (475)
T COG3119 267 RYLDDQIGRLLDALKELGLLDNTIVVFTSDHG 298 (475)
T ss_pred HHHHHHHhHHHHHHHHhCCccCcEEEEeCCCC
Confidence 3679999999999987642 36889999985
No 92
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=27.44 E-value=1e+02 Score=23.88 Aligned_cols=21 Identities=10% Similarity=0.215 Sum_probs=11.3
Q ss_pred cCeEEEeCCC-CChHHHHHHHH
Q 039224 109 IGVDIVFPGE-TCADAWIEKEI 129 (179)
Q Consensus 109 ~gi~VvfT~~-~TAD~~IErlv 129 (179)
.|++|++... .+++++++...
T Consensus 29 ~GfeVi~lg~~~s~e~~v~aa~ 50 (132)
T TIGR00640 29 LGFDVDVGPLFQTPEEIARQAV 50 (132)
T ss_pred CCcEEEECCCCCCHHHHHHHHH
Confidence 5566666654 35555555443
No 93
>PF13280 WYL: WYL domain
Probab=26.93 E-value=1.2e+02 Score=22.60 Aligned_cols=35 Identities=14% Similarity=0.027 Sum_probs=26.9
Q ss_pred EEEEcCC-HHHHHHHHhCC--ceEecHHHHHHHHHHHH
Q 039224 140 VWVVTSD-HLQQHAAYGAG--AFVWSSKALVSEVSLII 174 (179)
Q Consensus 140 V~VVTSD-~~iq~~a~~~G--A~~iSs~ef~~~l~~~~ 174 (179)
+++..+| ..+...++++| +.++++++|.+.+.+..
T Consensus 131 ~~~~~~~~~~~~~~l~~~g~~v~Vl~P~~lr~~~~~~l 168 (172)
T PF13280_consen 131 VTFPVNDSEELLRWLLSFGDHVEVLEPESLRQRLKERL 168 (172)
T ss_pred EEEEEechHHHHHHHHHhCCCEEEECCHHHHHHHHHHH
Confidence 4444444 77888888888 99999999999887653
No 94
>cd09215 Thaumatin-like the sweet-tasting protein, thaumatin, and thaumatin-like proteins involved in host defense. This family is represented by the sweet-tasting protein thaumatin from the African berry Thaumatococcus daniellii and thaumatin-like proteins (TLPs) involved in host defense and a wide range of developmental processes in fungi, plants, and animals. Plant TLPs are classified as pathogenesis-related (PR) protein family 5 (PR5), their expression is induced by environmental stresses such as pathogen/pest attack, drought and cold. TLPs included in this family are such proteins as zeamatin, found in high concentrations in cereal seeds; osmotin, a salt-induced protein in osmotically stressed plants; and PpAZ44, a propylene-induced TLP in abscission of young fruit. Several members of the plant TLP family have been reported as food allergens from fruits (i.e., cherry, Pru av 2; bell pepper, Cap a1; tomatoes, Lyc e NP24) and pollen allergens from conifers (i.e., mountain cedar, Jun
Probab=26.66 E-value=26 Score=28.42 Aligned_cols=11 Identities=55% Similarity=0.887 Sum_probs=9.1
Q ss_pred cEEEEeccccc
Q 039224 43 PVLLVDGYNVC 53 (179)
Q Consensus 43 ~~lIVDGYNvI 53 (179)
.+=+||||||=
T Consensus 101 dVSlVdG~NlP 111 (157)
T cd09215 101 DISLVDGYNLP 111 (157)
T ss_pred EEEeeccccCC
Confidence 56699999985
No 95
>PRK13759 arylsulfatase; Provisional
Probab=26.08 E-value=74 Score=29.49 Aligned_cols=31 Identities=29% Similarity=0.268 Sum_probs=24.3
Q ss_pred ChHHHHHHHHHHHhhCC--CCcEEEEcCCHHHH
Q 039224 120 CADAWIEKEIVALREDG--CPKVWVVTSDHLQQ 150 (179)
Q Consensus 120 TAD~~IErlv~~~~~~~--~~~V~VVTSD~~iq 150 (179)
..|+.|.+++..+.+.+ ...++|+|||+-..
T Consensus 276 ~~D~~iG~l~~~l~~~g~~dnTiiv~tsDHG~~ 308 (485)
T PRK13759 276 HIDHQIGRFLQALKEFGLLDNTIILFVSDHGDM 308 (485)
T ss_pred HHHHHHHHHHHHHHhcCCccCeEEEEECCCccc
Confidence 47899999999998643 23588999999864
No 96
>cd02517 CMP-KDO-Synthetase CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide. CMP-KDO Synthetase: 3-Deoxy-D-manno-octulosonate cytidylyltransferase (CMP-KDO synthetase) catalyzes the conversion of CTP and 3-deoxy-D-manno-octulosonate into CMP-3-deoxy-D-manno-octulosonate (CMP-KDO) and pyrophosphate. KDO is an essential component of the lipopolysaccharide found in the outer surface of gram-negative eubacteria. It is also a constituent of the capsular polysaccharides of some gram-negative eubacteria. Its presence in the cell wall polysaccharides of green algae and plant were also discovered. However, they have not been found in yeast and animals. The absence of the enzyme in mammalian cells makes it an attractive target molecule for drug design.
Probab=25.48 E-value=1.9e+02 Score=23.29 Aligned_cols=38 Identities=24% Similarity=0.170 Sum_probs=22.2
Q ss_pred HHHHHHHHHhhC-CCCcEEEEcCCHHHHHHHHhCCceEe
Q 039224 124 WIEKEIVALRED-GCPKVWVVTSDHLQQHAAYGAGAFVW 161 (179)
Q Consensus 124 ~IErlv~~~~~~-~~~~V~VVTSD~~iq~~a~~~GA~~i 161 (179)
+|+..+..+.+. +..+|+|+|.+..+...+...|..++
T Consensus 28 ll~~~l~~l~~~~~i~~ivvv~~~~~i~~~~~~~~~~~~ 66 (239)
T cd02517 28 MIQHVYERAKKAKGLDEVVVATDDERIADAVESFGGKVV 66 (239)
T ss_pred HHHHHHHHHHhCCCCCEEEEECCcHHHHHHHHHcCCEEE
Confidence 344444444432 34567788877777776666665543
No 97
>PF08476 VD10_N: Viral D10 N-terminal; InterPro: IPR013683 This domain is found on the N terminus of the viral protein D10 (VD10) and the related MutT motif proteins []. The VD10 protein is probably essential for virus replication [] and is often found to the N terminus of a NUDIX hydrolase domain. Previous studies indicated that the vaccinia virus D10 protein, which is conserved in all sequenced poxviruses, participates in the rapid turnover of host and viral mRNAs. D10 contains a motif present in the family of Nudix/MutT enzymes, a subset of which has been shown to enhance mRNA turnover in eukaryotic cells through cleavage of the 5' cap (m7GpppNm-). The D10 protein possesses an intrinsic activity that liberates m7GDP from capped RNA substrates. Furthermore, point mutations in the Nudix/MutT motif abolished decapping activity. D10 has a strong affinity for capped RNA substrates of lengths of 24-309 nt were decapped efficiently. The poxviruses represent the only virus family shown to encode a Nudix hydrolase-decapping enzyme. The activity of the decapping and capping enzymes, accelerate mRNA turnover and helps to eliminate competing host mRNAs allowing stage-specific synthesis of viral proteins [].; GO: 0016791 phosphatase activity
Probab=25.38 E-value=27 Score=22.95 Aligned_cols=30 Identities=20% Similarity=0.308 Sum_probs=23.6
Q ss_pred ccccceeecCCCCCCCccEEEEecccccCccc
Q 039224 26 RFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWP 57 (179)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~lIVDGYNvI~a~p 57 (179)
..|++|.++|+.+++ ++++.|+---|.+-+
T Consensus 7 ~~~~~I~k~NrkLsk--tyi~~Dd~QrI~aT~ 36 (45)
T PF08476_consen 7 SLFSYIIKSNRKLSK--TYIFSDDSQRITATG 36 (45)
T ss_pred hHHHHHHHhCccccC--cEEEecCCeEEEEee
Confidence 468999999998864 689999887775543
No 98
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=25.20 E-value=1.7e+02 Score=26.99 Aligned_cols=88 Identities=9% Similarity=0.050 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCCCCCCceeecCeEEEeCCC--CChHHHHHHHHHHHhhCCCCcEEEEc
Q 039224 68 LDVARQKLIEELVEFSM-IREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGE--TCADAWIEKEIVALREDGCPKVWVVT 144 (179)
Q Consensus 68 Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~--~TAD~~IErlv~~~~~~~~~~V~VVT 144 (179)
++..|.++.+.|..|.. ..|.++.|..|+...-+..+--..-|++|+.+.. .+.|+ .+.+-..+. ..+.|++
T Consensus 306 i~~e~~~~~~~l~~~~~~L~Gkrv~i~~g~~~~~~l~~~l~elGmevv~~~t~~~~~~d-~~~l~~~~~----~~~~v~~ 380 (456)
T TIGR01283 306 IAREEAKIRPALEPYRERLKGKKAAIYTGGVKSWSLVSALQDLGMEVVATGTQKGTEED-YARIRELMG----EGTVMLD 380 (456)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCEEEEEcCCchHHHHHHHHHHCCCEEEEEeeecCCHHH-HHHHHHHcC----CCeEEEe
Confidence 45567789999999875 7899998877764322121212347888888754 35554 233222222 2344444
Q ss_pred C-CH-HHHHHHHhCCceE
Q 039224 145 S-DH-LQQHAAYGAGAFV 160 (179)
Q Consensus 145 S-D~-~iq~~a~~~GA~~ 160 (179)
+ |. ++.+.++..++..
T Consensus 381 ~~d~~e~~~~i~~~~pDl 398 (456)
T TIGR01283 381 DANPRELLKLLLEYKADL 398 (456)
T ss_pred CCCHHHHHHHHhhcCCCE
Confidence 2 33 3444555555533
No 99
>TIGR00017 cmk cytidylate kinase. This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.
Probab=25.12 E-value=1.2e+02 Score=25.22 Aligned_cols=69 Identities=12% Similarity=0.050 Sum_probs=41.6
Q ss_pred EEEEecccc---cCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCC
Q 039224 44 VLLVDGYNV---CGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGE 118 (179)
Q Consensus 44 ~lIVDGYNv---I~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~ 118 (179)
.+.+||-+| |+.-+--...........-|+.|.+.+.+++... -+|+||+..+..- .....+.|.++.+
T Consensus 76 ~~~l~~~~v~~~ir~~~v~~~~s~~a~~p~VR~~l~~~qr~~a~~~----~~Vi~Gr~~~~~v--~~~a~~~ifl~a~ 147 (217)
T TIGR00017 76 EVFLNGEDVSEAIRTQEVANAASKVAVFPKVREALLKRQQALAKND----GIIADGRDIGTVV--FPNAEVKIFLDAS 147 (217)
T ss_pred eEEEcCcchHHHhcCHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcC----CEEEEEcCcceEE--eCCCCEEEEEECC
Confidence 478899998 4333322221122345578999999999987543 3899998644221 1224467766654
No 100
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=24.99 E-value=1.6e+02 Score=23.82 Aligned_cols=49 Identities=12% Similarity=0.139 Sum_probs=33.9
Q ss_pred CccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEc
Q 039224 41 AVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFD 95 (179)
Q Consensus 41 ~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFD 95 (179)
.+++++||..+.+..-. . ..+....-..++..|..++...++-++++=.
T Consensus 123 ~~~~vvID~l~~l~~~~---~---~~~~~~~~~~~~~~L~~la~~~~~~ii~~~q 171 (242)
T cd00984 123 GLGLIVIDYLQLMSGSK---K---KGNRQQEVAEISRSLKLLAKELNVPVIALSQ 171 (242)
T ss_pred CCCEEEEcCchhcCCCC---C---CCCHHHHHHHHHHHHHHHHHHhCCeEEEecc
Confidence 67899999988874221 1 1233344567888888888888888777764
No 101
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=24.89 E-value=1.3e+02 Score=22.81 Aligned_cols=68 Identities=12% Similarity=0.045 Sum_probs=37.0
Q ss_pred HHhccccCCceEEEEEcCCCCCCCCCc-eeecCeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCH
Q 039224 79 LVEFSMIREVKVVVVFDALMSGLPTHK-EEFIGVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDH 147 (179)
Q Consensus 79 L~~y~~~~g~~V~VVFDa~~~~~~~~~-~~~~gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~ 147 (179)
|....+..++++.|.|++......... ....++++.--..++=.+-+.+.+... ..+...|++|-||-
T Consensus 2 l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~Q~g~dLG~Rm~~a~~~~-~~g~~~vvliGsD~ 70 (122)
T PF09837_consen 2 LAALAQADGADVVLAYTPDGDHAAFRQLWLPSGFSFFPQQGGDLGERMANAFQQA-ARGYEPVVLIGSDC 70 (122)
T ss_dssp ------TSSSEEEEEE----TTHHHHHHHH-TTSEEEE--SSSHHHHHHHHHHHH-HTT-SEEEEE-SS-
T ss_pred ccccccCCCcCEEEEEcCCccHHHHhccccCCCCEEeecCCCCHHHHHHHHHHHH-HcCCCcEEEEcCCC
Confidence 445566788999999998754321111 234667776665578888888888888 34567899999993
No 102
>COG3083 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]
Probab=24.79 E-value=74 Score=31.03 Aligned_cols=77 Identities=13% Similarity=0.131 Sum_probs=47.3
Q ss_pred HHHHHHHHhccc-cCCceEEEEEcCCC-CCCCCCceeec--CeEEEeCCC-CChHHHHHHHHHHHhhCCC--CcEEEEcC
Q 039224 73 QKLIEELVEFSM-IREVKVVVVFDALM-SGLPTHKEEFI--GVDIVFPGE-TCADAWIEKEIVALREDGC--PKVWVVTS 145 (179)
Q Consensus 73 ~~Li~~L~~y~~-~~g~~V~VVFDa~~-~~~~~~~~~~~--gi~VvfT~~-~TAD~~IErlv~~~~~~~~--~~V~VVTS 145 (179)
.+-+..+.++++ -+-+--.+-+++.. ...+....... .+.=-|... ..+|+.|-+.+.++.+.+. ..|+|+||
T Consensus 379 t~~~~wf~~~~~~d~PwFs~L~l~~~~~~~~~~s~q~~~~~~~~~~Y~~a~~~vD~~I~~vLe~L~~~~~L~NTvVIITs 458 (600)
T COG3083 379 TQWLLWFGRYRDEDNPWFSYLSLNSSHANDDPSSNQAKARPPFKNRYQNALREVDSQIGRVLEQLRNSGLLDNTVVIITA 458 (600)
T ss_pred HHHHHHHHHhhccCCCceEEEEccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHhhcccccceEEEEEC
Confidence 344555666665 45678888899853 33222111111 133334434 4899999999999976432 46999999
Q ss_pred CHHH
Q 039224 146 DHLQ 149 (179)
Q Consensus 146 D~~i 149 (179)
||-+
T Consensus 459 ~HG~ 462 (600)
T COG3083 459 DHGE 462 (600)
T ss_pred CCCc
Confidence 9854
No 103
>TIGR03708 poly_P_AMP_trns polyphosphate:AMP phosphotransferase. Members of this protein family contain a domain duplication. The characterized member from Acinetobacter johnsonii is polyphosphate:AMP phosphotransferase (PAP), which can transfer the terminal phosphate from poly(P) to AMP, yielding ADP. In the opposite direction, this enzyme can synthesize poly(P). Each domain of this protein family is homologous to polyphosphate kinase, an enzyme that can run in the forward direction to extend a polyphosphate chain with a new terminal phosphate from ATP, or in reverse to make ATP (or GTP) from ADP (or GDP).
Probab=24.78 E-value=2.1e+02 Score=27.31 Aligned_cols=77 Identities=10% Similarity=0.080 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHhccccCCceEEEEEcCCCCCCCCC-------ceeecCeEEEeCCC----CChHHHHHHHHHHHhhCC
Q 039224 68 LDVARQKLIEELVEFSMIREVKVVVVFDALMSGLPTH-------KEEFIGVDIVFPGE----TCADAWIEKEIVALREDG 136 (179)
Q Consensus 68 Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~-------~~~~~gi~VvfT~~----~TAD~~IErlv~~~~~~~ 136 (179)
|+..+.+|.++-.... ..+..++|||.|....+.+. .....|++|+=-+. +.+=.+.=|+-..++..
T Consensus 279 l~~l~~~L~~lq~~l~-~~~~~vlivfeG~DaAGKgg~I~rl~~~ldPrg~~v~~~~~Pt~~E~~~~~lwRf~~~lP~~- 356 (493)
T TIGR03708 279 LELLQGRLAKLQRDPR-FRKRSLVLVFEGWDAAGKGGAIRRVTEALDARQYRVVPIAAPTDEEKAQHYLWRFWRHIPRR- 356 (493)
T ss_pred HHHHHHHHHHHHHHHH-hCCCCEEEEEEcccCCCCcHHHHHHHhhcCCCeeEEEeCCCcCHHHHcCcHHHHHHHhCCCC-
Confidence 3344444443333322 37889999999986433221 12456887764433 25557899999999864
Q ss_pred CCcEEEEcCCH
Q 039224 137 CPKVWVVTSDH 147 (179)
Q Consensus 137 ~~~V~VVTSD~ 147 (179)
.++.|-=--+
T Consensus 357 -G~i~iFdRSw 366 (493)
T TIGR03708 357 -GRITIFDRSW 366 (493)
T ss_pred -CeEEEEcCCc
Confidence 5677764433
No 104
>PF04536 TPM: TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; InterPro: IPR007621 This is a family of uncharacterised proteins. They are found in both eukarya and eubacteria. In eubacteria the region is towards the N-terminal of the protein and is accompanied by an N-terminal signal sequence. The C-terminal of eubacterial proteins typically contains one or more putative transmembrane regions. In eukaryotes the region is not accompanied by a signal sequence.; PDB: 3PTJ_A 3PW9_A 3PVH_A 2KPT_A 2KW7_A.
Probab=24.76 E-value=88 Score=22.47 Aligned_cols=78 Identities=15% Similarity=0.139 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCCChHHHHHHHHHHHhh----CCCCcE-EEEc
Q 039224 70 VARQKLIEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGETCADAWIEKEIVALRE----DGCPKV-WVVT 144 (179)
Q Consensus 70 ~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~TAD~~IErlv~~~~~----~~~~~V-~VVT 144 (179)
+.|++|-+.|.++.+..|.++.||.=....+ .++..|-.++...+.- .+..-+ .|.+
T Consensus 5 ~~~~~l~~~l~~~~~~t~~~i~Vvtv~~~~~------------------~~~~~~A~~~~~~~~~g~~~~~~gvlilv~~ 66 (119)
T PF04536_consen 5 EERERLNQALAKLEKKTGVQIVVVTVPSLPG------------------QDIEDYAQQLFERWGLGDGECNNGVLILVSK 66 (119)
T ss_dssp HHHHHHHHHHHHHHHHC--EEEEEEESB-TT------------------S-HHHHHHHHHHHHSTTCCCTSSEEEEEEET
T ss_pred HHHHHHHHHHHHHHHhhCCEEEEEEEcCCCC------------------CCHHHHHHHHHHHhCCCCccccCcEEEEEEc
Confidence 5789999999999999999987776322111 5677777777777541 111123 3345
Q ss_pred CCHHHHHHHHhCCce-EecHHHH
Q 039224 145 SDHLQQHAAYGAGAF-VWSSKAL 166 (179)
Q Consensus 145 SD~~iq~~a~~~GA~-~iSs~ef 166 (179)
.|+.+.-. .+.|+. .++...+
T Consensus 67 ~~r~~~i~-~g~~~~~~l~~~~~ 88 (119)
T PF04536_consen 67 DDRKVRIE-TGGGLEERLTDSEC 88 (119)
T ss_dssp TTTEEEEE-E-CTCCCCH-HHHH
T ss_pred CCCEEEEE-ECCchhhcCCHHHH
Confidence 55553322 355554 3444433
No 105
>TIGR01279 DPOR_bchN light-independent protochlorophyllide reductase, N subunit. This enzyme describes the N subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme involved in bacteriochlorophyll biosynthesis. This subunit shows homology to the nitrogenase molybdenum-iron protein NifN.
Probab=24.67 E-value=1.6e+02 Score=26.74 Aligned_cols=88 Identities=15% Similarity=0.092 Sum_probs=53.8
Q ss_pred HHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCC-ChHHHHHHHHHHHhhCCCCcEEEEcC
Q 039224 68 LDVARQKLIEELVEFSM-IREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGET-CADAWIEKEIVALREDGCPKVWVVTS 145 (179)
Q Consensus 68 Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~-TAD~~IErlv~~~~~~~~~~V~VVTS 145 (179)
++..|.++.+.|..|.. ..|.++.|+=|+...-+..+--..-|++++..... .-..++++....+.. .-.++-..
T Consensus 254 ~~~e~~~~~~~l~~~~~~l~Gkrv~i~gd~~~~~~l~~~L~elGm~~v~~~t~~~~~~~~~~~~~~l~~---~~~v~~~~ 330 (407)
T TIGR01279 254 LSEREAQAWRALEPHTQLLRGKKIFFFGDNLLELPLARFLKRCGMEVVECGTPYIHRRFHAAELALLEG---GVRIVEQP 330 (407)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCEEEEECCchHHHHHHHHHHHCCCEEEEecCCCCChHHHHHHHhhcCC---CCeEEeCC
Confidence 67788899999999976 77888888767543221111112269999999874 334556777777653 12334445
Q ss_pred CHHH-HHHHHhCCc
Q 039224 146 DHLQ-QHAAYGAGA 158 (179)
Q Consensus 146 D~~i-q~~a~~~GA 158 (179)
|... .+.++..++
T Consensus 331 d~~~l~~~i~~~~p 344 (407)
T TIGR01279 331 DFHRQLQRIRATRP 344 (407)
T ss_pred CHHHHHHHHHhcCC
Confidence 6554 333344444
No 106
>PRK03094 hypothetical protein; Provisional
Probab=24.63 E-value=2.7e+02 Score=20.25 Aligned_cols=22 Identities=9% Similarity=0.006 Sum_probs=16.0
Q ss_pred eecCeEEEeCCCCChHHHHHHH
Q 039224 107 EFIGVDIVFPGETCADAWIEKE 128 (179)
Q Consensus 107 ~~~gi~VvfT~~~TAD~~IErl 128 (179)
...+.-|+=+...|||+....+
T Consensus 54 ~~t~~pVI~A~G~TaeEI~~~v 75 (80)
T PRK03094 54 TSTKGSVITASGLTADEICQQV 75 (80)
T ss_pred cccCCcEEEcCCCCHHHHHHHH
Confidence 4467788888777999876554
No 107
>COG0224 AtpG F0F1-type ATP synthase, gamma subunit [Energy production and conversion]
Probab=24.55 E-value=1.1e+02 Score=27.27 Aligned_cols=49 Identities=18% Similarity=0.209 Sum_probs=42.8
Q ss_pred ecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCC
Q 039224 48 DGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMS 99 (179)
Q Consensus 48 DGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~ 99 (179)
.|||++..|-.|.. ..+++.+.+-.-..+..|....=-++.|||-.+.+
T Consensus 126 ~~~~i~~~~~~l~~---~p~~~~~~~i~~~~~~~~~~g~~d~v~l~yn~f~n 174 (287)
T COG0224 126 RGYNILESFTGLGD---NPSFEEAIQIADKILDAFLEGEIDELYLVYNKFKN 174 (287)
T ss_pred cCcchhhHhhcccc---CCCHHHHHHHHHHHHHHHhCCCCceEEEEeccccc
Confidence 69999999999977 37999999999999999998887799999998763
No 108
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=24.40 E-value=1.4e+02 Score=20.46 Aligned_cols=20 Identities=20% Similarity=0.018 Sum_probs=16.4
Q ss_pred HHHHHHHHhCCceEecHHHH
Q 039224 147 HLQQHAAYGAGAFVWSSKAL 166 (179)
Q Consensus 147 ~~iq~~a~~~GA~~iSs~ef 166 (179)
..+++.++..|+.++|.+-.
T Consensus 6 ~~i~ria~~~Gi~ris~~a~ 25 (65)
T smart00803 6 ETIKDVAESLGIGNLSDEAA 25 (65)
T ss_pred HHHHHHHHHCCCccccHHHH
Confidence 35788999999999998743
No 109
>COG0503 Apt Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]
Probab=24.37 E-value=42 Score=27.30 Aligned_cols=37 Identities=22% Similarity=0.135 Sum_probs=27.7
Q ss_pred hhhcccCCCcccccccccceeecCCCCCCCccEEEEe
Q 039224 12 KVEKEELPEDTELYRFFSYIYNTNQGIDNAVPVLLVD 48 (179)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lIVD 48 (179)
|+.-++..+...+.-+.+.+..|+..+....+++|||
T Consensus 87 kl~~~~~~~~~~~~~~~~~l~~~~~~l~~G~rVlIVD 123 (179)
T COG0503 87 KLPEESVVETYYLEYGSETLELHKDALKPGDRVLIVD 123 (179)
T ss_pred CCCCcceeEEEEEeccceEEEEEhhhCCCCCEEEEEe
Confidence 5555555555555555678888998888888999999
No 110
>PF11181 YflT: Heat induced stress protein YflT
Probab=24.36 E-value=1.4e+02 Score=21.76 Aligned_cols=54 Identities=15% Similarity=0.049 Sum_probs=32.5
Q ss_pred CCChHHHHHHHHHHHhhCCCCcEEEEcCCHH-HHHHHHhCCceEec--HHHHHHHHHHH
Q 039224 118 ETCADAWIEKEIVALREDGCPKVWVVTSDHL-QQHAAYGAGAFVWS--SKALVSEVSLI 173 (179)
Q Consensus 118 ~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~-iq~~a~~~GA~~iS--s~ef~~~l~~~ 173 (179)
++.|-+.|+.|..+=-. ...++|+|-|.. ....+...++..++ .+-|++.+...
T Consensus 9 ~~E~~~~I~~L~~~Gy~--~ddI~Vva~d~~~~~~l~~~t~~~~~~~~~~~~~d~~~~~ 65 (103)
T PF11181_consen 9 EEEALSAIEELKAQGYS--EDDIYVVAKDKDRTERLADQTDTNTVGASEESFWDKIKNF 65 (103)
T ss_pred HHHHHHHHHHHHHcCCC--cccEEEEEcCchHHHHHHHhcCCceeccccccHHHHHHHh
Confidence 34666667776554332 357999995554 55555555776544 46677666544
No 111
>PRK12306 uvrC excinuclease ABC subunit C; Reviewed
Probab=24.31 E-value=34 Score=32.70 Aligned_cols=52 Identities=31% Similarity=0.462 Sum_probs=33.7
Q ss_pred hhhhhhhhcccCCCccc-----ccccccceeecCCCCCCCccEEEEecccccCccccchhhhcCCCHHHHHHHH
Q 039224 7 SYRRKKVEKEELPEDTE-----LYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKL 75 (179)
Q Consensus 7 ~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~L 75 (179)
.||+-+....+-+.|.. ++|-|+.+...+ ...|+++||||= .+.|..|.+.|
T Consensus 398 ~YR~f~Ik~~~~~dDy~~m~Evl~RR~~r~~~~~---~~~PDLilIDGG--------------kgQl~aa~~~l 454 (519)
T PRK12306 398 NYRRFKIKTVEGIDDFASIAEVVRRRYSRLLEEN---SELPDLIVIDGG--------------KGQLSSAFKEL 454 (519)
T ss_pred hcCeeecCCCCCCCHHHHHHHHHHHHHhhccccc---CCCCCEEEEeCC--------------HHHHHHHHHHH
Confidence 58887776544456643 677777665432 146899999991 23566777766
No 112
>cd09219 TLP-F thaumatin-like proteins: basidiomycete homologs. This subfamily is represented by Lentinula edodes TLG1, a thaumatin-like protein (TLP), as well as, other basidiomycete homologs. In general, TLPs are involved in host defense and a wide range of developmental processes in fungi, plants, and animals. TLG1 TLP is involved in lentinan degradation and fruiting body senescence. TLG1 expressed in Escherichia coli and Aspergillus oryzae exhibited beta-1,3-glucanase activity and demonstrated lentinan degrading activity. TLG1 is proposed to be involved in lentinan and cell wall degradation during senescence following harvest and spore diffusion. TLPs are three-domain, crescent-fold structures with either an electronegative, electropositive, or neutral cleft occurring between domains I and II. TLG1 from Lentinula edodes contains the required acidic amino acids conserved in the appropriate positions to possess an electronegative cleft. TLPs within this subfamily contain 13 conserve
Probab=24.28 E-value=31 Score=29.76 Aligned_cols=12 Identities=42% Similarity=0.653 Sum_probs=9.4
Q ss_pred cEEEEecccccC
Q 039224 43 PVLLVDGYNVCG 54 (179)
Q Consensus 43 ~~lIVDGYNvI~ 54 (179)
.+=+||||||=.
T Consensus 105 dVSlVDGfNlP~ 116 (229)
T cd09219 105 DISLVDGFNIPL 116 (229)
T ss_pred EEEEecccccce
Confidence 456999999853
No 113
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=24.22 E-value=35 Score=33.45 Aligned_cols=52 Identities=23% Similarity=0.325 Sum_probs=34.7
Q ss_pred hhhhhhhhcccCCCccc-----ccccccceeecCCCCCCCccEEEEecccccCccccchhhhcCCCHHHHHHHH
Q 039224 7 SYRRKKVEKEELPEDTE-----LYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKL 75 (179)
Q Consensus 7 ~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~L 75 (179)
.||+=++...+-|.|.. ++|.|+.+...+ ...|+++|||| ..+.|..|.+-|
T Consensus 428 ~YRkf~Ik~~~~~DDya~M~Evl~RR~~r~~~~~---~~~PDLilIDG--------------GkgQl~aa~~vl 484 (624)
T PRK14669 428 DYRKFIIKTVVGVDDFASMREVVTRRYSRLQEEK---QPMPGLVLIDG--------------GLGQLHAAAEAL 484 (624)
T ss_pred hCCeeecCCCCCCCHHHHHHHHHHHHhhcccccc---CCCCCEEEEeC--------------CHHHHHHHHHHH
Confidence 58887876544466653 677787765432 23689999999 123577777777
No 114
>TIGR03310 matur_ygfJ molybdenum hydroxylase accessory protein, YgfJ family. Members of this protein family are probable accessory proteins for the biosynthesis of enzymes related to xanthine dehydrogenase. Comparative genomics suggests a role in the maturation of selenium-dependent molybdenum hydroxylases, although a tenuous alternative hypothesis is a role for this protein (with a requirement for SelD, the selenium donor protein in the selenocysteine and selenouridine biosynthesis pathways) metabolizing a selenium-containing substrate such as selenate.
Probab=24.13 E-value=1.3e+02 Score=23.01 Aligned_cols=26 Identities=12% Similarity=-0.038 Sum_probs=16.0
Q ss_pred HHHHHHHHHHhhCCCCcEEEEcCCHH
Q 039224 123 AWIEKEIVALREDGCPKVWVVTSDHL 148 (179)
Q Consensus 123 ~~IErlv~~~~~~~~~~V~VVTSD~~ 148 (179)
.+|+..+..+.+.+..+++|||++..
T Consensus 26 pll~~~i~~l~~~~~~~iivv~~~~~ 51 (188)
T TIGR03310 26 TILEHVVDNALRLFFDEVILVLGHEA 51 (188)
T ss_pred eHHHHHHHHHHHcCCCcEEEEeCCcH
Confidence 45666665555433456878877765
No 115
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=24.12 E-value=1.9e+02 Score=26.11 Aligned_cols=91 Identities=14% Similarity=0.073 Sum_probs=54.8
Q ss_pred CHHHHHHHHHHHHHhccc-cCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCCC-hHHHHHHHHHHHhhCCCCcEEEEc
Q 039224 67 RLDVARQKLIEELVEFSM-IREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGETC-ADAWIEKEIVALREDGCPKVWVVT 144 (179)
Q Consensus 67 ~Le~AR~~Li~~L~~y~~-~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~T-AD~~IErlv~~~~~~~~~~V~VVT 144 (179)
.++..|.++.+.|..|.. ..|.++.|+=|+...-+..+--..-|++|+...... -.++.++....+.. .+.|+.
T Consensus 255 ~i~~e~~~~~~~l~~~~~~l~Gkrv~i~g~~~~~~~la~~L~elGm~vv~~~t~~~~~~~~~~~~~~l~~----~~~v~~ 330 (396)
T cd01979 255 VLAEREARAWRALEPYLDLLRGKSIFFMGDNLLEIPLARFLTRCGMIVVEVGTPYLDKRFQAAELELLPP----MVRIVE 330 (396)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCEEEEECCchHHHHHHHHHHHCCCEEEeeCCCcCChHHHHHHHHhcCC----CCeEEE
Confidence 467788999999999975 788888776665432212111223799999986642 33445666666552 344544
Q ss_pred -CCHHH-HHHHHhCCceEe
Q 039224 145 -SDHLQ-QHAAYGAGAFVW 161 (179)
Q Consensus 145 -SD~~i-q~~a~~~GA~~i 161 (179)
.|... .+.++...+-.+
T Consensus 331 ~~d~~~l~~~i~~~~pDll 349 (396)
T cd01979 331 KPDNYRQLDRIRELRPDLV 349 (396)
T ss_pred CCCHHHHHHHHHhcCCCEE
Confidence 35544 445555554433
No 116
>TIGR03708 poly_P_AMP_trns polyphosphate:AMP phosphotransferase. Members of this protein family contain a domain duplication. The characterized member from Acinetobacter johnsonii is polyphosphate:AMP phosphotransferase (PAP), which can transfer the terminal phosphate from poly(P) to AMP, yielding ADP. In the opposite direction, this enzyme can synthesize poly(P). Each domain of this protein family is homologous to polyphosphate kinase, an enzyme that can run in the forward direction to extend a polyphosphate chain with a new terminal phosphate from ATP, or in reverse to make ATP (or GTP) from ADP (or GDP).
Probab=24.01 E-value=1.9e+02 Score=27.68 Aligned_cols=104 Identities=11% Similarity=-0.010 Sum_probs=60.6
Q ss_pred CHHHHHHHHHHHHHhccccCCceEEEEEcCCCCCCCCC-------ceeecCeEEEeCCC----CChHHHHHHHHHHHhhC
Q 039224 67 RLDVARQKLIEELVEFSMIREVKVVVVFDALMSGLPTH-------KEEFIGVDIVFPGE----TCADAWIEKEIVALRED 135 (179)
Q Consensus 67 ~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~-------~~~~~gi~VvfT~~----~TAD~~IErlv~~~~~~ 135 (179)
.|+..+.+|.++-....+..++.++|||.|....+.+. .-...|++|+-... +.+=.+.-|+-..++..
T Consensus 18 ~l~~l~~~L~~LQ~~l~~~~~~~vlIv~eG~DaaGKg~~I~~l~~~ldprg~~v~~~~~P~~eE~~~~flwRfw~~lP~~ 97 (493)
T TIGR03708 18 QVPDLREALLDLQYELLESAGFPVIILIEGWDGAGKGETINLLNEWMDPRGIETHAFGRPSDEERERPPMWRFWRRLPPK 97 (493)
T ss_pred HHHHHHHHHHHHHHHHHHccCCeEEEEEeCCCCCChHHHHHHHHHHhCcCccEEEeCCCCCHHHhcCcHHHHHHHhCCCC
Confidence 35555566665555544447899999999986443322 12557888887654 25557889999999864
Q ss_pred CCCcEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHH
Q 039224 136 GCPKVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLI 173 (179)
Q Consensus 136 ~~~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~ 173 (179)
.+|.|-=--+-..-.+..-. .-++.+++...++++
T Consensus 98 --G~I~IFdRSWY~~vlverv~-g~~~~~~~~~~~~~I 132 (493)
T TIGR03708 98 --GKIGIFFGSWYTRPLIERLE-GRIDEAKLDSHIEDI 132 (493)
T ss_pred --CeEEEEcCcccchhhHHHhc-CCCCHHHHHHHHHHH
Confidence 45666533332222222111 124556665555544
No 117
>TIGR03417 chol_sulfatase choline-sulfatase.
Probab=23.87 E-value=86 Score=29.17 Aligned_cols=32 Identities=25% Similarity=0.191 Sum_probs=25.2
Q ss_pred ChHHHHHHHHHHHhhCCC--CcEEEEcCCHHHHH
Q 039224 120 CADAWIEKEIVALREDGC--PKVWVVTSDHLQQH 151 (179)
Q Consensus 120 TAD~~IErlv~~~~~~~~--~~V~VVTSD~~iq~ 151 (179)
-.|+.|-+++..+.+.|- ..++|+|||+-...
T Consensus 261 ~~D~~iG~il~~L~~~g~~dnTivvf~sDHG~~~ 294 (500)
T TIGR03417 261 YLDDKIGELLQTLEETRQADDTIVLFTSDHGDML 294 (500)
T ss_pred HHHHHHHHHHHHHHhcCCcCCcEEEEECCCchhh
Confidence 478899999999987532 35999999998753
No 118
>KOG2518 consensus 5'-3' exonuclease [Replication, recombination and repair]
Probab=23.64 E-value=96 Score=30.14 Aligned_cols=57 Identities=18% Similarity=0.088 Sum_probs=30.1
Q ss_pred CCccEEEEecccccCcccc--chhhhcCCCHHHHHHHHHHHHHhc---cccCCceEEEEEcCCCCC
Q 039224 40 NAVPVLLVDGYNVCGYWPK--LENHFIKGRLDVARQKLIEELVEF---SMIREVKVVVVFDALMSG 100 (179)
Q Consensus 40 ~~~~~lIVDGYNvI~a~p~--L~~~~~~~~Le~AR~~Li~~L~~y---~~~~g~~V~VVFDa~~~~ 100 (179)
-....+=||||--+|..-. ..++.....- ++-|+....+ ....|++.++||||..-+
T Consensus 22 ~~g~tvavD~y~WLhrg~~~Ca~el~~~~pT----~ryi~y~ik~v~lL~~~gikPilVFDG~~LP 83 (556)
T KOG2518|consen 22 YKGKTVAVDGYCWLHRGALACAEKLAKGKPT----DRYIQFFIKRVKLLLSYGIKPILVFDGDPLP 83 (556)
T ss_pred hcCceEEEehhhHHhhhHHhHHHHHhcCCCh----HHHHHHHHHHHHHHHhcCCeEEEEecCCCcc
Confidence 3457889999987754421 1111111111 2222222222 124569999999999744
No 119
>PF12098 DUF3574: Protein of unknown function (DUF3574); InterPro: IPR021957 This family of proteins is functionally uncharacterised. This protein is found in bacteria and viruses. Proteins in this family are typically between 144 to 163 amino acids in length. This protein has a conserved TPRF sequence motif.
Probab=23.63 E-value=2e+02 Score=21.84 Aligned_cols=54 Identities=28% Similarity=0.195 Sum_probs=31.8
Q ss_pred EEEcCCCC--C-CCC--CceeecCeEEEeCCCCChHHHHHHHHHHHhhC-CCCcEEEEcC
Q 039224 92 VVFDALMS--G-LPT--HKEEFIGVDIVFPGETCADAWIEKEIVALRED-GCPKVWVVTS 145 (179)
Q Consensus 92 VVFDa~~~--~-~~~--~~~~~~gi~VvfT~~~TAD~~IErlv~~~~~~-~~~~V~VVTS 145 (179)
=|+||++. + ..+ ..|..+-|.|++.....++.-|+.+....++. +...|..+++
T Consensus 39 Tv~Da~GqW~~~~~g~~~rE~Skvv~i~~~~~~~~~~~i~~Ir~~Yk~rF~QeSV~~~~~ 98 (104)
T PF12098_consen 39 TVLDAYGQWRDRATGRLIRERSKVVIIVHPDTPAAEARIEAIREAYKQRFQQESVMRVDQ 98 (104)
T ss_pred eEEeccceEecCCCCcEeecccEEEEEEeCCChHHHHHHHHHHHHHHHHhccceEEEEcc
Confidence 37899863 2 111 23444556666665566788888888777653 1234666654
No 120
>PRK12496 hypothetical protein; Provisional
Probab=23.61 E-value=1.2e+02 Score=24.37 Aligned_cols=39 Identities=18% Similarity=-0.080 Sum_probs=30.5
Q ss_pred ChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHHhCCceEecHH
Q 039224 120 CADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAYGAGAFVWSSK 164 (179)
Q Consensus 120 TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~~~GA~~iSs~ 164 (179)
..|.-+..++.++. ..+||.|..+|+.|...|-.+++..
T Consensus 78 ~~D~~~iaLA~el~------~~lvtDD~~~~~vA~~lgi~v~~~~ 116 (164)
T PRK12496 78 NTDIEVLALALELN------GTLYTDDYGIQNVAKKLNIKFENIK 116 (164)
T ss_pred hhhHHHHHHHHHhC------CcEECcHHHHHHHHHHcCCeEeccc
Confidence 45555555655553 5799999999999999999988866
No 121
>smart00205 THN Thaumatin family. The thaumatin family gathers proteins related to plant pathogenesis. The thaumatin family includes very basic members with extracellular and vacuolar localization. Thaumatin itsel is a potent sweet-tasting protein. Several members of this family display significant in vitro activity of inhibiting hyphal growth or spore germination of various fungi probably by a membrane permeabilizing mechanism.
Probab=23.02 E-value=33 Score=29.23 Aligned_cols=11 Identities=55% Similarity=0.854 Sum_probs=9.2
Q ss_pred cEEEEeccccc
Q 039224 43 PVLLVDGYNVC 53 (179)
Q Consensus 43 ~~lIVDGYNvI 53 (179)
++=+||||||=
T Consensus 102 dvSlVdGfNlP 112 (218)
T smart00205 102 DVSLVDGFNIP 112 (218)
T ss_pred eeEeeccccCC
Confidence 56699999985
No 122
>PF14367 DUF4411: Domain of unknown function (DUF4411)
Probab=22.96 E-value=67 Score=25.53 Aligned_cols=47 Identities=19% Similarity=0.156 Sum_probs=38.0
Q ss_pred CChHHHHHHHHHHHhhCCCCcEEEEcCCHH----------HHHHHHhCCceEecHHHHHHHHH
Q 039224 119 TCADAWIEKEIVALREDGCPKVWVVTSDHL----------QQHAAYGAGAFVWSSKALVSEVS 171 (179)
Q Consensus 119 ~TAD~~IErlv~~~~~~~~~~V~VVTSD~~----------iq~~a~~~GA~~iSs~ef~~~l~ 171 (179)
..||-||...+... ..+|||.-.. |=..+...|..+++.-+|++++.
T Consensus 103 ~~ADp~LIA~A~~~------~~~VVT~E~~~~~~~~~~~KIPdvC~~~gV~ci~~~~~lr~~~ 159 (162)
T PF14367_consen 103 SVADPWLIAYAKAY------GATVVTHEVSNPNKKKKKIKIPDVCEHFGVPCINLFEFLRELG 159 (162)
T ss_pred ccCCHHHHHHHHhc------CCEEEccCCCCCCCCccCCCCChhHHhCCCcCCCHHHHHHHhC
Confidence 68999999877763 3599997766 55678889999999999998764
No 123
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=22.86 E-value=93 Score=21.41 Aligned_cols=52 Identities=13% Similarity=0.062 Sum_probs=32.2
Q ss_pred HHHHHHHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCCChHHHHHHHHH
Q 039224 73 QKLIEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGETCADAWIEKEIV 130 (179)
Q Consensus 73 ~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~TAD~~IErlv~ 130 (179)
..+.+.|.. .+++++|+----.. +...-...||+|+.+..++.|+.|++++.
T Consensus 43 ~~~~~~l~~----~~v~~li~~~iG~~--~~~~L~~~gI~v~~~~~~~i~~~l~~~~~ 94 (94)
T PF02579_consen 43 DKIAKFLAE----EGVDVLICGGIGEG--AFRALKEAGIKVYQGAGGDIEEALEAYLQ 94 (94)
T ss_dssp THHHHHHHH----TTESEEEESCSCHH--HHHHHHHTTSEEEESTSSBHHHHHHHHH-
T ss_pred hhHHHHHHH----cCCCEEEEeCCCHH--HHHHHHHCCCEEEEcCCCCHHHHHHHHhC
Confidence 334444444 56777776442111 11223568999999966899999998763
No 124
>PRK11440 putative hydrolase; Provisional
Probab=22.47 E-value=1.8e+02 Score=23.10 Aligned_cols=50 Identities=14% Similarity=0.063 Sum_probs=33.9
Q ss_pred CChHHHHHHHHHHHhhCCCCcEEEEcC-----CHHHHHHHH----hCCceEecHHHHHHH
Q 039224 119 TCADAWIEKEIVALREDGCPKVWVVTS-----DHLQQHAAY----GAGAFVWSSKALVSE 169 (179)
Q Consensus 119 ~TAD~~IErlv~~~~~~~~~~V~VVTS-----D~~iq~~a~----~~GA~~iSs~ef~~~ 169 (179)
-++|--|+.-+..+...| .+|+|++. |......+. ..-|.++++++++..
T Consensus 129 v~T~~CV~~Ta~~A~~~g-y~v~vv~Da~as~~~~~h~~al~~~~~~~a~v~~~~~~~~~ 187 (188)
T PRK11440 129 ISTNIGVESTARNAWELG-FNLVIAEDACSAASAEQHQNSMNHIFPRIARVRSVEEILNA 187 (188)
T ss_pred echhHHHHHHHHHHHHCC-CEEEEechhhcCCCHHHHHHHHHHHHhheeEEeeHHHHHhh
Confidence 356667777777777654 78888754 555555543 445889999998764
No 125
>cd09218 TLP-PA allergenic/antifungal thaumatin-like proteins: plant and animal homologs. This subfamily is represented by the thaumatin-like proteins (TLPs), Cherry Allergen Pru Av 2 TLP, Peach PpAZ44 TLP (a propylene-induced TLP in abscission), the Caenorhabditis elegans thaumatin family member (thn-6), and other plant and animal homologs. TLPs are involved in host defense and a wide range of developmental processes in fungi, plants, and animals. Due to their inducible expression by environmental stresses such as pathogen/pest attack, drought and cold, plant TLPs are classified as the pathogenesis-related (PR) protein family 5 (PR5). Several members of the plant TLP family have been reported as food allergens from fruits (i.e., cherry, Pru av 2; bell pepper, Cap a1; tomatoes, Lyc e NP24) and pollen allergens from conifers (i.e., mountain cedar, Jun a 3; Arizona cypress, Cup a3; Japanese cedar, Cry j3). TLPs are three-domain, crescent-fold structures with either an electronegative, ele
Probab=22.46 E-value=34 Score=29.24 Aligned_cols=12 Identities=58% Similarity=0.791 Sum_probs=9.5
Q ss_pred ccEEEEeccccc
Q 039224 42 VPVLLVDGYNVC 53 (179)
Q Consensus 42 ~~~lIVDGYNvI 53 (179)
-++=+||||||=
T Consensus 102 YdvSlVdGfNlP 113 (219)
T cd09218 102 YDVSLVDGYNLP 113 (219)
T ss_pred eeeeeeccccCC
Confidence 356689999984
No 126
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=22.06 E-value=1.5e+02 Score=22.91 Aligned_cols=44 Identities=18% Similarity=0.195 Sum_probs=26.3
Q ss_pred ccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEE
Q 039224 42 VPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVV 93 (179)
Q Consensus 42 ~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VV 93 (179)
+.++|||...-+..- ..+-..+-.+++..|..++...|..|++|
T Consensus 142 ~~lvviD~l~~~~~~--------~~~~~~~~~~~~~~l~~la~~~~~~vi~v 185 (193)
T PF13481_consen 142 PDLVVIDPLQSLHDG--------DENSNSAVAQLMQELKRLAKEYGVAVILV 185 (193)
T ss_dssp -SEEEEE-GGGG--S---------TT-HHHHHHHHHHHHHHHHHH--EEEEE
T ss_pred CcEEEEcCHHHHhcC--------CCCCHHHHHHHHHHHHHHHHHcCCEEEEE
Confidence 689999998877543 12333334889999999987666665554
No 127
>PF03159 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: IPR004859 Signatures of this entry align residues towards the N terminus of several proteins with multiple functions. The members of this family all appear to possess 5'-3' exonuclease activity 3.1.11 from EC. Thus, the aligned region may be necessary for 5'-3' exonuclease function.; GO: 0003676 nucleic acid binding, 0004527 exonuclease activity, 0005622 intracellular; PDB: 2Y35_A 3PIE_B 3PIF_C 3FQD_A.
Probab=22.06 E-value=2.3e+02 Score=24.27 Aligned_cols=49 Identities=16% Similarity=0.116 Sum_probs=35.3
Q ss_pred cCeEEEeCCC---CChHHHHHHHHHHHhh----CCCCcEEEEcCCHHHHHHHHhCC
Q 039224 109 IGVDIVFPGE---TCADAWIEKEIVALRE----DGCPKVWVVTSDHLQQHAAYGAG 157 (179)
Q Consensus 109 ~gi~VvfT~~---~TAD~~IErlv~~~~~----~~~~~V~VVTSD~~iq~~a~~~G 157 (179)
.+++|+||.. +....-|-.+++.... +......|+++|..+.-.+++..
T Consensus 171 ~~~~vi~S~~~vpGEGE~KI~~~IR~~~~~~~~~~n~~h~i~g~DaDlIll~L~~~ 226 (237)
T PF03159_consen 171 QNLKVIFSGSDVPGEGEHKIMDFIRSQRSQPDYDPNTSHCIYGSDADLILLSLATH 226 (237)
T ss_dssp CCSEEEEE-TTSSS-HHHHHHHHHHHHHHSTTS-TT--EEEE-SSTHHHHHHHHTT
T ss_pred CceEEEEeCCCCCCccHHHHHHHHHHhhhcCCCCCCceEEEEecCHhHHHHHHccC
Confidence 4789999975 5899999999988775 22357999999999998887654
No 128
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=21.95 E-value=42 Score=32.58 Aligned_cols=52 Identities=29% Similarity=0.431 Sum_probs=34.4
Q ss_pred hhhhhhhhcccCCCccc-----ccccccceeecCCCCCCCccEEEEecccccCccccchhhhcCCCHHHHHHHH
Q 039224 7 SYRRKKVEKEELPEDTE-----LYRFFSYIYNTNQGIDNAVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKL 75 (179)
Q Consensus 7 ~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~L 75 (179)
.||+=++...+-|.|.. ++|-|+.+...+ ...|+++|||| ..+.|..|.+-|
T Consensus 415 ~YR~f~i~~~~~~dDya~m~Evl~RR~~~~~~~~---~~~PDLiliDG--------------GkgQl~~a~~~l 471 (598)
T PRK00558 415 EYRRYNIKGVTGGDDYAAMREVLTRRYSRLLKEF---GPLPDLILIDG--------------GKGQLNAAKEVL 471 (598)
T ss_pred hCCeeecCCCCCCCHHHHHHHHHHHHhhcccccc---CCCCCEEEEeC--------------CHHHHHHHHHHH
Confidence 58888877655566654 677777765421 24689999999 123566676666
No 129
>PHA00520 packaging NTPase P4
Probab=21.93 E-value=85 Score=28.54 Aligned_cols=54 Identities=19% Similarity=0.175 Sum_probs=40.8
Q ss_pred cCeEEEeCCC-CChHHHHHHHHHHHhhCCCCcEEEEcCCHHHHHHHH-hCCceEecH
Q 039224 109 IGVDIVFPGE-TCADAWIEKEIVALREDGCPKVWVVTSDHLQQHAAY-GAGAFVWSS 163 (179)
Q Consensus 109 ~gi~VvfT~~-~TAD~~IErlv~~~~~~~~~~V~VVTSD~~iq~~a~-~~GA~~iSs 163 (179)
.|+.||++-. .+-|+-||.++.+..+.. .--+||..|...|...+ +-|-.|+++
T Consensus 226 ~gc~vV~~lNP~S~DeKIe~v~~evskS~-s~s~~va~d~~~~~l~RtgeGliR~f~ 281 (330)
T PHA00520 226 RGCRVVATLNPMSDDEKIEAVVREVSKSN-SGSMVVARDNVWRTLFRTGEGLIRIFA 281 (330)
T ss_pred cCcEEEEEcCCCCccHhHHHHHHHHHhhc-cceEEEecCceeeeeeccCCceeEEee
Confidence 5999999988 599999999999998753 33445555888877777 566566654
No 130
>PRK12363 phosphoglycerol transferase I; Provisional
Probab=21.77 E-value=94 Score=31.02 Aligned_cols=29 Identities=31% Similarity=0.542 Sum_probs=24.4
Q ss_pred ChHHHHHHHHHHHhhCC--CCcEEEEcCCHH
Q 039224 120 CADAWIEKEIVALREDG--CPKVWVVTSDHL 148 (179)
Q Consensus 120 TAD~~IErlv~~~~~~~--~~~V~VVTSD~~ 148 (179)
-+|..|.+++..+++.+ ...++|++|||.
T Consensus 363 ysD~aIG~FId~LKksglydNTIIV~~GDH~ 393 (703)
T PRK12363 363 CSDRLIGQLVDRIRNSRYGKNTIIVIASDHL 393 (703)
T ss_pred HHHHHHHHHHHHHHhcCCcCCeEEEEEcCCC
Confidence 58999999999999754 246999999995
No 131
>cd01981 Pchlide_reductase_B Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=21.65 E-value=1.2e+02 Score=27.49 Aligned_cols=90 Identities=12% Similarity=0.103 Sum_probs=51.0
Q ss_pred CHHHHHHHHHHHHHhc------cccCCceEEEEEcCCCCCCCCCce-eecCeEEEeCCC--CChHHHHHHHHHHHhhCCC
Q 039224 67 RLDVARQKLIEELVEF------SMIREVKVVVVFDALMSGLPTHKE-EFIGVDIVFPGE--TCADAWIEKEIVALREDGC 137 (179)
Q Consensus 67 ~Le~AR~~Li~~L~~y------~~~~g~~V~VVFDa~~~~~~~~~~-~~~gi~VvfT~~--~TAD~~IErlv~~~~~~~~ 137 (179)
.+...|.++++.+..+ ....|.++.|+=|+-..-+..+.- ..-|++|+.+.. ...+++++..+....
T Consensus 275 ~~~~~~~~~~~~~~~~~~~l~~~~l~gkrv~i~g~~~~~~~l~~~L~~elG~~vv~~~~~~~~~~~~~~~~~~~~~---- 350 (430)
T cd01981 275 PYIDSQTRWVSQSARSSRSIDSQNLTGKRAFVFGDATHVAAATRILAREMGFRVVGAGTYCKEDAKWFREQATGYC---- 350 (430)
T ss_pred HHHHhccchhhhhhhhhhhhhhccccCCeEEEEcChHHHHHHHHHHHHHcCCEEEeccCCCccHHHHHHHHHHhcC----
Confidence 3445566666666665 346688888777644321111111 246888888765 367888888776543
Q ss_pred CcEEEEcCCH-HHHHHHHhCCceEe
Q 039224 138 PKVWVVTSDH-LQQHAAYGAGAFVW 161 (179)
Q Consensus 138 ~~V~VVTSD~-~iq~~a~~~GA~~i 161 (179)
..+.+ +.|. ++++.+...+...+
T Consensus 351 ~~~~i-~~D~~e~~~~i~~~~pdli 374 (430)
T cd01981 351 DEALI-TDDHTEVGDMIARTEPELI 374 (430)
T ss_pred CceEE-ecCHHHHHHHHHhhCCCEE
Confidence 23444 4454 45555555554433
No 132
>cd02513 CMP-NeuAc_Synthase CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety. CMP-N-acetylneuraminic acid synthetase (CMP-NeuAc synthetase) or acylneuraminate cytidylyltransferase catalyzes the transfer the CMP moiety of CTP to the anomeric hydroxyl group of NeuAc in the presence of Mg++. It is the second to last step in the sialylation of the oligosaccharide component of glycoconjugates by providing the activated sugar-nucleotide cytidine 5'-monophosphate N-acetylneuraminic acid (CMP-Neu5Ac), the substrate for sialyltransferases. Eukaryotic CMP-NeuAc synthetases are predominantly located in the nucleus. The activated CMP-Neu5Ac diffuses from the nucleus into the cytoplasm.
Probab=21.51 E-value=2.6e+02 Score=21.99 Aligned_cols=35 Identities=31% Similarity=0.175 Sum_probs=23.4
Q ss_pred HHHHHHHHHhhCC-CCcEEEEcCCHHHHHHHHhCCc
Q 039224 124 WIEKEIVALREDG-CPKVWVVTSDHLQQHAAYGAGA 158 (179)
Q Consensus 124 ~IErlv~~~~~~~-~~~V~VVTSD~~iq~~a~~~GA 158 (179)
+|+..+..+.+.+ ...|+|+|++..+...+...|+
T Consensus 28 ll~~~l~~l~~~~~~~~IvV~~~~~~i~~~~~~~~~ 63 (223)
T cd02513 28 LIAWTIEAALESKLFDRVVVSTDDEEIAEVARKYGA 63 (223)
T ss_pred HHHHHHHHHHhCCCCCEEEEECCcHHHHHHHHHhCC
Confidence 4555555554322 2468888888888888887787
No 133
>PTZ00029 60S ribosomal protein L10a; Provisional
Probab=21.48 E-value=1.6e+02 Score=24.83 Aligned_cols=31 Identities=19% Similarity=-0.012 Sum_probs=25.4
Q ss_pred CcEEEEcCCHHHHHHHHhCCceEecHHHHHHH
Q 039224 138 PKVWVVTSDHLQQHAAYGAGAFVWSSKALVSE 169 (179)
Q Consensus 138 ~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~ 169 (179)
.+|-|.++|.. ...|+..||.++..++|.+.
T Consensus 62 ~~v~V~a~~~~-~~~Ak~aGa~vvg~edL~~~ 92 (216)
T PTZ00029 62 LKVCVLGDAVH-CDEAKKLGLDFMDIEGLKKF 92 (216)
T ss_pred cEEEEECCcHH-HHHHHHcCCCEecHHHHHHh
Confidence 46888887664 55689999999999999873
No 134
>TIGR01696 deoB phosphopentomutase. This protein is involved in the purine and pyrimidine salvage pathway. It catalyzes the conversion of D-ribose 1-phosphate to D-ribose 5-phosphate and the conversion of 2-deoxy-D-ribose 1-phosphate to 2-deoxy-D-ribose 5-phosphate. The seed members of this protein are characterized deoB proteins from E.Coli and Bacillus. This model matches pfam01676 for Metalloenzyme superfamily.
Probab=21.47 E-value=82 Score=29.13 Aligned_cols=28 Identities=25% Similarity=0.336 Sum_probs=23.6
Q ss_pred CChHHHHHHHHHHHhhCCCCcEEEEcCCHHH
Q 039224 119 TCADAWIEKEIVALREDGCPKVWVVTSDHLQ 149 (179)
Q Consensus 119 ~TAD~~IErlv~~~~~~~~~~V~VVTSD~~i 149 (179)
+.-|..|.+++..+.+ ..++|+||||--
T Consensus 298 e~vD~~Lg~ll~~L~~---~tllIITADHG~ 325 (381)
T TIGR01696 298 ELFDRRLPELFSLLRE---DDLLIITADHGN 325 (381)
T ss_pred HHHHHHHHHHHHHhcc---CCEEEEECCCCC
Confidence 5889999999999874 469999999865
No 135
>PF12813 XPG_I_2: XPG domain containing
Probab=21.40 E-value=93 Score=26.65 Aligned_cols=33 Identities=24% Similarity=0.003 Sum_probs=22.9
Q ss_pred CeEEEeCCCCChHHHHHHHHHHHhhCCCCcEEEEcCCHHH
Q 039224 110 GVDIVFPGETCADAWIEKEIVALREDGCPKVWVVTSDHLQ 149 (179)
Q Consensus 110 gi~VvfT~~~TAD~~IErlv~~~~~~~~~~V~VVTSD~~i 149 (179)
|+.++.. .+.||.+|-.+++.+. ..|.|+|-..
T Consensus 20 ~~~~~~~-~~EAD~~~A~~A~~~~------~~VLt~DSDf 52 (246)
T PF12813_consen 20 GVPVVQC-PGEADRECAALARKWG------CPVLTNDSDF 52 (246)
T ss_pred CCcEEEc-CccchHHHHHHHHHcC------CeEEccCCCE
Confidence 4445444 4589999998886653 5899988654
No 136
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=21.30 E-value=3.5e+02 Score=26.96 Aligned_cols=66 Identities=14% Similarity=0.152 Sum_probs=45.1
Q ss_pred eecCeEEEeCCC-CC-hHHHHHHHHHHHhhC------CCCcEEEEcCCH--HHHHHHHhCCceEecHHHHHHHHHH
Q 039224 107 EFIGVDIVFPGE-TC-ADAWIEKEIVALRED------GCPKVWVVTSDH--LQQHAAYGAGAFVWSSKALVSEVSL 172 (179)
Q Consensus 107 ~~~gi~VvfT~~-~T-AD~~IErlv~~~~~~------~~~~V~VVTSD~--~iq~~a~~~GA~~iSs~ef~~~l~~ 172 (179)
...|.+++||.. .+ --+.+++++.+++.. +.....||-.+. .=..-|...|...||-++|++.|++
T Consensus 609 ~l~g~~~v~TG~l~~~~R~~~~~~i~~~Gg~v~~sVs~kt~~Lv~G~~~g~sKl~kA~~lgi~ii~E~~f~~ll~~ 684 (689)
T PRK14351 609 ALDGLTFVFTGSLSGYTRSEAQELVEAHGGNATGSVSGNTDYLVVGENPGQSKRDDAEANDVPTLDEEEFEELLAE 684 (689)
T ss_pred CCCCcEEEEccCCCCCCHHHHHHHHHHcCCEEcCCcCCCccEEEEcCCCChhHHHHHHHCCCeEecHHHHHHHHHh
Confidence 468999999987 42 345667777776531 123445554322 2345677899999999999999875
No 137
>cd03089 PMM_PGM The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a bisphosphorylated sugar intermediate. The reaction involves two phosphoryl transfers, with an intervening 180 degree reorientation of the reaction intermediate during catalysis. Reorientation of the intermediate occurs without dissociation from the active site of the enzyme and is thus, a simple example of processivity, as defined by multiple rounds of catalysis without release of substrate. Glucose-6-phosphate and glucose-1-phosphate are known to be utilized for energy metabolism and cell surface construction, respectively. PMM/PGM belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other membe
Probab=21.25 E-value=6.3e+02 Score=22.97 Aligned_cols=77 Identities=12% Similarity=0.017 Sum_probs=42.4
Q ss_pred HHHHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCC-C--ChHHHHHHHHHHHhhCCCCcEEEE--cCCHHHH
Q 039224 76 IEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGE-T--CADAWIEKEIVALREDGCPKVWVV--TSDHLQQ 150 (179)
Q Consensus 76 i~~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~-~--TAD~~IErlv~~~~~~~~~~V~VV--TSD~~iq 150 (179)
++.|.++....+.++-++||+.... +-++ ... . +.|..+-=++..+-+..+...+|+ +|=+.+.
T Consensus 214 l~~l~~~v~~~~adlgia~D~DaDR----------~~iv-d~~G~~l~~d~~~~lla~~ll~~~~~~~vv~~v~ss~~~~ 282 (443)
T cd03089 214 LEDLIAAVKENGADLGIAFDGDGDR----------LGVV-DEKGEIIWGDRLLALFARDILKRNPGATIVYDVKCSRNLY 282 (443)
T ss_pred HHHHHHHHHHcCCCEEEEecCCcce----------eEEE-CCCCcEeCHHHHHHHHHHHHHHHCCCCeEEEecccchHHH
Confidence 3444455555678999999976432 1111 222 2 555555444433322111223333 3667888
Q ss_pred HHHHhCCceEecH
Q 039224 151 HAAYGAGAFVWSS 163 (179)
Q Consensus 151 ~~a~~~GA~~iSs 163 (179)
+.+..+|+.++..
T Consensus 283 ~ia~~~g~~v~~t 295 (443)
T cd03089 283 DFIEEAGGKPIMW 295 (443)
T ss_pred HHHHHcCCeEEEe
Confidence 8888999887644
No 138
>PRK14671 uvrC excinuclease ABC subunit C; Provisional
Probab=21.15 E-value=44 Score=32.66 Aligned_cols=40 Identities=23% Similarity=0.311 Sum_probs=26.6
Q ss_pred hhhhhhhhcccCCCccc-----ccccccceeecCCCCCCCccEEEEec
Q 039224 7 SYRRKKVEKEELPEDTE-----LYRFFSYIYNTNQGIDNAVPVLLVDG 49 (179)
Q Consensus 7 ~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~lIVDG 49 (179)
.||+=+.....-|.|.. ++|.|+.+...+. ..|+++||||
T Consensus 447 ~YR~f~ik~~~~~dDy~~m~Evl~RR~~r~~~~~~---~~PDLilIDG 491 (621)
T PRK14671 447 DYRKFKLRSFEGSDDYAAMREVVTRRYSGSLAEEL---PLPDLIVIDG 491 (621)
T ss_pred hCCeeecCCCCCCCHHHHHHHHHHHHhhccccccC---CCCCEEEEeC
Confidence 58887776543456653 6777877653321 4689999999
No 139
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=21.03 E-value=1.6e+02 Score=25.52 Aligned_cols=35 Identities=23% Similarity=0.125 Sum_probs=30.2
Q ss_pred CcEEEEcCCHHHHHHHHhCCceEecHHHHHHHHHHH
Q 039224 138 PKVWVVTSDHLQQHAAYGAGAFVWSSKALVSEVSLI 173 (179)
Q Consensus 138 ~~V~VVTSD~~iq~~a~~~GA~~iSs~ef~~~l~~~ 173 (179)
.+|.|.+ |.+-...|+..||-.+.+++|.+.++.-
T Consensus 73 vrV~Vfa-~g~~~~~A~~AGad~Vg~edl~e~ik~~ 107 (228)
T COG0081 73 VRVAVFA-DGEKAEEAKAAGADYVGGEDLIELIKNG 107 (228)
T ss_pred cEEEEEc-ChHhHHHHHHcCCCEecHHHHHHHHhCc
Confidence 4688888 9999999999999988889999888654
No 140
>cd08961 GH64-TLP-SF glycoside hydrolase family 64 (beta-1,3-glucanases which produce specific pentasaccharide oligomers) and thaumatin-like proteins. This superfamily includes glycoside hydrolases of family 64 (GH64), these are mostly bacterial beta-1,3-glucanases which cleave long-chain polysaccharide beta-1,3-glucans, into specific pentasaccharide oligomers and are implicated in fungal cell wall degradation. Also included in this superfamily are thaumatin, the sweet-tasting protein from the African berry Thaumatococcus daniellii, and thaumatin-like proteins (TLPs) which are involved in host defense and a wide range of developmental processes in fungi, plants, and animals. Like GH64s, some TLPs also hydrolyze the beta-1,3-glucans of the type commonly found in fungal walls. Plant TLPs are classified as pathogenesis-related (PR) protein family 5 (PR5), their expression is induced by environmental stresses such as pathogen/pest attack, drought and cold. Several members of the plant TLP
Probab=20.84 E-value=40 Score=27.17 Aligned_cols=11 Identities=45% Similarity=0.631 Sum_probs=8.9
Q ss_pred cEEEEeccccc
Q 039224 43 PVLLVDGYNVC 53 (179)
Q Consensus 43 ~~lIVDGYNvI 53 (179)
.+=+||||||=
T Consensus 101 dISlVDGfNlP 111 (153)
T cd08961 101 DSSLVDGFNAP 111 (153)
T ss_pred EEEeecccCCC
Confidence 56699999964
No 141
>smart00417 H4 Histone H4.
Probab=20.82 E-value=1.6e+02 Score=20.98 Aligned_cols=19 Identities=16% Similarity=-0.043 Sum_probs=16.5
Q ss_pred CHHHHHHHHhCCceEecHH
Q 039224 146 DHLQQHAAYGAGAFVWSSK 164 (179)
Q Consensus 146 D~~iq~~a~~~GA~~iSs~ 164 (179)
-..+++.++..|+++||..
T Consensus 16 k~~IrRLaRr~GvkRIS~~ 34 (74)
T smart00417 16 KPAIRRLARRGGVKRISGL 34 (74)
T ss_pred HHHHHHHHHHcCcchhhHH
Confidence 4579999999999999964
No 142
>PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences [].
Probab=20.74 E-value=81 Score=24.49 Aligned_cols=24 Identities=33% Similarity=0.429 Sum_probs=20.0
Q ss_pred HHHHHHHhccccCCceEEEEEcCCC
Q 039224 74 KLIEELVEFSMIREVKVVVVFDALM 98 (179)
Q Consensus 74 ~Li~~L~~y~~~~g~~V~VVFDa~~ 98 (179)
.|+..|..+ ...|.+|++.||+-.
T Consensus 56 ~L~p~L~~~-~~~gr~v~iaFD~D~ 79 (130)
T PF12965_consen 56 RLIPELAKL-AKPGREVYIAFDADT 79 (130)
T ss_pred hcchhHHHh-ccCCceEEEEecCCC
Confidence 788888887 456899999999863
No 143
>TIGR01668 YqeG_hyp_ppase HAD superfamily (subfamily IIIA) phosphatase, TIGR01668. This family consists of sequences from fungi, plants, cyanobacteria, gram-positive bacteria and Deinococcus. There is presently no characterization of any sequence in this family.
Probab=20.46 E-value=4.2e+02 Score=20.68 Aligned_cols=110 Identities=15% Similarity=0.117 Sum_probs=62.6
Q ss_pred CCccEEEEecccccCccccchhhhcCCCHHHHHHHHHHHHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCCC
Q 039224 40 NAVPVLLVDGYNVCGYWPKLENHFIKGRLDVARQKLIEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGET 119 (179)
Q Consensus 40 ~~~~~lIVDGYNvI~a~p~L~~~~~~~~Le~AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~~ 119 (179)
+.-+.+++|--+.+-.+..+.. ++.+++ +++.|. ..|+++.|+=.+............-|+...+....
T Consensus 23 ~~v~~vv~D~Dgtl~~~~~~~~------~pgv~e-~L~~Lk----~~g~~l~I~Sn~~~~~~~~~~~~~~gl~~~~~~~K 91 (170)
T TIGR01668 23 VGIKGVVLDKDNTLVYPDHNEA------YPALRD-WIEELK----AAGRKLLIVSNNAGEQRAKAVEKALGIPVLPHAVK 91 (170)
T ss_pred CCCCEEEEecCCccccCCCCCc------ChhHHH-HHHHHH----HcCCEEEEEeCCchHHHHHHHHHHcCCEEEcCCCC
Confidence 4457889999888877754322 233433 444443 34688888877652111101112345555544334
Q ss_pred ChHHHHHHHHHHHhhCCCCcEEEEcCCH-HHHHHHHhCCceEe
Q 039224 120 CADAWIEKEIVALREDGCPKVWVVTSDH-LQQHAAYGAGAFVW 161 (179)
Q Consensus 120 TAD~~IErlv~~~~~~~~~~V~VVTSD~-~iq~~a~~~GA~~i 161 (179)
-.-..++..+.++.-+ +.++++|-... .=...|+..|...+
T Consensus 92 P~p~~~~~~l~~~~~~-~~~~l~IGDs~~~Di~aA~~aGi~~i 133 (170)
T TIGR01668 92 PPGCAFRRAHPEMGLT-SEQVAVVGDRLFTDVMGGNRNGSYTI 133 (170)
T ss_pred CChHHHHHHHHHcCCC-HHHEEEECCcchHHHHHHHHcCCeEE
Confidence 3444667777777643 46777777554 35677778887665
No 144
>PRK13856 two-component response regulator VirG; Provisional
Probab=20.29 E-value=3.3e+02 Score=21.56 Aligned_cols=92 Identities=15% Similarity=0.143 Sum_probs=46.7
Q ss_pred HHHHHHHHHHhccccCCceEEEEEcCCCCCCCCCceeecCeEEEeCCC----CChHHHHHHHHHHHhhCCCCcEEEEcCC
Q 039224 71 ARQKLIEELVEFSMIREVKVVVVFDALMSGLPTHKEEFIGVDIVFPGE----TCADAWIEKEIVALREDGCPKVWVVTSD 146 (179)
Q Consensus 71 AR~~Li~~L~~y~~~~g~~V~VVFDa~~~~~~~~~~~~~gi~VvfT~~----~TAD~~IErlv~~~~~~~~~~V~VVTSD 146 (179)
.++.|...|.. .|+.+..+.|+...... .......++...- .+.=+++..+ .... ...++++|++
T Consensus 13 ~~~~l~~~L~~----~~~~v~~~~~~~~~~~~---~~~~~~dlvi~d~~l~~~~g~~l~~~i-~~~~---~~pii~lt~~ 81 (241)
T PRK13856 13 MRHLIVEYLTI----HAFKVTAVADSQQFNRV---LASETVDVVVVDLNLGREDGLEIVRSL-ATKS---DVPIIIISGD 81 (241)
T ss_pred HHHHHHHHHHH----cCCEEEEECCHHHHHHH---HhhCCCCEEEEeCCCCCCCHHHHHHHH-HhcC---CCcEEEEECC
Confidence 34555555543 45777776665421100 0112223444332 2333444443 2221 2457778763
Q ss_pred ---HHHHHHHHhCCce-----EecHHHHHHHHHHH
Q 039224 147 ---HLQQHAAYGAGAF-----VWSSKALVSEVSLI 173 (179)
Q Consensus 147 ---~~iq~~a~~~GA~-----~iSs~ef~~~l~~~ 173 (179)
...+..+...||. .++.++|...+...
T Consensus 82 ~~~~~~~~~~l~~Ga~~yl~kP~~~~eL~~~i~~~ 116 (241)
T PRK13856 82 RLEEADKVVALELGATDFIAKPFGTREFLARIRVA 116 (241)
T ss_pred CCcHHHHHHHHhcCcCeEEeCCCCHHHHHHHHHHH
Confidence 3455567788875 46778888777654
Done!