Query psy14558
Match_columns 136
No_of_seqs 139 out of 1256
Neff 8.8
Searched_HMMs 46136
Date Fri Aug 16 22:56:55 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14558.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14558hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3873|consensus 100.0 1.1E-28 2.5E-33 185.1 6.3 128 1-128 18-145 (422)
2 TIGR03395 sphingomy sphingomye 99.8 1.9E-19 4E-24 134.9 13.7 111 8-124 20-146 (283)
3 PRK11756 exonuclease III; Prov 99.6 1.5E-14 3.3E-19 107.3 10.0 106 4-122 6-112 (268)
4 COG3568 ElsH Metal-dependent h 99.5 8.6E-14 1.9E-18 102.3 7.6 106 8-122 25-143 (259)
5 PTZ00297 pantothenate kinase; 99.4 9.6E-13 2.1E-17 115.5 12.0 106 13-124 30-163 (1452)
6 PRK05421 hypothetical protein; 99.4 5.6E-13 1.2E-17 99.0 9.2 97 15-123 61-160 (263)
7 KOG2756|consensus 99.4 8.2E-13 1.8E-17 96.9 9.2 106 8-129 114-222 (349)
8 COG0708 XthA Exonuclease III [ 99.4 4.2E-12 9E-17 93.6 9.3 106 5-125 7-113 (261)
9 PF03372 Exo_endo_phos: Endonu 99.3 3.3E-11 7.1E-16 86.0 10.8 110 11-122 16-131 (249)
10 TIGR00195 exoDNase_III exodeox 99.0 2.2E-09 4.8E-14 79.0 9.6 101 5-122 7-108 (254)
11 TIGR00633 xth exodeoxyribonucl 99.0 2.1E-09 4.5E-14 78.7 9.2 103 5-123 7-112 (255)
12 PLN03144 Carbon catabolite rep 99.0 2.9E-09 6.3E-14 86.8 10.8 115 7-122 281-428 (606)
13 KOG2338|consensus 98.7 7E-08 1.5E-12 76.2 9.0 111 7-124 145-265 (495)
14 PRK13911 exodeoxyribonuclease 98.6 2.4E-07 5.2E-12 68.5 9.0 100 4-122 6-108 (250)
15 PRK15251 cytolethal distending 98.4 2E-06 4.4E-11 64.0 8.6 45 63-123 118-162 (271)
16 smart00476 DNaseIc deoxyribonu 98.1 5E-05 1.1E-09 57.0 10.1 105 8-122 34-153 (276)
17 COG5239 CCR4 mRNA deadenylase, 97.8 4.4E-05 9.6E-10 58.6 6.0 64 7-71 56-131 (378)
18 smart00128 IPPc Inositol polyp 97.7 0.00056 1.2E-08 52.1 9.9 59 61-124 91-151 (310)
19 COG3021 Uncharacterized protei 97.6 0.0001 2.2E-09 55.8 4.9 101 13-129 103-207 (309)
20 KOG0620|consensus 97.2 0.00024 5.2E-09 55.2 2.2 73 4-79 43-126 (361)
21 KOG0566|consensus 90.0 1.9 4.1E-05 37.8 7.6 29 97-125 659-687 (1080)
22 PTZ00312 inositol-1,4,5-tripho 89.7 0.58 1.2E-05 35.7 4.0 34 97-130 66-99 (356)
23 KOG0808|consensus 86.5 0.82 1.8E-05 34.3 3.1 28 9-36 98-125 (387)
24 PLN03191 Type I inositol-1,4,5 85.4 3.8 8.1E-05 34.3 6.6 27 97-123 406-432 (621)
25 COG2374 Predicted extracellula 67.0 46 0.00099 28.9 8.0 29 8-36 499-527 (798)
26 cd07393 MPP_DR1119 Deinococcus 66.4 11 0.00023 27.4 3.9 31 2-32 17-49 (232)
27 cd07577 Ph0642_like Pyrococcus 59.1 14 0.0003 26.9 3.5 28 7-34 12-39 (259)
28 PLN00202 beta-ureidopropionase 59.1 14 0.00031 29.4 3.7 31 3-34 103-136 (405)
29 PF14639 YqgF: Holliday-juncti 57.2 10 0.00022 26.0 2.3 24 8-31 47-70 (150)
30 KOG1976|consensus 56.9 9 0.0002 29.6 2.1 25 98-122 156-180 (391)
31 PF05582 Peptidase_U57: YabG p 53.0 18 0.00039 27.5 3.1 28 8-35 138-165 (287)
32 cd07578 nitrilase_1_R1 First n 52.5 21 0.00045 26.0 3.5 28 7-34 13-43 (258)
33 PRK13010 purU formyltetrahydro 51.7 15 0.00033 27.9 2.7 21 12-32 157-177 (289)
34 TIGR02855 spore_yabG sporulati 50.6 15 0.00033 27.7 2.5 28 9-36 138-165 (283)
35 cd07587 ML_beta-AS mammalian-l 50.1 17 0.00038 28.4 2.8 28 8-35 84-114 (363)
36 PF00437 T2SE: Type II/IV secr 49.1 20 0.00043 26.4 2.9 28 12-39 185-212 (270)
37 cd07574 nitrilase_Rim1_like Un 47.5 18 0.00039 26.7 2.5 23 12-34 22-44 (280)
38 PRK10438 C-N hydrolase family 46.1 33 0.00073 25.1 3.7 29 6-34 15-44 (256)
39 PRK06027 purU formyltetrahydro 45.4 24 0.00051 26.7 2.8 20 13-32 154-173 (286)
40 TIGR00655 PurU formyltetrahydr 45.2 27 0.00059 26.4 3.2 19 13-31 149-167 (280)
41 PF02310 B12-binding: B12 bind 45.0 25 0.00054 22.2 2.6 19 14-32 41-59 (121)
42 COG0299 PurN Folate-dependent 44.9 34 0.00074 24.6 3.4 24 9-32 64-87 (200)
43 cd07585 nitrilase_7 Uncharacte 44.5 28 0.0006 25.3 3.1 29 7-35 12-43 (261)
44 PRK13011 formyltetrahydrofolat 43.6 31 0.00068 26.1 3.3 21 12-32 153-173 (286)
45 cd07581 nitrilase_3 Uncharacte 43.2 24 0.00053 25.5 2.6 28 8-35 11-41 (255)
46 cd07570 GAT_Gln-NAD-synth Glut 42.7 38 0.00082 24.6 3.6 30 6-35 11-43 (261)
47 cd02072 Glm_B12_BD B12 binding 41.0 18 0.00038 24.1 1.4 27 11-37 37-63 (128)
48 cd05776 DNA_polB_alpha_exo ina 40.7 38 0.00082 24.7 3.2 38 8-46 81-118 (234)
49 TIGR01501 MthylAspMutase methy 40.3 19 0.00041 24.2 1.5 27 11-37 39-65 (134)
50 cd02067 B12-binding B12 bindin 40.1 35 0.00075 21.7 2.7 40 12-51 38-79 (119)
51 PLN02504 nitrilase 39.7 46 0.00099 25.8 3.7 27 8-34 38-67 (346)
52 cd07576 R-amidase_like Pseudom 39.6 34 0.00073 24.7 2.9 29 7-35 12-43 (254)
53 cd07564 nitrilases_CHs Nitrila 39.6 36 0.00079 25.5 3.1 29 7-35 13-44 (297)
54 PLN02798 nitrilase 38.9 32 0.0007 25.6 2.7 27 8-34 23-52 (286)
55 KOG3076|consensus 38.7 29 0.00063 24.9 2.2 18 14-31 77-94 (206)
56 cd07571 ALP_N-acyl_transferase 38.5 37 0.00081 25.0 3.0 29 8-36 20-51 (270)
57 COG0788 PurU Formyltetrahydrof 38.2 44 0.00096 25.3 3.2 24 7-30 149-172 (287)
58 cd07579 nitrilase_1_R2 Second 38.0 39 0.00084 25.2 3.0 28 8-35 12-42 (279)
59 PRK02261 methylaspartate mutas 37.5 40 0.00086 22.5 2.7 37 12-48 42-80 (137)
60 cd07572 nit Nit1, Nit 2, and r 37.2 36 0.00077 24.7 2.7 29 7-35 11-42 (265)
61 PF07355 GRDB: Glycine/sarcosi 37.0 46 0.00099 26.1 3.3 33 3-35 59-91 (349)
62 cd07197 nitrilase Nitrilase su 36.8 40 0.00086 24.1 2.9 28 8-35 12-42 (253)
63 PF06925 MGDG_synth: Monogalac 36.7 48 0.001 22.6 3.1 18 12-29 77-94 (169)
64 cd07566 ScNTA1_like Saccharomy 36.7 59 0.0013 24.6 3.8 29 7-35 12-47 (295)
65 TIGR03445 mycothiol_MshB 1D-my 36.0 58 0.0013 24.6 3.7 21 10-30 109-129 (284)
66 TIGR00228 ruvC crossover junct 35.5 38 0.00082 23.4 2.4 24 14-37 47-70 (156)
67 PLN02747 N-carbamolyputrescine 35.5 40 0.00086 25.2 2.7 28 7-34 18-48 (296)
68 cd07391 MPP_PF1019 Pyrococcus 35.1 77 0.0017 21.6 4.0 26 7-32 24-49 (172)
69 cd02071 MM_CoA_mut_B12_BD meth 34.7 46 0.001 21.5 2.6 24 12-35 38-61 (122)
70 PRK13894 conjugal transfer ATP 34.6 52 0.0011 25.3 3.3 28 12-39 207-234 (319)
71 PF03808 Glyco_tran_WecB: Glyc 34.4 51 0.0011 22.7 3.0 43 9-53 86-128 (172)
72 cd05777 DNA_polB_delta_exo DED 34.2 58 0.0013 23.5 3.4 39 7-46 69-107 (230)
73 cd02065 B12-binding_like B12 b 33.6 50 0.0011 20.8 2.7 24 13-36 39-62 (125)
74 PLN02331 phosphoribosylglycina 33.4 33 0.00072 24.7 1.9 20 13-32 67-86 (207)
75 TIGR02370 pyl_corrinoid methyl 33.2 47 0.001 23.5 2.7 26 12-37 123-148 (197)
76 cd07583 nitrilase_5 Uncharacte 33.2 48 0.001 23.9 2.8 28 8-35 13-43 (253)
77 cd01130 VirB11-like_ATPase Typ 32.9 59 0.0013 22.5 3.1 26 12-37 88-113 (186)
78 PF00795 CN_hydrolase: Carbon- 32.9 46 0.00099 22.6 2.6 29 8-36 15-46 (186)
79 TIGR02782 TrbB_P P-type conjug 32.9 58 0.0013 24.7 3.3 26 12-37 192-217 (299)
80 cd05778 DNA_polB_zeta_exo inac 32.8 59 0.0013 23.6 3.2 38 7-45 79-116 (231)
81 TIGR00640 acid_CoA_mut_C methy 31.8 30 0.00066 23.0 1.4 25 12-36 41-65 (132)
82 PRK13900 type IV secretion sys 31.7 63 0.0014 25.0 3.3 28 12-39 223-250 (332)
83 cd07569 DCase N-carbamyl-D-ami 31.7 53 0.0011 24.6 2.9 24 11-34 25-48 (302)
84 TIGR03381 agmatine_aguB N-carb 31.6 54 0.0012 24.0 2.9 28 7-34 12-42 (279)
85 cd06533 Glyco_transf_WecG_TagA 31.2 62 0.0013 22.3 3.0 19 13-31 88-106 (171)
86 cd07586 nitrilase_8 Uncharacte 31.0 56 0.0012 23.8 2.9 28 8-35 13-43 (269)
87 KOG0565|consensus 30.7 1E+02 0.0023 20.3 4.0 29 98-126 46-74 (145)
88 COG4586 ABC-type uncharacteriz 30.2 1.2E+02 0.0026 23.4 4.4 32 5-38 157-188 (325)
89 cd05784 DNA_polB_II_exo DEDDy 30.0 75 0.0016 22.5 3.3 37 8-45 50-86 (193)
90 TIGR01917 gly_red_sel_B glycin 29.9 64 0.0014 26.1 3.1 32 4-35 56-87 (431)
91 TIGR00639 PurN phosphoribosylg 29.8 72 0.0016 22.6 3.1 20 13-32 68-87 (190)
92 cd07575 Xc-1258_like Xanthomon 29.7 62 0.0013 23.4 2.9 27 8-35 14-43 (252)
93 PRK00039 ruvC Holliday junctio 29.5 57 0.0012 22.6 2.5 24 14-37 51-74 (164)
94 cd02070 corrinoid_protein_B12- 29.2 61 0.0013 22.9 2.7 38 12-49 121-160 (201)
95 TIGR01918 various_sel_PB selen 29.2 67 0.0015 26.0 3.1 32 4-35 56-87 (431)
96 cd02069 methionine_synthase_B1 29.1 60 0.0013 23.4 2.7 26 12-37 127-152 (213)
97 TIGR00261 traB pheromone shutd 28.9 65 0.0014 25.6 3.0 25 10-35 16-40 (380)
98 TIGR00696 wecB_tagA_cpsF bacte 28.1 79 0.0017 22.1 3.1 20 11-30 87-106 (177)
99 PRK05647 purN phosphoribosylgl 28.0 70 0.0015 22.8 2.8 17 14-30 70-86 (200)
100 cd05781 DNA_polB_B3_exo DEDDy 27.8 89 0.0019 21.9 3.3 23 7-29 46-68 (188)
101 PF09370 TIM-br_sig_trns: TIM- 27.7 1.7E+02 0.0037 22.1 4.9 38 9-46 197-234 (268)
102 cd05785 DNA_polB_like2_exo Unc 27.2 83 0.0018 22.5 3.1 27 8-34 57-83 (207)
103 cd07567 biotinidase_like bioti 27.0 72 0.0016 24.3 2.9 26 10-35 23-51 (299)
104 PF13167 GTP-bdg_N: GTP-bindin 27.0 1.2E+02 0.0025 19.1 3.4 19 13-31 46-64 (95)
105 cd07580 nitrilase_2 Uncharacte 26.6 71 0.0015 23.3 2.8 29 7-35 12-43 (268)
106 cd07584 nitrilase_6 Uncharacte 26.6 1E+02 0.0023 22.2 3.6 29 7-35 12-43 (258)
107 cd05160 DEDDy_DNA_polB_exo DED 26.5 94 0.002 21.6 3.3 39 7-46 61-99 (199)
108 PF02075 RuvC: Crossover junct 26.2 59 0.0013 22.0 2.1 29 9-37 39-71 (149)
109 PRK13833 conjugal transfer pro 26.1 95 0.0021 24.0 3.4 28 12-39 203-230 (323)
110 PF06838 Met_gamma_lyase: Meth 25.9 58 0.0013 26.0 2.2 23 10-32 174-196 (403)
111 TIGR02858 spore_III_AA stage I 25.4 1.2E+02 0.0027 22.7 3.9 25 12-36 182-206 (270)
112 PF03514 GRAS: GRAS domain fam 25.2 70 0.0015 25.1 2.6 26 12-37 223-248 (374)
113 cd01715 ETF_alpha The electron 25.1 1.1E+02 0.0024 20.7 3.4 41 9-52 68-108 (168)
114 PRK11340 phosphodiesterase Yae 24.8 96 0.0021 23.0 3.2 24 10-33 66-89 (271)
115 PRK13851 type IV secretion sys 24.8 1E+02 0.0022 24.0 3.4 31 12-42 224-254 (344)
116 PRK13689 hypothetical protein; 24.7 83 0.0018 18.9 2.2 18 2-19 1-18 (75)
117 COG4100 Cystathionine beta-lya 24.6 1.3E+02 0.0029 23.5 3.9 24 9-32 184-207 (416)
118 PRK15118 universal stress glob 23.9 85 0.0018 20.3 2.5 18 13-30 92-109 (144)
119 TIGR00067 glut_race glutamate 23.5 1.7E+02 0.0037 21.6 4.3 30 1-30 34-67 (251)
120 PF00551 Formyl_trans_N: Formy 23.4 1.3E+02 0.0028 20.8 3.5 22 10-31 65-86 (181)
121 PF13477 Glyco_trans_4_2: Glyc 23.3 83 0.0018 20.0 2.4 23 13-35 63-85 (139)
122 cd05780 DNA_polB_Kod1_like_exo 23.3 1.2E+02 0.0026 21.3 3.3 37 8-45 55-91 (195)
123 COG0817 RuvC Holliday junction 23.1 59 0.0013 22.6 1.6 25 13-37 46-70 (160)
124 cd00561 CobA_CobO_BtuR ATP:cor 23.1 2.6E+02 0.0056 19.2 5.3 39 14-52 85-128 (159)
125 cd07573 CPA N-carbamoylputresc 23.0 90 0.002 22.9 2.8 27 8-34 13-42 (284)
126 PRK13364 protocatechuate 4,5-d 23.0 1.3E+02 0.0028 22.7 3.6 22 10-31 34-55 (278)
127 cd07368 PhnC_Bs_like PhnC is a 22.9 99 0.0022 23.2 3.0 21 11-31 33-53 (277)
128 COG2086 FixA Electron transfer 22.9 2.5E+02 0.0053 21.1 5.0 45 8-52 95-141 (260)
129 PRK09982 universal stress prot 22.8 98 0.0021 20.2 2.7 19 13-31 92-110 (142)
130 PRK13365 protocatechuate 4,5-d 22.8 97 0.0021 23.4 2.9 21 11-31 35-55 (279)
131 cd07366 3MGA_Dioxygenase Subun 22.6 1E+02 0.0022 23.9 3.0 21 11-31 73-93 (328)
132 PF00582 Usp: Universal stress 22.2 1E+02 0.0022 18.9 2.6 22 13-34 91-112 (140)
133 cd01988 Na_H_Antiporter_C The 22.1 1.1E+02 0.0023 19.1 2.7 24 13-36 83-106 (132)
134 cd07565 aliphatic_amidase alip 21.8 1E+02 0.0023 23.0 2.9 29 7-35 17-50 (291)
135 cd07364 PCA_45_Dioxygenase_B S 21.8 1.1E+02 0.0024 23.1 3.0 21 11-31 35-55 (277)
136 PF03104 DNA_pol_B_exo1: DNA p 21.6 89 0.0019 23.3 2.5 39 7-46 220-258 (325)
137 COG1922 WecG Teichoic acid bio 21.3 1.2E+02 0.0027 22.7 3.1 17 14-30 151-167 (253)
138 cd07582 nitrilase_4 Uncharacte 21.3 67 0.0015 24.0 1.8 29 7-35 17-53 (294)
139 PRK00865 glutamate racemase; P 21.1 2E+02 0.0043 21.2 4.2 30 2-31 42-74 (261)
140 PRK13366 protocatechuate 4,5-d 21.0 1.1E+02 0.0024 23.2 2.9 21 11-31 35-55 (284)
141 cd07950 Gallate_Doxase_N The N 20.8 1.1E+02 0.0025 22.9 2.9 22 11-32 35-56 (277)
142 PRK10116 universal stress prot 20.7 1E+02 0.0023 19.7 2.5 18 13-30 91-108 (142)
143 PF13528 Glyco_trans_1_3: Glyc 20.7 1.1E+02 0.0024 22.7 2.8 22 9-30 79-100 (318)
144 cd00529 RuvC_resolvase Hollida 20.2 1.2E+02 0.0026 20.5 2.7 24 13-36 48-71 (154)
No 1
>KOG3873|consensus
Probab=99.95 E-value=1.1e-28 Score=185.08 Aligned_cols=128 Identities=53% Similarity=0.952 Sum_probs=122.5
Q ss_pred CCCccccChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcccCCCccEEEEecCccceeeEee
Q psy14558 1 GIPKVSKDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSGVMGSGVCILSRYEITEVLFHQ 80 (136)
Q Consensus 1 ~~~~~s~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~~~g~GvailSr~pi~~~~~~~ 80 (136)
|+||.|+++..|++++.+.+.+...||+.|||++...+++.|.+.....|||.++|.+|..|.|+++|||+||.+...+.
T Consensus 18 gip~~Sk~R~~Rm~~~g~~l~~E~yDiv~LQEvWs~eD~~~L~~~~ss~yPysh~FHSGimGaGL~vfSK~PI~~t~~~~ 97 (422)
T KOG3873|consen 18 GIPYVSKDRRHRMDAIGDELASEKYDIVSLQEVWSQEDFEYLQSGCSSVYPYSHYFHSGIMGAGLCVFSKHPILETLFHR 97 (422)
T ss_pred ccccccchhHHHHHHHhHHHhhcccchhhHHHHHHHHHHHHHHHhccccCchHHhhhcccccCceEEeecCchhhhhhhc
Confidence 79999999999999999999999999999999999988888888888889999999999889999999999999999999
Q ss_pred eccCCccceeecCcccCCcceEEEEEEECCEEEEEEEecCCCCCCCCC
Q psy14558 81 WQLNGYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSISWVIIP 128 (136)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~~~~~~~ 128 (136)
||.+++|+.|+++|||..|++..+.+.++|+.|+++||||++||++..
T Consensus 98 y~lNG~p~~i~rGDWf~GK~Vgl~~l~~~g~~v~~yntHLHAeY~rq~ 145 (422)
T KOG3873|consen 98 YSLNGYPHAIHRGDWFGGKGVGLTVLLVGGRMVNLYNTHLHAEYDRQN 145 (422)
T ss_pred cccCCccceeeeccccccceeEEEEEeeCCEEeeeeehhccccccccC
Confidence 999999999999999999999999999999999999999999998864
No 2
>TIGR03395 sphingomy sphingomyelin phosphodiesterase. Members of this family are bacterial proteins that act as sphingomyelin phosphodiesterase (EC 3.1.4.12), also called sphingomyelinase. Some members of this family have been shown to act as hemolysins.
Probab=99.83 E-value=1.9e-19 Score=134.92 Aligned_cols=111 Identities=23% Similarity=0.288 Sum_probs=88.2
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcc----cC------------CCccEEEEecC
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYS----GV------------MGSGVCILSRY 71 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~----~~------------~g~GvailSr~ 71 (136)
....|.+.|++.++..+||||||||++.....+.+.+.|+..|||+..+.. ++ .++|++||||+
T Consensus 20 g~~~R~~~i~~~~~~~~~DVV~LQEv~~~~~~~~l~~~L~~~yp~~~~~~g~~~~g~~~~~g~~~~~~~~~~G~~iLSr~ 99 (283)
T TIGR03395 20 GQMERADLIASADYIKNQDVVILNEAFDTSASKRLLDNLREEYPYQTDVIGRSKKGWDKTLGNYSSSALEDGGVAIVSKW 99 (283)
T ss_pred cHhHHHHHHHHhhcccCCCEEEEecccchHHHHHHHHHHHhhCCceEeecccccccchhccccccccCccCCEEEEEECC
Confidence 368899999999999999999999998765455566778778999542210 11 24899999999
Q ss_pred ccceeeEeeeccCCccceeecCcccCCcceEEEEEEECCEEEEEEEecCCCCC
Q psy14558 72 EITEVLFHQWQLNGYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSISW 124 (136)
Q Consensus 72 pi~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~~~ 124 (136)
||.....+.|+... ..+++..|+++.++|+++|++++|+||||++.+
T Consensus 100 Pi~~~~~~~f~~~~------~~d~~~~kg~l~a~i~~~g~~~~v~~THL~~~~ 146 (283)
T TIGR03395 100 PIEEKIQYIFNKGC------GADNLSNKGFAYVKINKNGKKFHVIGTHLQAQD 146 (283)
T ss_pred CccccEEEEccCCC------CCccccCCceEEEEEecCCeEEEEEEeCCCCCc
Confidence 99988777776432 356677899999999999999999999999954
No 3
>PRK11756 exonuclease III; Provisional
Probab=99.58 E-value=1.5e-14 Score=107.30 Aligned_cols=106 Identities=21% Similarity=0.199 Sum_probs=72.9
Q ss_pred ccccChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcccCCC-ccEEEEecCccceeeEeeec
Q psy14558 4 KVSKDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSGVMG-SGVCILSRYEITEVLFHQWQ 82 (136)
Q Consensus 4 ~~s~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~~~g-~GvailSr~pi~~~~~~~~~ 82 (136)
||-...+.++++++++|++.+||||||||+...... +...+....+|. +++.+..+ +|+|||||+|+..... .++
T Consensus 6 ~Nv~g~~~~~~~i~~~i~~~~pDIi~LQE~~~~~~~--~~~~~~~~~gy~-~~~~~~~~~~GvailSr~p~~~~~~-~~~ 81 (268)
T PRK11756 6 FNINGLRARPHQLEAIIEKHQPDVIGLQETKVHDEM--FPLEEVEALGYH-VFYHGQKGHYGVALLSKQTPIAVRK-GFP 81 (268)
T ss_pred EEcCCHHHHHHHHHHHHHhcCCCEEEEEeccccccc--CCHHHHHhcCCE-EEEeCCCCCCEEEEEECCChHHeEE-CCC
Confidence 344556778899999999999999999999754321 111222335674 33344445 8999999999976433 333
Q ss_pred cCCccceeecCcccCCcceEEEEEEECCEEEEEEEecCCC
Q psy14558 83 LNGYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSI 122 (136)
Q Consensus 83 ~~~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~ 122 (136)
... ....++++.+++..+++.+.|+|+|+..
T Consensus 82 ~~~---------~~~~~r~l~~~i~~~~g~~~v~n~y~P~ 112 (268)
T PRK11756 82 TDD---------EEAQRRIIMATIPTPNGNLTVINGYFPQ 112 (268)
T ss_pred Ccc---------ccccCCEEEEEEEcCCCCEEEEEEEecC
Confidence 211 0134789999999876669999999965
No 4
>COG3568 ElsH Metal-dependent hydrolase [General function prediction only]
Probab=99.49 E-value=8.6e-14 Score=102.26 Aligned_cols=106 Identities=24% Similarity=0.150 Sum_probs=75.5
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeecCCCc-----hHHHHHHHHhcCCce-EEE--cc---cCCC-ccEEEEecCccce
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVWKNDD-----FELIKSVVFEALPYA-HYF--YS---GVMG-SGVCILSRYEITE 75 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~-----~~~l~~~l~~~~~y~-~~~--~~---~~~g-~GvailSr~pi~~ 75 (136)
+++.+.+.+++.+.+..+|||||||++.... ..++...+....+.. .+. .. ...+ +|++||||+|+..
T Consensus 25 d~r~~~~r~~~~i~~~~~Div~LQEv~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~GnaiLS~~pi~~ 104 (259)
T COG3568 25 DRRFDLPRIAEVIREVGADIVALQEVDGAFGRHRDGLLDLPHLLGRLGLAPYWWSGAAFGAVYGEGQHGNAILSRLPIRD 104 (259)
T ss_pred CceecHHHHHHHHHhhccCeeeeecccccccccccccchhHHHHHHhcCCccccchhhhhhhcccceeeeEEEecCcccc
Confidence 6788899999999999999999999996321 123333333222211 111 11 1123 8999999999998
Q ss_pred eeEeeeccCCccceeecCcccCCcceEEEEEEEC-CEEEEEEEecCCC
Q psy14558 76 VLFHQWQLNGYIHKIFHADWFGGKGVGLCQVLVN-GFRLNVYTTHVSI 122 (136)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~v~~~-g~~i~v~~tHl~~ 122 (136)
...+.+|... .+++|++++++++.+ |++++|+|+||+.
T Consensus 105 v~~~~lp~~~---------~~~~Rgal~a~~~~~~g~~l~V~~~HL~l 143 (259)
T COG3568 105 VENLALPDPT---------GLEPRGALLAEIELPGGKPLRVINAHLGL 143 (259)
T ss_pred hhhccCCCCC---------CCCCceeEEEEEEcCCCCEEEEEEEeccc
Confidence 8887777531 124699999999996 7899999999984
No 5
>PTZ00297 pantothenate kinase; Provisional
Probab=99.45 E-value=9.6e-13 Score=115.50 Aligned_cols=106 Identities=20% Similarity=0.206 Sum_probs=71.7
Q ss_pred HHHHHHHHhc-CCCcEEEEeeecCCCch-----------HHHHHHHHh-cCCceEEEccc---C-------CCccEEEEe
Q psy14558 13 IRAIAAELAC-NKYDIVCLQEVWKNDDF-----------ELIKSVVFE-ALPYAHYFYSG---V-------MGSGVCILS 69 (136)
Q Consensus 13 ~~~i~~~i~~-~~pDIi~LQEv~~~~~~-----------~~l~~~l~~-~~~y~~~~~~~---~-------~g~GvailS 69 (136)
.+++...|++ .+||||||||+++.... +.+.+.+++ +|+|..+.... . ..+|+||+|
T Consensus 30 ~~ri~~~i~~l~~~DIv~lQEvf~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~G~AILS 109 (1452)
T PTZ00297 30 HERIETFLASVDAYDVVLLQEVYAASVLPYFLQKQLCFQKMLVDELKARGFHHYVISKQPSYLTMLRYNVCSDNGLIIAS 109 (1452)
T ss_pred HHHHHHHHHhccCCCEEEEecccccccccccccccchhhHHHHHHHHhcCCceeEeecCccccccccCccccCCEEEEEE
Confidence 3555666777 47899999999985311 223334432 45553222111 0 248999999
Q ss_pred cCccceeeEeeeccCCccceeecCcccCCcceEEEEEEEC----C-EEEEEEEecCCCCC
Q psy14558 70 RYEITEVLFHQWQLNGYIHKIFHADWFGGKGVGLCQVLVN----G-FRLNVYTTHVSISW 124 (136)
Q Consensus 70 r~pi~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~v~~~----g-~~i~v~~tHl~~~~ 124 (136)
||||.+...+.++.... .+...+|++++|+|+++ + ++++|+||||++-.
T Consensus 110 R~PI~~~~~~~l~~~~~------~~~~~~RG~L~a~I~vp~~~g~~~~v~v~~tHL~~~~ 163 (1452)
T PTZ00297 110 RFPIWQRGSYTFRNHER------GEQSVRRGCLFAEVEVPLAEGGSQRIVFFNVHLRQED 163 (1452)
T ss_pred CCChhhceeeecCcccc------cccccccceEEEEEEccccCCCCceEEEEEeCCCCCC
Confidence 99999998888875331 23345799999999986 2 58999999999843
No 6
>PRK05421 hypothetical protein; Provisional
Probab=99.45 E-value=5.6e-13 Score=98.97 Aligned_cols=97 Identities=19% Similarity=0.024 Sum_probs=59.0
Q ss_pred HHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCce--EEEcccCCCccEEEEecCccceeeEeeeccCCccceeec
Q psy14558 15 AIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYA--HYFYSGVMGSGVCILSRYEITEVLFHQWQLNGYIHKIFH 92 (136)
Q Consensus 15 ~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~--~~~~~~~~g~GvailSr~pi~~~~~~~~~~~~~~~~~~~ 92 (136)
...+.+ +.+||||||||++.......+.... .+.|. ..+..+...+|+|||||+|+.....+.... |
T Consensus 61 ~~l~~l-~~~~DiI~LQEv~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~GvaiLSR~pi~~~~~~~~~~---~----- 129 (263)
T PRK05421 61 SVLKNL-GKDADLVLLQEAQTTPELVQFATAN--YLAADQAPAFVLPQHPSGVMTLSKAHPVYCCPLRERE---P----- 129 (263)
T ss_pred HHHHHh-ccCCCEEEEEecccCcchHHHhhcc--cchHHhccccccCCCccceeEeeecccceeeccCCCC---c-----
Confidence 344445 8899999999998654322221111 12221 001111123899999999998754431111 1
Q ss_pred CcccCCcceEEEEEEEC-CEEEEEEEecCCCC
Q psy14558 93 ADWFGGKGVGLCQVLVN-GFRLNVYTTHVSIS 123 (136)
Q Consensus 93 ~~~~~~r~~~~~~v~~~-g~~i~v~~tHl~~~ 123 (136)
.+-.+|+++++++.++ |+++.|+||||.+.
T Consensus 130 -~~~~~r~~l~a~~~~~~g~~l~v~ntHl~~~ 160 (263)
T PRK05421 130 -WLRLPKSALITEYPLPNGRTLLVVNIHAINF 160 (263)
T ss_pred -cccCcceeEEEEEEeCCCCEEEEEEECcccc
Confidence 0113589999999984 67899999999764
No 7
>KOG2756|consensus
Probab=99.44 E-value=8.2e-13 Score=96.87 Aligned_cols=106 Identities=20% Similarity=0.198 Sum_probs=80.8
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcccC---CCccEEEEecCccceeeEeeeccC
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSGV---MGSGVCILSRYEITEVLFHQWQLN 84 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~~---~g~GvailSr~pi~~~~~~~~~~~ 84 (136)
+--.|+++++.+|+.++|||||||||.+.. ++.+.+ +.+ -| ..+.... .++-+.++||+.+.+...+.|+.+
T Consensus 114 ~l~~RMrAv~H~i~l~sPdiiflQEV~p~~-y~~~~K-~~s--~y-~i~~~~~~~~~~~~~l~~s~~~Vks~~~i~F~NS 188 (349)
T KOG2756|consen 114 NLSERMRAVCHYLALYSPDVIFLQEVIPPY-YSYLKK-RSS--NY-EIITGHEEGYFTAIMLKKSRVKVKSQEIIPFPNS 188 (349)
T ss_pred hHHHHHHHHHHHHHhcCCCEEEEeecCchh-hHHHHH-hhh--he-eEEEeccceeeeeeeeehhhcCccccceeccCcc
Confidence 345899999999999999999999999873 555543 333 12 2222221 234466669999998888888887
Q ss_pred CccceeecCcccCCcceEEEEEEECCEEEEEEEecCCCCCCCCCC
Q psy14558 85 GYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSISWVIIPL 129 (136)
Q Consensus 85 ~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~~~~~~~~ 129 (136)
.+ .|...++++.++|.++.+.|+||+++..-.|+
T Consensus 189 ~M-----------~R~L~I~Ev~v~G~Kl~l~tsHLEStr~h~P~ 222 (349)
T KOG2756|consen 189 KM-----------MRNLLIVEVNVSGNKLCLMTSHLESTRGHAPE 222 (349)
T ss_pred hh-----------hheeEEEEEeecCceEEEEeccccCCCCCChH
Confidence 64 48899999999999999999999998876664
No 8
>COG0708 XthA Exonuclease III [DNA replication, recombination, and repair]
Probab=99.37 E-value=4.2e-12 Score=93.57 Aligned_cols=106 Identities=25% Similarity=0.291 Sum_probs=74.2
Q ss_pred cccChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcccCCC-ccEEEEecCccceeeEeeecc
Q psy14558 5 VSKDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSGVMG-SGVCILSRYEITEVLFHQWQL 83 (136)
Q Consensus 5 ~s~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~~~g-~GvailSr~pi~~~~~~~~~~ 83 (136)
+-+.-++|++.+.+++.+.+||||||||+....+. ++....+..+|.+++..|++| +|+||+||.|+... +..|+.
T Consensus 7 NVNgiRar~~~~~~~l~~~~pDVlclQEtK~~~~~--fp~~~~~~~GY~~~~~~gqKgysGVailsr~~~~~v-~~g~~~ 83 (261)
T COG0708 7 NVNGLRARLKKLLDWLEEEQPDVLCLQETKAQDEQ--FPREELEALGYHHVFNHGQKGYSGVAILSKKPPDDV-RRGFPG 83 (261)
T ss_pred ehhhHHHHHHHHHHHHHHhCCCEEEEEecccCccc--CCHhHHhhCCceEEEecCcCCcceEEEEEccCchhh-hcCCCC
Confidence 33677999999999999999999999999876532 444333456886677788888 99999999998843 333332
Q ss_pred CCccceeecCcccCCcceEEEEEEECCEEEEEEEecCCCCCC
Q psy14558 84 NGYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSISWV 125 (136)
Q Consensus 84 ~~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~~~~ 125 (136)
... .+ ....++.+++ ++ +.|+|+-+-+..+
T Consensus 84 ~~~------~d--~e~R~I~a~~--~~--~~v~~~Y~PnG~~ 113 (261)
T COG0708 84 EEE------DD--EEGRVIEAEF--DG--FRVINLYFPNGSS 113 (261)
T ss_pred Ccc------cc--ccCcEEEEEE--CC--EEEEEEEcCCCCC
Confidence 100 00 1245666666 33 8899988776433
No 9
>PF03372 Exo_endo_phos: Endonuclease/Exonuclease/phosphatase family Subset of Pfam family Subset of Pfam family; InterPro: IPR005135 This domain is found in a large number of proteins including magnesium dependent endonucleases and phosphatases involved in intracellular signalling []. Proteins this domain is found in include: AP endonuclease proteins (4.2.99.18 from EC), DNase I proteins (3.1.21.1 from EC), Synaptojanin an inositol-1,4,5-trisphosphate phosphatase (3.1.3.56 from EC) and Sphingomyelinase (3.1.4.12 from EC).; PDB: 2J63_A 2JC4_A 3TEB_B 3MTC_A 3N9V_B 1ZWX_A 2F1N_A 1Y21_A 1NTF_A 2IMQ_X ....
Probab=99.31 E-value=3.3e-11 Score=86.00 Aligned_cols=110 Identities=30% Similarity=0.289 Sum_probs=65.0
Q ss_pred HHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcccCC------CccEEEEecCccceeeEeeeccC
Q psy14558 11 IRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSGVM------GSGVCILSRYEITEVLFHQWQLN 84 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~~~------g~GvailSr~pi~~~~~~~~~~~ 84 (136)
.+...|++.|++.+||||||||+......+.+...+...+.+......+.. +.|++|+||.|+.......+...
T Consensus 16 ~~~~~i~~~i~~~~~Dii~LQEv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~i~~r~~~~~~~~~~~~~~ 95 (249)
T PF03372_consen 16 RKRREIAQWIAELDPDIIALQEVRNDDLSELLEEQLRGYLGYYGSFWPGNSPPSDAGGYGVAILSRSPIFSSVSYVFSLF 95 (249)
T ss_dssp HHHHHHHHHHHHHT-SEEEEEEEESHHHHHHHHHHHHTCTTHEEEEEETSSSTTCSSSEEEEEEESSCCCEEEEEEEEEE
T ss_pred hHHHHHHHHHHhcCCCEEEEecchhhhhhhhhhhhcccccccccceeccccccccccCceEEEEEccccccccccccccc
Confidence 455569999999999999999999653233344556655664444433322 37999999999987655544321
Q ss_pred CccceeecCcccCCcceEEEEEEECCEEEEEEEecCCC
Q psy14558 85 GYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSI 122 (136)
Q Consensus 85 ~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~ 122 (136)
..+... ......+....+.+.+.+++|.|+|+|+.+
T Consensus 96 ~~~~~~--~~~~~~~~~~~~~~~~~~~~i~v~~~H~~~ 131 (249)
T PF03372_consen 96 SKPGIR--IFRRSSKSKGIVPVSINGKPITVVNVHLPS 131 (249)
T ss_dssp SSSTTC--EEEEEEEEEEEEEEEEETEEEEEEEEETTS
T ss_pred cccccc--cccccccccccccccccceEEEeeeccccc
Confidence 110000 000001112222233348999999999877
No 10
>TIGR00195 exoDNase_III exodeoxyribonuclease III. The model brings in reverse transcriptases at scores below 50, model also contains eukaryotic apurinic/apyrimidinic endonucleases which group in the same family
Probab=99.03 E-value=2.2e-09 Score=79.00 Aligned_cols=101 Identities=25% Similarity=0.278 Sum_probs=60.8
Q ss_pred cccChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcccCCC-ccEEEEecCccceeeEeeecc
Q psy14558 5 VSKDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSGVMG-SGVCILSRYEITEVLFHQWQL 83 (136)
Q Consensus 5 ~s~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~~~g-~GvailSr~pi~~~~~~~~~~ 83 (136)
+-...+.+..++.++|++.+||||||||+...... +...+....+|. .+..+..+ .|+||+||.+...... .++.
T Consensus 7 Ni~g~~~~~~~~~~~l~~~~~DIi~LQE~~~~~~~--~~~~~~~~~g~~-~~~~~~~g~~Gvailsr~~~~~~~~-~~~~ 82 (254)
T TIGR00195 7 NVNGLRARLHKGLAWLKENQPDVLCLQETKVQDEQ--FPLEPFHKEGYH-VFFSGQKGYSGVAIFSKEEPLSVRR-GFGV 82 (254)
T ss_pred EcCcHHHhHHHHHHHHHhcCCCEEEEEecccchhh--CCHHHhhcCCcE-EEEecCCCcceEEEEEcCCcceEEE-CCCC
Confidence 33445667778899999999999999999764311 223333345674 33334344 7999999955443221 1221
Q ss_pred CCccceeecCcccCCcceEEEEEEECCEEEEEEEecCCC
Q psy14558 84 NGYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSI 122 (136)
Q Consensus 84 ~~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~ 122 (136)
.. .+ ....++.+++ . .+.++|||+.+
T Consensus 83 ~~-------~~--~~~r~i~~~~--~--~~~l~~~~~p~ 108 (254)
T TIGR00195 83 EE-------ED--AEGRIIMAEF--D--SFLVINGYFPN 108 (254)
T ss_pred cc-------cc--cCCCEEEEEE--C--CEEEEEEEccC
Confidence 11 00 0123444444 3 38899999986
No 11
>TIGR00633 xth exodeoxyribonuclease III (xth). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.03 E-value=2.1e-09 Score=78.72 Aligned_cols=103 Identities=26% Similarity=0.318 Sum_probs=61.3
Q ss_pred cccChHHHHHHH-HHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcccC-CC-ccEEEEecCccceeeEeee
Q psy14558 5 VSKDRDIRIRAI-AAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSGV-MG-SGVCILSRYEITEVLFHQW 81 (136)
Q Consensus 5 ~s~~~~~r~~~i-~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~~-~g-~GvailSr~pi~~~~~~~~ 81 (136)
+-...+.+.+++ +++|++.+||||||||+..... .+...+....+|..++.... .+ +|+||+||+|+..... .+
T Consensus 7 Nv~g~~~~~~~~~~~~l~~~~~DIv~LQE~~~~~~--~~~~~~~~~~g~~~~~~~~~~~~~~G~ailsr~~~~~~~~-~~ 83 (255)
T TIGR00633 7 NVNGLRARLHKLFLDWLKEEQPDVLCLQETKVADE--QFPAELFEELGYHVFFHGAKSKGYSGVAILSKVEPLDVRY-GF 83 (255)
T ss_pred ecccHHHHhhccHHHHHHhcCCCEEEEEeccCchh--hCCHhHhccCCceEEEeecccCCcceEEEEEcCCcceEEE-CC
Confidence 344556677777 9999999999999999987531 12222333456643332211 24 8999999999876432 12
Q ss_pred ccCCccceeecCcccCCcceEEEEEEECCEEEEEEEecCCCC
Q psy14558 82 QLNGYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSIS 123 (136)
Q Consensus 82 ~~~~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~~ 123 (136)
+... .+ ...| ++.+ .. .++.|+++|+.+.
T Consensus 84 ~~~~-------~~-~~~r-~l~~--~~--~~~~i~~vy~p~~ 112 (255)
T TIGR00633 84 GGEE-------HD-EEGR-VITA--EF--DGFTVVNVYVPNG 112 (255)
T ss_pred CCCc-------cc-CCCc-EEEE--EE--CCEEEEEEEccCC
Confidence 2211 00 0112 3332 22 4789999998653
No 12
>PLN03144 Carbon catabolite repressor protein 4 homolog; Provisional
Probab=99.03 E-value=2.9e-09 Score=86.83 Aligned_cols=115 Identities=16% Similarity=0.136 Sum_probs=71.8
Q ss_pred cChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEccc--C-------CCccEEEE---ecCccc
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSG--V-------MGSGVCIL---SRYEIT 74 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~--~-------~g~Gvail---Sr~pi~ 74 (136)
..+..|...|.+.|..++||||||||+....-.+.+...|. .++|..++... . .+.|+||| +||.++
T Consensus 281 L~W~yRk~lIl~EI~~~~aDIICLQEV~~~~~~d~~~p~L~-~~GY~Gv~~~Kt~~~~~~~~~~~DGcAIFyr~drFeLv 359 (606)
T PLN03144 281 LSWTYRRQNLLREIVGYRADILCLQEVQSDHFEEFFAPELD-KHGYQALYKKKTTEVYTGNTYVIDGCATFFRRDRFSLV 359 (606)
T ss_pred cCHHHHHHHHHHHHHhcCCCEEEEeecCHHHHHHHHHhhhh-hcCceEEEeCCCCccccccccCCceeEEEEECcceEEE
Confidence 56899999999999999999999999986542233444564 47886554321 1 24799999 568888
Q ss_pred eeeEeeeccCCc---cceeec---Cccc----CCcceEEEEEEEC-----------CEEEEEEEecCCC
Q psy14558 75 EVLFHQWQLNGY---IHKIFH---ADWF----GGKGVGLCQVLVN-----------GFRLNVYTTHVSI 122 (136)
Q Consensus 75 ~~~~~~~~~~~~---~~~~~~---~~~~----~~r~~~~~~v~~~-----------g~~i~v~~tHl~~ 122 (136)
+...+.|..... +..... .+.+ ....++++.++.. ++.|.|+||||.+
T Consensus 360 ~~~~ief~~~~lslt~~~~~s~~~~~~l~Rl~kdNVAliv~Le~k~~~~~~~~~~~~~~l~VaNTHL~~ 428 (606)
T PLN03144 360 KKYEVEFNKAAQSLTEALIPSAQKKAALNRLLKDNVALIVVLEAKFGNQGADNGGKRQLLCVANTHIHA 428 (606)
T ss_pred EeeeeeccchhhccCccccccccchhhhhhhccCcEEEEEEEEEecccccccCCCCccEEEEEEeeecc
Confidence 766554432110 000000 0001 1124566666542 2479999999965
No 13
>KOG2338|consensus
Probab=98.74 E-value=7e-08 Score=76.20 Aligned_cols=111 Identities=20% Similarity=0.227 Sum_probs=70.5
Q ss_pred cChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcc--cCCCccEEEE---ecCccceeeEeee
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYS--GVMGSGVCIL---SRYEITEVLFHQW 81 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~--~~~g~Gvail---Sr~pi~~~~~~~~ 81 (136)
..+..|-..|+..++..+|||+|||||+........ ..+...++|..++.. +.++.|+||+ ++|.+.....+.|
T Consensus 145 L~W~~R~~~Ll~EL~~~dpDIlCLQEVq~d~~~~~~-~~~~~~lGy~~~~~r~t~~KthG~ai~w~~~~F~lv~~~~l~y 223 (495)
T KOG2338|consen 145 LKWLRRSQNLLNELKHYDPDVLCLQEVQEDHYPEFW-QPLLGKLGYTGFFKRRTGTKTHGVAILWHSAKFKLVNHSELNY 223 (495)
T ss_pred cchhHHhHHHHHHHhhcCCCeeeehhhhhhhhHHHH-HHHHhhcCceEEEEeccCCCCceEEEEEecccceecccchhhc
Confidence 457889999999999999999999999987533222 333345788654432 2356999999 6688776554444
Q ss_pred ccCCccceeecCcccCCcceEEEEEE--EC---CEEEEEEEecCCCCC
Q psy14558 82 QLNGYIHKIFHADWFGGKGVGLCQVL--VN---GFRLNVYTTHVSISW 124 (136)
Q Consensus 82 ~~~~~~~~~~~~~~~~~r~~~~~~v~--~~---g~~i~v~~tHl~~~~ 124 (136)
-..... +.. ..+..+.+.++ +. ++.+.|.||||-.+.
T Consensus 224 ~~~~~~--l~n----~~NV~lvv~l~f~~~~~~sq~ilVanTHLl~np 265 (495)
T KOG2338|consen 224 FDSGSA--LAN----RDNVGLVVSLEFRLVDESSQGILVANTHLLFNP 265 (495)
T ss_pred ccccch--hhc----ccceeEEEEEEecccCcccCceEEEeeeeeecC
Confidence 322110 000 11223333333 32 469999999998863
No 14
>PRK13911 exodeoxyribonuclease III; Provisional
Probab=98.65 E-value=2.4e-07 Score=68.52 Aligned_cols=100 Identities=15% Similarity=0.144 Sum_probs=61.6
Q ss_pred ccccChHHHHH-HHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEE-cccCCC-ccEEEEecCccceeeEee
Q psy14558 4 KVSKDRDIRIR-AIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYF-YSGVMG-SGVCILSRYEITEVLFHQ 80 (136)
Q Consensus 4 ~~s~~~~~r~~-~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~-~~~~~g-~GvailSr~pi~~~~~~~ 80 (136)
|+.+..+++.+ .+.++|++.+||||||||+...... +. + ...+|..++ ..+.+| .|+||+||.+.... ...
T Consensus 6 wNVNgir~~~~~~~~~~l~~~~~DIiclQEtK~~~~~--~~--~-~~~gY~~~~~~~~~kgy~GVAi~~k~~~~~v-~~~ 79 (250)
T PRK13911 6 WNVNGLRACMTKGFMDFFNSVDADVFCIQESKMQQEQ--NT--F-EFKGYFDFWNCAIKKGYSGVVTFTKKEPLSV-SYG 79 (250)
T ss_pred EEeCChhHhhhhhHHHHHHhcCCCEEEEEeecccccc--cc--c-ccCCceEEEEecccCccceEEEEEcCCchhe-EEc
Confidence 44566777774 6999999999999999999875432 21 1 223563333 233456 89999999886543 222
Q ss_pred eccCCccceeecCcccCCcceEEEEEEECCEEEEEEEecCCC
Q psy14558 81 WQLNGYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSI 122 (136)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~ 122 (136)
++... .| ....++.+++ + .+.|+|+..-+
T Consensus 80 ~~~~~-------~d--~eGR~I~~~~--~--~~~l~nvY~Pn 108 (250)
T PRK13911 80 INIEE-------HD--KEGRVITCEF--E--SFYLVNVYTPN 108 (250)
T ss_pred CCCCc-------cc--ccCCEEEEEE--C--CEEEEEEEecC
Confidence 22111 01 1134555554 3 58888888765
No 15
>PRK15251 cytolethal distending toxin subunit CdtB; Provisional
Probab=98.41 E-value=2e-06 Score=63.99 Aligned_cols=45 Identities=13% Similarity=0.132 Sum_probs=34.4
Q ss_pred ccEEEEecCccceeeEeeeccCCccceeecCcccCCcceEEEEEEECCEEEEEEEecCCCC
Q psy14558 63 SGVCILSRYEITEVLFHQWQLNGYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSIS 123 (136)
Q Consensus 63 ~GvailSr~pi~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~~ 123 (136)
+|+||+||+|..+...+..|.. +.|+++.+++ ++ ..+++||+.+.
T Consensus 118 ~glAIlSr~~a~~~~~l~~p~~------------~~Rpilgi~i--~~--~~ffstH~~a~ 162 (271)
T PRK15251 118 VNLAIVSRRRADEVIVLRPPTV------------ASRPIIGIRI--GN--DVFFSIHALAN 162 (271)
T ss_pred eeEEEEecccccceEEecCCCC------------cccceEEEEe--cC--eEEEEeeecCC
Confidence 8999999999887655544321 3588888876 33 79999999996
No 16
>smart00476 DNaseIc deoxyribonuclease I. Deoxyribonuclease I catalyzes the endonucleolytic cleavage of double-stranded DNA. The enzyme is secreted outside the cell and also involved in apoptosis in the nucleus.
Probab=98.09 E-value=5e-05 Score=57.01 Aligned_cols=105 Identities=16% Similarity=0.173 Sum_probs=62.5
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeecCCCc--hHHHHHHHHhc--CCceEEEcccC---C--CccEEEEec---Cccce
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVWKNDD--FELIKSVVFEA--LPYAHYFYSGV---M--GSGVCILSR---YEITE 75 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~--~~~l~~~l~~~--~~y~~~~~~~~---~--g~GvailSr---~pi~~ 75 (136)
.+..|.+.|++.|+ ++|||++||+...+. ...+.+.|.+. -.|. +..++. . +.-.+++-| +.+.+
T Consensus 34 ~~~~r~~~i~~il~--~~DIiglQEV~d~q~~~l~~ll~~Ln~~~~~~Y~-~v~s~r~gr~~~~E~~a~~Yr~drv~v~~ 110 (276)
T smart00476 34 SNATLMSIIVKILS--RYDIALVQEVRDSDLSAVPKLMDQLNSDSPNTYS-YVSSEPLGRNSYKEQYLFLYRSDLVSVLD 110 (276)
T ss_pred cHHHHHHHHHHHhc--cCCEEEEEEeecchhHHHHHHHHHHhhcCCCCce-EEecCCCCCCCCCEEEEEEEecceEEEcc
Confidence 35668888999997 789999999987642 12222333321 2453 333222 1 245677744 55554
Q ss_pred eeEeeeccCCccceeecCcccCCcceEEEEEEECC---EEEEEEEecCCC
Q psy14558 76 VLFHQWQLNGYIHKIFHADWFGGKGVGLCQVLVNG---FRLNVYTTHVSI 122 (136)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~v~~~g---~~i~v~~tHl~~ 122 (136)
... |+.. ++ ...+.| .|...+++++... +.+.++|+|+.+
T Consensus 111 ~~~--f~d~--~~--~~~~~F-~ReP~~~~F~~~~~~~~~F~li~~H~~p 153 (276)
T smart00476 111 SYL--YDDG--CE--CGNDVF-SREPFVVKFSSPSTAVKEFVIVPLHTTP 153 (276)
T ss_pred cce--ecCC--CC--Cccccc-cccceEEEEEeCCCCCccEEEEEecCCh
Confidence 433 3331 11 112223 5777788888753 589999999987
No 17
>COG5239 CCR4 mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification]
Probab=97.85 E-value=4.4e-05 Score=58.56 Aligned_cols=64 Identities=30% Similarity=0.330 Sum_probs=45.6
Q ss_pred cChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcccC------------CCccEEEEecC
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSGV------------MGSGVCILSRY 71 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~~------------~g~GvailSr~ 71 (136)
..+..|.+.+.+.|..++|||+|||||+... ++++-+..-...+|...+.... +-.|++|+=|+
T Consensus 56 L~W~~R~~~L~~EL~~Yn~Di~CLQEvd~~~-~~~fw~~~l~~~gY~~if~~k~~k~~~m~~~d~t~~dGc~if~k~ 131 (378)
T COG5239 56 LKWSYRSRLLLQELLYYNADILCLQEVDAED-FEDFWKDQLGKLGYDGIFIPKERKVKWMIDYDTTKVDGCAIFLKR 131 (378)
T ss_pred hhhHHHHHHHHHHHhccCCceeeeehhhhhH-HHHHHHHHhcccccceEEecCCCcccccccccccccceEEEEEEe
Confidence 4678899999999999999999999999874 4434333334456765553221 12799998776
No 18
>smart00128 IPPc Inositol polyphosphate phosphatase, catalytic domain homologues. Mg(2+)-dependent/Li(+)-sensitive enzymes.
Probab=97.69 E-value=0.00056 Score=52.14 Aligned_cols=59 Identities=10% Similarity=0.098 Sum_probs=37.5
Q ss_pred CCccEEEEecCcccee-eEee-eccCCccceeecCcccCCcceEEEEEEECCEEEEEEEecCCCCC
Q psy14558 61 MGSGVCILSRYEITEV-LFHQ-WQLNGYIHKIFHADWFGGKGVGLCQVLVNGFRLNVYTTHVSISW 124 (136)
Q Consensus 61 ~g~GvailSr~pi~~~-~~~~-~~~~~~~~~~~~~~~~~~r~~~~~~v~~~g~~i~v~~tHl~~~~ 124 (136)
.|-++.|+.|-.+... ..+. .... .+.+-...+|+++.+++++.+..++++|+||.+..
T Consensus 91 ~gi~l~vf~~~~~~~~i~~v~~~~v~-----~G~~~~~~nKG~v~i~~~~~~~~~~fv~~HL~a~~ 151 (310)
T smart00128 91 VGILVLVFVKANHLVYIKDVETFTVK-----TGMGGLWGNKGAVAVRFKLSDTSFCFVNSHLAAGA 151 (310)
T ss_pred cceEEEEEEehhhcCccceeEeeeee-----ccccceeecCceEEEEEEEcCcEEEEEeecccccc
Confidence 3577889988555321 1110 0100 01111234799999999999999999999999843
No 19
>COG3021 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.62 E-value=0.0001 Score=55.79 Aligned_cols=101 Identities=16% Similarity=0.001 Sum_probs=63.5
Q ss_pred HHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEcccCCC-ccEEEEecCc-cceeeEeeeccCCcccee
Q psy14558 13 IRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSGVMG-SGVCILSRYE-ITEVLFHQWQLNGYIHKI 90 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~~~g-~GvailSr~p-i~~~~~~~~~~~~~~~~~ 90 (136)
..++...+...++|+|.+||+.... ......+++.|||. .......+ .+++++||.+ +...... +...
T Consensus 103 ~~k~Lsl~~~~~~D~v~~~E~~~~~--~~~~~~l~~~yP~~-~~~~~~~~~~~~a~~sr~~~~~~~~~e--~~~~----- 172 (309)
T COG3021 103 VAKLLSLIQQLDADAVTTPEGVQLW--TAKVGALAAQYPAF-ILCQHPTGVFTLAILSRRPCCPLTEAE--PWLR----- 172 (309)
T ss_pred HHHHHHHHhhhCcchhhhHHHHHHh--HhHHHHHHHhCCce-eecCCCCCeeeeeeccccccccccccC--cccc-----
Confidence 4456667777789999999998653 12334677789983 44433324 8899999976 2111110 0000
Q ss_pred ecCcccCCcceEE-EEEEECCEEEEEEEecCC-CCCCCCCC
Q psy14558 91 FHADWFGGKGVGL-CQVLVNGFRLNVYTTHVS-ISWVIIPL 129 (136)
Q Consensus 91 ~~~~~~~~r~~~~-~~v~~~g~~i~v~~tHl~-~~~~~~~~ 129 (136)
.+|..+. +.....|+.+.+++.|.. .++..+++
T Consensus 173 ------~pk~~~~t~~~~~~g~~l~v~~lh~~~~~~~~~~~ 207 (309)
T COG3021 173 ------LPKSALATAYPLPDGTELTVVALHAVNFPVGTDPQ 207 (309)
T ss_pred ------CCccceeEEEEcCCCCEEEEEeeccccccCCccHH
Confidence 1344444 444446899999999999 77776654
No 20
>KOG0620|consensus
Probab=97.15 E-value=0.00024 Score=55.23 Aligned_cols=73 Identities=19% Similarity=0.254 Sum_probs=48.8
Q ss_pred ccccChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCceEEEccc-------CC-CccEEEE---ecCc
Q psy14558 4 KVSKDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYAHYFYSG-------VM-GSGVCIL---SRYE 72 (136)
Q Consensus 4 ~~s~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~~~~~~~-------~~-g~Gvail---Sr~p 72 (136)
+-...+..|...+.+.|...+||++|||||+.. ++.+...+.. -+|...+... .. ..|+||+ |+|.
T Consensus 43 ~~~~~w~~r~~~~~~ei~~~~ad~icLqev~~~--~~~~~p~l~~-~gY~g~~~~k~~~~~~~~~~~dGcaiffk~s~f~ 119 (361)
T KOG0620|consen 43 SWALSWEYRRQLLLEEILNYNADILCLQEVDRY--HDFFSPELEA-SGYSGIFIEKTRMGEVELEKIDGCAIFFKPSLFQ 119 (361)
T ss_pred hhhccHHHHHHHHHHHHhCCCcceeecchhhHH--HHHccchhhh-cCCcceeecccccchhhcccCceeeeeecchHHh
Confidence 344678899999999999999999999999321 1223333433 2776555431 22 4899999 5677
Q ss_pred cceeeEe
Q psy14558 73 ITEVLFH 79 (136)
Q Consensus 73 i~~~~~~ 79 (136)
++....+
T Consensus 120 li~~~~i 126 (361)
T KOG0620|consen 120 LIHSSAI 126 (361)
T ss_pred hhhhhhh
Confidence 7654333
No 21
>KOG0566|consensus
Probab=90.01 E-value=1.9 Score=37.76 Aligned_cols=29 Identities=14% Similarity=0.208 Sum_probs=26.0
Q ss_pred CCcceEEEEEEECCEEEEEEEecCCCCCC
Q psy14558 97 GGKGVGLCQVLVNGFRLNVYTTHVSISWV 125 (136)
Q Consensus 97 ~~r~~~~~~v~~~g~~i~v~~tHl~~~~~ 125 (136)
.+||++..++...+..++|+|.||.+..+
T Consensus 659 gNKGAVAIrf~~~~TsfCFv~SHlAAG~s 687 (1080)
T KOG0566|consen 659 GNKGAVAIRFVYHATSFCFVCSHLAAGQS 687 (1080)
T ss_pred CCCceEEEEEEeccccEEEEecccccccc
Confidence 46999999999999999999999999654
No 22
>PTZ00312 inositol-1,4,5-triphosphate 5-phosphatase; Provisional
Probab=89.73 E-value=0.58 Score=35.74 Aligned_cols=34 Identities=18% Similarity=0.039 Sum_probs=28.3
Q ss_pred CCcceEEEEEEECCEEEEEEEecCCCCCCCCCCC
Q psy14558 97 GGKGVGLCQVLVNGFRLNVYTTHVSISWVIIPLC 130 (136)
Q Consensus 97 ~~r~~~~~~v~~~g~~i~v~~tHl~~~~~~~~~~ 130 (136)
.+||++.+.+++++..+.++|+||-+..+..-.|
T Consensus 66 SRKGfmrtrw~i~~t~fdfVNiHLFHDaSNl~A~ 99 (356)
T PTZ00312 66 SRKGFLLLSLRLGTVVVNVLNVHLYNDDDNRVAA 99 (356)
T ss_pred cccceEEEEEEECCEEEEEEEeeccCCcchhhHH
Confidence 4799999999999999999999999855444333
No 23
>KOG0808|consensus
Probab=86.53 E-value=0.82 Score=34.34 Aligned_cols=28 Identities=36% Similarity=0.620 Sum_probs=24.5
Q ss_pred hHHHHHHHHHHHhcCCCcEEEEeeecCC
Q psy14558 9 RDIRIRAIAAELACNKYDIVCLQEVWKN 36 (136)
Q Consensus 9 ~~~r~~~i~~~i~~~~pDIi~LQEv~~~ 36 (136)
...|+++|++...-....||||||++.-
T Consensus 98 ih~r~kaiieaaa~agvniiclqeawtm 125 (387)
T KOG0808|consen 98 IHDRLKAIIEAAAVAGVNIICLQEAWTM 125 (387)
T ss_pred HHHHHHHHHHHHHhcCccEEEeehhhcC
Confidence 3678999999999999999999999763
No 24
>PLN03191 Type I inositol-1,4,5-trisphosphate 5-phosphatase 2; Provisional
Probab=85.42 E-value=3.8 Score=34.33 Aligned_cols=27 Identities=22% Similarity=0.233 Sum_probs=25.0
Q ss_pred CCcceEEEEEEECCEEEEEEEecCCCC
Q psy14558 97 GGKGVGLCQVLVNGFRLNVYTTHVSIS 123 (136)
Q Consensus 97 ~~r~~~~~~v~~~g~~i~v~~tHl~~~ 123 (136)
.+||++.+++.+.+..|+|+|.||.+.
T Consensus 406 GNKGAVaIr~~l~~Ts~cFVn~HLAAg 432 (621)
T PLN03191 406 GNKGSVSISMSLFQSRLCFVCSHLTSG 432 (621)
T ss_pred ccceeEEEEEEEcCcEEEEEEeccccc
Confidence 479999999999999999999999984
No 25
>COG2374 Predicted extracellular nuclease [General function prediction only]
Probab=66.98 E-value=46 Score=28.88 Aligned_cols=29 Identities=17% Similarity=0.158 Sum_probs=23.6
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeecCC
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVWKN 36 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~~~ 36 (136)
+.+....+++..|...++||+.|-|+...
T Consensus 499 e~~~Q~~k~v~ai~~ldaDV~GL~Eien~ 527 (798)
T COG2374 499 EFARQRAKIVTAILTLDADVLGLMEIENN 527 (798)
T ss_pred HHHHHHHHHHHHHhhcchhhheeeeeecc
Confidence 34455667888999999999999999765
No 26
>cd07393 MPP_DR1119 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain. DR1119 is an uncharacterized Deinococcus radiodurans protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordinat
Probab=66.42 E-value=11 Score=27.36 Aligned_cols=31 Identities=13% Similarity=0.082 Sum_probs=24.6
Q ss_pred CCccccChHHHHHHHHHHHhcC--CCcEEEEee
Q psy14558 2 IPKVSKDRDIRIRAIAAELACN--KYDIVCLQE 32 (136)
Q Consensus 2 ~~~~s~~~~~r~~~i~~~i~~~--~pDIi~LQE 32 (136)
++...+..+++++++.+.+.+. +||+|++--
T Consensus 17 ~~~~g~~~~~~~~~i~~~~~~~~~~~D~viiaG 49 (232)
T cd07393 17 MDVFGPEWKNHTEKIKENWDNVVAPEDIVLIPG 49 (232)
T ss_pred CcccCccHHHHHHHHHHHHHhcCCCCCEEEEcC
Confidence 3456666788898999988888 999999854
No 27
>cd07577 Ph0642_like Pyrococcus horikoshii Ph0642 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases). Uncharacterized subgroup of the nitrilase superfamily. This superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. Pyrococcus horikoshii Ph0642 is a hypothetical protein belonging to this subgroup. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). This subgroup was classified as belonging to class 13, which represents proteins that at the time were difficult to place in a distinct similarity group. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=59.09 E-value=14 Score=26.93 Aligned_cols=28 Identities=11% Similarity=0.330 Sum_probs=24.3
Q ss_pred cChHHHHHHHHHHHhcCCCcEEEEeeec
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVCLQEVW 34 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~LQEv~ 34 (136)
.+...+++.+.+.|.+..+|+|+|.|+.
T Consensus 12 ~d~~~N~~~~~~~i~~a~adlvvfPE~~ 39 (259)
T cd07577 12 GEVEKNLKKVESLIKGVEADLIVLPELF 39 (259)
T ss_pred CCHHHHHHHHHHHHHHhCCCEEEccccc
Confidence 4678888999999988889999999975
No 28
>PLN00202 beta-ureidopropionase
Probab=59.05 E-value=14 Score=29.36 Aligned_cols=31 Identities=23% Similarity=0.564 Sum_probs=21.4
Q ss_pred CccccChHHHHHHHHHHHh---cCCCcEEEEeeec
Q psy14558 3 PKVSKDRDIRIRAIAAELA---CNKYDIVCLQEVW 34 (136)
Q Consensus 3 ~~~s~~~~~r~~~i~~~i~---~~~pDIi~LQEv~ 34 (136)
|+.. +..++++.+.+.++ +.++|+|||.|++
T Consensus 103 ~~~~-~~~~nl~~~~~li~~Aa~~gadLVvfPE~~ 136 (405)
T PLN00202 103 PFAD-QKRAIMDKVKPMIDAAGAAGVNILCLQEAW 136 (405)
T ss_pred cccC-CHHHHHHHHHHHHHHHHHCCCCEEEecchh
Confidence 4444 56666666666554 5689999999984
No 29
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=57.20 E-value=10 Score=25.95 Aligned_cols=24 Identities=8% Similarity=0.224 Sum_probs=17.4
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEe
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQ 31 (136)
.+....+.+.++|.+++||||++-
T Consensus 47 ~~~~~~~~l~~~i~~~kP~vI~v~ 70 (150)
T PF14639_consen 47 RKEEDMERLKKFIEKHKPDVIAVG 70 (150)
T ss_dssp -SHHHHHHHHHHHHHH--SEEEE-
T ss_pred HHHHHHHHHHHHHHHcCCeEEEEc
Confidence 345677888999999999999993
No 30
>KOG1976|consensus
Probab=56.93 E-value=9 Score=29.56 Aligned_cols=25 Identities=20% Similarity=0.289 Sum_probs=22.8
Q ss_pred CcceEEEEEEECCEEEEEEEecCCC
Q psy14558 98 GKGVGLCQVLVNGFRLNVYTTHVSI 122 (136)
Q Consensus 98 ~r~~~~~~v~~~g~~i~v~~tHl~~ 122 (136)
.++++-+++.+.|+.+.++|.||-.
T Consensus 156 rkg~~~~r~~I~~k~fdfVN~hLFh 180 (391)
T KOG1976|consen 156 RKGFLLARFRIHGKEFDFVNLHLFH 180 (391)
T ss_pred hccccceeEEEcCceeeeeehhhhc
Confidence 5789999999999999999999954
No 31
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 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. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=53.00 E-value=18 Score=27.52 Aligned_cols=28 Identities=14% Similarity=-0.019 Sum_probs=23.9
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeecC
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVWK 35 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~~ 35 (136)
...+..+.|.++|.+++|||++|---+.
T Consensus 138 ~E~eqp~~i~~Ll~~~~PDIlViTGHD~ 165 (287)
T PF05582_consen 138 PEKEQPEKIYRLLEEYRPDILVITGHDG 165 (287)
T ss_pred chHHhhHHHHHHHHHcCCCEEEEeCchh
Confidence 3566788999999999999999987765
No 32
>cd07578 nitrilase_1_R1 First nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). Members of this subgroup have two nitrilase domains. This is the first of those two domains. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=52.49 E-value=21 Score=26.05 Aligned_cols=28 Identities=11% Similarity=0.101 Sum_probs=19.5
Q ss_pred cChHHHHHHHHHHHh---cCCCcEEEEeeec
Q psy14558 7 KDRDIRIRAIAAELA---CNKYDIVCLQEVW 34 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~---~~~pDIi~LQEv~ 34 (136)
.+...+++.+.+.++ +.++|+|+|.|..
T Consensus 13 ~d~~~n~~~~~~~i~~A~~~gadlivfPE~~ 43 (258)
T cd07578 13 GEKERNIERLLALCEEAARAGARLIVTPEMA 43 (258)
T ss_pred ccHHHHHHHHHHHHHHHHhCCCCEEEccccc
Confidence 345556666655554 5689999999975
No 33
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=51.72 E-value=15 Score=27.88 Aligned_cols=21 Identities=14% Similarity=0.172 Sum_probs=16.6
Q ss_pred HHHHHHHHHhcCCCcEEEEee
Q psy14558 12 RIRAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQE 32 (136)
.-..+.+.|++.+||+++|=-
T Consensus 157 ~~~~~~~~l~~~~~Dlivlag 177 (289)
T PRK13010 157 QEAQILDLIETSGAELVVLAR 177 (289)
T ss_pred hHHHHHHHHHHhCCCEEEEeh
Confidence 345688899999999999743
No 34
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=50.56 E-value=15 Score=27.75 Aligned_cols=28 Identities=7% Similarity=-0.076 Sum_probs=23.3
Q ss_pred hHHHHHHHHHHHhcCCCcEEEEeeecCC
Q psy14558 9 RDIRIRAIAAELACNKYDIVCLQEVWKN 36 (136)
Q Consensus 9 ~~~r~~~i~~~i~~~~pDIi~LQEv~~~ 36 (136)
..+..+.|.++|.+++|||+++---+..
T Consensus 138 E~eqp~~i~~Ll~~~~PDIlViTGHD~~ 165 (283)
T TIGR02855 138 EKEMPEKVLDLIEEVRPDILVITGHDAY 165 (283)
T ss_pred chhchHHHHHHHHHhCCCEEEEeCchhh
Confidence 4567888999999999999999877653
No 35
>cd07587 ML_beta-AS mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases). This subgroup includes mammalian-like beta-AS (EC 3.5.1.6, also known as beta-ureidopropionase or N-carbamoyl-beta-alanine amidohydrolase). This enzyme catalyzes the third and final step in the catabolic pyrimidine catabolic pathway responsible for the degradation of uracil and thymine, the hydrolysis of N-carbamyl-beta-alanine and N-carbamyl-beta-aminoisobutyrate to the beta-amino acids, beta-alanine and beta-aminoisobutyrate respectively. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 5. Members of this superfamily generally form homomeric
Probab=50.06 E-value=17 Score=28.38 Aligned_cols=28 Identities=29% Similarity=0.570 Sum_probs=20.2
Q ss_pred ChHHHHHHHHHHH---hcCCCcEEEEeeecC
Q psy14558 8 DRDIRIRAIAAEL---ACNKYDIVCLQEVWK 35 (136)
Q Consensus 8 ~~~~r~~~i~~~i---~~~~pDIi~LQEv~~ 35 (136)
+..++++.+.+.| .+.++|+|+|+|+..
T Consensus 84 d~~~nl~ki~~~i~~Aa~~gadLivfPE~~l 114 (363)
T cd07587 84 QREAIHDRIKKIIEAAAMAGVNIICFQEAWT 114 (363)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCEEEcccccc
Confidence 5666666665555 456899999999764
No 36
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=49.14 E-value=20 Score=26.39 Aligned_cols=28 Identities=7% Similarity=0.127 Sum_probs=18.7
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCCch
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKNDDF 39 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~~~ 39 (136)
.+..+.+...+.+||+|++.|+......
T Consensus 185 ~~~~~l~~~LR~~pD~iiigEiR~~e~~ 212 (270)
T PF00437_consen 185 SYEDLLKSALRQDPDVIIIGEIRDPEAA 212 (270)
T ss_dssp SHHHHHHHHTTS--SEEEESCE-SCHHH
T ss_pred cHHHHHHHHhcCCCCcccccccCCHhHH
Confidence 3455666777899999999999987443
No 37
>cd07574 nitrilase_Rim1_like Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases). Some members of this subgroup are implicated in post-translational modification, as they contain an N-terminal GCN5-related N-acetyltransferase (GNAT) protein RimI family domain. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 12. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=47.54 E-value=18 Score=26.67 Aligned_cols=23 Identities=22% Similarity=0.291 Sum_probs=16.7
Q ss_pred HHHHHHHHHhcCCCcEEEEeeec
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVW 34 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~ 34 (136)
++..+++..++.++|||+|.|..
T Consensus 22 ~i~~~i~~A~~~gadlivfPE~~ 44 (280)
T cd07574 22 KVEYWVAEAAGYGADLLVFPEYF 44 (280)
T ss_pred HHHHHHHHHHHcCCCEEECchHh
Confidence 34455555556789999999975
No 38
>PRK10438 C-N hydrolase family amidase; Provisional
Probab=46.06 E-value=33 Score=25.09 Aligned_cols=29 Identities=21% Similarity=0.339 Sum_probs=22.2
Q ss_pred ccChHHHHHHHHHHHhc-CCCcEEEEeeec
Q psy14558 6 SKDRDIRIRAIAAELAC-NKYDIVCLQEVW 34 (136)
Q Consensus 6 s~~~~~r~~~i~~~i~~-~~pDIi~LQEv~ 34 (136)
..+...+++.+.+.+.+ .++|+|+|-|..
T Consensus 15 ~~d~~~Nl~~~~~~i~~a~gadLivfPE~~ 44 (256)
T PRK10438 15 WMDGPANLRHFDRQLEGITGRDVIVLPEMF 44 (256)
T ss_pred cCCHHHHHHHHHHHHHhccCCCEEEeCCcc
Confidence 34667788887777765 579999999975
No 39
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=45.37 E-value=24 Score=26.74 Aligned_cols=20 Identities=15% Similarity=0.110 Sum_probs=16.0
Q ss_pred HHHHHHHHhcCCCcEEEEee
Q psy14558 13 IRAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQE 32 (136)
-..+.+.|++.+||+|++=-
T Consensus 154 ~~~~~~~l~~~~~Dlivlag 173 (286)
T PRK06027 154 EARLLELIDEYQPDLVVLAR 173 (286)
T ss_pred HHHHHHHHHHhCCCEEEEec
Confidence 34678899999999999743
No 40
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=45.16 E-value=27 Score=26.36 Aligned_cols=19 Identities=21% Similarity=0.149 Sum_probs=15.8
Q ss_pred HHHHHHHHhcCCCcEEEEe
Q psy14558 13 IRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQ 31 (136)
-..+.+.|++.+||+|+|=
T Consensus 149 e~~~~~~l~~~~~Dlivla 167 (280)
T TIGR00655 149 EKRQLELLKQYQVDLVVLA 167 (280)
T ss_pred HHHHHHHHHHhCCCEEEEe
Confidence 4568889999999999974
No 41
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=44.95 E-value=25 Score=22.19 Aligned_cols=19 Identities=16% Similarity=0.317 Sum_probs=16.6
Q ss_pred HHHHHHHhcCCCcEEEEee
Q psy14558 14 RAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 14 ~~i~~~i~~~~pDIi~LQE 32 (136)
+.+.+.+++.+||+|++-=
T Consensus 41 ~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 41 EELVEALRAERPDVVGISV 59 (121)
T ss_dssp HHHHHHHHHTTCSEEEEEE
T ss_pred HHHHHHHhcCCCcEEEEEc
Confidence 7788899999999999954
No 42
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=44.86 E-value=34 Score=24.62 Aligned_cols=24 Identities=29% Similarity=0.260 Sum_probs=19.5
Q ss_pred hHHHHHHHHHHHhcCCCcEEEEee
Q psy14558 9 RDIRIRAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 9 ~~~r~~~i~~~i~~~~pDIi~LQE 32 (136)
+.+--.+|++.|++.+||+|+|=-
T Consensus 64 r~~~d~~l~~~l~~~~~dlvvLAG 87 (200)
T COG0299 64 REAFDRALVEALDEYGPDLVVLAG 87 (200)
T ss_pred HHHHHHHHHHHHHhcCCCEEEEcc
Confidence 445567899999999999999843
No 43
>cd07585 nitrilase_7 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=44.48 E-value=28 Score=25.33 Aligned_cols=29 Identities=24% Similarity=0.358 Sum_probs=19.3
Q ss_pred cChHHHHHHHHHHH---hcCCCcEEEEeeecC
Q psy14558 7 KDRDIRIRAIAAEL---ACNKYDIVCLQEVWK 35 (136)
Q Consensus 7 ~~~~~r~~~i~~~i---~~~~pDIi~LQEv~~ 35 (136)
.+...+++.+.+.+ ++.++|+|+|.|...
T Consensus 12 ~~~~~n~~~i~~~i~~a~~~gadliv~PE~~l 43 (261)
T cd07585 12 GDKARNLAVIARWTRKAAAQGAELVCFPEMCI 43 (261)
T ss_pred CCHHHHHHHHHHHHHHHHHcCCCEEEeccccc
Confidence 34555555554444 457899999999764
No 44
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=43.59 E-value=31 Score=26.10 Aligned_cols=21 Identities=10% Similarity=0.116 Sum_probs=16.6
Q ss_pred HHHHHHHHHhcCCCcEEEEee
Q psy14558 12 RIRAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQE 32 (136)
.-..+.+.|++.+||++++=-
T Consensus 153 ~~~~~~~~l~~~~~Dlivlag 173 (286)
T PRK13011 153 QEAQVLDVVEESGAELVVLAR 173 (286)
T ss_pred hHHHHHHHHHHhCcCEEEEeC
Confidence 344678899999999999753
No 45
>cd07581 nitrilase_3 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=43.19 E-value=24 Score=25.47 Aligned_cols=28 Identities=21% Similarity=0.278 Sum_probs=19.0
Q ss_pred ChHHHHHHHHHHH---hcCCCcEEEEeeecC
Q psy14558 8 DRDIRIRAIAAEL---ACNKYDIVCLQEVWK 35 (136)
Q Consensus 8 ~~~~r~~~i~~~i---~~~~pDIi~LQEv~~ 35 (136)
+.+.+++.+.+.+ .+.++|+|+|.|..-
T Consensus 11 d~~~n~~~~~~~i~~a~~~g~dlivfPE~~l 41 (255)
T cd07581 11 DKEENLEKVRRLLAEAAAAGADLVVFPEYTM 41 (255)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCEEECcchhc
Confidence 4445555544444 458899999999864
No 46
>cd07570 GAT_Gln-NAD-synth Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases). Glutamine-dependent NAD synthetases are bifunctional enzymes, which have an N-terminal GAT domain and a C-terminal NAD+ synthetase domain. The GAT domain is a glutaminase (EC 3.5.1.2) which hydrolyses L-glutamine to L-glutamate and ammonia. The ammonia is used by the NAD+ synthetase domain in the ATP-dependent amidation of nicotinic acid adenine dinucleotide. Glutamine aminotransferases are categorized depending on their active site residues into different unrelated classes. This class of GAT domain belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this sub
Probab=42.72 E-value=38 Score=24.59 Aligned_cols=30 Identities=17% Similarity=0.154 Sum_probs=20.8
Q ss_pred ccChHHHHHHHHHHHh---cCCCcEEEEeeecC
Q psy14558 6 SKDRDIRIRAIAAELA---CNKYDIVCLQEVWK 35 (136)
Q Consensus 6 s~~~~~r~~~i~~~i~---~~~pDIi~LQEv~~ 35 (136)
..+...+++.+.+.++ +.++|+|+|-|..-
T Consensus 11 ~~d~~~N~~~~~~~i~~A~~~gadlvvfPE~~l 43 (261)
T cd07570 11 VGDLEGNAEKILEAIREAKAQGADLVVFPELSL 43 (261)
T ss_pred CCCHHHHHHHHHHHHHHHHHcCCCEEEccchhc
Confidence 3455666666655554 56899999999764
No 47
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=40.97 E-value=18 Score=24.14 Aligned_cols=27 Identities=4% Similarity=0.043 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhcCCCcEEEEeeecCCC
Q psy14558 11 IRIRAIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
.-.+.+++...+++||+|++.=+...+
T Consensus 37 v~~e~~v~aa~~~~adiVglS~L~t~~ 63 (128)
T cd02072 37 SPQEEFIDAAIETDADAILVSSLYGHG 63 (128)
T ss_pred CCHHHHHHHHHHcCCCEEEEeccccCC
Confidence 346788999999999999998776654
No 48
>cd05776 DNA_polB_alpha_exo inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase alpha, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase alpha. DNA polymerase alpha is a family-B DNA polymerase with a catalytic subunit that contains a DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (delta and epsilon are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase alpha is almost exclusively required for the initiation of DNA replication and the priming of Okazaki fragments during elongation. It associates with DNA primase and is the only enzyme able to start DNA synthesis de novo. The catalytic subunit contains both polymerase and 3'-5' exonuclease domains, but only exhibits polymerase activity. The 3'-5' exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, without the four conserved acidic residues that are
Probab=40.74 E-value=38 Score=24.67 Aligned_cols=38 Identities=13% Similarity=0.149 Sum_probs=26.7
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHH
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVV 46 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l 46 (136)
+.++=+.++.+.|++.+||||+==.+... +.+.|.+.+
T Consensus 81 ~E~~LL~~f~~~i~~~DPDiivG~Ni~~f-dl~~L~~R~ 118 (234)
T cd05776 81 NERALLNFFLAKLQKIDPDVLVGHDLEGF-DLDVLLSRI 118 (234)
T ss_pred CHHHHHHHHHHHHhhcCCCEEEeeccCCC-CHHHHHHHH
Confidence 45566889999999999999985555443 344454444
No 49
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=40.33 E-value=19 Score=24.19 Aligned_cols=27 Identities=7% Similarity=0.075 Sum_probs=21.9
Q ss_pred HHHHHHHHHHhcCCCcEEEEeeecCCC
Q psy14558 11 IRIRAIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
.-.+.+++..++++||+|++.=+...+
T Consensus 39 v~~e~~v~aa~~~~adiVglS~l~~~~ 65 (134)
T TIGR01501 39 SPQEEFIKAAIETKADAILVSSLYGHG 65 (134)
T ss_pred CCHHHHHHHHHHcCCCEEEEecccccC
Confidence 346788999999999999998776544
No 50
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=40.10 E-value=35 Score=21.70 Aligned_cols=40 Identities=13% Similarity=0.004 Sum_probs=25.3
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCCc--hHHHHHHHHhcCC
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKNDD--FELIKSVVFEALP 51 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~~--~~~l~~~l~~~~~ 51 (136)
-.+.+.+.+.+.+||+|++.=...... ...+.+.+++..+
T Consensus 38 ~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~ 79 (119)
T cd02067 38 PPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAGL 79 (119)
T ss_pred CHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcCC
Confidence 356788899999999999976533321 1233345555444
No 51
>PLN02504 nitrilase
Probab=39.70 E-value=46 Score=25.82 Aligned_cols=27 Identities=15% Similarity=0.226 Sum_probs=18.8
Q ss_pred ChHHHHHHHHHHHh---cCCCcEEEEeeec
Q psy14558 8 DRDIRIRAIAAELA---CNKYDIVCLQEVW 34 (136)
Q Consensus 8 ~~~~r~~~i~~~i~---~~~pDIi~LQEv~ 34 (136)
+...+++.+.++|+ +.++|+|+|.|+.
T Consensus 38 d~~~nl~~~~~li~eAa~~gadLIVfPE~~ 67 (346)
T PLN02504 38 DTPATLDKAERLIAEAAAYGSQLVVFPEAF 67 (346)
T ss_pred CHHHHHHHHHHHHHHHHHCCCeEEEeCccc
Confidence 44455555555554 6789999999974
No 52
>cd07576 R-amidase_like Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases). Pseudomonas sp. MCI3434 R-amidase hydrolyzes (R,S)-piperazine-2-tert-butylcarboxamide to form (R)-piperazine-2-carboxylic acid. It does so with strict R-stereoselectively. Its preferred substrates are carboxamide compounds which have the amino or imino group connected to their beta- or gamma-carbon. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), class 13 represents proteins that at the time were difficult to place in a distinct similarity group. It has been suggested that this subgroup represents a new class. Members of the nitrilase superfamily generally form homomeric compl
Probab=39.60 E-value=34 Score=24.67 Aligned_cols=29 Identities=14% Similarity=0.248 Sum_probs=19.2
Q ss_pred cChHHHHHHHHH---HHhcCCCcEEEEeeecC
Q psy14558 7 KDRDIRIRAIAA---ELACNKYDIVCLQEVWK 35 (136)
Q Consensus 7 ~~~~~r~~~i~~---~i~~~~pDIi~LQEv~~ 35 (136)
.+...+++.+.+ ...+.++|+|+|.|..-
T Consensus 12 ~d~~~n~~~i~~~i~~a~~~ga~lvv~PE~~l 43 (254)
T cd07576 12 GDVAANLARLDEAAARAAAAGADLLVFPELFL 43 (254)
T ss_pred CCHHHHHHHHHHHHHHHHHcCCCEEEccCccc
Confidence 444555555544 44467899999999754
No 53
>cd07564 nitrilases_CHs Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases). Nitrilases (nitrile aminohydrolases, EC:3.5.5.1) hydrolyze nitriles (RCN) to ammonia and the corresponding carboxylic acid. Most nitrilases prefer aromatic nitriles, some prefer arylacetonitriles and others aliphatic nitriles. This group includes the nitrilase cyanide dihydratase (CDH), which hydrolyzes inorganic cyanide (HCN) to produce formate. It also includes cyanide hydratase (CH), which hydrolyzes HCN to formamide. This group includes four Arabidopsis thaliana nitrilases (Ath)NIT1-4. AthNIT1-3 have a strong substrate preference for phenylpropionitrile (PPN) and other nitriles which may originate from the breakdown of glucosinolates. The product of PPN hydrolysis, phenylacetic acid has auxin activity. AthNIT1-3 can also convert indoacetonitrile to indole-3-acetic acid (IAA, auxin), but with a lower affinity and velocity. From their expression patterns, it has been speculated that
Probab=39.57 E-value=36 Score=25.49 Aligned_cols=29 Identities=21% Similarity=0.245 Sum_probs=19.3
Q ss_pred cChHHHHHHHHH---HHhcCCCcEEEEeeecC
Q psy14558 7 KDRDIRIRAIAA---ELACNKYDIVCLQEVWK 35 (136)
Q Consensus 7 ~~~~~r~~~i~~---~i~~~~pDIi~LQEv~~ 35 (136)
.+.+.+++.+.+ ...+.++|||+|.|...
T Consensus 13 ~d~~~nl~~~~~~i~~A~~~ga~lvvfPE~~l 44 (297)
T cd07564 13 LDLAATVEKACRLIEEAAANGAQLVVFPEAFI 44 (297)
T ss_pred CCHHHHHHHHHHHHHHHHHCCCCEEEeccccc
Confidence 345555555544 44457899999999753
No 54
>PLN02798 nitrilase
Probab=38.89 E-value=32 Score=25.58 Aligned_cols=27 Identities=22% Similarity=0.256 Sum_probs=18.1
Q ss_pred ChHHHHHHH---HHHHhcCCCcEEEEeeec
Q psy14558 8 DRDIRIRAI---AAELACNKYDIVCLQEVW 34 (136)
Q Consensus 8 ~~~~r~~~i---~~~i~~~~pDIi~LQEv~ 34 (136)
+...+++.+ ++...+.++|+|+|.|..
T Consensus 23 d~~~N~~~~~~~i~~A~~~gadlvvfPE~~ 52 (286)
T PLN02798 23 DLAANFATCSRLAKEAAAAGAKLLFLPECF 52 (286)
T ss_pred CHHHHHHHHHHHHHHHHHCCCCEEEcCCCc
Confidence 444455554 444456789999999973
No 55
>KOG3076|consensus
Probab=38.69 E-value=29 Score=24.91 Aligned_cols=18 Identities=33% Similarity=0.438 Sum_probs=16.3
Q ss_pred HHHHHHHhcCCCcEEEEe
Q psy14558 14 RAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 14 ~~i~~~i~~~~pDIi~LQ 31 (136)
..+++.|++..+|+|||=
T Consensus 77 ~eL~~~l~e~~~d~v~lA 94 (206)
T KOG3076|consen 77 NELAEVLLELGTDLVCLA 94 (206)
T ss_pred HHHHHHHHHhCCCEEEeh
Confidence 789999999999999973
No 56
>cd07571 ALP_N-acyl_transferase Apolipoprotein N-acyl transferase (class 9 nitrilases). ALP N-acyl transferase (Lnt), is an essential membrane-bound enzyme in gram-negative bacteria, which catalyzes the N-acylation of apolipoproteins, the final step in lipoprotein maturation. This is a reverse amidase (i.e. condensation) reaction. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 9.
Probab=38.49 E-value=37 Score=25.05 Aligned_cols=29 Identities=17% Similarity=0.066 Sum_probs=20.7
Q ss_pred ChHHHHHHHHHHHhc---CCCcEEEEeeecCC
Q psy14558 8 DRDIRIRAIAAELAC---NKYDIVCLQEVWKN 36 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~---~~pDIi~LQEv~~~ 36 (136)
+.+.+++.+.+.+++ .++|+|+|.|..-.
T Consensus 20 d~~~nl~~~~~~i~~a~~~ga~lvvfPE~~l~ 51 (270)
T cd07571 20 QRQATLDRYLDLTRELADEKPDLVVWPETALP 51 (270)
T ss_pred HHHHHHHHHHHHHhhcccCCCCEEEecCCcCC
Confidence 446666666666654 46999999998653
No 57
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=38.18 E-value=44 Score=25.32 Aligned_cols=24 Identities=17% Similarity=0.122 Sum_probs=21.0
Q ss_pred cChHHHHHHHHHHHhcCCCcEEEE
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVCL 30 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~L 30 (136)
.++.+.-+++.+.+.++++|+|+|
T Consensus 149 ~~k~e~E~~~~~ll~~~~~DlvVL 172 (287)
T COG0788 149 ENKAEAEARLLELLEEYGADLVVL 172 (287)
T ss_pred CcchHHHHHHHHHHHHhCCCEEee
Confidence 457778888999999999999997
No 58
>cd07579 nitrilase_1_R2 Second nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). Members of this subgroup have two nitrilase domains. This is the second of those two domains. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=38.01 E-value=39 Score=25.19 Aligned_cols=28 Identities=18% Similarity=0.124 Sum_probs=20.6
Q ss_pred ChHHHHHHHHHHHh---cCCCcEEEEeeecC
Q psy14558 8 DRDIRIRAIAAELA---CNKYDIVCLQEVWK 35 (136)
Q Consensus 8 ~~~~r~~~i~~~i~---~~~pDIi~LQEv~~ 35 (136)
+.+.+++.+.+.++ +.++|+|+|.|...
T Consensus 12 d~~~Nl~~~~~~i~~A~~~gadlvvfPE~~l 42 (279)
T cd07579 12 DIAGNLATIDRLAAEAKATGAELVVFPELAL 42 (279)
T ss_pred CHHHHHHHHHHHHHHHHHCCCCEEEeCCccc
Confidence 56666666666664 56899999999753
No 59
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=37.45 E-value=40 Score=22.53 Aligned_cols=37 Identities=5% Similarity=0.113 Sum_probs=25.2
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCCc--hHHHHHHHHh
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKNDD--FELIKSVVFE 48 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~~--~~~l~~~l~~ 48 (136)
-.+.+++.+.+.+||+|++.=+..... ...+...|++
T Consensus 42 p~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~L~~ 80 (137)
T PRK02261 42 SQEEFIDAAIETDADAILVSSLYGHGEIDCRGLREKCIE 80 (137)
T ss_pred CHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHHHHHh
Confidence 467889999999999999976655432 1333445544
No 60
>cd07572 nit Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases). This subgroup includes mammalian Nit1 and Nit2, the Nit1-like domain of the invertebrate NitFhit, and various uncharacterized bacterial and archaeal Nit-like proteins. Nit1 and Nit2 are candidate tumor suppressor proteins. In NitFhit, the Nit1-like domain is encoded as a fusion protein with the non-homologous tumor suppressor, fragile histidine triad (Fhit). Mammalian Nit1 and Fhit may affect distinct signal pathways, and both may participate in DNA damage-induced apoptosis. Nit1 is a negative regulator in T cells. Overexpression of Nit2 in HeLa cells leads to a suppression of cell growth through cell cycle arrest in G2. These Nit proteins and the Nit1-like domain of NitFhit belong to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in t
Probab=37.18 E-value=36 Score=24.72 Aligned_cols=29 Identities=17% Similarity=0.328 Sum_probs=19.9
Q ss_pred cChHHHHHHHHHHH---hcCCCcEEEEeeecC
Q psy14558 7 KDRDIRIRAIAAEL---ACNKYDIVCLQEVWK 35 (136)
Q Consensus 7 ~~~~~r~~~i~~~i---~~~~pDIi~LQEv~~ 35 (136)
.+.+.+++.+.+.+ ++.++|+|+|-|+..
T Consensus 11 ~d~~~n~~~~~~~i~~A~~~g~dlivfPE~~l 42 (265)
T cd07572 11 ADKEANLARAKELIEEAAAQGAKLVVLPECFN 42 (265)
T ss_pred CCHHHHHHHHHHHHHHHHHCCCCEEECCcccc
Confidence 34555555555555 456899999999853
No 61
>PF07355 GRDB: Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); InterPro: IPR022787 This entry represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. All members are expected to contain an internal UGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon. ; GO: 0030699 glycine reductase activity, 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process, 0030700 glycine reductase complex
Probab=36.97 E-value=46 Score=26.13 Aligned_cols=33 Identities=12% Similarity=0.174 Sum_probs=25.6
Q ss_pred CccccChHHHHHHHHHHHhcCCCcEEEEeeecC
Q psy14558 3 PKVSKDRDIRIRAIAAELACNKYDIVCLQEVWK 35 (136)
Q Consensus 3 ~~~s~~~~~r~~~i~~~i~~~~pDIi~LQEv~~ 35 (136)
-|...|..+-.+.|.+.+++.+|||+.-==.+.
T Consensus 59 nyf~en~eea~~~i~~mv~~~~pD~viaGPaFn 91 (349)
T PF07355_consen 59 NYFNENKEEALKKILEMVKKLKPDVVIAGPAFN 91 (349)
T ss_pred chhhhCHHHHHHHHHHHHHhcCCCEEEEcCCcC
Confidence 356677888889999999999999997443333
No 62
>cd07197 nitrilase Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes. This superfamily (also known as the C-N hydrolase superfamily) contains hydrolases that break carbon-nitrogen bonds; it includes nitrilases, cyanide dihydratases, aliphatic amidases, N-terminal amidases, beta-ureidopropionases, biotinidases, pantotheinase, N-carbamyl-D-amino acid amidohydrolases, the glutaminase domain of glutamine-dependent NAD+ synthetase, apolipoprotein N-acyltransferases, and N-carbamoylputrescine amidohydrolases, among others. These enzymes depend on a Glu-Lys-Cys catalytic triad, and work through a thiol acylenzyme intermediate. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. These oligomers include dimers, tetramers, hexamers, octamers, tetradecamers, octadecamers, as well as variable length helical arrangements and homo-oligomeric spirals. These proteins have roles in vitamin and
Probab=36.79 E-value=40 Score=24.08 Aligned_cols=28 Identities=21% Similarity=0.302 Sum_probs=18.1
Q ss_pred ChHHHHHHH---HHHHhcCCCcEEEEeeecC
Q psy14558 8 DRDIRIRAI---AAELACNKYDIVCLQEVWK 35 (136)
Q Consensus 8 ~~~~r~~~i---~~~i~~~~pDIi~LQEv~~ 35 (136)
+.+++++.+ ++...+.++|+|+|-|..-
T Consensus 12 ~~~~n~~~~~~~i~~a~~~g~dlvvfPE~~l 42 (253)
T cd07197 12 DVEANLAKALRLIKEAAEQGADLIVLPELFL 42 (253)
T ss_pred CHHHHHHHHHHHHHHHHHCCCCEEEcCCccc
Confidence 444444444 4444456899999999753
No 63
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=36.71 E-value=48 Score=22.57 Aligned_cols=18 Identities=17% Similarity=0.074 Sum_probs=15.2
Q ss_pred HHHHHHHHHhcCCCcEEE
Q psy14558 12 RIRAIAAELACNKYDIVC 29 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~ 29 (136)
..+.+.++|++.+||+|+
T Consensus 77 ~~~~l~~~l~~~~PD~II 94 (169)
T PF06925_consen 77 FARRLIRLLREFQPDLII 94 (169)
T ss_pred HHHHHHHHHhhcCCCEEE
Confidence 345788999999999987
No 64
>cd07566 ScNTA1_like Saccharomyces cerevisiae N-terminal amidase NTA1, and related proteins (class 3 nitrilases). Saccharomyces cerevisiae NTA1 functions in the N-end rule protein degradation pathway. It specifically deaminates the N-terminal asparagine and glutamine residues of substrates of this pathway, to aspartate and glutamate respectively, these latter are the destabilizing residues. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 3.
Probab=36.65 E-value=59 Score=24.59 Aligned_cols=29 Identities=21% Similarity=0.102 Sum_probs=20.3
Q ss_pred cChHHHHHHHHHHHh---c----CCCcEEEEeeecC
Q psy14558 7 KDRDIRIRAIAAELA---C----NKYDIVCLQEVWK 35 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~---~----~~pDIi~LQEv~~ 35 (136)
.+...+++.+.+.|+ + .++|+|+|.|+..
T Consensus 12 ~d~~~Nl~~~~~~i~~A~~~~~~~gadLIVfPEl~l 47 (295)
T cd07566 12 GQVEENLSRAWELLDKTKKRAKLKKPDILVLPELAL 47 (295)
T ss_pred CCHHHHHHHHHHHHHHHHhhccCCCCcEEEcCCCCc
Confidence 355666666666554 3 5799999999754
No 65
>TIGR03445 mycothiol_MshB 1D-myo-inosityl-2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase. Members of this protein family are 1D-myo-inosityl-2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase, the MshB protein of mycothiol biosynthesis in Mycobacterium tuberculosis and related species.
Probab=35.96 E-value=58 Score=24.64 Aligned_cols=21 Identities=19% Similarity=0.123 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHhcCCCcEEEE
Q psy14558 10 DIRIRAIAAELACNKYDIVCL 30 (136)
Q Consensus 10 ~~r~~~i~~~i~~~~pDIi~L 30 (136)
.+-.+.|++.|++.+||||+.
T Consensus 109 ~e~~~~l~~~Ir~~~PdvViT 129 (284)
T TIGR03445 109 DEAAGALVAVIREVRPHVVVT 129 (284)
T ss_pred HHHHHHHHHHHHHhCCcEEEe
Confidence 455788999999999999987
No 66
>TIGR00228 ruvC crossover junction endodeoxyribonuclease RuvC. Endonuclease that resolves Holliday junction intermediates in genetic recombination. The active form of the protein is a dimer. Structure studies reveals that the catalytic center, comprised of four acidic residues, lies at the bottom of a cleft that fits a DNA duplex. The model hits a single Synechocystis PCC6803 protein at a score of 30, below the trusted cutoff, that appears orthologous and may act as authentic RuvC.
Probab=35.52 E-value=38 Score=23.39 Aligned_cols=24 Identities=4% Similarity=0.159 Sum_probs=18.9
Q ss_pred HHHHHHHhcCCCcEEEEeeecCCC
Q psy14558 14 RAIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 14 ~~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
+.+.+.|.+++||.+++-+++-..
T Consensus 47 ~~l~~~i~~y~P~~~aiE~~F~~~ 70 (156)
T TIGR00228 47 AGVTEIITQFQPNYFAIEQVFMAK 70 (156)
T ss_pred HHHHHHHHHhCCCEEEEeHHhhcc
Confidence 445667788999999999987653
No 67
>PLN02747 N-carbamolyputrescine amidase
Probab=35.50 E-value=40 Score=25.17 Aligned_cols=28 Identities=18% Similarity=0.344 Sum_probs=19.7
Q ss_pred cChHHHHHHHHHHHh---cCCCcEEEEeeec
Q psy14558 7 KDRDIRIRAIAAELA---CNKYDIVCLQEVW 34 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~---~~~pDIi~LQEv~ 34 (136)
.+.+.+++.+.+.++ +..+|+|+|-|..
T Consensus 18 ~d~~~N~~~i~~~i~~A~~~gadlvvfPE~~ 48 (296)
T PLN02747 18 DDRAANVDKAERLVREAHAKGANIILIQELF 48 (296)
T ss_pred CCHHHHHHHHHHHHHHHHHCCCcEEEccccc
Confidence 355656655555554 5789999999984
No 68
>cd07391 MPP_PF1019 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain. This family includes bacterial and archeal proteins homologous to PF1019, an uncharacterized Pyrococcus furiosus protein. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for pro
Probab=35.12 E-value=77 Score=21.59 Aligned_cols=26 Identities=0% Similarity=-0.054 Sum_probs=20.9
Q ss_pred cChHHHHHHHHHHHhcCCCcEEEEee
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~LQE 32 (136)
...++.++++.+.+.+.+||.|.+--
T Consensus 24 ~~~~~~~~~l~~~~~~~~~d~lii~G 49 (172)
T cd07391 24 GQTEDTLERLDRLIEEYGPERLIILG 49 (172)
T ss_pred ccHHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34457788899999999999988764
No 69
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=34.67 E-value=46 Score=21.47 Aligned_cols=24 Identities=13% Similarity=0.117 Sum_probs=19.3
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecC
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWK 35 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~ 35 (136)
-.+.+++.+.+.+||+|++.=...
T Consensus 38 p~e~~~~~a~~~~~d~V~iS~~~~ 61 (122)
T cd02071 38 TPEEIVEAAIQEDVDVIGLSSLSG 61 (122)
T ss_pred CHHHHHHHHHHcCCCEEEEcccch
Confidence 355788899999999999976654
No 70
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=34.58 E-value=52 Score=25.30 Aligned_cols=28 Identities=14% Similarity=0.137 Sum_probs=22.0
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCCch
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKNDDF 39 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~~~ 39 (136)
.+..+.+...+.+||+|++.|+.....+
T Consensus 207 ~~~~ll~~aLR~~PD~IivGEiR~~Ea~ 234 (319)
T PRK13894 207 NMTALLKTTLRMRPDRILVGEVRGPEAL 234 (319)
T ss_pred CHHHHHHHHhcCCCCEEEEeccCCHHHH
Confidence 4566677777899999999999976433
No 71
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=34.45 E-value=51 Score=22.73 Aligned_cols=43 Identities=19% Similarity=0.073 Sum_probs=26.6
Q ss_pred hHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCce
Q psy14558 9 RDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPYA 53 (136)
Q Consensus 9 ~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y~ 53 (136)
.....+.+++.|.+.+||||.+==-.+.+ +.+.....+.++..
T Consensus 86 ~~~~~~~i~~~I~~~~pdiv~vglG~PkQ--E~~~~~~~~~l~~~ 128 (172)
T PF03808_consen 86 DEEEEEAIINRINASGPDIVFVGLGAPKQ--ERWIARHRQRLPAG 128 (172)
T ss_pred ChhhHHHHHHHHHHcCCCEEEEECCCCHH--HHHHHHHHHHCCCC
Confidence 34567789999999999999964333322 22333444445553
No 72
>cd05777 DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase delta, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase delta. DNA polymerase delta is a family-B DNA polymerase with a catalytic subunit that contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (alpha and epsilon are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand. It is also implicated in mismatch repair (MMR) and base excision repair (BER). The catalytic subunit displays both polymerase and 3'-5' exonuclease activities. The exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic
Probab=34.24 E-value=58 Score=23.54 Aligned_cols=39 Identities=10% Similarity=0.008 Sum_probs=27.7
Q ss_pred cChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHH
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVV 46 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l 46 (136)
.+.++=+.++.+.|++.+||||+==++... ++..+.+..
T Consensus 69 ~~E~eLL~~f~~~i~~~DPDii~GyN~~~F-Dl~yL~~R~ 107 (230)
T cd05777 69 ETEEELLLAWRDFVQEVDPDIITGYNICNF-DLPYLLERA 107 (230)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEEecCCCC-CHHHHHHHH
Confidence 355667889999999999999986665554 344454433
No 73
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.
Probab=33.59 E-value=50 Score=20.81 Aligned_cols=24 Identities=17% Similarity=0.127 Sum_probs=18.8
Q ss_pred HHHHHHHHhcCCCcEEEEeeecCC
Q psy14558 13 IRAIAAELACNKYDIVCLQEVWKN 36 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQEv~~~ 36 (136)
.+.+.+.+.+.+||+|++.=....
T Consensus 39 ~~~~~~~i~~~~pdiV~iS~~~~~ 62 (125)
T cd02065 39 PEEIVEAAKEEDADVVGLSALSTT 62 (125)
T ss_pred HHHHHHHHHHcCCCEEEEecchHh
Confidence 456677888899999999866654
No 74
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=33.44 E-value=33 Score=24.69 Aligned_cols=20 Identities=20% Similarity=0.155 Sum_probs=15.2
Q ss_pred HHHHHHHHhcCCCcEEEEee
Q psy14558 13 IRAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQE 32 (136)
-+.+.+.+++.+||++++=-
T Consensus 67 ~~~~~~~l~~~~~Dliv~ag 86 (207)
T PLN02331 67 PDELVDALRGAGVDFVLLAG 86 (207)
T ss_pred hHHHHHHHHhcCCCEEEEeC
Confidence 45677888888999988643
No 75
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=33.16 E-value=47 Score=23.52 Aligned_cols=26 Identities=8% Similarity=0.059 Sum_probs=21.0
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCC
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
-.+.+++.+.+.+||+|++.=....+
T Consensus 123 p~e~~v~~~~~~~pd~v~lS~~~~~~ 148 (197)
T TIGR02370 123 PIDTVVEKVKKEKPLMLTGSALMTTT 148 (197)
T ss_pred CHHHHHHHHHHcCCCEEEEccccccC
Confidence 35788999999999999998765543
No 76
>cd07583 nitrilase_5 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=33.15 E-value=48 Score=23.91 Aligned_cols=28 Identities=25% Similarity=0.571 Sum_probs=18.7
Q ss_pred ChHHHHHHHHHHH---hcCCCcEEEEeeecC
Q psy14558 8 DRDIRIRAIAAEL---ACNKYDIVCLQEVWK 35 (136)
Q Consensus 8 ~~~~r~~~i~~~i---~~~~pDIi~LQEv~~ 35 (136)
+...+.+.+.+.+ .+.++|+|+|.|...
T Consensus 13 d~~~n~~~i~~~i~~A~~~g~dlvv~PE~~l 43 (253)
T cd07583 13 DPEANIERVESLIEEAAAAGADLIVLPEMWN 43 (253)
T ss_pred CHHHHHHHHHHHHHHHHHCCCCEEEcCCccC
Confidence 4445555555544 467899999999853
No 77
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=32.95 E-value=59 Score=22.49 Aligned_cols=26 Identities=12% Similarity=0.104 Sum_probs=20.4
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCC
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
....+.+...+.+||+|++.|+....
T Consensus 88 ~~~~~l~~~lR~~pd~i~igEir~~e 113 (186)
T cd01130 88 TMADLLRSALRMRPDRIIVGEVRGGE 113 (186)
T ss_pred CHHHHHHHHhccCCCEEEEEccCcHH
Confidence 45556667777899999999998754
No 78
>PF00795 CN_hydrolase: Carbon-nitrogen hydrolase The Prosite family is specific to nitrilases The Prosite family is specific to UPF0012; InterPro: IPR003010 This family contains nitrilases that break carbon-nitrogen bonds and appear to be involved in the reduction of organic nitrogen compounds and ammonia production []. They all have distinct substrate specificity and include cyanide hydratases, aliphatic amidases, beta-alanine synthase, and a few other proteins with unknown molecular function. Sequence conservation over the entire length, as well as the similarity in the reactions catalyzed by the known enzymes in this family, points to a common catalytic mechanism. They have an invariant cysteine that is part of the catalytic site in nitrilases. Another highly conserved motif includes an invariant glutamic acid that might also be involved in catalysis [].; GO: 0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, 0006807 nitrogen compound metabolic process; PDB: 2E2L_D 2E2K_D 2DYV_A 2DYU_B 3KLC_B 3IW3_A 3KI8_A 3IVZ_A 1EMS_A 2GGK_B ....
Probab=32.91 E-value=46 Score=22.59 Aligned_cols=29 Identities=21% Similarity=0.209 Sum_probs=19.0
Q ss_pred ChHHHHHHHHHH---HhcCCCcEEEEeeecCC
Q psy14558 8 DRDIRIRAIAAE---LACNKYDIVCLQEVWKN 36 (136)
Q Consensus 8 ~~~~r~~~i~~~---i~~~~pDIi~LQEv~~~ 36 (136)
+...+.+.+.+. ..+.++|+|++-|+...
T Consensus 15 ~~~~n~~~i~~~~~~a~~~~~dlvv~PE~~~~ 46 (186)
T PF00795_consen 15 DPEENLKKILSLIEEAARQGADLVVFPEMALP 46 (186)
T ss_dssp HHHHHHHHHHHHHHHHHHTTESEEEEETTTTT
T ss_pred CHHHHHHHHHHHHHHHHHCCCCEEEcCcchhc
Confidence 334444444444 45569999999998654
No 79
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=32.88 E-value=58 Score=24.72 Aligned_cols=26 Identities=12% Similarity=0.093 Sum_probs=21.0
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCC
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
.+..+.+...+.+||+|++.|+....
T Consensus 192 ~~~~~l~~aLR~~pD~iivGEiR~~e 217 (299)
T TIGR02782 192 SMTRLLKATLRLRPDRIIVGEVRGGE 217 (299)
T ss_pred CHHHHHHHHhcCCCCEEEEeccCCHH
Confidence 45566777778999999999999764
No 80
>cd05778 DNA_polB_zeta_exo inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase zeta, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase zeta. DNA polymerase zeta is a family-B DNA polymerase which is distantly related to DNA polymerase delta. It plays a major role in translesion replication and the production of either spontaneous or induced mutations. In addition, DNA polymerase zeta also appears to be involved in somatic hypermutability in B lymphocytes, an important element for the production of high affinity antibodies in response to an antigen. The catalytic subunit contains both polymerase and 3'-5' exonuclease domains, but only exhibits polymerase activity. The DnaQ-like 3'-5' exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, without the four conserved acidic residues that are crucial for metal binding and catalysis.
Probab=32.79 E-value=59 Score=23.65 Aligned_cols=38 Identities=8% Similarity=0.012 Sum_probs=28.3
Q ss_pred cChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHH
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSV 45 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~ 45 (136)
.+.++=+.++.+.|+..+||||.==++... ++..|.+.
T Consensus 79 ~~E~~LL~~f~~~i~~~DPDii~GyNi~~f-d~~YL~~R 116 (231)
T cd05778 79 ESELELFEELIDLVRRFDPDILSGYEIQRS-SWGYLIER 116 (231)
T ss_pred CCHHHHHHHHHHHHHHhCCCEEEEeccccC-cHHHHHHH
Confidence 355666899999999999999997777765 34445443
No 81
>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=31.78 E-value=30 Score=22.96 Aligned_cols=25 Identities=12% Similarity=0.065 Sum_probs=20.0
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCC
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKN 36 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~ 36 (136)
-.+.+++...+.++|+|++.=....
T Consensus 41 s~e~~v~aa~e~~adii~iSsl~~~ 65 (132)
T TIGR00640 41 TPEEIARQAVEADVHVVGVSSLAGG 65 (132)
T ss_pred CHHHHHHHHHHcCCCEEEEcCchhh
Confidence 3567888888999999999877654
No 82
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=31.69 E-value=63 Score=24.99 Aligned_cols=28 Identities=11% Similarity=0.133 Sum_probs=22.8
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCCch
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKNDDF 39 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~~~ 39 (136)
.+..+.+...+.+||+|++.|+.....+
T Consensus 223 ~~~~ll~~~LR~~PD~IivGEiR~~ea~ 250 (332)
T PRK13900 223 TTQDLIEACLRLRPDRIIVGELRGAEAF 250 (332)
T ss_pred cHHHHHHHHhccCCCeEEEEecCCHHHH
Confidence 4667788888999999999999976433
No 83
>cd07569 DCase N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases). DCase hydrolyses N-carbamyl-D-amino acids to produce D-amino acids. It is an important biocatalyst in the pharmaceutical industry, producing useful D-amino acids for example in the preparation of beta-lactam antibiotics. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 6. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. Agrobacterium radiobacter DCase forms a tetramer (dimer of dimers). Some DCases may form trimers.
Probab=31.67 E-value=53 Score=24.63 Aligned_cols=24 Identities=25% Similarity=0.292 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhcCCCcEEEEeeec
Q psy14558 11 IRIRAIAAELACNKYDIVCLQEVW 34 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~LQEv~ 34 (136)
+++..+++..++.++|+|+|-|+.
T Consensus 25 ~~i~~~i~~A~~~gadlivfPE~~ 48 (302)
T cd07569 25 ARLIALLEEAASRGAQLVVFPELA 48 (302)
T ss_pred HHHHHHHHHHHhCCCcEEEccccc
Confidence 344444555556789999999975
No 84
>TIGR03381 agmatine_aguB N-carbamoylputrescine amidase. Members of this family are N-carbamoylputrescine amidase (3.5.1.53). Bacterial genes are designated AguB. The AguAB pathway replaces SpeB for conversion of agmatine to putrescine in two steps rather than one.
Probab=31.62 E-value=54 Score=24.00 Aligned_cols=28 Identities=18% Similarity=0.266 Sum_probs=19.7
Q ss_pred cChHHHHHHHHHHHh---cCCCcEEEEeeec
Q psy14558 7 KDRDIRIRAIAAELA---CNKYDIVCLQEVW 34 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~---~~~pDIi~LQEv~ 34 (136)
.+.+.+++.+.+.|+ +.++|+|+|-|+.
T Consensus 12 ~d~~~Nl~~~~~~i~~A~~~gadlivfPE~~ 42 (279)
T TIGR03381 12 DDVETNIARAERLVREAAARGAQIILLPELF 42 (279)
T ss_pred CCHHHHHHHHHHHHHHHHHCCCCEEEccccc
Confidence 355556665555555 5789999999974
No 85
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=31.19 E-value=62 Score=22.31 Aligned_cols=19 Identities=16% Similarity=0.219 Sum_probs=15.7
Q ss_pred HHHHHHHHhcCCCcEEEEe
Q psy14558 13 IRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQ 31 (136)
...+++.|.+.+||||.+=
T Consensus 88 ~~~i~~~I~~~~pdiv~vg 106 (171)
T cd06533 88 EEEIIERINASGADILFVG 106 (171)
T ss_pred HHHHHHHHHHcCCCEEEEE
Confidence 3348999999999999963
No 86
>cd07586 nitrilase_8 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=30.97 E-value=56 Score=23.79 Aligned_cols=28 Identities=14% Similarity=0.057 Sum_probs=18.2
Q ss_pred ChHHHHHHHHHH---HhcCCCcEEEEeeecC
Q psy14558 8 DRDIRIRAIAAE---LACNKYDIVCLQEVWK 35 (136)
Q Consensus 8 ~~~~r~~~i~~~---i~~~~pDIi~LQEv~~ 35 (136)
+...+++.+.+. .++.++|+|+|-|...
T Consensus 13 ~~~~n~~~~~~~i~~A~~~ga~liv~PE~~~ 43 (269)
T cd07586 13 DVEENLEKHLEIIETARERGADLVVFPELSL 43 (269)
T ss_pred cHHHHHHHHHHHHHHHHHcCCCEEEecchhc
Confidence 444444444444 4457899999999753
No 87
>KOG0565|consensus
Probab=30.72 E-value=1e+02 Score=20.35 Aligned_cols=29 Identities=10% Similarity=0.048 Sum_probs=24.2
Q ss_pred CcceEEEEEEECCEEEEEEEecCCCCCCC
Q psy14558 98 GKGVGLCQVLVNGFRLNVYTTHVSISWVI 126 (136)
Q Consensus 98 ~r~~~~~~v~~~g~~i~v~~tHl~~~~~~ 126 (136)
+++.+.....+.+..+.+++.|+.+....
T Consensus 46 nkg~v~is~~~~~~~~~~v~~hl~~~~~~ 74 (145)
T KOG0565|consen 46 NKGGVAISFVLSQTSFCFVISHLTSGVHK 74 (145)
T ss_pred CCCeEEEEEEEcCceEEEEEecccccchh
Confidence 47888888888999999999999985543
No 88
>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=30.20 E-value=1.2e+02 Score=23.44 Aligned_cols=32 Identities=25% Similarity=0.197 Sum_probs=24.5
Q ss_pred cccChHHHHHHHHHHHhcCCCcEEEEeeecCCCc
Q psy14558 5 VSKDRDIRIRAIAAELACNKYDIVCLQEVWKNDD 38 (136)
Q Consensus 5 ~s~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~ 38 (136)
.|...+.|.+-.+..+ ++|+|++|-|.+-.-+
T Consensus 157 LSlGqRmraeLaaaLL--h~p~VLfLDEpTvgLD 188 (325)
T COG4586 157 LSLGQRMRAELAAALL--HPPKVLFLDEPTVGLD 188 (325)
T ss_pred ccchHHHHHHHHHHhc--CCCcEEEecCCccCcc
Confidence 3556677777777776 8899999999987643
No 89
>cd05784 DNA_polB_II_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases. The 3'-5' exonuclease domain of Escherichia coli DNA polymerase II (Pol II) and similar bacterial proteins. Pol II is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain has a fundamental role in the proofreading activity of polII. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Pol II is involved in a variety of cellular activities, such as the repair of DNA damaged
Probab=30.05 E-value=75 Score=22.49 Aligned_cols=37 Identities=24% Similarity=0.180 Sum_probs=25.0
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHH
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSV 45 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~ 45 (136)
+.++=+.++.+.|.+.+||||+==..... +...+.+.
T Consensus 50 ~E~~lL~~f~~~i~~~dPDvi~g~N~~~F-D~~yl~~R 86 (193)
T cd05784 50 DEKSLLLALIAWFAQYDPDIIIGWNVINF-DLRLLQRR 86 (193)
T ss_pred CHHHHHHHHHHHHHhhCCCEEEECCCcCc-CHHHHHHH
Confidence 45556889999999999999985444433 23344433
No 90
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=29.87 E-value=64 Score=26.06 Aligned_cols=32 Identities=6% Similarity=0.022 Sum_probs=24.5
Q ss_pred ccccChHHHHHHHHHHHhcCCCcEEEEeeecC
Q psy14558 4 KVSKDRDIRIRAIAAELACNKYDIVCLQEVWK 35 (136)
Q Consensus 4 ~~s~~~~~r~~~i~~~i~~~~pDIi~LQEv~~ 35 (136)
|...|.++-.+.|.+.+++.+|||+.-==.+.
T Consensus 56 Yf~en~eea~~~i~~mv~k~~pDv~iaGPaFN 87 (431)
T TIGR01917 56 FFGENLEEAKAKVLEMIKGANPDIFIAGPAFN 87 (431)
T ss_pred hhhhCHHHHHHHHHHHHHhcCCCEEEEcCccC
Confidence 45567777788999999999999997444443
No 91
>TIGR00639 PurN phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent. In phylogenetic analyses, the member from Saccharomyces cerevisiae shows a long branch length but membership in the family, while the formyltetrahydrofolate deformylases form a closely related outgroup.
Probab=29.84 E-value=72 Score=22.56 Aligned_cols=20 Identities=35% Similarity=0.434 Sum_probs=13.9
Q ss_pred HHHHHHHHhcCCCcEEEEee
Q psy14558 13 IRAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQE 32 (136)
-..+.+.+++.+||++++=-
T Consensus 68 ~~~~~~~l~~~~~D~iv~~~ 87 (190)
T TIGR00639 68 DQAIIEELRAHEVDLVVLAG 87 (190)
T ss_pred hHHHHHHHHhcCCCEEEEeC
Confidence 34667778888888877543
No 92
>cd07575 Xc-1258_like Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases). Uncharacterized subgroup belonging to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup either represents a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. XC1258 is a homotetramer.
Probab=29.69 E-value=62 Score=23.44 Aligned_cols=27 Identities=19% Similarity=0.421 Sum_probs=18.3
Q ss_pred ChHHHHHHHHHHHh---cCCCcEEEEeeecC
Q psy14558 8 DRDIRIRAIAAELA---CNKYDIVCLQEVWK 35 (136)
Q Consensus 8 ~~~~r~~~i~~~i~---~~~pDIi~LQEv~~ 35 (136)
+...+++.+.+.|+ + ++|+|+|.|...
T Consensus 14 d~~~N~~~~~~~i~~a~~-gadlvvfPE~~l 43 (252)
T cd07575 14 DPEANLAHFEEKIEQLKE-KTDLIVLPEMFT 43 (252)
T ss_pred CHHHHHHHHHHHHHHhhc-CCCEEEeCCcCc
Confidence 44555555555554 4 899999999753
No 93
>PRK00039 ruvC Holliday junction resolvase; Reviewed
Probab=29.49 E-value=57 Score=22.56 Aligned_cols=24 Identities=21% Similarity=0.277 Sum_probs=18.8
Q ss_pred HHHHHHHhcCCCcEEEEeeecCCC
Q psy14558 14 RAIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 14 ~~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
+.+.++|.+++||.+++-|.+-..
T Consensus 51 ~~l~~~i~~~~Pd~vaiE~~f~~~ 74 (164)
T PRK00039 51 DGLSELIDEYQPDEVAIEEVFFNK 74 (164)
T ss_pred HHHHHHHHHhCCCEEEEehhhhcc
Confidence 455667778999999999987653
No 94
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=29.19 E-value=61 Score=22.91 Aligned_cols=38 Identities=16% Similarity=0.130 Sum_probs=25.4
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCCc--hHHHHHHHHhc
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKNDD--FELIKSVVFEA 49 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~~--~~~l~~~l~~~ 49 (136)
-.+.+.+.+.+.+||+|+|.=....+. ...+.+.+++.
T Consensus 121 p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i~~lr~~ 160 (201)
T cd02070 121 PPEEFVEAVKEHKPDILGLSALMTTTMGGMKEVIEALKEA 160 (201)
T ss_pred CHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHC
Confidence 457888999999999999987554431 12333455544
No 95
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=29.15 E-value=67 Score=25.96 Aligned_cols=32 Identities=9% Similarity=0.090 Sum_probs=24.4
Q ss_pred ccccChHHHHHHHHHHHhcCCCcEEEEeeecC
Q psy14558 4 KVSKDRDIRIRAIAAELACNKYDIVCLQEVWK 35 (136)
Q Consensus 4 ~~s~~~~~r~~~i~~~i~~~~pDIi~LQEv~~ 35 (136)
|...|..+-.+.|.+.+++.+|||+.-==.+.
T Consensus 56 Yf~en~eea~~~i~~mv~k~~pDv~iaGPaFN 87 (431)
T TIGR01918 56 FFGENLEEAVARVLEMLKDKEPDIFIAGPAFN 87 (431)
T ss_pred hhhhCHHHHHHHHHHHHHhcCCCEEEEcCccC
Confidence 45567777788999999999999997444443
No 96
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=29.13 E-value=60 Score=23.39 Aligned_cols=26 Identities=23% Similarity=0.203 Sum_probs=20.8
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCC
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
-.+.+.+.+.+.+||+|+|.=+...+
T Consensus 127 p~e~~v~~~~~~~~~~V~lS~~~~~~ 152 (213)
T cd02069 127 PIEKILEAAKEHKADIIGLSGLLVPS 152 (213)
T ss_pred CHHHHHHHHHHcCCCEEEEccchhcc
Confidence 46788999999999999997665543
No 97
>TIGR00261 traB pheromone shutdown-related protein TraB. traB is a plasmid encoded gene that functions in the shutdown of the peptide sex pheromone cPD1 which is produced by the plasmid free recipient cell prior to conjugative transfer in Enterococcus faecalis. Once the recipient acquires the plasmid, production of cPD1 is shut down. The gene product may play another role in the other species in the family.
Probab=28.88 E-value=65 Score=25.58 Aligned_cols=25 Identities=16% Similarity=0.120 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHhcCCCcEEEEeeecC
Q psy14558 10 DIRIRAIAAELACNKYDIVCLQEVWK 35 (136)
Q Consensus 10 ~~r~~~i~~~i~~~~pDIi~LQEv~~ 35 (136)
.+-.+.+-+.|.+.+||+||+ |.+.
T Consensus 16 ~~S~~eV~~~I~~~~PD~VaV-ELd~ 40 (380)
T TIGR00261 16 KKSSEEVANLIEILKPDYIAV-ELDE 40 (380)
T ss_pred HHHHHHHHHHHHHhCCCEEEE-eCCH
Confidence 455677889999999999996 5554
No 98
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=28.09 E-value=79 Score=22.11 Aligned_cols=20 Identities=25% Similarity=0.187 Sum_probs=16.8
Q ss_pred HHHHHHHHHHhcCCCcEEEE
Q psy14558 11 IRIRAIAAELACNKYDIVCL 30 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~L 30 (136)
+..+.+++.|.+.+||||.+
T Consensus 87 ~~~~~i~~~I~~s~~dil~V 106 (177)
T TIGR00696 87 EERKAALAKIARSGAGIVFV 106 (177)
T ss_pred HHHHHHHHHHHHcCCCEEEE
Confidence 34567999999999999986
No 99
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=27.97 E-value=70 Score=22.79 Aligned_cols=17 Identities=29% Similarity=0.409 Sum_probs=13.5
Q ss_pred HHHHHHHhcCCCcEEEE
Q psy14558 14 RAIAAELACNKYDIVCL 30 (136)
Q Consensus 14 ~~i~~~i~~~~pDIi~L 30 (136)
..+.+.+++.+||++++
T Consensus 70 ~~~~~~l~~~~~D~iv~ 86 (200)
T PRK05647 70 AALVEALDAYQPDLVVL 86 (200)
T ss_pred HHHHHHHHHhCcCEEEh
Confidence 46678888888998876
No 100
>cd05781 DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of Sulfurisphaera ohwakuensis DNA polymerase B3 and similar archaeal family-B DNA polymerases. The 3'-5' exonuclease domain of archaeal proteins with similarity to Sulfurisphaera ohwakuensis DNA polymerase B3. B3 is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. B3 exhibits both polymerase and 3'-5' exonuclease activities. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family B polymerases also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Archaeal proteins that are involved in DNA replicatio
Probab=27.83 E-value=89 Score=21.91 Aligned_cols=23 Identities=22% Similarity=0.153 Sum_probs=19.4
Q ss_pred cChHHHHHHHHHHHhcCCCcEEE
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVC 29 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~ 29 (136)
.+.++=+.++.++|++.+||||.
T Consensus 46 ~~E~~lL~~F~~~i~~~dPd~i~ 68 (188)
T cd05781 46 LDDRKIIREFVKYVKEYDPDIIV 68 (188)
T ss_pred CCHHHHHHHHHHHHHHcCCCEEE
Confidence 34566789999999999999886
No 101
>PF09370 TIM-br_sig_trns: TIM-barrel signal transduction protein; InterPro: IPR009215 Members of this family are predicted to have a TIM barrel fold, based on PSI-BLAST analysis (iteration 4) and on SCOP prediction (using SMART). Interestingly, this novel domain also exists as an N-terminal domain of sigma54-dependent transcriptional activators (enhancer-binding proteins). Because sigma54 dependent activators typically have a three-domain structure: the variable N-terminal regulatory (activation) domain involved in signal recognition/receiving, the central AAA-type ATPase domain, and the DNA-binding domain (see PIRSF003187 from PIRSF, PIRSF005263 from PIRSF, PIRSF003184 from PIRSF, PIRSF005263 from PIRSF, IPR014443 from INTERPRO for details), the proteins of the current entry may be predicted to play a role in signal recognition/receiving and signal transduction.; PDB: 2P10_C.
Probab=27.68 E-value=1.7e+02 Score=22.13 Aligned_cols=38 Identities=21% Similarity=0.044 Sum_probs=25.8
Q ss_pred hHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHH
Q psy14558 9 RDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVV 46 (136)
Q Consensus 9 ~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l 46 (136)
...+.++|.+..++.+||||+|.---+-..-++....+
T Consensus 197 a~~~~~~i~~aa~~v~~dii~l~hGGPI~~p~D~~~~l 234 (268)
T PF09370_consen 197 AAERIQEIFDAARAVNPDIIVLCHGGPIATPEDAQYVL 234 (268)
T ss_dssp HHHHHHHHHHHHHCC-TT-EEEEECTTB-SHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHH
Confidence 45678899999999999999999977654444443333
No 102
>cd05785 DNA_polB_like2_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. A subfamily of the 3'-5' exonuclease domain of family-B DNA polymerases. This subfamily is composed of uncharacterized bacterial family-B DNA polymerases. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are involved in metal binding and catalysis. The exonuclease domain of family-B DNA polymerases has a fundamental role in proofreading activity. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Family-B DNA polymerases are predominantly involved in DNA replication and DNA repair.
Probab=27.22 E-value=83 Score=22.50 Aligned_cols=27 Identities=7% Similarity=0.134 Sum_probs=21.2
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeec
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVW 34 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~ 34 (136)
+.++=+.++.+.|.+.+||||+==.+.
T Consensus 57 ~E~~lL~~f~~~i~~~dPdii~g~N~~ 83 (207)
T cd05785 57 AEKELLEELVAIIRERDPDVIEGHNIF 83 (207)
T ss_pred CHHHHHHHHHHHHHHhCCCEEeccCCc
Confidence 456668899999999999999744443
No 103
>cd07567 biotinidase_like biotinidase and vanins (class 4 nitrilases). These secondary amidases participate in vitamin recycling. Biotinidase (EC 3.5.1.12) has both a hydrolase and a transferase activity. It hydrolyzes free biocytin or small biotinyl-peptides produced during the proteolytic degradation of biotin-dependent carboxylases, to release free biotin (vitamin H), and it can transfer biotin to acceptor molecules such as histones. Biotinidase deficiency in humans is an autosomal recessive disorder characterized by neurological and cutaneous symptoms. This subgroup includes the three human vanins, vanin1-3. Vanins are ectoenzymes, Vanin-1, and -2 are membrane associated, vanin-3 is secreted. They are pantotheinases (EC 3.5.1.92, pantetheine hydrolase), which convert pantetheine, to pantothenic acid (vitamin B5) and cysteamine (2-aminoethanethiol, a potent anti-oxidant). They are potential targets for therapeutic intervention in inflammatory disorders. Vanin-1 deficient mice lacking
Probab=26.98 E-value=72 Score=24.26 Aligned_cols=26 Identities=12% Similarity=0.059 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHh---cCCCcEEEEeeecC
Q psy14558 10 DIRIRAIAAELA---CNKYDIVCLQEVWK 35 (136)
Q Consensus 10 ~~r~~~i~~~i~---~~~pDIi~LQEv~~ 35 (136)
..+++.+.+.|+ +.++|||+|-|+..
T Consensus 23 ~~Nl~~i~~~i~~A~~~gadLIVfPE~~l 51 (299)
T cd07567 23 EKNLDIYEEIIKSAAKQGADIIVFPEDGL 51 (299)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEcccccc
Confidence 556666666664 46899999999754
No 104
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=26.96 E-value=1.2e+02 Score=19.11 Aligned_cols=19 Identities=16% Similarity=0.233 Sum_probs=9.6
Q ss_pred HHHHHHHHhcCCCcEEEEe
Q psy14558 13 IRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQ 31 (136)
.+.|.+.++..++|+|++-
T Consensus 46 ~eei~~~~~~~~~d~vvfd 64 (95)
T PF13167_consen 46 VEEIKELIEELDADLVVFD 64 (95)
T ss_pred HHHHHHHHhhcCCCEEEEC
Confidence 4444455555555555553
No 105
>cd07580 nitrilase_2 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=26.61 E-value=71 Score=23.32 Aligned_cols=29 Identities=17% Similarity=0.140 Sum_probs=19.5
Q ss_pred cChHHHHHHHHHHHh---cCCCcEEEEeeecC
Q psy14558 7 KDRDIRIRAIAAELA---CNKYDIVCLQEVWK 35 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~---~~~pDIi~LQEv~~ 35 (136)
.+...+++.+.+.++ +.++|+|+|-|...
T Consensus 12 ~~~~~n~~~~~~~i~~a~~~g~dlvvfPE~~l 43 (268)
T cd07580 12 GDLDANLARSIELIREAADAGANLVVLPELAN 43 (268)
T ss_pred CcHHHHHHHHHHHHHHHHHcCCCEEEcCCccc
Confidence 344555555555554 46799999999753
No 106
>cd07584 nitrilase_6 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=26.60 E-value=1e+02 Score=22.20 Aligned_cols=29 Identities=17% Similarity=0.318 Sum_probs=20.5
Q ss_pred cChHHHHHHHHHHHh---cCCCcEEEEeeecC
Q psy14558 7 KDRDIRIRAIAAELA---CNKYDIVCLQEVWK 35 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~---~~~pDIi~LQEv~~ 35 (136)
.+.+.+++.+.+.++ +.++|+|+|-|..-
T Consensus 12 ~d~~~n~~~~~~~i~~a~~~ga~liv~PE~~l 43 (258)
T cd07584 12 GDVKANLKKAAELCKEAAAEGADLICFPELAT 43 (258)
T ss_pred CCHHHHHHHHHHHHHHHHHcCCCEEEcccccc
Confidence 455666666666555 46899999999753
No 107
>cd05160 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. The 3'-5' exonuclease domain of family-B DNA polymerases. This domain has a fundamental role in reducing polymerase errors and is involved in proofreading activity. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The exonuclease domain of family B polymerase also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members include Escherichia coli DNA polymerase II, some eubacterial phage DNA polymerases, nuclear replicative
Probab=26.48 E-value=94 Score=21.56 Aligned_cols=39 Identities=10% Similarity=0.014 Sum_probs=28.6
Q ss_pred cChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHH
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVV 46 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l 46 (136)
.+.++=+.++.+.+++.+|||++=-.+... +...+.+..
T Consensus 61 ~~E~~lL~~f~~~i~~~dpdiivg~N~~~F-D~~~L~~R~ 99 (199)
T cd05160 61 ADEKELLKRFFDIIREYDPDILTGYNIDDF-DLPYLLKRA 99 (199)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEEeccCCC-cHHHHHHHH
Confidence 355666889999999999999997777654 344454443
No 108
>PF02075 RuvC: Crossover junction endodeoxyribonuclease RuvC; InterPro: IPR002176 The Escherichia coli ruvC gene is involved in DNA repair and in the late step of RecE and RecF pathway recombination []. RuvC protein (3.1.22.4 from EC) cleaves cruciform junctions, which are formed by the extrusion of inverted repeat sequences from a super-coiled plasmid and which are structurally analogous to Holliday junctions, by introducing nicks into strands with the same polarity. The nicks leave a 5'terminal phosphate and a 3'terminal hydroxyl group which are ligated by E. coli or Bacteriophage T4 DNA ligases. Analysis of the cleavage sites suggests that DNA topology rather than a particular sequence determines the cleavage site. RuvC protein also cleaves Holliday junctions that are formed between gapped circular and linear duplex DNA by the function of RecA protein. The active form of RuvC protein is a dimer. This is mechanistically suited for an endonuclease involved in swapping DNA strands at the crossover junctions. It is inferred that RuvC protein is an endonuclease that resolves Holliday structures in vivo []. RucC is a small protein of about 20 kD. It requires and binds a magnesium ion. The structure of E. coli ruvC is a 3-layer alpha-beta sandwich containing a 5-stranded beta-sheet sandwiched between 5 alpha-helices [].; GO: 0004520 endodeoxyribonuclease activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJR_A.
Probab=26.17 E-value=59 Score=21.97 Aligned_cols=29 Identities=14% Similarity=0.220 Sum_probs=16.9
Q ss_pred hHHHHH----HHHHHHhcCCCcEEEEeeecCCC
Q psy14558 9 RDIRIR----AIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 9 ~~~r~~----~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
..+|+. .+.++|++++||.+++-+++...
T Consensus 39 ~~~Rl~~I~~~l~~li~~~~P~~vaiE~~f~~~ 71 (149)
T PF02075_consen 39 LPERLKEIYEELEELIEEYNPDEVAIEEIFFGK 71 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHH--SEEEEEE-S---
T ss_pred HHHHHHHHHHHHHHHHHhhCCCEEEeehhhhcc
Confidence 345544 45667788999999999987653
No 109
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=26.12 E-value=95 Score=24.03 Aligned_cols=28 Identities=11% Similarity=0.093 Sum_probs=21.3
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCCch
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKNDDF 39 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~~~ 39 (136)
.+..+.+...+.+||+|++-|+.....+
T Consensus 203 ~~~~lv~~aLR~~PD~IivGEiRg~ea~ 230 (323)
T PRK13833 203 DMARLLKSTMRLRPDRIIVGEVRDGAAL 230 (323)
T ss_pred CHHHHHHHHhCCCCCEEEEeecCCHHHH
Confidence 3556666667899999999999876433
No 110
>PF06838 Met_gamma_lyase: Methionine gamma-lyase ; InterPro: IPR009651 This family represents the aluminium resistance protein, which confers resistance to aluminium in bacteria [].; PDB: 3JZL_A 3I16_C 3GWP_A 3FD0_B 3HT4_F.
Probab=25.91 E-value=58 Score=25.97 Aligned_cols=23 Identities=13% Similarity=0.086 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHhcCCCcEEEEee
Q psy14558 10 DIRIRAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 10 ~~r~~~i~~~i~~~~pDIi~LQE 32 (136)
-+.++.+++.+++.+||+|||-.
T Consensus 174 i~~I~~~i~~vk~~~p~~iifVD 196 (403)
T PF06838_consen 174 IEEIKEIIKFVKEINPDVIIFVD 196 (403)
T ss_dssp HHHHHHHHHHHHHH-TTSEEEEE
T ss_pred HHHHHHHHHHHHhhCCCeEEEEe
Confidence 45788899999999999999853
No 111
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=25.38 E-value=1.2e+02 Score=22.66 Aligned_cols=25 Identities=8% Similarity=0.243 Sum_probs=19.9
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCC
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKN 36 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~ 36 (136)
+.+.+...++..+|||+++-|....
T Consensus 182 k~~~~~~~i~~~~P~villDE~~~~ 206 (270)
T TIGR02858 182 KAEGMMMLIRSMSPDVIVVDEIGRE 206 (270)
T ss_pred HHHHHHHHHHhCCCCEEEEeCCCcH
Confidence 3556777888899999999997643
No 112
>PF03514 GRAS: GRAS domain family; InterPro: IPR005202 Sequence analysis of the products of the GRAS (GAI, RGA, SCR) gene family indicates that they share a variable N terminus and a highly conserved C terminus that contains five recognizable motifs []. Proteins in the GRAS family are transcription factors that seem to be involved in development and other processes. Mutation of the SCARECROW (SCR) gene results in a radial pattern defect, loss of a ground tissue layer, in the root. The PAT1 protein is involved in phytochrome A signal transduction []. GRAS proteins contain a conserved region of about 350 amino acids that can be divided in 5 motifs, found in the following order: leucine heptad repeat I, the VHIID motif, leucine heptad repeat II, the PFYRE motif and the SAW motif [, ]. Plant specific GRAS proteins have parallels in their motif structure to the animal Signal Transducers and Activators of Transcription (STAT) family of proteins [] which suggests also some parallels in their functions.
Probab=25.20 E-value=70 Score=25.15 Aligned_cols=26 Identities=15% Similarity=0.036 Sum_probs=21.4
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCC
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
..+.+.+.|++.+|+|+.+-|-+...
T Consensus 223 ~~~~~L~~ir~L~P~vvv~~E~ea~~ 248 (374)
T PF03514_consen 223 PRDAFLRVIRSLNPKVVVLVEQEADH 248 (374)
T ss_pred hHHHHHHHHHhcCCCEEEEEeecCCC
Confidence 45678899999999999998877643
No 113
>cd01715 ETF_alpha The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin.
Probab=25.09 E-value=1.1e+02 Score=20.74 Aligned_cols=41 Identities=12% Similarity=-0.085 Sum_probs=27.8
Q ss_pred hHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhcCCc
Q psy14558 9 RDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEALPY 52 (136)
Q Consensus 9 ~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~~~y 52 (136)
...-.+.+++.+++.+||+|++=...... ++...++..+..
T Consensus 68 ~~~~a~al~~~i~~~~p~~Vl~~~t~~g~---~la~rlAa~L~~ 108 (168)
T cd01715 68 AEPYAPALVALAKKEKPSHILAGATSFGK---DLAPRVAAKLDV 108 (168)
T ss_pred hHHHHHHHHHHHHhcCCCEEEECCCcccc---chHHHHHHHhCC
Confidence 35567788899999999999988776443 344455543444
No 114
>PRK11340 phosphodiesterase YaeI; Provisional
Probab=24.83 E-value=96 Score=22.98 Aligned_cols=24 Identities=21% Similarity=-0.074 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHhcCCCcEEEEeee
Q psy14558 10 DIRIRAIAAELACNKYDIVCLQEV 33 (136)
Q Consensus 10 ~~r~~~i~~~i~~~~pDIi~LQEv 33 (136)
..+++++++.+.+.+||+|++--=
T Consensus 66 ~~~l~~~v~~i~~~~pDlVli~GD 89 (271)
T PRK11340 66 LSLISDAIALGIEQKPDLILLGGD 89 (271)
T ss_pred HHHHHHHHHHHHhcCCCEEEEccC
Confidence 456788889999999999998763
No 115
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=24.78 E-value=1e+02 Score=24.03 Aligned_cols=31 Identities=10% Similarity=0.119 Sum_probs=23.2
Q ss_pred HHHHHHHHHhcCCCcEEEEeeecCCCchHHH
Q psy14558 12 RIRAIAAELACNKYDIVCLQEVWKNDDFELI 42 (136)
Q Consensus 12 r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l 42 (136)
..+.+.+...+.+||+|++-|+.....++.+
T Consensus 224 t~~~ll~~~LR~~pD~IivGEiR~~ea~~~l 254 (344)
T PRK13851 224 TAEHLLQASLRMRPDRILLGEMRDDAAWAYL 254 (344)
T ss_pred CHHHHHHHHhcCCCCeEEEEeeCcHHHHHHH
Confidence 4556777777889999999999976444433
No 116
>PRK13689 hypothetical protein; Provisional
Probab=24.75 E-value=83 Score=18.94 Aligned_cols=18 Identities=28% Similarity=0.364 Sum_probs=13.9
Q ss_pred CCccccChHHHHHHHHHH
Q psy14558 2 IPKVSKDRDIRIRAIAAE 19 (136)
Q Consensus 2 ~~~~s~~~~~r~~~i~~~ 19 (136)
||..|++..++.+.|...
T Consensus 1 Mpi~SKYsd~qvE~il~e 18 (75)
T PRK13689 1 MAQQSKYSDEQVEQLLAE 18 (75)
T ss_pred CCccccccHHHHHHHHHH
Confidence 789999988887765543
No 117
>COG4100 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]
Probab=24.62 E-value=1.3e+02 Score=23.53 Aligned_cols=24 Identities=4% Similarity=0.048 Sum_probs=20.1
Q ss_pred hHHHHHHHHHHHhcCCCcEEEEee
Q psy14558 9 RDIRIRAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 9 ~~~r~~~i~~~i~~~~pDIi~LQE 32 (136)
.-+.++.+++.+++.+|.+||+-.
T Consensus 184 ~I~eI~~~i~~vk~inpn~ivFVD 207 (416)
T COG4100 184 SIAEIEEMITFVKEINPNVIVFVD 207 (416)
T ss_pred cHHHHHHHHHHHHhcCCCEEEEEe
Confidence 446688899999999999999853
No 118
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=23.92 E-value=85 Score=20.27 Aligned_cols=18 Identities=11% Similarity=0.143 Sum_probs=15.0
Q ss_pred HHHHHHHHhcCCCcEEEE
Q psy14558 13 IRAIAAELACNKYDIVCL 30 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~L 30 (136)
.+.|.+...+.++|+|++
T Consensus 92 ~~~I~~~a~~~~~DLIV~ 109 (144)
T PRK15118 92 GQVLVDAIKKYDMDLVVC 109 (144)
T ss_pred HHHHHHHHHHhCCCEEEE
Confidence 467888888899999987
No 119
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=23.46 E-value=1.7e+02 Score=21.55 Aligned_cols=30 Identities=10% Similarity=0.179 Sum_probs=22.7
Q ss_pred CCCccccChHH---HHHHHHHHHh-cCCCcEEEE
Q psy14558 1 GIPKVSKDRDI---RIRAIAAELA-CNKYDIVCL 30 (136)
Q Consensus 1 ~~~~~s~~~~~---r~~~i~~~i~-~~~pDIi~L 30 (136)
.+||.++...+ ++..+++.+. +.++|.|++
T Consensus 34 ~~PYG~ks~~~i~~~~~~~~~~L~~~~g~d~ivI 67 (251)
T TIGR00067 34 RFPYGEKSPEFILEYVLELLTFLKERHNIKLLVV 67 (251)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHhCCCCEEEE
Confidence 37899876644 5666777888 888999875
No 120
>PF00551 Formyl_trans_N: Formyl transferase; InterPro: IPR002376 A number of formyl transferases belong to this group. Methionyl-tRNA formyltransferase transfers a formyl group onto the amino terminus of the acyl moiety of the methionyl aminoacyl-tRNA. The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and by impairing its binding to EFTU-GTP. Formyltetrahydrofolate dehydrogenase produces formate from formyl- tetrahydrofolate. This is the N-terminal domain of these enzymes and is found upstream of the C-terminal domain (IPR005793 from INTERPRO). The trifunctional glycinamide ribonucleotide synthetase-aminoimidazole ribonucleotide synthetase-glycinamide ribonucleotide transformylase catalyses the second, third and fifth steps in de novo purine biosynthesis. The glycinamide ribonucleotide transformylase belongs to this group.; GO: 0016742 hydroxymethyl-, formyl- and related transferase activity, 0009058 biosynthetic process; PDB: 3P9X_B 3OBI_A 3R8X_A 3KCQ_C 3RFO_D 3AV3_A 3N0V_D 3LOU_A 3O1L_A 4DS3_A ....
Probab=23.41 E-value=1.3e+02 Score=20.79 Aligned_cols=22 Identities=9% Similarity=0.070 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHhcCCCcEEEEe
Q psy14558 10 DIRIRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 10 ~~r~~~i~~~i~~~~pDIi~LQ 31 (136)
...-+.+.+.+++.+||++++=
T Consensus 65 ~~~~~~~~~~l~~~~~Dl~v~~ 86 (181)
T PF00551_consen 65 SENDEELLELLESLNPDLIVVA 86 (181)
T ss_dssp HHHHHHHHHHHHHTT-SEEEES
T ss_pred HhhhhHHHHHHHhhccceeehh
Confidence 3455678899999999998863
No 121
>PF13477 Glyco_trans_4_2: Glycosyl transferase 4-like
Probab=23.32 E-value=83 Score=20.03 Aligned_cols=23 Identities=9% Similarity=-0.016 Sum_probs=19.2
Q ss_pred HHHHHHHHhcCCCcEEEEeeecC
Q psy14558 13 IRAIAAELACNKYDIVCLQEVWK 35 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQEv~~ 35 (136)
...+.+.+++.+||||-.....+
T Consensus 63 ~~~l~k~ik~~~~DvIh~h~~~~ 85 (139)
T PF13477_consen 63 YFRLRKIIKKEKPDVIHCHTPSP 85 (139)
T ss_pred HHHHHHHhccCCCCEEEEecCCh
Confidence 45788899999999999887765
No 122
>cd05780 DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease domain of Pyrococcus kodakaraensis Kod1 and similar archaeal family-B DNA polymerases. The 3'-5' exonuclease domain of archaeal family-B DNA polymerases with similarity to Pyrococcus kodakaraensis Kod1, including polymerases from Desulfurococcus (D. Tok Pol) and Thermococcus gorgonarius (Tgo Pol). Kod1, D. Tok Pol, and Tgo Pol are thermostable enzymes that exhibit both polymerase and 3'-5' exonuclease activities. They are family-B DNA polymerases. Their amino termini harbor a DEDDy-type DnaQ-like 3'-5' exonuclease domain that contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family B polymerases contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members of this subfamily show
Probab=23.29 E-value=1.2e+02 Score=21.26 Aligned_cols=37 Identities=14% Similarity=0.088 Sum_probs=25.6
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHH
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSV 45 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~ 45 (136)
+.++=+.++.+.|.+.+||||+==..... +...+...
T Consensus 55 ~E~~lL~~F~~~i~~~dpdiivgyN~~~F-D~pyL~~R 91 (195)
T cd05780 55 TEKEMIKRFIEIVKEKDPDVIYTYNGDNF-DFPYLKKR 91 (195)
T ss_pred CHHHHHHHHHHHHHHcCCCEEEecCCCCC-cHHHHHHH
Confidence 44566889999999999998885555544 34444433
No 123
>COG0817 RuvC Holliday junction resolvasome, endonuclease subunit [DNA replication, recombination, and repair]
Probab=23.13 E-value=59 Score=22.61 Aligned_cols=25 Identities=20% Similarity=0.280 Sum_probs=20.4
Q ss_pred HHHHHHHHhcCCCcEEEEeeecCCC
Q psy14558 13 IRAIAAELACNKYDIVCLQEVWKND 37 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQEv~~~~ 37 (136)
.+.+.++|.+++||.+++.+++-..
T Consensus 46 ~~~l~~vl~~~~P~~~AIE~~F~~k 70 (160)
T COG0817 46 YDGLSEVLDEYQPDEVAIEQVFVNK 70 (160)
T ss_pred HHHHHHHHHHhCCCeeehhHHHHhc
Confidence 3456778899999999999998654
No 124
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=23.12 E-value=2.6e+02 Score=19.23 Aligned_cols=39 Identities=18% Similarity=0.166 Sum_probs=24.4
Q ss_pred HHHHHHHhcCCCcEEEEeeecCCCc-----hHHHHHHHHhcCCc
Q psy14558 14 RAIAAELACNKYDIVCLQEVWKNDD-----FELIKSVVFEALPY 52 (136)
Q Consensus 14 ~~i~~~i~~~~pDIi~LQEv~~~~~-----~~~l~~~l~~~~~y 52 (136)
+...+.+...++|+|+|=|+...-. .+.+.+.|.+..+.
T Consensus 85 ~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~ 128 (159)
T cd00561 85 AFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPED 128 (159)
T ss_pred HHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCC
Confidence 3344566667899999999976521 24455556554444
No 125
>cd07573 CPA N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases). CPA (EC 3.5.1.53, also known as N-carbamoylputrescine amidase and carbamoylputrescine hydrolase) converts N-carbamoylputrescine to putrescine, a step in polyamine biosynthesis in plants and bacteria. This subgroup includes Arabidopsis thaliana CPA, also known as nitrilase-like 1 (NLP1), and Pseudomonas aeruginosa AguB. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 11. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer; P. aeruginosa AugB is a homohexamer, Arabidopsis thaliana NLP1 is a homooctomer.
Probab=23.04 E-value=90 Score=22.91 Aligned_cols=27 Identities=26% Similarity=0.480 Sum_probs=18.2
Q ss_pred ChHHHHHHHHHHHh---cCCCcEEEEeeec
Q psy14558 8 DRDIRIRAIAAELA---CNKYDIVCLQEVW 34 (136)
Q Consensus 8 ~~~~r~~~i~~~i~---~~~pDIi~LQEv~ 34 (136)
+.+.+.+.+.+.++ +.++|+|+|-|+.
T Consensus 13 d~~~n~~~~~~~i~~A~~~gadlivfPE~~ 42 (284)
T cd07573 13 DPEANLAKAEELVREAAAQGAQIVCLQELF 42 (284)
T ss_pred CHHHHHHHHHHHHHHHHHCCCcEEEccccc
Confidence 34455555555554 5789999999974
No 126
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=22.98 E-value=1.3e+02 Score=22.73 Aligned_cols=22 Identities=14% Similarity=-0.065 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHhcCCCcEEEEe
Q psy14558 10 DIRIRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 10 ~~r~~~i~~~i~~~~pDIi~LQ 31 (136)
.+-++.+.+.|++.+||+|++=
T Consensus 34 ~~a~~~~~~~v~~~~PDvvVvi 55 (278)
T PRK13364 34 FDGFPPVREWLEKVKPDVAVVF 55 (278)
T ss_pred HHHHHHHHHHHHHhCCCEEEEE
Confidence 4568889999999999999864
No 127
>cd07368 PhnC_Bs_like PhnC is a Class III Extradiol ring-cleavage dioxygenase involved in the polycyclic aromatic hydrocarbon (PAH) catabolic pathway. This subfamily is composed of Burkholderia sp. PhnC and similar poteins. PhnC is one of nine protein products encoded by the phn locus. These proteins are involved in the polycyclic aromatic hydrocarbon (PAH) catabolic pathway. PhnC is a member of the class III extradiol dioxygenase family, a group os enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=22.93 E-value=99 Score=23.20 Aligned_cols=21 Identities=19% Similarity=0.044 Sum_probs=17.5
Q ss_pred HHHHHHHHHHhcCCCcEEEEe
Q psy14558 11 IRIRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~LQ 31 (136)
+-++.+.+.+++.+||+|++=
T Consensus 33 ~a~~~~~~~v~~~~pD~ivvi 53 (277)
T cd07368 33 HAYAICAERLAALQVTSVVVI 53 (277)
T ss_pred HHHHHHHHHHHHcCCCEEEEE
Confidence 347788899999999999864
No 128
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=22.92 E-value=2.5e+02 Score=21.13 Aligned_cols=45 Identities=20% Similarity=0.129 Sum_probs=27.6
Q ss_pred ChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHHHhc--CCc
Q psy14558 8 DRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVVFEA--LPY 52 (136)
Q Consensus 8 ~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l~~~--~~y 52 (136)
+.-.-...++..++..++|+|++=+-....+-..+...+++. +|+
T Consensus 95 d~~~ta~~Laa~~~~~~~~LVl~G~qa~D~~t~qvg~~lAe~Lg~P~ 141 (260)
T COG2086 95 DPLATAKALAAAVKKIGPDLVLTGKQAIDGDTGQVGPLLAELLGWPQ 141 (260)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEecccccCCccchHHHHHHHhCCce
Confidence 445567789999999999999885543322222244444443 555
No 129
>PRK09982 universal stress protein UspD; Provisional
Probab=22.82 E-value=98 Score=20.17 Aligned_cols=19 Identities=5% Similarity=0.104 Sum_probs=15.8
Q ss_pred HHHHHHHHhcCCCcEEEEe
Q psy14558 13 IRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQ 31 (136)
.+.|.+..++.++|+|++=
T Consensus 92 ~~~I~~~A~~~~aDLIVmG 110 (142)
T PRK09982 92 PETLLEIMQKEQCDLLVCG 110 (142)
T ss_pred HHHHHHHHHHcCCCEEEEe
Confidence 4677888889999999984
No 130
>PRK13365 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=22.79 E-value=97 Score=23.37 Aligned_cols=21 Identities=29% Similarity=0.207 Sum_probs=18.1
Q ss_pred HHHHHHHHHHhcCCCcEEEEe
Q psy14558 11 IRIRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~LQ 31 (136)
+-++.+.+.+++.+||+|++=
T Consensus 35 ~a~~~i~~~v~~~~PDviVvi 55 (279)
T PRK13365 35 DGYEPVAAWLAEQKADVLVFF 55 (279)
T ss_pred HHHHHHHHHHHHhCCCEEEEE
Confidence 457889999999999999976
No 131
>cd07366 3MGA_Dioxygenase Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 3-O-Methylgallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate. 3-O-Methylgallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate (3MGA) between carbons 2 and 3. 3-O-Methylgallate Dioxygenase is a key enzyme in the syringate degradation pathway, in which the syringate is first converted to 3-O-Methylgallate by O-demethylase. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which uses a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=22.56 E-value=1e+02 Score=23.93 Aligned_cols=21 Identities=10% Similarity=0.241 Sum_probs=17.8
Q ss_pred HHHHHHHHHHhcCCCcEEEEe
Q psy14558 11 IRIRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~LQ 31 (136)
+-++.+++.|++.+||+|++=
T Consensus 73 ~a~~~~~~~i~~~~PDvlVIi 93 (328)
T cd07366 73 AALDRLADFIRAARIDVAVIV 93 (328)
T ss_pred HHHHHHHHHHHHhCCCEEEEE
Confidence 457889999999999999963
No 132
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=22.16 E-value=1e+02 Score=18.90 Aligned_cols=22 Identities=14% Similarity=0.045 Sum_probs=17.7
Q ss_pred HHHHHHHHhcCCCcEEEEeeec
Q psy14558 13 IRAIAAELACNKYDIVCLQEVW 34 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQEv~ 34 (136)
.+.+.+.+.+.++|+|++==-.
T Consensus 91 ~~~i~~~~~~~~~dliv~G~~~ 112 (140)
T PF00582_consen 91 ADAIIEFAEEHNADLIVMGSRG 112 (140)
T ss_dssp HHHHHHHHHHTTCSEEEEESSS
T ss_pred chhhhhccccccceeEEEeccC
Confidence 4678889999999999985544
No 133
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=22.07 E-value=1.1e+02 Score=19.09 Aligned_cols=24 Identities=8% Similarity=-0.022 Sum_probs=18.2
Q ss_pred HHHHHHHHhcCCCcEEEEeeecCC
Q psy14558 13 IRAIAAELACNKYDIVCLQEVWKN 36 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQEv~~~ 36 (136)
.+.|.+...+.++|+|++=-....
T Consensus 83 ~~~I~~~a~~~~~dlIV~G~~~~~ 106 (132)
T cd01988 83 ASGILRTAKERQADLIIMGWHGST 106 (132)
T ss_pred HHHHHHHHHhcCCCEEEEecCCCC
Confidence 356888888889999998666543
No 134
>cd07565 aliphatic_amidase aliphatic amidases (class 2 nitrilases). Aliphatic amidases catalyze the hydrolysis of short-chain aliphatic amides to form ammonia and the corresponding organic acid. This group includes Pseudomonas aeruginosa (Pa) AmiE, the amidase from Geobacillus pallidus RAPc8 (RAPc8 amidase), and Helicobacter pylori (Hp) AmiE and AmiF. PaAimE and HpAmiE hydrolyze various very short aliphatic amides, including propionamide, acetamide and acrylamide. HpAmiF is a formamidase which specifically hydrolyzes formamide. These proteins belong to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 2. Members of this superfamily generally form homomeric complexes, the basic
Probab=21.82 E-value=1e+02 Score=23.04 Aligned_cols=29 Identities=14% Similarity=0.093 Sum_probs=21.4
Q ss_pred cChHHHHHHHHHHHhc-----CCCcEEEEeeecC
Q psy14558 7 KDRDIRIRAIAAELAC-----NKYDIVCLQEVWK 35 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~-----~~pDIi~LQEv~~ 35 (136)
.+...+++.+.+.|++ .++|+|+|-|...
T Consensus 17 ~d~~~Nl~~~~~~i~~A~~~~~gadLvvfPE~~l 50 (291)
T cd07565 17 EEVLENAERIADMVEGTKRGLPGMDLIVFPEYST 50 (291)
T ss_pred ccHHHHHHHHHHHHHHHHhhCCCCeEEEeCCccc
Confidence 4666777777776643 3799999999754
No 135
>cd07364 PCA_45_Dioxygenase_B Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate. Protocatechuate 4,5-dioxygenase (LigAB) catalyzes the oxidization and subsequent ring-opening of protocatechuate (or 3,4-dihydroxybenzoic acid, PCA), an intermediate in the breakdown of lignin and other compounds. Protocatechuate 4,5-dioxygenase is an aromatic ring opening dioxygenase belonging to the class III extradiol enzyme family, a group of enyzmes that cleaves aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon using a non-heme Fe(II). LigAB is composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. The B subunit (LigB) is the catalytic subunit of LigAB.
Probab=21.76 E-value=1.1e+02 Score=23.07 Aligned_cols=21 Identities=14% Similarity=0.060 Sum_probs=17.6
Q ss_pred HHHHHHHHHHhcCCCcEEEEe
Q psy14558 11 IRIRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~LQ 31 (136)
+-++.+.+.+++.+||+|++=
T Consensus 35 ~a~~~~~~~~~~~~pD~vVvi 55 (277)
T cd07364 35 KGYQPARDWIKKNKPDVAIIV 55 (277)
T ss_pred HHHHHHHHHHHHhCCCEEEEE
Confidence 347788999999999999973
No 136
>PF03104 DNA_pol_B_exo1: DNA polymerase family B, exonuclease domain Several related DNA polymerases were too dissimilar to be included.; InterPro: IPR006133 DNA is the biological information that instructs cells how to exist in an ordered fashion: accurate replication is thus one of the most important events in the life cycle of a cell. This function is performed by DNA- directed DNA-polymerases 2.7.7.7 from EC) by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA, using a complementary DNA chain as a template. Small RNA molecules are generally used as primers for chain elongation, although terminal proteins may also be used for the de novo synthesis of a DNA chain. Even though there are 2 different methods of priming, these are mediated by 2 very similar polymerases classes, A and B, with similar methods of chain elongation. A number of DNA polymerases have been grouped under the designation of DNA polymerase family B. Six regions of similarity (numbered from I to VI) are found in all or a subset of the B family polymerases. The most conserved region (I) includes a conserved tetrapeptide with two aspartate residues. Its function is not yet known. However, it has been suggested that it may be involved in binding a magnesium ion. All sequences in the B family contain a characteristic DTDS motif, and possess many functional domains, including a 5'-3' elongation domain, a 3'-5' exonuclease domain [], a DNA binding domain, and binding domains for both dNTP's and pyrophosphate []. This domain has 3' to 5' exonuclease activity and adopts a ribonuclease H type fold [].; GO: 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 1QHT_A 4AHC_A 3A2F_A 2JGU_A 4AIL_C 1NOY_A 1NOZ_B 3IAY_A 1WNS_A 3K5O_A ....
Probab=21.59 E-value=89 Score=23.31 Aligned_cols=39 Identities=10% Similarity=0.003 Sum_probs=26.6
Q ss_pred cChHHHHHHHHHHHhcCCCcEEEEeeecCCCchHHHHHHH
Q psy14558 7 KDRDIRIRAIAAELACNKYDIVCLQEVWKNDDFELIKSVV 46 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~~pDIi~LQEv~~~~~~~~l~~~l 46 (136)
.+.++=+.++.+.|.+.+||||.==++... ++..|....
T Consensus 220 ~~E~~lL~~f~~~i~~~dPDii~GyN~~~f-D~~yl~~R~ 258 (325)
T PF03104_consen 220 DSEKELLEAFLDIIQEYDPDIITGYNIDGF-DLPYLIERA 258 (325)
T ss_dssp SSHHHHHHHHHHHHHHHS-SEEEESSTTTT-HHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHhcCCcEEEEecccCC-CHHHHHHHH
Confidence 355667889999999999999996665543 344454443
No 137
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=21.34 E-value=1.2e+02 Score=22.65 Aligned_cols=17 Identities=29% Similarity=0.403 Sum_probs=15.8
Q ss_pred HHHHHHHhcCCCcEEEE
Q psy14558 14 RAIAAELACNKYDIVCL 30 (136)
Q Consensus 14 ~~i~~~i~~~~pDIi~L 30 (136)
+++++.|.+.+||||.+
T Consensus 151 ~~i~~~I~~s~pdil~V 167 (253)
T COG1922 151 EAIVERIAASGPDILLV 167 (253)
T ss_pred HHHHHHHHhcCCCEEEE
Confidence 69999999999999986
No 138
>cd07582 nitrilase_4 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=21.30 E-value=67 Score=23.96 Aligned_cols=29 Identities=21% Similarity=0.156 Sum_probs=21.1
Q ss_pred cChHHHHHHHHHHHhcC--------CCcEEEEeeecC
Q psy14558 7 KDRDIRIRAIAAELACN--------KYDIVCLQEVWK 35 (136)
Q Consensus 7 ~~~~~r~~~i~~~i~~~--------~pDIi~LQEv~~ 35 (136)
.+...+++.+.+.|++. ++|+|+|-|+..
T Consensus 17 ~d~~~Nl~~~~~~i~~A~~~~~~~~gadlivfPE~~l 53 (294)
T cd07582 17 ADILANIDRINEQIDAAVGFSGPGLPVRLVVLPEYAL 53 (294)
T ss_pred hhHHHHHHHHHHHHHHHHHhcccCCCceEEEcCcccc
Confidence 35566777777777652 599999999764
No 139
>PRK00865 glutamate racemase; Provisional
Probab=21.08 E-value=2e+02 Score=21.24 Aligned_cols=30 Identities=17% Similarity=0.115 Sum_probs=23.2
Q ss_pred CCccccCh---HHHHHHHHHHHhcCCCcEEEEe
Q psy14558 2 IPKVSKDR---DIRIRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 2 ~~~~s~~~---~~r~~~i~~~i~~~~pDIi~LQ 31 (136)
+||..+.. ..+...+++.+.+.++|.|++=
T Consensus 42 ~PYG~ks~~~i~~~~~~~~~~L~~~g~d~iVIa 74 (261)
T PRK00865 42 FPYGEKSEEEIRERTLEIVEFLLEYGVKMLVIA 74 (261)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHhCCCCEEEEe
Confidence 68888765 4567778888888999998863
No 140
>PRK13366 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=21.02 E-value=1.1e+02 Score=23.17 Aligned_cols=21 Identities=14% Similarity=-0.077 Sum_probs=17.3
Q ss_pred HHHHHHHHHHhcCCCcEEEEe
Q psy14558 11 IRIRAIAAELACNKYDIVCLQ 31 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~LQ 31 (136)
+-++.+.+.|++.+||+|++=
T Consensus 35 ~a~~~i~~~i~~~~PDvvVii 55 (284)
T PRK13366 35 KGYEFSKQWEKEEKPDVIFLV 55 (284)
T ss_pred HHHHHHHHHHHHhCCCEEEEE
Confidence 347788999999999999953
No 141
>cd07950 Gallate_Doxase_N The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. In this subfamily, the subunits A and B are fused to make a single polypeptide chain. The dimer interface for this subfamily may resemble the tetramer interface of classical LigAB en
Probab=20.81 E-value=1.1e+02 Score=22.93 Aligned_cols=22 Identities=18% Similarity=0.078 Sum_probs=18.3
Q ss_pred HHHHHHHHHHhcCCCcEEEEee
Q psy14558 11 IRIRAIAAELACNKYDIVCLQE 32 (136)
Q Consensus 11 ~r~~~i~~~i~~~~pDIi~LQE 32 (136)
+-++++.+.|++.+||+|++==
T Consensus 35 ~a~~~~~~~i~~~~PD~iVvi~ 56 (277)
T cd07950 35 DGYEPVKQWLAEQKPDVLFMVY 56 (277)
T ss_pred HHHHHHHHHHHHhCCCEEEEEc
Confidence 4578899999999999998743
No 142
>PRK10116 universal stress protein UspC; Provisional
Probab=20.74 E-value=1e+02 Score=19.71 Aligned_cols=18 Identities=17% Similarity=0.169 Sum_probs=15.4
Q ss_pred HHHHHHHHhcCCCcEEEE
Q psy14558 13 IRAIAAELACNKYDIVCL 30 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~L 30 (136)
.+.|.+.+++.++|+|++
T Consensus 91 ~~~I~~~a~~~~~DLiV~ 108 (142)
T PRK10116 91 SEHILEVCRKHHFDLVIC 108 (142)
T ss_pred HHHHHHHHHHhCCCEEEE
Confidence 367888999999999998
No 143
>PF13528 Glyco_trans_1_3: Glycosyl transferase family 1
Probab=20.73 E-value=1.1e+02 Score=22.67 Aligned_cols=22 Identities=27% Similarity=0.065 Sum_probs=18.3
Q ss_pred hHHHHHHHHHHHhcCCCcEEEE
Q psy14558 9 RDIRIRAIAAELACNKYDIVCL 30 (136)
Q Consensus 9 ~~~r~~~i~~~i~~~~pDIi~L 30 (136)
...+.+.+.+++++.+||+|..
T Consensus 79 ~~~~~~~~~~~l~~~~pDlVIs 100 (318)
T PF13528_consen 79 LARRIRREIRWLREFRPDLVIS 100 (318)
T ss_pred HHHHHHHHHHHHHhcCCCEEEE
Confidence 3567788889999999999984
No 144
>cd00529 RuvC_resolvase Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes only the bacterial and mitochondrial HJR's. These are referred to as the RuvC family of Holliday junction resolvases, RuvC being the E.coli HJR. RuvC and its orthologs are homodimers and are structurely similar to RNase H and Hsp70.
Probab=20.18 E-value=1.2e+02 Score=20.48 Aligned_cols=24 Identities=13% Similarity=0.217 Sum_probs=18.0
Q ss_pred HHHHHHHHhcCCCcEEEEeeecCC
Q psy14558 13 IRAIAAELACNKYDIVCLQEVWKN 36 (136)
Q Consensus 13 ~~~i~~~i~~~~pDIi~LQEv~~~ 36 (136)
.+.+.+++..++||.+++-+..-.
T Consensus 48 ~~~l~~~i~~~~Pd~vaiE~~~~~ 71 (154)
T cd00529 48 YDGLNEVIDQFQPDVVAIERVFFA 71 (154)
T ss_pred HHHHHHHHHHhCCCEEEEEEhhcc
Confidence 344566677789999999997654
Done!