Query psy4641
Match_columns 229
No_of_seqs 221 out of 1665
Neff 5.3
Searched_HMMs 46136
Date Fri Aug 16 22:00:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4641.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4641hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00187 ribE riboflavin synt 100.0 1E-80 2.2E-85 537.0 24.3 198 1-203 1-199 (200)
2 PRK13020 riboflavin synthase s 100.0 3.1E-80 6.7E-85 536.1 24.3 205 1-206 1-205 (206)
3 PLN02741 riboflavin synthase 100.0 1.9E-79 4.1E-84 527.0 22.8 191 1-197 1-194 (194)
4 COG0307 RibC Riboflavin syntha 100.0 5.3E-78 1.1E-82 517.8 22.4 199 1-206 1-199 (204)
5 PRK09289 riboflavin synthase s 100.0 6.2E-75 1.3E-79 498.9 24.3 192 1-198 1-192 (194)
6 KOG3310|consensus 100.0 5.3E-61 1.2E-65 401.6 14.1 200 1-205 1-203 (210)
7 PF00677 Lum_binding: Lumazine 100.0 4.5E-30 9.8E-35 194.3 9.1 85 3-87 1-85 (85)
8 PF00677 Lum_binding: Lumazine 100.0 1.9E-29 4.2E-34 190.8 9.5 85 100-185 1-85 (85)
9 PRK09289 riboflavin synthase s 100.0 1.3E-28 2.7E-33 211.9 10.4 88 1-88 97-184 (194)
10 PRK13020 riboflavin synthase s 99.9 8.6E-28 1.9E-32 208.6 9.6 88 1-88 98-185 (206)
11 PLN02741 riboflavin synthase 99.9 2.7E-27 5.8E-32 203.8 9.2 88 1-88 98-187 (194)
12 TIGR00187 ribE riboflavin synt 99.9 4.3E-27 9.3E-32 203.4 9.3 88 1-88 98-186 (200)
13 COG0307 RibC Riboflavin syntha 99.9 4.5E-26 9.7E-31 196.6 7.8 88 1-88 95-183 (204)
14 KOG3310|consensus 99.6 8.3E-16 1.8E-20 129.7 6.9 87 2-88 99-188 (210)
15 PF00970 FAD_binding_6: Oxidor 79.4 7.1 0.00015 28.8 5.9 79 10-88 2-94 (99)
16 PF00970 FAD_binding_6: Oxidor 76.6 12 0.00026 27.5 6.4 76 107-183 2-91 (99)
17 PRK05802 hypothetical protein; 73.2 18 0.00038 33.4 7.9 80 9-88 66-157 (320)
18 PRK05802 hypothetical protein; 73.0 14 0.00031 34.0 7.3 78 105-183 65-154 (320)
19 PF07703 A2M_N_2: Alpha-2-macr 72.3 10 0.00023 29.5 5.4 97 74-185 8-117 (136)
20 PRK08221 anaerobic sulfite red 69.4 16 0.00035 32.3 6.6 76 9-88 9-90 (263)
21 cd06191 FNR_iron_sulfur_bindin 64.1 34 0.00074 29.0 7.3 78 11-88 2-92 (231)
22 TIGR03021 pilP_fam type IV pil 61.4 23 0.00049 28.5 5.4 51 9-61 68-118 (119)
23 cd06221 sulfite_reductase_like 58.4 31 0.00067 30.2 6.2 75 14-88 3-87 (253)
24 PRK08221 anaerobic sulfite red 58.0 27 0.00059 30.9 5.8 73 106-183 9-87 (263)
25 TIGR02911 sulfite_red_B sulfit 57.1 40 0.00087 29.8 6.7 77 9-88 7-88 (261)
26 cd06196 FNR_like_1 Ferredoxin 57.1 43 0.00093 28.1 6.7 77 10-88 3-93 (218)
27 PF13437 HlyD_3: HlyD family s 56.3 57 0.0012 24.1 6.6 78 37-126 16-94 (105)
28 PRK00054 dihydroorotate dehydr 56.2 79 0.0017 27.4 8.4 78 9-88 6-92 (250)
29 cd06217 FNR_iron_sulfur_bindin 55.6 55 0.0012 27.6 7.2 80 9-88 3-97 (235)
30 PF07944 DUF1680: Putative gly 54.7 41 0.00089 33.0 6.9 56 19-90 439-494 (520)
31 PF12700 HlyD_2: HlyD family s 52.9 64 0.0014 28.4 7.4 133 34-180 173-326 (328)
32 PF07944 DUF1680: Putative gly 50.9 68 0.0015 31.5 7.8 59 114-189 437-495 (520)
33 cd06192 DHOD_e_trans_like FAD/ 50.7 67 0.0015 27.6 7.0 71 17-88 7-87 (243)
34 cd06220 DHOD_e_trans_like2 FAD 49.2 75 0.0016 27.2 7.0 73 11-88 2-80 (233)
35 cd06210 MMO_FAD_NAD_binding Me 48.7 82 0.0018 26.7 7.1 80 9-88 3-98 (236)
36 PRK10926 ferredoxin-NADP reduc 48.6 84 0.0018 27.4 7.3 77 9-88 6-94 (248)
37 TIGR02911 sulfite_red_B sulfit 48.5 46 0.00099 29.4 5.7 39 145-183 47-85 (261)
38 PF08922 DUF1905: Domain of un 47.5 68 0.0015 23.7 5.6 63 114-184 7-80 (80)
39 PRK07609 CDP-6-deoxy-delta-3,4 47.4 67 0.0014 29.2 6.7 80 9-88 104-194 (339)
40 PRK06222 ferredoxin-NADP(+) re 46.5 1E+02 0.0023 27.4 7.7 78 10-88 2-89 (281)
41 cd06211 phenol_2-monooxygenase 46.2 1E+02 0.0022 26.3 7.4 81 8-88 7-99 (238)
42 cd06216 FNR_iron_sulfur_bindin 45.7 1.3E+02 0.0027 25.7 7.9 81 7-88 17-112 (243)
43 cd06221 sulfite_reductase_like 45.7 48 0.001 29.0 5.4 73 111-184 3-85 (253)
44 PRK14725 pyruvate kinase; Prov 45.4 1.5E+02 0.0032 30.4 9.2 121 26-161 259-402 (608)
45 PRK05713 hypothetical protein; 45.4 86 0.0019 28.3 7.1 78 9-88 93-180 (312)
46 PF02470 MCE: mce related prot 45.2 51 0.0011 23.7 4.6 25 8-32 27-53 (81)
47 cd06212 monooxygenase_like The 44.5 98 0.0021 26.2 7.0 79 10-88 3-93 (232)
48 COG1566 EmrA Multidrug resista 43.1 22 0.00049 33.7 3.0 64 35-107 223-286 (352)
49 cd06209 BenDO_FAD_NAD Benzoate 42.8 1.2E+02 0.0027 25.5 7.3 80 9-88 3-93 (228)
50 cd06196 FNR_like_1 Ferredoxin 41.0 74 0.0016 26.6 5.6 75 106-183 2-90 (218)
51 cd06215 FNR_iron_sulfur_bindin 40.0 1.5E+02 0.0032 24.9 7.3 78 11-88 2-93 (231)
52 PLN03116 ferredoxin--NADP+ red 39.4 1.3E+02 0.0027 27.3 7.2 78 8-87 25-143 (307)
53 cd04496 SSB_OBF SSB_OBF: A sub 39.2 1.3E+02 0.0029 21.7 6.2 38 57-95 44-81 (100)
54 cd06213 oxygenase_e_transfer_s 38.8 1.4E+02 0.0031 25.1 7.1 77 9-88 2-91 (227)
55 cd06218 DHOD_e_trans FAD/NAD b 38.6 1.1E+02 0.0023 26.7 6.4 70 18-88 8-88 (246)
56 PF07238 PilZ: PilZ domain; I 38.0 1.4E+02 0.0031 20.9 7.9 60 49-126 27-86 (102)
57 PF06597 Clostridium_P47: Clos 37.1 74 0.0016 31.2 5.6 64 110-182 46-110 (456)
58 PF13856 Gifsy-2: ATP-binding 37.1 1.2E+02 0.0026 22.8 5.7 41 19-61 51-93 (95)
59 cd06192 DHOD_e_trans_like FAD/ 37.0 1.3E+02 0.0027 25.9 6.5 68 114-183 7-84 (243)
60 cd06263 MAM Meprin, A5 protein 37.0 47 0.001 26.3 3.6 13 136-148 141-153 (157)
61 PRK07609 CDP-6-deoxy-delta-3,4 36.5 1.1E+02 0.0023 27.9 6.3 77 106-183 104-191 (339)
62 cd06214 PA_degradation_oxidore 36.2 1.8E+02 0.004 24.5 7.4 79 9-87 3-96 (241)
63 PRK05713 hypothetical protein; 36.1 1E+02 0.0022 27.8 6.1 75 106-183 93-177 (312)
64 PF13786 DUF4179: Domain of un 36.0 60 0.0013 23.7 3.8 24 138-161 63-88 (94)
65 PRK08051 fre FMN reductase; Va 35.9 1.1E+02 0.0024 26.1 6.0 78 9-88 4-92 (232)
66 cd07557 trimeric_dUTPase Trime 35.3 64 0.0014 23.6 3.9 56 121-180 28-87 (92)
67 COG1661 Predicted DNA-binding 35.2 58 0.0013 27.1 3.9 54 65-118 67-124 (141)
68 cd06208 CYPOR_like_FNR These f 35.0 1.1E+02 0.0024 27.3 6.0 78 9-88 10-124 (286)
69 TIGR00999 8a0102 Membrane Fusi 34.2 3E+02 0.0065 23.5 9.1 78 35-126 103-180 (265)
70 PRK00054 dihydroorotate dehydr 33.8 2.5E+02 0.0055 24.2 8.0 74 107-183 7-89 (250)
71 PRK11872 antC anthranilate dio 33.8 1.7E+02 0.0038 26.8 7.3 80 9-88 108-200 (340)
72 TIGR03224 benzo_boxA benzoyl-C 33.7 1.8E+02 0.0039 27.8 7.5 79 9-88 144-256 (411)
73 cd06210 MMO_FAD_NAD_binding Me 32.1 1.5E+02 0.0034 25.0 6.3 77 106-183 3-95 (236)
74 PRK06567 putative bifunctional 31.2 1.6E+02 0.0035 32.0 7.3 77 105-183 791-881 (1028)
75 cd06195 FNR1 Ferredoxin-NADP+ 31.2 1.6E+02 0.0035 25.0 6.3 74 12-87 2-89 (241)
76 PF07703 A2M_N_2: Alpha-2-macr 31.0 85 0.0018 24.3 4.1 66 22-95 52-125 (136)
77 cd06187 O2ase_reductase_like T 30.7 1.6E+02 0.0034 24.6 6.0 69 18-88 8-88 (224)
78 cd06216 FNR_iron_sulfur_bindin 30.5 2.3E+02 0.005 24.1 7.1 79 103-183 16-109 (243)
79 PRK08345 cytochrome-c3 hydroge 30.5 2.1E+02 0.0046 25.6 7.1 79 105-183 6-94 (289)
80 PF12195 End_beta_barrel: Beta 30.5 87 0.0019 23.8 3.8 47 15-64 10-64 (83)
81 cd06211 phenol_2-monooxygenase 30.4 1.9E+02 0.0041 24.6 6.6 77 106-183 8-96 (238)
82 cd06191 FNR_iron_sulfur_bindin 30.3 1.4E+02 0.0031 25.2 5.7 73 109-183 3-89 (231)
83 PLN03116 ferredoxin--NADP+ red 29.5 2.6E+02 0.0056 25.3 7.6 76 105-183 25-141 (307)
84 PRK08345 cytochrome-c3 hydroge 29.1 3E+02 0.0066 24.6 7.9 82 7-88 5-97 (289)
85 cd06217 FNR_iron_sulfur_bindin 29.1 2E+02 0.0042 24.2 6.4 77 106-183 3-94 (235)
86 cd06189 flavin_oxioreductase N 29.0 2E+02 0.0043 24.2 6.4 76 11-88 2-88 (224)
87 PRK09783 copper/silver efflux 28.6 1.9E+02 0.0042 27.4 6.8 93 23-127 209-304 (409)
88 cd06219 DHOD_e_trans_like1 FAD 28.6 2.5E+02 0.0053 24.3 7.0 76 12-88 3-88 (248)
89 PRK10926 ferredoxin-NADP reduc 28.6 2.1E+02 0.0046 24.9 6.6 74 106-183 6-91 (248)
90 PRK06222 ferredoxin-NADP(+) re 28.5 2.3E+02 0.0049 25.2 7.0 75 107-183 2-86 (281)
91 TIGR02160 PA_CoA_Oxy5 phenylac 28.3 2.5E+02 0.0054 25.6 7.3 77 11-87 5-96 (352)
92 cd06212 monooxygenase_like The 28.0 1.8E+02 0.0038 24.6 5.9 77 106-183 2-90 (232)
93 smart00137 MAM Domain in mepri 27.8 78 0.0017 25.7 3.5 14 135-148 144-157 (161)
94 PF00629 MAM: MAM domain; Int 27.2 93 0.002 23.9 3.7 28 116-148 127-154 (160)
95 PRK13806 rpsA 30S ribosomal pr 26.7 6.1E+02 0.013 24.8 12.7 131 34-186 288-439 (491)
96 PF02470 MCE: mce related prot 26.4 1.4E+02 0.003 21.3 4.3 52 71-141 10-63 (81)
97 PF03479 DUF296: Domain of unk 26.2 1.4E+02 0.0031 23.3 4.7 26 89-114 88-113 (120)
98 cd06201 SiR_like2 Cytochrome p 26.2 2.4E+02 0.0051 25.3 6.7 75 11-85 49-142 (289)
99 cd01247 PH_GPBP Goodpasture an 25.5 38 0.00083 25.4 1.2 29 135-163 39-67 (91)
100 cd06184 flavohem_like_fad_nad_ 25.3 4.1E+02 0.0088 22.6 7.7 79 9-87 8-102 (247)
101 cd06193 siderophore_interactin 24.8 2.8E+02 0.0061 23.7 6.7 71 18-88 8-111 (235)
102 COG3533 Uncharacterized protei 24.7 2.2E+02 0.0048 28.9 6.5 111 21-152 426-546 (589)
103 PRK05826 pyruvate kinase; Prov 24.5 1.6E+02 0.0035 28.9 5.6 47 31-84 113-161 (465)
104 PRK10862 SoxR reducing system 24.4 1.2E+02 0.0025 25.3 4.0 15 172-186 57-71 (154)
105 COG4172 ABC-type uncharacteriz 24.2 63 0.0014 32.1 2.6 34 116-151 279-312 (534)
106 cd06190 T4MO_e_transfer_like T 23.2 2.2E+02 0.0047 24.0 5.6 69 18-88 8-87 (232)
107 PF06017 Myosin_TH1: Myosin ta 23.0 4.7E+02 0.01 22.1 9.1 114 73-199 20-144 (199)
108 TIGR02971 heterocyst_DevB ABC 22.9 2.9E+02 0.0062 24.8 6.6 61 36-108 220-280 (327)
109 PRK10684 HCP oxidoreductase, N 22.8 3.4E+02 0.0074 24.6 7.1 80 6-87 8-100 (332)
110 cd06198 FNR_like_3 NAD(P) bind 22.8 2.6E+02 0.0056 23.3 5.9 69 19-88 7-86 (216)
111 TIGR03224 benzo_boxA benzoyl-C 22.7 2.9E+02 0.0062 26.4 6.8 77 105-183 143-253 (411)
112 PLN03115 ferredoxin--NADP(+) r 22.5 1.5E+02 0.0032 28.1 4.8 68 19-88 108-204 (367)
113 PF04246 RseC_MucC: Positive r 21.8 87 0.0019 24.9 2.7 19 169-187 47-65 (135)
114 PRK11872 antC anthranilate dio 21.8 3.6E+02 0.0079 24.6 7.1 81 103-184 105-198 (340)
115 PRK07211 replication factor A; 21.7 3.8E+02 0.0083 26.7 7.5 14 34-47 224-237 (485)
116 PTZ00319 NADH-cytochrome B5 re 21.7 4.8E+02 0.01 23.5 7.8 80 9-88 35-141 (300)
117 PF00436 SSB: Single-strand bi 21.4 1.1E+02 0.0024 22.3 3.1 33 153-186 46-78 (104)
118 TIGR02160 PA_CoA_Oxy5 phenylac 21.3 2.8E+02 0.006 25.3 6.2 76 107-183 4-94 (352)
119 TIGR01064 pyruv_kin pyruvate k 21.2 1.8E+02 0.0039 28.6 5.1 54 23-84 104-159 (473)
120 PRK06567 putative bifunctional 21.0 3E+02 0.0065 30.1 7.0 82 9-91 792-887 (1028)
121 TIGR03021 pilP_fam type IV pil 21.0 2.5E+02 0.0055 22.4 5.2 53 104-159 66-118 (119)
122 cd06220 DHOD_e_trans_like2 FAD 21.0 3.2E+02 0.0069 23.3 6.2 69 109-183 3-77 (233)
123 PRK14980 DNA-directed RNA poly 21.0 4.4E+02 0.0096 21.7 6.5 65 51-126 30-95 (127)
124 PRK05813 single-stranded DNA-b 20.9 5.9E+02 0.013 22.5 11.3 123 57-187 47-178 (219)
125 cd06219 DHOD_e_trans_like1 FAD 20.8 3.5E+02 0.0076 23.4 6.5 73 109-183 3-85 (248)
126 TIGR01843 type_I_hlyD type I s 20.2 6.7E+02 0.015 22.9 9.1 91 108-199 299-412 (423)
127 PRK13806 rpsA 30S ribosomal pr 20.1 8.2E+02 0.018 23.9 12.0 127 34-183 198-347 (491)
No 1
>TIGR00187 ribE riboflavin synthase, alpha subunit. The name ribE was selected, from among alternatives including ribB and ribC, to match the usage in EcoCyc.
Probab=100.00 E-value=1e-80 Score=537.03 Aligned_cols=198 Identities=43% Similarity=0.681 Sum_probs=191.9
Q ss_pred CcceeeeceEEEEEEEEcCCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFSYNDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQ 80 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~~~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd 80 (229)
|||||||++|+|.++++.+++++++|++|+.+++++++|||||||||||||+++.++.|+|++|||||++|||+.|++||
T Consensus 1 MFTGiVe~~G~V~~i~~~~~~~~l~i~~~~~~~~~l~~G~SIAvnGvCLTV~~i~~~~f~vdvipETl~~TtL~~l~~G~ 80 (200)
T TIGR00187 1 MFTGIIQGTAKLVSIKEKPLFISLVVNLADHMLDDLELGDSIAVNGVCLTVTEINKNHFSVDLSPETLKRTNLGDLKVGT 80 (200)
T ss_pred CCCEEeeEEEEEEEEEECCCcEEEEEEeChHHhcccccCCEEEECcEEEEEEEEcCCEEEEEEEHHHhhhcchhhCcCCC
Confidence 99999999999999999999999999999777899999999999999999999999999999999999999999999999
Q ss_pred eeeeccCCCCCceecceeeEEEEeEEEEEEEEEEcCCeEEEEEEe-ccchhccceeeeccEEEceeeeeeeeEeCcEEEE
Q psy4641 81 FVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQALEKNYRMEIQM-TNKSLMKYVFYKGYVAIDGISLTIGKVFEDYFYV 159 (229)
Q Consensus 81 ~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~~~~~~~~~i~~-p~~~~~~~iv~KGsIavdGvSLTV~~v~~~~f~v 159 (229)
+||||||||+|||+|||+||||||++|+|.++++.++++.++|++ | +++++|+++|||||||||||||+++.+++|+|
T Consensus 81 ~VNLEral~~g~rlgGH~V~GHVd~~~~i~~~~~~~~~~~~~~~~~p-~~~~~yiv~KGsIaidGvSLTV~~v~~~~f~v 159 (200)
T TIGR00187 81 WVNIERALKADGEIGGHFVSGHIDTTAEIAKIETSENNVQFWFKLQD-SELMKYIVEKGSIAVDGISLTIGKVTETRFCV 159 (200)
T ss_pred EEEEcccCCCCCccCCeeEeEEccEEEEEEEEEEcCCcEEEEEEECC-HHHHhccccCCEEEEeeeEEEEEeEcCCEEEE
Confidence 999999999999999999999999999999999999999999999 7 99999999999999999999999999999999
Q ss_pred EeehhhHhhccCCCCCCCCEeEEcccCccchHHHHHHHHHhhcc
Q psy4641 160 HLIPETMEKTTMSKKAVGDALNIEVDSQTQVIVNTVERVLKENY 203 (229)
Q Consensus 160 ~lIP~Tl~~T~l~~~k~Gd~VNiE~D~~t~~i~kyv~~~l~~~~ 203 (229)
+|||||+++|||+.+|+||+||||+|+ ++||++|++++.+
T Consensus 160 ~lIP~T~~~T~l~~~~~Gd~VNiE~D~----~~kyv~~~~~~~~ 199 (200)
T TIGR00187 160 SLIPHTLENTILGLKKLGDRVNIEIDM----LGKAVADTLERTL 199 (200)
T ss_pred EEehHhHhhCccccCCCCCEEEEeEhh----HHHHHHHHHHHhh
Confidence 999999999999999999999999997 8888888876543
No 2
>PRK13020 riboflavin synthase subunit alpha; Provisional
Probab=100.00 E-value=3.1e-80 Score=536.12 Aligned_cols=205 Identities=52% Similarity=0.833 Sum_probs=201.0
Q ss_pred CcceeeeceEEEEEEEEcCCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFSYNDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQ 80 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~~~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd 80 (229)
|||||||++|+|.++++.+++++++|++|+.+++++++|||||||||||||+++.++.|+|++||||+++|||+.|++||
T Consensus 1 MFtGiI~~vg~I~~i~~~~~~~~l~i~~~~~~~~~l~~g~SIavnGVcLTV~~v~~~~f~~~lipeTl~~T~l~~~~~G~ 80 (206)
T PRK13020 1 MFTGIVQATAEVVAIHKKDGLNTLEIAFPPELLEGLEIGASVAVNGVCLTVTKIEGDRVFFDVMEETLRLTNLADLRVGD 80 (206)
T ss_pred CCCEEecEEEEEEEEEECCCcEEEEEEeChhHhccCCCCCEEEECCEEEEEEEECCCEEEEEEhHHHHhhCchhhccCCC
Confidence 99999999999999999999999999999888899999999999999999999999999999999999999999999999
Q ss_pred eeeeccCCCCCceecceeeEEEEeEEEEEEEEEEcCCeEEEEEEeccchhccceeeeccEEEceeeeeeeeEeCcEEEEE
Q psy4641 81 FVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQALEKNYRMEIQMTNKSLMKYVFYKGYVAIDGISLTIGKVFEDYFYVH 160 (229)
Q Consensus 81 ~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~~~~~~~~~i~~p~~~~~~~iv~KGsIavdGvSLTV~~v~~~~f~v~ 160 (229)
+|||||||++|||+||||||||||++|+|.++++.++++.++|++| +++.+|+++|||||||||||||+++.++.|+|+
T Consensus 81 ~VNlEral~~~~rlgGH~v~GhVd~~~~i~~i~~~~~~~~~~i~~~-~~~~~~i~~kgSIaidGvsLTV~~v~~~~f~v~ 159 (206)
T PRK13020 81 RVNIERSAKFGAEIGGHILSGHVDTTATVVEISDTEENYDIRFRVP-PEWMKYIFAKGFIGVNGCSLTVGEVDESEFEVH 159 (206)
T ss_pred EEeeEecccCCCccCCEeEEEEccEEEEEEEEEEcCCCEEEEEEEC-hHHhcccccCCEEEEeeEEEEEEeEcCCEEEEE
Confidence 9999999999999999999999999999999999999999999999 999999999999999999999999999999999
Q ss_pred eehhhHhhccCCCCCCCCEeEEcccCccchHHHHHHHHHhhccccc
Q psy4641 161 LIPETMEKTTMSKKAVGDALNIEVDSQTQVIVNTVERVLKENYGNL 206 (229)
Q Consensus 161 lIP~Tl~~T~l~~~k~Gd~VNiE~D~~t~~i~kyv~~~l~~~~~~~ 206 (229)
|||||+++|||+.+|+||+||||+|+++|+++||++|+++.+++.+
T Consensus 160 lIp~Tl~~T~l~~~k~G~~VNiE~D~~~k~~~~~v~~~~~~~~~~~ 205 (206)
T PRK13020 160 LIPETLRATNLGAKKVGDLVNIEIDSQTQVIVDTVERVLAERLAEL 205 (206)
T ss_pred EeHHHHhhcccccCCCCCEEEEeEeccchHHHHHHHHHHhhhhccc
Confidence 9999999999999999999999999999999999999998887765
No 3
>PLN02741 riboflavin synthase
Probab=100.00 E-value=1.9e-79 Score=527.01 Aligned_cols=191 Identities=35% Similarity=0.583 Sum_probs=186.3
Q ss_pred CcceeeeceEEEEEEEE-cCCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFS-YNDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVD 79 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~-~~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~G 79 (229)
|||||||++|+|.++++ .+++++++|+ |+.+++++++|||||||||||||++++++.|+|++|||||++|||+.|++|
T Consensus 1 MFTGiVe~~G~I~~i~~~~~~~~~l~i~-~~~~~~~l~~G~SIAvnGvCLTV~~~~~~~f~vdvipETl~~T~L~~l~~G 79 (194)
T PLN02741 1 LFTGIVEEMGEVKSLGVTDDGGFDLKIE-ASTVLDGVKLGDSIAVNGTCLTVTEFDGDEFTVGLAPETLRKTSLGELKTG 79 (194)
T ss_pred CCCEEeCEEEEEEEEEecCCCcEEEEEE-cchhhcccccCCEEEECcEEEEEEEECCCEEEEEEEHHHhhhCccccCCCC
Confidence 99999999999999999 9999999999 666789999999999999999999999999999999999999999999999
Q ss_pred CeeeeccCCCCCceecceeeEEEEeEEEEEEEEEEcCCeEEEEEEeccchhccceeeeccEEEceeeeeeeeEe--CcEE
Q psy4641 80 QFVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQALEKNYRMEIQMTNKSLMKYVFYKGYVAIDGISLTIGKVF--EDYF 157 (229)
Q Consensus 80 d~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~~~~~~~~~i~~p~~~~~~~iv~KGsIavdGvSLTV~~v~--~~~f 157 (229)
|+||||||||+|||+|||+||||||++|+|.++++.++++.++|++| +++++|+++|||||||||||||+++. +++|
T Consensus 80 ~~VNLEral~~g~rlgGH~V~GHVd~~~~i~~~~~~~~~~~~~i~~p-~~~~~yi~~KGsIavdGvSLTV~~v~~~~~~f 158 (194)
T PLN02741 80 SLVNLERALRPGSRMGGHFVQGHVDGTGTIVEQEPEGDSLWVKVKAD-PELLKYIVPKGFIAVDGTSLTVVDVDDEEGCF 158 (194)
T ss_pred CEEeeccCCcCCCccCCeeEeEECcEEEEEEEEEECCCcEEEEEEEC-HHHHcccccCcEEEEeeEEEEEEEeecCCCEE
Confidence 99999999999999999999999999999999999999999999999 99999999999999999999999999 8999
Q ss_pred EEEeehhhHhhccCCCCCCCCEeEEcccCccchHHHHHHH
Q psy4641 158 YVHLIPETMEKTTMSKKAVGDALNIEVDSQTQVIVNTVER 197 (229)
Q Consensus 158 ~v~lIP~Tl~~T~l~~~k~Gd~VNiE~D~~t~~i~kyv~~ 197 (229)
+|+|||||+++|||+.+|+||+||||+|+ ||||++|
T Consensus 159 ~v~lIP~T~~~T~l~~~k~Gd~VNiE~D~----~~kyv~~ 194 (194)
T PLN02741 159 NFMLVPYTQQKVVIPLKKVGDKVNLEVDI----LGKYVER 194 (194)
T ss_pred EEEEcHHHHhhcccccCCCCCEEEEeEEc----hhhhhcC
Confidence 99999999999999999999999999996 8999975
No 4
>COG0307 RibC Riboflavin synthase alpha chain [Coenzyme metabolism]
Probab=100.00 E-value=5.3e-78 Score=517.81 Aligned_cols=199 Identities=41% Similarity=0.623 Sum_probs=187.7
Q ss_pred CcceeeeceEEEEEEEEcCCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFSYNDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQ 80 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~~~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd 80 (229)
||||||+++|+|.... +..++.+..++..+.+++.|||||||||||||++++++.|+||++||||++|||+.|++||
T Consensus 1 MFTGIIe~iG~V~~~~---~~~~~~i~~~~~~~~d~~lGdSIAvnGvCLTVt~~~~~~f~~dv~~ETl~~TnL~~~~~G~ 77 (204)
T COG0307 1 MFTGIVEEIGKVKKVE---NGITLTIESAKLILEDVKLGDSIAVNGVCLTVTEFNEDGFSVDVMPETLRRTNLGDLKVGD 77 (204)
T ss_pred CcceeeeeeEEEEecc---CceEEEEeecccccccCccCCeEEECCEEEEEEEECCCcEEEEecHHHhhhcchhhcccCC
Confidence 9999999999999443 6788888777777889999999999999999999999999999999999999999999999
Q ss_pred eeeeccCCCCCceecceeeEEEEeEEEEEEEEEEcCCeEEEEEEeccchhccceeeeccEEEceeeeeeeeEeCcEEEEE
Q psy4641 81 FVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQALEKNYRMEIQMTNKSLMKYVFYKGYVAIDGISLTIGKVFEDYFYVH 160 (229)
Q Consensus 81 ~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~~~~~~~~~i~~p~~~~~~~iv~KGsIavdGvSLTV~~v~~~~f~v~ 160 (229)
+|||||||++|+|+||||||||||++|+|.+++++++++++||..|++++++|+++|||||||||||||+++.+++|+|+
T Consensus 78 ~VNLERAl~~~~r~GGH~VsGHVDg~g~I~~i~~~~na~~~~~~~~~~~l~kyiv~KGsIavDGiSLTV~~v~~~~F~V~ 157 (204)
T COG0307 78 KVNLERALKLGDRLGGHLVSGHVDGTGEIVKIEKDGNAVRFWFKAPPEELAKYIVEKGSIAVDGISLTVNEVEDDTFSVS 157 (204)
T ss_pred EEeeehhccCCCccccEEEEeEEeeEEEEEEEEEcCCeEEEEEEcCCHHHHhhhcccceEEEeeEEEEEEEEcCCEEEEE
Confidence 99999999999999999999999999999999999999999988544999999999999999999999999999999999
Q ss_pred eehhhHhhccCCCCCCCCEeEEcccCccchHHHHHHHHHhhccccc
Q psy4641 161 LIPETMEKTTMSKKAVGDALNIEVDSQTQVIVNTVERVLKENYGNL 206 (229)
Q Consensus 161 lIP~Tl~~T~l~~~k~Gd~VNiE~D~~t~~i~kyv~~~l~~~~~~~ 206 (229)
|||||+++|+|+.+|+||+||||+|+ ++||+||+++......
T Consensus 158 lIPhT~~~T~l~~~~~Gd~VNiE~D~----l~kyver~l~~~~~~~ 199 (204)
T COG0307 158 LIPHTLERTTLGEKKVGDRVNIEIDV----LAKYVERLLAAGKASQ 199 (204)
T ss_pred EEecchhhcchhhccCCCEEEEeEcH----HHHHHHHHHhhccccc
Confidence 99999999999999999999999996 8999999998665543
No 5
>PRK09289 riboflavin synthase subunit alpha; Provisional
Probab=100.00 E-value=6.2e-75 Score=498.85 Aligned_cols=192 Identities=40% Similarity=0.632 Sum_probs=186.8
Q ss_pred CcceeeeceEEEEEEEEcCCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFSYNDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQ 80 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~~~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd 80 (229)
|||||||++|+|.++++.+++++++++.|..+ ..+++|||||||||||||++++++.|+|++|||||++|||+.|++||
T Consensus 1 MFtGiV~~~g~V~~i~~~~~~~~~~i~~~~~~-~~l~~g~SIAvnGvcLTV~~~~~~~f~~~l~~eTl~~T~l~~l~~G~ 79 (194)
T PRK09289 1 MFTGIVEEVGTVESIEPKGDGLRLTIEAGKLL-SDLKLGDSIAVNGVCLTVTEIDGDSFTVDVSPETLRRTNLGDLKVGD 79 (194)
T ss_pred CCCEEeCeEEEEEEEEEcCCcEEEEEEcCccc-cccccCCEEEEccEEEEEEEEcCCEEEEEEEHHHhhhCchhhccCCC
Confidence 99999999999999999999999999998654 45999999999999999999999999999999999999999999999
Q ss_pred eeeeccCCCCCceecceeeEEEEeEEEEEEEEEEcCCeEEEEEEeccchhccceeeeccEEEceeeeeeeeEeCcEEEEE
Q psy4641 81 FVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQALEKNYRMEIQMTNKSLMKYVFYKGYVAIDGISLTIGKVFEDYFYVH 160 (229)
Q Consensus 81 ~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~~~~~~~~~i~~p~~~~~~~iv~KGsIavdGvSLTV~~v~~~~f~v~ 160 (229)
+||||||+++|||+||||||||||++|+|.++++.+++++++|++| +.+++|+++|||||+|||||||+++.+++|+|+
T Consensus 80 ~VNLEra~~~~~~~gGHm~tGhVd~~g~I~~i~~~~~~~~~~i~~~-~~~~~~l~~kgSIavdGvsLTV~~~~~~~f~v~ 158 (194)
T PRK09289 80 RVNLERALRLGDRLGGHIVSGHVDGTGEIVSIEKEGNSVEFRFKAP-AELAKYIVEKGSIAVDGVSLTVNEVDGDRFSVN 158 (194)
T ss_pred EEEEeEcccCCCcccceeEEEEEEEEEEEEEEEECCCcEEEEEECC-hHHhcccccCCEEEEccEEEEEEEEcCCEEEEE
Confidence 9999999999999999999999999999999999999999999999 889999999999999999999999999999999
Q ss_pred eehhhHhhccCCCCCCCCEeEEcccCccchHHHHHHHH
Q psy4641 161 LIPETMEKTTMSKKAVGDALNIEVDSQTQVIVNTVERV 198 (229)
Q Consensus 161 lIP~Tl~~T~l~~~k~Gd~VNiE~D~~t~~i~kyv~~~ 198 (229)
|||||+++|||+.||+||+||||+|+ ++||++|+
T Consensus 159 lipeTl~~T~l~~~k~G~~VNlE~D~----~~kyv~~~ 192 (194)
T PRK09289 159 LIPHTLENTTLGEKKVGDRVNLEIDL----LAKYVERL 192 (194)
T ss_pred EeHHHHhhCccccCCCCCEEEEeEeh----HHHHHHhh
Confidence 99999999999999999999999996 89999986
No 6
>KOG3310|consensus
Probab=100.00 E-value=5.3e-61 Score=401.56 Aligned_cols=200 Identities=33% Similarity=0.528 Sum_probs=189.2
Q ss_pred CcceeeeceEEEEEEEEcC-CeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFSYN-DFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVD 79 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~~~-~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~G 79 (229)
||||+|+++|+|++....+ +++.+.|.++ ..+.++..||||||||+||||++++...|+|-+.||||++|||++|+.|
T Consensus 1 mftgive~mG~Vkd~~~~dd~Gf~~kI~A~-~iL~Dch~GDSIAVNGtCLTVTeFn~~~FtVGiaPEtlr~tnl~~~k~G 79 (210)
T KOG3310|consen 1 MFTGIVECMGEVKDLGMADDGGFDLKIGAR-VILEDCHLGDSIAVNGTCLTVTEFNAEEFTVGIAPETLRKTNLEELKKG 79 (210)
T ss_pred CccchHhhheehhhcCccccCCEEEEecCC-eeeeecccCCeEEEccEEEEEEeecccceEEecCHHHhhhccHHHHhcC
Confidence 9999999999999988754 5788888776 4579999999999999999999999999999999999999999999999
Q ss_pred CeeeeccCCCCCceecceeeEEEEeEEEEEEEEEEcCCeEEEEEEeccchhccceeeeccEEEceeeeeeeeEe--CcEE
Q psy4641 80 QFVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQALEKNYRMEIQMTNKSLMKYVFYKGYVAIDGISLTIGKVF--EDYF 157 (229)
Q Consensus 80 d~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~~~~~~~~~i~~p~~~~~~~iv~KGsIavdGvSLTV~~v~--~~~f 157 (229)
++||||||+....|+|||+||||||++|.|.+.+.+|++.++.|+..++.+.||+++||+||+||.||||.+|. ++.|
T Consensus 80 ~pVNLERAv~~~~RmGGH~VQGHVDtva~Ivs~~~eG~si~f~f~~rD~~~lKYIV~KGfiavDGTSLTi~~Vd~~~s~F 159 (210)
T KOG3310|consen 80 SPVNLERAVQPVSRMGGHVVQGHVDTVAVIVSMEVEGDSIWFKFKLRDKGLLKYIVPKGFIAVDGTSLTIVDVDDEESCF 159 (210)
T ss_pred CccchhhhccccccccceEEEeeecceEEEEEecccCCEEEEEEEecCccceEEEecccEEEEcCceEEEEEEcCCCCeE
Confidence 99999999999999999999999999999999999999999999987689999999999999999999999997 6689
Q ss_pred EEEeehhhHhhccCCCCCCCCEeEEcccCccchHHHHHHHHHhhcccc
Q psy4641 158 YVHLIPETMEKTTMSKKAVGDALNIEVDSQTQVIVNTVERVLKENYGN 205 (229)
Q Consensus 158 ~v~lIP~Tl~~T~l~~~k~Gd~VNiE~D~~t~~i~kyv~~~l~~~~~~ 205 (229)
.++.|.||+++-.+..+|+||+||+|+|+ ++||+||++...++.
T Consensus 160 ~imMI~yTQ~nVimp~KkiGd~VN~EVD~----~GKy~Ekl~~~~l~~ 203 (210)
T KOG3310|consen 160 NIMMIAYTQQNVIMPTKKIGDKVNLEVDI----MGKYVEKLLTSTLGG 203 (210)
T ss_pred EEEEeeeccccEEEechhcCceeeEEEeh----HhHHHHHHHHHHhhc
Confidence 99999999999999999999999999996 899999998766654
No 7
>PF00677 Lum_binding: Lumazine binding domain; InterPro: IPR001783 The following proteins have been shown [, ] to be structurally and evolutionary related: Riboflavin synthase alpha chain (2.5.1.9 from EC) (RS-alpha) (gene ribC in Escherichia coli, ribB in Bacillus subtilis and Photobacterium leiognathi, RIB5 in yeast. This enzyme synthesises riboflavin from two moles of 6,7- dimethyl-8-(1'-D-ribityl)lumazine (Lum), a pteridine-derivative. Photobacterium phosphoreum lumazine protein (LumP) (gene luxL). LumP is a protein that modulates the colour of the bioluminescence emission of bacterial luciferase. In the presence of LumP, light emission is shifted to higher energy values (shorter wavelength). LumP binds non-covalently to 6,7-dimethyl-8-(1'-D-ribityl)lumazine. Vibrio fischeri yellow fluorescent protein (YFP) (gene luxY). Like LumP, YFP modulates light emission but towards a longer wavelength. YFP binds non-covalently to FMN. These proteins seem to have evolved from the duplication of a domain of about 100 residues. In its C-terminal section, this domain contains a conserved motif [KR]-V-N-[LI]-E which has been proposed to be the binding site for lumazine (Lum) and some of its derivatives. RS-alpha which binds two molecules of Lum has two perfect copies of this motif, while LumP which binds one molecule of Lum, has a Glu instead of Lys/Arg in the first position of the second copy of the motif. Similarly, YFP, which binds to one molecule of FMN, also seems to have a potentially dysfunctional binding site by substitution of Gly for Glu in the last position of the first copy of the motif.; GO: 0004746 riboflavin synthase activity, 0009231 riboflavin biosynthetic process; PDB: 3DDY_A 1KZL_A 3A3G_B 3A35_B 3A3B_B 1I8D_C 1PKV_B 1HZE_B 1I18_B.
Probab=99.96 E-value=4.5e-30 Score=194.26 Aligned_cols=85 Identities=40% Similarity=0.664 Sum_probs=76.7
Q ss_pred ceeeeceEEEEEEEEcCCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCee
Q psy4641 3 TGIVQGIGKVSAVFSYNDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFV 82 (229)
Q Consensus 3 TGhId~~G~I~~i~~~~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~V 82 (229)
||||+++|+|.++++.+++++++|++|+..+.++..|||||+|||||||+++.++.|+|+++||||++|||+.|++||+|
T Consensus 1 tGiI~~~g~I~~i~~~~~~~~~~i~~~~~~~~~~~~g~SIavnGvcLTV~~~~~~~f~~~l~~eTl~~T~l~~~~~G~~V 80 (85)
T PF00677_consen 1 TGIIDGTGKIISIEKNGDSQRLRIEIPDKILSDLKIGGSIAVNGVCLTVTDINEDWFEVDLIPETLRRTTLGNLKVGDRV 80 (85)
T ss_dssp -S--SEEEEEEEEEEESSEEEEEEEESTGGGGTG-TTSEEEETTEEEEEEEEETTEEEEEEEHHHHHCSSGGG--TTSEE
T ss_pred CcCCCEEEEEEEEEECCCCEEEEEEcCHHHHhhCccCcEEEECCeeeEEEEecCCEEEEechHHHhhhchhccCCCCCEE
Confidence 79999999999999999999999999977778999999999999999999999999999999999999999999999999
Q ss_pred eeccC
Q psy4641 83 NLERS 87 (229)
Q Consensus 83 NLEra 87 (229)
|||+|
T Consensus 81 NlE~d 85 (85)
T PF00677_consen 81 NLERD 85 (85)
T ss_dssp EEEEE
T ss_pred EEeEC
Confidence 99986
No 8
>PF00677 Lum_binding: Lumazine binding domain; InterPro: IPR001783 The following proteins have been shown [, ] to be structurally and evolutionary related: Riboflavin synthase alpha chain (2.5.1.9 from EC) (RS-alpha) (gene ribC in Escherichia coli, ribB in Bacillus subtilis and Photobacterium leiognathi, RIB5 in yeast. This enzyme synthesises riboflavin from two moles of 6,7- dimethyl-8-(1'-D-ribityl)lumazine (Lum), a pteridine-derivative. Photobacterium phosphoreum lumazine protein (LumP) (gene luxL). LumP is a protein that modulates the colour of the bioluminescence emission of bacterial luciferase. In the presence of LumP, light emission is shifted to higher energy values (shorter wavelength). LumP binds non-covalently to 6,7-dimethyl-8-(1'-D-ribityl)lumazine. Vibrio fischeri yellow fluorescent protein (YFP) (gene luxY). Like LumP, YFP modulates light emission but towards a longer wavelength. YFP binds non-covalently to FMN. These proteins seem to have evolved from the duplication of a domain of about 100 residues. In its C-terminal section, this domain contains a conserved motif [KR]-V-N-[LI]-E which has been proposed to be the binding site for lumazine (Lum) and some of its derivatives. RS-alpha which binds two molecules of Lum has two perfect copies of this motif, while LumP which binds one molecule of Lum, has a Glu instead of Lys/Arg in the first position of the second copy of the motif. Similarly, YFP, which binds to one molecule of FMN, also seems to have a potentially dysfunctional binding site by substitution of Gly for Glu in the last position of the first copy of the motif.; GO: 0004746 riboflavin synthase activity, 0009231 riboflavin biosynthetic process; PDB: 3DDY_A 1KZL_A 3A3G_B 3A35_B 3A3B_B 1I8D_C 1PKV_B 1HZE_B 1I18_B.
Probab=99.96 E-value=1.9e-29 Score=190.84 Aligned_cols=85 Identities=32% Similarity=0.568 Sum_probs=74.8
Q ss_pred EEEEeEEEEEEEEEEcCCeEEEEEEeccchhccceeeeccEEEceeeeeeeeEeCcEEEEEeehhhHhhccCCCCCCCCE
Q psy4641 100 SGHIIDVANVRAIQALEKNYRMEIQMTNKSLMKYVFYKGYVAIDGISLTIGKVFEDYFYVHLIPETMEKTTMSKKAVGDA 179 (229)
Q Consensus 100 ~GHVd~~~~i~~i~~~~~~~~~~i~~p~~~~~~~iv~KGsIavdGvSLTV~~v~~~~f~v~lIP~Tl~~T~l~~~k~Gd~ 179 (229)
|||||++|+|.++++.+++++++|++| +...+++..+||||+|||||||.++.+++|+|.|+|||+++|||+.||+||+
T Consensus 1 tGiI~~~g~I~~i~~~~~~~~~~i~~~-~~~~~~~~~g~SIavnGvcLTV~~~~~~~f~~~l~~eTl~~T~l~~~~~G~~ 79 (85)
T PF00677_consen 1 TGIIDGTGKIISIEKNGDSQRLRIEIP-DKILSDLKIGGSIAVNGVCLTVTDINEDWFEVDLIPETLRRTTLGNLKVGDR 79 (85)
T ss_dssp -S--SEEEEEEEEEEESSEEEEEEEES-TGGGGTG-TTSEEEETTEEEEEEEEETTEEEEEEEHHHHHCSSGGG--TTSE
T ss_pred CcCCCEEEEEEEEEECCCCEEEEEEcC-HHHHhhCccCcEEEECCeeeEEEEecCCEEEEechHHHhhhchhccCCCCCE
Confidence 799999999999999999999999999 5555666666999999999999999999999999999999999999999999
Q ss_pred eEEccc
Q psy4641 180 LNIEVD 185 (229)
Q Consensus 180 VNiE~D 185 (229)
||||.|
T Consensus 80 VNlE~d 85 (85)
T PF00677_consen 80 VNLERD 85 (85)
T ss_dssp EEEEEE
T ss_pred EEEeEC
Confidence 999987
No 9
>PRK09289 riboflavin synthase subunit alpha; Provisional
Probab=99.95 E-value=1.3e-28 Score=211.93 Aligned_cols=88 Identities=28% Similarity=0.415 Sum_probs=86.0
Q ss_pred CcceeeeceEEEEEEEEcCCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFSYNDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQ 80 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~~~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd 80 (229)
|||||||++|+|.++++.+++++++|++|+.+++|+++|||||||||||||+++.++.|+|++|||||++|||+.|++||
T Consensus 97 m~tGhVd~~g~I~~i~~~~~~~~~~i~~~~~~~~~l~~kgSIavdGvsLTV~~~~~~~f~v~lipeTl~~T~l~~~k~G~ 176 (194)
T PRK09289 97 IVSGHVDGTGEIVSIEKEGNSVEFRFKAPAELAKYIVEKGSIAVDGVSLTVNEVDGDRFSVNLIPHTLENTTLGEKKVGD 176 (194)
T ss_pred eEEEEEEEEEEEEEEEECCCcEEEEEECChHHhcccccCCEEEEccEEEEEEEEcCCEEEEEEeHHHHhhCccccCCCCC
Confidence 89999999999999999999999999999888899999999999999999999999999999999999999999999999
Q ss_pred eeeeccCC
Q psy4641 81 FVNLERSA 88 (229)
Q Consensus 81 ~VNLEral 88 (229)
+||||.++
T Consensus 177 ~VNlE~D~ 184 (194)
T PRK09289 177 RVNLEIDL 184 (194)
T ss_pred EEEEeEeh
Confidence 99999885
No 10
>PRK13020 riboflavin synthase subunit alpha; Provisional
Probab=99.95 E-value=8.6e-28 Score=208.58 Aligned_cols=88 Identities=24% Similarity=0.370 Sum_probs=86.2
Q ss_pred CcceeeeceEEEEEEEEcCCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFSYNDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQ 80 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~~~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd 80 (229)
|||||||++|+|.++++.++.++++|++|+.+++|+.+|||||+|||||||+++.++.|+|++|||||++|||+.+++||
T Consensus 98 ~v~GhVd~~~~i~~i~~~~~~~~~~i~~~~~~~~~i~~kgSIaidGvsLTV~~v~~~~f~v~lIp~Tl~~T~l~~~k~G~ 177 (206)
T PRK13020 98 ILSGHVDTTATVVEISDTEENYDIRFRVPPEWMKYIFAKGFIGVNGCSLTVGEVDESEFEVHLIPETLRATNLGAKKVGD 177 (206)
T ss_pred eEEEEccEEEEEEEEEEcCCCEEEEEEEChHHhcccccCCEEEEeeEEEEEEeEcCCEEEEEEeHHHHhhcccccCCCCC
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeeccCC
Q psy4641 81 FVNLERSA 88 (229)
Q Consensus 81 ~VNLEral 88 (229)
+||||.++
T Consensus 178 ~VNiE~D~ 185 (206)
T PRK13020 178 LVNIEIDS 185 (206)
T ss_pred EEEEeEec
Confidence 99999884
No 11
>PLN02741 riboflavin synthase
Probab=99.94 E-value=2.7e-27 Score=203.84 Aligned_cols=88 Identities=22% Similarity=0.250 Sum_probs=85.7
Q ss_pred CcceeeeceEEEEEEEEcCCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEe--CCEEEEEEeHhHHhhccCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFSYNDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIE--GNYISFDVINETLKITNLKAVAV 78 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~~~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~--~~~f~v~lipeTL~~TtL~~lk~ 78 (229)
+++||||++|+|.++++.++++.++|++|+++++|+.+|||||+|||||||.+++ ++.|+|++||||++.|||+.+++
T Consensus 98 ~V~GHVd~~~~i~~~~~~~~~~~~~i~~p~~~~~yi~~KGsIavdGvSLTV~~v~~~~~~f~v~lIP~T~~~T~l~~~k~ 177 (194)
T PLN02741 98 FVQGHVDGTGTIVEQEPEGDSLWVKVKADPELLKYIVPKGFIAVDGTSLTVVDVDDEEGCFNFMLVPYTQQKVVIPLKKV 177 (194)
T ss_pred eEeEECcEEEEEEEEEECCCcEEEEEEECHHHHcccccCcEEEEeeEEEEEEEeecCCCEEEEEEcHHHHhhcccccCCC
Confidence 5899999999999999999999999999999999999999999999999999999 89999999999999999999999
Q ss_pred CCeeeeccCC
Q psy4641 79 DQFVNLERSA 88 (229)
Q Consensus 79 Gd~VNLEral 88 (229)
||+||||.++
T Consensus 178 Gd~VNiE~D~ 187 (194)
T PLN02741 178 GDKVNLEVDI 187 (194)
T ss_pred CCEEEEeEEc
Confidence 9999999885
No 12
>TIGR00187 ribE riboflavin synthase, alpha subunit. The name ribE was selected, from among alternatives including ribB and ribC, to match the usage in EcoCyc.
Probab=99.94 E-value=4.3e-27 Score=203.44 Aligned_cols=88 Identities=19% Similarity=0.276 Sum_probs=85.7
Q ss_pred CcceeeeceEEEEEEEEcCCeEEEEEEc-CCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFSYNDFKSMTIWF-PSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVD 79 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~~~~~~~l~i~~-p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~G 79 (229)
+++||||++|+|.++++.++++.++|++ |+++++|+.+|||||+|||||||.++.++.|++.+||||++.|||+.+++|
T Consensus 98 ~V~GHVd~~~~i~~~~~~~~~~~~~~~~~p~~~~~yiv~KGsIaidGvSLTV~~v~~~~f~v~lIP~T~~~T~l~~~~~G 177 (200)
T TIGR00187 98 FVSGHIDTTAEIAKIETSENNVQFWFKLQDSELMKYIVEKGSIAVDGISLTIGKVTETRFCVSLIPHTLENTILGLKKLG 177 (200)
T ss_pred eEeEEccEEEEEEEEEEcCCcEEEEEEECCHHHHhccccCCEEEEeeeEEEEEeEcCCEEEEEEehHhHhhCccccCCCC
Confidence 5899999999999999999999999999 888999999999999999999999999999999999999999999999999
Q ss_pred CeeeeccCC
Q psy4641 80 QFVNLERSA 88 (229)
Q Consensus 80 d~VNLEral 88 (229)
|+||||.++
T Consensus 178 d~VNiE~D~ 186 (200)
T TIGR00187 178 DRVNIEIDM 186 (200)
T ss_pred CEEEEeEhh
Confidence 999999886
No 13
>COG0307 RibC Riboflavin synthase alpha chain [Coenzyme metabolism]
Probab=99.93 E-value=4.5e-26 Score=196.55 Aligned_cols=88 Identities=26% Similarity=0.362 Sum_probs=84.1
Q ss_pred CcceeeeceEEEEEEEEcCCeEEEEEE-cCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCC
Q psy4641 1 MFTGIVQGIGKVSAVFSYNDFKSMTIW-FPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVD 79 (229)
Q Consensus 1 MFTGhId~~G~I~~i~~~~~~~~l~i~-~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~G 79 (229)
.+|||||++|+|.++++.+++++++|. .|+++++|+.+||||||||+||||.++.+++|+|.+||||+++|+|+.+++|
T Consensus 95 ~VsGHVDg~g~I~~i~~~~na~~~~~~~~~~~l~kyiv~KGsIavDGiSLTV~~v~~~~F~V~lIPhT~~~T~l~~~~~G 174 (204)
T COG0307 95 LVSGHVDGTGEIVKIEKDGNAVRFWFKAPPEELAKYIVEKGSIAVDGISLTVNEVEDDTFSVSLIPHTLERTTLGEKKVG 174 (204)
T ss_pred EEEeEEeeEEEEEEEEEcCCeEEEEEEcCCHHHHhhhcccceEEEeeEEEEEEEEcCCEEEEEEEecchhhcchhhccCC
Confidence 379999999999999999999999988 5578899999999999999999999999999999999999999999999999
Q ss_pred CeeeeccCC
Q psy4641 80 QFVNLERSA 88 (229)
Q Consensus 80 d~VNLEral 88 (229)
|+||||.++
T Consensus 175 d~VNiE~D~ 183 (204)
T COG0307 175 DRVNIEIDV 183 (204)
T ss_pred CEEEEeEcH
Confidence 999999876
No 14
>KOG3310|consensus
Probab=99.61 E-value=8.3e-16 Score=129.65 Aligned_cols=87 Identities=17% Similarity=0.193 Sum_probs=81.4
Q ss_pred cceeeeceEEEEEEEEcCCeEEEEEEc-CCCCCCCCccCCcEEEcceeeeeeEEe--CCEEEEEEeHhHHhhccCCCCCC
Q psy4641 2 FTGIVQGIGKVSAVFSYNDFKSMTIWF-PSDLLDGISISCSVAINGVCLSVTKIE--GNYISFDVINETLKITNLKAVAV 78 (229)
Q Consensus 2 FTGhId~~G~I~~i~~~~~~~~l~i~~-p~~~~~~l~~g~SIAVnGvcLTV~~i~--~~~f~v~lipeTL~~TtL~~lk~ 78 (229)
++||||++|.|.+.+.++++..+.++. .+.+++|+++||.||+||.|||+++++ ++.|.+.+|.+|..+--....++
T Consensus 99 VQGHVDtva~Ivs~~~eG~si~f~f~~rD~~~lKYIV~KGfiavDGTSLTi~~Vd~~~s~F~imMI~yTQ~nVimp~Kki 178 (210)
T KOG3310|consen 99 VQGHVDTVAVIVSMEVEGDSIWFKFKLRDKGLLKYIVPKGFIAVDGTSLTIVDVDDEESCFNIMMIAYTQQNVIMPTKKI 178 (210)
T ss_pred EEeeecceEEEEEecccCCEEEEEEEecCccceEEEecccEEEEcCceEEEEEEcCCCCeEEEEEeeeccccEEEechhc
Confidence 689999999999999999999999994 567889999999999999999999998 56899999999999999999999
Q ss_pred CCeeeeccCC
Q psy4641 79 DQFVNLERSA 88 (229)
Q Consensus 79 Gd~VNLEral 88 (229)
||+||||.++
T Consensus 179 Gd~VN~EVD~ 188 (210)
T KOG3310|consen 179 GDKVNLEVDI 188 (210)
T ss_pred CceeeEEEeh
Confidence 9999999665
No 15
>PF00970 FAD_binding_6: Oxidoreductase FAD-binding domain; InterPro: IPR008333 These sequences contain an oxidoreductase FAD-binding domain. To date, the 3D-structures of the flavoprotein domain of Zea mays (Maize) nitrate reductase [] and of pig NADH:cytochrome b5 reductase [] have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase []: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).; PDB: 1JB9_A 3LVB_A 3LO8_A 1FRN_A 1FND_A 1BX1_A 1FNC_A 1FNB_A 1BX0_A 1FRQ_A ....
Probab=79.45 E-value=7.1 Score=28.78 Aligned_cols=79 Identities=14% Similarity=0.083 Sum_probs=49.5
Q ss_pred EEEEEEEEc-CCeEEEEEEcCCCC-CCCCccCCcEEEcce--------eeeeeEEeC--CEEEEEE--eHhHHhhccCCC
Q psy4641 10 GKVSAVFSY-NDFKSMTIWFPSDL-LDGISISCSVAINGV--------CLSVTKIEG--NYISFDV--INETLKITNLKA 75 (229)
Q Consensus 10 G~I~~i~~~-~~~~~l~i~~p~~~-~~~l~~g~SIAVnGv--------cLTV~~i~~--~~f~v~l--ipeTL~~TtL~~ 75 (229)
++|.++++. ++...++++.|... .....+|..|.+..- .+|+.+... +.+.+.+ .|.-.-..-|.+
T Consensus 2 ~~v~~~~~~s~~~~~~~~~~~~~~~~~~~~pGQ~v~v~~~~~~~~~~R~yS~~s~~~~~~~~~~~ik~~~~G~~S~~L~~ 81 (99)
T PF00970_consen 2 AKVVEIEELSPDVKIFRFKLPDPDQKLDFKPGQFVSVRVPINGKQVSRPYSPASSPDDKGYLEFAIKRYPNGRVSRYLHQ 81 (99)
T ss_dssp EEEEEEEEESSSEEEEEEEESSTTTT-SSTTT-EEEEEEEETTEEEEEEEEBCSSTTSSSEEEEEEEECTTSHHHHHHHT
T ss_pred EEEEEEEEeCCCeEEEEEEECCCCcccccCcceEEEEEEccCCcceecceeEeeecCCCCcEEEEEEeccCCHHHHHHHh
Confidence 567777664 46778999987433 235788887776543 345444433 3555444 444544557788
Q ss_pred CCCCCeeeeccCC
Q psy4641 76 VAVDQFVNLERSA 88 (229)
Q Consensus 76 lk~Gd~VNLEral 88 (229)
+++||.|.++-|.
T Consensus 82 l~~Gd~v~i~gP~ 94 (99)
T PF00970_consen 82 LKPGDEVEIRGPY 94 (99)
T ss_dssp SCTTSEEEEEEEE
T ss_pred CCCCCEEEEEEcc
Confidence 9999999997654
No 16
>PF00970 FAD_binding_6: Oxidoreductase FAD-binding domain; InterPro: IPR008333 These sequences contain an oxidoreductase FAD-binding domain. To date, the 3D-structures of the flavoprotein domain of Zea mays (Maize) nitrate reductase [] and of pig NADH:cytochrome b5 reductase [] have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase []: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).; PDB: 1JB9_A 3LVB_A 3LO8_A 1FRN_A 1FND_A 1BX1_A 1FNC_A 1FNB_A 1BX0_A 1FRQ_A ....
Probab=76.59 E-value=12 Score=27.52 Aligned_cols=76 Identities=20% Similarity=0.270 Sum_probs=44.8
Q ss_pred EEEEEEEEcCC-eEEEEEEeccchhccc-eeeeccEE----Ece----eeeeeeeEeCc--E--EEEEeehhhHhhccCC
Q psy4641 107 ANVRAIQALEK-NYRMEIQMTNKSLMKY-VFYKGYVA----IDG----ISLTIGKVFED--Y--FYVHLIPETMEKTTMS 172 (229)
Q Consensus 107 ~~i~~i~~~~~-~~~~~i~~p~~~~~~~-iv~KGsIa----vdG----vSLTV~~v~~~--~--f~v~lIP~Tl~~T~l~ 172 (229)
++|.++++..+ ...++|+.| ...... ..+..+|. ++| =+.|+++..++ . |.|...|.-.-..-|.
T Consensus 2 ~~v~~~~~~s~~~~~~~~~~~-~~~~~~~~~pGQ~v~v~~~~~~~~~~R~yS~~s~~~~~~~~~~~ik~~~~G~~S~~L~ 80 (99)
T PF00970_consen 2 AKVVEIEELSPDVKIFRFKLP-DPDQKLDFKPGQFVSVRVPINGKQVSRPYSPASSPDDKGYLEFAIKRYPNGRVSRYLH 80 (99)
T ss_dssp EEEEEEEEESSSEEEEEEEES-STTTT-SSTTT-EEEEEEEETTEEEEEEEEBCSSTTSSSEEEEEEEECTTSHHHHHHH
T ss_pred EEEEEEEEeCCCeEEEEEEEC-CCCcccccCcceEEEEEEccCCcceecceeEeeecCCCCcEEEEEEeccCCHHHHHHH
Confidence 67787776554 567899998 433211 22222233 333 24555555332 3 5555566565566778
Q ss_pred CCCCCCEeEEc
Q psy4641 173 KKAVGDALNIE 183 (229)
Q Consensus 173 ~~k~Gd~VNiE 183 (229)
.+++||.|.|+
T Consensus 81 ~l~~Gd~v~i~ 91 (99)
T PF00970_consen 81 QLKPGDEVEIR 91 (99)
T ss_dssp TSCTTSEEEEE
T ss_pred hCCCCCEEEEE
Confidence 89999999885
No 17
>PRK05802 hypothetical protein; Provisional
Probab=73.15 E-value=18 Score=33.42 Aligned_cols=80 Identities=15% Similarity=0.140 Sum_probs=54.2
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCCCC-CCCccCCcEEEc----c----eeeeeeEEe--CCEEEEEEeHhHHhhccCCCC
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSDLL-DGISISCSVAIN----G----VCLSVTKIE--GNYISFDVINETLKITNLKAV 76 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~~~-~~l~~g~SIAVn----G----vcLTV~~i~--~~~f~v~lipeTL~~TtL~~l 76 (229)
.++|.++++. ++.+.++++.|..+. ....+|..+.+. | ..++|.+.. ++.+++.+-..-.....|..+
T Consensus 66 ~~~I~~~~~~t~dv~~l~l~~p~~~~~~~~~PGQFv~l~~~~~~~~~~rP~SI~~~~~~~g~l~l~ik~~G~~T~~L~~l 145 (320)
T PRK05802 66 ECKIIKKENIEDNLIILTLKVPHKLARDLVYPGSFVFLRNKNSSSFFDVPISIMEADTEENIIKVAIEIRGVKTKKIAKL 145 (320)
T ss_pred eEEEEEEEEecCCEEEEEEECCchhhhccCCCCceEEEEEcCCCCEeEEeeEecccCCCCCEEEEEEEecChhHHHHhcC
Confidence 4678887765 568889998875432 246899988775 3 677777664 355666553222222345689
Q ss_pred CCCCeeeeccCC
Q psy4641 77 AVDQFVNLERSA 88 (229)
Q Consensus 77 k~Gd~VNLEral 88 (229)
++||.|.+.-|+
T Consensus 146 ~~Gd~l~v~GP~ 157 (320)
T PRK05802 146 NKGDEILLRGPY 157 (320)
T ss_pred CCCCEEEEeCCC
Confidence 999999999986
No 18
>PRK05802 hypothetical protein; Provisional
Probab=73.05 E-value=14 Score=33.98 Aligned_cols=78 Identities=12% Similarity=0.224 Sum_probs=50.3
Q ss_pred EEEEEEEEEEc-CCeEEEEEEeccchhc-cceeeeccEEEc----e----eeeeeeeEe--CcEEEEEeehhhHhhccCC
Q psy4641 105 DVANVRAIQAL-EKNYRMEIQMTNKSLM-KYVFYKGYVAID----G----ISLTIGKVF--EDYFYVHLIPETMEKTTMS 172 (229)
Q Consensus 105 ~~~~i~~i~~~-~~~~~~~i~~p~~~~~-~~iv~KGsIavd----G----vSLTV~~v~--~~~f~v~lIP~Tl~~T~l~ 172 (229)
-.++|+++++. ++.+.++|+.| ..+. ...-|..+|.|. | .+++|++.. ++.+++.+--.=....-|.
T Consensus 65 ~~~~I~~~~~~t~dv~~l~l~~p-~~~~~~~~~PGQFv~l~~~~~~~~~~rP~SI~~~~~~~g~l~l~ik~~G~~T~~L~ 143 (320)
T PRK05802 65 YECKIIKKENIEDNLIILTLKVP-HKLARDLVYPGSFVFLRNKNSSSFFDVPISIMEADTEENIIKVAIEIRGVKTKKIA 143 (320)
T ss_pred EeEEEEEEEEecCCEEEEEEECC-chhhhccCCCCceEEEEEcCCCCEeEEeeEecccCCCCCEEEEEEEecChhHHHHh
Confidence 34667777655 66778899988 5433 223566666554 3 678888774 3566666644333333457
Q ss_pred CCCCCCEeEEc
Q psy4641 173 KKAVGDALNIE 183 (229)
Q Consensus 173 ~~k~Gd~VNiE 183 (229)
.+++||.|.|.
T Consensus 144 ~l~~Gd~l~v~ 154 (320)
T PRK05802 144 KLNKGDEILLR 154 (320)
T ss_pred cCCCCCEEEEe
Confidence 89999999884
No 19
>PF07703 A2M_N_2: Alpha-2-macroglobulin family N-terminal region; InterPro: IPR011625 This is a domain of the alpha-2-macroglobulin family. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; PDB: 2QKI_D 3L3O_D 3NMS_A 2ICF_A 2A73_A 2ICE_D 2HR0_A 2A74_A 2XWJ_G 3OHX_A ....
Probab=72.32 E-value=10 Score=29.48 Aligned_cols=97 Identities=16% Similarity=0.305 Sum_probs=58.6
Q ss_pred CCCCCCCeeeeccCCCCCceecceee-----EEEEeEEEEEEEEEEcCCeEEEEEEeccchhc------ccee-e-eccE
Q psy4641 74 KAVAVDQFVNLERSAKMNTEVGGHFL-----SGHIIDVANVRAIQALEKNYRMEIQMTNKSLM------KYVF-Y-KGYV 140 (229)
Q Consensus 74 ~~lk~Gd~VNLEral~~gdrlgGH~V-----~GHVd~~~~i~~i~~~~~~~~~~i~~p~~~~~------~~iv-~-KGsI 140 (229)
..+++|+.+.+-...... .|.+. .|.|-..+.+. -.++...+.|.++ +++. -|.+ + .|.+
T Consensus 8 ~~~~~Ge~~~v~v~~~~~---~~~~~~~v~s~g~I~~~~~~~---~~~~~~~~~~~v~-~~~~P~~~v~~~~v~~~~g~~ 80 (136)
T PF07703_consen 8 DSYKPGETAKVTVQSPFP---NGTFLYLVESRGKIVSTGSVE---LKNGSTTFEFPVT-PDMAPNFYVLAYYVRPADGEV 80 (136)
T ss_dssp SSB-TTSEEEEEEEEESC---ESEEEEEEEETTEEEEEEEEE---CTTTSSEEEEEE--GGGTSEEEEEEEEETTCTCEE
T ss_pred CCcCCCCEEEEEEEcCCC---ccEEEEEEEECCeEEEEEEEE---ecCCcEEEEEecc-hhcCCcEEEEEEEEcCCCCeE
Confidence 467888888776555544 22222 23333333222 2344446777776 5543 2333 3 7888
Q ss_pred EEceeeeeeeeEeCcEEEEEeehhhHhhccCCCCCCCCEeEEccc
Q psy4641 141 AIDGISLTIGKVFEDYFYVHLIPETMEKTTMSKKAVGDALNIEVD 185 (229)
Q Consensus 141 avdGvSLTV~~v~~~~f~v~lIP~Tl~~T~l~~~k~Gd~VNiE~D 185 (229)
.-|=+.+.|.....+.+++..=| ...+||+.+++++.
T Consensus 81 ~~~s~~i~V~~~~~~~v~l~~~~--------~~~~Pg~~~~~~i~ 117 (136)
T PF07703_consen 81 VADSVWIEVEPCFELKVELTASP--------DEYKPGEEVTLRIK 117 (136)
T ss_dssp EEEEEEEEBGCSGSSSEEEEESS--------SSBTTTSEEEEEEE
T ss_pred EEEEEEEEecccccceEEEEEec--------ceeCCCCEEEEEEE
Confidence 88888888887445566666655 67899999999876
No 20
>PRK08221 anaerobic sulfite reductase subunit B; Provisional
Probab=69.43 E-value=16 Score=32.31 Aligned_cols=76 Identities=8% Similarity=-0.013 Sum_probs=51.3
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc-----ceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCee
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN-----GVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFV 82 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn-----GvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~V 82 (229)
.++|.++++. ++.+.++++.| + ..++|..|.+. --.+++.+..++.|.|.+-..-.-...|..+++||.|
T Consensus 9 ~~~v~~i~~~t~~~~~~~l~~~--~--~~~pGQfi~l~~~~~~~~pySi~~~~~~~~~~~Ik~~G~~S~~L~~l~~Gd~v 84 (263)
T PRK08221 9 AYKILDITKHTDIEYTFRVEVD--G--PVKPGQFFEVSLPKVGEAPISVSDYGDGYIDLTIRRVGKVTDEIFNLKEGDKL 84 (263)
T ss_pred cEEEEEEeccCCcEEEEEecCC--C--CCCCCceEEEEeCCCCcceeeccCCCCCEEEEEEEeCCchhhHHHhCCCCCEE
Confidence 3678887754 45667777654 2 45788887664 2667776666677877775443333466689999999
Q ss_pred eeccCC
Q psy4641 83 NLERSA 88 (229)
Q Consensus 83 NLEral 88 (229)
.+..+.
T Consensus 85 ~v~gP~ 90 (263)
T PRK08221 85 FLRGPY 90 (263)
T ss_pred EEECCC
Confidence 998764
No 21
>cd06191 FNR_iron_sulfur_binding Iron-sulfur binding Ferredoxin Reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with a C-terminal iron-sulfur binding cluster domain. FNR was intially identified as a chloroplast reductase activity catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methnae assimilation in a variety of organisms. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which vary in
Probab=64.11 E-value=34 Score=29.02 Aligned_cols=78 Identities=21% Similarity=0.217 Sum_probs=48.5
Q ss_pred EEEEEEE-cCCeEEEEEEcCCCCCCCCccCCcEEE----cce----eeeeeEEe-CCEEEEEEeH--hHHhhccCC-CCC
Q psy4641 11 KVSAVFS-YNDFKSMTIWFPSDLLDGISISCSVAI----NGV----CLSVTKIE-GNYISFDVIN--ETLKITNLK-AVA 77 (229)
Q Consensus 11 ~I~~i~~-~~~~~~l~i~~p~~~~~~l~~g~SIAV----nGv----cLTV~~i~-~~~f~v~lip--eTL~~TtL~-~lk 77 (229)
+|.++++ .++.++++++.|....-...+|..+.+ +|- ++|+.+.. .+.+.+.+-. .-.-..-|. .++
T Consensus 2 ~v~~i~~~t~~~~~~~l~~~~~~~~~~~pGQ~v~l~~~~~~~~~~r~ySi~s~~~~~~l~~~v~~~~~G~~s~~l~~~~~ 81 (231)
T cd06191 2 RVAEVRSETPDAVTIVFAVPGPLQYGFRPGQHVTLKLDFDGEELRRCYSLCSSPAPDEISITVKRVPGGRVSNYLREHIQ 81 (231)
T ss_pred EEEEEEecCCCcEEEEEeCCCCCCCCCCCCCeEEEEEecCCeEEeeeeeccCCCCCCeEEEEEEECCCCccchHHHhcCC
Confidence 3555554 456788899876442224689999877 453 47887665 4556666532 211122243 689
Q ss_pred CCCeeeeccCC
Q psy4641 78 VDQFVNLERSA 88 (229)
Q Consensus 78 ~Gd~VNLEral 88 (229)
+||.|++.-+.
T Consensus 82 ~Gd~v~i~gP~ 92 (231)
T cd06191 82 PGMTVEVMGPQ 92 (231)
T ss_pred CCCEEEEeCCc
Confidence 99999998875
No 22
>TIGR03021 pilP_fam type IV pilus biogenesis protein PilP. Members of this protein family are found in type IV pilus biogenesis loci and include proteins designated PilP.
Probab=61.38 E-value=23 Score=28.50 Aligned_cols=51 Identities=16% Similarity=0.229 Sum_probs=43.2
Q ss_pred eEEEEEEEEcCCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEE
Q psy4641 9 IGKVSAVFSYNDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISF 61 (229)
Q Consensus 9 ~G~I~~i~~~~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v 61 (229)
.-+|.+|.-.++.++-++++|..-...++.|+. +.|..++|..|+.+.+.+
T Consensus 68 ~P~v~~I~G~~~~l~A~l~l~~G~~~~v~~G~~--lpgt~~~V~~I~~~~V~l 118 (119)
T TIGR03021 68 LPRVVEIFGRGGRLTATLRLPGGREVDVQVGDS--LPGTGYKVKSITLDGVVL 118 (119)
T ss_pred CCEEEEEEccCCCeEEEEEeCCCcEEEecCCCc--cCCCCcEEEEEeCCeEEE
Confidence 346888888888899999998776678999998 799999999999887654
No 23
>cd06221 sulfite_reductase_like Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is linked to ferredoxin and reduces NH2OH and SeO3 at a lesser rate than it's normal substate SO3(2-). Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+.
Probab=58.39 E-value=31 Score=30.17 Aligned_cols=75 Identities=16% Similarity=0.139 Sum_probs=46.8
Q ss_pred EEEEc-CCeEEEEEEcCCCC--CCCCccCCcEEEc----c-eeeeeeEEe--CCEEEEEEeHhHHhhccCCCCCCCCeee
Q psy4641 14 AVFSY-NDFKSMTIWFPSDL--LDGISISCSVAIN----G-VCLSVTKIE--GNYISFDVINETLKITNLKAVAVDQFVN 83 (229)
Q Consensus 14 ~i~~~-~~~~~l~i~~p~~~--~~~l~~g~SIAVn----G-vcLTV~~i~--~~~f~v~lipeTL~~TtL~~lk~Gd~VN 83 (229)
++++. ++...++++.++.. .....+|..+.+. | -.+|+.+.. ++.+.|.+-....-...|..+++|+.|+
T Consensus 3 ~i~~~t~~v~~~~l~~~~~~~~~~~~~pGQ~i~l~~~~~~~~pySi~s~~~~~~~l~~~Ik~~G~~S~~L~~l~~G~~v~ 82 (253)
T cd06221 3 EVVDETEDIKTFTLRLEDDDEELFTFKPGQFVMLSLPGVGEAPISISSDPTRRGPLELTIRRVGRVTEALHELKPGDTVG 82 (253)
T ss_pred eEEeccCCceEEEEEeCCCccccCCcCCCCEEEEEcCCCCccceEecCCCCCCCeEEEEEEeCChhhHHHHcCCCCCEEE
Confidence 44433 34456667765431 1356788888774 2 356776665 3567777654443344567889999999
Q ss_pred eccCC
Q psy4641 84 LERSA 88 (229)
Q Consensus 84 LEral 88 (229)
++-+.
T Consensus 83 i~gP~ 87 (253)
T cd06221 83 LRGPF 87 (253)
T ss_pred EECCc
Confidence 98764
No 24
>PRK08221 anaerobic sulfite reductase subunit B; Provisional
Probab=57.96 E-value=27 Score=30.88 Aligned_cols=73 Identities=8% Similarity=0.163 Sum_probs=45.8
Q ss_pred EEEEEEEEEc-CCeEEEEEEeccchhccceeeeccEEEc-----eeeeeeeeEeCcEEEEEeehhhHhhccCCCCCCCCE
Q psy4641 106 VANVRAIQAL-EKNYRMEIQMTNKSLMKYVFYKGYVAID-----GISLTIGKVFEDYFYVHLIPETMEKTTMSKKAVGDA 179 (229)
Q Consensus 106 ~~~i~~i~~~-~~~~~~~i~~p~~~~~~~iv~KGsIavd-----GvSLTV~~v~~~~f~v~lIP~Tl~~T~l~~~k~Gd~ 179 (229)
.++|.++++. ++.+.++++.| ..+ .+..+|.|. --+++|++..++.|++.+-..-.-..-|..+++||.
T Consensus 9 ~~~v~~i~~~t~~~~~~~l~~~-~~~----~pGQfi~l~~~~~~~~pySi~~~~~~~~~~~Ik~~G~~S~~L~~l~~Gd~ 83 (263)
T PRK08221 9 AYKILDITKHTDIEYTFRVEVD-GPV----KPGQFFEVSLPKVGEAPISVSDYGDGYIDLTIRRVGKVTDEIFNLKEGDK 83 (263)
T ss_pred cEEEEEEeccCCcEEEEEecCC-CCC----CCCceEEEEeCCCCcceeeccCCCCCEEEEEEEeCCchhhHHHhCCCCCE
Confidence 3677777754 44455666655 222 233344442 256677766667788888765544456678999999
Q ss_pred eEEc
Q psy4641 180 LNIE 183 (229)
Q Consensus 180 VNiE 183 (229)
|.|.
T Consensus 84 v~v~ 87 (263)
T PRK08221 84 LFLR 87 (263)
T ss_pred EEEE
Confidence 9886
No 25
>TIGR02911 sulfite_red_B sulfite reductase, subunit B. Members of this protein family include the B subunit, one of three subunits, of the anaerobic sulfite reductase of Salmonella, and close homologs from various Clostridum species, where the three-gene neighborhood is preserved. Two such gene clusters are found in Clostridium perfringens, but it may be that these sets of genes correspond to the distinct assimilatory and dissimilatory forms as seen in Clostridium pasteurianum.
Probab=57.11 E-value=40 Score=29.76 Aligned_cols=77 Identities=12% Similarity=0.087 Sum_probs=46.4
Q ss_pred eEEEEEEEEcCCeEEEEEEcCCCCCCCCccCCcEEEc-----ceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeee
Q psy4641 9 IGKVSAVFSYNDFKSMTIWFPSDLLDGISISCSVAIN-----GVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVN 83 (229)
Q Consensus 9 ~G~I~~i~~~~~~~~l~i~~p~~~~~~l~~g~SIAVn-----GvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VN 83 (229)
.++|.++.+... ..++|+++..+ ...+|..+-+- --.+|+.+..++.+.|.+-..-.-...|.++++||.|+
T Consensus 7 ~~~v~~~~~~t~-~~~~~~~~~~~--~~~pGQ~v~l~~~~~~~~pySi~~~~~~~l~~~Vk~~G~~S~~L~~l~~Gd~v~ 83 (261)
T TIGR02911 7 KSEILEIIKHTD-IEYTFRMSYDG--PVKPGQFFEVSLPKYGEAPISVSGIGEGYIDLTIRRVGKVTDEVFTLKEGDNLF 83 (261)
T ss_pred eEEEEEEeeccC-CEEEEEcCCCC--CCCCCcEEEEEecCCCccceecCCCCCCeEEEEEEeCchhhHHHHcCCCCCEEE
Confidence 467777776543 33444444332 36777776643 24556666555666666643222234566799999999
Q ss_pred eccCC
Q psy4641 84 LERSA 88 (229)
Q Consensus 84 LEral 88 (229)
++-+.
T Consensus 84 i~gP~ 88 (261)
T TIGR02911 84 LRGPY 88 (261)
T ss_pred EecCC
Confidence 98775
No 26
>cd06196 FNR_like_1 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=57.07 E-value=43 Score=28.06 Aligned_cols=77 Identities=10% Similarity=0.124 Sum_probs=49.7
Q ss_pred EEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc----c-----eeeeeeEEeC-CEEEEEE--eHh-HHhhccCCC
Q psy4641 10 GKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN----G-----VCLSVTKIEG-NYISFDV--INE-TLKITNLKA 75 (229)
Q Consensus 10 G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn----G-----vcLTV~~i~~-~~f~v~l--ipe-TL~~TtL~~ 75 (229)
++|.++++. ++.+.++++.|..+ ...+|..+.+. | -.+|+.+... +.+.|.+ .|. ..-...|..
T Consensus 3 ~~v~~~~~~~~~~~~~~l~~~~~~--~~~pGQ~v~l~~~~~~~~~~~r~ySi~s~~~~~~l~~~vk~~~~~g~~s~~l~~ 80 (218)
T cd06196 3 VTLLSIEPVTHDVKRLRFDKPEGY--DFTPGQATEVAIDKPGWRDEKRPFTFTSLPEDDVLEFVIKSYPDHDGVTEQLGR 80 (218)
T ss_pred eEEEEEEEcCCCeEEEEEcCCCcC--CCCCCCEEEEEeeCCCCCccccccccccCCCCCeEEEEEEEcCCCCcHhHHHHh
Confidence 567777764 56888898887543 57889887753 2 3467766543 4444443 332 112234668
Q ss_pred CCCCCeeeeccCC
Q psy4641 76 VAVDQFVNLERSA 88 (229)
Q Consensus 76 lk~Gd~VNLEral 88 (229)
+++||.|++..+.
T Consensus 81 l~~G~~v~i~gP~ 93 (218)
T cd06196 81 LQPGDTLLIEDPW 93 (218)
T ss_pred CCCCCEEEEECCc
Confidence 9999999998764
No 27
>PF13437 HlyD_3: HlyD family secretion protein
Probab=56.34 E-value=57 Score=24.14 Aligned_cols=78 Identities=13% Similarity=0.187 Sum_probs=48.4
Q ss_pred ccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCC-CCCeeeeccCCCCCceecceeeEEEEeEEEEEEEEEEc
Q psy4641 37 SISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVA-VDQFVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQAL 115 (229)
Q Consensus 37 ~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk-~Gd~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~~ 115 (229)
.+|+.|.-+-.=+++...+.-++.+.+ |+ +.++.++ +|+.|.+..+ .+ -.+.+.|.|..+.. ...+.
T Consensus 16 ~~G~~v~~g~~l~~i~~~~~~~v~~~v-~~----~~~~~i~~~g~~v~v~~~--~~---~~~~~~g~V~~I~~--~~~~~ 83 (105)
T PF13437_consen 16 QPGEVVSAGQPLAEIVDTDDLWVEAYV-PE----KDIARIKDPGQKVTVRLD--PG---PEKTIEGKVSSISP--SPDPQ 83 (105)
T ss_pred CCCCEECCCCEEEEEEccceEEEEEEE-Ch----HhhcceEeCCCEEEEEEC--CC---CCcEEEEEEEEEeC--cccCC
Confidence 334444444444456655322444443 44 5667887 9999999877 11 12478888887776 33556
Q ss_pred CCeEEEEEEec
Q psy4641 116 EKNYRMEIQMT 126 (229)
Q Consensus 116 ~~~~~~~i~~p 126 (229)
+..+.++++++
T Consensus 84 ~~~~~v~~~i~ 94 (105)
T PF13437_consen 84 GGTYRVEISID 94 (105)
T ss_pred CcEEEEEEEEC
Confidence 66888888888
No 28
>PRK00054 dihydroorotate dehydrogenase electron transfer subunit; Reviewed
Probab=56.21 E-value=79 Score=27.44 Aligned_cols=78 Identities=10% Similarity=0.004 Sum_probs=50.9
Q ss_pred eEEEEEEEE-cCCeEEEEEEcCCCCCCCCccCCcEEEc--c------eeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCC
Q psy4641 9 IGKVSAVFS-YNDFKSMTIWFPSDLLDGISISCSVAIN--G------VCLSVTKIEGNYISFDVINETLKITNLKAVAVD 79 (229)
Q Consensus 9 ~G~I~~i~~-~~~~~~l~i~~p~~~~~~l~~g~SIAVn--G------vcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~G 79 (229)
.++|.++++ .++.+.++++.| .. ....+|..+.+. + -.+|+.+..++.+.+.+-+.-.-...|..+++|
T Consensus 6 ~~~V~~~~~~t~d~~~l~l~~~-~~-~~~~pGQ~v~l~~~~~~~~~~r~ySi~s~~~~~l~l~Vk~~G~~t~~l~~l~~G 83 (250)
T PRK00054 6 NMKIVENKEIAPNIYTLVLDGE-KV-FDMKPGQFVMVWVPGVEPLLERPISISDIDKNEITILYRKVGEGTKKLSKLKEG 83 (250)
T ss_pred EEEEEEEEEecCCeEEEEEeCc-cc-cCCCCCcEEEEEeCCCCCcCceeeEEeeeCCCEEEEEEEEcChHHHHHhcCCCC
Confidence 466777665 456788888855 22 357888888764 2 255777665566666664432222345688999
Q ss_pred CeeeeccCC
Q psy4641 80 QFVNLERSA 88 (229)
Q Consensus 80 d~VNLEral 88 (229)
+.|.++-+.
T Consensus 84 ~~v~i~gP~ 92 (250)
T PRK00054 84 DELDIRGPL 92 (250)
T ss_pred CEEEEEccc
Confidence 999998764
No 29
>cd06217 FNR_iron_sulfur_binding_3 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap between the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form
Probab=55.62 E-value=55 Score=27.59 Aligned_cols=80 Identities=13% Similarity=0.189 Sum_probs=49.8
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc-----c----eeeeeeEEeC--CEEEEEE--eHhHHhhccCC
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN-----G----VCLSVTKIEG--NYISFDV--INETLKITNLK 74 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn-----G----vcLTV~~i~~--~~f~v~l--ipeTL~~TtL~ 74 (229)
.++|.++++. ++.++++++.|........+|..|.+. | -.+|+.+... +.+.+.+ .+.-.-.+-|.
T Consensus 3 ~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~pGQ~v~l~~~~~~~~~~~r~ySi~s~~~~~~~l~l~v~~~~~G~~s~~l~ 82 (235)
T cd06217 3 VLRVTEIIQETPTVKTFRLAVPDGVPPPFLAGQHVDLRLTAIDGYTAQRSYSIASSPTQRGRVELTVKRVPGGEVSPYLH 82 (235)
T ss_pred eEEEEEEEecCCCeEEEEEECCCCCcCCcCCcCeEEEEEecCCCceeeeeecccCCCCCCCeEEEEEEEcCCCcchHHHH
Confidence 3567777764 467889998875422357889988773 4 3578877642 3455544 33211112243
Q ss_pred -CCCCCCeeeeccCC
Q psy4641 75 -AVAVDQFVNLERSA 88 (229)
Q Consensus 75 -~lk~Gd~VNLEral 88 (229)
.+++||.|.++.+.
T Consensus 83 ~~l~~Gd~v~i~gP~ 97 (235)
T cd06217 83 DEVKVGDLLEVRGPI 97 (235)
T ss_pred hcCCCCCEEEEeCCc
Confidence 47899999998755
No 30
>PF07944 DUF1680: Putative glycosyl hydrolase of unknown function (DUF1680); InterPro: IPR012878 The members of this family are sequences derived from hypothetical bacterial and eukaryotic proteins of unknown function. One member of this family is annotated as a possible arabinosidase, but no references were found to back this.
Probab=54.74 E-value=41 Score=33.03 Aligned_cols=56 Identities=16% Similarity=0.267 Sum_probs=41.6
Q ss_pred CCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCC
Q psy4641 19 NDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNLERSAKM 90 (229)
Q Consensus 19 ~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~ 90 (229)
...+.+.+++|. + ..+-.|.|||.........++...+.- .|+.||.|.|+.+|++
T Consensus 439 ~~~f~l~lRIP~-W----a~~~~i~vNG~~~~~~~~~~gy~~i~r-----------~W~~gD~v~l~lpm~~ 494 (520)
T PF07944_consen 439 PVPFTLRLRIPS-W----AKGATIRVNGEPVVDTAVPGGYLTIER-----------EWKDGDVVELRLPMEV 494 (520)
T ss_pred CccEEEEEEccC-C----CCCcEEEECCEeCCCCcCCCCeEEEEe-----------eccCCcEEEEEecCee
Confidence 345666666763 3 455789999998766666777777763 6999999999999864
No 31
>PF12700 HlyD_2: HlyD family secretion protein; PDB: 3LNN_B 4DK0_A 4DK1_C 3FPP_B 2K32_A 2K33_A 3OW7_B 3OOC_A 3T53_B 4DNT_C ....
Probab=52.91 E-value=64 Score=28.43 Aligned_cols=133 Identities=14% Similarity=0.147 Sum_probs=71.1
Q ss_pred CCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCceecceeeEEEEeEEEEEEEEE
Q psy4641 34 DGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQ 113 (229)
Q Consensus 34 ~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~ 113 (229)
.++.+|..++-.-.-+++.+..+-++.+.+ | ...+..+++|+.|.+...... +++-++|.|..+....
T Consensus 173 ~~~~~g~~v~~g~~l~~i~~~~~~~v~~~v-~----e~~~~~i~~g~~~~v~~~~~~----~~~~~~g~v~~i~~~~--- 240 (328)
T PF12700_consen 173 INVNPGQYVAAGQPLFTIADLSNLYVEAYV-P----ESDASKIKVGQKVEVTIDAPD----NGKSFTGKVSSISPSA--- 240 (328)
T ss_dssp -TT-TT-EETSTTCSEEEEEESEEEEEEEE-E----CCGTTTHTTTGEEEEEETTSS-----SSEEEEEEEEEESSE---
T ss_pred eccCCCCEECCCceeeeeccCCcceeeecc-C----HHHHHhccCCcEEEEEEEeec----CCCceeeEEeecCCcc---
Confidence 357778888777777788888655666665 3 366778889999776544333 2445555554333221
Q ss_pred EcCCeEEEEEEecc--ch---------------hccceeeeccEEEceeeeeeeeEeCc---EEEEEeehhhHhhccC-C
Q psy4641 114 ALEKNYRMEIQMTN--KS---------------LMKYVFYKGYVAIDGISLTIGKVFED---YFYVHLIPETMEKTTM-S 172 (229)
Q Consensus 114 ~~~~~~~~~i~~p~--~~---------------~~~~iv~KGsIavdGvSLTV~~v~~~---~f~v~lIP~Tl~~T~l-~ 172 (229)
+....+++.+++ .. -..+++|+.+|--++=...|--+.++ .-.|.+....-..+-. .
T Consensus 241 --~~~~~v~~~~~~~~~~l~~g~~v~v~i~~~~~~~~~VP~~Ai~~~~~~~~V~v~~~~~~~~~~V~v~~~~~~~~~V~~ 318 (328)
T PF12700_consen 241 --SRTFKVRVSLDNPNGNLRPGMFVEVSIILGSENGLVVPKSAIIEEDGKYYVYVVEDGKAEKRPVKVGEEDDDYVEVIS 318 (328)
T ss_dssp --TTEEEEEEEEE-SSS-S-TT-EEEEEEESEESCEEEEEGGGEEETTCCEEEESCTSSEEEEEE-EEEEECSSEEEESS
T ss_pred --ceeeEEEEEeccccchhhhcccccceeccccccEEEEcChhhcccccceEEEEEECCEEEEEEEEEEEEcCCEEEEcC
Confidence 333344444431 11 23345666666555533334333333 3445555555555555 5
Q ss_pred CCCCCCEe
Q psy4641 173 KKAVGDAL 180 (229)
Q Consensus 173 ~~k~Gd~V 180 (229)
.+++||+|
T Consensus 319 GL~~gd~V 326 (328)
T PF12700_consen 319 GLKEGDKV 326 (328)
T ss_dssp SSSTT-EE
T ss_pred CCCCCCEE
Confidence 58888876
No 32
>PF07944 DUF1680: Putative glycosyl hydrolase of unknown function (DUF1680); InterPro: IPR012878 The members of this family are sequences derived from hypothetical bacterial and eukaryotic proteins of unknown function. One member of this family is annotated as a possible arabinosidase, but no references were found to back this.
Probab=50.95 E-value=68 Score=31.49 Aligned_cols=59 Identities=8% Similarity=0.187 Sum_probs=43.2
Q ss_pred EcCCeEEEEEEeccchhccceeeeccEEEceeeeeeeeEeCcEEEEEeehhhHhhccCCCCCCCCEeEEcccCccc
Q psy4641 114 ALEKNYRMEIQMTNKSLMKYVFYKGYVAIDGISLTIGKVFEDYFYVHLIPETMEKTTMSKKAVGDALNIEVDSQTQ 189 (229)
Q Consensus 114 ~~~~~~~~~i~~p~~~~~~~iv~KGsIavdGvSLTV~~v~~~~f~v~lIP~Tl~~T~l~~~k~Gd~VNiE~D~~t~ 189 (229)
.....+.+.+++| .. ..+-.|.|||-........++.+.|. ..|+.||.|.|+++|..+
T Consensus 437 ~~~~~f~l~lRIP-~W-----a~~~~i~vNG~~~~~~~~~~gy~~i~-----------r~W~~gD~v~l~lpm~~r 495 (520)
T PF07944_consen 437 DKPVPFTLRLRIP-SW-----AKGATIRVNGEPVVDTAVPGGYLTIE-----------REWKDGDVVELRLPMEVR 495 (520)
T ss_pred CCCccEEEEEEcc-CC-----CCCcEEEECCEeCCCCcCCCCeEEEE-----------eeccCCcEEEEEecCeeE
Confidence 3456788999999 54 44456889998875555566666654 348999999999998544
No 33
>cd06192 DHOD_e_trans_like FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as NAD binding. NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (formi
Probab=50.68 E-value=67 Score=27.59 Aligned_cols=71 Identities=14% Similarity=0.030 Sum_probs=46.6
Q ss_pred EcCCeEEEEEEcCCCCCCCCccCCcEEEc----c----eeeeeeEEe--CCEEEEEEeHhHHhhccCCCCCCCCeeeecc
Q psy4641 17 SYNDFKSMTIWFPSDLLDGISISCSVAIN----G----VCLSVTKIE--GNYISFDVINETLKITNLKAVAVDQFVNLER 86 (229)
Q Consensus 17 ~~~~~~~l~i~~p~~~~~~l~~g~SIAVn----G----vcLTV~~i~--~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEr 86 (229)
-.++.++++++.|.. .....+|..+-+. + -.+|+.+.. .+.+.+.+-..-.....|.++++||.|++.-
T Consensus 7 ~t~~~~~l~l~~~~~-~~~~~pGQ~v~l~~~~~~~~~~rpySi~s~~~~~~~l~l~i~~~G~~t~~l~~~~~G~~l~i~g 85 (243)
T cd06192 7 LEPNLVLLTIKAPLA-ARLFRPGQFVFLRNFESPGLERIPLSLAGVDPEEGTISLLVEIRGPKTKLIAELKPGEKLDVMG 85 (243)
T ss_pred ecCCEEEEEEEccch-hhcCCCCCeEEEecCCCCCceeeeeEeeecCCCCCEEEEEEEEcCchHHHHHhCCCCCEEEEEc
Confidence 356788889988753 2356788887774 1 457887775 4566666533222223456789999999986
Q ss_pred CC
Q psy4641 87 SA 88 (229)
Q Consensus 87 al 88 (229)
+.
T Consensus 86 P~ 87 (243)
T cd06192 86 PL 87 (243)
T ss_pred cC
Confidence 64
No 34
>cd06220 DHOD_e_trans_like2 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as 3 cofactors: FMN, FAD, and an [2Fe-2S] cluster.
Probab=49.20 E-value=75 Score=27.22 Aligned_cols=73 Identities=11% Similarity=0.067 Sum_probs=46.5
Q ss_pred EEEEEEE-cCCeEEEEEEcCCCCCCCCccCCcEEEc-----ceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeee
Q psy4641 11 KVSAVFS-YNDFKSMTIWFPSDLLDGISISCSVAIN-----GVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNL 84 (229)
Q Consensus 11 ~I~~i~~-~~~~~~l~i~~p~~~~~~l~~g~SIAVn-----GvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNL 84 (229)
+|.++++ .++.++++++.|. ...+|..+.+. .-.+|+.+.. +.+.+.+-..-.-...|.++++||.|.+
T Consensus 2 ~v~~~~~~t~~~~~~~l~~~~----~~~pGQ~v~l~~~~~~~~~~Si~s~~-~~l~~~v~~~G~~s~~L~~l~~Gd~v~i 76 (233)
T cd06220 2 TIKEVIDETPTVKTFVFDWDF----DFKPGQFVMVWVPGVDEIPMSLSYID-GPNSITVKKVGEATSALHDLKEGDKLGI 76 (233)
T ss_pred EEEEEEEEcCCEEEEEEecCC----CCCCCceEEEEeCCCCcceeEEecCC-CeEEEEEEecChHHHHHHhcCCCCEEEE
Confidence 3455554 4567778887653 45677776553 3466766665 6677666544444456667999999999
Q ss_pred ccCC
Q psy4641 85 ERSA 88 (229)
Q Consensus 85 Eral 88 (229)
.-|.
T Consensus 77 ~gP~ 80 (233)
T cd06220 77 RGPY 80 (233)
T ss_pred ECcC
Confidence 7653
No 35
>cd06210 MMO_FAD_NAD_binding Methane monooxygenase (MMO) reductase of methanotrophs catalyzes the NADH-dependent hydroxylation of methane to methanol. This multicomponent enzyme mediates electron transfer via a hydroxylase (MMOH), a coupling protein, and a reductase which is comprised of an N-terminal [2Fe-2S] ferredoxin domain, an FAD binding subdomain, and an NADH binding subdomain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. Dioxygenases add both atom of oxygen to the substrate, while mono-oxygenases add one atom to the substrate and one atom to water.
Probab=48.69 E-value=82 Score=26.69 Aligned_cols=80 Identities=16% Similarity=0.129 Sum_probs=51.3
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCC----CCCCCccCCcEEEc--c----eeeeeeEEe--CCEEEEEE--eHhHHhhccC
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSD----LLDGISISCSVAIN--G----VCLSVTKIE--GNYISFDV--INETLKITNL 73 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~----~~~~l~~g~SIAVn--G----vcLTV~~i~--~~~f~v~l--ipeTL~~TtL 73 (229)
.++|.++++. ++.+.++++.|.. ......+|..+.+- | =++|+.+.. ++.+.+.+ .+.-.-.+-|
T Consensus 3 ~~~v~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~pGQ~v~l~~~~~~~~R~ySi~s~~~~~~~l~~~i~~~~~G~~s~~l 82 (236)
T cd06210 3 EAEIVAVDRVSSNVVRLRLQPDDAEGAGIAAEFVPGQFVEIEIPGTDTRRSYSLANTPNWDGRLEFLIRLLPGGAFSTYL 82 (236)
T ss_pred eEEEEEEeecCCceEEEEEEeCCcccccccCCcCCCCEEEEEcCCCccceecccCCCCCCCCEEEEEEEEcCCCccchhh
Confidence 3567777754 5678888887653 12357888887763 3 267777654 34565555 3433333445
Q ss_pred CC-CCCCCeeeeccCC
Q psy4641 74 KA-VAVDQFVNLERSA 88 (229)
Q Consensus 74 ~~-lk~Gd~VNLEral 88 (229)
.. +++||.|+++.+.
T Consensus 83 ~~~~~~Gd~v~i~gP~ 98 (236)
T cd06210 83 ETRAKVGQRLNLRGPL 98 (236)
T ss_pred hhCcCCCCEEEEecCc
Confidence 55 9999999988764
No 36
>PRK10926 ferredoxin-NADP reductase; Provisional
Probab=48.58 E-value=84 Score=27.40 Aligned_cols=77 Identities=21% Similarity=0.255 Sum_probs=48.6
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEE----cce----eeeeeEEe-CCEEEEEE--eHhHHhhccCCCC
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAI----NGV----CLSVTKIE-GNYISFDV--INETLKITNLKAV 76 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAV----nGv----cLTV~~i~-~~~f~v~l--ipeTL~~TtL~~l 76 (229)
.++|.++++. ++.++++++.|. ....+|..+.+ +|- ++|+.+.. ++.+.+.+ .|.=.-..-|.++
T Consensus 6 ~~~V~~i~~~t~~v~~l~l~~~~---~~~~pGQfv~l~~~~~g~~~~R~ySias~p~~~~l~~~ik~~~~G~~S~~L~~l 82 (248)
T PRK10926 6 TGKVTKVQNWTDALFSLTVHAPV---DPFTAGQFTKLGLEIDGERVQRAYSYVNAPDNPDLEFYLVTVPEGKLSPRLAAL 82 (248)
T ss_pred EEEEEEEEEcCCCeEEEEEeCCC---CCCCCCCEEEEEEecCCcEEEeeecccCCCCCCeEEEEEEEeCCCCcChHHHhC
Confidence 4678888765 567888888652 24678888554 453 56766553 23444433 3333333456689
Q ss_pred CCCCeeeeccCC
Q psy4641 77 AVDQFVNLERSA 88 (229)
Q Consensus 77 k~Gd~VNLEral 88 (229)
++||.|.+..+.
T Consensus 83 ~~Gd~v~i~gp~ 94 (248)
T PRK10926 83 KPGDEVQVVSEA 94 (248)
T ss_pred CCCCEEEEecCC
Confidence 999999998654
No 37
>TIGR02911 sulfite_red_B sulfite reductase, subunit B. Members of this protein family include the B subunit, one of three subunits, of the anaerobic sulfite reductase of Salmonella, and close homologs from various Clostridum species, where the three-gene neighborhood is preserved. Two such gene clusters are found in Clostridium perfringens, but it may be that these sets of genes correspond to the distinct assimilatory and dissimilatory forms as seen in Clostridium pasteurianum.
Probab=48.51 E-value=46 Score=29.39 Aligned_cols=39 Identities=13% Similarity=0.158 Sum_probs=27.3
Q ss_pred eeeeeeeEeCcEEEEEeehhhHhhccCCCCCCCCEeEEc
Q psy4641 145 ISLTIGKVFEDYFYVHLIPETMEKTTMSKKAVGDALNIE 183 (229)
Q Consensus 145 vSLTV~~v~~~~f~v~lIP~Tl~~T~l~~~k~Gd~VNiE 183 (229)
-.++|++..++.+++.+-..=.-...|..+++||.|+|+
T Consensus 47 ~pySi~~~~~~~l~~~Vk~~G~~S~~L~~l~~Gd~v~i~ 85 (261)
T TIGR02911 47 APISVSGIGEGYIDLTIRRVGKVTDEVFTLKEGDNLFLR 85 (261)
T ss_pred cceecCCCCCCeEEEEEEeCchhhHHHHcCCCCCEEEEe
Confidence 456676655667777775543334566779999999887
No 38
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=47.54 E-value=68 Score=23.67 Aligned_cols=63 Identities=14% Similarity=0.182 Sum_probs=29.1
Q ss_pred EcCCeEEEEEEeccchhccceeee--ccEEEceeeeeeeeEe---------CcEEEEEeehhhHhhccCCCCCCCCEeEE
Q psy4641 114 ALEKNYRMEIQMTNKSLMKYVFYK--GYVAIDGISLTIGKVF---------EDYFYVHLIPETMEKTTMSKKAVGDALNI 182 (229)
Q Consensus 114 ~~~~~~~~~i~~p~~~~~~~iv~K--GsIavdGvSLTV~~v~---------~~~f~v~lIP~Tl~~T~l~~~k~Gd~VNi 182 (229)
+.++.+. .+.+| .+..+-+-.+ |++.|-| ||+... +..+.+.|--+-.+... +..||.|.+
T Consensus 7 ~~~~~~~-fv~vP-~~v~~~l~~~~~g~v~V~~---tI~g~~~~~sl~p~g~G~~~Lpv~~~vRk~~g---~~~Gd~V~v 78 (80)
T PF08922_consen 7 KGEGGWT-FVEVP-FDVAEELGEGGWGRVPVRG---TIDGHPWRTSLFPMGNGGYILPVKAAVRKAIG---KEAGDTVEV 78 (80)
T ss_dssp E-TTS-E-EEE---S-HHHHH--S--S-EEEEE---EETTEEEEEEEEESSTT-EEEEE-HHHHHHHT-----TTSEEEE
T ss_pred ecCCceE-EEEeC-HHHHHHhccccCCceEEEE---EECCEEEEEEEEECCCCCEEEEEcHHHHHHcC---CCCCCEEEE
Confidence 3333443 48899 7788888777 9987766 554431 12333333333333333 568999887
Q ss_pred cc
Q psy4641 183 EV 184 (229)
Q Consensus 183 E~ 184 (229)
++
T Consensus 79 ~l 80 (80)
T PF08922_consen 79 TL 80 (80)
T ss_dssp EE
T ss_pred EC
Confidence 63
No 39
>PRK07609 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated
Probab=47.38 E-value=67 Score=29.20 Aligned_cols=80 Identities=10% Similarity=0.147 Sum_probs=51.2
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc---c--eeeeeeEEe--CCEEEEEE--eHhHHhhccC-CCCC
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN---G--VCLSVTKIE--GNYISFDV--INETLKITNL-KAVA 77 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn---G--vcLTV~~i~--~~~f~v~l--ipeTL~~TtL-~~lk 77 (229)
.++|.++++. ++.+.++++.|..-.-...+|..|.+. | -++|+.+.. ++.+.|.+ .|.-.-...| ..++
T Consensus 104 ~~~V~~~~~~~~d~~~l~l~~~~~~~~~~~pGQfv~l~~~~~~~R~ySias~p~~~~~l~~~ik~~~~G~~s~~l~~~l~ 183 (339)
T PRK07609 104 PCRVASLERVAGDVMRLKLRLPATERLQYLAGQYIEFILKDGKRRSYSIANAPHSGGPLELHIRHMPGGVFTDHVFGALK 183 (339)
T ss_pred EEEEEEEEcCCCcEEEEEEEcCCCCCCccCCCCeEEEECCCCceeeeecCCCCCCCCEEEEEEEecCCCccHHHHHHhcc
Confidence 4778888765 567889998774221246788888774 2 566777664 24566555 3432222223 5799
Q ss_pred CCCeeeeccCC
Q psy4641 78 VDQFVNLERSA 88 (229)
Q Consensus 78 ~Gd~VNLEral 88 (229)
+||.|.+..+.
T Consensus 184 ~G~~v~v~gP~ 194 (339)
T PRK07609 184 ERDILRIEGPL 194 (339)
T ss_pred CCCEEEEEcCc
Confidence 99999988654
No 40
>PRK06222 ferredoxin-NADP(+) reductase subunit alpha; Reviewed
Probab=46.53 E-value=1e+02 Score=27.43 Aligned_cols=78 Identities=12% Similarity=0.035 Sum_probs=48.7
Q ss_pred EEEEEEEE-cCCeEEEEEEcCCCCCCCCccCCcEEEc----c--eeeeeeEEe--CCEEEEEEeHhHHhhccCCCCCCCC
Q psy4641 10 GKVSAVFS-YNDFKSMTIWFPSDLLDGISISCSVAIN----G--VCLSVTKIE--GNYISFDVINETLKITNLKAVAVDQ 80 (229)
Q Consensus 10 G~I~~i~~-~~~~~~l~i~~p~~~~~~l~~g~SIAVn----G--vcLTV~~i~--~~~f~v~lipeTL~~TtL~~lk~Gd 80 (229)
++|.++++ .++.+.++++.|.. .....+|..+.+- | ..+|+.+.. ++.+++.+-..=.-...|..+++||
T Consensus 2 ~~I~~~~~~t~~~~~l~l~~~~~-~~~~~pGQfv~l~~~~~~~~rpySias~~~~~~~i~l~vk~~G~~T~~L~~l~~Gd 80 (281)
T PRK06222 2 YKILEKEELAPNVFLMEIEAPRV-AKKAKPGQFVIVRIDEKGERIPLTIADYDREKGTITIVFQAVGKSTRKLAELKEGD 80 (281)
T ss_pred cEEEEEEEecCCEEEEEEeCchh-hccCCCCeEEEEEeCCCCCceeeEeeEEcCCCCEEEEEEEeCCcHHHHHhcCCCCC
Confidence 45666665 44677888887642 2346677766652 3 478888765 3456665533222223556889999
Q ss_pred ee-eeccCC
Q psy4641 81 FV-NLERSA 88 (229)
Q Consensus 81 ~V-NLEral 88 (229)
.| .+.-|+
T Consensus 81 ~v~~i~GP~ 89 (281)
T PRK06222 81 SILDVVGPL 89 (281)
T ss_pred EEeeEEcCC
Confidence 99 688774
No 41
>cd06211 phenol_2-monooxygenase_like Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H dependent conversion of phenol and O2 to catechol and H2O. This group is related to the NAD binding ferredoxin reductases.
Probab=46.18 E-value=1e+02 Score=26.26 Aligned_cols=81 Identities=11% Similarity=0.110 Sum_probs=52.0
Q ss_pred ceEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc--ce----eeeeeEEe--CCEEEEEE--eHhHHhhccC-CC
Q psy4641 8 GIGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN--GV----CLSVTKIE--GNYISFDV--INETLKITNL-KA 75 (229)
Q Consensus 8 ~~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn--Gv----cLTV~~i~--~~~f~v~l--ipeTL~~TtL-~~ 75 (229)
-.++|.+++.. ++.+.++++.|........+|..+.+. |. .+|+.+.. ++.+.+.+ .|.=.-..-| ..
T Consensus 7 ~~~~v~~~~~~t~~~~~~~l~~~~~~~~~~~pGQ~v~l~~~~~~~~r~ySi~s~~~~~~~l~l~i~~~~~G~~s~~l~~~ 86 (238)
T cd06211 7 FEGTVVEIEDLTPTIKGVRLKLDEPEEIEFQAGQYVNLQAPGYEGTRAFSIASSPSDAGEIELHIRLVPGGIATTYVHKQ 86 (238)
T ss_pred EeEEEEEEEecCCCEEEEEEEcCCCCcCccCCCCeEEEEcCCCCCccccccCCCCCCCCEEEEEEEECCCCcchhhHhhc
Confidence 35788888865 567888998875543468899988774 32 36776654 34555554 3222222334 36
Q ss_pred CCCCCeeeeccCC
Q psy4641 76 VAVDQFVNLERSA 88 (229)
Q Consensus 76 lk~Gd~VNLEral 88 (229)
+++||.|++.-+.
T Consensus 87 l~~G~~v~i~gP~ 99 (238)
T cd06211 87 LKEGDELEISGPY 99 (238)
T ss_pred CCCCCEEEEECCc
Confidence 8999999998654
No 42
>cd06216 FNR_iron_sulfur_binding_2 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to for
Probab=45.72 E-value=1.3e+02 Score=25.75 Aligned_cols=81 Identities=21% Similarity=0.206 Sum_probs=52.6
Q ss_pred eceEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEE----cce----eeeeeEEe---CCEEEEEEeHh--HHhhcc
Q psy4641 7 QGIGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAI----NGV----CLSVTKIE---GNYISFDVINE--TLKITN 72 (229)
Q Consensus 7 d~~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAV----nGv----cLTV~~i~---~~~f~v~lipe--TL~~Tt 72 (229)
...++|.++++. ++.++++++.+.. .....+|..+-+ +|- .+|+.+.. ++.+++.+-.. -.-..-
T Consensus 17 ~~~~~v~~i~~~~~~~~~i~l~~~~~-~~~~~pGQ~i~l~~~~~~~~~~r~ysi~s~~~~~~~~l~~~ik~~~~G~~s~~ 95 (243)
T cd06216 17 ELRARVVAVRPETADMVTLTLRPNRG-WPGHRAGQHVRLGVEIDGVRHWRSYSLSSSPTQEDGTITLTVKAQPDGLVSNW 95 (243)
T ss_pred eeEEEEEEEEEcCCCcEEEEEecCCC-CCCcCCCceEEEEEEECCeEEEEEEeccCCCcCCCCeEEEEEEEcCCCcchhH
Confidence 446788888775 5688888886643 335688998876 453 67887664 45666665322 211223
Q ss_pred CC-CCCCCCeeeeccCC
Q psy4641 73 LK-AVAVDQFVNLERSA 88 (229)
Q Consensus 73 L~-~lk~Gd~VNLEral 88 (229)
|. .+++||.|-++.+.
T Consensus 96 l~~~~~~Gd~v~i~gP~ 112 (243)
T cd06216 96 LVNHLAPGDVVELSQPQ 112 (243)
T ss_pred HHhcCCCCCEEEEECCc
Confidence 33 58899999888654
No 43
>cd06221 sulfite_reductase_like Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is linked to ferredoxin and reduces NH2OH and SeO3 at a lesser rate than it's normal substate SO3(2-). Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+.
Probab=45.67 E-value=48 Score=28.95 Aligned_cols=73 Identities=7% Similarity=0.023 Sum_probs=41.8
Q ss_pred EEEEc-CCeEEEEEEeccchhc--cceeeeccEEEc-----eeeeeeeeEe--CcEEEEEeehhhHhhccCCCCCCCCEe
Q psy4641 111 AIQAL-EKNYRMEIQMTNKSLM--KYVFYKGYVAID-----GISLTIGKVF--EDYFYVHLIPETMEKTTMSKKAVGDAL 180 (229)
Q Consensus 111 ~i~~~-~~~~~~~i~~p~~~~~--~~iv~KGsIavd-----GvSLTV~~v~--~~~f~v~lIP~Tl~~T~l~~~k~Gd~V 180 (229)
+++.. ++...++++++ .... .-..+..++.|. .-+++|++.. ++.+++.+-....-...|..+++||.|
T Consensus 3 ~i~~~t~~v~~~~l~~~-~~~~~~~~~~pGQ~i~l~~~~~~~~pySi~s~~~~~~~l~~~Ik~~G~~S~~L~~l~~G~~v 81 (253)
T cd06221 3 EVVDETEDIKTFTLRLE-DDDEELFTFKPGQFVMLSLPGVGEAPISISSDPTRRGPLELTIRRVGRVTEALHELKPGDTV 81 (253)
T ss_pred eEEeccCCceEEEEEeC-CCccccCCcCCCCEEEEEcCCCCccceEecCCCCCCCeEEEEEEeCChhhHHHHcCCCCCEE
Confidence 44433 33456677765 2211 112344444442 1366777765 456777776655444456788999999
Q ss_pred EEcc
Q psy4641 181 NIEV 184 (229)
Q Consensus 181 NiE~ 184 (229)
+|+-
T Consensus 82 ~i~g 85 (253)
T cd06221 82 GLRG 85 (253)
T ss_pred EEEC
Confidence 9974
No 44
>PRK14725 pyruvate kinase; Provisional
Probab=45.43 E-value=1.5e+02 Score=30.43 Aligned_cols=121 Identities=17% Similarity=0.129 Sum_probs=67.8
Q ss_pred EEcCCCCCCCCccCCcEEEcce-----eeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCceecc----
Q psy4641 26 IWFPSDLLDGISISCSVAINGV-----CLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTEVGG---- 96 (229)
Q Consensus 26 i~~p~~~~~~l~~g~SIAVnGv-----cLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdrlgG---- 96 (229)
+.+++.|+..+..||.|.+.-+ -|||.+..+..+.+.... | ..+..|..+.+.+ +.-.++||
T Consensus 259 ~~v~~~~~~~l~~Gd~i~~~DaRg~~R~l~V~~~~~~~~~~~~~~-----~--~Y~~~G~~l~~~~--~~~~~v~~~p~~ 329 (608)
T PRK14725 259 LPVDPEWLARLEPGDELRFTDARGKKRKLTVTEVDDEGVLAEGSQ-----T--AYLANGTLLRLGR--HDSTRVGGLPPV 329 (608)
T ss_pred cccChhhhhhcCCCceeeeeeccccceeeeEEeecCceeEEeecc-----e--eeeccCceeeecc--cccccccccccc
Confidence 4556677788999999998554 578888877765554311 1 2333444444442 22222222
Q ss_pred ----eeeEEEEeEEEEEEEEEEc--------CCeEEEEEEeccchhccceeeeccEEEc--eeeeeeeeEeCcEEEEEe
Q psy4641 97 ----HFLSGHIIDVANVRAIQAL--------EKNYRMEIQMTNKSLMKYVFYKGYVAID--GISLTIGKVFEDYFYVHL 161 (229)
Q Consensus 97 ----H~V~GHVd~~~~i~~i~~~--------~~~~~~~i~~p~~~~~~~iv~KGsIavd--GvSLTV~~v~~~~f~v~l 161 (229)
++-. |.-..+... ++.....+.++.+++.+.+-+...|-+| -+.|.|.+++++.+..-+
T Consensus 330 ~~~i~L~~------Gd~l~lt~~~~~~~~~~~~~~~~~i~~t~p~l~~~v~~G~~VlidDG~I~l~V~~~~~~~v~~~V 402 (608)
T PRK14725 330 EQKLRLKV------GDRLVLTRDDAPGDPAQGDAPPARISCTLPEAFRAARVGERVWFDDGKIGAVVVKVEADEVELRI 402 (608)
T ss_pred CcceEecC------CCEEEEecCCcCCccccCCCCccEEEechHHHHHhcCCCCEEEEeCCeEEEEEEEEECCEEEEEE
Confidence 0000 000000000 0111123555545788889999999999 799999999887665543
No 45
>PRK05713 hypothetical protein; Provisional
Probab=45.41 E-value=86 Score=28.33 Aligned_cols=78 Identities=12% Similarity=0.122 Sum_probs=50.2
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc--c---eeeeeeEEe--CCEEEEEE--eHhHHhhccCCCCCC
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN--G---VCLSVTKIE--GNYISFDV--INETLKITNLKAVAV 78 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn--G---vcLTV~~i~--~~~f~v~l--ipeTL~~TtL~~lk~ 78 (229)
.++|.++++. ++.+.++++.+..+ ...+|..+.|- | -++++.+.. ++.+.+.+ .|.=.-.+.|.++++
T Consensus 93 ~~~V~~~~~~t~dv~~l~l~~~~~~--~~~~GQfv~l~~~~~~~R~ySias~p~~~~~l~~~I~~~~~G~~s~~l~~l~~ 170 (312)
T PRK05713 93 PARVVALDWLGGDVLRLRLEPERPL--RYRAGQHLVLWTAGGVARPYSLASLPGEDPFLEFHIDCSRPGAFCDAARQLQV 170 (312)
T ss_pred CeEEEEEecCCCCEEEEEEccCCcC--CcCCCCEEEEecCCCcccccccCcCCCCCCeEEEEEEEcCCCccchhhhcCCC
Confidence 4788888875 57788888765332 56788887752 2 366776653 34455544 344322345678999
Q ss_pred CCeeeeccCC
Q psy4641 79 DQFVNLERSA 88 (229)
Q Consensus 79 Gd~VNLEral 88 (229)
||.|++..+.
T Consensus 171 Gd~v~l~~p~ 180 (312)
T PRK05713 171 GDLLRLGELR 180 (312)
T ss_pred CCEEEEccCC
Confidence 9999986554
No 46
>PF02470 MCE: mce related protein; InterPro: IPR003399 This domain is found in all 24 mce genes associated with the four mammalian cell entry (mce) operons of Mycobacterium tuberculosis and their homologs in other Actinomycetales [, ]. The archetype (mce1A, Rv0169), was isolated as being necessary for colonisation of, and survival within, the macrophage []. The domain is also found in: Chloroplast Ycf22 and related cyanobacterial homologs, the majority of which have an N-terminal transmembrane domain and are putative ABC transporters. Proteobacterial homologs, which include YrbD, YebT, VpsC and Ttg2C, the latter being annotated as a toluene tolerance proteins, belong to the periplasmic substrate-binding ABC transporter superfamily.
Probab=45.23 E-value=51 Score=23.66 Aligned_cols=25 Identities=20% Similarity=0.302 Sum_probs=20.3
Q ss_pred ceEEEEEE--EEcCCeEEEEEEcCCCC
Q psy4641 8 GIGKVSAV--FSYNDFKSMTIWFPSDL 32 (229)
Q Consensus 8 ~~G~I~~i--~~~~~~~~l~i~~p~~~ 32 (229)
.+|+|.++ +..++..++.+++.+.+
T Consensus 27 ~VG~V~~i~l~~~~~~v~v~~~i~~~~ 53 (81)
T PF02470_consen 27 EVGKVTSIELDPDGNRVRVTLRIDPDY 53 (81)
T ss_pred EEEEEEEEEEcCCCCEEEEEEEEcCCc
Confidence 68999999 67777888888887664
No 47
>cd06212 monooxygenase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. These flavoprotein monooxygenases use molecular oxygen as a substrate and require reduced FAD. One atom of oxygen is incorportated into the aromatic compond, while the other is used to form a molecule of water. In contrast dioxygenases add both atoms of oxygen to the substrate.
Probab=44.55 E-value=98 Score=26.19 Aligned_cols=79 Identities=19% Similarity=0.183 Sum_probs=47.5
Q ss_pred EEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc--c----eeeeeeEEeC--CEEEEEE--eHhHHhhccCC-CCC
Q psy4641 10 GKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN--G----VCLSVTKIEG--NYISFDV--INETLKITNLK-AVA 77 (229)
Q Consensus 10 G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn--G----vcLTV~~i~~--~~f~v~l--ipeTL~~TtL~-~lk 77 (229)
++|.+++.. ++.++++++.+....-...+|..+.+. | -.+|+.+... +.+.+.+ .+.-.-.+-|. .++
T Consensus 3 ~~v~~~~~~~~~~~~~~l~~~~~~~~~~~pGQ~v~l~~~~~~~~r~ySi~s~~~~~~~l~l~vk~~~~G~~s~~l~~~l~ 82 (232)
T cd06212 3 GTVVAVEALTHDIRRLRLRLEEPEPIKFFAGQYVDITVPGTEETRSFSMANTPADPGRLEFIIKKYPGGLFSSFLDDGLA 82 (232)
T ss_pred eEEEEEeecCCCeEEEEEEcCCCCcCCcCCCCeEEEEcCCCCcccccccCCCCCCCCEEEEEEEECCCCchhhHHhhcCC
Confidence 567776654 467888888754211146888887773 3 2567776642 4555544 22222223354 489
Q ss_pred CCCeeeeccCC
Q psy4641 78 VDQFVNLERSA 88 (229)
Q Consensus 78 ~Gd~VNLEral 88 (229)
+||.|.++-+.
T Consensus 83 ~G~~v~i~gP~ 93 (232)
T cd06212 83 VGDPVTVTGPY 93 (232)
T ss_pred CCCEEEEEcCc
Confidence 99999998654
No 48
>COG1566 EmrA Multidrug resistance efflux pump [Defense mechanisms]
Probab=43.08 E-value=22 Score=33.66 Aligned_cols=64 Identities=14% Similarity=0.147 Sum_probs=41.1
Q ss_pred CCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCceecceeeEEEEeEEE
Q psy4641 35 GISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTEVGGHFLSGHIIDVA 107 (229)
Q Consensus 35 ~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdrlgGH~V~GHVd~~~ 107 (229)
.+.+|+.++----=++++.. +.|+++. =++.|-|...++|++|.+......++ .-+.|||++++
T Consensus 223 ~v~~G~~V~~G~~l~alVp~--~~~yV~A---nFkETqL~~~r~Gq~a~I~~da~~~~----~~~~G~v~~i~ 286 (352)
T COG1566 223 SVRVGQYVSAGTPLMALVPL--DSFYVVA---NFKETQLARVRPGQPAEITLDAYPGN----GVVEGIVEGIA 286 (352)
T ss_pred cccCCCeecCCCceEEEecc--cceEEEe---eeeeeecCcccCCCeEEEEEEcCCCc----eEEEEEEEEec
Confidence 35555555543222333333 4454442 35779999999999999999886664 56777777654
No 49
>cd06209 BenDO_FAD_NAD Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal ferredoxin at the end fused to an FAD/NADP(P) domain. In dioxygenase FAD/NAD(P) binding domain, the reductase transfers 2 electrons from NAD(P)H to the oxygenase which insert into an aromatic substrate, an initial step in microbial aerobic degradation of aromatic rings. Flavin oxidoreductases use flavins as substrates, unlike flavoenzymes which have a flavin prosthetic group.
Probab=42.76 E-value=1.2e+02 Score=25.48 Aligned_cols=80 Identities=13% Similarity=0.066 Sum_probs=48.8
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc--ce----eeeeeEEeC-CEEEEEEe--HhHHhhccCCC-CC
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN--GV----CLSVTKIEG-NYISFDVI--NETLKITNLKA-VA 77 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn--Gv----cLTV~~i~~-~~f~v~li--peTL~~TtL~~-lk 77 (229)
.++|.++++. ++.++++++.|........+|..+.+. |. ++|+.+... +.+.+.+- +.=.-.+-|.+ ++
T Consensus 3 ~~~V~~~~~~t~~~~~l~l~~~~~~~~~~~pGQ~v~l~~~~~~~~r~ysi~s~~~~~~i~~~i~~~~~G~~s~~l~~~l~ 82 (228)
T cd06209 3 EATVTEVERLSDSTIGLTLELDEAGALAFLPGQYVNLQVPGTDETRSYSFSSAPGDPRLEFLIRLLPGGAMSSYLRDRAQ 82 (228)
T ss_pred eEEEEEEEEcCCCeEEEEEEcCCCCcCccCCCCEEEEEeCCCCcccccccccCCCCCeEEEEEEEcCCCcchhhHHhccC
Confidence 4677777764 678889998875212246888887764 32 567765532 45555442 22111223444 89
Q ss_pred CCCeeeeccCC
Q psy4641 78 VDQFVNLERSA 88 (229)
Q Consensus 78 ~Gd~VNLEral 88 (229)
+||.|.++.+.
T Consensus 83 ~G~~v~v~gP~ 93 (228)
T cd06209 83 PGDRLTLTGPL 93 (228)
T ss_pred CCCEEEEECCc
Confidence 99999998763
No 50
>cd06196 FNR_like_1 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=40.95 E-value=74 Score=26.61 Aligned_cols=75 Identities=17% Similarity=0.277 Sum_probs=43.8
Q ss_pred EEEEEEEEEc-CCeEEEEEEeccchhccceeeeccEEE--c--e-----eeeeeeeEe-CcE--EEEEeehh-hHhhccC
Q psy4641 106 VANVRAIQAL-EKNYRMEIQMTNKSLMKYVFYKGYVAI--D--G-----ISLTIGKVF-EDY--FYVHLIPE-TMEKTTM 171 (229)
Q Consensus 106 ~~~i~~i~~~-~~~~~~~i~~p~~~~~~~iv~KGsIav--d--G-----vSLTV~~v~-~~~--f~v~lIP~-Tl~~T~l 171 (229)
.++|.++++. .+.+.++++.| +.+ + .-+..+|.| + | -++||++.. ++. |.|...|. ..-..-|
T Consensus 2 ~~~v~~~~~~~~~~~~~~l~~~-~~~-~-~~pGQ~v~l~~~~~~~~~~~r~ySi~s~~~~~~l~~~vk~~~~~g~~s~~l 78 (218)
T cd06196 2 TVTLLSIEPVTHDVKRLRFDKP-EGY-D-FTPGQATEVAIDKPGWRDEKRPFTFTSLPEDDVLEFVIKSYPDHDGVTEQL 78 (218)
T ss_pred ceEEEEEEEcCCCeEEEEEcCC-CcC-C-CCCCCEEEEEeeCCCCCccccccccccCCCCCeEEEEEEEcCCCCcHhHHH
Confidence 3567776654 56777888887 543 2 234444443 2 2 356777664 344 44444443 2223345
Q ss_pred CCCCCCCEeEEc
Q psy4641 172 SKKAVGDALNIE 183 (229)
Q Consensus 172 ~~~k~Gd~VNiE 183 (229)
..+++||.|++.
T Consensus 79 ~~l~~G~~v~i~ 90 (218)
T cd06196 79 GRLQPGDTLLIE 90 (218)
T ss_pred HhCCCCCEEEEE
Confidence 778999999987
No 51
>cd06215 FNR_iron_sulfur_binding_1 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal portion of the FAD/NAD binding domain contains most of the NADP(H) binding residues and the N-terminal sub-domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. In this ferredoxin like sub-group, the FAD/NAD sub-domains is typically fused to a C-terminal iron-sulfur binding domain. Iron-sulfur pr
Probab=40.00 E-value=1.5e+02 Score=24.90 Aligned_cols=78 Identities=14% Similarity=0.146 Sum_probs=47.5
Q ss_pred EEEEEEE-cCCeEEEEEEcCCCCCCCCccCCcEEEc----ce----eeeeeEEeC--CEEEEEE--eHhHHhhccC-CCC
Q psy4641 11 KVSAVFS-YNDFKSMTIWFPSDLLDGISISCSVAIN----GV----CLSVTKIEG--NYISFDV--INETLKITNL-KAV 76 (229)
Q Consensus 11 ~I~~i~~-~~~~~~l~i~~p~~~~~~l~~g~SIAVn----Gv----cLTV~~i~~--~~f~v~l--ipeTL~~TtL-~~l 76 (229)
+|.++++ .++.++++++.|........+|..+-+. |- .+|+.+... +.+.+.+ .+.-.-.+-| ..+
T Consensus 2 ~v~~~~~~t~~~~~~~l~~~~~~~~~~~pGQ~v~l~~~~~~~~~~R~ySi~s~~~~~~~l~~~vk~~~~G~~s~~l~~~~ 81 (231)
T cd06215 2 RCVKIIQETPDVKTFRFAAPDGSLFAYKPGQFLTLELEIDGETVYRAYTLSSSPSRPDSLSITVKRVPGGLVSNWLHDNL 81 (231)
T ss_pred eEEEEEEcCCCeEEEEEECCCCCcCCcCCCCeEEEEEecCCCeEEEeeecccCCCCCCcEEEEEEEcCCCcchHHHHhcC
Confidence 3445554 4567889999875422357888888664 42 567776542 3455544 3322222335 368
Q ss_pred CCCCeeeeccCC
Q psy4641 77 AVDQFVNLERSA 88 (229)
Q Consensus 77 k~Gd~VNLEral 88 (229)
++||.|++.-+.
T Consensus 82 ~~G~~v~i~gP~ 93 (231)
T cd06215 82 KVGDELWASGPA 93 (231)
T ss_pred CCCCEEEEEcCc
Confidence 999999998654
No 52
>PLN03116 ferredoxin--NADP+ reductase; Provisional
Probab=39.44 E-value=1.3e+02 Score=27.31 Aligned_cols=78 Identities=12% Similarity=0.007 Sum_probs=48.5
Q ss_pred ceEEEEEEEEc------CCeEEEEEEcCCCCCCCCccCCcEEEc--c------------eeeeeeEEe-----C-CEEEE
Q psy4641 8 GIGKVSAVFSY------NDFKSMTIWFPSDLLDGISISCSVAIN--G------------VCLSVTKIE-----G-NYISF 61 (229)
Q Consensus 8 ~~G~I~~i~~~------~~~~~l~i~~p~~~~~~l~~g~SIAVn--G------------vcLTV~~i~-----~-~~f~v 61 (229)
..++|.++++. ++.++++++.+..+ + ..+|.++.+- | =|+++.+.. . ..+++
T Consensus 25 ~~~~V~~i~~~~~p~~~~~v~~l~l~~~~~~-~-f~aGQy~~l~~~~~~~~~~g~~~~~R~YSIaS~p~~~~~~~~~lel 102 (307)
T PLN03116 25 YTATIVSVERIVGPKAPGETCHIVIDHGGNV-P-YWEGQSYGVIPPGTNPKKPGAPHNVRLYSIASTRYGDDFDGKTASL 102 (307)
T ss_pred EEEEEEeeEEcccCCCCCceEEEEEecCCCC-c-eecCceEeeeCCCCChhhcCCcCCceeEEecCCCCCcCCCCCEEEE
Confidence 36789998875 47888888877543 3 4788888772 2 346665442 1 13433
Q ss_pred EE--e-------------HhHHhhccCCCCCCCCeeeeccC
Q psy4641 62 DV--I-------------NETLKITNLKAVAVDQFVNLERS 87 (229)
Q Consensus 62 ~l--i-------------peTL~~TtL~~lk~Gd~VNLEra 87 (229)
.+ . |.=+-..-|..+++||.|++..+
T Consensus 103 ~Vr~~~~~~~~~~~~~~~~~G~~S~~L~~l~~Gd~v~v~gP 143 (307)
T PLN03116 103 CVRRAVYYDPETGKEDPAKKGVCSNFLCDAKPGDKVQITGP 143 (307)
T ss_pred EEEEEEEecCCcCCCCCccCcchhhhHhhCCCCCEEEEEEe
Confidence 33 3 22222344566899999999875
No 53
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=39.21 E-value=1.3e+02 Score=21.65 Aligned_cols=38 Identities=13% Similarity=0.146 Sum_probs=28.3
Q ss_pred CEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCceec
Q psy4641 57 NYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTEVG 95 (229)
Q Consensus 57 ~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdrlg 95 (229)
.++.+.++-+ +....+..+++||+|=+|-.++....-+
T Consensus 44 ~~~~v~~~g~-~a~~~~~~~~kG~~V~v~G~l~~~~~~~ 81 (100)
T cd04496 44 DWIRVVAFGK-LAENAAKYLKKGDLVYVEGRLRTRSWED 81 (100)
T ss_pred EEEEEEEEhH-HHHHHHHHhCCCCEEEEEEEEEeceeEC
Confidence 4677777777 6667778899999999987666554443
No 54
>cd06213 oxygenase_e_transfer_subunit The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate while mono-oxygenases add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with Rieske type [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate.
Probab=38.76 E-value=1.4e+02 Score=25.11 Aligned_cols=77 Identities=13% Similarity=0.150 Sum_probs=47.8
Q ss_pred eEEEEEEEE-cCCeEEEEEEcCCCCCCCCccCCcEEEc--cee----eeeeEEe--CCEEEEEEe--HhHHhhcc-C-CC
Q psy4641 9 IGKVSAVFS-YNDFKSMTIWFPSDLLDGISISCSVAIN--GVC----LSVTKIE--GNYISFDVI--NETLKITN-L-KA 75 (229)
Q Consensus 9 ~G~I~~i~~-~~~~~~l~i~~p~~~~~~l~~g~SIAVn--Gvc----LTV~~i~--~~~f~v~li--peTL~~Tt-L-~~ 75 (229)
.++|.++++ ..+.++++++.+..+ ...+|..+.+. |.. +|+.+.. .+.+++.+- +.-. -|+ | ..
T Consensus 2 ~~~v~~~~~~t~~~~~~~l~~~~~~--~~~pGQ~~~l~~~~~~~~r~ysi~s~~~~~~~l~~~vk~~~~G~-~s~~l~~~ 78 (227)
T cd06213 2 RGTIVAQERLTHDIVRLTVQLDRPI--AYKAGQYAELTLPGLPAARSYSFANAPQGDGQLSFHIRKVPGGA-FSGWLFGA 78 (227)
T ss_pred eEEEEEEeecCCCEEEEEEecCCCC--CcCCCCEEEEEeCCCCcccccccCCCCCCCCEEEEEEEECCCCc-chHHHHhc
Confidence 367777765 457888888876432 46688887764 432 5666653 345665442 2221 233 3 56
Q ss_pred CCCCCeeeeccCC
Q psy4641 76 VAVDQFVNLERSA 88 (229)
Q Consensus 76 lk~Gd~VNLEral 88 (229)
+++||.|.++.+.
T Consensus 79 l~~G~~v~i~gP~ 91 (227)
T cd06213 79 DRTGERLTVRGPF 91 (227)
T ss_pred CCCCCEEEEeCCC
Confidence 8999999988654
No 55
>cd06218 DHOD_e_trans FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as 3 cofactors: FMN, FAD, and an [2Fe-2S] cluster.
Probab=38.63 E-value=1.1e+02 Score=26.69 Aligned_cols=70 Identities=9% Similarity=0.012 Sum_probs=44.6
Q ss_pred cCCeEEEEEEcCCCCCCCCccCCcEEEc--c-------eeeeeeEEe--CCEEEEEEeHhHHhhccCCCCCCCCeeeecc
Q psy4641 18 YNDFKSMTIWFPSDLLDGISISCSVAIN--G-------VCLSVTKIE--GNYISFDVINETLKITNLKAVAVDQFVNLER 86 (229)
Q Consensus 18 ~~~~~~l~i~~p~~~~~~l~~g~SIAVn--G-------vcLTV~~i~--~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEr 86 (229)
.++.++++++.|.. .....+|..+.+- + =.+|+.+.. .+.+++.+-..-.-.-.|..+++||.|.++.
T Consensus 8 t~~v~~l~l~~~~~-~~~~~pGQ~v~l~~~~~~~~~~~R~ySi~s~~~~~~~l~l~v~~~G~~s~~l~~l~~Gd~v~i~g 86 (246)
T cd06218 8 ADDIYRLVLEAPEI-AAAAKPGQFVMLRVPDGSDPLLRRPISIHDVDPEEGTITLLYKVVGKGTRLLSELKAGDELDVLG 86 (246)
T ss_pred cCCeEEEEEeCcch-hccCCCCcEEEEEeCCCCCCcCCCceEeeeccCCCCEEEEEEEEECcchHHHhcCCCCCEEEEEe
Confidence 45678888887752 2457788866653 2 236777765 4566666543322223456789999999986
Q ss_pred CC
Q psy4641 87 SA 88 (229)
Q Consensus 87 al 88 (229)
+.
T Consensus 87 P~ 88 (246)
T cd06218 87 PL 88 (246)
T ss_pred cC
Confidence 54
No 56
>PF07238 PilZ: PilZ domain; InterPro: IPR009875 The ubiquitous bacterial second messenger cyclic-di-GMP (c-di-GMP) is associated with the regulation of biofilm formation, the control of exopolysaccharide synthesis, flagellar- and pili-based motility, gene expression, interactions of bacteria with eukaryotic hosts and multicellular behaviour in diverse bacteria. With the exception of bacterial cellulose synthases, the identities of c-di-GMP receptors and end targets of the proteins having one or more PilZ domains are mostly uncharacterised. However it was suggested that the PilZ domains present in the BcsA subunits of bacterial cellulose synthases function in c-di-GMP binding []. More recently YcgR (see IPR023787 from INTERPRO) was found to bind c-di-GMP tightly and specifically; also isolated PilZ domains from YcgR and BcsA bound c-di-GMP indicating that the PilZ domain was sufficient for binding of c-di-GMP and significantly that site-directed mutagenesis performed on YcgR implicated the most conserved residues in the PilZ domain directly in c-di-GMP binding []. It was suggested that c-di-GMP binding to PilZ brings about conformational changes in the protein that stabilise the bound ligand and probability initiates the downstream signal transduction cascade. In the case of YcgR, c-di-GMP binding regulates flagellum-based motility in a c-di-GMP-dependent manner (see IPR023787 from INTERPRO) []. The association of the PilZ domain with a variety of other domains, including likely components of bacterial multidrug secretion system, could provide clues to multiple functions of the c-di-GMP in bacterial pathogenesis and cell development. Binding and mutagenesis studies of several PilZ domain proteins have confirmed this observation and demonstrated that c-di-GMP binding depends on residues in RxxxR and D/NxSxxG sequence motifs. The crystal structure, at 1.7 A, of a PilZ domain::c-di-GMP complex from Vibrio cholerae shows c-di-GMP contacting seven of nine strongly conserved residues. Binding of c-di-GMP causes a conformational switch whereby the C- and N-terminal domains are brought into close opposition forming a new allosteric interaction surface that spans these domains and the c-di-GMP at their interface []. ; GO: 0035438 cyclic-di-GMP binding; PDB: 2RDE_B 1YLN_A 3KYG_A 3DSG_B 2GJG_A 3KYF_A 1YWU_A 2L74_A 2L1T_A 3CNR_A ....
Probab=38.03 E-value=1.4e+02 Score=20.95 Aligned_cols=60 Identities=17% Similarity=0.097 Sum_probs=44.8
Q ss_pred eeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCceecceeeEEEEeEEEEEEEEEEcCCeEEEEEEec
Q psy4641 49 LSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQALEKNYRMEIQMT 126 (229)
Q Consensus 49 LTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~~~~~~~~~i~~p 126 (229)
.++.++..+.+.+.. |. .+.+|+.|.++..+.-+.... ..|+|+.+++.++.+.+-+++.
T Consensus 27 ~~~~diS~~G~~~~~-~~--------~~~~~~~v~l~~~~~~~~~~~---------~~~~V~~~~~~~~~~~~g~~f~ 86 (102)
T PF07238_consen 27 GTIVDISEGGCAFRS-PK--------PLEPGDRVRLSFSLPGGGFPI---------VTGRVVRIQKDSDGYRVGVEFV 86 (102)
T ss_dssp EEEEEETTSEEEEEE-CT--------G--TTSEEEEEEECTTTSCEE---------EEEEEEEEEEESSEEEEEEEEC
T ss_pred EEEEEECccceEEEE-CC--------CCCCCCEEEEEEEeCCCCeeE---------EEEEEEEEECCCCceEEEEEEe
Confidence 467888888888886 33 778999998888776555422 7888899988888888888873
No 57
>PF06597 Clostridium_P47: Clostridium P-47 protein; InterPro: IPR010567 This family consists of several P-47 proteins from various Clostridium species [] as well as related sequences from other bacteria. The function of this family is unknown.
Probab=37.13 E-value=74 Score=31.16 Aligned_cols=64 Identities=11% Similarity=0.167 Sum_probs=38.9
Q ss_pred EEEEEcCCeEEEEEEeccchhccce-eeeccEEEceeeeeeeeEeCcEEEEEeehhhHhhccCCCCCCCCEeEE
Q psy4641 110 RAIQALEKNYRMEIQMTNKSLMKYV-FYKGYVAIDGISLTIGKVFEDYFYVHLIPETMEKTTMSKKAVGDALNI 182 (229)
Q Consensus 110 ~~i~~~~~~~~~~i~~p~~~~~~~i-v~KGsIavdGvSLTV~~v~~~~f~v~lIP~Tl~~T~l~~~k~Gd~VNi 182 (229)
-+|..-|++..+++.+| =.=.-|. ...+...++|+|++| .+.+.+.|.... .+-+. ..|++.|+
T Consensus 46 WqI~~GGdG~~irl~~P-I~~g~~~~~~~~~~~~~g~~~~i------eV~L~~~p~~~~-~~~~~-~~~~~~~l 110 (456)
T PF06597_consen 46 WQITTGGDGQNIRLKIP-IKSGTFDNFKGTTYDVSGVNPII------EVKLDYFPKKSK-PNDGT-ESGLQFNL 110 (456)
T ss_pred eEEeeCCCCceEEEEEE-EeeeEEEeccCcEEEecCCcEEE------EEEEeecccccc-CCCCc-CCCceEEE
Confidence 56788899999999999 2212222 356777888888754 356667773332 22221 33555555
No 58
>PF13856 Gifsy-2: ATP-binding sugar transporter from pro-phage; PDB: 2PP6_A.
Probab=37.08 E-value=1.2e+02 Score=22.77 Aligned_cols=41 Identities=15% Similarity=0.202 Sum_probs=22.6
Q ss_pred CCeEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeC--CEEEE
Q psy4641 19 NDFKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEG--NYISF 61 (229)
Q Consensus 19 ~~~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~--~~f~v 61 (229)
+....+.+..+ .+.+ .+.|+.|-+||-.++|.+... +...+
T Consensus 51 g~~~~L~v~~~-d~~~-P~~gd~v~~dG~~y~V~~~~~~~G~~~I 93 (95)
T PF13856_consen 51 GTQPTLYVFSS-DYPK-PRRGDRVVIDGESYTVTRFQEEDGMYVI 93 (95)
T ss_dssp ---EEEEE--S-S------TT-EEEETTEEEEEEEEEEETTEEEE
T ss_pred CCceEEEEEcC-CCCC-CCCCCEEEECCeEEEEeEEecCCCEEEE
Confidence 34566666654 3433 999999999999999998753 44444
No 59
>cd06192 DHOD_e_trans_like FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as NAD binding. NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (formi
Probab=36.95 E-value=1.3e+02 Score=25.89 Aligned_cols=68 Identities=12% Similarity=0.066 Sum_probs=40.7
Q ss_pred EcCCeEEEEEEeccchhccceeeeccEEEc--------eeeeeeeeEe--CcEEEEEeehhhHhhccCCCCCCCCEeEEc
Q psy4641 114 ALEKNYRMEIQMTNKSLMKYVFYKGYVAID--------GISLTIGKVF--EDYFYVHLIPETMEKTTMSKKAVGDALNIE 183 (229)
Q Consensus 114 ~~~~~~~~~i~~p~~~~~~~iv~KGsIavd--------GvSLTV~~v~--~~~f~v~lIP~Tl~~T~l~~~k~Gd~VNiE 183 (229)
...+.+.++++.| ..... .-+..+|.|. --++||++.. ++.+++.+-..-....-|..+++||.|+|.
T Consensus 7 ~t~~~~~l~l~~~-~~~~~-~~pGQ~v~l~~~~~~~~~~rpySi~s~~~~~~~l~l~i~~~G~~t~~l~~~~~G~~l~i~ 84 (243)
T cd06192 7 LEPNLVLLTIKAP-LAARL-FRPGQFVFLRNFESPGLERIPLSLAGVDPEEGTISLLVEIRGPKTKLIAELKPGEKLDVM 84 (243)
T ss_pred ecCCEEEEEEEcc-chhhc-CCCCCeEEEecCCCCCceeeeeEeeecCCCCCEEEEEEEEcCchHHHHHhCCCCCEEEEE
Confidence 4566777888877 42111 2223333332 2568888874 456777665543333345678999999996
No 60
>cd06263 MAM Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members include: type IIB receptor protein tyrosine phosphatases (such as RPTPmu), meprins (plasma membrane metalloproteases), neuropilins (receptors of secreted semaphorins), and zonadhesins (sperm-specific membrane proteins which bind to the extracellular matrix of the egg). In meprin A and neuropilin-1 and -2, MAM is involved in homo-oligomerization. In RPTPmu, it has been associated with both homophilic adhesive (trans) interactions and lateral (cis) receptor oligomerization. In a GPI-anchored protein that is expressed in cells in the embryonic chicken spinal chord, MDGA1, the MAM domain has been linked to heterophilic interactions with axon-rich region.
Probab=36.95 E-value=47 Score=26.34 Aligned_cols=13 Identities=46% Similarity=0.754 Sum_probs=12.0
Q ss_pred eeccEEEceeeee
Q psy4641 136 YKGYVAIDGISLT 148 (229)
Q Consensus 136 ~KGsIavdGvSLT 148 (229)
..|.||||.|+|+
T Consensus 141 ~~g~IAIDdI~l~ 153 (157)
T cd06263 141 SRGDIALDDISLS 153 (157)
T ss_pred ccccEEEeEEEEe
Confidence 7899999999997
No 61
>PRK07609 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated
Probab=36.49 E-value=1.1e+02 Score=27.89 Aligned_cols=77 Identities=14% Similarity=0.237 Sum_probs=46.6
Q ss_pred EEEEEEEEEc-CCeEEEEEEeccchhccceeeeccEEEc-----eeeeeeeeEe--CcEEEEEe--ehhhHhhccC-CCC
Q psy4641 106 VANVRAIQAL-EKNYRMEIQMTNKSLMKYVFYKGYVAID-----GISLTIGKVF--EDYFYVHL--IPETMEKTTM-SKK 174 (229)
Q Consensus 106 ~~~i~~i~~~-~~~~~~~i~~p~~~~~~~iv~KGsIavd-----GvSLTV~~v~--~~~f~v~l--IP~Tl~~T~l-~~~ 174 (229)
.++|.++++. .+.+.++++.|+....+ .-+..+|.|. --+++|++.. ++.+++.+ .|.-.-..-| ..+
T Consensus 104 ~~~V~~~~~~~~d~~~l~l~~~~~~~~~-~~pGQfv~l~~~~~~~R~ySias~p~~~~~l~~~ik~~~~G~~s~~l~~~l 182 (339)
T PRK07609 104 PCRVASLERVAGDVMRLKLRLPATERLQ-YLAGQYIEFILKDGKRRSYSIANAPHSGGPLELHIRHMPGGVFTDHVFGAL 182 (339)
T ss_pred EEEEEEEEcCCCcEEEEEEEcCCCCCCc-cCCCCeEEEECCCCceeeeecCCCCCCCCEEEEEEEecCCCccHHHHHHhc
Confidence 5788888765 56678899887222212 1233444442 2677888774 24666555 5553332234 578
Q ss_pred CCCCEeEEc
Q psy4641 175 AVGDALNIE 183 (229)
Q Consensus 175 k~Gd~VNiE 183 (229)
++||.|.+.
T Consensus 183 ~~G~~v~v~ 191 (339)
T PRK07609 183 KERDILRIE 191 (339)
T ss_pred cCCCEEEEE
Confidence 999999987
No 62
>cd06214 PA_degradation_oxidoreductase_like NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like domain with an iron-sulfur binding cluster domain. Ferredoxins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal portion may contain a flavin prosthetic group, as in flavoenzymes, or use flavin as a substrate. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and
Probab=36.16 E-value=1.8e+02 Score=24.53 Aligned_cols=79 Identities=14% Similarity=0.055 Sum_probs=50.0
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCCCC--CCCccCCcEEEc----ce----eeeeeEEeC-CEEEEEEe--HhHHhhccC-
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSDLL--DGISISCSVAIN----GV----CLSVTKIEG-NYISFDVI--NETLKITNL- 73 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~~~--~~l~~g~SIAVn----Gv----cLTV~~i~~-~~f~v~li--peTL~~TtL- 73 (229)
..+|.++++. ++..+++++.|..+. -...+|..|-+. |. .+|+.+..+ +.+.+.+- +.=.-.+.|
T Consensus 3 ~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~GQ~v~l~~~~~g~~~~r~ysi~s~~~~~~l~~~i~~~~~G~~s~~l~ 82 (241)
T cd06214 3 PLTVAEVVRETADAVSITFDVPEELRDAFRYRPGQFLTLRVPIDGEEVRRSYSICSSPGDDELRITVKRVPGGRFSNWAN 82 (241)
T ss_pred eEEEEEEEecCCCeEEEEEecCcccCCCCCcCCCCeEEEEeecCCCeeeeeeeecCCCCCCcEEEEEEEcCCCccchhHH
Confidence 3567777765 567789999875442 256889887775 42 467765533 34555442 222222345
Q ss_pred CCCCCCCeeeeccC
Q psy4641 74 KAVAVDQFVNLERS 87 (229)
Q Consensus 74 ~~lk~Gd~VNLEra 87 (229)
.++++|+.+.+..+
T Consensus 83 ~~~~~G~~v~i~gP 96 (241)
T cd06214 83 DELKAGDTLEVMPP 96 (241)
T ss_pred hccCCCCEEEEeCC
Confidence 37999999999875
No 63
>PRK05713 hypothetical protein; Provisional
Probab=36.14 E-value=1e+02 Score=27.84 Aligned_cols=75 Identities=16% Similarity=0.223 Sum_probs=45.3
Q ss_pred EEEEEEEEEc-CCeEEEEEEeccchhccceeeeccEEE---ce--eeeeeeeEe--CcEEEEEe--ehhhHhhccCCCCC
Q psy4641 106 VANVRAIQAL-EKNYRMEIQMTNKSLMKYVFYKGYVAI---DG--ISLTIGKVF--EDYFYVHL--IPETMEKTTMSKKA 175 (229)
Q Consensus 106 ~~~i~~i~~~-~~~~~~~i~~p~~~~~~~iv~KGsIav---dG--vSLTV~~v~--~~~f~v~l--IP~Tl~~T~l~~~k 175 (229)
.++|.++++. ++-+.++++.+ +.+ + .-+..++.| ++ =+++|++.. ++.+++.+ .|.=.-.+.|..++
T Consensus 93 ~~~V~~~~~~t~dv~~l~l~~~-~~~-~-~~~GQfv~l~~~~~~~R~ySias~p~~~~~l~~~I~~~~~G~~s~~l~~l~ 169 (312)
T PRK05713 93 PARVVALDWLGGDVLRLRLEPE-RPL-R-YRAGQHLVLWTAGGVARPYSLASLPGEDPFLEFHIDCSRPGAFCDAARQLQ 169 (312)
T ss_pred CeEEEEEecCCCCEEEEEEccC-CcC-C-cCCCCEEEEecCCCcccccccCcCCCCCCeEEEEEEEcCCCccchhhhcCC
Confidence 3888888865 66777888765 322 2 223334333 22 477787763 34555555 35433334567899
Q ss_pred CCCEeEEc
Q psy4641 176 VGDALNIE 183 (229)
Q Consensus 176 ~Gd~VNiE 183 (229)
+||.|++.
T Consensus 170 ~Gd~v~l~ 177 (312)
T PRK05713 170 VGDLLRLG 177 (312)
T ss_pred CCCEEEEc
Confidence 99999973
No 64
>PF13786 DUF4179: Domain of unknown function (DUF4179); PDB: 3FBQ_A.
Probab=35.98 E-value=60 Score=23.74 Aligned_cols=24 Identities=25% Similarity=0.336 Sum_probs=17.8
Q ss_pred ccEEEceeeeeeeeE--eCcEEEEEe
Q psy4641 138 GYVAIDGISLTIGKV--FEDYFYVHL 161 (229)
Q Consensus 138 GsIavdGvSLTV~~v--~~~~f~v~l 161 (229)
-|+.-||+.+||.++ +++.+.+.+
T Consensus 63 ~s~t~~GitvTi~~v~~D~~~l~i~~ 88 (94)
T PF13786_consen 63 KSVTDNGITVTINEVIADGNRLIISY 88 (94)
T ss_dssp EEEEETTEEEEEEEEEE-SSEEEEEE
T ss_pred cEEEECCEEEEEEEEEEECCEEEEEE
Confidence 378889999999999 555665543
No 65
>PRK08051 fre FMN reductase; Validated
Probab=35.91 E-value=1.1e+02 Score=26.11 Aligned_cols=78 Identities=8% Similarity=0.095 Sum_probs=47.7
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc--c---eeeeeeEEe--CCEEEE--EEeHhH-HhhccCCCCC
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN--G---VCLSVTKIE--GNYISF--DVINET-LKITNLKAVA 77 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn--G---vcLTV~~i~--~~~f~v--~lipeT-L~~TtL~~lk 77 (229)
.++|.+++.. ++.+.++++.+..+ ...+|..+.+. + =.+|+.+.. ++.+.+ ...+.. ....-+.+++
T Consensus 4 ~~~v~~i~~~~~~~~~l~l~~~~~~--~~~pGQ~v~l~~~~~~~r~ySias~p~~~~~l~~~v~~~~~~~~~~~~~~~l~ 81 (232)
T PRK08051 4 SCKVTSVEAITDTVYRVRLVPEAPF--SFRAGQYLMVVMGEKDKRPFSIASTPREKGFIELHIGASELNLYAMAVMERIL 81 (232)
T ss_pred EEEEEEEecCCCCeEEEEEecCCCC--ccCCCCEEEEEcCCCcceeecccCCCCCCCcEEEEEEEcCCCcchHHHHHHcC
Confidence 4678787765 46777888765432 57888887775 1 245665543 344444 333321 1112246789
Q ss_pred CCCeeeeccCC
Q psy4641 78 VDQFVNLERSA 88 (229)
Q Consensus 78 ~Gd~VNLEral 88 (229)
+||.|.++-+.
T Consensus 82 ~G~~v~v~gP~ 92 (232)
T PRK08051 82 KDGEIEVDIPH 92 (232)
T ss_pred CCCEEEEEcCC
Confidence 99999999774
No 66
>cd07557 trimeric_dUTPase Trimeric dUTP diphosphatases. Trimeric dUTP diphosphatases, or dUTPases, are the most common family of dUTPase, found in bacteria, eukaryotes, and archaea. They catalyze the hydrolysis of the dUTP-Mg complex (dUTP-Mg) into dUMP and pyrophosphate. This reaction is crucial for the preservation of chromosomal integrity as it removes dUTP and therefore reduces the cellular dUTP/dTTP ratio, and prevents dUTP from being incorporated into DNA. It also provides dUMP as the precursor for dTTP synthesis via the thymidylate synthase pathway. dUTPases are homotrimeric, except some monomeric viral dUTPases, which have been shown to mimic a trimer. Active sites are located at the subunit interface.
Probab=35.33 E-value=64 Score=23.56 Aligned_cols=56 Identities=20% Similarity=0.242 Sum_probs=39.4
Q ss_pred EEEEeccchhccceeeeccEEEceeeeee-eeEeCc---EEEEEeehhhHhhccCCCCCCCCEe
Q psy4641 121 MEIQMTNKSLMKYVFYKGYVAIDGISLTI-GKVFED---YFYVHLIPETMEKTTMSKKAVGDAL 180 (229)
Q Consensus 121 ~~i~~p~~~~~~~iv~KGsIavdGvSLTV-~~v~~~---~f~v~lIP~Tl~~T~l~~~k~Gd~V 180 (229)
..+.+| +.+...+.+|.|.+-.|+.+.- .-++.+ .+.+.|.-++-..-. +++|+++
T Consensus 28 ~~i~~p-~~~~~~i~~RSs~~~~Gi~v~~~g~iD~gy~G~l~v~l~N~~~~~~~---i~~G~~i 87 (92)
T cd07557 28 EAIELP-EGYVGLVFPRSSLARKGITVHNAGVIDPGYRGEITLELYNLGPEPVV---IKKGDRI 87 (92)
T ss_pred EEEEcC-CCeEEEEEcCchhhcCCEEecCCcccCCCCcceEEEEEEECCCCCEE---ECCCCEE
Confidence 567889 8999999999999999999876 445444 467776655532222 4566654
No 67
>COG1661 Predicted DNA-binding protein with PD1-like DNA-binding motif [General function prediction only]
Probab=35.20 E-value=58 Score=27.15 Aligned_cols=54 Identities=26% Similarity=0.432 Sum_probs=36.2
Q ss_pred HhHHhhccC-CCCCCCC-e--eeeccCCCCCceecceeeEEEEeEEEEEEEEEEcCCe
Q psy4641 65 NETLKITNL-KAVAVDQ-F--VNLERSAKMNTEVGGHFLSGHIIDVANVRAIQALEKN 118 (229)
Q Consensus 65 peTL~~TtL-~~lk~Gd-~--VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~~~~~ 118 (229)
.++++...| |++...| . +++=.+-.-|.-+|||++.|-|.-+++|.=.+-.+..
T Consensus 67 ~e~~EvlSL~G~i~~~~p~~HlHa~l~~~~G~~~GGHL~~~~V~~t~Ev~I~el~~~~ 124 (141)
T COG1661 67 NEPLEVLSLLGNIALDDPFVHLHAALGDENGITLGGHLLEGEVFPTAEVFIRELPGEL 124 (141)
T ss_pred CCcEEEEEecceeecCCCcEEEEEEEecCCCcEEeeeecccEEeEEEEEEEEEccccc
Confidence 455555333 5555555 3 3344455678899999999999999998755554443
No 68
>cd06208 CYPOR_like_FNR These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins, such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap between the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form FADH2, which then
Probab=34.97 E-value=1.1e+02 Score=27.26 Aligned_cols=78 Identities=19% Similarity=0.140 Sum_probs=48.5
Q ss_pred eEEEEEEEEcC------CeEEEEEEcCCCCCCCCccCCcEEEc--------c-----eeeeeeEEe------CCEEEEEE
Q psy4641 9 IGKVSAVFSYN------DFKSMTIWFPSDLLDGISISCSVAIN--------G-----VCLSVTKIE------GNYISFDV 63 (229)
Q Consensus 9 ~G~I~~i~~~~------~~~~l~i~~p~~~~~~l~~g~SIAVn--------G-----vcLTV~~i~------~~~f~v~l 63 (229)
.++|.++++.. +.++++++.+..+ ...+|..+.|- | =++++.+.. ++.+.+.+
T Consensus 10 ~~~v~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~pGQ~v~l~~~~~~~~~g~~~~~R~YSIas~p~~~~~~~~~l~l~V 87 (286)
T cd06208 10 IGKVVSNTRLTGPDAPGEVCHIVIDHGGKL--PYLEGQSIGIIPPGTDAKNGKPHKLRLYSIASSRYGDDGDGKTLSLCV 87 (286)
T ss_pred EEEEEeceeccCCCCCcceEEEEEeCCCcc--cccCCceEEEECCCcchhcCCCCCceeeEecCCccccCCCCCEEEEEE
Confidence 47788888753 7888888875432 46788888872 2 235666542 23444444
Q ss_pred --eHh----------HHhhccCCCCCCCCeeeeccCC
Q psy4641 64 --INE----------TLKITNLKAVAVDQFVNLERSA 88 (229)
Q Consensus 64 --ipe----------TL~~TtL~~lk~Gd~VNLEral 88 (229)
.+. =+-..-|..+++||.|++..+.
T Consensus 88 k~~~~~~~~~~~~~~G~~S~~L~~l~~Gd~v~v~gP~ 124 (286)
T cd06208 88 KRLVYTDPETDETKKGVCSNYLCDLKPGDDVQITGPV 124 (286)
T ss_pred EEEEEecCCCCceeccchHHHHhhCCCCCEEEEEeec
Confidence 332 1223445678999999997654
No 69
>TIGR00999 8a0102 Membrane Fusion Protein cluster 2 (function with RND porters).
Probab=34.15 E-value=3e+02 Score=23.54 Aligned_cols=78 Identities=9% Similarity=0.145 Sum_probs=45.6
Q ss_pred CCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCceecceeeEEEEeEEEEEEEEEE
Q psy4641 35 GISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQA 114 (229)
Q Consensus 35 ~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~ 114 (229)
.+.+|+.+.-.-.-+++...+.-.+.+.+ |+. .++.+++|+.|.+..+- |..++|.|..++.-. ..
T Consensus 103 ~~~~G~~v~~g~~l~~i~~~~~~~i~~~v-~~~----~~~~i~~g~~v~i~~~~-------~~~~~g~v~~I~~~~--~~ 168 (265)
T TIGR00999 103 SVTLGDYVAPQAELFRVADLGAVWVEAEV-PAK----DVSRIRKGSKATVLLEN-------GRPLPARVDYVGPEV--DG 168 (265)
T ss_pred EcCCCCEeCCCCceEEEEcCCcEEEEEEE-CHH----HHhhCCCCCEEEEEECC-------CCEEEEEEEEEcccc--CC
Confidence 34556666554455566654443555554 443 35568899999998654 455777777666432 22
Q ss_pred cCCeEEEEEEec
Q psy4641 115 LEKNYRMEIQMT 126 (229)
Q Consensus 115 ~~~~~~~~i~~p 126 (229)
....+.+++.++
T Consensus 169 ~~~~~~v~~~~~ 180 (265)
T TIGR00999 169 SSRTAKVRVLIK 180 (265)
T ss_pred CCceEEEEEEEe
Confidence 334555666665
No 70
>PRK00054 dihydroorotate dehydrogenase electron transfer subunit; Reviewed
Probab=33.80 E-value=2.5e+02 Score=24.22 Aligned_cols=74 Identities=14% Similarity=0.142 Sum_probs=44.1
Q ss_pred EEEEEEEE-cCCeEEEEEEeccchhccceeeeccEEEc--------eeeeeeeeEeCcEEEEEeehhhHhhccCCCCCCC
Q psy4641 107 ANVRAIQA-LEKNYRMEIQMTNKSLMKYVFYKGYVAID--------GISLTIGKVFEDYFYVHLIPETMEKTTMSKKAVG 177 (229)
Q Consensus 107 ~~i~~i~~-~~~~~~~~i~~p~~~~~~~iv~KGsIavd--------GvSLTV~~v~~~~f~v~lIP~Tl~~T~l~~~k~G 177 (229)
++|.++++ ..+...++++.| +. .+ .-+..+|.|. --++||++..++.+++.+-+.-.-...|..+++|
T Consensus 7 ~~V~~~~~~t~d~~~l~l~~~-~~-~~-~~pGQ~v~l~~~~~~~~~~r~ySi~s~~~~~l~l~Vk~~G~~t~~l~~l~~G 83 (250)
T PRK00054 7 MKIVENKEIAPNIYTLVLDGE-KV-FD-MKPGQFVMVWVPGVEPLLERPISISDIDKNEITILYRKVGEGTKKLSKLKEG 83 (250)
T ss_pred EEEEEEEEecCCeEEEEEeCc-cc-cC-CCCCcEEEEEeCCCCCcCceeeEEeeeCCCEEEEEEEEcChHHHHHhcCCCC
Confidence 55666554 455666777744 21 11 2333344432 1356777766667777776644333456678999
Q ss_pred CEeEEc
Q psy4641 178 DALNIE 183 (229)
Q Consensus 178 d~VNiE 183 (229)
|.|.|+
T Consensus 84 ~~v~i~ 89 (250)
T PRK00054 84 DELDIR 89 (250)
T ss_pred CEEEEE
Confidence 999887
No 71
>PRK11872 antC anthranilate dioxygenase reductase; Provisional
Probab=33.78 E-value=1.7e+02 Score=26.77 Aligned_cols=80 Identities=14% Similarity=0.062 Sum_probs=48.7
Q ss_pred eEEEEEEEEcC-CeEEEEEEcCCCC-CCCCccCCcEEEc--c----eeeeeeEEe--CCEEEEEE--eHhHHhhccC-CC
Q psy4641 9 IGKVSAVFSYN-DFKSMTIWFPSDL-LDGISISCSVAIN--G----VCLSVTKIE--GNYISFDV--INETLKITNL-KA 75 (229)
Q Consensus 9 ~G~I~~i~~~~-~~~~l~i~~p~~~-~~~l~~g~SIAVn--G----vcLTV~~i~--~~~f~v~l--ipeTL~~TtL-~~ 75 (229)
.++|.++++.. +.++++++.+... .-...+|..+.+. | -++|+.+.. ++.+.|.+ .|.-.-.+.| ..
T Consensus 108 ~~~V~~i~~~s~di~~l~l~~~~~~~~~~~~pGQ~v~l~~~~~~~~R~ySias~p~~~~~l~~~ik~~~~G~~s~~L~~~ 187 (340)
T PRK11872 108 SGVVTAVELVSETTAILHLDASAHGRQLDFLPGQYARLQIPGTDDWRSYSFANRPNATNQLQFLIRLLPDGVMSNYLRER 187 (340)
T ss_pred eEEEEEEEecCCCeEEEEEEcCCCCCccCcCCCCEEEEEeCCCCceeecccCCCCCCCCeEEEEEEECCCCcchhhHhhC
Confidence 47888888654 5677888876321 1146788877663 4 256666553 34444444 3443222335 46
Q ss_pred CCCCCeeeeccCC
Q psy4641 76 VAVDQFVNLERSA 88 (229)
Q Consensus 76 lk~Gd~VNLEral 88 (229)
+++||.|.++.+.
T Consensus 188 l~~G~~v~i~gP~ 200 (340)
T PRK11872 188 CQVGDEILFEAPL 200 (340)
T ss_pred CCCCCEEEEEcCc
Confidence 9999999998653
No 72
>TIGR03224 benzo_boxA benzoyl-CoA oxygenase/reductase, BoxA protein. Members of this protein family are BoxA, the A component of the BoxAB benzoyl-CoA oxygenase/reductase. This oxygen-requiring enzyme acts in an aerobic pathway of benzoate catabolism via coenzyme A ligation. BoxA is a homodimeric iron-sulphur-flavoprotein and acts as an NADPH-dependent reductase for BoxB.
Probab=33.74 E-value=1.8e+02 Score=27.79 Aligned_cols=79 Identities=16% Similarity=0.151 Sum_probs=48.8
Q ss_pred eEEEEEEEEc------CCeEEEEEEcCCCCCCCCccCCcEEEc-------ce-----eeeeeEEeC------CEEEEEE-
Q psy4641 9 IGKVSAVFSY------NDFKSMTIWFPSDLLDGISISCSVAIN-------GV-----CLSVTKIEG------NYISFDV- 63 (229)
Q Consensus 9 ~G~I~~i~~~------~~~~~l~i~~p~~~~~~l~~g~SIAVn-------Gv-----cLTV~~i~~------~~f~v~l- 63 (229)
.++|.+.++. .+.++++++.+... -...+|.+|.|- |- ++++.+... +.+++.+
T Consensus 144 ~a~V~~~~~l~~~~~~~~v~~l~L~~~~~~-~~~~pGQfv~l~~pg~~~~g~~~~~R~YSIas~~~~~~~~~~~l~l~Vk 222 (411)
T TIGR03224 144 TATVVGNYRLTDEDASSDIHHIVLDFGSHP-FPVLEGQSIGILPPGTDASGKPHYARMYSVASPRNGERPGYNNLALTVK 222 (411)
T ss_pred EEEEeeeEEccCCCCCCceEEEEEeCCCCc-CCccCCcEEEEecCCcCcCCCcCcceeeeecCCCCccCCCCCEEEEEEE
Confidence 4677777765 36788888876432 246889998882 22 567766521 2344433
Q ss_pred -eHh--------HHhhccCCCCCCCCeeeeccCC
Q psy4641 64 -INE--------TLKITNLKAVAVDQFVNLERSA 88 (229)
Q Consensus 64 -ipe--------TL~~TtL~~lk~Gd~VNLEral 88 (229)
.+. =.-..-|..+++||.|.+..+.
T Consensus 223 ~v~~~~~g~~~~G~~S~~L~~lk~Gd~v~v~GP~ 256 (411)
T TIGR03224 223 RVTTDHQGNAVRGVASNYLCDLKKGDKVQVIGPF 256 (411)
T ss_pred EEEecCCCCcCcccchhHHhcCCCcCEEEEEecc
Confidence 331 1223345679999999998654
No 73
>cd06210 MMO_FAD_NAD_binding Methane monooxygenase (MMO) reductase of methanotrophs catalyzes the NADH-dependent hydroxylation of methane to methanol. This multicomponent enzyme mediates electron transfer via a hydroxylase (MMOH), a coupling protein, and a reductase which is comprised of an N-terminal [2Fe-2S] ferredoxin domain, an FAD binding subdomain, and an NADH binding subdomain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. Dioxygenases add both atom of oxygen to the substrate, while mono-oxygenases add one atom to the substrate and one atom to water.
Probab=32.09 E-value=1.5e+02 Score=24.96 Aligned_cols=77 Identities=18% Similarity=0.237 Sum_probs=45.0
Q ss_pred EEEEEEEEE-cCCeEEEEEEeccchh----ccceeeeccEEE--ce----eeeeeeeEe--CcEEEEEe--ehhhHhhcc
Q psy4641 106 VANVRAIQA-LEKNYRMEIQMTNKSL----MKYVFYKGYVAI--DG----ISLTIGKVF--EDYFYVHL--IPETMEKTT 170 (229)
Q Consensus 106 ~~~i~~i~~-~~~~~~~~i~~p~~~~----~~~iv~KGsIav--dG----vSLTV~~v~--~~~f~v~l--IP~Tl~~T~ 170 (229)
.++|.++++ .++...++++.| +.+ ..-.-+..++.| +| =++||++.. ++.+++.+ .|.-.-.+-
T Consensus 3 ~~~v~~~~~~~~~~~~l~l~~~-~~~~~~~~~~~~pGQ~v~l~~~~~~~~R~ySi~s~~~~~~~l~~~i~~~~~G~~s~~ 81 (236)
T cd06210 3 EAEIVAVDRVSSNVVRLRLQPD-DAEGAGIAAEFVPGQFVEIEIPGTDTRRSYSLANTPNWDGRLEFLIRLLPGGAFSTY 81 (236)
T ss_pred eEEEEEEeecCCceEEEEEEeC-CcccccccCCcCCCCEEEEEcCCCccceecccCCCCCCCCEEEEEEEEcCCCccchh
Confidence 467777765 455667888887 421 111233334433 33 267887763 34555444 455443445
Q ss_pred CCC-CCCCCEeEEc
Q psy4641 171 MSK-KAVGDALNIE 183 (229)
Q Consensus 171 l~~-~k~Gd~VNiE 183 (229)
|.. +++||.|+|+
T Consensus 82 l~~~~~~Gd~v~i~ 95 (236)
T cd06210 82 LETRAKVGQRLNLR 95 (236)
T ss_pred hhhCcCCCCEEEEe
Confidence 555 8999999887
No 74
>PRK06567 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated
Probab=31.18 E-value=1.6e+02 Score=32.03 Aligned_cols=77 Identities=8% Similarity=0.093 Sum_probs=47.9
Q ss_pred EEEEEEEEEEcCC-eEEEEEEeccchhccceeeeccEEEc-----------eeeeeeeeEeC--cEEEEEeehhhHhhcc
Q psy4641 105 DVANVRAIQALEK-NYRMEIQMTNKSLMKYVFYKGYVAID-----------GISLTIGKVFE--DYFYVHLIPETMEKTT 170 (229)
Q Consensus 105 ~~~~i~~i~~~~~-~~~~~i~~p~~~~~~~iv~KGsIavd-----------GvSLTV~~v~~--~~f~v~lIP~Tl~~T~ 170 (229)
-+++|.++++... -+.|+++.| . ..+-..|..++.|- .++|+|++++. +++++.+---=-..--
T Consensus 791 l~~~Vv~~~~lap~i~~L~l~aP-~-iA~~~kPGQFVmL~~~~~g~~~l~~p~P~SI~~vD~e~g~It~i~rvVGkgT~~ 868 (1028)
T PRK06567 791 LTSRVNKINILDDKTFELIIHSP-L-AAKNFKFGQFFRLQNYSEDAAKLIEPVALSPIDIDVEKGLISFIVFEVGKSTSL 868 (1028)
T ss_pred hceEEEEEEEecCCEEEEEEeCc-c-hhhcCCCCceEEEEeCCCCCccccCceeEEeeccCCCCCEEEEEEEEEChHHHH
Confidence 3678888766554 677888887 3 22233455555543 25789988854 4455444333333444
Q ss_pred CCCCCCCCEeEEc
Q psy4641 171 MSKKAVGDALNIE 183 (229)
Q Consensus 171 l~~~k~Gd~VNiE 183 (229)
|..+++||.|++-
T Consensus 869 Ls~l~~Gd~v~v~ 881 (1028)
T PRK06567 869 CKTLSENEKVVLM 881 (1028)
T ss_pred HhcCCCCCEEEEE
Confidence 6889999998874
No 75
>cd06195 FNR1 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form FADH2 which then transfers two electrons and a proton to NADP+ to form NADPH.
Probab=31.15 E-value=1.6e+02 Score=25.02 Aligned_cols=74 Identities=11% Similarity=0.060 Sum_probs=46.5
Q ss_pred EEEEEE-cCCeEEEEEEcCCCCCCCCccCCcEEEc-----c--e--eeeeeEEeC-CEEEEEE--eHhHHhhccCCCCCC
Q psy4641 12 VSAVFS-YNDFKSMTIWFPSDLLDGISISCSVAIN-----G--V--CLSVTKIEG-NYISFDV--INETLKITNLKAVAV 78 (229)
Q Consensus 12 I~~i~~-~~~~~~l~i~~p~~~~~~l~~g~SIAVn-----G--v--cLTV~~i~~-~~f~v~l--ipeTL~~TtL~~lk~ 78 (229)
|.++++ .++.++++++.|. .....+|..+.+. | . ++|+.+... +.+.+.+ .+.-.-..-|..+++
T Consensus 2 v~~~~~~t~~~~~~~l~~~~--~~~~~pGQ~v~l~~~~~~~~~~~R~ySi~s~~~~~~i~~~i~~~~~G~~s~~l~~l~~ 79 (241)
T cd06195 2 VLKRRDWTDDLFSFRVTRDI--PFRFQAGQFTKLGLPNDDGKLVRRAYSIASAPYEENLEFYIILVPDGPLTPRLFKLKP 79 (241)
T ss_pred eEEEEEcCCCEEEEEEcCCC--CCccCCCCeEEEeccCCCCCeeeecccccCCCCCCeEEEEEEEecCCCCchHHhcCCC
Confidence 344443 3567777777664 2357888887773 3 2 678877643 4555544 344444445678899
Q ss_pred CCeeeec-cC
Q psy4641 79 DQFVNLE-RS 87 (229)
Q Consensus 79 Gd~VNLE-ra 87 (229)
||.|.+. .+
T Consensus 80 Gd~v~v~~gP 89 (241)
T cd06195 80 GDTIYVGKKP 89 (241)
T ss_pred CCEEEECcCC
Confidence 9999998 44
No 76
>PF07703 A2M_N_2: Alpha-2-macroglobulin family N-terminal region; InterPro: IPR011625 This is a domain of the alpha-2-macroglobulin family. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; PDB: 2QKI_D 3L3O_D 3NMS_A 2ICF_A 2A73_A 2ICE_D 2HR0_A 2A74_A 2XWJ_G 3OHX_A ....
Probab=30.96 E-value=85 Score=24.25 Aligned_cols=66 Identities=15% Similarity=0.096 Sum_probs=37.0
Q ss_pred EEEEEEcCCCCCC-------CCcc-CCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCce
Q psy4641 22 KSMTIWFPSDLLD-------GISI-SCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTE 93 (229)
Q Consensus 22 ~~l~i~~p~~~~~-------~l~~-g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdr 93 (229)
..+.|.+++.+.+ ++.+ .+.+..+=+-+.|.......+++...| ..++||+.++++.....+..
T Consensus 52 ~~~~~~v~~~~~P~~~v~~~~v~~~~g~~~~~s~~i~V~~~~~~~v~l~~~~--------~~~~Pg~~~~~~i~~~~~s~ 123 (136)
T PF07703_consen 52 TTFEFPVTPDMAPNFYVLAYYVRPADGEVVADSVWIEVEPCFELKVELTASP--------DEYKPGEEVTLRIKAPPNSL 123 (136)
T ss_dssp SEEEEEE-GGGTSEEEEEEEEETTCTCEEEEEEEEEEBGCSGSSSEEEEESS--------SSBTTTSEEEEEEEESTTEE
T ss_pred EEEEEecchhcCCcEEEEEEEEcCCCCeEEEEEEEEEecccccceEEEEEec--------ceeCCCCEEEEEEEeCCCCE
Confidence 3566666555433 2223 455555555555555333444444333 67889999999876655554
Q ss_pred ec
Q psy4641 94 VG 95 (229)
Q Consensus 94 lg 95 (229)
++
T Consensus 124 v~ 125 (136)
T PF07703_consen 124 VG 125 (136)
T ss_dssp EE
T ss_pred EE
Confidence 43
No 77
>cd06187 O2ase_reductase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate, while mono-oxygenases (aka mixed oxygenases) add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with Rieske type [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate.
Probab=30.67 E-value=1.6e+02 Score=24.61 Aligned_cols=69 Identities=14% Similarity=0.040 Sum_probs=44.3
Q ss_pred cCCeEEEEEEcCCCCCCCCccCCcEEEcc-------eeeeeeEEeC--CEEEEEEeHh--HHhhccCCC-CCCCCeeeec
Q psy4641 18 YNDFKSMTIWFPSDLLDGISISCSVAING-------VCLSVTKIEG--NYISFDVINE--TLKITNLKA-VAVDQFVNLE 85 (229)
Q Consensus 18 ~~~~~~l~i~~p~~~~~~l~~g~SIAVnG-------vcLTV~~i~~--~~f~v~lipe--TL~~TtL~~-lk~Gd~VNLE 85 (229)
.++.+.++++.|.. ....+|..|.+.- -.+|+.+... +.+++.+-.. -.-..-|.+ +++||.|.++
T Consensus 8 ~~~~~~~~l~~~~~--~~~~pGq~i~l~~~~~~~~~r~ysi~s~~~~~~~~~~~i~~~~~G~~s~~l~~~l~~G~~v~i~ 85 (224)
T cd06187 8 THDIAVVRLQLDQP--LPFWAGQYVNVTVPGRPRTWRAYSPANPPNEDGEIEFHVRAVPGGRVSNALHDELKVGDRVRLS 85 (224)
T ss_pred CCCEEEEEEEeCCC--CCcCCCceEEEEcCCCCCcceeccccCCCCCCCEEEEEEEeCCCCcchHHHhhcCccCCEEEEe
Confidence 46778888887754 3577898888762 4557766543 4566555322 222233544 8999999999
Q ss_pred cCC
Q psy4641 86 RSA 88 (229)
Q Consensus 86 ral 88 (229)
-+.
T Consensus 86 gP~ 88 (224)
T cd06187 86 GPY 88 (224)
T ss_pred CCc
Confidence 764
No 78
>cd06216 FNR_iron_sulfur_binding_2 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to for
Probab=30.52 E-value=2.3e+02 Score=24.11 Aligned_cols=79 Identities=13% Similarity=0.093 Sum_probs=46.2
Q ss_pred EeEEEEEEEEEEc-CCeEEEEEEeccchhccceeeeccEEE----ce----eeeeeeeEe---CcEEEEEeehh--hHhh
Q psy4641 103 IIDVANVRAIQAL-EKNYRMEIQMTNKSLMKYVFYKGYVAI----DG----ISLTIGKVF---EDYFYVHLIPE--TMEK 168 (229)
Q Consensus 103 Vd~~~~i~~i~~~-~~~~~~~i~~p~~~~~~~iv~KGsIav----dG----vSLTV~~v~---~~~f~v~lIP~--Tl~~ 168 (229)
....++|.++++. ++...++++.| ..+.+ .-+..+|.| +| =.+||++.. ++.|++.+--+ =.-.
T Consensus 16 ~~~~~~v~~i~~~~~~~~~i~l~~~-~~~~~-~~pGQ~i~l~~~~~~~~~~r~ysi~s~~~~~~~~l~~~ik~~~~G~~s 93 (243)
T cd06216 16 RELRARVVAVRPETADMVTLTLRPN-RGWPG-HRAGQHVRLGVEIDGVRHWRSYSLSSSPTQEDGTITLTVKAQPDGLVS 93 (243)
T ss_pred ceeEEEEEEEEEcCCCcEEEEEecC-CCCCC-cCCCceEEEEEEECCeEEEEEEeccCCCcCCCCeEEEEEEEcCCCcch
Confidence 4456778888765 56777888876 43222 233444433 34 267887764 45566655433 2222
Q ss_pred ccCC-CCCCCCEeEEc
Q psy4641 169 TTMS-KKAVGDALNIE 183 (229)
Q Consensus 169 T~l~-~~k~Gd~VNiE 183 (229)
.-|. .+++||.|-|+
T Consensus 94 ~~l~~~~~~Gd~v~i~ 109 (243)
T cd06216 94 NWLVNHLAPGDVVELS 109 (243)
T ss_pred hHHHhcCCCCCEEEEE
Confidence 2333 58899998887
No 79
>PRK08345 cytochrome-c3 hydrogenase subunit gamma; Provisional
Probab=30.46 E-value=2.1e+02 Score=25.57 Aligned_cols=79 Identities=11% Similarity=0.196 Sum_probs=44.6
Q ss_pred EEEEEEEEEEcCC-eEEEEEEeccchhccc--eeeeccEEEc-----eeeeeeeeEe--CcEEEEEeehhhHhhccCCCC
Q psy4641 105 DVANVRAIQALEK-NYRMEIQMTNKSLMKY--VFYKGYVAID-----GISLTIGKVF--EDYFYVHLIPETMEKTTMSKK 174 (229)
Q Consensus 105 ~~~~i~~i~~~~~-~~~~~i~~p~~~~~~~--iv~KGsIavd-----GvSLTV~~v~--~~~f~v~lIP~Tl~~T~l~~~ 174 (229)
..++|.++++... ...++++++.+...+. .-+..+|.|. ....+++... ++.+++.+-+.-.-..-|..+
T Consensus 6 ~~~~V~~~~~~t~d~~~~~l~~~~~~~~~~~~~~pGQ~v~l~~~~~~~~pySias~p~~~~~l~l~Ik~~G~~S~~L~~l 85 (289)
T PRK08345 6 HDAKILEVYDLTEREKLFLLRFEDPELAESFTFKPGQFVQVTIPGVGEVPISICSSPTRKGFFELCIRRAGRVTTVIHRL 85 (289)
T ss_pred eeEEEEEEEecCCCCCEEEEEEeCccccCCCCcCCCCEEEEEcCCCCceeeEecCCCCCCCEEEEEEEeCChHHHHHHhC
Confidence 4578888886654 3445555431211111 2334444441 2466676653 346777776544444456779
Q ss_pred CCCCEeEEc
Q psy4641 175 AVGDALNIE 183 (229)
Q Consensus 175 k~Gd~VNiE 183 (229)
++||.|.|+
T Consensus 86 ~~Gd~v~v~ 94 (289)
T PRK08345 86 KEGDIVGVR 94 (289)
T ss_pred CCCCEEEEe
Confidence 999999987
No 80
>PF12195 End_beta_barrel: Beta barrel domain of bacteriophage endosialidase; InterPro: IPR024427 This entry represents the beta barrel domain of endosialidases which is nested in a beta propeller domain. This beta barrel domain is approximately 80 amino acids in length and represents one of the two sialic acid binding sites of the enzyme [].; PDB: 1V0E_B 1V0F_E 3JU4_A 3GVL_A 3GVK_B 3GVJ_A.
Probab=30.46 E-value=87 Score=23.77 Aligned_cols=47 Identities=17% Similarity=0.294 Sum_probs=26.4
Q ss_pred EEEcCCeEEEEEEcCCCCCCCCccCCcEEE-----ccee--eeeeEE-eCCEEEEEEe
Q psy4641 15 VFSYNDFKSMTIWFPSDLLDGISISCSVAI-----NGVC--LSVTKI-EGNYISFDVI 64 (229)
Q Consensus 15 i~~~~~~~~l~i~~p~~~~~~l~~g~SIAV-----nGvc--LTV~~i-~~~~f~v~li 64 (229)
|.+..+....+|.++. ..|..||+|-. -||| +||+.+ +.+.|+|...
T Consensus 10 iT~a~n~~~ati~l~~---HGl~vGD~VnFsnsa~tGvSG~mTVatVid~ntFTVt~~ 64 (83)
T PF12195_consen 10 ITKAANQTTATITLTD---HGLFVGDFVNFSNSAVTGVSGNMTVATVIDANTFTVTTS 64 (83)
T ss_dssp EEE-TTSSEEEEE-TT-------TT-EEEEES-SSTT--EEEEEEEEEETTEEEEE-S
T ss_pred EEEecCceEEEEEEcc---CceeecceEEEeccccccccccEEEEEEecCCcEEEecC
Confidence 3445566677888873 48999999965 4676 678775 6789998763
No 81
>cd06211 phenol_2-monooxygenase_like Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H dependent conversion of phenol and O2 to catechol and H2O. This group is related to the NAD binding ferredoxin reductases.
Probab=30.38 E-value=1.9e+02 Score=24.60 Aligned_cols=77 Identities=18% Similarity=0.263 Sum_probs=45.8
Q ss_pred EEEEEEEEEc-CCeEEEEEEeccchhccceeeeccEEEc--ee----eeeeeeEe--CcEEEEEe--ehhhHhhccC-CC
Q psy4641 106 VANVRAIQAL-EKNYRMEIQMTNKSLMKYVFYKGYVAID--GI----SLTIGKVF--EDYFYVHL--IPETMEKTTM-SK 173 (229)
Q Consensus 106 ~~~i~~i~~~-~~~~~~~i~~p~~~~~~~iv~KGsIavd--Gv----SLTV~~v~--~~~f~v~l--IP~Tl~~T~l-~~ 173 (229)
.++|.+++.. ++...++++.| .......-+..++.|. |. .+||++.. ++.+++.+ .|.=.-..-| ..
T Consensus 8 ~~~v~~~~~~t~~~~~~~l~~~-~~~~~~~~pGQ~v~l~~~~~~~~r~ySi~s~~~~~~~l~l~i~~~~~G~~s~~l~~~ 86 (238)
T cd06211 8 EGTVVEIEDLTPTIKGVRLKLD-EPEEIEFQAGQYVNLQAPGYEGTRAFSIASSPSDAGEIELHIRLVPGGIATTYVHKQ 86 (238)
T ss_pred eEEEEEEEecCCCEEEEEEEcC-CCCcCccCCCCeEEEEcCCCCCccccccCCCCCCCCEEEEEEEECCCCcchhhHhhc
Confidence 5788888765 45577888887 4432233455555553 33 36787664 34555554 4332222224 36
Q ss_pred CCCCCEeEEc
Q psy4641 174 KAVGDALNIE 183 (229)
Q Consensus 174 ~k~Gd~VNiE 183 (229)
+++||.|+|.
T Consensus 87 l~~G~~v~i~ 96 (238)
T cd06211 87 LKEGDELEIS 96 (238)
T ss_pred CCCCCEEEEE
Confidence 8999999997
No 82
>cd06191 FNR_iron_sulfur_binding Iron-sulfur binding Ferredoxin Reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with a C-terminal iron-sulfur binding cluster domain. FNR was intially identified as a chloroplast reductase activity catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methnae assimilation in a variety of organisms. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which vary in
Probab=30.35 E-value=1.4e+02 Score=25.17 Aligned_cols=73 Identities=10% Similarity=0.119 Sum_probs=42.1
Q ss_pred EEEEEE-cCCeEEEEEEeccchhccceeeeccEEE----cee----eeeeeeEe-CcEEEEEee--hhhHhhcc-CC-CC
Q psy4641 109 VRAIQA-LEKNYRMEIQMTNKSLMKYVFYKGYVAI----DGI----SLTIGKVF-EDYFYVHLI--PETMEKTT-MS-KK 174 (229)
Q Consensus 109 i~~i~~-~~~~~~~~i~~p~~~~~~~iv~KGsIav----dGv----SLTV~~v~-~~~f~v~lI--P~Tl~~T~-l~-~~ 174 (229)
|.++++ .++...++++.|...+..| .+..+|.| +|- ++||++.. ++.+++.+- |.=. -|+ |. .+
T Consensus 3 v~~i~~~t~~~~~~~l~~~~~~~~~~-~pGQ~v~l~~~~~~~~~~r~ySi~s~~~~~~l~~~v~~~~~G~-~s~~l~~~~ 80 (231)
T cd06191 3 VAEVRSETPDAVTIVFAVPGPLQYGF-RPGQHVTLKLDFDGEELRRCYSLCSSPAPDEISITVKRVPGGR-VSNYLREHI 80 (231)
T ss_pred EEEEEecCCCcEEEEEeCCCCCCCCC-CCCCeEEEEEecCCeEEeeeeeccCCCCCCeEEEEEEECCCCc-cchHHHhcC
Confidence 455554 4556678888772222232 45566655 342 47887764 455555554 3221 233 33 68
Q ss_pred CCCCEeEEc
Q psy4641 175 AVGDALNIE 183 (229)
Q Consensus 175 k~Gd~VNiE 183 (229)
++||.|+|.
T Consensus 81 ~~Gd~v~i~ 89 (231)
T cd06191 81 QPGMTVEVM 89 (231)
T ss_pred CCCCEEEEe
Confidence 999999987
No 83
>PLN03116 ferredoxin--NADP+ reductase; Provisional
Probab=29.49 E-value=2.6e+02 Score=25.26 Aligned_cols=76 Identities=12% Similarity=0.176 Sum_probs=44.9
Q ss_pred EEEEEEEEEEc------CCeEEEEEEeccchhccceeeeccEEE--c-------e-----eeeeeeeEe-----Cc-EE-
Q psy4641 105 DVANVRAIQAL------EKNYRMEIQMTNKSLMKYVFYKGYVAI--D-------G-----ISLTIGKVF-----ED-YF- 157 (229)
Q Consensus 105 ~~~~i~~i~~~------~~~~~~~i~~p~~~~~~~iv~KGsIav--d-------G-----vSLTV~~v~-----~~-~f- 157 (229)
-.++|.+++.. .+.+.++++.| ..+ +| .+..++.| + | =|.+|++.- ++ .+
T Consensus 25 ~~~~V~~i~~~~~p~~~~~v~~l~l~~~-~~~-~f-~aGQy~~l~~~~~~~~~~g~~~~~R~YSIaS~p~~~~~~~~~le 101 (307)
T PLN03116 25 YTATIVSVERIVGPKAPGETCHIVIDHG-GNV-PY-WEGQSYGVIPPGTNPKKPGAPHNVRLYSIASTRYGDDFDGKTAS 101 (307)
T ss_pred EEEEEEeeEEcccCCCCCceEEEEEecC-CCC-ce-ecCceEeeeCCCCChhhcCCcCCceeEEecCCCCCcCCCCCEEE
Confidence 36788888875 47788888877 543 33 45555555 2 2 346666542 11 33
Q ss_pred -EEEee-------------hhhHhhccCCCCCCCCEeEEc
Q psy4641 158 -YVHLI-------------PETMEKTTMSKKAVGDALNIE 183 (229)
Q Consensus 158 -~v~lI-------------P~Tl~~T~l~~~k~Gd~VNiE 183 (229)
.|... |.=+-..-|..+++||.|+|.
T Consensus 102 l~Vr~~~~~~~~~~~~~~~~~G~~S~~L~~l~~Gd~v~v~ 141 (307)
T PLN03116 102 LCVRRAVYYDPETGKEDPAKKGVCSNFLCDAKPGDKVQIT 141 (307)
T ss_pred EEEEEEEEecCCcCCCCCccCcchhhhHhhCCCCCEEEEE
Confidence 34333 222223345669999999987
No 84
>PRK08345 cytochrome-c3 hydrogenase subunit gamma; Provisional
Probab=29.15 E-value=3e+02 Score=24.55 Aligned_cols=82 Identities=13% Similarity=0.166 Sum_probs=48.2
Q ss_pred eceEEEEEEEEcC-CeEEEEEEcCC-CCCC--CCccCCcEEEc--c---eeeeeeEEe--CCEEEEEEeHhHHhhccCCC
Q psy4641 7 QGIGKVSAVFSYN-DFKSMTIWFPS-DLLD--GISISCSVAIN--G---VCLSVTKIE--GNYISFDVINETLKITNLKA 75 (229)
Q Consensus 7 d~~G~I~~i~~~~-~~~~l~i~~p~-~~~~--~l~~g~SIAVn--G---vcLTV~~i~--~~~f~v~lipeTL~~TtL~~ 75 (229)
-..++|.++++.. +...+.++.++ ...+ ...+|..+.+. | ..+|+.+.. ++.+.+.+-..-.-...|.+
T Consensus 5 ~~~~~V~~~~~~t~d~~~~~l~~~~~~~~~~~~~~pGQ~v~l~~~~~~~~pySias~p~~~~~l~l~Ik~~G~~S~~L~~ 84 (289)
T PRK08345 5 LHDAKILEVYDLTEREKLFLLRFEDPELAESFTFKPGQFVQVTIPGVGEVPISICSSPTRKGFFELCIRRAGRVTTVIHR 84 (289)
T ss_pred ceeEEEEEEEecCCCCCEEEEEEeCccccCCCCcCCCCEEEEEcCCCCceeeEecCCCCCCCEEEEEEEeCChHHHHHHh
Confidence 3457888888764 33455555422 1111 36788888763 2 356665543 34566666433222335567
Q ss_pred CCCCCeeeeccCC
Q psy4641 76 VAVDQFVNLERSA 88 (229)
Q Consensus 76 lk~Gd~VNLEral 88 (229)
+++||.|.++-+.
T Consensus 85 l~~Gd~v~v~gP~ 97 (289)
T PRK08345 85 LKEGDIVGVRGPY 97 (289)
T ss_pred CCCCCEEEEeCCC
Confidence 8999999998764
No 85
>cd06217 FNR_iron_sulfur_binding_3 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap between the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form
Probab=29.13 E-value=2e+02 Score=24.20 Aligned_cols=77 Identities=17% Similarity=0.188 Sum_probs=42.7
Q ss_pred EEEEEEEEEc-CCeEEEEEEeccchhccceeeeccEEE-----ce----eeeeeeeEe--CcEEEEEe--ehhhHhhccC
Q psy4641 106 VANVRAIQAL-EKNYRMEIQMTNKSLMKYVFYKGYVAI-----DG----ISLTIGKVF--EDYFYVHL--IPETMEKTTM 171 (229)
Q Consensus 106 ~~~i~~i~~~-~~~~~~~i~~p~~~~~~~iv~KGsIav-----dG----vSLTV~~v~--~~~f~v~l--IP~Tl~~T~l 171 (229)
.++|.++++. .+-+.++++.| .......-+..+|.| +| -.+||++.. ++.+++.+ .|.-.-.+-|
T Consensus 3 ~~~v~~~~~~~~~~~~~~l~~~-~~~~~~~~pGQ~v~l~~~~~~~~~~~r~ySi~s~~~~~~~l~l~v~~~~~G~~s~~l 81 (235)
T cd06217 3 VLRVTEIIQETPTVKTFRLAVP-DGVPPPFLAGQHVDLRLTAIDGYTAQRSYSIASSPTQRGRVELTVKRVPGGEVSPYL 81 (235)
T ss_pred eEEEEEEEecCCCeEEEEEECC-CCCcCCcCCcCeEEEEEecCCCceeeeeecccCCCCCCCeEEEEEEEcCCCcchHHH
Confidence 3677777754 45677889888 421111233444444 33 457888763 23455444 4432111224
Q ss_pred C-CCCCCCEeEEc
Q psy4641 172 S-KKAVGDALNIE 183 (229)
Q Consensus 172 ~-~~k~Gd~VNiE 183 (229)
. .+++||.|+|+
T Consensus 82 ~~~l~~Gd~v~i~ 94 (235)
T cd06217 82 HDEVKVGDLLEVR 94 (235)
T ss_pred HhcCCCCCEEEEe
Confidence 3 47899999887
No 86
>cd06189 flavin_oxioreductase NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN, or riboflavin via NAD(P)H. Flavin is used as a substrate, rather than a tightly bound prosthetic group as in flavoenzymes; weaker binding is due to the absence of a binding site for the AMP moeity of FAD.
Probab=28.96 E-value=2e+02 Score=24.19 Aligned_cols=76 Identities=11% Similarity=0.098 Sum_probs=46.6
Q ss_pred EEEEEEE-cCCeEEEEEEcCCCCCCCCccCCcEEEc--c---eeeeeeEEe--CCEEEEEEeHh---HHhhccCCCCCCC
Q psy4641 11 KVSAVFS-YNDFKSMTIWFPSDLLDGISISCSVAIN--G---VCLSVTKIE--GNYISFDVINE---TLKITNLKAVAVD 79 (229)
Q Consensus 11 ~I~~i~~-~~~~~~l~i~~p~~~~~~l~~g~SIAVn--G---vcLTV~~i~--~~~f~v~lipe---TL~~TtL~~lk~G 79 (229)
+|.++++ .++.++++++.|.. ....+|..|.+. + -.+|+.+.. ++.+.+.+-.. +..+--+..+++|
T Consensus 2 ~v~~~~~~t~~~~~l~l~~~~~--~~~~pGQ~v~l~~~~~~~r~ySi~s~~~~~~~l~~~vk~~~~G~~s~~l~~~l~~G 79 (224)
T cd06189 2 KVESIEPLNDDVYRVRLKPPAP--LDFLAGQYLDLLLDDGDKRPFSIASAPHEDGEIELHIRAVPGGSFSDYVFEELKEN 79 (224)
T ss_pred EEEEEEeCCCceEEEEEecCCC--cccCCCCEEEEEcCCCCceeeecccCCCCCCeEEEEEEecCCCccHHHHHHhccCC
Confidence 5666654 45678888887652 346788887765 2 356776654 35666665432 2221122458999
Q ss_pred CeeeeccCC
Q psy4641 80 QFVNLERSA 88 (229)
Q Consensus 80 d~VNLEral 88 (229)
|.|.+..+.
T Consensus 80 ~~v~i~gP~ 88 (224)
T cd06189 80 GLVRIEGPL 88 (224)
T ss_pred CEEEEecCC
Confidence 999988753
No 87
>PRK09783 copper/silver efflux system membrane fusion protein CusB; Provisional
Probab=28.64 E-value=1.9e+02 Score=27.42 Aligned_cols=93 Identities=12% Similarity=0.172 Sum_probs=53.8
Q ss_pred EEEEEcCCC---CCCCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCceecceee
Q psy4641 23 SMTIWFPSD---LLDGISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTEVGGHFL 99 (229)
Q Consensus 23 ~l~i~~p~~---~~~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdrlgGH~V 99 (229)
++.|..|-. ....+.+|..|.-.-.-+|+.+.+.=++.+++ ||.. +..+++|+.|.+..+... |.-+
T Consensus 209 ~~~I~AP~dGvV~~~~v~~G~~V~~g~~L~~I~d~~~l~v~~~V-pe~~----~~~i~~G~~v~v~~~~~~-----~~~~ 278 (409)
T PRK09783 209 RFTLKAPIDGVITAFDLRAGMNIAKDNVVAKIQGMDPVWVTAAI-PESI----AWLVKDASQFTLTVPARP-----DKTF 278 (409)
T ss_pred cEEEECCCCeEEEEEECCCCCEECCCCeEEEEEcCCeEEEEEEe-CHHH----HHhccCCCEEEEEEecCC-----CCEE
Confidence 456666631 12467778887765556666666555666665 6654 446789999887654322 3445
Q ss_pred EEEEeEEEEEEEEEEcCCeEEEEEEecc
Q psy4641 100 SGHIIDVANVRAIQALEKNYRMEIQMTN 127 (229)
Q Consensus 100 ~GHVd~~~~i~~i~~~~~~~~~~i~~p~ 127 (229)
+|-|+.+... +.....+..+++.+||
T Consensus 279 ~g~v~~i~p~--vd~~trt~~vrv~l~N 304 (409)
T PRK09783 279 TIRKWTLLPS--VDAATRTLQLRLEVDN 304 (409)
T ss_pred EEEEEEEccc--cCCCCcEEEEEEEEeC
Confidence 6665544322 2233445566666654
No 88
>cd06219 DHOD_e_trans_like1 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as NAD binding. NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group, as in flavoenzymes, or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD,
Probab=28.60 E-value=2.5e+02 Score=24.33 Aligned_cols=76 Identities=12% Similarity=0.048 Sum_probs=46.3
Q ss_pred EEEEEE-cCCeEEEEEEcCCCCCCCCccCCcEEEc----c--eeeeeeEEe--CCEEEEEEeHhHHhhccCCCCCCCCee
Q psy4641 12 VSAVFS-YNDFKSMTIWFPSDLLDGISISCSVAIN----G--VCLSVTKIE--GNYISFDVINETLKITNLKAVAVDQFV 82 (229)
Q Consensus 12 I~~i~~-~~~~~~l~i~~p~~~~~~l~~g~SIAVn----G--vcLTV~~i~--~~~f~v~lipeTL~~TtL~~lk~Gd~V 82 (229)
|.++++ .++.+.++++.|... ....+|..+.+- | ..+|+.+.. ++.+++.+-+.-...-.|.++++|+.|
T Consensus 3 v~~~~~~t~d~~~~~l~~~~~~-~~~~pGQf~~l~~~~~~~~~pySi~s~~~~~~~~~~~vk~~G~~t~~l~~l~~G~~v 81 (248)
T cd06219 3 ILEKEELAPNVKLFEIEAPLIA-KKAKPGQFVIVRADEKGERIPLTIADWDPEKGTITIVVQVVGKSTRELATLEEGDKI 81 (248)
T ss_pred EEEEEEeCCCeEEEEEEChhhh-ccCCCCcEEEEEcCCCCCccceEeEEEcCCCCEEEEEEEeCCchHHHHHhcCCCCEe
Confidence 444443 456788888876432 345677776652 2 467887764 356666663322222344678899998
Q ss_pred -eeccCC
Q psy4641 83 -NLERSA 88 (229)
Q Consensus 83 -NLEral 88 (229)
.++.|.
T Consensus 82 ~~i~gP~ 88 (248)
T cd06219 82 HDVVGPL 88 (248)
T ss_pred eeeecCC
Confidence 688774
No 89
>PRK10926 ferredoxin-NADP reductase; Provisional
Probab=28.55 E-value=2.1e+02 Score=24.86 Aligned_cols=74 Identities=11% Similarity=0.173 Sum_probs=42.4
Q ss_pred EEEEEEEEEc-CCeEEEEEEeccchhccceeeeccEEE----cee----eeeeeeEe-CcEEE--EEeehhhHhhccCCC
Q psy4641 106 VANVRAIQAL-EKNYRMEIQMTNKSLMKYVFYKGYVAI----DGI----SLTIGKVF-EDYFY--VHLIPETMEKTTMSK 173 (229)
Q Consensus 106 ~~~i~~i~~~-~~~~~~~i~~p~~~~~~~iv~KGsIav----dGv----SLTV~~v~-~~~f~--v~lIP~Tl~~T~l~~ 173 (229)
.++|.++++. ++.+.++++.| . .+ .-+..++.| +|- +.+|++.. ++.++ +-..|.=.-..-|..
T Consensus 6 ~~~V~~i~~~t~~v~~l~l~~~-~--~~-~~pGQfv~l~~~~~g~~~~R~ySias~p~~~~l~~~ik~~~~G~~S~~L~~ 81 (248)
T PRK10926 6 TGKVTKVQNWTDALFSLTVHAP-V--DP-FTAGQFTKLGLEIDGERVQRAYSYVNAPDNPDLEFYLVTVPEGKLSPRLAA 81 (248)
T ss_pred EEEEEEEEEcCCCeEEEEEeCC-C--CC-CCCCCEEEEEEecCCcEEEeeecccCCCCCCeEEEEEEEeCCCCcChHHHh
Confidence 4678887755 56677888876 2 12 123334322 342 55676653 33443 444443333334667
Q ss_pred CCCCCEeEEc
Q psy4641 174 KAVGDALNIE 183 (229)
Q Consensus 174 ~k~Gd~VNiE 183 (229)
+++||.|.|.
T Consensus 82 l~~Gd~v~i~ 91 (248)
T PRK10926 82 LKPGDEVQVV 91 (248)
T ss_pred CCCCCEEEEe
Confidence 9999999886
No 90
>PRK06222 ferredoxin-NADP(+) reductase subunit alpha; Reviewed
Probab=28.51 E-value=2.3e+02 Score=25.24 Aligned_cols=75 Identities=16% Similarity=0.220 Sum_probs=44.0
Q ss_pred EEEEEEEE-cCCeEEEEEEeccchhccceeeeccEEE----ce--eeeeeeeEe--CcEEEEEeehhhHhhccCCCCCCC
Q psy4641 107 ANVRAIQA-LEKNYRMEIQMTNKSLMKYVFYKGYVAI----DG--ISLTIGKVF--EDYFYVHLIPETMEKTTMSKKAVG 177 (229)
Q Consensus 107 ~~i~~i~~-~~~~~~~~i~~p~~~~~~~iv~KGsIav----dG--vSLTV~~v~--~~~f~v~lIP~Tl~~T~l~~~k~G 177 (229)
++|.++++ .++.+.++++.| ..... ..+..++.| +| .+++|++.. ++.+++.+-..=.-...|..+++|
T Consensus 2 ~~I~~~~~~t~~~~~l~l~~~-~~~~~-~~pGQfv~l~~~~~~~~rpySias~~~~~~~i~l~vk~~G~~T~~L~~l~~G 79 (281)
T PRK06222 2 YKILEKEELAPNVFLMEIEAP-RVAKK-AKPGQFVIVRIDEKGERIPLTIADYDREKGTITIVFQAVGKSTRKLAELKEG 79 (281)
T ss_pred cEEEEEEEecCCEEEEEEeCc-hhhcc-CCCCeEEEEEeCCCCCceeeEeeEEcCCCCEEEEEEEeCCcHHHHHhcCCCC
Confidence 45666664 445677888877 32111 123333322 12 578888874 456777766543333455688999
Q ss_pred CEe-EEc
Q psy4641 178 DAL-NIE 183 (229)
Q Consensus 178 d~V-NiE 183 (229)
|.| .|.
T Consensus 80 d~v~~i~ 86 (281)
T PRK06222 80 DSILDVV 86 (281)
T ss_pred CEEeeEE
Confidence 999 565
No 91
>TIGR02160 PA_CoA_Oxy5 phenylacetate-CoA oxygenase/reductase, PaaK subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=28.30 E-value=2.5e+02 Score=25.57 Aligned_cols=77 Identities=16% Similarity=0.146 Sum_probs=48.0
Q ss_pred EEEEEEEc-CCeEEEEEEcCCCCC--CCCccCCcEEE----cce----eeeeeEEe-CCEEEEEE--eHhHHhhccC-CC
Q psy4641 11 KVSAVFSY-NDFKSMTIWFPSDLL--DGISISCSVAI----NGV----CLSVTKIE-GNYISFDV--INETLKITNL-KA 75 (229)
Q Consensus 11 ~I~~i~~~-~~~~~l~i~~p~~~~--~~l~~g~SIAV----nGv----cLTV~~i~-~~~f~v~l--ipeTL~~TtL-~~ 75 (229)
+|.++++. .+.++++++.|.... -...+|..|.+ +|. ++|+.+.. ++.+.+.+ .+.-.-.+-| ..
T Consensus 5 ~V~~i~~~t~~~~~l~l~~~~~~~~~~~~~pGQ~v~l~~~~~g~~~~R~ySi~s~p~~~~l~i~vk~~~~G~~S~~l~~~ 84 (352)
T TIGR02160 5 TVAEVERLTADAVAISFEIPDELAEDYRFAPGQHLTLRREVDGEELRRSYSICSAPAPGEIRVAVKKIPGGLFSTWANDE 84 (352)
T ss_pred EEEEEEecCCCeEEEEEeCCccccccCCCCCCCeEEEEEecCCcEeeeeccccCCCCCCcEEEEEEEeCCCcchHHHHhc
Confidence 56666654 567889998775322 14678888866 353 56776653 34555554 3332223344 47
Q ss_pred CCCCCeeeeccC
Q psy4641 76 VAVDQFVNLERS 87 (229)
Q Consensus 76 lk~Gd~VNLEra 87 (229)
+++||.|.+-.+
T Consensus 85 l~~Gd~v~v~gP 96 (352)
T TIGR02160 85 IRPGDTLEVMAP 96 (352)
T ss_pred CCCCCEEEEeCC
Confidence 899999998755
No 92
>cd06212 monooxygenase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. These flavoprotein monooxygenases use molecular oxygen as a substrate and require reduced FAD. One atom of oxygen is incorportated into the aromatic compond, while the other is used to form a molecule of water. In contrast dioxygenases add both atoms of oxygen to the substrate.
Probab=28.01 E-value=1.8e+02 Score=24.60 Aligned_cols=77 Identities=23% Similarity=0.371 Sum_probs=43.2
Q ss_pred EEEEEEEEEc-CCeEEEEEEeccchhccceeeeccEEE--ce----eeeeeeeEe--CcEEEEEe--ehhhHhhccCC-C
Q psy4641 106 VANVRAIQAL-EKNYRMEIQMTNKSLMKYVFYKGYVAI--DG----ISLTIGKVF--EDYFYVHL--IPETMEKTTMS-K 173 (229)
Q Consensus 106 ~~~i~~i~~~-~~~~~~~i~~p~~~~~~~iv~KGsIav--dG----vSLTV~~v~--~~~f~v~l--IP~Tl~~T~l~-~ 173 (229)
.|+|.+++.. ++...++++.|.....+ ..+..+|.| +| -++||++.. ++.+++.+ .|.-.-.+-|. .
T Consensus 2 ~~~v~~~~~~~~~~~~~~l~~~~~~~~~-~~pGQ~v~l~~~~~~~~r~ySi~s~~~~~~~l~l~vk~~~~G~~s~~l~~~ 80 (232)
T cd06212 2 VGTVVAVEALTHDIRRLRLRLEEPEPIK-FFAGQYVDITVPGTEETRSFSMANTPADPGRLEFIIKKYPGGLFSSFLDDG 80 (232)
T ss_pred ceEEEEEeecCCCeEEEEEEcCCCCcCC-cCCCCeEEEEcCCCCcccccccCCCCCCCCEEEEEEEECCCCchhhHHhhc
Confidence 3677776654 45677888876211122 244445444 23 257887764 24555544 33332233354 4
Q ss_pred CCCCCEeEEc
Q psy4641 174 KAVGDALNIE 183 (229)
Q Consensus 174 ~k~Gd~VNiE 183 (229)
+++||.|.|+
T Consensus 81 l~~G~~v~i~ 90 (232)
T cd06212 81 LAVGDPVTVT 90 (232)
T ss_pred CCCCCEEEEE
Confidence 8999999987
No 93
>smart00137 MAM Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others). Likely to have an adhesive function. Mutations in the meprin MAM domain affect noncovalent associations within meprin oligomers. In receptor tyrosine phosphatase mu-like molecules the MAM domain is important for homophilic cell-cell interactions.
Probab=27.82 E-value=78 Score=25.66 Aligned_cols=14 Identities=43% Similarity=0.657 Sum_probs=12.2
Q ss_pred eeeccEEEceeeee
Q psy4641 135 FYKGYVAIDGISLT 148 (229)
Q Consensus 135 v~KGsIavdGvSLT 148 (229)
-..|.||||.|+|+
T Consensus 144 ~~~g~IAiDDI~i~ 157 (161)
T smart00137 144 GHSGYIALDDILLS 157 (161)
T ss_pred CccceEEEeEEEee
Confidence 36799999999997
No 94
>PF00629 MAM: MAM domain; InterPro: IPR000998 MAM is an acronym derived from meprin, A-5 protein, and receptor protein-tyrosine phosphatase mu. The MAM domain consists of approximately 170 amino acids. It occurs in several cell surface proteins, including Meprins, and is thought to function as an interaction or adhesion domain []. The domain has been shown to play a role in homodimerization of protein-tyrosine phosphatase mu [] and appears to help determine the specificity of these interactions. It has been reported that certain cysteine mutations in the MAM domain of murine meprin A result in the formation of monomeric meprin, which has altered stability and activity []. This indicates that these domain-domain interactions are critical for structure and function of the enzyme. It has also been shown that the MAM domain of meprins is necessary for correct folding and transport through the secretory pathway []. ; GO: 0016020 membrane; PDB: 2C9A_A 2V5Y_A.
Probab=27.19 E-value=93 Score=23.91 Aligned_cols=28 Identities=29% Similarity=0.558 Sum_probs=15.4
Q ss_pred CCeEEEEEEeccchhccceeeeccEEEceeeee
Q psy4641 116 EKNYRMEIQMTNKSLMKYVFYKGYVAIDGISLT 148 (229)
Q Consensus 116 ~~~~~~~i~~p~~~~~~~iv~KGsIavdGvSLT 148 (229)
...+++.|+.- .. --..|.||||.|+|+
T Consensus 127 ~~~~~i~f~~~-~~----~~~~~~iaiDdi~~~ 154 (160)
T PF00629_consen 127 SSPFQIIFEAI-RG----SSYRGDIAIDDISLS 154 (160)
T ss_dssp TS-EEEEEEEE-E------SS--EEEEEEEEEE
T ss_pred cccceEEEEEE-Ec----CCCceEEEEEEEEEe
Confidence 44555555543 11 123599999999987
No 95
>PRK13806 rpsA 30S ribosomal protein S1; Provisional
Probab=26.68 E-value=6.1e+02 Score=24.80 Aligned_cols=131 Identities=15% Similarity=0.237 Sum_probs=70.0
Q ss_pred CCCccCCcEEEcceeeeeeEEeCCEEEEEEeHhH---HhhccCCCCCCCCeeeeccCCCCCceecceeeEEEEeEEEEEE
Q psy4641 34 DGISISCSVAINGVCLSVTKIEGNYISFDVINET---LKITNLKAVAVDQFVNLERSAKMNTEVGGHFLSGHIIDVANVR 110 (229)
Q Consensus 34 ~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeT---L~~TtL~~lk~Gd~VNLEral~~gdrlgGH~V~GHVd~~~~i~ 110 (229)
+.+..|+-+.- +|+.+.+..+.|++-|.. +..+.+...+. .-+....++.|+.+- ++|.
T Consensus 288 ~~~~~G~~v~G-----~V~~v~~~G~fV~l~~gv~Glvh~sels~~~~--~~~~~~~~~~Gd~v~-----------vkVl 349 (491)
T PRK13806 288 DRLKAGDKVTG-----KVVRLAPFGAFVEILPGIEGLVHVSEMSWTRR--VNKPEDVVAPGDAVA-----------VKIK 349 (491)
T ss_pred ccCCCCCEEEE-----EEEEEeCceEEEEeCCCcEEEEEHHHcCcccc--cCCHHHcCCCCCEEE-----------EEEE
Confidence 45677776553 899998877777774421 11122221010 012223355555543 3566
Q ss_pred EEEEcCCeEEEEEEecc-chhccc--eeeeccEEEceeeeeeeeEeCcEEEEEeeh-------hhHhh-----ccCCCCC
Q psy4641 111 AIQALEKNYRMEIQMTN-KSLMKY--VFYKGYVAIDGISLTIGKVFEDYFYVHLIP-------ETMEK-----TTMSKKA 175 (229)
Q Consensus 111 ~i~~~~~~~~~~i~~p~-~~~~~~--iv~KGsIavdGvSLTV~~v~~~~f~v~lIP-------~Tl~~-----T~l~~~k 175 (229)
++..+.+...+.+.-.. ..|..+ =.+.|.+ +.| ||.++.+....|.+-| ..... .....++
T Consensus 350 ~iD~e~~ri~Ls~K~~~~~p~~~~~~~~~vG~~-v~G---~V~~i~~~G~FV~l~~gv~Gli~~se~s~~~~~~~~~~~~ 425 (491)
T PRK13806 350 DIDPAKRRISLSLRDAEGDPWADVAERFAPGTT-VTG---TVEKRAQFGLFVNLAPGVTGLLPASVISRAGKPATYEKLK 425 (491)
T ss_pred EEEccCCEEEEEEeecccChhHHhhhhCCCCCE-EEE---EEEEEecCceEEEcCCCcEEEEEHHHcCcccccchhhcCC
Confidence 77666555555444210 123222 2335653 455 8999988777666643 22211 2245679
Q ss_pred CCCEeE---EcccC
Q psy4641 176 VGDALN---IEVDS 186 (229)
Q Consensus 176 ~Gd~VN---iE~D~ 186 (229)
+||.|. +++|.
T Consensus 426 ~Gd~v~~~V~~id~ 439 (491)
T PRK13806 426 PGDSVTLVVEEIDT 439 (491)
T ss_pred CCCEEEEEEEEEeC
Confidence 999998 57774
No 96
>PF02470 MCE: mce related protein; InterPro: IPR003399 This domain is found in all 24 mce genes associated with the four mammalian cell entry (mce) operons of Mycobacterium tuberculosis and their homologs in other Actinomycetales [, ]. The archetype (mce1A, Rv0169), was isolated as being necessary for colonisation of, and survival within, the macrophage []. The domain is also found in: Chloroplast Ycf22 and related cyanobacterial homologs, the majority of which have an N-terminal transmembrane domain and are putative ABC transporters. Proteobacterial homologs, which include YrbD, YebT, VpsC and Ttg2C, the latter being annotated as a toluene tolerance proteins, belong to the periplasmic substrate-binding ABC transporter superfamily.
Probab=26.44 E-value=1.4e+02 Score=21.31 Aligned_cols=52 Identities=15% Similarity=0.170 Sum_probs=34.5
Q ss_pred ccCCCCCCCCeeeeccCCCCCceecceeeEEEEeEEEEEEEE--EEcCCeEEEEEEeccchhccceeeeccEE
Q psy4641 71 TNLKAVAVDQFVNLERSAKMNTEVGGHFLSGHIIDVANVRAI--QALEKNYRMEIQMTNKSLMKYVFYKGYVA 141 (229)
Q Consensus 71 TtL~~lk~Gd~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i--~~~~~~~~~~i~~p~~~~~~~iv~KGsIa 141 (229)
.+...+++|+.|-+- |. .+|+|.++ ...++...+.+++. +++ ...++++|-+
T Consensus 10 ~~~~GL~~gs~V~~~----------Gv-------~VG~V~~i~l~~~~~~v~v~~~i~-~~~-~~~i~~~s~a 63 (81)
T PF02470_consen 10 DDAGGLSVGSPVRYR----------GV-------EVGKVTSIELDPDGNRVRVTLRID-PDY-WHRIPDDSRA 63 (81)
T ss_pred CCcCCCCCcCEEEEC----------CE-------EEEEEEEEEEcCCCCEEEEEEEEc-CCc-ceecCCCcEE
Confidence 566788888888654 11 46677777 67777888888888 443 1256666544
No 97
>PF03479 DUF296: Domain of unknown function (DUF296); InterPro: IPR005175 This putative conserved domain is found in proteins that contain AT-hook motifs IPR000637 from INTERPRO, suggesting a DNA-binding function for the proteins as a whole, however, the function of this domain is unknown. Overexpression of a protein containing this domain, Q9S7C9 from SWISSPROT, in Arabidopsis thaliana causes late flowering and modified leaf development []. ; PDB: 2DT4_A 2P6Y_A 3HWU_A 3HTN_A 2NMU_A 2H6L_A 2HX0_A.
Probab=26.21 E-value=1.4e+02 Score=23.32 Aligned_cols=26 Identities=27% Similarity=0.441 Sum_probs=20.5
Q ss_pred CCCceecceeeEEEEeEEEEEEEEEE
Q psy4641 89 KMNTEVGGHFLSGHIIDVANVRAIQA 114 (229)
Q Consensus 89 ~~gdrlgGH~V~GHVd~~~~i~~i~~ 114 (229)
.-|.-+|||+..|=+..+++|.=..-
T Consensus 88 ~~g~v~gGHl~~g~v~~t~Ev~i~~~ 113 (120)
T PF03479_consen 88 PDGQVFGGHLLEGTVFATAEVVITEL 113 (120)
T ss_dssp TTSEEEEEEEEEEEEEEEEEEEEEEE
T ss_pred CCCeEEeeEeCCCEEeEEEEEEEEEe
Confidence 45678999999999988888864443
No 98
>cd06201 SiR_like2 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ gene) are of the cytochrome p450 (CyPor) family having FAD and FMN as prosthetic groups and utilizing NADPH. Cypor (including cyt -450 reductase, nitric oxide synthase, and methionine synthase reductase) are ferredoxin reductase (FNR)-like proteins with an additional N-terminal FMN domain and a connecting sub-domain inserted within the flavin binding portion of the FNR-like domain. The connecting domain orients the N-terminal FMN domain with the C-terminal FNR domain. NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via F
Probab=26.19 E-value=2.4e+02 Score=25.28 Aligned_cols=75 Identities=11% Similarity=0.041 Sum_probs=45.0
Q ss_pred EEEEEEEcC-----CeEEEEEEcCCC-----CCCCCccCCcEEE--cce----eeeeeEEe-CCEEEEEEe--HhHHhhc
Q psy4641 11 KVSAVFSYN-----DFKSMTIWFPSD-----LLDGISISCSVAI--NGV----CLSVTKIE-GNYISFDVI--NETLKIT 71 (229)
Q Consensus 11 ~I~~i~~~~-----~~~~l~i~~p~~-----~~~~l~~g~SIAV--nGv----cLTV~~i~-~~~f~v~li--peTL~~T 71 (229)
+|.+.++.. +.++++++.+.. -.....+|..+.| +|. .+|+.+.. ++.+.+.+- |.=.-.+
T Consensus 49 ~l~~~~~~~~~~~~~~~~l~l~~~~~~~~~~~~~~~~pGQ~v~v~~~g~~~~R~YSias~p~~g~l~l~Vk~~~~G~~S~ 128 (289)
T cd06201 49 ELVERKDYGAAVQAPTAILRFKPAKRKLSGKGLPSFEAGDLLGILPPGSDVPRFYSLASSSSDGFLEICVRKHPGGLCSG 128 (289)
T ss_pred EEEeeeecCCCCCCccEEEEEeCCCcccccCCCCCcCccCEEEEecCCCCCCceEecCCCCCCCeEEEEEEeCCCccchh
Confidence 456666533 788899987652 1235678998887 342 25666553 344444442 2322234
Q ss_pred cCCCCCCCCeeeec
Q psy4641 72 NLKAVAVDQFVNLE 85 (229)
Q Consensus 72 tL~~lk~Gd~VNLE 85 (229)
-|..+++||.|++-
T Consensus 129 ~L~~l~~Gd~v~v~ 142 (289)
T cd06201 129 YLHGLKPGDTIKAF 142 (289)
T ss_pred hHhhCCCcCEEEEE
Confidence 46679999999863
No 99
>cd01247 PH_GPBP Goodpasture antigen binding protein (GPBP) Pleckstrin homology (PH) domain. Goodpasture antigen binding protein (GPBP) Pleckstrin homology (PH) domain. The GPBP protein is a kinase that phosphorylates an N-terminal region of the alpha 3 chain of type IV collagen , which is commonly known as the goodpasture antigen. It has has an N-terminal PH domain and a C-terminal START domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cyt
Probab=25.51 E-value=38 Score=25.38 Aligned_cols=29 Identities=10% Similarity=0.114 Sum_probs=20.8
Q ss_pred eeeccEEEceeeeeeeeEeCcEEEEEeeh
Q psy4641 135 FYKGYVAIDGISLTIGKVFEDYFYVHLIP 163 (229)
Q Consensus 135 v~KGsIavdGvSLTV~~v~~~~f~v~lIP 163 (229)
-++|+|-+.++++...+-++..|.|...+
T Consensus 39 ~~~G~I~L~~~~i~~~~~~~~~F~i~~~~ 67 (91)
T cd01247 39 GCRGSIFLKKAIIAAHEFDENRFDISVNE 67 (91)
T ss_pred CCcEEEECcccEEEcCCCCCCEEEEEeCC
Confidence 46899999999877655455567776443
No 100
>cd06184 flavohem_like_fad_nad_binding FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The hemoglobin domain adopts a globin fold with an embedded heme molecule. Flavohemoglobins also have a C-terminal reductase domain with bindiing sites for FAD and NAD(P)H. This domain catalyzes the conversion of NO + O2 + NAD(P)H to NO3- + NAD(P)+. Instead of the oxygen transport function of hemoglobins, flavohemoglobins seem to act in NO dioxygenation and NO signalling.
Probab=25.28 E-value=4.1e+02 Score=22.59 Aligned_cols=79 Identities=15% Similarity=0.110 Sum_probs=47.6
Q ss_pred eEEEEEEEE-cCCeEEEEEEcCCCC-CCCCccCCcEEEc----c--ee----eeeeEEeC-CEEEEEEe--HhHHhhccC
Q psy4641 9 IGKVSAVFS-YNDFKSMTIWFPSDL-LDGISISCSVAIN----G--VC----LSVTKIEG-NYISFDVI--NETLKITNL 73 (229)
Q Consensus 9 ~G~I~~i~~-~~~~~~l~i~~p~~~-~~~l~~g~SIAVn----G--vc----LTV~~i~~-~~f~v~li--peTL~~TtL 73 (229)
..+|.++++ .++.++++++.+... .....+|..|.+- | .. +|+.+... +.+.|.+- +.-.-.+-|
T Consensus 8 ~~~v~~~~~~s~~~~~l~l~~~~~~~~~~~~pGQ~v~l~~~~~~~~~~~~R~ySi~s~~~~~~l~~~ik~~~~G~~s~~l 87 (247)
T cd06184 8 PFVVARKVAESEDITSFYLEPADGGPLPPFLPGQYLSVRVKLPGLGYRQIRQYSLSDAPNGDYYRISVKREPGGLVSNYL 87 (247)
T ss_pred EEEEEEEEEcCCCeEEEEEEeCCCCcCCCCCCCCEEEEEEecCCCCCceeEEeEeccCCCCCeEEEEEEEcCCCcchHHH
Confidence 346666665 457888888876431 1357888887654 3 11 67766643 35666542 212222335
Q ss_pred CC-CCCCCeeeeccC
Q psy4641 74 KA-VAVDQFVNLERS 87 (229)
Q Consensus 74 ~~-lk~Gd~VNLEra 87 (229)
.+ +++||.|.++.+
T Consensus 88 ~~~~~~Gd~v~i~gP 102 (247)
T cd06184 88 HDNVKVGDVLEVSAP 102 (247)
T ss_pred HhcCCCCCEEEEEcC
Confidence 55 899999999865
No 101
>cd06193 siderophore_interacting Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from transferrin and lactoferrin for bacterial uptake, contributing to pathogen virulence. Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hy
Probab=24.79 E-value=2.8e+02 Score=23.70 Aligned_cols=71 Identities=8% Similarity=0.072 Sum_probs=45.4
Q ss_pred cCCeEEEEEEcCCCC-CCCCccCCcEEEc----c-----------------------eeeeeeEEe--CCEEEEEE--eH
Q psy4641 18 YNDFKSMTIWFPSDL-LDGISISCSVAIN----G-----------------------VCLSVTKIE--GNYISFDV--IN 65 (229)
Q Consensus 18 ~~~~~~l~i~~p~~~-~~~l~~g~SIAVn----G-----------------------vcLTV~~i~--~~~f~v~l--ip 65 (229)
.++.++++++.|... .....+|..|.+- | =++|+.+.. .+.+.|++ .+
T Consensus 8 s~~~~~l~l~~~~~~~~~~~~pGQ~v~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~R~YSi~~~~~~~~~l~~~v~~~~ 87 (235)
T cd06193 8 TPHMRRITLGGPDLAGFPSDGPDQHVKLLFPDPGQAPPVLPVLGRRRWPPEEPRPVMRTYTVRRFDPEAGELDIDFVLHG 87 (235)
T ss_pred CCCEEEEEEecCccccCCCCCCCceEEEEecCCCCCCCCCccccccccCCcccCCcCcccceeEEcCCCCEEEEEEEeCC
Confidence 456788888876431 1234567776552 2 467888875 45677766 33
Q ss_pred h-HHhhccCCCCCCCCeeeeccCC
Q psy4641 66 E-TLKITNLKAVAVDQFVNLERSA 88 (229)
Q Consensus 66 e-TL~~TtL~~lk~Gd~VNLEral 88 (229)
+ -.-..-+.++++||.|.+..+.
T Consensus 88 ~~G~~s~~l~~l~~Gd~v~v~gP~ 111 (235)
T cd06193 88 DEGPASRWAASAQPGDTLGIAGPG 111 (235)
T ss_pred CCCchHHHHhhCCCCCEEEEECCC
Confidence 3 2222335689999999998874
No 102
>COG3533 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.65 E-value=2.2e+02 Score=28.89 Aligned_cols=111 Identities=14% Similarity=0.172 Sum_probs=64.7
Q ss_pred eEEEEEEcCCCCCCCCccCCcEEEcceeeeeeEEeC-CEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCceecceee
Q psy4641 21 FKSMTIWFPSDLLDGISISCSVAINGVCLSVTKIEG-NYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTEVGGHFL 99 (229)
Q Consensus 21 ~~~l~i~~p~~~~~~l~~g~SIAVnGvcLTV~~i~~-~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdrlgGH~V 99 (229)
...+.+++|. + ...--+.||| .++..... +...+. .+||.||+|+|.-+|.+- +=+|--
T Consensus 426 ~~tlaLRlP~-W----~a~~tl~vNG--~~~~~~~~~GYa~i~-----------R~Wq~GDrV~L~LpM~vr--~y~nP~ 485 (589)
T COG3533 426 LFTLALRLPA-W----CAAPTLRVNG--KEVIQTRGKGYARIS-----------REWQAGDRVELMLPMPVR--IYANPD 485 (589)
T ss_pred eEEEEEeccc-c----cCCcEEEEcC--cchhhccCCCeeeee-----------ehhcCCCeEEEeecceeE--eecCCc
Confidence 4455555552 3 2356788999 67665544 455444 489999999999999764 333332
Q ss_pred EEEEeE---EE-EEEEEEEcCCeEEEEEEeccchhc-----cceeeeccEEEceeeeeeeeE
Q psy4641 100 SGHIID---VA-NVRAIQALEKNYRMEIQMTNKSLM-----KYVFYKGYVAIDGISLTIGKV 152 (229)
Q Consensus 100 ~GHVd~---~~-~i~~i~~~~~~~~~~i~~p~~~~~-----~~iv~KGsIavdGvSLTV~~v 152 (229)
-=|+=| -| -|...+...+..-.++-+| ..+. ....++|-|...|-|=-....
T Consensus 486 ~r~~~GAi~rGPlVyc~e~~n~e~~~~~~vP-~~~~~~~~~~Ld~~~~~~~~~~~~~~~~~~ 546 (589)
T COG3533 486 VRHDVGAIMRGPLVYCAEAGNDEFPHELPVP-NLLTEHEGKALDQPAGAATPKGFSQRTAQG 546 (589)
T ss_pred chhhhhhhhcCCeEEEEecCCCCCceeeecc-ccccccccccccccccccccCcchhccCCc
Confidence 222222 11 2334555555566677777 4332 234578888888766544433
No 103
>PRK05826 pyruvate kinase; Provisional
Probab=24.54 E-value=1.6e+02 Score=28.93 Aligned_cols=47 Identities=15% Similarity=0.278 Sum_probs=33.7
Q ss_pred CCCCCCccCCcEEEcc--eeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeee
Q psy4641 31 DLLDGISISCSVAING--VCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNL 84 (229)
Q Consensus 31 ~~~~~l~~g~SIAVnG--vcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNL 84 (229)
.+.+.+.+|+.|.+|. +.|.|.+++++.+...+ .+=|.++...-|||
T Consensus 113 ~l~~~v~~Gd~ilidDG~i~l~V~~~~~~~v~~~v-------~~~g~l~s~kgvnl 161 (465)
T PRK05826 113 GLPKDVKPGDILLLDDGKLQLKVVEVDGDEVETEV-------KNGGPLSNNKGINI 161 (465)
T ss_pred HhHhhcCCCCEEEEeCCeEEEEEEEEeCCEEEEEE-------EeCcEecCCceeec
Confidence 4668899999999995 89999999888766554 22344444445554
No 104
>PRK10862 SoxR reducing system protein RseC; Provisional
Probab=24.41 E-value=1.2e+02 Score=25.28 Aligned_cols=15 Identities=7% Similarity=0.237 Sum_probs=12.8
Q ss_pred CCCCCCCEeEEcccC
Q psy4641 172 SKKAVGDALNIEVDS 186 (229)
Q Consensus 172 ~~~k~Gd~VNiE~D~ 186 (229)
..+++||+|.|+++-
T Consensus 57 ~~~~vGD~V~v~i~e 71 (154)
T PRK10862 57 QPLVPGQKVELGIAE 71 (154)
T ss_pred CCCCCCCEEEEecch
Confidence 457999999999884
No 105
>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]
Probab=24.18 E-value=63 Score=32.07 Aligned_cols=34 Identities=24% Similarity=0.390 Sum_probs=25.5
Q ss_pred CCeEEEEEEeccchhccceeeeccEEEceeeeeeee
Q psy4641 116 EKNYRMEIQMTNKSLMKYVFYKGYVAIDGISLTIGK 151 (229)
Q Consensus 116 ~~~~~~~i~~p~~~~~~~iv~KGsIavdGvSLTV~~ 151 (229)
++...+||.++ ..|.+. ..+=..||||||||...
T Consensus 279 ~~~v~v~f~i~-~g~~~r-~~~~~~AVd~isl~L~~ 312 (534)
T COG4172 279 VEDLRVWFPIK-GGFLRR-TVDHLRAVDGISLTLRR 312 (534)
T ss_pred ecceEEEEecC-Cccccc-cchheEEeccceeEecC
Confidence 45688889988 777665 33447899999998743
No 106
>cd06190 T4MO_e_transfer_like Toluene-4-monoxygenase electron transfer component of Pseudomonas mendocina hydroxylates toluene and forms p-cresol as part of a three component toluene-4-monoxygenase system. Electron transfer is from NADH to an NADH:ferredoxin oxidoreductase (TmoF in P. mendocina) to ferredoxin to an iron-containing oxygenase. TmoF is homologous to other mono- and dioxygenase systems within the ferredoxin reductase family.
Probab=23.16 E-value=2.2e+02 Score=23.97 Aligned_cols=69 Identities=10% Similarity=0.069 Sum_probs=43.8
Q ss_pred cCCeEEEEEEcCCCCCCCCccCCcEEEc--ce----eeeeeEEeC--CEEEEEEe--HhHHhhccCC-CCCCCCeeeecc
Q psy4641 18 YNDFKSMTIWFPSDLLDGISISCSVAIN--GV----CLSVTKIEG--NYISFDVI--NETLKITNLK-AVAVDQFVNLER 86 (229)
Q Consensus 18 ~~~~~~l~i~~p~~~~~~l~~g~SIAVn--Gv----cLTV~~i~~--~~f~v~li--peTL~~TtL~-~lk~Gd~VNLEr 86 (229)
.++.++++++.+..+ ...+|..+.+. +. ++|+.+... +.|.+.+- +.-.-...|. .+++||.|.++-
T Consensus 8 t~~~~~~~l~~~~~~--~~~pGQ~v~l~~~~~~~~r~ySi~s~~~~~~~~~~~vk~~~~G~~s~~l~~~~~~g~~v~v~g 85 (232)
T cd06190 8 THDVAEFRFALDGPA--DFLPGQYALLALPGVEGARAYSMANLANASGEWEFIIKRKPGGAASNALFDNLEPGDELELDG 85 (232)
T ss_pred CCCEEEEEEEcCCcc--ccCCCCEEEEECCCCCcccCccCCcCCCCCCEEEEEEEEcCCCcchHHHhhcCCCCCEEEEEC
Confidence 467788888876543 47889988883 43 677776542 45665553 2222223343 368999999986
Q ss_pred CC
Q psy4641 87 SA 88 (229)
Q Consensus 87 al 88 (229)
+.
T Consensus 86 P~ 87 (232)
T cd06190 86 PY 87 (232)
T ss_pred Cc
Confidence 54
No 107
>PF06017 Myosin_TH1: Myosin tail; InterPro: IPR010926 These proteins share a region of sequence similarity with the tail of myosin (for example O00159 from SWISSPROT). Myosins act as molecular motors. ; GO: 0003774 motor activity, 0016459 myosin complex
Probab=23.01 E-value=4.7e+02 Score=22.14 Aligned_cols=114 Identities=14% Similarity=0.244 Sum_probs=68.1
Q ss_pred CCCCCCCCeeeeccCCCCCceecceeeEEEEeEEEEEEEEEEcCCeEEEEEEeccchh----------ccceeeeccEEE
Q psy4641 73 LKAVAVDQFVNLERSAKMNTEVGGHFLSGHIIDVANVRAIQALEKNYRMEIQMTNKSL----------MKYVFYKGYVAI 142 (229)
Q Consensus 73 L~~lk~Gd~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i~~~~~~~~~~i~~p~~~~----------~~~iv~KGsIav 142 (229)
+...=.||.+++.....+.+-++.+.-...|--...|..+.+.+....-.+-+-+..+ .+....|--|.+
T Consensus 20 ~~r~f~gDyL~~~~~~~~~~~~~~~~~~e~vlFs~~v~K~nr~~K~~~R~livT~~~iY~l~~~~~~~~~~~~~kr~i~l 99 (199)
T PF06017_consen 20 VNRPFQGDYLGLNNNPKLQKILEKNEGDEKVLFSDRVQKYNRRNKPQPRILIVTDKAIYLLDQRKVKDPKKYKLKRRIPL 99 (199)
T ss_pred cCccccccccCccccccHHHHHHhccCCcceEEEEEEEEecCCCCccceEEEEeCCeEEEEEEeecCCceeeEEEeccCc
Confidence 3355579999999888877777766534445555555555543333222222221211 122334566766
Q ss_pred ceee-eeeeeEeCcEEEEEeehhhHhhccCCCCCCCCEeEEcccCccchHHHHHHHHH
Q psy4641 143 DGIS-LTIGKVFEDYFYVHLIPETMEKTTMSKKAVGDALNIEVDSQTQVIVNTVERVL 199 (229)
Q Consensus 143 dGvS-LTV~~v~~~~f~v~lIP~Tl~~T~l~~~k~Gd~VNiE~D~~t~~i~kyv~~~l 199 (229)
..|+ ++++...+++|-+.+ ...||.+ ++.+..+..+..-.+.+-
T Consensus 100 ~~I~~IsvS~~~D~~~vihv------------~~~~D~i-l~~~~k~Elv~~L~~~~~ 144 (199)
T PF06017_consen 100 SDITGISVSPLSDNFFVIHV------------PGEGDLI-LESDFKTELVTILCKAYK 144 (199)
T ss_pred ccccEEEEccCCCCEEEEEE------------CCCCCEE-EEeCcHHHHHHHHHHHHH
Confidence 6665 677778899999988 5577877 888876555544444443
No 108
>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family. Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. DevB from Anabaena sp. strain PCC 7120 is partially characterized as a membrane fusion protein of the DevBCA ABC exporter, probably a glycolipid exporter, required for heterocyst formation. Most Cyanobacteria have one member only, but Nostoc sp. PCC 7120 has seven members.
Probab=22.91 E-value=2.9e+02 Score=24.80 Aligned_cols=61 Identities=20% Similarity=0.208 Sum_probs=35.5
Q ss_pred CccCCcEEEcceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCceecceeeEEEEeEEEE
Q psy4641 36 ISISCSVAINGVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTEVGGHFLSGHIIDVAN 108 (229)
Q Consensus 36 l~~g~SIAVnGvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdrlgGH~V~GHVd~~~~ 108 (229)
+.+|..|.- +-=+++...+.-++.+++ |+ +.++.+++|+.|.+-.+--. | -+.|+|..++.
T Consensus 220 ~~~G~~v~~-~~l~~i~~~~~~~v~~~v-~e----~~~~~i~~G~~v~i~~~~~~-----~-~~~g~V~~Is~ 280 (327)
T TIGR02971 220 AREGEVIGS-EGILEMGDTSQMYAVAEV-YE----TDINRVRVGQRATITSTALS-----G-PLRGTVRRIGS 280 (327)
T ss_pred cCCCCccCC-CccEEEecCCcEEEEEEE-cH----HHHhhCCCCCEEEEEEcCCC-----C-cEEEEEEEecc
Confidence 455555543 333455543322444444 55 47788999999999765322 3 46777776643
No 109
>PRK10684 HCP oxidoreductase, NADH-dependent; Provisional
Probab=22.84 E-value=3.4e+02 Score=24.61 Aligned_cols=80 Identities=10% Similarity=0.181 Sum_probs=49.8
Q ss_pred eeceEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc---c--e--eeeeeEEe--CCEEEEEE--eHhHHhhccC
Q psy4641 6 VQGIGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN---G--V--CLSVTKIE--GNYISFDV--INETLKITNL 73 (229)
Q Consensus 6 Id~~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn---G--v--cLTV~~i~--~~~f~v~l--ipeTL~~TtL 73 (229)
....++|.++.+. ++.+.++++.+. . ....+|..+.+. | . ++|+.+.. .+.+.+.+ .|.=.-..-|
T Consensus 8 ~~~~~~V~~i~~~t~~v~~l~l~~~~-~-~~f~pGQfv~l~~~~~~~~~R~ySias~p~~~~~l~i~Vk~~~~G~~S~~L 85 (332)
T PRK10684 8 CPNRMQVHSIVQETPDVWTISLICHD-F-YPYRAGQYALVSIRNSAETLRAYTLSSTPGVSEFITLTVRRIDDGVGSQWL 85 (332)
T ss_pred CceeEEEEEEEccCCCeEEEEEcCCC-C-CCcCCCCEEEEEecCCCEeeeeecccCCCCCCCcEEEEEEEcCCCcchhHH
Confidence 3456788887764 567888887553 2 246788886663 2 2 67777654 23455444 3332222335
Q ss_pred -CCCCCCCeeeeccC
Q psy4641 74 -KAVAVDQFVNLERS 87 (229)
Q Consensus 74 -~~lk~Gd~VNLEra 87 (229)
..+++||.|++..+
T Consensus 86 ~~~l~~Gd~v~v~gP 100 (332)
T PRK10684 86 TRDVKRGDYLWLSDA 100 (332)
T ss_pred HhcCCCCCEEEEeCC
Confidence 47999999999765
No 110
>cd06198 FNR_like_3 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=22.76 E-value=2.6e+02 Score=23.26 Aligned_cols=69 Identities=9% Similarity=-0.003 Sum_probs=42.9
Q ss_pred CCeEEEEEEcCCCCCCCCccCCcEEEc--c------eeeeeeEEeC--CEEEEEEeHhHHhhccCC-CCCCCCeeeeccC
Q psy4641 19 NDFKSMTIWFPSDLLDGISISCSVAIN--G------VCLSVTKIEG--NYISFDVINETLKITNLK-AVAVDQFVNLERS 87 (229)
Q Consensus 19 ~~~~~l~i~~p~~~~~~l~~g~SIAVn--G------vcLTV~~i~~--~~f~v~lipeTL~~TtL~-~lk~Gd~VNLEra 87 (229)
.+.+.++++.+... ....+|..|.+. + -++|+.+... +.+.+.+-..-.-...|. .+++||.|.++-+
T Consensus 7 ~~~~~i~l~~~~~~-~~~~pGQ~v~l~~~~~~~~~~r~ySi~s~~~~~~~l~l~vk~~G~~t~~l~~~l~~G~~v~i~gP 85 (216)
T cd06198 7 RPTTTLTLEPRGPA-LGHRAGQFAFLRFDASGWEEPHPFTISSAPDPDGRLRFTIKALGDYTRRLAERLKPGTRVTVEGP 85 (216)
T ss_pred cceEEEEEeeCCCC-CCcCCCCEEEEEeCCCCCCCCCCcEEecCCCCCCeEEEEEEeCChHHHHHHHhCCCCCEEEEECC
Confidence 34566777765432 346788877664 2 3678877643 367776643322233454 7899999999865
Q ss_pred C
Q psy4641 88 A 88 (229)
Q Consensus 88 l 88 (229)
.
T Consensus 86 ~ 86 (216)
T cd06198 86 Y 86 (216)
T ss_pred C
Confidence 4
No 111
>TIGR03224 benzo_boxA benzoyl-CoA oxygenase/reductase, BoxA protein. Members of this protein family are BoxA, the A component of the BoxAB benzoyl-CoA oxygenase/reductase. This oxygen-requiring enzyme acts in an aerobic pathway of benzoate catabolism via coenzyme A ligation. BoxA is a homodimeric iron-sulphur-flavoprotein and acts as an NADPH-dependent reductase for BoxB.
Probab=22.72 E-value=2.9e+02 Score=26.38 Aligned_cols=77 Identities=12% Similarity=0.126 Sum_probs=44.6
Q ss_pred EEEEEEEEEEc------CCeEEEEEEeccchhccceeeeccEEE-------cee-----eeeeeeEeC------cEE--E
Q psy4641 105 DVANVRAIQAL------EKNYRMEIQMTNKSLMKYVFYKGYVAI-------DGI-----SLTIGKVFE------DYF--Y 158 (229)
Q Consensus 105 ~~~~i~~i~~~------~~~~~~~i~~p~~~~~~~iv~KGsIav-------dGv-----SLTV~~v~~------~~f--~ 158 (229)
-.|+|.+.++. .+-+.++++.+ ....+ ..+..||.| +|- +.+|++..+ +.+ .
T Consensus 143 ~~a~V~~~~~l~~~~~~~~v~~l~L~~~-~~~~~-~~pGQfv~l~~pg~~~~g~~~~~R~YSIas~~~~~~~~~~~l~l~ 220 (411)
T TIGR03224 143 ITATVVGNYRLTDEDASSDIHHIVLDFG-SHPFP-VLEGQSIGILPPGTDASGKPHYARMYSVASPRNGERPGYNNLALT 220 (411)
T ss_pred eEEEEeeeEEccCCCCCCceEEEEEeCC-CCcCC-ccCCcEEEEecCCcCcCCCcCcceeeeecCCCCccCCCCCEEEEE
Confidence 34788887776 36677888876 42222 355666666 221 566766521 234 4
Q ss_pred EEeehh--------hHhhccCCCCCCCCEeEEc
Q psy4641 159 VHLIPE--------TMEKTTMSKKAVGDALNIE 183 (229)
Q Consensus 159 v~lIP~--------Tl~~T~l~~~k~Gd~VNiE 183 (229)
|...|+ =.-..-|..+|+||.|.+.
T Consensus 221 Vk~v~~~~~g~~~~G~~S~~L~~lk~Gd~v~v~ 253 (411)
T TIGR03224 221 VKRVTTDHQGNAVRGVASNYLCDLKKGDKVQVI 253 (411)
T ss_pred EEEEEecCCCCcCcccchhHHhcCCCcCEEEEE
Confidence 444442 1223335679999999986
No 112
>PLN03115 ferredoxin--NADP(+) reductase; Provisional
Probab=22.48 E-value=1.5e+02 Score=28.13 Aligned_cols=68 Identities=12% Similarity=0.082 Sum_probs=40.2
Q ss_pred CCeEEEEEEcCCCCCCCCccCCcEEEc--ce----------eeeeeEEe------CCEEEEEEeH-----------hHHh
Q psy4641 19 NDFKSMTIWFPSDLLDGISISCSVAIN--GV----------CLSVTKIE------GNYISFDVIN-----------ETLK 69 (229)
Q Consensus 19 ~~~~~l~i~~p~~~~~~l~~g~SIAVn--Gv----------cLTV~~i~------~~~f~v~lip-----------eTL~ 69 (229)
++.++++++.+..+ ...+|.+|.|- |. ++++.+.. ++.+++.+-. .=+-
T Consensus 108 ~~v~~l~l~~~~~~--~f~~GQfv~I~~~g~~~~g~p~~~R~YSIAS~p~~~~~~~~~l~L~Vk~~~y~~~~g~~~~G~~ 185 (367)
T PLN03115 108 GETWHMVFSTEGEI--PYREGQSIGVIPDGIDKNGKPHKLRLYSIASSALGDFGDSKTVSLCVKRLVYTNDQGEIVKGVC 185 (367)
T ss_pred CceEEEEEcCCCCC--CcCCCCEEEEEcCCcCCCCCcCceeeeecCCCCcccCCCCCEEEEEEEEEEeecCCCccCCeeh
Confidence 46688888765432 46889999883 21 25565542 2345544321 1122
Q ss_pred hccCCCCCCCCeeeeccCC
Q psy4641 70 ITNLKAVAVDQFVNLERSA 88 (229)
Q Consensus 70 ~TtL~~lk~Gd~VNLEral 88 (229)
.+-|..+++||.|.+.-+.
T Consensus 186 S~~L~~Lk~Gd~V~v~GP~ 204 (367)
T PLN03115 186 SNFLCDLKPGAEVKITGPV 204 (367)
T ss_pred HhhHhhCCCcCEEEEEeec
Confidence 3346779999999987553
No 113
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=21.79 E-value=87 Score=24.92 Aligned_cols=19 Identities=21% Similarity=0.366 Sum_probs=15.4
Q ss_pred ccCCCCCCCCEeEEcccCc
Q psy4641 169 TTMSKKAVGDALNIEVDSQ 187 (229)
Q Consensus 169 T~l~~~k~Gd~VNiE~D~~ 187 (229)
.|=-..++||+|-+|++-.
T Consensus 47 ~~~~~~~~GD~V~v~i~~~ 65 (135)
T PF04246_consen 47 PNPIGAKVGDRVEVEIPES 65 (135)
T ss_pred cCCCCCCCCCEEEEEeccc
Confidence 4555699999999999964
No 114
>PRK11872 antC anthranilate dioxygenase reductase; Provisional
Probab=21.77 E-value=3.6e+02 Score=24.64 Aligned_cols=81 Identities=16% Similarity=0.261 Sum_probs=45.7
Q ss_pred EeEEEEEEEEEEcC-CeEEEEEEeccchhccc-eeeeccEE--Ece----eeeeeeeEe--CcE--EEEEeehhhHhhcc
Q psy4641 103 IIDVANVRAIQALE-KNYRMEIQMTNKSLMKY-VFYKGYVA--IDG----ISLTIGKVF--EDY--FYVHLIPETMEKTT 170 (229)
Q Consensus 103 Vd~~~~i~~i~~~~-~~~~~~i~~p~~~~~~~-iv~KGsIa--vdG----vSLTV~~v~--~~~--f~v~lIP~Tl~~T~ 170 (229)
-...|+|.+++... +...++++.| .....+ ..+..+|. ++| -++++++.. ++. |.|...|.-.-.+-
T Consensus 105 ~~~~~~V~~i~~~s~di~~l~l~~~-~~~~~~~~~pGQ~v~l~~~~~~~~R~ySias~p~~~~~l~~~ik~~~~G~~s~~ 183 (340)
T PRK11872 105 LKISGVVTAVELVSETTAILHLDAS-AHGRQLDFLPGQYARLQIPGTDDWRSYSFANRPNATNQLQFLIRLLPDGVMSNY 183 (340)
T ss_pred ceeeEEEEEEEecCCCeEEEEEEcC-CCCCccCcCCCCEEEEEeCCCCceeecccCCCCCCCCeEEEEEEECCCCcchhh
Confidence 44568888887654 4566788776 321111 12333333 334 367777653 344 44444455332233
Q ss_pred C-CCCCCCCEeEEcc
Q psy4641 171 M-SKKAVGDALNIEV 184 (229)
Q Consensus 171 l-~~~k~Gd~VNiE~ 184 (229)
| ..+++||.|.|+-
T Consensus 184 L~~~l~~G~~v~i~g 198 (340)
T PRK11872 184 LRERCQVGDEILFEA 198 (340)
T ss_pred HhhCCCCCCEEEEEc
Confidence 5 4699999999983
No 115
>PRK07211 replication factor A; Reviewed
Probab=21.73 E-value=3.8e+02 Score=26.70 Aligned_cols=14 Identities=21% Similarity=0.145 Sum_probs=10.8
Q ss_pred CCCccCCcEEEcce
Q psy4641 34 DGISISCSVAINGV 47 (229)
Q Consensus 34 ~~l~~g~SIAVnGv 47 (229)
+.+.+|+.+.|-++
T Consensus 224 ~~le~G~Vv~I~~a 237 (485)
T PRK07211 224 EELDAGESVEIVDG 237 (485)
T ss_pred ccCCCCCEEEEEee
Confidence 56889999998554
No 116
>PTZ00319 NADH-cytochrome B5 reductase; Provisional
Probab=21.65 E-value=4.8e+02 Score=23.54 Aligned_cols=80 Identities=11% Similarity=0.080 Sum_probs=47.1
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCC-CCCCCCccCCcEEEc------ce------eeeeeEEe--CCEEEEEEeH-------
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPS-DLLDGISISCSVAIN------GV------CLSVTKIE--GNYISFDVIN------- 65 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~-~~~~~l~~g~SIAVn------Gv------cLTV~~i~--~~~f~v~lip------- 65 (229)
-.+|.++++. ++.+.++++.+. .-.....+|..|.+. |. ++|+.... ++.+++.+-.
T Consensus 35 ~~~v~~~~~~s~d~~~~~~~~~~~~~~~~~~pGQfi~l~~~~~~~~~~~~~~R~YS~~s~~~~~~~i~~~Ik~~~~~~~~ 114 (300)
T PTZ00319 35 HFKLIKKTEVTHDTFIFRFALHSPTQRLGLPIGQHIVFRCDCTTPGKPETVQHSYTPISSDDEKGYVDFLIKVYFKGVHP 114 (300)
T ss_pred EEEEEEEEEcCCCceEEEEECCCCcccCCCccceEEEEEEEeCCCCccceEEeeeccCCCcccCCEEEEEEEEeccCCCC
Confidence 4577777764 567788888753 212357788887664 21 13433332 3455555421
Q ss_pred ----hHHhhccCCCCCCCCeeeeccCC
Q psy4641 66 ----ETLKITNLKAVAVDQFVNLERSA 88 (229)
Q Consensus 66 ----eTL~~TtL~~lk~Gd~VNLEral 88 (229)
.=.-...|..+++||.|.++.+.
T Consensus 115 ~~~~~G~~S~~L~~l~~Gd~v~i~gP~ 141 (300)
T PTZ00319 115 SFPNGGRLSQHLYHMKLGDKIEMRGPV 141 (300)
T ss_pred CCCCCCChhhhhhcCCCCCEEEEEccc
Confidence 12222446779999999998765
No 117
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=21.39 E-value=1.1e+02 Score=22.35 Aligned_cols=33 Identities=15% Similarity=0.131 Sum_probs=23.1
Q ss_pred eCcEEEEEeehhhHhhccCCCCCCCCEeEEcccC
Q psy4641 153 FEDYFYVHLIPETMEKTTMSKKAVGDALNIEVDS 186 (229)
Q Consensus 153 ~~~~f~v~lIP~Tl~~T~l~~~k~Gd~VNiE~D~ 186 (229)
..+++.|.+--. +...-...+++||+|-||=.+
T Consensus 46 ~~~~~~v~~~g~-~A~~~~~~l~kG~~V~V~G~l 78 (104)
T PF00436_consen 46 KTDWINVVAWGK-LAENVAEYLKKGDRVYVEGRL 78 (104)
T ss_dssp EEEEEEEEEEHH-HHHHHHHH--TT-EEEEEEEE
T ss_pred ceEEEEEEeeee-cccccceEEcCCCEEEEEEEE
Confidence 345888888888 666666779999999999664
No 118
>TIGR02160 PA_CoA_Oxy5 phenylacetate-CoA oxygenase/reductase, PaaK subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=21.29 E-value=2.8e+02 Score=25.28 Aligned_cols=76 Identities=18% Similarity=0.213 Sum_probs=42.6
Q ss_pred EEEEEEEEc-CCeEEEEEEeccchhccc--eeeeccEEE----cee----eeeeeeEe-CcEEEEEe--ehhhHhhccC-
Q psy4641 107 ANVRAIQAL-EKNYRMEIQMTNKSLMKY--VFYKGYVAI----DGI----SLTIGKVF-EDYFYVHL--IPETMEKTTM- 171 (229)
Q Consensus 107 ~~i~~i~~~-~~~~~~~i~~p~~~~~~~--iv~KGsIav----dGv----SLTV~~v~-~~~f~v~l--IP~Tl~~T~l- 171 (229)
.+|.+++.. .+.+.++|+.| ..+.+. .-+..+|.| +|- ++||++.. ++.|++.+ .|.=.-.+-|
T Consensus 4 ~~V~~i~~~t~~~~~l~l~~~-~~~~~~~~~~pGQ~v~l~~~~~g~~~~R~ySi~s~p~~~~l~i~vk~~~~G~~S~~l~ 82 (352)
T TIGR02160 4 LTVAEVERLTADAVAISFEIP-DELAEDYRFAPGQHLTLRREVDGEELRRSYSICSAPAPGEIRVAVKKIPGGLFSTWAN 82 (352)
T ss_pred eEEEEEEecCCCeEEEEEeCC-ccccccCCCCCCCeEEEEEecCCcEeeeeccccCCCCCCcEEEEEEEeCCCcchHHHH
Confidence 356666654 56778889887 432211 233444433 342 56777653 44555544 4432323334
Q ss_pred CCCCCCCEeEEc
Q psy4641 172 SKKAVGDALNIE 183 (229)
Q Consensus 172 ~~~k~Gd~VNiE 183 (229)
..+++||.|.+-
T Consensus 83 ~~l~~Gd~v~v~ 94 (352)
T TIGR02160 83 DEIRPGDTLEVM 94 (352)
T ss_pred hcCCCCCEEEEe
Confidence 478999999884
No 119
>TIGR01064 pyruv_kin pyruvate kinase. This enzyme is a homotetramer. Some forms are active only in the presence of fructose-1,6-bisphosphate or similar phosphorylated sugars.
Probab=21.18 E-value=1.8e+02 Score=28.57 Aligned_cols=54 Identities=20% Similarity=0.317 Sum_probs=38.2
Q ss_pred EEEEEcCCCCCCCCccCCcEEEc--ceeeeeeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeee
Q psy4641 23 SMTIWFPSDLLDGISISCSVAIN--GVCLSVTKIEGNYISFDVINETLKITNLKAVAVDQFVNL 84 (229)
Q Consensus 23 ~l~i~~p~~~~~~l~~g~SIAVn--GvcLTV~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNL 84 (229)
.+.+..| .+.+.+.+|+.|.+| -+.|.|.+++++.+...+ .+=|.++...-||+
T Consensus 104 ~i~~~~~-~~~~~~~~g~~i~iddG~i~l~V~~~~~~~~~~~v-------~~~g~l~~~kgvn~ 159 (473)
T TIGR01064 104 DVSVDYK-GLTKDVSEGDKILVDDGKISLVVVSVEGDKVICEV-------LNGGTLKSKKGVNL 159 (473)
T ss_pred EEEechH-HHHHhcCCCCEEEEeCCeEEEEEEEEECCEEEEEE-------EeCcEEcCCceeec
Confidence 3444443 466889999999999 499999999887665544 33456666667775
No 120
>PRK06567 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated
Probab=21.03 E-value=3e+02 Score=30.06 Aligned_cols=82 Identities=17% Similarity=0.135 Sum_probs=51.9
Q ss_pred eEEEEEEEEc-CCeEEEEEEcCCCCCCCCccCCcEEEc--c---------eeeeeeEEeC--CEEEEEEeHhHHhhccCC
Q psy4641 9 IGKVSAVFSY-NDFKSMTIWFPSDLLDGISISCSVAIN--G---------VCLSVTKIEG--NYISFDVINETLKITNLK 74 (229)
Q Consensus 9 ~G~I~~i~~~-~~~~~l~i~~p~~~~~~l~~g~SIAVn--G---------vcLTV~~i~~--~~f~v~lipeTL~~TtL~ 74 (229)
+++|.+.+.. ++.+.++++.|. ..+...+|..+.+- | ..||+.+++. +.+++-+-.-=--.--|.
T Consensus 792 ~~~Vv~~~~lap~i~~L~l~aP~-iA~~~kPGQFVmL~~~~~g~~~l~~p~P~SI~~vD~e~g~It~i~rvVGkgT~~Ls 870 (1028)
T PRK06567 792 TSRVNKINILDDKTFELIIHSPL-AAKNFKFGQFFRLQNYSEDAAKLIEPVALSPIDIDVEKGLISFIVFEVGKSTSLCK 870 (1028)
T ss_pred ceEEEEEEEecCCEEEEEEeCcc-hhhcCCCCceEEEEeCCCCCccccCceeEEeeccCCCCCEEEEEEEEEChHHHHHh
Confidence 4677776654 457888888874 34567799988774 2 3578877754 334433321111223357
Q ss_pred CCCCCCeeeeccCCCCC
Q psy4641 75 AVAVDQFVNLERSAKMN 91 (229)
Q Consensus 75 ~lk~Gd~VNLEral~~g 91 (229)
.+++||.+++--|+=-+
T Consensus 871 ~l~~Gd~v~v~GPLG~p 887 (1028)
T PRK06567 871 TLSENEKVVLMGPTGSP 887 (1028)
T ss_pred cCCCCCEEEEEcccCCC
Confidence 89999999998887433
No 121
>TIGR03021 pilP_fam type IV pilus biogenesis protein PilP. Members of this protein family are found in type IV pilus biogenesis loci and include proteins designated PilP.
Probab=21.03 E-value=2.5e+02 Score=22.45 Aligned_cols=53 Identities=11% Similarity=0.082 Sum_probs=43.3
Q ss_pred eEEEEEEEEEEcCCeEEEEEEeccchhccceeeeccEEEceeeeeeeeEeCcEEEE
Q psy4641 104 IDVANVRAIQALEKNYRMEIQMTNKSLMKYVFYKGYVAIDGISLTIGKVFEDYFYV 159 (229)
Q Consensus 104 d~~~~i~~i~~~~~~~~~~i~~p~~~~~~~iv~KGsIavdGvSLTV~~v~~~~f~v 159 (229)
++.-+|.+|.-.++.+.-.+++| .. ...-+.+|+- +.|.+++|..|+.+.+.+
T Consensus 66 ~~~P~v~~I~G~~~~l~A~l~l~-~G-~~~~v~~G~~-lpgt~~~V~~I~~~~V~l 118 (119)
T TIGR03021 66 ILLPRVVEIFGRGGRLTATLRLP-GG-REVDVQVGDS-LPGTGYKVKSITLDGVVL 118 (119)
T ss_pred CCCCEEEEEEccCCCeEEEEEeC-CC-cEEEecCCCc-cCCCCcEEEEEeCCeEEE
Confidence 34567899998899999999999 54 4556888887 999999999999887654
No 122
>cd06220 DHOD_e_trans_like2 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as 3 cofactors: FMN, FAD, and an [2Fe-2S] cluster.
Probab=21.02 E-value=3.2e+02 Score=23.27 Aligned_cols=69 Identities=10% Similarity=0.131 Sum_probs=41.3
Q ss_pred EEEEE-EcCCeEEEEEEeccchhccceeeeccEEE-----ceeeeeeeeEeCcEEEEEeehhhHhhccCCCCCCCCEeEE
Q psy4641 109 VRAIQ-ALEKNYRMEIQMTNKSLMKYVFYKGYVAI-----DGISLTIGKVFEDYFYVHLIPETMEKTTMSKKAVGDALNI 182 (229)
Q Consensus 109 i~~i~-~~~~~~~~~i~~p~~~~~~~iv~KGsIav-----dGvSLTV~~v~~~~f~v~lIP~Tl~~T~l~~~k~Gd~VNi 182 (229)
|.+++ ..++...++++.| ..+. +..++.| +.-.++|++.. +.+++.+-..-.-..-|..+++||.|.|
T Consensus 3 v~~~~~~t~~~~~~~l~~~-~~~~----pGQ~v~l~~~~~~~~~~Si~s~~-~~l~~~v~~~G~~s~~L~~l~~Gd~v~i 76 (233)
T cd06220 3 IKEVIDETPTVKTFVFDWD-FDFK----PGQFVMVWVPGVDEIPMSLSYID-GPNSITVKKVGEATSALHDLKEGDKLGI 76 (233)
T ss_pred EEEEEEEcCCEEEEEEecC-CCCC----CCceEEEEeCCCCcceeEEecCC-CeEEEEEEecChHHHHHHhcCCCCEEEE
Confidence 44444 4455666777776 4432 2222222 23566776655 6777776655444556667899999988
Q ss_pred c
Q psy4641 183 E 183 (229)
Q Consensus 183 E 183 (229)
.
T Consensus 77 ~ 77 (233)
T cd06220 77 R 77 (233)
T ss_pred E
Confidence 6
No 123
>PRK14980 DNA-directed RNA polymerase subunit G; Provisional
Probab=21.02 E-value=4.4e+02 Score=21.67 Aligned_cols=65 Identities=14% Similarity=0.109 Sum_probs=42.5
Q ss_pred eeEEeCCEEEEEEeHhHHhhccCCCCCCCCeeeeccCCCCCceecceeeEEEEeEEEEEEEE-EEcCCeEEEEEEec
Q psy4641 51 VTKIEGNYISFDVINETLKITNLKAVAVDQFVNLERSAKMNTEVGGHFLSGHIIDVANVRAI-QALEKNYRMEIQMT 126 (229)
Q Consensus 51 V~~i~~~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~~gdrlgGH~V~GHVd~~~~i~~i-~~~~~~~~~~i~~p 126 (229)
..+.++-.+++|++. .|.-++.||.|++|.+-.-=+... |-+=| -|-+... ++.|+.+...|++.
T Consensus 30 ~~~C~~~~v~fDi~~------~L~~fsege~v~iiIS~ekP~~~~-~dFCg----hGyvV~~~k~~~~~y~~iISl~ 95 (127)
T PRK14980 30 HMSCNDFNISFDIID------SINIFSQKEKVKAIISKERPSYTN-DDFCA----HGYIVTESSNNGNRYTTIISLF 95 (127)
T ss_pred EEecCCeEEEEEehh------hhheecCCCcEEEEEeccCccccc-ceeec----CcEEEEEEecCCCeEEEEEEee
Confidence 344445567788753 466788999999987655444443 33333 3566666 77888888777775
No 124
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=20.90 E-value=5.9e+02 Score=22.52 Aligned_cols=123 Identities=13% Similarity=0.139 Sum_probs=65.9
Q ss_pred CEEEEEEeHhHHhhccCCCCCCCCeeeeccCCC-CCceecc--eeeEEE-EeEEEEEEEEEEcC--CeEEEEEEec-cch
Q psy4641 57 NYISFDVINETLKITNLKAVAVDQFVNLERSAK-MNTEVGG--HFLSGH-IIDVANVRAIQALE--KNYRMEIQMT-NKS 129 (229)
Q Consensus 57 ~~f~v~lipeTL~~TtL~~lk~Gd~VNLEral~-~gdrlgG--H~V~GH-Vd~~~~i~~i~~~~--~~~~~~i~~p-~~~ 129 (229)
+.+.+-++.-...... ++.|+.|-+|--++ +.+.-+| |.+.=- ++.+--+.+..... |...+.=.+- +++
T Consensus 47 D~i~v~v~~rlae~~~---l~kG~~v~VeGqlrsy~~~~~G~~R~vl~V~a~~i~~l~~~~~~~~~N~V~LiGrL~~DPe 123 (219)
T PRK05813 47 DILPVTVSERLLAGMD---LKVGTLVIVEGQLRSYNKFIDGKNRLILTVFARNIEYCDERSDIKNPNEIFLDGYICKEPV 123 (219)
T ss_pred cEEEEEEEhhhhhhhc---ccCCCEEEEEEEEEEeccCCCCcEEEEEEEEEEEEEEccCCCccCCccEEEEEEEccCCCe
Confidence 5677777777776665 88999999999998 5544333 333211 11111111111111 1112211121 133
Q ss_pred hccceeeeccEEEceeeeeeeeE--eCcEEEEEeehhhHhhccCCCCCCCCEeEEcccCc
Q psy4641 130 LMKYVFYKGYVAIDGISLTIGKV--FEDYFYVHLIPETMEKTTMSKKAVGDALNIEVDSQ 187 (229)
Q Consensus 130 ~~~~iv~KGsIavdGvSLTV~~v--~~~~f~v~lIP~Tl~~T~l~~~k~Gd~VNiE~D~~ 187 (229)
+ +| .+.|. ++=-.||-++.- ..+||.+.+.-.+.+. +..+++||+|-||=-++
T Consensus 124 l-R~-t~~G~-~va~f~lAvnr~~~~td~i~~v~wg~~Ae~--~~~l~KG~~V~V~GrL~ 178 (219)
T PRK05813 124 Y-RT-TPFGR-EIADLLLAVNRPYNKSDYIPCIAWGRNARF--CKTLEVGDNIRVWGRVQ 178 (219)
T ss_pred E-EE-CCCCC-EEEEEEEEEcCCCCCceEEEEEEEhHHhHH--HhhCCCCCEEEEEEEEE
Confidence 3 33 35552 222333433321 2368888888876553 56799999999996653
No 125
>cd06219 DHOD_e_trans_like1 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as NAD binding. NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group, as in flavoenzymes, or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD,
Probab=20.84 E-value=3.5e+02 Score=23.37 Aligned_cols=73 Identities=15% Similarity=0.128 Sum_probs=41.5
Q ss_pred EEEEE-EcCCeEEEEEEeccchhccceeeeccEEE----ce--eeeeeeeEe--CcEEEEEeehhhHhhccCCCCCCCCE
Q psy4641 109 VRAIQ-ALEKNYRMEIQMTNKSLMKYVFYKGYVAI----DG--ISLTIGKVF--EDYFYVHLIPETMEKTTMSKKAVGDA 179 (229)
Q Consensus 109 i~~i~-~~~~~~~~~i~~p~~~~~~~iv~KGsIav----dG--vSLTV~~v~--~~~f~v~lIP~Tl~~T~l~~~k~Gd~ 179 (229)
|.+++ ...+.+.++++.| +...+ ..+..++.| +| ..+||++.. ++.+++.+-+.-...-.|..+++||.
T Consensus 3 v~~~~~~t~d~~~~~l~~~-~~~~~-~~pGQf~~l~~~~~~~~~pySi~s~~~~~~~~~~~vk~~G~~t~~l~~l~~G~~ 80 (248)
T cd06219 3 ILEKEELAPNVKLFEIEAP-LIAKK-AKPGQFVIVRADEKGERIPLTIADWDPEKGTITIVVQVVGKSTRELATLEEGDK 80 (248)
T ss_pred EEEEEEeCCCeEEEEEECh-hhhcc-CCCCcEEEEEcCCCCCccceEeEEEcCCCCEEEEEEEeCCchHHHHHhcCCCCE
Confidence 44444 4456677888877 42211 122223322 12 477888873 45677777554333334567889999
Q ss_pred e-EEc
Q psy4641 180 L-NIE 183 (229)
Q Consensus 180 V-NiE 183 (229)
| .++
T Consensus 81 v~~i~ 85 (248)
T cd06219 81 IHDVV 85 (248)
T ss_pred eeeee
Confidence 8 575
No 126
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=20.16 E-value=6.7e+02 Score=22.88 Aligned_cols=91 Identities=7% Similarity=0.164 Sum_probs=54.7
Q ss_pred EEEEEEEcCCeEEEEEEeccchhccceeeec--cEEEce--------eeeeeeeEeC----------cEEEEEeehhhHh
Q psy4641 108 NVRAIQALEKNYRMEIQMTNKSLMKYVFYKG--YVAIDG--------ISLTIGKVFE----------DYFYVHLIPETME 167 (229)
Q Consensus 108 ~i~~i~~~~~~~~~~i~~p~~~~~~~iv~KG--sIavdG--------vSLTV~~v~~----------~~f~v~lIP~Tl~ 167 (229)
.+..+.+..+.+++.+.+| +....++-..- .|.+|+ +--+|..+.+ ..|.|.+-+..-.
T Consensus 299 ~l~~i~~~~~~~~v~~~v~-~~~~~~i~~G~~v~v~~~~~~~~~~~~~~g~V~~i~~~~~~~~~~~~~~~~v~i~l~~~~ 377 (423)
T TIGR01843 299 TLMEIVPEDDPLEIEAKLS-PKDIGFVHVGQPAEIKFSAFPYRRYGILNGKVKSISPDTFTDERGGGPYYRVRISIDQNT 377 (423)
T ss_pred eeEEEecCCCcEEEEEEEC-hhhhhhhCCCCceEEEEecCCCcccCCccEEEEEECCCcccCccCCcceEEEEEEECHHH
Confidence 4555665566788889999 65555554332 343443 2346666643 2366655543221
Q ss_pred hc---cCCCCCCCCEeEEcccCccchHHHHHHHHH
Q psy4641 168 KT---TMSKKAVGDALNIEVDSQTQVIVNTVERVL 199 (229)
Q Consensus 168 ~T---~l~~~k~Gd~VNiE~D~~t~~i~kyv~~~l 199 (229)
.. .-..+++|..|++++..-.+.+..|+-.-+
T Consensus 378 ~~~~~~~~~l~~Gm~~~v~i~~~~~~~~~~~l~~~ 412 (423)
T TIGR01843 378 LGIGPKGLELSPGMPVTADIKTGERTVIEYLLKPI 412 (423)
T ss_pred hccCCCCCccCCCCEEEEEEEeCCccHHHHHHHHH
Confidence 11 124699999999999887777777776443
No 127
>PRK13806 rpsA 30S ribosomal protein S1; Provisional
Probab=20.11 E-value=8.2e+02 Score=23.91 Aligned_cols=127 Identities=16% Similarity=0.246 Sum_probs=67.2
Q ss_pred CCCccCCcEEEcceeeeeeEEeCCEEEEEEeHh---HHhhccCCCCCCCCeeeeccCCCCCceecceeeEEEEeEEEEEE
Q psy4641 34 DGISISCSVAINGVCLSVTKIEGNYISFDVINE---TLKITNLKAVAVDQFVNLERSAKMNTEVGGHFLSGHIIDVANVR 110 (229)
Q Consensus 34 ~~l~~g~SIAVnGvcLTV~~i~~~~f~v~lipe---TL~~TtL~~lk~Gd~VNLEral~~gdrlgGH~V~GHVd~~~~i~ 110 (229)
..+..|+-+. | +|+.+.+..+.|++-+. -+..+.+. -....|++...+.|+++- ++|.
T Consensus 198 ~~l~~G~iv~--G---~V~~v~~~G~fV~l~~gv~g~v~~sels---~~~~~~~~~~~~vGd~i~-----------vkVl 258 (491)
T PRK13806 198 ETVKEGDVVE--G---TVTRLAPFGAFVELAPGVEGMVHISELS---WSRVQKADEAVSVGDTVR-----------VKVL 258 (491)
T ss_pred hhCCCCCEEE--E---EEEEEeCCeEEEEcCCCcEEEEEHHHCC---CccccChhHhcCCCCEEE-----------EEEE
Confidence 3577777665 4 78888877766776321 11112222 223345666677777764 5666
Q ss_pred EEEEcCCe--EEEEEEec---cchhccce--eeeccEEEceeeeeeeeEeCcEEEEEeehhh---HhhccC---------
Q psy4641 111 AIQALEKN--YRMEIQMT---NKSLMKYV--FYKGYVAIDGISLTIGKVFEDYFYVHLIPET---MEKTTM--------- 171 (229)
Q Consensus 111 ~i~~~~~~--~~~~i~~p---~~~~~~~i--v~KGsIavdGvSLTV~~v~~~~f~v~lIP~T---l~~T~l--------- 171 (229)
++....+. .++.++.- +..|..+. .+.|.+ +.| +|..+.+..+.|.|-|.. +....|
T Consensus 259 ~id~~~~~~~~ri~lS~K~~~~~p~~~~~~~~~~G~~-v~G---~V~~v~~~G~fV~l~~gv~Glvh~sels~~~~~~~~ 334 (491)
T PRK13806 259 GIERAKKGKGLRISLSIKQAGGDPWDTVGDRLKAGDK-VTG---KVVRLAPFGAFVEILPGIEGLVHVSEMSWTRRVNKP 334 (491)
T ss_pred EEecccCCcceEEEEEehhhhcccchhhhccCCCCCE-EEE---EEEEEeCceEEEEeCCCcEEEEEHHHcCcccccCCH
Confidence 66654432 34444431 01122221 234553 334 888888877766664421 111111
Q ss_pred -CCCCCCCEeEEc
Q psy4641 172 -SKKAVGDALNIE 183 (229)
Q Consensus 172 -~~~k~Gd~VNiE 183 (229)
...++||.|.+-
T Consensus 335 ~~~~~~Gd~v~vk 347 (491)
T PRK13806 335 EDVVAPGDAVAVK 347 (491)
T ss_pred HHcCCCCCEEEEE
Confidence 236899999865
Done!