Query psy1295
Match_columns 137
No_of_seqs 118 out of 1037
Neff 6.2
Searched_HMMs 46136
Date Fri Aug 16 23:51:02 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1295.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1295hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR03677 rpl7ae 50S ribosomal 100.0 9.6E-29 2.1E-33 178.6 14.6 116 17-135 1-116 (117)
2 PRK04175 rpl7ae 50S ribosomal 100.0 3.4E-28 7.3E-33 177.0 15.2 117 17-136 5-121 (122)
3 COG1358 RPL8A Ribosomal protei 99.9 3E-26 6.5E-31 165.5 13.1 113 18-134 2-114 (116)
4 KOG3167|consensus 99.9 1.2E-26 2.6E-31 170.8 10.5 124 11-136 27-150 (153)
5 PTZ00106 60S ribosomal protein 99.9 4.6E-24 1E-28 152.4 10.8 96 28-124 10-106 (108)
6 PRK07714 hypothetical protein; 99.9 8.9E-24 1.9E-28 148.5 10.4 87 28-116 3-89 (100)
7 PRK01018 50S ribosomal protein 99.9 2E-23 4.2E-28 146.8 10.8 92 31-123 4-96 (99)
8 PRK07283 hypothetical protein; 99.9 3.5E-23 7.7E-28 145.2 9.6 85 28-115 3-87 (98)
9 PRK13602 putative ribosomal pr 99.9 6.6E-23 1.4E-27 139.8 10.7 76 38-114 6-81 (82)
10 PRK06683 hypothetical protein; 99.9 7.9E-23 1.7E-27 139.5 10.5 79 35-114 3-81 (82)
11 PRK05583 ribosomal protein L7A 99.9 5E-23 1.1E-27 146.1 9.9 97 28-126 2-99 (104)
12 PF01248 Ribosomal_L7Ae: Ribos 99.9 5E-23 1.1E-27 142.1 8.8 92 29-120 1-92 (95)
13 PRK13601 putative L7Ae-like ri 99.9 4.8E-22 1.1E-26 135.7 9.6 76 41-117 6-81 (82)
14 KOG3387|consensus 99.9 1.6E-21 3.6E-26 141.6 11.3 125 13-137 4-131 (131)
15 PRK13600 putative ribosomal pr 99.9 5.2E-21 1.1E-25 131.2 9.5 72 42-114 12-83 (84)
16 PRK09190 hypothetical protein; 99.8 5.8E-19 1.3E-23 139.8 12.2 91 24-116 92-188 (220)
17 PTZ00222 60S ribosomal protein 99.8 1.1E-18 2.5E-23 140.0 13.7 102 15-117 94-206 (263)
18 PTZ00365 60S ribosomal protein 99.8 4.6E-18 9.9E-23 136.9 12.5 104 15-119 96-208 (266)
19 COG1911 RPL30 Ribosomal protei 99.8 6.9E-18 1.5E-22 117.7 9.8 93 30-123 6-99 (100)
20 KOG3406|consensus 99.7 2.3E-17 5E-22 119.9 11.2 106 24-129 15-132 (134)
21 KOG2988|consensus 99.0 2.9E-09 6.2E-14 76.0 7.6 93 31-124 14-107 (112)
22 PF08228 RNase_P_pop3: RNase P 98.1 4.7E-05 1E-09 57.9 9.9 107 20-127 21-146 (158)
23 KOG3166|consensus 97.6 7.2E-05 1.6E-09 59.0 4.1 42 44-85 110-151 (209)
24 PF08032 SpoU_sub_bind: RNA 2' 96.0 0.025 5.4E-07 36.5 5.7 61 44-106 1-62 (76)
25 PF03465 eRF1_3: eRF1 domain 3 96.0 0.022 4.7E-07 40.6 5.7 75 26-102 6-98 (113)
26 PF15608 PELOTA_1: PELOTA RNA 94.9 0.083 1.8E-06 37.4 5.5 60 34-95 25-89 (100)
27 PRK04011 peptide chain release 94.8 0.18 3.9E-06 43.5 8.2 70 34-103 286-397 (411)
28 TIGR03676 aRF1/eRF1 peptide ch 94.6 0.25 5.4E-06 42.6 8.7 68 39-106 284-392 (403)
29 TIGR00111 pelota probable tran 94.4 0.22 4.8E-06 42.0 7.9 63 40-102 274-337 (351)
30 TIGR00108 eRF peptide chain re 94.1 0.34 7.3E-06 41.8 8.5 64 39-102 288-392 (409)
31 PF10087 DUF2325: Uncharacteri 93.7 0.26 5.7E-06 33.7 5.8 44 58-101 47-92 (97)
32 PRK10864 putative methyltransf 91.7 2.8 6.1E-05 35.6 10.4 88 35-125 101-191 (346)
33 cd01422 MGS Methylglyoxal synt 88.6 1.2 2.6E-05 31.6 5.0 48 46-93 57-108 (115)
34 TIGR00186 rRNA_methyl_3 rRNA m 87.7 10 0.00022 30.1 10.2 77 44-125 3-81 (237)
35 PRK11181 23S rRNA (guanosine-2 87.1 5.7 0.00012 31.7 8.5 70 43-114 3-74 (244)
36 PF07997 DUF1694: Protein of u 86.6 3 6.5E-05 30.2 6.1 48 48-96 51-98 (120)
37 PLN02821 1-hydroxy-2-methyl-2- 86.2 2.5 5.5E-05 37.2 6.5 77 54-135 357-452 (460)
38 cd01020 TroA_b Metal binding p 85.9 7.3 0.00016 31.1 8.7 59 74-136 194-263 (264)
39 PF02142 MGS: MGS-like domain 85.2 1.3 2.9E-05 30.0 3.5 41 50-90 51-94 (95)
40 PRK05234 mgsA methylglyoxal sy 83.6 2.7 5.8E-05 31.1 4.8 56 47-102 63-123 (142)
41 PF03618 Kinase-PPPase: Kinase 83.0 9.5 0.00021 31.1 8.1 43 63-106 55-99 (255)
42 PF13727 CoA_binding_3: CoA-bi 82.4 1.9 4E-05 31.0 3.5 47 47-93 129-175 (175)
43 cd00532 MGS-like MGS-like doma 82.4 2.3 5E-05 29.7 3.9 46 47-92 55-105 (112)
44 PRK13371 4-hydroxy-3-methylbut 81.6 5 0.00011 34.7 6.3 80 52-135 281-378 (387)
45 PF02603 Hpr_kinase_N: HPr Ser 79.9 3.1 6.8E-05 29.9 3.9 41 50-93 72-112 (127)
46 COG0566 SpoU rRNA methylases [ 79.6 27 0.00059 28.2 9.7 70 43-115 22-92 (260)
47 KOG4175|consensus 79.1 32 0.0007 27.8 11.6 116 16-134 53-203 (268)
48 cd01483 E1_enzyme_family Super 77.0 5.5 0.00012 28.4 4.5 36 58-95 88-123 (143)
49 smart00851 MGS MGS-like domain 76.6 3.9 8.5E-05 27.2 3.4 45 46-90 42-89 (90)
50 PRK05562 precorrin-2 dehydroge 75.0 10 0.00023 30.2 5.9 72 59-134 85-165 (223)
51 PLN02591 tryptophan synthase 74.2 45 0.00097 26.9 12.2 117 16-134 37-186 (250)
52 cd01424 MGS_CPS_II Methylglyox 73.7 7.9 0.00017 26.6 4.5 45 47-91 55-100 (110)
53 COG1503 eRF1 Peptide chain rel 73.7 19 0.00042 31.4 7.6 68 41-108 293-400 (411)
54 PF07085 DRTGG: DRTGG domain; 72.6 6.7 0.00015 26.8 3.8 47 49-98 51-98 (105)
55 TIGR03025 EPS_sugtrans exopoly 72.5 12 0.00026 31.9 6.2 53 47-99 176-228 (445)
56 PF01297 TroA: Periplasmic sol 71.3 31 0.00067 27.0 7.9 67 69-136 183-256 (256)
57 TIGR03023 WcaJ_sugtrans Undeca 71.1 13 0.00029 31.7 6.2 53 47-99 179-231 (451)
58 COG1105 FruK Fructose-1-phosph 69.6 32 0.00069 28.9 7.9 80 18-106 106-197 (310)
59 COG1648 CysG Siroheme synthase 67.2 23 0.0005 27.8 6.3 56 60-119 73-132 (210)
60 PF13611 Peptidase_S76: Serine 67.2 11 0.00023 27.6 4.0 30 65-95 30-59 (121)
61 PF02421 FeoB_N: Ferrous iron 67.1 37 0.00079 25.5 7.1 73 52-128 71-156 (156)
62 cd03420 SirA_RHOD_Pry_redox Si 66.7 21 0.00045 22.7 5.0 39 51-92 16-56 (69)
63 PF13344 Hydrolase_6: Haloacid 65.9 16 0.00035 25.0 4.7 47 42-90 13-59 (101)
64 COG1537 PelA Predicted RNA-bin 65.8 22 0.00047 30.5 6.2 76 33-108 261-343 (352)
65 PRK09590 celB cellobiose phosp 65.1 12 0.00025 26.3 3.8 46 46-93 37-82 (104)
66 PF00009 GTP_EFTU: Elongation 64.0 11 0.00024 28.0 3.8 49 48-96 84-132 (188)
67 PF02401 LYTB: LytB protein; 63.8 83 0.0018 25.9 10.5 73 58-135 208-281 (281)
68 cd01485 E1-1_like Ubiquitin ac 63.6 12 0.00025 28.9 3.9 35 59-95 113-147 (198)
69 cd00757 ThiF_MoeB_HesA_family 63.5 12 0.00026 29.2 4.0 35 59-95 111-145 (228)
70 TIGR00679 hpr-ser Hpr(Ser) kin 62.2 29 0.00064 29.0 6.3 51 50-103 73-124 (304)
71 PRK01045 ispH 4-hydroxy-3-meth 62.0 92 0.002 25.9 9.2 72 59-135 210-282 (298)
72 PRK05339 PEP synthetase regula 61.6 36 0.00077 28.1 6.6 45 61-106 59-105 (269)
73 COG0796 MurI Glutamate racemas 61.1 63 0.0014 26.6 7.9 100 3-128 32-134 (269)
74 cd01492 Aos1_SUMO Ubiquitin ac 61.0 14 0.00031 28.3 4.0 35 59-95 110-144 (197)
75 COG0352 ThiE Thiamine monophos 60.9 41 0.00088 26.6 6.6 56 48-104 24-82 (211)
76 PRK10124 putative UDP-glucose 60.4 28 0.0006 30.3 6.1 53 47-99 191-243 (463)
77 cd01141 TroA_d Periplasmic bin 60.4 65 0.0014 23.6 7.5 71 50-135 60-140 (186)
78 PF15632 ATPgrasp_Ter: ATP-gra 59.4 24 0.00053 29.7 5.4 53 45-98 8-78 (329)
79 COG2099 CobK Precorrin-6x redu 59.2 26 0.00056 28.8 5.3 47 46-92 53-99 (257)
80 PRK12723 flagellar biosynthesi 59.1 1.2E+02 0.0025 26.2 9.7 59 59-117 206-264 (388)
81 PF00290 Trp_syntA: Tryptophan 59.1 97 0.0021 25.2 9.4 118 16-135 45-196 (259)
82 PRK08057 cobalt-precorrin-6x r 58.9 32 0.0007 27.7 5.8 53 40-93 47-99 (248)
83 COG1412 Uncharacterized protei 58.8 25 0.00054 26.1 4.8 73 15-95 38-126 (136)
84 PF07905 PucR: Purine cataboli 58.7 26 0.00056 24.7 4.8 40 56-96 70-109 (123)
85 TIGR03264 met_CoM_red_C methyl 58.6 45 0.00097 26.2 6.3 103 32-136 65-194 (194)
86 TIGR00160 MGSA methylglyoxal s 57.6 24 0.00052 26.5 4.5 60 41-103 56-122 (143)
87 PF02571 CbiJ: Precorrin-6x re 56.0 35 0.00075 27.5 5.6 47 47-93 54-100 (249)
88 cd00755 YgdL_like Family of ac 55.8 28 0.0006 27.7 4.9 39 54-94 97-135 (231)
89 TIGR00216 ispH_lytB (E)-4-hydr 55.5 90 0.0019 25.8 8.0 72 58-134 207-279 (280)
90 TIGR03022 WbaP_sugtrans Undeca 55.3 28 0.00062 29.8 5.3 54 46-99 175-229 (456)
91 cd01491 Ube1_repeat1 Ubiquitin 55.0 18 0.00039 29.9 3.8 41 59-101 105-145 (286)
92 PRK00299 sulfur transfer prote 55.0 41 0.00088 22.2 5.0 39 51-92 26-66 (81)
93 PF00899 ThiF: ThiF family; I 54.7 20 0.00043 25.4 3.6 42 49-94 84-125 (135)
94 PRK06628 lipid A biosynthesis 54.6 47 0.001 26.8 6.2 76 14-93 139-230 (290)
95 TIGR03772 anch_rpt_subst ancho 53.2 71 0.0015 28.3 7.5 87 45-136 374-478 (479)
96 PF11823 DUF3343: Protein of u 53.2 11 0.00025 24.2 2.0 41 62-105 4-44 (73)
97 TIGR00715 precor6x_red precorr 52.7 36 0.00078 27.5 5.2 47 47-93 53-99 (256)
98 TIGR01470 cysG_Nterm siroheme 52.6 46 0.001 25.8 5.6 38 59-99 69-106 (205)
99 cd01019 ZnuA Zinc binding prot 52.3 78 0.0017 25.5 7.2 67 68-135 211-285 (286)
100 cd01147 HemV-2 Metal binding p 52.2 84 0.0018 24.1 7.1 54 49-105 64-127 (262)
101 COG1168 MalY Bifunctional PLP- 52.1 40 0.00087 29.3 5.6 76 14-91 112-196 (388)
102 cd01018 ZntC Metal binding pro 52.0 38 0.00083 26.9 5.2 86 44-132 173-264 (266)
103 cd04165 GTPBP1_like GTPBP1-lik 51.7 29 0.00063 27.1 4.4 50 49-98 99-150 (224)
104 smart00685 DM14 Repeats in fly 51.6 10 0.00022 24.3 1.4 25 35-59 24-48 (59)
105 COG0159 TrpA Tryptophan syntha 51.1 1.4E+02 0.003 24.6 13.1 89 16-106 52-171 (265)
106 PRK05428 HPr kinase/phosphoryl 51.1 41 0.0009 28.2 5.4 42 49-93 72-113 (308)
107 PRK15116 sulfur acceptor prote 50.8 41 0.00088 27.5 5.3 37 55-93 117-153 (268)
108 TIGR00789 flhB_rel flhB C-term 50.6 27 0.00059 23.6 3.5 37 62-103 18-54 (82)
109 cd01017 AdcA Metal binding pro 50.2 81 0.0018 25.2 6.9 64 68-136 203-281 (282)
110 TIGR00461 gcvP glycine dehydro 50.0 1.3E+02 0.0028 29.1 9.0 71 57-134 150-221 (939)
111 cd04164 trmE TrmE (MnmE, ThdF, 50.0 80 0.0017 21.5 6.8 71 59-131 80-155 (157)
112 PRK12566 glycine dehydrogenase 49.8 1.4E+02 0.003 29.0 9.2 67 60-134 168-235 (954)
113 cd01857 HSR1_MMR1 HSR1/MMR1. 49.7 30 0.00065 24.5 3.9 50 49-98 3-54 (141)
114 PRK05690 molybdopterin biosynt 49.7 23 0.00051 28.1 3.6 34 59-94 122-155 (245)
115 TIGR03659 IsdE heme ABC transp 49.5 1E+02 0.0022 24.4 7.4 51 50-105 82-141 (289)
116 PF05621 TniB: Bacterial TniB 49.1 60 0.0013 27.2 6.1 75 26-100 111-194 (302)
117 PRK11018 hypothetical protein; 48.6 60 0.0013 21.2 4.9 39 51-92 25-65 (78)
118 cd01493 APPBP1_RUB Ubiquitin a 48.5 18 0.00038 31.5 2.9 39 60-100 113-151 (425)
119 COG1436 NtpG Archaeal/vacuolar 48.4 66 0.0014 22.7 5.4 45 49-94 36-81 (104)
120 cd03423 SirA SirA (also known 48.2 62 0.0013 20.4 4.9 39 51-92 16-56 (69)
121 COG3580 Uncharacterized protei 48.0 1.2E+02 0.0026 25.9 7.6 109 22-131 163-300 (351)
122 PRK12360 4-hydroxy-3-methylbut 47.9 1.6E+02 0.0034 24.3 8.9 73 58-135 208-281 (281)
123 PF13241 NAD_binding_7: Putati 47.9 23 0.0005 24.1 2.9 34 59-94 60-93 (103)
124 PRK00865 glutamate racemase; P 47.8 1.2E+02 0.0026 24.2 7.5 66 3-92 32-97 (261)
125 COG0050 TufB GTPases - transla 47.1 90 0.0019 26.8 6.8 46 47-93 84-134 (394)
126 PRK14722 flhF flagellar biosyn 46.8 1E+02 0.0022 26.4 7.3 46 58-103 166-211 (374)
127 TIGR00045 glycerate kinase. Th 46.7 1.3E+02 0.0028 25.9 7.9 52 42-93 262-322 (375)
128 cd03422 YedF YedF is a bacteri 46.7 74 0.0016 20.2 5.1 40 50-92 15-56 (69)
129 PF00391 PEP-utilizers: PEP-ut 46.6 46 0.001 21.7 4.2 18 76-93 43-60 (80)
130 cd01482 vWA_collagen_alphaI-XI 46.6 1.1E+02 0.0023 22.1 6.5 77 29-105 63-153 (164)
131 COG1707 ACT domain-containing 46.1 61 0.0013 25.4 5.2 47 46-92 124-174 (218)
132 PRK13111 trpA tryptophan synth 46.0 1.6E+02 0.0034 23.8 12.7 91 16-108 47-168 (258)
133 PF02844 GARS_N: Phosphoribosy 46.0 49 0.0011 23.2 4.4 39 48-89 51-89 (100)
134 TIGR00262 trpA tryptophan synt 46.0 1.6E+02 0.0034 23.7 13.5 116 16-134 45-195 (256)
135 PF04609 MCR_C: Methyl-coenzym 45.7 25 0.00054 29.0 3.2 63 32-95 103-165 (268)
136 PRK09545 znuA high-affinity zi 45.6 94 0.002 25.6 6.7 65 70-135 237-309 (311)
137 TIGR02356 adenyl_thiF thiazole 45.3 33 0.00071 26.3 3.7 35 58-94 110-144 (202)
138 PF00205 TPP_enzyme_M: Thiamin 45.3 14 0.00031 26.0 1.6 45 49-93 2-46 (137)
139 cd01821 Rhamnogalacturan_acety 45.2 58 0.0013 24.0 5.0 22 74-95 134-155 (198)
140 cd01143 YvrC Periplasmic bindi 44.8 1.2E+02 0.0026 22.0 7.2 52 49-105 50-111 (195)
141 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 44.5 1.1E+02 0.0024 21.5 7.0 74 59-132 74-163 (166)
142 TIGR00853 pts-lac PTS system, 44.4 33 0.00071 23.4 3.3 45 46-94 39-83 (95)
143 COG1493 HprK Serine kinase of 44.2 73 0.0016 26.9 5.8 50 48-100 70-120 (308)
144 TIGR02181 GRX_bact Glutaredoxi 44.0 80 0.0017 19.8 5.0 14 78-91 15-28 (79)
145 cd04142 RRP22 RRP22 subfamily. 43.6 1.2E+02 0.0025 22.9 6.6 74 59-132 80-173 (198)
146 COG0761 lytB 4-Hydroxy-3-methy 43.3 2E+02 0.0043 24.1 8.6 73 58-135 211-284 (294)
147 PF00462 Glutaredoxin: Glutare 42.9 72 0.0016 19.0 5.0 43 51-94 15-57 (60)
148 cd01017 AdcA Metal binding pro 42.8 67 0.0014 25.7 5.3 41 49-93 210-250 (282)
149 cd01879 FeoB Ferrous iron tran 42.6 1.1E+02 0.0024 21.0 7.5 45 54-98 69-113 (158)
150 cd07984 LPLAT_LABLAT-like Lyso 42.5 79 0.0017 23.1 5.4 85 46-136 78-177 (192)
151 COG2121 Uncharacterized protei 42.4 83 0.0018 25.2 5.6 118 12-133 56-204 (214)
152 cd01863 Rab18 Rab18 subfamily. 42.2 64 0.0014 22.5 4.7 73 59-131 72-160 (161)
153 cd01822 Lysophospholipase_L1_l 42.2 80 0.0017 22.4 5.2 45 48-92 90-141 (177)
154 COG4639 Predicted kinase [Gene 42.2 1.2E+02 0.0027 23.3 6.3 45 50-96 61-107 (168)
155 PRK06512 thiamine-phosphate py 41.9 1.2E+02 0.0025 23.9 6.5 55 50-105 31-89 (221)
156 COG1419 FlhF Flagellar GTP-bin 41.9 1E+02 0.0022 26.9 6.6 49 56-104 230-278 (407)
157 COG1803 MgsA Methylglyoxal syn 41.8 52 0.0011 24.5 4.1 59 46-106 62-127 (142)
158 PF02347 GDC-P: Glycine cleava 41.7 70 0.0015 28.1 5.6 73 57-134 151-224 (429)
159 TIGR02342 chap_CCT_delta T-com 41.7 67 0.0015 28.3 5.6 47 49-95 263-309 (517)
160 PRK06552 keto-hydroxyglutarate 41.7 59 0.0013 25.5 4.7 49 48-103 78-127 (213)
161 PF03279 Lip_A_acyltrans: Bact 41.6 1.3E+02 0.0027 24.0 6.8 84 48-136 181-279 (295)
162 cd01456 vWA_ywmD_type VWA ywmD 41.5 1.1E+02 0.0024 23.0 6.1 65 28-92 100-174 (206)
163 COG1363 FrvX Cellulase M and r 41.3 38 0.00082 29.0 3.8 54 62-116 256-318 (355)
164 cd04148 RGK RGK subfamily. Th 41.0 1.3E+02 0.0028 23.0 6.6 75 59-133 72-163 (221)
165 PRK08328 hypothetical protein; 41.0 46 0.00099 26.1 4.0 34 59-94 118-151 (231)
166 cd04127 Rab27A Rab27a subfamil 40.9 1.3E+02 0.0028 21.4 6.3 74 59-132 86-176 (180)
167 KOG2486|consensus 40.7 25 0.00054 29.6 2.5 42 56-97 216-259 (320)
168 TIGR03729 acc_ester putative p 40.6 94 0.002 24.0 5.7 45 49-93 22-68 (239)
169 TIGR00315 cdhB CO dehydrogenas 40.5 80 0.0017 23.9 5.1 45 49-93 18-62 (162)
170 PF00702 Hydrolase: haloacid d 40.4 1.2E+02 0.0027 22.0 6.2 69 43-117 127-205 (215)
171 TIGR02208 lipid_A_msbB lipid A 40.2 1.4E+02 0.0031 24.1 7.0 76 14-93 147-239 (305)
172 COG1880 CdhB CO dehydrogenase/ 39.3 80 0.0017 24.3 4.9 44 50-93 27-70 (170)
173 PRK00087 4-hydroxy-3-methylbut 39.0 3E+02 0.0065 25.1 9.4 73 58-135 205-278 (647)
174 PF07498 Rho_N: Rho terminatio 38.9 17 0.00037 21.3 1.0 27 74-100 6-32 (43)
175 cd03769 SR_IS607_transposase_l 38.8 83 0.0018 22.5 4.8 48 46-93 49-97 (134)
176 PF13407 Peripla_BP_4: Peripla 38.7 86 0.0019 23.6 5.2 73 21-95 6-89 (257)
177 cd03338 TCP1_delta TCP-1 (CTT 38.3 84 0.0018 27.5 5.6 46 49-94 262-307 (515)
178 cd01016 TroA Metal binding pro 38.3 74 0.0016 25.6 4.9 67 69-136 194-275 (276)
179 PF00578 AhpC-TSA: AhpC/TSA fa 38.2 98 0.0021 20.6 5.0 53 48-105 48-101 (124)
180 cd03770 SR_TndX_transposase Se 38.1 1.3E+02 0.0028 21.5 5.8 46 47-93 56-106 (140)
181 PF02037 SAP: SAP domain; Int 38.0 35 0.00075 19.0 2.2 23 74-98 5-27 (35)
182 cd01018 ZntC Metal binding pro 37.6 1.2E+02 0.0026 24.1 6.0 12 80-91 182-193 (266)
183 PRK00766 hypothetical protein; 37.6 62 0.0013 25.4 4.2 45 58-102 70-118 (194)
184 PRK00945 acetyl-CoA decarbonyl 37.6 95 0.0021 23.8 5.2 46 49-94 25-71 (171)
185 PF01976 DUF116: Protein of un 37.3 1.4E+02 0.003 22.4 6.0 59 31-92 75-136 (158)
186 COG0803 LraI ABC-type metal io 37.0 1.6E+02 0.0035 24.0 6.8 87 48-135 198-300 (303)
187 COG0800 Eda 2-keto-3-deoxy-6-p 36.7 29 0.00063 27.6 2.3 45 48-99 75-120 (211)
188 PTZ00369 Ras-like protein; Pro 36.6 1.6E+02 0.0035 21.5 6.2 74 59-132 76-166 (189)
189 cd03027 GRX_DEP Glutaredoxin ( 36.5 1.1E+02 0.0023 19.0 5.4 41 62-104 3-49 (73)
190 cd04724 Tryptophan_synthase_al 36.4 2.1E+02 0.0046 22.5 11.3 87 17-105 36-152 (242)
191 PF01206 TusA: Sulfurtransfera 36.3 93 0.002 19.3 4.3 40 50-92 16-57 (70)
192 PRK12475 thiamine/molybdopteri 36.1 59 0.0013 27.2 4.2 35 58-94 115-149 (338)
193 cd00338 Ser_Recombinase Serine 36.1 1.4E+02 0.0029 20.5 5.5 46 47-93 53-102 (137)
194 PRK07688 thiamine/molybdopteri 36.0 61 0.0013 27.2 4.2 39 59-99 116-154 (339)
195 PRK08943 lipid A biosynthesis 35.8 2.1E+02 0.0046 23.2 7.4 76 14-93 156-248 (314)
196 cd04176 Rap2 Rap2 subgroup. T 35.6 1.4E+02 0.003 20.8 5.6 14 85-98 105-118 (163)
197 TIGR02355 moeB molybdopterin s 35.6 51 0.0011 26.1 3.6 33 59-93 114-146 (240)
198 COG0403 GcvP Glycine cleavage 35.5 3E+02 0.0065 24.5 8.4 111 19-132 110-236 (450)
199 PRK05703 flhF flagellar biosyn 35.2 3E+02 0.0064 23.8 9.0 61 57-117 249-309 (424)
200 PLN02331 phosphoribosylglycina 35.1 96 0.0021 24.2 5.0 42 49-94 14-57 (207)
201 smart00173 RAS Ras subfamily o 35.0 1.6E+02 0.0034 20.5 6.5 53 81-133 100-162 (164)
202 KOG2016|consensus 35.0 37 0.0008 30.3 2.8 34 61-95 120-153 (523)
203 PRK07920 lipid A biosynthesis 34.9 1.1E+02 0.0025 24.6 5.6 75 14-93 133-228 (298)
204 PRK00124 hypothetical protein; 34.8 1.4E+02 0.0031 22.4 5.7 29 63-93 3-31 (151)
205 PRK15418 transcriptional regul 34.7 1.4E+02 0.003 24.8 6.1 61 22-82 30-105 (318)
206 cd01489 Uba2_SUMO Ubiquitin ac 34.7 68 0.0015 26.8 4.3 39 59-99 90-128 (312)
207 PF08862 DUF1829: Domain of un 34.7 55 0.0012 22.1 3.1 44 49-93 43-86 (88)
208 smart00857 Resolvase Resolvase 34.6 1.5E+02 0.0032 20.7 5.6 46 47-93 53-102 (148)
209 PF04900 Fcf1: Fcf1; InterPro 34.3 1.5E+02 0.0031 20.1 5.3 17 74-93 76-92 (101)
210 cd04136 Rap_like Rap-like subf 34.3 1.4E+02 0.0031 20.6 5.4 50 83-132 103-162 (163)
211 COG0541 Ffh Signal recognition 34.2 81 0.0017 28.0 4.8 41 53-93 122-162 (451)
212 PRK03379 vitamin B12-transport 34.1 2.3E+02 0.005 22.2 7.6 52 50-105 63-123 (260)
213 PRK10637 cysG siroheme synthas 33.9 1.1E+02 0.0024 26.5 5.7 38 59-99 72-109 (457)
214 PRK08419 lipid A biosynthesis 33.9 2.5E+02 0.0054 22.5 7.6 75 14-94 138-231 (298)
215 TIGR01689 EcbF-BcbF capsule bi 33.7 96 0.0021 22.4 4.5 18 74-91 65-82 (126)
216 COG0420 SbcD DNA repair exonuc 33.6 1.2E+02 0.0026 25.4 5.6 45 48-93 29-82 (390)
217 PF12687 DUF3801: Protein of u 33.6 1.8E+02 0.0039 22.7 6.3 61 27-95 4-64 (204)
218 PRK05646 lipid A biosynthesis 33.4 2.3E+02 0.005 23.0 7.2 74 15-93 148-240 (310)
219 cd01423 MGS_CPS_I_III Methylgl 33.2 35 0.00076 23.6 2.0 42 49-90 61-105 (116)
220 cd06312 PBP1_ABC_sugar_binding 33.2 1.4E+02 0.0029 22.8 5.6 42 50-93 48-89 (271)
221 COG4378 Uncharacterized protei 33.2 61 0.0013 22.8 3.1 36 59-94 44-79 (103)
222 PRK09932 glycerate kinase II; 33.2 2.8E+02 0.0061 24.0 7.8 52 42-93 263-323 (381)
223 PRK10957 iron-enterobactin tra 33.0 2.3E+02 0.0051 22.6 7.1 72 48-135 102-181 (317)
224 COG2257 Uncharacterized homolo 33.0 66 0.0014 22.4 3.3 34 58-94 20-53 (92)
225 KOG4201|consensus 32.7 1.1E+02 0.0024 25.0 5.0 59 46-105 147-206 (289)
226 PRK05906 lipid A biosynthesis 32.6 2.1E+02 0.0046 25.2 7.1 76 14-93 164-255 (454)
227 PF13768 VWA_3: von Willebrand 32.5 90 0.0019 22.1 4.2 77 5-83 40-120 (155)
228 cd03017 PRX_BCP Peroxiredoxin 32.5 1.6E+02 0.0036 20.0 5.7 49 53-106 51-100 (140)
229 cd04124 RabL2 RabL2 subfamily. 32.5 1.8E+02 0.0039 20.5 6.3 74 59-132 72-157 (161)
230 TIGR02634 xylF D-xylose ABC tr 32.1 1.5E+02 0.0032 23.5 5.7 42 50-93 45-86 (302)
231 cd04104 p47_IIGP_like p47 (47- 32.1 97 0.0021 23.2 4.5 41 58-98 79-119 (197)
232 PRK13109 flhB flagellar biosyn 32.1 58 0.0012 27.8 3.5 39 62-105 289-327 (358)
233 cd01484 E1-2_like Ubiquitin ac 32.1 70 0.0015 25.5 3.8 36 58-95 90-125 (234)
234 TIGR01182 eda Entner-Doudoroff 32.0 92 0.002 24.4 4.4 49 48-103 70-119 (204)
235 cd01894 EngA1 EngA1 subfamily. 31.8 98 0.0021 21.1 4.2 69 60-131 77-156 (157)
236 PRK06298 type III secretion sy 31.8 59 0.0013 27.7 3.5 39 62-105 281-319 (356)
237 PLN02161 beta-amylase 31.7 1.1E+02 0.0023 27.7 5.2 46 45-90 415-471 (531)
238 COG2229 Predicted GTPase [Gene 31.7 2.2E+02 0.0048 22.3 6.3 77 52-129 85-174 (187)
239 PRK09534 btuF corrinoid ABC tr 31.5 2.6E+02 0.0056 23.3 7.3 52 49-105 109-170 (359)
240 CHL00073 chlN photochlorophyll 31.5 1.1E+02 0.0023 27.1 5.1 43 51-93 89-135 (457)
241 KOG3432|consensus 31.4 55 0.0012 23.8 2.7 49 42-93 21-69 (121)
242 smart00187 INB Integrin beta s 31.0 2.1E+02 0.0046 25.1 6.8 102 28-133 187-339 (423)
243 TIGR02187 GlrX_arch Glutaredox 31.0 68 0.0015 24.6 3.5 103 2-105 79-185 (215)
244 cd03361 TOPRIM_TopoIA_RevGyr T 30.8 1.6E+02 0.0034 22.1 5.4 57 46-102 103-167 (170)
245 cd01537 PBP1_Repressors_Sugar_ 30.8 1.5E+02 0.0032 21.8 5.3 42 49-93 45-86 (264)
246 PRK12721 secretion system appa 30.8 63 0.0014 27.4 3.5 39 62-105 280-318 (349)
247 TIGR03499 FlhF flagellar biosy 30.8 2.4E+02 0.0053 22.7 6.8 47 58-104 223-269 (282)
248 PRK10342 glycerate kinase I; P 30.7 3.1E+02 0.0068 23.7 7.7 52 42-93 263-323 (381)
249 cd01028 TOPRIM_TopoIA TOPRIM_T 30.6 1.4E+02 0.0031 21.4 5.0 56 47-102 76-139 (142)
250 cd03418 GRX_GRXb_1_3_like Glut 30.5 1.3E+02 0.0028 18.3 5.4 17 76-92 14-30 (75)
251 PF02595 Gly_kinase: Glycerate 30.5 93 0.002 26.8 4.5 58 43-100 264-330 (377)
252 KOG3022|consensus 30.4 1.8E+02 0.004 24.4 6.0 53 79-135 241-294 (300)
253 PRK05367 glycine dehydrogenase 30.4 2.7E+02 0.0058 27.0 7.9 68 60-134 165-233 (954)
254 PF10686 DUF2493: Protein of u 30.3 1.6E+02 0.0034 19.1 5.5 44 49-93 21-64 (71)
255 cd04168 TetM_like Tet(M)-like 30.2 1.1E+02 0.0023 24.1 4.6 50 49-98 79-128 (237)
256 PF14367 DUF4411: Domain of un 30.2 60 0.0013 24.1 3.0 69 24-95 72-154 (162)
257 cd02968 SCO SCO (an acronym fo 30.0 1.5E+02 0.0033 20.3 4.9 47 58-105 58-108 (142)
258 cd04146 RERG_RasL11_like RERG/ 30.0 1.9E+02 0.0041 20.2 5.6 40 60-99 72-119 (165)
259 TIGR01404 FlhB_rel_III type II 29.9 66 0.0014 27.2 3.5 40 61-105 278-317 (342)
260 cd03339 TCP1_epsilon TCP-1 (CT 29.8 1.8E+02 0.0039 25.7 6.3 44 49-97 277-320 (526)
261 TIGR03594 GTPase_EngA ribosome 29.7 3.3E+02 0.0072 22.7 9.0 48 51-98 248-295 (429)
262 COG4087 Soluble P-type ATPase 29.6 2.5E+02 0.0054 21.2 6.3 48 40-93 27-74 (152)
263 cd06318 PBP1_ABC_sugar_binding 29.6 1.6E+02 0.0036 22.3 5.5 43 50-94 46-88 (282)
264 cd01139 TroA_f Periplasmic bin 29.6 2.9E+02 0.0062 22.3 7.1 55 51-105 83-148 (342)
265 cd06267 PBP1_LacI_sugar_bindin 29.6 1.8E+02 0.0038 21.4 5.5 41 50-94 46-86 (264)
266 TIGR02194 GlrX_NrdH Glutaredox 29.5 1.1E+02 0.0024 18.9 3.8 9 83-91 20-28 (72)
267 PF00875 DNA_photolyase: DNA p 29.4 83 0.0018 22.8 3.6 22 47-68 54-75 (165)
268 PLN00197 beta-amylase; Provisi 29.4 1.3E+02 0.0028 27.5 5.3 45 46-90 420-475 (573)
269 cd03028 GRX_PICOT_like Glutare 29.3 1.7E+02 0.0037 19.2 5.4 31 75-105 26-62 (90)
270 PRK01889 GTPase RsgA; Reviewed 29.3 70 0.0015 26.9 3.5 26 74-99 130-155 (356)
271 cd01539 PBP1_GGBP Periplasmic 29.2 1.9E+02 0.0041 22.8 5.9 42 50-93 48-89 (303)
272 PLN02721 threonine aldolase 29.2 1.5E+02 0.0033 23.6 5.4 34 59-92 137-177 (353)
273 PRK06153 hypothetical protein; 29.1 1.5E+02 0.0032 25.9 5.4 39 58-98 265-303 (393)
274 PRK11411 fecB iron-dicitrate t 29.0 3E+02 0.0064 21.9 7.1 66 50-134 92-168 (303)
275 cd06301 PBP1_rhizopine_binding 29.0 1.7E+02 0.0036 22.1 5.4 42 50-93 47-88 (272)
276 CHL00071 tufA elongation facto 28.9 2.4E+02 0.0053 23.9 6.8 49 49-97 90-139 (409)
277 PF01081 Aldolase: KDPG and KH 28.8 1.3E+02 0.0027 23.5 4.7 49 48-103 70-119 (196)
278 PLN03110 Rab GTPase; Provision 28.8 2.6E+02 0.0056 21.1 7.5 76 59-134 84-175 (216)
279 cd01137 PsaA Metal binding pro 28.7 2.1E+02 0.0046 23.0 6.2 94 42-136 177-286 (287)
280 COG1105 FruK Fructose-1-phosph 28.7 2.9E+02 0.0064 23.2 7.1 47 58-105 128-178 (310)
281 TIGR03603 cyclo_dehy_ocin bact 28.7 89 0.0019 26.0 4.0 35 58-92 150-184 (318)
282 PF04244 DPRP: Deoxyribodipyri 28.6 1E+02 0.0022 24.5 4.2 54 49-103 81-140 (224)
283 PLN02803 beta-amylase 28.6 1.4E+02 0.003 27.2 5.3 45 46-90 399-454 (548)
284 TIGR03013 EpsB_2 sugar transfe 28.6 1.6E+02 0.0035 25.2 5.7 51 48-98 175-225 (442)
285 cd06313 PBP1_ABC_sugar_binding 28.6 2.1E+02 0.0045 21.9 5.9 42 50-93 46-87 (272)
286 PLN02801 beta-amylase 28.5 1.4E+02 0.003 27.0 5.3 45 46-90 327-382 (517)
287 cd01875 RhoG RhoG subfamily. 28.5 1E+02 0.0022 22.9 4.0 43 58-100 73-121 (191)
288 PRK14723 flhF flagellar biosyn 28.4 2.6E+02 0.0057 26.5 7.3 61 57-117 213-273 (767)
289 PLN02828 formyltetrahydrofolat 28.3 1.1E+02 0.0024 25.0 4.5 49 44-93 76-130 (268)
290 cd06300 PBP1_ABC_sugar_binding 28.2 1.9E+02 0.0041 21.9 5.6 42 50-93 51-92 (272)
291 TIGR01460 HAD-SF-IIA Haloacid 28.1 1.5E+02 0.0032 23.0 5.0 47 41-88 12-58 (236)
292 cd03421 SirA_like_N SirA_like_ 28.1 1.5E+02 0.0032 18.3 4.2 27 61-90 27-53 (67)
293 COG1535 EntB Isochorismate hyd 28.0 56 0.0012 25.9 2.5 18 75-92 60-77 (218)
294 cd01391 Periplasmic_Binding_Pr 27.9 1.9E+02 0.0042 20.7 5.4 42 50-94 49-90 (269)
295 cd04119 RJL RJL (RabJ-Like) su 27.8 2.1E+02 0.0044 19.7 6.2 74 59-132 72-166 (168)
296 cd01862 Rab7 Rab7 subfamily. 27.8 2.1E+02 0.0046 19.8 6.6 47 86-132 109-166 (172)
297 cd04175 Rap1 Rap1 subgroup. T 27.6 1.3E+02 0.0029 21.0 4.3 52 82-133 102-163 (164)
298 COG3383 Uncharacterized anaero 27.6 94 0.002 29.8 4.2 55 11-66 601-655 (978)
299 PRK00098 GTPase RsgA; Reviewed 27.6 93 0.002 25.3 3.9 41 59-99 80-124 (298)
300 PRK06015 keto-hydroxyglutarate 27.5 91 0.002 24.4 3.7 55 41-102 53-114 (201)
301 PRK06027 purU formyltetrahydro 27.5 1.5E+02 0.0032 24.3 5.1 44 44-93 95-144 (286)
302 PF03979 Sigma70_r1_1: Sigma-7 27.4 1.8E+02 0.004 19.0 5.2 55 25-91 3-57 (82)
303 PRK09108 type III secretion sy 27.4 77 0.0017 26.9 3.5 37 62-103 282-318 (353)
304 PF01751 Toprim: Toprim domain 27.4 1E+02 0.0022 20.6 3.5 38 49-86 47-88 (100)
305 cd05564 PTS_IIB_chitobiose_lic 27.4 87 0.0019 21.2 3.2 46 45-94 34-79 (96)
306 smart00513 SAP Putative DNA-bi 27.3 75 0.0016 17.4 2.4 24 74-99 5-28 (35)
307 PRK02627 acetylornithine amino 27.3 1.1E+02 0.0023 25.1 4.3 43 57-99 180-229 (396)
308 cd01487 E1_ThiF_like E1_ThiF_l 27.3 1.1E+02 0.0024 22.8 4.0 33 59-93 88-121 (174)
309 cd04112 Rab26 Rab26 subfamily. 27.3 2.5E+02 0.0054 20.5 6.5 74 59-133 73-163 (191)
310 cd04501 SGNH_hydrolase_like_4 27.3 1E+02 0.0022 22.2 3.8 21 74-94 126-146 (183)
311 PF14639 YqgF: Holliday-juncti 27.2 1.3E+02 0.0029 22.3 4.4 36 50-85 54-90 (150)
312 PRK08156 type III secretion sy 27.2 80 0.0017 27.0 3.5 38 63-105 276-313 (361)
313 PRK13010 purU formyltetrahydro 27.1 1.5E+02 0.0032 24.4 5.0 44 44-93 99-148 (289)
314 cd04114 Rab30 Rab30 subfamily. 27.1 2.2E+02 0.0048 19.8 5.8 48 84-131 110-167 (169)
315 PRK06995 flhF flagellar biosyn 27.0 3.9E+02 0.0084 23.8 7.9 44 57-100 284-327 (484)
316 PF08534 Redoxin: Redoxin; In 27.0 2.2E+02 0.0047 19.7 6.7 51 50-105 53-104 (146)
317 TIGR00437 feoB ferrous iron tr 26.9 3.8E+02 0.0082 24.2 7.9 76 55-130 68-152 (591)
318 PF04414 tRNA_deacylase: D-ami 26.8 1.4E+02 0.003 23.7 4.6 44 47-90 169-212 (213)
319 PRK08905 lipid A biosynthesis 26.5 3.4E+02 0.0074 21.8 8.6 54 14-71 125-182 (289)
320 TIGR00655 PurU formyltetrahydr 26.5 1.4E+02 0.003 24.4 4.7 45 44-94 90-140 (280)
321 PF07287 DUF1446: Protein of u 26.5 3.4E+02 0.0074 23.2 7.2 46 44-89 56-101 (362)
322 cd01892 Miro2 Miro2 subfamily. 26.4 83 0.0018 22.7 3.1 42 58-99 76-121 (169)
323 PRK05645 lipid A biosynthesis 26.4 3.4E+02 0.0073 21.7 7.3 111 16-135 138-269 (295)
324 cd01884 EF_Tu EF-Tu subfamily. 26.4 1.3E+02 0.0028 22.8 4.3 44 49-92 80-124 (195)
325 cd04138 H_N_K_Ras_like H-Ras/N 26.3 2.2E+02 0.0047 19.4 6.3 56 77-132 97-161 (162)
326 cd04188 DPG_synthase DPG_synth 26.3 2.6E+02 0.0057 20.4 6.2 41 59-100 30-70 (211)
327 KOG1468|consensus 26.3 1.4E+02 0.0031 25.3 4.7 58 48-105 222-288 (354)
328 PRK08734 lipid A biosynthesis 26.2 3.5E+02 0.0077 21.9 7.7 74 14-93 137-230 (305)
329 PRK05647 purN phosphoribosylgl 26.2 1.8E+02 0.0038 22.5 5.1 42 48-93 15-58 (200)
330 PRK02842 light-independent pro 26.2 1.4E+02 0.003 25.6 4.9 36 58-93 96-136 (427)
331 cd04102 RabL3 RabL3 (Rab-like3 26.2 67 0.0014 24.7 2.7 42 58-99 76-142 (202)
332 cd04169 RF3 RF3 subfamily. Pe 26.1 1.4E+02 0.003 24.0 4.6 48 50-97 87-134 (267)
333 PF01497 Peripla_BP_2: Peripla 26.0 2.8E+02 0.006 20.6 6.3 50 52-105 53-112 (238)
334 PF10281 Ish1: Putative stress 26.0 58 0.0012 18.4 1.7 27 76-102 7-34 (38)
335 PRK09437 bcp thioredoxin-depen 25.7 2.4E+02 0.0053 19.8 7.0 50 51-105 56-106 (154)
336 TIGR00328 flhB flagellar biosy 25.7 88 0.0019 26.5 3.5 39 62-105 280-318 (347)
337 TIGR02339 thermosome_arch ther 25.7 2.2E+02 0.0047 25.0 6.1 44 49-97 272-315 (519)
338 COG1377 FlhB Flagellar biosynt 25.6 86 0.0019 27.0 3.4 39 62-105 287-325 (363)
339 COG4422 Bacteriophage protein 25.4 55 0.0012 26.1 2.1 32 59-91 183-221 (250)
340 PRK03244 argD acetylornithine 25.4 1.3E+02 0.0028 24.8 4.5 36 58-93 182-224 (398)
341 TIGR02343 chap_CCT_epsi T-comp 25.4 2.1E+02 0.0045 25.4 5.9 43 49-96 281-323 (532)
342 TIGR00035 asp_race aspartate r 25.4 1.5E+02 0.0032 23.0 4.5 51 44-98 60-112 (229)
343 COG1440 CelA Phosphotransferas 25.3 1.2E+02 0.0027 21.5 3.6 45 46-94 37-81 (102)
344 cd01460 vWA_midasin VWA_Midasi 25.3 1.3E+02 0.0029 24.5 4.4 86 5-92 104-200 (266)
345 PF07894 DUF1669: Protein of u 25.2 2.3E+02 0.0049 23.6 5.7 52 47-99 134-187 (284)
346 PF04705 TSNR_N: Thiostrepton- 25.2 65 0.0014 23.1 2.2 63 30-94 17-81 (115)
347 cd06295 PBP1_CelR Ligand bindi 25.0 2.5E+02 0.0054 21.2 5.7 40 49-93 54-94 (275)
348 PRK10867 signal recognition pa 25.0 3E+02 0.0064 24.1 6.7 35 59-93 129-163 (433)
349 PTZ00125 ornithine aminotransf 24.7 1.3E+02 0.0028 24.8 4.3 44 50-93 169-219 (400)
350 PRK09792 4-aminobutyrate trans 24.7 1.5E+02 0.0033 25.1 4.8 36 58-93 197-239 (421)
351 cd00378 SHMT Serine-glycine hy 24.6 1.3E+02 0.0029 24.7 4.4 46 48-93 150-196 (402)
352 PRK12468 flhB flagellar biosyn 24.5 94 0.002 26.8 3.5 39 62-105 287-325 (386)
353 PRK10444 UMP phosphatase; Prov 24.5 1.5E+02 0.0034 23.4 4.6 45 42-88 16-60 (248)
354 cd04147 Ras_dva Ras-dva subfam 24.4 2.9E+02 0.0064 20.3 6.1 76 58-133 69-163 (198)
355 PLN02645 phosphoglycolate phos 24.3 1.6E+02 0.0035 24.0 4.7 46 42-89 43-88 (311)
356 cd04116 Rab9 Rab9 subfamily. 24.3 2.6E+02 0.0056 19.6 5.6 46 85-131 113-169 (170)
357 PRK13011 formyltetrahydrofolat 24.2 2E+02 0.0043 23.6 5.2 63 24-92 63-143 (286)
358 COG0425 SirA Predicted redox p 24.2 1.1E+02 0.0024 20.2 3.1 37 52-92 26-63 (78)
359 TIGR01917 gly_red_sel_B glycin 24.2 2.8E+02 0.0061 24.5 6.3 69 49-117 326-395 (431)
360 cd01825 SGNH_hydrolase_peri1 S 24.1 2.4E+02 0.0051 20.1 5.2 21 73-93 124-144 (189)
361 cd06378 PBP1_iGluR_NMDA_NR2 N- 24.0 1.1E+02 0.0023 25.6 3.7 45 49-93 52-96 (362)
362 PRK09545 znuA high-affinity zi 23.8 2E+02 0.0043 23.6 5.2 41 48-92 241-281 (311)
363 cd04144 Ras2 Ras2 subfamily. 23.8 2.9E+02 0.0064 20.1 6.0 49 85-133 105-163 (190)
364 PLN03199 delta6-acyl-lipid des 23.8 48 0.0011 29.2 1.7 20 74-93 436-455 (485)
365 PRK08762 molybdopterin biosynt 23.8 99 0.0021 26.0 3.5 35 59-95 225-259 (376)
366 cd01474 vWA_ATR ATR (Anthrax T 23.6 3E+02 0.0065 20.1 7.1 69 60-131 104-180 (185)
367 PF13361 UvrD_C: UvrD-like hel 23.5 1.5E+02 0.0032 23.1 4.3 33 59-94 77-109 (351)
368 cd05017 SIS_PGI_PMI_1 The memb 23.5 2E+02 0.0043 19.7 4.5 43 62-105 47-89 (119)
369 cd04101 RabL4 RabL4 (Rab-like4 23.5 2.6E+02 0.0056 19.3 6.1 74 59-132 75-163 (164)
370 cd06299 PBP1_LacI_like_13 Liga 23.5 2.5E+02 0.0055 20.9 5.5 40 51-94 47-86 (265)
371 cd01540 PBP1_arabinose_binding 23.5 2.4E+02 0.0051 21.6 5.4 36 55-93 50-86 (289)
372 cd01867 Rab8_Rab10_Rab13_like 23.5 2.7E+02 0.0059 19.6 6.1 75 59-133 75-165 (167)
373 PRK10200 putative racemase; Pr 23.5 1.5E+02 0.0032 23.3 4.3 45 44-92 60-104 (230)
374 PLN00144 acetylornithine trans 23.4 1.3E+02 0.0028 25.2 4.1 42 52-93 160-208 (382)
375 cd06282 PBP1_GntR_like_2 Ligan 23.4 2.5E+02 0.0055 20.8 5.4 41 50-93 46-86 (266)
376 COG1086 Predicted nucleoside-d 23.3 2.9E+02 0.0063 25.4 6.4 58 42-100 160-218 (588)
377 cd05565 PTS_IIB_lactose PTS_II 23.3 2.6E+02 0.0056 19.3 5.5 62 25-93 14-79 (99)
378 cd06292 PBP1_LacI_like_10 Liga 23.3 2.5E+02 0.0055 21.1 5.5 45 50-94 46-91 (273)
379 PRK11889 flhF flagellar biosyn 23.3 5.3E+02 0.011 22.9 10.1 86 47-132 253-346 (436)
380 PRK06943 adenosylmethionine--8 23.1 1.7E+02 0.0037 25.3 4.9 36 58-93 220-263 (453)
381 cd06423 CESA_like CESA_like is 23.1 1.9E+02 0.0041 19.2 4.3 51 49-100 13-66 (180)
382 PRK10128 2-keto-3-deoxy-L-rham 23.1 2.3E+02 0.005 23.0 5.4 46 24-70 192-241 (267)
383 PRK09295 bifunctional cysteine 23.0 4.3E+02 0.0094 21.8 7.8 64 44-108 90-167 (406)
384 PF00218 IGPS: Indole-3-glycer 23.0 3.8E+02 0.0083 21.7 6.6 63 44-107 117-180 (254)
385 cd07396 MPP_Nbla03831 Homo sap 23.0 1.7E+02 0.0037 23.1 4.5 49 49-97 30-84 (267)
386 PLN02705 beta-amylase 23.0 2E+02 0.0043 26.8 5.3 45 46-90 557-613 (681)
387 COG0614 FepB ABC-type Fe3+-hyd 22.9 3.1E+02 0.0067 21.4 6.0 66 52-135 108-182 (319)
388 PRK05702 flhB flagellar biosyn 22.8 1.1E+02 0.0023 26.2 3.5 39 62-105 287-325 (359)
389 cd06322 PBP1_ABC_sugar_binding 22.7 2.8E+02 0.0061 20.8 5.6 44 49-94 45-88 (267)
390 PF01726 LexA_DNA_bind: LexA D 22.7 1.2E+02 0.0026 19.2 3.0 29 73-105 10-38 (65)
391 PRK08706 lipid A biosynthesis 22.5 4E+02 0.0087 21.2 8.4 113 14-135 130-263 (289)
392 PRK10638 glutaredoxin 3; Provi 22.4 2.2E+02 0.0047 18.1 5.1 42 62-105 4-51 (83)
393 PRK08248 O-acetylhomoserine am 22.3 5E+02 0.011 22.3 8.3 82 25-108 67-152 (431)
394 cd06310 PBP1_ABC_sugar_binding 22.3 2.8E+02 0.0061 20.8 5.6 40 52-93 50-89 (273)
395 PF07505 Gp37_Gp68: Phage prot 22.2 1E+02 0.0022 25.2 3.1 65 26-93 152-228 (261)
396 cd04117 Rab15 Rab15 subfamily. 22.0 96 0.0021 22.0 2.7 42 59-100 72-119 (161)
397 cd01895 EngA2 EngA2 subfamily. 21.9 2.5E+02 0.0053 19.2 4.8 41 59-99 84-126 (174)
398 cd06281 PBP1_LacI_like_5 Ligan 21.9 2.5E+02 0.0055 21.2 5.2 42 49-93 45-86 (269)
399 cd04185 GT_2_like_b Subfamily 21.9 2.7E+02 0.0057 20.1 5.2 44 48-92 12-58 (202)
400 PF05343 Peptidase_M42: M42 gl 21.9 2.1E+02 0.0046 23.4 5.0 45 73-117 224-273 (292)
401 cd06308 PBP1_sensor_kinase_lik 21.9 2.7E+02 0.0058 21.0 5.4 41 52-94 49-89 (270)
402 cd02970 PRX_like2 Peroxiredoxi 21.8 2.7E+02 0.0059 19.0 5.8 50 51-105 49-99 (149)
403 cd02958 UAS UAS family; UAS is 21.8 2.6E+02 0.0057 18.8 5.8 43 48-94 42-84 (114)
404 cd01885 EF2 EF2 (for archaea a 21.6 1.9E+02 0.004 22.6 4.5 50 49-98 88-137 (222)
405 TIGR01295 PedC_BrcD bacterioci 21.5 2.7E+02 0.0058 19.5 4.9 53 42-94 7-61 (122)
406 cd04118 Rab24 Rab24 subfamily. 21.5 3.2E+02 0.007 19.7 6.6 75 59-133 73-166 (193)
407 PLN02905 beta-amylase 21.4 2.1E+02 0.0045 26.8 5.2 45 46-90 575-633 (702)
408 cd03363 TOPRIM_TopoIA_TopoI TO 21.4 3E+02 0.0066 19.4 5.9 44 58-102 71-120 (123)
409 CHL00200 trpA tryptophan synth 21.4 4.4E+02 0.0096 21.3 12.0 117 16-134 50-199 (263)
410 TIGR01456 CECR5 HAD-superfamil 21.3 1.9E+02 0.0041 23.7 4.6 48 41-89 14-65 (321)
411 TIGR00067 glut_race glutamate 21.3 2.6E+02 0.0057 22.2 5.3 74 3-100 25-101 (251)
412 TIGR00385 dsbE periplasmic pro 21.2 3.3E+02 0.0071 19.9 5.6 49 53-105 86-136 (173)
413 PF03446 NAD_binding_2: NAD bi 21.2 2.3E+02 0.005 20.5 4.7 46 47-93 67-119 (163)
414 PRK12772 bifunctional flagella 21.2 1.1E+02 0.0025 27.8 3.5 40 61-105 542-581 (609)
415 PRK06718 precorrin-2 dehydroge 21.0 2.1E+02 0.0046 21.9 4.6 39 58-100 69-107 (202)
416 KOG0368|consensus 21.0 1.2E+02 0.0026 31.4 3.8 46 60-105 1546-1602(2196)
417 cd01832 SGNH_hydrolase_like_1 20.9 3.1E+02 0.0068 19.5 5.3 22 74-95 133-154 (185)
418 TIGR01544 HAD-SF-IE haloacid d 20.8 2E+02 0.0043 23.7 4.6 26 44-69 122-147 (277)
419 PRK12773 flhB flagellar biosyn 20.8 1.2E+02 0.0025 28.2 3.5 39 62-105 579-617 (646)
420 cd01019 ZnuA Zinc binding prot 20.7 2.5E+02 0.0055 22.6 5.2 40 49-92 218-257 (286)
421 cd04143 Rhes_like Rhes_like su 20.7 4.2E+02 0.0092 20.8 6.6 47 85-131 112-169 (247)
422 cd07388 MPP_Tt1561 Thermus the 20.7 2.8E+02 0.006 21.9 5.3 43 51-93 23-69 (224)
423 PF01990 ATP-synt_F: ATP synth 20.6 1.9E+02 0.0041 19.3 3.8 38 56-94 39-77 (95)
424 cd04139 RalA_RalB RalA/RalB su 20.6 2.9E+02 0.0063 18.8 7.0 60 74-133 93-162 (164)
425 PRK07114 keto-hydroxyglutarate 20.6 2.4E+02 0.0052 22.4 4.9 49 48-103 81-130 (222)
426 cd06294 PBP1_ycjW_transcriptio 20.5 3E+02 0.0066 20.5 5.4 41 49-94 50-91 (270)
427 PRK02936 argD acetylornithine 20.5 2.1E+02 0.0046 23.3 4.8 34 58-92 166-207 (377)
428 PRK05597 molybdopterin biosynt 20.5 1.4E+02 0.0031 25.0 3.8 33 59-93 118-150 (355)
429 cd06392 PBP1_iGluR_delta_1 N-t 20.5 2.1E+02 0.0045 24.5 4.8 42 47-92 51-92 (400)
430 PRK01395 V-type ATP synthase s 20.5 1.8E+02 0.0038 20.3 3.7 32 57-90 43-74 (104)
431 TIGR01664 DNA-3'-Pase DNA 3'-p 20.4 3.6E+02 0.0078 19.8 5.9 45 45-89 44-95 (166)
432 TIGR01458 HAD-SF-IIA-hyp3 HAD- 20.4 2.4E+02 0.0053 22.2 5.0 43 44-88 22-64 (257)
433 PRK09331 Sep-tRNA:Cys-tRNA syn 20.4 2E+02 0.0043 23.9 4.6 43 48-91 141-193 (387)
434 cd04107 Rab32_Rab38 Rab38/Rab3 20.4 3.6E+02 0.0078 19.8 6.8 74 59-133 73-168 (201)
435 PRK13225 phosphoglycolate phos 20.3 3.8E+02 0.0082 21.5 6.1 27 42-68 141-167 (273)
436 PRK11183 D-lactate dehydrogena 20.3 2.1E+02 0.0046 26.1 5.0 59 41-102 15-79 (564)
437 cd06320 PBP1_allose_binding Pe 20.3 3.1E+02 0.0068 20.7 5.4 41 52-94 50-90 (275)
438 cd06321 PBP1_ABC_sugar_binding 20.2 3.3E+02 0.0073 20.5 5.6 43 50-94 48-90 (271)
439 cd01859 MJ1464 MJ1464. This f 20.2 2.2E+02 0.0047 20.1 4.3 48 50-98 4-53 (156)
440 PF05159 Capsule_synth: Capsul 20.2 1.6E+02 0.0035 23.1 3.9 30 63-94 3-32 (269)
441 cd01856 YlqF YlqF. Proteins o 20.2 90 0.002 22.7 2.3 54 43-98 5-58 (171)
442 COG1445 FrwB Phosphotransferas 20.2 68 0.0015 23.5 1.5 46 46-99 43-89 (122)
443 cd01891 TypA_BipA TypA (tyrosi 20.1 2.1E+02 0.0046 20.9 4.4 22 77-98 108-129 (194)
444 PF08134 cIII: cIII protein fa 20.1 1.2E+02 0.0026 18.1 2.3 24 17-41 13-36 (44)
445 TIGR03106 trio_M42_hydro hydro 20.0 2.7E+02 0.0058 23.3 5.3 21 70-91 265-285 (343)
No 1
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=99.96 E-value=9.6e-29 Score=178.56 Aligned_cols=116 Identities=34% Similarity=0.645 Sum_probs=105.2
Q ss_pred cccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHH
Q psy1295 17 PKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQ 96 (137)
Q Consensus 17 ~~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~ 96 (137)
|..+|.++. ++++++++|++|+++|++++|.++|+++|++|++++||+|+|++|++++++++.+|++++|||++++|+.
T Consensus 1 ~~~~~~~~~-l~~ki~~lL~la~ragkl~~G~~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~~sk~ 79 (117)
T TIGR03677 1 YVKFEVPEE-LANKALEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYVKKKE 79 (117)
T ss_pred CCCCcCcHH-HHHHHHHHHHHHHHcCCEeEcHHHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEeCCHH
Confidence 457888666 9999999999999999999999999999999999999999999997689999999999999999999999
Q ss_pred HHHHHhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHHh
Q psy1295 97 ALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 97 eLG~a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~~ 135 (137)
+||++||+++++++++|.+ .+....+++++..+|++|
T Consensus 80 eLG~a~Gk~~~~svvaI~d--~g~a~~~~~~~~~~i~~~ 116 (117)
T TIGR03677 80 DLGAAAGLEVGAASAAIVD--EGKAEELLKEIIEKVEAL 116 (117)
T ss_pred HHHHHhCCCCCeEEEEEEc--hhhhHHHHHHHHHHHHhc
Confidence 9999999987777767654 456677899999999886
No 2
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=99.96 E-value=3.4e-28 Score=176.95 Aligned_cols=117 Identities=36% Similarity=0.653 Sum_probs=103.9
Q ss_pred cccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHH
Q psy1295 17 PKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQ 96 (137)
Q Consensus 17 ~~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~ 96 (137)
|..+|. .++++++++++|+.|+++|++++|.++|+++|++|++++||+|+|++|.+++++++.+|++++|||++++|++
T Consensus 5 ~~~~~~-~~~l~~ki~~lL~la~ragklv~G~~~v~kaikkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk~ 83 (122)
T PRK04175 5 YVKFEV-PEELAEKALEAVEKARDTGKIKKGTNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKK 83 (122)
T ss_pred cccCCC-CHHHHHHHHHHHHHHHHcCCEeEcHHHHHHHHHcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCHH
Confidence 444555 5569999999999999999999999999999999999999999999997678999999999999999999999
Q ss_pred HHHHHhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHHhh
Q psy1295 97 ALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERLL 136 (137)
Q Consensus 97 eLG~a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~~~ 136 (137)
+||+|||+++++++++|.+ .+....+++++..+|++|.
T Consensus 84 eLG~a~Gk~~~~svvaI~d--~g~a~~~~~~~~~~i~~~~ 121 (122)
T PRK04175 84 DLGKAAGLEVGAAAAAIVD--AGKAKELVEDIVEKVNELK 121 (122)
T ss_pred HHHHHhCCCCCeEEEEEec--hhhhHHHHHHHHHHHHHhh
Confidence 9999999998777666665 4566778999999998873
No 3
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=3e-26 Score=165.52 Aligned_cols=113 Identities=41% Similarity=0.650 Sum_probs=97.2
Q ss_pred ccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHH
Q psy1295 18 KAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQA 97 (137)
Q Consensus 18 ~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~e 97 (137)
...|+++.++.++++++++.|.++|++++|.++++|+|++|+++|||||+|++|.++..|++.+|++++|||++++|+.+
T Consensus 2 ~~~~~~~~~~~~k~l~~l~~a~~~~ki~~G~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V~sk~~ 81 (116)
T COG1358 2 YAKPLAPEMLEQKALSLLGKASRAGKLKKGTNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSKKE 81 (116)
T ss_pred CCcccCcHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEeCCHHH
Confidence 35688999999999999999999999999999999999999999999999999888999999999999999999999999
Q ss_pred HHHHhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHH
Q psy1295 98 LGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIER 134 (137)
Q Consensus 98 LG~a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~ 134 (137)
||+|+|++.+.+++++..+.. +.++++..++++
T Consensus 82 LG~a~g~~~~~vv~i~~~~~~----~~~~~l~~~~~~ 114 (116)
T COG1358 82 LGKAVGKEVRKVVAIVDKGFA----KKLEDLVEKVEE 114 (116)
T ss_pred HHHHhCCCcceeEEEeehhhh----hHHHHHHHHhhh
Confidence 999999996554444444433 445555555544
No 4
>KOG3167|consensus
Probab=99.94 E-value=1.2e-26 Score=170.75 Aligned_cols=124 Identities=40% Similarity=0.662 Sum_probs=116.4
Q ss_pred CCCCCCcccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEE
Q psy1295 11 EEPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 11 ~~~~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i 90 (137)
-++.++||+.|+|...+++++++++++|.+.++|..|.++|.|.+++|+-.++|+|.|++|.|+..|++.+|+++||||+
T Consensus 27 ~l~~~~PIAkPLA~kkl~kk~~KlvkKa~k~k~lrrGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYv 106 (153)
T KOG3167|consen 27 LLIAVNPIAKPLASKKLAKKVYKLVKKAAKQKGLRRGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYV 106 (153)
T ss_pred HHHhhcccccccccHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCcc
Confidence 36789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeCCHHHHHHHhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHHhh
Q psy1295 91 FVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERLL 136 (137)
Q Consensus 91 ~~~tk~eLG~a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~~~ 136 (137)
+++++++||.+.|.+++.. .+.+..++++++.+||+.++++.|-
T Consensus 107 y~psk~dlg~A~~~krpt~--~v~v~p~~eyke~ydev~eel~~l~ 150 (153)
T KOG3167|consen 107 YTPSKEDLGAAGGTKRPTC--CVFVKPGGEYKELYDEVLEELEALA 150 (153)
T ss_pred ccccHHHHHHhcCCCCCce--EEEEeeChhHHHHHHHHHHHHHhhc
Confidence 9999999999999999975 4556666799999999999998763
No 5
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=99.91 E-value=4.6e-24 Score=152.39 Aligned_cols=96 Identities=17% Similarity=0.247 Sum_probs=87.5
Q ss_pred HHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEE-eCCHHHHHHHhCCCc
Q psy1295 28 TTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVF-VRSKQALGRACGVSR 106 (137)
Q Consensus 28 ~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~-~~tk~eLG~a~G~~~ 106 (137)
...+.++|++|+|+|+++.|.++|.++|++|++++||+|+|++++ +++++..+|+.++||++. .+|+.|||++||+++
T Consensus 10 ~~~i~~~Lgla~raGKlv~G~~~vlkalk~gkaklViiA~D~~~~-~kkki~~~~~~~~Vpv~~~~~t~~eLG~A~Gk~~ 88 (108)
T PTZ00106 10 QESINSKLQLVMKSGKYTLGTKSTLKALRNGKAKLVIISNNCPPI-RRSEIEYYAMLSKTGVHHYAGNNNDLGTACGRHF 88 (108)
T ss_pred HhhHHHHHHHHHHhCCeeecHHHHHHHHHcCCeeEEEEeCCCCHH-HHHHHHHHHhhcCCCEEEeCCCHHHHHHHhCCcc
Confidence 345899999999999999999999999999999999999999997 999999999999999985 599999999999999
Q ss_pred ceEEEEEEeCCCCChHHH
Q psy1295 107 PIIACSVTVDEGSQLKPQ 124 (137)
Q Consensus 107 ~v~~~ai~~~~~s~~~~~ 124 (137)
++++++|.+.+.+++.+.
T Consensus 89 r~svvaI~D~G~a~~l~~ 106 (108)
T PTZ00106 89 RVSVMSITDAGDSDILRA 106 (108)
T ss_pred CeEEEEEeCcchHHHHhh
Confidence 998788887777666543
No 6
>PRK07714 hypothetical protein; Provisional
Probab=99.91 E-value=8.9e-24 Score=148.54 Aligned_cols=87 Identities=22% Similarity=0.292 Sum_probs=80.7
Q ss_pred HHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcc
Q psy1295 28 TTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRP 107 (137)
Q Consensus 28 ~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~ 107 (137)
+++++++|++|+|+|+++.|.++|.+++++|++++||+|+|++|+ +++++..+|+.++||+++++|++|||++||++..
T Consensus 3 ~~~~~~~Lgla~raGk~v~G~~~v~~al~~g~~~lViiA~D~s~~-~~~ki~~~~~~~~vp~~~~~sk~eLG~a~Gk~~~ 81 (100)
T PRK07714 3 MSDWKSFLGLANRARKVISGEELVLKEVRSGKAKLVLLSEDASVN-TTKKITDKCTYYNVPMRKVENRQQLGHAIGKDER 81 (100)
T ss_pred HHHHHHHHHHHHHhCCeeecHHHHHHHHHhCCceEEEEeCCCCHH-HHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCcc
Confidence 468999999999999999999999999999999999999999997 9999999999999999999999999999999976
Q ss_pred eEEEEEEeC
Q psy1295 108 IIACSVTVD 116 (137)
Q Consensus 108 v~~~ai~~~ 116 (137)
+ +++|.+.
T Consensus 82 ~-~vai~d~ 89 (100)
T PRK07714 82 V-VVAVLDE 89 (100)
T ss_pred e-EEEEeCc
Confidence 6 4555444
No 7
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=99.90 E-value=2e-23 Score=146.84 Aligned_cols=92 Identities=15% Similarity=0.227 Sum_probs=82.9
Q ss_pred HHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe-CCHHHHHHHhCCCcceE
Q psy1295 31 ILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV-RSKQALGRACGVSRPII 109 (137)
Q Consensus 31 l~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~-~tk~eLG~a~G~~~~v~ 109 (137)
+.+.|++|+|+|++++|.++|+++|++|++++||+|+|++++ ++++++.+|++++||++.+ +|+.+||+|||++++++
T Consensus 4 ~~~~l~~a~ragkl~~G~~~v~kai~~gkaklViiA~D~~~~-~~~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~~ 82 (99)
T PRK01018 4 FNRELRVAVDTGKVILGSKRTIKAIKLGKAKLVIVASNCPKD-IKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTVS 82 (99)
T ss_pred HHHHHHHHHHcCCEEEcHHHHHHHHHcCCceEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCEE
Confidence 456799999999999999999999999999999999999996 9999999999999998765 89999999999998877
Q ss_pred EEEEEeCCCCChHH
Q psy1295 110 ACSVTVDEGSQLKP 123 (137)
Q Consensus 110 ~~ai~~~~~s~~~~ 123 (137)
+++|.+.+.+++.+
T Consensus 83 ~vaI~D~G~a~~~~ 96 (99)
T PRK01018 83 ALAIVDPGESDILE 96 (99)
T ss_pred EEEEecCCHHHHHH
Confidence 78887776666644
No 8
>PRK07283 hypothetical protein; Provisional
Probab=99.89 E-value=3.5e-23 Score=145.22 Aligned_cols=85 Identities=25% Similarity=0.257 Sum_probs=78.6
Q ss_pred HHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcc
Q psy1295 28 TTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRP 107 (137)
Q Consensus 28 ~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~ 107 (137)
+++++++|++|+|+|+++.|.++|.++|++|++++||+|+|++++ +++++.+.|+.++||++..+|++|||++||+++.
T Consensus 3 ~~~~l~~LglA~raGklv~G~~~v~~aik~gk~~lVi~A~Das~~-~~kk~~~~~~~~~Vp~~~~~t~~eLG~a~Gk~~~ 81 (98)
T PRK07283 3 KQKISNLLGLAQRAGRIISGEELVVKAIQSGQAKLVFLANDAGPN-LTKKVTDKSNYYQVEVSTVFSTLELSAAVGKPRK 81 (98)
T ss_pred HHHHHHHHHHHHHhCCeeEcHHHHHHHHHcCCccEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCce
Confidence 468999999999999999999999999999999999999999997 9999999999999999999999999999999754
Q ss_pred eEEEEEEe
Q psy1295 108 IIACSVTV 115 (137)
Q Consensus 108 v~~~ai~~ 115 (137)
+ ++|.+
T Consensus 82 v--vai~d 87 (98)
T PRK07283 82 V--LAVTD 87 (98)
T ss_pred E--EEEeC
Confidence 3 45543
No 9
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=99.89 E-value=6.6e-23 Score=139.80 Aligned_cols=76 Identities=30% Similarity=0.482 Sum_probs=72.3
Q ss_pred HHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEE
Q psy1295 38 ALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVT 114 (137)
Q Consensus 38 A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~ 114 (137)
..++|+++.|.++|+++|++|++++||+|+|++|+ ++++++.+|++++||+++++|+.+||+|||+++++++++|.
T Consensus 6 ~~ragkl~~G~~~v~kai~~gkaklViiA~D~~~~-~~~~i~~~c~~~~Vp~~~~~s~~eLG~a~G~~~~~a~~ai~ 81 (82)
T PRK13602 6 VSQAKSIVIGTKQTVKALKRGSVKEVVVAEDADPR-LTEKVEALANEKGVPVSKVDSMKKLGKACGIEVGAAAVAII 81 (82)
T ss_pred HHhcCCEEEcHHHHHHHHHcCCeeEEEEECCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCcCEEEEEEe
Confidence 35889999999999999999999999999999997 99999999999999999999999999999999999888774
No 10
>PRK06683 hypothetical protein; Provisional
Probab=99.89 E-value=7.9e-23 Score=139.54 Aligned_cols=79 Identities=20% Similarity=0.296 Sum_probs=74.8
Q ss_pred HHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEE
Q psy1295 35 VQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVT 114 (137)
Q Consensus 35 L~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~ 114 (137)
++.+.++|+++.|.++|+++|++|++++||+|+|++++ +++.+..+|++++||+++++|+.|||++||+++++++++|.
T Consensus 3 ~~~~~~agk~v~G~~~v~kaik~gkaklViiA~Da~~~-~~~~i~~~~~~~~Vpv~~~~t~~eLG~A~G~~~~~a~~ai~ 81 (82)
T PRK06683 3 YQKVSNAENVVVGHKRTLEAIKNGIVKEVVIAEDADMR-LTHVIIRTALQHNIPITKVESVRKLGKVAGIQVGASAIGII 81 (82)
T ss_pred hHHHHhCCCEEEcHHHHHHHHHcCCeeEEEEECCCCHH-HHHHHHHHHHhcCCCEEEECCHHHHHHHhCCcccEEEEEEe
Confidence 45678999999999999999999999999999999998 99999999999999999999999999999999999887764
No 11
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=99.89 E-value=5e-23 Score=146.10 Aligned_cols=97 Identities=21% Similarity=0.284 Sum_probs=84.5
Q ss_pred HHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcc
Q psy1295 28 TTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRP 107 (137)
Q Consensus 28 ~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~ 107 (137)
+++++++|++|+|+|++++|.++|.++|++|++++||+|+|++++ +++++.++|+.++||++..+|++|||.+||++.
T Consensus 2 ~~k~l~lLglA~rAGklv~G~~~v~~aik~gk~~lVI~A~D~s~~-~kkki~~~~~~~~vp~~~~~t~~eLg~a~Gk~~- 79 (104)
T PRK05583 2 MNKFLNFLGLTKKAGKLLEGYNKCEEAIKKKKVYLIIISNDISEN-SKNKFKNYCNKYNIPYIEGYSKEELGNAIGRDE- 79 (104)
T ss_pred hHHHHHHHHHHHHhCCeeecHHHHHHHHHcCCceEEEEeCCCCHh-HHHHHHHHHHHcCCCEEEecCHHHHHHHhCCCC-
Confidence 678999999999999999999999999999999999999999997 999999999999999998999999999999987
Q ss_pred eEEEEEEeCC-CCChHHHHH
Q psy1295 108 IIACSVTVDE-GSQLKPQIQ 126 (137)
Q Consensus 108 v~~~ai~~~~-~s~~~~~i~ 126 (137)
+++++|.+.+ ...+.++++
T Consensus 80 ~~~iai~d~g~a~~l~~~~~ 99 (104)
T PRK05583 80 IKILGVKDKNMAKKLLKLWN 99 (104)
T ss_pred eEEEEEeChHHHHHHHHHHH
Confidence 4455555443 234444443
No 12
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=99.89 E-value=5e-23 Score=142.09 Aligned_cols=92 Identities=43% Similarity=0.739 Sum_probs=84.5
Q ss_pred HHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcce
Q psy1295 29 TKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPI 108 (137)
Q Consensus 29 ~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v 108 (137)
++++++|+.|+++|+++.|.+++.+++++|++++||+|+|++|.....+++.+|++++|||++++|+.+||+++|+++.+
T Consensus 1 ~~i~~~l~~a~~~~~lv~G~~~v~k~l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~s~~eLG~~~g~~~~~ 80 (95)
T PF01248_consen 1 DKIYKLLKLARKAGRLVKGIKEVLKALKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVPSKEELGRACGKKRPV 80 (95)
T ss_dssp HHHHHHHHHHHHHSEEEESHHHHHHHHHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEESHHHHHHHHTTSSSTS
T ss_pred ChHHHHHHHHHhcCCEEEchHHHHHHHHcCCCcEEEEcCCCChhhhcccchhheeccceeEEEECCHHHHHHHHCCCCcE
Confidence 57999999999999999999999999999999999999999998666669999999999999999999999999999877
Q ss_pred EEEEEEeCCCCC
Q psy1295 109 IACSVTVDEGSQ 120 (137)
Q Consensus 109 ~~~ai~~~~~s~ 120 (137)
+++++.+.+.++
T Consensus 81 ~~~~i~d~~~a~ 92 (95)
T PF01248_consen 81 SALAIKDAGDAK 92 (95)
T ss_dssp SEEEEEESTTHH
T ss_pred EEEEEECcccch
Confidence 777887776543
No 13
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=99.87 E-value=4.8e-22 Score=135.73 Aligned_cols=76 Identities=24% Similarity=0.386 Sum_probs=72.7
Q ss_pred cCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEeCC
Q psy1295 41 YKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDE 117 (137)
Q Consensus 41 ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~ 117 (137)
-|+++.|.++|+++|++|++++||+|+|++++ +++++..+|+.++||+++.+|+.+||++||++++++++++.++.
T Consensus 6 ~GKlv~G~~~vlkaIk~gkakLViiA~Da~~~-~~k~i~~~c~~~~Vpv~~~~t~~eLG~A~G~~v~aa~~~~~~~~ 81 (82)
T PRK13601 6 PSKRVVGAKQTLKAITNCNVLQVYIAKDAEEH-VTKKIKELCEEKSIKIVYIDTMKELGVMCGIDVGAAAAADIIGE 81 (82)
T ss_pred CccEEEchHHHHHHHHcCCeeEEEEeCCCCHH-HHHHHHHHHHhCCCCEEEeCCHHHHHHHHCCccCeeeEEEeecC
Confidence 48999999999999999999999999999997 99999999999999999999999999999999999999988763
No 14
>KOG3387|consensus
Probab=99.87 E-value=1.6e-21 Score=141.57 Aligned_cols=125 Identities=74% Similarity=1.099 Sum_probs=119.9
Q ss_pred CCCCcccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 13 PAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 13 ~~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
--+.|.++|.++..+.++++.+...|.+..++..|.|++++.+.+|...+|++|.||.|.++..|++.+|+.+||||+++
T Consensus 4 ~~v~~~~~P~ad~~L~ekildl~Qqa~~~kql~kg~NEaTk~Lnrgi~~~Vv~aaD~kP~eIt~HLp~LcedknVp~v~V 83 (131)
T KOG3387|consen 4 DGVNPKAYPLADSNLTEKILDLKQQATGYKQLKKGANEATKTLNRGISEFVVMAADVKPLEITLHLPLLCEDKNVPYVFV 83 (131)
T ss_pred cccCcccCcccchhhHHHHHHHHHHHhhHHHHhcccchHhhhhccCceeEEEEEccCCHHHHHHHhHHHhhccCCceEEe
Confidence 45889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHHhC---CCcceEEEEEEeCCCCChHHHHHHHHHHHHHhhC
Q psy1295 93 RSKQALGRACG---VSRPIIACSVTVDEGSQLKPQIQAIQQQIERLLI 137 (137)
Q Consensus 93 ~tk~eLG~a~G---~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~~~~ 137 (137)
+++..||.+|| ..+++.++.|..++++.....+..+...+++|++
T Consensus 84 psk~alG~~cg~~~~~r~~~a~~i~~~~~~~~~~~~q~l~~~~~~l~~ 131 (131)
T KOG3387|consen 84 PSKQALGLACGELVVLRPVIACSITTNEASIPLSQIQSLKRAIERLLI 131 (131)
T ss_pred eccHHhhhhhhhHhhcCcceeEEEEeccccchhhHHHHhHHHHHHhcC
Confidence 99999999999 8888989999999999999999999999999875
No 15
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=99.85 E-value=5.2e-21 Score=131.16 Aligned_cols=72 Identities=24% Similarity=0.411 Sum_probs=67.9
Q ss_pred CCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEE
Q psy1295 42 KQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVT 114 (137)
Q Consensus 42 g~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~ 114 (137)
..++.|.+|++|+|++|++++||+|.|++|+ +..|++.+|++++|||++++||.+||++||++++++++++.
T Consensus 12 ~~~vvG~kqt~Kai~kg~~~~v~iA~Da~~~-vv~~l~~lceek~Ip~v~V~s~~~LGkAcgi~V~aa~aai~ 83 (84)
T PRK13600 12 QHFVVGLKETLKALKKDQVTSLIIAEDVEVY-LMTRVLSQINQKNIPVSFFKSKHALGKHVGINVNATIVALI 83 (84)
T ss_pred cCceeeHHHHHHHHhcCCceEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCcCeEEEEEe
Confidence 4569999999999999999999999999998 89999999999999999999999999999999998877764
No 16
>PRK09190 hypothetical protein; Provisional
Probab=99.80 E-value=5.8e-19 Score=139.77 Aligned_cols=91 Identities=18% Similarity=0.198 Sum_probs=83.1
Q ss_pred ChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHh------cCCCEEEeCCHHH
Q psy1295 24 DTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCED------KNVPYVFVRSKQA 97 (137)
Q Consensus 24 ~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~------~~IP~i~~~tk~e 97 (137)
++.+.++++++|++|+++|++++|...|.++|++|+++|||+|+|++++ +++++..+|+. ++||++..+|+.+
T Consensus 92 ~~~l~~ril~lLGLArRAGklVsG~~~V~~alk~gk~~Lvi~A~DaS~~-t~kKl~~~~~~~~~~~~~~Vp~v~~~tk~e 170 (220)
T PRK09190 92 EALLARRALDALGLARKAGQVVSGFEKVDAALRSGEAAALIHASDGAAD-GKRKLDQARRALVHETGREIPVIGLFTAAE 170 (220)
T ss_pred HHHHHHHHHHHHHHHhhhCCEeecHHHHHHHHHcCCceEEEEeccCChh-HHHHHHHHHHhhcccccCCccEEEecCHHH
Confidence 4577899999999999999999999999999999999999999999997 99999999999 9999999999999
Q ss_pred HHHHhCCCcceEEEEEEeC
Q psy1295 98 LGRACGVSRPIIACSVTVD 116 (137)
Q Consensus 98 LG~a~G~~~~v~~~ai~~~ 116 (137)
||+++|++..+ ++++..+
T Consensus 171 Lg~AlGr~~~~-~vav~d~ 188 (220)
T PRK09190 171 LGLAFGRENVI-HAALLAG 188 (220)
T ss_pred HHHHhCCCcee-EEEEcCh
Confidence 99999998655 3455443
No 17
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=99.80 E-value=1.1e-18 Score=140.03 Aligned_cols=102 Identities=23% Similarity=0.449 Sum_probs=82.1
Q ss_pred CCcccCCCCChHHHHHHHHHHHHHHHcC-----------CccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhH
Q psy1295 15 VNPKAYPLADTALTTKILSLVQQALNYK-----------QLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCE 83 (137)
Q Consensus 15 ~~~~~~p~a~~~~~~kl~~lL~~A~~ag-----------~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~ 83 (137)
+.-.|.|...++-.++|...-.. ..+| .|++|.++|+++|++|+++|||||+|++|.+.+.+++.+|+
T Consensus 94 ll~KYrPEtk~~kk~Rl~~~A~~-~~~g~~~~~~~kkp~~LvsG~n~VtkaIekkKAkLVIIA~DVsPie~vk~LpaLCr 172 (263)
T PTZ00222 94 LIKKYAPETRKARRDRLHKVAEE-KKKDPKKTVSTKAPLAVVTGLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCR 172 (263)
T ss_pred HHHHcCCccHHHHHHHHHHHHHH-HhcCCCCCCCCCCCCeeccCHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHH
Confidence 34568888887777777654332 1121 28899999999999999999999999999977789999999
Q ss_pred hcCCCEEEeCCHHHHHHHhCCCcceEEEEEEeCC
Q psy1295 84 DKNVPYVFVRSKQALGRACGVSRPIIACSVTVDE 117 (137)
Q Consensus 84 ~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~ 117 (137)
+++|||++++|+.+||+++|+++.++++..+.+.
T Consensus 173 k~~VPY~iVktKaeLG~AIGkKtravVAItD~g~ 206 (263)
T PTZ00222 173 ANKIPYAIVKDMARLGDAIGRKTATCVAITDVNA 206 (263)
T ss_pred hcCCCEEEECCHHHHHHHHCCCCCeEEEEeeCCc
Confidence 9999999999999999999998766444444443
No 18
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=99.77 E-value=4.6e-18 Score=136.87 Aligned_cols=104 Identities=24% Similarity=0.429 Sum_probs=83.4
Q ss_pred CCcccCCCCChHHHHHHHHHHHHHHHcC---------CccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhc
Q psy1295 15 VNPKAYPLADTALTTKILSLVQQALNYK---------QLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDK 85 (137)
Q Consensus 15 ~~~~~~p~a~~~~~~kl~~lL~~A~~ag---------~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~ 85 (137)
+.-.|.|...++-..+|...-.. ..+| .+..|.++|+++|++|+++|||||+|++|.+.+.+++++|+++
T Consensus 96 ll~KYrPEtk~~kk~RL~~~A~~-~a~g~~~~~kkp~~vk~Gin~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~ 174 (266)
T PTZ00365 96 LLSKYKPETRAEKKARLLKEAEK-AAAGEEVESKKPFMLKYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKK 174 (266)
T ss_pred HHHhcCCccHHHHHHHHHHHHHH-HhcCCCCCCCCchHHHhhhHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhcc
Confidence 34467888877777776654321 1222 2779999999999999999999999999997777789999999
Q ss_pred CCCEEEeCCHHHHHHHhCCCcceEEEEEEeCCCC
Q psy1295 86 NVPYVFVRSKQALGRACGVSRPIIACSVTVDEGS 119 (137)
Q Consensus 86 ~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~~s 119 (137)
+|||++++|+++||+++|++..++++...++.++
T Consensus 175 ~VPY~iv~sK~eLG~AIGkktraVVAItdV~~ED 208 (266)
T PTZ00365 175 EVPYCIIKGKSRLGKLVHQKTAAVVAIDNVRKED 208 (266)
T ss_pred CCCEEEECCHHHHHHHhCCCCceEEEecccCHHH
Confidence 9999999999999999999877755555555443
No 19
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=99.76 E-value=6.9e-18 Score=117.72 Aligned_cols=93 Identities=15% Similarity=0.283 Sum_probs=85.3
Q ss_pred HHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe-CCHHHHHHHhCCCcce
Q psy1295 30 KILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV-RSKQALGRACGVSRPI 108 (137)
Q Consensus 30 kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~-~tk~eLG~a~G~~~~v 108 (137)
.+-.-|+.|.++|+++.|.++++|+++.|++|+||+|+||++. .++++..+++-.+||++.. +|+.|||.+||+++++
T Consensus 6 ~v~~~L~~avkTGkvilG~k~tiK~lk~gkaKliiiAsN~P~~-~k~~ieyYAkLs~ipV~~y~Gt~~eLG~~cgkpf~v 84 (100)
T COG1911 6 DVEKELKLAVKTGKVILGSKRTIKSLKLGKAKLIIIASNCPKE-LKEDIEYYAKLSDIPVYVYEGTSVELGTVCGKPFRV 84 (100)
T ss_pred hHHHHHHHHHhcCCEEEehHHHHHHHHcCCCcEEEEecCCCHH-HHHHHHHHHHHcCCcEEEecCCceeHHhhhCCCceE
Confidence 3556788899999999999999999999999999999999885 9999999999999998855 7999999999999999
Q ss_pred EEEEEEeCCCCChHH
Q psy1295 109 IACSVTVDEGSQLKP 123 (137)
Q Consensus 109 ~~~ai~~~~~s~~~~ 123 (137)
++.+|.+.++|++.+
T Consensus 85 ~~laIiD~G~S~Il~ 99 (100)
T COG1911 85 AALAIIDEGDSDILA 99 (100)
T ss_pred EEEEEecCchhhhhc
Confidence 999999998887754
No 20
>KOG3406|consensus
Probab=99.74 E-value=2.3e-17 Score=119.92 Aligned_cols=106 Identities=23% Similarity=0.369 Sum_probs=90.1
Q ss_pred ChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhC
Q psy1295 24 DTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACG 103 (137)
Q Consensus 24 ~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G 103 (137)
.=++++.|...|+.|+-++.|++|.+++.|++.+++++||++|+||+++++.+.+.+||.+|+||++.+++..+||+|+|
T Consensus 15 ~mdv~~AL~~Vlk~al~~dGlarGi~Ea~KaldkrqA~lcvLaencdep~yvKLVeALcaeh~iplikV~d~k~LGew~G 94 (134)
T KOG3406|consen 15 VMDVNTALQEVLKTALVHDGLARGIHEAAKALDKRQAHLCVLAENCDEPMYVKLVEALCAEHQIPLIKVGDAKELGEWAG 94 (134)
T ss_pred cccHHHHHHHHHHHHHHhchHHhHHHHHHHHHhhCceeEEEEeccCCchHHHHHHHHHHhhcCCCeEEeccchhhhhhhc
Confidence 44799999999999999999999999999999999999999999998888999999999999999999999999999999
Q ss_pred C--------CcceEEE---EEEeCC-CCChHHHHHHHH
Q psy1295 104 V--------SRPIIAC---SVTVDE-GSQLKPQIQAIQ 129 (137)
Q Consensus 104 ~--------~~~v~~~---ai~~~~-~s~~~~~i~e~~ 129 (137)
. .+++..| ++.+.+ +++..+.+.+..
T Consensus 95 lckid~eGnarKvvGcs~vvVkd~geet~a~~~v~~~~ 132 (134)
T KOG3406|consen 95 LCKIDSEGNARKVVGCSCVVVKDYGEETQALDIVKEHF 132 (134)
T ss_pred eeeecCCCCeeEeecceEEEEeecccccHHHHHHHHHh
Confidence 5 2445444 333332 356666666653
No 21
>KOG2988|consensus
Probab=98.97 E-value=2.9e-09 Score=75.96 Aligned_cols=93 Identities=17% Similarity=0.241 Sum_probs=78.9
Q ss_pred HHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEE-EeCCHHHHHHHhCCCcceE
Q psy1295 31 ILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYV-FVRSKQALGRACGVSRPII 109 (137)
Q Consensus 31 l~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i-~~~tk~eLG~a~G~~~~v~ 109 (137)
+..-+-.++++|+.+.|.+++.+.++.|+++|+++|.+|.+- -+..|..++=....++. +.++..+||.+||+-+++.
T Consensus 14 ins~lll~mksgkY~lgyK~T~k~~r~gkakL~~is~n~p~l-rks~ieyyamlak~~v~~~sg~n~~lgt~~g~~fRv~ 92 (112)
T KOG2988|consen 14 INSSLLLVMKSGKYILGYKQTLKSLRQGKAKLIIISSNCPPL-RKSEIEYYAMLAKTGVHHYSGNNVELGTACGKTFRVS 92 (112)
T ss_pred hhHHHHHHHhhcceeechHHHHHHHHhccceEEEeecCCCCc-chhHHHHHHHHhcCceeeecCCcEeHHHHhcCeeEee
Confidence 444556679999999999999999999999999999999986 67788877776667766 4578899999999999999
Q ss_pred EEEEEeCCCCChHHH
Q psy1295 110 ACSVTVDEGSQLKPQ 124 (137)
Q Consensus 110 ~~ai~~~~~s~~~~~ 124 (137)
+.+|.+-.++++-+.
T Consensus 93 v~~ivd~gds~~~~~ 107 (112)
T KOG2988|consen 93 VLSIVDLGDSDIIAA 107 (112)
T ss_pred EEEEEeccchhhhhh
Confidence 999988888766443
No 22
>PF08228 RNase_P_pop3: RNase P subunit Pop3; InterPro: IPR013241 This family of fungal proteins form a subunit of RNase P, the ribonucleoprotein enzyme that cleaves the leader sequence of precursor tRNAs to generate mature tRNAs. The structure of Pop3 has been assigned the L7Ae/L30e fold []. This RNA-binding fold is also present in human RNase P subunit Rpp38, raising the possibility that Pop3p and Rpp38 are functional homologues.
Probab=98.08 E-value=4.7e-05 Score=57.87 Aligned_cols=107 Identities=21% Similarity=0.324 Sum_probs=78.2
Q ss_pred CCCCChH------HHHHHHHHHHHHHHc-----CCccccHHHHHHHHHcCcc--cEEEEecCCChhhHHHhHHHHhHhcC
Q psy1295 20 YPLADTA------LTTKILSLVQQALNY-----KQLRKGANEATKTLNRGLS--EFIVLAADAEPLEIVLHLPLLCEDKN 86 (137)
Q Consensus 20 ~p~a~~~------~~~kl~~lL~~A~~a-----g~lv~G~~~v~kaI~k~ka--klViiA~D~~~~~~~~~i~~lc~~~~ 86 (137)
||..+++ +.+.+.+.++.++++ ..+..|.|++++.++.... .+||+++.-.|.-+..||+.+|.-.+
T Consensus 21 WP~v~~q~~v~elL~~~l~~~l~~~~~s~~~~~~~v~~GfNsi~~~Le~~~~~~~~vFVcr~D~ps~L~~h~P~Lva~as 100 (158)
T PF08228_consen 21 WPFVKPQKLVLELLQSKLLRPLKHLRESKPEWPWGVTVGFNSIVRYLECQASDNVYVFVCRSDQPSILTSHFPQLVATAS 100 (158)
T ss_pred CCcccchHHHHHHHHHHHHHHHHHHhhcCCCCCccEEEehHHHHHHHhcccCCCeEEEEECCCCcHHHHHHHHHHHHhcc
Confidence 7777777 777888777777763 2588999999999994322 37777765567679999999999988
Q ss_pred --CCEEEeC--CHHHHHHHhCCCcceEEEEEEeCCC--CChHHHHHH
Q psy1295 87 --VPYVFVR--SKQALGRACGVSRPIIACSVTVDEG--SQLKPQIQA 127 (137)
Q Consensus 87 --IP~i~~~--tk~eLG~a~G~~~~v~~~ai~~~~~--s~~~~~i~e 127 (137)
|..+..+ +...|+.++|.++ +.++++..+.+ +.+.+.+++
T Consensus 101 ~~vrLV~Lpkgs~~rLs~aLgi~r-~g~l~v~~~~~~~~~L~~~i~~ 146 (158)
T PF08228_consen 101 KSVRLVQLPKGSEARLSEALGIPR-VGILAVRADAPGAKSLVDLIRS 146 (158)
T ss_pred CcceEEeCChhHHHHHHHHhCCCC-ccEEEEecCCcccHHHHHHHHh
Confidence 8888774 6689999999975 44455554432 245555554
No 23
>KOG3166|consensus
Probab=97.60 E-value=7.2e-05 Score=59.05 Aligned_cols=42 Identities=36% Similarity=0.685 Sum_probs=40.2
Q ss_pred ccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhc
Q psy1295 44 LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDK 85 (137)
Q Consensus 44 lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~ 85 (137)
+..|.+.|+..+++.+|+||++|.|.+|.++.-.+|++|...
T Consensus 110 ~~~gvnTVttLVenKKAQLVV~ahDvDPIELVvFLPaLC~km 151 (209)
T KOG3166|consen 110 LRAGVNTVTTLVENKKAQLVVTAHDVDPIELVVFLPALCRKM 151 (209)
T ss_pred cccCcceEeehhhccccceeEEecccCchhheeecHHhhhhh
Confidence 677999999999999999999999999999999999999988
No 24
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=96.04 E-value=0.025 Score=36.51 Aligned_cols=61 Identities=18% Similarity=0.275 Sum_probs=46.2
Q ss_pred ccccHHHHHHHHHcCc-ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCc
Q psy1295 44 LRKGANEATKTLNRGL-SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSR 106 (137)
Q Consensus 44 lv~G~~~v~kaI~k~k-aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~ 106 (137)
++.|.+.|..+++++. ..-|++..+.... -...+..+|+..++|+..+ ++..|.+.++...
T Consensus 1 lieG~~~V~eaL~~~~~i~~l~~~~~~~~~-~~~~i~~~~~~~~i~v~~v-~~~~l~~ls~~~~ 62 (76)
T PF08032_consen 1 LIEGRHAVEEALKSGPRIKKLFVTEEKADK-RIKEILKLAKKKGIPVYEV-SKKVLDKLSDTEN 62 (76)
T ss_dssp EEESHHHHHHHHHCTGGEEEEEEETT---C-CTHHHHHHHHHCT-EEEEE--HHHHHHCTTTSS
T ss_pred CEEEHHHHHHHHcCCCCccEEEEEcCccch-hHHHHHHHHHHcCCeEEEe-CHHHHHHHcCCCC
Confidence 4789999999999975 8889999993332 3578899999999999766 5677999887553
No 25
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....
Probab=96.02 E-value=0.022 Score=40.65 Aligned_cols=75 Identities=17% Similarity=0.194 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhh------------------HHHhHHHHhHhcCC
Q psy1295 26 ALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLE------------------IVLHLPLLCEDKNV 87 (137)
Q Consensus 26 ~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~------------------~~~~i~~lc~~~~I 87 (137)
++.+++++.+. ...|..+.|.++|.+|++.|.+.-++|..|..... +...+...+++.|.
T Consensus 6 ~~ve~f~~~l~--k~~~~~~yG~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~~~a~~~g~ 83 (113)
T PF03465_consen 6 KLVEEFFEELA--KDPGLAVYGIEEVKKALEMGAVETLLISDDLFRSRDVERCKCPECGGELEVVELIEELIELAEQSGA 83 (113)
T ss_dssp HHHHHHHHHHH--TTCSSEEESHHHHHHHHHTT-EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHh--hCCCcEEECHHHHHHHHHhCCCcEEEEecccccccceeccccccccchhhhHHHHHHHHHHHHHcCC
Confidence 34444444443 34489999999999999999999999998864431 26788999999999
Q ss_pred CEEEeCCHHHHHHHh
Q psy1295 88 PYVFVRSKQALGRAC 102 (137)
Q Consensus 88 P~i~~~tk~eLG~a~ 102 (137)
.+..+++..+-|.-+
T Consensus 84 ~v~iis~~~e~G~~L 98 (113)
T PF03465_consen 84 KVEIISSEHEEGEQL 98 (113)
T ss_dssp EEEEE-TTSHHHHHH
T ss_pred EEEEEcCCCccHHHH
Confidence 999999988888776
No 26
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=94.94 E-value=0.083 Score=37.38 Aligned_cols=60 Identities=28% Similarity=0.381 Sum_probs=48.3
Q ss_pred HHHHHHHcC-----CccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 34 LVQQALNYK-----QLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 34 lL~~A~~ag-----~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
+-..+.+.| .+.-|+-|+++.+-+.---.|++-...+|. ..|+..||+++|||+...++.
T Consensus 25 v~~i~~~~gI~diN~IKPGIgEaTRvLLRRvP~~vLVr~~~~pd--~~Hl~~LA~ekgVpVe~~~d~ 89 (100)
T PF15608_consen 25 VERIAERYGISDINLIKPGIGEATRVLLRRVPWKVLVRDPDDPD--LAHLLLLAEEKGVPVEVYPDL 89 (100)
T ss_pred HHHHHHHhCCCCcccccCChhHHHHHHHhcCCCEEEECCCCCcc--HHHHHHHHHHcCCcEEEeCCC
Confidence 334455544 577899999999998888888887766674 789999999999999988864
No 27
>PRK04011 peptide chain release factor 1; Provisional
Probab=94.76 E-value=0.18 Score=43.46 Aligned_cols=70 Identities=17% Similarity=0.218 Sum_probs=55.3
Q ss_pred HHHHH-HHcCCccccHHHHHHHHHcCcccEEEEecCC-----------------------------------------Ch
Q psy1295 34 LVQQA-LNYKQLRKGANEATKTLNRGLSEFIVLAADA-----------------------------------------EP 71 (137)
Q Consensus 34 lL~~A-~~ag~lv~G~~~v~kaI~k~kaklViiA~D~-----------------------------------------~~ 71 (137)
++... +..|+.+.|.++|.+|++.|.+.-++|..|. +.
T Consensus 286 f~~~l~~d~g~avyG~~~V~~Ale~GAVetLLV~d~l~~~r~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~ 365 (411)
T PRK04011 286 FFKELAKDGGLAVYGEEEVRKALEMGAVDTLLISEDLRKDRVTYKCPNCGYEEEKTVKRREELPEKTCPKCGSELEIVEE 365 (411)
T ss_pred HHHHHhcCCCcEEEcHHHHHHHHHcCCceEEEEeccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchh
Confidence 44333 3468899999999999999999999997653 11
Q ss_pred hhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhC
Q psy1295 72 LEIVLHLPLLCEDKNVPYVFVRSKQALGRACG 103 (137)
Q Consensus 72 ~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G 103 (137)
++....+...++++|..+.++.+..+-|.-+-
T Consensus 366 ~~~v~~l~e~a~~~g~~v~iis~~~e~G~qL~ 397 (411)
T PRK04011 366 EDIIEELSELAEQSGTKVEVISTDTEEGEQLL 397 (411)
T ss_pred hhHHHHHHHHHHHcCCEEEEECCCChhHHHHH
Confidence 23677888999999999999999888886663
No 28
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms. Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.
Probab=94.60 E-value=0.25 Score=42.56 Aligned_cols=68 Identities=16% Similarity=0.191 Sum_probs=55.5
Q ss_pred HHcCCccccHHHHHHHHHcCcccEEEEecCCC-----------------------------------------hhhHHHh
Q psy1295 39 LNYKQLRKGANEATKTLNRGLSEFIVLAADAE-----------------------------------------PLEIVLH 77 (137)
Q Consensus 39 ~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~-----------------------------------------~~~~~~~ 77 (137)
+..|+.+.|.++|.+|++.|.+.-++|..|.. ..+....
T Consensus 284 ~d~g~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~rc~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ve~ 363 (403)
T TIGR03676 284 KDGGLAAYGEEEVRKALEMGAVDTLLISEDLRKIRVTFKCPNCGYEEEKTVKPEEGDKSEACPKCGSELEIVEEEDIIEE 363 (403)
T ss_pred cCCCcEEEcHHHHHHHHHhCCCcEEEEEccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHH
Confidence 34688999999999999999999999987651 2236778
Q ss_pred HHHHhHhcCCCEEEeCCHHHHHHHhCCCc
Q psy1295 78 LPLLCEDKNVPYVFVRSKQALGRACGVSR 106 (137)
Q Consensus 78 i~~lc~~~~IP~i~~~tk~eLG~a~G~~~ 106 (137)
+...++++|-.+.++.+..+-|.-+-+..
T Consensus 364 L~e~a~~~Ga~V~~iS~~~eeG~ql~~~f 392 (403)
T TIGR03676 364 LSELAEESGAKVEIISTDTEEGEQLLKAF 392 (403)
T ss_pred HHHHHHHcCCEEEEECCCChhHHHHHHcC
Confidence 89999999999999999988886664443
No 29
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=94.45 E-value=0.22 Score=41.96 Aligned_cols=63 Identities=17% Similarity=0.221 Sum_probs=53.2
Q ss_pred HcCCccccHHHHHHHHHcCcccEEEEecCC-ChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHh
Q psy1295 40 NYKQLRKGANEATKTLNRGLSEFIVLAADA-EPLEIVLHLPLLCEDKNVPYVFVRSKQALGRAC 102 (137)
Q Consensus 40 ~ag~lv~G~~~v~kaI~k~kaklViiA~D~-~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~ 102 (137)
..|+.+.|.++|.+|++.|-+.-++|..+. ..+.-...+...+++.|..+..+.+..+-|+-+
T Consensus 274 d~~~~~YG~~eV~~Ale~GAVetLLIsD~l~~~r~~~~~l~~~v~~~gg~V~i~Ss~~e~G~qL 337 (351)
T TIGR00111 274 DGDKAVYGEDEVVKAAEYGAIEYLLVTDKVLVQREEIEKLLDSVESMGGKVVILSTEHELGKQL 337 (351)
T ss_pred CCCeEEECHHHHHHHHHcCCceEEEEecchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHH
Confidence 457999999999999999999999999987 332235668888999999999999888888776
No 30
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=94.13 E-value=0.34 Score=41.80 Aligned_cols=64 Identities=20% Similarity=0.260 Sum_probs=53.4
Q ss_pred HHcCCccccHHHHHHHHHcCcccEEEEecCCCh-----------------------------------------hhHHHh
Q psy1295 39 LNYKQLRKGANEATKTLNRGLSEFIVLAADAEP-----------------------------------------LEIVLH 77 (137)
Q Consensus 39 ~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~-----------------------------------------~~~~~~ 77 (137)
+..|+.+.|.++|.+|++.|.+..++|..|..- .++...
T Consensus 288 ~d~G~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~ve~ 367 (409)
T TIGR00108 288 QEDGLACYGEDEVLKALDLGAVETLIVSEDLEYIRVTYKCAECGEVIEKTVRELKDKKFAICPACGQEMDVVEERDLIEW 367 (409)
T ss_pred cCCCcEEeCHHHHHHHHHhCCCcEEEEeccccceeEEEEcCCCCceeecccccccccccccCcccCccccchhhhhHHHH
Confidence 446889999999999999999999999997520 125677
Q ss_pred HHHHhHhcCCCEEEeCCHHHHHHHh
Q psy1295 78 LPLLCEDKNVPYVFVRSKQALGRAC 102 (137)
Q Consensus 78 i~~lc~~~~IP~i~~~tk~eLG~a~ 102 (137)
+...|+++|-.+.++.+..+=|.-+
T Consensus 368 L~e~a~~~Ga~V~iiS~~~eeG~ql 392 (409)
T TIGR00108 368 LSELAENFGAKLEFISTESEEGAQL 392 (409)
T ss_pred HHHHHHHcCCEEEEECCCChhHHHH
Confidence 8899999999999999988777655
No 31
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=93.71 E-value=0.26 Score=33.69 Aligned_cols=44 Identities=14% Similarity=0.306 Sum_probs=36.7
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC--CHHHHHHH
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR--SKQALGRA 101 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~--tk~eLG~a 101 (137)
+++.+||+..|+-..+....+...|+++++|+++.. +...|=++
T Consensus 47 ~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~~~~~~l~~~ 92 (97)
T PF10087_consen 47 KKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRSRGVSSLERA 92 (97)
T ss_pred CCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECCCCHHHHHHH
Confidence 678999999999888899999999999999999986 33444443
No 32
>PRK10864 putative methyltransferase; Provisional
Probab=91.67 E-value=2.8 Score=35.57 Aligned_cols=88 Identities=11% Similarity=0.110 Sum_probs=60.4
Q ss_pred HHHHHHcCCccccHHHHHHHHHcC--cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEE
Q psy1295 35 VQQALNYKQLRKGANEATKTLNRG--LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACS 112 (137)
Q Consensus 35 L~~A~~ag~lv~G~~~v~kaI~k~--kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~a 112 (137)
++..+....++.|.+.|..+++++ .+.-+++....++. ...+..+++.+++++..+ +.++|-+.++...+-.+++
T Consensus 101 ~~~~~~~~~~I~G~~aV~ealk~~~~~i~~l~~~~~~~~~--~~~il~~~~~~~~~v~~V-~~~~l~kls~~~~hqGV~A 177 (346)
T PRK10864 101 LRRQRAEETRVYGENACQALFQSRPEAIVRAWFIQSVTPR--FKEALRWMAANRKAYHVV-DEAELTKASGTEHHGGVCF 177 (346)
T ss_pred HhhccCCCcEEEEHHHHHHHHhCCCCceeEEEEecCccHH--HHHHHHHHHHcCCcEEEe-CHHHHHHHhCCCCCCeEEE
Confidence 455555667899999999999863 46667777777664 456667777888997554 7788999999875544555
Q ss_pred EEeCC-CCChHHHH
Q psy1295 113 VTVDE-GSQLKPQI 125 (137)
Q Consensus 113 i~~~~-~s~~~~~i 125 (137)
+.... ...+.+.+
T Consensus 178 ~v~~~~~~~l~~~l 191 (346)
T PRK10864 178 LIKKRNGTDVQQWL 191 (346)
T ss_pred EEeCCCCCCHHHHh
Confidence 54433 23444433
No 33
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=88.59 E-value=1.2 Score=31.60 Aligned_cols=48 Identities=23% Similarity=0.348 Sum_probs=37.9
Q ss_pred ccHHHHHHHHHcCcccEEEEecCC---Ch-hhHHHhHHHHhHhcCCCEEEeC
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADA---EP-LEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~---~~-~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
-|..++...|++|++.+||--.|- ++ ..--..+.+.|-+++|||+...
T Consensus 57 ~g~~~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~Ttl 108 (115)
T cd01422 57 GGDQQIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLATNR 108 (115)
T ss_pred CchhHHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEEcH
Confidence 567789999999999999988773 22 2235688999999999998653
No 34
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=87.66 E-value=10 Score=30.08 Aligned_cols=77 Identities=12% Similarity=0.047 Sum_probs=50.0
Q ss_pred ccccHHHHHHHHHcCcccEEEEecCC-ChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEeCCC-CCh
Q psy1295 44 LRKGANEATKTLNRGLSEFIVLAADA-EPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEG-SQL 121 (137)
Q Consensus 44 lv~G~~~v~kaI~k~kaklViiA~D~-~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~~-s~~ 121 (137)
++.|.+.|..+++++ -++.+ .... ++. ...+..+|++.+||+..+ ++++|-+.+|...+=.++++..... ..+
T Consensus 3 ~i~G~~~v~eal~~~-~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~~~v-~~~~l~~l~~~~~~qGv~a~~~~~~~~~~ 77 (237)
T TIGR00186 3 YLYGKNAVLEALLNQ-QRVFI-LKGLESKR--LKKLIQLAKKQGINIQLV-DRQKLDQLTKGGNHQGIAAKVKPILYKDL 77 (237)
T ss_pred EEEehHHHHHHHhCC-CEEEE-EecCcchH--HHHHHHHHHHcCCcEEEe-CHHHHHHHhCCCCCCeEEEEEecCCCCCH
Confidence 568999999999988 33333 2322 332 446788899999999877 5788999998654433444443332 244
Q ss_pred HHHH
Q psy1295 122 KPQI 125 (137)
Q Consensus 122 ~~~i 125 (137)
.+..
T Consensus 78 ~~~~ 81 (237)
T TIGR00186 78 NDLY 81 (237)
T ss_pred HHHH
Confidence 4443
No 35
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=87.09 E-value=5.7 Score=31.72 Aligned_cols=70 Identities=13% Similarity=0.034 Sum_probs=50.4
Q ss_pred CccccHHHHHHHHHcC--cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEE
Q psy1295 43 QLRKGANEATKTLNRG--LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVT 114 (137)
Q Consensus 43 ~lv~G~~~v~kaI~k~--kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~ 114 (137)
.++.|.+.|..+++.+ ...-+++..+.... -...+..+|+.++|++..+ ++++|-+.++...+=.++++.
T Consensus 3 ~~i~G~~~v~eal~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~~~i~~~~v-~~~~l~~ls~~~~~qGv~a~~ 74 (244)
T PRK11181 3 EIIYGIHAVQALLERAPERFIEVFVLKGREDK-RLLPLINELEAQGIVIQLA-NRQTLDEKAEGAVHQGIIARV 74 (244)
T ss_pred cEEEehHHHHHHHhCCCCceeEEEEECCCcch-HHHHHHHHHHHcCCcEEEe-CHHHHhhhhcCCCCceEEEEE
Confidence 3678999999999853 56677777776544 3466778899999997664 678899998875443334443
No 36
>PF07997 DUF1694: Protein of unknown function (DUF1694); InterPro: IPR012543 This family contains many hypothetical proteins.; PDB: 2OHW_A.
Probab=86.62 E-value=3 Score=30.18 Aligned_cols=48 Identities=10% Similarity=0.128 Sum_probs=36.9
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHH
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQ 96 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~ 96 (137)
..++.+++++.....++|.++.+.. .......+|+++|+|+-.+.+..
T Consensus 51 ~~~~~~~l~~~~~~~l~ing~l~~~-~~~~YiklA~~~~~~fTiv~~~~ 98 (120)
T PF07997_consen 51 YPEFEQALKDYPNYKLKINGNLDYS-FQSKYIKLANKHGIPFTIVNDPE 98 (120)
T ss_dssp -HHHHHHHHC-SSEEEEEETTS-HH-HHHHHHHHHHHTT--EEEE---S
T ss_pred HHHHHHHHhhCCCeEEEEcCCCCHH-HHHHHHHHHHHcCCCEEEeCCCC
Confidence 4788888999999999999999997 99999999999999998887644
No 37
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=86.19 E-value=2.5 Score=37.24 Aligned_cols=77 Identities=14% Similarity=0.207 Sum_probs=52.9
Q ss_pred HHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH------------------Hh-CCCcceEEEEEE
Q psy1295 54 TLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR------------------AC-GVSRPIIACSVT 114 (137)
Q Consensus 54 aI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~------------------a~-G~~~~v~~~ai~ 114 (137)
.|-..++.++|+-.+-+-. -..||-.+|+++++|-+.+.+.++|+. |+ +... .++|+
T Consensus 357 ~L~~~~vDlmiVVGG~NSS-NT~~L~eIa~~~g~~sy~Ie~~~eI~~~~~i~h~~~~~e~~~~~~wl~~~~~---~VGIT 432 (460)
T PLN02821 357 KLVEEKLDLMLVVGGWNSS-NTSHLQEIAEHKGIPSYWIDSEERIGPGNTIAHKLNHGELVEKENWLPEGPV---TIGVT 432 (460)
T ss_pred HHhhcCCCEEEEECCCCCc-cHHHHHHHHHHhCCCEEEECCHHHcCcccccccccccchhhhhHHHhccCCC---EEEEe
Confidence 3433568888888877664 578999999999999999999999985 76 2222 22343
Q ss_pred eCCCCChHHHHHHHHHHHHHh
Q psy1295 115 VDEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 115 ~~~~s~~~~~i~e~~~~~~~~ 135 (137)
.+ .|-=..+++++...+..+
T Consensus 433 AG-ASTPd~lIeeVi~~l~~~ 452 (460)
T PLN02821 433 SG-ASTPDKVVEDVLDKVFDI 452 (460)
T ss_pred cC-CCCCHHHHHHHHHHHHHh
Confidence 33 343345677777666654
No 38
>cd01020 TroA_b Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=85.94 E-value=7.3 Score=31.12 Aligned_cols=59 Identities=19% Similarity=0.278 Sum_probs=33.5
Q ss_pred HHHhHHHHhHhcCCCEEEeC----CHH-----HHHHHhCCCcceEEEEEE--eCCCCChHHHHHHHHHHHHHhh
Q psy1295 74 IVLHLPLLCEDKNVPYVFVR----SKQ-----ALGRACGVSRPIIACSVT--VDEGSQLKPQIQAIQQQIERLL 136 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~----tk~-----eLG~a~G~~~~v~~~ai~--~~~~s~~~~~i~e~~~~~~~~~ 136 (137)
-...+....++++|++++.. ++. +|.+-.|.+. +.+. ...++.+.+.+++..++|.+-|
T Consensus 194 ~l~~l~~~ik~~~v~~if~e~~~~~k~~~~l~~la~~~~~~v----~~l~~~~~~~~~y~~~m~~n~~~i~~~l 263 (264)
T cd01020 194 DIAAFQNAIKNRQIDALIVNPQQASSATTNITGLAKRSGVPV----VEVTETMPNGTTYLTWMLKQVDQLEKAL 263 (264)
T ss_pred HHHHHHHHHHhCCCCEEEeCCCCCcHHHHHHHHHHHHcCCCE----EeecCCCCCCCCHHHHHHHHHHHHHHHh
Confidence 45566677777777777642 111 2344455432 1121 1223688899999988887643
No 39
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=85.19 E-value=1.3 Score=29.97 Aligned_cols=41 Identities=7% Similarity=0.112 Sum_probs=32.2
Q ss_pred HHHHHHHcCcccEEEEecCCChhhH---HHhHHHHhHhcCCCEE
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEI---VLHLPLLCEDKNVPYV 90 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~---~~~i~~lc~~~~IP~i 90 (137)
++.+.|++|++.+||.-.+-..... --.+.++|.+++||+.
T Consensus 51 ~i~~~i~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 51 QIMDLIKNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HHHHHHHTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHEE
T ss_pred HHHHHHHcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCCc
Confidence 5999999999999999888766422 3467899999999986
No 40
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=83.55 E-value=2.7 Score=31.13 Aligned_cols=56 Identities=16% Similarity=0.155 Sum_probs=40.2
Q ss_pred cHHHHHHHHHcCcccEEEEecC-CChh---hHHHhHHHHhHhcCCCEEEe-CCHHHHHHHh
Q psy1295 47 GANEATKTLNRGLSEFIVLAAD-AEPL---EIVLHLPLLCEDKNVPYVFV-RSKQALGRAC 102 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D-~~~~---~~~~~i~~lc~~~~IP~i~~-~tk~eLG~a~ 102 (137)
|..++...|++|++.+||--.| .++. .--..+.+.|-.++||++.. .+-..+=+++
T Consensus 63 g~~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T~l~tA~a~~~al 123 (142)
T PRK05234 63 GDQQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVATNRATADFLISSL 123 (142)
T ss_pred CchhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEcCHHHHHHHHHHH
Confidence 6778999999999999998764 2221 12458899999999999865 3444444443
No 41
>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups
Probab=82.99 E-value=9.5 Score=31.13 Aligned_cols=43 Identities=23% Similarity=0.317 Sum_probs=38.0
Q ss_pred EEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH--HHHHHHhCCCc
Q psy1295 63 IVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK--QALGRACGVSR 106 (137)
Q Consensus 63 ViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk--~eLG~a~G~~~ 106 (137)
+|+..=+++. +...+...|++++||++.+.+. ..|...+|.+.
T Consensus 55 iV~~Tlv~~~-lr~~l~~~~~~~~i~~~Dll~~~l~~l~~~lg~~p 99 (255)
T PF03618_consen 55 IVFYTLVDPE-LREYLEEFCREHGIPCVDLLGPLLSALEEFLGQKP 99 (255)
T ss_pred EEEEeCCCHH-HHHHHHHHHHhcCCCEEeccHHHHHHHHHHHCcCc
Confidence 8888889996 9999999999999999988654 78999999874
No 42
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=82.45 E-value=1.9 Score=31.04 Aligned_cols=47 Identities=11% Similarity=0.036 Sum_probs=34.3
Q ss_pred cHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
..++..+.++++.+.-|++|-+-++.+...++...|+.++|.+..++
T Consensus 129 ~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 129 DLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRVRVVP 175 (175)
T ss_dssp -GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EEEE--
T ss_pred CHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEEEEeC
Confidence 45889999999999999999887777789999999999999987654
No 43
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=82.44 E-value=2.3 Score=29.69 Aligned_cols=46 Identities=15% Similarity=0.106 Sum_probs=35.2
Q ss_pred cHHHHHHHHHc-CcccEEEEecCCCh----hhHHHhHHHHhHhcCCCEEEe
Q psy1295 47 GANEATKTLNR-GLSEFIVLAADAEP----LEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 47 G~~~v~kaI~k-~kaklViiA~D~~~----~~~~~~i~~lc~~~~IP~i~~ 92 (137)
|..++...|++ |++.+||--.|-.. ..--..+.+.|-+++||++.-
T Consensus 55 g~~~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T~ 105 (112)
T cd00532 55 GEPTVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTTP 105 (112)
T ss_pred CCcHHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEEC
Confidence 66779999999 99999998665221 112557889999999999864
No 44
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=81.64 E-value=5 Score=34.68 Aligned_cols=80 Identities=13% Similarity=0.149 Sum_probs=53.2
Q ss_pred HHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH------------------HhCCCcceEEEEE
Q psy1295 52 TKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR------------------ACGVSRPIIACSV 113 (137)
Q Consensus 52 ~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~------------------a~G~~~~v~~~ai 113 (137)
.+.|...++.++|+-.+-.-. -..+|-.+|++++.|...+.+..+|-. |+-... ..++|
T Consensus 281 ~~~La~~~vD~miVVGG~nSS-NT~rL~eia~~~g~~ty~Ie~~~eL~~~~~i~h~~~~~~~~~t~~wl~~~~--~~VGI 357 (387)
T PRK13371 281 MFSLVEEPLDLMVVIGGYNSS-NTTHLQEIAIERGIPSYHIDSPERILSGNSIEHKPLGKELVVTENWLPEGP--VTVGI 357 (387)
T ss_pred HHHHhhcCCCEEEEECCCCCc-cHHHHHHHHHhcCCCEEEECCHHHcCCccccccccccchhhhhhhhhccCC--CEEEE
Confidence 334434457777777776554 478999999999999999999999975 662111 12234
Q ss_pred EeCCCCChHHHHHHHHHHHHHh
Q psy1295 114 TVDEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 114 ~~~~~s~~~~~i~e~~~~~~~~ 135 (137)
+-+ .|-=..+++++.+.+..+
T Consensus 358 TAG-ASTP~~lI~eVi~~l~~l 378 (387)
T PRK13371 358 TSG-ASTPDKVVEDVIEKIFAL 378 (387)
T ss_pred ecC-CCCCHHHHHHHHHHHHHh
Confidence 332 454456777777777655
No 45
>PF02603 Hpr_kinase_N: HPr Serine kinase N terminus; InterPro: IPR011126 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the N-terminal region of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller. The blades are formed by two N-terminal domains each, and the compact central hub assembles the C-terminal kinase domains []. ; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 1KNX_B 1KO7_A.
Probab=79.95 E-value=3.1 Score=29.93 Aligned_cols=41 Identities=24% Similarity=0.229 Sum_probs=27.6
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..+.+-+.+.-++|+++|..|. ..+...|++++||+....
T Consensus 72 ~~l~~l~~~~~P~iIvt~~~~~p---~~l~e~a~~~~ipll~t~ 112 (127)
T PF02603_consen 72 ERLEKLFSYNPPCIIVTRGLEPP---PELIELAEKYNIPLLRTP 112 (127)
T ss_dssp CHHHHHCTTT-S-EEEETTT------HHHHHHHHHCT--EEEES
T ss_pred HHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHhCCcEEEcC
Confidence 34556666889999999999765 678889999999998765
No 46
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=79.61 E-value=27 Score=28.15 Aligned_cols=70 Identities=21% Similarity=0.228 Sum_probs=53.6
Q ss_pred CccccHHHHHHHHHcC-cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEe
Q psy1295 43 QLRKGANEATKTLNRG-LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTV 115 (137)
Q Consensus 43 ~lv~G~~~v~kaI~k~-kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~ 115 (137)
.++.|.+.+..+++.+ .+.-+++.++..+ -...+...+...++|+..+ ++..|-+..+...+-.++++..
T Consensus 22 ~~~~G~~~v~~al~~~~~i~~i~~~~~~~~--~~~~~~~~~~~~~~~~~~v-~~~~l~~~~~~~~hqGi~a~~~ 92 (260)
T COG0566 22 FLIEGEHAVLEALASGPKIVRILVTEGRLP--RFEELLALAAAKGIPVYVV-SEAILDKLSGTENHQGIVAVVK 92 (260)
T ss_pred EEEeeHHHHHHHHhcCCCceEEEEecccch--hHHHHHHHHHhcCCeEEEE-CHHHHHHHhCCCCCCeEEEEEe
Confidence 4899999999999999 8888999999884 4677888888999998555 5677777777554443444433
No 47
>KOG4175|consensus
Probab=79.14 E-value=32 Score=27.79 Aligned_cols=116 Identities=19% Similarity=0.297 Sum_probs=73.6
Q ss_pred CcccCCCCCh-HH-------------HHHHHHHHHHHHHcCC-------------ccccHHHHHHHHHc-CcccEEEEec
Q psy1295 16 NPKAYPLADT-AL-------------TTKILSLVQQALNYKQ-------------LRKGANEATKTLNR-GLSEFIVLAA 67 (137)
Q Consensus 16 ~~~~~p~a~~-~~-------------~~kl~~lL~~A~~ag~-------------lv~G~~~v~kaI~k-~kaklViiA~ 67 (137)
.|++-|+|+- .+ -+++.++++.|+.+|- +.+|....+.-+++ |--.++| -
T Consensus 53 vPfSDp~ADGPtIq~~n~~aL~ng~tl~~i~emvk~ar~~gvt~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfii--v 130 (268)
T KOG4175|consen 53 VPFSDPLADGPTIQAANRRALLNGTTLNSIIEMVKEARPQGVTCPIILMGYYNPILRYGVENYIQVAKNAGANGFII--V 130 (268)
T ss_pred CccCccccCCchhhhhHHHHHHcCCcHHHHHHHHHHhcccCcccceeeeecccHHHhhhHHHHHHHHHhcCCCceEe--c
Confidence 5888888864 11 3557899999999872 45677766666655 4344443 4
Q ss_pred CCChhhHHHhHHHHhHhcCCCEEEe--C--CHHHHHHHhCCCcceE--EEEEEeCC-CCChHHHHHHHHHHHHH
Q psy1295 68 DAEPLEIVLHLPLLCEDKNVPYVFV--R--SKQALGRACGVSRPII--ACSVTVDE-GSQLKPQIQAIQQQIER 134 (137)
Q Consensus 68 D~~~~~~~~~i~~lc~~~~IP~i~~--~--tk~eLG~a~G~~~~v~--~~ai~~~~-~s~~~~~i~e~~~~~~~ 134 (137)
|..|. =...+...|++++|.++-. + +.+++--.....-... +.....-+ .+.+.+.+++.+++|.+
T Consensus 131 DlPpE-Ea~~~Rne~~k~gislvpLvaPsTtdeRmell~~~adsFiYvVSrmG~TG~~~svn~~l~~L~qrvrk 203 (268)
T KOG4175|consen 131 DLPPE-EAETLRNEARKHGISLVPLVAPSTTDERMELLVEAADSFIYVVSRMGVTGTRESVNEKLQSLLQRVRK 203 (268)
T ss_pred cCChH-HHHHHHHHHHhcCceEEEeeCCCChHHHHHHHHHhhcceEEEEEeccccccHHHHHHHHHHHHHHHHH
Confidence 88886 6889999999999877632 3 3455544433332111 11222221 24688889999988875
No 48
>cd01483 E1_enzyme_family Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common reaction mechanism catalyzed by MoeB, ThiF and the E1 enzymes begins with a nucleophilic attack of the C-terminal carboxylate of MoaD, ThiS and ubiquitin, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS.
Probab=77.02 E-value=5.5 Score=28.45 Aligned_cols=36 Identities=14% Similarity=0.195 Sum_probs=30.5
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
.+..+||.+.|. .. ....+..+|+++++|++..++.
T Consensus 88 ~~~diVi~~~d~-~~-~~~~l~~~~~~~~i~~i~~~~~ 123 (143)
T cd01483 88 DGVDLVIDAIDN-IA-VRRALNRACKELGIPVIDAGGL 123 (143)
T ss_pred cCCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEcCC
Confidence 467899999997 44 6899999999999999988763
No 49
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=76.61 E-value=3.9 Score=27.22 Aligned_cols=45 Identities=13% Similarity=0.103 Sum_probs=33.8
Q ss_pred ccHHHHHHHHHcCcccEEEEecCC-Ch--hhHHHhHHHHhHhcCCCEE
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADA-EP--LEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~-~~--~~~~~~i~~lc~~~~IP~i 90 (137)
-|.....+.++.|++.+||--.+- +. .+--..+.+.|.+++||+.
T Consensus 42 ~~~~~i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 42 GGILAILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDIPGA 89 (90)
T ss_pred CCCHHHHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCCCee
Confidence 355568999999999999997653 22 2124478999999999985
No 50
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=75.00 E-value=10 Score=30.20 Aligned_cols=72 Identities=13% Similarity=0.213 Sum_probs=44.5
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHH----hCCCcceEEEEEEeCCCC-----ChHHHHHHHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRA----CGVSRPIIACSVTVDEGS-----QLKPQIQAIQ 129 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a----~G~~~~v~~~ai~~~~~s-----~~~~~i~e~~ 129 (137)
.+.+||.|.| ++. +-..+...|+.+++++..+.+. +++.. +-..-.+ .++|-.++.| .+++.++++.
T Consensus 85 g~~LViaATd-D~~-vN~~I~~~a~~~~~lvn~vd~p-~~~dFi~PAiv~rg~l-~IaIST~G~sP~lar~lR~~ie~~l 160 (223)
T PRK05562 85 DKHLIVIATD-DEK-LNNKIRKHCDRLYKLYIDCSDY-KKGLCIIPYQRSTKNF-VFALNTKGGSPKTSVFIGEKVKNFL 160 (223)
T ss_pred CCcEEEECCC-CHH-HHHHHHHHHHHcCCeEEEcCCc-ccCeEEeeeEEecCCE-EEEEECCCcCcHHHHHHHHHHHHHH
Confidence 4688999987 454 8899999999999999877664 34432 1112223 3455555443 4555555554
Q ss_pred HHHHH
Q psy1295 130 QQIER 134 (137)
Q Consensus 130 ~~~~~ 134 (137)
+..++
T Consensus 161 ~~~~~ 165 (223)
T PRK05562 161 KKYDD 165 (223)
T ss_pred HHHHH
Confidence 44443
No 51
>PLN02591 tryptophan synthase
Probab=74.16 E-value=45 Score=26.93 Aligned_cols=117 Identities=15% Similarity=0.228 Sum_probs=71.7
Q ss_pred CcccCCCCChHH--------------HHHHHHHHHHHHHcCC------------ccccHHHHHHHHHcCcccEEEEecCC
Q psy1295 16 NPKAYPLADTAL--------------TTKILSLVQQALNYKQ------------LRKGANEATKTLNRGLSEFIVLAADA 69 (137)
Q Consensus 16 ~~~~~p~a~~~~--------------~~kl~~lL~~A~~ag~------------lv~G~~~v~kaI~k~kaklViiA~D~ 69 (137)
.|++-|+|+=.+ .++++++++..|+.-+ +..|...-.+..++--+.=|++. |.
T Consensus 37 iPfSDP~aDGpvIq~a~~rAL~~G~~~~~~~~~~~~~r~~~~~p~ilm~Y~N~i~~~G~~~F~~~~~~aGv~Gviip-DL 115 (250)
T PLN02591 37 VPYSDPLADGPVIQAAATRALEKGTTLDSVISMLKEVAPQLSCPIVLFTYYNPILKRGIDKFMATIKEAGVHGLVVP-DL 115 (250)
T ss_pred CCCCCCcccCHHHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCEEEEecccHHHHhHHHHHHHHHHHcCCCEEEeC-CC
Confidence 589999997533 1245666766664311 12377777777777667777776 77
Q ss_pred ChhhHHHhHHHHhHhcCCCEEEe--CCH--HHHHHHhCCCcceEEE-E-EEe-CCCCChHHHHHHHHHHHHH
Q psy1295 70 EPLEIVLHLPLLCEDKNVPYVFV--RSK--QALGRACGVSRPIIAC-S-VTV-DEGSQLKPQIQAIQQQIER 134 (137)
Q Consensus 70 ~~~~~~~~i~~lc~~~~IP~i~~--~tk--~eLG~a~G~~~~v~~~-a-i~~-~~~s~~~~~i~e~~~~~~~ 134 (137)
++. -...+...|+++|+..+.+ +|. +++-+.........=+ + ..+ +..+.+.+.++++.+++.+
T Consensus 116 P~e-e~~~~~~~~~~~gl~~I~lv~Ptt~~~ri~~ia~~~~gFIY~Vs~~GvTG~~~~~~~~~~~~i~~vk~ 186 (250)
T PLN02591 116 PLE-ETEALRAEAAKNGIELVLLTTPTTPTERMKAIAEASEGFVYLVSSTGVTGARASVSGRVESLLQELKE 186 (250)
T ss_pred CHH-HHHHHHHHHHHcCCeEEEEeCCCCCHHHHHHHHHhCCCcEEEeeCCCCcCCCcCCchhHHHHHHHHHh
Confidence 775 6789999999999987753 443 5678777766444211 1 111 1123444556666655554
No 52
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=73.69 E-value=7.9 Score=26.62 Aligned_cols=45 Identities=11% Similarity=0.236 Sum_probs=33.2
Q ss_pred cHHHHHHHHHcCcccEEEEecCCCh-hhHHHhHHHHhHhcCCCEEE
Q psy1295 47 GANEATKTLNRGLSEFIVLAADAEP-LEIVLHLPLLCEDKNVPYVF 91 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~~~-~~~~~~i~~lc~~~~IP~i~ 91 (137)
|..+....+++|++.+||--.+-.. ..---.+.+.|-+++||++.
T Consensus 55 ~~~~i~~~i~~~~id~vIn~~~~~~~~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 55 GRPNIVDLIKNGEIQLVINTPSGKRAIRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred CchhHHHHHHcCCeEEEEECCCCCccCccHHHHHHHHHHhCCCEEe
Confidence 5677888889999999988655221 11235788999999999974
No 53
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=73.66 E-value=19 Score=31.39 Aligned_cols=68 Identities=16% Similarity=0.146 Sum_probs=55.7
Q ss_pred cCCccccHHHHHHHHHcCcccEEEEecCCCh----------------------------------------hhHHHhHHH
Q psy1295 41 YKQLRKGANEATKTLNRGLSEFIVLAADAEP----------------------------------------LEIVLHLPL 80 (137)
Q Consensus 41 ag~lv~G~~~v~kaI~k~kaklViiA~D~~~----------------------------------------~~~~~~i~~ 80 (137)
.|..+.|..++.+++.-|.+..+++..|-+. .++...+..
T Consensus 293 ~Gla~yG~~~vr~aL~~gaVd~llv~Edl~~~r~~~~c~~~~~e~~~t~~~~~~~~~~~~~~~~e~~~v~~~d~vd~l~e 372 (411)
T COG1503 293 SGLAVYGEEEVREALEMGAVDTLLVSEDLEKERVTYKCPTCGYENLKSKREFEQKRFRCPECGSEMEEVEVSDLVDELAE 372 (411)
T ss_pred cceeecchHHHHHHHHhcccceEEeeccccccceeecCCCcchhhhhcccccccccccCccccccccchhhhhHHHHHHH
Confidence 4666799999999999999999999999872 235777888
Q ss_pred HhHhcCCCEEEeCCHHHHHHHhCCCcce
Q psy1295 81 LCEDKNVPYVFVRSKQALGRACGVSRPI 108 (137)
Q Consensus 81 lc~~~~IP~i~~~tk~eLG~a~G~~~~v 108 (137)
+|+..|..+.++.+..+-|.++-.....
T Consensus 373 ~a~~~Ga~ve~is~~~~eg~q~~~afgG 400 (411)
T COG1503 373 LAEESGAKVEIISDDTDEGAQLLKAFGG 400 (411)
T ss_pred HHHhcCCeEEEecCchHHHHHHHHcccc
Confidence 8888888888888888888777666544
No 54
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=72.56 E-value=6.7 Score=26.80 Aligned_cols=47 Identities=13% Similarity=0.130 Sum_probs=30.5
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC-CHHHH
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR-SKQAL 98 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~-tk~eL 98 (137)
.++....-...+..+|+..+..|. ..+..+|++++||++..+ +..+-
T Consensus 51 ~di~~~a~~~~i~~iIltg~~~~~---~~v~~la~~~~i~vi~t~~dtf~t 98 (105)
T PF07085_consen 51 EDIQLAAIEAGIACIILTGGLEPS---EEVLELAKELGIPVISTPYDTFET 98 (105)
T ss_dssp HHHHHHHCCTTECEEEEETT-------HHHHHHHHHHT-EEEE-SS-HHHH
T ss_pred HHHHHHHHHhCCCEEEEeCCCCCC---HHHHHHHHHCCCEEEEECCCHHHH
Confidence 455555555669999999988775 688899999999999875 43333
No 55
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=72.50 E-value=12 Score=31.92 Aligned_cols=53 Identities=13% Similarity=0.070 Sum_probs=44.4
Q ss_pred cHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
+.++..+.+++.++.-|++|.+....+...++...|+.++|++...++-.++.
T Consensus 176 ~~~~l~~~i~~~~id~ViIa~p~~~~~~~~~ll~~~~~~gv~V~~vP~~~e~~ 228 (445)
T TIGR03025 176 KLDDLVELVRAHRVDEVIIALPLSEEARILELLLQLRDLGVDVRLVPDLFEFL 228 (445)
T ss_pred CHHHHHHHHHhCCCCEEEEecCcccHHHHHHHHHHHHhcCCEEEEeCchhhhc
Confidence 34677888899999999999877666577899999999999999999887753
No 56
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=71.34 E-value=31 Score=27.02 Aligned_cols=67 Identities=13% Similarity=0.160 Sum_probs=38.3
Q ss_pred CChhhHHHhHHHHhHhcCCCEEEeC--CHHHHHHHhCCCcceEEEEEEeC-----CCCChHHHHHHHHHHHHHhh
Q psy1295 69 AEPLEIVLHLPLLCEDKNVPYVFVR--SKQALGRACGVSRPIIACSVTVD-----EGSQLKPQIQAIQQQIERLL 136 (137)
Q Consensus 69 ~~~~~~~~~i~~lc~~~~IP~i~~~--tk~eLG~a~G~~~~v~~~ai~~~-----~~s~~~~~i~e~~~~~~~~~ 136 (137)
.++. -...+...+++++|++++.. ....+.+.+.++.++.++-+..- .+..+.+.++...+++.+-|
T Consensus 183 ps~~-~l~~l~~~ik~~~v~~i~~e~~~~~~~~~~la~~~g~~vv~ld~l~~~~~~~~~y~~~~~~n~~~l~~aL 256 (256)
T PF01297_consen 183 PSPK-DLAELIKLIKENKVKCIFTEPQFSSKLAEALAKETGVKVVYLDPLGGGIPDGDSYLDMMEQNLDTLAEAL 256 (256)
T ss_dssp S-HH-HHHHHHHHHHHTT-SEEEEETTS-THHHHHHHHCCT-EEEESSTTCSTTSSTTSHHHHHHHHHHHHHHHH
T ss_pred CCHH-HHHHHHHHhhhcCCcEEEecCCCChHHHHHHHHHcCCcEEEeCCCcCCCCCcCCHHHHHHHHHHHHHHhC
Confidence 3454 56677788888888888763 23444444443333333222222 14588899999888887643
No 57
>TIGR03023 WcaJ_sugtrans Undecaprenyl-phosphate glucose phosphotransferase. Colanic acid biosynthesis utilizes a glucose-undecaprenyl carrier, knockout of EpsB abolishes incorporation of UDP-glucose into the lipid phase and the C-terminal portion of GumD has been shown to be responsible for the glucosyl-1-transferase activity.
Probab=71.10 E-value=13 Score=31.70 Aligned_cols=53 Identities=15% Similarity=0.125 Sum_probs=44.7
Q ss_pred cHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
+.++..+.+++.++.-|++|-.....+-..++...|+..++++..+++-.++.
T Consensus 179 ~~~dl~~~i~~~~vd~ViIA~p~~~~~~~~~ll~~~~~~gv~V~vvP~~~e~~ 231 (451)
T TIGR03023 179 KLDDLEELIREGEVDEVYIALPLAAEDRILELLDALEDLTVDVRLVPDLFDFA 231 (451)
T ss_pred CHHHHHHHHHhcCCCEEEEeeCcccHHHHHHHHHHHHhcCCEEEEeCchhhhc
Confidence 35778888999999999999877665577899999999999999998877654
No 58
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=69.61 E-value=32 Score=28.92 Aligned_cols=80 Identities=16% Similarity=0.179 Sum_probs=48.5
Q ss_pred ccCCCCChHHHHHHHHHHHHH-HHcCC-cccc----------HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhc
Q psy1295 18 KAYPLADTALTTKILSLVQQA-LNYKQ-LRKG----------ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDK 85 (137)
Q Consensus 18 ~~~p~a~~~~~~kl~~lL~~A-~~ag~-lv~G----------~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~ 85 (137)
..-|..+++=.+.+++.++.. ...+- ++.| ..+.++.+++..+++++ |++...+...+.. .
T Consensus 106 ~~Gp~is~~~~~~~l~~~~~~l~~~d~VvlsGSlP~g~~~d~y~~li~~~~~~g~~vil---D~Sg~~L~~~L~~----~ 178 (310)
T COG1105 106 FPGPEISEAELEQFLEQLKALLESDDIVVLSGSLPPGVPPDAYAELIRILRQQGAKVIL---DTSGEALLAALEA----K 178 (310)
T ss_pred CCCCCCCHHHHHHHHHHHHHhcccCCEEEEeCCCCCCCCHHHHHHHHHHHHhcCCeEEE---ECChHHHHHHHcc----C
Confidence 344555665566666666653 33332 4445 46666666666454443 6666534444432 2
Q ss_pred CCCEEEeCCHHHHHHHhCCCc
Q psy1295 86 NVPYVFVRSKQALGRACGVSR 106 (137)
Q Consensus 86 ~IP~i~~~tk~eLG~a~G~~~ 106 (137)
|...-++..||..++|.+.
T Consensus 179 --P~lIKPN~~EL~~~~g~~~ 197 (310)
T COG1105 179 --PWLIKPNREELEALFGREL 197 (310)
T ss_pred --CcEEecCHHHHHHHhCCCC
Confidence 8888899999999999874
No 59
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=67.17 E-value=23 Score=27.80 Aligned_cols=56 Identities=7% Similarity=0.112 Sum_probs=37.9
Q ss_pred ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHH----HHHHhCCCcceEEEEEEeCCCC
Q psy1295 60 SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQA----LGRACGVSRPIIACSVTVDEGS 119 (137)
Q Consensus 60 aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~e----LG~a~G~~~~v~~~ai~~~~~s 119 (137)
+-+||.|.|- +. +-+.+...|+++++|+..+.+... +...+.+.. + .++|..++.+
T Consensus 73 ~~lviaAt~d-~~-ln~~i~~~a~~~~i~vNv~D~p~~~~f~~Pa~~~r~~-l-~iaIsT~G~s 132 (210)
T COG1648 73 AFLVIAATDD-EE-LNERIAKAARERRILVNVVDDPELCDFIFPAIVDRGP-L-QIAISTGGKS 132 (210)
T ss_pred ceEEEEeCCC-HH-HHHHHHHHHHHhCCceeccCCcccCceecceeeccCC-e-EEEEECCCCC
Confidence 8899999885 43 789999999999999966654332 333444443 3 3556566544
No 60
>PF13611 Peptidase_S76: Serine peptidase of plant viral polyprotein, P1
Probab=67.17 E-value=11 Score=27.63 Aligned_cols=30 Identities=20% Similarity=0.435 Sum_probs=25.2
Q ss_pred EecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 65 LAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 65 iA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
+|+ ++-.++...+.++|-+.|||+.+++.+
T Consensus 30 v~~-~~i~dL~~~~~~ic~ergiPIe~I~~~ 59 (121)
T PF13611_consen 30 VAN-NEIDDLVREVTEICCERGIPIEIIDKK 59 (121)
T ss_pred Eec-CcHHHHHHHHHHHHHHcCCCEEEecCc
Confidence 676 555568999999999999999999754
No 61
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=67.09 E-value=37 Score=25.47 Aligned_cols=73 Identities=26% Similarity=0.295 Sum_probs=47.2
Q ss_pred HHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH-------------HHHhCCCcceEEEEEEeCCC
Q psy1295 52 TKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL-------------GRACGVSRPIIACSVTVDEG 118 (137)
Q Consensus 52 ~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL-------------G~a~G~~~~v~~~ai~~~~~ 118 (137)
.+++..++..+++.--|+..-+--..+...-.+.++|++.+.+|.++ .+.+|.+ +..+-...+
T Consensus 71 ~~~l~~~~~D~ii~VvDa~~l~r~l~l~~ql~e~g~P~vvvlN~~D~a~~~g~~id~~~Ls~~Lg~p----vi~~sa~~~ 146 (156)
T PF02421_consen 71 RDYLLSEKPDLIIVVVDATNLERNLYLTLQLLELGIPVVVVLNKMDEAERKGIEIDAEKLSERLGVP----VIPVSARTG 146 (156)
T ss_dssp HHHHHHTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSSEEEEEETHHHHHHTTEEE-HHHHHHHHTS-----EEEEBTTTT
T ss_pred HHHHhhcCCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeCHHHHHHcCCEECHHHHHHHhCCC----EEEEEeCCC
Confidence 45566788899999888876432333445556789999998887654 4555544 334444556
Q ss_pred CChHHHHHHH
Q psy1295 119 SQLKPQIQAI 128 (137)
Q Consensus 119 s~~~~~i~e~ 128 (137)
..+.++.++|
T Consensus 147 ~g~~~L~~~I 156 (156)
T PF02421_consen 147 EGIDELKDAI 156 (156)
T ss_dssp BTHHHHHHHH
T ss_pred cCHHHHHhhC
Confidence 6776666654
No 62
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=66.68 E-value=21 Score=22.73 Aligned_cols=39 Identities=15% Similarity=0.235 Sum_probs=27.0
Q ss_pred HHHHHHcCc--ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 51 ATKTLNRGL--SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 51 v~kaI~k~k--aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
+.+++++-+ -.+.|++.| |. ....++.+|+++|-.+...
T Consensus 16 ~kkal~~l~~G~~l~V~~d~--~~-a~~di~~~~~~~G~~~~~~ 56 (69)
T cd03420 16 LKKEIDKLQDGEQLEVKASD--PG-FARDAQAWCKSTGNTLISL 56 (69)
T ss_pred HHHHHHcCCCCCEEEEEECC--cc-HHHHHHHHHHHcCCEEEEE
Confidence 445555533 246777776 33 5789999999999988744
No 63
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=65.88 E-value=16 Score=24.96 Aligned_cols=47 Identities=15% Similarity=0.099 Sum_probs=33.6
Q ss_pred CCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEE
Q psy1295 42 KQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 42 g~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i 90 (137)
++..-|..+.++.+++...+++|+.++.+.. ...+...-+..|+++-
T Consensus 13 ~~~ipga~e~l~~L~~~g~~~~~lTNns~~s--~~~~~~~L~~~Gi~~~ 59 (101)
T PF13344_consen 13 NEPIPGAVEALDALRERGKPVVFLTNNSSRS--REEYAKKLKKLGIPVD 59 (101)
T ss_dssp TEE-TTHHHHHHHHHHTTSEEEEEES-SSS---HHHHHHHHHHTTTT--
T ss_pred CCcCcCHHHHHHHHHHcCCCEEEEeCCCCCC--HHHHHHHHHhcCcCCC
Confidence 4577899999999999989999999998664 3444444488899864
No 64
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=65.77 E-value=22 Score=30.47 Aligned_cols=76 Identities=18% Similarity=0.168 Sum_probs=57.2
Q ss_pred HHHHHHHH-cCCccccHHHHHHHHHcCcccEEEEecCC------ChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 33 SLVQQALN-YKQLRKGANEATKTLNRGLSEFIVLAADA------EPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 33 ~lL~~A~~-ag~lv~G~~~v~kaI~k~kaklViiA~D~------~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
+++....+ .+.++.|.++|.+|++=|.+.-++++... ..+.-...+....+..|=+++.+.+-.+.|+-+-.=
T Consensus 261 ~fl~~iak~~~~v~YG~~eV~~A~e~GAve~LLv~De~lr~~~~~~re~~~~ll~~ve~~ggkV~Ivs~~he~Ge~Lk~l 340 (352)
T COG1537 261 EFLERLAKDDDKVAYGLEEVEKAAEYGAVETLLVTDELLRSDDVEEREDVEELLEEVESMGGKVVIVSTEHEPGERLKAL 340 (352)
T ss_pred HHHHHHhcCCCceeEcHHHHHHHHhcCcceeEEeehhhhcccchhhHHHHHHHHHHHHHcCCeEEEEecCCcchHHHHhc
Confidence 34443334 67899999999999999999999887543 332456778888899999999999888888766544
Q ss_pred cce
Q psy1295 106 RPI 108 (137)
Q Consensus 106 ~~v 108 (137)
.++
T Consensus 341 GGi 343 (352)
T COG1537 341 GGI 343 (352)
T ss_pred cCe
Confidence 344
No 65
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=65.07 E-value=12 Score=26.31 Aligned_cols=46 Identities=11% Similarity=0.114 Sum_probs=36.8
Q ss_pred ccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
.+..++...+......+++++.+..- ..+.+...|..++||+..++
T Consensus 37 ~~~~e~~~~~~~~~~DvIll~PQi~~--~~~~i~~~~~~~~ipv~~I~ 82 (104)
T PRK09590 37 ITATEGEKAIAAAEYDLYLVSPQTKM--YFKQFEEAGAKVGKPVVQIP 82 (104)
T ss_pred ecHHHHHHhhccCCCCEEEEChHHHH--HHHHHHHHhhhcCCCEEEeC
Confidence 56666666666667899999999866 48899999999999997765
No 66
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=63.97 E-value=11 Score=28.00 Aligned_cols=49 Identities=14% Similarity=0.148 Sum_probs=33.2
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHH
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQ 96 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~ 96 (137)
.+++.+++..-.+-++++..+.++..........|...++|++.+-+|.
T Consensus 84 ~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~ivvlNK~ 132 (188)
T PF00009_consen 84 IKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPIIVVLNKM 132 (188)
T ss_dssp HHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEEEEEETC
T ss_pred eecccceecccccceeeeecccccccccccccccccccccceEEeeeec
Confidence 3456666666666677777665444456777788999999988776553
No 67
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=63.81 E-value=83 Score=25.95 Aligned_cols=73 Identities=10% Similarity=0.155 Sum_probs=48.1
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH-HHhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHHh
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG-RACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG-~a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~~ 135 (137)
+++.++|+-.+-.-. -..+|-.+|++++.|.+.+.+-.+|- .|+.-...+ +|..+ .|-=..+++++.+.++++
T Consensus 208 ~~vD~miVIGg~~Ss-NT~kL~eia~~~~~~t~~Ie~~~el~~~~l~~~~~V---GItaG-ASTP~~ii~eVi~~l~~~ 281 (281)
T PF02401_consen 208 KEVDAMIVIGGKNSS-NTRKLAEIAKEHGKPTYHIETADELDPEWLKGVKKV---GITAG-ASTPDWIIEEVIDRLEEI 281 (281)
T ss_dssp CCSSEEEEES-TT-H-HHHHHHHHHHHCTTCEEEESSGGG--HHHHTT-SEE---EEEE--TTS-HHHHHHHHHHHHHH
T ss_pred hhCCEEEEecCCCCc-cHHHHHHHHHHhCCCEEEeCCccccCHhHhCCCCEE---EEEcc-CCCCHHHHHHHHHHHhcC
Confidence 467777777776664 58899999999999999999999995 455533322 34443 455556788887777653
No 68
>cd01485 E1-1_like Ubiquitin activating enzyme (E1), repeat 1-like. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. A set of novel molecules with a structural similarity to Ub, called Ub-like proteins (Ubls), have similar conjugation cascades. In contrast to ubiquitin-E1, which is a single-chain protein with a weakly conserved two-fold repeat, many of the Ubls-E1are a heterodimer where each subunit corresponds to one half of a single-chain E1. This CD represents the family homol
Probab=63.59 E-value=12 Score=28.85 Aligned_cols=35 Identities=6% Similarity=0.229 Sum_probs=28.0
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
+..+||.+.|. .. ....+..+|++++||++..++.
T Consensus 113 ~~dvVi~~~d~-~~-~~~~ln~~c~~~~ip~i~~~~~ 147 (198)
T cd01485 113 KFTLVIATEEN-YE-RTAKVNDVCRKHHIPFISCATY 147 (198)
T ss_pred CCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEEee
Confidence 46788877664 54 7888999999999999988753
No 69
>cd00757 ThiF_MoeB_HesA_family ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD and ThiS, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS. MoeB, as the MPT synthase (MoaE/MoaD complex) sulfurase, is involved in the biosynthesis of the molybdenum cofactor, a derivative of the tricyclic pterin, molybdopterin (MPT). ThiF catalyzes the adenylation of ThiS, as part of the biosynthesis pathway of thiamin pyrophosphate (vitamin B1).
Probab=63.50 E-value=12 Score=29.22 Aligned_cols=35 Identities=11% Similarity=0.013 Sum_probs=29.5
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
+..+||.|.| ++. ....+-.+|.++++|++..+..
T Consensus 111 ~~DvVi~~~d-~~~-~r~~l~~~~~~~~ip~i~~g~~ 145 (228)
T cd00757 111 GYDLVLDCTD-NFA-TRYLINDACVKLGKPLVSGAVL 145 (228)
T ss_pred CCCEEEEcCC-CHH-HHHHHHHHHHHcCCCEEEEEec
Confidence 4789999999 454 7889999999999999988654
No 70
>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase
Probab=62.23 E-value=29 Score=29.03 Aligned_cols=51 Identities=16% Similarity=0.018 Sum_probs=38.7
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC-CHHHHHHHhC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR-SKQALGRACG 103 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~-tk~eLG~a~G 103 (137)
+..+.+-+.+.-.+|++++..++ ..+...|++++||.+... ...+++..+.
T Consensus 73 ~~~~~~~~~~~P~iIvt~~~~~p---~~l~~~a~~~~ip~l~t~~~~~~~~~~l~ 124 (304)
T TIGR00679 73 QIIHNLLTLNPPAIILSKSFTDP---TVLLQVNETYQVPILKTDLFSTELSFRLE 124 (304)
T ss_pred HHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHhCCcEEEeCCcHHHHHHHHH
Confidence 34555666789999999999886 577888999999998764 5566665444
No 71
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=61.98 E-value=92 Score=25.95 Aligned_cols=72 Identities=11% Similarity=0.177 Sum_probs=48.0
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH-HhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHHh
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR-ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~-a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~~ 135 (137)
++.++|+..+-.-. -..+|-..|++++.|.+.+.+..+|-. |+--.. .++|..+ .|-=..+++++...++.+
T Consensus 210 ~vD~miVVGg~~Ss-NT~kL~~i~~~~~~~t~~Ie~~~el~~~~l~~~~---~VGitaG-ASTP~~li~eV~~~l~~~ 282 (298)
T PRK01045 210 QADLVIVVGSKNSS-NSNRLREVAEEAGAPAYLIDDASEIDPEWFKGVK---TVGVTAG-ASAPEWLVQEVIARLKEL 282 (298)
T ss_pred hCCEEEEECCCCCc-cHHHHHHHHHHHCCCEEEECChHHCcHHHhcCCC---EEEEEec-CCCCHHHHHHHHHHHHHh
Confidence 56666666665443 378999999999999999999999974 443222 2234333 454456777777766654
No 72
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=61.60 E-value=36 Score=28.05 Aligned_cols=45 Identities=18% Similarity=0.253 Sum_probs=38.1
Q ss_pred cEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH--HHHHHHhCCCc
Q psy1295 61 EFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK--QALGRACGVSR 106 (137)
Q Consensus 61 klViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk--~eLG~a~G~~~ 106 (137)
.-+|+..=++|. +...+...|+.+|||++.+.+. ..|...+|.+.
T Consensus 59 ~~iV~~Tlv~~e-lr~~l~~~~~~~~i~~vdll~p~i~~le~~lg~~p 105 (269)
T PRK05339 59 RPIVFYTLVDPE-LREILEERCAEFGIPCIDILGPLIAPLEQELGLKP 105 (269)
T ss_pred CCEEEEeCCCHH-HHHHHHHHHHHcCCCEEeccHHHHHHHHHHHCcCC
Confidence 447888888896 9999999999999999987544 78999999874
No 73
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=61.13 E-value=63 Score=26.64 Aligned_cols=100 Identities=17% Similarity=0.181 Sum_probs=57.6
Q ss_pred cccccccCCCCCCCcccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHh
Q psy1295 3 TFLYFQTNEEPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLC 82 (137)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc 82 (137)
.|+||-|+.-.+=.|.+ ++++.+...+++ ..+.+..++++|||-|.- ..--+..+=
T Consensus 32 ~~iY~~D~a~~PYG~ks----~e~I~~~~~~i~-----------------~~l~~~~ik~lVIACNTA---Sa~al~~LR 87 (269)
T COG0796 32 DIIYVGDTARFPYGEKS----EEEIRERTLEIV-----------------DFLLERGIKALVIACNTA---SAVALEDLR 87 (269)
T ss_pred cEEEEecCCCCCCCCCC----HHHHHHHHHHHH-----------------HHHHHcCCCEEEEecchH---HHHHHHHHH
Confidence 57888888877765543 455555544443 233334499999999983 455677777
Q ss_pred HhcCCCEEEeCCHHHHHHHhC--CCcceEEEEEEeCC-CCChHHHHHHH
Q psy1295 83 EDKNVPYVFVRSKQALGRACG--VSRPIIACSVTVDE-GSQLKPQIQAI 128 (137)
Q Consensus 83 ~~~~IP~i~~~tk~eLG~a~G--~~~~v~~~ai~~~~-~s~~~~~i~e~ 128 (137)
++.+||++-+- -..-.|.. ++..+.+.|.---- ...+.++++++
T Consensus 88 ~~~~iPVvGvi--Paik~A~~~t~~~~IgViaT~~Tvks~~y~~~i~~~ 134 (269)
T COG0796 88 EKFDIPVVGVI--PAIKPAVALTRNGRIGVIATPATVKSNAYRDLIARF 134 (269)
T ss_pred HhCCCCEEEec--cchHHHHHhccCCeEEEEeccchhccHHHHHHHHHh
Confidence 88899998553 22223333 33344333322111 23566666654
No 74
>cd01492 Aos1_SUMO Ubiquitin activating enzyme (E1) subunit Aos1. Aos1 is part of the heterodimeric activating enzyme (E1), specific for the SUMO family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by SUMO family of ubiquitin-like proteins (Ublps) is involved in cell division, nuclear transport, the stress response and signal transduction. Aos1 contains part of the adenylation domain.
Probab=61.04 E-value=14 Score=28.34 Aligned_cols=35 Identities=11% Similarity=0.162 Sum_probs=28.4
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
+..+||.+.| +.. ....+..+|.+++||++...+.
T Consensus 110 ~~dvVi~~~~-~~~-~~~~ln~~c~~~~ip~i~~~~~ 144 (197)
T cd01492 110 QFDVVVATEL-SRA-ELVKINELCRKLGVKFYATGVH 144 (197)
T ss_pred CCCEEEECCC-CHH-HHHHHHHHHHHcCCCEEEEEec
Confidence 4678888877 354 7889999999999999887753
No 75
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=60.89 E-value=41 Score=26.60 Aligned_cols=56 Identities=21% Similarity=0.343 Sum_probs=44.0
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhh---HHHhHHHHhHhcCCCEEEeCCHHHHHHHhCC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLE---IVLHLPLLCEDKNVPYVFVRSKQALGRACGV 104 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~---~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~ 104 (137)
.+.+.++++.|-.-+.+-.+|.+..+ ..+.+..+|++|++|+ .+.+..+|....|-
T Consensus 24 ~~~ve~al~~Gv~~vQlR~K~~~~~~~~~~a~~~~~lc~~~~v~l-iINd~~dlA~~~~A 82 (211)
T COG0352 24 LEWVEAALKGGVTAVQLREKDLSDEEYLALAEKLRALCQKYGVPL-IINDRVDLALAVGA 82 (211)
T ss_pred HHHHHHHHhCCCeEEEEecCCCChHHHHHHHHHHHHHHHHhCCeE-EecCcHHHHHhCCC
Confidence 57888889888777778888887753 4568899999999998 56777777776553
No 76
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=60.38 E-value=28 Score=30.33 Aligned_cols=53 Identities=9% Similarity=0.034 Sum_probs=44.1
Q ss_pred cHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
+.++..+.+++.++.-|++|-+..+.+-.+++...|+..++++..+++..++.
T Consensus 191 ~~~dL~~~v~~~~IdeViIAip~~~~~~l~ell~~~~~~~v~V~ivP~l~~~~ 243 (463)
T PRK10124 191 NLQQLVEDAKAGKIHNVYIAMSMCDGARVKKLVRQLADTTCSVLLIPDVFTFN 243 (463)
T ss_pred CHHHHHHHHHhCCCCEEEEeCCCcchHHHHHHHHHHHHcCCeEEEecchhhcc
Confidence 34678888999999999999887666678899999999999999998876443
No 77
>cd01141 TroA_d Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=60.35 E-value=65 Score=23.57 Aligned_cols=71 Identities=11% Similarity=0.151 Sum_probs=42.0
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC---H-------HHHHHHhCCCcceEEEEEEeCCCC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS---K-------QALGRACGVSRPIIACSVTVDEGS 119 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t---k-------~eLG~a~G~~~~v~~~ai~~~~~s 119 (137)
--.+.|.+-+-.+||....-.+. .....-+..+||++++.. . ..+|+++|. +.++
T Consensus 60 ~n~E~ll~l~PDlii~~~~~~~~----~~~~~l~~~gIpvv~i~~~~~~~~~~~~i~~~g~~~g~-----------~~~~ 124 (186)
T cd01141 60 LNVELIVALKPDLVILYGGFQAQ----TILDKLEQLGIPVLYVNEYPSPLGRAEWIKFAAAFYGV-----------GKED 124 (186)
T ss_pred CCHHHHhccCCCEEEEecCCCch----hHHHHHHHcCCCEEEeCCCCChhhHHHHHHHHHHHcCC-----------chHH
Confidence 34566777788888875432221 244444788999987752 1 236667763 2345
Q ss_pred ChHHHHHHHHHHHHHh
Q psy1295 120 QLKPQIQAIQQQIERL 135 (137)
Q Consensus 120 ~~~~~i~e~~~~~~~~ 135 (137)
+..++++++.++++++
T Consensus 125 ~a~~~i~~~~~~~~~i 140 (186)
T cd01141 125 KADEAFAQIAGRYRDL 140 (186)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5556666666666544
No 78
>PF15632 ATPgrasp_Ter: ATP-grasp in the biosynthetic pathway with Ter operon
Probab=59.43 E-value=24 Score=29.69 Aligned_cols=53 Identities=15% Similarity=0.317 Sum_probs=42.0
Q ss_pred cccHHHHHHHHHcCcccEEEEecCCChh------------------hHHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 45 RKGANEATKTLNRGLSEFIVLAADAEPL------------------EIVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 45 v~G~~~v~kaI~k~kaklViiA~D~~~~------------------~~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
.++...++++|+++ ..+-|+|+|.+|+ +....+.+.|++++|-++.-....++
T Consensus 8 ~s~~~~~i~~lr~~-~~~~i~~sh~~~~~~~~~~aD~~~~eP~~~~~yv~~~l~~C~~~~Idv~~P~~~~~~ 78 (329)
T PF15632_consen 8 FSSQRDIIRSLRAN-RDFTIIASHRDPRAPILYAADEAYLEPADGEEYVDWCLDFCKEHGIDVFVPGRNREL 78 (329)
T ss_pred CccHHHHHHHHHcC-CCeEEEEEeCCCCchHHhcCceeeecCCCHHHHHHHHHHHHHHhCCeEEEcCccHHH
Confidence 36778888999888 8888888888663 57888999999999999776644433
No 79
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=59.24 E-value=26 Score=28.77 Aligned_cols=47 Identities=15% Similarity=0.220 Sum_probs=37.9
Q ss_pred ccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
.|.....+.++..++.+||=|+---...+.+.....|++.||||+.+
T Consensus 53 l~~e~l~~~l~e~~i~llIDATHPyAa~iS~Na~~aake~gipy~r~ 99 (257)
T COG2099 53 LGAEGLAAFLREEGIDLLIDATHPYAARISQNAARAAKETGIPYLRL 99 (257)
T ss_pred CCHHHHHHHHHHcCCCEEEECCChHHHHHHHHHHHHHHHhCCcEEEE
Confidence 47888999999999999996665444456777889999999999754
No 80
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=59.14 E-value=1.2e+02 Score=26.15 Aligned_cols=59 Identities=10% Similarity=0.023 Sum_probs=43.1
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEeCC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDE 117 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~ 117 (137)
..+..+++.|+........+..+|+..++|+....+..++..++..-...-.+.|+-.+
T Consensus 206 g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~~~DlVLIDTaG 264 (388)
T PRK12723 206 SLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSKDFDLVLVDTIG 264 (388)
T ss_pred CCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhCCCCEEEEcCCC
Confidence 45889999999665567779999999999998888888888766544333334454443
No 81
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=59.08 E-value=97 Score=25.20 Aligned_cols=118 Identities=14% Similarity=0.196 Sum_probs=68.0
Q ss_pred CcccCCCCChHH--------------HHHHHHHHHHHH-HcCC---c---------cccHHHHHHHHHcCcccEEEEecC
Q psy1295 16 NPKAYPLADTAL--------------TTKILSLVQQAL-NYKQ---L---------RKGANEATKTLNRGLSEFIVLAAD 68 (137)
Q Consensus 16 ~~~~~p~a~~~~--------------~~kl~~lL~~A~-~ag~---l---------v~G~~~v~kaI~k~kaklViiA~D 68 (137)
.|++-|+|+=.+ .++++++++..+ +.-. + ..|.+.-.+..++..+.=||+ .|
T Consensus 45 iPfSDP~ADGpvIq~A~~rAL~~G~~~~~~~~~~~~ir~~~~~~pivlm~Y~N~i~~~G~e~F~~~~~~aGvdGlIi-pD 123 (259)
T PF00290_consen 45 IPFSDPVADGPVIQKASQRALKNGFTLEKIFELVKEIRKKEPDIPIVLMTYYNPIFQYGIERFFKEAKEAGVDGLII-PD 123 (259)
T ss_dssp --SSSCTTSSHHHHHHHHHHHHTT--HHHHHHHHHHHHHHCTSSEEEEEE-HHHHHHH-HHHHHHHHHHHTEEEEEE-TT
T ss_pred CCCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHhccCCCCCEEEEeeccHHhccchHHHHHHHHHcCCCEEEE-cC
Confidence 489999997543 233566777777 3221 2 246666666665544555555 57
Q ss_pred CChhhHHHhHHHHhHhcCCCEEEe--C--CHHHHHHHhCCCcceEEEEEEe---CCCCChHHHHHHHHHHHHHh
Q psy1295 69 AEPLEIVLHLPLLCEDKNVPYVFV--R--SKQALGRACGVSRPIIACSVTV---DEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 69 ~~~~~~~~~i~~lc~~~~IP~i~~--~--tk~eLG~a~G~~~~v~~~ai~~---~~~s~~~~~i~e~~~~~~~~ 135 (137)
.++. -...+...|+++|++.+.. + +.+++.+.+.......=+.-.. +....+.+.++++..++.+.
T Consensus 124 LP~e-e~~~~~~~~~~~gl~~I~lv~p~t~~~Ri~~i~~~a~gFiY~vs~~GvTG~~~~~~~~l~~~i~~ik~~ 196 (259)
T PF00290_consen 124 LPPE-ESEELREAAKKHGLDLIPLVAPTTPEERIKKIAKQASGFIYLVSRMGVTGSRTELPDELKEFIKRIKKH 196 (259)
T ss_dssp SBGG-GHHHHHHHHHHTT-EEEEEEETTS-HHHHHHHHHH-SSEEEEESSSSSSSTTSSCHHHHHHHHHHHHHT
T ss_pred CChH-HHHHHHHHHHHcCCeEEEEECCCCCHHHHHHHHHhCCcEEEeeccCCCCCCcccchHHHHHHHHHHHhh
Confidence 7775 5788999999999988754 3 3467787776655543111111 11245666777777766553
No 82
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=58.86 E-value=32 Score=27.68 Aligned_cols=53 Identities=15% Similarity=0.250 Sum_probs=42.0
Q ss_pred HcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 40 NYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 40 ~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
..|++ .|.......+++++.++||=|.--=...+.+...+.|++.||||+.+.
T Consensus 47 ~~G~l-~~~~~l~~~l~~~~i~~VIDATHPfA~~is~~a~~ac~~~~ipyiR~e 99 (248)
T PRK08057 47 RVGGF-GGAEGLAAYLREEGIDLVIDATHPYAAQISANAAAACRALGIPYLRLE 99 (248)
T ss_pred EECCC-CCHHHHHHHHHHCCCCEEEECCCccHHHHHHHHHHHHHHhCCcEEEEe
Confidence 34553 267888889999999999977665555678888999999999998764
No 83
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=58.78 E-value=25 Score=26.06 Aligned_cols=73 Identities=15% Similarity=0.221 Sum_probs=40.5
Q ss_pred CCcccCCCCChHHHHHHHHHHHHHHHcCC----------------ccccHHHHHHHHHcCcccEEEEecCCChhhHHHhH
Q psy1295 15 VNPKAYPLADTALTTKILSLVQQALNYKQ----------------LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHL 78 (137)
Q Consensus 15 ~~~~~~p~a~~~~~~kl~~lL~~A~~ag~----------------lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i 78 (137)
+.-.+.|+..+-+...|..+.+..+...+ ...|..-+.++..+.. ..++..+| . ++++.+
T Consensus 38 l~~~~~~~Ip~~Vi~EL~~l~~~~~~~~r~~ia~~~~er~~~~~~~~~aDe~i~~~a~~~~-~~iVaTnD--~-eLk~rl 113 (136)
T COG1412 38 LGAKYKPAIPSCVIRELEKLKRKHRGKARIAIALKYAERLECIHKGRYADECLLEAALKHG-RYIVATND--K-ELKRRL 113 (136)
T ss_pred hcccccccchHHHHHHHHHHHHhcCchHHHHHHHHHhhccCccccCCChHHHHHHHHHHcC-CEEEEeCC--H-HHHHHH
Confidence 33347899999888888877664333322 1223334444443333 34444444 2 255544
Q ss_pred HHHhHhcCCCEEEeCCH
Q psy1295 79 PLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 79 ~~lc~~~~IP~i~~~tk 95 (137)
++.|||+++...+
T Consensus 114 ----r~~GIPvi~lr~r 126 (136)
T COG1412 114 ----RENGIPVITLRQR 126 (136)
T ss_pred ----HHcCCCEEEEeCC
Confidence 5559999887543
No 84
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=58.68 E-value=26 Score=24.75 Aligned_cols=40 Identities=10% Similarity=0.108 Sum_probs=27.9
Q ss_pred HcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHH
Q psy1295 56 NRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQ 96 (137)
Q Consensus 56 ~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~ 96 (137)
++|-+.++|=-..--+. +-+.+.++|+++++|++.++...
T Consensus 70 ~~~~agL~i~~~~~~~~-iP~~~i~~A~~~~lPli~ip~~~ 109 (123)
T PF07905_consen 70 EKGAAGLGIKTGRYLDE-IPEEIIELADELGLPLIEIPWEV 109 (123)
T ss_pred HCCCeEEEEeccCcccc-CCHHHHHHHHHcCCCEEEeCCCC
Confidence 33555666644434443 77889999999999998887543
No 85
>TIGR03264 met_CoM_red_C methyl-coenzyme M reductase I operon protein C. has several modified sites, so accessory proteins are expected. Several methanogens have encode two such enzymes, designated I and II; this protein occurs only operons of type I. The precise function is unknown.
Probab=58.59 E-value=45 Score=26.19 Aligned_cols=103 Identities=11% Similarity=0.139 Sum_probs=67.8
Q ss_pred HHHHHHHHHcC----------CccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEE-eC---CHHH
Q psy1295 32 LSLVQQALNYK----------QLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVF-VR---SKQA 97 (137)
Q Consensus 32 ~~lL~~A~~ag----------~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~-~~---tk~e 97 (137)
-+.|.+++.+| +-.+|.++-...+-+..--.||.-.|.... +..+.+.+.+.-+||.+. .+ +-++
T Consensus 65 ts~lvLnaG~GvP~da~~~~~g~~fgl~~~E~~qI~~HklAV~h~GNvk~h-Ii~K~r~ilr~vdIP~IiVcq~PvdfEd 143 (194)
T TIGR03264 65 TSVLVLNAGSGIPPDAPRGGGGSTFGLTPEEIEQINRHKLAVIHLGNVKSH-IIYKARLILKHVDIPAIIVCQAPVDFED 143 (194)
T ss_pred cceEEEecCCCCCCcccccccccccCCCHHHHHHHhhcCEEEEEeCCHHHH-HHHHHHHHHhcCCCCEEEEeCCCcCHHH
Confidence 35677777777 667888888777655544456666676665 777777888999999883 33 6677
Q ss_pred HHHHhCCCcc----------eEEEEE---EeCCCCChHHHHHHHHHHHHHhh
Q psy1295 98 LGRACGVSRP----------IIACSV---TVDEGSQLKPQIQAIQQQIERLL 136 (137)
Q Consensus 98 LG~a~G~~~~----------v~~~ai---~~~~~s~~~~~i~e~~~~~~~~~ 136 (137)
+.+. |.+++ -.++.| .+++++-=.+.++|+..+|...|
T Consensus 144 fak~-GvkT~~vmp~~~~T~G~v~~ivtgv~Rg~t~~~~kl~eii~~v~~~l 194 (194)
T TIGR03264 144 FAKI-GVKTRAVMPLEPKTKGTVVEIVTGVIRGESCPQEKIDEIIRKVKTHL 194 (194)
T ss_pred HHHh-CcceeeccCCCCCCCceEEEEeeceecCCCCcHHHHHHHHHHHHhhC
Confidence 7654 32211 112222 23456777889999999887654
No 86
>TIGR00160 MGSA methylglyoxal synthase. Methylglyoxal synthase (MGS) generates methylglyoxal (MG), a toxic metabolite (that may also be a regulatory metabolite and) that is detoxified, prinicipally, through a pathway involving glutathione and glyoxylase I. Totemeyer, et al. (MUID:98149311) propose that, during a loss of control over carbon flux, with accumulation of phosphorylated sugars and depletion of phosphate, as might happen during a rapid shift to a richer medium, MGS aids the cell by converting some dihydroxyacetone phosphate (DHAP) to MG and phosphate. This is therefore an alternative to triosephosphate isomerase and the remainder of the glycolytic pathway for the disposal of DHAP during the stress of a sudden increase in available sugars.
Probab=57.56 E-value=24 Score=26.51 Aligned_cols=60 Identities=22% Similarity=0.299 Sum_probs=43.3
Q ss_pred cCCccccHHHHHHHHHcCcccEEEEecCC------ChhhHHHhHHHHhHhcCCCEEE-eCCHHHHHHHhC
Q psy1295 41 YKQLRKGANEATKTLNRGLSEFIVLAADA------EPLEIVLHLPLLCEDKNVPYVF-VRSKQALGRACG 103 (137)
Q Consensus 41 ag~lv~G~~~v~kaI~k~kaklViiA~D~------~~~~~~~~i~~lc~~~~IP~i~-~~tk~eLG~a~G 103 (137)
+|-+ -|..|.-..|..|++.+||.=.|- +| | .+-+.++|.-||||+-. ..|-+-|=....
T Consensus 56 SGpl-GGDqQIga~Ia~g~id~vIFf~DPl~~~phep-D-i~aLlRlc~v~nIP~AtN~aTA~~li~~~~ 122 (143)
T TIGR00160 56 SGPM-GGDQQIGALIAEGKIDAVIFFWDPLNAQPHEP-D-VKALLRLCTVWNIPLATNVATADFLIKSPH 122 (143)
T ss_pred cCCc-cHHHHHHHHHHhCCCCEEEEecCCCCCCCCCc-C-HHHHHHHHHhhCcccccCHHHHHHHHhCcc
Confidence 3443 578888888999999999999983 33 2 67788999999999854 334444444443
No 87
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=55.98 E-value=35 Score=27.47 Aligned_cols=47 Identities=15% Similarity=0.200 Sum_probs=39.2
Q ss_pred cHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
|..+....++++++.+||=|.=-=..++.+.....|++.||||+.+.
T Consensus 54 ~~~~l~~~l~~~~i~~vIDATHPfA~~is~na~~a~~~~~ipylR~e 100 (249)
T PF02571_consen 54 DEEGLAEFLRENGIDAVIDATHPFAAEISQNAIEACRELGIPYLRFE 100 (249)
T ss_pred CHHHHHHHHHhCCCcEEEECCCchHHHHHHHHHHHHhhcCcceEEEE
Confidence 67888899999999999977665555677888899999999998764
No 88
>cd00755 YgdL_like Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=55.85 E-value=28 Score=27.68 Aligned_cols=39 Identities=23% Similarity=0.353 Sum_probs=30.8
Q ss_pred HHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 54 TLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 54 aI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.+-.++..+||.|-|..+ .+..+..+|.+++||++..++
T Consensus 97 ~l~~~~~D~VvdaiD~~~--~k~~L~~~c~~~~ip~I~s~g 135 (231)
T cd00755 97 DLLGGDPDFVVDAIDSIR--AKVALIAYCRKRKIPVISSMG 135 (231)
T ss_pred HHhcCCCCEEEEcCCCHH--HHHHHHHHHHHhCCCEEEEeC
Confidence 344456889999988644 578899999999999998743
No 89
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.
Probab=55.49 E-value=90 Score=25.77 Aligned_cols=72 Identities=11% Similarity=0.143 Sum_probs=48.7
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH-HhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHH
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR-ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIER 134 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~-a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~ 134 (137)
+++.++|+-.+-+-. -..+|-..|++++.|.+.+.+..+|.. |+--... ++|..+ .|-=..+++++.+.++.
T Consensus 207 ~~vD~miVVGg~nSs-NT~rL~ei~~~~~~~t~~Ie~~~el~~~~l~~~~~---VGiTAG-ASTP~~li~eVi~~l~~ 279 (280)
T TIGR00216 207 PEVDLMIVIGGKNSS-NTTRLYEIAEEHGPPSYLIETAEELPEEWLKGVKV---VGITAG-ASTPDWIIEEVIRKIKE 279 (280)
T ss_pred hhCCEEEEECCCCCc-hHHHHHHHHHHhCCCEEEECChHHCCHHHhCCCCE---EEEEec-CCCCHHHHHHHHHHHHh
Confidence 457777777666553 478999999999999999999999974 4432222 234333 44444677777776653
No 90
>TIGR03022 WbaP_sugtrans Undecaprenyl-phosphate galactose phosphotransferase, WbaP. This model includes the enterobacterial enzymes, where the function is presumed to be identical to the S. typhimurium enzyme as well as a somewhat broader group which are likely to catalyze the same or highly similar reactions based on a phylogenetic tree-building analysis of the broader sugar transferase family. Most of these genes are found within large operons dedicated to the production of complex exopolysaccharides such as the enterobacterial O-antigen. The most likely heterogeneity would be in the precise nature of the sugar molecule transferred.
Probab=55.25 E-value=28 Score=29.77 Aligned_cols=54 Identities=19% Similarity=0.163 Sum_probs=43.1
Q ss_pred ccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCC-CEEEeCCHHHHH
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNV-PYVFVRSKQALG 99 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~I-P~i~~~tk~eLG 99 (137)
.|..+..+.+++.++.-|++|-....++...++...|++.++ ++..+++-.++.
T Consensus 175 lg~~~l~~~i~~~~id~ViIAip~~~~~~~~~ll~~l~~~~v~~V~~vP~~~e~~ 229 (456)
T TIGR03022 175 VGADDALRLYARTRYAYVIVAMPGTQAEDMARLVRKLGALHFRNVLIVPSLFGLP 229 (456)
T ss_pred cChhHHHHHHHhCCCCEEEEecCCccHHHHHHHHHHHHhCCCeEEEEeCcccccc
Confidence 444677778888899999999875554578888999999999 888888877765
No 91
>cd01491 Ube1_repeat1 Ubiquitin activating enzyme (E1), repeat 1. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Ubiquitin-E1 is a single-chain protein with a weakly conserved two-fold repeat. This CD represents the first repeat of Ub-E1.
Probab=54.96 E-value=18 Score=29.87 Aligned_cols=41 Identities=12% Similarity=0.265 Sum_probs=31.3
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRA 101 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a 101 (137)
+..+||.+.| +.. ...++-++|++++||++...+.--.|..
T Consensus 105 ~fdvVV~~~~-~~~-~~~~in~~c~~~~ipfI~a~~~G~~G~v 145 (286)
T cd01491 105 KFQVVVLTDA-SLE-DQLKINEFCHSPGIKFISADTRGLFGSI 145 (286)
T ss_pred cCCEEEEecC-CHH-HHHHHHHHHHHcCCEEEEEeccccEEEE
Confidence 3557777765 664 7889999999999999998876555543
No 92
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=54.95 E-value=41 Score=22.21 Aligned_cols=39 Identities=18% Similarity=0.330 Sum_probs=25.9
Q ss_pred HHHHHHcCc--ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 51 ATKTLNRGL--SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 51 v~kaI~k~k--aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
+.+++++-+ -.+.+++.| |. ....++.+|+..|-.+...
T Consensus 26 ~kk~l~~l~~G~~l~V~~dd--~~-~~~di~~~~~~~G~~~~~~ 66 (81)
T PRK00299 26 VRKTVRNMQPGETLLIIADD--PA-TTRDIPSFCRFMDHELLAQ 66 (81)
T ss_pred HHHHHHcCCCCCEEEEEeCC--cc-HHHHHHHHHHHcCCEEEEE
Confidence 344444432 135566666 43 6789999999999998754
No 93
>PF00899 ThiF: ThiF family; InterPro: IPR000594 Ubiquitin-activating enzyme (E1 enzyme) [, ] activates ubiquitin by first adenylating with ATP its C-terminal glycine residue and thereafter linking this residue to the side chain of a cysteine residue in E1, yielding an ubiquitin-E1 thiolester and free AMP. Later the ubiquitin moiety is transferred to a cysteine residue on one of the many forms of ubiquitin- conjugating enzymes (E2). The family of ubiquitin-activating enzymes shares in its catalytic domain significant similarity with a large family of NAD/FAD-binding proteins. This domain is based on the common NAD/FAD-binding fold and finds members of several families, including UBA ubiquitin activating enzymes; the hesA/moeB/thiF family; NADH peroxidases; the LDH family; sarcosin oxidase; phytoene dehydrogenases; alanine dehydrogenases; hydroxyacyl-CoA dehydrogenases and many other NAD/FAD dependent dehydrogenases and oxidases.; GO: 0003824 catalytic activity; PDB: 1ZKM_D 1ZUD_3 1ZFN_D 1R4M_G 2NVU_A 1R4N_C 3DBR_A 3DBH_C 3DBL_G 1YOV_A ....
Probab=54.68 E-value=20 Score=25.36 Aligned_cols=42 Identities=14% Similarity=0.275 Sum_probs=30.3
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
......+ ....+||.+.|- .. ....+..+|.++++|++..+.
T Consensus 84 ~~~~~~~--~~~d~vi~~~d~-~~-~~~~l~~~~~~~~~p~i~~~~ 125 (135)
T PF00899_consen 84 ENIEELL--KDYDIVIDCVDS-LA-ARLLLNEICREYGIPFIDAGV 125 (135)
T ss_dssp HHHHHHH--HTSSEEEEESSS-HH-HHHHHHHHHHHTT-EEEEEEE
T ss_pred ccccccc--cCCCEEEEecCC-HH-HHHHHHHHHHHcCCCEEEEEe
Confidence 3344445 356799988886 43 688899999999999998753
No 94
>PRK06628 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=54.58 E-value=47 Score=26.79 Aligned_cols=76 Identities=11% Similarity=0.102 Sum_probs=45.6
Q ss_pred CCCcccCCCCChHHHHHHHHHHHHHHHcCCcc----ccHHHHHHHHHcCcccEEEEecCCChhh------------HHHh
Q psy1295 14 AVNPKAYPLADTALTTKILSLVQQALNYKQLR----KGANEATKTLNRGLSEFIVLAADAEPLE------------IVLH 77 (137)
Q Consensus 14 ~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv----~G~~~v~kaI~k~kaklViiA~D~~~~~------------~~~~ 77 (137)
.+..++.|.-.+. -+++.+-.+. +...+++ .|.+++.+++++|. .|.+..|-++.+ +..-
T Consensus 139 ~~~~vyr~~~n~~-~d~~~~~~R~-~~g~~~i~~~~~~~r~l~k~Lk~g~--~v~il~Dq~~~~gv~v~FFG~~a~t~~~ 214 (290)
T PRK06628 139 KVAVIYRKANNPY-VNKLVNESRA-GDKLRLIPKGPEGSRALVRAIKESE--SIVMLVDQKMNDGIEVPFLGHPAMTASA 214 (290)
T ss_pred CeeEEEecCCCHH-HHHHHHHHHH-hcCCceecCCCchHHHHHHHHHcCC--eEEEEecccCCCCeeeecCCCccccchH
Confidence 4567888874443 3334333332 1122343 47899999999884 788888876531 2223
Q ss_pred HHHHhHhcCCCEEEeC
Q psy1295 78 LPLLCEDKNVPYVFVR 93 (137)
Q Consensus 78 i~~lc~~~~IP~i~~~ 93 (137)
...++...|.|++.+.
T Consensus 215 ~a~LA~~~~apvv~~~ 230 (290)
T PRK06628 215 IAKIALQYKYPIIPCQ 230 (290)
T ss_pred HHHHHHHHCCCEEEEE
Confidence 3467777777777554
No 95
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=53.25 E-value=71 Score=28.35 Aligned_cols=87 Identities=15% Similarity=0.164 Sum_probs=50.4
Q ss_pred cccHHHHHHHHHcC-cccEE---EEecC--CChhhHHHhHHHHhHhcCCCEEEeCC----H----HHHHHHhCCCcceEE
Q psy1295 45 RKGANEATKTLNRG-LSEFI---VLAAD--AEPLEIVLHLPLLCEDKNVPYVFVRS----K----QALGRACGVSRPIIA 110 (137)
Q Consensus 45 v~G~~~v~kaI~k~-kaklV---iiA~D--~~~~~~~~~i~~lc~~~~IP~i~~~t----k----~eLG~a~G~~~~v~~ 110 (137)
+.=.+.....+.+. ..+.+ -+..+ .+++ -...+....++++|++++... + +.|.+-.|.+.
T Consensus 374 vvt~H~af~YLa~~YGL~~~~~~~~~~~~ePS~~-~L~~Li~~IK~~~V~~IF~Epq~~~~~~~l~~IA~e~Gv~V---- 448 (479)
T TIGR03772 374 LITTHDAYSYLGQAYGLNIAGFVTPNPAVEPSLA-DRRRLTRTIENLKVPAVFLEPNLAARSTTLNEIADELGVRV---- 448 (479)
T ss_pred EEEECCcHHHHHHHCCCeEEeeeccCCCCCCCHH-HHHHHHHHHHHcCCCEEEEeCCCCCchHHHHHHHHHcCCcE----
Confidence 33346666666543 12221 12233 3444 467788888999999998732 2 45556666542
Q ss_pred EEEE-e--C-CCCChHHHHHHHHHHHHHhh
Q psy1295 111 CSVT-V--D-EGSQLKPQIQAIQQQIERLL 136 (137)
Q Consensus 111 ~ai~-~--~-~~s~~~~~i~e~~~~~~~~~ 136 (137)
+.+. . . ....+.+.++++.+.|.+-|
T Consensus 449 ~~l~~d~l~~~~~tY~~~M~~N~~~L~~aL 478 (479)
T TIGR03772 449 CAIYGDTFDDDVTNYVDLMRFNADSLADCL 478 (479)
T ss_pred EeeecCCCCCccccHHHHHHHHHHHHHHHh
Confidence 2221 1 1 12478899999888887654
No 96
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=53.17 E-value=11 Score=24.23 Aligned_cols=41 Identities=10% Similarity=0.423 Sum_probs=31.2
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
.+|+-..... .-....+++++|+++..+++-.+++.-||..
T Consensus 4 ~~i~F~st~~---a~~~ek~lk~~gi~~~liP~P~~i~~~CG~a 44 (73)
T PF11823_consen 4 YLITFPSTHD---AMKAEKLLKKNGIPVRLIPTPREISAGCGLA 44 (73)
T ss_pred EEEEECCHHH---HHHHHHHHHHCCCcEEEeCCChhccCCCCEE
Confidence 3444444433 4567789999999999999999999999954
No 97
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=52.72 E-value=36 Score=27.48 Aligned_cols=47 Identities=21% Similarity=0.351 Sum_probs=38.3
Q ss_pred cHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..+....++.+++.+||=|.---...+.......|++.||||+.+.
T Consensus 53 ~~~~l~~~l~~~~i~~VIDAtHPfA~~is~~a~~a~~~~~ipylR~e 99 (256)
T TIGR00715 53 DPQELREFLKRHSIDILVDATHPFAAQITTNATAVCKELGIPYVRFE 99 (256)
T ss_pred CHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 45666688899999999988776555688889999999999998763
No 98
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=52.57 E-value=46 Score=25.76 Aligned_cols=38 Identities=18% Similarity=0.219 Sum_probs=28.9
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
.+.+||.|.|-+. +-..+-..|+..+||+..+++. +++
T Consensus 69 ~~~lVi~at~d~~--ln~~i~~~a~~~~ilvn~~d~~-e~~ 106 (205)
T TIGR01470 69 GAFLVIAATDDEE--LNRRVAHAARARGVPVNVVDDP-ELC 106 (205)
T ss_pred CcEEEEECCCCHH--HHHHHHHHHHHcCCEEEECCCc-ccC
Confidence 5788999988643 6788999999999999655543 344
No 99
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=52.30 E-value=78 Score=25.54 Aligned_cols=67 Identities=6% Similarity=0.035 Sum_probs=40.8
Q ss_pred CCChhhHHHhHHHHhHhcCCCEEEeC--CHHHHHHHhCCCcceEEEEEEeC------CCCChHHHHHHHHHHHHHh
Q psy1295 68 DAEPLEIVLHLPLLCEDKNVPYVFVR--SKQALGRACGVSRPIIACSVTVD------EGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 68 D~~~~~~~~~i~~lc~~~~IP~i~~~--tk~eLG~a~G~~~~v~~~ai~~~------~~s~~~~~i~e~~~~~~~~ 135 (137)
..+|. -...+...+++++|++++.. ...++.+.+-+..++.+..+..- ++..+.+.+++..+.|.+-
T Consensus 211 eps~~-~l~~l~~~ik~~~v~~If~e~~~~~~~~~~ia~~~g~~v~~l~~l~~~~~~~~~~Y~~~m~~n~~~i~~a 285 (286)
T cd01019 211 DPGAK-RLAKIRKEIKEKGATCVFAEPQFHPKIAETLAEGTGAKVGELDPLGGLIELGKNSYVNFLRNLADSLASC 285 (286)
T ss_pred CCCHH-HHHHHHHHHHHcCCcEEEecCCCChHHHHHHHHhcCceEEEecccccccccchhhHHHHHHHHHHHHHHh
Confidence 34555 56788899999999999874 33445544444433322222211 1247788888887777653
No 100
>cd01147 HemV-2 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=52.19 E-value=84 Score=24.07 Aligned_cols=54 Identities=13% Similarity=0.215 Sum_probs=34.9
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH----------HHHHHHhCCC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK----------QALGRACGVS 105 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk----------~eLG~a~G~~ 105 (137)
.--.+.|..=+-.|||......+. ..+..+.+..++|++.+... ..||+++|++
T Consensus 64 ~~n~E~i~~l~PDLIi~~~~~~~~---~~~~~l~~~~gipvv~~~~~~~~~~~~~~i~~lg~~~g~~ 127 (262)
T cd01147 64 TPNYEKIAALKPDVVIDVGSDDPT---SIADDLQKKTGIPVVVLDGGDSLEDTPEQIRLLGKVLGKE 127 (262)
T ss_pred CCCHHHHHhcCCCEEEEecCCccc---hhHHHHHHhhCCCEEEEecCCchHhHHHHHHHHHHHhCCH
Confidence 446677778889999887554331 23344555588998876532 3578888865
No 101
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=52.14 E-value=40 Score=29.26 Aligned_cols=76 Identities=14% Similarity=0.182 Sum_probs=53.1
Q ss_pred CCCcccCCCCCh-HHHHH--HHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCCh------hhHHHhHHHHhHh
Q psy1295 14 AVNPKAYPLADT-ALTTK--ILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEP------LEIVLHLPLLCED 84 (137)
Q Consensus 14 ~~~~~~~p~a~~-~~~~k--l~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~------~~~~~~i~~lc~~ 84 (137)
-.+|+|.|...- ..+.| +.+=|. ...|+...-..+..+++..+++++.|+++==+| .+-..++..+|++
T Consensus 112 i~tPvY~PF~~~i~~n~R~~i~~pL~--~~~~~y~iD~~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~k 189 (388)
T COG1168 112 IQTPVYPPFYNAIKLNGRKVIENPLV--EDDGRYEIDFDALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLR 189 (388)
T ss_pred ecCCCchHHHHHHhhcCcEEEecccc--ccCCcEEecHHHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHH
Confidence 346888887432 11111 122222 256777778899999999999999999876655 2457789999999
Q ss_pred cCCCEEE
Q psy1295 85 KNVPYVF 91 (137)
Q Consensus 85 ~~IP~i~ 91 (137)
|||.++.
T Consensus 190 h~v~VIS 196 (388)
T COG1168 190 HGVRVIS 196 (388)
T ss_pred cCCEEEe
Confidence 9998874
No 102
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=51.95 E-value=38 Score=26.93 Aligned_cols=86 Identities=14% Similarity=0.088 Sum_probs=47.5
Q ss_pred ccccHHHHHHHHHc-CcccEEEE-ec--CCChhhHHHhHHHHhHhcCCCEEEeC--CHHHHHHHhCCCcceEEEEEEeCC
Q psy1295 44 LRKGANEATKTLNR-GLSEFIVL-AA--DAEPLEIVLHLPLLCEDKNVPYVFVR--SKQALGRACGVSRPIIACSVTVDE 117 (137)
Q Consensus 44 lv~G~~~v~kaI~k-~kaklVii-A~--D~~~~~~~~~i~~lc~~~~IP~i~~~--tk~eLG~a~G~~~~v~~~ai~~~~ 117 (137)
++. .+.....+.+ =..+.+-+ .. +.++. -...+....++++|++++.. ....+.+.+.++.++.++.+. ..
T Consensus 173 ~v~-~H~af~Y~~~~ygl~~~~~~~~~~eps~~-~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~ld-~~ 249 (266)
T cd01018 173 FMV-YHPAWGYFARDYGLTQIPIEEEGKEPSPA-DLKRLIDLAKEKGVRVVFVQPQFSTKSAEAIAREIGAKVVTID-PL 249 (266)
T ss_pred EEE-ECchhHHHHHHcCCEEEecCCCCCCCCHH-HHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHcCCeEEEeC-Cc
Confidence 444 3445555533 22333322 23 33454 56788899999999999874 223333344333334333332 33
Q ss_pred CCChHHHHHHHHHHH
Q psy1295 118 GSQLKPQIQAIQQQI 132 (137)
Q Consensus 118 ~s~~~~~i~e~~~~~ 132 (137)
++.+.+.+++..+++
T Consensus 250 ~~~y~~~m~~n~~~~ 264 (266)
T cd01018 250 AADWEENLLKVADAF 264 (266)
T ss_pred HHHHHHHHHHHHHHh
Confidence 456778888777665
No 103
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=51.74 E-value=29 Score=27.10 Aligned_cols=50 Identities=22% Similarity=0.150 Sum_probs=30.2
Q ss_pred HHHHHHHHc--CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 49 NEATKTLNR--GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 49 ~~v~kaI~k--~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
+++..++.. -..-++++..|-.+......+..++...++|++.+-+|.++
T Consensus 99 ~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~ivvvNK~D~ 150 (224)
T cd04165 99 KTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPVFVVVTKIDL 150 (224)
T ss_pred HHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEECccc
Confidence 344555542 23444555544433345667778899999998877666543
No 104
>smart00685 DM14 Repeats in fly CG4713, worm Y37H9A.3 and human FLJ20241.
Probab=51.56 E-value=10 Score=24.32 Aligned_cols=25 Identities=20% Similarity=0.195 Sum_probs=21.2
Q ss_pred HHHHHHcCCccccHHHHHHHHHcCc
Q psy1295 35 VQQALNYKQLRKGANEATKTLNRGL 59 (137)
Q Consensus 35 L~~A~~ag~lv~G~~~v~kaI~k~k 59 (137)
+..|++.++++.|..+.+++.+.|+
T Consensus 24 ~~kAr~~~R~~K~~~~~I~~~~aG~ 48 (59)
T smart00685 24 EEKARRHLRIAKQFDDAIKAARAGR 48 (59)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHCCC
Confidence 5567777889999999999999985
No 105
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=51.12 E-value=1.4e+02 Score=24.59 Aligned_cols=89 Identities=17% Similarity=0.223 Sum_probs=62.3
Q ss_pred CcccCCCCChH---------HH-----HHHHHHHHHHHHcC-C------------ccccHHHHHHHHHcCcccEEEEecC
Q psy1295 16 NPKAYPLADTA---------LT-----TKILSLVQQALNYK-Q------------LRKGANEATKTLNRGLSEFIVLAAD 68 (137)
Q Consensus 16 ~~~~~p~a~~~---------~~-----~kl~~lL~~A~~ag-~------------lv~G~~~v~kaI~k~kaklViiA~D 68 (137)
.|++-|+|+=. ++ .+.+++++..+..+ + ...|...-.+..++--+.=+++ .|
T Consensus 52 vPfSDPvADGP~Iq~A~~rAL~~g~t~~~~lel~~~~r~~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGliv-pD 130 (265)
T COG0159 52 VPFSDPVADGPTIQAAHLRALAAGVTLEDTLELVEEIRAKGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLV-PD 130 (265)
T ss_pred CCCCCcCccCHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCCCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEEEe-CC
Confidence 58999999642 22 55678888888553 2 4568888666666655666555 48
Q ss_pred CChhhHHHhHHHHhHhcCCCEEEe--C--CHHHHHHHhCCCc
Q psy1295 69 AEPLEIVLHLPLLCEDKNVPYVFV--R--SKQALGRACGVSR 106 (137)
Q Consensus 69 ~~~~~~~~~i~~lc~~~~IP~i~~--~--tk~eLG~a~G~~~ 106 (137)
..+. ....+...|++++|-++++ + +.++|-+......
T Consensus 131 LP~e-e~~~~~~~~~~~gi~~I~lvaPtt~~~rl~~i~~~a~ 171 (265)
T COG0159 131 LPPE-ESDELLKAAEKHGIDPIFLVAPTTPDERLKKIAEAAS 171 (265)
T ss_pred CChH-HHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCC
Confidence 8775 7889999999999987764 3 3467777766553
No 106
>PRK05428 HPr kinase/phosphorylase; Provisional
Probab=51.07 E-value=41 Score=28.18 Aligned_cols=42 Identities=19% Similarity=0.190 Sum_probs=33.9
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
.+..+.+-+.+.-.+|++.+..++ ..+...|++++||++...
T Consensus 72 ~~~~~~l~~~~~P~iIvt~~~~~p---~~l~~~a~~~~ipll~t~ 113 (308)
T PRK05428 72 KERLKKLFSLEPPCIIVTRGLEPP---PELLEAAKEAGIPLLRTP 113 (308)
T ss_pred HHHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHcCCcEEEeC
Confidence 344555666789999999999887 358899999999998775
No 107
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=50.79 E-value=41 Score=27.49 Aligned_cols=37 Identities=16% Similarity=0.180 Sum_probs=29.5
Q ss_pred HHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 55 LNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 55 I~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+-.++..+||.|-|. .. .+..+..+|.+++||++..+
T Consensus 117 ll~~~~D~VIdaiD~-~~-~k~~L~~~c~~~~ip~I~~g 153 (268)
T PRK15116 117 YMSAGFSYVIDAIDS-VR-PKAALIAYCRRNKIPLVTTG 153 (268)
T ss_pred HhcCCCCEEEEcCCC-HH-HHHHHHHHHHHcCCCEEEEC
Confidence 334568899999995 33 57789999999999999874
No 108
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=50.62 E-value=27 Score=23.57 Aligned_cols=37 Identities=14% Similarity=0.064 Sum_probs=26.5
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACG 103 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G 103 (137)
-+|+|+-.+. +...+...++++|||++.- ..|.+.+-
T Consensus 18 P~VvAKG~g~--~A~~I~~~A~e~~VPi~~~---~~LAr~L~ 54 (82)
T TIGR00789 18 PKVVASGVGE--VAERIIEIAKKHGIPIVED---PDLVDVLL 54 (82)
T ss_pred CEEEEEeCCH--HHHHHHHHHHHcCCCEEeC---HHHHHHHH
Confidence 3556665554 6899999999999998654 45555553
No 109
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=50.21 E-value=81 Score=25.24 Aligned_cols=64 Identities=16% Similarity=0.359 Sum_probs=41.2
Q ss_pred CCChhhHHHhHHHHhHhcCCCEEEeCC--H----HHHHHHhCCCcceEEEEEEe-C--------CCCChHHHHHHHHHHH
Q psy1295 68 DAEPLEIVLHLPLLCEDKNVPYVFVRS--K----QALGRACGVSRPIIACSVTV-D--------EGSQLKPQIQAIQQQI 132 (137)
Q Consensus 68 D~~~~~~~~~i~~lc~~~~IP~i~~~t--k----~eLG~a~G~~~~v~~~ai~~-~--------~~s~~~~~i~e~~~~~ 132 (137)
..++. -...+..+.++++|++++... . +.|.+..|.+ ++.+.. . .+..+.+.+++..+.+
T Consensus 203 eps~~-~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~----v~~ld~l~~~~~~~~~~~~~y~~~m~~n~~~l 277 (282)
T cd01017 203 EPSPK-QLAELVEFVKKSDVKYIFFEENASSKIAETLAKETGAK----LLVLNPLETLTKEEIDDGKDYFSLMKENLETL 277 (282)
T ss_pred CCCHH-HHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHcCCc----EEEeccccccchhcccccCcHHHHHHHHHHHH
Confidence 34555 567888899999999998742 2 2354555543 233322 1 1357889999988888
Q ss_pred HHhh
Q psy1295 133 ERLL 136 (137)
Q Consensus 133 ~~~~ 136 (137)
.+-|
T Consensus 278 ~~al 281 (282)
T cd01017 278 KRAL 281 (282)
T ss_pred HHHh
Confidence 7654
No 110
>TIGR00461 gcvP glycine dehydrogenase (decarboxylating). This apparently ubiquitous enzyme is found in bacterial, mammalian and plant sources. The enzyme catalyzes the reaction: GLYCINE + LIPOYLPROTEIN = S-AMINOMETHYL-DIHYDROLIPOYLPROTEIN + CO2. It is part of the glycine decarboxylase multienzyme complex (GDC) consisting of four proteins P, H, L and T. Active site in E.coli is located as the (K) residues at position 713 of the SEED alignment.
Probab=49.99 E-value=1.3e+02 Score=29.14 Aligned_cols=71 Identities=10% Similarity=0.179 Sum_probs=47.6
Q ss_pred cCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEeCC-CCChHHHHHHHHHHHHH
Q psy1295 57 RGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDE-GSQLKPQIQAIQQQIER 134 (137)
Q Consensus 57 k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~-~s~~~~~i~e~~~~~~~ 134 (137)
+++..-|+++.++.|. +..-+...++..|+.++.++ -++|-..+ + ++++.+.... .+.+. -++++.+.+++
T Consensus 150 ~~~~~~vlv~~~~hP~-~~~v~~t~a~~~g~~v~~~~-~~~l~~~~--~--~~~v~~q~Pn~~G~ie-d~~~i~~~~h~ 221 (939)
T TIGR00461 150 KKKANKFFVAKDLHPQ-TKSVLHTRAKPFGIEVIVVD-CSDIKKAV--D--VFGCLLQYPATDGSIL-DYKQLIDALHS 221 (939)
T ss_pred cCCCCEEEECCCCCcc-hHHHHHHHHHhcCcEEEEEc-HHHHhhcC--C--EEEEEEECCCCCeEEe-cHHHHHHHHHH
Confidence 3455679999999996 89999999999999988774 34565444 3 4444444433 24443 36666666654
No 111
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=49.98 E-value=80 Score=21.49 Aligned_cols=71 Identities=18% Similarity=0.238 Sum_probs=41.5
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCC-----CcceEEEEEEeCCCCChHHHHHHHHHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGV-----SRPIIACSVTVDEGSQLKPQIQAIQQQ 131 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~-----~~~v~~~ai~~~~~s~~~~~i~e~~~~ 131 (137)
.+.++++.-|++..........+....++|++.+.+|.++...... ...+ ..+-...++.+.++++.+.+.
T Consensus 80 ~~~~~v~v~d~~~~~~~~~~~~~~~~~~~~vi~v~nK~D~~~~~~~~~~~~~~~~--~~~Sa~~~~~v~~l~~~l~~~ 155 (157)
T cd04164 80 EADLVLFVIDASRGLDEEDLEILELPADKPIIVVLNKSDLLPDSELLSLLAGKPI--IAISAKTGEGLDELKEALLEL 155 (157)
T ss_pred hCCEEEEEEECCCCCCHHHHHHHHhhcCCCEEEEEEchhcCCccccccccCCCce--EEEECCCCCCHHHHHHHHHHh
Confidence 4566677667764323444444444778999999999888643321 1122 222234456777777666554
No 112
>PRK12566 glycine dehydrogenase; Provisional
Probab=49.78 E-value=1.4e+02 Score=29.00 Aligned_cols=67 Identities=12% Similarity=0.193 Sum_probs=43.4
Q ss_pred ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEe-CCCCChHHHHHHHHHHHHH
Q psy1295 60 SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTV-DEGSQLKPQIQAIQQQIER 134 (137)
Q Consensus 60 aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~-~~~s~~~~~i~e~~~~~~~ 134 (137)
-+-+++++++.|. +..-+..+|+..|+.++. .+|-...+-+ ++++.+.- +..+.+ +-++++.+.+++
T Consensus 168 ~~~~~v~~~~hP~-~~~v~~t~~~~~g~~i~~----~~~~~~~~~~--~~~v~vq~P~~~G~i-~d~~~i~~~~h~ 235 (954)
T PRK12566 168 SNRFFVDEHCHPQ-TLSVLRTRAEGFGFELVV----DAVDNLAAHA--VFGALLQYPDTHGEI-RDLRPLIDQLHG 235 (954)
T ss_pred CCEEEECCCCCHH-HHHHHHHhhhcCCcEEEE----cchhhcCCCC--EEEEEEECCCCceEE-ccHHHHHHHHHH
Confidence 4579999999996 999999999999999875 2333333333 54444433 223444 335666655543
No 113
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=49.72 E-value=30 Score=24.49 Aligned_cols=50 Identities=12% Similarity=0.058 Sum_probs=21.6
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhc--CCCEEEeCCHHHH
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDK--NVPYVFVRSKQAL 98 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~--~IP~i~~~tk~eL 98 (137)
+++.+++++-.+-++++.......+....+..+.... +.|++.+.+|.+|
T Consensus 3 ~~~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~iivlNK~DL 54 (141)
T cd01857 3 RQLWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNILLLNKADL 54 (141)
T ss_pred HHHHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEEEEechhc
Confidence 3455556555443333332211111112333333333 5666666665554
No 114
>PRK05690 molybdopterin biosynthesis protein MoeB; Provisional
Probab=49.69 E-value=23 Score=28.11 Aligned_cols=34 Identities=15% Similarity=0.102 Sum_probs=28.3
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
...+||.|.|- +. .+..+..+|.++++|++....
T Consensus 122 ~~DiVi~~~D~-~~-~r~~ln~~~~~~~ip~v~~~~ 155 (245)
T PRK05690 122 GHDLVLDCTDN-VA-TRNQLNRACFAAKKPLVSGAA 155 (245)
T ss_pred cCCEEEecCCC-HH-HHHHHHHHHHHhCCEEEEeee
Confidence 57899999984 44 788899999999999987644
No 115
>TIGR03659 IsdE heme ABC transporter, heme-binding protein isdE. This family of ABC substrate-binding proteins is observed primarily in close proximity with proteins localized to the cell wall and bearing the NEAT (NEAr Transporter, pfam05031) heme-binding domain. IsdE has been shown to bind heme and is involved in the process of scavenging heme for the purpose of obtaining iron.
Probab=49.46 E-value=1e+02 Score=24.44 Aligned_cols=51 Identities=14% Similarity=0.156 Sum_probs=33.8
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC--C-------HHHHHHHhCCC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR--S-------KQALGRACGVS 105 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~--t-------k~eLG~a~G~~ 105 (137)
.-.+.|.+-+-.+||.....++. ..+.+ ++.+||+..+. + -+.||+++|++
T Consensus 82 ~n~E~I~al~PDlIi~~~~~~~~-~~~~l----~~~gi~v~~~~~~~~~~~~~~i~~lg~~~G~~ 141 (289)
T TIGR03659 82 PDMEKIKSLKPTVVLSVTTLEED-LGPKF----KQLGVEATFLNLTSVDGMKKSITELGEKYGRE 141 (289)
T ss_pred CCHHHHhccCCcEEEEcCcccHH-HHHHH----HHcCCcEEEEcCCCHHHHHHHHHHHHHHhCCH
Confidence 44666777788999887665553 55545 45689987653 2 23578888866
No 116
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=49.12 E-value=60 Score=27.18 Aligned_cols=75 Identities=16% Similarity=0.201 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHHHc-CCccccHHHHHHHHHcCcccEEEEec--------CCChhhHHHhHHHHhHhcCCCEEEeCCHH
Q psy1295 26 ALTTKILSLVQQALNY-KQLRKGANEATKTLNRGLSEFIVLAA--------DAEPLEIVLHLPLLCEDKNVPYVFVRSKQ 96 (137)
Q Consensus 26 ~~~~kl~~lL~~A~~a-g~lv~G~~~v~kaI~k~kaklViiA~--------D~~~~~~~~~i~~lc~~~~IP~i~~~tk~ 96 (137)
.+-..|++.|+.=.+. ..+..=..++...++.-+++++||=+ ....+++...++.+|++.+||++-+|+.+
T Consensus 111 ~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~ 190 (302)
T PF05621_consen 111 RFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTRE 190 (302)
T ss_pred HHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHH
Confidence 4555666666654433 23444456677888999999998732 22345688899999999999999999998
Q ss_pred HHHH
Q psy1295 97 ALGR 100 (137)
Q Consensus 97 eLG~ 100 (137)
..-.
T Consensus 191 A~~a 194 (302)
T PF05621_consen 191 AYRA 194 (302)
T ss_pred HHHH
Confidence 7663
No 117
>PRK11018 hypothetical protein; Provisional
Probab=48.62 E-value=60 Score=21.24 Aligned_cols=39 Identities=13% Similarity=0.141 Sum_probs=25.4
Q ss_pred HHHHHHcCc-cc-EEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 51 ATKTLNRGL-SE-FIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 51 v~kaI~k~k-ak-lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
+.+++++-+ .. |.|++.|- . ....++.+|++.|-.+...
T Consensus 25 ~kk~l~~l~~G~~L~V~~d~~--~-a~~di~~~~~~~G~~v~~~ 65 (78)
T PRK11018 25 TLEALPQLKKGEILEVVSDCP--Q-SINNIPLDARNHGYTVLDI 65 (78)
T ss_pred HHHHHHhCCCCCEEEEEeCCc--c-HHHHHHHHHHHcCCEEEEE
Confidence 344554432 12 56666663 2 5789999999999988654
No 118
>cd01493 APPBP1_RUB Ubiquitin activating enzyme (E1) subunit APPBP1. APPBP1 is part of the heterodimeric activating enzyme (E1), specific for the Rub family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin(-like) by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by Rub family of ubiquitin-like proteins (Ublps) activates SCF ubiquitin ligases and is involved in cell cycle control, signaling and embryogenesis. ABPP1 contains part of the adenylation domain.
Probab=48.53 E-value=18 Score=31.54 Aligned_cols=39 Identities=23% Similarity=0.332 Sum_probs=29.1
Q ss_pred ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH
Q psy1295 60 SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR 100 (137)
Q Consensus 60 aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~ 100 (137)
..+|| +.+-++. ...++..+|.+++||++...+.--.|.
T Consensus 113 fdiVI-~t~~~~~-~~~~L~~~c~~~~iPlI~~~s~G~~G~ 151 (425)
T cd01493 113 FTVVI-ATNLPES-TLLRLADVLWSANIPLLYVRSYGLYGY 151 (425)
T ss_pred CCEEE-ECCCCHH-HHHHHHHHHHHcCCCEEEEecccCEEE
Confidence 45555 4555564 677799999999999999988666664
No 119
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=48.44 E-value=66 Score=22.68 Aligned_cols=45 Identities=16% Similarity=0.181 Sum_probs=31.7
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEE-EeCC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYV-FVRS 94 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i-~~~t 94 (137)
.++.+.+.++...++++-+|.-+. +.+.+..+-+..-.|.+ .+++
T Consensus 36 ~~~~~~l~~~~~~iIiite~~a~~-i~~~i~~~~~~~~~P~iv~IPs 81 (104)
T COG1436 36 RAALRVLAEDDVGIILITEDLAEK-IREEIRRIIRSSVLPAIVEIPS 81 (104)
T ss_pred HHHHHhhccCCceEEEEeHHHHhh-hHHHHHHHhhccCccEEEEeCC
Confidence 556666777788888888887775 77777666666667755 4566
No 120
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=48.24 E-value=62 Score=20.44 Aligned_cols=39 Identities=18% Similarity=0.261 Sum_probs=26.5
Q ss_pred HHHHHHcCcc--cEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 51 ATKTLNRGLS--EFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 51 v~kaI~k~ka--klViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
+.+++++-+. .+.|++.|-. ....++.+|++.|-.+...
T Consensus 16 ~k~~l~~l~~G~~l~V~~dd~~---s~~di~~~~~~~g~~~~~~ 56 (69)
T cd03423 16 LHKKVRKMKPGDTLLVLATDPS---TTRDIPKFCTFLGHELLAQ 56 (69)
T ss_pred HHHHHHcCCCCCEEEEEeCCCc---hHHHHHHHHHHcCCEEEEE
Confidence 4455655432 3666666642 4789999999999888754
No 121
>COG3580 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.00 E-value=1.2e+02 Score=25.92 Aligned_cols=109 Identities=19% Similarity=0.220 Sum_probs=70.4
Q ss_pred CCChHHHHHHHHHHHHHHHcCC-ccccHHHHHHHHHcCcccEEEEecC---CChhhHHHhHHHHhHhcCCCEEEeCCHHH
Q psy1295 22 LADTALTTKILSLVQQALNYKQ-LRKGANEATKTLNRGLSEFIVLAAD---AEPLEIVLHLPLLCEDKNVPYVFVRSKQA 97 (137)
Q Consensus 22 ~a~~~~~~kl~~lL~~A~~ag~-lv~G~~~v~kaI~k~kaklViiA~D---~~~~~~~~~i~~lc~~~~IP~i~~~tk~e 97 (137)
....+.+.++.+.++......+ +..--+++++.++++.-+-|++|+- .||. +-.-|+.+-...|+|+.+..|-.-
T Consensus 163 ~s~~E~~~Avqka~~~~~e~r~dir~k~~e~L~~l~~n~~~gVvLaGrPYh~Dpe-iNhgI~e~i~~~g~~IlTedsI~~ 241 (351)
T COG3580 163 LSKEENEEAVQKAWKEGEEYREDIRKKGEEVLKYLKENGEKGVVLAGRPYHFDPE-INHGIPEKINSRGIPILTEDSIPL 241 (351)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCceeEEEeCCccccCcc-cccchHHHHhhcCCeeeecccchh
Confidence 3445556666666666655544 2233378888887776666777764 3563 677888999999999998887776
Q ss_pred HHHHhC----------------------CCcc---eEEEEEEeCCCCChHHHHHHHHHH
Q psy1295 98 LGRACG----------------------VSRP---IIACSVTVDEGSQLKPQIQAIQQQ 131 (137)
Q Consensus 98 LG~a~G----------------------~~~~---v~~~ai~~~~~s~~~~~i~e~~~~ 131 (137)
+|+.-| +... |-..+-.++-++-..|+++||...
T Consensus 242 ~~~~~~~l~i~~~W~~hsr~y~AA~fvak~~nlegV~l~SFgCG~Davttd~i~eIl~~ 300 (351)
T COG3580 242 LGEIEGPLRIVNQWKYHSRLYAAAKFVAKHPNLEGVQLVSFGCGLDAVTTDLIEEILEG 300 (351)
T ss_pred hhccccceeehhhhHHHHHHHHHHHHHhcCCCeeeEEEeecccCcchhHHHHHHHHHHh
Confidence 776655 1111 222344556667888888887643
No 122
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=47.91 E-value=1.6e+02 Score=24.33 Aligned_cols=73 Identities=12% Similarity=0.149 Sum_probs=50.0
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH-HHhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHHh
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG-RACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG-~a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~~ 135 (137)
+++.++|+-.+-.-. -..+|-.+|++++.|...+.+..+|- .|+--... ++|.. +.|-=..+++++.+.++.+
T Consensus 208 ~~vD~miVVGg~~Ss-NT~rL~eia~~~~~~t~~Ie~~~el~~~~~~~~~~---VGita-GASTP~~li~eV~~~l~~~ 281 (281)
T PRK12360 208 KEVDVMIVIGGKHSS-NTQKLVKICEKNCPNTFHIETADELDLEMLKDYKI---IGITA-GASTPDWIIEEVIKKIKNL 281 (281)
T ss_pred HhCCEEEEecCCCCc-cHHHHHHHHHHHCCCEEEECChHHCCHHHhCCCCE---EEEEc-cCCCCHHHHHHHHHHHHhC
Confidence 457777777666443 37899999999999999999999995 45543222 23433 3455556788887777653
No 123
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=47.89 E-value=23 Score=24.13 Aligned_cols=34 Identities=12% Similarity=0.120 Sum_probs=24.9
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.+.+||.|.|- +. +-..+...|+.+++|+..+.+
T Consensus 60 ~~~lV~~at~d-~~-~n~~i~~~a~~~~i~vn~~D~ 93 (103)
T PF13241_consen 60 GADLVFAATDD-PE-LNEAIYADARARGILVNVVDD 93 (103)
T ss_dssp TESEEEE-SS--HH-HHHHHHHHHHHTTSEEEETT-
T ss_pred hheEEEecCCC-HH-HHHHHHHHHhhCCEEEEECCC
Confidence 36788888874 43 788999999999999876643
No 124
>PRK00865 glutamate racemase; Provisional
Probab=47.82 E-value=1.2e+02 Score=24.23 Aligned_cols=66 Identities=18% Similarity=0.280 Sum_probs=39.6
Q ss_pred cccccccCCCCCCCcccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHh
Q psy1295 3 TFLYFQTNEEPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLC 82 (137)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc 82 (137)
.|+||-|+.-.+-...+ ++++.+.+.+ ..+.+++..++.++||.|.... . -+..+-
T Consensus 32 ~~iY~~D~~~~PYG~ks----~~~i~~~~~~-----------------~~~~L~~~g~d~iVIaCNTa~~-~--~l~~lr 87 (261)
T PRK00865 32 HIIYVGDTARFPYGEKS----EEEIRERTLE-----------------IVEFLLEYGVKMLVIACNTASA-V--ALPDLR 87 (261)
T ss_pred CEEEEecCCCCCCCCCC----HHHHHHHHHH-----------------HHHHHHhCCCCEEEEeCchHHH-H--HHHHHH
Confidence 47788887665544432 3444444433 3344555678999999997553 1 233344
Q ss_pred HhcCCCEEEe
Q psy1295 83 EDKNVPYVFV 92 (137)
Q Consensus 83 ~~~~IP~i~~ 92 (137)
+..++|++-+
T Consensus 88 ~~~~iPvigi 97 (261)
T PRK00865 88 ERYDIPVVGI 97 (261)
T ss_pred HhCCCCEEee
Confidence 5668998873
No 125
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=47.07 E-value=90 Score=26.82 Aligned_cols=46 Identities=26% Similarity=0.363 Sum_probs=31.8
Q ss_pred cHHHHHHHHHcC-----cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 47 GANEATKTLNRG-----LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 47 G~~~v~kaI~k~-----kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
|...-.|.+-.| -+-||+=|.|..-+++++|+. ++++.|||++.++
T Consensus 84 GHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiL-larqvGvp~ivvf 134 (394)
T COG0050 84 GHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHIL-LARQVGVPYIVVF 134 (394)
T ss_pred ChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhh-hhhhcCCcEEEEE
Confidence 444444444333 466788888877666888874 8999999998653
No 126
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=46.78 E-value=1e+02 Score=26.45 Aligned_cols=46 Identities=22% Similarity=0.182 Sum_probs=35.3
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhC
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACG 103 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G 103 (137)
|..+..++..|.....-.+.+..+++..++|+..+.+..+|..++.
T Consensus 166 G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~ 211 (374)
T PRK14722 166 GASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALA 211 (374)
T ss_pred CCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHH
Confidence 4457788888875433578899999999999998888777766554
No 127
>TIGR00045 glycerate kinase. The only characterized member of this family so far is the glycerate kinase GlxK (EC 2.7.1.31) of E. coli. This enzyme acts after glyoxylate carboligase and 2-hydroxy-3-oxopropionate reductase (tartronate semialdehyde reductase) in the conversion of glyoxylate to 3-phosphoglycerate (the D-glycerate pathway) as a part of allantoin degradation.
Probab=46.74 E-value=1.3e+02 Score=25.93 Aligned_cols=52 Identities=10% Similarity=0.159 Sum_probs=38.6
Q ss_pred CCccccHHHHHHHH--H--cCcccEEEEecCCChhh-----HHHhHHHHhHhcCCCEEEeC
Q psy1295 42 KQLRKGANEATKTL--N--RGLSEFIVLAADAEPLE-----IVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 42 g~lv~G~~~v~kaI--~--k~kaklViiA~D~~~~~-----~~~~i~~lc~~~~IP~i~~~ 93 (137)
++++.|..-+.+.+ + =..+.+||-.+-.-..+ .-..+-++|+.++||++-+-
T Consensus 262 a~l~~G~d~v~~~~~l~~~l~~ADlVITGEG~~D~Qtl~GK~p~~Va~~A~~~~vPviai~ 322 (375)
T TIGR00045 262 ARLKPGIDLVLELLDLEQKIKDADLVITGEGRLDRQSLMGKAPVGVAKRAKKYGVPVIAIA 322 (375)
T ss_pred CEEccHHHHHHHhhCHHHHhcCCCEEEECCCcccccccCCchHHHHHHHHHHhCCeEEEEe
Confidence 47888888888776 2 25689999988753322 45677799999999998663
No 128
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=46.66 E-value=74 Score=20.15 Aligned_cols=40 Identities=10% Similarity=0.135 Sum_probs=26.6
Q ss_pred HHHHHHHcCc-cc-EEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 50 EATKTLNRGL-SE-FIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 50 ~v~kaI~k~k-ak-lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
.+.+++++-+ .. +.|++.|- . ....++.+|++.|-.+...
T Consensus 15 ~~kkal~~l~~G~~l~V~~d~~--~-s~~ni~~~~~~~g~~v~~~ 56 (69)
T cd03422 15 ATLEALPSLKPGEILEVISDCP--Q-SINNIPIDARNHGYKVLAI 56 (69)
T ss_pred HHHHHHHcCCCCCEEEEEecCc--h-HHHHHHHHHHHcCCEEEEE
Confidence 3455665543 22 55566653 2 5789999999999988754
No 129
>PF00391 PEP-utilizers: PEP-utilising enzyme, mobile domain; InterPro: IPR008279 A number of enzymes that catalyze the transfer of a phosphoryl group from phosphoenolpyruvate (PEP) via a phospho-histidine intermediate have been shown to be structurally related [, , , ]. All these enzymes share the same catalytic mechanism: they bind PEP and transfer the phosphoryl group from it to a histidine residue. This domain is a "swivelling" beta/beta/alpha domain which is thought to be mobile in all proteins known to contain it []. It is often found associated with the pyruvate phosphate dikinase, PEP/pyruvate-binding domain (IPR002192 from INTERPRO) at its N terminus.; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0016310 phosphorylation; PDB: 2X0S_A 2OLS_A 2HRO_A 2E28_A 2WQD_A 3T05_D 3T0T_D 3T07_B 2DIK_A 2FM4_A ....
Probab=46.63 E-value=46 Score=21.69 Aligned_cols=18 Identities=17% Similarity=0.337 Sum_probs=13.2
Q ss_pred HhHHHHhHhcCCCEEEeC
Q psy1295 76 LHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 76 ~~i~~lc~~~~IP~i~~~ 93 (137)
.|.--+|++.+||++.--
T Consensus 43 SH~aIlAr~~giP~ivg~ 60 (80)
T PF00391_consen 43 SHAAILARELGIPAIVGV 60 (80)
T ss_dssp SHHHHHHHHTT-EEEEST
T ss_pred chHHHHHHHcCCCEEEee
Confidence 678888999999987543
No 130
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=46.62 E-value=1.1e+02 Score=22.11 Aligned_cols=77 Identities=12% Similarity=0.113 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHcC---CccccHHHHHHHHHc-------CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC----C
Q psy1295 29 TKILSLVQQALNYK---QLRKGANEATKTLNR-------GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR----S 94 (137)
Q Consensus 29 ~kl~~lL~~A~~ag---~lv~G~~~v~kaI~k-------~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~----t 94 (137)
+.+++.|...+..| .+-.|.+.+.+.+.+ +.-+.+|+-.|..+.+-........++.||.++.++ +
T Consensus 63 ~~l~~~l~~~~~~~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillTDG~~~~~~~~~a~~lk~~gi~i~~ig~g~~~ 142 (164)
T cd01482 63 EDVLAAIKNLPYKGGNTRTGKALTHVREKNFTPDAGARPGVPKVVILITDGKSQDDVELPARVLRNLGVNVFAVGVKDAD 142 (164)
T ss_pred HHHHHHHHhCcCCCCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEcCCCCCchHHHHHHHHHHCCCEEEEEecCcCC
Confidence 34555555443222 255555555554422 245677888898775434455566677888877653 3
Q ss_pred HHHHHHHhCCC
Q psy1295 95 KQALGRACGVS 105 (137)
Q Consensus 95 k~eLG~a~G~~ 105 (137)
+.+|.+..+.+
T Consensus 143 ~~~L~~ia~~~ 153 (164)
T cd01482 143 ESELKMIASKP 153 (164)
T ss_pred HHHHHHHhCCC
Confidence 56777777765
No 131
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=46.07 E-value=61 Score=25.45 Aligned_cols=47 Identities=19% Similarity=0.237 Sum_probs=37.7
Q ss_pred ccHHHHHHHHHc----CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 46 KGANEATKTLNR----GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 46 ~G~~~v~kaI~k----~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
.|..+...|++. .++..+++|...-.-.+.+.+..+-++++||++..
T Consensus 124 VGEE~laEAVkAV~rLpRv~iLVLAGslMGGkIteaVk~lr~~hgI~VISL 174 (218)
T COG1707 124 VGEEELAEAVKAVARLPRVGILVLAGSLMGGKITEAVKELREEHGIPVISL 174 (218)
T ss_pred cChHHHHHHHHHHhccccceeEEEecccccchHHHHHHHHHHhcCCeEEEe
Confidence 476666666644 67889999988765568999999999999999865
No 132
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=46.05 E-value=1.6e+02 Score=23.79 Aligned_cols=91 Identities=14% Similarity=0.241 Sum_probs=62.0
Q ss_pred CcccCCCCChHH-HH-------------HHHHHHHHHHHcC---C----------ccccHHHHHHHHHcCcccEEEEecC
Q psy1295 16 NPKAYPLADTAL-TT-------------KILSLVQQALNYK---Q----------LRKGANEATKTLNRGLSEFIVLAAD 68 (137)
Q Consensus 16 ~~~~~p~a~~~~-~~-------------kl~~lL~~A~~ag---~----------lv~G~~~v~kaI~k~kaklViiA~D 68 (137)
.|++-|+|+=.+ ++ +++++++..++.. . +..|.....+..++--+.=+++ .|
T Consensus 47 iPfSDP~aDGpvIq~a~~~AL~~G~~~~~~~~~~~~~r~~~~~~p~vlm~Y~N~i~~~G~e~f~~~~~~aGvdGvii-pD 125 (258)
T PRK13111 47 IPFSDPVADGPVIQAASLRALAAGVTLADVFELVREIREKDPTIPIVLMTYYNPIFQYGVERFAADAAEAGVDGLII-PD 125 (258)
T ss_pred CCCCCCcccCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEecccHHhhcCHHHHHHHHHHcCCcEEEE-CC
Confidence 589999996533 22 4567777766221 1 2237777777777766777777 58
Q ss_pred CChhhHHHhHHHHhHhcCCCEEE-e-CCH--HHHHHHhCCCcce
Q psy1295 69 AEPLEIVLHLPLLCEDKNVPYVF-V-RSK--QALGRACGVSRPI 108 (137)
Q Consensus 69 ~~~~~~~~~i~~lc~~~~IP~i~-~-~tk--~eLG~a~G~~~~v 108 (137)
.++. -...+...|+++|+..+. + ++. +++..........
T Consensus 126 Lp~e-e~~~~~~~~~~~gl~~I~lvap~t~~eri~~i~~~s~gf 168 (258)
T PRK13111 126 LPPE-EAEELRAAAKKHGLDLIFLVAPTTTDERLKKIASHASGF 168 (258)
T ss_pred CCHH-HHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCCCc
Confidence 8875 688999999999998775 3 333 6788777666543
No 133
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=46.03 E-value=49 Score=23.20 Aligned_cols=39 Identities=15% Similarity=0.228 Sum_probs=25.8
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCE
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPY 89 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~ 89 (137)
.+.+.++.+++++.+||+.... . +..-+.+..++.|||+
T Consensus 51 ~~~l~~~a~~~~idlvvvGPE~--p-L~~Gl~D~l~~~gi~v 89 (100)
T PF02844_consen 51 PEELADFAKENKIDLVVVGPEA--P-LVAGLADALRAAGIPV 89 (100)
T ss_dssp HHHHHHHHHHTTESEEEESSHH--H-HHTTHHHHHHHTT-CE
T ss_pred HHHHHHHHHHcCCCEEEECChH--H-HHHHHHHHHHHCCCcE
Confidence 4556666677777777777663 2 5667777777777775
No 134
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=46.02 E-value=1.6e+02 Score=23.68 Aligned_cols=116 Identities=16% Similarity=0.149 Sum_probs=65.3
Q ss_pred CcccCCCCChHHH--------------HHHHHHHHHHHHcC---C-c---------cccHHHHHHHHHcCcccEEEEecC
Q psy1295 16 NPKAYPLADTALT--------------TKILSLVQQALNYK---Q-L---------RKGANEATKTLNRGLSEFIVLAAD 68 (137)
Q Consensus 16 ~~~~~p~a~~~~~--------------~kl~~lL~~A~~ag---~-l---------v~G~~~v~kaI~k~kaklViiA~D 68 (137)
.|++-|+|+=.+= +++++.++..++.. . + ..|...-.+...+--+.-+++. |
T Consensus 45 iPfsDP~aDGpvIq~a~~~al~~G~~~~~~~~~v~~ir~~~~~~plv~m~Y~Npi~~~G~e~f~~~~~~aGvdgviip-D 123 (256)
T TIGR00262 45 VPFSDPLADGPTIQAADLRALRAGMTPEKCFELLKKVRQKHPNIPIGLLTYYNLIFRKGVEEFYAKCKEVGVDGVLVA-D 123 (256)
T ss_pred CCCCCCCCcCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEEeccHHhhhhHHHHHHHHHHcCCCEEEEC-C
Confidence 5999999975431 34566666666431 1 1 1255555555555445555554 6
Q ss_pred CChhhHHHhHHHHhHhcCCCEEEe--C-C-HHHHHHHhCCCcce-EEEEEEeCCCC---ChHHHHHHHHHHHHH
Q psy1295 69 AEPLEIVLHLPLLCEDKNVPYVFV--R-S-KQALGRACGVSRPI-IACSVTVDEGS---QLKPQIQAIQQQIER 134 (137)
Q Consensus 69 ~~~~~~~~~i~~lc~~~~IP~i~~--~-t-k~eLG~a~G~~~~v-~~~ai~~~~~s---~~~~~i~e~~~~~~~ 134 (137)
.... -...+...|+++|+..+.+ + | .+++...+...... -++++ .+.++ .+.+.+.+..+++.+
T Consensus 124 lp~e-e~~~~~~~~~~~gl~~i~lv~P~T~~eri~~i~~~~~gfiy~vs~-~G~TG~~~~~~~~~~~~i~~lr~ 195 (256)
T TIGR00262 124 LPLE-ESGDLVEAAKKHGVKPIFLVAPNADDERLKQIAEKSQGFVYLVSR-AGVTGARNRAASALNELVKRLKA 195 (256)
T ss_pred CChH-HHHHHHHHHHHCCCcEEEEECCCCCHHHHHHHHHhCCCCEEEEEC-CCCCCCcccCChhHHHHHHHHHh
Confidence 6554 6788999999999876532 3 3 35676666655422 22222 12221 355555555555554
No 135
>PF04609 MCR_C: Methyl-coenzyme M reductase operon protein C; InterPro: IPR007687 Methyl-coenzyme M reductase (MCR) catalyses the reduction of methyl-coenzyme M (CH3-SCoM) and coenzyme B (HS-CoB) to methane and the corresponding heterosulphide CoM-S-S-CoB (2.8.4.1 from EC), the final step in methane biosynthesis. This reaction proceeds under anaerobic conditions by methanogenic Archaea [], and requires a nickel-porphinoid prosthetic group, coenzyme F430, which is in the EPR-detectable Ni(I) oxidation state in the active enzyme. Studies on a catalytically inactive enzyme aerobically co-crystallized with coenzyme M displayed a fully occupied coenzyme M-binding site with no alternate conformations. The binding of coenzyme M appears to induce specific conformational changes that suggests a molecular mechanism by which the enzyme ensures that methyl-coenzyme M enters the substrate channel prior to coenzyme B, as required by the active-site geometry []. MCR is a hexamer composed of 2 alpha, 2 beta, and 2 gamma subunits with two identical nickel porphinoid active sites, which form two long active site channels with F430 embedded at the bottom [, ]. Genes encoding the beta (mcrB) and gamma (mcrG) subunits of MCR are separated by two open reading frames coding for two proteins C and D [, ]. The function of proteins C and D is unknown. This entry represents protein C.; GO: 0003824 catalytic activity, 0015948 methanogenesis
Probab=45.71 E-value=25 Score=29.01 Aligned_cols=63 Identities=10% Similarity=0.011 Sum_probs=50.5
Q ss_pred HHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 32 LSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 32 ~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
.++|++|+.+|+=.+|.++-.+.+-+..--.|+.-.|.... +..+.+.+.+.-+||++..+.-
T Consensus 103 tn~i~L~~G~G~~~~gl~~~E~~~I~~Hd~AV~~~Gn~~~~-I~~K~~~ll~~i~iPiVv~~~P 165 (268)
T PF04609_consen 103 TNMIGLARGSGGRIFGLTPKEIEQINEHDLAVFHLGNFKSC-IIYKKRHLLRGIDIPIVVCGGP 165 (268)
T ss_pred cceEEEeccCCCCccCCCHHHHHHHhhcCEEEEEeCCHHHH-HHHHHHHHHhhcCCcEEEecCC
Confidence 47888999999989999998888766555567777777776 7777888999999997777655
No 136
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=45.58 E-value=94 Score=25.55 Aligned_cols=65 Identities=6% Similarity=0.044 Sum_probs=39.4
Q ss_pred ChhhHHHhHHHHhHhcCCCEEEeCC--HHHHHHHhCCCcceEEEEEEeCC------CCChHHHHHHHHHHHHHh
Q psy1295 70 EPLEIVLHLPLLCEDKNVPYVFVRS--KQALGRACGVSRPIIACSVTVDE------GSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 70 ~~~~~~~~i~~lc~~~~IP~i~~~t--k~eLG~a~G~~~~v~~~ai~~~~------~s~~~~~i~e~~~~~~~~ 135 (137)
+++ -...+....++++|+++++.. .....+.+....++.++.+..-. +..+.++++...+++.+=
T Consensus 237 s~~-~l~~l~~~ik~~~v~~If~e~~~~~~~~~~la~e~g~~v~~ldpl~~~~~~~~~~Y~~~m~~n~~~l~~~ 309 (311)
T PRK09545 237 GAQ-RLHEIRTQLVEQKATCVFAEPQFRPAVIESVAKGTSVRMGTLDPLGTNIKLGKDSYSEFLSQLANQYASC 309 (311)
T ss_pred CHH-HHHHHHHHHHHcCCCEEEecCCCChHHHHHHHHhcCCeEEEeccccccccCCHhHHHHHHHHHHHHHHHH
Confidence 455 567788999999999998743 23344443333333333332211 146888888888877653
No 137
>TIGR02356 adenyl_thiF thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily. Members of the HesA/MoeB/ThiF family of proteins (pfam00899) include a number of members encoded in the midst of thiamine biosynthetic operons. This mix of known and putative ThiF proteins shows a deep split in phylogenetic trees, with the Escherichia. coli ThiF and the E. coli MoeB proteins seemingly more closely related than E. coli ThiF and Campylobacter (for example) ThiF. This model represents the more widely distributed clade of ThiF proteins such found in E. coli.
Probab=45.30 E-value=33 Score=26.34 Aligned_cols=35 Identities=9% Similarity=0.085 Sum_probs=28.8
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.+..+||.|.|- +. ....+..+|.++++|++....
T Consensus 110 ~~~D~Vi~~~d~-~~-~r~~l~~~~~~~~ip~i~~~~ 144 (202)
T TIGR02356 110 NNVDLVLDCTDN-FA-TRYLINDACVALGTPLISAAV 144 (202)
T ss_pred hCCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEEe
Confidence 357899999886 43 688899999999999998764
No 138
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=45.25 E-value=14 Score=26.04 Aligned_cols=45 Identities=20% Similarity=0.186 Sum_probs=32.7
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+++...|.+.+--++++...+.-....+.+.++++..++|++...
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~ 46 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTP 46 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEG
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecC
Confidence 567777877766666666665533478899999999999998765
No 139
>cd01821 Rhamnogalacturan_acetylesterase_like Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are highly branched regions in pectic polysaccharides, consisting of repeating -(1,2)-L-Rha-(1,4)-D-GalUA disaccharide units, with many rhamnose residues substituted by neutral oligosaccharides such as arabinans, galactans and arabinogalactans. Extracellular enzymes participating in the degradation of plant cell wall polymers, such as Rhamnogalacturonan acetylesterase, would typically be found in saprophytic and plant pathogenic fungi and bacteria.
Probab=45.21 E-value=58 Score=24.04 Aligned_cols=22 Identities=14% Similarity=0.241 Sum_probs=18.6
Q ss_pred HHHhHHHHhHhcCCCEEEeCCH
Q psy1295 74 IVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~tk 95 (137)
+...+..+|+++++|++-..+.
T Consensus 134 ~~~~~~~~a~~~~~~~vD~~~~ 155 (198)
T cd01821 134 YPAAMRELAAEEGVPLIDLNAA 155 (198)
T ss_pred HHHHHHHHHHHhCCCEEecHHH
Confidence 6788999999999999876543
No 140
>cd01143 YvrC Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains.
Probab=44.85 E-value=1.2e+02 Score=22.00 Aligned_cols=52 Identities=13% Similarity=0.280 Sum_probs=33.6
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH----------HHHHHHhCCC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK----------QALGRACGVS 105 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk----------~eLG~a~G~~ 105 (137)
.--.+.|.+-+-.+||......+. .....++.++|++.+... ..||+++|++
T Consensus 50 ~~n~E~l~~l~PDlii~~~~~~~~-----~~~~l~~~gi~v~~~~~~~~~~~~~~~~~~lg~~~g~~ 111 (195)
T cd01143 50 NPNVEKIVALKPDLVIVSSSSLAE-----LLEKLKDAGIPVVVLPAASSLDEIYDQIELIGKITGAE 111 (195)
T ss_pred CCCHHHHhccCCCEEEEcCCcCHH-----HHHHHHHcCCcEEEeCCCCCHHHHHHHHHHHHHHhCCh
Confidence 345667777788898875543332 334457889998766421 2688888875
No 141
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=44.52 E-value=1.1e+02 Score=21.49 Aligned_cols=74 Identities=14% Similarity=0.108 Sum_probs=39.7
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHh------cCCCEEEeCCHHHHHHHhC----------CCcceEEEEEEeCCCCChH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCED------KNVPYVFVRSKQALGRACG----------VSRPIIACSVTVDEGSQLK 122 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~------~~IP~i~~~tk~eLG~a~G----------~~~~v~~~ai~~~~~s~~~ 122 (137)
.+..+++.-|.+..+....+..+.+. .++|++.+++|.+|-..-. ....+...-+-...+..+.
T Consensus 74 ~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~ 153 (166)
T cd01869 74 GAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVE 153 (166)
T ss_pred cCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHH
Confidence 45666666666543334443333222 4689999988877632211 1112222223334456777
Q ss_pred HHHHHHHHHH
Q psy1295 123 PQIQAIQQQI 132 (137)
Q Consensus 123 ~~i~e~~~~~ 132 (137)
++++.+..++
T Consensus 154 ~~~~~i~~~~ 163 (166)
T cd01869 154 QAFMTMAREI 163 (166)
T ss_pred HHHHHHHHHH
Confidence 7887776655
No 142
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=44.39 E-value=33 Score=23.43 Aligned_cols=45 Identities=16% Similarity=0.242 Sum_probs=34.3
Q ss_pred ccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.+..++...+ ....+|+++..... ..+.+...++.+|+|+..++.
T Consensus 39 ~~~~~~~~~~--~~~Dvill~pqi~~--~~~~i~~~~~~~~ipv~~I~~ 83 (95)
T TIGR00853 39 GSYGAAGEKL--DDADVVLLAPQVAY--MLPDLKKETDKKGIPVEVING 83 (95)
T ss_pred ecHHHHHhhc--CCCCEEEECchHHH--HHHHHHHHhhhcCCCEEEeCh
Confidence 3555554444 45789999999866 478899999999999987754
No 143
>COG1493 HprK Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]
Probab=44.18 E-value=73 Score=26.86 Aligned_cols=50 Identities=12% Similarity=0.036 Sum_probs=38.3
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC-CHHHHHH
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR-SKQALGR 100 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~-tk~eLG~ 100 (137)
..+..+.+-+-+--.+|++++..+. ..+...|++++||+.... +..+|..
T Consensus 70 r~~~i~~~~~~~~P~iI~sk~~~~p---~~l~~~a~~~~~pil~s~~~ts~l~~ 120 (308)
T COG1493 70 RKKRIGKLFSLDTPALIVSKGLPIP---EELLDAAKKYNIPILTSKLSTSELSF 120 (308)
T ss_pred HHHHHHHHhCcCCCEEEEECCCCCC---HHHHHHHHHcCCceEEecchHHHHHH
Confidence 3455566667788999999999886 678899999999998774 4455443
No 144
>TIGR02181 GRX_bact Glutaredoxin, GrxC family. This family of glutaredoxins includes the E. coli protein GrxC (Grx3) which appears to have a secondary role in reducing ribonucleotide reductase (in the absence of GrxA) possibly indicating a role in the reduction of other protein disulfides.
Probab=44.03 E-value=80 Score=19.78 Aligned_cols=14 Identities=21% Similarity=0.204 Sum_probs=6.7
Q ss_pred HHHHhHhcCCCEEE
Q psy1295 78 LPLLCEDKNVPYVF 91 (137)
Q Consensus 78 i~~lc~~~~IP~i~ 91 (137)
...+.++++|+|..
T Consensus 15 a~~~L~~~~i~~~~ 28 (79)
T TIGR02181 15 AKALLSSKGVTFTE 28 (79)
T ss_pred HHHHHHHcCCCcEE
Confidence 33444455555543
No 145
>cd04142 RRP22 RRP22 subfamily. RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.
Probab=43.58 E-value=1.2e+02 Score=22.89 Aligned_cols=74 Identities=16% Similarity=0.071 Sum_probs=39.0
Q ss_pred cccEEEEecCCChhhHHHhHHHHhH---------hcCCCEEEeCCHHHHHH-----------HhCCCcceEEEEEEeCCC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCE---------DKNVPYVFVRSKQALGR-----------ACGVSRPIIACSVTVDEG 118 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~---------~~~IP~i~~~tk~eLG~-----------a~G~~~~v~~~ai~~~~~ 118 (137)
.+..+++.=|++..+....+..+-+ ..++|++.+++|.+|.. ++.+..++...-+-...+
T Consensus 80 ~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g 159 (198)
T cd04142 80 NSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYN 159 (198)
T ss_pred cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCC
Confidence 4666666666654433333332221 36799999998877721 222222222122222344
Q ss_pred CChHHHHHHHHHHH
Q psy1295 119 SQLKPQIQAIQQQI 132 (137)
Q Consensus 119 s~~~~~i~e~~~~~ 132 (137)
..+.++++++...+
T Consensus 160 ~~v~~lf~~i~~~~ 173 (198)
T cd04142 160 WHILLLFKELLISA 173 (198)
T ss_pred CCHHHHHHHHHHHh
Confidence 56777777766543
No 146
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=43.31 E-value=2e+02 Score=24.14 Aligned_cols=73 Identities=10% Similarity=0.117 Sum_probs=52.1
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH-HhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHHh
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR-ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~-a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~~ 135 (137)
.++.++++-.+..-. -..++..+|++++.|-+-+.+-++|.. |++-. . .+++..+ .|-=-.+++++.+++.++
T Consensus 211 ~~~Dl~iVVG~~nSS-Ns~rL~eiA~~~g~~aylId~~~ei~~~w~~~~-~--~VGvTAG-AStPd~lV~~Vi~~l~~~ 284 (294)
T COG0761 211 PEVDLVIVVGSKNSS-NSNRLAEIAKRHGKPAYLIDDAEEIDPEWLKGV-K--TVGVTAG-ASTPDWLVQEVIAKLREL 284 (294)
T ss_pred hcCCEEEEECCCCCc-cHHHHHHHHHHhCCCeEEeCChHhCCHHHhcCc-c--EEEEecC-CCCCHHHHHHHHHHHHHh
Confidence 458888888888775 578999999999999999999999885 44432 2 2344333 344445777777777654
No 147
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=42.95 E-value=72 Score=18.97 Aligned_cols=43 Identities=21% Similarity=0.222 Sum_probs=24.6
Q ss_pred HHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 51 ATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 51 v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
+.+.+++..+..-++==|.++. ..+.+..+.....+|.+++++
T Consensus 15 ~~~~L~~~~i~y~~~dv~~~~~-~~~~l~~~~g~~~~P~v~i~g 57 (60)
T PF00462_consen 15 AKEFLDEKGIPYEEVDVDEDEE-AREELKELSGVRTVPQVFIDG 57 (60)
T ss_dssp HHHHHHHTTBEEEEEEGGGSHH-HHHHHHHHHSSSSSSEEEETT
T ss_pred HHHHHHHcCCeeeEcccccchh-HHHHHHHHcCCCccCEEEECC
Confidence 4445555556655555554443 566666666666677666643
No 148
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=42.83 E-value=67 Score=25.73 Aligned_cols=41 Identities=12% Similarity=0.243 Sum_probs=32.6
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
.++.+.+++++++.||.-...+++ ..+ .++++.|+|++.+.
T Consensus 210 ~~l~~~ik~~~v~~if~e~~~~~~-~~~---~la~~~g~~v~~ld 250 (282)
T cd01017 210 AELVEFVKKSDVKYIFFEENASSK-IAE---TLAKETGAKLLVLN 250 (282)
T ss_pred HHHHHHHHHcCCCEEEEeCCCChH-HHH---HHHHHcCCcEEEec
Confidence 566777889999999999988876 444 47889999988764
No 149
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=42.57 E-value=1.1e+02 Score=20.98 Aligned_cols=45 Identities=27% Similarity=0.172 Sum_probs=29.6
Q ss_pred HHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 54 TLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 54 aI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
.+....+..+++.-|.+..+........+...++|++.+.+|.++
T Consensus 69 ~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl 113 (158)
T cd01879 69 FLLGEKPDLIVNVVDATNLERNLYLTLQLLELGLPVVVALNMIDE 113 (158)
T ss_pred HhcCCCCcEEEEEeeCCcchhHHHHHHHHHHcCCCEEEEEehhhh
Confidence 343356677777767665433334444566789999999999877
No 150
>cd07984 LPLAT_LABLAT-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are such LPLATs as lipid A biosynthesis lauroyl/myristoyl (LABLAT, HtrB) acyltransferases and similar proteins.
Probab=42.46 E-value=79 Score=23.05 Aligned_cols=85 Identities=15% Similarity=0.175 Sum_probs=47.8
Q ss_pred ccHHHHHHHHHcCcccEEEEecCCCh--hh------------HHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEE
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADAEP--LE------------IVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIAC 111 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~~~--~~------------~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ 111 (137)
.+.+++.+++++|+ .|.+..|... .. +..-...++...++|++.+....+= -| ...+-..
T Consensus 78 ~~~~~~~~~l~~g~--~v~i~pD~~~~~~~~~~~~F~G~~~~~~~G~~~lA~~~~~pivp~~~~~~~---~~-~~~i~~~ 151 (192)
T cd07984 78 GGLRELIRALKKGE--IVGILPDQDPGRKGGVFVPFFGRPAATPTGPARLALKTGAPVVPAFAYRLP---GG-GYRIEFE 151 (192)
T ss_pred chHHHHHHHHhCCC--EEEEEeCCCCCCCCCEEeccCCCCccchHHHHHHHHHHCCcEEEEEEEEcC---CC-CEEEEEe
Confidence 46888999998886 4455545443 11 3455668899999999865432110 01 1111111
Q ss_pred -EEEeCCCCChHHHHHHHHHHHHHhh
Q psy1295 112 -SVTVDEGSQLKPQIQAIQQQIERLL 136 (137)
Q Consensus 112 -ai~~~~~s~~~~~i~e~~~~~~~~~ 136 (137)
.+......+..+..+.+.+.+|+++
T Consensus 152 ~~i~~~~~~~~~~~~~~~~~~lE~~i 177 (192)
T cd07984 152 PPLENPPSEDVEEDTQRLNDALEAAI 177 (192)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHH
Confidence 1111113567777777777777654
No 151
>COG2121 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.42 E-value=83 Score=25.18 Aligned_cols=118 Identities=20% Similarity=0.256 Sum_probs=65.0
Q ss_pred CCCCCcccCCCC-----------ChHHHHHHHHHHHHHHHcCCcccc----HHHHHHHHHcCcccEEEEecCCCh---hh
Q psy1295 12 EPAVNPKAYPLA-----------DTALTTKILSLVQQALNYKQLRKG----ANEATKTLNRGLSEFIVLAADAEP---LE 73 (137)
Q Consensus 12 ~~~~~~~~~p~a-----------~~~~~~kl~~lL~~A~~ag~lv~G----~~~v~kaI~k~kaklViiA~D~~~---~~ 73 (137)
|..+.|+++|-- |-++..++.+-+|.=.--|.=-.| ..+..+++++| +=+.+..|.+. .+
T Consensus 56 ~l~l~p~~~~~~~~~~amvS~s~DGEliA~~l~kfG~~~IRGSs~Kgg~~Alr~l~k~Lk~G--~~i~itpDgPkGp~~~ 133 (214)
T COG2121 56 QLALGPFAFPKGKKIYAMVSPSRDGELIARLLEKFGLRVIRGSSNKGGISALRALLKALKQG--KSIAITPDGPKGPVHK 133 (214)
T ss_pred ccccchhhccCCCcEEEEEcCCcCHHHHHHHHHHcCceEEeccCCcchHHHHHHHHHHHhCC--CcEEEcCCCCCCCcee
Confidence 567788887754 335566665555432111111223 34445555555 56778888754 34
Q ss_pred HHHhHHHHhHhcCCCEEEeC---CH-HHHHHH----hCCCcceEEEEEEeCC-----CCChHHHHHHHHHHHH
Q psy1295 74 IVLHLPLLCEDKNVPYVFVR---SK-QALGRA----CGVSRPIIACSVTVDE-----GSQLKPQIQAIQQQIE 133 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~---tk-~eLG~a----~G~~~~v~~~ai~~~~-----~s~~~~~i~e~~~~~~ 133 (137)
..+-+..+++.+|+|++.+. ++ ..|-.| +-+++.- +.+..+. .++..+.+++..+++.
T Consensus 134 ~~~Gii~LA~~sg~pi~pv~~~~sr~~~lKsWDk~~IP~PFgk--~~i~~gePi~~~~D~~~~~l~~~~~~~~ 204 (214)
T COG2121 134 IGDGIIALAQKSGVPIIPVGVATSRCWRLKTWDKTIIPLPFGK--IKIVLGEPIEVDADKDKEELEEKRQEVS 204 (214)
T ss_pred ccchhhHhhHhcCCCeEEEEEeeeeeeeecccccccccCccce--eEEEecCceeecccccHHHHHHHHHHHH
Confidence 67789999999999988653 22 122222 1122221 2233333 3667777777777664
No 152
>cd01863 Rab18 Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=42.20 E-value=64 Score=22.47 Aligned_cols=73 Identities=7% Similarity=0.109 Sum_probs=40.2
Q ss_pred cccEEEEecCCChhhH-------HHhHHHHhHhcCCCEEEeCCHHHHHHHh---------CCCcceEEEEEEeCCCCChH
Q psy1295 59 LSEFIVLAADAEPLEI-------VLHLPLLCEDKNVPYVFVRSKQALGRAC---------GVSRPIIACSVTVDEGSQLK 122 (137)
Q Consensus 59 kaklViiA~D~~~~~~-------~~~i~~lc~~~~IP~i~~~tk~eLG~a~---------G~~~~v~~~ai~~~~~s~~~ 122 (137)
.+..+++.-|.+..+. ...+..++...++|++.+++|.++.... .....+...-+-...+..+.
T Consensus 72 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~ 151 (161)
T cd01863 72 GAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENREVTREEGLKFARKHNMLFIETSAKTRDGVQ 151 (161)
T ss_pred CCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccccCHHHHHHHHHHcCCEEEEEecCCCCCHH
Confidence 3556666666654322 2333455667889999888887764111 11122222333334456787
Q ss_pred HHHHHHHHH
Q psy1295 123 PQIQAIQQQ 131 (137)
Q Consensus 123 ~~i~e~~~~ 131 (137)
++++++...
T Consensus 152 ~~~~~~~~~ 160 (161)
T cd01863 152 QAFEELVEK 160 (161)
T ss_pred HHHHHHHHh
Confidence 777776654
No 153
>cd01822 Lysophospholipase_L1_like Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity.
Probab=42.17 E-value=80 Score=22.43 Aligned_cols=45 Identities=20% Similarity=0.257 Sum_probs=27.6
Q ss_pred HHHHHHHHHcCcccEEEEecCCCh-------hhHHHhHHHHhHhcCCCEEEe
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEP-------LEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~-------~~~~~~i~~lc~~~~IP~i~~ 92 (137)
..+.++.+++..++++++..-..+ ..+...+..+|++++++++-.
T Consensus 90 l~~li~~~~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~d~ 141 (177)
T cd01822 90 LRQMIETAQARGAPVLLVGMQAPPNYGPRYTRRFAAIYPELAEEYGVPLVPF 141 (177)
T ss_pred HHHHHHHHHHCCCeEEEEecCCCCccchHHHHHHHHHHHHHHHHcCCcEech
Confidence 344555555556677666432111 135677888999999998753
No 154
>COG4639 Predicted kinase [General function prediction only]
Probab=42.16 E-value=1.2e+02 Score=23.34 Aligned_cols=45 Identities=16% Similarity=0.002 Sum_probs=31.8
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEE--eCCHH
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVF--VRSKQ 96 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~--~~tk~ 96 (137)
+....+++|+ .-||=|.+..+. ....+.++|..|+...+. +.+..
T Consensus 61 ~l~qrl~~Gk-~tiidAtn~rr~-~r~~l~~La~~y~~~~~~ivfdtp~ 107 (168)
T COG4639 61 QLEQRLRRGK-FTIIDATNLRRE-DRRKLIDLAKAYGYKIYAIVFDTPL 107 (168)
T ss_pred HHHHHHHcCC-eEEEEcccCCHH-HHHHHHHHHHHhCCeEEEEEEeCCH
Confidence 3444455564 356778999886 899999999999986543 34543
No 155
>PRK06512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=41.92 E-value=1.2e+02 Score=23.88 Aligned_cols=55 Identities=7% Similarity=0.072 Sum_probs=37.1
Q ss_pred HHHHHHHcCcccEEEE-ecCCChhh---HHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 50 EATKTLNRGLSEFIVL-AADAEPLE---IVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 50 ~v~kaI~k~kaklVii-A~D~~~~~---~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
.+..++..|.+.+|.+ .+|.++.+ +...+..+|+.+++|+ .+.+..++...+|-+
T Consensus 31 ~l~~al~~G~v~~vQlR~K~l~~~~~~~~a~~l~~l~~~~gv~l-iINd~~dlA~~~~ad 89 (221)
T PRK06512 31 LLRAALQGGDVASVILPQYGLDEATFQKQAEKLVPVIQEAGAAA-LIAGDSRIAGRVKAD 89 (221)
T ss_pred HHHHHHcCCCccEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCEE-EEeCHHHHHHHhCCC
Confidence 3344555564444444 66776653 4678889999999997 467778888777743
No 156
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=41.88 E-value=1e+02 Score=26.92 Aligned_cols=49 Identities=18% Similarity=0.198 Sum_probs=44.2
Q ss_pred HcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCC
Q psy1295 56 NRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGV 104 (137)
Q Consensus 56 ~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~ 104 (137)
..++-+.-||.-|+-.-.-.+.+..+|+..|+|++-+.+.++|-.++.-
T Consensus 230 ~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~ 278 (407)
T COG1419 230 LKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEA 278 (407)
T ss_pred hccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHH
Confidence 5778899999999988777899999999999999999999999998773
No 157
>COG1803 MgsA Methylglyoxal synthase [Carbohydrate transport and metabolism]
Probab=41.80 E-value=52 Score=24.55 Aligned_cols=59 Identities=17% Similarity=0.180 Sum_probs=45.8
Q ss_pred ccHHHHHHHHHcCcccEEEEecCC------ChhhHHHhHHHHhHhcCCCEE-EeCCHHHHHHHhCCCc
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADA------EPLEIVLHLPLLCEDKNVPYV-FVRSKQALGRACGVSR 106 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~------~~~~~~~~i~~lc~~~~IP~i-~~~tk~eLG~a~G~~~ 106 (137)
-|..|+=..|..|++.++|.-.|- +|. .+.+.++|.=++||+- ...|-+-|=+..+...
T Consensus 62 GGDQQiGa~Iaeg~id~lIFf~DPLtaqPHdpD--VkAL~Rl~~V~nIP~A~N~aTAe~li~~~~~~~ 127 (142)
T COG1803 62 GGDQQIGALIAEGKIDVLIFFWDPLTAQPHDPD--VKALLRLATVYNIPVATNRATAEFLIKSLLFND 127 (142)
T ss_pred CccHHHHHHHhcCcceEEEEEecCCCCCCCCcC--HHHHHHHHHhhcccchhhHhHHHHHHhccccCC
Confidence 578888888999999999998774 443 6788999999999986 3456666666666553
No 158
>PF02347 GDC-P: Glycine cleavage system P-protein; InterPro: IPR020580 This family consists of glycine cleavage system P-proteins (1.4.4.2 from EC) from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex (2.1.2.10 from EC (GDC) also annotated as glycine cleavage system or glycine synthase. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor, carbon dioxide is released and the remaining methylamin moiety is then transferred to the lipoamide cofactor of the H protein. GDC consists of four proteins P, H, L and T []. The reaction catalysed by this protein is: Glycine + lipoylprotein = S-aminomethyldihydrolipoylprotein + CO2 ; GO: 0004375 glycine dehydrogenase (decarboxylating) activity, 0055114 oxidation-reduction process; PDB: 1WYV_A 1WYT_C 1WYU_A.
Probab=41.75 E-value=70 Score=28.07 Aligned_cols=73 Identities=12% Similarity=0.091 Sum_probs=45.3
Q ss_pred cCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEeCCC-CChHHHHHHHHHHHHH
Q psy1295 57 RGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEG-SQLKPQIQAIQQQIER 134 (137)
Q Consensus 57 k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~~-s~~~~~i~e~~~~~~~ 134 (137)
+++.+-|+++.++.|. ...-+..+|+-.++.++.++.... |..- +-.++++.+.-... +.+.+ ++++.+.+++
T Consensus 151 ~~~~~~vlv~~~~hP~-~~~v~~t~a~~~g~~iv~~~~~~~-~~~d--~~~~a~v~vq~Pn~~G~~ed-~~~i~~~~h~ 224 (429)
T PF02347_consen 151 KRKRNKVLVPESLHPQ-TRAVLRTYAAPLGIEIVEVPLDED-GTTD--DDDTAAVMVQNPNTFGVFED-IKEIADIAHA 224 (429)
T ss_dssp TT---EEEEETTS-CH-HHHHHHHHCCHCCEEEEEE-BBTT-CSB---STTEEEEEEESS-TTSB--T-HHHHHHHHHH
T ss_pred ccCCcEEEEcCCcChh-hHHHHHHhhhhCCeEEEEeccccc-CCcc--ccCeEEEEeecCCCCceEee-HHHHHHHHHH
Confidence 3444589999999997 888899999999999998864322 1111 33465555554443 45555 8888888775
No 159
>TIGR02342 chap_CCT_delta T-complex protein 1, delta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT delta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=41.70 E-value=67 Score=28.27 Aligned_cols=47 Identities=4% Similarity=-0.080 Sum_probs=27.1
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
....+.+.+..+.+|+++.+.++..+-.....++++++|-++...++
T Consensus 263 ~~~v~~i~~~g~~lvi~~~~I~~~~l~~l~~~~l~~~~I~av~~v~~ 309 (517)
T TIGR02342 263 LNIVKKIKKTGCNVLLIQKSILRDAVNDLALHFLAKMKIMVVKDIER 309 (517)
T ss_pred HHHHHHHHhcCCCEEEECCCcccccccHHHHHHHhhCCceEEecCCH
Confidence 44455555566778888777744322233445556677776665443
No 160
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=41.67 E-value=59 Score=25.51 Aligned_cols=49 Identities=22% Similarity=0.322 Sum_probs=35.2
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEE-eCCHHHHHHHhC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVF-VRSKQALGRACG 103 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~-~~tk~eLG~a~G 103 (137)
..++.++++.| +++++ +|. +...+...|++++||++- +.|-.|+=++..
T Consensus 78 ~~~~~~a~~aG-A~Fiv-----sP~-~~~~v~~~~~~~~i~~iPG~~T~~E~~~A~~ 127 (213)
T PRK06552 78 AVTARLAILAG-AQFIV-----SPS-FNRETAKICNLYQIPYLPGCMTVTEIVTALE 127 (213)
T ss_pred HHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCCEECCcCCHHHHHHHHH
Confidence 46777777777 66666 454 566677889999999873 567777776653
No 161
>PF03279 Lip_A_acyltrans: Bacterial lipid A biosynthesis acyltransferase; InterPro: IPR004960 Bacterial lipopolysachharides (LPS) are glycolipids that make up the outer monolayer of the outer membranes of most Gram-negative bacteria. Though LPS moleculesare variable, they all show the same general features: an outer polysaccharide which is attached to the lipid component, termed lipid A []. The polysaccharide component consists of a variable repeat-structure polysaccharide known as the O-antigen, and a highly conserved short core oligosaccharide which connects the O-antigen to lipid A. Lipid A is a glucosamine-based phospholipid that makes up the membrane anchor region of LPS []. The structure of lipid A is relatively invariant between species, presumably reflecting its fundamental role in membrane integrity. Recognition of lipid A by the innate immune system can lead to a response even at picomolar levels. In some genera, such as Neisseria and Haemophilus, lipooligosaccharides (LOS) are the predominant glycolipids []. These are analogous to LPS except that they lack O-antigens, with the LOS oligosaccharide structures limited to 10 saccharide units. The bacterial lipid A biosynthesis protein, or lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase 2.3.1 from EC, transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA during lipopolysaccharide core biosynthesis.; GO: 0016746 transferase activity, transferring acyl groups, 0009244 lipopolysaccharide core region biosynthetic process, 0016021 integral to membrane
Probab=41.62 E-value=1.3e+02 Score=24.03 Aligned_cols=84 Identities=15% Similarity=0.155 Sum_probs=45.9
Q ss_pred HHHHHHHHHcCcccEEEEecCCChh--------------hHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEE-E
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPL--------------EIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIAC-S 112 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~--------------~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~-a 112 (137)
..++.+++++|+ +|.+..|-++. .+..-...++...+.|++.+....+=+. ....+..- .
T Consensus 181 ~~~~~~~Lk~g~--~v~~l~Dq~~~~~~~~~v~FfG~~a~~~~g~a~lA~~~~apvvp~~~~r~~~~---~~~~~~i~~~ 255 (295)
T PF03279_consen 181 IRELIRALKEGG--IVGLLGDQDPGKKDGVFVPFFGRPASTPTGPARLARKTGAPVVPVFAYREPDG---SHYRIEIEPP 255 (295)
T ss_pred HHHHHHHhccCC--EEEEEECCCCCCCCceEEeECCeecccccHHHHHHHHhCCcEEEEEEEEeCCC---CEEEEEEeec
Confidence 578888888886 88888886542 1223345667777777766543222111 11111110 1
Q ss_pred EEeCCCCChHHHHHHHHHHHHHhh
Q psy1295 113 VTVDEGSQLKPQIQAIQQQIERLL 136 (137)
Q Consensus 113 i~~~~~s~~~~~i~e~~~~~~~~~ 136 (137)
+....+++..+..+++.+.+|+.+
T Consensus 256 ~~~~~~~~~~~~~~~~~~~lE~~I 279 (295)
T PF03279_consen 256 LDFPSSEDIEELTQRYNDRLEEWI 279 (295)
T ss_pred ccCCccchHHHHHHHHHHHHHHHH
Confidence 111222356777777777777653
No 162
>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=41.51 E-value=1.1e+02 Score=22.97 Aligned_cols=65 Identities=14% Similarity=0.078 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHH-HcCC--ccccHHHHHHHHHcCcccEEEEecCCChhh---HHHhHHHHhHh----cCCCEEEe
Q psy1295 28 TTKILSLVQQAL-NYKQ--LRKGANEATKTLNRGLSEFIVLAADAEPLE---IVLHLPLLCED----KNVPYVFV 92 (137)
Q Consensus 28 ~~kl~~lL~~A~-~ag~--lv~G~~~v~kaI~k~kaklViiA~D~~~~~---~~~~i~~lc~~----~~IP~i~~ 92 (137)
...+.+.|.... ..|. +..|.+...+.+..++.+.||+-+|..+.. ....+..+.+. .+|++..+
T Consensus 100 ~~~l~~~i~~i~~~~G~T~l~~aL~~a~~~l~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~~~~~i~i~~i 174 (206)
T cd01456 100 RSALDAALNSLQTPTGWTPLAAALAEAAAYVDPGRVNVVVLITDGEDTCGPDPCEVARELAKRRTPAPPIKVNVI 174 (206)
T ss_pred HHHHHHHHHhhcCCCCcChHHHHHHHHHHHhCCCCcceEEEEcCCCccCCCCHHHHHHHHHHhcCCCCCceEEEE
Confidence 344455554444 3332 666777777777666668999999987642 13444555554 36665433
No 163
>COG1363 FrvX Cellulase M and related proteins [Carbohydrate transport and metabolism]
Probab=41.28 E-value=38 Score=28.95 Aligned_cols=54 Identities=24% Similarity=0.324 Sum_probs=33.5
Q ss_pred EEEEecCC----ChhhHHHhHHHHhHhcCCCEEEe-C--CHHHHHHH--hCCCcceEEEEEEeC
Q psy1295 62 FIVLAADA----EPLEIVLHLPLLCEDKNVPYVFV-R--SKQALGRA--CGVSRPIIACSVTVD 116 (137)
Q Consensus 62 lViiA~D~----~~~~~~~~i~~lc~~~~IP~i~~-~--tk~eLG~a--~G~~~~v~~~ai~~~ 116 (137)
-+|.+.|. +|. +++++..+|+++||||-.. . .-.+=|.+ .|-..++++.++-.+
T Consensus 256 p~i~~~D~~~~~~~~-l~~~L~~~A~~~~Ip~Q~~v~~~ggTDA~a~~~~g~gvpta~Igip~r 318 (355)
T COG1363 256 PVIRVKDASGIYHPK-LRKFLLELAEKNNIPYQVDVSPGGGTDAGAAHLTGGGVPTALIGIPTR 318 (355)
T ss_pred CEEEEEcCCCCCCHH-HHHHHHHHHHHcCCCeEEEecCCCCccHHHHHHcCCCCceEEEecccc
Confidence 45667777 465 9999999999999998743 2 22333332 333345554454443
No 164
>cd04148 RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra
Probab=41.03 E-value=1.3e+02 Score=23.02 Aligned_cols=75 Identities=17% Similarity=0.194 Sum_probs=38.7
Q ss_pred cccEEEEecCCChhhHHHhHH----HHhH---hcCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCCCCCh
Q psy1295 59 LSEFIVLAADAEPLEIVLHLP----LLCE---DKNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDEGSQL 121 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~----~lc~---~~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~~s~~ 121 (137)
.+..+++.-|++..+....+. .+.+ ..++|++.+++|.+|-. .+.........-+-...+..+
T Consensus 72 ~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv 151 (221)
T cd04148 72 QGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNV 151 (221)
T ss_pred CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCH
Confidence 455666666665432222222 2222 25799999999887732 211111221122222345677
Q ss_pred HHHHHHHHHHHH
Q psy1295 122 KPQIQAIQQQIE 133 (137)
Q Consensus 122 ~~~i~e~~~~~~ 133 (137)
.++++.+..++.
T Consensus 152 ~~l~~~l~~~~~ 163 (221)
T cd04148 152 DELLEGIVRQIR 163 (221)
T ss_pred HHHHHHHHHHHH
Confidence 778877776663
No 165
>PRK08328 hypothetical protein; Provisional
Probab=40.98 E-value=46 Score=26.15 Aligned_cols=34 Identities=21% Similarity=0.069 Sum_probs=28.2
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
+..+||-|.|- +. .+..+.++|.++++|++....
T Consensus 118 ~~D~Vid~~d~-~~-~r~~l~~~~~~~~ip~i~g~~ 151 (231)
T PRK08328 118 GVDVIVDCLDN-FE-TRYLLDDYAHKKGIPLVHGAV 151 (231)
T ss_pred cCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEee
Confidence 46899999987 43 788899999999999987654
No 166
>cd04127 Rab27A Rab27a subfamily. The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated
Probab=40.87 E-value=1.3e+02 Score=21.38 Aligned_cols=74 Identities=12% Similarity=0.078 Sum_probs=38.1
Q ss_pred cccEEEEecCCChhhHHHhHHHHh----H---hcCCCEEEeCCHHHHHHH--h--------CCCcceEEEEEEeCCCCCh
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLC----E---DKNVPYVFVRSKQALGRA--C--------GVSRPIIACSVTVDEGSQL 121 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc----~---~~~IP~i~~~tk~eLG~a--~--------G~~~~v~~~ai~~~~~s~~ 121 (137)
.+..+++.-|.+..+...++..+. . ..++|++.+++|.+|-.. . -...++...-+-...+..+
T Consensus 86 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v 165 (180)
T cd04127 86 DAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATGTNV 165 (180)
T ss_pred CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCH
Confidence 456666666665433444443322 1 247899999888777421 0 0011222222323344567
Q ss_pred HHHHHHHHHHH
Q psy1295 122 KPQIQAIQQQI 132 (137)
Q Consensus 122 ~~~i~e~~~~~ 132 (137)
.++++.+.+.+
T Consensus 166 ~~l~~~l~~~~ 176 (180)
T cd04127 166 EKAVERLLDLV 176 (180)
T ss_pred HHHHHHHHHHH
Confidence 77777766544
No 167
>KOG2486|consensus
Probab=40.74 E-value=25 Score=29.63 Aligned_cols=42 Identities=21% Similarity=0.026 Sum_probs=28.4
Q ss_pred HcCcccEEEEecCC--ChhhHHHhHHHHhHhcCCCEEEeCCHHH
Q psy1295 56 NRGLSEFIVLAADA--EPLEIVLHLPLLCEDKNVPYVFVRSKQA 97 (137)
Q Consensus 56 ~k~kaklViiA~D~--~~~~~~~~i~~lc~~~~IP~i~~~tk~e 97 (137)
++....-||++-|+ +..-+-.....+|.+++||+..++|+-+
T Consensus 216 eR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~D 259 (320)
T KOG2486|consen 216 ERENLVRVFLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKCD 259 (320)
T ss_pred hhhhhheeeeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehhh
Confidence 33344445555554 4433556788999999999999988744
No 168
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=40.61 E-value=94 Score=24.03 Aligned_cols=45 Identities=16% Similarity=0.145 Sum_probs=30.0
Q ss_pred HHHHHHHHcCcccEEEEecCCChh--hHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPL--EIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~--~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+.+.+.+.+.++.+|+++.|.... .....+..+.+..++|++.+.
T Consensus 22 ~~~~~~~~~~~~d~vv~~GDl~~~~~~~~~~~~~l~~~~~~pv~~v~ 68 (239)
T TIGR03729 22 ETLAQYLKKQKIDHLHIAGDISNDFQRSLPFIEKLQELKGIKVTFNA 68 (239)
T ss_pred HHHHHHHHhcCCCEEEECCccccchhhHHHHHHHHHHhcCCcEEEEC
Confidence 446666767789999999997642 123344555555678987764
No 169
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=40.47 E-value=80 Score=23.92 Aligned_cols=45 Identities=11% Similarity=0.109 Sum_probs=33.3
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
.++...|++.+--++++-.-+......+.+..+++..++|++...
T Consensus 18 ~~aa~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~ 62 (162)
T TIGR00315 18 KLVAMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATA 62 (162)
T ss_pred HHHHHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcC
Confidence 556667777665666666656432478999999999999999765
No 170
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=40.44 E-value=1.2e+02 Score=22.00 Aligned_cols=69 Identities=23% Similarity=0.234 Sum_probs=44.9
Q ss_pred CccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCC-E-EEeCC------H--HHHHHHhCCCcceEEEE
Q psy1295 43 QLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP-Y-VFVRS------K--QALGRACGVSRPIIACS 112 (137)
Q Consensus 43 ~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP-~-i~~~t------k--~eLG~a~G~~~~v~~~a 112 (137)
.+.-|..++++.+++...++.++.+|-.. .....++..||+ . ++... + .++=+.++.+... ++.
T Consensus 127 ~~~~~~~~~l~~L~~~Gi~~~i~TGD~~~-----~a~~~~~~lgi~~~~v~a~~~~kP~~k~~~~~i~~l~~~~~~-v~~ 200 (215)
T PF00702_consen 127 PLRPGAKEALQELKEAGIKVAILTGDNES-----TASAIAKQLGIFDSIVFARVIGKPEPKIFLRIIKELQVKPGE-VAM 200 (215)
T ss_dssp EBHTTHHHHHHHHHHTTEEEEEEESSEHH-----HHHHHHHHTTSCSEEEEESHETTTHHHHHHHHHHHHTCTGGG-EEE
T ss_pred cchhhhhhhhhhhhccCcceeeeeccccc-----cccccccccccccccccccccccccchhHHHHHHHHhcCCCE-EEE
Confidence 45568999999999988899999988533 334556777884 2 22222 2 4666777855443 455
Q ss_pred EEeCC
Q psy1295 113 VTVDE 117 (137)
Q Consensus 113 i~~~~ 117 (137)
+.++-
T Consensus 201 vGDg~ 205 (215)
T PF00702_consen 201 VGDGV 205 (215)
T ss_dssp EESSG
T ss_pred EccCH
Confidence 65554
No 171
>TIGR02208 lipid_A_msbB lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase. This family consists of MsbB in E. coli and closely related proteins in other species. MsbB is homologous to HtrB (TIGR02207) and acts immediately after it in the biosynthesis of KDO-2 lipid A (also called Re LPS and Re endotoxin). These two enzymes act after creation of KDO-2 lipid IV-A by addition of the KDO sugars.
Probab=40.17 E-value=1.4e+02 Score=24.09 Aligned_cols=76 Identities=13% Similarity=0.051 Sum_probs=45.3
Q ss_pred CCCcccCCCCChHHHHHHHHHHHHHHHcCCcc---ccHHHHHHHHHcCcccEEEEecCCChh--------------hHHH
Q psy1295 14 AVNPKAYPLADTALTTKILSLVQQALNYKQLR---KGANEATKTLNRGLSEFIVLAADAEPL--------------EIVL 76 (137)
Q Consensus 14 ~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv---~G~~~v~kaI~k~kaklViiA~D~~~~--------------~~~~ 76 (137)
.+..+++|.-...+ +++.+-.+.... .+++ .|.+++.+++++|. .|.+..|-++. .+..
T Consensus 147 ~~~~v~r~~~n~~~-d~~~~~~R~~~g-~~~i~~~~~~r~i~~aLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~ 222 (305)
T TIGR02208 147 PMVTMFNNHKNPLF-DWLWNRVRSRFG-GHVYAREAGIKALLASLKRGE--SGYYLPDEDHGPEQSVFVPFFATYKATLP 222 (305)
T ss_pred CceEEeeCCCCHHH-HHHHHHHHhcCC-CceecChhhHHHHHHHHhCCC--eEEEeCCCCCCCCCCeEeccCCCcchhHH
Confidence 45667888866665 444443332211 1333 48899999999885 67788777641 1222
Q ss_pred hHHHHhHhcCCCEEEeC
Q psy1295 77 HLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 77 ~i~~lc~~~~IP~i~~~ 93 (137)
....++...|.|++.+.
T Consensus 223 ~~a~LA~~~~apvv~~~ 239 (305)
T TIGR02208 223 VVGRLAKAGNAQVVPVF 239 (305)
T ss_pred HHHHHHHhcCCeEEEEE
Confidence 23356777777766544
No 172
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=39.31 E-value=80 Score=24.34 Aligned_cols=44 Identities=14% Similarity=0.143 Sum_probs=35.4
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
-+...|++-|--|.|+..++-..++.+++..+.++.++|++..+
T Consensus 27 v~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa 70 (170)
T COG1880 27 VVAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATA 70 (170)
T ss_pred HHHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecc
Confidence 34456777777899999988744599999999999999988654
No 173
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=39.03 E-value=3e+02 Score=25.12 Aligned_cols=73 Identities=11% Similarity=0.129 Sum_probs=48.0
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH-HhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHHh
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR-ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~-a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~~ 135 (137)
+++.++|+..+-.-. -..++-.+|+.++.|.+.+.+..+|-. |+--... ++|+.+ .|-=..+++++...++.+
T Consensus 205 ~~~d~~~vvGg~~Ss-Nt~~L~~i~~~~~~~~~~ie~~~el~~~~~~~~~~---vgitag-aStP~~~i~~v~~~l~~~ 278 (647)
T PRK00087 205 KKVDVMIVVGGKNSS-NTTKLYEICKSNCTNTIHIENAGELPEEWFKGVKI---IGVTAG-ASTPDWIIEEVIKKMSEL 278 (647)
T ss_pred hhCCEEEEECCCCCc-cHHHHHHHHHHHCCCEEEECChHHCCHHHhCCCCE---EEEEec-cCCCHHHHHHHHHHHHHh
Confidence 457777777666543 478999999999999999999999976 4432221 234333 344445666666665543
No 174
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=38.94 E-value=17 Score=21.34 Aligned_cols=27 Identities=15% Similarity=-0.015 Sum_probs=19.3
Q ss_pred HHHhHHHHhHhcCCCEEEeCCHHHHHH
Q psy1295 74 IVLHLPLLCEDKNVPYVFVRSKQALGR 100 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~tk~eLG~ 100 (137)
....+..+|++.|||-..-.+|.+|=.
T Consensus 6 ~~~eL~~iAk~lgI~~~~~~~K~eLI~ 32 (43)
T PF07498_consen 6 TLSELREIAKELGIEGYSKMRKQELIF 32 (43)
T ss_dssp -HHHHHHHHHCTT-TTGCCS-HHHHHH
T ss_pred CHHHHHHHHHHcCCCCCCcCCHHHHHH
Confidence 467888999999999766778887743
No 175
>cd03769 SR_IS607_transposase_like Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.
Probab=38.83 E-value=83 Score=22.49 Aligned_cols=48 Identities=21% Similarity=0.099 Sum_probs=29.6
Q ss_pred ccHHHHHHHHHcCcccEEEEec-CCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 46 KGANEATKTLNRGLSEFIVLAA-DAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~-D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
-|..+.++.+++|++..|++-+ |-=-++....+..+|+.+||.++.+.
T Consensus 49 p~l~~ll~~i~~g~~d~lvV~~ldRl~R~~~d~~~~~l~~~gv~l~~~~ 97 (134)
T cd03769 49 KGLLKLLEDVLAGKVERVVITYKDRLARFGFELLEELFKAYGVEIVVIN 97 (134)
T ss_pred HHHHHHHHHHHcCCCCEEEEEeccHHHHhhHHHHHHHHHHCCCEEEEEe
Confidence 4667788888888876555432 21111233445567888888887764
No 176
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=38.65 E-value=86 Score=23.63 Aligned_cols=73 Identities=12% Similarity=0.073 Sum_probs=39.8
Q ss_pred CCCChHHHHHHHHHHHHHHHc-CC-ccc---------cHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCE
Q psy1295 21 PLADTALTTKILSLVQQALNY-KQ-LRK---------GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPY 89 (137)
Q Consensus 21 p~a~~~~~~kl~~lL~~A~~a-g~-lv~---------G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~ 89 (137)
|-.+......+.+-++.+.+. |. +.. -..+.++.+.+.++.-+|+..--+.. +. .+...|..+|||+
T Consensus 6 ~~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~-~~-~~l~~~~~~gIpv 83 (257)
T PF13407_consen 6 PSMDNPFWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDS-LA-PFLEKAKAAGIPV 83 (257)
T ss_dssp SSSSSHHHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHHTTESEEEEESSSTTT-TH-HHHHHHHHTTSEE
T ss_pred CCCCCHHHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHH-HH-HHHHHHhhcCceE
Confidence 334445555555555544443 32 111 12333344444557777766444332 33 5556789999999
Q ss_pred EEeCCH
Q psy1295 90 VFVRSK 95 (137)
Q Consensus 90 i~~~tk 95 (137)
+.+.+-
T Consensus 84 v~~d~~ 89 (257)
T PF13407_consen 84 VTVDSD 89 (257)
T ss_dssp EEESST
T ss_pred EEEecc
Confidence 988655
No 177
>cd03338 TCP1_delta TCP-1 (CTT or eukaryotic type II) chaperonin family, delta subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=38.30 E-value=84 Score=27.53 Aligned_cols=46 Identities=4% Similarity=-0.089 Sum_probs=24.4
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
....+.+.+..+.+|+++.+.++..+-.....++++++|-++..-+
T Consensus 262 ~~~v~~i~~~g~~lvi~~~~i~~~~v~~l~~~~l~~~~I~av~~~~ 307 (515)
T cd03338 262 LNMCKKIKKSGCNVLLIQKSILRDAVSDLALHFLAKLKIMVVKDIE 307 (515)
T ss_pred HHHHHHHHhcCCCEEEECCCcccccccHHHHHHHHHCCceEEecCC
Confidence 3344445555567777777764332223334445556666665443
No 178
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=38.28 E-value=74 Score=25.55 Aligned_cols=67 Identities=18% Similarity=0.067 Sum_probs=39.2
Q ss_pred CChhhHHHhHHHHhHhcCCCEEEeCC--H----HHHHHHhCCC---cceEEEE----EE--eCCCCChHHHHHHHHHHHH
Q psy1295 69 AEPLEIVLHLPLLCEDKNVPYVFVRS--K----QALGRACGVS---RPIIACS----VT--VDEGSQLKPQIQAIQQQIE 133 (137)
Q Consensus 69 ~~~~~~~~~i~~lc~~~~IP~i~~~t--k----~eLG~a~G~~---~~v~~~a----i~--~~~~s~~~~~i~e~~~~~~ 133 (137)
.++. -...+..+.++++|++++... . +.|.+..|.. ..+.... +. ...+..+.+.++...+.+.
T Consensus 194 ps~~-~l~~l~~~ik~~~v~~if~e~~~~~~~~~~l~~~~~~~~~~v~~~~~~~~d~l~~~~~~~~~y~~~m~~n~~~l~ 272 (276)
T cd01016 194 AGLR-DINELVDLIVERKIKAIFVESSVNQKSIEALQDAVKARGHDVQIGGELYSDAMGEEGTSEGTYIGMFKHNVDTIV 272 (276)
T ss_pred CCHH-HHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhhcCCccccCceeccccCCCCCCCCCCHHHHHHHHHHHHH
Confidence 4455 577888999999999998732 2 2444434322 1110000 10 0112578899998888887
Q ss_pred Hhh
Q psy1295 134 RLL 136 (137)
Q Consensus 134 ~~~ 136 (137)
+-|
T Consensus 273 ~al 275 (276)
T cd01016 273 EAL 275 (276)
T ss_pred HHh
Confidence 654
No 179
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=38.17 E-value=98 Score=20.60 Aligned_cols=53 Identities=19% Similarity=0.315 Sum_probs=38.3
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC-CHHHHHHHhCCC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR-SKQALGRACGVS 105 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~-tk~eLG~a~G~~ 105 (137)
.++..+..+...+.++.|..|-.. .+..+++.+++|+-.+. ...++.+..|..
T Consensus 48 l~~~~~~~~~~~~~vi~is~d~~~-----~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~ 101 (124)
T PF00578_consen 48 LNELYKKYKDKGVQVIGISTDDPE-----EIKQFLEEYGLPFPVLSDPDGELAKAFGIE 101 (124)
T ss_dssp HHHHHHHHHTTTEEEEEEESSSHH-----HHHHHHHHHTCSSEEEEETTSHHHHHTTCE
T ss_pred HHHHhhhhccceEEeeeccccccc-----chhhhhhhhccccccccCcchHHHHHcCCc
Confidence 455556667778899999987533 55677788888776665 457899998876
No 180
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=38.11 E-value=1.3e+02 Score=21.46 Aligned_cols=46 Identities=17% Similarity=0.395 Sum_probs=29.4
Q ss_pred cHHHHHHHHHcCcccEEEEecCCCh-----hhHHHhHHHHhHhcCCCEEEeC
Q psy1295 47 GANEATKTLNRGLSEFIVLAADAEP-----LEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~~~-----~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
|.+..++.+++|++..|++.. .+- .++...+..+++.+||.++.+.
T Consensus 56 ~l~~ll~~~~~g~vd~vvv~~-ldRl~R~~~d~~~~~~~l~~~~gv~l~~~~ 106 (140)
T cd03770 56 GFNRMIEDIEAGKIDIVIVKD-MSRLGRNYLKVGLYMEILFPKKGVRFIAIN 106 (140)
T ss_pred HHHHHHHHHHcCCCCEEEEec-cchhccCHHHHHHHHHHHHhhcCcEEEEec
Confidence 566778888889888776643 222 2233445555555699988775
No 181
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=38.03 E-value=35 Score=19.05 Aligned_cols=23 Identities=17% Similarity=0.153 Sum_probs=17.6
Q ss_pred HHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 74 IVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
....+...|+.+|+| ..++|.+|
T Consensus 5 ~v~eLk~~l~~~gL~--~~G~K~~L 27 (35)
T PF02037_consen 5 TVAELKEELKERGLS--TSGKKAEL 27 (35)
T ss_dssp HHHHHHHHHHHTTS---STSSHHHH
T ss_pred cHHHHHHHHHHCCCC--CCCCHHHH
Confidence 567888999999999 56777776
No 182
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=37.62 E-value=1.2e+02 Score=24.10 Aligned_cols=12 Identities=8% Similarity=0.152 Sum_probs=6.8
Q ss_pred HHhHhcCCCEEE
Q psy1295 80 LLCEDKNVPYVF 91 (137)
Q Consensus 80 ~lc~~~~IP~i~ 91 (137)
.+++.+|+....
T Consensus 182 Y~~~~ygl~~~~ 193 (266)
T cd01018 182 YFARDYGLTQIP 193 (266)
T ss_pred HHHHHcCCEEEe
Confidence 455666666543
No 183
>PRK00766 hypothetical protein; Provisional
Probab=37.60 E-value=62 Score=25.35 Aligned_cols=45 Identities=20% Similarity=0.186 Sum_probs=33.4
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe----CCHHHHHHHh
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV----RSKQALGRAC 102 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~----~tk~eLG~a~ 102 (137)
.++++|++..-+-.---.-++..+.++.++|++.+ ++.+.+-.|+
T Consensus 70 ~~i~~V~L~Git~agFNvvD~~~l~~~tg~PVI~V~r~~p~~~~ie~AL 118 (194)
T PRK00766 70 GQLRVIMLDGITYGGFNVVDIEELYRETGLPVIVVMRKKPDFEAIESAL 118 (194)
T ss_pred cceEEEEECCEeeeeeEEecHHHHHHHHCCCEEEEEecCCCHHHHHHHH
Confidence 47889988877633223557788899999999988 6777777666
No 184
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=37.59 E-value=95 Score=23.78 Aligned_cols=46 Identities=11% Similarity=0.133 Sum_probs=32.3
Q ss_pred HHHHHHHHcCcccEEEEecCCCh-hhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEP-LEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~-~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
+.+...|++.+--++++-..+.. .+..+.+.++++..++|++..+.
T Consensus 25 ~~aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~ 71 (171)
T PRK00945 25 KIAAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGG 71 (171)
T ss_pred HHHHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccc
Confidence 45555666665556666555543 34788899999999999987654
No 185
>PF01976 DUF116: Protein of unknown function DUF116; InterPro: IPR002829 These archaeal and bacterial proteins have no known function. Members of this family contain seven conserved cysteines and may also be an integral membrane protein.
Probab=37.32 E-value=1.4e+02 Score=22.45 Aligned_cols=59 Identities=19% Similarity=0.171 Sum_probs=47.9
Q ss_pred HHHHHHHHHHcCC---ccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 31 ILSLVQQALNYKQ---LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 31 l~~lL~~A~~ag~---lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
+-++.+.|.+.|- ++.|..-+.+.+++.+.+ .|+|--|... +.+.+..+-. +|+|..-+
T Consensus 75 Ig~l~~lae~~g~~v~i~~Ggt~ar~~ik~~~p~-~iigVAC~~d-L~~g~~~~~~-~~ip~~gV 136 (158)
T PF01976_consen 75 IGDLKKLAEKYGYKVYIATGGTLARKIIKEYRPK-AIIGVACERD-LISGIQDLKP-LGIPVQGV 136 (158)
T ss_pred hhHHHHHHHHcCCEEEEEcChHHHHHHHHHhCCC-EEEEEechHH-HHHHHHHHhh-cCCCeeEE
Confidence 6678888999885 788999999999999888 7888889885 8888876554 77887543
No 186
>COG0803 LraI ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]
Probab=37.04 E-value=1.6e+02 Score=24.04 Aligned_cols=87 Identities=22% Similarity=0.208 Sum_probs=51.8
Q ss_pred HHHHHHHHHcC-cccEEEEe-----cCCChhhHHHhHHHHhHhcCCCEEEeCCH------HHHHHHhCCCcceE--EEEE
Q psy1295 48 ANEATKTLNRG-LSEFIVLA-----ADAEPLEIVLHLPLLCEDKNVPYVFVRSK------QALGRACGVSRPII--ACSV 113 (137)
Q Consensus 48 ~~~v~kaI~k~-kaklViiA-----~D~~~~~~~~~i~~lc~~~~IP~i~~~tk------~eLG~a~G~~~~v~--~~ai 113 (137)
.+.....+-+. ...-+.++ .+.+|. -.+++.++.++++|+++++.+. +.|-+..|...... .-++
T Consensus 198 ~h~af~Y~~~~~g~~~~~i~~~~~~~e~s~~-~l~~l~~~ik~~~i~~If~e~~~~~~~~~~la~e~g~~~~~~~~~d~~ 276 (303)
T COG0803 198 SHGAFGYLARDYGLKQVAIAGISPEAEPSPK-DLAKLVDLIKKKNIKAIFVESNVSSKSAETLAKETGVKILGLLYLDSL 276 (303)
T ss_pred ecchHHHHHhccCCccccccCcCcccCCCHH-HHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHhCCcccceeeeccc
Confidence 35555565553 23333333 667787 6889999999999999987422 35666677443211 0011
Q ss_pred EeCCC--CChHHHHHHHHHHHHHh
Q psy1295 114 TVDEG--SQLKPQIQAIQQQIERL 135 (137)
Q Consensus 114 ~~~~~--s~~~~~i~e~~~~~~~~ 135 (137)
..... +.+-+.++.....+.+-
T Consensus 277 ~~~~~~~~~y~~~~~~n~~~i~~~ 300 (303)
T COG0803 277 GDKDSKGDTYISMMKANLDTIVEG 300 (303)
T ss_pred cccCCCcccHHHHHHHHHHHHHHh
Confidence 11111 24778888887777654
No 187
>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]
Probab=36.74 E-value=29 Score=27.62 Aligned_cols=45 Identities=20% Similarity=0.401 Sum_probs=31.3
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEE-eCCHHHHH
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVF-VRSKQALG 99 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~-~~tk~eLG 99 (137)
..++..++..| ++++| +|. +...+...|..+++|++- +.|-.|+=
T Consensus 75 ~~q~~~a~~aG-a~fiV-----sP~-~~~ev~~~a~~~~ip~~PG~~TptEi~ 120 (211)
T COG0800 75 PEQARQAIAAG-AQFIV-----SPG-LNPEVAKAANRYGIPYIPGVATPTEIM 120 (211)
T ss_pred HHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHhCCCcccCCCCCHHHHH
Confidence 46777777777 66654 454 566678899999999983 45655543
No 188
>PTZ00369 Ras-like protein; Provisional
Probab=36.58 E-value=1.6e+02 Score=21.53 Aligned_cols=74 Identities=11% Similarity=0.087 Sum_probs=36.8
Q ss_pred cccEEEEecCCChhhHH-------HhHHHHhHhcCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCCCCCh
Q psy1295 59 LSEFIVLAADAEPLEIV-------LHLPLLCEDKNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDEGSQL 121 (137)
Q Consensus 59 kaklViiA~D~~~~~~~-------~~i~~lc~~~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~~s~~ 121 (137)
.+..+++.-|.+..+.. ..+.......++|++.+++|.+|-. ......+....-+-...+..+
T Consensus 76 ~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi 155 (189)
T PTZ00369 76 TGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNV 155 (189)
T ss_pred cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCH
Confidence 35555565555443222 2233333445899998887776621 111111222222333445677
Q ss_pred HHHHHHHHHHH
Q psy1295 122 KPQIQAIQQQI 132 (137)
Q Consensus 122 ~~~i~e~~~~~ 132 (137)
.++++.+..++
T Consensus 156 ~~~~~~l~~~l 166 (189)
T PTZ00369 156 DEAFYELVREI 166 (189)
T ss_pred HHHHHHHHHHH
Confidence 77777665544
No 189
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=36.50 E-value=1.1e+02 Score=19.02 Aligned_cols=41 Identities=20% Similarity=0.258 Sum_probs=22.6
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeC--C----HHHHHHHhCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR--S----KQALGRACGV 104 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~--t----k~eLG~a~G~ 104 (137)
+++...+.-|. =.+...+.++++|||..+. . +.+|-+..|.
T Consensus 3 v~ly~~~~C~~--C~ka~~~L~~~gi~~~~~di~~~~~~~~el~~~~g~ 49 (73)
T cd03027 3 VTIYSRLGCED--CTAVRLFLREKGLPYVEINIDIFPERKAELEERTGS 49 (73)
T ss_pred EEEEecCCChh--HHHHHHHHHHCCCceEEEECCCCHHHHHHHHHHhCC
Confidence 33444443342 4566677778888877652 1 2346566564
No 190
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=36.37 E-value=2.1e+02 Score=22.50 Aligned_cols=87 Identities=14% Similarity=0.261 Sum_probs=54.7
Q ss_pred cccCCCCCh-HHHH-------------HHHHHHHHHHHcCC---ccc---------cHHHHHHHHHcCcccEEEEecCCC
Q psy1295 17 PKAYPLADT-ALTT-------------KILSLVQQALNYKQ---LRK---------GANEATKTLNRGLSEFIVLAADAE 70 (137)
Q Consensus 17 ~~~~p~a~~-~~~~-------------kl~~lL~~A~~ag~---lv~---------G~~~v~kaI~k~kaklViiA~D~~ 70 (137)
|++-|+++- .+++ ...+.++..++..+ ... |...-.+.+.+-.+.-+++ .|..
T Consensus 36 PfsdPv~DG~~I~~a~~~al~~g~~~~~~~~~~~~vr~~~~~pv~lm~y~n~~~~~G~~~fi~~~~~aG~~giii-pDl~ 114 (242)
T cd04724 36 PFSDPVADGPVIQAASERALANGVTLKDVLELVKEIRKKNTIPIVLMGYYNPILQYGLERFLRDAKEAGVDGLII-PDLP 114 (242)
T ss_pred CCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhcCCCCEEEEEecCHHHHhCHHHHHHHHHHCCCcEEEE-CCCC
Confidence 999999984 3443 56777887776421 222 3344455554444665555 4776
Q ss_pred hhhHHHhHHHHhHhcCCCEEE-e-C-C-HHHHHHHhCCC
Q psy1295 71 PLEIVLHLPLLCEDKNVPYVF-V-R-S-KQALGRACGVS 105 (137)
Q Consensus 71 ~~~~~~~i~~lc~~~~IP~i~-~-~-t-k~eLG~a~G~~ 105 (137)
+. -...+...|+++|+..+. + + | .+++-.+....
T Consensus 115 ~e-e~~~~~~~~~~~g~~~i~~i~P~T~~~~i~~i~~~~ 152 (242)
T cd04724 115 PE-EAEEFREAAKEYGLDLIFLVAPTTPDERIKKIAELA 152 (242)
T ss_pred HH-HHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHhhC
Confidence 64 678899999999997664 2 3 3 35566666533
No 191
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=36.28 E-value=93 Score=19.30 Aligned_cols=40 Identities=30% Similarity=0.330 Sum_probs=27.0
Q ss_pred HHHHHHHcC--cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 50 EATKTLNRG--LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 50 ~v~kaI~k~--kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
.+.+++++- .-.+.|++.|- . ....++.+|+++|-.+...
T Consensus 16 ~~~~~l~~l~~G~~l~v~~d~~--~-~~~di~~~~~~~g~~~~~~ 57 (70)
T PF01206_consen 16 KAKKALKELPPGEVLEVLVDDP--A-AVEDIPRWCEENGYEVVEV 57 (70)
T ss_dssp HHHHHHHTSGTT-EEEEEESST--T-HHHHHHHHHHHHTEEEEEE
T ss_pred HHHHHHHhcCCCCEEEEEECCc--c-HHHHHHHHHHHCCCEEEEE
Confidence 455566552 23466777774 2 5689999999999887655
No 192
>PRK12475 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional
Probab=36.13 E-value=59 Score=27.21 Aligned_cols=35 Identities=20% Similarity=0.256 Sum_probs=28.6
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.++.+||.+.|- .. ....+..+|.++++|+++...
T Consensus 115 ~~~DlVid~~D~-~~-~r~~in~~~~~~~ip~i~~~~ 149 (338)
T PRK12475 115 KEVDLIIDATDN-FD-TRLLINDLSQKYNIPWIYGGC 149 (338)
T ss_pred cCCCEEEEcCCC-HH-HHHHHHHHHHHcCCCEEEEEe
Confidence 347899999985 33 678899999999999998754
No 193
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=36.13 E-value=1.4e+02 Score=20.51 Aligned_cols=46 Identities=17% Similarity=0.176 Sum_probs=31.7
Q ss_pred cHHHHHHHHHcCcccEEEEecCC----ChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 47 GANEATKTLNRGLSEFIVLAADA----EPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~----~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
|.++.++.+++++...|++.+-. ++. -...+...|..+||+++.+.
T Consensus 53 ~~~~ll~~~~~~~~d~ivv~~~~Rl~R~~~-~~~~~~~~l~~~gi~l~~~~ 102 (137)
T cd00338 53 GLQRLLADVKAGKIDVVLVEKLDRLSRNLV-DLLELLELLEAHGVRVVTAD 102 (137)
T ss_pred HHHHHHHHHHcCCCCEEEEEecchhhCCHH-HHHHHHHHHHHCCCEEEEec
Confidence 56777888888877777665432 233 34456678888899887775
No 194
>PRK07688 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated
Probab=36.03 E-value=61 Score=27.16 Aligned_cols=39 Identities=13% Similarity=0.184 Sum_probs=30.3
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
+..+||.|.|- +. ....+-++|.++++|+++.....--|
T Consensus 116 ~~DlVid~~Dn-~~-~r~~ln~~~~~~~iP~i~~~~~g~~G 154 (339)
T PRK07688 116 GVDLIIDATDN-FE-TRFIVNDAAQKYGIPWIYGACVGSYG 154 (339)
T ss_pred CCCEEEEcCCC-HH-HHHHHHHHHHHhCCCEEEEeeeeeee
Confidence 47899999884 43 78899999999999999865443333
No 195
>PRK08943 lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase; Validated
Probab=35.81 E-value=2.1e+02 Score=23.25 Aligned_cols=76 Identities=9% Similarity=0.064 Sum_probs=45.3
Q ss_pred CCCcccCCCCChHHHHHHHHHHHHHHHcCCcc---ccHHHHHHHHHcCcccEEEEecCCChh--------------hHHH
Q psy1295 14 AVNPKAYPLADTALTTKILSLVQQALNYKQLR---KGANEATKTLNRGLSEFIVLAADAEPL--------------EIVL 76 (137)
Q Consensus 14 ~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv---~G~~~v~kaI~k~kaklViiA~D~~~~--------------~~~~ 76 (137)
.+..+++|.-.+.+ +++..-.+.... .++. .|.+++.+++++|. .|.+..|-++. .+..
T Consensus 156 ~~~~vyr~~~n~~~-d~~~~~~R~~~g-~~~i~~~~~~r~i~kaLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~~ 231 (314)
T PRK08943 156 PMAAMFHNQRNPLF-DWLWNRVRRRFG-GRLHAREDGIKPFISSVRQGY--WGYYLPDEDHGPEHSVFVDFFATYKATLP 231 (314)
T ss_pred CccEEEeCCCCHHH-HHHHHHHHhhcC-CeeecCchhHHHHHHHHhCCC--eEEEeCCCCCCCCCCEEeCCCCCchhHhH
Confidence 45678888865554 555444443221 1232 26888999999885 77777776642 1223
Q ss_pred hHHHHhHhcCCCEEEeC
Q psy1295 77 HLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 77 ~i~~lc~~~~IP~i~~~ 93 (137)
-...++...|.|++.+.
T Consensus 232 g~a~LA~k~~apvvp~~ 248 (314)
T PRK08943 232 GIGRLAKVCRARVVPLF 248 (314)
T ss_pred HHHHHHHHhCCeEEEEE
Confidence 33456677777766554
No 196
>cd04176 Rap2 Rap2 subgroup. The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl
Probab=35.56 E-value=1.4e+02 Score=20.81 Aligned_cols=14 Identities=36% Similarity=0.622 Sum_probs=11.8
Q ss_pred cCCCEEEeCCHHHH
Q psy1295 85 KNVPYVFVRSKQAL 98 (137)
Q Consensus 85 ~~IP~i~~~tk~eL 98 (137)
.++|++.+++|.+|
T Consensus 105 ~~~piviv~nK~Dl 118 (163)
T cd04176 105 EKVPIILVGNKVDL 118 (163)
T ss_pred CCCCEEEEEECccc
Confidence 68999999888776
No 197
>TIGR02355 moeB molybdopterin synthase sulfurylase MoeB. This model describes the molybdopterin biosynthesis protein MoeB in E. coli and related species. The enzyme covalently modifies the molybdopterin synthase MoaD by sulfurylation. This enzyme is closely related to ThiF, a thiamine biosynthesis enzyme that modifies ThiS by an analogous adenylation. Both MoeB and ThiF belong to the HesA/MoeB/ThiF family (pfam00899).
Probab=35.56 E-value=51 Score=26.14 Aligned_cols=33 Identities=21% Similarity=0.185 Sum_probs=27.8
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..+||-|.|- +. .+..+.++|.++++|++...
T Consensus 114 ~~DlVvd~~D~-~~-~r~~ln~~~~~~~ip~v~~~ 146 (240)
T TIGR02355 114 EHDIVVDCTDN-VE-VRNQLNRQCFAAKVPLVSGA 146 (240)
T ss_pred cCCEEEEcCCC-HH-HHHHHHHHHHHcCCCEEEEE
Confidence 47899999987 43 78899999999999999754
No 198
>COG0403 GcvP Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]
Probab=35.48 E-value=3e+02 Score=24.47 Aligned_cols=111 Identities=11% Similarity=0.112 Sum_probs=63.6
Q ss_pred cCCCCChHHHHHHHHHHHHH-------HHcCCccccHHHHHHH------HHcCcccEEEEecCCChhhHHHhHHHHhHhc
Q psy1295 19 AYPLADTALTTKILSLVQQA-------LNYKQLRKGANEATKT------LNRGLSEFIVLAADAEPLEIVLHLPLLCEDK 85 (137)
Q Consensus 19 ~~p~a~~~~~~kl~~lL~~A-------~~ag~lv~G~~~v~ka------I~k~kaklViiA~D~~~~~~~~~i~~lc~~~ 85 (137)
|.|..+|=..+.++++=.+. ..+-.+--|.....+| +.+++.+-++++.|+.|. +..-+..+++-.
T Consensus 110 YQpEISQGrLqaLfefQtlv~dLTGm~VANASm~DeaTAaAEAm~ma~r~~k~k~~~~~V~~~vhpq-t~~Vl~Tra~~~ 188 (450)
T COG0403 110 YQPEISQGRLEALFEFQTLVADLTGLDVANASMLDEATAAAEAMLMAKRVTKKKRNKFLVPKDVHPQ-TLDVLRTRAEGL 188 (450)
T ss_pred CchhhhhHHHHHHHHHHHHHHHHhCCCcccchhhhhHHHHHHHHHHHHHhhcCcCceEEecCCCCHH-HHHHHHhhcccC
Confidence 55666664455554432222 1122233344444443 345568899999999996 999999999999
Q ss_pred CCCEEEeC--CHHHHHHHhCCCcceEEEEEEeCCCCC-hHHHHHHHHHHH
Q psy1295 86 NVPYVFVR--SKQALGRACGVSRPIIACSVTVDEGSQ-LKPQIQAIQQQI 132 (137)
Q Consensus 86 ~IP~i~~~--tk~eLG~a~G~~~~v~~~ai~~~~~s~-~~~~i~e~~~~~ 132 (137)
|+.++... +-..|-.. .+..++++.+.-..... .-+-+.++.+..
T Consensus 189 g~~i~~~~~~d~~~l~~~--~~~~~~gv~vQyP~~~G~~~~d~~~l~~~~ 236 (450)
T COG0403 189 GIEIEVVDADDLDDLESA--DDGDVFGVLVQYPNTFGIVEEDLRALIEAA 236 (450)
T ss_pred ceEEEEeccchhhhhhhc--cccCeEEEEEecCCCCCccchhHHHHHHHH
Confidence 99987653 44455555 44345554444433322 333344444443
No 199
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=35.24 E-value=3e+02 Score=23.82 Aligned_cols=61 Identities=15% Similarity=0.131 Sum_probs=41.1
Q ss_pred cCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEeCC
Q psy1295 57 RGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDE 117 (137)
Q Consensus 57 k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~ 117 (137)
++..+..++..|.........+..+++..++|+....+..++..++..-...-.+.|+..+
T Consensus 249 ~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~~DlVlIDt~G 309 (424)
T PRK05703 249 YGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLRDCDVILIDTAG 309 (424)
T ss_pred cCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhCCCCEEEEeCCC
Confidence 4556788888887543345678889999999998888878887776543223234454443
No 200
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=35.09 E-value=96 Score=24.25 Aligned_cols=42 Identities=7% Similarity=0.132 Sum_probs=27.4
Q ss_pred HHHHHHHHcCc--ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 49 NEATKTLNRGL--SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 49 ~~v~kaI~k~k--aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
..+.+++++|+ +..+++-+|-... ....+|+++|||+.....
T Consensus 14 ~al~~~~~~~~l~~~i~~visn~~~~----~~~~~A~~~gIp~~~~~~ 57 (207)
T PLN02331 14 RAIHDACLDGRVNGDVVVVVTNKPGC----GGAEYARENGIPVLVYPK 57 (207)
T ss_pred HHHHHHHHcCCCCeEEEEEEEeCCCC----hHHHHHHHhCCCEEEecc
Confidence 44556667775 5666666664322 336689999999987543
No 201
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades
Probab=35.03 E-value=1.6e+02 Score=20.51 Aligned_cols=53 Identities=15% Similarity=0.173 Sum_probs=30.7
Q ss_pred HhHhcCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCCCCChHHHHHHHHHHHH
Q psy1295 81 LCEDKNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIE 133 (137)
Q Consensus 81 lc~~~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~ 133 (137)
....+++|++.+++|.+|-. .......+...-+-...+..+.++++.+.+++.
T Consensus 100 ~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~ 162 (164)
T smart00173 100 VKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIR 162 (164)
T ss_pred hcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence 33445899998888877632 111112222223333446788888888887764
No 202
>KOG2016|consensus
Probab=34.98 E-value=37 Score=30.32 Aligned_cols=34 Identities=26% Similarity=0.400 Sum_probs=28.9
Q ss_pred cEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 61 EFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 61 klViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
--|++|++..+. ..-++...|++++||++.+.+-
T Consensus 120 FtvViatnl~E~-~~~kl~~~l~~~~vpll~~rs~ 153 (523)
T KOG2016|consen 120 FTVVIATNLNEQ-TLLKLAEILREANVPLLLTRSY 153 (523)
T ss_pred eeeeeccccchh-hhhhhHHHHHhcCCceEEEeee
Confidence 457889998885 8889999999999999987653
No 203
>PRK07920 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=34.95 E-value=1.1e+02 Score=24.61 Aligned_cols=75 Identities=13% Similarity=0.129 Sum_probs=45.1
Q ss_pred CCCcccCCCCChHHHHHHHHHHHHHHHcC-Ccc-------ccHHHHHHHHHcCcccEEEEecCCChh-h-----------
Q psy1295 14 AVNPKAYPLADTALTTKILSLVQQALNYK-QLR-------KGANEATKTLNRGLSEFIVLAADAEPL-E----------- 73 (137)
Q Consensus 14 ~~~~~~~p~a~~~~~~kl~~lL~~A~~ag-~lv-------~G~~~v~kaI~k~kaklViiA~D~~~~-~----------- 73 (137)
.+..+++|+-...+.+.+.+ .+. +.| +++ .|.++..+++++|. .|.+..|-++. +
T Consensus 133 ~~~~vyr~~~n~~~~~~~~~-~R~--~~g~~~i~~~~~~~~~~r~ii~~Lk~g~--~v~il~Dq~~~~~g~~v~FFG~~a 207 (298)
T PRK07920 133 PFTTVAERLKPESLYERFVA-YRE--SLGFEVLPLTGGERPPFEVLAERLRAGG--VVCLLADRDLTRSGVEVDFFGERT 207 (298)
T ss_pred CeEEEEeccCCHHHHHHHHH-HHH--hcCCEEEecCCCCchHHHHHHHHHHcCC--eEEEEeccCccCCCCEEeeCCCCC
Confidence 35567888867776665554 222 123 333 27888999999886 67777776542 0
Q ss_pred -HHHhHHHHhHhcCCCEEEeC
Q psy1295 74 -IVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 74 -~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..-...++...+.|++.+.
T Consensus 208 ~t~~g~a~LA~~~~apVvp~~ 228 (298)
T PRK07920 208 RMPAGPAALALETGAALLPVH 228 (298)
T ss_pred CCCCCHHHHHHHHCCcEEEEE
Confidence 22223356667777766543
No 204
>PRK00124 hypothetical protein; Validated
Probab=34.78 E-value=1.4e+02 Score=22.42 Aligned_cols=29 Identities=28% Similarity=0.377 Sum_probs=25.6
Q ss_pred EEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 63 IVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 63 ViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
++|=.|+-| ++..+...|+.+++|++.+.
T Consensus 3 I~VDADACP--Vk~~i~r~a~r~~i~v~~Va 31 (151)
T PRK00124 3 IYVDADACP--VKDIIIRVAERHGIPVTLVA 31 (151)
T ss_pred EEEECCCCc--HHHHHHHHHHHHCCeEEEEE
Confidence 677788888 79999999999999999876
No 205
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=34.73 E-value=1.4e+02 Score=24.79 Aligned_cols=61 Identities=13% Similarity=0.144 Sum_probs=35.1
Q ss_pred CCChHHHHH-------HHHHHHHHHHcCCc-------cccHHHHHHHHHcC-cccEEEEecCCChhhHHHhHHHHh
Q psy1295 22 LADTALTTK-------ILSLVQQALNYKQL-------RKGANEATKTLNRG-LSEFIVLAADAEPLEIVLHLPLLC 82 (137)
Q Consensus 22 ~a~~~~~~k-------l~~lL~~A~~ag~l-------v~G~~~v~kaI~k~-kaklViiA~D~~~~~~~~~i~~lc 82 (137)
+.++++-++ +..+|..||+.|-+ ..+..+..+.+++. ..+-+++..+.+..+..+.+-..+
T Consensus 30 ~tQ~eIA~~lgiSR~~VsRlL~~Ar~~GiV~I~I~~~~~~~~~Le~~L~~~fgLk~~iVvp~~~~~~~~~~vg~~a 105 (318)
T PRK15418 30 LTQSEIGERLGLTRLKVSRLLEKGRQSGIIRVQINSRFEGCLELENALRQHFSLQHIRVLPALADADIGGRLGIGA 105 (318)
T ss_pred CCHHHHHHHhCCCHHHHHHHHHHHHHcCcEEEEEeCCCccHHHHHHHHHHHhCCCEEEEEeCCCcccHHHHHHHHH
Confidence 456677544 68999999999954 23555666777663 344444444322222444444444
No 206
>cd01489 Uba2_SUMO Ubiquitin activating enzyme (E1) subunit UBA2. UBA2 is part of the heterodimeric activating enzyme (E1), specific for the SUMO family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by SUMO family of ubiquitin-like proteins (Ublps) is involved in cell division, nuclear transport, the stress response and signal transduction. UBA2 contains both the nucleotide-binding motif involved in adenylation and the catalytic cysteine involved in the thioester intermediate and Ublp transfer to E2.
Probab=34.67 E-value=68 Score=26.77 Aligned_cols=39 Identities=21% Similarity=0.279 Sum_probs=31.1
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
+..+||.|.|- .. .+..+-++|..++||++..++.--.|
T Consensus 90 ~~DvVv~a~Dn-~~-ar~~in~~c~~~~ip~I~~gt~G~~G 128 (312)
T cd01489 90 QFDLVFNALDN-LA-ARRHVNKMCLAADVPLIESGTTGFLG 128 (312)
T ss_pred cCCEEEECCCC-HH-HHHHHHHHHHHCCCCEEEEecCccee
Confidence 46788888885 43 68899999999999999987654334
No 207
>PF08862 DUF1829: Domain of unknown function DUF1829; InterPro: IPR014961 This short protein is usually associated with IPR014960 from INTERPRO.
Probab=34.65 E-value=55 Score=22.15 Aligned_cols=44 Identities=18% Similarity=0.172 Sum_probs=34.5
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
..|.+.-+..+.++.++..|.+.. +...+....++++|..+-..
T Consensus 43 ~D~~~~~~~~~~~~~ii~ND~e~~-i~~~~~~a~~~y~I~~i~wS 86 (88)
T PF08862_consen 43 EDTKKRNRKSNSKFYIILNDSEKP-ISEDIINALEQYNIKPIPWS 86 (88)
T ss_pred hhhhhhccCCCceEEEEECCCCCc-cCHHHHHHHHHCCCceecCC
Confidence 344345556789999999998876 88999999999999987543
No 208
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=34.59 E-value=1.5e+02 Score=20.72 Aligned_cols=46 Identities=26% Similarity=0.178 Sum_probs=28.4
Q ss_pred cHHHHHHHHHcCcccEEEEecCC----ChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 47 GANEATKTLNRGLSEFIVLAADA----EPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~----~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
|.++.++.+++|++..|++.+=. ++. -...+...|..+||.++.+.
T Consensus 53 ~l~~ll~~~~~g~~~~ivv~~~~Rl~R~~~-~~~~~~~~l~~~gi~l~~~~ 102 (148)
T smart00857 53 GLQRLLADLRAGDIDVLVVYKLDRLGRSLR-DLLALLELLEKKGVRLVSVT 102 (148)
T ss_pred HHHHHHHHHHcCCCCEEEEeccchhhCcHH-HHHHHHHHHHHCCCEEEECc
Confidence 56677777788877655554321 232 23445567788888877664
No 209
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=34.32 E-value=1.5e+02 Score=20.05 Aligned_cols=17 Identities=24% Similarity=0.473 Sum_probs=12.2
Q ss_pred HHHhHHHHhHhcCCCEEEeC
Q psy1295 74 IVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~ 93 (137)
+++.+. +..|||++++.
T Consensus 76 Lr~~lr---~~~GvPvi~l~ 92 (101)
T PF04900_consen 76 LRRRLR---KIPGVPVIYLR 92 (101)
T ss_pred HHHHHh---cCCCCCEEEEE
Confidence 666554 57899998875
No 210
>cd04136 Rap_like Rap-like subfamily. The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.
Probab=34.27 E-value=1.4e+02 Score=20.57 Aligned_cols=50 Identities=20% Similarity=0.209 Sum_probs=27.5
Q ss_pred HhcCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCCCCChHHHHHHHHHHH
Q psy1295 83 EDKNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQI 132 (137)
Q Consensus 83 ~~~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~ 132 (137)
...++|++.+++|.+|.. ......+....-+-...+..+.++++.+.+++
T Consensus 103 ~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~ 162 (163)
T cd04136 103 DTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVRQI 162 (163)
T ss_pred CCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence 345799998888877632 11111122222233344567888887776543
No 211
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=34.18 E-value=81 Score=27.97 Aligned_cols=41 Identities=24% Similarity=0.282 Sum_probs=34.7
Q ss_pred HHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 53 KTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 53 kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+.+++..-+..++|.|.-.+.-.+.+..++++.+||++-.+
T Consensus 122 ~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~ 162 (451)
T COG0541 122 KYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSG 162 (451)
T ss_pred HHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCC
Confidence 44677888999999999766689999999999999998654
No 212
>PRK03379 vitamin B12-transporter protein BtuF; Provisional
Probab=34.11 E-value=2.3e+02 Score=22.18 Aligned_cols=52 Identities=6% Similarity=-0.026 Sum_probs=31.6
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC--H-------HHHHHHhCCC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS--K-------QALGRACGVS 105 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t--k-------~eLG~a~G~~ 105 (137)
--.+.|.+-+-.+||...+..+.+..+ ..++.|||++.+.. - ..||+++|++
T Consensus 63 ~n~E~il~l~PDlVi~~~~~~~~~~~~----~L~~~gi~v~~~~~~~~~~~~~~i~~lg~~~g~~ 123 (260)
T PRK03379 63 MNLERIVALKPDLVLAWRGGNAERQVD----QLASLGIKVMWVDATSIEQIANALRQLAPWSPQP 123 (260)
T ss_pred CCHHHHHhcCCCEEEEecCCCcHHHHH----HHHHCCCCEEEeCCCCHHHHHHHHHHHHHHcCCH
Confidence 446667777788888755433222333 33678899987742 2 2467777654
No 213
>PRK10637 cysG siroheme synthase; Provisional
Probab=33.90 E-value=1.1e+02 Score=26.49 Aligned_cols=38 Identities=11% Similarity=0.076 Sum_probs=28.2
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
.+.+||.|.|- + ++-..+...|+..++++..+.+. +++
T Consensus 72 ~~~lv~~at~d-~-~~n~~i~~~a~~~~~lvN~~d~~-~~~ 109 (457)
T PRK10637 72 TCWLAIAATDD-D-AVNQRVSEAAEARRIFCNVVDAP-KAA 109 (457)
T ss_pred CCEEEEECCCC-H-HHhHHHHHHHHHcCcEEEECCCc-ccC
Confidence 36788888774 3 37899999999999998655543 444
No 214
>PRK08419 lipid A biosynthesis lauroyl acyltransferase; Reviewed
Probab=33.88 E-value=2.5e+02 Score=22.51 Aligned_cols=75 Identities=17% Similarity=0.150 Sum_probs=43.7
Q ss_pred CCCcccCCCCChHHHHHHHHHHHHHHH-cC-Ccc---ccHHHHHHHHHcCcccEEEEecCCChh--------------hH
Q psy1295 14 AVNPKAYPLADTALTTKILSLVQQALN-YK-QLR---KGANEATKTLNRGLSEFIVLAADAEPL--------------EI 74 (137)
Q Consensus 14 ~~~~~~~p~a~~~~~~kl~~lL~~A~~-ag-~lv---~G~~~v~kaI~k~kaklViiA~D~~~~--------------~~ 74 (137)
.+..+++|.-.+.+++-+ ...|. .| +++ .|.+++.+++++|. .|.+..|-++. .+
T Consensus 138 ~~~~v~~~~~n~~~~~~~----~~~R~~~g~~~i~~~~~~r~~l~~Lk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~~ 211 (298)
T PRK08419 138 AVSIVGRLLKSAPINEMI----SKRREQFGIELIDKKGAMKELLKALKQGR--ALGILVDQNVVPKEGVEVKFFNKRVTH 211 (298)
T ss_pred CeEEEEeCCCChHHHHHH----HHHHHHcCCeeEECccHHHHHHHHHHcCC--eEEEEecCCCCCCCCeEEecCCCCccc
Confidence 455577777554433322 22232 22 222 36889999999885 55565555431 12
Q ss_pred HHhHHHHhHhcCCCEEEeCC
Q psy1295 75 VLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 75 ~~~i~~lc~~~~IP~i~~~t 94 (137)
..-...+|...|.|++.+..
T Consensus 212 ~~g~a~LA~k~~apvvpv~~ 231 (298)
T PRK08419 212 TTIASILARRYNALIIPVFI 231 (298)
T ss_pred chhHHHHHHHHCCCEEEEEE
Confidence 33445688888888886654
No 215
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=33.72 E-value=96 Score=22.39 Aligned_cols=18 Identities=28% Similarity=0.314 Sum_probs=14.4
Q ss_pred HHHhHHHHhHhcCCCEEE
Q psy1295 74 IVLHLPLLCEDKNVPYVF 91 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~ 91 (137)
+...+..++++++|||-.
T Consensus 65 ~~~~t~~wL~k~~ipYd~ 82 (126)
T TIGR01689 65 TLPIIILWLNQHNVPYDE 82 (126)
T ss_pred hHHHHHHHHHHcCCCCce
Confidence 445888999999999843
No 216
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=33.62 E-value=1.2e+02 Score=25.36 Aligned_cols=45 Identities=20% Similarity=0.296 Sum_probs=28.7
Q ss_pred HHHHHHHHHcCcccEEEEecCCC------hh---hHHHhHHHHhHhcCCCEEEeC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAE------PL---EIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~------~~---~~~~~i~~lc~~~~IP~i~~~ 93 (137)
..++++.++..++.+|++|+|.= ++ .+.+.+..+|. .+||++.+.
T Consensus 29 f~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~-~~Ipv~~I~ 82 (390)
T COG0420 29 FDELLEIAKEEKVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKD-AGIPVVVIA 82 (390)
T ss_pred HHHHHHHHHHccCCEEEEccccccCCCCCHHHHHHHHHHHHHhcc-CCCcEEEec
Confidence 35666677778889999999972 21 13333334443 679988663
No 217
>PF12687 DUF3801: Protein of unknown function (DUF3801); InterPro: IPR024234 This functionally uncharacterised protein family is found in bacteria. Proteins found in this family are typically between 158 and 187 amino acids in length and include the PcfB protein.
Probab=33.56 E-value=1.8e+02 Score=22.71 Aligned_cols=61 Identities=18% Similarity=0.185 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 27 LTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 27 ~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
|...++.+|+...+.. |-..+.+.++.|+--=+|=-.| . -.+.|...++.|||-|....++
T Consensus 4 L~~~l~~~lk~~kK~~----Gk~slk~L~k~g~~l~~i~i~~---~-~lk~F~k~AkKyGV~yav~kdk 64 (204)
T PF12687_consen 4 LAAALKALLKDYKKTK----GKQSLKKLLKQGKGLKNIEITD---E-DLKEFKKEAKKYGVDYAVKKDK 64 (204)
T ss_pred HHHHHHHHHHHHHHhc----CceeHHHHHhcCCCceEEecCH---h-hHHHHHHHHHHcCCceEEeecc
Confidence 3445566665554443 8777777788876333332223 2 4678999999999999988764
No 218
>PRK05646 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=33.40 E-value=2.3e+02 Score=22.96 Aligned_cols=74 Identities=11% Similarity=-0.014 Sum_probs=42.4
Q ss_pred CCcccCCCCChHHHHHHHHHHHHHHHcC-Ccc----ccHHHHHHHHHcCcccEEEEecCCChh--------------hHH
Q psy1295 15 VNPKAYPLADTALTTKILSLVQQALNYK-QLR----KGANEATKTLNRGLSEFIVLAADAEPL--------------EIV 75 (137)
Q Consensus 15 ~~~~~~p~a~~~~~~kl~~lL~~A~~ag-~lv----~G~~~v~kaI~k~kaklViiA~D~~~~--------------~~~ 75 (137)
+..+++|....-+ +++.+-.+.. .| ++. .|.+++++++++|. .|.+..|-++. .+.
T Consensus 148 ~~~vyr~~~n~~~-d~~~~~~R~~--~g~~~i~~~~~~~r~ilk~Lk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~ 222 (310)
T PRK05646 148 IDGMYREHKNPVF-DFIQRRGRER--HNLDSTAIEREDVRGMLKLLRAGR--AIWYAPDQDYGAKQSIFVPLFGIPAATV 222 (310)
T ss_pred CeEEeeCCCCHHH-HHHHHHHhhc--cCCCcccccHhhHHHHHHHHhCCC--eEEEeCCCCCCCCCCEEecCCCCcchhh
Confidence 4567888755443 3443333321 23 332 37888999998884 77777776541 123
Q ss_pred HhHHHHhHhcCCCEEEeC
Q psy1295 76 LHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 76 ~~i~~lc~~~~IP~i~~~ 93 (137)
.-...++...|.|++.+.
T Consensus 223 ~g~a~LA~~~~apvvp~~ 240 (310)
T PRK05646 223 TATTKFARLGRARVIPFT 240 (310)
T ss_pred hHHHHHHHhhCCcEEEEE
Confidence 333466677777766554
No 219
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=33.22 E-value=35 Score=23.56 Aligned_cols=42 Identities=12% Similarity=0.146 Sum_probs=24.8
Q ss_pred HHHHHHHHcCcccEEEEecCCChhh---HHHhHHHHhHhcCCCEE
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLE---IVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~---~~~~i~~lc~~~~IP~i 90 (137)
..+.+.|++|+..+||-..+-+... ---.+.+.|-+++||++
T Consensus 61 ~~i~~~i~~~~idlVIn~~~~~~~~~~~~~~~iRr~Av~~~ip~i 105 (116)
T cd01423 61 PSLRELLAEGKIDLVINLPSNRGKRVLDNDYVMRRAADDFAVPLI 105 (116)
T ss_pred hhHHHHHHcCCceEEEECCCCCCCccccCcEeeehhhHhhCCccc
Confidence 4566677777777777644322110 12346677777777775
No 220
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=33.19 E-value=1.4e+02 Score=22.78 Aligned_cols=42 Identities=10% Similarity=0.050 Sum_probs=24.9
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..+.+...++.-+|+..- ++.... .....+.+++||++.+.
T Consensus 48 ~~i~~l~~~~vdgiii~~~-~~~~~~-~~l~~~~~~~ipvV~~~ 89 (271)
T cd06312 48 RLIEAAIAAKPDGIVVTIP-DPDALD-PAIKRAVAAGIPVISFN 89 (271)
T ss_pred HHHHHHHHhCCCEEEEeCC-ChHHhH-HHHHHHHHCCCeEEEeC
Confidence 3444455567887777653 232123 34455677899998775
No 221
>COG4378 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.17 E-value=61 Score=22.83 Aligned_cols=36 Identities=11% Similarity=0.259 Sum_probs=27.6
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
...++++-.|-=...+.+.+..-+++.+||+++...
T Consensus 44 ~~dlilvLtdf~nHNl~~~iK~eakk~~ip~~~akR 79 (103)
T COG4378 44 DTDLILVLTDFLNHNLMKKIKNEAKKRKIPLVCAKR 79 (103)
T ss_pred CccEEEEEhhhhcchHHHHHHHHHhhcCCCeEEeec
Confidence 356666666654445999999999999999998753
No 222
>PRK09932 glycerate kinase II; Provisional
Probab=33.16 E-value=2.8e+02 Score=23.99 Aligned_cols=52 Identities=12% Similarity=0.176 Sum_probs=37.9
Q ss_pred CCccccHHHHHHHHH----cCcccEEEEecCCChhh-----HHHhHHHHhHhcCCCEEEeC
Q psy1295 42 KQLRKGANEATKTLN----RGLSEFIVLAADAEPLE-----IVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 42 g~lv~G~~~v~kaI~----k~kaklViiA~D~~~~~-----~~~~i~~lc~~~~IP~i~~~ 93 (137)
+++..|..-+.+.+. =..+.+||-.+-.-..+ +-..+-++|+.+++|++-+-
T Consensus 263 a~l~~G~d~v~~~~~l~~~l~~ADlVITGEG~~D~Qt~~GK~p~~Va~~A~~~~~Pvi~i~ 323 (381)
T PRK09932 263 ADIKPGIEIVLNAVNLEQAVQGAALVITGEGRIDSQTAGGKAPLGVASVAKQFNVPVIGIA 323 (381)
T ss_pred CEEccHHHHHHHhcChHHHhccCCEEEECCCcccccccCCccHHHHHHHHHHcCCCEEEEe
Confidence 478888888888761 25689999987653321 44567789999999998663
No 223
>PRK10957 iron-enterobactin transporter periplasmic binding protein; Provisional
Probab=33.03 E-value=2.3e+02 Score=22.61 Aligned_cols=72 Identities=15% Similarity=0.262 Sum_probs=40.8
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH--------HHHHHHhCCCcceEEEEEEeCCCC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK--------QALGRACGVSRPIIACSVTVDEGS 119 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk--------~eLG~a~G~~~~v~~~ai~~~~~s 119 (137)
..--.+.|.+-+-.+||......+. ....+.. .++.+ |++.+... ..||+++|++ +
T Consensus 102 ~~~n~E~i~~l~PDLVi~~~~~~~~-~~~~~~~-L~~~g-pvv~v~~~~~~~~~~~~~lg~~lg~e-------------~ 165 (317)
T PRK10957 102 GEPDAEAVAAQMPDLIVISATGGDS-ALALYDQ-LSAIA-PTLVIDYDDKSWQELATQLGEATGLE-------------K 165 (317)
T ss_pred CCcCHHHHhhcCCCEEEEeCCCchh-HHHHHHH-HHhhC-CEEEEeCCCccHHHHHHHHHHHhCcH-------------H
Confidence 3455667777788899887544332 2222233 34556 88766321 4677777765 3
Q ss_pred ChHHHHHHHHHHHHHh
Q psy1295 120 QLKPQIQAIQQQIERL 135 (137)
Q Consensus 120 ~~~~~i~e~~~~~~~~ 135 (137)
+..++++++.++++++
T Consensus 166 ~A~~l~~~~~~~i~~~ 181 (317)
T PRK10957 166 QAAAVIAQFDAQLAEV 181 (317)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3445555555555443
No 224
>COG2257 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]
Probab=33.03 E-value=66 Score=22.43 Aligned_cols=34 Identities=15% Similarity=0.085 Sum_probs=23.1
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.+|--|+=.+.. ++.+.|...+++++||+..-++
T Consensus 20 ~~AP~vvA~G~G---~iAe~II~~Ake~~Vpi~edp~ 53 (92)
T COG2257 20 DKAPKVVASGKG---EIAEKIIEKAKEHGVPIQEDPL 53 (92)
T ss_pred CCCCEEEeecch---HHHHHHHHHHHHcCCCcccCHH
Confidence 344444433332 4799999999999999865443
No 225
>KOG4201|consensus
Probab=32.75 E-value=1.1e+02 Score=24.99 Aligned_cols=59 Identities=17% Similarity=0.259 Sum_probs=42.3
Q ss_pred ccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCC-CEEEeCCHHHHHHHhCCC
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNV-PYVFVRSKQALGRACGVS 105 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~I-P~i~~~tk~eLG~a~G~~ 105 (137)
.---|...+--+|-=-.++|+.=.+.. ..+.+...|+..|. |.+.+.+.+|+++++++-
T Consensus 147 vd~~QI~~aR~~GADaVLLIvamLs~~-~lk~l~k~~K~L~me~LVEVn~~eEm~raleiG 206 (289)
T KOG4201|consen 147 VDPYQIYEARLKGADAVLLIVAMLSDL-LLKELYKISKDLGMEPLVEVNDEEEMQRALEIG 206 (289)
T ss_pred cCHHHHHHHHhcCCceeehHHHHcChH-HHHHHHHHHHHcCCcceeeeccHHHHHHHHHhC
Confidence 334455666556654444555555554 57788899999996 899999999999999884
No 226
>PRK05906 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=32.60 E-value=2.1e+02 Score=25.20 Aligned_cols=76 Identities=18% Similarity=0.207 Sum_probs=45.7
Q ss_pred CCCcccCCCCChHHHHHHHHHHHHHHHcCCcc---ccHHHHHHHHHcCcccEEEEecCCChh-------------hHHHh
Q psy1295 14 AVNPKAYPLADTALTTKILSLVQQALNYKQLR---KGANEATKTLNRGLSEFIVLAADAEPL-------------EIVLH 77 (137)
Q Consensus 14 ~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv---~G~~~v~kaI~k~kaklViiA~D~~~~-------------~~~~~ 77 (137)
.+..+++|.-.+- .+++..-.+.. ..++++ .|.+++.+++++|. .|.+..|-++. .+..-
T Consensus 164 p~~~vyRp~kNp~-ld~li~~~R~r-~G~~lI~~~~giR~liraLk~G~--~vgiL~DQ~~~~~Gv~VpFFG~~a~T~tg 239 (454)
T PRK05906 164 PGLAFAKPIKNRR-LNKKIFSLRES-FKGKIVPPKNGINQALRALHQGE--VVGIVGDQALLSSSYSYPLFGSQAFTTTS 239 (454)
T ss_pred CeEEEEecCCCHH-HHHHHHHHHHh-cCCeeecCchHHHHHHHHHhcCC--EEEEEeCCCCCCCceEeCCCCCccchhhH
Confidence 4567888885444 33333333321 112332 37899999999885 77777777652 13444
Q ss_pred HHHHhHhcCCCEEEeC
Q psy1295 78 LPLLCEDKNVPYVFVR 93 (137)
Q Consensus 78 i~~lc~~~~IP~i~~~ 93 (137)
...+|...|.|++.+.
T Consensus 240 pA~LA~rtgApVVpv~ 255 (454)
T PRK05906 240 PALLAYKTGKPVIAVA 255 (454)
T ss_pred HHHHHHHhCCeEEEEE
Confidence 5567777777776544
No 227
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=32.54 E-value=90 Score=22.05 Aligned_cols=77 Identities=18% Similarity=0.229 Sum_probs=42.4
Q ss_pred cccccCCCCCCCcccCCCCChHHHHHHHHHHHHHHH-cC--CccccHHHHHHHH-HcCcccEEEEecCCChhhHHHhHHH
Q psy1295 5 LYFQTNEEPAVNPKAYPLADTALTTKILSLVQQALN-YK--QLRKGANEATKTL-NRGLSEFIVLAADAEPLEIVLHLPL 80 (137)
Q Consensus 5 ~~~~~~~~~~~~~~~~p~a~~~~~~kl~~lL~~A~~-ag--~lv~G~~~v~kaI-~k~kaklViiA~D~~~~~~~~~i~~ 80 (137)
+.|+++... +.|-..|..++.+ +...+.++.-.- .| .+..+.+.+.+.. ..+....|++-+|..+.+....+..
T Consensus 40 i~f~~~~~~-~~~~~~~~~~~~~-~~a~~~I~~~~~~~G~t~l~~aL~~a~~~~~~~~~~~~IilltDG~~~~~~~~i~~ 117 (155)
T PF13768_consen 40 IAFGSSVRP-LFPGLVPATEENR-QEALQWIKSLEANSGGTDLLAALRAALALLQRPGCVRAIILLTDGQPVSGEEEILD 117 (155)
T ss_pred EEeCCEeeE-cchhHHHHhHHHH-HHHHHHHHHhcccCCCccHHHHHHHHHHhcccCCCccEEEEEEeccCCCCHHHHHH
Confidence 456665443 3366666644444 445555554332 23 2666666666654 4567888888889886222334444
Q ss_pred HhH
Q psy1295 81 LCE 83 (137)
Q Consensus 81 lc~ 83 (137)
..+
T Consensus 118 ~v~ 120 (155)
T PF13768_consen 118 LVR 120 (155)
T ss_pred HHH
Confidence 443
No 228
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=32.47 E-value=1.6e+02 Score=20.04 Aligned_cols=49 Identities=16% Similarity=0.208 Sum_probs=32.8
Q ss_pred HHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe-CCHHHHHHHhCCCc
Q psy1295 53 KTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV-RSKQALGRACGVSR 106 (137)
Q Consensus 53 kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~-~tk~eLG~a~G~~~ 106 (137)
..+.++.+.+|-|+.|.. ..+..+++++++++-.+ ....++++..|...
T Consensus 51 ~~~~~~~~~vv~is~d~~-----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~~ 100 (140)
T cd03017 51 EEFKALGAVVIGVSPDSV-----ESHAKFAEKYGLPFPLLSDPDGKLAKAYGVWG 100 (140)
T ss_pred HHHHHCCCEEEEEcCCCH-----HHHHHHHHHhCCCceEEECCccHHHHHhCCcc
Confidence 334445688888888732 34557777788876654 34468999999764
No 229
>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=32.46 E-value=1.8e+02 Score=20.48 Aligned_cols=74 Identities=14% Similarity=0.151 Sum_probs=38.2
Q ss_pred cccEEEEecCCChhhHHHhHHHHh---Hh--cCCCEEEeCCHHHHHHHh-------CCCcceEEEEEEeCCCCChHHHHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLC---ED--KNVPYVFVRSKQALGRAC-------GVSRPIIACSVTVDEGSQLKPQIQ 126 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc---~~--~~IP~i~~~tk~eLG~a~-------G~~~~v~~~ai~~~~~s~~~~~i~ 126 (137)
.+..+++.-|.+..+...++..+. ++ .++|++.+.+|.+|.... ......-..-+-...+..+.++++
T Consensus 72 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~ 151 (161)
T cd04124 72 KAHACILVFDVTRKITYKNLSKWYEELREYRPEIPCIVVANKIDLDPSVTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQ 151 (161)
T ss_pred CCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEECccCchhHHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence 345555555665433433333322 12 379999999887763211 011112122333344567777777
Q ss_pred HHHHHH
Q psy1295 127 AIQQQI 132 (137)
Q Consensus 127 e~~~~~ 132 (137)
++.+.+
T Consensus 152 ~l~~~~ 157 (161)
T cd04124 152 DAIKLA 157 (161)
T ss_pred HHHHHH
Confidence 776654
No 230
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=32.15 E-value=1.5e+02 Score=23.48 Aligned_cols=42 Identities=10% Similarity=0.079 Sum_probs=25.2
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..+.+...++.-+|++..- +. ........+.+++||++.+.
T Consensus 45 ~~i~~l~~~~vDgIIi~~~~-~~-~~~~~l~~~~~~~iPvV~~d 86 (302)
T TIGR02634 45 SQIENLIARGVDVLVIIPQN-GQ-VLSNAVQEAKDEGIKVVAYD 86 (302)
T ss_pred HHHHHHHHcCCCEEEEeCCC-hh-HHHHHHHHHHHCCCeEEEec
Confidence 45555566677777776522 22 22344556778889987664
No 231
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=32.09 E-value=97 Score=23.19 Aligned_cols=41 Identities=15% Similarity=0.165 Sum_probs=26.6
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
.++.++++-.|.+..+.-..+...+++.+.|++.+.+|.++
T Consensus 79 ~~~d~~l~v~~~~~~~~d~~~~~~l~~~~~~~ilV~nK~D~ 119 (197)
T cd04104 79 SEYDFFIIISSTRFSSNDVKLAKAIQCMGKKFYFVRTKVDR 119 (197)
T ss_pred cCcCEEEEEeCCCCCHHHHHHHHHHHHhCCCEEEEEecccc
Confidence 33444444444443335556667777789999999988776
No 232
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=32.07 E-value=58 Score=27.79 Aligned_cols=39 Identities=21% Similarity=0.307 Sum_probs=27.7
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
-+++|.=.+. +...+...|++||||++.- .-|.|++=..
T Consensus 289 P~VvAKG~d~--~A~~Ir~~A~e~~VPiven---~pLARaLy~~ 327 (358)
T PRK13109 289 PLVVAKGQDL--IALKIREIAEENGIPVIED---KPLARSLYDA 327 (358)
T ss_pred CEEEEEeCcH--HHHHHHHHHHHcCCCEEeC---HHHHHHHHHh
Confidence 3555665544 6899999999999998754 3466665544
No 233
>cd01484 E1-2_like Ubiquitin activating enzyme (E1), repeat 2-like. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. A set of novel molecules with a structural similarity to Ub, called Ub-like proteins (Ubls), have similar conjugation cascades. In contrast to ubiquitin-E1, which is a single-chain protein with a weakly conserved two-fold repeat, many of the Ubls-E1are a heterodimer where each subunit corresponds to one half of a single-chain E1. This CD represents the family homologou
Probab=32.05 E-value=70 Score=25.46 Aligned_cols=36 Identities=17% Similarity=-0.036 Sum_probs=29.8
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
.+..+||.|-|- .. .+..+-.+|..+++|++..++.
T Consensus 90 ~~~DvVi~a~Dn-~~-aR~~ln~~c~~~~iplI~~g~~ 125 (234)
T cd01484 90 EQFHIIVNALDN-II-ARRYVNGMLIFLIVPLIESGTE 125 (234)
T ss_pred hCCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEccc
Confidence 447899999885 43 6889999999999999988764
No 234
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=32.02 E-value=92 Score=24.44 Aligned_cols=49 Identities=18% Similarity=0.344 Sum_probs=34.4
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEE-eCCHHHHHHHhC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVF-VRSKQALGRACG 103 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~-~~tk~eLG~a~G 103 (137)
..++.++++.| ++++ .+|. +...+...|++++||++- +.|-.|+-++..
T Consensus 70 ~~~a~~a~~aG-A~Fi-----vsP~-~~~~v~~~~~~~~i~~iPG~~TptEi~~A~~ 119 (204)
T TIGR01182 70 PEQLRQAVDAG-AQFI-----VSPG-LTPELAKHAQDHGIPIIPGVATPSEIMLALE 119 (204)
T ss_pred HHHHHHHHHcC-CCEE-----ECCC-CCHHHHHHHHHcCCcEECCCCCHHHHHHHHH
Confidence 46677777766 6766 3454 556778899999999874 567777666543
No 235
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=31.83 E-value=98 Score=21.10 Aligned_cols=69 Identities=14% Similarity=0.221 Sum_probs=35.9
Q ss_pred ccEEEEecCCChh--hHHHhHHHHhHhcCCCEEEeCCHHHHHH---------HhCCCcceEEEEEEeCCCCChHHHHHHH
Q psy1295 60 SEFIVLAADAEPL--EIVLHLPLLCEDKNVPYVFVRSKQALGR---------ACGVSRPIIACSVTVDEGSQLKPQIQAI 128 (137)
Q Consensus 60 aklViiA~D~~~~--~~~~~i~~lc~~~~IP~i~~~tk~eLG~---------a~G~~~~v~~~ai~~~~~s~~~~~i~e~ 128 (137)
+.++++.-|+... .....+..+....++|++.+.+|.++-. ..|.. .+. -+-...+..+.++++.+
T Consensus 77 ~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~-~~~--~~Sa~~~~gv~~l~~~l 153 (157)
T cd01894 77 ADVILFVVDGREGLTPADEEIAKYLRKSKKPVILVVNKVDNIKEEDEAAEFYSLGFG-EPI--PISAEHGRGIGDLLDAI 153 (157)
T ss_pred CCEEEEEEeccccCCccHHHHHHHHHhcCCCEEEEEECcccCChHHHHHHHHhcCCC-CeE--EEecccCCCHHHHHHHH
Confidence 4444444444321 1233455666778899999887755321 12221 222 22223345677777776
Q ss_pred HHH
Q psy1295 129 QQQ 131 (137)
Q Consensus 129 ~~~ 131 (137)
.++
T Consensus 154 ~~~ 156 (157)
T cd01894 154 LEL 156 (157)
T ss_pred Hhh
Confidence 654
No 236
>PRK06298 type III secretion system protein; Validated
Probab=31.79 E-value=59 Score=27.71 Aligned_cols=39 Identities=13% Similarity=-0.025 Sum_probs=27.9
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
-+++|.=.+. ...++...|+++|||++.- ..|.|++=..
T Consensus 281 P~VvAKG~d~--~A~~Ir~iA~e~~VPiven---~pLARaLy~~ 319 (356)
T PRK06298 281 PWIIAMGINL--RAKRIIAEAEKYGVPIMRN---VPLAHQLLDE 319 (356)
T ss_pred CEEEEeeCcH--HHHHHHHHHHHcCCCEEeC---HHHHHHHHHc
Confidence 4555665554 6899999999999998753 4566666544
No 237
>PLN02161 beta-amylase
Probab=31.70 E-value=1.1e+02 Score=27.73 Aligned_cols=46 Identities=13% Similarity=0.190 Sum_probs=40.9
Q ss_pred cccHHHHHHHHHcCcccEEEEecC-----------CChhhHHHhHHHHhHhcCCCEE
Q psy1295 45 RKGANEATKTLNRGLSEFIVLAAD-----------AEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 45 v~G~~~v~kaI~k~kaklViiA~D-----------~~~~~~~~~i~~lc~~~~IP~i 90 (137)
.-|...+.+.+++..+.+.|-+-+ |+|..+...+...|++++|++.
T Consensus 415 rDGY~~Ia~m~~rh~~~l~FTClEM~D~eq~~~~~s~Pe~Lv~QV~~aa~~~Gv~~a 471 (531)
T PLN02161 415 RDGYDPVASVLSRHGAALHIPCLDMADSETPEKYLCSPEGLRQQIHDVSKKWTIHVT 471 (531)
T ss_pred ccchHHHHHHHHHcCceEEEEeccccCCCCCccccCCHHHHHHHHHHHHHHcCCcee
Confidence 458899999999999999998765 6788899999999999999985
No 238
>COG2229 Predicted GTPase [General function prediction only]
Probab=31.65 E-value=2.2e+02 Score=22.33 Aligned_cols=77 Identities=22% Similarity=0.298 Sum_probs=47.5
Q ss_pred HHHHHcCcccEEEEecCCChhhHH--HhHHHHhHhcC-CCEEEeCCHHHHHHHhC---------CC-cceEEEEEEeCCC
Q psy1295 52 TKTLNRGLSEFIVLAADAEPLEIV--LHLPLLCEDKN-VPYVFVRSKQALGRACG---------VS-RPIIACSVTVDEG 118 (137)
Q Consensus 52 ~kaI~k~kaklViiA~D~~~~~~~--~~i~~lc~~~~-IP~i~~~tk~eLG~a~G---------~~-~~v~~~ai~~~~~ 118 (137)
+.-+-+|-.++||+-.+..|. .. .++...-...+ ||++..-+|.+|..+.. .. -.+-+..+...++
T Consensus 85 ~~~l~~ga~gaivlVDss~~~-~~~a~~ii~f~~~~~~ip~vVa~NK~DL~~a~ppe~i~e~l~~~~~~~~vi~~~a~e~ 163 (187)
T COG2229 85 WEILSRGAVGAIVLVDSSRPI-TFHAEEIIDFLTSRNPIPVVVAINKQDLFDALPPEKIREALKLELLSVPVIEIDATEG 163 (187)
T ss_pred HHHHhCCcceEEEEEecCCCc-chHHHHHHHHHhhccCCCEEEEeeccccCCCCCHHHHHHHHHhccCCCceeeeecccc
Confidence 334456667777776666665 32 55666666666 99999999998876533 22 1222345555666
Q ss_pred CChHHHHHHHH
Q psy1295 119 SQLKPQIQAIQ 129 (137)
Q Consensus 119 s~~~~~i~e~~ 129 (137)
+...+.++...
T Consensus 164 ~~~~~~L~~ll 174 (187)
T COG2229 164 EGARDQLDVLL 174 (187)
T ss_pred hhHHHHHHHHH
Confidence 67777766543
No 239
>PRK09534 btuF corrinoid ABC transporter substrate-binding protein; Reviewed
Probab=31.53 E-value=2.6e+02 Score=23.29 Aligned_cols=52 Identities=12% Similarity=0.151 Sum_probs=32.3
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC---CH-------HHHHHHhCCC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR---SK-------QALGRACGVS 105 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~---tk-------~eLG~a~G~~ 105 (137)
.--.+.|.+-+-.+||.... ++.+..+.+ ++.+||++.+. +- ..||+++|++
T Consensus 109 ~~n~E~Il~l~PDLVi~~~~-~~~~~~~~L----~~~gi~V~~~~~~~~l~~i~~~i~~lG~i~G~e 170 (359)
T PRK09534 109 GVNVEAVVGLDPDLVLAPNA-VAGDTVTRL----REAGITVFHFPAATSIEDVAEKTATIGRLTGNC 170 (359)
T ss_pred CCCHHHHhcCCCCEEEEcCC-CchHHHHHH----HHCCCeEEEeCCCCCHHHHHHHHHHHHHHhCCH
Confidence 33567777788899887543 232233333 56789987653 21 2578888875
No 240
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=31.52 E-value=1.1e+02 Score=27.12 Aligned_cols=43 Identities=16% Similarity=0.183 Sum_probs=33.3
Q ss_pred HHHHHHcCcccEEEEecCCChhhHHHhHHHHhH----hcCCCEEEeC
Q psy1295 51 ATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCE----DKNVPYVFVR 93 (137)
Q Consensus 51 v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~----~~~IP~i~~~ 93 (137)
+...+++.+.+.+|+-+-|.+.-+..++...|+ +.+||++.+.
T Consensus 89 i~ei~~~~~p~~ifv~~TC~t~iIGdDle~va~~~~~~~gipVV~v~ 135 (457)
T CHL00073 89 CLQIKKDRNPSVIVWIGTCTTEIIKMDLEGMAPKLEAEIGIPIVVAR 135 (457)
T ss_pred HHHHHHhCCCCEEEEEccCcHHhhccCHHHHHHHHHHhhCCCEEEEe
Confidence 334456677999999999988778888888887 5689999764
No 241
>KOG3432|consensus
Probab=31.42 E-value=55 Score=23.77 Aligned_cols=49 Identities=14% Similarity=0.241 Sum_probs=41.0
Q ss_pred CCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 42 KQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 42 g~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
|-|.-|.-++- ++++--+.++.++..+.++...+..+++.-+|-++-+.
T Consensus 21 GfLlaGvg~v~---~~r~~Nf~vv~~~Tt~~eiedaF~~f~~RdDIaIiLIn 69 (121)
T KOG3432|consen 21 GFLLAGVGEVN---ENREPNFLVVDSKTTVEEIEDAFKSFTARDDIAIILIN 69 (121)
T ss_pred eeeeecccccc---cCCCCCEEEEeccCCHHHHHHHHHhhccccCeEEEEEh
Confidence 56667777766 45667799999999999999999999999999888764
No 242
>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region). Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).
Probab=31.04 E-value=2.1e+02 Score=25.14 Aligned_cols=102 Identities=16% Similarity=0.171 Sum_probs=70.3
Q ss_pred HHHHHHHHHHHHHcCCcc---ccHHHHHHHH--------HcCcccEEEEecCCChh------------------------
Q psy1295 28 TTKILSLVQQALNYKQLR---KGANEATKTL--------NRGLSEFIVLAADAEPL------------------------ 72 (137)
Q Consensus 28 ~~kl~~lL~~A~~ag~lv---~G~~~v~kaI--------~k~kaklViiA~D~~~~------------------------ 72 (137)
.+++.+.++..+-+|.+= -|......+. +++--+++|++.|+..+
T Consensus 187 ~~~F~~~V~~~~iSgN~D~PEgG~DAimQaaVC~~~IGWR~~a~rllv~~TDa~fH~AGDGkLaGIv~PNDg~CHL~~~g 266 (423)
T smart00187 187 TDEFNEEVKKQRISGNLDAPEGGFDAIMQAAVCTEQIGWREDARRLLVFSTDAGFHFAGDGKLAGIVQPNDGQCHLDNNG 266 (423)
T ss_pred HHHHHHHHhhceeecCCcCCcccHHHHHHHHhhccccccCCCceEEEEEEcCCCccccCCcceeeEecCCCCcceeCCCC
Confidence 344555566666666543 2666666665 44556899999998663
Q ss_pred --------h--HHHhHHHHhHhcCCCEEEeCCH------HHHHHHhCCCcceEEEEEEeCCCCChHHHHHHHHHHHH
Q psy1295 73 --------E--IVLHLPLLCEDKNVPYVFVRSK------QALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIE 133 (137)
Q Consensus 73 --------~--~~~~i~~lc~~~~IP~i~~~tk------~eLG~a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~ 133 (137)
| ...+|...-.+++|-.|+.=|+ ++|...+.. +.+++...+.|.+.++|++...+|.
T Consensus 267 ~Yt~s~~~DYPSi~ql~~kL~e~nI~~IFAVT~~~~~~Y~~Ls~lipg----s~vg~Ls~DSsNIv~LI~~aY~~i~ 339 (423)
T smart00187 267 EYTMSTTQDYPSIGQLNQKLAENNINPIFAVTKKQVSLYKELSALIPG----SSVGVLSEDSSNVVELIKDAYNKIS 339 (423)
T ss_pred CcCccCcCCCCCHHHHHHHHHhcCceEEEEEcccchhHHHHHHHhcCc----ceeeecccCcchHHHHHHHHHHhhc
Confidence 0 3556777788999988876433 467777762 3467778888999999999887763
No 243
>TIGR02187 GlrX_arch Glutaredoxin-like domain protein. This family of archaeal proteins contains a C-terminal domain with homology to bacterial and eukaryotic glutaredoxins, including a CPYC motif. There is an N-terminal domain which has even more distant homology to glutaredoxins. The name "glutaredoxin" may be inappropriate in the sense of working in tandem with glutathione and glutathione reductase which may not be present in the archaea. The overall domain structure appears to be related to bacterial alkylhydroperoxide reductases, but the homology may be distant enough that the function of this family is wholly different.
Probab=30.96 E-value=68 Score=24.57 Aligned_cols=103 Identities=12% Similarity=0.076 Sum_probs=56.5
Q ss_pred ccccccccCCCCCCCcccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhh-HHHhHHH
Q psy1295 2 STFLYFQTNEEPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLE-IVLHLPL 80 (137)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~-~~~~i~~ 80 (137)
.||+.|++++... ..+.-....+++..-+..+++.+.....+..-..+.++.+++.-.-.+|.|..|.+=. +...+..
T Consensus 79 Pt~~~f~~g~~~~-~~~~G~~~~~~l~~~i~~~~~~~~~~~~L~~~~~~~l~~~~~pv~I~~F~a~~C~~C~~~~~~l~~ 157 (215)
T TIGR02187 79 PTTIILEEGKDGG-IRYTGIPAGYEFAALIEDIVRVSQGEPGLSEKTVELLQSLDEPVRIEVFVTPTCPYCPYAVLMAHK 157 (215)
T ss_pred CEEEEEeCCeeeE-EEEeecCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHhcCCCcEEEEEECCCCCCcHHHHHHHHH
Confidence 5788888877531 1233334456777777777665433333433334444443333333336688776522 4444555
Q ss_pred HhHhc-CCCEEEe--CCHHHHHHHhCCC
Q psy1295 81 LCEDK-NVPYVFV--RSKQALGRACGVS 105 (137)
Q Consensus 81 lc~~~-~IP~i~~--~tk~eLG~a~G~~ 105 (137)
++.++ +|.+..+ ....++.+..|..
T Consensus 158 l~~~~~~i~~~~vD~~~~~~~~~~~~V~ 185 (215)
T TIGR02187 158 FALANDKILGEMIEANENPDLAEKYGVM 185 (215)
T ss_pred HHHhcCceEEEEEeCCCCHHHHHHhCCc
Confidence 66654 3554443 4557888888875
No 244
>cd03361 TOPRIM_TopoIA_RevGyr TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to the ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. Reverse gyrase is also able to insert positive supercoils in the presence of ATP and negative supercoils in the presence of AMPPNP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=30.82 E-value=1.6e+02 Score=22.15 Aligned_cols=57 Identities=16% Similarity=0.102 Sum_probs=36.5
Q ss_pred ccHHHHHHHHHc--CcccEEEEecCCChh--hHHHhHHHHhHhcCCCEEEe----CCHHHHHHHh
Q psy1295 46 KGANEATKTLNR--GLSEFIVLAADAEPL--EIVLHLPLLCEDKNVPYVFV----RSKQALGRAC 102 (137)
Q Consensus 46 ~G~~~v~kaI~k--~kaklViiA~D~~~~--~~~~~i~~lc~~~~IP~i~~----~tk~eLG~a~ 102 (137)
.|.+...+.|++ +++..||+|.|++.. .+..++..+|...+.|+-.+ -|+.++-+++
T Consensus 103 ~~~~~~~~~l~~l~~~~~~iiiatD~drEGe~I~~~i~~~~~~~~~~v~R~~fs~it~~~I~~a~ 167 (170)
T cd03361 103 DDKLETLEALRELALEVDEVLIATDPDTEGEKIAWDVYLALRPYNKNIKRAEFHEVTRRAILEAL 167 (170)
T ss_pred cchHHHHHHHHHHHhhCCEEEEecCCCccHHHHHHHHHHHhccCCCCeEEEEEecCCHHHHHHHH
Confidence 466666666655 678999999999763 25667777777545554322 2445555444
No 245
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=30.82 E-value=1.5e+02 Score=21.76 Aligned_cols=42 Identities=19% Similarity=0.154 Sum_probs=25.9
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
.+..+.+.++++..+|+...-... . . ....+.+++||++.+.
T Consensus 45 ~~~~~~~~~~~~d~ii~~~~~~~~-~-~-~~~~l~~~~ip~v~~~ 86 (264)
T cd01537 45 LSALENLIARGVDGIIIAPSDLTA-P-T-IVKLARKAGIPVVLVD 86 (264)
T ss_pred HHHHHHHHHcCCCEEEEecCCCcc-h-h-HHHHhhhcCCCEEEec
Confidence 344445555667777765533332 2 2 5677788999998764
No 246
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=30.82 E-value=63 Score=27.45 Aligned_cols=39 Identities=28% Similarity=0.244 Sum_probs=26.4
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
-+++|+=.+. +..++...|+++|||++.- .-|.+++=..
T Consensus 280 P~VvAKG~d~--~A~~Ir~iA~e~~VPiven---~pLARaLY~~ 318 (349)
T PRK12721 280 PRVLEKGKDA--QALHIVKLAERNGIPVVEN---IPLARALFKE 318 (349)
T ss_pred CEEEEEeCcH--HHHHHHHHHHHcCCCEEeC---HHHHHHHHHh
Confidence 3445554444 6899999999999998753 3455555443
No 247
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=30.76 E-value=2.4e+02 Score=22.68 Aligned_cols=47 Identities=19% Similarity=0.230 Sum_probs=33.5
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCC
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGV 104 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~ 104 (137)
|.-+..++..|.........+..+++..++|+....+..+|.+++..
T Consensus 223 g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~ 269 (282)
T TIGR03499 223 GNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDR 269 (282)
T ss_pred CCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHH
Confidence 44677888888644334667778888889998777777777776653
No 248
>PRK10342 glycerate kinase I; Provisional
Probab=30.66 E-value=3.1e+02 Score=23.69 Aligned_cols=52 Identities=12% Similarity=0.185 Sum_probs=37.8
Q ss_pred CCccccHHHHHHHHH----cCcccEEEEecCCChhh-----HHHhHHHHhHhcCCCEEEeC
Q psy1295 42 KQLRKGANEATKTLN----RGLSEFIVLAADAEPLE-----IVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 42 g~lv~G~~~v~kaI~----k~kaklViiA~D~~~~~-----~~~~i~~lc~~~~IP~i~~~ 93 (137)
+++..|..-+.+.+. =..+.|||-.+=.-..+ +-..+-++|+.++||++-+-
T Consensus 263 a~l~~G~d~v~~~~~l~~~l~~ADLVITGEG~~D~QTl~GK~p~gVa~~A~~~~vPviai~ 323 (381)
T PRK10342 263 AELKSGIEIVTTALNLEEHIHDCTLVITGEGRIDSQSIHGKVPIGVANVAKKYHKPVIGIA 323 (381)
T ss_pred CEECCHHHHHHHhcCHHHHhccCCEEEECCCcCcccccCCccHHHHHHHHHHhCCCEEEEe
Confidence 478889888888762 15689999887643221 45567789999999998663
No 249
>cd01028 TOPRIM_TopoIA TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli topisomerases I and III, eukaryotic topoisomerase III and, ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA. These enzymes cleave one strand of the DNA duplex, covalently link to the 5' phosphoryl end of the DNA break and allow the other strand of the duplex to pass through the gap. Reverse gyrase is also able to insert positive supercoils in the presence of ATP and negative supercoils in the presence of AMPPNP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general b
Probab=30.59 E-value=1.4e+02 Score=21.41 Aligned_cols=56 Identities=21% Similarity=0.205 Sum_probs=33.4
Q ss_pred cHHHHHHHHHc--CcccEEEEecCCChh--hHHHhHHHHhHhcCCCEEEe----CCHHHHHHHh
Q psy1295 47 GANEATKTLNR--GLSEFIVLAADAEPL--EIVLHLPLLCEDKNVPYVFV----RSKQALGRAC 102 (137)
Q Consensus 47 G~~~v~kaI~k--~kaklViiA~D~~~~--~~~~~i~~lc~~~~IP~i~~----~tk~eLG~a~ 102 (137)
+.....+.|++ .++..||+|.|++.. -+..++..+|.....|+-.+ -|..++=+|+
T Consensus 76 ~~~~~~~~ik~l~~~~d~iiiAtD~DrEGE~I~~~i~~~~~~~~~~v~R~~fsslT~~~I~~A~ 139 (142)
T cd01028 76 DKKKQLKALKKLAKKADEIVLATDPDREGELIAWEILEVLKCDNKPVKRAWFSEITPKAIREAF 139 (142)
T ss_pred cHHHHHHHHHHHHhcCCEEEEcCCCCcchHHHHHHHHHHhCCCCCCeEEEEEccCCHHHHHHHH
Confidence 33444444433 456899999999873 25666777777634565432 2555555544
No 250
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=30.54 E-value=1.3e+02 Score=18.31 Aligned_cols=17 Identities=24% Similarity=0.325 Sum_probs=11.1
Q ss_pred HhHHHHhHhcCCCEEEe
Q psy1295 76 LHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 76 ~~i~~lc~~~~IP~i~~ 92 (137)
.....+.++++|||..+
T Consensus 14 ~~ak~~L~~~~i~~~~i 30 (75)
T cd03418 14 VRAKALLDKKGVDYEEI 30 (75)
T ss_pred HHHHHHHHHCCCcEEEE
Confidence 45556667778887654
No 251
>PF02595 Gly_kinase: Glycerate kinase family; InterPro: IPR004381 This family includes glycerate kinase 2 (2.7.1.31 from EC), which catalyses the phosphorylation of (R)-glycerate to 3-phospho-(R)-glycerate in the presence of ATP. These proteins consist of two different alpha/beta domains: domain 1 has a flavodoxin-like fold, while domain 2 has a restriction enzyme-like fold (domain 2 is inserted into domain 1).; GO: 0008887 glycerate kinase activity, 0031388 organic acid phosphorylation; PDB: 3CWC_B 1TO6_A.
Probab=30.52 E-value=93 Score=26.79 Aligned_cols=58 Identities=19% Similarity=0.284 Sum_probs=35.8
Q ss_pred CccccHHHHHHHH--H--cCcccEEEEec---CCChh--hHHHhHHHHhHhcCCCEEEeCCHHHHHH
Q psy1295 43 QLRKGANEATKTL--N--RGLSEFIVLAA---DAEPL--EIVLHLPLLCEDKNVPYVFVRSKQALGR 100 (137)
Q Consensus 43 ~lv~G~~~v~kaI--~--k~kaklViiA~---D~~~~--~~~~~i~~lc~~~~IP~i~~~tk~eLG~ 100 (137)
++.+|.+-+.+.+ + -..+.+||-.+ |..-. .+...+-++|+++++|++-+-.+.+.+.
T Consensus 264 ~l~sG~~~v~~~~~l~~~l~~aDlVITGEG~~D~Qtl~GK~p~~Va~~A~~~~vPviav~G~~~~~~ 330 (377)
T PF02595_consen 264 ELVSGIDLVLELLGLEERLEDADLVITGEGRLDAQTLAGKVPGGVARLAKKHGVPVIAVAGSVDLDA 330 (377)
T ss_dssp EEEEHHHHHHHHTTHHHHCCC-SEEEE--CECSTTTTTTCHHHHHHCCHCCTT--EEEEECEC-TT-
T ss_pred EECchHHHHHHhcCHHHHhcCCCEEEECccccccccCCCcHHHHHHHHHHHcCCcEEEEeCCCCCCh
Confidence 6888988887765 2 25799999998 54221 1556678899999999997755544444
No 252
>KOG3022|consensus
Probab=30.36 E-value=1.8e+02 Score=24.40 Aligned_cols=53 Identities=13% Similarity=0.198 Sum_probs=38.2
Q ss_pred HHHhHhcCCCEE-EeCCHHHHHHHhCCCcceEEEEEEeCCCCChHHHHHHHHHHHHHh
Q psy1295 79 PLLCEDKNVPYV-FVRSKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 79 ~~lc~~~~IP~i-~~~tk~eLG~a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~~~ 135 (137)
.++|++.|||+. .++=..++++++..-..+ +....++.....+..+..+|.+.
T Consensus 241 ~~l~~~~glp~Lg~iPld~~i~~~~d~G~~~----v~~~p~s~~~~af~~i~~~i~~~ 294 (300)
T KOG3022|consen 241 ERLAEELGLPLLGSLPLDPLIAESSDSGVPF----VEEYPDSPASEAFEDIAEKLVEQ 294 (300)
T ss_pred HHHHHHcCCCeEeecCCCHHHHHhccCCCee----EecCCCchHHHHHHHHHHHHHHh
Confidence 578888899877 457778888888765442 44556777777888877777654
No 253
>PRK05367 glycine dehydrogenase; Provisional
Probab=30.36 E-value=2.7e+02 Score=26.97 Aligned_cols=68 Identities=13% Similarity=0.132 Sum_probs=44.7
Q ss_pred ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEeCCC-CChHHHHHHHHHHHHH
Q psy1295 60 SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDEG-SQLKPQIQAIQQQIER 134 (137)
Q Consensus 60 aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~~-s~~~~~i~e~~~~~~~ 134 (137)
..-|+++.++-|. ...-+..+|+..|+.++.++...++. +..++++.+..... +.+.| ++++.+..++
T Consensus 165 ~~~vlv~~~~hP~-~~~v~~t~a~~~G~ev~~~~~~~d~~-----~~~~~~vlvq~p~~~G~i~d-~~~i~~~ah~ 233 (954)
T PRK05367 165 SNRFFVDDDVHPQ-TLDVLRTRAEPLGIEVVVGDAAKALD-----HDDVFGVLLQYPGTSGEVRD-YTALIAAAHA 233 (954)
T ss_pred CCEEEEcCccCHH-HHHHHHHHHHhCCCEEEEecCccCCC-----cccEEEEEEecCCCCeeecc-HHHHHHHHHH
Confidence 3578999999996 88889999999999999887544321 22344444444333 34433 6666666654
No 254
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
Probab=30.28 E-value=1.6e+02 Score=19.10 Aligned_cols=44 Identities=9% Similarity=0.074 Sum_probs=31.1
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
...+..+....-.++++-..+..- .-.....+|++++||++.++
T Consensus 21 ~~~Ld~~~~~~~~~~lvhGga~~G-aD~iA~~wA~~~gv~~~~~~ 64 (71)
T PF10686_consen 21 WAALDKVHARHPDMVLVHGGAPKG-ADRIAARWARERGVPVIRFP 64 (71)
T ss_pred HHHHHHHHHhCCCEEEEECCCCCC-HHHHHHHHHHHCCCeeEEeC
Confidence 344455556667788888877332 55677899999999998654
No 255
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=30.24 E-value=1.1e+02 Score=24.08 Aligned_cols=50 Identities=18% Similarity=0.103 Sum_probs=30.1
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
.++..+++...+-++++...-........+..+++.+++|++.+.+|.++
T Consensus 79 ~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P~iivvNK~D~ 128 (237)
T cd04168 79 AEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIPTIIFVNKIDR 128 (237)
T ss_pred HHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccc
Confidence 34566666655555555433222224556677788889998877666544
No 256
>PF14367 DUF4411: Domain of unknown function (DUF4411)
Probab=30.20 E-value=60 Score=24.13 Aligned_cols=69 Identities=20% Similarity=0.286 Sum_probs=40.6
Q ss_pred ChHHHHHHHHHHHHH-HHcCCccccH----------HHHHHHHHcCcccEEEEecCCChhh---HHHhHHHHhHhcCCCE
Q psy1295 24 DTALTTKILSLVQQA-LNYKQLRKGA----------NEATKTLNRGLSEFIVLAADAEPLE---IVLHLPLLCEDKNVPY 89 (137)
Q Consensus 24 ~~~~~~kl~~lL~~A-~~ag~lv~G~----------~~v~kaI~k~kaklViiA~D~~~~~---~~~~i~~lc~~~~IP~ 89 (137)
+.++.....+++..+ ...++...|. .-+..|...| ..|+-....+.. ...+||..|+..|||+
T Consensus 72 d~~~~~~~~~v~~~~~~~~~~~~~~a~~~f~~~ADp~LIA~A~~~~---~~VVT~E~~~~~~~~~~~KIPdvC~~~gV~c 148 (162)
T PF14367_consen 72 DEAIQAEYAEVLNWVIINSQQYKKGAKDEFLSVADPWLIAYAKAYG---ATVVTHEVSNPNKKKKKIKIPDVCEHFGVPC 148 (162)
T ss_pred hHHHHHHHHHHHHHHhhcchhhchhHHhhhcccCCHHHHHHHHhcC---CEEEccCCCCCCCCccCCCCChhHHhCCCcC
Confidence 346677777777763 3444433322 2234444444 366666555321 2467999999999999
Q ss_pred EEeCCH
Q psy1295 90 VFVRSK 95 (137)
Q Consensus 90 i~~~tk 95 (137)
+.....
T Consensus 149 i~~~~~ 154 (162)
T PF14367_consen 149 INLFEF 154 (162)
T ss_pred CCHHHH
Confidence 866543
No 257
>cd02968 SCO SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c oxidase (COX). They contain a metal binding motif, typically CXXXC, which is located in a flexible loop. COX, the terminal enzyme in the respiratory chain, is imbedded in the inner mitochondrial membrane of all eukaryotes and in the plasma membrane of some prokaryotes. It is composed of two subunits, COX I and COX II. It has been proposed that Sco1 specifically delivers copper to the CuA site, a dinuclear copper center, of the COX II subunit. Mutations in human Sco1 and Sco2 cause fatal infantile hepatoencephalomyopathy and cardioencephalomyopathy, respectively. Both disorders are associated with severe COX deficiency in affected tissues. More recently, it has been argued that the redox sensitivity of the copper binding properti
Probab=30.03 E-value=1.5e+02 Score=20.27 Aligned_cols=47 Identities=17% Similarity=0.150 Sum_probs=31.4
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC----HHHHHHHhCCC
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS----KQALGRACGVS 105 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t----k~eLG~a~G~~ 105 (137)
+++.++.|+.|-... ....+.++.++++.++..+.+ ...+.+.+|..
T Consensus 58 ~~v~~v~vs~d~~~d-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~g~~ 108 (142)
T cd02968 58 DDVQVVFISVDPERD-TPEVLKAYAKAFGPGWIGLTGTPEEIEALAKAFGVY 108 (142)
T ss_pred CceEEEEEEECCCCC-CHHHHHHHHHHhCCCcEEEECCHHHHHHHHHHhcEE
Confidence 368889998876422 345667777888776665543 35788888843
No 258
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily. RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu
Probab=30.01 E-value=1.9e+02 Score=20.22 Aligned_cols=40 Identities=18% Similarity=0.213 Sum_probs=23.9
Q ss_pred ccEEEEecCCChhhHHHhH-------HHHhH-hcCCCEEEeCCHHHHH
Q psy1295 60 SEFIVLAADAEPLEIVLHL-------PLLCE-DKNVPYVFVRSKQALG 99 (137)
Q Consensus 60 aklViiA~D~~~~~~~~~i-------~~lc~-~~~IP~i~~~tk~eLG 99 (137)
+..+++.-|++..+....+ ..... ..++|++.+++|.+|-
T Consensus 72 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~ 119 (165)
T cd04146 72 ADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLL 119 (165)
T ss_pred CCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchH
Confidence 5667777777554332222 22221 4589999999887763
No 259
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=29.94 E-value=66 Score=27.18 Aligned_cols=40 Identities=15% Similarity=0.186 Sum_probs=27.7
Q ss_pred cEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 61 EFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 61 klViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
--+++|+=.+. +..++...|+++|||++.- .-|.+++=..
T Consensus 278 AP~VvAKG~d~--~A~~Ir~iA~e~~VPiven---~pLAR~Ly~~ 317 (342)
T TIGR01404 278 LPLIICKGTDA--QALAVRAYAEEAGIPVVRD---IPLARQLYRT 317 (342)
T ss_pred CCEEEEeeCcH--HHHHHHHHHHHcCCCEeeC---HHHHHHHHHc
Confidence 34555655544 6899999999999998654 3466655543
No 260
>cd03339 TCP1_epsilon TCP-1 (CTT or eukaryotic type II) chaperonin family, epsilon subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=29.84 E-value=1.8e+02 Score=25.66 Aligned_cols=44 Identities=9% Similarity=0.029 Sum_probs=28.3
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHH
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQA 97 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~e 97 (137)
.+..+.+.+..+.+|+++.+.++. . ..++.++||..+...++.+
T Consensus 277 ~~~v~~i~~~g~~lvi~~~~I~~~-a----l~~L~~~~I~av~~v~~~~ 320 (526)
T cd03339 277 REMVEQVKDAGANLVICQWGFDDE-A----NHLLLQNGLPAVRWVGGVE 320 (526)
T ss_pred HHHHHHHHHCCCCEEEeCCCCCHH-H----HHHHHHCCCEEEEeCCHHH
Confidence 344455555667899998888774 3 2355677887776554433
No 261
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=29.69 E-value=3.3e+02 Score=22.72 Aligned_cols=48 Identities=25% Similarity=0.204 Sum_probs=30.1
Q ss_pred HHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 51 ATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 51 v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
+.++++...+-++++...-.......++...+.+.++|++.+.+|.+|
T Consensus 248 ~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl 295 (429)
T TIGR03594 248 TLKAIERADVVLLVLDATEGITEQDLRIAGLILEAGKALVIVVNKWDL 295 (429)
T ss_pred HHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEECccc
Confidence 445666655555555433222223446677888899999998888765
No 262
>COG4087 Soluble P-type ATPase [General function prediction only]
Probab=29.61 E-value=2.5e+02 Score=21.22 Aligned_cols=48 Identities=19% Similarity=0.096 Sum_probs=36.8
Q ss_pred HcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 40 NYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 40 ~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
..|+|..-..++++-+..- ++.+|-+.| .+..+.++++..|||..+++
T Consensus 27 tgGklf~ev~e~iqeL~d~-V~i~IASgD-----r~gsl~~lae~~gi~~~rv~ 74 (152)
T COG4087 27 TGGKLFSEVSETIQELHDM-VDIYIASGD-----RKGSLVQLAEFVGIPVERVF 74 (152)
T ss_pred cCcEEcHhhHHHHHHHHHh-heEEEecCC-----cchHHHHHHHHcCCceeeee
Confidence 4577888888888888776 776665555 46678889999999988664
No 263
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=29.61 E-value=1.6e+02 Score=22.29 Aligned_cols=43 Identities=16% Similarity=0.198 Sum_probs=24.1
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
+.++.+...++.-+|+.. +++. ........+.+++||++.+.+
T Consensus 46 ~~i~~~~~~~~Dgiii~~-~~~~-~~~~~i~~~~~~~iPvV~~~~ 88 (282)
T cd06318 46 ADVEDLLTRGVNVLIINP-VDPE-GLVPAVAAAKAAGVPVVVVDS 88 (282)
T ss_pred HHHHHHHHcCCCEEEEec-CCcc-chHHHHHHHHHCCCCEEEecC
Confidence 345555566677667654 2232 222333455678888887653
No 264
>cd01139 TroA_f Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=29.59 E-value=2.9e+02 Score=22.27 Aligned_cols=55 Identities=20% Similarity=0.212 Sum_probs=31.3
Q ss_pred HHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC-----------HHHHHHHhCCC
Q psy1295 51 ATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS-----------KQALGRACGVS 105 (137)
Q Consensus 51 v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t-----------k~eLG~a~G~~ 105 (137)
-.+.|.+=+-.+||..........-......-++.+||++.+.. -..||+++|++
T Consensus 83 n~E~l~~l~PDLIi~~~~~~~~~~~~~~~~~l~~~gipvv~~~~~~~~~~~~~~~i~~lg~i~g~~ 148 (342)
T cd01139 83 SVEKVLTLKPDLVILNIWAKTTAEESGILEKLEQAGIPVVFVDFRQKPLKNTTPSMRLLGKALGRE 148 (342)
T ss_pred CHHHHhhcCCCEEEEeccccccchhhHHHHHHHHcCCcEEEEeCCCchhhhHHHHHHHHHHHhCCH
Confidence 46677777888988865432100011222233677899887642 12467777765
No 265
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=29.56 E-value=1.8e+02 Score=21.39 Aligned_cols=41 Identities=22% Similarity=0.088 Sum_probs=26.0
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
+..+.+.++++..+++....+.. .. ...+...+||++.+.+
T Consensus 46 ~~~~~~~~~~~d~iii~~~~~~~-~~---~~~~~~~~ipvv~~~~ 86 (264)
T cd06267 46 EALELLLSRRVDGIILAPSRLDD-EL---LEELAALGIPVVLVDR 86 (264)
T ss_pred HHHHHHHHcCcCEEEEecCCcch-HH---HHHHHHcCCCEEEecc
Confidence 44555556677777776554443 33 5557889999987753
No 266
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=29.49 E-value=1.1e+02 Score=18.94 Aligned_cols=9 Identities=11% Similarity=0.372 Sum_probs=4.1
Q ss_pred HhcCCCEEE
Q psy1295 83 EDKNVPYVF 91 (137)
Q Consensus 83 ~~~~IP~i~ 91 (137)
+++||||..
T Consensus 20 ~~~~i~~~~ 28 (72)
T TIGR02194 20 EEHGIAFEE 28 (72)
T ss_pred HHCCCceEE
Confidence 344555443
No 267
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=29.43 E-value=83 Score=22.84 Aligned_cols=22 Identities=18% Similarity=0.241 Sum_probs=9.5
Q ss_pred cHHHHHHHHHcCcccEEEEecC
Q psy1295 47 GANEATKTLNRGLSEFIVLAAD 68 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D 68 (137)
+..+..+.+++....|+++..|
T Consensus 54 sL~~L~~~L~~~g~~L~v~~g~ 75 (165)
T PF00875_consen 54 SLADLQESLRKLGIPLLVLRGD 75 (165)
T ss_dssp HHHHHHHHHHHTTS-EEEEESS
T ss_pred HHHHHHHHHHhcCcceEEEecc
Confidence 3444444444444444444444
No 268
>PLN00197 beta-amylase; Provisional
Probab=29.36 E-value=1.3e+02 Score=27.48 Aligned_cols=45 Identities=20% Similarity=0.293 Sum_probs=40.2
Q ss_pred ccHHHHHHHHHcCcccEEEEecC-----------CChhhHHHhHHHHhHhcCCCEE
Q psy1295 46 KGANEATKTLNRGLSEFIVLAAD-----------AEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D-----------~~~~~~~~~i~~lc~~~~IP~i 90 (137)
-|...+.+.+++..+.+.|-+-+ |+|..+...+...|+++||++.
T Consensus 420 DGY~~Ia~mfarh~~~l~FTClEM~D~eqp~~a~s~PE~Lv~QV~~aA~~~Gv~va 475 (573)
T PLN00197 420 DGYLPIAQMLARHGAIFNFTCIEMRDHEQPQDALCAPEKLVRQVALATREAEVPLA 475 (573)
T ss_pred ccHHHHHHHHHHcCCeEEEEecCcccCCCCccccCCHHHHHHHHHHHHHHcCCcEe
Confidence 47899999999999999998764 6788899999999999999986
No 269
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=29.32 E-value=1.7e+02 Score=19.18 Aligned_cols=31 Identities=10% Similarity=0.057 Sum_probs=18.7
Q ss_pred HHhHHHHhHhcCCCEEEeC---C---HHHHHHHhCCC
Q psy1295 75 VLHLPLLCEDKNVPYVFVR---S---KQALGRACGVS 105 (137)
Q Consensus 75 ~~~i~~lc~~~~IP~i~~~---t---k~eLG~a~G~~ 105 (137)
-.....+.+.++|||..+. + +.+|.+.-|..
T Consensus 26 C~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~~~g~~ 62 (90)
T cd03028 26 SRKVVQILNQLGVDFGTFDILEDEEVRQGLKEYSNWP 62 (90)
T ss_pred HHHHHHHHHHcCCCeEEEEcCCCHHHHHHHHHHhCCC
Confidence 3456666678889887654 2 23455555644
No 270
>PRK01889 GTPase RsgA; Reviewed
Probab=29.28 E-value=70 Score=26.89 Aligned_cols=26 Identities=19% Similarity=0.088 Sum_probs=23.1
Q ss_pred HHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 74 IVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
..+++...|+..|+|.+.+.+|.+|.
T Consensus 130 ~ldr~L~~a~~~~i~piIVLNK~DL~ 155 (356)
T PRK01889 130 RIERYLALAWESGAEPVIVLTKADLC 155 (356)
T ss_pred HHHHHHHHHHHcCCCEEEEEEChhcC
Confidence 67888899999999999999999884
No 271
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=29.19 E-value=1.9e+02 Score=22.75 Aligned_cols=42 Identities=17% Similarity=0.237 Sum_probs=24.1
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+.+..+...++.-+|+... ++. ........++..+||++.+.
T Consensus 48 ~~i~~l~~~~vdgiii~~~-~~~-~~~~~~~~~~~~giPvV~~~ 89 (303)
T cd01539 48 EQIDTALAKGVDLLAVNLV-DPT-AAQTVINKAKQKNIPVIFFN 89 (303)
T ss_pred HHHHHHHHcCCCEEEEecC-chh-hHHHHHHHHHHCCCCEEEeC
Confidence 4555555566776666432 232 23344455677899988764
No 272
>PLN02721 threonine aldolase
Probab=29.16 E-value=1.5e+02 Score=23.58 Aligned_cols=34 Identities=12% Similarity=0.108 Sum_probs=23.8
Q ss_pred cccEEEEecC-------CChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 59 LSEFIVLAAD-------AEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 59 kaklViiA~D-------~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
+.++|++..- +-+.+-.+.+.++|+++|++++.-
T Consensus 137 ~~~~v~l~~~~~np~G~~~~~~~l~~l~~l~~~~g~~livD 177 (353)
T PLN02721 137 TTRLICLENTHANCGGRCLSVEYTDKVGELAKRHGLKLHID 177 (353)
T ss_pred cceEEEEeccccccCCccccHHHHHHHHHHHHHcCCEEEEE
Confidence 6788888442 112224678999999999998753
No 273
>PRK06153 hypothetical protein; Provisional
Probab=29.07 E-value=1.5e+02 Score=25.89 Aligned_cols=39 Identities=15% Similarity=0.133 Sum_probs=32.6
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
....+||.|-|..+ .+..+-.+|.+++||++.++-.-++
T Consensus 265 ~~~DiV~dcvDn~~--aR~~ln~~a~~~gIP~Id~G~~l~~ 303 (393)
T PRK06153 265 DGFTFVFVCVDKGS--SRKLIVDYLEALGIPFIDVGMGLEL 303 (393)
T ss_pred cCCCEEEEcCCCHH--HHHHHHHHHHHcCCCEEEeeeccee
Confidence 46899999999655 5888999999999999998766555
No 274
>PRK11411 fecB iron-dicitrate transporter substrate-binding subunit; Provisional
Probab=29.05 E-value=3e+02 Score=21.95 Aligned_cols=66 Identities=11% Similarity=0.331 Sum_probs=38.4
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH-----------HHHHHHhCCCcceEEEEEEeCCC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK-----------QALGRACGVSRPIIACSVTVDEG 118 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk-----------~eLG~a~G~~~~v~~~ai~~~~~ 118 (137)
--.+.|.+=+-.+||......+ +..+.+. +. +|++.+.+. +.||+++|++
T Consensus 92 ~n~E~I~al~PDLIi~~~~~~~-~~~~~L~----~~-~pv~~~~~~~~~~~~~~~~i~~lg~i~g~e------------- 152 (303)
T PRK11411 92 PSLEAIAALKPDLIIADSSRHA-GVYIALQ----KI-APTLLLKSRNETYQENLQSAAIIGEVLGKK------------- 152 (303)
T ss_pred CCHHHHHhCCCCEEEecccccH-HHHHHHH----Hh-CCEEEecCCCCCHHHHHHHHHHHHHHhCCH-------------
Confidence 3466777788889887543333 2444442 23 598876431 2588888876
Q ss_pred CChHHHHHHHHHHHHH
Q psy1295 119 SQLKPQIQAIQQQIER 134 (137)
Q Consensus 119 s~~~~~i~e~~~~~~~ 134 (137)
++..+.+.++.+++++
T Consensus 153 ~~a~~~i~~~~~~l~~ 168 (303)
T PRK11411 153 REMQARIEQHKERMAQ 168 (303)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 2334555555555554
No 275
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=28.97 E-value=1.7e+02 Score=22.13 Aligned_cols=42 Identities=10% Similarity=0.154 Sum_probs=24.7
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+.++.+.+.++.-+|+....++ ....+...+.+++||++.+.
T Consensus 47 ~~i~~l~~~~vdgiii~~~~~~--~~~~~~~~l~~~~iPvv~~~ 88 (272)
T cd06301 47 SQVENFIAQGVDAIIVVPVDTA--ATAPIVKAANAAGIPLVYVN 88 (272)
T ss_pred HHHHHHHHcCCCEEEEecCchh--hhHHHHHHHHHCCCeEEEec
Confidence 4444455556776666543222 23345566788899988764
No 276
>CHL00071 tufA elongation factor Tu
Probab=28.91 E-value=2.4e+02 Score=23.92 Aligned_cols=49 Identities=18% Similarity=0.217 Sum_probs=24.7
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCC-EEEeCCHHH
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP-YVFVRSKQA 97 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP-~i~~~tk~e 97 (137)
+.+..++..-.+-++++..+-...........++...++| ++.+-+|.+
T Consensus 90 ~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~g~~~iIvvvNK~D 139 (409)
T CHL00071 90 KNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVFLNKED 139 (409)
T ss_pred HHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEccC
Confidence 3344445444455555544422212333444678888888 444455544
No 277
>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....
Probab=28.85 E-value=1.3e+02 Score=23.51 Aligned_cols=49 Identities=22% Similarity=0.342 Sum_probs=34.7
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEE-eCCHHHHHHHhC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVF-VRSKQALGRACG 103 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~-~~tk~eLG~a~G 103 (137)
..++.++++.| +++++= |. +-..+..+|+++++|++= +.|-.|+-++..
T Consensus 70 ~e~a~~a~~aG-A~FivS-----P~-~~~~v~~~~~~~~i~~iPG~~TptEi~~A~~ 119 (196)
T PF01081_consen 70 AEQAEAAIAAG-AQFIVS-----PG-FDPEVIEYAREYGIPYIPGVMTPTEIMQALE 119 (196)
T ss_dssp HHHHHHHHHHT--SEEEE-----SS---HHHHHHHHHHTSEEEEEESSHHHHHHHHH
T ss_pred HHHHHHHHHcC-CCEEEC-----CC-CCHHHHHHHHHcCCcccCCcCCHHHHHHHHH
Confidence 46777788888 666653 43 555677899999999985 788888866654
No 278
>PLN03110 Rab GTPase; Provisional
Probab=28.75 E-value=2.6e+02 Score=21.15 Aligned_cols=76 Identities=13% Similarity=0.077 Sum_probs=41.6
Q ss_pred cccEEEEecCCChhhHHHhHHHH---hH---hcCCCEEEeCCHHHHHHH----------hCCCcceEEEEEEeCCCCChH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLL---CE---DKNVPYVFVRSKQALGRA----------CGVSRPIIACSVTVDEGSQLK 122 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~l---c~---~~~IP~i~~~tk~eLG~a----------~G~~~~v~~~ai~~~~~s~~~ 122 (137)
.+..+++.-|.+..+....+..+ .. ..++|++.+++|.+|... +.........-+-...+..+.
T Consensus 84 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~ 163 (216)
T PLN03110 84 GAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVE 163 (216)
T ss_pred CCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence 35556666666433333343332 22 247999999988876432 212222333334345556777
Q ss_pred HHHHHHHHHHHH
Q psy1295 123 PQIQAIQQQIER 134 (137)
Q Consensus 123 ~~i~e~~~~~~~ 134 (137)
++++.+..++.+
T Consensus 164 ~lf~~l~~~i~~ 175 (216)
T PLN03110 164 KAFQTILLEIYH 175 (216)
T ss_pred HHHHHHHHHHHH
Confidence 788777766644
No 279
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=28.73 E-value=2.1e+02 Score=23.05 Aligned_cols=94 Identities=16% Similarity=0.110 Sum_probs=53.1
Q ss_pred CCccccHHHHHHHHHcC-cccEEE---Ee--cCCChhhHHHhHHHHhHhcCCCEEEeCC---H---HHHHHHhCCCcceE
Q psy1295 42 KQLRKGANEATKTLNRG-LSEFIV---LA--ADAEPLEIVLHLPLLCEDKNVPYVFVRS---K---QALGRACGVSRPII 109 (137)
Q Consensus 42 g~lv~G~~~v~kaI~k~-kaklVi---iA--~D~~~~~~~~~i~~lc~~~~IP~i~~~t---k---~eLG~a~G~~~~v~ 109 (137)
++-+.-.+.....+.+. ..+.+- +. ...+|. -...+..+.++++|++++... . +.|.+..|.+....
T Consensus 177 ~~~~v~~H~af~Y~~~~yGl~~~~~~~~~~~~eps~~-~l~~l~~~ik~~~v~~if~e~~~~~~~~~~ia~~~gv~v~~~ 255 (287)
T cd01137 177 KRKLVTSEGAFSYFAKAYGLKEAYLWPINTEEEGTPK-QVATLIEQVKKEKVPAVFVESTVNDRLMKQVAKETGAKIGGQ 255 (287)
T ss_pred cCEEEEecccHHHHHHHcCCeEeecccCCCCCCCCHH-HHHHHHHHHHHhCCCEEEEeCCCChHHHHHHHHHhCCccccc
Confidence 34345556677676442 233222 11 334555 567788899999999997732 1 35666666552110
Q ss_pred --EEEEEe--CCCCChHHHHHHHHHHHHHhh
Q psy1295 110 --ACSVTV--DEGSQLKPQIQAIQQQIERLL 136 (137)
Q Consensus 110 --~~ai~~--~~~s~~~~~i~e~~~~~~~~~ 136 (137)
.-.+.. ..++.+.+.++...+++..-|
T Consensus 256 ~~~d~l~~~~~~~~~Y~~~m~~n~~~l~~al 286 (287)
T cd01137 256 LYTDSLSEKGGPADTYLDMMEHNLDTIVEGL 286 (287)
T ss_pred cccccCCCCCCCcCCHHHHHHHHHHHHHHHh
Confidence 000111 123478899998888887644
No 280
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=28.68 E-value=2.9e+02 Score=23.19 Aligned_cols=47 Identities=17% Similarity=0.210 Sum_probs=39.2
Q ss_pred CcccEEEEec----CCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 58 GLSEFIVLAA----DAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 58 ~kaklViiA~----D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
.+..+|++|. -.++ ++-..+.+.|++++++++.--|.+.|-+++--+
T Consensus 128 ~~~d~VvlsGSlP~g~~~-d~y~~li~~~~~~g~~vilD~Sg~~L~~~L~~~ 178 (310)
T COG1105 128 ESDDIVVLSGSLPPGVPP-DAYAELIRILRQQGAKVILDTSGEALLAALEAK 178 (310)
T ss_pred ccCCEEEEeCCCCCCCCH-HHHHHHHHHHHhcCCeEEEECChHHHHHHHccC
Confidence 4567799999 4455 488899999999999999888999998888766
No 281
>TIGR03603 cyclo_dehy_ocin bacteriocin biosynthesis cyclodehydratase, SagC family. Members of this protein family include enzymes related to SagC, a cyclodehydratase involved in the biosynthesis of streptolysin S in Streptococcus pyogenes from the protoxin polypeptide (product of the sagA gene). This protein family serves as a marker for widely distributed prokaryotic systems for making a general class of heterocycle-containing bacteriocins. Note that this model does not find all possible examples of bacteriocin biosynthesis cyclodehydratases, an in particular misses the E. coli plasmid protein McbB of microcin B17 biosynthesis.
Probab=28.66 E-value=89 Score=25.98 Aligned_cols=35 Identities=11% Similarity=0.294 Sum_probs=27.7
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
+...+|+.+.|-....+...+-+.|.++++|+++.
T Consensus 150 ~~~DlVid~tDn~~~r~L~~iN~ac~~~~~PlV~g 184 (318)
T TIGR03603 150 KDYNYIIICTEHSNISLLRGLNKLSKETKKPNTIA 184 (318)
T ss_pred CCCCEEEECCCCccHhHHHHHHHHHHHHCCCEEEE
Confidence 44789999999766334466999999999999854
No 282
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=28.62 E-value=1e+02 Score=24.48 Aligned_cols=54 Identities=9% Similarity=0.152 Sum_probs=32.0
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC------CHHHHHHHhC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR------SKQALGRACG 103 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~------tk~eLG~a~G 103 (137)
..+.+.++..+..-|.+..=.+-+ +.+.+..+|+..+||+.... |..++..+++
T Consensus 81 ~~L~~~~~~~~~~~~~~~~P~d~~-l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~~f~~~~~ 140 (224)
T PF04244_consen 81 DALARALKQHGIDRLHVMEPGDYR-LEQRLESLAQQLGIPLEVLEDPHFLTSREEFAEWFE 140 (224)
T ss_dssp HHHHHHHHHH----EEEE--S-HH-HHHHHHH----SSS-EEEE--TTSSS-HHHHHHHHT
T ss_pred HHHHHHHHHcCCCEEEEECCCCHH-HHHHHHhhhcccCCceEEeCCCCccCCHHHHHHHHc
Confidence 455566777778888888888787 99999999999999988654 5678888877
No 283
>PLN02803 beta-amylase
Probab=28.60 E-value=1.4e+02 Score=27.23 Aligned_cols=45 Identities=7% Similarity=0.098 Sum_probs=39.8
Q ss_pred ccHHHHHHHHHcCcccEEEEecC-----------CChhhHHHhHHHHhHhcCCCEE
Q psy1295 46 KGANEATKTLNRGLSEFIVLAAD-----------AEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D-----------~~~~~~~~~i~~lc~~~~IP~i 90 (137)
-|...+.+.+++..+.+.|-+-+ |+|..+...+...|+++||++.
T Consensus 399 dGY~~Ia~mf~rh~~~l~FTClEM~D~eqp~~~~s~Pe~Lv~Qv~~aa~~~Gv~~a 454 (548)
T PLN02803 399 DGYLPIARMFSKHGVVLNFTCMEMRDGEQPEHANCSPEGLVRQVKMATRTAGTELA 454 (548)
T ss_pred ccHHHHHHHHHHcCCeEEEEecCcccCCCCccccCCHHHHHHHHHHHHHHcCCcee
Confidence 47889999999999999998764 5777899999999999999985
No 284
>TIGR03013 EpsB_2 sugar transferase, PEP-CTERM system associated. Members of this protein family belong to the family of bacterial sugar transferases (pfam02397). Nearly all are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria (notable exceptions appear to include Magnetococcus sp. MC-1 and Myxococcus xanthus DK 1622 ). These genes are generally found near one or more of the PrsK, PrsR or PrsT genes that have been related to the PEP-CTERM system by phylogenetic profiling methods. The nature of the sugar transferase reaction catalyzed by members of this clade is unknown and may conceivably be variable with respect to substrate by species. These proteins are homologs of the EpsB protien found in Methylobacillus sp. strain 12S, which is also associated with a PEP-CTERM system, but of a distinct type. A name which appears attached to a number of genes (by transitive annotation) in this family is "undecapre
Probab=28.58 E-value=1.6e+02 Score=25.23 Aligned_cols=51 Identities=18% Similarity=0.071 Sum_probs=37.7
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
..+..+.+++.++.-|++|-+....+........|+..+|++..+++..++
T Consensus 175 ~~dl~~~v~~~~Id~ViIAlp~~~~~~~~~~l~~~~~~gv~V~ivP~~~e~ 225 (442)
T TIGR03013 175 GDGLVEYVLRHRIDEIVIALDERRGSLPVDELLECKLSGIEVVDAPSFFER 225 (442)
T ss_pred HHHHHHHHHhCCCCEEEEECchhhcchHHHHHHHHHhCCCEEEEcchHHHH
Confidence 466788899999999999987443322122356799999999888887664
No 285
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=28.56 E-value=2.1e+02 Score=21.95 Aligned_cols=42 Identities=10% Similarity=0.033 Sum_probs=24.1
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..+.+...++.-+|+... ++. ........+.+.+||++.+.
T Consensus 46 ~~i~~~~~~~vdgiii~~~-~~~-~~~~~i~~~~~~~iPvV~~~ 87 (272)
T cd06313 46 AAIENMASQGWDFIAVDPL-GIG-TLTEAVQKAIARGIPVIDMG 87 (272)
T ss_pred HHHHHHHHcCCCEEEEcCC-ChH-HhHHHHHHHHHCCCcEEEeC
Confidence 4444555566766666432 222 23444456677788887764
No 286
>PLN02801 beta-amylase
Probab=28.49 E-value=1.4e+02 Score=27.03 Aligned_cols=45 Identities=13% Similarity=0.158 Sum_probs=39.9
Q ss_pred ccHHHHHHHHHcCcccEEEEecC-----------CChhhHHHhHHHHhHhcCCCEE
Q psy1295 46 KGANEATKTLNRGLSEFIVLAAD-----------AEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D-----------~~~~~~~~~i~~lc~~~~IP~i 90 (137)
-|...+.+.+++..+.+.|-+-+ |+|..+...+...|+++||++.
T Consensus 327 DGY~pIa~m~~rh~~~l~FTClEM~D~eq~~~~~s~PE~Lv~QV~~aa~~~Gv~va 382 (517)
T PLN02801 327 DGYRPIARMLSRHYGILNFTCLEMRDTEQPAEALSAPQELVQQVLSGAWREGIEVA 382 (517)
T ss_pred cchHHHHHHHHHcCCeEEEeecccccCCCCcccCCCHHHHHHHHHHHHHHcCCcEe
Confidence 48899999999999999998764 5787899999999999999985
No 287
>cd01875 RhoG RhoG subfamily. RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin
Probab=28.48 E-value=1e+02 Score=22.85 Aligned_cols=43 Identities=14% Similarity=0.158 Sum_probs=28.0
Q ss_pred CcccEEEEecCCChhhHHHhHHH-HhH-----hcCCCEEEeCCHHHHHH
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPL-LCE-----DKNVPYVFVRSKQALGR 100 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~-lc~-----~~~IP~i~~~tk~eLG~ 100 (137)
..+..+|+.-|++.++....+.. +.. ..++|++.+++|.+|-.
T Consensus 73 ~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~ 121 (191)
T cd01875 73 PQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRN 121 (191)
T ss_pred cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhc
Confidence 35677777777655445555542 222 14799999999999853
No 288
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=28.39 E-value=2.6e+02 Score=26.47 Aligned_cols=61 Identities=15% Similarity=0.101 Sum_probs=43.0
Q ss_pred cCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEeCC
Q psy1295 57 RGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDE 117 (137)
Q Consensus 57 k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~ 117 (137)
+|+.+..+++.|.......+.+..+++..+||+..+.+..++-.++..-...-.+.|+-.+
T Consensus 213 ~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D~VLIDTAG 273 (767)
T PRK14723 213 EGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKHLVLIDTVG 273 (767)
T ss_pred cCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCCEEEEeCCC
Confidence 3445788999998765567889999999999998888888887766533222233444443
No 289
>PLN02828 formyltetrahydrofolate deformylase
Probab=28.31 E-value=1.1e+02 Score=25.02 Aligned_cols=49 Identities=16% Similarity=0.267 Sum_probs=31.7
Q ss_pred ccccHHHHHHHH----HcCc--ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 44 LRKGANEATKTL----NRGL--SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 44 lv~G~~~v~kaI----~k~k--aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+++|.-.+..+| ++|. +.++.+-+|-++. -...+..+|+++|||+..++
T Consensus 76 lvSg~g~nl~~ll~~~~~g~l~~eI~~ViSn~~~~-~~a~~~~~A~~~gIP~~~~~ 130 (268)
T PLN02828 76 LASKQDHCLIDLLHRWQDGRLPVDITCVISNHERG-PNTHVMRFLERHGIPYHYLP 130 (268)
T ss_pred EEcCCChhHHHHHHhhhcCCCCceEEEEEeCCCCC-CCchHHHHHHHcCCCEEEeC
Confidence 456665555554 5553 6777777776422 12366778999999998654
No 290
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=28.21 E-value=1.9e+02 Score=21.85 Aligned_cols=42 Identities=12% Similarity=0.111 Sum_probs=24.3
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..+.+...++.-+|+..- ++. ........+++.+||++.+.
T Consensus 51 ~~~~~~~~~~vdgiIi~~~-~~~-~~~~~l~~~~~~~iPvv~~~ 92 (272)
T cd06300 51 ADIRNLIAQGVDAIIINPA-SPT-ALNPVIEEACEAGIPVVSFD 92 (272)
T ss_pred HHHHHHHHcCCCEEEEeCC-Chh-hhHHHHHHHHHCCCeEEEEe
Confidence 3444445567877777552 222 22333455677899988764
No 291
>TIGR01460 HAD-SF-IIA Haloacid Dehalogenase Superfamily Class (subfamily) IIA. Many of the genes in this subfamily have been annotated as "pNPPase" "4-nitrophenyl phosphatase" or "NPPase". These all refer to the same activity versus a common lab test compound used to determine phosphatase activity. There is no evidence that this activity is physiologically relevant.
Probab=28.13 E-value=1.5e+02 Score=23.02 Aligned_cols=47 Identities=17% Similarity=-0.002 Sum_probs=30.9
Q ss_pred cCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCC
Q psy1295 41 YKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP 88 (137)
Q Consensus 41 ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP 88 (137)
.+....|..+.++.+++....++++.++.... -......+.+..++|
T Consensus 12 ~~~~~~~a~e~i~~l~~~g~~~~~~tN~~~~~-~~~~~~~l~~~~g~~ 58 (236)
T TIGR01460 12 GHKPIPGAAEALNRLRAKGKPVVFLTNNSSRS-EEDYAEKLSSLLGVD 58 (236)
T ss_pred CCccCcCHHHHHHHHHHCCCeEEEEECCCCCC-HHHHHHHHHHhcCCC
Confidence 34566788899999988888888888887543 233333444434543
No 292
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=28.10 E-value=1.5e+02 Score=18.31 Aligned_cols=27 Identities=15% Similarity=0.181 Sum_probs=19.9
Q ss_pred cEEEEecCCChhhHHHhHHHHhHhcCCCEE
Q psy1295 61 EFIVLAADAEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 61 klViiA~D~~~~~~~~~i~~lc~~~~IP~i 90 (137)
.+.|++.| |. ....++.+|+++|-.+.
T Consensus 27 ~l~v~~d~--~~-s~~~i~~~~~~~G~~~~ 53 (67)
T cd03421 27 EIEVLVDN--EV-AKENVSRFAESRGYEVS 53 (67)
T ss_pred EEEEEEcC--hh-HHHHHHHHHHHcCCEEE
Confidence 46666665 32 46899999999998873
No 293
>COG1535 EntB Isochorismate hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=27.98 E-value=56 Score=25.93 Aligned_cols=18 Identities=22% Similarity=0.730 Sum_probs=15.6
Q ss_pred HHhHHHHhHhcCCCEEEe
Q psy1295 75 VLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 75 ~~~i~~lc~~~~IP~i~~ 92 (137)
..++..+|+++|||+++.
T Consensus 60 i~~Lr~~~~~~giPVvyT 77 (218)
T COG1535 60 IAKLRIWCKQAGIPVVYT 77 (218)
T ss_pred HHHHHHHHHHcCCcEEEE
Confidence 457889999999999976
No 294
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=27.94 E-value=1.9e+02 Score=20.72 Aligned_cols=42 Identities=17% Similarity=0.163 Sum_probs=27.1
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
+..+.+..+++..+|+....... .. +...+...+||++.+..
T Consensus 49 ~~~~~~~~~~~d~ii~~~~~~~~--~~-~~~~~~~~~ip~v~~~~ 90 (269)
T cd01391 49 EALRDLIQQGVDGIIGPPSSSSA--LA-VVELAAAAGIPVVSLDA 90 (269)
T ss_pred HHHHHHHHcCCCEEEecCCCHHH--HH-HHHHHHHcCCcEEEecC
Confidence 34444555667777776554332 22 67788899999987753
No 295
>cd04119 RJL RJL (RabJ-Like) subfamily. RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.
Probab=27.84 E-value=2.1e+02 Score=19.68 Aligned_cols=74 Identities=14% Similarity=0.103 Sum_probs=39.2
Q ss_pred cccEEEEecCCChhhH-------HHhHHHHhHh----cCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCC
Q psy1295 59 LSEFIVLAADAEPLEI-------VLHLPLLCED----KNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDE 117 (137)
Q Consensus 59 kaklViiA~D~~~~~~-------~~~i~~lc~~----~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~ 117 (137)
.+..+++.-|.+.++. ...+...+.. .++|++.+.+|.++-. ....+.+....-+-...
T Consensus 72 ~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~ 151 (168)
T cd04119 72 DTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACT 151 (168)
T ss_pred cCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCC
Confidence 3556666667654322 2333334443 5799999999887741 11111122222233344
Q ss_pred CCChHHHHHHHHHHH
Q psy1295 118 GSQLKPQIQAIQQQI 132 (137)
Q Consensus 118 ~s~~~~~i~e~~~~~ 132 (137)
+..+.++++.+...+
T Consensus 152 ~~gi~~l~~~l~~~l 166 (168)
T cd04119 152 GEGVNEMFQTLFSSI 166 (168)
T ss_pred CCCHHHHHHHHHHHH
Confidence 567777777766554
No 296
>cd01862 Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-
Probab=27.77 E-value=2.1e+02 Score=19.85 Aligned_cols=47 Identities=19% Similarity=0.334 Sum_probs=25.8
Q ss_pred CCCEEEeCCHHHHHH-----------HhCCCcceEEEEEEeCCCCChHHHHHHHHHHH
Q psy1295 86 NVPYVFVRSKQALGR-----------ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQI 132 (137)
Q Consensus 86 ~IP~i~~~tk~eLG~-----------a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~ 132 (137)
++|++.+.+|.+|.. ++.....+...-+-...+..+.++++.+...+
T Consensus 109 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~ 166 (172)
T cd01862 109 NFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFETIARKA 166 (172)
T ss_pred CceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence 899999988877761 22211112222333344566667776665543
No 297
>cd04175 Rap1 Rap1 subgroup. The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n
Probab=27.59 E-value=1.3e+02 Score=20.99 Aligned_cols=52 Identities=13% Similarity=0.153 Sum_probs=30.0
Q ss_pred hHhcCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCCCCChHHHHHHHHHHHH
Q psy1295 82 CEDKNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIE 133 (137)
Q Consensus 82 c~~~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~ 133 (137)
....++|++.+++|.+|-. .+.........-+-...+..+.++++.+.+++.
T Consensus 102 ~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~l~ 163 (164)
T cd04175 102 KDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQIN 163 (164)
T ss_pred cCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHhh
Confidence 3446799999888866521 111111222223333456788888888877764
No 298
>COG3383 Uncharacterized anaerobic dehydrogenase [General function prediction only]
Probab=27.57 E-value=94 Score=29.79 Aligned_cols=55 Identities=16% Similarity=0.216 Sum_probs=41.4
Q ss_pred CCCCCCcccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEe
Q psy1295 11 EEPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLA 66 (137)
Q Consensus 11 ~~~~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA 66 (137)
.|+++.|.|.|+.++....++.+.-+.-.. ++=-.-..+.+.++.+|+.+-..+-
T Consensus 601 slP~~LPGyq~isdd~~R~kFE~~wGv~i~-~ePGl~~~~Mlea~~~G~~~amYv~ 655 (978)
T COG3383 601 SLPDVLPGYQPISDDAVRAKFEEAWGVKIP-REPGLDNPEMLEAIEEGKLKAMYVV 655 (978)
T ss_pred cCcccCCCccccccHHHHHHHHHHhCCCCC-CCCCCCcHHHHHHHhcCceeEEEEe
Confidence 589999999999999999999887763321 2222236889999999998766543
No 299
>PRK00098 GTPase RsgA; Reviewed
Probab=27.56 E-value=93 Score=25.30 Aligned_cols=41 Identities=24% Similarity=0.249 Sum_probs=26.8
Q ss_pred cccEEEEecCC-Chh---hHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 59 LSEFIVLAADA-EPL---EIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 59 kaklViiA~D~-~~~---~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
.+..+++.-|+ +|. .....+...++..++|++.+.+|.+|-
T Consensus 80 niD~vllV~d~~~p~~~~~~idr~L~~~~~~~ip~iIVlNK~DL~ 124 (298)
T PRK00098 80 NVDQAVLVFAAKEPDFSTDLLDRFLVLAEANGIKPIIVLNKIDLL 124 (298)
T ss_pred cCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEhHHcC
Confidence 34555555555 231 234556666788899999999998883
No 300
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=27.54 E-value=91 Score=24.41 Aligned_cols=55 Identities=22% Similarity=0.259 Sum_probs=36.2
Q ss_pred cCCcccc------HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEE-eCCHHHHHHHh
Q psy1295 41 YKQLRKG------ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVF-VRSKQALGRAC 102 (137)
Q Consensus 41 ag~lv~G------~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~-~~tk~eLG~a~ 102 (137)
.+.+..| ..++.++++.| +++++ +|. +...+...|++++||++= +.|-.|+=.+.
T Consensus 53 ~~~~~vGAGTVl~~e~a~~ai~aG-A~Fiv-----SP~-~~~~vi~~a~~~~i~~iPG~~TptEi~~A~ 114 (201)
T PRK06015 53 VEEAIVGAGTILNAKQFEDAAKAG-SRFIV-----SPG-TTQELLAAANDSDVPLLPGAATPSEVMALR 114 (201)
T ss_pred CCCCEEeeEeCcCHHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCCEeCCCCCHHHHHHHH
Confidence 3445555 46667777777 66665 343 455677889999999873 56776665543
No 301
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=27.50 E-value=1.5e+02 Score=24.29 Aligned_cols=44 Identities=18% Similarity=0.278 Sum_probs=27.8
Q ss_pred ccccHHHHHHH----HHcC--cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 44 LRKGANEATKT----LNRG--LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 44 lv~G~~~v~ka----I~k~--kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+++|.-...++ ++.| .+..+.+-+|-+ .+..+|+++|||+..+.
T Consensus 95 l~Sg~gsnl~al~~~~~~~~~~~~i~~visn~~------~~~~lA~~~gIp~~~~~ 144 (286)
T PRK06027 95 LVSKEDHCLGDLLWRWRSGELPVEIAAVISNHD------DLRSLVERFGIPFHHVP 144 (286)
T ss_pred EEcCCCCCHHHHHHHHHcCCCCcEEEEEEEcCh------hHHHHHHHhCCCEEEec
Confidence 34554444444 4555 367888877753 23345999999998753
No 302
>PF03979 Sigma70_r1_1: Sigma-70 factor, region 1.1; InterPro: IPR007127 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This entry represents Region 1.1 which modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase [, ]. Region 1.1 is also involved in promoter binding.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2K6X_A.
Probab=27.44 E-value=1.8e+02 Score=19.00 Aligned_cols=55 Identities=18% Similarity=0.179 Sum_probs=35.5
Q ss_pred hHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEE
Q psy1295 25 TALTTKILSLVQQALNYKQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVF 91 (137)
Q Consensus 25 ~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~ 91 (137)
+.-..++..||..+++.|.|. ..++..++..- +.+|. -...+...-..+||.++.
T Consensus 3 ~~~~~~i~~Li~~gK~~G~lT--~~eI~~~L~~~---------~~~~e-~id~i~~~L~~~gI~Vvd 57 (82)
T PF03979_consen 3 EQYEEAIKKLIEKGKKKGYLT--YDEINDALPED---------DLDPE-QIDEIYDTLEDEGIEVVD 57 (82)
T ss_dssp -HHHHHHHHHHHHHHHHSS-B--HHHHHHH-S-S------------HH-HHHHHHHHHHTT----B-
T ss_pred chhHHHHHHHHHHHhhcCcCC--HHHHHHHcCcc---------CCCHH-HHHHHHHHHHHCCCEEec
Confidence 455678899999999999976 67888887532 35664 788888999999999876
No 303
>PRK09108 type III secretion system protein HrcU; Validated
Probab=27.40 E-value=77 Score=26.95 Aligned_cols=37 Identities=22% Similarity=0.100 Sum_probs=27.0
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACG 103 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G 103 (137)
-+++|+=.+. +..++.+.++++|||++.- ..|.+++-
T Consensus 282 P~VvAKG~d~--~A~~Ir~~A~e~~VPvven---~pLARaLy 318 (353)
T PRK09108 282 PRVIAKGVDD--GALALRRHAHALGIPIVGN---PPVARALY 318 (353)
T ss_pred CEEEEEeCcH--HHHHHHHHHHHcCCCEEeC---HHHHHHHh
Confidence 4555555544 6899999999999998654 45666665
No 304
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=27.38 E-value=1e+02 Score=20.56 Aligned_cols=38 Identities=21% Similarity=0.275 Sum_probs=24.0
Q ss_pred HHHHHHHHc--CcccEEEEecCCChh--hHHHhHHHHhHhcC
Q psy1295 49 NEATKTLNR--GLSEFIVLAADAEPL--EIVLHLPLLCEDKN 86 (137)
Q Consensus 49 ~~v~kaI~k--~kaklViiA~D~~~~--~~~~~i~~lc~~~~ 86 (137)
+...+.|++ .++.-||+|.|++.. .+..++..++..++
T Consensus 47 ~~~i~~l~~~~~~~~~iiiatD~D~EGe~Ia~~i~~~~~~~~ 88 (100)
T PF01751_consen 47 KKQIKNLKKLLKKADEIIIATDPDREGELIAWEIIELLGKNN 88 (100)
T ss_dssp HHHHHHHHHHHHSCSEEEEEC-SSHHHHHHHHHHHHHHHHHS
T ss_pred cccchhhHHHhhhccEeeecCCCChHHHHHHHHHHHHHhHhC
Confidence 344444444 578999999999874 25566666665554
No 305
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=27.37 E-value=87 Score=21.18 Aligned_cols=46 Identities=7% Similarity=0.108 Sum_probs=33.5
Q ss_pred cccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 45 RKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 45 v~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
..+..++... ..+..+|+++..... ..+.+...+..+++|+..++.
T Consensus 34 ~~~~~~~~~~--~~~~Diil~~Pqv~~--~~~~i~~~~~~~~~pv~~I~~ 79 (96)
T cd05564 34 AVPESELEEY--IDDADVVLLGPQVRY--MLDEVKKKAAEYGIPVAVIDM 79 (96)
T ss_pred EecHHHHHHh--cCCCCEEEEChhHHH--HHHHHHHHhccCCCcEEEcCh
Confidence 3445554433 356889999999866 377888888999999987764
No 306
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=27.33 E-value=75 Score=17.44 Aligned_cols=24 Identities=17% Similarity=0.040 Sum_probs=18.6
Q ss_pred HHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 74 IVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
....+.+.|+.+|+| ..++|.+|=
T Consensus 5 ~~~~Lk~~l~~~gl~--~~G~K~~Lv 28 (35)
T smart00513 5 KVSELKDELKKRGLS--TSGTKAELV 28 (35)
T ss_pred cHHHHHHHHHHcCCC--CCCCHHHHH
Confidence 356788999999999 467887763
No 307
>PRK02627 acetylornithine aminotransferase; Provisional
Probab=27.33 E-value=1.1e+02 Score=25.11 Aligned_cols=43 Identities=14% Similarity=0.344 Sum_probs=28.8
Q ss_pred cCcccEEEEec-------CCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 57 RGLSEFIVLAA-------DAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 57 k~kaklViiA~-------D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
+.+.++|++-. ...+.+..+.+..+|++++++++.-..-..+|
T Consensus 180 ~~~~~~vii~p~~~~~G~~~~~~~~l~~l~~l~~~~~~~lI~DE~~~g~g 229 (396)
T PRK02627 180 TDKTAAVMLEPIQGEGGVNPADKEYLQALRELCDENGILLILDEVQTGMG 229 (396)
T ss_pred CCCeEEEEEecccCCCCCccCCHHHHHHHHHHHHHcCCEEEEechhcCCC
Confidence 35678888853 12233478999999999999987544333343
No 308
>cd01487 E1_ThiF_like E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=27.30 E-value=1.1e+02 Score=22.84 Aligned_cols=33 Identities=21% Similarity=0.081 Sum_probs=23.5
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhc-CCCEEEeC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDK-NVPYVFVR 93 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~-~IP~i~~~ 93 (137)
...+||.|.|- +. .+..+...|.++ ++|++...
T Consensus 88 ~~DlVi~~~d~-~~-~r~~i~~~~~~~~~ip~i~~~ 121 (174)
T cd01487 88 DCDIVVEAFDN-AE-TKAMLAESLLGNKNKPVVCAS 121 (174)
T ss_pred CCCEEEECCCC-HH-HHHHHHHHHHHHCCCCEEEEe
Confidence 47899999774 43 666566666665 99999864
No 309
>cd04112 Rab26 Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=27.29 E-value=2.5e+02 Score=20.50 Aligned_cols=74 Identities=8% Similarity=0.120 Sum_probs=39.0
Q ss_pred cccEEEEecCCChhhHH-------HhHHHHhHhcCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCCCCCh
Q psy1295 59 LSEFIVLAADAEPLEIV-------LHLPLLCEDKNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDEGSQL 121 (137)
Q Consensus 59 kaklViiA~D~~~~~~~-------~~i~~lc~~~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~~s~~ 121 (137)
.+..+++.-|++..+.. ..+..++ ..++|++.+++|.+|-. .+.....+...-+-...+..+
T Consensus 73 ~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~-~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v 151 (191)
T cd04112 73 DAHALLLLYDITNKASFDNIRAWLTEIKEYA-QEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNV 151 (191)
T ss_pred CCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCH
Confidence 35566666677543222 2233332 24799999988887731 111111122222223345678
Q ss_pred HHHHHHHHHHHH
Q psy1295 122 KPQIQAIQQQIE 133 (137)
Q Consensus 122 ~~~i~e~~~~~~ 133 (137)
.++++++..++.
T Consensus 152 ~~l~~~l~~~~~ 163 (191)
T cd04112 152 ELAFTAVAKELK 163 (191)
T ss_pred HHHHHHHHHHHH
Confidence 788888776653
No 310
>cd04501 SGNH_hydrolase_like_4 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=27.26 E-value=1e+02 Score=22.21 Aligned_cols=21 Identities=10% Similarity=0.069 Sum_probs=17.1
Q ss_pred HHHhHHHHhHhcCCCEEEeCC
Q psy1295 74 IVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~t 94 (137)
+-..+..+|++++++++-..+
T Consensus 126 ~n~~~~~~a~~~~v~~vd~~~ 146 (183)
T cd04501 126 LNRWLKDYARENGLLFLDFYS 146 (183)
T ss_pred HHHHHHHHHHHcCCCEEechh
Confidence 556688999999999987664
No 311
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=27.23 E-value=1.3e+02 Score=22.28 Aligned_cols=36 Identities=11% Similarity=0.186 Sum_probs=18.9
Q ss_pred HHHHHHHcCcccEEEEecC-CChhhHHHhHHHHhHhc
Q psy1295 50 EATKTLNRGLSEFIVLAAD-AEPLEIVLHLPLLCEDK 85 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D-~~~~~~~~~i~~lc~~~ 85 (137)
...+.|++.+..+|.|+.+ .+-..+.+.+...-++.
T Consensus 54 ~l~~~i~~~kP~vI~v~g~~~~s~~l~~~v~~~v~~~ 90 (150)
T PF14639_consen 54 RLKKFIEKHKPDVIAVGGNSRESRKLYDDVRDIVEEL 90 (150)
T ss_dssp HHHHHHHHH--SEEEE--SSTHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHcCCeEEEEcCCChhHHHHHHHHHHHHHHh
Confidence 3446778888888888443 33333555555555544
No 312
>PRK08156 type III secretion system protein SpaS; Validated
Probab=27.22 E-value=80 Score=27.03 Aligned_cols=38 Identities=18% Similarity=0.153 Sum_probs=27.0
Q ss_pred EEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 63 IVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 63 ViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
+++|.=.+. +..+|...++++|||++.- .-|.+++=..
T Consensus 276 ~VvAKG~d~--~A~~IreiA~e~~VPiven---~pLARaLY~~ 313 (361)
T PRK08156 276 FISVRETNQ--RALAVRAYAEKVGVPVVRD---IKLARRLYKT 313 (361)
T ss_pred EEEEecCcH--HHHHHHHHHHHCCCCEeeC---HHHHHHHHHh
Confidence 445555444 7899999999999998653 4566666544
No 313
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=27.15 E-value=1.5e+02 Score=24.42 Aligned_cols=44 Identities=9% Similarity=0.210 Sum_probs=31.3
Q ss_pred ccccH----HHHHHHHHcCc--ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 44 LRKGA----NEATKTLNRGL--SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 44 lv~G~----~~v~kaI~k~k--aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+++|. ...+.++++|. +..+++-+|-+. . ..+|+++|||++.+.
T Consensus 99 l~Sg~g~nl~al~~~~~~~~l~~~i~~visn~~~--~----~~~A~~~gIp~~~~~ 148 (289)
T PRK13010 99 MVSKFDHCLNDLLYRWRMGELDMDIVGIISNHPD--L----QPLAVQHDIPFHHLP 148 (289)
T ss_pred EEeCCCccHHHHHHHHHCCCCCcEEEEEEECChh--H----HHHHHHcCCCEEEeC
Confidence 45664 45555666664 788998888643 3 388999999998753
No 314
>cd04114 Rab30 Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=27.05 E-value=2.2e+02 Score=19.81 Aligned_cols=48 Identities=10% Similarity=0.160 Sum_probs=25.9
Q ss_pred hcCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCCCCChHHHHHHHHHH
Q psy1295 84 DKNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQ 131 (137)
Q Consensus 84 ~~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~ 131 (137)
..++|.+.+.+|.++.. .+.........-+-...+..+.++++++.+.
T Consensus 110 ~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~ 167 (169)
T cd04114 110 NNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACR 167 (169)
T ss_pred CCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence 35799888888777642 2211112222223333345677777776654
No 315
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=27.03 E-value=3.9e+02 Score=23.81 Aligned_cols=44 Identities=20% Similarity=0.180 Sum_probs=32.5
Q ss_pred cCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH
Q psy1295 57 RGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR 100 (137)
Q Consensus 57 k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~ 100 (137)
.|..+..+++.|.......+.+..+|+.+++|+....+..++-.
T Consensus 284 ~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~ 327 (484)
T PRK06995 284 HGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRL 327 (484)
T ss_pred cCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHH
Confidence 34457888999985444567788999999999987776655443
No 316
>PF08534 Redoxin: Redoxin; InterPro: IPR013740 This redoxin domain is found in peroxiredoxin, thioredoxin and glutaredoxin proteins. Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine []. Chloroplast thioredoxin systems in plants regulate the enzymes involved in photosynthetic carbon assimilation []. It is thought that redoxins have a large role to play in anti-oxidant defence. Cadmium-sensitive proteins are also regulated via thioredoxin and glutaredoxin thiol redox systems [].; GO: 0016491 oxidoreductase activity; PDB: 2H30_A 1TP9_A 1Y25_A 1XVQ_A 2B1K_A 2G0F_A 2B1L_B 3K8N_A 1Z5Y_E 3OR5_A ....
Probab=27.03 E-value=2.2e+02 Score=19.72 Aligned_cols=51 Identities=16% Similarity=0.292 Sum_probs=36.0
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC-CHHHHHHHhCCC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR-SKQALGRACGVS 105 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~-tk~eLG~a~G~~ 105 (137)
+..+..+.+.+.++.+..|-++. +..+++++++++.... ...++.+.+|..
T Consensus 53 ~l~~~~~~~~v~~v~v~~~~~~~-----~~~~~~~~~~~~~~~~D~~~~~~~~~~~~ 104 (146)
T PF08534_consen 53 ELQEKYKDKGVDVVGVSSDDDPP-----VREFLKKYGINFPVLSDPDGALAKALGVT 104 (146)
T ss_dssp HHHHHHHTTTCEEEEEEESSSHH-----HHHHHHHTTTTSEEEEETTSHHHHHTTCE
T ss_pred hhhhhhccCceEEEEecccCCHH-----HHHHHHhhCCCceEEechHHHHHHHhCCc
Confidence 33344456678999999888775 5556666888777654 557899999865
No 317
>TIGR00437 feoB ferrous iron transporter FeoB. FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.
Probab=26.86 E-value=3.8e+02 Score=24.24 Aligned_cols=76 Identities=20% Similarity=0.239 Sum_probs=41.0
Q ss_pred HHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC---------cceEEEEEEeCCCCChHHHH
Q psy1295 55 LNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS---------RPIIACSVTVDEGSQLKPQI 125 (137)
Q Consensus 55 I~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~---------~~v~~~ai~~~~~s~~~~~i 125 (137)
+..+++.+|+.--|++..+-...+.....+.++|++.+.+|.++-+.-|.. .++-+.-+-...+..+.+++
T Consensus 68 l~~~~aDvvI~VvDat~ler~l~l~~ql~~~~~PiIIVlNK~Dl~~~~~i~~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~ 147 (591)
T TIGR00437 68 LLNEKPDLVVNVVDASNLERNLYLTLQLLELGIPMILALNLVDEAEKKGIRIDEEKLEERLGVPVVPTSATEGRGIERLK 147 (591)
T ss_pred HhhcCCCEEEEEecCCcchhhHHHHHHHHhcCCCEEEEEehhHHHHhCCChhhHHHHHHHcCCCEEEEECCCCCCHHHHH
Confidence 445677888888887642111122223345789999999888774332211 11112223334455666666
Q ss_pred HHHHH
Q psy1295 126 QAIQQ 130 (137)
Q Consensus 126 ~e~~~ 130 (137)
+.+.+
T Consensus 148 ~~i~~ 152 (591)
T TIGR00437 148 DAIRK 152 (591)
T ss_pred HHHHH
Confidence 66554
No 318
>PF04414 tRNA_deacylase: D-aminoacyl-tRNA deacylase; InterPro: IPR007508 D-aminoacyl-tRNA deacylases hydrolyse the ester bond between the polynucleotide and the D-amino acid, thereby preventing the accumulation of such mis-acylated and metabolically inactive tRNA molecules. Several aminoacyl-tRNA synthetases have the ability to transfer the D-isomer of their amino acid onto their cognate tRNA. ; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1YQE_A 2GFQ_B.
Probab=26.83 E-value=1.4e+02 Score=23.74 Aligned_cols=44 Identities=7% Similarity=0.094 Sum_probs=33.3
Q ss_pred cHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEE
Q psy1295 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i 90 (137)
+.+.+.+++++..+..+++-.+.-+...+..+..+.++.|||++
T Consensus 169 ~~~~l~~a~~~s~~~~a~id~K~l~~~~r~~i~~~l~~~gi~v~ 212 (213)
T PF04414_consen 169 DEDVLRQAIEKSGADVAIIDWKSLKSEDRRRIEELLEELGIEVI 212 (213)
T ss_dssp -HHHHHHHHCHCT-SEEEEETTTS-HHHHHHHHHHHHHHT-EEE
T ss_pred CHHHHHHHHHhCCCcEEEEecCCCCHHHHHHHHHHHHHcCCeee
Confidence 45677788888888888888777666689999999999999975
No 319
>PRK08905 lipid A biosynthesis lauroyl acyltransferase; Validated
Probab=26.52 E-value=3.4e+02 Score=21.77 Aligned_cols=54 Identities=20% Similarity=0.257 Sum_probs=32.3
Q ss_pred CCCcccCCCCChHHHHHHHHHHHHHHHcCCcc----ccHHHHHHHHHcCcccEEEEecCCCh
Q psy1295 14 AVNPKAYPLADTALTTKILSLVQQALNYKQLR----KGANEATKTLNRGLSEFIVLAADAEP 71 (137)
Q Consensus 14 ~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv----~G~~~v~kaI~k~kaklViiA~D~~~ 71 (137)
.+.-+++|.-...+++-+ +-++.. ...+++ .|.+++.+++++| .+|.+..|-++
T Consensus 125 ~~~~v~r~~~n~~~~~~~-~~~R~~-~g~~~i~~~~~~~~~i~~aLk~g--~~v~il~Dq~~ 182 (289)
T PRK08905 125 PLTAMFRPPRKAALRPLM-EAGRAR-GNMRTAPATPQGVRMLVKALRRG--EAVGILPDQVP 182 (289)
T ss_pred CceEEEECCCCHHHHHHH-HHHhcc-cCCceeccCCccHHHHHHHHhcC--CeEEEcCCCCC
Confidence 456678887444433333 322221 112333 4688999999988 47788878764
No 320
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=26.50 E-value=1.4e+02 Score=24.44 Aligned_cols=45 Identities=16% Similarity=0.318 Sum_probs=29.4
Q ss_pred ccccHHHHHHH----HHcCc--ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 44 LRKGANEATKT----LNRGL--SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 44 lv~G~~~v~ka----I~k~k--aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
+++|.-....+ ++.|. +..+.+-+|-+. . ..+|+++|||+.....
T Consensus 90 l~Sg~g~nl~~l~~~~~~g~l~~~i~~visn~~~--~----~~~A~~~gIp~~~~~~ 140 (280)
T TIGR00655 90 LVSKEDHCLGDLLWRWYSGELDAEIALVISNHED--L----RSLVERFGIPFHYIPA 140 (280)
T ss_pred EEcCCChhHHHHHHHHHcCCCCcEEEEEEEcChh--H----HHHHHHhCCCEEEcCC
Confidence 45665544444 45564 788888888532 2 2369999999987654
No 321
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=26.46 E-value=3.4e+02 Score=23.23 Aligned_cols=46 Identities=7% Similarity=-0.005 Sum_probs=40.4
Q ss_pred ccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCE
Q psy1295 44 LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPY 89 (137)
Q Consensus 44 lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~ 89 (137)
+....+.++.++.++.+++|+=+.-.+|......+..+++++|+++
T Consensus 56 ~~~~L~~~L~~~~~~gIkvI~NaGg~np~~~a~~v~eia~e~Gl~l 101 (362)
T PF07287_consen 56 FVRDLRPLLPAAAEKGIKVITNAGGLNPAGCADIVREIARELGLSL 101 (362)
T ss_pred HHHHHHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHHHHHhcCCCe
Confidence 4556778888888899999999999999999999999999999884
No 322
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=26.44 E-value=83 Score=22.70 Aligned_cols=42 Identities=17% Similarity=0.204 Sum_probs=25.2
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhH----hcCCCEEEeCCHHHHH
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCE----DKNVPYVFVRSKQALG 99 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~----~~~IP~i~~~tk~eLG 99 (137)
..+..+++.-|.+..+....+..+-+ ..++|++.+.+|.+|.
T Consensus 76 ~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~ 121 (169)
T cd01892 76 AACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIPCLFVAAKADLD 121 (169)
T ss_pred hcCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCeEEEEEEccccc
Confidence 34666666666644333334333332 3479999999988873
No 323
>PRK05645 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=26.41 E-value=3.4e+02 Score=21.72 Aligned_cols=111 Identities=16% Similarity=0.153 Sum_probs=57.1
Q ss_pred CcccCCCCChHHHHHHHHHHHHHHHc-C-Ccc----ccHHHHHHHHHcCcccEEEEecCCChh--------------hHH
Q psy1295 16 NPKAYPLADTALTTKILSLVQQALNY-K-QLR----KGANEATKTLNRGLSEFIVLAADAEPL--------------EIV 75 (137)
Q Consensus 16 ~~~~~p~a~~~~~~kl~~lL~~A~~a-g-~lv----~G~~~v~kaI~k~kaklViiA~D~~~~--------------~~~ 75 (137)
..+++|.-...+++ ++...|.. | +++ .|.+++.+++++|. .|.+..|-++. .+.
T Consensus 138 ~~v~r~~~n~~~d~----~~~~~R~~~g~~~i~~~~~~~r~l~kaLk~g~--~v~il~Dq~~~~~~gv~v~FfG~~a~t~ 211 (295)
T PRK05645 138 IIFYRPPKLKAVDE----LLRKQRVQLGNRVAPSTKEGILSVIKEVRKGG--QVGIPADPEPAESAGIFVPFLGTQALTS 211 (295)
T ss_pred eEEEeCCCCHHHHH----HHHHHhCCCCCeEeecCcccHHHHHHHHhcCC--eEEEcCCCCCCCCCCeEeCCCCCchhhh
Confidence 35777765444333 33333332 2 333 37999999999885 77777777641 112
Q ss_pred HhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEe-CCCCChHHHHHHHHHHHHHh
Q psy1295 76 LHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTV-DEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 76 ~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~-~~~s~~~~~i~e~~~~~~~~ 135 (137)
.-...++...++|++.+....+ + -|....+..-.... ..+.++.+..+.+.+.+|+.
T Consensus 212 ~~~~~la~~~~~pvv~~~~~r~-~--~~~~y~i~~~~~~~~~~~~~~~~~t~~~~~~lE~~ 269 (295)
T PRK05645 212 KFVPNMLAGGKAVGVFLHALRL-P--DGSGYKVILEAAPEDMYSTDVEVSAAAMSKVVERY 269 (295)
T ss_pred hHHHHHHHhhCCeEEEEEEEEc-C--CCCeEEEEEecCCcCCCCCCHHHHHHHHHHHHHHH
Confidence 2244666677777775543111 0 11112221100111 22345667777777777664
No 324
>cd01884 EF_Tu EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=26.37 E-value=1.3e+02 Score=22.82 Aligned_cols=44 Identities=18% Similarity=0.215 Sum_probs=24.7
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCC-EEEe
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP-YVFV 92 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP-~i~~ 92 (137)
.++..++..-.+-++++..+-+.......+..++...++| ++.+
T Consensus 80 ~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~~iIvv 124 (195)
T cd01884 80 KNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVPYIVVF 124 (195)
T ss_pred HHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCcEEEE
Confidence 4455556555556666655433222344556677888888 4343
No 325
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=26.35 E-value=2.2e+02 Score=19.43 Aligned_cols=56 Identities=16% Similarity=0.208 Sum_probs=30.7
Q ss_pred hHHHHhHhcCCCEEEeCCHHHHHHH---------hCCCcceEEEEEEeCCCCChHHHHHHHHHHH
Q psy1295 77 HLPLLCEDKNVPYVFVRSKQALGRA---------CGVSRPIIACSVTVDEGSQLKPQIQAIQQQI 132 (137)
Q Consensus 77 ~i~~lc~~~~IP~i~~~tk~eLG~a---------~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~ 132 (137)
.+..++...++|++.+++|.++... .....++...-+-...+..+.++++.+.+++
T Consensus 97 ~i~~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~ 161 (162)
T cd04138 97 QIKRVKDSDDVPMVLVGNKCDLAARTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI 161 (162)
T ss_pred HHHHhcCCCCCCEEEEEECcccccceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence 3444455578999999888776421 1011122222232344567777877776554
No 326
>cd04188 DPG_synthase DPG_synthase is involved in protein N-linked glycosylation. UDP-glucose:dolichyl-phosphate glucosyltransferase (DPG_synthase) is a transmembrane-bound enzyme of the endoplasmic reticulum involved in protein N-linked glycosylation. This enzyme catalyzes the transfer of glucose from UDP-glucose to dolichyl phosphate.
Probab=26.33 E-value=2.6e+02 Score=20.40 Aligned_cols=41 Identities=12% Similarity=0.038 Sum_probs=23.2
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR 100 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~ 100 (137)
...++ +..|.+...+...+..+++.++..+..+..+...|.
T Consensus 30 ~~eii-vvdd~S~D~t~~~~~~~~~~~~~~i~~i~~~~n~G~ 70 (211)
T cd04188 30 SYEII-VVDDGSKDGTAEVARKLARKNPALIRVLTLPKNRGK 70 (211)
T ss_pred CEEEE-EEeCCCCCchHHHHHHHHHhCCCcEEEEEcccCCCc
Confidence 34444 455555545777788888777655334443333443
No 327
>KOG1468|consensus
Probab=26.28 E-value=1.4e+02 Score=25.25 Aligned_cols=58 Identities=16% Similarity=0.251 Sum_probs=40.9
Q ss_pred HHHHHHHHHcCcccEEEEecCCChh--hHHHh-----HHHHhHhcCCCEEEe--CCHHHHHHHhCCC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPL--EIVLH-----LPLLCEDKNVPYVFV--RSKQALGRACGVS 105 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~--~~~~~-----i~~lc~~~~IP~i~~--~tk~eLG~a~G~~ 105 (137)
...+.-+++.+++..|++..|--.+ |+..+ +--+|+.||||++.+ +|.-++.-+-|.+
T Consensus 222 DS~vA~~m~~~~vdavvvGADrVarNGDTANKIGTy~LAv~aKhhgipFyvaaP~tsid~~l~tG~e 288 (354)
T KOG1468|consen 222 DSMVAAAMKNHQVDAVVVGADRVARNGDTANKIGTYQLAVLAKHHGIPFYVAAPFTSIDLSLATGDE 288 (354)
T ss_pred hHHHHHHHhcCCCCEEEEcccceeccCcchhhhhhhHHHHHHHhcCCceEEeccccccccccCCCCe
Confidence 3456667888999999988774221 23333 457899999998765 4777887777754
No 328
>PRK08734 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=26.23 E-value=3.5e+02 Score=21.88 Aligned_cols=74 Identities=14% Similarity=0.111 Sum_probs=43.1
Q ss_pred CCCcccCCCCChHHHHHHHHHHHHHHHc-C-Ccc----ccHHHHHHHHHcCcccEEEEecCCChh--------------h
Q psy1295 14 AVNPKAYPLADTALTTKILSLVQQALNY-K-QLR----KGANEATKTLNRGLSEFIVLAADAEPL--------------E 73 (137)
Q Consensus 14 ~~~~~~~p~a~~~~~~kl~~lL~~A~~a-g-~lv----~G~~~v~kaI~k~kaklViiA~D~~~~--------------~ 73 (137)
.+..++.|.-.+.++ + ++...|.. | +++ .|.++..+++++|. .|.+..|-++. .
T Consensus 137 ~~~~vyr~~~n~~~d-~---~~~~~R~~~g~~~i~~~~~~~r~li~~Lk~g~--~v~~l~Dq~~~~~~gv~v~FfG~~a~ 210 (305)
T PRK08734 137 PIAIVYRPPESEAVD-G---FLQLVRGGDNVRQVRAEGPAVRQLFKVLKDGG--AVGILPDQQPKMGDGVFAPFFGIPAL 210 (305)
T ss_pred CceEEEeCCCCHHHH-H---HHHHHhccCCCeeecCCchhHHHHHHHHhcCC--eEEEeCCCCCCCCCCeEeccCCCccc
Confidence 355678887444433 3 33333332 2 233 25789999999885 77888787642 1
Q ss_pred HHHhHHHHhHhcCCCEEEeC
Q psy1295 74 IVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..-...++...+.|++.+.
T Consensus 211 t~~g~a~LA~~~~apVvp~~ 230 (305)
T PRK08734 211 TMTLVNRLAERTGATVLYGW 230 (305)
T ss_pred hhhHHHHHHHHhCCeEEEEE
Confidence 23333456777777776544
No 329
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=26.22 E-value=1.8e+02 Score=22.47 Aligned_cols=42 Identities=12% Similarity=0.120 Sum_probs=27.3
Q ss_pred HHHHHHHHHcCc--ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 48 ANEATKTLNRGL--SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 48 ~~~v~kaI~k~k--aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
...+.+++.++. +.++++-+|-+.. ....+|+++|||++.+.
T Consensus 15 ~~~ll~~~~~~~~~~~I~~vvs~~~~~----~~~~~a~~~gIp~~~~~ 58 (200)
T PRK05647 15 LQAIIDACAAGQLPAEIVAVISDRPDA----YGLERAEAAGIPTFVLD 58 (200)
T ss_pred HHHHHHHHHcCCCCcEEEEEEecCccc----hHHHHHHHcCCCEEEEC
Confidence 456777777764 4555544554322 24688999999998744
No 330
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=26.20 E-value=1.4e+02 Score=25.61 Aligned_cols=36 Identities=22% Similarity=0.158 Sum_probs=27.6
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhc-----CCCEEEeC
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDK-----NVPYVFVR 93 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~-----~IP~i~~~ 93 (137)
.+.+++++.+-|.+.-+-.++...|++. ++|++.+.
T Consensus 96 ~~P~~I~V~tTC~~e~IGDDi~~v~~e~~~~~~~~pvv~v~ 136 (427)
T PRK02842 96 PNISVLFLVGSCPSEVIKLDLEGLAERLSTEFAGVPVLNYS 136 (427)
T ss_pred CCCCEEEEECCChHHhhcCCHHHHHHHhhcccCCCeEEEee
Confidence 5789999999998875667777777543 79998754
No 331
>cd04102 RabL3 RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.
Probab=26.18 E-value=67 Score=24.68 Aligned_cols=42 Identities=14% Similarity=0.109 Sum_probs=28.9
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhH-------------------------hcCCCEEEeCCHHHHH
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCE-------------------------DKNVPYVFVRSKQALG 99 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~-------------------------~~~IP~i~~~tk~eLG 99 (137)
..+..+|+.-|.+.++....+..|.. ..++|++.+++|.+|-
T Consensus 76 r~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~ 142 (202)
T cd04102 76 NQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQI 142 (202)
T ss_pred CcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccch
Confidence 45788888888766555555554322 2479999999998874
No 332
>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=26.09 E-value=1.4e+02 Score=23.98 Aligned_cols=48 Identities=19% Similarity=0.191 Sum_probs=29.0
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHH
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQA 97 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~e 97 (137)
++..+++.-.+-++++............+..+++.+++|++.+.+|.+
T Consensus 87 ~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P~iivvNK~D 134 (267)
T cd04169 87 DTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIPIITFINKLD 134 (267)
T ss_pred HHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCCCEEEEEECCc
Confidence 466667666665666544322222345566778888999887665543
No 333
>PF01497 Peripla_BP_2: Periplasmic binding protein; InterPro: IPR002491 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Most bacterial importers employ a periplasmic substrate-binding protein (PBP) that delivers the ligand to the extracellular gate of the TM domains. These proteins bind their substrates selectively and with high affinity, which is thought to ensure the specificity of the transport reaction. Binding proteins in Gram-negative bacteria are present within the periplasm, whereas those in Gram-positive bacteria are tethered to the cell membrane via the acylation of a cysteine residue that is an integral component of a lipoprotein signal sequence. In planta expression of a high-affinity iron-uptake system involving the siderophore chrysobactin in Erwinia chrysanthemi 3937 contributes greatly to invasive growth of this pathogen on its natural host, African violets []. The cobalamin (vitamin B12) and the iron transport systems share many common attributes and probably evolved from the same origin [, ]. The periplasmic-binding domain is composed of two subdomains, each consisting of a central beta-sheet and surrounding alpha-helices, linked by a rigid alpha-helix. The substrate binding site is located in a cleft between the two alpha/beta subdomains [].; GO: 0005488 binding; PDB: 2X4L_A 1N4A_B 1N2Z_B 1N4D_B 4DBL_J 2QI9_F 3EIW_A 3EIX_A 3MWG_A 3MWF_A ....
Probab=25.98 E-value=2.8e+02 Score=20.59 Aligned_cols=50 Identities=20% Similarity=0.234 Sum_probs=31.9
Q ss_pred HHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH----------HHHHHHhCCC
Q psy1295 52 TKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK----------QALGRACGVS 105 (137)
Q Consensus 52 ~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk----------~eLG~a~G~~ 105 (137)
.+.|..-+-.|||........+....+ .+.++|++.+... ..||+++|++
T Consensus 53 ~E~i~~l~PDlIi~~~~~~~~~~~~~~----~~~~ip~~~~~~~~~~~~~~~~i~~lg~~~g~~ 112 (238)
T PF01497_consen 53 LEAILALKPDLIIGSSFYGQSEEIEKL----LEAGIPVVVFDSSSPFDDWKEQIRQLGKALGKE 112 (238)
T ss_dssp HHHHHHT--SEEEEETTSSCHHHHHHH----HHTTSEEEEESSTTCSHHHHHHHHHHHHHHTSH
T ss_pred HHHHHhCCCCEEEEeccccchHHHHHH----hcccceEEEeecccchHHHHHHHHHHHHhcccH
Confidence 355666678899988887222133333 5678999988654 2588999877
No 334
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=25.96 E-value=58 Score=18.36 Aligned_cols=27 Identities=11% Similarity=0.122 Sum_probs=19.9
Q ss_pred HhHHHHhHhcCCCEEEeC-CHHHHHHHh
Q psy1295 76 LHLPLLCEDKNVPYVFVR-SKQALGRAC 102 (137)
Q Consensus 76 ~~i~~lc~~~~IP~i~~~-tk~eLG~a~ 102 (137)
..+..+.+.+|||+-... ++++|=..+
T Consensus 7 ~~L~~wL~~~gi~~~~~~~~rd~Ll~~~ 34 (38)
T PF10281_consen 7 SDLKSWLKSHGIPVPKSAKTRDELLKLA 34 (38)
T ss_pred HHHHHHHHHcCCCCCCCCCCHHHHHHHH
Confidence 567788889999987665 788775443
No 335
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=25.72 E-value=2.4e+02 Score=19.82 Aligned_cols=50 Identities=14% Similarity=0.272 Sum_probs=33.0
Q ss_pred HHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe-CCHHHHHHHhCCC
Q psy1295 51 ATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV-RSKQALGRACGVS 105 (137)
Q Consensus 51 v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~-~tk~eLG~a~G~~ 105 (137)
..+.+.+..+.++-|..|. + ..+..+++++++++-.+ +....+++..|..
T Consensus 56 ~~~~~~~~~v~vi~Is~d~-~----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~ 106 (154)
T PRK09437 56 NMDELKKAGVVVLGISTDK-P----EKLSRFAEKELLNFTLLSDEDHQVAEQFGVW 106 (154)
T ss_pred HHHHHHHCCCEEEEEcCCC-H----HHHHHHHHHhCCCCeEEECCCchHHHHhCCC
Confidence 3334445568888887773 2 44557788888887655 3456788888853
No 336
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=25.69 E-value=88 Score=26.54 Aligned_cols=39 Identities=26% Similarity=0.333 Sum_probs=27.0
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
-+++|+=.+. ...++..+|+++|||++.- ..|.+++-..
T Consensus 280 P~vvakG~~~--~A~~I~~~A~~~~vPi~~~---~~LAr~Ly~~ 318 (347)
T TIGR00328 280 PVVVAKGVDE--LALKIKEIARENNVPIVEN---PPLARALYRQ 318 (347)
T ss_pred CEEEEeeCcH--HHHHHHHHHHHcCCCEEeC---HHHHHHHHHc
Confidence 3444544444 6899999999999998654 4566666444
No 337
>TIGR02339 thermosome_arch thermosome, various subunits, archaeal. Thermosome is the name given to the archaeal rather than eukaryotic form of the group II chaperonin (counterpart to the group I chaperonin, GroEL/GroES, in bacterial), a torroidal, ATP-dependent molecular chaperone that assists in the folding or refolding of nascent or denatured proteins. Various homologous subunits, one to five per archaeal genome, may be designated alpha, beta, etc., but phylogenetic analysis does not show distinct alpha subunit and beta subunit lineages traceable to ancient paralogs.
Probab=25.66 E-value=2.2e+02 Score=25.01 Aligned_cols=44 Identities=9% Similarity=0.032 Sum_probs=26.8
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHH
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQA 97 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~e 97 (137)
++..+.+.+.++.+|+.+.+.++. ... ++.++||-.+..-++.+
T Consensus 272 ~~~v~~i~~~g~~lvi~~~~I~~~-al~----~L~~~gI~~v~~v~~~~ 315 (519)
T TIGR02339 272 KEMVDKIADAGANVVFCQKGIDDL-AQH----YLAKAGILAVRRVKKSD 315 (519)
T ss_pred HHHHHHHHhcCCcEEEECCCccHH-HHH----HHHHCCCEEEecCCHHH
Confidence 444456666667888888888774 333 23466766655545443
No 338
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=25.58 E-value=86 Score=27.00 Aligned_cols=39 Identities=18% Similarity=0.289 Sum_probs=28.4
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
-+|+|.-.+. +.-+|...+++||||++.- ..|.|++=..
T Consensus 287 P~VvAKG~d~--~AlkIreiA~e~~Ipi~en---ppLARaLY~~ 325 (363)
T COG1377 287 PVVVAKGVDL--VALKIREIAKEHGIPIIEN---PPLARALYRQ 325 (363)
T ss_pred CEEEEeCCcH--HHHHHHHHHHHcCCceecC---hHHHHHHHHh
Confidence 4566766655 6889999999999998654 4566666544
No 339
>COG4422 Bacteriophage protein gp37 [Function unknown]
Probab=25.39 E-value=55 Score=26.09 Aligned_cols=32 Identities=19% Similarity=0.423 Sum_probs=25.3
Q ss_pred cccEEEE-------ecCCChhhHHHhHHHHhHhcCCCEEE
Q psy1295 59 LSEFIVL-------AADAEPLEIVLHLPLLCEDKNVPYVF 91 (137)
Q Consensus 59 kaklVii-------A~D~~~~~~~~~i~~lc~~~~IP~i~ 91 (137)
.+.-+|+ |++.+|. ...+|...|..++.++.+
T Consensus 183 ~I~WaIvGGESGp~aR~idp~-WvdeI~~~C~~~~~aFFF 221 (250)
T COG4422 183 NIHWAIVGGESGPNARPIDPQ-WVDEIEDMCRDAGTAFFF 221 (250)
T ss_pred ceeEEEecCcCCCCCCCCCHH-HHHHHHHHHHhcCccchh
Confidence 4555665 4566776 899999999999999865
No 340
>PRK03244 argD acetylornithine aminotransferase; Provisional
Probab=25.37 E-value=1.3e+02 Score=24.81 Aligned_cols=36 Identities=8% Similarity=0.044 Sum_probs=26.7
Q ss_pred CcccEEEEecCC-------ChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 58 GLSEFIVLAADA-------EPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 58 ~kaklViiA~D~-------~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
++..+|++-.-- ++.+....+..+|+++++.++.-.
T Consensus 182 ~~~~aviiep~~~~~G~~~~~~~~l~~l~~l~~~~~~llI~DE 224 (398)
T PRK03244 182 DDTAAVFLEPIQGEAGVVPPPAGYLAAAREITDRHGALLVLDE 224 (398)
T ss_pred CCeEEEEEecccCCCCCcCCCHHHHHHHHHHHHHcCCEEEEec
Confidence 567788886542 333468899999999999987543
No 341
>TIGR02343 chap_CCT_epsi T-complex protein 1, epsilon subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT epsilon chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=25.36 E-value=2.1e+02 Score=25.39 Aligned_cols=43 Identities=9% Similarity=0.062 Sum_probs=27.6
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHH
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQ 96 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~ 96 (137)
.+.++.+.+..+.+||.+.+.++. .. .++.+++|..+...++.
T Consensus 281 ~~~l~~i~~~g~~lvi~~~~I~~~-al----~~L~~~~i~~v~~~~~~ 323 (532)
T TIGR02343 281 AEMIDDIKKSGANIVICQWGFDDE-AN----HLLLQNDLPAVRWVGGH 323 (532)
T ss_pred HHHHHHHHHcCCCEEEeCCCccHH-HH----HHHHHCCcEEEEcCCHH
Confidence 334455556667899999998885 33 34567777776654443
No 342
>TIGR00035 asp_race aspartate racemase.
Probab=25.36 E-value=1.5e+02 Score=23.02 Aligned_cols=51 Identities=12% Similarity=0.183 Sum_probs=35.9
Q ss_pred ccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC--CHHHH
Q psy1295 44 LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR--SKQAL 98 (137)
Q Consensus 44 lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~--tk~eL 98 (137)
+.....+..+.+++..++++++|.|.... +.. .+-+..+||++-+. +...+
T Consensus 60 ~~~~l~~~~~~L~~~g~d~iviaCNTah~-~~~---~l~~~~~iPii~i~~~~~~~~ 112 (229)
T TIGR00035 60 PRPILIDIAVKLENAGADFIIMPCNTAHK-FAE---DIQKAIGIPLISMIEETAEAV 112 (229)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCccHHH-HHH---HHHHhCCCCEechHHHHHHHH
Confidence 44556667777888889999999998665 444 44456689998753 34455
No 343
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=25.30 E-value=1.2e+02 Score=21.47 Aligned_cols=45 Identities=13% Similarity=0.285 Sum_probs=34.5
Q ss_pred ccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.+..+..+.+. ++..|+++.-..- ..+++...+..++||+-.+++
T Consensus 37 ~s~~e~~~~~~--~~DvvLlGPQv~y--~~~~~~~~~~~~giPV~vI~~ 81 (102)
T COG1440 37 YSETELSEYID--NADVVLLGPQVRY--MLKQLKEAAEEKGIPVEVIDM 81 (102)
T ss_pred echhHHHHhhh--cCCEEEEChHHHH--HHHHHHHHhcccCCCeEEeCH
Confidence 45566666664 7889999887644 678999999999999976654
No 344
>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family. The proteins of this family are unified by their common archetectural organization that is based upon a conserved ATPase domain. The AAA domain of midasin contains six tandem AAA protomers. The AAA domains in midasin is followed by a D/E rich domain that is following by a VWA domain. The members of this subgroup have a conserved MIDAS motif. The function of this domain is not exactly known although it has been speculated to play a crucial role in midasin function.
Probab=25.28 E-value=1.3e+02 Score=24.53 Aligned_cols=86 Identities=10% Similarity=0.089 Sum_probs=45.9
Q ss_pred cccccCCCCCCCcccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcC-----c---ccEEEEecCCC--hh-h
Q psy1295 5 LYFQTNEEPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLNRG-----L---SEFIVLAADAE--PL-E 73 (137)
Q Consensus 5 ~~~~~~~~~~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k~-----k---aklViiA~D~~--~~-~ 73 (137)
..|.++. ..+.|+..|... +---++.+........=.+..+.....+..+.. . -+++||-+|.. .+ .
T Consensus 104 v~Fg~~~-~~v~Plt~d~~~-~a~~~~l~~~~f~~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~~e~ 181 (266)
T cd01460 104 CSFGEDV-QILHPFDEQFSS-QSGPRILNQFTFQQDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEFSEG 181 (266)
T ss_pred EEeCCCc-eEeCCCCCCchh-hHHHHHhCcccCCCCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCcccCcc
Confidence 3455543 356677777644 211111211111111112555555555555432 1 28999999987 32 2
Q ss_pred HHHhHHHHhHhcCCCEEEe
Q psy1295 74 IVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~ 92 (137)
......+.+.+.+|-++++
T Consensus 182 ~~~~~~r~a~e~~i~l~~I 200 (266)
T cd01460 182 AQKVRLREAREQNVFVVFI 200 (266)
T ss_pred HHHHHHHHHHHcCCeEEEE
Confidence 4445577888889887755
No 345
>PF07894 DUF1669: Protein of unknown function (DUF1669); InterPro: IPR012461 This family is composed of sequences derived from hypothetical eukaryotic proteins of unknown function. Some members of this family are annotated as being potential phospholipases but no literature was found to support this.
Probab=25.22 E-value=2.3e+02 Score=23.61 Aligned_cols=52 Identities=17% Similarity=0.185 Sum_probs=36.1
Q ss_pred cHHHHHHHHHc--CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 47 GANEATKTLNR--GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 47 G~~~v~kaI~k--~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
.++++.+-+-+ +|+-.|++=-=.+. |+..++...|.+++||++...+...+.
T Consensus 134 ~IKE~vR~~I~~A~kVIAIVMD~FTD~-dIf~DLleAa~kR~VpVYiLLD~~~~~ 187 (284)
T PF07894_consen 134 HIKEVVRRMIQQAQKVIAIVMDVFTDV-DIFCDLLEAANKRGVPVYILLDEQNLP 187 (284)
T ss_pred CHHHHHHHHHHHhcceeEEEeeccccH-HHHHHHHHHHHhcCCcEEEEechhcCh
Confidence 45555555432 45545555555677 499999999999999998887776555
No 346
>PF04705 TSNR_N: Thiostrepton-resistance methylase, N terminus; InterPro: IPR006795 This region is found in some members of the SpoU-type rRNA methylase family (IPR001537 from INTERPRO).; GO: 0008649 rRNA methyltransferase activity, 0046677 response to antibiotic; PDB: 3GYQ_B 3NK6_A 3NK7_A.
Probab=25.16 E-value=65 Score=23.11 Aligned_cols=63 Identities=19% Similarity=0.384 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHcCC--ccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 30 KILSLVQQALNYKQ--LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 30 kl~~lL~~A~~ag~--lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
+|..+-+-.|.+=+ |+.-....+.+|..|-=-+=+-+.|..| +--.+.++|++++||+-.+..
T Consensus 17 RIiDvtk~sRs~ikT~LIED~EPL~~~i~AGvefieVYg~~~~p--~~~~ll~~c~~r~Ipvrlv~~ 81 (115)
T PF04705_consen 17 RIIDVTKHSRSNIKTTLIEDPEPLTHSIRAGVEFIEVYGSDGSP--VPPELLAACRQRGIPVRLVDS 81 (115)
T ss_dssp HHHHHHCTSTTTTTEEEEESHHHHHHHHCTT-EEEEEEEETTS-----CCCCHHHHCTT--EEEE-H
T ss_pred HHHhhcccchhhheeeeecCchHHHHHHhcCcEEEEEeeecCCC--CChHHHHHHHhcCCceEEecH
Confidence 45555444444333 6667788888998886666677889888 467889999999999977653
No 347
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=25.00 E-value=2.5e+02 Score=21.24 Aligned_cols=40 Identities=15% Similarity=0.292 Sum_probs=24.7
Q ss_pred HHHHHHHHcCcccEEEEec-CCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAA-DAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~-D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
.++.+.+.++++.-+|+.. +.++. . ...+...+||++.++
T Consensus 54 ~~~~~~l~~~~~dgiii~~~~~~~~-~----~~~~~~~~ipvV~~~ 94 (275)
T cd06295 54 DWLARYLASGRADGVILIGQHDQDP-L----PERLAETGLPFVVWG 94 (275)
T ss_pred HHHHHHHHhCCCCEEEEeCCCCChH-H----HHHHHhCCCCEEEEC
Confidence 3556667667777666654 33322 2 345678899988764
No 348
>PRK10867 signal recognition particle protein; Provisional
Probab=24.99 E-value=3e+02 Score=24.10 Aligned_cols=35 Identities=23% Similarity=0.204 Sum_probs=27.8
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
..+..+++.|.-.......+..+++..+||++..+
T Consensus 129 G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~ 163 (433)
T PRK10867 129 KKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSG 163 (433)
T ss_pred CCcEEEEEccccchHHHHHHHHHHhhcCCeEEecC
Confidence 46788899998665456788899999999987653
No 349
>PTZ00125 ornithine aminotransferase-like protein; Provisional
Probab=24.74 E-value=1.3e+02 Score=24.78 Aligned_cols=44 Identities=14% Similarity=0.081 Sum_probs=29.3
Q ss_pred HHHHHHHcCcccEEEEecC-------CChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 50 EATKTLNRGLSEFIVLAAD-------AEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D-------~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..++++.++.++|++-.- .++.+..+.+.++|+++++.++.-.
T Consensus 169 ~le~~l~~~~~~~v~~ep~~~~~G~~~~~~~~l~~l~~l~~~~~~lli~De 219 (400)
T PTZ00125 169 ALEKLLQDPNVAAFIVEPIQGEAGVIVPDDGYLKQVYELCKKYNVLLIVDE 219 (400)
T ss_pred HHHHHhCCCCeEEEEEcCccCCCCCccCCHHHHHHHHHHHHHcCCEEEEec
Confidence 4444454457888887432 2233468999999999999876433
No 350
>PRK09792 4-aminobutyrate transaminase; Provisional
Probab=24.67 E-value=1.5e+02 Score=25.15 Aligned_cols=36 Identities=17% Similarity=0.325 Sum_probs=25.6
Q ss_pred CcccEEEEecC-------CChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 58 GLSEFIVLAAD-------AEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 58 ~kaklViiA~D-------~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+++..||+-.- ..|.+..+.+..+|++++++++.-.
T Consensus 197 ~~iaavi~EPvq~~~G~~~~~~~~l~~l~~lc~~~g~llI~DE 239 (421)
T PRK09792 197 KQVAAIIFEPVQGEGGFNVAPKELVAAIRRLCDEHGIVMIADE 239 (421)
T ss_pred CceEEEEEccccCCCCCccCCHHHHHHHHHHHHHcCCEEEEec
Confidence 45566665422 2244689999999999999998644
No 351
>cd00378 SHMT Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl group of N5, N10-methylene tetrahydrofolate to glycine resulting in the formation of serine and tetrahydrofolate. Both eukaryotic and prokaryotic SHMT enzymes form tight obligate homodimers; the mammalian enzyme forms a homotetramer comprising four pyridoxal phosphate-bound active sites.
Probab=24.61 E-value=1.3e+02 Score=24.69 Aligned_cols=46 Identities=13% Similarity=0.023 Sum_probs=30.8
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhh-HHHhHHHHhHhcCCCEEEeC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLE-IVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~-~~~~i~~lc~~~~IP~i~~~ 93 (137)
..+..+++...+.+++++.....+.. -.+.|..+|++++++++.-.
T Consensus 150 ~~~l~~~i~~~~~~~v~~~~~~~~~~~~~~~I~~l~~~~~~~li~D~ 196 (402)
T cd00378 150 YDALEKMALEFKPKLIVAGASAYPRPIDFKRFREIADEVGAYLLVDM 196 (402)
T ss_pred HHHHHHHHHhCCCCEEEecCcccCCCcCHHHHHHHHHhcCCEEEEEc
Confidence 45566667666778888755443321 35678899999999876544
No 352
>PRK12468 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=24.54 E-value=94 Score=26.81 Aligned_cols=39 Identities=26% Similarity=0.254 Sum_probs=27.0
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
-+++|.=.+. +...|...++++|||++.- ..|.+++=..
T Consensus 287 P~VvAKG~d~--~A~~Ir~~A~e~~VPiven---~pLARaLy~~ 325 (386)
T PRK12468 287 PKVLAKGAGA--VALRIRELGAEHRIPLLEA---PPLARALFRH 325 (386)
T ss_pred CEEEEeeCcH--HHHHHHHHHHHcCCcEEeC---HHHHHHHHHh
Confidence 3455555544 6899999999999998754 3466655443
No 353
>PRK10444 UMP phosphatase; Provisional
Probab=24.49 E-value=1.5e+02 Score=23.39 Aligned_cols=45 Identities=13% Similarity=0.002 Sum_probs=31.4
Q ss_pred CCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCC
Q psy1295 42 KQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP 88 (137)
Q Consensus 42 g~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP 88 (137)
+++.-|..++++.+++....++++.++.... ...+....+..|++
T Consensus 16 ~~~~p~a~~~l~~L~~~g~~~~~~Tn~~~~~--~~~~~~~l~~~G~~ 60 (248)
T PRK10444 16 NVAVPGAAEFLHRILDKGLPLVLLTNYPSQT--GQDLANRFATAGVD 60 (248)
T ss_pred CeeCccHHHHHHHHHHCCCeEEEEeCCCCCC--HHHHHHHHHHcCCC
Confidence 4567889999999998888888888887653 33333433555663
No 354
>cd04147 Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=24.37 E-value=2.9e+02 Score=20.30 Aligned_cols=76 Identities=16% Similarity=0.101 Sum_probs=42.1
Q ss_pred CcccEEEEecCCChhhHH-------HhHHHHhHhcCCCEEEeCCHHHHHHH------------hCCCcceEEEEEEeCCC
Q psy1295 58 GLSEFIVLAADAEPLEIV-------LHLPLLCEDKNVPYVFVRSKQALGRA------------CGVSRPIIACSVTVDEG 118 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~-------~~i~~lc~~~~IP~i~~~tk~eLG~a------------~G~~~~v~~~ai~~~~~ 118 (137)
..+..+++.-|++..+.. ..+.......++|++.+.+|.++-.. ..........-+-...+
T Consensus 69 ~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g 148 (198)
T cd04147 69 QNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDN 148 (198)
T ss_pred hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCC
Confidence 345566666666543232 33444444578999999988776321 11111122223334456
Q ss_pred CChHHHHHHHHHHHH
Q psy1295 119 SQLKPQIQAIQQQIE 133 (137)
Q Consensus 119 s~~~~~i~e~~~~~~ 133 (137)
..+.++++.+..++.
T Consensus 149 ~gv~~l~~~l~~~~~ 163 (198)
T cd04147 149 ENVLEVFKELLRQAN 163 (198)
T ss_pred CCHHHHHHHHHHHhh
Confidence 778888887776553
No 355
>PLN02645 phosphoglycolate phosphatase
Probab=24.31 E-value=1.6e+02 Score=23.97 Aligned_cols=46 Identities=11% Similarity=0.073 Sum_probs=30.6
Q ss_pred CCccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCE
Q psy1295 42 KQLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPY 89 (137)
Q Consensus 42 g~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~ 89 (137)
+++.-|..+.++.+++...+++|+.++.... ....+..+ +..|+++
T Consensus 43 ~~~~~ga~e~l~~lr~~g~~~~~~TN~~~~~-~~~~~~~l-~~lGi~~ 88 (311)
T PLN02645 43 DKLIEGVPETLDMLRSMGKKLVFVTNNSTKS-RAQYGKKF-ESLGLNV 88 (311)
T ss_pred CccCcCHHHHHHHHHHCCCEEEEEeCCCCCC-HHHHHHHH-HHCCCCC
Confidence 4567889999999998888888888777443 23323333 4456653
No 356
>cd04116 Rab9 Rab9 subfamily. Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX
Probab=24.26 E-value=2.6e+02 Score=19.59 Aligned_cols=46 Identities=9% Similarity=0.273 Sum_probs=25.7
Q ss_pred cCCCEEEeCCHHHHHH----------HhCCCcc-eEEEEEEeCCCCChHHHHHHHHHH
Q psy1295 85 KNVPYVFVRSKQALGR----------ACGVSRP-IIACSVTVDEGSQLKPQIQAIQQQ 131 (137)
Q Consensus 85 ~~IP~i~~~tk~eLG~----------a~G~~~~-v~~~ai~~~~~s~~~~~i~e~~~~ 131 (137)
.++|++.+++|.+|.. .+. +.+ ....-+-...+..+.++++++.++
T Consensus 113 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~e~Sa~~~~~v~~~~~~~~~~ 169 (170)
T cd04116 113 ESFPFVVLGNKNDIPERQVSTEEAQAWCR-ENGDYPYFETSAKDATNVAAAFEEAVRR 169 (170)
T ss_pred CCCcEEEEEECccccccccCHHHHHHHHH-HCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence 5699999988877742 111 111 112222233456777777776654
No 357
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=24.22 E-value=2e+02 Score=23.60 Aligned_cols=63 Identities=13% Similarity=0.157 Sum_probs=38.2
Q ss_pred ChHHHHHHHHHHHHHH----------Hc--CCccccH----HHHHHHHHcCc--ccEEEEecCCChhhHHHhHHHHhHhc
Q psy1295 24 DTALTTKILSLVQQAL----------NY--KQLRKGA----NEATKTLNRGL--SEFIVLAADAEPLEIVLHLPLLCEDK 85 (137)
Q Consensus 24 ~~~~~~kl~~lL~~A~----------~a--g~lv~G~----~~v~kaI~k~k--aklViiA~D~~~~~~~~~i~~lc~~~ 85 (137)
..++++.+..+...-. +. .-+++|. ....++++.|+ +.++.+-+|- | .+..+|+++
T Consensus 63 ~~~L~~~L~~l~~~l~l~i~i~~~~~~~ri~vl~Sg~g~nl~al~~~~~~~~~~~~i~~visn~-~-----~~~~lA~~~ 136 (286)
T PRK13011 63 EDALRAGFAPIAARFGMQWELHDPAARPKVLIMVSKFDHCLNDLLYRWRIGELPMDIVGVVSNH-P-----DLEPLAAWH 136 (286)
T ss_pred HHHHHHHHHHHHHHhCcEEEEeecccCceEEEEEcCCcccHHHHHHHHHcCCCCcEEEEEEECC-c-----cHHHHHHHh
Confidence 4677777776654321 10 1134554 44555556664 7888888874 2 234559999
Q ss_pred CCCEEEe
Q psy1295 86 NVPYVFV 92 (137)
Q Consensus 86 ~IP~i~~ 92 (137)
|||++.+
T Consensus 137 gIp~~~~ 143 (286)
T PRK13011 137 GIPFHHF 143 (286)
T ss_pred CCCEEEe
Confidence 9999875
No 358
>COG0425 SirA Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]
Probab=24.19 E-value=1.1e+02 Score=20.18 Aligned_cols=37 Identities=22% Similarity=0.257 Sum_probs=22.8
Q ss_pred HHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcC-CCEEEe
Q psy1295 52 TKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKN-VPYVFV 92 (137)
Q Consensus 52 ~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~-IP~i~~ 92 (137)
++.++.|. .|-|++.| |. ....|+.+|+..+ ..+...
T Consensus 26 l~~m~~Ge-~LeV~~dd--p~-~~~dIp~~~~~~~~~~ll~~ 63 (78)
T COG0425 26 LAKLKPGE-ILEVIADD--PA-AKEDIPAWAKKEGGHELLEV 63 (78)
T ss_pred HHcCCCCC-EEEEEecC--cc-hHHHHHHHHHHcCCcEEEEE
Confidence 33344453 46666666 43 5799999999665 555443
No 359
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=24.17 E-value=2.8e+02 Score=24.52 Aligned_cols=69 Identities=16% Similarity=0.159 Sum_probs=51.1
Q ss_pred HHHHHHHHcCcccEEEEecCCChh-hHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEEEEeCC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPL-EIVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACSVTVDE 117 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~-~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~ai~~~~ 117 (137)
.+..+.++...+.-||+-+.|.-= .....+..--+..|||++.+.+-..+.+.+|-+|-+...+|...-
T Consensus 326 ~eIa~~Lk~dgVDAvILtstCgtCtrcga~m~keiE~~GIPvV~i~~~~pI~~~vGanRiv~~~~i~~Pl 395 (431)
T TIGR01917 326 KEFSKELLAAGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVHICTVTPIALTVGANRIIPAIAIPHPL 395 (431)
T ss_pred HHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEEEeechhHHHhcCCCceecCCCCCCCC
Confidence 556777888899999999887431 133344444477999999999999999999999866655554433
No 360
>cd01825 SGNH_hydrolase_peri1 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=24.10 E-value=2.4e+02 Score=20.13 Aligned_cols=21 Identities=0% Similarity=0.140 Sum_probs=16.7
Q ss_pred hHHHhHHHHhHhcCCCEEEeC
Q psy1295 73 EIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 73 ~~~~~i~~lc~~~~IP~i~~~ 93 (137)
++...+..+|+++++|++-..
T Consensus 124 ~~~~~~~~~a~~~~v~~vd~~ 144 (189)
T cd01825 124 AVIAAQRRVAKEEGIAFWDLY 144 (189)
T ss_pred HHHHHHHHHHHHcCCeEEeHH
Confidence 356778899999999987554
No 361
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=24.03 E-value=1.1e+02 Score=25.64 Aligned_cols=45 Identities=11% Similarity=0.173 Sum_probs=29.2
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+.+...+.++++.-+|...+.++......+...|.+.+||++.+.
T Consensus 52 ~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~ 96 (362)
T cd06378 52 TQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIH 96 (362)
T ss_pred HHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEec
Confidence 455566677778877767777663122334555566999999763
No 362
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=23.84 E-value=2e+02 Score=23.64 Aligned_cols=41 Identities=10% Similarity=0.136 Sum_probs=31.9
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
..++.+.+++++++.+|.....+++ .. ..++++.|+++..+
T Consensus 241 l~~l~~~ik~~~v~~If~e~~~~~~-~~---~~la~e~g~~v~~l 281 (311)
T PRK09545 241 LHEIRTQLVEQKATCVFAEPQFRPA-VI---ESVAKGTSVRMGTL 281 (311)
T ss_pred HHHHHHHHHHcCCCEEEecCCCChH-HH---HHHHHhcCCeEEEe
Confidence 4557788889999999999988776 44 45578889988665
No 363
>cd04144 Ras2 Ras2 subfamily. The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=23.84 E-value=2.9e+02 Score=20.10 Aligned_cols=49 Identities=10% Similarity=0.067 Sum_probs=26.8
Q ss_pred cCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCCCCChHHHHHHHHHHHH
Q psy1295 85 KNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIE 133 (137)
Q Consensus 85 ~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~ 133 (137)
.++|++.+++|.+|-. ......++...-+-...+..+.++++.+...+.
T Consensus 105 ~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~ 163 (190)
T cd04144 105 ADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRALR 163 (190)
T ss_pred CCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHHHH
Confidence 4799999998877631 111112222222223335677777777766543
No 364
>PLN03199 delta6-acyl-lipid desaturase-like protein; Provisional
Probab=23.82 E-value=48 Score=29.15 Aligned_cols=20 Identities=15% Similarity=0.199 Sum_probs=17.4
Q ss_pred HHHhHHHHhHhcCCCEEEeC
Q psy1295 74 IVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~ 93 (137)
+...+.++|+++||||...+
T Consensus 436 i~piVk~~C~k~glpY~~~~ 455 (485)
T PLN03199 436 CHALVESFCKEWGVKYHEAD 455 (485)
T ss_pred hhHHHHHHHHHhCCCccccC
Confidence 77788999999999998665
No 365
>PRK08762 molybdopterin biosynthesis protein MoeB; Validated
Probab=23.80 E-value=99 Score=25.99 Aligned_cols=35 Identities=23% Similarity=0.186 Sum_probs=28.3
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk 95 (137)
...+||-|.|-.+ .+..+.++|.+++||++.....
T Consensus 225 ~~D~Vv~~~d~~~--~r~~ln~~~~~~~ip~i~~~~~ 259 (376)
T PRK08762 225 DVDVVVDGADNFP--TRYLLNDACVKLGKPLVYGAVF 259 (376)
T ss_pred CCCEEEECCCCHH--HHHHHHHHHHHcCCCEEEEEec
Confidence 4789999988643 5778999999999999987543
No 366
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=23.57 E-value=3e+02 Score=20.13 Aligned_cols=69 Identities=14% Similarity=0.063 Sum_probs=39.6
Q ss_pred ccEEEEecCCChhh----HHHhHHHHhHhcCCCEEEeC----CHHHHHHHhCCCcceEEEEEEeCCCCChHHHHHHHHHH
Q psy1295 60 SEFIVLAADAEPLE----IVLHLPLLCEDKNVPYVFVR----SKQALGRACGVSRPIIACSVTVDEGSQLKPQIQAIQQQ 131 (137)
Q Consensus 60 aklViiA~D~~~~~----~~~~i~~lc~~~~IP~i~~~----tk~eLG~a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~ 131 (137)
++.||+-.|..+.+ ........++.+||.+..++ +..+|-...+.+-++. .....-+++...++++.+.
T Consensus 104 ~~~villTDG~~~~~~~~~~~~~a~~l~~~gv~i~~vgv~~~~~~~L~~iA~~~~~~f---~~~~~~~~l~~~~~~~~~~ 180 (185)
T cd01474 104 VSVIIALTDGQLLLNGHKYPEHEAKLSRKLGAIVYCVGVTDFLKSQLINIADSKEYVF---PVTSGFQALSGIIESVVKK 180 (185)
T ss_pred CeEEEEEcCCCcCCCCCcchHHHHHHHHHcCCEEEEEeechhhHHHHHHHhCCCCeeE---ecCccHHHHHHHHHHHHHh
Confidence 37788889987721 11222345677899877654 5578888888764321 0112224555555555443
No 367
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=23.55 E-value=1.5e+02 Score=23.14 Aligned_cols=33 Identities=18% Similarity=0.238 Sum_probs=25.2
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
-..+.||.++ .. ....+...++++||||...++
T Consensus 77 ~~diAVL~R~--~~-~~~~i~~~L~~~gIp~~~~~~ 109 (351)
T PF13361_consen 77 PSDIAVLVRT--NS-QIKEIEDALKEAGIPYRISGS 109 (351)
T ss_dssp GGGEEEEESS--GG-HHHHHHHHHHHTTS-EEESSS
T ss_pred cccEEEEEEC--ch-hHHHHHHHHhhhcceeEeccc
Confidence 4679999999 32 578999999999999865544
No 368
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=23.53 E-value=2e+02 Score=19.70 Aligned_cols=43 Identities=12% Similarity=0.037 Sum_probs=26.7
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
+++++....-. -.......|+++|+|++-+-+..+|.+.+...
T Consensus 47 ~I~iS~SG~t~-e~i~~~~~a~~~g~~iI~IT~~~~l~~~~~~~ 89 (119)
T cd05017 47 VIAVSYSGNTE-ETLSAVEQAKERGAKIVAITSGGKLLEMAREH 89 (119)
T ss_pred EEEEECCCCCH-HHHHHHHHHHHCCCEEEEEeCCchHHHHHHHc
Confidence 34444444444 34455668889999988664445688877644
No 369
>cd04101 RabL4 RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.
Probab=23.51 E-value=2.6e+02 Score=19.34 Aligned_cols=74 Identities=14% Similarity=0.166 Sum_probs=36.8
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHh-----cCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCCCCChHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCED-----KNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDEGSQLKP 123 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~-----~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~~s~~~~ 123 (137)
.+..+++.-|.+..+....+..+.++ .++|++.+.+|.++-. ...........-+-...+..+.+
T Consensus 75 ~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~ 154 (164)
T cd04101 75 SPSVFILVYDVSNKASFENCSRWVNKVRTASKHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEE 154 (164)
T ss_pred CCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHH
Confidence 45666666666543333333322222 4699998888866521 11111112122232334456777
Q ss_pred HHHHHHHHH
Q psy1295 124 QIQAIQQQI 132 (137)
Q Consensus 124 ~i~e~~~~~ 132 (137)
+++.+.+.+
T Consensus 155 l~~~l~~~~ 163 (164)
T cd04101 155 PFESLARAF 163 (164)
T ss_pred HHHHHHHHh
Confidence 777666543
No 370
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=23.51 E-value=2.5e+02 Score=20.94 Aligned_cols=40 Identities=15% Similarity=0.093 Sum_probs=24.1
Q ss_pred HHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 51 ATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 51 v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
..+.+.++++.-+|+....... . ....+++.+||++.+++
T Consensus 47 ~~~~l~~~~vdgiIi~~~~~~~---~-~~~~l~~~~ipvV~~~~ 86 (265)
T cd06299 47 YLDNLLSQRVDGIIVVPHEQSA---E-QLEDLLKRGIPVVFVDR 86 (265)
T ss_pred HHHHHHhcCCCEEEEcCCCCCh---H-HHHHHHhCCCCEEEEec
Confidence 3455667778878877543221 1 23455667899887653
No 371
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=23.51 E-value=2.4e+02 Score=21.55 Aligned_cols=36 Identities=17% Similarity=0.086 Sum_probs=21.1
Q ss_pred HHcCcccEEEEe-cCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 55 LNRGLSEFIVLA-ADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 55 I~k~kaklViiA-~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+...++.-+|+. .|. + ....+...+.+++||++.+.
T Consensus 50 ~~~~~~dgiii~~~~~-~--~~~~~~~~~~~~~iPvV~~~ 86 (289)
T cd01540 50 LGAQGAKGFVICVPDV-K--LGPAIVAKAKAYNMKVVAVD 86 (289)
T ss_pred HHHcCCCEEEEccCch-h--hhHHHHHHHHhCCCeEEEec
Confidence 344566655554 342 2 23445566778889988664
No 372
>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi
Probab=23.47 E-value=2.7e+02 Score=19.57 Aligned_cols=75 Identities=11% Similarity=0.038 Sum_probs=40.2
Q ss_pred cccEEEEecCCChhhHHHhHHHHh------HhcCCCEEEeCCHHHHHHHhC----------CCcceEEEEEEeCCCCChH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLC------EDKNVPYVFVRSKQALGRACG----------VSRPIIACSVTVDEGSQLK 122 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc------~~~~IP~i~~~tk~eLG~a~G----------~~~~v~~~ai~~~~~s~~~ 122 (137)
.+..+++.-|++..+....+..+- ...++|++.+++|.+|-..-. ...+....-+-...+..+.
T Consensus 75 ~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~ 154 (167)
T cd01867 75 GAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVE 154 (167)
T ss_pred CCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence 456666666664333433433222 135789999888876642110 0111222223334457888
Q ss_pred HHHHHHHHHHH
Q psy1295 123 PQIQAIQQQIE 133 (137)
Q Consensus 123 ~~i~e~~~~~~ 133 (137)
++++++.+++-
T Consensus 155 ~~~~~i~~~~~ 165 (167)
T cd01867 155 EAFFTLAKDIK 165 (167)
T ss_pred HHHHHHHHHHH
Confidence 88888887763
No 373
>PRK10200 putative racemase; Provisional
Probab=23.47 E-value=1.5e+02 Score=23.27 Aligned_cols=45 Identities=20% Similarity=0.196 Sum_probs=32.6
Q ss_pred ccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 44 LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 44 lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
..-=..+..+.+++..++++++|.|..-. +... +-+..+||++-.
T Consensus 60 ~~~~l~~~~~~L~~~g~~~iviaCNTah~-~~~~---l~~~~~iPii~i 104 (230)
T PRK10200 60 TGDILAEAALGLQRAGAEGIVLCTNTMHK-VADA---IESRCSLPFLHI 104 (230)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCchHHH-HHHH---HHHhCCCCEeeh
Confidence 33345566777888889999999999665 5444 445668999874
No 374
>PLN00144 acetylornithine transaminase
Probab=23.40 E-value=1.3e+02 Score=25.21 Aligned_cols=42 Identities=19% Similarity=0.348 Sum_probs=28.7
Q ss_pred HHHHHcCcccEEEEecCC-------ChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 52 TKTLNRGLSEFIVLAADA-------EPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 52 ~kaI~k~kaklViiA~D~-------~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
.+.+++++...||+-..- .+++....+..+|++++++++.-.
T Consensus 160 ~~~~~~~~~aavi~eP~q~~gg~~~~~~~~~~~l~~l~~~~g~llI~DE 208 (382)
T PLN00144 160 RKLIQKGKTAAVFVEPVQGEGGIYPATKEFLQGLRALCDEAGALLVFDE 208 (382)
T ss_pred HHhcCCCCeEEEEEccccCCCCCccCCHHHHHHHHHHHHHcCCEEEEec
Confidence 344545667777766221 134579999999999999998543
No 375
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=23.39 E-value=2.5e+02 Score=20.84 Aligned_cols=41 Identities=24% Similarity=0.295 Sum_probs=25.3
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+..+.+..+++.-+|+...-... . .....+.+++||++.+.
T Consensus 46 ~~~~~l~~~~vdgiii~~~~~~~--~-~~~~~~~~~~ipvV~~~ 86 (266)
T cd06282 46 DAVETLLRQRVDGLILTVADAAT--S-PALDLLDAERVPYVLAY 86 (266)
T ss_pred HHHHHHHhcCCCEEEEecCCCCc--h-HHHHHHhhCCCCEEEEe
Confidence 44555666788888876432221 2 24566788899987664
No 376
>COG1086 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]
Probab=23.34 E-value=2.9e+02 Score=25.44 Aligned_cols=58 Identities=12% Similarity=0.028 Sum_probs=44.9
Q ss_pred CCccccHHHHHHHHHcCcccEEEEe-cCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH
Q psy1295 42 KQLRKGANEATKTLNRGLSEFIVLA-ADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR 100 (137)
Q Consensus 42 g~lv~G~~~v~kaI~k~kaklViiA-~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~ 100 (137)
|-=|.|..++...+++..++.+++| ..+++. -.+.+...|+.+++.+-..+.-.+|..
T Consensus 160 Gv~V~g~~~i~~~v~~~~~~~iiiAips~~~~-~~~~i~~~l~~~~~~v~~lP~~~~l~~ 218 (588)
T COG1086 160 GVPVLGRIEIERVVEELGIQLILIAIPSASQE-ERRRILLRLARTGIAVRILPQLTDLKD 218 (588)
T ss_pred ceeeechhHHHHHHHHcCCceEEEecCCCCHH-HHHHHHHHHHhcCCcEEecCcHHHHHH
Confidence 3346677788888888887777776 456665 788999999999999988888877654
No 377
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=23.32 E-value=2.6e+02 Score=19.30 Aligned_cols=62 Identities=8% Similarity=-0.002 Sum_probs=41.4
Q ss_pred hHHHHHHHHHHHHHHHcCC----ccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 25 TALTTKILSLVQQALNYKQ----LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 25 ~~~~~kl~~lL~~A~~ag~----lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
.-+.+|+.+.++. .|- -..+..++...+ ....+++++.-..- ..+++...|..+|||+..+.
T Consensus 14 s~la~km~~~a~~---~gi~~~i~a~~~~e~~~~~--~~~Dvill~PQv~~--~~~~i~~~~~~~~ipv~~I~ 79 (99)
T cd05565 14 GLLANALNKGAKE---RGVPLEAAAGAYGSHYDMI--PDYDLVILAPQMAS--YYDELKKDTDRLGIKLVTTT 79 (99)
T ss_pred HHHHHHHHHHHHH---CCCcEEEEEeeHHHHHHhc--cCCCEEEEcChHHH--HHHHHHHHhhhcCCCEEEeC
Confidence 3445566655432 332 245566665544 45789999888755 58889999999999997665
No 378
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=23.28 E-value=2.5e+02 Score=21.13 Aligned_cols=45 Identities=11% Similarity=-0.000 Sum_probs=26.0
Q ss_pred HHHHHHHcCcccEEEEec-CCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 50 EATKTLNRGLSEFIVLAA-DAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~-D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
+..+.+..+++.-+|+.. +.+...........+.++++|++.+++
T Consensus 46 ~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~ 91 (273)
T cd06292 46 DYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNG 91 (273)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcC
Confidence 556677777888777753 211111122223345678899988764
No 379
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=23.27 E-value=5.3e+02 Score=22.87 Aligned_cols=86 Identities=10% Similarity=0.105 Sum_probs=53.3
Q ss_pred cHHHHHHHH----HcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC---cceEEEEEEeCCC-
Q psy1295 47 GANEATKTL----NRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS---RPIIACSVTVDEG- 118 (137)
Q Consensus 47 G~~~v~kaI----~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~---~~v~~~ai~~~~~- 118 (137)
|-..+...| .+...+..+++.|.........+..+++..++|++...+..+|.+++..- ...-.+.|+..+.
T Consensus 253 GKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs 332 (436)
T PRK11889 253 GKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKN 332 (436)
T ss_pred cHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEeCcccc
Confidence 444444444 23345788899998764467888899999999999888888888776321 1122334544432
Q ss_pred CChHHHHHHHHHHH
Q psy1295 119 SQLKPQIQAIQQQI 132 (137)
Q Consensus 119 s~~~~~i~e~~~~~ 132 (137)
..-.+.+++...-+
T Consensus 333 ~kd~~lm~EL~~~l 346 (436)
T PRK11889 333 YRASETVEEMIETM 346 (436)
T ss_pred CcCHHHHHHHHHHH
Confidence 23344566655444
No 380
>PRK06943 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional
Probab=23.13 E-value=1.7e+02 Score=25.30 Aligned_cols=36 Identities=14% Similarity=0.164 Sum_probs=25.9
Q ss_pred CcccEEEEecC--------CChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 58 GLSEFIVLAAD--------AEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 58 ~kaklViiA~D--------~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+++-.||+-.- ..|.++.+.+..+|++|||.+|.-.
T Consensus 220 ~~iAAviiEPvvqg~gG~~~~~~~yl~~lr~lc~~~gillI~DE 263 (453)
T PRK06943 220 GKIAALIVEPLVQCAAGMAMHDPSYLRGLRALCDRYGVHLIADE 263 (453)
T ss_pred CceEEEEEeccccccCCcccCCHHHHHHHHHHHHHcCCEEEeec
Confidence 45555555432 3455699999999999999998644
No 381
>cd06423 CESA_like CESA_like is the cellulose synthase superfamily. The cellulose synthase (CESA) superfamily includes a wide variety of glycosyltransferase family 2 enzymes that share the common characteristic of catalyzing the elongation of polysaccharide chains. The members include cellulose synthase catalytic subunit, chitin synthase, glucan biosynthesis protein and other families of CESA-like proteins. Cellulose synthase catalyzes the polymerization reaction of cellulose, an aggregate of unbranched polymers of beta-1,4-linked glucose residues in plants, most algae, some bacteria and fungi, and even some animals. In bacteria, algae and lower eukaryotes, there is a second unrelated type of cellulose synthase (Type II), which produces acylated cellulose, a derivative of cellulose. Chitin synthase catalyzes the incorporation of GlcNAc from substrate UDP-GlcNAc into chitin, which is a linear homopolymer of beta-(1,4)-linked GlcNAc residues and Glucan Biosynthesis protein catalyzes the
Probab=23.06 E-value=1.9e+02 Score=19.25 Aligned_cols=51 Identities=20% Similarity=0.131 Sum_probs=26.4
Q ss_pred HHHHHHHHcC---cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH
Q psy1295 49 NEATKTLNRG---LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR 100 (137)
Q Consensus 49 ~~v~kaI~k~---kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~ 100 (137)
.++++.+.+. ...++|+....++ .+...+..+.......+.........|.
T Consensus 13 ~~~l~sl~~q~~~~~~iivvdd~s~d-~t~~~~~~~~~~~~~~~~~~~~~~~~g~ 66 (180)
T cd06423 13 ERTIESLLALDYPKLEVIVVDDGSTD-DTLEILEELAALYIRRVLVVRDKENGGK 66 (180)
T ss_pred HHHHHHHHhCCCCceEEEEEeCCCcc-chHHHHHHHhccccceEEEEEecccCCc
Confidence 3444444443 3556665555444 4777777776654333444444344443
No 382
>PRK10128 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional
Probab=23.06 E-value=2.3e+02 Score=23.03 Aligned_cols=46 Identities=15% Similarity=0.222 Sum_probs=35.7
Q ss_pred ChHHHHHHHHHHHHHHHcCCcc----ccHHHHHHHHHcCcccEEEEecCCC
Q psy1295 24 DTALTTKILSLVQQALNYKQLR----KGANEATKTLNRGLSEFIVLAADAE 70 (137)
Q Consensus 24 ~~~~~~kl~~lL~~A~~ag~lv----~G~~~v~kaI~k~kaklViiA~D~~ 70 (137)
.++++..+..+++.++++|+.. .......+.++.| .+++.++.|..
T Consensus 192 ~pev~~ai~~v~~a~~~~Gk~~G~~~~~~~~a~~~~~~G-~~~v~~g~D~~ 241 (267)
T PRK10128 192 HPEVQRIIETSIRRIRAAGKAAGFLAVDPDMAQKCLAWG-ANFVAVGVDTM 241 (267)
T ss_pred CHHHHHHHHHHHHHHHHcCCeEEEcCCCHHHHHHHHHcC-CcEEEEChHHH
Confidence 5688899999999999999842 2335566677777 78999999973
No 383
>PRK09295 bifunctional cysteine desulfurase/selenocysteine lyase; Validated
Probab=23.05 E-value=4.3e+02 Score=21.80 Aligned_cols=64 Identities=9% Similarity=0.188 Sum_probs=37.1
Q ss_pred ccccHHHHHHHHHc-------CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC-------CHHHHHHHhCCCcce
Q psy1295 44 LRKGANEATKTLNR-------GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR-------SKQALGRACGVSRPI 108 (137)
Q Consensus 44 lv~G~~~v~kaI~k-------~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~-------tk~eLG~a~G~~~~v 108 (137)
+..|..+....+-. ++..-|++....-+. ....+..+|+..|+.+..++ +-++|-+++..++++
T Consensus 90 ~t~g~t~~l~~~~~~~~~~~~~~gd~vl~~~~~~~s-~~~~~~~~~~~~g~~v~~v~~~~~~~~d~~~l~~~i~~~t~l 167 (406)
T PRK09295 90 FVRGTTEGINLVANSWGNSNVRAGDNIIISEMEHHA-NIVPWQMLCARVGAELRVIPLNPDGTLQLETLPALFDERTRL 167 (406)
T ss_pred EeCCHHHHHHHHHHHhhhhcCCCcCEEEECcchhhH-HHHHHHHHHHHcCcEEEEEecCCCCCCCHHHHHHhcCCCcEE
Confidence 34455555544322 223455555544443 45556778888999887764 346787777655444
No 384
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=23.05 E-value=3.8e+02 Score=21.67 Aligned_cols=63 Identities=16% Similarity=0.106 Sum_probs=47.9
Q ss_pred ccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCC-CEEEeCCHHHHHHHhCCCcc
Q psy1295 44 LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNV-PYVFVRSKQALGRACGVSRP 107 (137)
Q Consensus 44 lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~I-P~i~~~tk~eLG~a~G~~~~ 107 (137)
++.---|+..+-.-|---++++++=.++. ....+..+|...|. |++.+-|.+||-+++.....
T Consensus 117 FIid~~QI~eA~~~GADaVLLI~~~L~~~-~l~~l~~~a~~lGle~lVEVh~~~El~~al~~~a~ 180 (254)
T PF00218_consen 117 FIIDPYQIYEARAAGADAVLLIAAILSDD-QLEELLELAHSLGLEALVEVHNEEELERALEAGAD 180 (254)
T ss_dssp ---SHHHHHHHHHTT-SEEEEEGGGSGHH-HHHHHHHHHHHTT-EEEEEESSHHHHHHHHHTT-S
T ss_pred CCCCHHHHHHHHHcCCCEeehhHHhCCHH-HHHHHHHHHHHcCCCeEEEECCHHHHHHHHHcCCC
Confidence 45667888888888877788888888886 78999999999998 56689999999998755433
No 385
>cd07396 MPP_Nbla03831 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain. Nbla03831 (also known as LOC56985) is an uncharacterized Homo sapiens protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=23.01 E-value=1.7e+02 Score=23.07 Aligned_cols=49 Identities=20% Similarity=0.177 Sum_probs=33.9
Q ss_pred HHHHHHHHcCcccEEEEecCCChh------hHHHhHHHHhHhcCCCEEEeCCHHH
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPL------EIVLHLPLLCEDKNVPYVFVRSKQA 97 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~------~~~~~i~~lc~~~~IP~i~~~tk~e 97 (137)
.++++.+.+.+..+||++.|.... +....+.......++|+..++..-+
T Consensus 30 ~~~i~~i~~~~~d~vv~~GDlv~~~~~~~~~~~~~~~~~l~~l~~p~~~v~GNHD 84 (267)
T cd07396 30 EEAVEEWNRESLDFVVQLGDIIDGDNARAEEALDAVLAILDRLKGPVHHVLGNHD 84 (267)
T ss_pred HHHHHHHHcCCCCEEEECCCeecCCCchHHHHHHHHHHHHHhcCCCEEEecCccc
Confidence 345666766779999999998532 1234456667778899998865544
No 386
>PLN02705 beta-amylase
Probab=23.00 E-value=2e+02 Score=26.84 Aligned_cols=45 Identities=13% Similarity=0.143 Sum_probs=38.8
Q ss_pred ccHHHHHHHHHcCcccEEEEec---C---------CChhhHHHhHHHHhHhcCCCEE
Q psy1295 46 KGANEATKTLNRGLSEFIVLAA---D---------AEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~---D---------~~~~~~~~~i~~lc~~~~IP~i 90 (137)
-|...+.+.+++..+.+.|.+- | |+|..+...+...|+.+||++.
T Consensus 557 DGY~pIa~mfarh~~~l~FTC~eMe~~d~~~~~a~s~PE~LV~QV~~aA~~~Gv~va 613 (681)
T PLN02705 557 DGYSPVFETLKKHSVTVKFVCSGLQMSPNENDEALADPEGLSWQVLNSAWDRGLTVA 613 (681)
T ss_pred ccHHHHHHHHHHcCceEEEEeccccccCCCCCccCCCHHHHHHHHHHHHHHcCCcee
Confidence 4789999999999999987775 2 4677899999999999999985
No 387
>COG0614 FepB ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=22.88 E-value=3.1e+02 Score=21.39 Aligned_cols=66 Identities=18% Similarity=0.282 Sum_probs=37.8
Q ss_pred HHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCH---------HHHHHHhCCCcceEEEEEEeCCCCChH
Q psy1295 52 TKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSK---------QALGRACGVSRPIIACSVTVDEGSQLK 122 (137)
Q Consensus 52 ~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk---------~eLG~a~G~~~~v~~~ai~~~~~s~~~ 122 (137)
.+.|..=+-.+||........ ....+ ...++|++.+... ..+|+++|++ ++..
T Consensus 108 ~E~i~~lkPDlIi~~~~~~~~-~~~~~----~~~~~pvv~~~~~~~~~~~~~i~~lg~~~g~e-------------~~A~ 169 (319)
T COG0614 108 LEKIVALKPDLIIASSSSQDD-LIYKL----LSLGAPVVVVDYGSLDDIKEQIRLLGKALGKE-------------EKAE 169 (319)
T ss_pred HHHhhhcCCCEEEEecccchh-HHHHH----HhcCCCEEEECCcchhhHHHHHHHHHHHhCcH-------------HHHH
Confidence 455555566677766541111 12222 4567998876432 2577777766 5556
Q ss_pred HHHHHHHHHHHHh
Q psy1295 123 PQIQAIQQQIERL 135 (137)
Q Consensus 123 ~~i~e~~~~~~~~ 135 (137)
++++++.++++.+
T Consensus 170 ~li~~~~~~~~~~ 182 (319)
T COG0614 170 ELIAEYDQRLAAL 182 (319)
T ss_pred HHHHHHHHHHHHH
Confidence 6666666666543
No 388
>PRK05702 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=22.82 E-value=1.1e+02 Score=26.16 Aligned_cols=39 Identities=26% Similarity=0.360 Sum_probs=27.1
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
-+|+|+=.+. ...++...|+++|||++.- ..|.+++-..
T Consensus 287 P~vvakg~~~--~A~~i~~~A~~~~vpi~~~---~~LAr~Ly~~ 325 (359)
T PRK05702 287 PVVVAKGVDE--VALKIREIAREHNVPIVEN---PPLARALYAT 325 (359)
T ss_pred CEEEEeeCcH--HHHHHHHHHHHcCCCEEeC---HHHHHHHHHc
Confidence 3445554444 6899999999999998654 4566666544
No 389
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=22.70 E-value=2.8e+02 Score=20.77 Aligned_cols=44 Identities=14% Similarity=0.130 Sum_probs=25.7
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.+..+.+...++.-+|+..- ++......+ ..++..+||++.++.
T Consensus 45 ~~~~~~~~~~~vdgiii~~~-~~~~~~~~~-~~~~~~~ipvV~~~~ 88 (267)
T cd06322 45 LSDVEDFITKKVDAIVLSPV-DSKGIRAAI-AKAKKAGIPVITVDI 88 (267)
T ss_pred HHHHHHHHHcCCCEEEEcCC-ChhhhHHHH-HHHHHCCCCEEEEcc
Confidence 34455555667777777542 222133334 446778999988753
No 390
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=22.68 E-value=1.2e+02 Score=19.24 Aligned_cols=29 Identities=17% Similarity=0.359 Sum_probs=22.3
Q ss_pred hHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 73 EIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 73 ~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
++...|...-+++|.| +|-.||++.+|.+
T Consensus 10 ~vL~~I~~~~~~~G~~----Pt~rEIa~~~g~~ 38 (65)
T PF01726_consen 10 EVLEFIREYIEENGYP----PTVREIAEALGLK 38 (65)
T ss_dssp HHHHHHHHHHHHHSS-------HHHHHHHHTSS
T ss_pred HHHHHHHHHHHHcCCC----CCHHHHHHHhCCC
Confidence 4667777888899998 8999999999987
No 391
>PRK08706 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=22.46 E-value=4e+02 Score=21.20 Aligned_cols=113 Identities=11% Similarity=0.040 Sum_probs=57.6
Q ss_pred CCCcccCCCCChHHHHHHHHHHHHHHHc-C--Cc---cccHHHHHHHHHcCcccEEEEecCCChh--------------h
Q psy1295 14 AVNPKAYPLADTALTTKILSLVQQALNY-K--QL---RKGANEATKTLNRGLSEFIVLAADAEPL--------------E 73 (137)
Q Consensus 14 ~~~~~~~p~a~~~~~~kl~~lL~~A~~a-g--~l---v~G~~~v~kaI~k~kaklViiA~D~~~~--------------~ 73 (137)
....++.|.-...+..-+ ...|.. | .+ -.|.+++.++++++. ..|.+..|-++. .
T Consensus 130 ~~~~i~r~~~n~~~d~~~----~~~R~~~g~~~i~~~~~~~r~i~k~L~k~~-~~v~~l~Dq~~~~~~gv~v~FfG~~a~ 204 (289)
T PRK08706 130 PLISMYSHQKNKILDEQI----LKGRNRYHNVFLIGRTEGLRALVKQFRKSS-APFLYLPDQDFGRNDSVFVDFFGIQTA 204 (289)
T ss_pred CCcEEeeCCCCHHHHHHH----HHHHhccCCcccccChhhHHHHHHHHHhCC-ceEEEeCCCCCCCCCCEEeccCCccch
Confidence 345677888655544433 333332 2 22 238889999996554 344444666541 1
Q ss_pred HHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCCcceEEEE-EEeCCCCChHHHHHHHHHHHHHh
Q psy1295 74 IVLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIIACS-VTVDEGSQLKPQIQAIQQQIERL 135 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~~~v~~~a-i~~~~~s~~~~~i~e~~~~~~~~ 135 (137)
+..-...++...+.|++.+.... .+. | ...+..-- +....++++.+..+.+.+.+|+.
T Consensus 205 t~~g~a~LA~~~~apvvp~~~~R-~~~--~-~~~i~i~~~~~~~~~~~~~~~t~~~~~~lE~~ 263 (289)
T PRK08706 205 TITGLSRIAALANAKVIPAIPVR-EAD--N-TVTLHFYPAWDSFPSEDAQADAQRMNRFIEER 263 (289)
T ss_pred hhhHHHHHHHhcCCeEEEEEEEE-cCC--C-cEEEEEecCCCCCCCCCHHHHHHHHHHHHHHH
Confidence 23334467777777777554311 111 1 12221110 11112456667777777777764
No 392
>PRK10638 glutaredoxin 3; Provisional
Probab=22.43 E-value=2.2e+02 Score=18.10 Aligned_cols=42 Identities=12% Similarity=0.224 Sum_probs=25.5
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeC---C---HHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR---S---KQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~---t---k~eLG~a~G~~ 105 (137)
+.+......|. -.+...+.++++|||..+. + ++++.+..|..
T Consensus 4 v~ly~~~~Cp~--C~~a~~~L~~~gi~y~~~dv~~~~~~~~~l~~~~g~~ 51 (83)
T PRK10638 4 VEIYTKATCPF--CHRAKALLNSKGVSFQEIPIDGDAAKREEMIKRSGRT 51 (83)
T ss_pred EEEEECCCChh--HHHHHHHHHHcCCCcEEEECCCCHHHHHHHHHHhCCC
Confidence 44555555553 5677788888899987552 1 23455655653
No 393
>PRK08248 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=22.33 E-value=5e+02 Score=22.27 Aligned_cols=82 Identities=11% Similarity=0.051 Sum_probs=48.9
Q ss_pred hHHHHHHHHHHHHHHHcCCccccHHHHHHHHHc--CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC--CHHHHHH
Q psy1295 25 TALTTKILSLVQQALNYKQLRKGANEATKTLNR--GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR--SKQALGR 100 (137)
Q Consensus 25 ~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~k--~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~--tk~eLG~ 100 (137)
+.+++++-++.+ +..+=-...|.....-++.. +...-|++..++-+. +...+...++..|+.+.+++ +-+++-+
T Consensus 67 ~~Le~~lA~leg-~~~al~~~sG~~Ai~~al~~ll~~GD~Vlv~~~~y~~-t~~~~~~~~~~~Gv~v~~vd~~d~e~l~~ 144 (431)
T PRK08248 67 DVFEKRIAALEG-GIGALAVSSGQAAITYSILNIASAGDEIVSSSSLYGG-TYNLFAHTLPKLGITVKFVDPSDPENFEA 144 (431)
T ss_pred HHHHHHHHHHhC-CCcEEEECCHHHHHHHHHHHHhCCCCEEEEccCchhh-HHHHHHHHHHhCCEEEEEECCCCHHHHHH
Confidence 355666666665 21111244565555544432 233456666665554 56667777889999988875 5678888
Q ss_pred HhCCCcce
Q psy1295 101 ACGVSRPI 108 (137)
Q Consensus 101 a~G~~~~v 108 (137)
++..+.++
T Consensus 145 ai~~~tkl 152 (431)
T PRK08248 145 AITDKTKA 152 (431)
T ss_pred hcCCCCeE
Confidence 88765443
No 394
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=22.31 E-value=2.8e+02 Score=20.83 Aligned_cols=40 Identities=15% Similarity=0.182 Sum_probs=21.7
Q ss_pred HHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 52 TKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 52 ~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
.+.+..+++.-+|++. .++. ........+...++|++.+.
T Consensus 50 i~~l~~~~vdgvii~~-~~~~-~~~~~l~~~~~~~ipvV~~~ 89 (273)
T cd06310 50 LENAIARGPDAILLAP-TDAK-ALVPPLKEAKDAGIPVVLID 89 (273)
T ss_pred HHHHHHhCCCEEEEcC-CChh-hhHHHHHHHHHCCCCEEEec
Confidence 3334456677777754 2232 22223344456888888764
No 395
>PF07505 Gp37_Gp68: Phage protein Gp37/Gp68; InterPro: IPR011101 This entry is represented by Burkholderia phage phiE125, Gp37. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=22.17 E-value=1e+02 Score=25.22 Aligned_cols=65 Identities=15% Similarity=0.290 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHHHcCCccccHHHHHH-----HHHcCcccEEEEec-------CCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 26 ALTTKILSLVQQALNYKQLRKGANEATK-----TLNRGLSEFIVLAA-------DAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 26 ~~~~kl~~lL~~A~~ag~lv~G~~~v~k-----aI~k~kaklViiA~-------D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
+...+|-.|+..-.+.+-|+. ...+. .+....+.-||+.. -++| +....|.+.|+.+|||+.+-.
T Consensus 152 ~ad~Rip~L~~~pa~~rflS~--EPLLg~i~l~~~~~~~IdWVIvGGESG~~ARp~~~-~Wvr~irdqC~~~gvpFffKQ 228 (261)
T PF07505_consen 152 RADERIPILLETPAKVRFLSC--EPLLGPIDLSKLDLEGIDWVIVGGESGPGARPMHP-DWVRSIRDQCAAAGVPFFFKQ 228 (261)
T ss_pred HHHHhHHHHHhCCccEEEEEe--ccccCCcCcccccCCCCCEEEECCCcCCCCCcCCH-HHHHHHHHHHHHcCCcEEEEe
Confidence 345666666665544432221 11111 22334577777754 4566 489999999999999998753
No 396
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to
Probab=22.02 E-value=96 Score=22.00 Aligned_cols=42 Identities=14% Similarity=0.109 Sum_probs=26.0
Q ss_pred cccEEEEecCCChhhHHHhHHHHhH------hcCCCEEEeCCHHHHHH
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCE------DKNVPYVFVRSKQALGR 100 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~------~~~IP~i~~~tk~eLG~ 100 (137)
.+..+++.-|.+..+....+..+.+ ..++|++.+++|.+|+.
T Consensus 72 ~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~ 119 (161)
T cd04117 72 RAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQ 119 (161)
T ss_pred CCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence 4555666666555434444443222 24699999999988864
No 397
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=21.94 E-value=2.5e+02 Score=19.22 Aligned_cols=41 Identities=24% Similarity=0.203 Sum_probs=25.5
Q ss_pred cccEEEEecCCChh--hHHHhHHHHhHhcCCCEEEeCCHHHHH
Q psy1295 59 LSEFIVLAADAEPL--EIVLHLPLLCEDKNVPYVFVRSKQALG 99 (137)
Q Consensus 59 kaklViiA~D~~~~--~~~~~i~~lc~~~~IP~i~~~tk~eLG 99 (137)
.+.++++.-|++.. .....+...+...+.|++.+.+|.+|.
T Consensus 84 ~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~ 126 (174)
T cd01895 84 RADVVLLVIDATEGITEQDLRIAGLILEEGKALVIVVNKWDLV 126 (174)
T ss_pred hcCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEEEEEeccccC
Confidence 44566666565332 233455566677889999888876553
No 398
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.91 E-value=2.5e+02 Score=21.16 Aligned_cols=42 Identities=17% Similarity=0.169 Sum_probs=25.2
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
.+..+.+..+++.-+|+.....+ . ..+...+++++||++.++
T Consensus 45 ~~~i~~l~~~~vdgii~~~~~~~--~-~~~~~~~~~~~ipvV~i~ 86 (269)
T cd06281 45 LEILRSFEQRRMDGIIIAPGDER--D-PELVDALASLDLPIVLLD 86 (269)
T ss_pred HHHHHHHHHcCCCEEEEecCCCC--c-HHHHHHHHhCCCCEEEEe
Confidence 35556677777777776543222 1 233445677889988775
No 399
>cd04185 GT_2_like_b Subfamily of Glycosyltransferase Family GT2 of unknown function. GT-2 includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=21.91 E-value=2.7e+02 Score=20.05 Aligned_cols=44 Identities=18% Similarity=0.175 Sum_probs=24.1
Q ss_pred HHHHHHHHHcCc---ccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 48 ANEATKTLNRGL---SEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 48 ~~~v~kaI~k~k---aklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
..++++++.+.. .. ||+..|.+...+...+..++...++.++..
T Consensus 12 l~~~l~sl~~q~~~~~e-iiivD~~s~d~t~~~~~~~~~~~~i~~~~~ 58 (202)
T cd04185 12 LKECLDALLAQTRPPDH-IIVIDNASTDGTAEWLTSLGDLDNIVYLRL 58 (202)
T ss_pred HHHHHHHHHhccCCCce-EEEEECCCCcchHHHHHHhcCCCceEEEEC
Confidence 345555665432 33 455555555447777777776655444433
No 400
>PF05343 Peptidase_M42: M42 glutamyl aminopeptidase; InterPro: IPR008007 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M42 (glutamyl aminopeptidase family, clan MH). For members of this family and family M28 the predicted metal ligands occur in the same order in the sequence: H, D, E, D/E, H; and the active site residues occur in the motifs HXD and EE. ; PDB: 2WYR_C 2CF4_A 1VHO_A 3ISX_A 3KL9_G 1YLO_F 3CPX_C 1VHE_A 2GRE_F 1XFO_A ....
Probab=21.91 E-value=2.1e+02 Score=23.40 Aligned_cols=45 Identities=22% Similarity=0.322 Sum_probs=26.8
Q ss_pred hHHHhHHHHhHhcCCCEEE-e--CCHHHHHHH--hCCCcceEEEEEEeCC
Q psy1295 73 EIVLHLPLLCEDKNVPYVF-V--RSKQALGRA--CGVSRPIIACSVTVDE 117 (137)
Q Consensus 73 ~~~~~i~~lc~~~~IP~i~-~--~tk~eLG~a--~G~~~~v~~~ai~~~~ 117 (137)
.+.+++...|++++|||-+ + .+..+-+.+ .|.-.+++++++-.+.
T Consensus 224 ~l~~~l~~~A~~~~Ip~Q~~~~~~ggTDa~~~~~~~~Gi~t~~i~iP~ry 273 (292)
T PF05343_consen 224 KLVDKLREIAEENGIPYQREVFSGGGTDAGAIQLSGGGIPTAVISIPCRY 273 (292)
T ss_dssp HHHHHHHHHHHHTT--EEEEEESSSSSTHHHHHTSTTSSEEEEEEEEEBS
T ss_pred HHHHHHHHHHHHcCCCeEEEecCCcccHHHHHHHcCCCCCEEEEeccccc
Confidence 4999999999999999965 3 334554443 3333445555555543
No 401
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=21.87 E-value=2.7e+02 Score=21.04 Aligned_cols=41 Identities=5% Similarity=0.160 Sum_probs=23.7
Q ss_pred HHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 52 TKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 52 ~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.+.+...++..+|+.... +. ........+..++||++.+++
T Consensus 49 i~~~~~~~vdgiii~~~~-~~-~~~~~~~~~~~~~ipvV~~~~ 89 (270)
T cd06308 49 IENFIRQGVDLLIISPNE-AA-PLTPVVEEAYRAGIPVILLDR 89 (270)
T ss_pred HHHHHHhCCCEEEEecCc-hh-hchHHHHHHHHCCCCEEEeCC
Confidence 333445677777776532 22 223334455678999887753
No 402
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=21.80 E-value=2.7e+02 Score=18.97 Aligned_cols=50 Identities=16% Similarity=0.218 Sum_probs=32.5
Q ss_pred HHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe-CCHHHHHHHhCCC
Q psy1295 51 ATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV-RSKQALGRACGVS 105 (137)
Q Consensus 51 v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~-~tk~eLG~a~G~~ 105 (137)
..+..++..+.+|.|..|..+. . ..+++++++|+-.. ....++.+..|..
T Consensus 49 ~~~~~~~~~v~vv~V~~~~~~~-~----~~~~~~~~~~~p~~~D~~~~~~~~~g~~ 99 (149)
T cd02970 49 LLPELDALGVELVAVGPESPEK-L----EAFDKGKFLPFPVYADPDRKLYRALGLV 99 (149)
T ss_pred HHHHHHhcCeEEEEEeCCCHHH-H----HHHHHhcCCCCeEEECCchhHHHHcCce
Confidence 3334445567888888775432 2 26778888887654 4457888888863
No 403
>cd02958 UAS UAS family; UAS is a domain of unknown function. Most members of this family are uncharacterized proteins with similarity to FAS-associated factor 1 (FAF1) and ETEA because of the presence of a UAS domain N-terminal to a ubiquitin-associated UBX domain. FAF1 is a longer protein, compared to the other members of this family, having additional N-terminal domains, a ubiquitin-associated UBA domain and a nuclear targeting domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. ETEA is the protein product of a highly expressed gene in T-cells and eosinophils of atopic dermatitis patients. The presence of the ubiquitin-associated UBX domain in the proteins of this family suggests the possibility of their involvement in ubiquitination. Recently, FAF1 has been shown to interact with valosin-containing protein (VCP),
Probab=21.77 E-value=2.6e+02 Score=18.77 Aligned_cols=43 Identities=12% Similarity=0.162 Sum_probs=26.0
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
..+|.+.+.+ ..|++.-|.+..+ ...+.......+.|.+.+-+
T Consensus 42 ~~~v~~~l~~---~~v~~~~d~~~~e-~~~~~~~~~~~~~P~~~~i~ 84 (114)
T cd02958 42 NESVKEFIRE---NFIFWQCDIDSSE-GQRFLQSYKVDKYPHIAIID 84 (114)
T ss_pred CHHHHHHHHh---CEEEEEecCCCcc-HHHHHHHhCccCCCeEEEEe
Confidence 3455555554 4777777876542 34556666666778776544
No 404
>cd01885 EF2 EF2 (for archaea and eukarya). Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco
Probab=21.65 E-value=1.9e+02 Score=22.63 Aligned_cols=50 Identities=18% Similarity=0.026 Sum_probs=31.3
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
.++..+++...+-++++...-.+..-...+...+...++|++.+.+|.++
T Consensus 88 ~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p~ilviNKiD~ 137 (222)
T cd01885 88 SEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKERVKPVLVINKIDR 137 (222)
T ss_pred HHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECCCc
Confidence 46777777776666666544332212344555666778998888777654
No 405
>TIGR01295 PedC_BrcD bacteriocin transport accessory protein, putative. This model describes a small family of proteins believed to aid in the export of various class II bacteriocins, which are ribosomally-synthesized, non-lantibiotic bacterial peptide antibiotics. Members of this family are found in operons for pediocin PA-1 from Pediococcus acidilactici and brochocin-C from Brochothrix campestris.
Probab=21.46 E-value=2.7e+02 Score=19.49 Aligned_cols=53 Identities=9% Similarity=0.070 Sum_probs=36.1
Q ss_pred CCccccHHHHHHHHHcCcccEEEE-ecCCCh-hhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 42 KQLRKGANEATKTLNRGLSEFIVL-AADAEP-LEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 42 g~lv~G~~~v~kaI~k~kaklVii-A~D~~~-~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
|.......+....+.+|+..+|.+ +..|++ +.+.-.+..+.++.++++.++..
T Consensus 7 ~~~~it~~~~~~~i~~~~~~iv~f~~~~Cp~C~~~~P~l~~~~~~~~~~~y~vdv 61 (122)
T TIGR01295 7 GLEVTTVVRALEALDKKETATFFIGRKTCPYCRKFSGTLSGVVAQTKAPIYYIDS 61 (122)
T ss_pred cceecCHHHHHHHHHcCCcEEEEEECCCChhHHHHhHHHHHHHHhcCCcEEEEEC
Confidence 444456678888899988777766 444433 22455677888888899887754
No 406
>cd04118 Rab24 Rab24 subfamily. Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita
Probab=21.46 E-value=3.2e+02 Score=19.69 Aligned_cols=75 Identities=7% Similarity=-0.002 Sum_probs=38.4
Q ss_pred cccEEEEecCCChhhHHHhHH---HHhH--hcCCCEEEeCCHHHHHHHhC--------------CCcceEEEEEEeCCCC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLP---LLCE--DKNVPYVFVRSKQALGRACG--------------VSRPIIACSVTVDEGS 119 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~---~lc~--~~~IP~i~~~tk~eLG~a~G--------------~~~~v~~~ai~~~~~s 119 (137)
.+..+++.-|.+..+....+. ..-. ..++|++.+++|.+|-.... ....+...-+-...+.
T Consensus 73 ~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~ 152 (193)
T cd04118 73 GAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQ 152 (193)
T ss_pred CCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCC
Confidence 456666666664432222222 2112 23799999999988742110 0111222223334456
Q ss_pred ChHHHHHHHHHHHH
Q psy1295 120 QLKPQIQAIQQQIE 133 (137)
Q Consensus 120 ~~~~~i~e~~~~~~ 133 (137)
.+.++++.+...+.
T Consensus 153 gv~~l~~~i~~~~~ 166 (193)
T cd04118 153 NVDELFQKVAEDFV 166 (193)
T ss_pred CHHHHHHHHHHHHH
Confidence 77777777766553
No 407
>PLN02905 beta-amylase
Probab=21.42 E-value=2.1e+02 Score=26.77 Aligned_cols=45 Identities=11% Similarity=0.190 Sum_probs=39.3
Q ss_pred ccHHHHHHHHHcCcccEEEEecC--------------CChhhHHHhHHHHhHhcCCCEE
Q psy1295 46 KGANEATKTLNRGLSEFIVLAAD--------------AEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D--------------~~~~~~~~~i~~lc~~~~IP~i 90 (137)
-|...+.+.+++..+.+.|-+-+ |+|..+...+...|+.+||++.
T Consensus 575 DGY~pIa~mfarh~~~l~FTClEM~D~eqp~~~~~a~ssPE~LV~QV~~aA~~~GV~va 633 (702)
T PLN02905 575 DGYAAIASMLKKHGAALNFVCGEVQMLNRPDDFSEALGDPEGLAWQVLNAAWDVDTPVA 633 (702)
T ss_pred ccHHHHHHHHHHcCCeEEEEecccccCCCCCccccccCCHHHHHHHHHHHHHHhCCcee
Confidence 47889999999999999998753 5677899999999999999985
No 408
>cd03363 TOPRIM_TopoIA_TopoI TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=21.38 E-value=3e+02 Score=19.40 Aligned_cols=44 Identities=25% Similarity=0.184 Sum_probs=26.7
Q ss_pred CcccEEEEecCCChh--hHHHhHHHHhHhcCCCEEEe----CCHHHHHHHh
Q psy1295 58 GLSEFIVLAADAEPL--EIVLHLPLLCEDKNVPYVFV----RSKQALGRAC 102 (137)
Q Consensus 58 ~kaklViiA~D~~~~--~~~~~i~~lc~~~~IP~i~~----~tk~eLG~a~ 102 (137)
+++.-||+|.|++.. -+..++..++.. +.|+-.+ -|..++-+++
T Consensus 71 ~~~~eiiiAtD~drEGe~i~~~i~~~~~~-~~~v~Rl~~sslt~~~I~~A~ 120 (123)
T cd03363 71 KKADEIYLATDPDREGEAIAWHLAEVLKL-KKNVKRVVFNEITKEAIKEAL 120 (123)
T ss_pred hcCCEEEEcCCCCcchHHHHHHHHHHcCC-CCCeEEEEEccCCHHHHHHHH
Confidence 458899999999763 245556666654 5565432 2444554443
No 409
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=21.35 E-value=4.4e+02 Score=21.27 Aligned_cols=117 Identities=20% Similarity=0.255 Sum_probs=69.4
Q ss_pred CcccCCCCChHH-H-------------HHHHHHHHHHHHcCC------------ccccHHHHHHHHHcCcccEEEEecCC
Q psy1295 16 NPKAYPLADTAL-T-------------TKILSLVQQALNYKQ------------LRKGANEATKTLNRGLSEFIVLAADA 69 (137)
Q Consensus 16 ~~~~~p~a~~~~-~-------------~kl~~lL~~A~~ag~------------lv~G~~~v~kaI~k~kaklViiA~D~ 69 (137)
.|++-|+|+=.+ + ++++++++..++.-. +..|...-.+...+--+.-|++ .|.
T Consensus 50 iPfSDP~aDGpvIq~a~~rAL~~g~~~~~~~~~~~~~r~~~~~p~vlm~Y~N~i~~~G~e~F~~~~~~aGvdgvii-pDL 128 (263)
T CHL00200 50 IPYSDPLADGPIIQEASNRALKQGINLNKILSILSEVNGEIKAPIVIFTYYNPVLHYGINKFIKKISQAGVKGLII-PDL 128 (263)
T ss_pred CCCCCCCccCHHHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCEEEEecccHHHHhCHHHHHHHHHHcCCeEEEe-cCC
Confidence 599999997533 1 135566666553211 1236666666555544666555 466
Q ss_pred ChhhHHHhHHHHhHhcCCCEEEe--C-C-HHHHHHHhCCCcceEEEEEEeCCC---CChHHHHHHHHHHHHH
Q psy1295 70 EPLEIVLHLPLLCEDKNVPYVFV--R-S-KQALGRACGVSRPIIACSVTVDEG---SQLKPQIQAIQQQIER 134 (137)
Q Consensus 70 ~~~~~~~~i~~lc~~~~IP~i~~--~-t-k~eLG~a~G~~~~v~~~ai~~~~~---s~~~~~i~e~~~~~~~ 134 (137)
++. -...+...|+++|+..+.. + | .+++-+.+....+..-+.-..+-+ +.+.+.++++..++.+
T Consensus 129 P~e-e~~~~~~~~~~~gi~~I~lv~PtT~~eri~~i~~~a~gFIY~vS~~GvTG~~~~~~~~~~~~i~~ir~ 199 (263)
T CHL00200 129 PYE-ESDYLISVCNLYNIELILLIAPTSSKSRIQKIARAAPGCIYLVSTTGVTGLKTELDKKLKKLIETIKK 199 (263)
T ss_pred CHH-HHHHHHHHHHHcCCCEEEEECCCCCHHHHHHHHHhCCCcEEEEcCCCCCCCCccccHHHHHHHHHHHH
Confidence 664 5788999999999987754 3 3 368888777765443221112221 3555666666666654
No 410
>TIGR01456 CECR5 HAD-superfamily class IIA hydrolase, TIGR01456, CECR5. The Schizosaccharomyces pombe sequence (EGAD|138276) is annotated as "phosphatidyl synthase," however this is due entirely to a C-terminal region of the protein (outside the region of similarity of this model) which is highly homologous to a family of CDP-alcohol phosphatidyltransferases. (Thus, the annotation of GP|4226073 from C. elegans as similar to phosphatidyl synthase, is a mistake as this gene does not contain the C-terminal portion). The physical connection of the phosphatidyl synthase and the HAD-superfamily hydrolase domain in S. pombe may, however, be an important clue to the substrate for the hydrolases in this equivalog.
Probab=21.33 E-value=1.9e+02 Score=23.69 Aligned_cols=48 Identities=21% Similarity=0.120 Sum_probs=32.7
Q ss_pred cCCccccHHHHHHHHHcC----cccEEEEecCCChhhHHHhHHHHhHhcCCCE
Q psy1295 41 YKQLRKGANEATKTLNRG----LSEFIVLAADAEPLEIVLHLPLLCEDKNVPY 89 (137)
Q Consensus 41 ag~lv~G~~~v~kaI~k~----kaklViiA~D~~~~~~~~~i~~lc~~~~IP~ 89 (137)
.+.+..|..++++.++.. ...++++.++.+.. .......+.+..|+++
T Consensus 14 g~~~i~ga~eal~~L~~~~~~~g~~~~flTNn~g~s-~~~~~~~l~~~lG~~~ 65 (321)
T TIGR01456 14 GKKPIAGASDALRRLNRNQGQLKIPYIFLTNGGGFS-ERARAEEISSLLGVDV 65 (321)
T ss_pred CccccHHHHHHHHHHhccccccCCCEEEEecCCCCC-HHHHHHHHHHHcCCCC
Confidence 355678888888898886 78888888887543 3333444456666653
No 411
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=21.25 E-value=2.6e+02 Score=22.23 Aligned_cols=74 Identities=22% Similarity=0.240 Sum_probs=43.4
Q ss_pred cccccccCCCCCCCcccCCCCChHHHHHHHHHHHHHHHcCCccccHHHHHHHHH-cCcccEEEEecCCChhhHHHhHHHH
Q psy1295 3 TFLYFQTNEEPAVNPKAYPLADTALTTKILSLVQQALNYKQLRKGANEATKTLN-RGLSEFIVLAADAEPLEIVLHLPLL 81 (137)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~p~a~~~~~~kl~~lL~~A~~ag~lv~G~~~v~kaI~-k~kaklViiA~D~~~~~~~~~i~~l 81 (137)
.|+||-|+--.+-...+ ++++.+.+. +..+.++ +..++++++|.|.--. --+..+
T Consensus 25 ~~iy~~D~~~~PYG~ks----~~~i~~~~~-----------------~~~~~L~~~~g~d~ivIaCNTA~a---~~~~~l 80 (251)
T TIGR00067 25 HYIYVGDTKRFPYGEKS----PEFILEYVL-----------------ELLTFLKERHNIKLLVVACNTASA---LALEDL 80 (251)
T ss_pred CEEEEecCCCCCCCCCC----HHHHHHHHH-----------------HHHHHHHHhCCCCEEEEeCchHHH---HHHHHH
Confidence 36777777655544433 233333333 3334555 6779999999997432 225556
Q ss_pred hHhcCCCEEEe--CCHHHHHH
Q psy1295 82 CEDKNVPYVFV--RSKQALGR 100 (137)
Q Consensus 82 c~~~~IP~i~~--~tk~eLG~ 100 (137)
-+..+||++.+ +.-+.+.+
T Consensus 81 ~~~~~iPii~iie~~v~~a~~ 101 (251)
T TIGR00067 81 QRNFDFPVVGVIEPAIKAAIR 101 (251)
T ss_pred HHHCCCCEEeecHHHHHHHHH
Confidence 66778999874 34445543
No 412
>TIGR00385 dsbE periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily. Involved in the biogenesis of c-type cytochromes as well as in disulfide bond formation in some periplasmic proteins.
Probab=21.25 E-value=3.3e+02 Score=19.86 Aligned_cols=49 Identities=14% Similarity=0.208 Sum_probs=29.4
Q ss_pred HHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEE--EeCCHHHHHHHhCCC
Q psy1295 53 KTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYV--FVRSKQALGRACGVS 105 (137)
Q Consensus 53 kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i--~~~tk~eLG~a~G~~ 105 (137)
..+.+..+.++.+..|-++. ....+++++++|+. ......++++..|..
T Consensus 86 ~~l~~~~~~vi~V~~~~~~~----~~~~~~~~~~~~f~~v~~D~~~~~~~~~~v~ 136 (173)
T TIGR00385 86 NELAKDGLPIVGVDYKDQSQ----NALKFLKELGNPYQAILIDPNGKLGLDLGVY 136 (173)
T ss_pred HHHHHcCCEEEEEECCCChH----HHHHHHHHcCCCCceEEECCCCchHHhcCCe
Confidence 34444446666665443332 23456788888763 345667888888754
No 413
>PF03446 NAD_binding_2: NAD binding domain of 6-phosphogluconate dehydrogenase; InterPro: IPR006115 6-Phosphogluconate dehydrogenase (1.1.1.44 from EC) (6PGD) is an oxidative carboxylase that catalyses the decarboxylating reduction of 6-phosphogluconate into ribulose 5-phosphate in the presence of NADP. This reaction is a component of the hexose mono-phosphate shunt and pentose phosphate pathways (PPP) [, ]. Prokaryotic and eukaryotic 6PGD are proteins of about 470 amino acids whose sequence are highly conserved []. The protein is a homodimer in which the monomers act independently []: each contains a large, mainly alpha-helical domain and a smaller beta-alpha-beta domain, containing a mixed parallel and anti-parallel 6-stranded beta sheet []. NADP is bound in a cleft in the small domain, the substrate binding in an adjacent pocket []. This family represents the NADP binding domain of 6-phosphogluconate dehydrogenase which adopts a Rossman fold. The C-terminal domain is described in IPR006114 from INTERPRO.; GO: 0004616 phosphogluconate dehydrogenase (decarboxylating) activity, 0006098 pentose-phosphate shunt, 0055114 oxidation-reduction process; PDB: 3AX6_D 3PDU_G 3Q3C_A 3OBB_A 4DLL_B 1PGP_A 1PGN_A 2PGD_A 1PGQ_A 1PGO_A ....
Probab=21.21 E-value=2.3e+02 Score=20.55 Aligned_cols=46 Identities=17% Similarity=0.108 Sum_probs=32.6
Q ss_pred cHHHHHHHHHc-------CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 47 GANEATKTLNR-------GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 47 G~~~v~kaI~k-------~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
...++...+.. .+-+++|-.+..+|. ...++...++.+|+.|+..+
T Consensus 67 ~~~~v~~v~~~~~i~~~l~~g~iiid~sT~~p~-~~~~~~~~~~~~g~~~vdap 119 (163)
T PF03446_consen 67 DDDAVEAVLFGENILAGLRPGKIIIDMSTISPE-TSRELAERLAAKGVRYVDAP 119 (163)
T ss_dssp SHHHHHHHHHCTTHGGGS-TTEEEEE-SS--HH-HHHHHHHHHHHTTEEEEEEE
T ss_pred cchhhhhhhhhhHHhhccccceEEEecCCcchh-hhhhhhhhhhhccceeeeee
Confidence 44455554444 467899999999997 89999999999999998765
No 414
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=21.16 E-value=1.1e+02 Score=27.81 Aligned_cols=40 Identities=20% Similarity=0.262 Sum_probs=28.9
Q ss_pred cEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 61 EFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 61 klViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
--+++|+=.+. +..++.+.+++||||++.- ..|.|++-+.
T Consensus 542 aP~VvAKG~d~--~A~~Ir~~A~e~~VPive~---~~LAR~Ly~~ 581 (609)
T PRK12772 542 APKVVAKGADY--VALKIKEIAKENDVPIIEN---KPLARLIYKK 581 (609)
T ss_pred CCEEEEeeCcH--HHHHHHHHHHHCCCcEEeC---HHHHHHHHHc
Confidence 34555665554 6899999999999998653 4577776655
No 415
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=20.97 E-value=2.1e+02 Score=21.94 Aligned_cols=39 Identities=8% Similarity=0.051 Sum_probs=25.6
Q ss_pred CcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHH
Q psy1295 58 GLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGR 100 (137)
Q Consensus 58 ~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~ 100 (137)
..+.+||.|.|-+. +-..+...| ..++++..+.+ .++|.
T Consensus 69 ~~adlViaaT~d~e--lN~~i~~~a-~~~~lvn~~d~-~~~~~ 107 (202)
T PRK06718 69 VDAFLVIAATNDPR--VNEQVKEDL-PENALFNVITD-AESGN 107 (202)
T ss_pred CCceEEEEcCCCHH--HHHHHHHHH-HhCCcEEECCC-CccCe
Confidence 34678888877543 678888999 45787755544 44453
No 416
>KOG0368|consensus
Probab=20.97 E-value=1.2e+02 Score=31.35 Aligned_cols=46 Identities=22% Similarity=0.372 Sum_probs=35.2
Q ss_pred ccEEEEecCCCh---------hhHHHhHHHHhHhcCCCEEEe--CCHHHHHHHhCCC
Q psy1295 60 SEFIVLAADAEP---------LEIVLHLPLLCEDKNVPYVFV--RSKQALGRACGVS 105 (137)
Q Consensus 60 aklViiA~D~~~---------~~~~~~i~~lc~~~~IP~i~~--~tk~eLG~a~G~~ 105 (137)
-++++|+.|+.- ..+-.....++++++||-+++ .|-.++|-|=-..
T Consensus 1546 r~~iVIgNDiTfqiGSFGp~ED~lF~~aselAR~~~iPrIylaaNSGARIGlAeei~ 1602 (2196)
T KOG0368|consen 1546 RDLIVIGNDVTFQIGSFGPREDLLFLAASELAREKGIPRIYLAANSGARIGLAEEIK 1602 (2196)
T ss_pred ceEEEEeccceEeccCCCChHHHHHHHHHHHHHhcCCCeEEEeccCccccccHHHHH
Confidence 578999999832 247778899999999998876 4667888665443
No 417
>cd01832 SGNH_hydrolase_like_1 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid. Myxobacterial members of this subfamily have been reported to be involved in adventurous gliding motility.
Probab=20.89 E-value=3.1e+02 Score=19.49 Aligned_cols=22 Identities=5% Similarity=-0.135 Sum_probs=17.3
Q ss_pred HHHhHHHHhHhcCCCEEEeCCH
Q psy1295 74 IVLHLPLLCEDKNVPYVFVRSK 95 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~tk 95 (137)
+-+.+..+|+++++|++...+.
T Consensus 133 ~n~~l~~~a~~~~v~~vd~~~~ 154 (185)
T cd01832 133 YNAVIRAVAARYGAVHVDLWEH 154 (185)
T ss_pred HHHHHHHHHHHcCCEEEecccC
Confidence 4566788999999999877543
No 418
>TIGR01544 HAD-SF-IE haloacid dehalogenase superfamily, subfamily IE hydrolase, TIGR01544. This group of sequences was found during searches for members of the haloacid dehalogenase (HAD) superfamily. All of the conserved catalytic motifs are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches (IA, TIGR01493, TIGR01509, TIGR01549; IB, TIGR01488; IC, TIGR01494; ID, TIGR01658; IF TIGR01545) of that subfamily as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.
Probab=20.85 E-value=2e+02 Score=23.70 Aligned_cols=26 Identities=15% Similarity=0.244 Sum_probs=14.4
Q ss_pred ccccHHHHHHHHHcCcccEEEEecCC
Q psy1295 44 LRKGANEATKTLNRGLSEFIVLAADA 69 (137)
Q Consensus 44 lv~G~~~v~kaI~k~kaklViiA~D~ 69 (137)
+.-|..+....+++...+++|+.+-.
T Consensus 122 l~pG~~efl~~L~~~GIpv~IvS~G~ 147 (277)
T TIGR01544 122 LKDGYENFFDKLQQHSIPVFIFSAGI 147 (277)
T ss_pred cCcCHHHHHHHHHHCCCcEEEEeCCc
Confidence 45566666666655555555555433
No 419
>PRK12773 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=20.82 E-value=1.2e+02 Score=28.17 Aligned_cols=39 Identities=21% Similarity=0.192 Sum_probs=28.1
Q ss_pred EEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHHHHHhCCC
Q psy1295 62 FIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQALGRACGVS 105 (137)
Q Consensus 62 lViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eLG~a~G~~ 105 (137)
-+++|.=.+. +..+|.+.|+++|||++.- ..|.|++=..
T Consensus 579 PiVVAKG~D~--lAlrIReiAeE~gVPIVEN---pPLARALY~~ 617 (646)
T PRK12773 579 PIVIAKGVDD--FALLIIRIARENGVPTVED---RLQARGLYEE 617 (646)
T ss_pred CEEEEEeCcH--HHHHHHHHHHHcCCcEEEC---HHHHHHHHHc
Confidence 3455555544 7899999999999998754 4566666554
No 420
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=20.73 E-value=2.5e+02 Score=22.56 Aligned_cols=40 Identities=13% Similarity=0.087 Sum_probs=30.6
Q ss_pred HHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 49 NEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
.++.+.+++++++.+|.....+++ +.+ .++++.|+++..+
T Consensus 218 ~~l~~~ik~~~v~~If~e~~~~~~-~~~---~ia~~~g~~v~~l 257 (286)
T cd01019 218 AKIRKEIKEKGATCVFAEPQFHPK-IAE---TLAEGTGAKVGEL 257 (286)
T ss_pred HHHHHHHHHcCCcEEEecCCCChH-HHH---HHHHhcCceEEEe
Confidence 367778889999999999998776 444 5567778877654
No 421
>cd04143 Rhes_like Rhes_like subfamily. This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l
Probab=20.72 E-value=4.2e+02 Score=20.78 Aligned_cols=47 Identities=17% Similarity=0.182 Sum_probs=27.1
Q ss_pred cCCCEEEeCCHHHHHH-----------HhCCCcceEEEEEEeCCCCChHHHHHHHHHH
Q psy1295 85 KNVPYVFVRSKQALGR-----------ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQ 131 (137)
Q Consensus 85 ~~IP~i~~~tk~eLG~-----------a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~ 131 (137)
.++|++.+++|.+|.. .++....+...-+-...+..+.++++.+...
T Consensus 112 ~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI~elf~~L~~~ 169 (247)
T cd04143 112 VKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSL 169 (247)
T ss_pred CCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHH
Confidence 4799999998887752 3333222222222233456777777776653
No 422
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=20.69 E-value=2.8e+02 Score=21.87 Aligned_cols=43 Identities=14% Similarity=0.109 Sum_probs=25.5
Q ss_pred HHHHHHcCcccEEEEecCCChhh----HHHhHHHHhHhcCCCEEEeC
Q psy1295 51 ATKTLNRGLSEFIVLAADAEPLE----IVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 51 v~kaI~k~kaklViiA~D~~~~~----~~~~i~~lc~~~~IP~i~~~ 93 (137)
+.+..+...+.+||++.|..... -...+.......++|+..+.
T Consensus 23 l~~~~~~~~~D~vv~~GDl~~~g~~~~~~~~~l~~l~~l~~pv~~V~ 69 (224)
T cd07388 23 LVGLAPETGADAIVLIGNLLPKAAKSEDYAAFFRILGEAHLPTFYVP 69 (224)
T ss_pred HHHHHhhcCCCEEEECCCCCCCCCCHHHHHHHHHHHHhcCCceEEEc
Confidence 34444556788999999984321 12233344455668888774
No 423
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=20.63 E-value=1.9e+02 Score=19.26 Aligned_cols=38 Identities=18% Similarity=0.206 Sum_probs=22.5
Q ss_pred HcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEE-EeCC
Q psy1295 56 NRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYV-FVRS 94 (137)
Q Consensus 56 ~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i-~~~t 94 (137)
++....++++.++.-.. +...+..+-++..-|++ .+++
T Consensus 39 ~~~~~gIIii~e~~~~~-~~~~l~~~~~~~~~P~iv~IP~ 77 (95)
T PF01990_consen 39 KDEDVGIIIITEDLAEK-IRDELDEYREESSLPLIVEIPS 77 (95)
T ss_dssp HHTTEEEEEEEHHHHTT-HHHHHHHHHHTSSSSEEEEEST
T ss_pred cCCCccEEEeeHHHHHH-HHHHHHHHHhccCCceEEEcCC
Confidence 34566677777666664 66666666555566654 3344
No 424
>cd04139 RalA_RalB RalA/RalB subfamily. The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo
Probab=20.60 E-value=2.9e+02 Score=18.85 Aligned_cols=60 Identities=13% Similarity=0.180 Sum_probs=35.0
Q ss_pred HHHhHHHHhHhcCCCEEEeCCHHHHHH----------HhCCCcceEEEEEEeCCCCChHHHHHHHHHHHH
Q psy1295 74 IVLHLPLLCEDKNVPYVFVRSKQALGR----------ACGVSRPIIACSVTVDEGSQLKPQIQAIQQQIE 133 (137)
Q Consensus 74 ~~~~i~~lc~~~~IP~i~~~tk~eLG~----------a~G~~~~v~~~ai~~~~~s~~~~~i~e~~~~~~ 133 (137)
+...+...++..++|++.+.+|.++.. ..-...+....-+-...+..+.++++++..++.
T Consensus 93 ~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~ 162 (164)
T cd04139 93 FREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVREIR 162 (164)
T ss_pred HHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence 444444444457899999988877643 110111222233334556788888888777664
No 425
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=20.59 E-value=2.4e+02 Score=22.36 Aligned_cols=49 Identities=31% Similarity=0.488 Sum_probs=33.6
Q ss_pred HHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEE-eCCHHHHHHHhC
Q psy1295 48 ANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVF-VRSKQALGRACG 103 (137)
Q Consensus 48 ~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~-~~tk~eLG~a~G 103 (137)
..++..+++.| +++++ +|. +...+...|++++||++= +.|-.|+-++..
T Consensus 81 ~e~a~~a~~aG-A~FiV-----sP~-~~~~v~~~~~~~~i~~iPG~~TpsEi~~A~~ 130 (222)
T PRK07114 81 AATAALYIQLG-ANFIV-----TPL-FNPDIAKVCNRRKVPYSPGCGSLSEIGYAEE 130 (222)
T ss_pred HHHHHHHHHcC-CCEEE-----CCC-CCHHHHHHHHHcCCCEeCCCCCHHHHHHHHH
Confidence 46677777777 66654 343 445677899999999873 567777666544
No 426
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=20.54 E-value=3e+02 Score=20.52 Aligned_cols=41 Identities=12% Similarity=0.245 Sum_probs=24.3
Q ss_pred HHHHHHHHcCcccEEEEec-CCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 49 NEATKTLNRGLSEFIVLAA-DAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 49 ~~v~kaI~k~kaklViiA~-D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.++...+.++++.-+|+.. +.+. .....+.+++||++.+.+
T Consensus 50 ~~~~~~~~~~~~dgiii~~~~~~~-----~~~~~~~~~~ipvV~~~~ 91 (270)
T cd06294 50 EEVKKMIQQKRVDGFILLYSREDD-----PIIDYLKEEKFPFVVIGK 91 (270)
T ss_pred HHHHHHHHHcCcCEEEEecCcCCc-----HHHHHHHhcCCCEEEECC
Confidence 3444556667777666653 3222 234456788999887753
No 427
>PRK02936 argD acetylornithine aminotransferase; Provisional
Probab=20.52 E-value=2.1e+02 Score=23.32 Aligned_cols=34 Identities=15% Similarity=0.278 Sum_probs=24.8
Q ss_pred CcccEEEEe--------cCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 58 GLSEFIVLA--------ADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 58 ~kaklViiA--------~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
++.+.|++- ...++ +....+..+|++++++++.-
T Consensus 166 ~~~~~ii~e~i~~~~G~~~~~~-~~l~~l~~l~~~~~~~lI~D 207 (377)
T PRK02936 166 EEVAAVMLEVVQGEGGVIPADP-AFLQEVQTLCKKFGALLIID 207 (377)
T ss_pred CCeEEEEEecccCCCCCccCCH-HHHHHHHHHHHHcCCEEEEe
Confidence 456677763 23345 48999999999999998753
No 428
>PRK05597 molybdopterin biosynthesis protein MoeB; Validated
Probab=20.51 E-value=1.4e+02 Score=25.02 Aligned_cols=33 Identities=12% Similarity=0.050 Sum_probs=27.1
Q ss_pred cccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVR 93 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~ 93 (137)
...+||-+.|- .. .+..+...|.+++||+++..
T Consensus 118 ~~DvVvd~~d~-~~-~r~~~n~~c~~~~ip~v~~~ 150 (355)
T PRK05597 118 DADVILDGSDN-FD-TRHLASWAAARLGIPHVWAS 150 (355)
T ss_pred CCCEEEECCCC-HH-HHHHHHHHHHHcCCCEEEEE
Confidence 47899999885 43 67789999999999998764
No 429
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=20.50 E-value=2.1e+02 Score=24.53 Aligned_cols=42 Identities=19% Similarity=0.266 Sum_probs=29.4
Q ss_pred cHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEe
Q psy1295 47 GANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFV 92 (137)
Q Consensus 47 G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~ 92 (137)
+.+++...+++| +.. |+... +.. ...++..+|...+||++..
T Consensus 51 ~~~~ac~l~~~g-V~A-I~Gp~-s~~-~a~~v~sic~~l~VP~is~ 92 (400)
T cd06392 51 AVQEACDLMTQG-ILA-LVTST-GCA-SANALQSLTDAMHIPHLFV 92 (400)
T ss_pred HHHHHHHHHhcC-eEE-EECCC-chh-HHHHHHHHhccCcCCcEee
Confidence 566677777555 333 33333 333 6889999999999999986
No 430
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=20.50 E-value=1.8e+02 Score=20.27 Aligned_cols=32 Identities=9% Similarity=0.088 Sum_probs=16.4
Q ss_pred cCcccEEEEecCCChhhHHHhHHHHhHhcCCCEE
Q psy1295 57 RGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYV 90 (137)
Q Consensus 57 k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i 90 (137)
++...+|++.++.-+. +...+..+ ++...|.+
T Consensus 43 ~~d~gII~Ite~~a~~-i~~~i~~~-~~~~~P~I 74 (104)
T PRK01395 43 MEDYGIIYITEQIAAD-IPETIERY-DNQVLPAI 74 (104)
T ss_pred cCCcEEEEEcHHHHHH-hHHHHHHh-cCCCCCEE
Confidence 3455666666655553 44444444 34445544
No 431
>TIGR01664 DNA-3'-Pase DNA 3'-phosphatase. The central phosphatase domain is a member of the IIIA subfamily (TIGR01662) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. As is common in this superfamily, the enzyme is magnesium dependent. A difference between this enzyme and other HAD-superfamily phosphatases is in the third conserved catalytic motif which usually contains two conserved aspartate residues believed to be involved in binding the magnesium ion. Here, the second aspartate is usually replaced by an arginine residue which may indicate an interaction with the phosphate backbone of the substrate. Alternatively, there is an additional conserved aspartate downstream of the ususal site which may indicate slightly different fold in this region.
Probab=20.42 E-value=3.6e+02 Score=19.83 Aligned_cols=45 Identities=9% Similarity=0.090 Sum_probs=29.1
Q ss_pred cccHHHHHHHHHcCcccEEEEecCCCh-------hhHHHhHHHHhHhcCCCE
Q psy1295 45 RKGANEATKTLNRGLSEFIVLAADAEP-------LEIVLHLPLLCEDKNVPY 89 (137)
Q Consensus 45 v~G~~~v~kaI~k~kaklViiA~D~~~-------~~~~~~i~~lc~~~~IP~ 89 (137)
--|..++++.+++...++.|+.+.... ..+...+..+++..+++.
T Consensus 44 ~pgv~e~L~~Lk~~G~~l~I~TN~~~~~~~~~~~~~~~~~i~~~l~~~gl~~ 95 (166)
T TIGR01664 44 YPEIPAKLQELDDEGYKIVIFTNQSGIGRGKLSAESFKNKIEAFLEKLKVPI 95 (166)
T ss_pred cCCHHHHHHHHHHCCCEEEEEeCCcccccCcccHHHHHHHHHHHHHHcCCCE
Confidence 368888888887776777666654321 113345677778888775
No 432
>TIGR01458 HAD-SF-IIA-hyp3 HAD-superfamily subfamily IIA hydrolase, TIGR01458. This hypothetical equivalog is a member of the IIA subfamily (TIGR01460) of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. One sequence (GP|10716807) has been annotated as a "phospholysine phosphohistidine inorganic pyrophosphatase," probably in reference to studies on similarly described (but unsequenced) enzymes from bovine and rat tissues. However, the supporting information for this annotation has never been published.
Probab=20.41 E-value=2.4e+02 Score=22.18 Aligned_cols=43 Identities=14% Similarity=0.049 Sum_probs=28.2
Q ss_pred ccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCC
Q psy1295 44 LRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVP 88 (137)
Q Consensus 44 lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP 88 (137)
+.-|..+.++.+++...+++|+.++.... ...+...-+..|++
T Consensus 22 ~~~~a~~al~~l~~~G~~~~~~Tn~~~~~--~~~~~~~l~~~g~~ 64 (257)
T TIGR01458 22 AVPGSQEAVKRLRGASVKVRFVTNTTKES--KQDLLERLQRLGFD 64 (257)
T ss_pred cCCCHHHHHHHHHHCCCeEEEEECCCCCC--HHHHHHHHHHcCCC
Confidence 67788999999988777777777766553 22333333445554
No 433
>PRK09331 Sep-tRNA:Cys-tRNA synthetase; Provisional
Probab=20.41 E-value=2e+02 Score=23.88 Aligned_cols=43 Identities=5% Similarity=0.155 Sum_probs=29.4
Q ss_pred HHHHHHHHHcC------cccEEEEecC----CChhhHHHhHHHHhHhcCCCEEE
Q psy1295 48 ANEATKTLNRG------LSEFIVLAAD----AEPLEIVLHLPLLCEDKNVPYVF 91 (137)
Q Consensus 48 ~~~v~kaI~k~------kaklViiA~D----~~~~~~~~~i~~lc~~~~IP~i~ 91 (137)
..++.+++++. +.++|++..- .... -.+.+..+|+++|++++.
T Consensus 141 ~~~l~~~l~~~~~~~~~~~~lV~l~~~~~~tG~~~-~l~~I~~la~~~g~~liv 193 (387)
T PRK09331 141 PEAYAEKIEEVKEETGKPPALALLTHVDGNYGNLA-DAKKVAKVAHEYGIPFLL 193 (387)
T ss_pred HHHHHHHHHHhhhccCCCCEEEEEECCCCCCcccc-cHHHHHHHHHHcCCEEEE
Confidence 45666667643 6888888652 2222 367888999999998764
No 434
>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=20.41 E-value=3.6e+02 Score=19.83 Aligned_cols=74 Identities=12% Similarity=0.140 Sum_probs=39.2
Q ss_pred cccEEEEecCCChhhHHHhHHHHh----------HhcCCCEEEeCCHHHHHH-----------HhCCCcc-eEEEEEEeC
Q psy1295 59 LSEFIVLAADAEPLEIVLHLPLLC----------EDKNVPYVFVRSKQALGR-----------ACGVSRP-IIACSVTVD 116 (137)
Q Consensus 59 kaklViiA~D~~~~~~~~~i~~lc----------~~~~IP~i~~~tk~eLG~-----------a~G~~~~-v~~~ai~~~ 116 (137)
.+..+|+.-|.+.++....+..+. ...++|++.+++|.+|.. ++. ..+ ....-+-..
T Consensus 73 ~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~e~Sak 151 (201)
T cd04107 73 GAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCK-ENGFIGWFETSAK 151 (201)
T ss_pred CCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHH-HcCCceEEEEeCC
Confidence 456666666765443444333221 136799999988888741 111 112 112222223
Q ss_pred CCCChHHHHHHHHHHHH
Q psy1295 117 EGSQLKPQIQAIQQQIE 133 (137)
Q Consensus 117 ~~s~~~~~i~e~~~~~~ 133 (137)
.+..+.++++.+...+.
T Consensus 152 ~~~~v~e~f~~l~~~l~ 168 (201)
T cd04107 152 EGINIEEAMRFLVKNIL 168 (201)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 34567777777666553
No 435
>PRK13225 phosphoglycolate phosphatase; Provisional
Probab=20.33 E-value=3.8e+02 Score=21.48 Aligned_cols=27 Identities=19% Similarity=0.149 Sum_probs=18.1
Q ss_pred CCccccHHHHHHHHHcCcccEEEEecC
Q psy1295 42 KQLRKGANEATKTLNRGLSEFIVLAAD 68 (137)
Q Consensus 42 g~lv~G~~~v~kaI~k~kaklViiA~D 68 (137)
-++.-|..++++.+++...++.|+.+.
T Consensus 141 ~~l~pg~~e~L~~L~~~gi~laIvSn~ 167 (273)
T PRK13225 141 LQLFPGVADLLAQLRSRSLCLGILSSN 167 (273)
T ss_pred CCcCCCHHHHHHHHHHCCCeEEEEeCC
Confidence 355678888888887766665555443
No 436
>PRK11183 D-lactate dehydrogenase; Provisional
Probab=20.30 E-value=2.1e+02 Score=26.12 Aligned_cols=59 Identities=8% Similarity=0.141 Sum_probs=39.1
Q ss_pred cCCccccHHHHHHHH-----HcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH-HHHh
Q psy1295 41 YKQLRKGANEATKTL-----NRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL-GRAC 102 (137)
Q Consensus 41 ag~lv~G~~~v~kaI-----~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL-G~a~ 102 (137)
.+.+..+.......- -.+....|+.+.+..+ ...+..+|.+++||++--+...-| |.++
T Consensus 15 ~~~Vltd~~~l~~Y~~D~r~~~g~P~AVV~P~SteE---Va~IVklC~e~~vPVIPRGgGTGLtGGAv 79 (564)
T PRK11183 15 SSHVLTDPAKTERYRKGFRSGQGDALAVVFPGTLLE---LWRVLQACVAADKIIIMQAANTGLTGGST 79 (564)
T ss_pred cccEecCHHHHHHhccCccccCCCCCEEEecCCHHH---HHHHHHHHHHcCCeEEEeCCCcccccCcc
Confidence 344544444443332 2356888989888744 578999999999999977655554 5444
No 437
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=20.26 E-value=3.1e+02 Score=20.67 Aligned_cols=41 Identities=12% Similarity=0.118 Sum_probs=22.1
Q ss_pred HHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 52 TKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 52 ~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
.+.+...++.-+|+....++. +...+ ..+.+++||++.+++
T Consensus 50 i~~l~~~~vdgiIi~~~~~~~-~~~~~-~~~~~~~iPvV~~~~ 90 (275)
T cd06320 50 AENMINKGYKGLLFSPISDVN-LVPAV-ERAKKKGIPVVNVND 90 (275)
T ss_pred HHHHHHhCCCEEEECCCChHH-hHHHH-HHHHHCCCeEEEECC
Confidence 334444566666554422221 23333 455778999887753
No 438
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=20.24 E-value=3.3e+02 Score=20.46 Aligned_cols=43 Identities=12% Similarity=0.044 Sum_probs=21.9
Q ss_pred HHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
+..+.+..+++.-+|+... ++. ........+.++++|++.++.
T Consensus 48 ~~i~~~~~~~~dgiIi~~~-~~~-~~~~~i~~~~~~~ipvv~~~~ 90 (271)
T cd06321 48 SQIDNFIAAKVDLILLNAV-DSK-GIAPAVKRAQAAGIVVVAVDV 90 (271)
T ss_pred HHHHHHHHhCCCEEEEeCC-Chh-HhHHHHHHHHHCCCeEEEecC
Confidence 3444444555655555432 121 122333445678899887754
No 439
>cd01859 MJ1464 MJ1464. This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.
Probab=20.20 E-value=2.2e+02 Score=20.06 Aligned_cols=48 Identities=17% Similarity=0.151 Sum_probs=26.4
Q ss_pred HHHHHHHcCcccEEEEecCCChhh--HHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 50 EATKTLNRGLSEFIVLAADAEPLE--IVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 50 ~v~kaI~k~kaklViiA~D~~~~~--~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
+..+.+.++ +.++++--|++... .-..+..+....+.|++.+.+|.+|
T Consensus 4 ~~~~~i~~~-aD~vl~V~D~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl 53 (156)
T cd01859 4 RLVRRIIKE-SDVVLEVLDARDPELTRSRKLERYVLELGKKLLIVLNKADL 53 (156)
T ss_pred HHHHHHHhh-CCEEEEEeeCCCCcccCCHHHHHHHHhCCCcEEEEEEhHHh
Confidence 334444432 45555555553311 1123445556678898888888776
No 440
>PF05159 Capsule_synth: Capsule polysaccharide biosynthesis protein; InterPro: IPR007833 This family includes export proteins involved in capsule polysaccharide biosynthesis, such as KpsS P42218 from SWISSPROT and LipB P57038 from SWISSPROT. Capsule polysaccharide modification protein lipB/A is involved in the phospholipid modification of the capsular polysaccharide and is a strong requirement for its translocation to the cell surface. The capsule of Neisseria meningitidis serogroup B and of other meningococcal serogroups and other Gram-negative bacterial pathogens, are anchored in the outer membrane through a 1,2-diacylglycerol moiety. The lipA and lipB genes are located on the 3' end of the ctr operon. lipA and lipB do not encode proteins responsible for diacylglycerophosphatidic acid substitution of the meningococcal capsule polymer, but they are required for proper translocation and surface expression of the lipidated polymer []. KpsS is an unusual sulphate-modified form of the capsular polysaccharide in Rhizobium loti (Mesorhizobium loti). Many plants, including R. loti, enter into symbiotic relationships with bacteria that allow survival in nutrient-limiting environments. KpsS functions as a fucosyl sulphotransferase in vitro. The kpsS gene product shares no significant amino acid similarity with previously identified sulphotransferases []. Sulphated cell surface polysaccharides are required for optimum nodule formation but limit growth rate and nodule colonisation in M. loti [].; GO: 0000271 polysaccharide biosynthetic process, 0015774 polysaccharide transport
Probab=20.18 E-value=1.6e+02 Score=23.10 Aligned_cols=30 Identities=17% Similarity=0.347 Sum_probs=23.1
Q ss_pred EEEecCCChhhHHHhHHHHhHhcCCCEEEeCC
Q psy1295 63 IVLAADAEPLEIVLHLPLLCEDKNVPYVFVRS 94 (137)
Q Consensus 63 ViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~t 94 (137)
|++=.|+.+. -.....+|+++|||++++..
T Consensus 3 v~~wg~~~~~--~~~~~~~a~~~~i~~~~~E~ 32 (269)
T PF05159_consen 3 VVVWGDKRPY--HRAAIEVAKELGIPVIFFED 32 (269)
T ss_pred EEEECCCccH--HHHHHHHHHHhCCCEEEEec
Confidence 5666787664 45567889999999998754
No 441
>cd01856 YlqF YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.
Probab=20.17 E-value=90 Score=22.74 Aligned_cols=54 Identities=20% Similarity=0.015 Sum_probs=28.4
Q ss_pred CccccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhcCCCEEEeCCHHHH
Q psy1295 43 QLRKGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 43 ~lv~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~~IP~i~~~tk~eL 98 (137)
......+++.+++++-..-+.++ |++.........-+....+.|.+.+.+|.+|
T Consensus 5 ~~~~~~~~~~~~i~~aD~il~v~--D~~~~~~~~~~~i~~~~~~k~~ilVlNK~Dl 58 (171)
T cd01856 5 HMAKALRQIKEKLKLVDLVIEVR--DARIPLSSRNPLLEKILGNKPRIIVLNKADL 58 (171)
T ss_pred HHHHHHHHHHHHHhhCCEEEEEe--eccCccCcCChhhHhHhcCCCEEEEEehhhc
Confidence 34556777877776655444444 4432111111111222346788888888776
No 442
>COG1445 FrwB Phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]
Probab=20.16 E-value=68 Score=23.48 Aligned_cols=46 Identities=22% Similarity=0.243 Sum_probs=32.6
Q ss_pred ccHHHHHHHHHcCcccEEEEecCCChhhHHHhHHHHhHhc-CCCEEEeCCHHHHH
Q psy1295 46 KGANEATKTLNRGLSEFIVLAADAEPLEIVLHLPLLCEDK-NVPYVFVRSKQALG 99 (137)
Q Consensus 46 ~G~~~v~kaI~k~kaklViiA~D~~~~~~~~~i~~lc~~~-~IP~i~~~tk~eLG 99 (137)
.|....+.+=+=..+..||+|.|..-. .. +.. |-|++.++++.-|-
T Consensus 43 ~G~eN~LT~edI~~Ad~VI~AaD~~i~-~~-------~ff~gk~vi~~~~~~aik 89 (122)
T COG1445 43 VGIENRLTAEDIAAADVVILAADIEVD-LS-------RFFAGKPVIEVSTKDAIK 89 (122)
T ss_pred ccccCcCCHHHHHhCCEEEEEeccccc-Hh-------HhhcCCeEEEecHHHHHh
Confidence 355555555555689999999999775 33 334 88999988876554
No 443
>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co
Probab=20.12 E-value=2.1e+02 Score=20.93 Aligned_cols=22 Identities=9% Similarity=-0.059 Sum_probs=15.7
Q ss_pred hHHHHhHhcCCCEEEeCCHHHH
Q psy1295 77 HLPLLCEDKNVPYVFVRSKQAL 98 (137)
Q Consensus 77 ~i~~lc~~~~IP~i~~~tk~eL 98 (137)
.+...+...++|++.+.+|.+|
T Consensus 108 ~~~~~~~~~~~p~iiv~NK~Dl 129 (194)
T cd01891 108 FVLKKALELGLKPIVVINKIDR 129 (194)
T ss_pred HHHHHHHHcCCCEEEEEECCCC
Confidence 3445556789999888877665
No 444
>PF08134 cIII: cIII protein family; InterPro: IPR012995 This family consists of the CIII family of regulatory proteins. The lambda CIII protein has 54 amino acids and it forms an amphipathic helix within its amino acid sequence. Lambda CIII stabilises the lambda CII protein and the host sigma factor 32, responsible for transcribing genes of the heat shock regulon [].
Probab=20.11 E-value=1.2e+02 Score=18.07 Aligned_cols=24 Identities=25% Similarity=0.469 Sum_probs=18.6
Q ss_pred cccCCCCChHHHHHHHHHHHHHHHc
Q psy1295 17 PKAYPLADTALTTKILSLVQQALNY 41 (137)
Q Consensus 17 ~~~~p~a~~~~~~kl~~lL~~A~~a 41 (137)
.-++|- +.++.+++-.+++.|++.
T Consensus 13 SAyYP~-ESELskr~rrLIRaa~k~ 36 (44)
T PF08134_consen 13 SAYYPT-ESELSKRIRRLIRAARKQ 36 (44)
T ss_pred eeecCc-HHHHHHHHHHHHHHHHHH
Confidence 345564 889999999999988764
No 445
>TIGR03106 trio_M42_hydro hydrolase, peptidase M42 family. This model describes a subfamily of MEROPS peptidase family M42, a glutamyl aminopeptidase family that also includes the cellulase CelM from Clostridium thermocellum and deblocking aminopeptidases that can remove acylated amino acids. Members of this family occur in a three gene cassette with an amidotransferase (TIGR03104)in the asparagine synthase (glutamine-hydrolyzing) family, and a probable acetyltransferase (TIGR03103) in the GNAT family.
Probab=20.02 E-value=2.7e+02 Score=23.34 Aligned_cols=21 Identities=24% Similarity=0.387 Sum_probs=18.6
Q ss_pred ChhhHHHhHHHHhHhcCCCEEE
Q psy1295 70 EPLEIVLHLPLLCEDKNVPYVF 91 (137)
Q Consensus 70 ~~~~~~~~i~~lc~~~~IP~i~ 91 (137)
++. +.+.+...|++++|||-+
T Consensus 265 ~~~-l~~~l~~~A~~~~Ip~Q~ 285 (343)
T TIGR03106 265 DYH-LTRKLIRLCQDHGIPHRR 285 (343)
T ss_pred CHH-HHHHHHHHHHHcCCCcEE
Confidence 455 999999999999999876
Done!