Query 033883
Match_columns 109
No_of_seqs 138 out of 1014
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 07:22:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033883.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033883hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK11538 ribosome-associated p 100.0 3.4E-33 7.4E-38 190.4 11.8 86 8-106 3-88 (105)
2 COG0799 Uncharacterized homolo 100.0 2.7E-33 5.9E-38 193.4 11.2 82 18-106 7-88 (115)
3 TIGR00090 iojap_ybeB iojap-lik 100.0 1.3E-32 2.7E-37 185.6 11.5 82 18-106 2-83 (99)
4 PF02410 Oligomerisation: Olig 100.0 9.1E-31 2E-35 176.3 10.2 82 18-106 2-84 (100)
5 KOG3212 Uncharacterized conser 99.9 1.9E-21 4.1E-26 144.0 10.4 86 18-107 71-156 (208)
6 PRK09271 flavodoxin; Provision 85.0 5.1 0.00011 28.2 6.6 58 1-68 10-80 (160)
7 PRK05568 flavodoxin; Provision 78.6 8.5 0.00018 26.0 5.6 52 8-66 15-76 (142)
8 PF00258 Flavodoxin_1: Flavodo 77.8 3.3 7.1E-05 28.0 3.3 39 8-53 10-54 (143)
9 PRK11104 hemG protoporphyrinog 76.6 9 0.0002 27.6 5.5 39 8-54 14-56 (177)
10 PRK06756 flavodoxin; Provision 76.1 13 0.00029 25.4 6.1 44 1-54 11-59 (148)
11 PRK05569 flavodoxin; Provision 72.8 8.9 0.00019 25.9 4.5 52 8-66 15-76 (141)
12 TIGR01755 flav_wrbA NAD(P)H:qu 72.8 13 0.00029 27.1 5.7 53 8-66 14-94 (197)
13 PRK09267 flavodoxin FldA; Vali 71.7 7.1 0.00015 27.4 3.9 42 1-54 11-56 (169)
14 COG4576 CcmL Carbon dioxide co 71.2 0.53 1.1E-05 31.2 -1.9 34 27-61 35-68 (89)
15 PRK06703 flavodoxin; Provision 69.3 16 0.00034 25.2 5.1 41 7-54 14-58 (151)
16 TIGR01753 flav_short flavodoxi 69.2 13 0.00028 24.7 4.6 40 8-54 12-55 (140)
17 TIGR01485 SPP_plant-cyano sucr 66.3 15 0.00032 27.4 4.8 17 47-63 39-55 (249)
18 PRK03669 mannosyl-3-phosphogly 62.1 9 0.0002 28.9 3.0 19 47-65 42-60 (271)
19 cd03111 CpaE_like This protein 61.8 42 0.0009 21.8 6.3 64 3-73 12-92 (106)
20 cd04885 ACT_ThrD-I Tandem C-te 60.1 35 0.00075 20.4 6.0 47 18-66 12-59 (68)
21 PF04456 DUF503: Protein of un 60.0 35 0.00076 22.3 5.2 43 31-73 35-79 (90)
22 PRK08105 flavodoxin; Provision 59.7 25 0.00055 24.6 4.8 44 5-55 12-59 (149)
23 TIGR01754 flav_RNR ribonucleot 59.1 17 0.00037 24.8 3.7 44 1-54 10-60 (140)
24 cd04887 ACT_MalLac-Enz ACT_Mal 59.1 35 0.00076 20.1 5.4 50 17-67 12-62 (74)
25 PRK11921 metallo-beta-lactamas 59.1 15 0.00032 29.7 3.9 45 1-54 257-310 (394)
26 PRK10513 sugar phosphate phosp 58.4 11 0.00024 28.1 2.9 18 47-64 38-55 (270)
27 TIGR01487 SPP-like sucrose-pho 57.5 12 0.00025 27.1 2.8 18 47-64 36-53 (215)
28 PRK03767 NAD(P)H:quinone oxido 57.5 32 0.00069 25.0 5.1 53 8-66 15-95 (200)
29 PF06778 Chlor_dismutase: Chlo 57.5 78 0.0017 23.6 7.8 42 28-69 21-62 (193)
30 PRK07308 flavodoxin; Validated 57.0 33 0.00072 23.4 4.9 42 7-55 14-59 (146)
31 PRK01158 phosphoglycolate phos 55.4 14 0.00031 26.6 3.0 17 47-63 38-54 (230)
32 PF07801 DUF1647: Protein of u 55.4 27 0.00058 25.0 4.3 46 22-67 34-81 (142)
33 smart00877 BMC Bacterial micro 54.8 42 0.00091 21.0 4.7 42 27-70 20-61 (75)
34 TIGR00099 Cof-subfamily Cof su 53.7 15 0.00032 27.2 2.9 19 46-64 33-51 (256)
35 PRK10976 putative hydrolase; P 52.9 14 0.0003 27.5 2.6 18 46-63 36-53 (266)
36 TIGR01752 flav_long flavodoxin 52.5 29 0.00063 24.5 4.2 38 8-54 13-54 (167)
37 PF15601 Imm42: Immunity prote 52.3 14 0.0003 26.3 2.4 60 8-69 52-124 (134)
38 cd03130 GATase1_CobB Type 1 gl 51.8 66 0.0014 23.4 6.1 55 16-72 11-70 (198)
39 PRK10530 pyridoxal phosphate ( 51.5 16 0.00034 27.0 2.8 17 47-63 38-54 (272)
40 PF00936 BMC: BMC domain; Int 51.0 28 0.0006 21.8 3.4 45 27-73 21-65 (75)
41 TIGR01482 SPP-subfamily Sucros 50.9 17 0.00038 26.0 2.8 18 47-64 33-50 (225)
42 COG3565 Predicted dioxygenase 50.6 16 0.00034 25.9 2.4 21 86-106 28-50 (138)
43 TIGR02461 osmo_MPG_phos mannos 50.3 19 0.00042 26.7 3.1 19 47-65 33-51 (225)
44 TIGR02463 MPGP_rel mannosyl-3- 48.7 19 0.0004 26.0 2.7 20 47-66 34-53 (221)
45 COG0561 Cof Predicted hydrolas 48.4 18 0.00039 26.9 2.6 20 47-66 38-57 (264)
46 PF13291 ACT_4: ACT domain; PD 47.9 41 0.00089 20.4 3.9 50 17-67 19-70 (80)
47 TIGR03884 sel_bind_Methan sele 46.9 61 0.0013 20.8 4.5 40 5-54 24-63 (74)
48 PRK15126 thiamin pyrimidine py 46.2 20 0.00043 26.9 2.6 17 47-63 37-53 (272)
49 PF08282 Hydrolase_3: haloacid 46.1 21 0.00046 25.3 2.6 18 47-64 33-50 (254)
50 PRK08367 porA pyruvate ferredo 45.8 56 0.0012 26.8 5.3 41 26-67 244-284 (394)
51 PRK12359 flavodoxin FldB; Prov 45.7 41 0.0009 24.4 4.1 32 20-54 20-55 (172)
52 cd05006 SIS_GmhA Phosphoheptos 45.7 1E+02 0.0023 21.6 6.6 53 20-72 119-173 (177)
53 COG1444 Predicted P-loop ATPas 45.7 55 0.0012 29.5 5.5 29 47-75 262-290 (758)
54 PRK12276 putative heme peroxid 45.3 81 0.0018 24.6 5.9 48 19-68 38-91 (248)
55 TIGR01486 HAD-SF-IIB-MPGP mann 44.9 22 0.00048 26.4 2.7 18 48-65 35-52 (256)
56 PF10469 AKAP7_NLS: AKAP7 2'5' 44.9 83 0.0018 22.8 5.7 45 31-75 79-131 (209)
57 PRK07832 short chain dehydroge 44.1 92 0.002 22.9 5.9 8 102-109 80-87 (272)
58 PRK00453 rpsF 30S ribosomal pr 44.0 71 0.0015 21.1 4.8 55 45-100 4-65 (108)
59 PF01820 Dala_Dala_lig_N: D-al 43.8 21 0.00044 24.1 2.1 47 47-100 3-51 (117)
60 TIGR01500 sepiapter_red sepiap 43.5 56 0.0012 23.9 4.6 19 49-67 31-49 (256)
61 PRK00192 mannosyl-3-phosphogly 43.4 23 0.0005 26.7 2.6 19 47-65 39-57 (273)
62 TIGR02471 sucr_syn_bact_C sucr 42.9 26 0.00057 25.7 2.8 19 47-65 32-50 (236)
63 PF01250 Ribosomal_S6: Ribosom 41.8 48 0.001 21.0 3.6 54 46-100 4-64 (92)
64 cd06169 BMC Bacterial Micro-Co 41.5 53 0.0011 19.6 3.5 38 27-65 20-57 (62)
65 cd04886 ACT_ThrD-II-like C-ter 41.1 68 0.0015 18.1 6.6 49 17-66 11-64 (73)
66 PRK14126 cell division protein 41.0 42 0.0009 21.7 3.2 28 46-74 17-44 (85)
67 PF05687 DUF822: Plant protein 40.9 43 0.00094 24.3 3.5 43 56-103 19-68 (150)
68 PRK01964 4-oxalocrotonate taut 40.9 49 0.0011 19.5 3.3 24 50-73 8-31 (64)
69 PRK02289 4-oxalocrotonate taut 40.1 43 0.00092 19.7 2.9 24 50-73 8-31 (60)
70 PRK05452 anaerobic nitric oxid 39.4 72 0.0016 26.7 5.1 45 1-54 261-314 (479)
71 PRK06179 short chain dehydroge 39.3 85 0.0019 22.9 5.1 19 48-66 6-24 (270)
72 COG3027 zapA Cell division pro 39.0 42 0.00091 22.7 3.1 29 46-74 12-40 (105)
73 PRK15360 pathogenicity island 38.9 49 0.0011 23.7 3.5 45 46-101 86-130 (137)
74 PF01037 AsnC_trans_reg: AsnC 38.5 65 0.0014 18.8 3.6 44 18-65 12-55 (74)
75 PRK00394 transcription factor; 38.1 57 0.0012 23.9 3.9 31 44-74 52-83 (179)
76 PRK06242 flavodoxin; Provision 37.9 68 0.0015 21.6 4.1 47 7-65 14-68 (150)
77 cd00491 4Oxalocrotonate_Tautom 37.6 56 0.0012 18.5 3.1 23 51-73 8-30 (58)
78 PF13481 AAA_25: AAA domain; P 36.9 1.1E+02 0.0023 21.3 5.1 50 18-74 129-179 (193)
79 cd00652 TBP_TLF TATA box bindi 36.0 65 0.0014 23.4 3.9 41 34-74 39-84 (174)
80 TIGR03371 cellulose_yhjQ cellu 35.6 1.7E+02 0.0037 21.1 6.8 41 31-71 115-163 (246)
81 TIGR01443 intein_Cterm intein 35.2 47 0.001 17.0 2.2 15 92-109 10-24 (26)
82 PLN02780 ketoreductase/ oxidor 34.9 1.1E+02 0.0024 23.8 5.2 19 49-67 80-98 (320)
83 cd01983 Fer4_NifH The Fer4_Nif 34.2 75 0.0016 18.7 3.5 24 44-67 58-81 (99)
84 TIGR01484 HAD-SF-IIB HAD-super 34.0 46 0.00099 23.6 2.8 19 47-65 35-53 (204)
85 PTZ00174 phosphomannomutase; P 33.9 42 0.0009 25.1 2.7 13 47-59 40-52 (247)
86 cd04516 TBP_eukaryotes eukaryo 33.9 74 0.0016 23.2 3.9 27 48-74 57-84 (174)
87 TIGR01689 EcbF-BcbF capsule bi 33.7 53 0.0011 22.7 2.9 28 48-75 43-78 (126)
88 PF01656 CbiA: CobQ/CobB/MinD/ 33.7 1.6E+02 0.0034 20.2 7.8 53 20-74 85-145 (195)
89 PRK09435 membrane ATPase/prote 33.6 2.1E+02 0.0045 23.0 6.7 52 20-73 75-144 (332)
90 PF10727 Rossmann-like: Rossma 33.3 35 0.00075 23.6 2.0 33 32-66 56-88 (127)
91 cd01614 EutN_CcmL Ethanolamine 33.3 5.6 0.00012 26.0 -1.9 31 28-59 36-66 (83)
92 PRK10678 moaE molybdopterin gu 33.2 1.8E+02 0.004 20.8 8.1 54 20-73 65-121 (150)
93 COG1192 Soj ATPases involved i 33.0 34 0.00074 25.4 2.0 33 21-53 23-55 (259)
94 PRK07831 short chain dehydroge 32.6 1.2E+02 0.0026 22.1 4.9 8 102-109 99-106 (262)
95 PRK15428 putative propanediol 32.6 1.2E+02 0.0026 22.3 4.7 50 55-107 2-51 (163)
96 TIGR00441 gmhA phosphoheptose 32.5 1.7E+02 0.0037 20.2 6.5 51 20-70 97-149 (154)
97 PRK02220 4-oxalocrotonate taut 32.3 1E+02 0.0022 17.7 3.7 24 50-73 8-31 (61)
98 PF01121 CoaE: Dephospho-CoA k 32.3 1.3E+02 0.0029 21.7 5.0 45 21-65 94-143 (180)
99 TIGR02935 probable nitrogen fi 32.2 79 0.0017 22.7 3.6 40 60-107 62-101 (140)
100 PRK00745 4-oxalocrotonate taut 31.8 74 0.0016 18.4 3.0 23 51-73 9-31 (62)
101 PF00352 TBP: Transcription fa 31.7 1.4E+02 0.003 18.8 4.6 30 44-73 55-85 (86)
102 PF09793 AD: Anticodon-binding 31.6 37 0.00079 22.0 1.8 38 2-45 30-70 (91)
103 PF07056 DUF1335: Protein of u 31.1 97 0.0021 22.0 3.9 31 44-74 24-60 (131)
104 PRK09004 FMN-binding protein M 31.0 1.3E+02 0.0029 20.8 4.7 44 5-55 12-57 (146)
105 smart00305 HintC Hint (Hedgeho 30.8 53 0.0012 18.3 2.2 15 92-109 28-42 (46)
106 KOG2964 Arginase family protei 30.5 15 0.00033 29.9 -0.2 72 26-106 55-132 (361)
107 cd07950 Gallate_Doxase_N The N 30.4 1.2E+02 0.0025 23.6 4.7 77 17-98 36-131 (277)
108 TIGR00013 taut 4-oxalocrotonat 30.3 85 0.0019 18.1 3.1 26 48-73 6-31 (63)
109 cd02037 MRP-like MRP (Multiple 30.3 1.6E+02 0.0036 20.2 5.1 15 29-43 27-41 (169)
110 PRK12360 4-hydroxy-3-methylbut 30.1 55 0.0012 25.9 2.8 44 20-64 174-229 (281)
111 COG5495 Uncharacterized conser 29.2 63 0.0014 25.6 3.0 26 84-109 58-100 (289)
112 PF05116 S6PP: Sucrose-6F-phos 29.2 65 0.0014 24.3 3.0 38 47-106 37-74 (247)
113 TIGR03328 salvage_mtnB methylt 29.1 2.2E+02 0.0048 20.5 6.4 54 6-73 134-187 (193)
114 PF05164 ZapA: Cell division p 29.1 74 0.0016 19.7 2.9 28 46-73 10-37 (89)
115 PF01580 FtsK_SpoIIIE: FtsK/Sp 29.1 1E+02 0.0022 22.0 3.9 55 20-74 58-119 (205)
116 PLN00062 TATA-box-binding prot 28.9 1E+02 0.0022 22.7 3.9 27 48-74 57-84 (179)
117 PRK05723 flavodoxin; Provision 28.8 84 0.0018 22.1 3.4 43 5-54 11-57 (151)
118 PF12724 Flavodoxin_5: Flavodo 28.6 1.1E+02 0.0025 20.7 4.0 46 8-60 11-59 (143)
119 PRK10645 divalent-cation toler 28.6 1.3E+02 0.0028 20.5 4.2 23 46-68 10-33 (112)
120 PRK15031 5-carboxymethyl-2-hyd 28.5 79 0.0017 22.0 3.1 25 50-74 68-92 (126)
121 cd04876 ACT_RelA-SpoT ACT dom 28.4 1E+02 0.0022 16.4 6.0 48 18-66 12-60 (71)
122 cd05569 PTS_IIB_fructose PTS_I 27.9 1.1E+02 0.0025 19.7 3.7 30 48-77 3-32 (96)
123 PF04430 DUF498: Protein of un 27.6 29 0.00064 23.0 0.8 29 44-75 53-81 (110)
124 PF02962 CHMI: 5-carboxymethyl 27.6 78 0.0017 22.0 3.0 24 50-73 67-90 (124)
125 cd00580 CHMI 5-carboxymethyl-2 27.6 82 0.0018 20.8 3.0 24 51-74 68-91 (113)
126 PRK06949 short chain dehydroge 27.3 1.3E+02 0.0028 21.6 4.3 8 102-109 88-95 (258)
127 PF05651 Diacid_rec: Putative 27.1 1.4E+02 0.003 20.9 4.2 36 9-57 3-38 (135)
128 PRK05456 ATP-dependent proteas 27.0 86 0.0019 22.7 3.2 31 42-72 36-67 (172)
129 COG1213 Predicted sugar nucleo 26.9 1.2E+02 0.0025 23.7 4.0 60 42-108 44-105 (239)
130 PLN02887 hydrolase family prot 26.9 66 0.0014 27.9 3.0 19 47-65 343-361 (580)
131 cd02042 ParA ParA and ParB of 26.2 1.7E+02 0.0037 18.2 5.1 37 31-67 40-84 (104)
132 TIGR03018 pepcterm_TyrKin exop 25.5 2.6E+02 0.0056 20.1 6.1 47 20-66 138-193 (207)
133 PRK09627 oorA 2-oxoglutarate-a 25.2 2.3E+02 0.005 23.1 5.7 24 44-67 274-297 (375)
134 KOG3782 Predicted membrane pro 25.2 2.2E+02 0.0047 21.3 5.0 57 18-75 37-93 (189)
135 COG4031 Predicted metal-bindin 25.1 1.4E+02 0.0031 22.8 4.2 35 38-72 191-225 (227)
136 PF01361 Tautomerase: Tautomer 24.9 1.3E+02 0.0029 17.2 3.3 24 50-73 7-30 (60)
137 PRK00341 hypothetical protein; 24.7 2.1E+02 0.0045 18.6 5.8 46 20-67 33-82 (91)
138 PF03270 DUF269: Protein of un 24.7 87 0.0019 22.0 2.7 40 60-107 42-81 (122)
139 PF02780 Transketolase_C: Tran 24.5 99 0.0022 20.4 3.0 23 45-67 10-32 (124)
140 PRK12384 sorbitol-6-phosphate 24.5 2.3E+02 0.0049 20.4 5.1 8 102-109 83-90 (259)
141 PRK05854 short chain dehydroge 24.5 2.2E+02 0.0048 21.7 5.3 8 102-109 95-102 (313)
142 COG0646 MetH Methionine syntha 24.3 51 0.0011 26.6 1.7 17 51-67 294-310 (311)
143 PF02574 S-methyl_trans: Homoc 24.3 39 0.00084 26.2 1.0 17 51-67 288-304 (305)
144 PF13605 DUF4141: Domain of un 24.2 30 0.00064 21.0 0.3 15 89-103 16-30 (55)
145 PF01935 DUF87: Domain of unkn 24.2 1.3E+02 0.0028 21.7 3.8 33 1-41 31-63 (229)
146 PF00543 P-II: Nitrogen regula 24.0 2.1E+02 0.0045 18.4 5.5 56 15-70 7-78 (102)
147 PF00581 Rhodanese: Rhodanese- 24.0 1E+02 0.0023 19.0 2.9 21 20-43 4-24 (113)
148 PHA02091 hypothetical protein 23.8 1.2E+02 0.0025 19.1 2.9 40 53-102 15-54 (72)
149 KOG1325 Lysophospholipase [Lip 23.6 3.3E+02 0.0072 23.9 6.6 63 36-107 37-108 (571)
150 PRK15448 ethanolamine cataboli 23.5 1.1E+02 0.0024 20.4 3.0 30 29-59 37-66 (95)
151 PF00408 PGM_PMM_IV: Phosphogl 23.3 1.8E+02 0.0039 17.5 3.9 34 36-71 40-73 (73)
152 cd07187 YvcK_like family of mo 22.9 1.6E+02 0.0035 23.5 4.3 46 17-67 195-240 (308)
153 PLN02382 probable sucrose-phos 22.5 88 0.0019 25.7 2.8 18 47-64 47-64 (413)
154 PRK07576 short chain dehydroge 22.3 1.6E+02 0.0035 21.6 4.1 8 102-109 88-95 (264)
155 cd01443 Cdc25_Acr2p Cdc25 enzy 22.2 1.3E+02 0.0028 19.4 3.1 14 31-45 22-35 (113)
156 PRK00907 hypothetical protein; 22.1 2.4E+02 0.0052 18.5 6.3 47 20-67 33-83 (92)
157 cd04888 ACT_PheB-BS C-terminal 22.0 1.8E+02 0.0038 16.9 6.7 50 17-67 13-64 (76)
158 cd01525 RHOD_Kc Member of the 21.8 1.4E+02 0.0029 18.7 3.1 21 20-41 5-25 (105)
159 PRK03467 hypothetical protein; 21.7 1.6E+02 0.0034 21.1 3.7 49 16-64 5-62 (144)
160 cd04466 S1_YloQ_GTPase S1_YloQ 21.5 98 0.0021 18.0 2.3 17 91-107 39-58 (68)
161 TIGR02624 rhamnu_1P_ald rhamnu 21.5 1.6E+02 0.0034 22.9 3.9 51 6-73 186-236 (270)
162 TIGR01281 DPOR_bchL light-inde 21.0 1.1E+02 0.0023 22.8 2.9 36 3-49 12-47 (268)
163 PTZ00397 macrophage migration 20.9 1.6E+02 0.0034 19.4 3.4 22 52-73 67-88 (116)
164 PF07892 DUF1667: Protein of u 20.5 59 0.0013 21.2 1.2 12 98-109 61-72 (82)
165 PRK07231 fabG 3-ketoacyl-(acyl 20.5 2.1E+02 0.0045 20.3 4.2 8 102-109 83-90 (251)
166 TIGR02704 carboxysome_B carbox 20.4 1.1E+02 0.0025 19.7 2.5 31 28-59 30-60 (80)
167 PRK10187 trehalose-6-phosphate 20.4 63 0.0014 24.6 1.5 18 47-64 55-72 (266)
168 PF14853 Fis1_TPR_C: Fis1 C-te 20.4 1.5E+02 0.0033 17.4 2.8 20 54-73 32-51 (53)
169 PF10674 Ycf54: Protein of unk 20.2 91 0.002 20.9 2.0 40 47-98 4-43 (93)
170 PRK08366 vorA 2-ketoisovalerat 20.0 1.4E+02 0.0031 24.5 3.5 24 44-67 259-282 (390)
No 1
>PRK11538 ribosome-associated protein; Provisional
Probab=100.00 E-value=3.4e-33 Score=190.43 Aligned_cols=86 Identities=28% Similarity=0.487 Sum_probs=79.8
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHHhhhhhccccCCCCCc
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQRQREVGAKQMMLPSV 87 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~v 87 (109)
++++.+ .++++|+++||+||++|||++.|++|||||||||+|.||++|||++|.+.+++.+ . .++++
T Consensus 3 ~~~~~~------~i~~~l~dkKa~DI~vlDv~~~~~~~Dy~VIatg~S~rh~~aia~~v~~~~k~~~----~---~~~~~ 69 (105)
T PRK11538 3 GKALQD------FVIDKIDDLKGQDIIALDVQGKSSITDCMIICTGTSSRHVMSIADHVVQESRAAG----L---LPLGV 69 (105)
T ss_pred HHHHHH------HHHHHHHHcCCCCeEEEECCCCCcccCEEEEEEeCCHHHHHHHHHHHHHHHHHcC----C---CCCcc
Confidence 355666 9999999999999999999999999999999999999999999999999998874 3 46799
Q ss_pred ccCCCCCeEEEEcCCEEEE
Q 033883 88 QGQDTGKWVIIDSGLCRIL 106 (109)
Q Consensus 88 EG~~~~~WvllD~GdiVVh 106 (109)
||.++++|+|+|||+||||
T Consensus 70 eG~~~~~WillD~g~ivVH 88 (105)
T PRK11538 70 EGENAADWIVVDLGDVIVH 88 (105)
T ss_pred cCCCCCCEEEEeCCCEEEE
Confidence 9999999999999999999
No 2
>COG0799 Uncharacterized homolog of plant Iojap protein [Function unknown]
Probab=100.00 E-value=2.7e-33 Score=193.43 Aligned_cols=82 Identities=37% Similarity=0.543 Sum_probs=77.3
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEE
Q 033883 18 MTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVI 97 (109)
Q Consensus 18 i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~Wvl 97 (109)
++.++++|+|+||+||++|||+++|++|||||||||+|.||++|||+++.+++|+.+ . .+.++||..+++|+|
T Consensus 7 ~~~i~~alddkKAeDIv~lDv~~~s~~tDyfVIatg~s~rhv~Aiad~i~~~~k~~g----~---~~~~~EG~~~~~Wvl 79 (115)
T COG0799 7 LEVIVEALDDKKAEDIVVLDVSGKSSLTDYFVIATGNSSRHVKAIADNVKEELKEAG----E---VPLRIEGLSEGEWVL 79 (115)
T ss_pred HHHHHHHHHhccCCCeEEEEccCCcccccEEEEEEeCchHHHHHHHHHHHHHHHHcC----C---CcccccCCCcCCEEE
Confidence 349999999999999999999999999999999999999999999999999998774 3 467999999999999
Q ss_pred EEcCCEEEE
Q 033883 98 IDSGLCRIL 106 (109)
Q Consensus 98 lD~GdiVVh 106 (109)
+|+||||||
T Consensus 80 iD~GdivVH 88 (115)
T COG0799 80 IDLGDIVVH 88 (115)
T ss_pred EecCcEEEE
Confidence 999999999
No 3
>TIGR00090 iojap_ybeB iojap-like ribosome-associated protein. This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown.
Probab=100.00 E-value=1.3e-32 Score=185.59 Aligned_cols=82 Identities=34% Similarity=0.506 Sum_probs=77.5
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEE
Q 033883 18 MTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVI 97 (109)
Q Consensus 18 i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~Wvl 97 (109)
++.++++|+++||+||++|||++.+++|||||||||+|+||++|||++|.+.+|+.+ . .++++||.++++|+|
T Consensus 2 ~~~i~~~l~~kka~dI~vldv~~~~~~~dy~VI~Tg~S~rh~~aia~~v~~~~k~~~----~---~~~~~EG~~~~~Wil 74 (99)
T TIGR00090 2 LELIVEALDDKKAEDIVVLDVRGKSSIADYFVIASGTSSRHVKAIADNVEEELKEAG----L---KPLGVEGLEEGDWVL 74 (99)
T ss_pred HHHHHHHHHHcCCCCEEEEECCCCCcccCEEEEEEeCCHHHHHHHHHHHHHHHHHcC----C---CcccccCCCCCCEEE
Confidence 468999999999999999999999999999999999999999999999999998874 3 467999999999999
Q ss_pred EEcCCEEEE
Q 033883 98 IDSGLCRIL 106 (109)
Q Consensus 98 lD~GdiVVh 106 (109)
+|||+|+||
T Consensus 75 lD~g~ivVH 83 (99)
T TIGR00090 75 VDLGDVVVH 83 (99)
T ss_pred EECCCEEEE
Confidence 999999999
No 4
>PF02410 Oligomerisation: Oligomerisation domain; InterPro: IPR004394 The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. Maize has two RNA polymerases in plastids, but the plastid-encoded one, similar to bacterial RNA polymerases, is missing in iojap mutants. The role of iojap in chloroplast development, and the role of its bacterial orthologs modeled here, is unclear [, ]. This entry contains the bacterial protein YbeB (P0AAT6 from SWISSPROT), which has been shown to comigrate with the mature 50S ribosome subunit. Therefore it either represents a novel ribosome-associated protein or it is associated with a different oligomeric complex that comigrates with ribosomal particles [].; PDB: 2O5A_A 2ID1_B 3UPS_A.
Probab=99.97 E-value=9.1e-31 Score=176.32 Aligned_cols=82 Identities=35% Similarity=0.586 Sum_probs=72.1
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHH-HHhhhhhccccCCCCCcccCCCCCeE
Q 033883 18 MTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKA-KQRQREVGAKQMMLPSVQGQDTGKWV 96 (109)
Q Consensus 18 i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~l-k~~~~~~~~~~~~~~~vEG~~~~~Wv 96 (109)
++.++++|+++||+||++||+++.|++|||||||||+|+||++|+|++|.+.+ ++.+ . .++++||.++++|+
T Consensus 2 ~~~i~~~l~~~k~~dI~v~dv~~~~~~~dy~II~T~~S~rh~~aia~~v~~~~~k~~~----~---~~~~~eG~~~~~W~ 74 (100)
T PF02410_consen 2 LEEIVEALEDKKAEDIVVLDVREKSSWADYFIIATGRSERHVRAIADEVEKALKKEYG----E---RPLRIEGLDESDWV 74 (100)
T ss_dssp HHHHHHHHHHTT-EEEEEEEGCTTBSS-SEEEEEEESSHHHHHHHHHHHHHHH-HHTT-----------EEESTTTTSEE
T ss_pred HHHHHHHHHHcCCCCeEEEECCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHHcC----C---cccccCCCCCCCEE
Confidence 56899999999999999999999999999999999999999999999999999 4432 2 47899999999999
Q ss_pred EEEcCCEEEE
Q 033883 97 IIDSGLCRIL 106 (109)
Q Consensus 97 llD~GdiVVh 106 (109)
++|||+|+||
T Consensus 75 lvD~g~ivVH 84 (100)
T PF02410_consen 75 LVDYGDIVVH 84 (100)
T ss_dssp EEEESSEEEE
T ss_pred EEcccEEEEE
Confidence 9999999999
No 5
>KOG3212 consensus Uncharacterized conserved protein related to IojAP [Function unknown]
Probab=99.86 E-value=1.9e-21 Score=144.01 Aligned_cols=86 Identities=36% Similarity=0.573 Sum_probs=78.3
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEE
Q 033883 18 MTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVI 97 (109)
Q Consensus 18 i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~Wvl 97 (109)
++.++++|.+.+|.||+|+-+.+.+.|+||+|||||+|.||++|+|+++...+|-+.. .|. ..+++||.++++|++
T Consensus 71 ve~vv~lLrdenadDVfVi~vpeem~y~dh~VIcSgrs~rhl~aiAe~lv~m~Kik~~-kgd---~hvriegk~s~dW~v 146 (208)
T KOG3212|consen 71 VEEVVKLLRDENADDVFVIPVPEEMFYADHTVICSGRSDRHLRAIAEALVYMAKIKSQ-KGD---KHVRIEGKQSSDWIV 146 (208)
T ss_pred HHHHHHHHHhcccCceEEEeccccceeeeeEEEEecCchHHHHHHHHHHHHHHHHhhc-CCC---cccccccccCCCeEE
Confidence 7899999999999999999999999999999999999999999999999999987621 133 466999999999999
Q ss_pred EEcCCEEEEc
Q 033883 98 IDSGLCRILN 107 (109)
Q Consensus 98 lD~GdiVVh~ 107 (109)
+|||.++||-
T Consensus 147 ~D~g~~vvH~ 156 (208)
T KOG3212|consen 147 IDYGKFVVHA 156 (208)
T ss_pred EEeceEEEEe
Confidence 9999999994
No 6
>PRK09271 flavodoxin; Provisional
Probab=84.98 E-value=5.1 Score=28.24 Aligned_cols=58 Identities=16% Similarity=0.189 Sum_probs=34.8
Q ss_pred CCCcccchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC------C--cccEEEEEEcC-----CHHHHHHHHHHHH
Q 033883 1 MTGVTKESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC------D--WTDYMVIATGR-----STWHVKNIAQAII 67 (109)
Q Consensus 1 ~~~~~~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~------~--~aDyfVI~Ta~-----S~rh~~ala~~i~ 67 (109)
|||.| +.+++ .+++.|.+. +.++.+.++.... . -+|.++|+|.+ -+..++...+.+.
T Consensus 10 ~tGnT---e~~A~------~ia~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~~d~vilgt~T~~~G~~p~~~~~f~~~l~ 79 (160)
T PRK09271 10 LSGNT---REVAR------EIEERCEEA-GHEVDWVETDVQTLAEYPLDPEDYDLYLLGTWTDNAGRTPPEMKRFIAELA 79 (160)
T ss_pred CCchH---HHHHH------HHHHHHHhC-CCeeEEEecccccccccccCcccCCEEEEECcccCCCcCCHHHHHHHHHHH
Confidence 45554 57777 888888764 4467777764421 1 24889999843 2334666655554
Q ss_pred H
Q 033883 68 Y 68 (109)
Q Consensus 68 ~ 68 (109)
+
T Consensus 80 ~ 80 (160)
T PRK09271 80 E 80 (160)
T ss_pred H
Confidence 3
No 7
>PRK05568 flavodoxin; Provisional
Probab=78.62 E-value=8.5 Score=26.01 Aligned_cols=52 Identities=15% Similarity=0.267 Sum_probs=35.3
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC----CcccEEEEEEcCCH------HHHHHHHHHH
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC----DWTDYMVIATGRST------WHVKNIAQAI 66 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~----~~aDyfVI~Ta~S~------rh~~ala~~i 66 (109)
++.+++ .+++.+.+ .+.++.++|+.+.. .-+|.+|++|..-. ..++...+.+
T Consensus 15 T~~~a~------~i~~~~~~-~g~~v~~~~~~~~~~~~~~~~d~iilgsp~y~~~~~~~~~~~~f~~~~ 76 (142)
T PRK05568 15 TEAMAN------LIAEGAKE-NGAEVKLLNVSEASVDDVKGADVVALGSPAMGDEVLEEGEMEPFVESI 76 (142)
T ss_pred HHHHHH------HHHHHHHH-CCCeEEEEECCCCCHHHHHhCCEEEEECCccCcccccchhHHHHHHHh
Confidence 346777 77787754 55689999998853 24699999997643 2455554444
No 8
>PF00258 Flavodoxin_1: Flavodoxin; InterPro: IPR008254 This domain is found in a number of proteins including flavodoxin and nitric-oxide synthase. Flavodoxins are electron-transfer proteins that function in various electron transport systems. They bind one FMN molecule, which serves as a redox-active prosthetic group [] and are functionally interchangeable with ferredoxins. They have been isolated from prokaryotes, cyanobacteria, and some eukaryotic algae. Nitric oxide synthase (1.14.13.39 from EC) produces nitric oxide from L-arginie and NADPH. Nitric oxide acts as a messenger molecule in the body.; GO: 0010181 FMN binding, 0016491 oxidoreductase activity; PDB: 2WC1_A 2FVX_A 2FOX_A 6NUL_A 1FVX_A 2FAX_A 1FLN_A 1FLA_A 4NLL_A 2FDX_A ....
Probab=77.78 E-value=3.3 Score=28.00 Aligned_cols=39 Identities=15% Similarity=0.314 Sum_probs=29.6
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCC------cccEEEEEEc
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCD------WTDYMVIATG 53 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~------~aDyfVI~Ta 53 (109)
++.+++ .|++.|.+ ++-++.++|+.+... -.+++++++.
T Consensus 10 te~~A~------~ia~~l~~-~g~~~~~~~~~~~~~~~~~~~~~~~~i~~~s 54 (143)
T PF00258_consen 10 TEKMAE------AIAEGLRE-RGVEVRVVDLDDFDDSPSDLSEYDLLIFGVS 54 (143)
T ss_dssp HHHHHH------HHHHHHHH-TTSEEEEEEGGGSCHHHHHHCTTSEEEEEEE
T ss_pred HHHHHH------HHHHHHHH-cCCceeeechhhhhhhhhhhhhhceeeEeec
Confidence 458898 99999988 777899999998762 2466666554
No 9
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=76.63 E-value=9 Score=27.63 Aligned_cols=39 Identities=15% Similarity=0.167 Sum_probs=28.0
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC--Cc--ccEEEEEEcC
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC--DW--TDYMVIATGR 54 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~--~~--aDyfVI~Ta~ 54 (109)
++.+++ .|++.|.. +.++.++++.+.. .+ +|.+||+++.
T Consensus 14 T~~iA~------~Ia~~l~~--g~~v~~~~~~~~~~~~l~~yD~vIlGspi 56 (177)
T PRK11104 14 TRKIAS------YIASELKE--GIQCDVVNLHRIEEPDLSDYDRVVIGASI 56 (177)
T ss_pred HHHHHH------HHHHHhCC--CCeEEEEEhhhcCccCHHHCCEEEEECcc
Confidence 346666 77777764 6788888988754 22 6999999875
No 10
>PRK06756 flavodoxin; Provisional
Probab=76.07 E-value=13 Score=25.41 Aligned_cols=44 Identities=18% Similarity=0.312 Sum_probs=29.8
Q ss_pred CCCcccchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC-----CcccEEEEEEcC
Q 033883 1 MTGVTKESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC-----DWTDYMVIATGR 54 (109)
Q Consensus 1 ~~~~~~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~-----~~aDyfVI~Ta~ 54 (109)
|||.| +.+++ .+++.+.+ .+.++.++|+.+.. .-+|.++++|..
T Consensus 11 ~tGnT---e~vA~------~ia~~l~~-~g~~v~~~~~~~~~~~~~~~~~d~vi~gspt 59 (148)
T PRK06756 11 MSGNT---EEMAD------HIAGVIRE-TENEIEVIDIMDSPEASILEQYDGIILGAYT 59 (148)
T ss_pred CCchH---HHHHH------HHHHHHhh-cCCeEEEeehhccCCHHHHhcCCeEEEEeCC
Confidence 34544 47777 77887764 56678888886542 235999999844
No 11
>PRK05569 flavodoxin; Provisional
Probab=72.84 E-value=8.9 Score=25.92 Aligned_cols=52 Identities=12% Similarity=0.118 Sum_probs=36.4
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC----CcccEEEEEEcC---C---HHHHHHHHHHH
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC----DWTDYMVIATGR---S---TWHVKNIAQAI 66 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~----~~aDyfVI~Ta~---S---~rh~~ala~~i 66 (109)
++.+++ .+++.+.+.. .++.++++.+.. .-+|.++++|.. . +++++.+.+.+
T Consensus 15 T~~iA~------~i~~~~~~~g-~~v~~~~~~~~~~~~~~~~d~iilgsPty~~~~~~~~~~~~~~~~l 76 (141)
T PRK05569 15 VEVLAN------TIADGAKEAG-AEVTIKHVADAKVEDVLEADAVAFGSPSMDNNNIEQEEMAPFLDQF 76 (141)
T ss_pred HHHHHH------HHHHHHHhCC-CeEEEEECCcCCHHHHhhCCEEEEECCCcCCCcCChHHHHHHHHHh
Confidence 457777 8888886654 478999998854 257999999964 1 14566666654
No 12
>TIGR01755 flav_wrbA NAD(P)H:quinone oxidoreductase, type IV. This model represents a protein, WrbA, related to and slightly larger than flavodoxin. It was just shown, in E. coli and Archaeoglobus fulgidus (and previously for some eukaryotic homologs) to act as fourth type of NAD(P)H:quinone oxidoreductase. In E. coli, this protein was earlier reported to be produced during stationary phase, bind to the trp repressor, and make trp operon repression more efficient. WrbA does not interact with the trp operator by itself. Members are found in species in which homologs of the E. coli trp operon repressor TrpR are not detected.
Probab=72.76 E-value=13 Score=27.11 Aligned_cols=53 Identities=23% Similarity=0.247 Sum_probs=36.0
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC------------------------CcccEEEEEEcC----CHHHH
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC------------------------DWTDYMVIATGR----STWHV 59 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~------------------------~~aDyfVI~Ta~----S~rh~ 59 (109)
++.|++ .+++.+.+..+-++.++++++.. ..+|.+|++|.. =..++
T Consensus 14 T~~lA~------~ia~g~~~~~g~ev~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aD~ii~GSPty~g~~~~~l 87 (197)
T TIGR01755 14 IETMAR------AVAEGAREVDGAEVVVKRVPETVPEEVAEKSHGKTDQTAPVATPQELADYDAIIFGTPTRFGNMASQM 87 (197)
T ss_pred HHHHHH------HHHHHHHhcCCCEEEEEeccccCcHHHHHhccCCcccCCccCCHHHHHHCCEEEEEecccccCccHHH
Confidence 457777 88888876656689999987532 247999999965 33445
Q ss_pred HHHHHHH
Q 033883 60 KNIAQAI 66 (109)
Q Consensus 60 ~ala~~i 66 (109)
+...+.+
T Consensus 88 k~fld~~ 94 (197)
T TIGR01755 88 RNFLDQT 94 (197)
T ss_pred HHHHHhc
Confidence 5554444
No 13
>PRK09267 flavodoxin FldA; Validated
Probab=71.67 E-value=7.1 Score=27.41 Aligned_cols=42 Identities=19% Similarity=0.252 Sum_probs=27.5
Q ss_pred CCCcccchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCC----cccEEEEEEcC
Q 033883 1 MTGVTKESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCD----WTDYMVIATGR 54 (109)
Q Consensus 1 ~~~~~~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~----~aDyfVI~Ta~ 54 (109)
|||.| +.+++ .|++.+.. .++.++|+.+... -.|.+||++..
T Consensus 11 ~tGnT---~~vA~------~Ia~~l~~---~~~~~~~~~~~~~~~l~~~d~vi~g~pt 56 (169)
T PRK09267 11 DTGNT---EDIAK------MIQKKLGK---DVADVVDIAKASKEDFEAYDLLILGIPT 56 (169)
T ss_pred CCChH---HHHHH------HHHHHhCC---CceEEEEhhhCCHhhHhhCCEEEEEecC
Confidence 34554 46677 77777653 3678888887542 26889998654
No 14
>COG4576 CcmL Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]
Probab=71.18 E-value=0.53 Score=31.20 Aligned_cols=34 Identities=9% Similarity=0.136 Sum_probs=26.9
Q ss_pred hCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHH
Q 033883 27 DLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKN 61 (109)
Q Consensus 27 dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~a 61 (109)
+.+....+++|.-+ ..+-+|.++++|+|.||..+
T Consensus 35 e~~~~~eVA~DsvG-AG~gE~VLvs~GSaAR~~~~ 68 (89)
T COG4576 35 EPDGQCEVAIDSVG-AGTGEWVLLSRGSSARQAHG 68 (89)
T ss_pred CcccceEEEEeccc-CCcCcEEEEecchHHHHhhc
Confidence 45566788999444 56889999999999999764
No 15
>PRK06703 flavodoxin; Provisional
Probab=69.28 E-value=16 Score=25.16 Aligned_cols=41 Identities=10% Similarity=-0.032 Sum_probs=29.1
Q ss_pred chHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC----CcccEEEEEEcC
Q 033883 7 ESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC----DWTDYMVIATGR 54 (109)
Q Consensus 7 ~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~----~~aDyfVI~Ta~ 54 (109)
.++.+++ .+++.+. ..+.++.+.|+.+.. .-.|.+||+|..
T Consensus 14 nT~~iA~------~ia~~l~-~~g~~v~~~~~~~~~~~~l~~~d~viigspt 58 (151)
T PRK06703 14 NTEDIAD------LIKVSLD-AFDHEVVLQEMDGMDAEELLAYDGIILGSYT 58 (151)
T ss_pred hHHHHHH------HHHHHHH-hcCCceEEEehhhCCHHHHhcCCcEEEEECC
Confidence 3557888 8888775 456678888887643 245899998843
No 16
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=69.25 E-value=13 Score=24.69 Aligned_cols=40 Identities=13% Similarity=0.189 Sum_probs=29.3
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC----CcccEEEEEEcC
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC----DWTDYMVIATGR 54 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~----~~aDyfVI~Ta~ 54 (109)
++.+++ .+++.+.+ .+-++.++++.+.. .-+|.+|++|..
T Consensus 12 T~~~A~------~i~~~~~~-~g~~v~~~~~~~~~~~~l~~~d~iilgspt 55 (140)
T TIGR01753 12 TEEMAN------IIAEGLKE-AGAEVDLLEVADADAEDLLSYDAVLLGCST 55 (140)
T ss_pred HHHHHH------HHHHHHHh-cCCeEEEEEcccCCHHHHhcCCEEEEEcCC
Confidence 457777 77787766 45578899988753 136999999866
No 17
>TIGR01485 SPP_plant-cyano sucrose-6F-phosphate phosphohydrolase. Sucrose phosphate synthase (SPS), the prior step in the biosynthesis of sucrose contains a domain which exhibits considerable similarity to SPP albeit without conservation of the catalytic residues. The catalytic machinery of the synthase resides in another domain. It seems likely that the phosphatase-like domain is involved in substrate binding, possibly binding both substrates in a "product-like" orientation prior to ligation by the synthase catalytic domain.
Probab=66.28 E-value=15 Score=27.36 Aligned_cols=17 Identities=35% Similarity=0.536 Sum_probs=13.8
Q ss_pred EEEEEEcCCHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIA 63 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala 63 (109)
.||+||||+...++.+.
T Consensus 39 ~fv~aTGR~~~~~~~~~ 55 (249)
T TIGR01485 39 LLVYSTGRSPHSYKELQ 55 (249)
T ss_pred eEEEEcCCCHHHHHHHH
Confidence 79999999987776553
No 18
>PRK03669 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=62.08 E-value=9 Score=28.93 Aligned_cols=19 Identities=5% Similarity=0.228 Sum_probs=15.2
Q ss_pred EEEEEEcCCHHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~ 65 (109)
.|||||||+...++.+++.
T Consensus 42 ~~viaTGR~~~~i~~~~~~ 60 (271)
T PRK03669 42 PVILCSSKTAAEMLPLQQT 60 (271)
T ss_pred eEEEEcCCCHHHHHHHHHH
Confidence 5899999999887766544
No 19
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=61.77 E-value=42 Score=21.82 Aligned_cols=64 Identities=19% Similarity=0.174 Sum_probs=39.7
Q ss_pred CcccchHHHHhcCCCHHHHHHH---------HHhCCCCCeEEEecCCCC--------CcccEEEEEEcCCHHHHHHHHHH
Q 033883 3 GVTKESETLARKRPSMTSVVNP---------TFDLKADDVKVIPVGEKC--------DWTDYMVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 3 ~~~~~~~~l~~~~~~i~~i~~~---------l~dkKa~dI~vlDv~~~~--------~~aDyfVI~Ta~S~rh~~ala~~ 65 (109)
|+|..+-.|+. .+++. ++-....|++++|..+-. ..+|++++.+-.+..-++++.+.
T Consensus 12 gkt~~~~~la~------~~~~~~~~~~~l~d~d~~~~~D~IIiDtpp~~~~~~~~~l~~aD~vlvvv~~~~~s~~~~~~~ 85 (106)
T cd03111 12 GATTLAANLAV------ALAKEAGRRVLLVDLDLQFGDDYVVVDLGRSLDEVSLAALDQADRVFLVTQQDLPSIRNAKRL 85 (106)
T ss_pred cHHHHHHHHHH------HHHhcCCCcEEEEECCCCCCCCEEEEeCCCCcCHHHHHHHHHcCeEEEEecCChHHHHHHHHH
Confidence 45555555655 44443 334445577777877642 25788888888888887777654
Q ss_pred HHHHHHHh
Q 033883 66 IIYKAKQR 73 (109)
Q Consensus 66 i~~~lk~~ 73 (109)
+ +.+++.
T Consensus 86 ~-~~l~~~ 92 (106)
T cd03111 86 L-ELLRVL 92 (106)
T ss_pred H-HHHHHc
Confidence 3 445443
No 20
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=60.13 E-value=35 Score=20.37 Aligned_cols=47 Identities=4% Similarity=-0.002 Sum_probs=34.6
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCC-CCcccEEEEEEcCCHHHHHHHHHHH
Q 033883 18 MTSVVNPTFDLKADDVKVIPVGEK-CDWTDYMVIATGRSTWHVKNIAQAI 66 (109)
Q Consensus 18 i~~i~~~l~dkKa~dI~vlDv~~~-~~~aDyfVI~Ta~S~rh~~ala~~i 66 (109)
+..+++.+.+ +.||+-+.-+.. ...+..+|.+..++..|+..+.+.+
T Consensus 12 l~~~~~~i~~--~~nI~~~~~~~~~~~~~~v~v~ie~~~~~~~~~i~~~L 59 (68)
T cd04885 12 LKKFLELLGP--PRNITEFHYRNQGGDEARVLVGIQVPDREDLAELKERL 59 (68)
T ss_pred HHHHHHHhCC--CCcEEEEEEEcCCCCceEEEEEEEeCCHHHHHHHHHHH
Confidence 4556777766 778887766654 4578889999999998988776654
No 21
>PF04456 DUF503: Protein of unknown function (DUF503); InterPro: IPR007546 This is a family of conserved hypothetical bacterial proteins, including TT1725 from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579), which has a ferredoxin-like alpha+beta-sandwich fold [].; PDB: 1J27_A.
Probab=60.03 E-value=35 Score=22.31 Aligned_cols=43 Identities=16% Similarity=0.103 Sum_probs=32.5
Q ss_pred CCeEEEecCCCC--CcccEEEEEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 31 DDVKVIPVGEKC--DWTDYMVIATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 31 ~dI~vlDv~~~~--~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
-||.+.++.... ..+..-+.+-|+|..|+..+.+.+.+++...
T Consensus 35 fnvSvaEv~~~D~~q~a~lg~a~vs~~~~~~~~~l~~v~~~ie~~ 79 (90)
T PF04456_consen 35 FNVSVAEVGHQDSWQRAVLGFAVVSNSRAHAEQILDKVERFIEEN 79 (90)
T ss_dssp SS-EEEEEE-TT-SSEEEEEEEEEES-HHHHHHHHHHHHHHHHHS
T ss_pred CCeEEEEecCCCcccEEEEEEEEEECCHHHHHHHHHHHHHHHHhC
Confidence 388888887764 4567777888999999999999999998543
No 22
>PRK08105 flavodoxin; Provisional
Probab=59.70 E-value=25 Score=24.57 Aligned_cols=44 Identities=14% Similarity=0.218 Sum_probs=32.1
Q ss_pred ccchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCCc----ccEEEEEEcCC
Q 033883 5 TKESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCDW----TDYMVIATGRS 55 (109)
Q Consensus 5 ~~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~~----aDyfVI~Ta~S 55 (109)
|-.++.+++ .+++.|.+. +-++.++++.+...+ ++++|+++.+-
T Consensus 12 tGnte~~A~------~l~~~l~~~-g~~~~~~~~~~~~~~~~~~~~~vi~~~sT~ 59 (149)
T PRK08105 12 YGNALLVAE------EAEAILTAQ-GHEVTLFEDPELSDWQPYQDELVLVVTSTT 59 (149)
T ss_pred chHHHHHHH------HHHHHHHhC-CCceEEechhhCCchhcccCCeEEEEECCC
Confidence 445678888 888888754 677888888776543 47888887664
No 23
>TIGR01754 flav_RNR ribonucleotide reductase-associated flavodoxin, putative. This model represents a family of proteins found immediately downstream of ribonucleotide reductase genes in Xyella fastidiosa and some Gram-positive bacteria. It appears to be a highly divergent flavodoxin of the short chain type, more like the flavodoxins of the sulfate-reducing genus Desulfovibrio than like the NifF flavodoxins associated with nitrogen fixation.
Probab=59.14 E-value=17 Score=24.79 Aligned_cols=44 Identities=20% Similarity=0.211 Sum_probs=25.3
Q ss_pred CCCcccchHHHHhcCCCHHHHHHHHHhCCCCCeE-EEecCCCC----Cc--ccEEEEEEcC
Q 033883 1 MTGVTKESETLARKRPSMTSVVNPTFDLKADDVK-VIPVGEKC----DW--TDYMVIATGR 54 (109)
Q Consensus 1 ~~~~~~~~~~l~~~~~~i~~i~~~l~dkKa~dI~-vlDv~~~~----~~--aDyfVI~Ta~ 54 (109)
|||.| +.+++ .+++.|.+. +.++. +.++.+.. .+ +|.+||+|..
T Consensus 10 ~tGnT---e~iA~------~ia~~l~~~-g~~v~~~~~~~~~~~~~~~~~~~d~iilgs~t 60 (140)
T TIGR01754 10 LSGNT---EEVAF------MIQDYLQKD-GHEVDILHRIGTLADAPLDPENYDLVFLGTWT 60 (140)
T ss_pred CCChH---HHHHH------HHHHHHhhC-CeeEEecccccccccCcCChhhCCEEEEEcCe
Confidence 35554 47777 777777543 44454 45555321 22 4778888853
No 24
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=59.12 E-value=35 Score=20.14 Aligned_cols=50 Identities=20% Similarity=0.205 Sum_probs=37.5
Q ss_pred CHHHHHHHHHhCCCCCeEEEecCCC-CCcccEEEEEEcCCHHHHHHHHHHHH
Q 033883 17 SMTSVVNPTFDLKADDVKVIPVGEK-CDWTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 17 ~i~~i~~~l~dkKa~dI~vlDv~~~-~~~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
.+..++.++.+. +-+|.-++.+.. ..++..-+.....+..|+..+.+.++
T Consensus 12 ~L~~i~~~i~~~-~~nI~~v~~~~~~~~~~~~~~~vev~~~~~l~~i~~~L~ 62 (74)
T cd04887 12 MLGRVTTAIGEA-GGDIGAIDLVEQGRDYTVRDITVDAPSEEHAETIVAAVR 62 (74)
T ss_pred hHHHHHHHHHHc-CCcEEEEEEEEecCCEEEEEEEEEcCCHHHHHHHHHHHh
Confidence 455788888776 556888777654 46777777889999999998777654
No 25
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=59.08 E-value=15 Score=29.68 Aligned_cols=45 Identities=16% Similarity=0.155 Sum_probs=33.0
Q ss_pred CCCcccchHHHHhcCCCHHHHHHHHHh-CCCCCeEEEecCCCC--C------cccEEEEEEcC
Q 033883 1 MTGVTKESETLARKRPSMTSVVNPTFD-LKADDVKVIPVGEKC--D------WTDYMVIATGR 54 (109)
Q Consensus 1 ~~~~~~~~~~l~~~~~~i~~i~~~l~d-kKa~dI~vlDv~~~~--~------~aDyfVI~Ta~ 54 (109)
|||.| +.+++ .+++.+.+ ..+-++.++|+.+.. . -+|.+|++|.+
T Consensus 257 ~~GnT---e~mA~------~ia~g~~~~~~g~~v~~~~~~~~~~~~i~~~~~~~d~ii~GspT 310 (394)
T PRK11921 257 MWNST---RRMAE------AIAEGIKKANKDVTVKLYNSAKSDKNDIITEVFKSKAILVGSST 310 (394)
T ss_pred CchHH---HHHHH------HHHHHHhhcCCCCeEEEEECCCCCHHHHHHHHHhCCEEEEECCC
Confidence 55655 47777 88888864 456689999998753 1 28899999876
No 26
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=58.44 E-value=11 Score=28.07 Aligned_cols=18 Identities=28% Similarity=0.338 Sum_probs=14.3
Q ss_pred EEEEEEcCCHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQ 64 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~ 64 (109)
.|+|||||+...++.+++
T Consensus 38 ~~~iaTGR~~~~~~~~~~ 55 (270)
T PRK10513 38 NVVLTTGRPYAGVHRYLK 55 (270)
T ss_pred EEEEecCCChHHHHHHHH
Confidence 599999999987765543
No 27
>TIGR01487 SPP-like sucrose-phosphate phosphatase-like hydrolase, Archaeal. TIGR01482, in turn, is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases.
Probab=57.51 E-value=12 Score=27.10 Aligned_cols=18 Identities=17% Similarity=0.231 Sum_probs=14.3
Q ss_pred EEEEEEcCCHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQ 64 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~ 64 (109)
.|+|||||+...++.+++
T Consensus 36 ~~~~~TGR~~~~~~~~~~ 53 (215)
T TIGR01487 36 PVSLVTGNTVPFARALAV 53 (215)
T ss_pred EEEEEcCCcchhHHHHHH
Confidence 569999999988776643
No 28
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=57.50 E-value=32 Score=24.99 Aligned_cols=53 Identities=19% Similarity=0.219 Sum_probs=37.2
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC------------------------CcccEEEEEEcC----CHHHH
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC------------------------DWTDYMVIATGR----STWHV 59 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~------------------------~~aDyfVI~Ta~----S~rh~ 59 (109)
++.|++ .+++.+.+..+-++.++++++.- ..+|.+|++|.. =..++
T Consensus 15 T~~lA~------~ia~g~~~~~G~ev~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aD~ii~gsPty~g~~~~~l 88 (200)
T PRK03767 15 IETMAE------AVAEGAREVAGAEVTIKRVPETVPEEVAKKAGGKTDQAAPVATPDELADYDAIIFGTPTRFGNMAGQM 88 (200)
T ss_pred HHHHHH------HHHHHHhhcCCcEEEEEeccccCCHHHHHhcCCCcccCCCccCHHHHHhCCEEEEEecccCCCchHHH
Confidence 557777 88888877567789999996421 257999999965 34455
Q ss_pred HHHHHHH
Q 033883 60 KNIAQAI 66 (109)
Q Consensus 60 ~ala~~i 66 (109)
++..+.+
T Consensus 89 k~fld~~ 95 (200)
T PRK03767 89 RNFLDQT 95 (200)
T ss_pred HHHHHHh
Confidence 5555544
No 29
>PF06778 Chlor_dismutase: Chlorite dismutase; InterPro: IPR010644 This family contains chlorite dismutase enzymes of bacterial and archaeal origin. This enzyme catalyses the disproportionation of chlorite into chloride and oxygen [, ]. Note that many family members are hypothetical proteins.; PDB: 2VXH_B 3NN4_A 3NN2_A 3NN3_D 3NN1_E 3QPI_A 3Q08_Q 3Q09_B 1T0T_V 1VDH_E ....
Probab=57.49 E-value=78 Score=23.59 Aligned_cols=42 Identities=10% Similarity=-0.118 Sum_probs=34.2
Q ss_pred CCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHH
Q 033883 28 LKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYK 69 (109)
Q Consensus 28 kKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~ 69 (109)
.++.-+-+.++.+...=+|+|+...+.+..+++.+...+.+.
T Consensus 21 ~~~~~~~~Y~~~G~radaDl~~w~~~~~~~~lq~~~~~l~~t 62 (193)
T PF06778_consen 21 GDGVLRGVYSVSGLRADADLMFWWHAPDLEDLQEAERRLRRT 62 (193)
T ss_dssp TTTEEEEEEEETTTSTT-SEEEEEEESSHHHHHHHHHHHHHS
T ss_pred cCceEEEEEEeecccCCCcEEEEEeCCCHHHHHHHHHHHHhh
Confidence 344448899999999999999999999999999887776543
No 30
>PRK07308 flavodoxin; Validated
Probab=57.00 E-value=33 Score=23.41 Aligned_cols=42 Identities=21% Similarity=0.154 Sum_probs=27.7
Q ss_pred chHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC----CcccEEEEEEcCC
Q 033883 7 ESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC----DWTDYMVIATGRS 55 (109)
Q Consensus 7 ~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~----~~aDyfVI~Ta~S 55 (109)
.++.+++ .+++.+.+ .+.++.+.|+.+.. .-.|.+||++.+-
T Consensus 14 nTe~iA~------~ia~~l~~-~g~~~~~~~~~~~~~~~l~~~d~vi~g~~t~ 59 (146)
T PRK07308 14 NTEEIAD------IVADKLRE-LGHDVDVDECTTVDASDFEDADIAIVATYTY 59 (146)
T ss_pred hHHHHHH------HHHHHHHh-CCCceEEEecccCCHhHhccCCEEEEEeCcc
Confidence 3457788 78888864 44567888887642 1247778877553
No 31
>PRK01158 phosphoglycolate phosphatase; Provisional
Probab=55.40 E-value=14 Score=26.63 Aligned_cols=17 Identities=24% Similarity=0.333 Sum_probs=13.2
Q ss_pred EEEEEEcCCHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIA 63 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala 63 (109)
.|+|||||+...++.++
T Consensus 38 ~~~iaTGR~~~~~~~~~ 54 (230)
T PRK01158 38 PVILATGNVLCFARAAA 54 (230)
T ss_pred EEEEEcCCchHHHHHHH
Confidence 68899999988666544
No 32
>PF07801 DUF1647: Protein of unknown function (DUF1647); InterPro: IPR012444 This entry consists of hypothetical proteins of unknown function.
Probab=55.36 E-value=27 Score=25.02 Aligned_cols=46 Identities=17% Similarity=0.168 Sum_probs=33.8
Q ss_pred HHHHHhCCCCC--eEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHH
Q 033883 22 VNPTFDLKADD--VKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 22 ~~~l~dkKa~d--I~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
++.|++.+..| -..+|+++...-.+-+|++||.|+-|.......+.
T Consensus 34 l~~Le~l~l~~~~~~~v~l~~~~~n~~~vvfVSa~S~~h~~~~~~~i~ 81 (142)
T PF07801_consen 34 LETLEDLKLLDNPGPFVDLSSSSKNSSDVVFVSATSDNHFNESMKSIS 81 (142)
T ss_pred HHHHhhhhhccCCCcceecccccccCCccEEEEEecchHHHHHHHHHH
Confidence 45555555443 37778888766677899999999999998876654
No 33
>smart00877 BMC Bacterial microcompartments are primitive organelles composed entirely of protein subunits. The prototypical bacterial microcompartment is the carboxysome, a protein shell for sequestering carbon fixation reactions. These proteins for hexameric structure.
Probab=54.84 E-value=42 Score=20.98 Aligned_cols=42 Identities=26% Similarity=0.237 Sum_probs=30.2
Q ss_pred hCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHH
Q 033883 27 DLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKA 70 (109)
Q Consensus 27 dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~l 70 (109)
-.|+-||.+++++..++ .-|+++.+| ....+++-.+...+.+
T Consensus 20 a~KaA~V~l~~~~~~~~-g~~~~~v~G-dvs~V~~Av~a~~~~~ 61 (75)
T smart00877 20 ALKAANVELVGYESIGG-GKVTVIITG-DVAAVRAAVEAGLEAA 61 (75)
T ss_pred HhhhcCcEEEEEEecCC-CEEEEEEEE-cHHHHHHHHHHHHHHH
Confidence 35777999999998876 579999999 4555555555555444
No 34
>TIGR00099 Cof-subfamily Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily. The members of this subfamily are restricted almost exclusively to bacteria (one sequences from S. pombe scores above trusted, while another is between trusted and noise). It is notable that no archaea are found in this group, the closest relations to the archaea found here being two Deinococcus sequences.
Probab=53.69 E-value=15 Score=27.24 Aligned_cols=19 Identities=47% Similarity=0.496 Sum_probs=13.9
Q ss_pred cEEEEEEcCCHHHHHHHHH
Q 033883 46 DYMVIATGRSTWHVKNIAQ 64 (109)
Q Consensus 46 DyfVI~Ta~S~rh~~ala~ 64 (109)
=.|+|||||+.+.++.+.+
T Consensus 33 ~~~~iaTGR~~~~~~~~~~ 51 (256)
T TIGR00099 33 IKVVLATGRPYKEVKNILK 51 (256)
T ss_pred CeEEEEeCCCHHHHHHHHH
Confidence 3689999999876655443
No 35
>PRK10976 putative hydrolase; Provisional
Probab=52.90 E-value=14 Score=27.53 Aligned_cols=18 Identities=39% Similarity=0.370 Sum_probs=13.8
Q ss_pred cEEEEEEcCCHHHHHHHH
Q 033883 46 DYMVIATGRSTWHVKNIA 63 (109)
Q Consensus 46 DyfVI~Ta~S~rh~~ala 63 (109)
-.|+|||||+...++.++
T Consensus 36 ~~~~iaTGR~~~~~~~~~ 53 (266)
T PRK10976 36 IHFVFATGRHHVDVGQIR 53 (266)
T ss_pred CEEEEEcCCChHHHHHHH
Confidence 468999999988665544
No 36
>TIGR01752 flav_long flavodoxin, long chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the long chain type, typical for nitrogen fixation but associated with pyruvate formate-lyase activation and cobalamin-dependent methionine synthase activity in E. coli.
Probab=52.54 E-value=29 Score=24.49 Aligned_cols=38 Identities=24% Similarity=0.359 Sum_probs=25.0
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC--C--cccEEEEEEcC
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC--D--WTDYMVIATGR 54 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~--~--~aDyfVI~Ta~ 54 (109)
++.+++ .|++.|.+ ..+.++|+.+.. . -.|.+|++|..
T Consensus 13 Te~vA~------~Ia~~l~~---~~~~i~~~~~~~~~~l~~~d~ii~gspt 54 (167)
T TIGR01752 13 TEGIAE------KIQKELGE---DDVDVFNIAKASKEDLNAYDKLILGTPT 54 (167)
T ss_pred HHHHHH------HHHHHhCC---CceEEEEcccCCHhHHhhCCEEEEEecC
Confidence 346666 66666653 457888887753 2 34888888865
No 37
>PF15601 Imm42: Immunity protein 42
Probab=52.26 E-value=14 Score=26.27 Aligned_cols=60 Identities=13% Similarity=0.205 Sum_probs=40.6
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeE--EEec----------C-CCCCcccEEEEEEcCCHHHHHHHHHHHHHH
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVK--VIPV----------G-EKCDWTDYMVIATGRSTWHVKNIAQAIIYK 69 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~--vlDv----------~-~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~ 69 (109)
.+++.++...++.|-+.+..+...+|+ +-|+ + ...+++||||-++|+ .-...+++.++..
T Consensus 52 ~~~~~~A~~eL~~I~~~l~~~~p~~ViWD~~dl~~~ppWg~~i~~~i~~L~~yFvt~dG~--~~f~~l~~a~~~a 124 (134)
T PF15601_consen 52 YEELEKALKELEEIRKELKKFPPSEVIWDIEDLSKQPPWGDNISPDITSLSDYFVTSDGK--DLFEVLFRALESA 124 (134)
T ss_pred HHHHHHHHHHHHHHHHHHhcCChhhheechhhcccCCCCcccCCCCCCcHHHHhcCcchh--hHHHHHHHHHHHH
Confidence 466677777888999999999988876 2233 1 124689999988775 3444555555444
No 38
>cd03130 GATase1_CobB Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase. Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase. CobB plays a role in cobalamin biosythesis catalyzing the conversion of cobyrinic acid to cobyrinic acid a,c-diamide. CobB belongs to the triad family of amidotransferases. Two of the three residues of the catalytic triad that are involved in glutamine binding, hydrolysis and transfer of the resulting ammonia to the acceptor substrate in other triad aminodotransferases are conserved in CobB.
Probab=51.83 E-value=66 Score=23.43 Aligned_cols=55 Identities=7% Similarity=0.014 Sum_probs=37.4
Q ss_pred CCHHHHHHHHHhCCCCCeEEEecC---CCCCcccEEEEEEcCCHHHHHHHHH--HHHHHHHH
Q 033883 16 PSMTSVVNPTFDLKADDVKVIPVG---EKCDWTDYMVIATGRSTWHVKNIAQ--AIIYKAKQ 72 (109)
Q Consensus 16 ~~i~~i~~~l~dkKa~dI~vlDv~---~~~~~aDyfVI~Ta~S~rh~~ala~--~i~~~lk~ 72 (109)
|.++.-.++|++ -+-+++.++.. .... +|.+||--|.++.++..|.+ .+.+.+++
T Consensus 11 f~y~e~~~~l~~-~G~~v~~~s~~~~~~l~~-~D~lilPGG~~~~~~~~L~~~~~~~~~i~~ 70 (198)
T cd03130 11 FYYPENLELLEA-AGAELVPFSPLKDEELPD-ADGLYLGGGYPELFAEELSANQSMRESIRA 70 (198)
T ss_pred cccHHHHHHHHH-CCCEEEEECCCCCCCCCC-CCEEEECCCchHHHHHHHHhhHHHHHHHHH
Confidence 566777888874 44567777763 3445 79999999888877777654 24555554
No 39
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=51.53 E-value=16 Score=27.04 Aligned_cols=17 Identities=24% Similarity=0.358 Sum_probs=12.8
Q ss_pred EEEEEEcCCHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIA 63 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala 63 (109)
.|+|||||+.+.++.++
T Consensus 38 ~~~iaTGR~~~~~~~~~ 54 (272)
T PRK10530 38 KVIIVTGRHHVAIHPFY 54 (272)
T ss_pred EEEEEcCCChHHHHHHH
Confidence 48999999987655443
No 40
>PF00936 BMC: BMC domain; InterPro: IPR000249 This domain is found in a variety of polyhedral organelle shell proteins, including CsoS1A, CsoS1B and CsoS1C of Thiobacillus neapolitanus (Halothiobacillus neapolitanus) and their orthologs from other bacteria. Some autotrophic and non-autotrophic organisms form polyhedral organelles, carboxysomes/enterosomes []. The best studied is the carboxysome of Halothiobacillus neapolitanus, which is composed of at least 9 proteins: six shell proteins, CsoS1A, CsoS1B, CsoS1C, Cso2A, Cso2B and CsoS3 (carbonic anhydrase) [], one protein of unknown function and the large and small subunits of RuBisCo (CbbL and Cbbs). Carboxysomes appear to be approximately 120 nm in diameter, most often observed as regular hexagons, with a solid interior bounded by a unilamellar protein shell. The interior is filled with type I RuBisCo, which is composed of 8 large subunits and 8 small subunits; it accounts for 60% of the carboxysomal protein, which amounts to approximately 300 molecules of enzyme per carboxysome. Carboxysomes are required for autotrophic growth at low CO2 concentrations and are thought to function as part of a CO2-concentrating mechanism [, ]. Polyhedral organelles, enterosomes, from non-autotrophic organisms are involved in coenzyme B12-dependent 1,2-propanediol utilisation (e.g., in Salmonella enterica []) and ethanolamine utilisation (e.g., in Salmonella typhimurium []). Genes needed for enterosome formation are located in the 1,2-propanediol utilisation pdu [, ] or ethanolamine utilisation eut [, ] operons, respectively. Although enterosomes of non-autotrophic organisms are apparently related to carboxysomes structurally, a functional relationship is uncertain. A role in CO2 concentration, similar to that of the carboxysome, is unlikely since there is no known association between CO2 and coenzyme B12-dependent 1,2-propanediol or ethanolamine utilisation []. It seems probable that entrosomes help protect the cells from reactive aldehyde species in the degradation pathways of 1,2-propanediol and ethanolamine [].; PDB: 3F56_C 3FCH_A 3I87_A 3GFH_B 3I82_A 3MPV_A 3IO0_A 4AXJ_B 3N79_A 2G13_A ....
Probab=50.99 E-value=28 Score=21.78 Aligned_cols=45 Identities=29% Similarity=0.318 Sum_probs=35.9
Q ss_pred hCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 27 DLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 27 dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
-.|+-||.+++++..+ -.-++++.+| ....+++-.+..++.++++
T Consensus 21 alKaa~V~l~~~~~~~-~g~~~~~i~G-~vs~V~~Av~a~~~~~~~~ 65 (75)
T PF00936_consen 21 ALKAANVELVEIELIC-GGKVTVIITG-DVSAVKAAVDAAEEAAGKK 65 (75)
T ss_dssp HHHHSSEEEEEEEEES-TTEEEEEEEE-SHHHHHHHHHHHHHHHHHT
T ss_pred HhhcCCEEEEEEEecC-CCeEEEEEEE-CHHHHHHHHHHHHHHHhhc
Confidence 3578899999999988 4688999999 7777777778777777663
No 41
>TIGR01482 SPP-subfamily Sucrose-phosphate phosphatase subfamily. catalyze the same reaction as SPP.
Probab=50.94 E-value=17 Score=26.01 Aligned_cols=18 Identities=28% Similarity=0.423 Sum_probs=14.2
Q ss_pred EEEEEEcCCHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQ 64 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~ 64 (109)
.|+|||||+...++.+++
T Consensus 33 ~~~~aTGR~~~~~~~~~~ 50 (225)
T TIGR01482 33 PVVLVTGNSVQFARALAK 50 (225)
T ss_pred EEEEEcCCchHHHHHHHH
Confidence 689999999887765543
No 42
>COG3565 Predicted dioxygenase of extradiol dioxygenase family [General function prediction only]
Probab=50.61 E-value=16 Score=25.91 Aligned_cols=21 Identities=29% Similarity=0.452 Sum_probs=16.9
Q ss_pred CcccCCCCCeEEEEc-C-CEEEE
Q 033883 86 SVQGQDTGKWVIIDS-G-LCRIL 106 (109)
Q Consensus 86 ~vEG~~~~~WvllD~-G-diVVh 106 (109)
-.||+....|+.+|+ | .++.|
T Consensus 28 ~~~GRstd~wvdfDfyGHQ~v~H 50 (138)
T COG3565 28 CKEGRSTDTWVDFDFYGHQVVAH 50 (138)
T ss_pred cccccccceEEEeeecccEEEEE
Confidence 468999999999998 5 55655
No 43
>TIGR02461 osmo_MPG_phos mannosyl-3-phosphoglycerate phosphatase. Members of this family are mannosyl-3-phosphoglycerate phosphatase (EC 3.1.3.70). It acts sequentially after mannosyl-3-phosphoglycerate synthase (EC 2.4.1.217) in a two-step pathway of biosynthesis of the compatible solute mannosylglycerate, a typical osmolyte of thermophiles.
Probab=50.27 E-value=19 Score=26.72 Aligned_cols=19 Identities=5% Similarity=0.095 Sum_probs=14.2
Q ss_pred EEEEEEcCCHHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~ 65 (109)
.||+||||+.+.+..+.+.
T Consensus 33 ~~vi~TgR~~~~~~~~~~~ 51 (225)
T TIGR02461 33 PIVFVSSKTRAEQEYYREE 51 (225)
T ss_pred EEEEEeCCCHHHHHHHHHH
Confidence 4789999999976655443
No 44
>TIGR02463 MPGP_rel mannosyl-3-phosphoglycerate phosphatase-related protein. This family consists of members of the HAD superfamily, subfamily IIB. All members are closely related to mannosyl-3-phosphoglycerate phosphatase, the second enzyme in a two-step pathway for biosynthesis of mannosylglycerate, a compatible solute present in some thermophiles and in Dehalococcoides ethenogenes. However, members of this family are separable in a neighbor-joining tree constructed from a multiple sequence alignment and are found only in mesophiles that lack the companion mannosyl-3-phosphoglycerate synthase (TIGR02460). Members of this family are like to act on a compound related to yet distinct from mannosyl-3-phosphoglycerate.
Probab=48.74 E-value=19 Score=26.03 Aligned_cols=20 Identities=15% Similarity=0.366 Sum_probs=16.7
Q ss_pred EEEEEEcCCHHHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQAI 66 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~i 66 (109)
.|+|||||+.+-++.+++.+
T Consensus 34 ~~~i~TgR~~~~~~~~~~~l 53 (221)
T TIGR02463 34 PVILCTSKTAAEVEYLQKAL 53 (221)
T ss_pred eEEEEcCCCHHHHHHHHHHc
Confidence 58999999999888777654
No 45
>COG0561 Cof Predicted hydrolases of the HAD superfamily [General function prediction only]
Probab=48.37 E-value=18 Score=26.93 Aligned_cols=20 Identities=35% Similarity=0.433 Sum_probs=16.0
Q ss_pred EEEEEEcCCHHHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQAI 66 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~i 66 (109)
+|+|||||+.+-++.+.+.+
T Consensus 38 ~v~iaTGR~~~~~~~~~~~l 57 (264)
T COG0561 38 KVVLATGRPLPDVLSILEEL 57 (264)
T ss_pred EEEEECCCChHHHHHHHHHc
Confidence 68999999998777766554
No 46
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=47.86 E-value=41 Score=20.42 Aligned_cols=50 Identities=6% Similarity=0.067 Sum_probs=40.4
Q ss_pred CHHHHHHHHHhCCCCCeEEEecCCC--CCcccEEEEEEcCCHHHHHHHHHHHH
Q 033883 17 SMTSVVNPTFDLKADDVKVIPVGEK--CDWTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 17 ~i~~i~~~l~dkKa~dI~vlDv~~~--~~~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
.+..++.++.+. +-+|.-+++... ...+-..+-+..++..|+..+.+.++
T Consensus 19 lL~dI~~~i~~~-~~nI~~i~~~~~~~~~~~~~~l~v~V~d~~~L~~ii~~L~ 70 (80)
T PF13291_consen 19 LLADITSVISEN-GVNIRSINARTNKDDGTARITLTVEVKDLEHLNQIIRKLR 70 (80)
T ss_dssp HHHHHHHHHHCS-SSEEEEEEEEE--ETTEEEEEEEEEESSHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHC-CCCeEEEEeEEeccCCEEEEEEEEEECCHHHHHHHHHHHH
Confidence 455888888888 667999999885 56888888889999999998877664
No 47
>TIGR03884 sel_bind_Methan selenium-binding protein. This model describes a homopentameric selenium-binding protein with a suggested role in selenium transport and delivery to selenophosphate synthase, the SelD protein. This protein family is closely related to pfam01906, but is shorter because of several deleted regions. It is restricted to the archaeal genus Methanococcus.
Probab=46.86 E-value=61 Score=20.85 Aligned_cols=40 Identities=3% Similarity=0.015 Sum_probs=32.0
Q ss_pred ccchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcC
Q 033883 5 TKESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGR 54 (109)
Q Consensus 5 ~~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~ 54 (109)
.++.++..+ .+.+-+.++.|.-|+.+++.-.. . +|+|+|+
T Consensus 24 ~~d~d~Al~------eM~e~A~~lGAnAVVGvr~d~s~---~-eV~ayGT 63 (74)
T TIGR03884 24 SDNVDEIVE------NLREKVKAKGGMGLIAFRITCAD---G-KFLGYGT 63 (74)
T ss_pred cCCHHHHHH------HHHHHHHHcCCCEEEEEEEEcCC---C-EEEEEEE
Confidence 345666666 88999999999999999987762 2 8999986
No 48
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=46.17 E-value=20 Score=26.88 Aligned_cols=17 Identities=29% Similarity=0.485 Sum_probs=13.4
Q ss_pred EEEEEEcCCHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIA 63 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala 63 (109)
.|+|||||+.+-++.+.
T Consensus 37 ~~~iaTGR~~~~~~~~~ 53 (272)
T PRK15126 37 TLTFATGRHVLEMQHIL 53 (272)
T ss_pred EEEEECCCCHHHHHHHH
Confidence 58999999998666554
No 49
>PF08282 Hydrolase_3: haloacid dehalogenase-like hydrolase; InterPro: IPR013200 The Haloacid Dehydrogenase (HAD) superfamily includes phosphatases, phosphonatases, P-type ATPases, beta-phosphoglucomutases, phosphomannomutases, and dehalogenases, which are involved in a variety of cellular processes ranging from amino acid biosynthesis to detoxification []. This HAD domain is found in several distinct enzymes including: Phospholipid-transporting ATPase 1 (3.6.3.1 from EC), a putative lipid-flipping enzyme involved in cold tolerance in Arabidopsis [] 3-deoxy-D-manno-octulosonate (KDO) 8-phosphate phosphatase (3.1.3.45 from EC), which catalyses the final step in the biosynthesis of KDO - a component of lipopolysaccharide in Gram-negative bacteria [] Mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC), which hydrolyzes mannosyl-3-phosphoglycerate to form the osmolyte mannosylglycerate [] Phosphoglycolate phopshatase (3.1.3.18 from EC), which catalyses the dephosphorylation of 2-phosphoglycolate [] ; PDB: 2B30_B 3R4C_A 1XVI_B 3IJ5_B 3MMZ_C 3L7Y_A 1XPJ_C 1RLT_B 1RLM_B 2HF2_A ....
Probab=46.06 E-value=21 Score=25.26 Aligned_cols=18 Identities=44% Similarity=0.571 Sum_probs=14.1
Q ss_pred EEEEEEcCCHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQ 64 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~ 64 (109)
.|+|||||+.+-++.+..
T Consensus 33 ~~~i~TGR~~~~~~~~~~ 50 (254)
T PF08282_consen 33 KLVIATGRSYSSIKRLLK 50 (254)
T ss_dssp EEEEECSSTHHHHHHHHH
T ss_pred EEEEEccCcccccccccc
Confidence 689999999887665544
No 50
>PRK08367 porA pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed
Probab=45.80 E-value=56 Score=26.82 Aligned_cols=41 Identities=7% Similarity=0.022 Sum_probs=27.0
Q ss_pred HhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHH
Q 033883 26 FDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 26 ~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
.++-+.....++--+ +.=+|+.||+.|.+.+.++...+.++
T Consensus 244 ~~~~grky~~~e~yg-~eDAe~viV~~GS~~~~~keav~~LR 284 (394)
T PRK08367 244 EKKFGRKYQKIEEYR-TEDAEIIFVTMGSLAGTLKEFVDKLR 284 (394)
T ss_pred HHHhCCccceeEEeC-CCCCCEEEEEeCccHHHHHHHHHHHH
Confidence 333444444444222 23489999999999999887776554
No 51
>PRK12359 flavodoxin FldB; Provisional
Probab=45.74 E-value=41 Score=24.39 Aligned_cols=32 Identities=6% Similarity=0.068 Sum_probs=20.0
Q ss_pred HHHHHHHhCCCCCeEEEecCCCCC----cccEEEEEEcC
Q 033883 20 SVVNPTFDLKADDVKVIPVGEKCD----WTDYMVIATGR 54 (109)
Q Consensus 20 ~i~~~l~dkKa~dI~vlDv~~~~~----~aDyfVI~Ta~ 54 (109)
.|++.+ .+..+.++|+.+... -.|++|++|-+
T Consensus 20 ~I~~~l---g~~~v~v~~i~~~~~~~l~~yD~iIlG~pT 55 (172)
T PRK12359 20 KIRDII---GEELVDLHNLKDDPPKLMEQYDVLILGIPT 55 (172)
T ss_pred HHHHHh---CCCeEEEEEcccCChhHHccCCEEEEEecc
Confidence 555544 233467788877542 26888888866
No 52
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=45.66 E-value=1e+02 Score=21.59 Aligned_cols=53 Identities=6% Similarity=0.003 Sum_probs=36.1
Q ss_pred HHHHHHHhCCCCCeEEEecC--CCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHH
Q 033883 20 SVVNPTFDLKADDVKVIPVG--EKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQ 72 (109)
Q Consensus 20 ~i~~~l~dkKa~dI~vlDv~--~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~ 72 (109)
.+++.+.++++.=|.+-+.. ....++|+.+.+....++++..+-..+...+.+
T Consensus 119 ~~~~~ak~~Ga~vI~IT~~~~s~La~~aD~~l~~~~~~~~~~~~~~~~~~~~~~~ 173 (177)
T cd05006 119 KALEAAKERGMKTIALTGRDGGKLLELADIEIHVPSDDTPRIQEVHLLIGHILCE 173 (177)
T ss_pred HHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEeCCCChHHHHHHHHHHHHHHHH
Confidence 44556666665544444432 345799999999999999988877766666554
No 53
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=45.65 E-value=55 Score=29.52 Aligned_cols=29 Identities=10% Similarity=-0.056 Sum_probs=26.1
Q ss_pred EEEEEEcCCHHHHHHHHHHHHHHHHHhhh
Q 033883 47 YMVIATGRSTWHVKNIAQAIIYKAKQRQR 75 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~i~~~lk~~~~ 75 (109)
+=||+||-+..-++.+...+.+.+...|+
T Consensus 262 ~~iiVTAP~~~nv~~Lf~fa~~~l~~lg~ 290 (758)
T COG1444 262 VRIIVTAPTPANVQTLFEFAGKGLEFLGY 290 (758)
T ss_pred ceEEEeCCCHHHHHHHHHHHHHhHHHhCC
Confidence 56999999999999999999999988764
No 54
>PRK12276 putative heme peroxidase; Provisional
Probab=45.33 E-value=81 Score=24.56 Aligned_cols=48 Identities=6% Similarity=0.050 Sum_probs=36.5
Q ss_pred HHHHHHHHhCCCCCe------EEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHH
Q 033883 19 TSVVNPTFDLKADDV------KVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIY 68 (109)
Q Consensus 19 ~~i~~~l~dkKa~dI------~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~ 68 (109)
+++.+++++.....+ .+.++.+.. ||+|+...+.+...++++-..+.+
T Consensus 38 ~e~~~~l~~~~~~~~~~~g~~~~Y~v~G~r--ADlm~w~~~~~~~~lq~~~~~~~~ 91 (248)
T PRK12276 38 DEFLAFLEKWEEVEAAKQGSHAIYSIVGQK--ADLMLMILRPTMEELNEIENELNK 91 (248)
T ss_pred HHHHHHHHHHhhcccccccceeEEEeeccc--ceEEEEEeCCCHHHHHHHHHHHHh
Confidence 355555555433333 489999876 899999999999999999888875
No 55
>TIGR01486 HAD-SF-IIB-MPGP mannosyl-3-phosphoglycerate phosphatase family. This small group of proteins is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. Several members of this family from thermophiles (and from Dehalococcoides ethenogenes) are now known to act as mannosyl-3-phosphoglycerate (MPG) phosphatase. In these cases, the enzyme acts after MPG synthase to make the compatible solute mannosylglycerate. We propose that other mesophilic members of this family do not act as mannosyl-3-phosphoglycerate phosphatase. A member of this family is found in Escherichia coli, which appears to lack MPG synthase. Mannosylglycerate is imported in E. coli by phosphoenolpyruvate-dependent transporter (PubMed:14645248), but it appears the phosphorylation is not on the glycerate moiety, that the phosphorylated import is degraded by an alpha-mannosidase from an adjacent gene, and that E. coli would have no pathway to obta
Probab=44.94 E-value=22 Score=26.43 Aligned_cols=18 Identities=11% Similarity=0.261 Sum_probs=14.0
Q ss_pred EEEEEcCCHHHHHHHHHH
Q 033883 48 MVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 48 fVI~Ta~S~rh~~ala~~ 65 (109)
|+|||||+...+..+.+.
T Consensus 35 ~~~~TgR~~~~~~~~~~~ 52 (256)
T TIGR01486 35 VIPCTSKTAAEVEYLRKE 52 (256)
T ss_pred EEEEcCCCHHHHHHHHHH
Confidence 899999999877665543
No 56
>PF10469 AKAP7_NLS: AKAP7 2'5' RNA ligase-like domain; InterPro: IPR019510 This entry represents the N-terminal nuclear localisation signal-containing domain found in the cyclic AMP-dependent protein kinase A (PKA) anchor protein, AKAP7. This protein anchors PKA for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes []. This domain carries the nuclear localisation signal (NLS) KKRKK, that indicates the cellular destiny of this anchor protein []. Binding to the regulatory subunits RI and RII of PKA is mediated via the RI-RII subunit-binding domain at the C terminus.
Probab=44.86 E-value=83 Score=22.84 Aligned_cols=45 Identities=9% Similarity=0.032 Sum_probs=36.8
Q ss_pred CCeEEEecCCCCCccc-----EEEEEEcCC---HHHHHHHHHHHHHHHHHhhh
Q 033883 31 DDVKVIPVGEKCDWTD-----YMVIATGRS---TWHVKNIAQAIIYKAKQRQR 75 (109)
Q Consensus 31 ~dI~vlDv~~~~~~aD-----yfVI~Ta~S---~rh~~ala~~i~~~lk~~~~ 75 (109)
..-.-+.+++...+-| -.+-|.... ...++.+++.|.+.+.+.|+
T Consensus 79 ~~~~~i~l~Gl~~f~~d~~~~~VLya~v~~~~~~~~L~~l~~~l~~~f~~~Gl 131 (209)
T PF10469_consen 79 PPPLKITLKGLGYFNDDPSKARVLYAKVSEDSNSERLQELANKLRERFQEAGL 131 (209)
T ss_pred CCCceEEeeechhhCCCCCcceEEEEcccccchHHHHHHHHHHHHHHHHHcCC
Confidence 3567888999998988 777776553 69999999999999999865
No 57
>PRK07832 short chain dehydrogenase; Provisional
Probab=44.06 E-value=92 Score=22.95 Aligned_cols=8 Identities=0% Similarity=-0.521 Sum_probs=6.9
Q ss_pred CEEEEccC
Q 033883 102 LCRILNSL 109 (109)
Q Consensus 102 diVVh~~~ 109 (109)
|++|||+|
T Consensus 80 d~lv~~ag 87 (272)
T PRK07832 80 DVVMNIAG 87 (272)
T ss_pred CEEEECCC
Confidence 89999985
No 58
>PRK00453 rpsF 30S ribosomal protein S6; Reviewed
Probab=44.02 E-value=71 Score=21.05 Aligned_cols=55 Identities=13% Similarity=0.209 Sum_probs=39.6
Q ss_pred ccEEEEEEcC-CHHHHHHHHHHHHHHHHHhhh------hhccccCCCCCcccCCCCCeEEEEc
Q 033883 45 TDYMVIATGR-STWHVKNIAQAIIYKAKQRQR------EVGAKQMMLPSVQGQDTGKWVIIDS 100 (109)
Q Consensus 45 aDyfVI~Ta~-S~rh~~ala~~i~~~lk~~~~------~~~~~~~~~~~vEG~~~~~WvllD~ 100 (109)
.+.++|.... ++.++.++.+.+.+.+.+.+. +.|.+. ..+.+.+...|.|+++.|
T Consensus 4 YE~~~il~~~~~~~~~~~~~~~~~~~i~~~gg~i~~~~~~G~r~-LAY~I~k~~~G~Y~~~~f 65 (108)
T PRK00453 4 YEIVFILRPDLSEEQVKALVERFKGVITENGGTIHKVEDWGRRR-LAYPINKLRKGHYVLLNF 65 (108)
T ss_pred eeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEecccccc-cceEcCCCcEEEEEEEEE
Confidence 3566666666 899999999999999988642 124432 244677777889999887
No 59
>PF01820 Dala_Dala_lig_N: D-ala D-ala ligase N-terminus; InterPro: IPR011127 This entry represents the N-terminal region of the D-alanine--D-alanine ligase enzyme (6.3.2.4 from EC) which is thought to be involved in substrate binding []. D-Alanine is one of the central molecules of the cross-linking step of peptidoglycan assembly. There are three enzymes involved in the D-alanine branch of peptidoglycan biosynthesis: the pyridoxal phosphate-dependent D-alanine racemase (Alr), the ATP-dependent D-alanine:D-alanine ligase (Ddl), and the ATP-dependent D-alanine:D-alanine-adding enzyme (MurF) [].; GO: 0008716 D-alanine-D-alanine ligase activity, 0009252 peptidoglycan biosynthetic process, 0005618 cell wall; PDB: 4EG0_B 3E5N_A 3RFC_A 3R5F_A 1IOV_A 1IOW_A 2DLN_A 3Q1K_D 3I12_C 3N8D_B ....
Probab=43.80 E-value=21 Score=24.10 Aligned_cols=47 Identities=17% Similarity=0.323 Sum_probs=32.5
Q ss_pred EEEEEEcCCHHHHHHH--HHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEEEEc
Q 033883 47 YMVIATGRSTWHVKNI--AQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVIIDS 100 (109)
Q Consensus 47 yfVI~Ta~S~rh~~al--a~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~WvllD~ 100 (109)
..||+=|+|..|-=++ |.+|.+.|.+.++ .. .+..+. .++.|.+.+.
T Consensus 3 v~vlfGG~S~EheVSl~Sa~~v~~~L~~~~y----~v-~~i~i~--k~g~~~~~~~ 51 (117)
T PF01820_consen 3 VAVLFGGRSSEHEVSLRSARNVYEALDKEKY----EV-IPIYID--KDGRWYLGEG 51 (117)
T ss_dssp EEEEEETSSTTHHHHHHHHHHHHHHSHTTTE----EE-EEEEET--TTSCEEEEHH
T ss_pred EEEEeccCchhHHHHHHHHHHHHHHHhhhcc----eE-EEEeec--CCCCEEEccc
Confidence 4689999999998888 7788888876543 21 122333 4568988763
No 60
>TIGR01500 sepiapter_red sepiapterin reductase. This model describes sepiapterin reductase, a member of the short chain dehydrogenase/reductase family. The enzyme catalyzes the last step in the biosynthesis of tetrahydrobiopterin. A similar enzyme in Bacillus cereus was isolated for its ability to convert benzil to (S)-benzoin, a property sepiapterin reductase also shares. Cutoff scores for this model are set such that benzil reductase scores between trusted and noise cutoffs.
Probab=43.48 E-value=56 Score=23.90 Aligned_cols=19 Identities=11% Similarity=0.232 Sum_probs=12.1
Q ss_pred EEEEcCCHHHHHHHHHHHH
Q 033883 49 VIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 49 VI~Ta~S~rh~~ala~~i~ 67 (109)
|+.++++...+..+++.+.
T Consensus 31 V~~~~r~~~~~~~~~~~l~ 49 (256)
T TIGR01500 31 LVLSARNDEALRQLKAEIG 49 (256)
T ss_pred EEEEEcCHHHHHHHHHHHH
Confidence 4566777777666655543
No 61
>PRK00192 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=43.37 E-value=23 Score=26.71 Aligned_cols=19 Identities=11% Similarity=0.179 Sum_probs=15.3
Q ss_pred EEEEEEcCCHHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~ 65 (109)
-|+||||++.+.+..+++.
T Consensus 39 ~~~iaTgR~~~~~~~~~~~ 57 (273)
T PRK00192 39 PVIPCTSKTAAEVEVLRKE 57 (273)
T ss_pred EEEEEcCCCHHHHHHHHHH
Confidence 4788999999988877654
No 62
>TIGR02471 sucr_syn_bact_C sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial. Sucrose phosphate synthase (SPS) and sucrose phosphate phosphatase (SPP) are the last two enzymes of sucrose biosynthesis. In cyanobacteria and plants, the C-terminal region of most or all versions of SPS has a domain homologous to the known SPP. This domain may serve a binding or regulatory rather than catalytic function. Sequences in this family are bacterial C-terminal regions found in all but two of the putative bacterial sucrose phosphate synthases described by TIGR02472.
Probab=42.92 E-value=26 Score=25.67 Aligned_cols=19 Identities=37% Similarity=0.199 Sum_probs=15.3
Q ss_pred EEEEEEcCCHHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~ 65 (109)
.|+|||||+...++.+...
T Consensus 32 ~~viaTGR~~~~v~~~~~~ 50 (236)
T TIGR02471 32 GFGIATGRSVESAKSRYAK 50 (236)
T ss_pred eEEEEeCCCHHHHHHHHHh
Confidence 5999999998888766543
No 63
>PF01250 Ribosomal_S6: Ribosomal protein S6; InterPro: IPR000529 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 [, ]. Ribosomal protein S6 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S6 is known to bind together with S18 to 16S ribosomal RNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities, groups bacterial, red algal chloroplast and cyanelle S6 ribosomal proteins.; GO: 0003735 structural constituent of ribosome, 0019843 rRNA binding, 0006412 translation, 0005840 ribosome; PDB: 3BBN_F 3R3T_B 3F1E_F 2QNH_g 2OW8_g 3PYQ_F 3PYS_F 3PYU_F 3MR8_F 3PYN_F ....
Probab=41.80 E-value=48 Score=21.01 Aligned_cols=54 Identities=13% Similarity=0.261 Sum_probs=38.1
Q ss_pred cEEEEEEcC-CHHHHHHHHHHHHHHHHHhhh------hhccccCCCCCcccCCCCCeEEEEc
Q 033883 46 DYMVIATGR-STWHVKNIAQAIIYKAKQRQR------EVGAKQMMLPSVQGQDTGKWVIIDS 100 (109)
Q Consensus 46 DyfVI~Ta~-S~rh~~ala~~i~~~lk~~~~------~~~~~~~~~~~vEG~~~~~WvllD~ 100 (109)
+.++|.... ++.++.++.+.+.+.+.+.|- +.|.+. .++.+.+...|.|+++.|
T Consensus 4 E~~~il~~~~~~~~~~~~~~~~~~~i~~~gg~v~~~~~~G~r~-LaY~i~k~~~G~Y~~~~f 64 (92)
T PF01250_consen 4 ELMFILRPDLSEEEIKKLIERVKKIIEKNGGVVRSVENWGKRR-LAYPIKKQKEGHYFLFNF 64 (92)
T ss_dssp EEEEEE-TTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEEE-ESSEETTECEEEEEEEEE
T ss_pred eEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEEeecc-cccCCCCCCEEEEEEEEE
Confidence 567788875 777999999999999988752 114432 244566667888888876
No 64
>cd06169 BMC Bacterial Micro-Compartment (BMC) domain. Bacterial micro-compartments are primitive protein-based organelles that sequester specific metabolic pathways in bacterial cells. The prototypical bacterial microcompartment is the carboxysome shell, a bacterial polyhedral organelle which increase the efficiency of CO2 fixation by encapsulating RuBisCO and carbonic anhydrase. They can be divided into two types: alpha-type carboxysomes (alpha-cyanobacteria and proteobacteria) and beta-type carboxysomes (beta-cyanobacteria). In addition to these proteins there are several homologous shell proteins including those found in pdu organelles involved in coenzyme B12-dependent degradation of 1,2-propanediol and eut organelles involved in the cobalamin-dependent degradation of ethanolamine. Structure evidence shows that several carboxysome shell proteins and their homologs (Csos1A, CcmK1,2,4, and PduU) exist as hexamers which might further assemble into extended, tightly packed layers hypo
Probab=41.55 E-value=53 Score=19.62 Aligned_cols=38 Identities=24% Similarity=0.218 Sum_probs=27.2
Q ss_pred hCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHH
Q 033883 27 DLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 27 dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~ 65 (109)
-.|+-||.++++...++-.-++++.+|.. .-+++-.+.
T Consensus 20 a~KaA~V~l~~~~~~~~~g~~~~~i~G~~-s~V~~A~~a 57 (62)
T cd06169 20 AVKAADVELVGIERAGGGGLVTLIIRGDV-SAVKAAVEA 57 (62)
T ss_pred HhhhcCeEEEEEEecCCCcEEEEEEEECH-HHHHHHHHH
Confidence 35777999999999886567888889965 444433333
No 65
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=41.06 E-value=68 Score=18.11 Aligned_cols=49 Identities=8% Similarity=0.130 Sum_probs=31.4
Q ss_pred CHHHHHHHHHhCCCCCeEEEecCCC-----CCcccEEEEEEcCCHHHHHHHHHHH
Q 033883 17 SMTSVVNPTFDLKADDVKVIPVGEK-----CDWTDYMVIATGRSTWHVKNIAQAI 66 (109)
Q Consensus 17 ~i~~i~~~l~dkKa~dI~vlDv~~~-----~~~aDyfVI~Ta~S~rh~~ala~~i 66 (109)
.+..+.+++.+.+ -+|.-+..... ...+.+.+-..+.+..|+..+.+.+
T Consensus 11 ~L~~i~~~i~~~~-~nI~~i~~~~~~~~~~~~~~~~~i~v~~~~~~~l~~l~~~l 64 (73)
T cd04886 11 QLAKLLAVIAEAG-ANIIEVSHDRAFKTLPLGEVEVELTLETRGAEHIEEIIAAL 64 (73)
T ss_pred hHHHHHHHHHHcC-CCEEEEEEEeccCCCCCceEEEEEEEEeCCHHHHHHHHHHH
Confidence 4556777776664 45776665543 2455566667778888887665554
No 66
>PRK14126 cell division protein ZapA; Provisional
Probab=40.96 E-value=42 Score=21.68 Aligned_cols=28 Identities=21% Similarity=0.371 Sum_probs=22.8
Q ss_pred cEEEEEEcCCHHHHHHHHHHHHHHHHHhh
Q 033883 46 DYMVIATGRSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 46 DyfVI~Ta~S~rh~~ala~~i~~~lk~~~ 74 (109)
+|-|. +..|+.|++.+|+.|.+.+++-.
T Consensus 17 ~Y~i~-~~e~ee~l~~vA~~vd~km~ei~ 44 (85)
T PRK14126 17 QYTIV-GDESTSHIRMVAAIVDDKMRELN 44 (85)
T ss_pred EEEec-CCCcHHHHHHHHHHHHHHHHHHH
Confidence 46665 46689999999999999998853
No 67
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=40.92 E-value=43 Score=24.28 Aligned_cols=43 Identities=14% Similarity=0.227 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhccccCCCCCcccC-------CCCCeEEEEcCCE
Q 033883 56 TWHVKNIAQAIIYKAKQRQREVGAKQMMLPSVQGQ-------DTGKWVIIDSGLC 103 (109)
Q Consensus 56 ~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~-------~~~~WvllD~Gdi 103 (109)
+||-+|||..|..-|+.+| ++. .+.+-+-. .+.+|++-+=|..
T Consensus 19 ERrRRAIaakIfaGLR~~G---ny~--Lp~~aD~NeVLkALc~eAGw~Ve~DGTt 68 (150)
T PF05687_consen 19 ERRRRAIAAKIFAGLRAHG---NYK--LPKHADNNEVLKALCREAGWTVEPDGTT 68 (150)
T ss_pred HHHHHHHHHHHHHHHHHhc---CCC--CCCcCCHHHHHHHHHHhCCEEEccCCCe
Confidence 6899999999999999886 332 23332221 2679999987764
No 68
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=40.88 E-value=49 Score=19.47 Aligned_cols=24 Identities=17% Similarity=0.298 Sum_probs=21.0
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 50 IATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 50 I~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
+..|+|..|-++|++.|.+.+.+.
T Consensus 8 l~~grt~eqk~~l~~~it~~l~~~ 31 (64)
T PRK01964 8 LLEGRPEEKIKNLIREVTEAISAT 31 (64)
T ss_pred EeCCCCHHHHHHHHHHHHHHHHHH
Confidence 446899999999999999999775
No 69
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=40.06 E-value=43 Score=19.70 Aligned_cols=24 Identities=17% Similarity=0.192 Sum_probs=21.1
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 50 IATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 50 I~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
+..|+|..|-++|++.|.+.+.+.
T Consensus 8 ~~~Grs~EqK~~L~~~it~a~~~~ 31 (60)
T PRK02289 8 LFEGRSQEQKNALAREVTEVVSRI 31 (60)
T ss_pred ECCCCCHHHHHHHHHHHHHHHHHH
Confidence 345899999999999999999886
No 70
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=39.45 E-value=72 Score=26.74 Aligned_cols=45 Identities=13% Similarity=0.254 Sum_probs=33.3
Q ss_pred CCCcccchHHHHhcCCCHHHHHHHHHhCC-CCCeEEEecCCCC--C------cccEEEEEEcC
Q 033883 1 MTGVTKESETLARKRPSMTSVVNPTFDLK-ADDVKVIPVGEKC--D------WTDYMVIATGR 54 (109)
Q Consensus 1 ~~~~~~~~~~l~~~~~~i~~i~~~l~dkK-a~dI~vlDv~~~~--~------~aDyfVI~Ta~ 54 (109)
|||.|+ .+++ .+++.+.+.. +-++.++++.... . -+|.+++.|-+
T Consensus 261 ~~GnTe---~mA~------~ia~gl~~~g~gv~v~~~~v~~~~~~~i~~~~~~ad~vilGspT 314 (479)
T PRK05452 261 MSNNTR---MMAD------AIAQGIAEVDPRVAVKIFNVARSDKNEILTNVFRSKGVLVGSST 314 (479)
T ss_pred CccHHH---HHHH------HHHHHHHhhCCCceEEEEECCCCCHHHHHhHHhhCCEEEEECCc
Confidence 566654 7888 8888888774 4588999997753 2 26899998765
No 71
>PRK06179 short chain dehydrogenase; Provisional
Probab=39.32 E-value=85 Score=22.94 Aligned_cols=19 Identities=21% Similarity=0.275 Sum_probs=12.5
Q ss_pred EEEEEcCCHHHHHHHHHHH
Q 033883 48 MVIATGRSTWHVKNIAQAI 66 (109)
Q Consensus 48 fVI~Ta~S~rh~~ala~~i 66 (109)
.|+.||-|..--++++..+
T Consensus 6 ~vlVtGasg~iG~~~a~~l 24 (270)
T PRK06179 6 VALVTGASSGIGRATAEKL 24 (270)
T ss_pred EEEEecCCCHHHHHHHHHH
Confidence 4778888866555555544
No 72
>COG3027 zapA Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]
Probab=39.02 E-value=42 Score=22.69 Aligned_cols=29 Identities=17% Similarity=0.226 Sum_probs=26.2
Q ss_pred cEEEEEEcCCHHHHHHHHHHHHHHHHHhh
Q 033883 46 DYMVIATGRSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 46 DyfVI~Ta~S~rh~~ala~~i~~~lk~~~ 74 (109)
-|-|.|....+.|+..+|+.+..++++-+
T Consensus 12 ~y~v~c~~~qee~L~~~A~~lD~kv~eik 40 (105)
T COG3027 12 SYRVNCPEEQEEHLRQAARLLDDKVRELK 40 (105)
T ss_pred eeEecCCCCcHHHHHHHHHHHHHHHHHHH
Confidence 47899999999999999999999998864
No 73
>PRK15360 pathogenicity island 2 effector protein SseE; Provisional
Probab=38.92 E-value=49 Score=23.67 Aligned_cols=45 Identities=7% Similarity=0.192 Sum_probs=28.5
Q ss_pred cEEEEEEcCCHHHHHHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEEEEcC
Q 033883 46 DYMVIATGRSTWHVKNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVIIDSG 101 (109)
Q Consensus 46 DyfVI~Ta~S~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~WvllD~G 101 (109)
+-+|| +.-.+++++.+-..+.+-+-.+|. . ...++ ++.|.++|+-
T Consensus 86 rmlii-~~~~~~~l~~~R~rL~~vL~a~GA----~---~~~id---g~~Wl~~~~~ 130 (137)
T PRK15360 86 KMLII-TDVLDEKKAMLRRKLLRILTVMGA----T---FTQLD---GDNWTVLSAE 130 (137)
T ss_pred hheee-ccccCHHHHHHHHHHHHHHHHcCC----e---eeecC---CCeEEEeeHH
Confidence 33444 444566677777788888877652 1 23444 4799999964
No 74
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=38.51 E-value=65 Score=18.81 Aligned_cols=44 Identities=7% Similarity=0.080 Sum_probs=29.9
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHH
Q 033883 18 MTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 18 i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~ 65 (109)
++.+++.|.+... +..+-..++-.||++.+.++|..++..+...
T Consensus 12 ~~~~~~~l~~~p~----V~~~~~vtG~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 12 YDEFAEALAEIPE----VVECYSVTGEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp HHHHHHHHHTSTT----EEEEEEESSSSSEEEEEEESSHHHHHHHHHH
T ss_pred HHHHHHHHHcCCC----EEEEEEEeCCCCEEEEEEECCHHHHHHHHHH
Confidence 4455566655433 3333344556799999999999999888665
No 75
>PRK00394 transcription factor; Reviewed
Probab=38.07 E-value=57 Score=23.90 Aligned_cols=31 Identities=26% Similarity=0.308 Sum_probs=24.5
Q ss_pred cccEEEEEEc-CCHHHHHHHHHHHHHHHHHhh
Q 033883 44 WTDYMVIATG-RSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 44 ~aDyfVI~Ta-~S~rh~~ala~~i~~~lk~~~ 74 (109)
|.--=++||| +|..+++.-++.+.+.+++.|
T Consensus 52 f~sGKiv~tGa~S~~~a~~a~~~~~~~l~~~g 83 (179)
T PRK00394 52 FRSGKVVCTGAKSVEDLHEAVKIIIKKLKELG 83 (179)
T ss_pred EcCCcEEEEccCCHHHHHHHHHHHHHHHHHcC
Confidence 3344467776 999999999999999998764
No 76
>PRK06242 flavodoxin; Provisional
Probab=37.88 E-value=68 Score=21.61 Aligned_cols=47 Identities=15% Similarity=0.222 Sum_probs=27.0
Q ss_pred chHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCC----CcccEEEEEE----cCCHHHHHHHHHH
Q 033883 7 ESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKC----DWTDYMVIAT----GRSTWHVKNIAQA 65 (109)
Q Consensus 7 ~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~----~~aDyfVI~T----a~S~rh~~ala~~ 65 (109)
.++.+++ .+++.+. ..++++.+.. .-+|.+|+++ ++=.++++...+.
T Consensus 14 nT~~~A~------~ia~~l~------~~~~~i~~~~~~~~~~~d~ii~g~pvy~~~~~~~~~~fl~~ 68 (150)
T PRK06242 14 NTEKIAK------AIAEVLD------AEVIDPGDVNPEDLSEYDLIGFGSGIYFGKFHKSLLKLIEK 68 (150)
T ss_pred CHHHHHH------HHHHhcC------cEEecHHHCCcccHhHCCEEEEeCchhcCCcCHHHHHHHHh
Confidence 3456777 6666662 3455665432 3568899987 3444555554443
No 77
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=37.61 E-value=56 Score=18.46 Aligned_cols=23 Identities=9% Similarity=0.180 Sum_probs=20.2
Q ss_pred EEcCCHHHHHHHHHHHHHHHHHh
Q 033883 51 ATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 51 ~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
..|+|..|-++|++.|.+.+.+.
T Consensus 8 ~~grt~eqk~~l~~~i~~~l~~~ 30 (58)
T cd00491 8 LEGRTDEQKRELIERVTEAVSEI 30 (58)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHH
Confidence 45899999999999999999775
No 78
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=36.91 E-value=1.1e+02 Score=21.30 Aligned_cols=50 Identities=20% Similarity=0.137 Sum_probs=29.3
Q ss_pred HHHHHHHHHhCCCCCeEEEe-cCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHHhh
Q 033883 18 MTSVVNPTFDLKADDVKVIP-VGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 18 i~~i~~~l~dkKa~dI~vlD-v~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~~ 74 (109)
++.+.+.+.+...-+++||| +.... +- ..++...+..+...+.+..++.+
T Consensus 129 ~~~l~~~~~~~~~~~lvviD~l~~~~---~~----~~~~~~~~~~~~~~l~~la~~~~ 179 (193)
T PF13481_consen 129 LEELEAALKELYGPDLVVIDPLQSLH---DG----DENSNSAVAQLMQELKRLAKEYG 179 (193)
T ss_dssp HHHHHHHHTT----SEEEEE-GGGG-----S-----TT-HHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHhhcCCCcEEEEcCHHHHh---cC----CCCCHHHHHHHHHHHHHHHHHcC
Confidence 44677777776678899999 33322 22 56777777788888887776654
No 79
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=36.04 E-value=65 Score=23.41 Aligned_cols=41 Identities=15% Similarity=0.118 Sum_probs=28.7
Q ss_pred EEEecCCCCC----cccEEEEEEc-CCHHHHHHHHHHHHHHHHHhh
Q 033883 34 KVIPVGEKCD----WTDYMVIATG-RSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 34 ~vlDv~~~~~----~aDyfVI~Ta-~S~rh~~ala~~i~~~lk~~~ 74 (109)
.++.+++... |.--=++||| +|..+++.-++.+.+.+++.+
T Consensus 39 li~R~~~P~~t~lIf~sGKivitGaks~~~~~~a~~~~~~~L~~~g 84 (174)
T cd00652 39 VIMRLREPKTTALIFSSGKMVITGAKSEEDAKLAARKYARILQKLG 84 (174)
T ss_pred EEEEcCCCcEEEEEECCCEEEEEecCCHHHHHHHHHHHHHHHHHcC
Confidence 4455554322 3333467786 899999999999999998764
No 80
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=35.55 E-value=1.7e+02 Score=21.13 Aligned_cols=41 Identities=12% Similarity=0.049 Sum_probs=30.3
Q ss_pred CCeEEEecCCCC--------CcccEEEEEEcCCHHHHHHHHHHHHHHHH
Q 033883 31 DDVKVIPVGEKC--------DWTDYMVIATGRSTWHVKNIAQAIIYKAK 71 (109)
Q Consensus 31 ~dI~vlDv~~~~--------~~aDyfVI~Ta~S~rh~~ala~~i~~~lk 71 (109)
.|++++|..+-. ..+|+.||.+-.+..-+.++.+.+.+.++
T Consensus 115 ~D~viiD~pp~~~~~~~~~l~~ad~vii~~~~~~~s~~~~~~~~~~l~~ 163 (246)
T TIGR03371 115 RDWVLIDVPRGPSPITRQALAAADLVLVVVNADAACYATLHQQALALFA 163 (246)
T ss_pred CCEEEEECCCCchHHHHHHHHhCCeEEEEeCCCHHHHHHHHHHHHHHhh
Confidence 399999999842 36999999998887777776655554443
No 81
>TIGR01443 intein_Cterm intein C-terminal splicing region. This model represents the well-conserved C-terminal region of a large number of inteins. It is based on interated search results, starting with a curated collection of intein N-terminal splicing regions from InBase, the New England Biolabs Intein Database, as presented on its web site. Inteins are regions encoded within proteins from which they remove themselves after translation in a self-splicing reaction, leaving the remainder of the coding region to form a complete, functional protein as if the intein were never there. Proteins with inteins include RecA, GyrA, ribonucleotide reductase, and others. Most inteins have a central region with putative endonuclease activity.
Probab=35.16 E-value=47 Score=16.96 Aligned_cols=15 Identities=13% Similarity=0.127 Sum_probs=10.0
Q ss_pred CCCeEEEEcCCEEEEccC
Q 033883 92 TGKWVIIDSGLCRILNSL 109 (109)
Q Consensus 92 ~~~WvllD~GdiVVh~~~ 109 (109)
...|+ ...+++||+.
T Consensus 10 ~~nfi---angiv~HNc~ 24 (26)
T TIGR01443 10 NHNFV---ANGIVVHNCX 24 (26)
T ss_pred CCcEE---ECCEEEeccc
Confidence 34565 4459999973
No 82
>PLN02780 ketoreductase/ oxidoreductase
Probab=34.86 E-value=1.1e+02 Score=23.78 Aligned_cols=19 Identities=16% Similarity=0.366 Sum_probs=10.9
Q ss_pred EEEEcCCHHHHHHHHHHHH
Q 033883 49 VIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 49 VI~Ta~S~rh~~ala~~i~ 67 (109)
|++.+++...++.+++++.
T Consensus 80 Vil~~R~~~~l~~~~~~l~ 98 (320)
T PLN02780 80 LVLVARNPDKLKDVSDSIQ 98 (320)
T ss_pred EEEEECCHHHHHHHHHHHH
Confidence 4555666666665555543
No 83
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=34.25 E-value=75 Score=18.69 Aligned_cols=24 Identities=17% Similarity=0.108 Sum_probs=14.2
Q ss_pred cccEEEEEEcCCHHHHHHHHHHHH
Q 033883 44 WTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 44 ~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
.+|+.++..-.+..-+.+....++
T Consensus 58 ~~~~vi~v~~~~~~~~~~~~~~~~ 81 (99)
T cd01983 58 AADLVIIVTTPEALAVLGARRLTE 81 (99)
T ss_pred hCCEEEEecCCchhhHHHHHHHHH
Confidence 456666666666666655554443
No 84
>TIGR01484 HAD-SF-IIB HAD-superfamily hydrolase, subfamily IIB. The IIB subfamily consists of Trehalose-6-phosphatase (TIGR00685), plant and cyanobacterial Sucrose-phosphatase and a closely related group of bacterial and archaeal sequences, eukaryotic phosphomannomutase (pfam03332), a large subfamily ("Cof-like hydrolases", TIGR00099) containing many closely related bacterial sequences, a hypothetical equivalog containing the E. coli YedP protein, as well as two small clusters containing sequences whose relationship to the other groups is unclear.
Probab=34.04 E-value=46 Score=23.56 Aligned_cols=19 Identities=32% Similarity=0.482 Sum_probs=16.0
Q ss_pred EEEEEEcCCHHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~ 65 (109)
.|+|+|||+...++.+...
T Consensus 35 ~~~i~TGR~~~~~~~~~~~ 53 (204)
T TIGR01484 35 KVVLVTGRSLAEIKELLKQ 53 (204)
T ss_pred EEEEECCCCHHHHHHHHHh
Confidence 6899999999888877654
No 85
>PTZ00174 phosphomannomutase; Provisional
Probab=33.93 E-value=42 Score=25.05 Aligned_cols=13 Identities=8% Similarity=0.077 Sum_probs=10.7
Q ss_pred EEEEEEcCCHHHH
Q 033883 47 YMVIATGRSTWHV 59 (109)
Q Consensus 47 yfVI~Ta~S~rh~ 59 (109)
.|||||||+...+
T Consensus 40 ~~viaTGR~~~~i 52 (247)
T PTZ00174 40 KIGVVGGSDYPKI 52 (247)
T ss_pred EEEEEcCCCHHHH
Confidence 5999999987754
No 86
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=33.87 E-value=74 Score=23.24 Aligned_cols=27 Identities=19% Similarity=0.106 Sum_probs=22.1
Q ss_pred EEEEEc-CCHHHHHHHHHHHHHHHHHhh
Q 033883 48 MVIATG-RSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 48 fVI~Ta-~S~rh~~ala~~i~~~lk~~~ 74 (109)
=++||| +|...++.-++.+.+.+++.+
T Consensus 57 KiviTGaks~e~a~~a~~~i~~~L~~~g 84 (174)
T cd04516 57 KMVCTGAKSEDDSKLAARKYARIIQKLG 84 (174)
T ss_pred eEEEEecCCHHHHHHHHHHHHHHHHHcC
Confidence 367775 999999988899998888764
No 87
>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=33.74 E-value=53 Score=22.75 Aligned_cols=28 Identities=21% Similarity=0.247 Sum_probs=20.8
Q ss_pred EEEEEcCCHHHHH--------HHHHHHHHHHHHhhh
Q 033883 48 MVIATGRSTWHVK--------NIAQAIIYKAKQRQR 75 (109)
Q Consensus 48 fVI~Ta~S~rh~~--------ala~~i~~~lk~~~~ 75 (109)
+++||||+.+.+. ..+..+.+.|++.+.
T Consensus 43 IiiaTGR~~~~~~~n~~~i~~~~~~~t~~wL~k~~i 78 (126)
T TIGR01689 43 IVISSSRNMRTYEGNVGKINIHTLPIIILWLNQHNV 78 (126)
T ss_pred EEEECCCCchhhhccccccchhhHHHHHHHHHHcCC
Confidence 8999999999876 344566677777654
No 88
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=33.67 E-value=1.6e+02 Score=20.20 Aligned_cols=53 Identities=11% Similarity=0.135 Sum_probs=38.7
Q ss_pred HHHHHHHhCCCCCeEEEecCCCC--------CcccEEEEEEcCCHHHHHHHHHHHHHHHHHhh
Q 033883 20 SVVNPTFDLKADDVKVIPVGEKC--------DWTDYMVIATGRSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 20 ~i~~~l~dkKa~dI~vlDv~~~~--------~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~~ 74 (109)
.+.+.+.... -|++++|..... ..+|++|+.+..+..-+.++... .+.+++.+
T Consensus 85 ~~l~~l~~~~-yD~iiiD~~~~~~~~~~~~l~~ad~viv~~~~~~~~i~~~~~~-~~~l~~~~ 145 (195)
T PF01656_consen 85 EILESLIKSD-YDYIIIDTPPGLSDPVRNALAAADYVIVPIEPDPSSIEGAERL-IELLKRLG 145 (195)
T ss_dssp HHHHHHHHTT-SSEEEEEECSSSSHHHHHHHHTSSEEEEEEESSHHHHHHHHHH-HHHHHHHT
T ss_pred HHHHHhhhcc-ccceeecccccccHHHHHHHHhCceeeeecCCcHHHHHHHHHH-HHHHHHhc
Confidence 4444444444 999999998754 37999999999999888887654 45666543
No 89
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=33.56 E-value=2.1e+02 Score=22.99 Aligned_cols=52 Identities=10% Similarity=0.048 Sum_probs=34.8
Q ss_pred HHHHHHHhCCCCCeEEEecCCCCCcc------------------cEEEEEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 20 SVVNPTFDLKADDVKVIPVGEKCDWT------------------DYMVIATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 20 ~i~~~l~dkKa~dI~vlDv~~~~~~a------------------DyfVI~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
.++..+.+. +..|.++.+-..+.++ ..|+..++. .-|+..+++.+.+.++..
T Consensus 75 ~l~~~l~~~-g~~v~vi~~Dp~s~~~~gallgd~~r~~~~~~~~~~~~r~~~~-~~~l~~~a~~~~~~~~~~ 144 (332)
T PRK09435 75 ALGMHLIEQ-GHKVAVLAVDPSSTRTGGSILGDKTRMERLSRHPNAFIRPSPS-SGTLGGVARKTRETMLLC 144 (332)
T ss_pred HHHHHHHHC-CCeEEEEEeCCCccccchhhhchHhHHHhhcCCCCeEEEecCC-cccccchHHHHHHHHHHH
Confidence 666677644 7789998887766532 346776665 557777777777766553
No 90
>PF10727 Rossmann-like: Rossmann-like domain; InterPro: IPR019665 This entry represents an NAD/NADP-binding domain with a core Rossmann-type fold, found in an uncharacterised protein family thought to be putative NADP oxidoreductase coenzyme F420-dependent proteins and/or NAD-dependent glycerol-3-phosphate dehydrogenase-like proteins. This Rossmann-fold domain consists of 3-layers alpha/beta/alpha, where the six beta strands are parallel in the order 321456.; PDB: 3DFU_A 3C24_A.
Probab=33.33 E-value=35 Score=23.63 Aligned_cols=33 Identities=15% Similarity=0.217 Sum_probs=16.7
Q ss_pred CeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHH
Q 033883 32 DVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAI 66 (109)
Q Consensus 32 dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i 66 (109)
...+.++.+...-+|.++|++-.+ .+..+++.+
T Consensus 56 ~~~~~~~~~~~~~aDlv~iavpDd--aI~~va~~L 88 (127)
T PF10727_consen 56 AGAILDLEEILRDADLVFIAVPDD--AIAEVAEQL 88 (127)
T ss_dssp T-----TTGGGCC-SEEEE-S-CC--HHHHHHHHH
T ss_pred cccccccccccccCCEEEEEechH--HHHHHHHHH
Confidence 345566666667799999998775 555555444
No 91
>cd01614 EutN_CcmL Ethanolamine utilisation protein and carboxysome structural protein domain family. Beside the Escherichia coli ethanolamine utilization protein EutN and the Synechocystis sp. carboxysome (beta-type) structural protein CcmL, this family also includes alpha-type carboxysome structural proteins CsoS4A and CsoS4B (previously known as OrfA and OrfB), propanediol utilizationprotein PduN, and some hypothetical homologous of various bacterial microcompartments. The carboxysome, a polyhedral organelle, participates in carbon fixation by sequestering enzymes. It is the prototypical bacterial microcompartment. Its enzymatic components, ribulose bisphosphate carboxylase/oxygenase(RuBisCO) and carbonic anhydrase (CA), are surrounded by a polyhedral protein shell. Similarly, the ethanolamine utilization (eut) microcompartment, and the 1,2-propanediol utilization (pdu) microcompartment encapsulate the enzymes necessary for the process of cobalamin-dependent ethanolamine degradation,
Probab=33.25 E-value=5.6 Score=25.96 Aligned_cols=31 Identities=13% Similarity=0.249 Sum_probs=25.5
Q ss_pred CCCCCeEEEecCCCCCcccEEEEEEcCCHHHH
Q 033883 28 LKADDVKVIPVGEKCDWTDYMVIATGRSTWHV 59 (109)
Q Consensus 28 kKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~ 59 (109)
.++.-++++|-=+ +..-|+.++++|.+.||.
T Consensus 36 ~~g~~~VA~D~vG-AG~Ge~Vlv~~Gs~Ar~~ 66 (83)
T cd01614 36 PKGEPLVAVDPVG-AGVGEWVLVATGSAARQA 66 (83)
T ss_pred cCCCEEEEEECCC-CCCCCEEEEeCChHHhhh
Confidence 4678888999887 556899999999888774
No 92
>PRK10678 moaE molybdopterin guanine dinucleotide biosynthesis protein MoaE; Provisional
Probab=33.24 E-value=1.8e+02 Score=20.81 Aligned_cols=54 Identities=19% Similarity=-0.019 Sum_probs=38.0
Q ss_pred HHHH-HHHhCCCCCeEEEecCCCCCc--ccEEEEEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 20 SVVN-PTFDLKADDVKVIPVGEKCDW--TDYMVIATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 20 ~i~~-~l~dkKa~dI~vlDv~~~~~~--aDyfVI~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
.|++ +.......++.+.---+.-.. +=+||.+++...+..-..++.+.+.+|..
T Consensus 65 ~I~~ea~~~~~~~~v~i~HR~G~l~~Ge~~v~Vav~s~HR~~Af~A~~~~id~lK~~ 121 (150)
T PRK10678 65 EIVDEARSRWPLGRVTVIHRVGELWPGDEIVFVGVTSAHRSSAFEAGQFIMDYLKTR 121 (150)
T ss_pred HHHHHHHHhCCCCcEEEEEeEecccCCCEEEEEEEECCCHHHHHHHHHHHHHHHhhc
Confidence 4444 444556788888776665433 44677777777788888889999999885
No 93
>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=33.00 E-value=34 Score=25.38 Aligned_cols=33 Identities=9% Similarity=0.134 Sum_probs=24.4
Q ss_pred HHHHHHhCCCCCeEEEecCCCCCcccEEEEEEc
Q 033883 21 VVNPTFDLKADDVKVIPVGEKCDWTDYMVIATG 53 (109)
Q Consensus 21 i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta 53 (109)
++..|..+++..|.++|+.+..+.+.+|-.-..
T Consensus 23 La~~La~~~~~kVLliDlDpQ~s~t~~~~~~~~ 55 (259)
T COG1192 23 LAAALAKRGGKKVLLIDLDPQGSLTSWLGLRPD 55 (259)
T ss_pred HHHHHHHhcCCcEEEEeCCCcchhhHhcCCCcc
Confidence 344677677799999999998777777655433
No 94
>PRK07831 short chain dehydrogenase; Provisional
Probab=32.57 E-value=1.2e+02 Score=22.07 Aligned_cols=8 Identities=13% Similarity=-0.230 Sum_probs=6.8
Q ss_pred CEEEEccC
Q 033883 102 LCRILNSL 109 (109)
Q Consensus 102 diVVh~~~ 109 (109)
|++|||+|
T Consensus 99 d~li~~ag 106 (262)
T PRK07831 99 DVLVNNAG 106 (262)
T ss_pred CEEEECCC
Confidence 78999985
No 95
>PRK15428 putative propanediol utilization protein PduM; Provisional
Probab=32.57 E-value=1.2e+02 Score=22.28 Aligned_cols=50 Identities=12% Similarity=0.153 Sum_probs=33.8
Q ss_pred CHHHHHHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEEEEcCCEEEEc
Q 033883 55 STWHVKNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVIIDSGLCRILN 107 (109)
Q Consensus 55 S~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~WvllD~GdiVVh~ 107 (109)
+...++.|.+.|..+++++.... .. .....-....+.++.+|+|++.+-+
T Consensus 2 ~~~~~~~iV~~Vv~RLk~Ra~~~-~~--ls~~ql~~~~~~~vF~~~a~l~l~q 51 (163)
T PRK15428 2 NGEMLQRIVEEVVARLQRRAQST-AT--LSVAQLRDADSPTLFCQHASLRILL 51 (163)
T ss_pred CHHHHHHHHHHHHHHHHHHhhce-EE--EEHHHccCCCCCeEEEeccEEEEec
Confidence 46688999999999998874311 10 0112223346799999999998754
No 96
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=32.48 E-value=1.7e+02 Score=20.23 Aligned_cols=51 Identities=10% Similarity=0.026 Sum_probs=32.5
Q ss_pred HHHHHHHhCCCCCeEEEecCC--CCCcccEEEEEEcCCHHHHHHHHHHHHHHH
Q 033883 20 SVVNPTFDLKADDVKVIPVGE--KCDWTDYMVIATGRSTWHVKNIAQAIIYKA 70 (109)
Q Consensus 20 ~i~~~l~dkKa~dI~vlDv~~--~~~~aDyfVI~Ta~S~rh~~ala~~i~~~l 70 (109)
.+++.+.++++.=|.+-+-.+ ...++|+.+.+...++++..-+--.+...+
T Consensus 97 ~~~~~a~~~g~~ii~iT~~~~s~l~~~ad~~l~~~~~~~~~~~~~~~~~~h~l 149 (154)
T TIGR00441 97 KAIEAAKDKGMKTITLAGKDGGKMAGLADIELRVPHFYTPRIQEIHIKVIHIL 149 (154)
T ss_pred HHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEeCCCCcHHHHHHHHHHHHHH
Confidence 456667777655444433222 245899999999999888776655554444
No 97
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=32.33 E-value=1e+02 Score=17.66 Aligned_cols=24 Identities=13% Similarity=0.310 Sum_probs=21.1
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 50 IATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 50 I~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
+..|+|..|-++|++.|.+.+.+.
T Consensus 8 ~~~Grs~eqk~~l~~~it~~l~~~ 31 (61)
T PRK02220 8 LIEGRTEEQLKALVKDVTAAVSKN 31 (61)
T ss_pred EcCCCCHHHHHHHHHHHHHHHHHH
Confidence 445899999999999999999875
No 98
>PF01121 CoaE: Dephospho-CoA kinase; InterPro: IPR001977 This family contains dephospho-CoA kinases (2.7.1.24 from EC), which catalyzes the final step in CoA biosynthesis, the phosphorylation of the 3'-hydroxyl group of ribose using ATP as a phosphate donor. The crystal structures of a number of the proteins in this entry have been determined, including the structure of the protein from Haemophilus influenzae to 2.0-A resolution in a comlex with ATP. The protein consists of three domains: the nucleotide-binding domain with a five-stranded parallel beta-sheet, the substrate-binding alpha-helical domain, and the lid domain formed by a pair of alpha-helices; the overall topology of the protein resembles the structures of other nucleotide kinases [].; GO: 0004140 dephospho-CoA kinase activity, 0005524 ATP binding, 0015937 coenzyme A biosynthetic process; PDB: 1VHL_A 1N3B_A 1VIY_A 1VHT_B 1T3H_B 1UF9_C 2F6R_A 2GRJ_D 2IF2_C 1JJV_A.
Probab=32.29 E-value=1.3e+02 Score=21.71 Aligned_cols=45 Identities=11% Similarity=0.116 Sum_probs=30.7
Q ss_pred HHHHHHhCCCCCeEEEecCCC-----CCcccEEEEEEcCCHHHHHHHHHH
Q 033883 21 VVNPTFDLKADDVKVIPVGEK-----CDWTDYMVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 21 i~~~l~dkKa~dI~vlDv~~~-----~~~aDyfVI~Ta~S~rh~~ala~~ 65 (109)
+.+.+...+...++++|+.=. ..++|+.|.+++.-+.+++.+.+.
T Consensus 94 ~~~~~~~~~~~~~~v~e~pLL~E~~~~~~~D~vi~V~a~~e~ri~Rl~~R 143 (180)
T PF01121_consen 94 IEKFIKRNKSEKVVVVEIPLLFESGLEKLCDEVIVVYAPEEIRIKRLMER 143 (180)
T ss_dssp HHHHHHHCHSTSEEEEE-TTTTTTTGGGGSSEEEEEE--HHHHHHHHHHH
T ss_pred HHHHHHhccCCCEEEEEcchhhhhhHhhhhceEEEEECCHHHHHHHHHhh
Confidence 334455555558999999743 457999999999988888888653
No 99
>TIGR02935 probable nitrogen fixation protein. Members of this protein family, called DUF269 by Pfam model pfam03270, are strictly limited to nitrogen-fixing species, although not universal among them. The gene typically is found next to the nifX gene (see TIGRFAMs model TIGR02663).
Probab=32.16 E-value=79 Score=22.71 Aligned_cols=40 Identities=25% Similarity=0.214 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEEEEcCCEEEEc
Q 033883 60 KNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVIIDSGLCRILN 107 (109)
Q Consensus 60 ~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~WvllD~GdiVVh~ 107 (109)
+|+|-.|+++--.. .++....+.|| -+|+|+=+|.+||-|
T Consensus 62 ~Ava~~IEk~TG~m-----~~~~~~l~hEG---FGr~ll~~GrLvvv~ 101 (140)
T TIGR02935 62 NAVALAIEKRTGLM-----ASPMMKLHHEG---FGRVLLIAGRLVVVN 101 (140)
T ss_pred HHHHHHHHHHhCCc-----chhhhccCCcC---cceEEEEeccEEEee
Confidence 56677666543221 11111224555 479999999999977
No 100
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=31.79 E-value=74 Score=18.35 Aligned_cols=23 Identities=13% Similarity=0.205 Sum_probs=20.2
Q ss_pred EEcCCHHHHHHHHHHHHHHHHHh
Q 033883 51 ATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 51 ~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
..|+|..|-++|++.|.+.+.+.
T Consensus 9 ~~grs~eqk~~l~~~it~~l~~~ 31 (62)
T PRK00745 9 FEGRTVEQKRKLVEEITRVTVET 31 (62)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHH
Confidence 34899999999999999998775
No 101
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=31.66 E-value=1.4e+02 Score=18.84 Aligned_cols=30 Identities=17% Similarity=0.231 Sum_probs=22.8
Q ss_pred cccEEEEEEc-CCHHHHHHHHHHHHHHHHHh
Q 033883 44 WTDYMVIATG-RSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 44 ~aDyfVI~Ta-~S~rh~~ala~~i~~~lk~~ 73 (109)
|..--|++|| +|..+++...+.+.+.+++.
T Consensus 55 F~sGki~itGaks~~~~~~a~~~i~~~L~~~ 85 (86)
T PF00352_consen 55 FSSGKIVITGAKSEEEAKKAIEKILPILQKL 85 (86)
T ss_dssp ETTSEEEEEEESSHHHHHHHHHHHHHHHHHT
T ss_pred EcCCEEEEEecCCHHHHHHHHHHHHHHHHHc
Confidence 3344466665 69999999999999888764
No 102
>PF09793 AD: Anticodon-binding domain; InterPro: IPR019181 Sm and Sm-like proteins of the Lsm (like Sm) domain family are generally involved in essential RNA-processing tasks []. All the LSM proteins are evolutionarily conserved in eukaryotes with an N-terminal Lsm domain to bind nucleic acids, followed by an as yet uncharacterised C-terminal region, some of which have a C-terminal methyltransferase domain. This entry represents the central region of approximately 100 residues, which is conserved from plants to humans and is frequently found in association with Lsm domain-containing proteins.
Probab=31.64 E-value=37 Score=22.03 Aligned_cols=38 Identities=18% Similarity=0.273 Sum_probs=26.8
Q ss_pred CCcccchHHHHhcCCCHHHHHHHHHh--CCCCCeEEEe-cCCCCCcc
Q 033883 2 TGVTKESETLARKRPSMTSVVNPTFD--LKADDVKVIP-VGEKCDWT 45 (109)
Q Consensus 2 ~~~~~~~~~l~~~~~~i~~i~~~l~d--kKa~dI~vlD-v~~~~~~a 45 (109)
.|+|++...|+. .+.+.+.+ =.+.+|+|+| |.=..+|+
T Consensus 30 ~~vs~egQ~lF~------~l~Kt~~dv~W~g~~IiV~d~V~I~pPY~ 70 (91)
T PF09793_consen 30 PGVSPEGQKLFD------ALSKTIPDVRWDGKNIIVLDEVKISPPYK 70 (91)
T ss_pred CCcCHHHHHHHH------HHHhhCCCCEECCCeEEEeCceEEcCCCC
Confidence 477888888888 88888763 3578999999 33334443
No 103
>PF07056 DUF1335: Protein of unknown function (DUF1335); InterPro: IPR009766 This family represents a conserved region approximately 130 residues long within a number of proteins of unknown function that seem to be specific to the white spot syndrome virus (WSSV).
Probab=31.09 E-value=97 Score=21.95 Aligned_cols=31 Identities=23% Similarity=0.304 Sum_probs=23.2
Q ss_pred cccEEEEEE------cCCHHHHHHHHHHHHHHHHHhh
Q 033883 44 WTDYMVIAT------GRSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 44 ~aDyfVI~T------a~S~rh~~ala~~i~~~lk~~~ 74 (109)
.+|||||.| |-|.+++.....+++..+.+.+
T Consensus 24 ~~~~~IvttDfLiGlG~s~~~v~~~L~~me~~l~~~g 60 (131)
T PF07056_consen 24 KCDYMIVTTDFLIGLGFSPRNVTKKLKSMEQNLVKHG 60 (131)
T ss_pred ccceEEEehhheeecCCChHHHHHHHHHHHHHHHHcc
Confidence 355655554 8999999888888888887764
No 104
>PRK09004 FMN-binding protein MioC; Provisional
Probab=31.04 E-value=1.3e+02 Score=20.78 Aligned_cols=44 Identities=11% Similarity=-0.004 Sum_probs=29.2
Q ss_pred ccchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCC--cccEEEEEEcCC
Q 033883 5 TKESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCD--WTDYMVIATGRS 55 (109)
Q Consensus 5 ~~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~--~aDyfVI~Ta~S 55 (109)
|-.++.+++ .+++.+.+ .+-++.++|+.+... =.|++||++.+-
T Consensus 12 tGnae~~A~------~l~~~~~~-~g~~~~~~~~~~~~~l~~~~~li~~~sT~ 57 (146)
T PRK09004 12 LGGAEYVAD------HLAEKLEE-AGFSTETLHGPLLDDLSASGLWLIVTSTH 57 (146)
T ss_pred chHHHHHHH------HHHHHHHH-cCCceEEeccCCHHHhccCCeEEEEECCC
Confidence 445678888 88888865 455677777764321 257788877663
No 105
>smart00305 HintC Hint (Hedgehog/Intein) domain C-terminal region. Hedgehog/Intein domain, C-terminal region. Domain has been split to accommodate large insertions of endonucleases.
Probab=30.85 E-value=53 Score=18.28 Aligned_cols=15 Identities=7% Similarity=0.056 Sum_probs=11.1
Q ss_pred CCCeEEEEcCCEEEEccC
Q 033883 92 TGKWVIIDSGLCRILNSL 109 (109)
Q Consensus 92 ~~~WvllD~GdiVVh~~~ 109 (109)
.+.+++ ..+++||+.
T Consensus 28 ~~~fv~---ngi~~hN~~ 42 (46)
T smart00305 28 NHNFIA---NGILVHNCA 42 (46)
T ss_pred CCeEEE---CCEEEEeee
Confidence 456666 689999974
No 106
>KOG2964 consensus Arginase family protein [Amino acid transport and metabolism]
Probab=30.54 E-value=15 Score=29.88 Aligned_cols=72 Identities=21% Similarity=0.248 Sum_probs=45.4
Q ss_pred HhCCCCCeEEEecCCCCCcccEEEE----EEcCCHHHHHHHH-HHHHHHHHHhhhhhccccCCCCCcccCCCCCe-EEEE
Q 033883 26 FDLKADDVKVIPVGEKCDWTDYMVI----ATGRSTWHVKNIA-QAIIYKAKQRQREVGAKQMMLPSVQGQDTGKW-VIID 99 (109)
Q Consensus 26 ~dkKa~dI~vlDv~~~~~~aDyfVI----~Ta~S~rh~~ala-~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~W-vllD 99 (109)
.-.|...+.++-.++.. +|.-+| -||+|.|.-.+.+ ..|++...... + -.+..||.+--.| +|+|
T Consensus 55 t~~rLp~~~v~~~~~e~--~d~AfiGvPldtgtS~rpGarFgP~~IRE~s~~~~---t----~n~s~e~~pfksw~~l~D 125 (361)
T KOG2964|consen 55 TFARLPGVLVLLSGSED--FDIAFIGVPLDTGTSYRPGARFGPSRIREASRRLN---T----VNPSLEGNPFKSWAKLVD 125 (361)
T ss_pred HhhcCCceEEEecCCCc--cceEEeccccCCCccCCCccccCCchhhhhhhhhc---c----cCCCcCCccccChhhhcc
Confidence 33455556666554433 344343 4899988877764 45666654432 1 2567889888898 6889
Q ss_pred cCCEEEE
Q 033883 100 SGLCRIL 106 (109)
Q Consensus 100 ~GdiVVh 106 (109)
||||=|.
T Consensus 126 ~GDIpV~ 132 (361)
T KOG2964|consen 126 CGDIPVT 132 (361)
T ss_pred cCCcchh
Confidence 9998653
No 107
>cd07950 Gallate_Doxase_N The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. In this subfamily, the subunits A and B are fused to make a single polypeptide chain. The dimer interface for this subfamily may resemble the tetramer interface of classical LigAB en
Probab=30.44 E-value=1.2e+02 Score=23.64 Aligned_cols=77 Identities=14% Similarity=0.067 Sum_probs=52.1
Q ss_pred CHHHHHHHHHhCCCCCeEEEecCCCCC-ccc---EEEEEEcCCHHH---------------HHHHHHHHHHHHHHhhhhh
Q 033883 17 SMTSVVNPTFDLKADDVKVIPVGEKCD-WTD---YMVIATGRSTWH---------------VKNIAQAIIYKAKQRQREV 77 (109)
Q Consensus 17 ~i~~i~~~l~dkKa~dI~vlDv~~~~~-~aD---yfVI~Ta~S~rh---------------~~ala~~i~~~lk~~~~~~ 77 (109)
-++.+.+.+.+.+.+=|++++=.-... +.| .|-|.++.+.+- -..||+.|.+.+.+.+++.
T Consensus 36 a~~~~~~~i~~~~PD~iVvi~~dH~~~f~~d~~p~f~Ig~~~~~~~~d~~~~~~~~~~~~g~~~LA~~i~~~~~~~g~~~ 115 (277)
T cd07950 36 GYEPVKQWLAEQKPDVLFMVYNDHVTSFFFDHYSAFALGVGDSYEVADEGGGPRDLPPIRGHAALAQHIAESLVADEFDL 115 (277)
T ss_pred HHHHHHHHHHHhCCCEEEEEcCcHHHHhccccCCcEEEEecccccccccccCCccCCCCCCCHHHHHHHHHHHHhcCCCe
Confidence 567888899999999888888333333 368 899988887732 4678999999888775311
Q ss_pred ccccCCCCCcccCCCCCeEEE
Q 033883 78 GAKQMMLPSVQGQDTGKWVII 98 (109)
Q Consensus 78 ~~~~~~~~~vEG~~~~~Wvll 98 (109)
. ....-+.+.|-|+-|
T Consensus 116 ~-----~~~~~~lDHG~~vPL 131 (277)
T cd07950 116 T-----FFQDKPLDHGCFSPL 131 (277)
T ss_pred e-----eccCCCCCceeeeeH
Confidence 1 112224566777654
No 108
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=30.29 E-value=85 Score=18.09 Aligned_cols=26 Identities=8% Similarity=0.266 Sum_probs=21.8
Q ss_pred EEEEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 48 MVIATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 48 fVI~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
-+...|+|..|-++|+..|.+.+.+.
T Consensus 6 ~i~~~grt~eqK~~l~~~it~~l~~~ 31 (63)
T TIGR00013 6 YILKEGRTDEQKRQLIEGVTEAMAET 31 (63)
T ss_pred EECCCCCCHHHHHHHHHHHHHHHHHH
Confidence 33446899999999999999999876
No 109
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=30.26 E-value=1.6e+02 Score=20.20 Aligned_cols=15 Identities=7% Similarity=-0.108 Sum_probs=11.7
Q ss_pred CCCCeEEEecCCCCC
Q 033883 29 KADDVKVIPVGEKCD 43 (109)
Q Consensus 29 Ka~dI~vlDv~~~~~ 43 (109)
.+..+.++|.-...+
T Consensus 27 ~g~~vllvD~D~q~~ 41 (169)
T cd02037 27 LGYKVGLLDADIYGP 41 (169)
T ss_pred cCCcEEEEeCCCCCC
Confidence 688999999876543
No 110
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=30.12 E-value=55 Score=25.85 Aligned_cols=44 Identities=14% Similarity=0.240 Sum_probs=27.9
Q ss_pred HHHHHHHhCCCCCeEEEe------------cCCCCCcccEEEEEEcCCHHHHHHHHH
Q 033883 20 SVVNPTFDLKADDVKVIP------------VGEKCDWTDYMVIATGRSTWHVKNIAQ 64 (109)
Q Consensus 20 ~i~~~l~dkKa~dI~vlD------------v~~~~~~aDyfVI~Ta~S~rh~~ala~ 64 (109)
.+++.|.. +..++.++| ++++..-+|.|||.-|.+..--+.|++
T Consensus 174 ~iv~~l~~-~~~~~~v~~TIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~rL~e 229 (281)
T PRK12360 174 DILNVIKL-KSKELVFFNTICSATKKRQESAKELSKEVDVMIVIGGKHSSNTQKLVK 229 (281)
T ss_pred HHHHHHHH-hCcccccCCCcchhhhhHHHHHHHHHHhCCEEEEecCCCCccHHHHHH
Confidence 67777754 677777654 222234689999999885544444443
No 111
>COG5495 Uncharacterized conserved protein [Function unknown]
Probab=29.22 E-value=63 Score=25.63 Aligned_cols=26 Identities=19% Similarity=-0.032 Sum_probs=18.7
Q ss_pred CCCcccCCC-CCeEEEEc----------------CCEEEEccC
Q 033883 84 LPSVQGQDT-GKWVIIDS----------------GLCRILNSL 109 (109)
Q Consensus 84 ~~~vEG~~~-~~WvllD~----------------GdiVVh~~~ 109 (109)
++.+++..+ ..|+.+|+ |.||+|.||
T Consensus 58 p~d~~~~ael~~~vfv~vpd~~~s~vaa~~~~rpg~iv~HcSg 100 (289)
T COG5495 58 PLDVAKSAELLLLVFVDVPDALYSGVAATSLNRPGTIVAHCSG 100 (289)
T ss_pred ccchhhChhhhceEEecchHHHHHHHHHhcccCCCeEEEEccC
Confidence 556666554 68999986 457888875
No 112
>PF05116 S6PP: Sucrose-6F-phosphate phosphohydrolase; InterPro: IPR006380 This family of sequences represent sucrose phosphate phosphohydrolase (SPP) from plants and cyanobacteria []. SPP is a member of the Class IIB subfamily of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. SPP catalyzes the final step in the biosynthesis of sucrose, a critically important molecule for plants. Sucrose phosphate synthase (SPS), the prior step in the biosynthesis of sucrose contains a domain which exhibits considerable similarity to SPP albeit without conservation of the catalytic residues. The catalytic machinery of the synthase resides in another domain. It seems likely that the phosphatase-like domain is involved in substrate binding, possibly binding both substrates in a "product-like" orientation prior to ligation by the synthase catalytic domain.; PDB: 1TJ5_A 2B1Q_A 1TJ4_A 1S2O_A 1U2T_A 2D2V_A 1TJ3_A 1U2S_A 2B1R_A 3GYG_B ....
Probab=29.21 E-value=65 Score=24.28 Aligned_cols=38 Identities=21% Similarity=0.233 Sum_probs=23.7
Q ss_pred EEEEEEcCCHHHHHHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEEEEcCCEEEE
Q 033883 47 YMVIATGRSTWHVKNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVIIDSGLCRIL 106 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~WvllD~GdiVVh 106 (109)
.||++||||-.+++.+. ++.+. ...++++-|.|.-|.|
T Consensus 37 ~~v~~TGRs~~~~~~~~-------~~~~l---------------~~Pd~~I~svGt~I~~ 74 (247)
T PF05116_consen 37 LFVYVTGRSLESVLRLL-------REYNL---------------PQPDYIITSVGTEIYY 74 (247)
T ss_dssp EEEEE-SS-HHHHHHHH-------HHCT----------------EE-SEEEETTTTEEEE
T ss_pred eEEEECCCCHHHHHHHH-------HhCCC---------------CCCCEEEecCCeEEEE
Confidence 68999999988877664 23221 1247888888877665
No 113
>TIGR03328 salvage_mtnB methylthioribulose-1-phosphate dehydratase. Members of this family are the methylthioribulose-1-phosphate dehydratase of the methionine salvage pathway. This pathway allows methylthioadenosine, left over from polyamine biosynthesis, to be recycled to methionine.
Probab=29.14 E-value=2.2e+02 Score=20.53 Aligned_cols=54 Identities=17% Similarity=-0.010 Sum_probs=39.3
Q ss_pred cchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 6 KESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 6 ~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
..+.+|++ .+++++.+.+..+.++ +..+=|++.|.|-.+....++.+++.++-.
T Consensus 134 ~gs~ela~------~~~~~l~~~~~~~avl--------l~nHGv~~~G~~~~~A~~~~e~lE~~a~~~ 187 (193)
T TIGR03328 134 QDIARLAD------SVAPYLEAYPDVPGVL--------IRGHGLYAWGRDWEEAKRHLEALEFLFECE 187 (193)
T ss_pred CChHHHHH------HHHHHHhcCCCCCEEE--------EcCCcceEEcCCHHHHHHHHHHHHHHHHHH
Confidence 34566777 7888887544344433 567778899999999999999998877643
No 114
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=29.12 E-value=74 Score=19.66 Aligned_cols=28 Identities=14% Similarity=0.159 Sum_probs=25.3
Q ss_pred cEEEEEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 46 DYMVIATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 46 DyfVI~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
.|-+-|+..++.+++.+|+.|.+.+.+.
T Consensus 10 ~y~i~~~~~~ee~l~~~a~~i~~~i~~~ 37 (89)
T PF05164_consen 10 EYRIKCPDEDEEYLRKAAELINEKINEI 37 (89)
T ss_dssp EEEECETGCGHHHHHHHHHHHHHHHHHH
T ss_pred EEEeecCCCCHHHHHHHHHHHHHHHHHH
Confidence 5778889999999999999999999885
No 115
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=29.09 E-value=1e+02 Score=21.97 Aligned_cols=55 Identities=9% Similarity=0.149 Sum_probs=32.3
Q ss_pred HHHHHHHhC--CCCCeEEEecCCC--CCcccEEE---EEEcCCHHHHHHHHHHHHHHHHHhh
Q 033883 20 SVVNPTFDL--KADDVKVIPVGEK--CDWTDYMV---IATGRSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 20 ~i~~~l~dk--Ka~dI~vlDv~~~--~~~aDyfV---I~Ta~S~rh~~ala~~i~~~lk~~~ 74 (109)
.+..++... ..-++.++|..+. ..+.++.- +..+++..++..+.+.+.++++++.
T Consensus 58 ll~~l~~~~~p~~~~l~iiD~k~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~em~~R~ 119 (205)
T PF01580_consen 58 LLLSLALTYSPDDVQLYIIDPKGSDLAPLADLPHVAAVAVATDPEEILRLLEELVEEMERRQ 119 (205)
T ss_dssp HHHHHHTT--TTTEEEEEE-TTSSCCGGGTT-TTBSS-S-B-SHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCccEEEEEcCCccccchhhhhhhhccccccccHHHHHHHHHHHHHHHHHHH
Confidence 444444432 4556779998843 33444333 3467888899888888888887764
No 116
>PLN00062 TATA-box-binding protein; Provisional
Probab=28.91 E-value=1e+02 Score=22.71 Aligned_cols=27 Identities=19% Similarity=0.160 Sum_probs=21.8
Q ss_pred EEEEEc-CCHHHHHHHHHHHHHHHHHhh
Q 033883 48 MVIATG-RSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 48 fVI~Ta-~S~rh~~ala~~i~~~lk~~~ 74 (109)
=++||| +|..+++.-++.+.+.+++.+
T Consensus 57 KiviTGaks~e~a~~a~~~~~~~L~~lg 84 (179)
T PLN00062 57 KMVCTGAKSEHDSKLAARKYARIIQKLG 84 (179)
T ss_pred eEEEEecCCHHHHHHHHHHHHHHHHHcC
Confidence 367775 799999988899988888764
No 117
>PRK05723 flavodoxin; Provisional
Probab=28.84 E-value=84 Score=22.10 Aligned_cols=43 Identities=14% Similarity=0.036 Sum_probs=24.6
Q ss_pred ccchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCCcc----cEEEEEEcC
Q 033883 5 TKESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCDWT----DYMVIATGR 54 (109)
Q Consensus 5 ~~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~~a----DyfVI~Ta~ 54 (109)
|-.++.+++ .+++.|.+. +-++.++.......+. |.+||++.+
T Consensus 11 tG~ae~~A~------~la~~l~~~-g~~~~~~~~~~~~~~~~~~~~~li~~~sT 57 (151)
T PRK05723 11 YGTAEEVAR------HAESLLKAA-GFEAWHNPRASLQDLQAFAPEALLAVTST 57 (151)
T ss_pred chHHHHHHH------HHHHHHHHC-CCceeecCcCCHhHHHhCCCCeEEEEECC
Confidence 445678888 888888743 4455443322222222 557777765
No 118
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=28.63 E-value=1.1e+02 Score=20.71 Aligned_cols=46 Identities=9% Similarity=0.018 Sum_probs=25.8
Q ss_pred hHHHHhcCCCHHHHHHHHHhCCCCCeEEEecC---CCCCcccEEEEEEcCCHHHHH
Q 033883 8 SETLARKRPSMTSVVNPTFDLKADDVKVIPVG---EKCDWTDYMVIATGRSTWHVK 60 (109)
Q Consensus 8 ~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~---~~~~~aDyfVI~Ta~S~rh~~ 60 (109)
++..++ .|++.|.+. +..+.+-++. ..-.-.|.+|++++-=..++.
T Consensus 11 Tk~~A~------~ia~~l~~~-~~~v~~~~~~~~~~~~~~yD~vi~gspiy~g~~~ 59 (143)
T PF12724_consen 11 TKKIAE------WIAEKLGEE-GELVDLEKVEEDEPDLSDYDAVIFGSPIYAGRIP 59 (143)
T ss_pred HHHHHH------HHHHHHhhh-ccEEEHHhhhhcccccccCCEEEEEEEEECCcCC
Confidence 346666 777777655 4444444431 112356899999865443333
No 119
>PRK10645 divalent-cation tolerance protein CutA; Provisional
Probab=28.58 E-value=1.3e+02 Score=20.48 Aligned_cols=23 Identities=17% Similarity=0.313 Sum_probs=19.1
Q ss_pred cE-EEEEEcCCHHHHHHHHHHHHH
Q 033883 46 DY-MVIATGRSTWHVKNIAQAIIY 68 (109)
Q Consensus 46 Dy-fVI~Ta~S~rh~~ala~~i~~ 68 (109)
++ +|.+|..|....+.||+.+.+
T Consensus 10 ~~~lV~tT~p~~e~A~~ia~~Lve 33 (112)
T PRK10645 10 DAVVVLCTAPDEATAQDLAAKVLA 33 (112)
T ss_pred CEEEEEEeCCCHHHHHHHHHHHHH
Confidence 44 799999999999999987653
No 120
>PRK15031 5-carboxymethyl-2-hydroxymuconate delta-isomerase; Provisional
Probab=28.48 E-value=79 Score=22.02 Aligned_cols=25 Identities=20% Similarity=0.235 Sum_probs=22.2
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHhh
Q 033883 50 IATGRSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 50 I~Ta~S~rh~~ala~~i~~~lk~~~ 74 (109)
|..|||..|-+.+++.|.+.+++..
T Consensus 68 i~~GRs~e~k~~l~~~l~~~l~~~~ 92 (126)
T PRK15031 68 IGAGRSLESRQEVGEMLFALIKAHF 92 (126)
T ss_pred ecCCCCHHHHHHHHHHHHHHHHHHh
Confidence 5679999999999999999998864
No 121
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains. ACT_RelA-SpoT: the ACT domain found C-terminal of the RelA/SpoT domains. Enzymes of the Rel/Spo family enable bacteria to survive prolonged periods of nutrient limitation by controlling guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp) production and subsequent rRNA repression (stringent response). Both the synthesis of (p)ppGpp from ATP and GDP(GTP), and its hydrolysis to GDP(GTP) and pyrophosphate, are catalyzed by Rel/Spo proteins. In Escherichia coli and its close relatives, the metabolism of (p)ppGpp is governed by two homologous proteins, RelA and SpoT. The RelA protein catalyzes (p)ppGpp synthesis in a reaction requiring its binding to ribosomes bearing codon-specified uncharged tRNA. The major role of the SpoT protein is the breakdown of (p)ppGpp by a manganese-dependent (p)ppGpp pyrophosphohydrolase activity. Although the stringent response appears to be tightly regulated by these two enzymes i
Probab=28.39 E-value=1e+02 Score=16.42 Aligned_cols=48 Identities=6% Similarity=0.057 Sum_probs=28.9
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCCC-CcccEEEEEEcCCHHHHHHHHHHH
Q 033883 18 MTSVVNPTFDLKADDVKVIPVGEKC-DWTDYMVIATGRSTWHVKNIAQAI 66 (109)
Q Consensus 18 i~~i~~~l~dkKa~dI~vlDv~~~~-~~aDyfVI~Ta~S~rh~~ala~~i 66 (109)
+..+..++.+. .-+|.-+...... .++.+.+.....+..++.++.+.+
T Consensus 12 l~~i~~~l~~~-~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 60 (71)
T cd04876 12 LADITTVIAEE-KINILSVNTRTDDDGLATIRLTLEVRDLEHLARIMRKL 60 (71)
T ss_pred HHHHHHHHHhC-CCCEEEEEeEECCCCEEEEEEEEEECCHHHHHHHHHHH
Confidence 44677777665 5557666665443 455556666667777776655443
No 122
>cd05569 PTS_IIB_fructose PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and FruB) each containing 3 domains. The FruA protein contains two tandem nonidentical IIB domains and a C-terminal IIC transmembrane domain. Both IIB domains of FruA are included in this alignment. The FruB protein (also referred to as diphosphoryl transfer protein) contains a IIA domain, a domain of unknown function, and an Hpr-like domain called FPr (fructose-inducible HPr). This familiy also includes the IIB domains of several fructose-like PTS permeases including the Frv permease encoded by the frvABXR operon, the Frw permease encoded by the frwACBD operon, the Frx permease encoded by the hrsA gene, and the Fry permease encoded by the fryABC (ypdDGH) operon. FruAB takes up exogenous fructose, releasing the 1-p
Probab=27.94 E-value=1.1e+02 Score=19.72 Aligned_cols=30 Identities=27% Similarity=0.140 Sum_probs=25.0
Q ss_pred EEEEEcCCHHHHHHHHHHHHHHHHHhhhhh
Q 033883 48 MVIATGRSTWHVKNIAQAIIYKAKQRQREV 77 (109)
Q Consensus 48 fVI~Ta~S~rh~~ala~~i~~~lk~~~~~~ 77 (109)
+|++.+.-..|-.-.++.+++.++++|++.
T Consensus 3 ~i~ac~~G~a~s~laa~~L~~aa~~~g~~~ 32 (96)
T cd05569 3 AVTACPTGIAHTYMAAEALEKAAKKLGWEI 32 (96)
T ss_pred EEEECCCchhHHHHHHHHHHHHHHHCCCeE
Confidence 677888888888888999999999987633
No 123
>PF04430 DUF498: Protein of unknown function (DUF498/DUF598); InterPro: IPR007523 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This is entry represents an essential factor for the assembly of mitochondrial NADH:ubiquinone oxidoreductase complex (complex I) []. The crystal structure of this protein revealed a 3-layer beta+alpha/beta/alpha topology [].; PDB: 2K2E_A 2Q4Q_B 2AB1_A 2FVT_A 2CYJ_A 1IHN_B 2GM2_A 3CPK_A 2FI9_A.
Probab=27.64 E-value=29 Score=23.02 Aligned_cols=29 Identities=10% Similarity=0.234 Sum_probs=19.9
Q ss_pred cccEEEEEEcCCHHHHHHHHHHHHHHHHHhhh
Q 033883 44 WTDYMVIATGRSTWHVKNIAQAIIYKAKQRQR 75 (109)
Q Consensus 44 ~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~~~ 75 (109)
-.|++||.||.+... +..++.+.++++|.
T Consensus 53 ~pe~liiGtG~~~~~---~~~~~~~~l~~~GI 81 (110)
T PF04430_consen 53 KPEVLIIGTGKRQLF---LPPELREYLRKKGI 81 (110)
T ss_dssp S-SEEEEEETTS-SE---CTHHHHHHHHTTT-
T ss_pred CCcEEEEccCCcccc---CCHHHHHHHHHcCC
Confidence 459999999998333 34667888877764
No 124
>PF02962 CHMI: 5-carboxymethyl-2-hydroxymuconate isomerase; InterPro: IPR004220 5-carboxymethyl-2-hydroxymuconate isomerase transforms 5-carboxymethyl-2-hydroxy-muconic acid into 5-oxo-pent-3-ene-1,2,5-tricarboxylic acid during the third step of the homoprotocatechuate catabolic pathway []. Homoprotocatechuate (HPC; 3,4-dihydroxyphenylacetate) is catabolized to Krebs cycle intermediates via extradiol (meta-) cleavage and the necessary enzymes are chromosomally encoded in a variety of bacteria []. 5-carboxymethyl-2-hydroxymuconate isomerase is probably a dimer of two identical subunits []. A comparison of the N-terminal half of the isomerase/decarboxylase sequence from the pathway (both encoded by the gene hpcE), with the second half showed significant similarity. This suggests that a duplication may have occurred to produce a bifunctional gene [].; PDB: 3E6Q_H 1OTG_B.
Probab=27.64 E-value=78 Score=21.96 Aligned_cols=24 Identities=29% Similarity=0.376 Sum_probs=20.3
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 50 IATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 50 I~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
|..|||..|-+++.+.|.+.+++.
T Consensus 67 il~GRs~e~k~~l~~~l~~~l~~~ 90 (124)
T PF02962_consen 67 ILAGRSEEQKKALSEALLAVLKAH 90 (124)
T ss_dssp EETT--HHHHHHHHHHHHHHHHHH
T ss_pred ecCCCCHHHHHHHHHHHHHHHHHH
Confidence 678999999999999999999886
No 125
>cd00580 CHMI 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the homoprotocatechuate pathway, one of the microbial meta-fission pathways that degrade aromatic carbon sources to citric acid cycle intermediates. Despite the structural similarity of CHMI with 4-oxalocrotonate tautomerase (4-OT) and macrophage migration inhibitory factor (MIF), there is no significant sequence similarity among these protein families, and therefore, they are not combined in one hierarchy.
Probab=27.61 E-value=82 Score=20.83 Aligned_cols=24 Identities=17% Similarity=0.303 Sum_probs=21.2
Q ss_pred EEcCCHHHHHHHHHHHHHHHHHhh
Q 033883 51 ATGRSTWHVKNIAQAIIYKAKQRQ 74 (109)
Q Consensus 51 ~Ta~S~rh~~ala~~i~~~lk~~~ 74 (109)
..|||..|-+++.+.|.+.+.+..
T Consensus 68 ~~GRs~eqK~~l~~~i~~~l~~~~ 91 (113)
T cd00580 68 LAGRSEEQKQELSEALLAALRAHL 91 (113)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHhh
Confidence 458999999999999999998863
No 126
>PRK06949 short chain dehydrogenase; Provisional
Probab=27.31 E-value=1.3e+02 Score=21.65 Aligned_cols=8 Identities=25% Similarity=-0.230 Sum_probs=6.2
Q ss_pred CEEEEccC
Q 033883 102 LCRILNSL 109 (109)
Q Consensus 102 diVVh~~~ 109 (109)
|++|||++
T Consensus 88 d~li~~ag 95 (258)
T PRK06949 88 DILVNNSG 95 (258)
T ss_pred CEEEECCC
Confidence 68888875
No 127
>PF05651 Diacid_rec: Putative sugar diacid recognition; InterPro: IPR008599 This region is found in several proteins characterised as carbohydrate diacid regulators (e.g. P36047 from SWISSPROT). An HTH DNA-binding motif is found at the C terminus of these proteins suggesting that this region includes the sugar recognition region.
Probab=27.10 E-value=1.4e+02 Score=20.87 Aligned_cols=36 Identities=14% Similarity=0.362 Sum_probs=30.3
Q ss_pred HHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHH
Q 033883 9 ETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTW 57 (109)
Q Consensus 9 ~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~r 57 (109)
.++|+ .+++.+.+.=+.||-++|-++ .||||+..+|
T Consensus 3 ~~~Aq------~Iv~~~~~~i~~~inimd~~G-------~IIAStd~~R 38 (135)
T PF05651_consen 3 KELAQ------KIVDEIMEIIGYNINIMDENG-------IIIASTDPER 38 (135)
T ss_pred HHHHH------HHHHHHHHHcCCCEEEECCCc-------EEEecCChhh
Confidence 46777 899999999999999988544 7999999988
No 128
>PRK05456 ATP-dependent protease subunit HslV; Provisional
Probab=27.04 E-value=86 Score=22.71 Aligned_cols=31 Identities=10% Similarity=-0.029 Sum_probs=26.3
Q ss_pred CCc-ccEEEEEEcCCHHHHHHHHHHHHHHHHH
Q 033883 42 CDW-TDYMVIATGRSTWHVKNIAQAIIYKAKQ 72 (109)
Q Consensus 42 ~~~-aDyfVI~Ta~S~rh~~ala~~i~~~lk~ 72 (109)
..+ .|++.+|.+-|.-+.+.+++.++..++.
T Consensus 36 ~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~ 67 (172)
T PRK05456 36 RRLYNGKVLAGFAGSTADAFTLFERFEAKLEE 67 (172)
T ss_pred EEeCCCCEEEEEeccHHHHHHHHHHHHHHHHH
Confidence 345 8999999999999999999999875543
No 129
>COG1213 Predicted sugar nucleotidyltransferases [Cell envelope biogenesis, outer membrane]
Probab=26.87 E-value=1.2e+02 Score=23.71 Aligned_cols=60 Identities=13% Similarity=0.029 Sum_probs=31.1
Q ss_pred CCcccEEEEEEcCCHHHHHHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEEEEc--CCEEEEcc
Q 033883 42 CDWTDYMVIATGRSTWHVKNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVIIDS--GLCRILNS 108 (109)
Q Consensus 42 ~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~WvllD~--GdiVVh~~ 108 (109)
-..++++|+|.|.- ++-+++.+++..+...+-.++.+...+...+=|+..|+ |++++-|+
T Consensus 44 ~gi~e~vvV~~g~~-------~~lve~~l~~~~~~~~iv~N~~y~ktN~~~Sl~~akd~~~~~fii~~s 105 (239)
T COG1213 44 AGITEFVVVTNGYR-------ADLVEEFLKKYPFNAKIVINSDYEKTNTGYSLLLAKDYMDGRFILVMS 105 (239)
T ss_pred cCCceEEEEeccch-------HHHHHHHHhcCCcceEEEeCCCcccCCceeEEeeehhhhcCcEEEEeC
Confidence 34678888887873 45566667665432222221122222223456666665 45555443
No 130
>PLN02887 hydrolase family protein
Probab=26.87 E-value=66 Score=27.89 Aligned_cols=19 Identities=37% Similarity=0.410 Sum_probs=15.1
Q ss_pred EEEEEEcCCHHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQA 65 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~ 65 (109)
.|+|||||+...++.+++.
T Consensus 343 ~~vIATGR~~~~i~~~l~~ 361 (580)
T PLN02887 343 KVVIATGKARPAVIDILKM 361 (580)
T ss_pred eEEEEcCCCHHHHHHHHHH
Confidence 5999999999877765543
No 131
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=26.22 E-value=1.7e+02 Score=18.19 Aligned_cols=37 Identities=14% Similarity=0.152 Sum_probs=25.3
Q ss_pred CCeEEEecCCCC--------CcccEEEEEEcCCHHHHHHHHHHHH
Q 033883 31 DDVKVIPVGEKC--------DWTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 31 ~dI~vlDv~~~~--------~~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
-|++++|..+.. ..+|+.|+.+-.+..-++++.+-+.
T Consensus 40 ~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~~s~~~~~~~~~ 84 (104)
T cd02042 40 YDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSPLDLDGLEKLLE 84 (104)
T ss_pred CCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCHHHHHHHHHHHH
Confidence 355556665542 2688888888888887777766554
No 132
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=25.46 E-value=2.6e+02 Score=20.06 Aligned_cols=47 Identities=11% Similarity=0.115 Sum_probs=32.1
Q ss_pred HHHHHHHhCCCCCeEEEecCCCC---------CcccEEEEEEcCCHHHHHHHHHHH
Q 033883 20 SVVNPTFDLKADDVKVIPVGEKC---------DWTDYMVIATGRSTWHVKNIAQAI 66 (109)
Q Consensus 20 ~i~~~l~dkKa~dI~vlDv~~~~---------~~aDyfVI~Ta~S~rh~~ala~~i 66 (109)
.+.+.+.++-..|++++|..... ..+|+.|+++-.+..-.+++.+.+
T Consensus 138 ~~l~~l~~~y~~D~IiiD~pp~~~~~~~~~l~~~aD~viiV~~~~~~~~~~~~~~~ 193 (207)
T TIGR03018 138 SLLHELARRYPDRIIIIDTPPLLVFSEARALARLVGQIVLVVEEGRTTQEAVKEAL 193 (207)
T ss_pred HHHHHHHhhCCCCEEEEECCCCcchhHHHHHHHhCCEEEEEEECCCCCHHHHHHHH
Confidence 34444444422399999998543 378999999888877777766544
No 133
>PRK09627 oorA 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed
Probab=25.22 E-value=2.3e+02 Score=23.09 Aligned_cols=24 Identities=17% Similarity=0.248 Sum_probs=20.5
Q ss_pred cccEEEEEEcCCHHHHHHHHHHHH
Q 033883 44 WTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 44 ~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
=+|+.||+-|.+.+.++...+.++
T Consensus 274 dAd~~IV~~GSt~~~~keAv~~lr 297 (375)
T PRK09627 274 DAEILIIAYGSVSLSAKEAIKRLR 297 (375)
T ss_pred CCCEEEEEeCCCHHHHHHHHHHHH
Confidence 389999999999999987777654
No 134
>KOG3782 consensus Predicted membrane protein, contains type II SA sequence [General function prediction only]
Probab=25.15 E-value=2.2e+02 Score=21.31 Aligned_cols=57 Identities=16% Similarity=0.134 Sum_probs=41.8
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHHhhh
Q 033883 18 MTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQRQR 75 (109)
Q Consensus 18 i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~~~ 75 (109)
++.-+...+-||-.++-.+.+.+.-+-- -.=|-=++|+-|+--|.++|-+.+|+++.
T Consensus 37 lE~~IA~vDPkK~i~vgsFR~~p~G~q~-~~kV~yarSE~hLTEl~E~iCd~mk~Y~~ 93 (189)
T KOG3782|consen 37 LEEAIAKVDPKKMIDVGSFRLDPQGNQI-SKKVRYARSEMHLTELMEKICDKMKDYLK 93 (189)
T ss_pred HHHHHHhcCchheeeecceEECCCCCee-eeeeccchhHHHHHHHHHHHHHHHHHHHH
Confidence 4445555677888888888887763211 11277799999999999999999998764
No 135
>COG4031 Predicted metal-binding protein [General function prediction only]
Probab=25.15 E-value=1.4e+02 Score=22.76 Aligned_cols=35 Identities=11% Similarity=0.078 Sum_probs=28.8
Q ss_pred cCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHH
Q 033883 38 VGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQ 72 (109)
Q Consensus 38 v~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~ 72 (109)
+++-+++-..+||.|+.|.+--..+++.+.+.++.
T Consensus 191 l~eGss~Qei~vVTTa~s~eeGe~V~~~Ln~~lrd 225 (227)
T COG4031 191 LSEGSSVQEIRVVTTAGSREEGERVMNLLNEILRD 225 (227)
T ss_pred eecCCceeEEEEEEeecchhhHHHHHHHHHHHHhh
Confidence 45556788999999999999998888888777654
No 136
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=24.94 E-value=1.3e+02 Score=17.18 Aligned_cols=24 Identities=25% Similarity=0.335 Sum_probs=19.5
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 50 IATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 50 I~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
+..|+|..|-++|++.|-+.+.+.
T Consensus 7 ~~~g~~~e~K~~l~~~it~~~~~~ 30 (60)
T PF01361_consen 7 IPEGRTAEQKRELAEAITDAVVEV 30 (60)
T ss_dssp EESTS-HHHHHHHHHHHHHHHHHH
T ss_pred ECCCCCHHHHHHHHHHHHHHHHHH
Confidence 346789999999999999999875
No 137
>PRK00341 hypothetical protein; Provisional
Probab=24.74 E-value=2.1e+02 Score=18.65 Aligned_cols=46 Identities=15% Similarity=0.159 Sum_probs=30.5
Q ss_pred HHHHHHHhCCCCCe--EEEe--cCCCCCcccEEEEEEcCCHHHHHHHHHHHH
Q 033883 20 SVVNPTFDLKADDV--KVIP--VGEKCDWTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 20 ~i~~~l~dkKa~dI--~vlD--v~~~~~~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
.+.+++. +.+ ++ ..+. -+..-.|.-+=|-+++.|..|+.+|-+.+.
T Consensus 33 ~V~~iv~-~~~-~~~~~~~~~k~Ss~GkY~S~tv~i~~~s~~q~~~iy~~L~ 82 (91)
T PRK00341 33 LVIEILQ-KHA-DVDLSTLAERQSSNGKYTTVQLHIVATDEDQLQDINSALR 82 (91)
T ss_pred HHHHHHH-HhC-CCcccceeeccCCCCEEEEEEEEEEECCHHHHHHHHHHHh
Confidence 5566664 334 33 2222 233345889999999999999999877654
No 138
>PF03270 DUF269: Protein of unknown function, DUF269; InterPro: IPR004952 This family includes several proteins of unknown function. Members of this family may be involved in nitrogen fixation, since they are found within nitrogen fixation operons.; PDB: 3NJ2_B 3G7P_A.
Probab=24.70 E-value=87 Score=21.96 Aligned_cols=40 Identities=25% Similarity=0.173 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEEEEcCCEEEEc
Q 033883 60 KNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVIIDSGLCRILN 107 (109)
Q Consensus 60 ~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~WvllD~GdiVVh~ 107 (109)
+|+|-.|+++--.. .++....+.|| -+|+|+=+|.+||-|
T Consensus 42 ~Ava~~iEk~tG~m-----~~~~~~lshEG---FGr~ll~~GrLvvv~ 81 (122)
T PF03270_consen 42 NAVALAIEKETGLM-----ASPMMDLSHEG---FGRALLFAGRLVVVN 81 (122)
T ss_dssp HHHHHHHHHHHS--------EEEEEE-TTS----EEEEEEETTEEEEE
T ss_pred HHHHHHHHHHhCCc-----hhhhhccCCCC---cceEEEEeCcEEEee
Confidence 56666666543221 11101224555 489999999999976
No 139
>PF02780 Transketolase_C: Transketolase, C-terminal domain; InterPro: IPR005476 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 2E6K_A 3JU3_A 2R8P_B ....
Probab=24.48 E-value=99 Score=20.39 Aligned_cols=23 Identities=22% Similarity=0.219 Sum_probs=18.2
Q ss_pred ccEEEEEEcCCHHHHHHHHHHHH
Q 033883 45 TDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 45 aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
.|..||++|..-.++...++.+.
T Consensus 10 ~di~iia~G~~~~~al~A~~~L~ 32 (124)
T PF02780_consen 10 ADITIIAYGSMVEEALEAAEELE 32 (124)
T ss_dssp SSEEEEEETTHHHHHHHHHHHHH
T ss_pred CCEEEEeehHHHHHHHHHHHHHH
Confidence 58899999998877777666554
No 140
>PRK12384 sorbitol-6-phosphate dehydrogenase; Provisional
Probab=24.47 E-value=2.3e+02 Score=20.45 Aligned_cols=8 Identities=13% Similarity=-0.168 Sum_probs=6.6
Q ss_pred CEEEEccC
Q 033883 102 LCRILNSL 109 (109)
Q Consensus 102 diVVh~~~ 109 (109)
|++|||+|
T Consensus 83 d~vv~~ag 90 (259)
T PRK12384 83 DLLVYNAG 90 (259)
T ss_pred CEEEECCC
Confidence 78999975
No 141
>PRK05854 short chain dehydrogenase; Provisional
Probab=24.46 E-value=2.2e+02 Score=21.73 Aligned_cols=8 Identities=25% Similarity=-0.168 Sum_probs=6.8
Q ss_pred CEEEEccC
Q 033883 102 LCRILNSL 109 (109)
Q Consensus 102 diVVh~~~ 109 (109)
|++|||+|
T Consensus 95 D~li~nAG 102 (313)
T PRK05854 95 HLLINNAG 102 (313)
T ss_pred cEEEECCc
Confidence 78999986
No 142
>COG0646 MetH Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]
Probab=24.30 E-value=51 Score=26.61 Aligned_cols=17 Identities=29% Similarity=0.524 Sum_probs=14.9
Q ss_pred EEcCCHHHHHHHHHHHH
Q 033883 51 ATGRSTWHVKNIAQAII 67 (109)
Q Consensus 51 ~Ta~S~rh~~ala~~i~ 67 (109)
|-|+++.|++++++.|.
T Consensus 294 CCGTTPeHIraia~~v~ 310 (311)
T COG0646 294 CCGTTPEHIRAIAEAVK 310 (311)
T ss_pred ccCCCHHHHHHHHHHhc
Confidence 67999999999998764
No 143
>PF02574 S-methyl_trans: Homocysteine S-methyltransferase; InterPro: IPR003726 S-methylmethionine: homocysteine methyltransferase 2.1.1.10 from EC from Escherichia coli accepts selenohomocysteine as a substrate. S-methylmethionine is an abundant plant product that can be utilised for methionine biosynthesis []. Human methionine synthase (5-methyltetrahydrofolate:L-homocysteine S-transmethylase; 2.1.1.13 from EC) shares 53 and 63% identity with the E. coli and the presumptive Caenorhabditis elegans proteins, respectively, and contains all residues implicated in B12 binding to the E. coli protein []. Betaine--homocysteine S-methyltransferase (2.1.1.5 from EC) converts betaine and homocysteine to dimethylglycine and methionine, respectively. This reaction is also required for the irreversible oxidation of choline [].; GO: 0008898 homocysteine S-methyltransferase activity; PDB: 1UMY_A 1LT8_B 1LT7_B 3BOF_B 1Q7Q_B 1Q85_B 1Q7Z_A 1Q7M_A 1Q8A_B 1Q8J_B ....
Probab=24.29 E-value=39 Score=26.16 Aligned_cols=17 Identities=24% Similarity=0.458 Sum_probs=11.2
Q ss_pred EEcCCHHHHHHHHHHHH
Q 033883 51 ATGRSTWHVKNIAQAII 67 (109)
Q Consensus 51 ~Ta~S~rh~~ala~~i~ 67 (109)
|-|+++.|+++|++.+.
T Consensus 288 CCGt~P~hI~al~~~l~ 304 (305)
T PF02574_consen 288 CCGTTPEHIRALAKALD 304 (305)
T ss_dssp -TT--HHHHHHHHHHTH
T ss_pred CCCCCHHHHHHHHHHhc
Confidence 67888888888888765
No 144
>PF13605 DUF4141: Domain of unknown function (DUF4141)
Probab=24.23 E-value=30 Score=21.03 Aligned_cols=15 Identities=33% Similarity=0.782 Sum_probs=11.7
Q ss_pred cCCCCCeEEEEcCCE
Q 033883 89 GQDTGKWVIIDSGLC 103 (109)
Q Consensus 89 G~~~~~WvllD~Gdi 103 (109)
|.-..+|++.|-||+
T Consensus 16 ~~a~AQWvV~DP~Nl 30 (55)
T PF13605_consen 16 GPARAQWVVTDPGNL 30 (55)
T ss_pred CcceeEEEEeCchHH
Confidence 345679999999875
No 145
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=24.16 E-value=1.3e+02 Score=21.73 Aligned_cols=33 Identities=21% Similarity=0.239 Sum_probs=20.9
Q ss_pred CCCcccchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCC
Q 033883 1 MTGVTKESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEK 41 (109)
Q Consensus 1 ~~~~~~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~ 41 (109)
+||+-| |-.++. +++-+.++++..++++|..+.
T Consensus 31 ~TGsGK-S~~~~~-------ll~~l~~~~~~~~ii~D~~GE 63 (229)
T PF01935_consen 31 TTGSGK-SNTVKV-------LLEELLKKKGAKVIIFDPHGE 63 (229)
T ss_pred CCCCCH-HHHHHH-------HHHHHHhcCCCCEEEEcCCCc
Confidence 466666 444444 444444366678999999885
No 146
>PF00543 P-II: Nitrogen regulatory protein P-II members of this family.; InterPro: IPR002187 In Gram-negative bacteria, the activity and concentration of glutamine synthetase (GS) is regulated in response to nitrogen source availability. PII, a tetrameric protein encoded by the glnB gene, is a component of the adenylation cascade involved in the regulation of GS activity []. In nitrogen-limiting conditions, when the ratio of glutamine to 2-ketoglutarate decreases, P-II is uridylylated on a tyrosine residue to form P-II-UMP. P-II-UMP allows the deadenylation of GS, thus activating the enzyme. Conversely, in nitrogen excess, P-II-UMP is deuridylated and then promotes the adenylation of GS. P-II also indirectly controls the transcription of the GS gene (glnA) by preventing NR-II (ntrB) to phosphorylate NR-I (ntrC) which is the transcriptional activator of glnA. Once P-II is uridylylated, these events are reversed. P-II is a protein of about 110 amino acid residues extremely well conserved. The tyrosine which is uridylated is located in the central part of the protein. In cyanobacteria, P-II seems to be phosphorylated on a serine residue rather than being uridylated. In methanogenic archaebacteria, the nitrogenase iron protein gene (nifH) is followed by two open reading frames highly similar to the eubacterial P-II protein []. These proteins could be involved in the regulation of nitrogen fixation. In the red alga, Porphyra purpurea, there is a glnB homologue encoded in the chloroplast genome. Other proteins highly similar to glnB are: Bacillus subtilis protein nrgB []. Escherichia coli hypothetical protein ybaI []. ; GO: 0030234 enzyme regulator activity, 0006808 regulation of nitrogen utilization; PDB: 1V3S_B 1V3R_C 2XZW_A 2XUL_A 2V5H_J 2XG8_C 2JJ4_F 1QY7_C 4AFF_A 2XBP_A ....
Probab=24.02 E-value=2.1e+02 Score=18.43 Aligned_cols=56 Identities=16% Similarity=0.093 Sum_probs=36.9
Q ss_pred CCCHHHHHHHHHhCCCCCeEEEecCCCCCc----------------ccEEEEEEcCCHHHHHHHHHHHHHHH
Q 033883 15 RPSMTSVVNPTFDLKADDVKVIPVGEKCDW----------------TDYMVIATGRSTWHVKNIAQAIIYKA 70 (109)
Q Consensus 15 ~~~i~~i~~~l~dkKa~dI~vlDv~~~~~~----------------aDyfVI~Ta~S~rh~~ala~~i~~~l 70 (109)
++.++.+.++|.+.......++++++.... ..-..|-..-++.+++.+.+.|.+.+
T Consensus 7 ~~~~~~v~~aL~~~G~~g~Tv~~v~G~G~~~~~~~~~~g~~~~~~~~~k~~i~ivv~d~~v~~iv~~I~~~~ 78 (102)
T PF00543_consen 7 PEKLEEVIEALREAGVPGMTVSEVRGRGRQKGQAEIYRGDEYFVEFSPKVKIEIVVPDEDVEEIVEAISEAA 78 (102)
T ss_dssp GGGHHHHHHHHHHTTGSCEEEEEEEEESSTTTEEEEETTEEECCCEEEEEEEEEEEEGGGHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHCCCCeEEEEEeEEecccccccceeeeeeeeecccccEEEEEEECHHhHHHHHHHHHHhc
Confidence 456789999999999999999999884211 11122333334457776666666544
No 147
>PF00581 Rhodanese: Rhodanese-like domain This Prosite entry represents a subset of this family.; InterPro: IPR001763 Rhodanese, a sulphurtransferase involved in cyanide detoxification (see IPR001307 from INTERPRO) shares evolutionary relationship with a large family of proteins [], including Cdc25 phosphatase catalytic domain. non-catalytic domains of eukaryotic dual-specificity MAPK-phosphatases. non-catalytic domains of yeast PTP-type MAPK-phosphatases. non-catalytic domains of yeast Ubp4, Ubp5, Ubp7. non-catalytic domains of mammalian Ubp-Y. Drosophila heat shock protein HSP-67BB. several bacterial cold-shock and phage shock proteins. plant senescence associated proteins. catalytic and non-catalytic domains of rhodanese (see IPR001307 from INTERPRO). Rhodanese has an internal duplication. This domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases [].; PDB: 2J6P_D 2FSX_A 1UAR_A 1OKG_A 1GMX_A 1GN0_A 3NTD_B 3NTA_B 3NT6_A 1C25_A ....
Probab=23.96 E-value=1e+02 Score=18.98 Aligned_cols=21 Identities=14% Similarity=0.156 Sum_probs=15.2
Q ss_pred HHHHHHHhCCCCCeEEEecCCCCC
Q 033883 20 SVVNPTFDLKADDVKVIPVGEKCD 43 (109)
Q Consensus 20 ~i~~~l~dkKa~dI~vlDv~~~~~ 43 (109)
++.+.+ +..++.+||+|....
T Consensus 4 el~~~l---~~~~~~liD~R~~~~ 24 (113)
T PF00581_consen 4 ELKEML---ENESVLLIDVRSPEE 24 (113)
T ss_dssp HHHHHH---TTTTEEEEEESSHHH
T ss_pred HHHhhh---hCCCeEEEEeCCHHH
Confidence 444555 788899999997643
No 148
>PHA02091 hypothetical protein
Probab=23.83 E-value=1.2e+02 Score=19.11 Aligned_cols=40 Identities=25% Similarity=0.327 Sum_probs=30.4
Q ss_pred cCCHHHHHHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEEEEcCC
Q 033883 53 GRSTWHVKNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVIIDSGL 102 (109)
Q Consensus 53 a~S~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~WvllD~Gd 102 (109)
.+-+.+-..||+.|.++.|-+. +.+-|.+.+.|.|==||-
T Consensus 15 ~r~~~~~y~larsiv~fak~r~----------l~ii~~d~~~w~lnvygp 54 (72)
T PHA02091 15 CRKNIVDYKLARSIVDFAKTRE----------LQIIQRDRGMWTLNVYGP 54 (72)
T ss_pred hhhhhHHHHHHHHHHHHHhhhe----------EEEEecCCceEEEEeecc
Confidence 4556677889999999987752 345577889999987774
No 149
>KOG1325 consensus Lysophospholipase [Lipid transport and metabolism]
Probab=23.57 E-value=3.3e+02 Score=23.89 Aligned_cols=63 Identities=14% Similarity=0.161 Sum_probs=42.6
Q ss_pred EecCCC--CCcccEEEEEEcCCHHHHHHHHHHHHHHHHHh-------hhhhccccCCCCCcccCCCCCeEEEEcCCEEEE
Q 033883 36 IPVGEK--CDWTDYMVIATGRSTWHVKNIAQAIIYKAKQR-------QREVGAKQMMLPSVQGQDTGKWVIIDSGLCRIL 106 (109)
Q Consensus 36 lDv~~~--~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~-------~~~~~~~~~~~~~vEG~~~~~WvllD~GdiVVh 106 (109)
||.... +..--.-|-+||---|-|-+.+-.+ .+|+++ |+ ++ ..-.+-|...|.|.+ |++.+|
T Consensus 37 l~~~~~~~~d~P~vaIa~SGGG~RAMl~g~G~L-aamder~~~~~l~GL---Lq--s~tYlaGlSGstW~v---ssLa~n 107 (571)
T KOG1325|consen 37 LDSDSLVSSDGPVVGIAGSGGGLRAMLSGAGAL-AAMDERTDNAGLGGL---LQ--SATYLAGLSGGSWLV---SSLAVN 107 (571)
T ss_pred ccccccccCCCCeEEEEecCCCHHHHhhhhHHH-HHHHhhccCCcccch---hh--hhhhhcccCCCceee---eeeEEC
Confidence 444442 2344556788888888888887754 577888 54 22 244788999999998 556666
Q ss_pred c
Q 033883 107 N 107 (109)
Q Consensus 107 ~ 107 (109)
|
T Consensus 108 n 108 (571)
T KOG1325|consen 108 N 108 (571)
T ss_pred C
Confidence 5
No 150
>PRK15448 ethanolamine catabolic microcompartment shell protein EutN; Provisional
Probab=23.51 E-value=1.1e+02 Score=20.38 Aligned_cols=30 Identities=10% Similarity=0.141 Sum_probs=25.2
Q ss_pred CCCCeEEEecCCCCCcccEEEEEEcCCHHHH
Q 033883 29 KADDVKVIPVGEKCDWTDYMVIATGRSTWHV 59 (109)
Q Consensus 29 Ka~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~ 59 (109)
.+.-++++|.-+ +..-|+.++++|.|.|+.
T Consensus 37 ~g~~~VAvD~vG-AG~Ge~Vlv~~GssAR~~ 66 (95)
T PRK15448 37 DGQCAVAIDNIG-AGTGEWVLLVSGSSARQA 66 (95)
T ss_pred CCCEEEEEECCC-CCCCCEEEEeCChHHhhh
Confidence 577788899888 678899999999988764
No 151
>PF00408 PGM_PMM_IV: Phosphoglucomutase/phosphomannomutase, C-terminal domain; InterPro: IPR005843 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents the C-terminal domain alpha-D-phosphohexomutase enzymes.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 1KFQ_B 1KFI_A 3PDK_B 2F7L_A 1TUO_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=23.34 E-value=1.8e+02 Score=17.49 Aligned_cols=34 Identities=15% Similarity=0.040 Sum_probs=24.5
Q ss_pred EecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHH
Q 033883 36 IPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAK 71 (109)
Q Consensus 36 lDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk 71 (109)
+--++-.+. .=|.+.|.+...++.+++.+.+.+|
T Consensus 40 vR~SgTEP~--iRv~~Ea~~~~~~~~~~~~i~~~ik 73 (73)
T PF00408_consen 40 VRPSGTEPK--IRVYVEAPDEEELEEIAEEIAEAIK 73 (73)
T ss_dssp EEEESSSSE--EEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred EECCCCCce--EEEEEEeCCHHHHHHHHHHHHHhhC
Confidence 333443444 4467888899999999999988764
No 152
>cd07187 YvcK_like family of mostly uncharacterized proteins similar to B.subtilis YvcK. One member of this protein family, YvcK from Bacillus subtilis, has been proposed to play a role in carbon metabolism, since its function is essential for growth on intermediates of the Krebs cycle and the pentose phosphate pathway. In general, this family of mostly uncharacterized proteins is related to the CofD-like protein family. CofD has been characterized as a 2-phospho-L-lactate transferase involved in F420 biosynthesis. This family appears to have the same conserved phosphate binding site as the other family in this hierarchy, but a different substrate binding site.
Probab=22.93 E-value=1.6e+02 Score=23.48 Aligned_cols=46 Identities=15% Similarity=0.023 Sum_probs=35.9
Q ss_pred CHHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHH
Q 033883 17 SMTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 17 ~i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
.+.-+.++|.+.+|.-|.+.++.....-||. -+-..|+++|++++.
T Consensus 195 lv~gI~eAi~~s~a~kV~v~N~~~~~get~~-----~~~~d~v~~i~~~~~ 240 (308)
T cd07187 195 LVKGIAEAIRASKAPKVYICNLMTQPGETDG-----FTLSDHVRALLRHLG 240 (308)
T ss_pred CchhHHHHHHhCCCCEEEEecCCCCCCCCCC-----CCHHHHHHHHHHHhC
Confidence 4567899999999999999999887766665 244568888877765
No 153
>PLN02382 probable sucrose-phosphatase
Probab=22.45 E-value=88 Score=25.69 Aligned_cols=18 Identities=33% Similarity=0.477 Sum_probs=14.3
Q ss_pred EEEEEEcCCHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQ 64 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~ 64 (109)
.||+||||+...++.+.+
T Consensus 47 ~fv~aTGR~~~~~~~l~~ 64 (413)
T PLN02382 47 LLVFSTGRSPTLYKELRK 64 (413)
T ss_pred eEEEEcCCCHHHHHHHHH
Confidence 699999999887765544
No 154
>PRK07576 short chain dehydrogenase; Provisional
Probab=22.35 E-value=1.6e+02 Score=21.58 Aligned_cols=8 Identities=0% Similarity=-0.201 Sum_probs=6.1
Q ss_pred CEEEEccC
Q 033883 102 LCRILNSL 109 (109)
Q Consensus 102 diVVh~~~ 109 (109)
|++|||++
T Consensus 88 D~vi~~ag 95 (264)
T PRK07576 88 DVLVSGAA 95 (264)
T ss_pred CEEEECCC
Confidence 78888874
No 155
>cd01443 Cdc25_Acr2p Cdc25 enzymes are members of the Rhodanese Homology Domain (RHOD) superfamily. Also included in this CD are eukaryotic arsenate resistance proteins such as Saccharomyces cerevisiae Acr2p and similar proteins. Cdc25 phosphatases activate the cell division kinases throughout the cell cycle progression. Cdc25 phosphatases dephosphorylate phosphotyrosine and phosphothreonine residues, in order to activate their Cdk/cyclin substrates. The Cdc25 and Acr2p RHOD domains have the signature motif (H/YCxxxxxR).
Probab=22.24 E-value=1.3e+02 Score=19.39 Aligned_cols=14 Identities=21% Similarity=0.472 Sum_probs=11.0
Q ss_pred CCeEEEecCCCCCcc
Q 033883 31 DDVKVIPVGEKCDWT 45 (109)
Q Consensus 31 ~dI~vlDv~~~~~~a 45 (109)
+++.+||+|+. .|.
T Consensus 22 ~~~~iiDvR~~-ef~ 35 (113)
T cd01443 22 KDFVVVDLRRD-DYE 35 (113)
T ss_pred CcEEEEECCch-hcC
Confidence 57999999987 543
No 156
>PRK00907 hypothetical protein; Provisional
Probab=22.15 E-value=2.4e+02 Score=18.52 Aligned_cols=47 Identities=9% Similarity=-0.022 Sum_probs=31.6
Q ss_pred HHHHHHHhCCCCCe--EEEec--CCCCCcccEEEEEEcCCHHHHHHHHHHHH
Q 033883 20 SVVNPTFDLKADDV--KVIPV--GEKCDWTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 20 ~i~~~l~dkKa~dI--~vlDv--~~~~~~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
.+.+++. +.+.+. ..+.+ +..-.|.-+=+-.++.|..|+.+|-+.+.
T Consensus 33 ~V~~vv~-~h~p~~~~~~i~~r~Ss~GkY~Svtv~i~ats~eQld~iY~~L~ 83 (92)
T PRK00907 33 ELPRLLA-ATGVELLQERISWKHSSSGKYVSVRIGFRAESREQYDAAHQALR 83 (92)
T ss_pred HHHHHHH-HhCCCCCcCcEEeccCCCCEEEEEEEEEEECCHHHHHHHHHHHh
Confidence 6666665 445432 23333 33445888889999999999998876653
No 157
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.01 E-value=1.8e+02 Score=16.92 Aligned_cols=50 Identities=8% Similarity=0.116 Sum_probs=30.7
Q ss_pred CHHHHHHHHHhCCCCCeEEEecCCC-CCcccEEEEEEcCCH-HHHHHHHHHHH
Q 033883 17 SMTSVVNPTFDLKADDVKVIPVGEK-CDWTDYMVIATGRST-WHVKNIAQAII 67 (109)
Q Consensus 17 ~i~~i~~~l~dkKa~dI~vlDv~~~-~~~aDyfVI~Ta~S~-rh~~ala~~i~ 67 (109)
.+..+.+.+.+. +-+|.-+..+.. ...+.+-+.....+. +|+..+.+.++
T Consensus 13 ~l~~I~~~la~~-~inI~~i~~~~~~~~~~~i~~~v~v~~~~~~l~~l~~~L~ 64 (76)
T cd04888 13 VLSKVLNTIAQV-RGNVLTINQNIPIHGRANVTISIDTSTMNGDIDELLEELR 64 (76)
T ss_pred hHHHHHHHHHHc-CCCEEEEEeCCCCCCeEEEEEEEEcCchHHHHHHHHHHHh
Confidence 455788888666 556777766432 234444444444444 59988877764
No 158
>cd01525 RHOD_Kc Member of the Rhodanese Homology Domain superfamily. Included in this CD are the rhodanese-like domains found C-terminal of the serine/threonine protein kinases catalytic (S_TKc) domain and the Tre-2, BUB2p, Cdc16p (TBC) domain. The putative active site Cys residue is not present in this CD.
Probab=21.84 E-value=1.4e+02 Score=18.65 Aligned_cols=21 Identities=5% Similarity=0.134 Sum_probs=13.5
Q ss_pred HHHHHHHhCCCCCeEEEecCCC
Q 033883 20 SVVNPTFDLKADDVKVIPVGEK 41 (109)
Q Consensus 20 ~i~~~l~dkKa~dI~vlDv~~~ 41 (109)
.+.+.+.+ +..++++||+|+.
T Consensus 5 ~l~~~l~~-~~~~~~liDvR~~ 25 (105)
T cd01525 5 DVIRLLDN-SPAKLAAVDIRSS 25 (105)
T ss_pred HHHHHHhC-CCCCeEEEECCCH
Confidence 34444433 3458999999985
No 159
>PRK03467 hypothetical protein; Provisional
Probab=21.75 E-value=1.6e+02 Score=21.10 Aligned_cols=49 Identities=16% Similarity=0.122 Sum_probs=37.4
Q ss_pred CCHHHHHHHHHhCCCCCeEEEecCCC-C---Ccc-----cEEEEEEcCCHHHHHHHHH
Q 033883 16 PSMTSVVNPTFDLKADDVKVIPVGEK-C---DWT-----DYMVIATGRSTWHVKNIAQ 64 (109)
Q Consensus 16 ~~i~~i~~~l~dkKa~dI~vlDv~~~-~---~~a-----DyfVI~Ta~S~rh~~ala~ 64 (109)
+.++.|.+.|.+...-..++.+-.+. | .|+ =-|+++|..++||.+.+..
T Consensus 5 ~~~~~I~~fl~~~hvltLa~~~~~~~w~A~cFY~fd~~~~~l~~~S~~~TrH~~~~~~ 62 (144)
T PRK03467 5 DTLTAISRWLAKQHVVTLCVGQEGELWCANCFYVFDAQKVAFYLLTEEKTRHGQMMGP 62 (144)
T ss_pred hHHHHHHHHHHhCcEEEEEEEcCCCcceEEEEEEEcCCCeEEEEEcCCCCHHHHHHhh
Confidence 34557899999999999999887665 2 232 1358999999999998754
No 160
>cd04466 S1_YloQ_GTPase S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of three domains: an N-terminal S1 domain, a central GTPase domain, and a C-terminal zinc finger domain. This N-terminal S1 domain binds ssRNA. The central GTPase domain contains nucleotide-binding signature motifs: G1 (walker A), G3 (walker B) and G4 motifs. Experiments show that the bacterial YloQ and YjeQ proteins have low intrinsic GTPase activity. The C-terminal zinc-finger domain has structural similarity to a portion of the DNA-repair protein Rad51. This suggests a possible role for this GTPase as a regulator of translation, perhaps as a translation initiation factor. This family is classified based on the N-terminal S1 domain.
Probab=21.54 E-value=98 Score=18.03 Aligned_cols=17 Identities=24% Similarity=0.235 Sum_probs=11.1
Q ss_pred CCCCeEEEEc---CCEEEEc
Q 033883 91 DTGKWVIIDS---GLCRILN 107 (109)
Q Consensus 91 ~~~~WvllD~---GdiVVh~ 107 (109)
--|+|++++. +.-+|+.
T Consensus 39 ~VGD~V~~~~~~~~~~~I~~ 58 (68)
T cd04466 39 AVGDRVEFEPEDDGEGVIEE 58 (68)
T ss_pred CCCcEEEEEECCCCcEEEEE
Confidence 3589999974 3345553
No 161
>TIGR02624 rhamnu_1P_ald rhamnulose-1-phosphate aldolase. Members of this family are the enzyme RhaD, rhamnulose-1-phosphate aldolase.
Probab=21.46 E-value=1.6e+02 Score=22.94 Aligned_cols=51 Identities=8% Similarity=0.105 Sum_probs=38.6
Q ss_pred cchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCCcccEEEEEEcCCHHHHHHHHHHHHHHHHHh
Q 033883 6 KESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCDWTDYMVIATGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 6 ~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
+.+.+|++ .+++++.+.+ . .-+..+=++|.|.|-.+....++.+++.++-.
T Consensus 186 pGs~eLA~------~v~~~l~~~~---a--------vLL~nHGvva~G~~l~eA~~~~E~lE~~A~i~ 236 (270)
T TIGR02624 186 PGTNEIGE------ATAEKMKEHR---L--------VLWPHHGIFGAGPSLDETFGLIETAEKSAEVY 236 (270)
T ss_pred CCCHHHHH------HHHHHhccCC---E--------EEEcCCCCeEecCCHHHHHHHHHHHHHHHHHH
Confidence 34566777 7777776543 3 33677778999999999999999999887664
No 162
>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein. The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.
Probab=20.99 E-value=1.1e+02 Score=22.83 Aligned_cols=36 Identities=22% Similarity=0.083 Sum_probs=25.5
Q ss_pred CcccchHHHHhcCCCHHHHHHHHHhCCCCCeEEEecCCCCCcccEEE
Q 033883 3 GVTKESETLARKRPSMTSVVNPTFDLKADDVKVIPVGEKCDWTDYMV 49 (109)
Q Consensus 3 ~~~~~~~~l~~~~~~i~~i~~~l~dkKa~dI~vlDv~~~~~~aDyfV 49 (109)
|||..+-.|+. +|. +.+..|.++|+-...+.+.+|-
T Consensus 12 GKTT~~~nLA~----------~La-~~g~rVLliD~D~q~~~~~~l~ 47 (268)
T TIGR01281 12 GKSTTSSNLSV----------AFA-KLGKRVLQIGCDPKHDSTFTLT 47 (268)
T ss_pred cHHHHHHHHHH----------HHH-hCCCeEEEEecCccccccceec
Confidence 56665555555 333 4688899999999888777764
No 163
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=20.92 E-value=1.6e+02 Score=19.43 Aligned_cols=22 Identities=27% Similarity=0.135 Sum_probs=19.0
Q ss_pred EcCCHHHHHHHHHHHHHHHHHh
Q 033883 52 TGRSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 52 Ta~S~rh~~ala~~i~~~lk~~ 73 (109)
.|++..|-++++..|-+.+.+.
T Consensus 67 g~~~~e~k~~l~~~i~~~l~~~ 88 (116)
T PTZ00397 67 GGISRSNNSSIAAAITKILASH 88 (116)
T ss_pred cCCCHHHHHHHHHHHHHHHHHH
Confidence 4578889999999999999886
No 164
>PF07892 DUF1667: Protein of unknown function (DUF1667); InterPro: IPR012460 Hypothetical archaeal and bacterial proteins make up this family. A few proteins are annotated as being potential metal-binding proteins, and in fact the members of this family have four highly conserved cysteine residues, but no further literature evidence was found in this regard. ; PDB: 2JOV_A.
Probab=20.53 E-value=59 Score=21.17 Aligned_cols=12 Identities=17% Similarity=0.108 Sum_probs=8.1
Q ss_pred EEcCCEEEEccC
Q 033883 98 IDSGLCRILNSL 109 (109)
Q Consensus 98 lD~GdiVVh~~~ 109 (109)
+..|||++.|++
T Consensus 61 V~~GdVi~~ni~ 72 (82)
T PF07892_consen 61 VKIGDVIVKNIA 72 (82)
T ss_dssp --SSEEEEESTT
T ss_pred ccCCCEEEeccc
Confidence 456899999864
No 165
>PRK07231 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=20.50 E-value=2.1e+02 Score=20.31 Aligned_cols=8 Identities=13% Similarity=-0.276 Sum_probs=6.4
Q ss_pred CEEEEccC
Q 033883 102 LCRILNSL 109 (109)
Q Consensus 102 diVVh~~~ 109 (109)
|+||||++
T Consensus 83 d~vi~~ag 90 (251)
T PRK07231 83 DILVNNAG 90 (251)
T ss_pred CEEEECCC
Confidence 78888875
No 166
>TIGR02704 carboxysome_B carboxysome peptide B. This model distinguishes one of two closely related paralogs encoded by nearby genes in the carboxysome operons of a number of cyanobacteria and chemoautotrophic bacteria. More distantly related proteins, also belonging to Pfam family pfam03319, participate in other types of shell such as the ethanolamine degradation organelle.
Probab=20.42 E-value=1.1e+02 Score=19.73 Aligned_cols=31 Identities=10% Similarity=0.041 Sum_probs=25.8
Q ss_pred CCCCCeEEEecCCCCCcccEEEEEEcCCHHHH
Q 033883 28 LKADDVKVIPVGEKCDWTDYMVIATGRSTWHV 59 (109)
Q Consensus 28 kKa~dI~vlDv~~~~~~aDyfVI~Ta~S~rh~ 59 (109)
.++.-++++|.-+ +..-|+.++++|.+.|+.
T Consensus 30 ~~g~~~VAvD~vG-AG~Ge~Vlv~~GsaAr~~ 60 (80)
T TIGR02704 30 AKGKISVAVDPVG-APEGKWVFTASGSAARFA 60 (80)
T ss_pred CCCCEEEEEECCC-CCCCCEEEEeCCHHHhcc
Confidence 5788888899888 678999999999877764
No 167
>PRK10187 trehalose-6-phosphate phosphatase; Provisional
Probab=20.41 E-value=63 Score=24.62 Aligned_cols=18 Identities=22% Similarity=0.438 Sum_probs=13.7
Q ss_pred EEEEEEcCCHHHHHHHHH
Q 033883 47 YMVIATGRSTWHVKNIAQ 64 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~ 64 (109)
.|+|||||+...+..++.
T Consensus 55 ~v~i~SGR~~~~~~~~~~ 72 (266)
T PRK10187 55 ALALISGRSMVELDALAK 72 (266)
T ss_pred cEEEEeCCCHHHHHHhcC
Confidence 578899998888766553
No 168
>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A.
Probab=20.39 E-value=1.5e+02 Score=17.36 Aligned_cols=20 Identities=10% Similarity=0.147 Sum_probs=15.5
Q ss_pred CCHHHHHHHHHHHHHHHHHh
Q 033883 54 RSTWHVKNIAQAIIYKAKQR 73 (109)
Q Consensus 54 ~S~rh~~ala~~i~~~lk~~ 73 (109)
.+++|.++|-..|++.+++.
T Consensus 32 P~N~Qa~~L~~~i~~~i~kd 51 (53)
T PF14853_consen 32 PDNRQAQSLKELIEDKIQKD 51 (53)
T ss_dssp TS-HHHHHHHHHHHHHHHHT
T ss_pred CCcHHHHHHHHHHHHHHhcc
Confidence 35789999999998888765
No 169
>PF10674 Ycf54: Protein of unknown function (DUF2488); InterPro: IPR019616 This entry represents proteins annotated as Ycf54. It is found encoded in the chloroplast genomes of algae, it is also found in plants and in the cyanobacteria. The function is unknown. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.; PDB: 3JSR_A 3HZE_D.
Probab=20.15 E-value=91 Score=20.88 Aligned_cols=40 Identities=15% Similarity=0.328 Sum_probs=19.2
Q ss_pred EEEEEEcCCHHHHHHHHHHHHHHHHHhhhhhccccCCCCCcccCCCCCeEEE
Q 033883 47 YMVIATGRSTWHVKNIAQAIIYKAKQRQREVGAKQMMLPSVQGQDTGKWVII 98 (109)
Q Consensus 47 yfVI~Ta~S~rh~~ala~~i~~~lk~~~~~~~~~~~~~~~vEG~~~~~Wvll 98 (109)
|||+||.+.-.+= +.+++-|+|+-+ .+.-.|..-+-|++.
T Consensus 4 yf~~As~~Fl~~e----EpleEvLrER~r--------~y~e~~k~iDFWlv~ 43 (93)
T PF10674_consen 4 YFVLASAKFLLEE----EPLEEVLRERTR--------HYKEKNKEIDFWLVK 43 (93)
T ss_dssp EEEEEEHHHHHCT----S-HHHHHHHHHH--------HHHHCT----EEEEE
T ss_pred EEEEechhhhccC----ccHHHHHHHHHH--------HHHhcCCCccEEEec
Confidence 8999998754433 334444554422 122234555678764
No 170
>PRK08366 vorA 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed
Probab=20.01 E-value=1.4e+02 Score=24.47 Aligned_cols=24 Identities=17% Similarity=0.218 Sum_probs=20.2
Q ss_pred cccEEEEEEcCCHHHHHHHHHHHH
Q 033883 44 WTDYMVIATGRSTWHVKNIAQAII 67 (109)
Q Consensus 44 ~aDyfVI~Ta~S~rh~~ala~~i~ 67 (109)
=+|+.||+.|.+...++...+.++
T Consensus 259 dAe~~iV~~Gs~~~~~~eav~~lr 282 (390)
T PRK08366 259 DADFVFMGMGSLMGTVKEAVDLLR 282 (390)
T ss_pred CCCEEEEEeCccHHHHHHHHHHHH
Confidence 389999999999999887777654
Done!