Query psy13814
Match_columns 75
No_of_seqs 150 out of 1036
Neff 7.0
Searched_HMMs 46136
Date Fri Aug 16 21:09:26 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13814.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13814hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0450 AhpC Peroxiredoxin [Po 99.8 1.4E-20 3.1E-25 125.1 5.8 67 3-75 80-151 (194)
2 KOG0854|consensus 99.8 9.1E-20 2E-24 120.8 5.3 75 1-75 84-158 (224)
3 COG1225 Bcp Peroxiredoxin [Pos 99.8 2.5E-19 5.3E-24 116.2 6.3 66 2-69 76-141 (157)
4 KOG0852|consensus 99.7 1E-16 2.2E-21 105.7 4.6 57 13-75 95-151 (196)
5 PRK13191 putative peroxiredoxi 99.6 3.3E-16 7.2E-21 105.3 6.5 58 13-75 94-151 (215)
6 PRK10382 alkyl hydroperoxide r 99.6 3.9E-16 8.4E-21 103.2 6.1 66 4-75 79-146 (187)
7 PRK13599 putative peroxiredoxi 99.6 7.3E-16 1.6E-20 103.7 6.4 59 12-75 88-146 (215)
8 cd03016 PRX_1cys Peroxiredoxin 99.6 2E-15 4.3E-20 100.2 6.3 59 13-75 86-144 (203)
9 PRK13189 peroxiredoxin; Provis 99.6 2.2E-15 4.7E-20 101.7 6.0 58 13-75 96-153 (222)
10 PRK15000 peroxidase; Provision 99.6 2.1E-15 4.5E-20 100.4 5.8 56 14-75 97-152 (200)
11 PRK13190 putative peroxiredoxi 99.6 3.6E-15 7.8E-20 99.1 6.0 56 14-75 89-144 (202)
12 PTZ00137 2-Cys peroxiredoxin; 99.6 4.2E-15 9.1E-20 102.8 6.3 56 13-75 160-215 (261)
13 PTZ00253 tryparedoxin peroxida 99.5 3E-14 6.6E-19 94.1 5.6 55 14-74 99-153 (199)
14 cd03013 PRX5_like Peroxiredoxi 99.5 1.9E-13 4.2E-18 87.5 7.3 66 3-72 78-145 (155)
15 TIGR03137 AhpC peroxiredoxin. 99.3 2.1E-12 4.6E-17 84.7 5.9 56 13-74 90-145 (187)
16 PRK00522 tpx lipid hydroperoxi 99.1 1.6E-10 3.6E-15 74.5 5.9 61 3-68 89-151 (167)
17 PRK09437 bcp thioredoxin-depen 99.1 3.3E-10 7.1E-15 71.4 6.3 63 3-67 77-139 (154)
18 cd03018 PRX_AhpE_like Peroxire 99.1 4.1E-10 8.8E-15 70.1 6.4 63 4-74 76-140 (149)
19 cd03015 PRX_Typ2cys Peroxiredo 99.1 5.2E-10 1.1E-14 72.1 6.8 56 13-74 91-146 (173)
20 cd03014 PRX_Atyp2cys Peroxired 99.1 4.2E-10 9.1E-15 69.9 6.0 57 4-68 72-130 (143)
21 cd03017 PRX_BCP Peroxiredoxin 99.1 4.4E-10 9.6E-15 69.1 5.7 65 4-74 71-135 (140)
22 cd02970 PRX_like2 Peroxiredoxi 99.0 1E-09 2.2E-14 67.8 6.3 55 12-66 77-148 (149)
23 PF00578 AhpC-TSA: AhpC/TSA fa 99.0 8.4E-10 1.8E-14 66.4 4.3 53 3-63 72-124 (124)
24 cd02971 PRX_family Peroxiredox 98.9 1E-08 2.3E-13 62.8 7.1 62 4-70 70-132 (140)
25 cd03012 TlpA_like_DipZ_like Tl 98.9 4.8E-09 1E-13 64.3 5.3 49 3-65 75-123 (126)
26 cd02969 PRX_like1 Peroxiredoxi 98.7 6E-08 1.3E-12 62.1 5.8 49 12-72 86-134 (171)
27 cd02968 SCO SCO (an acronym fo 98.4 4.2E-07 9E-12 55.9 4.6 60 4-65 77-141 (142)
28 PRK15412 thiol:disulfide inter 98.4 5.2E-07 1.1E-11 58.9 5.3 52 4-69 112-164 (185)
29 PLN02412 probable glutathione 98.4 2.5E-07 5.5E-12 59.7 3.1 57 12-68 91-151 (167)
30 cd03010 TlpA_like_DsbE TlpA-li 98.4 1.2E-06 2.5E-11 53.3 5.5 52 3-68 69-121 (127)
31 PF08534 Redoxin: Redoxin; In 98.4 1.1E-06 2.5E-11 54.4 5.6 55 12-69 82-136 (146)
32 KOG0855|consensus 98.4 1.1E-06 2.4E-11 58.4 5.4 59 3-68 137-195 (211)
33 TIGR00385 dsbE periplasmic pro 98.4 9.8E-07 2.1E-11 56.9 5.1 51 4-68 107-158 (173)
34 TIGR02540 gpx7 putative glutat 98.3 2.1E-07 4.6E-12 58.8 1.8 61 3-68 76-140 (153)
35 cd00340 GSH_Peroxidase Glutath 98.3 5.6E-07 1.2E-11 56.8 2.2 64 3-68 75-143 (152)
36 PRK03147 thiol-disulfide oxido 98.1 8.4E-06 1.8E-10 51.6 5.9 44 12-67 115-158 (173)
37 cd02966 TlpA_like_family TlpA- 98.1 1.1E-05 2.4E-10 46.4 5.0 47 4-64 68-114 (116)
38 cd03011 TlpA_like_ScsD_MtbDsbE 98.1 1.5E-05 3.2E-10 47.9 5.6 48 4-66 64-111 (123)
39 TIGR01626 ytfJ_HI0045 conserve 98.1 1.1E-05 2.3E-10 53.6 5.3 44 13-68 120-167 (184)
40 PTZ00256 glutathione peroxidas 98.0 4.7E-06 1E-10 54.4 2.4 57 12-68 103-168 (183)
41 COG2077 Tpx Peroxiredoxin [Pos 97.8 3.3E-05 7.1E-10 50.2 4.2 60 4-68 90-151 (158)
42 PF13911 AhpC-TSA_2: AhpC/TSA 97.7 0.0002 4.4E-09 43.2 6.3 61 4-66 27-113 (115)
43 cd02967 mauD Methylamine utili 97.6 0.00011 2.4E-09 43.5 4.2 38 12-63 73-111 (114)
44 cd03008 TryX_like_RdCVF Trypar 97.6 9.6E-05 2.1E-09 47.4 3.7 46 4-63 80-128 (146)
45 PLN02399 phospholipid hydroper 97.5 0.00015 3.4E-09 49.7 3.8 56 12-67 161-220 (236)
46 TIGR02661 MauD methylamine deh 97.4 0.00024 5.3E-09 46.6 4.3 46 3-63 117-162 (189)
47 PTZ00056 glutathione peroxidas 97.4 0.0005 1.1E-08 45.6 5.2 57 3-66 93-163 (199)
48 PRK14018 trifunctional thiored 96.9 0.0027 5.8E-08 48.1 5.6 41 16-68 120-160 (521)
49 PLN02919 haloacid dehalogenase 96.9 0.0022 4.7E-08 51.8 5.2 43 12-66 479-521 (1057)
50 cd03009 TryX_like_TryX_NRX Try 96.7 0.001 2.2E-08 40.5 2.1 37 15-64 80-116 (131)
51 PRK13728 conjugal transfer pro 96.5 0.0085 1.9E-07 39.8 5.3 43 14-66 112-156 (181)
52 PF13905 Thioredoxin_8: Thiore 95.5 0.035 7.5E-07 31.7 4.2 36 13-60 57-95 (95)
53 cd02964 TryX_like_family Trypa 95.5 0.047 1E-06 33.3 4.9 29 24-64 88-116 (132)
54 PF09695 YtfJ_HI0045: Bacteria 93.3 0.14 2.9E-06 33.6 3.5 45 12-67 99-144 (160)
55 PF02630 SCO1-SenC: SCO1/SenC; 90.9 0.3 6.6E-06 31.6 3.0 44 23-66 126-173 (174)
56 COG0678 AHP1 Peroxiredoxin [Po 90.9 1.2 2.7E-05 29.2 5.8 52 16-69 99-150 (165)
57 TIGR02738 TrbB type-F conjugat 88.5 1.2 2.5E-05 28.6 4.4 16 47-62 118-133 (153)
58 cd02950 TxlA TRX-like protein 87.1 2.7 5.9E-05 26.2 5.4 41 13-65 51-94 (142)
59 TIGR02740 TraF-like TraF-like 83.3 2.4 5.3E-05 29.5 4.1 32 22-65 216-248 (271)
60 cd02951 SoxW SoxW family; SoxW 83.3 2.5 5.4E-05 25.2 3.7 30 24-65 73-103 (125)
61 KOG0541|consensus 82.5 3.9 8.4E-05 27.1 4.6 66 4-71 93-158 (171)
62 PF13098 Thioredoxin_2: Thiore 82.1 3 6.4E-05 24.1 3.7 28 25-64 72-99 (112)
63 PF05176 ATP-synt_10: ATP10 pr 81.9 1 2.3E-05 31.2 1.9 41 16-66 193-235 (252)
64 COG3054 Predicted transcriptio 81.3 3.7 8E-05 27.2 4.1 44 12-67 121-166 (184)
65 COG1999 Uncharacterized protei 80.0 3.4 7.3E-05 27.6 3.8 47 22-68 142-191 (207)
66 smart00775 LNS2 LNS2 domain. T 79.5 2.6 5.6E-05 26.9 3.0 40 13-62 117-156 (157)
67 COG3322 Predicted periplasmic 78.4 3.3 7.1E-05 29.6 3.5 28 47-74 103-130 (295)
68 PF00837 T4_deiodinase: Iodoth 78.2 4 8.7E-05 28.4 3.8 37 13-63 179-216 (237)
69 cd02956 ybbN ybbN protein fami 74.0 8.8 0.00019 21.5 4.0 35 18-65 49-83 (96)
70 PF13728 TraF: F plasmid trans 69.8 15 0.00032 24.7 4.9 25 23-59 171-195 (215)
71 COG2093 DNA-directed RNA polym 69.7 6.2 0.00014 22.1 2.5 20 17-36 36-56 (64)
72 cd08351 ChaP_like ChaP, an enz 68.2 9 0.0002 22.4 3.2 21 47-67 102-122 (123)
73 TIGR01352 tonB_Cterm TonB fami 66.4 13 0.00029 19.8 3.5 21 46-66 10-30 (74)
74 cd02961 PDI_a_family Protein D 66.3 14 0.00031 20.0 3.7 35 13-59 48-83 (101)
75 PF11211 DUF2997: Protein of u 66.1 4.9 0.00011 21.1 1.6 14 51-64 2-15 (48)
76 PF13778 DUF4174: Domain of un 66.1 7.4 0.00016 23.7 2.6 21 49-69 80-100 (118)
77 PF11720 Inhibitor_I78: Peptid 65.2 10 0.00022 20.5 2.8 36 28-64 23-58 (60)
78 PF08448 PAS_4: PAS fold; Int 64.4 7.1 0.00015 21.5 2.2 15 50-64 7-21 (110)
79 PF14827 Cache_3: Sensory doma 63.8 6.3 0.00014 23.5 2.0 26 48-74 39-64 (116)
80 cd08361 PpCmtC_N N-terminal do 63.3 13 0.00029 21.9 3.3 24 48-71 101-124 (124)
81 PF00989 PAS: PAS fold; Inter 63.1 7.7 0.00017 21.5 2.2 18 47-64 10-27 (113)
82 PF13426 PAS_9: PAS domain; PD 61.3 8.8 0.00019 20.8 2.2 15 50-64 3-17 (104)
83 PF03544 TonB_C: Gram-negative 60.4 11 0.00023 20.4 2.4 21 46-66 16-36 (79)
84 cd08357 Glo_EDI_BRP_like_18 Th 59.7 15 0.00033 20.9 3.1 18 48-65 107-124 (125)
85 cd09011 Glo_EDI_BRP_like_23 Th 59.4 14 0.00031 21.3 3.0 17 48-64 101-117 (120)
86 PF08269 Cache_2: Cache domain 59.3 5.2 0.00011 22.9 1.0 25 50-74 58-82 (95)
87 cd06006 R3H_unknown_2 R3H doma 58.8 12 0.00026 20.5 2.3 37 13-54 18-58 (59)
88 cd07253 Glo_EDI_BRP_like_2 Thi 58.8 15 0.00033 20.7 3.0 19 48-66 107-125 (125)
89 PF00379 Chitin_bind_4: Insect 58.6 21 0.00045 18.4 3.2 26 46-71 25-51 (52)
90 cd02953 DsbDgamma DsbD gamma f 56.7 11 0.00024 21.5 2.1 28 24-63 61-89 (104)
91 cd08355 Glo_EDI_BRP_like_14 Th 56.7 17 0.00038 20.9 3.0 19 48-66 104-122 (122)
92 PF12681 Glyoxalase_2: Glyoxal 56.1 17 0.00037 20.2 2.8 16 48-63 92-107 (108)
93 cd03005 PDI_a_ERp46 PDIa famil 54.7 36 0.00077 18.9 4.0 32 21-65 59-90 (102)
94 TIGR01068 thioredoxin thioredo 54.6 34 0.00075 18.6 4.0 39 13-64 45-84 (101)
95 PRK09381 trxA thioredoxin; Pro 54.4 39 0.00085 19.3 4.7 40 14-66 53-93 (109)
96 cd02958 UAS UAS family; UAS is 53.8 33 0.00071 20.0 3.9 30 24-65 65-95 (114)
97 PF13535 ATP-grasp_4: ATP-gras 53.1 33 0.00073 21.0 4.0 26 46-71 156-181 (184)
98 PRK10606 btuE putative glutath 53.0 14 0.00031 24.2 2.4 16 50-65 148-163 (183)
99 PF11954 DUF3471: Domain of un 53.0 27 0.0006 20.0 3.4 24 47-70 65-88 (100)
100 KOG1651|consensus 52.5 14 0.00029 24.6 2.2 17 49-65 137-153 (171)
101 cd07252 BphC1-RGP6_N_like N-te 51.9 28 0.0006 20.2 3.4 20 48-67 99-118 (120)
102 cd08342 HPPD_N_like N-terminal 51.2 31 0.00067 20.6 3.6 26 46-71 103-128 (136)
103 PF09048 Cro: Cro; InterPro: 51.1 18 0.00038 20.0 2.2 41 24-67 15-56 (59)
104 TIGR01126 pdi_dom protein disu 51.1 35 0.00077 18.7 3.6 28 20-59 54-81 (102)
105 cd08350 BLMT_like BLMT, a bleo 50.6 23 0.0005 20.5 2.8 18 47-64 100-117 (120)
106 cd07255 Glo_EDI_BRP_like_12 Th 48.8 37 0.0008 19.4 3.5 19 48-66 101-119 (125)
107 cd02949 TRX_NTR TRX domain, no 48.6 48 0.001 18.6 4.2 33 21-66 53-85 (97)
108 cd09012 Glo_EDI_BRP_like_24 Th 48.6 30 0.00065 20.0 3.2 17 48-64 106-122 (124)
109 cd02985 TRX_CDSP32 TRX family, 47.9 44 0.00096 19.2 3.8 28 25-65 61-88 (103)
110 PRK06724 hypothetical protein; 46.4 38 0.00082 20.5 3.4 21 48-68 105-125 (128)
111 cd02646 R3H_G-patch R3H domain 45.8 29 0.00062 18.5 2.5 37 12-53 16-56 (58)
112 TIGR00068 glyox_I lactoylgluta 45.7 38 0.00083 20.5 3.4 20 48-67 123-142 (150)
113 cd07267 THT_Oxygenase_N N-term 45.5 44 0.00095 19.1 3.5 20 47-66 91-110 (113)
114 cd08348 BphC2-C3-RGP6_C_like T 45.0 48 0.001 19.3 3.7 22 48-69 102-123 (134)
115 PRK11509 hydrogenase-1 operon 44.4 49 0.0011 20.9 3.8 38 15-65 70-108 (132)
116 TIGR03645 glyox_marine lactoyl 44.3 36 0.00079 21.2 3.2 22 48-69 133-154 (162)
117 cd02963 TRX_DnaJ TRX domain, D 44.2 56 0.0012 19.0 3.9 38 14-64 57-95 (111)
118 PF13186 SPASM: Iron-sulfur cl 44.1 17 0.00038 18.6 1.5 16 47-62 3-18 (64)
119 cd02955 SSP411 TRX domain, SSP 43.6 34 0.00073 21.0 2.9 21 47-67 80-100 (124)
120 cd02994 PDI_a_TMX PDIa family, 43.5 59 0.0013 18.1 4.1 27 21-60 57-83 (101)
121 cd07240 ED_TypeI_classII_N N-t 42.3 50 0.0011 18.5 3.4 20 47-66 95-114 (117)
122 cd07251 Glo_EDI_BRP_like_10 Th 42.1 43 0.00094 18.8 3.1 18 48-65 103-120 (121)
123 PRK08351 DNA-directed RNA poly 41.9 32 0.00069 19.0 2.3 20 17-36 33-53 (61)
124 PF05228 CHASE4: CHASE4 domain 41.5 34 0.00073 20.9 2.7 19 47-65 49-67 (161)
125 cd08353 Glo_EDI_BRP_like_7 Thi 41.1 44 0.00096 19.7 3.1 18 47-64 122-139 (142)
126 PF02526 GBP_repeat: Glycophor 40.8 15 0.00033 18.2 0.8 13 21-33 3-15 (38)
127 PF04205 FMN_bind: FMN-binding 40.6 34 0.00073 18.8 2.4 22 46-67 4-25 (81)
128 cd08363 FosB FosB, a fosfomyci 40.3 28 0.00062 20.7 2.2 21 47-67 96-116 (131)
129 KOG4614|consensus 40.1 25 0.00054 24.9 2.1 18 48-65 248-265 (287)
130 PF11009 DUF2847: Protein of u 39.8 34 0.00074 20.8 2.4 30 24-65 66-95 (105)
131 cd02641 R3H_Smubp-2_like R3H d 39.6 40 0.00086 18.2 2.5 36 13-53 18-58 (60)
132 PHA02762 hypothetical protein; 39.1 62 0.0013 17.7 3.1 21 48-68 28-48 (62)
133 cd08356 Glo_EDI_BRP_like_17 Th 39.1 39 0.00085 19.5 2.6 17 47-63 95-111 (113)
134 cd08344 MhqB_like_N N-terminal 39.1 56 0.0012 18.5 3.2 18 47-64 90-107 (112)
135 cd07241 Glo_EDI_BRP_like_3 Thi 38.9 41 0.00089 19.0 2.6 15 48-62 109-123 (125)
136 cd08345 Fosfomycin_RP Fosfomyc 38.9 59 0.0013 18.1 3.3 20 47-66 92-111 (113)
137 cd07235 MRD Mitomycin C resist 38.8 47 0.001 18.9 2.9 18 47-64 104-121 (122)
138 cd07265 2_3_CTD_N N-terminal d 38.8 61 0.0013 18.5 3.4 19 48-66 101-119 (122)
139 cd03065 PDI_b_Calsequestrin_N 38.5 73 0.0016 19.5 3.8 37 13-62 64-101 (120)
140 PRK10291 glyoxalase I; Provisi 38.5 70 0.0015 18.6 3.7 20 48-67 102-121 (129)
141 KOG2792|consensus 38.4 42 0.0009 24.0 3.0 37 25-61 216-255 (280)
142 cd02965 HyaE HyaE family; HyaE 38.3 93 0.002 18.9 5.2 41 13-66 60-101 (111)
143 cd07238 Glo_EDI_BRP_like_5 Thi 38.2 51 0.0011 18.5 3.0 17 48-64 93-109 (112)
144 cd07254 Glo_EDI_BRP_like_20 Th 38.0 53 0.0011 18.7 3.0 18 48-65 99-116 (120)
145 PF13103 TonB_2: TonB C termin 37.3 65 0.0014 17.7 3.2 19 46-64 26-44 (85)
146 PLN02300 lactoylglutathione ly 37.2 65 0.0014 22.0 3.8 24 48-71 130-153 (286)
147 cd08359 Glo_EDI_BRP_like_22 Th 37.1 52 0.0011 18.6 2.9 16 48-63 102-117 (119)
148 cd03004 PDI_a_ERdj5_C PDIa fam 37.0 71 0.0015 17.9 3.5 40 13-64 50-90 (104)
149 PF05988 DUF899: Bacterial pro 36.8 81 0.0018 21.6 4.1 48 13-66 127-174 (211)
150 cd08343 ED_TypeI_classII_C C-t 36.6 61 0.0013 19.0 3.2 20 48-67 99-118 (131)
151 COG0810 TonB Periplasmic prote 36.5 56 0.0012 22.1 3.3 20 46-65 180-199 (244)
152 PF08750 CNP1: CNP1-like famil 36.4 45 0.00099 21.2 2.7 28 47-74 39-67 (139)
153 KOG3559|consensus 35.7 36 0.00078 26.1 2.4 16 50-65 91-106 (598)
154 smart00701 PGRP Animal peptido 35.4 23 0.00051 22.2 1.3 14 48-61 63-76 (142)
155 cd07576 R-amidase_like Pseudom 34.7 99 0.0022 20.3 4.3 40 25-64 68-107 (254)
156 PRK01966 ddl D-alanyl-alanine 33.9 1.1E+02 0.0024 21.5 4.6 24 46-69 278-301 (333)
157 PRK11478 putative lyase; Provi 33.2 67 0.0014 18.4 3.0 17 48-64 111-127 (129)
158 cd02984 TRX_PICOT TRX domain, 32.2 92 0.002 17.0 3.8 32 21-65 54-85 (97)
159 cd07564 nitrilases_CHs Nitrila 31.8 96 0.0021 21.3 3.9 18 47-64 104-121 (297)
160 TIGR03381 agmatine_aguB N-carb 31.7 1.1E+02 0.0025 20.3 4.2 37 26-62 73-109 (279)
161 cd03457 intradiol_dioxygenase_ 31.4 1E+02 0.0022 20.4 3.9 26 48-73 77-103 (188)
162 cd07246 Glo_EDI_BRP_like_8 Thi 31.4 73 0.0016 17.8 2.9 18 47-64 103-120 (122)
163 PF08235 LNS2: LNS2 (Lipin/Ned 31.1 38 0.00083 22.0 1.7 19 44-62 138-156 (157)
164 TIGR01205 D_ala_D_alaTIGR D-al 30.5 1.4E+02 0.003 20.4 4.5 24 47-70 263-286 (315)
165 PRK14568 vanB D-alanine--D-lac 30.4 1.3E+02 0.0029 21.1 4.6 24 46-69 287-310 (343)
166 PF14326 DUF4384: Domain of un 30.2 81 0.0018 17.6 2.9 18 50-67 22-39 (83)
167 COG0386 BtuE Glutathione perox 29.9 52 0.0011 21.7 2.2 63 2-65 77-144 (162)
168 PF01510 Amidase_2: N-acetylmu 29.9 27 0.00058 20.7 0.8 14 48-61 37-50 (132)
169 PRK10996 thioredoxin 2; Provis 29.8 1.4E+02 0.0029 18.3 4.2 39 14-65 84-123 (139)
170 PRK00446 cyaY frataxin-like pr 29.6 48 0.001 20.0 1.9 29 46-74 42-70 (105)
171 cd02996 PDI_a_ERp44 PDIa famil 29.5 1.1E+02 0.0025 17.3 3.9 35 14-61 56-91 (108)
172 cd07242 Glo_EDI_BRP_like_6 Thi 29.5 92 0.002 17.8 3.1 17 47-63 109-125 (128)
173 cd07244 FosA FosA, a Fosfomyci 29.2 92 0.002 17.9 3.1 20 48-67 92-111 (121)
174 PHA00447 lysozyme 29.1 36 0.00077 21.5 1.3 14 48-61 43-56 (142)
175 cd02954 DIM1 Dim1 family; Dim1 29.0 1.2E+02 0.0026 18.5 3.6 36 17-65 50-85 (114)
176 cd03002 PDI_a_MPD1_like PDI fa 28.9 86 0.0019 17.6 2.9 24 24-59 63-86 (109)
177 COG4191 Signal transduction hi 28.9 70 0.0015 25.3 3.1 28 47-74 99-129 (603)
178 PF11012 DUF2850: Protein of u 28.7 51 0.0011 19.1 1.8 26 31-61 3-28 (79)
179 cd07266 HPCD_N_class_II N-term 28.6 1.1E+02 0.0023 17.4 3.3 18 48-65 100-117 (121)
180 PF13596 PAS_10: PAS domain; P 28.2 61 0.0013 18.3 2.2 16 50-65 11-26 (106)
181 cd08347 PcpA_C_like C-terminal 28.2 1.2E+02 0.0026 18.9 3.7 21 47-67 101-121 (157)
182 PF02743 Cache_1: Cache domain 28.1 28 0.00061 19.0 0.7 17 47-63 52-68 (81)
183 cd02948 TRX_NDPK TRX domain, T 28.1 1.1E+02 0.0025 17.3 3.3 39 15-66 51-89 (102)
184 PRK08132 FAD-dependent oxidore 27.8 1.1E+02 0.0025 22.8 4.0 34 20-66 498-531 (547)
185 PF13128 DUF3954: Protein of u 27.7 86 0.0019 16.7 2.4 23 46-71 7-29 (50)
186 TIGR02739 TraF type-F conjugat 27.6 1.7E+02 0.0036 20.5 4.5 13 47-59 213-225 (256)
187 cd07263 Glo_EDI_BRP_like_16 Th 27.3 96 0.0021 17.0 2.9 17 47-63 101-117 (119)
188 cd03003 PDI_a_ERdj5_N PDIa fam 27.1 83 0.0018 17.6 2.6 36 13-61 49-85 (101)
189 cd08364 FosX FosX, a fosfomyci 27.1 98 0.0021 18.3 3.0 20 47-66 103-122 (131)
190 cd02975 PfPDO_like_N Pyrococcu 27.0 1.4E+02 0.003 17.5 4.0 30 15-56 54-84 (113)
191 cd08352 Glo_EDI_BRP_like_1 Thi 26.9 89 0.0019 17.4 2.7 16 48-63 108-123 (125)
192 cd07261 Glo_EDI_BRP_like_11 Th 26.9 88 0.0019 17.5 2.7 15 49-63 98-112 (114)
193 cd02973 TRX_GRX_like Thioredox 26.8 1E+02 0.0022 15.8 3.2 21 14-34 30-51 (67)
194 PRK00293 dipZ thiol:disulfide 26.7 67 0.0015 24.7 2.7 27 24-62 523-549 (571)
195 cd07582 nitrilase_4 Uncharacte 26.4 86 0.0019 21.5 3.0 18 47-64 108-125 (294)
196 PF14903 WG_beta_rep: WG conta 26.4 69 0.0015 14.4 1.8 15 53-67 3-17 (35)
197 cd02998 PDI_a_ERp38 PDIa famil 26.4 92 0.002 17.1 2.7 30 19-60 58-88 (105)
198 cd08354 Glo_EDI_BRP_like_13 Th 25.9 1E+02 0.0023 17.2 2.9 18 47-64 103-120 (122)
199 PRK14569 D-alanyl-alanine synt 25.7 1.9E+02 0.0041 19.9 4.6 25 46-70 242-266 (296)
200 cd07262 Glo_EDI_BRP_like_19 Th 25.4 1.3E+02 0.0027 17.1 3.2 17 47-63 105-121 (123)
201 cd07256 HPCD_C_class_II C-term 25.3 1.2E+02 0.0026 18.7 3.3 20 48-67 105-124 (161)
202 cd02959 ERp19 Endoplasmic reti 25.2 48 0.001 19.8 1.4 17 47-63 76-92 (117)
203 PLN02504 nitrilase 25.2 1.6E+02 0.0035 21.1 4.2 18 47-64 133-150 (346)
204 PRK13286 amiE acylamide amidoh 25.1 91 0.002 22.4 3.0 18 47-64 115-132 (345)
205 PF01565 FAD_binding_4: FAD bi 25.0 1.4E+02 0.003 17.7 3.5 17 47-63 122-138 (139)
206 PF13359 DDE_Tnp_4: DDE superf 24.9 79 0.0017 19.3 2.3 20 46-65 28-47 (158)
207 smart00594 UAS UAS domain. 24.8 1.1E+02 0.0023 18.2 2.9 25 22-58 73-97 (122)
208 PRK10819 transport protein Ton 24.7 1.2E+02 0.0026 21.0 3.4 21 46-66 181-201 (246)
209 cd08349 BLMA_like Bleomycin bi 24.7 1E+02 0.0022 16.9 2.6 16 47-62 94-109 (112)
210 cd08362 BphC5-RrK37_N_like N-t 24.4 1.4E+02 0.0031 16.7 5.4 18 48-65 99-116 (120)
211 PTZ00051 thioredoxin; Provisio 24.4 1.4E+02 0.0029 16.4 4.7 39 15-66 50-89 (98)
212 PF04486 SchA_CurD: SchA/CurD 24.1 1.8E+02 0.0039 18.0 3.8 54 13-66 4-57 (114)
213 TIGR03421 FeS_CyaY iron donor 24.0 54 0.0012 19.7 1.4 29 46-74 40-68 (102)
214 cd07565 aliphatic_amidase alip 24.0 1E+02 0.0022 21.2 3.0 17 48-64 102-118 (291)
215 cd07567 biotinidase_like bioti 23.9 70 0.0015 22.5 2.2 17 47-63 128-144 (299)
216 PRK04101 fosfomycin resistance 23.7 1.3E+02 0.0028 17.9 3.1 20 47-66 100-119 (139)
217 PF09631 Sen15: Sen15 protein; 23.6 85 0.0018 18.4 2.2 20 48-67 73-93 (101)
218 cd03026 AhpF_NTD_C TRX-GRX-lik 23.6 1.3E+02 0.0028 17.1 3.0 21 14-34 43-64 (89)
219 cd07570 GAT_Gln-NAD-synth Glut 23.5 80 0.0017 20.9 2.3 15 49-63 213-227 (261)
220 cd07568 ML_beta-AS_like mammal 23.5 93 0.002 21.0 2.7 15 48-62 107-121 (287)
221 PF01217 Clat_adaptor_s: Clath 23.5 1.2E+02 0.0025 18.5 2.9 19 49-67 3-21 (141)
222 cd07581 nitrilase_3 Uncharacte 23.4 1E+02 0.0022 20.3 2.8 18 47-64 90-107 (255)
223 PF08445 FR47: FR47-like prote 23.3 1.2E+02 0.0026 17.0 2.7 27 47-73 11-37 (86)
224 cd04667 Nudix_Hydrolase_10 Mem 23.1 1E+02 0.0022 17.6 2.5 18 48-65 1-18 (112)
225 TIGR03211 catechol_2_3 catecho 23.1 1.5E+02 0.0033 20.1 3.7 24 48-71 100-123 (303)
226 PRK06019 phosphoribosylaminoim 23.0 2.3E+02 0.0049 20.2 4.7 25 46-70 244-268 (372)
227 PF07478 Dala_Dala_lig_C: D-al 22.9 2E+02 0.0043 18.9 4.1 23 47-69 153-175 (203)
228 TIGR01161 purK phosphoribosyla 22.8 2.2E+02 0.0047 20.0 4.5 25 46-70 242-266 (352)
229 TIGR00229 sensory_box PAS doma 22.7 1.1E+02 0.0025 15.0 2.4 14 50-63 15-28 (124)
230 cd06583 PGRP Peptidoglycan rec 22.7 80 0.0017 18.3 2.0 17 47-63 35-51 (126)
231 PF13188 PAS_8: PAS domain; PD 22.7 91 0.002 15.8 2.0 14 49-63 12-25 (64)
232 PRK10438 C-N hydrolase family 22.4 85 0.0018 21.1 2.3 15 49-63 205-219 (256)
233 cd07566 ScNTA1_like Saccharomy 22.4 1E+02 0.0022 21.5 2.8 39 25-63 75-116 (295)
234 cd07264 Glo_EDI_BRP_like_15 Th 22.3 1.4E+02 0.0029 16.9 2.9 17 48-64 107-123 (125)
235 cd03001 PDI_a_P5 PDIa family, 22.3 1.5E+02 0.0033 16.2 3.5 33 13-57 49-82 (103)
236 PF11347 DUF3148: Protein of u 21.9 56 0.0012 18.3 1.1 11 47-57 51-61 (63)
237 PLN02798 nitrilase 21.7 1.2E+02 0.0027 20.6 3.0 16 47-62 103-118 (286)
238 cd06587 Glo_EDI_BRP_like This 21.6 92 0.002 16.4 2.0 15 47-61 96-110 (112)
239 cd07233 Glyoxalase_I Glyoxalas 21.4 1.3E+02 0.0028 16.8 2.7 16 47-62 104-119 (121)
240 cd07572 nit Nit1, Nit 2, and r 21.4 1.1E+02 0.0024 20.2 2.7 15 47-61 93-107 (265)
241 PF04881 Adeno_GP19K: Adenovir 21.3 21 0.00046 22.8 -0.8 25 12-36 69-93 (139)
242 PLN02747 N-carbamolyputrescine 21.3 1.4E+02 0.0031 20.3 3.2 37 25-61 78-114 (296)
243 PF03625 DUF302: Domain of unk 21.0 1.2E+02 0.0025 16.0 2.3 23 45-67 43-65 (65)
244 cd02960 AGR Anterior Gradient 20.9 68 0.0015 20.1 1.5 18 47-64 79-96 (130)
245 cd09013 BphC-JF8_N_like N-term 20.9 1.7E+02 0.0037 16.6 3.2 18 48-65 100-117 (121)
246 COG3565 Predicted dioxygenase 20.8 99 0.0021 19.7 2.1 18 45-62 108-125 (138)
247 PF07661 MORN_2: MORN repeat v 20.8 82 0.0018 12.6 1.8 14 53-66 7-20 (22)
248 PRK05586 biotin carboxylase; V 20.7 2.8E+02 0.0061 20.3 4.9 23 47-69 271-293 (447)
249 cd07578 nitrilase_1_R1 First n 20.6 89 0.0019 20.8 2.1 16 49-64 209-224 (258)
250 cd07569 DCase N-carbamyl-D-ami 20.6 1.1E+02 0.0023 21.1 2.5 17 47-63 107-123 (302)
251 cd07577 Ph0642_like Pyrococcus 20.6 2.1E+02 0.0045 18.9 3.9 38 25-63 68-105 (259)
252 PF11453 DUF2950: Protein of u 20.5 73 0.0016 22.7 1.7 20 46-65 229-248 (271)
253 PF05379 Peptidase_C23: Carlav 20.4 1.7E+02 0.0037 17.0 3.0 19 47-65 63-81 (89)
254 TIGR00412 redox_disulf_2 small 20.4 1.6E+02 0.0036 15.9 5.2 28 25-67 39-66 (76)
255 PF02655 ATP-grasp_3: ATP-gras 20.3 1.2E+02 0.0026 18.9 2.6 21 50-71 140-160 (161)
256 PF14061 Mtf2_C: Polycomb-like 20.2 1.1E+02 0.0024 16.3 2.0 41 20-65 3-44 (50)
257 cd02983 P5_C P5 family, C-term 20.1 2.2E+02 0.0047 17.4 3.6 48 5-63 47-96 (130)
258 cd07585 nitrilase_7 Uncharacte 20.1 1E+02 0.0022 20.4 2.2 16 49-64 209-224 (261)
259 cd07247 SgaA_N_like N-terminal 20.1 1.6E+02 0.0035 16.3 2.9 17 47-63 96-112 (114)
No 1
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=99.82 E-value=1.4e-20 Score=125.13 Aligned_cols=67 Identities=28% Similarity=0.543 Sum_probs=57.3
Q ss_pred hhhhhhcCC-----CCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 3 DIKNYCLDI-----KGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 3 ~~~~~~~~~-----k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
.|++|...+ -.+++|||+||++++||++|||+.++.+ .+.|+||||||+|+||++.+||.++|||++
T Consensus 80 sH~aW~~~~~~~~gi~~i~~PmiaD~~~~vs~~ygvl~~~~g------~a~R~~FIIDp~g~ir~~~v~~~~iGRn~d 151 (194)
T COG0450 80 SHKAWKATIREAGGIGKIKFPMIADPKGEIARAYGVLHPEEG------LALRGTFIIDPDGVIRHILVNPLTIGRNVD 151 (194)
T ss_pred HHHHHHhcHHhcCCccceecceEEcCchhHHHHcCCcccCCC------cceeEEEEECCCCeEEEEEEecCCCCcCHH
Confidence 355665532 1348999999999999999999998654 699999999999999999999999999974
No 2
>KOG0854|consensus
Probab=99.79 E-value=9.1e-20 Score=120.81 Aligned_cols=75 Identities=45% Similarity=0.821 Sum_probs=65.8
Q ss_pred ChhhhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 1 MSDIKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 1 ~~~~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
++||+.++....+.++||+|+|+++++|-.|||+++++....+.+.+.|++|||||+.+|+.++.||.++|||++
T Consensus 84 i~DIks~~~~~~~~~~yPIIaD~~rela~~l~MlD~~e~~~~~~~~T~Ravfvi~pdkKirLs~lYP~ttGRN~d 158 (224)
T KOG0854|consen 84 IKDIKSYAKVKNHSVPYPIIADPNRELAFLLNMLDPEEKKNIGDGKTVRAVFVIDPDKKIRLSFLYPSTTGRNFD 158 (224)
T ss_pred HHHHHHHHhccCCCCCCCeecCCchhhhhhhcccCHhHcCCCCCCceEEEEEEECCCceEEEEEEcccccCcCHH
Confidence 356666655445679999999999999999999998887777778899999999999999999999999999985
No 3
>COG1225 Bcp Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=99.79 E-value=2.5e-19 Score=116.21 Aligned_cols=66 Identities=20% Similarity=0.310 Sum_probs=59.3
Q ss_pred hhhhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCC
Q psy13814 2 SDIKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 2 ~~~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~ 69 (75)
+.+++|.. |++|+||||||++++++++|||+.++.++++++..+.|+|||||++|+|+++|.....
T Consensus 76 ~~~~~F~~--k~~L~f~LLSD~~~~v~~~ygv~~~k~~~gk~~~~~~R~TfvId~dG~I~~~~~~v~~ 141 (157)
T COG1225 76 KSHKKFAE--KHGLTFPLLSDEDGEVAEAYGVWGEKKMYGKEYMGIERSTFVIDPDGKIRYVWRKVKV 141 (157)
T ss_pred HHHHHHHH--HhCCCceeeECCcHHHHHHhCcccccccCccccccccceEEEECCCCeEEEEecCCCC
Confidence 45777877 9999999999999999999999999988888888999999999999999999954433
No 4
>KOG0852|consensus
Probab=99.66 E-value=1e-16 Score=105.75 Aligned_cols=57 Identities=28% Similarity=0.565 Sum_probs=52.8
Q ss_pred CCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 13 GDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 13 ~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
..+.+|||||.+++||+.|||+.++++ ++.|++||||++|++|++.+|+.++||+++
T Consensus 95 g~~~iPllsD~~~~IsrdyGvL~~~~G------~~lRglfIId~~gi~R~it~NDlpvgRSVd 151 (196)
T KOG0852|consen 95 GPLNIPLLSDLNHEISRDYGVLKEDEG------IALRGLFIIDPDGILRQITINDLPVGRSVD 151 (196)
T ss_pred CccccceeeccchhhHHhcCceecCCC------cceeeeEEEccccceEEeeecccCCCccHH
Confidence 356799999999999999999998764 899999999999999999999999999975
No 5
>PRK13191 putative peroxiredoxin; Provisional
Probab=99.65 E-value=3.3e-16 Score=105.28 Aligned_cols=58 Identities=33% Similarity=0.656 Sum_probs=51.6
Q ss_pred CCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 13 GDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 13 ~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
.+++||||||++++++++||++.++.. ..+.|++|||||+|+|++++.|+.++|||++
T Consensus 94 ~~i~fPllsD~~~~ia~~ygv~~~~~~-----~~~~r~tfIID~~G~Ir~~~~~~~~~gr~~~ 151 (215)
T PRK13191 94 VEVPFPIIADPMGNVAKRLGMIHAESS-----TATVRAVFIVDDKGTVRLILYYPMEIGRNID 151 (215)
T ss_pred CCCceEEEECCchHHHHHcCCcccccC-----CceeEEEEEECCCCEEEEEEecCCCCCCCHH
Confidence 579999999999999999999875421 2589999999999999999999999999974
No 6
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=99.64 E-value=3.9e-16 Score=103.22 Aligned_cols=66 Identities=21% Similarity=0.392 Sum_probs=54.6
Q ss_pred hhhhhcCC--CCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 4 IKNYCLDI--KGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 4 ~~~~~~~~--k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
+++|.... .++++||||||++++++++||++.+.. +++.|+||||||+|+|++++.++..+|||++
T Consensus 79 ~~a~~~~~~~~~~l~fpllsD~~~~ia~~ygv~~~~~------g~~~r~tfIID~~G~I~~~~~~~~~~~~~~~ 146 (187)
T PRK10382 79 HKAWHSSSETIAKIKYAMIGDPTGALTRNFDNMREDE------GLADRATFVVDPQGIIQAIEVTAEGIGRDAS 146 (187)
T ss_pred HHHHHHhhccccCCceeEEEcCchHHHHHcCCCcccC------CceeeEEEEECCCCEEEEEEEeCCCCCCCHH
Confidence 45565421 158999999999999999999986532 2578999999999999999999999999863
No 7
>PRK13599 putative peroxiredoxin; Provisional
Probab=99.63 E-value=7.3e-16 Score=103.69 Aligned_cols=59 Identities=29% Similarity=0.579 Sum_probs=51.6
Q ss_pred CCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 12 KGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 12 k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
+.+++|||++|++++++++|||+.+... ..+.|+||||||+|+|++++.||.++|||++
T Consensus 88 ~~~i~fPil~D~~~~va~~yg~~~~~~~-----~~~~R~tfIID~dG~Ir~~~~~p~~~gr~~~ 146 (215)
T PRK13599 88 NIAIPFPVIADDLGKVSNQLGMIHPGKG-----TNTVRAVFIVDDKGTIRLIMYYPQEVGRNVD 146 (215)
T ss_pred CCCCceeEEECCCchHHHHcCCCccCCC-----CceeeEEEEECCCCEEEEEEEcCCCCCCCHH
Confidence 3689999999999999999999876431 1378999999999999999999999999963
No 8
>cd03016 PRX_1cys Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by reducing and detoxifying hydrogen peroxide, peroxynitrite, and organic hydroperoxides. As with all other PRXs, a cysteine sulfenic acid intermediate is formed upon reaction of 1-cys PRX with its substrates. Having no resolving cysteine, the oxidized enzyme is resolved by an external small-molecule or protein reductant such as thioredoxin or glutaredoxin. Similar to typical 2-cys PRX, 1-cys PRX forms a functional dimeric unit with a B-type interface, as well as a decameric structure which is stabilized in the reduced form of the enzyme. Other oligomeric forms, tetramers and hexamers, have also been reported. Mammalian 1-cys PRX is localized cellularly in the cytosol and is expressed at high levels in brain, eye, testes an
Probab=99.60 E-value=2e-15 Score=100.23 Aligned_cols=59 Identities=44% Similarity=0.861 Sum_probs=51.6
Q ss_pred CCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 13 GDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 13 ~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
.+++||+|+|++++++++||+..+.. +.+.+.|++|||||+|+|++++.||.+.|||++
T Consensus 86 ~~~~fpil~D~~~~ia~~yg~~~~~~----~~~~~~r~~fiID~~G~I~~~~~~~~~~gr~~~ 144 (203)
T cd03016 86 VEIPFPIIADPDREVAKLLGMIDPDA----GSTLTVRAVFIIDPDKKIRLILYYPATTGRNFD 144 (203)
T ss_pred CCCceeEEECchHHHHHHcCCccccC----CCCceeeEEEEECCCCeEEEEEecCCCCCCCHH
Confidence 68999999999999999999986542 123578999999999999999999999999863
No 9
>PRK13189 peroxiredoxin; Provisional
Probab=99.59 E-value=2.2e-15 Score=101.66 Aligned_cols=58 Identities=33% Similarity=0.626 Sum_probs=50.8
Q ss_pred CCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 13 GDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 13 ~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
.+++|||+||++++++++||+..+... ..+.|++|||||+|+|+++++||.++|||++
T Consensus 96 ~~i~fPllsD~~~~ia~~ygv~~~~~~-----~~~~r~tfIID~~G~Ir~~~~~~~~~gr~~~ 153 (222)
T PRK13189 96 VEIEFPIIADDRGEIAKKLGMISPGKG-----TNTVRAVFIIDPKGIIRAILYYPQEVGRNMD 153 (222)
T ss_pred cCcceeEEEcCccHHHHHhCCCccccC-----CCceeEEEEECCCCeEEEEEecCCCCCCCHH
Confidence 468999999999999999999865321 1489999999999999999999999999963
No 10
>PRK15000 peroxidase; Provisional
Probab=99.59 E-value=2.1e-15 Score=100.36 Aligned_cols=56 Identities=14% Similarity=0.431 Sum_probs=50.6
Q ss_pred CCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 14 DFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 14 ~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
+++|||+||++++++++||++.++. +.+.|++|||||+|+|++++.++.++|||++
T Consensus 97 ~i~fpllsD~~~~ia~~ygv~~~~~------g~~~r~tfiID~~G~I~~~~~~~~~~gr~~~ 152 (200)
T PRK15000 97 PVKYAMVADVKREIQKAYGIEHPDE------GVALRGSFLIDANGIVRHQVVNDLPLGRNID 152 (200)
T ss_pred ccCceEEECCCcHHHHHcCCccCCC------CcEEeEEEEECCCCEEEEEEecCCCCCCCHH
Confidence 5799999999999999999987643 2589999999999999999999999999974
No 11
>PRK13190 putative peroxiredoxin; Provisional
Probab=99.58 E-value=3.6e-15 Score=99.11 Aligned_cols=56 Identities=41% Similarity=0.825 Sum_probs=50.0
Q ss_pred CCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 14 DFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 14 ~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
.++||+++|++++++++||++.++. +.+.|++|||||+|+|+++..||..+|||++
T Consensus 89 ~~~fPll~D~~~~ia~~ygv~~~~~------g~~~p~~fiId~~G~I~~~~~~~~~~gr~~~ 144 (202)
T PRK13190 89 KIPFPVIADIDKELAREYNLIDENS------GATVRGVFIIDPNQIVRWMIYYPAETGRNID 144 (202)
T ss_pred CceEEEEECCChHHHHHcCCccccC------CcEEeEEEEECCCCEEEEEEEeCCCCCCCHH
Confidence 4799999999999999999976543 2478999999999999999999999999964
No 12
>PTZ00137 2-Cys peroxiredoxin; Provisional
Probab=99.58 E-value=4.2e-15 Score=102.84 Aligned_cols=56 Identities=27% Similarity=0.465 Sum_probs=50.8
Q ss_pred CCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCCC
Q psy13814 13 GDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSVE 75 (75)
Q Consensus 13 ~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~~ 75 (75)
.+++||||||++++++++||++.+. +.+.|++|||||+|+|++++.|+..+|||++
T Consensus 160 ~~l~fPlLsD~~~~iakayGv~~~~-------g~a~R~tFIID~dG~I~~~~~~~~~~gr~v~ 215 (261)
T PTZ00137 160 SPLKFPLFSDISREVSKSFGLLRDE-------GFSHRASVLVDKAGVVKHVAVYDLGLGRSVD 215 (261)
T ss_pred cCcceEEEEcCChHHHHHcCCCCcC-------CceecEEEEECCCCEEEEEEEeCCCCCCCHH
Confidence 5799999999999999999997642 2589999999999999999999999999974
No 13
>PTZ00253 tryparedoxin peroxidase; Provisional
Probab=99.51 E-value=3e-14 Score=94.13 Aligned_cols=55 Identities=25% Similarity=0.526 Sum_probs=49.8
Q ss_pred CCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCC
Q psy13814 14 DFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSV 74 (75)
Q Consensus 14 ~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~ 74 (75)
.++||+++|+++++++.||++.++. +++.|++|||||+|+|++.++++.++|||+
T Consensus 99 ~~~fpll~D~~~~ia~~ygv~~~~~------g~~~r~~fiID~~G~i~~~~~~~~~~~r~~ 153 (199)
T PTZ00253 99 TMAIPMLADKTKSIARSYGVLEEEQ------GVAYRGLFIIDPKGMLRQITVNDMPVGRNV 153 (199)
T ss_pred ccccceEECcHhHHHHHcCCcccCC------CceEEEEEEECCCCEEEEEEecCCCCCCCH
Confidence 5899999999999999999987643 257899999999999999999999999986
No 14
>cd03013 PRX5_like Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5 suggests that it may have an important antioxidant role in organelles that are major sources of reactive oxygen species (ROS), as well as a role in the control of signal transduction. PRX5 has been shown to reduce hydrogen peroxide, alkyl hydroperoxides and peroxynitrite. As with all other PRXs, the N-terminal peroxidatic cysteine of PRX5 is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Human PRX5 is able to resolve this intermediate by forming an intramolecular disulfide bond with its C-terminal cysteine (the resolving cysteine), which can then be reduced by TRX, just like an atypical 2-cys PRX. This resolving cysteine, however, is not conserved in other members of the subfamily. In such cases
Probab=99.47 E-value=1.9e-13 Score=87.53 Aligned_cols=66 Identities=17% Similarity=0.114 Sum_probs=51.8
Q ss_pred hhhhhhcCCCCCC--ceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCC
Q psy13814 3 DIKNYCLDIKGDF--PFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGR 72 (75)
Q Consensus 3 ~~~~~~~~~k~~l--~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GR 72 (75)
.+++|.. +.++ +||||||++++++++||++.++...+.+ ..+.|+||||| +|+|+++++.+.+...
T Consensus 78 ~~~~~~~--~~~~~~~f~lLsD~~~~~~~~ygv~~~~~~~~~~-~~~~R~~fiId-~g~I~~~~~~~~~~~~ 145 (155)
T cd03013 78 VMKAWGK--ALGAKDKIRFLADGNGEFTKALGLTLDLSAAGGG-IRSKRYALIVD-DGKVKYLFVEEDPGDV 145 (155)
T ss_pred HHHHHHH--hhCCCCcEEEEECCCHHHHHHcCCCccccccCCc-ceeeeEEEEEC-CCEEEEEEEecCCCCc
Confidence 4667766 5666 8999999999999999998765421111 24789999999 6999999999988654
No 15
>TIGR03137 AhpC peroxiredoxin. This gene contains two invariant cysteine residues, one near the N-terminus and one near the C-terminus, each followed immediately by a proline residue.
Probab=99.35 E-value=2.1e-12 Score=84.71 Aligned_cols=56 Identities=21% Similarity=0.466 Sum_probs=48.9
Q ss_pred CCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCC
Q psy13814 13 GDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSV 74 (75)
Q Consensus 13 ~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~ 74 (75)
++++||++||++++++++||+..+.. +.+.|+|||||++|+|++++.++...+|++
T Consensus 90 ~~l~fpllsD~~~~~a~~~gv~~~~~------g~~~p~tfiID~~G~I~~~~~~~~~~~~~~ 145 (187)
T TIGR03137 90 GKITYPMLGDPTGVLTRNFGVLIEEA------GLADRGTFVIDPEGVIQAVEITDNGIGRDA 145 (187)
T ss_pred cCcceeEEECCccHHHHHhCCcccCC------CceeeEEEEECCCCEEEEEEEeCCCCCCCH
Confidence 46899999999999999999976532 247899999999999999999999888875
No 16
>PRK00522 tpx lipid hydroperoxide peroxidase; Provisional
Probab=99.12 E-value=1.6e-10 Score=74.50 Aligned_cols=61 Identities=16% Similarity=0.324 Sum_probs=46.7
Q ss_pred hhhhhhcCCCCCCc-eeEEec-CchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCC
Q psy13814 3 DIKNYCLDIKGDFP-FAIIGD-ENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 3 ~~~~~~~~~k~~l~-fpLlsD-~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
.+++|.. +++++ ||++|| ++++++++||+...... ..+++.|+|||||++|+|+++++.+.
T Consensus 89 ~~~~f~~--~~~~~~~~~lsD~~~~~~~~~~gv~~~~~~---~~g~~~r~tfvId~~G~I~~~~~~~~ 151 (167)
T PRK00522 89 AQKRFCG--AEGLENVITLSDFRDHSFGKAYGVAIAEGP---LKGLLARAVFVLDENNKVVYSELVPE 151 (167)
T ss_pred HHHHHHH--hCCCCCceEeecCCccHHHHHhCCeecccc---cCCceeeEEEEECCCCeEEEEEECCC
Confidence 3566766 56776 899999 56699999999754211 12368999999999999999998543
No 17
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=99.09 E-value=3.3e-10 Score=71.37 Aligned_cols=63 Identities=16% Similarity=0.230 Sum_probs=47.3
Q ss_pred hhhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcC
Q psy13814 3 DIKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 3 ~~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~ 67 (75)
+++++.. +++++||+++|+++.++++||+.......+..+....|++||||++|+|++++.-.
T Consensus 77 ~~~~~~~--~~~~~~~~l~D~~~~~~~~~gv~~~~~~~~~~~~~~~~~~~lid~~G~i~~~~~g~ 139 (154)
T PRK09437 77 KLSRFAE--KELLNFTLLSDEDHQVAEQFGVWGEKKFMGKTYDGIHRISFLIDADGKIEHVFDKF 139 (154)
T ss_pred HHHHHHH--HhCCCCeEEECCCchHHHHhCCCcccccccccccCcceEEEEECCCCEEEEEEcCC
Confidence 3455655 57889999999999999999997654322222223468999999999999998643
No 18
>cd03018 PRX_AhpE_like Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater similarity to 2-cys PRXs than 1-cys PRXs. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. The first step of catalysis is the nucleophilic attack by the peroxidatic cysteine on the peroxide leading to the formation of a cysteine sulfenic acid intermediate. The absence of a resolving cysteine suggests that functional AhpE is regenerated by an external reductant. The solution behavior and crystal structure of AhpE show that it forms dimers and octamers.
Probab=99.09 E-value=4.1e-10 Score=70.05 Aligned_cols=63 Identities=19% Similarity=0.392 Sum_probs=52.0
Q ss_pred hhhhhcCCCCCCceeEEecCc--hHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCC
Q psy13814 4 IKNYCLDIKGDFPFAIIGDEN--RDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSV 74 (75)
Q Consensus 4 ~~~~~~~~k~~l~fpLlsD~~--~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~ 74 (75)
+++|.. +++++||+++|.+ +++++.||+..+.. ..+.|++||||++|+|++.+..+..++|+.
T Consensus 76 ~~~~~~--~~~~~~~~~~D~~~~~~~~~~~g~~~~~~------~~~~~~~~lid~~G~v~~~~~~~~~~~~~~ 140 (149)
T cd03018 76 LRAWAE--ENGLTFPLLSDFWPHGEVAKAYGVFDEDL------GVAERAVFVIDRDGIIRYAWVSDDGEPRDL 140 (149)
T ss_pred HHHHHH--hcCCCceEecCCCchhHHHHHhCCccccC------CCccceEEEECCCCEEEEEEecCCcccccc
Confidence 455555 5689999999988 99999999975432 256789999999999999999999888764
No 19
>cd03015 PRX_Typ2cys Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides. The functional unit of typical 2-cys PRX is a homodimer. A unique intermolecular redox-active disulfide center is utilized for its activity. Upon reaction with peroxides, its peroxidatic cysteine is oxidized into a sulfenic acid intermediate which is resolved by bonding with the resolving cysteine from the other subunit of the homodimer. This intermolecular disulfide bond is then reduced by thioredoxin, tryparedoxin or AhpF. Typical 2-cys PRXs, like 1-cys PRXs, form decamers which are stabilized by reduction of the active site cysteine. Typical 2-cys PRX interacts through beta strands at one edge of the monomer (B-type interface) to form the functional homodimer, and uses an A-type interface (similar to the dimeric
Probab=99.08 E-value=5.2e-10 Score=72.11 Aligned_cols=56 Identities=29% Similarity=0.596 Sum_probs=48.1
Q ss_pred CCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCC
Q psy13814 13 GDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSV 74 (75)
Q Consensus 13 ~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~ 74 (75)
..++||+++|++++++++||+..... +.+.|++||||++|+|++.++.+.+.+|+.
T Consensus 91 ~~~~f~~l~D~~~~~~~~~gv~~~~~------~~~~p~~~lID~~G~I~~~~~~~~~~~~~~ 146 (173)
T cd03015 91 GKINFPLLADPKKKISRDYGVLDEEE------GVALRGTFIIDPEGIIRHITVNDLPVGRSV 146 (173)
T ss_pred cCcceeEEECCchhHHHHhCCccccC------CceeeEEEEECCCCeEEEEEecCCCCCCCH
Confidence 56899999999999999999975532 247799999999999999999888888763
No 20
>cd03014 PRX_Atyp2cys Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a bacterial periplasmic peroxidase which differs from other PRXs in that it shows substrate specificity toward alkyl hydroperoxides over hydrogen peroxide. As with all other PRXs, the peroxidatic cysteine (N-terminal) of Tpx is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Tpx is able to resolve this intermediate by forming an intramolecular disulfide bond with a conserved C-terminal cysteine (the resolving cysteine), which can then be reduced by thioredoxin. This differs from the typical 2-cys PRX which resolves the oxidized cysteine by forming an intermolecular disulfide bond with the resolving cysteine from the other subunit of the homodimer. Atypical 2-cys PRX homodimers have a loop-based
Probab=99.07 E-value=4.2e-10 Score=69.90 Aligned_cols=57 Identities=18% Similarity=0.311 Sum_probs=45.2
Q ss_pred hhhhhcCCCCCC-ceeEEecCc-hHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCC
Q psy13814 4 IKNYCLDIKGDF-PFAIIGDEN-RDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 4 ~~~~~~~~k~~l-~fpLlsD~~-~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
+++|.. +.++ +||+++|+. ++++++||++.+.. +.+.|++||||++|+|++.+..+.
T Consensus 72 ~~~~~~--~~~~~~~~~l~D~~~~~~~~~~gv~~~~~------~~~~~~~~iid~~G~I~~~~~~~~ 130 (143)
T cd03014 72 QKRWCG--AEGVDNVTTLSDFRDHSFGKAYGVLIKDL------GLLARAVFVIDENGKVIYVELVPE 130 (143)
T ss_pred HHHHHH--hcCCCCceEeecCcccHHHHHhCCeeccC------CccceEEEEEcCCCeEEEEEECCC
Confidence 455654 4554 799999996 99999999976542 256899999999999999998543
No 21
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=99.06 E-value=4.4e-10 Score=69.14 Aligned_cols=65 Identities=20% Similarity=0.285 Sum_probs=50.1
Q ss_pred hhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCCCC
Q psy13814 4 IKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGRSV 74 (75)
Q Consensus 4 ~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GRn~ 74 (75)
++++.. +++++||+++|++++++++||+...... +.....|++||||++|+|++++.... .+|++
T Consensus 71 ~~~~~~--~~~~~~~~l~D~~~~~~~~~gv~~~~~~---~~~~~~p~~~lid~~G~v~~~~~g~~-~~~~~ 135 (140)
T cd03017 71 HAKFAE--KYGLPFPLLSDPDGKLAKAYGVWGEKKK---KYMGIERSTFLIDPDGKIVKVWRKVK-PKGHA 135 (140)
T ss_pred HHHHHH--HhCCCceEEECCccHHHHHhCCcccccc---ccCCcceeEEEECCCCEEEEEEecCC-ccchH
Confidence 444544 5778999999999999999999764321 22356799999999999999985554 77775
No 22
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=99.02 E-value=1e-09 Score=67.80 Aligned_cols=55 Identities=25% Similarity=0.423 Sum_probs=42.8
Q ss_pred CCCCceeEEecCchHHHHHcCCcccccc-----------------CCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 12 KGDFPFAIIGDENRDLAVKLDLLDEENK-----------------NNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 12 k~~l~fpLlsD~~~~i~~~yGv~~~~~~-----------------~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
+++++||+++|++++++++||+...... ...+.....+++||||++|+|++.++.
T Consensus 77 ~~~~~~p~~~D~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~fvid~~g~i~~~~~~ 148 (149)
T cd02970 77 GKFLPFPVYADPDRKLYRALGLVRSLPWSNTPRALWKNAAIGFRGNDEGDGLQLPGVFVIGPDGTILFAHVD 148 (149)
T ss_pred hcCCCCeEEECCchhHHHHcCceecCcHHHHHHHHhhCcccccccCCCCcccccceEEEECCCCeEEEEecC
Confidence 5789999999999999999999643210 011223579999999999999998764
No 23
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=98.97 E-value=8.4e-10 Score=66.41 Aligned_cols=53 Identities=28% Similarity=0.641 Sum_probs=44.1
Q ss_pred hhhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEE
Q psy13814 3 DIKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 3 ~~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~ 63 (75)
.++++.+ +++++||+++|++++++++||+..+.. ....|++||||++|+|++.
T Consensus 72 ~~~~~~~--~~~~~~~~~~D~~~~~~~~~~~~~~~~------~~~~p~~~lid~~g~I~~~ 124 (124)
T PF00578_consen 72 EIKQFLE--EYGLPFPVLSDPDGELAKAFGIEDEKD------TLALPAVFLIDPDGKIRYA 124 (124)
T ss_dssp HHHHHHH--HHTCSSEEEEETTSHHHHHTTCEETTT------SEESEEEEEEETTSBEEEE
T ss_pred chhhhhh--hhccccccccCcchHHHHHcCCccccC------CceEeEEEEECCCCEEEeC
Confidence 3555655 577999999999999999999976642 2588999999999999984
No 24
>cd02971 PRX_family Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are thiol-specific antioxidant (TSA) proteins also known as TRX peroxidases and alkyl hydroperoxide reductase C22 (AhpC) proteins. They confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either TRX, glutathione, trypanothione and AhpF. They are distinct from other peroxidases in that they have no cofactors such as metals or prosthetic groups. The first step of catalysis, common to all PRXs, is the nucleophilic attack by the catalytic cysteine (also known as the peroxidatic cysteine) on the peroxide leading to cleavage of the oxygen-oxygen bond and the formation of a
Probab=98.89 E-value=1e-08 Score=62.85 Aligned_cols=62 Identities=27% Similarity=0.463 Sum_probs=48.7
Q ss_pred hhhhhcCCCC-CCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCC
Q psy13814 4 IKNYCLDIKG-DFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPAST 70 (75)
Q Consensus 4 ~~~~~~~~k~-~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~ 70 (75)
.++|.+ +. .++||+++|+++.++++||+...... +.....|++||||++|+|++.+..+...
T Consensus 70 ~~~~~~--~~~~~~~~~l~D~~~~~~~~~g~~~~~~~---~~~~~~p~~~lid~~g~i~~~~~~~~~~ 132 (140)
T cd02971 70 HKAWAE--KEGGLNFPLLSDPDGEFAKAYGVLIEKSA---GGGLAARATFIIDPDGKIRYVEVEPLPT 132 (140)
T ss_pred HHHHHh--cccCCCceEEECCChHHHHHcCCcccccc---ccCceeEEEEEECCCCcEEEEEecCCCC
Confidence 344544 45 78999999999999999999754321 1125789999999999999999888763
No 25
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=98.88 E-value=4.8e-09 Score=64.28 Aligned_cols=49 Identities=14% Similarity=0.230 Sum_probs=41.3
Q ss_pred hhhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEE
Q psy13814 3 DIKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 3 ~~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
+++++.+ +++++||+++|++++++++||+. ..+++||||++|+|++++.
T Consensus 75 ~~~~~~~--~~~~~~p~~~D~~~~~~~~~~v~------------~~P~~~vid~~G~v~~~~~ 123 (126)
T cd03012 75 NVKSAVL--RYGITYPVANDNDYATWRAYGNQ------------YWPALYLIDPTGNVRHVHF 123 (126)
T ss_pred HHHHHHH--HcCCCCCEEECCchHHHHHhCCC------------cCCeEEEECCCCcEEEEEe
Confidence 3455555 68899999999999999999983 3479999999999999875
No 26
>cd02969 PRX_like1 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic cysteine found in PRXs, which aligns to the second cysteine in the CXXC motif of TRX. In addition, these proteins do not contain the other two conserved residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF.
Probab=98.68 E-value=6e-08 Score=62.10 Aligned_cols=49 Identities=20% Similarity=0.312 Sum_probs=42.2
Q ss_pred CCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCCC
Q psy13814 12 KGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTGR 72 (75)
Q Consensus 12 k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~GR 72 (75)
+++++||+++|+++.+++.||+. ..+.+||||++|+|++...++.+.++
T Consensus 86 ~~~~~~~~l~D~~~~~~~~~~v~------------~~P~~~lid~~G~v~~~~~~~~~~~~ 134 (171)
T cd02969 86 EHGYPFPYLLDETQEVAKAYGAA------------CTPDFFLFDPDGKLVYRGRIDDSRPG 134 (171)
T ss_pred HCCCCceEEECCchHHHHHcCCC------------cCCcEEEECCCCeEEEeecccCCccc
Confidence 57889999999999999999984 23789999999999999877766554
No 27
>cd02968 SCO SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c oxidase (COX). They contain a metal binding motif, typically CXXXC, which is located in a flexible loop. COX, the terminal enzyme in the respiratory chain, is imbedded in the inner mitochondrial membrane of all eukaryotes and in the plasma membrane of some prokaryotes. It is composed of two subunits, COX I and COX II. It has been proposed that Sco1 specifically delivers copper to the CuA site, a dinuclear copper center, of the COX II subunit. Mutations in human Sco1 and Sco2 cause fatal infantile hepatoencephalomyopathy and cardioencephalomyopathy, respectively. Both disorders are associated with severe COX deficiency in affected tissues. More recently, it has been argued that the redox sensitivity of the copper binding properti
Probab=98.43 E-value=4.2e-07 Score=55.89 Aligned_cols=60 Identities=18% Similarity=0.166 Sum_probs=42.1
Q ss_pred hhhhhcCCCCCCceeEEecCc---hHHHHHcCCccccccCC-ccc-CccceeEEEECCCCcEEEEEE
Q psy13814 4 IKNYCLDIKGDFPFAIIGDEN---RDLAVKLDLLDEENKNN-LET-AITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 4 ~~~~~~~~k~~l~fpLlsD~~---~~i~~~yGv~~~~~~~~-~~~-~~~~R~tFiId~dG~I~~~~~ 65 (75)
++++.. +++.+||+++|+. .+++++||+........ ... ....|++|||||+|+|++.+.
T Consensus 77 ~~~~~~--~~~~~~~~l~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~lid~~G~i~~~~~ 141 (142)
T cd02968 77 LKAYAK--AFGPGWIGLTGTPEEIEALAKAFGVYYEKVPEDDGDYLVDHSAAIYLVDPDGKLVRYYG 141 (142)
T ss_pred HHHHHH--HhCCCcEEEECCHHHHHHHHHHhcEEEEecCCCCCceeEeccceEEEECCCCCEEEeec
Confidence 455555 4568899999985 89999999875432110 000 124689999999999998864
No 28
>PRK15412 thiol:disulfide interchange protein DsbE; Provisional
Probab=98.43 E-value=5.2e-07 Score=58.91 Aligned_cols=52 Identities=12% Similarity=0.184 Sum_probs=42.1
Q ss_pred hhhhhcCCCCCCceeE-EecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCC
Q psy13814 4 IKNYCLDIKGDFPFAI-IGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 4 ~~~~~~~~k~~l~fpL-lsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~ 69 (75)
+++|.. +++++||+ ++|+++++++.||+. ..+.|||||++|+|++.+..+.+
T Consensus 112 ~~~~~~--~~~~~~~~~~~D~~~~~~~~~gv~------------~~P~t~vid~~G~i~~~~~G~~~ 164 (185)
T PRK15412 112 AISWLK--ELGNPYALSLFDGDGMLGLDLGVY------------GAPETFLIDGNGIIRYRHAGDLN 164 (185)
T ss_pred HHHHHH--HcCCCCceEEEcCCccHHHhcCCC------------cCCeEEEECCCceEEEEEecCCC
Confidence 455544 57788984 899999999999984 34789999999999999886653
No 29
>PLN02412 probable glutathione peroxidase
Probab=98.40 E-value=2.5e-07 Score=59.68 Aligned_cols=57 Identities=14% Similarity=0.099 Sum_probs=40.4
Q ss_pred CCCCceeEEec--Cch-HHHHHcCCccccccCCcccC-ccceeEEEECCCCcEEEEEEcCC
Q psy13814 12 KGDFPFAIIGD--ENR-DLAVKLDLLDEENKNNLETA-ITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 12 k~~l~fpLlsD--~~~-~i~~~yGv~~~~~~~~~~~~-~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
+++++||+++| +++ .++..|+++..+.+...+.. ...|+|||||++|+|++.+.-..
T Consensus 91 ~~~~~fpvl~~~d~~g~~~~~~~~~~~~~~~~~~~~~v~~~p~tflId~~G~vv~~~~g~~ 151 (167)
T PLN02412 91 RFKAEFPIFDKVDVNGKNTAPLYKYLKAEKGGLFGDAIKWNFTKFLVSKEGKVVQRYAPTT 151 (167)
T ss_pred ccCCCCceEeEEeeCCCCCCHHHHHHHhhCCCCCCCCcCCCCeeEEECCCCcEEEEECCCC
Confidence 57899999984 664 88999997755322111101 23689999999999999986543
No 30
>cd03010 TlpA_like_DsbE TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c maturation (Ccm) factor with a redox active CXXC motif. Assembly of cytochrome c requires the ligation of heme to reduced thiols of the apocytochrome. In bacteria, this assembly occurs in the periplasm. The reductase activity of DsbE in the oxidizing environment of the periplasm is crucial in the maturation of cytochrome c.
Probab=98.38 E-value=1.2e-06 Score=53.32 Aligned_cols=52 Identities=17% Similarity=0.301 Sum_probs=40.8
Q ss_pred hhhhhhcCCCCCCcee-EEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCC
Q psy13814 3 DIKNYCLDIKGDFPFA-IIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 3 ~~~~~~~~~k~~l~fp-LlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
+++++.+ +++++|| +++|.++++++.||+. ..+++|+||++|+|++.+.-..
T Consensus 69 ~~~~~~~--~~~~~~~~~~~D~~~~~~~~~~v~------------~~P~~~~ld~~G~v~~~~~G~~ 121 (127)
T cd03010 69 NALAWLA--RHGNPYAAVGFDPDGRVGIDLGVY------------GVPETFLIDGDGIIRYKHVGPL 121 (127)
T ss_pred HHHHHHH--hcCCCCceEEECCcchHHHhcCCC------------CCCeEEEECCCceEEEEEeccC
Confidence 3455544 5677775 6799999999999985 3588999999999999887543
No 31
>PF08534 Redoxin: Redoxin; InterPro: IPR013740 This redoxin domain is found in peroxiredoxin, thioredoxin and glutaredoxin proteins. Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine []. Chloroplast thioredoxin systems in plants regulate the enzymes involved in photosynthetic carbon assimilation []. It is thought that redoxins have a large role to play in anti-oxidant defence. Cadmium-sensitive proteins are also regulated via thioredoxin and glutaredoxin thiol redox systems [].; GO: 0016491 oxidoreductase activity; PDB: 2H30_A 1TP9_A 1Y25_A 1XVQ_A 2B1K_A 2G0F_A 2B1L_B 3K8N_A 1Z5Y_E 3OR5_A ....
Probab=98.37 E-value=1.1e-06 Score=54.43 Aligned_cols=55 Identities=22% Similarity=0.326 Sum_probs=43.3
Q ss_pred CCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCC
Q psy13814 12 KGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 12 k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~ 69 (75)
+++++||+++|++.+++++||+....... .....+.+||||++|+|++...-+..
T Consensus 82 ~~~~~~~~~~D~~~~~~~~~~~~~~~~~~---~~~~~P~~~lId~~G~V~~~~~g~~~ 136 (146)
T PF08534_consen 82 KYGINFPVLSDPDGALAKALGVTIMEDPG---NGFGIPTTFLIDKDGKVVYRHVGPDP 136 (146)
T ss_dssp HTTTTSEEEEETTSHHHHHTTCEEECCTT---TTSSSSEEEEEETTSBEEEEEESSBT
T ss_pred hhCCCceEEechHHHHHHHhCCccccccc---cCCeecEEEEEECCCEEEEEEeCCCC
Confidence 57889999999999999999975322111 11468999999999999999876654
No 32
>KOG0855|consensus
Probab=98.36 E-value=1.1e-06 Score=58.38 Aligned_cols=59 Identities=15% Similarity=0.254 Sum_probs=45.9
Q ss_pred hhhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCC
Q psy13814 3 DIKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 3 ~~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
++++|.. |++|||-||||+.+++.+.+|+-..-.+ +.+.|++||++..|..+.+..+..
T Consensus 137 sqKaF~s--KqnlPYhLLSDpk~e~ik~lGa~k~p~g-----g~~~Rsh~if~kg~~k~~ik~~~i 195 (211)
T KOG0855|consen 137 SQKAFAS--KQNLPYHLLSDPKNEVIKDLGAPKDPFG-----GLPGRSHYIFDKGGVKQLIKNNQI 195 (211)
T ss_pred HHHHhhh--hccCCeeeecCcchhHHHHhCCCCCCCC-----CcccceEEEEecCCeEEEEEeccc
Confidence 4666766 8999999999999999999998542211 368999999998887766655443
No 33
>TIGR00385 dsbE periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily. Involved in the biogenesis of c-type cytochromes as well as in disulfide bond formation in some periplasmic proteins.
Probab=98.35 E-value=9.8e-07 Score=56.94 Aligned_cols=51 Identities=14% Similarity=0.238 Sum_probs=40.5
Q ss_pred hhhhhcCCCCCCcee-EEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCC
Q psy13814 4 IKNYCLDIKGDFPFA-IIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 4 ~~~~~~~~k~~l~fp-LlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
++++.. +++++|| ++.|++++++++||+. ..+.+|+||++|+|++.+....
T Consensus 107 ~~~~~~--~~~~~f~~v~~D~~~~~~~~~~v~------------~~P~~~~id~~G~i~~~~~G~~ 158 (173)
T TIGR00385 107 ALKFLK--ELGNPYQAILIDPNGKLGLDLGVY------------GAPETFLVDGNGVILYRHAGPL 158 (173)
T ss_pred HHHHHH--HcCCCCceEEECCCCchHHhcCCe------------eCCeEEEEcCCceEEEEEeccC
Confidence 344544 5678898 6789999999999984 2478999999999999876543
No 34
>TIGR02540 gpx7 putative glutathione peroxidase Gpx7. This model represents one of several families of known and probable glutathione peroxidases. This family is restricted to animals and designated GPX7.
Probab=98.35 E-value=2.1e-07 Score=58.76 Aligned_cols=61 Identities=10% Similarity=0.160 Sum_probs=37.8
Q ss_pred hhhhhhcCCC-CCCceeEEecC---chHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCC
Q psy13814 3 DIKNYCLDIK-GDFPFAIIGDE---NRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 3 ~~~~~~~~~k-~~l~fpLlsD~---~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
++++|.. + ++++||+++|. +...+.+|+....... ..+...|+|||||++|+|++.+..+.
T Consensus 76 ~~~~f~~--~~~~~~fp~~~d~~~~~~~~~~~~~~~~~~~~---~~p~~~~~tflID~~G~v~~~~~g~~ 140 (153)
T TIGR02540 76 EIESFAR--RNYGVTFPMFSKIKILGSEAEPAFRFLVDSSK---KEPRWNFWKYLVNPEGQVVKFWRPEE 140 (153)
T ss_pred HHHHHHH--HhcCCCCCccceEecCCCCCCcHHHHHHhcCC---CCCCCccEEEEEcCCCcEEEEECCCC
Confidence 3555543 3 68999999982 3344444333222111 11223788999999999999987654
No 35
>cd00340 GSH_Peroxidase Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per subunit, which is involved in catalysis. Different isoenzymes are known in mammals,which are involved in protection against reactive oxygen species, redox regulation of many metabolic processes, peroxinitrite scavenging, and modulation of inflammatory processes.
Probab=98.26 E-value=5.6e-07 Score=56.84 Aligned_cols=64 Identities=14% Similarity=0.178 Sum_probs=40.0
Q ss_pred hhhhhhcCCC-CCCceeEEecC--chH-HHHHcCCccccccCC-cccCccceeEEEECCCCcEEEEEEcCC
Q psy13814 3 DIKNYCLDIK-GDFPFAIIGDE--NRD-LAVKLDLLDEENKNN-LETAITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 3 ~~~~~~~~~k-~~l~fpLlsD~--~~~-i~~~yGv~~~~~~~~-~~~~~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
++++|.. + .+++||+++|. ++. ++..|+++......- .......|+|||||++|+|++.+.-+.
T Consensus 75 ~~~~f~~--~~~~~~fp~~~d~d~~~~~~~~~~~~~~~~~p~~~~~~~~~~~ttflId~~G~i~~~~~G~~ 143 (152)
T cd00340 75 EIKEFCE--TNYGVTFPMFAKIDVNGENAHPLYKYLKEEAPGLLGKDIKWNFTKFLVDRDGEVVKRFAPTT 143 (152)
T ss_pred HHHHHHH--HhcCCCceeeeeEeccCCCCChHHHHHHhcCCCCCCCccccccEEEEECCCCcEEEEECCCC
Confidence 3555544 4 57899999974 444 577777532211000 000123679999999999999987654
No 36
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=98.14 E-value=8.4e-06 Score=51.62 Aligned_cols=44 Identities=16% Similarity=0.225 Sum_probs=37.9
Q ss_pred CCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcC
Q psy13814 12 KGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 12 k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~ 67 (75)
+++++||++.|.++++++.||+. ..+++|+||++|+|+..+.-.
T Consensus 115 ~~~~~~~~~~d~~~~~~~~~~v~------------~~P~~~lid~~g~i~~~~~g~ 158 (173)
T PRK03147 115 RYGLTFPVAIDKGRQVIDAYGVG------------PLPTTFLIDKDGKVVKVITGE 158 (173)
T ss_pred HhCCCceEEECCcchHHHHcCCC------------CcCeEEEECCCCcEEEEEeCC
Confidence 57789999999999999999983 357899999999999876544
No 37
>cd02966 TlpA_like_family TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a CXXC motif located in the periplasm. The TRX domains of this family contain an insert, approximately 25 residues in length, which correspond to an extra alpha helix and a beta strand when compared with TRX. TlpA catalyzes an essential reaction in the biogenesis of cytochrome aa3, while ResA and DsbE are essential proteins in cytochrome c maturation. Also included in this family are proteins containing a TlpA-like TRX domain with domain architectures similar to E. coli DipZ protein, and the N-terminal TRX domain of PilB protein from Neisseria which acts as a disulfide reductase that can recylce methionine sulfoxide reductases.
Probab=98.07 E-value=1.1e-05 Score=46.41 Aligned_cols=47 Identities=17% Similarity=0.346 Sum_probs=37.7
Q ss_pred hhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEE
Q psy13814 4 IKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 4 ~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~ 64 (75)
++++.. .++++||++.|.+.++++.||+. ..+.+||+||+|+|.+.+
T Consensus 68 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~------------~~P~~~l~d~~g~v~~~~ 114 (116)
T cd02966 68 VKAFLK--KYGITFPVLLDPDGELAKAYGVR------------GLPTTFLIDRDGRIRARH 114 (116)
T ss_pred HHHHHH--HcCCCcceEEcCcchHHHhcCcC------------ccceEEEECCCCcEEEEe
Confidence 344434 45689999999999999999984 346899999999998765
No 38
>cd03011 TlpA_like_ScsD_MtbDsbE TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif. The Salmonella typhimurium ScsD is a thioredoxin-like protein which confers copper tolerance to copper-sensitive mutants of E. coli. MtbDsbE has been characterized as an oxidase in vitro, catalyzing the disulfide bond formation of substrates like hirudin. The reduced form of MtbDsbE is more stable than its oxidized form, consistent with an oxidase function. This is in contrast to the function of DsbE from gram-negative bacteria which is a specific reductase of apocytochrome c.
Probab=98.06 E-value=1.5e-05 Score=47.92 Aligned_cols=48 Identities=15% Similarity=0.344 Sum_probs=38.7
Q ss_pred hhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 4 IKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 4 ~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
++++.. +++++||+++|++.+++++|++. ..++++|||++| |++....
T Consensus 64 ~~~~~~--~~~~~~~~~~d~~~~~~~~~~i~------------~~P~~~vid~~g-i~~~~~g 111 (123)
T cd03011 64 VARFMQ--KKGYGFPVINDPDGVISARWGVS------------VTPAIVIVDPGG-IVFVTTG 111 (123)
T ss_pred HHHHHH--HcCCCccEEECCCcHHHHhCCCC------------cccEEEEEcCCC-eEEEEec
Confidence 344444 57789999999999999999983 468999999999 8877653
No 39
>TIGR01626 ytfJ_HI0045 conserved hypothetical protein YtfJ-family, TIGR01626. This model represents sequences from gamma proteobacteria that are related to the E. coli protein, YtfJ.
Probab=98.06 E-value=1.1e-05 Score=53.63 Aligned_cols=44 Identities=11% Similarity=0.106 Sum_probs=35.7
Q ss_pred CCCcee---EEecCchHHHHHcCCccccccCCcccCccceeE-EEECCCCcEEEEEEcCC
Q psy13814 13 GDFPFA---IIGDENRDLAVKLDLLDEENKNNLETAITVRAV-YIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 13 ~~l~fp---LlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~t-FiId~dG~I~~~~~~~~ 68 (75)
.+..|| ++.|.++.++.+||+. ..+.| ||||++|+|++...-+.
T Consensus 120 ~~~~~P~~~vllD~~g~v~~~~gv~------------~~P~T~fVIDk~GkVv~~~~G~l 167 (184)
T TIGR01626 120 GKKENPWSQVVLDDKGAVKNAWQLN------------SEDSAIIVLDKTGKVKFVKEGAL 167 (184)
T ss_pred hcccCCcceEEECCcchHHHhcCCC------------CCCceEEEECCCCcEEEEEeCCC
Confidence 456677 9999999999999984 33445 99999999999887653
No 40
>PTZ00256 glutathione peroxidase; Provisional
Probab=97.97 E-value=4.7e-06 Score=54.38 Aligned_cols=57 Identities=16% Similarity=0.099 Sum_probs=37.1
Q ss_pred CCCCceeEEec--CchHH-HHHcCCccccccC-----CcccCcc-ceeEEEECCCCcEEEEEEcCC
Q psy13814 12 KGDFPFAIIGD--ENRDL-AVKLDLLDEENKN-----NLETAIT-VRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 12 k~~l~fpLlsD--~~~~i-~~~yGv~~~~~~~-----~~~~~~~-~R~tFiId~dG~I~~~~~~~~ 68 (75)
+++++||+++| .++.. ++.|+++.++... +....++ .|++||||++|+|++.+..+.
T Consensus 103 ~~~~~fpv~~d~d~~g~~~~~~~~~l~~~~~~~~~~~~~~~~iP~~~~tflID~~G~Iv~~~~g~~ 168 (183)
T PTZ00256 103 KFNVDFPLFQKIEVNGENTHEIYKYLRRNSELFQNNTNEARQIPWNFAKFLIDGQGKVVKYFSPKV 168 (183)
T ss_pred hcCCCCCCceEEecCCCCCCHHHHHHHhhCCCCcCccccCcccCcceEEEEECCCCCEEEEECCCC
Confidence 36899999977 55544 5677655443321 0011123 678999999999999887543
No 41
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=3.3e-05 Score=50.25 Aligned_cols=60 Identities=20% Similarity=0.365 Sum_probs=46.2
Q ss_pred hhhhhcCCCCCCc-eeEEecC-chHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCC
Q psy13814 4 IKNYCLDIKGDFP-FAIIGDE-NRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 4 ~~~~~~~~k~~l~-fpLlsD~-~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
.++||+ .+++. -..+||. ++..-++||+...+.. --++..|++|++|.+|+|.|+.+-+.
T Consensus 90 q~RfC~--aeGi~nv~~lSd~r~~~Fge~yGv~I~egp---L~gLlARaV~V~De~g~V~y~elv~e 151 (158)
T COG2077 90 QKRFCG--AEGIENVITLSDFRDRAFGENYGVLINEGP---LAGLLARAVFVLDENGKVTYSELVPE 151 (158)
T ss_pred Hhhhhh--hcCcccceEhhhhhhhhhhHhhCEEecccc---ccCeeeeEEEEEcCCCcEEEEEccch
Confidence 567877 67775 7788995 6678899999865431 11378999999999999999987654
No 42
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=97.71 E-value=0.0002 Score=43.15 Aligned_cols=61 Identities=21% Similarity=0.335 Sum_probs=44.8
Q ss_pred hhhhhcCCCCCCceeEEecCchHHHHHcCCcccccc-------------------------CC-cccCccceeEEEECCC
Q psy13814 4 IKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENK-------------------------NN-LETAITVRAVYIIGPD 57 (75)
Q Consensus 4 ~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~-------------------------~~-~~~~~~~R~tFiId~d 57 (75)
+++|++ ....+|||.+|++.++-+++|+...... .. .+...-.=++||+|++
T Consensus 27 ~~~f~~--~~~~p~~ly~D~~~~lY~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~q~GG~fv~d~~ 104 (115)
T PF13911_consen 27 IEKFCE--LTGFPFPLYVDPERKLYKALGLKRGLKWSLLPPALWSGLSNIVQSAKNGGIPGNKDQGDGWQLGGTFVFDPG 104 (115)
T ss_pred HHHHHh--ccCCCCcEEEeCcHHHHHHhCCccccccCCCchHHHHHHHHHHHHHHHcCCCCcccCCCceecCeEEEEcCC
Confidence 566665 4778999999999999999998652111 01 1223456689999999
Q ss_pred CcEEEEEEc
Q psy13814 58 RKLKLSIVY 66 (75)
Q Consensus 58 G~I~~~~~~ 66 (75)
|+|.+.+..
T Consensus 105 g~v~~~hr~ 113 (115)
T PF13911_consen 105 GKVLYEHRD 113 (115)
T ss_pred CeEEEEEec
Confidence 999998864
No 43
>cd02967 mauD Methylamine utilization (mau) D family; mauD protein is the translation product of the mauD gene found in methylotrophic bacteria, which are able to use methylamine as a sole carbon source and a nitrogen source. mauD is an essential accessory protein for the biosynthesis of methylamine dehydrogenase (MADH), the enzyme that catalyzes the oxidation of methylamine and other primary amines. MADH possesses an alpha2beta2 subunit structure; the alpha subunit is also referred to as the large subunit. Each beta (small) subunit contains a tryptophan tryptophylquinone (TTQ) prosthetic group. Accessory proteins are essential for the proper transport of MADH to the periplasm, TTQ synthesis and the formation of several structural disulfide bonds. Bacterial mutants containing an insertion on the mauD gene were unable to grow on methylamine as a sole carbon source, were found to lack the MADH small subunit and had decreased amounts of the MADH large subunit.
Probab=97.63 E-value=0.00011 Score=43.51 Aligned_cols=38 Identities=8% Similarity=0.168 Sum_probs=29.3
Q ss_pred CCCCc-eeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEE
Q psy13814 12 KGDFP-FAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 12 k~~l~-fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~ 63 (75)
++++. ||.+.+ ..++++||+. ..+++||||++|+|++.
T Consensus 73 ~~~~~~~p~~~~--~~~~~~~~~~------------~~P~~~vid~~G~v~~~ 111 (114)
T cd02967 73 KHGLEAFPYVLS--AELGMAYQVS------------KLPYAVLLDEAGVIAAK 111 (114)
T ss_pred HhCCCCCcEEec--HHHHhhcCCC------------CcCeEEEECCCCeEEec
Confidence 46664 887764 4688888873 46899999999999875
No 44
>cd03008 TryX_like_RdCVF Tryparedoxin (TryX)-like family, Rod-derived cone viability factor (RdCVF) subfamily; RdCVF is a thioredoxin (TRX)-like protein specifically expressed in photoreceptors. RdCVF was isolated and identified as a factor that supports cone survival in retinal cultures. Cone photoreceptor loss is responsible for the visual handicap resulting from the inherited disease, retinitis pigmentosa. RdCVF shows 33% similarity to TRX but does not exhibit any detectable thiol oxidoreductase activity.
Probab=97.58 E-value=9.6e-05 Score=47.39 Aligned_cols=46 Identities=11% Similarity=0.218 Sum_probs=33.2
Q ss_pred hhhhhcCCCCCCce---eEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEE
Q psy13814 4 IKNYCLDIKGDFPF---AIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 4 ~~~~~~~~k~~l~f---pLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~ 63 (75)
++++.. +.+++| |+..+.++++++.||+. ..+++||||++|+|+..
T Consensus 80 ~~~f~~--~~~~~~~~~p~~~~~~~~l~~~y~v~------------~iPt~vlId~~G~Vv~~ 128 (146)
T cd03008 80 QESFLK--DMPKKWLFLPFEDEFRRELEAQFSVE------------ELPTVVVLKPDGDVLAA 128 (146)
T ss_pred HHHHHH--HCCCCceeecccchHHHHHHHHcCCC------------CCCEEEEECCCCcEEee
Confidence 344444 455444 55555667999999983 57999999999999865
No 45
>PLN02399 phospholipid hydroperoxide glutathione peroxidase
Probab=97.47 E-value=0.00015 Score=49.69 Aligned_cols=56 Identities=13% Similarity=0.048 Sum_probs=35.4
Q ss_pred CCCCceeEEec--Cch-HHHHHcCCccccccCCccc-CccceeEEEECCCCcEEEEEEcC
Q psy13814 12 KGDFPFAIIGD--ENR-DLAVKLDLLDEENKNNLET-AITVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 12 k~~l~fpLlsD--~~~-~i~~~yGv~~~~~~~~~~~-~~~~R~tFiId~dG~I~~~~~~~ 67 (75)
+++++||+++| .++ .++..|+++........+. ....+.|||||++|+|++.+.-+
T Consensus 161 ~~g~~fPvl~~~D~~G~~~~~~y~~l~~~~~~~~g~~i~~~PttfLIDk~GkVv~~~~G~ 220 (236)
T PLN02399 161 RFKAEFPIFDKVDVNGPSTAPVYQFLKSNAGGFLGDLIKWNFEKFLVDKNGKVVERYPPT 220 (236)
T ss_pred hcCCCCccccccCCCcchhhHHHHHHHHhcCCccCCccccCceEEEECCCCcEEEEECCC
Confidence 46889999964 445 6777787542211100000 01346899999999999987644
No 46
>TIGR02661 MauD methylamine dehydrogenase accessory protein MauD. This protein, MauD, appears critical to proper formation of the small subunit of methylamine dehydrogenase, which has both an unusual tryptophan tryptophylquinone cofactor and multiple disulfide bonds. MauD shares sequence similarity, including a CPxC motif, with a number of thiol:disulfide interchange proteins. In MauD mutants, the small subunit apparently does not form properly and is rapidly degraded.
Probab=97.44 E-value=0.00024 Score=46.56 Aligned_cols=46 Identities=4% Similarity=0.104 Sum_probs=34.3
Q ss_pred hhhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEE
Q psy13814 3 DIKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 3 ~~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~ 63 (75)
++++|.. +++++||... .++++++.||+. ..+.+||||++|+|++.
T Consensus 117 ~~~~~~~--~~~~~~~~~~-~~~~i~~~y~v~------------~~P~~~lID~~G~I~~~ 162 (189)
T TIGR02661 117 EHRRFLK--DHELGGERYV-VSAEIGMAFQVG------------KIPYGVLLDQDGKIRAK 162 (189)
T ss_pred HHHHHHH--hcCCCcceee-chhHHHHhccCC------------ccceEEEECCCCeEEEc
Confidence 3455555 5777777655 578899999873 34678999999999985
No 47
>PTZ00056 glutathione peroxidase; Provisional
Probab=97.37 E-value=0.0005 Score=45.64 Aligned_cols=57 Identities=9% Similarity=0.019 Sum_probs=34.0
Q ss_pred hhhhhhcCCCCCCceeEEecC------chHHHH--------HcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 3 DIKNYCLDIKGDFPFAIIGDE------NRDLAV--------KLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 3 ~~~~~~~~~k~~l~fpLlsD~------~~~i~~--------~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
+++++.. +++++||+++|. ...+.+ .|+..... ... ...++|||||++|+|++.+.-
T Consensus 93 ~~~~f~~--~~~~~fpvl~d~~v~g~~~~~l~~~l~~~~~~~~d~~~~~----~~i-~~~~~tflID~~G~iv~~~~g 163 (199)
T PTZ00056 93 DIRKFND--KNKIKYNFFEPIEVNGENTHELFKFLKANCDSMHDENGTL----KAI-GWNFGKFLVNKSGNVVAYFSP 163 (199)
T ss_pred HHHHHHH--HcCCCceeeeeeeccCCccCHHHHHHHHhCcccccccccC----Ccc-CCCCEEEEECCCCcEEEEeCC
Confidence 4566655 688999999873 333333 23321110 011 123579999999999977643
No 48
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=96.90 E-value=0.0027 Score=48.08 Aligned_cols=41 Identities=20% Similarity=0.263 Sum_probs=35.4
Q ss_pred ceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCC
Q psy13814 16 PFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 16 ~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
.||++.|.+++++++||+. ..+++||||++|+|+....-..
T Consensus 120 ~~pV~~D~~~~lak~fgV~------------giPTt~IIDkdGkIV~~~~G~~ 160 (521)
T PRK14018 120 KLPVLTDNGGTLAQSLNIS------------VYPSWAIIGKDGDVQRIVKGSI 160 (521)
T ss_pred ccceeccccHHHHHHcCCC------------CcCeEEEEcCCCeEEEEEeCCC
Confidence 4799999999999999984 5689999999999998876544
No 49
>PLN02919 haloacid dehalogenase-like hydrolase family protein
Probab=96.87 E-value=0.0022 Score=51.79 Aligned_cols=43 Identities=14% Similarity=0.218 Sum_probs=37.4
Q ss_pred CCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 12 KGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 12 k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
+.+++||++.|.+.++.++||+. ..+++||||++|+|.....-
T Consensus 479 ~~~i~~pvv~D~~~~~~~~~~V~------------~iPt~ilid~~G~iv~~~~G 521 (1057)
T PLN02919 479 RYNISHPVVNDGDMYLWRELGVS------------SWPTFAVVSPNGKLIAQLSG 521 (1057)
T ss_pred HhCCCccEEECCchHHHHhcCCC------------ccceEEEECCCCeEEEEEec
Confidence 57899999999999999999973 46799999999999987543
No 50
>cd03009 TryX_like_TryX_NRX Tryparedoxin (TryX)-like family, TryX and nucleoredoxin (NRX) subfamily; TryX and NRX are thioredoxin (TRX)-like protein disulfide oxidoreductases that alter the redox state of target proteins via the reversible oxidation of an active center CXXC motif. TryX is involved in the regulation of oxidative stress in parasitic trypanosomatids by reducing TryX peroxidase, which in turn catalyzes the reduction of hydrogen peroxide and organic hydroperoxides. TryX derives reducing equivalents from reduced trypanothione, a polyamine peptide conjugate unique to trypanosomatids, which is regenerated by the NADPH-dependent flavoprotein trypanothione reductase. Vertebrate NRX is a 400-amino acid nuclear protein with one redox active TRX domain containing a CPPC active site motif followed by one redox inactive TRX-like domain. Mouse NRX transcripts are expressed in all adult tissues but is restricted to the nervous system and limb buds in embryos. Plant NRX, longer than the
Probab=96.75 E-value=0.001 Score=40.48 Aligned_cols=37 Identities=14% Similarity=0.268 Sum_probs=28.3
Q ss_pred CceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEE
Q psy13814 15 FPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 15 l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~ 64 (75)
++|+. +|.+..++++||+. ..+++||||++|+|....
T Consensus 80 ~~~~~-~~~~~~~~~~~~v~------------~~P~~~lid~~G~i~~~~ 116 (131)
T cd03009 80 VPFSD-RERRSRLNRTFKIE------------GIPTLIILDADGEVVTTD 116 (131)
T ss_pred cccCC-HHHHHHHHHHcCCC------------CCCEEEEECCCCCEEccc
Confidence 44554 56678899999983 358999999999998653
No 51
>PRK13728 conjugal transfer protein TrbB; Provisional
Probab=96.50 E-value=0.0085 Score=39.79 Aligned_cols=43 Identities=7% Similarity=0.045 Sum_probs=33.2
Q ss_pred CCceeEEec-CchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEE-EEEc
Q psy13814 14 DFPFAIIGD-ENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKL-SIVY 66 (75)
Q Consensus 14 ~l~fpLlsD-~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~-~~~~ 66 (75)
.+.||++.| ..+.+.+.||+.. ...++|||||++|+|.+ +..-
T Consensus 112 ~~~fPv~~dd~~~~~~~~~g~~~----------~~iPttfLId~~G~i~~~~~~G 156 (181)
T PRK13728 112 DTAFPEALPAPPDVMQTFFPNIP----------VATPTTFLVNVNTLEALPLLQG 156 (181)
T ss_pred CCCCceEecCchhHHHHHhCCCC----------CCCCeEEEEeCCCcEEEEEEEC
Confidence 578999995 6778888999631 25799999999999964 4543
No 52
>PF13905 Thioredoxin_8: Thioredoxin-like; PDB: 1FG4_A 1I5G_A 1OC8_B 1O6J_A 1OC9_B 1O81_A 3FKF_A 1O85_A 1O7U_A 1O8W_A ....
Probab=95.52 E-value=0.035 Score=31.69 Aligned_cols=36 Identities=25% Similarity=0.561 Sum_probs=25.8
Q ss_pred CCCceeEE---ecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcE
Q psy13814 13 GDFPFAII---GDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKL 60 (75)
Q Consensus 13 ~~l~fpLl---sD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I 60 (75)
.+.+++.+ .+...++.+.||+. ..+.++|+|++|+|
T Consensus 57 ~~~~~~~~~~~~~~~~~l~~~~~i~------------~iP~~~lld~~G~I 95 (95)
T PF13905_consen 57 NNFPWYNVPFDDDNNSELLKKYGIN------------GIPTLVLLDPDGKI 95 (95)
T ss_dssp CTTSSEEEETTTHHHHHHHHHTT-T------------SSSEEEEEETTSBE
T ss_pred cCCCceEEeeCcchHHHHHHHCCCC------------cCCEEEEECCCCCC
Confidence 43444444 34577899999884 47899999999987
No 53
>cd02964 TryX_like_family Tryparedoxin (TryX)-like family; composed of TryX and related proteins including nucleoredoxin (NRX), rod-derived cone viability factor (RdCVF) and the nematode homolog described as a 16-kD class of TRX. Most members of this family, except RdCVF, are protein disulfide oxidoreductases containing an active site CXXC motif, similar to TRX.
Probab=95.47 E-value=0.047 Score=33.34 Aligned_cols=29 Identities=10% Similarity=0.214 Sum_probs=22.4
Q ss_pred chHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEE
Q psy13814 24 NRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 24 ~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~ 64 (75)
...+++.||+. ..++++|||++|+|++..
T Consensus 88 ~~~~~~~~~v~------------~iPt~~lid~~G~iv~~~ 116 (132)
T cd02964 88 RELLEKQFKVE------------GIPTLVVLKPDGDVVTTN 116 (132)
T ss_pred HHHHHHHcCCC------------CCCEEEEECCCCCEEchh
Confidence 35677778873 458999999999998653
No 54
>PF09695 YtfJ_HI0045: Bacterial protein of unknown function (YtfJ_HI0045); InterPro: IPR006513 These are sequences from gammaproteobacteria that are related to the Escherichia coli protein, YtfJ.
Probab=93.26 E-value=0.14 Score=33.64 Aligned_cols=45 Identities=20% Similarity=0.337 Sum_probs=35.0
Q ss_pred CCCCcee-EEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcC
Q psy13814 12 KGDFPFA-IIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 12 k~~l~fp-LlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~ 67 (75)
|...|++ ++.|.++.+.++|++-.+ .-+.+|+|++|+|+++..-.
T Consensus 99 kk~~p~s~~vlD~~G~~~~aW~L~~~-----------~SaiiVlDK~G~V~F~k~G~ 144 (160)
T PF09695_consen 99 KKEFPWSQFVLDSNGVVRKAWQLQEE-----------SSAIIVLDKQGKVQFVKEGA 144 (160)
T ss_pred hhhCCCcEEEEcCCCceeccccCCCC-----------CceEEEEcCCccEEEEECCC
Confidence 4566776 789999999999998432 24578999999999986543
No 55
>PF02630 SCO1-SenC: SCO1/SenC; InterPro: IPR003782 This family is involved in biogenesis of respiratory and photosynthetic systems. In yeast the SCO1 protein is specifically required for a post-translational step in the accumulation of subunits 1 and 2 of cytochrome c oxidase (COXI and COX-II) []. It is a mitochondrion-associated cytochrome c oxidase assembly factor. The purple nonsulphur photosynthetic eubacterium Rhodobacter capsulatus is a versatile organism that can obtain cellular energy by several means, including the capture of light energy for photosynthesis as well as the use of light-independent respiration, in which molecular oxygen serves as a terminal electron acceptor. The SenC protein is required for optimal cytochrome c oxidase activity in aerobically grown R. capsulatus cells and is involved in the induction of structural polypeptides of the light-harvesting and reaction centre complexes [].; PDB: 2K6V_A 3ME8_A 3ME7_A 2GT6_A 2GQL_A 2GQK_A 2GGT_B 1WP0_C 2HRN_A 2GQM_A ....
Probab=90.89 E-value=0.3 Score=31.58 Aligned_cols=44 Identities=18% Similarity=0.264 Sum_probs=28.4
Q ss_pred CchHHHHHcCCccccccC---CcccC-ccceeEEEECCCCcEEEEEEc
Q psy13814 23 ENRDLAVKLDLLDEENKN---NLETA-ITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 23 ~~~~i~~~yGv~~~~~~~---~~~~~-~~~R~tFiId~dG~I~~~~~~ 66 (75)
.-.+++++|++....... ...+. .-.-.+|||||+|+|+..+.+
T Consensus 126 ~i~~l~~~~~v~~~~~~~~~~~~~~~i~Hs~~~~Lidp~G~i~~~y~~ 173 (174)
T PF02630_consen 126 EIEELAKQFGVYYEKVPEDKPEGDYQIDHSAFIYLIDPDGRIRAIYNL 173 (174)
T ss_dssp HHHHHHHHCTHCEEEEESSSTTSCEEEEESSEEEEE-TTSEEEEEECS
T ss_pred HHHHHHHHHHhhhcccccccCCCCceEecccEEEEEcCCCcEEEEEcc
Confidence 456789999987542211 11112 256689999999999998754
No 56
>COG0678 AHP1 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=90.88 E-value=1.2 Score=29.22 Aligned_cols=52 Identities=12% Similarity=0.226 Sum_probs=39.7
Q ss_pred ceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCC
Q psy13814 16 PFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 16 ~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~ 69 (75)
+.-+|+|.+++..++.|+.......+-+ ....|=..|+. ||+|...+.-|+.
T Consensus 99 ~I~fi~Dg~geFTk~~Gm~~d~~~~g~G-~RS~RYsmvV~-nGvV~~~~iE~p~ 150 (165)
T COG0678 99 NIKFIPDGNGEFTKAMGMLVDKSDLGFG-VRSWRYSMVVE-NGVVEKLFIEPPG 150 (165)
T ss_pred cEEEecCCCchhhhhcCceeecccCCcc-eeeeeEEEEEe-CCeEEEEEecCCC
Confidence 4668999999999999997664433322 24678888885 8999999887743
No 57
>TIGR02738 TrbB type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB. This protein is part of a large group of proteins involved in conjugative transfer of plasmid DNA, specifically the F-type system. This protein has been predicted to contain a thioredoxin fold, contains a conserved pair of cysteines and has been shown to function as a thiol disulfide isomerase by complementation of an Ecoli DsbA defect. The protein is believed to be involved in pilin assembly. The protein is closely related to TraF (TIGR02739) which is somewhat longer, lacks the cysteine motif and is apparently not functional as a disulfide bond isomerase.
Probab=88.55 E-value=1.2 Score=28.58 Aligned_cols=16 Identities=6% Similarity=0.279 Sum_probs=13.2
Q ss_pred cceeEEEECCCCcEEE
Q psy13814 47 TVRAVYIIGPDRKLKL 62 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~ 62 (75)
..+++|+||++|++..
T Consensus 118 ~iPTt~LID~~G~~i~ 133 (153)
T TIGR02738 118 VTPATFLVNVNTRKAY 133 (153)
T ss_pred CCCeEEEEeCCCCEEE
Confidence 6789999999988643
No 58
>cd02950 TxlA TRX-like protein A (TxlA) family; TxlA was originally isolated from the cyanobacterium Synechococcus. It is found only in oxygenic photosynthetic organisms. TRX is a small enzyme that participate in redox reactions, via the reversible oxidation of an active site dithiol present in a CXXC motif. Disruption of the txlA gene suggests that the protein is involved in the redox regulation of the structure and function of photosynthetic apparatus. The plant homolog (designated as HCF164) is localized in the chloroplast and is involved in the assembly of the cytochrome b6f complex, which takes a central position in photosynthetic electron transport.
Probab=87.15 E-value=2.7 Score=26.20 Aligned_cols=41 Identities=5% Similarity=0.074 Sum_probs=28.7
Q ss_pred CCCceeEEe-cCc--hHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEE
Q psy13814 13 GDFPFAIIG-DEN--RDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 13 ~~l~fpLls-D~~--~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
..+.|-.+. |.+ ..++++||+. ..++++++|++|++.....
T Consensus 51 ~~~~~v~v~vd~~~~~~~~~~~~V~------------~iPt~v~~~~~G~~v~~~~ 94 (142)
T cd02950 51 DQVNFVMLNVDNPKWLPEIDRYRVD------------GIPHFVFLDREGNEEGQSI 94 (142)
T ss_pred cCeeEEEEEcCCcccHHHHHHcCCC------------CCCEEEEECCCCCEEEEEe
Confidence 345555443 433 3788899873 4688999999999987665
No 59
>TIGR02740 TraF-like TraF-like protein. This protein is related to the F-type conjugation system pilus assembly proteins TraF (TIGR02739)and TrbB (TIGR02738) both of which exhibit a thioredoxin fold. The protein represented by this model has the same length and architecture as TraF, but lacks the CXXC-motif found in TrbB and believed to be responsible for the disulfide isomerase activity of that protein.
Probab=83.32 E-value=2.4 Score=29.46 Aligned_cols=32 Identities=22% Similarity=0.284 Sum_probs=22.9
Q ss_pred cCchHHHHHcCCccccccCCcccCccceeEEEECC-CCcEEEEEE
Q psy13814 22 DENRDLAVKLDLLDEENKNNLETAITVRAVYIIGP-DRKLKLSIV 65 (75)
Q Consensus 22 D~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~-dG~I~~~~~ 65 (75)
+.+..++++||+. ..+++||+|+ .|+|..+..
T Consensus 216 ~~d~~la~~~gV~------------~vPtl~Lv~~~~~~v~~v~~ 248 (271)
T TIGR02740 216 RPDAGQAQQLKIR------------TVPAVFLADPDPNQFTPIGF 248 (271)
T ss_pred cCCHHHHHHcCCC------------cCCeEEEEECCCCEEEEEEe
Confidence 3456788898873 5689999999 466655543
No 60
>cd02951 SoxW SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide fixation during autotrophic growth and the respiratory electron transport chain. It is unclear what the role of SoxW is, since it has been found to be dispensable in the oxidation of thiosulfate to sulfate. SoxW is specifically kept in the reduced state by SoxV, which is essential in thiosulfate oxidation.
Probab=83.29 E-value=2.5 Score=25.22 Aligned_cols=30 Identities=20% Similarity=0.274 Sum_probs=23.6
Q ss_pred chHHHHHcCCccccccCCcccCccceeEEEECCC-CcEEEEEE
Q psy13814 24 NRDLAVKLDLLDEENKNNLETAITVRAVYIIGPD-RKLKLSIV 65 (75)
Q Consensus 24 ~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~d-G~I~~~~~ 65 (75)
+.+++.+|++. ..++++++|++ |++.....
T Consensus 73 ~~~l~~~~~v~------------~~Pt~~~~~~~gg~~~~~~~ 103 (125)
T cd02951 73 EKELARKYRVR------------FTPTVIFLDPEGGKEIARLP 103 (125)
T ss_pred HHHHHHHcCCc------------cccEEEEEcCCCCceeEEec
Confidence 46889999873 46899999999 88876653
No 61
>KOG0541|consensus
Probab=82.50 E-value=3.9 Score=27.06 Aligned_cols=66 Identities=14% Similarity=0.178 Sum_probs=42.6
Q ss_pred hhhhhcCCCCCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcCCCCC
Q psy13814 4 IKNYCLDIKGDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYPASTG 71 (75)
Q Consensus 4 ~~~~~~~~k~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~~~~G 71 (75)
+++|....+.+-..-+++|++++..+.+|+-.+......+ ....|=..+++ ||++....+-+..++
T Consensus 93 ~~aW~k~~g~~~~V~f~aD~~g~ftk~lgleld~~d~~~g-~RS~R~a~vve-ngkV~~~nvE~~g~~ 158 (171)
T KOG0541|consen 93 MKAWAKSLGANDHVKFVADPAGEFTKSLGLELDLSDKLLG-VRSRRYALVVE-NGKVTVVNVEEGGTD 158 (171)
T ss_pred HHHHHhhcCccceEEEEecCCCceeeeccceeeeccccCc-cccccEEEEEe-CCeEEEEEeccCCCc
Confidence 3566553334345668999999999999985432211111 23556666664 899999888776553
No 62
>PF13098 Thioredoxin_2: Thioredoxin-like domain; PDB: 1T3B_A 2L57_A 1EEJ_B 1TJD_A 1JZD_B 1JZO_A 1G0T_B 3GV1_A 1V58_A 2H0H_A ....
Probab=82.09 E-value=3 Score=24.11 Aligned_cols=28 Identities=18% Similarity=0.330 Sum_probs=20.5
Q ss_pred hHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEE
Q psy13814 25 RDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 25 ~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~ 64 (75)
.++++.||+- ..++.+++|++|++....
T Consensus 72 ~~l~~~~~v~------------gtPt~~~~d~~G~~v~~~ 99 (112)
T PF13098_consen 72 KELAQRYGVN------------GTPTIVFLDKDGKIVYRI 99 (112)
T ss_dssp HHHHHHTT--------------SSSEEEECTTTSCEEEEE
T ss_pred HHHHHHcCCC------------ccCEEEEEcCCCCEEEEe
Confidence 4577788763 468999999999987654
No 63
>PF05176 ATP-synt_10: ATP10 protein; InterPro: IPR007849 This entry represents the ATPase assembly factor ATP10 found in mitochondria, which is essential for the assembly of the mitochondrial F1-F0 complex. A yeast nuclear gene (ATP10) encodes a product that is essential for the assembly of a functional mitochondrial ATPase complex. Mutations in ATP10 induce a loss of rutamycin sensitivity in the mitochondrial ATPase, but do not affect the respiratory enzymes. ATP10 has an Mr of 30,293 and its primary structure is not related to any known subunit of the yeast or mammalian mitochondrial ATPase complexes. ATP10 is associated with the mitochondrial membrane. It is suggested that the ATP10 product is not a subunit of the ATPase complex but rather a protein required for the assembly of the F0 sector of the complex [].; GO: 0033615 mitochondrial proton-transporting ATP synthase complex assembly, 0005743 mitochondrial inner membrane
Probab=81.88 E-value=1 Score=31.22 Aligned_cols=41 Identities=15% Similarity=0.265 Sum_probs=29.1
Q ss_pred ceeEEecC--chHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 16 PFAIIGDE--NRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 16 ~fpLlsD~--~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
.|=+..+. .-.+-+++|+..... ==+||||++|+|||.-.-
T Consensus 193 ~Yf~~~~~~~~~~iRe~Lgi~N~~~----------GYvyLVD~~grIRWagsG 235 (252)
T PF05176_consen 193 RYFIVYRGQLSDDIREALGINNSYV----------GYVYLVDPNGRIRWAGSG 235 (252)
T ss_pred eEEEEeCCcccHHHHHHhCCCCCCc----------CeEEEECCCCeEEeCccC
Confidence 35444433 668899999976543 238999999999997543
No 64
>COG3054 Predicted transcriptional regulator [General function prediction only]
Probab=81.29 E-value=3.7 Score=27.19 Aligned_cols=44 Identities=25% Similarity=0.377 Sum_probs=30.7
Q ss_pred CCCCce-eEEecCchHHHH-HcCCccccccCCcccCccceeEEEECCCCcEEEEEEcC
Q psy13814 12 KGDFPF-AIIGDENRDLAV-KLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 12 k~~l~f-pLlsD~~~~i~~-~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~ 67 (75)
|...|+ .++-|.++ +++ +|++- + ...++.+.|++|+++++.--.
T Consensus 121 Kke~pwSq~vlD~~g-vak~AWqL~-e----------~~SaivVlDk~G~VkfvkeGa 166 (184)
T COG3054 121 KKEYPWSQFVLDSNG-VAKNAWQLK-E----------ESSAVVVLDKDGRVKFVKEGA 166 (184)
T ss_pred cccCCceeeEEccch-hhhhhhccc-c----------ccceEEEEcCCCcEEEEecCC
Confidence 444444 46778887 555 89874 3 236889999999999986443
No 65
>COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]
Probab=79.97 E-value=3.4 Score=27.64 Aligned_cols=47 Identities=11% Similarity=0.114 Sum_probs=30.1
Q ss_pred cCchHHHHHcCCccccccCCc--cc-CccceeEEEECCCCcEEEEEEcCC
Q psy13814 22 DENRDLAVKLDLLDEENKNNL--ET-AITVRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 22 D~~~~i~~~yGv~~~~~~~~~--~~-~~~~R~tFiId~dG~I~~~~~~~~ 68 (75)
+...+++++|+|......... .+ ..-.-..|+||++|++...+.+..
T Consensus 142 ~~~~~~~k~~~V~~~~v~~~~~~~y~~~Hs~~~~lid~~G~~~~~~~~~~ 191 (207)
T COG1999 142 EQIEEVAKAYGVFYSKVPLDDSQNYTIDHSAGFYLIDADGRFLGTYDYGE 191 (207)
T ss_pred HHHHHHHHHhcceeeecccCCCCCceeeeeeEEEEECCCCeEEEEecCCC
Confidence 346689999999852111111 12 234566789999999998876543
No 66
>smart00775 LNS2 LNS2 domain. This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain and phosphatidylinositol transfer proteins. SMP2 is involved in plasmid maintenance and respiration. Lipin proteins are involved in adipose tissue development and insulin resistance.
Probab=79.48 E-value=2.6 Score=26.86 Aligned_cols=40 Identities=13% Similarity=0.171 Sum_probs=26.8
Q ss_pred CCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEE
Q psy13814 13 GDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKL 62 (75)
Q Consensus 13 ~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~ 62 (75)
.+++|-+.-|...+-...|--. +++..-+|+|||.|.|..
T Consensus 117 ~~~~f~~~~gn~~~D~~~y~~~----------gi~~~~i~~i~~~~~~~~ 156 (157)
T smart00775 117 QGNPFYAGFGNRITDVISYSAV----------GIPPSRIFTINPKGEVHQ 156 (157)
T ss_pred CCCCEEEEeCCCchhHHHHHHc----------CCChhhEEEECCCCcccc
Confidence 4566655455445556666433 367888999999999864
No 67
>COG3322 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]
Probab=78.36 E-value=3.3 Score=29.58 Aligned_cols=28 Identities=21% Similarity=0.396 Sum_probs=23.6
Q ss_pred cceeEEEECCCCcEEEEEEcCCCCCCCC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYPASTGRSV 74 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~~~~GRn~ 74 (75)
-.=.+|+||++|+++|...+...++.+.
T Consensus 103 g~d~vf~vd~~G~~vy~~~~d~~t~~~~ 130 (295)
T COG3322 103 GLDGVFVVDPSGKLVYSKLVDQETATEL 130 (295)
T ss_pred CccEEEEECCCCCEEEEeeecccccccc
Confidence 3457999999999999999988887654
No 68
>PF00837 T4_deiodinase: Iodothyronine deiodinase; InterPro: IPR000643 Iodothyronine deiodinase (1.97.1.10 from EC) (DI) [] is the vertebrate enzyme responsible for the deiodination of the prohormone thyroxine (T4 or 3,5,3',5'-tetraiodothyronine) into the biologically active hormone T3 (3,5,3'-triiodothyronine) and of T3 into the inactive metabolite T2 (3,3'-diiodothyronine). All known DI are proteins of about 250 residues that contain a selenocysteine at their active site. Three types of DI are known, type II is essential for providing the brain with the appropriate levels of T3 during the critical period of development, and type III is essential for the regulation of thyroid hormone inactivation during embryological development.; GO: 0004800 thyroxine 5'-deiodinase activity, 0055114 oxidation-reduction process
Probab=78.20 E-value=4 Score=28.36 Aligned_cols=37 Identities=24% Similarity=0.293 Sum_probs=28.7
Q ss_pred CCCceeEEecC-chHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEE
Q psy13814 13 GDFPFAIIGDE-NRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 13 ~~l~fpLlsD~-~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~ 63 (75)
....+|++.|. ++...++||.+ +.| +|||. +|+|.|.
T Consensus 179 ~~~~~pi~vD~mdN~~~~~YgA~------------PeR-lyIi~-~gkv~Y~ 216 (237)
T PF00837_consen 179 EFPQCPIVVDTMDNNFNKAYGAL------------PER-LYIIQ-DGKVVYK 216 (237)
T ss_pred hCCCCCEEEEccCCHHHHHhCCC------------cce-EEEEE-CCEEEEe
Confidence 44679999996 88999999996 445 46664 8998876
No 69
>cd02956 ybbN ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria.
Probab=73.97 E-value=8.8 Score=21.46 Aligned_cols=35 Identities=11% Similarity=0.197 Sum_probs=26.2
Q ss_pred eEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEE
Q psy13814 18 AIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 18 pLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
-+=.|.+..++++|++. ..+++++++ +|++...+.
T Consensus 49 ~vd~~~~~~l~~~~~i~------------~~Pt~~~~~-~g~~~~~~~ 83 (96)
T cd02956 49 KVNCDAQPQIAQQFGVQ------------ALPTVYLFA-AGQPVDGFQ 83 (96)
T ss_pred EEeccCCHHHHHHcCCC------------CCCEEEEEe-CCEEeeeec
Confidence 45578899999999984 457788886 888765543
No 70
>PF13728 TraF: F plasmid transfer operon protein
Probab=69.84 E-value=15 Score=24.72 Aligned_cols=25 Identities=20% Similarity=0.454 Sum_probs=20.0
Q ss_pred CchHHHHHcCCccccccCCcccCccceeEEEECCCCc
Q psy13814 23 ENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRK 59 (75)
Q Consensus 23 ~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~ 59 (75)
.+..+++.+|+- ..+++|+++|++.
T Consensus 171 ~~~g~~~~l~v~------------~~Pal~Lv~~~~~ 195 (215)
T PF13728_consen 171 PDPGQAKRLGVK------------VTPALFLVNPNTK 195 (215)
T ss_pred CCHHHHHHcCCC------------cCCEEEEEECCCC
Confidence 357788888882 5799999999883
No 71
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=69.71 E-value=6.2 Score=22.14 Aligned_cols=20 Identities=25% Similarity=0.360 Sum_probs=17.5
Q ss_pred eeEEecCch-HHHHHcCCccc
Q psy13814 17 FAIIGDENR-DLAVKLDLLDE 36 (75)
Q Consensus 17 fpLlsD~~~-~i~~~yGv~~~ 36 (75)
+-++-|++. +||+..|+-.+
T Consensus 36 ~~iIidpe~SeIAkrlgi~~P 56 (64)
T COG2093 36 LLIIIDPEKSEIAKRLGIKIP 56 (64)
T ss_pred EEEEEcCcHHHHHHHhCCCCC
Confidence 889999988 99999998654
No 72
>cd08351 ChaP_like ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins. ChaP is an enzyme involved in the biosynthesis of the potent antitumor agent chartreusin (cha). Cha is an aromatic polyketide glycoside produced by Streptomyces chartreusis. ChaP may play a role as a meta-cleavage dioxygenase in the oxidative rearrangement of the anthracyclic polyketide. ChaP belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases.
Probab=68.16 E-value=9 Score=22.39 Aligned_cols=21 Identities=38% Similarity=0.555 Sum_probs=18.0
Q ss_pred cceeEEEECCCCcEEEEEEcC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~ 67 (75)
..|..|+-||||.+.....+|
T Consensus 102 g~~~~~f~DPdG~~iEl~~~~ 122 (123)
T cd08351 102 GGRGVYFLDPDGHLLEIITRP 122 (123)
T ss_pred CeeEEEEECCCCCEEEEEecc
Confidence 459999999999998887775
No 73
>TIGR01352 tonB_Cterm TonB family C-terminal domain. This model represents the C-terminal of TonB and is homologs. TonB is an energy-transducer for TonB-dependent receptors of Gram-negative bacteria. Most members are designated as TonB or TonB-related proteins, but a few represent the paralogous TolA protein. Several bacteria have up to four TonB paralogs. In nearly every case, a proline-rich repetive region is found N-terminal to this domain; these low-complexity regions are highly divergent and cannot readily be aligned. The region is suggested to help span the periplasm.
Probab=66.43 E-value=13 Score=19.75 Aligned_cols=21 Identities=19% Similarity=0.197 Sum_probs=17.0
Q ss_pred ccceeEEEECCCCcEEEEEEc
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~ 66 (75)
....-.|.||++|.|....+-
T Consensus 10 G~v~v~~~i~~~G~v~~~~i~ 30 (74)
T TIGR01352 10 GTVVVRFTVDADGRVTSVSVL 30 (74)
T ss_pred eEEEEEEEECCCCCEEEEEEE
Confidence 367889999999999877653
No 74
>cd02961 PDI_a_family Protein Disulfide Isomerase (PDIa) family, redox active TRX domains; composed of eukaryotic proteins involved in oxidative protein folding in the endoplasmic reticulum (ER) by acting as catalysts and folding assistants. Members of this family include PDI and PDI-related proteins like ERp72, ERp57 (or ERp60), ERp44, P5, PDIR, ERp46 and the transmembrane PDIs. PDI, ERp57, ERp72, P5, PDIR and ERp46 are all oxidases, catalyzing the formation of disulfide bonds of newly synthesized polypeptides in the ER. They also exhibit reductase activity in acting as isomerases to correct any non-native disulfide bonds, as well as chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. These proteins usually contain multiple copies of a redox active TRX (a) domain containing a CXXC motif, and may also contain one or more redox inactive TRX-like (b) domains. Only one a domain is required for the oxidase function but multiple copies
Probab=66.25 E-value=14 Score=19.98 Aligned_cols=35 Identities=17% Similarity=0.221 Sum_probs=26.0
Q ss_pred CCCceeEE-ecCchHHHHHcCCccccccCCcccCccceeEEEECCCCc
Q psy13814 13 GDFPFAII-GDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRK 59 (75)
Q Consensus 13 ~~l~fpLl-sD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~ 59 (75)
.++.|-.+ +|.+.++++.||+. ..+++++++++|.
T Consensus 48 ~~~~~~~v~~~~~~~~~~~~~i~------------~~Pt~~~~~~~~~ 83 (101)
T cd02961 48 GKVVVAKVDCTANNDLCSEYGVR------------GYPTIKLFPNGSK 83 (101)
T ss_pred CceEEEEeeccchHHHHHhCCCC------------CCCEEEEEcCCCc
Confidence 45666555 46678999999983 4578999998863
No 75
>PF11211 DUF2997: Protein of unknown function (DUF2997); InterPro: IPR021375 This family of proteins has no known function.
Probab=66.12 E-value=4.9 Score=21.13 Aligned_cols=14 Identities=21% Similarity=0.479 Sum_probs=11.3
Q ss_pred EEEECCCCcEEEEE
Q psy13814 51 VYIIGPDRKLKLSI 64 (75)
Q Consensus 51 tFiId~dG~I~~~~ 64 (75)
.|.|.|||+|....
T Consensus 2 ~~~I~~dG~V~~~v 15 (48)
T PF11211_consen 2 EFTIYPDGRVEEEV 15 (48)
T ss_pred EEEECCCcEEEEEE
Confidence 48899999997654
No 76
>PF13778 DUF4174: Domain of unknown function (DUF4174)
Probab=66.11 E-value=7.4 Score=23.73 Aligned_cols=21 Identities=33% Similarity=0.396 Sum_probs=18.0
Q ss_pred eeEEEECCCCcEEEEEEcCCC
Q psy13814 49 RAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 49 R~tFiId~dG~I~~~~~~~~~ 69 (75)
=++++|++||.++..+..|.+
T Consensus 80 f~~vLiGKDG~vK~r~~~p~~ 100 (118)
T PF13778_consen 80 FTVVLIGKDGGVKLRWPEPID 100 (118)
T ss_pred eEEEEEeCCCcEEEecCCCCC
Confidence 568999999999999877764
No 77
>PF11720 Inhibitor_I78: Peptidase inhibitor I78 family; InterPro: IPR021719 This family includes Aspergillus elastase inhibitor and belongs to MEROPS peptidase inhibitor family I78.
Probab=65.21 E-value=10 Score=20.52 Aligned_cols=36 Identities=8% Similarity=0.029 Sum_probs=24.7
Q ss_pred HHHcCCccccccCCcccCccceeEEEECCCCcEEEEE
Q psy13814 28 AVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 28 ~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~ 64 (75)
++.+-++.+.......| .+.|-.|.+|.+|+|..++
T Consensus 23 ~~~~Rvi~Pg~~vTmDy-r~dRLnv~~D~~g~I~~v~ 58 (60)
T PF11720_consen 23 AETVRVIRPGDAVTMDY-RPDRLNVEVDDDGVITRVR 58 (60)
T ss_pred ccceEEeCCCCcCcccC-CCCcEEEEECCCCcEEEEe
Confidence 55555555544333333 5899999999999998764
No 78
>PF08448 PAS_4: PAS fold; InterPro: IPR013656 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. ; PDB: 3K3D_A 3K3C_B 3KX0_X 3FC7_B 3LUQ_D 3MXQ_A 3BWL_C 3FG8_A.
Probab=64.36 E-value=7.1 Score=21.49 Aligned_cols=15 Identities=20% Similarity=0.651 Sum_probs=12.2
Q ss_pred eEEEECCCCcEEEEE
Q psy13814 50 AVYIIGPDRKLKLSI 64 (75)
Q Consensus 50 ~tFiId~dG~I~~~~ 64 (75)
..+++|++|+|.+..
T Consensus 7 ~i~v~D~~~~i~~~N 21 (110)
T PF08448_consen 7 GIFVIDPDGRIVYAN 21 (110)
T ss_dssp EEEEEETTSBEEEE-
T ss_pred eeEEECCCCEEEEEH
Confidence 578999999998764
No 79
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=63.84 E-value=6.3 Score=23.51 Aligned_cols=26 Identities=12% Similarity=0.148 Sum_probs=19.2
Q ss_pred ceeEEEECCCCcEEEEEEcCCCCCCCC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYPASTGRSV 74 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~~~~GRn~ 74 (75)
.--.+|.|++|++.... +|..+|.++
T Consensus 39 ~~~i~v~D~~g~~l~~s-~~~~iG~~~ 64 (116)
T PF14827_consen 39 IDYIVVTDRDGIVLAHS-DPERIGDRY 64 (116)
T ss_dssp -SEEEEECTTSBECE-S-SCCCTTSB-
T ss_pred CeEEEEEcCCCCEEEcC-ChHHcCCcc
Confidence 34578999999977766 888888875
No 80
>cd08361 PpCmtC_N N-terminal domain of 2,3-dihydroxy-p-cumate-3,4-dioxygenase (PpCmtC). This subfamily contains the N-terminal, non-catalytic, domain of PpCmtC. 2,3-dihydroxy-p-cumate-3,4-dioxygenase (CmtC of Pseudomonas putida F1) is a dioxygenase involved in the eight-step catabolism pathway of p-cymene. CmtC acts upon the reaction intermediate 2,3-dihydroxy-p-cumate, yielding 2-hydroxy-3-carboxy-6-oxo-7-methylocta-2,4-dienoate. The CmtC belongs to the type I family of extradiol dioxygenases. Fe2+ was suggested as a cofactor, same as other enzymes in the family. The type I family of extradiol dioxygenases contains two structurally homologous barrel-shaped domains at the N- and C-terminal. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism.
Probab=63.28 E-value=13 Score=21.87 Aligned_cols=24 Identities=17% Similarity=0.173 Sum_probs=19.2
Q ss_pred ceeEEEECCCCcEEEEEEcCCCCC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYPASTG 71 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~~~~G 71 (75)
.+..++.||||.....+..|..+|
T Consensus 101 ~~~~~f~DPdG~~iE~~~~~~~~~ 124 (124)
T cd08361 101 KAFIAFRDPSGNSIELVVRPSHLG 124 (124)
T ss_pred ceEEEEECcCCCEEEEEEeeeccC
Confidence 456789999999888888777654
No 81
>PF00989 PAS: PAS fold; InterPro: IPR013767 PAS domains are involved in many signalling proteins where they are used as a signal sensor domain []. PAS domains appear in archaea, bacteria and eukaryotes. Several PAS-domain proteins are known to detect their signal by way of an associated cofactor. Haeme, flavin, and a 4-hydroxycinnamyl chromophore are used in different proteins. The PAS domain was named after three proteins that it occurs in: Per- period circadian protein Arnt- Ah receptor nuclear translocator protein Sim- single-minded protein. PAS domains are often associated with PAC domains IPR001610 from INTERPRO. It appears that these domains are directly linked, and that together they form the conserved 3D PAS fold. The division between the PAS and PAC domains is caused by major differences in sequences in the region connecting these two motifs []. In human PAS kinase, this region has been shown to be very flexible, and adopts different conformations depending on the bound ligand []. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 2GJ3_A 4F3L_B 1XFN_A 1OTD_A 2PYR_A 1KOU_A 1XFQ_A 2ZOI_A 2ZOH_A 1OTA_A ....
Probab=63.15 E-value=7.7 Score=21.46 Aligned_cols=18 Identities=11% Similarity=0.337 Sum_probs=14.5
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..=+.|++|++|+|.++.
T Consensus 10 ~~~~i~~~d~~g~I~~~N 27 (113)
T PF00989_consen 10 SPDGIFVIDEDGRILYVN 27 (113)
T ss_dssp SSSEEEEEETTSBEEEEC
T ss_pred CCceEEEEeCcCeEEEEC
Confidence 345789999999998763
No 82
>PF13426 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_B 3P7N_B 1LL8_A 3MJQ_A 3BWL_A 4EET_B 4EEP_A ....
Probab=61.31 E-value=8.8 Score=20.79 Aligned_cols=15 Identities=20% Similarity=0.589 Sum_probs=12.1
Q ss_pred eEEEECCCCcEEEEE
Q psy13814 50 AVYIIGPDRKLKLSI 64 (75)
Q Consensus 50 ~tFiId~dG~I~~~~ 64 (75)
+.|++|++|+|.++-
T Consensus 3 ~i~i~d~~g~i~~~N 17 (104)
T PF13426_consen 3 GIFILDPDGRILYVN 17 (104)
T ss_dssp EEEEEETTSBEEEE-
T ss_pred EEEEECCcCcEEehh
Confidence 579999999998763
No 83
>PF03544 TonB_C: Gram-negative bacterial TonB protein C-terminal; InterPro: IPR006260 The sequences in this set all contain a conserved C-terminal domain which is characteristic of TonB and is homologs. TonB is an energy-transducer for TonB-dependent receptors of Gram-negative bacteria []. Most members are designated as TonB or TonB-related proteins, but a few represent the paralogous TolA protein. Several bacteria have up to four TonB paralogs. In nearly every case, a proline-rich repetitive region is found N-terminal to this domain; these low-complexity regions are highly divergent and cannot readily be aligned. The region is suggested to span the periplasm. Iron is essential for growth in both bacteria and mammals. Controlling the amount of free iron in solution is often used as a tactic by hosts to limit invasion of pathogenic microbes; binding iron tightly within protein molecules can accomplish this. Some bacteria express surface receptors to capture eukaryotic iron-binding compounds, while others have evolved siderophores to scavenge iron from iron-binding host proteins []. The absence of free iron molecules in the surrounding environment triggers transcription of gene clusters that encode both siderophore-synthesis ezymes, and receptors that recognise iron-bound siderophores []. An example of the latter is Escherichia coli fepA, which resides in the outer envelope and captures iron-bound enterobactin []. To complete transport of bound iron across the inner membrane, a second receptor complex is needed. The major component of this is tonB, a 27kDa protein that facilitates energy transfer from the proton motive force to outer receptors. B-12 and colicin receptors also make use of the tonB system to drive active transport at the outer membrane.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016020 membrane, 0030288 outer membrane-bounded periplasmic space; PDB: 1U07_B 1IHR_A 2GRX_C 2GSK_B 1QXX_A 1XX3_A 2K9K_A.
Probab=60.35 E-value=11 Score=20.45 Aligned_cols=21 Identities=29% Similarity=0.278 Sum_probs=16.9
Q ss_pred ccceeEEEECCCCcEEEEEEc
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~ 66 (75)
......|.||++|.|..+.+-
T Consensus 16 G~v~v~~~I~~~G~v~~~~v~ 36 (79)
T PF03544_consen 16 GTVVVEFTIDPDGRVSDVRVI 36 (79)
T ss_dssp EEEEEEEEEETTTEEEEEEEE
T ss_pred EEEEEEEEEeCCCCEEEEEEE
Confidence 467889999999999876543
No 84
>cd08357 Glo_EDI_BRP_like_18 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=59.66 E-value=15 Score=20.93 Aligned_cols=18 Identities=6% Similarity=0.049 Sum_probs=14.8
Q ss_pred ceeEEEECCCCcEEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~ 65 (75)
.|+.|+.||||.......
T Consensus 107 ~~~~~~~DPdG~~iE~~~ 124 (125)
T cd08357 107 QETFFLKDPSGNALEFKA 124 (125)
T ss_pred eeEEEEECCCCCEEEEee
Confidence 489999999998876544
No 85
>cd09011 Glo_EDI_BRP_like_23 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=59.44 E-value=14 Score=21.28 Aligned_cols=17 Identities=24% Similarity=0.262 Sum_probs=14.3
Q ss_pred ceeEEEECCCCcEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~ 64 (75)
.|..++.||||.+..+.
T Consensus 101 ~r~~~~~DPdGn~iei~ 117 (120)
T cd09011 101 QRVVRFYDPDKHIIEVG 117 (120)
T ss_pred cEEEEEECCCCCEEEEe
Confidence 58999999999987654
No 86
>PF08269 Cache_2: Cache domain; InterPro: IPR013163 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins, including the animal dihydropyridine-sensitive voltage-gated Ca2+ channel; alpha-2delta subunit, and various bacterial chemotaxis receptors. The name Cache comes from CAlcium channels and CHEmotaxis receptors. This domain consists of an N-terminal part with three predicted strands and an alpha-helix, and a C-terminal part with a strand dyad followed by a relatively unstructured region. The N-terminal portion of the (unpermuted) Cache domain contains three predicted strands that could form a sheet analogous to that present in the core of the PAS domain structure. Cache domains are particularly widespread in bacteria, with Vibrio cholerae. The animal calcium channel alpha-2delta subunits might have acquired a part of their extracellular domains from a bacterial source []. The Cache domain appears to have arisen from the GAF-PAS fold despite their divergent functions []. This entry is composed of the type 2 Cache domain.; PDB: 2QHK_A 4EXO_A.
Probab=59.30 E-value=5.2 Score=22.95 Aligned_cols=25 Identities=16% Similarity=0.224 Sum_probs=16.1
Q ss_pred eEEEECCCCcEEEEEEcCCCCCCCC
Q psy13814 50 AVYIIGPDRKLKLSIVYPASTGRSV 74 (75)
Q Consensus 50 ~tFiId~dG~I~~~~~~~~~~GRn~ 74 (75)
=.|+.|.+|++...-.+|.-.|+|+
T Consensus 58 Y~fi~d~~g~~l~hp~~p~~~G~n~ 82 (95)
T PF08269_consen 58 YFFIYDMDGVVLAHPSNPELEGKNL 82 (95)
T ss_dssp --EEE-TTSBEEEESS-GGGTT-B-
T ss_pred eEEEEeCCCeEEEcCCCcccCCccc
Confidence 3799999999877767788888875
No 87
>cd06006 R3H_unknown_2 R3H domain of a group of fungal proteins with unknown function. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=58.83 E-value=12 Score=20.48 Aligned_cols=37 Identities=19% Similarity=0.323 Sum_probs=23.7
Q ss_pred CCCceeEEecCc----hHHHHHcCCccccccCCcccCccceeEEEE
Q psy13814 13 GDFPFAIIGDEN----RDLAVKLDLLDEENKNNLETAITVRAVYII 54 (75)
Q Consensus 13 ~~l~fpLlsD~~----~~i~~~yGv~~~~~~~~~~~~~~~R~tFiI 54 (75)
..+.||=+.=+. +.+|+.||+..+..+. -+.|.++|.
T Consensus 18 ~~~~f~pM~~~~R~~vHdla~~~gl~SeS~d~-----Ep~R~V~v~ 58 (59)
T cd06006 18 RSLRFPPMRSPQRAFIHELAKDYGLYSESQDP-----EPKRSVFVK 58 (59)
T ss_pred CceeCCCCCHHHHHHHHHHHHHcCCeeEecCC-----CCCcEEEEe
Confidence 445665555443 4688999997664431 378998874
No 88
>cd07253 Glo_EDI_BRP_like_2 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=58.78 E-value=15 Score=20.72 Aligned_cols=19 Identities=32% Similarity=0.471 Sum_probs=15.4
Q ss_pred ceeEEEECCCCcEEEEEEc
Q psy13814 48 VRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~ 66 (75)
.++.++.||+|.+..+..|
T Consensus 107 ~~~~~~~DPdG~~ve~~~~ 125 (125)
T cd07253 107 ITSVYFRDPDGNLIELSNY 125 (125)
T ss_pred ccEEEEECCCCCEEEeeeC
Confidence 4789999999998776554
No 89
>PF00379 Chitin_bind_4: Insect cuticle protein; InterPro: IPR000618 Insect cuticle is composed of proteins and chitin. The cuticular proteins seem to be specific to the type of cuticle (flexible or stiff) that occur at stages of the insect development. The proteins found in the flexible cuticle of larva and pupa of different insects share a conserved C-terminal section [] such a region is also found in the soft endocuticle of adults insects [] as well as in other cuticular proteins including in arachnids []. In addition, cuticular proteins share hydrophobic regions dominated by tetrapeptide repeats (A-A-P-A/V), which are presumed to be functionally important [, ]. Many insect cuticle proteins also include a 35-36 amino acid motif known as the R and R consensus. An extended form of this motif has been shown [] to bind chitin. It has no sequence similiarity to the cysteine-containing chitin-binding domain of chitinases and some peritrophic membrane proteins, suggesting that arthropods have two distinct classes of chitin-binding proteins, those with the chitin-binding domains found in lectins, chitinases and peritrophic membranes (cysCBD), and those with the type of chitin-binding domains found in cuticular proteins (non-cysCBD) []. The cuticle protein signature has been found in locust cuticle proteins 7 (LM-7), 8 (LM-8), 19 (LM-19) and endocuticle structural glycoprotein ABD-4; Hyalophora cecropia (Cecropia moth) cuticle proteins 12 and 66; Drosophila melanogaster (Fruit fly) larval cuticles proteins I, II, III and IV (LCP1 to LCP4); drosophila pupal cuticle proteins PCP, EDG-78E and EDG-84E; Manduca sexta (Tobacco hawkmoth) cuticle protein LCP-14; Tenebrio molitor (Yellow mealworm) cuticle proteins ACP-20, A1A, A2B and A3A; and Araneus diadematus (Spider) cuticle proteins ACP 11.9, ACP 12.4, ACP 12.6, ACP 15.5 and ACP 15.7.; GO: 0042302 structural constituent of cuticle
Probab=58.65 E-value=21 Score=18.43 Aligned_cols=26 Identities=27% Similarity=0.395 Sum_probs=18.3
Q ss_pred ccceeEE-EECCCCcEEEEEEcCCCCC
Q psy13814 46 ITVRAVY-IIGPDRKLKLSIVYPASTG 71 (75)
Q Consensus 46 ~~~R~tF-iId~dG~I~~~~~~~~~~G 71 (75)
...+..| .+||||+.+.+....+..|
T Consensus 25 ~~v~GsY~y~~pdG~~~~V~Y~Ad~~G 51 (52)
T PF00379_consen 25 GVVRGSYSYIDPDGQTRTVTYVADENG 51 (52)
T ss_pred CEEEEEEEEECCCCCEEEEEEECCCCC
Confidence 3455554 7899999888877665544
No 90
>cd02953 DsbDgamma DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD alpha). DsbD beta, a transmembrane domain comprising of eight helices, acquires its reducing potential from the cytoplasmic thioredoxin. DsbD alpha transfers the acquired reducing potential from DsbD gamma to target proteins such as the periplasmic protein disulphide isomerases, DsbC and DsbG. This flow of reducing potential from the cytoplasm through DsbD allows DsbC and DsbG to act as isomerases in the oxidizing environment of the bacterial periplasm. DsbD also transfers reducing potential from the cytoplasm to specific reductases in the periplasm which are involved in the maturation of cytochromes.
Probab=56.71 E-value=11 Score=21.52 Aligned_cols=28 Identities=14% Similarity=0.203 Sum_probs=21.5
Q ss_pred chHHHHHcCCccccccCCcccCccceeEEEECC-CCcEEEE
Q psy13814 24 NRDLAVKLDLLDEENKNNLETAITVRAVYIIGP-DRKLKLS 63 (75)
Q Consensus 24 ~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~-dG~I~~~ 63 (75)
..+++++||+. ..++++++++ +|++...
T Consensus 61 ~~~~~~~~~i~------------~~Pti~~~~~~~g~~~~~ 89 (104)
T cd02953 61 ITALLKRFGVF------------GPPTYLFYGPGGEPEPLR 89 (104)
T ss_pred HHHHHHHcCCC------------CCCEEEEECCCCCCCCcc
Confidence 46888888873 4689999998 8886544
No 91
>cd08355 Glo_EDI_BRP_like_14 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The structures of this family demonstrate domain swapping, which is shared by glyoxalase I and antibiotic resistance proteins.
Probab=56.70 E-value=17 Score=20.87 Aligned_cols=19 Identities=21% Similarity=0.153 Sum_probs=15.4
Q ss_pred ceeEEEECCCCcEEEEEEc
Q psy13814 48 VRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~ 66 (75)
.|..++.||+|.+.....|
T Consensus 104 ~~~~~~~DPdG~~~~l~~~ 122 (122)
T cd08355 104 SREFTARDPEGNLWTFGTY 122 (122)
T ss_pred cEEEEEECCCCCEEEEecC
Confidence 4778899999998877654
No 92
>PF12681 Glyoxalase_2: Glyoxalase-like domain; PDB: 3G12_B 1JIF_B 1JIE_B 1QTO_A 3OXH_A 2PJS_A 2RBB_A 3SK1_B 3SK2_B 3RRI_A ....
Probab=56.05 E-value=17 Score=20.23 Aligned_cols=16 Identities=31% Similarity=0.407 Sum_probs=11.6
Q ss_pred ceeEEEECCCCcEEEE
Q psy13814 48 VRAVYIIGPDRKLKLS 63 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~ 63 (75)
.|..++.||+|.+...
T Consensus 92 ~~~~~~~DPdG~~ie~ 107 (108)
T PF12681_consen 92 QRSFYFIDPDGNRIEF 107 (108)
T ss_dssp EEEEEEE-TTS-EEEE
T ss_pred eEEEEEECCCCCEEEe
Confidence 5899999999987654
No 93
>cd03005 PDI_a_ERp46 PDIa family, endoplasmic reticulum protein 46 (ERp46) subfamily; ERp46 is an ER-resident protein containing three redox active TRX domains. Yeast complementation studies show that ERp46 can substitute for protein disulfide isomerase (PDI) function in vivo. It has been detected in many tissues, however, transcript and protein levels do not correlate in all tissues, suggesting regulation at a posttranscriptional level. An identical protein, named endoPDI, has been identified as an endothelial PDI that is highly expressed in the endothelium of tumors and hypoxic lesions. It has a protective effect on cells exposed to hypoxia.
Probab=54.69 E-value=36 Score=18.89 Aligned_cols=32 Identities=9% Similarity=0.135 Sum_probs=21.6
Q ss_pred ecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEE
Q psy13814 21 GDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 21 sD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
+|.+..+++.|++. ..++++++ ++|+....+.
T Consensus 59 ~~~~~~~~~~~~v~------------~~Pt~~~~-~~g~~~~~~~ 90 (102)
T cd03005 59 CTQHRELCSEFQVR------------GYPTLLLF-KDGEKVDKYK 90 (102)
T ss_pred CCCChhhHhhcCCC------------cCCEEEEE-eCCCeeeEee
Confidence 46677899999873 34567777 6787655443
No 94
>TIGR01068 thioredoxin thioredoxin. Several proteins, such as protein disulfide isomerase, have two or more copies of a domain closely related to thioredoxin. This model is designed to recognize authentic thioredoxin, a small protein that should be hit exactly once by this model.
Probab=54.62 E-value=34 Score=18.65 Aligned_cols=39 Identities=23% Similarity=0.338 Sum_probs=26.0
Q ss_pred CCCceeEE-ecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEE
Q psy13814 13 GDFPFAII-GDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 13 ~~l~fpLl-sD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~ 64 (75)
.++.|-.+ +|.+.+++++||+. ..++++++ ++|++....
T Consensus 45 ~~~~~~~vd~~~~~~~~~~~~v~------------~~P~~~~~-~~g~~~~~~ 84 (101)
T TIGR01068 45 GKVKFVKLNVDENPDIAAKYGIR------------SIPTLLLF-KNGKEVDRS 84 (101)
T ss_pred CCeEEEEEECCCCHHHHHHcCCC------------cCCEEEEE-eCCcEeeee
Confidence 34555433 57788899999984 35677777 578765443
No 95
>PRK09381 trxA thioredoxin; Provisional
Probab=54.40 E-value=39 Score=19.25 Aligned_cols=40 Identities=13% Similarity=0.136 Sum_probs=26.9
Q ss_pred CCc-eeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 14 DFP-FAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 14 ~l~-fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
++. +.+=.|....+++.|++. ..++++++ ++|++.....-
T Consensus 53 ~~~~~~vd~~~~~~~~~~~~v~------------~~Pt~~~~-~~G~~~~~~~G 93 (109)
T PRK09381 53 KLTVAKLNIDQNPGTAPKYGIR------------GIPTLLLF-KNGEVAATKVG 93 (109)
T ss_pred CcEEEEEECCCChhHHHhCCCC------------cCCEEEEE-eCCeEEEEecC
Confidence 344 345567778888888873 34566666 68998876643
No 96
>cd02958 UAS UAS family; UAS is a domain of unknown function. Most members of this family are uncharacterized proteins with similarity to FAS-associated factor 1 (FAF1) and ETEA because of the presence of a UAS domain N-terminal to a ubiquitin-associated UBX domain. FAF1 is a longer protein, compared to the other members of this family, having additional N-terminal domains, a ubiquitin-associated UBA domain and a nuclear targeting domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. ETEA is the protein product of a highly expressed gene in T-cells and eosinophils of atopic dermatitis patients. The presence of the ubiquitin-associated UBX domain in the proteins of this family suggests the possibility of their involvement in ubiquitination. Recently, FAF1 has been shown to interact with valosin-containing protein (VCP),
Probab=53.83 E-value=33 Score=20.04 Aligned_cols=30 Identities=10% Similarity=0.082 Sum_probs=22.4
Q ss_pred chHHHHHcCCccccccCCcccCccceeEEEECC-CCcEEEEEE
Q psy13814 24 NRDLAVKLDLLDEENKNNLETAITVRAVYIIGP-DRKLKLSIV 65 (75)
Q Consensus 24 ~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~-dG~I~~~~~ 65 (75)
..+++..|++. ..+..++||| +|++...+.
T Consensus 65 ~~~~~~~~~~~------------~~P~~~~i~~~~g~~l~~~~ 95 (114)
T cd02958 65 GQRFLQSYKVD------------KYPHIAIIDPRTGEVLKVWS 95 (114)
T ss_pred HHHHHHHhCcc------------CCCeEEEEeCccCcEeEEEc
Confidence 34677777752 4688999999 899887654
No 97
>PF13535 ATP-grasp_4: ATP-grasp domain; PDB: 3VMM_A 3LN6_A 3LN7_B 2PN1_A 4DIM_A.
Probab=53.11 E-value=33 Score=21.02 Aligned_cols=26 Identities=23% Similarity=0.333 Sum_probs=21.5
Q ss_pred ccceeEEEECCCCcEEEEEEcCCCCC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYPASTG 71 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~~~~G 71 (75)
...+.=|++|++|.+..+.+||...|
T Consensus 156 G~~~id~~~~~~g~~~~iEiN~R~~G 181 (184)
T PF13535_consen 156 GFFHIDFIVDPDGELYFIEINPRFGG 181 (184)
T ss_dssp EEEEEEEEEETCCEEEEEEEESS--S
T ss_pred EEEEEEEEEeCCCCEEEEEECccCCC
Confidence 46788899999999999999998766
No 98
>PRK10606 btuE putative glutathione peroxidase; Provisional
Probab=53.03 E-value=14 Score=24.24 Aligned_cols=16 Identities=13% Similarity=0.378 Sum_probs=13.5
Q ss_pred eEEEECCCCcEEEEEE
Q psy13814 50 AVYIIGPDRKLKLSIV 65 (75)
Q Consensus 50 ~tFiId~dG~I~~~~~ 65 (75)
.-||||++|.+...+.
T Consensus 148 ~KFLv~~~G~vv~r~~ 163 (183)
T PRK10606 148 EKFLVGRDGQVIQRFS 163 (183)
T ss_pred EEEEECCCCcEEEEEC
Confidence 4799999999987764
No 99
>PF11954 DUF3471: Domain of unknown function (DUF3471); InterPro: IPR021860 This entry represents the C-terminal domain of a family of peptidases which belong to MEROPS peptidase family S12, clan SE. The structure of the Pyrococcus abyssi Pab87 peptidase has been determined at 2.2 A resolution []. Pab87 is a self-compartmentalizing proteases that orchestrates protein turnover through an original architecture characterised by a central catalytic chamber.
Probab=52.98 E-value=27 Score=20.01 Aligned_cols=24 Identities=8% Similarity=0.027 Sum_probs=19.7
Q ss_pred cceeEEEECCCCcEEEEEEcCCCC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYPAST 70 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~~~~ 70 (75)
..+.+|..|++|+|..+..+....
T Consensus 65 ~~~i~F~~d~~G~v~~l~l~~~~~ 88 (100)
T PF11954_consen 65 DAQITFERDADGKVTGLTLHQNGM 88 (100)
T ss_pred CCEEEEEECCCCCEEEEEEEeccc
Confidence 456999999999999888877644
No 100
>KOG1651|consensus
Probab=52.51 E-value=14 Score=24.61 Aligned_cols=17 Identities=6% Similarity=0.165 Sum_probs=13.9
Q ss_pred eeEEEECCCCcEEEEEE
Q psy13814 49 RAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 49 R~tFiId~dG~I~~~~~ 65 (75)
=.=|+||++|.+...+.
T Consensus 137 F~KFLVd~~G~vv~Ry~ 153 (171)
T KOG1651|consen 137 FTKFLVDKDGHVVKRFS 153 (171)
T ss_pred eEEEeECCCCcEEEeeC
Confidence 35699999999987764
No 101
>cd07252 BphC1-RGP6_N_like N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins. This subfamily contains the N-terminal, non-catalytic, domain of BphC1-RGP6 and similar proteins. BphC catalyzes the extradiol ring cleavage reaction of 2,3-dihydroxybiphenyl, the third step in the polychlorinated biphenyls (PCBs) degradation pathway (bph pathway). This subfamily of BphCs belongs to the type I extradiol dioxygenase family, which require a metal in the active site in its catalytic mechanism. Polychlorinated biphenyl degrading bacteria demonstrate a multiplicity of 2,3-dihydroxybiphenyl 1,2-dioxygenases. For example, three types of BphC enzymes have been found in Rhodococcus globerulus (BphC1-RGP6 - BphC3-RGP6), all three enzymes are type I extradiol dioxygenases. BphC1-RGP6 has an internal duplication, it is a two-domain dioxygenase which forms octamers, and has Fe(II) at the catalytic site. Its N-
Probab=51.86 E-value=28 Score=20.18 Aligned_cols=20 Identities=15% Similarity=0.087 Sum_probs=16.1
Q ss_pred ceeEEEECCCCcEEEEEEcC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~ 67 (75)
.|..++.||||........+
T Consensus 99 ~~~~~~~DPdG~~iE~~~~~ 118 (120)
T cd07252 99 EGLIRFADPDGNRHELFWGP 118 (120)
T ss_pred cEEEEEECCCCCEEEEEecc
Confidence 37889999999988776654
No 102
>cd08342 HPPD_N_like N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS). HppD and HmaS are non-heme iron-dependent dioxygenases, which modify a common substrate, 4-hydroxyphenylpyruvate (HPP), but yield different products. HPPD catalyzes the second reaction in tyrosine catabolism, the conversion of HPP to homogentisate (2,5-dihydroxyphenylacetic acid, HG). HmaS converts HPP to 4-hydroxymandelate, a committed step in the formation of hydroxyphenylglycerine, a structural component of nonproteinogenic macrocyclic peptide antibiotics, such as vancomycin. If the emphasis is on catalytic chemistry, HPPD and HmaS are classified as members of a large family of alpha-keto acid dependent mononuclear non-heme iron oxygenases most of which require Fe(II), molecular oxygen, and an alpha-keto acid (typically alpha-ketoglutarate) to either oxygenate or oxidize a third substrate. Both enzymes are exceptions in that they require two, instead of three, su
Probab=51.17 E-value=31 Score=20.61 Aligned_cols=26 Identities=15% Similarity=0.087 Sum_probs=20.5
Q ss_pred ccceeEEEECCCCcEEEEEEcCCCCC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYPASTG 71 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~~~~G 71 (75)
...|..||-||+|.+......+.+.|
T Consensus 103 ~~~~~~~i~dp~G~~ie~~~~~~~~~ 128 (136)
T cd08342 103 GELKIAAIKGYGDSLHTLVDRKGYKG 128 (136)
T ss_pred CeEEEEEEeccCCcEEEEEecCCCCC
Confidence 35699999999999988777666544
No 103
>PF09048 Cro: Cro; InterPro: IPR000655 Bacteriophage lambda encodes two repressors: the Cro repressor that acts to turn off early gene transcription during the lytic cycle, and the lambda or cI repressor that is required to maintain lysogenic growth. Together the Cro and cI repressors form a helix-turn-helix (HTH) superfamily. The lambda Cro repressor binds to DNA as a highly flexible dimer. The crystal structure of the lambda Cro repressor [] reveals a HTH DNA-binding protein with an alpha/beta fold that differs from other Cro family members, possibly by an evolutionary fold change []. Most Cro proteins, such as Enterobacteria phage P22 Cro and Bacteriophage 434 Cro, have an all-alpha structure that is thought to be ancestral to lambda Cro, where the fourth and fifth helices are replaced by a beta-sheet, possibly as a result of secondary structure switching rather than by nonhomologous replacement []. This entry represents the lambda-type Cro repressor with an alpha/beta topology.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 5CRO_A 2ECS_A 2OVG_A 6CRO_A 1D1L_A 2ORC_A 1D1M_B 3ORC_A 1ORC_A 2A63_A ....
Probab=51.14 E-value=18 Score=20.04 Aligned_cols=41 Identities=15% Similarity=0.238 Sum_probs=26.6
Q ss_pred chHHHHHcCCccccccCCcccCccceeEEEE-CCCCcEEEEEEcC
Q psy13814 24 NRDLAVKLDLLDEENKNNLETAITVRAVYII-GPDRKLKLSIVYP 67 (75)
Q Consensus 24 ~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiI-d~dG~I~~~~~~~ 67 (75)
..+.|+.+||....-. ....+.|..||. .+||.+.....-|
T Consensus 15 Q~kaA~~lGV~Q~AIs---KAlr~gR~I~v~~~~dGs~~A~Eirp 56 (59)
T PF09048_consen 15 QAKAARALGVTQSAIS---KALRAGRNIFVTIMPDGSVEAEEIRP 56 (59)
T ss_dssp HHHHHHHHTS-HHHHH---HHHHCT-EEEEEEETTSEEEEEEEEE
T ss_pred hHHHHHHcCCcHHHHH---HHHHcCCcEEEEEcCCCeEEEEEecC
Confidence 4578999999754211 011467888887 8999998877654
No 104
>TIGR01126 pdi_dom protein disulfide-isomerase domain. This model describes a domain of eukaryotic protein disulfide isomerases, generally found in two copies. The high cutoff for total score reflects the expectation of finding both copies. The domain is similar to thioredoxin but the redox-active disulfide region motif is APWCGHCK.
Probab=51.05 E-value=35 Score=18.74 Aligned_cols=28 Identities=14% Similarity=0.245 Sum_probs=21.9
Q ss_pred EecCchHHHHHcCCccccccCCcccCccceeEEEECCCCc
Q psy13814 20 IGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRK 59 (75)
Q Consensus 20 lsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~ 59 (75)
=+|.+..+++.||+. ..+++|++++++.
T Consensus 54 d~~~~~~~~~~~~i~------------~~P~~~~~~~~~~ 81 (102)
T TIGR01126 54 DATAEKDLASRFGVS------------GFPTIKFFPKGKK 81 (102)
T ss_pred EccchHHHHHhCCCC------------cCCEEEEecCCCc
Confidence 366788999999984 3467999998875
No 105
>cd08350 BLMT_like BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins. BLMT is a bleomycin (Bm) resistance protein, encoded by the ble gene on the transposon Tn5. This protein confers a survival advantage to Escherichia coli host cells. Bm is a glycopeptide antibiotic produced naturally by actinomycetes. It is a potent anti-cancer drug, which acts as a strong DNA-cutting agent, thereby causing cell death. BLMT has strong binding affinity to Bm and it protects against this lethal compound through drug sequestering. BLMT has two identically-folded subdomains, with the same alpha/beta fold; these two halves have no sequence similarity. BLMT is a dimer with two Bm-binding pockets formed at the dimer interface.
Probab=50.56 E-value=23 Score=20.45 Aligned_cols=18 Identities=22% Similarity=0.254 Sum_probs=14.5
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..|..|+.||||......
T Consensus 100 g~~~~~~~DPdG~~ie~~ 117 (120)
T cd08350 100 GMREFALVDPDGNLLRFG 117 (120)
T ss_pred ceeEEEEECCCCCEEEee
Confidence 468999999999876553
No 106
>cd07255 Glo_EDI_BRP_like_12 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=48.84 E-value=37 Score=19.38 Aligned_cols=19 Identities=16% Similarity=0.144 Sum_probs=14.9
Q ss_pred ceeEEEECCCCcEEEEEEc
Q psy13814 48 VRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~ 66 (75)
.++.|+.||+|....++..
T Consensus 101 ~~~~~~~DPdG~~iEi~~~ 119 (125)
T cd07255 101 SEALYLSDPEGNGIEIYAD 119 (125)
T ss_pred eeEEEEECCCCCEEEEEEe
Confidence 4788999999998766543
No 107
>cd02949 TRX_NTR TRX domain, novel NADPH thioredoxin reductase (NTR) family; composed of fusion proteins found only in oxygenic photosynthetic organisms containing both TRX and NTR domains. The TRX domain functions as a protein disulfide reductase via the reversible oxidation of an active center dithiol present in a CXXC motif, while the NTR domain functions as a reductant to oxidized TRX. The fusion protein is bifunctional, showing both TRX and NTR activities, but it is not an independent NTR/TRX system. In plants, the protein is found exclusively in shoots and mature leaves and is localized in the chloroplast. It is involved in plant protection against oxidative stress.
Probab=48.64 E-value=48 Score=18.61 Aligned_cols=33 Identities=21% Similarity=0.272 Sum_probs=23.0
Q ss_pred ecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 21 GDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 21 sD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
.|.+.+++.+||+. ..++.++++ +|++......
T Consensus 53 ~d~~~~l~~~~~v~------------~vPt~~i~~-~g~~v~~~~g 85 (97)
T cd02949 53 IDEDQEIAEAAGIM------------GTPTVQFFK-DKELVKEISG 85 (97)
T ss_pred CCCCHHHHHHCCCe------------eccEEEEEE-CCeEEEEEeC
Confidence 34577899999873 456788885 7887665543
No 108
>cd09012 Glo_EDI_BRP_like_24 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=48.57 E-value=30 Score=20.00 Aligned_cols=17 Identities=12% Similarity=-0.033 Sum_probs=13.5
Q ss_pred ceeEEEECCCCcEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~ 64 (75)
.++.|+.||||.+..+.
T Consensus 106 ~~~~~~~DPdG~~ie~~ 122 (124)
T cd09012 106 MYGRSFADLDGHLWEVL 122 (124)
T ss_pred eEEEEEECCCCCEEEEE
Confidence 46789999999877654
No 109
>cd02985 TRX_CDSP32 TRX family, chloroplastic drought-induced stress protein of 32 kD (CDSP32); CDSP32 is composed of two TRX domains, a C-terminal TRX domain which contains a redox active CXXC motif and an N-terminal TRX-like domain which contains an SXXS sequence instead of the redox active motif. CDSP32 is a stress-inducible TRX, i.e., it acts as a TRX by reducing protein disulfides and is induced by environmental and oxidative stress conditions. It plays a critical role in plastid defense against oxidative damage, a role related to its function as a physiological electron donor to BAS1, a plastidic 2-cys peroxiredoxin. Plants lacking CDSP32 exhibit decreased photosystem II photochemical efficiencies and chlorophyll retention compared to WT controls, as well as an increased proportion of BAS1 in its overoxidized monomeric form.
Probab=47.94 E-value=44 Score=19.17 Aligned_cols=28 Identities=7% Similarity=0.134 Sum_probs=19.4
Q ss_pred hHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEE
Q psy13814 25 RDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 25 ~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
..++++|++.. + + ||++-++|++...+.
T Consensus 61 ~~l~~~~~V~~----------~--P-t~~~~~~G~~v~~~~ 88 (103)
T cd02985 61 MELCRREKIIE----------V--P-HFLFYKDGEKIHEEE 88 (103)
T ss_pred HHHHHHcCCCc----------C--C-EEEEEeCCeEEEEEe
Confidence 37899998741 2 3 466668999876654
No 110
>PRK06724 hypothetical protein; Provisional
Probab=46.44 E-value=38 Score=20.46 Aligned_cols=21 Identities=10% Similarity=0.070 Sum_probs=16.7
Q ss_pred ceeEEEECCCCcEEEEEEcCC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~~ 68 (75)
.++.++-||||.......+|.
T Consensus 105 ~~~~~f~DPdG~~iEl~~~~~ 125 (128)
T PRK06724 105 YYTIDFYDPNGFIIEVAYTPN 125 (128)
T ss_pred EEEEEEECCCCCEEEEEeCCC
Confidence 588999999999887766643
No 111
>cd02646 R3H_G-patch R3H domain of a group of fungal and plant proteins with unknown function, who also contain a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the R3H domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=45.81 E-value=29 Score=18.46 Aligned_cols=37 Identities=16% Similarity=0.215 Sum_probs=22.9
Q ss_pred CCCCceeEEecCc----hHHHHHcCCccccccCCcccCccceeEEE
Q psy13814 12 KGDFPFAIIGDEN----RDLAVKLDLLDEENKNNLETAITVRAVYI 53 (75)
Q Consensus 12 k~~l~fpLlsD~~----~~i~~~yGv~~~~~~~~~~~~~~~R~tFi 53 (75)
...+.||=++-.+ +++|+.||+.....+. .+.|-++|
T Consensus 16 ~~~~~fppm~~~~R~~vH~lA~~~~L~S~S~G~-----g~~R~v~v 56 (58)
T cd02646 16 RDSLSFPPMDKHGRKTIHKLANCYNLKSKSRGK-----GKKRFVTV 56 (58)
T ss_pred CceEecCCCCHHHHHHHHHHHHHcCCccccccc-----CCceEEEE
Confidence 4556776654443 3789999997664432 25666655
No 112
>TIGR00068 glyox_I lactoylglutathione lyase. Glyoxylase I is a homodimer in many species. In some eukaryotes, including yeasts and plants, the orthologous protein carries a tandem duplication, is twice as long, and hits this model twice.
Probab=45.73 E-value=38 Score=20.55 Aligned_cols=20 Identities=15% Similarity=0.054 Sum_probs=16.1
Q ss_pred ceeEEEECCCCcEEEEEEcC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~ 67 (75)
.|..|+.||+|.+..++...
T Consensus 123 ~~~~~~~DPdG~~iel~~~~ 142 (150)
T TIGR00068 123 TVIAFVEDPDGYKIELIQRK 142 (150)
T ss_pred eEEEEEECCCCCEEEEEECC
Confidence 46789999999988776654
No 113
>cd07267 THT_Oxygenase_N N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase. This subfamily contains the N-terminal, non-catalytic, domain of THT oxygenase. THT oxygenase is an extradiol dioxygenase in the 2,4-dinitrotoluene (DNT) degradation pathway. It catalyzes the conversion of 2,4,5-trihydroxytoluene to an unstable ring fission product, 2,4-dihydroxy-5-methyl-6-oxo-2,4-hexadienoic acid. The native protein was determined to be a dimer by gel filtration. The enzyme belongs to the type I family of extradiol dioxygenases which contains two structurally homologous barrel-shaped domains at the N- and C-terminus of each monomer. The active-site metal is located in the C-terminal barrel. Fe(II) is required for its catalytic activity.
Probab=45.51 E-value=44 Score=19.08 Aligned_cols=20 Identities=15% Similarity=-0.021 Sum_probs=15.6
Q ss_pred cceeEEEECCCCcEEEEEEc
Q psy13814 47 TVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~ 66 (75)
..++.|+-||+|........
T Consensus 91 ~~~~~~~~DPdG~~iEl~~~ 110 (113)
T cd07267 91 GGKRVTLTDPDGFPVELVYG 110 (113)
T ss_pred CceEEEEECCCCCEEEEEec
Confidence 35789999999998766554
No 114
>cd08348 BphC2-C3-RGP6_C_like The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins. This subfamily contains Rhodococcus globerulus P6 BphC2-RGP6 and BphC3-RGP6, and similar proteins. BphC catalyzes the extradiol ring cleavage reaction of 2,3-dihydroxybiphenyl, yielding 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoic acid. This is the third step in the polychlorinated biphenyls (PCBs) degradation pathway (bph pathway). This subfamily of BphCs belongs to the type I extradiol dioxygenase family, which require a metal in the active site in its catalytic mechanism. Most type I extradiol dioxygenases are activated by Fe(II). Polychlorinated biphenyl degrading bacteria demonstrate a multiplicity of BphCs. For example, three types of BphC enzymes have been found in Rhodococcus globerulus (BphC1-RGP6 - BphC3-RGP6), all three enzymes are type I extradiol dioxygenases. BphC2-RGP6 and BphC3-RGP6 are
Probab=45.04 E-value=48 Score=19.28 Aligned_cols=22 Identities=18% Similarity=0.166 Sum_probs=17.4
Q ss_pred ceeEEEECCCCcEEEEEEcCCC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~~~ 69 (75)
.+..++.||+|.....+.....
T Consensus 102 ~~~~~~~DP~G~~ie~~~~~~~ 123 (134)
T cd08348 102 AWSIYFRDPDGNRLELFVDTPW 123 (134)
T ss_pred eeEEEEECCCCCEEEEEEcCCC
Confidence 5889999999998877765543
No 115
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=44.43 E-value=49 Score=20.85 Aligned_cols=38 Identities=5% Similarity=0.131 Sum_probs=25.2
Q ss_pred Ccee-EEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEE
Q psy13814 15 FPFA-IIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 15 l~fp-LlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
+.|- +=.|.+..++.+||+. ..++..++ ++|+......
T Consensus 70 v~~akVDiD~~~~LA~~fgV~------------siPTLl~F-kdGk~v~~i~ 108 (132)
T PRK11509 70 WQVAIADLEQSEAIGDRFGVF------------RFPATLVF-TGGNYRGVLN 108 (132)
T ss_pred eEEEEEECCCCHHHHHHcCCc------------cCCEEEEE-ECCEEEEEEe
Confidence 5443 3356889999999985 34555555 6788776654
No 116
>TIGR03645 glyox_marine lactoylglutathione lyase family protein. Members of this protein family share homology with lactoylglutathione lyase (glyoxalase I) and are found mainly in marine members of the gammaproteobacteria, including CPS_0532 from Colwellia psychrerythraea 34H. This family excludes a well-separated, more narrowly distributed paralogous family, exemplified by CPS_3492 from C. psychrerythraea. The function is of this protein family is unknown.
Probab=44.34 E-value=36 Score=21.25 Aligned_cols=22 Identities=14% Similarity=0.111 Sum_probs=18.3
Q ss_pred ceeEEEECCCCcEEEEEEcCCC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~~~ 69 (75)
.|..|+-||||.+...+.++..
T Consensus 133 ~~~~~~~DPdG~~iEl~~~~~~ 154 (162)
T TIGR03645 133 YRMIYMEDPFGNILEIYSHSYE 154 (162)
T ss_pred eEEEEEECCCCCEEEEEEcChh
Confidence 4899999999999888776653
No 117
>cd02963 TRX_DnaJ TRX domain, DnaJ domain containing protein family; composed of uncharacterized proteins of about 500-800 amino acids, containing an N-terminal DnaJ domain followed by one redox active TRX domain. DnaJ is a member of the 40 kDa heat-shock protein (Hsp40) family of molecular chaperones, which regulate the activity of Hsp70s. TRX is involved in the redox regulation of many protein substrates through the reduction of disulfide bonds. TRX has been implicated to catalyse the reduction of Hsp33, a chaperone holdase that binds to unfolded protein intermediates. The presence of DnaJ and TRX domains in members of this family suggests that they could be involved in a redox-regulated chaperone network.
Probab=44.20 E-value=56 Score=19.04 Aligned_cols=38 Identities=24% Similarity=0.221 Sum_probs=25.0
Q ss_pred CCcee-EEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEE
Q psy13814 14 DFPFA-IIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 14 ~l~fp-LlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~ 64 (75)
++.|- +=+|.+..++++||+. ..++++++ ++|++....
T Consensus 57 ~v~~~~vd~d~~~~l~~~~~V~------------~~Pt~~i~-~~g~~~~~~ 95 (111)
T cd02963 57 GVGIATVNAGHERRLARKLGAH------------SVPAIVGI-INGQVTFYH 95 (111)
T ss_pred CceEEEEeccccHHHHHHcCCc------------cCCEEEEE-ECCEEEEEe
Confidence 45543 3346778999999984 34667777 488765543
No 118
>PF13186 SPASM: Iron-sulfur cluster-binding domain
Probab=44.06 E-value=17 Score=18.59 Aligned_cols=16 Identities=19% Similarity=0.148 Sum_probs=12.2
Q ss_pred cceeEEEECCCCcEEE
Q psy13814 47 TVRAVYIIGPDRKLKL 62 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~ 62 (75)
+.+..+.|++||.|.-
T Consensus 3 ~~~~~~~I~~dG~v~p 18 (64)
T PF13186_consen 3 AGWNSLYIDPDGDVYP 18 (64)
T ss_pred CcCeEEEEeeCccEEe
Confidence 3467888999998753
No 119
>cd02955 SSP411 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein, called SSP411, is specifically expressed in the testis in an age-dependent manner. The SSP411 mRNA is increased during spermiogenesis and is localized in round and elongated spermatids, suggesting a function in fertility regulation.
Probab=43.60 E-value=34 Score=21.03 Aligned_cols=21 Identities=19% Similarity=0.053 Sum_probs=17.6
Q ss_pred cceeEEEECCCCcEEEEEEcC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~ 67 (75)
..+++.++||+|++.+...+-
T Consensus 80 G~Pt~vfl~~~G~~~~~~~~~ 100 (124)
T cd02955 80 GWPLNVFLTPDLKPFFGGTYF 100 (124)
T ss_pred CCCEEEEECCCCCEEeeeeec
Confidence 468999999999999887654
No 120
>cd02994 PDI_a_TMX PDIa family, TMX subfamily; composed of proteins similar to the TRX-related human transmembrane protein, TMX. TMX is a type I integral membrane protein; the N-terminal redox active TRX domain is present in the endoplasmic reticulum (ER) lumen while the C-terminus is oriented towards the cytoplasm. It is expressed in many cell types and its active site motif (CPAC) is unique. In vitro, TMX reduces interchain disulfides of insulin and renatures inactive RNase containing incorrect disulfide bonds. The C. elegans homolog, DPY-11, is expressed only in the hypodermis and resides in the cytoplasm. It is required for body and sensory organ morphogeneis. Another uncharacterized TRX-related transmembrane protein, human TMX4, is included in the alignment. The active site sequence of TMX4 is CPSC.
Probab=43.54 E-value=59 Score=18.15 Aligned_cols=27 Identities=11% Similarity=0.180 Sum_probs=19.1
Q ss_pred ecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcE
Q psy13814 21 GDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKL 60 (75)
Q Consensus 21 sD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I 60 (75)
+|.+..++++|++. ..++++++ ++|++
T Consensus 57 ~~~~~~~~~~~~i~------------~~Pt~~~~-~~g~~ 83 (101)
T cd02994 57 VTQEPGLSGRFFVT------------ALPTIYHA-KDGVF 83 (101)
T ss_pred ccCCHhHHHHcCCc------------ccCEEEEe-CCCCE
Confidence 56778899999873 34555655 78985
No 121
>cd07240 ED_TypeI_classII_N N-terminal domain of type I, class II extradiol dioxygenases; non-catalytic domain. This family contains the N-terminal, non-catalytic, domain of type I, class II extradiol dioxygenases. Dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. Two major groups of dioxygenases have been identified according to the cleavage site; extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon, whereas intradiol enzymes cleave the aromatic ring between two hydroxyl groups. Extradiol dioxygenases are classified into type I and type II enzymes. Type I extradiol dioxygenases include class I and class II enzymes. These two classes of enzymes show sequence similarity; the two-domain class II enzymes evolved from a class I enzyme through gene duplication. The extradiol dioxygenases represented in this fa
Probab=42.34 E-value=50 Score=18.46 Aligned_cols=20 Identities=25% Similarity=0.197 Sum_probs=15.9
Q ss_pred cceeEEEECCCCcEEEEEEc
Q psy13814 47 TVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~ 66 (75)
..+..++.||+|.+..++..
T Consensus 95 ~~~~~~~~DP~G~~ie~~~~ 114 (117)
T cd07240 95 VGRGLRFQDPDGHLLELFVE 114 (117)
T ss_pred CceEEEEECCCCCEEEEEEc
Confidence 34889999999998777644
No 122
>cd07251 Glo_EDI_BRP_like_10 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=42.14 E-value=43 Score=18.79 Aligned_cols=18 Identities=22% Similarity=0.124 Sum_probs=14.6
Q ss_pred ceeEEEECCCCcEEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~ 65 (75)
.+..++.||+|.+..+..
T Consensus 103 ~~~~~~~DP~Gn~iei~~ 120 (121)
T cd07251 103 GYSGYFADPDGHLWEVAH 120 (121)
T ss_pred ceEEEEECCCCCEEEEee
Confidence 688999999998776543
No 123
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=41.86 E-value=32 Score=19.04 Aligned_cols=20 Identities=30% Similarity=0.217 Sum_probs=16.4
Q ss_pred eeEEecCc-hHHHHHcCCccc
Q psy13814 17 FAIIGDEN-RDLAVKLDLLDE 36 (75)
Q Consensus 17 fpLlsD~~-~~i~~~yGv~~~ 36 (75)
+-++.||+ .+||+..|+..+
T Consensus 33 ~viI~dPe~S~IAk~l~i~~p 53 (61)
T PRK08351 33 LVIIIDVENSRIAKKLGAKVP 53 (61)
T ss_pred EEEEeCCcHhHHHHHhCCCCC
Confidence 88899986 789999998543
No 124
>PF05228 CHASE4: CHASE4 domain; InterPro: IPR007892 CHASE4 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in prokaryotes. Specifically, CHASE4 domains are found in histidine kinases in archaea and in predicted diguanylate cyclases/phosphodiesterases in bacteria. Environmental factors that are recognised by CHASE4 domains are not known at this time [].
Probab=41.53 E-value=34 Score=20.86 Aligned_cols=19 Identities=21% Similarity=0.482 Sum_probs=15.1
Q ss_pred cceeEEEECCCCcEEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~ 65 (75)
-.=.+|++|++|++.+...
T Consensus 49 ~~d~~~~~d~~g~~~~~~~ 67 (161)
T PF05228_consen 49 GLDLIFILDPDGRVLYSSS 67 (161)
T ss_pred CccEEEEEcCCCCEEEEec
Confidence 4567899999999998443
No 125
>cd08353 Glo_EDI_BRP_like_7 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The structures of this family demonstrate domain swapping, which is shared by glyoxalase I and antibiotic resistance proteins.
Probab=41.06 E-value=44 Score=19.71 Aligned_cols=18 Identities=33% Similarity=0.432 Sum_probs=14.5
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..|..|+-||+|.+....
T Consensus 122 ~~r~~~~~DPdG~~iEl~ 139 (142)
T cd08353 122 SYRLCYIRGPEGILIELA 139 (142)
T ss_pred CeEEEEEECCCCCEEEee
Confidence 578999999999976543
No 126
>PF02526 GBP_repeat: Glycophorin-binding protein; InterPro: IPR003681 The glycophorin-binding protein contains a tandem repeat. The repeated sequence determines the binding domain for an erythrocyte receptor binding protein of Plasmodium falciparum, the malarial parasite []. Erythrocyte invasion by the malarial merozoite is a receptor-mediated process, an obligatory step in the development of the parasite. The P. falciparum protein binds to the erythrocyte receptor glycophorin.
Probab=40.81 E-value=15 Score=18.20 Aligned_cols=13 Identities=8% Similarity=0.105 Sum_probs=11.5
Q ss_pred ecCchHHHHHcCC
Q psy13814 21 GDENRDLAVKLDL 33 (75)
Q Consensus 21 sD~~~~i~~~yGv 33 (75)
+||.++|.++|-.
T Consensus 3 adpegqimk~yaa 15 (38)
T PF02526_consen 3 ADPEGQIMKAYAA 15 (38)
T ss_pred CCchhHHHHHHhc
Confidence 6999999999975
No 127
>PF04205 FMN_bind: FMN-binding domain; InterPro: IPR007329 This conserved region includes the FMN-binding site of the NqrC protein [] as well as the NosR and NirI regulatory proteins.; GO: 0010181 FMN binding, 0016020 membrane; PDB: 3LWX_A 2KZX_A 3DCZ_A 3O6U_D.
Probab=40.60 E-value=34 Score=18.78 Aligned_cols=22 Identities=14% Similarity=0.089 Sum_probs=17.5
Q ss_pred ccceeEEEECCCCcEEEEEEcC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~ 67 (75)
.+...++-||++|+|..+....
T Consensus 4 g~i~v~v~i~~dg~I~~v~~~~ 25 (81)
T PF04205_consen 4 GPITVTVTIDKDGKITDVKILE 25 (81)
T ss_dssp EEEEEEEEEETTTEEEEEEEEE
T ss_pred ceEEEEEEEeCCCEEEEEEEee
Confidence 4667788889999999887654
No 128
>cd08363 FosB FosB, a fosfomycin resistance protein, catalyzes the Mg(II) dependent addition of L-cysteine to the epoxide ring of fosfomycin. This subfamily family contains FosB, a fosfomycin resistant protein. Fosfomycin inhibits the enzyme UDP-Nacetylglucosamine-3-enolpyruvyltransferase (MurA), which catalyzes the first committed step in bacterial cell wall biosynthesis. FosB catalyzes the Mg(II) dependent addition of L-cysteine to the epoxide ring of fosfomycin, (1R,2S)-epoxypropylphosphonic acid, rendering it inactive. FosB is evolutionarily related to glyoxalase I and type I extradiol dioxygenases
Probab=40.30 E-value=28 Score=20.72 Aligned_cols=21 Identities=14% Similarity=0.177 Sum_probs=16.6
Q ss_pred cceeEEEECCCCcEEEEEEcC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~ 67 (75)
..|+.|+.||+|....+....
T Consensus 96 ~~~~~~f~DPdG~~iEl~~~~ 116 (131)
T cd08363 96 DRKSIYFTDPDGHKLEVHTGT 116 (131)
T ss_pred cceEEEEECCCCCEEEEecCc
Confidence 458999999999987776543
No 129
>KOG4614|consensus
Probab=40.08 E-value=25 Score=24.91 Aligned_cols=18 Identities=11% Similarity=0.161 Sum_probs=14.7
Q ss_pred ceeEEEECCCCcEEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~ 65 (75)
.--+|+||..|+|||.-.
T Consensus 248 ~GyV~L~D~s~kIRW~g~ 265 (287)
T KOG4614|consen 248 TGYVLLLDKSGKIRWQGF 265 (287)
T ss_pred eEEEEEEccCceEEEeec
Confidence 346899999999999753
No 130
>PF11009 DUF2847: Protein of unknown function (DUF2847); InterPro: IPR022551 Members of this protein family, including YtxJ from Bacillus subtilis, occur in species that encode proteins for synthesizing bacillithiol. The protein is described as thioredoxin-like, while another bacillithiol-associated protein, YpdA (TIGR04018 from TIGRFAMS), is described as thioredoxin reductase-like. ; PDB: 3IV4_A.
Probab=39.75 E-value=34 Score=20.81 Aligned_cols=30 Identities=17% Similarity=0.209 Sum_probs=19.4
Q ss_pred chHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEE
Q psy13814 24 NRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 24 ~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
...||..|||..+ .+..+||. +|++.|--.
T Consensus 66 Sn~IAe~~~V~He-----------SPQ~ili~-~g~~v~~aS 95 (105)
T PF11009_consen 66 SNAIAEDFGVKHE-----------SPQVILIK-NGKVVWHAS 95 (105)
T ss_dssp HHHHHHHHT---------------SSEEEEEE-TTEEEEEEE
T ss_pred HHHHHHHhCCCcC-----------CCcEEEEE-CCEEEEECc
Confidence 5689999999764 47788885 677766543
No 131
>cd02641 R3H_Smubp-2_like R3H domain of Smubp-2_like proteins. Smubp-2_like proteins also contain a helicase_like and an AN1-like Zinc finger domain and have been shown to bind single-stranded DNA. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.
Probab=39.63 E-value=40 Score=18.21 Aligned_cols=36 Identities=19% Similarity=0.341 Sum_probs=23.7
Q ss_pred CCCceeE-EecCc----hHHHHHcCCccccccCCcccCccceeEEE
Q psy13814 13 GDFPFAI-IGDEN----RDLAVKLDLLDEENKNNLETAITVRAVYI 53 (75)
Q Consensus 13 ~~l~fpL-lsD~~----~~i~~~yGv~~~~~~~~~~~~~~~R~tFi 53 (75)
..+.||= ++-.+ +++|+.||+..+..+. .+.|.++|
T Consensus 18 ~~l~F~p~ls~~eR~~vH~lA~~~gL~s~S~G~-----g~~R~v~v 58 (60)
T cd02641 18 TELEFPPTLSSHDRLLVHELAEELGLRHESTGE-----GSDRVITV 58 (60)
T ss_pred CcEECCCCCCHHHHHHHHHHHHHcCCceEeeCC-----CCceEEEe
Confidence 5577876 66654 4789999997664432 25676665
No 132
>PHA02762 hypothetical protein; Provisional
Probab=39.11 E-value=62 Score=17.71 Aligned_cols=21 Identities=14% Similarity=0.107 Sum_probs=17.4
Q ss_pred ceeEEEECCCCcEEEEEEcCC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYPA 68 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~~ 68 (75)
.=.|.=||.+|+|.++..-|.
T Consensus 28 afvtigide~g~iayisiep~ 48 (62)
T PHA02762 28 AFVTIGIDENDKISYISIEPL 48 (62)
T ss_pred EEEEEeECCCCcEEEEEeccc
Confidence 345777999999999998875
No 133
>cd08356 Glo_EDI_BRP_like_17 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=39.08 E-value=39 Score=19.49 Aligned_cols=17 Identities=18% Similarity=0.120 Sum_probs=13.7
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
-.|..++.||||.....
T Consensus 95 g~r~f~~~DPdGn~~~~ 111 (113)
T cd08356 95 WGREFFLHDPSGVLWHI 111 (113)
T ss_pred CcEEEEEECCCccEEEe
Confidence 35999999999987654
No 134
>cd08344 MhqB_like_N N-terminal domain of MhqB, a type I extradiol dioxygenase, and similar proteins. This subfamily contains the N-terminal, non-catalytic, domain of Burkholderia sp. NF100 MhqB and similar proteins. MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion. The purified enzyme has shown extradiol ring cleavage activity toward 3-methylcatechol. Fe2+ was suggested as a cofactor, the same as most other enzymes in the family. Burkholderia sp. NF100 MhqB is encoded on the plasmid pNF1. The type I family of extradiol dioxygenases contains two structurally homologous barrel-shaped domains at the N- and C-terminal. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism.
Probab=39.06 E-value=56 Score=18.55 Aligned_cols=18 Identities=22% Similarity=0.259 Sum_probs=14.7
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..|+.++.||+|......
T Consensus 90 ~~~~~~~~DP~Gn~iel~ 107 (112)
T cd08344 90 DPDGVWFRDPDGNLLQVK 107 (112)
T ss_pred CCCEEEEECCCCCEEEEe
Confidence 457899999999987665
No 135
>cd07241 Glo_EDI_BRP_like_3 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=38.94 E-value=41 Score=18.97 Aligned_cols=15 Identities=13% Similarity=0.111 Sum_probs=11.6
Q ss_pred ceeEEEECCCCcEEE
Q psy13814 48 VRAVYIIGPDRKLKL 62 (75)
Q Consensus 48 ~R~tFiId~dG~I~~ 62 (75)
.+..|+.||||....
T Consensus 109 ~~~~~~~DPdG~~iE 123 (125)
T cd07241 109 YYESVILDPEGNRIE 123 (125)
T ss_pred eEEEEEECCCCCEEE
Confidence 456789999998654
No 136
>cd08345 Fosfomycin_RP Fosfomycin resistant protein; inhibits the biological function of fosfomycin. This family contains three types of fosfomycin resistant protein. Fosfomycin inhibits the enzyme UDP-N-acetylglucosamine-3-enolpyruvyltransferase (MurA), which catalyzes the first committed step in bacterial cell wall biosynthesis. The three types of fosfomycin resistance proteins, employ different mechanisms to render fosfomycin [(1R,2S)-epoxypropylphosphonic acid] inactive. FosB catalyzes the addition of L-cysteine to the epoxide ring of fosfomycin. FosX catalyzes the addition of a water molecule to the C1 position of the antibiotic with inversion of configuration at C1. FosA catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive. Catalytic activities of both FosX and FosA are Mn(II)-dependent, but FosB is activated by Mg(II). Fosfomycin resistant proteins are evolutionarily related to glyoxalase I and type I extradiol dioxygenases.
Probab=38.93 E-value=59 Score=18.12 Aligned_cols=20 Identities=25% Similarity=0.277 Sum_probs=15.9
Q ss_pred cceeEEEECCCCcEEEEEEc
Q psy13814 47 TVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~ 66 (75)
..|..++-||+|....++..
T Consensus 92 ~~~~~~~~DPdG~~iEi~~~ 111 (113)
T cd08345 92 EGRSIYFYDPDGHLLELHAG 111 (113)
T ss_pred CceEEEEECCCCCEEEEEeC
Confidence 35889999999998877643
No 137
>cd07235 MRD Mitomycin C resistance protein (MRD). Mitomycin C (MC) is a naturally occurring antibiotic, and antitumor agent used in the treatment of cancer. Its antitumor activity is exerted primarily through monofunctional and bifunctional alkylation of DNA. MRD binds to MC and functions as a component of the MC exporting system. MC is bound to MRD by a stacking interaction between a His and a Trp. MRD adopts a structural fold similar to bleomycin resistance protein, glyoxalase I, and extradiol dioxygenases; and it has binding sites at an identical location to binding sites in these evolutionarily related enzymes.
Probab=38.84 E-value=47 Score=18.93 Aligned_cols=18 Identities=22% Similarity=0.182 Sum_probs=14.1
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..|..++-||+|.+...+
T Consensus 104 g~~~~~~~DPdG~~iel~ 121 (122)
T cd07235 104 GQRYAIVKDPDGNLVDLF 121 (122)
T ss_pred CCEEEEEECCCCCEEEEe
Confidence 348889999999987553
No 138
>cd07265 2_3_CTD_N N-terminal domain of catechol 2,3-dioxygenase. This subfamily contains the N-terminal, non-catalytic, domain of catechol 2,3-dioxygenase. Catechol 2,3-dioxygenase (2,3-CTD, catechol:oxygen 2,3-oxidoreductase) catalyzes an extradiol cleavage of catechol to form 2-hydroxymuconate semialdehyde with the insertion of two atoms of oxygen. The enzyme is a homotetramer and contains catalytically essential Fe(II) . The reaction proceeds by an ordered bi-unit mechanism. First, catechol binds to the enzyme, this is then followed by the binding of dioxygen to form a tertiary complex, and then the aromatic ring is cleaved to produce 2-hydroxymuconate semialdehyde. Catechol 2,3-dioxygenase belongs to the type I extradiol dioxygenase family. The subunit comprises the N- and C-terminal domains of similar structure fold, resulting from an ancient gene duplication. The active site is located in a funnel-shaped space of the C-terminal domain. This subfamily represents the N-terminal do
Probab=38.82 E-value=61 Score=18.53 Aligned_cols=19 Identities=16% Similarity=-0.106 Sum_probs=15.3
Q ss_pred ceeEEEECCCCcEEEEEEc
Q psy13814 48 VRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~ 66 (75)
.++.++-||+|.....+..
T Consensus 101 ~~~~~~~DPdG~~iE~~~~ 119 (122)
T cd07265 101 GRRVRFQLPSGHTMELYAD 119 (122)
T ss_pred ceEEEEECCCCCEEEEEEe
Confidence 4788999999998876654
No 139
>cd03065 PDI_b_Calsequestrin_N PDIb family, Calsequestrin subfamily, N-terminal TRX-fold domain; Calsequestrin is the major calcium storage protein in the sarcoplasmic reticulum (SR) of skeletal and cardiac muscle. It stores calcium ions in sufficient quantities (up to 20 mM) to allow repetitive contractions and is essential to maintain movement, respiration and heart beat. A missense mutation in human cardiac calsequestrin is associated with catecholamine-induced polymorphic ventricular tachycardia (CPVT), a rare disease characterized by seizures or sudden death in response to physiologic or emotional stress. Calsequestrin is a highly acidic protein with up to 50 calcium binding sites formed simply by the clustering of two or more acidic residues. The monomer contains three redox inactive TRX-fold domains. Calsequestrin is condensed as a linear polymer in the SR lumen and is membrane-anchored through binding with intra-membrane proteins triadin, junctin and ryanodine receptor (RyR) Ca2
Probab=38.53 E-value=73 Score=19.45 Aligned_cols=37 Identities=19% Similarity=0.301 Sum_probs=25.4
Q ss_pred CCCce-eEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEE
Q psy13814 13 GDFPF-AIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKL 62 (75)
Q Consensus 13 ~~l~f-pLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~ 62 (75)
.++.| -+=+|.+.++|++||+. ..++.+++ .+|++..
T Consensus 64 ~~v~~~kVD~d~~~~La~~~~I~------------~iPTl~lf-k~G~~v~ 101 (120)
T cd03065 64 KGIGFGLVDSKKDAKVAKKLGLD------------EEDSIYVF-KDDEVIE 101 (120)
T ss_pred CCCEEEEEeCCCCHHHHHHcCCc------------cccEEEEE-ECCEEEE
Confidence 44554 34478899999999984 34566666 5888654
No 140
>PRK10291 glyoxalase I; Provisional
Probab=38.48 E-value=70 Score=18.61 Aligned_cols=20 Identities=15% Similarity=0.032 Sum_probs=15.4
Q ss_pred ceeEEEECCCCcEEEEEEcC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~ 67 (75)
.+..||-||||.........
T Consensus 102 ~~~~~i~DPdG~~iel~~~~ 121 (129)
T PRK10291 102 TVIAFVEDPDGYKIELIEEK 121 (129)
T ss_pred eEEEEEECCCCCEEEEEEcc
Confidence 45678999999987776654
No 141
>KOG2792|consensus
Probab=38.44 E-value=42 Score=23.98 Aligned_cols=37 Identities=14% Similarity=0.297 Sum_probs=20.6
Q ss_pred hHHHHHcCCcccccc-C-CcccCc-cceeEEEECCCCcEE
Q psy13814 25 RDLAVKLDLLDEENK-N-NLETAI-TVRAVYIIGPDRKLK 61 (75)
Q Consensus 25 ~~i~~~yGv~~~~~~-~-~~~~~~-~~R~tFiId~dG~I~ 61 (75)
+++|+.|-|+..... + +..|.+ ..-.-|+|||+|.+.
T Consensus 216 k~vak~yRVYfs~gp~d~~~DYlVDHSi~mYLidPeg~Fv 255 (280)
T KOG2792|consen 216 KQVAKKYRVYFSTGPKDEDQDYLVDHSIFMYLIDPEGEFV 255 (280)
T ss_pred HHHHHHhEEeeccCCCCCCCCeeeeeeEEEEEECCCccee
Confidence 467788887753211 1 122322 233457899999765
No 142
>cd02965 HyaE HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the sole energy source. The E. coli HyaE protein is a chaperone that specifically interacts with the twin-arginine translocation (Tat) signal peptide of the [NiFe] hydrogenase-1 beta subunit precursor. Tat signal peptides target precursor proteins to the Tat protein export system, which facilitates the transport of fully folded proteins across the inner membrane. HyaE may be involved in regulating the traffic of [NiFe] hydrogenase-1 on the Tat transport pathway.
Probab=38.34 E-value=93 Score=18.94 Aligned_cols=41 Identities=15% Similarity=0.199 Sum_probs=27.9
Q ss_pred CCCce-eEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 13 GDFPF-AIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 13 ~~l~f-pLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
..+.| -+-.|.+.+++.+||+. ..+ ||++=++|++.....-
T Consensus 60 ~~v~f~kVdid~~~~la~~f~V~------------sIP-Tli~fkdGk~v~~~~G 101 (111)
T cd02965 60 GRFRAAVVGRADEQALAARFGVL------------RTP-ALLFFRDGRYVGVLAG 101 (111)
T ss_pred CcEEEEEEECCCCHHHHHHcCCC------------cCC-EEEEEECCEEEEEEeC
Confidence 34544 56677889999999984 234 4455568988876653
No 143
>cd07238 Glo_EDI_BRP_like_5 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The structure of this family is a that of a strand-swapped dimer.
Probab=38.24 E-value=51 Score=18.52 Aligned_cols=17 Identities=29% Similarity=0.376 Sum_probs=13.7
Q ss_pred ceeEEEECCCCcEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~ 64 (75)
.|..++.||+|....+.
T Consensus 93 ~~~~~~~DP~Gn~i~~~ 109 (112)
T cd07238 93 VRRFFVRDPFGKLVNIL 109 (112)
T ss_pred eEEEEEECCCCCEEEEE
Confidence 47889999999877654
No 144
>cd07254 Glo_EDI_BRP_like_20 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and types I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=38.00 E-value=53 Score=18.70 Aligned_cols=18 Identities=22% Similarity=0.296 Sum_probs=15.1
Q ss_pred ceeEEEECCCCcEEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~ 65 (75)
.|..++-||+|.....+.
T Consensus 99 ~~~~~~~DP~G~~ie~~~ 116 (120)
T cd07254 99 QDKVWVTDPDGNAWEVFV 116 (120)
T ss_pred cceEEEECCCCCEEEEEE
Confidence 578999999999887765
No 145
>PF13103 TonB_2: TonB C terminal; PDB: 1LR0_A.
Probab=37.28 E-value=65 Score=17.67 Aligned_cols=19 Identities=21% Similarity=0.293 Sum_probs=13.2
Q ss_pred ccceeEEEECCCCcEEEEE
Q psy13814 46 ITVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~ 64 (75)
......|-||+||+|..+.
T Consensus 26 ~~~~V~i~i~~dG~v~~~~ 44 (85)
T PF13103_consen 26 LSVTVRITIDPDGRVISVR 44 (85)
T ss_dssp --EEEEEEE-TTSBEEEEE
T ss_pred cEEEEEEEECCCCCEEEEE
Confidence 5678899999999996444
No 146
>PLN02300 lactoylglutathione lyase
Probab=37.20 E-value=65 Score=22.00 Aligned_cols=24 Identities=13% Similarity=0.025 Sum_probs=18.6
Q ss_pred ceeEEEECCCCcEEEEEEcCCCCC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYPASTG 71 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~~~~G 71 (75)
.|..|+-||+|.+...+.++...+
T Consensus 130 ~~~~~~~DPdG~~iEl~~~~~~~~ 153 (286)
T PLN02300 130 SVIAFVKDPDGYKFELIQRGPTPE 153 (286)
T ss_pred eEEEEEECCCCCEEEEEeCCCCCC
Confidence 466789999999988887765443
No 147
>cd08359 Glo_EDI_BRP_like_22 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The structures of this family demonstrate domain swapping, which is shared by glyoxalase I and antibiotic resistance proteins.
Probab=37.10 E-value=52 Score=18.58 Aligned_cols=16 Identities=19% Similarity=0.123 Sum_probs=13.5
Q ss_pred ceeEEEECCCCcEEEE
Q psy13814 48 VRAVYIIGPDRKLKLS 63 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~ 63 (75)
.|..++.||+|.+...
T Consensus 102 ~~~~~~~DP~G~~ie~ 117 (119)
T cd08359 102 QRHFIVRDPNGVLIDI 117 (119)
T ss_pred ceEEEEECCCCCEEEE
Confidence 5889999999988654
No 148
>cd03004 PDI_a_ERdj5_C PDIa family, C-terminal ERdj5 subfamily; ERdj5, also known as JPDI and macrothioredoxin, is a protein containing an N-terminal DnaJ domain and four redox active TRX domains. This subfamily is composed of the three TRX domains located at the C-terminal half of the protein. ERdj5 is a ubiquitous protein localized in the endoplasmic reticulum (ER) and is abundant in secretory cells. It's transcription is induced during ER stress. It interacts with BiP through its DnaJ domain in an ATP-dependent manner. BiP, an ER-resident member of the Hsp70 chaperone family, functions in ER-associated degradation and protein translocation. Also included in the alignment is the single complete TRX domain of an uncharacterized protein from Tetraodon nigroviridis, which also contains a DnaJ domain at its N-terminus.
Probab=37.00 E-value=71 Score=17.90 Aligned_cols=40 Identities=8% Similarity=0.080 Sum_probs=25.6
Q ss_pred CCCce-eEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEE
Q psy13814 13 GDFPF-AIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 13 ~~l~f-pLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~ 64 (75)
..+.| -+=+|.+.++++.||+. ..++.+++.+.|+....+
T Consensus 50 ~~~~~~~vd~~~~~~~~~~~~i~------------~~Pt~~~~~~g~~~~~~~ 90 (104)
T cd03004 50 GKVKVGSVDCQKYESLCQQANIR------------AYPTIRLYPGNASKYHSY 90 (104)
T ss_pred CCcEEEEEECCchHHHHHHcCCC------------cccEEEEEcCCCCCceEc
Confidence 34554 44467788999999984 345677776654654443
No 149
>PF05988 DUF899: Bacterial protein of unknown function (DUF899); InterPro: IPR010296 This family consists of uncharacterised bacterial proteins of unknown function which are thioredoxin-like.
Probab=36.79 E-value=81 Score=21.60 Aligned_cols=48 Identities=8% Similarity=0.099 Sum_probs=35.2
Q ss_pred CCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 13 GDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 13 ~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
-+-.||.+|..+......|++...+.. ..+-=++|+=|. |.|.+.+..
T Consensus 127 mGW~~pw~Ss~gs~Fn~D~~~~~~~~~-----~~~g~svF~Rdg-~~VfhTyst 174 (211)
T PF05988_consen 127 MGWTFPWYSSYGSDFNYDFGVSFDEGG-----EMPGLSVFLRDG-GRVFHTYST 174 (211)
T ss_pred cCCCceEEEcCCCcccccccceeccCC-----CceeEEEEEEcC-CEEEEEeec
Confidence 345699999998888899998543322 134458899997 999888765
No 150
>cd08343 ED_TypeI_classII_C C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain. This family contains the C-terminal, catalytic domain of type I, class II extradiol dioxygenases. Dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. Two major groups of dioxygenases have been identified according to the cleavage site; extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon, whereas intradiol enzymes cleave the aromatic ring between two hydroxyl groups. Extradiol dioxygenases are classified into type I and type II enzymes. Type I extradiol dioxygenases include class I and class II enzymes. These two classes of enzymes show sequence similarity; the two-domain class II enzymes evolved from a class I enzyme through gene duplication. The extradiol dioxygenases represented in this family are
Probab=36.62 E-value=61 Score=18.98 Aligned_cols=20 Identities=15% Similarity=-0.029 Sum_probs=15.4
Q ss_pred ceeEEEECCCCcEEEEEEcC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~ 67 (75)
.+..|+.||+|....+....
T Consensus 99 ~~~~~~~DPdG~~iei~~~~ 118 (131)
T cd08343 99 NLFLYFRDPDGNRVELSAEM 118 (131)
T ss_pred cEEEEEECCCCCEEEEEcCC
Confidence 47789999999987765443
No 151
>COG0810 TonB Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]
Probab=36.49 E-value=56 Score=22.12 Aligned_cols=20 Identities=30% Similarity=0.370 Sum_probs=16.5
Q ss_pred ccceeEEEECCCCcEEEEEE
Q psy13814 46 ITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~ 65 (75)
+..+-.|.||++|.|.-+.+
T Consensus 180 G~V~V~f~i~~~G~v~~v~v 199 (244)
T COG0810 180 GTVKVKFTIDPDGNVTNVRV 199 (244)
T ss_pred ceEEEEEEECCCCCEeeeEE
Confidence 57899999999999876554
No 152
>PF08750 CNP1: CNP1-like family; InterPro: IPR014861 This group of proteins are likely to be lipoproteins. CNP1 (cryptic neisserial protein) has been expressed in Escherichia coli and shown to be localised periplasmicly [].
Probab=36.43 E-value=45 Score=21.23 Aligned_cols=28 Identities=21% Similarity=0.402 Sum_probs=18.9
Q ss_pred cceeEEEECCCCcEEEEEEcCCCC-CCCC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYPAST-GRSV 74 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~~~~-GRn~ 74 (75)
....+.=|++||+||++.+---+- .||+
T Consensus 39 ID~~Sisvg~DgvVRY~lv~~S~~Ga~Nv 67 (139)
T PF08750_consen 39 IDPKSISVGPDGVVRYTLVVRSPSGARNV 67 (139)
T ss_pred EchhheEECCCCcEEEEEEEcCCCCcccc
Confidence 345566677999999998765433 3443
No 153
>KOG3559|consensus
Probab=35.74 E-value=36 Score=26.05 Aligned_cols=16 Identities=19% Similarity=0.480 Sum_probs=13.5
Q ss_pred eEEEECCCCcEEEEEE
Q psy13814 50 AVYIIGPDRKLKLSIV 65 (75)
Q Consensus 50 ~tFiId~dG~I~~~~~ 65 (75)
=.||++|||+|.++..
T Consensus 91 F~fvva~dGkimYISE 106 (598)
T KOG3559|consen 91 FIFVVAPDGKIMYISE 106 (598)
T ss_pred eEEEEeCCCCEEEEec
Confidence 3689999999998864
No 154
>smart00701 PGRP Animal peptidoglycan recognition proteins homologous to Bacteriophage T3 lysozyme. The bacteriophage molecule, but not its moth homologue, has been shown to have N-acetylmuramoyl-L-alanine amidase activity. One member of this family, Tag7, is a cytokine.
Probab=35.43 E-value=23 Score=22.24 Aligned_cols=14 Identities=21% Similarity=0.484 Sum_probs=11.4
Q ss_pred ceeEEEECCCCcEE
Q psy13814 48 VRAVYIIGPDRKLK 61 (75)
Q Consensus 48 ~R~tFiId~dG~I~ 61 (75)
.---|+|++||.|-
T Consensus 63 IgYhflI~~dG~Iy 76 (142)
T smart00701 63 IGYNFLVGGDGKVY 76 (142)
T ss_pred cCCeEEEcCCCEEE
Confidence 45579999999985
No 155
>cd07576 R-amidase_like Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases). Pseudomonas sp. MCI3434 R-amidase hydrolyzes (R,S)-piperazine-2-tert-butylcarboxamide to form (R)-piperazine-2-carboxylic acid. It does so with strict R-stereoselectively. Its preferred substrates are carboxamide compounds which have the amino or imino group connected to their beta- or gamma-carbon. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), class 13 represents proteins that at the time were difficult to place in a distinct similarity group. It has been suggested that this subgroup represents a new class. Members of the nitrilase superfamily generally form homomeric compl
Probab=34.67 E-value=99 Score=20.27 Aligned_cols=40 Identities=13% Similarity=0.058 Sum_probs=20.8
Q ss_pred hHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEE
Q psy13814 25 RDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 25 ~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~ 64 (75)
.++|+.++++---......-....=+.++|+|+|.|...+
T Consensus 68 ~~~a~~~~~~ii~G~~~~~~~~~yNs~~~i~~~G~i~~~y 107 (254)
T cd07576 68 RAIARRHGIAIVVGYPERAGGAVYNAAVLIDEDGTVLANY 107 (254)
T ss_pred HHHHHHcCCEEEEeccccCCCceEEEEEEECCCCCEeeEE
Confidence 4667777763210000000012345788999999975443
No 156
>PRK01966 ddl D-alanyl-alanine synthetase A; Reviewed
Probab=33.88 E-value=1.1e+02 Score=21.51 Aligned_cols=24 Identities=13% Similarity=0.180 Sum_probs=20.7
Q ss_pred ccceeEEEECCCCcEEEEEEcCCC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~~~ 69 (75)
...|.=|+++++|++....+|+.+
T Consensus 278 G~~rvDf~~~~~g~~~vlEiNt~P 301 (333)
T PRK01966 278 GLARVDFFLTEDGEIYLNEINTMP 301 (333)
T ss_pred ceEEEEEEEcCCCCEEEEEeeCCC
Confidence 368999999999999999999764
No 157
>PRK11478 putative lyase; Provisional
Probab=33.23 E-value=67 Score=18.42 Aligned_cols=17 Identities=18% Similarity=0.067 Sum_probs=13.5
Q ss_pred ceeEEEECCCCcEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~ 64 (75)
.|..|+-||+|.+...+
T Consensus 111 ~~~~~~~DPdG~~iEl~ 127 (129)
T PRK11478 111 KRFTFFNDPDGLPLELY 127 (129)
T ss_pred CEEEEEECCCCCEEEEE
Confidence 57889999999986543
No 158
>cd02984 TRX_PICOT TRX domain, PICOT (for PKC-interacting cousin of TRX) subfamily; PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT contains an N-terminal TRX-like domain, which does not contain the catalytic CXXC motif, followed by one to three glutaredoxin domains. The TRX-like domain is required for interaction with PKC theta. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli.
Probab=32.25 E-value=92 Score=17.04 Aligned_cols=32 Identities=9% Similarity=0.222 Sum_probs=21.2
Q ss_pred ecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEE
Q psy13814 21 GDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 21 sD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
.+...+++++|++. ..++.+++ .+|++.....
T Consensus 54 ~~~~~~~~~~~~i~------------~~Pt~~~~-~~g~~~~~~~ 85 (97)
T cd02984 54 AEELPEISEKFEIT------------AVPTFVFF-RNGTIVDRVS 85 (97)
T ss_pred cccCHHHHHhcCCc------------cccEEEEE-ECCEEEEEEe
Confidence 35567889999974 24556666 5788766543
No 159
>cd07564 nitrilases_CHs Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases). Nitrilases (nitrile aminohydrolases, EC:3.5.5.1) hydrolyze nitriles (RCN) to ammonia and the corresponding carboxylic acid. Most nitrilases prefer aromatic nitriles, some prefer arylacetonitriles and others aliphatic nitriles. This group includes the nitrilase cyanide dihydratase (CDH), which hydrolyzes inorganic cyanide (HCN) to produce formate. It also includes cyanide hydratase (CH), which hydrolyzes HCN to formamide. This group includes four Arabidopsis thaliana nitrilases (Ath)NIT1-4. AthNIT1-3 have a strong substrate preference for phenylpropionitrile (PPN) and other nitriles which may originate from the breakdown of glucosinolates. The product of PPN hydrolysis, phenylacetic acid has auxin activity. AthNIT1-3 can also convert indoacetonitrile to indole-3-acetic acid (IAA, auxin), but with a lower affinity and velocity. From their expression patterns, it has been speculated that
Probab=31.80 E-value=96 Score=21.29 Aligned_cols=18 Identities=22% Similarity=0.220 Sum_probs=13.1
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..=+.|+|+|+|.|...+
T Consensus 104 ~yNs~~vi~~~G~i~~~y 121 (297)
T cd07564 104 LYNTQLLIDPDGELLGKH 121 (297)
T ss_pred eEEEEEEEcCCCCEeeee
Confidence 445678999999876443
No 160
>TIGR03381 agmatine_aguB N-carbamoylputrescine amidase. Members of this family are N-carbamoylputrescine amidase (3.5.1.53). Bacterial genes are designated AguB. The AguAB pathway replaces SpeB for conversion of agmatine to putrescine in two steps rather than one.
Probab=31.67 E-value=1.1e+02 Score=20.35 Aligned_cols=37 Identities=14% Similarity=0.022 Sum_probs=19.6
Q ss_pred HHHHHcCCccccccCCcccCccceeEEEECCCCcEEE
Q psy13814 26 DLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKL 62 (75)
Q Consensus 26 ~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~ 62 (75)
++|+.+++.---......-....=+.++|+|+|.|..
T Consensus 73 ~~a~~~~i~i~~g~~~~~~~~~yNs~~~i~~~G~i~~ 109 (279)
T TIGR03381 73 ALAKELGVVIPVSFFEKAGNAYYNSLAMIDADGSVLG 109 (279)
T ss_pred HHHHHcCcEEEEeeeecCCCceEEeEEEECCCCCEEE
Confidence 5777787642110000000123456789999998753
No 161
>cd03457 intradiol_dioxygenase_like Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the extradiol-cleaving enzymes which break the C2-C3 or C1-C6 bond and utilize Fe2+ and Mn+. The family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases. The specific function of this subgroup is unknown.
Probab=31.42 E-value=1e+02 Score=20.43 Aligned_cols=26 Identities=23% Similarity=0.508 Sum_probs=22.6
Q ss_pred ceeEEEECCCCcEEEEEEcCC-CCCCC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYPA-STGRS 73 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~~-~~GRn 73 (75)
.|+.+.-|.+|+.++..++|- +.||-
T Consensus 77 lRG~~~TD~~G~~~F~TI~PG~Y~gR~ 103 (188)
T cd03457 77 LRGVQPTDADGVVTFTTIFPGWYPGRA 103 (188)
T ss_pred CEEEEEECCCccEEEEEECCCCCCCCC
Confidence 699999999999999999996 56663
No 162
>cd07246 Glo_EDI_BRP_like_8 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The structures of this family demonstrate domain swapping, which is shared by glyoxalase I and antibiotic resistance proteins.
Probab=31.35 E-value=73 Score=17.84 Aligned_cols=18 Identities=11% Similarity=-0.261 Sum_probs=14.4
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..|..++.||+|......
T Consensus 103 g~~~~~~~DP~G~~~~l~ 120 (122)
T cd07246 103 GDRYGGVRDPFGHRWWIA 120 (122)
T ss_pred cceEEEEECCCCCEEEEe
Confidence 468999999999876543
No 163
>PF08235 LNS2: LNS2 (Lipin/Ned1/Smp2); InterPro: IPR013209 This domain is found in Saccharomyces cerevisiae (Baker's yeast) protein SMP2, proteins with an N-terminal lipin domain (IPR007651 from INTERPRO) and phosphatidylinositol transfer proteins []. SMP2 is involved in plasmid maintenance and respiration []. Lipin proteins are involved in adipose tissue development and insulin resistance [].
Probab=31.10 E-value=38 Score=22.00 Aligned_cols=19 Identities=26% Similarity=0.534 Sum_probs=16.0
Q ss_pred cCccceeEEEECCCCcEEE
Q psy13814 44 TAITVRAVYIIGPDRKLKL 62 (75)
Q Consensus 44 ~~~~~R~tFiId~dG~I~~ 62 (75)
.+++..-.|+|||.|++..
T Consensus 138 vGip~~rIF~I~~~g~~~~ 156 (157)
T PF08235_consen 138 VGIPKSRIFIINPKGEVKQ 156 (157)
T ss_pred cCCChhhEEEECCCCeEec
Confidence 3578899999999999864
No 164
>TIGR01205 D_ala_D_alaTIGR D-alanine--D-alanine ligase. but a number of antibiotic resistance proteins score above the trusted cutoff of this model.
Probab=30.48 E-value=1.4e+02 Score=20.40 Aligned_cols=24 Identities=8% Similarity=0.214 Sum_probs=20.5
Q ss_pred cceeEEEECCCCcEEEEEEcCCCC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYPAST 70 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~~~~ 70 (75)
..|.=|++|++|.+....+||.+-
T Consensus 263 ~~~vD~~~~~~g~~~viEvN~~pg 286 (315)
T TIGR01205 263 LARVDFFLDEEGEIYLNEINTIPG 286 (315)
T ss_pred eEEEEEEEeCCCCEEEEEeeCCCC
Confidence 578889999999999999998753
No 165
>PRK14568 vanB D-alanine--D-lactate ligase; Provisional
Probab=30.42 E-value=1.3e+02 Score=21.15 Aligned_cols=24 Identities=17% Similarity=0.081 Sum_probs=20.7
Q ss_pred ccceeEEEECCCCcEEEEEEcCCC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~~~ 69 (75)
...|.=|+++++|.+....+|+.+
T Consensus 287 G~~rvDf~l~~~g~~~llEINt~P 310 (343)
T PRK14568 287 GLARVDMFLQEDGTVVLNEVNTLP 310 (343)
T ss_pred cEEEEEEEEeCCCCEEEEEeeCCC
Confidence 478999999999999888888754
No 166
>PF14326 DUF4384: Domain of unknown function (DUF4384)
Probab=30.19 E-value=81 Score=17.65 Aligned_cols=18 Identities=22% Similarity=0.298 Sum_probs=14.2
Q ss_pred eEEEECCCCcEEEEEEcC
Q psy13814 50 AVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 50 ~tFiId~dG~I~~~~~~~ 67 (75)
..|-+|++|++...+-+.
T Consensus 22 ~l~~~~~~G~v~~L~Pn~ 39 (83)
T PF14326_consen 22 YLFYIDADGKVTLLFPNR 39 (83)
T ss_pred EEEEECCCCCEEEEecCc
Confidence 467789999998887664
No 167
>COG0386 BtuE Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=29.95 E-value=52 Score=21.70 Aligned_cols=63 Identities=11% Similarity=0.194 Sum_probs=32.3
Q ss_pred hhhhhhhcCCCCCCceeEEecC--chH-HHHHcCCccccccC--CcccCccceeEEEECCCCcEEEEEE
Q psy13814 2 SDIKNYCLDIKGDFPFAIIGDE--NRD-LAVKLDLLDEENKN--NLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 2 ~~~~~~~~~~k~~l~fpLlsD~--~~~-i~~~yGv~~~~~~~--~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
++|+++|. .++++.|||.+=. +++ ..=.|--+.+.... +....-..=.=||||.+|.|...+.
T Consensus 77 eEI~~fC~-~~YgVtFp~f~Ki~VnG~~a~PLy~~L~~~~~g~~~~~~IkWNFtKFLvdr~G~VV~Rf~ 144 (162)
T COG0386 77 EEIAKFCQ-LNYGVTFPMFSKIDVNGKNAHPLYKYLKEQKPGKLGGKDIKWNFTKFLVDRDGNVVKRFS 144 (162)
T ss_pred HHHHHHHH-hccCceeeeeeEEeecCCCCCcHHHHHHhcCCCCccCCccceeeEEEEEcCCCcEEEeeC
Confidence 34666644 3789999999843 211 11111111111100 0000123346799999999987764
No 168
>PF01510 Amidase_2: N-acetylmuramoyl-L-alanine amidase; InterPro: IPR002502 Proteins families containing this domain include zinc amidases that have N-acetylmuramoyl-L-alanine amidase activity 3.5.1.28 from EC This enzyme domain cleaves the amide bond between N-acetylmuramoyl and L-amino acids in bacterial cell walls (preferentially: D-lactyl-L-Ala). The structure is known for the Bacteriophage T7 structure and shows that two of the conserved histidines are zinc binding.; GO: 0008745 N-acetylmuramoyl-L-alanine amidase activity, 0009253 peptidoglycan catabolic process; PDB: 2RKQ_A 2EAV_A 2EAX_B 2XZ4_A 3TRU_A 3NKW_B 3QS0_B 3NW3_C 2Z9N_C 3NNO_B ....
Probab=29.85 E-value=27 Score=20.66 Aligned_cols=14 Identities=21% Similarity=0.342 Sum_probs=10.8
Q ss_pred ceeEEEECCCCcEE
Q psy13814 48 VRAVYIIGPDRKLK 61 (75)
Q Consensus 48 ~R~tFiId~dG~I~ 61 (75)
.-.-|+||+||.|.
T Consensus 37 ~s~H~~I~~dG~i~ 50 (132)
T PF01510_consen 37 ASYHYVIDRDGTIY 50 (132)
T ss_dssp -SSSEEEETTSEEE
T ss_pred ceEEEEEecCCeEE
Confidence 35679999999884
No 169
>PRK10996 thioredoxin 2; Provisional
Probab=29.83 E-value=1.4e+02 Score=18.26 Aligned_cols=39 Identities=10% Similarity=0.312 Sum_probs=24.5
Q ss_pred CCce-eEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEE
Q psy13814 14 DFPF-AIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 14 ~l~f-pLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
++.| .+=.|.+.+++++||+. ..++.+++ ++|++.....
T Consensus 84 ~v~~~~vd~~~~~~l~~~~~V~------------~~Ptlii~-~~G~~v~~~~ 123 (139)
T PRK10996 84 KVRFVKVNTEAERELSARFRIR------------SIPTIMIF-KNGQVVDMLN 123 (139)
T ss_pred CeEEEEEeCCCCHHHHHhcCCC------------ccCEEEEE-ECCEEEEEEc
Confidence 3443 33356788999999984 22444444 5898876543
No 170
>PRK00446 cyaY frataxin-like protein; Provisional
Probab=29.56 E-value=48 Score=20.04 Aligned_cols=29 Identities=17% Similarity=0.076 Sum_probs=22.8
Q ss_pred ccceeEEEECCCCcEEEEEEcCCCCCCCC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYPASTGRSV 74 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~~~~GRn~ 74 (75)
+..+++|||++.--.+.+|+..++-|..+
T Consensus 42 f~~~~~~VINkQ~p~~QIWlas~sG~~hf 70 (105)
T PRK00446 42 FENGSKIIINRQEPLHELWLAAKSGGFHF 70 (105)
T ss_pred ECCCCEEEEeCCCchhheeEecCCCCccc
Confidence 35689999999998999998877655443
No 171
>cd02996 PDI_a_ERp44 PDIa family, endoplasmic reticulum protein 44 (ERp44) subfamily; ERp44 is an ER-resident protein, induced during stress, involved in thiol-mediated ER retention. It contains an N-terminal TRX domain, similar to that of PDIa, with a CXFS motif followed by two redox inactive TRX-like domains, homologous to the b and b' domains of PDI. The CXFS motif in the N-terminal domain allows ERp44 to form stable reversible mixed disulfides with its substrates. Through this activity, ERp44 mediates the ER localization of Ero1alpha, a protein that oxidizes protein disulfide isomerases into their active form. ERp44 also prevents the secretion of unassembled cargo protein with unpaired cysteines. It also modulates the activity of inositol 1,4,5-triphosphate type I receptor (IP3R1), an intracellular channel protein that mediates calcium release from the ER to the cytosol.
Probab=29.51 E-value=1.1e+02 Score=17.29 Aligned_cols=35 Identities=9% Similarity=0.178 Sum_probs=25.0
Q ss_pred CCcee-EEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEE
Q psy13814 14 DFPFA-IIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLK 61 (75)
Q Consensus 14 ~l~fp-LlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~ 61 (75)
.+.|. +=+|.+..++++||+. ..++.++. ++|.+.
T Consensus 56 ~~~~~~vd~d~~~~l~~~~~v~------------~~Ptl~~~-~~g~~~ 91 (108)
T cd02996 56 KVVWGKVDCDKESDIADRYRIN------------KYPTLKLF-RNGMMM 91 (108)
T ss_pred cEEEEEEECCCCHHHHHhCCCC------------cCCEEEEE-eCCcCc
Confidence 46664 5589999999999984 34566666 678743
No 172
>cd07242 Glo_EDI_BRP_like_6 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=29.50 E-value=92 Score=17.77 Aligned_cols=17 Identities=18% Similarity=0.075 Sum_probs=13.3
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
..|..|+.||+|.....
T Consensus 109 ~~~~~~~~DpdG~~ie~ 125 (128)
T cd07242 109 GYYALFFEDPDGIRLEL 125 (128)
T ss_pred cEEEEEEECCCCcEEEE
Confidence 45788999999986654
No 173
>cd07244 FosA FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive. This subfamily family contains FosA, a fosfomycin resistant protein. Fosfomycin inhibits the enzyme UDP-N-acetylglucosamine-3-enolpyruvyltransferase (MurA), which catalyzes the first committed step in bacterial cell wall biosynthesis. FosA, catalyzes the addition of glutathione to the antibiotic fosfomycin, (1R,2S)-epoxypropylphosphonic acid, making it inactive. FosA is a Mn(II) dependent enzyme. It is evolutionarily related to glyoxalase I and type I extradiol dioxygenases.
Probab=29.22 E-value=92 Score=17.87 Aligned_cols=20 Identities=20% Similarity=0.164 Sum_probs=16.0
Q ss_pred ceeEEEECCCCcEEEEEEcC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~ 67 (75)
.+..++.||||....++..+
T Consensus 92 ~~~~~f~DPdG~~ie~~~~~ 111 (121)
T cd07244 92 GDSFYFLDPDGHKLELHVGS 111 (121)
T ss_pred ccEEEEECCCCCEEEEEeCC
Confidence 47889999999988776543
No 174
>PHA00447 lysozyme
Probab=29.12 E-value=36 Score=21.49 Aligned_cols=14 Identities=29% Similarity=0.387 Sum_probs=11.5
Q ss_pred ceeEEEECCCCcEE
Q psy13814 48 VRAVYIIGPDRKLK 61 (75)
Q Consensus 48 ~R~tFiId~dG~I~ 61 (75)
.---|+|++||+|-
T Consensus 43 IgYhf~I~~dG~I~ 56 (142)
T PHA00447 43 VGYHFIIRRDGTVE 56 (142)
T ss_pred cCeEEEECCCCEEE
Confidence 45679999999974
No 175
>cd02954 DIM1 Dim1 family; Dim1 is also referred to as U5 small nuclear ribonucleoprotein particle (snRNP)-specific 15kD protein. It is a component of U5 snRNP, which pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5] tri-snRNP complex required for pre-mRNA splicing. Dim1 interacts with multiple splicing-associated proteins, suggesting that it functions at multiple control points in the splicing of pre-mRNA as part of a large spliceosomal complex involving many protein-protein interactions. U5 snRNP contains seven core proteins (common to all snRNPs) and nine U5-specific proteins, one of which is Dim1. Dim1 adopts a thioredoxin fold but does not contain the redox active CXXC motif. It is essential for G2/M phase transition, as a consequence to its role in pre-mRNA splicing.
Probab=28.97 E-value=1.2e+02 Score=18.48 Aligned_cols=36 Identities=14% Similarity=-0.005 Sum_probs=24.6
Q ss_pred eeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEE
Q psy13814 17 FAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 17 fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~ 65 (75)
+-+=.|.+.+++..||+. ..++ |++=++|+......
T Consensus 50 ~kVDvD~~~~la~~~~V~------------~iPT-f~~fk~G~~v~~~~ 85 (114)
T cd02954 50 YLVDIDEVPDFNKMYELY------------DPPT-VMFFFRNKHMKIDL 85 (114)
T ss_pred EEEECCCCHHHHHHcCCC------------CCCE-EEEEECCEEEEEEc
Confidence 455578899999999985 2344 44446788776654
No 176
>cd03002 PDI_a_MPD1_like PDI family, MPD1-like subfamily; composed of eukaryotic proteins similar to Saccharomyces cerevisiae MPD1 protein, which contains a single redox active TRX domain located at the N-terminus, and an ER retention signal at the C-terminus indicative of an ER-resident protein. MPD1 has been shown to suppress the maturation defect of carboxypeptidase Y caused by deletion of the yeast PDI1 gene. Other characterized members of this subfamily include the Aspergillus niger prpA protein and Giardia PDI-1. PrpA is non-essential to strain viability, however, its transcript level is induced by heterologous protein expression suggesting a possible role in oxidative protein folding during high protein production. Giardia PDI-1 has the ability to refold scrambled RNase and exhibits transglutaminase activity.
Probab=28.92 E-value=86 Score=17.58 Aligned_cols=24 Identities=21% Similarity=0.346 Sum_probs=18.6
Q ss_pred chHHHHHcCCccccccCCcccCccceeEEEECCCCc
Q psy13814 24 NRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRK 59 (75)
Q Consensus 24 ~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~ 59 (75)
+..++++||+. ..++++++++.+.
T Consensus 63 ~~~~~~~~~i~------------~~Pt~~~~~~~~~ 86 (109)
T cd03002 63 NKPLCGKYGVQ------------GFPTLKVFRPPKK 86 (109)
T ss_pred cHHHHHHcCCC------------cCCEEEEEeCCCc
Confidence 67899999973 4578889988763
No 177
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=28.90 E-value=70 Score=25.27 Aligned_cols=28 Identities=21% Similarity=0.301 Sum_probs=21.2
Q ss_pred cceeEEEECCCCcEEEEEEcCC---CCCCCC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYPA---STGRSV 74 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~~---~~GRn~ 74 (75)
-...+||||++|.....+-+.. .+|+|+
T Consensus 99 ~ss~iYlid~~G~~iaASNw~~p~SFVG~ny 129 (603)
T COG4191 99 GSSAIYLIDPTGLTLAASNWNLPTSFVGRNY 129 (603)
T ss_pred cCCeEEEECCCCcEEeeccCCCCCcccccCc
Confidence 4688999999999887764432 567775
No 178
>PF11012 DUF2850: Protein of unknown function (DUF2850); InterPro: IPR021271 This family of proteins with unknown function appear to be restricted to Vibrionaceae.
Probab=28.68 E-value=51 Score=19.12 Aligned_cols=26 Identities=8% Similarity=0.059 Sum_probs=17.9
Q ss_pred cCCccccccCCcccCccceeEEEECCCCcEE
Q psy13814 31 LDLLDEENKNNLETAITVRAVYIIGPDRKLK 61 (75)
Q Consensus 31 yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~ 61 (75)
||.|-|... .--.+.+|.++++|+.+
T Consensus 3 YG~WvE~~v-----a~Ya~e~~~l~~~GV~~ 28 (79)
T PF11012_consen 3 YGTWVEQGV-----APYAAEEFTLNESGVFR 28 (79)
T ss_pred ceEEEECCC-----CCccccEEEECCCcEEE
Confidence 677766432 23578899999999764
No 179
>cd07266 HPCD_N_class_II N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases. This subfamily contains the N-terminal, non-catalytic, domain of HPCD. HPCD catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate. The aromatic ring of 4-hydroxyphenylacetate is opened by this dioxygenase to yield the 3,4-diol product, 2-hydroxy-5-carboxymethylmuconate semialdehyde. HPCD is a homotetramer and each monomer contains two structurally homologous barrel-shaped domains at the N- and C-terminus. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism. Most extradiol dioxygenases contain Fe(II) in their active site, but HPCD can be activated by either Mn(II) or Fe(II). These enzymes belong to the type I class II family of extradiol dioxygenases. The class III 3,4-dihydroxyphenylacetate 2,3-dioxygenases belong to a differ
Probab=28.56 E-value=1.1e+02 Score=17.36 Aligned_cols=18 Identities=17% Similarity=-0.127 Sum_probs=14.4
Q ss_pred ceeEEEECCCCcEEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~ 65 (75)
.+..++.||+|.....+.
T Consensus 100 ~~~~~~~DPdG~~ve~~~ 117 (121)
T cd07266 100 GRALRVEDPLGFPIEFYA 117 (121)
T ss_pred ccEEEEECCCCCEEEEEe
Confidence 478899999998776653
No 180
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=28.23 E-value=61 Score=18.31 Aligned_cols=16 Identities=0% Similarity=0.148 Sum_probs=12.9
Q ss_pred eEEEECCCCcEEEEEE
Q psy13814 50 AVYIIGPDRKLKLSIV 65 (75)
Q Consensus 50 ~tFiId~dG~I~~~~~ 65 (75)
++.++|++++|++...
T Consensus 11 ~i~~vD~~~~I~~~n~ 26 (106)
T PF13596_consen 11 GIIFVDRNLRIRYFNP 26 (106)
T ss_dssp EEEEEETTSBEEEE-S
T ss_pred CEEEEcCCCeEEEeCh
Confidence 6889999999997654
No 181
>cd08347 PcpA_C_like C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins. The C-terminal domain of Sphingobium chlorophenolicum (formerly Sphingomonas chlorophenolica) 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins. PcpA is a key enzyme in the pentachlorophenol (PCP) degradation pathway, catalyzing the conversion of 2,6-dichloro-p-hydroquinone to 2-chloromaleylacetate. This domain belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases.
Probab=28.18 E-value=1.2e+02 Score=18.85 Aligned_cols=21 Identities=14% Similarity=0.080 Sum_probs=17.0
Q ss_pred cceeEEEECCCCcEEEEEEcC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~ 67 (75)
..++.|+-||+|.......++
T Consensus 101 ~~~s~yf~DPdG~~iEl~~~~ 121 (157)
T cd08347 101 YFKSLYFREPGGILFEIATDG 121 (157)
T ss_pred cEEEEEEECCCCcEEEEEECC
Confidence 348899999999987777665
No 182
>PF02743 Cache_1: Cache domain; InterPro: IPR004010 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins, including the animal dihydropyridine-sensitive voltage-gated Ca2+ channel; alpha-2delta subunit, and various bacterial chemotaxis receptors. The name Cache comes from CAlcium channels and CHEmotaxis receptors. This domain consists of an N-terminal part with three predicted strands and an alpha-helix, and a C-terminal part with a strand dyad followed by a relatively unstructured region. The N-terminal portion of the (unpermuted) Cache domain contains three predicted strands that could form a sheet analogous to that present in the core of the PAS domain structure. Cache domains are particularly widespread in bacteria, with Vibrio cholerae. The animal calcium channel alpha-2delta subunits might have acquired a part of their extracellular domains from a bacterial source []. The Cache domain appears to have arisen from the GAF-PAS fold despite their divergent functions [].; GO: 0016020 membrane; PDB: 3C8C_A 3LIB_D 3LIA_A 3LI8_A 3LI9_A.
Probab=28.14 E-value=28 Score=18.96 Aligned_cols=17 Identities=6% Similarity=0.149 Sum_probs=12.8
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
...-.||+|.+|+|...
T Consensus 52 ~~g~~~ivd~~G~ii~h 68 (81)
T PF02743_consen 52 NNGYAFIVDKNGTIIAH 68 (81)
T ss_dssp TTBEEEEEETTSBBCE-
T ss_pred CCEEEEEEECCCCEEEe
Confidence 34578999999998654
No 183
>cd02948 TRX_NDPK TRX domain, TRX and NDP-kinase (NDPK) fusion protein family; most members of this group are fusion proteins which contain one redox active TRX domain containing a CXXC motif and three NDPK domains, and are characterized as intermediate chains (ICs) of axonemal outer arm dynein. Dyneins are molecular motors that generate force against microtubules to produce cellular movement, and are divided into two classes: axonemal and cytoplasmic. They are supramolecular complexes consisting of three protein groups classified according to size: dynein heavy, intermediate and light chains. Axonemal dyneins form two structures, the inner and outer arms, which are attached to doublet microtubules throughout the cilia and flagella. The human homolog is the sperm-specific Sptrx-2, presumed to be a component of the human sperm axoneme architecture. Included in this group is another human protein, TRX-like protein 2, a smaller fusion protein containing one TRX and one NDPK domain, which
Probab=28.10 E-value=1.1e+02 Score=17.32 Aligned_cols=39 Identities=13% Similarity=0.058 Sum_probs=25.1
Q ss_pred CceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 15 FPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 15 l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
+.|..+.-.+.+++++|++. ..+ ||++-.+|++......
T Consensus 51 ~~~~~vd~d~~~~~~~~~v~------------~~P-t~~~~~~g~~~~~~~G 89 (102)
T cd02948 51 LHFATAEADTIDTLKRYRGK------------CEP-TFLFYKNGELVAVIRG 89 (102)
T ss_pred EEEEEEeCCCHHHHHHcCCC------------cCc-EEEEEECCEEEEEEec
Confidence 45554432377899999974 223 5777789987766544
No 184
>PRK08132 FAD-dependent oxidoreductase; Provisional
Probab=27.77 E-value=1.1e+02 Score=22.80 Aligned_cols=34 Identities=24% Similarity=0.303 Sum_probs=24.3
Q ss_pred EecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 20 IGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 20 lsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
+.|.++.+++.||+. ..+.+||=|||-|.+.+..
T Consensus 498 ~~d~~~~~~~~~~~~-------------~~~~~LvRPDg~va~~~~~ 531 (547)
T PRK08132 498 LEDADGLAAERYDAR-------------PGTVYLIRPDQHVAARWRT 531 (547)
T ss_pred ccCcccHHHHHhCCC-------------CCeEEEECCCceEEEEecC
Confidence 456777777777753 2457889999999987643
No 185
>PF13128 DUF3954: Protein of unknown function (DUF3954)
Probab=27.73 E-value=86 Score=16.71 Aligned_cols=23 Identities=22% Similarity=0.580 Sum_probs=16.0
Q ss_pred ccceeEEEECCCCcEEEEEEcCCCCC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYPASTG 71 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~~~~G 71 (75)
+..-+.+|+ .||.|..+ .|+..|
T Consensus 7 ~~~ngiYiV-~~G~v~~i--~pP~sG 29 (50)
T PF13128_consen 7 VKENGIYIV-KDGEVTFI--EPPESG 29 (50)
T ss_pred ccCCeEEEE-ECCeEEEc--CCCCCC
Confidence 345678888 89988876 555543
No 186
>TIGR02739 TraF type-F conjugative transfer system pilin assembly protein TraF. This protein is part of a large group of proteins involved in conjugative transfer of plasmid DNA, specifically the F-type system. This protein has been predicted to contain a thioredoxin fold and has been shown to be localized to the periplasm. Unlike the related protein TrbB (TIGR02738), TraF does not contain a conserved pair of cysteines and has been shown not to function as a thiol disulfide isomerase by complementation of an Ecoli DsbA defect. The protein is believed to be involved in pilin assembly. Even more closely related than TrbB is a clade of genes (TIGR02740) which do contain the CXXC motif, but it is unclear whether these genes are involved in type-F conjugation systems per se.
Probab=27.59 E-value=1.7e+02 Score=20.46 Aligned_cols=13 Identities=23% Similarity=0.641 Sum_probs=10.9
Q ss_pred cceeEEEECCCCc
Q psy13814 47 TVRAVYIIGPDRK 59 (75)
Q Consensus 47 ~~R~tFiId~dG~ 59 (75)
..+++|+++|...
T Consensus 213 ~~Pal~Lv~~~t~ 225 (256)
T TIGR02739 213 YFPALYLVNPKSQ 225 (256)
T ss_pred cCceEEEEECCCC
Confidence 4799999999954
No 187
>cd07263 Glo_EDI_BRP_like_16 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=27.33 E-value=96 Score=17.02 Aligned_cols=17 Identities=18% Similarity=0.098 Sum_probs=13.5
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
..+..++.||+|.....
T Consensus 101 ~~~~~~~~DP~G~~ie~ 117 (119)
T cd07263 101 YGTVAVFRDPDGNLFVL 117 (119)
T ss_pred CceEEEEECCCCCEEEE
Confidence 35889999999987654
No 188
>cd03003 PDI_a_ERdj5_N PDIa family, N-terminal ERdj5 subfamily; ERdj5, also known as JPDI and macrothioredoxin, is a protein containing an N-terminal DnaJ domain and four redox active TRX domains. This subfamily is comprised of the first TRX domain of ERdj5 located after the DnaJ domain at the N-terminal half of the protein. ERdj5 is a ubiquitous protein localized in the endoplasmic reticulum (ER) and is abundant in secretory cells. It's transcription is induced during ER stress. It interacts with BiP through its DnaJ domain in an ATP-dependent manner. BiP, an ER-resident member of the Hsp70 chaperone family, functions in ER-associated degradation and protein translocation.
Probab=27.14 E-value=83 Score=17.61 Aligned_cols=36 Identities=17% Similarity=0.266 Sum_probs=22.7
Q ss_pred CCCce-eEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEE
Q psy13814 13 GDFPF-AIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLK 61 (75)
Q Consensus 13 ~~l~f-pLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~ 61 (75)
..+.| -+=+|.+..++++|++. ..++.+++ ++|+..
T Consensus 49 ~~~~~~~vd~~~~~~~~~~~~v~------------~~Pt~~~~-~~g~~~ 85 (101)
T cd03003 49 GVIRIGAVNCGDDRMLCRSQGVN------------SYPSLYVF-PSGMNP 85 (101)
T ss_pred CceEEEEEeCCccHHHHHHcCCC------------ccCEEEEE-cCCCCc
Confidence 34444 34467788999999883 23555555 678653
No 189
>cd08364 FosX FosX, a fosfomycin resistance protein, catalyzes the addition of a water molecule to the C1 position of the antibiotic with inversion of configuration at C1. This subfamily family contains FosX, a fosfomycin resistant protein. Fosfomycin inhibits the enzyme UDP-Nacetylglucosamine-3-enolpyruvyltransferase (MurA), which catalyzes the first committed step in bacterial cell wall biosynthesis. FosX catalyzes the addition of a water molecule to the C1 position of the antibiotic with inversion of the configuration at C1 in the presence of Mn(II). The hydrated fosfomycin loses the inhibition activity. FosX is evolutionarily related to glyoxalase I and type I extradiol dioxygenases.
Probab=27.14 E-value=98 Score=18.26 Aligned_cols=20 Identities=20% Similarity=0.087 Sum_probs=15.7
Q ss_pred cceeEEEECCCCcEEEEEEc
Q psy13814 47 TVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~ 66 (75)
..|+.|+-||+|........
T Consensus 103 ~g~~~yf~DPdG~~iEl~~~ 122 (131)
T cd08364 103 EGRSIYFYDFDNHLFELHTG 122 (131)
T ss_pred CceEEEEECCCCCEEEEecC
Confidence 35899999999997766543
No 190
>cd02975 PfPDO_like_N Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO)-like family, N-terminal TRX-fold subdomain; composed of proteins with similarity to PfPDO, a redox active thermostable protein believed to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI), which are both involved in oxidative protein folding. PfPDO contains two redox active CXXC motifs in two contiguous TRX-fold subdomains. The active site in the N-terminal TRX-fold subdomain is required for isomerase but not for reductase activity of PfPDO. The exclusive presence of PfPDO-like proteins in extremophiles may suggest that they have a special role in adaptation to extreme conditions.
Probab=26.95 E-value=1.4e+02 Score=17.50 Aligned_cols=30 Identities=20% Similarity=0.251 Sum_probs=20.3
Q ss_pred CceeEE-ecCchHHHHHcCCccccccCCcccCccceeEEEECC
Q psy13814 15 FPFAII-GDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGP 56 (75)
Q Consensus 15 l~fpLl-sD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~ 56 (75)
+.|-.+ .|.+.+++++||+. ..+++++.+.
T Consensus 54 i~~~~vd~d~~~~l~~~~~v~------------~vPt~~i~~~ 84 (113)
T cd02975 54 LKLEIYDFDEDKEKAEKYGVE------------RVPTTIFLQD 84 (113)
T ss_pred eEEEEEeCCcCHHHHHHcCCC------------cCCEEEEEeC
Confidence 455444 57788899999974 3466777654
No 191
>cd08352 Glo_EDI_BRP_like_1 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=26.88 E-value=89 Score=17.39 Aligned_cols=16 Identities=19% Similarity=0.129 Sum_probs=12.5
Q ss_pred ceeEEEECCCCcEEEE
Q psy13814 48 VRAVYIIGPDRKLKLS 63 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~ 63 (75)
.+..++.||+|.+..+
T Consensus 108 ~~~~~~~DP~G~~iEl 123 (125)
T cd08352 108 KRFTFFYDPDGLPLEL 123 (125)
T ss_pred eEEEEEECCCCCEEEe
Confidence 4678899999987654
No 192
>cd07261 Glo_EDI_BRP_like_11 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=26.85 E-value=88 Score=17.51 Aligned_cols=15 Identities=13% Similarity=0.098 Sum_probs=12.2
Q ss_pred eeEEEECCCCcEEEE
Q psy13814 49 RAVYIIGPDRKLKLS 63 (75)
Q Consensus 49 R~tFiId~dG~I~~~ 63 (75)
|..++.||||....+
T Consensus 98 ~~~~~~DPdGn~ie~ 112 (114)
T cd07261 98 YTFVALDPDGHRLRV 112 (114)
T ss_pred cEEEEECCCCCEEEe
Confidence 678999999987654
No 193
>cd02973 TRX_GRX_like Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All members contain a redox-active CXXC motif and may function as PDOs. The archaeal proteins Mj0307 and Mt807 show structures more similar to GRX, but activities more similar to TRX. Some members of the family are similar to PfPDO in that they contain a second CXXC motif located in a second TRX-fold subdomain at the N-terminus; the superimposable N- and C-terminal TRX subdomains form a compact structure. PfPDO is postulated to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI). The C-terminal CXXC motif of PfPDO is required for its oxidase, reductase and isomerase activities. Also included in the family is the C-terminal TRX-fold subdomain of the N-terminal domain (NTD) of bacteri
Probab=26.82 E-value=1e+02 Score=15.81 Aligned_cols=21 Identities=24% Similarity=0.346 Sum_probs=14.0
Q ss_pred CCceeEE-ecCchHHHHHcCCc
Q psy13814 14 DFPFAII-GDENRDLAVKLDLL 34 (75)
Q Consensus 14 ~l~fpLl-sD~~~~i~~~yGv~ 34 (75)
++.|-.+ .|.+.++++.||+.
T Consensus 30 ~i~~~~id~~~~~~l~~~~~i~ 51 (67)
T cd02973 30 NISAEMIDAAEFPDLADEYGVM 51 (67)
T ss_pred ceEEEEEEcccCHhHHHHcCCc
Confidence 4666555 34567889999873
No 194
>PRK00293 dipZ thiol:disulfide interchange protein precursor; Provisional
Probab=26.73 E-value=67 Score=24.71 Aligned_cols=27 Identities=7% Similarity=0.122 Sum_probs=20.7
Q ss_pred chHHHHHcCCccccccCCcccCccceeEEEECCCCcEEE
Q psy13814 24 NRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKL 62 (75)
Q Consensus 24 ~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~ 62 (75)
+.+++++||+. ..++++++|++|++..
T Consensus 523 ~~~l~~~~~v~------------g~Pt~~~~~~~G~~i~ 549 (571)
T PRK00293 523 DVALLKHYNVL------------GLPTILFFDAQGQEIP 549 (571)
T ss_pred hHHHHHHcCCC------------CCCEEEEECCCCCCcc
Confidence 35788888874 4578899999998753
No 195
>cd07582 nitrilase_4 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=26.43 E-value=86 Score=21.45 Aligned_cols=18 Identities=22% Similarity=0.455 Sum_probs=12.9
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..=+.++|+|+|.|...+
T Consensus 108 ~yNsa~~i~~~G~i~~~y 125 (294)
T cd07582 108 YFNTAFIIDPSGEIILRY 125 (294)
T ss_pred EEEEEEEECCCCcEEEEE
Confidence 345788899999876433
No 196
>PF14903 WG_beta_rep: WG containing repeat
Probab=26.38 E-value=69 Score=14.38 Aligned_cols=15 Identities=20% Similarity=0.319 Sum_probs=10.0
Q ss_pred EECCCCcEEEEEEcC
Q psy13814 53 IIGPDRKLKLSIVYP 67 (75)
Q Consensus 53 iId~dG~I~~~~~~~ 67 (75)
+||.+|++..-..|.
T Consensus 3 ~id~~G~~vi~~~yd 17 (35)
T PF14903_consen 3 YIDKNGKIVIPPKYD 17 (35)
T ss_pred EEeCCCCEEEEcccc
Confidence 678888876554443
No 197
>cd02998 PDI_a_ERp38 PDIa family, endoplasmic reticulum protein 38 (ERp38) subfamily; composed of proteins similar to the P5-like protein first isolated from alfalfa, which contains two redox active TRX (a) domains at the N-terminus, like human P5, and a C-terminal domain with homology to the C-terminal domain of ERp29, unlike human P5. The cDNA clone of this protein (named G1) was isolated from an alfalfa cDNA library by screening with human protein disulfide isomerase (PDI) cDNA. The G1 protein is constitutively expressed in all major organs of the plant and its expression is induced by treatment with tunicamycin, indicating that it may be a glucose-regulated protein. The G1 homolog in the eukaryotic social amoeba Dictyostelium discoideum is also described as a P5-like protein, which is located in the endoplasmic reticulum (ER) despite the absence of an ER-retrieval signal. G1 homologs from Aspergillus niger and Neurospora crassa have also been characterized, and are named TIGA and ER
Probab=26.35 E-value=92 Score=17.07 Aligned_cols=30 Identities=23% Similarity=0.251 Sum_probs=20.8
Q ss_pred EEecC-chHHHHHcCCccccccCCcccCccceeEEEECCCCcE
Q psy13814 19 IIGDE-NRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKL 60 (75)
Q Consensus 19 LlsD~-~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I 60 (75)
+=++. +..++++|++. ..++.+++++.|+.
T Consensus 58 id~~~~~~~~~~~~~i~------------~~P~~~~~~~~~~~ 88 (105)
T cd02998 58 VDADEANKDLAKKYGVS------------GFPTLKFFPKGSTE 88 (105)
T ss_pred EECCCcchhhHHhCCCC------------CcCEEEEEeCCCCC
Confidence 33455 67899999873 35778888776643
No 198
>cd08354 Glo_EDI_BRP_like_13 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=25.92 E-value=1e+02 Score=17.21 Aligned_cols=18 Identities=28% Similarity=0.335 Sum_probs=14.1
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..+..++-||+|.+....
T Consensus 103 ~~~~~~~~DP~G~~ie~~ 120 (122)
T cd08354 103 GGRSLYFRDPDGNLLELA 120 (122)
T ss_pred CeeEEEEECCCCCEEEEe
Confidence 457899999999876543
No 199
>PRK14569 D-alanyl-alanine synthetase A; Provisional
Probab=25.67 E-value=1.9e+02 Score=19.89 Aligned_cols=25 Identities=8% Similarity=0.077 Sum_probs=21.3
Q ss_pred ccceeEEEECCCCcEEEEEEcCCCC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYPAST 70 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~~~~ 70 (75)
...|.=|++|++|.+....+||.+-
T Consensus 242 G~~rvD~~~~~~g~~~vlEIN~~Pg 266 (296)
T PRK14569 242 GHARVDFIYDDRGNFYIMEINSSPG 266 (296)
T ss_pred eEEEEEEEEcCCCCEEEEEeeCCCC
Confidence 3678889999999999999998763
No 200
>cd07262 Glo_EDI_BRP_like_19 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=25.39 E-value=1.3e+02 Score=17.08 Aligned_cols=17 Identities=24% Similarity=0.262 Sum_probs=13.2
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
..++.++-||+|.+..+
T Consensus 105 ~~~~~~~~DPdG~~ie~ 121 (123)
T cd07262 105 GYYAAYVRDPDGNKIEA 121 (123)
T ss_pred CeEEEEEECCCCCEEEE
Confidence 34678999999987654
No 201
>cd07256 HPCD_C_class_II C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases. This subfamily contains the C-terminal, catalytic, domain of HPCD. HPCD catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate. The aromatic ring of 4-hydroxyphenylacetate is opened by this dioxygenase to yield the 3,4-diol product, 2-hydroxy-5-carboxymethylmuconate semialdehyde. HPCD is a homotetramer and each monomer contains two structurally homologous barrel-shaped domains at the N- and C-terminus. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism. Most extradiol dioxygenases contain Fe(II) in their active site, but HPCD can be activated by either Mn(II) or Fe(II). These enzymes belong to the type I class II family of
Probab=25.32 E-value=1.2e+02 Score=18.70 Aligned_cols=20 Identities=15% Similarity=0.041 Sum_probs=15.1
Q ss_pred ceeEEEECCCCcEEEEEEcC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~ 67 (75)
.+..|+-||+|.+...+..+
T Consensus 105 ~~~~y~~DPdG~~iEl~~~~ 124 (161)
T cd07256 105 AFFLYLRDPDGHRIEIYTGD 124 (161)
T ss_pred ceEEEEECCCCCeEEEeecC
Confidence 45688999999987765433
No 202
>cd02959 ERp19 Endoplasmic reticulum protein 19 (ERp19) family; ERp19 is also known as ERp18, a protein located in the ER containing one redox active TRX domain. Denaturation studies indicate that the reduced form is more stable than the oxidized form, suggesting that the protein is involved in disulfide bond formation. In vitro, ERp19 has been shown to possess thiol-disulfide oxidase activity which is dependent on the presence of both active site cysteines. Although described as protein disulfide isomerase (PDI)-like, the protein does not complement for PDI activity. ERp19 shows a wide tissue distribution but is most abundant in liver, testis, heart and kidney.
Probab=25.23 E-value=48 Score=19.81 Aligned_cols=17 Identities=6% Similarity=0.288 Sum_probs=14.2
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
..++++++|++|++...
T Consensus 76 ~vPt~~f~~~~Gk~~~~ 92 (117)
T cd02959 76 YIPRILFLDPSGDVHPE 92 (117)
T ss_pred ccceEEEECCCCCCchh
Confidence 37899999999998664
No 203
>PLN02504 nitrilase
Probab=25.21 E-value=1.6e+02 Score=21.05 Aligned_cols=18 Identities=11% Similarity=0.038 Sum_probs=13.0
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..=+.++|+|+|.|...+
T Consensus 133 ~yNsa~~i~~~G~i~~~y 150 (346)
T PLN02504 133 LYCTVLFFDPQGQYLGKH 150 (346)
T ss_pred eEEEEEEECCCCCEEeEE
Confidence 345678899999886443
No 204
>PRK13286 amiE acylamide amidohydrolase; Provisional
Probab=25.14 E-value=91 Score=22.41 Aligned_cols=18 Identities=6% Similarity=0.134 Sum_probs=13.4
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..=+.++|+|+|+|...+
T Consensus 115 ~yNta~vi~~~G~i~~~Y 132 (345)
T PRK13286 115 PYNTLILINDKGEIVQKY 132 (345)
T ss_pred eeEEEEEECCCCeEEEEE
Confidence 445889999999875443
No 205
>PF01565 FAD_binding_4: FAD binding domain This is only a subset of the Pfam family; InterPro: IPR006094 Various enzymes use FAD as a co-factor, most of these enzymes are oxygen-dependent oxidoreductases, containing a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. One of the enzymes Vanillyl-alcohol oxidase (VAO, 1.1.3.38 from EC) has a solved structure, the alignment includes the FAD binding site, called the PP-loop, between residues 99-110 []. The FAD molecule is covalently bound in the known structure, however the residue that links to the FAD is not in the alignment. VAO catalyses the oxidation of a wide variety of substrates, ranging from aromatic amines to 4-alkylphenols. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZR6_A 3HSU_A 2AXR_A 3D2J_A 3D2H_A 3FW9_A 3FW8_A 3FW7_A 3GSY_A 3FWA_A ....
Probab=24.98 E-value=1.4e+02 Score=17.72 Aligned_cols=17 Identities=18% Similarity=0.169 Sum_probs=13.3
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
...+.-+++++|+++..
T Consensus 122 ~v~~~~~V~~~G~v~~~ 138 (139)
T PF01565_consen 122 NVLSVEVVLADGEVVRC 138 (139)
T ss_dssp GEEEEEEEETTSSEEEE
T ss_pred eEEEEEEEcCCCcEEEe
Confidence 45677778899999875
No 206
>PF13359 DDE_Tnp_4: DDE superfamily endonuclease
Probab=24.86 E-value=79 Score=19.25 Aligned_cols=20 Identities=15% Similarity=0.320 Sum_probs=16.1
Q ss_pred ccceeEEEECCCCcEEEEEE
Q psy13814 46 ITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~ 65 (75)
...-...++|++|+|.++..
T Consensus 28 ~~~~~q~v~d~~g~i~~v~~ 47 (158)
T PF13359_consen 28 HSLKVQIVCDPDGRIIYVSV 47 (158)
T ss_pred ceEeEEEEEeccceeEeeec
Confidence 35677789999999998776
No 207
>smart00594 UAS UAS domain.
Probab=24.81 E-value=1.1e+02 Score=18.23 Aligned_cols=25 Identities=20% Similarity=0.246 Sum_probs=18.8
Q ss_pred cCchHHHHHcCCccccccCCcccCccceeEEEECCCC
Q psy13814 22 DENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDR 58 (75)
Q Consensus 22 D~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG 58 (75)
....+++.+|++. ..+...++||.|
T Consensus 73 ~eg~~l~~~~~~~------------~~P~~~~l~~~~ 97 (122)
T smart00594 73 SEGQRVSQFYKLD------------SFPYVAIVDPRT 97 (122)
T ss_pred hhHHHHHHhcCcC------------CCCEEEEEecCC
Confidence 3456788888773 458899999997
No 208
>PRK10819 transport protein TonB; Provisional
Probab=24.71 E-value=1.2e+02 Score=20.96 Aligned_cols=21 Identities=10% Similarity=0.151 Sum_probs=17.4
Q ss_pred ccceeEEEECCCCcEEEEEEc
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~ 66 (75)
...+..|.||++|+|..+.+-
T Consensus 181 G~V~V~f~I~~~G~V~~v~V~ 201 (246)
T PRK10819 181 GQVKVKFDVDEDGRVDNVRIL 201 (246)
T ss_pred eEEEEEEEECCCCCEEEEEEe
Confidence 467888999999999887763
No 209
>cd08349 BLMA_like Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm. BLMA also called Bleomycin resistance protein, confers Bm resistance by directly binding to Bm. Bm is a glycopeptide antibiotic produced naturally by actinomycetes. It is a potent anti-cancer drug, which acts as a strong DNA-cutting agent, thereby causing cell death. BLMA is produced by actinomycetes to protect themselves against their own lethal compound. BLMA has two identically-folded subdomains, with the same alpha/beta fold; these two halves have no sequence similarity. BLMAs are dimers and each dimer binds to two Bm molecules at the Bm-binding pockets formed at the dimer interface; two Bm molecules are bound per dimer. BLMA belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. As for the large
Probab=24.68 E-value=1e+02 Score=16.93 Aligned_cols=16 Identities=25% Similarity=0.329 Sum_probs=12.9
Q ss_pred cceeEEEECCCCcEEE
Q psy13814 47 TVRAVYIIGPDRKLKL 62 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~ 62 (75)
..|..++-||+|....
T Consensus 94 g~~~~~~~DP~G~~ie 109 (112)
T cd08349 94 GMREFAVRDPDGNLLR 109 (112)
T ss_pred ccEEEEEECCCCCEEE
Confidence 3588999999998654
No 210
>cd08362 BphC5-RrK37_N_like N-terminal, non-catalytic, domain of BphC5 (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Rhodococcus rhodochrous K37, and similar proteins. 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC) catalyzes the extradiol ring cleavage reaction of 2,3-dihydroxybiphenyl, the third step in the polychlorinated biphenyls (PCBs) degradation pathway (bph pathway). The enzyme contains a N-terminal and a C-terminal domain of similar structure fold, resulting from an ancient gene duplication. BphC belongs to the type I extradiol dioxygenase family, which requires a metal in the active site for its catalytic activity. Polychlorinated biphenyl degrading bacteria demonstrate multiplicity of BphCs. Bacterium Rhodococcus rhodochrous K37 has eight genes encoding BphC enzymes. This family includes the N-terminal domain of BphC5-RrK37. The crystal structure of the protein from Novosphingobium aromaticivorans has a Mn(II)in the active site, although most proteins of type I extradiol dioxyge
Probab=24.35 E-value=1.4e+02 Score=16.66 Aligned_cols=18 Identities=17% Similarity=0.084 Sum_probs=14.3
Q ss_pred ceeEEEECCCCcEEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~ 65 (75)
.+..++.||+|.....+.
T Consensus 99 ~~~~~~~DP~G~~iel~~ 116 (120)
T cd08362 99 GYGFRFFDPDGRLIEFSA 116 (120)
T ss_pred ceEEEEECCCCCEEEEEe
Confidence 577899999998776654
No 211
>PTZ00051 thioredoxin; Provisional
Probab=24.35 E-value=1.4e+02 Score=16.40 Aligned_cols=39 Identities=13% Similarity=0.166 Sum_probs=25.4
Q ss_pred Cce-eEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 15 FPF-AIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 15 l~f-pLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
+.| .+=.|....++++|++. ..++ |++-.+|++.....-
T Consensus 50 ~~~~~vd~~~~~~~~~~~~v~------------~~Pt-~~~~~~g~~~~~~~G 89 (98)
T PTZ00051 50 MVFVKVDVDELSEVAEKENIT------------SMPT-FKVFKNGSVVDTLLG 89 (98)
T ss_pred cEEEEEECcchHHHHHHCCCc------------eeeE-EEEEeCCeEEEEEeC
Confidence 454 33345567899999984 2233 556689998876654
No 212
>PF04486 SchA_CurD: SchA/CurD like domain; InterPro: IPR007575 Proteins having this domain have been identified mainly in species of the Streptomyces genus. Two of them are known to be part of gene clusters involved in the synthesis of polyketide-based spore pigments, homologous to clusters involved in the synthesis of polyketide antibiotics. Their function is unknown, but they has been speculated to contain a NAD(P) binding site []. Many of these proteins contain two copies of the domain.
Probab=24.14 E-value=1.8e+02 Score=18.03 Aligned_cols=54 Identities=11% Similarity=0.100 Sum_probs=34.6
Q ss_pred CCCceeEEecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEc
Q psy13814 13 GDFPFAIIGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 13 ~~l~fpLlsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~ 66 (75)
+-|.||+=.....++++.+--............-..|+|.++=.|-+||.+.+.
T Consensus 4 hALtypvkpG~g~~vA~llA~~~~~~a~~d~~~~l~~TtvF~~dd~VVR~vdv~ 57 (114)
T PF04486_consen 4 HALTYPVKPGSGDAVARLLASYQDPAAAGDPATRLLRTTVFQRDDRVVRVVDVE 57 (114)
T ss_pred EEEEeecCCCcHHHHHHHHccCCChhhccCCCCceEEEEEEEECCEEEEEEEec
Confidence 457889988888999998873332222222223456666666667788877664
No 213
>TIGR03421 FeS_CyaY iron donor protein CyaY. Members of this protein family are the iron-sulfur cluster (FeS) metabolism protein CyaY, a homolog of eukaryotic frataxin. ISC is one of several bacterial systems for FeS assembly; we find by Partial Phylogenetic Profiling vs. the ISC system that CyaY most like work with the ISC system for FeS cluster biosynthesis. A study of of cyaY mutants in Salmonella enterica bears this out. Although the trusted cutoff is set low enough to include eukaryotic frataxin sequences, a narrower, exception-type model (TIGR03421) identifies identifies members of that specific set.
Probab=24.03 E-value=54 Score=19.67 Aligned_cols=29 Identities=17% Similarity=0.099 Sum_probs=23.1
Q ss_pred ccceeEEEECCCCcEEEEEEcCCCCCCCC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYPASTGRSV 74 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~~~~GRn~ 74 (75)
+..+++|||++.--.+.+|+..++-|-.+
T Consensus 40 f~~~~~~VINkQ~p~~QIWlaspsG~~hF 68 (102)
T TIGR03421 40 FENGSQIIINKQEPLHQIWLAAKSGGFHF 68 (102)
T ss_pred ECCCCEEEEeCCchhhhheeecCCCCccc
Confidence 45699999999999999998877666443
No 214
>cd07565 aliphatic_amidase aliphatic amidases (class 2 nitrilases). Aliphatic amidases catalyze the hydrolysis of short-chain aliphatic amides to form ammonia and the corresponding organic acid. This group includes Pseudomonas aeruginosa (Pa) AmiE, the amidase from Geobacillus pallidus RAPc8 (RAPc8 amidase), and Helicobacter pylori (Hp) AmiE and AmiF. PaAimE and HpAmiE hydrolyze various very short aliphatic amides, including propionamide, acetamide and acrylamide. HpAmiF is a formamidase which specifically hydrolyzes formamide. These proteins belong to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 2. Members of this superfamily generally form homomeric complexes, the basic
Probab=24.00 E-value=1e+02 Score=21.24 Aligned_cols=17 Identities=18% Similarity=0.241 Sum_probs=12.5
Q ss_pred ceeEEEECCCCcEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~ 64 (75)
.=+.++|+|+|.|...+
T Consensus 102 yNsa~~i~~~G~i~~~Y 118 (291)
T cd07565 102 YNTAIIIDDQGEIVLKY 118 (291)
T ss_pred EEEEEEECCCCcEEEEE
Confidence 45678999999875443
No 215
>cd07567 biotinidase_like biotinidase and vanins (class 4 nitrilases). These secondary amidases participate in vitamin recycling. Biotinidase (EC 3.5.1.12) has both a hydrolase and a transferase activity. It hydrolyzes free biocytin or small biotinyl-peptides produced during the proteolytic degradation of biotin-dependent carboxylases, to release free biotin (vitamin H), and it can transfer biotin to acceptor molecules such as histones. Biotinidase deficiency in humans is an autosomal recessive disorder characterized by neurological and cutaneous symptoms. This subgroup includes the three human vanins, vanin1-3. Vanins are ectoenzymes, Vanin-1, and -2 are membrane associated, vanin-3 is secreted. They are pantotheinases (EC 3.5.1.92, pantetheine hydrolase), which convert pantetheine, to pantothenic acid (vitamin B5) and cysteamine (2-aminoethanethiol, a potent anti-oxidant). They are potential targets for therapeutic intervention in inflammatory disorders. Vanin-1 deficient mice lacking
Probab=23.91 E-value=70 Score=22.49 Aligned_cols=17 Identities=12% Similarity=0.083 Sum_probs=12.8
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
..=++|+|+|+|.|...
T Consensus 128 ~yNsa~vi~~~G~iv~~ 144 (299)
T cd07567 128 QYNTNVVFDRDGTLIAR 144 (299)
T ss_pred eeEEEEEEcCCCCccce
Confidence 34578999999987543
No 216
>PRK04101 fosfomycin resistance protein FosB; Provisional
Probab=23.75 E-value=1.3e+02 Score=17.87 Aligned_cols=20 Identities=15% Similarity=0.139 Sum_probs=16.1
Q ss_pred cceeEEEECCCCcEEEEEEc
Q psy13814 47 TVRAVYIIGPDRKLKLSIVY 66 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~ 66 (75)
..++.|+-||||.+......
T Consensus 100 ~~~~~~~~DPdGn~iEl~~~ 119 (139)
T PRK04101 100 DKKSIYFTDPDGHKFEFHTG 119 (139)
T ss_pred CceEEEEECCCCCEEEEEeC
Confidence 45899999999998776543
No 217
>PF09631 Sen15: Sen15 protein; InterPro: IPR018593 The Sen15 subunit of the tRNA intron-splicing endonuclease is one of the two structural subunits of this heterotetrameric enzyme. Residues 36-157 of this subunit possess a novel homodimeric fold. Each monomer consists of three alpha-helices and a mixed antiparallel/parallel beta-sheet. Two monomers of Sen15 fold with two monomers of Sen34, one of the two catalytic subunits, to form an alpha2-beta2 tetramer as part of the functional endonuclease assembly []. ; PDB: 2GW6_B.
Probab=23.57 E-value=85 Score=18.45 Aligned_cols=20 Identities=15% Similarity=0.172 Sum_probs=12.1
Q ss_pred ceeE-EEECCCCcEEEEEEcC
Q psy13814 48 VRAV-YIIGPDRKLKLSIVYP 67 (75)
Q Consensus 48 ~R~t-FiId~dG~I~~~~~~~ 67 (75)
.|-+ =|+|.||+|.+..++.
T Consensus 73 ~ri~LAiv~~DsTiVYY~i~~ 93 (101)
T PF09631_consen 73 KRILLAIVDDDSTIVYYKIHD 93 (101)
T ss_dssp -EEEEEEE-TTS-EEEEEEE-
T ss_pred cEEEEEEEcCCCCEEEEEEeC
Confidence 4444 3679999999988765
No 218
>cd03026 AhpF_NTD_C TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then reduces hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD containing two contiguous TRX-fold subdomains similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The catalytic CXXC motif of the NTD of AhpF is contained in its C-terminal TRX subdomain.
Probab=23.56 E-value=1.3e+02 Score=17.10 Aligned_cols=21 Identities=10% Similarity=0.150 Sum_probs=14.1
Q ss_pred CCceeEEe-cCchHHHHHcCCc
Q psy13814 14 DFPFAIIG-DENRDLAVKLDLL 34 (75)
Q Consensus 14 ~l~fpLls-D~~~~i~~~yGv~ 34 (75)
++.|-.+- |...++++.||+.
T Consensus 43 ~i~~~~vd~~~~~e~a~~~~V~ 64 (89)
T cd03026 43 NIEHEMIDGALFQDEVEERGIM 64 (89)
T ss_pred CceEEEEEhHhCHHHHHHcCCc
Confidence 46666654 2445789999985
No 219
>cd07570 GAT_Gln-NAD-synth Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases). Glutamine-dependent NAD synthetases are bifunctional enzymes, which have an N-terminal GAT domain and a C-terminal NAD+ synthetase domain. The GAT domain is a glutaminase (EC 3.5.1.2) which hydrolyses L-glutamine to L-glutamate and ammonia. The ammonia is used by the NAD+ synthetase domain in the ATP-dependent amidation of nicotinic acid adenine dinucleotide. Glutamine aminotransferases are categorized depending on their active site residues into different unrelated classes. This class of GAT domain belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this sub
Probab=23.50 E-value=80 Score=20.92 Aligned_cols=15 Identities=20% Similarity=0.264 Sum_probs=12.2
Q ss_pred eeEEEECCCCcEEEE
Q psy13814 49 RAVYIIGPDRKLKLS 63 (75)
Q Consensus 49 R~tFiId~dG~I~~~ 63 (75)
=.+.|+||+|+|...
T Consensus 213 G~S~ii~p~G~vl~~ 227 (261)
T cd07570 213 GGSFIADNDGELLAE 227 (261)
T ss_pred CceEEEcCCCCEEEe
Confidence 457999999998765
No 220
>cd07568 ML_beta-AS_like mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases). This family includes mammalian-like beta-AS (EC 3.5.1.6, also known as beta-ureidopropionase or N-carbamoyl-beta-alanine amidohydrolase). This enzyme catalyzes the third and final step in the catabolic pyrimidine catabolic pathway responsible for the degradation of uracil and thymine, the hydrolysis of N-carbamyl-beta-alanine and N-carbamyl-beta-aminoisobutyrate to the beta-amino acids, beta-alanine and beta-aminoisobutyrate respectively. This family belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 5. Members of this superfamily generally form homomeric
Probab=23.50 E-value=93 Score=20.99 Aligned_cols=15 Identities=13% Similarity=0.058 Sum_probs=11.6
Q ss_pred ceeEEEECCCCcEEE
Q psy13814 48 VRAVYIIGPDRKLKL 62 (75)
Q Consensus 48 ~R~tFiId~dG~I~~ 62 (75)
.=+.++|+|+|.|..
T Consensus 107 yNs~~~i~~~G~i~~ 121 (287)
T cd07568 107 YNTAAVIDADGTYLG 121 (287)
T ss_pred EEEEEEECCCCcEee
Confidence 456789999998753
No 221
>PF01217 Clat_adaptor_s: Clathrin adaptor complex small chain; InterPro: IPR022775 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the small sigma and mu subunits of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and the zeta and delta subunits of various coatomer (COP) adaptors. The small sigma subunit of AP proteins have been characterised in several species [, , , ]. The sigma subunit plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The zeta subunit of coatomers (zeta-COP) is required for coatomer binding to Golgi membranes and for coat-vesicle assembly [, ]. More information about these proteins can be found at Protein of the Month: Clathrin [].; PDB: 1W63_W 2JKR_I 2VGL_S 2JKT_I 2XA7_S 2HF6_A 3TJZ_C.
Probab=23.45 E-value=1.2e+02 Score=18.53 Aligned_cols=19 Identities=32% Similarity=0.431 Sum_probs=16.8
Q ss_pred eeEEEECCCCcEEEEEEcC
Q psy13814 49 RAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 49 R~tFiId~dG~I~~~~~~~ 67 (75)
.+.||+|.+|+++.+-.|.
T Consensus 3 ~~i~i~n~~G~~i~~k~y~ 21 (141)
T PF01217_consen 3 KAILILNSQGKRILSKYYR 21 (141)
T ss_dssp EEEEEEETTSEEEEEEESS
T ss_pred EEEEEEcCCCCEEEehhcC
Confidence 6889999999999988884
No 222
>cd07581 nitrilase_3 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=23.40 E-value=1e+02 Score=20.30 Aligned_cols=18 Identities=17% Similarity=0.438 Sum_probs=13.7
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
..=+.++|+++|.|...+
T Consensus 90 ~yNs~~~i~~~G~i~~~y 107 (255)
T cd07581 90 VYNTLVVVGPDGEIIAVY 107 (255)
T ss_pred EEEeEEEECCCCcEEEEE
Confidence 457788999999876544
No 223
>PF08445 FR47: FR47-like protein; InterPro: IPR013653 Proteins in this entry have a conserved region similar to the C-terminal region of the Drosophila melanogaster (Fruit fly) hypothetical protein FR47 (Q9VR51 from SWISSPROT). This protein has been found to consist of two N-acyltransferase-like domains swapped with the C-terminal strands. ; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups; PDB: 1SQH_A 3EC4_B.
Probab=23.29 E-value=1.2e+02 Score=17.03 Aligned_cols=27 Identities=19% Similarity=0.158 Sum_probs=20.0
Q ss_pred cceeEEEECCCCcEEEEEEcCCCCCCC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYPASTGRS 73 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~~~~GRn 73 (75)
..=+-.+..++|.|..++..|...||-
T Consensus 11 ~l~~~~~~~~~g~i~~v~t~p~~RrrG 37 (86)
T PF08445_consen 11 ALVAWIIRSDDGEIGGVYTLPEHRRRG 37 (86)
T ss_dssp EEEEEEEESCTCCEEEEEE-GGGTTSS
T ss_pred ceeeEeeeCCCcEEEEEEECHHHcCCC
Confidence 344555678889999999999888773
No 224
>cd04667 Nudix_Hydrolase_10 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate
Probab=23.09 E-value=1e+02 Score=17.64 Aligned_cols=18 Identities=22% Similarity=0.104 Sum_probs=14.1
Q ss_pred ceeEEEECCCCcEEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~ 65 (75)
.|++.|+..+++|..+..
T Consensus 1 ~~a~~i~~~~~~vLlv~r 18 (112)
T cd04667 1 ERATVICRRGGRVLLVRK 18 (112)
T ss_pred CceEEEEecCCEEEEEEc
Confidence 388889888888877654
No 225
>TIGR03211 catechol_2_3 catechol 2,3 dioxygenase. Members of this family all are enzymes active as catechol 2,3 dioxygenase (1.13.11.2), although some members have highly significant activity on catechol derivatives such as 3-methylcatechol, 3-chlorocatechol, and 4-chlorocatechol (see Mars, et al.). This enzyme is also called metapyrocatechase, as it performs a meta-cleavage (an extradiol ring cleavage), in contrast to the ortho-cleavage (intradiol ring cleavage)performed by catechol 1,2-dioxygenase (EC 1.13.11.1), also called pyrocatechase.
Probab=23.05 E-value=1.5e+02 Score=20.09 Aligned_cols=24 Identities=17% Similarity=-0.007 Sum_probs=18.9
Q ss_pred ceeEEEECCCCcEEEEEEcCCCCC
Q psy13814 48 VRAVYIIGPDRKLKLSIVYPASTG 71 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~~~~~~G 71 (75)
.++.++.||+|....+.......+
T Consensus 100 g~~~~~~DPdG~~iEl~~~~~~~~ 123 (303)
T TIGR03211 100 GRRVRFTLPSGHTMELYAEKEYVG 123 (303)
T ss_pred ceEEEEECCCCCEEEEEEcccccc
Confidence 478899999999988887665543
No 226
>PRK06019 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed
Probab=22.95 E-value=2.3e+02 Score=20.23 Aligned_cols=25 Identities=12% Similarity=0.218 Sum_probs=20.7
Q ss_pred ccceeEEEECCCCcEEEEEEcCCCC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYPAST 70 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~~~~ 70 (75)
...+.=|+++++|.+....++|..-
T Consensus 244 G~~~vEff~~~dg~~~v~EinpR~~ 268 (372)
T PRK06019 244 GVLAVEFFVTGDGELLVNEIAPRPH 268 (372)
T ss_pred ceeEEEEEEcCCCeEEEEEecCCcc
Confidence 3567889999999999999999754
No 227
>PF07478 Dala_Dala_lig_C: D-ala D-ala ligase C-terminus; InterPro: IPR011095 This entry represents the C-terminal, catalytic domain of the D-alanine--D-alanine ligase enzyme 6.3.2.4 from EC. 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; PDB: 3Q1K_D 3I12_C 1IOV_A 1IOW_A 2DLN_A 4EG0_B 3LWB_A 1EHI_B 2FB9_A 3V4Z_A ....
Probab=22.87 E-value=2e+02 Score=18.89 Aligned_cols=23 Identities=13% Similarity=0.085 Sum_probs=20.1
Q ss_pred cceeEEEECCCCcEEEEEEcCCC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~~~ 69 (75)
..|.=|.+|++|++....+|+.+
T Consensus 153 ~~RiD~rv~~~g~~~~lEiNt~P 175 (203)
T PF07478_consen 153 YARIDFRVDEDGKPYFLEINTIP 175 (203)
T ss_dssp EEEEEEEEETTTEEEEEEEESS-
T ss_pred ceeEEEEeccCCceEEEeccCcc
Confidence 67999999999999999998864
No 228
>TIGR01161 purK phosphoribosylaminoimidazole carboxylase, PurK protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, N5-carboxyaminoimidazole ribonucleotide synthetase, which hydrolyzes ATP and converts AIR to N5-CAIR. PurE converts N5-CAIR to CAIR. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP.
Probab=22.83 E-value=2.2e+02 Score=19.98 Aligned_cols=25 Identities=16% Similarity=0.223 Sum_probs=20.8
Q ss_pred ccceeEEEECCCCcEEEEEEcCCCC
Q psy13814 46 ITVRAVYIIGPDRKLKLSIVYPAST 70 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~~~~~~ 70 (75)
.+.+.=|+++++|.+....++|..-
T Consensus 242 G~~~ve~~~~~dg~~~v~EinpR~~ 266 (352)
T TIGR01161 242 GVLAVEMFVLPDGRLLINELAPRVH 266 (352)
T ss_pred eEEEEEEEEeCCCcEEEEEecCCCC
Confidence 3677889999999999889998754
No 229
>TIGR00229 sensory_box PAS domain S-box. The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator.
Probab=22.71 E-value=1.1e+02 Score=14.99 Aligned_cols=14 Identities=14% Similarity=0.285 Sum_probs=11.3
Q ss_pred eEEEECCCCcEEEE
Q psy13814 50 AVYIIGPDRKLKLS 63 (75)
Q Consensus 50 ~tFiId~dG~I~~~ 63 (75)
+.+++|++|.|.+.
T Consensus 15 ~~~~~d~~~~i~~~ 28 (124)
T TIGR00229 15 AIIVIDLEGNILYV 28 (124)
T ss_pred eEEEEcCCCcEEEE
Confidence 67889999988764
No 230
>cd06583 PGRP Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20 kDa) extracellular proteins; intermediate PGRPs (PGRP-I) that are 40-45 kDa and are predicted to be transmembrane proteins; and long PGRPs (PGRP-L), up to 90 kDa, which may be either intracellular or transmembrane. Several structures of PGRPs are known in insects and mammals, some bound with substrates like Muramyl Tripeptide (MTP) or Tracheal Cytotoxin (TCT). The substrate binding site is conserved in PGRP-LCx, PGRP-LE, and PGRP-Ialpha proteins. This family includes Zn-dependent N-Acetylmuramoyl-L-alanine Amidase, EC:3.5.1.28. This enzyme cleaves the amide bond between N-acetylmuramoyl and L-amino acids, preferentially D-lactyl-L-Ala, in bacterial cell walls. The structure for the bacteriophage T7 lysozyme shows that two of
Probab=22.67 E-value=80 Score=18.33 Aligned_cols=17 Identities=12% Similarity=0.405 Sum_probs=12.9
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
..-.-|+||.+|.|...
T Consensus 35 ~~~~H~~I~~~G~i~q~ 51 (126)
T cd06583 35 DISYHFLVGGDGRIYQG 51 (126)
T ss_pred CcCceEEEcCCCEEEEE
Confidence 34578999999977554
No 231
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=22.67 E-value=91 Score=15.78 Aligned_cols=14 Identities=14% Similarity=0.309 Sum_probs=10.0
Q ss_pred eeEEEECCCCcEEEE
Q psy13814 49 RAVYIIGPDRKLKLS 63 (75)
Q Consensus 49 R~tFiId~dG~I~~~ 63 (75)
=+++++| +++|.++
T Consensus 12 ~~i~i~d-~~~i~~~ 25 (64)
T PF13188_consen 12 DGILIID-GGRIIYV 25 (64)
T ss_dssp SEEEEEE-TSBEEEE
T ss_pred cceEEEE-CCChHHh
Confidence 3778899 8866654
No 232
>PRK10438 C-N hydrolase family amidase; Provisional
Probab=22.42 E-value=85 Score=21.08 Aligned_cols=15 Identities=20% Similarity=0.313 Sum_probs=12.4
Q ss_pred eeEEEECCCCcEEEE
Q psy13814 49 RAVYIIGPDRKLKLS 63 (75)
Q Consensus 49 R~tFiId~dG~I~~~ 63 (75)
=.++|+||+|.|...
T Consensus 205 G~S~ivdP~G~vl~~ 219 (256)
T PRK10438 205 GDSRIINPQGEIIAT 219 (256)
T ss_pred CceEEECCCCcEEEE
Confidence 468999999998765
No 233
>cd07566 ScNTA1_like Saccharomyces cerevisiae N-terminal amidase NTA1, and related proteins (class 3 nitrilases). Saccharomyces cerevisiae NTA1 functions in the N-end rule protein degradation pathway. It specifically deaminates the N-terminal asparagine and glutamine residues of substrates of this pathway, to aspartate and glutamate respectively, these latter are the destabilizing residues. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 3.
Probab=22.40 E-value=1e+02 Score=21.47 Aligned_cols=39 Identities=10% Similarity=0.179 Sum_probs=20.5
Q ss_pred hHHHHHcCCcccccc---CCcccCccceeEEEECCCCcEEEE
Q psy13814 25 RDLAVKLDLLDEENK---NNLETAITVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 25 ~~i~~~yGv~~~~~~---~~~~~~~~~R~tFiId~dG~I~~~ 63 (75)
.++|+.++++---.. ...+.....=+.++|+|+|.|...
T Consensus 75 ~~lAk~~~i~Iv~G~~e~~~~~~~~~yNta~vi~~~G~ii~~ 116 (295)
T cd07566 75 REVAKKFNCHVVIGYPEKVDESSPKLYNSALVVDPEGEVVFN 116 (295)
T ss_pred HHHHHhcCCEEEEeeeEecCCCCCceEEEEEEEcCCCeEEEE
Confidence 367888876421000 000001233567899999987543
No 234
>cd07264 Glo_EDI_BRP_like_15 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=22.30 E-value=1.4e+02 Score=16.85 Aligned_cols=17 Identities=12% Similarity=-0.031 Sum_probs=13.1
Q ss_pred ceeEEEECCCCcEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~ 64 (75)
.|..++-||+|....+.
T Consensus 107 ~~~~~~~DPdG~~~~~~ 123 (125)
T cd07264 107 QTVAYVRDINGFLIELC 123 (125)
T ss_pred cEEEEEECCCCCEEEEe
Confidence 47789999999876543
No 235
>cd03001 PDI_a_P5 PDIa family, P5 subfamily; composed of eukaryotic proteins similar to human P5, a PDI-related protein with a domain structure of aa'b (where a and a' are redox active TRX domains and b is a redox inactive TRX-like domain). Like PDI, P5 is located in the endoplasmic reticulum (ER) and displays both isomerase and chaperone activities, which are independent of each other. Compared to PDI, the isomerase and chaperone activities of P5 are lower. The first cysteine in the CXXC motif of both redox active domains in P5 is necessary for isomerase activity. The P5 gene was first isolated as an amplified gene from a hydroxyurea-resistant hamster cell line. The zebrafish P5 homolog has been implicated to play a critical role in establishing left/right asymmetries in the embryonic midline. Some members of this subfamily are P5-like proteins containing only one redox active TRX domain.
Probab=22.28 E-value=1.5e+02 Score=16.22 Aligned_cols=33 Identities=15% Similarity=0.221 Sum_probs=21.6
Q ss_pred CCCceeE-EecCchHHHHHcCCccccccCCcccCccceeEEEECCC
Q psy13814 13 GDFPFAI-IGDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPD 57 (75)
Q Consensus 13 ~~l~fpL-lsD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~d 57 (75)
..+.|-. -.|.+.+++++||+. ..++++++++.
T Consensus 49 ~~~~~~~id~~~~~~~~~~~~i~------------~~P~~~~~~~~ 82 (103)
T cd03001 49 GIVKVGAVDADVHQSLAQQYGVR------------GFPTIKVFGAG 82 (103)
T ss_pred CCceEEEEECcchHHHHHHCCCC------------ccCEEEEECCC
Confidence 3444433 356788999999983 34667788654
No 236
>PF11347 DUF3148: Protein of unknown function (DUF3148); InterPro: IPR021495 This family of proteins has no known function.
Probab=21.87 E-value=56 Score=18.27 Aligned_cols=11 Identities=18% Similarity=0.422 Sum_probs=8.6
Q ss_pred cceeEEEECCC
Q psy13814 47 TVRAVYIIGPD 57 (75)
Q Consensus 47 ~~R~tFiId~d 57 (75)
-.|+||+||.+
T Consensus 51 f~~GtfLid~~ 61 (63)
T PF11347_consen 51 FRRGTFLIDSK 61 (63)
T ss_pred EeceeEeeccc
Confidence 36899999864
No 237
>PLN02798 nitrilase
Probab=21.69 E-value=1.2e+02 Score=20.58 Aligned_cols=16 Identities=6% Similarity=0.121 Sum_probs=12.0
Q ss_pred cceeEEEECCCCcEEE
Q psy13814 47 TVRAVYIIGPDRKLKL 62 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~ 62 (75)
..=+.++|+|+|.|..
T Consensus 103 ~yNs~~vi~~~G~i~~ 118 (286)
T PLN02798 103 LYNTHVLIDDSGEIRS 118 (286)
T ss_pred eEEEEEEECCCCCEEE
Confidence 3446789999998754
No 238
>cd06587 Glo_EDI_BRP_like This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins. This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). Type I extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into aromatic substrates, which results in the cleavage of aromatic rings. They are key enzymes in the degradation of aromatic compounds. Type I extradiol dioxygenases include class I and class II enzymes. Class I and II enzymes show sequence similarity; the two-domain clas
Probab=21.63 E-value=92 Score=16.42 Aligned_cols=15 Identities=33% Similarity=0.468 Sum_probs=12.3
Q ss_pred cceeEEEECCCCcEE
Q psy13814 47 TVRAVYIIGPDRKLK 61 (75)
Q Consensus 47 ~~R~tFiId~dG~I~ 61 (75)
..+..++.||+|...
T Consensus 96 ~~~~~~~~Dp~G~~~ 110 (112)
T cd06587 96 GGRVAYFRDPDGNLI 110 (112)
T ss_pred CcEEEEEECCCCcEE
Confidence 468999999999753
No 239
>cd07233 Glyoxalase_I Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione. Glyoxalase I (also known as lactoylglutathione lyase; EC 4.4.1.5) is part of the glyoxalase system, a two-step system for detoxifying methylglyoxal, a side product of glycolysis. This system is responsible for the conversion of reactive, acyclic alpha-oxoaldehydes into the corresponding alpha-hydroxyacids and involves 2 enzymes, glyoxalase I and II. Glyoxalase I catalyses an intramolecular redox reaction of the hemithioacetal (formed from methylglyoxal and glutathione) to form the thioester, S-D-lactoylglutathione. This reaction involves the transfer of two hydrogen atoms from C1 to C2 of the methylglyoxal, and proceeds via an ene-diol intermediate. Glyoxalase I has a requirement for bound metal ions for catalysis. Eukaryotic glyoxalase I prefers the divalent cation zinc as cofactor, whereas Escherichia coil and other prokaryotic gly
Probab=21.41 E-value=1.3e+02 Score=16.80 Aligned_cols=16 Identities=19% Similarity=0.142 Sum_probs=12.4
Q ss_pred cceeEEEECCCCcEEE
Q psy13814 47 TVRAVYIIGPDRKLKL 62 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~ 62 (75)
..|..|+-||+|.+..
T Consensus 104 ~~~~~~~~DpdG~~iE 119 (121)
T cd07233 104 MKGIAFIKDPDGYWIE 119 (121)
T ss_pred CceEEEEECCCCCEEE
Confidence 3477889999998754
No 240
>cd07572 nit Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases). This subgroup includes mammalian Nit1 and Nit2, the Nit1-like domain of the invertebrate NitFhit, and various uncharacterized bacterial and archaeal Nit-like proteins. Nit1 and Nit2 are candidate tumor suppressor proteins. In NitFhit, the Nit1-like domain is encoded as a fusion protein with the non-homologous tumor suppressor, fragile histidine triad (Fhit). Mammalian Nit1 and Fhit may affect distinct signal pathways, and both may participate in DNA damage-induced apoptosis. Nit1 is a negative regulator in T cells. Overexpression of Nit2 in HeLa cells leads to a suppression of cell growth through cell cycle arrest in G2. These Nit proteins and the Nit1-like domain of NitFhit belong to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in t
Probab=21.38 E-value=1.1e+02 Score=20.18 Aligned_cols=15 Identities=20% Similarity=0.397 Sum_probs=11.8
Q ss_pred cceeEEEECCCCcEE
Q psy13814 47 TVRAVYIIGPDRKLK 61 (75)
Q Consensus 47 ~~R~tFiId~dG~I~ 61 (75)
..=+.++|+|+|.|.
T Consensus 93 ~yNs~~~i~~~G~i~ 107 (265)
T cd07572 93 VYNTSLVFDPDGELV 107 (265)
T ss_pred EEEEEEEECCCCeEE
Confidence 345778999999874
No 241
>PF04881 Adeno_GP19K: Adenovirus GP19K; InterPro: IPR006965 This 19 kDa glycoprotein binds the major histocompatibility (MHC) class I antigens in the endoplasmic reticulum (ER). The ER retention signal at the C terminus of Gp19K causes retention of the complex in the ER, preventing lysis of the cell by cytotoxic T-lymphocytes [].; GO: 0005537 mannose binding, 0050690 regulation of defense response to virus by virus
Probab=21.33 E-value=21 Score=22.83 Aligned_cols=25 Identities=16% Similarity=0.060 Sum_probs=22.0
Q ss_pred CCCCceeEEecCchHHHHHcCCccc
Q psy13814 12 KGDFPFAIIGDENRDLAVKLDLLDE 36 (75)
Q Consensus 12 k~~l~fpLlsD~~~~i~~~yGv~~~ 36 (75)
.+.+.|-..+|..--+|++||+|-+
T Consensus 69 ~~~FiF~~mCDitm~mskqy~LWPP 93 (139)
T PF04881_consen 69 MYKFIFYEMCDITMFMSKQYGLWPP 93 (139)
T ss_pred hheeeHHHHHHHHHHHHHHhCcCCC
Confidence 3567888999999999999999976
No 242
>PLN02747 N-carbamolyputrescine amidase
Probab=21.27 E-value=1.4e+02 Score=20.31 Aligned_cols=37 Identities=16% Similarity=0.078 Sum_probs=19.2
Q ss_pred hHHHHHcCCccccccCCcccCccceeEEEECCCCcEE
Q psy13814 25 RDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLK 61 (75)
Q Consensus 25 ~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~ 61 (75)
.++|+.++++---......-....=+.++|+|+|.|.
T Consensus 78 ~~~a~~~~i~i~~g~~~~~~~~~yNs~~~i~~~G~i~ 114 (296)
T PLN02747 78 QKLAKELGVVIPVSFFEEANNAHYNSIAIIDADGTDL 114 (296)
T ss_pred HHHHHHcCeEEEeeeeecCCCceEEEEEEECCCCCCc
Confidence 4577777764211000000012335778899999864
No 243
>PF03625 DUF302: Domain of unknown function DUF302 ; InterPro: IPR005180 This domain is found in an undescribed set of proteins. It normally occurs uniquely within a sequence, but is found as a tandem repeat (Q9X8B8 from SWISSPROT). It has an interesting phylogenetic distribution with the majority of examples in bacteria and archaea, but it is also found in Drosophila melanogaster (e.g. Q9VA18 from SWISSPROT). The hypothetical protein TT1751 from Thermus thermophilus has a beta-alpha-beta(4)-alpha structural fold [].; PDB: 1Q9U_A 1J3M_B.
Probab=21.02 E-value=1.2e+02 Score=16.01 Aligned_cols=23 Identities=22% Similarity=0.271 Sum_probs=17.0
Q ss_pred CccceeEEEECCCCcEEEEEEcC
Q psy13814 45 AITVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 45 ~~~~R~tFiId~dG~I~~~~~~~ 67 (75)
..|.|-+..-|.+|++.-++.+|
T Consensus 43 ~lPcrv~vye~~~G~~~v~~~~P 65 (65)
T PF03625_consen 43 FLPCRVLVYEDEDGKVWVSYMNP 65 (65)
T ss_dssp C-SEEEEEEE-ETTEEEEEEE-H
T ss_pred hCCeEEEEEEecCCeEEEEEeCc
Confidence 47889999999999998887765
No 244
>cd02960 AGR Anterior Gradient (AGR) family; members of this family are similar to secreted proteins encoded by the cement gland-specific genes XAG-1 and XAG-2, expressed in the anterior region of dorsal ectoderm of Xenopus. They are implicated in the formation of the cement gland and the induction of forebrain fate. The human homologs, hAG-2 and hAG-3, are secreted proteins associated with estrogen-positive breast tumors. Yeast two-hybrid studies identified the metastasis-associated C4.4a protein and dystroglycan as binding partners, indicating possible roles in the development and progression of breast cancer. hAG-2 has also been implicated in prostate cancer. Its gene was cloned as an androgen-inducible gene and it was shown to be overexpressed in prostate cancer cells at the mRNA and protein levels. AGR proteins contain one conserved cysteine corresponding to the first cysteine in the CXXC motif of TRX. They show high sequence similarity to ERp19.
Probab=20.89 E-value=68 Score=20.11 Aligned_cols=18 Identities=17% Similarity=0.388 Sum_probs=14.7
Q ss_pred cceeEEEECCCCcEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSI 64 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~ 64 (75)
-.++++++||+|+++...
T Consensus 79 ~vPtivFld~~g~vi~~i 96 (130)
T cd02960 79 YVPRIMFVDPSLTVRADI 96 (130)
T ss_pred ccCeEEEECCCCCCcccc
Confidence 468999999999887554
No 245
>cd09013 BphC-JF8_N_like N-terminal, non-catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins. 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC) catalyzes the extradiol ring cleavage reaction of 2,3-dihydroxybiphenyl, a key step in the polychlorinated biphenyls (PCBs) degradation pathway (bph pathway). BphC belongs to the type I extradiol dioxygenase family, which requires a metal ion in the active site in its catalytic mechanism. Polychlorinated biphenyl degrading bacteria demonstrate a multiplicity of BphCs. This subfamily of BphC is represented by the enzyme purified from the thermophilic biphenyl and naphthalene degrader, Bacillus sp. JF8. The members in this family of BphC enzymes may use either Mn(II) or Fe(II) as cofactors. The enzyme purified from Bacillus sp. JF8 is Mn(II)-dependent, however, the enzyme from Rhodococcus jostii RHAI has Fe(II) bound to it. BphC_JF8 is thermostable and its optimum activity is at 85 degrees C
Probab=20.87 E-value=1.7e+02 Score=16.58 Aligned_cols=18 Identities=17% Similarity=-0.036 Sum_probs=13.9
Q ss_pred ceeEEEECCCCcEEEEEE
Q psy13814 48 VRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 48 ~R~tFiId~dG~I~~~~~ 65 (75)
.++.++-||+|.....+.
T Consensus 100 ~~~~~~~DPdG~~iEl~~ 117 (121)
T cd09013 100 GKAYRFRSPDGHPMELYW 117 (121)
T ss_pred cceEEEECCCCCEEEEEE
Confidence 457899999998766654
No 246
>COG3565 Predicted dioxygenase of extradiol dioxygenase family [General function prediction only]
Probab=20.83 E-value=99 Score=19.65 Aligned_cols=18 Identities=11% Similarity=0.226 Sum_probs=14.6
Q ss_pred CccceeEEEECCCCcEEE
Q psy13814 45 AITVRAVYIIGPDRKLKL 62 (75)
Q Consensus 45 ~~~~R~tFiId~dG~I~~ 62 (75)
....|+.|+.||.|.-..
T Consensus 108 ~gEq~TlFl~DP~gN~lE 125 (138)
T COG3565 108 PGEQRTLFLFDPSGNALE 125 (138)
T ss_pred ccceEEEEEECCCCCeee
Confidence 457899999999997543
No 247
>PF07661 MORN_2: MORN repeat variant; InterPro: IPR011652 This entry represents an apparent variant of the IPR003409 from INTERPRO repeat.
Probab=20.80 E-value=82 Score=12.62 Aligned_cols=14 Identities=29% Similarity=0.164 Sum_probs=10.1
Q ss_pred EECCCCcEEEEEEc
Q psy13814 53 IIGPDRKLKLSIVY 66 (75)
Q Consensus 53 iId~dG~I~~~~~~ 66 (75)
...++|+|.....|
T Consensus 7 ~yy~nG~l~~~~~y 20 (22)
T PF07661_consen 7 FYYENGKLKSEGHY 20 (22)
T ss_pred EEeCCCCEEEEEEE
Confidence 45688888877655
No 248
>PRK05586 biotin carboxylase; Validated
Probab=20.69 E-value=2.8e+02 Score=20.25 Aligned_cols=23 Identities=4% Similarity=0.072 Sum_probs=19.8
Q ss_pred cceeEEEECCCCcEEEEEEcCCC
Q psy13814 47 TVRAVYIIGPDRKLKLSIVYPAS 69 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~~~~~ 69 (75)
+.+.=|++|++|.+....++|..
T Consensus 271 ~~~vEf~~~~~g~~~~iEvNpR~ 293 (447)
T PRK05586 271 AGTIEFLLDKDGNFYFMEMNTRI 293 (447)
T ss_pred eeEEEEEEcCCCCEEEEEEECCC
Confidence 55788999999999999999875
No 249
>cd07578 nitrilase_1_R1 First nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). Members of this subgroup have two nitrilase domains. This is the first of those two domains. The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=20.56 E-value=89 Score=20.77 Aligned_cols=16 Identities=38% Similarity=0.540 Sum_probs=12.5
Q ss_pred eeEEEECCCCcEEEEE
Q psy13814 49 RAVYIIGPDRKLKLSI 64 (75)
Q Consensus 49 R~tFiId~dG~I~~~~ 64 (75)
=.+.+|||+|+|....
T Consensus 209 G~S~ii~p~G~il~~~ 224 (258)
T cd07578 209 GGSCIIEPDGTIQASI 224 (258)
T ss_pred eEEEEECCCCcEeecc
Confidence 3578999999987643
No 250
>cd07569 DCase N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases). DCase hydrolyses N-carbamyl-D-amino acids to produce D-amino acids. It is an important biocatalyst in the pharmaceutical industry, producing useful D-amino acids for example in the preparation of beta-lactam antibiotics. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 6. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. Agrobacterium radiobacter DCase forms a tetramer (dimer of dimers). Some DCases may form trimers.
Probab=20.56 E-value=1.1e+02 Score=21.05 Aligned_cols=17 Identities=6% Similarity=0.081 Sum_probs=12.6
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
..=++++|+|+|.|...
T Consensus 107 ~yNsa~~i~~~G~i~~~ 123 (302)
T cd07569 107 RFNTSILVDKSGKIVGK 123 (302)
T ss_pred eeeEEEEECCCCCEeee
Confidence 34568999999987543
No 251
>cd07577 Ph0642_like Pyrococcus horikoshii Ph0642 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases). Uncharacterized subgroup of the nitrilase superfamily. This superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. Pyrococcus horikoshii Ph0642 is a hypothetical protein belonging to this subgroup. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). This subgroup was classified as belonging to class 13, which represents proteins that at the time were difficult to place in a distinct similarity group. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=20.55 E-value=2.1e+02 Score=18.94 Aligned_cols=38 Identities=11% Similarity=0.072 Sum_probs=19.3
Q ss_pred hHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEE
Q psy13814 25 RDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 25 ~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~ 63 (75)
.++|+.+|+.---......-....-+.++|+++| +...
T Consensus 68 ~~~a~~~~i~ii~G~~~~~~~~~yNs~~vi~~~G-i~~~ 105 (259)
T cd07577 68 QELARETGAYIVAGLPERDGDKFYNSAVVVGPEG-YIGI 105 (259)
T ss_pred HHHHHHhCcEEEecceeccCCceEEEEEEECCCc-cEee
Confidence 4567777764211000000012446789999999 5433
No 252
>PF11453 DUF2950: Protein of unknown function (DUF2950); InterPro: IPR021556 This is a bacterial family of uncharacterised proteins.
Probab=20.54 E-value=73 Score=22.67 Aligned_cols=20 Identities=10% Similarity=0.104 Sum_probs=14.7
Q ss_pred ccceeEEEECCCCcEEEEEE
Q psy13814 46 ITVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 46 ~~~R~tFiId~dG~I~~~~~ 65 (75)
.+-=.||+|+.+|+|-..-+
T Consensus 229 ~TGVmtF~Vn~~g~VYqkDL 248 (271)
T PF11453_consen 229 ETGVMTFMVNQDGQVYQKDL 248 (271)
T ss_pred CCceEEEEECCCCcEEeccc
Confidence 44457999999998865433
No 253
>PF05379 Peptidase_C23: Carlavirus endopeptidase ; InterPro: IPR008041 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C23 (clan CA). The type example is Carlavirus (apple stem pitting virus) endopeptidase, this thought to play a role in the post-translational cleavage of the high molecular weight primary translation products of the virus.; GO: 0003968 RNA-directed RNA polymerase activity, 0016817 hydrolase activity, acting on acid anhydrides
Probab=20.39 E-value=1.7e+02 Score=17.04 Aligned_cols=19 Identities=11% Similarity=0.205 Sum_probs=15.6
Q ss_pred cceeEEEECCCCcEEEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~~~ 65 (75)
....+++++++|+|...+.
T Consensus 63 ~~g~~~~lN~~G~i~~~F~ 81 (89)
T PF05379_consen 63 FGGETFVLNEEGRIKGSFR 81 (89)
T ss_pred ECCEEEEECCCCcEEEEEE
Confidence 5678999999999987653
No 254
>TIGR00412 redox_disulf_2 small redox-active disulfide protein 2. This small protein is found in three archaeal species so far (Methanococcus jannaschii, Archeoglobus fulgidus, and Methanobacterium thermoautotrophicum) as well as in Anabaena PCC7120. It is homologous to thioredoxins, glutaredoxins, and protein disulfide isomerases, and shares with them a redox-active disulfide. The redox active disulfide region CXXC motif resembles neither thioredoxin nor glutaredoxin. A closely related protein found in the same three Archaea, described by redox_disulf_1, has a glutaredoxin-like CP[YH]C sequence; it has been characterized in functional assays as redox-active but unlikely to be a thioredoxin or glutaredoxin.
Probab=20.38 E-value=1.6e+02 Score=15.90 Aligned_cols=28 Identities=14% Similarity=0.158 Sum_probs=16.2
Q ss_pred hHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEEEEcC
Q psy13814 25 RDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLSIVYP 67 (75)
Q Consensus 25 ~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~~~~~ 67 (75)
...+..||+. ..++++| ||++......|
T Consensus 39 ~~~a~~~~v~------------~vPti~i---~G~~~~~G~~~ 66 (76)
T TIGR00412 39 MNEILEAGVT------------ATPGVAV---DGELVIMGKIP 66 (76)
T ss_pred HHHHHHcCCC------------cCCEEEE---CCEEEEEeccC
Confidence 4457778874 3454444 78777544433
No 255
>PF02655 ATP-grasp_3: ATP-grasp domain; InterPro: IPR003806 The ATP-grasp fold is one of several distinct ATP-binding folds, and is found in enzymes that catalyze the formation of amide bonds, catalyzing the ATP-dependent ligation of a carboxylate-containing molecule to an amino or thiol group-containing molecule []. This fold is found in many different enzyme families, including various peptide synthetases, biotin carboxylase, synapsin, succinyl-CoA synthetase, pyruvate phosphate dikinase, and glutathione synthetase, amongst others []. These enzymes contribute predominantly to macromolecular synthesis, using ATP-hydrolysis to activate their substrates. The ATP-grasp fold shares functional and structural similarities with the PIPK (phosphatidylinositol phosphate kinase) and protein kinase superfamilies. The ATP-grasp domain consists of two subdomains with different alpha+beta folds, which grasp the ATP molecule between them. Each subdomain provides a variable loop that forms part of the active site, with regions from other domains also contributing to the active site, even though these other domains are not conserved between the various ATP-grasp enzymes []. This entry describes a type of ATP-grasp fold that is found in a set of proteins of unknown function.; GO: 0005524 ATP binding, 0046872 metal ion binding; PDB: 3DF7_A.
Probab=20.33 E-value=1.2e+02 Score=18.92 Aligned_cols=21 Identities=19% Similarity=0.215 Sum_probs=14.1
Q ss_pred eEEEECCCCcEEEEEEcCCCCC
Q psy13814 50 AVYIIGPDRKLKLSIVYPASTG 71 (75)
Q Consensus 50 ~tFiId~dG~I~~~~~~~~~~G 71 (75)
-=||+++ +.+..+.+||..+|
T Consensus 140 iD~I~~~-~~~~viEINPR~t~ 160 (161)
T PF02655_consen 140 IDFILDD-GGPYVIEINPRFTG 160 (161)
T ss_dssp EEEEESS--SEEEEEEESS--G
T ss_pred EEEEEeC-CcEEEEEEcCCCCC
Confidence 3467776 88999999998764
No 256
>PF14061 Mtf2_C: Polycomb-like MTF2 factor 2
Probab=20.22 E-value=1.1e+02 Score=16.30 Aligned_cols=41 Identities=12% Similarity=0.186 Sum_probs=24.0
Q ss_pred EecCchHHHHHcCCccccccCCcccCc-cceeEEEECCCCcEEEEEE
Q psy13814 20 IGDENRDLAVKLDLLDEENKNNLETAI-TVRAVYIIGPDRKLKLSIV 65 (75)
Q Consensus 20 lsD~~~~i~~~yGv~~~~~~~~~~~~~-~~R~tFiId~dG~I~~~~~ 65 (75)
++|-...|..-||....-. .+..+.+ +.| +-+||++++...
T Consensus 3 ~~~Lkssi~~YFGaa~Ri~-~GE~~~VlArR----V~~dG~vQYLvE 44 (50)
T PF14061_consen 3 LSDLKSSINSYFGAAGRIA-CGEKYRVLARR----VTPDGKVQYLVE 44 (50)
T ss_pred hHHhhhhhhhhcccccccc-cCCeeEEEEEE----EcCCCcEEEEEE
Confidence 3566677888888754322 2222222 333 568999998754
No 257
>cd02983 P5_C P5 family, C-terminal redox inactive TRX-like domain; P5 is a protein disulfide isomerase (PDI)-related protein with a domain structure of aa'b (where a and a' are redox active TRX domains and b is a redox inactive TRX-like domain). Like PDI, P5 is located in the endoplasmic reticulum (ER) and displays both isomerase and chaperone activities, which are independent of each other. Compared to PDI, the isomerase and chaperone activities of P5 are lower. The first cysteine in the CXXC motif of both redox active domains in P5 is necessary for isomerase activity. The P5 gene was first isolated as an amplified gene from a hydroxyurea-resistant hamster cell line. The zebrafish P5 homolog has been implicated to play a critical role in establishing left/right asymmetries in the embryonic midline. The C-terminal domain is likely involved in substrate binding, similar to the b and b' domains of PDI.
Probab=20.12 E-value=2.2e+02 Score=17.40 Aligned_cols=48 Identities=17% Similarity=0.141 Sum_probs=29.4
Q ss_pred hhhhcCCCCC-CceeEE-ecCchHHHHHcCCccccccCCcccCccceeEEEECCCCcEEEE
Q psy13814 5 KNYCLDIKGD-FPFAII-GDENRDLAVKLDLLDEENKNNLETAITVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 5 ~~~~~~~k~~-l~fpLl-sD~~~~i~~~yGv~~~~~~~~~~~~~~~R~tFiId~dG~I~~~ 63 (75)
++++...+.+ +.|-.+ ++....+.+.||+... ..++..+++.++. +|.
T Consensus 47 ~~vAk~~kgk~i~Fv~vd~~~~~~~~~~fgl~~~----------~~P~v~i~~~~~~-KY~ 96 (130)
T cd02983 47 KSVAEKFKKKPWGWLWTEAGAQLDLEEALNIGGF----------GYPAMVAINFRKM-KFA 96 (130)
T ss_pred HHHHHHhcCCcEEEEEEeCcccHHHHHHcCCCcc----------CCCEEEEEecccC-ccc
Confidence 3444445566 777553 2233459999998532 2357888888876 665
No 258
>cd07585 nitrilase_7 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=20.07 E-value=1e+02 Score=20.44 Aligned_cols=16 Identities=13% Similarity=0.229 Sum_probs=12.5
Q ss_pred eeEEEECCCCcEEEEE
Q psy13814 49 RAVYIIGPDRKLKLSI 64 (75)
Q Consensus 49 R~tFiId~dG~I~~~~ 64 (75)
=.++|+||+|.|....
T Consensus 209 G~S~i~~p~G~v~~~~ 224 (261)
T cd07585 209 GGAMILDPYGRVLAET 224 (261)
T ss_pred ceEEEECCCCCEEecc
Confidence 3678999999987643
No 259
>cd07247 SgaA_N_like N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains. SgaA suppresses the growth disturbances caused by high osmolarity and a high concentration of A-factor, a microbial hormone, during the early growth phase in Streptomyces griseus. A-factor (2-isocapryloyl-3R-hydroxymethyl-gamma-butyrolactone) controls morphological differentiation and secondary metabolism in Streptomyces griseus. It is a chemical signaling molecule that at a very low concentration acts as a switch for yellow pigment production, aerial mycelium formation, streptomycin production, and streptomycin resistance. The structure and amino acid sequence of SgaA are closely related to a group of antibiotics resistance proteins, including bleomycin resistance protein, mitomycin resistance protein, and fosfomycin resistance proteins. SgaA might also function as a strep
Probab=20.06 E-value=1.6e+02 Score=16.29 Aligned_cols=17 Identities=12% Similarity=-0.011 Sum_probs=13.3
Q ss_pred cceeEEEECCCCcEEEE
Q psy13814 47 TVRAVYIIGPDRKLKLS 63 (75)
Q Consensus 47 ~~R~tFiId~dG~I~~~ 63 (75)
..+..++-||+|.....
T Consensus 96 ~~~~~~~~DPdG~~~~l 112 (114)
T cd07247 96 VGRFAVFADPEGAVFGL 112 (114)
T ss_pred cEEEEEEECCCCCEEEe
Confidence 34789999999987654
Done!