Query 033205
Match_columns 125
No_of_seqs 216 out of 1051
Neff 8.7
Searched_HMMs 46136
Date Fri Mar 29 11:06:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033205.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033205hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0386 BtuE Glutathione perox 100.0 1.8E-34 3.9E-39 191.5 13.5 121 4-124 41-162 (162)
2 KOG1651 Glutathione peroxidase 100.0 4.4E-31 9.6E-36 177.2 12.4 124 1-124 48-171 (171)
3 PRK10606 btuE putative glutath 100.0 1.1E-28 2.5E-33 171.3 14.5 121 4-124 41-183 (183)
4 PLN02412 probable glutathione 99.9 7E-26 1.5E-30 155.4 14.6 124 2-125 44-167 (167)
5 PLN02399 phospholipid hydroper 99.9 1.2E-25 2.6E-30 161.4 13.7 123 2-124 114-236 (236)
6 PTZ00056 glutathione peroxidas 99.9 2.2E-24 4.8E-29 151.7 14.0 122 2-124 54-180 (199)
7 PTZ00256 glutathione peroxidas 99.9 1.2E-22 2.6E-27 141.2 14.4 122 2-124 56-183 (183)
8 TIGR02540 gpx7 putative glutat 99.9 3.4E-22 7.4E-27 135.0 14.0 117 2-122 37-153 (153)
9 cd00340 GSH_Peroxidase Glutath 99.9 4.4E-22 9.4E-27 134.4 13.5 116 3-118 37-152 (152)
10 PF00255 GSHPx: Glutathione pe 99.8 8.6E-19 1.9E-23 112.1 7.0 74 1-75 35-108 (108)
11 cd03012 TlpA_like_DipZ_like Tl 99.7 1.5E-17 3.3E-22 108.8 9.0 87 3-108 39-125 (126)
12 PRK15412 thiol:disulfide inter 99.7 3.7E-16 8E-21 108.7 10.7 95 3-124 84-178 (185)
13 COG1225 Bcp Peroxiredoxin [Pos 99.7 2.1E-16 4.6E-21 106.8 8.7 94 3-111 47-141 (157)
14 cd02969 PRX_like1 Peroxiredoxi 99.6 4.7E-15 1E-19 101.6 11.2 105 3-124 41-154 (171)
15 cd03017 PRX_BCP Peroxiredoxin 99.6 2.7E-15 5.8E-20 99.2 9.1 91 3-118 40-139 (140)
16 PF08534 Redoxin: Redoxin; In 99.6 4.9E-15 1.1E-19 98.8 8.7 83 3-110 45-136 (146)
17 TIGR00385 dsbE periplasmic pro 99.6 1.7E-14 3.8E-19 99.2 10.9 94 3-123 79-172 (173)
18 PRK09437 bcp thioredoxin-depen 99.6 1.6E-14 3.6E-19 97.3 10.4 94 3-119 47-150 (154)
19 PRK03147 thiol-disulfide oxido 99.6 3.4E-14 7.4E-19 97.0 10.7 95 3-121 77-171 (173)
20 PLN02919 haloacid dehalogenase 99.6 2.3E-14 4.9E-19 121.0 10.9 102 3-123 436-537 (1057)
21 PRK10382 alkyl hydroperoxide r 99.6 3.9E-14 8.5E-19 98.8 10.3 97 3-121 48-155 (187)
22 TIGR01626 ytfJ_HI0045 conserve 99.6 1.7E-14 3.7E-19 100.2 7.6 90 3-116 75-174 (184)
23 PRK13190 putative peroxiredoxi 99.5 8.4E-14 1.8E-18 98.2 10.6 98 3-122 44-154 (202)
24 cd03016 PRX_1cys Peroxiredoxin 99.5 7.8E-14 1.7E-18 98.4 10.3 97 3-121 42-153 (203)
25 PRK13599 putative peroxiredoxi 99.5 1.3E-13 2.8E-18 98.1 10.9 105 3-121 45-155 (215)
26 cd02970 PRX_like2 Peroxiredoxi 99.5 7.8E-14 1.7E-18 92.8 8.8 90 3-107 40-148 (149)
27 cd03010 TlpA_like_DsbE TlpA-li 99.5 1.4E-13 3.1E-18 89.8 9.0 86 3-114 41-126 (127)
28 cd03015 PRX_Typ2cys Peroxiredo 99.5 2.7E-13 5.8E-18 93.2 10.7 97 3-121 46-156 (173)
29 PRK13189 peroxiredoxin; Provis 99.5 2E-13 4.4E-18 97.6 10.3 102 3-121 52-162 (222)
30 TIGR03137 AhpC peroxiredoxin. 99.5 1.1E-13 2.4E-18 96.5 8.4 83 3-109 48-139 (187)
31 PRK15000 peroxidase; Provision 99.5 1.6E-13 3.4E-18 96.7 9.2 94 3-120 51-160 (200)
32 PF00578 AhpC-TSA: AhpC/TSA fa 99.5 1.5E-13 3.2E-18 88.9 8.1 77 3-104 42-124 (124)
33 PTZ00137 2-Cys peroxiredoxin; 99.5 3.2E-13 6.9E-18 98.5 10.4 96 3-120 115-223 (261)
34 cd03018 PRX_AhpE_like Peroxire 99.5 2.3E-13 4.9E-18 90.9 8.9 84 3-109 45-134 (149)
35 PRK14018 trifunctional thiored 99.5 2.4E-13 5.2E-18 107.1 10.4 99 3-120 72-171 (521)
36 cd03008 TryX_like_RdCVF Trypar 99.5 1.5E-13 3.3E-18 92.3 6.8 82 3-105 41-129 (146)
37 PRK13191 putative peroxiredoxi 99.4 6.1E-13 1.3E-17 94.7 9.1 96 3-120 50-159 (215)
38 PRK00522 tpx lipid hydroperoxi 99.4 1E-12 2.3E-17 90.0 9.9 92 3-121 61-165 (167)
39 PRK13728 conjugal transfer pro 99.4 1.1E-12 2.4E-17 90.8 8.6 86 3-123 85-172 (181)
40 cd03014 PRX_Atyp2cys Peroxired 99.4 1.8E-12 3.9E-17 86.2 9.2 91 3-118 43-141 (143)
41 cd02971 PRX_family Peroxiredox 99.4 2.8E-12 6.2E-17 84.5 8.8 88 3-110 39-131 (140)
42 PTZ00253 tryparedoxin peroxida 99.4 4.2E-12 9E-17 89.3 8.9 97 3-121 53-160 (199)
43 cd03011 TlpA_like_ScsD_MtbDsbE 99.3 1.1E-11 2.3E-16 80.2 8.8 87 3-118 36-122 (123)
44 TIGR02738 TrbB type-F conjugat 99.3 7.6E-12 1.7E-16 84.8 7.5 86 3-122 66-153 (153)
45 cd02966 TlpA_like_family TlpA- 99.3 6.4E-11 1.4E-15 74.3 9.5 82 3-107 35-116 (116)
46 COG0450 AhpC Peroxiredoxin [Po 99.3 4.5E-11 9.9E-16 82.9 8.8 101 3-121 50-160 (194)
47 cd02968 SCO SCO (an acronym fo 99.3 2.9E-11 6.2E-16 80.0 7.5 89 3-107 39-142 (142)
48 PF13905 Thioredoxin_8: Thiore 99.2 1.5E-10 3.2E-15 71.7 7.8 78 3-101 17-95 (95)
49 cd02967 mauD Methylamine utili 99.2 1.5E-10 3.3E-15 73.8 7.6 75 3-105 37-112 (114)
50 cd02964 TryX_like_family Trypa 99.1 2.1E-10 4.5E-15 75.5 7.2 82 3-105 33-116 (132)
51 TIGR02661 MauD methylamine deh 99.1 5E-10 1.1E-14 78.2 9.4 89 3-121 90-178 (189)
52 cd03013 PRX5_like Peroxiredoxi 99.1 5.5E-10 1.2E-14 75.7 7.8 92 3-109 46-141 (155)
53 cd03009 TryX_like_TryX_NRX Try 99.0 1.5E-09 3.2E-14 71.1 5.7 80 3-105 34-116 (131)
54 cd02950 TxlA TRX-like protein 98.8 7.9E-08 1.7E-12 64.3 9.3 40 85-124 73-112 (142)
55 TIGR02740 TraF-like TraF-like 98.3 2.3E-06 5E-11 63.0 7.4 83 3-123 182-265 (271)
56 cd02985 TRX_CDSP32 TRX family, 98.2 3.3E-05 7.2E-10 48.6 9.1 33 85-119 68-100 (103)
57 KOG0855 Alkyl hydroperoxide re 98.1 8.7E-06 1.9E-10 55.6 5.9 102 3-122 107-209 (211)
58 PF13911 AhpC-TSA_2: AhpC/TSA 97.9 0.00012 2.7E-09 46.8 8.4 83 9-106 2-112 (115)
59 PRK09381 trxA thioredoxin; Pro 97.9 0.00013 2.8E-09 46.0 8.2 38 85-123 72-109 (109)
60 cd02963 TRX_DnaJ TRX domain, D 97.9 0.00013 2.9E-09 46.5 7.9 36 85-121 76-111 (111)
61 KOG0852 Alkyl hydroperoxide re 97.9 7.2E-05 1.6E-09 51.5 6.8 86 4-107 51-142 (196)
62 COG1999 Uncharacterized protei 97.9 0.00046 1E-08 49.0 11.1 111 5-124 86-206 (207)
63 cd02953 DsbDgamma DsbD gamma f 97.8 0.00012 2.5E-09 45.9 7.1 34 85-118 69-103 (104)
64 PF13098 Thioredoxin_2: Thiore 97.8 2.7E-05 5.9E-10 49.2 3.9 34 85-118 79-112 (112)
65 cd02951 SoxW SoxW family; SoxW 97.8 4.3E-05 9.3E-10 49.5 4.9 40 85-124 81-121 (125)
66 cd02956 ybbN ybbN protein fami 97.7 0.00027 5.8E-09 43.4 7.4 33 85-118 63-95 (96)
67 KOG0910 Thioredoxin-like prote 97.7 0.00023 4.9E-09 47.9 7.2 39 85-124 112-150 (150)
68 KOG0854 Alkyl hydroperoxide re 97.7 0.0005 1.1E-08 47.6 8.6 114 3-121 49-167 (224)
69 PRK10996 thioredoxin 2; Provis 97.6 0.00046 1E-08 45.8 7.7 37 85-122 103-139 (139)
70 cd02948 TRX_NDPK TRX domain, T 97.6 0.00058 1.3E-08 42.7 7.8 35 85-121 68-102 (102)
71 PRK11509 hydrogenase-1 operon 97.6 0.00067 1.5E-08 44.9 8.3 39 85-124 88-126 (132)
72 PF02630 SCO1-SenC: SCO1/SenC; 97.6 0.00051 1.1E-08 47.3 7.9 95 5-107 71-173 (174)
73 cd02958 UAS UAS family; UAS is 97.6 0.00074 1.6E-08 43.1 7.8 40 85-124 73-113 (114)
74 cd03005 PDI_a_ERp46 PDIa famil 97.5 0.0006 1.3E-08 42.1 6.8 32 85-117 70-101 (102)
75 cd02994 PDI_a_TMX PDIa family, 97.5 0.0012 2.6E-08 40.9 7.8 33 85-119 68-100 (101)
76 KOG2501 Thioredoxin, nucleored 97.4 0.00058 1.3E-08 46.3 6.0 78 7-105 53-132 (157)
77 TIGR02739 TraF type-F conjugat 97.3 0.0012 2.6E-08 48.3 7.4 38 85-122 210-248 (256)
78 TIGR01126 pdi_dom protein disu 97.3 0.0032 6.9E-08 38.6 8.1 36 85-121 66-101 (102)
79 PF13728 TraF: F plasmid trans 97.2 0.0012 2.6E-08 47.1 6.4 34 85-118 180-214 (215)
80 PRK13703 conjugal pilus assemb 97.2 0.0024 5.1E-08 46.6 7.6 39 85-123 203-242 (248)
81 TIGR01068 thioredoxin thioredo 97.2 0.005 1.1E-07 37.5 7.9 37 85-122 65-101 (101)
82 cd03065 PDI_b_Calsequestrin_N 97.1 0.0017 3.7E-08 42.3 5.6 36 85-122 84-119 (120)
83 cd03002 PDI_a_MPD1_like PDI fa 97.0 0.0036 7.8E-08 39.1 6.4 34 85-118 71-108 (109)
84 PF00085 Thioredoxin: Thioredo 97.0 0.0076 1.7E-07 36.8 7.6 35 85-120 68-102 (103)
85 COG3118 Thioredoxin domain-con 97.0 0.0039 8.4E-08 46.4 6.9 38 85-123 94-131 (304)
86 cd03000 PDI_a_TMX3 PDIa family 96.9 0.0085 1.8E-07 37.3 7.4 35 85-121 69-103 (104)
87 cd03003 PDI_a_ERdj5_N PDIa fam 96.9 0.006 1.3E-07 37.8 6.7 31 85-116 69-99 (101)
88 cd02949 TRX_NTR TRX domain, no 96.9 0.0065 1.4E-07 37.4 6.5 33 85-118 64-96 (97)
89 cd02999 PDI_a_ERp44_like PDIa 96.9 0.0042 9.2E-08 38.8 5.7 31 85-117 69-99 (100)
90 cd02965 HyaE HyaE family; HyaE 96.8 0.0058 1.3E-07 39.3 6.0 31 85-116 80-110 (111)
91 TIGR01295 PedC_BrcD bacterioci 96.7 0.034 7.3E-07 36.1 9.3 33 85-118 87-120 (122)
92 cd02993 PDI_a_APS_reductase PD 96.7 0.011 2.5E-07 37.2 6.7 32 85-116 75-107 (109)
93 cd03004 PDI_a_ERdj5_C PDIa fam 96.6 0.019 4.1E-07 35.6 7.4 33 85-117 70-103 (104)
94 PTZ00443 Thioredoxin domain-co 96.6 0.022 4.7E-07 41.0 8.5 37 85-122 103-139 (224)
95 cd02997 PDI_a_PDIR PDIa family 96.5 0.016 3.4E-07 35.6 6.4 32 85-117 72-103 (104)
96 PF09695 YtfJ_HI0045: Bacteria 96.5 0.099 2.1E-06 35.6 10.5 98 7-121 57-157 (160)
97 PRK00293 dipZ thiol:disulfide 96.4 0.018 3.8E-07 46.8 7.5 38 85-122 531-570 (571)
98 cd02961 PDI_a_family Protein D 96.3 0.021 4.4E-07 34.4 6.1 32 85-116 68-99 (101)
99 cd02991 UAS_ETEA UAS family, E 96.3 0.039 8.4E-07 35.6 7.3 71 39-124 42-115 (116)
100 cd02962 TMX2 TMX2 family; comp 96.0 0.053 1.1E-06 36.7 7.2 21 86-107 106-126 (152)
101 cd02998 PDI_a_ERp38 PDIa famil 95.9 0.04 8.6E-07 33.7 5.9 33 85-117 72-104 (105)
102 smart00594 UAS UAS domain. 95.9 0.041 8.8E-07 35.6 6.1 34 85-118 83-121 (122)
103 cd02984 TRX_PICOT TRX domain, 95.7 0.086 1.9E-06 32.0 6.8 32 85-118 65-96 (97)
104 KOG0907 Thioredoxin [Posttrans 95.7 0.076 1.6E-06 33.8 6.6 34 85-120 71-104 (106)
105 PF13778 DUF4174: Domain of un 95.7 0.24 5.3E-06 32.0 9.0 33 89-121 79-111 (118)
106 PLN00410 U5 snRNP protein, DIM 95.6 0.1 2.3E-06 34.9 7.4 39 85-123 74-121 (142)
107 cd03006 PDI_a_EFP1_N PDIa fami 95.5 0.089 1.9E-06 33.7 6.5 31 85-116 81-111 (113)
108 PTZ00051 thioredoxin; Provisio 95.3 0.13 2.8E-06 31.2 6.6 29 85-115 68-96 (98)
109 cd02954 DIM1 Dim1 family; Dim1 95.3 0.047 1E-06 35.2 4.6 27 85-112 65-91 (114)
110 cd02947 TRX_family TRX family; 95.3 0.09 2E-06 30.7 5.7 33 85-118 60-92 (93)
111 cd02996 PDI_a_ERp44 PDIa famil 95.2 0.13 2.9E-06 32.0 6.5 32 85-117 75-107 (108)
112 COG0678 AHP1 Peroxiredoxin [Po 95.0 0.093 2E-06 35.5 5.6 90 2-106 54-146 (165)
113 cd03001 PDI_a_P5 PDIa family, 95.0 0.37 8E-06 29.3 8.0 34 85-118 69-102 (103)
114 KOG2507 Ubiquitin regulatory p 94.9 0.23 5.1E-06 38.9 8.2 38 85-122 74-111 (506)
115 cd02955 SSP411 TRX domain, SSP 94.5 0.08 1.7E-06 34.6 4.1 23 85-107 77-99 (124)
116 cd02960 AGR Anterior Gradient 94.3 0.11 2.3E-06 34.4 4.5 24 87-110 78-101 (130)
117 TIGR00411 redox_disulf_1 small 94.3 0.098 2.1E-06 30.7 4.0 33 85-122 50-82 (82)
118 PHA02278 thioredoxin-like prot 94.2 0.084 1.8E-06 33.3 3.8 31 85-116 69-99 (103)
119 COG2143 Thioredoxin-related pr 94.1 0.11 2.4E-06 35.5 4.3 34 85-118 112-145 (182)
120 TIGR02187 GlrX_arch Glutaredox 93.9 1.6 3.4E-05 30.9 10.4 37 85-122 74-111 (215)
121 TIGR01130 ER_PDI_fam protein d 93.8 0.6 1.3E-05 36.1 8.5 38 85-123 72-110 (462)
122 cd02982 PDI_b'_family Protein 93.4 0.69 1.5E-05 28.2 6.9 38 85-122 63-103 (103)
123 COG2077 Tpx Peroxiredoxin [Pos 93.1 0.8 1.7E-05 31.1 7.0 77 5-105 63-147 (158)
124 PF05176 ATP-synt_10: ATP10 pr 93.0 0.16 3.4E-06 37.3 3.9 31 89-119 217-247 (252)
125 cd02975 PfPDO_like_N Pyrococcu 92.8 0.24 5.3E-06 31.5 4.2 41 85-125 72-113 (113)
126 KOG2792 Putative cytochrome C 92.6 0.4 8.6E-06 35.3 5.4 32 91-122 244-275 (280)
127 TIGR00412 redox_disulf_2 small 91.9 0.34 7.4E-06 28.5 3.8 56 41-118 19-75 (76)
128 PF06953 ArsD: Arsenical resis 91.5 2.6 5.7E-05 27.5 7.9 27 3-29 23-49 (123)
129 cd02959 ERp19 Endoplasmic reti 91.0 0.094 2E-06 33.7 0.8 20 88-107 76-95 (117)
130 PF00837 T4_deiodinase: Iodoth 90.7 1.3 2.8E-05 32.2 6.4 97 4-121 119-236 (237)
131 PTZ00102 disulphide isomerase; 90.6 0.49 1.1E-05 37.0 4.5 39 85-123 428-466 (477)
132 PTZ00102 disulphide isomerase; 90.5 2.4 5.2E-05 33.2 8.3 37 85-123 103-139 (477)
133 PF04592 SelP_N: Selenoprotein 90.0 5.1 0.00011 29.2 8.8 97 4-121 43-145 (238)
134 cd02995 PDI_a_PDI_a'_C PDIa fa 89.2 3.3 7.2E-05 24.9 6.9 33 85-117 70-103 (104)
135 TIGR00424 APS_reduc 5'-adenyly 88.4 3.2 6.9E-05 33.1 7.5 37 85-121 425-462 (463)
136 PLN02309 5'-adenylylsulfate re 88.0 5.8 0.00013 31.6 8.7 37 85-121 419-456 (457)
137 cd02983 P5_C P5 family, C-term 87.8 4.7 0.0001 26.3 7.0 36 88-124 81-117 (130)
138 COG3054 Predicted transcriptio 87.3 1.4 3.1E-05 30.0 4.3 30 91-120 149-178 (184)
139 PRK11657 dsbG disulfide isomer 87.0 1 2.3E-05 32.8 3.9 34 85-119 216-249 (251)
140 PTZ00062 glutaredoxin; Provisi 86.9 1.6 3.5E-05 31.0 4.7 36 85-122 59-94 (204)
141 PF05673 DUF815: Protein of un 85.5 4.5 9.8E-05 29.7 6.4 76 9-95 69-144 (249)
142 PF11211 DUF2997: Protein of u 84.5 3.7 8.1E-05 22.2 4.3 32 92-123 2-35 (48)
143 COG2179 Predicted hydrolase of 84.3 2.9 6.2E-05 29.0 4.7 42 6-56 48-89 (175)
144 cd02988 Phd_like_VIAF Phosduci 83.3 2.6 5.6E-05 29.5 4.3 24 85-109 149-172 (192)
145 cd02986 DLP Dim1 family, Dim1- 83.1 7.2 0.00016 25.2 6.0 23 85-108 65-87 (114)
146 cd02992 PDI_a_QSOX PDIa family 83.0 8.7 0.00019 24.2 6.4 15 85-99 75-89 (114)
147 cd02989 Phd_like_TxnDC9 Phosdu 82.1 4 8.6E-05 25.8 4.5 24 85-109 72-95 (113)
148 cd02957 Phd_like Phosducin (Ph 81.4 4.1 8.8E-05 25.5 4.4 24 85-109 73-96 (113)
149 KOG4614 Inner membrane protein 81.4 2.8 6.1E-05 30.6 3.9 28 91-118 250-277 (287)
150 PF13192 Thioredoxin_3: Thiore 79.5 3.2 7E-05 24.2 3.2 30 85-119 46-76 (76)
151 PF14595 Thioredoxin_9: Thiore 79.3 3.2 6.8E-05 27.2 3.4 32 85-118 94-125 (129)
152 cd02987 Phd_like_Phd Phosducin 77.3 5.7 0.00012 27.3 4.4 24 85-109 132-155 (175)
153 PF02563 Poly_export: Polysacc 75.9 6.5 0.00014 23.4 3.9 33 92-124 32-69 (82)
154 PF13462 Thioredoxin_4: Thiore 75.6 5 0.00011 26.3 3.7 30 85-120 133-162 (162)
155 COG2761 FrnE Predicted dithiol 74.5 6.5 0.00014 28.4 4.2 35 85-124 181-215 (225)
156 PF00462 Glutaredoxin: Glutare 74.4 7 0.00015 21.4 3.6 17 40-57 13-29 (60)
157 cd03026 AhpF_NTD_C TRX-GRX-lik 74.2 10 0.00022 22.9 4.5 24 85-113 62-85 (89)
158 TIGR02196 GlrX_YruB Glutaredox 74.0 13 0.00027 20.5 4.8 60 40-118 14-73 (74)
159 PF01323 DSBA: DSBA-like thior 72.2 6.7 0.00015 26.5 3.7 30 85-119 164-193 (193)
160 cd03023 DsbA_Com1_like DsbA fa 71.3 5.2 0.00011 25.8 2.9 28 85-118 126-153 (154)
161 KOG0908 Thioredoxin-like prote 71.0 10 0.00023 28.0 4.5 38 85-124 71-108 (288)
162 PF09673 TrbC_Ftype: Type-F co 70.5 25 0.00054 22.4 6.7 13 85-97 68-80 (113)
163 COG2607 Predicted ATPase (AAA+ 70.2 19 0.00042 26.7 5.8 76 9-95 102-177 (287)
164 PRK10877 protein disulfide iso 69.9 7.5 0.00016 28.0 3.7 32 85-121 199-230 (232)
165 TIGR01352 tonB_Cterm TonB fami 69.0 9.5 0.00021 21.6 3.4 16 90-105 13-28 (74)
166 PF03190 Thioredox_DsbH: Prote 68.1 11 0.00024 25.9 4.0 19 87-105 101-119 (163)
167 PF03544 TonB_C: Gram-negative 66.6 3.9 8.5E-05 23.6 1.4 16 90-105 19-34 (79)
168 PF13103 TonB_2: TonB C termin 65.6 8.3 0.00018 22.7 2.8 32 91-122 30-62 (85)
169 COG0552 FtsY Signal recognitio 65.0 25 0.00054 27.1 5.7 79 9-102 156-234 (340)
170 PHA02125 thioredoxin-like prot 64.9 15 0.00033 21.1 3.8 20 85-108 43-62 (75)
171 TIGR02187 GlrX_arch Glutaredox 64.5 10 0.00022 26.7 3.5 32 85-120 183-214 (215)
172 cd02952 TRP14_like Human TRX-r 64.4 23 0.00049 22.9 4.7 17 85-101 86-103 (119)
173 PF02799 NMT_C: Myristoyl-CoA: 63.1 23 0.0005 25.0 4.9 75 1-101 34-108 (190)
174 KOG2779 N-myristoyl transferas 61.0 22 0.00047 27.7 4.7 78 1-104 266-343 (421)
175 COG0816 Predicted endonuclease 59.1 36 0.00078 22.8 5.1 58 5-66 41-100 (141)
176 KOG2961 Predicted hydrolase (H 58.5 38 0.00083 23.3 5.1 51 3-58 64-114 (190)
177 cd03007 PDI_a_ERp29_N PDIa fam 58.5 47 0.001 21.4 7.5 32 88-120 80-114 (116)
178 PRK10329 glutaredoxin-like pro 58.0 37 0.0008 20.0 5.1 65 40-124 15-79 (81)
179 PF03652 UPF0081: Uncharacteri 57.5 47 0.001 21.8 5.5 59 4-66 38-99 (135)
180 PF07411 DUF1508: Domain of un 57.2 25 0.00055 18.8 3.5 31 92-122 8-38 (49)
181 TIGR01130 ER_PDI_fam protein d 57.2 20 0.00044 27.7 4.2 38 85-122 416-454 (462)
182 COG1651 DsbG Protein-disulfide 53.3 20 0.00043 25.5 3.4 32 85-122 212-243 (244)
183 KOG1364 Predicted ubiquitin re 52.6 22 0.00048 27.4 3.6 39 85-123 151-190 (356)
184 cd03063 TRX_Fd_FDH_beta TRX-li 51.9 28 0.0006 21.5 3.4 32 90-124 49-80 (92)
185 COG3411 Ferredoxin [Energy pro 51.6 32 0.00068 19.9 3.3 29 90-123 18-46 (64)
186 cd02973 TRX_GRX_like Thioredox 51.1 31 0.00067 18.9 3.4 17 85-104 49-65 (67)
187 PF10281 Ish1: Putative stress 50.2 18 0.00038 18.2 2.0 19 38-57 5-23 (38)
188 PF05988 DUF899: Bacterial pro 49.7 95 0.0021 22.3 8.4 34 17-59 103-136 (211)
189 PRK11200 grxA glutaredoxin 1; 49.6 48 0.001 19.4 4.2 17 40-57 15-36 (85)
190 TIGR02200 GlrX_actino Glutared 48.8 47 0.001 18.5 5.0 62 40-118 14-75 (77)
191 COG4232 Thiol:disulfide interc 48.5 48 0.001 27.4 5.1 37 85-121 531-567 (569)
192 TIGR03027 pepcterm_export puta 48.5 24 0.00051 23.9 3.0 34 90-123 20-58 (165)
193 PF02743 Cache_1: Cache domain 48.3 10 0.00022 22.0 1.1 15 91-105 55-69 (81)
194 COG0499 SAM1 S-adenosylhomocys 47.9 1.4E+02 0.003 23.6 7.5 83 3-104 24-134 (420)
195 PF08806 Sep15_SelM: Sep15/Sel 47.8 31 0.00068 20.5 3.1 33 89-121 42-75 (78)
196 TIGR02194 GlrX_NrdH Glutaredox 46.8 53 0.0011 18.5 4.1 58 40-116 13-70 (72)
197 PF14062 DUF4253: Domain of un 46.7 43 0.00093 21.3 3.8 50 5-57 32-84 (111)
198 TIGR03143 AhpF_homolog putativ 46.4 51 0.0011 26.8 5.1 73 21-118 480-554 (555)
199 COG1393 ArsC Arsenate reductas 45.8 25 0.00055 22.6 2.7 19 38-57 13-31 (117)
200 TIGR02180 GRX_euk Glutaredoxin 44.9 58 0.0013 18.5 4.4 47 40-96 13-61 (84)
201 cd08344 MhqB_like_N N-terminal 44.9 30 0.00064 21.1 2.9 19 91-109 93-111 (112)
202 TIGR03164 UHCUDC OHCU decarbox 44.3 80 0.0017 21.4 5.0 24 2-25 89-113 (157)
203 PRK06740 histidinol-phosphatas 43.9 84 0.0018 23.9 5.6 46 8-58 127-173 (331)
204 TIGR01856 hisJ_fam histidinol 43.0 1.2E+02 0.0026 21.9 6.1 45 8-58 64-109 (253)
205 TIGR03180 UraD_2 OHCU decarbox 42.7 90 0.002 21.2 5.1 23 2-24 89-112 (158)
206 PF11453 DUF2950: Protein of u 42.1 32 0.00068 25.6 2.9 21 91-111 233-253 (271)
207 cd03024 DsbA_FrnE DsbA family, 42.0 35 0.00076 23.2 3.1 29 85-118 172-200 (201)
208 PRK13798 putative OHCU decarbo 41.1 99 0.0022 21.1 5.1 23 2-24 94-117 (166)
209 COG2221 DsrA Dissimilatory sul 41.0 44 0.00096 25.5 3.6 39 1-47 42-88 (317)
210 PRK10200 putative racemase; Pr 40.7 60 0.0013 23.2 4.2 44 5-58 60-103 (230)
211 PF14903 WG_beta_rep: WG conta 40.5 20 0.00043 17.0 1.3 11 94-104 3-13 (35)
212 COG0217 Uncharacterized conser 40.4 1E+02 0.0022 22.6 5.3 66 13-114 87-152 (241)
213 TIGR03028 EpsE polysaccharide 40.1 53 0.0011 23.6 3.9 34 90-123 21-59 (239)
214 cd02990 UAS_FAF1 UAS family, F 40.1 81 0.0018 20.9 4.5 37 86-122 94-133 (136)
215 KOG0190 Protein disulfide isom 40.1 37 0.00081 27.5 3.3 36 85-121 96-131 (493)
216 smart00701 PGRP Animal peptido 39.8 20 0.00042 23.8 1.5 15 89-103 63-77 (142)
217 PF03460 NIR_SIR_ferr: Nitrite 39.4 71 0.0015 17.9 4.3 27 2-28 22-56 (69)
218 COG1832 Predicted CoA-binding 39.3 1.2E+02 0.0025 20.4 5.0 44 5-57 5-50 (140)
219 COG0560 SerB Phosphoserine pho 39.1 54 0.0012 23.2 3.7 42 6-56 79-120 (212)
220 PRK08671 methionine aminopepti 39.0 32 0.00068 25.6 2.6 18 86-103 272-289 (291)
221 TIGR01689 EcbF-BcbF capsule bi 38.8 94 0.002 20.2 4.6 50 7-57 27-83 (126)
222 COG0815 Lnt Apolipoprotein N-a 37.7 1.6E+02 0.0034 24.1 6.5 15 91-105 452-466 (518)
223 PF09494 Slx4: Slx4 endonuclea 37.1 59 0.0013 18.4 3.1 15 39-54 47-61 (64)
224 PF02575 YbaB_DNA_bd: YbaB/Ebf 36.8 74 0.0016 19.0 3.7 32 92-123 33-69 (93)
225 cd03020 DsbA_DsbC_DsbG DsbA fa 36.4 38 0.00082 23.3 2.6 28 85-117 169-196 (197)
226 KOG1110 Putative steroid membr 36.0 42 0.00092 23.5 2.7 26 1-27 128-153 (183)
227 KOG0541 Alkyl hydroperoxide re 35.9 1.4E+02 0.003 20.6 5.0 89 3-106 61-152 (171)
228 PF12105 SpoU_methylas_C: SpoU 35.8 15 0.00032 20.7 0.3 21 42-66 31-51 (57)
229 cd06583 PGRP Peptidoglycan rec 35.7 34 0.00073 21.4 2.1 15 90-104 37-51 (126)
230 PHA02769 hypothetical protein; 35.5 38 0.00082 22.1 2.2 17 8-24 100-116 (154)
231 PF04800 ETC_C1_NDUFA4: ETC co 35.2 40 0.00087 21.2 2.3 20 37-57 56-75 (101)
232 PF07494 Reg_prop: Two compone 34.9 40 0.00086 15.0 1.7 12 90-101 7-18 (24)
233 TIGR02190 GlrX-dom Glutaredoxi 34.7 93 0.002 17.9 5.0 18 40-58 22-39 (79)
234 KOG1257 NADP+-dependent malic 34.6 2.4E+02 0.0051 23.4 6.9 51 9-71 245-295 (582)
235 PF15589 Imm12: Immunity prote 34.3 70 0.0015 21.8 3.5 33 89-123 67-99 (155)
236 PRK15175 Vi polysaccharide exp 33.9 48 0.0011 25.6 3.0 32 92-123 104-140 (355)
237 PRK10638 glutaredoxin 3; Provi 33.9 99 0.0021 17.9 4.1 19 39-58 15-33 (83)
238 PF08918 PhoQ_Sensor: PhoQ Sen 33.7 21 0.00046 24.7 0.9 29 89-120 73-102 (180)
239 PF13021 DUF3885: Domain of un 33.6 49 0.0011 17.0 2.1 12 16-27 4-15 (38)
240 PHA00447 lysozyme 33.6 39 0.00085 22.4 2.2 15 89-103 43-57 (142)
241 PRK05579 bifunctional phosphop 33.4 2.4E+02 0.0052 22.2 9.0 86 9-122 308-393 (399)
242 PRK13286 amiE acylamide amidoh 32.8 46 0.00099 25.5 2.7 16 91-106 118-133 (345)
243 cd07244 FosA FosA, a Fosfomyci 32.7 61 0.0013 19.9 2.9 19 91-109 94-112 (121)
244 cd07566 ScNTA1_like Saccharomy 32.6 45 0.00098 24.8 2.6 15 91-105 103-117 (295)
245 KOG3363 Uncharacterized conser 32.3 1.3E+02 0.0027 21.0 4.4 17 40-57 130-146 (196)
246 TIGR00250 RNAse_H_YqgF RNAse H 32.3 99 0.0021 20.1 3.9 58 5-66 36-95 (130)
247 TIGR01485 SPP_plant-cyano sucr 32.2 1.9E+02 0.004 20.6 5.9 43 4-55 21-63 (249)
248 cd07567 biotinidase_like bioti 32.1 34 0.00074 25.6 1.9 15 91-105 131-145 (299)
249 COG1129 MglA ABC-type sugar tr 32.0 2.9E+02 0.0062 22.6 7.2 22 93-114 215-238 (500)
250 PHA02815 hypothetical protein; 31.7 16 0.00035 20.7 0.1 25 2-28 39-63 (64)
251 cd07582 nitrilase_4 Uncharacte 31.6 50 0.0011 24.3 2.7 15 91-105 111-125 (294)
252 PF07315 DUF1462: Protein of u 31.6 1.3E+02 0.0028 18.6 5.9 50 3-57 19-71 (93)
253 PF13186 SPASM: Iron-sulfur cl 31.5 37 0.0008 18.3 1.6 14 90-103 5-18 (64)
254 PF02643 DUF192: Uncharacteriz 31.4 51 0.0011 20.7 2.3 16 91-106 51-66 (108)
255 PF08448 PAS_4: PAS fold; Int 31.3 45 0.00098 19.4 2.1 14 92-105 8-21 (110)
256 PF12687 DUF3801: Protein of u 31.3 1E+02 0.0022 21.8 4.1 38 9-57 24-61 (204)
257 TIGR00546 lnt apolipoprotein N 31.1 1.4E+02 0.0031 22.9 5.2 11 91-101 381-391 (391)
258 PF03259 Robl_LC7: Roadblock/L 30.3 50 0.0011 19.2 2.1 15 90-104 16-30 (91)
259 PF05228 CHASE4: CHASE4 domain 30.1 55 0.0012 21.3 2.5 13 91-103 52-64 (161)
260 PRK14324 glmM phosphoglucosami 29.8 2E+02 0.0044 22.7 5.9 9 93-101 249-257 (446)
261 PF00989 PAS: PAS fold; Inter 29.8 50 0.0011 19.4 2.1 13 92-104 14-26 (113)
262 cd07565 aliphatic_amidase alip 29.7 57 0.0012 24.1 2.7 15 91-105 104-118 (291)
263 PRK00153 hypothetical protein; 29.3 86 0.0019 19.5 3.1 32 92-123 41-77 (104)
264 PRK03760 hypothetical protein; 29.1 64 0.0014 20.7 2.5 14 92-105 63-76 (117)
265 PRK07329 hypothetical protein; 29.0 1.9E+02 0.0041 20.8 5.3 46 6-58 55-100 (246)
266 PF01510 Amidase_2: N-acetylmu 28.8 39 0.00084 21.3 1.5 14 90-103 38-51 (132)
267 PRK04282 exosome complex RNA-b 28.6 1.1E+02 0.0023 22.4 3.9 32 91-122 221-255 (271)
268 PLN02798 nitrilase 28.5 61 0.0013 23.7 2.7 15 91-105 106-120 (286)
269 cd01088 MetAP2 Methionine Amin 28.4 57 0.0012 24.2 2.5 14 89-102 275-288 (291)
270 COG2607 Predicted ATPase (AAA+ 28.4 2E+02 0.0043 21.5 5.2 44 2-46 120-164 (287)
271 cd08362 BphC5-RrK37_N_like N-t 28.4 86 0.0019 18.9 3.0 18 91-108 101-118 (120)
272 PF11720 Inhibitor_I78: Peptid 28.3 84 0.0018 17.5 2.7 17 90-106 43-59 (60)
273 COG3769 Predicted hydrolase (H 28.3 2.5E+02 0.0054 20.7 6.1 43 12-66 31-74 (274)
274 PF07680 DoxA: TQO small subun 28.2 1E+02 0.0023 20.4 3.4 21 87-107 46-66 (133)
275 TIGR02066 dsrB sulfite reducta 28.1 99 0.0022 23.7 3.8 27 1-27 41-75 (341)
276 PF13848 Thioredoxin_6: Thiore 28.0 1.4E+02 0.0031 19.6 4.3 33 87-119 150-183 (184)
277 PF12949 HeH: HeH/LEM domain; 27.8 30 0.00066 17.4 0.7 19 38-57 5-23 (35)
278 PRK00302 lnt apolipoprotein N- 27.6 2.3E+02 0.005 22.7 6.0 15 91-105 441-455 (505)
279 cd07587 ML_beta-AS mammalian-l 27.5 60 0.0013 25.0 2.6 15 91-105 172-186 (363)
280 PHA02762 hypothetical protein; 27.5 1.2E+02 0.0026 16.9 3.9 29 90-119 29-57 (62)
281 COG0694 Thioredoxin-like prote 27.4 1.2E+02 0.0026 18.8 3.4 30 95-124 38-73 (93)
282 PRK10819 transport protein Ton 27.3 1.1E+02 0.0025 22.3 3.8 32 91-122 185-217 (246)
283 PRK13610 photosystem II reacti 27.3 62 0.0013 20.8 2.2 14 92-105 58-71 (113)
284 COG0526 TrxA Thiol-disulfide i 27.2 97 0.0021 17.7 3.1 26 3-29 48-73 (127)
285 PF00352 TBP: Transcription fa 26.9 1.1E+02 0.0023 18.3 3.1 30 91-122 50-79 (86)
286 cd07581 nitrilase_3 Uncharacte 26.9 69 0.0015 22.7 2.7 15 91-105 93-107 (255)
287 PRK15078 polysaccharide export 26.7 65 0.0014 25.0 2.7 32 92-123 117-153 (379)
288 PF07643 DUF1598: Protein of u 26.7 80 0.0017 19.2 2.5 22 8-29 32-53 (84)
289 cd07576 R-amidase_like Pseudom 26.7 67 0.0015 22.7 2.6 15 91-105 93-107 (254)
290 KOG2116 Protein involved in pl 26.7 3.8E+02 0.0082 23.0 6.9 90 8-105 562-689 (738)
291 cd07564 nitrilases_CHs Nitrila 26.6 63 0.0014 23.8 2.5 15 91-105 107-121 (297)
292 PF02484 Rhabdo_NV: Rhabdoviru 26.5 97 0.0021 19.2 2.8 29 90-119 25-53 (111)
293 PRK13797 putative bifunctional 26.4 1.9E+02 0.0042 23.7 5.3 42 1-49 443-485 (516)
294 TIGR03381 agmatine_aguB N-carb 26.4 71 0.0015 23.0 2.7 24 5-28 17-40 (279)
295 cd03019 DsbA_DsbA DsbA family, 26.4 85 0.0018 20.7 2.9 17 85-104 140-156 (178)
296 smart00644 Ami_2 Ami_2. 26.4 66 0.0014 20.2 2.3 16 89-104 33-48 (126)
297 TIGR00501 met_pdase_II methion 26.4 66 0.0014 23.9 2.6 15 88-102 278-292 (295)
298 PF05378 Hydant_A_N: Hydantoin 26.2 1.3E+02 0.0027 20.7 3.8 42 5-47 132-173 (176)
299 PRK11789 N-acetyl-anhydromuran 26.0 63 0.0014 22.6 2.2 14 90-103 75-88 (185)
300 PF06018 CodY: CodY GAF-like d 26.0 1.3E+02 0.0029 20.9 3.8 17 91-107 37-53 (177)
301 PF02142 MGS: MGS-like domain 25.9 98 0.0021 18.6 2.9 35 9-57 2-37 (95)
302 cd01612 APG12_C Ubiquitin-like 25.9 97 0.0021 18.8 2.8 21 8-28 62-82 (87)
303 PF07449 HyaE: Hydrogenase-1 e 25.9 1.1E+02 0.0024 19.4 3.1 28 85-113 79-106 (107)
304 PF13426 PAS_9: PAS domain; PD 25.6 66 0.0014 18.4 2.1 13 92-104 4-16 (104)
305 cd07571 ALP_N-acyl_transferase 25.5 2.6E+02 0.0057 20.2 6.6 14 92-105 222-235 (270)
306 cd09011 Glo_EDI_BRP_like_23 Th 25.5 92 0.002 19.0 2.8 17 90-106 102-118 (120)
307 TIGR03047 PS_II_psb28 photosys 25.5 70 0.0015 20.5 2.2 14 92-105 51-64 (109)
308 COG1430 Uncharacterized conser 25.4 81 0.0018 20.7 2.5 16 91-106 65-80 (126)
309 PF02670 DXP_reductoisom: 1-de 25.4 1.7E+02 0.0037 19.2 4.1 38 11-57 16-53 (129)
310 COG0810 TonB Periplasmic prote 25.3 1.1E+02 0.0025 22.0 3.6 29 90-118 183-212 (244)
311 cd03419 GRX_GRXh_1_2_like Glut 25.2 1.4E+02 0.003 16.8 4.3 21 40-62 14-34 (82)
312 PLN00039 photosystem II reacti 24.9 73 0.0016 20.5 2.2 14 92-105 52-65 (111)
313 cd02980 TRX_Fd_family Thioredo 24.9 1.3E+02 0.0027 17.0 3.2 26 90-120 51-76 (77)
314 PRK04101 fosfomycin resistance 24.9 1.1E+02 0.0024 19.4 3.2 29 90-120 102-130 (139)
315 CHL00128 psbW photosystem II p 24.9 73 0.0016 20.5 2.2 14 92-105 54-67 (113)
316 TIGR00035 asp_race aspartate r 24.7 1.7E+02 0.0037 20.7 4.4 43 6-58 61-103 (229)
317 cd04480 RPA1_DBD_A_like RPA1_D 24.6 1.6E+02 0.0034 17.3 3.6 15 90-104 21-35 (86)
318 PRK13612 photosystem II reacti 24.6 75 0.0016 20.5 2.2 14 92-105 54-67 (113)
319 PRK11024 colicin uptake protei 24.6 2.1E+02 0.0045 18.7 4.6 34 90-123 62-99 (141)
320 PRK10954 periplasmic protein d 24.5 1.4E+02 0.0031 20.7 3.9 37 85-124 164-206 (207)
321 PF08235 LNS2: LNS2 (Lipin/Ned 24.4 1.5E+02 0.0033 20.1 3.8 35 7-47 30-65 (157)
322 TIGR01662 HAD-SF-IIIA HAD-supe 24.2 1.5E+02 0.0033 18.5 3.7 47 6-55 27-75 (132)
323 PF12681 Glyoxalase_2: Glyoxal 24.1 93 0.002 18.3 2.6 15 90-104 93-107 (108)
324 cd07252 BphC1-RGP6_N_like N-te 24.1 1.1E+02 0.0025 18.7 3.1 18 91-108 101-118 (120)
325 cd01427 HAD_like Haloacid deha 24.1 1.5E+02 0.0032 17.8 3.6 39 5-52 25-63 (139)
326 PRK13611 photosystem II reacti 24.1 78 0.0017 20.1 2.2 14 92-105 47-60 (104)
327 PRK00989 truB tRNA pseudouridi 23.9 1.2E+02 0.0025 22.1 3.3 28 95-122 87-114 (230)
328 cd07568 ML_beta-AS_like mammal 23.9 79 0.0017 22.9 2.6 15 91-105 109-123 (287)
329 COG4312 Uncharacterized protei 23.8 1.7E+02 0.0036 21.4 4.0 32 19-59 111-142 (247)
330 TIGR00495 crvDNA_42K 42K curve 23.8 83 0.0018 24.6 2.7 20 86-105 317-336 (389)
331 PHA02360 hypothetical protein 23.7 43 0.00093 19.3 0.9 21 5-25 27-48 (70)
332 PRK00109 Holliday junction res 23.6 2.2E+02 0.0048 18.6 5.9 58 5-66 42-101 (138)
333 PF12017 Tnp_P_element: Transp 23.5 1.7E+02 0.0036 21.3 4.1 19 11-29 200-218 (236)
334 PF13419 HAD_2: Haloacid dehal 23.5 1.8E+02 0.0038 18.5 4.0 42 7-57 80-123 (176)
335 PF01123 Stap_Strp_toxin: Stap 23.3 1E+02 0.0022 18.7 2.5 18 11-28 48-65 (87)
336 PF08735 DUF1786: Putative pyr 23.2 1.4E+02 0.003 22.1 3.6 30 92-122 181-213 (254)
337 cd08345 Fosfomycin_RP Fosfomyc 23.2 1.2E+02 0.0027 17.9 3.1 18 91-108 95-112 (113)
338 cd07569 DCase N-carbamyl-D-ami 23.1 79 0.0017 23.3 2.4 15 91-105 110-124 (302)
339 PLN00202 beta-ureidopropionase 23.1 85 0.0018 24.6 2.7 15 91-105 193-207 (405)
340 cd04742 NPD_FabD 2-Nitropropan 23.0 64 0.0014 25.6 2.0 14 44-58 5-18 (418)
341 TIGR02189 GlrX-like_plant Glut 22.9 1.9E+02 0.0041 17.6 4.2 21 40-62 22-42 (99)
342 PF13783 DUF4177: Domain of un 22.9 1.5E+02 0.0032 16.3 3.2 24 5-28 18-41 (61)
343 COG1791 Uncharacterized conser 22.9 2.7E+02 0.0059 19.4 7.5 39 8-51 55-93 (181)
344 PF09547 Spore_IV_A: Stage IV 22.8 1.4E+02 0.0031 24.1 3.8 38 10-57 202-239 (492)
345 COG3195 Uncharacterized protei 22.4 88 0.0019 21.7 2.3 26 1-26 101-128 (176)
346 PRK13287 amiF formamidase; Pro 22.4 90 0.002 23.7 2.7 16 91-106 116-131 (333)
347 cd07572 nit Nit1, Nit 2, and r 22.4 92 0.002 22.1 2.6 23 6-28 17-39 (265)
348 TIGR01455 glmM phosphoglucosam 22.4 3.7E+02 0.0081 21.1 6.2 8 94-101 247-254 (443)
349 cd07584 nitrilase_6 Uncharacte 22.3 93 0.002 22.1 2.6 15 91-105 98-112 (258)
350 cd02976 NrdH NrdH-redoxin (Nrd 22.2 1.4E+02 0.0031 15.9 4.5 18 40-58 14-31 (73)
351 PF03640 Lipoprotein_15: Secre 22.2 1.4E+02 0.003 15.9 2.7 18 92-109 10-27 (48)
352 cd07583 nitrilase_5 Uncharacte 22.1 97 0.0021 21.9 2.7 15 91-105 93-107 (253)
353 PF05711 TylF: Macrocin-O-meth 22.1 65 0.0014 23.6 1.8 52 4-63 190-241 (248)
354 COG0105 Ndk Nucleoside diphosp 22.0 2.5E+02 0.0055 18.7 4.4 57 9-72 19-86 (135)
355 PF05221 AdoHcyase: S-adenosyl 21.9 1.3E+02 0.0028 22.4 3.3 22 3-24 22-47 (268)
356 PF04914 DltD_C: DltD C-termin 21.9 1.5E+02 0.0033 19.4 3.4 28 2-29 31-58 (130)
357 PF02852 Pyr_redox_dim: Pyridi 21.8 1.6E+02 0.0034 18.0 3.4 32 90-121 50-82 (110)
358 KOG1014 17 beta-hydroxysteroid 21.7 3.7E+02 0.0081 20.6 6.1 58 11-77 64-121 (312)
359 COG3531 Predicted protein-disu 21.7 1.7E+02 0.0037 21.0 3.7 38 85-123 171-210 (212)
360 PF07293 DUF1450: Protein of u 21.7 1.3E+02 0.0028 18.0 2.7 23 98-124 52-74 (78)
361 TIGR00431 TruB tRNA pseudourid 21.6 1.4E+02 0.0031 21.2 3.4 28 95-122 79-106 (209)
362 cd04418 NDPk5 Nucleoside dipho 21.6 2.4E+02 0.0052 18.3 4.5 37 9-51 15-51 (132)
363 PF10740 DUF2529: Protein of u 21.4 33 0.00073 23.8 0.1 20 8-27 96-115 (172)
364 PF10184 DUF2358: Uncharacteri 21.4 81 0.0018 19.8 1.9 13 91-103 100-112 (113)
365 PF06342 DUF1057: Alpha/beta h 21.3 2.3E+02 0.0051 21.5 4.5 23 11-33 53-75 (297)
366 PF07240 Turandot: Stress-indu 21.3 85 0.0018 19.2 1.9 16 4-19 10-25 (85)
367 TIGR00067 glut_race glutamate 21.3 2.3E+02 0.0051 20.5 4.5 23 7-29 47-70 (251)
368 TIGR03143 AhpF_homolog putativ 21.1 4.6E+02 0.0099 21.3 9.1 94 6-122 354-454 (555)
369 KOG4013 Predicted Cu2+ homeost 21.1 1.4E+02 0.0031 21.4 3.2 29 1-29 75-106 (255)
370 PRK10696 tRNA 2-thiocytidine b 21.1 3.3E+02 0.0071 19.7 5.5 37 19-58 58-94 (258)
371 PLN02504 nitrilase 21.0 1E+02 0.0022 23.6 2.7 16 91-106 136-151 (346)
372 PRK14315 glmM phosphoglucosami 21.0 3.7E+02 0.008 21.2 5.9 18 39-57 224-241 (448)
373 cd03028 GRX_PICOT_like Glutare 20.8 1.6E+02 0.0035 17.4 3.1 18 40-58 27-44 (90)
374 PF02256 Fe_hyd_SSU: Iron hydr 20.7 82 0.0018 17.6 1.6 15 4-18 27-41 (60)
375 PF15337 Vasculin: Vascular pr 20.7 1.1E+02 0.0023 19.1 2.2 23 1-23 34-56 (97)
376 PF13986 DUF4224: Domain of un 20.6 85 0.0018 16.7 1.6 12 93-104 31-42 (47)
377 PF03912 Psb28: Psb28 protein; 20.6 85 0.0018 20.1 1.8 15 90-104 49-63 (108)
378 PF04478 Mid2: Mid2 like cell 20.5 72 0.0016 21.7 1.6 16 92-107 80-95 (154)
379 TIGR00099 Cof-subfamily Cof su 20.4 3.2E+02 0.007 19.3 9.6 38 11-57 23-60 (256)
380 PF02055 Glyco_hydro_30: O-Gly 20.4 1.2E+02 0.0026 24.6 3.1 37 8-48 209-259 (496)
381 TIGR01552 phd_fam prevent-host 20.2 57 0.0012 17.2 0.9 15 93-107 24-38 (52)
382 TIGR02742 TrbC_Ftype type-F co 20.1 2.7E+02 0.0058 18.3 7.9 34 85-118 68-111 (130)
383 PRK10887 glmM phosphoglucosami 20.1 4.4E+02 0.0095 20.7 6.7 9 93-101 245-253 (443)
384 PRK14323 glmM phosphoglucosami 20.1 3.7E+02 0.0081 21.1 5.8 8 94-101 248-255 (440)
385 PF02114 Phosducin: Phosducin; 20.0 2E+02 0.0043 21.2 4.0 24 85-109 195-218 (265)
No 1
>COG0386 BtuE Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.8e-34 Score=191.51 Aligned_cols=121 Identities=54% Similarity=0.954 Sum_probs=114.4
Q ss_pred hhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCC-C
Q 033205 4 SNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGI-F 82 (125)
Q Consensus 4 ~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~-~ 82 (125)
+++..|++||++|+++||+|||++||+|++||+.+.+++++|++.+||++||+++++|++|..++|||+||+++.++. +
T Consensus 41 pQYegLe~Ly~ky~~~Gf~VLgFPcNQF~~QEPg~~eEI~~fC~~~YgVtFp~f~Ki~VnG~~a~PLy~~L~~~~~g~~~ 120 (162)
T COG0386 41 PQYEGLEALYKKYKDKGFEVLGFPCNQFGGQEPGSDEEIAKFCQLNYGVTFPMFSKIDVNGKNAHPLYKYLKEQKPGKLG 120 (162)
T ss_pred HhHHHHHHHHHHHhhCCcEEEeccccccccCCCCCHHHHHHHHHhccCceeeeeeEEeecCCCCCcHHHHHHhcCCCCcc
Confidence 589999999999999999999999999999999999999999998999999999999999999999999999987653 3
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
|..|.|++|+|||||+|+||.|+...++|++++..|+++|++
T Consensus 121 ~~~IkWNFtKFLvdr~G~VV~Rf~p~t~P~d~~~~Ie~lL~~ 162 (162)
T COG0386 121 GKDIKWNFTKFLVDRDGNVVKRFSPKTKPEDIELAIEKLLAE 162 (162)
T ss_pred CCccceeeEEEEEcCCCcEEEeeCCCCChhhHHHHHHHHhcC
Confidence 468999999999999999999999999999999999999975
No 2
>KOG1651 consensus Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=4.4e-31 Score=177.20 Aligned_cols=124 Identities=66% Similarity=1.143 Sum_probs=117.8
Q ss_pred CChhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCC
Q 033205 1 MTNSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWG 80 (125)
Q Consensus 1 ~~~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~ 80 (125)
||.+.+.+|+.||++|+++||+|+|++|++|+.|||.+.+++..|++.+++..||++.++|++|..++|+|++|+++.++
T Consensus 48 ~T~~~Y~~l~~L~~ky~~~Gl~ILaFPCNQFg~QEp~~n~Ei~~f~~~r~~~~f~if~KidVNG~~~~PlykfLK~~~~~ 127 (171)
T KOG1651|consen 48 LTESQYTELNELYEKYKDQGLEILAFPCNQFGNQEPGSNEEILNFVKVRYGAEFPIFQKIDVNGDNADPLYKFLKKVKGG 127 (171)
T ss_pred cchhcchhHHHHHHHHhhCCeEEEEeccccccCcCCCCcHHHHHHHHhccCCCCccEeEEecCCCCCchHHHHHhhcCCC
Confidence 68889999999999999999999999999999999999999999998899999999999999999999999999999887
Q ss_pred CCCCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 81 IFGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 81 ~~g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
.+|..|.|++++|||||+|+|+.|+....++.+++..|+++|++
T Consensus 128 ~lg~~IkWNF~KFLVd~~G~vv~Ry~ptt~p~~~~~dIe~lL~~ 171 (171)
T KOG1651|consen 128 PLGDDIKWNFTKFLVDKDGHVVKRFSPTTSPLDIEKDIEKLLAQ 171 (171)
T ss_pred cccccceeeeEEEeECCCCcEEEeeCCCCCccccchhHHHHhcC
Confidence 77778999999999999999999998888899999999999864
No 3
>PRK10606 btuE putative glutathione peroxidase; Provisional
Probab=99.96 E-value=1.1e-28 Score=171.27 Aligned_cols=121 Identities=40% Similarity=0.763 Sum_probs=108.5
Q ss_pred hhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCC---
Q 033205 4 SNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWG--- 80 (125)
Q Consensus 4 ~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~--- 80 (125)
.|||.|++||++|+++|++||||++++|+.||+++.+++++|++++++++||+++++|++|..++|+|+||+.+++.
T Consensus 41 ~q~~~L~~L~~~y~~~gl~Vlg~p~nqf~~qe~~~~~ei~~f~~~~~g~~Fpv~~k~dvnG~~~~pl~~~Lk~~~~~~~~ 120 (183)
T PRK10606 41 PQYEQLENIQKAWADQGFVVLGFPCNQFLGQEPGSDEEIKTYCRTTWGVTFPMFSKIEVNGEGRHPLYQKLIAAAPTAVA 120 (183)
T ss_pred HHHHHHHHHHHHHhhCCeEEEEeeccccccCCCCCHHHHHHHHHHccCCCceeEEEEccCCCCCCHHHHHHHHhCCCCcC
Confidence 48999999999999999999999999999999999999999995468999999999999999999999999987641
Q ss_pred -----C------------CCCCcccceeeEEECCCCcEEEEEcCCCChhH--HHHHHHHhhcc
Q 033205 81 -----I------------FGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLS--LEHDIKKLLGL 124 (125)
Q Consensus 81 -----~------------~g~~i~~~PttflId~~G~v~~~~~G~~~~~~--l~~~I~~ll~~ 124 (125)
+ .+..|+|++++||||++|+|+.|+...+.+.+ +++.|+++|++
T Consensus 121 ~~~~~~~~~~~~~~~~p~~~~~i~WNF~KFLv~~~G~vv~r~~~~~~p~~~~i~~~i~~~l~~ 183 (183)
T PRK10606 121 PEESGFYARMVSKGRAPLYPDDILWNFEKFLVGRDGQVIQRFSPDMTPEDPIVMESIKLALAK 183 (183)
T ss_pred ccccchhhhhhccccccccCCcccccCEEEEECCCCcEEEEECCCCCCCHHHHHHHHHHHhcC
Confidence 1 12368999999999999999999998888887 99999998853
No 4
>PLN02412 probable glutathione peroxidase
Probab=99.94 E-value=7e-26 Score=155.39 Aligned_cols=124 Identities=65% Similarity=1.143 Sum_probs=103.4
Q ss_pred ChhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 2 TNSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
+..|||.|+++|++|+++|++||||++|++..++.++.+++.++..++++++||++.+.|.+|....+.|+++....++.
T Consensus 44 c~~e~~~l~~l~~~~~~~g~~vvgv~~~~~~~~~~~~~~~~~~~~~~~~~~~fpvl~~~d~~g~~~~~~~~~~~~~~~~~ 123 (167)
T PLN02412 44 TDSNYKELNVLYEKYKEQGFEILAFPCNQFLGQEPGSNEEIQQTVCTRFKAEFPIFDKVDVNGKNTAPLYKYLKAEKGGL 123 (167)
T ss_pred hHHHHHHHHHHHHHHhhCCcEEEEecccccccCCCCCHHHHHHHHHHccCCCCceEeEEeeCCCCCCHHHHHHHhhCCCC
Confidence 56799999999999999999999999987765555667776665425789999999656788766777898887765544
Q ss_pred CCCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhccC
Q 033205 82 FGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGLS 125 (125)
Q Consensus 82 ~g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~~ 125 (125)
+|..+.|+|+|||||++|+|++++.|.+++++|++.|+++|++.
T Consensus 124 ~~~~v~~~p~tflId~~G~vv~~~~g~~~~~~l~~~i~~~l~~~ 167 (167)
T PLN02412 124 FGDAIKWNFTKFLVSKEGKVVQRYAPTTSPLKIEKDIQNLLGQA 167 (167)
T ss_pred CCCCcCCCCeeEEECCCCcEEEEECCCCCHHHHHHHHHHHHhhC
Confidence 44457889999999999999999999999999999999999863
No 5
>PLN02399 phospholipid hydroperoxide glutathione peroxidase
Probab=99.94 E-value=1.2e-25 Score=161.42 Aligned_cols=123 Identities=66% Similarity=1.147 Sum_probs=103.9
Q ss_pred ChhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 2 TNSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
...|||+|++||++|+++|++||||+++++..++.++.+++++|++++++++||++.+.|.+|....+.|+++....++.
T Consensus 114 c~~e~p~L~~L~~~~~~~Gv~VIgV~~d~~~~~e~~s~~ei~~f~~~~~g~~fPvl~~~D~~G~~~~~~y~~l~~~~~~~ 193 (236)
T PLN02399 114 TSSNYSELSHLYEKYKTQGFEILAFPCNQFGGQEPGSNPEIKQFACTRFKAEFPIFDKVDVNGPSTAPVYQFLKSNAGGF 193 (236)
T ss_pred hHHHHHHHHHHHHHHhcCCcEEEEEecccccccCCCCHHHHHHHHHHhcCCCCccccccCCCcchhhHHHHHHHHhcCCc
Confidence 45799999999999999999999999998776776778899999844789999999655777877777888876554433
Q ss_pred CCCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 82 FGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 82 ~g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
.|..++|+|+|||||++|+|++++.|.+++++|++.|+++|+.
T Consensus 194 ~g~~i~~~PttfLIDk~GkVv~~~~G~~~~~~le~~I~~lL~~ 236 (236)
T PLN02399 194 LGDLIKWNFEKFLVDKNGKVVERYPPTTSPFQIEKDIQKLLAA 236 (236)
T ss_pred cCCccccCceEEEECCCCcEEEEECCCCCHHHHHHHHHHHhcC
Confidence 3334788999999999999999999999999999999999863
No 6
>PTZ00056 glutathione peroxidase; Provisional
Probab=99.92 E-value=2.2e-24 Score=151.74 Aligned_cols=122 Identities=39% Similarity=0.642 Sum_probs=104.5
Q ss_pred ChhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 2 TNSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
+..|||.|++++++|+++|++||||++++|..++.++.+++++|++ +++++||++.+.+.+|....++|+++..+....
T Consensus 54 C~~e~p~L~~l~~~~~~~g~~vvgv~~~~~~~~e~d~~e~~~~f~~-~~~~~fpvl~d~~v~g~~~~~l~~~l~~~~~~~ 132 (199)
T PTZ00056 54 TKKHVDQMNRLHSVFNPLGLEILAFPTSQFLNQEFPNTKDIRKFND-KNKIKYNFFEPIEVNGENTHELFKFLKANCDSM 132 (199)
T ss_pred hHHHHHHHHHHHHHHhcCceEEEEecchhccCCCCCCHHHHHHHHH-HcCCCceeeeeeeccCCccCHHHHHHHHhCccc
Confidence 5689999999999999999999999999887777678899999995 789999999666678888889999988665433
Q ss_pred CC-----CCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 82 FG-----DDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 82 ~g-----~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
|+ ..+.|.|+|||||++|+|++++.|..+++.+++.|+++|++
T Consensus 133 ~d~~~~~~~i~~~~~tflID~~G~iv~~~~g~~~~~~l~~~I~~ll~~ 180 (199)
T PTZ00056 133 HDENGTLKAIGWNFGKFLVNKSGNVVAYFSPRTEPLELEKKIAELLGV 180 (199)
T ss_pred ccccccCCccCCCCEEEEECCCCcEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 32 12456679999999999999999999999999999999865
No 7
>PTZ00256 glutathione peroxidase; Provisional
Probab=99.90 E-value=1.2e-22 Score=141.18 Aligned_cols=122 Identities=43% Similarity=0.770 Sum_probs=100.4
Q ss_pred ChhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 2 TNSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
...|||.|++++++|+++|+.||||+++++..+++.+.+++++|++++++++||++.+.|.+|....++|+++..+...
T Consensus 56 C~~e~p~l~~l~~~~~~~gv~vv~vs~~~~~~~~~~~~~~~~~f~~~~~~~~fpv~~d~d~~g~~~~~~~~~l~~~~~~- 134 (183)
T PTZ00256 56 TSDHYTQLVELYKQYKSQGLEILAFPCNQFMEQEPWDEPEIKEYVQKKFNVDFPLFQKIEVNGENTHEIYKYLRRNSEL- 134 (183)
T ss_pred hHHHHHHHHHHHHHHhhCCcEEEEEecccccccCCCCHHHHHHHHHHhcCCCCCCceEEecCCCCCCHHHHHHHhhCCC-
Confidence 4679999999999999999999999998665555556788999985578999999966678888777899988887542
Q ss_pred CC---CCcccce---eeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 82 FG---DDIQWNF---AKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 82 ~g---~~i~~~P---ttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
|+ +.+..+| +|||||++|+|++++.|.++++.+++.|.++|+.
T Consensus 135 ~~~~~~~~~~iP~~~~tflID~~G~Iv~~~~g~~~~~~l~~~I~~ll~~ 183 (183)
T PTZ00256 135 FQNNTNEARQIPWNFAKFLIDGQGKVVKYFSPKVNPNEMIQDIEKLLNA 183 (183)
T ss_pred CcCccccCcccCcceEEEEECCCCCEEEEECCCCCHHHHHHHHHHHhcC
Confidence 21 1355667 5799999999999999999999999999999863
No 8
>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=99.89 E-value=3.4e-22 Score=135.01 Aligned_cols=117 Identities=36% Similarity=0.706 Sum_probs=93.8
Q ss_pred ChhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 2 TNSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
...|||.|++++++|+++|+.|||||+++++.+++++.+.+++|++++++++||++.+.|..+....+.|+++....+
T Consensus 37 c~~~~~~l~~l~~~~~~~~~~v~~i~~~~~~~~~~d~~~~~~~f~~~~~~~~fp~~~d~~~~~~~~~~~~~~~~~~~~-- 114 (153)
T TIGR02540 37 TDQNYRALQELHRELGPSHFNVLAFPCNQFGESEPDSSKEIESFARRNYGVTFPMFSKIKILGSEAEPAFRFLVDSSK-- 114 (153)
T ss_pred hhhhHHHHHHHHHHHhhCCeEEEEEeccccccCCCCCHHHHHHHHHHhcCCCCCccceEecCCCCCCcHHHHHHhcCC--
Confidence 468999999999999999999999999877766667889999999534799999995444455556666776654221
Q ss_pred CCCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 82 FGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 82 ~g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
.-+.|+.+|||||++|+|+.++.|.+++++|++.|+++|
T Consensus 115 --~~p~~~~~tflID~~G~v~~~~~g~~~~~~l~~~i~~l~ 153 (153)
T TIGR02540 115 --KEPRWNFWKYLVNPEGQVVKFWRPEEPVEEIRPEITALV 153 (153)
T ss_pred --CCCCCccEEEEEcCCCcEEEEECCCCCHHHHHHHHHHhC
Confidence 123455569999999999999999999999999998875
No 9
>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=99.89 E-value=4.4e-22 Score=134.42 Aligned_cols=116 Identities=57% Similarity=1.041 Sum_probs=88.4
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..|||.|++++++|+++|++||||++++++.++.++.+.+++|++++++++||++.+.|.+|......|+.+....++..
T Consensus 37 ~~e~p~l~~l~~~~~~~~~~vv~v~~~~~~~~~~~~~~~~~~f~~~~~~~~fp~~~d~d~~~~~~~~~~~~~~~~~p~~~ 116 (152)
T cd00340 37 TPQYEGLEALYEKYKDRGLVVLGFPCNQFGGQEPGSNEEIKEFCETNYGVTFPMFAKIDVNGENAHPLYKYLKEEAPGLL 116 (152)
T ss_pred hHHHHHHHHHHHHhcCCCEEEEEeccCccccCCCCCHHHHHHHHHHhcCCCceeeeeEeccCCCCChHHHHHHhcCCCCC
Confidence 47999999999999999999999998866555556788999999533799999995444466544556665444332211
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
|..+.+.|+|||||++|+|++++.|.+++++|++.|
T Consensus 117 ~~~~~~~~ttflId~~G~i~~~~~G~~~~~~l~~~i 152 (152)
T cd00340 117 GKDIKWNFTKFLVDRDGEVVKRFAPTTDPEELEKDI 152 (152)
T ss_pred CCccccccEEEEECCCCcEEEEECCCCCHHHHHhcC
Confidence 123566779999999999999999999988887643
No 10
>PF00255 GSHPx: Glutathione peroxidase; InterPro: IPR000889 Glutathione peroxidase (GSHPx) (1.11.1.9 from EC) is an enzyme that catalyses the reduction of hydroxyperoxides by glutathione [, ]. Its main function is to protect against the damaging effect of endogenously formed hydroxyperoxides. In higher vertebrates, several forms of GSHPx are known, including a ubiquitous cytosolic form (GSHPx-1), a gastrointestinal cytosolic form (GSHPx-GI), a plasma secreted form (GSHPx-P), and an epididymal secretory form (GSHPx-EP). In addition to these characterised forms, the sequence of a protein of unknown function [] has been shown to be evolutionary related to those of GSHPx's. In filarial nematode parasites, the major soluble cuticular protein (gp29) is a secreted GSHPx, which may provide a mechanism of resistance to the immune reaction of the mammalian host by neutralising the products of the oxidative burst of leukocytes []. The Escherichia coli protein btuE, a periplasmic protein involved in vitamin B12 transport, is evolutionarily related to GSHPxs, although the significance of this relationship is unclear. The structure of bovine seleno-glutathione peroxidase has been determined []. The protein belongs to the alpha-beta class, with a 3 layer(aba) sandwich architecture. The catalyic site of GSHPx contains a conserved residue which is either a cysteine or, in many eukaryotic GSHPx, a selenocysteine []. ; GO: 0004602 glutathione peroxidase activity, 0006979 response to oxidative stress, 0055114 oxidation-reduction process; PDB: 3E0U_A 2VUP_A 2RM5_A 2RM6_A 3DWV_B 2P31_B 2R37_B 1GP1_B 2F8A_B 3KIJ_C ....
Probab=99.77 E-value=8.6e-19 Score=112.06 Aligned_cols=74 Identities=64% Similarity=1.161 Sum_probs=66.8
Q ss_pred CChhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHH
Q 033205 1 MTNSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLK 75 (125)
Q Consensus 1 ~~~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~ 75 (125)
+|+ ++.+|++||++|+++||+|||++|++|+.||+++.++++.|++.+++.+||++.+.|++|..++|+|+||+
T Consensus 35 ~t~-qy~~L~~L~~ky~~~gl~ILaFPcnqFg~QEp~~~~ei~~~~~~~~~~~F~vf~ki~VnG~~ahPly~~LK 108 (108)
T PF00255_consen 35 YTK-QYKQLNELYEKYKDKGLEILAFPCNQFGNQEPGSNEEIKEFCKEKFGVTFPVFEKIDVNGPDAHPLYKYLK 108 (108)
T ss_dssp THH-HHHHHHHHHHHHGGGTEEEEEEEBSTTTTTTSSCHHHHHHHHCHCHT-SSEEBS-BBSSSTTB-HHHHHHH
T ss_pred Ccc-ccHHHHHHHHHHhcCCeEEEeeehHHhccccCCCHHHHHHHHHhccCCcccceEEEEecCCCCcHHHHHhC
Confidence 466 99999999999999999999999999999999999999999976689999999999999999999999984
No 11
>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=99.74 E-value=1.5e-17 Score=108.80 Aligned_cols=87 Identities=23% Similarity=0.323 Sum_probs=71.6
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..++|.|++++++|+++|+.||+|+++++.. + ++.+.+++|++ +++++||++ .|.++..... |
T Consensus 39 ~~~~p~l~~l~~~~~~~~~~vi~i~~~~~~~-~-~~~~~~~~~~~-~~~~~~p~~--~D~~~~~~~~------------~ 101 (126)
T cd03012 39 LHTLPYLTDLEQKYKDDGLVVIGVHSPEFAF-E-RDLANVKSAVL-RYGITYPVA--NDNDYATWRA------------Y 101 (126)
T ss_pred HHHHHHHHHHHHHcCcCCeEEEEeccCcccc-c-cCHHHHHHHHH-HcCCCCCEE--ECCchHHHHH------------h
Confidence 5799999999999999999999999864421 2 36889999995 789999999 6766544331 5
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCC
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPT 108 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~ 108 (125)
++..+|++||||++|+|++++.|+
T Consensus 102 --~v~~~P~~~vid~~G~v~~~~~G~ 125 (126)
T cd03012 102 --GNQYWPALYLIDPTGNVRHVHFGE 125 (126)
T ss_pred --CCCcCCeEEEECCCCcEEEEEecC
Confidence 477889999999999999999886
No 12
>PRK15412 thiol:disulfide interchange protein DsbE; Provisional
Probab=99.69 E-value=3.7e-16 Score=108.71 Aligned_cols=95 Identities=18% Similarity=0.212 Sum_probs=77.1
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..|||.|+++++ +|+.||+|+.+ ++.+++++|++ +++++||++. .|.++.... .|
T Consensus 84 ~~e~p~l~~l~~----~~~~vi~v~~~-------~~~~~~~~~~~-~~~~~~~~~~-~D~~~~~~~------------~~ 138 (185)
T PRK15412 84 RAEHQYLNQLSA----QGIRVVGMNYK-------DDRQKAISWLK-ELGNPYALSL-FDGDGMLGL------------DL 138 (185)
T ss_pred HHHHHHHHHHHH----cCCEEEEEECC-------CCHHHHHHHHH-HcCCCCceEE-EcCCccHHH------------hc
Confidence 578999998864 47999999964 35778999995 7899999642 576655433 15
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
++.++|+|||||++|+|++++.|.++.+++++.|++++++
T Consensus 139 --gv~~~P~t~vid~~G~i~~~~~G~~~~~~l~~~i~~~~~~ 178 (185)
T PRK15412 139 --GVYGAPETFLIDGNGIIRYRHAGDLNPRVWESEIKPLWEK 178 (185)
T ss_pred --CCCcCCeEEEECCCceEEEEEecCCCHHHHHHHHHHHHHH
Confidence 4788999999999999999999999999999999988754
No 13
>COG1225 Bcp Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=99.68 E-value=2.1e-16 Score=106.78 Aligned_cols=94 Identities=18% Similarity=0.408 Sum_probs=72.0
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
+.|++.|++.+++|.+.|.+|||||. |+++.+++|+ ++++++||++ .|.++..+. .|.-+..+. .|
T Consensus 47 T~Ea~~Frd~~~ef~~~~a~V~GIS~--------Ds~~~~~~F~-~k~~L~f~LL--SD~~~~v~~-~ygv~~~k~--~~ 112 (157)
T COG1225 47 TTEACDFRDLLEEFEKLGAVVLGISP--------DSPKSHKKFA-EKHGLTFPLL--SDEDGEVAE-AYGVWGEKK--MY 112 (157)
T ss_pred hHHHHHHHHHHHHHHhCCCEEEEEeC--------CCHHHHHHHH-HHhCCCceee--ECCcHHHHH-HhCcccccc--cC
Confidence 47999999999999999999999995 4789999999 5889999999 688777655 454322221 23
Q ss_pred CCCc-ccceeeEEECCCCcEEEEEcCCCCh
Q 033205 83 GDDI-QWNFAKFLVDKNGQVVDRYYPTTSL 111 (125)
Q Consensus 83 g~~i-~~~PttflId~~G~v~~~~~G~~~~ 111 (125)
|... ...++|||||++|+|++.|. .+++
T Consensus 113 gk~~~~~~R~TfvId~dG~I~~~~~-~v~~ 141 (157)
T COG1225 113 GKEYMGIERSTFVIDPDGKIRYVWR-KVKV 141 (157)
T ss_pred ccccccccceEEEECCCCeEEEEec-CCCC
Confidence 3211 24599999999999999993 3443
No 14
>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=99.64 E-value=4.7e-15 Score=101.65 Aligned_cols=105 Identities=21% Similarity=0.275 Sum_probs=81.5
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..++|.|++|+++|+++++.||+|+++....++.++.+.+++|++ +++++||++ .|.++.... .|
T Consensus 41 ~~~~~~l~~l~~~~~~~~v~~v~is~d~~~~~~~d~~~~~~~~~~-~~~~~~~~l--~D~~~~~~~------------~~ 105 (171)
T cd02969 41 KAIEDRLNRLAKEYGAKGVAVVAINSNDIEAYPEDSPENMKAKAK-EHGYPFPYL--LDETQEVAK------------AY 105 (171)
T ss_pred HHHHHHHHHHHHHHhhCCeEEEEEecCccccccccCHHHHHHHHH-HCCCCceEE--ECCchHHHH------------Hc
Confidence 468999999999999889999999987422122256889999995 789999999 676654333 14
Q ss_pred CCCcccceeeEEECCCCcEEEEEc---------CCCChhHHHHHHHHhhcc
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYY---------PTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~---------G~~~~~~l~~~I~~ll~~ 124 (125)
++...|++||||++|+|+++.. +..+..++.+.|+.+|..
T Consensus 106 --~v~~~P~~~lid~~G~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~ 154 (171)
T cd02969 106 --GAACTPDFFLFDPDGKLVYRGRIDDSRPGNDPPVTGRDLRAALDALLAG 154 (171)
T ss_pred --CCCcCCcEEEECCCCeEEEeecccCCcccccccccHHHHHHHHHHHHcC
Confidence 4677899999999999998752 224557899999998865
No 15
>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=99.63 E-value=2.7e-15 Score=99.17 Aligned_cols=91 Identities=21% Similarity=0.430 Sum_probs=73.8
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..++|.|++++++|+++|++||+|+.+ +.+.+++|++ +++++||++ .|.++..... |
T Consensus 40 ~~~~~~l~~~~~~~~~~~~~vv~is~d--------~~~~~~~~~~-~~~~~~~~l--~D~~~~~~~~------------~ 96 (140)
T cd03017 40 TKEACDFRDLYEEFKALGAVVIGVSPD--------SVESHAKFAE-KYGLPFPLL--SDPDGKLAKA------------Y 96 (140)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEcCC--------CHHHHHHHHH-HhCCCceEE--ECCccHHHHH------------h
Confidence 468999999999999999999999964 4788999995 689999999 6766544331 3
Q ss_pred CCCcccc---------eeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 83 GDDIQWN---------FAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 83 g~~i~~~---------PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
| +... |++||||++|+|++++.|....+.+++.+
T Consensus 97 g--v~~~~~~~~~~~~p~~~lid~~G~v~~~~~g~~~~~~~~~~~ 139 (140)
T cd03017 97 G--VWGEKKKKYMGIERSTFLIDPDGKIVKVWRKVKPKGHAEEVL 139 (140)
T ss_pred C--CccccccccCCcceeEEEECCCCEEEEEEecCCccchHHHHh
Confidence 2 3333 99999999999999999998777777654
No 16
>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=99.61 E-value=4.9e-15 Score=98.83 Aligned_cols=83 Identities=25% Similarity=0.518 Sum_probs=68.5
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..|+|.|++|+++|+++|+.+|+|+.+. ...+++|++ +++++||++ .|.++..... |
T Consensus 45 ~~~~p~l~~l~~~~~~~~v~~v~v~~~~--------~~~~~~~~~-~~~~~~~~~--~D~~~~~~~~------------~ 101 (146)
T PF08534_consen 45 RKELPYLNELQEKYKDKGVDVVGVSSDD--------DPPVREFLK-KYGINFPVL--SDPDGALAKA------------L 101 (146)
T ss_dssp HHHHHHHHHHHHHHHTTTCEEEEEEESS--------SHHHHHHHH-HTTTTSEEE--EETTSHHHHH------------T
T ss_pred hhhhhhHHhhhhhhccCceEEEEecccC--------CHHHHHHHH-hhCCCceEE--echHHHHHHH------------h
Confidence 4799999999999999999999999752 233899995 689999999 6766654442 4
Q ss_pred CCCcc---------cceeeEEECCCCcEEEEEcCCCC
Q 033205 83 GDDIQ---------WNFAKFLVDKNGQVVDRYYPTTS 110 (125)
Q Consensus 83 g~~i~---------~~PttflId~~G~v~~~~~G~~~ 110 (125)
++. ++|++||||++|+|++++.|..+
T Consensus 102 --~~~~~~~~~~~~~~P~~~lId~~G~V~~~~~g~~~ 136 (146)
T PF08534_consen 102 --GVTIMEDPGNGFGIPTTFLIDKDGKVVYRHVGPDP 136 (146)
T ss_dssp --TCEEECCTTTTSSSSEEEEEETTSBEEEEEESSBT
T ss_pred --CCccccccccCCeecEEEEEECCCEEEEEEeCCCC
Confidence 344 78999999999999999999877
No 17
>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=99.60 E-value=1.7e-14 Score=99.24 Aligned_cols=94 Identities=18% Similarity=0.219 Sum_probs=75.3
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
+.++|.|+++++ +|++||+|+.+ ++.+++++|++ +++++||++. .|.++..... |
T Consensus 79 ~~~~p~l~~l~~----~~~~vi~V~~~-------~~~~~~~~~~~-~~~~~f~~v~-~D~~~~~~~~------------~ 133 (173)
T TIGR00385 79 RAEHPYLNELAK----DGLPIVGVDYK-------DQSQNALKFLK-ELGNPYQAIL-IDPNGKLGLD------------L 133 (173)
T ss_pred HHHHHHHHHHHH----cCCEEEEEECC-------CChHHHHHHHH-HcCCCCceEE-ECCCCchHHh------------c
Confidence 468899988864 47999999964 24567788995 6899998542 5776655442 5
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhc
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
++..+|++|+||++|+|++++.|.++.+++++.|.++++
T Consensus 134 --~v~~~P~~~~id~~G~i~~~~~G~~~~~~l~~~l~~~~~ 172 (173)
T TIGR00385 134 --GVYGAPETFLVDGNGVILYRHAGPLNNEVWTEGFLPAME 172 (173)
T ss_pred --CCeeCCeEEEEcCCceEEEEEeccCCHHHHHHHHHHHhh
Confidence 477789999999999999999999999999999999875
No 18
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=99.59 E-value=1.6e-14 Score=97.27 Aligned_cols=94 Identities=16% Similarity=0.268 Sum_probs=71.3
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..++|.|++++++|+++|++||+|+.+ +.+++++|++ +++++||++ .|.++..... |
T Consensus 47 ~~~~~~l~~~~~~~~~~~v~vi~Is~d--------~~~~~~~~~~-~~~~~~~~l--~D~~~~~~~~------------~ 103 (154)
T PRK09437 47 TVQACGLRDNMDELKKAGVVVLGISTD--------KPEKLSRFAE-KELLNFTLL--SDEDHQVAEQ------------F 103 (154)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEcCC--------CHHHHHHHHH-HhCCCCeEE--ECCCchHHHH------------h
Confidence 468999999999999999999999964 4788999995 679999999 5766554331 2
Q ss_pred CC-Ccc---------cceeeEEECCCCcEEEEEcCCCChhHHHHHHH
Q 033205 83 GD-DIQ---------WNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIK 119 (125)
Q Consensus 83 g~-~i~---------~~PttflId~~G~v~~~~~G~~~~~~l~~~I~ 119 (125)
|. .+. ..|++||||++|+|++++.|....+.++..++
T Consensus 104 gv~~~~~~~~~~~~~~~~~~~lid~~G~i~~~~~g~~~~~~~~~~~~ 150 (154)
T PRK09437 104 GVWGEKKFMGKTYDGIHRISFLIDADGKIEHVFDKFKTSNHHDVVLD 150 (154)
T ss_pred CCCcccccccccccCcceEEEEECCCCEEEEEEcCCCcchhHHHHHH
Confidence 20 000 12789999999999999998766666555443
No 19
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=99.58 E-value=3.4e-14 Score=97.04 Aligned_cols=95 Identities=27% Similarity=0.468 Sum_probs=80.2
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..++|.|++++++|+++++.|++|+++ ++.+.++.|++ +++++||++ .|.++..... |
T Consensus 77 ~~~~~~l~~~~~~~~~~~~~vi~i~~d-------~~~~~~~~~~~-~~~~~~~~~--~d~~~~~~~~------------~ 134 (173)
T PRK03147 77 EKEMPYMNELYPKYKEKGVEIIAVNVD-------ETELAVKNFVN-RYGLTFPVA--IDKGRQVIDA------------Y 134 (173)
T ss_pred HHHHHHHHHHHHHhhcCCeEEEEEEcC-------CCHHHHHHHHH-HhCCCceEE--ECCcchHHHH------------c
Confidence 568999999999999989999999986 24778999994 789999999 6766544332 5
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
++..+|++|+||++|+|+..+.|..+.+++.+.++++
T Consensus 135 --~v~~~P~~~lid~~g~i~~~~~g~~~~~~l~~~l~~~ 171 (173)
T PRK03147 135 --GVGPLPTTFLIDKDGKVVKVITGEMTEEQLEEYLEKI 171 (173)
T ss_pred --CCCCcCeEEEECCCCcEEEEEeCCCCHHHHHHHHHHh
Confidence 4788899999999999999999999999988888765
No 20
>PLN02919 haloacid dehalogenase-like hydrolase family protein
Probab=99.57 E-value=2.3e-14 Score=120.96 Aligned_cols=102 Identities=18% Similarity=0.188 Sum_probs=83.9
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..|+|.|++++++|++++|+||||+++.+.. ..+.+++++|++ +++++||++ .|.++.... .|
T Consensus 436 ~~e~P~L~~l~~~y~~~~~~vvgV~~~~~D~--~~~~~~~~~~~~-~~~i~~pvv--~D~~~~~~~------------~~ 498 (1057)
T PLN02919 436 MHVLPDLEFLEKKYKDQPFTVVGVHSAKFDN--EKDLEAIRNAVL-RYNISHPVV--NDGDMYLWR------------EL 498 (1057)
T ss_pred HhHhHHHHHHHHHcCCCCeEEEEEecccccc--cccHHHHHHHHH-HhCCCccEE--ECCchHHHH------------hc
Confidence 5799999999999999999999998754421 224788999995 789999999 565553322 15
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhc
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
++.++|++||||++|+|+.++.|....++|++.|+++|.
T Consensus 499 --~V~~iPt~ilid~~G~iv~~~~G~~~~~~l~~~l~~~l~ 537 (1057)
T PLN02919 499 --GVSSWPTFAVVSPNGKLIAQLSGEGHRKDLDDLVEAALQ 537 (1057)
T ss_pred --CCCccceEEEECCCCeEEEEEecccCHHHHHHHHHHHHH
Confidence 588999999999999999999999999999999988763
No 21
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=99.56 E-value=3.9e-14 Score=98.83 Aligned_cols=97 Identities=14% Similarity=0.212 Sum_probs=71.4
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhh---CCcccceeEeeccCCCccchHHHHHHhCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTR---FKSEFPIFEKIDVNGEHASPLYKLLKSGKW 79 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~---~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~ 79 (125)
..|||.|++++++|+++|++|||||.| +...+++|+++. .+++||++ .|.++..++.
T Consensus 48 ~~el~~l~~~~~~f~~~g~~vigIS~D--------~~~~~~a~~~~~~~~~~l~fpll--sD~~~~ia~~---------- 107 (187)
T PRK10382 48 PTELGDVADHYEELQKLGVDVYSVSTD--------THFTHKAWHSSSETIAKIKYAMI--GDPTGALTRN---------- 107 (187)
T ss_pred HHHHHHHHHHHHHHHhCCCEEEEEeCC--------CHHHHHHHHHhhccccCCceeEE--EcCchHHHHH----------
Confidence 479999999999999999999999964 578888998532 48999999 6776665542
Q ss_pred CCCCCC--cccc--eeeEEECCCCcEEEEEcCCC----ChhHHHHHHHHh
Q 033205 80 GIFGDD--IQWN--FAKFLVDKNGQVVDRYYPTT----SLLSLEHDIKKL 121 (125)
Q Consensus 80 ~~~g~~--i~~~--PttflId~~G~v~~~~~G~~----~~~~l~~~I~~l 121 (125)
||.. -.++ |++||||++|+|++++.... +.+++.+.|+.+
T Consensus 108 --ygv~~~~~g~~~r~tfIID~~G~I~~~~~~~~~~~~~~~eil~~l~al 155 (187)
T PRK10382 108 --FDNMREDEGLADRATFVVDPQGIIQAIEVTAEGIGRDASDLLRKIKAA 155 (187)
T ss_pred --cCCCcccCCceeeEEEEECCCCEEEEEEEeCCCCCCCHHHHHHHHHhh
Confidence 4310 0233 99999999999999986532 344555555443
No 22
>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=99.55 E-value=1.7e-14 Score=100.18 Aligned_cols=90 Identities=14% Similarity=0.132 Sum_probs=68.7
Q ss_pred hhhHHHHHHHHHHhccCCeEE------EEeeCCCCCCCCCCCHHHHHHHHHhhCCcccc---eeEeeccCCCccchHHHH
Q 033205 3 NSNYIELSQLYDKYKDQGLEI------LAFPCNQFGEEEPGSNDQIADFVCTRFKSEFP---IFEKIDVNGEHASPLYKL 73 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~v------vgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fp---v~~~~D~~g~~~~~~~~~ 73 (125)
+.|+|.|.+| +++||.+ +|||.++- ......-++.|++ +.+..|| ++ +|.+|..+..
T Consensus 75 ~~e~P~l~~l----~~~~~~~~~y~~t~~IN~dd~---~~~~~~fVk~fie-~~~~~~P~~~vl--lD~~g~v~~~---- 140 (184)
T TIGR01626 75 EXNASLIDAI----KAAKFPPVKYQTTTIINADDA---IVGTGMFVKSSAK-KGKKENPWSQVV--LDDKGAVKNA---- 140 (184)
T ss_pred hccchHHHHH----HHcCCCcccccceEEEECccc---hhhHHHHHHHHHH-HhcccCCcceEE--ECCcchHHHh----
Confidence 5689999999 5568999 99997631 0112344667774 5688888 88 7877765442
Q ss_pred HHhCCCCCCCCCcccceee-EEECCCCcEEEEEcCCCChhHHHH
Q 033205 74 LKSGKWGIFGDDIQWNFAK-FLVDKNGQVVDRYYPTTSLLSLEH 116 (125)
Q Consensus 74 l~~~~~~~~g~~i~~~Ptt-flId~~G~v~~~~~G~~~~~~l~~ 116 (125)
| ++..+|+| ||||++|+|+.++.|.++.+++++
T Consensus 141 --------~--gv~~~P~T~fVIDk~GkVv~~~~G~l~~ee~e~ 174 (184)
T TIGR01626 141 --------W--QLNSEDSAIIVLDKTGKVKFVKEGALSDSDIQT 174 (184)
T ss_pred --------c--CCCCCCceEEEECCCCcEEEEEeCCCCHHHHHH
Confidence 5 47888988 999999999999999999888766
No 23
>PRK13190 putative peroxiredoxin; Provisional
Probab=99.54 E-value=8.4e-14 Score=98.20 Aligned_cols=98 Identities=20% Similarity=0.283 Sum_probs=71.1
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHH---hhCC--cccceeEeeccCCCccchHHHHHHhC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVC---TRFK--SEFPIFEKIDVNGEHASPLYKLLKSG 77 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~---~~~~--~~fpv~~~~D~~g~~~~~~~~~l~~~ 77 (125)
..|||.|++++++|+++|++|||||+| +.+...+|++ ++++ ++||++ .|.++..++.
T Consensus 44 ~~El~~l~~~~~~f~~~~~~vi~vS~D--------~~~~~~~w~~~~~~~~g~~~~fPll--~D~~~~ia~~-------- 105 (202)
T PRK13190 44 TTEFIAFSRRYEDFKKLGVELVGLSVD--------SIYSHIAWLRDIEERFGIKIPFPVI--ADIDKELARE-------- 105 (202)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEeCC--------CHHHHHHHHHhHHHhcCCCceEEEE--ECCChHHHHH--------
Confidence 579999999999999999999999975 3444444432 2455 589999 6877765542
Q ss_pred CCCCCCCC----cccceeeEEECCCCcEEEEE----cCCCChhHHHHHHHHhh
Q 033205 78 KWGIFGDD----IQWNFAKFLVDKNGQVVDRY----YPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 78 ~~~~~g~~----i~~~PttflId~~G~v~~~~----~G~~~~~~l~~~I~~ll 122 (125)
||.. -..+|++||||++|+|++++ .+..+.+++.+.|+.+.
T Consensus 106 ----ygv~~~~~g~~~p~~fiId~~G~I~~~~~~~~~~gr~~~ellr~l~~l~ 154 (202)
T PRK13190 106 ----YNLIDENSGATVRGVFIIDPNQIVRWMIYYPAETGRNIDEIIRITKALQ 154 (202)
T ss_pred ----cCCccccCCcEEeEEEEECCCCEEEEEEEeCCCCCCCHHHHHHHHHHhh
Confidence 4310 02479999999999999987 33456677777777654
No 24
>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=99.54 E-value=7.8e-14 Score=98.40 Aligned_cols=97 Identities=15% Similarity=0.264 Sum_probs=70.1
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHh-----hCCcccceeEeeccCCCccchHHHHHHhC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCT-----RFKSEFPIFEKIDVNGEHASPLYKLLKSG 77 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~-----~~~~~fpv~~~~D~~g~~~~~~~~~l~~~ 77 (125)
..|+|.|++++++|+++|++||||++| +.+.+++|+++ +.+++||++ .|.++..++.
T Consensus 42 ~~el~~l~~~~~~f~~~gv~vigvS~D--------~~~~~~~~~~~i~~~~~~~~~fpil--~D~~~~ia~~-------- 103 (203)
T cd03016 42 TTELGAFAKLAPEFKKRNVKLIGLSVD--------SVESHIKWIEDIEEYTGVEIPFPII--ADPDREVAKL-------- 103 (203)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEECC--------CHHHHHHHHhhHHHhcCCCCceeEE--ECchHHHHHH--------
Confidence 579999999999999999999999975 35555555521 168999999 6777655442
Q ss_pred CCCCCCC------CcccceeeEEECCCCcEEEEEcCCCC----hhHHHHHHHHh
Q 033205 78 KWGIFGD------DIQWNFAKFLVDKNGQVVDRYYPTTS----LLSLEHDIKKL 121 (125)
Q Consensus 78 ~~~~~g~------~i~~~PttflId~~G~v~~~~~G~~~----~~~l~~~I~~l 121 (125)
||. .....|++||||++|+|+.++.+..+ .+++.+.|+.+
T Consensus 104 ----yg~~~~~~~~~~~~r~~fiID~~G~I~~~~~~~~~~gr~~~ell~~l~~l 153 (203)
T cd03016 104 ----LGMIDPDAGSTLTVRAVFIIDPDKKIRLILYYPATTGRNFDEILRVVDAL 153 (203)
T ss_pred ----cCCccccCCCCceeeEEEEECCCCeEEEEEecCCCCCCCHHHHHHHHHHH
Confidence 321 11235789999999999999877543 44566666544
No 25
>PRK13599 putative peroxiredoxin; Provisional
Probab=99.53 E-value=1.3e-13 Score=98.14 Aligned_cols=105 Identities=17% Similarity=0.330 Sum_probs=69.5
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHh--hCCcccceeEeeccCCCccchHHHHHHhCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCT--RFKSEFPIFEKIDVNGEHASPLYKLLKSGKWG 80 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~--~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~ 80 (125)
..|||.|++++++|+++|+.|||||+|. ..+...+.+|+++ .++++||++ .|.++..+.. |+.+...
T Consensus 45 t~El~~l~~~~~~f~~~gv~vigIS~D~-----~~~~~~w~~~i~~~~~~~i~fPil--~D~~~~va~~-yg~~~~~--- 113 (215)
T PRK13599 45 TTEFVEFARKANDFKELNTELIGLSVDQ-----VFSHIKWVEWIKDNTNIAIPFPVI--ADDLGKVSNQ-LGMIHPG--- 113 (215)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEeCCC-----HHHHHHHHHhHHHhcCCCCceeEE--ECCCchHHHH-cCCCccC---
Confidence 5799999999999999999999999762 1112234445532 357899999 6877766552 2111000
Q ss_pred CCCCCcccceeeEEECCCCcEEEEEcCCC----ChhHHHHHHHHh
Q 033205 81 IFGDDIQWNFAKFLVDKNGQVVDRYYPTT----SLLSLEHDIKKL 121 (125)
Q Consensus 81 ~~g~~i~~~PttflId~~G~v~~~~~G~~----~~~~l~~~I~~l 121 (125)
.+....|++||||++|+|+..+.... +.+++.+.|+.+
T Consensus 114 ---~~~~~~R~tfIID~dG~Ir~~~~~p~~~gr~~~eilr~l~~l 155 (215)
T PRK13599 114 ---KGTNTVRAVFIVDDKGTIRLIMYYPQEVGRNVDEILRALKAL 155 (215)
T ss_pred ---CCCceeeEEEEECCCCEEEEEEEcCCCCCCCHHHHHHHHHHh
Confidence 01235799999999999999875333 344555555543
No 26
>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=99.53 E-value=7.8e-14 Score=92.78 Aligned_cols=90 Identities=17% Similarity=0.121 Sum_probs=65.3
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCC--
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWG-- 80 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~-- 80 (125)
..|+|.|++++++|+++|+.||+|+.+ +.+.+.+|++ +++++||++ .|.++.... .+.-....
T Consensus 40 ~~~~~~l~~~~~~~~~~~v~vv~V~~~--------~~~~~~~~~~-~~~~~~p~~--~D~~~~~~~----~~g~~~~~~~ 104 (149)
T cd02970 40 REYLRALSKLLPELDALGVELVAVGPE--------SPEKLEAFDK-GKFLPFPVY--ADPDRKLYR----ALGLVRSLPW 104 (149)
T ss_pred HHHHHHHHHHHHHHHhcCeEEEEEeCC--------CHHHHHHHHH-hcCCCCeEE--ECCchhHHH----HcCceecCcH
Confidence 579999999999999999999999964 3556678995 789999999 687655433 21110000
Q ss_pred -----------------CCCCCcccceeeEEECCCCcEEEEEcC
Q 033205 81 -----------------IFGDDIQWNFAKFLVDKNGQVVDRYYP 107 (125)
Q Consensus 81 -----------------~~g~~i~~~PttflId~~G~v~~~~~G 107 (125)
..+.....+|++||||++|+|++.|.|
T Consensus 105 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~fvid~~g~i~~~~~~ 148 (149)
T cd02970 105 SNTPRALWKNAAIGFRGNDEGDGLQLPGVFVIGPDGTILFAHVD 148 (149)
T ss_pred HHHHHHHhhCcccccccCCCCcccccceEEEECCCCeEEEEecC
Confidence 000012357999999999999999976
No 27
>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=99.51 E-value=1.4e-13 Score=89.76 Aligned_cols=86 Identities=12% Similarity=0.118 Sum_probs=68.0
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..++|.|+++++++ ++.||+|+.+ ++.+.+++|++ +++++||.+. .|..+..+. .|
T Consensus 41 ~~~~~~l~~l~~~~---~~~vv~v~~~-------~~~~~~~~~~~-~~~~~~~~~~-~D~~~~~~~------------~~ 96 (127)
T cd03010 41 REEHPVLMALARQG---RVPIYGINYK-------DNPENALAWLA-RHGNPYAAVG-FDPDGRVGI------------DL 96 (127)
T ss_pred HHHHHHHHHHHHhc---CcEEEEEECC-------CCHHHHHHHHH-hcCCCCceEE-ECCcchHHH------------hc
Confidence 46899999998886 4999999964 35788999995 7899997442 576554433 14
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCCCChhHH
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSL 114 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~~~~~~l 114 (125)
++..+|++|+||++|+|+.++.|.++.+.|
T Consensus 97 --~v~~~P~~~~ld~~G~v~~~~~G~~~~~~~ 126 (127)
T cd03010 97 --GVYGVPETFLIDGDGIIRYKHVGPLTPEVW 126 (127)
T ss_pred --CCCCCCeEEEECCCceEEEEEeccCChHhc
Confidence 577899999999999999999999987654
No 28
>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=99.51 E-value=2.7e-13 Score=93.25 Aligned_cols=97 Identities=18% Similarity=0.205 Sum_probs=69.6
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhh------CCcccceeEeeccCCCccchHHHHHHh
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTR------FKSEFPIFEKIDVNGEHASPLYKLLKS 76 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~------~~~~fpv~~~~D~~g~~~~~~~~~l~~ 76 (125)
..|+|.|++++++|+++|+.|++|++| +.+....|++.. .+++||++ .|.++..++.
T Consensus 46 ~~~l~~l~~~~~~~~~~~v~vv~Is~d--------~~~~~~~~~~~~~~~~~~~~~~f~~l--~D~~~~~~~~------- 108 (173)
T cd03015 46 PTEIIAFSDRYEEFKKLNAEVLGVSTD--------SHFSHLAWRNTPRKEGGLGKINFPLL--ADPKKKISRD------- 108 (173)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEecC--------CHHHHHHHHHhhhhhCCccCcceeEE--ECCchhHHHH-------
Confidence 468999999999999999999999975 244555666321 46899999 6877765542
Q ss_pred CCCCCCCCCc----ccceeeEEECCCCcEEEEEcCCCC----hhHHHHHHHHh
Q 033205 77 GKWGIFGDDI----QWNFAKFLVDKNGQVVDRYYPTTS----LLSLEHDIKKL 121 (125)
Q Consensus 77 ~~~~~~g~~i----~~~PttflId~~G~v~~~~~G~~~----~~~l~~~I~~l 121 (125)
||... ...|++||||++|+|++++.+... .+++.+.|+.+
T Consensus 109 -----~gv~~~~~~~~~p~~~lID~~G~I~~~~~~~~~~~~~~~~il~~l~~~ 156 (173)
T cd03015 109 -----YGVLDEEEGVALRGTFIIDPEGIIRHITVNDLPVGRSVDETLRVLDAL 156 (173)
T ss_pred -----hCCccccCCceeeEEEEECCCCeEEEEEecCCCCCCCHHHHHHHHHHh
Confidence 32100 146999999999999999976543 34455555544
No 29
>PRK13189 peroxiredoxin; Provisional
Probab=99.51 E-value=2e-13 Score=97.57 Aligned_cols=102 Identities=20% Similarity=0.355 Sum_probs=70.1
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHh---h--CCcccceeEeeccCCCccchHHHHHHhC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCT---R--FKSEFPIFEKIDVNGEHASPLYKLLKSG 77 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~---~--~~~~fpv~~~~D~~g~~~~~~~~~l~~~ 77 (125)
..|++.|++++++|+++|++|||||+| +...+.+|++. + .+++||++ .|.++..++. |..+...
T Consensus 52 ~tEl~~l~~~~~ef~~~~v~VigvS~D--------~~~~h~aw~~~~~~~~g~~i~fPll--sD~~~~ia~~-ygv~~~~ 120 (222)
T PRK13189 52 TTEFVAFQKRYDEFRELNTELIGLSID--------QVFSHIKWVEWIKEKLGVEIEFPII--ADDRGEIAKK-LGMISPG 120 (222)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEECC--------CHHHHHHHHHhHHHhcCcCcceeEE--EcCccHHHHH-hCCCccc
Confidence 479999999999999999999999975 35555566531 1 35899999 6877665542 2111000
Q ss_pred CCCCCCCCcccceeeEEECCCCcEEEEEcCCC----ChhHHHHHHHHh
Q 033205 78 KWGIFGDDIQWNFAKFLVDKNGQVVDRYYPTT----SLLSLEHDIKKL 121 (125)
Q Consensus 78 ~~~~~g~~i~~~PttflId~~G~v~~~~~G~~----~~~~l~~~I~~l 121 (125)
. .-..+|++||||++|+|++.+.+.. +.+++.+.|+.+
T Consensus 121 ----~--~~~~~r~tfIID~~G~Ir~~~~~~~~~gr~~~eilr~l~al 162 (222)
T PRK13189 121 ----K--GTNTVRAVFIIDPKGIIRAILYYPQEVGRNMDEILRLVKAL 162 (222)
T ss_pred ----c--CCCceeEEEEECCCCeEEEEEecCCCCCCCHHHHHHHHHHh
Confidence 0 0125799999999999999887543 345666666554
No 30
>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=99.50 E-value=1.1e-13 Score=96.50 Aligned_cols=83 Identities=18% Similarity=0.287 Sum_probs=63.5
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHh---hCCcccceeEeeccCCCccchHHHHHHhCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCT---RFKSEFPIFEKIDVNGEHASPLYKLLKSGKW 79 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~---~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~ 79 (125)
..|||.|++++++|+++|++||||++| +.+.+++|.+. ..+++||++ .|.++..+..
T Consensus 48 ~~el~~l~~~~~~~~~~gv~vi~VS~D--------~~~~~~~~~~~~~~~~~l~fpll--sD~~~~~a~~---------- 107 (187)
T TIGR03137 48 PTELEDLADKYAELKKLGVEVYSVSTD--------THFVHKAWHDTSEAIGKITYPML--GDPTGVLTRN---------- 107 (187)
T ss_pred HHHHHHHHHHHHHHHhcCCcEEEEeCC--------CHHHHHHHHhhhhhccCcceeEE--ECCccHHHHH----------
Confidence 579999999999999999999999975 35666777632 136899999 6776655442
Q ss_pred CCCCCCcc------cceeeEEECCCCcEEEEEcCCC
Q 033205 80 GIFGDDIQ------WNFAKFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 80 ~~~g~~i~------~~PttflId~~G~v~~~~~G~~ 109 (125)
|| +. ..|+|||||++|+|++++....
T Consensus 108 --~g--v~~~~~g~~~p~tfiID~~G~I~~~~~~~~ 139 (187)
T TIGR03137 108 --FG--VLIEEAGLADRGTFVIDPEGVIQAVEITDN 139 (187)
T ss_pred --hC--CcccCCCceeeEEEEECCCCEEEEEEEeCC
Confidence 33 21 3599999999999999986543
No 31
>PRK15000 peroxidase; Provisional
Probab=99.50 E-value=1.6e-13 Score=96.73 Aligned_cols=94 Identities=19% Similarity=0.322 Sum_probs=68.5
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHH---hhCC---cccceeEeeccCCCccchHHHHHHh
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVC---TRFK---SEFPIFEKIDVNGEHASPLYKLLKS 76 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~---~~~~---~~fpv~~~~D~~g~~~~~~~~~l~~ 76 (125)
..|+|+|++++++|+++|++|||||+| +...++.|.+ ++.+ ++||++ .|.++..+..
T Consensus 51 ~~El~~l~~~~~~f~~~g~~vigvS~D--------~~~~~~~w~~~~~~~~g~~~i~fpll--sD~~~~ia~~------- 113 (200)
T PRK15000 51 PSELIAFDKRYEEFQKRGVEVVGVSFD--------SEFVHNAWRNTPVDKGGIGPVKYAMV--ADVKREIQKA------- 113 (200)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECC--------CHHHHHHHHhhHHHhCCccccCceEE--ECCCcHHHHH-------
Confidence 579999999999999999999999975 3444455432 2334 699999 6877665552
Q ss_pred CCCCCCCCCcc------cceeeEEECCCCcEEEEEcCCCCh----hHHHHHHHH
Q 033205 77 GKWGIFGDDIQ------WNFAKFLVDKNGQVVDRYYPTTSL----LSLEHDIKK 120 (125)
Q Consensus 77 ~~~~~~g~~i~------~~PttflId~~G~v~~~~~G~~~~----~~l~~~I~~ 120 (125)
|| +. ..|++||||++|+|++.+.+.... +++.+.|+.
T Consensus 114 -----yg--v~~~~~g~~~r~tfiID~~G~I~~~~~~~~~~gr~~~eilr~l~a 160 (200)
T PRK15000 114 -----YG--IEHPDEGVALRGSFLIDANGIVRHQVVNDLPLGRNIDEMLRMVDA 160 (200)
T ss_pred -----cC--CccCCCCcEEeEEEEECCCCEEEEEEecCCCCCCCHHHHHHHHHH
Confidence 43 32 579999999999999998876543 344444443
No 32
>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=99.50 E-value=1.5e-13 Score=88.87 Aligned_cols=77 Identities=32% Similarity=0.644 Sum_probs=64.0
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..++|.|++++++|+++|+.|++|+.+ +.+++++|++ +++++||++ .|.++..... |
T Consensus 42 ~~~l~~l~~~~~~~~~~~~~vi~is~d--------~~~~~~~~~~-~~~~~~~~~--~D~~~~~~~~------------~ 98 (124)
T PF00578_consen 42 QAELPELNELYKKYKDKGVQVIGISTD--------DPEEIKQFLE-EYGLPFPVL--SDPDGELAKA------------F 98 (124)
T ss_dssp HHHHHHHHHHHHHHHTTTEEEEEEESS--------SHHHHHHHHH-HHTCSSEEE--EETTSHHHHH------------T
T ss_pred ccchhHHHHHhhhhccceEEeeecccc--------cccchhhhhh-hhccccccc--cCcchHHHHH------------c
Confidence 478999999999999999999999974 4778999995 679999999 6766554442 4
Q ss_pred CCCcc------cceeeEEECCCCcEEEE
Q 033205 83 GDDIQ------WNFAKFLVDKNGQVVDR 104 (125)
Q Consensus 83 g~~i~------~~PttflId~~G~v~~~ 104 (125)
| +. ..|++||||++|+|+++
T Consensus 99 ~--~~~~~~~~~~p~~~lid~~g~I~~~ 124 (124)
T PF00578_consen 99 G--IEDEKDTLALPAVFLIDPDGKIRYA 124 (124)
T ss_dssp T--CEETTTSEESEEEEEEETTSBEEEE
T ss_pred C--CccccCCceEeEEEEECCCCEEEeC
Confidence 3 44 78999999999999975
No 33
>PTZ00137 2-Cys peroxiredoxin; Provisional
Probab=99.49 E-value=3.2e-13 Score=98.48 Aligned_cols=96 Identities=21% Similarity=0.214 Sum_probs=68.4
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHh------hCCcccceeEeeccCCCccchHHHHHHh
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCT------RFKSEFPIFEKIDVNGEHASPLYKLLKS 76 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~------~~~~~fpv~~~~D~~g~~~~~~~~~l~~ 76 (125)
..|||.|++++++|+++|++||||++| ++..+++|.+. ..+++||++ .|.++..++.
T Consensus 115 t~El~~l~~~~~ef~~~gv~VigIS~D--------s~~~h~aw~~~~~~~~g~~~l~fPlL--sD~~~~iaka------- 177 (261)
T PTZ00137 115 PSELLGFSERLKEFEERGVKVLGVSVD--------SPFSHKAWKELDVRQGGVSPLKFPLF--SDISREVSKS------- 177 (261)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECC--------CHHHHHHHHhhhhhhccccCcceEEE--EcCChHHHHH-------
Confidence 469999999999999999999999975 35556666531 157899999 6776655442
Q ss_pred CCCCCCCCC---cccceeeEEECCCCcEEEEEcCCC----ChhHHHHHHHH
Q 033205 77 GKWGIFGDD---IQWNFAKFLVDKNGQVVDRYYPTT----SLLSLEHDIKK 120 (125)
Q Consensus 77 ~~~~~~g~~---i~~~PttflId~~G~v~~~~~G~~----~~~~l~~~I~~ 120 (125)
||.. -...|++||||++|+|++.+.... +.+++.+.|+.
T Consensus 178 -----yGv~~~~g~a~R~tFIID~dG~I~~~~~~~~~~gr~v~eiLr~l~a 223 (261)
T PTZ00137 178 -----FGLLRDEGFSHRASVLVDKAGVVKHVAVYDLGLGRSVDETLRLFDA 223 (261)
T ss_pred -----cCCCCcCCceecEEEEECCCCEEEEEEEeCCCCCCCHHHHHHHHHH
Confidence 4310 025799999999999999885332 34455555543
No 34
>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=99.49 E-value=2.3e-13 Score=90.88 Aligned_cols=84 Identities=19% Similarity=0.287 Sum_probs=64.8
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccC--CCccchHHHHHHhCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVN--GEHASPLYKLLKSGKWG 80 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~--g~~~~~~~~~l~~~~~~ 80 (125)
..++|.|++++++|+++|++||+|+.+ +.+.+++|++ +++++||++ .|.+ +..+. .
T Consensus 45 ~~~~~~l~~~~~~~~~~~v~vi~vs~d--------~~~~~~~~~~-~~~~~~~~~--~D~~~~~~~~~----~------- 102 (149)
T cd03018 45 TKELCALRDSLELFEAAGAEVLGISVD--------SPFSLRAWAE-ENGLTFPLL--SDFWPHGEVAK----A------- 102 (149)
T ss_pred HHHHHHHHHHHHHHHhCCCEEEEecCC--------CHHHHHHHHH-hcCCCceEe--cCCCchhHHHH----H-------
Confidence 468999999999999999999999964 4678999995 789999999 5654 43322 1
Q ss_pred CCCCC----cccceeeEEECCCCcEEEEEcCCC
Q 033205 81 IFGDD----IQWNFAKFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 81 ~~g~~----i~~~PttflId~~G~v~~~~~G~~ 109 (125)
||.. ....|++||||++|+|++++.|..
T Consensus 103 -~g~~~~~~~~~~~~~~lid~~G~v~~~~~~~~ 134 (149)
T cd03018 103 -YGVFDEDLGVAERAVFVIDRDGIIRYAWVSDD 134 (149)
T ss_pred -hCCccccCCCccceEEEECCCCEEEEEEecCC
Confidence 3210 011369999999999999999876
No 35
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=99.49 E-value=2.4e-13 Score=107.11 Aligned_cols=99 Identities=14% Similarity=0.134 Sum_probs=78.4
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCc-ccceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKS-EFPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~-~fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
..|||.|++|+++|+++++.||+|+++.... ..+.+++++|++ ..++ +||++ .|.++..+. .
T Consensus 72 k~emP~L~eL~~e~k~~~v~VI~Vs~~~~~~--e~~~~~~~~~~~-~~~y~~~pV~--~D~~~~lak------------~ 134 (521)
T PRK14018 72 LSELGETEKWAQDAKFSSANLITVASPGFLH--EKKDGDFQKWYA-GLDYPKLPVL--TDNGGTLAQ------------S 134 (521)
T ss_pred HHHHHHHHHHHHHhccCCeEEEEEecccccc--cccHHHHHHHHH-hCCCccccee--ccccHHHHH------------H
Confidence 4799999999999998899999999753321 124567788884 4565 67888 676654433 1
Q ss_pred CCCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHH
Q 033205 82 FGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKK 120 (125)
Q Consensus 82 ~g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ 120 (125)
| +|+++|++||||++|+|+.++.|.++.++|.+.|+.
T Consensus 135 f--gV~giPTt~IIDkdGkIV~~~~G~~~~eeL~a~Ie~ 171 (521)
T PRK14018 135 L--NISVYPSWAIIGKDGDVQRIVKGSISEAQALALIRN 171 (521)
T ss_pred c--CCCCcCeEEEEcCCCeEEEEEeCCCCHHHHHHHHHH
Confidence 5 588999999999999999999999999999888874
No 36
>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=99.47 E-value=1.5e-13 Score=92.34 Aligned_cols=82 Identities=13% Similarity=0.193 Sum_probs=59.2
Q ss_pred hhhHHHHHHHHHHhccC-------CeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHH
Q 033205 3 NSNYIELSQLYDKYKDQ-------GLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLK 75 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~-------g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~ 75 (125)
+.|||.|+++|++++++ +|+||+|+.+ .+.+++++|++ +++++||.+.-.|..+. .+ .
T Consensus 41 r~e~P~L~~ly~~~~~~~~~~~~~~~~vV~Vs~D-------~~~~~~~~f~~-~~~~~~~~~p~~~~~~~---~l----~ 105 (146)
T cd03008 41 QLFAPKLKDFFVRLTDEFYVDRSAQLALVYVSMD-------QSEQQQESFLK-DMPKKWLFLPFEDEFRR---EL----E 105 (146)
T ss_pred HHHHHHHHHHHHHHHhhcccccCCCEEEEEEECC-------CCHHHHHHHHH-HCCCCceeecccchHHH---HH----H
Confidence 57999999999988653 7999999975 24677899995 68988754310221111 11 1
Q ss_pred hCCCCCCCCCcccceeeEEECCCCcEEEEE
Q 033205 76 SGKWGIFGDDIQWNFAKFLVDKNGQVVDRY 105 (125)
Q Consensus 76 ~~~~~~~g~~i~~~PttflId~~G~v~~~~ 105 (125)
+ .| ++.++|++||||++|+|+.+.
T Consensus 106 ~----~y--~v~~iPt~vlId~~G~Vv~~~ 129 (146)
T cd03008 106 A----QF--SVEELPTVVVLKPDGDVLAAN 129 (146)
T ss_pred H----Hc--CCCCCCEEEEECCCCcEEeeC
Confidence 1 25 478899999999999999873
No 37
>PRK13191 putative peroxiredoxin; Provisional
Probab=99.45 E-value=6.1e-13 Score=94.68 Aligned_cols=96 Identities=21% Similarity=0.347 Sum_probs=68.4
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHH---HHHHh--hCCcccceeEeeccCCCccchHHHHHHhC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIA---DFVCT--RFKSEFPIFEKIDVNGEHASPLYKLLKSG 77 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~---~f~~~--~~~~~fpv~~~~D~~g~~~~~~~~~l~~~ 77 (125)
..|||.|++++++|+++|++|||||+| +...++ +++++ .++++||++ .|.++..++.
T Consensus 50 ~tEl~~l~~~~~ef~~~g~~VigvS~D--------s~~~h~aw~~~~~~~~~~~i~fPll--sD~~~~ia~~-------- 111 (215)
T PRK13191 50 TTEFYSFAKKYEEFKKLNTELIGLSVD--------SNISHIEWVMWIEKNLKVEVPFPII--ADPMGNVAKR-------- 111 (215)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECC--------CHHHHHHHHhhHHHhcCCCCceEEE--ECCchHHHHH--------
Confidence 579999999999999999999999985 244443 44532 247899999 6777665552
Q ss_pred CCCCCCC-----CcccceeeEEECCCCcEEEEEcCCCC----hhHHHHHHHH
Q 033205 78 KWGIFGD-----DIQWNFAKFLVDKNGQVVDRYYPTTS----LLSLEHDIKK 120 (125)
Q Consensus 78 ~~~~~g~-----~i~~~PttflId~~G~v~~~~~G~~~----~~~l~~~I~~ 120 (125)
||. .....|++||||++|+|++++.+... .+++.+.|+.
T Consensus 112 ----ygv~~~~~~~~~~r~tfIID~~G~Ir~~~~~~~~~gr~~~eilr~l~a 159 (215)
T PRK13191 112 ----LGMIHAESSTATVRAVFIVDDKGTVRLILYYPMEIGRNIDEILRAIRA 159 (215)
T ss_pred ----cCCcccccCCceeEEEEEECCCCEEEEEEecCCCCCCCHHHHHHHHHH
Confidence 331 01246999999999999998765543 3444455544
No 38
>PRK00522 tpx lipid hydroperoxide peroxidase; Provisional
Probab=99.45 E-value=1e-12 Score=90.01 Aligned_cols=92 Identities=15% Similarity=0.158 Sum_probs=65.7
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcc-cceeEeecc-CCCccchHHHHHHhCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSE-FPIFEKIDV-NGEHASPLYKLLKSGKWG 80 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~-fpv~~~~D~-~g~~~~~~~~~l~~~~~~ 80 (125)
..|+|.|+++++++. |++||||+.| ++..+++|++ +++++ ||++ .|. .+..+..
T Consensus 61 ~~e~~~l~~~~~~~~--~~~vv~vs~D--------~~~~~~~f~~-~~~~~~~~~l--sD~~~~~~~~~----------- 116 (167)
T PRK00522 61 ATSVRKFNQEAAELD--NTVVLCISAD--------LPFAQKRFCG-AEGLENVITL--SDFRDHSFGKA----------- 116 (167)
T ss_pred HHHHHHHHHHHHHcC--CcEEEEEeCC--------CHHHHHHHHH-hCCCCCceEe--ecCCccHHHHH-----------
Confidence 579999999999993 7999999964 4677899995 78997 6888 563 3343331
Q ss_pred CCCCCcccc---------eeeEEECCCCcEEEEEcCC--CChhHHHHHHHHh
Q 033205 81 IFGDDIQWN---------FAKFLVDKNGQVVDRYYPT--TSLLSLEHDIKKL 121 (125)
Q Consensus 81 ~~g~~i~~~---------PttflId~~G~v~~~~~G~--~~~~~l~~~I~~l 121 (125)
|| +... |+|||||++|+|++++.+. .....+++.|+.+
T Consensus 117 -~g--v~~~~~~~~g~~~r~tfvId~~G~I~~~~~~~~~~~~~~~~~~l~~l 165 (167)
T PRK00522 117 -YG--VAIAEGPLKGLLARAVFVLDENNKVVYSELVPEITNEPDYDAALAAL 165 (167)
T ss_pred -hC--CeecccccCCceeeEEEEECCCCeEEEEEECCCcCCCCCHHHHHHHh
Confidence 32 3333 4999999999999999653 2333455555443
No 39
>PRK13728 conjugal transfer protein TrbB; Provisional
Probab=99.42 E-value=1.1e-12 Score=90.82 Aligned_cols=86 Identities=16% Similarity=0.194 Sum_probs=65.7
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeec-cCCCccchHHHHHHhCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKID-VNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D-~~g~~~~~~~~~l~~~~~~~ 81 (125)
.+|+|.|++++++| |++|++|+.|+ +. ..+||++ +| ..+.... .
T Consensus 85 ~~e~P~L~~l~~~~---g~~Vi~Vs~D~-------~~-----------~~~fPv~--~dd~~~~~~~------------~ 129 (181)
T PRK13728 85 HQFDPVLKQLAQQY---GFSVFPYTLDG-------QG-----------DTAFPEA--LPAPPDVMQT------------F 129 (181)
T ss_pred HHHHHHHHHHHHHc---CCEEEEEEeCC-------CC-----------CCCCceE--ecCchhHHHH------------H
Confidence 68999999999998 49999999752 11 2689999 54 3222211 2
Q ss_pred CCCCcccceeeEEECCCCcEE-EEEcCCCChhHHHHHHHHhhc
Q 033205 82 FGDDIQWNFAKFLVDKNGQVV-DRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 82 ~g~~i~~~PttflId~~G~v~-~~~~G~~~~~~l~~~I~~ll~ 123 (125)
||..+..+|+|||||++|+++ .++.|.++.++|++.|.++++
T Consensus 130 ~g~~~~~iPttfLId~~G~i~~~~~~G~~~~~~L~~~I~~ll~ 172 (181)
T PRK13728 130 FPNIPVATPTTFLVNVNTLEALPLLQGATDAAGFMARMDTVLQ 172 (181)
T ss_pred hCCCCCCCCeEEEEeCCCcEEEEEEECCCCHHHHHHHHHHHHh
Confidence 531135789999999999997 489999999999999998875
No 40
>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=99.42 E-value=1.8e-12 Score=86.18 Aligned_cols=91 Identities=13% Similarity=0.119 Sum_probs=65.9
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCc-ccceeEeeccC-CCccchHHHHHHhCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKS-EFPIFEKIDVN-GEHASPLYKLLKSGKWG 80 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~-~fpv~~~~D~~-g~~~~~~~~~l~~~~~~ 80 (125)
+.|||.|++++++|+ |+.||||+.| +.+.+++|.+ ++++ +||++ .|.. +.....
T Consensus 43 ~~e~~~l~~~~~~~~--~~~vi~Is~d--------~~~~~~~~~~-~~~~~~~~~l--~D~~~~~~~~~----------- 98 (143)
T cd03014 43 ATQTKRFNKEAAKLD--NTVVLTISAD--------LPFAQKRWCG-AEGVDNVTTL--SDFRDHSFGKA----------- 98 (143)
T ss_pred HHHHHHHHHHHHhcC--CCEEEEEECC--------CHHHHHHHHH-hcCCCCceEe--ecCcccHHHHH-----------
Confidence 679999999999984 7999999964 3667889995 6786 79998 5653 443331
Q ss_pred CCCCCc----ccceeeEEECCCCcEEEEEcCCC--ChhHHHHHH
Q 033205 81 IFGDDI----QWNFAKFLVDKNGQVVDRYYPTT--SLLSLEHDI 118 (125)
Q Consensus 81 ~~g~~i----~~~PttflId~~G~v~~~~~G~~--~~~~l~~~I 118 (125)
||... ...|++||||++|+|+.++.|.. ...++++.|
T Consensus 99 -~gv~~~~~~~~~~~~~iid~~G~I~~~~~~~~~~~~~~~~~~~ 141 (143)
T cd03014 99 -YGVLIKDLGLLARAVFVIDENGKVIYVELVPEITDEPDYEAAL 141 (143)
T ss_pred -hCCeeccCCccceEEEEEcCCCeEEEEEECCCcccCCCHHHHh
Confidence 33110 12599999999999999998753 334565544
No 41
>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=99.39 E-value=2.8e-12 Score=84.54 Aligned_cols=88 Identities=17% Similarity=0.271 Sum_probs=66.2
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhC-CcccceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRF-KSEFPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~-~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
..++|.|++++++|+++++.||+|+.+ +.+.+++|++ ++ +.+||++ .|.++..... +. .
T Consensus 39 ~~~~~~l~~~~~~~~~~~~~~i~is~d--------~~~~~~~~~~-~~~~~~~~~l--~D~~~~~~~~----~g-----~ 98 (140)
T cd02971 39 TTELCAFRDLAEEFAKGGAEVLGVSVD--------SPFSHKAWAE-KEGGLNFPLL--SDPDGEFAKA----YG-----V 98 (140)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEeCC--------CHHHHHHHHh-cccCCCceEE--ECCChHHHHH----cC-----C
Confidence 468999999999998889999999964 4678899995 67 8999999 6766543321 11 0
Q ss_pred CCCC----cccceeeEEECCCCcEEEEEcCCCC
Q 033205 82 FGDD----IQWNFAKFLVDKNGQVVDRYYPTTS 110 (125)
Q Consensus 82 ~g~~----i~~~PttflId~~G~v~~~~~G~~~ 110 (125)
++.. ....|++||||++|+|++++.|...
T Consensus 99 ~~~~~~~~~~~~p~~~lid~~g~i~~~~~~~~~ 131 (140)
T cd02971 99 LIEKSAGGGLAARATFIIDPDGKIRYVEVEPLP 131 (140)
T ss_pred ccccccccCceeEEEEEECCCCcEEEEEecCCC
Confidence 1000 1135799999999999999998765
No 42
>PTZ00253 tryparedoxin peroxidase; Provisional
Probab=99.37 E-value=4.2e-12 Score=89.30 Aligned_cols=97 Identities=16% Similarity=0.224 Sum_probs=66.4
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHh-h-----CCcccceeEeeccCCCccchHHHHHHh
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCT-R-----FKSEFPIFEKIDVNGEHASPLYKLLKS 76 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~-~-----~~~~fpv~~~~D~~g~~~~~~~~~l~~ 76 (125)
..|++.|++++++|+++|++|||||+| +.....+|... + .+++||++ .|.++..++.
T Consensus 53 ~~e~~~l~~~~~~f~~~g~~vv~IS~d--------~~~~~~~~~~~~~~~~~~~~~~fpll--~D~~~~ia~~------- 115 (199)
T PTZ00253 53 PTEIIQFSDSVKRFNELNCEVLACSMD--------SEYAHLQWTLQERKKGGLGTMAIPML--ADKTKSIARS------- 115 (199)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEeCC--------CHHHHHHHHhChHhhCCccccccceE--ECcHhHHHHH-------
Confidence 368899999999999999999999975 23334444311 1 14899999 6776665552
Q ss_pred CCCCCCCC----CcccceeeEEECCCCcEEEEEcCCCChh-HHHHHHHHh
Q 033205 77 GKWGIFGD----DIQWNFAKFLVDKNGQVVDRYYPTTSLL-SLEHDIKKL 121 (125)
Q Consensus 77 ~~~~~~g~----~i~~~PttflId~~G~v~~~~~G~~~~~-~l~~~I~~l 121 (125)
||. .-...|++||||++|+|+..+.+..... .+++.++.+
T Consensus 116 -----ygv~~~~~g~~~r~~fiID~~G~i~~~~~~~~~~~r~~~e~l~~l 160 (199)
T PTZ00253 116 -----YGVLEEEQGVAYRGLFIIDPKGMLRQITVNDMPVGRNVEEVLRLL 160 (199)
T ss_pred -----cCCcccCCCceEEEEEEECCCCEEEEEEecCCCCCCCHHHHHHHH
Confidence 331 0113599999999999999987755432 344444443
No 43
>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=99.34 E-value=1.1e-11 Score=80.22 Aligned_cols=87 Identities=20% Similarity=0.252 Sum_probs=69.1
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..++|.|++++++ +.+++|+.+ .++.+++++|++ +++++||++ .|.++.... .|
T Consensus 36 ~~~~~~l~~~~~~-----~~~i~i~~~------~~~~~~~~~~~~-~~~~~~~~~--~d~~~~~~~------------~~ 89 (123)
T cd03011 36 RFTSPTVNQLAAD-----YPVVSVALR------SGDDGAVARFMQ-KKGYGFPVI--NDPDGVISA------------RW 89 (123)
T ss_pred hhhChHHHHHHhh-----CCEEEEEcc------CCCHHHHHHHHH-HcCCCccEE--ECCCcHHHH------------hC
Confidence 4678999999876 568888875 235889999995 789999998 576554333 25
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
++.++|+++|||++| |+.++.|..+++.|.+.+
T Consensus 90 --~i~~~P~~~vid~~g-i~~~~~g~~~~~~~~~~~ 122 (123)
T cd03011 90 --GVSVTPAIVIVDPGG-IVFVTTGVTSEWGLRLRL 122 (123)
T ss_pred --CCCcccEEEEEcCCC-eEEEEeccCCHHHHHhhc
Confidence 588899999999999 999999999999887653
No 44
>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=99.32 E-value=7.6e-12 Score=84.77 Aligned_cols=86 Identities=20% Similarity=0.260 Sum_probs=61.2
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
+.|||.|++++++| |+.|++|+.|+ . . . + +||+. +|.++..... .|
T Consensus 66 r~e~P~L~~l~~~~---~~~Vi~Vs~d~----~---~------~-~----~fp~~--~~~~~~~~~~-----------~~ 111 (153)
T TIGR02738 66 HQFAPVLKRFSQQF---GLPVYAFSLDG----Q---G------L-T----GFPDP--LPATPEVMQT-----------FF 111 (153)
T ss_pred HHHHHHHHHHHHHc---CCcEEEEEeCC----C---c------c-c----ccccc--cCCchHHHHH-----------Hh
Confidence 57999999999998 48899999752 1 1 1 1 46665 4432221111 12
Q ss_pred CC-CcccceeeEEECCCCcE-EEEEcCCCChhHHHHHHHHhh
Q 033205 83 GD-DIQWNFAKFLVDKNGQV-VDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 83 g~-~i~~~PttflId~~G~v-~~~~~G~~~~~~l~~~I~~ll 122 (125)
+. ++.++||+||||++|++ +.++.|.++.+++++.|+++|
T Consensus 112 ~~~~v~~iPTt~LID~~G~~i~~~~~G~~s~~~l~~~I~~ll 153 (153)
T TIGR02738 112 PNPRPVVTPATFLVNVNTRKAYPVLQGAVDEAELANRMDEIL 153 (153)
T ss_pred ccCCCCCCCeEEEEeCCCCEEEEEeecccCHHHHHHHHHHhC
Confidence 11 46788999999999886 557899999999999998875
No 45
>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=99.27 E-value=6.4e-11 Score=74.35 Aligned_cols=82 Identities=24% Similarity=0.525 Sum_probs=65.8
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
.+.+|.|.+++++|++.++.+++|+++. .+.+.+++|++ +++.+||++ .|....... .|
T Consensus 35 ~~~~~~l~~~~~~~~~~~~~~~~v~~d~------~~~~~~~~~~~-~~~~~~~~~--~~~~~~~~~------------~~ 93 (116)
T cd02966 35 RAEMPELEALAKEYKDDGVEVVGVNVDD------DDPAAVKAFLK-KYGITFPVL--LDPDGELAK------------AY 93 (116)
T ss_pred HHHhHHHHHHHHHhCCCCeEEEEEECCC------CCHHHHHHHHH-HcCCCcceE--EcCcchHHH------------hc
Confidence 4678999999999987789999999862 24889999995 679999999 565433322 25
Q ss_pred CCCcccceeeEEECCCCcEEEEEcC
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYP 107 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G 107 (125)
++..+|++||+|++|+|++++.|
T Consensus 94 --~~~~~P~~~l~d~~g~v~~~~~g 116 (116)
T cd02966 94 --GVRGLPTTFLIDRDGRIRARHVG 116 (116)
T ss_pred --CcCccceEEEECCCCcEEEEecC
Confidence 46788999999999999999866
No 46
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=4.5e-11 Score=82.92 Aligned_cols=101 Identities=19% Similarity=0.320 Sum_probs=71.8
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHh---hCC---cccceeEeeccCCCccchHHHHHHh
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCT---RFK---SEFPIFEKIDVNGEHASPLYKLLKS 76 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~---~~~---~~fpv~~~~D~~g~~~~~~~~~l~~ 76 (125)
..|+..++++|++|+++|++|||||+| +...+.+|... +.+ ++||++ .|.+++.++ .|..+..
T Consensus 50 pTEi~af~~~y~eF~~~g~eVigvS~D--------s~fsH~aW~~~~~~~~gi~~i~~Pmi--aD~~~~vs~-~ygvl~~ 118 (194)
T COG0450 50 PTEIIAFAKRYEEFQKRGVEVIGVSTD--------SVFSHKAWKATIREAGGIGKIKFPMI--ADPKGEIAR-AYGVLHP 118 (194)
T ss_pred cchHHHHHhhhHHHHHcCCEEEEEecC--------cHHHHHHHHhcHHhcCCccceecceE--EcCchhHHH-HcCCccc
Confidence 368999999999999999999999985 45666666532 455 799999 688888776 3333221
Q ss_pred CCCCCCCCCcccceeeEEECCCCcEEEEEcCCC----ChhHHHHHHHHh
Q 033205 77 GKWGIFGDDIQWNFAKFLVDKNGQVVDRYYPTT----SLLSLEHDIKKL 121 (125)
Q Consensus 77 ~~~~~~g~~i~~~PttflId~~G~v~~~~~G~~----~~~~l~~~I~~l 121 (125)
.. + ..+..+|||||+|+|+....-.. +.+++.+.|+.+
T Consensus 119 ~~------g-~a~R~~FIIDp~g~ir~~~v~~~~iGRn~dEilR~idAl 160 (194)
T COG0450 119 EE------G-LALRGTFIIDPDGVIRHILVNPLTIGRNVDEILRVIDAL 160 (194)
T ss_pred CC------C-cceeEEEEECCCCeEEEEEEecCCCCcCHHHHHHHHHHH
Confidence 10 1 25688999999999998765333 344555555544
No 47
>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=99.26 E-value=2.9e-11 Score=79.97 Aligned_cols=89 Identities=19% Similarity=0.322 Sum_probs=63.4
Q ss_pred hhhHHHHHHHHHHhccCC---eEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCC
Q 033205 3 NSNYIELSQLYDKYKDQG---LEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKW 79 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g---~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~ 79 (125)
..++|.|++++++|++++ ++||+|+++. +.++++.+++|++ +++.+||++ .|.... ...+.+ .
T Consensus 39 ~~~l~~l~~~~~~~~~~~~~~v~~v~vs~d~----~~d~~~~~~~~~~-~~~~~~~~l--~~~~~~-~~~~~~----~-- 104 (142)
T cd02968 39 PTTLANLAQALKQLGADGGDDVQVVFISVDP----ERDTPEVLKAYAK-AFGPGWIGL--TGTPEE-IEALAK----A-- 104 (142)
T ss_pred HHHHHHHHHHHHHhhHhhcCceEEEEEEECC----CCCCHHHHHHHHH-HhCCCcEEE--ECCHHH-HHHHHH----H--
Confidence 578999999999999875 9999999862 2256889999995 679999999 453211 111221 1
Q ss_pred CCCCC------------CcccceeeEEECCCCcEEEEEcC
Q 033205 80 GIFGD------------DIQWNFAKFLVDKNGQVVDRYYP 107 (125)
Q Consensus 80 ~~~g~------------~i~~~PttflId~~G~v~~~~~G 107 (125)
||. .+...|++||||++|+|++++.|
T Consensus 105 --~g~~~~~~~~~~~~~~~~~~~~~~lid~~G~i~~~~~~ 142 (142)
T cd02968 105 --FGVYYEKVPEDDGDYLVDHSAAIYLVDPDGKLVRYYGG 142 (142)
T ss_pred --hcEEEEecCCCCCceeEeccceEEEECCCCCEEEeecC
Confidence 321 01124689999999999998854
No 48
>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=99.19 E-value=1.5e-10 Score=71.72 Aligned_cols=78 Identities=18% Similarity=0.272 Sum_probs=56.5
Q ss_pred hhhHHHHHHHHHHhc-cCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 3 NSNYIELSQLYDKYK-DQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~-~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
..++|.|.+++++|+ +++++||+|+++ .+.++.+++++ +.+.+++.+. ..++. ...+ .+ .
T Consensus 17 ~~~~~~l~~l~~~~~~~~~v~~v~Vs~d-------~~~~~~~~~~~-~~~~~~~~~~--~~~~~-~~~l----~~----~ 77 (95)
T PF13905_consen 17 KKELPKLKELYKKYKKKDDVEFVFVSLD-------EDEEEWKKFLK-KNNFPWYNVP--FDDDN-NSEL----LK----K 77 (95)
T ss_dssp HHHHHHHHHHHHHHTTTTTEEEEEEE-S-------SSHHHHHHHHH-TCTTSSEEEE--TTTHH-HHHH----HH----H
T ss_pred HHHHHHHHHHHHHhCCCCCEEEEEEEeC-------CCHHHHHHHHH-hcCCCceEEe--eCcch-HHHH----HH----H
Confidence 578999999999999 668999999985 24788999995 6677777663 21111 1112 22 1
Q ss_pred CCCCcccceeeEEECCCCcE
Q 033205 82 FGDDIQWNFAKFLVDKNGQV 101 (125)
Q Consensus 82 ~g~~i~~~PttflId~~G~v 101 (125)
| ++.++|+.+|+|++|+|
T Consensus 78 ~--~i~~iP~~~lld~~G~I 95 (95)
T PF13905_consen 78 Y--GINGIPTLVLLDPDGKI 95 (95)
T ss_dssp T--T-TSSSEEEEEETTSBE
T ss_pred C--CCCcCCEEEEECCCCCC
Confidence 5 58899999999999987
No 49
>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=99.17 E-value=1.5e-10 Score=73.85 Aligned_cols=75 Identities=15% Similarity=0.233 Sum_probs=57.1
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcc-cceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSE-FPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~-fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
..++|.|++++++|++ ++.|++|+ + ++.+++++|++ +++++ ||++ .+ +.... .
T Consensus 37 ~~~~p~l~~~~~~~~~-~~~vi~v~-~-------~~~~~~~~~~~-~~~~~~~p~~--~~--~~~~~------------~ 90 (114)
T cd02967 37 KKLLPVIRSIARAEAD-WLDVVLAS-D-------GEKAEHQRFLK-KHGLEAFPYV--LS--AELGM------------A 90 (114)
T ss_pred HhHhHHHHHHHHHhcC-CcEEEEEe-C-------CCHHHHHHHHH-HhCCCCCcEE--ec--HHHHh------------h
Confidence 5689999999999865 58888775 2 24778999995 78985 9988 33 22211 2
Q ss_pred CCCCcccceeeEEECCCCcEEEEE
Q 033205 82 FGDDIQWNFAKFLVDKNGQVVDRY 105 (125)
Q Consensus 82 ~g~~i~~~PttflId~~G~v~~~~ 105 (125)
| ++..+|++||||++|+|+++.
T Consensus 91 ~--~~~~~P~~~vid~~G~v~~~~ 112 (114)
T cd02967 91 Y--QVSKLPYAVLLDEAGVIAAKG 112 (114)
T ss_pred c--CCCCcCeEEEECCCCeEEecc
Confidence 5 477889999999999999874
No 50
>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=99.14 E-value=2.1e-10 Score=75.49 Aligned_cols=82 Identities=17% Similarity=0.283 Sum_probs=57.9
Q ss_pred hhhHHHHHHHHHHhccC--CeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCC
Q 033205 3 NSNYIELSQLYDKYKDQ--GLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWG 80 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~--g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~ 80 (125)
..++|.|++++++|+++ +++|++|+.+ .+.+++++|++ +++ .|+.+.-.|.. ... .+.+
T Consensus 33 ~~~~p~l~~l~~~~~~~~~~v~vi~Vs~d-------~~~~~~~~~~~-~~~-~~~~~~~~d~~--~~~----~~~~---- 93 (132)
T cd02964 33 RAFTPKLVEFYEKLKEEGKNFEIVFVSRD-------RSEESFNEYFS-EMP-PWLAVPFEDEE--LRE----LLEK---- 93 (132)
T ss_pred HHHHHHHHHHHHHHhhcCCCeEEEEEecC-------CCHHHHHHHHh-cCC-CeEeeccCcHH--HHH----HHHH----
Confidence 46899999999999975 7999999975 24678899995 666 55444101110 001 1111
Q ss_pred CCCCCcccceeeEEECCCCcEEEEE
Q 033205 81 IFGDDIQWNFAKFLVDKNGQVVDRY 105 (125)
Q Consensus 81 ~~g~~i~~~PttflId~~G~v~~~~ 105 (125)
.| ++.++|+++|||++|+|+.+.
T Consensus 94 ~~--~v~~iPt~~lid~~G~iv~~~ 116 (132)
T cd02964 94 QF--KVEGIPTLVVLKPDGDVVTTN 116 (132)
T ss_pred Hc--CCCCCCEEEEECCCCCEEchh
Confidence 15 588899999999999999875
No 51
>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=99.14 E-value=5e-10 Score=78.19 Aligned_cols=89 Identities=12% Similarity=0.123 Sum_probs=63.6
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
+.++|.++++++++ ++.|++|+. ++.+++++|++ +++++||.+. .++.... .|
T Consensus 90 ~~~lp~l~~~~~~~---~~~vv~Is~--------~~~~~~~~~~~-~~~~~~~~~~---~~~~i~~------------~y 142 (189)
T TIGR02661 90 DKLFPIIKSIARAE---ETDVVMISD--------GTPAEHRRFLK-DHELGGERYV---VSAEIGM------------AF 142 (189)
T ss_pred HHHHHHHHHHHHhc---CCcEEEEeC--------CCHHHHHHHHH-hcCCCcceee---chhHHHH------------hc
Confidence 57899999998764 577888883 24778999995 7899998762 2232222 25
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
++..+|++|+||++|+|+++.. ....+.+++.++.+
T Consensus 143 --~v~~~P~~~lID~~G~I~~~g~-~~~~~~le~ll~~l 178 (189)
T TIGR02661 143 --QVGKIPYGVLLDQDGKIRAKGL-TNTREHLESLLEAD 178 (189)
T ss_pred --cCCccceEEEECCCCeEEEccC-CCCHHHHHHHHHHH
Confidence 4778899999999999998742 22445677666654
No 52
>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=99.10 E-value=5.5e-10 Score=75.74 Aligned_cols=92 Identities=17% Similarity=0.220 Sum_probs=64.5
Q ss_pred hhh-HHHHHHHHHHhccCCe-EEEEeeCCCCCCCCCCCHHHHHHHHHhhCCc--ccceeEeeccCCCccchHHHHHHhCC
Q 033205 3 NSN-YIELSQLYDKYKDQGL-EILAFPCNQFGEEEPGSNDQIADFVCTRFKS--EFPIFEKIDVNGEHASPLYKLLKSGK 78 (125)
Q Consensus 3 ~~e-~p~l~~l~~~y~~~g~-~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~--~fpv~~~~D~~g~~~~~~~~~l~~~~ 78 (125)
..| ++.|++.+++|+++|. .|+||+.| +...+++|++ ++++ +||++ .|.++..++ .|+.+....
T Consensus 46 t~e~~~~~~~~~~~f~~~g~~~V~~iS~D--------~~~~~~~~~~-~~~~~~~f~lL--sD~~~~~~~-~ygv~~~~~ 113 (155)
T cd03013 46 SAQHLPGYVENADELKAKGVDEVICVSVN--------DPFVMKAWGK-ALGAKDKIRFL--ADGNGEFTK-ALGLTLDLS 113 (155)
T ss_pred chhHHHHHHHhHHHHHHCCCCEEEEEECC--------CHHHHHHHHH-hhCCCCcEEEE--ECCCHHHHH-HcCCCcccc
Confidence 468 9999999999999999 69999964 5788999995 6787 89999 677665544 222111000
Q ss_pred CCCCCCCcccceeeEEECCCCcEEEEEcCCC
Q 033205 79 WGIFGDDIQWNFAKFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 79 ~~~~g~~i~~~PttflId~~G~v~~~~~G~~ 109 (125)
..|......+.+|||| +|+|++.+....
T Consensus 114 --~~~~~~~~~R~~fiId-~g~I~~~~~~~~ 141 (155)
T cd03013 114 --AAGGGIRSKRYALIVD-DGKVKYLFVEED 141 (155)
T ss_pred --ccCCcceeeeEEEEEC-CCEEEEEEEecC
Confidence 0010111248899999 799999886544
No 53
>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=98.97 E-value=1.5e-09 Score=71.13 Aligned_cols=80 Identities=19% Similarity=0.356 Sum_probs=54.7
Q ss_pred hhhHHHHHHHHHHhccC--CeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCc-ccceeEeeccCCCccchHHHHHHhCCC
Q 033205 3 NSNYIELSQLYDKYKDQ--GLEILAFPCNQFGEEEPGSNDQIADFVCTRFKS-EFPIFEKIDVNGEHASPLYKLLKSGKW 79 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~--g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~-~fpv~~~~D~~g~~~~~~~~~l~~~~~ 79 (125)
..++|.|++++++|+++ +++|++|+.+. +.+++++|++ +++. .+|... .|... .+.+
T Consensus 34 ~~~~p~l~~~~~~~~~~~~~~~vv~is~d~-------~~~~~~~~~~-~~~~~~~~~~~-~~~~~--------~~~~--- 93 (131)
T cd03009 34 RAFTPKLVEFYEKLKESGKNFEIVFISWDR-------DEESFNDYFS-KMPWLAVPFSD-RERRS--------RLNR--- 93 (131)
T ss_pred HHHhHHHHHHHHHHHhcCCCEEEEEEECCC-------CHHHHHHHHH-cCCeeEcccCC-HHHHH--------HHHH---
Confidence 57899999999999865 79999999752 3577888884 4432 222210 01111 1111
Q ss_pred CCCCCCcccceeeEEECCCCcEEEEE
Q 033205 80 GIFGDDIQWNFAKFLVDKNGQVVDRY 105 (125)
Q Consensus 80 ~~~g~~i~~~PttflId~~G~v~~~~ 105 (125)
.| ++..+|++||||++|+|+.+-
T Consensus 94 -~~--~v~~~P~~~lid~~G~i~~~~ 116 (131)
T cd03009 94 -TF--KIEGIPTLIILDADGEVVTTD 116 (131)
T ss_pred -Hc--CCCCCCEEEEECCCCCEEccc
Confidence 25 478899999999999998874
No 54
>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=98.79 E-value=7.9e-08 Score=64.28 Aligned_cols=40 Identities=10% Similarity=0.075 Sum_probs=36.7
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
+|.++||++|+|++|+++.++.|..+.++|.+.|++++++
T Consensus 73 ~V~~iPt~v~~~~~G~~v~~~~G~~~~~~l~~~l~~l~~~ 112 (142)
T cd02950 73 RVDGIPHFVFLDREGNEEGQSIGLQPKQVLAQNLDALVAG 112 (142)
T ss_pred CCCCCCEEEEECCCCCEEEEEeCCCCHHHHHHHHHHHHcC
Confidence 4788899999999999999999999999999999998864
No 55
>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=98.34 E-value=2.3e-06 Score=63.03 Aligned_cols=83 Identities=22% Similarity=0.209 Sum_probs=58.4
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
..++|.|++++++|+ +.|++|++|. .. . . .||.+. + +...+. .|
T Consensus 182 ~~~~P~L~~la~~yg---~~Vi~VsvD~----~~--~--------~----~fp~~~--~-d~~la~------------~~ 225 (271)
T TIGR02740 182 HQQAPILQAFEDRYG---IEVLPVSVDG----GP--L--------P----GFPNAR--P-DAGQAQ------------QL 225 (271)
T ss_pred HHHhHHHHHHHHHcC---cEEEEEeCCC----Cc--c--------c----cCCccc--C-CHHHHH------------Hc
Confidence 568899999999984 8899999762 11 0 0 266652 2 211222 15
Q ss_pred CCCcccceeeEEECC-CCcEEEEEcCCCChhHHHHHHHHhhc
Q 033205 83 GDDIQWNFAKFLVDK-NGQVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 83 g~~i~~~PttflId~-~G~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
+|..+|++||+|+ .|+|..+..|.++.++|.+.|..+..
T Consensus 226 --gV~~vPtl~Lv~~~~~~v~~v~~G~~s~~eL~~~i~~~a~ 265 (271)
T TIGR02740 226 --KIRTVPAVFLADPDPNQFTPIGFGVMSADELVDRILLAAH 265 (271)
T ss_pred --CCCcCCeEEEEECCCCEEEEEEeCCCCHHHHHHHHHHHhc
Confidence 5888999999999 56676677899999999988876643
No 56
>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=98.17 E-value=3.3e-05 Score=48.60 Aligned_cols=33 Identities=15% Similarity=-0.056 Sum_probs=24.9
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIK 119 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~ 119 (125)
+|.++||.+ +-++|+++.++.|.. +..|.+.|.
T Consensus 68 ~V~~~Pt~~-~~~~G~~v~~~~G~~-~~~l~~~~~ 100 (103)
T cd02985 68 KIIEVPHFL-FYKDGEKIHEEEGIG-PDELIGDVL 100 (103)
T ss_pred CCCcCCEEE-EEeCCeEEEEEeCCC-HHHHHHHHH
Confidence 578889854 559999999999954 666666654
No 57
>KOG0855 consensus Alkyl hydroperoxide reductase, thiol specific antioxidant and related enzymes [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=8.7e-06 Score=55.64 Aligned_cols=102 Identities=18% Similarity=0.248 Sum_probs=70.1
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIF 82 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~ 82 (125)
+++.+.++.-|++++..|.+|+|++.| +....++|. .+++++|.++ .|+.++.... |.... .-|
T Consensus 107 TkQaCgFRDnY~k~kka~aeV~GlS~D--------~s~sqKaF~-sKqnlPYhLL--SDpk~e~ik~----lGa~k-~p~ 170 (211)
T KOG0855|consen 107 TKQACGFRDNYEKFKKAGAEVIGLSGD--------DSASQKAFA-SKQNLPYHLL--SDPKNEVIKD----LGAPK-DPF 170 (211)
T ss_pred ccccccccccHHHHhhcCceEEeeccC--------chHHHHHhh-hhccCCeeee--cCcchhHHHH----hCCCC-CCC
Confidence 357788999999999889999999954 466788999 5789999999 7887765442 11110 113
Q ss_pred CCCcccceeeEEECCCCcEEEEEcCCCChhH-HHHHHHHhh
Q 033205 83 GDDIQWNFAKFLVDKNGQVVDRYYPTTSLLS-LEHDIKKLL 122 (125)
Q Consensus 83 g~~i~~~PttflId~~G~v~~~~~G~~~~~~-l~~~I~~ll 122 (125)
| + .....+|++|+.|.......-.++|+. +.+.++.++
T Consensus 171 g-g-~~~Rsh~if~kg~~k~~ik~~~isPevsvd~a~k~~~ 209 (211)
T KOG0855|consen 171 G-G-LPGRSHYIFDKGGVKQLIKNNQISPEVSVDEALKFLK 209 (211)
T ss_pred C-C-cccceEEEEecCCeEEEEEecccCccccHHHHHHHHh
Confidence 2 1 123679999999877666665666653 444444443
No 58
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=97.92 E-value=0.00012 Score=46.78 Aligned_cols=83 Identities=24% Similarity=0.326 Sum_probs=56.4
Q ss_pred HHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCC----------
Q 033205 9 LSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGK---------- 78 (125)
Q Consensus 9 l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~---------- 78 (125)
|.+.+.++.+.|+.+|+|.+. +.+.+++|++ ..+.+||++ .|++.. +|+.+.-..
T Consensus 2 L~~~~~~l~~~gv~lv~I~~g--------~~~~~~~f~~-~~~~p~~ly--~D~~~~----lY~~lg~~~~~~~~~~~~~ 66 (115)
T PF13911_consen 2 LSRRKPELEAAGVKLVVIGCG--------SPEGIEKFCE-LTGFPFPLY--VDPERK----LYKALGLKRGLKWSLLPPA 66 (115)
T ss_pred hhHhHHHHHHcCCeEEEEEcC--------CHHHHHHHHh-ccCCCCcEE--EeCcHH----HHHHhCCccccccCCCchH
Confidence 566677777789999999974 4656999995 679999998 676422 333322111
Q ss_pred -----------------CCCC-CCCcccceeeEEECCCCcEEEEEc
Q 033205 79 -----------------WGIF-GDDIQWNFAKFLVDKNGQVVDRYY 106 (125)
Q Consensus 79 -----------------~~~~-g~~i~~~PttflId~~G~v~~~~~ 106 (125)
.+.+ ...+...+-+||+|++|+|++.|.
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~g~~~q~GG~fv~d~~g~v~~~hr 112 (115)
T PF13911_consen 67 LWSGLSNIVQSAKNGGIPGNKDQGDGWQLGGTFVFDPGGKVLYEHR 112 (115)
T ss_pred HHHHHHHHHHHHHHcCCCCcccCCCceecCeEEEEcCCCeEEEEEe
Confidence 0011 113444578999999999999885
No 59
>PRK09381 trxA thioredoxin; Provisional
Probab=97.91 E-value=0.00013 Score=46.00 Aligned_cols=38 Identities=24% Similarity=0.123 Sum_probs=33.0
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
++..+||.+++ ++|+++.++.|..+.++|++.|.+.|.
T Consensus 72 ~v~~~Pt~~~~-~~G~~~~~~~G~~~~~~l~~~i~~~~~ 109 (109)
T PRK09381 72 GIRGIPTLLLF-KNGEVAATKVGALSKGQLKEFLDANLA 109 (109)
T ss_pred CCCcCCEEEEE-eCCeEEEEecCCCCHHHHHHHHHHhcC
Confidence 57889998888 799999999999999999999887763
No 60
>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=97.88 E-value=0.00013 Score=46.47 Aligned_cols=36 Identities=19% Similarity=-0.002 Sum_probs=31.3
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
+|.++||.+++ ++|+++.++.|..+.+.|.+.|+++
T Consensus 76 ~V~~~Pt~~i~-~~g~~~~~~~G~~~~~~l~~~i~~~ 111 (111)
T cd02963 76 GAHSVPAIVGI-INGQVTFYHDSSFTKQHVVDFVRKL 111 (111)
T ss_pred CCccCCEEEEE-ECCEEEEEecCCCCHHHHHHHHhcC
Confidence 58899999999 5999999999999988888888764
No 61
>KOG0852 consensus Alkyl hydroperoxide reductase, thiol specific antioxidant and related enzymes [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=7.2e-05 Score=51.49 Aligned_cols=86 Identities=17% Similarity=0.244 Sum_probs=59.4
Q ss_pred hhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHH---HhhCC---cccceeEeeccCCCccchHHHHHHhC
Q 033205 4 SNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFV---CTRFK---SEFPIFEKIDVNGEHASPLYKLLKSG 77 (125)
Q Consensus 4 ~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~---~~~~~---~~fpv~~~~D~~g~~~~~~~~~l~~~ 77 (125)
.|+-.+.+.+++|++.+-+|||+++| |...+.+|+ +++-| +++|++ .|.+.+..+. |..|...
T Consensus 51 teIiafSd~~~eF~~~n~eVig~S~D--------S~fshlAW~ntprk~gGlg~~~iPll--sD~~~~Isrd-yGvL~~~ 119 (196)
T KOG0852|consen 51 TEIIAFSDRAPEFRKLNTEVLGISTD--------SVFSHLAWINTPRKQGGLGPLNIPLL--SDLNHEISRD-YGVLKED 119 (196)
T ss_pred hhhhhhhhhHHHHHhcCCeEEEEecc--------chhhhhhHhcCchhhCCcCcccccee--eccchhhHHh-cCceecC
Confidence 46777889999999999999999985 456677776 22334 459999 6877665552 3222221
Q ss_pred CCCCCCCCcccceeeEEECCCCcEEEEEcC
Q 033205 78 KWGIFGDDIQWNFAKFLVDKNGQVVDRYYP 107 (125)
Q Consensus 78 ~~~~~g~~i~~~PttflId~~G~v~~~~~G 107 (125)
. + ..+.-.|+||++|.+++...-
T Consensus 120 ~------G-~~lRglfIId~~gi~R~it~N 142 (196)
T KOG0852|consen 120 E------G-IALRGLFIIDPDGILRQITIN 142 (196)
T ss_pred C------C-cceeeeEEEccccceEEeeec
Confidence 1 1 234678999999999886543
No 62
>COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]
Probab=97.86 E-value=0.00046 Score=48.95 Aligned_cols=111 Identities=16% Similarity=0.216 Sum_probs=68.0
Q ss_pred hHHHHHHHHHHhc---cCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCC--ccchHHHHHHhCC-
Q 033205 5 NYIELSQLYDKYK---DQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGE--HASPLYKLLKSGK- 78 (125)
Q Consensus 5 e~p~l~~l~~~y~---~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~--~~~~~~~~l~~~~- 78 (125)
++..|..+.++-. ...++++-|++| -|+|+++.+++|+.....-.|--+ .|. ....+++.+.-..
T Consensus 86 ~l~~l~~~~~~l~~~~~~~v~vv~itvD----PerDtp~~lk~Y~~~~~~~~~~~l-----tg~~~~~~~~~k~~~V~~~ 156 (207)
T COG1999 86 TLAELKALLKKLGEGEGDDVQVVFITVD----PERDTPEVLKKYAELNFDPRWIGL-----TGTPEQIEEVAKAYGVFYS 156 (207)
T ss_pred HHHHHHHHHHHhccccCCCEEEEEEEEC----CCCCCHHHHHHHhcccCCCCeeee-----eCCHHHHHHHHHHhcceee
Confidence 4566777777666 446999999997 467888888999830222222222 221 1122222211100
Q ss_pred ----CCCCCCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 79 ----WGIFGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 79 ----~~~~g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
.+.-.+.+.-.-..||||++|++..++.+..+++++.+.|+.++++
T Consensus 157 ~v~~~~~~~y~~~Hs~~~~lid~~G~~~~~~~~~~~~~~i~~~l~~l~~~ 206 (207)
T COG1999 157 KVPLDDSQNYTIDHSAGFYLIDADGRFLGTYDYGEPPEEIAADLKKLLKE 206 (207)
T ss_pred ecccCCCCCceeeeeeEEEEECCCCeEEEEecCCCChHHHHHHHHHHhhc
Confidence 0000012333356899999999999998888899999999998864
No 63
>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=97.85 E-value=0.00012 Score=45.86 Aligned_cols=34 Identities=3% Similarity=-0.197 Sum_probs=30.3
Q ss_pred CcccceeeEEECC-CCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDK-NGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~-~G~v~~~~~G~~~~~~l~~~I 118 (125)
++.++||.+++++ +|+++.++.|..+.+++.+.|
T Consensus 69 ~i~~~Pti~~~~~~~g~~~~~~~G~~~~~~l~~~l 103 (104)
T cd02953 69 GVFGPPTYLFYGPGGEPEPLRLPGFLTADEFLEAL 103 (104)
T ss_pred CCCCCCEEEEECCCCCCCCcccccccCHHHHHHHh
Confidence 4788999999999 999999999999998887765
No 64
>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=97.82 E-value=2.7e-05 Score=49.22 Aligned_cols=34 Identities=21% Similarity=0.158 Sum_probs=27.1
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
+|+++||.+++|++|+++.++.|.+++++|.+.+
T Consensus 79 ~v~gtPt~~~~d~~G~~v~~~~G~~~~~~l~~~L 112 (112)
T PF13098_consen 79 GVNGTPTIVFLDKDGKIVYRIPGYLSPEELLKML 112 (112)
T ss_dssp T--SSSEEEECTTTSCEEEEEESS--HHHHHHHH
T ss_pred CCCccCEEEEEcCCCCEEEEecCCCCHHHHHhhC
Confidence 5899999999999999999999999999887653
No 65
>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=97.82 E-value=4.3e-05 Score=49.48 Aligned_cols=40 Identities=8% Similarity=0.071 Sum_probs=36.7
Q ss_pred CcccceeeEEECCC-CcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 85 DIQWNFAKFLVDKN-GQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 85 ~i~~~PttflId~~-G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
++.++||++|+|++ |+++.++.|..+.+.+.+.|+.++.+
T Consensus 81 ~v~~~Pt~~~~~~~gg~~~~~~~G~~~~~~~~~~l~~~~~~ 121 (125)
T cd02951 81 RVRFTPTVIFLDPEGGKEIARLPGYLPPDEFLAYLEYVQEK 121 (125)
T ss_pred CCccccEEEEEcCCCCceeEEecCCCCHHHHHHHHHHHHhh
Confidence 58889999999999 89999999999999999999998865
No 66
>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=97.74 E-value=0.00027 Score=43.38 Aligned_cols=33 Identities=21% Similarity=0.208 Sum_probs=28.8
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
+|..+||+++++ +|+++.++.|..+.++|...|
T Consensus 63 ~i~~~Pt~~~~~-~g~~~~~~~g~~~~~~l~~~l 95 (96)
T cd02956 63 GVQALPTVYLFA-AGQPVDGFQGAQPEEQLRQML 95 (96)
T ss_pred CCCCCCEEEEEe-CCEEeeeecCCCCHHHHHHHh
Confidence 578899999996 999999999999888887765
No 67
>KOG0910 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=0.00023 Score=47.93 Aligned_cols=39 Identities=33% Similarity=0.383 Sum_probs=35.7
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
+|.++||++++ ++|+.+.++.|..+.+.|++.|++.|+.
T Consensus 112 ~I~avPtvlvf-knGe~~d~~vG~~~~~~l~~~i~k~l~~ 150 (150)
T KOG0910|consen 112 EISAVPTVLVF-KNGEKVDRFVGAVPKEQLRSLIKKFLKL 150 (150)
T ss_pred ceeeeeEEEEE-ECCEEeeeecccCCHHHHHHHHHHHhcC
Confidence 69999999888 7999999999999999999999998863
No 68
>KOG0854 consensus Alkyl hydroperoxide reductase, thiol specific antioxidant and related enzymes [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=0.0005 Score=47.55 Aligned_cols=114 Identities=16% Similarity=0.258 Sum_probs=68.0
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhh-CCcccceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTR-FKSEFPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~-~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
+.|+-.+.++.-+|..+|+..||.+|++.... .+=.++++.|.+.. +.++||++ -|.+.+.+- ++..+.....+.
T Consensus 49 TTElgr~Akl~pEF~KRnvKlialS~d~vesH-~~Wi~DIks~~~~~~~~~~yPII--aD~~rela~-~l~MlD~~e~~~ 124 (224)
T KOG0854|consen 49 TTELGRFAKLAPEFDKRNVKLIALSVDDVESH-KDWIKDIKSYAKVKNHSVPYPII--ADPNRELAF-LLNMLDPEEKKN 124 (224)
T ss_pred hHHHHHHHhhChhhhhcCceEEEeehhhHHHH-HHHHHHHHHHHhccCCCCCCCee--cCCchhhhh-hhcccCHhHcCC
Confidence 46888999999999999999999999742100 00013344454321 23899999 577665544 444443321101
Q ss_pred CCCCcccceeeEEECCCCcEEEEEcCCC----ChhHHHHHHHHh
Q 033205 82 FGDDIQWNFAKFLVDKNGQVVDRYYPTT----SLLSLEHDIKKL 121 (125)
Q Consensus 82 ~g~~i~~~PttflId~~G~v~~~~~G~~----~~~~l~~~I~~l 121 (125)
-| ........|+||++-+|+-.+.-.. +.+++.+.|..|
T Consensus 125 ~~-~~~T~Ravfvi~pdkKirLs~lYP~ttGRN~dEiLRvidsL 167 (224)
T KOG0854|consen 125 IG-DGKTVRAVFVIDPDKKIRLSFLYPSTTGRNFDEILRVIDSL 167 (224)
T ss_pred CC-CCceEEEEEEECCCceEEEEEEcccccCcCHHHHHHHHHHH
Confidence 11 1123467899999999987654322 344555555554
No 69
>PRK10996 thioredoxin 2; Provisional
Probab=97.63 E-value=0.00046 Score=45.81 Aligned_cols=37 Identities=24% Similarity=0.240 Sum_probs=32.1
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
+|..+||.+++ ++|+++.++.|..+.+.+++.|++++
T Consensus 103 ~V~~~Ptlii~-~~G~~v~~~~G~~~~e~l~~~l~~~~ 139 (139)
T PRK10996 103 RIRSIPTIMIF-KNGQVVDMLNGAVPKAPFDSWLNEAL 139 (139)
T ss_pred CCCccCEEEEE-ECCEEEEEEcCCCCHHHHHHHHHHhC
Confidence 58889997776 59999999999999999999988764
No 70
>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=97.63 E-value=0.00058 Score=42.74 Aligned_cols=35 Identities=26% Similarity=0.254 Sum_probs=28.3
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
+|+.+|| |++-++|+++.+..|. +++.+.+.|+++
T Consensus 68 ~v~~~Pt-~~~~~~g~~~~~~~G~-~~~~~~~~i~~~ 102 (102)
T cd02948 68 RGKCEPT-FLFYKNGELVAVIRGA-NAPLLNKTITEL 102 (102)
T ss_pred CCCcCcE-EEEEECCEEEEEEecC-ChHHHHHHHhhC
Confidence 5888995 5666899999999885 788888888764
No 71
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=97.62 E-value=0.00067 Score=44.88 Aligned_cols=39 Identities=10% Similarity=0.015 Sum_probs=35.1
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
+|+++||.+|+ ++|+++.+..|..+.+++.+.|+++|+.
T Consensus 88 gV~siPTLl~F-kdGk~v~~i~G~~~k~~l~~~I~~~L~~ 126 (132)
T PRK11509 88 GVFRFPATLVF-TGGNYRGVLNGIHPWAELINLMRGLVEP 126 (132)
T ss_pred CCccCCEEEEE-ECCEEEEEEeCcCCHHHHHHHHHHHhcC
Confidence 58999987777 9999999999999999999999998863
No 72
>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=97.60 E-value=0.00051 Score=47.33 Aligned_cols=95 Identities=16% Similarity=0.192 Sum_probs=54.5
Q ss_pred hHHHHHHHHHHhcc--CCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCC---
Q 033205 5 NYIELSQLYDKYKD--QGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKW--- 79 (125)
Q Consensus 5 e~p~l~~l~~~y~~--~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~--- 79 (125)
.+-.|.+++++.++ +.+++|.|++| -+.|+++.+++|++ +++.+|.-+. .+. .....+.+.+.-...
T Consensus 71 ~l~~l~~~~~~l~~~~~~v~~v~ISvD----P~~DTp~~L~~Y~~-~~~~~~~~lt-g~~--~~i~~l~~~~~v~~~~~~ 142 (174)
T PF02630_consen 71 TLANLSQLQKQLGEEGKDVQFVFISVD----PERDTPEVLKKYAK-KFGPDFIGLT-GSR--EEIEELAKQFGVYYEKVP 142 (174)
T ss_dssp HHHHHHHHHHHHHHTTTTEEEEEEESS----TTTC-HHHHHHHHH-CHTTTCEEEE-EEH--HHHHHHHHHCTHCEEEEE
T ss_pred HHHHHHHHHHHhhhccCceEEEEEEeC----CCCCCHHHHHHHHH-hcCCCcceeE-eCH--HHHHHHHHHHHhhhcccc
Confidence 34556666666664 36999999997 34678999999995 6787776653 111 111212221110000
Q ss_pred C---CCCCCcccceeeEEECCCCcEEEEEcC
Q 033205 80 G---IFGDDIQWNFAKFLVDKNGQVVDRYYP 107 (125)
Q Consensus 80 ~---~~g~~i~~~PttflId~~G~v~~~~~G 107 (125)
. .-++.+.-....|||||+|+++..+.+
T Consensus 143 ~~~~~~~~~i~Hs~~~~Lidp~G~i~~~y~~ 173 (174)
T PF02630_consen 143 EDKPEGDYQIDHSAFIYLIDPDGRIRAIYNL 173 (174)
T ss_dssp SSSTTSCEEEEESSEEEEE-TTSEEEEEECS
T ss_pred cccCCCCceEecccEEEEEcCCCcEEEEEcc
Confidence 0 000012233578999999999999854
No 73
>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=97.57 E-value=0.00074 Score=43.08 Aligned_cols=40 Identities=13% Similarity=0.141 Sum_probs=35.8
Q ss_pred CcccceeeEEECC-CCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 85 DIQWNFAKFLVDK-NGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 85 ~i~~~PttflId~-~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
++..+|+.++||+ +|+++.+..|..+++++...|+++..+
T Consensus 73 ~~~~~P~~~~i~~~~g~~l~~~~G~~~~~~f~~~L~~~~~~ 113 (114)
T cd02958 73 KVDKYPHIAIIDPRTGEVLKVWSGNITPEDLLSQLIEFLEE 113 (114)
T ss_pred CccCCCeEEEEeCccCcEeEEEcCCCCHHHHHHHHHHHHhc
Confidence 4778999999999 899999999999999999988887653
No 74
>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=97.53 E-value=0.0006 Score=42.06 Aligned_cols=32 Identities=31% Similarity=0.354 Sum_probs=26.8
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHD 117 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~ 117 (125)
+|..+||.+++ ++|+.+.++.|..+.+.|.+.
T Consensus 70 ~v~~~Pt~~~~-~~g~~~~~~~G~~~~~~l~~~ 101 (102)
T cd03005 70 QVRGYPTLLLF-KDGEKVDKYKGTRDLDSLKEF 101 (102)
T ss_pred CCCcCCEEEEE-eCCCeeeEeeCCCCHHHHHhh
Confidence 57888999988 789999999999988777654
No 75
>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=97.49 E-value=0.0012 Score=40.90 Aligned_cols=33 Identities=18% Similarity=0.076 Sum_probs=27.0
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIK 119 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~ 119 (125)
+|..+||.+++ ++|++ .++.|..+.+.|.+.|+
T Consensus 68 ~i~~~Pt~~~~-~~g~~-~~~~G~~~~~~l~~~i~ 100 (101)
T cd02994 68 FVTALPTIYHA-KDGVF-RRYQGPRDKEDLISFIE 100 (101)
T ss_pred CCcccCEEEEe-CCCCE-EEecCCCCHHHHHHHHh
Confidence 57888998887 89986 78889998888877665
No 76
>KOG2501 consensus Thioredoxin, nucleoredoxin and related proteins [General function prediction only]
Probab=97.42 E-value=0.00058 Score=46.34 Aligned_cols=78 Identities=15% Similarity=0.367 Sum_probs=54.7
Q ss_pred HHHHHHHHHhccC--CeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCC
Q 033205 7 IELSQLYDKYKDQ--GLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGD 84 (125)
Q Consensus 7 p~l~~l~~~y~~~--g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~ 84 (125)
|.|.++|++-++. .++||-||.| .+.++...|++ .++..+..+. . |.. +-+-+.. .|
T Consensus 53 P~Lk~fYe~l~~~~~~fEVvfVS~D-------~~~~~~~~y~~-~~~~~W~~iP-f---~d~---~~~~l~~----ky-- 111 (157)
T KOG2501|consen 53 PILKDFYEELKDNAAPFEVVFVSSD-------RDEESLDEYML-EHHGDWLAIP-F---GDD---LIQKLSE----KY-- 111 (157)
T ss_pred chHHHHHHHHHhcCCceEEEEEecC-------CCHHHHHHHHH-hcCCCeEEec-C---CCH---HHHHHHH----hc--
Confidence 7889999988765 4999999976 24677888885 5677777662 1 211 1112222 25
Q ss_pred CcccceeeEEECCCCcEEEEE
Q 033205 85 DIQWNFAKFLVDKNGQVVDRY 105 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~ 105 (125)
.|.++|+..+++++|.++...
T Consensus 112 ~v~~iP~l~i~~~dG~~v~~d 132 (157)
T KOG2501|consen 112 EVKGIPALVILKPDGTVVTED 132 (157)
T ss_pred ccCcCceeEEecCCCCEehHh
Confidence 589999999999999887754
No 77
>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=97.35 E-value=0.0012 Score=48.31 Aligned_cols=38 Identities=21% Similarity=0.239 Sum_probs=32.0
Q ss_pred CcccceeeEEECCC-CcEEEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKN-GQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~-G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
++..+|++||++++ +++.-+..|.++.++|.+.|..++
T Consensus 210 ~v~~~Pal~Lv~~~t~~~~pv~~G~iS~deL~~Ri~~v~ 248 (256)
T TIGR02739 210 GVKYFPALYLVNPKSQKMSPLAYGFISQDELKERILNVL 248 (256)
T ss_pred CCccCceEEEEECCCCcEEEEeeccCCHHHHHHHHHHHH
Confidence 46778999999999 677777889999999998887664
No 78
>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=97.30 E-value=0.0032 Score=38.57 Aligned_cols=36 Identities=8% Similarity=-0.063 Sum_probs=30.6
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
+|+.+|+.+++++++. +..+.|..+.+.|...|++.
T Consensus 66 ~i~~~P~~~~~~~~~~-~~~~~g~~~~~~l~~~i~~~ 101 (102)
T TIGR01126 66 GVSGFPTIKFFPKGKK-PVDYEGGRDLEAIVEFVNEK 101 (102)
T ss_pred CCCcCCEEEEecCCCc-ceeecCCCCHHHHHHHHHhc
Confidence 5888999999998887 67788999988888888764
No 79
>PF13728 TraF: F plasmid transfer operon protein
Probab=97.25 E-value=0.0012 Score=47.12 Aligned_cols=34 Identities=29% Similarity=0.188 Sum_probs=28.6
Q ss_pred CcccceeeEEECCCC-cEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNG-QVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G-~v~~~~~G~~~~~~l~~~I 118 (125)
+|..+|++||+++++ ++.-+..|.++.++|...|
T Consensus 180 ~v~~~Pal~Lv~~~~~~~~pv~~G~~s~~~L~~ri 214 (215)
T PF13728_consen 180 GVKVTPALFLVNPNTKKWYPVSQGFMSLDELEDRI 214 (215)
T ss_pred CCCcCCEEEEEECCCCeEEEEeeecCCHHHHHHhh
Confidence 477889999999988 6777778999999988765
No 80
>PRK13703 conjugal pilus assembly protein TraF; Provisional
Probab=97.21 E-value=0.0024 Score=46.59 Aligned_cols=39 Identities=18% Similarity=0.136 Sum_probs=32.5
Q ss_pred CcccceeeEEECCCC-cEEEEEcCCCChhHHHHHHHHhhc
Q 033205 85 DIQWNFAKFLVDKNG-QVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 85 ~i~~~PttflId~~G-~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
+|..+|++||++++. ++.-...|.++.++|.+.|..++.
T Consensus 203 ~v~~~PAl~Lv~~~t~~~~pv~~G~iS~deL~~Ri~~v~t 242 (248)
T PRK13703 203 GVKYFPALMLVDPKSGSVRPLSYGFITQDDLAKRFLNVST 242 (248)
T ss_pred CCcccceEEEEECCCCcEEEEeeccCCHHHHHHHHHHHHh
Confidence 467789999999985 777788899999999988876643
No 81
>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=97.17 E-value=0.005 Score=37.48 Aligned_cols=37 Identities=32% Similarity=0.277 Sum_probs=31.9
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
++..+|+.+++ ++|+++.+..|..+.+.+.+.|++.|
T Consensus 65 ~v~~~P~~~~~-~~g~~~~~~~g~~~~~~l~~~l~~~~ 101 (101)
T TIGR01068 65 GIRSIPTLLLF-KNGKEVDRSVGALPKAALKQLINKNL 101 (101)
T ss_pred CCCcCCEEEEE-eCCcEeeeecCCCCHHHHHHHHHhhC
Confidence 57889999999 79999999999999888888887654
No 82
>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=97.12 E-value=0.0017 Score=42.29 Aligned_cols=36 Identities=14% Similarity=0.213 Sum_probs=32.2
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
+|+++||.+|+ ++|+++. +.|..+.+.|.+.|++++
T Consensus 84 ~I~~iPTl~lf-k~G~~v~-~~G~~~~~~l~~~l~~~~ 119 (120)
T cd03065 84 GLDEEDSIYVF-KDDEVIE-YDGEFAADTLVEFLLDLI 119 (120)
T ss_pred CCccccEEEEE-ECCEEEE-eeCCCCHHHHHHHHHHHh
Confidence 59999998888 6999987 889999999999999876
No 83
>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=97.03 E-value=0.0036 Score=39.09 Aligned_cols=34 Identities=12% Similarity=0.009 Sum_probs=27.2
Q ss_pred CcccceeeEEECCCC----cEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNG----QVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G----~v~~~~~G~~~~~~l~~~I 118 (125)
+|.++||.+++++.| .+...+.|..+.+.|.+.|
T Consensus 71 ~i~~~Pt~~~~~~~~~~~~~~~~~~~G~~~~~~l~~fi 108 (109)
T cd03002 71 GVQGFPTLKVFRPPKKASKHAVEDYNGERSAKAIVDFV 108 (109)
T ss_pred CCCcCCEEEEEeCCCcccccccccccCccCHHHHHHHh
Confidence 578889999998887 4667788988888877655
No 84
>PF00085 Thioredoxin: Thioredoxin; InterPro: IPR013766 Thioredoxins [, , , ] are small disulphide-containing redox proteins that have been found in all the kingdoms of living organisms. Thioredoxin serves as a general protein disulphide oxidoreductase. It interacts with a broad range of proteins by a redox mechanism based on reversible oxidation of two cysteine thiol groups to a disulphide, accompanied by the transfer of two electrons and two protons. The net result is the covalent interconversion of a disulphide and a dithiol. In the NADPH-dependent protein disulphide reduction, thioredoxin reductase (TR) catalyses the reduction of oxidised thioredoxin (trx) by NADPH using FAD and its redox-active disulphide; reduced thioredoxin then directly reduces the disulphide in the substrate protein []. Thioredoxin is present in prokaryotes and eukaryotes and the sequence around the redox-active disulphide bond is well conserved. All thioredoxins contain a cis-proline located in a loop preceding beta-strand 4, which makes contact with the active site cysteines, and is important for stability and function []. Thioredoxin belongs to a structural family that includes glutaredoxin, glutathione peroxidase, bacterial protein disulphide isomerase DsbA, and the N-terminal domain of glutathione transferase []. Thioredoxins have a beta-alpha unit preceding the motif common to all these proteins. A number of eukaryotic proteins contain domains evolutionary related to thioredoxin, most of them are protein disulphide isomerases (PDI). PDI (5.3.4.1 from EC) [, , ] is an endoplasmic reticulum multi-functional enzyme that catalyses the formation and rearrangement of disulphide bonds during protein folding []. All PDI contains two or three (ERp72) copies of the thioredoxin domain, each of which contributes to disulphide isomerase activity, but which are functionally non-equivalent []. Moreover, PDI exhibits chaperone-like activity towards proteins that contain no disulphide bonds, i.e. behaving independently of its disulphide isomerase activity []. The various forms of PDI which are currently known are: PDI major isozyme; a multifunctional protein that also function as the beta subunit of prolyl 4-hydroxylase (1.14.11.2 from EC), as a component of oligosaccharyl transferase (2.4.1.119 from EC), as thyroxine deiodinase (3.8.1.4 from EC), as glutathione-insulin transhydrogenase (1.8.4.2 from EC) and as a thyroid hormone-binding protein ERp60 (ER-60; 58 Kd microsomal protein). ERp60 was originally thought to be a phosphoinositide-specific phospholipase C isozyme and later to be a protease. ERp72. ERp5. Bacterial proteins that act as thiol:disulphide interchange proteins that allows disulphide bond formation in some periplasmic proteins also contain a thioredoxin domain. These proteins include: Escherichia coli DsbA (or PrfA) and its orthologs in Vibrio cholerae (TtcpG) and Haemophilus influenzae (Por). E. coli DsbC (or XpRA) and its orthologues in Erwinia chrysanthemi and H. influenzae. E. coli DsbD (or DipZ) and its H. influenzae orthologue. E. coli DsbE (or CcmG) and orthologues in H. influenzae. Rhodobacter capsulatus (Rhodopseudomonas capsulata) (HelX), Rhiziobiacae (CycY and TlpA). This entry represents the thioredoxin domain.; GO: 0045454 cell redox homeostasis; PDB: 3ED3_B 1EP7_A 1EP8_B 1TOF_A 2OE3_B 2OE1_B 2OE0_B 1V98_A 3H79_A 3CXG_A ....
Probab=97.00 E-value=0.0076 Score=36.84 Aligned_cols=35 Identities=29% Similarity=0.270 Sum_probs=30.3
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKK 120 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ 120 (125)
+|..+||.+++ ++|+.+.++.|..+.+.|.+.|++
T Consensus 68 ~v~~~Pt~~~~-~~g~~~~~~~g~~~~~~l~~~i~~ 102 (103)
T PF00085_consen 68 GVKSVPTIIFF-KNGKEVKRYNGPRNAESLIEFIEK 102 (103)
T ss_dssp TCSSSSEEEEE-ETTEEEEEEESSSSHHHHHHHHHH
T ss_pred CCCCCCEEEEE-ECCcEEEEEECCCCHHHHHHHHHc
Confidence 57888997777 788888899999999999998875
No 85
>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=96.97 E-value=0.0039 Score=46.42 Aligned_cols=38 Identities=24% Similarity=0.254 Sum_probs=34.5
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
+|+++||.|++ ++|+.|.-+.|....+.+++.|.+++.
T Consensus 94 giqsIPtV~af-~dGqpVdgF~G~qPesqlr~~ld~~~~ 131 (304)
T COG3118 94 GVQSIPTVYAF-KDGQPVDGFQGAQPESQLRQFLDKVLP 131 (304)
T ss_pred CcCcCCeEEEe-eCCcCccccCCCCcHHHHHHHHHHhcC
Confidence 58999999999 899999999999998899999988764
No 86
>cd03000 PDI_a_TMX3 PDIa family, TMX3 subfamily; composed of eukaryotic proteins similar to human TMX3, a TRX related transmembrane protein containing one redox active TRX domain at the N-terminus and a classical ER retrieval sequence for type I transmembrane proteins at the C-terminus. The TMX3 transcript is found in a variety of tissues with the highest levels detected in skeletal muscle and the heart. In vitro, TMX3 showed oxidase activity albeit slightly lower than that of protein disulfide isomerase.
Probab=96.93 E-value=0.0085 Score=37.35 Aligned_cols=35 Identities=6% Similarity=-0.013 Sum_probs=27.0
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
+|..+||.++++ +| +..++.|..+.+.|.+.+++.
T Consensus 69 ~I~~~Pt~~l~~-~~-~~~~~~G~~~~~~l~~~~~~~ 103 (104)
T cd03000 69 GVRGYPTIKLLK-GD-LAYNYRGPRTKDDIVEFANRV 103 (104)
T ss_pred CCccccEEEEEc-CC-CceeecCCCCHHHHHHHHHhh
Confidence 588899999994 45 456788988888888777653
No 87
>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=96.93 E-value=0.006 Score=37.76 Aligned_cols=31 Identities=19% Similarity=0.267 Sum_probs=25.4
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEH 116 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~ 116 (125)
+|..+||.+++ ++|+.+.++.|..+.+.|.+
T Consensus 69 ~v~~~Pt~~~~-~~g~~~~~~~G~~~~~~l~~ 99 (101)
T cd03003 69 GVNSYPSLYVF-PSGMNPEKYYGDRSKESLVK 99 (101)
T ss_pred CCCccCEEEEE-cCCCCcccCCCCCCHHHHHh
Confidence 47788998888 89999889999888877654
No 88
>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=96.88 E-value=0.0065 Score=37.43 Aligned_cols=33 Identities=12% Similarity=-0.027 Sum_probs=28.2
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
++..+|+.+++ ++|+++.++.|..+.+++.+.|
T Consensus 64 ~v~~vPt~~i~-~~g~~v~~~~g~~~~~~~~~~l 96 (97)
T cd02949 64 GIMGTPTVQFF-KDKELVKEISGVKMKSEYREFI 96 (97)
T ss_pred CCeeccEEEEE-ECCeEEEEEeCCccHHHHHHhh
Confidence 47889999999 5899999999998888877655
No 89
>cd02999 PDI_a_ERp44_like PDIa family, endoplasmic reticulum protein 44 (ERp44)-like subfamily; composed of uncharacterized PDI-like eukaryotic proteins containing only one redox active TRX (a) domain with a CXXS motif, similar to ERp44. CXXS is still a redox active motif; however, the mixed disulfide formed with the substrate is more stable than those formed by CXXC motif proteins. PDI-related proteins are usually involved in the oxidative protein folding in the ER by acting as catalysts and folding assistants. ERp44 is involved in thiol-mediated retention in the ER.
Probab=96.88 E-value=0.0042 Score=38.79 Aligned_cols=31 Identities=23% Similarity=0.046 Sum_probs=24.7
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHD 117 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~ 117 (125)
+|..+||.+++++ | .+.++.|..+.+.|.+.
T Consensus 69 ~V~~~PT~~lf~~-g-~~~~~~G~~~~~~l~~f 99 (100)
T cd02999 69 GVVGFPTILLFNS-T-PRVRYNGTRTLDSLAAF 99 (100)
T ss_pred CCeecCEEEEEcC-C-ceeEecCCCCHHHHHhh
Confidence 5889999999974 5 67889999888777653
No 90
>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=96.82 E-value=0.0058 Score=39.26 Aligned_cols=31 Identities=10% Similarity=0.037 Sum_probs=26.3
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEH 116 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~ 116 (125)
+|+++||.+|+ ++|+++.+..|..+.++|.+
T Consensus 80 ~V~sIPTli~f-kdGk~v~~~~G~~~~~e~~~ 110 (111)
T cd02965 80 GVLRTPALLFF-RDGRYVGVLAGIRDWDEYVA 110 (111)
T ss_pred CCCcCCEEEEE-ECCEEEEEEeCccCHHHHhh
Confidence 69999987666 79999999999998887753
No 91
>TIGR01295 PedC_BrcD bacteriocin transport accessory protein, putative. This model describes a small family of proteins believed to aid in the export of various class II bacteriocins, which are ribosomally-synthesized, non-lantibiotic bacterial peptide antibiotics. Members of this family are found in operons for pediocin PA-1 from Pediococcus acidilactici and brochocin-C from Brochothrix campestris.
Probab=96.74 E-value=0.034 Score=36.11 Aligned_cols=33 Identities=12% Similarity=0.034 Sum_probs=24.3
Q ss_pred CcccceeeEEECCCCcEEEEEcCC-CChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPT-TSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~-~~~~~l~~~I 118 (125)
++.++||.+++ ++|+.+.++.|. .+.++|++.+
T Consensus 87 ~i~~~PT~v~~-k~Gk~v~~~~G~~~~~~~l~~~~ 120 (122)
T TIGR01295 87 SFMGTPTFVHI-TDGKQVSVRCGSSTTAQELQDIA 120 (122)
T ss_pred cCCCCCEEEEE-eCCeEEEEEeCCCCCHHHHHHHh
Confidence 35678987777 899999999884 4566665543
No 92
>cd02993 PDI_a_APS_reductase PDIa family, 5'-Adenylylsulfate (APS) reductase subfamily; composed of plant-type APS reductases containing a C-terminal redox active TRX domain and an N-terminal reductase domain which is part of a superfamily that includes N type ATP PPases. APS reductase catalyzes the reduction of activated sulfate to sulfite, a key step in the biosynthesis of sulfur-containing metabolites. Sulfate is first activated by ATP sulfurylase, forming APS, which can be phosphorylated to 3'-phosphoadenosine-5'-phosphosulfate (PAPS). Depending on the organism, either APS or PAPS can be used for sulfate reduction. Prokaryotes and fungi use PAPS, whereas plants use both APS and PAPS. Since plant-type APS reductase uses glutathione (GSH) as its electron donor, the C-terminal domain may function like glutaredoxin, a GSH-dependent member of the TRX superfamily. The flow of reducing equivalents goes from GSH - C-terminal TRX domain - N-terminal reductase domain - APS. Plant-type APS red
Probab=96.69 E-value=0.011 Score=37.19 Aligned_cols=32 Identities=16% Similarity=0.071 Sum_probs=24.9
Q ss_pred CcccceeeEEECCCCcEEEEEcCC-CChhHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPT-TSLLSLEH 116 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~-~~~~~l~~ 116 (125)
+++.+||.++++++|+....+.|. .+.+.|..
T Consensus 75 ~v~~~Pti~~f~~~~~~~~~y~g~~~~~~~l~~ 107 (109)
T cd02993 75 QLKSFPTILFFPKNSRQPIKYPSEQRDVDSLLM 107 (109)
T ss_pred CCCcCCEEEEEcCCCCCceeccCCCCCHHHHHh
Confidence 478889999999988888888885 56666543
No 93
>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=96.64 E-value=0.019 Score=35.56 Aligned_cols=33 Identities=15% Similarity=-0.089 Sum_probs=26.7
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCC-hhHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTS-LLSLEHD 117 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~-~~~l~~~ 117 (125)
+|+.+||.+++...|+.+.++.|..+ .++|.+.
T Consensus 70 ~i~~~Pt~~~~~~g~~~~~~~~G~~~~~~~l~~~ 103 (104)
T cd03004 70 NIRAYPTIRLYPGNASKYHSYNGWHRDADSILEF 103 (104)
T ss_pred CCCcccEEEEEcCCCCCceEccCCCCCHHHHHhh
Confidence 58889999999777699999999876 7766543
No 94
>PTZ00443 Thioredoxin domain-containing protein; Provisional
Probab=96.64 E-value=0.022 Score=40.99 Aligned_cols=37 Identities=16% Similarity=-0.032 Sum_probs=31.6
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
+|..+||.++++ +|+++....|..+.+.|.+.+.+.+
T Consensus 103 ~I~~~PTl~~f~-~G~~v~~~~G~~s~e~L~~fi~~~~ 139 (224)
T PTZ00443 103 AIKGYPTLLLFD-KGKMYQYEGGDRSTEKLAAFALGDF 139 (224)
T ss_pred CCCcCCEEEEEE-CCEEEEeeCCCCCHHHHHHHHHHHH
Confidence 588899999997 8999998889899998888777654
No 95
>cd02997 PDI_a_PDIR PDIa family, PDIR subfamily; composed of proteins similar to human PDIR (for Protein Disulfide Isomerase Related). PDIR is composed of three redox active TRX (a) domains and an N-terminal redox inactive TRX-like (b) domain. Similar to PDI, it is involved in oxidative protein folding in the endoplasmic reticulum (ER) through its isomerase and chaperone activities. These activities are lower compared to PDI, probably due to PDIR acting only on a subset of proteins. PDIR is preferentially expressed in cells actively secreting proteins and its expression is induced by stress. Similar to PDI, the isomerase and chaperone activities of PDIR are independent; CXXC mutants lacking isomerase activity retain chaperone activity.
Probab=96.52 E-value=0.016 Score=35.64 Aligned_cols=32 Identities=13% Similarity=0.039 Sum_probs=25.0
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHD 117 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~ 117 (125)
+|+.+||.+ +.++|+++.++.|..+.+.+.+.
T Consensus 72 ~i~~~Pt~~-~~~~g~~~~~~~g~~~~~~l~~~ 103 (104)
T cd02997 72 NVKGFPTFK-YFENGKFVEKYEGERTAEDIIEF 103 (104)
T ss_pred CCccccEEE-EEeCCCeeEEeCCCCCHHHHHhh
Confidence 578899855 55789999999999988776543
No 96
>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=96.51 E-value=0.099 Score=35.62 Aligned_cols=98 Identities=13% Similarity=0.093 Sum_probs=58.5
Q ss_pred HHHHHHHHH-hccCCeEEEEe-eCCCCCCCCCCCHHHHHHHHHhh-CCcccceeEeeccCCCccchHHHHHHhCCCCCCC
Q 033205 7 IELSQLYDK-YKDQGLEILAF-PCNQFGEEEPGSNDQIADFVCTR-FKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFG 83 (125)
Q Consensus 7 p~l~~l~~~-y~~~g~~vvgv-~~~~~~~~e~~~~~~~~~f~~~~-~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g 83 (125)
|-+.++-+. |....++..+| |.++.- ..+.--++..+++. ...++..+. .|.+|...+ .|+ ++
T Consensus 57 ~l~~aik~a~f~~d~yqtttIiN~dDAi---~gt~~fVrss~e~~kk~~p~s~~v-lD~~G~~~~-aW~---------L~ 122 (160)
T PF09695_consen 57 PLIEAIKAAKFPHDKYQTTTIINLDDAI---WGTGGFVRSSAEDSKKEFPWSQFV-LDSNGVVRK-AWQ---------LQ 122 (160)
T ss_pred HHHHHHHHcCCCccceeEEEEEeccccc---ccchHHHHHHHHHhhhhCCCcEEE-EcCCCceec-ccc---------CC
Confidence 555566555 55445666665 333211 11334455555332 234555332 699998766 332 11
Q ss_pred CCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 84 DDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 84 ~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
...-.-+++|++|+|+....|.++++++++.|.-+
T Consensus 123 ---~~~SaiiVlDK~G~V~F~k~G~Ls~~Ev~qVi~Ll 157 (160)
T PF09695_consen 123 ---EESSAIIVLDKQGKVQFVKEGALSPAEVQQVIALL 157 (160)
T ss_pred ---CCCceEEEEcCCccEEEEECCCCCHHHHHHHHHHH
Confidence 11124589999999999999999999998777543
No 97
>PRK00293 dipZ thiol:disulfide interchange protein precursor; Provisional
Probab=96.38 E-value=0.018 Score=46.78 Aligned_cols=38 Identities=13% Similarity=0.162 Sum_probs=33.4
Q ss_pred CcccceeeEEECCCCcEE--EEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQVV--DRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~--~~~~G~~~~~~l~~~I~~ll 122 (125)
++.++||.+++|++|+++ .++.|..+++++.+.++++.
T Consensus 531 ~v~g~Pt~~~~~~~G~~i~~~r~~G~~~~~~f~~~L~~~~ 570 (571)
T PRK00293 531 NVLGLPTILFFDAQGQEIPDARVTGFMDAAAFAAHLRQLQ 570 (571)
T ss_pred CCCCCCEEEEECCCCCCcccccccCCCCHHHHHHHHHHhc
Confidence 588899999999999994 68889999999999888764
No 98
>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=96.33 E-value=0.021 Score=34.37 Aligned_cols=32 Identities=16% Similarity=0.045 Sum_probs=26.8
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEH 116 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~ 116 (125)
+|..+|+.++++++|+...++.|..+.+++.+
T Consensus 68 ~i~~~Pt~~~~~~~~~~~~~~~g~~~~~~i~~ 99 (101)
T cd02961 68 GVRGYPTIKLFPNGSKEPVKYEGPRTLESLVE 99 (101)
T ss_pred CCCCCCEEEEEcCCCcccccCCCCcCHHHHHh
Confidence 58889999999988888888888887777654
No 99
>cd02991 UAS_ETEA UAS family, ETEA subfamily; composed of proteins similar to human ETEA protein, the translation product of a highly expressed gene in the T-cells and eosinophils of atopic dermatitis patients compared with those of normal individuals. ETEA shows homology to Fas-associated factor 1 (FAF1); both containing UAS and UBX (ubiquitin-associated) domains. Compared to FAF1, however, ETEA lacks the ubiquitin-associated UBA domain and a nuclear targeting domain. The function of ETEA is still unknown. A yeast two-hybrid assay showed that it can interact with Fas. Because of its homology to FAF1, it is postulated that ETEA could be involved in modulating Fas-mediated apoptosis of T-cells and eosinophils of atopic dermatitis patients, making them more resistant to apoptosis.
Probab=96.28 E-value=0.039 Score=35.61 Aligned_cols=71 Identities=7% Similarity=0.081 Sum_probs=49.1
Q ss_pred HHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCcccceeeEEE---CCCCcEEEEEcCCCChhHHH
Q 033205 39 NDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQWNFAKFLV---DKNGQVVDRYYPTTSLLSLE 115 (125)
Q Consensus 39 ~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~~PttflI---d~~G~v~~~~~G~~~~~~l~ 115 (125)
.+++.+|+. + +|-++. .|........+ .. .+ ++...|+..+| +.+..|+.+..|.+++++|.
T Consensus 42 ~~~v~~~ln-~---~fv~w~-~dv~~~eg~~l----a~----~l--~~~~~P~~~~l~~~~~~~~vv~~i~G~~~~~~ll 106 (116)
T cd02991 42 APEVIEYIN-T---RMLFWA-CSVAKPEGYRV----SQ----AL--RERTYPFLAMIMLKDNRMTIVGRLEGLIQPEDLI 106 (116)
T ss_pred CHHHHHHHH-c---CEEEEE-EecCChHHHHH----HH----Hh--CCCCCCEEEEEEecCCceEEEEEEeCCCCHHHHH
Confidence 355666773 2 353332 56665543322 11 13 57788999999 77888999999999999999
Q ss_pred HHHHHhhcc
Q 033205 116 HDIKKLLGL 124 (125)
Q Consensus 116 ~~I~~ll~~ 124 (125)
..+..+..+
T Consensus 107 ~~L~~~~~~ 115 (116)
T cd02991 107 NRLTFIMDA 115 (116)
T ss_pred HHHHHHHhc
Confidence 998887654
No 100
>cd02962 TMX2 TMX2 family; composed of proteins similar to human TMX2, a 372-amino acid TRX-related transmembrane protein, identified and characterized through the cloning of its cDNA from a human fetal library. It contains a TRX domain but the redox active CXXC motif is replaced with SXXC. Sequence analysis predicts that TMX2 may be a Type I membrane protein, with its C-terminal half protruding on the luminal side of the endoplasmic reticulum (ER). In addition to the TRX domain, transmembrane region and ER-retention signal, TMX2 also contains a Myb DNA-binding domain repeat signature and a dileucine motif in the tail.
Probab=95.99 E-value=0.053 Score=36.69 Aligned_cols=21 Identities=19% Similarity=0.029 Sum_probs=16.8
Q ss_pred cccceeeEEECCCCcEEEEEcC
Q 033205 86 IQWNFAKFLVDKNGQVVDRYYP 107 (125)
Q Consensus 86 i~~~PttflId~~G~v~~~~~G 107 (125)
++.+||.+++ ++|+.+.+..|
T Consensus 106 v~~~PT~ilf-~~Gk~v~r~~G 126 (152)
T cd02962 106 SKQLPTIILF-QGGKEVARRPY 126 (152)
T ss_pred cCCCCEEEEE-ECCEEEEEEec
Confidence 3448987777 69999999987
No 101
>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=95.90 E-value=0.04 Score=33.74 Aligned_cols=33 Identities=12% Similarity=-0.080 Sum_probs=27.3
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHD 117 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~ 117 (125)
+|..+|+.+++++.|+....+.|..+.+.|.+.
T Consensus 72 ~i~~~P~~~~~~~~~~~~~~~~g~~~~~~l~~~ 104 (105)
T cd02998 72 GVSGFPTLKFFPKGSTEPVKYEGGRDLEDLVKF 104 (105)
T ss_pred CCCCcCEEEEEeCCCCCccccCCccCHHHHHhh
Confidence 578899999999888888888898887777553
No 102
>smart00594 UAS UAS domain.
Probab=95.88 E-value=0.041 Score=35.55 Aligned_cols=34 Identities=15% Similarity=-0.104 Sum_probs=28.8
Q ss_pred CcccceeeEEECCCC-----cEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNG-----QVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G-----~v~~~~~G~~~~~~l~~~I 118 (125)
++...|+..|+|++| +++.+..|.+++++|...+
T Consensus 83 ~~~~~P~~~~l~~~~g~~~~~~~~~~~G~~~~~~l~~~l 121 (122)
T smart00594 83 KLDSFPYVAIVDPRTGQRVIEWVGVVEGEISPEELMTFL 121 (122)
T ss_pred CcCCCCEEEEEecCCCceeEEEeccccCCCCHHHHHHhh
Confidence 577899999999998 6788899999998876544
No 103
>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=95.72 E-value=0.086 Score=31.97 Aligned_cols=32 Identities=22% Similarity=0.273 Sum_probs=24.6
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
++..+||.+++ ++|+++.++.|. +++.|.+.|
T Consensus 65 ~i~~~Pt~~~~-~~g~~~~~~~g~-~~~~l~~~~ 96 (97)
T cd02984 65 EITAVPTFVFF-RNGTIVDRVSGA-DPKELAKKV 96 (97)
T ss_pred CCccccEEEEE-ECCEEEEEEeCC-CHHHHHHhh
Confidence 58889998888 589999999885 456666554
No 104
>KOG0907 consensus Thioredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=95.69 E-value=0.076 Score=33.75 Aligned_cols=34 Identities=24% Similarity=0.234 Sum_probs=26.8
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKK 120 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ 120 (125)
+|..+||-.++ ++|+.+.++.|.. ++.+++.|.+
T Consensus 71 ~V~~~PTf~f~-k~g~~~~~~vGa~-~~~l~~~i~~ 104 (106)
T KOG0907|consen 71 NVKAMPTFVFY-KGGEEVDEVVGAN-KAELEKKIAK 104 (106)
T ss_pred CceEeeEEEEE-ECCEEEEEEecCC-HHHHHHHHHh
Confidence 68899986666 9999999999865 4577777664
No 105
>PF13778 DUF4174: Domain of unknown function (DUF4174)
Probab=95.66 E-value=0.24 Score=31.95 Aligned_cols=33 Identities=24% Similarity=0.304 Sum_probs=30.0
Q ss_pred ceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 89 NFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 89 ~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
.++.+||++||.+..++...++.++|-..|..+
T Consensus 79 ~f~~vLiGKDG~vK~r~~~p~~~~~lf~~ID~M 111 (118)
T PF13778_consen 79 GFTVVLIGKDGGVKLRWPEPIDPEELFDTIDAM 111 (118)
T ss_pred ceEEEEEeCCCcEEEecCCCCCHHHHHHHHhCC
Confidence 388999999999999999999999999988765
No 106
>PLN00410 U5 snRNP protein, DIM1 family; Provisional
Probab=95.63 E-value=0.1 Score=34.92 Aligned_cols=39 Identities=5% Similarity=-0.013 Sum_probs=30.0
Q ss_pred CcccceeeEEECCCCc-EEEEEcC--------CCChhHHHHHHHHhhc
Q 033205 85 DIQWNFAKFLVDKNGQ-VVDRYYP--------TTSLLSLEHDIKKLLG 123 (125)
Q Consensus 85 ~i~~~PttflId~~G~-v~~~~~G--------~~~~~~l~~~I~~ll~ 123 (125)
+|+..|+++++=++|+ .+.+..| ..+.++|...|+.++.
T Consensus 74 ~I~~~~t~~~ffk~g~~~vd~~tG~~~k~~~~~~~k~~l~~~i~~~~~ 121 (142)
T PLN00410 74 ELYDPCTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVETVYR 121 (142)
T ss_pred CccCCCcEEEEEECCeEEEEEecccccccccccCCHHHHHHHHHHHHH
Confidence 5777788886668998 8888888 5677788888877653
No 107
>cd03006 PDI_a_EFP1_N PDIa family, N-terminal EFP1 subfamily; EFP1 is a binding partner protein of thyroid oxidase (ThOX), also called Duox. ThOX proteins are responsible for the generation of hydrogen peroxide, a crucial substrate of thyroperoxidase, which functions to iodinate thyroglobulin and synthesize thyroid hormones. EFP1 was isolated through a yeast two-hybrid method using the EF-hand fragment of dog Duox1 as a bait. It could be one of the partners in the assembly of a multiprotein complex constituting the thyroid hydrogen peroxide generating system. EFP1 contains two TRX domains related to the redox active TRX domains of protein disulfide isomerase (PDI). This subfamily is composed of the N-terminal TRX domain of EFP1, which contains a CXXS sequence in place of the typical CXXC motif, similar to ERp44. The CXXS motif allows the formation of stable mixed disulfides, crucial for the ER-retention function of ERp44.
Probab=95.53 E-value=0.089 Score=33.73 Aligned_cols=31 Identities=10% Similarity=-0.068 Sum_probs=24.8
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEH 116 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~ 116 (125)
+|.++||-.|+ ++|+...++.|..+.+.+..
T Consensus 81 ~I~~~PTl~lf-~~g~~~~~y~G~~~~~~i~~ 111 (113)
T cd03006 81 HFFYFPVIHLY-YRSRGPIEYKGPMRAPYMEK 111 (113)
T ss_pred CCcccCEEEEE-ECCccceEEeCCCCHHHHHh
Confidence 47788987777 78888888889988887754
No 108
>PTZ00051 thioredoxin; Provisional
Probab=95.32 E-value=0.13 Score=31.25 Aligned_cols=29 Identities=31% Similarity=0.180 Sum_probs=22.1
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLE 115 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~ 115 (125)
++..+||. ++-++|+++.++.|. ..++|+
T Consensus 68 ~v~~~Pt~-~~~~~g~~~~~~~G~-~~~~~~ 96 (98)
T PTZ00051 68 NITSMPTF-KVFKNGSVVDTLLGA-NDEALK 96 (98)
T ss_pred CCceeeEE-EEEeCCeEEEEEeCC-CHHHhh
Confidence 58889985 455899999999995 455554
No 109
>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=95.29 E-value=0.047 Score=35.22 Aligned_cols=27 Identities=4% Similarity=-0.182 Sum_probs=22.1
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLL 112 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~ 112 (125)
+|.++||.+++ ++|+.+.+..|..+..
T Consensus 65 ~V~~iPTf~~f-k~G~~v~~~~G~~~~~ 91 (114)
T cd02954 65 ELYDPPTVMFF-FRNKHMKIDLGTGNNN 91 (114)
T ss_pred CCCCCCEEEEE-ECCEEEEEEcCCCCCc
Confidence 58999987777 7999999999876543
No 110
>cd02947 TRX_family TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox state of target proteins via the reversible oxidation of an active site dithiol, present in a CXXC motif, partially exposed at the protein's surface. TRX reduces protein disulfide bonds, resulting in a disulfide bond at its active site. Oxidized TRX is converted to the active form by TRX reductase, using reducing equivalents derived from either NADPH or ferredoxins. By altering their redox state, TRX regulates the functions of at least 30 target proteins, some of which are enzymes and transcription factors. It also plays an important role in the defense against oxidative stress by directly reducing hydrogen peroxide and certain radicals, and by serving as a reductant for peroxiredoxins. At least two major types of functio
Probab=95.27 E-value=0.09 Score=30.74 Aligned_cols=33 Identities=24% Similarity=0.214 Sum_probs=26.4
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
++..+|+.+++ ++|+++..+.|..+.+.|...|
T Consensus 60 ~v~~~P~~~~~-~~g~~~~~~~g~~~~~~l~~~i 92 (93)
T cd02947 60 GVRSIPTFLFF-KNGKEVDRVVGADPKEELEEFL 92 (93)
T ss_pred CcccccEEEEE-ECCEEEEEEecCCCHHHHHHHh
Confidence 47788998877 6788999999988877777655
No 111
>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=95.17 E-value=0.13 Score=32.01 Aligned_cols=32 Identities=22% Similarity=0.143 Sum_probs=24.9
Q ss_pred CcccceeeEEECCCCc-EEEEEcCCCChhHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQ-VVDRYYPTTSLLSLEHD 117 (125)
Q Consensus 85 ~i~~~PttflId~~G~-v~~~~~G~~~~~~l~~~ 117 (125)
+|+.+||.+++ ++|+ +...+.|..+.++|.+.
T Consensus 75 ~v~~~Ptl~~~-~~g~~~~~~~~g~~~~~~l~~f 107 (108)
T cd02996 75 RINKYPTLKLF-RNGMMMKREYRGQRSVEALAEF 107 (108)
T ss_pred CCCcCCEEEEE-eCCcCcceecCCCCCHHHHHhh
Confidence 58899998888 7898 45777888887776653
No 112
>COG0678 AHP1 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=95.04 E-value=0.093 Score=35.53 Aligned_cols=90 Identities=20% Similarity=0.255 Sum_probs=56.8
Q ss_pred ChhhHHHHHHHHHHhccCCeE-EEEeeCCCCCCCCCCCHHHHHHHHHhhCCcc--cceeEeeccCCCccchHHHHHHhCC
Q 033205 2 TNSNYIELSQLYDKYKDQGLE-ILAFPCNQFGEEEPGSNDQIADFVCTRFKSE--FPIFEKIDVNGEHASPLYKLLKSGK 78 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~g~~-vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~--fpv~~~~D~~g~~~~~~~~~l~~~~ 78 (125)
|...+|...+++++++.+|+. |+.|+.|+ .=-+.+|.+ ..|.. ...+ .|-+|+..+. ...+....
T Consensus 54 S~~hlPgY~~~~d~f~~kGVD~I~cVSVND--------~FVm~AWak-~~g~~~~I~fi--~Dg~geFTk~-~Gm~~d~~ 121 (165)
T COG0678 54 SSSHLPGYLELADEFKAKGVDEIYCVSVND--------AFVMNAWAK-SQGGEGNIKFI--PDGNGEFTKA-MGMLVDKS 121 (165)
T ss_pred ccccCccHHHHHHHHHHcCCceEEEEEeCc--------HHHHHHHHH-hcCCCccEEEe--cCCCchhhhh-cCceeecc
Confidence 345789999999999999975 66777652 444566775 34543 4455 5777765552 11111111
Q ss_pred CCCCCCCcccceeeEEECCCCcEEEEEc
Q 033205 79 WGIFGDDIQWNFAKFLVDKNGQVVDRYY 106 (125)
Q Consensus 79 ~~~~g~~i~~~PttflId~~G~v~~~~~ 106 (125)
. +|.+++.....-|| .+|.|.+.+.
T Consensus 122 ~--~g~G~RS~RYsmvV-~nGvV~~~~i 146 (165)
T COG0678 122 D--LGFGVRSWRYSMVV-ENGVVEKLFI 146 (165)
T ss_pred c--CCcceeeeeEEEEE-eCCeEEEEEe
Confidence 1 23346767777777 6999988775
No 113
>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=94.97 E-value=0.37 Score=29.32 Aligned_cols=34 Identities=3% Similarity=-0.090 Sum_probs=26.0
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
+|+.+|+.++++........+.|..+.+.|.+.+
T Consensus 69 ~i~~~P~~~~~~~~~~~~~~~~g~~~~~~l~~~~ 102 (103)
T cd03001 69 GVRGFPTIKVFGAGKNSPQDYQGGRTAKAIVSAA 102 (103)
T ss_pred CCCccCEEEEECCCCcceeecCCCCCHHHHHHHh
Confidence 5888999999976646667788988887776543
No 114
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=94.94 E-value=0.23 Score=38.88 Aligned_cols=38 Identities=13% Similarity=0.071 Sum_probs=34.0
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
.+..+|..|+|+..|..+.+..|.+..++|...|.+.+
T Consensus 74 p~v~vPs~ffIg~sGtpLevitg~v~adeL~~~i~Kv~ 111 (506)
T KOG2507|consen 74 PYVSVPSIFFIGFSGTPLEVITGFVTADELASSIEKVW 111 (506)
T ss_pred ccccccceeeecCCCceeEEeeccccHHHHHHHHHHHH
Confidence 46678999999999999999999999999988888764
No 115
>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=94.45 E-value=0.08 Score=34.56 Aligned_cols=23 Identities=0% Similarity=-0.405 Sum_probs=19.5
Q ss_pred CcccceeeEEECCCCcEEEEEcC
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYP 107 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G 107 (125)
++.++|+++|+|++|++++...+
T Consensus 77 ~~~G~Pt~vfl~~~G~~~~~~~~ 99 (124)
T cd02955 77 GQGGWPLNVFLTPDLKPFFGGTY 99 (124)
T ss_pred CCCCCCEEEEECCCCCEEeeeee
Confidence 36788999999999999987643
No 116
>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=94.30 E-value=0.11 Score=34.38 Aligned_cols=24 Identities=21% Similarity=0.036 Sum_probs=20.8
Q ss_pred ccceeeEEECCCCcEEEEEcCCCC
Q 033205 87 QWNFAKFLVDKNGQVVDRYYPTTS 110 (125)
Q Consensus 87 ~~~PttflId~~G~v~~~~~G~~~ 110 (125)
..+||.+|+|++|+++.+..|..+
T Consensus 78 ~~vPtivFld~~g~vi~~i~Gy~~ 101 (130)
T cd02960 78 QYVPRIMFVDPSLTVRADITGRYS 101 (130)
T ss_pred cccCeEEEECCCCCCccccccccc
Confidence 457999999999999999988653
No 117
>TIGR00411 redox_disulf_1 small redox-active disulfide protein 1. This protein is homologous to a family of proteins that includes thioredoxins, glutaredoxins, protein-disulfide isomerases, and others, some of which have several such domains. The sequence of this protein at the redox-active disufide site, CPYC, matches glutaredoxins rather than thioredoxins, although its overall sequence seems closer to thioredoxins. It is suggested to be a ribonucleotide-reducing system component distinct from thioredoxin or glutaredoxin.
Probab=94.27 E-value=0.098 Score=30.65 Aligned_cols=33 Identities=30% Similarity=0.269 Sum_probs=25.4
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
++..+|+.++ +|+. ++.|..+++++.+.|.++|
T Consensus 50 ~v~~vPt~~~---~g~~--~~~G~~~~~~l~~~l~~~~ 82 (82)
T TIGR00411 50 GIMAVPAIVI---NGDV--EFIGAPTKEELVEAIKKRL 82 (82)
T ss_pred CCccCCEEEE---CCEE--EEecCCCHHHHHHHHHhhC
Confidence 4777899765 6764 6778888999998888765
No 118
>PHA02278 thioredoxin-like protein
Probab=94.25 E-value=0.084 Score=33.25 Aligned_cols=31 Identities=26% Similarity=0.328 Sum_probs=25.6
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEH 116 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~ 116 (125)
+|.++||.+++ ++|+.+.++.|..+.+.+.+
T Consensus 69 ~I~~iPT~i~f-k~G~~v~~~~G~~~~~~l~~ 99 (103)
T PHA02278 69 DIMSTPVLIGY-KDGQLVKKYEDQVTPMQLQE 99 (103)
T ss_pred CCccccEEEEE-ECCEEEEEEeCCCCHHHHHh
Confidence 68999976665 78999999999888877654
No 119
>COG2143 Thioredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=94.09 E-value=0.11 Score=35.47 Aligned_cols=34 Identities=9% Similarity=0.000 Sum_probs=30.1
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
++++.||-++.|.+|+-+....|.++++.....+
T Consensus 112 ~vrstPtfvFfdk~Gk~Il~lPGY~ppe~Fl~vl 145 (182)
T COG2143 112 AVRSTPTFVFFDKTGKTILELPGYMPPEQFLAVL 145 (182)
T ss_pred ccccCceEEEEcCCCCEEEecCCCCCHHHHHHHH
Confidence 6899999999999999999999999998765444
No 120
>TIGR02187 GlrX_arch Glutaredoxin-like domain protein. This family of archaeal proteins contains a C-terminal domain with homology to bacterial and eukaryotic glutaredoxins, including a CPYC motif. There is an N-terminal domain which has even more distant homology to glutaredoxins. The name "glutaredoxin" may be inappropriate in the sense of working in tandem with glutathione and glutathione reductase which may not be present in the archaea. The overall domain structure appears to be related to bacterial alkylhydroperoxide reductases, but the homology may be distant enough that the function of this family is wholly different.
Probab=93.90 E-value=1.6 Score=30.86 Aligned_cols=37 Identities=11% Similarity=0.166 Sum_probs=30.0
Q ss_pred CcccceeeEEECCCCcEE-EEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQVV-DRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~-~~~~G~~~~~~l~~~I~~ll 122 (125)
+|.++||..+++ +|+.+ .++.|..+.+++.+.|+.++
T Consensus 74 ~V~~~Pt~~~f~-~g~~~~~~~~G~~~~~~l~~~i~~~~ 111 (215)
T TIGR02187 74 GVERVPTTIILE-EGKDGGIRYTGIPAGYEFAALIEDIV 111 (215)
T ss_pred CCCccCEEEEEe-CCeeeEEEEeecCCHHHHHHHHHHHH
Confidence 589999877775 67777 48889888888888888775
No 121
>TIGR01130 ER_PDI_fam protein disulfide isomerases, eukaryotic. Members of this family have at least two protein-disulfide domains, each similar to thioredoxin but with the redox-active disulfide in the motif PWCGHCK, and an ER retention signal at the extreme C-terminus (KDEL, HDEL, and similar motifs).
Probab=93.76 E-value=0.6 Score=36.12 Aligned_cols=38 Identities=18% Similarity=0.166 Sum_probs=30.6
Q ss_pred CcccceeeEEECCCCcE-EEEEcCCCChhHHHHHHHHhhc
Q 033205 85 DIQWNFAKFLVDKNGQV-VDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 85 ~i~~~PttflId~~G~v-~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
+|.++||.+++ ++|+. +..+.|..+.+.+.+.|.+.+.
T Consensus 72 ~i~~~Pt~~~~-~~g~~~~~~~~g~~~~~~l~~~i~~~~~ 110 (462)
T TIGR01130 72 GVSGYPTLKIF-RNGEDSVSDYNGPRDADGIVKYMKKQSG 110 (462)
T ss_pred CCccccEEEEE-eCCccceeEecCCCCHHHHHHHHHHhcC
Confidence 58889987777 67777 7888899999888888887654
No 122
>cd02982 PDI_b'_family Protein Disulfide Isomerase (PDIb') family, redox inactive TRX-like domain b'; 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, calsequestrin and other PDI-related proteins like ERp72, ERp57 (or ERp60), ERp44, P5 and PDIR. PDI, ERp57, ERp72, P5 and PDIR 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 contain multiple copies of a redox active TRX (a) domain containing a CXXC motif, and one or more redox inactive TRX-like (b) domains. The molecular structure of PDI is abb'a'. Also included in this family is the PDI-related protein ERp27, w
Probab=93.42 E-value=0.69 Score=28.18 Aligned_cols=38 Identities=13% Similarity=0.010 Sum_probs=25.3
Q ss_pred Ccc--cceeeEEECCC-CcEEEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQ--WNFAKFLVDKN-GQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~--~~PttflId~~-G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
++. .+|+-.+++.. |+......|..+.+.|.+.|.+.+
T Consensus 63 ~i~~~~~P~~~~~~~~~~~k~~~~~~~~~~~~l~~fi~~~~ 103 (103)
T cd02982 63 GLKEEDLPVIAIINLSDGKKYLMPEEELTAESLEEFVEDFL 103 (103)
T ss_pred CCChhhCCEEEEEecccccccCCCccccCHHHHHHHHHhhC
Confidence 366 78987777663 655444445567888888887653
No 123
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=93.07 E-value=0.8 Score=31.07 Aligned_cols=77 Identities=17% Similarity=0.116 Sum_probs=46.9
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCccc-ceeEeeccCCCccchHHHHHHhCCCCCCC
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEF-PIFEKIDVNGEHASPLYKLLKSGKWGIFG 83 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~f-pv~~~~D~~g~~~~~~~~~l~~~~~~~~g 83 (125)
+.-.+++...++.+ ..|+.||+| .+-...+|+. ..|+.= -.+ .|-.... | .+ .||
T Consensus 63 qvr~Fn~~aa~~~~--~~Vl~IS~D--------LPFAq~RfC~-aeGi~nv~~l--Sd~r~~~------F-ge----~yG 118 (158)
T COG2077 63 QVRKFNEEAAKLGN--TVVLCISMD--------LPFAQKRFCG-AEGIENVITL--SDFRDRA------F-GE----NYG 118 (158)
T ss_pred HHHHHHHHHhccCC--cEEEEEeCC--------ChhHHhhhhh-hcCcccceEh--hhhhhhh------h-hH----hhC
Confidence 44556666666654 789999975 4667789995 568863 333 2321110 1 11 244
Q ss_pred CCcccc-------eeeEEECCCCcEEEEE
Q 033205 84 DDIQWN-------FAKFLVDKNGQVVDRY 105 (125)
Q Consensus 84 ~~i~~~-------PttflId~~G~v~~~~ 105 (125)
-.|... .+-|++|.+|+|++.-
T Consensus 119 v~I~egpL~gLlARaV~V~De~g~V~y~e 147 (158)
T COG2077 119 VLINEGPLAGLLARAVFVLDENGKVTYSE 147 (158)
T ss_pred EEeccccccCeeeeEEEEEcCCCcEEEEE
Confidence 223222 5789999999999874
No 124
>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=92.99 E-value=0.16 Score=37.26 Aligned_cols=31 Identities=26% Similarity=0.079 Sum_probs=26.5
Q ss_pred ceeeEEECCCCcEEEEEcCCCChhHHHHHHH
Q 033205 89 NFAKFLVDKNGQVVDRYYPTTSLLSLEHDIK 119 (125)
Q Consensus 89 ~PttflId~~G~v~~~~~G~~~~~~l~~~I~ 119 (125)
+...||||++|+|+++..|..++++++...+
T Consensus 217 ~GYvyLVD~~grIRWagsG~At~~E~~~L~k 247 (252)
T PF05176_consen 217 VGYVYLVDPNGRIRWAGSGPATPEELESLWK 247 (252)
T ss_pred cCeEEEECCCCeEEeCccCCCCHHHHHHHHH
Confidence 3678999999999999999999998875543
No 125
>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=92.77 E-value=0.24 Score=31.45 Aligned_cols=41 Identities=15% Similarity=0.231 Sum_probs=30.1
Q ss_pred CcccceeeEEECCCCcEE-EEEcCCCChhHHHHHHHHhhccC
Q 033205 85 DIQWNFAKFLVDKNGQVV-DRYYPTTSLLSLEHDIKKLLGLS 125 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~-~~~~G~~~~~~l~~~I~~ll~~~ 125 (125)
+|..+||.++.+..|..- .++.|..+..++.+.|+.++..|
T Consensus 72 ~v~~vPt~~i~~~g~~~~~~~~~G~~~~~el~~~i~~i~~~~ 113 (113)
T cd02975 72 GVERVPTTIFLQDGGKDGGIRYYGLPAGYEFASLIEDIVRVS 113 (113)
T ss_pred CCCcCCEEEEEeCCeecceEEEEecCchHHHHHHHHHHHhcC
Confidence 588999988886533221 15778888889999999988654
No 126
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=92.60 E-value=0.4 Score=35.30 Aligned_cols=32 Identities=28% Similarity=0.367 Sum_probs=25.9
Q ss_pred eeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 91 AKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
.+|||||+|+.+..+--.-+++++.+.|.+-.
T Consensus 244 ~mYLidPeg~Fvd~~GrN~~~~~~~~~I~~~v 275 (280)
T KOG2792|consen 244 FMYLIDPEGEFVDYYGRNYDADELADSILKHV 275 (280)
T ss_pred EEEEECCCcceehhhcccCCHHHHHHHHHHHH
Confidence 58999999999998866677888877776543
No 127
>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=91.87 E-value=0.34 Score=28.52 Aligned_cols=56 Identities=7% Similarity=0.008 Sum_probs=31.5
Q ss_pred HHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCcccceeeEEECCCCcEEEEEcCCC-ChhHHHHHH
Q 033205 41 QIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQWNFAKFLVDKNGQVVDRYYPTT-SLLSLEHDI 118 (125)
Q Consensus 41 ~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~~PttflId~~G~v~~~~~G~~-~~~~l~~~I 118 (125)
.+++++ ++++..+.++. .|. -..+. .| ++..+|+.++ +|+++ +.|.. +.+.+.+.|
T Consensus 19 ~~~~~~-~e~~~~~~~~~-v~~-~~~a~------------~~--~v~~vPti~i---~G~~~--~~G~~~~~~~l~~~l 75 (76)
T TIGR00412 19 NVKKAV-EELGIDAEFEK-VTD-MNEIL------------EA--GVTATPGVAV---DGELV--IMGKIPSKEEIKEIL 75 (76)
T ss_pred HHHHHH-HHcCCCeEEEE-eCC-HHHHH------------Hc--CCCcCCEEEE---CCEEE--EEeccCCHHHHHHHh
Confidence 346677 46787777763 331 11111 14 4788997666 89888 44543 335555443
No 128
>PF06953 ArsD: Arsenical resistance operon trans-acting repressor ArsD; InterPro: IPR010712 This family consists of several bacterial arsenical resistance operon trans-acting repressor ArsD proteins. ArsD is a trans-acting repressor of the arsRDABC operon that confers resistance to arsenicals and antimonials in Escherichia coli. It possesses two-pairs of vicinal cysteine residues, Cys(12)-Cys(13) and Cys(112)-Cys(113), that potentially form separate binding sites for the metalloids that trigger dissociation of ArsD from the operon. However, as a homodimer it has four vicinal cysteine pairs [].; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent, 0046685 response to arsenic-containing substance; PDB: 3MWH_A 3KGK_A 3KTB_B.
Probab=91.51 E-value=2.6 Score=27.52 Aligned_cols=27 Identities=19% Similarity=0.369 Sum_probs=22.6
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCN 29 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~ 29 (125)
++|+-.+....+..+++|+.|-=.|..
T Consensus 23 d~eL~~~a~~~~~Lk~~gv~v~RyNL~ 49 (123)
T PF06953_consen 23 DPELVRFAADLDWLKEQGVEVERYNLA 49 (123)
T ss_dssp -HHHHHHHHHHHHHHHTT-EEEEEETT
T ss_pred CHHHHHHHHHHHHHHhCCceEEEEccc
Confidence 678999999999999999999988875
No 129
>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=91.05 E-value=0.094 Score=33.68 Aligned_cols=20 Identities=15% Similarity=0.200 Sum_probs=16.8
Q ss_pred cceeeEEECCCCcEEEEEcC
Q 033205 88 WNFAKFLVDKNGQVVDRYYP 107 (125)
Q Consensus 88 ~~PttflId~~G~v~~~~~G 107 (125)
.+||.+|+|++|+++.++.+
T Consensus 76 ~vPt~~f~~~~Gk~~~~~~~ 95 (117)
T cd02959 76 YIPRILFLDPSGDVHPEIIN 95 (117)
T ss_pred ccceEEEECCCCCCchhhcc
Confidence 38999999999999886543
No 130
>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=90.74 E-value=1.3 Score=32.20 Aligned_cols=97 Identities=15% Similarity=0.184 Sum_probs=53.4
Q ss_pred hhHHHHHHHHHHhccC-CeEEEEeeCCCCCC------------CCCCCH-H---HHHHHHHhhCCcccceeEeeccCCCc
Q 033205 4 SNYIELSQLYDKYKDQ-GLEILAFPCNQFGE------------EEPGSN-D---QIADFVCTRFKSEFPIFEKIDVNGEH 66 (125)
Q Consensus 4 ~e~p~l~~l~~~y~~~-g~~vvgv~~~~~~~------------~e~~~~-~---~~~~f~~~~~~~~fpv~~~~D~~g~~ 66 (125)
..++.++++.++|.+. .+.+|=|.--..++ +.. +. | .++.+. ++ ...+|++ .|.-...
T Consensus 119 ~~l~~f~~l~~~f~d~adFl~VYI~EAHpsDgW~~~~~~~~i~qh~-sledR~~aA~~l~-~~-~~~~pi~--vD~mdN~ 193 (237)
T PF00837_consen 119 AKLDAFKRLVEDFSDVADFLIVYIEEAHPSDGWAFGNNPYEIPQHR-SLEDRLRAAKLLK-EE-FPQCPIV--VDTMDNN 193 (237)
T ss_pred HHHHHHHHHHHHhhhhhheehhhHhhhCcCCCccCCCCceeecCCC-CHHHHHHHHHHHH-hh-CCCCCEE--EEccCCH
Confidence 4578999999999985 34444332111100 111 22 2 233344 44 4788998 5653333
Q ss_pred cchHHHHHHhCCCCCCCCCccccee-eEEECCCCcEEEEEc-CCC--ChhHHHHHHHHh
Q 033205 67 ASPLYKLLKSGKWGIFGDDIQWNFA-KFLVDKNGQVVDRYY-PTT--SLLSLEHDIKKL 121 (125)
Q Consensus 67 ~~~~~~~l~~~~~~~~g~~i~~~Pt-tflId~~G~v~~~~~-G~~--~~~~l~~~I~~l 121 (125)
+.. +|| +.|. .||| ++|+|++... |+. +++++++.+++.
T Consensus 194 ~~~-----------~Yg----A~PeRlyIi-~~gkv~Y~Gg~GP~~y~~~e~r~~L~~~ 236 (237)
T PF00837_consen 194 FNK-----------AYG----ALPERLYII-QDGKVVYKGGPGPFGYSPEELREWLEKY 236 (237)
T ss_pred HHH-----------HhC----CCcceEEEE-ECCEEEEeCCCCCCcCCHHHHHHHHHhc
Confidence 222 253 2477 4555 6999999852 332 356777777653
No 131
>PTZ00102 disulphide isomerase; Provisional
Probab=90.59 E-value=0.49 Score=37.05 Aligned_cols=39 Identities=8% Similarity=-0.039 Sum_probs=33.8
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
+++++||.++++++|++..++.|..+.+.+.+.|++...
T Consensus 428 ~v~~~Pt~~~~~~~~~~~~~~~G~~~~~~l~~~i~~~~~ 466 (477)
T PTZ00102 428 SWSAFPTILFVKAGERTPIPYEGERTVEGFKEFVNKHAT 466 (477)
T ss_pred CCcccCeEEEEECCCcceeEecCcCCHHHHHHHHHHcCC
Confidence 578899999999988887788999999999998887654
No 132
>PTZ00102 disulphide isomerase; Provisional
Probab=90.47 E-value=2.4 Score=33.17 Aligned_cols=37 Identities=22% Similarity=0.159 Sum_probs=29.9
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
+|.++||.++++..+. + .+.|..+.+.+.+.|.+++.
T Consensus 103 ~i~~~Pt~~~~~~g~~-~-~y~g~~~~~~l~~~l~~~~~ 139 (477)
T PTZ00102 103 GVRGYPTIKFFNKGNP-V-NYSGGRTADGIVSWIKKLTG 139 (477)
T ss_pred CCCcccEEEEEECCce-E-EecCCCCHHHHHHHHHHhhC
Confidence 5888999999976554 4 78899999999888888764
No 133
>PF04592 SelP_N: Selenoprotein P, N terminal region; InterPro: IPR007671 SelP is the only known eukaryotic selenoprotein that contains multiple selenocysteine (Sec) residues, and accounts for more than 50% of the selenium content of rat and human plasma []. It is thought to be glycosylated []. SelP may have antioxidant properties. It can attach to epithelial cells, and may protect vascular endothelial cells against peroxynitrite toxicity []. The high selenium content of SelP suggests that it may be involved in selenium intercellular transport or storage []. The promoter structure of bovine SelP suggests that it may be involved in countering heavy metal intoxication, and may also have a developmental function []. The N-terminal region of SelP can exist independently of the C-terminal region. Zebrafish selenoprotein Pb (Q98SV0 from SWISSPROT) lacks the C-terminal Sec-rich region, and a protein encoded by the rat SelP gene and lacking this region has also been reported []. The N-terminal region contains a conserved SecxxCys motif, which is similar to the CysxxCys found in thioredoxins. It is speculated that the N-terminal region may adopt a thioredoxin fold and catalyse redox reactions []. The N-terminal region also contains a His-rich region, which is thought to mediate heparin binding. Binding to heparan proteoglycans could account for the membrane binding properties of SelP []. The function of the bacterial members of this family is uncharacterised.; GO: 0008430 selenium binding
Probab=90.03 E-value=5.1 Score=29.16 Aligned_cols=97 Identities=15% Similarity=0.222 Sum_probs=55.8
Q ss_pred hhHHHHHHHHHHhccCC---eEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCC
Q 033205 4 SNYIELSQLYDKYKDQG---LEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWG 80 (125)
Q Consensus 4 ~e~p~l~~l~~~y~~~g---~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~ 80 (125)
.++..|+.|..++...| +.++.||. ++. ........++++..-.|||+. -|. ....+|..|..+.
T Consensus 43 ~qa~~le~Lr~kL~~~g~~~I~f~vVN~-----~~~-~s~~~~~~l~~r~~~~ipVyq-q~~---~q~dvW~~L~G~k-- 110 (238)
T PF04592_consen 43 LQASRLEDLREKLENEGLSNISFMVVNH-----QGE-HSRLKYWELKRRVSEHIPVYQ-QDE---NQPDVWELLNGSK-- 110 (238)
T ss_pred HHHHHHHHHHHHHHHCCCCceEEEEEcC-----CCc-chhHHHHHHHHhCCCCCceec-CCc---cccCHHHHhCCCc--
Confidence 35677888887777665 56777774 222 122222345445555699994 122 2233676543211
Q ss_pred CCCCCcccceeeEEECCCCcEEEEEcCCC---ChhHHHHHHHHh
Q 033205 81 IFGDDIQWNFAKFLVDKNGQVVDRYYPTT---SLLSLEHDIKKL 121 (125)
Q Consensus 81 ~~g~~i~~~PttflId~~G~v~~~~~G~~---~~~~l~~~I~~l 121 (125)
---||+||=|++++...=+- ...-++++|+..
T Consensus 111 ---------dD~~iyDRCGrL~~~i~~P~S~l~~~~ve~Ai~~t 145 (238)
T PF04592_consen 111 ---------DDFLIYDRCGRLTYHIPLPYSFLQFPYVEAAIKST 145 (238)
T ss_pred ---------CcEEEEeccCcEEEEecCcHHHhcCHHHHHHHHHH
Confidence 33599999999999864322 223456666543
No 134
>cd02995 PDI_a_PDI_a'_C PDIa family, C-terminal TRX domain (a') subfamily; composed of the C-terminal redox active a' domains of PDI, ERp72, ERp57 (or ERp60) and EFP1. PDI, ERp72 and ERp57 are endoplasmic reticulum (ER)-resident eukaryotic proteins involved in oxidative protein folding. They are 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. PDI and ERp57 have the abb'a' domain structure (where a and a' are redox active TRX domains while b and b' are redox inactive TRX-like domains). PDI also contains an acidic region (c domain) after the a' domain that is absent in ERp57. ERp72 has an additional a domain at the N-terminus (a"abb'a' domain structure). ERp57 interacts with the lectin chaperones, calnexin and calreticu
Probab=89.19 E-value=3.3 Score=24.88 Aligned_cols=33 Identities=9% Similarity=-0.086 Sum_probs=22.4
Q ss_pred CcccceeeEEECCCC-cEEEEEcCCCChhHHHHH
Q 033205 85 DIQWNFAKFLVDKNG-QVVDRYYPTTSLLSLEHD 117 (125)
Q Consensus 85 ~i~~~PttflId~~G-~v~~~~~G~~~~~~l~~~ 117 (125)
.+..+||.+++.+.+ .-..++.|..+.+.+.+.
T Consensus 70 ~~~~~Pt~~~~~~~~~~~~~~~~g~~~~~~l~~f 103 (104)
T cd02995 70 VVDGFPTILFFPAGDKSNPIKYEGDRTLEDLIKF 103 (104)
T ss_pred cCCCCCEEEEEcCCCcCCceEccCCcCHHHHHhh
Confidence 357789988886555 245567788777766543
No 135
>TIGR00424 APS_reduc 5'-adenylylsulfate reductase, thioredoxin-independent. This enzyme, involved in the assimilation of inorganic sulfate, is closely related to the thioredoxin-dependent PAPS reductase of Bacteria (CysH) and Saccharomyces cerevisiae. However, it has its own C-terminal thioredoxin-like domain and is not thioredoxin-dependent. Also, it has a substrate preference for 5'-adenylylsulfate (APS) over 3'-phosphoadenylylsulfate (PAPS) so the pathway does not require an APS kinase (CysC) to convert APS to PAPS. Arabidopsis thaliana appears to have three isozymes, all able to complement E. coli CysH mutants (even in backgrounds lacking thioredoxin or APS kinase) but likely localized to different compartments in Arabidopsis.
Probab=88.35 E-value=3.2 Score=33.14 Aligned_cols=37 Identities=14% Similarity=0.022 Sum_probs=23.9
Q ss_pred CcccceeeEEECCCCcEEEEEc-CCCChhHHHHHHHHh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYY-PTTSLLSLEHDIKKL 121 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~-G~~~~~~l~~~I~~l 121 (125)
+|..+||.+|+.....-...+. |..+.+.|.+.|+.+
T Consensus 425 ~I~~~PTii~Fk~g~~~~~~Y~~g~R~~e~L~~Fv~~~ 462 (463)
T TIGR00424 425 QLGSFPTILFFPKHSSRPIKYPSEKRDVDSLMSFVNLL 462 (463)
T ss_pred CCCccceEEEEECCCCCceeCCCCCCCHHHHHHHHHhh
Confidence 5788899888855432223354 467788887777653
No 136
>PLN02309 5'-adenylylsulfate reductase
Probab=87.97 E-value=5.8 Score=31.64 Aligned_cols=37 Identities=19% Similarity=0.076 Sum_probs=25.3
Q ss_pred CcccceeeEEECCCCcEEEEEc-CCCChhHHHHHHHHh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYY-PTTSLLSLEHDIKKL 121 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~-G~~~~~~l~~~I~~l 121 (125)
+|..+||.+|+.+...-...+. |..+.+.|.+.|+.+
T Consensus 419 ~I~~~PTil~f~~g~~~~v~Y~~~~R~~~~L~~fv~~~ 456 (457)
T PLN02309 419 QLGSFPTILLFPKNSSRPIKYPSEKRDVDSLLSFVNSL 456 (457)
T ss_pred CCceeeEEEEEeCCCCCeeecCCCCcCHHHHHHHHHHh
Confidence 5888999988865443333454 457778888887764
No 137
>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=87.80 E-value=4.7 Score=26.34 Aligned_cols=36 Identities=8% Similarity=-0.226 Sum_probs=29.4
Q ss_pred cceeeEEECCCCcEEEE-EcCCCChhHHHHHHHHhhcc
Q 033205 88 WNFAKFLVDKNGQVVDR-YYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 88 ~~PttflId~~G~v~~~-~~G~~~~~~l~~~I~~ll~~ 124 (125)
..|+.++++.++. .+. +.|..+.+.+.+-++..+..
T Consensus 81 ~~P~v~i~~~~~~-KY~~~~~~~t~e~i~~Fv~~~l~G 117 (130)
T cd02983 81 GYPAMVAINFRKM-KFATLKGSFSEDGINEFLRELSYG 117 (130)
T ss_pred CCCEEEEEecccC-ccccccCccCHHHHHHHHHHHHcC
Confidence 4799999999876 555 67899999999999887753
No 138
>COG3054 Predicted transcriptional regulator [General function prediction only]
Probab=87.33 E-value=1.4 Score=30.01 Aligned_cols=30 Identities=20% Similarity=0.155 Sum_probs=25.5
Q ss_pred eeEEECCCCcEEEEEcCCCChhHHHHHHHH
Q 033205 91 AKFLVDKNGQVVDRYYPTTSLLSLEHDIKK 120 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~~~~~~l~~~I~~ 120 (125)
.-+++|++|+|..+..|..+.+++...|.-
T Consensus 149 aivVlDk~G~VkfvkeGaLt~aevQ~Vi~l 178 (184)
T COG3054 149 AVVVLDKDGRVKFVKEGALTQAEVQQVIDL 178 (184)
T ss_pred eEEEEcCCCcEEEEecCCccHHHHHHHHHH
Confidence 458999999999999999999887766543
No 139
>PRK11657 dsbG disulfide isomerase/thiol-disulfide oxidase; Provisional
Probab=87.01 E-value=1 Score=32.78 Aligned_cols=34 Identities=15% Similarity=0.122 Sum_probs=27.1
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIK 119 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~ 119 (125)
+++++|+.|+.|.+|++.. ..|..++++|++.+.
T Consensus 216 Gv~GTPaiv~~d~~G~~~~-v~G~~~~~~L~~~l~ 249 (251)
T PRK11657 216 GANATPAIYYMDKDGTLQQ-VVGLPDPAQLAEIMG 249 (251)
T ss_pred CCCCCCEEEEECCCCCEEE-ecCCCCHHHHHHHhC
Confidence 4889999999999997643 458888888877664
No 140
>PTZ00062 glutaredoxin; Provisional
Probab=86.95 E-value=1.6 Score=30.96 Aligned_cols=36 Identities=11% Similarity=-0.080 Sum_probs=28.0
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
+|.++||-+++ ++|+++.++.|. ++..|...|+++.
T Consensus 59 ~V~~vPtfv~~-~~g~~i~r~~G~-~~~~~~~~~~~~~ 94 (204)
T PTZ00062 59 ANNEYGVFEFY-QNSQLINSLEGC-NTSTLVSFIRGWA 94 (204)
T ss_pred CcccceEEEEE-ECCEEEeeeeCC-CHHHHHHHHHHHc
Confidence 58889987777 799999999885 4777777666553
No 141
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=85.54 E-value=4.5 Score=29.67 Aligned_cols=76 Identities=25% Similarity=0.386 Sum_probs=52.1
Q ss_pred HHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCccc
Q 033205 9 LSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQW 88 (125)
Q Consensus 9 l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~ 88 (125)
+.++..+|.++|+.+|-|+-++. .+..++...+. .....|-++++ |..-+....-|+.|++-.-| ++..
T Consensus 69 Vkall~~y~~~GLRlIev~k~~L-----~~l~~l~~~l~-~~~~kFIlf~D-DLsFe~~d~~yk~LKs~LeG----gle~ 137 (249)
T PF05673_consen 69 VKALLNEYADQGLRLIEVSKEDL-----GDLPELLDLLR-DRPYKFILFCD-DLSFEEGDTEYKALKSVLEG----GLEA 137 (249)
T ss_pred HHHHHHHHhhcCceEEEECHHHh-----ccHHHHHHHHh-cCCCCEEEEec-CCCCCCCcHHHHHHHHHhcC----cccc
Confidence 56788999999999999986532 24566777774 45788989863 54445555677777765432 4555
Q ss_pred ceeeEEE
Q 033205 89 NFAKFLV 95 (125)
Q Consensus 89 ~PttflI 95 (125)
.|..++|
T Consensus 138 ~P~Nvli 144 (249)
T PF05673_consen 138 RPDNVLI 144 (249)
T ss_pred CCCcEEE
Confidence 6776666
No 142
>PF11211 DUF2997: Protein of unknown function (DUF2997); InterPro: IPR021375 This family of proteins has no known function.
Probab=84.45 E-value=3.7 Score=22.23 Aligned_cols=32 Identities=16% Similarity=0.237 Sum_probs=23.4
Q ss_pred eEEECCCCcEEEEEcCCCChh--HHHHHHHHhhc
Q 033205 92 KFLVDKNGQVVDRYYPTTSLL--SLEHDIKKLLG 123 (125)
Q Consensus 92 tflId~~G~v~~~~~G~~~~~--~l~~~I~~ll~ 123 (125)
.|.|++||+|.....|..... ++-+.|+++|.
T Consensus 2 ~~~I~~dG~V~~~v~G~~G~~C~~~t~~lE~~LG 35 (48)
T PF11211_consen 2 EFTIYPDGRVEEEVEGFKGSSCLEATAALEEALG 35 (48)
T ss_pred EEEECCCcEEEEEEEeccChhHHHHHHHHHHHhC
Confidence 478999999999888866554 34566666664
No 143
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=84.26 E-value=2.9 Score=28.95 Aligned_cols=42 Identities=17% Similarity=0.306 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccce
Q 033205 6 YIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPI 56 (125)
Q Consensus 6 ~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv 56 (125)
-|++.++..+-++.|..++-+|.+ +...+..|+ ++.+++|-.
T Consensus 48 tpe~~~W~~e~k~~gi~v~vvSNn--------~e~RV~~~~-~~l~v~fi~ 89 (175)
T COG2179 48 TPELRAWLAELKEAGIKVVVVSNN--------KESRVARAA-EKLGVPFIY 89 (175)
T ss_pred CHHHHHHHHHHHhcCCEEEEEeCC--------CHHHHHhhh-hhcCCceee
Confidence 489999999999999999888843 477888888 477777744
No 144
>cd02988 Phd_like_VIAF Phosducin (Phd)-like family, Viral inhibitor of apoptosis (IAP)-associated factor (VIAF) subfamily; VIAF is a Phd-like protein that functions in caspase activation during apoptosis. It was identified as an IAP binding protein through a screen of a human B-cell library using a prototype IAP. VIAF lacks a consensus IAP binding motif and while it does not function as an IAP antagonist, it still plays a regulatory role in the complete activation of caspases. VIAF itself is a substrate for IAP-mediated ubiquitination, suggesting that it may be a target of IAPs in the prevention of cell death. The similarity of VIAF to Phd points to a potential role distinct from apoptosis regulation. Phd functions as a cytosolic regulator of G protein by specifically binding to G protein betagamma (Gbg)-subunits. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=83.28 E-value=2.6 Score=29.52 Aligned_cols=24 Identities=13% Similarity=0.148 Sum_probs=19.5
Q ss_pred CcccceeeEEECCCCcEEEEEcCCC
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~ 109 (125)
++..+||.+++ ++|+++.++.|..
T Consensus 149 ~i~~lPTlliy-k~G~~v~~ivG~~ 172 (192)
T cd02988 149 PDKNLPTILVY-RNGDIVKQFIGLL 172 (192)
T ss_pred CCCCCCEEEEE-ECCEEEEEEeCch
Confidence 58889976655 8999999998853
No 145
>cd02986 DLP Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to interact with the U5 small nuclear ribonucleoprotein particle (snRNP)-specific 102kD protein (or Prp6). Dim1 protein, also known as U5 snRNP-specific 15kD protein 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 adopts a thioredoxin fold but does not contain the redox active CXXC motif.
Probab=83.09 E-value=7.2 Score=25.15 Aligned_cols=23 Identities=26% Similarity=0.342 Sum_probs=16.8
Q ss_pred CcccceeeEEECCCCcEEEEEcCC
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPT 108 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~ 108 (125)
+|...||++++ ++|+-...-.|.
T Consensus 65 ~I~amPtfvff-kngkh~~~d~gt 87 (114)
T cd02986 65 DISYIPSTIFF-FNGQHMKVDYGS 87 (114)
T ss_pred CceeCcEEEEE-ECCcEEEEecCC
Confidence 57888998877 677777765553
No 146
>cd02992 PDI_a_QSOX PDIa family, Quiescin-sulfhydryl oxidase (QSOX) subfamily; QSOX is a eukaryotic protein containing an N-terminal redox active TRX domain, similar to that of PDI, and a small C-terminal flavin adenine dinucleotide (FAD)-binding domain homologous to the yeast ERV1p protein. QSOX oxidizes thiol groups to disulfides like PDI, however, unlike PDI, this oxidation is accompanied by the reduction of oxygen to hydrogen peroxide. QSOX is localized in high concentrations in cells with heavy secretory load and prefers peptides and proteins as substrates, not monothiols like glutathione. Inside the cell, QSOX is found in the endoplasmic reticulum and Golgi. The flow of reducing equivalents in a QSOX-catalyzed reaction goes from the dithiol substrate - dithiol of the QSOX TRX domain - dithiols of the QSOX ERV1p domain - FAD - oxygen.
Probab=83.04 E-value=8.7 Score=24.20 Aligned_cols=15 Identities=0% Similarity=-0.321 Sum_probs=11.6
Q ss_pred CcccceeeEEECCCC
Q 033205 85 DIQWNFAKFLVDKNG 99 (125)
Q Consensus 85 ~i~~~PttflId~~G 99 (125)
+|+.+||.+++.+..
T Consensus 75 ~i~~~Pt~~lf~~~~ 89 (114)
T cd02992 75 GVTGYPTLRYFPPFS 89 (114)
T ss_pred CCCCCCEEEEECCCC
Confidence 578889999995554
No 147
>cd02989 Phd_like_TxnDC9 Phosducin (Phd)-like family, Thioredoxin (TRX) domain containing protein 9 (TxnDC9) subfamily; composed of predominantly uncharacterized eukaryotic proteins, containing a TRX-like domain without the redox active CXXC motif. The gene name for the human protein is TxnDC9. The two characterized members are described as Phd-like proteins, PLP1 of Saccharomyces cerevisiae and PhLP3 of Dictyostelium discoideum. Gene disruption experiments show that both PLP1 and PhLP3 are non-essential proteins. Unlike Phd and most Phd-like proteins, members of this group do not contain the Phd N-terminal helical domain which is implicated in binding to the G protein betagamma subunit.
Probab=82.11 E-value=4 Score=25.81 Aligned_cols=24 Identities=33% Similarity=0.342 Sum_probs=19.3
Q ss_pred CcccceeeEEECCCCcEEEEEcCCC
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~ 109 (125)
+|..+||..++ ++|+++.++.|..
T Consensus 72 ~v~~vPt~l~f-k~G~~v~~~~g~~ 95 (113)
T cd02989 72 NIKVLPTVILF-KNGKTVDRIVGFE 95 (113)
T ss_pred CCccCCEEEEE-ECCEEEEEEECcc
Confidence 58899987666 7999999987754
No 148
>cd02957 Phd_like Phosducin (Phd)-like family; composed of Phd and Phd-like proteins (PhLP), characterized as cytosolic regulators of G protein functions. Phd and PhLPs specifically bind G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane and impeding G protein-mediated signal transduction by inhibiting the formation of a functional G protein trimer (G protein alphabetagamma). Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-te
Probab=81.44 E-value=4.1 Score=25.54 Aligned_cols=24 Identities=25% Similarity=0.300 Sum_probs=19.3
Q ss_pred CcccceeeEEECCCCcEEEEEcCCC
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~ 109 (125)
+|..+||.+++ ++|+++.+..|..
T Consensus 73 ~i~~~Pt~~~f-~~G~~v~~~~G~~ 96 (113)
T cd02957 73 DIKVLPTLLVY-KNGELIDNIVGFE 96 (113)
T ss_pred CCCcCCEEEEE-ECCEEEEEEecHH
Confidence 58899976555 7899999998854
No 149
>KOG4614 consensus Inner membrane protein required for assembly of the F0 sector of ATP synthase [Posttranslational modification, protein turnover, chaperones]
Probab=81.36 E-value=2.8 Score=30.63 Aligned_cols=28 Identities=21% Similarity=0.273 Sum_probs=24.0
Q ss_pred eeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 91 AKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
..||||.+|+|+...-|..+++++++..
T Consensus 250 yV~L~D~s~kIRW~g~G~aTp~Eve~L~ 277 (287)
T KOG4614|consen 250 YVLLLDKSGKIRWQGFGTATPEEVEQLL 277 (287)
T ss_pred EEEEEccCceEEEeecCCCCHHHHHHHH
Confidence 5799999999999999999998876543
No 150
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=79.51 E-value=3.2 Score=24.20 Aligned_cols=30 Identities=20% Similarity=0.126 Sum_probs=18.3
Q ss_pred CcccceeeEEECCCCcEEEEEcC-CCChhHHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYP-TTSLLSLEHDIK 119 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G-~~~~~~l~~~I~ 119 (125)
++..+|+. +|| |+++. .| .-+.+++.+.|+
T Consensus 46 gv~~vPal-vIn--g~~~~--~G~~p~~~el~~~l~ 76 (76)
T PF13192_consen 46 GVMSVPAL-VIN--GKVVF--VGRVPSKEELKELLE 76 (76)
T ss_dssp T-SSSSEE-EET--TEEEE--ESS--HHHHHHHHHH
T ss_pred CCCCCCEE-EEC--CEEEE--EecCCCHHHHHHHhC
Confidence 58889987 565 77765 46 445666766653
No 151
>PF14595 Thioredoxin_9: Thioredoxin; PDB: 1Z6N_A.
Probab=79.32 E-value=3.2 Score=27.19 Aligned_cols=32 Identities=13% Similarity=0.115 Sum_probs=17.6
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
+...+|+.+++|.+|+++.+|. +. |+.+.+.+
T Consensus 94 g~~~IP~~I~~d~~~~~lg~wg-er-P~~~~~~~ 125 (129)
T PF14595_consen 94 GGRSIPTFIFLDKDGKELGRWG-ER-PKEVQELV 125 (129)
T ss_dssp SS--SSEEEEE-TT--EEEEEE-SS--HHHH---
T ss_pred CCeecCEEEEEcCCCCEeEEEc-CC-CHHHhhcc
Confidence 4677899999999999999994 33 44444443
No 152
>cd02987 Phd_like_Phd Phosducin (Phd)-like family, Phd subfamily; Phd is a cytosolic regulator of G protein functions. It specifically binds G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane. This impedes the formation of a functional G protein trimer (G protein alphabetagamma), thereby inhibiting G protein-mediated signal transduction. Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=77.28 E-value=5.7 Score=27.28 Aligned_cols=24 Identities=21% Similarity=0.285 Sum_probs=19.3
Q ss_pred CcccceeeEEECCCCcEEEEEcCCC
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~ 109 (125)
+|..+||.+|+ ++|+++.++.|..
T Consensus 132 ~v~~vPTllly-k~G~~v~~~vG~~ 155 (175)
T cd02987 132 DTDALPALLVY-KGGELIGNFVRVT 155 (175)
T ss_pred CCCCCCEEEEE-ECCEEEEEEechH
Confidence 58899976666 7999999987754
No 153
>PF02563 Poly_export: Polysaccharide biosynthesis/export protein; InterPro: IPR003715 The extracellular polysaccharide colanic acid (CA) is produced by species of the family Enterobacteriaceae. In Escherichia coli (strain K12) the CA cluster comprises 19 genes. The wzx gene encodes a protein with multiple transmembrane segments that may function in export of the CA repeat unit from the cytoplasm into the periplasm in a process analogous to O-unit export. The CA gene clusters may be involved in the export of polysaccharide from the cell [].; GO: 0015159 polysaccharide transmembrane transporter activity, 0015774 polysaccharide transport, 0016020 membrane; PDB: 2W8I_E 2W8H_E 2J58_D.
Probab=75.93 E-value=6.5 Score=23.38 Aligned_cols=33 Identities=24% Similarity=0.320 Sum_probs=22.1
Q ss_pred eEEECCCCcEEEEEc-----CCCChhHHHHHHHHhhcc
Q 033205 92 KFLVDKNGQVVDRYY-----PTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 92 tflId~~G~v~~~~~-----G~~~~~~l~~~I~~ll~~ 124 (125)
.|.||++|.|.--.. +..+.+++++.|++.+.+
T Consensus 32 ~~~V~~dG~I~lP~iG~v~v~G~T~~e~~~~I~~~l~~ 69 (82)
T PF02563_consen 32 EYTVDPDGTISLPLIGPVKVAGLTLEEAEEEIKQRLQK 69 (82)
T ss_dssp SEE--TTSEEEETTTEEEE-TT--HHHHHHHHHHHHTT
T ss_pred ceEECCCCcEeecccceEEECCCCHHHHHHHHHHHHHH
Confidence 799999999976443 456788889888887754
No 154
>PF13462 Thioredoxin_4: Thioredoxin; PDB: 3FEU_A 3HZ8_A 3DVW_A 3A3T_E 3GMF_A 1Z6M_A 3GYK_C 3BCK_A 3BD2_A 3BCI_A ....
Probab=75.55 E-value=5 Score=26.29 Aligned_cols=30 Identities=27% Similarity=0.275 Sum_probs=22.5
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKK 120 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ 120 (125)
+|.++||-|| +|+.+ .|..+.++|.+.|++
T Consensus 133 ~i~~tPt~~i---nG~~~---~~~~~~~~l~~~Id~ 162 (162)
T PF13462_consen 133 GITGTPTFFI---NGKYV---VGPYTIEELKELIDK 162 (162)
T ss_dssp T-SSSSEEEE---TTCEE---ETTTSHHHHHHHHHH
T ss_pred CCccccEEEE---CCEEe---CCCCCHHHHHHHHcC
Confidence 4778897555 78884 578889999988874
No 155
>COG2761 FrnE Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=74.51 E-value=6.5 Score=28.41 Aligned_cols=35 Identities=20% Similarity=0.251 Sum_probs=27.2
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
+|+++|+ |++ +|++. ..|..+++.+...|+++++.
T Consensus 181 gI~gVP~-fv~--d~~~~--V~Gaq~~~v~~~al~~~~~~ 215 (225)
T COG2761 181 GIRGVPT-FVF--DGKYA--VSGAQPYDVLEDALRQLLAE 215 (225)
T ss_pred CCccCce-EEE--cCcEe--ecCCCCHHHHHHHHHHHHhc
Confidence 5899997 555 55543 45899999999999999865
No 156
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=74.43 E-value=7 Score=21.35 Aligned_cols=17 Identities=6% Similarity=0.096 Sum_probs=12.6
Q ss_pred HHHHHHHHhhCCccccee
Q 033205 40 DQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~ 57 (125)
..++++++ +++++|-.+
T Consensus 13 ~~~~~~L~-~~~i~y~~~ 29 (60)
T PF00462_consen 13 KKAKEFLD-EKGIPYEEV 29 (60)
T ss_dssp HHHHHHHH-HTTBEEEEE
T ss_pred HHHHHHHH-HcCCeeeEc
Confidence 56778884 678888776
No 157
>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=74.22 E-value=10 Score=22.92 Aligned_cols=24 Identities=25% Similarity=0.200 Sum_probs=16.7
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLS 113 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~ 113 (125)
+|..+|+.+ | +|+++.+ |..+.++
T Consensus 62 ~V~~vPt~v-i--dG~~~~~--G~~~~~e 85 (89)
T cd03026 62 GIMSVPAIF-L--NGELFGF--GRMTLEE 85 (89)
T ss_pred CCccCCEEE-E--CCEEEEe--CCCCHHH
Confidence 588899876 4 6888775 6555444
No 158
>TIGR02196 GlrX_YruB Glutaredoxin-like protein, YruB-family. This glutaredoxin-like protein family contains the conserved CxxC motif and includes the Clostridium pasteurianum protein YruB which has been cloned from a rubredoxin operon. Somewhat related to NrdH, it is unknown whether this protein actually interacts with glutathione/glutathione reducatase, or, like NrdH, some other reductant system.
Probab=73.98 E-value=13 Score=20.49 Aligned_cols=60 Identities=8% Similarity=0.035 Sum_probs=30.9
Q ss_pred HHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 40 DQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
..++.++. +.++.|-.+ |.+.... ..+.+.+. + ++..+|+.+ ++ |++ ..| .+++.|.+.|
T Consensus 14 ~~~~~~l~-~~~i~~~~v---di~~~~~--~~~~~~~~----~--~~~~vP~~~-~~--~~~---~~g-~~~~~i~~~i 73 (74)
T TIGR02196 14 KKAKEYLT-SKGIAFEEI---DVEKDSA--AREEVLKV----L--GQRGVPVIV-IG--HKI---IVG-FDPEKLDQLL 73 (74)
T ss_pred HHHHHHHH-HCCCeEEEE---eccCCHH--HHHHHHHH----h--CCCcccEEE-EC--CEE---Eee-CCHHHHHHHh
Confidence 45667774 568877655 3322111 11122211 3 356779755 44 665 445 4676666654
No 159
>PF01323 DSBA: DSBA-like thioredoxin domain; InterPro: IPR001853 DSBA is a sub-family of the Thioredoxin family []. The efficient and correct folding of bacterial disulphide bonded proteins in vivo is dependent upon a class of periplasmic oxidoreductase proteins called DsbA, after the Escherichia coli enzyme. The bacterial protein-folding factor DsbA is the most oxidizing of the thioredoxin family. DsbA catalyses disulphide-bond formation during the folding of secreted proteins. The extremely oxidizing nature of DsbA has been proposed to result from either domain motion or stabilising active-site interactions in the reduced form. DsbA's highly oxidizing nature is a result of hydrogen bond, electrostatic and helix-dipole interactions that favour the thiolate over the disulphide at the active site []. In the pathogenic bacterium Vibrio cholerae, the DsbA homologue (TcpG) is responsible for the folding, maturation and secretion of virulence factors. While the overall architecture of TcpG and DsbA is similar and the surface features are retained in TcpG, there are significant differences. For example, the kinked active site helix results from a three-residue loop in DsbA, but is caused by a proline in TcpG (making TcpG more similar to thioredoxin in this respect). Furthermore, the proposed peptide binding groove of TcpG is substantially shortened compared with that of DsbA due to a six-residue deletion. Also, the hydrophobic pocket of TcpG is more shallow and the acidic patch is much less extensive than that of E. coli DsbA [].; GO: 0015035 protein disulfide oxidoreductase activity; PDB: 3GL5_A 3DKS_D 3RPP_C 3RPN_B 1YZX_A 3L9V_C 2IMD_A 2IME_A 2IMF_A 2B3S_B ....
Probab=72.17 E-value=6.7 Score=26.52 Aligned_cols=30 Identities=20% Similarity=0.277 Sum_probs=22.2
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIK 119 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~ 119 (125)
++.++|+.+| +|+ ..+.|....+.|++.|+
T Consensus 164 gv~GvP~~vv---~g~--~~~~G~~~~~~l~~~l~ 193 (193)
T PF01323_consen 164 GVFGVPTFVV---NGK--YRFFGADRLDELEDALQ 193 (193)
T ss_dssp TCSSSSEEEE---TTT--EEEESCSSHHHHHHHH-
T ss_pred CCcccCEEEE---CCE--EEEECCCCHHHHHHHhC
Confidence 4778898665 666 66779998888887763
No 160
>cd03023 DsbA_Com1_like DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC motif, assumed to be imbedded in a DsbA-like structure. Its homology to DsbA suggests that the protein is a protein disulfide oxidoreductase. The role of such a protein in pathogenesis is unknown.
Probab=71.33 E-value=5.2 Score=25.76 Aligned_cols=28 Identities=18% Similarity=0.139 Sum_probs=20.8
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
+|.++|| |+|| |+ .+.|..+.+.|.+.|
T Consensus 126 gi~gtPt-~~v~--g~---~~~G~~~~~~l~~~i 153 (154)
T cd03023 126 GITGTPA-FIIG--DT---VIPGAVPADTLKEAI 153 (154)
T ss_pred CCCcCCe-EEEC--CE---EecCCCCHHHHHHHh
Confidence 5788998 6665 54 456888888888766
No 161
>KOG0908 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=70.98 E-value=10 Score=28.03 Aligned_cols=38 Identities=18% Similarity=0.230 Sum_probs=30.0
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
+|.+.|| |+.=++|+-+.+..|+ ++..|++.|++....
T Consensus 71 gV~amPT-Fiff~ng~kid~~qGA-d~~gLe~kv~~~~st 108 (288)
T KOG0908|consen 71 GVNAMPT-FIFFRNGVKIDQIQGA-DASGLEEKVAKYAST 108 (288)
T ss_pred CcccCce-EEEEecCeEeeeecCC-CHHHHHHHHHHHhcc
Confidence 6899997 4455899888888885 678899999887654
No 162
>PF09673 TrbC_Ftype: Type-F conjugative transfer system pilin assembly protein; InterPro: IPR019106 This entry represents TrbC, a protein that is an essential component of the F-type conjugative pilus assembly system (aka type 4 secretion system) for the transfer of plasmid DNA [, ]. The N-terminal portion of these proteins is heterogeneous.
Probab=70.52 E-value=25 Score=22.38 Aligned_cols=13 Identities=23% Similarity=0.054 Sum_probs=10.6
Q ss_pred CcccceeeEEECC
Q 033205 85 DIQWNFAKFLVDK 97 (125)
Q Consensus 85 ~i~~~PttflId~ 97 (125)
+|..+|+.++...
T Consensus 68 ~I~~VPa~V~~~~ 80 (113)
T PF09673_consen 68 NITAVPAFVVVKD 80 (113)
T ss_pred CceEcCEEEEEcC
Confidence 6999999877766
No 163
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=70.18 E-value=19 Score=26.69 Aligned_cols=76 Identities=22% Similarity=0.370 Sum_probs=47.6
Q ss_pred HHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCccc
Q 033205 9 LSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQW 88 (125)
Q Consensus 9 l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~ 88 (125)
..++..+|.++|+.+|-|+-++. .+...+..-++ ..+-.|-++++ |-.-+.....|+.|+...-| +|..
T Consensus 102 VKA~~~e~~~~glrLVEV~k~dl-----~~Lp~l~~~Lr-~~~~kFIlFcD-DLSFe~gd~~yK~LKs~LeG----~ve~ 170 (287)
T COG2607 102 VKALLNEYADEGLRLVEVDKEDL-----ATLPDLVELLR-ARPEKFILFCD-DLSFEEGDDAYKALKSALEG----GVEG 170 (287)
T ss_pred HHHHHHHHHhcCCeEEEEcHHHH-----hhHHHHHHHHh-cCCceEEEEec-CCCCCCCchHHHHHHHHhcC----Cccc
Confidence 46788888889999888874321 12344455563 45777888863 55444555577777765432 4666
Q ss_pred ceeeEEE
Q 033205 89 NFAKFLV 95 (125)
Q Consensus 89 ~PttflI 95 (125)
-|..+||
T Consensus 171 rP~NVl~ 177 (287)
T COG2607 171 RPANVLF 177 (287)
T ss_pred CCCeEEE
Confidence 6776665
No 164
>PRK10877 protein disulfide isomerase II DsbC; Provisional
Probab=69.90 E-value=7.5 Score=27.96 Aligned_cols=32 Identities=19% Similarity=0.102 Sum_probs=24.8
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
+|+++|+.++ ++|+++ .|..++++|++.|++.
T Consensus 199 gi~gTPtiv~--~~G~~~---~G~~~~~~L~~~l~~~ 230 (232)
T PRK10877 199 GVQGTPAIVL--SNGTLV---PGYQGPKEMKAFLDEH 230 (232)
T ss_pred CCccccEEEE--cCCeEe---eCCCCHHHHHHHHHHc
Confidence 5899997663 478765 6889999999888754
No 165
>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=68.99 E-value=9.5 Score=21.58 Aligned_cols=16 Identities=31% Similarity=0.555 Sum_probs=13.0
Q ss_pred eeeEEECCCCcEEEEE
Q 033205 90 FAKFLVDKNGQVVDRY 105 (125)
Q Consensus 90 PttflId~~G~v~~~~ 105 (125)
--.|.||++|+|....
T Consensus 13 ~v~~~i~~~G~v~~~~ 28 (74)
T TIGR01352 13 VVRFTVDADGRVTSVS 28 (74)
T ss_pred EEEEEECCCCCEEEEE
Confidence 4479999999998754
No 166
>PF03190 Thioredox_DsbH: Protein of unknown function, DUF255; InterPro: IPR004879 This is a group of uncharacterised proteins.; PDB: 3IRA_A.
Probab=68.09 E-value=11 Score=25.87 Aligned_cols=19 Identities=5% Similarity=-0.192 Sum_probs=13.6
Q ss_pred ccceeeEEECCCCcEEEEE
Q 033205 87 QWNFAKFLVDKNGQVVDRY 105 (125)
Q Consensus 87 ~~~PttflId~~G~v~~~~ 105 (125)
.+.|++++++++|+++...
T Consensus 101 gGwPl~vfltPdg~p~~~~ 119 (163)
T PF03190_consen 101 GGWPLTVFLTPDGKPFFGG 119 (163)
T ss_dssp --SSEEEEE-TTS-EEEEE
T ss_pred CCCCceEEECCCCCeeeee
Confidence 4579999999999999874
No 167
>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=66.56 E-value=3.9 Score=23.59 Aligned_cols=16 Identities=31% Similarity=0.582 Sum_probs=13.0
Q ss_pred eeeEEECCCCcEEEEE
Q 033205 90 FAKFLVDKNGQVVDRY 105 (125)
Q Consensus 90 PttflId~~G~v~~~~ 105 (125)
-..|.||++|+|....
T Consensus 19 ~v~~~I~~~G~v~~~~ 34 (79)
T PF03544_consen 19 VVEFTIDPDGRVSDVR 34 (79)
T ss_dssp EEEEEEETTTEEEEEE
T ss_pred EEEEEEeCCCCEEEEE
Confidence 4579999999998753
No 168
>PF13103 TonB_2: TonB C terminal; PDB: 1LR0_A.
Probab=65.59 E-value=8.3 Score=22.69 Aligned_cols=32 Identities=9% Similarity=0.364 Sum_probs=17.1
Q ss_pred eeEEECCCCcEEEEEc-CCCChhHHHHHHHHhh
Q 033205 91 AKFLVDKNGQVVDRYY-PTTSLLSLEHDIKKLL 122 (125)
Q Consensus 91 ttflId~~G~v~~~~~-G~~~~~~l~~~I~~ll 122 (125)
-++-||++|+|+.... ....-..+.+.+.+++
T Consensus 30 V~i~i~~dG~v~~~~i~~sSG~~~~D~av~~ai 62 (85)
T PF13103_consen 30 VRITIDPDGRVISVRIVKSSGNPAFDAAVRRAI 62 (85)
T ss_dssp EEEEE-TTSBEEEEEEEE--S-HHHHHHHHHHH
T ss_pred EEEEECCCCCEEEEEEecCCCCHHHHHHHHHHH
Confidence 4688999999955432 2222345555555544
No 169
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=64.97 E-value=25 Score=27.06 Aligned_cols=79 Identities=18% Similarity=0.299 Sum_probs=47.2
Q ss_pred HHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCccc
Q 033205 9 LSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQW 88 (125)
Q Consensus 9 l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~ 88 (125)
+.+|...|+.+|..|+-.++|-|- ..-.++++.|.+ + +..|++.. ...+..+.-.|+.+..... .
T Consensus 156 IaKLA~~l~~~g~~VllaA~DTFR---AaAiEQL~~w~e-r--~gv~vI~~-~~G~DpAaVafDAi~~Aka--------r 220 (340)
T COG0552 156 IAKLAKYLKQQGKSVLLAAGDTFR---AAAIEQLEVWGE-R--LGVPVISG-KEGADPAAVAFDAIQAAKA--------R 220 (340)
T ss_pred HHHHHHHHHHCCCeEEEEecchHH---HHHHHHHHHHHH-H--hCCeEEcc-CCCCCcHHHHHHHHHHHHH--------c
Confidence 567888899999999999987651 112366777774 5 45566631 2222223345554443221 1
Q ss_pred ceeeEEECCCCcEE
Q 033205 89 NFAKFLVDKNGQVV 102 (125)
Q Consensus 89 ~PttflId~~G~v~ 102 (125)
.---+|||--||.-
T Consensus 221 ~~DvvliDTAGRLh 234 (340)
T COG0552 221 GIDVVLIDTAGRLH 234 (340)
T ss_pred CCCEEEEeCccccc
Confidence 12358999999873
No 170
>PHA02125 thioredoxin-like protein
Probab=64.89 E-value=15 Score=21.11 Aligned_cols=20 Identities=20% Similarity=0.170 Sum_probs=15.5
Q ss_pred CcccceeeEEECCCCcEEEEEcCC
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPT 108 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~ 108 (125)
+|.++||.. +|+.+.+..|.
T Consensus 43 ~v~~~PT~~----~g~~~~~~~G~ 62 (75)
T PHA02125 43 HIRSLPTLV----NTSTLDRFTGV 62 (75)
T ss_pred CCceeCeEE----CCEEEEEEeCC
Confidence 588899754 68888888885
No 171
>TIGR02187 GlrX_arch Glutaredoxin-like domain protein. This family of archaeal proteins contains a C-terminal domain with homology to bacterial and eukaryotic glutaredoxins, including a CPYC motif. There is an N-terminal domain which has even more distant homology to glutaredoxins. The name "glutaredoxin" may be inappropriate in the sense of working in tandem with glutathione and glutathione reductase which may not be present in the archaea. The overall domain structure appears to be related to bacterial alkylhydroperoxide reductases, but the homology may be distant enough that the function of this family is wholly different.
Probab=64.49 E-value=10 Score=26.66 Aligned_cols=32 Identities=6% Similarity=-0.096 Sum_probs=23.2
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKK 120 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ 120 (125)
+|..+||.+| +.+|+. +.|..+.+++...|..
T Consensus 183 ~V~~vPtl~i-~~~~~~---~~G~~~~~~l~~~l~~ 214 (215)
T TIGR02187 183 GVMSVPKIVI-NKGVEE---FVGAYPEEQFLEYILS 214 (215)
T ss_pred CCccCCEEEE-ecCCEE---EECCCCHHHHHHHHHh
Confidence 5888998664 567763 6788888887777654
No 172
>cd02952 TRP14_like Human TRX-related protein 14 (TRP14)-like family; composed of proteins similar to TRP14, a 14kD cytosolic protein that shows disulfide reductase activity in vitro with a different substrate specificity compared with another human cytosolic protein, TRX1. TRP14 catalyzes the reduction of small disulfide-containing peptides but does not reduce disulfides of ribonucleotide reductase, peroxiredoxin and methionine sulfoxide reductase, which are TRX1 substrates. TRP14 also plays a role in tumor necrosis factor (TNF)-alpha signaling pathways, distinct from that of TRX1. Its depletion promoted TNF-alpha induced activation of c-Jun N-terminal kinase and mitogen-activated protein kinases.
Probab=64.37 E-value=23 Score=22.87 Aligned_cols=17 Identities=0% Similarity=-0.173 Sum_probs=12.7
Q ss_pred Ccc-cceeeEEECCCCcE
Q 033205 85 DIQ-WNFAKFLVDKNGQV 101 (125)
Q Consensus 85 ~i~-~~PttflId~~G~v 101 (125)
+|. .+||.++++..+++
T Consensus 86 ~I~~~iPT~~~~~~~~~l 103 (119)
T cd02952 86 KLTTGVPTLLRWKTPQRL 103 (119)
T ss_pred CcccCCCEEEEEcCCcee
Confidence 577 89999999655544
No 173
>PF02799 NMT_C: Myristoyl-CoA:protein N-myristoyltransferase, C-terminal domain; InterPro: IPR022677 Myristoyl-CoA:protein N-myristoyltransferase (2.3.1.97 from EC) (Nmt) [] is the enzyme responsible for transferring a myristate group on the N-terminal glycine of a number of cellular eukaryotics and viral proteins. Nmt is a monomeric protein of about 50 to 60kDa whose sequence appears to be well conserved. The N and C-terminal domains of NMT are structurally similar, each adopting an acyl-CoA N-acyltransferase-like fold. This entry represents the C-terminal region.; GO: 0004379 glycylpeptide N-tetradecanoyltransferase activity; PDB: 2P6G_B 2P6F_F 2P6E_A 1IIC_A 1IID_A 2NMT_A 2WUU_A 1IYL_B 1NMT_B 1IYK_A ....
Probab=63.07 E-value=23 Score=24.96 Aligned_cols=75 Identities=12% Similarity=0.221 Sum_probs=47.5
Q ss_pred CChhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCC
Q 033205 1 MTNSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWG 80 (125)
Q Consensus 1 ~~~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~ 80 (125)
|+++.+|...+|+.+|-.+ +.+.-+- +.++++.|+..+-++-|-.+. -|.+|....
T Consensus 34 m~~~Dv~~v~~Ll~~yl~~-f~l~~~f----------s~eev~Hw~lp~~~Vv~syVv-e~~~~~ITD------------ 89 (190)
T PF02799_consen 34 MEEKDVPQVTKLLNKYLKK-FDLAPVF----------SEEEVKHWFLPRKNVVYSYVV-EDPDGKITD------------ 89 (190)
T ss_dssp --GGGHHHHHHHHHHHHTT-SSEEEE------------HHHHHHHHS-BTTTEEEEEE-EETTSEEEE------------
T ss_pred CchhhHHHHHHHHHHHHHh-ccccccc----------CHHHHHhhcccCCCeEEEEEE-ecCCCceee------------
Confidence 5789999999999999877 6554432 478899888555678776553 244444443
Q ss_pred CCCCCcccceeeEEECCCCcE
Q 033205 81 IFGDDIQWNFAKFLVDKNGQV 101 (125)
Q Consensus 81 ~~g~~i~~~PttflId~~G~v 101 (125)
|. .--.+|+|++=++..+.
T Consensus 90 -f~-SFY~Lpstvi~~~k~~~ 108 (190)
T PF02799_consen 90 -FF-SFYSLPSTVIGNPKHKT 108 (190)
T ss_dssp -EE-EEEEEEEEESSSSSSSE
T ss_pred -EE-EEeecceeecCCCCccc
Confidence 10 12356998877776653
No 174
>KOG2779 consensus N-myristoyl transferase [Lipid transport and metabolism]
Probab=60.96 E-value=22 Score=27.70 Aligned_cols=78 Identities=12% Similarity=0.167 Sum_probs=51.3
Q ss_pred CChhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCC
Q 033205 1 MTNSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWG 80 (125)
Q Consensus 1 ~~~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~ 80 (125)
|..+.||...+|+..|-.+ +++.-+- +.++++.+..-+-++-|-.+. -+++|....
T Consensus 266 me~kDvp~V~~Ll~~yl~q-f~la~~f----------~~eev~Hwf~p~e~VV~syVv-esp~g~ITD------------ 321 (421)
T KOG2779|consen 266 MEEKDVPAVFRLLRNYLKQ-FELAPVF----------DEEEVEHWFLPRENVVYSYVV-ESPNGKITD------------ 321 (421)
T ss_pred ccccchHHHHHHHHHHHHh-eeccccc----------CHHHhHhhcccccceEEEEEE-ECCCCcccc------------
Confidence 4567899999999999876 6654432 356676654345577665442 356776544
Q ss_pred CCCCCcccceeeEEECCCCcEEEE
Q 033205 81 IFGDDIQWNFAKFLVDKNGQVVDR 104 (125)
Q Consensus 81 ~~g~~i~~~PttflId~~G~v~~~ 104 (125)
|+ .--.+|+|++=++.++-++.
T Consensus 322 -F~-SFy~lpsTv~~~~~~ktl~a 343 (421)
T KOG2779|consen 322 -FC-SFYSLPSTVMGNPKYKTLQA 343 (421)
T ss_pred -ee-eEEeccccccCCCCcceeee
Confidence 21 23457999999999876553
No 175
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=59.12 E-value=36 Score=22.75 Aligned_cols=58 Identities=21% Similarity=0.311 Sum_probs=36.4
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCC--cccceeEeeccCCCc
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFK--SEFPIFEKIDVNGEH 66 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~--~~fpv~~~~D~~g~~ 66 (125)
..-.|.++-++|+-. ..|||.+.+-.+ .+....+.+++|.+ +.. ++.||.- .|+..+.
T Consensus 41 ~~~~l~~li~~~~~~-~vVVGlP~~m~g-~~~~~~~~~~~f~~-~L~~r~~lpv~l-~DERltT 100 (141)
T COG0816 41 DFNALLKLVKEYQVD-TVVVGLPLNMDG-TEGPRAELARKFAE-RLKKRFNLPVVL-WDERLST 100 (141)
T ss_pred hHHHHHHHHHHhCCC-EEEEecCcCCCC-CcchhHHHHHHHHH-HHHHhcCCCEEE-EcCccCH
Confidence 345677888898654 679999986322 22223456888883 444 5567764 5775443
No 176
>KOG2961 consensus Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=58.54 E-value=38 Score=23.35 Aligned_cols=51 Identities=14% Similarity=0.228 Sum_probs=32.1
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeE
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~ 58 (125)
.+++|.++++...|+++++.|+.=+. |.-+.|...+..+-+++ .+..||++
T Consensus 64 p~~l~~ie~~~~vygek~i~v~SNsa---G~~~~D~d~s~Ak~le~--k~gIpVlR 114 (190)
T KOG2961|consen 64 PPLLPSIERCKAVYGEKDIAVFSNSA---GLTEYDHDDSKAKALEA--KIGIPVLR 114 (190)
T ss_pred chhHHHHHHHHHHhCcccEEEEecCc---CccccCCchHHHHHHHH--hhCCceEe
Confidence 46899999999999999877765333 22222223333444533 56778885
No 177
>cd03007 PDI_a_ERp29_N PDIa family, endoplasmic reticulum protein 29 (ERp29) subfamily; ERp29 is a ubiquitous ER-resident protein expressed in high levels in secretory cells. It forms homodimers and higher oligomers in vitro and in vivo. It contains a redox inactive TRX-like domain at the N-terminus, which is homologous to the redox active TRX (a) domains of PDI, and a C-terminal helical domain similar to the C-terminal domain of P5. The expression profile of ERp29 suggests a role in secretory protein production distinct from that of PDI. It has also been identified as a member of the thyroglobulin folding complex. The Drosophila homolog, Wind, is the product of windbeutel, an essential gene in the development of dorsal-ventral patterning. Wind is required for correct targeting of Pipe, a Golgi-resident type II transmembrane protein with homology to 2-O-sulfotransferase.
Probab=58.54 E-value=47 Score=21.36 Aligned_cols=32 Identities=16% Similarity=0.119 Sum_probs=17.2
Q ss_pred cceeeEEECCCCc--EEEEEcCC-CChhHHHHHHHH
Q 033205 88 WNFAKFLVDKNGQ--VVDRYYPT-TSLLSLEHDIKK 120 (125)
Q Consensus 88 ~~PttflId~~G~--v~~~~~G~-~~~~~l~~~I~~ 120 (125)
+.||..|+. +|. -...+.|. .+.+.|.+.|.+
T Consensus 80 gyPTl~lF~-~g~~~~~~~Y~G~~r~~~~lv~~v~~ 114 (116)
T cd03007 80 SYPVIYLFH-GGDFENPVPYSGADVTVDALQRFLKG 114 (116)
T ss_pred CCCEEEEEe-CCCcCCCccCCCCcccHHHHHHHHHh
Confidence 456555553 332 12345675 777777766654
No 178
>PRK10329 glutaredoxin-like protein; Provisional
Probab=58.05 E-value=37 Score=20.04 Aligned_cols=65 Identities=5% Similarity=-0.100 Sum_probs=36.1
Q ss_pred HHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHHH
Q 033205 40 DQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIK 119 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~ 119 (125)
..++.+++ +.|++|-.+. .|.+. .....+.. . +...+|+.++ + |. .+ +.-+++.|.+.+-
T Consensus 15 ~~ak~~L~-~~gI~~~~id-i~~~~----~~~~~~~~-----~--g~~~vPvv~i-~--~~---~~-~Gf~~~~l~~~~~ 74 (81)
T PRK10329 15 HATKRAME-SRGFDFEMIN-VDRVP----EAAETLRA-----Q--GFRQLPVVIA-G--DL---SW-SGFRPDMINRLHP 74 (81)
T ss_pred HHHHHHHH-HCCCceEEEE-CCCCH----HHHHHHHH-----c--CCCCcCEEEE-C--CE---EE-ecCCHHHHHHHHH
Confidence 56889995 6799998763 33221 12223332 1 2346798754 3 22 23 2356788877766
Q ss_pred Hhhcc
Q 033205 120 KLLGL 124 (125)
Q Consensus 120 ~ll~~ 124 (125)
.-+..
T Consensus 75 ~~~~~ 79 (81)
T PRK10329 75 APHAA 79 (81)
T ss_pred hhhhh
Confidence 55443
No 179
>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.
Probab=57.52 E-value=47 Score=21.80 Aligned_cols=59 Identities=20% Similarity=0.345 Sum_probs=38.3
Q ss_pred hhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCc---ccceeEeeccCCCc
Q 033205 4 SNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKS---EFPIFEKIDVNGEH 66 (125)
Q Consensus 4 ~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~---~fpv~~~~D~~g~~ 66 (125)
.-+..|.++-++|+-. ..|||.+.+..+ .+......+++|++ +..- ..||.. .|+..+.
T Consensus 38 ~~~~~l~~li~~~~i~-~iVvGlP~~~~G-~~~~~~~~v~~f~~-~L~~~~~~ipV~~-~DEr~TT 99 (135)
T PF03652_consen 38 KDIEELKKLIEEYQID-GIVVGLPLNMDG-SESEQARRVRKFAE-ELKKRFPGIPVIL-VDERLTT 99 (135)
T ss_dssp CCHHHHHHHHHHCCEC-EEEEEEEBBCTS-SC-CCHHHHHHHHH-HHHHHH-TSEEEE-EECSCSH
T ss_pred hHHHHHHHHHHHhCCC-EEEEeCCcccCC-CccHHHHHHHHHHH-HHHHhcCCCcEEE-ECCChhH
Confidence 3456788999999865 568899986433 33345677888873 4333 447765 6876543
No 180
>PF07411 DUF1508: Domain of unknown function (DUF1508); InterPro: IPR010879 This domain is found in a family of proteins, which have no known function. Members of this family are often found as tandem repeats and in some cases represent the whole protein.; PDB: 3BID_H 2K49_A 2K8E_A 2K7I_A.
Probab=57.19 E-value=25 Score=18.85 Aligned_cols=31 Identities=23% Similarity=0.146 Sum_probs=23.5
Q ss_pred eEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 92 KFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 92 tflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
-.|.+.+|+|+..-.+..+....++.|+.+.
T Consensus 8 f~L~a~ng~viasse~Y~sk~~a~~~I~~Vk 38 (49)
T PF07411_consen 8 FRLKAGNGEVIASSEGYSSKADAEKGIESVK 38 (49)
T ss_dssp EEEE-TTS-EEEEBEEBSSHHHHHHHHHHHH
T ss_pred EEEEcCCCCEEEecCCcCCHHHHHHHHHHHH
Confidence 3688999999998888888888887777653
No 181
>TIGR01130 ER_PDI_fam protein disulfide isomerases, eukaryotic. Members of this family have at least two protein-disulfide domains, each similar to thioredoxin but with the redox-active disulfide in the motif PWCGHCK, and an ER retention signal at the extreme C-terminus (KDEL, HDEL, and similar motifs).
Probab=57.19 E-value=20 Score=27.66 Aligned_cols=38 Identities=13% Similarity=-0.009 Sum_probs=29.4
Q ss_pred CcccceeeEEECCCCcE-EEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQV-VDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v-~~~~~G~~~~~~l~~~I~~ll 122 (125)
.+..+||.++..+.+++ ...+.|..+.+.|.+.|.+..
T Consensus 416 ~i~~~Pt~~~~~~~~~~~~~~~~g~~~~~~l~~~l~~~~ 454 (462)
T TIGR01130 416 EVEGFPTIKFVPAGKKSEPVPYDGDRTLEDFSKFIAKHA 454 (462)
T ss_pred CccccCEEEEEeCCCCcCceEecCcCCHHHHHHHHHhcC
Confidence 57788999999776663 456778888888888887754
No 182
>COG1651 DsbG Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=53.25 E-value=20 Score=25.45 Aligned_cols=32 Identities=16% Similarity=-0.014 Sum_probs=24.0
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
++.++||.|+-|. .+.|..+.++|.+.|...+
T Consensus 212 gv~gTPt~~v~~~------~~~g~~~~~~l~~~i~~~~ 243 (244)
T COG1651 212 GVNGTPTFIVNGK------LVPGLPDLDELKAIIDEAL 243 (244)
T ss_pred CCCcCCeEEECCe------eecCCCCHHHHHHHHHHhh
Confidence 4788897655443 5668888899999988765
No 183
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=52.60 E-value=22 Score=27.38 Aligned_cols=39 Identities=15% Similarity=0.202 Sum_probs=33.0
Q ss_pred CcccceeeEEECC-CCcEEEEEcCCCChhHHHHHHHHhhc
Q 033205 85 DIQWNFAKFLVDK-NGQVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 85 ~i~~~PttflId~-~G~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
.+..+|.-++||| .|+-+.++.|.+.++.+-..+.+.+.
T Consensus 151 ~~~~~P~i~iiDp~Tge~v~~ws~vi~~~~fl~~l~~Fi~ 190 (356)
T KOG1364|consen 151 HISSLPHIAIIDPITGERVKRWSGVIEPEQFLSDLNEFID 190 (356)
T ss_pred eccCCceEEEECCchhhhhhhhccccCHHHHHHHHHHHHh
Confidence 6888999999995 89999999999998888777776654
No 184
>cd03063 TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH beta subunit contains a NADH:ubiquinone oxidoreductase (Nuo) F domain C-terminal to a Fd-like domain without the active site cysteines. The absence of conserved metal-binding residues in the putative active site suggests that members of this subfamily have lost the ability to bind iron-sulfur clusters in the N-terminal Fd-like domain. The C-terminal NuoF domain is a component of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. NuoF contains one [4Fe-4S] c
Probab=51.87 E-value=28 Score=21.49 Aligned_cols=32 Identities=6% Similarity=-0.178 Sum_probs=23.8
Q ss_pred eeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 90 FAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 90 PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
|.--+.+|+|++.+ +.+++++..+.+++.+.+
T Consensus 49 PlV~V~~p~g~v~Y---~~V~~edv~~Iv~~~~~~ 80 (92)
T cd03063 49 PLVEVETPGGRVAY---GPVTPADVASLLDAGALE 80 (92)
T ss_pred CEEEEEeCCCcEEE---EeCCHHHHHHHHHHHhhc
Confidence 77666679987544 568999998888876543
No 185
>COG3411 Ferredoxin [Energy production and conversion]
Probab=51.59 E-value=32 Score=19.87 Aligned_cols=29 Identities=14% Similarity=0.137 Sum_probs=22.2
Q ss_pred eeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhc
Q 033205 90 FAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 90 PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
|+ +++-++| +|.+.+++++.++.+++.|.
T Consensus 18 Pv-l~vYpeg----vWY~~V~p~~a~rIv~~hl~ 46 (64)
T COG3411 18 PV-LVVYPEG----VWYTRVDPEDARRIVQSHLL 46 (64)
T ss_pred CE-EEEecCC----eeEeccCHHHHHHHHHHHHh
Confidence 65 4455888 56677999999998888765
No 186
>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=51.14 E-value=31 Score=18.94 Aligned_cols=17 Identities=24% Similarity=0.067 Sum_probs=10.4
Q ss_pred CcccceeeEEECCCCcEEEE
Q 033205 85 DIQWNFAKFLVDKNGQVVDR 104 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~ 104 (125)
++..+|+.+ | +|+++..
T Consensus 49 ~i~~vPti~-i--~~~~~~~ 65 (67)
T cd02973 49 GVMSVPAIV-I--NGKVEFV 65 (67)
T ss_pred CCcccCEEE-E--CCEEEEe
Confidence 467789854 4 4566544
No 187
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=50.20 E-value=18 Score=18.24 Aligned_cols=19 Identities=11% Similarity=0.184 Sum_probs=15.1
Q ss_pred CHHHHHHHHHhhCCccccee
Q 033205 38 SNDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 38 ~~~~~~~f~~~~~~~~fpv~ 57 (125)
+.++++.|++ .+|+.+|--
T Consensus 5 s~~~L~~wL~-~~gi~~~~~ 23 (38)
T PF10281_consen 5 SDSDLKSWLK-SHGIPVPKS 23 (38)
T ss_pred CHHHHHHHHH-HcCCCCCCC
Confidence 5788999995 789888753
No 188
>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=49.75 E-value=95 Score=22.29 Aligned_cols=34 Identities=15% Similarity=0.272 Sum_probs=27.2
Q ss_pred ccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEe
Q 033205 17 KDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEK 59 (125)
Q Consensus 17 ~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~ 59 (125)
..+++.++.|+- ...+++..|.+ +.|-+||.++.
T Consensus 103 ~~rd~tfa~vSr--------aP~~~i~afk~-rmGW~~pw~Ss 136 (211)
T PF05988_consen 103 HARDTTFAVVSR--------APLEKIEAFKR-RMGWTFPWYSS 136 (211)
T ss_pred HhCCceEEEEeC--------CCHHHHHHHHH-hcCCCceEEEc
Confidence 456788888883 45899999995 78999999953
No 189
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=49.58 E-value=48 Score=19.37 Aligned_cols=17 Identities=0% Similarity=0.030 Sum_probs=11.2
Q ss_pred HHHHHHHHhh-----CCccccee
Q 033205 40 DQIADFVCTR-----FKSEFPIF 57 (125)
Q Consensus 40 ~~~~~f~~~~-----~~~~fpv~ 57 (125)
..++++++ + .+++|-.+
T Consensus 15 ~~a~~~L~-~l~~~~~~i~~~~i 36 (85)
T PRK11200 15 VRAKELAE-KLSEERDDFDYRYV 36 (85)
T ss_pred HHHHHHHH-hhcccccCCcEEEE
Confidence 56778884 4 46777655
No 190
>TIGR02200 GlrX_actino Glutaredoxin-like protein. This family of glutaredoxin-like proteins is limited to the Actinobacteria and contains the conserved CxxC motif.
Probab=48.83 E-value=47 Score=18.47 Aligned_cols=62 Identities=8% Similarity=0.071 Sum_probs=32.1
Q ss_pred HHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 40 DQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
..++.++. +.++.|..+. .|.+. .....+..+. + ++..+|+ +++ .+|+++.. .+..++.+.+
T Consensus 14 ~~~~~~L~-~~~~~~~~id-i~~~~-~~~~~~~~~~------~--~~~~vP~-i~~-~~g~~l~~----~~~~~~~~~l 75 (77)
T TIGR02200 14 AQLMRTLD-KLGAAYEWVD-IEEDE-GAADRVVSVN------N--GNMTVPT-VKF-ADGSFLTN----PSAAQVKAKL 75 (77)
T ss_pred HHHHHHHH-HcCCceEEEe-CcCCH-hHHHHHHHHh------C--CCceeCE-EEE-CCCeEecC----CCHHHHHHHh
Confidence 56788994 6799987763 33221 1111111110 1 3566797 444 47766543 3444555544
No 191
>COG4232 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]
Probab=48.55 E-value=48 Score=27.36 Aligned_cols=37 Identities=3% Similarity=-0.063 Sum_probs=31.7
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
++-+.|+.++++++|.-.....|.++.+.+.+.|++.
T Consensus 531 ~~~G~P~~~ff~~~g~e~~~l~gf~~a~~~~~~l~~~ 567 (569)
T COG4232 531 GVFGVPTYLFFGPQGSEPEILTGFLTADAFLEHLERA 567 (569)
T ss_pred CCCCCCEEEEECCCCCcCcCCcceecHHHHHHHHHHh
Confidence 3667899999999998777788999999999888765
No 192
>TIGR03027 pepcterm_export putative polysaccharide export protein, PEP-CTERM sytem-associated. This protein family belongs to the larger set of polysaccharide biosynthesis/export proteins described by Pfam model pfam02563. Members of this family are variable in either containing of lacking a 78-residue insert, but appear to fall within a single clade, nevertheless, where the regions in which the gene is found encode components of the PEP-CTERM/EpsH proposed exosortase protein sorting system.
Probab=48.50 E-value=24 Score=23.85 Aligned_cols=34 Identities=18% Similarity=0.239 Sum_probs=25.9
Q ss_pred eeeEEECCCCcEEEEEcCC-----CChhHHHHHHHHhhc
Q 033205 90 FAKFLVDKNGQVVDRYYPT-----TSLLSLEHDIKKLLG 123 (125)
Q Consensus 90 PttflId~~G~v~~~~~G~-----~~~~~l~~~I~~ll~ 123 (125)
-..+.||++|.|--=+.|. .+.+++++.|++.|.
T Consensus 20 ~~~~~V~~dG~I~lP~iG~v~v~G~T~~e~~~~I~~~l~ 58 (165)
T TIGR03027 20 SGSVPVRPDGKITTPLVGDLVASGKTPTQLARDIEEKLA 58 (165)
T ss_pred ccceEECCCCeEeecccCeEEECCCCHHHHHHHHHHHHH
Confidence 4578999999997766554 567788888887764
No 193
>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=48.34 E-value=10 Score=22.00 Aligned_cols=15 Identities=40% Similarity=0.718 Sum_probs=12.1
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
..||+|++|+++.+-
T Consensus 55 ~~~ivd~~G~ii~hp 69 (81)
T PF02743_consen 55 YAFIVDKNGTIIAHP 69 (81)
T ss_dssp EEEEEETTSBBCE-S
T ss_pred EEEEEECCCCEEEeC
Confidence 579999999998863
No 194
>COG0499 SAM1 S-adenosylhomocysteine hydrolase [Coenzyme metabolism]
Probab=47.92 E-value=1.4e+02 Score=23.62 Aligned_cols=83 Identities=18% Similarity=0.486 Sum_probs=48.2
Q ss_pred hhhHHHHHHHHHHhccC----------------------------CeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCccc
Q 033205 3 NSNYIELSQLYDKYKDQ----------------------------GLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEF 54 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~----------------------------g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~f 54 (125)
..|||.|.++.++|+.. |-+|.-.+||.|+ +.+++.+.+..++ ..
T Consensus 24 e~~MP~L~~iR~~f~~~kPlkG~~i~~~lH~t~kTAvLietL~a~GAeV~~a~cNplS-----TqD~vaaAl~~~~--Gi 96 (420)
T COG0499 24 EREMPVLMAIREEFAEEKPLKGARIAGCLHMTAKTAVLIETLKAGGAEVRWASCNPLS-----TQDDVAAALAAKE--GI 96 (420)
T ss_pred HhhChHHHHHHHHHhhcCCCCccEEEEEEeehHHHHHHHHHHHhcCceEEEecCCCCc-----ccHHHHHHHhhcc--Cc
Confidence 57899999888888643 4455556777653 3455666664333 45
Q ss_pred ceeEeeccCCCccchHHHHHHhCCCCCCCCCcccceeeEEECCCCcEEEE
Q 033205 55 PIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQWNFAKFLVDKNGQVVDR 104 (125)
Q Consensus 55 pv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~~PttflId~~G~v~~~ 104 (125)
||+.. .|.....-|..+.+ .+ .|-| .++||--|.....
T Consensus 97 pVfA~---kGe~~eeY~~~~~~----vl----~~~p-~iiiDDG~D~~~~ 134 (420)
T COG0499 97 PVFAW---KGETLEEYYEAIDQ----VL----DWEP-NIIIDDGGDLTKL 134 (420)
T ss_pred eEEEE---cCCCHHHHHHHHHH----Hh----CcCC-CEEEecCcceeee
Confidence 66642 45555543333332 11 3334 5778877766554
No 195
>PF08806 Sep15_SelM: Sep15/SelM redox domain; InterPro: IPR014912 Sep15 and SelM are eukaryotic selenoproteins that have a thioredoxin-like domain and a surface accessible active site redox motif []. This suggests that they function as thiol-disulphide isomerases involved in disulphide bond formation in the endoplasmic reticulum []. ; PDB: 2A4H_A 2A2P_A.
Probab=47.75 E-value=31 Score=20.54 Aligned_cols=33 Identities=18% Similarity=0.195 Sum_probs=19.7
Q ss_pred ceeeEEECCCCcEEEEE-cCCCChhHHHHHHHHh
Q 033205 89 NFAKFLVDKNGQVVDRY-YPTTSLLSLEHDIKKL 121 (125)
Q Consensus 89 ~PttflId~~G~v~~~~-~G~~~~~~l~~~I~~l 121 (125)
.|+..|.|.+|+++.+. ....+.+++++.+.+-
T Consensus 42 ~P~L~l~d~~g~~~E~i~i~~w~~d~i~efL~~k 75 (78)
T PF08806_consen 42 PPELVLLDEDGEEVERINIEKWKTDEIEEFLNEK 75 (78)
T ss_dssp --EEEEE-SSS--SEEEE-SSSSHCHHHHHHHHH
T ss_pred CCEEEEEcCCCCEEEEEEcccCCHHHHHHHHHHh
Confidence 39999999999987765 3445667777666543
No 196
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=46.77 E-value=53 Score=18.51 Aligned_cols=58 Identities=12% Similarity=0.067 Sum_probs=31.5
Q ss_pred HHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCcccceeeEEECCCCcEEEEEcCCCChhHHHH
Q 033205 40 DQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEH 116 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~~PttflId~~G~v~~~~~G~~~~~~l~~ 116 (125)
..++++++ +++++|.... ++.+. .....+.. . +...+|..+ +| |.. .+ |..+++.|.+
T Consensus 13 ~~ak~~L~-~~~i~~~~~d-i~~~~----~~~~~~~~-----~--g~~~vP~v~-~~--g~~--~~-~G~~~~~~~~ 70 (72)
T TIGR02194 13 KMTKKALE-EHGIAFEEIN-IDEQP----EAIDYVKA-----Q--GFRQVPVIV-AD--GDL--SW-SGFRPDKLKA 70 (72)
T ss_pred HHHHHHHH-HCCCceEEEE-CCCCH----HHHHHHHH-----c--CCcccCEEE-EC--CCc--EE-eccCHHHHHh
Confidence 67888995 6799998763 33222 13334433 1 234679854 53 321 23 4456666653
No 197
>PF14062 DUF4253: Domain of unknown function (DUF4253)
Probab=46.68 E-value=43 Score=21.27 Aligned_cols=50 Identities=14% Similarity=0.234 Sum_probs=29.6
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeCCCC--CCCC-CCCHHHHHHHHHhhCCccccee
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPCNQF--GEEE-PGSNDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~~~~--~~~e-~~~~~~~~~f~~~~~~~~fpv~ 57 (125)
-+-.|+..+++| |++++++..|.. .... +.+.+++.+++.++|.+--.++
T Consensus 32 ~~a~lr~W~er~---ga~i~~i~~d~le~~v~~pP~~~~ea~~lA~E~y~fCpD~v 84 (111)
T PF14062_consen 32 IIAVLRYWEERY---GAEIVGIGFDTLELSVARPPQTPEEAEALAAEHYAFCPDIV 84 (111)
T ss_pred HHHHHHHHHHHh---CEEEEEEECCEEEEEECCCCCCHHHHHHHHHHHHHhCccHH
Confidence 345567777777 478888876521 1112 2356888999876544443443
No 198
>TIGR03143 AhpF_homolog putative alkyl hydroperoxide reductase F subunit. This family of thioredoxin reductase homologs is found adjacent to alkylhydroperoxide reductase C subunit predominantly in cases where there is only one C subunit in the genome and that genome is lacking the F subunit partner (also a thioredcxin reductase homolog) that is usually found (TIGR03140).
Probab=46.38 E-value=51 Score=26.77 Aligned_cols=73 Identities=21% Similarity=0.251 Sum_probs=39.0
Q ss_pred eEE-EEeeCCCCCCCCCCCHHHHHHHHHhhC-CcccceeEeeccCCCccchHHHHHHhCCCCCCCCCcccceeeEEECCC
Q 033205 21 LEI-LAFPCNQFGEEEPGSNDQIADFVCTRF-KSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQWNFAKFLVDKN 98 (125)
Q Consensus 21 ~~v-vgv~~~~~~~~e~~~~~~~~~f~~~~~-~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~~PttflId~~ 98 (125)
+.| ++-+|.. =+.....+..++. .. +++.-++ |. .... -+.. .| +|.++|++|+ +
T Consensus 480 i~v~~~~~C~~----Cp~~~~~~~~~~~-~~~~i~~~~i---~~--~~~~----~~~~----~~--~v~~vP~~~i---~ 536 (555)
T TIGR03143 480 IKIGVSLSCTL----CPDVVLAAQRIAS-LNPNVEAEMI---DV--SHFP----DLKD----EY--GIMSVPAIVV---D 536 (555)
T ss_pred EEEEECCCCCC----cHHHHHHHHHHHH-hCCCceEEEE---EC--cccH----HHHH----hC--CceecCEEEE---C
Confidence 555 6777741 1112234455664 44 5676665 32 2111 1221 15 5889998775 4
Q ss_pred CcEEEEEcCCCChhHHHHHH
Q 033205 99 GQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 99 G~v~~~~~G~~~~~~l~~~I 118 (125)
|+++ +.|..+.+++...|
T Consensus 537 ~~~~--~~G~~~~~~~~~~~ 554 (555)
T TIGR03143 537 DQQV--YFGKKTIEEMLELI 554 (555)
T ss_pred CEEE--EeeCCCHHHHHHhh
Confidence 6655 44777777766543
No 199
>COG1393 ArsC Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]
Probab=45.84 E-value=25 Score=22.58 Aligned_cols=19 Identities=5% Similarity=0.163 Sum_probs=9.9
Q ss_pred CHHHHHHHHHhhCCccccee
Q 033205 38 SNDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 38 ~~~~~~~f~~~~~~~~fpv~ 57 (125)
+-..+++|++ ++|+.|-+.
T Consensus 13 t~rka~~~L~-~~gi~~~~~ 31 (117)
T COG1393 13 TCRKALAWLE-EHGIEYTFI 31 (117)
T ss_pred HHHHHHHHHH-HcCCCcEEE
Confidence 3455556663 456665443
No 200
>TIGR02180 GRX_euk Glutaredoxin. This model represents eukaryotic glutaredoxins and includes sequences from fungi, plants and metazoans as well as viruses.
Probab=44.89 E-value=58 Score=18.46 Aligned_cols=47 Identities=11% Similarity=0.220 Sum_probs=24.7
Q ss_pred HHHHHHHHhhCCcc--cceeEeeccCCCccchHHHHHHhCCCCCCCCCcccceeeEEEC
Q 033205 40 DQIADFVCTRFKSE--FPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQWNFAKFLVD 96 (125)
Q Consensus 40 ~~~~~f~~~~~~~~--fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~~PttflId 96 (125)
..++.++. +++++ |.++. .|.... ...+.+++.+. + ++..+|+.| +|
T Consensus 13 ~~~~~~L~-~~~i~~~~~~~~-v~~~~~-~~~~~~~l~~~----~--g~~~vP~v~-i~ 61 (84)
T TIGR02180 13 KKAKEILA-KLNVKPAYEVVE-LDQLSN-GSEIQDYLEEI----T--GQRTVPNIF-IN 61 (84)
T ss_pred HHHHHHHH-HcCCCCCCEEEE-eeCCCC-hHHHHHHHHHH----h--CCCCCCeEE-EC
Confidence 56778884 57787 77764 443321 12223334332 2 355679865 44
No 201
>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=44.87 E-value=30 Score=21.08 Aligned_cols=19 Identities=11% Similarity=0.275 Sum_probs=15.8
Q ss_pred eeEEECCCCcEEEEEcCCC
Q 033205 91 AKFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~~ 109 (125)
..++.||+|..+..+.|..
T Consensus 93 ~~~~~DP~Gn~iel~~~~~ 111 (112)
T cd08344 93 GVWFRDPDGNLLQVKVAEK 111 (112)
T ss_pred EEEEECCCCCEEEEecCCC
Confidence 3689999999999887753
No 202
>TIGR03164 UHCUDC OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model.
Probab=44.26 E-value=80 Score=21.36 Aligned_cols=24 Identities=13% Similarity=0.560 Sum_probs=17.1
Q ss_pred ChhhHHHHHHHHHHhccC-CeEEEE
Q 033205 2 TNSNYIELSQLYDKYKDQ-GLEILA 25 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~-g~~vvg 25 (125)
|..+.-.|.+|.+.|.++ |+.+|-
T Consensus 89 ~~~~~~~L~~lN~~Y~~kFGfpFvi 113 (157)
T TIGR03164 89 SQEEFARFTRLNNAYRARFGFPFIM 113 (157)
T ss_pred CHHHHHHHHHHHHHHHHHCCCeeEE
Confidence 566777888888888776 666543
No 203
>PRK06740 histidinol-phosphatase; Validated
Probab=43.86 E-value=84 Score=23.91 Aligned_cols=46 Identities=11% Similarity=0.312 Sum_probs=31.2
Q ss_pred HHHHHHHHhccCCeE-EEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeE
Q 033205 8 ELSQLYDKYKDQGLE-ILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 8 ~l~~l~~~y~~~g~~-vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~ 58 (125)
++++|.++|++.++. .+|+-++-+ ++....++.++ +.+.+.|-+.+
T Consensus 127 ei~~LkekY~~~~I~Il~GlE~dy~----~~~~~~~~~~l-~~~~~DyvIgS 173 (331)
T PRK06740 127 AIEEAKERWSKRGVTLKLGIEADYF----IGGEQELQSLL-ALGDFDYVIGS 173 (331)
T ss_pred HHHHHHHHhccCCCeEEEEEEeccC----CCcHHHHHHHH-hcCCCCEEEEe
Confidence 457788888754465 469888743 23456778888 46788887764
No 204
>TIGR01856 hisJ_fam histidinol phosphate phosphatase HisJ family. This model represents the histidinol phosphate phosphatase HisJ of Bacillus subtilis, and related proteins from a number of species within a larger family of phosphatases in the PHP hydrolase family. HisJ catalyzes the penultimate step of histidine biosynthesis but shows no homology to the functionally equivalent sequence in E. coli, a domain of the bifunctional HisB protein. Note, however, that many species have two members and that Clostridium perfringens, predicted not to make histidine, has five members of this family; this family is designated subfamily rather than equivalog to indicate that members may not all act as HisJ.
Probab=43.01 E-value=1.2e+02 Score=21.86 Aligned_cols=45 Identities=27% Similarity=0.566 Sum_probs=32.1
Q ss_pred HHHHHHHHhccCCeE-EEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeE
Q 033205 8 ELSQLYDKYKDQGLE-ILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 8 ~l~~l~~~y~~~g~~-vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~ 58 (125)
+++++.++|+++ +. .+|+-++.+ ++..+..++++ +++++.|-+.+
T Consensus 64 ~i~~l~~~y~~~-i~I~~GiE~~~~----~~~~~~~~~~l-~~~~~D~vigS 109 (253)
T TIGR01856 64 EINRLKKEYADK-LKILIGLEVDYI----PGFEDFTKDFL-DEYGLDFVIGS 109 (253)
T ss_pred HHHHHHHHhhCC-CeEEEEEEeccc----cchHHHHHHHH-HHCCCCeEEEE
Confidence 366778888865 54 569888743 34567788888 47788888875
No 205
>TIGR03180 UraD_2 OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model. This model is a separate (but related) clade from that represented by TIGR3164. This model places a second homolog in streptomyces species which (are not in the vicinity of other urate catabolism associated genes) below the trusted cutoff.
Probab=42.73 E-value=90 Score=21.15 Aligned_cols=23 Identities=17% Similarity=0.234 Sum_probs=14.5
Q ss_pred ChhhHHHHHHHHHHhccC-CeEEE
Q 033205 2 TNSNYIELSQLYDKYKDQ-GLEIL 24 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~-g~~vv 24 (125)
|..+.-.|.++.+.|.++ |+.+|
T Consensus 89 ~~~~~~~L~~lN~~Y~~kFGfpFi 112 (158)
T TIGR03180 89 DEETRAALLEGNAAYEEKFGRIFL 112 (158)
T ss_pred CHHHHHHHHHHHHHHHHHCCCeEE
Confidence 456666777777777666 55443
No 206
>PF11453 DUF2950: Protein of unknown function (DUF2950); InterPro: IPR021556 This is a bacterial family of uncharacterised proteins.
Probab=42.12 E-value=32 Score=25.62 Aligned_cols=21 Identities=24% Similarity=0.472 Sum_probs=18.3
Q ss_pred eeEEECCCCcEEEEEcCCCCh
Q 033205 91 AKFLVDKNGQVVDRYYPTTSL 111 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~~~~ 111 (125)
.||+||.+|+|..+-.|.-+.
T Consensus 233 mtF~Vn~~g~VYqkDLG~~t~ 253 (271)
T PF11453_consen 233 MTFMVNQDGQVYQKDLGPDTA 253 (271)
T ss_pred EEEEECCCCcEEecccCcchH
Confidence 599999999999998887653
No 207
>cd03024 DsbA_FrnE DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins.
Probab=42.02 E-value=35 Score=23.20 Aligned_cols=29 Identities=10% Similarity=0.033 Sum_probs=19.9
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I 118 (125)
+|.++|| |+|| |+. ...|..+.+.+.+.|
T Consensus 172 gv~G~Pt-~vv~--g~~--~~~G~~~~~~~~~~i 200 (201)
T cd03024 172 GISGVPF-FVFN--GKY--AVSGAQPPEVFLQAL 200 (201)
T ss_pred CCCcCCE-EEEC--CeE--eecCCCCHHHHHHHh
Confidence 4778896 5554 443 356889888887766
No 208
>PRK13798 putative OHCU decarboxylase; Provisional
Probab=41.09 E-value=99 Score=21.15 Aligned_cols=23 Identities=17% Similarity=0.322 Sum_probs=16.1
Q ss_pred ChhhHHHHHHHHHHhccC-CeEEE
Q 033205 2 TNSNYIELSQLYDKYKDQ-GLEIL 24 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~-g~~vv 24 (125)
|..+.-.|.++.+.|.+| |+.+|
T Consensus 94 ~~~~~~~l~~lN~~Y~~kFGfpFi 117 (166)
T PRK13798 94 DEAVMAALAAGNRAYEEKFGFVFL 117 (166)
T ss_pred CHHHHHHHHHHHHHHHHhCCCeEE
Confidence 566777777777777766 66544
No 209
>COG2221 DsrA Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]
Probab=40.99 E-value=44 Score=25.47 Aligned_cols=39 Identities=23% Similarity=0.430 Sum_probs=28.6
Q ss_pred CChhhHHHHHHHHHHhcc--------CCeEEEEeeCCCCCCCCCCCHHHHHHHHH
Q 033205 1 MTNSNYIELSQLYDKYKD--------QGLEILAFPCNQFGEEEPGSNDQIADFVC 47 (125)
Q Consensus 1 ~~~~e~p~l~~l~~~y~~--------~g~~vvgv~~~~~~~~e~~~~~~~~~f~~ 47 (125)
|+...+-.+..+.++|++ +|++|.+|+. +..+++.+-++
T Consensus 42 l~~e~Lr~i~diAekyG~G~i~iT~rqg~ei~~i~~--------e~~~~v~~~L~ 88 (317)
T COG2221 42 LSAETLRKIADIAEKYGDGLIHITSRQGLEIPGISP--------EDADDVVEELR 88 (317)
T ss_pred cCHHHHHHHHHHHHHhCCCeEEEEecCceEeccCCH--------HHHHHHHHHHH
Confidence 456778889999999997 5788888763 23566666673
No 210
>PRK10200 putative racemase; Provisional
Probab=40.70 E-value=60 Score=23.22 Aligned_cols=44 Identities=16% Similarity=0.196 Sum_probs=31.7
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeE
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~ 58 (125)
-.|.|.+..+...+.|..+|.|+|| |.-.+..-+++ .++.|++.
T Consensus 60 ~~~~l~~~~~~L~~~g~~~iviaCN--------Tah~~~~~l~~--~~~iPii~ 103 (230)
T PRK10200 60 TGDILAEAALGLQRAGAEGIVLCTN--------TMHKVADAIES--RCSLPFLH 103 (230)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCc--------hHHHHHHHHHH--hCCCCEee
Confidence 4678888888888999999999997 34334455543 45678874
No 211
>PF14903 WG_beta_rep: WG containing repeat
Probab=40.51 E-value=20 Score=17.05 Aligned_cols=11 Identities=45% Similarity=0.749 Sum_probs=8.8
Q ss_pred EECCCCcEEEE
Q 033205 94 LVDKNGQVVDR 104 (125)
Q Consensus 94 lId~~G~v~~~ 104 (125)
+||.+|+++--
T Consensus 3 ~id~~G~~vi~ 13 (35)
T PF14903_consen 3 YIDKNGKIVIP 13 (35)
T ss_pred EEeCCCCEEEE
Confidence 68999998763
No 212
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=40.42 E-value=1e+02 Score=22.59 Aligned_cols=66 Identities=17% Similarity=0.323 Sum_probs=37.1
Q ss_pred HHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCcccceee
Q 033205 13 YDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQWNFAK 92 (125)
Q Consensus 13 ~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~~Ptt 92 (125)
|+-|+..|+.||.-.+.+ +..+ +..+++.... ++| |....+ | =..
T Consensus 87 YEGygP~GvaiiVe~LTD--N~NR-Tas~vR~~F~-K~G------------G~lg~~-------------G------SV~ 131 (241)
T COG0217 87 YEGYGPGGVAIIVEALTD--NRNR-TASNVRSAFN-KNG------------GNLGEP-------------G------SVS 131 (241)
T ss_pred EEeECCCceEEEEEeccC--Ccch-hHHHHHHHHH-hcC------------CccCCC-------------c------eEE
Confidence 566788888887766542 1112 4566776552 333 221110 0 236
Q ss_pred EEECCCCcEEEEEcCCCChhHH
Q 033205 93 FLVDKNGQVVDRYYPTTSLLSL 114 (125)
Q Consensus 93 flId~~G~v~~~~~G~~~~~~l 114 (125)
|++|+.|.|...... .+.++|
T Consensus 132 ~mF~~kGvi~~~~~~-~~ed~l 152 (241)
T COG0217 132 YMFDRKGVIVVEKNE-IDEDEL 152 (241)
T ss_pred EEEeccEEEEECCCC-CCHHHH
Confidence 889999988776533 444443
No 213
>TIGR03028 EpsE polysaccharide export protein EpsE. Sequences in this family of proteins are members of a polysaccharide export protein family (pfam02563) which includes the wza protein from E.coli. This family of proteins are homologous to the EpsE protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=40.11 E-value=53 Score=23.61 Aligned_cols=34 Identities=15% Similarity=0.110 Sum_probs=26.3
Q ss_pred eeeEEECCCCcEEEEEcCC-----CChhHHHHHHHHhhc
Q 033205 90 FAKFLVDKNGQVVDRYYPT-----TSLLSLEHDIKKLLG 123 (125)
Q Consensus 90 PttflId~~G~v~~~~~G~-----~~~~~l~~~I~~ll~ 123 (125)
-..+.||++|.|-.=+.|. .+.+++++.|++.|.
T Consensus 21 ~~~~~V~~dG~I~~P~iG~v~v~G~T~~e~~~~I~~~l~ 59 (239)
T TIGR03028 21 TTDTRVSESGSITFPLIGEVKLGGETPAAAERKIASRLS 59 (239)
T ss_pred ceeEEECCCCeEEeeecceEEECCCCHHHHHHHHHHHHh
Confidence 3468999999998766664 467788888887764
No 214
>cd02990 UAS_FAF1 UAS family, FAS-associated factor 1 (FAF1) subfamily; FAF1 contains a UAS domain of unknown function N-terminal to a ubiquitin-associated UBX domain. FAF1 also contains ubiquitin-associated UBA and nuclear targeting domains, N-terminal to the UAS 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. It is widely expressed in adult and embryonic tissues, and in tumor cell lines, and is localized not only in the cytoplasm where it interacts with Fas, but also in the nucleus. FAF1 contains phosphorylation sites for protein kinase CK2 within the nuclear targeting domain. Phosphorylation influences nuclear localization of FAF1 but does not affect its potentiation of Fas-induced apoptosis. Other functions have also been attributed to FAF1. It inhibits nuclear factor-kB (NF-kB) by interfering with the nuclear
Probab=40.11 E-value=81 Score=20.90 Aligned_cols=37 Identities=11% Similarity=0.023 Sum_probs=28.9
Q ss_pred cccceeeEEECCCC---cEEEEEcCCCChhHHHHHHHHhh
Q 033205 86 IQWNFAKFLVDKNG---QVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 86 i~~~PttflId~~G---~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
....|..-+|-+.. .|+.+..|.++++++...+...+
T Consensus 94 ~~~fP~~avI~~~~~~~~vl~~i~G~~~~~ell~~L~~~v 133 (136)
T cd02990 94 TDQLPAILIIMGKRSSNEVLNVIQGNTGVDELLMRLIEAM 133 (136)
T ss_pred cCCCCeEEEEEecCCceEEEEEEECCCCHHHHHHHHHHHH
Confidence 45679888887655 78889999999999877776553
No 215
>KOG0190 consensus Protein disulfide isomerase (prolyl 4-hydroxylase beta subunit) [Posttranslational modification, protein turnover, chaperones]
Probab=40.07 E-value=37 Score=27.49 Aligned_cols=36 Identities=14% Similarity=0.136 Sum_probs=28.2
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHHHHHh
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
.|++.||.-++ ++|+....+.|..+.+.+-..+++-
T Consensus 96 ~v~gyPTlkiF-rnG~~~~~Y~G~r~adgIv~wl~kq 131 (493)
T KOG0190|consen 96 EVRGYPTLKIF-RNGRSAQDYNGPREADGIVKWLKKQ 131 (493)
T ss_pred cCCCCCeEEEE-ecCCcceeccCcccHHHHHHHHHhc
Confidence 58899986654 9999888888988888877766653
No 216
>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=39.77 E-value=20 Score=23.82 Aligned_cols=15 Identities=33% Similarity=0.430 Sum_probs=12.7
Q ss_pred ceeeEEECCCCcEEE
Q 033205 89 NFAKFLVDKNGQVVD 103 (125)
Q Consensus 89 ~PttflId~~G~v~~ 103 (125)
++..|+|+++|+|..
T Consensus 63 IgYhflI~~dG~Iye 77 (142)
T smart00701 63 IGYNFLVGGDGKVYE 77 (142)
T ss_pred cCCeEEEcCCCEEEE
Confidence 378899999999854
No 217
>PF03460 NIR_SIR_ferr: Nitrite/Sulfite reductase ferredoxin-like half domain; InterPro: IPR005117 Sulphite reductases (SiRs) and related nitrite reductases (NiRs) catalyse the six-electron reduction reactions of sulphite to sulphide, and nitrite to ammonia, respectively. The Escherichia coli SiR enzyme is a complex composed of two proteins, a flavoprotein alpha-component (SiR-FP) and a hemoprotein beta-component (SiR-HP), and has an alpha(8)beta(4) quaternary structure []. SiR-FP contains both FAD and FMN, while SiR-HP contains a Fe(4)S(4) cluster coupled to a sirohaem through a cysteine bridge. Electrons are transferred from NADPH to FAD, and on to FMN in SiR-FP, from which they are transferred to the metal centre of SiR-HP, where they reduce the siroheme-bound sulphite. SiR-HP has a two-fold symmetry, which generates a distinctive three-domain alpha/beta fold that controls assembly and reactivity []. This entry describes the ferrodoxin-like (alpha/beta sandwich) domain, which consists of a duplication containing two subdomains of this fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3B0H_A 4GEP_A 2GEP_A 2AOP_A 5AOP_A 6GEP_A 4AOP_A 1AOP_A 3AOP_A 8GEP_A ....
Probab=39.41 E-value=71 Score=17.85 Aligned_cols=27 Identities=22% Similarity=0.421 Sum_probs=19.9
Q ss_pred ChhhHHHHHHHHHHhc--------cCCeEEEEeeC
Q 033205 2 TNSNYIELSQLYDKYK--------DQGLEILAFPC 28 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~--------~~g~~vvgv~~ 28 (125)
|..++-.|.++.++|+ .+++.+.+|+.
T Consensus 22 ~~~~l~~la~ia~~yg~~~irlT~~Q~l~l~~v~~ 56 (69)
T PF03460_consen 22 SAEQLRALAEIAEKYGDGEIRLTTRQNLQLRGVPE 56 (69)
T ss_dssp EHHHHHHHHHHHHHHSTSEEEEETTSCEEEEEEEG
T ss_pred CHHHHHHHHHHHHHhCCCeEEECCCCeEEEeCCCH
Confidence 4567778888888888 34677778773
No 218
>COG1832 Predicted CoA-binding protein [General function prediction only]
Probab=39.26 E-value=1.2e+02 Score=20.40 Aligned_cols=44 Identities=9% Similarity=0.255 Sum_probs=27.6
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCC-CHHHHHHHHHhhCCcc-ccee
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPCNQFGEEEPG-SNDQIADFVCTRFKSE-FPIF 57 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~-~~~~~~~f~~~~~~~~-fpv~ 57 (125)
+.-.+.+.-.+++ -+.|||+|-+ ++ +.-.+.+|++ +.|+. +||-
T Consensus 5 ~~~~i~~iL~~~K--~IAvVG~S~~------P~r~sy~V~kyL~-~~GY~ViPVN 50 (140)
T COG1832 5 EEEDIAEILKSAK--TIAVVGASDK------PDRPSYRVAKYLQ-QKGYRVIPVN 50 (140)
T ss_pred cHHHHHHHHHhCc--eEEEEecCCC------CCccHHHHHHHHH-HCCCEEEeeC
Confidence 3445555555655 4899999854 33 3456889995 56865 4553
No 219
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=39.10 E-value=54 Score=23.18 Aligned_cols=42 Identities=10% Similarity=0.187 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccce
Q 033205 6 YIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPI 56 (125)
Q Consensus 6 ~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv 56 (125)
+|...++.+..+++|..|+-||. +...+.+.+.+++|+++-+
T Consensus 79 ~~ga~elv~~lk~~G~~v~iiSg---------g~~~lv~~ia~~lg~d~~~ 120 (212)
T COG0560 79 TPGAEELVAALKAAGAKVVIISG---------GFTFLVEPIAERLGIDYVV 120 (212)
T ss_pred CccHHHHHHHHHHCCCEEEEEcC---------ChHHHHHHHHHHhCCchhe
Confidence 56777888888888998888873 3444433333577776644
No 220
>PRK08671 methionine aminopeptidase; Provisional
Probab=38.95 E-value=32 Score=25.56 Aligned_cols=18 Identities=17% Similarity=0.207 Sum_probs=12.9
Q ss_pred cccceeeEEECCCCcEEE
Q 033205 86 IQWNFAKFLVDKNGQVVD 103 (125)
Q Consensus 86 i~~~PttflId~~G~v~~ 103 (125)
|...-+|++|.++|.++-
T Consensus 272 vaq~~~Tv~v~~~g~~~~ 289 (291)
T PRK08671 272 VSQAEHTVIVTEDGCEVT 289 (291)
T ss_pred EEEEEEEEEECCCCcEEe
Confidence 333467899999998763
No 221
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=38.77 E-value=94 Score=20.23 Aligned_cols=50 Identities=14% Similarity=0.183 Sum_probs=27.1
Q ss_pred HHHHHHHHHhccCCeEEEEeeCCCCCCCC-------CCCHHHHHHHHHhhCCccccee
Q 033205 7 IELSQLYDKYKDQGLEILAFPCNQFGEEE-------PGSNDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 7 p~l~~l~~~y~~~g~~vvgv~~~~~~~~e-------~~~~~~~~~f~~~~~~~~fpv~ 57 (125)
+...+..++++.+|..|+-++.......+ ..+.....+|+. +++++|--+
T Consensus 27 ~~~ie~L~~l~~~G~~IiiaTGR~~~~~~~n~~~i~~~~~~~t~~wL~-k~~ipYd~l 83 (126)
T TIGR01689 27 LAVIEKLRHYKALGFEIVISSSRNMRTYEGNVGKINIHTLPIIILWLN-QHNVPYDEI 83 (126)
T ss_pred HHHHHHHHHHHHCCCEEEEECCCCchhhhccccccchhhHHHHHHHHH-HcCCCCceE
Confidence 34444445555678888877754321000 001135678884 788888433
No 222
>COG0815 Lnt Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]
Probab=37.66 E-value=1.6e+02 Score=24.09 Aligned_cols=15 Identities=13% Similarity=0.457 Sum_probs=12.8
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
.|.+||++|+++...
T Consensus 452 iSavIdp~Gri~~~l 466 (518)
T COG0815 452 ISAVIDPRGRILAQL 466 (518)
T ss_pred ceEEECCCCCEEeec
Confidence 378899999999875
No 223
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=37.09 E-value=59 Score=18.35 Aligned_cols=15 Identities=7% Similarity=0.286 Sum_probs=9.2
Q ss_pred HHHHHHHHHhhCCccc
Q 033205 39 NDQIADFVCTRFKSEF 54 (125)
Q Consensus 39 ~~~~~~f~~~~~~~~f 54 (125)
...+++|+ +..|++|
T Consensus 47 ~~~l~~~l-D~~gIt~ 61 (64)
T PF09494_consen 47 PSKLKEWL-DSQGITF 61 (64)
T ss_pred HHHHHHHH-HHCCcee
Confidence 55667777 3556665
No 224
>PF02575 YbaB_DNA_bd: YbaB/EbfC DNA-binding family; InterPro: IPR004401 The function of this protein is unknown. It is restricted to bacteria and a few plants, such as Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A crystal structure of one member, YbaB from Haemophilus influenzae, revealed a core structure consisting of two layers, alpha/beta; YbaB forms a tight dimer with a 3-layer structure, beta/alpha/beta []. YbaB is co-transcribed with RecR, which appears to protect DNA strands of the replilcation fork when it is blocked by DNA damage. A deletion of the YbaB operon resulted in increased sensitivity to DNA-damaging agents compared with the wild-type strain.; PDB: 1PUG_B 3F42_B 1YBX_B 1J8B_A.
Probab=36.81 E-value=74 Score=19.04 Aligned_cols=32 Identities=28% Similarity=0.245 Sum_probs=20.9
Q ss_pred eEEECCCCcEEEEEcC-----CCChhHHHHHHHHhhc
Q 033205 92 KFLVDKNGQVVDRYYP-----TTSLLSLEHDIKKLLG 123 (125)
Q Consensus 92 tflId~~G~v~~~~~G-----~~~~~~l~~~I~~ll~ 123 (125)
++.+|.+|+|+..... ..+++.|...|...++
T Consensus 33 ~V~v~g~g~v~~i~i~~~~~~~~~~~~L~~~I~~A~n 69 (93)
T PF02575_consen 33 TVTVNGNGEVVDIEIDPSALRPLDPEELEDLIVEAVN 69 (93)
T ss_dssp EEEEETTS-EEEEEE-GGGGCTS-HHHHHHHHHHHHH
T ss_pred EEEEecCceEEEEEEehHhhccCCHHHHHHHHHHHHH
Confidence 7889999999987643 2456677777766543
No 225
>cd03020 DsbA_DsbC_DsbG DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds formed by DsbA and prevent aggregation of incorrectly folded proteins. DsbC and DsbG are kept in their reduced state by the cytoplasmic membrane protein DsbD, which utilizes the TRX/TRX reductase system in the cytosol as a source of reducing equivalents. DsbG differ from DsbC in that it has a more limited substrate specificity, and it may preferentially act later in the folding process to catalyze disulfide rearrangements in folded or partially folded proteins. Also included in the alignment is the predicted protein TrbB, whose gene was sequenced from the enterohemorrhagic E. coli type IV pilus gene cluster, which is required for efficient plasmid transfer.
Probab=36.45 E-value=38 Score=23.32 Aligned_cols=28 Identities=14% Similarity=0.076 Sum_probs=19.7
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhHHHHH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLSLEHD 117 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~l~~~ 117 (125)
+++++|+.+ + ++|++ ..|..+++.|++.
T Consensus 169 gi~gtPtii-~-~~G~~---~~G~~~~~~l~~~ 196 (197)
T cd03020 169 GVNGTPTIV-L-ADGRV---VPGAPPAAQLEAL 196 (197)
T ss_pred CCCcccEEE-E-CCCeE---ecCCCCHHHHHhh
Confidence 588999876 3 45876 4588887777654
No 226
>KOG1110 consensus Putative steroid membrane receptor Hpr6.6/25-Dx [General function prediction only]
Probab=36.04 E-value=42 Score=23.46 Aligned_cols=26 Identities=15% Similarity=0.241 Sum_probs=18.4
Q ss_pred CChhhHHHHHHHHHHhccCCeEEEEee
Q 033205 1 MTNSNYIELSQLYDKYKDQGLEILAFP 27 (125)
Q Consensus 1 ~~~~e~p~l~~l~~~y~~~g~~vvgv~ 27 (125)
+|..||..|+++..+|+.| ..+||=-
T Consensus 128 L~a~e~eal~eWE~~fk~K-Y~~VG~L 153 (183)
T KOG1110|consen 128 LTAEELEALNEWETKFKAK-YPVVGRL 153 (183)
T ss_pred cCHHHHHHHHHHHHHHhhc-CceeEEe
Confidence 4667777788877777766 6666644
No 227
>KOG0541 consensus Alkyl hydroperoxide reductase/peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=35.93 E-value=1.4e+02 Score=20.63 Aligned_cols=89 Identities=17% Similarity=0.160 Sum_probs=51.5
Q ss_pred hhhHHHHHHHHHHhccCCeE-EEEeeCCCCCCCCCCCHHHHHHHHHhhCCccc--ceeEeeccCCCccchHHHHHHhCCC
Q 033205 3 NSNYIELSQLYDKYKDQGLE-ILAFPCNQFGEEEPGSNDQIADFVCTRFKSEF--PIFEKIDVNGEHASPLYKLLKSGKW 79 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~-vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~f--pv~~~~D~~g~~~~~~~~~l~~~~~ 79 (125)
...+|.+.+-.++++.+|+. |+.|+.| ++=.+..|.+ .++.+= -.+ .|.+|+..+.+ ..... .+
T Consensus 61 ~~HvPGyi~~a~elksKGVd~iicvSVn--------DpFv~~aW~k-~~g~~~~V~f~--aD~~g~ftk~l-gleld-~~ 127 (171)
T KOG0541|consen 61 SSHVPGYIEKADELKSKGVDEIICVSVN--------DPFVMKAWAK-SLGANDHVKFV--ADPAGEFTKSL-GLELD-LS 127 (171)
T ss_pred cccCchHHHHHHHHHhcCCcEEEEEecC--------cHHHHHHHHh-hcCccceEEEE--ecCCCceeeec-cceee-ec
Confidence 45689999999999999976 5566665 2545667774 566543 233 57777665521 11000 00
Q ss_pred CCCCCCcccceeeEEECCCCcEEEEEc
Q 033205 80 GIFGDDIQWNFAKFLVDKNGQVVDRYY 106 (125)
Q Consensus 80 ~~~g~~i~~~PttflId~~G~v~~~~~ 106 (125)
..++ +++.-....++ .+|+|.....
T Consensus 128 d~~~-g~RS~R~a~vv-engkV~~~nv 152 (171)
T KOG0541|consen 128 DKLL-GVRSRRYALVV-ENGKVTVVNV 152 (171)
T ss_pred cccC-ccccccEEEEE-eCCeEEEEEe
Confidence 1111 34444455555 5898887764
No 228
>PF12105 SpoU_methylas_C: SpoU, rRNA methylase, C-terminal; InterPro: IPR022724 This domain is found in bacteria and is about 60 amino acids in length. It is found in association with PF00588 from PFAM. This domain has a conserved LFE sequence motif. Some members of the Pfam family SpoU_methylase, PF00588 from PFAM, carry this very distinctive sequence at their extreme C terminus. The exact function of this domain is not known. ; GO: 0009020 tRNA (guanosine-2'-O-)-methyltransferase activity; PDB: 1ZJR_A.
Probab=35.83 E-value=15 Score=20.71 Aligned_cols=21 Identities=29% Similarity=0.476 Sum_probs=0.4
Q ss_pred HHHHHHhhCCcccceeEeeccCCCc
Q 033205 42 IADFVCTRFKSEFPIFEKIDVNGEH 66 (125)
Q Consensus 42 ~~~f~~~~~~~~fpv~~~~D~~g~~ 66 (125)
+.++++ +.|+.||-+ |.+|..
T Consensus 31 lA~~cr-~kg~pYP~L---de~GeI 51 (57)
T PF12105_consen 31 LAKWCR-RKGLPYPPL---DEDGEI 51 (57)
T ss_dssp H------------------------
T ss_pred HHhhcc-ccccccccc---cccccc
Confidence 344553 447777776 555554
No 229
>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=35.66 E-value=34 Score=21.37 Aligned_cols=15 Identities=27% Similarity=0.472 Sum_probs=12.3
Q ss_pred eeeEEECCCCcEEEE
Q 033205 90 FAKFLVDKNGQVVDR 104 (125)
Q Consensus 90 PttflId~~G~v~~~ 104 (125)
...|+||++|+|...
T Consensus 37 ~~H~~I~~~G~i~q~ 51 (126)
T cd06583 37 SYHFLVGGDGRIYQG 51 (126)
T ss_pred CceEEEcCCCEEEEE
Confidence 678999999988664
No 230
>PHA02769 hypothetical protein; Provisional
Probab=35.54 E-value=38 Score=22.06 Aligned_cols=17 Identities=41% Similarity=0.657 Sum_probs=15.1
Q ss_pred HHHHHHHHhccCCeEEE
Q 033205 8 ELSQLYDKYKDQGLEIL 24 (125)
Q Consensus 8 ~l~~l~~~y~~~g~~vv 24 (125)
-|..|++++++.|++|+
T Consensus 100 fl~~l~~k~~~dg~evl 116 (154)
T PHA02769 100 FLNDLAEKLKKDGFEVL 116 (154)
T ss_pred HHHHHHHHHhcCCeEEE
Confidence 47889999999999987
No 231
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=35.23 E-value=40 Score=21.24 Aligned_cols=20 Identities=10% Similarity=0.180 Sum_probs=16.2
Q ss_pred CCHHHHHHHHHhhCCccccee
Q 033205 37 GSNDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 37 ~~~~~~~~f~~~~~~~~fpv~ 57 (125)
++.|++.+|++ ++|+.|-|.
T Consensus 56 ~skE~Ai~yae-r~G~~Y~V~ 75 (101)
T PF04800_consen 56 DSKEDAIAYAE-RNGWDYEVE 75 (101)
T ss_dssp SSHHHHHHHHH-HCT-EEEEE
T ss_pred CCHHHHHHHHH-HcCCeEEEe
Confidence 36899999995 789999887
No 232
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=34.92 E-value=40 Score=15.02 Aligned_cols=12 Identities=17% Similarity=0.393 Sum_probs=9.0
Q ss_pred eeeEEECCCCcE
Q 033205 90 FAKFLVDKNGQV 101 (125)
Q Consensus 90 PttflId~~G~v 101 (125)
-.+++.|++|++
T Consensus 7 I~~i~~D~~G~l 18 (24)
T PF07494_consen 7 IYSIYEDSDGNL 18 (24)
T ss_dssp EEEEEE-TTSCE
T ss_pred EEEEEEcCCcCE
Confidence 357889999987
No 233
>TIGR02190 GlrX-dom Glutaredoxin-family domain. This C-terminal domain with homology to glutaredoxin is fused to an N-terminal peroxiredoxin-like domain.
Probab=34.68 E-value=93 Score=17.87 Aligned_cols=18 Identities=6% Similarity=-0.042 Sum_probs=14.6
Q ss_pred HHHHHHHHhhCCcccceeE
Q 033205 40 DQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~~ 58 (125)
..++++++ ++|++|..+.
T Consensus 22 ~~ak~~L~-~~gi~y~~id 39 (79)
T TIGR02190 22 AKAKATLK-EKGYDFEEIP 39 (79)
T ss_pred HHHHHHHH-HcCCCcEEEE
Confidence 67889995 6899998863
No 234
>KOG1257 consensus NADP+-dependent malic enzyme [Energy production and conversion]
Probab=34.56 E-value=2.4e+02 Score=23.42 Aligned_cols=51 Identities=16% Similarity=0.458 Sum_probs=32.8
Q ss_pred HHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHH
Q 033205 9 LSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLY 71 (125)
Q Consensus 9 l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~ 71 (125)
+.+..+.|+.+ .+ |...||+ ...+..++ ++|.-+|.++. -|..|..+-.+-
T Consensus 245 m~Av~~~yG~~--~l--IqFEDF~------~~nAfrlL-~kYr~~~c~FN-DDIQGTaaValA 295 (582)
T KOG1257|consen 245 MEAVVQRYGPN--TL--IQFEDFA------NHNAFRLL-EKYRNKYCMFN-DDIQGTAAVALA 295 (582)
T ss_pred HHHHHHHhCcc--eE--EEehhcc------chhHHHHH-HHhccccceec-ccccchhHHHHH
Confidence 45677788765 23 3334443 34567889 58999999996 377777655443
No 235
>PF15589 Imm12: Immunity protein 12
Probab=34.26 E-value=70 Score=21.81 Aligned_cols=33 Identities=15% Similarity=0.141 Sum_probs=23.3
Q ss_pred ceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhhc
Q 033205 89 NFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLLG 123 (125)
Q Consensus 89 ~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll~ 123 (125)
.+|+|| ++.++.-|+.-..+..++...++.++.
T Consensus 67 a~T~~l--p~~~~fvRw~aadse~~l~~~~~~~~~ 99 (155)
T PF15589_consen 67 APTCYL--PEHRAFVRWLAADSEADLLAAARAALA 99 (155)
T ss_pred cceeEe--CCCCeEEEEEecCCcchHHHHHHHHhc
Confidence 478887 666666666655667778888877764
No 236
>PRK15175 Vi polysaccharide export protein VexA; Provisional
Probab=33.88 E-value=48 Score=25.61 Aligned_cols=32 Identities=31% Similarity=0.368 Sum_probs=25.4
Q ss_pred eEEECCCCcEEEEEcCC-----CChhHHHHHHHHhhc
Q 033205 92 KFLVDKNGQVVDRYYPT-----TSLLSLEHDIKKLLG 123 (125)
Q Consensus 92 tflId~~G~v~~~~~G~-----~~~~~l~~~I~~ll~ 123 (125)
.+.||++|.|-.=+.|. .+++++++.|.+.|+
T Consensus 104 ~~~V~~dG~I~~P~vG~V~vaG~T~~q~~~~I~~~L~ 140 (355)
T PRK15175 104 NILVTDSNTVQVPYAGTIPVSGLDVTQLADEIKKRLS 140 (355)
T ss_pred CeEECCCCeEEecccceEEECCCCHHHHHHHHHHHHH
Confidence 48899999998766664 567888888888764
No 237
>PRK10638 glutaredoxin 3; Provisional
Probab=33.85 E-value=99 Score=17.90 Aligned_cols=19 Identities=5% Similarity=-0.001 Sum_probs=14.7
Q ss_pred HHHHHHHHHhhCCcccceeE
Q 033205 39 NDQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 39 ~~~~~~f~~~~~~~~fpv~~ 58 (125)
-..++.+++ +++++|.+..
T Consensus 15 C~~a~~~L~-~~gi~y~~~d 33 (83)
T PRK10638 15 CHRAKALLN-SKGVSFQEIP 33 (83)
T ss_pred HHHHHHHHH-HcCCCcEEEE
Confidence 367889995 6799998763
No 238
>PF08918 PhoQ_Sensor: PhoQ Sensor; InterPro: IPR015014 The PhoQ Sensor is required for the virulence of various Gram-negative bacteria by allowing interaction of PhoPQ with the intracellular membrane, resulting in remodelling of the bacterial cell surface and subsequent bacterial resistance to host antimicrobial peptides. The domain contains a major flat acidic surface, which binds to at least 3 calcium ions, neutralising the domain's negative charge and allowing interaction with the negatively charged membrane []. ; GO: 0004673 protein histidine kinase activity, 0005524 ATP binding, 0046872 metal ion binding, 0000160 two-component signal transduction system (phosphorelay), 0018106 peptidyl-histidine phosphorylation, 0016020 membrane; PDB: 1YAX_D 3BQA_B 3BQ8_B.
Probab=33.71 E-value=21 Score=24.67 Aligned_cols=29 Identities=24% Similarity=0.347 Sum_probs=17.1
Q ss_pred cee-eEEECCCCcEEEEEcCCCChhHHHHHHHH
Q 033205 89 NFA-KFLVDKNGQVVDRYYPTTSLLSLEHDIKK 120 (125)
Q Consensus 89 ~Pt-tflId~~G~v~~~~~G~~~~~~l~~~I~~ 120 (125)
.|| .|+.|++|++.++-. +..+|++.|++
T Consensus 73 ~ptL~~IYD~~G~lLW~qr---~vP~l~~~I~~ 102 (180)
T PF08918_consen 73 SPTLVLIYDENGKLLWRQR---DVPELEKRIQP 102 (180)
T ss_dssp -SEEEEEEETTS-EEEESS-----HHHHCCS-G
T ss_pred CCeEEEEEcCCCcEEEecC---ccHHHHHhcCH
Confidence 366 688899999999852 23346555553
No 239
>PF13021 DUF3885: Domain of unknown function (DUF3885)
Probab=33.63 E-value=49 Score=16.95 Aligned_cols=12 Identities=33% Similarity=0.739 Sum_probs=9.9
Q ss_pred hccCCeEEEEee
Q 033205 16 YKDQGLEILAFP 27 (125)
Q Consensus 16 y~~~g~~vvgv~ 27 (125)
|.++|..|++.+
T Consensus 4 YDDRGcdvia~~ 15 (38)
T PF13021_consen 4 YDDRGCDVIANN 15 (38)
T ss_pred ccCCCcEEeeCC
Confidence 678999998865
No 240
>PHA00447 lysozyme
Probab=33.57 E-value=39 Score=22.43 Aligned_cols=15 Identities=20% Similarity=0.430 Sum_probs=12.4
Q ss_pred ceeeEEECCCCcEEE
Q 033205 89 NFAKFLVDKNGQVVD 103 (125)
Q Consensus 89 ~PttflId~~G~v~~ 103 (125)
+...|+|+++|+|..
T Consensus 43 IgYhf~I~~dG~I~e 57 (142)
T PHA00447 43 VGYHFIIRRDGTVEE 57 (142)
T ss_pred cCeEEEECCCCEEEE
Confidence 377899999999854
No 241
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=33.40 E-value=2.4e+02 Score=22.16 Aligned_cols=86 Identities=16% Similarity=0.127 Sum_probs=47.2
Q ss_pred HHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhCCCCCCCCCccc
Q 033205 9 LSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSGKWGIFGDDIQW 88 (125)
Q Consensus 9 l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~~g~~i~~ 88 (125)
|.++-+.+.++. .+||+.... .+..+.+++-++ +.+.++-+. -|.. .. . .||. ..
T Consensus 308 l~~l~~~~~~~~-~~VGFaaEt-----~~~~~~A~~kl~-~k~~D~iva--N~i~-~~-~------------~fg~--~~ 362 (399)
T PRK05579 308 LAEVAALKDKRP-FVVGFAAET-----GDVLEYARAKLK-RKGLDLIVA--NDVS-AG-G------------GFGS--DD 362 (399)
T ss_pred HHHHHhccCCCC-EEEEEccCC-----chHHHHHHHHHH-HcCCeEEEE--ecCC-cC-C------------CcCC--Cc
Confidence 344544443322 689998631 112355666664 568999887 3432 11 1 1431 11
Q ss_pred ceeeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 89 NFAKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 89 ~PttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
=.-+||+++|..... +..+..++.+.|.+.+
T Consensus 363 -n~~~ii~~~~~~~~~--~~~~K~~iA~~i~~~i 393 (399)
T PRK05579 363 -NEVTLIWSDGGEVKL--PLMSKLELARRLLDEI 393 (399)
T ss_pred -eEEEEEECCCcEEEc--CCCCHHHHHHHHHHHH
Confidence 245889999975432 4557777766665543
No 242
>PRK13286 amiE acylamide amidohydrolase; Provisional
Probab=32.79 E-value=46 Score=25.49 Aligned_cols=16 Identities=25% Similarity=0.719 Sum_probs=13.5
Q ss_pred eeEEECCCCcEEEEEc
Q 033205 91 AKFLVDKNGQVVDRYY 106 (125)
Q Consensus 91 ttflId~~G~v~~~~~ 106 (125)
+.++||++|+|+.+|.
T Consensus 118 ta~vi~~~G~i~~~Yr 133 (345)
T PRK13286 118 TLILINDKGEIVQKYR 133 (345)
T ss_pred EEEEECCCCeEEEEEE
Confidence 6899999999887663
No 243
>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=32.69 E-value=61 Score=19.93 Aligned_cols=19 Identities=11% Similarity=0.294 Sum_probs=16.4
Q ss_pred eeEEECCCCcEEEEEcCCC
Q 033205 91 AKFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~~ 109 (125)
..++.||+|..+..+.|..
T Consensus 94 ~~~f~DPdG~~ie~~~~~~ 112 (121)
T cd07244 94 SFYFLDPDGHKLELHVGSL 112 (121)
T ss_pred EEEEECCCCCEEEEEeCCH
Confidence 5699999999999998764
No 244
>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=32.58 E-value=45 Score=24.79 Aligned_cols=15 Identities=40% Similarity=0.702 Sum_probs=12.5
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
|.++||++|+++.++
T Consensus 103 ta~vi~~~G~ii~~Y 117 (295)
T cd07566 103 SALVVDPEGEVVFNY 117 (295)
T ss_pred EEEEEcCCCeEEEEE
Confidence 578999999987665
No 245
>KOG3363 consensus Uncharacterized conserved nuclear protein [Function unknown]
Probab=32.28 E-value=1.3e+02 Score=20.96 Aligned_cols=17 Identities=24% Similarity=0.362 Sum_probs=14.5
Q ss_pred HHHHHHHHhhCCccccee
Q 033205 40 DQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~ 57 (125)
..+++|++ ++++..-++
T Consensus 130 ~~V~~F~k-~~ki~lEi~ 146 (196)
T KOG3363|consen 130 PSVRQFVK-SHKIKLEIV 146 (196)
T ss_pred HHHHHHHH-HhCcceEEe
Confidence 67899995 789999887
No 246
>TIGR00250 RNAse_H_YqgF RNAse H-fold protein YqgF. This protein family, which exhibits an RNAse H fold in crystal structure, has been proposed as a putative Holliday junction resolvase, an alternate to RuvC.
Probab=32.27 E-value=99 Score=20.11 Aligned_cols=58 Identities=16% Similarity=0.290 Sum_probs=35.4
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCC--cccceeEeeccCCCc
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFK--SEFPIFEKIDVNGEH 66 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~--~~fpv~~~~D~~g~~ 66 (125)
....|.++-++|+-. ..|||.+.+.-+ .+......+++|++ +.. +..||.- .|+..+.
T Consensus 36 ~~~~l~~~i~~~~~~-~iVvGlP~~~dG-~~~~~a~~v~~f~~-~L~~~~~~~v~~-~DEr~TT 95 (130)
T TIGR00250 36 DWSRIEELLKEWTPD-KIVVGLPLNMDG-TEGPLTERAQKFAN-RLEGRFGVPVVL-WDERLST 95 (130)
T ss_pred HHHHHHHHHHHcCCC-EEEEeccCCCCc-CcCHHHHHHHHHHH-HHHHHhCCCEEE-EcCCcCH
Confidence 367788888998865 568899886422 22223456777773 332 3445553 5776543
No 247
>TIGR01485 SPP_plant-cyano sucrose-6F-phosphate phosphohydrolase. Sucrose phosphate synthase (SPS), the prior step in the biosynthesis of sucrose contains a domain which exhibits considerable similarity to SPP albeit without conservation of the catalytic residues. The catalytic machinery of the synthase resides in another domain. It seems likely that the phosphatase-like domain is involved in substrate binding, possibly binding both substrates in a "product-like" orientation prior to ligation by the synthase catalytic domain.
Probab=32.20 E-value=1.9e+02 Score=20.56 Aligned_cols=43 Identities=9% Similarity=0.068 Sum_probs=30.9
Q ss_pred hhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccc
Q 033205 4 SNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFP 55 (125)
Q Consensus 4 ~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fp 55 (125)
+-.|.+.++.++...+|+.++-++. -+...++.+++ ++++.-|
T Consensus 21 ~~~~~~~~~i~~~~~~gi~fv~aTG--------R~~~~~~~~~~-~~~~~~p 63 (249)
T TIGR01485 21 QALLRLNALLEDHRGEDSLLVYSTG--------RSPHSYKELQK-QKPLLTP 63 (249)
T ss_pred HHHHHHHHHHHHhhccCceEEEEcC--------CCHHHHHHHHh-cCCCCCC
Confidence 3458889999998889985554442 25778888874 6777777
No 248
>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=32.15 E-value=34 Score=25.59 Aligned_cols=15 Identities=27% Similarity=0.815 Sum_probs=12.9
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+|+.+|
T Consensus 131 sa~vi~~~G~iv~~Y 145 (299)
T cd07567 131 TNVVFDRDGTLIARY 145 (299)
T ss_pred EEEEEcCCCCccceE
Confidence 689999999988665
No 249
>COG1129 MglA ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]
Probab=31.98 E-value=2.9e+02 Score=22.64 Aligned_cols=22 Identities=32% Similarity=0.247 Sum_probs=10.7
Q ss_pred EEECCCCcEEEEEc--CCCChhHH
Q 033205 93 FLVDKNGQVVDRYY--PTTSLLSL 114 (125)
Q Consensus 93 flId~~G~v~~~~~--G~~~~~~l 114 (125)
+.|=|||+++.... +..+.+++
T Consensus 215 itVlRDG~~v~~~~~~~~~~~~~l 238 (500)
T COG1129 215 ITVLRDGRVVGTRPTAAETSEDEL 238 (500)
T ss_pred EEEEeCCEEeeecccccCCCHHHH
Confidence 33446666666543 34444443
No 250
>PHA02815 hypothetical protein; Provisional
Probab=31.73 E-value=16 Score=20.74 Aligned_cols=25 Identities=24% Similarity=0.432 Sum_probs=16.4
Q ss_pred ChhhHHHHHHHHHHhccCCeEEEEeeC
Q 033205 2 TNSNYIELSQLYDKYKDQGLEILAFPC 28 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~g~~vvgv~~ 28 (125)
|++++-+|...| |-+..-.+||+|.
T Consensus 39 TRrsF~~LdnvY--Yt~D~~~~VGvN~ 63 (64)
T PHA02815 39 TKISFDELENVY--YIDDTYTCVGVNV 63 (64)
T ss_pred HHhhHHHhccEE--EecCCcceeeecC
Confidence 566677777665 4444556888885
No 251
>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=31.63 E-value=50 Score=24.27 Aligned_cols=15 Identities=33% Similarity=0.913 Sum_probs=12.6
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+|+.+|
T Consensus 111 sa~~i~~~G~i~~~y 125 (294)
T cd07582 111 TAFIIDPSGEIILRY 125 (294)
T ss_pred EEEEECCCCcEEEEE
Confidence 679999999988765
No 252
>PF07315 DUF1462: Protein of unknown function (DUF1462); InterPro: IPR009190 There are currently no experimental data for members of this group of bacterial proteins or their homologues. A crystal structure of Q7A6J8 from SWISSPROT revealed a thioredoxin-like fold, its core consisting of three layers alpha/beta/alpha.; PDB: 1XG8_A.
Probab=31.60 E-value=1.3e+02 Score=18.63 Aligned_cols=50 Identities=26% Similarity=0.344 Sum_probs=27.4
Q ss_pred hhhHHHHH-HHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHh--hCCccccee
Q 033205 3 NSNYIELS-QLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCT--RFKSEFPIF 57 (125)
Q Consensus 3 ~~e~p~l~-~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~--~~~~~fpv~ 57 (125)
+..+..|+ +|-+||.++.|.+-=|.... +...+.-++|+++ .-.+=||++
T Consensus 19 keTyeWL~aal~RKyp~~~f~~~YiDi~~-----p~~~~~~~~~a~~I~ede~fYPlV 71 (93)
T PF07315_consen 19 KETYEWLEAALKRKYPDQPFEFTYIDIEN-----PPENDHDQQFAERILEDELFYPLV 71 (93)
T ss_dssp HHHHHHHHHHHHHH-TTS-EEEEEEETTT---------HHHHHHHHHHHTTSS-SSEE
T ss_pred hhHHHHHHHHHhCcCCCCceEEEEEecCC-----CCccHHHHHHHHHHHhcccccceE
Confidence 45667776 57789999988888877642 2122445666632 124556665
No 253
>PF13186 SPASM: Iron-sulfur cluster-binding domain
Probab=31.46 E-value=37 Score=18.29 Aligned_cols=14 Identities=21% Similarity=0.570 Sum_probs=11.3
Q ss_pred eeeEEECCCCcEEE
Q 033205 90 FAKFLVDKNGQVVD 103 (125)
Q Consensus 90 PttflId~~G~v~~ 103 (125)
-+++.|+++|.|.-
T Consensus 5 ~~~~~I~~dG~v~p 18 (64)
T PF13186_consen 5 WNSLYIDPDGDVYP 18 (64)
T ss_pred CeEEEEeeCccEEe
Confidence 45788999999865
No 254
>PF02643 DUF192: Uncharacterized ACR, COG1430; InterPro: IPR003795 This entry describes proteins of unknown function.; PDB: 3M7A_B 3PJY_B.
Probab=31.36 E-value=51 Score=20.68 Aligned_cols=16 Identities=25% Similarity=0.306 Sum_probs=12.3
Q ss_pred eeEEECCCCcEEEEEc
Q 033205 91 AKFLVDKNGQVVDRYY 106 (125)
Q Consensus 91 ttflId~~G~v~~~~~ 106 (125)
-.++||++|+|+....
T Consensus 51 Di~fld~~g~Vv~i~~ 66 (108)
T PF02643_consen 51 DIAFLDSDGRVVKIER 66 (108)
T ss_dssp EEEEE-TTSBEEEEEE
T ss_pred EEEEECCCCeEEEEEc
Confidence 3688999999998764
No 255
>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=31.35 E-value=45 Score=19.45 Aligned_cols=14 Identities=29% Similarity=0.617 Sum_probs=11.4
Q ss_pred eEEECCCCcEEEEE
Q 033205 92 KFLVDKNGQVVDRY 105 (125)
Q Consensus 92 tflId~~G~v~~~~ 105 (125)
.+++|++|+|+..-
T Consensus 8 i~v~D~~~~i~~~N 21 (110)
T PF08448_consen 8 IFVIDPDGRIVYAN 21 (110)
T ss_dssp EEEEETTSBEEEE-
T ss_pred eEEECCCCEEEEEH
Confidence 57889999999864
No 256
>PF12687 DUF3801: Protein of unknown function (DUF3801); InterPro: IPR024234 This functionally uncharacterised protein family is found in bacteria. Proteins found in this family are typically between 158 and 187 amino acids in length and include the PcfB protein.
Probab=31.33 E-value=1e+02 Score=21.83 Aligned_cols=38 Identities=11% Similarity=0.289 Sum_probs=24.6
Q ss_pred HHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCccccee
Q 033205 9 LSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 9 l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~ 57 (125)
|.+|..+ ++++.+|-|.- .+.......+ .+||+.|-++
T Consensus 24 lk~L~k~--g~~l~~i~i~~--------~~lk~F~k~A-kKyGV~yav~ 61 (204)
T PF12687_consen 24 LKKLLKQ--GKGLKNIEITD--------EDLKEFKKEA-KKYGVDYAVK 61 (204)
T ss_pred HHHHHhc--CCCceEEecCH--------hhHHHHHHHH-HHcCCceEEe
Confidence 3445443 45688888752 1345555666 4799999998
No 257
>TIGR00546 lnt apolipoprotein N-acyltransferase. This enzyme transfers the acyl group to lipoproteins in the lgt/lsp/lnt system which is found broadly in bacteria but not in archaea. This model represents one component of the "lipoprotein lgt/lsp/lnt system" genome property.
Probab=31.05 E-value=1.4e+02 Score=22.88 Aligned_cols=11 Identities=18% Similarity=0.437 Sum_probs=9.4
Q ss_pred eeEEECCCCcE
Q 033205 91 AKFLVDKNGQV 101 (125)
Q Consensus 91 ttflId~~G~v 101 (125)
.+.+||++|+|
T Consensus 381 ~S~vidp~G~i 391 (391)
T TIGR00546 381 ISAVIDPRGRT 391 (391)
T ss_pred eeEEECCCCCC
Confidence 47899999986
No 258
>PF03259 Robl_LC7: Roadblock/LC7 domain; InterPro: IPR004942 This family includes proteins that are about 100 amino acids long and have been shown to be related []. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is proposed that roadblock/LC7 family members may modulate specific dynein functions []. This family also includes Golgi-associated MP1 adapter protein (Q9Y2Q5 from SWISSPROT) and MglB from Myxococcus xanthus (Q50883 from SWISSPROT), a protein involved in gliding motility []. However the family also includes members from non-motile bacteria such as Streptomyces coelicolor, suggesting that the protein may play a structural or regulatory role.; PDB: 2B95_B 1Z09_A 2E8J_B 2HZ5_B 3KYE_A 2ZL1_B 1SKO_B 3CPT_B 1VEU_B 1VET_B ....
Probab=30.31 E-value=50 Score=19.24 Aligned_cols=15 Identities=40% Similarity=0.567 Sum_probs=13.2
Q ss_pred eeeEEECCCCcEEEE
Q 033205 90 FAKFLVDKNGQVVDR 104 (125)
Q Consensus 90 PttflId~~G~v~~~ 104 (125)
=...|+|+||.++..
T Consensus 16 ~~~~l~~~dG~~i~~ 30 (91)
T PF03259_consen 16 RGAVLVDKDGLVIAS 30 (91)
T ss_dssp EEEEEEETTSEEEEE
T ss_pred eEEEEEcCCCCEEEE
Confidence 457999999999998
No 259
>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=30.12 E-value=55 Score=21.30 Aligned_cols=13 Identities=31% Similarity=0.644 Sum_probs=11.7
Q ss_pred eeEEECCCCcEEE
Q 033205 91 AKFLVDKNGQVVD 103 (125)
Q Consensus 91 ttflId~~G~v~~ 103 (125)
.++++|++|++++
T Consensus 52 ~~~~~d~~g~~~~ 64 (161)
T PF05228_consen 52 LIFILDPDGRVLY 64 (161)
T ss_pred EEEEEcCCCCEEE
Confidence 4699999999998
No 260
>PRK14324 glmM phosphoglucosamine mutase; Provisional
Probab=29.83 E-value=2e+02 Score=22.66 Aligned_cols=9 Identities=33% Similarity=0.866 Sum_probs=4.2
Q ss_pred EEECCCCcE
Q 033205 93 FLVDKNGQV 101 (125)
Q Consensus 93 flId~~G~v 101 (125)
.+||.+|++
T Consensus 249 ~vvd~~G~~ 257 (446)
T PRK14324 249 VVVDEKGEI 257 (446)
T ss_pred EEECCCCCE
Confidence 344555543
No 261
>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=29.76 E-value=50 Score=19.37 Aligned_cols=13 Identities=23% Similarity=0.669 Sum_probs=11.7
Q ss_pred eEEECCCCcEEEE
Q 033205 92 KFLVDKNGQVVDR 104 (125)
Q Consensus 92 tflId~~G~v~~~ 104 (125)
.+++|++|+|++.
T Consensus 14 i~~~d~~g~I~~~ 26 (113)
T PF00989_consen 14 IFVIDEDGRILYV 26 (113)
T ss_dssp EEEEETTSBEEEE
T ss_pred EEEEeCcCeEEEE
Confidence 6899999999986
No 262
>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=29.69 E-value=57 Score=24.09 Aligned_cols=15 Identities=27% Similarity=0.762 Sum_probs=12.6
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+|+.++
T Consensus 104 sa~~i~~~G~i~~~Y 118 (291)
T cd07565 104 TAIIIDDQGEIVLKY 118 (291)
T ss_pred EEEEECCCCcEEEEE
Confidence 578999999987765
No 263
>PRK00153 hypothetical protein; Validated
Probab=29.33 E-value=86 Score=19.50 Aligned_cols=32 Identities=16% Similarity=0.050 Sum_probs=22.0
Q ss_pred eEEECCCCcEEEEEcCC-----CChhHHHHHHHHhhc
Q 033205 92 KFLVDKNGQVVDRYYPT-----TSLLSLEHDIKKLLG 123 (125)
Q Consensus 92 tflId~~G~v~~~~~G~-----~~~~~l~~~I~~ll~ 123 (125)
++.++.+|+|+.....+ .+++.|+..|...++
T Consensus 41 ~V~v~G~~~v~~i~Id~~ll~~~d~e~LedlI~~A~n 77 (104)
T PRK00153 41 KVTMTGKKEVKRVKIDPSLVDPEDVEMLEDLILAAFN 77 (104)
T ss_pred EEEEecCceEEEEEECHHHcCCcCHHHHHHHHHHHHH
Confidence 68899999999876532 345667766665543
No 264
>PRK03760 hypothetical protein; Provisional
Probab=29.09 E-value=64 Score=20.72 Aligned_cols=14 Identities=36% Similarity=0.439 Sum_probs=12.3
Q ss_pred eEEECCCCcEEEEE
Q 033205 92 KFLVDKNGQVVDRY 105 (125)
Q Consensus 92 tflId~~G~v~~~~ 105 (125)
..+||++|+|+.+.
T Consensus 63 iiFld~~g~Vv~i~ 76 (117)
T PRK03760 63 VIFLDSNRRVVDFK 76 (117)
T ss_pred EEEECCCCeEEEEE
Confidence 68899999999874
No 265
>PRK07329 hypothetical protein; Provisional
Probab=29.04 E-value=1.9e+02 Score=20.79 Aligned_cols=46 Identities=20% Similarity=0.362 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeE
Q 033205 6 YIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 6 ~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~ 58 (125)
+-+++++.++|+.+ ..+|+-++-+ ++....+++++ ..+.+.|-+.+
T Consensus 55 ~~ei~~lk~ky~~~--I~~GlE~~~~----~~~~~~~~~~l-~~~~~DyvIgS 100 (246)
T PRK07329 55 SAEIAELNEKYGNR--IKKGIEIGYF----APREDDILDFL-ANKDFDLKLLS 100 (246)
T ss_pred HHHHHHHHHHhhhh--ceEEEEeCcc----cccHHHHHHHh-ccCCCCeEEEE
Confidence 34667788888765 4789988743 33456778888 46788888765
No 266
>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=28.79 E-value=39 Score=21.30 Aligned_cols=14 Identities=14% Similarity=0.589 Sum_probs=11.3
Q ss_pred eeeEEECCCCcEEE
Q 033205 90 FAKFLVDKNGQVVD 103 (125)
Q Consensus 90 PttflId~~G~v~~ 103 (125)
-..|+||++|+|..
T Consensus 38 s~H~~I~~dG~i~q 51 (132)
T PF01510_consen 38 SYHYVIDRDGTIYQ 51 (132)
T ss_dssp SSSEEEETTSEEEE
T ss_pred eEEEEEecCCeEEE
Confidence 45799999999853
No 267
>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional
Probab=28.57 E-value=1.1e+02 Score=22.43 Aligned_cols=32 Identities=16% Similarity=0.191 Sum_probs=23.5
Q ss_pred eeEEECCCCcEEEEEc---CCCChhHHHHHHHHhh
Q 033205 91 AKFLVDKNGQVVDRYY---PTTSLLSLEHDIKKLL 122 (125)
Q Consensus 91 ttflId~~G~v~~~~~---G~~~~~~l~~~I~~ll 122 (125)
-++.++++|+|..... |.++++.+.+.|+...
T Consensus 221 l~va~~~~g~i~~l~~~g~~~~~~~~l~~~i~~A~ 255 (271)
T PRK04282 221 ITITTDEDGNIVAIQKSGIGSFTEEEVDKAIDIAL 255 (271)
T ss_pred EEEEECCCCcEEEEEcCCCCCCCHHHHHHHHHHHH
Confidence 4778899999977663 4577887877776554
No 268
>PLN02798 nitrilase
Probab=28.47 E-value=61 Score=23.68 Aligned_cols=15 Identities=27% Similarity=0.711 Sum_probs=12.2
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+|+.++
T Consensus 106 s~~vi~~~G~i~~~y 120 (286)
T PLN02798 106 THVLIDDSGEIRSSY 120 (286)
T ss_pred EEEEECCCCCEEEEE
Confidence 578999999987654
No 269
>cd01088 MetAP2 Methionine Aminopeptidase 2. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides.
Probab=28.44 E-value=57 Score=24.18 Aligned_cols=14 Identities=21% Similarity=0.292 Sum_probs=10.7
Q ss_pred ceeeEEECCCCcEE
Q 033205 89 NFAKFLVDKNGQVV 102 (125)
Q Consensus 89 ~PttflId~~G~v~ 102 (125)
.=+|++|.++|.++
T Consensus 275 ~~~T~~v~~~g~~~ 288 (291)
T cd01088 275 FEHTIIVREDGKEV 288 (291)
T ss_pred EEEEEEECCCCcEe
Confidence 35788888888765
No 270
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=28.44 E-value=2e+02 Score=21.55 Aligned_cols=44 Identities=14% Similarity=0.328 Sum_probs=31.4
Q ss_pred ChhhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCH-HHHHHHH
Q 033205 2 TNSNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSN-DQIADFV 46 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~-~~~~~f~ 46 (125)
++.+++.|-.|.+..+.+...+|-+ ||+..+++.++. ..++..+
T Consensus 120 ~k~dl~~Lp~l~~~Lr~~~~kFIlF-cDDLSFe~gd~~yK~LKs~L 164 (287)
T COG2607 120 DKEDLATLPDLVELLRARPEKFILF-CDDLSFEEGDDAYKALKSAL 164 (287)
T ss_pred cHHHHhhHHHHHHHHhcCCceEEEE-ecCCCCCCCchHHHHHHHHh
Confidence 5678888888888888888778766 577777665433 4455566
No 271
>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=28.38 E-value=86 Score=18.90 Aligned_cols=18 Identities=11% Similarity=0.189 Sum_probs=14.7
Q ss_pred eeEEECCCCcEEEEEcCC
Q 033205 91 AKFLVDKNGQVVDRYYPT 108 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~ 108 (125)
+.++.||+|..+..+.|.
T Consensus 101 ~~~~~DP~G~~iel~~~~ 118 (120)
T cd08362 101 GFRFFDPDGRLIEFSADV 118 (120)
T ss_pred EEEEECCCCCEEEEEecc
Confidence 468999999999887653
No 272
>PF11720 Inhibitor_I78: Peptidase inhibitor I78 family; InterPro: IPR021719 This family includes Aspergillus elastase inhibitor and belongs to MEROPS peptidase inhibitor family I78.
Probab=28.27 E-value=84 Score=17.50 Aligned_cols=17 Identities=18% Similarity=0.161 Sum_probs=14.0
Q ss_pred eeeEEECCCCcEEEEEc
Q 033205 90 FAKFLVDKNGQVVDRYY 106 (125)
Q Consensus 90 PttflId~~G~v~~~~~ 106 (125)
..++.+|.+|+|....=
T Consensus 43 RLnv~~D~~g~I~~v~C 59 (60)
T PF11720_consen 43 RLNVEVDDDGVITRVRC 59 (60)
T ss_pred cEEEEECCCCcEEEEec
Confidence 56899999999987653
No 273
>COG3769 Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=28.27 E-value=2.5e+02 Score=20.75 Aligned_cols=43 Identities=14% Similarity=0.330 Sum_probs=27.7
Q ss_pred HHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcc-cceeEeeccCCCc
Q 033205 12 LYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSE-FPIFEKIDVNGEH 66 (125)
Q Consensus 12 l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~-fpv~~~~D~~g~~ 66 (125)
++.+.++.|+.||-.++ .+..++..+. +..++. -|.+ -++|..
T Consensus 31 v~~el~d~G~~Vi~~SS--------KT~aE~~~l~-~~l~v~~~p~i---aEnG~a 74 (274)
T COG3769 31 VLLELKDAGVPVILCSS--------KTRAEMLYLQ-KSLGVQGLPLI---AENGAA 74 (274)
T ss_pred HHHHHHHcCCeEEEecc--------chHHHHHHHH-HhcCCCCCcee---ecCCce
Confidence 34445778999988774 3566665555 577887 6776 345554
No 274
>PF07680 DoxA: TQO small subunit DoxA; InterPro: IPR011636 Thiosulphate:quinone oxidoreductase (TQO) catalyses one of the early steps in elemental sulphur oxidation. A novel TQO enzyme was purified from the thermo-acidophilic archaeon Acidianus ambivalens and shown to consist of a large subunit (DoxD) and a smaller subunit (DoxA). The DoxD- and DoxA-like two subunits are fused together in a single polypeptide in Q8AAF0 from SWISSPROT.
Probab=28.18 E-value=1e+02 Score=20.39 Aligned_cols=21 Identities=24% Similarity=0.275 Sum_probs=17.8
Q ss_pred ccceeeEEECCCCcEEEEEcC
Q 033205 87 QWNFAKFLVDKNGQVVDRYYP 107 (125)
Q Consensus 87 ~~~PttflId~~G~v~~~~~G 107 (125)
..++..-|+|++|+++..+.+
T Consensus 46 sfl~~i~l~d~~g~vv~~~~~ 66 (133)
T PF07680_consen 46 SFLIGIQLKDSTGHVVLNWDQ 66 (133)
T ss_pred ceeeEEEEECCCCCEEEEeCH
Confidence 456888999999999998854
No 275
>TIGR02066 dsrB sulfite reductase, dissimilatory-type beta subunit. This model describes the beta subunit of sulfite reductase.
Probab=28.05 E-value=99 Score=23.70 Aligned_cols=27 Identities=26% Similarity=0.447 Sum_probs=21.5
Q ss_pred CChhhHHHHHHHHHHhcc--------CCeEEEEee
Q 033205 1 MTNSNYIELSQLYDKYKD--------QGLEILAFP 27 (125)
Q Consensus 1 ~~~~e~p~l~~l~~~y~~--------~g~~vvgv~ 27 (125)
+|..+|-.|.++.++|+. +++++.+|+
T Consensus 41 lt~eqLr~LAdiaekyg~g~i~lTtrQnI~l~~I~ 75 (341)
T TIGR02066 41 LSVDTLRKLCDIADKYSDGYLRWTIRNNVEFLVSD 75 (341)
T ss_pred cCHHHHHHHHHHHHHhCCCeEEEeccCCEEEecCC
Confidence 577899999999999975 466666765
No 276
>PF13848 Thioredoxin_6: Thioredoxin-like domain; PDB: 3EC3_B 3BOA_A 2B5E_A 1BJX_A 2K18_A 3UEM_A 3BJ5_A 2BJX_A 2R2J_A 2L4C_A ....
Probab=27.99 E-value=1.4e+02 Score=19.55 Aligned_cols=33 Identities=15% Similarity=-0.045 Sum_probs=22.4
Q ss_pred ccceeeEEECC-CCcEEEEEcCCCChhHHHHHHH
Q 033205 87 QWNFAKFLVDK-NGQVVDRYYPTTSLLSLEHDIK 119 (125)
Q Consensus 87 ~~~PttflId~-~G~v~~~~~G~~~~~~l~~~I~ 119 (125)
..+|+.++++. .++......+.++++.+.+-++
T Consensus 150 ~~~P~~vi~~~~~~~~~~~~~~~~~~~~i~~Fl~ 183 (184)
T PF13848_consen 150 DDLPALVIFDSNKGKYYYLPEGEITPESIEKFLN 183 (184)
T ss_dssp SSSSEEEEEETTTSEEEE--SSCGCHHHHHHHHH
T ss_pred ccCCEEEEEECCCCcEEcCCCCCCCHHHHHHHhc
Confidence 36799999994 4554343467888888877664
No 277
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=27.79 E-value=30 Score=17.38 Aligned_cols=19 Identities=21% Similarity=0.249 Sum_probs=11.1
Q ss_pred CHHHHHHHHHhhCCccccee
Q 033205 38 SNDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 38 ~~~~~~~f~~~~~~~~fpv~ 57 (125)
+..+++..+. .+|+.||.=
T Consensus 5 tV~~Lk~iL~-~~~I~~ps~ 23 (35)
T PF12949_consen 5 TVAQLKRILD-EHGIEFPSN 23 (35)
T ss_dssp -SHHHHHHHH-HHT---SSS
T ss_pred cHHHHHHHHH-HcCCCCCCC
Confidence 3567888884 679999863
No 278
>PRK00302 lnt apolipoprotein N-acyltransferase; Reviewed
Probab=27.61 E-value=2.3e+02 Score=22.69 Aligned_cols=15 Identities=13% Similarity=0.412 Sum_probs=12.3
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
.+.+||++|+|+...
T Consensus 441 ~Saiidp~G~i~~~~ 455 (505)
T PRK00302 441 ITAVIDPLGRIIAQL 455 (505)
T ss_pred eeEEECCCCCEeeec
Confidence 478899999998764
No 279
>cd07587 ML_beta-AS mammalian-like beta-alanine synthase (beta-AS) and similar proteins (class 5 nitrilases). This subgroup includes mammalian-like beta-AS (EC 3.5.1.6, also known as beta-ureidopropionase or N-carbamoyl-beta-alanine amidohydrolase). This enzyme catalyzes the third and final step in the catabolic pyrimidine catabolic pathway responsible for the degradation of uracil and thymine, the hydrolysis of N-carbamyl-beta-alanine and N-carbamyl-beta-aminoisobutyrate to the beta-amino acids, beta-alanine and beta-aminoisobutyrate respectively. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 5. Members of this superfamily generally form homomeric
Probab=27.48 E-value=60 Score=24.97 Aligned_cols=15 Identities=13% Similarity=0.463 Sum_probs=12.4
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+|+.++
T Consensus 172 ta~vi~~~G~ilg~y 186 (363)
T cd07587 172 TAVVISNSGNVLGKS 186 (363)
T ss_pred EEEEECCCCCEEeee
Confidence 679999999987654
No 280
>PHA02762 hypothetical protein; Provisional
Probab=27.48 E-value=1.2e+02 Score=16.87 Aligned_cols=29 Identities=21% Similarity=0.261 Sum_probs=20.2
Q ss_pred eeeEEECCCCcEEEEEcCCCChhHHHHHHH
Q 033205 90 FAKFLVDKNGQVVDRYYPTTSLLSLEHDIK 119 (125)
Q Consensus 90 PttflId~~G~v~~~~~G~~~~~~l~~~I~ 119 (125)
+.|+=||.+|++.+...-+.+ .+|..-|+
T Consensus 29 fvtigide~g~iayisiep~d-kdl~~~i~ 57 (62)
T PHA02762 29 FVTIGIDENDKISYISIEPLD-KDLKEGIK 57 (62)
T ss_pred EEEEeECCCCcEEEEEecccc-hHHHHhhh
Confidence 668889999999998754443 34544444
No 281
>COG0694 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]
Probab=27.37 E-value=1.2e+02 Score=18.82 Aligned_cols=30 Identities=27% Similarity=0.367 Sum_probs=20.7
Q ss_pred ECC-CCcEEEEEcCC-----CChhHHHHHHHHhhcc
Q 033205 95 VDK-NGQVVDRYYPT-----TSLLSLEHDIKKLLGL 124 (125)
Q Consensus 95 Id~-~G~v~~~~~G~-----~~~~~l~~~I~~ll~~ 124 (125)
|++ +|.|.-++.|+ .+.-.|..-|+++|.+
T Consensus 38 i~~~~g~V~l~l~GaC~gC~sS~~TLk~gIE~~L~~ 73 (93)
T COG0694 38 IDEEDGVVYLRLGGACSGCPSSTVTLKNGIERQLKE 73 (93)
T ss_pred EecCCCeEEEEeCCcCCCCcccHHHHHHHHHHHHHH
Confidence 565 88777778775 4556677777777653
No 282
>PRK10819 transport protein TonB; Provisional
Probab=27.31 E-value=1.1e+02 Score=22.28 Aligned_cols=32 Identities=25% Similarity=0.376 Sum_probs=20.4
Q ss_pred eeEEECCCCcEEEEEcCCC-ChhHHHHHHHHhh
Q 033205 91 AKFLVDKNGQVVDRYYPTT-SLLSLEHDIKKLL 122 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~~-~~~~l~~~I~~ll 122 (125)
-.|.||.+|+|....+-.. ....+++.+.+++
T Consensus 185 V~f~I~~~G~V~~v~V~~Ssg~~~fD~aal~Av 217 (246)
T PRK10819 185 VKFDVDEDGRVDNVRILSAEPRNMFEREVKQAM 217 (246)
T ss_pred EEEEECCCCCEEEEEEeccCChHHHHHHHHHHH
Confidence 4799999999988654222 2334665555443
No 283
>PRK13610 photosystem II reaction center protein Psb28; Provisional
Probab=27.30 E-value=62 Score=20.81 Aligned_cols=14 Identities=29% Similarity=0.593 Sum_probs=11.9
Q ss_pred eEEECCCCcEEEEE
Q 033205 92 KFLVDKNGQVVDRY 105 (125)
Q Consensus 92 tflId~~G~v~~~~ 105 (125)
+||||.+|.++-+-
T Consensus 58 M~LiDeEGei~tr~ 71 (113)
T PRK13610 58 MFLIDSEGVLSTKK 71 (113)
T ss_pred eEEEccCceEEEEe
Confidence 79999999997753
No 284
>COG0526 TrxA Thiol-disulfide isomerase and thioredoxins [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]
Probab=27.19 E-value=97 Score=17.69 Aligned_cols=26 Identities=19% Similarity=0.351 Sum_probs=21.1
Q ss_pred hhhHHHHHHHHHHhccCCeEEEEeeCC
Q 033205 3 NSNYIELSQLYDKYKDQGLEILAFPCN 29 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~g~~vvgv~~~ 29 (125)
...+|.|.++.+++.. .+.+++++..
T Consensus 48 ~~~~~~l~~~~~~~~~-~~~~~~i~~~ 73 (127)
T COG0526 48 RAEAPLLEELAEEYGG-DVEVVAVNVD 73 (127)
T ss_pred HhhchhHHHHHHHhcC-CcEEEEEECC
Confidence 3568999999999986 5888898864
No 285
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=26.89 E-value=1.1e+02 Score=18.26 Aligned_cols=30 Identities=27% Similarity=0.315 Sum_probs=23.2
Q ss_pred eeEEECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 91 AKFLVDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
.|++|=+.|+|+-. |.-+.++++..+++++
T Consensus 50 ~t~~IF~sGki~it--Gaks~~~~~~a~~~i~ 79 (86)
T PF00352_consen 50 ATVLIFSSGKIVIT--GAKSEEEAKKAIEKIL 79 (86)
T ss_dssp EEEEEETTSEEEEE--EESSHHHHHHHHHHHH
T ss_pred EEEEEEcCCEEEEE--ecCCHHHHHHHHHHHH
Confidence 47888899999876 5667888877777654
No 286
>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=26.87 E-value=69 Score=22.69 Aligned_cols=15 Identities=20% Similarity=0.567 Sum_probs=12.6
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++||++|+|+.++
T Consensus 93 s~~~i~~~G~i~~~y 107 (255)
T cd07581 93 TLVVVGPDGEIIAVY 107 (255)
T ss_pred eEEEECCCCcEEEEE
Confidence 578999999988765
No 287
>PRK15078 polysaccharide export protein Wza; Provisional
Probab=26.75 E-value=65 Score=25.04 Aligned_cols=32 Identities=19% Similarity=0.290 Sum_probs=24.8
Q ss_pred eEEECCCCcEEEEEcCC-----CChhHHHHHHHHhhc
Q 033205 92 KFLVDKNGQVVDRYYPT-----TSLLSLEHDIKKLLG 123 (125)
Q Consensus 92 tflId~~G~v~~~~~G~-----~~~~~l~~~I~~ll~ 123 (125)
.+.||++|.|-.=+.|. .+.+++++.|.+.|+
T Consensus 117 g~~V~~dG~I~~P~vG~V~vaG~T~~e~~~~I~~~L~ 153 (379)
T PRK15078 117 GNWVHADGTIFYPYIGKVHVAGKTVTEIRSDITGRLA 153 (379)
T ss_pred CCEECCCCeEeeccCceEEECCCCHHHHHHHHHHHHH
Confidence 35799999998876664 467788888887764
No 288
>PF07643 DUF1598: Protein of unknown function (DUF1598); InterPro: IPR011487 This is a family of Rhodopirellula baltica hypothetical proteins of about 500 amino acids in length.
Probab=26.74 E-value=80 Score=19.24 Aligned_cols=22 Identities=14% Similarity=0.264 Sum_probs=18.4
Q ss_pred HHHHHHHHhccCCeEEEEeeCC
Q 033205 8 ELSQLYDKYKDQGLEILAFPCN 29 (125)
Q Consensus 8 ~l~~l~~~y~~~g~~vvgv~~~ 29 (125)
.+..|.+..+.+.+.|.||+.+
T Consensus 32 ~~~~l~~~LG~QdV~V~Gip~~ 53 (84)
T PF07643_consen 32 WVDGLRQALGPQDVTVYGIPAD 53 (84)
T ss_pred HHHHHHHHhCCceeEEEccCCc
Confidence 4577888899999999999853
No 289
>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=26.70 E-value=67 Score=22.68 Aligned_cols=15 Identities=40% Similarity=0.820 Sum_probs=12.4
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+|+.++
T Consensus 93 s~~~i~~~G~i~~~y 107 (254)
T cd07576 93 AAVLIDEDGTVLANY 107 (254)
T ss_pred EEEEECCCCCEeeEE
Confidence 578999999987655
No 290
>KOG2116 consensus Protein involved in plasmid maintenance/nuclear protein involved in lipid metabolism [Cell motility; Lipid transport and metabolism]
Probab=26.68 E-value=3.8e+02 Score=22.96 Aligned_cols=90 Identities=21% Similarity=0.350 Sum_probs=50.9
Q ss_pred HHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHH--hhCCcc---cceeEeeccCCCccchHHHHHHhCCCC--
Q 033205 8 ELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVC--TRFKSE---FPIFEKIDVNGEHASPLYKLLKSGKWG-- 80 (125)
Q Consensus 8 ~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~--~~~~~~---fpv~~~~D~~g~~~~~~~~~l~~~~~~-- 80 (125)
...+||.+-+..|..+|=.+....+ | ...-+.|++ ++-|.. =||+ +-+++-.+. |+.-...+.++
T Consensus 562 GVAkLyt~Ik~NGYk~lyLSARaIg-Q----A~~TR~yL~nv~QdG~~LPdGPVi--LSPd~lf~A-l~REVI~RkPe~F 633 (738)
T KOG2116|consen 562 GVAKLYTKIKENGYKILYLSARAIG-Q----ADSTRQYLKNVEQDGKKLPDGPVI--LSPDSLFAA-LHREVIERKPEVF 633 (738)
T ss_pred hHHHHHHHHHhCCeeEEEEehhhhh-h----hHHHHHHHHHHhhcCccCCCCCEE--eCCCcchHH-HHHHHHHcCchhh
Confidence 3578999999999999988865322 2 223344541 122433 3777 555554433 55432222221
Q ss_pred ---------------------CCCCCcc--------ccee--eEEECCCCcEEEEE
Q 033205 81 ---------------------IFGDDIQ--------WNFA--KFLVDKNGQVVDRY 105 (125)
Q Consensus 81 ---------------------~~g~~i~--------~~Pt--tflId~~G~v~~~~ 105 (125)
.||.++. ++|. -|.||+.|+|+.-+
T Consensus 634 KIAcL~DIk~LF~p~~nPFYAgFGNR~TDviSY~~VgVP~~RIFtINpkGEv~~e~ 689 (738)
T KOG2116|consen 634 KIACLTDIKNLFPPSGNPFYAGFGNRITDVISYRQVGVPLSRIFTINPKGEVIQEL 689 (738)
T ss_pred hHHHHHHHHHhcCCCCCceeeecCCCcccceeeeeecCCccceEEECCCceehHHH
Confidence 2443321 3454 69999999997644
No 291
>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=26.64 E-value=63 Score=23.80 Aligned_cols=15 Identities=20% Similarity=0.667 Sum_probs=12.7
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+++.++
T Consensus 107 s~~vi~~~G~i~~~y 121 (297)
T cd07564 107 TQLLIDPDGELLGKH 121 (297)
T ss_pred EEEEEcCCCCEeeee
Confidence 578999999988776
No 292
>PF02484 Rhabdo_NV: Rhabdovirus Non-virion protein; InterPro: IPR003490 Infectious hematopoietic necrosis virus (IHNV) is a member of the family Rhabdoviridae. The non-virion protein (NV) is coded for by one of the six genes of the IHNV genome [], but is absent in vesiculovirus-like rhabdovirus [].
Probab=26.46 E-value=97 Score=19.20 Aligned_cols=29 Identities=21% Similarity=0.177 Sum_probs=18.7
Q ss_pred eeeEEECCCCcEEEEEcCCCChhHHHHHHH
Q 033205 90 FAKFLVDKNGQVVDRYYPTTSLLSLEHDIK 119 (125)
Q Consensus 90 PttflId~~G~v~~~~~G~~~~~~l~~~I~ 119 (125)
-.-|++| +|++|++-.|......|-..+.
T Consensus 25 ~hgflfd-dg~~vw~e~~d~~w~rl~~vv~ 53 (111)
T PF02484_consen 25 RHGFLFD-DGDIVWSEDDDETWNRLCDVVN 53 (111)
T ss_pred ccceEec-CCcEEEecCChHHHHHHHHHHH
Confidence 3457886 8999998776655554443333
No 293
>PRK13797 putative bifunctional allantoicase/OHCU decarboxylase; Provisional
Probab=26.40 E-value=1.9e+02 Score=23.66 Aligned_cols=42 Identities=10% Similarity=0.233 Sum_probs=25.8
Q ss_pred CChhhHHHHHHHHHHhccC-CeEEEEeeCCCCCCCCCCCHHHHHHHHHhh
Q 033205 1 MTNSNYIELSQLYDKYKDQ-GLEILAFPCNQFGEEEPGSNDQIADFVCTR 49 (125)
Q Consensus 1 ~~~~e~p~l~~l~~~y~~~-g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~ 49 (125)
+|..|+-.|.++.++|++| |+.+|--.. ..+.+++.+-++++
T Consensus 443 ls~~e~~~L~~lN~aY~eKFGFpFIIca~-------G~s~~eILa~l~~R 485 (516)
T PRK13797 443 AAEDVRAAFARGNAAYEERFGFIFLVRAA-------GRGAEEMLELLRAR 485 (516)
T ss_pred CCHHHHHHHHHHHHHHHHhCCCeEEEEEC-------CCCHHHHHHHHHHH
Confidence 3667888888888888877 665543221 12456665555444
No 294
>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=26.39 E-value=71 Score=22.98 Aligned_cols=24 Identities=21% Similarity=0.347 Sum_probs=15.9
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeC
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPC 28 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~ 28 (125)
.+..+.++.++-..+|..+|.++-
T Consensus 17 Nl~~~~~~i~~A~~~gadlivfPE 40 (279)
T TIGR03381 17 NIARAERLVREAAARGAQIILLPE 40 (279)
T ss_pred HHHHHHHHHHHHHHCCCCEEEccc
Confidence 345566677776677888877653
No 295
>cd03019 DsbA_DsbA DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol oxidant known, due to the unusual stability of the thiolate anion form of the first cysteine in the CXXC motif. The highly unstable oxidized form of DsbA directly donates disulfide bonds to reduced proteins secreted into the bacterial periplasm. This rapid and unidirectional process helps to catalyze the folding of newly-synthesized polypeptides. To regain catalytic activity, reduced DsbA is then reoxidized by the membrane protein DsbB, which generates its disulfides from oxidized quinones, which in turn are reoxidized by the electron transport chain.
Probab=26.38 E-value=85 Score=20.67 Aligned_cols=17 Identities=35% Similarity=0.172 Sum_probs=10.9
Q ss_pred CcccceeeEEECCCCcEEEE
Q 033205 85 DIQWNFAKFLVDKNGQVVDR 104 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~ 104 (125)
+|.++||.+ | +|+.+-.
T Consensus 140 gi~gTPt~i-I--nG~~~~~ 156 (178)
T cd03019 140 KITGVPAFV-V--NGKYVVN 156 (178)
T ss_pred CCCCCCeEE-E--CCEEEEC
Confidence 478889865 4 5765443
No 296
>smart00644 Ami_2 Ami_2.
Probab=26.38 E-value=66 Score=20.22 Aligned_cols=16 Identities=31% Similarity=0.341 Sum_probs=12.0
Q ss_pred ceeeEEECCCCcEEEE
Q 033205 89 NFAKFLVDKNGQVVDR 104 (125)
Q Consensus 89 ~PttflId~~G~v~~~ 104 (125)
....|+||++|+|..-
T Consensus 33 ~~~H~~I~~dG~i~~~ 48 (126)
T smart00644 33 IGYHFLVGGDGRVYQG 48 (126)
T ss_pred eeeEEEEcCCCEEEEc
Confidence 3567889999888664
No 297
>TIGR00501 met_pdase_II methionine aminopeptidase, type II. Methionine aminopeptidase (map) is a cobalt-binding enzyme. Bacterial and organellar examples (type I) differ from eukaroytic and archaeal (type II) examples in lacking a region of approximately 60 amino acids between the 4th and 5th cobalt-binding ligands. The role of this protein in general is to produce the mature amino end of cytosolic proteins by removing the N-terminal methionine. This model describes type II, among which the eukaryotic members typically have an N-terminal extension not present in archaeal members. It can act cotranslationally. The enzyme from rat has been shown to associate with translation initiation factor 2 (IF-2) and may have a role in translational regulation.
Probab=26.37 E-value=66 Score=23.95 Aligned_cols=15 Identities=27% Similarity=0.273 Sum_probs=11.1
Q ss_pred cceeeEEECCCCcEE
Q 033205 88 WNFAKFLVDKNGQVV 102 (125)
Q Consensus 88 ~~PttflId~~G~v~ 102 (125)
..-+|++|.++|..+
T Consensus 278 q~~~Tv~v~~~g~~~ 292 (295)
T TIGR00501 278 QWEHTILVEEHGKEV 292 (295)
T ss_pred EEEEEEEECCCccEE
Confidence 346788888888765
No 298
>PF05378 Hydant_A_N: Hydantoinase/oxoprolinase N-terminal region; InterPro: IPR008040 This domain is found at the N terminus of the hydantoinase/oxoprolinase IPR002821 from INTERPRO family.
Probab=26.16 E-value=1.3e+02 Score=20.66 Aligned_cols=42 Identities=21% Similarity=0.391 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHH
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVC 47 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~ 47 (125)
...++.+..++.+++|+.-|+|+.- |+.-++.-...+++.++
T Consensus 132 d~~~v~~~~~~l~~~gv~avAV~~~-fS~~np~hE~~v~eii~ 173 (176)
T PF05378_consen 132 DEDEVREALRELKDKGVEAVAVSLL-FSYRNPEHEQRVAEIIR 173 (176)
T ss_pred CHHHHHHHHHHHHhCCCCEEEEECc-cCCCCHHHHHHHHHHHH
Confidence 3457888888888888888888763 32233322345666663
No 299
>PRK11789 N-acetyl-anhydromuranmyl-L-alanine amidase; Provisional
Probab=26.01 E-value=63 Score=22.60 Aligned_cols=14 Identities=36% Similarity=0.824 Sum_probs=11.6
Q ss_pred eeeEEECCCCcEEE
Q 033205 90 FAKFLVDKNGQVVD 103 (125)
Q Consensus 90 PttflId~~G~v~~ 103 (125)
=..|+|+++|+|..
T Consensus 75 SaHy~I~rdG~I~Q 88 (185)
T PRK11789 75 SAHFLIRRDGEIVQ 88 (185)
T ss_pred eEEEEECCCCeEEE
Confidence 45799999999964
No 300
>PF06018 CodY: CodY GAF-like domain; InterPro: IPR010312 This family consists of several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; GO: 0003677 DNA binding, 0005525 GTP binding; PDB: 2HGV_A 2GX5_D 2B0L_C 2B18_A.
Probab=25.96 E-value=1.3e+02 Score=20.88 Aligned_cols=17 Identities=6% Similarity=0.489 Sum_probs=13.6
Q ss_pred eeEEECCCCcEEEEEcC
Q 033205 91 AKFLVDKNGQVVDRYYP 107 (125)
Q Consensus 91 ttflId~~G~v~~~~~G 107 (125)
..|+|+++|+|......
T Consensus 37 NvyIis~kGkiLGy~~~ 53 (177)
T PF06018_consen 37 NVYIISRKGKILGYSFI 53 (177)
T ss_dssp EEEEEETTSBEEEEE-S
T ss_pred cEEEEeCCccEEEEecc
Confidence 36999999999998654
No 301
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=25.92 E-value=98 Score=18.61 Aligned_cols=35 Identities=23% Similarity=0.306 Sum_probs=22.9
Q ss_pred HHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcc-ccee
Q 033205 9 LSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSE-FPIF 57 (125)
Q Consensus 9 l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~-fpv~ 57 (125)
+..+.+++.+.|+.|++=. .-.+|++ ++|++ -.+.
T Consensus 2 ~~~~a~~l~~lG~~i~AT~-------------gTa~~L~-~~Gi~~~~v~ 37 (95)
T PF02142_consen 2 IVPLAKRLAELGFEIYATE-------------GTAKFLK-EHGIEVTEVV 37 (95)
T ss_dssp HHHHHHHHHHTTSEEEEEH-------------HHHHHHH-HTT--EEECC
T ss_pred HHHHHHHHHHCCCEEEECh-------------HHHHHHH-HcCCCceeee
Confidence 5677788888999998832 2347885 67988 3443
No 302
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=25.90 E-value=97 Score=18.77 Aligned_cols=21 Identities=19% Similarity=0.387 Sum_probs=17.4
Q ss_pred HHHHHHHHhccCCeEEEEeeC
Q 033205 8 ELSQLYDKYKDQGLEILAFPC 28 (125)
Q Consensus 8 ~l~~l~~~y~~~g~~vvgv~~ 28 (125)
.+.+||+.|++.|+-+|.-+.
T Consensus 62 ~~g~LY~~~~~dGfLyi~Ys~ 82 (87)
T cd01612 62 NVGNLYRCFGTNGELIVSYCK 82 (87)
T ss_pred HHHHHHHhcCCCCEEEEEEeC
Confidence 678999999878988887764
No 303
>PF07449 HyaE: Hydrogenase-1 expression protein HyaE; InterPro: IPR010893 This family contains bacterial hydrogenase-1 expression proteins approximately 120 residues long. This includes the Escherichia coli protein HyaE, and the homologous proteins HoxO of Ralstonia eutropha (Alcaligenes eutrophus) and HupG of Rhizobium leguminosarum. Deletion of the hoxO gene in R. eutropha led to complete loss of the uptake [NiFe] hydrogenase activity, suggesting that it has a critical role in hydrogenase assembly [].; PDB: 2QSI_B 2ES7_A 2GZP_A 2JZT_A 2HFD_A 2QGV_G.
Probab=25.89 E-value=1.1e+02 Score=19.42 Aligned_cols=28 Identities=7% Similarity=0.058 Sum_probs=21.1
Q ss_pred CcccceeeEEECCCCcEEEEEcCCCChhH
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTTSLLS 113 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~~~~~ 113 (125)
++...|+.+++ ++|+.+....|-.+..+
T Consensus 79 gv~~~PaLvf~-R~g~~lG~i~gi~dW~d 106 (107)
T PF07449_consen 79 GVRRWPALVFF-RDGRYLGAIEGIRDWAD 106 (107)
T ss_dssp T-TSSSEEEEE-ETTEEEEEEESSSTHHH
T ss_pred CCccCCeEEEE-ECCEEEEEecCeecccc
Confidence 46778988777 89999999888766543
No 304
>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=25.58 E-value=66 Score=18.39 Aligned_cols=13 Identities=23% Similarity=0.616 Sum_probs=11.4
Q ss_pred eEEECCCCcEEEE
Q 033205 92 KFLVDKNGQVVDR 104 (125)
Q Consensus 92 tflId~~G~v~~~ 104 (125)
.+++|++|+|+..
T Consensus 4 i~i~d~~g~i~~~ 16 (104)
T PF13426_consen 4 IFILDPDGRILYV 16 (104)
T ss_dssp EEEEETTSBEEEE
T ss_pred EEEECCcCcEEeh
Confidence 5889999999986
No 305
>cd07571 ALP_N-acyl_transferase Apolipoprotein N-acyl transferase (class 9 nitrilases). ALP N-acyl transferase (Lnt), is an essential membrane-bound enzyme in gram-negative bacteria, which catalyzes the N-acylation of apolipoproteins, the final step in lipoprotein maturation. This is a reverse amidase (i.e. condensation) reaction. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 9.
Probab=25.53 E-value=2.6e+02 Score=20.16 Aligned_cols=14 Identities=29% Similarity=0.667 Sum_probs=12.1
Q ss_pred eEEECCCCcEEEEE
Q 033205 92 KFLVDKNGQVVDRY 105 (125)
Q Consensus 92 tflId~~G~v~~~~ 105 (125)
+.++|++|+++...
T Consensus 222 S~ivdp~G~ii~~~ 235 (270)
T cd07571 222 SAVIDPDGRIVARL 235 (270)
T ss_pred eEEECCCCcEEeec
Confidence 78899999999874
No 306
>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=25.51 E-value=92 Score=18.96 Aligned_cols=17 Identities=6% Similarity=-0.007 Sum_probs=13.8
Q ss_pred eeeEEECCCCcEEEEEc
Q 033205 90 FAKFLVDKNGQVVDRYY 106 (125)
Q Consensus 90 PttflId~~G~v~~~~~ 106 (125)
...++.||+|.++....
T Consensus 102 r~~~~~DPdGn~iei~~ 118 (120)
T cd09011 102 RVVRFYDPDKHIIEVGE 118 (120)
T ss_pred EEEEEECCCCCEEEEec
Confidence 46789999999987653
No 307
>TIGR03047 PS_II_psb28 photosystem II reaction center protein Psb28. Members of this protein family are the Psb28 protein of photosystem II. Two different protein families, apparently without homology between them, have been designated PsbW. Cyanobacterial proteins previously designated PsbW are members of the family described here. However, while members of the plant PsbW family are not found (so far) in Cyanobacteria, members of the present family do occur in plants. We therefore support the alternative designation that has emerged for this protein family, Psp28, rather than PsbW.
Probab=25.45 E-value=70 Score=20.46 Aligned_cols=14 Identities=36% Similarity=0.819 Sum_probs=12.1
Q ss_pred eEEECCCCcEEEEE
Q 033205 92 KFLVDKNGQVVDRY 105 (125)
Q Consensus 92 tflId~~G~v~~~~ 105 (125)
+||||.+|.++-+-
T Consensus 51 m~LiDeEGei~tr~ 64 (109)
T TIGR03047 51 MYLIDEEGEIVTRE 64 (109)
T ss_pred EEEEccCccEEEEe
Confidence 79999999997764
No 308
>COG1430 Uncharacterized conserved protein [Function unknown]
Probab=25.43 E-value=81 Score=20.68 Aligned_cols=16 Identities=31% Similarity=0.503 Sum_probs=13.9
Q ss_pred eeEEECCCCcEEEEEc
Q 033205 91 AKFLVDKNGQVVDRYY 106 (125)
Q Consensus 91 ttflId~~G~v~~~~~ 106 (125)
-.++||.||+|+.++.
T Consensus 65 DiiFid~dg~i~~i~~ 80 (126)
T COG1430 65 DIIFIDSDGRVVDIVE 80 (126)
T ss_pred EEEEEcCCCCEEEEEe
Confidence 4788999999999875
No 309
>PF02670 DXP_reductoisom: 1-deoxy-D-xylulose 5-phosphate reductoisomerase; InterPro: IPR013512 1-deoxy-D-xylulose 5-phosphate reductoisomerase synthesises 2-C-methyl-D-erythritol 4-phosphate from 1-deoxy-D-xylulose 5-phosphate in a single step by intramolecular rearrangement and reduction and is responsible for terpenoid biosynthesis in some organisms []. In Arabidopsis thaliana 1-deoxy-D-xylulose 5-phosphate reductoisomerase is the first committed enzyme of the non-mevalonate pathway for isoprenoid biosynthesis. The enzyme requires Mn2+, Co2+ or Mg2+ for activity, with the first being most effective. This domain is found at the N terminus of bacterial and plant 1-deoxy-D-xylulose 5-phosphate reductoisomerases.; GO: 0070402 NADPH binding, 0055114 oxidation-reduction process; PDB: 1R0K_D 1R0L_C 3A14_A 3A06_A 3AUA_A 3AU9_B 3AU8_B 3IIE_A 2Y1D_B 4AIC_A ....
Probab=25.43 E-value=1.7e+02 Score=19.19 Aligned_cols=38 Identities=18% Similarity=0.440 Sum_probs=26.6
Q ss_pred HHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCccccee
Q 033205 11 QLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 11 ~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~ 57 (125)
++.++++++ |+|+|+++. .+.+.+.+-++ +++..|-++
T Consensus 16 dVi~~~~d~-f~v~~Lsa~-------~n~~~L~~q~~-~f~p~~v~i 53 (129)
T PF02670_consen 16 DVIRKHPDK-FEVVALSAG-------SNIEKLAEQAR-EFKPKYVVI 53 (129)
T ss_dssp HHHHHCTTT-EEEEEEEES-------STHHHHHHHHH-HHT-SEEEE
T ss_pred HHHHhCCCc-eEEEEEEcC-------CCHHHHHHHHH-HhCCCEEEE
Confidence 455677765 999999975 24677777774 677777666
No 310
>COG0810 TonB Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]
Probab=25.27 E-value=1.1e+02 Score=21.95 Aligned_cols=29 Identities=24% Similarity=0.291 Sum_probs=18.5
Q ss_pred eeeEEECCCCcEEEEEcCCCCh-hHHHHHH
Q 033205 90 FAKFLVDKNGQVVDRYYPTTSL-LSLEHDI 118 (125)
Q Consensus 90 PttflId~~G~v~~~~~G~~~~-~~l~~~I 118 (125)
=-+|.||++|+|...-+...+. ..|++..
T Consensus 183 ~V~f~i~~~G~v~~v~v~~SSg~~~lD~aa 212 (244)
T COG0810 183 KVKFTIDPDGNVTNVRVLKSSGSPALDRAA 212 (244)
T ss_pred EEEEEECCCCCEeeeEEeecCCcHHHHHHH
Confidence 3579999999998765543332 3344433
No 311
>cd03419 GRX_GRXh_1_2_like Glutaredoxin (GRX) family, GRX human class 1 and 2 (h_1_2)-like subfamily; composed of proteins similar to human GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes
Probab=25.25 E-value=1.4e+02 Score=16.79 Aligned_cols=21 Identities=10% Similarity=0.210 Sum_probs=15.2
Q ss_pred HHHHHHHHhhCCcccceeEeecc
Q 033205 40 DQIADFVCTRFKSEFPIFEKIDV 62 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~~~~D~ 62 (125)
..+++++. ++++.|..+. .|.
T Consensus 14 ~~~~~~l~-~~~~~~~~~~-v~~ 34 (82)
T cd03419 14 KRAKSLLK-ELGVKPAVVE-LDQ 34 (82)
T ss_pred HHHHHHHH-HcCCCcEEEE-EeC
Confidence 67888894 6799888764 443
No 312
>PLN00039 photosystem II reaction center Psb28 protein; Provisional
Probab=24.95 E-value=73 Score=20.45 Aligned_cols=14 Identities=14% Similarity=0.389 Sum_probs=12.1
Q ss_pred eEEECCCCcEEEEE
Q 033205 92 KFLVDKNGQVVDRY 105 (125)
Q Consensus 92 tflId~~G~v~~~~ 105 (125)
+||||.+|.|+-+-
T Consensus 52 m~liDeEGei~tr~ 65 (111)
T PLN00039 52 LYMIDEEGVLQTVD 65 (111)
T ss_pred EEEEccCccEEEEe
Confidence 79999999997764
No 313
>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.
Probab=24.94 E-value=1.3e+02 Score=16.97 Aligned_cols=26 Identities=15% Similarity=0.258 Sum_probs=17.1
Q ss_pred eeeEEECCCCcEEEEEcCCCChhHHHHHHHH
Q 033205 90 FAKFLVDKNGQVVDRYYPTTSLLSLEHDIKK 120 (125)
Q Consensus 90 PttflId~~G~v~~~~~G~~~~~~l~~~I~~ 120 (125)
|. ++|+++|. +.+.++++.+.+.|++
T Consensus 51 P~-v~i~~~~~----~y~~v~~~~~~~il~~ 76 (77)
T cd02980 51 PV-VVVYPDGV----WYGRVTPEDVEEIVEE 76 (77)
T ss_pred CE-EEEeCCCe----EEccCCHHHHHHHHHh
Confidence 54 56667663 4466788888777764
No 314
>PRK04101 fosfomycin resistance protein FosB; Provisional
Probab=24.91 E-value=1.1e+02 Score=19.37 Aligned_cols=29 Identities=14% Similarity=0.052 Sum_probs=21.0
Q ss_pred eeeEEECCCCcEEEEEcCCCChhHHHHHHHH
Q 033205 90 FAKFLVDKNGQVVDRYYPTTSLLSLEHDIKK 120 (125)
Q Consensus 90 PttflId~~G~v~~~~~G~~~~~~l~~~I~~ 120 (125)
-..|+-||+|.++....|..+... +.+.+
T Consensus 102 ~~~~~~DPdGn~iEl~~~~~~~~~--~~~~~ 130 (139)
T PRK04101 102 KSIYFTDPDGHKFEFHTGTLQDRL--NYYKE 130 (139)
T ss_pred eEEEEECCCCCEEEEEeCCHHHHH--HHHhc
Confidence 457899999999999988764332 44443
No 315
>CHL00128 psbW photosystem II protein W; Reviewed
Probab=24.89 E-value=73 Score=20.53 Aligned_cols=14 Identities=29% Similarity=0.681 Sum_probs=12.1
Q ss_pred eEEECCCCcEEEEE
Q 033205 92 KFLVDKNGQVVDRY 105 (125)
Q Consensus 92 tflId~~G~v~~~~ 105 (125)
+||||.+|.++-+-
T Consensus 54 m~LiDeEGei~tr~ 67 (113)
T CHL00128 54 MYLIDEEGELSTRD 67 (113)
T ss_pred EEEEccCccEEEEe
Confidence 79999999997764
No 316
>TIGR00035 asp_race aspartate racemase.
Probab=24.68 E-value=1.7e+02 Score=20.69 Aligned_cols=43 Identities=19% Similarity=0.395 Sum_probs=28.2
Q ss_pred HHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeE
Q 033205 6 YIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 6 ~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~ 58 (125)
.|.+.+..+.....|+..|.|+|+ +...+...+++ .++.|++.
T Consensus 61 ~~~l~~~~~~L~~~g~d~iviaCN--------Tah~~~~~l~~--~~~iPii~ 103 (229)
T TIGR00035 61 RPILIDIAVKLENAGADFIIMPCN--------TAHKFAEDIQK--AIGIPLIS 103 (229)
T ss_pred HHHHHHHHHHHHHcCCCEEEECCc--------cHHHHHHHHHH--hCCCCEec
Confidence 456677777777789999999997 23333344533 34567773
No 317
>cd04480 RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of uncharacterized plant OB folds with similarity to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change.
Probab=24.64 E-value=1.6e+02 Score=17.28 Aligned_cols=15 Identities=27% Similarity=0.512 Sum_probs=10.8
Q ss_pred eeeEEECCCCcEEEE
Q 033205 90 FAKFLVDKNGQVVDR 104 (125)
Q Consensus 90 PttflId~~G~v~~~ 104 (125)
....|+|.+|.-+..
T Consensus 21 ~~miL~De~G~~I~a 35 (86)
T cd04480 21 LEMVLVDEKGNRIHA 35 (86)
T ss_pred EEEEEEcCCCCEEEE
Confidence 678899999944443
No 318
>PRK13612 photosystem II reaction center protein Psb28; Provisional
Probab=24.59 E-value=75 Score=20.48 Aligned_cols=14 Identities=29% Similarity=0.790 Sum_probs=12.1
Q ss_pred eEEECCCCcEEEEE
Q 033205 92 KFLVDKNGQVVDRY 105 (125)
Q Consensus 92 tflId~~G~v~~~~ 105 (125)
+||||.+|.|+-+-
T Consensus 54 m~LiDeEGei~tr~ 67 (113)
T PRK13612 54 MYMIDEEGEIVTRE 67 (113)
T ss_pred EEEEccCccEEEEe
Confidence 79999999997764
No 319
>PRK11024 colicin uptake protein TolR; Provisional
Probab=24.56 E-value=2.1e+02 Score=18.67 Aligned_cols=34 Identities=12% Similarity=-0.119 Sum_probs=23.5
Q ss_pred eeeEEECCCCcEEEEEcCC----CChhHHHHHHHHhhc
Q 033205 90 FAKFLVDKNGQVVDRYYPT----TSLLSLEHDIKKLLG 123 (125)
Q Consensus 90 PttflId~~G~v~~~~~G~----~~~~~l~~~I~~ll~ 123 (125)
|-++-|+++|++.....|. ++.++|...++.+++
T Consensus 62 ~i~i~i~~~g~~~~~~n~~~~~~v~~~~L~~~l~~~~~ 99 (141)
T PRK11024 62 PVIVEVSGVGQYTVVVDKDRMEQLPEEQVVAEAKSRFK 99 (141)
T ss_pred CEEEEEeCCCcEEEeeCCccccccCHHHHHHHHHHHHh
Confidence 6678889999985433342 466778777777654
No 320
>PRK10954 periplasmic protein disulfide isomerase I; Provisional
Probab=24.50 E-value=1.4e+02 Score=20.67 Aligned_cols=37 Identities=16% Similarity=0.112 Sum_probs=20.3
Q ss_pred CcccceeeEEECCCCcEEEEEcC------CCChhHHHHHHHHhhcc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYP------TTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G------~~~~~~l~~~I~~ll~~ 124 (125)
+|+++|+ |+|| |+.+--..+ ..+.+++.+.|.-|+++
T Consensus 164 gI~gtPt-fiIn--Gky~v~~~~~~~~~~~~~~~~~~~~i~~L~~k 206 (207)
T PRK10954 164 QLRGVPA-MFVN--GKYMVNNQGMDTSSMDVYVQQYADVVKFLLEK 206 (207)
T ss_pred CCCCCCE-EEEC--CEEEEccccccccchhhhHHHHHHHHHHHHcC
Confidence 4889997 5564 654322222 11345666667666653
No 321
>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=24.42 E-value=1.5e+02 Score=20.15 Aligned_cols=35 Identities=23% Similarity=0.435 Sum_probs=26.6
Q ss_pred HHHHHHHHHhccCCeEEEEeeCCCCCCCCCC-CHHHHHHHHH
Q 033205 7 IELSQLYDKYKDQGLEILAFPCNQFGEEEPG-SNDQIADFVC 47 (125)
Q Consensus 7 p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~-~~~~~~~f~~ 47 (125)
|...+++.+++++|..|+=+++. +. .....+.|+.
T Consensus 30 ~g~~~l~~~i~~~GY~ilYlTaR------p~~qa~~Tr~~L~ 65 (157)
T PF08235_consen 30 PGAAELYRKIADNGYKILYLTAR------PIGQANRTRSWLA 65 (157)
T ss_pred hcHHHHHHHHHHCCeEEEEECcC------cHHHHHHHHHHHH
Confidence 67789999999999999999864 22 2345677874
No 322
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=24.18 E-value=1.5e+02 Score=18.51 Aligned_cols=47 Identities=15% Similarity=0.311 Sum_probs=26.9
Q ss_pred HHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCC--HHHHHHHHHhhCCcccc
Q 033205 6 YIELSQLYDKYKDQGLEILAFPCNQFGEEEPGS--NDQIADFVCTRFKSEFP 55 (125)
Q Consensus 6 ~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~--~~~~~~f~~~~~~~~fp 55 (125)
+|...++-+..+++|+.++-++... .. .... .+.+..++ +++++.|-
T Consensus 27 ~~~v~~~l~~L~~~g~~l~i~Sn~~-~~-~~~~~~~~~~~~~l-~~~~l~~~ 75 (132)
T TIGR01662 27 YPEVPDALAELKEAGYKVVIVTNQS-GI-GRGKFSSGRVARRL-EELGVPID 75 (132)
T ss_pred CCCHHHHHHHHHHCCCEEEEEECCc-cc-cccHHHHHHHHHHH-HHCCCCEE
Confidence 4666677777777888776665320 00 0001 34567777 46777643
No 323
>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=24.14 E-value=93 Score=18.26 Aligned_cols=15 Identities=13% Similarity=0.423 Sum_probs=10.7
Q ss_pred eeeEEECCCCcEEEE
Q 033205 90 FAKFLVDKNGQVVDR 104 (125)
Q Consensus 90 PttflId~~G~v~~~ 104 (125)
...++.||+|.++..
T Consensus 93 ~~~~~~DPdG~~ie~ 107 (108)
T PF12681_consen 93 RSFYFIDPDGNRIEF 107 (108)
T ss_dssp EEEEEE-TTS-EEEE
T ss_pred EEEEEECCCCCEEEe
Confidence 678999999998754
No 324
>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=24.10 E-value=1.1e+02 Score=18.66 Aligned_cols=18 Identities=11% Similarity=0.250 Sum_probs=14.8
Q ss_pred eeEEECCCCcEEEEEcCC
Q 033205 91 AKFLVDKNGQVVDRYYPT 108 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~ 108 (125)
..++.||+|..+..+.|.
T Consensus 101 ~~~~~DPdG~~iE~~~~~ 118 (120)
T cd07252 101 LIRFADPDGNRHELFWGP 118 (120)
T ss_pred EEEEECCCCCEEEEEecc
Confidence 469999999999887654
No 325
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=24.06 E-value=1.5e+02 Score=17.78 Aligned_cols=39 Identities=10% Similarity=0.251 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCc
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKS 52 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~ 52 (125)
-+|.+.++.++.+++|+.++-++.. ..+.++.+++ ++++
T Consensus 25 ~~~~~~~~l~~l~~~g~~i~ivS~~--------~~~~~~~~~~-~~~~ 63 (139)
T cd01427 25 LYPGVKEALKELKEKGIKLALATNK--------SRREVLELLE-ELGL 63 (139)
T ss_pred cCcCHHHHHHHHHHCCCeEEEEeCc--------hHHHHHHHHH-HcCC
Confidence 3566777777777788888777742 3566777774 5666
No 326
>PRK13611 photosystem II reaction center protein Psb28; Provisional
Probab=24.06 E-value=78 Score=20.08 Aligned_cols=14 Identities=21% Similarity=0.513 Sum_probs=12.0
Q ss_pred eEEECCCCcEEEEE
Q 033205 92 KFLVDKNGQVVDRY 105 (125)
Q Consensus 92 tflId~~G~v~~~~ 105 (125)
+||||.+|.|+-+-
T Consensus 47 m~liDeEGei~tr~ 60 (104)
T PRK13611 47 MRMIDEEGELTTRN 60 (104)
T ss_pred EEEEccCCcEEEEe
Confidence 79999999987754
No 327
>PRK00989 truB tRNA pseudouridine synthase B; Provisional
Probab=23.89 E-value=1.2e+02 Score=22.12 Aligned_cols=28 Identities=18% Similarity=0.196 Sum_probs=21.7
Q ss_pred ECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 95 VDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 95 Id~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
.|.+|+|+.......+.+.+++.+.+..
T Consensus 87 ~D~~G~vi~~~~~~~~~~~i~~~l~~f~ 114 (230)
T PRK00989 87 YDCDGKIVGRSKKIPTLEEVLSAASYFQ 114 (230)
T ss_pred CCCCCcEEEecCCCCCHHHHHHHHHhCc
Confidence 5899999998765567778888777654
No 328
>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=23.88 E-value=79 Score=22.93 Aligned_cols=15 Identities=20% Similarity=0.605 Sum_probs=12.1
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+++.++
T Consensus 109 s~~~i~~~G~i~~~y 123 (287)
T cd07568 109 TAAVIDADGTYLGKY 123 (287)
T ss_pred EEEEECCCCcEeeEE
Confidence 578999999987654
No 329
>COG4312 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.81 E-value=1.7e+02 Score=21.43 Aligned_cols=32 Identities=13% Similarity=0.340 Sum_probs=24.9
Q ss_pred CCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEe
Q 033205 19 QGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEK 59 (125)
Q Consensus 19 ~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~ 59 (125)
.++.++.|+ +...+++..|.+ +.|-+||+++.
T Consensus 111 ~dv~lv~Vs--------RAPl~~l~~~k~-rmGW~f~w~Ss 142 (247)
T COG4312 111 HDVTLVAVS--------RAPLEELVAYKR-RMGWQFPWVSS 142 (247)
T ss_pred cCceEEEEe--------cCcHHHHHHHHH-hcCCcceeEec
Confidence 457888887 335788999884 78999999953
No 330
>TIGR00495 crvDNA_42K 42K curved DNA binding protein. Proteins identified by this model have been identified in a number of species as a nuclear (but not nucleolar) protein with a cell cycle dependence. Various names given to members of this family have included cell cycle protein p38-2G4, DNA-binding protein GBP16, and proliferation-associated protein 1. This protein is closely related to methionine aminopeptidase, a cobolt-binding protein.
Probab=23.80 E-value=83 Score=24.58 Aligned_cols=20 Identities=15% Similarity=-0.034 Sum_probs=15.2
Q ss_pred cccceeeEEECCCCcEEEEE
Q 033205 86 IQWNFAKFLVDKNGQVVDRY 105 (125)
Q Consensus 86 i~~~PttflId~~G~v~~~~ 105 (125)
|...-+|++|.++|..+-..
T Consensus 317 Vaqf~~Tv~v~~~g~~~~t~ 336 (389)
T TIGR00495 317 VAQFKFTVLLMPNGPMRITS 336 (389)
T ss_pred EEEEEEEEEECCCCcEEeCC
Confidence 44457899999999877653
No 331
>PHA02360 hypothetical protein
Probab=23.68 E-value=43 Score=19.32 Aligned_cols=21 Identities=19% Similarity=0.624 Sum_probs=11.0
Q ss_pred hHHHH-HHHHHHhccCCeEEEE
Q 033205 5 NYIEL-SQLYDKYKDQGLEILA 25 (125)
Q Consensus 5 e~p~l-~~l~~~y~~~g~~vvg 25 (125)
|.|.| +++-+-|.++|+.+.|
T Consensus 27 eyPklY~~i~k~YEe~gidFyG 48 (70)
T PHA02360 27 EYPKLYKKIRKYYEEEGIDFYG 48 (70)
T ss_pred ccHHHHHHHHHHHHHcCCcccC
Confidence 44544 3444455556665555
No 332
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=23.64 E-value=2.2e+02 Score=18.64 Aligned_cols=58 Identities=17% Similarity=0.322 Sum_probs=35.9
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCC--cccceeEeeccCCCc
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFK--SEFPIFEKIDVNGEH 66 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~--~~fpv~~~~D~~g~~ 66 (125)
....|.++.++|.-. ..|||.+.+.-+ .+......++.|++ +.. ++.||.- .|+..+.
T Consensus 42 ~~~~l~~~i~~~~i~-~iVvGlP~~~~G-~~~~~~~~v~~f~~-~L~~~~~~~v~~-~DEr~TT 101 (138)
T PRK00109 42 DWDRLEKLIKEWQPD-GLVVGLPLNMDG-TEGPRTERARKFAN-RLEGRFGLPVVL-VDERLST 101 (138)
T ss_pred HHHHHHHHHHHhCCC-EEEEeccCCCCC-CcCHHHHHHHHHHH-HHHHHhCCCEEE-EcCCcCH
Confidence 467788999998764 578999986322 22223366777773 332 3567654 6876544
No 333
>PF12017 Tnp_P_element: Transposase protein; InterPro: IPR021896 Protein in this family are transposases found in insects. This region is about 230 amino acids in length and is found associated with PF05485 from PFAM.
Probab=23.51 E-value=1.7e+02 Score=21.34 Aligned_cols=19 Identities=16% Similarity=0.464 Sum_probs=8.3
Q ss_pred HHHHHhccCCeEEEEeeCC
Q 033205 11 QLYDKYKDQGLEILAFPCN 29 (125)
Q Consensus 11 ~l~~~y~~~g~~vvgv~~~ 29 (125)
++-++-.+.|+.|++|.||
T Consensus 200 ~iI~~l~~~g~~VvAivsD 218 (236)
T PF12017_consen 200 NIIEKLHEIGYNVVAIVSD 218 (236)
T ss_pred HHHHHHHHCCCEEEEEECC
Confidence 3333444444444444443
No 334
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=23.48 E-value=1.8e+02 Score=18.51 Aligned_cols=42 Identities=17% Similarity=0.363 Sum_probs=27.7
Q ss_pred HHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcc--ccee
Q 033205 7 IELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSE--FPIF 57 (125)
Q Consensus 7 p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~--fpv~ 57 (125)
|.+.++-++.+++|+.++.++.. +.+.+...++ ++++. |.-+
T Consensus 80 ~~~~~~L~~l~~~~~~~~i~Sn~--------~~~~~~~~l~-~~~~~~~f~~i 123 (176)
T PF13419_consen 80 PGVRELLERLKAKGIPLVIVSNG--------SRERIERVLE-RLGLDDYFDEI 123 (176)
T ss_dssp TTHHHHHHHHHHTTSEEEEEESS--------EHHHHHHHHH-HTTHGGGCSEE
T ss_pred hhhhhhhhhcccccceeEEeecC--------Cccccccccc-ccccccccccc
Confidence 45556666667678888888742 3666777774 67877 5433
No 335
>PF01123 Stap_Strp_toxin: Staphylococcal/Streptococcal toxin, OB-fold domain; InterPro: IPR006173 Staphylococcus aureus is a Gram-positive coccus that grows in clusters or pairs, and is the major cause of nosocomial infections due to its multiple antibiotic resistant nature []. Patients who are immunocompromised (e.g., those suffering from third degree burns or chronic illness) are at risk from deep staphylococcal infections, such as osteomyelitis and pneumonia. Most skin infections are also caused by this bacterium. Many virulence mechanisms are employed by Staphylococci to induce pathogenesis: these can include polysaccharide capsules and exotoxins []. One of the major virulence exotoxins is toxic shock syndrome toxin (TSST), which is secreted by the organism upon successful invasion. It causes a major inflammatory response in the host via superantigenic properties, and is the causative agent of toxic shock syndrome. The structure of the TSST protein was originally determined to 2.5A by means of X-ray crystallography []. The N- and C-terminal domains both contain regions involved in MHC class II association; the C-terminal domain is also implicated in binding the T-cell receptor. Overall, the structure resembles that of Staphylococcal enterotoxin B (SEB), but differs in its N terminus and in the degree to which a long central helix is covered by surface loops []. The region around the carboxyl end of this helix is proposed to govern the superantigenic properties of TSST. An adjacent region along this helix is thought to be critical in the ability of TSST to induce toxic shock syndrome. Most recently, the structures of five mutants of TSST have been determined to 1.95A []. The mutations are in the central alpha-helix, and allow mapping of portions of TSST involved in superantigenicity and lethality.; GO: 0009405 pathogenesis; PDB: 1XXG_A 1KTK_D 1HQR_D 2NTS_A 1FNW_E 1FNU_C 1L0X_B 1FNV_D 1UUP_B 1HA5_C ....
Probab=23.26 E-value=1e+02 Score=18.74 Aligned_cols=18 Identities=22% Similarity=0.521 Sum_probs=15.5
Q ss_pred HHHHHhccCCeEEEEeeC
Q 033205 11 QLYDKYKDQGLEILAFPC 28 (125)
Q Consensus 11 ~l~~~y~~~g~~vvgv~~ 28 (125)
++.++|+++.|.|.|++-
T Consensus 48 ~~a~~fKgKkVDIfG~~Y 65 (87)
T PF01123_consen 48 DLAKKFKGKKVDIFGLSY 65 (87)
T ss_dssp HHHHHHTTSEEEEEEEEB
T ss_pred HHHHhhcCCEEEEEeccc
Confidence 567889999999999985
No 336
>PF08735 DUF1786: Putative pyruvate format-lyase activating enzyme (DUF1786); InterPro: IPR014846 This family is annotated as pyruvate formate-lyase activating enzyme (1.97.1.4 from EC) in UniProt. It is not clear where this annotation comes from.
Probab=23.24 E-value=1.4e+02 Score=22.11 Aligned_cols=30 Identities=23% Similarity=0.234 Sum_probs=24.5
Q ss_pred eEEECCCCcEEEE---EcCCCChhHHHHHHHHhh
Q 033205 92 KFLVDKNGQVVDR---YYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 92 tflId~~G~v~~~---~~G~~~~~~l~~~I~~ll 122 (125)
-++| .+|+|... |.|.++++.|...|+++.
T Consensus 181 aa~v-~~~rI~GvfEHHT~~l~~~kL~~~l~~l~ 213 (254)
T PF08735_consen 181 AALV-KDGRIYGVFEHHTGMLTPEKLEEYLERLR 213 (254)
T ss_pred EEEE-eCCEEEEEEecccCCCCHHHHHHHHHHHH
Confidence 4566 88999875 568999999999999874
No 337
>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=23.20 E-value=1.2e+02 Score=17.90 Aligned_cols=18 Identities=17% Similarity=0.366 Sum_probs=14.9
Q ss_pred eeEEECCCCcEEEEEcCC
Q 033205 91 AKFLVDKNGQVVDRYYPT 108 (125)
Q Consensus 91 ttflId~~G~v~~~~~G~ 108 (125)
..++.||+|..+..+.|.
T Consensus 95 ~~~~~DPdG~~iEi~~~~ 112 (113)
T cd08345 95 SIYFYDPDGHLLELHAGT 112 (113)
T ss_pred EEEEECCCCCEEEEEeCc
Confidence 568999999999887664
No 338
>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=23.07 E-value=79 Score=23.30 Aligned_cols=15 Identities=47% Similarity=0.957 Sum_probs=12.4
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+|+.++
T Consensus 110 sa~~i~~~G~i~~~y 124 (302)
T cd07569 110 TSILVDKSGKIVGKY 124 (302)
T ss_pred EEEEECCCCCEeeee
Confidence 578999999987655
No 339
>PLN00202 beta-ureidopropionase
Probab=23.05 E-value=85 Score=24.64 Aligned_cols=15 Identities=13% Similarity=0.534 Sum_probs=12.9
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++||++|+|+.++
T Consensus 193 Sa~vI~~~G~iig~Y 207 (405)
T PLN00202 193 TAVVIGNNGNIIGKH 207 (405)
T ss_pred EEEEECCCCcEEEEE
Confidence 678999999998766
No 340
>cd04742 NPD_FabD 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDPs are members of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.
Probab=23.04 E-value=64 Score=25.58 Aligned_cols=14 Identities=7% Similarity=0.299 Sum_probs=11.4
Q ss_pred HHHHhhCCcccceeE
Q 033205 44 DFVCTRFKSEFPIFE 58 (125)
Q Consensus 44 ~f~~~~~~~~fpv~~ 58 (125)
.|. +.+|+.||++.
T Consensus 5 ~f~-~~lgiryPii~ 18 (418)
T cd04742 5 SFK-EDYGLRYAYVA 18 (418)
T ss_pred HHH-HHhCCCccEEC
Confidence 577 47899999993
No 341
>TIGR02189 GlrX-like_plant Glutaredoxin-like family. This family of glutaredoxin-like proteins is aparrently limited to plants. Multiple isoforms are found in A. thaliana and O.sativa.
Probab=22.93 E-value=1.9e+02 Score=17.60 Aligned_cols=21 Identities=14% Similarity=0.229 Sum_probs=15.5
Q ss_pred HHHHHHHHhhCCcccceeEeecc
Q 033205 40 DQIADFVCTRFKSEFPIFEKIDV 62 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~~~~D~ 62 (125)
..+++++. +++++|-++. +|.
T Consensus 22 ~~ak~~L~-~~~i~~~~vd-id~ 42 (99)
T TIGR02189 22 HVVKRLLL-TLGVNPAVHE-IDK 42 (99)
T ss_pred HHHHHHHH-HcCCCCEEEE-cCC
Confidence 57888994 7899998764 443
No 342
>PF13783 DUF4177: Domain of unknown function (DUF4177)
Probab=22.90 E-value=1.5e+02 Score=16.32 Aligned_cols=24 Identities=17% Similarity=0.426 Sum_probs=18.8
Q ss_pred hHHHHHHHHHHhccCCeEEEEeeC
Q 033205 5 NYIELSQLYDKYKDQGLEILAFPC 28 (125)
Q Consensus 5 e~p~l~~l~~~y~~~g~~vvgv~~ 28 (125)
..+.+++.-++|+.+|-++|.+..
T Consensus 18 ~~~~~~~~Ln~~g~eGWeLV~~~~ 41 (61)
T PF13783_consen 18 DPEDLEEILNEYGKEGWELVSIIP 41 (61)
T ss_pred CHHHHHHHHHHHHhCCcEEEEEEc
Confidence 456778888888888888888764
No 343
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=22.89 E-value=2.7e+02 Score=19.43 Aligned_cols=39 Identities=13% Similarity=0.277 Sum_probs=26.2
Q ss_pred HHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCC
Q 033205 8 ELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFK 51 (125)
Q Consensus 8 ~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~ 51 (125)
++..|.++++=+...||.|+-+ .|.-.+-.++|++++..
T Consensus 55 eid~l~~e~Gyk~~Dvvsv~~~-----~pk~del~akF~~EH~H 93 (181)
T COG1791 55 EIDRLIRERGYKNRDVVSVSPS-----NPKLDELRAKFLQEHLH 93 (181)
T ss_pred HHHHHHHhhCCceeeEEEeCCC-----CccHHHHHHHHHHHhcc
Confidence 4667788888777889998853 23234556789975543
No 344
>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=22.77 E-value=1.4e+02 Score=24.12 Aligned_cols=38 Identities=26% Similarity=0.574 Sum_probs=25.5
Q ss_pred HHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCccccee
Q 033205 10 SQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 10 ~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~ 57 (125)
.+|.++| ++.|+.++|.+. +.+++...++ +.=+.|||-
T Consensus 202 ~eL~ekY---~vpVlpvnc~~l------~~~DI~~Il~-~vLyEFPV~ 239 (492)
T PF09547_consen 202 EELEEKY---DVPVLPVNCEQL------REEDITRILE-EVLYEFPVS 239 (492)
T ss_pred HHHHHHh---CCcEEEeehHHc------CHHHHHHHHH-HHHhcCCce
Confidence 3555565 488999998753 4677777774 445577775
No 345
>COG3195 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.44 E-value=88 Score=21.69 Aligned_cols=26 Identities=15% Similarity=0.526 Sum_probs=20.3
Q ss_pred CChhhHHHHHHHHHHhccC-CeEEE-Ee
Q 033205 1 MTNSNYIELSQLYDKYKDQ-GLEIL-AF 26 (125)
Q Consensus 1 ~~~~e~p~l~~l~~~y~~~-g~~vv-gv 26 (125)
+|..|...|.+|.+.|.++ ||-+| +|
T Consensus 101 Ls~~E~a~f~~LN~aY~~rFgfPfI~aV 128 (176)
T COG3195 101 LSPEEFARFTELNAAYVERFGFPFIIAV 128 (176)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCceEEee
Confidence 5788999999999999887 66544 44
No 346
>PRK13287 amiF formamidase; Provisional
Probab=22.42 E-value=90 Score=23.66 Aligned_cols=16 Identities=19% Similarity=0.671 Sum_probs=13.1
Q ss_pred eeEEECCCCcEEEEEc
Q 033205 91 AKFLVDKNGQVVDRYY 106 (125)
Q Consensus 91 ttflId~~G~v~~~~~ 106 (125)
+.++|+++|+|+.++.
T Consensus 116 sa~vi~~~G~i~~~Yr 131 (333)
T PRK13287 116 TAIIIDDQGEIILKYR 131 (333)
T ss_pred EEEEECCCCcEEEEEe
Confidence 6789999999887653
No 347
>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=22.36 E-value=92 Score=22.13 Aligned_cols=23 Identities=17% Similarity=0.365 Sum_probs=14.9
Q ss_pred HHHHHHHHHHhccCCeEEEEeeC
Q 033205 6 YIELSQLYDKYKDQGLEILAFPC 28 (125)
Q Consensus 6 ~p~l~~l~~~y~~~g~~vvgv~~ 28 (125)
+..+.++.++-+++|..+|.++-
T Consensus 17 ~~~~~~~i~~A~~~g~dlivfPE 39 (265)
T cd07572 17 LARAKELIEEAAAQGAKLVVLPE 39 (265)
T ss_pred HHHHHHHHHHHHHCCCCEEECCc
Confidence 44556666666667777776653
No 348
>TIGR01455 glmM phosphoglucosamine mutase. This model describes GlmM, phosphoglucosamine mutase, also designated in MrsA and YhbF E. coli, UreC in Helicobacter pylori, and femR315 or FemD in Staphlococcus aureus. It converts glucosamine-6-phosphate to glucosamine-1-phosphate as part of the pathway toward UDP-N-acetylglucosamine for peptidoglycan and lipopolysaccharides.
Probab=22.35 E-value=3.7e+02 Score=21.09 Aligned_cols=8 Identities=50% Similarity=0.895 Sum_probs=3.8
Q ss_pred EECCCCcE
Q 033205 94 LVDKNGQV 101 (125)
Q Consensus 94 lId~~G~v 101 (125)
+||.+|++
T Consensus 247 ~vd~~G~~ 254 (443)
T TIGR01455 247 AVDANGRI 254 (443)
T ss_pred EECCCCcE
Confidence 34555543
No 349
>cd07584 nitrilase_6 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=22.27 E-value=93 Score=22.08 Aligned_cols=15 Identities=20% Similarity=0.572 Sum_probs=12.2
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+|+.++
T Consensus 98 s~~~i~~~G~i~~~y 112 (258)
T cd07584 98 SAVVIDPEGESLGVY 112 (258)
T ss_pred EEEEECCCCCEEeEE
Confidence 568899999997665
No 350
>cd02976 NrdH NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase activity that is dependent on TRX reductase, not glutathione (GSH). It is part of the NrdHIEF operon, where NrdEF codes for class Ib ribonucleotide reductase (RNR-Ib), an efficient enzyme at low oxygen levels. Under these conditions when GSH is mostly conjugated to spermidine, NrdH can still function and act as a hydrogen donor for RNR-Ib. It has been suggested that the NrdHEF system may be the oldest RNR reducing system, capable of functioning in a microaerophilic environment, where GSH was not yet available. NrdH from Corynebacterium ammoniagenes can form domain-swapped dimers, although it is unknown if this happens in vivo. Domain-swapped dimerization, which results in the blocking of the TRX reductase binding site, cou
Probab=22.22 E-value=1.4e+02 Score=15.91 Aligned_cols=18 Identities=11% Similarity=0.095 Sum_probs=12.6
Q ss_pred HHHHHHHHhhCCcccceeE
Q 033205 40 DQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~~ 58 (125)
..++.++. +.++.|..+.
T Consensus 14 ~~~~~~l~-~~~i~~~~~~ 31 (73)
T cd02976 14 KATKRFLD-ERGIPFEEVD 31 (73)
T ss_pred HHHHHHHH-HCCCCeEEEe
Confidence 56777784 5788887763
No 351
>PF03640 Lipoprotein_15: Secreted repeat of unknown function; InterPro: IPR005297 This repeat is found in tandem in a set of lipoproteins. The alignment contains a Y-X4-D motif.
Probab=22.18 E-value=1.4e+02 Score=15.92 Aligned_cols=18 Identities=22% Similarity=0.252 Sum_probs=14.4
Q ss_pred eEEECCCCcEEEEEcCCC
Q 033205 92 KFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 92 tflId~~G~v~~~~~G~~ 109 (125)
+.+++.+|+.++++.+..
T Consensus 10 ~~~~~~~G~~LY~f~~D~ 27 (48)
T PF03640_consen 10 TIQVDYNGMPLYYFDKDS 27 (48)
T ss_pred CEEECCCCCEEEEECCCC
Confidence 477888999999987655
No 352
>cd07583 nitrilase_5 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases). The nitrilase superfamily is comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13). Class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup represents either a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer.
Probab=22.13 E-value=97 Score=21.92 Aligned_cols=15 Identities=20% Similarity=0.822 Sum_probs=12.1
Q ss_pred eeEEECCCCcEEEEE
Q 033205 91 AKFLVDKNGQVVDRY 105 (125)
Q Consensus 91 ttflId~~G~v~~~~ 105 (125)
+.++|+++|+++.++
T Consensus 93 s~~~i~~~G~i~~~y 107 (253)
T cd07583 93 TAYVIDPDGELIATY 107 (253)
T ss_pred EEEEECCCCcEEEEE
Confidence 578999999887655
No 353
>PF05711 TylF: Macrocin-O-methyltransferase (TylF); InterPro: IPR008884 This family consists of bacterial macrocin O-methyltransferase (TylF) proteins. TylF is responsible for the methylation of macrocin to produce tylosin. Tylosin is a macrolide antibiotic used in veterinary medicine to treat infections caused by Gram-positive bacteria and as an animal growth promoter in the Sus scrofa (Pig) industry. It is produced by several Streptomyces species. As with other macrolides, the antibiotic activity of tylosin is due to the inhibition of protein biosynthesis by a mechanism that involves the binding of tylosin to the ribosome, preventing the formation of the mRNA-aminoacyl-tRNA-ribosome complex [].; PDB: 3TOS_D 2WK1_A.
Probab=22.11 E-value=65 Score=23.60 Aligned_cols=52 Identities=23% Similarity=0.424 Sum_probs=28.9
Q ss_pred hhHHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccC
Q 033205 4 SNYIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVN 63 (125)
Q Consensus 4 ~e~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~ 63 (125)
+.+..|+.||.+-..-|+. . .|+++. +.....+..|.+ ++|++-|+.. +|..
T Consensus 190 sT~~aLe~lyprl~~GGiI--i--~DDY~~--~gcr~AvdeF~~-~~gi~~~l~~-id~~ 241 (248)
T PF05711_consen 190 STKDALEFLYPRLSPGGII--I--FDDYGH--PGCRKAVDEFRA-EHGITDPLHP-IDWT 241 (248)
T ss_dssp HHHHHHHHHGGGEEEEEEE--E--ESSTTT--HHHHHHHHHHHH-HTT--S--EE--SSS
T ss_pred HHHHHHHHHHhhcCCCeEE--E--EeCCCC--hHHHHHHHHHHH-HcCCCCccEE-ecCc
Confidence 5567788888776654432 2 245533 223567889995 6899999874 5543
No 354
>COG0105 Ndk Nucleoside diphosphate kinase [Nucleotide transport and metabolism]
Probab=21.95 E-value=2.5e+02 Score=18.67 Aligned_cols=57 Identities=19% Similarity=0.454 Sum_probs=34.1
Q ss_pred HHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCccc-----------ceeEeeccCCCccchHHH
Q 033205 9 LSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEF-----------PIFEKIDVNGEHASPLYK 72 (125)
Q Consensus 9 l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~f-----------pv~~~~D~~g~~~~~~~~ 72 (125)
+-++...|..+|+.|++.-+-.. +.+.+.+|-..+.+-+| ||+. +-..|+.+...+.
T Consensus 19 IG~IisrfE~~Glkiva~K~~~~------~~e~Ae~~Y~~h~~kpFf~~Lv~fitSgPvv~-~VleGe~ai~~~R 86 (135)
T COG0105 19 IGEIISRFEKKGLKIVALKMVQL------SRELAENHYAEHKGKPFFGELVEFITSGPVVA-MVLEGENAISVVR 86 (135)
T ss_pred HHHHHHHHHHCCCEEEeeeeecc------CHHHHHHHHHHHcCCCccHHHHhheecCcEEE-EEEecHhHHHHHH
Confidence 45778899999999999877532 45555554323333222 5543 3445666554444
No 355
>PF05221 AdoHcyase: S-adenosyl-L-homocysteine hydrolase; InterPro: IPR000043 Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase, 3.3.1.1 from EC) (AdoHcyase) is an enzyme of the activated methyl cycle, responsible for the reversible hydration of S-adenosyl-L-homocysteine into adenosine and homocysteine. This enzyme is ubiquitous, highly conserved, and may play a key role in the regulation of the intracellular concentration of adenosylhomocysteine. AdoHcyase requires NAD+ as a cofactor and contains a central glycine-rich region which is thought to be involved in NAD-binding.; GO: 0004013 adenosylhomocysteinase activity, 0006730 one-carbon metabolic process; PDB: 3N58_B 3H9U_C 2ZJ1_C 3DHY_B 2ZIZ_C 2ZJ0_D 3CE6_B 1K0U_F 1B3R_A 1XWF_D ....
Probab=21.95 E-value=1.3e+02 Score=22.43 Aligned_cols=22 Identities=18% Similarity=0.357 Sum_probs=15.2
Q ss_pred hhhHHHHHHHHHHhccC----CeEEE
Q 033205 3 NSNYIELSQLYDKYKDQ----GLEIL 24 (125)
Q Consensus 3 ~~e~p~l~~l~~~y~~~----g~~vv 24 (125)
+.+||.|..+.++|... |+.|-
T Consensus 22 ~~~MPvL~~lr~~~~~~kPl~G~rIa 47 (268)
T PF05221_consen 22 ERHMPVLMALRERFEAEKPLKGARIA 47 (268)
T ss_dssp HHT-HHHHHHHHHHTTT-TTTTEEEE
T ss_pred HhhCHHHHHHHHHhhccCCCCCCEEE
Confidence 57899999998888643 55554
No 356
>PF04914 DltD_C: DltD C-terminal region; InterPro: IPR006998 The dlt operon (dltA to dltD) of Lactobacillus rhamnosus 7469 encodes four proteins responsible for the esterification of lipoteichoic acid (LTA) by D-alanine. These esters play an important role in controlling the net anionic charge of the poly (GroP) moiety of LTA. DltA and DltC encode the D-alanine-D-alanyl carrier protein ligase (Dcl) and D-alanyl carrier protein (Dcp), respectively. Whereas the functions of DltA and DltC are defined, the functions of DltB and DltD are unknown. In vitro assays showed that DltD bound Dcp for ligation with D-alanine by Dcl in the presence of ATP. In contrast, the homologue of Dcp, the Escherichia coli acyl carrier protein (ACP), involved in fatty acid biosynthesis, was not bound to DltD and thus was not ligated with D-alanine. DltD also catalyzed the hydrolysis of the mischarged D-alanyl-ACP. The hydrophobic N-terminal sequence of DltD was required for anchoring the protein in the membrane. It is hypothesized that this membrane-associated DltD facilitates the binding of Dcp and Dcl for ligation of Dcp with D-alanine and that the resulting D-alanyl-Dcp is translocated to the primary site of D-alanylation []. These sequences contain the C-terminal region of DltD.; PDB: 3BMA_C.
Probab=21.85 E-value=1.5e+02 Score=19.38 Aligned_cols=28 Identities=25% Similarity=0.400 Sum_probs=21.1
Q ss_pred ChhhHHHHHHHHHHhccCCeEEEEeeCC
Q 033205 2 TNSNYIELSQLYDKYKDQGLEILAFPCN 29 (125)
Q Consensus 2 ~~~e~p~l~~l~~~y~~~g~~vvgv~~~ 29 (125)
..+|+-+|+-+-+.+++.|+.++-|..+
T Consensus 31 ~SpEy~Dl~l~L~~~k~~g~~~lfVi~P 58 (130)
T PF04914_consen 31 KSPEYDDLQLLLDVCKELGIDVLFVIQP 58 (130)
T ss_dssp S-THHHHHHHHHHHHHHTT-EEEEEE--
T ss_pred CCccHHHHHHHHHHHHHcCCceEEEecC
Confidence 4579999999999999999888877653
No 357
>PF02852 Pyr_redox_dim: Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; InterPro: IPR004099 This entry represents a dimerisation domain that is usually found at the C-terminal of both class I and class II oxidoreductases, as well as in NADH oxidases and peroxidases [, , ].; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0045454 cell redox homeostasis, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 3II4_B 2A8X_A 2BC0_B 2BC1_B 2W0H_A 2X50_B 2JK6_A 2YAU_A 2EQ9_E 2EQ6_B ....
Probab=21.84 E-value=1.6e+02 Score=18.02 Aligned_cols=32 Identities=19% Similarity=0.345 Sum_probs=20.8
Q ss_pred eeeEEECC-CCcEEEEEcCCCChhHHHHHHHHh
Q 033205 90 FAKFLVDK-NGQVVDRYYPTTSLLSLEHDIKKL 121 (125)
Q Consensus 90 PttflId~-~G~v~~~~~G~~~~~~l~~~I~~l 121 (125)
..++++|+ +|+|+..+.=..+..++-..+.-+
T Consensus 50 ~~Kli~d~~t~~IlGa~~vg~~a~e~I~~~~~a 82 (110)
T PF02852_consen 50 FVKLIFDKKTGRILGAQIVGPNASELINELALA 82 (110)
T ss_dssp EEEEEEETTTTBEEEEEEEETTHHHHHHHHHHH
T ss_pred eeEEEEEeeccceeeeeeecCchHHHHHHHHHH
Confidence 56899998 999999764224455554444433
No 358
>KOG1014 consensus 17 beta-hydroxysteroid dehydrogenase type 3, HSD17B3 [Lipid transport and metabolism]
Probab=21.75 E-value=3.7e+02 Score=20.55 Aligned_cols=58 Identities=17% Similarity=0.316 Sum_probs=30.8
Q ss_pred HHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeEeeccCCCccchHHHHHHhC
Q 033205 11 QLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFEKIDVNGEHASPLYKLLKSG 77 (125)
Q Consensus 11 ~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~~~D~~g~~~~~~~~~l~~~ 77 (125)
+..+++..+|+.|+-|+-+ ++ ..+.+++=+.+++++.--... .|=.... ..|..+.+.
T Consensus 64 ayA~eLAkrG~nvvLIsRt----~~--KL~~v~kEI~~~~~vev~~i~-~Dft~~~--~~ye~i~~~ 121 (312)
T KOG1014|consen 64 AYARELAKRGFNVVLISRT----QE--KLEAVAKEIEEKYKVEVRIIA-IDFTKGD--EVYEKLLEK 121 (312)
T ss_pred HHHHHHHHcCCEEEEEeCC----HH--HHHHHHHHHHHHhCcEEEEEE-EecCCCc--hhHHHHHHH
Confidence 4556777789998888854 12 245555545456665433222 3433222 246555543
No 359
>COG3531 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=21.72 E-value=1.7e+02 Score=20.99 Aligned_cols=38 Identities=13% Similarity=-0.174 Sum_probs=27.7
Q ss_pred CcccceeeEEECCCCcEEEEEcC--CCChhHHHHHHHHhhc
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYP--TTSLLSLEHDIKKLLG 123 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G--~~~~~~l~~~I~~ll~ 123 (125)
++.+.||-.+.+ +|+..-.-.| ..+++.+...+.+.+.
T Consensus 171 g~~GfPTl~le~-ng~~~~l~~g~y~~~~~~~~arl~~~~~ 210 (212)
T COG3531 171 GAAGFPTLALER-NGTMYVLGTGAYFGSPDAWLARLAQRLA 210 (212)
T ss_pred ccCCCCeeeeee-CCceEeccCCcccCCcHHHHHHHHHHHh
Confidence 366779766554 9999887777 5567788877777664
No 360
>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families. Members contain four highly conserved cysteine residues and their function is unknown.
Probab=21.70 E-value=1.3e+02 Score=18.00 Aligned_cols=23 Identities=26% Similarity=0.333 Sum_probs=17.5
Q ss_pred CCcEEEEEcCCCChhHHHHHHHHhhcc
Q 033205 98 NGQVVDRYYPTTSLLSLEHDIKKLLGL 124 (125)
Q Consensus 98 ~G~v~~~~~G~~~~~~l~~~I~~ll~~ 124 (125)
+|+++.. .++++|.+.|.+.+++
T Consensus 52 nG~~V~A----~t~eeL~~kI~~~i~e 74 (78)
T PF07293_consen 52 NGEIVAA----ETAEELLEKIKEKIEE 74 (78)
T ss_pred CCEEEec----CCHHHHHHHHHHHHhc
Confidence 4888774 5788888888887765
No 361
>TIGR00431 TruB tRNA pseudouridine 55 synthase. TruB, the tRNA pseudouridine 55 synthase, converts uracil to pseudouridine in the T loop (not the anticodon loop - beware mis-annotation in Swiss-Prot) of most tRNAs of all three domains of life. This model is built on a seed alignment of bacterial proteins only. Saccharomyces cerevisiae protein YNL292w (Pus4) has been shown to be the pseudouridine 55 synthase of both cytosolic and mitochondrial compartments, active at no other position on tRNA and the only enzyme active at that position in the species. A distinct yeast protein YLR175w, (centromere/microtubule-binding protein CBF5) is an rRNA pseudouridine synthase, and the archaeal set is much more similar to CBF5 than to Pus4. It is unclear whether the archaeal proteins found by this model are tRNA pseudouridine 55 synthases like TruB, rRNA pseudouridine synthases like CBF5, or (as suggested by the absence of paralogs in the Archaea) both. CBF5 likely has additional, eukaryotic-specific
Probab=21.64 E-value=1.4e+02 Score=21.25 Aligned_cols=28 Identities=18% Similarity=0.294 Sum_probs=19.6
Q ss_pred ECCCCcEEEEEcCCCChhHHHHHHHHhh
Q 033205 95 VDKNGQVVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 95 Id~~G~v~~~~~G~~~~~~l~~~I~~ll 122 (125)
.|.+|+|+....-..+.+.+++.+.++.
T Consensus 79 ~D~~G~i~~~~~~~~~~~~l~~~l~~f~ 106 (209)
T TIGR00431 79 LDPDGQIVETRPVNPTTEDVEAALPTFR 106 (209)
T ss_pred CCCCCCEEEecCCCCCHHHHHHHHHHcc
Confidence 5889999987654456667777776653
No 362
>cd04418 NDPk5 Nucleoside diphosphate kinase homolog 5 (NDP kinase homolog 5, NDPk5, NM23-H5; Inhibitor of p53-induced apoptosis-beta, IPIA-beta): In human, mRNA for NDPk5 is almost exclusively found in testis, especially in the flagella of spermatids and spermatozoa, in association with axoneme microtubules, and may play a role in spermatogenesis by increasing the ability of late-stage spermatids to eliminate reactive oxygen species. It belongs to the nm23 Group II genes and appears to differ from the other human NDPks in that it lacks two important catalytic site residues, and thus does not appear to possess NDP kinase activity. NDPk5 confers protection from cell death by Bax and alters the cellular levels of several antioxidant enzymes, including glutathione peroxidase 5 (Gpx5).
Probab=21.56 E-value=2.4e+02 Score=18.29 Aligned_cols=37 Identities=22% Similarity=0.256 Sum_probs=25.0
Q ss_pred HHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCC
Q 033205 9 LSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFK 51 (125)
Q Consensus 9 l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~ 51 (125)
..++-++..++||.|++.-+-. -+.+.+++|...+.+
T Consensus 15 ~g~Il~~i~~~Gf~I~~~k~~~------lt~~~a~~~y~~~~~ 51 (132)
T cd04418 15 AEEIEDIILESGFTIVQKRKLQ------LSPEQCSDFYAEHYG 51 (132)
T ss_pred HHHHHHHHHHCCCEEEEeeeec------CCHHHHHHHHHHhCC
Confidence 3456667778899999987643 356777777644434
No 363
>PF10740 DUF2529: Protein of unknown function (DUF2529); InterPro: IPR019676 This entry represents a protein family conserved in the Bacillales. Their function is not known. ; PDB: 3JX9_A.
Probab=21.39 E-value=33 Score=23.76 Aligned_cols=20 Identities=20% Similarity=0.351 Sum_probs=11.6
Q ss_pred HHHHHHHHhccCCeEEEEee
Q 033205 8 ELSQLYDKYKDQGLEILAFP 27 (125)
Q Consensus 8 ~l~~l~~~y~~~g~~vvgv~ 27 (125)
+..++.++..++|+.+++|+
T Consensus 96 e~~~~a~~L~~~gi~~v~Vs 115 (172)
T PF10740_consen 96 EAVALAKQLIEQGIPFVGVS 115 (172)
T ss_dssp HHHHHHHHHHHHT--EEEEE
T ss_pred HHHHHHHHHHHCCCCEEEEE
Confidence 44555566666677777777
No 364
>PF10184 DUF2358: Uncharacterized conserved protein (DUF2358); InterPro: IPR018790 This entry represents a family of conserved proteins. The function is unknown.
Probab=21.36 E-value=81 Score=19.82 Aligned_cols=13 Identities=8% Similarity=0.463 Sum_probs=10.8
Q ss_pred eeEEECCCCcEEE
Q 033205 91 AKFLVDKNGQVVD 103 (125)
Q Consensus 91 ttflId~~G~v~~ 103 (125)
++|-+|++|+|..
T Consensus 100 S~~~ln~~g~I~~ 112 (113)
T PF10184_consen 100 STYTLNSDGLIYR 112 (113)
T ss_pred EEEEECCCCcEEe
Confidence 7999999997654
No 365
>PF06342 DUF1057: Alpha/beta hydrolase of unknown function (DUF1057); InterPro: IPR010463 This entry consists of proteins of unknown function which have an alpha/beta hydrolase fold.
Probab=21.26 E-value=2.3e+02 Score=21.46 Aligned_cols=23 Identities=13% Similarity=0.327 Sum_probs=17.5
Q ss_pred HHHHHhccCCeEEEEeeCCCCCC
Q 033205 11 QLYDKYKDQGLEILAFPCNQFGE 33 (125)
Q Consensus 11 ~l~~~y~~~g~~vvgv~~~~~~~ 33 (125)
=+...+.+.|++|||||.+.|+.
T Consensus 53 Yi~~~l~~~~iR~I~iN~PGf~~ 75 (297)
T PF06342_consen 53 YIRPPLDEAGIRFIGINYPGFGF 75 (297)
T ss_pred hhhhHHHHcCeEEEEeCCCCCCC
Confidence 34455667899999999987754
No 366
>PF07240 Turandot: Stress-inducible humoral factor Turandot; InterPro: IPR010825 This family consists of several Drosophila species specific Turandot proteins. The Turandot A (TotA) gene encodes a humoral factor, which is secreted from the fat body and accumulates in the body fluids. TotA is strongly induced upon bacterial challenge, as well as by other types of stress such as high temperature, mechanical pressure, dehydration, UV irradiation, and oxidative agents. It is also upregulated during metamorphosis and at high age. Flies that overexpress TotA show prolonged survival and retain normal activity at otherwise lethal temperatures. Although TotA is only induced by severe stress, it responds to a much wider range of stimuli than heat shock genes such as hsp70 or immune genes such as Cecropin A1 [].
Probab=21.26 E-value=85 Score=19.16 Aligned_cols=16 Identities=38% Similarity=0.646 Sum_probs=13.8
Q ss_pred hhHHHHHHHHHHhccC
Q 033205 4 SNYIELSQLYDKYKDQ 19 (125)
Q Consensus 4 ~e~p~l~~l~~~y~~~ 19 (125)
+.+|+|.++|++|..+
T Consensus 10 rni~eLi~fY~ky~~~ 25 (85)
T PF07240_consen 10 RNIQELIAFYEKYSPR 25 (85)
T ss_pred hhHHHHHHHHHHcCcc
Confidence 4689999999999875
No 367
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=21.26 E-value=2.3e+02 Score=20.52 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=18.2
Q ss_pred HHHHHHHHHhc-cCCeEEEEeeCC
Q 033205 7 IELSQLYDKYK-DQGLEILAFPCN 29 (125)
Q Consensus 7 p~l~~l~~~y~-~~g~~vvgv~~~ 29 (125)
+.+.+..+.+. +.|+.++.|+||
T Consensus 47 ~~~~~~~~~L~~~~g~d~ivIaCN 70 (251)
T TIGR00067 47 EYVLELLTFLKERHNIKLLVVACN 70 (251)
T ss_pred HHHHHHHHHHHHhCCCCEEEEeCc
Confidence 45566777777 889999999997
No 368
>TIGR03143 AhpF_homolog putative alkyl hydroperoxide reductase F subunit. This family of thioredoxin reductase homologs is found adjacent to alkylhydroperoxide reductase C subunit predominantly in cases where there is only one C subunit in the genome and that genome is lacking the F subunit partner (also a thioredcxin reductase homolog) that is usually found (TIGR03140).
Probab=21.13 E-value=4.6e+02 Score=21.34 Aligned_cols=94 Identities=15% Similarity=0.118 Sum_probs=47.2
Q ss_pred HHHHHHHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhC----CcccceeEeeccCCCccchHHHHHHhCCCCC
Q 033205 6 YIELSQLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRF----KSEFPIFEKIDVNGEHASPLYKLLKSGKWGI 81 (125)
Q Consensus 6 ~p~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~----~~~fpv~~~~D~~g~~~~~~~~~l~~~~~~~ 81 (125)
--.|+++.++.+. .+.++.+..+. .....++++|+++-. .+++-... .+.+...+. .
T Consensus 354 ~~~l~~~~~~l~~-~v~l~~~~~~~-----~~~~~e~~~~l~e~~~~s~~i~~~~~~-~~~~~~~~~------------~ 414 (555)
T TIGR03143 354 RQQLVGIFGRLEN-PVTLLLFLDGS-----NEKSAELQSFLGEFASLSEKLNSEAVN-RGEEPESET------------L 414 (555)
T ss_pred HHHHHHHHHhcCC-CEEEEEEECCC-----chhhHHHHHHHHHHHhcCCcEEEEEec-cccchhhHh------------h
Confidence 3457777777664 46666554221 113466778884311 23333221 111111111 1
Q ss_pred CCCCcccceeeEEECCCCc---EEEEEcCCCChhHHHHHHHHhh
Q 033205 82 FGDDIQWNFAKFLVDKNGQ---VVDRYYPTTSLLSLEHDIKKLL 122 (125)
Q Consensus 82 ~g~~i~~~PttflId~~G~---v~~~~~G~~~~~~l~~~I~~ll 122 (125)
| ++...|+..|.+.+|. |++. |.-.-.++...|..++
T Consensus 415 ~--~v~~~P~~~i~~~~~~~~~i~f~--g~P~G~Ef~s~i~~i~ 454 (555)
T TIGR03143 415 P--KITKLPTVALLDDDGNYTGLKFH--GVPSGHELNSFILALY 454 (555)
T ss_pred c--CCCcCCEEEEEeCCCcccceEEE--ecCccHhHHHHHHHHH
Confidence 5 4677898888876664 5544 4333345555555554
No 369
>KOG4013 consensus Predicted Cu2+ homeostasis protein CutC [Inorganic ion transport and metabolism]
Probab=21.12 E-value=1.4e+02 Score=21.43 Aligned_cols=29 Identities=14% Similarity=0.189 Sum_probs=23.2
Q ss_pred CChhhHHHHH---HHHHHhccCCeEEEEeeCC
Q 033205 1 MTNSNYIELS---QLYDKYKDQGLEILAFPCN 29 (125)
Q Consensus 1 ~~~~e~p~l~---~l~~~y~~~g~~vvgv~~~ 29 (125)
|++.||..+. +|.++|+..||++=+.+.+
T Consensus 75 Ysd~Em~a~~~Dv~llk~~GAdGfVFGaLt~d 106 (255)
T KOG4013|consen 75 YSDDEMAANMEDVELLKKAGADGFVFGALTSD 106 (255)
T ss_pred cchHHHHHHHHHHHHHHHcCCCceEEeecCCC
Confidence 6888998874 6889999999987776654
No 370
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=21.10 E-value=3.3e+02 Score=19.65 Aligned_cols=37 Identities=14% Similarity=0.216 Sum_probs=24.3
Q ss_pred CCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCcccceeE
Q 033205 19 QGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 19 ~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~~ 58 (125)
.+++|++|++|. + +...+.+.++++++ ++|+++-++.
T Consensus 58 ~~~~l~av~vd~-g-~~~~~~~~~~~~~~-~lgI~~~v~~ 94 (258)
T PRK10696 58 INFELVAVNLDQ-K-QPGFPEHVLPEYLE-SLGVPYHIEE 94 (258)
T ss_pred CCeEEEEEEecC-C-CCCCCHHHHHHHHH-HhCCCEEEEE
Confidence 368899988762 1 11123456788884 7899887764
No 371
>PLN02504 nitrilase
Probab=21.04 E-value=1e+02 Score=23.57 Aligned_cols=16 Identities=19% Similarity=0.347 Sum_probs=13.0
Q ss_pred eeEEECCCCcEEEEEc
Q 033205 91 AKFLVDKNGQVVDRYY 106 (125)
Q Consensus 91 ttflId~~G~v~~~~~ 106 (125)
+.++|+++|+++.++.
T Consensus 136 sa~~i~~~G~i~~~yr 151 (346)
T PLN02504 136 TVLFFDPQGQYLGKHR 151 (346)
T ss_pred EEEEECCCCCEEeEEe
Confidence 5789999999987663
No 372
>PRK14315 glmM phosphoglucosamine mutase; Provisional
Probab=21.02 E-value=3.7e+02 Score=21.18 Aligned_cols=18 Identities=17% Similarity=0.248 Sum_probs=7.9
Q ss_pred HHHHHHHHHhhCCccccee
Q 033205 39 NDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 39 ~~~~~~f~~~~~~~~fpv~ 57 (125)
.+++.+.++ +.+..+=+.
T Consensus 224 l~~l~~~v~-~~~adlGia 241 (448)
T PRK14315 224 PEALAKKVR-EVRADIGIA 241 (448)
T ss_pred HHHHHHHHH-HcCCCEEEE
Confidence 344445453 334444444
No 373
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=20.80 E-value=1.6e+02 Score=17.41 Aligned_cols=18 Identities=11% Similarity=0.462 Sum_probs=14.2
Q ss_pred HHHHHHHHhhCCcccceeE
Q 033205 40 DQIADFVCTRFKSEFPIFE 58 (125)
Q Consensus 40 ~~~~~f~~~~~~~~fpv~~ 58 (125)
..++++++ ..++.|-.+.
T Consensus 27 ~~ak~~L~-~~~i~y~~id 44 (90)
T cd03028 27 RKVVQILN-QLGVDFGTFD 44 (90)
T ss_pred HHHHHHHH-HcCCCeEEEE
Confidence 57888995 6799998873
No 374
>PF02256 Fe_hyd_SSU: Iron hydrogenase small subunit; InterPro: IPR003149 Many microorganisms, such as methanogenic, acetogenic, nitrogen-fixing, photosynthetic, or sulphate-reducing bacteria, metabolise hydrogen. Hydrogen activation is mediated by a family of enzymes, termed hydrogenases, which either provide these organisms with reducing power from hydrogen oxidation, or act as electron sinks. There are two hydrogenases families that differ functionally from each other: NiFe hydrogenases tend to be more involved in hydrogen oxidation, while Iron-only FeFe (Fe only) hydrogenases in hydrogen production. Fe only hydrogenases (1.12.7.2 from EC) show a common core structure, which contains a moiety, deeply buried inside the protein, with an Fe-Fe dinuclear centre, nonproteic bridging, terminal CO and CN- ligands attached to each of the iron atoms, and a dithio moiety, which also bridges the two iron atoms and has been tentatively assigned as a di(thiomethyl)amine. This common core also harbours three [4Fe-4S] iron-sulphur clusters []. In FeFe hydrogenases, as in NiFe hydrogenases, the set of iron-sulphur clusters is dispersed regularly between the dinuclear Fe-Fe centre and the molecular surface. These clusters are distant by about 1.2 nm from each other but the [4Fe-4S] cluster closest to the dinuclear centre is covalently bound to one of the iron atoms though a thiolate bridging ligand. The moiety including the dinuclear centre, the thiolate bridging ligand, and the proximal [4Fe-4S] cluster is known as the H-cluster. A channel, lined with hydrophobic amino acid side chains, nearly connects the dinuclear centre and the molecular surface. Furthermore hydrogen-bonded water molecule sites have been identified at the interior and at the surface of the protein. The small subunit is comprised of alternating random coil and alpha helical structures that encompass the large subunit in a novel protein fold [].; PDB: 3LX4_A 1C4C_A 1FEH_A 3C8Y_A 1C4A_A 1HFE_S 1GX7_D 1E08_D.
Probab=20.71 E-value=82 Score=17.60 Aligned_cols=15 Identities=20% Similarity=0.459 Sum_probs=11.6
Q ss_pred hhHHHHHHHHHHhcc
Q 033205 4 SNYIELSQLYDKYKD 18 (125)
Q Consensus 4 ~e~p~l~~l~~~y~~ 18 (125)
.|-|.+++||++|=+
T Consensus 27 ~eNp~v~~lY~~~lg 41 (60)
T PF02256_consen 27 HENPEVQELYKEFLG 41 (60)
T ss_dssp GG-HHHHHHHHHTTS
T ss_pred CcCHHHHHHHHHHhC
Confidence 578999999999853
No 375
>PF15337 Vasculin: Vascular protein family Vasculin-like 1
Probab=20.68 E-value=1.1e+02 Score=19.14 Aligned_cols=23 Identities=13% Similarity=0.274 Sum_probs=18.9
Q ss_pred CChhhHHHHHHHHHHhccCCeEE
Q 033205 1 MTNSNYIELSQLYDKYKDQGLEI 23 (125)
Q Consensus 1 ~~~~e~p~l~~l~~~y~~~g~~v 23 (125)
+|+.||-+|+.-.++++..||.=
T Consensus 34 lTEDElkEF~~kseQlrrNGf~k 56 (97)
T PF15337_consen 34 LTEDELKEFQVKSEQLRRNGFGK 56 (97)
T ss_pred CcHHHHHHHHHHHHHHHHccccc
Confidence 58889999999999998777644
No 376
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=20.63 E-value=85 Score=16.69 Aligned_cols=12 Identities=25% Similarity=0.556 Sum_probs=8.9
Q ss_pred EEECCCCcEEEE
Q 033205 93 FLVDKNGQVVDR 104 (125)
Q Consensus 93 flId~~G~v~~~ 104 (125)
|+++++|+++-.
T Consensus 31 ~~~~~~G~p~V~ 42 (47)
T PF13986_consen 31 FVVRADGRPIVT 42 (47)
T ss_pred eEECCCCCEEee
Confidence 788888877543
No 377
>PF03912 Psb28: Psb28 protein; InterPro: IPR005610 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein Psb28 (PsbW) found in PSII, where it is a subunit of the oxygen-evolving complex. Psb28 appears to have several roles, including guiding PSII biogenesis and assembly, stabilising dimeric PSII [], and facilitating PSII repair after photo-inhibition []. There appears to be two classes of Psb28, class 1 being found predominantly in algae and cyanobacteria, and class 2 being found predominantly in plants. This entry represents class 1 Psb28.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0016020 membrane; PDB: 2KVO_A.
Probab=20.59 E-value=85 Score=20.07 Aligned_cols=15 Identities=27% Similarity=0.689 Sum_probs=8.8
Q ss_pred eeeEEECCCCcEEEE
Q 033205 90 FAKFLVDKNGQVVDR 104 (125)
Q Consensus 90 PttflId~~G~v~~~ 104 (125)
=.+|+||.+|.|.-+
T Consensus 49 tgm~liDeEGei~t~ 63 (108)
T PF03912_consen 49 TGMYLIDEEGEISTR 63 (108)
T ss_dssp --EEEE-SS-EEEE-
T ss_pred ceEEEEccCccEEEE
Confidence 457999999998764
No 378
>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region. The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].
Probab=20.53 E-value=72 Score=21.72 Aligned_cols=16 Identities=31% Similarity=0.592 Sum_probs=13.2
Q ss_pred eEEECCCCcEEEEEcC
Q 033205 92 KFLVDKNGQVVDRYYP 107 (125)
Q Consensus 92 tflId~~G~v~~~~~G 107 (125)
+=+||.+|+|+..+..
T Consensus 80 tdfidSdGkvvtay~~ 95 (154)
T PF04478_consen 80 TDFIDSDGKVVTAYRS 95 (154)
T ss_pred CccccCCCcEEEEEcC
Confidence 4579999999998853
No 379
>TIGR00099 Cof-subfamily Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily. The members of this subfamily are restricted almost exclusively to bacteria (one sequences from S. pombe scores above trusted, while another is between trusted and noise). It is notable that no archaea are found in this group, the closest relations to the archaea found here being two Deinococcus sequences.
Probab=20.41 E-value=3.2e+02 Score=19.27 Aligned_cols=38 Identities=8% Similarity=0.353 Sum_probs=21.5
Q ss_pred HHHHHhccCCeEEEEeeCCCCCCCCCCCHHHHHHHHHhhCCccccee
Q 033205 11 QLYDKYKDQGLEILAFPCNQFGEEEPGSNDQIADFVCTRFKSEFPIF 57 (125)
Q Consensus 11 ~l~~~y~~~g~~vvgv~~~~~~~~e~~~~~~~~~f~~~~~~~~fpv~ 57 (125)
+.-++.+++|..|+-.+ . -+...++.++ ++.++..|++
T Consensus 23 ~~i~~l~~~G~~~~iaT-G-------R~~~~~~~~~-~~~~~~~~~I 60 (256)
T TIGR00099 23 EALAKLREKGIKVVLAT-G-------RPYKEVKNIL-KELGLDTPFI 60 (256)
T ss_pred HHHHHHHHCCCeEEEEe-C-------CCHHHHHHHH-HHcCCCCCEE
Confidence 33445556677665444 2 1356677777 3567765555
No 380
>PF02055 Glyco_hydro_30: O-Glycosyl hydrolase family 30; InterPro: IPR001139 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 30 GH30 from CAZY comprises enzymes with only one known activity; glucosylceramidase (3.2.1.45 from EC). Family 30 encompasses the mammalian glucosylceramidases. Human acid beta-glucosidase (D-glucosyl-N-acylsphingosine glucohydrolase), cleaves the glucosidic bonds of glucosylceramide and synthetic beta-glucosides []. Any one of over 50 different mutations in the gene of glucocerebrosidase have been found to affect activity of this hydrolase, producing variants of Gaucher disease, the most prevalent lysosomal storage disease [, ].; GO: 0004348 glucosylceramidase activity, 0006665 sphingolipid metabolic process, 0007040 lysosome organization, 0005764 lysosome; PDB: 2VT0_B 1NOF_A 2Y24_A 2WCG_B 2J25_A 3GXM_D 1Y7V_B 2NT0_C 3GXF_C 3GXD_A ....
Probab=20.37 E-value=1.2e+02 Score=24.58 Aligned_cols=37 Identities=27% Similarity=0.526 Sum_probs=25.1
Q ss_pred HHHHHHHHhccCCeEEEEeeCCCCCCCCCC--------------CHHHHHHHHHh
Q 033205 8 ELSQLYDKYKDQGLEILAFPCNQFGEEEPG--------------SNDQIADFVCT 48 (125)
Q Consensus 8 ~l~~l~~~y~~~g~~vvgv~~~~~~~~e~~--------------~~~~~~~f~~~ 48 (125)
-|.+.-+.|++.|+.|.||+.- -||+ ++++.+.|++.
T Consensus 209 Y~vkfi~aY~~~GI~i~aiT~Q----NEP~~~~~~~~~~~s~~~t~~~~~~Fi~~ 259 (496)
T PF02055_consen 209 YFVKFIQAYKKEGIPIWAITPQ----NEPDNGSDPNYPWPSMGWTPEEQADFIKN 259 (496)
T ss_dssp HHHHHHHHHHCTT--ESEEESS----SSCCGGGSTT-SSC--B--HHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCCeEEEecc----CCCCCCCCCCCCCCcCCCCHHHHHHHHHH
Confidence 4678888999999999999872 1232 36777888853
No 381
>TIGR01552 phd_fam prevent-host-death family protein. This model recognizes a region of about 55 amino acids toward the N-terminal end of bacterial proteins of about 85 amino acids in length. The best-characterized member is prevent-host-death (phd) of bacteriophage P1, the antidote partner of death-on-curing (doc) (TIGR01550) in an addiction module. Addiction modules prevent plasmid curing by killing the host cell as the longer-lived killing protein persists while the gene for the shorter-lived antidote is lost. Note, however, that relatively few members of this family appear to be plasmid or phage-encoded. Also, there is little overlap, except for phage P1 itself, of species with this family and with the doc family.
Probab=20.22 E-value=57 Score=17.16 Aligned_cols=15 Identities=20% Similarity=0.271 Sum_probs=10.2
Q ss_pred EEECCCCcEEEEEcC
Q 033205 93 FLVDKNGQVVDRYYP 107 (125)
Q Consensus 93 flId~~G~v~~~~~G 107 (125)
++|-++|+...+...
T Consensus 24 v~It~~g~~~avlv~ 38 (52)
T TIGR01552 24 VTITKRGRPVAVLVS 38 (52)
T ss_pred EEEEECCcceEEEee
Confidence 667777887666643
No 382
>TIGR02742 TrbC_Ftype type-F conjugative transfer system pilin assembly protein TrbC. This protein is an essential component of the F-type conjugative pilus assembly system for the transfer of plasmid DNA. The N-terminal portion of these proteins are heterogeneous and are not covered by this model.
Probab=20.09 E-value=2.7e+02 Score=18.26 Aligned_cols=34 Identities=24% Similarity=0.089 Sum_probs=20.0
Q ss_pred CcccceeeEEECCCC----------cEEEEEcCCCChhHHHHHH
Q 033205 85 DIQWNFAKFLVDKNG----------QVVDRYYPTTSLLSLEHDI 118 (125)
Q Consensus 85 ~i~~~PttflId~~G----------~v~~~~~G~~~~~~l~~~I 118 (125)
+|..+|+.+++..++ .-..+..|.++.+..-+.|
T Consensus 68 ~I~~VPa~V~~~~~~~c~~~~~~~~~~~d~v~Gdvsl~~ALe~i 111 (130)
T TIGR02742 68 DITAVPAFVVVKDGLACLPEQPCPESDYDVVYGNVSLKGALEKM 111 (130)
T ss_pred CceEcCEEEEECCCCcccccCCCCCCCeeEEEecccHHHHHHHH
Confidence 699999877775553 0123445777755433333
No 383
>PRK10887 glmM phosphoglucosamine mutase; Provisional
Probab=20.08 E-value=4.4e+02 Score=20.72 Aligned_cols=9 Identities=33% Similarity=0.689 Sum_probs=4.2
Q ss_pred EEECCCCcE
Q 033205 93 FLVDKNGQV 101 (125)
Q Consensus 93 flId~~G~v 101 (125)
.+||.+|++
T Consensus 245 ~~vd~~G~~ 253 (443)
T PRK10887 245 IMVDHLGNL 253 (443)
T ss_pred EEECCCCcE
Confidence 334555543
No 384
>PRK14323 glmM phosphoglucosamine mutase; Provisional
Probab=20.08 E-value=3.7e+02 Score=21.07 Aligned_cols=8 Identities=38% Similarity=0.958 Sum_probs=4.0
Q ss_pred EECCCCcE
Q 033205 94 LVDKNGQV 101 (125)
Q Consensus 94 lId~~G~v 101 (125)
+||.+|++
T Consensus 248 ~vD~~G~~ 255 (440)
T PRK14323 248 FVDRRGRL 255 (440)
T ss_pred EECCCCcE
Confidence 34555544
No 385
>PF02114 Phosducin: Phosducin; InterPro: IPR024253 The outer and inner segments of vertebrate rod photoreceptor cells contain phosducin, a soluble phosphoprotein that complexes with the beta/gamma-subunits of the GTP-binding protein, transducin. Light-induced changes in cyclic nucleotide levels modulate the phosphorylation of phosducin by protein kinase A []. The protein is thought to participate in the regulation of visual phototransduction or in the integration of photo-receptor metabolism. Similar proteins have been isolated from the pineal gland and it is believed that the functional role of the protein is the same in both retina and pineal gland []. This entry represents a domain found in members of the phosducin family. This domain has a thioredoxin-like fold [].; PDB: 2DBC_A 1A0R_P 1B9Y_C 1B9X_C 2TRC_P 3EVI_B.
Probab=20.04 E-value=2e+02 Score=21.24 Aligned_cols=24 Identities=17% Similarity=0.158 Sum_probs=17.3
Q ss_pred CcccceeeEEECCCCcEEEEEcCCC
Q 033205 85 DIQWNFAKFLVDKNGQVVDRYYPTT 109 (125)
Q Consensus 85 ~i~~~PttflId~~G~v~~~~~G~~ 109 (125)
.+..+||-++. ++|.++..++|..
T Consensus 195 ~~~~LPtllvY-k~G~l~~~~V~l~ 218 (265)
T PF02114_consen 195 PDKNLPTLLVY-KNGDLIGNFVGLT 218 (265)
T ss_dssp -TTC-SEEEEE-ETTEEEEEECTGG
T ss_pred cccCCCEEEEE-ECCEEEEeEEehH
Confidence 46778986666 7999999988743
Done!