Query 025774
Match_columns 248
No_of_seqs 167 out of 1012
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 09:23:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025774.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025774hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1363 Predicted regulator of 100.0 3.3E-31 7E-36 243.6 5.8 234 1-248 199-460 (460)
2 KOG1364 Predicted ubiquitin re 100.0 3.5E-28 7.5E-33 212.0 10.7 224 13-247 124-355 (356)
3 cd01770 p47_UBX p47-like ubiqu 99.9 4.5E-23 9.7E-28 147.4 9.9 78 168-248 2-79 (79)
4 cd01773 Faf1_like1_UBX Faf1 ik 99.9 3.8E-22 8.3E-27 142.3 9.6 77 167-246 2-78 (82)
5 cd01767 UBX UBX (ubiquitin reg 99.9 5.8E-22 1.3E-26 141.4 9.6 76 169-248 1-77 (77)
6 cd01774 Faf1_like2_UBX Faf1 ik 99.9 7.2E-22 1.6E-26 143.0 9.6 79 168-248 2-84 (85)
7 cd01771 Faf1_UBX Faf1 UBX doma 99.9 1.4E-21 2.9E-26 140.0 9.5 75 168-245 2-76 (80)
8 PF00789 UBX: UBX domain; Int 99.8 6.3E-20 1.4E-24 132.3 9.1 79 167-247 3-82 (82)
9 smart00166 UBX Domain present 99.8 8.1E-20 1.8E-24 131.2 9.4 76 169-247 3-80 (80)
10 cd01772 SAKS1_UBX SAKS1-like U 99.8 8.1E-20 1.7E-24 130.8 9.1 75 169-246 3-77 (79)
11 cd02991 UAS_ETEA UAS family, E 99.8 5.3E-19 1.1E-23 135.7 9.3 80 2-81 35-116 (116)
12 KOG2507 Ubiquitin regulatory p 99.8 7.8E-19 1.7E-23 156.4 10.6 77 1-78 35-111 (506)
13 cd02990 UAS_FAF1 UAS family, F 99.8 9.6E-19 2.1E-23 136.9 8.9 80 2-81 39-136 (136)
14 smart00594 UAS UAS domain. 99.6 4.2E-16 9E-21 120.7 7.4 74 1-74 44-121 (122)
15 cd02958 UAS UAS family; UAS is 99.6 1.6E-15 3.5E-20 115.8 8.8 80 1-80 34-113 (114)
16 KOG2086 Protein tyrosine phosp 99.5 2.8E-14 6.1E-19 126.9 6.3 79 167-248 302-380 (380)
17 KOG2689 Predicted ubiquitin re 99.4 1.7E-12 3.7E-17 110.4 7.6 78 168-247 208-286 (290)
18 COG2143 Thioredoxin-related pr 97.7 0.00021 4.6E-09 56.9 7.9 77 2-79 60-150 (182)
19 cd02951 SoxW SoxW family; SoxW 97.7 0.00031 6.7E-09 53.9 8.3 74 7-80 37-121 (125)
20 cd02953 DsbDgamma DsbD gamma f 97.6 0.0003 6.6E-09 52.1 7.0 69 6-74 33-103 (104)
21 cd01806 Nedd8 Nebb8-like ubiq 97.4 0.0013 2.7E-08 45.9 8.0 69 172-247 2-71 (76)
22 cd01792 ISG15_repeat1 ISG15 ub 97.3 0.0017 3.8E-08 46.1 8.2 72 171-247 3-75 (80)
23 PF11543 UN_NPL4: Nuclear pore 97.3 0.00072 1.6E-08 48.3 5.8 72 170-244 4-75 (80)
24 cd01791 Ubl5 UBL5 ubiquitin-li 97.3 0.0025 5.4E-08 44.6 8.4 70 171-247 2-72 (73)
25 PF13899 Thioredoxin_7: Thiore 97.3 0.00075 1.6E-08 48.0 5.6 48 2-52 35-82 (82)
26 cd01809 Scythe_N Ubiquitin-lik 97.3 0.0017 3.6E-08 44.7 7.2 70 171-247 1-71 (72)
27 cd01807 GDX_N ubiquitin-like d 97.1 0.0029 6.3E-08 44.2 7.3 68 172-246 2-70 (74)
28 PF13098 Thioredoxin_2: Thiore 97.1 0.00038 8.2E-09 52.1 2.4 64 10-74 31-112 (112)
29 cd01763 Sumo Small ubiquitin-r 97.1 0.008 1.7E-07 43.4 9.3 73 166-245 7-80 (87)
30 cd02955 SSP411 TRX domain, SSP 97.0 0.0018 3.8E-08 50.2 6.0 62 2-64 33-100 (124)
31 cd01794 DC_UbP_C dendritic cel 97.0 0.0027 5.8E-08 44.1 6.3 66 173-245 1-67 (70)
32 PTZ00044 ubiquitin; Provisiona 97.0 0.005 1.1E-07 43.0 7.4 69 172-247 2-71 (76)
33 cd01803 Ubiquitin Ubiquitin. U 96.9 0.0065 1.4E-07 42.2 7.3 69 172-247 2-71 (76)
34 cd01804 midnolin_N Ubiquitin-l 96.8 0.0094 2E-07 42.1 7.7 67 171-245 2-69 (78)
35 cd02950 TxlA TRX-like protein 96.8 0.013 2.8E-07 46.2 9.3 63 18-81 51-113 (142)
36 cd01798 parkin_N amino-termina 96.7 0.0091 2E-07 41.1 6.7 67 173-246 1-68 (70)
37 cd03065 PDI_b_Calsequestrin_N 96.6 0.015 3.2E-07 44.8 8.2 61 14-79 59-120 (120)
38 cd01805 RAD23_N Ubiquitin-like 96.6 0.016 3.4E-07 40.5 7.6 67 172-245 2-71 (77)
39 cd01814 NTGP5 Ubiquitin-like N 96.6 0.0062 1.3E-07 46.0 5.7 64 169-238 3-73 (113)
40 cd01812 BAG1_N Ubiquitin-like 96.6 0.014 3E-07 40.0 7.1 68 171-246 1-69 (71)
41 PF13881 Rad60-SLD_2: Ubiquiti 96.5 0.018 3.9E-07 43.7 7.8 64 170-239 2-72 (111)
42 PF00240 ubiquitin: Ubiquitin 96.5 0.014 3.1E-07 39.7 6.8 63 176-245 1-64 (69)
43 cd01810 ISG15_repeat2 ISG15 ub 96.5 0.015 3.3E-07 40.5 6.8 67 173-246 1-68 (74)
44 PRK11509 hydrogenase-1 operon 96.4 0.028 6E-07 44.0 8.6 59 19-81 69-127 (132)
45 cd01802 AN1_N ubiquitin-like d 96.4 0.026 5.7E-07 42.2 8.1 72 169-247 26-98 (103)
46 cd01808 hPLIC_N Ubiquitin-like 96.3 0.026 5.6E-07 38.9 7.4 68 172-247 2-70 (71)
47 cd01796 DDI1_N DNA damage indu 96.3 0.017 3.6E-07 40.1 6.1 67 173-245 1-69 (71)
48 PF11976 Rad60-SLD: Ubiquitin- 95.9 0.053 1.1E-06 37.3 7.2 68 171-245 1-70 (72)
49 PF14836 Ubiquitin_3: Ubiquiti 95.8 0.042 9E-07 39.8 6.4 62 182-245 15-77 (88)
50 KOG0910 Thioredoxin-like prote 95.8 0.031 6.7E-07 44.5 6.1 59 17-79 91-149 (150)
51 PF00085 Thioredoxin: Thioredo 95.6 0.15 3.2E-06 36.8 8.8 58 15-76 45-102 (103)
52 cd02956 ybbN ybbN protein fami 95.5 0.1 2.2E-06 37.6 7.8 55 16-74 41-95 (96)
53 cd01797 NIRF_N amino-terminal 95.5 0.089 1.9E-06 37.2 7.3 69 172-247 2-73 (78)
54 cd02965 HyaE HyaE family; HyaE 95.4 0.083 1.8E-06 40.0 7.1 50 19-72 61-110 (111)
55 cd02997 PDI_a_PDIR PDIa family 95.4 0.091 2E-06 38.1 7.2 53 18-72 50-102 (104)
56 PRK00293 dipZ thiol:disulfide 95.4 0.051 1.1E-06 52.7 7.4 72 4-77 494-569 (571)
57 PRK10996 thioredoxin 2; Provis 95.3 0.15 3.2E-06 40.0 8.7 58 16-77 81-138 (139)
58 cd01769 UBL Ubiquitin-like dom 95.3 0.13 2.7E-06 34.5 7.2 66 175-247 2-68 (69)
59 cd02949 TRX_NTR TRX domain, no 95.2 0.13 2.9E-06 37.3 7.7 55 16-74 42-96 (97)
60 smart00213 UBQ Ubiquitin homol 95.2 0.088 1.9E-06 34.8 6.1 62 172-241 2-63 (64)
61 TIGR01068 thioredoxin thioredo 95.0 0.23 5E-06 35.5 8.3 57 17-77 44-100 (101)
62 cd02985 TRX_CDSP32 TRX family, 94.9 0.27 5.9E-06 36.2 8.5 54 19-75 46-100 (103)
63 cd02960 AGR Anterior Gradient 94.9 0.038 8.2E-07 43.1 3.9 59 2-64 41-99 (130)
64 PRK09381 trxA thioredoxin; Pro 94.3 0.35 7.6E-06 35.6 8.1 57 17-77 51-107 (109)
65 cd03011 TlpA_like_ScsD_MtbDsbE 94.3 0.12 2.7E-06 38.8 5.7 61 10-74 62-122 (123)
66 cd01793 Fubi Fubi ubiquitin-li 94.2 0.36 7.8E-06 33.4 7.5 66 172-246 2-68 (74)
67 PF03190 Thioredox_DsbH: Prote 94.2 0.12 2.7E-06 41.8 5.7 58 2-60 55-118 (163)
68 cd03002 PDI_a_MPD1_like PDI fa 94.2 0.25 5.4E-06 36.3 7.0 58 16-73 47-107 (109)
69 TIGR00385 dsbE periplasmic pro 94.2 0.17 3.7E-06 41.0 6.6 45 34-79 128-172 (173)
70 TIGR00601 rad23 UV excision re 94.1 0.21 4.5E-06 45.9 7.7 68 172-245 2-72 (378)
71 cd01790 Herp_N Homocysteine-re 94.0 0.38 8.1E-06 34.2 7.2 71 171-247 2-78 (79)
72 cd01813 UBP_N UBP ubiquitin pr 94.0 0.41 8.9E-06 33.4 7.3 69 172-245 2-71 (74)
73 cd03003 PDI_a_ERdj5_N PDIa fam 93.7 0.33 7.2E-06 35.3 6.8 55 14-72 45-99 (101)
74 cd00196 UBQ Ubiquitin-like pro 93.7 0.34 7.4E-06 30.4 6.2 64 175-245 2-66 (69)
75 PHA02278 thioredoxin-like prot 93.2 0.51 1.1E-05 35.1 7.1 49 21-71 48-98 (103)
76 TIGR02740 TraF-like TraF-like 93.2 0.67 1.4E-05 40.7 8.9 71 9-79 185-265 (271)
77 PRK03147 thiol-disulfide oxido 93.2 0.78 1.7E-05 36.6 8.8 43 33-76 128-170 (173)
78 cd03005 PDI_a_ERp46 PDIa famil 93.0 0.64 1.4E-05 33.5 7.4 50 19-72 51-100 (102)
79 cd01800 SF3a120_C Ubiquitin-li 92.6 0.53 1.1E-05 32.8 6.2 62 179-247 6-68 (76)
80 cd02947 TRX_family TRX family; 92.5 1.1 2.4E-05 30.7 7.9 53 18-74 40-92 (93)
81 cd02994 PDI_a_TMX PDIa family, 92.4 1.1 2.3E-05 32.4 7.9 52 19-75 49-100 (101)
82 PF14560 Ubiquitin_2: Ubiquiti 92.3 1.3 2.8E-05 31.7 8.0 73 171-245 2-80 (87)
83 cd02961 PDI_a_family Protein D 92.3 0.6 1.3E-05 32.9 6.4 53 17-72 47-99 (101)
84 cd02963 TRX_DnaJ TRX domain, D 92.2 1.2 2.6E-05 33.2 8.1 53 19-75 57-109 (111)
85 TIGR02738 TrbB type-F conjugat 92.1 1.1 2.3E-05 36.0 8.0 38 40-77 115-152 (153)
86 cd02982 PDI_b'_family Protein 91.6 0.81 1.8E-05 33.1 6.5 56 18-75 43-100 (103)
87 TIGR02739 TraF type-F conjugat 91.5 1.2 2.6E-05 38.8 8.3 69 13-81 173-251 (256)
88 TIGR01126 pdi_dom protein disu 91.5 1.6 3.4E-05 31.2 7.9 54 19-76 47-100 (102)
89 cd03004 PDI_a_ERdj5_C PDIa fam 91.4 1.1 2.4E-05 32.5 7.1 52 18-72 50-102 (104)
90 cd03006 PDI_a_EFP1_N PDIa fami 91.4 1.1 2.4E-05 33.9 7.1 57 12-72 54-111 (113)
91 PRK15412 thiol:disulfide inter 91.3 0.53 1.2E-05 38.6 5.7 45 35-80 134-178 (185)
92 cd03010 TlpA_like_DsbE TlpA-li 91.3 0.38 8.3E-06 36.4 4.5 37 33-70 90-126 (127)
93 PF08817 YukD: WXG100 protein 91.2 0.61 1.3E-05 32.8 5.2 70 170-244 2-76 (79)
94 cd02948 TRX_NDPK TRX domain, T 91.1 1.8 3.9E-05 31.6 7.9 50 20-75 51-100 (102)
95 PF09379 FERM_N: FERM N-termin 91.1 1.2 2.6E-05 31.0 6.6 64 175-239 1-65 (80)
96 PF13728 TraF: F plasmid trans 91.1 1.1 2.4E-05 37.9 7.6 63 12-74 142-214 (215)
97 PLN00410 U5 snRNP protein, DIM 91.0 1.8 3.8E-05 34.3 8.1 58 20-80 56-122 (142)
98 cd02984 TRX_PICOT TRX domain, 90.6 1.7 3.8E-05 30.9 7.4 51 19-74 46-96 (97)
99 cd01799 Hoil1_N Ubiquitin-like 89.8 1.4 3.1E-05 30.7 6.0 63 176-245 8-72 (75)
100 TIGR00411 redox_disulf_1 small 89.8 2.9 6.2E-05 28.7 7.7 51 19-77 31-81 (82)
101 PRK14018 trifunctional thiored 89.3 1.3 2.9E-05 42.4 7.3 43 32-75 128-170 (521)
102 cd01815 BMSC_UbP_N Ubiquitin-l 89.1 1.2 2.7E-05 31.2 5.1 52 188-245 18-72 (75)
103 PRK13703 conjugal pilus assemb 88.7 1.1 2.4E-05 38.8 5.7 70 12-81 165-244 (248)
104 cd02998 PDI_a_ERp38 PDIa famil 88.7 1.9 4.2E-05 30.9 6.3 52 19-72 52-103 (105)
105 cd03000 PDI_a_TMX3 PDIa family 88.7 3.5 7.6E-05 30.0 7.8 52 20-76 51-102 (104)
106 PRK13728 conjugal transfer pro 88.5 4.1 8.8E-05 33.6 8.7 69 11-80 90-173 (181)
107 cd02954 DIM1 Dim1 family; Dim1 88.5 1.5 3.2E-05 33.4 5.7 42 20-65 47-88 (114)
108 cd02999 PDI_a_ERp44_like PDIa 87.7 2.6 5.6E-05 30.8 6.5 50 19-72 49-98 (100)
109 cd02966 TlpA_like_family TlpA- 87.2 0.73 1.6E-05 33.1 3.3 30 33-63 87-116 (116)
110 cd02993 PDI_a_APS_reductase PD 86.9 3.6 7.9E-05 30.3 7.0 59 12-72 46-107 (109)
111 cd02957 Phd_like Phosducin (Ph 86.8 2.6 5.5E-05 31.4 6.2 41 19-64 55-95 (113)
112 cd01801 Tsc13_N Ubiquitin-like 86.4 3.3 7.1E-05 28.8 6.1 55 188-246 20-75 (77)
113 cd02996 PDI_a_ERp44 PDIa famil 86.0 2.7 5.9E-05 30.8 5.9 50 19-72 56-106 (108)
114 PTZ00443 Thioredoxin domain-co 85.9 5.5 0.00012 33.9 8.4 59 17-79 82-140 (224)
115 COG5100 NPL4 Nuclear pore prot 84.8 3.8 8.3E-05 37.8 7.1 74 172-247 2-78 (571)
116 TIGR02187 GlrX_arch Glutaredox 84.8 3.7 8E-05 34.4 6.8 56 22-79 56-112 (215)
117 PLN02560 enoyl-CoA reductase 84.6 6.7 0.00015 35.1 8.6 72 172-246 2-81 (308)
118 cd03017 PRX_BCP Peroxiredoxin 84.2 3 6.5E-05 31.8 5.6 38 34-72 91-137 (140)
119 smart00295 B41 Band 4.1 homolo 84.1 9.1 0.0002 31.2 8.8 70 170-239 3-72 (207)
120 cd03001 PDI_a_P5 PDIa family, 83.7 8.6 0.00019 27.4 7.6 52 18-72 49-100 (103)
121 cd01795 USP48_C USP ubiquitin- 83.2 3.8 8.2E-05 30.4 5.3 56 186-247 20-75 (107)
122 KOG0907 Thioredoxin [Posttrans 82.9 5.7 0.00012 29.7 6.4 51 11-65 42-94 (106)
123 PTZ00051 thioredoxin; Provisio 82.9 4.7 0.0001 28.6 5.9 47 19-70 49-95 (98)
124 cd02975 PfPDO_like_N Pyrococcu 82.4 9 0.00019 28.6 7.4 57 19-79 53-111 (113)
125 cd01789 Alp11_N Ubiquitin-like 82.4 15 0.00033 26.0 8.5 73 171-246 2-79 (84)
126 cd03008 TryX_like_RdCVF Trypar 81.3 4.2 9.2E-05 32.2 5.4 49 11-60 79-128 (146)
127 PF11470 TUG-UBL1: GLUT4 regul 81.0 4.2 9.2E-05 27.7 4.6 59 177-242 3-61 (65)
128 cd02987 Phd_like_Phd Phosducin 80.9 5.2 0.00011 32.6 6.0 42 19-65 114-155 (175)
129 cd02995 PDI_a_PDI_a'_C PDIa fa 80.8 8.2 0.00018 27.4 6.6 49 19-72 52-102 (104)
130 cd02989 Phd_like_TxnDC9 Phosdu 80.6 7 0.00015 29.2 6.3 42 19-64 53-94 (113)
131 cd02983 P5_C P5 family, C-term 80.5 11 0.00024 29.1 7.5 62 17-81 54-118 (130)
132 PF02809 UIM: Ubiquitin intera 80.4 2.2 4.7E-05 21.4 2.3 16 111-126 2-17 (18)
133 TIGR01295 PedC_BrcD bacterioci 80.2 16 0.00035 27.8 8.2 61 9-71 42-117 (122)
134 PF13905 Thioredoxin_8: Thiore 79.5 5.5 0.00012 28.2 5.2 44 10-56 48-94 (95)
135 cd02969 PRX_like1 Peroxiredoxi 79.4 9.9 0.00022 30.3 7.2 47 34-81 100-155 (171)
136 PHA02125 thioredoxin-like prot 76.4 6.5 0.00014 26.9 4.6 62 6-74 8-73 (75)
137 COG4232 Thiol:disulfide interc 76.1 11 0.00024 36.5 7.4 74 2-77 492-567 (569)
138 smart00726 UIM Ubiquitin-inter 75.6 3.1 6.7E-05 23.0 2.2 18 112-129 2-19 (26)
139 TIGR01626 ytfJ_HI0045 conserve 75.6 9 0.0002 31.6 5.9 43 34-78 136-179 (184)
140 cd02962 TMX2 TMX2 family; comp 75.2 16 0.00034 29.1 7.1 41 19-63 80-126 (152)
141 PF08534 Redoxin: Redoxin; In 74.7 3.8 8.2E-05 31.6 3.4 34 32-66 94-136 (146)
142 cd01777 SNX27_RA Ubiquitin dom 74.1 7.7 0.00017 28.0 4.5 34 171-204 2-35 (87)
143 PLN02919 haloacid dehalogenase 73.3 9.4 0.0002 40.0 6.7 47 34-81 493-539 (1057)
144 cd03012 TlpA_like_DipZ_like Tl 71.7 8.4 0.00018 29.0 4.6 29 34-63 96-124 (126)
145 cd03007 PDI_a_ERp29_N PDIa fam 70.7 22 0.00047 27.1 6.6 55 19-75 51-113 (116)
146 PTZ00062 glutaredoxin; Provisi 70.5 17 0.00037 30.5 6.6 46 19-77 48-93 (204)
147 PF07449 HyaE: Hydrogenase-1 e 70.4 11 0.00024 28.3 4.9 41 24-66 63-103 (107)
148 cd02964 TryX_like_family Trypa 70.0 15 0.00032 28.0 5.7 26 33-59 89-114 (132)
149 cd03009 TryX_like_TryX_NRX Try 70.0 14 0.0003 27.9 5.6 27 33-60 89-115 (131)
150 KOG0908 Thioredoxin-like prote 69.9 20 0.00044 31.1 6.9 70 5-79 30-107 (288)
151 TIGR01130 ER_PDI_fam protein d 69.1 26 0.00057 32.2 8.2 56 20-79 54-110 (462)
152 PRK09437 bcp thioredoxin-depen 68.8 19 0.0004 28.1 6.2 30 45-76 121-150 (154)
153 PTZ00056 glutathione peroxidas 68.7 33 0.00072 28.4 8.0 34 46-80 147-180 (199)
154 PLN02412 probable glutathione 68.0 13 0.00028 29.9 5.2 37 42-79 129-165 (167)
155 PF13848 Thioredoxin_6: Thiore 65.9 30 0.00065 27.3 7.0 53 18-72 126-180 (184)
156 KOG0011 Nucleotide excision re 64.1 24 0.00051 31.8 6.3 69 172-246 2-72 (340)
157 cd00340 GSH_Peroxidase Glutath 63.7 4.4 9.6E-05 31.8 1.6 25 46-71 125-149 (152)
158 cd03072 PDI_b'_ERp44 PDIb' fam 62.0 31 0.00067 25.7 5.9 62 16-79 46-109 (111)
159 TIGR02540 gpx7 putative glutat 61.9 36 0.00078 26.5 6.7 35 42-77 114-152 (153)
160 PTZ00102 disulphide isomerase; 59.2 39 0.00084 31.5 7.4 56 19-79 84-139 (477)
161 KOG0912 Thiol-disulfide isomer 58.6 18 0.00038 32.5 4.5 56 19-77 49-105 (375)
162 cd02988 Phd_like_VIAF Phosduci 58.2 43 0.00093 27.7 6.7 38 20-64 134-171 (192)
163 PRK15000 peroxidase; Provision 58.1 43 0.00092 27.8 6.7 41 34-75 109-159 (200)
164 PLN02399 phospholipid hydroper 57.2 22 0.00049 30.5 5.0 35 43-78 200-234 (236)
165 TIGR02661 MauD methylamine deh 57.0 37 0.00081 27.7 6.1 45 33-80 136-180 (189)
166 cd02959 ERp19 Endoplasmic reti 56.8 8.9 0.00019 28.9 2.2 57 16-76 50-111 (117)
167 KOG0005 Ubiquitin-like protein 55.5 30 0.00065 23.2 4.2 66 172-244 2-67 (70)
168 KOG0010 Ubiquitin-like protein 55.1 39 0.00084 32.1 6.4 70 169-246 14-84 (493)
169 PTZ00102 disulphide isomerase; 55.0 40 0.00086 31.4 6.7 58 19-79 409-466 (477)
170 cd02992 PDI_a_QSOX PDIa family 54.4 83 0.0018 23.3 7.2 33 20-52 55-87 (114)
171 TIGR00424 APS_reduc 5'-adenyly 53.0 66 0.0014 30.6 7.7 54 20-74 405-459 (463)
172 TIGR01130 ER_PDI_fam protein d 52.8 43 0.00092 30.8 6.5 61 12-77 389-453 (462)
173 cd03026 AhpF_NTD_C TRX-GRX-lik 51.7 27 0.00058 25.0 3.9 46 19-72 43-88 (89)
174 PLN02309 5'-adenylylsulfate re 51.7 77 0.0017 30.1 8.0 55 19-75 398-454 (457)
175 COG1331 Highly conserved prote 51.6 69 0.0015 31.8 7.8 77 2-79 61-151 (667)
176 TIGR00412 redox_disulf_2 small 51.3 76 0.0016 21.6 6.2 53 11-74 19-75 (76)
177 PF00571 CBS: CBS domain CBS d 50.8 29 0.00063 21.7 3.7 56 12-75 1-56 (57)
178 COG3531 Predicted protein-disu 48.7 46 0.001 27.9 5.2 46 32-79 163-210 (212)
179 PTZ00256 glutathione peroxidas 48.0 44 0.00096 27.1 5.2 38 40-78 141-181 (183)
180 cd02952 TRP14_like Human TRX-r 47.5 66 0.0014 24.5 5.7 46 6-51 38-98 (119)
181 PRK10382 alkyl hydroperoxide r 47.4 1.6E+02 0.0034 24.2 8.6 57 18-75 64-153 (187)
182 cd01787 GRB7_RA RA (RAS-associ 47.0 1.1E+02 0.0023 22.1 6.3 50 171-220 3-52 (85)
183 cd03015 PRX_Typ2cys Peroxiredo 43.6 27 0.00058 27.9 3.2 41 34-75 104-154 (173)
184 TIGR00216 ispH_lytB (E)-4-hydr 42.6 1E+02 0.0022 27.3 6.8 76 5-80 189-279 (280)
185 cd02967 mauD Methylamine utili 41.4 44 0.00096 24.1 3.9 23 35-58 87-109 (114)
186 PF02401 LYTB: LytB protein; 40.4 97 0.0021 27.4 6.4 76 4-79 189-279 (281)
187 cd01760 RBD Ubiquitin-like dom 40.3 1.1E+02 0.0023 21.2 5.3 44 173-217 2-45 (72)
188 KOG2699 Predicted ubiquitin re 39.6 7 0.00015 36.1 -0.9 46 169-215 316-361 (407)
189 cd01659 TRX_superfamily Thiore 39.3 82 0.0018 18.6 4.7 37 16-52 25-62 (69)
190 KOG0190 Protein disulfide isom 38.8 58 0.0013 31.2 5.0 42 33-76 89-130 (493)
191 PF13019 Telomere_Sde2: Telome 37.6 1.5E+02 0.0032 24.1 6.4 46 172-217 2-51 (162)
192 TIGR02187 GlrX_arch Glutaredox 37.1 1.3E+02 0.0029 24.9 6.6 51 19-76 164-214 (215)
193 PRK01045 ispH 4-hydroxy-3-meth 35.7 1.3E+02 0.0029 26.8 6.5 78 4-81 190-282 (298)
194 PRK00522 tpx lipid hydroperoxi 34.4 1.3E+02 0.0029 23.8 6.0 29 33-62 111-148 (167)
195 cd02973 TRX_GRX_like Thioredox 34.0 1.2E+02 0.0027 19.4 4.9 29 19-49 30-58 (67)
196 PRK12360 4-hydroxy-3-methylbut 33.4 1.4E+02 0.0031 26.3 6.3 75 5-79 190-279 (281)
197 PF02824 TGS: TGS domain; Int 33.0 66 0.0014 21.1 3.2 30 173-204 1-30 (60)
198 cd03018 PRX_AhpE_like Peroxire 32.6 1.2E+02 0.0026 22.9 5.3 32 33-65 97-134 (149)
199 PRK13190 putative peroxiredoxi 32.4 1.1E+02 0.0025 25.1 5.4 43 34-77 101-153 (202)
200 COG3118 Thioredoxin domain-con 31.7 1.7E+02 0.0037 26.1 6.4 50 17-70 73-122 (304)
201 cd04598 CBS_pair_GGDEF_assoc T 31.1 77 0.0017 22.6 3.8 59 8-71 59-117 (119)
202 PRK11657 dsbG disulfide isomer 31.0 1.2E+02 0.0027 26.0 5.5 39 34-74 210-248 (251)
203 PF01323 DSBA: DSBA-like thior 30.1 1.6E+02 0.0035 23.3 5.8 37 33-75 157-193 (193)
204 cd02986 DLP Dim1 family, Dim1- 30.1 1.2E+02 0.0026 23.0 4.6 54 19-76 45-109 (114)
205 PF00564 PB1: PB1 domain; Int 29.6 1.8E+02 0.004 19.7 5.8 46 170-216 1-46 (84)
206 PF10790 DUF2604: Protein of U 29.5 1.9E+02 0.004 19.7 5.1 60 179-243 4-65 (76)
207 cd01818 TIAM1_RBD Ubiquitin do 29.3 1.5E+02 0.0032 20.9 4.5 40 175-215 4-43 (77)
208 COG1999 Uncharacterized protei 29.0 1.9E+02 0.0041 24.1 6.1 39 40-79 167-205 (207)
209 smart00455 RBD Raf-like Ras-bi 29.0 1.9E+02 0.0041 19.7 5.4 43 173-216 2-44 (70)
210 PF13743 Thioredoxin_5: Thiore 28.9 54 0.0012 26.5 2.7 36 33-68 137-172 (176)
211 KOG3878 Protein involved in ma 28.6 11 0.00024 34.0 -1.4 41 39-80 73-116 (469)
212 cd01788 ElonginB Ubiquitin-lik 28.4 1.3E+02 0.0028 22.9 4.4 45 188-239 19-63 (119)
213 cd03073 PDI_b'_ERp72_ERp57 PDI 28.4 2.3E+02 0.005 21.0 5.9 55 15-73 46-106 (111)
214 cd03020 DsbA_DsbC_DsbG DsbA fa 28.3 97 0.0021 25.2 4.2 64 4-73 126-196 (197)
215 cd06395 PB1_Map2k5 PB1 domain 27.5 1.3E+02 0.0027 21.5 3.9 42 172-213 2-45 (91)
216 PRK13191 putative peroxiredoxi 27.4 2.7E+02 0.0059 23.3 6.9 42 34-76 107-159 (215)
217 PF00462 Glutaredoxin: Glutare 26.8 1.4E+02 0.003 18.9 4.0 39 11-49 14-55 (60)
218 PRK13730 conjugal transfer pil 26.8 1.2E+02 0.0026 25.5 4.4 39 35-76 154-192 (212)
219 PF13192 Thioredoxin_3: Thiore 26.5 1.4E+02 0.003 20.2 4.2 36 33-74 39-75 (76)
220 PTZ00253 tryparedoxin peroxida 26.2 1E+02 0.0022 25.3 4.0 31 34-65 111-147 (199)
221 PF02196 RBD: Raf-like Ras-bin 25.8 2.2E+02 0.0048 19.4 5.9 44 172-216 2-45 (71)
222 PRK10877 protein disulfide iso 25.5 1.3E+02 0.0029 25.5 4.7 65 5-75 159-228 (232)
223 cd03023 DsbA_Com1_like DsbA fa 25.5 1.7E+02 0.0037 21.9 5.0 35 33-74 119-153 (154)
224 cd03016 PRX_1cys Peroxiredoxin 25.5 3.3E+02 0.0071 22.4 7.0 40 34-74 99-150 (203)
225 cd02971 PRX_family Peroxiredox 24.7 2.3E+02 0.005 21.0 5.6 19 46-65 112-130 (140)
226 PF09673 TrbC_Ftype: Type-F co 23.5 1.5E+02 0.0033 22.1 4.2 40 35-74 63-112 (113)
227 PRK00087 4-hydroxy-3-methylbut 23.5 2E+02 0.0044 28.4 6.1 77 5-81 187-278 (647)
228 PF07319 DnaI_N: Primosomal pr 22.0 42 0.00092 24.3 0.8 16 4-19 26-41 (94)
229 cd06409 PB1_MUG70 The MUG70 pr 21.6 3.1E+02 0.0068 19.6 5.7 44 173-216 3-48 (86)
230 PF13778 DUF4174: Domain of un 21.6 3.5E+02 0.0077 20.2 6.3 48 31-82 65-112 (118)
231 COG0386 BtuE Glutathione perox 21.6 1.5E+02 0.0033 23.9 3.9 70 8-78 75-160 (162)
232 PRK13189 peroxiredoxin; Provis 21.3 1.5E+02 0.0032 25.0 4.1 41 34-75 109-160 (222)
233 PF13462 Thioredoxin_4: Thiore 21.2 2.6E+02 0.0057 21.2 5.4 36 33-75 126-161 (162)
234 KOG3530 FERM domain protein EH 20.8 1.5E+02 0.0032 29.1 4.3 47 168-214 8-54 (616)
235 TIGR02742 TrbC_Ftype type-F co 20.8 2.1E+02 0.0046 22.2 4.5 41 35-75 63-112 (130)
236 KOG0191 Thioredoxin/protein di 20.0 4.3E+02 0.0094 24.0 7.2 58 21-80 79-136 (383)
No 1
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=99.97 E-value=3.3e-31 Score=243.56 Aligned_cols=234 Identities=21% Similarity=0.285 Sum_probs=167.3
Q ss_pred CcccccCCCHHHHHHhhcceEEEEEecCChHHHHHHHhcCCC----------------CCceEEEEeCCC-Cc-eEEeee
Q 025774 1 MLNRDTWANEAVSQTISTNFIFWQVYDDTSEGKKVCTYYKLD----------------SIPVVLVVDPIT-GQ-KMRSWC 62 (248)
Q Consensus 1 ~~~r~vl~~~~v~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~----------------~~P~l~ii~~~~-g~-~l~~~~ 62 (248)
.||+.+|||+.|++||+++||+|+||+++++++.+++.+.+. .||++.++.... .. ++..++
T Consensus 199 ~F~~~iL~~e~v~~~l~~~~llw~~dvt~~e~~~~~~~~~~r~~~~~~~~~~~~~~~~~fP~~~iv~~~~~~~Ell~~l~ 278 (460)
T KOG1363|consen 199 VFCGQILCNEAVVDYLRENFLLWGWDVTESENLLVFNSLLNRSISSPAAVTNKASKSERFPLVRIVIGSRSPEELLRYLQ 278 (460)
T ss_pred HHHHhhhhhHHHHHHHhhceeeecccccCchhhHHHHHHhhcccchhhhhhcchhhcccCchhhhhhcCCCHHHHHHHHH
Confidence 389999999999999999999999999999999999999887 688887765321 11 566788
Q ss_pred CCCChHHHHHHHhhhhhcCCCCccccccCCCCCCCCCCcccCCCCCCcchHHHHHHHHHHhhHhhhcc--CCC--CCCCc
Q 025774 63 GMVQPESLLEDLVPFMDGGPREQHAKVSHKRPRGSSTTPQQKNKDKPDIENEELLQALAASMETIKDA--SGV--SSSDT 138 (248)
Q Consensus 63 G~~~~e~l~~~L~~~~~~~~~~~~~~l~~~r~~~~~~~~~~~~~~~~~~eeee~~~A~~~sl~~~~~~--~~~--~~ee~ 138 (248)
|.++.++.+..+..+++.+.... ...+. ++ ..+..|..-++|++.+|++||++|+.+ +.. .++.+
T Consensus 279 g~~~~~e~~~~~~~~~~~~~~~~----q~~~~--~~-----~er~~r~~~~~eQd~eyq~sle~Dr~r~~e~e~~~e~~r 347 (460)
T KOG1363|consen 279 GVTGVDEEMTLLLVAFEEEERRL----QMRRS--EQ-----DEREARLALEQEQDDEYQASLEADRVREAEAEQAAEEFR 347 (460)
T ss_pred hcCCchHHHHHHHhhhhhhhHHH----hhccc--ch-----hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 88888888888877777652111 10010 00 011122333345678999999999876 111 11111
Q ss_pred c----cCCcchhhhcccCCCCCCCCCCCCCCCCCCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEE
Q 025774 139 D----VASTDKDEASATEKPAYPILPEEPKVDRSLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRL 214 (248)
Q Consensus 139 ~----~~~~~~~e~~~~~~~~~~~l~~eP~~~~~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L 214 (248)
. +++++++|.........+.||+||++...++++|+||+|+|.+..|||..+++++.||+||.++ +..+..|.+
T Consensus 348 ~e~er~~~~ee~e~~R~~l~~es~lp~EP~a~~~~~~~l~iR~P~G~r~~RrF~~s~~~q~l~~~v~~~--~~~~~e~~~ 425 (460)
T KOG1363|consen 348 LEKERKEEEEERETARQLLALESSLPPEPSASEEEAITVAIRLPSGTRLERRFLKSDKLQILYDYVDSN--GFHPEEYSL 425 (460)
T ss_pred HhhhhhhHHHHHHHHHHHHhhhccCCCCCCcCcccceeeEEECCCCCeeeeeeecccchhHHHHHHHhc--cCCchhhcc
Confidence 0 1111111111112234578999998788899999999999999999999999999999999997 456899999
Q ss_pred EccCCCCccccCCCcCCCccccCCcC--ceEEEEeC
Q 025774 215 THAIPGATKSLDYDSKLTFEDSGLAN--AMISVTWE 248 (248)
Q Consensus 215 ~~~~Pr~~~~l~~d~~~tl~d~gl~~--~~v~v~~~ 248 (248)
.++|||+.++- .....|+++.|+.+ .+|.++|.
T Consensus 426 ~~~fPr~~~~~-~~~~~sl~~~~l~p~qe~lflE~~ 460 (460)
T KOG1363|consen 426 NTSFPRRPLGD-YEHSSSLQDIGLTPRQETLFLEEI 460 (460)
T ss_pred ccCCCcccccc-cccccccccCCcccccceeeeecC
Confidence 99999997332 34589999999986 56777763
No 2
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.95 E-value=3.5e-28 Score=211.97 Aligned_cols=224 Identities=37% Similarity=0.711 Sum_probs=162.8
Q ss_pred HHHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhcCCCCccccccCC
Q 025774 13 SQTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDGGPREQHAKVSHK 92 (248)
Q Consensus 13 ~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~~~~~~~~~l~~~ 92 (248)
+.....++.-|..+.++.||.++..+|++.+.|+|+||+|+||+.|++|.|.+.+++|+..|+.||+.++.++-+.+...
T Consensus 124 k~~a~sk~~wllV~~Dtseg~~~~~Fy~~~~~P~i~iiDp~Tge~v~~ws~vi~~~~fl~~l~~Fi~~~~~d~vas~t~n 203 (356)
T KOG1364|consen 124 KSTASSKQRWLLVLDDTSEGQPFSAFYHISSLPHIAIIDPITGERVKRWSGVIEPEQFLSDLNEFIDSCPHDEVASLTRN 203 (356)
T ss_pred hhcccccceEEEEeeccCCCCchhhheeccCCceEEEECCchhhhhhhhccccCHHHHHHHHHHHHhcCCcccccccccc
Confidence 44566789999999999999999999999999999999999999999999999999999999999999988765555443
Q ss_pred CCCCCCCCcccCCCCCCcc-hHHHHHHHHHHhhHhhhccCCCCCCCcccCCcc-h--hhhcccCCCCCCCCCCCCCC--C
Q 025774 93 RPRGSSTTPQQKNKDKPDI-ENEELLQALAASMETIKDASGVSSSDTDVASTD-K--DEASATEKPAYPILPEEPKV--D 166 (248)
Q Consensus 93 r~~~~~~~~~~~~~~~~~~-eeee~~~A~~~sl~~~~~~~~~~~ee~~~~~~~-~--~e~~~~~~~~~~~l~~eP~~--~ 166 (248)
|.... ....-... |+++++.|+..|+-.-.-. ..-++.-...+++ + .++.. -.++.+..||.. +
T Consensus 204 ~~~p~------~e~~~~ss~e~~~~elai~~sv~~~~~~-~e~e~~~~s~~ee~e~~~e~~~---~~~~~a~~ep~~~~~ 273 (356)
T KOG1364|consen 204 RKRPK------TEPTCLSSEEDMQMELAIKNSVVNPSSG-TEFEGQGASDEEELETVLEEDL---FVFPVATVEPKGDCD 273 (356)
T ss_pred ccCCC------CCccccccccchhhhcccccccccCCCc-ccccCCCCcccchhhccccccc---cccceeeecCCCCCC
Confidence 32111 11112222 4445567777776543221 1001100000000 0 01110 112333344432 3
Q ss_pred CCCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCce--EE
Q 025774 167 RSLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAM--IS 244 (248)
Q Consensus 167 ~~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~--v~ 244 (248)
.+-+|+|+||||||+|.+|+|.++++++.||.|+.++.++++...|+|+++||++ +++.++.+.||+++||.|++ +.
T Consensus 274 ~svvt~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~a~P~~-k~l~~~~daT~~eaGL~nS~~~~~ 352 (356)
T KOG1364|consen 274 RSVVTSIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIPAS-KTLDYGADATFKEAGLANSETLLS 352 (356)
T ss_pred ccceeEEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecccch-hhhhccccchHHHhccCccccccc
Confidence 3557889999999999999999999999999999999999899999999999976 68878899999999999984 45
Q ss_pred EEe
Q 025774 245 VTW 247 (248)
Q Consensus 245 v~~ 247 (248)
+.|
T Consensus 353 ~e~ 355 (356)
T KOG1364|consen 353 VEW 355 (356)
T ss_pred ccc
Confidence 666
No 3
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.89 E-value=4.5e-23 Score=147.44 Aligned_cols=78 Identities=24% Similarity=0.416 Sum_probs=69.9
Q ss_pred CCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCceEEEEe
Q 025774 168 SLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMISVTW 247 (248)
Q Consensus 168 ~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v~v~~ 247 (248)
.++|+|+||||||+|++++|+.+++|++||+||.++..+....+|.|.++||++. +. +.++||+|+||.|++|+++|
T Consensus 2 ~p~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~--l~-~~~~Tl~eagL~~s~v~q~~ 78 (79)
T cd01770 2 EPTTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKE--LS-DESLTLKEANLLNAVIVQRL 78 (79)
T ss_pred CCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcc--cC-CCCCcHHHCCCcCcEEEEEe
Confidence 3579999999999999999999999999999999875444468999999999986 65 44999999999999999999
Q ss_pred C
Q 025774 248 E 248 (248)
Q Consensus 248 ~ 248 (248)
.
T Consensus 79 ~ 79 (79)
T cd01770 79 K 79 (79)
T ss_pred C
Confidence 5
No 4
>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.87 E-value=3.8e-22 Score=142.35 Aligned_cols=77 Identities=23% Similarity=0.307 Sum_probs=68.6
Q ss_pred CCCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCceEEEE
Q 025774 167 RSLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMISVT 246 (248)
Q Consensus 167 ~~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v~v~ 246 (248)
+.++|+|+||||||++++|+|+.+++|++||+||.++ ++++.+|+|+++||||+++- .|.++||+|+||+|+++++.
T Consensus 2 ~~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~~--g~~~~~f~L~t~FPRr~~~~-~d~~~TL~e~GL~P~~~LfV 78 (82)
T cd01773 2 NGPKARLMLRYPDGKREQIALPEQAKLLALVRHVQSK--GYPNERFELLTNFPRRKLSH-LDYDITLQEAGLCPQETVFV 78 (82)
T ss_pred CCCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc--CCCCCCEEEecCCCCcccCC-cccCCCHHHcCCCCCcEEEE
Confidence 4578999999999999999999999999999999995 66789999999999998554 47789999999998776653
No 5
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=99.87 E-value=5.8e-22 Score=141.37 Aligned_cols=76 Identities=26% Similarity=0.493 Sum_probs=68.7
Q ss_pred CceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCC-CcCCCccccCCcCceEEEEe
Q 025774 169 LLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDY-DSKLTFEDSGLANAMISVTW 247 (248)
Q Consensus 169 ~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~-d~~~tl~d~gl~~~~v~v~~ 247 (248)
++|+|+||||||++++|+|+.+++|++||+||.++. +...+|.|+++||++. +.+ +.++||+|+||.|++++|+|
T Consensus 1 p~t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~--~~~~~f~L~t~~Pr~~--~~~~~~~~TL~e~gL~~s~~~~~~ 76 (77)
T cd01767 1 PTTKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNG--PPAEPFTLMTSFPRRV--LTDLDYELTLQEAGLVNEVVFQRL 76 (77)
T ss_pred CcEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcC--CCCCCEEEEeCCCCcc--CCCCCccCcHHHcCCccceEEEEe
Confidence 379999999999999999999999999999999873 3478999999999987 543 58999999999999999999
Q ss_pred C
Q 025774 248 E 248 (248)
Q Consensus 248 ~ 248 (248)
+
T Consensus 77 ~ 77 (77)
T cd01767 77 K 77 (77)
T ss_pred C
Confidence 5
No 6
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.87 E-value=7.2e-22 Score=143.02 Aligned_cols=79 Identities=19% Similarity=0.381 Sum_probs=68.4
Q ss_pred CCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCcccc----CCCcCCCccccCCcCceE
Q 025774 168 SLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSL----DYDSKLTFEDSGLANAMI 243 (248)
Q Consensus 168 ~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l----~~d~~~tl~d~gl~~~~v 243 (248)
+++|+|+||||||+|++|||+.+++|++||+||.+. ++.+.+|+|+++|||+.+.- ..+.++||+|+||.|+++
T Consensus 2 ~~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~--~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~ 79 (85)
T cd01774 2 PDTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL--KETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEV 79 (85)
T ss_pred CceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC--CCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccE
Confidence 468999999999999999999999999999999875 44578999999999997321 136789999999999998
Q ss_pred EEEeC
Q 025774 244 SVTWE 248 (248)
Q Consensus 244 ~v~~~ 248 (248)
|++++
T Consensus 80 L~V~d 84 (85)
T cd01774 80 LFVQD 84 (85)
T ss_pred EEEec
Confidence 88764
No 7
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.86 E-value=1.4e-21 Score=139.99 Aligned_cols=75 Identities=23% Similarity=0.427 Sum_probs=66.3
Q ss_pred CCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCceEEE
Q 025774 168 SLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMISV 245 (248)
Q Consensus 168 ~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v~v 245 (248)
+++++|+||||||++++|||+.+++|++||+||.++ ++++.+|+|+++|||+.++. .|.+.||+|+||.++++|+
T Consensus 2 ~~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~--~~~~~~f~L~t~fPRk~~~~-~d~~~TL~e~gL~p~~~L~ 76 (80)
T cd01771 2 EPISKLRVRTPSGDFLERRFLGDTPLQVLLNFVASK--GYPIDEYKLLSSWPRRDLTQ-LDPNFTLLELKLYPQETLI 76 (80)
T ss_pred CCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc--CCCCCCEEEecCCCCCCCcC-CCCCCcHHHcCCCCCcEEE
Confidence 468999999999999999999999999999999986 67788999999999998443 4778999999999766554
No 8
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=99.82 E-value=6.3e-20 Score=132.29 Aligned_cols=79 Identities=38% Similarity=0.555 Sum_probs=65.4
Q ss_pred CCCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcC-ceEEE
Q 025774 167 RSLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLAN-AMISV 245 (248)
Q Consensus 167 ~~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~-~~v~v 245 (248)
+++.|+|+||||||++++|+|+.++||++||+||.++........|.|+++||++. +..+.++||+|+||.+ ++|+|
T Consensus 3 ~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~--l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 3 ESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRE--LTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp TSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEE--CCSTTTSBTCCCTTSSCEEEEE
T ss_pred CCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcC--CCccccccHHHhcCCCCeEEEE
Confidence 46789999999999999999999999999999999986542233499999999986 5433369999999985 66778
Q ss_pred Ee
Q 025774 246 TW 247 (248)
Q Consensus 246 ~~ 247 (248)
+|
T Consensus 81 ~~ 82 (82)
T PF00789_consen 81 EK 82 (82)
T ss_dssp E-
T ss_pred EC
Confidence 88
No 9
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=99.82 E-value=8.1e-20 Score=131.20 Aligned_cols=76 Identities=26% Similarity=0.486 Sum_probs=64.2
Q ss_pred CceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCC-CcCCCccccCCcC-ceEEEE
Q 025774 169 LLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDY-DSKLTFEDSGLAN-AMISVT 246 (248)
Q Consensus 169 ~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~-d~~~tl~d~gl~~-~~v~v~ 246 (248)
+.|+|+||||||++++|+|+.+++|++||+||.... +....+|.|+++||++. +.. |.++||+|+||.| ++|+|+
T Consensus 3 ~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~-~~~~~~f~L~t~~Prk~--l~~~d~~~tL~e~gL~p~~~l~v~ 79 (80)
T smart00166 3 DQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAAL-TDGNDPFTLNSPFPRRT--FTKDDYSKTLLELALLPSSTLVLE 79 (80)
T ss_pred CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcc-cCCCCCEEEEeCCCCcC--CccccccCCHHHCCCCCceEEEEe
Confidence 589999999999999999999999999999996643 33567899999999986 432 4589999999985 556677
Q ss_pred e
Q 025774 247 W 247 (248)
Q Consensus 247 ~ 247 (248)
|
T Consensus 80 ~ 80 (80)
T smart00166 80 P 80 (80)
T ss_pred C
Confidence 6
No 10
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.82 E-value=8.1e-20 Score=130.83 Aligned_cols=75 Identities=17% Similarity=0.313 Sum_probs=65.2
Q ss_pred CceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCceEEEE
Q 025774 169 LLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMISVT 246 (248)
Q Consensus 169 ~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v~v~ 246 (248)
+.|+|+||||||++++++|+.+++|++||+||.++. ....+|.|+++|||+.++. ++.++||+|+||.|+++|+.
T Consensus 3 ~~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~--~~~~~f~L~t~fPrk~~~~-~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 3 TETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNT--GNGGPFTLMTPFPRKVFTE-DDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred cEEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcC--CCCCCEEEEeCCCCeECCc-ccccCCHHHCCCCCceEEEE
Confidence 579999999999999999999999999999999873 3358899999999997433 36789999999998887654
No 11
>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=99.79 E-value=5.3e-19 Score=135.65 Aligned_cols=80 Identities=24% Similarity=0.412 Sum_probs=75.8
Q ss_pred cccccCCCHHHHHHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCc--eEEeeeCCCChHHHHHHHhhhhh
Q 025774 2 LNRDTWANEAVSQTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQ--KMRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 2 ~~r~vl~~~~v~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~--~l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
|||+||||++|++||++|||+|++|++++||+++++.+++.+||++++|+|+++. ++.+++|.++|++|+..|+.+++
T Consensus 35 fc~~~l~~~~v~~~ln~~fv~w~~dv~~~eg~~la~~l~~~~~P~~~~l~~~~~~~~vv~~i~G~~~~~~ll~~L~~~~~ 114 (116)
T cd02991 35 FCRNTLCAPEVIEYINTRMLFWACSVAKPEGYRVSQALRERTYPFLAMIMLKDNRMTIVGRLEGLIQPEDLINRLTFIMD 114 (116)
T ss_pred HHHHHcCCHHHHHHHHcCEEEEEEecCChHHHHHHHHhCCCCCCEEEEEEecCCceEEEEEEeCCCCHHHHHHHHHHHHh
Confidence 8999999999999999999999999999999999999999999999999988665 68999999999999999999987
Q ss_pred cC
Q 025774 80 GG 81 (248)
Q Consensus 80 ~~ 81 (248)
++
T Consensus 115 ~~ 116 (116)
T cd02991 115 AN 116 (116)
T ss_pred cC
Confidence 53
No 12
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=99.78 E-value=7.8e-19 Score=156.41 Aligned_cols=77 Identities=21% Similarity=0.440 Sum_probs=71.8
Q ss_pred CcccccCCCHHHHHHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhh
Q 025774 1 MLNRDTWANEAVSQTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFM 78 (248)
Q Consensus 1 ~~~r~vl~~~~v~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~ 78 (248)
+|+|-+|.+..|.+.+...||...++..+..+.+|+.+|++.+.|++++|+ .+|..|+++.|++++|+|...|.+++
T Consensus 35 kl~r~~w~d~~vs~~ls~~fVaIkiqags~aa~qFs~IYp~v~vPs~ffIg-~sGtpLevitg~v~adeL~~~i~Kv~ 111 (506)
T KOG2507|consen 35 KLNRLTWTDASVSDSLSKYFVAIKIQAGSVAATQFSAIYPYVSVPSIFFIG-FSGTPLEVITGFVTADELASSIEKVW 111 (506)
T ss_pred HHhhccchhhhhhhhhhcceEEEEeccCchhhhhhhhhcccccccceeeec-CCCceeEEeeccccHHHHHHHHHHHH
Confidence 478999999999999999999999999999999999999999999999998 67999999999999999988776654
No 13
>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=99.77 E-value=9.6e-19 Score=136.88 Aligned_cols=80 Identities=20% Similarity=0.256 Sum_probs=73.5
Q ss_pred cccccCCCHHHHHHhhcceEEEEEecCChH----------------HHHHHHhcCCCCCceEEEEeCCCCc--eEEeeeC
Q 025774 2 LNRDTWANEAVSQTISTNFIFWQVYDDTSE----------------GKKVCTYYKLDSIPVVLVVDPITGQ--KMRSWCG 63 (248)
Q Consensus 2 ~~r~vl~~~~v~~~l~~~fV~w~~d~~~~e----------------g~~~~~~~~~~~~P~l~ii~~~~g~--~l~~~~G 63 (248)
|||++|||+.|++||++|||+|+||++.++ ++++++.+++++||+++||++..+. ++.+++|
T Consensus 39 Fc~~~L~se~Vi~fl~~nfv~Wg~dvt~~~~~~~fl~~~~~~~g~~a~~~~~~~~~~~fP~~avI~~~~~~~~vl~~i~G 118 (136)
T cd02990 39 FCSQLLCAESIVQYLSQNFITWGWDMTKESNKARFLSSCTRHFGSVAAQTIRNIKTDQLPAILIIMGKRSSNEVLNVIQG 118 (136)
T ss_pred HHHHHhcCHHHHHHHHcCEEEEeeeccchhhhhHHHHhhhhhhhHHHHHHHHhcCcCCCCeEEEEEecCCceEEEEEEEC
Confidence 899999999999999999999999999887 6678888999999999999987554 7899999
Q ss_pred CCChHHHHHHHhhhhhcC
Q 025774 64 MVQPESLLEDLVPFMDGG 81 (248)
Q Consensus 64 ~~~~e~l~~~L~~~~~~~ 81 (248)
.++|++++.+|+.+++.|
T Consensus 119 ~~~~~ell~~L~~~ve~~ 136 (136)
T cd02990 119 NTGVDELLMRLIEAMEMF 136 (136)
T ss_pred CCCHHHHHHHHHHHHhcC
Confidence 999999999999998864
No 14
>smart00594 UAS UAS domain.
Probab=99.64 E-value=4.2e-16 Score=120.66 Aligned_cols=74 Identities=53% Similarity=0.798 Sum_probs=69.4
Q ss_pred CcccccCCCHHHHHHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCc----eEEeeeCCCChHHHHHHH
Q 025774 1 MLNRDTWANEAVSQTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQ----KMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 1 ~~~r~vl~~~~v~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~----~l~~~~G~~~~e~l~~~L 74 (248)
+|||+||+|+.|+++|+++||+|++|+++++|..+++.|++++||+++||+|.+|+ ++.++.|.+++++|+..|
T Consensus 44 ~~~r~vl~~~~V~~~i~~~fv~~~~dv~~~eg~~l~~~~~~~~~P~~~~l~~~~g~~~~~~~~~~~G~~~~~~l~~~l 121 (122)
T smart00594 44 VFNRDVLCNEAVKSLIRENFIFWQVDVDTSEGQRVSQFYKLDSFPYVAIVDPRTGQRVIEWVGVVEGEISPEELMTFL 121 (122)
T ss_pred HHHHHHccCHHHHHHHHcCEEEEEecCCChhHHHHHHhcCcCCCCEEEEEecCCCceeEEEeccccCCCCHHHHHHhh
Confidence 38999999999999999999999999999999999999999999999999999765 477899999999998876
No 15
>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=99.62 E-value=1.6e-15 Score=115.76 Aligned_cols=80 Identities=44% Similarity=0.894 Sum_probs=76.5
Q ss_pred CcccccCCCHHHHHHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhc
Q 025774 1 MLNRDTWANEAVSQTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDG 80 (248)
Q Consensus 1 ~~~r~vl~~~~v~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~ 80 (248)
.|||+||+|+.|+++|+++||+|++|+++++|..++..|++..||++++|+|++|+++.++.|.+++++|+..|..+++.
T Consensus 34 ~~~~~vl~~~~v~~~l~~~~v~~~~d~~~~e~~~~~~~~~~~~~P~~~~i~~~~g~~l~~~~G~~~~~~f~~~L~~~~~~ 113 (114)
T cd02958 34 VLNRDLWSNESVKEFIRENFIFWQCDIDSSEGQRFLQSYKVDKYPHIAIIDPRTGEVLKVWSGNITPEDLLSQLIEFLEE 113 (114)
T ss_pred HHHHHHcCCHHHHHHHHhCEEEEEecCCCccHHHHHHHhCccCCCeEEEEeCccCcEeEEEcCCCCHHHHHHHHHHHHhc
Confidence 37899999999999999999999999999999999999999999999999998899999999999999999999998764
No 16
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=99.50 E-value=2.8e-14 Score=126.94 Aligned_cols=79 Identities=22% Similarity=0.355 Sum_probs=71.3
Q ss_pred CCCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCceEEEE
Q 025774 167 RSLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMISVT 246 (248)
Q Consensus 167 ~~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v~v~ 246 (248)
.+++|.|||||+||+|++-+|+.++||.+||.||...-.+.....|.|+++||.+. |. |.+.||++|||.|++|+++
T Consensus 302 ~~PtTsIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~--l~-D~sqTle~AgL~Nsvlvqr 378 (380)
T KOG2086|consen 302 AEPTTSIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKP--LS-DDSQTLEEAGLLNSVLVQR 378 (380)
T ss_pred CCCcceEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcc--cC-CcchhHHhccchhhhhhhh
Confidence 36789999999999999999999999999999999875565567899999999986 74 7899999999999999998
Q ss_pred eC
Q 025774 247 WE 248 (248)
Q Consensus 247 ~~ 248 (248)
|.
T Consensus 379 ~~ 380 (380)
T KOG2086|consen 379 LA 380 (380)
T ss_pred cC
Confidence 84
No 17
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.36 E-value=1.7e-12 Score=110.42 Aligned_cols=78 Identities=18% Similarity=0.365 Sum_probs=67.3
Q ss_pred CCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCceE-EEE
Q 025774 168 SLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMI-SVT 246 (248)
Q Consensus 168 ~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v-~v~ 246 (248)
-+.|+||||||||+.+...|+...+|..|..||+.+- +....+|.|.++|||+.|+- +|..++|+++||.|+++ +..
T Consensus 208 ys~crlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~-~~~~~P~~f~t~fPR~tf~e-dD~~KpLq~L~L~Psa~lil~ 285 (290)
T KOG2689|consen 208 YSQCRLQIRLPDGQTLTQTFNARETLAAVRLWVDLNR-GDGLDPYSFHTGFPRVTFTE-DDELKPLQELDLVPSAVLILE 285 (290)
T ss_pred ccceEEEEEcCCCCeeeeecCchhhHHHHHHHHHHhc-cCCCCCeeeecCCCceeccc-ccccccHHHhccccchheecc
Confidence 3789999999999999999999999999999999864 32456999999999998665 58899999999998664 455
Q ss_pred e
Q 025774 247 W 247 (248)
Q Consensus 247 ~ 247 (248)
|
T Consensus 286 ~ 286 (290)
T KOG2689|consen 286 P 286 (290)
T ss_pred c
Confidence 4
No 18
>COG2143 Thioredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=0.00021 Score=56.87 Aligned_cols=77 Identities=18% Similarity=0.293 Sum_probs=65.8
Q ss_pred cccccCCCHHHHHHhhcceEEEEEecCChH--------------HHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCCh
Q 025774 2 LNRDTWANEAVSQTISTNFIFWQVYDDTSE--------------GKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQP 67 (248)
Q Consensus 2 ~~r~vl~~~~v~~~l~~~fV~w~~d~~~~e--------------g~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~ 67 (248)
|-+++...+.+++++..||+++-.+++..+ -..+|+.|+++++|++++.+ .+|..+..+-|.++|
T Consensus 60 ~KKd~~~~krlrEylk~hf~~~~l~i~~skpv~f~~g~kee~~s~~ELa~kf~vrstPtfvFfd-k~Gk~Il~lPGY~pp 138 (182)
T COG2143 60 FKKDLKNVKRLREYLKEHFSAYYLNISYSKPVLFKVGDKEEKMSTEELAQKFAVRSTPTFVFFD-KTGKTILELPGYMPP 138 (182)
T ss_pred HHHhhcchHHHHHHHhhCeEEEEEEeccCcceEeecCceeeeecHHHHHHHhccccCceEEEEc-CCCCEEEecCCCCCH
Confidence 457899999999999999999999986443 23789999999999999999 469999999999999
Q ss_pred HHHHHHHhhhhh
Q 025774 68 ESLLEDLVPFMD 79 (248)
Q Consensus 68 e~l~~~L~~~~~ 79 (248)
++|+..|.=.-+
T Consensus 139 e~Fl~vlkYVa~ 150 (182)
T COG2143 139 EQFLAVLKYVAD 150 (182)
T ss_pred HHHHHHHHHHHH
Confidence 999877765533
No 19
>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=97.66 E-value=0.00031 Score=53.90 Aligned_cols=74 Identities=22% Similarity=0.376 Sum_probs=61.3
Q ss_pred CCCHHHHHHhhcceEEEEEecCCh-----------HHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 7 WANEAVSQTISTNFIFWQVYDDTS-----------EGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 7 l~~~~v~~~l~~~fV~w~~d~~~~-----------eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
+.++.+...++.+|++...|++.. ....++..|++..+|+++++++..|+.+.++.|..+.+.|...|.
T Consensus 37 ~~~~~~~~~~~~~~~~~~i~~d~~~~~~~~~~~~~~~~~l~~~~~v~~~Pt~~~~~~~gg~~~~~~~G~~~~~~~~~~l~ 116 (125)
T cd02951 37 LNDPAVQAYIRAHFVVVYINIDGDKEVTDFDGEALSEKELARKYRVRFTPTVIFLDPEGGKEIARLPGYLPPDEFLAYLE 116 (125)
T ss_pred cCcHHHHHHHHhheEEEEEEccCCceeeccCCCCccHHHHHHHcCCccccEEEEEcCCCCceeEEecCCCCHHHHHHHHH
Confidence 345678888888999999998754 356889999999999999999754788999999999999888888
Q ss_pred hhhhc
Q 025774 76 PFMDG 80 (248)
Q Consensus 76 ~~~~~ 80 (248)
.+++.
T Consensus 117 ~~~~~ 121 (125)
T cd02951 117 YVQEK 121 (125)
T ss_pred HHHhh
Confidence 77664
No 20
>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=97.57 E-value=0.0003 Score=52.08 Aligned_cols=69 Identities=13% Similarity=0.199 Sum_probs=56.7
Q ss_pred cCCCHHHHHHhhcceEEEEEecCCh--HHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHH
Q 025774 6 TWANEAVSQTISTNFIFWQVYDDTS--EGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 6 vl~~~~v~~~l~~~fV~w~~d~~~~--eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L 74 (248)
++.++.+.+.++.++++...|++.. ....+++.|++..+|++.++.+-+|..+.++.|..+.++|...|
T Consensus 33 ~~~~~~~~~~~~~~~~~~~vd~~~~~~~~~~~~~~~~i~~~Pti~~~~~~~g~~~~~~~G~~~~~~l~~~l 103 (104)
T cd02953 33 VFSDPEVQAALKKDVVLLRADWTKNDPEITALLKRFGVFGPPTYLFYGPGGEPEPLRLPGFLTADEFLEAL 103 (104)
T ss_pred hcCCHHHHHHHhCCeEEEEEecCCCCHHHHHHHHHcCCCCCCEEEEECCCCCCCCcccccccCHHHHHHHh
Confidence 3456788888888999999998643 36789999999999999999863578889999999999887655
No 21
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=97.40 E-value=0.0013 Score=45.87 Aligned_cols=69 Identities=16% Similarity=0.232 Sum_probs=55.6
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEEe
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
+|.||..+|+.+..++..+++|..|.+.+.... +.++...+|+ |..+. + +.+.||.+.|+. +++|.+.+
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~-g~~~~~qrL~--~~g~~--L--~d~~tl~~~~i~~g~~i~l~~ 71 (76)
T cd01806 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKE-GIPPQQQRLI--YSGKQ--M--NDDKTAADYKLEGGSVLHLVL 71 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhh-CCChhhEEEE--ECCeE--c--cCCCCHHHcCCCCCCEEEEEE
Confidence 688999999999999999999999999998764 6678888887 44553 5 457899999998 45565543
No 22
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=97.34 E-value=0.0017 Score=46.09 Aligned_cols=72 Identities=14% Similarity=0.179 Sum_probs=57.2
Q ss_pred eEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEEe
Q 025774 171 CRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 171 ~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
..|-|+..+|+.+...+..++||.+|.+-+.... +.+...++|...|..+. + +++.||.+.|+. +++|.+.+
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~-~i~~~~qrL~~~~~G~~--L--~D~~tL~~~gi~~gs~l~l~~ 75 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKI-GVPAFQQRLAHLDSREV--L--QDGVPLVSQGLGPGSTVLLVV 75 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHh-CCCHHHEEEEeccCCCC--C--CCCCCHHHcCCCCCCEEEEEE
Confidence 5788999999999999999999999999998764 66788889965565553 5 456899999998 56665543
No 23
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=97.30 E-value=0.00072 Score=48.26 Aligned_cols=72 Identities=17% Similarity=0.094 Sum_probs=41.9
Q ss_pred ceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCceEE
Q 025774 170 LCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMIS 244 (248)
Q Consensus 170 ~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v~ 244 (248)
..-||||-|||..- -....++++.+|++-|...+. .+...|.|....+... .+..+.++||.++||..+.++
T Consensus 4 ~milRvrS~dG~~R-ie~~~~~t~~~L~~kI~~~l~-~~~~~~~L~~~~~~~~-~l~s~~~~tl~~lglkHGdml 75 (80)
T PF11543_consen 4 SMILRVRSKDGMKR-IEVSPSSTLSDLKEKISEQLS-IPDSSQSLSKDRNNKE-ELKSSDSKTLSSLGLKHGDML 75 (80)
T ss_dssp --EEEEE-SSEEEE-EEE-TTSBHHHHHHHHHHHS----TTT---BSSGGGGG-CSSS-TT-CCCCT---TT-EE
T ss_pred cEEEEEECCCCCEE-EEcCCcccHHHHHHHHHHHcC-CCCcceEEEecCCCCc-ccccCCcCCHHHcCCCCccEE
Confidence 35699999999732 247799999999999999863 4566899987654442 343467899999999854443
No 24
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=97.30 E-value=0.0025 Score=44.64 Aligned_cols=70 Identities=13% Similarity=0.110 Sum_probs=56.3
Q ss_pred eEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEEe
Q 025774 171 CRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 171 ~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
.+|.|+-..|+.+.-.+..++||.+|.+-+.... ++++..-+|+. ..+. + ++++||++.|+. +++|++-|
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~-~~~~~~qrLi~--~Gk~--L--~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQT-GTRPEKIVLKK--WYTI--F--KDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHh-CCChHHEEEEe--CCcC--C--CCCCCHHHcCCCCCCEEEEEe
Confidence 5788999999999999999999999999998764 67788888874 4553 5 457899999998 56666543
No 25
>PF13899 Thioredoxin_7: Thioredoxin-like; PDB: 2LST_A 3PH9_A 1UC7_A 2JU5_A 1VRS_D 2FWG_A 2FWF_A 2FWH_A 2FWE_A 3FK8_A ....
Probab=97.26 E-value=0.00075 Score=47.99 Aligned_cols=48 Identities=21% Similarity=0.471 Sum_probs=39.7
Q ss_pred cccccCCCHHHHHHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeC
Q 025774 2 LNRDTWANEAVSQTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDP 52 (248)
Q Consensus 2 ~~r~vl~~~~v~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~ 52 (248)
|.+.+|.++.|.++++.+||++..|+++.++...... ..+|+++|++|
T Consensus 35 l~~~~~~~~~v~~~~~~~fv~v~vd~~~~~~~~~~~~---~~~P~~~~ldp 82 (82)
T PF13899_consen 35 LEREVFSDPEVQEALNKNFVLVKVDVDDEDPNAQFDR---QGYPTFFFLDP 82 (82)
T ss_dssp HHHHTTTSHHHHHHHHHCSEEEEEETTTHHHHHHHHH---CSSSEEEEEET
T ss_pred HHHHHcCCHHHHHHHHCCEEEEEEEcCCCChhHHhCC---ccCCEEEEeCC
Confidence 6788999999999999999999999987776442222 44999999986
No 26
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=97.26 E-value=0.0017 Score=44.73 Aligned_cols=70 Identities=14% Similarity=0.116 Sum_probs=55.7
Q ss_pred eEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEEe
Q 025774 171 CRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 171 ~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
.+|.||.++|+.+...+..+++|.+|..-+.... +.++...+|..+ .+. + +.+.||.+.|+. ++.|.+.|
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~-gi~~~~q~L~~~--g~~--L--~d~~~L~~~~i~~~~~l~l~~ 71 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEV-GIPVEQQRLIYS--GRV--L--KDDETLSEYKVEDGHTIHLVK 71 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHH-CcCHHHeEEEEC--CEE--C--CCcCcHHHCCCCCCCEEEEEe
Confidence 3688999999999999999999999999997764 556677788753 432 4 457899999998 56676765
No 27
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=97.12 E-value=0.0029 Score=44.15 Aligned_cols=68 Identities=18% Similarity=0.232 Sum_probs=55.4
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEE
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVT 246 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~ 246 (248)
+|-||.++|+.+.-....++||.+|.+-+... .+.++..++|+.+ .+. + +.+.||.+.|+. +++|.+.
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~-~gi~~~~q~L~~~--G~~--L--~d~~~L~~~~i~~~~~l~l~ 70 (74)
T cd01807 2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEH-LNVPEEQQRLLFK--GKA--L--ADDKRLSDYSIGPNAKLNLV 70 (74)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHH-HCCCHHHeEEEEC--CEE--C--CCCCCHHHCCCCCCCEEEEE
Confidence 68899999999999999999999999999875 4667888999754 443 5 457999999998 5666554
No 28
>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=97.06 E-value=0.00038 Score=52.06 Aligned_cols=64 Identities=25% Similarity=0.416 Sum_probs=47.4
Q ss_pred HHHHHHhhcceEEEEEecCChH------------------HHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHH
Q 025774 10 EAVSQTISTNFIFWQVYDDTSE------------------GKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLL 71 (248)
Q Consensus 10 ~~v~~~l~~~fV~w~~d~~~~e------------------g~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~ 71 (248)
..+..+++.++.+...++.... ...++..|++..+|++++++ ..|..+.++.|.+++++|.
T Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~v~gtPt~~~~d-~~G~~v~~~~G~~~~~~l~ 109 (112)
T PF13098_consen 31 NDVARYLKDDFQVIFVNIDDSRDESEAVLDFDGQKNVRLSNKELAQRYGVNGTPTIVFLD-KDGKIVYRIPGYLSPEELL 109 (112)
T ss_dssp HHHHCEEHCECEEEECESHSHHHHHHHHHSHTCHSSCHHHHHHHHHHTT--SSSEEEECT-TTSCEEEEEESS--HHHHH
T ss_pred HHHHHHhhcCeEEEEEecCCcccccccccccccchhhhHHHHHHHHHcCCCccCEEEEEc-CCCCEEEEecCCCCHHHHH
Confidence 3455566667888888887543 24688999999999999998 4589899999999999998
Q ss_pred HHH
Q 025774 72 EDL 74 (248)
Q Consensus 72 ~~L 74 (248)
..|
T Consensus 110 ~~L 112 (112)
T PF13098_consen 110 KML 112 (112)
T ss_dssp HHH
T ss_pred hhC
Confidence 765
No 29
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=97.05 E-value=0.008 Score=43.45 Aligned_cols=73 Identities=22% Similarity=0.324 Sum_probs=58.4
Q ss_pred CCCCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcC-ceEE
Q 025774 166 DRSLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLAN-AMIS 244 (248)
Q Consensus 166 ~~~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~-~~v~ 244 (248)
+.+..+.|.|+.++|+.+.-+...+++|+.|++-+... .+.+...++|+.. .+. + +.+.|+.++|+.. ++|-
T Consensus 7 ~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~-~gi~~~~~rf~f~--G~~--L--~~~~T~~~l~m~d~d~I~ 79 (87)
T cd01763 7 EISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQR-QGLSMNSVRFLFD--GQR--I--RDNQTPDDLGMEDGDEIE 79 (87)
T ss_pred CCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHH-hCCCccceEEEEC--CeE--C--CCCCCHHHcCCCCCCEEE
Confidence 34568899999999999999999999999999988775 4666788888775 333 5 5678999999984 5554
Q ss_pred E
Q 025774 245 V 245 (248)
Q Consensus 245 v 245 (248)
|
T Consensus 80 v 80 (87)
T cd01763 80 V 80 (87)
T ss_pred E
Confidence 4
No 30
>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=97.03 E-value=0.0018 Score=50.19 Aligned_cols=62 Identities=13% Similarity=0.166 Sum_probs=48.1
Q ss_pred cccccCCCHHHHHHhhcceEEEEEecCChH-H-HHHH----HhcCCCCCceEEEEeCCCCceEEeeeCC
Q 025774 2 LNRDTWANEAVSQTISTNFIFWQVYDDTSE-G-KKVC----TYYKLDSIPVVLVVDPITGQKMRSWCGM 64 (248)
Q Consensus 2 ~~r~vl~~~~v~~~l~~~fV~w~~d~~~~e-g-~~~~----~~~~~~~~P~l~ii~~~~g~~l~~~~G~ 64 (248)
|.+.||.++.|.++|+.+||+...|++... - ..+. ..|++..+|++++++|. |..+....|+
T Consensus 33 me~~~f~~~~V~~~l~~~fv~VkvD~~~~~~~~~~~~~~~~~~~~~~G~Pt~vfl~~~-G~~~~~~~~~ 100 (124)
T cd02955 33 MEHESFEDEEVAAILNENFVPIKVDREERPDVDKIYMNAAQAMTGQGGWPLNVFLTPD-LKPFFGGTYF 100 (124)
T ss_pred HHHHccCCHHHHHHHhCCEEEEEEeCCcCcHHHHHHHHHHHHhcCCCCCCEEEEECCC-CCEEeeeeec
Confidence 556789999999999999999999997532 1 1122 24688999999999974 8888776654
No 31
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=97.03 E-value=0.0027 Score=44.07 Aligned_cols=66 Identities=20% Similarity=0.286 Sum_probs=53.2
Q ss_pred EEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEE
Q 025774 173 VGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISV 245 (248)
Q Consensus 173 i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v 245 (248)
+.||+++|+.+.-.+..++||.+|-..+... .+.++...+|+.. .+. + +++.||.++|+. +++|.|
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~-~gi~~~~q~Li~~--G~~--L--~D~~~l~~~~i~~~~tv~~ 67 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAA-EGVDPCCQRWFFS--GKL--L--TDKTRLQETKIQKDYVVQV 67 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHH-hCCCHHHeEEEEC--CeE--C--CCCCCHHHcCCCCCCEEEE
Confidence 3579999999999999999999999999775 5677888888753 443 5 568999999998 455544
No 32
>PTZ00044 ubiquitin; Provisional
Probab=96.96 E-value=0.005 Score=42.99 Aligned_cols=69 Identities=17% Similarity=0.290 Sum_probs=55.8
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEEe
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
.|-||.++|+.+.-++..++||.+|-.-+.... +.++...+|+. -.+. + +++.||++.|+. +++|.+.+
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~-gi~~~~q~L~~--~g~~--L--~d~~~l~~~~i~~~~~i~l~~ 71 (76)
T PTZ00044 2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQEKE-GIDVKQIRLIY--SGKQ--M--SDDLKLSDYKVVPGSTIHMVL 71 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHH-CCCHHHeEEEE--CCEE--c--cCCCcHHHcCCCCCCEEEEEE
Confidence 578999999999999999999999999998864 66788899984 4543 5 457899999998 56665543
No 33
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=96.88 E-value=0.0065 Score=42.19 Aligned_cols=69 Identities=16% Similarity=0.219 Sum_probs=54.8
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEEe
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
.|-||.++|+.+.-.+..+++|.+|..-+.... +.++...+|.. ..+. + +++.||.++|+. +++|.+.+
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~-g~~~~~q~L~~--~g~~--L--~d~~~L~~~~i~~~~~i~l~~ 71 (76)
T cd01803 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKE-GIPPDQQRLIF--AGKQ--L--EDGRTLSDYNIQKESTLHLVL 71 (76)
T ss_pred EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHh-CCCHHHeEEEE--CCEE--C--CCCCcHHHcCCCCCCEEEEEE
Confidence 578999999999999999999999999998864 55677888874 4543 5 457899999998 56665543
No 34
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=96.80 E-value=0.0094 Score=42.13 Aligned_cols=67 Identities=13% Similarity=0.209 Sum_probs=52.9
Q ss_pred eEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEE
Q 025774 171 CRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISV 245 (248)
Q Consensus 171 ~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v 245 (248)
.+|-|+..+|+.+.-.+..++||.+|..-+.... +.+....+|+ |..+. +. | + ||++.|+. +++|.+
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~-~~~~~~qrL~--~~Gk~--L~-d-~-~L~~~gi~~~~~i~l 69 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRL-KVPKERLALL--HRETR--LS-S-G-KLQDLGLGDGSKLTL 69 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHh-CCChHHEEEE--ECCcC--CC-C-C-cHHHcCCCCCCEEEE
Confidence 3688999999999999999999999999998764 5667777886 44553 53 3 4 89999998 566654
No 35
>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=96.78 E-value=0.013 Score=46.24 Aligned_cols=63 Identities=19% Similarity=0.293 Sum_probs=52.6
Q ss_pred cceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhcC
Q 025774 18 TNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDGG 81 (248)
Q Consensus 18 ~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~~ 81 (248)
..+-|..++++..+...++..|++..+|+++++++ +|.++.++.|..+.++|...|...+...
T Consensus 51 ~~~~~v~v~vd~~~~~~~~~~~~V~~iPt~v~~~~-~G~~v~~~~G~~~~~~l~~~l~~l~~~~ 113 (142)
T cd02950 51 DQVNFVMLNVDNPKWLPEIDRYRVDGIPHFVFLDR-EGNEEGQSIGLQPKQVLAQNLDALVAGE 113 (142)
T ss_pred cCeeEEEEEcCCcccHHHHHHcCCCCCCEEEEECC-CCCEEEEEeCCCCHHHHHHHHHHHHcCC
Confidence 34567777877666667889999999999999974 5899999999999999988888888765
No 36
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=96.67 E-value=0.0091 Score=41.09 Aligned_cols=67 Identities=19% Similarity=0.254 Sum_probs=53.9
Q ss_pred EEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEE
Q 025774 173 VGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVT 246 (248)
Q Consensus 173 i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~ 246 (248)
|-||.++|..+.-....+++|.+|-..+.... +.+...++|+.+ .+. + +.+.||.++|+. +++|.+.
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~-gi~~~~q~Li~~--G~~--L--~d~~~l~~~~i~~~stl~l~ 68 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQ-GVPPDQLRVIFA--GKE--L--RNTTTIQECDLGQQSILHAV 68 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHH-CCCHHHeEEEEC--CeE--C--CCCCcHHHcCCCCCCEEEEE
Confidence 45899999999999999999999999998863 567788899754 443 5 457999999998 5666553
No 37
>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=96.61 E-value=0.015 Score=44.77 Aligned_cols=61 Identities=20% Similarity=0.285 Sum_probs=49.7
Q ss_pred HHh-hcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhh
Q 025774 14 QTI-STNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 14 ~~l-~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
+++ ...+.|...|++.. ..++..|++.++|++.++- +|+.+. +.|..+.+.++..|...++
T Consensus 59 ~~l~~~~v~~~kVD~d~~--~~La~~~~I~~iPTl~lfk--~G~~v~-~~G~~~~~~l~~~l~~~~~ 120 (120)
T cd03065 59 QVLEDKGIGFGLVDSKKD--AKVAKKLGLDEEDSIYVFK--DDEVIE-YDGEFAADTLVEFLLDLIE 120 (120)
T ss_pred HHhhcCCCEEEEEeCCCC--HHHHHHcCCccccEEEEEE--CCEEEE-eeCCCCHHHHHHHHHHHhC
Confidence 344 34789999999754 6899999999999998884 688877 9999999999888776653
No 38
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=96.59 E-value=0.016 Score=40.52 Aligned_cols=67 Identities=13% Similarity=0.169 Sum_probs=52.4
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCC--CCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEE
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGS--EMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISV 245 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~--~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v 245 (248)
+|-||.++|+.+.-....++||.+|...+.... +. ++....|.. ..+. + +.+.||.++|+. +++|++
T Consensus 2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~-~i~~~~~~q~L~~--~G~~--L--~d~~~L~~~~i~~~~~i~~ 71 (77)
T cd01805 2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEK-GCDYPPEQQKLIY--SGKI--L--KDDTTLEEYKIDEKDFVVV 71 (77)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhh-CCCCChhHeEEEE--CCEE--c--cCCCCHHHcCCCCCCEEEE
Confidence 578999999999899999999999999998753 44 567777764 4553 5 456899999998 455544
No 39
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=96.59 E-value=0.0062 Score=45.96 Aligned_cols=64 Identities=19% Similarity=0.242 Sum_probs=49.2
Q ss_pred CceEEEEEcCCCce-EEEeeCCCCchHHHHHHHHhhcC-C-----CCCcCeEEEccCCCCccccCCCcCCCccccCC
Q 025774 169 LLCRVGVRLPDGRR-MQRNFLRTDPIQLLWSYCYSQLE-G-----SEMKPFRLTHAIPGATKSLDYDSKLTFEDSGL 238 (248)
Q Consensus 169 ~~~~i~iRlp~G~r-~~r~F~~~~~l~~l~~fv~~~~~-~-----~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl 238 (248)
..+.|+|||+||+- =-.+|..++||.+|-.-|..... + +....-+|+.+ .+. | +.++||+++++
T Consensus 3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIys--GKi--L--eD~~TL~d~~~ 73 (113)
T cd01814 3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISA--GKI--L--ENSKTVGECRS 73 (113)
T ss_pred ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeC--Cee--c--CCCCcHHHhCC
Confidence 46789999999963 45789999999999999987653 2 34666777765 443 5 56899999993
No 40
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=96.58 E-value=0.014 Score=40.05 Aligned_cols=68 Identities=19% Similarity=0.189 Sum_probs=53.1
Q ss_pred eEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEE
Q 025774 171 CRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVT 246 (248)
Q Consensus 171 ~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~ 246 (248)
++|.||.. |+....++..++||.+|.+-+... .+.++...+|... .+. + +.+.||.++|+. +++|++.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~-~gi~~~~q~L~~~--g~~--l--~d~~~L~~~~i~~g~~l~v~ 69 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPV-TGVEPRDQKLIFK--GKE--R--DDAETLDMSGVKDGSKVMLL 69 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHh-hCCChHHeEEeeC--Ccc--c--CccCcHHHcCCCCCCEEEEe
Confidence 46888986 888889999999999999999875 4667888888754 332 5 347899999998 4556553
No 41
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=96.50 E-value=0.018 Score=43.66 Aligned_cols=64 Identities=22% Similarity=0.259 Sum_probs=47.5
Q ss_pred ceEEEEEcCCCc-eEEEeeCCCCchHHHHHHHHhhcCCC------CCcCeEEEccCCCCccccCCCcCCCccccCCc
Q 025774 170 LCRVGVRLPDGR-RMQRNFLRTDPIQLLWSYCYSQLEGS------EMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA 239 (248)
Q Consensus 170 ~~~i~iRlp~G~-r~~r~F~~~~~l~~l~~fv~~~~~~~------~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~ 239 (248)
.+.|+|||.||+ +..-+|..+.||.+|-++|...++.. .+...+|+.. .|. | +.+.||.++++.
T Consensus 2 ~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~--Gri--L--~d~~tL~~~~~~ 72 (111)
T PF13881_consen 2 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYA--GRI--L--EDNKTLSDCRLP 72 (111)
T ss_dssp SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEET--TEE--E---SSSBTGGGT--
T ss_pred eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeC--Cee--c--CCcCcHHHhCCC
Confidence 478999999999 89999999999999999999876421 2445778774 342 5 568999999887
No 42
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=96.49 E-value=0.014 Score=39.72 Aligned_cols=63 Identities=21% Similarity=0.257 Sum_probs=51.4
Q ss_pred EcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcC-ceEEE
Q 025774 176 RLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLAN-AMISV 245 (248)
Q Consensus 176 Rlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~-~~v~v 245 (248)
|.++|+.+.-.+..+++|.+|-.-|.... +.++....|+.. .+. + +++.||.+.|+.+ ++|.+
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~-~~~~~~~~L~~~--G~~--L--~d~~tL~~~~i~~~~~I~l 64 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEET-GIPPEQQRLIYN--GKE--L--DDDKTLSDYGIKDGSTIHL 64 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHH-TSTGGGEEEEET--TEE--E--STTSBTGGGTTSTTEEEEE
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhccccc-ccccccceeeee--eec--c--cCcCcHHHcCCCCCCEEEE
Confidence 56899999999999999999999998875 567888999774 443 5 6789999999995 44444
No 43
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=96.47 E-value=0.015 Score=40.50 Aligned_cols=67 Identities=18% Similarity=0.254 Sum_probs=53.4
Q ss_pred EEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEE
Q 025774 173 VGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVT 246 (248)
Q Consensus 173 i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~ 246 (248)
|-||.++|+.+.-....+++|.+|.+-+... .+.+...+.|... .+. + +++.||.+.|+. +++|.+.
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~-~gi~~~~q~L~~~--G~~--L--~D~~tL~~~~i~~~~tl~l~ 68 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQR-ERVQADQFWLSFE--GRP--M--EDEHPLGEYGLKPGCTVFMN 68 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHH-hCCCHHHeEEEEC--CEE--C--CCCCCHHHcCCCCCCEEEEE
Confidence 4589999999999999999999999999775 4667888999754 443 6 346999999998 5666544
No 44
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=96.41 E-value=0.028 Score=43.96 Aligned_cols=59 Identities=12% Similarity=0.106 Sum_probs=50.7
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhcC
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDGG 81 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~~ 81 (248)
.+.+...|++.. ..++..|++.++|+++++ ++|+.+.++.|..+.++++..|..++++-
T Consensus 69 ~v~~akVDiD~~--~~LA~~fgV~siPTLl~F--kdGk~v~~i~G~~~k~~l~~~I~~~L~~~ 127 (132)
T PRK11509 69 TWQVAIADLEQS--EAIGDRFGVFRFPATLVF--TGGNYRGVLNGIHPWAELINLMRGLVEPQ 127 (132)
T ss_pred ceEEEEEECCCC--HHHHHHcCCccCCEEEEE--ECCEEEEEEeCcCCHHHHHHHHHHHhcCc
Confidence 367777887644 678999999999999998 56999999999999999999999998863
No 45
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=96.40 E-value=0.026 Score=42.17 Aligned_cols=72 Identities=8% Similarity=0.080 Sum_probs=58.8
Q ss_pred CceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEEe
Q 025774 169 LLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 169 ~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
+.-.|-||..+|+.+.-....++||.+|..-|... .+.+...++|+.+ .+. + +++.||++.|+. +++|.+.+
T Consensus 26 ~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~-~gip~~~QrLi~~--Gk~--L--~D~~tL~dy~I~~~stL~l~~ 98 (103)
T cd01802 26 DTMELFIETLTGTCFELRVSPFETVISVKAKIQRL-EGIPVAQQHLIWN--NME--L--EDEYCLNDYNISEGCTLKLVL 98 (103)
T ss_pred CCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHH-hCCChHHEEEEEC--CEE--C--CCCCcHHHcCCCCCCEEEEEE
Confidence 45789999999999999999999999999999875 4667888999864 443 5 457899999998 56776654
No 46
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=96.34 E-value=0.026 Score=38.92 Aligned_cols=68 Identities=10% Similarity=0.191 Sum_probs=52.6
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEEe
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
+|-|+.++|+ ..-.+..++||.+|..-+.... +.+...++|+. ..+. + +++.||.++|+. +++|.+.+
T Consensus 2 ~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~-~i~~~~~~Li~--~Gk~--L--~d~~tL~~~~i~~~stl~l~~ 70 (71)
T cd01808 2 KVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKF-KANQEQLVLIF--AGKI--L--KDTDTLTQHNIKDGLTVHLVI 70 (71)
T ss_pred EEEEEcCCCC-EEEEECCCChHHHHHHHHHHHh-CCCHHHEEEEE--CCeE--c--CCCCcHHHcCCCCCCEEEEEE
Confidence 5888999996 4677889999999999998764 55677888864 4553 5 456899999998 56776654
No 47
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=96.29 E-value=0.017 Score=40.05 Aligned_cols=67 Identities=13% Similarity=0.188 Sum_probs=53.0
Q ss_pred EEEEcC-CCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcC-ceEEE
Q 025774 173 VGVRLP-DGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLAN-AMISV 245 (248)
Q Consensus 173 i~iRlp-~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~-~~v~v 245 (248)
|-|+++ +|+.+.-....+.+|.+|-..+... .|.+....+|+.+ .+. + .|...+|+++|+.+ +.|++
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~-~gip~~~q~Li~~--Gk~--L-~D~~~~L~~~gi~~~~~l~l 69 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAE-SGIPASQQQLIYN--GRE--L-VDNKRLLALYGVKDGDLVVL 69 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHH-hCCCHHHeEEEEC--CeE--c-cCCcccHHHcCCCCCCEEEE
Confidence 457899 9998999999999999999999875 4677888899765 443 6 35568999999985 55544
No 48
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=95.90 E-value=0.053 Score=37.29 Aligned_cols=68 Identities=26% Similarity=0.344 Sum_probs=51.5
Q ss_pred eEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCC-cCeEEEccCCCCccccCCCcCCCccccCCcC-ceEEE
Q 025774 171 CRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEM-KPFRLTHAIPGATKSLDYDSKLTFEDSGLAN-AMISV 245 (248)
Q Consensus 171 ~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~-~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~-~~v~v 245 (248)
++|.++..+|+.+.-+-..+++++.|++...... +.+. ..+.|... ... + +.+.|++++|+.. +.|-|
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~-~i~~~~~~~l~fd--G~~--L--~~~~T~~~~~ied~d~Idv 70 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKK-GIPPEESIRLIFD--GKR--L--DPNDTPEDLGIEDGDTIDV 70 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHH-TTTT-TTEEEEET--TEE--E---TTSCHHHHT-STTEEEEE
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhh-CCCccceEEEEEC--CEE--c--CCCCCHHHCCCCCCCEEEE
Confidence 4788999999999999999999999999877654 4455 78888764 332 5 6789999999984 44433
No 49
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=95.79 E-value=0.042 Score=39.80 Aligned_cols=62 Identities=19% Similarity=0.251 Sum_probs=40.5
Q ss_pred eEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCce-EEE
Q 025774 182 RMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAM-ISV 245 (248)
Q Consensus 182 r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~-v~v 245 (248)
.+++.|.++|||..|-..+...+.- ...-+|..-|=...+.+-.+...|++|+||..+. |++
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~i--~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vli 77 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFNI--QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLI 77 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT---TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEE
T ss_pred HhHhhccccChHHHHHHHHHHHhCC--CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEE
Confidence 6899999999999999999886532 6677887644222233334788999999999555 444
No 50
>KOG0910 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=95.75 E-value=0.031 Score=44.46 Aligned_cols=59 Identities=27% Similarity=0.532 Sum_probs=49.3
Q ss_pred hcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhh
Q 025774 17 STNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 17 ~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
.+.|-|+..|++ +--.++..|.+.++|.++++. +|+.+.++-|..+.+.+...+..++.
T Consensus 91 ~g~~k~~kvdtD--~~~ela~~Y~I~avPtvlvfk--nGe~~d~~vG~~~~~~l~~~i~k~l~ 149 (150)
T KOG0910|consen 91 AGKFKLYKVDTD--EHPELAEDYEISAVPTVLVFK--NGEKVDRFVGAVPKEQLRSLIKKFLK 149 (150)
T ss_pred cCeEEEEEEccc--cccchHhhcceeeeeEEEEEE--CCEEeeeecccCCHHHHHHHHHHHhc
Confidence 346889888875 445789999999999999995 69999999999999988877777653
No 51
>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=95.55 E-value=0.15 Score=36.76 Aligned_cols=58 Identities=28% Similarity=0.505 Sum_probs=47.4
Q ss_pred HhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhh
Q 025774 15 TISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVP 76 (248)
Q Consensus 15 ~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~ 76 (248)
-+..++.|...|.+ +...++..|++..+|++.++. +|..+.++.|..+.+++...|.+
T Consensus 45 ~~~~~v~~~~vd~~--~~~~l~~~~~v~~~Pt~~~~~--~g~~~~~~~g~~~~~~l~~~i~~ 102 (103)
T PF00085_consen 45 EYKDNVKFAKVDCD--ENKELCKKYGVKSVPTIIFFK--NGKEVKRYNGPRNAESLIEFIEK 102 (103)
T ss_dssp HTTTTSEEEEEETT--TSHHHHHHTTCSSSSEEEEEE--TTEEEEEEESSSSHHHHHHHHHH
T ss_pred ccccccccchhhhh--ccchhhhccCCCCCCEEEEEE--CCcEEEEEECCCCHHHHHHHHHc
Confidence 33447889999986 447789999999999999985 58888899999999998776653
No 52
>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=95.54 E-value=0.1 Score=37.60 Aligned_cols=55 Identities=20% Similarity=0.379 Sum_probs=43.8
Q ss_pred hhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHH
Q 025774 16 ISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 16 l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L 74 (248)
+...+.+...|++. ...++..|++.++|++.++. +|..+.++.|..+.+++...|
T Consensus 41 ~~~~~~~~~vd~~~--~~~l~~~~~i~~~Pt~~~~~--~g~~~~~~~g~~~~~~l~~~l 95 (96)
T cd02956 41 YQGQFVLAKVNCDA--QPQIAQQFGVQALPTVYLFA--AGQPVDGFQGAQPEEQLRQML 95 (96)
T ss_pred hCCcEEEEEEeccC--CHHHHHHcCCCCCCEEEEEe--CCEEeeeecCCCCHHHHHHHh
Confidence 34467788888865 34688899999999999995 688888999999888876543
No 53
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=95.54 E-value=0.089 Score=37.17 Aligned_cols=69 Identities=20% Similarity=0.180 Sum_probs=52.3
Q ss_pred EEEEEcCCCce-EEE-eeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEEe
Q 025774 172 RVGVRLPDGRR-MQR-NFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 172 ~i~iRlp~G~r-~~r-~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
+|-||.++|+. +.- ....++||..|..-+... .+.+....+|+.. .+. + +.+.||.+.|+. +++|.+.+
T Consensus 2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~-~gi~~~~QrLi~~--Gk~--L--~D~~tL~~y~i~~~~~i~l~~ 73 (78)
T cd01797 2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQEL-FNVEPECQRLFYR--GKQ--M--EDGHTLFDYNVGLNDIIQLLV 73 (78)
T ss_pred EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHH-hCCCHHHeEEEeC--CEE--C--CCCCCHHHcCCCCCCEEEEEE
Confidence 57889999986 343 356789999999999775 4677888999864 443 5 558999999998 56666554
No 54
>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=95.40 E-value=0.083 Score=40.05 Aligned_cols=50 Identities=12% Similarity=0.178 Sum_probs=41.8
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
.+.|...|++... .++..|++.+.|+++++. +|..+..+.|..+-+++..
T Consensus 61 ~v~f~kVdid~~~--~la~~f~V~sIPTli~fk--dGk~v~~~~G~~~~~e~~~ 110 (111)
T cd02965 61 RFRAAVVGRADEQ--ALAARFGVLRTPALLFFR--DGRYVGVLAGIRDWDEYVA 110 (111)
T ss_pred cEEEEEEECCCCH--HHHHHcCCCcCCEEEEEE--CCEEEEEEeCccCHHHHhh
Confidence 4567788887654 899999999999998884 6999999999998888753
No 55
>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=95.39 E-value=0.091 Score=38.15 Aligned_cols=53 Identities=15% Similarity=0.231 Sum_probs=43.4
Q ss_pred cceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 18 TNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 18 ~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
..+++...|.+..+...++..|++..||++.+.. +|..+.++.|..+.+.++.
T Consensus 50 ~~~~~~~id~~~~~~~~~~~~~~i~~~Pt~~~~~--~g~~~~~~~g~~~~~~l~~ 102 (104)
T cd02997 50 GKGVLAAVDCTKPEHDALKEEYNVKGFPTFKYFE--NGKFVEKYEGERTAEDIIE 102 (104)
T ss_pred CceEEEEEECCCCccHHHHHhCCCccccEEEEEe--CCCeeEEeCCCCCHHHHHh
Confidence 4588888898876677788999999999987663 5788889999999888754
No 56
>PRK00293 dipZ thiol:disulfide interchange protein precursor; Provisional
Probab=95.37 E-value=0.051 Score=52.68 Aligned_cols=72 Identities=18% Similarity=0.338 Sum_probs=58.8
Q ss_pred cccCCCHHHHHHhhcceEEEEEecCC--hHHHHHHHhcCCCCCceEEEEeCCCCce--EEeeeCCCChHHHHHHHhhh
Q 025774 4 RDTWANEAVSQTISTNFIFWQVYDDT--SEGKKVCTYYKLDSIPVVLVVDPITGQK--MRSWCGMVQPESLLEDLVPF 77 (248)
Q Consensus 4 r~vl~~~~v~~~l~~~fV~w~~d~~~--~eg~~~~~~~~~~~~P~l~ii~~~~g~~--l~~~~G~~~~e~l~~~L~~~ 77 (248)
+.++.++.|.+.++ ++++...|++. ++...+++.|++..+|++.++++ +|+. ..++.|..++++|.+.|.+.
T Consensus 494 ~~~~~~~~v~~~l~-~~~~v~vDvt~~~~~~~~l~~~~~v~g~Pt~~~~~~-~G~~i~~~r~~G~~~~~~f~~~L~~~ 569 (571)
T PRK00293 494 KYTFSDPQVQQALA-DTVLLQADVTANNAEDVALLKHYNVLGLPTILFFDA-QGQEIPDARVTGFMDAAAFAAHLRQL 569 (571)
T ss_pred HHhcCCHHHHHHhc-CCEEEEEECCCCChhhHHHHHHcCCCCCCEEEEECC-CCCCcccccccCCCCHHHHHHHHHHh
Confidence 34688899999886 68999999975 35678999999999999999985 4775 46789999999998777653
No 57
>PRK10996 thioredoxin 2; Provisional
Probab=95.32 E-value=0.15 Score=39.97 Aligned_cols=58 Identities=19% Similarity=0.308 Sum_probs=45.8
Q ss_pred hhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhh
Q 025774 16 ISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPF 77 (248)
Q Consensus 16 l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~ 77 (248)
+..++.+...|++.. ..++..|++..+|++.++. +|+.+.++.|..+.+.+...|...
T Consensus 81 ~~~~v~~~~vd~~~~--~~l~~~~~V~~~Ptlii~~--~G~~v~~~~G~~~~e~l~~~l~~~ 138 (139)
T PRK10996 81 RSGKVRFVKVNTEAE--RELSARFRIRSIPTIMIFK--NGQVVDMLNGAVPKAPFDSWLNEA 138 (139)
T ss_pred hCCCeEEEEEeCCCC--HHHHHhcCCCccCEEEEEE--CCEEEEEEcCCCCHHHHHHHHHHh
Confidence 344788888888654 3678999999999998874 699999999999888887666543
No 58
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=95.29 E-value=0.13 Score=34.51 Aligned_cols=66 Identities=20% Similarity=0.270 Sum_probs=50.4
Q ss_pred EEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcC-ceEEEEe
Q 025774 175 VRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLAN-AMISVTW 247 (248)
Q Consensus 175 iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~-~~v~v~~ 247 (248)
||..+|..+...+..+.++.+|...+.... +.++....|..+ .+. + +.+.||.++|+.+ +.|.+.+
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~-~~~~~~~~l~~~--g~~--l--~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKE-GVPPEQQRLIYA--GKI--L--KDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHH-CcChHHEEEEEC--CcC--C--CCcCCHHHCCCCCCCEEEEEE
Confidence 567789999999999999999999998764 455667777443 332 4 5578999999984 5566665
No 59
>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=95.25 E-value=0.13 Score=37.31 Aligned_cols=55 Identities=11% Similarity=0.138 Sum_probs=43.7
Q ss_pred hhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHH
Q 025774 16 ISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 16 l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L 74 (248)
+..++.+...|++.. ..++..|++..+|++.++. +|..+.++.|..+.+++...|
T Consensus 42 ~~~~v~~~~id~d~~--~~l~~~~~v~~vPt~~i~~--~g~~v~~~~g~~~~~~~~~~l 96 (97)
T cd02949 42 FDGAVHFVEIDIDED--QEIAEAAGIMGTPTVQFFK--DKELVKEISGVKMKSEYREFI 96 (97)
T ss_pred hCCceEEEEEECCCC--HHHHHHCCCeeccEEEEEE--CCeEEEEEeCCccHHHHHHhh
Confidence 334688888888644 3568899999999999994 588999999999888876554
No 60
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=95.17 E-value=0.088 Score=34.78 Aligned_cols=62 Identities=18% Similarity=0.213 Sum_probs=48.4
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCc
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANA 241 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~ 241 (248)
+|.||.++ +...-.+..+.||..|..-+.... +.++....|..+ .+. + +.+.||.++|+.+.
T Consensus 2 ~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~-~~~~~~~~L~~~--g~~--L--~d~~tL~~~~i~~~ 63 (64)
T smart00213 2 ELTVKTLD-GTITLEVKPSDTVSELKEKIAELT-GIPVEQQRLIYK--GKV--L--EDDRTLADYNIQDG 63 (64)
T ss_pred EEEEEECC-ceEEEEECCCCcHHHHHHHHHHHH-CCCHHHEEEEEC--CEE--C--CCCCCHHHcCCcCC
Confidence 68899999 578889999999999999998764 555667888754 432 5 34689999999753
No 61
>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=94.95 E-value=0.23 Score=35.47 Aligned_cols=57 Identities=18% Similarity=0.307 Sum_probs=44.9
Q ss_pred hcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhh
Q 025774 17 STNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPF 77 (248)
Q Consensus 17 ~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~ 77 (248)
+.++.|+..|.+... .++..|++.++|++.++. +|..+....|..+.+++...|...
T Consensus 44 ~~~~~~~~vd~~~~~--~~~~~~~v~~~P~~~~~~--~g~~~~~~~g~~~~~~l~~~l~~~ 100 (101)
T TIGR01068 44 EGKVKFVKLNVDENP--DIAAKYGIRSIPTLLLFK--NGKEVDRSVGALPKAALKQLINKN 100 (101)
T ss_pred cCCeEEEEEECCCCH--HHHHHcCCCcCCEEEEEe--CCcEeeeecCCCCHHHHHHHHHhh
Confidence 446889999987554 467899999999999993 578888889998888887666543
No 62
>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=94.86 E-value=0.27 Score=36.20 Aligned_cols=54 Identities=24% Similarity=0.484 Sum_probs=42.7
Q ss_pred ceEEEEEecCCh-HHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 19 NFIFWQVYDDTS-EGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 19 ~fV~w~~d~~~~-eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
++.|...|.+.. +...++..|++..+|++.++ ++|..+.++.| ..+.++...+.
T Consensus 46 ~v~~~~vd~d~~~~~~~l~~~~~V~~~Pt~~~~--~~G~~v~~~~G-~~~~~l~~~~~ 100 (103)
T cd02985 46 DVVFLLVNGDENDSTMELCRREKIIEVPHFLFY--KDGEKIHEEEG-IGPDELIGDVL 100 (103)
T ss_pred CCEEEEEECCCChHHHHHHHHcCCCcCCEEEEE--eCCeEEEEEeC-CCHHHHHHHHH
Confidence 678888988754 35689999999999997777 57999999999 55677766554
No 63
>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=94.85 E-value=0.038 Score=43.11 Aligned_cols=59 Identities=17% Similarity=0.302 Sum_probs=42.7
Q ss_pred cccccCCCHHHHHHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCC
Q 025774 2 LNRDTWANEAVSQTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGM 64 (248)
Q Consensus 2 ~~r~vl~~~~v~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~ 64 (248)
|.+.+|.++.|.++++++||....+.+..+ ...+ . ....+|.++++++. |.++..+.|.
T Consensus 41 l~k~~f~~~eV~~~l~~~Fv~V~l~~d~td-~~~~-~-~g~~vPtivFld~~-g~vi~~i~Gy 99 (130)
T cd02960 41 LKKAFAEHKEIQKLAQEDFIMLNLVHETTD-KNLS-P-DGQYVPRIMFVDPS-LTVRADITGR 99 (130)
T ss_pred HHHHhhCCHHHHHHHHhCeEEEEEEeccCC-CCcC-c-cCcccCeEEEECCC-CCCccccccc
Confidence 567899999999999999997777664221 0000 0 12469999999975 8888888874
No 64
>PRK09381 trxA thioredoxin; Provisional
Probab=94.35 E-value=0.35 Score=35.64 Aligned_cols=57 Identities=18% Similarity=0.222 Sum_probs=43.2
Q ss_pred hcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhh
Q 025774 17 STNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPF 77 (248)
Q Consensus 17 ~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~ 77 (248)
..++.+...|.+... .++..|++.++|+++++. +|..+.+..|..+.+++...|...
T Consensus 51 ~~~~~~~~vd~~~~~--~~~~~~~v~~~Pt~~~~~--~G~~~~~~~G~~~~~~l~~~i~~~ 107 (109)
T PRK09381 51 QGKLTVAKLNIDQNP--GTAPKYGIRGIPTLLLFK--NGEVAATKVGALSKGQLKEFLDAN 107 (109)
T ss_pred CCCcEEEEEECCCCh--hHHHhCCCCcCCEEEEEe--CCeEEEEecCCCCHHHHHHHHHHh
Confidence 345677777876543 457889999999998884 688899999999888776555544
No 65
>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=94.31 E-value=0.12 Score=38.82 Aligned_cols=61 Identities=20% Similarity=0.266 Sum_probs=43.4
Q ss_pred HHHHHHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHH
Q 025774 10 EAVSQTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 10 ~~v~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L 74 (248)
+.+.++++++-+-|....+ ....++..|++.++|++.||++ +| +..+..|..+.+.+..++
T Consensus 62 ~~~~~~~~~~~~~~~~~~d--~~~~~~~~~~i~~~P~~~vid~-~g-i~~~~~g~~~~~~~~~~~ 122 (123)
T cd03011 62 GAVARFMQKKGYGFPVIND--PDGVISARWGVSVTPAIVIVDP-GG-IVFVTTGVTSEWGLRLRL 122 (123)
T ss_pred HHHHHHHHHcCCCccEEEC--CCcHHHHhCCCCcccEEEEEcC-CC-eEEEEeccCCHHHHHhhc
Confidence 4455555554444443332 2246888999999999999996 46 888999999999987653
No 66
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=94.24 E-value=0.36 Score=33.43 Aligned_cols=66 Identities=17% Similarity=0.195 Sum_probs=49.6
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEE
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVT 246 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~ 246 (248)
+|-||. ++.+.-....++||.+|-.-|... .+.++...+|+.+ .+. + +++.||+++|+. +++|.+.
T Consensus 2 qi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~-~gip~~~q~Li~~--Gk~--L--~D~~tL~~~~i~~~~tl~l~ 68 (74)
T cd01793 2 QLFVRA--QNTHTLEVTGQETVSDIKAHVAGL-EGIDVEDQVLLLA--GVP--L--EDDATLGQCGVEELCTLEVA 68 (74)
T ss_pred EEEEEC--CCEEEEEECCcCcHHHHHHHHHhh-hCCCHHHEEEEEC--CeE--C--CCCCCHHHcCCCCCCEEEEE
Confidence 355665 466778889999999999999875 4667788888764 443 5 457999999998 4666554
No 67
>PF03190 Thioredox_DsbH: Protein of unknown function, DUF255; InterPro: IPR004879 This is a group of uncharacterised proteins.; PDB: 3IRA_A.
Probab=94.24 E-value=0.12 Score=41.79 Aligned_cols=58 Identities=16% Similarity=0.301 Sum_probs=37.1
Q ss_pred cccccCCCHHHHHHhhcceEEEEEecCChHHH--H---HH-HhcCCCCCceEEEEeCCCCceEEe
Q 025774 2 LNRDTWANEAVSQTISTNFIFWQVYDDTSEGK--K---VC-TYYKLDSIPVVLVVDPITGQKMRS 60 (248)
Q Consensus 2 ~~r~vl~~~~v~~~l~~~fV~w~~d~~~~eg~--~---~~-~~~~~~~~P~l~ii~~~~g~~l~~ 60 (248)
|.+.++.|+.|.++||++||-...|.+..... . ++ ...+...+|..+++.|. |..+..
T Consensus 55 M~~esf~d~eVa~~lN~~FI~VkvDree~Pdid~~y~~~~~~~~~~gGwPl~vfltPd-g~p~~~ 118 (163)
T PF03190_consen 55 MERESFSDPEVAEYLNRNFIPVKVDREERPDIDKIYMNAVQAMSGSGGWPLTVFLTPD-GKPFFG 118 (163)
T ss_dssp HHHHTTT-HHHHHHHHHH-EEEEEETTT-HHHHHHHHHHHHHHHS---SSEEEEE-TT-S-EEEE
T ss_pred hcccCcCCHHHHHHHhCCEEEEEeccccCccHHHHHHHHHHHhcCCCCCCceEEECCC-CCeeee
Confidence 56789999999999999999999998753321 1 11 12367899999999985 675543
No 68
>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=94.19 E-value=0.25 Score=36.27 Aligned_cols=58 Identities=16% Similarity=0.287 Sum_probs=42.9
Q ss_pred hhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCC---CceEEeeeCCCChHHHHHH
Q 025774 16 ISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPIT---GQKMRSWCGMVQPESLLED 73 (248)
Q Consensus 16 l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~---g~~l~~~~G~~~~e~l~~~ 73 (248)
++..+.+...|.+..+...++..|++..||++.++.+.. +.......|..+.++|+.-
T Consensus 47 ~~~~~~~~~v~~~~~~~~~~~~~~~i~~~Pt~~~~~~~~~~~~~~~~~~~G~~~~~~l~~f 107 (109)
T cd03002 47 LDGLVQVAAVDCDEDKNKPLCGKYGVQGFPTLKVFRPPKKASKHAVEDYNGERSAKAIVDF 107 (109)
T ss_pred hcCCceEEEEecCccccHHHHHHcCCCcCCEEEEEeCCCcccccccccccCccCHHHHHHH
Confidence 344567777888776667889999999999999997542 1345668888888877543
No 69
>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=94.18 E-value=0.17 Score=41.00 Aligned_cols=45 Identities=22% Similarity=0.317 Sum_probs=38.1
Q ss_pred HHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhh
Q 025774 34 KVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 34 ~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
.++..|++..+|+.++|++ +|.++.++.|.++.+++...|.+++.
T Consensus 128 ~~~~~~~v~~~P~~~~id~-~G~i~~~~~G~~~~~~l~~~l~~~~~ 172 (173)
T TIGR00385 128 KLGLDLGVYGAPETFLVDG-NGVILYRHAGPLNNEVWTEGFLPAME 172 (173)
T ss_pred chHHhcCCeeCCeEEEEcC-CceEEEEEeccCCHHHHHHHHHHHhh
Confidence 3456778888999999995 59999999999999999888888764
No 70
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.14 E-value=0.21 Score=45.95 Aligned_cols=68 Identities=9% Similarity=0.137 Sum_probs=54.0
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcC--CCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEE
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLE--GSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISV 245 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~--~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v 245 (248)
+|-||..+|+.+.-.+..++||.+|...|..... +++....+|+.. .+. | ++++||+++|+. ++.|++
T Consensus 2 kItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~--Gki--L--~Dd~tL~dy~I~e~~~Ivv 72 (378)
T TIGR00601 2 TLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYS--GKI--L--SDDKTVREYKIKEKDFVVV 72 (378)
T ss_pred EEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEEC--CEE--C--CCCCcHHHcCCCCCCEEEE
Confidence 6889999999999999999999999999987532 266788888764 443 5 456899999998 455544
No 71
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=94.01 E-value=0.38 Score=34.19 Aligned_cols=71 Identities=13% Similarity=0.073 Sum_probs=52.3
Q ss_pred eEEEEEcCCCce--EEEeeCCCCchHHHHHHHHhhcC-CCCCcCeEEEccCCCCccccCCCcCCCccccC--Cc-CceEE
Q 025774 171 CRVGVRLPDGRR--MQRNFLRTDPIQLLWSYCYSQLE-GSEMKPFRLTHAIPGATKSLDYDSKLTFEDSG--LA-NAMIS 244 (248)
Q Consensus 171 ~~i~iRlp~G~r--~~r~F~~~~~l~~l~~fv~~~~~-~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~g--l~-~~~v~ 244 (248)
++|.||.|+|++ +.-.+..++||.+|-.-+....+ .+++..-+|+.. ++. | +++.||++.+ .. .-+|.
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~--GKi--L--kD~~tL~~~~~~~~~~~tiH 75 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYS--GKL--L--PDHLKLRDVLRKQDEYHMVH 75 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEc--Cee--c--cchhhHHHHhhcccCCceEE
Confidence 578999999998 55555899999999999987653 234577888764 443 5 4579999996 55 45666
Q ss_pred EEe
Q 025774 245 VTW 247 (248)
Q Consensus 245 v~~ 247 (248)
+++
T Consensus 76 LV~ 78 (79)
T cd01790 76 LVC 78 (79)
T ss_pred EEe
Confidence 654
No 72
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=94.00 E-value=0.41 Score=33.38 Aligned_cols=69 Identities=17% Similarity=0.145 Sum_probs=52.0
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEE
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISV 245 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v 245 (248)
+|.|++ +|+.+.-.+..++|+.+|-+-+.+. .+.++...+|...-.+. ..+ +++.||.++|+. ++.|++
T Consensus 2 ~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~-tgvp~~~QKLi~~~~~G-k~l--~D~~~L~~~~i~~g~~i~l 71 (74)
T cd01813 2 PVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTL-TGVLPERQKLLGLKVKG-KPA--EDDVKISALKLKPNTKIMM 71 (74)
T ss_pred EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHH-HCCCHHHEEEEeecccC-CcC--CCCcCHHHcCCCCCCEEEE
Confidence 567777 7788888999999999999999885 46788889998620122 123 458999999998 455554
No 73
>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=93.70 E-value=0.33 Score=35.29 Aligned_cols=55 Identities=18% Similarity=0.268 Sum_probs=42.2
Q ss_pred HHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 14 QTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 14 ~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
+-+..++.|...|++.. ..++..|++..||++.++ .+|..+..+.|..+.+.|..
T Consensus 45 ~~~~~~~~~~~vd~~~~--~~~~~~~~v~~~Pt~~~~--~~g~~~~~~~G~~~~~~l~~ 99 (101)
T cd03003 45 KEMDGVIRIGAVNCGDD--RMLCRSQGVNSYPSLYVF--PSGMNPEKYYGDRSKESLVK 99 (101)
T ss_pred HHhcCceEEEEEeCCcc--HHHHHHcCCCccCEEEEE--cCCCCcccCCCCCCHHHHHh
Confidence 33445778888888753 457899999999999888 35777888999888887643
No 74
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=93.69 E-value=0.34 Score=30.44 Aligned_cols=64 Identities=23% Similarity=0.201 Sum_probs=47.1
Q ss_pred EEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEE
Q 025774 175 VRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISV 245 (248)
Q Consensus 175 iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v 245 (248)
+++++|......+..+.++.+|...+.... +..+..|.|....+.. ....++.+.++. +..+.+
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~-~~~~~~~~l~~~~~~~------~~~~~~~~~~~~~~~~i~~ 66 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKL-GLPPEQQRLLVNGKIL------PDSLTLEDYGLQDGDELVL 66 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHH-CcChHHeEEEECCeEC------CCCCcHHHcCCCCCCEEEE
Confidence 677899999999999999999999998865 3567889998876543 223344566665 444443
No 75
>PHA02278 thioredoxin-like protein
Probab=93.20 E-value=0.51 Score=35.10 Aligned_cols=49 Identities=20% Similarity=0.328 Sum_probs=39.2
Q ss_pred EEEEEecCChH--HHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHH
Q 025774 21 IFWQVYDDTSE--GKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLL 71 (248)
Q Consensus 21 V~w~~d~~~~e--g~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~ 71 (248)
-|...|++..+ ...++..|++.+.|+++++- +|+.+.++.|..+.+.+.
T Consensus 48 ~~~~vdvd~~~~d~~~l~~~~~I~~iPT~i~fk--~G~~v~~~~G~~~~~~l~ 98 (103)
T PHA02278 48 PILTLNLDAEDVDREKAVKLFDIMSTPVLIGYK--DGQLVKKYEDQVTPMQLQ 98 (103)
T ss_pred eEEEEECCccccccHHHHHHCCCccccEEEEEE--CCEEEEEEeCCCCHHHHH
Confidence 46777776432 45589999999999998884 599999999988887764
No 76
>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=93.17 E-value=0.67 Score=40.66 Aligned_cols=71 Identities=14% Similarity=0.181 Sum_probs=51.3
Q ss_pred CHHHHHHhhc-ceEEEEEecCChH---------HHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhh
Q 025774 9 NEAVSQTIST-NFIFWQVYDDTSE---------GKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFM 78 (248)
Q Consensus 9 ~~~v~~~l~~-~fV~w~~d~~~~e---------g~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~ 78 (248)
.+.+.++-++ ++.+.+++++... ...++..|++..+|.++|+++.+|.+.....|.++.++|..++....
T Consensus 185 ~P~L~~la~~yg~~Vi~VsvD~~~~~~fp~~~~d~~la~~~gV~~vPtl~Lv~~~~~~v~~v~~G~~s~~eL~~~i~~~a 264 (271)
T TIGR02740 185 APILQAFEDRYGIEVLPVSVDGGPLPGFPNARPDAGQAQQLKIRTVPAVFLADPDPNQFTPIGFGVMSADELVDRILLAA 264 (271)
T ss_pred hHHHHHHHHHcCcEEEEEeCCCCccccCCcccCCHHHHHHcCCCcCCeEEEEECCCCEEEEEEeCCCCHHHHHHHHHHHh
Confidence 3455556554 5667777765421 12368899999999999999766766666779999999988877664
Q ss_pred h
Q 025774 79 D 79 (248)
Q Consensus 79 ~ 79 (248)
.
T Consensus 265 ~ 265 (271)
T TIGR02740 265 H 265 (271)
T ss_pred c
Confidence 3
No 77
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=93.16 E-value=0.78 Score=36.59 Aligned_cols=43 Identities=23% Similarity=0.428 Sum_probs=35.8
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhh
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVP 76 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~ 76 (248)
..++..|++..+|++.+|++ +|+++..+.|..+.+++.+.|..
T Consensus 128 ~~~~~~~~v~~~P~~~lid~-~g~i~~~~~g~~~~~~l~~~l~~ 170 (173)
T PRK03147 128 RQVIDAYGVGPLPTTFLIDK-DGKVVKVITGEMTEEQLEEYLEK 170 (173)
T ss_pred chHHHHcCCCCcCeEEEECC-CCcEEEEEeCCCCHHHHHHHHHH
Confidence 36678899999999999985 58999999999999888766553
No 78
>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=93.02 E-value=0.64 Score=33.46 Aligned_cols=50 Identities=20% Similarity=0.398 Sum_probs=39.2
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
++.+...|.+... .++..|++..+|++.++. .|..+.+..|..+.+++..
T Consensus 51 ~~~~~~vd~~~~~--~~~~~~~v~~~Pt~~~~~--~g~~~~~~~G~~~~~~l~~ 100 (102)
T cd03005 51 SVKIAKVDCTQHR--ELCSEFQVRGYPTLLLFK--DGEKVDKYKGTRDLDSLKE 100 (102)
T ss_pred cEEEEEEECCCCh--hhHhhcCCCcCCEEEEEe--CCCeeeEeeCCCCHHHHHh
Confidence 5788888876543 678899999999999983 4777888999988777643
No 79
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=92.64 E-value=0.53 Score=32.81 Aligned_cols=62 Identities=16% Similarity=0.244 Sum_probs=48.3
Q ss_pred CCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEEe
Q 025774 179 DGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 179 ~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
+|+.+.-.+..++||.+|-+-|... .+.++...+|+.. .+. + +.+.||.++|+. +++|.+.+
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~-~gip~~~q~L~~~--G~~--L--~d~~tL~~~~i~~g~~l~v~~ 68 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEE-TGMPAGKQKLQYE--GIF--I--KDSNSLAYYNLANGTIIHLQL 68 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHH-HCCCHHHEEEEEC--CEE--c--CCCCcHHHcCCCCCCEEEEEE
Confidence 6888889999999999999999875 4677888899754 332 4 457899999998 56666543
No 80
>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=92.50 E-value=1.1 Score=30.74 Aligned_cols=53 Identities=26% Similarity=0.335 Sum_probs=42.1
Q ss_pred cceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHH
Q 025774 18 TNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 18 ~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L 74 (248)
.++.+...|.+. ...++..|++..+|++.++. .|..+..+.|..+.+++...|
T Consensus 40 ~~~~~~~i~~~~--~~~~~~~~~v~~~P~~~~~~--~g~~~~~~~g~~~~~~l~~~i 92 (93)
T cd02947 40 PKVKFVKVDVDE--NPELAEEYGVRSIPTFLFFK--NGKEVDRVVGADPKEELEEFL 92 (93)
T ss_pred CCceEEEEECCC--ChhHHHhcCcccccEEEEEE--CCEEEEEEecCCCHHHHHHHh
Confidence 578888888865 44678889999999999985 478889999988887776544
No 81
>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=92.41 E-value=1.1 Score=32.43 Aligned_cols=52 Identities=13% Similarity=0.188 Sum_probs=39.8
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
++.+...|.+... .++..|++..||++.++ .+|. +....|..+.+++...+.
T Consensus 49 ~v~~~~vd~~~~~--~~~~~~~i~~~Pt~~~~--~~g~-~~~~~G~~~~~~l~~~i~ 100 (101)
T cd02994 49 GINVAKVDVTQEP--GLSGRFFVTALPTIYHA--KDGV-FRRYQGPRDKEDLISFIE 100 (101)
T ss_pred CeEEEEEEccCCH--hHHHHcCCcccCEEEEe--CCCC-EEEecCCCCHHHHHHHHh
Confidence 5788888886544 47889999999999887 4576 477899888888765543
No 82
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=92.34 E-value=1.3 Score=31.69 Aligned_cols=73 Identities=18% Similarity=0.239 Sum_probs=51.0
Q ss_pred eEEEEEcCCC--ceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccC-CCCc--cccCCCcCCCccccCCcCce-EE
Q 025774 171 CRVGVRLPDG--RRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAI-PGAT--KSLDYDSKLTFEDSGLANAM-IS 244 (248)
Q Consensus 171 ~~i~iRlp~G--~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~-Pr~~--~~l~~d~~~tl~d~gl~~~~-v~ 244 (248)
++|.|.-++- ...++||..+.||++|-.-+.... |.++...+|.--. +... ..+ .+.+++|...|+.+.. |.
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~-Gi~~~~m~L~l~~~~~~~~~~~~-~dd~~~L~~y~~~dg~~i~ 79 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLT-GIPPSDMRLQLKSDKDDSKIEEL-DDDDATLGSYGIKDGMRIH 79 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHH-TS-TTTEEEEEE-TSSSSEEEES-SGSSSBCCHHT-STTEEEE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHh-CCCcccEEEEEEecCCCcccccc-CCCccEeecCCCCCCCEEE
Confidence 5677887766 489999999999999999998754 6677777775421 1111 122 4679999999999555 44
Q ss_pred E
Q 025774 245 V 245 (248)
Q Consensus 245 v 245 (248)
|
T Consensus 80 V 80 (87)
T PF14560_consen 80 V 80 (87)
T ss_dssp E
T ss_pred E
Confidence 4
No 83
>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=92.32 E-value=0.6 Score=32.92 Aligned_cols=53 Identities=17% Similarity=0.256 Sum_probs=40.9
Q ss_pred hcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 17 STNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 17 ~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
+.++.|...|... ...++..|++..+|++.++.+. |..+.+..|..++++++.
T Consensus 47 ~~~~~~~~v~~~~--~~~~~~~~~i~~~Pt~~~~~~~-~~~~~~~~g~~~~~~i~~ 99 (101)
T cd02961 47 DGKVVVAKVDCTA--NNDLCSEYGVRGYPTIKLFPNG-SKEPVKYEGPRTLESLVE 99 (101)
T ss_pred CCceEEEEeeccc--hHHHHHhCCCCCCCEEEEEcCC-CcccccCCCCcCHHHHHh
Confidence 3567777777754 5677899999999999999753 366777888888887754
No 84
>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=92.24 E-value=1.2 Score=33.21 Aligned_cols=53 Identities=9% Similarity=0.081 Sum_probs=41.3
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
++.+...|++.. ..++..|++.++|.+.++. .|..+....|..+.+.+...|.
T Consensus 57 ~v~~~~vd~d~~--~~l~~~~~V~~~Pt~~i~~--~g~~~~~~~G~~~~~~l~~~i~ 109 (111)
T cd02963 57 GVGIATVNAGHE--RRLARKLGAHSVPAIVGII--NGQVTFYHDSSFTKQHVVDFVR 109 (111)
T ss_pred CceEEEEecccc--HHHHHHcCCccCCEEEEEE--CCEEEEEecCCCCHHHHHHHHh
Confidence 577778887643 3578999999999998884 6888888999888887755443
No 85
>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=92.07 E-value=1.1 Score=35.96 Aligned_cols=38 Identities=16% Similarity=0.173 Sum_probs=30.8
Q ss_pred CCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhh
Q 025774 40 KLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPF 77 (248)
Q Consensus 40 ~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~ 77 (248)
++..+|+..+|++..+.+..+..|.++.+++...+...
T Consensus 115 ~v~~iPTt~LID~~G~~i~~~~~G~~s~~~l~~~I~~l 152 (153)
T TIGR02738 115 RPVVTPATFLVNVNTRKAYPVLQGAVDEAELANRMDEI 152 (153)
T ss_pred CCCCCCeEEEEeCCCCEEEEEeecccCHHHHHHHHHHh
Confidence 78999999999976555667899999999887766553
No 86
>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=91.62 E-value=0.81 Score=33.07 Aligned_cols=56 Identities=23% Similarity=0.280 Sum_probs=38.9
Q ss_pred cceEEEEEecCChHHHHHHHhcCCC--CCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 18 TNFIFWQVYDDTSEGKKVCTYYKLD--SIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 18 ~~fV~w~~d~~~~eg~~~~~~~~~~--~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
..+.|...|++. ...++..|++. .+|+++++...+|.......|..+.+.+..-+.
T Consensus 43 ~~v~f~~vd~~~--~~~~~~~~~i~~~~~P~~~~~~~~~~~k~~~~~~~~~~~~l~~fi~ 100 (103)
T cd02982 43 GKLLFVVVDADD--FGRHLEYFGLKEEDLPVIAIINLSDGKKYLMPEEELTAESLEEFVE 100 (103)
T ss_pred CeEEEEEEchHh--hHHHHHHcCCChhhCCEEEEEecccccccCCCccccCHHHHHHHHH
Confidence 356666666643 55689999998 999999998755665555556667776644443
No 87
>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=91.53 E-value=1.2 Score=38.79 Aligned_cols=69 Identities=10% Similarity=0.138 Sum_probs=52.2
Q ss_pred HHHhhc-ceEEEEEecCCh--H-------HHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhcC
Q 025774 13 SQTIST-NFIFWQVYDDTS--E-------GKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDGG 81 (248)
Q Consensus 13 ~~~l~~-~fV~w~~d~~~~--e-------g~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~~ 81 (248)
..|-+. +|=+.+++++.. . ....+..+++..+|.+++|.|.++...-+-.|.++.++|+.++......+
T Consensus 173 ~~fa~~ygi~v~~VS~DG~~~p~fp~~~~d~gqa~~l~v~~~Pal~Lv~~~t~~~~pv~~G~iS~deL~~Ri~~v~~~f 251 (256)
T TIGR02739 173 QAFAKEYGISVIPISVDGTLIPGLPNSRSDSGQAQHLGVKYFPALYLVNPKSQKMSPLAYGFISQDELKERILNVLTQF 251 (256)
T ss_pred HHHHHHhCCeEEEEecCCCCCCCCCCccCChHHHHhcCCccCceEEEEECCCCcEEEEeeccCCHHHHHHHHHHHHhcc
Confidence 334443 566666666532 1 13456778899999999999998888888899999999999999887766
No 88
>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=91.52 E-value=1.6 Score=31.18 Aligned_cols=54 Identities=15% Similarity=0.272 Sum_probs=39.3
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhh
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVP 76 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~ 76 (248)
++.+...|. .+...++..|++..+|.++++.+ |..+....|..+.++|...|.+
T Consensus 47 ~~~~~~~d~--~~~~~~~~~~~i~~~P~~~~~~~--~~~~~~~~g~~~~~~l~~~i~~ 100 (102)
T TIGR01126 47 DIVLAKVDA--TAEKDLASRFGVSGFPTIKFFPK--GKKPVDYEGGRDLEAIVEFVNE 100 (102)
T ss_pred ceEEEEEEc--cchHHHHHhCCCCcCCEEEEecC--CCcceeecCCCCHHHHHHHHHh
Confidence 466655565 34567889999999999999974 3336778998888887555543
No 89
>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=91.41 E-value=1.1 Score=32.51 Aligned_cols=52 Identities=17% Similarity=0.269 Sum_probs=39.6
Q ss_pred cceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCC-hHHHHH
Q 025774 18 TNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQ-PESLLE 72 (248)
Q Consensus 18 ~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~-~e~l~~ 72 (248)
..+.|...|.+.. ..+++.|++..||++.++.. +|..+..+.|..+ .++|..
T Consensus 50 ~~~~~~~vd~~~~--~~~~~~~~i~~~Pt~~~~~~-g~~~~~~~~G~~~~~~~l~~ 102 (104)
T cd03004 50 GKVKVGSVDCQKY--ESLCQQANIRAYPTIRLYPG-NASKYHSYNGWHRDADSILE 102 (104)
T ss_pred CCcEEEEEECCch--HHHHHHcCCCcccEEEEEcC-CCCCceEccCCCCCHHHHHh
Confidence 4567778887653 45789999999999998853 3477888999886 877643
No 90
>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=91.39 E-value=1.1 Score=33.88 Aligned_cols=57 Identities=14% Similarity=0.178 Sum_probs=42.5
Q ss_pred HHHHhhcceEEEEEecCChHHHHHH-HhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 12 VSQTISTNFIFWQVYDDTSEGKKVC-TYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 12 v~~~l~~~fV~w~~d~~~~eg~~~~-~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
+.+-+.+...|...|.+... .++ ..|++.+||++.+. .+|....+..|..+.+.++.
T Consensus 54 la~~~~~~v~~~~Vd~d~~~--~l~~~~~~I~~~PTl~lf--~~g~~~~~y~G~~~~~~i~~ 111 (113)
T cd03006 54 VAQKLSDQVLFVAINCWWPQ--GKCRKQKHFFYFPVIHLY--YRSRGPIEYKGPMRAPYMEK 111 (113)
T ss_pred HHHHhcCCeEEEEEECCCCh--HHHHHhcCCcccCEEEEE--ECCccceEEeCCCCHHHHHh
Confidence 33344556788888887554 356 58999999999888 35777788999988888754
No 91
>PRK15412 thiol:disulfide interchange protein DsbE; Provisional
Probab=91.28 E-value=0.53 Score=38.59 Aligned_cols=45 Identities=13% Similarity=0.213 Sum_probs=37.3
Q ss_pred HHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhc
Q 025774 35 VCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDG 80 (248)
Q Consensus 35 ~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~ 80 (248)
++..|++..+|+.+||++. |.++.+..|.++.+++...+...+..
T Consensus 134 ~~~~~gv~~~P~t~vid~~-G~i~~~~~G~~~~~~l~~~i~~~~~~ 178 (185)
T PRK15412 134 LGLDLGVYGAPETFLIDGN-GIIRYRHAGDLNPRVWESEIKPLWEK 178 (185)
T ss_pred HHHhcCCCcCCeEEEECCC-ceEEEEEecCCCHHHHHHHHHHHHHH
Confidence 4557889999999999964 99999999999998887777777654
No 92
>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=91.26 E-value=0.38 Score=36.45 Aligned_cols=37 Identities=19% Similarity=0.277 Sum_probs=31.1
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHH
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESL 70 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l 70 (248)
..++..|++..+|...+|++ +|.++.++.|.++.+.+
T Consensus 90 ~~~~~~~~v~~~P~~~~ld~-~G~v~~~~~G~~~~~~~ 126 (127)
T cd03010 90 GRVGIDLGVYGVPETFLIDG-DGIIRYKHVGPLTPEVW 126 (127)
T ss_pred chHHHhcCCCCCCeEEEECC-CceEEEEEeccCChHhc
Confidence 45778899999999999985 59999999998887653
No 93
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=91.22 E-value=0.61 Score=32.82 Aligned_cols=70 Identities=26% Similarity=0.365 Sum_probs=45.4
Q ss_pred ceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCC--CCC---cCeEEEccCCCCccccCCCcCCCccccCCcCceEE
Q 025774 170 LCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEG--SEM---KPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMIS 244 (248)
Q Consensus 170 ~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~--~~~---~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v~ 244 (248)
.|+|-|..++|+++.-....+-++..|..-+...+.. .+. ..|.|.+. +.+. + +.+.||.++|+.++.++
T Consensus 2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~-~g~~--L--~~~~tL~~~gV~dGd~L 76 (79)
T PF08817_consen 2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARA-GGRP--L--DPDQTLADAGVRDGDVL 76 (79)
T ss_dssp EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-G-GTEE--E--ETTSBCGGGT--TT-EE
T ss_pred EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEec-CCcc--c--CCcCcHhHcCCCCCCEE
Confidence 5899999999899999999999999999988776432 112 24777632 2222 4 67999999999966554
No 94
>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=91.11 E-value=1.8 Score=31.59 Aligned_cols=50 Identities=18% Similarity=0.203 Sum_probs=38.5
Q ss_pred eEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 20 FIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 20 fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
..|...|++.+ ..+..|++..+|++.++. +|+.+.++.|. +++.+...|.
T Consensus 51 ~~~~~vd~d~~---~~~~~~~v~~~Pt~~~~~--~g~~~~~~~G~-~~~~~~~~i~ 100 (102)
T cd02948 51 LHFATAEADTI---DTLKRYRGKCEPTFLFYK--NGELVAVIRGA-NAPLLNKTIT 100 (102)
T ss_pred EEEEEEeCCCH---HHHHHcCCCcCcEEEEEE--CCEEEEEEecC-ChHHHHHHHh
Confidence 45667777733 578999999999988874 69999999994 7777766554
No 95
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=91.10 E-value=1.2 Score=30.96 Aligned_cols=64 Identities=19% Similarity=0.059 Sum_probs=47.6
Q ss_pred EEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEc-cCCCCccccCCCcCCCccccCCc
Q 025774 175 VRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTH-AIPGATKSLDYDSKLTFEDSGLA 239 (248)
Q Consensus 175 iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~-~~Pr~~~~l~~d~~~tl~d~gl~ 239 (248)
|+||||+..+-....+.+.++|++-|..++.-....-|.|.. .-+...... .+.+++|.+.+-.
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~w-L~~~k~l~~q~~~ 65 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHW-LDLDKKLKKQLKK 65 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEE-E-SSSBGGGSTBT
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCccee-ccCcccHHHHcCC
Confidence 689999999999999999999999999987544567788876 112221122 3778899888765
No 96
>PF13728 TraF: F plasmid transfer operon protein
Probab=91.10 E-value=1.1 Score=37.88 Aligned_cols=63 Identities=16% Similarity=0.182 Sum_probs=47.4
Q ss_pred HHHHhhc-ceEEEEEecCCh---------HHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHH
Q 025774 12 VSQTIST-NFIFWQVYDDTS---------EGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 12 v~~~l~~-~fV~w~~d~~~~---------eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L 74 (248)
|..|-+. +|-+..++++.. .-...+..+++..+|.+++|.|.++...-+-.|.++.++|++++
T Consensus 142 l~~~~~~yg~~v~~vs~DG~~~~~fp~~~~~~g~~~~l~v~~~Pal~Lv~~~~~~~~pv~~G~~s~~~L~~ri 214 (215)
T PF13728_consen 142 LQQFADKYGFSVIPVSLDGRPIPSFPNPRPDPGQAKRLGVKVTPALFLVNPNTKKWYPVSQGFMSLDELEDRI 214 (215)
T ss_pred HHHHHHHhCCEEEEEecCCCCCcCCCCCCCCHHHHHHcCCCcCCEEEEEECCCCeEEEEeeecCCHHHHHHhh
Confidence 3444443 677777777521 12346678899999999999998888888899999999998876
No 97
>PLN00410 U5 snRNP protein, DIM1 family; Provisional
Probab=91.01 E-value=1.8 Score=34.31 Aligned_cols=58 Identities=12% Similarity=0.115 Sum_probs=44.8
Q ss_pred eEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCc-eEEeeeC--------CCChHHHHHHHhhhhhc
Q 025774 20 FIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQ-KMRSWCG--------MVQPESLLEDLVPFMDG 80 (248)
Q Consensus 20 fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~-~l~~~~G--------~~~~e~l~~~L~~~~~~ 80 (248)
..|+.+|++.. ..++..|++...|.++++. ++|. .+++..| ..+.++|+..+..++..
T Consensus 56 ~~~~kVDVDe~--~dla~~y~I~~~~t~~~ff-k~g~~~vd~~tG~~~k~~~~~~~k~~l~~~i~~~~~~ 122 (142)
T PLN00410 56 AVIYLVDITEV--PDFNTMYELYDPCTVMFFF-RNKHIMIDLGTGNNNKINWALKDKQEFIDIVETVYRG 122 (142)
T ss_pred eEEEEEECCCC--HHHHHHcCccCCCcEEEEE-ECCeEEEEEecccccccccccCCHHHHHHHHHHHHHH
Confidence 56699999744 4899999999777666554 4678 7888999 57888898888877664
No 98
>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=90.62 E-value=1.7 Score=30.87 Aligned_cols=51 Identities=12% Similarity=0.384 Sum_probs=38.9
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHH
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L 74 (248)
++.+...|.+. ...++..|++..+|++.++. .|..+.++.|. .++++...+
T Consensus 46 ~i~~~~vd~~~--~~~~~~~~~i~~~Pt~~~~~--~g~~~~~~~g~-~~~~l~~~~ 96 (97)
T cd02984 46 SVLFLSIEAEE--LPEISEKFEITAVPTFVFFR--NGTIVDRVSGA-DPKELAKKV 96 (97)
T ss_pred ceEEEEEcccc--CHHHHHhcCCccccEEEEEE--CCEEEEEEeCC-CHHHHHHhh
Confidence 78888888753 34578899999999988884 58889999995 456555443
No 99
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=89.84 E-value=1.4 Score=30.74 Aligned_cols=63 Identities=13% Similarity=0.043 Sum_probs=47.2
Q ss_pred EcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-C-ceEEE
Q 025774 176 RLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-N-AMISV 245 (248)
Q Consensus 176 Rlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~-~~v~v 245 (248)
+...|+.+.-.|..++||..|-..+... .|.++...+| |-.+. + .+.+.||+++|+. + .+|++
T Consensus 8 ~~~~~~t~~l~v~~~~TV~~lK~kI~~~-~gip~~~QrL---~~G~~--L-~dD~~tL~~ygi~~~g~~~~l 72 (75)
T cd01799 8 AQSHTVTIWLTVRPDMTVAQLKDKVFLD-YGFPPAVQRW---VIGQR--L-ARDQETLYSHGIRTNGDSAFL 72 (75)
T ss_pred cccCCCeEEEEECCCCcHHHHHHHHHHH-HCcCHHHEEE---EcCCe--e-CCCcCCHHHcCCCCCCCEEEE
Confidence 3456778888999999999999999875 4667778888 33332 4 3567999999997 5 55543
No 100
>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=89.83 E-value=2.9 Score=28.67 Aligned_cols=51 Identities=14% Similarity=0.218 Sum_probs=37.6
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhh
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPF 77 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~ 77 (248)
++-+...|++.. ...+..|++..+|.+.+ .|. .++.|..+++++...|..+
T Consensus 31 ~~~~~~vd~~~~--~~~~~~~~v~~vPt~~~----~g~--~~~~G~~~~~~l~~~l~~~ 81 (82)
T TIGR00411 31 AVEVEYINVMEN--PQKAMEYGIMAVPAIVI----NGD--VEFIGAPTKEELVEAIKKR 81 (82)
T ss_pred ceEEEEEeCccC--HHHHHHcCCccCCEEEE----CCE--EEEecCCCHHHHHHHHHhh
Confidence 466777787533 35667899999999875 354 3788999999887777654
No 101
>PRK14018 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional
Probab=89.31 E-value=1.3 Score=42.40 Aligned_cols=43 Identities=14% Similarity=0.211 Sum_probs=36.6
Q ss_pred HHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 32 GKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 32 g~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
...++..|++..+|.++||++ +|.++..+.|.++.++|...|.
T Consensus 128 ~~~lak~fgV~giPTt~IIDk-dGkIV~~~~G~~~~eeL~a~Ie 170 (521)
T PRK14018 128 GGTLAQSLNISVYPSWAIIGK-DGDVQRIVKGSISEAQALALIR 170 (521)
T ss_pred cHHHHHHcCCCCcCeEEEEcC-CCeEEEEEeCCCCHHHHHHHHH
Confidence 346788999999999999996 5999999999999888866655
No 102
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=89.08 E-value=1.2 Score=31.24 Aligned_cols=52 Identities=19% Similarity=0.248 Sum_probs=38.7
Q ss_pred CCCCchHHHHHHHHhhc-CCC-CCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEE
Q 025774 188 LRTDPIQLLWSYCYSQL-EGS-EMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISV 245 (248)
Q Consensus 188 ~~~~~l~~l~~fv~~~~-~~~-~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v 245 (248)
..++||.+|..-|.... ++. ++..++|+.. .+. + +++.||++.|+. +++|.+
T Consensus 18 ~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~--GKi--L--~D~~TL~dygI~~gstlhL 72 (75)
T cd01815 18 PGGYQVSTLKQLIAAQLPDSLPDPELIDLIHC--GRK--L--KDDQTLDFYGIQSGSTIHI 72 (75)
T ss_pred CccCcHHHHHHHHHHhhccCCCChHHeEEEeC--CcC--C--CCCCcHHHcCCCCCCEEEE
Confidence 46899999999998874 233 4778999864 443 5 567999999998 566644
No 103
>PRK13703 conjugal pilus assembly protein TraF; Provisional
Probab=88.71 E-value=1.1 Score=38.80 Aligned_cols=70 Identities=14% Similarity=0.193 Sum_probs=51.3
Q ss_pred HHHHhhc-ceEEEEEecCC---hH------HHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhcC
Q 025774 12 VSQTIST-NFIFWQVYDDT---SE------GKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDGG 81 (248)
Q Consensus 12 v~~~l~~-~fV~w~~d~~~---~e------g~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~~ 81 (248)
|..|-+. +|-+.+++++. ++ ..-.+..+++..+|.+++|.|.++...-.-.|.++.++|+.++......+
T Consensus 165 l~~fa~~yg~~v~~VS~DG~~~p~fp~~~~d~gqa~~l~v~~~PAl~Lv~~~t~~~~pv~~G~iS~deL~~Ri~~v~t~~ 244 (248)
T PRK13703 165 INDFRDTYGLSVIPVSVDGVINPLLPDSRTDQGQAQRLGVKYFPALMLVDPKSGSVRPLSYGFITQDDLAKRFLNVSTDF 244 (248)
T ss_pred HHHHHHHhCCeEEEEecCCCCCCCCCCCccChhHHHhcCCcccceEEEEECCCCcEEEEeeccCCHHHHHHHHHHHHhcc
Confidence 3444443 56666666642 10 11234678899999999999998898888999999999999998876655
No 104
>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=88.66 E-value=1.9 Score=30.89 Aligned_cols=52 Identities=15% Similarity=0.254 Sum_probs=39.6
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
++.+...|...+ ...++..|++..+|++.++.+ +|.....+.|..+.+++..
T Consensus 52 ~~~~~~id~~~~-~~~~~~~~~i~~~P~~~~~~~-~~~~~~~~~g~~~~~~l~~ 103 (105)
T cd02998 52 DVVIAKVDADEA-NKDLAKKYGVSGFPTLKFFPK-GSTEPVKYEGGRDLEDLVK 103 (105)
T ss_pred CEEEEEEECCCc-chhhHHhCCCCCcCEEEEEeC-CCCCccccCCccCHHHHHh
Confidence 588888887653 457788899999999999974 3455666888888777643
No 105
>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=88.66 E-value=3.5 Score=30.00 Aligned_cols=52 Identities=6% Similarity=0.096 Sum_probs=37.6
Q ss_pred eEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhh
Q 025774 20 FIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVP 76 (248)
Q Consensus 20 fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~ 76 (248)
+.+...|.... ..+++.|++.++|++.++. +| .+....|..+.+++..-+..
T Consensus 51 ~~~~~vd~~~~--~~~~~~~~I~~~Pt~~l~~--~~-~~~~~~G~~~~~~l~~~~~~ 102 (104)
T cd03000 51 VRVGKLDATAY--SSIASEFGVRGYPTIKLLK--GD-LAYNYRGPRTKDDIVEFANR 102 (104)
T ss_pred EEEEEEECccC--HhHHhhcCCccccEEEEEc--CC-CceeecCCCCHHHHHHHHHh
Confidence 66667777542 3578899999999999984 34 45668898888877655543
No 106
>PRK13728 conjugal transfer protein TrbB; Provisional
Probab=88.55 E-value=4.1 Score=33.61 Aligned_cols=69 Identities=10% Similarity=0.136 Sum_probs=50.2
Q ss_pred HHHHHhhc-ceEEEEEecCCh-----------HHHHHHHhcCC--CCCceEEEEeCCCCceE-EeeeCCCChHHHHHHHh
Q 025774 11 AVSQTIST-NFIFWQVYDDTS-----------EGKKVCTYYKL--DSIPVVLVVDPITGQKM-RSWCGMVQPESLLEDLV 75 (248)
Q Consensus 11 ~v~~~l~~-~fV~w~~d~~~~-----------eg~~~~~~~~~--~~~P~l~ii~~~~g~~l-~~~~G~~~~e~l~~~L~ 75 (248)
.+.++-++ .|.+++++++.. .+..+...|++ ..+|..+||++. |.++ ....|.++.+++..++.
T Consensus 90 ~L~~l~~~~g~~Vi~Vs~D~~~~~~fPv~~dd~~~~~~~~~g~~~~~iPttfLId~~-G~i~~~~~~G~~~~~~L~~~I~ 168 (181)
T PRK13728 90 VLKQLAQQYGFSVFPYTLDGQGDTAFPEALPAPPDVMQTFFPNIPVATPTTFLVNVN-TLEALPLLQGATDAAGFMARMD 168 (181)
T ss_pred HHHHHHHHcCCEEEEEEeCCCCCCCCceEecCchhHHHHHhCCCCCCCCeEEEEeCC-CcEEEEEEECCCCHHHHHHHHH
Confidence 44555554 688888877632 23456778884 699999999964 6664 67999999999988877
Q ss_pred hhhhc
Q 025774 76 PFMDG 80 (248)
Q Consensus 76 ~~~~~ 80 (248)
..+..
T Consensus 169 ~ll~~ 173 (181)
T PRK13728 169 TVLQM 173 (181)
T ss_pred HHHhh
Confidence 77654
No 107
>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=88.53 E-value=1.5 Score=33.39 Aligned_cols=42 Identities=19% Similarity=0.192 Sum_probs=34.6
Q ss_pred eEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCC
Q 025774 20 FIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMV 65 (248)
Q Consensus 20 fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~ 65 (248)
..|+.+|++.. ..++..|++.+.|+++++- +|..+.+..|..
T Consensus 47 v~f~kVDvD~~--~~la~~~~V~~iPTf~~fk--~G~~v~~~~G~~ 88 (114)
T cd02954 47 AVIYLVDIDEV--PDFNKMYELYDPPTVMFFF--RNKHMKIDLGTG 88 (114)
T ss_pred eEEEEEECCCC--HHHHHHcCCCCCCEEEEEE--CCEEEEEEcCCC
Confidence 46888998754 4789999999999999984 699888888843
No 108
>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=87.71 E-value=2.6 Score=30.83 Aligned_cols=50 Identities=12% Similarity=0.211 Sum_probs=38.1
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
++.+.+.|.+. +-..++..|++..||++.++.+ | .+.++.|..+.+.+.+
T Consensus 49 ~~~~~~vd~~~-~~~~l~~~~~V~~~PT~~lf~~--g-~~~~~~G~~~~~~l~~ 98 (100)
T cd02999 49 QIRHLAIEESS-IKPSLLSRYGVVGFPTILLFNS--T-PRVRYNGTRTLDSLAA 98 (100)
T ss_pred cCceEEEECCC-CCHHHHHhcCCeecCEEEEEcC--C-ceeEecCCCCHHHHHh
Confidence 46677777652 2246889999999999999963 5 6788999988887754
No 109
>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=87.24 E-value=0.73 Score=33.13 Aligned_cols=30 Identities=17% Similarity=0.396 Sum_probs=24.9
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEeeeC
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRSWCG 63 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G 63 (248)
..++..|++..+|.+.|+++. |.++....|
T Consensus 87 ~~~~~~~~~~~~P~~~l~d~~-g~v~~~~~g 116 (116)
T cd02966 87 GELAKAYGVRGLPTTFLIDRD-GRIRARHVG 116 (116)
T ss_pred chHHHhcCcCccceEEEECCC-CcEEEEecC
Confidence 568889999999999999864 888877665
No 110
>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=86.85 E-value=3.6 Score=30.31 Aligned_cols=59 Identities=15% Similarity=0.223 Sum_probs=40.0
Q ss_pred HHHHhhc-ceEEEEEecCChHHHHHHH-hcCCCCCceEEEEeCCCCceEEeeeCC-CChHHHHH
Q 025774 12 VSQTIST-NFIFWQVYDDTSEGKKVCT-YYKLDSIPVVLVVDPITGQKMRSWCGM-VQPESLLE 72 (248)
Q Consensus 12 v~~~l~~-~fV~w~~d~~~~eg~~~~~-~~~~~~~P~l~ii~~~~g~~l~~~~G~-~~~e~l~~ 72 (248)
+.+.+.. ++.+...|.+... ..++. .|++..||++.++.+. +..+..+.|. .+.+.++.
T Consensus 46 la~~~~~~~~~~~~vd~d~~~-~~~~~~~~~v~~~Pti~~f~~~-~~~~~~y~g~~~~~~~l~~ 107 (109)
T cd02993 46 LAEKLAGSNVKVAKFNADGEQ-REFAKEELQLKSFPTILFFPKN-SRQPIKYPSEQRDVDSLLM 107 (109)
T ss_pred HHHHhccCCeEEEEEECCccc-hhhHHhhcCCCcCCEEEEEcCC-CCCceeccCCCCCHHHHHh
Confidence 3334444 5889898887532 34554 6999999999999653 4456668884 57777643
No 111
>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=86.80 E-value=2.6 Score=31.42 Aligned_cols=41 Identities=17% Similarity=0.429 Sum_probs=33.2
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCC
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGM 64 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~ 64 (248)
+..|..+|++.. .+++.|++.++|++.++- +|..+.++.|.
T Consensus 55 ~v~f~~vd~~~~---~l~~~~~i~~~Pt~~~f~--~G~~v~~~~G~ 95 (113)
T cd02957 55 ETKFVKINAEKA---FLVNYLDIKVLPTLLVYK--NGELIDNIVGF 95 (113)
T ss_pred CcEEEEEEchhh---HHHHhcCCCcCCEEEEEE--CCEEEEEEecH
Confidence 456777777644 889999999999998884 58999999884
No 112
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=86.41 E-value=3.3 Score=28.83 Aligned_cols=55 Identities=18% Similarity=0.095 Sum_probs=37.3
Q ss_pred CCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEE
Q 025774 188 LRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVT 246 (248)
Q Consensus 188 ~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~ 246 (248)
..+.||.+|...+......++....+|.-.+..+. + ..+.||.+.|+. +++|.|+
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~--L--~d~~tL~~~gv~~g~~lyvK 75 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKS--L--KDDDTLVDLGVGAGATLYVR 75 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcc--c--CCcccHhhcCCCCCCEEEEe
Confidence 45679999999997764333456666765555543 5 346789999997 4555553
No 113
>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=86.00 E-value=2.7 Score=30.78 Aligned_cols=50 Identities=20% Similarity=0.380 Sum_probs=38.1
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCc-eEEeeeCCCChHHHHH
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQ-KMRSWCGMVQPESLLE 72 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~-~l~~~~G~~~~e~l~~ 72 (248)
++.+...|.+.. ..++..|++.+||++.++- +|. ......|..+.++++.
T Consensus 56 ~~~~~~vd~d~~--~~l~~~~~v~~~Ptl~~~~--~g~~~~~~~~g~~~~~~l~~ 106 (108)
T cd02996 56 KVVWGKVDCDKE--SDIADRYRINKYPTLKLFR--NGMMMKREYRGQRSVEALAE 106 (108)
T ss_pred cEEEEEEECCCC--HHHHHhCCCCcCCEEEEEe--CCcCcceecCCCCCHHHHHh
Confidence 467777888754 3588999999999998883 476 4466888888887754
No 114
>PTZ00443 Thioredoxin domain-containing protein; Provisional
Probab=85.91 E-value=5.5 Score=33.92 Aligned_cols=59 Identities=12% Similarity=0.120 Sum_probs=43.0
Q ss_pred hcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhh
Q 025774 17 STNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 17 ~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
...+.+...|.+. ...++..|++..||++.++. +|..+....|..+.+++..-+.+-+.
T Consensus 82 ~~~v~~~~VD~~~--~~~l~~~~~I~~~PTl~~f~--~G~~v~~~~G~~s~e~L~~fi~~~~~ 140 (224)
T PTZ00443 82 KGQVNVADLDATR--ALNLAKRFAIKGYPTLLLFD--KGKMYQYEGGDRSTEKLAAFALGDFK 140 (224)
T ss_pred CCCeEEEEecCcc--cHHHHHHcCCCcCCEEEEEE--CCEEEEeeCCCCCHHHHHHHHHHHHH
Confidence 3445565566653 35688999999999999986 58877778888888888665555543
No 115
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=84.83 E-value=3.8 Score=37.75 Aligned_cols=74 Identities=16% Similarity=0.230 Sum_probs=52.5
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhc-CCCCCcCeEEEccCCCCc-cccCCCcCCCccccCCc-CceEEEEe
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQL-EGSEMKPFRLTHAIPGAT-KSLDYDSKLTFEDSGLA-NAMISVTW 247 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~-~~~~~~~f~L~~~~Pr~~-~~l~~d~~~tl~d~gl~-~~~v~v~~ 247 (248)
-++||-++|.+ .-.|..+|.+..|..-+...+ .++++.+|.+.++ |... -.+....++|+.|+||. +.++.+.+
T Consensus 2 i~rfRsk~G~~-Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~-p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~y 78 (571)
T COG5100 2 IFRFRSKEGQR-RVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSA-PDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred eEEEecCCCce-eeeccccchhhhhhHHHHhhhccCCCccceEEEeC-CCCCceeeecccccChhhhccccCcEEEEEe
Confidence 37899999974 457889999987766555543 3677899999886 4322 12223578999999998 55566654
No 116
>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=84.75 E-value=3.7 Score=34.42 Aligned_cols=56 Identities=14% Similarity=0.239 Sum_probs=43.8
Q ss_pred EEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceE-EeeeCCCChHHHHHHHhhhhh
Q 025774 22 FWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKM-RSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 22 ~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l-~~~~G~~~~e~l~~~L~~~~~ 79 (248)
+-..+++..+...++..|++..+|+++++. +|..+ .++.|..+.+++...|...+.
T Consensus 56 i~~v~vd~~~~~~l~~~~~V~~~Pt~~~f~--~g~~~~~~~~G~~~~~~l~~~i~~~~~ 112 (215)
T TIGR02187 56 LEIYDFDTPEDKEEAEKYGVERVPTTIILE--EGKDGGIRYTGIPAGYEFAALIEDIVR 112 (215)
T ss_pred EEEEecCCcccHHHHHHcCCCccCEEEEEe--CCeeeEEEEeecCCHHHHHHHHHHHHH
Confidence 445666666788999999999999999985 47776 489998888887666665543
No 117
>PLN02560 enoyl-CoA reductase
Probab=84.57 E-value=6.7 Score=35.09 Aligned_cols=72 Identities=19% Similarity=0.162 Sum_probs=48.7
Q ss_pred EEEEEcCCCceE---EEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEcc----CCCCccccCCCcCCCccccCCc-CceE
Q 025774 172 RVGVRLPDGRRM---QRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHA----IPGATKSLDYDSKLTFEDSGLA-NAMI 243 (248)
Q Consensus 172 ~i~iRlp~G~r~---~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~----~Pr~~~~l~~d~~~tl~d~gl~-~~~v 243 (248)
+|.|+..+|+.+ .-....+.||.+|..-+........+..-+|... =|+.. .+ ++++||+|.|+. .++|
T Consensus 2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~-~L--~d~ktL~d~gv~~gstL 78 (308)
T PLN02560 2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPT-VL--DDSKSLKDYGLGDGGTV 78 (308)
T ss_pred EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCcc-cc--CCCCCHHhcCCCCCceE
Confidence 467787889876 4577889999999999987633224556666532 12221 23 567899999997 4556
Q ss_pred EEE
Q 025774 244 SVT 246 (248)
Q Consensus 244 ~v~ 246 (248)
.|+
T Consensus 79 y~k 81 (308)
T PLN02560 79 VFK 81 (308)
T ss_pred EEE
Confidence 554
No 118
>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=84.18 E-value=3 Score=31.80 Aligned_cols=38 Identities=18% Similarity=0.349 Sum_probs=29.5
Q ss_pred HHHHhcCCCCC---------ceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 34 KVCTYYKLDSI---------PVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 34 ~~~~~~~~~~~---------P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
.++..|++..+ |+..||++ +|.++..+.|..+...+-+
T Consensus 91 ~~~~~~gv~~~~~~~~~~~~p~~~lid~-~G~v~~~~~g~~~~~~~~~ 137 (140)
T cd03017 91 KLAKAYGVWGEKKKKYMGIERSTFLIDP-DGKIVKVWRKVKPKGHAEE 137 (140)
T ss_pred HHHHHhCCccccccccCCcceeEEEECC-CCEEEEEEecCCccchHHH
Confidence 57778888777 89999985 5899999999886555533
No 119
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=84.07 E-value=9.1 Score=31.18 Aligned_cols=70 Identities=20% Similarity=0.121 Sum_probs=48.7
Q ss_pred ceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc
Q 025774 170 LCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA 239 (248)
Q Consensus 170 ~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~ 239 (248)
...|+|.||||+...-++..+.++++|.+-|...+.-....-|.|...-+........+...+|.+..-.
T Consensus 3 ~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~ 72 (207)
T smart00295 3 PRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK 72 (207)
T ss_pred cEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence 3679999999999999999999999999999888643335667776532222110112456677766643
No 120
>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=83.71 E-value=8.6 Score=27.41 Aligned_cols=52 Identities=12% Similarity=0.149 Sum_probs=37.1
Q ss_pred cceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 18 TNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 18 ~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
..+.+...|.+. ...++..|++..+|.+.++.+. ......+.|..+.++++.
T Consensus 49 ~~~~~~~id~~~--~~~~~~~~~i~~~P~~~~~~~~-~~~~~~~~g~~~~~~l~~ 100 (103)
T cd03001 49 GIVKVGAVDADV--HQSLAQQYGVRGFPTIKVFGAG-KNSPQDYQGGRTAKAIVS 100 (103)
T ss_pred CCceEEEEECcc--hHHHHHHCCCCccCEEEEECCC-CcceeecCCCCCHHHHHH
Confidence 355666666653 4467889999999999998642 235666888888887754
No 121
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=83.20 E-value=3.8 Score=30.42 Aligned_cols=56 Identities=13% Similarity=0.010 Sum_probs=41.2
Q ss_pred eeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCceEEEEe
Q 025774 186 NFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMISVTW 247 (248)
Q Consensus 186 ~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v~v~~ 247 (248)
.-+.++||.+|-.-|..++ +..+..-.|... .. .| .|.+.||.+.|+.+.+++.-|
T Consensus 20 ~V~~~~TVg~LK~lImQ~f-~V~P~dQkL~~d--G~--~L-~DDsrTLssyGv~sgSvl~Ll 75 (107)
T cd01795 20 LVSANQTLKELKIQIMHAF-SVAPFDQNLSID--GK--IL-SDDCATLGTLGVIPESVILLK 75 (107)
T ss_pred EeCccccHHHHHHHHHHHh-cCCcccceeeec--Cc--ee-ccCCccHHhcCCCCCCEEEEE
Confidence 3678999999999887765 434555578776 43 37 488999999999976665433
No 122
>KOG0907 consensus Thioredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=82.90 E-value=5.7 Score=29.69 Aligned_cols=51 Identities=14% Similarity=0.287 Sum_probs=41.5
Q ss_pred HHHHHhhc--ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCC
Q 025774 11 AVSQTIST--NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMV 65 (248)
Q Consensus 11 ~v~~~l~~--~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~ 65 (248)
-+.++-.+ +-+|+..|++. ...+++.|++...|++.++ +.|+.+..+.|..
T Consensus 42 ~~~~La~~y~~v~Flkvdvde--~~~~~~~~~V~~~PTf~f~--k~g~~~~~~vGa~ 94 (106)
T KOG0907|consen 42 KFEKLAEKYPDVVFLKVDVDE--LEEVAKEFNVKAMPTFVFY--KGGEEVDEVVGAN 94 (106)
T ss_pred HHHHHHHHCCCCEEEEEeccc--CHhHHHhcCceEeeEEEEE--ECCEEEEEEecCC
Confidence 34444443 58999999987 8999999999999999999 5689888888854
No 123
>PTZ00051 thioredoxin; Provisional
Probab=82.87 E-value=4.7 Score=28.65 Aligned_cols=47 Identities=26% Similarity=0.352 Sum_probs=35.6
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHH
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESL 70 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l 70 (248)
++.|...|.+ +...++..|++..+|++.++ .+|..+.++.|. .++++
T Consensus 49 ~~~~~~vd~~--~~~~~~~~~~v~~~Pt~~~~--~~g~~~~~~~G~-~~~~~ 95 (98)
T PTZ00051 49 KMVFVKVDVD--ELSEVAEKENITSMPTFKVF--KNGSVVDTLLGA-NDEAL 95 (98)
T ss_pred CcEEEEEECc--chHHHHHHCCCceeeEEEEE--eCCeEEEEEeCC-CHHHh
Confidence 4677777765 45678899999999998776 468999999995 44443
No 124
>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=82.41 E-value=9 Score=28.61 Aligned_cols=57 Identities=12% Similarity=0.186 Sum_probs=39.9
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEE--eeeCCCChHHHHHHHhhhhh
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMR--SWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~--~~~G~~~~e~l~~~L~~~~~ 79 (248)
.+-+...|++. ...++..|++.+.|++++... |.... ++.|..+.++|.+.|...+.
T Consensus 53 ~i~~~~vd~d~--~~~l~~~~~v~~vPt~~i~~~--g~~~~~~~~~G~~~~~el~~~i~~i~~ 111 (113)
T cd02975 53 KLKLEIYDFDE--DKEKAEKYGVERVPTTIFLQD--GGKDGGIRYYGLPAGYEFASLIEDIVR 111 (113)
T ss_pred ceEEEEEeCCc--CHHHHHHcCCCcCCEEEEEeC--CeecceEEEEecCchHHHHHHHHHHHh
Confidence 34566677753 457889999999999999863 32211 58898888887776665543
No 125
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=82.38 E-value=15 Score=26.02 Aligned_cols=73 Identities=18% Similarity=0.167 Sum_probs=50.7
Q ss_pred eEEEEEcC-CCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCC-cc--ccCCCcCCCccccCCc-CceEEE
Q 025774 171 CRVGVRLP-DGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGA-TK--SLDYDSKLTFEDSGLA-NAMISV 245 (248)
Q Consensus 171 ~~i~iRlp-~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~-~~--~l~~d~~~tl~d~gl~-~~~v~v 245 (248)
++|.|.-+ ++...+|||..+.||+.|-.=+... .|.++..-+|.- |..+ .. .+ ++.+++|...|+. +..|+|
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~-~G~~~~~mrL~l-~~~~~~~~~~l-~~d~~~L~~y~~~dg~~IhV 78 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELV-VGTPASSMRLQL-FDGDDKLVSKL-DDDDALLGSYPVDDGCRIHV 78 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHH-HCCCccceEEEE-EcCCCCeEeec-CCCccEeeeccCCCCCEEEE
Confidence 34556654 3557899999999999999988765 466677777742 2222 11 13 4778999999998 555665
Q ss_pred E
Q 025774 246 T 246 (248)
Q Consensus 246 ~ 246 (248)
.
T Consensus 79 v 79 (84)
T cd01789 79 I 79 (84)
T ss_pred E
Confidence 3
No 126
>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=81.25 E-value=4.2 Score=32.25 Aligned_cols=49 Identities=12% Similarity=0.252 Sum_probs=30.9
Q ss_pred HHHHHhhcceEEEEE-ecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEe
Q 025774 11 AVSQTISTNFIFWQV-YDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRS 60 (248)
Q Consensus 11 ~v~~~l~~~fV~w~~-d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~ 60 (248)
.+.+|+...=+.|.. ......+..++..|++..+|+++||++. |.++.+
T Consensus 79 ~~~~f~~~~~~~~~~~p~~~~~~~~l~~~y~v~~iPt~vlId~~-G~Vv~~ 128 (146)
T cd03008 79 QQESFLKDMPKKWLFLPFEDEFRRELEAQFSVEELPTVVVLKPD-GDVLAA 128 (146)
T ss_pred HHHHHHHHCCCCceeecccchHHHHHHHHcCCCCCCEEEEECCC-CcEEee
Confidence 355666654222211 1222234478889999999999999975 887654
No 127
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=80.98 E-value=4.2 Score=27.67 Aligned_cols=59 Identities=20% Similarity=0.287 Sum_probs=37.0
Q ss_pred cCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCce
Q 025774 177 LPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAM 242 (248)
Q Consensus 177 lp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~ 242 (248)
.++|.|..-+...+.+|.+|.+=+-.+. +.++..|.|... ++ .+ |.+.++.=+||.|.+
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~-~l~~~~~~L~h~--~k--~l--dlslp~R~snL~n~a 61 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKF-GLDPSSYDLKHN--NK--PL--DLSLPFRLSNLPNNA 61 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHT-T--GGG-EEEET--TE--EE--SSS-BHHHH---SS-
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHc-CCCccceEEEEC--CE--Ee--ccccceeecCCCCCC
Confidence 4789999999999999999998876654 556779999886 33 25 889999999998654
No 128
>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=80.95 E-value=5.2 Score=32.63 Aligned_cols=42 Identities=14% Similarity=0.367 Sum_probs=34.7
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCC
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMV 65 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~ 65 (248)
++.|..+|++.. .++..|++...|+++|+- +|..+.++.|..
T Consensus 114 ~vkF~kVd~d~~---~l~~~f~v~~vPTlllyk--~G~~v~~~vG~~ 155 (175)
T cd02987 114 AVKFCKIRASAT---GASDEFDTDALPALLVYK--GGELIGNFVRVT 155 (175)
T ss_pred CeEEEEEeccch---hhHHhCCCCCCCEEEEEE--CCEEEEEEechH
Confidence 578888888753 789999999999999884 599998888853
No 129
>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=80.81 E-value=8.2 Score=27.45 Aligned_cols=49 Identities=18% Similarity=0.324 Sum_probs=36.7
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCc--eEEeeeCCCChHHHHH
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQ--KMRSWCGMVQPESLLE 72 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~--~l~~~~G~~~~e~l~~ 72 (248)
++.+...|.+.. .++..+++..+|.+.++.+ |. ......|..+.++|+.
T Consensus 52 ~~~~~~id~~~~---~~~~~~~~~~~Pt~~~~~~--~~~~~~~~~~g~~~~~~l~~ 102 (104)
T cd02995 52 NVVIAKMDATAN---DVPSEFVVDGFPTILFFPA--GDKSNPIKYEGDRTLEDLIK 102 (104)
T ss_pred CEEEEEEeCcch---hhhhhccCCCCCEEEEEcC--CCcCCceEccCCcCHHHHHh
Confidence 588888888764 3667788899999999853 43 4566888888777654
No 130
>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=80.59 E-value=7 Score=29.23 Aligned_cols=42 Identities=14% Similarity=0.342 Sum_probs=33.6
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCC
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGM 64 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~ 64 (248)
+..|+..|++.. ..+++.|++...|+++++. +|..+.++.|.
T Consensus 53 ~i~f~~Vd~~~~--~~l~~~~~v~~vPt~l~fk--~G~~v~~~~g~ 94 (113)
T cd02989 53 ETKFIKVNAEKA--PFLVEKLNIKVLPTVILFK--NGKTVDRIVGF 94 (113)
T ss_pred CCEEEEEEcccC--HHHHHHCCCccCCEEEEEE--CCEEEEEEECc
Confidence 467777777553 3688999999999998884 68999888885
No 131
>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=80.46 E-value=11 Score=29.11 Aligned_cols=62 Identities=10% Similarity=0.090 Sum_probs=41.7
Q ss_pred hcc-eEEEEEecCChHHHHHHHhcCCC--CCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhcC
Q 025774 17 STN-FIFWQVYDDTSEGKKVCTYYKLD--SIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDGG 81 (248)
Q Consensus 17 ~~~-fV~w~~d~~~~eg~~~~~~~~~~--~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~~ 81 (248)
+.. +.|--.|.+.... +...+++. .||.++++.+.++ .-....|.++.+.+..-+..+++..
T Consensus 54 kgk~i~Fv~vd~~~~~~--~~~~fgl~~~~~P~v~i~~~~~~-KY~~~~~~~t~e~i~~Fv~~~l~Gk 118 (130)
T cd02983 54 KKKPWGWLWTEAGAQLD--LEEALNIGGFGYPAMVAINFRKM-KFATLKGSFSEDGINEFLRELSYGR 118 (130)
T ss_pred cCCcEEEEEEeCcccHH--HHHHcCCCccCCCEEEEEecccC-ccccccCccCHHHHHHHHHHHHcCC
Confidence 345 4544445544433 88889984 5999999998654 3222778889988877777776653
No 132
>PF02809 UIM: Ubiquitin interaction motif; InterPro: IPR003903 The Ubiquitin Interacting Motif (UIM), or 'LALAL-motif', is a stretch of about 20 amino acid residues, which was first described in the 26S proteasome subunit PSD4/RPN-10 that is known to recognise ubiquitin [,]. In addition, the UIM is found, often in tandem or triplet arrays, in a variety of proteins either involved in ubiquitination and ubiquitin metabolism, or known to interact with ubiquitin-like modifiers. Among the UIM proteins are two different subgroups of the UBP (ubiquitin carboxy-terminal hydrolase) family of deubiquitinating enzymes, one F-box protein, one family of HECT-containing ubiquitin-ligases (E3s) from plants, and several proteins containing ubiquitin-associated UBA and/or UBX domains []. In most of these proteins, the UIM occurs in multiple copies and in association with other domains such as UBA (IPR015940 from INTERPRO), UBX (IPR001012 from INTERPRO), ENTH, EH (IPR000261 from INTERPRO), VHS (IPR002014 from INTERPRO), SH3 (IPR001452 from INTERPRO), HECT (IPR000569 from INTERPRO), VWFA (IPR002035 from INTERPRO), EF-hand calcium-binding, WD-40 (IPR001680 from INTERPRO), F-box (IPR001810 from INTERPRO), LIM (IPR001781 from INTERPRO), protein kinase (IPR000719 from INTERPRO), ankyrin (IPR002110 from INTERPRO), PX (IPR001683 from INTERPRO), phosphatidylinositol 3- and 4-kinase (IPR000403 from INTERPRO), C2 (IPR000008 from INTERPRO), OTU (IPR003323 from INTERPRO), dnaJ (IPR001623 from INTERPRO), RING-finger (IPR001841 from INTERPRO) or FYVE-finger (IPR017455 from INTERPRO). UIMs have been shown to bind ubiquitin and to serve as a specific targeting signal important for monoubiquitination. Thus, UIMs may have several functions in ubiquitin metabolism each of which may require different numbers of UIMs [, , ]. The UIM is unlikely to form an independent folding domain. Instead, based on the spacing of the conserved residues, the motif probably forms a short alpha-helix that can be embedded into different protein folds []. Some proteins known to contain an UIM are listed below: Eukaryotic PSD4/RPN-10/S5, a multi-ubiquitin binding subunit of the 26S proteasome. Vertebrate Machado-Joseph disease protein 1 (Ataxin-3), which acts as a histone-binding protein that regulates transcription; defects in Ataxin-3 cause the neurodegenerative disorder Machado-Joseph disease (MJD). Vertebrate epsin and epsin2. Vertebrate hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). Mammalian epidermal growth factor receptor substrate 15 (EPS15), which is involved in cell growth regulation. Mammalian epidermal growth factor receptor substrate EPS15R. Drosophila melanogaster (Fruit fly) liquid facets (lqf), an epsin. Yeast VPS27 vacuolar sorting protein, which is required for membrane traffic to the vacuole. ; PDB: 2KDE_A 2KDF_A 1YX6_A 1YX5_A 1YX4_A 1P9C_A 1UEL_B 1P9D_S 2KLZ_A.
Probab=80.38 E-value=2.2 Score=21.43 Aligned_cols=16 Identities=44% Similarity=0.551 Sum_probs=13.6
Q ss_pred chHHHHHHHHHHhhHh
Q 025774 111 IENEELLQALAASMET 126 (248)
Q Consensus 111 ~eeee~~~A~~~sl~~ 126 (248)
.+|+++++|++.|++.
T Consensus 2 ~Ed~~L~~Al~~S~~e 17 (18)
T PF02809_consen 2 DEDEDLQRALEMSLEE 17 (18)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHhhhcc
Confidence 5788899999999874
No 133
>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=80.23 E-value=16 Score=27.77 Aligned_cols=61 Identities=10% Similarity=0.293 Sum_probs=40.3
Q ss_pred CHHHHHHhhc-ceEEEEEecCCh---------HHHHHHHhcCCC----CCceEEEEeCCCCceEEeeeCC-CChHHHH
Q 025774 9 NEAVSQTIST-NFIFWQVYDDTS---------EGKKVCTYYKLD----SIPVVLVVDPITGQKMRSWCGM-VQPESLL 71 (248)
Q Consensus 9 ~~~v~~~l~~-~fV~w~~d~~~~---------eg~~~~~~~~~~----~~P~l~ii~~~~g~~l~~~~G~-~~~e~l~ 71 (248)
.|.+.++.++ +.-++..|++.. +-..+...|++. ..|+++++ .+|..+.++.|. .+.++|.
T Consensus 42 ~P~l~~~~~~~~~~~y~vdvd~~~~~~~~~~~~~~~~~~~~~i~~~i~~~PT~v~~--k~Gk~v~~~~G~~~~~~~l~ 117 (122)
T TIGR01295 42 SGTLSGVVAQTKAPIYYIDSENNGSFEMSSLNDLTAFRSRFGIPTSFMGTPTFVHI--TDGKQVSVRCGSSTTAQELQ 117 (122)
T ss_pred hHHHHHHHHhcCCcEEEEECCCccCcCcccHHHHHHHHHHcCCcccCCCCCEEEEE--eCCeEEEEEeCCCCCHHHHH
Confidence 3456666665 344666666532 344566776654 49999988 469999999994 4566663
No 134
>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=79.51 E-value=5.5 Score=28.18 Aligned_cols=44 Identities=20% Similarity=0.383 Sum_probs=28.9
Q ss_pred HHHHHHhhcc---eEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCc
Q 025774 10 EAVSQTISTN---FIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQ 56 (248)
Q Consensus 10 ~~v~~~l~~~---fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~ 56 (248)
+...++++.+ +... ......-..+.+.|++..+|+++||++. |+
T Consensus 48 ~~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~i~~iP~~~lld~~-G~ 94 (95)
T PF13905_consen 48 EEWKKFLKKNNFPWYNV--PFDDDNNSELLKKYGINGIPTLVLLDPD-GK 94 (95)
T ss_dssp HHHHHHHHTCTTSSEEE--ETTTHHHHHHHHHTT-TSSSEEEEEETT-SB
T ss_pred HHHHHHHHhcCCCceEE--eeCcchHHHHHHHCCCCcCCEEEEECCC-CC
Confidence 3556666654 3332 2333445688899999999999999964 54
No 135
>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=79.39 E-value=9.9 Score=30.30 Aligned_cols=47 Identities=21% Similarity=0.277 Sum_probs=35.1
Q ss_pred HHHHhcCCCCCceEEEEeCCCCceEEee------e---CCCChHHHHHHHhhhhhcC
Q 025774 34 KVCTYYKLDSIPVVLVVDPITGQKMRSW------C---GMVQPESLLEDLVPFMDGG 81 (248)
Q Consensus 34 ~~~~~~~~~~~P~l~ii~~~~g~~l~~~------~---G~~~~e~l~~~L~~~~~~~ 81 (248)
.++..|++...|++.||++ +|.++... . +..+.+++...|...+...
T Consensus 100 ~~~~~~~v~~~P~~~lid~-~G~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~ 155 (171)
T cd02969 100 EVAKAYGAACTPDFFLFDP-DGKLVYRGRIDDSRPGNDPPVTGRDLRAALDALLAGK 155 (171)
T ss_pred HHHHHcCCCcCCcEEEECC-CCeEEEeecccCCcccccccccHHHHHHHHHHHHcCC
Confidence 5677888999999999996 57776542 1 2246788988888888765
No 136
>PHA02125 thioredoxin-like protein
Probab=76.36 E-value=6.5 Score=26.95 Aligned_cols=62 Identities=18% Similarity=0.426 Sum_probs=40.2
Q ss_pred cCCC--HHHHHHhhc-ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCC-ChHHHHHHH
Q 025774 6 TWAN--EAVSQTIST-NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMV-QPESLLEDL 74 (248)
Q Consensus 6 vl~~--~~v~~~l~~-~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~-~~e~l~~~L 74 (248)
.||- ..+..++.+ .|.+...|. .+...++..|++.++|++. .|+.+..+.|.. +..+|...|
T Consensus 8 ~wC~~Ck~~~~~l~~~~~~~~~vd~--~~~~~l~~~~~v~~~PT~~-----~g~~~~~~~G~~~~~~~l~~~~ 73 (75)
T PHA02125 8 EWCANCKMVKPMLANVEYTYVDVDT--DEGVELTAKHHIRSLPTLV-----NTSTLDRFTGVPRNVAELKEKL 73 (75)
T ss_pred CCCHhHHHHHHHHHHHhheEEeeeC--CCCHHHHHHcCCceeCeEE-----CCEEEEEEeCCCCcHHHHHHHh
Confidence 3554 244555543 355555554 4456889999999999986 477788888952 335665554
No 137
>COG4232 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]
Probab=76.10 E-value=11 Score=36.51 Aligned_cols=74 Identities=15% Similarity=0.202 Sum_probs=57.1
Q ss_pred cccccCCCHHHHHHhhcceEEEEEecCCh--HHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhh
Q 025774 2 LNRDTWANEAVSQTISTNFIFWQVYDDTS--EGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPF 77 (248)
Q Consensus 2 ~~r~vl~~~~v~~~l~~~fV~w~~d~~~~--eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~ 77 (248)
+.+.|++++.|..- -.++|+.+.|+|.+ +-..+...|++-..|.+.+..+..++... +.|+++.+.|++.|..+
T Consensus 492 ~e~~tfsd~~v~~~-~~~~vlLqaDvT~~~p~~~~lLk~~~~~G~P~~~ff~~~g~e~~~-l~gf~~a~~~~~~l~~~ 567 (569)
T COG4232 492 NEKYTFSDPQVQQA-LQDVVLLQADVTANDPAITALLKRLGVFGVPTYLFFGPQGSEPEI-LTGFLTADAFLEHLERA 567 (569)
T ss_pred hhhhccCcHHHHHh-cCCeEEEEeeecCCCHHHHHHHHHcCCCCCCEEEEECCCCCcCcC-CcceecHHHHHHHHHHh
Confidence 45677776655433 35899999999854 45567789999999999999876555444 99999999998888764
No 138
>smart00726 UIM Ubiquitin-interacting motif. Present in proteasome subunit S5a and other ubiquitin-associated proteins.
Probab=75.62 E-value=3.1 Score=22.96 Aligned_cols=18 Identities=33% Similarity=0.516 Sum_probs=15.0
Q ss_pred hHHHHHHHHHHhhHhhhc
Q 025774 112 ENEELLQALAASMETIKD 129 (248)
Q Consensus 112 eeee~~~A~~~sl~~~~~ 129 (248)
+|+++++|++.|++....
T Consensus 2 EDe~Lq~Ai~lSl~e~e~ 19 (26)
T smart00726 2 EDEDLQLALELSLQEAEE 19 (26)
T ss_pred hHHHHHHHHHHhHHHhhh
Confidence 678899999999987643
No 139
>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=75.60 E-value=9 Score=31.64 Aligned_cols=43 Identities=19% Similarity=0.261 Sum_probs=33.4
Q ss_pred HHHHhcCCCCCceE-EEEeCCCCceEEeeeCCCChHHHHHHHhhhh
Q 025774 34 KVCTYYKLDSIPVV-LVVDPITGQKMRSWCGMVQPESLLEDLVPFM 78 (248)
Q Consensus 34 ~~~~~~~~~~~P~l-~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~ 78 (248)
.++..|++..+|.- +||+ +.|.++.+..|.++.+++-. +...+
T Consensus 136 ~v~~~~gv~~~P~T~fVID-k~GkVv~~~~G~l~~ee~e~-~~~li 179 (184)
T TIGR01626 136 AVKNAWQLNSEDSAIIVLD-KTGKVKFVKEGALSDSDIQT-VISLV 179 (184)
T ss_pred hHHHhcCCCCCCceEEEEC-CCCcEEEEEeCCCCHHHHHH-HHHHH
Confidence 45668899999887 7898 56999999999998887744 44433
No 140
>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=75.21 E-value=16 Score=29.13 Aligned_cols=41 Identities=12% Similarity=0.284 Sum_probs=33.1
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCC------CceEEEEeCCCCceEEeeeC
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDS------IPVVLVVDPITGQKMRSWCG 63 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~------~P~l~ii~~~~g~~l~~~~G 63 (248)
++.|...|++... .+++.|++.+ +|++.+.. +|+.+.++.|
T Consensus 80 ~v~f~~VDvd~~~--~la~~~~V~~~~~v~~~PT~ilf~--~Gk~v~r~~G 126 (152)
T cd02962 80 NLKFGKIDIGRFP--NVAEKFRVSTSPLSKQLPTIILFQ--GGKEVARRPY 126 (152)
T ss_pred CeEEEEEECCCCH--HHHHHcCceecCCcCCCCEEEEEE--CCEEEEEEec
Confidence 4888999986553 6788888877 99998884 6899989886
No 141
>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=74.66 E-value=3.8 Score=31.64 Aligned_cols=34 Identities=15% Similarity=0.269 Sum_probs=27.6
Q ss_pred HHHHHHhcCCC---------CCceEEEEeCCCCceEEeeeCCCC
Q 025774 32 GKKVCTYYKLD---------SIPVVLVVDPITGQKMRSWCGMVQ 66 (248)
Q Consensus 32 g~~~~~~~~~~---------~~P~l~ii~~~~g~~l~~~~G~~~ 66 (248)
...++..|++. .+|.++||+ .+|.++....|...
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~P~~~lId-~~G~V~~~~~g~~~ 136 (146)
T PF08534_consen 94 DGALAKALGVTIMEDPGNGFGIPTTFLID-KDGKVVYRHVGPDP 136 (146)
T ss_dssp TSHHHHHTTCEEECCTTTTSSSSEEEEEE-TTSBEEEEEESSBT
T ss_pred HHHHHHHhCCccccccccCCeecEEEEEE-CCCEEEEEEeCCCC
Confidence 34677778887 999999999 46999998888665
No 142
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=74.12 E-value=7.7 Score=27.99 Aligned_cols=34 Identities=9% Similarity=0.201 Sum_probs=31.3
Q ss_pred eEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhc
Q 025774 171 CRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQL 204 (248)
Q Consensus 171 ~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~ 204 (248)
+.|+|=||||.++.-+-..+++-..||+-+...+
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl 35 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKA 35 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHh
Confidence 4689999999999999999999999999998875
No 143
>PLN02919 haloacid dehalogenase-like hydrolase family protein
Probab=73.28 E-value=9.4 Score=39.99 Aligned_cols=47 Identities=17% Similarity=0.161 Sum_probs=39.9
Q ss_pred HHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhcC
Q 025774 34 KVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDGG 81 (248)
Q Consensus 34 ~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~~ 81 (248)
.+...|++..+|+++||++ +|.++.++.|....+++...|...+..|
T Consensus 493 ~~~~~~~V~~iPt~ilid~-~G~iv~~~~G~~~~~~l~~~l~~~l~~~ 539 (1057)
T PLN02919 493 YLWRELGVSSWPTFAVVSP-NGKLIAQLSGEGHRKDLDDLVEAALQYY 539 (1057)
T ss_pred HHHHhcCCCccceEEEECC-CCeEEEEEecccCHHHHHHHHHHHHHhh
Confidence 5667889999999999995 5999999999998888888888777755
No 144
>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=71.67 E-value=8.4 Score=29.00 Aligned_cols=29 Identities=24% Similarity=0.401 Sum_probs=23.4
Q ss_pred HHHHhcCCCCCceEEEEeCCCCceEEeeeC
Q 025774 34 KVCTYYKLDSIPVVLVVDPITGQKMRSWCG 63 (248)
Q Consensus 34 ~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G 63 (248)
.++..|++..+|..+||++ +|.++.+..|
T Consensus 96 ~~~~~~~v~~~P~~~vid~-~G~v~~~~~G 124 (126)
T cd03012 96 ATWRAYGNQYWPALYLIDP-TGNVRHVHFG 124 (126)
T ss_pred HHHHHhCCCcCCeEEEECC-CCcEEEEEec
Confidence 4566788899999999985 4888888776
No 145
>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=70.73 E-value=22 Score=27.08 Aligned_cols=55 Identities=24% Similarity=0.326 Sum_probs=40.3
Q ss_pred ceEEEEEecCC---hHHHHHHHhcCCC--CCceEEEEeCCCCc--eEEeeeCC-CChHHHHHHHh
Q 025774 19 NFIFWQVYDDT---SEGKKVCTYYKLD--SIPVVLVVDPITGQ--KMRSWCGM-VQPESLLEDLV 75 (248)
Q Consensus 19 ~fV~w~~d~~~---~eg~~~~~~~~~~--~~P~l~ii~~~~g~--~l~~~~G~-~~~e~l~~~L~ 75 (248)
..++=..|.+. .+-..++..|++. .||.|.+.. +|. ......|. .+.+.|+.-+.
T Consensus 51 ~v~lakVd~~d~~~~~~~~L~~~y~I~~~gyPTl~lF~--~g~~~~~~~Y~G~~r~~~~lv~~v~ 113 (116)
T cd03007 51 DLLVAEVGIKDYGEKLNMELGERYKLDKESYPVIYLFH--GGDFENPVPYSGADVTVDALQRFLK 113 (116)
T ss_pred ceEEEEEecccccchhhHHHHHHhCCCcCCCCEEEEEe--CCCcCCCccCCCCcccHHHHHHHHH
Confidence 47777888853 3347899999999 999999885 343 33467886 88888876543
No 146
>PTZ00062 glutaredoxin; Provisional
Probab=70.55 E-value=17 Score=30.50 Aligned_cols=46 Identities=15% Similarity=0.107 Sum_probs=33.6
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhh
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPF 77 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~ 77 (248)
++.|...+.+ |++.+.|+++++ ++|..+.++.|. ++.++...+...
T Consensus 48 ~~~F~~V~~d----------~~V~~vPtfv~~--~~g~~i~r~~G~-~~~~~~~~~~~~ 93 (204)
T PTZ00062 48 SLEFYVVNLA----------DANNEYGVFEFY--QNSQLINSLEGC-NTSTLVSFIRGW 93 (204)
T ss_pred CcEEEEEccc----------cCcccceEEEEE--ECCEEEeeeeCC-CHHHHHHHHHHH
Confidence 4566666554 889999999998 468999999985 366665555443
No 147
>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=70.44 E-value=11 Score=28.26 Aligned_cols=41 Identities=7% Similarity=0.189 Sum_probs=30.5
Q ss_pred EEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCC
Q 025774 24 QVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQ 66 (248)
Q Consensus 24 ~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~ 66 (248)
.+-+.......+...|++..+|.++++ +.|..+..++|.-+
T Consensus 63 ~avv~~~~e~~L~~r~gv~~~PaLvf~--R~g~~lG~i~gi~d 103 (107)
T PF07449_consen 63 GAVVARAAERALAARFGVRRWPALVFF--RDGRYLGAIEGIRD 103 (107)
T ss_dssp EEEEEHHHHHHHHHHHT-TSSSEEEEE--ETTEEEEEEESSST
T ss_pred eEEECchhHHHHHHHhCCccCCeEEEE--ECCEEEEEecCeec
Confidence 333334556678899999999999998 56999999998644
No 148
>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=70.04 E-value=15 Score=27.96 Aligned_cols=26 Identities=23% Similarity=0.580 Sum_probs=20.8
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEE
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMR 59 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~ 59 (248)
..+++.|++..+|++.||++ +|.++.
T Consensus 89 ~~~~~~~~v~~iPt~~lid~-~G~iv~ 114 (132)
T cd02964 89 ELLEKQFKVEGIPTLVVLKP-DGDVVT 114 (132)
T ss_pred HHHHHHcCCCCCCEEEEECC-CCCEEc
Confidence 45677899999999999985 577654
No 149
>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=70.04 E-value=14 Score=27.88 Aligned_cols=27 Identities=19% Similarity=0.624 Sum_probs=21.4
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEe
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRS 60 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~ 60 (248)
..++..|++..+|++.||++ +|.++.+
T Consensus 89 ~~~~~~~~v~~~P~~~lid~-~G~i~~~ 115 (131)
T cd03009 89 SRLNRTFKIEGIPTLIILDA-DGEVVTT 115 (131)
T ss_pred HHHHHHcCCCCCCEEEEECC-CCCEEcc
Confidence 46778899999999999985 4776543
No 150
>KOG0908 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=69.86 E-value=20 Score=31.15 Aligned_cols=70 Identities=16% Similarity=0.317 Sum_probs=50.8
Q ss_pred ccCCCH------HHHHHhhc--ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhh
Q 025774 5 DTWANE------AVSQTIST--NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVP 76 (248)
Q Consensus 5 ~vl~~~------~v~~~l~~--~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~ 76 (248)
..||-+ .+.++-+. .+||...|+ .+|...|..|++...|+.++. ++|..+..++|. ++.-|-+++..
T Consensus 30 a~wCGPCk~IaP~Fs~lankYp~aVFlkVdV--d~c~~taa~~gV~amPTFiff--~ng~kid~~qGA-d~~gLe~kv~~ 104 (288)
T KOG0908|consen 30 ASWCGPCKRIAPIFSDLANKYPGAVFLKVDV--DECRGTAATNGVNAMPTFIFF--RNGVKIDQIQGA-DASGLEEKVAK 104 (288)
T ss_pred ecccchHHhhhhHHHHhhhhCcccEEEEEeH--HHhhchhhhcCcccCceEEEE--ecCeEeeeecCC-CHHHHHHHHHH
Confidence 356654 34444443 689999999 689999999999999998877 578999999994 44444444444
Q ss_pred hhh
Q 025774 77 FMD 79 (248)
Q Consensus 77 ~~~ 79 (248)
.++
T Consensus 105 ~~s 107 (288)
T KOG0908|consen 105 YAS 107 (288)
T ss_pred Hhc
Confidence 444
No 151
>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=69.08 E-value=26 Score=32.24 Aligned_cols=56 Identities=11% Similarity=0.249 Sum_probs=43.0
Q ss_pred eEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCce-EEeeeCCCChHHHHHHHhhhhh
Q 025774 20 FIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQK-MRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 20 fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~-l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
+.|...|.+.. ..++..|++..||++.++. .|.. +....|..+.+.+..-+...+.
T Consensus 54 v~~~~vd~~~~--~~l~~~~~i~~~Pt~~~~~--~g~~~~~~~~g~~~~~~l~~~i~~~~~ 110 (462)
T TIGR01130 54 IKLAKVDATEE--KDLAQKYGVSGYPTLKIFR--NGEDSVSDYNGPRDADGIVKYMKKQSG 110 (462)
T ss_pred eEEEEEECCCc--HHHHHhCCCccccEEEEEe--CCccceeEecCCCCHHHHHHHHHHhcC
Confidence 67777777543 5789999999999998884 4666 7888999888887766666544
No 152
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=68.83 E-value=19 Score=28.06 Aligned_cols=30 Identities=7% Similarity=0.200 Sum_probs=19.7
Q ss_pred ceEEEEeCCCCceEEeeeCCCChHHHHHHHhh
Q 025774 45 PVVLVVDPITGQKMRSWCGMVQPESLLEDLVP 76 (248)
Q Consensus 45 P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~ 76 (248)
|+..||++ +|.++..+.|....+. +..+..
T Consensus 121 ~~~~lid~-~G~i~~~~~g~~~~~~-~~~~~~ 150 (154)
T PRK09437 121 RISFLIDA-DGKIEHVFDKFKTSNH-HDVVLD 150 (154)
T ss_pred eEEEEECC-CCEEEEEEcCCCcchh-HHHHHH
Confidence 67778885 4888888988655443 333333
No 153
>PTZ00056 glutathione peroxidase; Provisional
Probab=68.73 E-value=33 Score=28.40 Aligned_cols=34 Identities=12% Similarity=0.222 Sum_probs=26.0
Q ss_pred eEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhc
Q 025774 46 VVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDG 80 (248)
Q Consensus 46 ~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~ 80 (248)
..+||+ ++|.++.+..|..+++++...|...+..
T Consensus 147 ~tflID-~~G~iv~~~~g~~~~~~l~~~I~~ll~~ 180 (199)
T PTZ00056 147 GKFLVN-KSGNVVAYFSPRTEPLELEKKIAELLGV 180 (199)
T ss_pred EEEEEC-CCCcEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 356777 5688899999988888887777776653
No 154
>PLN02412 probable glutathione peroxidase
Probab=68.04 E-value=13 Score=29.85 Aligned_cols=37 Identities=11% Similarity=0.217 Sum_probs=30.2
Q ss_pred CCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhh
Q 025774 42 DSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 42 ~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
...|+..||++ .|.+++++.|.++++++...+...++
T Consensus 129 ~~~p~tflId~-~G~vv~~~~g~~~~~~l~~~i~~~l~ 165 (167)
T PLN02412 129 KWNFTKFLVSK-EGKVVQRYAPTTSPLKIEKDIQNLLG 165 (167)
T ss_pred CCCCeeEEECC-CCcEEEEECCCCCHHHHHHHHHHHHh
Confidence 34688889985 59999999999999988777777664
No 155
>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=65.88 E-value=30 Score=27.33 Aligned_cols=53 Identities=23% Similarity=0.387 Sum_probs=35.9
Q ss_pred cceEEEEEecCChHHHHHHHhcCCC--CCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 18 TNFIFWQVYDDTSEGKKVCTYYKLD--SIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 18 ~~fV~w~~d~~~~eg~~~~~~~~~~--~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
.+++|--.|.+ ...+++..|+++ .+|.++|+.+.++..-....|.++++.+..
T Consensus 126 ~~~~f~~~d~~--~~~~~~~~~~i~~~~~P~~vi~~~~~~~~~~~~~~~~~~~~i~~ 180 (184)
T PF13848_consen 126 GKINFVYVDAD--DFPRLLKYFGIDEDDLPALVIFDSNKGKYYYLPEGEITPESIEK 180 (184)
T ss_dssp TTSEEEEEETT--TTHHHHHHTTTTTSSSSEEEEEETTTSEEEE--SSCGCHHHHHH
T ss_pred CeEEEEEeehH--HhHHHHHHcCCCCccCCEEEEEECCCCcEEcCCCCCCCHHHHHH
Confidence 35566656665 334577788886 899999999877763222378888877644
No 156
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=64.10 E-value=24 Score=31.80 Aligned_cols=69 Identities=12% Similarity=0.108 Sum_probs=52.4
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcC-CCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEE
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLE-GSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVT 246 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~-~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~ 246 (248)
+|-||.-.|..++-++..+++|.+|..=|.+.-. +|+...-.|+.+ ++. | .+++|+.+.++. ++-|+|+
T Consensus 2 ~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~--Gki--L--~D~~tv~Eykv~E~~fiVvM 72 (340)
T KOG0011|consen 2 KLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYS--GKI--L--KDETTVGEYKVKEKKFIVVM 72 (340)
T ss_pred eeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeec--cee--c--cCCcchhhhccccCceEEEE
Confidence 5778999999999999999999999999987531 255555566654 443 5 568999999998 5555543
No 157
>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=63.69 E-value=4.4 Score=31.81 Aligned_cols=25 Identities=24% Similarity=0.473 Sum_probs=20.7
Q ss_pred eEEEEeCCCCceEEeeeCCCChHHHH
Q 025774 46 VVLVVDPITGQKMRSWCGMVQPESLL 71 (248)
Q Consensus 46 ~l~ii~~~~g~~l~~~~G~~~~e~l~ 71 (248)
..+||++ +|.+++++.|.++++++.
T Consensus 125 ttflId~-~G~i~~~~~G~~~~~~l~ 149 (152)
T cd00340 125 TKFLVDR-DGEVVKRFAPTTDPEELE 149 (152)
T ss_pred EEEEECC-CCcEEEEECCCCCHHHHH
Confidence 6888884 699999999999888764
No 158
>cd03072 PDI_b'_ERp44 PDIb' family, ERp44 subfamily, second redox inactive TRX-like domain b'; ERp44 is an endoplasmic reticulum (ER)-resident protein, induced during stress, involved in thiol-mediated ER retention. It contains an N-terminal TRX domain with a CXFS motif followed by two redox inactive TRX-like domains, homologous to the b and b' domains of PDI. Through the formation of reversible mixed disulfides, 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. ERp44 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. Similar to PDI, the b' domain of ERp44 is likely involved in substrate recognition and may be the primary binding site.
Probab=62.03 E-value=31 Score=25.73 Aligned_cols=62 Identities=10% Similarity=0.018 Sum_probs=38.4
Q ss_pred hhcceEEEEEecCChHHHHHHHhcCCCC--CceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhh
Q 025774 16 ISTNFIFWQVYDDTSEGKKVCTYYKLDS--IPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 16 l~~~fV~w~~d~~~~eg~~~~~~~~~~~--~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
.+.++.|--+|.+.... ++..++++. +|.++|++..++..-.-..+.++++.+..-+..+++
T Consensus 46 ~kgki~Fv~~d~~~~~~--~~~~fgl~~~~~P~i~i~~~~~~~Ky~~~~~~~t~~~i~~Fv~~~~~ 109 (111)
T cd03072 46 EKGAINFLTADGDKFRH--PLLHLGKTPADLPVIAIDSFRHMYLFPDFEDVYVPGKLKQFVLDLHS 109 (111)
T ss_pred cCceEEEEEEechHhhh--HHHHcCCCHhHCCEEEEEcchhcCcCCCCccccCHHHHHHHHHHHhc
Confidence 33456666666654443 888888865 999999986432221114566777777555555543
No 159
>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=61.92 E-value=36 Score=26.50 Aligned_cols=35 Identities=20% Similarity=0.401 Sum_probs=28.0
Q ss_pred CCCce----EEEEeCCCCceEEeeeCCCChHHHHHHHhhh
Q 025774 42 DSIPV----VLVVDPITGQKMRSWCGMVQPESLLEDLVPF 77 (248)
Q Consensus 42 ~~~P~----l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~ 77 (248)
..+|. ..||++ +|.++.++.|.++++++...|...
T Consensus 114 ~~~p~~~~~tflID~-~G~v~~~~~g~~~~~~l~~~i~~l 152 (153)
T TIGR02540 114 KKEPRWNFWKYLVNP-EGQVVKFWRPEEPVEEIRPEITAL 152 (153)
T ss_pred CCCCCCccEEEEEcC-CCcEEEEECCCCCHHHHHHHHHHh
Confidence 35786 888984 699999999999999887776543
No 160
>PTZ00102 disulphide isomerase; Provisional
Probab=59.19 E-value=39 Score=31.50 Aligned_cols=56 Identities=7% Similarity=0.225 Sum_probs=43.2
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhh
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
++++...|.+. ...++..|++..||++.++.. |..+ ...|..+++.|+.-+...+.
T Consensus 84 ~i~~~~vd~~~--~~~l~~~~~i~~~Pt~~~~~~--g~~~-~y~g~~~~~~l~~~l~~~~~ 139 (477)
T PTZ00102 84 EIVLASVDATE--EMELAQEFGVRGYPTIKFFNK--GNPV-NYSGGRTADGIVSWIKKLTG 139 (477)
T ss_pred cEEEEEEECCC--CHHHHHhcCCCcccEEEEEEC--CceE-EecCCCCHHHHHHHHHHhhC
Confidence 47777777753 346889999999999999863 5555 78899999988877776654
No 161
>KOG0912 consensus Thiol-disulfide isomerase and thioredoxin [Posttranslational modification, protein turnover, chaperones; Energy production and conversion]
Probab=58.62 E-value=18 Score=32.48 Aligned_cols=56 Identities=21% Similarity=0.394 Sum_probs=40.1
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEe-eeCCCChHHHHHHHhhh
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRS-WCGMVQPESLLEDLVPF 77 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~-~~G~~~~e~l~~~L~~~ 77 (248)
+=|+|+---...+ --+++.|.+..||++=|+ ++|.++.+ ..|.-+++.|++-+..-
T Consensus 49 ~kvvwg~VDcd~e-~~ia~ky~I~KyPTlKvf--rnG~~~~rEYRg~RsVeaL~efi~kq 105 (375)
T KOG0912|consen 49 GKVVWGKVDCDKE-DDIADKYHINKYPTLKVF--RNGEMMKREYRGQRSVEALIEFIEKQ 105 (375)
T ss_pred cceEEEEcccchh-hHHhhhhccccCceeeee--eccchhhhhhccchhHHHHHHHHHHH
Confidence 5677875433333 347899999999999998 67998874 88888877765544433
No 162
>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=58.23 E-value=43 Score=27.68 Aligned_cols=38 Identities=18% Similarity=0.408 Sum_probs=28.9
Q ss_pred eEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCC
Q 025774 20 FIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGM 64 (248)
Q Consensus 20 fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~ 64 (248)
..|..++++. .+..|++...|+++|+ .+|..+.++.|+
T Consensus 134 vkFvkI~ad~-----~~~~~~i~~lPTlliy--k~G~~v~~ivG~ 171 (192)
T cd02988 134 TKFVKIISTQ-----CIPNYPDKNLPTILVY--RNGDIVKQFIGL 171 (192)
T ss_pred CEEEEEEhHH-----hHhhCCCCCCCEEEEE--ECCEEEEEEeCc
Confidence 4556666642 2578999999999998 469999888884
No 163
>PRK15000 peroxidase; Provisional
Probab=58.08 E-value=43 Score=27.79 Aligned_cols=41 Identities=10% Similarity=0.186 Sum_probs=27.7
Q ss_pred HHHHhcCCC------CCceEEEEeCCCCceEEeeeCCC----ChHHHHHHHh
Q 025774 34 KVCTYYKLD------SIPVVLVVDPITGQKMRSWCGMV----QPESLLEDLV 75 (248)
Q Consensus 34 ~~~~~~~~~------~~P~l~ii~~~~g~~l~~~~G~~----~~e~l~~~L~ 75 (248)
.+++.|++. .+|..+||+|. |.+.....|.. ..++++..|.
T Consensus 109 ~ia~~ygv~~~~~g~~~r~tfiID~~-G~I~~~~~~~~~~gr~~~eilr~l~ 159 (200)
T PRK15000 109 EIQKAYGIEHPDEGVALRGSFLIDAN-GIVRHQVVNDLPLGRNIDEMLRMVD 159 (200)
T ss_pred HHHHHcCCccCCCCcEEeEEEEECCC-CEEEEEEecCCCCCCCHHHHHHHHH
Confidence 455567765 68999999975 88777766644 4456665554
No 164
>PLN02399 phospholipid hydroperoxide glutathione peroxidase
Probab=57.18 E-value=22 Score=30.48 Aligned_cols=35 Identities=14% Similarity=0.200 Sum_probs=28.7
Q ss_pred CCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhh
Q 025774 43 SIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFM 78 (248)
Q Consensus 43 ~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~ 78 (248)
..|...||++ .|.++.++.|.++++++...|...+
T Consensus 200 ~~PttfLIDk-~GkVv~~~~G~~~~~~le~~I~~lL 234 (236)
T PLN02399 200 WNFEKFLVDK-NGKVVERYPPTTSPFQIEKDIQKLL 234 (236)
T ss_pred cCceEEEECC-CCcEEEEECCCCCHHHHHHHHHHHh
Confidence 3588999995 6999999999999988877776655
No 165
>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=56.96 E-value=37 Score=27.69 Aligned_cols=45 Identities=18% Similarity=0.331 Sum_probs=29.4
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhc
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDG 80 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~ 80 (248)
..++..|++...|+.+||++ +|.++.+ |.+...+-++.+...++.
T Consensus 136 ~~i~~~y~v~~~P~~~lID~-~G~I~~~--g~~~~~~~le~ll~~l~~ 180 (189)
T TIGR02661 136 AEIGMAFQVGKIPYGVLLDQ-DGKIRAK--GLTNTREHLESLLEADRE 180 (189)
T ss_pred hHHHHhccCCccceEEEECC-CCeEEEc--cCCCCHHHHHHHHHHHHc
Confidence 35677899999999999995 4877654 554443334444444443
No 166
>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=56.78 E-value=8.9 Score=28.92 Aligned_cols=57 Identities=23% Similarity=0.351 Sum_probs=34.8
Q ss_pred hhcceEEEEEecCChHHHHHHHhcCCCC--CceEEEEeCCCCceEEeee---CCCChHHHHHHHhh
Q 025774 16 ISTNFIFWQVYDDTSEGKKVCTYYKLDS--IPVVLVVDPITGQKMRSWC---GMVQPESLLEDLVP 76 (248)
Q Consensus 16 l~~~fV~w~~d~~~~eg~~~~~~~~~~~--~P~l~ii~~~~g~~l~~~~---G~~~~e~l~~~L~~ 76 (248)
++.+||....+.+.. . ....|++.. +|+++++++ +|.++.++. |....+.|.+.|..
T Consensus 50 ~~~~fv~v~vd~~~~-~--~~~~~~~~g~~vPt~~f~~~-~Gk~~~~~~~~~~~~~~~~f~~~~~~ 111 (117)
T cd02959 50 LSHNFVMVNLEDDEE-P--KDEEFSPDGGYIPRILFLDP-SGDVHPEIINKKGNPNYKYFYSSAAQ 111 (117)
T ss_pred hcCcEEEEEecCCCC-c--hhhhcccCCCccceEEEECC-CCCCchhhccCCCCccccccCCCHHH
Confidence 456888876665432 1 234677754 999999986 488766444 44455555444433
No 167
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=55.48 E-value=30 Score=23.16 Aligned_cols=66 Identities=18% Similarity=0.225 Sum_probs=51.1
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCceEE
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMIS 244 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v~ 244 (248)
.|.+++-.|+.+.--...+|++..+-+-|+.. +|.++..-+|+.+ .+. . ++++|-++.++..++|+
T Consensus 2 ~iKvktLt~KeIeidIep~DkverIKErvEEk-eGIPp~qqrli~~--gkq--m--~DD~tA~~Y~~~~GSVl 67 (70)
T KOG0005|consen 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEK-EGIPPQQQRLIYA--GKQ--M--NDDKTAAHYNLLGGSVL 67 (70)
T ss_pred eeeEeeeccceEEEeeCcchHHHHHHHHhhhh-cCCCchhhhhhhc--ccc--c--cccccHHHhhhccceeE
Confidence 46788889999999999999999999999886 4666666777543 332 3 56889999998865554
No 168
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=55.11 E-value=39 Score=32.12 Aligned_cols=70 Identities=20% Similarity=0.290 Sum_probs=52.4
Q ss_pred CceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc-CceEEEE
Q 025774 169 LLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA-NAMISVT 246 (248)
Q Consensus 169 ~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~-~~~v~v~ 246 (248)
..++|.||.|++ +..-.-..+.+|..+-+-|.... +...+.-.|+.. .|. | .++.||...|+. +-+|.++
T Consensus 14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f-~a~~dqlvLIfa--GrI--L--KD~dTL~~~gI~Dg~TvHLV 84 (493)
T KOG0010|consen 14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRF-GAPPDQLVLIYA--GRI--L--KDDDTLKQYGIQDGHTVHLV 84 (493)
T ss_pred ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhc-CCChhHeeeeec--Ccc--c--cChhhHHHcCCCCCcEEEEE
Confidence 468999999999 55566667888999988887754 456777777654 554 6 468899999998 6667544
No 169
>PTZ00102 disulphide isomerase; Provisional
Probab=55.02 E-value=40 Score=31.43 Aligned_cols=58 Identities=14% Similarity=0.162 Sum_probs=42.1
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhh
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
++++...|.+..+ ..+..|++..||++.++.+ ++....++.|..+.+.+...|.....
T Consensus 409 ~v~~~~id~~~~~--~~~~~~~v~~~Pt~~~~~~-~~~~~~~~~G~~~~~~l~~~i~~~~~ 466 (477)
T PTZ00102 409 SIIVAKMNGTANE--TPLEEFSWSAFPTILFVKA-GERTPIPYEGERTVEGFKEFVNKHAT 466 (477)
T ss_pred cEEEEEEECCCCc--cchhcCCCcccCeEEEEEC-CCcceeEecCcCCHHHHHHHHHHcCC
Confidence 4777777876544 3467889999999999964 34445578999999988666665543
No 170
>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=54.44 E-value=83 Score=23.25 Aligned_cols=33 Identities=15% Similarity=0.225 Sum_probs=25.7
Q ss_pred eEEEEEecCChHHHHHHHhcCCCCCceEEEEeC
Q 025774 20 FIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDP 52 (248)
Q Consensus 20 fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~ 52 (248)
+.|-.+|........+++.|++..||.+.++.+
T Consensus 55 v~~~~vd~~~~~~~~~~~~~~i~~~Pt~~lf~~ 87 (114)
T cd02992 55 VRVAAVDCADEENVALCRDFGVTGYPTLRYFPP 87 (114)
T ss_pred eEEEEEeccchhhHHHHHhCCCCCCCEEEEECC
Confidence 555566665556678899999999999999964
No 171
>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=53.05 E-value=66 Score=30.56 Aligned_cols=54 Identities=13% Similarity=0.095 Sum_probs=35.8
Q ss_pred eEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeee-CCCChHHHHHHH
Q 025774 20 FIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWC-GMVQPESLLEDL 74 (248)
Q Consensus 20 fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~-G~~~~e~l~~~L 74 (248)
+.|...|++..+-...+..|++..||++.++... +....... |.-+++.|+.-+
T Consensus 405 v~~~kVdvD~~~~~~~~~~~~I~~~PTii~Fk~g-~~~~~~Y~~g~R~~e~L~~Fv 459 (463)
T TIGR00424 405 VKVAKFRADGDQKEFAKQELQLGSFPTILFFPKH-SSRPIKYPSEKRDVDSLMSFV 459 (463)
T ss_pred cEEEEEECCCCccHHHHHHcCCCccceEEEEECC-CCCceeCCCCCCCHHHHHHHH
Confidence 6677788875443344578999999999998643 22233454 567888775544
No 172
>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=52.83 E-value=43 Score=30.83 Aligned_cols=61 Identities=7% Similarity=0.164 Sum_probs=40.9
Q ss_pred HHHHhhc---ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCc-eEEeeeCCCChHHHHHHHhhh
Q 025774 12 VSQTIST---NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQ-KMRSWCGMVQPESLLEDLVPF 77 (248)
Q Consensus 12 v~~~l~~---~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~-~l~~~~G~~~~e~l~~~L~~~ 77 (248)
+.+.++. ++.|..+|++..+.. . |++..+|++.+.. .++. ......|..+.+.++..|...
T Consensus 389 ~~~~~~~~~~~i~~~~id~~~n~~~---~-~~i~~~Pt~~~~~-~~~~~~~~~~~g~~~~~~l~~~l~~~ 453 (462)
T TIGR01130 389 LAEKYKDAESDVVIAKMDATANDVP---P-FEVEGFPTIKFVP-AGKKSEPVPYDGDRTLEDFSKFIAKH 453 (462)
T ss_pred HHHHhhcCCCcEEEEEEECCCCccC---C-CCccccCEEEEEe-CCCCcCceEecCcCCHHHHHHHHHhc
Confidence 4444444 688888998766533 3 8999999999995 3232 235578888888775554433
No 173
>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=51.74 E-value=27 Score=24.96 Aligned_cols=46 Identities=15% Similarity=0.177 Sum_probs=32.5
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHH
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLE 72 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~ 72 (248)
++-+-..|++ +-..++..|++.+.|.+++ +|+.+. .|..+.++++.
T Consensus 43 ~i~~~~vd~~--~~~e~a~~~~V~~vPt~vi----dG~~~~--~G~~~~~e~~~ 88 (89)
T cd03026 43 NIEHEMIDGA--LFQDEVEERGIMSVPAIFL----NGELFG--FGRMTLEEILA 88 (89)
T ss_pred CceEEEEEhH--hCHHHHHHcCCccCCEEEE----CCEEEE--eCCCCHHHHhh
Confidence 4666666664 3356888999999999964 476654 58777777653
No 174
>PLN02309 5'-adenylylsulfate reductase
Probab=51.71 E-value=77 Score=30.06 Aligned_cols=55 Identities=16% Similarity=0.171 Sum_probs=35.9
Q ss_pred ceEEEEEecCChHHHHHHH-hcCCCCCceEEEEeCCCCceEEeee-CCCChHHHHHHHh
Q 025774 19 NFIFWQVYDDTSEGKKVCT-YYKLDSIPVVLVVDPITGQKMRSWC-GMVQPESLLEDLV 75 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~-~~~~~~~P~l~ii~~~~g~~l~~~~-G~~~~e~l~~~L~ 75 (248)
++.|...|++..+ ..++. .|++..||++.++.+.+. ...... |.-+.+.|+.-+.
T Consensus 398 ~V~f~kVD~d~~~-~~la~~~~~I~~~PTil~f~~g~~-~~v~Y~~~~R~~~~L~~fv~ 454 (457)
T PLN02309 398 GVKVAKFRADGDQ-KEFAKQELQLGSFPTILLFPKNSS-RPIKYPSEKRDVDSLLSFVN 454 (457)
T ss_pred CeEEEEEECCCcc-hHHHHhhCCCceeeEEEEEeCCCC-CeeecCCCCcCHHHHHHHHH
Confidence 5888999887332 24554 699999999999964322 223344 4567777755444
No 175
>COG1331 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]
Probab=51.64 E-value=69 Score=31.76 Aligned_cols=77 Identities=13% Similarity=0.214 Sum_probs=50.1
Q ss_pred cccccCCCHHHHHHhhcceEEEEEecCC-hH----HHHHHHhcCC-CCCceEEEEeCCCCceEEeee--------CCCCh
Q 025774 2 LNRDTWANEAVSQTISTNFIFWQVYDDT-SE----GKKVCTYYKL-DSIPVVLVVDPITGQKMRSWC--------GMVQP 67 (248)
Q Consensus 2 ~~r~vl~~~~v~~~l~~~fV~w~~d~~~-~e----g~~~~~~~~~-~~~P~l~ii~~~~g~~l~~~~--------G~~~~ 67 (248)
|.+..+.|++|..+||++||..++|-.. |+ =..+++.... ...|.-+++.|. |.....-. |...-
T Consensus 61 M~~ESf~d~eiA~~lN~~FV~IKVDREERPDvD~~Ym~~~q~~tG~GGWPLtVfLTPd-~kPFfagTY~P~e~r~g~pGf 139 (667)
T COG1331 61 MAHESFEDPEIAAILNENFVPVKVDREERPDVDSLYMNASQAITGQGGWPLTVFLTPD-GKPFFAGTYFPKEDRYGRPGF 139 (667)
T ss_pred HhhhcCCCHHHHHHHHhCceeeeEChhhccCHHHHHHHHHHHhccCCCCceeEEECCC-CceeeeeeecCCcccCCCcCH
Confidence 5577899999999999999999998752 22 1234444443 569999999994 66432111 22233
Q ss_pred HHHHHHHhhhhh
Q 025774 68 ESLLEDLVPFMD 79 (248)
Q Consensus 68 e~l~~~L~~~~~ 79 (248)
-+++.+|....+
T Consensus 140 ~~lL~~i~~~W~ 151 (667)
T COG1331 140 KQLLEAIRETWR 151 (667)
T ss_pred HHHHHHHHHHHH
Confidence 455666666555
No 176
>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=51.28 E-value=76 Score=21.61 Aligned_cols=53 Identities=21% Similarity=0.216 Sum_probs=32.5
Q ss_pred HHHHHhhc---ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCC-ChHHHHHHH
Q 025774 11 AVSQTIST---NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMV-QPESLLEDL 74 (248)
Q Consensus 11 ~v~~~l~~---~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~-~~e~l~~~L 74 (248)
.+.++.++ .+.+...| ..+ .+..|++.+.|.++| +|+.+ +.|.. +.+++.+.|
T Consensus 19 ~~~~~~~e~~~~~~~~~v~--~~~---~a~~~~v~~vPti~i----~G~~~--~~G~~~~~~~l~~~l 75 (76)
T TIGR00412 19 NVKKAVEELGIDAEFEKVT--DMN---EILEAGVTATPGVAV----DGELV--IMGKIPSKEEIKEIL 75 (76)
T ss_pred HHHHHHHHcCCCeEEEEeC--CHH---HHHHcCCCcCCEEEE----CCEEE--EEeccCCHHHHHHHh
Confidence 34555554 35554444 222 156799999999998 57766 88864 446655443
No 177
>PF00571 CBS: CBS domain CBS domain web page. Mutations in the CBS domain of Swiss:P35520 lead to homocystinuria.; InterPro: IPR000644 CBS (cystathionine-beta-synthase) domains are small intracellular modules, mostly found in two or four copies within a protein, that occur in a variety of proteins in bacteria, archaea, and eukaryotes [, ]. Tandem pairs of CBS domains can act as binding domains for adenosine derivatives and may regulate the activity of attached enzymatic or other domains []. In some cases, CBS domains may act as sensors of cellular energy status by being activated by AMP and inhibited by ATP []. In chloride ion channels, the CBS domains have been implicated in intracellular targeting and trafficking, as well as in protein-protein interactions, but results vary with different channels: in the CLC-5 channel, the CBS domain was shown to be required for trafficking [], while in the CLC-1 channel, the CBS domain was shown to be critical for channel function, but not necessary for trafficking []. Recent experiments revealing that CBS domains can bind adenosine-containing ligands such ATP, AMP, or S-adenosylmethionine have led to the hypothesis that CBS domains function as sensors of intracellular metabolites [, ]. Crystallographic studies of CBS domains have shown that pairs of CBS sequences form a globular domain where each CBS unit adopts a beta-alpha-beta-beta-alpha pattern []. Crystal structure of the CBS domains of the AMP-activated protein kinase in complexes with AMP and ATP shows that the phosphate groups of AMP/ATP lie in a surface pocket at the interface of two CBS domains, which is lined with basic residues, many of which are associated with disease-causing mutations []. In humans, mutations in conserved residues within CBS domains cause a variety of human hereditary diseases, including (with the gene mutated in parentheses): homocystinuria (cystathionine beta-synthase); Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase); retinitis pigmentosa (IMP dehydrogenase-1); congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members).; GO: 0005515 protein binding; PDB: 3JTF_A 3TE5_C 3TDH_C 3T4N_C 2QLV_C 3OI8_A 3LV9_A 2QH1_B 1PVM_B 3LQN_A ....
Probab=50.78 E-value=29 Score=21.70 Aligned_cols=56 Identities=23% Similarity=0.300 Sum_probs=38.8
Q ss_pred HHHHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 12 VSQTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 12 v~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
|.+++..+++...-+.+-.++......++ +.++.|++. .|. +.|.++..+++..+.
T Consensus 1 v~~~m~~~~~~v~~~~~l~~~~~~~~~~~---~~~~~V~d~-~~~----~~G~is~~dl~~~l~ 56 (57)
T PF00571_consen 1 VGDIMTPPPITVSPDDSLEEALEIMRKNG---ISRLPVVDE-DGK----LVGIISRSDLLKALL 56 (57)
T ss_dssp HHHHSBSSSEEEETTSBHHHHHHHHHHHT---SSEEEEEST-TSB----EEEEEEHHHHHHHHH
T ss_pred CeECCcCCCEEEcCcCcHHHHHHHHHHcC---CcEEEEEec-CCE----EEEEEEHHHHHhhhh
Confidence 45677788888888877788887777766 556666753 344 455667788877654
No 178
>COG3531 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=48.71 E-value=46 Score=27.92 Aligned_cols=46 Identities=13% Similarity=0.227 Sum_probs=35.4
Q ss_pred HHHHHHhcCCCCCceEEEEeCCCCceEEeeeC--CCChHHHHHHHhhhhh
Q 025774 32 GKKVCTYYKLDSIPVVLVVDPITGQKMRSWCG--MVQPESLLEDLVPFMD 79 (248)
Q Consensus 32 g~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G--~~~~e~l~~~L~~~~~ 79 (248)
++++++.+.+..||.+++.. +|+.--.-.| +.+++.++..|...+.
T Consensus 163 ~r~l~~rlg~~GfPTl~le~--ng~~~~l~~g~y~~~~~~~~arl~~~~~ 210 (212)
T COG3531 163 SRRLMQRLGAAGFPTLALER--NGTMYVLGTGAYFGSPDAWLARLAQRLA 210 (212)
T ss_pred HHHHHHHhccCCCCeeeeee--CCceEeccCCcccCCcHHHHHHHHHHHh
Confidence 47889999999999999996 4664333445 6689999998877653
No 179
>PTZ00256 glutathione peroxidase; Provisional
Probab=47.99 E-value=44 Score=27.06 Aligned_cols=38 Identities=18% Similarity=0.497 Sum_probs=28.7
Q ss_pred CCCCCce---EEEEeCCCCceEEeeeCCCChHHHHHHHhhhh
Q 025774 40 KLDSIPV---VLVVDPITGQKMRSWCGMVQPESLLEDLVPFM 78 (248)
Q Consensus 40 ~~~~~P~---l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~ 78 (248)
++..+|. .+||++ .|.++.++.|.++++.+...|...+
T Consensus 141 ~~~~iP~~~~tflID~-~G~Iv~~~~g~~~~~~l~~~I~~ll 181 (183)
T PTZ00256 141 EARQIPWNFAKFLIDG-QGKVVKYFSPKVNPNEMIQDIEKLL 181 (183)
T ss_pred cCcccCcceEEEEECC-CCCEEEEECCCCCHHHHHHHHHHHh
Confidence 3456785 578884 5999999999999888777766554
No 180
>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=47.53 E-value=66 Score=24.47 Aligned_cols=46 Identities=17% Similarity=0.296 Sum_probs=34.0
Q ss_pred cCCC------HHHHHHhhc---ceEEEEEecCChH-----HHHHHHhcCCC-CCceEEEEe
Q 025774 6 TWAN------EAVSQTIST---NFIFWQVYDDTSE-----GKKVCTYYKLD-SIPVVLVVD 51 (248)
Q Consensus 6 vl~~------~~v~~~l~~---~fV~w~~d~~~~e-----g~~~~~~~~~~-~~P~l~ii~ 51 (248)
.||- +.|.++..+ +..|+.+|++... ...++..|++. ++|+++++.
T Consensus 38 ~WC~pCr~~~P~l~~l~~~~~~~v~fv~Vdvd~~~~w~d~~~~~~~~~~I~~~iPT~~~~~ 98 (119)
T cd02952 38 SWCPDCVKAEPVVREALKAAPEDCVFIYCDVGDRPYWRDPNNPFRTDPKLTTGVPTLLRWK 98 (119)
T ss_pred CCCHhHHhhchhHHHHHHHCCCCCEEEEEEcCCcccccCcchhhHhccCcccCCCEEEEEc
Confidence 6774 455555554 6889999997533 45777889998 999999994
No 181
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=47.37 E-value=1.6e+02 Score=24.16 Aligned_cols=57 Identities=18% Similarity=0.197 Sum_probs=36.6
Q ss_pred cceEEEEEecCChHH-----------------------HHHHHhcCC----CCC--ceEEEEeCCCCceEEeeeCC----
Q 025774 18 TNFIFWQVYDDTSEG-----------------------KKVCTYYKL----DSI--PVVLVVDPITGQKMRSWCGM---- 64 (248)
Q Consensus 18 ~~fV~w~~d~~~~eg-----------------------~~~~~~~~~----~~~--P~l~ii~~~~g~~l~~~~G~---- 64 (248)
.++.+++.+.++... ..++..|++ ..+ |..+||++ .|.+...+...
T Consensus 64 ~g~~vigIS~D~~~~~~a~~~~~~~~~~l~fpllsD~~~~ia~~ygv~~~~~g~~~r~tfIID~-~G~I~~~~~~~~~~~ 142 (187)
T PRK10382 64 LGVDVYSVSTDTHFTHKAWHSSSETIAKIKYAMIGDPTGALTRNFDNMREDEGLADRATFVVDP-QGIIQAIEVTAEGIG 142 (187)
T ss_pred CCCEEEEEeCCCHHHHHHHHHhhccccCCceeEEEcCchHHHHHcCCCcccCCceeeEEEEECC-CCEEEEEEEeCCCCC
Confidence 466777777766543 356677776 245 99999996 47866554332
Q ss_pred CChHHHHHHHh
Q 025774 65 VQPESLLEDLV 75 (248)
Q Consensus 65 ~~~e~l~~~L~ 75 (248)
-+.++++..|.
T Consensus 143 ~~~~eil~~l~ 153 (187)
T PRK10382 143 RDASDLLRKIK 153 (187)
T ss_pred CCHHHHHHHHH
Confidence 25677766554
No 182
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=46.97 E-value=1.1e+02 Score=22.06 Aligned_cols=50 Identities=12% Similarity=0.050 Sum_probs=42.6
Q ss_pred eEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEccCCC
Q 025774 171 CRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPG 220 (248)
Q Consensus 171 ~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr 220 (248)
.-|+|-++||+...--...+.|.++|.+-+..+..-.+...+.|+-..|-
T Consensus 3 ~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~LvE~~P~ 52 (85)
T cd01787 3 QVVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLVEHLPH 52 (85)
T ss_pred eEEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEEEecch
Confidence 35788899999999999999999999999888765556788999887776
No 183
>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=43.62 E-value=27 Score=27.93 Aligned_cols=41 Identities=17% Similarity=0.213 Sum_probs=25.9
Q ss_pred HHHHhcCCC------CCceEEEEeCCCCceEEeeeCCC----ChHHHHHHHh
Q 025774 34 KVCTYYKLD------SIPVVLVVDPITGQKMRSWCGMV----QPESLLEDLV 75 (248)
Q Consensus 34 ~~~~~~~~~------~~P~l~ii~~~~g~~l~~~~G~~----~~e~l~~~L~ 75 (248)
.++..|++. ..|+.+||++ +|.++.++.|.. +.++++..|.
T Consensus 104 ~~~~~~gv~~~~~~~~~p~~~lID~-~G~I~~~~~~~~~~~~~~~~il~~l~ 154 (173)
T cd03015 104 KISRDYGVLDEEEGVALRGTFIIDP-EGIIRHITVNDLPVGRSVDETLRVLD 154 (173)
T ss_pred hHHHHhCCccccCCceeeEEEEECC-CCeEEEEEecCCCCCCCHHHHHHHHH
Confidence 445556664 5789999996 488877776543 3445555543
No 184
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.
Probab=42.58 E-value=1e+02 Score=27.27 Aligned_cols=76 Identities=12% Similarity=0.150 Sum_probs=54.6
Q ss_pred ccCCCH------HHHHHhhc-ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCC--------CCceEEeeeCCCChHH
Q 025774 5 DTWANE------AVSQTIST-NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPI--------TGQKMRSWCGMVQPES 69 (248)
Q Consensus 5 ~vl~~~------~v~~~l~~-~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~--------~g~~l~~~~G~~~~e~ 69 (248)
|++|+. ++.++..+ ..++.-++-+|+...++.......+-|...|=.+. ....+....|..+|+.
T Consensus 189 nTIC~AT~~RQ~a~~~la~~vD~miVVGg~nSsNT~rL~ei~~~~~~~t~~Ie~~~el~~~~l~~~~~VGiTAGASTP~~ 268 (280)
T TIGR00216 189 NTICYATQNRQDAVKELAPEVDLMIVIGGKNSSNTTRLYEIAEEHGPPSYLIETAEELPEEWLKGVKVVGITAGASTPDW 268 (280)
T ss_pred CCcccccHHHHHHHHHHHhhCCEEEEECCCCCchHHHHHHHHHHhCCCEEEECChHHCCHHHhCCCCEEEEEecCCCCHH
Confidence 556654 57777765 77888888888888888777666566766653321 2236888999999999
Q ss_pred HHHHHhhhhhc
Q 025774 70 LLEDLVPFMDG 80 (248)
Q Consensus 70 l~~~L~~~~~~ 80 (248)
++..+...|..
T Consensus 269 li~eVi~~l~~ 279 (280)
T TIGR00216 269 IIEEVIRKIKE 279 (280)
T ss_pred HHHHHHHHHHh
Confidence 99988877653
No 185
>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=41.37 E-value=44 Score=24.14 Aligned_cols=23 Identities=17% Similarity=0.444 Sum_probs=13.6
Q ss_pred HHHhcCCCCCceEEEEeCCCCceE
Q 025774 35 VCTYYKLDSIPVVLVVDPITGQKM 58 (248)
Q Consensus 35 ~~~~~~~~~~P~l~ii~~~~g~~l 58 (248)
++..|++..+|...||++ .|+++
T Consensus 87 ~~~~~~~~~~P~~~vid~-~G~v~ 109 (114)
T cd02967 87 LGMAYQVSKLPYAVLLDE-AGVIA 109 (114)
T ss_pred HHhhcCCCCcCeEEEECC-CCeEE
Confidence 445566666677777764 35543
No 186
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=40.37 E-value=97 Score=27.36 Aligned_cols=76 Identities=13% Similarity=0.140 Sum_probs=49.7
Q ss_pred cccCCCH------HHHHHhhc-ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCC--------CCceEEeeeCCCChH
Q 025774 4 RDTWANE------AVSQTIST-NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPI--------TGQKMRSWCGMVQPE 68 (248)
Q Consensus 4 r~vl~~~------~v~~~l~~-~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~--------~g~~l~~~~G~~~~e 68 (248)
.|++|+. ++.++-.+ .+++.-++-+|+...+++......+-|.+.|=++. ....+....|..+|+
T Consensus 189 ~nTIC~aT~~RQ~a~~~La~~vD~miVIGg~~SsNT~kL~eia~~~~~~t~~Ie~~~el~~~~l~~~~~VGItaGASTP~ 268 (281)
T PF02401_consen 189 FNTICYATQNRQEAARELAKEVDAMIVIGGKNSSNTRKLAEIAKEHGKPTYHIETADELDPEWLKGVKKVGITAGASTPD 268 (281)
T ss_dssp C-S--CHHHHHHHHHHHHHCCSSEEEEES-TT-HHHHHHHHHHHHCTTCEEEESSGGG--HHHHTT-SEEEEEE-TTS-H
T ss_pred CCCCCHhHHHHHHHHHHHHhhCCEEEEecCCCCccHHHHHHHHHHhCCCEEEeCCccccCHhHhCCCCEEEEEccCCCCH
Confidence 3677775 56666665 67888888889998888776666566777764332 223688899999999
Q ss_pred HHHHHHhhhhh
Q 025774 69 SLLEDLVPFMD 79 (248)
Q Consensus 69 ~l~~~L~~~~~ 79 (248)
.++..+...|.
T Consensus 269 ~ii~eVi~~l~ 279 (281)
T PF02401_consen 269 WIIEEVIDRLE 279 (281)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHh
Confidence 99998887775
No 187
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=40.31 E-value=1.1e+02 Score=21.19 Aligned_cols=44 Identities=14% Similarity=0.113 Sum_probs=35.2
Q ss_pred EEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEcc
Q 025774 173 VGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHA 217 (248)
Q Consensus 173 i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~ 217 (248)
+++-||||.+..=.-....++.++..=+-.. .+..+..+.|...
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~k-r~l~~~~~~v~~~ 45 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKK-RGLNPECCDVFLL 45 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHH-cCCCHHHEEEEEe
Confidence 5677999999999999999999998876554 4666777777654
No 188
>KOG2699 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=39.65 E-value=7 Score=36.13 Aligned_cols=46 Identities=22% Similarity=0.210 Sum_probs=36.7
Q ss_pred CceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEE
Q 025774 169 LLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLT 215 (248)
Q Consensus 169 ~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~ 215 (248)
+..++++++|||..+++.|.....+...|.|+...+.. ..-.|.|.
T Consensus 316 ~~~~~~ak~pd~~l~q~~f~~~~~~~~~~g~~~~a~~~-~~l~~el~ 361 (407)
T KOG2699|consen 316 TPFKNVAKDPDGELLQGIFLPNELLLARYGFVSEALEF-MELPGELL 361 (407)
T ss_pred cccchhccCcchhhhhhhhchhHHHHHHHhccccchhh-hhhhhHHh
Confidence 45688999999999999999999999999999876532 24444443
No 189
>cd01659 TRX_superfamily Thioredoxin (TRX) superfamily; a large, diverse group of proteins containing a TRX-fold. Many members contain a classic TRX domain with a redox active CXXC motif. They function as protein disulfide oxidoreductases (PDOs), altering the redox state of target proteins via the reversible oxidation of their active site dithiol. The PDO members of this superfamily include TRX, protein disulfide isomerase (PDI), tlpA-like, glutaredoxin, NrdH redoxin, and the bacterial Dsb (DsbA, DsbC, DsbG, DsbE, DsbDgamma) protein families. Members of the superfamily that do not function as PDOs but contain a TRX-fold domain include phosducins, peroxiredoxins and glutathione (GSH) peroxidases, SCO proteins, GSH transferases (GST, N-terminal domain), arsenic reductases, TRX-like ferredoxins and calsequestrin, among others.
Probab=39.31 E-value=82 Score=18.58 Aligned_cols=37 Identities=19% Similarity=0.328 Sum_probs=28.0
Q ss_pred hhcceEEEEEecCChHHHHH-HHhcCCCCCceEEEEeC
Q 025774 16 ISTNFIFWQVYDDTSEGKKV-CTYYKLDSIPVVLVVDP 52 (248)
Q Consensus 16 l~~~fV~w~~d~~~~eg~~~-~~~~~~~~~P~l~ii~~ 52 (248)
.+.++.+...+++....... ...++...+|.+.++++
T Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~ 62 (69)
T cd01659 25 LNKGVKFEAVDVDEDPALEKELKRYGVGGVPTLVVFGP 62 (69)
T ss_pred hCCCcEEEEEEcCCChHHhhHHHhCCCccccEEEEEeC
Confidence 35688888888876554433 36789999999999875
No 190
>KOG0190 consensus Protein disulfide isomerase (prolyl 4-hydroxylase beta subunit) [Posttranslational modification, protein turnover, chaperones]
Probab=38.80 E-value=58 Score=31.16 Aligned_cols=42 Identities=12% Similarity=0.339 Sum_probs=34.5
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhh
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVP 76 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~ 76 (248)
..+++.|.+..||.+-|. ++|.......|.-+++.++.-|..
T Consensus 89 ~~~~~~y~v~gyPTlkiF--rnG~~~~~Y~G~r~adgIv~wl~k 130 (493)
T KOG0190|consen 89 SDLASKYEVRGYPTLKIF--RNGRSAQDYNGPREADGIVKWLKK 130 (493)
T ss_pred hhhHhhhcCCCCCeEEEE--ecCCcceeccCcccHHHHHHHHHh
Confidence 789999999999999998 568876778888888887665553
No 191
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=37.60 E-value=1.5e+02 Score=24.05 Aligned_cols=46 Identities=20% Similarity=0.086 Sum_probs=33.2
Q ss_pred EEEEEcCCC----ceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEcc
Q 025774 172 RVGVRLPDG----RRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTHA 217 (248)
Q Consensus 172 ~i~iRlp~G----~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~ 217 (248)
.|-|..++| ..+.-....+.+|.+|++.+...+.......+.|++.
T Consensus 2 ~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~ 51 (162)
T PF13019_consen 2 NVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTN 51 (162)
T ss_pred eEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEe
Confidence 567888888 5777888889999999999988754322233556553
No 192
>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=37.14 E-value=1.3e+02 Score=24.86 Aligned_cols=51 Identities=14% Similarity=0.273 Sum_probs=36.3
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhh
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVP 76 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~ 76 (248)
+..+...|.+. ...++..|++.++|++.|.. .|.. +.|..+.++|...|..
T Consensus 164 ~i~~~~vD~~~--~~~~~~~~~V~~vPtl~i~~--~~~~---~~G~~~~~~l~~~l~~ 214 (215)
T TIGR02187 164 KILGEMIEANE--NPDLAEKYGVMSVPKIVINK--GVEE---FVGAYPEEQFLEYILS 214 (215)
T ss_pred ceEEEEEeCCC--CHHHHHHhCCccCCEEEEec--CCEE---EECCCCHHHHHHHHHh
Confidence 45555566543 44678899999999999863 3432 8898888888776654
No 193
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=35.71 E-value=1.3e+02 Score=26.77 Aligned_cols=78 Identities=14% Similarity=0.195 Sum_probs=55.5
Q ss_pred cccCCCH------HHHHHhhc-ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeC--------CCCceEEeeeCCCChH
Q 025774 4 RDTWANE------AVSQTIST-NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDP--------ITGQKMRSWCGMVQPE 68 (248)
Q Consensus 4 r~vl~~~------~v~~~l~~-~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~--------~~g~~l~~~~G~~~~e 68 (248)
.|++|+. ++.++-.+ ..++.-++-+|+...+++......+-|...|=.+ ..-..+....|..+|+
T Consensus 190 ~nTIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~kL~~i~~~~~~~t~~Ie~~~el~~~~l~~~~~VGitaGASTP~ 269 (298)
T PRK01045 190 KDDICYATQNRQEAVKELAPQADLVIVVGSKNSSNSNRLREVAEEAGAPAYLIDDASEIDPEWFKGVKTVGVTAGASAPE 269 (298)
T ss_pred CCCcchhhHHHHHHHHHHHhhCCEEEEECCCCCccHHHHHHHHHHHCCCEEEECChHHCcHHHhcCCCEEEEEecCCCCH
Confidence 3566765 56777765 7788888888888888777665555555554222 1122688899999999
Q ss_pred HHHHHHhhhhhcC
Q 025774 69 SLLEDLVPFMDGG 81 (248)
Q Consensus 69 ~l~~~L~~~~~~~ 81 (248)
.++..+...|...
T Consensus 270 ~li~eV~~~l~~~ 282 (298)
T PRK01045 270 WLVQEVIARLKEL 282 (298)
T ss_pred HHHHHHHHHHHHh
Confidence 9999988888764
No 194
>PRK00522 tpx lipid hydroperoxide peroxidase; Provisional
Probab=34.42 E-value=1.3e+02 Score=23.77 Aligned_cols=29 Identities=17% Similarity=0.133 Sum_probs=17.2
Q ss_pred HHHHHhcCCCCCc---------eEEEEeCCCCceEEeee
Q 025774 33 KKVCTYYKLDSIP---------VVLVVDPITGQKMRSWC 62 (248)
Q Consensus 33 ~~~~~~~~~~~~P---------~l~ii~~~~g~~l~~~~ 62 (248)
..++..|++...| ..+||+ .+|.++..+.
T Consensus 111 ~~~~~~~gv~~~~~~~~g~~~r~tfvId-~~G~I~~~~~ 148 (167)
T PRK00522 111 HSFGKAYGVAIAEGPLKGLLARAVFVLD-ENNKVVYSEL 148 (167)
T ss_pred cHHHHHhCCeecccccCCceeeEEEEEC-CCCeEEEEEE
Confidence 3555666665555 667776 3466665554
No 195
>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=34.01 E-value=1.2e+02 Score=19.44 Aligned_cols=29 Identities=14% Similarity=0.212 Sum_probs=22.0
Q ss_pred ceEEEEEecCChHHHHHHHhcCCCCCceEEE
Q 025774 19 NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLV 49 (248)
Q Consensus 19 ~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~i 49 (248)
++-+...|++... .++..|++.++|.++|
T Consensus 30 ~i~~~~id~~~~~--~l~~~~~i~~vPti~i 58 (67)
T cd02973 30 NISAEMIDAAEFP--DLADEYGVMSVPAIVI 58 (67)
T ss_pred ceEEEEEEcccCH--hHHHHcCCcccCEEEE
Confidence 5777777876543 3778999999999865
No 196
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=33.35 E-value=1.4e+02 Score=26.34 Aligned_cols=75 Identities=8% Similarity=0.099 Sum_probs=51.4
Q ss_pred ccCCCH------HHHHHhhc-ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCC--------CCceEEeeeCCCChHH
Q 025774 5 DTWANE------AVSQTIST-NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPI--------TGQKMRSWCGMVQPES 69 (248)
Q Consensus 5 ~vl~~~------~v~~~l~~-~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~--------~g~~l~~~~G~~~~e~ 69 (248)
|++|+. ++.++-.. .+++.-++-+|+...+++......+-|...|=.+. ....+....|..+|+.
T Consensus 190 ~TIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~rL~eia~~~~~~t~~Ie~~~el~~~~~~~~~~VGitaGASTP~~ 269 (281)
T PRK12360 190 NTICSATKKRQESAKELSKEVDVMIVIGGKHSSNTQKLVKICEKNCPNTFHIETADELDLEMLKDYKIIGITAGASTPDW 269 (281)
T ss_pred CCcchhhhhHHHHHHHHHHhCCEEEEecCCCCccHHHHHHHHHHHCCCEEEECChHHCCHHHhCCCCEEEEEccCCCCHH
Confidence 566654 56666654 67778888888888877765554444555543221 1225888999999999
Q ss_pred HHHHHhhhhh
Q 025774 70 LLEDLVPFMD 79 (248)
Q Consensus 70 l~~~L~~~~~ 79 (248)
++..+...|.
T Consensus 270 li~eV~~~l~ 279 (281)
T PRK12360 270 IIEEVIKKIK 279 (281)
T ss_pred HHHHHHHHHH
Confidence 9998887775
No 197
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=32.98 E-value=66 Score=21.10 Aligned_cols=30 Identities=23% Similarity=0.212 Sum_probs=22.5
Q ss_pred EEEEcCCCceEEEeeCCCCchHHHHHHHHhhc
Q 025774 173 VGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQL 204 (248)
Q Consensus 173 i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~ 204 (248)
|.|-+|||+... |....|+.++..-+...+
T Consensus 1 I~v~lpdG~~~~--~~~g~T~~d~A~~I~~~l 30 (60)
T PF02824_consen 1 IRVYLPDGSIKE--LPEGSTVLDVAYSIHSSL 30 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHH
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHH
Confidence 578889998644 999998777776665544
No 198
>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=32.59 E-value=1.2e+02 Score=22.93 Aligned_cols=32 Identities=22% Similarity=0.348 Sum_probs=19.7
Q ss_pred HHHHHhcCCCC----C--ceEEEEeCCCCceEEeeeCCC
Q 025774 33 KKVCTYYKLDS----I--PVVLVVDPITGQKMRSWCGMV 65 (248)
Q Consensus 33 ~~~~~~~~~~~----~--P~l~ii~~~~g~~l~~~~G~~ 65 (248)
..++..|++.. + |...||++ +|.++....|..
T Consensus 97 ~~~~~~~g~~~~~~~~~~~~~~lid~-~G~v~~~~~~~~ 134 (149)
T cd03018 97 GEVAKAYGVFDEDLGVAERAVFVIDR-DGIIRYAWVSDD 134 (149)
T ss_pred hHHHHHhCCccccCCCccceEEEECC-CCEEEEEEecCC
Confidence 45566666642 2 36777774 477777777643
No 199
>PRK13190 putative peroxiredoxin; Provisional
Probab=32.37 E-value=1.1e+02 Score=25.14 Aligned_cols=43 Identities=12% Similarity=0.101 Sum_probs=27.9
Q ss_pred HHHHhcCCC------CCceEEEEeCCCCceEEee----eCCCChHHHHHHHhhh
Q 025774 34 KVCTYYKLD------SIPVVLVVDPITGQKMRSW----CGMVQPESLLEDLVPF 77 (248)
Q Consensus 34 ~~~~~~~~~------~~P~l~ii~~~~g~~l~~~----~G~~~~e~l~~~L~~~ 77 (248)
.+++.|++. .+|.++||+|. |.+.... .+..+.++++..|...
T Consensus 101 ~ia~~ygv~~~~~g~~~p~~fiId~~-G~I~~~~~~~~~~gr~~~ellr~l~~l 153 (202)
T PRK13190 101 ELAREYNLIDENSGATVRGVFIIDPN-QIVRWMIYYPAETGRNIDEIIRITKAL 153 (202)
T ss_pred HHHHHcCCccccCCcEEeEEEEECCC-CEEEEEEEeCCCCCCCHHHHHHHHHHh
Confidence 566677763 48999999964 7765444 2234677777666544
No 200
>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=31.74 E-value=1.7e+02 Score=26.14 Aligned_cols=50 Identities=24% Similarity=0.355 Sum_probs=38.3
Q ss_pred hcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHH
Q 025774 17 STNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESL 70 (248)
Q Consensus 17 ~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l 70 (248)
+..|++-..|++. --.++..+++.+.|++.++- .|..|.-+.|...-+.+
T Consensus 73 ~G~f~LakvN~D~--~p~vAaqfgiqsIPtV~af~--dGqpVdgF~G~qPesql 122 (304)
T COG3118 73 KGKFKLAKVNCDA--EPMVAAQFGVQSIPTVYAFK--DGQPVDGFQGAQPESQL 122 (304)
T ss_pred CCceEEEEecCCc--chhHHHHhCcCcCCeEEEee--CCcCccccCCCCcHHHH
Confidence 3478888887753 34688999999999998873 58888888887665544
No 201
>cd04598 CBS_pair_GGDEF_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and is thought to be involved in regulating cell surface adhesiveness in bacteria. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown.
Probab=31.10 E-value=77 Score=22.61 Aligned_cols=59 Identities=15% Similarity=0.182 Sum_probs=40.2
Q ss_pred CCHHHHHHhhcceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHH
Q 025774 8 ANEAVSQTISTNFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLL 71 (248)
Q Consensus 8 ~~~~v~~~l~~~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~ 71 (248)
.+..+.+++...++....+..-.++..+...++....+...+++. .|.. -|.++..+++
T Consensus 59 ~~~~v~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~vv~~-~~~~----~Gvvs~~di~ 117 (119)
T cd04598 59 GKKPVSEVMDPDPLIVEADTPLEEVSRLATGRDSQNLYDGFIVTE-EGRY----LGIGTVKDLL 117 (119)
T ss_pred cCCcHHHhcCCCcEEecCCCCHHHHHHHHHcCCcccccccEEEee-CCeE----EEEEEHHHHh
Confidence 445688888888888888877777888777777665555556653 3544 4555666654
No 202
>PRK11657 dsbG disulfide isomerase/thiol-disulfide oxidase; Provisional
Probab=30.98 E-value=1.2e+02 Score=26.00 Aligned_cols=39 Identities=21% Similarity=0.374 Sum_probs=31.1
Q ss_pred HHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHH
Q 025774 34 KVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 34 ~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L 74 (248)
.++..++++..|++++.++. | .+..+.|..++++|...|
T Consensus 210 ~l~~~lGv~GTPaiv~~d~~-G-~~~~v~G~~~~~~L~~~l 248 (251)
T PRK11657 210 KLMDDLGANATPAIYYMDKD-G-TLQQVVGLPDPAQLAEIM 248 (251)
T ss_pred HHHHHcCCCCCCEEEEECCC-C-CEEEecCCCCHHHHHHHh
Confidence 57788999999999999743 4 455688999999887655
No 203
>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=30.11 E-value=1.6e+02 Score=23.30 Aligned_cols=37 Identities=16% Similarity=0.268 Sum_probs=28.6
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
...+..+++...|++.| +|. ..+.|....+.|...|+
T Consensus 157 ~~~a~~~gv~GvP~~vv----~g~--~~~~G~~~~~~l~~~l~ 193 (193)
T PF01323_consen 157 TAEARQLGVFGVPTFVV----NGK--YRFFGADRLDELEDALQ 193 (193)
T ss_dssp HHHHHHTTCSSSSEEEE----TTT--EEEESCSSHHHHHHHH-
T ss_pred HHHHHHcCCcccCEEEE----CCE--EEEECCCCHHHHHHHhC
Confidence 35667899999999998 355 66889888888876653
No 204
>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=30.08 E-value=1.2e+02 Score=23.04 Aligned_cols=54 Identities=17% Similarity=0.299 Sum_probs=37.4
Q ss_pred c-eEEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceE---------EeeeCCC-ChHHHHHHHhh
Q 025774 19 N-FIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKM---------RSWCGMV-QPESLLEDLVP 76 (248)
Q Consensus 19 ~-fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l---------~~~~G~~-~~e~l~~~L~~ 76 (248)
+ .+|+.+|++ |-..++..|.+.+.|+.+++- +|.-+ .++.|.+ +-++|+.-+..
T Consensus 45 ~~~~f~kVDVD--ev~dva~~y~I~amPtfvffk--ngkh~~~d~gt~~~~k~~~~~~~k~~~idi~e~ 109 (114)
T cd02986 45 KMASIYLVDVD--KVPVYTQYFDISYIPSTIFFF--NGQHMKVDYGSPDHTKFVGSFKTKQDFIDLIEV 109 (114)
T ss_pred CceEEEEEecc--ccHHHHHhcCceeCcEEEEEE--CCcEEEEecCCCCCcEEEEEcCchhHHHHHHHH
Confidence 5 889999997 555699999999999999764 24422 3355544 44667665543
No 205
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=29.56 E-value=1.8e+02 Score=19.72 Aligned_cols=46 Identities=20% Similarity=0.058 Sum_probs=33.9
Q ss_pred ceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEc
Q 025774 170 LCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTH 216 (248)
Q Consensus 170 ~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~ 216 (248)
+++|.+++.++.+....+..+.++..|+.-|...... ....|.|..
T Consensus 1 t~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~-~~~~~~l~Y 46 (84)
T PF00564_consen 1 TVRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGL-LDEDFQLKY 46 (84)
T ss_dssp SEEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTT-STSSEEEEE
T ss_pred CEEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCC-CCccEEEEe
Confidence 3678888877766546677888999999999987643 246777754
No 206
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=29.53 E-value=1.9e+02 Score=19.74 Aligned_cols=60 Identities=18% Similarity=0.280 Sum_probs=42.3
Q ss_pred CCceEEEeeCCCCchHHHHHHHHhhc--CCCCCcCeEEEccCCCCccccCCCcCCCccccCCcCceE
Q 025774 179 DGRRMQRNFLRTDPIQLLWSYCYSQL--EGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLANAMI 243 (248)
Q Consensus 179 ~G~r~~r~F~~~~~l~~l~~fv~~~~--~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~~~~v 243 (248)
||..+.-.=+.+.+|..+.+...... .+.+..+++|... .. .+ .|.++-++|.|+.+..-
T Consensus 4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe--~G--~v-lD~~kKveD~Gftngvk 65 (76)
T PF10790_consen 4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDE--SG--QV-LDVNKKVEDFGFTNGVK 65 (76)
T ss_pred CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeecc--CC--cE-eeccchhhhccccccce
Confidence 67777777788888888877665432 2446788999764 11 13 37899999999996553
No 207
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=29.32 E-value=1.5e+02 Score=20.87 Aligned_cols=40 Identities=13% Similarity=0.076 Sum_probs=31.2
Q ss_pred EEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEE
Q 025774 175 VRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLT 215 (248)
Q Consensus 175 iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~ 215 (248)
|-||||.+.+-.-....++.++.+-+-. -.++++..+-|.
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~aCk-~~~ldp~eh~Lr 43 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESACK-RKQLDPMEHYLR 43 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHHHH-hcCCChhHheeE
Confidence 5689999999999999999999987644 346666665553
No 208
>COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]
Probab=29.01 E-value=1.9e+02 Score=24.13 Aligned_cols=39 Identities=18% Similarity=0.315 Sum_probs=30.2
Q ss_pred CCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhh
Q 025774 40 KLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMD 79 (248)
Q Consensus 40 ~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~ 79 (248)
.+.+-..+.+|++ .|..+..+.+...++.++..|...+.
T Consensus 167 ~~~Hs~~~~lid~-~G~~~~~~~~~~~~~~i~~~l~~l~~ 205 (207)
T COG1999 167 TIDHSAGFYLIDA-DGRFLGTYDYGEPPEEIAADLKKLLK 205 (207)
T ss_pred eeeeeeEEEEECC-CCeEEEEecCCCChHHHHHHHHHHhh
Confidence 3445567788886 48888888887779999999988765
No 209
>smart00455 RBD Raf-like Ras-binding domain.
Probab=28.95 E-value=1.9e+02 Score=19.66 Aligned_cols=43 Identities=14% Similarity=0.135 Sum_probs=34.4
Q ss_pred EEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEc
Q 025774 173 VGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTH 216 (248)
Q Consensus 173 i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~ 216 (248)
+++-||||++..=.-....+|.++..=+-.. .++.+..+.+..
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~k-r~l~~~~~~v~~ 44 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKK-RGLNPECCVVRL 44 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHH-cCCCHHHEEEEE
Confidence 4567999999999999999999988877654 366677777765
No 210
>PF13743 Thioredoxin_5: Thioredoxin; PDB: 3KZQ_C.
Probab=28.86 E-value=54 Score=26.55 Aligned_cols=36 Identities=8% Similarity=0.105 Sum_probs=15.6
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChH
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPE 68 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e 68 (248)
.++++.++++.+|+++|.+...++.=-.++|..+-+
T Consensus 137 ~~la~~m~I~~~Ptlvi~~~~~~~~g~~i~g~~~~~ 172 (176)
T PF13743_consen 137 QQLAREMGITGFPTLVIFNENNEEYGILIEGYYSYE 172 (176)
T ss_dssp HHHHHHTT-SSSSEEEEE------------------
T ss_pred HHHHHHcCCCCCCEEEEEeccccccccccccccccc
Confidence 378999999999999999833222222356654433
No 211
>KOG3878 consensus Protein involved in maintenance of Golgi structure and ER-Golgi transport [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.64 E-value=11 Score=33.96 Aligned_cols=41 Identities=24% Similarity=0.481 Sum_probs=28.9
Q ss_pred cCCCCCceEEEEeCCCCc---eEEeeeCCCChHHHHHHHhhhhhc
Q 025774 39 YKLDSIPVVLVVDPITGQ---KMRSWCGMVQPESLLEDLVPFMDG 80 (248)
Q Consensus 39 ~~~~~~P~l~ii~~~~g~---~l~~~~G~~~~e~l~~~L~~~~~~ 80 (248)
|+.+.+|.+++++ ..|. .-|..-|.++.++-|..+...+++
T Consensus 73 ~n~d~~p~~G~lD-v~GnDr~~~W~~LG~~sre~AM~~FV~Lldr 116 (469)
T KOG3878|consen 73 FNTDRAPALGVLD-VIGNDRQQHWQLLGEISREQAMEGFVDLLDR 116 (469)
T ss_pred CCcccCcccceee-cccChHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence 4468899999998 4455 345555888888777766666665
No 212
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=28.41 E-value=1.3e+02 Score=22.95 Aligned_cols=45 Identities=20% Similarity=0.187 Sum_probs=31.6
Q ss_pred CCCCchHHHHHHHHhhcCCCCCcCeEEEccCCCCccccCCCcCCCccccCCc
Q 025774 188 LRTDPIQLLWSYCYSQLEGSEMKPFRLTHAIPGATKSLDYDSKLTFEDSGLA 239 (248)
Q Consensus 188 ~~~~~l~~l~~fv~~~~~~~~~~~f~L~~~~Pr~~~~l~~d~~~tl~d~gl~ 239 (248)
..+++|-+|-.-+..-+. .++..-+|+. -. .+ .++++||.|+|+.
T Consensus 19 kes~tVlelK~~iegI~k-~pp~dQrL~k---d~--qv-LeD~kTL~d~g~t 63 (119)
T cd01788 19 KESTTVYELKRIVEGILK-RPPEDQRLYK---DD--QL-LDDGKTLGDCGFT 63 (119)
T ss_pred CCcccHHHHHHHHHHHhc-CChhHheeec---Cc--ee-ecccccHHHcCcc
Confidence 357888888888777553 3577777862 22 23 3779999999993
No 213
>cd03073 PDI_b'_ERp72_ERp57 PDIb' family, ERp72 and ERp57 subfamily, second redox inactive TRX-like domain b'; ERp72 and ER57 are involved in oxidative protein folding in the ER, like PDI. They exhibit both disulfide oxidase and reductase functions, by catalyzing the formation of disulfide bonds of newly synthesized polypeptides and acting as isomerases to correct any non-native disulfide bonds. They also display chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. ERp57 contains two redox-active TRX (a) domains and two redox inactive TRX-like (b) domains. It shares the same domain arrangement of abb'a' as PDI, but lacks the C-terminal acid-rich region (c domain) that is present in PDI. ERp72 contains one additional redox-active TRX (a) domain at the N-terminus with a molecular structure of a"abb'a'. ERp57 interacts with the lectin chaperones, calnexin and calreticulin, and specifically promotes the oxidative folding of glycoprotei
Probab=28.36 E-value=2.3e+02 Score=21.00 Aligned_cols=55 Identities=16% Similarity=0.132 Sum_probs=32.0
Q ss_pred Hhh-cceEEEEEecCChHHHHHHHhcCCC--C--CceEEEEeCCCCceEEeeeCCC-ChHHHHHH
Q 025774 15 TIS-TNFIFWQVYDDTSEGKKVCTYYKLD--S--IPVVLVVDPITGQKMRSWCGMV-QPESLLED 73 (248)
Q Consensus 15 ~l~-~~fV~w~~d~~~~eg~~~~~~~~~~--~--~P~l~ii~~~~g~~l~~~~G~~-~~e~l~~~ 73 (248)
-.+ ..++|--.|.+... .++..+++. . +|.++|++. .+. =..+.+.+ +++.+..-
T Consensus 46 ~fk~gki~Fv~~D~~~~~--~~l~~fgl~~~~~~~P~~~i~~~-~~~-KY~~~~~~~t~e~i~~F 106 (111)
T cd03073 46 DFPDRKLNFAVADKEDFS--HELEEFGLDFSGGEKPVVAIRTA-KGK-KYVMEEEFSDVDALEEF 106 (111)
T ss_pred HCcCCeEEEEEEcHHHHH--HHHHHcCCCcccCCCCEEEEEeC-CCC-ccCCCcccCCHHHHHHH
Confidence 344 35555556664333 378888886 4 999999874 232 11145555 66655433
No 214
>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=28.30 E-value=97 Score=25.24 Aligned_cols=64 Identities=8% Similarity=0.120 Sum_probs=38.6
Q ss_pred cccCCCHHHHHHhh----cceE---EEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHH
Q 025774 4 RDTWANEAVSQTIS----TNFI---FWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLED 73 (248)
Q Consensus 4 r~vl~~~~v~~~l~----~~fV---~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~ 73 (248)
+.+||...-...+. .... .=.++..-.+-..++..+++...|+++ +. +|.. +.|..++++|...
T Consensus 126 ~~i~ca~d~~~a~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~gi~gtPtii-~~--~G~~---~~G~~~~~~l~~~ 196 (197)
T cd03020 126 AAIWCAKDRAKAWTDAMSGGKVPPPAASCDNPVAANLALGRQLGVNGTPTIV-LA--DGRV---VPGAPPAAQLEAL 196 (197)
T ss_pred HHhhcccCHHHHHHHHHhCCCCCCCccccCchHHHHHHHHHHcCCCcccEEE-EC--CCeE---ecCCCCHHHHHhh
Confidence 35777765433333 2222 112333334556888999999999997 32 2554 6788888877543
No 215
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=27.50 E-value=1.3e+02 Score=21.52 Aligned_cols=42 Identities=10% Similarity=0.164 Sum_probs=30.1
Q ss_pred EEEEEcCCCceEEEeeCC--CCchHHHHHHHHhhcCCCCCcCeE
Q 025774 172 RVGVRLPDGRRMQRNFLR--TDPIQLLWSYCYSQLEGSEMKPFR 213 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~--~~~l~~l~~fv~~~~~~~~~~~f~ 213 (248)
-|+|+.|+|.-+.-.-.+ .-...+|.+-+...+++.....|.
T Consensus 2 VIRIk~p~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~aT~tAFe 45 (91)
T cd06395 2 VIRIKIPNGGAVDWTVQSGPQLLFRDVLDVIGQVLPEATTTAFE 45 (91)
T ss_pred eEEEeCCCCCcccccccCcccccHHHHHHHHHHhccccccccee
Confidence 489999999877776664 345688998888877654444444
No 216
>PRK13191 putative peroxiredoxin; Provisional
Probab=27.38 E-value=2.7e+02 Score=23.26 Aligned_cols=42 Identities=14% Similarity=0.166 Sum_probs=24.2
Q ss_pred HHHHhcCCC-------CCceEEEEeCCCCceEEeeeCCC----ChHHHHHHHhh
Q 025774 34 KVCTYYKLD-------SIPVVLVVDPITGQKMRSWCGMV----QPESLLEDLVP 76 (248)
Q Consensus 34 ~~~~~~~~~-------~~P~l~ii~~~~g~~l~~~~G~~----~~e~l~~~L~~ 76 (248)
.+++.|++- ..|..+||++. |.+....-+.. ..++++..|..
T Consensus 107 ~ia~~ygv~~~~~~~~~~r~tfIID~~-G~Ir~~~~~~~~~gr~~~eilr~l~a 159 (215)
T PRK13191 107 NVAKRLGMIHAESSTATVRAVFIVDDK-GTVRLILYYPMEIGRNIDEILRAIRA 159 (215)
T ss_pred HHHHHcCCcccccCCceeEEEEEECCC-CEEEEEEecCCCCCCCHHHHHHHHHH
Confidence 455556641 36888888864 77655544432 45666655543
No 217
>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=26.80 E-value=1.4e+02 Score=18.93 Aligned_cols=39 Identities=10% Similarity=0.222 Sum_probs=23.4
Q ss_pred HHHHHhhc-c--eEEEEEecCChHHHHHHHhcCCCCCceEEE
Q 025774 11 AVSQTIST-N--FIFWQVYDDTSEGKKVCTYYKLDSIPVVLV 49 (248)
Q Consensus 11 ~v~~~l~~-~--fV~w~~d~~~~eg~~~~~~~~~~~~P~l~i 49 (248)
.++++|++ + |-..-.+........+...++..++|.+.|
T Consensus 14 ~~~~~L~~~~i~y~~~dv~~~~~~~~~l~~~~g~~~~P~v~i 55 (60)
T PF00462_consen 14 KAKEFLDEKGIPYEEVDVDEDEEAREELKELSGVRTVPQVFI 55 (60)
T ss_dssp HHHHHHHHTTBEEEEEEGGGSHHHHHHHHHHHSSSSSSEEEE
T ss_pred HHHHHHHHcCCeeeEcccccchhHHHHHHHHcCCCccCEEEE
Confidence 45677775 3 444333333333444555559999999986
No 218
>PRK13730 conjugal transfer pilus assembly protein TrbC; Provisional
Probab=26.75 E-value=1.2e+02 Score=25.54 Aligned_cols=39 Identities=18% Similarity=0.278 Sum_probs=30.6
Q ss_pred HHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhh
Q 025774 35 VCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVP 76 (248)
Q Consensus 35 ~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~ 76 (248)
+-..|+++..|.+++.|.. .-.++.|+++...-++.+..
T Consensus 154 lF~~F~I~~VPafVv~C~~---~yD~I~GNIsl~~ALe~iA~ 192 (212)
T PRK13730 154 LFSQYGIRSVPALVVFCSQ---GYDIIRGNLRVGQALEKVAA 192 (212)
T ss_pred HHHhcCCccccEEEEEcCC---CCCEEEecccHHHHHHHHHh
Confidence 3457999999999999852 35679999999887776664
No 219
>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=26.47 E-value=1.4e+02 Score=20.21 Aligned_cols=36 Identities=28% Similarity=0.427 Sum_probs=22.6
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEeeeC-CCChHHHHHHH
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRSWCG-MVQPESLLEDL 74 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G-~~~~e~l~~~L 74 (248)
..-+..|++.+.|.+ +|+ |.+ ++.| ..+.+++...|
T Consensus 39 ~~~~~~ygv~~vPal-vIn---g~~--~~~G~~p~~~el~~~l 75 (76)
T PF13192_consen 39 FEEIEKYGVMSVPAL-VIN---GKV--VFVGRVPSKEELKELL 75 (76)
T ss_dssp HHHHHHTT-SSSSEE-EET---TEE--EEESS--HHHHHHHHH
T ss_pred HHHHHHcCCCCCCEE-EEC---CEE--EEEecCCCHHHHHHHh
Confidence 333399999999999 555 553 3788 55666665544
No 220
>PTZ00253 tryparedoxin peroxidase; Provisional
Probab=26.16 E-value=1e+02 Score=25.33 Aligned_cols=31 Identities=13% Similarity=0.211 Sum_probs=21.8
Q ss_pred HHHHhcCCC------CCceEEEEeCCCCceEEeeeCCC
Q 025774 34 KVCTYYKLD------SIPVVLVVDPITGQKMRSWCGMV 65 (248)
Q Consensus 34 ~~~~~~~~~------~~P~l~ii~~~~g~~l~~~~G~~ 65 (248)
.+++.|++. .||..+||+|. |.+...+.+..
T Consensus 111 ~ia~~ygv~~~~~g~~~r~~fiID~~-G~i~~~~~~~~ 147 (199)
T PTZ00253 111 SIARSYGVLEEEQGVAYRGLFIIDPK-GMLRQITVNDM 147 (199)
T ss_pred HHHHHcCCcccCCCceEEEEEEECCC-CEEEEEEecCC
Confidence 567778773 47899999964 77766655543
No 221
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=25.84 E-value=2.2e+02 Score=19.35 Aligned_cols=44 Identities=18% Similarity=0.157 Sum_probs=32.5
Q ss_pred EEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEEEc
Q 025774 172 RVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRLTH 216 (248)
Q Consensus 172 ~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L~~ 216 (248)
.+++-||||++..-.-....+++++..-+-.. .+..+..+.+..
T Consensus 2 ~~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~k-r~L~~~~~~V~~ 45 (71)
T PF02196_consen 2 TCRVHLPNGQRTVVQVRPGMTIRDALSKACKK-RGLNPECCDVRL 45 (71)
T ss_dssp EEEEEETTTEEEEEEE-TTSBHHHHHHHHHHT-TT--CCCEEEEE
T ss_pred eEEEECCCCCEEEEEEcCCCCHHHHHHHHHHH-cCCCHHHEEEEE
Confidence 36788999999999999999999988877554 355566776654
No 222
>PRK10877 protein disulfide isomerase II DsbC; Provisional
Probab=25.47 E-value=1.3e+02 Score=25.47 Aligned_cols=65 Identities=12% Similarity=0.205 Sum_probs=40.6
Q ss_pred ccCCCH----HHHHHhhcceEEE-EEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 5 DTWANE----AVSQTISTNFIFW-QVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 5 ~vl~~~----~v~~~l~~~fV~w-~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
.+||+. .+.+.+...-+-. .++..-.+-..+++.+++...|++++-+ |.. +.|..++++|...|.
T Consensus 159 ~iwca~d~~~a~~~~~~~~~~~~~~c~~~v~~~~~la~~lgi~gTPtiv~~~---G~~---~~G~~~~~~L~~~l~ 228 (232)
T PRK10877 159 SIWCAADRNKAFDDAMKGKDVSPASCDVDIADHYALGVQFGVQGTPAIVLSN---GTL---VPGYQGPKEMKAFLD 228 (232)
T ss_pred HHhcCCCHHHHHHHHHcCCCCCcccccchHHHhHHHHHHcCCccccEEEEcC---CeE---eeCCCCHHHHHHHHH
Confidence 578874 2333343322211 1222234456788999999999998543 654 489999998866654
No 223
>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=25.47 E-value=1.7e+02 Score=21.89 Aligned_cols=35 Identities=14% Similarity=0.304 Sum_probs=26.2
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHH
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L 74 (248)
...+..+++..+|++.|- |. .+.|..+.+.|...|
T Consensus 119 ~~~~~~~gi~gtPt~~v~----g~---~~~G~~~~~~l~~~i 153 (154)
T cd03023 119 RQLARALGITGTPAFIIG----DT---VIPGAVPADTLKEAI 153 (154)
T ss_pred HHHHHHcCCCcCCeEEEC----CE---EecCCCCHHHHHHHh
Confidence 356678899999997752 43 478999988886654
No 224
>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=25.46 E-value=3.3e+02 Score=22.36 Aligned_cols=40 Identities=13% Similarity=0.152 Sum_probs=23.8
Q ss_pred HHHHhcCCC--------CCceEEEEeCCCCceEEeeeCCC----ChHHHHHHH
Q 025774 34 KVCTYYKLD--------SIPVVLVVDPITGQKMRSWCGMV----QPESLLEDL 74 (248)
Q Consensus 34 ~~~~~~~~~--------~~P~l~ii~~~~g~~l~~~~G~~----~~e~l~~~L 74 (248)
.+++.|++. ..|.++||++. |.+...+.|.. ..++++..|
T Consensus 99 ~ia~~yg~~~~~~~~~~~~r~~fiID~~-G~I~~~~~~~~~~gr~~~ell~~l 150 (203)
T cd03016 99 EVAKLLGMIDPDAGSTLTVRAVFIIDPD-KKIRLILYYPATTGRNFDEILRVV 150 (203)
T ss_pred HHHHHcCCccccCCCCceeeEEEEECCC-CeEEEEEecCCCCCCCHHHHHHHH
Confidence 566677753 24568889864 77666665543 344554444
No 225
>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=24.70 E-value=2.3e+02 Score=20.97 Aligned_cols=19 Identities=16% Similarity=0.289 Sum_probs=11.7
Q ss_pred eEEEEeCCCCceEEeeeCCC
Q 025774 46 VVLVVDPITGQKMRSWCGMV 65 (248)
Q Consensus 46 ~l~ii~~~~g~~l~~~~G~~ 65 (248)
++.||++ +|.++..+.|..
T Consensus 112 ~~~lid~-~g~i~~~~~~~~ 130 (140)
T cd02971 112 ATFIIDP-DGKIRYVEVEPL 130 (140)
T ss_pred EEEEECC-CCcEEEEEecCC
Confidence 5666663 466666666643
No 226
>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=23.51 E-value=1.5e+02 Score=22.12 Aligned_cols=40 Identities=20% Similarity=0.334 Sum_probs=28.0
Q ss_pred HHHhcCCCCCceEEEEeCCC----------CceEEeeeCCCChHHHHHHH
Q 025774 35 VCTYYKLDSIPVVLVVDPIT----------GQKMRSWCGMVQPESLLEDL 74 (248)
Q Consensus 35 ~~~~~~~~~~P~l~ii~~~~----------g~~l~~~~G~~~~e~l~~~L 74 (248)
+-+.|+++.-|.+++..... ...-.++.|.++....++.+
T Consensus 63 ~F~~y~I~~VPa~V~~~~~~~~~~~~~~~~~~~~~~~~Gdvsl~~aLe~i 112 (113)
T PF09673_consen 63 LFRQYNITAVPAFVVVKDRVCVCLSCGCCSPEDYDVVYGDVSLDYALEKI 112 (113)
T ss_pred HHhhCCceEcCEEEEEcCcccccccCCcCCCCcceEEEccccHHHHHHhh
Confidence 34578899999999998611 11356688888887766654
No 227
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=23.49 E-value=2e+02 Score=28.42 Aligned_cols=77 Identities=13% Similarity=0.143 Sum_probs=55.8
Q ss_pred ccCCCH------HHHHHhhc-ceEEEEEecCChHHHHHHHhcCCCCCceEEEEeCC--------CCceEEeeeCCCChHH
Q 025774 5 DTWANE------AVSQTIST-NFIFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPI--------TGQKMRSWCGMVQPES 69 (248)
Q Consensus 5 ~vl~~~------~v~~~l~~-~fV~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~--------~g~~l~~~~G~~~~e~ 69 (248)
+++|+. ++.++-.+ ..++.-++-+|+...+++......+-|...|=.+. .-..+....|..+|+.
T Consensus 187 ~tiC~at~~Rq~a~~~la~~~d~~~vvGg~~SsNt~~L~~i~~~~~~~~~~ie~~~el~~~~~~~~~~vgitagaStP~~ 266 (647)
T PRK00087 187 NTICNATEVRQEAAEKLAKKVDVMIVVGGKNSSNTTKLYEICKSNCTNTIHIENAGELPEEWFKGVKIIGVTAGASTPDW 266 (647)
T ss_pred CCcchhhhhHHHHHHHHHhhCCEEEEECCCCCccHHHHHHHHHHHCCCEEEECChHHCCHHHhCCCCEEEEEeccCCCHH
Confidence 566664 56777764 78888888888888888777665566666653321 1225888999999999
Q ss_pred HHHHHhhhhhcC
Q 025774 70 LLEDLVPFMDGG 81 (248)
Q Consensus 70 l~~~L~~~~~~~ 81 (248)
++..+...|...
T Consensus 267 ~i~~v~~~l~~~ 278 (647)
T PRK00087 267 IIEEVIKKMSEL 278 (647)
T ss_pred HHHHHHHHHHHh
Confidence 999988888753
No 228
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=22.05 E-value=42 Score=24.30 Aligned_cols=16 Identities=6% Similarity=0.243 Sum_probs=11.5
Q ss_pred cccCCCHHHHHHhhcc
Q 025774 4 RDTWANEAVSQTISTN 19 (248)
Q Consensus 4 r~vl~~~~v~~~l~~~ 19 (248)
..||.|+.|.+||.+|
T Consensus 26 ~~vl~dp~V~~Fl~~h 41 (94)
T PF07319_consen 26 QEVLSDPEVQAFLQEH 41 (94)
T ss_dssp HHHTT-HHHHHHHHHS
T ss_pred HHHHcCHHHHHHHHHh
Confidence 4578888888888876
No 229
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=21.64 E-value=3.1e+02 Score=19.63 Aligned_cols=44 Identities=14% Similarity=0.246 Sum_probs=30.1
Q ss_pred EEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCC--CcCeEEEc
Q 025774 173 VGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSE--MKPFRLTH 216 (248)
Q Consensus 173 i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~--~~~f~L~~ 216 (248)
..|+-|.|..+.-++..++.+..|..=|...+.... ...|.|..
T Consensus 3 FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 3 FKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred EEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 456778887655555668999999999988874321 14566643
No 230
>PF13778 DUF4174: Domain of unknown function (DUF4174)
Probab=21.63 E-value=3.5e+02 Score=20.24 Aligned_cols=48 Identities=17% Similarity=0.226 Sum_probs=32.9
Q ss_pred HHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhcCC
Q 025774 31 EGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDGGP 82 (248)
Q Consensus 31 eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~~~ 82 (248)
....+.+.|++..-.|-+|+....|.+=.++.+.++++++ -..||..+
T Consensus 65 ~~~~lr~~l~~~~~~f~~vLiGKDG~vK~r~~~p~~~~~l----f~~ID~MP 112 (118)
T PF13778_consen 65 DIQALRKRLRIPPGGFTVVLIGKDGGVKLRWPEPIDPEEL----FDTIDAMP 112 (118)
T ss_pred HHHHHHHHhCCCCCceEEEEEeCCCcEEEecCCCCCHHHH----HHHHhCCc
Confidence 3457888999866556555545667765668888898877 55566654
No 231
>COG0386 BtuE Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=21.55 E-value=1.5e+02 Score=23.87 Aligned_cols=70 Identities=14% Similarity=0.317 Sum_probs=43.4
Q ss_pred CCHHHHHHhhcce-----EEEEEecCChHHHHHHHhcCCCC----------Cce-EEEEeCCCCceEEeeeCCCChHHHH
Q 025774 8 ANEAVSQTISTNF-----IFWQVYDDTSEGKKVCTYYKLDS----------IPV-VLVVDPITGQKMRSWCGMVQPESLL 71 (248)
Q Consensus 8 ~~~~v~~~l~~~f-----V~w~~d~~~~eg~~~~~~~~~~~----------~P~-l~ii~~~~g~~l~~~~G~~~~e~l~ 71 (248)
.+++|.+|...|| +|=..+++-.++.-+-+.+.... .=| =.+|+ ++|.++.+..-.+.|+++.
T Consensus 75 ~~eEI~~fC~~~YgVtFp~f~Ki~VnG~~a~PLy~~L~~~~~g~~~~~~IkWNFtKFLvd-r~G~VV~Rf~p~t~P~d~~ 153 (162)
T COG0386 75 SDEEIAKFCQLNYGVTFPMFSKIDVNGKNAHPLYKYLKEQKPGKLGGKDIKWNFTKFLVD-RDGNVVKRFSPKTKPEDIE 153 (162)
T ss_pred CHHHHHHHHHhccCceeeeeeEEeecCCCCCcHHHHHHhcCCCCccCCccceeeEEEEEc-CCCcEEEeeCCCCChhhHH
Confidence 4567788877764 55566776666543333332111 111 24555 7799999998888898887
Q ss_pred HHHhhhh
Q 025774 72 EDLVPFM 78 (248)
Q Consensus 72 ~~L~~~~ 78 (248)
..+...+
T Consensus 154 ~~Ie~lL 160 (162)
T COG0386 154 LAIEKLL 160 (162)
T ss_pred HHHHHHh
Confidence 7666554
No 232
>PRK13189 peroxiredoxin; Provisional
Probab=21.30 E-value=1.5e+02 Score=25.02 Aligned_cols=41 Identities=12% Similarity=0.166 Sum_probs=24.3
Q ss_pred HHHHhcCCC-------CCceEEEEeCCCCceEEeeeCCC----ChHHHHHHHh
Q 025774 34 KVCTYYKLD-------SIPVVLVVDPITGQKMRSWCGMV----QPESLLEDLV 75 (248)
Q Consensus 34 ~~~~~~~~~-------~~P~l~ii~~~~g~~l~~~~G~~----~~e~l~~~L~ 75 (248)
.+++.|++. ..|.++||+|. |.+...+-+.. ..++++..|.
T Consensus 109 ~ia~~ygv~~~~~~~~~~r~tfIID~~-G~Ir~~~~~~~~~gr~~~eilr~l~ 160 (222)
T PRK13189 109 EIAKKLGMISPGKGTNTVRAVFIIDPK-GIIRAILYYPQEVGRNMDEILRLVK 160 (222)
T ss_pred HHHHHhCCCccccCCCceeEEEEECCC-CeEEEEEecCCCCCCCHHHHHHHHH
Confidence 455666653 56889999864 77655544322 3556655554
No 233
>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=21.20 E-value=2.6e+02 Score=21.23 Aligned_cols=36 Identities=17% Similarity=0.241 Sum_probs=26.4
Q ss_pred HHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHh
Q 025774 33 KKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 33 ~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~ 75 (248)
.+.+..+++...|.+.| +|.. +.|..++++|...|.
T Consensus 126 ~~~~~~~~i~~tPt~~i----nG~~---~~~~~~~~~l~~~Id 161 (162)
T PF13462_consen 126 SQLARQLGITGTPTFFI----NGKY---VVGPYTIEELKELID 161 (162)
T ss_dssp HHHHHHHT-SSSSEEEE----TTCE---EETTTSHHHHHHHHH
T ss_pred HHHHHHcCCccccEEEE----CCEE---eCCCCCHHHHHHHHc
Confidence 35667889999999997 4665 477888888866553
No 234
>KOG3530 consensus FERM domain protein EHM2 [General function prediction only]
Probab=20.79 E-value=1.5e+02 Score=29.07 Aligned_cols=47 Identities=30% Similarity=0.284 Sum_probs=37.5
Q ss_pred CCceEEEEEcCCCceEEEeeCCCCchHHHHHHHHhhcCCCCCcCeEE
Q 025774 168 SLLCRVGVRLPDGRRMQRNFLRTDPIQLLWSYCYSQLEGSEMKPFRL 214 (248)
Q Consensus 168 ~~~~~i~iRlp~G~r~~r~F~~~~~l~~l~~fv~~~~~~~~~~~f~L 214 (248)
+..+.-+|.|-||+-+.-.|.++.+-+.|||+|..+++-...+-|-|
T Consensus 8 k~~~~C~V~LLd~sdl~~~~pk~akGq~Lld~V~~~ldl~E~DYFGL 54 (616)
T KOG3530|consen 8 KKDVYCRVLLLDGSDLSINFPKTAKGQELLDYVFYHLDLIEKDYFGL 54 (616)
T ss_pred CcceEEEEEEecCccceeccCcccchHHHHHHHHHhhceeeeeccce
Confidence 45678889999999988999999999999999998865323344444
No 235
>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=20.75 E-value=2.1e+02 Score=22.17 Aligned_cols=41 Identities=17% Similarity=0.255 Sum_probs=29.6
Q ss_pred HHHhcCCCCCceEEEEeCCC---Cc------eEEeeeCCCChHHHHHHHh
Q 025774 35 VCTYYKLDSIPVVLVVDPIT---GQ------KMRSWCGMVQPESLLEDLV 75 (248)
Q Consensus 35 ~~~~~~~~~~P~l~ii~~~~---g~------~l~~~~G~~~~e~l~~~L~ 75 (248)
+-+.|+++.-|.++++.+.. +. .-.++.|.++.+..++.+.
T Consensus 63 lF~~f~I~~VPa~V~~~~~~~c~~~~~~~~~~~d~v~Gdvsl~~ALe~ia 112 (130)
T TIGR02742 63 WFKQFDITAVPAFVVVKDGLACLPEQPCPESDYDVVYGNVSLKGALEKMA 112 (130)
T ss_pred HHhhcCceEcCEEEEECCCCcccccCCCCCCCeeEEEecccHHHHHHHHH
Confidence 34578899999999997542 00 2567889998888776665
No 236
>KOG0191 consensus Thioredoxin/protein disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=20.03 E-value=4.3e+02 Score=23.97 Aligned_cols=58 Identities=28% Similarity=0.371 Sum_probs=42.2
Q ss_pred EEEEEecCChHHHHHHHhcCCCCCceEEEEeCCCCceEEeeeCCCChHHHHHHHhhhhhc
Q 025774 21 IFWQVYDDTSEGKKVCTYYKLDSIPVVLVVDPITGQKMRSWCGMVQPESLLEDLVPFMDG 80 (248)
Q Consensus 21 V~w~~d~~~~eg~~~~~~~~~~~~P~l~ii~~~~g~~l~~~~G~~~~e~l~~~L~~~~~~ 80 (248)
+.-.+.++..+=..+++.|++..||++.+..+ |......+|..+.+.+...+...++.
T Consensus 79 ~~~~~~vd~~~~~~~~~~y~i~gfPtl~~f~~--~~~~~~~~~~~~~~~~~~~~~~~~~~ 136 (383)
T KOG0191|consen 79 KVKIGAVDCDEHKDLCEKYGIQGFPTLKVFRP--GKKPIDYSGPRNAESLAEFLIKELEP 136 (383)
T ss_pred ceEEEEeCchhhHHHHHhcCCccCcEEEEEcC--CCceeeccCcccHHHHHHHHHHhhcc
Confidence 45555666677778999999999999999976 34455577777777776666555554
Done!