Query 031269
Match_columns 162
No_of_seqs 127 out of 886
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 11:42:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031269.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031269hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd04714 BAH_BAHCC1 BAH, or Bro 100.0 4.5E-36 9.8E-41 211.5 10.8 120 21-157 2-121 (121)
2 cd04713 BAH_plant_3 BAH, or Br 100.0 4.9E-35 1.1E-39 212.2 14.1 129 2-134 2-134 (146)
3 cd04717 BAH_polybromo BAH, or 100.0 4.1E-34 8.9E-39 201.6 11.7 116 21-137 2-120 (121)
4 cd04716 BAH_plantDCM_I BAH, or 100.0 1E-31 2.2E-36 188.8 12.5 113 21-135 2-119 (122)
5 PF01426 BAH: BAH domain; Int 100.0 2.5E-31 5.4E-36 186.0 12.0 113 22-136 2-118 (119)
6 smart00439 BAH Bromo adjacent 100.0 8E-31 1.7E-35 183.6 12.8 114 22-135 1-118 (120)
7 cd04370 BAH BAH, or Bromo Adja 100.0 5.1E-31 1.1E-35 184.8 11.4 114 21-135 2-121 (123)
8 cd04721 BAH_plant_1 BAH, or Br 100.0 5.2E-31 1.1E-35 187.5 10.1 111 15-130 2-118 (130)
9 cd04709 BAH_MTA BAH, or Bromo 100.0 8.4E-30 1.8E-34 187.1 12.4 115 22-138 3-141 (164)
10 cd04715 BAH_Orc1p_like BAH, or 100.0 5.1E-29 1.1E-33 182.4 12.6 106 4-114 13-127 (159)
11 cd04710 BAH_fungalPHD BAH, or 100.0 2.6E-28 5.6E-33 174.4 12.0 113 20-134 9-134 (135)
12 cd04712 BAH_DCM_I BAH, or Brom 99.9 9.3E-27 2E-31 165.7 13.4 110 21-135 4-127 (130)
13 cd04718 BAH_plant_2 BAH, or Br 99.9 4.1E-29 8.9E-34 178.7 1.1 96 38-135 51-146 (148)
14 cd04720 BAH_Orc1p_Yeast BAH, o 99.9 1.7E-26 3.7E-31 172.5 13.5 117 20-137 50-178 (179)
15 cd04760 BAH_Dnmt1_I BAH, or Br 99.9 1.1E-26 2.4E-31 162.7 10.5 111 21-134 2-124 (124)
16 cd04708 BAH_plantDCM_II BAH, o 99.9 1.2E-26 2.6E-31 174.5 11.3 118 14-134 1-143 (202)
17 cd04719 BAH_Orc1p_animal BAH, 99.9 1.6E-24 3.6E-29 153.1 8.7 110 21-131 2-123 (128)
18 KOG1886 BAH domain proteins [T 99.9 8.2E-24 1.8E-28 174.6 8.8 158 2-161 31-193 (464)
19 cd04711 BAH_Dnmt1_II BAH, or B 99.9 7.6E-23 1.7E-27 144.1 8.4 103 32-134 19-133 (137)
20 KOG1827 Chromatin remodeling c 99.8 1.1E-18 2.3E-23 149.2 7.1 139 9-150 178-320 (629)
21 KOG3554 Histone deacetylase co 99.1 9.4E-12 2E-16 102.9 -2.3 115 22-138 5-165 (693)
22 KOG1632 Uncharacterized PHD Zn 94.1 0.023 4.9E-07 46.9 1.3 81 81-162 3-83 (345)
23 PF09926 DUF2158: Uncharacteri 92.8 0.25 5.4E-06 29.5 3.9 39 23-66 1-39 (53)
24 COG5076 Transcription factor i 92.4 0.014 3E-07 48.4 -2.5 95 13-110 269-363 (371)
25 PTZ00112 origin recognition co 91.4 0.18 3.9E-06 46.7 3.1 122 8-131 440-605 (1164)
26 cd05834 HDGF_related The PWWP 89.0 0.89 1.9E-05 29.6 4.2 42 22-66 2-43 (83)
27 cd05835 Dnmt3b_related The PWW 88.9 0.66 1.4E-05 30.5 3.5 41 23-65 1-43 (87)
28 PF10383 Clr2: Transcription-s 88.7 2.6 5.7E-05 30.2 6.8 54 9-64 1-70 (139)
29 PF00628 PHD: PHD-finger; Int 88.1 0.48 1E-05 27.5 2.2 21 141-162 1-22 (51)
30 COG5475 Uncharacterized small 85.9 4 8.7E-05 24.6 5.2 49 22-84 4-52 (60)
31 cd06080 MUM1_like Mutated mela 85.8 1.8 4E-05 28.1 4.2 39 23-67 1-39 (80)
32 PRK10708 hypothetical protein; 85.4 4.4 9.6E-05 24.5 5.3 44 24-70 2-52 (62)
33 PF11302 DUF3104: Protein of u 85.4 2.2 4.8E-05 27.3 4.3 31 22-52 5-40 (75)
34 PF10781 DSRB: Dextransucrase 85.2 4.5 9.9E-05 24.4 5.3 45 24-71 2-53 (62)
35 smart00249 PHD PHD zinc finger 83.9 0.91 2E-05 25.1 1.9 19 143-162 4-22 (47)
36 smart00293 PWWP domain with co 80.9 3.3 7.2E-05 25.2 3.8 41 23-65 1-47 (63)
37 PF08940 DUF1918: Domain of un 80.5 3.7 8.1E-05 24.9 3.7 39 24-64 4-42 (58)
38 cd05162 PWWP The PWWP domain, 80.0 3.6 7.9E-05 26.6 4.0 41 23-65 1-46 (87)
39 PF07154 DUF1392: Protein of u 79.3 6.8 0.00015 28.2 5.3 49 8-68 75-123 (150)
40 PF00467 KOW: KOW motif; Inte 78.9 6.1 0.00013 20.6 3.9 26 25-52 1-26 (32)
41 PF11717 Tudor-knot: RNA bindi 77.8 6.8 0.00015 23.2 4.4 37 23-63 1-37 (55)
42 PF15057 DUF4537: Domain of un 76.3 6 0.00013 27.7 4.4 45 22-66 55-99 (124)
43 smart00739 KOW KOW (Kyprides, 75.3 7.1 0.00015 19.1 3.4 26 23-50 2-27 (28)
44 cd05840 SPBC215_ISWI_like The 74.8 4.5 9.7E-05 26.9 3.3 40 23-65 1-49 (93)
45 COG3257 GlxB Uncharacterized p 74.2 9.4 0.0002 29.7 5.2 49 14-74 96-144 (264)
46 PF00855 PWWP: PWWP domain; I 74.1 4.3 9.4E-05 25.9 3.0 41 23-65 1-43 (86)
47 PF09871 DUF2098: Uncharacteri 70.6 14 0.0003 24.6 4.8 43 22-71 2-47 (91)
48 cd03703 aeIF5B_II aeIF5B_II: T 68.3 17 0.00037 25.0 5.0 44 4-53 10-54 (110)
49 COG4014 Uncharacterized protei 66.6 23 0.00049 23.5 5.0 41 24-70 10-53 (97)
50 PRK12281 rplX 50S ribosomal pr 63.0 19 0.00041 23.1 4.1 29 22-52 6-34 (76)
51 PF11926 DUF3444: Domain of un 62.3 21 0.00045 27.6 5.0 44 20-66 25-68 (217)
52 CHL00141 rpl24 ribosomal prote 60.9 20 0.00044 23.3 4.1 29 22-52 8-36 (83)
53 PRK13251 transcription attenua 60.9 23 0.00051 22.3 4.1 48 59-106 19-66 (75)
54 PF11132 SplA: Transcriptional 60.2 7.5 0.00016 24.7 1.9 26 22-48 5-30 (75)
55 cd05836 N_Pac_NP60 The PWWP do 57.9 14 0.0003 24.1 2.9 42 23-66 1-45 (86)
56 PRK00004 rplX 50S ribosomal pr 57.0 24 0.00052 24.0 4.1 29 22-52 4-32 (105)
57 KOG2752 Uncharacterized conser 56.2 7.4 0.00016 31.7 1.7 23 140-162 129-156 (345)
58 PF02081 TrpBP: Tryptophan RNA 55.8 18 0.0004 22.8 3.0 48 59-106 19-66 (75)
59 PF09378 HAS-barrel: HAS barre 55.6 17 0.00037 23.2 3.1 36 13-51 14-49 (91)
60 PF03144 GTP_EFTU_D2: Elongati 55.3 26 0.00056 21.4 3.8 31 22-52 12-42 (74)
61 TIGR01079 rplX_bact ribosomal 53.1 30 0.00066 23.5 4.1 29 22-52 3-31 (104)
62 COG1370 Prefoldin, molecular c 52.7 13 0.00028 27.0 2.3 39 5-45 94-132 (155)
63 cd03702 IF2_mtIF2_II This fami 51.0 42 0.0009 22.3 4.5 39 5-52 11-49 (95)
64 smart00652 eIF1a eukaryotic tr 50.8 36 0.00079 22.1 4.0 28 21-50 42-69 (83)
65 cd05793 S1_IF1A S1_IF1A: Trans 50.5 34 0.00074 21.8 3.8 28 21-50 37-64 (77)
66 COG1188 Ribosome-associated he 48.0 44 0.00096 22.6 4.2 44 6-53 33-76 (100)
67 cd05837 MSH6_like The PWWP dom 46.9 35 0.00077 23.2 3.7 44 22-67 2-53 (110)
68 cd03701 IF2_IF5B_II IF2_IF5B_I 46.7 60 0.0013 21.4 4.7 39 5-52 11-49 (95)
69 smart00743 Agenet Tudor-like d 46.2 36 0.00077 20.1 3.3 28 22-50 2-29 (61)
70 PRK01191 rpl24p 50S ribosomal 45.9 47 0.001 23.2 4.2 30 21-52 44-73 (120)
71 PF01176 eIF-1a: Translation i 44.8 27 0.00058 21.4 2.6 25 21-47 40-64 (65)
72 cd04456 S1_IF1A_like S1_IF1A_l 44.8 54 0.0012 21.0 4.1 29 21-50 37-65 (78)
73 KOG1568 Mitochondrial inner me 43.8 60 0.0013 24.1 4.6 85 8-102 56-145 (174)
74 COG4101 Predicted mannose-6-ph 43.7 61 0.0013 22.9 4.4 41 22-64 91-137 (142)
75 TIGR03214 ura-cupin putative a 43.3 1.3E+02 0.0028 23.7 6.9 22 14-35 93-114 (260)
76 COG0662 {ManC} Mannose-6-phosp 43.2 24 0.00052 24.5 2.5 23 14-36 70-92 (127)
77 PF12503 CMV_1a_C: Cucumber mo 42.7 21 0.00045 23.2 1.9 41 45-89 20-71 (85)
78 PF07883 Cupin_2: Cupin domain 41.1 28 0.00061 20.7 2.3 22 14-35 32-53 (71)
79 KOG4323 Polycomb-like PHD Zn-f 39.8 19 0.00041 31.0 1.8 22 139-161 171-192 (464)
80 PRK04012 translation initiatio 38.9 63 0.0014 21.8 3.9 28 21-50 58-85 (100)
81 cd06530 S26_SPase_I The S26 Ty 38.7 63 0.0014 20.2 3.8 25 23-47 32-56 (85)
82 PF06940 DUF1287: Domain of un 38.6 39 0.00086 24.9 3.0 39 14-55 98-136 (164)
83 PF08921 DUF1904: Domain of un 38.1 13 0.00028 25.5 0.4 15 57-71 56-70 (108)
84 TIGR00405 L26e_arch ribosomal 37.8 1.2E+02 0.0025 21.4 5.4 43 22-70 86-128 (145)
85 PF04085 MreC: rod shape-deter 37.6 1.5E+02 0.0033 21.2 6.1 48 21-68 92-141 (152)
86 PF00667 FAD_binding_1: FAD bi 37.3 61 0.0013 24.6 4.1 24 13-36 32-55 (219)
87 COG1917 Uncharacterized conser 36.8 40 0.00087 23.2 2.8 22 14-35 77-98 (131)
88 KOG0957 PHD finger protein [Ge 36.1 29 0.00064 30.3 2.3 27 135-161 116-143 (707)
89 PF02311 AraC_binding: AraC-li 35.8 91 0.002 20.5 4.5 22 14-35 36-57 (136)
90 PF12961 DUF3850: Domain of Un 35.6 34 0.00075 21.7 2.0 37 13-49 19-58 (72)
91 PRK03187 tgl transglutaminase; 35.4 30 0.00065 27.6 2.1 19 15-35 160-178 (272)
92 COG0250 NusG Transcription ant 35.4 1.1E+02 0.0023 22.9 5.0 45 21-69 122-166 (178)
93 PRK08559 nusG transcription an 35.1 1.1E+02 0.0023 22.1 4.9 43 22-70 94-136 (153)
94 PRK04980 hypothetical protein; 35.0 77 0.0017 21.5 3.8 31 14-46 22-53 (102)
95 PTZ00194 60S ribosomal protein 33.8 83 0.0018 22.7 4.0 39 22-64 46-84 (143)
96 PF01079 Hint: Hint module; I 33.7 56 0.0012 25.2 3.3 28 22-50 105-132 (217)
97 COG3269 Predicted RNA-binding 33.7 1.3E+02 0.0028 19.2 4.6 41 2-46 27-69 (73)
98 CHL00010 infA translation init 33.2 1.1E+02 0.0023 19.5 4.1 29 22-52 46-74 (78)
99 PF07494 Reg_prop: Two compone 33.0 63 0.0014 15.4 2.5 15 44-59 6-20 (24)
100 COG0198 RplX Ribosomal protein 32.7 78 0.0017 21.6 3.5 28 22-51 4-31 (104)
101 PF14446 Prok-RING_1: Prokaryo 32.5 40 0.00086 20.2 1.8 22 140-161 7-28 (54)
102 cd04466 S1_YloQ_GTPase S1_YloQ 32.3 65 0.0014 19.2 2.9 25 22-50 37-61 (68)
103 PRK02935 hypothetical protein; 32.3 24 0.00052 24.1 1.0 10 153-162 69-78 (110)
104 PRK13922 rod shape-determining 31.6 2.4E+02 0.0051 22.2 6.7 48 21-68 213-262 (276)
105 PF09345 DUF1987: Domain of un 31.5 37 0.0008 22.8 1.8 15 57-71 77-91 (99)
106 TIGR02227 sigpep_I_bact signal 31.0 1.4E+02 0.003 21.6 4.9 28 22-49 51-78 (163)
107 PF05180 zf-DNL: DNL zinc fing 30.8 25 0.00053 22.0 0.8 11 151-161 26-36 (66)
108 PRK12496 hypothetical protein; 30.6 31 0.00067 25.4 1.4 26 136-161 124-150 (164)
109 PRK00276 infA translation init 30.6 1.1E+02 0.0025 18.9 3.9 12 22-33 46-57 (72)
110 TIGR01956 NusG_myco NusG famil 30.5 1.4E+02 0.003 23.8 5.1 43 22-68 205-247 (258)
111 COG1935 Uncharacterized conser 30.3 1.1E+02 0.0024 21.3 4.0 43 8-50 19-71 (122)
112 PF04322 DUF473: Protein of un 29.2 2E+02 0.0044 20.1 6.4 43 8-50 19-71 (119)
113 COG4127 Uncharacterized conser 29.1 40 0.00088 27.2 1.9 42 22-64 72-117 (318)
114 TIGR01080 rplX_A_E ribosomal p 28.6 1.1E+02 0.0025 21.1 3.9 29 21-51 40-68 (114)
115 PF05899 Cupin_3: Protein of u 28.5 35 0.00076 21.3 1.2 19 17-35 42-60 (74)
116 PRK11171 hypothetical protein; 28.3 2.3E+02 0.0049 22.4 6.1 22 14-35 96-117 (266)
117 PRK09943 DNA-binding transcrip 27.6 65 0.0014 23.7 2.8 42 14-67 141-182 (185)
118 smart00734 ZnF_Rad18 Rad18-lik 27.6 28 0.0006 17.4 0.5 9 154-162 1-9 (26)
119 KOG1973 Chromatin remodeling p 27.6 42 0.00092 26.7 1.8 23 137-161 217-241 (274)
120 PTZ00329 eukaryotic translatio 27.2 1.2E+02 0.0025 22.3 3.9 16 57-72 87-102 (155)
121 KOG1827 Chromatin remodeling c 26.8 41 0.00088 30.2 1.7 49 22-74 375-423 (629)
122 PF06719 AraC_N: AraC-type tra 26.8 2.1E+02 0.0046 20.4 5.3 20 15-34 37-56 (155)
123 PF11023 DUF2614: Protein of u 26.8 36 0.00079 23.5 1.1 10 153-162 68-77 (114)
124 COG0298 HypC Hydrogenase matur 26.8 72 0.0016 20.7 2.4 13 22-34 38-50 (82)
125 cd05838 WHSC1_related The PWWP 26.5 1.1E+02 0.0024 20.2 3.4 39 24-64 2-46 (95)
126 COG1471 RPS4A Ribosomal protei 26.5 3E+02 0.0066 21.6 6.2 15 21-35 151-165 (241)
127 PLN00208 translation initiatio 26.3 1.2E+02 0.0027 21.9 3.8 17 57-73 87-103 (145)
128 cd03698 eRF3_II_like eRF3_II_l 26.0 1.7E+02 0.0037 18.3 4.2 25 22-51 26-50 (83)
129 cd05792 S1_eIF1AD_like S1_eIF1 25.8 1.6E+02 0.0035 18.9 4.0 15 21-35 37-51 (78)
130 PF13437 HlyD_3: HlyD family s 25.3 2E+02 0.0042 18.6 5.5 31 22-52 49-80 (105)
131 COG5216 Uncharacterized conser 25.3 1E+02 0.0022 18.9 2.7 38 124-161 12-51 (67)
132 COG3450 Predicted enzyme of th 24.9 63 0.0014 22.5 2.1 18 18-35 81-98 (116)
133 cd05841 BS69_related The PWWP 24.7 1.6E+02 0.0034 19.1 3.8 39 23-69 7-45 (83)
134 COG3097 Uncharacterized protei 24.7 1.7E+02 0.0038 19.6 4.0 36 14-51 23-59 (106)
135 PF02559 CarD_CdnL_TRCF: CarD- 24.3 1E+02 0.0022 20.1 3.0 24 23-52 2-25 (98)
136 KOG1740 Predicted mitochondria 24.1 49 0.0011 22.5 1.3 27 10-36 37-63 (107)
137 PTZ00223 40S ribosomal protein 24.1 2.8E+02 0.0061 22.3 5.8 14 22-35 150-163 (273)
138 TIGR00922 nusG transcription t 24.0 2.2E+02 0.0048 20.5 5.0 45 22-70 119-163 (172)
139 KOG3342 Signal peptidase I [In 24.0 35 0.00075 25.1 0.7 33 22-55 77-109 (180)
140 PRK15457 ethanolamine utilizat 24.0 72 0.0016 25.0 2.4 22 14-35 188-209 (233)
141 PF10844 DUF2577: Protein of u 24.0 78 0.0017 21.1 2.4 14 22-35 76-89 (100)
142 TIGR00523 eIF-1A eukaryotic/ar 23.6 1.5E+02 0.0033 19.9 3.7 29 21-50 56-84 (99)
143 TIGR00008 infA translation ini 23.4 1.3E+02 0.0028 18.8 3.1 24 21-46 43-66 (68)
144 TIGR02754 sod_Ni_protease nick 23.3 1.6E+02 0.0034 18.7 3.7 29 22-50 11-40 (90)
145 TIGR00074 hypC_hupF hydrogenas 23.2 53 0.0012 21.0 1.4 14 22-35 35-48 (76)
146 PRK10409 hydrogenase assembly 23.2 55 0.0012 21.7 1.4 14 22-35 41-54 (90)
147 PRK00420 hypothetical protein; 23.1 53 0.0012 22.7 1.4 23 140-162 24-48 (112)
148 KOG2133 Transcriptional corepr 22.8 54 0.0012 31.0 1.8 112 21-134 144-281 (1229)
149 COG0361 InfA Translation initi 22.5 1.1E+02 0.0023 19.6 2.6 14 22-35 46-59 (75)
150 TIGR01665 put_anti_recept phag 22.2 1.4E+02 0.003 23.9 3.9 31 21-52 276-306 (317)
151 TIGR00219 mreC rod shape-deter 22.0 4.1E+02 0.0089 21.2 6.5 49 21-69 214-264 (283)
152 PLN00036 40S ribosomal protein 21.9 3.2E+02 0.0069 21.8 5.7 14 22-35 153-166 (261)
153 PRK10413 hydrogenase 2 accesso 21.9 61 0.0013 21.1 1.4 14 22-35 42-55 (82)
154 COG2895 CysN GTPases - Sulfate 21.9 1.7E+02 0.0038 24.8 4.4 36 8-48 238-273 (431)
155 KOG1698 Mitochondrial/chloropl 21.9 2.8E+02 0.0061 21.2 5.2 33 22-54 96-130 (201)
156 COG1096 Predicted RNA-binding 21.4 51 0.0011 24.9 1.1 23 139-161 150-172 (188)
157 PF01050 MannoseP_isomer: Mann 20.8 1.1E+02 0.0024 22.1 2.8 23 13-35 96-118 (151)
158 COG4481 Uncharacterized protei 20.6 50 0.0011 19.8 0.7 14 22-35 4-17 (60)
159 cd03694 GTPBP_II Domain II of 20.5 2.4E+02 0.0052 17.9 5.1 29 22-51 26-54 (87)
160 cd06541 ASCH ASC-1 homology or 20.3 1.7E+02 0.0038 19.4 3.5 27 22-50 30-56 (105)
No 1
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=100.00 E-value=4.5e-36 Score=211.49 Aligned_cols=120 Identities=44% Similarity=0.819 Sum_probs=109.2
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCCeeEEecceecCccCcEEee
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGK 100 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gk 100 (162)
++|++||+|+|.+++++.++|||+|++||++.+|+ ++++|+|||||+||.++++..++++|||+|++.|.+|+++|+||
T Consensus 2 ~~~~vGD~V~v~~~~~~~~pyIgrI~~i~e~~~g~-~~~~v~WfyrPeEt~~~~~~~~~~~EvF~S~~~d~~~~~~I~gk 80 (121)
T cd04714 2 EIIRVGDCVLFKSPGRPSLPYVARIESLWEDPEGN-MVVRVKWYYRPEETKGGRKPNHGEKELFASDHQDENSVQTIEHK 80 (121)
T ss_pred CEEEcCCEEEEeCCCCCCCCEEEEEEEEEEcCCCC-EEEEEEEEEcHHHccCcccccCCCCceEecCCcccccHHHhCcc
Confidence 49999999999998755789999999999998888 99999999999999999887789999999999999999999999
Q ss_pred eEEEecccccccCCCCCCeEEEeeeeccCcceeccCCCceeeecCCCCCCCcceeec
Q 031269 101 CTVHSFKSYTKLDAVGNDDFFCRFEYNSSSGAFNPDRVAVYCKCEMPYNPDDLMVQC 157 (162)
Q Consensus 101 c~V~~~~~~~~~~~~~~~~f~cr~~yd~~~~~f~p~~~~~~C~c~~~~npd~~~~~C 157 (162)
|.|++.++|.++.+..+ .+.++...|+|..++||+..||||
T Consensus 81 c~V~~~~ey~~~~~~~~----------------~~~~~~d~~~Ce~~yn~~~~~~~c 121 (121)
T cd04714 81 CYVLTFAEYERLARVKK----------------KPQDGVDFYYCAGTYNPDTGMLKC 121 (121)
T ss_pred cEEEehhHheecccccC----------------CCCcCCCEEEEeccCCCCcCcccC
Confidence 99999999998764322 556778899999999999999998
No 2
>cd04713 BAH_plant_3 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=100.00 E-value=4.9e-35 Score=212.22 Aligned_cols=129 Identities=26% Similarity=0.451 Sum_probs=115.9
Q ss_pred CCCCCCceeeeEEEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCccc---ccC
Q 031269 2 AKPKAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRR---QFH 78 (162)
Q Consensus 2 ~~~~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~---~~~ 78 (162)
||+.++|.+|++|.++|. +|++||+|||.+++. .+||||+|.+||++.+|. ++|+|+|||||+||..... ...
T Consensus 2 ~~~~~~~~~y~s~~~dg~--~y~vgD~Vlv~~~~~-~~pyI~~I~~i~~~~~~~-~~v~V~WFyRpeEi~~~~~~~~~~~ 77 (146)
T cd04713 2 GKGKKKKCHYTSFEKDGN--KYRLEDCVLLVPEDD-QKPYIAIIKDIYKQEEGS-LKLEVQWLYRPEEIEKKKGGNWKAE 77 (146)
T ss_pred CCCccceeeeeeEEECCE--EEECCCEEEEeCCCC-CCCEEEEEEEEEEcCCCC-EEEEEEeeECHHHhccccccccccC
Confidence 899999999999999998 999999999999874 889999999999998777 9999999999999985432 234
Q ss_pred CCCeeEEecceecCccCcEEeeeEEEecccccccCCC-CCCeEEEeeeeccCcceec
Q 031269 79 GSKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDAV-GNDDFFCRFEYNSSSGAFN 134 (162)
Q Consensus 79 ~~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~~-~~~~f~cr~~yd~~~~~f~ 134 (162)
.+||||+|++.+.+|+++|+|||.|+..+++.+++.. ..++||||+.||..+++|.
T Consensus 78 ~~~ElF~S~~~d~~~~~~I~gkc~V~~~~~~~~~~~~~~~~~F~cr~~yD~~~~~~~ 134 (146)
T cd04713 78 DPRELFYSFHRDEVPAESVLHPCKVAFVPKGKQIPLRKGHSGFIVRRVYDNVNKKLW 134 (146)
T ss_pred CCCeEEEeCCCCcCCHHHCcceeEEEECCccccCCccCCCCeEEEEEEEcCCCCcEe
Confidence 5899999999999999999999999999888877654 5799999999999998876
No 3
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=100.00 E-value=4.1e-34 Score=201.64 Aligned_cols=116 Identities=29% Similarity=0.490 Sum_probs=107.1
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCCeeEEecceecCccCcEEee
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGK 100 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gk 100 (162)
..|++||+|||.+++++.+++||+|.+||++.+|+ ++++|+|||||+||.+++...+.+||||+|++.+.+|+++|+||
T Consensus 2 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~-~~~~~~Wf~rP~et~~~~~~~~~~~Evfls~~~d~~~~~~I~~k 80 (121)
T cd04717 2 LQYRVGDCVYVANPEDPSKPIIFRIERLWKDEDGE-KFFFGCWFYRPEETFHEPTRKFYKNEVFKSPLYETVPVEEIVGK 80 (121)
T ss_pred CEEECCCEEEEeCCCCCCCCEEEEEeEEEECCCCC-EEEEEEEEeChHHccCCCccccccCceEEcCccccccHHHhcCe
Confidence 48999999999998866889999999999998888 99999999999999988766788999999999999999999999
Q ss_pred eEEEecccccccCCC---CCCeEEEeeeeccCcceeccCC
Q 031269 101 CTVHSFKSYTKLDAV---GNDDFFCRFEYNSSSGAFNPDR 137 (162)
Q Consensus 101 c~V~~~~~~~~~~~~---~~~~f~cr~~yd~~~~~f~p~~ 137 (162)
|.|++.++|.+.++. +.++|+|++.||...+.|.+.+
T Consensus 81 c~Vl~~~~y~~~~p~~~~~~dvy~ce~~y~~~~~~~~~~k 120 (121)
T cd04717 81 CAVMDVKDYIKGRPTEISEEDVYVCESRYNESAKSFKKIK 120 (121)
T ss_pred eEEEehHHHhcCCCCCCCCCCEEEEeEEECcccccEeccc
Confidence 999999999998863 4799999999999999998753
No 4
>cd04716 BAH_plantDCM_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.98 E-value=1e-31 Score=188.80 Aligned_cols=113 Identities=20% Similarity=0.365 Sum_probs=102.8
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcc-cccCCCCeeEEecceecCccCcEEe
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGR-RQFHGSKEVFLSDHHDIQSADTIEG 99 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~-~~~~~~~Elf~s~~~d~~~~~~I~g 99 (162)
..|++||+|||.+++. .++|||+|.+||++.+|. .+++|+|||||+||..++ ...++++|||+|++.|.+|+++|+|
T Consensus 2 ~~~~lgD~V~v~~~~~-~~~yi~rI~~i~e~~~g~-~~~~v~WyyRpeet~~~r~~~~~~~rEvFlS~~~D~~pl~~I~~ 79 (122)
T cd04716 2 ITYNLGDDAYVQGGEG-EEPFICKITEFFEGTDGK-TYFTAQWFYRAEDTVIERQATNHDKKRVFYSEIKNDNPLDCLIS 79 (122)
T ss_pred cEEEcCCEEEEECCCC-CCCEEEEEEEEEEcCCCc-eEEEEEEEEcHHHhccccccccCCCceEEEecccCccchhheee
Confidence 4899999999999974 899999999999998888 899999999999999886 4577899999999999999999999
Q ss_pred eeEEEeccccccc----CCCCCCeEEEeeeeccCcceecc
Q 031269 100 KCTVHSFKSYTKL----DAVGNDDFFCRFEYNSSSGAFNP 135 (162)
Q Consensus 100 kc~V~~~~~~~~~----~~~~~~~f~cr~~yd~~~~~f~p 135 (162)
||+|++.+.+..+ ...+.+.|||++.|+..-.+|..
T Consensus 80 Kc~V~~~~~~~~~~~~~~~~~~~df~c~~~Y~~~~~tF~~ 119 (122)
T cd04716 80 KVKILQVPPNVGTKRKKPNSEKCDYYYDMEYCVPYSTFQT 119 (122)
T ss_pred eeEEEEeCCCCCcccccccCCCceEEEeeEeccchhheEe
Confidence 9999998888766 33578999999999999998874
No 5
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [].; GO: 0003677 DNA binding; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 3SWR_A 3PTA_A 1M4Z_A 1ZBX_A ....
Probab=99.97 E-value=2.5e-31 Score=186.04 Aligned_cols=113 Identities=40% Similarity=0.783 Sum_probs=100.9
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCC-eEEEEEEEeecccccCCcccccCCCCeeEEecceecCccCcEEee
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGA-NVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGK 100 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~-~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gk 100 (162)
+|++||+|||.+++++.+++||+|++||++.+++ .++++|+|||||+||..++ ...+||||+|++++.+|+++|.||
T Consensus 2 ~~~vGD~V~v~~~~~~~~~~v~~I~~i~~~~~~~~~~~~~v~Wf~rp~d~~~~~--~~~~~Elf~s~~~~~~~~~~I~gk 79 (119)
T PF01426_consen 2 TYKVGDFVYVKPDDPPEPPYVARIEEIWEDKDGNKEKMVKVRWFYRPEDTSLGK--TFSPRELFLSDHCDDIPVESIRGK 79 (119)
T ss_dssp EEETTSEEEEECTSTTSEEEEEEEEEEEEETTTSEEEEEEEEEEEEGGGSTTGG--HSCTTEEEEEEEEEEEEGGGEEEE
T ss_pred EEeCCCEEEEeCCCCCCCCEEEEEEEEEcCCCCCEEEEEEEEEeECcccccccc--cCCCCEEEEECcEeEEehhhEEee
Confidence 7999999999999977899999999999998775 6999999999999993333 345799999999999999999999
Q ss_pred eEEEecccccccCCC---CCCeEEEeeeeccCcceeccC
Q 031269 101 CTVHSFKSYTKLDAV---GNDDFFCRFEYNSSSGAFNPD 136 (162)
Q Consensus 101 c~V~~~~~~~~~~~~---~~~~f~cr~~yd~~~~~f~p~ 136 (162)
|.|++.+++.+..+. .+++||||+.||..+++|.+.
T Consensus 80 c~V~~~~~~~~~~~~~~~~~~~F~cr~~yd~~~~~f~~~ 118 (119)
T PF01426_consen 80 CNVLHLEDYEQARPYGKEEPDTFFCRYAYDPQKKRFKKL 118 (119)
T ss_dssp EEEEEHHHHTTGCCHCHHTTTEEEEEEEEETTTTEEEE-
T ss_pred eEEEECCccccccccccCCCCEEEEEEEEeCCcCEEeCC
Confidence 999999999887653 689999999999999999863
No 6
>smart00439 BAH Bromo adjacent homology domain.
Probab=99.97 E-value=8e-31 Score=183.58 Aligned_cols=114 Identities=39% Similarity=0.697 Sum_probs=103.0
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCCeeEEecceecCccCcEEeee
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGKC 101 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gkc 101 (162)
.|++||+|||.+++.+.+++||+|++||++.+++.++++|+|||||+||++++...+.+||||+|++++++|+++|.|||
T Consensus 1 ~~~vgd~V~v~~~~~~~~~~i~~I~~i~~~~~~~~~~~~v~Wf~rp~e~~~~~~~~~~~~Elf~s~~~~~i~~~~I~~kc 80 (120)
T smart00439 1 TIRVGDFVLVEPDDADEPYYIGRIEEIFETKKNSEKMVRVRWFYRPEETVLEKAALFDKNEVFLSDEYDTVPLSDIIGKC 80 (120)
T ss_pred CcccCCEEEEeCCCCCCCCEEEEEEEEEECCCCCEEEEEEEEEEChhhccccccccCCCcceEEEccCccCChHHeeeEE
Confidence 47999999999998557899999999999987654799999999999999987766789999999999999999999999
Q ss_pred EEEecccccccCCC----CCCeEEEeeeeccCcceecc
Q 031269 102 TVHSFKSYTKLDAV----GNDDFFCRFEYNSSSGAFNP 135 (162)
Q Consensus 102 ~V~~~~~~~~~~~~----~~~~f~cr~~yd~~~~~f~p 135 (162)
.|++.+++....+. ..++||||+.||..+++|.+
T Consensus 81 ~V~~~~~~~~~~~~~~~~~~~~f~cr~~yd~~~~~f~~ 118 (120)
T smart00439 81 NVLSKSDYPGLRPEGKIGEPDVFFCESLYDPEKGAFKK 118 (120)
T ss_pred EEEEcchhcccccccCCCCCCeEEEEEEEccccCcccC
Confidence 99999999887653 47999999999999998874
No 7
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=99.97 E-value=5.1e-31 Score=184.77 Aligned_cols=114 Identities=39% Similarity=0.779 Sum_probs=104.0
Q ss_pred cEEccCCEEEEecCCC--CCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCCeeEEecceecCccCcEE
Q 031269 21 KTIKPGDCVLMRPSEP--SKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIE 98 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~--~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~ 98 (162)
.+|++||+|||.+++. ++++|||+|++||++.+|. ++++|+|||||+||+.+....+.+||||+|++++.+|+++|.
T Consensus 2 ~~y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~~~~~~-~~~~v~wf~rp~e~~~~~~~~~~~~Elf~s~~~~~i~v~~I~ 80 (123)
T cd04370 2 ITYEVGDSVYVEPDDSIKSDPPYIARIEELWEDTNGS-KQVKVRWFYRPEETPKGLSPFALRRELFLSDHLDEIPVESII 80 (123)
T ss_pred CEEecCCEEEEecCCcCCCCCCEEEEEeeeeECCCCC-EEEEEEEEEchhHhccccccccccceeEEecCccccCHHHhc
Confidence 4899999999999874 4789999999999998888 999999999999999987777889999999999999999999
Q ss_pred eeeEEEecccccccCC----CCCCeEEEeeeeccCcceecc
Q 031269 99 GKCTVHSFKSYTKLDA----VGNDDFFCRFEYNSSSGAFNP 135 (162)
Q Consensus 99 gkc~V~~~~~~~~~~~----~~~~~f~cr~~yd~~~~~f~p 135 (162)
|+|.|+..+++.+..+ ...++||||+.||..++.|++
T Consensus 81 gkc~V~~~~~~~~~~~~~~~~~~~~f~~r~~yd~~~~~fk~ 121 (123)
T cd04370 81 GKCKVLFVSEFEGLKQRPNKIDTDDFFCRLAYDPTTKEFKA 121 (123)
T ss_pred cccEEEechHhhccccccccCCCCeEEEEEEECcCcceEEe
Confidence 9999999999987641 357999999999999998875
No 8
>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.97 E-value=5.2e-31 Score=187.51 Aligned_cols=111 Identities=28% Similarity=0.455 Sum_probs=99.3
Q ss_pred EEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCccccc-CCCCeeEEecceecCc
Q 031269 15 TVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQF-HGSKEVFLSDHHDIQS 93 (162)
Q Consensus 15 ~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~-~~~~Elf~s~~~d~~~ 93 (162)
+.+|. ++++||+|||.+++ +++|||+|++||++.+|. ++++|+||+||+|+.++.++. +.+||||+|++.+.+|
T Consensus 2 ~r~~~--~i~vGD~V~v~~~~--~~~~va~Ie~i~ed~~g~-~~v~v~WF~~p~E~~~~~~~~~~~~~EvFlS~~~d~i~ 76 (130)
T cd04721 2 CRNGV--TISVHDFVYVLSEE--EDRYVAYIEDLYEDKKGS-KMVKVRWFHTTDEVGAALSPDSVNPREIFLSPNLQVIS 76 (130)
T ss_pred ccCCE--EEECCCEEEEeCCC--CCcEEEEEEEEEEcCCCC-EEEEEEEecCHHHhccccCCCCCCCCeEEEcCCccccc
Confidence 34555 89999999999887 688999999999998888 999999999999999876544 8899999999999999
Q ss_pred cCcEEeeeEEEecccccccCCC-----CCCeEEEeeeeccCc
Q 031269 94 ADTIEGKCTVHSFKSYTKLDAV-----GNDDFFCRFEYNSSS 130 (162)
Q Consensus 94 ~~~I~gkc~V~~~~~~~~~~~~-----~~~~f~cr~~yd~~~ 130 (162)
+++|.|||+|++.++|.++... ..++|+||+.||...
T Consensus 77 ~~~I~gk~~Vls~~~y~k~~~~~~~~~~~~~f~C~~~~d~~~ 118 (130)
T cd04721 77 VECIDGLATVLTREHYEKFQSVPKNSSELQAYFCYRQIDNNK 118 (130)
T ss_pred hHHeeeeeEECCHHHHhhhhccccCccccccEEEEEEecCCC
Confidence 9999999999999999987642 267999999999875
No 9
>cd04709 BAH_MTA BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.97 E-value=8.4e-30 Score=187.14 Aligned_cols=115 Identities=27% Similarity=0.466 Sum_probs=101.5
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcc----------------------cccCC
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGR----------------------RQFHG 79 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~----------------------~~~~~ 79 (162)
+|++||+|||.++. ..+++||+|++|+++.+|+ ++++|+|||||+|++... ...+.
T Consensus 3 ~yrvGD~Vy~~~~~-~~Py~I~rI~e~~~~~~~~-~~vkV~wfYRp~DI~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~~ 80 (164)
T cd04709 3 MYRVGDYVYFESSP-NNPYLIRRIEELNKTARGH-VEAKVVCYYRRRDIPDSLYQLADQHRRELEEKSDDLTPKQRHQLR 80 (164)
T ss_pred EEecCCEEEEECCC-CCCCEEEEEEEEEeCCCCC-EEEEEEEEEChhHccchhhhhcccccccccccccccchhhhhccC
Confidence 89999999999985 4678899999999999888 999999999999986421 12357
Q ss_pred CCeeEEecceecCccCcEEeeeEEEecccccccCC--CCCCeEEEeeeeccCcceeccCCC
Q 031269 80 SKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDA--VGNDDFFCRFEYNSSSGAFNPDRV 138 (162)
Q Consensus 80 ~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~--~~~~~f~cr~~yd~~~~~f~p~~~ 138 (162)
.+|||+|+|.+.+|+++|+|||.|++..++.++.. ..+++|||+..||+++++|.+++.
T Consensus 81 ~rELF~S~~~d~~p~~~IrGKC~V~~~~d~~~l~~~~~~~d~Ff~~~~YDP~~k~l~~~~g 141 (164)
T cd04709 81 HRELFLSRQVETLPATHIRGKCSVTLLNDTESARSYLAREDTFFYSLVYDPEQKTLLADQG 141 (164)
T ss_pred cceeEEecccccccHHHeeeeEEEEEehhhhhhhhccCCCCEEEEEEEECCCCCeecccce
Confidence 99999999999999999999999999999988754 358999999999999999998544
No 10
>cd04715 BAH_Orc1p_like BAH, or Bromo Adjacent Homology domain, as present in the Schizosaccharomyces pombe homolog of Saccharomyces cerevisiae Orc1p and similar proteins. Orc1 is part of the Yeast Sir1-origin recognition complex, the Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.96 E-value=5.1e-29 Score=182.40 Aligned_cols=106 Identities=26% Similarity=0.380 Sum_probs=92.1
Q ss_pred CCCCceeeeEEEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCC--CCeEEEEEEEeecccccCCccc--ccCC
Q 031269 4 PKAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDAR--GANVKVHVRWYYRPEESIGGRR--QFHG 79 (162)
Q Consensus 4 ~~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~--g~~~~v~v~Wfyrp~e~~~~~~--~~~~ 79 (162)
..+++++|+++.++|. .|++||+|+|.+++ .++|||+|.+||+..+ |. ++++|+|||||+||..... +.+.
T Consensus 13 ~~~~~~~Y~s~~~~g~--~y~lGD~Vlv~s~~--~~~yIgkI~~iwe~~~~~g~-~~~~v~WfyRp~E~~~~~~~~~~~~ 87 (159)
T cd04715 13 KKKDGQFYRSFTYDGV--EYRLYDDVYVHNGD--SEPYIGKIIKIYETAIDSGK-KKVKVIWFFRPSEIRMELKGEPKRH 87 (159)
T ss_pred ccCCceEEEEEEECCE--EEeCCCEEEEeCCC--CCCEEEEEEEEEEcCCcCCc-eEEEEEeeeCHHHhccccccCcccC
Confidence 3456669999999997 99999999999866 7999999999999865 66 9999999999999985432 3577
Q ss_pred CCeeEEecce-----ecCccCcEEeeeEEEecccccccCC
Q 031269 80 SKEVFLSDHH-----DIQSADTIEGKCTVHSFKSYTKLDA 114 (162)
Q Consensus 80 ~~Elf~s~~~-----d~~~~~~I~gkc~V~~~~~~~~~~~ 114 (162)
+||||+|+|. +++|+++|.|||.|++.++|.+..+
T Consensus 88 ~nEvFlS~~~d~~~~~~n~l~sI~gKC~Vl~~~ey~~~~~ 127 (159)
T cd04715 88 INEVFLACGRGEGLANINLLESIIGKCNVVCISEDFRNPQ 127 (159)
T ss_pred CCcEEEecCcCccccccCcHHHccceeEEEEehHhhhCCC
Confidence 9999999985 6689999999999999999987654
No 11
>cd04710 BAH_fungalPHD BAH, or Bromo Adjacent Homology domain, as present in fungal proteins containing PHD domains. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.96 E-value=2.6e-28 Score=174.43 Aligned_cols=113 Identities=22% Similarity=0.438 Sum_probs=97.3
Q ss_pred CcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCC-----------CeEEEEEEEeecccccCCcccccCCCCeeEEecc
Q 031269 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARG-----------ANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDH 88 (162)
Q Consensus 20 ~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g-----------~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~ 88 (162)
|..|++||+|||.++++..+++||||.+|+...++ ...+++|+|||||+|+.... ..+.+|||+|.|
T Consensus 9 g~~~~vgD~Vyv~~~~~~ePyyIgrI~e~~~~~~~~~~~~~~~~~~~~~~vrV~wfYRp~Di~~~~--~~d~relf~S~h 86 (135)
T cd04710 9 GELLKVNDHIYMSSEPPGEPYYIGRIMEFVPKHEFPSGIHARVFPASYFQVRLNWYYRPRDISRRV--VADSRLLYASMH 86 (135)
T ss_pred CeEEeCCCEEEEecCCCCCCCEEEEEEEEEecCCCCccccccccCCCcEEEEEEEEeCHHHcCCcc--cCCceEEEEEee
Confidence 35999999999999987788999999999996422 22689999999999985444 468999999999
Q ss_pred eecCccCcEEeeeEEEecccccccCC--CCCCeEEEeeeeccCcceec
Q 031269 89 HDIQSADTIEGKCTVHSFKSYTKLDA--VGNDDFFCRFEYNSSSGAFN 134 (162)
Q Consensus 89 ~d~~~~~~I~gkc~V~~~~~~~~~~~--~~~~~f~cr~~yd~~~~~f~ 134 (162)
.+.+|+++|.|||+|.+.++...+.. ..+++|||.+.||+..++|.
T Consensus 87 ~d~~p~~si~gKC~V~~~~di~~l~~~~~~~~~Fyf~~lyD~~~~r~~ 134 (135)
T cd04710 87 SDICPIGSVRGKCTVRHRDQIPDLEEYKKRPNHFYFDQLFDRYILRYY 134 (135)
T ss_pred EeeechHHEEeEEEEEEecccchhhhhccCCCEEEEEeeeCcchhhcc
Confidence 99999999999999999998876543 35899999999999998873
No 12
>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.95 E-value=9.3e-27 Score=165.66 Aligned_cols=110 Identities=24% Similarity=0.334 Sum_probs=95.8
Q ss_pred cEEccCCEEEEecCCCC----------CCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCCeeEEeccee
Q 031269 21 KTIKPGDCVLMRPSEPS----------KPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHD 90 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~----------~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d 90 (162)
..|++||+|+|.+++++ .+++|++|+.||++.+|. ++++++|||||+||.+++ ++++||||||++++
T Consensus 4 ~~i~vGD~V~v~~d~~~~~~~~~~~~~~~~~i~~V~~~~e~~~g~-~~~h~~W~yrp~eTv~g~--~~~~~ElFLSd~c~ 80 (130)
T cd04712 4 LTIRVGDVVSVERDDADSTTKWNDDHRWLPLVQFVEYMKKGSDGS-KMFHGRWLYRGCDTVLGN--YANERELFLTNECT 80 (130)
T ss_pred CEEeCCCEEEEcCCCCCccccccccccccceEEEEEEeeecCCCc-eEEEEEEEEcchhccccc--cCCCceEEEecccc
Confidence 38999999999999864 378999999999999888 999999999999999999 58899999999999
Q ss_pred cCccC----cEEeeeEEEecccccccCCCCCCeEEEeeeeccCcceecc
Q 031269 91 IQSAD----TIEGKCTVHSFKSYTKLDAVGNDDFFCRFEYNSSSGAFNP 135 (162)
Q Consensus 91 ~~~~~----~I~gkc~V~~~~~~~~~~~~~~~~f~cr~~yd~~~~~f~p 135 (162)
.++++ .|.+||.|........ ...++.|+|+..|+++++.|+.
T Consensus 81 ~~~~~~~~~~I~~k~~V~~~~~~~~--~~~~~~F~r~syy~~e~~~F~~ 127 (130)
T cd04712 81 CLELDLLSTEIKGVHKVDWSGTPWG--KGLPEFFVRQSYYWPERGAFTS 127 (130)
T ss_pred ccccccccceeEEEEEEEEecCcCC--cCCCCEEEEEEEECccCCceEc
Confidence 99999 9999999997765432 1245677777777779999983
No 13
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.95 E-value=4.1e-29 Score=178.73 Aligned_cols=96 Identities=26% Similarity=0.522 Sum_probs=92.1
Q ss_pred CCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCCeeEEecceecCccCcEEeeeEEEecccccccCCCCC
Q 031269 38 KPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDAVGN 117 (162)
Q Consensus 38 ~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~~~~ 117 (162)
..+|||+|++||++. |+ .+++|+|||||+||.+++++.++.+|||+|++.+.+++++|.|||.|++.++|.++.+.+.
T Consensus 51 ~~~~vArIekiW~~~-G~-~~~~grWy~rPEET~~gr~~~~~~kEvFlS~~~d~~~~~~I~gkC~V~~~keY~k~e~~g~ 128 (148)
T cd04718 51 GDLWLARIEKLWEEN-GT-YWYAARWYTLPEETHMGRQPHNLRRELYLTNDFADIEMECILRHCSVKCPKEFRDASNDGD 128 (148)
T ss_pred CchHHHHHHHHHhcc-Cc-eEEEEEEEeCchhccCccccccccceeeeccccccccHHHHhcccEEcCHHHcccccCCCC
Confidence 678999999999986 87 9999999999999999999999999999999999999999999999999999999888899
Q ss_pred CeEEEeeeeccCcceecc
Q 031269 118 DDFFCRFEYNSSSGAFNP 135 (162)
Q Consensus 118 ~~f~cr~~yd~~~~~f~p 135 (162)
|+|+|++.||..+++|+.
T Consensus 129 Dvy~Ce~~Yd~~~~~Fkr 146 (148)
T cd04718 129 DVFLCEYEYDVHWQSFKR 146 (148)
T ss_pred ceEEEEEEEhhhcCceee
Confidence 999999999999999974
No 14
>cd04720 BAH_Orc1p_Yeast BAH, or Bromo Adjacent Homology domain, as present in Orc1p, which again is part of the Saccharomyces cerevisiae Sir1-origin recognition complex, and as present in Sir3p. The Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.94 E-value=1.7e-26 Score=172.52 Aligned_cols=117 Identities=22% Similarity=0.323 Sum_probs=103.0
Q ss_pred CcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCccc--c-------cCCCCeeEEeccee
Q 031269 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRR--Q-------FHGSKEVFLSDHHD 90 (162)
Q Consensus 20 ~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~--~-------~~~~~Elf~s~~~d 90 (162)
+++|++||+|+|.+++. .++|||.|.+|+.+..++.+.+.|+|||||.|+..++. . ...+||||+|.+.+
T Consensus 50 ~~~~~vGD~Vlik~~~~-~~~~V~iI~ei~~~~~~~~v~i~v~Wy~r~~Ei~~~~~~~~~~~~~~~~~~~nElflT~~~d 128 (179)
T cd04720 50 GLELSVGDTILVKDDVA-NSPSVYLIHEIRLNTLNNEVELWVMWFLRWFEINPARYYKQFDPEFRSESNKNELYLTAELS 128 (179)
T ss_pred CeEEeCCCEEEEeCCCC-CCCEEEEEEEEEeCCCCCEEEEEEEEcCCHHHcccccccccccchhcccCCCceEEEecccc
Confidence 46999999999999874 89999999999998765658999999999999976552 2 23479999999999
Q ss_pred cCccCcEEeeeEEEecccccccCCC---CCCeEEEeeeeccCcceeccCC
Q 031269 91 IQSADTIEGKCTVHSFKSYTKLDAV---GNDDFFCRFEYNSSSGAFNPDR 137 (162)
Q Consensus 91 ~~~~~~I~gkc~V~~~~~~~~~~~~---~~~~f~cr~~yd~~~~~f~p~~ 137 (162)
.+++.+|+++|+|++.++|.++.+. +..+||||++||+.++.|+|+.
T Consensus 129 ~i~l~~Ii~k~~Vls~~ef~~~~~~~~~~~~~F~cR~~~d~~~~~F~~~d 178 (179)
T cd04720 129 EIKLKDIIDKANVLSESEFNDLSTDDKNGERTFFCRYACEPDGEEFVWID 178 (179)
T ss_pred eEEhhheeeeEEEecHHHhhhhcccccCCCceEEEEEEEeCCCCeEcccc
Confidence 9999999999999999999987654 5799999999999999999753
No 15
>cd04760 BAH_Dnmt1_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.94 E-value=1.1e-26 Score=162.68 Aligned_cols=111 Identities=25% Similarity=0.515 Sum_probs=96.9
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCCeeEEecceecCccCcEEee
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGK 100 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gk 100 (162)
.+|.+||+|+|.++++..+++||+|+.||++.+|. ++++++|||||+||.+++. +.++|||+|++++.+++++|.+|
T Consensus 2 ~~i~vGD~V~v~~~~~~~p~~I~rV~~mfe~~~g~-k~~h~rWf~Rg~dTVlG~~--~~~kEvFlsd~c~d~~l~~I~~K 78 (124)
T cd04760 2 EELEAGDCVSVKPDDPTKPLYIARVTYMWKDSIGG-KMFHAHWFCRGSDTVLGET--SDPLELFLVDECEDMALSSIHGK 78 (124)
T ss_pred CEEecCCEEEEecCCCCCCcEEEEEhhheecCCCC-cEEEEEEEEECCccccccc--CCCcEEEeecccCCcchHHheee
Confidence 48999999999998777889999999999999888 9999999999999999986 77999999999999999999999
Q ss_pred eEEEecccc---cccC----C-----CCCCeEEEeeeeccCcceec
Q 031269 101 CTVHSFKSY---TKLD----A-----VGNDDFFCRFEYNSSSGAFN 134 (162)
Q Consensus 101 c~V~~~~~~---~~~~----~-----~~~~~f~cr~~yd~~~~~f~ 134 (162)
|.|...+.- .... + .+.++|||+.-||+.-.+|.
T Consensus 79 v~V~~~~p~~~w~~~~g~~~~~~~~~ddg~tffyq~~yd~~~arf~ 124 (124)
T cd04760 79 VNVIYKAPSENWSMEGGMDEEDEIFEDDGKTFFYQKWYDPECARFE 124 (124)
T ss_pred eEEEEeCCCcchhhhcCCCCccccccCCCCeEEEEEeeChhhhccC
Confidence 999986532 2111 1 13699999999999888774
No 16
>cd04708 BAH_plantDCM_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.94 E-value=1.2e-26 Score=174.46 Aligned_cols=118 Identities=25% Similarity=0.482 Sum_probs=100.8
Q ss_pred EEEcCCCcEEccCCEEEEecC------------------CCCCCCeEEEEeEEEecCCC-----CeEEEEEEEeeccccc
Q 031269 14 YTVKSISKTIKPGDCVLMRPS------------------EPSKPSYVAKIERIESDARG-----ANVKVHVRWYYRPEES 70 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~------------------~~~~~~~Ig~I~~i~~~~~g-----~~~~v~v~Wfyrp~e~ 70 (162)
|+++|. +|++||+|||.++ +. .++.||+|.+|+...++ ....++|+|||||+||
T Consensus 1 f~~~Gv--~Y~vgD~VYv~p~~f~~~~~~~~~~~~G~N~~~-~p~~I~qI~ei~~~k~~~~~~~~~~~vrVrwFYRPEdt 77 (202)
T cd04708 1 FVYDGV--TYSVGDFLYVSPDAFAEEERERATFKAGRNVGL-KAFVVCQVLEIVVEKESKQADVASTQVKVRRFYRPEDV 77 (202)
T ss_pred CcCCCE--EEecCCeEEECcccccccccccccccccccCCC-CCcEEEEEEEEEecccCCCCCCcceEEEEEEEechhhc
Confidence 456776 9999999999999 22 47789999999986544 2389999999999998
Q ss_pred CCcccccCCCCeeEEecceecCccCcEEeeeEEEecccccccCC--CCCCeEEEeeeeccCcceec
Q 031269 71 IGGRRQFHGSKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDA--VGNDDFFCRFEYNSSSGAFN 134 (162)
Q Consensus 71 ~~~~~~~~~~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~--~~~~~f~cr~~yd~~~~~f~ 134 (162)
........+.+|||+|++.+++|+++|.|||+|+...++..+.. ...++|||+..||+.++.|+
T Consensus 78 ~~~~~y~sd~rely~Sde~~~~~~~~I~GKC~V~~~~d~~~~~~~~~~~~~Ffc~~~Yd~~tg~f~ 143 (202)
T cd04708 78 SPEKAYASDIREVYYSEDTLTVPVEAVEGKCEVRKKSDLPDSDAPVIFEHVFFCELLYDPAKGSLK 143 (202)
T ss_pred CcccceecCceeEEEeccceeechhHcceEEEEEecCcchhhhccccCCCceEEEEEEcCCCCccC
Confidence 55333334899999999999999999999999999999877654 45899999999999999999
No 17
>cd04719 BAH_Orc1p_animal BAH, or Bromo Adjacent Homology domain, as present in animal homologs of Saccharomyces cerevisiae Orc1p. Orc1 is part of the Yeast Sir1-origin recognition complex. The Orc1p BAH doman functions in epigenetic silencing. In vertebrates, a similar ORC protein complex exists, which has been shown essential for DNA replication in Xenopus laevis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.91 E-value=1.6e-24 Score=153.08 Aligned_cols=110 Identities=25% Similarity=0.354 Sum_probs=93.7
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCC--CeEEEEEEEeecccccCCcc----cccCCCCeeEEeccee---c
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARG--ANVKVHVRWYYRPEESIGGR----RQFHGSKEVFLSDHHD---I 91 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g--~~~~v~v~Wfyrp~e~~~~~----~~~~~~~Elf~s~~~d---~ 91 (162)
.+|++||+|+|.++++ +++|||+|++|+++.++ ....++|||||||+|++... ....+++|||+|++.+ .
T Consensus 2 ~~i~vGd~VlI~~~d~-~~~yVAkI~~i~e~~~~~~~~~~~~VqWy~R~~Ev~~~~~~~~~~~~~~~EvF~~~~~~~~~~ 80 (128)
T cd04719 2 LTIEVGDFVLIEGEDA-DGPDVARILHLYEDGNEDDDPKRAIVQWFSRPSEVPKNKRKLLGREPHSQEVFFYSRSSCDND 80 (128)
T ss_pred eEEecCCEEEEECCCC-CCCcEeeehhhhccccCCcccceEEEEcccChHHccccchhhccCCCCCcEEEEecCccccCc
Confidence 4899999999999985 78999999999999765 22799999999999997432 1236799999999874 8
Q ss_pred CccCcEEeeeEEEecccccccCC---CCCCeEEEeeeeccCcc
Q 031269 92 QSADTIEGKCTVHSFKSYTKLDA---VGNDDFFCRFEYNSSSG 131 (162)
Q Consensus 92 ~~~~~I~gkc~V~~~~~~~~~~~---~~~~~f~cr~~yd~~~~ 131 (162)
+++++|.|+|.|+..++|.++.. ....+||.|+.++.+..
T Consensus 81 i~~etI~gkc~V~~~~~y~~l~~~~~~~~~~~F~r~~~~~k~~ 123 (128)
T cd04719 81 IDAETIIGKVRVEPVEPKTDLPETKKKTGGPLFVKRYWDTKTF 123 (128)
T ss_pred EeHHHcccEEEEEEcCCccchhhhccccCceEEEEEEeccccc
Confidence 99999999999999999998863 24789999999998774
No 18
>KOG1886 consensus BAH domain proteins [Transcription]
Probab=99.90 E-value=8.2e-24 Score=174.57 Aligned_cols=158 Identities=33% Similarity=0.506 Sum_probs=142.5
Q ss_pred CCCCCCceeeeEEEEcCCCcEEcc-CCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCccc---cc
Q 031269 2 AKPKAPRRTLESYTVKSISKTIKP-GDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRR---QF 77 (162)
Q Consensus 2 ~~~~~~~~~y~~~~~~g~~~~~~v-GD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~---~~ 77 (162)
||++..+.||.++.+.|. .+.. ||.|++.++++..+||||+|+.|+.+..|..+.+.|+|||||+|+..+.. ..
T Consensus 31 Gv~~~k~~h~~t~~~~~g--~~~~~~d~vllvped~~~pPyvaii~~i~a~~~g~~~k~ev~W~YrPee~~~~~~~~~~a 108 (464)
T KOG1886|consen 31 GVGGVKSLHFETFIYRGG--RYINYGDSVLLVPEDPGKPPYVAIIEDIYAQERGGNVKVEVQWFYRPEESEGGGSGKWGA 108 (464)
T ss_pred cccccccccccceeeccC--cccccCcceeecCCCCCCCCeeEEEeeeeccccCCCcceecccccCCCccCCCCCCCccc
Confidence 678888999999999987 6666 99999999998899999999999999876449999999999999987642 23
Q ss_pred CCCCeeEEecceecCccCcEEeeeEEEecccccccCC-CCCCeEEEeeeeccCcceeccCCCceeeecCCCCCCCcceee
Q 031269 78 HGSKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDA-VGNDDFFCRFEYNSSSGAFNPDRVAVYCKCEMPYNPDDLMVQ 156 (162)
Q Consensus 78 ~~~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~-~~~~~f~cr~~yd~~~~~f~p~~~~~~C~c~~~~npd~~~~~ 156 (162)
..++|||+|.|.|.+++++|.++|.|.++..+.++.. .+.+.|+||+.||..++.|.+.-....|.|.+..++++...+
T Consensus 109 ~~~relF~SfH~De~~A~ti~~rC~V~fvp~~kqlp~~~~~~~f~~r~vYd~~~~~~~~~~~~~~~~~~k~e~d~~~~kt 188 (464)
T KOG1886|consen 109 KQPRELFLSFHEDEAFAETILHRCKVHFVPAYKQLPNRVGHESFICRRVYDAVTSKLRKLRDGDFGDGQKLEIDMLVPKT 188 (464)
T ss_pred CCCccccccccccchhhhhhcccceeeeccccccccccCCCCCcccccccccccccccCccccchhcccccCCccchhhh
Confidence 3467999999999999999999999999999999876 678999999999999999998888899999999999999999
Q ss_pred cCCCC
Q 031269 157 CEGCS 161 (162)
Q Consensus 157 C~~c~ 161 (162)
|+.|.
T Consensus 189 ~~~~~ 193 (464)
T KOG1886|consen 189 GPRRG 193 (464)
T ss_pred cccCC
Confidence 99886
No 19
>cd04711 BAH_Dnmt1_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.88 E-value=7.6e-23 Score=144.10 Aligned_cols=103 Identities=22% Similarity=0.492 Sum_probs=85.0
Q ss_pred ecCCCCCCCeEEEEeEEEecCCCC------eEEEEEEEeecccccCCcccc-cCCC-CeeEEecceecCccCcEEeeeEE
Q 031269 32 RPSEPSKPSYVAKIERIESDARGA------NVKVHVRWYYRPEESIGGRRQ-FHGS-KEVFLSDHHDIQSADTIEGKCTV 103 (162)
Q Consensus 32 ~~~~~~~~~~Ig~I~~i~~~~~g~------~~~v~v~Wfyrp~e~~~~~~~-~~~~-~Elf~s~~~d~~~~~~I~gkc~V 103 (162)
.+-+.+.+++||||.+|....++. ..+|+|+|||||+|+..++.. ++.. +|||+|+|.+++|+++|.|||+|
T Consensus 19 ~~~d~~ePy~VgrI~eI~~~k~~~~k~~~~~ikvrV~~fYRPEdi~~g~~~ayhsDirevy~Sd~~~~~~~~~I~GKC~V 98 (137)
T cd04711 19 SNLDAPEPFRIGRIKEIFCAKRSNGKPNESDIKLRINKFYRPENTHKGFKATYHADINMLYWSDEEATVDFSAVQGRCTV 98 (137)
T ss_pred ccCCCCCCcEEEEEEEEecCCCCCCCCCccceEEEEEEEecccccccccccccccceeeEEeecceeecChhhccceEEE
Confidence 334455889999999999876443 478999999999999987643 5555 99999999999999999999999
Q ss_pred Eecccccc-c---CCCCCCeEEEeeeeccCcceec
Q 031269 104 HSFKSYTK-L---DAVGNDDFFCRFEYNSSSGAFN 134 (162)
Q Consensus 104 ~~~~~~~~-~---~~~~~~~f~cr~~yd~~~~~f~ 134 (162)
...++... + ...+++.|||+.+||.+++.|.
T Consensus 99 ~~~~di~~s~~~y~~~gpd~Fyf~~~Y~a~t~~F~ 133 (137)
T cd04711 99 EYGEDLPESVQEYSGGGPDRFYFLEAYNAKTKSFE 133 (137)
T ss_pred EeccccchhHHHHhcCCCcceEEhhhhccccCccc
Confidence 97655442 1 2256899999999999999998
No 20
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=99.76 E-value=1.1e-18 Score=149.23 Aligned_cols=139 Identities=24% Similarity=0.244 Sum_probs=122.8
Q ss_pred eeeeE-EEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCCeeEEec
Q 031269 9 RTLES-YTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSD 87 (162)
Q Consensus 9 ~~y~~-~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~ 87 (162)
.+... +.++|. .|.+||.||+.+.+++..+.|++|.++|.+.+|. .+..+.|||||++|.+...+-+.++|+|.|.
T Consensus 178 ~~~~~~~~i~~~--~~~~gd~vlv~~~~d~~~p~v~~Ier~w~~~dg~-k~~~~~w~~rP~~T~H~a~r~F~k~Evfkt~ 254 (629)
T KOG1827|consen 178 YHELGPVEIDGT--KYIVGDYVLVQNPADNLKPIVAQIERLWKLPDGE-KWPQGCWIYRPEETVHRADRKFYKQEVFKTS 254 (629)
T ss_pred cccCCCccccCc--ccccCceeeecCcccccCCceeeecccccCcccc-cccceeEeeCCccCccccccchhcccceecc
Confidence 33444 678887 9999999999999877899999999999999998 9999999999999998765557899999999
Q ss_pred ceecCccCcEEeeeEEEecccccccCCC---CCCeEEEeeeeccCcceeccCCCceeeecCCCCCC
Q 031269 88 HHDIQSADTIEGKCTVHSFKSYTKLDAV---GNDDFFCRFEYNSSSGAFNPDRVAVYCKCEMPYNP 150 (162)
Q Consensus 88 ~~d~~~~~~I~gkc~V~~~~~~~~~~~~---~~~~f~cr~~yd~~~~~f~p~~~~~~C~c~~~~np 150 (162)
....+++..|+|+|.|+.+.+|...++. +.++|+|.+.|+.+.+.|.+.+.|+.|.-....++
T Consensus 255 ~~~~~~~q~l~g~c~v~~~~~yi~~~p~~ls~~dv~lcesRyn~~~K~f~kirsw~~~~p~E~~~~ 320 (629)
T KOG1827|consen 255 LYRDDLVQRLLGKCYVMKPTEYISGDPENLSEEDVFLCESRYNEQLKKFNKIRSWKAFLPREVPLT 320 (629)
T ss_pred cccccHHHHhhcceEEeehhHhhhcCcccccccceeeEEeeeccchhhhccccCchhcCccccCCc
Confidence 9999999999999999999999998873 58999999999999999999888886665544443
No 21
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=99.06 E-value=9.4e-12 Score=102.94 Aligned_cols=115 Identities=27% Similarity=0.466 Sum_probs=95.5
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCc---------c------------------
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGG---------R------------------ 74 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~---------~------------------ 74 (162)
.|++||+||+..... +++.|-+|+++-...+|+ +.++|-.|||..|++.. +
T Consensus 5 ~y~vgd~vYf~~sss-~PYliRrIEELnKTa~Gn-VeAkvVc~~RRRDIs~~L~~lAD~~ar~~~~y~a~~~a~~~~e~e 82 (693)
T KOG3554|consen 5 MYRVGDYVYFENSSS-NPYLIRRIEELNKTANGN-VEAKVVCYLRRRDISSHLLKLADKHARRFDNYAAPEAAPEATEAE 82 (693)
T ss_pred cceecceEEEecCCC-ChHHHHHHHHHhccccCC-cceEEEEEEEccchHHHHHHHHHHHhhhcccccCcccCcccchhh
Confidence 799999999999884 677899999999999999 99999999999987520 0
Q ss_pred -----------------cccCCCCeeEEecceecCccCcEEeeeEEEecccccccCC--CCCCeEEEeeeeccCcceecc
Q 031269 75 -----------------RQFHGSKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDA--VGNDDFFCRFEYNSSSGAFNP 135 (162)
Q Consensus 75 -----------------~~~~~~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~--~~~~~f~cr~~yd~~~~~f~p 135 (162)
+...-.+|||+|...+.+|+..|+|||.|.-+.+-+.+.. ..+|+||....||+..+.+..
T Consensus 83 ~EEe~e~p~~vdlt~~qrhqLrhrElFlsRQ~EsLPAthIRGKCsV~LLnete~~~~YL~~eDtFfySLVyDP~~kTLLA 162 (693)
T KOG3554|consen 83 IEEESECPAPVDLTEKQRHQLRHRELFLSRQSESLPATHIRGKCSVTLLNETESLQSYLEKEDTFFYSLVYDPNQKTLLA 162 (693)
T ss_pred hhhhccCCCcCCCCHHHHHHHHHHHHHHhhhhccCchhhhccceeEEEecChHHHHhhccccceeEEEeeeccchhhhhc
Confidence 0012458999999999999999999999998876554432 358999999999999998876
Q ss_pred CCC
Q 031269 136 DRV 138 (162)
Q Consensus 136 ~~~ 138 (162)
++.
T Consensus 163 DkG 165 (693)
T KOG3554|consen 163 DKG 165 (693)
T ss_pred cCc
Confidence 554
No 22
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=94.14 E-value=0.023 Score=46.89 Aligned_cols=81 Identities=22% Similarity=0.269 Sum_probs=64.5
Q ss_pred CeeEEecceecCccCcEEeeeEEEecccccccCCCCCCeEEEeeeeccCcceeccCCCceeeecCCCCCCCcceeecCCC
Q 031269 81 KEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDAVGNDDFFCRFEYNSSSGAFNPDRVAVYCKCEMPYNPDDLMVQCEGC 160 (162)
Q Consensus 81 ~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~~~~~~f~cr~~yd~~~~~f~p~~~~~~C~c~~~~npd~~~~~C~~c 160 (162)
.+.+++.++..-....+.+++.......+... +....+..+...+....+.+.+......|.|.++.+||..|++|+.|
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~k~~~~~~~~a~~~~~~~~~~~~~p~~~~~~cd~C 81 (345)
T KOG1632|consen 3 KIPKTSKTFSKTESDRRAPIAQKTTKPPKEPV-PIERPVPDVFRGRKGRRGGLLKALTQRYCKCYKPCDPDDLMEQCDLC 81 (345)
T ss_pred CcccccceecccccccccccccccccCCcCCC-CCCCCCcccccccccccccccHhhhhchhhcccccCchhhhhccccc
Confidence 45566666666777777777777766665544 45677788889999999888988888999999999999999999999
Q ss_pred CC
Q 031269 161 SD 162 (162)
Q Consensus 161 ~~ 162 (162)
.+
T Consensus 82 ~~ 83 (345)
T KOG1632|consen 82 ED 83 (345)
T ss_pred cc
Confidence 64
No 23
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=92.78 E-value=0.25 Score=29.55 Aligned_cols=39 Identities=21% Similarity=0.360 Sum_probs=26.9
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeec
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYR 66 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyr 66 (162)
|++||.|.++++.+ ..-|..|..- ..... .++..+||--
T Consensus 1 f~~GDvV~LKSGGp--~MTV~~v~~~--~~~~~-~~v~C~WFd~ 39 (53)
T PF09926_consen 1 FKIGDVVQLKSGGP--RMTVTEVGPN--AGASG-GWVECQWFDG 39 (53)
T ss_pred CCCCCEEEEccCCC--CeEEEEcccc--ccCCC-CeEEEEeCCC
Confidence 57999999999984 5555555443 11122 6899999953
No 24
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]
Probab=92.41 E-value=0.014 Score=48.45 Aligned_cols=95 Identities=16% Similarity=0.037 Sum_probs=79.2
Q ss_pred EEEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCCeeEEecceecC
Q 031269 13 SYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQ 92 (162)
Q Consensus 13 ~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~ 92 (162)
++.+.+. ...+|+.+.+.+..+...+.++.+...|.+.++. .+.-+.|||+|.++.......+..+++......+.+
T Consensus 269 ~~~i~~~--~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (371)
T COG5076 269 SVLITNS--QAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTK-ELKLRNNYYRPEETFVRDAKLFFDNCVMYNGEVTDY 345 (371)
T ss_pred hhccccc--ccccccccccccCCcccccchhhhhhcccccccc-hhhhhcccCCCccccccccchhhhcccccchhhhhh
Confidence 3455554 7899999999998877899999999999998887 677999999999887776556678999999999999
Q ss_pred ccCcEEeeeEEEeccccc
Q 031269 93 SADTIEGKCTVHSFKSYT 110 (162)
Q Consensus 93 ~~~~I~gkc~V~~~~~~~ 110 (162)
......+.|.|.....+.
T Consensus 346 ~~~~~~~~~~~~~~~~~~ 363 (371)
T COG5076 346 YKNANVLEDFVIKKTRLI 363 (371)
T ss_pred hhhccchhhhHhhhhhhh
Confidence 999999998887765544
No 25
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=91.39 E-value=0.18 Score=46.70 Aligned_cols=122 Identities=25% Similarity=0.304 Sum_probs=80.4
Q ss_pred ceeeeEEEEcCCCcEEccCCEEEEecCCCC-------------------C---CCeEEEEeEEEecCCCCeEEEEEEEee
Q 031269 8 RRTLESYTVKSISKTIKPGDCVLMRPSEPS-------------------K---PSYVAKIERIESDARGANVKVHVRWYY 65 (162)
Q Consensus 8 ~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~-------------------~---~~~Ig~I~~i~~~~~g~~~~v~v~Wfy 65 (162)
-..|+++.|++. .|++||.|+|.-.... . ..--|+|.+|+.+...+-+.+.|..||
T Consensus 440 g~iye~~~in~~--~ys~g~dv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~l~kg~is~fy~~~~~~~~~~e~c~y~ 517 (1164)
T PTZ00112 440 GVIYESIQINDV--EYSIGDDVLIFCTGNGNTYNGKSGTKKNQNNKNIKENIYQLRKGKISSFYKNTNSNQVEAEVCIYY 517 (1164)
T ss_pred ceEEEEEEEcce--eeccCCcEEEEEcCCCCccccccCccccccccchhhhhheecccccchhhhcCCCceeeEEEEEEE
Confidence 467999999987 9999999999875421 0 124689999999876655889999999
Q ss_pred cccccCC---c-----ccccCCCCeeEEec-----------ceecCccCcEEeeeEEEeccc-ccccC--CCCCCeEEEe
Q 031269 66 RPEESIG---G-----RRQFHGSKEVFLSD-----------HHDIQSADTIEGKCTVHSFKS-YTKLD--AVGNDDFFCR 123 (162)
Q Consensus 66 rp~e~~~---~-----~~~~~~~~Elf~s~-----------~~d~~~~~~I~gkc~V~~~~~-~~~~~--~~~~~~f~cr 123 (162)
--+|-+- . .++.-..-|+|+-+ ++-.+.+.-|..|..|....+ |..-. ..+.+-|+|-
T Consensus 518 d~~d~~~i~~~~~~~~~rr~~~~f~~~~d~~~~~~~llgni~f~~~~~~~i~kki~~~ne~~~~~~d~~~~~g~~kflc~ 597 (1164)
T PTZ00112 518 DQHDAQYIKELEEKQKSRRCKADFEVFLDDDTKNFYLLGNIHFKILDAKMILKKIYVYNEKELYDEDKTAKQGKDKFLCT 597 (1164)
T ss_pred ccccHHHHHHHHHHHHhhhhhhhhhHhcccccceeEEecceeEEEechHhhhhhheeecchhhcccchhhhcccchhhhh
Confidence 9887541 0 11112234444443 345666777888888887543 22111 1467888887
Q ss_pred eeeccCcc
Q 031269 124 FEYNSSSG 131 (162)
Q Consensus 124 ~~yd~~~~ 131 (162)
+..-.+..
T Consensus 598 ~~~k~~~~ 605 (1164)
T PTZ00112 598 HYLKEREE 605 (1164)
T ss_pred Hhhhcchh
Confidence 66655443
No 26
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=89.04 E-value=0.89 Score=29.65 Aligned_cols=42 Identities=21% Similarity=0.309 Sum_probs=34.4
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeec
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYR 66 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyr 66 (162)
.+++||.|.-.-.. -++|-|+|.+.-...... ..+.|+||-.
T Consensus 2 ~f~~GdlVwaK~kG--yp~WPa~I~~~~~~~~~~-~~~~V~FfGt 43 (83)
T cd05834 2 QFKAGDLVFAKVKG--YPAWPARVDEPEDWKPPG-KKYPVYFFGT 43 (83)
T ss_pred CCCCCCEEEEecCC--CCCCCEEEecccccCCCC-CEEEEEEeCC
Confidence 57899999999977 799999999997753333 6799999964
No 27
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=88.92 E-value=0.66 Score=30.48 Aligned_cols=41 Identities=17% Similarity=0.245 Sum_probs=32.3
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCC--CCeEEEEEEEee
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDAR--GANVKVHVRWYY 65 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~--g~~~~v~v~Wfy 65 (162)
+.+||.|-..-.. -+.|-|+|.+...+.. ....++.|+||=
T Consensus 1 f~vGDlVWaK~kg--~pwWP~~V~~~~~~~~~~~~~~~~~V~fFG 43 (87)
T cd05835 1 FNVGDLVWGKIKG--FPWWPGRVVSITVTSKRPPVVGMRWVTWFG 43 (87)
T ss_pred CCCCCEEEEecCC--CCCCCeEEechhhcccccCCCCeEEEEEeC
Confidence 4789999999987 6899999999876531 222679999995
No 28
>PF10383 Clr2: Transcription-silencing protein Clr2 ; InterPro: IPR018839 Clr2 (cryptic loci regulator) is a chromatin silencing protein, one of a quartet of proteins forming the core of SHREC, a multienzyme effector complex that mediates hetero-chromatic transcriptional gene silencing in fission yeast []. Clr2 does not have any obvious well-conserved domains but, along with the other core proteins, binds to the histone deacetylase Clr3, and on its own might also have a role in chromatin organisation at the cnt domain, the site of kinetochore assembly.
Probab=88.69 E-value=2.6 Score=30.18 Aligned_cols=54 Identities=19% Similarity=0.200 Sum_probs=38.4
Q ss_pred eeeeEEEEcCCCcEEccCCEEEEecCC----------CCCCCeEEEEeEEEecCCCC------eEEEEEEEe
Q 031269 9 RTLESYTVKSISKTIKPGDCVLMRPSE----------PSKPSYVAKIERIESDARGA------NVKVHVRWY 64 (162)
Q Consensus 9 ~~y~~~~~~g~~~~~~vGD~V~v~~~~----------~~~~~~Ig~I~~i~~~~~g~------~~~v~v~Wf 64 (162)
.||+++.+..+ .+.+||.|-|.+.. .++.--|..|.+|....... ...|++.-|
T Consensus 1 i~y~GiflGAE--~I~vGD~VRl~~~~~~~~~~~~~~~~~~tdvMvI~~I~~~~~~~~~~~~~~v~~~G~lY 70 (139)
T PF10383_consen 1 IYYRGIFLGAE--MIWVGDAVRLKPLNASPSPNQSDGNPDVTDVMVIDEIQLRLINCDPDSPSTVRFRGDLY 70 (139)
T ss_pred CeECeEEEeeE--EEEeCCEEEECccCCCcccccccCCCCceeEEEEeEEEEecccCCCCCCceEEEEeEec
Confidence 37899988875 99999999995432 23456799999998875331 266666654
No 29
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=88.08 E-value=0.48 Score=27.45 Aligned_cols=21 Identities=38% Similarity=1.023 Sum_probs=17.4
Q ss_pred ee-ecCCCCCCCcceeecCCCCC
Q 031269 141 YC-KCEMPYNPDDLMVQCEGCSD 162 (162)
Q Consensus 141 ~C-~c~~~~npd~~~~~C~~c~~ 162 (162)
.| +|.+ .+.+..+++|++|+.
T Consensus 1 ~C~vC~~-~~~~~~~i~C~~C~~ 22 (51)
T PF00628_consen 1 YCPVCGQ-SDDDGDMIQCDSCNR 22 (51)
T ss_dssp EBTTTTS-SCTTSSEEEBSTTSC
T ss_pred eCcCCCC-cCCCCCeEEcCCCCh
Confidence 36 7888 588999999999974
No 30
>COG5475 Uncharacterized small protein [Function unknown]
Probab=85.89 E-value=4 Score=24.58 Aligned_cols=49 Identities=18% Similarity=0.268 Sum_probs=29.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCCeeE
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVF 84 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf 84 (162)
.+++||.|.++++.+ . .|++=... + -++..+||-+-. .++..+.++||.
T Consensus 4 ~FstgdvV~lKsGGP---~---Mtvs~~ss-~---Gmy~C~Wf~g~g----~~~~~F~ed~Lv 52 (60)
T COG5475 4 SFSTGDVVTLKSGGP---R---MTVSGYSS-D---GMYECRWFDGYG----VKREAFHEDELV 52 (60)
T ss_pred eeecCcEEEeecCCc---e---EEEecccc-C---CeEEEEEecCCC----ccccccccccee
Confidence 789999999999984 1 11111111 1 479999997644 122234556654
No 31
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=85.84 E-value=1.8 Score=28.06 Aligned_cols=39 Identities=21% Similarity=0.214 Sum_probs=31.9
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecc
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRP 67 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp 67 (162)
+.+||.|.-.-.. -+.|.|+|.++... . ..+.|.||=-.
T Consensus 1 f~~gdlVWaK~~g--~P~WPa~I~~~~~~---~-~k~~V~FfG~~ 39 (80)
T cd06080 1 FEKNDLVWAKIQG--YPWWPAVIKSISRK---K-QKARVNFIGDN 39 (80)
T ss_pred CCCCCEEEEeCCC--CCCCCEEEeeecCC---C-CEEEEEEeCCC
Confidence 4689999999887 68999999998653 3 78999999655
No 32
>PRK10708 hypothetical protein; Provisional
Probab=85.43 E-value=4.4 Score=24.45 Aligned_cols=44 Identities=16% Similarity=0.302 Sum_probs=32.1
Q ss_pred ccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEE-------EEEEeeccccc
Q 031269 24 KPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKV-------HVRWYYRPEES 70 (162)
Q Consensus 24 ~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v-------~v~Wfyrp~e~ 70 (162)
+++|.|.|+.+. .+...|.|..+..=..|. +++ .+.||+.-.+-
T Consensus 2 kvnD~VtVKTDG--~~rR~G~iLavE~F~EG~-MyLvaL~dYP~GiWFFNE~~~ 52 (62)
T PRK10708 2 KVNDRVTVKTDG--GPRRPGVVLAVEEFSEGT-MYLVSLEDYPLGIWFFNEAGH 52 (62)
T ss_pred ccccEEEEecCC--CccccceEEEEeeccCcE-EEEEEcCcCCCceEEEeccCC
Confidence 689999999998 677888888887765565 443 45688764443
No 33
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=85.37 E-value=2.2 Score=27.30 Aligned_cols=31 Identities=26% Similarity=0.542 Sum_probs=25.0
Q ss_pred EEccCCEEEEecCC-----CCCCCeEEEEeEEEecC
Q 031269 22 TIKPGDCVLMRPSE-----PSKPSYVAKIERIESDA 52 (162)
Q Consensus 22 ~~~vGD~V~v~~~~-----~~~~~~Ig~I~~i~~~~ 52 (162)
.++.||+|.|..+. .+..-|+|+|+..-...
T Consensus 5 ~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi~~~gga 40 (75)
T PF11302_consen 5 SVKPGDTVIVQDEQEVGQKQDKDWWMGQVIHCEGGA 40 (75)
T ss_pred ccCCCCEEEEecCccccccCCCCcEEEEEEEEeccc
Confidence 46899999999976 23577999999988754
No 34
>PF10781 DSRB: Dextransucrase DSRB; InterPro: IPR019717 DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose [].
Probab=85.23 E-value=4.5 Score=24.40 Aligned_cols=45 Identities=20% Similarity=0.334 Sum_probs=32.2
Q ss_pred ccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEE-------EEEEeecccccC
Q 031269 24 KPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKV-------HVRWYYRPEESI 71 (162)
Q Consensus 24 ~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v-------~v~Wfyrp~e~~ 71 (162)
+++|.|.|+.+. .+..-|.|..+..=..|. +++ .+.||+.-.+-+
T Consensus 2 kvnD~VtVKTDG--~~rR~G~ilavE~F~EG~-MYLvaL~dYP~GiWFFNE~~~~ 53 (62)
T PF10781_consen 2 KVNDRVTVKTDG--GPRREGVILAVEPFNEGT-MYLVALEDYPAGIWFFNEKDSP 53 (62)
T ss_pred ccccEEEEecCC--cccccceEEEEeeccCcE-EEEEEcCcCCcceEEEecCCCC
Confidence 689999999998 577788888777665564 443 456887755443
No 35
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=80.94 E-value=3.3 Score=25.25 Aligned_cols=41 Identities=20% Similarity=0.194 Sum_probs=31.6
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCC------CCeEEEEEEEee
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDAR------GANVKVHVRWYY 65 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~------g~~~~v~v~Wfy 65 (162)
|++||.|..+-.. -+.|-|+|..-....+ ..+..+.|++|-
T Consensus 1 f~~GdlVwaK~~G--~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg 47 (63)
T smart00293 1 FKPGDLVWAKMKG--FPWWPALVVSPKETPDNIRKRKRFENLYPVLFFG 47 (63)
T ss_pred CCCCCEEEEECCC--CCCCCeEEcCcccCChhHhhccCCCCEEEEEEeC
Confidence 5789999999998 6899999998876431 223678888883
No 37
>PF08940 DUF1918: Domain of unknown function (DUF1918); InterPro: IPR015035 This domain is found in various hypothetical bacterial proteins, and has no known function. ; PDB: 2A7Y_A.
Probab=80.54 E-value=3.7 Score=24.94 Aligned_cols=39 Identities=21% Similarity=0.382 Sum_probs=26.2
Q ss_pred ccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEe
Q 031269 24 KPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWY 64 (162)
Q Consensus 24 ~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wf 64 (162)
++||.+.+....-......|.|.++.-.. |. .-..|+|-
T Consensus 4 ~vGD~lvv~g~~vg~~~r~GeIveV~g~d-G~-PPY~VRw~ 42 (58)
T PF08940_consen 4 SVGDRLVVHGRTVGQPDRHGEIVEVRGPD-GS-PPYLVRWD 42 (58)
T ss_dssp -TTEEEEES-TTTS--EEEEEEEE-S-SS-S--S-EEEEET
T ss_pred CCCCEEEEcCCcCCCCCcEeEEEEEECCC-CC-CCEEEEec
Confidence 68999999998755788999999998854 66 77888986
No 38
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=80.04 E-value=3.6 Score=26.60 Aligned_cols=41 Identities=24% Similarity=0.344 Sum_probs=32.2
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCC-----CCeEEEEEEEee
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDAR-----GANVKVHVRWYY 65 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~-----g~~~~v~v~Wfy 65 (162)
|++||.|...-.. -+.|-|+|.+...... .....+.|++|-
T Consensus 1 f~~GdlVwaK~~g--~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg 46 (87)
T cd05162 1 FRPGDLVWAKMKG--YPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFG 46 (87)
T ss_pred CCCCCEEEEeCCC--CCCCCEEEccccccchhhhccCCCCEEEEEEeC
Confidence 4789999999987 6899999999987531 122578888885
No 39
>PF07154 DUF1392: Protein of unknown function (DUF1392); InterPro: IPR009824 This family consists of several hypothetical cyanobacterial proteins of around 150 residues in length, which seem to be specific to Anabaena species. The function of this family is unknown.
Probab=79.32 E-value=6.8 Score=28.25 Aligned_cols=49 Identities=27% Similarity=0.307 Sum_probs=33.0
Q ss_pred ceeeeEEEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeeccc
Q 031269 8 RRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPE 68 (162)
Q Consensus 8 ~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~ 68 (162)
...+++.++... .+++||-|.+...+ +.+-.-.|..|.- ++-.|||--+
T Consensus 75 tg~~q~~tv~kp--~F~LGd~V~~~f~~--~~pkqRlIlGv~l--------v~~~W~Y~VE 123 (150)
T PF07154_consen 75 TGQLQSLTVQKP--AFRLGDRVEFRFYS--DGPKQRLILGVFL--------VNNSWFYAVE 123 (150)
T ss_pred cCccceeeccCC--ceecCCEEEEEecC--CCCceEEEEEEEE--------ecCceEEEEE
Confidence 345667777777 88999999999865 3455556665554 4556777544
No 40
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....
Probab=78.86 E-value=6.1 Score=20.64 Aligned_cols=26 Identities=23% Similarity=0.259 Sum_probs=22.5
Q ss_pred cCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 25 PGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 25 vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
+||.|.|.++. ..-.+|+|.++..+.
T Consensus 1 ~Gd~V~V~~G~--~~G~~G~I~~i~~~~ 26 (32)
T PF00467_consen 1 VGDTVKVISGP--FKGKIGKIVEIDRSK 26 (32)
T ss_dssp TTSEEEESSST--TTTEEEEEEEEETTT
T ss_pred CCCEEEEeEcC--CCCceEEEEEEECCC
Confidence 58999999987 677999999998764
No 41
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=77.82 E-value=6.8 Score=23.20 Aligned_cols=37 Identities=27% Similarity=0.354 Sum_probs=26.2
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEE
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRW 63 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~W 63 (162)
+.+|+.|++.-.+ ...+-|+|.++.... |. ....|.+
T Consensus 1 ~~vG~~v~~~~~~--~~~y~A~I~~~r~~~-~~-~~YyVHY 37 (55)
T PF11717_consen 1 FEVGEKVLCKYKD--GQWYEAKILDIREKN-GE-PEYYVHY 37 (55)
T ss_dssp --TTEEEEEEETT--TEEEEEEEEEEEECT-TC-EEEEEEE
T ss_pred CCcCCEEEEEECC--CcEEEEEEEEEEecC-CC-EEEEEEc
Confidence 4689999999944 689999999999954 33 4444443
No 42
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=76.33 E-value=6 Score=27.73 Aligned_cols=45 Identities=16% Similarity=0.101 Sum_probs=31.8
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeec
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYR 66 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyr 66 (162)
.+++||.|+...+.....+.-|.|+...+....+...+.|..+--
T Consensus 55 ~L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~~~~~~~~~~~V~f~ng 99 (124)
T PF15057_consen 55 SLQVGDKVLAPWEPDDCRYGPGTVIAGPERRASEDKEYTVRFYNG 99 (124)
T ss_pred cCCCCCEEEEecCcCCCEEeCEEEEECccccccCCceEEEEEECC
Confidence 679999999997654344445999987766533336777877643
No 43
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=75.26 E-value=7.1 Score=19.14 Aligned_cols=26 Identities=19% Similarity=0.261 Sum_probs=21.0
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIES 50 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~ 50 (162)
+..||.|.|..+. ..-.+|.|.++..
T Consensus 2 ~~~G~~V~I~~G~--~~g~~g~i~~i~~ 27 (28)
T smart00739 2 FEVGDTVRVIAGP--FKGKVGKVLEVDG 27 (28)
T ss_pred CCCCCEEEEeECC--CCCcEEEEEEEcC
Confidence 4689999999986 5677899988753
No 44
>cd05840 SPBC215_ISWI_like The PWWP domain is a component of the S. pombe hypothetical protein SPBC215, as well as ISWI complex protein 4. The ISWI (imitation switch) proteins are ATPases responsible for chromatin remodeling in eukaryotes, and SPBC215 is proposed to also bind chromatin. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=74.81 E-value=4.5 Score=26.91 Aligned_cols=40 Identities=23% Similarity=0.334 Sum_probs=29.5
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEe---------cCCCCeEEEEEEEee
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIES---------DARGANVKVHVRWYY 65 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~---------~~~g~~~~v~v~Wfy 65 (162)
|++||.|...-.. -+.|-|+|..=.. ...+. ..+.|+||-
T Consensus 1 f~~GDlVwaK~~G--yPwWPA~V~~~~~~p~~~l~~~~~~~~-~~~~V~FFg 49 (93)
T cd05840 1 FQPGDRVLAKVKG--FPAWPAIVVPEEMLPDSVLKGKKKKNK-RTYPVMFFP 49 (93)
T ss_pred CCCCCEEEEeCCC--CCCCCEEECChHHCCHHHHhcccCCCC-CeEEEEEeC
Confidence 5789999999997 6899999986321 11122 678899883
No 45
>COG3257 GlxB Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]
Probab=74.17 E-value=9.4 Score=29.71 Aligned_cols=49 Identities=8% Similarity=0.232 Sum_probs=32.6
Q ss_pred EEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcc
Q 031269 14 YTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGR 74 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~ 74 (162)
+.+.|....++-|+++|+.++.. |.-.+.+.--+++.|+-++-+...|-
T Consensus 96 v~~~G~th~l~eggyaylPpgs~------------~~~~N~~~~~~rfhw~rk~Y~~VdG~ 144 (264)
T COG3257 96 VKAEGKTHALREGGYAYLPPGSG------------WTLRNAQKEDSRFHWIRKRYQPVEGV 144 (264)
T ss_pred EEEcCeEEEeccCCeEEeCCCCc------------ceEeeccCCceEEEEEeecceeecCc
Confidence 44566666789999999999862 22122222457888998888876553
No 46
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=74.15 E-value=4.3 Score=25.89 Aligned_cols=41 Identities=22% Similarity=0.401 Sum_probs=30.7
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecC--CCCeEEEEEEEee
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDA--RGANVKVHVRWYY 65 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~--~g~~~~v~v~Wfy 65 (162)
|++||.|...-.. -+.|-|+|....... ......+.|.||-
T Consensus 1 f~~GdlVWaK~~g--~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg 43 (86)
T PF00855_consen 1 FRPGDLVWAKLKG--YPWWPARVCDPDEKSKKKRKDGHVLVRFFG 43 (86)
T ss_dssp -STTEEEEEEETT--SEEEEEEEEECCHCTSCSSSSTEEEEEETT
T ss_pred CCCCCEEEEEeCC--CCCCceEEeecccccccCCCCCEEEEEecC
Confidence 5789999999987 679999999987532 1122678888884
No 47
>PF09871 DUF2098: Uncharacterized protein conserved in archaea (DUF2098); InterPro: IPR019209 This family of proteins have no known function.
Probab=70.57 E-value=14 Score=24.60 Aligned_cols=43 Identities=30% Similarity=0.411 Sum_probs=31.1
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEE---EEeecccccC
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHV---RWYYRPEESI 71 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v---~Wfyrp~e~~ 71 (162)
.|.+|++|--.+.. .+|+|.+|-.. ++. .||.+ .-||||+-+.
T Consensus 2 ~I~vGs~VRY~~TG-----T~G~V~diK~e-d~~-~wv~LD~t~L~Yr~~~Le 47 (91)
T PF09871_consen 2 PIKVGSYVRYINTG-----TVGKVVDIKEE-DGE-TWVLLDSTDLYYRPDYLE 47 (91)
T ss_pred cceeCCEEEECCCC-----eEEEEEEEEEe-CCC-eEEEEccCCceeecceeE
Confidence 57888888665554 58999999554 455 78887 5677888654
No 48
>cd03703 aeIF5B_II aeIF5B_II: This family represents the domain II of archeal and eukaryotic aeIF5B. aeIF5B is a homologue of prokaryotic Initiation Factor 2 (IF2). Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of joining of 60S subunits. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains of EF1A, eEF1A and aeIF2gamma.
Probab=68.34 E-value=17 Score=25.02 Aligned_cols=44 Identities=14% Similarity=0.170 Sum_probs=34.0
Q ss_pred CCCCceeeeEEEE-cCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCC
Q 031269 4 PKAPRRTLESYTV-KSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDAR 53 (162)
Q Consensus 4 ~~~~~~~y~~~~~-~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~ 53 (162)
--+|+-..-.+.+ +| +++.||.+.+-..+ .|-+++|..|.....
T Consensus 10 ~~~G~G~t~dvIl~~G---tL~~GD~Iv~g~~~---Gpi~tkVRaLl~~~~ 54 (110)
T cd03703 10 EEEGLGTTIDVILYDG---TLREGDTIVVCGLN---GPIVTKVRALLKPQP 54 (110)
T ss_pred EcCCCceEEEEEEECC---eEecCCEEEEccCC---CCceEEEeEecCCCC
Confidence 3456666666555 55 89999999998876 588999999998764
No 49
>COG4014 Uncharacterized protein conserved in archaea [Function unknown]
Probab=66.64 E-value=23 Score=23.50 Aligned_cols=41 Identities=27% Similarity=0.384 Sum_probs=29.4
Q ss_pred ccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEE---Eeeccccc
Q 031269 24 KPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVR---WYYRPEES 70 (162)
Q Consensus 24 ~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~---Wfyrp~e~ 70 (162)
.+||.|---+.+ .+|+|..|.++.+|. .||.+- -+||++=+
T Consensus 10 ~VG~avrYvnTg-----TvgrV~dIkkdEdG~-~WV~LdstdLwYre~~l 53 (97)
T COG4014 10 KVGDAVRYVNTG-----TVGRVVDIKKDEDGD-IWVVLDSTDLWYREHYL 53 (97)
T ss_pred hhcceEEEeecC-----ceeeEEEEEeecCCc-eEEEEecCCceecccce
Confidence 478876544443 489999999999998 888774 35576643
No 50
>PRK12281 rplX 50S ribosomal protein L24; Reviewed
Probab=62.96 E-value=19 Score=23.06 Aligned_cols=29 Identities=17% Similarity=0.260 Sum_probs=25.2
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
.++.||-|.|.++. +.--+|.|.++....
T Consensus 6 ~I~kGD~V~Vi~G~--dKGK~G~V~~V~~~~ 34 (76)
T PRK12281 6 KVKKGDMVKVIAGD--DKGKTGKVLAVLPKK 34 (76)
T ss_pred cccCCCEEEEeEcC--CCCcEEEEEEEEcCC
Confidence 67999999999987 577889999998764
No 51
>PF11926 DUF3444: Domain of unknown function (DUF3444); InterPro: IPR024593 This entry represents an uncharacterised domain. This domain is found in DnaJ, cytosine-specific methyltransferases, and members from the zinc finger, C3HC4 type family.
Probab=62.27 E-value=21 Score=27.61 Aligned_cols=44 Identities=20% Similarity=0.512 Sum_probs=36.1
Q ss_pred CcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeec
Q 031269 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYR 66 (162)
Q Consensus 20 ~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyr 66 (162)
...+.+|+.=.+..+.+.-|.+.|+|.++... +. ..|++.|+--
T Consensus 25 ~~~F~~gQIWAlYd~~D~mPR~Ya~I~kV~~~--~~-Fkl~i~wLe~ 68 (217)
T PF11926_consen 25 EEKFQVGQIWALYDDDDGMPRYYARIKKVDSS--NP-FKLHITWLEP 68 (217)
T ss_pred HHhCCCCCEEEEeeCCCCCeeeEEEEEEEecC--CC-eEEEEEEccc
Confidence 35889999988888866689999999999985 23 7899999843
No 52
>CHL00141 rpl24 ribosomal protein L24; Validated
Probab=60.88 E-value=20 Score=23.28 Aligned_cols=29 Identities=17% Similarity=0.296 Sum_probs=25.1
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
.++.||.|.|.++. +.--+|.|.++....
T Consensus 8 ~I~~GD~V~Vi~G~--dKGK~G~V~~V~~~~ 36 (83)
T CHL00141 8 HVKIGDTVKIISGS--DKGKIGEVLKIIKKS 36 (83)
T ss_pred cccCCCEEEEeEcC--CCCcEEEEEEEEcCC
Confidence 67999999999987 567889999998764
No 53
>PRK13251 transcription attenuation protein MtrB; Provisional
Probab=60.87 E-value=23 Score=22.32 Aligned_cols=48 Identities=21% Similarity=0.189 Sum_probs=37.0
Q ss_pred EEEEEeecccccCCcccccCCCCeeEEecceecCccCcEEeeeEEEec
Q 031269 59 VHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGKCTVHSF 106 (162)
Q Consensus 59 v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gkc~V~~~ 106 (162)
|.|.=+-|..||...-..-.+..||.....++..++--|+|++.++..
T Consensus 19 V~vIgltrg~dtkfhhtEkLDkGEVmiaqftehtsaiKirGkA~I~t~ 66 (75)
T PRK13251 19 VNVIGLTRGKDTKFHHTEKLDKGEVMIAQFTEHTSAIKIRGKAEIQTK 66 (75)
T ss_pred eEEEEEecCCCccchhhhhcCCCcEEEEEeecceeEEEEeceEEEEee
Confidence 566667777777432222257899999999999999999999999874
No 54
>PF11132 SplA: Transcriptional regulator protein (SplA); InterPro: IPR022608 The SplA protein functions in trans as a negative regulator of the level of splB-lacZ expression in the developing forespore [].
Probab=60.24 E-value=7.5 Score=24.71 Aligned_cols=26 Identities=27% Similarity=0.364 Sum_probs=21.6
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEE
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERI 48 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i 48 (162)
.++.||.|||.=.++ ..+.|+.|++-
T Consensus 5 ~~~~GD~VyViYrNP-Ht~~VanIqeA 30 (75)
T PF11132_consen 5 PYHAGDIVYVIYRNP-HTQDVANIQEA 30 (75)
T ss_pred ccCCCCEEEEEEcCC-CCccccccchh
Confidence 789999999998884 67888888754
No 55
>cd05836 N_Pac_NP60 The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the nucleus. In addition to the PWWP domain, NP60 also contains an AT-hook and a C-terminal NAD-binding domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=57.95 E-value=14 Score=24.13 Aligned_cols=42 Identities=21% Similarity=0.314 Sum_probs=30.1
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCC---CCeEEEEEEEeec
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDAR---GANVKVHVRWYYR 66 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~---g~~~~v~v~Wfyr 66 (162)
+++||.|.-.-.. -+.|-|+|.+-..+.. .....+.|.||=.
T Consensus 1 f~~GDlVwaK~~g--~P~WPa~V~~~~~~~~~~~~~~~~~~V~FFG~ 45 (86)
T cd05836 1 LKLGDLVWAKMKG--FPPWPGRIVKPPKDLKKPRGKAKCFFVFFFGS 45 (86)
T ss_pred CCCCCEEEEeCCC--CCCCCEEEechhhhcccccCCCCeEEEEEeCC
Confidence 4789999999987 7899999988654321 1114577888854
No 56
>PRK00004 rplX 50S ribosomal protein L24; Reviewed
Probab=57.00 E-value=24 Score=23.98 Aligned_cols=29 Identities=21% Similarity=0.329 Sum_probs=25.4
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
.++.||.|.|.++. +.--+|.|.++....
T Consensus 4 ~i~kGD~V~Vi~G~--dKGk~G~V~~V~~~~ 32 (105)
T PRK00004 4 KIKKGDTVIVIAGK--DKGKRGKVLKVLPKK 32 (105)
T ss_pred cccCCCEEEEeEcC--CCCcEEEEEEEEcCC
Confidence 67999999999987 677899999998764
No 57
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=56.21 E-value=7.4 Score=31.75 Aligned_cols=23 Identities=43% Similarity=1.148 Sum_probs=19.5
Q ss_pred eeeecCCCCCC-----CcceeecCCCCC
Q 031269 140 VYCKCEMPYNP-----DDLMVQCEGCSD 162 (162)
Q Consensus 140 ~~C~c~~~~np-----d~~~~~C~~c~~ 162 (162)
..|+|+.|+++ +..|+||..|.|
T Consensus 129 ~~C~Cd~~Ypdp~~~~e~~m~QC~iCED 156 (345)
T KOG2752|consen 129 LFCKCDTPYPDPVRTEEGEMLQCVICED 156 (345)
T ss_pred eeEEecCCCCCccccccceeeeEEeccc
Confidence 68999999875 558999999974
No 58
>PF02081 TrpBP: Tryptophan RNA-binding attenuator protein; InterPro: IPR023558 The tryptophan RNA-binding attenuation protein (TRAP) regulates expression of the tryptophan biosynthetic genes in Bacillus sp. by binding to the leader region of the nascent trp operon mRNA []. The crystal structure of the Trp RNA-binding attenuation protein of Bacillus subtilis has been solved []. TRAP forms an oligomeric ring consisting of 11 single-domain subunits, where each subunit adopts a double-stranded beta-helix structure with the appearance of a beta-sandwich of distinct architecture and jelly-roll fold. The 11 subunits are stabilised by 11 inter-subunit strands, forming a beta-wheel with a large central hole. TRAP is activated by binding to tryptophan in clefts between adjacent beta-strands, which induces conformational changes in the protein. Activated TRAP binds an mRNA target sequence consisting of 11 (G/U)AG repeats, separated by 2-3 spacer nucleotides. The spacer nucleotides do not make direct contact with the TRAP protein, but they do influence the conformation of the RNA, which might influence the specificity of TRAP []. This entry represents the structural domain in the TRAP family of proteins.; PDB: 3ZTE_U 1GTN_H 1UTD_D 1GTF_D 1UTF_F 2ZP9_K 1C9S_Q 2EXT_A 3AQD_T 1QAW_C ....
Probab=55.78 E-value=18 Score=22.85 Aligned_cols=48 Identities=21% Similarity=0.149 Sum_probs=34.1
Q ss_pred EEEEEeecccccCCcccccCCCCeeEEecceecCccCcEEeeeEEEec
Q 031269 59 VHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGKCTVHSF 106 (162)
Q Consensus 59 v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gkc~V~~~ 106 (162)
|.|.=+-|..||...-..-.+..||.....++..++--|+|++.|+..
T Consensus 19 V~ViGlTRG~dtkfhHtEkLDkGEVmIaQFTehtsaiKiRGkA~I~t~ 66 (75)
T PF02081_consen 19 VTVIGLTRGTDTKFHHTEKLDKGEVMIAQFTEHTSAIKIRGKAEILTK 66 (75)
T ss_dssp EEEEEEESSSSSSEEEEEEE-TT-EEEEE-BSSEEEEEEESSEEEEET
T ss_pred eEEEEEecCCcccchhhhccCCCcEEEEEeecceEEEEEeeeEEEEec
Confidence 566666777776533222257899999999999999999999999874
No 59
>PF09378 HAS-barrel: HAS barrel domain; InterPro: IPR018538 The HAS barrel is named after HerA-ATP Synthase. In ATP synthases, this domain is implicated in the assembly of the catalytic toroid and docking of accessory subunits, such as the subunit of the ATP synthase complex. Similar roles in docking of the functional partner, the NurA nuclease, and assembly of the HerA toroid complex appear likely for the HAS-barrel of the HerA family []. ; PDB: 3OAA_I.
Probab=55.57 E-value=17 Score=23.25 Aligned_cols=36 Identities=14% Similarity=0.347 Sum_probs=23.7
Q ss_pred EEEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031269 13 SYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (162)
Q Consensus 13 ~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~ 51 (162)
.|.++.. ...++|++|.+..++ ...-+|+|.++...
T Consensus 14 ~f~~~~~-~~v~~GeyV~i~~~~--~~~vlG~V~~i~~~ 49 (91)
T PF09378_consen 14 EFIVEPS-KDVRVGEYVVIEYDD--GEKVLGMVTSISRG 49 (91)
T ss_dssp EEEEEE--TT-BTTEEEEES------TTEEEEEEEEES-
T ss_pred EEEEeCC-CCCCcCeEEEEEEec--hhhhhhhhheeEEc
Confidence 3444442 378999999999995 57899999999984
No 60
>PF03144 GTP_EFTU_D2: Elongation factor Tu domain 2; InterPro: IPR004161 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. EF1A (also known as EF-1alpha or EF-Tu) is a G-protein. It forms a ternary complex of EF1A-GTP-aminoacyltRNA. The binding of aminoacyl-tRNA stimulates GTP hydrolysis by EF1A, causing a conformational change in EF1A that causes EF1A-GDP to detach from the ribosome, leaving the aminoacyl-tRNA attached at the A-site. Only the cognate aminoacyl-tRNA can induce the required conformational change in EF1A through its tight anticodon-codon binding [, ]. EF1A-GDP is returned to its active state, EF1A-GTP, through the action of another elongation factor, EF1B (also known as EF-Ts or EF-1beta/gamma/delta). EF1A consists of three structural domains. This entry represents domain 2 of EF2, which adopts a beta-barrel structure, and is involved in binding to both charged tRNA []. This domain is structurally related to the C-terminal domain of EF2 (IPR004160 from INTERPRO), to which it displays weak sequence matches. This domain is also found in other proteins such as translation initiation factor IF-2 and tetracycline-resistance proteins. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 3MCA_A 3AGJ_E 1SKQ_B 1JNY_A 1S0U_A 1ZUN_B 3SFS_W 3UOQ_W 2H5E_B 2XEX_A ....
Probab=55.26 E-value=26 Score=21.37 Aligned_cols=31 Identities=35% Similarity=0.346 Sum_probs=23.4
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
+++.||.|++.+.+....+..++|.+|+...
T Consensus 12 ~l~~gd~v~~~~~~~~~~~~~~~I~~i~~~~ 42 (74)
T PF03144_consen 12 TLKKGDKVRVLPNGTGKKGQVVKIKSIFMFN 42 (74)
T ss_dssp EEETTEEEEEESTTTTEECEEEEEEEEEETT
T ss_pred EEcCCCEEEECccCCcceeeeeecccccccc
Confidence 8999999999773222345788999988864
No 61
>TIGR01079 rplX_bact ribosomal protein L24, bacterial/organelle. This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes.
Probab=53.12 E-value=30 Score=23.49 Aligned_cols=29 Identities=21% Similarity=0.286 Sum_probs=25.2
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
.++.||-|.|.++. +.--+|.|.++....
T Consensus 3 ~ikkGD~V~Vi~G~--dKGK~G~V~~V~~~~ 31 (104)
T TIGR01079 3 KIKKGDTVKVISGK--DKGKRGKVLKVLPKT 31 (104)
T ss_pred cccCCCEEEEeEcC--CCCcEEEEEEEEcCC
Confidence 57899999999987 677899999998764
No 62
>COG1370 Prefoldin, molecular chaperone implicated in de novo protein folding, alpha subunit [Posttranslational modification, protein turnover, chaperones]
Probab=52.69 E-value=13 Score=27.05 Aligned_cols=39 Identities=15% Similarity=0.295 Sum_probs=32.2
Q ss_pred CCCceeeeEEEEcCCCcEEccCCEEEEecCCCCCCCeEEEE
Q 031269 5 KAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKI 45 (162)
Q Consensus 5 ~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I 45 (162)
++|+.-|-++.+.+. ..++.||-|+|-++++ ...-+|+.
T Consensus 94 r~Gk~VFaKfVi~~D-~~iR~~dEvlVVne~d-~LlAvGra 132 (155)
T COG1370 94 RKGKSVFAKFVIDVD-EEIRAGDEVLVVNEDD-ELLAVGRA 132 (155)
T ss_pred HhccchhhhheeccC-cccCCCCeEEEECCCC-cEEEeeeE
Confidence 578889999999986 7999999999999883 55667764
No 63
>cd03702 IF2_mtIF2_II This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Bacterial IF-2 is structurally and functionally related to eukaryotic mitochondrial mtIF-2.
Probab=50.97 E-value=42 Score=22.32 Aligned_cols=39 Identities=18% Similarity=0.270 Sum_probs=28.6
Q ss_pred CCCceeeeEEEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 5 KAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 5 ~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
.+++...-.+.+... ++++||++..-... |+|..|+.+.
T Consensus 11 ~~g~G~vatviV~~G--tL~~Gd~iv~G~~~-------gkVr~l~d~~ 49 (95)
T cd03702 11 DKGRGPVATVLVQNG--TLKVGDVLVAGTTY-------GKVRAMFDEN 49 (95)
T ss_pred cCCCCccEEEEEEcC--eEeCCCEEEEcccc-------cEEEEEECCC
Confidence 455556666666443 89999999986554 6999999875
No 64
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=50.82 E-value=36 Score=22.06 Aligned_cols=28 Identities=29% Similarity=0.237 Sum_probs=20.5
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~ 50 (162)
..++.||+|.|...+ ...--|.|+..+.
T Consensus 42 iwI~~GD~VlVe~~~--~~~~kg~Iv~r~~ 69 (83)
T smart00652 42 VWIRRGDIVLVDPWD--FQDVKADIIYKYT 69 (83)
T ss_pred EEEcCCCEEEEEecC--CCCCEEEEEEEeC
Confidence 478999999998765 2356677766654
No 65
>cd05793 S1_IF1A S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=50.46 E-value=34 Score=21.84 Aligned_cols=28 Identities=29% Similarity=0.196 Sum_probs=20.5
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~ 50 (162)
..++.||.|.|...+ -+.--|+|+..+.
T Consensus 37 iwI~~GD~V~Ve~~~--~d~~kg~Iv~r~~ 64 (77)
T cd05793 37 VWINEGDIVLVAPWD--FQDDKADIIYKYT 64 (77)
T ss_pred EEEcCCCEEEEEecc--ccCCEEEEEEEcC
Confidence 478999999998776 3456677766554
No 66
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=48.02 E-value=44 Score=22.63 Aligned_cols=44 Identities=23% Similarity=0.355 Sum_probs=33.8
Q ss_pred CCceeeeEEEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCC
Q 031269 6 APRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDAR 53 (162)
Q Consensus 6 ~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~ 53 (162)
.|+.++++-.++- ...+++||.+.|.-+. ..+..+|..+-....
T Consensus 33 ~GrV~vNG~~aKp-S~~VK~GD~l~i~~~~---~~~~v~Vl~~~~~r~ 76 (100)
T COG1188 33 GGRVKVNGQRAKP-SKEVKVGDILTIRFGN---KEFTVKVLALGEQRR 76 (100)
T ss_pred CCeEEECCEEccc-ccccCCCCEEEEEeCC---cEEEEEEEecccccC
Confidence 5777777776654 3689999999999887 578888888877543
No 67
>cd05837 MSH6_like The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been linked to increased cancer susceptibility, particularly in hereditary nonpolyposis colorectal cancer in humans. The role of the PWWP domain in MSH6 is not clear; MSH6 orthologs found in S. cerevisiae, Caenorhabditis elegans and Arabidopsis thaliana lack the PWWP domain. Histone methyltransferases (HMTases) induce the posttranslational methylation of lysine residues in histones and play a role in apoptosis. In the HMTase Whistle, the PWWP domain is necessary for HMTase activity. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain pro
Probab=46.95 E-value=35 Score=23.22 Aligned_cols=44 Identities=16% Similarity=0.147 Sum_probs=31.9
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEec--------CCCCeEEEEEEEeecc
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESD--------ARGANVKVHVRWYYRP 67 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~--------~~g~~~~v~v~Wfyrp 67 (162)
.|.+||.|...-.. -+.|-|.|..--.. .......+.|+||-..
T Consensus 2 ~~~~GdlVWaK~~g--~PwWPa~V~~~~~~~~~~~~~~~~~~~~~~~V~FFG~~ 53 (110)
T cd05837 2 KYQVGDLVWAKVSG--YPWWPCMVCSDPLLGTYTKTKRNKRKPRQYHVQFFGDN 53 (110)
T ss_pred CCCCCCEEEEeCCC--CCCCCEEEecccccchhhhhhhccCCCCeEEEEEcCCC
Confidence 57899999999987 68899999853111 1122377999999754
No 68
>cd03701 IF2_IF5B_II IF2_IF5B_II: This family represents the domain II of prokaryotic Initiation Factor 2 (IF2) and its archeal and eukaryotic homologue aeIF5B. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of the 60S ribosomal subunit. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains in EF1A, eEF1A and aeIF2gamma.
Probab=46.68 E-value=60 Score=21.42 Aligned_cols=39 Identities=21% Similarity=0.311 Sum_probs=28.6
Q ss_pred CCCceeeeEEEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 5 KAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 5 ~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
-+|+...-.+.+... ++++||++.+-... |+|..|+.+.
T Consensus 11 ~~g~G~vatviV~~G--tL~~Gd~iv~G~~~-------GkVr~~~d~~ 49 (95)
T cd03701 11 DKGRGPVATVIVQNG--TLKKGDVIVAGGTY-------GKIRTMVDEN 49 (95)
T ss_pred cCCCCeeEEEEEEcC--eEecCCEEEECCcc-------ceEEEEECCC
Confidence 455566666655554 99999999986654 7899998864
No 69
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=46.19 E-value=36 Score=20.13 Aligned_cols=28 Identities=21% Similarity=0.274 Sum_probs=22.9
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~ 50 (162)
.+++||.|.+...+ ++.-|-|+|+++..
T Consensus 2 ~~~~G~~Ve~~~~~-~~~W~~a~V~~~~~ 29 (61)
T smart00743 2 DFKKGDRVEVFSKE-EDSWWEAVVTKVLG 29 (61)
T ss_pred CcCCCCEEEEEECC-CCEEEEEEEEEECC
Confidence 47899999999865 35677899999875
No 70
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated
Probab=45.93 E-value=47 Score=23.25 Aligned_cols=30 Identities=13% Similarity=0.204 Sum_probs=25.3
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
..++.||.|.|.++. +.--.|+|.++....
T Consensus 44 ~~IkkGD~V~VisG~--~KGk~GkV~~V~~~~ 73 (120)
T PRK01191 44 LPVRKGDTVKVMRGD--FKGEEGKVVEVDLKR 73 (120)
T ss_pred ceEeCCCEEEEeecC--CCCceEEEEEEEcCC
Confidence 378999999999998 466779999998764
No 71
>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.
Probab=44.77 E-value=27 Score=21.39 Aligned_cols=25 Identities=36% Similarity=0.363 Sum_probs=16.6
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeE
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIER 47 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~ 47 (162)
..++.||+|.|...+ ...--|+|+.
T Consensus 40 iwI~~GD~V~V~~~~--~d~~kG~Ii~ 64 (65)
T PF01176_consen 40 IWIKRGDFVLVEPSP--YDKVKGRIIY 64 (65)
T ss_dssp C---TTEEEEEEEST--TCTTEEEEEE
T ss_pred EecCCCCEEEEEecc--cCCCeEEEEE
Confidence 378999999999876 3367777764
No 72
>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=44.76 E-value=54 Score=21.01 Aligned_cols=29 Identities=28% Similarity=0.273 Sum_probs=20.0
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~ 50 (162)
..++.||+|.|.+.+- +..--|.|+..+.
T Consensus 37 iwI~~GD~VlV~~~~~-~~~~kg~Iv~r~~ 65 (78)
T cd04456 37 IWIKRGDFLIVDPIEE-GEDVKADIIFVYC 65 (78)
T ss_pred EEEcCCCEEEEEeccc-CCCceEEEEEEeC
Confidence 5789999999987652 2355666665554
No 73
>KOG1568 consensus Mitochondrial inner membrane protease, subunit IMP2 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=43.80 E-value=60 Score=24.12 Aligned_cols=85 Identities=20% Similarity=0.321 Sum_probs=52.7
Q ss_pred ceeeeEEEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccC---Ccc-c-ccCCCCe
Q 031269 8 RRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESI---GGR-R-QFHGSKE 82 (162)
Q Consensus 8 ~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~---~~~-~-~~~~~~E 82 (162)
......+.++.. .+..||.|.+.++..+++.+|=||..+--+ .+.. +-++++.. .|. . .--...+
T Consensus 56 ~Vll~k~~v~n~--~~~rGDiVvl~sP~~p~~~~iKRv~alegd-----~~~t---~~~k~~~v~vpkghcWVegDn~~h 125 (174)
T KOG1568|consen 56 TVLLRKWNVKNR--KVSRGDIVVLKSPNDPDKVIIKRVAALEGD-----IMVT---EDEKEEPVVVPKGHCWVEGDNQKH 125 (174)
T ss_pred EEEEEeeccccc--eeccCCEEEEeCCCChhheeeeeeeccccc-----Eecc---CCCCCCceecCCCcEEEecCCccc
Confidence 344455555543 678999999999987788899888877543 2222 22333322 111 0 0012355
Q ss_pred eEEecceecCccCcEEeeeE
Q 031269 83 VFLSDHHDIQSADTIEGKCT 102 (162)
Q Consensus 83 lf~s~~~d~~~~~~I~gkc~ 102 (162)
=+=|+.+--++...|.|++.
T Consensus 126 s~DSntFGPVS~gli~grai 145 (174)
T KOG1568|consen 126 SYDSNTFGPVSTGLIVGRAI 145 (174)
T ss_pred ccccCccCCcchhheeeeEE
Confidence 56677777888899999864
No 74
>COG4101 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=43.68 E-value=61 Score=22.86 Aligned_cols=41 Identities=24% Similarity=0.319 Sum_probs=25.4
Q ss_pred EEccCCEEEEecCCC------CCCCeEEEEeEEEecCCCCeEEEEEEEe
Q 031269 22 TIKPGDCVLMRPSEP------SKPSYVAKIERIESDARGANVKVHVRWY 64 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~------~~~~~Ig~I~~i~~~~~g~~~~v~v~Wf 64 (162)
+...||+.||.+.-+ ++.+..+.|.+- |.++++.-+.+.|+
T Consensus 91 ~~~pGDf~YiPpgVPHqp~N~S~ep~s~vIaRs--Dp~~~Esv~~lpel 137 (142)
T COG4101 91 EVGPGDFFYIPPGVPHQPANLSTEPLSAVIARS--DPNPQESVQLLPEL 137 (142)
T ss_pred EecCCCeEEcCCCCCCcccccCCCCeEEEEEcc--CCCCCcCcEEeccc
Confidence 568999999998754 255666666654 33444344444443
No 75
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=43.27 E-value=1.3e+02 Score=23.66 Aligned_cols=22 Identities=14% Similarity=0.362 Sum_probs=16.1
Q ss_pred EEEcCCCcEEccCCEEEEecCC
Q 031269 14 YTVKSISKTIKPGDCVLMRPSE 35 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~ 35 (162)
++++|....++.||++++.++.
T Consensus 93 v~~~g~~~~L~~Gd~~y~pa~~ 114 (260)
T TIGR03214 93 VTAEGETHELREGGYAYLPPGS 114 (260)
T ss_pred EEECCEEEEECCCCEEEECCCC
Confidence 3445555577889999998876
No 76
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=43.19 E-value=24 Score=24.47 Aligned_cols=23 Identities=26% Similarity=0.446 Sum_probs=18.7
Q ss_pred EEEcCCCcEEccCCEEEEecCCC
Q 031269 14 YTVKSISKTIKPGDCVLMRPSEP 36 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~~ 36 (162)
+.++|....++.||+++|.++.+
T Consensus 70 v~~~~~~~~v~~gd~~~iP~g~~ 92 (127)
T COG0662 70 VTIGGEEVEVKAGDSVYIPAGTP 92 (127)
T ss_pred EEECCEEEEecCCCEEEECCCCc
Confidence 45666667889999999999874
No 77
>PF12503 CMV_1a_C: Cucumber mosaic virus 1a protein C terminal ; InterPro: IPR022184 This domain family is found in viruses, and is approximately 90 amino acids in length. The family is found in association with PF01443 from PFAM, PF01660 from PFAM. There is a conserved GLG sequence motif. 1a protein is the major virulence factor of the (Cucumber mosaic virus. The Ns strain of CMV causes necrotic lesions to Nicotiana spp. while other strains cause systemic mosaic. The determinant of the pathogenesis of these different strains is the specific amino acid residue at the 461 residue of the 1a protein. ; GO: 0008168 methyltransferase activity, 0016817 hydrolase activity, acting on acid anhydrides
Probab=42.75 E-value=21 Score=23.24 Aligned_cols=41 Identities=17% Similarity=0.219 Sum_probs=24.2
Q ss_pred EeEEEecCCCC--eEEEEEEEeecccccC---------CcccccCCCCeeEEecce
Q 031269 45 IERIESDARGA--NVKVHVRWYYRPEESI---------GGRRQFHGSKEVFLSDHH 89 (162)
Q Consensus 45 I~~i~~~~~g~--~~~v~v~Wfyrp~e~~---------~~~~~~~~~~Elf~s~~~ 89 (162)
|.+.+...+.- --+..++|+| |.++. +|.+ .++|||+-+..
T Consensus 20 V~dTY~~vD~lVNvHf~~GrWm~-P~~~~Y~VGyNe~GLGpK---~~~ElyiVnk~ 71 (85)
T PF12503_consen 20 VFDTYHRVDPLVNVHFPNGRWMY-PEGYEYMVGYNESGLGPK---FDGELYIVNKD 71 (85)
T ss_pred eEEEEeeccccEEEEecCCceec-CCCeEEEeeecCCCCCcC---cCCeEEEEcCc
Confidence 44554443332 1334568998 88764 2232 48999998754
No 78
>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel). ; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....
Probab=41.11 E-value=28 Score=20.69 Aligned_cols=22 Identities=32% Similarity=0.581 Sum_probs=16.5
Q ss_pred EEEcCCCcEEccCCEEEEecCC
Q 031269 14 YTVKSISKTIKPGDCVLMRPSE 35 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~ 35 (162)
+.++|....++.||.+++.++.
T Consensus 32 ~~~~~~~~~l~~Gd~~~i~~~~ 53 (71)
T PF07883_consen 32 LTVDGERVELKPGDAIYIPPGV 53 (71)
T ss_dssp EEETTEEEEEETTEEEEEETTS
T ss_pred EEEccEEeEccCCEEEEECCCC
Confidence 3456665678899999998875
No 79
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=39.80 E-value=19 Score=31.01 Aligned_cols=22 Identities=32% Similarity=0.756 Sum_probs=17.0
Q ss_pred ceeeecCCCCCCCcceeecCCCC
Q 031269 139 AVYCKCEMPYNPDDLMVQCEGCS 161 (162)
Q Consensus 139 ~~~C~c~~~~npd~~~~~C~~c~ 161 (162)
.-+|-|.+|-.-+ .|+||.+|+
T Consensus 171 c~vC~~g~~~~~N-rmlqC~~C~ 192 (464)
T KOG4323|consen 171 CSVCYCGGPGAGN-RMLQCDKCR 192 (464)
T ss_pred eeeeecCCcCccc-eeeeecccc
Confidence 3457777876556 999999997
No 80
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=38.90 E-value=63 Score=21.80 Aligned_cols=28 Identities=25% Similarity=0.215 Sum_probs=18.9
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~ 50 (162)
..++.||.|.|...+- .+.-|.|+..+.
T Consensus 58 IwI~~GD~VlVe~~~~--~~~kg~Iv~r~~ 85 (100)
T PRK04012 58 MWIREGDVVIVAPWDF--QDEKADIIWRYT 85 (100)
T ss_pred EEecCCCEEEEEeccc--CCCEEEEEEEcC
Confidence 4778899998887652 245566666554
No 81
>cd06530 S26_SPase_I The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa
Probab=38.71 E-value=63 Score=20.21 Aligned_cols=25 Identities=16% Similarity=0.308 Sum_probs=12.2
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeE
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIER 47 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~ 47 (162)
++.||.|.+.........++.||..
T Consensus 32 ~~~GDiv~~~~~~~~~~~~vkRv~~ 56 (85)
T cd06530 32 PKRGDVVVFKSPGDPGKPIIKRVIG 56 (85)
T ss_pred CCCCCEEEEeCCCCCCCEEEEEEEE
Confidence 4455555555544223445555555
No 82
>PF06940 DUF1287: Domain of unknown function (DUF1287); InterPro: IPR009706 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=38.58 E-value=39 Score=24.92 Aligned_cols=39 Identities=21% Similarity=0.233 Sum_probs=28.9
Q ss_pred EEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCC
Q 031269 14 YTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGA 55 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~ 55 (162)
+++......++.||.|...-+. ..+.||.|.+-... +|.
T Consensus 98 L~~~~~~~~~q~GDIVtw~l~~--~~~HIgIVSd~r~~-~G~ 136 (164)
T PF06940_consen 98 LTTDINPEDWQPGDIVTWRLPG--GLPHIGIVSDRRSK-DGV 136 (164)
T ss_pred ccCCCChhhcCCCCEEEEeCCC--CCCeEEEEeCCcCC-CCC
Confidence 3334334589999999998776 58999999887654 454
No 83
>PF08921 DUF1904: Domain of unknown function (DUF1904); InterPro: IPR015017 This entry represents a family of hypothetical bacterial proteins. ; PDB: 1U9D_B.
Probab=38.05 E-value=13 Score=25.51 Aligned_cols=15 Identities=33% Similarity=0.488 Sum_probs=10.2
Q ss_pred EEEEEEEeecccccC
Q 031269 57 VKVHVRWYYRPEESI 71 (162)
Q Consensus 57 ~~v~v~Wfyrp~e~~ 71 (162)
.+|.|.||-|+.|+.
T Consensus 56 pfVEV~WF~R~qe~q 70 (108)
T PF08921_consen 56 PFVEVLWFDRGQEVQ 70 (108)
T ss_dssp -EEEEEES---HHHH
T ss_pred eeEEEEEecCCHHHH
Confidence 689999999999986
No 84
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=37.82 E-value=1.2e+02 Score=21.41 Aligned_cols=43 Identities=21% Similarity=0.187 Sum_probs=32.1
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeeccccc
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEES 70 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~ 70 (162)
.++.||.|.|..+. -.-+.|+|.++.... ..+.+.+.-+.-.|
T Consensus 86 ~~~~Gd~V~I~~GP--f~G~~g~v~~~d~~k----~~v~v~l~~~~~~~ 128 (145)
T TIGR00405 86 SIKKGDIVEIISGP--FKGERAKVIRVDESK----EEVTLELIEAAVPI 128 (145)
T ss_pred ccCCCCEEEEeecC--CCCCeEEEEEEcCCC----CEEEEEEEEcCccc
Confidence 58899999999986 677899999986532 45677766655543
No 85
>PF04085 MreC: rod shape-determining protein MreC; InterPro: IPR007221 MreC (murein formation C) is involved in the rod shape determination in Escherichia coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped.; GO: 0008360 regulation of cell shape; PDB: 2J5U_B 2QF4_B 2QF5_A.
Probab=37.56 E-value=1.5e+02 Score=21.17 Aligned_cols=48 Identities=23% Similarity=0.163 Sum_probs=28.8
Q ss_pred cEEccCCEEEEecCCC--CCCCeEEEEeEEEecCCCCeEEEEEEEeeccc
Q 031269 21 KTIKPGDCVLMRPSEP--SKPSYVAKIERIESDARGANVKVHVRWYYRPE 68 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~--~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~ 68 (162)
..++.||.|+-...+. +....||+|.++..+..+....+.+.=+....
T Consensus 92 ~~i~~GD~V~TSG~~~~fP~Gi~VG~V~~v~~~~~~~~~~~~v~p~~d~~ 141 (152)
T PF04085_consen 92 ADIKKGDIVVTSGLGGIFPPGIPVGTVSSVEPDKSGLFKEVYVKPAVDFS 141 (152)
T ss_dssp S---TT-EEEEE-TTSSS-CCEEEEEEEEEECTTTCCCEEEEEEESS--T
T ss_pred CCCCCCCEEEECCCCCcCCCCCEEEEEEEEEeCCCCcEEEEEEEECCCcC
Confidence 4889999999765442 24568999999999876544667666554443
No 86
>PF00667 FAD_binding_1: FAD binding domain; InterPro: IPR003097 This domain is found in sulphite reductase, NADPH cytochrome P450 reductase, nitric oxide synthase and methionine synthase reductase. Flavoprotein pyridine nucleotide cytochrome reductases [] (FPNCR) catalyse the interchange of reducing equivalents between one-electron carriers and the two-electron-carrying nicotinamide dinucleotides. The enzymes include ferredoxin:NADP+reductases (FNR) [], plant and fungal NAD(P)H:nitrate reductases [, ], NADH:cytochrome b5 reductases [], NADPH:P450 reductases [], NADPH:sulphite reductases [], nitric oxide synthases [], phthalate dioxygenase reductase [], and various other flavoproteins.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3QFR_B 3FJO_A 3QFC_B 3QE2_B 3QFS_A 3QFT_A 2B5O_B 2QTZ_A 2QTL_A 2BPO_B ....
Probab=37.32 E-value=61 Score=24.59 Aligned_cols=24 Identities=17% Similarity=0.340 Sum_probs=14.1
Q ss_pred EEEEcCCCcEEccCCEEEEecCCC
Q 031269 13 SYTVKSISKTIKPGDCVLMRPSEP 36 (162)
Q Consensus 13 ~~~~~g~~~~~~vGD~V~v~~~~~ 36 (162)
.+.+.+.+..|++||.+.|.+.++
T Consensus 32 eldl~~~~l~Y~pGD~l~V~P~N~ 55 (219)
T PF00667_consen 32 ELDLSDSGLSYQPGDHLGVYPPND 55 (219)
T ss_dssp EEE-TTSTG---TT-EEEEE-SSE
T ss_pred EEEeCCCCCcccCCCEEEEEccCC
Confidence 445566678999999999999983
No 87
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=36.80 E-value=40 Score=23.16 Aligned_cols=22 Identities=23% Similarity=0.516 Sum_probs=18.1
Q ss_pred EEEcCCCcEEccCCEEEEecCC
Q 031269 14 YTVKSISKTIKPGDCVLMRPSE 35 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~ 35 (162)
++++|....++.||++++.++.
T Consensus 77 ~~~~g~~~~l~~Gd~i~ip~g~ 98 (131)
T COG1917 77 VQLEGEKKELKAGDVIIIPPGV 98 (131)
T ss_pred EEecCCceEecCCCEEEECCCC
Confidence 4556777799999999999975
No 88
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=36.09 E-value=29 Score=30.33 Aligned_cols=27 Identities=26% Similarity=0.737 Sum_probs=21.4
Q ss_pred cCCCceeeecCCCCCCC-cceeecCCCC
Q 031269 135 PDRVAVYCKCEMPYNPD-DLMVQCEGCS 161 (162)
Q Consensus 135 p~~~~~~C~c~~~~npd-~~~~~C~~c~ 161 (162)
|.+|...|+|.--..-| ..++||++|.
T Consensus 116 pkk~~iCcVClg~rs~da~ei~qCd~CG 143 (707)
T KOG0957|consen 116 PKKAVICCVCLGQRSVDAGEILQCDKCG 143 (707)
T ss_pred cccceEEEEeecCccccccceeeccccC
Confidence 67888999998775433 3899999995
No 89
>PF02311 AraC_binding: AraC-like ligand binding domain; InterPro: IPR003313 This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC. The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1XJA_B 2ARA_A 2AAC_B 2ARC_A.
Probab=35.84 E-value=91 Score=20.49 Aligned_cols=22 Identities=27% Similarity=0.588 Sum_probs=14.3
Q ss_pred EEEcCCCcEEccCCEEEEecCC
Q 031269 14 YTVKSISKTIKPGDCVLMRPSE 35 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~ 35 (162)
+.++|....++.||.+++.++.
T Consensus 36 ~~~~~~~~~l~~g~~~li~p~~ 57 (136)
T PF02311_consen 36 LHIDGQEYPLKPGDLFLIPPGQ 57 (136)
T ss_dssp EEETTEEEEE-TT-EEEE-TTS
T ss_pred EEECCEEEEEECCEEEEecCCc
Confidence 4566666678889999888887
No 90
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=35.61 E-value=34 Score=21.70 Aligned_cols=37 Identities=16% Similarity=0.347 Sum_probs=23.2
Q ss_pred EEEEcCCCcEEccCCEEEEecCCCC---CCCeEEEEeEEE
Q 031269 13 SYTVKSISKTIKPGDCVLMRPSEPS---KPSYVAKIERIE 49 (162)
Q Consensus 13 ~~~~~g~~~~~~vGD~V~v~~~~~~---~~~~Ig~I~~i~ 49 (162)
.|+++-.+..|++||.+.+.-=++. .....++|..|.
T Consensus 19 tfEiRkNDRdf~VGD~L~L~E~~~~~YTGr~~~~~Ityi~ 58 (72)
T PF12961_consen 19 TFEIRKNDRDFQVGDILVLREWDNGEYTGREIEAEITYIT 58 (72)
T ss_pred eEEEEecCCCCCCCCEEEEEEecCCCccccEEEEEEEEEe
Confidence 4556655569999999999875421 122345555554
No 91
>PRK03187 tgl transglutaminase; Provisional
Probab=35.38 E-value=30 Score=27.64 Aligned_cols=19 Identities=32% Similarity=0.632 Sum_probs=15.7
Q ss_pred EEcCCCcEEccCCEEEEecCC
Q 031269 15 TVKSISKTIKPGDCVLMRPSE 35 (162)
Q Consensus 15 ~~~g~~~~~~vGD~V~v~~~~ 35 (162)
+..|. .+-+||+||+++++
T Consensus 160 t~~g~--~~~PGD~vYFkNPd 178 (272)
T PRK03187 160 TKTGG--DFLPGDCVYFKNPD 178 (272)
T ss_pred EecCC--CCCCCcEEEecCCC
Confidence 44555 89999999999987
No 92
>COG0250 NusG Transcription antiterminator [Transcription]
Probab=35.37 E-value=1.1e+02 Score=22.92 Aligned_cols=45 Identities=29% Similarity=0.526 Sum_probs=35.2
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccc
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEE 69 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e 69 (162)
..+.+||.|-|.++. -..+.|+|+++..+. +. ..+.+.-|-|+-.
T Consensus 122 ~~~e~Gd~VrI~~Gp--Fa~f~g~V~evd~ek-~~-~~v~v~ifgr~tP 166 (178)
T COG0250 122 VDFEPGDVVRIIDGP--FAGFKAKVEEVDEEK-GK-LKVEVSIFGRPTP 166 (178)
T ss_pred ccCCCCCEEEEeccC--CCCccEEEEEEcCcC-cE-EEEEEEEeCCceE
Confidence 378999999999987 567999999999875 33 6777777766543
No 93
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=35.12 E-value=1.1e+02 Score=22.10 Aligned_cols=43 Identities=21% Similarity=0.192 Sum_probs=33.6
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeeccccc
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEES 70 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~ 70 (162)
.+.+||.|.|..+. -.-+.|+|.++.... ..+.+..+-+.-.|
T Consensus 94 ~~~~G~~V~I~~Gp--f~g~~g~V~~vd~~k----~~v~v~ll~~~~~~ 136 (153)
T PRK08559 94 GIKEGDIVELIAGP--FKGEKARVVRVDESK----EEVTVELLEAAVPI 136 (153)
T ss_pred CCCCCCEEEEeccC--CCCceEEEEEEcCCC----CEEEEEEECCccee
Confidence 58999999999986 577899999998642 44888888665543
No 94
>PRK04980 hypothetical protein; Provisional
Probab=35.00 E-value=77 Score=21.52 Aligned_cols=31 Identities=29% Similarity=0.498 Sum_probs=19.2
Q ss_pred EEEcC-CCcEEccCCEEEEecCCCCCCCeEEEEe
Q 031269 14 YTVKS-ISKTIKPGDCVLMRPSEPSKPSYVAKIE 46 (162)
Q Consensus 14 ~~~~g-~~~~~~vGD~V~v~~~~~~~~~~Ig~I~ 46 (162)
++++. ..-.+++||.|.|...+ +..++|.|+
T Consensus 22 iTiRd~se~~~~~G~~~~V~~~e--~g~~~c~ie 53 (102)
T PRK04980 22 ITIRDESESHFKPGDVLRVGTFE--DDRYFCTIE 53 (102)
T ss_pred EEeeCCcccCCCCCCEEEEEECC--CCcEEEEEE
Confidence 44543 23468999999997555 245555544
No 95
>PTZ00194 60S ribosomal protein L26; Provisional
Probab=33.75 E-value=83 Score=22.75 Aligned_cols=39 Identities=8% Similarity=0.086 Sum_probs=28.2
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEe
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWY 64 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wf 64 (162)
.|+.||.|.|.++. +.--.|+|.++.... +. +.|.+.-.
T Consensus 46 ~IkkGD~V~Vi~Gk--~KGk~GkV~~V~~k~-~~-ViVEgvn~ 84 (143)
T PTZ00194 46 PVRKDDEVMVVRGH--HKGREGKVTAVYRKK-WV-IHIEKITR 84 (143)
T ss_pred eeecCCEEEEecCC--CCCCceEEEEEEcCC-CE-EEEeCeEE
Confidence 78999999999998 455669999997754 32 44444333
No 96
>PF01079 Hint: Hint module; InterPro: IPR001767 This domain identifies a group of cysteine peptidases correspond to MEROPS peptidase family C46 (clan CH). The type example is the Hedgehog protein from Drosophila melanogaster (Fruit fly). These are involved in intracellular signalling required for a variety of patterning events during development. The hedgehog family of proteins self process by a cysteine-dependent mechanism, which is a one-time autolytic cleavage. It is differentiated from a typical peptidase reaction by the fact that the newly-formed carboxyl group is esterified with cholesterol, rather than being left free. The three-dimensional structure of the autolytic domain of the hedgehog protein of D. melanogaster shows that it is formed from two divergent copies of a module that also occurs in inteins, called a Hint domain [,].; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 3K7H_B 3K7I_B 3K7G_B 1AT0_A 3MXW_A 3M1N_B 3HO5_H 2WFR_A 2WFQ_A 2WG3_B ....
Probab=33.65 E-value=56 Score=25.21 Aligned_cols=28 Identities=21% Similarity=0.498 Sum_probs=16.5
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~ 50 (162)
.+++||+|++...+ .......+|.++..
T Consensus 105 ~V~~Gd~v~~~~~~-~~~~~~~~V~~v~~ 132 (217)
T PF01079_consen 105 DVRVGDCVLVSDEG-GGKLRPSRVVRVST 132 (217)
T ss_dssp G--TT-EEEEE-TT-T--EEEEEEEEEEE
T ss_pred hCCCCCEEEEEEcC-CCcEEEEEEEEEEE
Confidence 67999999995444 25677788887765
No 97
>COG3269 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]
Probab=33.65 E-value=1.3e+02 Score=19.17 Aligned_cols=41 Identities=15% Similarity=0.148 Sum_probs=21.2
Q ss_pred CCCCCCceeeeEEE--EcCCCcEEccCCEEEEecCCCCCCCeEEEEe
Q 031269 2 AKPKAPRRTLESYT--VKSISKTIKPGDCVLMRPSEPSKPSYVAKIE 46 (162)
Q Consensus 2 ~~~~~~~~~y~~~~--~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~ 46 (162)
|+.++|.....+|. +.|. .+||.|-|.-..-....-+|.|.
T Consensus 27 g~~GDGiarveGfvVFVp~a----~~Gd~V~vkI~~v~~~~afaevv 69 (73)
T COG3269 27 GDQGDGIARVEGFVVFVPGA----EVGDEVKVKITKVKPNFAFAEVV 69 (73)
T ss_pred ccCCCceEEEEEEEEEeCCC----CCCCeeeEEEEEeeccceeeEEe
Confidence 45566666666553 3333 56666666655432334444443
No 98
>CHL00010 infA translation initiation factor 1
Probab=33.17 E-value=1.1e+02 Score=19.49 Aligned_cols=29 Identities=24% Similarity=0.137 Sum_probs=15.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
.+.+||.|.+.... ....-|+|+.=+.+.
T Consensus 46 ~~~vGD~V~ve~~~--~~~~~g~Ii~r~~~~ 74 (78)
T CHL00010 46 RILPGDRVKVELSP--YDLTKGRIIYRLRNK 74 (78)
T ss_pred ccCCCCEEEEEEcc--cCCCeEEEEEEecCC
Confidence 35678888887533 122235665555443
No 99
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=33.03 E-value=63 Score=15.43 Aligned_cols=15 Identities=27% Similarity=0.370 Sum_probs=10.3
Q ss_pred EEeEEEecCCCCeEEE
Q 031269 44 KIERIESDARGANVKV 59 (162)
Q Consensus 44 ~I~~i~~~~~g~~~~v 59 (162)
.|..|.++.+|. .|+
T Consensus 6 ~I~~i~~D~~G~-lWi 20 (24)
T PF07494_consen 6 NIYSIYEDSDGN-LWI 20 (24)
T ss_dssp CEEEEEE-TTSC-EEE
T ss_pred eEEEEEEcCCcC-EEE
Confidence 367888888887 665
No 100
>COG0198 RplX Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]
Probab=32.67 E-value=78 Score=21.60 Aligned_cols=28 Identities=18% Similarity=0.278 Sum_probs=23.5
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~ 51 (162)
.++.||.|+|.++. +.=--|+|.++...
T Consensus 4 ~IrkGD~V~Vi~Gk--dKGk~GkVl~v~~k 31 (104)
T COG0198 4 KVKKGDTVKVIAGK--DKGKEGKVLKVLPK 31 (104)
T ss_pred ceecCCEEEEEecC--CCCcceEEEEEecC
Confidence 67999999999998 56677888888765
No 101
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=32.45 E-value=40 Score=20.18 Aligned_cols=22 Identities=23% Similarity=0.519 Sum_probs=18.2
Q ss_pred eeeecCCCCCCCcceeecCCCC
Q 031269 140 VYCKCEMPYNPDDLMVQCEGCS 161 (162)
Q Consensus 140 ~~C~c~~~~npd~~~~~C~~c~ 161 (162)
+.=.|.++..+.+..++|+.|.
T Consensus 7 ~C~~Cg~~~~~~dDiVvCp~Cg 28 (54)
T PF14446_consen 7 KCPVCGKKFKDGDDIVVCPECG 28 (54)
T ss_pred cChhhCCcccCCCCEEECCCCC
Confidence 3446899999999999999996
No 102
>cd04466 S1_YloQ_GTPase S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of three domains: an N-terminal S1 domain, a central GTPase domain, and a C-terminal zinc finger domain. This N-terminal S1 domain binds ssRNA. The central GTPase domain contains nucleotide-binding signature motifs: G1 (walker A), G3 (walker B) and G4 motifs. Experiments show that the bacterial YloQ and YjeQ proteins have low intrinsic GTPase activity. The C-terminal zinc-finger domain has structural similarity to a portion of the DNA-repair protein Rad51. This suggests a possible role for this GTPase as a regulator of translation, perhaps as a translation initiation factor. This family is classified based on the N-terminal S1 domain.
Probab=32.33 E-value=65 Score=19.21 Aligned_cols=25 Identities=28% Similarity=0.298 Sum_probs=16.3
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~ 50 (162)
...+||.|.+...+. + -+.|+++.+
T Consensus 37 ~~~VGD~V~~~~~~~-~---~~~I~~vl~ 61 (68)
T cd04466 37 PPAVGDRVEFEPEDD-G---EGVIEEILP 61 (68)
T ss_pred CCCCCcEEEEEECCC-C---cEEEEEEec
Confidence 468999999976441 2 255666654
No 103
>PRK02935 hypothetical protein; Provisional
Probab=32.30 E-value=24 Score=24.13 Aligned_cols=10 Identities=30% Similarity=0.863 Sum_probs=7.7
Q ss_pred ceeecCCCCC
Q 031269 153 LMVQCEGCSD 162 (162)
Q Consensus 153 ~~~~C~~c~~ 162 (162)
..++|++|+|
T Consensus 69 vqV~CP~C~K 78 (110)
T PRK02935 69 VQVICPSCEK 78 (110)
T ss_pred eeeECCCCCc
Confidence 3578999986
No 104
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=31.56 E-value=2.4e+02 Score=22.17 Aligned_cols=48 Identities=25% Similarity=0.169 Sum_probs=33.2
Q ss_pred cEEccCCEEEEecCCC--CCCCeEEEEeEEEecCCCCeEEEEEEEeeccc
Q 031269 21 KTIKPGDCVLMRPSEP--SKPSYVAKIERIESDARGANVKVHVRWYYRPE 68 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~--~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~ 68 (162)
..++.||-|+-..-+. +....||+|.++..+.++-...+.+.=+..+.
T Consensus 213 ~~i~~GD~VvTSGl~g~fP~Gi~VG~V~~v~~~~~~~~~~~~v~p~~d~~ 262 (276)
T PRK13922 213 ADIKVGDLVVTSGLGGIFPAGLPVGKVTSVERDDYGLFKTVYVKPAADLD 262 (276)
T ss_pred CCCCCCCEEEECCCCCcCCCCCEEEEEEEEEeCCCCCeeEEEEEECcccC
Confidence 3689999988777642 34568999999977765543566666554433
No 105
>PF09345 DUF1987: Domain of unknown function (DUF1987); InterPro: IPR018530 This family of proteins are functionally uncharacterised.
Probab=31.52 E-value=37 Score=22.85 Aligned_cols=15 Identities=40% Similarity=0.833 Sum_probs=12.6
Q ss_pred EEEEEEEeecccccC
Q 031269 57 VKVHVRWYYRPEESI 71 (162)
Q Consensus 57 ~~v~v~Wfyrp~e~~ 71 (162)
..|+|.|||.++|..
T Consensus 77 ~~V~v~Wyyd~dD~~ 91 (99)
T PF09345_consen 77 GKVTVNWYYDEDDED 91 (99)
T ss_pred CcEEEEEEECCCCch
Confidence 679999999988753
No 106
>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type. A related model finds a simlar protein in many archaea and a few bacteria, as well as a microsomal (endoplasmic reticulum) protein in eukaryotes.
Probab=31.03 E-value=1.4e+02 Score=21.59 Aligned_cols=28 Identities=25% Similarity=0.450 Sum_probs=19.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEE
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIE 49 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~ 49 (162)
.++.||.|.+..+......+|-||..+-
T Consensus 51 ~~~rGDiVvf~~~~~~~~~~iKRVig~p 78 (163)
T TIGR02227 51 DPKRGDIVVFKDPDDNKNIYVKRVIGLP 78 (163)
T ss_pred CCCCCcEEEEecCCCCCceeEEEEEecC
Confidence 5677888888776434567788887764
No 107
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=30.81 E-value=25 Score=21.98 Aligned_cols=11 Identities=45% Similarity=1.114 Sum_probs=7.0
Q ss_pred CcceeecCCCC
Q 031269 151 DDLMVQCEGCS 161 (162)
Q Consensus 151 d~~~~~C~~c~ 161 (162)
--.+++|++|+
T Consensus 26 GvViv~C~gC~ 36 (66)
T PF05180_consen 26 GVVIVQCPGCK 36 (66)
T ss_dssp SEEEEE-TTS-
T ss_pred CeEEEECCCCc
Confidence 34789999996
No 108
>PRK12496 hypothetical protein; Provisional
Probab=30.64 E-value=31 Score=25.36 Aligned_cols=26 Identities=31% Similarity=0.506 Sum_probs=20.3
Q ss_pred CCCceeee-cCCCCCCCcceeecCCCC
Q 031269 136 DRVAVYCK-CEMPYNPDDLMVQCEGCS 161 (162)
Q Consensus 136 ~~~~~~C~-c~~~~npd~~~~~C~~c~ 161 (162)
..|...|. |.+-++-+...-.|+.|.
T Consensus 124 ~~w~~~C~gC~~~~~~~~~~~~C~~CG 150 (164)
T PRK12496 124 IKWRKVCKGCKKKYPEDYPDDVCEICG 150 (164)
T ss_pred eeeeEECCCCCccccCCCCCCcCCCCC
Confidence 57888899 998887555556899995
No 109
>PRK00276 infA translation initiation factor IF-1; Validated
Probab=30.63 E-value=1.1e+02 Score=18.92 Aligned_cols=12 Identities=42% Similarity=0.545 Sum_probs=8.2
Q ss_pred EEccCCEEEEec
Q 031269 22 TIKPGDCVLMRP 33 (162)
Q Consensus 22 ~~~vGD~V~v~~ 33 (162)
.+.+||.|.+..
T Consensus 46 ~i~vGD~V~ve~ 57 (72)
T PRK00276 46 RILPGDKVTVEL 57 (72)
T ss_pred ccCCCCEEEEEE
Confidence 456777777774
No 110
>TIGR01956 NusG_myco NusG family protein. This model represents a family of Mycoplasma proteins orthologous to the bacterial transcription termination/antitermination factor NusG. These sequences from Mycoplasma are notably diverged (long branches in a Neighbor-joining phylogenetic tree) from the bacterial species. And although NusA and ribosomal protein S10 (NusE) appear to be present, NusB may be absent in Mycoplasmas calling into question whether these species have a functional Nus system including this family as a member.
Probab=30.46 E-value=1.4e+02 Score=23.83 Aligned_cols=43 Identities=19% Similarity=0.238 Sum_probs=34.3
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeeccc
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPE 68 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~ 68 (162)
.+.+||.|.|..+. -.-+.|.|.++..+. +. ..|.+.+|-|.-
T Consensus 205 ~f~vGd~VrI~dGP--F~GfeG~I~eid~~k-~R-v~VlV~IfGR~T 247 (258)
T TIGR01956 205 KFRVGNFVKIVDGP--FKGIVGKIKKIDQEK-KK-AIVEVEILGKSV 247 (258)
T ss_pred CCCCCCEEEEEecC--CCCcEEEEEEEeCCC-CE-EEEEEEecCCcE
Confidence 47899999999987 678899999998632 33 788888887653
No 111
>COG1935 Uncharacterized conserved protein [Function unknown]
Probab=30.32 E-value=1.1e+02 Score=21.28 Aligned_cols=43 Identities=21% Similarity=0.440 Sum_probs=29.0
Q ss_pred ceeeeEEEEcCC-----CcEEccCCEEEEecCCC-----CCCCeEEEEeEEEe
Q 031269 8 RRTLESYTVKSI-----SKTIKPGDCVLMRPSEP-----SKPSYVAKIERIES 50 (162)
Q Consensus 8 ~~~y~~~~~~g~-----~~~~~vGD~V~v~~~~~-----~~~~~Ig~I~~i~~ 50 (162)
+.+|+.++++.. -...+.||+|++.+... ...--||+|.++..
T Consensus 19 ~~~~rTieiRsa~N~~tv~rl~~GDlVFlT~~~~~Dl~~GtsGiiAkV~~vev 71 (122)
T COG1935 19 RNPIRTIEIRSARNLLTVLRLHEGDLVFLTSTSLEDLTKGTSGIIAKVRRVEV 71 (122)
T ss_pred hCCceEEEEEcccchHHhhcCCCCCEEEEehhHhhHhhcCcceeEEEEEEEEE
Confidence 456777776652 13669999999999642 23446787777654
No 112
>PF04322 DUF473: Protein of unknown function (DUF473); InterPro: IPR007417 This is a family of uncharacterised archaeal proteins.
Probab=29.24 E-value=2e+02 Score=20.06 Aligned_cols=43 Identities=19% Similarity=0.472 Sum_probs=29.7
Q ss_pred ceeeeEEEEcCCC-----cEEccCCEEEEecCCC-----CCCCeEEEEeEEEe
Q 031269 8 RRTLESYTVKSIS-----KTIKPGDCVLMRPSEP-----SKPSYVAKIERIES 50 (162)
Q Consensus 8 ~~~y~~~~~~g~~-----~~~~vGD~V~v~~~~~-----~~~~~Ig~I~~i~~ 50 (162)
+.+++-++++... ....+||+|++.+... ...--||+|.++..
T Consensus 19 ~~~~RTiEirSa~N~~~~~~~~~Gd~VFlT~~~~~Dl~~Gt~GiIa~V~~~~i 71 (119)
T PF04322_consen 19 KNHIRTIEIRSAHNVIALESLDPGDRVFLTSVSLEDLTPGTEGIIAEVKKIEI 71 (119)
T ss_pred hCCceEEEEEcchheeeeecCCCCCEEEEecCCHHHCCCCCCeEEEEEEEEEE
Confidence 3566677666521 2559999999999752 24557888888765
No 113
>COG4127 Uncharacterized conserved protein [Function unknown]
Probab=29.11 E-value=40 Score=27.21 Aligned_cols=42 Identities=19% Similarity=0.328 Sum_probs=31.4
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCC----CCeEEEEEEEe
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDAR----GANVKVHVRWY 64 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~----g~~~~v~v~Wf 64 (162)
+++.||.|.+.+... ..++||+|.+=++-.. |-.....|.|+
T Consensus 72 eI~KGDlvi~y~k~~-r~y~IGkVtsdYEy~p~~~~~i~hTrkVkWL 117 (318)
T COG4127 72 EIQKGDLVITYSKSN-RTYLIGKVTSDYEYHPEWLEGIGHTRKVKWL 117 (318)
T ss_pred HhccCcEEEeecccC-ceEEEEEecCCcccCccccccCchhhHhHHh
Confidence 679999999999874 7899999998776421 11134677887
No 114
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic. This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by the related TIGR01079.
Probab=28.58 E-value=1.1e+02 Score=21.11 Aligned_cols=29 Identities=14% Similarity=0.257 Sum_probs=24.5
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~ 51 (162)
..++.||-|.|.++. +.-..|.|.++...
T Consensus 40 ~~IkkGD~V~Vi~Gk--~KGk~GkV~~V~~~ 68 (114)
T TIGR01080 40 LPVRKGDKVRIMRGD--FKGHEGKVSKVDLK 68 (114)
T ss_pred ceeecCCEEEEecCC--CCCCEEEEEEEEcC
Confidence 378999999999998 56678999999854
No 115
>PF05899 Cupin_3: Protein of unknown function (DUF861); InterPro: IPR008579 The function of the proteins in this entry are unknown. They contain the conserved barrel domain of the 'cupin' superfamily and members are specific to plants and bacteria.; PDB: 1RC6_A 3MYX_A 1O5U_A 2K9Z_A 1LKN_A 3ES4_A 1SFN_B 3BCW_A.
Probab=28.49 E-value=35 Score=21.31 Aligned_cols=19 Identities=21% Similarity=0.288 Sum_probs=14.1
Q ss_pred cCCCcEEccCCEEEEecCC
Q 031269 17 KSISKTIKPGDCVLMRPSE 35 (162)
Q Consensus 17 ~g~~~~~~vGD~V~v~~~~ 35 (162)
+|...+++.||.|++..+-
T Consensus 42 ~G~~~~~~aGD~~~~p~G~ 60 (74)
T PF05899_consen 42 DGETVTFKAGDAFFLPKGW 60 (74)
T ss_dssp TTEEEEEETTEEEEE-TTE
T ss_pred CCCEEEEcCCcEEEECCCC
Confidence 4445688999999998875
No 116
>PRK11171 hypothetical protein; Provisional
Probab=28.29 E-value=2.3e+02 Score=22.36 Aligned_cols=22 Identities=14% Similarity=0.385 Sum_probs=16.2
Q ss_pred EEEcCCCcEEccCCEEEEecCC
Q 031269 14 YTVKSISKTIKPGDCVLMRPSE 35 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~ 35 (162)
+.++|....+..||++++.++.
T Consensus 96 v~~~g~~~~L~~GDsi~~p~~~ 117 (266)
T PRK11171 96 LTLEGKTHALSEGGYAYLPPGS 117 (266)
T ss_pred EEECCEEEEECCCCEEEECCCC
Confidence 3445555677889999998876
No 117
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=27.64 E-value=65 Score=23.68 Aligned_cols=42 Identities=14% Similarity=0.108 Sum_probs=25.6
Q ss_pred EEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecc
Q 031269 14 YTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRP 67 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp 67 (162)
+.++|....+..||++++.++.+ + -|.+. +. ..+++.|...|
T Consensus 141 ~~~~~~~~~l~~Gd~~~~~~~~~----H------~~~n~-~~-~~~~~l~~~~p 182 (185)
T PRK09943 141 LTINGQDYHLVAGQSYAINTGIP----H------SFSNT-SA-GICRIISAHTP 182 (185)
T ss_pred EEECCEEEEecCCCEEEEcCCCC----e------eeeCC-CC-CCeEEEEEeCC
Confidence 35566656778899999888763 1 12222 22 34677777655
No 118
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=27.62 E-value=28 Score=17.35 Aligned_cols=9 Identities=44% Similarity=0.925 Sum_probs=6.6
Q ss_pred eeecCCCCC
Q 031269 154 MVQCEGCSD 162 (162)
Q Consensus 154 ~~~C~~c~~ 162 (162)
+++|+.|.+
T Consensus 1 ~v~CPiC~~ 9 (26)
T smart00734 1 LVQCPVCFR 9 (26)
T ss_pred CCcCCCCcC
Confidence 468999864
No 119
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=27.56 E-value=42 Score=26.75 Aligned_cols=23 Identities=26% Similarity=0.758 Sum_probs=18.5
Q ss_pred CCceeeecCCCCCCCcceeecCC--CC
Q 031269 137 RVAVYCKCEMPYNPDDLMVQCEG--CS 161 (162)
Q Consensus 137 ~~~~~C~c~~~~npd~~~~~C~~--c~ 161 (162)
.-..+|.|+ ...-..||.|++ |.
T Consensus 217 ~e~~yC~Cn--qvsyg~Mi~CDn~~C~ 241 (274)
T KOG1973|consen 217 DEPTYCICN--QVSYGKMIGCDNPGCP 241 (274)
T ss_pred CCCEEEEec--ccccccccccCCCCCC
Confidence 346899999 456678999999 86
No 120
>PTZ00329 eukaryotic translation initiation factor 1A; Provisional
Probab=27.16 E-value=1.2e+02 Score=22.30 Aligned_cols=16 Identities=31% Similarity=0.451 Sum_probs=9.4
Q ss_pred EEEEEEEeecccccCC
Q 031269 57 VKVHVRWYYRPEESIG 72 (162)
Q Consensus 57 ~~v~v~Wfyrp~e~~~ 72 (162)
....+.|=|.+.++..
T Consensus 87 ~KgdIi~Ry~~devr~ 102 (155)
T PTZ00329 87 SKADVILKYTPDEARA 102 (155)
T ss_pred CEEEEEEEcCHHHHHH
Confidence 3456666666666553
No 121
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=26.84 E-value=41 Score=30.21 Aligned_cols=49 Identities=16% Similarity=0.244 Sum_probs=35.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcc
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGR 74 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~ 74 (162)
.+..||++++.+.+ .-+ .-+|.-.+...+|. .++...|+-++.++..+.
T Consensus 375 ~~~~~d~~~~an~~--~~~-~~i~~p~~~~~eg~-~~~~t~~~~~~t~t~~s~ 423 (629)
T KOG1827|consen 375 KLETGDFLLVANSP--LCP-RYIIRPNTPEPEGK-NDFSTGWIITSTETTPSE 423 (629)
T ss_pred cccccceeeecCCC--CCc-ceeeccCCCCcccc-cccccceeccCCCCccCC
Confidence 46889999999965 222 23344445555687 899999999999998664
No 122
>PF06719 AraC_N: AraC-type transcriptional regulator N-terminus; InterPro: IPR009594 This entry represents the N terminus of bacterial ARAC-type transcriptional regulators. In Escherichia coli these regulate the L-arabinose operon through sensing the presence of arabinose, and when the sugar is present, transmitting this information from the arabinose-binding domains to the protein s DNA-binding domains []. This family might represent the N-terminal arm of the protein, which binds to the C-terminal DNA binding domains to hold them in a state where the protein prefers to loop and remain non-activating []. This domain is associated with the IPR000005 from INTERPRO domain.
Probab=26.82 E-value=2.1e+02 Score=20.36 Aligned_cols=20 Identities=5% Similarity=0.042 Sum_probs=9.8
Q ss_pred EEcCCCcEEccCCEEEEecC
Q 031269 15 TVKSISKTIKPGDCVLMRPS 34 (162)
Q Consensus 15 ~~~g~~~~~~vGD~V~v~~~ 34 (162)
.++++...|..|+++.+..+
T Consensus 37 ~~g~~~~~Y~~g~~lv~~~~ 56 (155)
T PF06719_consen 37 HLGDQVFEYDAGQYLVSSVD 56 (155)
T ss_pred EECCceEEecCCcEEEecCC
Confidence 33444445555555555444
No 123
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=26.81 E-value=36 Score=23.54 Aligned_cols=10 Identities=30% Similarity=0.989 Sum_probs=7.9
Q ss_pred ceeecCCCCC
Q 031269 153 LMVQCEGCSD 162 (162)
Q Consensus 153 ~~~~C~~c~~ 162 (162)
..++|++|++
T Consensus 68 v~V~CP~C~K 77 (114)
T PF11023_consen 68 VQVECPNCGK 77 (114)
T ss_pred eeeECCCCCC
Confidence 5678999975
No 124
>COG0298 HypC Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=26.77 E-value=72 Score=20.73 Aligned_cols=13 Identities=38% Similarity=0.601 Sum_probs=11.2
Q ss_pred EEccCCEEEEecC
Q 031269 22 TIKPGDCVLMRPS 34 (162)
Q Consensus 22 ~~~vGD~V~v~~~ 34 (162)
..++||+|+|..+
T Consensus 38 ~v~~GdyVLVHvG 50 (82)
T COG0298 38 EVKVGDYVLVHVG 50 (82)
T ss_pred ccccCCEEEEEee
Confidence 6799999999876
No 125
>cd05838 WHSC1_related The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as plasmacytoma. WHCS1 proteins typically contain two copies of the PWWP domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=26.51 E-value=1.1e+02 Score=20.20 Aligned_cols=39 Identities=18% Similarity=0.071 Sum_probs=26.7
Q ss_pred ccCCEEEEecCCCCCCCeEEEEeEEEecC------CCCeEEEEEEEe
Q 031269 24 KPGDCVLMRPSEPSKPSYVAKIERIESDA------RGANVKVHVRWY 64 (162)
Q Consensus 24 ~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~------~g~~~~v~v~Wf 64 (162)
.+||.|..+-.. .+.|-|+|.+-.... ......+-|++|
T Consensus 2 ~~GdlVWaK~~g--~pwWPa~V~~~~~~p~~~~~~~~~~~~~~V~Ff 46 (95)
T cd05838 2 LYGDIVWAKLGN--FRWWPAIICDPREVPPNIQVLRHCIGEFCVMFF 46 (95)
T ss_pred CcCCEEEEECCC--CCCCCeEEcChhhcChhHhhccCCCCeEEEEEe
Confidence 579999999887 689999998743211 111135777777
No 126
>COG1471 RPS4A Ribosomal protein S4E [Translation, ribosomal structure and biogenesis]
Probab=26.46 E-value=3e+02 Score=21.62 Aligned_cols=15 Identities=33% Similarity=0.439 Sum_probs=13.4
Q ss_pred cEEccCCEEEEecCC
Q 031269 21 KTIKPGDCVLMRPSE 35 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~ 35 (162)
..|++||.|.+..++
T Consensus 151 ~~~k~~Dtv~i~lp~ 165 (241)
T COG1471 151 DNYKTGDTVKISLPE 165 (241)
T ss_pred CccccccEEEEeCCC
Confidence 389999999999987
No 127
>PLN00208 translation initiation factor (eIF); Provisional
Probab=26.33 E-value=1.2e+02 Score=21.91 Aligned_cols=17 Identities=29% Similarity=0.176 Sum_probs=10.2
Q ss_pred EEEEEEEeecccccCCc
Q 031269 57 VKVHVRWYYRPEESIGG 73 (162)
Q Consensus 57 ~~v~v~Wfyrp~e~~~~ 73 (162)
....+.|=|.+.++...
T Consensus 87 ~KgdIv~ry~~dqvr~L 103 (145)
T PLN00208 87 DKADVILKYMPDEARLL 103 (145)
T ss_pred CEEEEEEEcCHHHHHHH
Confidence 45666666666666533
No 128
>cd03698 eRF3_II_like eRF3_II_like: domain similar to domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM
Probab=25.98 E-value=1.7e+02 Score=18.32 Aligned_cols=25 Identities=32% Similarity=0.594 Sum_probs=20.0
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~ 51 (162)
.+++||.|++.+.+ . .++|.+|...
T Consensus 26 ~i~~Gd~v~i~P~~--~---~~~V~si~~~ 50 (83)
T cd03698 26 SIQKGDTLLVMPSK--E---SVEVKSIYVD 50 (83)
T ss_pred EEeCCCEEEEeCCC--c---EEEEEEEEEC
Confidence 78999999999976 2 4788888754
No 129
>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.
Probab=25.77 E-value=1.6e+02 Score=18.87 Aligned_cols=15 Identities=53% Similarity=0.667 Sum_probs=12.3
Q ss_pred cEEccCCEEEEecCC
Q 031269 21 KTIKPGDCVLMRPSE 35 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~ 35 (162)
.-++-||+|+|.+-+
T Consensus 37 iWIkrGd~VlV~p~~ 51 (78)
T cd05792 37 IWIKRGDFVLVEPIE 51 (78)
T ss_pred EEEEeCCEEEEEecc
Confidence 468999999997755
No 130
>PF13437 HlyD_3: HlyD family secretion protein
Probab=25.33 E-value=2e+02 Score=18.59 Aligned_cols=31 Identities=26% Similarity=0.387 Sum_probs=20.2
Q ss_pred EEc-cCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 22 TIK-PGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 22 ~~~-vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
.++ .|+-|.+..++.....+-|+|.+|....
T Consensus 49 ~i~~~g~~v~v~~~~~~~~~~~g~V~~I~~~~ 80 (105)
T PF13437_consen 49 RIKDPGQKVTVRLDPGPEKTIEGKVSSISPSP 80 (105)
T ss_pred ceEeCCCEEEEEECCCCCcEEEEEEEEEeCcc
Confidence 555 7777777766323457777777777643
No 131
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=25.30 E-value=1e+02 Score=18.87 Aligned_cols=38 Identities=16% Similarity=0.406 Sum_probs=18.8
Q ss_pred eeeccCcceec-c-CCCceeeecCCCCCCCcceeecCCCC
Q 031269 124 FEYNSSSGAFN-P-DRVAVYCKCEMPYNPDDLMVQCEGCS 161 (162)
Q Consensus 124 ~~yd~~~~~f~-p-~~~~~~C~c~~~~npd~~~~~C~~c~ 161 (162)
..|+.+++.|+ | .=..+.-+.....-.-...--|++|+
T Consensus 12 ftf~~e~~~ftyPCPCGDRFeIsLeDl~~GE~VArCPSCS 51 (67)
T COG5216 12 FTFSREEKTFTYPCPCGDRFEISLEDLRNGEVVARCPSCS 51 (67)
T ss_pred eEEcCCCceEEecCCCCCEeEEEHHHhhCCceEEEcCCce
Confidence 45667777776 3 11122222222222334567788885
No 132
>COG3450 Predicted enzyme of the cupin superfamily [General function prediction only]
Probab=24.90 E-value=63 Score=22.46 Aligned_cols=18 Identities=11% Similarity=0.246 Sum_probs=14.2
Q ss_pred CCCcEEccCCEEEEecCC
Q 031269 18 SISKTIKPGDCVLMRPSE 35 (162)
Q Consensus 18 g~~~~~~vGD~V~v~~~~ 35 (162)
|+...|+.||.+++.++-
T Consensus 81 Ge~v~~~aGD~~~~~~G~ 98 (116)
T COG3450 81 GEPVEVRAGDSFVFPAGF 98 (116)
T ss_pred CeEEEEcCCCEEEECCCC
Confidence 444588999999998875
No 133
>cd05841 BS69_related The PWWP domain is part of BS69 protein, a nuclear protein that specifically binds adenoviral E1A and Epstein-Barr viral EBNA2 proteins, suppressing their transactivation functions. BS69 is a multi-domain protein, containing bromo, PHD, PWWP, and MYND domains. The specific role of the PWWP domain within BS69 is not clearly identified, but BS69 functions in chromatin remodeling, consistent with other PWWP-containing proteins. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=24.72 E-value=1.6e+02 Score=19.15 Aligned_cols=39 Identities=26% Similarity=0.401 Sum_probs=29.5
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccc
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEE 69 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e 69 (162)
...||.|.-+-.+ -++|-|+|.+.. + ..+.|++|-...+
T Consensus 7 ~~p~dLVwAK~kG--yp~WPAkV~~~~----~--~~~~V~FFG~t~~ 45 (83)
T cd05841 7 RPPHELVWAKLKG--FPYWPAKVMRVE----D--NQVDVRFFGGQHD 45 (83)
T ss_pred CCCCCEEEEeCCC--CCCCCEEEeecC----C--CeEEEEEcCCCCC
Confidence 4679999998887 689999998642 1 4688999974444
No 134
>COG3097 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.71 E-value=1.7e+02 Score=19.61 Aligned_cols=36 Identities=28% Similarity=0.438 Sum_probs=26.2
Q ss_pred EEEcCCC-cEEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031269 14 YTVKSIS-KTIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (162)
Q Consensus 14 ~~~~g~~-~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~ 51 (162)
++|++.. -.|+.||.+-|..-+ +..+++-|+=+-.+
T Consensus 23 ITIRD~SEShf~~g~vlrV~r~E--d~~~fc~I~vl~vs 59 (106)
T COG3097 23 ITIRDKSESHFKPGDVLRVGRFE--DDRYFCTIEVLAVS 59 (106)
T ss_pred EEEeccchhcCCCCCEEEEEEec--CCcEEEEEEEEEec
Confidence 5555532 378999999999887 57888888766554
No 135
>PF02559 CarD_CdnL_TRCF: CarD-like/TRCF domain; InterPro: IPR003711 The bacterium Myxococcus xanthus responds to blue light by producing carotenoids. It also responds to starvation conditions by developing fruiting bodies, where the cells differentiate into myxospores. Each response entails the transcriptional activation of a separate set of genes. A single gene, carD, is required for the activation of both light- and starvation-inducible genes []. The predicted protein contains four repeats of a DNA-binding domain present in mammalian high mobility group I(Y) proteins and other nuclear proteins from animals and plants. Other peptide stretches on CarD also resemble functional domains typical of eukaryotic transcription factors, including a very acidic region and a leucine zipper. High mobility group yI(Y) proteins are known to bind the minor groove of A+T-rich DNA [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3MLQ_H 2EYQ_A.
Probab=24.28 E-value=1e+02 Score=20.12 Aligned_cols=24 Identities=38% Similarity=0.428 Sum_probs=17.1
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
|++||.|.=...+ ||+|..|-.-.
T Consensus 2 f~~GD~VVh~~~G------v~~i~~i~~~~ 25 (98)
T PF02559_consen 2 FKIGDYVVHPNHG------VGRIEGIEEIE 25 (98)
T ss_dssp --TTSEEEETTTE------EEEEEEEEEEE
T ss_pred CCCCCEEEECCCc------eEEEEEEEEEe
Confidence 6889999866555 89999887753
No 136
>KOG1740 consensus Predicted mitochondrial/chloroplast ribosomal protein S17 [Translation, ribosomal structure and biogenesis]
Probab=24.11 E-value=49 Score=22.46 Aligned_cols=27 Identities=26% Similarity=0.415 Sum_probs=21.0
Q ss_pred eeeEEEEcCCCcEEccCCEEEEecCCC
Q 031269 10 TLESYTVKSISKTIKPGDCVLMRPSEP 36 (162)
Q Consensus 10 ~y~~~~~~g~~~~~~vGD~V~v~~~~~ 36 (162)
+++.+.+.+.+...++||.|-|.+.-+
T Consensus 37 ~~~kymahD~~n~cnvGD~VrlepsRP 63 (107)
T KOG1740|consen 37 RTSKYMAHDDKNQCNVGDRVRLEPSRP 63 (107)
T ss_pred HhhheeecCccccccccceEEeccCCc
Confidence 455666676666899999999999864
No 137
>PTZ00223 40S ribosomal protein S4; Provisional
Probab=24.10 E-value=2.8e+02 Score=22.31 Aligned_cols=14 Identities=21% Similarity=0.354 Sum_probs=11.6
Q ss_pred EEccCCEEEEecCC
Q 031269 22 TIKPGDCVLMRPSE 35 (162)
Q Consensus 22 ~~~vGD~V~v~~~~ 35 (162)
.|++||+|.|.-++
T Consensus 150 ~~k~~Dtv~i~l~~ 163 (273)
T PTZ00223 150 RTSRGDTLVYNVKE 163 (273)
T ss_pred cccCCCEEEEECCC
Confidence 67899999998665
No 138
>TIGR00922 nusG transcription termination/antitermination factor NusG. Archaeal proteins once termed NusG share the KOW domain but are actually a ribosomal protein corresponding to L24p in bacterial and L26e in eukaryotes (TIGR00405).
Probab=24.03 E-value=2.2e+02 Score=20.52 Aligned_cols=45 Identities=16% Similarity=0.319 Sum_probs=33.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeeccccc
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEES 70 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e~ 70 (162)
.++.||-|.|..+. -.-+.|.|.++... ++. ..+.+.+|-|...+
T Consensus 119 ~~~~G~~V~I~~Gp--f~G~~g~v~~~~~~-~~r-~~V~v~~~g~~~~v 163 (172)
T TIGR00922 119 DFEVGEQVRVNDGP--FANFTGTVEEVDYE-KSK-LKVSVSIFGRETPV 163 (172)
T ss_pred CCCCCCEEEEeecC--CCCcEEEEEEEcCC-CCE-EEEEEEECCCceEE
Confidence 47899999999876 67789999998642 233 78888888765433
No 139
>KOG3342 consensus Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.01 E-value=35 Score=25.12 Aligned_cols=33 Identities=18% Similarity=0.350 Sum_probs=21.5
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCC
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGA 55 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~g~ 55 (162)
-+++||.|...-+++ +-|-|-|+++.++..+|+
T Consensus 77 p~~vGdivVf~vegR-~IPiVHRviK~he~~~~~ 109 (180)
T KOG3342|consen 77 PIRVGDIVVFKVEGR-EIPIVHRVIKQHEKSNGH 109 (180)
T ss_pred cceeccEEEEEECCc-cCchhHHHHHHhcccCCc
Confidence 456777777777664 667777777777754443
No 140
>PRK15457 ethanolamine utilization protein EutQ; Provisional
Probab=24.01 E-value=72 Score=24.98 Aligned_cols=22 Identities=14% Similarity=0.218 Sum_probs=18.6
Q ss_pred EEEcCCCcEEccCCEEEEecCC
Q 031269 14 YTVKSISKTIKPGDCVLMRPSE 35 (162)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~ 35 (162)
++++|.....+.||+++|.++.
T Consensus 188 l~IdG~t~~l~pGDvlfIPkGs 209 (233)
T PRK15457 188 VRHEGETMIAKAGDVMFIPKGS 209 (233)
T ss_pred EEECCEEEEeCCCcEEEECCCC
Confidence 5667777788999999999987
No 141
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=23.97 E-value=78 Score=21.11 Aligned_cols=14 Identities=36% Similarity=0.463 Sum_probs=12.1
Q ss_pred EEccCCEEEEecCC
Q 031269 22 TIKPGDCVLMRPSE 35 (162)
Q Consensus 22 ~~~vGD~V~v~~~~ 35 (162)
.+++||.|.+.+.+
T Consensus 76 ~Lk~GD~V~ll~~~ 89 (100)
T PF10844_consen 76 GLKVGDKVLLLRVQ 89 (100)
T ss_pred CCcCCCEEEEEEec
Confidence 56999999999965
No 142
>TIGR00523 eIF-1A eukaryotic/archaeal initiation factor 1A. Recommended nomenclature: eIF-1A for eukaryotes, aIF-1A for Archaea. Also called eIF-4C
Probab=23.63 E-value=1.5e+02 Score=19.86 Aligned_cols=29 Identities=24% Similarity=0.235 Sum_probs=16.7
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~ 50 (162)
..++.||+|.|.+-+. +..--|.|+..+.
T Consensus 56 iwI~~GD~VlVsp~d~-~~~~kg~Iv~r~~ 84 (99)
T TIGR00523 56 IWIREGDVVIVKPWEF-QGDDKCDIVWRYT 84 (99)
T ss_pred EEecCCCEEEEEEccC-CCCccEEEEEEcC
Confidence 4678899998855331 2122355555543
No 143
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=23.44 E-value=1.3e+02 Score=18.80 Aligned_cols=24 Identities=29% Similarity=0.220 Sum_probs=17.6
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEe
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIE 46 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~ 46 (162)
..+.+||-|.|....- ++.=|+|.
T Consensus 43 I~I~~GD~V~Ve~spy--d~tkgrIi 66 (68)
T TIGR00008 43 IRILPGDKVKVELSPY--DLTRGRIT 66 (68)
T ss_pred EEECCCCEEEEEECcc--cCCcEeEE
Confidence 3689999999998762 35557664
No 144
>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease. Members of this protein family are apparent proteases encoded adjacent to the genes for a nickel-type superoxide dismutase. This family belongs to the same larger family (see Pfam model pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad.
Probab=23.26 E-value=1.6e+02 Score=18.67 Aligned_cols=29 Identities=17% Similarity=0.324 Sum_probs=14.8
Q ss_pred EEccCCEEEEecCC-CCCCCeEEEEeEEEe
Q 031269 22 TIKPGDCVLMRPSE-PSKPSYVAKIERIES 50 (162)
Q Consensus 22 ~~~vGD~V~v~~~~-~~~~~~Ig~I~~i~~ 50 (162)
+++.||.|+|.+.. ....+..|.|.-+..
T Consensus 11 ~l~~GD~vlv~~~~~~~~~~~~Gdivv~~~ 40 (90)
T TIGR02754 11 TLPPGDRIIVVPWLKIFRVPPIGNVVVVRH 40 (90)
T ss_pred ccCCCCEEEEEEccccCCCCCCCeEEEEec
Confidence 46777777777521 112233455555543
No 145
>TIGR00074 hypC_hupF hydrogenase assembly chaperone HypC/HupF. An additional proposed function is to shuttle the iron atom that has been liganded at the HypC/HypD complex to the precursor of the large hydrogenase (HycE) subunit. PubMed:12441107.
Probab=23.25 E-value=53 Score=20.98 Aligned_cols=14 Identities=36% Similarity=0.465 Sum_probs=11.6
Q ss_pred EEccCCEEEEecCC
Q 031269 22 TIKPGDCVLMRPSE 35 (162)
Q Consensus 22 ~~~vGD~V~v~~~~ 35 (162)
..++||+|+|..+-
T Consensus 35 ~~~vGD~VLVH~G~ 48 (76)
T TIGR00074 35 EVKVGDYVLVHVGF 48 (76)
T ss_pred CCCCCCEEEEecCh
Confidence 46999999998863
No 146
>PRK10409 hydrogenase assembly chaperone; Provisional
Probab=23.22 E-value=55 Score=21.69 Aligned_cols=14 Identities=21% Similarity=0.218 Sum_probs=11.7
Q ss_pred EEccCCEEEEecCC
Q 031269 22 TIKPGDCVLMRPSE 35 (162)
Q Consensus 22 ~~~vGD~V~v~~~~ 35 (162)
..++||+|+|..+-
T Consensus 41 ~~~vGDyVLVHaGf 54 (90)
T PRK10409 41 QPRVGQWVLVHVGF 54 (90)
T ss_pred ccCCCCEEEEecCh
Confidence 47999999998863
No 147
>PRK00420 hypothetical protein; Validated
Probab=23.10 E-value=53 Score=22.69 Aligned_cols=23 Identities=26% Similarity=0.456 Sum_probs=16.4
Q ss_pred eee-ecCCCCCC-CcceeecCCCCC
Q 031269 140 VYC-KCEMPYNP-DDLMVQCEGCSD 162 (162)
Q Consensus 140 ~~C-~c~~~~np-d~~~~~C~~c~~ 162 (162)
..| +|..|.== -..-++|++|+.
T Consensus 24 ~~CP~Cg~pLf~lk~g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFELKDGEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceecCCCceECCCCCC
Confidence 445 78887642 567899999974
No 148
>KOG2133 consensus Transcriptional corepressor Atrophin-1/DRPLA [General function prediction only]
Probab=22.77 E-value=54 Score=31.01 Aligned_cols=112 Identities=21% Similarity=0.205 Sum_probs=77.4
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCC-CCeEEEEEEEeecccccC-Cc---cc--------------ccCCCC
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDAR-GANVKVHVRWYYRPEESI-GG---RR--------------QFHGSK 81 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~~-g~~~~v~v~Wfyrp~e~~-~~---~~--------------~~~~~~ 81 (162)
..|.++|.|.+....+ ..+.|+.|-.+-..++ .. ..+....+.|+++++ .+ .+ .-...+
T Consensus 144 ~~y~~~~~l~~~v~~~-~p~lia~~~~~~~~Kr~~~-~~~k~s~~~r~~d~Pet~y~~~m~pe~Ar~e~~P~~~pq~~sq 221 (1229)
T KOG2133|consen 144 TLYDLRDSLFVEVSQP-EPYLIAAICGFKYTKRDDR-QVVKLSFYFRADDIPETGYLNLMKPERARLEINPHLCPQPLSQ 221 (1229)
T ss_pred hhhhhhhhhhhhhccC-CccccccccCccccccccc-cccccccccccccCcccccccccCchhhhhccCCccCCCcchh
Confidence 3788999999888874 5566666655555443 23 667888999999988 22 00 013568
Q ss_pred eeEEecce-ecCccCcEEeeeEEEecccccccCC------CCCCeEEEeeeeccCcceec
Q 031269 82 EVFLSDHH-DIQSADTIEGKCTVHSFKSYTKLDA------VGNDDFFCRFEYNSSSGAFN 134 (162)
Q Consensus 82 Elf~s~~~-d~~~~~~I~gkc~V~~~~~~~~~~~------~~~~~f~cr~~yd~~~~~f~ 134 (162)
|||.+... -.-|..+..|||.+....++..... ..-++||--.++.+-.+...
T Consensus 222 ~l~~s~l~~i~qppscp~gk~~~~~skd~~h~~~~n~p~~ld~~i~fk~agglpps~k~a 281 (1229)
T KOG2133|consen 222 ELFNSELQGITQPPSCPRGKGIAEYSKDVRHGGNTNAPFSLDNDIFFKCAGGLPPSTKPA 281 (1229)
T ss_pred hhhcccccCCCCCCcCCCCCceEEeecccccCCccCCCCcccceeeeecccCCCCCCCCC
Confidence 99998877 5688999999999986666554431 24677777788887665444
No 149
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=22.48 E-value=1.1e+02 Score=19.60 Aligned_cols=14 Identities=50% Similarity=0.700 Sum_probs=12.0
Q ss_pred EEccCCEEEEecCC
Q 031269 22 TIKPGDCVLMRPSE 35 (162)
Q Consensus 22 ~~~vGD~V~v~~~~ 35 (162)
.+..||.|.|...+
T Consensus 46 ~I~~GD~V~Ve~~~ 59 (75)
T COG0361 46 RILPGDVVLVELSP 59 (75)
T ss_pred EeCCCCEEEEEecc
Confidence 67899999998876
No 150
>TIGR01665 put_anti_recept phage minor structural protein, N-terminal region. This model represents the conserved N-terminal region, typically from about residue 25 to about residue 350, of a family of uncharacterized phage proteins 500 to 1700 residues in length.
Probab=22.20 E-value=1.4e+02 Score=23.94 Aligned_cols=31 Identities=19% Similarity=0.306 Sum_probs=24.7
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031269 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~~ 52 (162)
+.+.+||.|.|...+- ....-+||.++-.+.
T Consensus 276 e~v~lGDtV~v~~~~~-~i~~~~RVi~~~~~~ 306 (317)
T TIGR01665 276 EPIGIGDTVRLKHTDF-NIKVYARVIKVEYSP 306 (317)
T ss_pred ccccCCCEEEEEcCCC-CceeEEEEEEEeccc
Confidence 4789999999999874 455569999887763
No 151
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=22.01 E-value=4.1e+02 Score=21.21 Aligned_cols=49 Identities=14% Similarity=0.142 Sum_probs=33.5
Q ss_pred cEEccCCEEEEecCCC--CCCCeEEEEeEEEecCCCCeEEEEEEEeecccc
Q 031269 21 KTIKPGDCVLMRPSEP--SKPSYVAKIERIESDARGANVKVHVRWYYRPEE 69 (162)
Q Consensus 21 ~~~~vGD~V~v~~~~~--~~~~~Ig~I~~i~~~~~g~~~~v~v~Wfyrp~e 69 (162)
..++.||-|.-..-+. +...-||+|.++..+.++-...+.+.=+.....
T Consensus 214 ~~v~~GD~VvTSGlgg~fP~Gl~VG~V~~v~~~~~~~~~~v~v~P~ad~~~ 264 (283)
T TIGR00219 214 KDIKKGDLIVTSGLGGRFPEGYPIGVVTSVHIDSYNSLLVIEVKPAAVLDR 264 (283)
T ss_pred CCCCCCCEEEECCCCCcCCCCCEEEEEEEEEeCCCCceEEEEEEECCCccc
Confidence 3789999887766542 345689999999987766545666655444433
No 152
>PLN00036 40S ribosomal protein S4; Provisional
Probab=21.94 E-value=3.2e+02 Score=21.83 Aligned_cols=14 Identities=21% Similarity=0.283 Sum_probs=11.8
Q ss_pred EEccCCEEEEecCC
Q 031269 22 TIKPGDCVLMRPSE 35 (162)
Q Consensus 22 ~~~vGD~V~v~~~~ 35 (162)
.|++||+|.|.-++
T Consensus 153 ~~k~~Dtv~i~l~~ 166 (261)
T PLN00036 153 LIKANDTIKIDLET 166 (261)
T ss_pred ccccCCEEEEeCCC
Confidence 68899999998655
No 153
>PRK10413 hydrogenase 2 accessory protein HypG; Provisional
Probab=21.94 E-value=61 Score=21.05 Aligned_cols=14 Identities=21% Similarity=0.078 Sum_probs=11.2
Q ss_pred EEccCCEEEEecCC
Q 031269 22 TIKPGDCVLMRPSE 35 (162)
Q Consensus 22 ~~~vGD~V~v~~~~ 35 (162)
..++||+|+|..+-
T Consensus 42 ~~~vGDyVLVHaGf 55 (82)
T PRK10413 42 ADLLGQWVLVHVGF 55 (82)
T ss_pred ccccCCEEEEecch
Confidence 35789999998863
No 154
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=21.93 E-value=1.7e+02 Score=24.77 Aligned_cols=36 Identities=31% Similarity=0.363 Sum_probs=24.9
Q ss_pred ceeeeEEEEcCCCcEEccCCEEEEecCCCCCCCeEEEEeEE
Q 031269 8 RRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERI 48 (162)
Q Consensus 8 ~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~Ig~I~~i 48 (162)
.+-|.+-...| .+++||-|.+.+++ ....|.+|.-+
T Consensus 238 fRGyaGtiasG---~v~~Gd~vvvlPsG--~~s~V~~Ivt~ 273 (431)
T COG2895 238 FRGYAGTIASG---SVKVGDEVVVLPSG--KTSRVKRIVTF 273 (431)
T ss_pred ccccceeeecc---ceecCCeEEEccCC--CeeeEEEEecc
Confidence 34444444454 89999999999988 45667776655
No 155
>KOG1698 consensus Mitochondrial/chloroplast ribosomal protein L19 [Translation, ribosomal structure and biogenesis]
Probab=21.85 E-value=2.8e+02 Score=21.17 Aligned_cols=33 Identities=21% Similarity=0.188 Sum_probs=23.3
Q ss_pred EEccCCEEEEecCCCCC--CCeEEEEeEEEecCCC
Q 031269 22 TIKPGDCVLMRPSEPSK--PSYVAKIERIESDARG 54 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~--~~~Ig~I~~i~~~~~g 54 (162)
.+++||.|.|.++++.. .-.++...-|.....|
T Consensus 96 e~~~G~Iv~V~s~~p~~k~k~s~f~Gi~I~R~~~G 130 (201)
T KOG1698|consen 96 EFKVGSIVRVTSEDPENKRKVSRFKGICIRRRNAG 130 (201)
T ss_pred ccccccEEEEEecCCccCCceeEEEEEEEEecccC
Confidence 78999999999988643 3356666666665444
No 156
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=21.44 E-value=51 Score=24.92 Aligned_cols=23 Identities=26% Similarity=0.684 Sum_probs=19.1
Q ss_pred ceeeecCCCCCCCcceeecCCCC
Q 031269 139 AVYCKCEMPYNPDDLMVQCEGCS 161 (162)
Q Consensus 139 ~~~C~c~~~~npd~~~~~C~~c~ 161 (162)
+..=.|.++.-++..+..|++|.
T Consensus 150 A~CsrC~~~L~~~~~~l~Cp~Cg 172 (188)
T COG1096 150 ARCSRCRAPLVKKGNMLKCPNCG 172 (188)
T ss_pred EEccCCCcceEEcCcEEECCCCC
Confidence 44556889988899999999996
No 157
>PF01050 MannoseP_isomer: Mannose-6-phosphate isomerase; InterPro: IPR001538 Mannose-6-phosphate isomerase or phosphomannose isomerase (5.3.1.8 from EC) (PMI) is the enzyme that catalyses the interconversion of mannose-6-phosphate and fructose-6-phosphate. In eukaryotes PMI is involved in the synthesis of GDP-mannose, a constituent of N- and O-linked glycans and GPI anchors and in prokaryotes it participates in a variety of pathways, including capsular polysaccharide biosynthesis and D-mannose metabolism. PMI's belong to the cupin superfamily whose functions range from isomerase and epimerase activities involved in the modification of cell wall carbohydrates in bacteria and plants, to non-enzymatic storage proteins in plant seeds, and transcription factors linked to congenital baldness in mammals []. Three classes of PMI have been defined []. The type II phosphomannose isomerases are bifunctional enzymes 5.3.1.8 from EC. This entry covers the isomerase region of the protein []. The guanosine diphospho-D-mannose pyrophosphorylase region is described in another InterPro entry (see IPR005836 from INTERPRO).; GO: 0016779 nucleotidyltransferase activity, 0005976 polysaccharide metabolic process
Probab=20.80 E-value=1.1e+02 Score=22.13 Aligned_cols=23 Identities=26% Similarity=0.328 Sum_probs=18.2
Q ss_pred EEEEcCCCcEEccCCEEEEecCC
Q 031269 13 SYTVKSISKTIKPGDCVLMRPSE 35 (162)
Q Consensus 13 ~~~~~g~~~~~~vGD~V~v~~~~ 35 (162)
.++++|....++.||.|+|..+.
T Consensus 96 ~v~~~~~~~~~~~g~sv~Ip~g~ 118 (151)
T PF01050_consen 96 EVTLDDEEFTLKEGDSVYIPRGA 118 (151)
T ss_pred EEEECCEEEEEcCCCEEEECCCC
Confidence 45667766788999999998886
No 158
>COG4481 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.56 E-value=50 Score=19.85 Aligned_cols=14 Identities=29% Similarity=0.356 Sum_probs=7.7
Q ss_pred EEccCCEEEEecCC
Q 031269 22 TIKPGDCVLMRPSE 35 (162)
Q Consensus 22 ~~~vGD~V~v~~~~ 35 (162)
.|.+||+|.+.-+.
T Consensus 4 ~~~l~~~VEMKK~H 17 (60)
T COG4481 4 MYDLGDIVEMKKPH 17 (60)
T ss_pred cccccchheecCCC
Confidence 45556666555544
No 159
>cd03694 GTPBP_II Domain II of the GP-1 family of GTPase. This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.
Probab=20.49 E-value=2.4e+02 Score=17.88 Aligned_cols=29 Identities=21% Similarity=0.409 Sum_probs=22.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~~ 51 (162)
.+++||.|++.|... .....++|.+|...
T Consensus 26 ~v~~g~~v~~~P~~~-g~~~~~~V~sI~~~ 54 (87)
T cd03694 26 VIRLGDTLLLGPDQD-GSFRPVTVKSIHRN 54 (87)
T ss_pred EEeCCCEEEECCCCC-CCEeEEEEEEEEEC
Confidence 789999999999751 23457899999765
No 160
>cd06541 ASCH ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation. The domain has been named after the ASC-1 protein, the activating signal cointegrator 1 or thyroid hormone receptor interactor protein 4 (TRIP4). ASC-1 is conserved in many eukaryotes and has been suggested to participate in a protein complex that interacts with RNA. It has been shown that ASC-1 mediates the interaction between various transciption factors and the basal transcriptional machinery.
Probab=20.29 E-value=1.7e+02 Score=19.42 Aligned_cols=27 Identities=22% Similarity=0.458 Sum_probs=21.6
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031269 22 TIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (162)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~Ig~I~~i~~ 50 (162)
.+++||.+.|...+ .+..+.+|.++..
T Consensus 30 ~~k~Gd~~i~~~~~--~~~~~i~v~~V~~ 56 (105)
T cd06541 30 LPKAGDYLIILDGQ--QPLAIAEVVKVEI 56 (105)
T ss_pred CCCCCCEEEEecCC--CcEEEEEEEEEEE
Confidence 68999999998876 5567888877765
Done!