Query 031243
Match_columns 163
No_of_seqs 131 out of 904
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 11:19:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031243.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031243hhsearch_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 1.8E-36 3.8E-41 212.6 11.3 121 20-157 1-121 (121)
2 cd04713 BAH_plant_3 BAH, or Br 100.0 2.7E-35 5.9E-40 212.6 14.1 129 2-134 2-134 (146)
3 cd04717 BAH_polybromo BAH, or 100.0 1E-33 2.2E-38 198.8 11.5 116 20-136 1-119 (121)
4 cd04716 BAH_plantDCM_I BAH, or 100.0 1.3E-32 2.8E-37 192.4 12.3 113 21-135 2-119 (122)
5 PF01426 BAH: BAH domain; Int 100.0 3.3E-31 7.1E-36 184.8 11.9 113 21-135 1-117 (119)
6 cd04370 BAH BAH, or Bromo Adja 100.0 4.7E-31 1E-35 184.4 11.3 114 21-135 2-121 (123)
7 smart00439 BAH Bromo adjacent 100.0 1E-30 2.2E-35 182.5 12.7 114 22-135 1-118 (120)
8 cd04709 BAH_MTA BAH, or Bromo 100.0 2.7E-30 5.9E-35 188.8 12.4 115 22-138 3-141 (164)
9 cd04721 BAH_plant_1 BAH, or Br 100.0 1.7E-30 3.6E-35 184.0 10.1 111 15-130 2-118 (130)
10 cd04715 BAH_Orc1p_like BAH, or 100.0 1.3E-29 2.7E-34 184.7 12.1 123 2-129 11-153 (159)
11 cd04710 BAH_fungalPHD BAH, or 100.0 5.4E-29 1.2E-33 177.1 11.8 113 20-134 9-134 (135)
12 cd04760 BAH_Dnmt1_I BAH, or Br 99.9 1.7E-27 3.6E-32 165.9 11.0 111 21-134 2-124 (124)
13 cd04708 BAH_plantDCM_II BAH, o 99.9 1.5E-27 3.3E-32 178.4 11.3 118 14-134 1-143 (202)
14 cd04712 BAH_DCM_I BAH, or Brom 99.9 4.4E-27 9.5E-32 166.5 12.9 110 21-135 4-127 (130)
15 cd04718 BAH_plant_2 BAH, or Br 99.9 5E-29 1.1E-33 177.3 1.4 96 38-135 51-146 (148)
16 cd04720 BAH_Orc1p_Yeast BAH, o 99.9 2E-26 4.3E-31 171.4 13.6 117 20-137 50-178 (179)
17 cd04719 BAH_Orc1p_animal BAH, 99.9 1.1E-24 2.3E-29 153.3 8.8 110 21-131 2-123 (128)
18 KOG1886 BAH domain proteins [T 99.9 1.1E-24 2.3E-29 178.9 9.0 160 2-163 31-195 (464)
19 cd04711 BAH_Dnmt1_II BAH, or B 99.9 2.6E-23 5.7E-28 145.6 8.6 108 27-134 14-133 (137)
20 KOG1827 Chromatin remodeling c 99.7 3.2E-18 7E-23 145.6 7.2 138 9-149 178-319 (629)
21 KOG3554 Histone deacetylase co 99.1 5.4E-12 1.2E-16 103.8 -1.8 115 22-138 5-165 (693)
22 KOG1632 Uncharacterized PHD Zn 94.9 0.012 2.5E-07 48.4 1.3 82 81-163 3-84 (345)
23 PF00628 PHD: PHD-finger; Int 94.2 0.026 5.7E-07 32.8 1.4 22 141-163 1-23 (51)
24 smart00249 PHD PHD zinc finger 94.0 0.038 8.2E-07 30.9 1.7 20 143-163 4-23 (47)
25 PTZ00112 origin recognition co 93.2 0.068 1.5E-06 49.1 2.7 119 9-129 441-603 (1164)
26 PF09926 DUF2158: Uncharacteri 92.2 0.33 7.1E-06 28.9 3.9 40 23-67 1-40 (53)
27 COG5076 Transcription factor i 91.7 0.022 4.7E-07 47.2 -2.1 95 13-110 269-363 (371)
28 PRK10708 hypothetical protein; 90.5 1.4 3E-05 26.4 5.3 45 24-71 2-53 (62)
29 PF10781 DSRB: Dextransucrase 90.3 1.5 3.2E-05 26.3 5.3 46 24-72 2-54 (62)
30 PF10383 Clr2: Transcription-s 90.1 1.8 4E-05 30.8 6.8 54 9-64 1-70 (139)
31 PF11302 DUF3104: Protein of u 88.1 2.3 4.9E-05 27.1 5.3 32 22-53 5-41 (75)
32 cd05834 HDGF_related The PWWP 87.8 1.3 2.8E-05 28.7 4.3 43 22-67 2-44 (83)
33 PF08940 DUF1918: Domain of un 87.4 1.1 2.5E-05 27.0 3.5 39 24-64 4-42 (58)
34 cd05835 Dnmt3b_related The PWW 86.7 1.1 2.4E-05 29.3 3.5 42 23-66 1-44 (87)
35 cd06080 MUM1_like Mutated mela 84.4 2.4 5.1E-05 27.4 4.2 39 23-67 1-39 (80)
36 KOG2752 Uncharacterized conser 82.7 0.81 1.8E-05 36.9 1.7 24 140-163 129-157 (345)
37 PF07154 DUF1392: Protein of u 80.1 6.3 0.00014 28.3 5.3 50 7-68 74-123 (150)
38 PF09871 DUF2098: Uncharacteri 79.5 5.6 0.00012 26.3 4.6 43 22-71 2-47 (91)
39 PF11717 Tudor-knot: RNA bindi 78.5 9 0.0002 22.5 5.0 37 23-63 1-37 (55)
40 cd05162 PWWP The PWWP domain, 78.4 4.4 9.6E-05 26.1 3.9 41 23-65 1-46 (87)
41 smart00293 PWWP domain with co 76.6 5.4 0.00012 24.2 3.8 42 23-66 1-48 (63)
42 COG5475 Uncharacterized small 75.8 13 0.00028 22.3 4.9 49 22-84 4-52 (60)
43 cd05840 SPBC215_ISWI_like The 74.7 4.6 9.9E-05 26.7 3.3 40 23-65 1-49 (93)
44 PF00467 KOW: KOW motif; Inte 74.0 10 0.00022 19.7 3.9 26 25-52 1-26 (32)
45 cd03703 aeIF5B_II aeIF5B_II: T 73.2 11 0.00025 25.8 5.0 44 5-53 11-54 (110)
46 PF00855 PWWP: PWWP domain; I 71.1 5.1 0.00011 25.4 2.8 43 23-67 1-45 (86)
47 COG4014 Uncharacterized protei 70.3 15 0.00032 24.2 4.7 40 24-69 10-52 (97)
48 smart00739 KOW KOW (Kyprides, 70.3 11 0.00024 18.3 3.4 25 23-49 2-26 (28)
49 PF15057 DUF4537: Domain of un 70.2 10 0.00022 26.5 4.3 44 22-65 55-98 (124)
50 KOG4323 Polycomb-like PHD Zn-f 67.1 3.3 7.2E-05 35.4 1.5 22 141-163 173-194 (464)
51 COG3257 GlxB Uncharacterized p 65.1 20 0.00042 27.9 5.2 48 15-74 97-144 (264)
52 KOG1973 Chromatin remodeling p 64.2 5 0.00011 31.9 2.0 24 138-163 218-244 (274)
53 PF11926 DUF3444: Domain of un 64.1 18 0.0004 27.8 5.0 46 20-68 25-70 (217)
54 PRK13251 transcription attenua 63.6 18 0.00038 22.7 3.9 49 59-107 19-67 (75)
55 PF02081 TrpBP: Tryptophan RNA 61.3 14 0.00031 23.2 3.2 49 59-107 19-67 (75)
56 PF05180 zf-DNL: DNL zinc fing 59.3 3.7 8E-05 25.5 0.4 16 148-163 23-38 (66)
57 PRK12281 rplX 50S ribosomal pr 56.4 29 0.00062 22.1 4.1 29 22-52 6-34 (76)
58 CHL00141 rpl24 ribosomal prote 56.3 28 0.0006 22.6 4.1 29 22-52 8-36 (83)
59 PF09378 HAS-barrel: HAS barre 55.8 18 0.0004 23.0 3.3 36 13-51 14-49 (91)
60 PF03144 GTP_EFTU_D2: Elongati 51.6 32 0.0007 20.8 3.8 31 22-52 12-42 (74)
61 cd05836 N_Pac_NP60 The PWWP do 51.6 27 0.00059 22.6 3.6 43 23-67 1-46 (86)
62 PF04322 DUF473: Protein of un 51.0 43 0.00094 23.3 4.6 42 9-50 20-71 (119)
63 PRK00004 rplX 50S ribosomal pr 51.0 35 0.00075 23.1 4.1 29 22-52 4-32 (105)
64 cd05837 MSH6_like The PWWP dom 49.8 26 0.00057 23.7 3.4 45 22-69 2-55 (110)
65 PF14446 Prok-RING_1: Prokaryo 49.4 15 0.00033 21.9 1.8 20 143-162 10-29 (54)
66 smart00743 Agenet Tudor-like d 47.7 32 0.00069 20.2 3.2 28 22-50 2-29 (61)
67 TIGR01079 rplX_bact ribosomal 47.3 43 0.00093 22.6 4.1 29 22-52 3-31 (104)
68 COG1370 Prefoldin, molecular c 46.6 18 0.0004 26.2 2.3 40 5-46 94-133 (155)
69 KOG1568 Mitochondrial inner me 46.2 1E+02 0.0022 22.8 6.1 85 9-103 57-146 (174)
70 PF07494 Reg_prop: Two compone 46.0 32 0.0007 16.4 2.5 15 44-59 6-20 (24)
71 COG2956 Predicted N-acetylgluc 44.8 11 0.00023 31.1 1.0 17 147-163 361-377 (389)
72 COG1188 Ribosome-associated he 44.2 63 0.0014 21.8 4.4 44 6-53 33-76 (100)
73 cd03702 IF2_mtIF2_II This fami 44.1 62 0.0013 21.4 4.4 39 5-52 11-49 (95)
74 PF12503 CMV_1a_C: Cucumber mo 43.5 20 0.00042 23.2 1.8 28 58-89 35-71 (85)
75 cd03701 IF2_IF5B_II IF2_IF5B_I 43.2 75 0.0016 20.9 4.7 39 5-52 11-49 (95)
76 KOG2133 Transcriptional corepr 42.4 20 0.00043 33.6 2.3 112 21-134 144-281 (1229)
77 smart00652 eIF1a eukaryotic tr 41.9 56 0.0012 21.1 3.8 28 21-50 42-69 (83)
78 PF11132 SplA: Transcriptional 41.9 22 0.00048 22.5 1.9 25 22-47 5-29 (75)
79 cd05793 S1_IF1A S1_IF1A: Trans 40.9 54 0.0012 20.8 3.6 28 21-50 37-64 (77)
80 COG1935 Uncharacterized conser 40.2 63 0.0014 22.4 4.0 42 8-49 19-70 (122)
81 KOG1844 PHD Zn-finger proteins 39.0 20 0.00044 30.7 1.8 27 137-163 84-110 (508)
82 PRK01191 rpl24p 50S ribosomal 38.7 72 0.0016 22.2 4.2 30 21-52 44-73 (120)
83 PF05207 zf-CSL: CSL zinc fing 38.5 11 0.00024 22.4 0.1 25 139-163 18-49 (55)
84 PF04085 MreC: rod shape-deter 38.1 1.4E+02 0.003 21.3 5.8 47 21-67 92-140 (152)
85 PF02559 CarD_CdnL_TRCF: CarD- 38.0 44 0.00096 21.8 3.0 24 23-52 2-25 (98)
86 cd04456 S1_IF1A_like S1_IF1A_l 37.0 76 0.0017 20.2 3.9 29 21-50 37-65 (78)
87 PF01176 eIF-1a: Translation i 36.8 43 0.00093 20.3 2.6 25 21-47 40-64 (65)
88 PRK12496 hypothetical protein; 34.8 23 0.0005 25.9 1.3 26 136-161 124-150 (164)
89 PF12961 DUF3850: Domain of Un 34.4 37 0.00081 21.4 2.0 37 13-49 19-58 (72)
90 PF06940 DUF1287: Domain of un 34.0 75 0.0016 23.4 3.8 43 13-59 97-139 (164)
91 PRK13922 rod shape-determining 33.2 2.2E+02 0.0047 22.3 6.8 47 21-67 213-261 (276)
92 PF00667 FAD_binding_1: FAD bi 32.1 81 0.0018 23.8 4.0 23 14-36 33-55 (219)
93 PRK02935 hypothetical protein; 32.1 26 0.00057 23.8 1.1 10 153-162 69-78 (110)
94 COG0662 {ManC} Mannose-6-phosp 32.0 46 0.001 22.9 2.4 23 14-36 70-92 (127)
95 PF08921 DUF1904: Domain of un 31.9 19 0.00042 24.5 0.5 16 57-72 56-71 (108)
96 cd04466 S1_YloQ_GTPase S1_YloQ 31.7 64 0.0014 19.1 2.8 25 22-50 37-61 (68)
97 PF09345 DUF1987: Domain of un 31.6 36 0.00078 22.8 1.8 15 57-71 77-91 (99)
98 cd03698 eRF3_II_like eRF3_II_l 30.9 1.4E+02 0.003 18.7 4.4 25 22-51 26-50 (83)
99 PRK00420 hypothetical protein; 30.1 31 0.00066 23.8 1.2 23 140-162 24-48 (112)
100 COG4101 Predicted mannose-6-ph 29.9 1.4E+02 0.003 21.0 4.4 40 22-63 91-136 (142)
101 cd06530 S26_SPase_I The S26 Ty 29.4 1.3E+02 0.0029 18.6 4.2 11 23-33 14-24 (85)
102 PRK04012 translation initiatio 29.2 1E+02 0.0023 20.6 3.7 28 21-50 58-85 (100)
103 PF10844 DUF2577: Protein of u 28.7 53 0.0012 21.8 2.2 15 22-36 76-90 (100)
104 PRK03187 tgl transglutaminase; 28.4 42 0.00091 26.7 1.9 19 15-35 160-178 (272)
105 COG0250 NusG Transcription ant 27.9 1.7E+02 0.0037 21.7 5.0 46 21-70 122-167 (178)
106 smart00734 ZnF_Rad18 Rad18-lik 27.8 28 0.00061 17.2 0.6 9 154-162 1-9 (26)
107 PF01079 Hint: Hint module; I 27.7 93 0.002 23.9 3.7 28 22-50 105-132 (217)
108 PF07883 Cupin_2: Cupin domain 27.6 59 0.0013 19.1 2.2 20 16-35 34-53 (71)
109 COG1329 Transcriptional regula 27.5 81 0.0018 23.3 3.1 35 22-62 4-39 (166)
110 PRK08559 nusG transcription an 27.5 2E+02 0.0042 20.6 5.2 43 22-70 94-136 (153)
111 cd06541 ASCH ASC-1 homology or 27.2 1.8E+02 0.0039 19.2 4.7 27 22-50 30-56 (105)
112 PF01155 HypA: Hydrogenase exp 27.1 9.5 0.00021 26.1 -1.7 26 137-162 68-94 (113)
113 TIGR00219 mreC rod shape-deter 27.0 3E+02 0.0066 21.9 6.6 48 21-68 214-263 (283)
114 KOG0957 PHD finger protein [Ge 26.7 57 0.0012 28.5 2.5 27 135-161 116-143 (707)
115 PTZ00194 60S ribosomal protein 26.6 1.3E+02 0.0029 21.6 4.0 28 22-51 46-73 (143)
116 TIGR01956 NusG_myco NusG famil 26.5 1.8E+02 0.0039 23.1 5.1 44 22-69 205-248 (258)
117 COG1917 Uncharacterized conser 25.9 81 0.0018 21.5 2.9 21 15-35 78-98 (131)
118 COG4127 Uncharacterized conser 25.8 49 0.0011 26.6 1.8 42 22-64 72-117 (318)
119 COG3450 Predicted enzyme of th 25.5 60 0.0013 22.5 2.0 18 18-35 81-98 (116)
120 PRK00276 infA translation init 25.5 1.6E+02 0.0035 18.2 3.9 11 23-33 47-57 (72)
121 PHA03283 envelope glycoprotein 25.2 2.1E+02 0.0046 25.1 5.6 39 21-72 202-240 (542)
122 PF13913 zf-C2HC_2: zinc-finge 24.7 38 0.00083 16.5 0.7 9 154-162 2-10 (25)
123 PF11023 DUF2614: Protein of u 24.7 42 0.0009 23.1 1.1 10 153-162 68-77 (114)
124 cd06555 ASCH_PF0470_like ASC-1 24.5 2.4E+02 0.0051 19.2 5.0 28 22-50 31-58 (109)
125 PRK04980 hypothetical protein; 24.3 1.5E+02 0.0032 20.0 3.7 24 21-46 30-53 (102)
126 PF02591 DUF164: Putative zinc 24.1 50 0.0011 19.3 1.3 11 152-162 44-54 (56)
127 TIGR02227 sigpep_I_bact signal 24.1 2.2E+02 0.0047 20.5 4.9 28 22-49 51-78 (163)
128 cd03694 GTPBP_II Domain II of 24.0 2E+02 0.0043 18.2 5.0 29 22-51 26-54 (87)
129 COG0198 RplX Ribosomal protein 23.8 1.4E+02 0.003 20.3 3.5 28 22-51 4-31 (104)
130 cd05838 WHSC1_related The PWWP 23.7 1.3E+02 0.0029 19.7 3.4 38 24-64 2-46 (95)
131 COG4946 Uncharacterized protei 23.7 2.9E+02 0.0064 24.3 6.1 52 4-55 357-414 (668)
132 COG3269 Predicted RNA-binding 23.4 2E+02 0.0044 18.2 4.5 30 2-35 27-58 (73)
133 CHL00010 infA translation init 23.4 2E+02 0.0044 18.1 4.1 11 23-33 47-57 (78)
134 cd05792 S1_eIF1AD_like S1_eIF1 23.3 1.9E+02 0.0041 18.5 3.9 14 22-35 38-51 (78)
135 TIGR01080 rplX_A_E ribosomal p 23.2 2E+02 0.0043 19.8 4.2 28 22-51 41-68 (114)
136 TIGR00405 L26e_arch ribosomal 23.0 2.7E+02 0.0059 19.4 5.4 44 22-71 86-129 (145)
137 PRK12495 hypothetical protein; 21.4 66 0.0014 24.9 1.7 25 138-162 41-66 (226)
138 TIGR00100 hypA hydrogenase nic 21.3 46 0.00099 22.8 0.8 25 138-162 69-94 (115)
139 PF06677 Auto_anti-p27: Sjogre 20.6 44 0.00094 18.6 0.5 22 140-161 18-41 (41)
140 TIGR01665 put_anti_recept phag 20.4 1.6E+02 0.0034 23.5 3.9 31 21-52 276-306 (317)
141 COG1482 ManA Phosphomannose is 20.4 1.3E+02 0.0029 24.5 3.4 46 22-71 161-206 (312)
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=1.8e-36 Score=212.59 Aligned_cols=121 Identities=44% Similarity=0.813 Sum_probs=110.0
Q ss_pred CcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCceeEEeccccccccccEee
Q 031243 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEG 99 (163)
Q Consensus 20 ~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~g 99 (163)
|++|++||+|+|.+++++.++|||+|++||++.+|+ ++++|+|||||+||.++++..++++|||+|++.|.+|+++|.|
T Consensus 1 ~~~~~vGD~V~v~~~~~~~~pyIgrI~~i~e~~~g~-~~~~v~WfyrPeEt~~~~~~~~~~~EvF~S~~~d~~~~~~I~g 79 (121)
T cd04714 1 KEIIRVGDCVLFKSPGRPSLPYVARIESLWEDPEGN-MVVRVKWYYRPEETKGGRKPNHGEKELFASDHQDENSVQTIEH 79 (121)
T ss_pred CCEEEcCCEEEEeCCCCCCCCEEEEEEEEEEcCCCC-EEEEEEEEEcHHHccCcccccCCCCceEecCCcccccHHHhCc
Confidence 359999999999998755789999999999998888 9999999999999999988778999999999999999999999
Q ss_pred ecEEEecccccccCCCCCCeEEEeeeeecCCCcccCCCCceEEeeCCCCCCCcceeeC
Q 031243 100 KCTVHSFKSYTKLDAVGNDDFFCRFEYNSSSGAFNPDRVAVYCKCEMPYNPDDLMVQC 157 (163)
Q Consensus 100 kc~V~~~~~~~~~~~~~~~~ffcr~~yd~~~~~f~p~~~~~~C~C~~~~npd~~~~~C 157 (163)
||.|+++.+|.++.+..+ .+..+..+|+|..++||++.||||
T Consensus 80 kc~V~~~~ey~~~~~~~~----------------~~~~~~d~~~Ce~~yn~~~~~~~c 121 (121)
T cd04714 80 KCYVLTFAEYERLARVKK----------------KPQDGVDFYYCAGTYNPDTGMLKC 121 (121)
T ss_pred ccEEEehhHheecccccC----------------CCCcCCCEEEEeccCCCCcCcccC
Confidence 999999999988765322 555788999999999999999999
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=2.7e-35 Score=212.57 Aligned_cols=129 Identities=26% Similarity=0.452 Sum_probs=116.2
Q ss_pred CCCCCCceeeeeEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCccc---ccC
Q 031243 2 AKPKAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRR---QFH 78 (163)
Q Consensus 2 ~~~~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~---~~~ 78 (163)
||++++|+||++|.++|. +|++||+|+|.+++. .++|||+|++|+++.+|. ++++|+|||||+|+..... ...
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 899999999999999997 999999999999874 789999999999998887 9999999999999986432 234
Q ss_pred CCceeEEeccccccccccEeeecEEEecccccccCC-CCCCeEEEeeeeecCCCccc
Q 031243 79 GSKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDA-VGNDDFFCRFEYNSSSGAFN 134 (163)
Q Consensus 79 ~~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~-~~~~~ffcr~~yd~~~~~f~ 134 (163)
++||||+|++.+.+|+++|.|||.|+..+++.+++. ...++||||+.||+.+++|.
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 689999999999999999999999999988887764 36789999999999998876
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=1e-33 Score=198.81 Aligned_cols=116 Identities=29% Similarity=0.483 Sum_probs=106.7
Q ss_pred CcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCceeEEeccccccccccEee
Q 031243 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEG 99 (163)
Q Consensus 20 ~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~g 99 (163)
|..|++||+|+|.+++.+.+++||+|.+||++.+|. .+++|+|||||+||.+++...+.+||||+|++.+.+|+++|.|
T Consensus 1 g~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~-~~~~~~Wf~rP~et~~~~~~~~~~~Evfls~~~d~~~~~~I~~ 79 (121)
T cd04717 1 GLQYRVGDCVYVANPEDPSKPIIFRIERLWKDEDGE-KFFFGCWFYRPEETFHEPTRKFYKNEVFKSPLYETVPVEEIVG 79 (121)
T ss_pred CCEEECCCEEEEeCCCCCCCCEEEEEeEEEECCCCC-EEEEEEEEeChHHccCCCccccccCceEEcCccccccHHHhcC
Confidence 358999999999998865789999999999998888 9999999999999998877778899999999999999999999
Q ss_pred ecEEEecccccccCCC---CCCeEEEeeeeecCCCcccCC
Q 031243 100 KCTVHSFKSYTKLDAV---GNDDFFCRFEYNSSSGAFNPD 136 (163)
Q Consensus 100 kc~V~~~~~~~~~~~~---~~~~ffcr~~yd~~~~~f~p~ 136 (163)
||.|++.++|.+.++. ..++|+|++.||+..+.|.+.
T Consensus 80 kc~Vl~~~~y~~~~p~~~~~~dvy~ce~~y~~~~~~~~~~ 119 (121)
T cd04717 80 KCAVMDVKDYIKGRPTEISEEDVYVCESRYNESAKSFKKI 119 (121)
T ss_pred eeEEEehHHHhcCCCCCCCCCCEEEEeEEECcccccEecc
Confidence 9999999999988763 479999999999999999864
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=100.00 E-value=1.3e-32 Score=192.41 Aligned_cols=113 Identities=20% Similarity=0.365 Sum_probs=103.5
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcc-cccCCCceeEEeccccccccccEee
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGR-RQFHGSKEVFLSDHHDIQSADTIEG 99 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~-~~~~~~~Elf~s~~~d~~~~~~I~g 99 (163)
..|++||+|+|.+++. .++|||+|++||++.+|. .+++|+|||||+||..++ ...++++|||+|++.|++|+++|+|
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 899999999999999998 899999999999999886 4578899999999999999999999
Q ss_pred ecEEEeccccccc----CCCCCCeEEEeeeeecCCCcccC
Q 031243 100 KCTVHSFKSYTKL----DAVGNDDFFCRFEYNSSSGAFNP 135 (163)
Q Consensus 100 kc~V~~~~~~~~~----~~~~~~~ffcr~~yd~~~~~f~p 135 (163)
||.|++..++..+ ...+.+.|||++.|+....+|..
T Consensus 80 Kc~V~~~~~~~~~~~~~~~~~~~df~c~~~Y~~~~~tF~~ 119 (122)
T cd04716 80 KVKILQVPPNVGTKRKKPNSEKCDYYYDMEYCVPYSTFQT 119 (122)
T ss_pred eeEEEEeCCCCCcccccccCCCceEEEeeEeccchhheEe
Confidence 9999999888766 34678999999999999999974
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=3.3e-31 Score=184.77 Aligned_cols=113 Identities=40% Similarity=0.790 Sum_probs=101.0
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCC-eEEEEEEEeecccccCCcccccCCCceeEEeccccccccccEee
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGA-NVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEG 99 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~-~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~g 99 (163)
++|++||+|||.+++++.+++||+|++|+++.++. +++++|+|||||+||..+. ...+||||+|++++.+|+++|.|
T Consensus 1 ~~~~vGD~V~v~~~~~~~~~~v~~I~~i~~~~~~~~~~~~~v~Wf~rp~d~~~~~--~~~~~Elf~s~~~~~~~~~~I~g 78 (119)
T PF01426_consen 1 VTYKVGDFVYVKPDDPPEPPYVARIEEIWEDKDGNKEKMVKVRWFYRPEDTSLGK--TFSPRELFLSDHCDDIPVESIRG 78 (119)
T ss_dssp EEEETTSEEEEECTSTTSEEEEEEEEEEEEETTTSEEEEEEEEEEEEGGGSTTGG--HSCTTEEEEEEEEEEEEGGGEEE
T ss_pred CEEeCCCEEEEeCCCCCCCCEEEEEEEEEcCCCCCEEEEEEEEEeECcccccccc--cCCCCEEEEECcEeEEehhhEEe
Confidence 48999999999999977899999999999998765 6999999999999993333 35579999999999999999999
Q ss_pred ecEEEecccccccCCC---CCCeEEEeeeeecCCCcccC
Q 031243 100 KCTVHSFKSYTKLDAV---GNDDFFCRFEYNSSSGAFNP 135 (163)
Q Consensus 100 kc~V~~~~~~~~~~~~---~~~~ffcr~~yd~~~~~f~p 135 (163)
||.|++.+++.+..+. .+++||||+.||+++++|.+
T Consensus 79 kc~V~~~~~~~~~~~~~~~~~~~F~cr~~yd~~~~~f~~ 117 (119)
T PF01426_consen 79 KCNVLHLEDYEQARPYGKEEPDTFFCRYAYDPQKKRFKK 117 (119)
T ss_dssp EEEEEEHHHHTTGCCHCHHTTTEEEEEEEEETTTTEEEE
T ss_pred eeEEEECCccccccccccCCCCEEEEEEEEeCCcCEEeC
Confidence 9999999999887652 68999999999999999985
No 6
>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=4.7e-31 Score=184.35 Aligned_cols=114 Identities=39% Similarity=0.778 Sum_probs=104.1
Q ss_pred cEEccCCEEEEecCCC--CCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCceeEEeccccccccccEe
Q 031243 21 KTIKPGDCVLMRPSEP--SKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIE 98 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~--~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~ 98 (163)
.+|++||+|+|.+++. .+++|||+|++|+++.+|. ++++|+|||||+||+.+....+.+||||+|++++.+++++|.
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 4999999999999884 4789999999999998887 999999999999999988777899999999999999999999
Q ss_pred eecEEEecccccccC----CCCCCeEEEeeeeecCCCcccC
Q 031243 99 GKCTVHSFKSYTKLD----AVGNDDFFCRFEYNSSSGAFNP 135 (163)
Q Consensus 99 gkc~V~~~~~~~~~~----~~~~~~ffcr~~yd~~~~~f~p 135 (163)
|+|.|++..++.+.. ....++||||+.||+.+++|.+
T Consensus 81 gkc~V~~~~~~~~~~~~~~~~~~~~f~~r~~yd~~~~~fk~ 121 (123)
T cd04370 81 GKCKVLFVSEFEGLKQRPNKIDTDDFFCRLAYDPTTKEFKA 121 (123)
T ss_pred cccEEEechHhhccccccccCCCCeEEEEEEECcCcceEEe
Confidence 999999999998764 2457899999999999988875
No 7
>smart00439 BAH Bromo adjacent homology domain.
Probab=99.97 E-value=1e-30 Score=182.46 Aligned_cols=114 Identities=39% Similarity=0.697 Sum_probs=103.0
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCceeEEeccccccccccEeeec
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGKC 101 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gkc 101 (163)
.|++||+|+|.+++.+.+++||+|.+||++.+|..++++|+|||||+||+++....+.+||||+|++++++++++|.|||
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 37899999999998657899999999999987653799999999999999988766789999999999999999999999
Q ss_pred EEEecccccccCCC----CCCeEEEeeeeecCCCcccC
Q 031243 102 TVHSFKSYTKLDAV----GNDDFFCRFEYNSSSGAFNP 135 (163)
Q Consensus 102 ~V~~~~~~~~~~~~----~~~~ffcr~~yd~~~~~f~p 135 (163)
.|++.+++.+..+. ..++||||+.||..+++|.+
T Consensus 81 ~V~~~~~~~~~~~~~~~~~~~~f~cr~~yd~~~~~f~~ 118 (120)
T smart00439 81 NVLSKSDYPGLRPEGKIGEPDVFFCESLYDPEKGAFKK 118 (120)
T ss_pred EEEEcchhcccccccCCCCCCeEEEEEEEccccCcccC
Confidence 99999999887652 47899999999999999975
No 8
>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=2.7e-30 Score=188.79 Aligned_cols=115 Identities=27% Similarity=0.466 Sum_probs=102.0
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcc----------------------cccCC
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGR----------------------RQFHG 79 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~----------------------~~~~~ 79 (163)
.|++||+|||.++. +.+++||+|++|+++.+|. ++++|+|||||+|++... +..++
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 4678899999999999988 999999999999986521 12357
Q ss_pred CceeEEeccccccccccEeeecEEEecccccccCC--CCCCeEEEeeeeecCCCcccCCCC
Q 031243 80 SKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDA--VGNDDFFCRFEYNSSSGAFNPDRV 138 (163)
Q Consensus 80 ~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~--~~~~~ffcr~~yd~~~~~f~p~~~ 138 (163)
.+|||+|+|.+.+|+++|+|||.|+++.++.++.. ..+++|||+..||+++++|.+.+.
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 468999999999999999998643
No 9
>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=1.7e-30 Score=183.99 Aligned_cols=111 Identities=28% Similarity=0.455 Sum_probs=98.8
Q ss_pred EEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCccccc-CCCceeEEeccccccc
Q 031243 15 TVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQF-HGSKEVFLSDHHDIQS 93 (163)
Q Consensus 15 ~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~-~~~~Elf~s~~~d~~~ 93 (163)
+.+|. ++++||+|||.+++ .++|||+|++||++.+|. ++++|+||+||+|+.+++++. +.+||||+|++.+.+|
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 34554 99999999999887 578999999999998887 999999999999999876554 8899999999999999
Q ss_pred cccEeeecEEEecccccccCCC-----CCCeEEEeeeeecCC
Q 031243 94 ADTIEGKCTVHSFKSYTKLDAV-----GNDDFFCRFEYNSSS 130 (163)
Q Consensus 94 ~~~I~gkc~V~~~~~~~~~~~~-----~~~~ffcr~~yd~~~ 130 (163)
+++|.|||.|++.++|.++... ..++|+||+.||...
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 256999999999874
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=1.3e-29 Score=184.67 Aligned_cols=123 Identities=24% Similarity=0.288 Sum_probs=100.9
Q ss_pred CCCCCCceeeeeEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCC--CCeEEEEEEEeecccccCCccc--cc
Q 031243 2 AKPKAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDAR--GANVKVHVRWYYRPEESIGGRR--QF 77 (163)
Q Consensus 2 ~~~~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~--g~~~~v~v~Wfyrp~e~~~~~~--~~ 77 (163)
|.++++++||+++.++|. .|++||+|+|.+++ .++|||+|.+||++.+ |. ++++|+|||||+||..... ..
T Consensus 11 ~~~~~~~~~Y~s~~~~g~--~y~lGD~Vlv~s~~--~~~yIgkI~~iwe~~~~~g~-~~~~v~WfyRp~E~~~~~~~~~~ 85 (159)
T cd04715 11 GGKKKDGQFYRSFTYDGV--EYRLYDDVYVHNGD--SEPYIGKIIKIYETAIDSGK-KKVKVIWFFRPSEIRMELKGEPK 85 (159)
T ss_pred ccccCCceEEEEEEECCE--EEeCCCEEEEeCCC--CCCEEEEEEEEEEcCCcCCc-eEEEEEeeeCHHHhccccccCcc
Confidence 456677889999999987 99999999999866 7999999999999865 76 9999999999999986432 35
Q ss_pred CCCceeEEeccc-----cccccccEeeecEEEecccccccCCC-----C------CCeEEEeeeeecC
Q 031243 78 HGSKEVFLSDHH-----DIQSADTIEGKCTVHSFKSYTKLDAV-----G------NDDFFCRFEYNSS 129 (163)
Q Consensus 78 ~~~~Elf~s~~~-----d~~~~~~I~gkc~V~~~~~~~~~~~~-----~------~~~ffcr~~yd~~ 129 (163)
+.+||||+|+|. +++|+++|.|||.|++.++|....+. . ...|.||++-+..
T Consensus 86 ~~~nEvFlS~~~d~~~~~~n~l~sI~gKC~Vl~~~ey~~~~~~s~~~~~~~~~~f~~~f~~~~~~~~~ 153 (159)
T cd04715 86 RHINEVFLACGRGEGLANINLLESIIGKCNVVCISEDFRNPQPSDGIPTSADFLFPCNFDVGRCVIVD 153 (159)
T ss_pred cCCCcEEEecCcCccccccCcHHHccceeEEEEehHhhhCCCCcCCccccCcceeeeEEEecCceecc
Confidence 789999999986 66899999999999999999865432 1 2355556555544
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=5.4e-29 Score=177.09 Aligned_cols=113 Identities=22% Similarity=0.438 Sum_probs=98.3
Q ss_pred CcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCC-----------CeEEEEEEEeecccccCCcccccCCCceeEEecc
Q 031243 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARG-----------ANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDH 88 (163)
Q Consensus 20 ~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g-----------~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~ 88 (163)
|..|++||+|||.++++..+++||+|++|+...++ ...+++|+|||||+|+.... .++.+|||+|+|
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 45999999999999987788999999999986422 12689999999999986544 468999999999
Q ss_pred ccccccccEeeecEEEecccccccCC--CCCCeEEEeeeeecCCCccc
Q 031243 89 HDIQSADTIEGKCTVHSFKSYTKLDA--VGNDDFFCRFEYNSSSGAFN 134 (163)
Q Consensus 89 ~d~~~~~~I~gkc~V~~~~~~~~~~~--~~~~~ffcr~~yd~~~~~f~ 134 (163)
.|.+|+++|+|||.|.+.+++.++.. ..+++|||.+.||+.+++|.
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 99999999999999999998877653 46899999999999998874
No 12
>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=99.95 E-value=1.7e-27 Score=165.91 Aligned_cols=111 Identities=25% Similarity=0.515 Sum_probs=97.7
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCceeEEeccccccccccEeee
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGK 100 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gk 100 (163)
.+|.+||+|+|.++++..+++||+|+.||++.+|. ++++|+|||||+||..+++ +.++|||+|++++.+++++|.+|
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 48999999999998777899999999999999888 9999999999999999987 78999999999999999999999
Q ss_pred cEEEecccc---cccC----C-----CCCCeEEEeeeeecCCCccc
Q 031243 101 CTVHSFKSY---TKLD----A-----VGNDDFFCRFEYNSSSGAFN 134 (163)
Q Consensus 101 c~V~~~~~~---~~~~----~-----~~~~~ffcr~~yd~~~~~f~ 134 (163)
|.|+..+.- .... + .+.++|||+..||+...+|.
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 999997543 1111 1 23679999999999988874
No 13
>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=99.95 E-value=1.5e-27 Score=178.39 Aligned_cols=118 Identities=25% Similarity=0.483 Sum_probs=101.5
Q ss_pred EEEccCCcEEccCCEEEEecC------------------CCCCCCeEEEEeEEEecCCC-----CeEEEEEEEeeccccc
Q 031243 14 YTVKSISKTIKPGDCVLMRPS------------------EPSKPSYVAKIERIESDARG-----ANVKVHVRWYYRPEES 70 (163)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~------------------~~~~~~~i~~I~~i~~~~~g-----~~~~v~v~Wfyrp~e~ 70 (163)
|+++|. +|++||+|||.++ + ..++.||||.+|+...++ ....++|+|||||+||
T Consensus 1 f~~~Gv--~Y~vgD~VYv~p~~f~~~~~~~~~~~~G~N~~-~~p~~I~qI~ei~~~k~~~~~~~~~~~vrVrwFYRPEdt 77 (202)
T cd04708 1 FVYDGV--TYSVGDFLYVSPDAFAEEERERATFKAGRNVG-LKAFVVCQVLEIVVEKESKQADVASTQVKVRRFYRPEDV 77 (202)
T ss_pred CcCCCE--EEecCCeEEECcccccccccccccccccccCC-CCCcEEEEEEEEEecccCCCCCCcceEEEEEEEechhhc
Confidence 456676 9999999999999 2 247889999999986544 1389999999999998
Q ss_pred CCcccccCCCceeEEeccccccccccEeeecEEEecccccccCC--CCCCeEEEeeeeecCCCccc
Q 031243 71 IGGRRQFHGSKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDA--VGNDDFFCRFEYNSSSGAFN 134 (163)
Q Consensus 71 ~~~~~~~~~~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~--~~~~~ffcr~~yd~~~~~f~ 134 (163)
........+.+|||+|++.+++|+++|.|||.|+...++.++.. ...+.|||+..||+.++.|+
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 66444445899999999999999999999999999999877654 56899999999999999999
No 14
>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=4.4e-27 Score=166.53 Aligned_cols=110 Identities=24% Similarity=0.334 Sum_probs=95.5
Q ss_pred cEEccCCEEEEecCCCC----------CCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCceeEEecccc
Q 031243 21 KTIKPGDCVLMRPSEPS----------KPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHD 90 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~----------~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d 90 (163)
..|++||+|+|.+++++ .+++|++|+.|+++.+|. ++++++|||||+||.+++ ++++|||||||+++
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 48999999999999864 378999999999999998 999999999999999999 58899999999999
Q ss_pred ccccc----cEeeecEEEecccccccCCCCCCeEEEeeeeecCCCcccC
Q 031243 91 IQSAD----TIEGKCTVHSFKSYTKLDAVGNDDFFCRFEYNSSSGAFNP 135 (163)
Q Consensus 91 ~~~~~----~I~gkc~V~~~~~~~~~~~~~~~~ffcr~~yd~~~~~f~p 135 (163)
.++++ +|.+||.|........ ...++.|+|+..|+++.+.|+.
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 9999999998765432 1345667777777779999984
No 15
>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=5e-29 Score=177.34 Aligned_cols=96 Identities=26% Similarity=0.522 Sum_probs=91.9
Q ss_pred CCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCceeEEeccccccccccEeeecEEEecccccccCCCCC
Q 031243 38 KPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDAVGN 117 (163)
Q Consensus 38 ~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~~~~ 117 (163)
..+|||+|++||++. |+ .+++|+|||||+||.+++++.+..+|||+|++.+++++++|.|||.|+++.+|.++++.+.
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 578999999999986 87 9999999999999999999999999999999999999999999999999999999988999
Q ss_pred CeEEEeeeeecCCCcccC
Q 031243 118 DDFFCRFEYNSSSGAFNP 135 (163)
Q Consensus 118 ~~ffcr~~yd~~~~~f~p 135 (163)
|+|+|++.||..+++|..
T Consensus 129 Dvy~Ce~~Yd~~~~~Fkr 146 (148)
T cd04718 129 DVFLCEYEYDVHWQSFKR 146 (148)
T ss_pred ceEEEEEEEhhhcCceee
Confidence 999999999999999974
No 16
>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=2e-26 Score=171.38 Aligned_cols=117 Identities=22% Similarity=0.323 Sum_probs=102.7
Q ss_pred CcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCccc--c-------cCCCceeEEecccc
Q 031243 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRR--Q-------FHGSKEVFLSDHHD 90 (163)
Q Consensus 20 ~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~--~-------~~~~~Elf~s~~~d 90 (163)
++++++||+|+|.+++. .++|||.|.+|+.+..++.+.+.|+|||||.|+..++. . ...+||||+|++.+
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 57999999999999874 78999999999998765558999999999999987553 2 23479999999999
Q ss_pred ccccccEeeecEEEecccccccCCC---CCCeEEEeeeeecCCCcccCCC
Q 031243 91 IQSADTIEGKCTVHSFKSYTKLDAV---GNDDFFCRFEYNSSSGAFNPDR 137 (163)
Q Consensus 91 ~~~~~~I~gkc~V~~~~~~~~~~~~---~~~~ffcr~~yd~~~~~f~p~~ 137 (163)
.+++.+|+++|.|++.++|.++.+. +..+||||++||+.++.|+|+.
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 9999999999999999999987653 6789999999999999999853
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=99.92 E-value=1.1e-24 Score=153.28 Aligned_cols=110 Identities=25% Similarity=0.359 Sum_probs=93.0
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCC--CeEEEEEEEeecccccCCcc----cccCCCceeEEeccc---cc
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARG--ANVKVHVRWYYRPEESIGGR----RQFHGSKEVFLSDHH---DI 91 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g--~~~~v~v~Wfyrp~e~~~~~----~~~~~~~Elf~s~~~---d~ 91 (163)
.+|++||+|+|.++++ +++|||+|++|+++.+| ....++|||||||+|++... ....+++|||+|++. +.
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 3799999999999995 78999999999998766 22799999999999997432 123689999999987 48
Q ss_pred cccccEeeecEEEecccccccCC---CCCCeEEEeeeeecCCC
Q 031243 92 QSADTIEGKCTVHSFKSYTKLDA---VGNDDFFCRFEYNSSSG 131 (163)
Q Consensus 92 ~~~~~I~gkc~V~~~~~~~~~~~---~~~~~ffcr~~yd~~~~ 131 (163)
+++++|.|+|.|+..++|.++.. .....||.|+.++.+..
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 99999999999999999998763 24678999998987764
No 18
>KOG1886 consensus BAH domain proteins [Transcription]
Probab=99.91 E-value=1.1e-24 Score=178.93 Aligned_cols=160 Identities=33% Similarity=0.499 Sum_probs=144.5
Q ss_pred CCCCCCceeeeeEEEccCCcEEcc-CCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCccc---cc
Q 031243 2 AKPKAPRRTLESYTVKSISKTIKP-GDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRR---QF 77 (163)
Q Consensus 2 ~~~~~~~~~y~~~~~~g~~~~~~v-GD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~---~~ 77 (163)
||+...+.||..+.++|+ .+.. ||.|.+.+++.+.++|||+|++|+.+..|..+.+.|+|||||+|+..+.. ..
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 99999999998899999999999999876449999999999999997643 23
Q ss_pred CCCceeEEeccccccccccEeeecEEEecccccccCC-CCCCeEEEeeeeecCCCcccCCCCceEEeeCCCCCCCcceee
Q 031243 78 HGSKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDA-VGNDDFFCRFEYNSSSGAFNPDRVAVYCKCEMPYNPDDLMVQ 156 (163)
Q Consensus 78 ~~~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~-~~~~~ffcr~~yd~~~~~f~p~~~~~~C~C~~~~npd~~~~~ 156 (163)
..++|||+|.|.|++++++|.++|.|.++..+.++.. .+.+.|+||..||..+++|.+......|.|.+..+|++...+
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 4578999999999999999999999999999999876 788999999999999999998777789999999999999999
Q ss_pred CCCCCCC
Q 031243 157 CEGCSDW 163 (163)
Q Consensus 157 C~~C~~w 163 (163)
|..|..|
T Consensus 189 ~~~~~~~ 195 (464)
T KOG1886|consen 189 GPRRGTL 195 (464)
T ss_pred cccCCCC
Confidence 9999876
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=99.89 E-value=2.6e-23 Score=145.62 Aligned_cols=108 Identities=22% Similarity=0.476 Sum_probs=88.0
Q ss_pred CEEEEecCCCCCCCeEEEEeEEEecCCCC------eEEEEEEEeecccccCCcccc-cCCC-ceeEEeccccccccccEe
Q 031243 27 DCVLMRPSEPSKPSYVAKIERIESDARGA------NVKVHVRWYYRPEESIGGRRQ-FHGS-KEVFLSDHHDIQSADTIE 98 (163)
Q Consensus 27 D~V~v~~~~~~~~~~i~~I~~i~~~~~g~------~~~v~v~Wfyrp~e~~~~~~~-~~~~-~Elf~s~~~d~~~~~~I~ 98 (163)
|.|-=.+-+.+.+++||||++|....++. .++++|+|||||+|+..++.. ++.. ||||+|+|.+.+|+++|.
T Consensus 14 ~~~~~~~~d~~ePy~VgrI~eI~~~k~~~~k~~~~~ikvrV~~fYRPEdi~~g~~~ayhsDirevy~Sd~~~~~~~~~I~ 93 (137)
T cd04711 14 DYIKGSNLDAPEPFRIGRIKEIFCAKRSNGKPNESDIKLRINKFYRPENTHKGFKATYHADINMLYWSDEEATVDFSAVQ 93 (137)
T ss_pred cccccccCCCCCCcEEEEEEEEecCCCCCCCCCccceEEEEEEEecccccccccccccccceeeEEeecceeecChhhcc
Confidence 33333344556889999999999876443 478999999999999998644 4444 999999999999999999
Q ss_pred eecEEEecccccc-cC---CCCCCeEEEeeeeecCCCccc
Q 031243 99 GKCTVHSFKSYTK-LD---AVGNDDFFCRFEYNSSSGAFN 134 (163)
Q Consensus 99 gkc~V~~~~~~~~-~~---~~~~~~ffcr~~yd~~~~~f~ 134 (163)
|||.|.+.++..+ +. ..+++.|||+..||..+|.|+
T Consensus 94 GKC~V~~~~di~~s~~~y~~~gpd~Fyf~~~Y~a~t~~F~ 133 (137)
T cd04711 94 GRCTVEYGEDLPESVQEYSGGGPDRFYFLEAYNAKTKSFE 133 (137)
T ss_pred ceEEEEeccccchhHHHHhcCCCcceEEhhhhccccCccc
Confidence 9999998776553 22 257899999999999999998
No 20
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=99.74 E-value=3.2e-18 Score=145.60 Aligned_cols=138 Identities=24% Similarity=0.248 Sum_probs=121.7
Q ss_pred eeeee-EEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCceeEEec
Q 031243 9 RTLES-YTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSD 87 (163)
Q Consensus 9 ~~y~~-~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~ 87 (163)
.+... +.++|. .|.+||.|||.+..++.++.|++|..+|.+.+|. .+..+.|||||++|.+...+-+.++|+|.|.
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 34444 678887 9999999999999866899999999999999998 9999999999999999876668899999999
Q ss_pred cccccccccEeeecEEEecccccccCC---CCCCeEEEeeeeecCCCcccCCCCceEEeeCCCCC
Q 031243 88 HHDIQSADTIEGKCTVHSFKSYTKLDA---VGNDDFFCRFEYNSSSGAFNPDRVAVYCKCEMPYN 149 (163)
Q Consensus 88 ~~d~~~~~~I~gkc~V~~~~~~~~~~~---~~~~~ffcr~~yd~~~~~f~p~~~~~~C~C~~~~n 149 (163)
....++++.|+|+|.|+.+.+|...++ ...++|+|.+.|+.+.+.|.++..+..|.-....+
T Consensus 255 ~~~~~~~q~l~g~c~v~~~~~yi~~~p~~ls~~dv~lcesRyn~~~K~f~kirsw~~~~p~E~~~ 319 (629)
T KOG1827|consen 255 LYRDDLVQRLLGKCYVMKPTEYISGDPENLSEEDVFLCESRYNEQLKKFNKIRSWKAFLPREVPL 319 (629)
T ss_pred cccccHHHHhhcceEEeehhHhhhcCcccccccceeeEEeeeccchhhhccccCchhcCccccCC
Confidence 999999999999999999999998887 35799999999999999999887767665544333
No 21
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=99.11 E-value=5.4e-12 Score=103.83 Aligned_cols=115 Identities=27% Similarity=0.466 Sum_probs=96.3
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCc---------c------------------
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGG---------R------------------ 74 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~---------~------------------ 74 (163)
.|++||+||+..+.. .++.|-+|+++-...+|+ +.++|--|||..|++.. +
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 799999999999885 577799999999999998 99999999999987520 0
Q ss_pred -----------------cccCCCceeEEeccccccccccEeeecEEEecccccccCC--CCCCeEEEeeeeecCCCcccC
Q 031243 75 -----------------RQFHGSKEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDA--VGNDDFFCRFEYNSSSGAFNP 135 (163)
Q Consensus 75 -----------------~~~~~~~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~--~~~~~ffcr~~yd~~~~~f~p 135 (163)
+.....+|||+|...+..|+..|+|||.|.-+.+-+.+.. ..+|+||....||+..+++-.
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 0012368999999999999999999999999887665433 568999999999999998876
Q ss_pred CCC
Q 031243 136 DRV 138 (163)
Q Consensus 136 ~~~ 138 (163)
++.
T Consensus 163 DkG 165 (693)
T KOG3554|consen 163 DKG 165 (693)
T ss_pred cCc
Confidence 543
No 22
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=94.91 E-value=0.012 Score=48.35 Aligned_cols=82 Identities=23% Similarity=0.324 Sum_probs=66.0
Q ss_pred ceeEEeccccccccccEeeecEEEecccccccCCCCCCeEEEeeeeecCCCcccCCCCceEEeeCCCCCCCcceeeCCCC
Q 031243 81 KEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLDAVGNDDFFCRFEYNSSSGAFNPDRVAVYCKCEMPYNPDDLMVQCEGC 160 (163)
Q Consensus 81 ~Elf~s~~~d~~~~~~I~gkc~V~~~~~~~~~~~~~~~~ffcr~~yd~~~~~f~p~~~~~~C~C~~~~npd~~~~~C~~C 160 (163)
.+.+++.++..-....+.+++.......+... +....+..+...+....+.+.+......|.|.++.+||..|++|+.|
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~k~~~~~~~~a~~~~~~~~~~~~~p~~~~~~cd~C 81 (345)
T KOG1632|consen 3 KIPKTSKTFSKTESDRRAPIAQKTTKPPKEPV-PIERPVPDVFRGRKGRRGGLLKALTQRYCKCYKPCDPDDLMEQCDLC 81 (345)
T ss_pred CcccccceecccccccccccccccccCCcCCC-CCCCCCcccccccccccccccHhhhhchhhcccccCchhhhhccccc
Confidence 45566677777777777777777777666544 45677888888888888888887777899999999999999999999
Q ss_pred CCC
Q 031243 161 SDW 163 (163)
Q Consensus 161 ~~w 163 (163)
..|
T Consensus 82 ~~~ 84 (345)
T KOG1632|consen 82 EDW 84 (345)
T ss_pred ccc
Confidence 988
No 23
>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=94.22 E-value=0.026 Score=32.83 Aligned_cols=22 Identities=41% Similarity=1.191 Sum_probs=18.5
Q ss_pred EE-eeCCCCCCCcceeeCCCCCCC
Q 031243 141 YC-KCEMPYNPDDLMVQCEGCSDW 163 (163)
Q Consensus 141 ~C-~C~~~~npd~~~~~C~~C~~w 163 (163)
.| +|.+ .+++..+++|++|+.|
T Consensus 1 ~C~vC~~-~~~~~~~i~C~~C~~~ 23 (51)
T PF00628_consen 1 YCPVCGQ-SDDDGDMIQCDSCNRW 23 (51)
T ss_dssp EBTTTTS-SCTTSSEEEBSTTSCE
T ss_pred eCcCCCC-cCCCCCeEEcCCCChh
Confidence 36 7888 5788899999999987
No 24
>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 PTZ00112 origin recognition complex 1 protein; Provisional
Probab=93.21 E-value=0.068 Score=49.09 Aligned_cols=119 Identities=24% Similarity=0.295 Sum_probs=77.7
Q ss_pred eeeeeEEEccCCcEEccCCEEEEecCCCC-------------------C---CCeEEEEeEEEecCCCCeEEEEEEEeec
Q 031243 9 RTLESYTVKSISKTIKPGDCVLMRPSEPS-------------------K---PSYVAKIERIESDARGANVKVHVRWYYR 66 (163)
Q Consensus 9 ~~y~~~~~~g~~~~~~vGD~V~v~~~~~~-------------------~---~~~i~~I~~i~~~~~g~~~~v~v~Wfyr 66 (163)
..|+|+.|++. .|.+||.|+|.-+... . ..--|+|.+++.+.....+.+.|..||.
T Consensus 441 ~iye~~~in~~--~ys~g~dv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~l~kg~is~fy~~~~~~~~~~e~c~y~d 518 (1164)
T PTZ00112 441 VIYESIQINDV--EYSIGDDVLIFCTGNGNTYNGKSGTKKNQNNKNIKENIYQLRKGKISSFYKNTNSNQVEAEVCIYYD 518 (1164)
T ss_pred eEEEEEEEcce--eeccCCcEEEEEcCCCCccccccCccccccccchhhhhheecccccchhhhcCCCceeeEEEEEEEc
Confidence 57999999987 9999999999876521 0 1236899999998665558999999999
Q ss_pred ccccCC--------cccccCCCceeEEecc-----------ccccccccEeeecEEEecccccccC---CCCCCeEEEee
Q 031243 67 PEESIG--------GRRQFHGSKEVFLSDH-----------HDIQSADTIEGKCTVHSFKSYTKLD---AVGNDDFFCRF 124 (163)
Q Consensus 67 p~e~~~--------~~~~~~~~~Elf~s~~-----------~d~~~~~~I~gkc~V~~~~~~~~~~---~~~~~~ffcr~ 124 (163)
..|.+- ..+..-...|+|+-+. +-.+.+.-|..|..|....+-...+ ..|.+-|+|-+
T Consensus 519 ~~d~~~i~~~~~~~~~rr~~~~f~~~~d~~~~~~~llgni~f~~~~~~~i~kki~~~ne~~~~~~d~~~~~g~~kflc~~ 598 (1164)
T PTZ00112 519 QHDAQYIKELEEKQKSRRCKADFEVFLDDDTKNFYLLGNIHFKILDAKMILKKIYVYNEKELYDEDKTAKQGKDKFLCTH 598 (1164)
T ss_pred cccHHHHHHHHHHHHhhhhhhhhhHhcccccceeEEecceeEEEechHhhhhhheeecchhhcccchhhhcccchhhhhH
Confidence 888641 0111223455655543 3444556677777777654322222 24677888866
Q ss_pred eeecC
Q 031243 125 EYNSS 129 (163)
Q Consensus 125 ~yd~~ 129 (163)
..-..
T Consensus 599 ~~k~~ 603 (1164)
T PTZ00112 599 YLKER 603 (1164)
T ss_pred hhhcc
Confidence 44433
No 26
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=92.22 E-value=0.33 Score=28.89 Aligned_cols=40 Identities=20% Similarity=0.344 Sum_probs=26.1
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecc
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRP 67 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp 67 (163)
|++||.|.+++.++ ..-|..|..-. .... .++..+||---
T Consensus 1 f~~GDvV~LKSGGp--~MTV~~v~~~~--~~~~-~~v~C~WFd~~ 40 (53)
T PF09926_consen 1 FKIGDVVQLKSGGP--RMTVTEVGPNA--GASG-GWVECQWFDGH 40 (53)
T ss_pred CCCCCEEEEccCCC--CeEEEEccccc--cCCC-CeEEEEeCCCC
Confidence 57999999999994 34444443331 1122 68999998643
No 27
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]
Probab=91.75 E-value=0.022 Score=47.18 Aligned_cols=95 Identities=16% Similarity=0.037 Sum_probs=79.6
Q ss_pred eEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCceeEEecccccc
Q 031243 13 SYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQ 92 (163)
Q Consensus 13 ~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~ 92 (163)
++.+.+. ..++|+.+.+.+..+...+.++.+...+.+.++. .+..+.|||+|.++.......+..+++......+..
T Consensus 269 ~~~i~~~--~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (371)
T COG5076 269 SVLITNS--QAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTK-ELKLRNNYYRPEETFVRDAKLFFDNCVMYNGEVTDY 345 (371)
T ss_pred hhccccc--ccccccccccccCCcccccchhhhhhcccccccc-hhhhhcccCCCccccccccchhhhcccccchhhhhh
Confidence 3455554 7899999999998877889999999999998887 667999999999887776666778999999889999
Q ss_pred ccccEeeecEEEeccccc
Q 031243 93 SADTIEGKCTVHSFKSYT 110 (163)
Q Consensus 93 ~~~~I~gkc~V~~~~~~~ 110 (163)
......+.|.|.....+.
T Consensus 346 ~~~~~~~~~~~~~~~~~~ 363 (371)
T COG5076 346 YKNANVLEDFVIKKTRLI 363 (371)
T ss_pred hhhccchhhhHhhhhhhh
Confidence 999999999888765544
No 28
>PRK10708 hypothetical protein; Provisional
Probab=90.49 E-value=1.4 Score=26.44 Aligned_cols=45 Identities=16% Similarity=0.282 Sum_probs=32.5
Q ss_pred ccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEE-------EEEEeecccccC
Q 031243 24 KPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKV-------HVRWYYRPEESI 71 (163)
Q Consensus 24 ~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v-------~v~Wfyrp~e~~ 71 (163)
+++|.|.|+.++ .+...|.|..+..-..|. +++ .+.||+.-.+-.
T Consensus 2 kvnD~VtVKTDG--~~rR~G~iLavE~F~EG~-MyLvaL~dYP~GiWFFNE~~~~ 53 (62)
T PRK10708 2 KVNDRVTVKTDG--GPRRPGVVLAVEEFSEGT-MYLVSLEDYPLGIWFFNEAGHQ 53 (62)
T ss_pred ccccEEEEecCC--CccccceEEEEeeccCcE-EEEEEcCcCCCceEEEeccCCC
Confidence 689999999998 567888888887766665 333 356777654433
No 29
>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=90.28 E-value=1.5 Score=26.32 Aligned_cols=46 Identities=20% Similarity=0.328 Sum_probs=32.9
Q ss_pred ccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEE-------EEEEeecccccCC
Q 031243 24 KPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKV-------HVRWYYRPEESIG 72 (163)
Q Consensus 24 ~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v-------~v~Wfyrp~e~~~ 72 (163)
+++|.|.|+.++ .+..-|.|..+..-..|. +++ .+.||+.-.+-+.
T Consensus 2 kvnD~VtVKTDG--~~rR~G~ilavE~F~EG~-MYLvaL~dYP~GiWFFNE~~~~d 54 (62)
T PF10781_consen 2 KVNDRVTVKTDG--GPRREGVILAVEPFNEGT-MYLVALEDYPAGIWFFNEKDSPD 54 (62)
T ss_pred ccccEEEEecCC--cccccceEEEEeeccCcE-EEEEEcCcCCcceEEEecCCCCC
Confidence 689999999998 567788888887766664 333 3567776555443
No 30
>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=90.10 E-value=1.8 Score=30.83 Aligned_cols=54 Identities=19% Similarity=0.224 Sum_probs=38.2
Q ss_pred eeeeeEEEccCCcEEccCCEEEEecCC----------CCCCCeEEEEeEEEecCCCC------eEEEEEEEe
Q 031243 9 RTLESYTVKSISKTIKPGDCVLMRPSE----------PSKPSYVAKIERIESDARGA------NVKVHVRWY 64 (163)
Q Consensus 9 ~~y~~~~~~g~~~~~~vGD~V~v~~~~----------~~~~~~i~~I~~i~~~~~g~------~~~v~v~Wf 64 (163)
.||+++.+.. |.+.+||.|-|++.. .+..-.|..|.+|....... ...|++.-|
T Consensus 1 i~y~GiflGA--E~I~vGD~VRl~~~~~~~~~~~~~~~~~~tdvMvI~~I~~~~~~~~~~~~~~v~~~G~lY 70 (139)
T PF10383_consen 1 IYYRGIFLGA--EMIWVGDAVRLKPLNASPSPNQSDGNPDVTDVMVIDEIQLRLINCDPDSPSTVRFRGDLY 70 (139)
T ss_pred CeECeEEEee--EEEEeCCEEEECccCCCcccccccCCCCceeEEEEeEEEEecccCCCCCCceEEEEeEec
Confidence 3899999875 499999999995432 12445788999998864321 267777663
No 31
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=88.08 E-value=2.3 Score=27.12 Aligned_cols=32 Identities=28% Similarity=0.570 Sum_probs=24.9
Q ss_pred EEccCCEEEEecCCC-----CCCCeEEEEeEEEecCC
Q 031243 22 TIKPGDCVLMRPSEP-----SKPSYVAKIERIESDAR 53 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~-----~~~~~i~~I~~i~~~~~ 53 (163)
-++.||+|.|..+.. +..-|+|+|.......+
T Consensus 5 ~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi~~~ggaR 41 (75)
T PF11302_consen 5 SVKPGDTVIVQDEQEVGQKQDKDWWMGQVIHCEGGAR 41 (75)
T ss_pred ccCCCCEEEEecCccccccCCCCcEEEEEEEEecccc
Confidence 468999999999762 35678999998876543
No 32
>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=87.84 E-value=1.3 Score=28.73 Aligned_cols=43 Identities=21% Similarity=0.293 Sum_probs=34.6
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecc
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRP 67 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp 67 (163)
.+++||.|..+-.+ -++|-|+|.+.-...... ..+.|+||-..
T Consensus 2 ~f~~GdlVwaK~kG--yp~WPa~I~~~~~~~~~~-~~~~V~FfGt~ 44 (83)
T cd05834 2 QFKAGDLVFAKVKG--YPAWPARVDEPEDWKPPG-KKYPVYFFGTH 44 (83)
T ss_pred CCCCCCEEEEecCC--CCCCCEEEecccccCCCC-CEEEEEEeCCC
Confidence 57899999999877 689999999987643333 67999999854
No 33
>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=87.37 E-value=1.1 Score=27.01 Aligned_cols=39 Identities=21% Similarity=0.382 Sum_probs=26.6
Q ss_pred ccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEe
Q 031243 24 KPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWY 64 (163)
Q Consensus 24 ~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wf 64 (163)
++||.+.|....-......|.|.++.-. +|. .-..|+|-
T Consensus 4 ~vGD~lvv~g~~vg~~~r~GeIveV~g~-dG~-PPY~VRw~ 42 (58)
T PF08940_consen 4 SVGDRLVVHGRTVGQPDRHGEIVEVRGP-DGS-PPYLVRWD 42 (58)
T ss_dssp -TTEEEEES-TTTS--EEEEEEEE-S-S-SS--S-EEEEET
T ss_pred CCCCEEEEcCCcCCCCCcEeEEEEEECC-CCC-CCEEEEec
Confidence 6899999999876678899999999875 566 78899994
No 34
>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=86.72 E-value=1.1 Score=29.29 Aligned_cols=42 Identities=17% Similarity=0.237 Sum_probs=32.1
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCC--CCeEEEEEEEeec
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDAR--GANVKVHVRWYYR 66 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~--g~~~~v~v~Wfyr 66 (163)
+++||.|..+-.+ -+.|-|+|.+...... .....+.|+||-.
T Consensus 1 f~vGDlVWaK~kg--~pwWP~~V~~~~~~~~~~~~~~~~~V~fFGs 44 (87)
T cd05835 1 FNVGDLVWGKIKG--FPWWPGRVVSITVTSKRPPVVGMRWVTWFGS 44 (87)
T ss_pred CCCCCEEEEecCC--CCCCCeEEechhhcccccCCCCeEEEEEeCC
Confidence 4789999999877 5799999999865431 1125799999874
No 35
>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=84.41 E-value=2.4 Score=27.41 Aligned_cols=39 Identities=21% Similarity=0.214 Sum_probs=32.0
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecc
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRP 67 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp 67 (163)
+.+||.|.-.-.+ -+.|.|+|.++... . ..+.|.||-..
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 4689999999888 58999999998643 3 67999998776
No 36
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=82.66 E-value=0.81 Score=36.95 Aligned_cols=24 Identities=46% Similarity=1.297 Sum_probs=21.0
Q ss_pred eEEeeCCCCCC-----CcceeeCCCCCCC
Q 031243 140 VYCKCEMPYNP-----DDLMVQCEGCSDW 163 (163)
Q Consensus 140 ~~C~C~~~~np-----d~~~~~C~~C~~w 163 (163)
..|.|+.|+++ +..++||..|.+|
T Consensus 129 ~~C~Cd~~Ypdp~~~~e~~m~QC~iCEDW 157 (345)
T KOG2752|consen 129 LFCKCDTPYPDPVRTEEGEMLQCVICEDW 157 (345)
T ss_pred eeEEecCCCCCccccccceeeeEEeccch
Confidence 69999999986 3389999999999
No 37
>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=80.09 E-value=6.3 Score=28.27 Aligned_cols=50 Identities=26% Similarity=0.290 Sum_probs=33.1
Q ss_pred CceeeeeEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeeccc
Q 031243 7 PRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPE 68 (163)
Q Consensus 7 ~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~ 68 (163)
|...+++.++..- .+++||.|.+...+ +.+-.-.|..|. .++-.|||-=+
T Consensus 74 ~tg~~q~~tv~kp--~F~LGd~V~~~f~~--~~pkqRlIlGv~--------lv~~~W~Y~VE 123 (150)
T PF07154_consen 74 GTGQLQSLTVQKP--AFRLGDRVEFRFYS--DGPKQRLILGVF--------LVNNSWFYAVE 123 (150)
T ss_pred ecCccceeeccCC--ceecCCEEEEEecC--CCCceEEEEEEE--------EecCceEEEEE
Confidence 3445677777776 89999999999865 235555566553 45555766543
No 38
>PF09871 DUF2098: Uncharacterized protein conserved in archaea (DUF2098); InterPro: IPR019209 This family of proteins have no known function.
Probab=79.51 E-value=5.6 Score=26.35 Aligned_cols=43 Identities=30% Similarity=0.427 Sum_probs=32.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEE---EEeecccccC
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHV---RWYYRPEESI 71 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v---~Wfyrp~e~~ 71 (163)
.|.+|++|--.+.+. +|.|.+|... +|. .|+.+ ..||||.-+.
T Consensus 2 ~I~vGs~VRY~~TGT-----~G~V~diK~e-d~~-~wv~LD~t~L~Yr~~~Le 47 (91)
T PF09871_consen 2 PIKVGSYVRYINTGT-----VGKVVDIKEE-DGE-TWVLLDSTDLYYRPDYLE 47 (91)
T ss_pred cceeCCEEEECCCCe-----EEEEEEEEEe-CCC-eEEEEccCCceeecceeE
Confidence 578999997776663 8999999554 555 78887 6679988654
No 39
>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=78.51 E-value=9 Score=22.54 Aligned_cols=37 Identities=27% Similarity=0.354 Sum_probs=26.1
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEE
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRW 63 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~W 63 (163)
+.+|+.|++.-.+ ...+-|+|.++.... |. ....|.+
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 4689999999833 579999999999953 43 4444544
No 40
>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=78.42 E-value=4.4 Score=26.08 Aligned_cols=41 Identities=24% Similarity=0.344 Sum_probs=31.5
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCC-----CCeEEEEEEEee
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDAR-----GANVKVHVRWYY 65 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~-----g~~~~v~v~Wfy 65 (163)
|++||.|..+-.+ -+.|-|+|.+...... .....+.|++|-
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 5789999999987 5799999998887531 112578888886
No 41
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=76.64 E-value=5.4 Score=24.17 Aligned_cols=42 Identities=19% Similarity=0.187 Sum_probs=30.9
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecCC------CCeEEEEEEEeec
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDAR------GANVKVHVRWYYR 66 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~------g~~~~v~v~Wfyr 66 (163)
|++||.|..+-.+ -+.|-|+|..-..... ..+..+.|++|-.
T Consensus 1 f~~GdlVwaK~~G--~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg~ 48 (63)
T smart00293 1 FKPGDLVWAKMKG--FPWWPALVVSPKETPDNIRKRKRFENLYPVLFFGD 48 (63)
T ss_pred CCCCCEEEEECCC--CCCCCeEEcCcccCChhHhhccCCCCEEEEEEeCC
Confidence 5789999999988 5799999998775421 1125788888753
No 42
>COG5475 Uncharacterized small protein [Function unknown]
Probab=75.82 E-value=13 Score=22.30 Aligned_cols=49 Identities=18% Similarity=0.350 Sum_probs=30.4
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcccccCCCceeE
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVF 84 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~~~~~~~~Elf 84 (163)
.+++||.|.|++.++. ..|...-. + -+...+||-+.. ..+..+.++||.
T Consensus 4 ~FstgdvV~lKsGGP~-----Mtvs~~ss--~---Gmy~C~Wf~g~g----~~~~~F~ed~Lv 52 (60)
T COG5475 4 SFSTGDVVTLKSGGPR-----MTVSGYSS--D---GMYECRWFDGYG----VKREAFHEDELV 52 (60)
T ss_pred eeecCcEEEeecCCce-----EEEecccc--C---CeEEEEEecCCC----ccccccccccee
Confidence 7899999999999841 22222221 2 379999997754 122234556654
No 43
>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=74.68 E-value=4.6 Score=26.74 Aligned_cols=40 Identities=23% Similarity=0.346 Sum_probs=29.3
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEE---------ecCCCCeEEEEEEEee
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIE---------SDARGANVKVHVRWYY 65 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~---------~~~~g~~~~v~v~Wfy 65 (163)
|++||.|..+-.+ -+.|-|+|..=. ....+. ..+.|++|-
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 5789999999988 589999998621 112233 678999984
No 44
>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=74.02 E-value=10 Score=19.67 Aligned_cols=26 Identities=23% Similarity=0.259 Sum_probs=21.7
Q ss_pred cCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 25 PGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 25 vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
+||.|.|.+.. ..-.+|+|.++..+.
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 58999999887 467899999998754
No 45
>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=73.22 E-value=11 Score=25.78 Aligned_cols=44 Identities=14% Similarity=0.121 Sum_probs=33.0
Q ss_pred CCCceeeeeEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCC
Q 031243 5 KAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDAR 53 (163)
Q Consensus 5 ~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~ 53 (163)
-+|+-..-.+.+... ++++||.|.+-... .|.+++|..|.....
T Consensus 11 ~~G~G~t~dvIl~~G--tL~~GD~Iv~g~~~---Gpi~tkVRaLl~~~~ 54 (110)
T cd03703 11 EEGLGTTIDVILYDG--TLREGDTIVVCGLN---GPIVTKVRALLKPQP 54 (110)
T ss_pred cCCCceEEEEEEECC--eEecCCEEEEccCC---CCceEEEeEecCCCC
Confidence 345556655655443 99999999998776 478999999998754
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=71.10 E-value=5.1 Score=25.44 Aligned_cols=43 Identities=21% Similarity=0.373 Sum_probs=30.8
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecC--CCCeEEEEEEEeecc
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDA--RGANVKVHVRWYYRP 67 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~--~g~~~~v~v~Wfyrp 67 (163)
|++||.|.++-.+ -+.|-|+|....... ......+.|+||-.-
T Consensus 1 f~~GdlVWaK~~g--~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg~~ 45 (86)
T PF00855_consen 1 FRPGDLVWAKLKG--YPWWPARVCDPDEKSKKKRKDGHVLVRFFGDN 45 (86)
T ss_dssp -STTEEEEEEETT--SEEEEEEEEECCHCTSCSSSSTEEEEEETTTT
T ss_pred CCCCCEEEEEeCC--CCCCceEEeecccccccCCCCCEEEEEecCCC
Confidence 5799999999877 579999999887531 111257888887643
No 47
>COG4014 Uncharacterized protein conserved in archaea [Function unknown]
Probab=70.32 E-value=15 Score=24.21 Aligned_cols=40 Identities=28% Similarity=0.428 Sum_probs=29.5
Q ss_pred ccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEE---Eeecccc
Q 031243 24 KPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVR---WYYRPEE 69 (163)
Q Consensus 24 ~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~---Wfyrp~e 69 (163)
.+||.|---+.+. +|+|.+|.++.+|. .|+.+- .+||+.=
T Consensus 10 ~VG~avrYvnTgT-----vgrV~dIkkdEdG~-~WV~LdstdLwYre~~ 52 (97)
T COG4014 10 KVGDAVRYVNTGT-----VGRVVDIKKDEDGD-IWVVLDSTDLWYREHY 52 (97)
T ss_pred hhcceEEEeecCc-----eeeEEEEEeecCCc-eEEEEecCCceecccc
Confidence 4788775555442 89999999999998 888763 3577763
No 48
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=70.31 E-value=11 Score=18.31 Aligned_cols=25 Identities=20% Similarity=0.266 Sum_probs=19.9
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEE
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIE 49 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~ 49 (163)
+.+||.|.|.... ..-.+|.|.++.
T Consensus 2 ~~~G~~V~I~~G~--~~g~~g~i~~i~ 26 (28)
T smart00739 2 FEVGDTVRVIAGP--FKGKVGKVLEVD 26 (28)
T ss_pred CCCCCEEEEeECC--CCCcEEEEEEEc
Confidence 4689999999876 456689888875
No 49
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=70.19 E-value=10 Score=26.47 Aligned_cols=44 Identities=16% Similarity=0.111 Sum_probs=29.1
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEee
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYY 65 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfy 65 (163)
.+++||.|+...+.....+.-|.|+...+.....+..++|..|-
T Consensus 55 ~L~~GD~VLA~~~~~~~~Y~Pg~V~~~~~~~~~~~~~~~V~f~n 98 (124)
T PF15057_consen 55 SLQVGDKVLAPWEPDDCRYGPGTVIAGPERRASEDKEYTVRFYN 98 (124)
T ss_pred cCCCCCEEEEecCcCCCEEeCEEEEECccccccCCceEEEEEEC
Confidence 67999999999765433444599998765432222567776543
No 50
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=67.10 E-value=3.3 Score=35.35 Aligned_cols=22 Identities=36% Similarity=0.992 Sum_probs=16.7
Q ss_pred EEeeCCCCCCCcceeeCCCCCCC
Q 031243 141 YCKCEMPYNPDDLMVQCEGCSDW 163 (163)
Q Consensus 141 ~C~C~~~~npd~~~~~C~~C~~w 163 (163)
+|-|.+|-.=. +++||++|+.|
T Consensus 173 vC~~g~~~~~N-rmlqC~~C~~~ 194 (464)
T KOG4323|consen 173 VCYCGGPGAGN-RMLQCDKCRQW 194 (464)
T ss_pred eeecCCcCccc-eeeeecccccH
Confidence 56666664444 99999999988
No 51
>COG3257 GlxB Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]
Probab=65.06 E-value=20 Score=27.85 Aligned_cols=48 Identities=8% Similarity=0.344 Sum_probs=30.6
Q ss_pred EEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCCcc
Q 031243 15 TVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGR 74 (163)
Q Consensus 15 ~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~~~ 74 (163)
.+.|....++-|+++|+.+... | .+. +.+..-.++.|+-++-+...|.
T Consensus 97 ~~~G~th~l~eggyaylPpgs~----~-----~~~---N~~~~~~rfhw~rk~Y~~VdG~ 144 (264)
T COG3257 97 KAEGKTHALREGGYAYLPPGSG----W-----TLR---NAQKEDSRFHWIRKRYQPVEGV 144 (264)
T ss_pred EEcCeEEEeccCCeEEeCCCCc----c-----eEe---eccCCceEEEEEeecceeecCc
Confidence 4455556778899999988762 1 111 1211457888888888776654
No 52
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=64.25 E-value=5 Score=31.91 Aligned_cols=24 Identities=29% Similarity=0.980 Sum_probs=18.3
Q ss_pred CceEEeeCCCCCCCcceeeCCC--CC-CC
Q 031243 138 VAVYCKCEMPYNPDDLMVQCEG--CS-DW 163 (163)
Q Consensus 138 ~~~~C~C~~~~npd~~~~~C~~--C~-~w 163 (163)
-..+|+|++. -=-.||.||+ |. .|
T Consensus 218 e~~yC~Cnqv--syg~Mi~CDn~~C~~eW 244 (274)
T KOG1973|consen 218 EPTYCICNQV--SYGKMIGCDNPGCPIEW 244 (274)
T ss_pred CCEEEEeccc--ccccccccCCCCCCcce
Confidence 4589999932 3348999997 99 88
No 53
>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=64.11 E-value=18 Score=27.81 Aligned_cols=46 Identities=20% Similarity=0.464 Sum_probs=36.6
Q ss_pred CcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeeccc
Q 031243 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPE 68 (163)
Q Consensus 20 ~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~ 68 (163)
...+++|+.=.+..+.+..|.+.|+|.++... +. ..+++.|+-.-.
T Consensus 25 ~~~F~~gQIWAlYd~~D~mPR~Ya~I~kV~~~--~~-Fkl~i~wLe~~~ 70 (217)
T PF11926_consen 25 EEKFQVGQIWALYDDDDGMPRYYARIKKVDSS--NP-FKLHITWLEPCP 70 (217)
T ss_pred HHhCCCCCEEEEeeCCCCCeeeEEEEEEEecC--CC-eEEEEEEccccC
Confidence 35789999988888766789999999999875 23 789999975433
No 54
>PRK13251 transcription attenuation protein MtrB; Provisional
Probab=63.57 E-value=18 Score=22.73 Aligned_cols=49 Identities=20% Similarity=0.190 Sum_probs=37.8
Q ss_pred EEEEEeecccccCCcccccCCCceeEEeccccccccccEeeecEEEecc
Q 031243 59 VHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGKCTVHSFK 107 (163)
Q Consensus 59 v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gkc~V~~~~ 107 (163)
|.|.=+-|..|+.-.-..-.+..||.+...++..++--|+|++.++...
T Consensus 19 V~vIgltrg~dtkfhhtEkLDkGEVmiaqftehtsaiKirGkA~I~t~~ 67 (75)
T PRK13251 19 VNVIGLTRGKDTKFHHTEKLDKGEVMIAQFTEHTSAIKIRGKAEIQTKH 67 (75)
T ss_pred eEEEEEecCCCccchhhhhcCCCcEEEEEeecceeEEEEeceEEEEeec
Confidence 5555667777775443333678999999999999999999999998753
No 55
>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=61.25 E-value=14 Score=23.19 Aligned_cols=49 Identities=20% Similarity=0.150 Sum_probs=34.6
Q ss_pred EEEEEeecccccCCcccccCCCceeEEeccccccccccEeeecEEEecc
Q 031243 59 VHVRWYYRPEESIGGRRQFHGSKEVFLSDHHDIQSADTIEGKCTVHSFK 107 (163)
Q Consensus 59 v~v~Wfyrp~e~~~~~~~~~~~~Elf~s~~~d~~~~~~I~gkc~V~~~~ 107 (163)
|.|.=+-|..||.-.-..-.+..||.+...++..++--|+|++.|+...
T Consensus 19 V~ViGlTRG~dtkfhHtEkLDkGEVmIaQFTehtsaiKiRGkA~I~t~~ 67 (75)
T PF02081_consen 19 VTVIGLTRGTDTKFHHTEKLDKGEVMIAQFTEHTSAIKIRGKAEILTKH 67 (75)
T ss_dssp EEEEEEESSSSSSEEEEEEE-TT-EEEEE-BSSEEEEEEESSEEEEETT
T ss_pred eEEEEEecCCcccchhhhccCCCcEEEEEeecceEEEEEeeeEEEEecc
Confidence 4555566777766443333578999999999999999999999998754
No 56
>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=59.32 E-value=3.7 Score=25.53 Aligned_cols=16 Identities=38% Similarity=0.954 Sum_probs=9.2
Q ss_pred CCCCcceeeCCCCCCC
Q 031243 148 YNPDDLMVQCEGCSDW 163 (163)
Q Consensus 148 ~npd~~~~~C~~C~~w 163 (163)
++--.++++|++|+.|
T Consensus 23 Y~~GvViv~C~gC~~~ 38 (66)
T PF05180_consen 23 YHKGVVIVQCPGCKNR 38 (66)
T ss_dssp HHTSEEEEE-TTS--E
T ss_pred HhCCeEEEECCCCcce
Confidence 3344589999999864
No 57
>PRK12281 rplX 50S ribosomal protein L24; Reviewed
Probab=56.36 E-value=29 Score=22.08 Aligned_cols=29 Identities=17% Similarity=0.260 Sum_probs=24.2
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
.++.||.|.|.++. +.--+|.|.++....
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 57899999999987 456689999998764
No 58
>CHL00141 rpl24 ribosomal protein L24; Validated
Probab=56.30 E-value=28 Score=22.56 Aligned_cols=29 Identities=17% Similarity=0.296 Sum_probs=24.2
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
.++.||.|.|.++. +.--+|.|.++....
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 455689999998764
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=55.78 E-value=18 Score=22.99 Aligned_cols=36 Identities=14% Similarity=0.347 Sum_probs=23.4
Q ss_pred eEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031243 13 SYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (163)
Q Consensus 13 ~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~ 51 (163)
.|.++.. ...++|++|.+...+ ...-+|+|.++...
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 3445442 378999999999884 46889999999873
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=51.61 E-value=32 Score=20.85 Aligned_cols=31 Identities=35% Similarity=0.346 Sum_probs=22.9
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
+++.||.|++.+.........++|.+|+...
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 8999999999773222335778888888753
No 61
>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=51.55 E-value=27 Score=22.59 Aligned_cols=43 Identities=23% Similarity=0.318 Sum_probs=30.3
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecC---CCCeEEEEEEEeecc
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDA---RGANVKVHVRWYYRP 67 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~---~g~~~~v~v~Wfyrp 67 (163)
+++||.|.-+-.+ -+.|-|+|.+-..+. .+....+.|+||-.+
T Consensus 1 f~~GDlVwaK~~g--~P~WPa~V~~~~~~~~~~~~~~~~~~V~FFG~~ 46 (86)
T cd05836 1 LKLGDLVWAKMKG--FPPWPGRIVKPPKDLKKPRGKAKCFFVFFFGSE 46 (86)
T ss_pred CCCCCEEEEeCCC--CCCCCEEEechhhhcccccCCCCeEEEEEeCCC
Confidence 4789999999887 689999998754331 111146778887654
No 62
>PF04322 DUF473: Protein of unknown function (DUF473); InterPro: IPR007417 This is a family of uncharacterised archaeal proteins.
Probab=51.05 E-value=43 Score=23.29 Aligned_cols=42 Identities=19% Similarity=0.462 Sum_probs=27.6
Q ss_pred eeeeeEEEccCC-----cEEccCCEEEEecCCC-----CCCCeEEEEeEEEe
Q 031243 9 RTLESYTVKSIS-----KTIKPGDCVLMRPSEP-----SKPSYVAKIERIES 50 (163)
Q Consensus 9 ~~y~~~~~~g~~-----~~~~vGD~V~v~~~~~-----~~~~~i~~I~~i~~ 50 (163)
.+++-++++... ....+||+|++.+... ...--||+|.++.-
T Consensus 20 ~~~RTiEirSa~N~~~~~~~~~Gd~VFlT~~~~~Dl~~Gt~GiIa~V~~~~i 71 (119)
T PF04322_consen 20 NHIRTIEIRSAHNVIALESLDPGDRVFLTSVSLEDLTPGTEGIIAEVKKIEI 71 (119)
T ss_pred CCceEEEEEcchheeeeecCCCCCEEEEecCCHHHCCCCCCeEEEEEEEEEE
Confidence 345555555321 3459999999999863 34557888887754
No 63
>PRK00004 rplX 50S ribosomal protein L24; Reviewed
Probab=50.98 E-value=35 Score=23.08 Aligned_cols=29 Identities=21% Similarity=0.329 Sum_probs=24.4
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
.++.||.|.|.+.. +.--+|.|.++....
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 57899999999987 456699999998764
No 64
>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=49.76 E-value=26 Score=23.75 Aligned_cols=45 Identities=20% Similarity=0.238 Sum_probs=32.3
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEe---------cCCCCeEEEEEEEeecccc
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIES---------DARGANVKVHVRWYYRPEE 69 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~---------~~~g~~~~v~v~Wfyrp~e 69 (163)
.|.+||.|..+-.+ -+.|-|.|.+--. ..... ..+.|++|-...+
T Consensus 2 ~~~~GdlVWaK~~g--~PwWPa~V~~~~~~~~~~~~~~~~~~~-~~~~V~FFG~~~~ 55 (110)
T cd05837 2 KYQVGDLVWAKVSG--YPWWPCMVCSDPLLGTYTKTKRNKRKP-RQYHVQFFGDNPE 55 (110)
T ss_pred CCCCCCEEEEeCCC--CCCCCEEEecccccchhhhhhhccCCC-CeEEEEEcCCCCC
Confidence 58899999999988 5789999985211 11222 6799999986533
No 65
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=49.38 E-value=15 Score=21.86 Aligned_cols=20 Identities=25% Similarity=0.654 Sum_probs=17.4
Q ss_pred eeCCCCCCCcceeeCCCCCC
Q 031243 143 KCEMPYNPDDLMVQCEGCSD 162 (163)
Q Consensus 143 ~C~~~~npd~~~~~C~~C~~ 162 (163)
+|.++..|....++|+.|+.
T Consensus 10 ~Cg~~~~~~dDiVvCp~Cga 29 (54)
T PF14446_consen 10 VCGKKFKDGDDIVVCPECGA 29 (54)
T ss_pred hhCCcccCCCCEEECCCCCC
Confidence 47889999999999999974
No 66
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=47.65 E-value=32 Score=20.25 Aligned_cols=28 Identities=21% Similarity=0.274 Sum_probs=22.5
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~ 50 (163)
.+++||.|.+...+ +..-|-|.|.++..
T Consensus 2 ~~~~G~~Ve~~~~~-~~~W~~a~V~~~~~ 29 (61)
T smart00743 2 DFKKGDRVEVFSKE-EDSWWEAVVTKVLG 29 (61)
T ss_pred CcCCCCEEEEEECC-CCEEEEEEEEEECC
Confidence 47899999999865 34577899998864
No 67
>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=47.25 E-value=43 Score=22.63 Aligned_cols=29 Identities=21% Similarity=0.286 Sum_probs=24.2
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
.++.||.|.|.+.. +.--+|.|.++....
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 47899999999987 456799999998764
No 68
>COG1370 Prefoldin, molecular chaperone implicated in de novo protein folding, alpha subunit [Posttranslational modification, protein turnover, chaperones]
Probab=46.60 E-value=18 Score=26.18 Aligned_cols=40 Identities=15% Similarity=0.264 Sum_probs=32.0
Q ss_pred CCCceeeeeEEEccCCcEEccCCEEEEecCCCCCCCeEEEEe
Q 031243 5 KAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIE 46 (163)
Q Consensus 5 ~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~ 46 (163)
++||.-|.++.+.+. +.++.||-|+|-++++ ...-+|+..
T Consensus 94 r~Gk~VFaKfVi~~D-~~iR~~dEvlVVne~d-~LlAvGra~ 133 (155)
T COG1370 94 RKGKSVFAKFVIDVD-EEIRAGDEVLVVNEDD-ELLAVGRAL 133 (155)
T ss_pred HhccchhhhheeccC-cccCCCCeEEEECCCC-cEEEeeeEe
Confidence 478889999999874 7999999999999883 455566643
No 69
>KOG1568 consensus Mitochondrial inner membrane protease, subunit IMP2 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=46.19 E-value=1e+02 Score=22.80 Aligned_cols=85 Identities=19% Similarity=0.295 Sum_probs=53.7
Q ss_pred eeeeeEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeeccccc---CCcc-c-ccCCCcee
Q 031243 9 RTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEES---IGGR-R-QFHGSKEV 83 (163)
Q Consensus 9 ~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~---~~~~-~-~~~~~~El 83 (163)
.....+.++. ..+..||.|.+.++..+++.+|-||..+-- . .+.. +-++++. +.|. + ..-.+.+=
T Consensus 57 Vll~k~~v~n--~~~~rGDiVvl~sP~~p~~~~iKRv~aleg----d-~~~t---~~~k~~~v~vpkghcWVegDn~~hs 126 (174)
T KOG1568|consen 57 VLLRKWNVKN--RKVSRGDIVVLKSPNDPDKVIIKRVAALEG----D-IMVT---EDEKEEPVVVPKGHCWVEGDNQKHS 126 (174)
T ss_pred EEEEeecccc--ceeccCCEEEEeCCCChhheeeeeeecccc----c-Eecc---CCCCCCceecCCCcEEEecCCcccc
Confidence 3344555554 367899999999988778889999887742 2 2222 3334442 2221 1 01224566
Q ss_pred EEeccccccccccEeeecEE
Q 031243 84 FLSDHHDIQSADTIEGKCTV 103 (163)
Q Consensus 84 f~s~~~d~~~~~~I~gkc~V 103 (163)
+=|+.+--++...|.|++.-
T Consensus 127 ~DSntFGPVS~gli~grai~ 146 (174)
T KOG1568|consen 127 YDSNTFGPVSTGLIVGRAIY 146 (174)
T ss_pred cccCccCCcchhheeeeEEE
Confidence 66777888999999999743
No 70
>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=45.96 E-value=32 Score=16.43 Aligned_cols=15 Identities=27% Similarity=0.370 Sum_probs=10.8
Q ss_pred EEeEEEecCCCCeEEE
Q 031243 44 KIERIESDARGANVKV 59 (163)
Q Consensus 44 ~I~~i~~~~~g~~~~v 59 (163)
.|..|.++.+|. +|+
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 377888998887 765
No 71
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=44.83 E-value=11 Score=31.11 Aligned_cols=17 Identities=24% Similarity=0.856 Sum_probs=13.5
Q ss_pred CCCCCcceeeCCCCCCC
Q 031243 147 PYNPDDLMVQCEGCSDW 163 (163)
Q Consensus 147 ~~npd~~~~~C~~C~~w 163 (163)
-+.-...|-+|+||++|
T Consensus 361 GF~a~~l~W~CPsC~~W 377 (389)
T COG2956 361 GFTAHTLYWHCPSCRAW 377 (389)
T ss_pred CCcceeeeeeCCCcccc
Confidence 34456688999999999
No 72
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=44.19 E-value=63 Score=21.78 Aligned_cols=44 Identities=23% Similarity=0.355 Sum_probs=34.6
Q ss_pred CCceeeeeEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCC
Q 031243 6 APRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDAR 53 (163)
Q Consensus 6 ~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~ 53 (163)
+||.++++-..+- +..+++||.+-|.-.. ..+..+|..+-...+
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 6888998888875 4699999999999877 467788888876543
No 73
>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=44.10 E-value=62 Score=21.38 Aligned_cols=39 Identities=18% Similarity=0.270 Sum_probs=28.2
Q ss_pred CCCceeeeeEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 5 KAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 5 ~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
-+|+-....+.+... ++++||++.+-... |+|..|+.+.
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 355556666666544 99999999886543 5999998764
No 74
>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=43.54 E-value=20 Score=23.25 Aligned_cols=28 Identities=25% Similarity=0.463 Sum_probs=19.0
Q ss_pred EEEEEEeecccccC---------CcccccCCCceeEEeccc
Q 031243 58 KVHVRWYYRPEESI---------GGRRQFHGSKEVFLSDHH 89 (163)
Q Consensus 58 ~v~v~Wfyrp~e~~---------~~~~~~~~~~Elf~s~~~ 89 (163)
...++|+| |.++. .|.+ .++|||+-+..
T Consensus 35 f~~GrWm~-P~~~~Y~VGyNe~GLGpK---~~~ElyiVnk~ 71 (85)
T PF12503_consen 35 FPNGRWMY-PEGYEYMVGYNESGLGPK---FDGELYIVNKD 71 (85)
T ss_pred ecCCceec-CCCeEEEeeecCCCCCcC---cCCeEEEEcCc
Confidence 45578988 88764 2222 48999998764
No 75
>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=43.19 E-value=75 Score=20.86 Aligned_cols=39 Identities=21% Similarity=0.325 Sum_probs=28.2
Q ss_pred CCCceeeeeEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 5 KAPRRTLESYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 5 ~~~~~~y~~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
-+|+-..-.+.+... ++++||++.+-.. .|+|..|+.+.
T Consensus 11 ~~g~G~vatviV~~G--tL~~Gd~iv~G~~-------~GkVr~~~d~~ 49 (95)
T cd03701 11 DKGRGPVATVIVQNG--TLKKGDVIVAGGT-------YGKIRTMVDEN 49 (95)
T ss_pred cCCCCeeEEEEEEcC--eEecCCEEEECCc-------cceEEEEECCC
Confidence 455666666666655 9999999988654 47888888753
No 76
>KOG2133 consensus Transcriptional corepressor Atrophin-1/DRPLA [General function prediction only]
Probab=42.42 E-value=20 Score=33.60 Aligned_cols=112 Identities=21% Similarity=0.204 Sum_probs=80.6
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCC-CCeEEEEEEEeecccccC-Cc---c--------------cccCCCc
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDAR-GANVKVHVRWYYRPEESI-GG---R--------------RQFHGSK 81 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~-g~~~~v~v~Wfyrp~e~~-~~---~--------------~~~~~~~ 81 (163)
..|.++|.|.+..... .++.|+.|-.....++ .. ..+....+.|+++++ .+ . ..-...+
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 3889999999998874 5667777776666554 33 677888899999988 22 0 0124578
Q ss_pred eeEEeccc-cccccccEeeecEEEecccccccCC------CCCCeEEEeeeeecCCCccc
Q 031243 82 EVFLSDHH-DIQSADTIEGKCTVHSFKSYTKLDA------VGNDDFFCRFEYNSSSGAFN 134 (163)
Q Consensus 82 Elf~s~~~-d~~~~~~I~gkc~V~~~~~~~~~~~------~~~~~ffcr~~yd~~~~~f~ 134 (163)
|||.+... -.-+.++..+||.+....++..... .+.++||-..++.+-.+...
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 5578999999999997666543321 34678887788887776655
No 77
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=41.92 E-value=56 Score=21.08 Aligned_cols=28 Identities=29% Similarity=0.232 Sum_probs=20.3
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~ 50 (163)
.-++.||+|.|...+. ..--|.|...+.
T Consensus 42 iwI~~GD~VlVe~~~~--~~~kg~Iv~r~~ 69 (83)
T smart00652 42 VWIRRGDIVLVDPWDF--QDVKADIIYKYT 69 (83)
T ss_pred EEEcCCCEEEEEecCC--CCCEEEEEEEeC
Confidence 4689999999987653 256777776654
No 78
>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=41.91 E-value=22 Score=22.47 Aligned_cols=25 Identities=28% Similarity=0.389 Sum_probs=19.6
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeE
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIER 47 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~ 47 (163)
.|+.||.|||.=.++ .-+.|+.|++
T Consensus 5 ~~~~GD~VyViYrNP-Ht~~VanIqe 29 (75)
T PF11132_consen 5 PYHAGDIVYVIYRNP-HTQDVANIQE 29 (75)
T ss_pred ccCCCCEEEEEEcCC-CCccccccch
Confidence 789999999998774 4566777764
No 79
>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=40.92 E-value=54 Score=20.80 Aligned_cols=28 Identities=29% Similarity=0.190 Sum_probs=20.2
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~ 50 (163)
..++.||+|.|...+. ..--|.|...+.
T Consensus 37 iwI~~GD~V~Ve~~~~--d~~kg~Iv~r~~ 64 (77)
T cd05793 37 VWINEGDIVLVAPWDF--QDDKADIIYKYT 64 (77)
T ss_pred EEEcCCCEEEEEeccc--cCCEEEEEEEcC
Confidence 4779999999987663 455777776654
No 80
>COG1935 Uncharacterized conserved protein [Function unknown]
Probab=40.18 E-value=63 Score=22.40 Aligned_cols=42 Identities=21% Similarity=0.464 Sum_probs=27.3
Q ss_pred ceeeeeEEEccCC-----cEEccCCEEEEecCCC-----CCCCeEEEEeEEE
Q 031243 8 RRTLESYTVKSIS-----KTIKPGDCVLMRPSEP-----SKPSYVAKIERIE 49 (163)
Q Consensus 8 ~~~y~~~~~~g~~-----~~~~vGD~V~v~~~~~-----~~~~~i~~I~~i~ 49 (163)
|.+|+-+++.... +..+.||.|++.+... ...-.||+|..+.
T Consensus 19 ~~~~rTieiRsa~N~~tv~rl~~GDlVFlT~~~~~Dl~~GtsGiiAkV~~ve 70 (122)
T COG1935 19 RNPIRTIEIRSARNLLTVLRLHEGDLVFLTSTSLEDLTKGTSGIIAKVRRVE 70 (122)
T ss_pred hCCceEEEEEcccchHHhhcCCCCCEEEEehhHhhHhhcCcceeEEEEEEEE
Confidence 3456666665321 4679999999999752 2345677776654
No 81
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=39.03 E-value=20 Score=30.72 Aligned_cols=27 Identities=33% Similarity=0.914 Sum_probs=23.4
Q ss_pred CCceEEeeCCCCCCCcceeeCCCCCCC
Q 031243 137 RVAVYCKCEMPYNPDDLMVQCEGCSDW 163 (163)
Q Consensus 137 ~~~~~C~C~~~~npd~~~~~C~~C~~w 163 (163)
.....|.|..-..+|..+++|+-|..|
T Consensus 84 ~~~~~c~c~~~~~~~g~~i~c~~c~~W 110 (508)
T KOG1844|consen 84 REISRCDCGLEDDMEGLMIQCDWCGRW 110 (508)
T ss_pred CcccccccccccCCCceeeCCcccCcc
Confidence 566889998886678899999999998
No 82
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated
Probab=38.68 E-value=72 Score=22.23 Aligned_cols=30 Identities=13% Similarity=0.204 Sum_probs=24.4
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
..++.||-|.|.++. +.--.|+|.++....
T Consensus 44 ~~IkkGD~V~VisG~--~KGk~GkV~~V~~~~ 73 (120)
T PRK01191 44 LPVRKGDTVKVMRGD--FKGEEGKVVEVDLKR 73 (120)
T ss_pred ceEeCCCEEEEeecC--CCCceEEEEEEEcCC
Confidence 378999999999987 345579999997653
No 83
>PF05207 zf-CSL: CSL zinc finger; InterPro: IPR007872 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 a probable zinc binding motif that contains four cysteines and may chelate zinc, known as the DPH-type after the diphthamide (DPH) biosynthesis protein in which it was first characterised, including the proteins DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ IPR001623 from INTERPRO domain. Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death []. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the conserved motif of the final cysteine) zinc finger [, ]. The function of this motif is unknown. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2L6L_A 1WGE_A 2JR7_A 1YOP_A 1YWS_A.
Probab=38.54 E-value=11 Score=22.36 Aligned_cols=25 Identities=36% Similarity=1.060 Sum_probs=14.8
Q ss_pred ceEEeeCCCCC---CC----cceeeCCCCCCC
Q 031243 139 AVYCKCEMPYN---PD----DLMVQCEGCSDW 163 (163)
Q Consensus 139 ~~~C~C~~~~n---pd----~~~~~C~~C~~w 163 (163)
...|.|...+. -+ ..+++|++|.-|
T Consensus 18 ~y~CRCG~~f~i~e~~l~~~~~iv~C~sCSL~ 49 (55)
T PF05207_consen 18 SYPCRCGGEFEISEEDLEEGEVIVQCDSCSLW 49 (55)
T ss_dssp EEEETTSSEEEEEHHHHHCT--EEEETTTTEE
T ss_pred EEcCCCCCEEEEcchhccCcCEEEECCCCccE
Confidence 35666654432 11 488999999865
No 84
>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=38.05 E-value=1.4e+02 Score=21.33 Aligned_cols=47 Identities=23% Similarity=0.165 Sum_probs=27.7
Q ss_pred cEEccCCEEEEecCCC--CCCCeEEEEeEEEecCCCCeEEEEEEEeecc
Q 031243 21 KTIKPGDCVLMRPSEP--SKPSYVAKIERIESDARGANVKVHVRWYYRP 67 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~--~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp 67 (163)
..++.||.|+-...+. +....||+|.++..+.++....+.+.=+...
T Consensus 92 ~~i~~GD~V~TSG~~~~fP~Gi~VG~V~~v~~~~~~~~~~~~v~p~~d~ 140 (152)
T PF04085_consen 92 ADIKKGDIVVTSGLGGIFPPGIPVGTVSSVEPDKSGLFKEVYVKPAVDF 140 (152)
T ss_dssp S---TT-EEEEE-TTSSS-CCEEEEEEEEEECTTTCCCEEEEEEESS--
T ss_pred CCCCCCCEEEECCCCCcCCCCCEEEEEEEEEeCCCCcEEEEEEEECCCc
Confidence 4889999998765442 2346799999999887654356666554443
No 85
>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=38.02 E-value=44 Score=21.80 Aligned_cols=24 Identities=38% Similarity=0.428 Sum_probs=18.3
Q ss_pred EccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 23 IKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 23 ~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
|++||.|.=...+ ||+|..|....
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 6899999887777 99999997754
No 86
>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=37.02 E-value=76 Score=20.19 Aligned_cols=29 Identities=28% Similarity=0.273 Sum_probs=20.2
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~ 50 (163)
.-++.||+|.|.+.+. +..--|.|...+.
T Consensus 37 iwI~~GD~VlV~~~~~-~~~~kg~Iv~r~~ 65 (78)
T cd04456 37 IWIKRGDFLIVDPIEE-GEDVKADIIFVYC 65 (78)
T ss_pred EEEcCCCEEEEEeccc-CCCceEEEEEEeC
Confidence 4789999999987662 2355667766554
No 87
>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=36.84 E-value=43 Score=20.35 Aligned_cols=25 Identities=36% Similarity=0.349 Sum_probs=16.2
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeE
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIER 47 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~ 47 (163)
.-++.||+|.|...+. ..--|.|..
T Consensus 40 iwI~~GD~V~V~~~~~--d~~kG~Ii~ 64 (65)
T PF01176_consen 40 IWIKRGDFVLVEPSPY--DKVKGRIIY 64 (65)
T ss_dssp C---TTEEEEEEESTT--CTTEEEEEE
T ss_pred EecCCCCEEEEEeccc--CCCeEEEEE
Confidence 3679999999998763 266777753
No 88
>PRK12496 hypothetical protein; Provisional
Probab=34.84 E-value=23 Score=25.92 Aligned_cols=26 Identities=31% Similarity=0.506 Sum_probs=20.2
Q ss_pred CCCceEEe-eCCCCCCCcceeeCCCCC
Q 031243 136 DRVAVYCK-CEMPYNPDDLMVQCEGCS 161 (163)
Q Consensus 136 ~~~~~~C~-C~~~~npd~~~~~C~~C~ 161 (163)
..|...|. |.+.++-+...-+|+.|+
T Consensus 124 ~~w~~~C~gC~~~~~~~~~~~~C~~CG 150 (164)
T PRK12496 124 IKWRKVCKGCKKKYPEDYPDDVCEICG 150 (164)
T ss_pred eeeeEECCCCCccccCCCCCCcCCCCC
Confidence 46888899 998887555556899997
No 89
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=34.38 E-value=37 Score=21.44 Aligned_cols=37 Identities=16% Similarity=0.347 Sum_probs=23.1
Q ss_pred eEEEccCCcEEccCCEEEEecCCCC---CCCeEEEEeEEE
Q 031243 13 SYTVKSISKTIKPGDCVLMRPSEPS---KPSYVAKIERIE 49 (163)
Q Consensus 13 ~~~~~g~~~~~~vGD~V~v~~~~~~---~~~~i~~I~~i~ 49 (163)
.|++..++..|++||.+.+.-=++. .....++|..|.
T Consensus 19 tfEiRkNDRdf~VGD~L~L~E~~~~~YTGr~~~~~Ityi~ 58 (72)
T PF12961_consen 19 TFEIRKNDRDFQVGDILVLREWDNGEYTGREIEAEITYIT 58 (72)
T ss_pred eEEEEecCCCCCCCCEEEEEEecCCCccccEEEEEEEEEe
Confidence 4566666679999999998764421 122345555554
No 90
>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=33.95 E-value=75 Score=23.37 Aligned_cols=43 Identities=23% Similarity=0.224 Sum_probs=30.3
Q ss_pred eEEEccCCcEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEE
Q 031243 13 SYTVKSISKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKV 59 (163)
Q Consensus 13 ~~~~~g~~~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v 59 (163)
++.++.....++.||-|...-+. ..+.||.|.+-... +|. .++
T Consensus 97 ~L~~~~~~~~~q~GDIVtw~l~~--~~~HIgIVSd~r~~-~G~-p~v 139 (164)
T PF06940_consen 97 SLTTDINPEDWQPGDIVTWRLPG--GLPHIGIVSDRRSK-DGV-PLV 139 (164)
T ss_pred eccCCCChhhcCCCCEEEEeCCC--CCCeEEEEeCCcCC-CCC-EEE
Confidence 34444444699999999998766 47999999987653 565 443
No 91
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=33.21 E-value=2.2e+02 Score=22.30 Aligned_cols=47 Identities=26% Similarity=0.153 Sum_probs=32.2
Q ss_pred cEEccCCEEEEecCCC--CCCCeEEEEeEEEecCCCCeEEEEEEEeecc
Q 031243 21 KTIKPGDCVLMRPSEP--SKPSYVAKIERIESDARGANVKVHVRWYYRP 67 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~--~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp 67 (163)
..+++||-|.-...+. +....||+|.++..+.++....+.+.=+..+
T Consensus 213 ~~i~~GD~VvTSGl~g~fP~Gi~VG~V~~v~~~~~~~~~~~~v~p~~d~ 261 (276)
T PRK13922 213 ADIKVGDLVVTSGLGGIFPAGLPVGKVTSVERDDYGLFKTVYVKPAADL 261 (276)
T ss_pred CCCCCCCEEEECCCCCcCCCCCEEEEEEEEEeCCCCCeeEEEEEECccc
Confidence 4689999988777652 3456899999997766553355666554443
No 92
>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=32.12 E-value=81 Score=23.83 Aligned_cols=23 Identities=17% Similarity=0.352 Sum_probs=13.3
Q ss_pred EEEccCCcEEccCCEEEEecCCC
Q 031243 14 YTVKSISKTIKPGDCVLMRPSEP 36 (163)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~~ 36 (163)
+.+.+.+..|++||.+.|.+.++
T Consensus 33 ldl~~~~l~Y~pGD~l~V~P~N~ 55 (219)
T PF00667_consen 33 LDLSDSGLSYQPGDHLGVYPPND 55 (219)
T ss_dssp EE-TTSTG---TT-EEEEE-SSE
T ss_pred EEeCCCCCcccCCCEEEEEccCC
Confidence 34456678999999999999983
No 93
>PRK02935 hypothetical protein; Provisional
Probab=32.08 E-value=26 Score=23.84 Aligned_cols=10 Identities=30% Similarity=0.863 Sum_probs=8.2
Q ss_pred ceeeCCCCCC
Q 031243 153 LMVQCEGCSD 162 (163)
Q Consensus 153 ~~~~C~~C~~ 162 (163)
..++|++|+|
T Consensus 69 vqV~CP~C~K 78 (110)
T PRK02935 69 VQVICPSCEK 78 (110)
T ss_pred eeeECCCCCc
Confidence 4679999987
No 94
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=31.95 E-value=46 Score=22.94 Aligned_cols=23 Identities=26% Similarity=0.446 Sum_probs=17.7
Q ss_pred EEEccCCcEEccCCEEEEecCCC
Q 031243 14 YTVKSISKTIKPGDCVLMRPSEP 36 (163)
Q Consensus 14 ~~~~g~~~~~~vGD~V~v~~~~~ 36 (163)
+.++|..+.++.||+++|.+...
T Consensus 70 v~~~~~~~~v~~gd~~~iP~g~~ 92 (127)
T COG0662 70 VTIGGEEVEVKAGDSVYIPAGTP 92 (127)
T ss_pred EEECCEEEEecCCCEEEECCCCc
Confidence 35556567889999999998863
No 95
>PF08921 DUF1904: Domain of unknown function (DUF1904); InterPro: IPR015017 This entry represents a family of hypothetical bacterial proteins. ; PDB: 1U9D_B.
Probab=31.85 E-value=19 Score=24.52 Aligned_cols=16 Identities=31% Similarity=0.459 Sum_probs=10.7
Q ss_pred EEEEEEEeecccccCC
Q 031243 57 VKVHVRWYYRPEESIG 72 (163)
Q Consensus 57 ~~v~v~Wfyrp~e~~~ 72 (163)
++|.|.||-|+.|+..
T Consensus 56 pfVEV~WF~R~qe~qd 71 (108)
T PF08921_consen 56 PFVEVLWFDRGQEVQD 71 (108)
T ss_dssp -EEEEEES---HHHHH
T ss_pred eeEEEEEecCCHHHHH
Confidence 6899999999999874
No 96
>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=31.67 E-value=64 Score=19.14 Aligned_cols=25 Identities=28% Similarity=0.298 Sum_probs=16.6
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~ 50 (163)
...+||.|.+...+. + -+.|.++.+
T Consensus 37 ~~~VGD~V~~~~~~~-~---~~~I~~vl~ 61 (68)
T cd04466 37 PPAVGDRVEFEPEDD-G---EGVIEEILP 61 (68)
T ss_pred CCCCCcEEEEEECCC-C---cEEEEEEec
Confidence 358999999976442 2 256766664
No 97
>PF09345 DUF1987: Domain of unknown function (DUF1987); InterPro: IPR018530 This family of proteins are functionally uncharacterised.
Probab=31.60 E-value=36 Score=22.78 Aligned_cols=15 Identities=40% Similarity=0.833 Sum_probs=12.4
Q ss_pred EEEEEEEeecccccC
Q 031243 57 VKVHVRWYYRPEESI 71 (163)
Q Consensus 57 ~~v~v~Wfyrp~e~~ 71 (163)
..|+|.|||.++|..
T Consensus 77 ~~V~v~Wyyd~dD~~ 91 (99)
T PF09345_consen 77 GKVTVNWYYDEDDED 91 (99)
T ss_pred CcEEEEEEECCCCch
Confidence 579999999988743
No 98
>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=30.86 E-value=1.4e+02 Score=18.71 Aligned_cols=25 Identities=32% Similarity=0.594 Sum_probs=19.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~ 51 (163)
.+++||.|++.|.+ . .++|.+|...
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 88999999999876 2 4777777643
No 99
>PRK00420 hypothetical protein; Validated
Probab=30.07 E-value=31 Score=23.77 Aligned_cols=23 Identities=26% Similarity=0.456 Sum_probs=16.9
Q ss_pred eEE-eeCCCCCC-CcceeeCCCCCC
Q 031243 140 VYC-KCEMPYNP-DDLMVQCEGCSD 162 (163)
Q Consensus 140 ~~C-~C~~~~np-d~~~~~C~~C~~ 162 (163)
.+| .|..|.-- -...++|++|+.
T Consensus 24 ~~CP~Cg~pLf~lk~g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFELKDGEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceecCCCceECCCCCC
Confidence 466 78877653 457899999974
No 100
>COG4101 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=29.94 E-value=1.4e+02 Score=20.97 Aligned_cols=40 Identities=25% Similarity=0.327 Sum_probs=23.9
Q ss_pred EEccCCEEEEecCCC------CCCCeEEEEeEEEecCCCCeEEEEEEE
Q 031243 22 TIKPGDCVLMRPSEP------SKPSYVAKIERIESDARGANVKVHVRW 63 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~------~~~~~i~~I~~i~~~~~g~~~~v~v~W 63 (163)
+...||+.||.+.-+ +..+..+.|.+- |.++++.-+.+.|
T Consensus 91 ~~~pGDf~YiPpgVPHqp~N~S~ep~s~vIaRs--Dp~~~Esv~~lpe 136 (142)
T COG4101 91 EVGPGDFFYIPPGVPHQPANLSTEPLSAVIARS--DPNPQESVQLLPE 136 (142)
T ss_pred EecCCCeEEcCCCCCCcccccCCCCeEEEEEcc--CCCCCcCcEEecc
Confidence 568899999988764 244556655433 4444433444444
No 101
>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=29.42 E-value=1.3e+02 Score=18.60 Aligned_cols=11 Identities=45% Similarity=0.920 Sum_probs=5.6
Q ss_pred EccCCEEEEec
Q 031243 23 IKPGDCVLMRP 33 (163)
Q Consensus 23 ~~vGD~V~v~~ 33 (163)
+..||.|++.+
T Consensus 14 i~~gd~v~v~~ 24 (85)
T cd06530 14 LQPGDLVLVNK 24 (85)
T ss_pred ccCCCEEEEEE
Confidence 44555555544
No 102
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=29.20 E-value=1e+02 Score=20.64 Aligned_cols=28 Identities=25% Similarity=0.235 Sum_probs=18.3
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~ 50 (163)
..+..||+|.|...+. + .--|.|...+.
T Consensus 58 IwI~~GD~VlVe~~~~-~-~~kg~Iv~r~~ 85 (100)
T PRK04012 58 MWIREGDVVIVAPWDF-Q-DEKADIIWRYT 85 (100)
T ss_pred EEecCCCEEEEEeccc-C-CCEEEEEEEcC
Confidence 3678888888887653 2 44666666553
No 103
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=28.73 E-value=53 Score=21.82 Aligned_cols=15 Identities=33% Similarity=0.397 Sum_probs=12.5
Q ss_pred EEccCCEEEEecCCC
Q 031243 22 TIKPGDCVLMRPSEP 36 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~ 36 (163)
.+++||.|.+.+...
T Consensus 76 ~Lk~GD~V~ll~~~~ 90 (100)
T PF10844_consen 76 GLKVGDKVLLLRVQG 90 (100)
T ss_pred CCcCCCEEEEEEecC
Confidence 569999999999653
No 104
>PRK03187 tgl transglutaminase; Provisional
Probab=28.44 E-value=42 Score=26.70 Aligned_cols=19 Identities=32% Similarity=0.632 Sum_probs=15.6
Q ss_pred EEccCCcEEccCCEEEEecCC
Q 031243 15 TVKSISKTIKPGDCVLMRPSE 35 (163)
Q Consensus 15 ~~~g~~~~~~vGD~V~v~~~~ 35 (163)
+..|. .+-+||+||+++++
T Consensus 160 t~~g~--~~~PGD~vYFkNPd 178 (272)
T PRK03187 160 TKTGG--DFLPGDCVYFKNPD 178 (272)
T ss_pred EecCC--CCCCCcEEEecCCC
Confidence 34555 89999999999987
No 105
>COG0250 NusG Transcription antiterminator [Transcription]
Probab=27.89 E-value=1.7e+02 Score=21.68 Aligned_cols=46 Identities=28% Similarity=0.507 Sum_probs=35.4
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeeccccc
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEES 70 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~ 70 (163)
..+.+||.|-|.++. -..+.|+|+++..++ +. ..+.+.-|-|+..+
T Consensus 122 ~~~e~Gd~VrI~~Gp--Fa~f~g~V~evd~ek-~~-~~v~v~ifgr~tPV 167 (178)
T COG0250 122 VDFEPGDVVRIIDGP--FAGFKAKVEEVDEEK-GK-LKVEVSIFGRPTPV 167 (178)
T ss_pred ccCCCCCEEEEeccC--CCCccEEEEEEcCcC-cE-EEEEEEEeCCceEE
Confidence 478999999999887 356899999998764 33 67777777776543
No 106
>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=27.80 E-value=28 Score=17.22 Aligned_cols=9 Identities=44% Similarity=0.925 Sum_probs=6.8
Q ss_pred eeeCCCCCC
Q 031243 154 MVQCEGCSD 162 (163)
Q Consensus 154 ~~~C~~C~~ 162 (163)
++.|+.|++
T Consensus 1 ~v~CPiC~~ 9 (26)
T smart00734 1 LVQCPVCFR 9 (26)
T ss_pred CCcCCCCcC
Confidence 467999875
No 107
>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=27.74 E-value=93 Score=23.90 Aligned_cols=28 Identities=21% Similarity=0.498 Sum_probs=15.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~ 50 (163)
.+++||+|++...+ .......+|.+|..
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 67999999994444 24566777777754
No 108
>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=27.59 E-value=59 Score=19.14 Aligned_cols=20 Identities=30% Similarity=0.597 Sum_probs=13.7
Q ss_pred EccCCcEEccCCEEEEecCC
Q 031243 16 VKSISKTIKPGDCVLMRPSE 35 (163)
Q Consensus 16 ~~g~~~~~~vGD~V~v~~~~ 35 (163)
++|....++.||.+++.+..
T Consensus 34 ~~~~~~~l~~Gd~~~i~~~~ 53 (71)
T PF07883_consen 34 VDGERVELKPGDAIYIPPGV 53 (71)
T ss_dssp ETTEEEEEETTEEEEEETTS
T ss_pred EccEEeEccCCEEEEECCCC
Confidence 45554567888888887765
No 109
>COG1329 Transcriptional regulators, similar to M. xanthus CarD [Transcription]
Probab=27.48 E-value=81 Score=23.26 Aligned_cols=35 Identities=29% Similarity=0.363 Sum_probs=24.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC-CCCeEEEEEE
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA-RGANVKVHVR 62 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~-~g~~~~v~v~ 62 (163)
.+++||.|.-...+ +|.|+.|.+.. .|...+.-|.
T Consensus 4 ~Fk~Gd~VVYP~HG------vG~I~~Ieeke~~Ge~~~yyVI 39 (166)
T COG1329 4 AFKIGDHVVYPAHG------VGIIQAIEEKEIAGETLEYYVI 39 (166)
T ss_pred cccCCCEEEecCCC------ceeeehhhhHhhcCceeEEEEE
Confidence 67999999888777 89999997753 4432333333
No 110
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=27.48 E-value=2e+02 Score=20.60 Aligned_cols=43 Identities=21% Similarity=0.192 Sum_probs=32.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeeccccc
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEES 70 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~ 70 (163)
.+.+||.|.|..+. -.-+.|+|.++.... ..+++..+-+.-.+
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 58999999999876 467799999997542 34888887766553
No 111
>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=27.18 E-value=1.8e+02 Score=19.25 Aligned_cols=27 Identities=22% Similarity=0.458 Sum_probs=21.2
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~ 50 (163)
.+++||.+.|...+ .+..+.+|.++..
T Consensus 30 ~~k~Gd~~i~~~~~--~~~~~i~v~~V~~ 56 (105)
T cd06541 30 LPKAGDYLIILDGQ--QPLAIAEVVKVEI 56 (105)
T ss_pred CCCCCCEEEEecCC--CcEEEEEEEEEEE
Confidence 78999999998776 4556778877765
No 112
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=27.05 E-value=9.5 Score=26.09 Aligned_cols=26 Identities=23% Similarity=0.775 Sum_probs=17.9
Q ss_pred CCceEE-eeCCCCCCCcceeeCCCCCC
Q 031243 137 RVAVYC-KCEMPYNPDDLMVQCEGCSD 162 (163)
Q Consensus 137 ~~~~~C-~C~~~~npd~~~~~C~~C~~ 162 (163)
.....| .|...+.|+.....|+.|+.
T Consensus 68 p~~~~C~~Cg~~~~~~~~~~~CP~Cgs 94 (113)
T PF01155_consen 68 PARARCRDCGHEFEPDEFDFSCPRCGS 94 (113)
T ss_dssp --EEEETTTS-EEECHHCCHH-SSSSS
T ss_pred CCcEECCCCCCEEecCCCCCCCcCCcC
Confidence 344577 78888888888888999975
No 113
>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=26.96 E-value=3e+02 Score=21.90 Aligned_cols=48 Identities=15% Similarity=0.142 Sum_probs=32.7
Q ss_pred cEEccCCEEEEecCCC--CCCCeEEEEeEEEecCCCCeEEEEEEEeeccc
Q 031243 21 KTIKPGDCVLMRPSEP--SKPSYVAKIERIESDARGANVKVHVRWYYRPE 68 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~--~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~ 68 (163)
..++.||-|.-...+. +....||+|.++..+.++....+.+.=+....
T Consensus 214 ~~v~~GD~VvTSGlgg~fP~Gl~VG~V~~v~~~~~~~~~~v~v~P~ad~~ 263 (283)
T TIGR00219 214 KDIKKGDLIVTSGLGGRFPEGYPIGVVTSVHIDSYNSLLVIEVKPAAVLD 263 (283)
T ss_pred CCCCCCCEEEECCCCCcCCCCCEEEEEEEEEeCCCCceEEEEEEECCCcc
Confidence 3789999887776552 34568999999998766543456655544433
No 114
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=26.72 E-value=57 Score=28.50 Aligned_cols=27 Identities=26% Similarity=0.732 Sum_probs=20.2
Q ss_pred CCCCceEEeeCCCCCCCc-ceeeCCCCC
Q 031243 135 PDRVAVYCKCEMPYNPDD-LMVQCEGCS 161 (163)
Q Consensus 135 p~~~~~~C~C~~~~npd~-~~~~C~~C~ 161 (163)
|.+|..-|+|.--.--|- .++||++|+
T Consensus 116 pkk~~iCcVClg~rs~da~ei~qCd~CG 143 (707)
T KOG0957|consen 116 PKKAVICCVCLGQRSVDAGEILQCDKCG 143 (707)
T ss_pred cccceEEEEeecCccccccceeeccccC
Confidence 557888999976543333 899999996
No 115
>PTZ00194 60S ribosomal protein L26; Provisional
Probab=26.55 E-value=1.3e+02 Score=21.60 Aligned_cols=28 Identities=11% Similarity=0.176 Sum_probs=23.2
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~ 51 (163)
.++.||.|.|.++.. .--.|.|.++...
T Consensus 46 ~IkkGD~V~Vi~Gk~--KGk~GkV~~V~~k 73 (143)
T PTZ00194 46 PVRKDDEVMVVRGHH--KGREGKVTAVYRK 73 (143)
T ss_pred eeecCCEEEEecCCC--CCCceEEEEEEcC
Confidence 789999999999883 4456999999765
No 116
>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=26.51 E-value=1.8e+02 Score=23.08 Aligned_cols=44 Identities=18% Similarity=0.277 Sum_probs=34.5
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccc
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEE 69 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e 69 (163)
.+.+||.|.|..+. -.-+.|.|.++..+ .+. ..+.+..|-|..-
T Consensus 205 ~f~vGd~VrI~dGP--F~GfeG~I~eid~~-k~R-v~VlV~IfGR~Tp 248 (258)
T TIGR01956 205 KFRVGNFVKIVDGP--FKGIVGKIKKIDQE-KKK-AIVEVEILGKSVD 248 (258)
T ss_pred CCCCCCEEEEEecC--CCCcEEEEEEEeCC-CCE-EEEEEEecCCcEE
Confidence 47899999999887 46789999999753 233 7888888877653
No 117
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=25.88 E-value=81 Score=21.50 Aligned_cols=21 Identities=24% Similarity=0.558 Sum_probs=16.9
Q ss_pred EEccCCcEEccCCEEEEecCC
Q 031243 15 TVKSISKTIKPGDCVLMRPSE 35 (163)
Q Consensus 15 ~~~g~~~~~~vGD~V~v~~~~ 35 (163)
+++|...+++.||.+++.+..
T Consensus 78 ~~~g~~~~l~~Gd~i~ip~g~ 98 (131)
T COG1917 78 QLEGEKKELKAGDVIIIPPGV 98 (131)
T ss_pred EecCCceEecCCCEEEECCCC
Confidence 445666789999999999965
No 118
>COG4127 Uncharacterized conserved protein [Function unknown]
Probab=25.82 E-value=49 Score=26.65 Aligned_cols=42 Identities=19% Similarity=0.317 Sum_probs=30.0
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecC---C-CCeEEEEEEEe
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDA---R-GANVKVHVRWY 64 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~---~-g~~~~v~v~Wf 64 (163)
+++.||.|.+.+... ..++||+|.+=++-. . |-.....|.|+
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 679999999999873 689999999766531 1 11134667786
No 119
>COG3450 Predicted enzyme of the cupin superfamily [General function prediction only]
Probab=25.52 E-value=60 Score=22.47 Aligned_cols=18 Identities=11% Similarity=0.246 Sum_probs=14.0
Q ss_pred cCCcEEccCCEEEEecCC
Q 031243 18 SISKTIKPGDCVLMRPSE 35 (163)
Q Consensus 18 g~~~~~~vGD~V~v~~~~ 35 (163)
|+...|+.||.+++.+.-
T Consensus 81 Ge~v~~~aGD~~~~~~G~ 98 (116)
T COG3450 81 GEPVEVRAGDSFVFPAGF 98 (116)
T ss_pred CeEEEEcCCCEEEECCCC
Confidence 444688999999998775
No 120
>PRK00276 infA translation initiation factor IF-1; Validated
Probab=25.52 E-value=1.6e+02 Score=18.15 Aligned_cols=11 Identities=45% Similarity=0.601 Sum_probs=6.8
Q ss_pred EccCCEEEEec
Q 031243 23 IKPGDCVLMRP 33 (163)
Q Consensus 23 ~~vGD~V~v~~ 33 (163)
+.+||.|.+..
T Consensus 47 i~vGD~V~ve~ 57 (72)
T PRK00276 47 ILPGDKVTVEL 57 (72)
T ss_pred cCCCCEEEEEE
Confidence 45666666663
No 121
>PHA03283 envelope glycoprotein E; Provisional
Probab=25.16 E-value=2.1e+02 Score=25.12 Aligned_cols=39 Identities=23% Similarity=0.415 Sum_probs=23.7
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccCC
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIG 72 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~~ 72 (163)
..|++||.+-+. |-.+..++ +.. ..+.+.|||-|-+-..
T Consensus 202 ~vf~~GDtf~ls---------i~l~s~~~---d~~-fs~~i~Wyy~p~~~~C 240 (542)
T PHA03283 202 RVYSPGDSFDLS---------VHLESDIG---DPS-FSATIDWYYMNTSSSC 240 (542)
T ss_pred EEecCCCceeEe---------EEEeeccC---CCC-ceEEEEEEEecCCCCC
Confidence 388888887772 22222332 233 6788888888876543
No 122
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=24.75 E-value=38 Score=16.47 Aligned_cols=9 Identities=33% Similarity=0.892 Sum_probs=7.3
Q ss_pred eeeCCCCCC
Q 031243 154 MVQCEGCSD 162 (163)
Q Consensus 154 ~~~C~~C~~ 162 (163)
+++|+.|+.
T Consensus 2 l~~C~~CgR 10 (25)
T PF13913_consen 2 LVPCPICGR 10 (25)
T ss_pred CCcCCCCCC
Confidence 678999975
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=24.73 E-value=42 Score=23.13 Aligned_cols=10 Identities=30% Similarity=0.989 Sum_probs=8.3
Q ss_pred ceeeCCCCCC
Q 031243 153 LMVQCEGCSD 162 (163)
Q Consensus 153 ~~~~C~~C~~ 162 (163)
..+.|++|+|
T Consensus 68 v~V~CP~C~K 77 (114)
T PF11023_consen 68 VQVECPNCGK 77 (114)
T ss_pred eeeECCCCCC
Confidence 5788999987
No 124
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, 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.
Probab=24.49 E-value=2.4e+02 Score=19.24 Aligned_cols=28 Identities=25% Similarity=0.386 Sum_probs=20.4
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEe
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIES 50 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~ 50 (163)
.+++||.+.+..-+. .....++|.+|..
T Consensus 31 ~ikvGD~I~f~~~~~-~~~l~v~V~~i~~ 58 (109)
T cd06555 31 QIKVGDKILFNDLDT-GQQLLVKVVDIRK 58 (109)
T ss_pred cCCCCCEEEEEEcCC-CcEEEEEEEEEEe
Confidence 689999999987652 3456667777765
No 125
>PRK04980 hypothetical protein; Provisional
Probab=24.32 E-value=1.5e+02 Score=20.05 Aligned_cols=24 Identities=33% Similarity=0.535 Sum_probs=16.0
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEe
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIE 46 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~ 46 (163)
-.+++||.|.|...+. ..++|.|+
T Consensus 30 ~~~~~G~~~~V~~~e~--g~~~c~ie 53 (102)
T PRK04980 30 SHFKPGDVLRVGTFED--DRYFCTIE 53 (102)
T ss_pred cCCCCCCEEEEEECCC--CcEEEEEE
Confidence 3689999999975542 35555444
No 126
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=24.15 E-value=50 Score=19.29 Aligned_cols=11 Identities=36% Similarity=0.854 Sum_probs=8.8
Q ss_pred cceeeCCCCCC
Q 031243 152 DLMVQCEGCSD 162 (163)
Q Consensus 152 ~~~~~C~~C~~ 162 (163)
...++|++|+.
T Consensus 44 ~~i~~Cp~CgR 54 (56)
T PF02591_consen 44 DEIVFCPNCGR 54 (56)
T ss_pred CCeEECcCCCc
Confidence 46889999975
No 127
>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=24.06 E-value=2.2e+02 Score=20.46 Aligned_cols=28 Identities=25% Similarity=0.450 Sum_probs=19.1
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEE
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIE 49 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~ 49 (163)
.++.||.|.+.++......+|-||..+-
T Consensus 51 ~~~rGDiVvf~~~~~~~~~~iKRVig~p 78 (163)
T TIGR02227 51 DPKRGDIVVFKDPDDNKNIYVKRVIGLP 78 (163)
T ss_pred CCCCCcEEEEecCCCCCceeEEEEEecC
Confidence 5677888888765433556777777663
No 128
>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=24.00 E-value=2e+02 Score=18.21 Aligned_cols=29 Identities=21% Similarity=0.409 Sum_probs=22.2
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~ 51 (163)
.+++||.|++.|... .....++|.+|...
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 889999999999751 12357888888754
No 129
>COG0198 RplX Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]
Probab=23.80 E-value=1.4e+02 Score=20.27 Aligned_cols=28 Identities=18% Similarity=0.278 Sum_probs=21.8
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~ 51 (163)
.++.||.|+|.+.. +.---|+|.++...
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 57899999999987 34557888777654
No 130
>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=23.71 E-value=1.3e+02 Score=19.69 Aligned_cols=38 Identities=16% Similarity=0.045 Sum_probs=26.2
Q ss_pred ccCCEEEEecCCCCCCCeEEEEeEEEecC-------CCCeEEEEEEEe
Q 031243 24 KPGDCVLMRPSEPSKPSYVAKIERIESDA-------RGANVKVHVRWY 64 (163)
Q Consensus 24 ~vGD~V~v~~~~~~~~~~i~~I~~i~~~~-------~g~~~~v~v~Wf 64 (163)
.+||.|..+-.+ -+.|-|+|.+-.... ... -.+.|++|
T Consensus 2 ~~GdlVWaK~~g--~pwWPa~V~~~~~~p~~~~~~~~~~-~~~~V~Ff 46 (95)
T cd05838 2 LYGDIVWAKLGN--FRWWPAIICDPREVPPNIQVLRHCI-GEFCVMFF 46 (95)
T ss_pred CcCCEEEEECCC--CCCCCeEEcChhhcChhHhhccCCC-CeEEEEEe
Confidence 579999999887 579999998643211 111 35777777
No 131
>COG4946 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]
Probab=23.68 E-value=2.9e+02 Score=24.26 Aligned_cols=52 Identities=15% Similarity=0.161 Sum_probs=39.7
Q ss_pred CCCCceeeeeEEEccCCcEE--ccCCEEEEecCCCC----CCCeEEEEeEEEecCCCC
Q 031243 4 PKAPRRTLESYTVKSISKTI--KPGDCVLMRPSEPS----KPSYVAKIERIESDARGA 55 (163)
Q Consensus 4 ~~~~~~~y~~~~~~g~~~~~--~vGD~V~v~~~~~~----~~~~i~~I~~i~~~~~g~ 55 (163)
+++|+..|..+..++++.++ +-||.+-|..-+.. -..-+|.|+.+-.+.+|.
T Consensus 357 ~~~~~VrY~r~~~~~e~~vigt~dgD~l~iyd~~~~e~kr~e~~lg~I~av~vs~dGK 414 (668)
T COG4946 357 GKKGGVRYRRIQVDPEGDVIGTNDGDKLGIYDKDGGEVKRIEKDLGNIEAVKVSPDGK 414 (668)
T ss_pred CCCCceEEEEEccCCcceEEeccCCceEEEEecCCceEEEeeCCccceEEEEEcCCCc
Confidence 46788999999888876555 56788888876532 245689999999988875
No 132
>COG3269 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]
Probab=23.45 E-value=2e+02 Score=18.16 Aligned_cols=30 Identities=17% Similarity=0.238 Sum_probs=14.9
Q ss_pred CCCCCCceeeeeEE--EccCCcEEccCCEEEEecCC
Q 031243 2 AKPKAPRRTLESYT--VKSISKTIKPGDCVLMRPSE 35 (163)
Q Consensus 2 ~~~~~~~~~y~~~~--~~g~~~~~~vGD~V~v~~~~ 35 (163)
|+.+.|.....+|. +.|. .+||.|-|.-..
T Consensus 27 g~~GDGiarveGfvVFVp~a----~~Gd~V~vkI~~ 58 (73)
T COG3269 27 GDQGDGIARVEGFVVFVPGA----EVGDEVKVKITK 58 (73)
T ss_pred ccCCCceEEEEEEEEEeCCC----CCCCeeeEEEEE
Confidence 44555555555552 2232 555555555443
No 133
>CHL00010 infA translation initiation factor 1
Probab=23.37 E-value=2e+02 Score=18.09 Aligned_cols=11 Identities=45% Similarity=0.594 Sum_probs=7.4
Q ss_pred EccCCEEEEec
Q 031243 23 IKPGDCVLMRP 33 (163)
Q Consensus 23 ~~vGD~V~v~~ 33 (163)
+.+||.|.|.+
T Consensus 47 ~~vGD~V~ve~ 57 (78)
T CHL00010 47 ILPGDRVKVEL 57 (78)
T ss_pred cCCCCEEEEEE
Confidence 45677777774
No 134
>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=23.28 E-value=1.9e+02 Score=18.49 Aligned_cols=14 Identities=57% Similarity=0.764 Sum_probs=11.6
Q ss_pred EEccCCEEEEecCC
Q 031243 22 TIKPGDCVLMRPSE 35 (163)
Q Consensus 22 ~~~vGD~V~v~~~~ 35 (163)
-++-||+|.|.+-+
T Consensus 38 WIkrGd~VlV~p~~ 51 (78)
T cd05792 38 WIKRGDFVLVEPIE 51 (78)
T ss_pred EEEeCCEEEEEecc
Confidence 57899999998755
No 135
>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=23.19 E-value=2e+02 Score=19.83 Aligned_cols=28 Identities=14% Similarity=0.291 Sum_probs=23.3
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEec
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESD 51 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~ 51 (163)
.++.||-|.|.++. +.-..|.|.++...
T Consensus 41 ~IkkGD~V~Vi~Gk--~KGk~GkV~~V~~~ 68 (114)
T TIGR01080 41 PVRKGDKVRIMRGD--FKGHEGKVSKVDLK 68 (114)
T ss_pred eeecCCEEEEecCC--CCCCEEEEEEEEcC
Confidence 78999999999988 45568999999743
No 136
>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=23.03 E-value=2.7e+02 Score=19.43 Aligned_cols=44 Identities=20% Similarity=0.163 Sum_probs=31.7
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccC
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESI 71 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~ 71 (163)
.+..||.|.|.++. -.-+.|+|.++... . ..+.+...-+.-.|+
T Consensus 86 ~~~~Gd~V~I~~GP--f~G~~g~v~~~d~~---k-~~v~v~l~~~~~~~~ 129 (145)
T TIGR00405 86 SIKKGDIVEIISGP--FKGERAKVIRVDES---K-EEVTLELIEAAVPIP 129 (145)
T ss_pred ccCCCCEEEEeecC--CCCCeEEEEEEcCC---C-CEEEEEEEEcCccce
Confidence 58899999999876 56788999998642 1 356676666555533
No 137
>PRK12495 hypothetical protein; Provisional
Probab=21.37 E-value=66 Score=24.88 Aligned_cols=25 Identities=24% Similarity=0.515 Sum_probs=18.2
Q ss_pred CceEE-eeCCCCCCCcceeeCCCCCC
Q 031243 138 VAVYC-KCEMPYNPDDLMVQCEGCSD 162 (163)
Q Consensus 138 ~~~~C-~C~~~~npd~~~~~C~~C~~ 162 (163)
+..+| .|..|.---..-++|..|+.
T Consensus 41 sa~hC~~CG~PIpa~pG~~~Cp~CQ~ 66 (226)
T PRK12495 41 TNAHCDECGDPIFRHDGQEFCPTCQQ 66 (226)
T ss_pred chhhcccccCcccCCCCeeECCCCCC
Confidence 44677 78888653348889999986
No 138
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=21.34 E-value=46 Score=22.79 Aligned_cols=25 Identities=24% Similarity=0.650 Sum_probs=17.9
Q ss_pred CceEE-eeCCCCCCCcceeeCCCCCC
Q 031243 138 VAVYC-KCEMPYNPDDLMVQCEGCSD 162 (163)
Q Consensus 138 ~~~~C-~C~~~~npd~~~~~C~~C~~ 162 (163)
....| .|...+.++.....|++|+-
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~CP~Cgs 94 (115)
T TIGR00100 69 VECECEDCSEEVSPEIDLYRCPKCHG 94 (115)
T ss_pred cEEEcccCCCEEecCCcCccCcCCcC
Confidence 33566 37777778777778999974
No 139
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=20.58 E-value=44 Score=18.62 Aligned_cols=22 Identities=27% Similarity=0.685 Sum_probs=14.1
Q ss_pred eEE-eeCCCCCC-CcceeeCCCCC
Q 031243 140 VYC-KCEMPYNP-DDLMVQCEGCS 161 (163)
Q Consensus 140 ~~C-~C~~~~np-d~~~~~C~~C~ 161 (163)
.+| .|..|.=. ...-++|..|+
T Consensus 18 ~~Cp~C~~PL~~~k~g~~~Cv~C~ 41 (41)
T PF06677_consen 18 EHCPDCGTPLMRDKDGKIYCVSCG 41 (41)
T ss_pred CccCCCCCeeEEecCCCEECCCCC
Confidence 345 56666644 33678899885
No 140
>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=20.41 E-value=1.6e+02 Score=23.54 Aligned_cols=31 Identities=19% Similarity=0.306 Sum_probs=24.4
Q ss_pred cEEccCCEEEEecCCCCCCCeEEEEeEEEecC
Q 031243 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDA 52 (163)
Q Consensus 21 ~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~ 52 (163)
+.+.+||.|.|...+- ....-+||.++..+.
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 345568999887664
No 141
>COG1482 ManA Phosphomannose isomerase [Carbohydrate transport and metabolism]
Probab=20.39 E-value=1.3e+02 Score=24.48 Aligned_cols=46 Identities=13% Similarity=0.214 Sum_probs=32.5
Q ss_pred EEccCCEEEEecCCCCCCCeEEEEeEEEecCCCCeEEEEEEEeecccccC
Q 031243 22 TIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESI 71 (163)
Q Consensus 22 ~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~v~v~Wfyrp~e~~ 71 (163)
.++.||++||.++.. .-+-=|.|.++-+++|.. .|+--+-|..|..
T Consensus 161 ~lkpGe~~fl~Agt~-HA~~~G~~lEvmqnSDnt---yR~yd~~r~~d~~ 206 (312)
T COG1482 161 KLKPGEAFFLPAGTP-HAYLKGLVLEVMQNSDNT---YRVYDTDRYDDIG 206 (312)
T ss_pred ecCCCCEEEecCCCc-eeeccceEEEEEecCccE---EEcccccccccch
Confidence 789999999999884 345566899999887754 5555545544443
Done!