Query 037836
Match_columns 163
No_of_seqs 54 out of 56
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 04:50:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037836.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037836hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00631 G-gamma: GGL domain; 99.5 1.5E-14 3.2E-19 99.6 1.6 62 24-88 1-62 (68)
2 cd00068 GGL G protein gamma su 97.5 0.00023 4.9E-09 48.3 4.4 48 28-77 2-51 (57)
3 smart00224 GGL G protein gamma 96.4 0.005 1.1E-07 42.5 4.1 43 28-72 2-46 (63)
4 KOG4119 G protein gamma subuni 95.7 0.018 3.8E-07 41.9 4.2 52 24-77 6-59 (71)
5 PRK14011 prefoldin subunit alp 95.5 0.017 3.6E-07 45.9 3.8 54 21-74 6-59 (144)
6 PRK01203 prefoldin subunit alp 94.5 0.048 1E-06 43.2 3.6 54 21-74 3-58 (130)
7 TIGR00293 prefoldin, archaeal 93.5 0.1 2.2E-06 38.6 3.6 52 23-74 4-57 (126)
8 PRK03947 prefoldin subunit alp 92.2 0.23 4.9E-06 37.6 4.1 54 21-74 9-65 (140)
9 COG1730 GIM5 Predicted prefold 92.1 0.23 5E-06 39.8 4.1 54 21-74 9-65 (145)
10 PRK13922 rod shape-determining 90.9 0.11 2.4E-06 43.1 1.2 66 18-83 69-134 (276)
11 PF06305 DUF1049: Protein of u 90.0 0.49 1.1E-05 31.4 3.5 25 20-44 43-67 (68)
12 PF12325 TMF_TATA_bd: TATA ele 89.7 0.56 1.2E-05 36.4 4.1 41 12-52 10-50 (120)
13 cd00584 Prefoldin_alpha Prefol 88.6 0.74 1.6E-05 34.2 4.0 53 22-74 3-58 (129)
14 PF07716 bZIP_2: Basic region 86.8 1.3 2.7E-05 29.2 3.8 28 18-45 18-45 (54)
15 PF10458 Val_tRNA-synt_C: Valy 86.0 0.99 2.1E-05 30.9 3.1 25 23-47 2-26 (66)
16 PF07334 IFP_35_N: Interferon- 86.0 1.1 2.4E-05 33.0 3.6 25 21-45 3-27 (76)
17 PF13863 DUF4200: Domain of un 85.2 2 4.3E-05 31.5 4.6 48 20-67 76-123 (126)
18 PF03962 Mnd1: Mnd1 family; I 83.8 1.7 3.8E-05 35.4 4.1 38 15-52 100-137 (188)
19 PF07716 bZIP_2: Basic region 82.7 2 4.3E-05 28.2 3.4 24 22-45 29-52 (54)
20 PF04977 DivIC: Septum formati 81.5 2.5 5.3E-05 28.3 3.5 21 24-44 30-50 (80)
21 PF06657 Cep57_MT_bd: Centroso 81.2 3.3 7.1E-05 29.9 4.3 44 23-66 15-71 (79)
22 PRK06342 transcription elongat 80.3 3.1 6.7E-05 33.4 4.3 33 5-37 20-53 (160)
23 PF08286 Spc24: Spc24 subunit 80.2 0.48 1E-05 35.5 -0.3 25 20-44 8-32 (118)
24 PF04799 Fzo_mitofusin: fzo-li 79.9 1.9 4.1E-05 35.8 3.1 36 28-63 123-158 (171)
25 PF04977 DivIC: Septum formati 79.7 2.7 5.8E-05 28.1 3.3 27 20-46 19-45 (80)
26 TIGR03709 PPK2_rel_1 polyphosp 79.7 5 0.00011 34.7 5.7 47 15-61 23-80 (264)
27 PF02996 Prefoldin: Prefoldin 79.6 0.73 1.6E-05 33.3 0.5 43 25-74 3-48 (120)
28 PF02185 HR1: Hr1 repeat; Int 79.0 3 6.6E-05 28.5 3.4 32 20-51 35-66 (70)
29 PF00170 bZIP_1: bZIP transcri 77.9 4.3 9.2E-05 27.2 3.8 26 20-45 21-46 (64)
30 TIGR00219 mreC rod shape-deter 77.5 2 4.3E-05 36.9 2.6 63 20-82 68-131 (283)
31 PF08286 Spc24: Spc24 subunit 77.4 0.74 1.6E-05 34.5 0.0 43 22-71 17-59 (118)
32 cd00890 Prefoldin Prefoldin is 76.8 5.4 0.00012 28.8 4.4 45 23-67 4-48 (129)
33 PF04102 SlyX: SlyX; InterPro 76.6 2.7 5.9E-05 29.2 2.6 24 22-45 29-52 (69)
34 TIGR02209 ftsL_broad cell divi 75.9 4.4 9.6E-05 27.8 3.5 23 22-44 28-50 (85)
35 PRK02793 phi X174 lysis protei 75.8 4.5 9.8E-05 28.7 3.6 25 22-46 33-57 (72)
36 PF06698 DUF1192: Protein of u 75.3 7.7 0.00017 27.3 4.6 29 15-43 18-46 (59)
37 PRK14127 cell division protein 74.8 3.9 8.5E-05 31.6 3.3 28 22-49 41-68 (109)
38 PF10737 GerPC: Spore germinat 74.4 2.3 5E-05 35.3 2.1 21 54-74 54-74 (176)
39 smart00338 BRLZ basic region l 74.1 6.1 0.00013 26.4 3.8 27 19-45 20-46 (65)
40 PRK00846 hypothetical protein; 74.0 5.4 0.00012 29.2 3.7 25 22-46 38-62 (77)
41 PF03285 Paralemmin: Paralemmi 73.7 3.9 8.5E-05 36.1 3.5 28 23-50 8-35 (278)
42 KOG3048 Molecular chaperone Pr 73.3 5.3 0.00012 33.0 3.9 53 21-73 16-71 (153)
43 PF14389 Lzipper-MIP1: Leucine 73.3 5.4 0.00012 29.1 3.6 26 20-45 56-81 (88)
44 COG5509 Uncharacterized small 73.2 3.7 8E-05 29.8 2.6 23 24-46 24-46 (65)
45 PF10975 DUF2802: Protein of u 72.5 11 0.00023 26.7 4.9 44 23-66 3-46 (70)
46 PF07106 TBPIP: Tat binding pr 72.2 9.5 0.00021 29.7 5.0 33 20-52 81-113 (169)
47 PRK10697 DNA-binding transcrip 72.1 5.4 0.00012 31.2 3.6 27 21-47 77-103 (118)
48 PF04508 Pox_A_type_inc: Viral 72.0 5.3 0.00011 23.7 2.7 18 26-43 2-19 (23)
49 PRK02119 hypothetical protein; 71.6 6.5 0.00014 28.0 3.6 23 23-45 35-57 (73)
50 PRK09413 IS2 repressor TnpA; R 71.5 3.7 8.1E-05 30.6 2.5 25 23-47 76-100 (121)
51 PF10152 DUF2360: Predicted co 71.5 5.2 0.00011 31.5 3.4 29 22-50 25-53 (148)
52 PHA02592 52 DNA topisomerase I 71.3 7.2 0.00016 36.1 4.7 38 24-61 401-438 (439)
53 PF01601 Corona_S2: Coronaviru 71.1 2.1 4.5E-05 41.6 1.3 28 23-50 513-540 (610)
54 PF15011 CK2S: Casein Kinase 2 70.9 11 0.00025 30.3 5.3 60 12-72 52-114 (168)
55 PF11932 DUF3450: Protein of u 70.8 8.9 0.00019 31.7 4.8 50 21-71 73-127 (251)
56 PF14282 FlxA: FlxA-like prote 70.4 5.3 0.00012 29.8 3.1 23 24-46 18-40 (106)
57 PF14716 HHH_8: Helix-hairpin- 70.2 3.2 7E-05 28.2 1.7 32 21-52 29-60 (68)
58 PLN03128 DNA topoisomerase 2; 70.0 7.5 0.00016 40.0 4.9 39 25-63 1095-1133(1135)
59 KOG0728 26S proteasome regulat 69.7 5.3 0.00011 36.7 3.5 28 19-46 39-66 (404)
60 PF05531 NPV_P10: Nucleopolyhe 69.6 6.4 0.00014 28.9 3.3 49 23-71 9-68 (75)
61 PF04420 CHD5: CHD5-like prote 69.5 3.4 7.5E-05 32.7 2.0 28 25-52 66-93 (161)
62 PF04880 NUDE_C: NUDE protein, 69.5 1.8 3.8E-05 35.6 0.4 30 20-49 26-55 (166)
63 KOG4529 Uncharacterized conser 69.4 4.6 0.0001 37.5 3.1 28 9-39 26-53 (404)
64 PRK04406 hypothetical protein; 68.6 8.3 0.00018 27.7 3.6 22 24-45 10-31 (75)
65 PRK00295 hypothetical protein; 68.3 8 0.00017 27.1 3.5 24 22-45 30-53 (68)
66 TIGR02209 ftsL_broad cell divi 67.6 9.5 0.00021 26.2 3.7 32 21-52 34-65 (85)
67 cd03351 LbH_UDP-GlcNAc_AT UDP- 67.5 6.1 0.00013 32.4 3.1 43 22-64 208-250 (254)
68 PF14916 CCDC92: Coiled-coil d 67.4 5.7 0.00012 28.1 2.5 25 24-48 2-27 (60)
69 PF04999 FtsL: Cell division p 67.0 8.8 0.00019 27.3 3.5 24 21-44 38-61 (97)
70 PRK00736 hypothetical protein; 67.0 9.2 0.0002 26.8 3.5 24 22-45 30-53 (68)
71 PF04111 APG6: Autophagy prote 66.3 6.9 0.00015 34.2 3.4 30 20-49 45-74 (314)
72 PF13600 DUF4140: N-terminal d 66.1 8.5 0.00018 27.5 3.3 22 26-47 71-92 (104)
73 PF12097 DUF3573: Protein of u 65.7 6.3 0.00014 36.6 3.1 25 23-47 40-64 (383)
74 PLN02678 seryl-tRNA synthetase 65.7 9.3 0.0002 35.4 4.3 48 22-75 75-122 (448)
75 PF02575 YbaB_DNA_bd: YbaB/Ebf 65.3 6.9 0.00015 27.5 2.7 27 24-50 1-27 (93)
76 PRK04325 hypothetical protein; 65.1 10 0.00022 27.0 3.5 22 24-45 36-57 (74)
77 cd04786 HTH_MerR-like_sg7 Heli 64.0 11 0.00024 28.9 3.8 38 27-67 80-117 (131)
78 PF09849 DUF2076: Uncharacteri 63.8 8.8 0.00019 33.2 3.5 25 24-48 54-78 (247)
79 TIGR00103 DNA_YbaB_EbfC DNA-bi 63.6 7.6 0.00016 28.9 2.8 30 20-49 7-36 (102)
80 PF11853 DUF3373: Protein of u 63.4 6.3 0.00014 37.3 2.8 19 26-44 32-50 (489)
81 PF10552 ORF6C: ORF6C domain; 63.2 17 0.00036 27.2 4.5 41 23-63 6-47 (116)
82 PRK05729 valS valyl-tRNA synth 63.1 7.1 0.00015 38.1 3.2 30 19-48 805-834 (874)
83 KOG0554 Asparaginyl-tRNA synth 62.9 9.8 0.00021 35.9 3.9 68 16-86 218-285 (446)
84 PF07820 TraC: TraC-like prote 62.9 7 0.00015 29.9 2.5 20 27-46 4-23 (92)
85 PF09340 NuA4: Histone acetylt 62.7 10 0.00022 27.4 3.2 41 23-65 14-54 (80)
86 PRK00888 ftsB cell division pr 62.5 13 0.00027 28.0 3.8 22 25-46 41-62 (105)
87 PF00170 bZIP_1: bZIP transcri 62.3 14 0.00031 24.7 3.6 21 24-44 32-52 (64)
88 PF12718 Tropomyosin_1: Tropom 62.2 8.3 0.00018 30.3 2.9 20 27-46 75-94 (143)
89 PF02403 Seryl_tRNA_N: Seryl-t 61.8 12 0.00025 27.0 3.4 25 21-45 70-94 (108)
90 KOG4603 TBP-1 interacting prot 61.6 8.9 0.00019 32.8 3.1 26 21-46 89-114 (201)
91 PF08614 ATG16: Autophagy prot 61.6 9.3 0.0002 30.6 3.1 28 21-48 119-146 (194)
92 TIGR02894 DNA_bind_RsfA transc 61.6 10 0.00022 31.4 3.4 25 22-46 108-132 (161)
93 cd00187 TOP4c DNA Topoisomeras 61.4 9.8 0.00021 35.2 3.6 24 25-48 405-428 (445)
94 PF13600 DUF4140: N-terminal d 61.3 10 0.00022 27.2 2.9 28 19-46 71-98 (104)
95 PF10211 Ax_dynein_light: Axon 61.2 12 0.00026 30.5 3.7 26 19-44 121-146 (189)
96 PRK14626 hypothetical protein; 61.1 10 0.00023 28.9 3.2 26 21-46 8-33 (110)
97 PF05103 DivIVA: DivIVA protei 61.0 13 0.00027 27.2 3.5 26 21-46 28-53 (131)
98 PHA03386 P10 fibrous body prot 60.8 13 0.00029 28.6 3.6 40 23-62 10-53 (94)
99 PF11559 ADIP: Afadin- and alp 60.7 12 0.00026 28.6 3.4 26 21-46 62-87 (151)
100 PRK00153 hypothetical protein; 60.6 8.7 0.00019 28.3 2.6 30 21-50 6-35 (104)
101 PF06156 DUF972: Protein of un 60.6 13 0.00029 28.3 3.7 26 20-45 3-28 (107)
102 TIGR01062 parC_Gneg DNA topois 60.0 12 0.00027 36.8 4.2 48 20-67 348-395 (735)
103 PF00521 DNA_topoisoIV: DNA gy 59.7 9.8 0.00021 34.2 3.2 27 24-50 390-416 (426)
104 COG3937 Uncharacterized conser 59.7 11 0.00025 29.5 3.2 22 21-42 86-107 (108)
105 PF03285 Paralemmin: Paralemmi 59.4 6.4 0.00014 34.8 2.0 20 21-40 13-32 (278)
106 PRK14623 hypothetical protein; 59.3 12 0.00025 28.7 3.1 25 22-46 5-29 (106)
107 PTZ00108 DNA topoisomerase 2-l 59.2 16 0.00034 38.7 4.9 39 25-63 1102-1140(1388)
108 PF11853 DUF3373: Protein of u 59.1 6 0.00013 37.5 1.8 24 25-49 25-48 (489)
109 PF01920 Prefoldin_2: Prefoldi 59.1 15 0.00033 25.6 3.5 20 25-44 76-95 (106)
110 cd04775 HTH_Cfa-like Helix-Tur 59.0 13 0.00029 26.9 3.3 27 20-46 73-99 (102)
111 PF09006 Surfac_D-trimer: Lung 58.9 11 0.00023 25.8 2.5 20 27-46 1-20 (46)
112 PF05010 TACC: Transforming ac 58.7 15 0.00032 31.0 4.0 41 22-62 165-206 (207)
113 PF13863 DUF4200: Domain of un 58.6 15 0.00033 26.8 3.6 24 21-44 84-107 (126)
114 PF03087 DUF241: Arabidopsis p 58.6 14 0.0003 30.9 3.7 26 19-44 192-217 (231)
115 PLN02943 aminoacyl-tRNA ligase 58.5 8.9 0.00019 38.2 3.0 29 19-47 883-911 (958)
116 TIGR01837 PHA_granule_1 poly(h 58.5 13 0.00028 28.3 3.3 22 25-46 96-117 (118)
117 smart00338 BRLZ basic region l 58.4 15 0.00033 24.5 3.3 19 26-44 34-52 (65)
118 KOG3000 Microtubule-binding pr 58.3 16 0.00035 32.6 4.3 38 19-56 192-237 (295)
119 KOG2483 Upstream transcription 58.2 14 0.00031 31.8 3.8 29 21-49 115-143 (232)
120 TIGR00414 serS seryl-tRNA synt 58.2 10 0.00022 34.2 3.1 48 22-75 73-120 (418)
121 PF05873 Mt_ATP-synt_D: ATP sy 57.7 12 0.00027 30.0 3.2 40 25-66 103-142 (161)
122 PF14197 Cep57_CLD_2: Centroso 57.3 17 0.00037 25.7 3.5 22 24-45 46-67 (69)
123 cd01107 HTH_BmrR Helix-Turn-He 57.0 13 0.00027 27.2 2.9 22 24-45 81-102 (108)
124 PLN03237 DNA topoisomerase 2; 56.9 18 0.00039 38.6 4.9 40 24-63 1125-1164(1465)
125 PF05615 THOC7: Tho complex su 56.7 25 0.00055 26.6 4.6 46 20-65 83-128 (139)
126 PF02370 M: M protein repeat; 56.6 20 0.00044 20.9 3.1 20 26-45 2-21 (21)
127 PRK14622 hypothetical protein; 56.6 15 0.00033 27.7 3.3 27 21-47 4-30 (103)
128 PRK14629 hypothetical protein; 56.5 14 0.0003 28.0 3.1 27 23-49 8-34 (99)
129 PRK10636 putative ABC transpor 56.2 14 0.00029 34.7 3.6 24 24-47 562-585 (638)
130 PRK05431 seryl-tRNA synthetase 56.1 19 0.00042 32.6 4.5 46 23-74 71-116 (425)
131 PF04912 Dynamitin: Dynamitin 56.0 9.3 0.0002 33.7 2.4 25 20-44 89-113 (388)
132 PRK00888 ftsB cell division pr 56.0 21 0.00046 26.8 4.0 27 19-45 28-54 (105)
133 PF04568 IATP: Mitochondrial A 55.9 13 0.00029 28.3 2.9 18 29-46 80-97 (100)
134 PF14257 DUF4349: Domain of un 55.9 9 0.0002 31.6 2.2 25 24-48 161-185 (262)
135 PF11464 Rbsn: Rabenosyn Rab b 55.8 19 0.0004 24.0 3.3 24 20-43 17-40 (42)
136 cd00632 Prefoldin_beta Prefold 55.8 17 0.00037 26.5 3.4 19 25-43 77-95 (105)
137 PF07412 Geminin: Geminin; In 55.8 14 0.00031 31.4 3.4 37 26-62 133-169 (200)
138 smart00150 SPEC Spectrin repea 55.7 43 0.00093 21.7 5.1 34 15-48 28-61 (101)
139 PTZ00419 valyl-tRNA synthetase 55.7 11 0.00024 37.4 3.2 29 19-47 923-951 (995)
140 TIGR02978 phageshock_pspC phag 55.7 16 0.00036 28.4 3.5 25 23-47 82-106 (121)
141 PRK00587 hypothetical protein; 55.6 15 0.00032 27.8 3.1 24 22-45 5-28 (99)
142 PF07047 OPA3: Optic atrophy 3 55.6 16 0.00034 28.3 3.3 20 25-44 112-131 (134)
143 PF09432 THP2: Tho complex sub 55.3 28 0.0006 28.3 4.8 46 19-64 79-126 (132)
144 PRK05561 DNA topoisomerase IV 55.2 20 0.00044 35.1 4.7 43 25-67 437-484 (742)
145 COG2919 Septum formation initi 55.0 16 0.00036 27.6 3.3 25 23-47 62-86 (117)
146 PTZ00454 26S protease regulato 54.5 18 0.00039 32.5 4.0 23 25-47 43-65 (398)
147 PRK14621 hypothetical protein; 54.3 16 0.00034 28.1 3.2 27 21-47 7-33 (111)
148 PF03357 Snf7: Snf7; InterPro 54.3 20 0.00042 26.8 3.6 23 22-44 5-27 (171)
149 PF08537 NBP1: Fungal Nap bind 54.3 13 0.00028 33.8 3.1 37 23-59 180-220 (323)
150 PF12709 Kinetocho_Slk19: Cent 54.3 18 0.00038 27.3 3.3 26 21-46 45-70 (87)
151 PLN02320 seryl-tRNA synthetase 54.2 27 0.00059 33.1 5.3 48 22-75 134-181 (502)
152 PF07106 TBPIP: Tat binding pr 54.2 16 0.00035 28.4 3.3 25 22-46 113-137 (169)
153 PF07061 Swi5: Swi5; InterPro 53.9 38 0.00081 24.8 4.9 35 21-55 3-39 (83)
154 PRK14627 hypothetical protein; 53.9 16 0.00035 27.3 3.1 24 22-45 5-28 (100)
155 KOG2911 Uncharacterized conser 53.8 17 0.00036 34.4 3.8 28 18-45 233-260 (439)
156 PF03885 DUF327: Protein of un 53.8 18 0.00038 28.3 3.4 31 15-45 95-125 (147)
157 TIGR02338 gimC_beta prefoldin, 53.7 16 0.00035 26.9 3.1 20 27-46 69-88 (110)
158 PF04350 PilO: Pilus assembly 53.4 21 0.00045 26.1 3.6 42 20-61 18-59 (144)
159 COG0718 Uncharacterized protei 53.4 18 0.00038 28.0 3.3 30 21-50 8-37 (105)
160 TIGR02047 CadR-PbrR Cd(II)/Pb( 53.3 17 0.00037 27.4 3.2 24 23-46 84-107 (127)
161 PF01920 Prefoldin_2: Prefoldi 52.9 28 0.0006 24.3 4.0 21 23-43 10-30 (106)
162 COG1729 Uncharacterized protei 52.8 13 0.00027 32.7 2.7 28 25-52 56-83 (262)
163 PRK10227 DNA-binding transcrip 52.5 18 0.00038 27.9 3.2 27 20-46 81-107 (135)
164 PRK14625 hypothetical protein; 52.4 17 0.00038 27.9 3.1 24 22-45 6-29 (109)
165 KOG0930 Guanine nucleotide exc 52.4 29 0.00062 32.1 5.0 35 22-56 28-62 (395)
166 PRK13922 rod shape-determining 52.3 16 0.00035 30.3 3.2 18 28-45 72-89 (276)
167 cd04789 HTH_Cfa Helix-Turn-Hel 52.3 20 0.00044 26.0 3.3 25 21-45 74-98 (102)
168 PF04859 DUF641: Plant protein 52.3 19 0.00041 28.7 3.4 26 21-46 97-122 (131)
169 PF13864 Enkurin: Calmodulin-b 52.2 25 0.00054 25.6 3.8 32 12-46 64-95 (98)
170 COG3879 Uncharacterized protei 52.1 31 0.00068 30.3 5.0 26 20-45 59-84 (247)
171 PF05377 FlaC_arch: Flagella a 51.9 26 0.00057 24.5 3.6 25 22-46 11-35 (55)
172 PRK05560 DNA gyrase subunit A; 51.8 23 0.0005 34.8 4.5 47 20-66 351-397 (805)
173 cd04769 HTH_MerR2 Helix-Turn-H 51.7 19 0.00042 26.5 3.2 25 22-46 83-107 (116)
174 PF07047 OPA3: Optic atrophy 3 51.5 22 0.00047 27.5 3.6 29 18-46 98-126 (134)
175 cd01109 HTH_YyaN Helix-Turn-He 51.5 24 0.00053 25.7 3.6 18 28-45 82-99 (113)
176 KOG3021 Predicted kinase [Gene 51.4 6.9 0.00015 35.2 0.9 20 15-34 164-183 (313)
177 PF08826 DMPK_coil: DMPK coile 51.2 21 0.00046 25.0 3.2 18 27-44 41-58 (61)
178 PF09278 MerR-DNA-bind: MerR, 50.9 24 0.00052 22.9 3.2 19 27-45 38-56 (65)
179 TIGR02044 CueR Cu(I)-responsiv 50.9 20 0.00043 26.8 3.2 25 22-46 83-107 (127)
180 PRK05561 DNA topoisomerase IV 50.6 23 0.00051 34.7 4.4 47 20-66 361-407 (742)
181 KOG2077 JNK/SAPK-associated pr 50.5 16 0.00036 36.4 3.3 22 22-44 348-369 (832)
182 TIGR02976 phageshock_pspB phag 50.4 19 0.0004 26.2 2.8 25 23-47 40-64 (75)
183 cd04770 HTH_HMRTR Helix-Turn-H 50.2 21 0.00046 26.1 3.2 21 27-47 81-101 (123)
184 PF02097 Filo_VP35: Filovirida 50.0 5.4 0.00012 36.2 0.0 51 21-76 79-133 (321)
185 PRK14127 cell division protein 49.8 23 0.0005 27.4 3.4 24 23-46 35-58 (109)
186 PRK09039 hypothetical protein; 49.8 18 0.00039 32.0 3.2 29 21-49 140-168 (343)
187 PF02609 Exonuc_VII_S: Exonucl 49.6 14 0.00031 24.2 2.0 44 21-64 6-49 (53)
188 PF06251 Caps_synth_GfcC: Caps 49.3 13 0.00029 30.3 2.2 29 41-69 85-116 (229)
189 PF14357 DUF4404: Domain of un 49.0 25 0.00054 25.6 3.3 34 30-63 2-36 (85)
190 PF12644 DUF3782: Protein of u 48.9 31 0.00067 22.8 3.6 20 27-46 3-22 (64)
191 cd04776 HTH_GnyR Helix-Turn-He 48.9 23 0.00049 26.6 3.2 22 24-45 86-107 (118)
192 PF09340 NuA4: Histone acetylt 48.8 23 0.00049 25.6 3.1 24 23-46 7-30 (80)
193 TIGR01063 gyrA DNA gyrase, A s 48.8 27 0.00058 34.4 4.5 47 20-66 348-394 (800)
194 KOG3478 Prefoldin subunit 6, K 48.7 22 0.00048 28.4 3.3 22 23-44 81-102 (120)
195 PF10211 Ax_dynein_light: Axon 48.5 19 0.00041 29.4 3.0 31 19-49 112-144 (189)
196 cd01106 HTH_TipAL-Mta Helix-Tu 48.4 27 0.00059 25.0 3.4 19 27-45 75-93 (103)
197 TIGR00422 valS valyl-tRNA synt 48.4 17 0.00036 35.4 3.0 28 19-46 810-837 (861)
198 PRK05289 UDP-N-acetylglucosami 48.2 20 0.00043 29.9 3.1 43 21-63 210-252 (262)
199 KOG4196 bZIP transcription fac 48.1 27 0.00059 28.4 3.7 25 20-44 76-100 (135)
200 PF03449 GreA_GreB_N: Transcri 48.1 34 0.00073 24.3 3.8 28 18-45 9-37 (74)
201 PF04728 LPP: Lipoprotein leuc 48.0 32 0.00069 24.1 3.6 21 23-43 8-28 (56)
202 PF02344 Myc-LZ: Myc leucine z 48.0 40 0.00087 21.6 3.7 27 20-46 3-29 (32)
203 PF04156 IncA: IncA protein; 47.8 19 0.00041 28.1 2.7 25 22-46 78-102 (191)
204 PLN02381 valyl-tRNA synthetase 47.8 13 0.00028 37.7 2.3 30 18-47 990-1019(1066)
205 PHA03395 p10 fibrous body prot 47.7 32 0.0007 26.1 3.8 50 23-72 9-72 (87)
206 KOG3088 Secretory carrier memb 47.4 45 0.00098 30.4 5.4 24 22-45 64-87 (313)
207 PF11932 DUF3450: Protein of u 47.3 22 0.00048 29.4 3.2 13 25-37 56-68 (251)
208 PF14662 CCDC155: Coiled-coil 47.1 25 0.00055 29.9 3.6 26 19-44 82-107 (193)
209 COG2456 Uncharacterized conser 47.1 24 0.00051 28.3 3.2 24 21-44 89-112 (121)
210 PF06698 DUF1192: Protein of u 46.7 22 0.00049 24.9 2.7 32 16-47 12-43 (59)
211 cd04785 HTH_CadR-PbrR-like Hel 46.7 26 0.00055 26.3 3.2 18 29-46 83-100 (126)
212 PF04111 APG6: Autophagy prote 46.5 27 0.00058 30.6 3.7 25 21-45 60-84 (314)
213 smart00434 TOP4c DNA Topoisome 46.4 19 0.00042 33.1 3.0 26 25-50 415-440 (445)
214 PRK09343 prefoldin subunit bet 46.3 24 0.00053 26.8 3.1 21 27-47 73-93 (121)
215 cd00890 Prefoldin Prefoldin is 46.3 30 0.00065 24.9 3.4 21 26-46 88-108 (129)
216 PF08898 DUF1843: Domain of un 46.3 21 0.00046 24.9 2.5 16 23-38 36-51 (53)
217 PF13887 MRF_C1: Myelin gene r 46.2 21 0.00045 23.4 2.3 24 24-47 13-36 (36)
218 PF04728 LPP: Lipoprotein leuc 46.0 26 0.00055 24.6 2.9 22 25-46 3-24 (56)
219 PRK03762 hypothetical protein; 45.8 26 0.00056 26.6 3.1 26 20-45 7-32 (103)
220 PF04380 BMFP: Membrane fusoge 45.7 31 0.00066 24.7 3.3 24 23-46 55-78 (79)
221 PF13747 DUF4164: Domain of un 45.5 37 0.00081 24.9 3.8 25 21-45 35-59 (89)
222 PF12709 Kinetocho_Slk19: Cent 45.4 31 0.00068 26.0 3.5 23 21-43 52-74 (87)
223 KOG4787 Uncharacterized conser 45.3 20 0.00044 35.9 3.0 47 22-68 519-566 (852)
224 PF12013 DUF3505: Protein of u 45.2 19 0.00041 26.2 2.3 22 17-38 30-53 (109)
225 COG3599 DivIVA Cell division i 45.2 28 0.00061 29.5 3.6 27 21-47 40-66 (212)
226 PF07303 Occludin_ELL: Occludi 45.2 34 0.00073 25.7 3.6 26 21-46 25-50 (101)
227 PF14282 FlxA: FlxA-like prote 45.1 28 0.00061 26.0 3.2 22 23-44 56-77 (106)
228 PRK14624 hypothetical protein; 45.0 27 0.00058 27.2 3.1 27 22-48 10-36 (115)
229 PRK09413 IS2 repressor TnpA; R 44.9 24 0.00052 26.2 2.8 35 26-63 72-106 (121)
230 PF11855 DUF3375: Protein of u 44.8 23 0.0005 32.6 3.2 23 25-47 144-166 (478)
231 PRK11637 AmiB activator; Provi 44.8 27 0.00059 31.0 3.5 22 24-45 95-116 (428)
232 PF12269 zf-CpG_bind_C: CpG bi 44.8 30 0.00064 30.1 3.7 41 12-62 20-60 (236)
233 COG1382 GimC Prefoldin, chaper 44.7 34 0.00073 27.1 3.7 25 22-46 81-105 (119)
234 cd07637 BAR_ACAP3 The Bin/Amph 44.6 19 0.00042 29.8 2.4 23 25-47 2-24 (200)
235 PF10805 DUF2730: Protein of u 44.6 38 0.00082 25.3 3.8 24 21-44 68-91 (106)
236 PRK03992 proteasome-activating 44.4 32 0.0007 30.3 4.0 32 21-52 25-56 (389)
237 PF14389 Lzipper-MIP1: Leucine 44.3 18 0.0004 26.3 2.1 27 23-49 6-32 (88)
238 PF14735 HAUS4: HAUS augmin-li 44.2 32 0.00069 29.5 3.8 31 20-50 180-210 (238)
239 COG4985 ABC-type phosphate tra 44.1 29 0.00062 31.2 3.6 26 20-45 216-241 (289)
240 PF00435 Spectrin: Spectrin re 44.0 51 0.0011 21.4 4.0 32 14-45 30-61 (105)
241 PRK05771 V-type ATP synthase s 44.0 26 0.00057 32.9 3.5 20 26-45 101-120 (646)
242 cd04782 HTH_BltR Helix-Turn-He 44.0 34 0.00075 24.5 3.4 22 26-47 75-96 (97)
243 PF10066 DUF2304: Uncharacteri 44.0 30 0.00064 25.8 3.2 20 21-40 89-108 (115)
244 TIGR00293 prefoldin, archaeal 43.9 26 0.00056 25.8 2.8 27 21-47 9-35 (126)
245 PF00521 DNA_topoisoIV: DNA gy 43.8 40 0.00086 30.4 4.5 47 20-66 314-360 (426)
246 TIGR02338 gimC_beta prefoldin, 43.8 53 0.0012 24.2 4.5 27 26-52 25-51 (110)
247 PF05308 Mito_fiss_reg: Mitoch 43.8 33 0.00071 29.7 3.8 27 26-52 123-149 (253)
248 cd04768 HTH_BmrR-like Helix-Tu 43.7 27 0.00058 25.0 2.8 23 26-48 74-96 (96)
249 COG1382 GimC Prefoldin, chaper 43.7 48 0.001 26.2 4.4 34 23-56 25-58 (119)
250 PF01486 K-box: K-box region; 43.5 47 0.001 23.9 4.1 40 20-59 14-53 (100)
251 cd04787 HTH_HMRTR_unk Helix-Tu 43.5 30 0.00066 26.1 3.2 24 22-45 83-106 (133)
252 PF13815 Dzip-like_N: Iguana/D 43.4 37 0.00079 25.5 3.6 17 27-43 82-98 (118)
253 PF04201 TPD52: Tumour protein 43.2 32 0.00069 28.6 3.5 22 20-41 31-52 (162)
254 PF15112 DUF4559: Domain of un 43.1 35 0.00076 30.9 4.0 40 27-66 224-271 (307)
255 PF13334 DUF4094: Domain of un 43.0 32 0.00068 25.7 3.2 22 21-42 69-90 (95)
256 PF13094 CENP-Q: CENP-Q, a CEN 43.0 39 0.00085 26.1 3.8 12 34-45 43-54 (160)
257 smart00324 RhoGAP GTPase-activ 42.9 51 0.0011 24.8 4.3 24 49-72 55-78 (174)
258 PRK05771 V-type ATP synthase s 42.7 34 0.00074 32.1 4.0 27 20-46 217-243 (646)
259 PRK14900 valS valyl-tRNA synth 42.5 22 0.00048 35.9 3.0 26 21-46 845-870 (1052)
260 PF13747 DUF4164: Domain of un 42.5 35 0.00077 25.0 3.3 42 21-62 42-84 (89)
261 cd01282 HTH_MerR-like_sg3 Heli 42.4 35 0.00076 25.1 3.3 19 28-46 84-102 (112)
262 TIGR01061 parC_Gpos DNA topois 42.4 37 0.00079 33.3 4.3 47 20-66 348-394 (738)
263 PF14854 LURAP: Leucine rich a 42.4 43 0.00093 26.9 4.0 34 5-38 2-35 (121)
264 TIGR02231 conserved hypothetic 42.3 32 0.0007 31.3 3.7 37 25-61 71-107 (525)
265 PF03980 Nnf1: Nnf1 ; InterPr 42.2 43 0.00094 24.4 3.7 21 23-43 85-105 (109)
266 PF14584 DUF4446: Protein of u 42.0 25 0.00055 28.1 2.7 29 21-49 49-77 (151)
267 cd01108 HTH_CueR Helix-Turn-He 41.9 34 0.00073 25.7 3.2 18 29-46 83-100 (127)
268 PF08655 DASH_Ask1: DASH compl 41.9 19 0.00042 25.8 1.8 17 27-43 1-17 (66)
269 cd04772 HTH_TioE_rpt1 First He 41.7 23 0.0005 25.6 2.2 22 25-46 76-97 (99)
270 PF10359 Fmp27_WPPW: RNA pol I 41.3 36 0.00079 31.2 3.9 24 23-46 168-191 (475)
271 PF15372 DUF4600: Domain of un 41.3 28 0.00061 27.9 2.8 26 23-48 12-38 (129)
272 COG1792 MreC Cell shape-determ 41.2 30 0.00065 29.9 3.2 21 45-65 93-113 (284)
273 cd00089 HR1 Protein kinase C-r 40.8 59 0.0013 22.2 4.1 27 21-47 45-71 (72)
274 TIGR01242 26Sp45 26S proteasom 40.7 41 0.00088 28.9 3.9 30 21-50 16-45 (364)
275 PRK11147 ABC transporter ATPas 40.4 32 0.00069 32.1 3.5 24 24-47 567-590 (635)
276 PF13815 Dzip-like_N: Iguana/D 40.4 34 0.00074 25.7 3.0 22 23-44 92-113 (118)
277 PF06667 PspB: Phage shock pro 40.4 31 0.00068 25.1 2.7 26 23-48 40-65 (75)
278 PRK09039 hypothetical protein; 40.4 31 0.00068 30.5 3.2 22 23-44 156-177 (343)
279 PF07439 DUF1515: Protein of u 40.2 34 0.00074 27.1 3.1 30 23-52 6-35 (112)
280 TIGR03707 PPK2_P_aer polyphosp 40.2 59 0.0013 27.6 4.8 43 20-62 4-56 (230)
281 PF05679 CHGN: Chondroitin N-a 40.1 36 0.00078 31.4 3.7 26 21-46 79-104 (499)
282 PF07028 DUF1319: Protein of u 40.0 37 0.0008 27.3 3.3 23 24-46 59-81 (126)
283 PRK14900 valS valyl-tRNA synth 40.0 25 0.00055 35.6 2.9 32 18-49 835-866 (1052)
284 PRK10803 tol-pal system protei 40.0 32 0.0007 29.2 3.2 19 24-42 60-78 (263)
285 PF08700 Vps51: Vps51/Vps67; 40.0 50 0.0011 22.5 3.6 24 21-44 22-45 (87)
286 cd04784 HTH_CadR-PbrR Helix-Tu 39.9 38 0.00082 25.2 3.2 20 28-47 82-101 (127)
287 PF03357 Snf7: Snf7; InterPro 39.9 45 0.00097 24.9 3.6 31 19-49 9-39 (171)
288 TIGR01063 gyrA DNA gyrase, A s 39.8 44 0.00095 33.0 4.4 44 24-67 426-474 (800)
289 TIGR02894 DNA_bind_RsfA transc 39.7 36 0.00077 28.3 3.3 25 22-46 101-125 (161)
290 PF04102 SlyX: SlyX; InterPro 39.7 36 0.00078 23.6 2.9 21 25-45 4-24 (69)
291 PF05064 Nsp1_C: Nsp1-like C-t 39.6 31 0.00066 26.1 2.7 49 23-74 62-110 (116)
292 PRK09631 DNA topoisomerase IV 39.6 45 0.00098 32.6 4.4 49 20-68 318-377 (635)
293 PF13720 Acetyltransf_11: Udp 39.4 26 0.00057 25.1 2.2 29 36-64 49-77 (83)
294 PRK13169 DNA replication intia 39.4 45 0.00098 25.8 3.6 22 23-44 6-27 (110)
295 TIGR03708 poly_P_AMP_trns poly 39.1 60 0.0013 30.7 5.0 56 18-73 10-76 (493)
296 PF04156 IncA: IncA protein; 39.0 45 0.00097 26.0 3.6 27 23-49 93-119 (191)
297 TIGR00634 recN DNA repair prot 38.8 35 0.00077 31.5 3.5 26 25-50 182-207 (563)
298 cd07596 BAR_SNX The Bin/Amphip 38.6 59 0.0013 24.7 4.1 20 26-45 146-165 (218)
299 PF10779 XhlA: Haemolysin XhlA 38.6 52 0.0011 22.8 3.5 31 22-52 3-33 (71)
300 PRK10265 chaperone-modulator p 38.6 56 0.0012 24.1 3.9 16 25-40 78-93 (101)
301 cd04388 RhoGAP_p85 RhoGAP_p85: 38.5 19 0.00041 29.9 1.5 55 16-72 32-88 (200)
302 PRK13848 conjugal transfer pro 38.4 26 0.00056 27.2 2.1 18 29-46 7-24 (98)
303 cd04788 HTH_NolA-AlbR Helix-Tu 38.4 41 0.00088 24.1 3.1 22 26-47 74-95 (96)
304 PF10205 KLRAQ: Predicted coil 38.4 42 0.00091 26.0 3.3 14 29-42 58-71 (102)
305 PF14193 DUF4315: Domain of un 38.4 47 0.001 24.5 3.4 34 30-63 20-59 (83)
306 PF10018 Med4: Vitamin-D-recep 38.2 45 0.00098 26.8 3.6 22 22-43 26-47 (188)
307 PF05008 V-SNARE: Vesicle tran 38.2 46 0.001 22.6 3.2 20 25-44 32-51 (79)
308 PRK00295 hypothetical protein; 38.1 38 0.00083 23.7 2.8 23 24-46 4-26 (68)
309 PF09726 Macoilin: Transmembra 38.0 34 0.00074 33.5 3.4 25 22-46 549-573 (697)
310 PF06248 Zw10: Centromere/kine 38.0 49 0.0011 30.7 4.2 42 21-62 79-120 (593)
311 PF01166 TSC22: TSC-22/dip/bun 37.8 30 0.00065 24.7 2.2 21 26-46 15-35 (59)
312 PF03195 DUF260: Protein of un 37.7 35 0.00076 25.7 2.7 19 27-45 80-98 (101)
313 PF12761 End3: Actin cytoskele 37.7 33 0.00071 29.2 2.8 36 12-47 83-118 (195)
314 COG3883 Uncharacterized protei 37.6 36 0.00079 30.1 3.2 20 25-44 73-92 (265)
315 PF02050 FliJ: Flagellar FliJ 37.5 55 0.0012 22.2 3.5 23 22-44 56-78 (123)
316 PRK13979 DNA topoisomerase IV 37.3 49 0.0011 33.7 4.4 47 20-66 367-413 (957)
317 PF09812 MRP-L28: Mitochondria 37.1 94 0.002 25.1 5.2 47 20-72 84-130 (157)
318 cd04783 HTH_MerR1 Helix-Turn-H 37.1 44 0.00096 24.8 3.2 21 27-47 79-99 (126)
319 PF00816 Histone_HNS: H-NS his 37.0 54 0.0012 23.3 3.5 34 29-62 2-37 (93)
320 TIGR01061 parC_Gpos DNA topois 37.0 48 0.001 32.6 4.2 43 25-67 427-474 (738)
321 PF05190 MutS_IV: MutS family 36.7 50 0.0011 22.1 3.2 19 26-44 5-23 (92)
322 PF05064 Nsp1_C: Nsp1-like C-t 36.6 38 0.00082 25.6 2.8 22 24-45 70-91 (116)
323 PF11068 YlqD: YlqD protein; 36.4 55 0.0012 25.8 3.7 26 21-46 23-48 (131)
324 TIGR02043 ZntR Zn(II)-responsi 36.3 46 0.00099 25.2 3.2 21 27-47 83-103 (131)
325 PF03234 CDC37_N: Cdc37 N term 36.3 42 0.00092 27.7 3.2 27 21-47 134-160 (177)
326 KOG3990 Uncharacterized conser 36.2 40 0.00086 30.5 3.2 33 11-45 213-245 (305)
327 PF10066 DUF2304: Uncharacteri 36.2 49 0.0011 24.7 3.3 30 22-51 83-112 (115)
328 PF04420 CHD5: CHD5-like prote 36.2 51 0.0011 26.1 3.6 31 21-51 36-66 (161)
329 cd04383 RhoGAP_srGAP RhoGAP_sr 36.1 33 0.00071 27.4 2.5 21 52-72 74-94 (188)
330 TIGR03689 pup_AAA proteasome A 36.1 43 0.00093 31.6 3.6 26 20-45 17-42 (512)
331 cd01878 HflX HflX subfamily. 36.0 48 0.001 25.2 3.3 23 25-47 6-28 (204)
332 PF11336 DUF3138: Protein of u 36.0 59 0.0013 31.4 4.5 29 19-47 26-54 (514)
333 COG3771 Predicted membrane pro 36.0 35 0.00077 26.4 2.5 29 22-50 66-94 (97)
334 PF13094 CENP-Q: CENP-Q, a CEN 35.9 51 0.0011 25.5 3.5 6 30-35 46-51 (160)
335 PF10205 KLRAQ: Predicted coil 35.8 36 0.00078 26.3 2.6 21 24-44 32-52 (102)
336 TIGR02231 conserved hypothetic 35.8 48 0.001 30.2 3.8 20 25-44 145-164 (525)
337 TIGR00219 mreC rod shape-deter 35.8 41 0.00088 29.0 3.2 8 61-68 123-130 (283)
338 TIGR01461 greB transcription e 35.7 34 0.00074 27.2 2.5 28 14-41 4-32 (156)
339 PF15070 GOLGA2L5: Putative go 35.7 73 0.0016 30.9 5.1 36 7-43 70-105 (617)
340 PRK05560 DNA gyrase subunit A; 35.6 62 0.0013 31.9 4.7 43 25-67 430-477 (805)
341 PF06005 DUF904: Protein of un 35.6 63 0.0014 23.1 3.6 20 25-44 11-30 (72)
342 PF02181 FH2: Formin Homology 35.5 86 0.0019 26.8 5.1 25 22-46 278-302 (370)
343 PF11336 DUF3138: Protein of u 35.4 35 0.00076 32.8 2.9 26 23-48 23-48 (514)
344 PF10076 DUF2313: Uncharacteri 35.3 1.2E+02 0.0026 23.7 5.5 51 11-62 8-58 (179)
345 PF05597 Phasin: Poly(hydroxya 35.3 48 0.001 26.2 3.2 23 24-46 108-130 (132)
346 TIGR02743 TraW type-F conjugat 35.2 85 0.0018 26.4 4.9 20 57-77 64-85 (202)
347 PF08232 Striatin: Striatin fa 35.1 36 0.00078 26.5 2.5 24 27-50 27-50 (134)
348 PF05103 DivIVA: DivIVA protei 35.1 11 0.00024 27.5 -0.3 27 21-47 35-61 (131)
349 cd04766 HTH_HspR Helix-Turn-He 35.0 55 0.0012 23.0 3.2 16 29-44 69-84 (91)
350 PRK14872 rod shape-determining 35.0 52 0.0011 29.8 3.8 34 15-48 54-87 (337)
351 PF11471 Sugarporin_N: Maltopo 35.0 53 0.0012 22.8 3.1 23 23-45 30-52 (60)
352 cd00584 Prefoldin_alpha Prefol 35.0 51 0.0011 24.3 3.2 25 22-46 10-34 (129)
353 PTZ00421 coronin; Provisional 34.9 58 0.0013 30.1 4.2 31 26-65 461-491 (493)
354 PRK13729 conjugal transfer pil 34.9 33 0.00071 32.7 2.7 17 26-42 77-93 (475)
355 PF02403 Seryl_tRNA_N: Seryl-t 34.6 60 0.0013 23.3 3.4 20 27-46 69-88 (108)
356 cd04772 HTH_TioE_rpt1 First He 34.6 50 0.0011 23.9 3.0 19 23-41 81-99 (99)
357 PF02996 Prefoldin: Prefoldin 34.5 48 0.001 23.8 2.9 18 27-44 79-96 (120)
358 PRK10869 recombination and rep 34.4 49 0.0011 31.0 3.7 24 26-49 179-202 (553)
359 PF10146 zf-C4H2: Zinc finger- 34.3 67 0.0014 27.4 4.2 26 19-44 75-100 (230)
360 cd04783 HTH_MerR1 Helix-Turn-H 34.2 70 0.0015 23.8 3.8 25 22-46 81-105 (126)
361 cd04392 RhoGAP_ARHGAP19 RhoGAP 34.2 76 0.0017 25.9 4.4 22 50-71 61-82 (208)
362 PRK10884 SH3 domain-containing 34.2 31 0.00067 28.8 2.2 20 26-45 94-113 (206)
363 COG1792 MreC Cell shape-determ 34.1 46 0.00099 28.8 3.2 24 23-46 81-104 (284)
364 cd01109 HTH_YyaN Helix-Turn-He 34.1 41 0.00089 24.5 2.6 27 20-46 81-107 (113)
365 PF12017 Tnp_P_element: Transp 34.0 64 0.0014 27.6 4.1 23 23-45 16-38 (236)
366 cd04380 RhoGAP_OCRL1 RhoGAP_OC 34.0 42 0.00091 27.4 2.8 23 49-71 103-125 (220)
367 PF03310 Cauli_DNA-bind: Cauli 34.0 67 0.0014 25.6 3.9 18 55-72 61-78 (121)
368 PF10393 Matrilin_ccoil: Trime 34.0 73 0.0016 21.5 3.5 25 22-46 20-44 (47)
369 COG0525 ValS Valyl-tRNA synthe 33.8 31 0.00066 35.1 2.4 32 16-47 805-836 (877)
370 KOG0977 Nuclear envelope prote 33.8 46 0.00099 32.2 3.4 29 17-45 196-228 (546)
371 cd04404 RhoGAP-p50rhoGAP RhoGA 33.7 35 0.00076 27.0 2.3 58 15-72 39-97 (195)
372 PF07334 IFP_35_N: Interferon- 33.6 44 0.00095 24.7 2.6 19 27-45 2-20 (76)
373 COG4026 Uncharacterized protei 33.5 46 0.00099 29.9 3.2 19 27-45 172-190 (290)
374 PRK11530 hypothetical protein; 33.5 42 0.0009 28.6 2.8 20 25-44 24-43 (183)
375 TIGR01554 major_cap_HK97 phage 33.1 52 0.0011 28.5 3.4 8 80-87 88-95 (378)
376 PHA02562 46 endonuclease subun 33.1 40 0.00086 30.1 2.8 22 22-43 362-383 (562)
377 COG4372 Uncharacterized protei 33.1 35 0.00077 32.6 2.5 27 25-51 259-285 (499)
378 PHA02047 phage lambda Rz1-like 33.0 1.1E+02 0.0023 24.0 4.8 43 22-66 38-80 (101)
379 TIGR00153 conserved hypothetic 33.0 80 0.0017 25.4 4.3 45 22-66 151-200 (216)
380 PRK13182 racA polar chromosome 33.0 46 0.001 27.2 2.9 11 64-74 150-160 (175)
381 PF04340 DUF484: Protein of un 32.7 58 0.0013 26.5 3.4 19 26-44 48-66 (225)
382 PF02183 HALZ: Homeobox associ 32.7 64 0.0014 21.2 3.1 22 23-44 17-38 (45)
383 PRK10772 cell division protein 32.7 67 0.0015 24.8 3.6 25 20-44 47-71 (108)
384 COG1938 Archaeal enzymes of AT 32.6 83 0.0018 27.5 4.5 36 10-45 179-224 (244)
385 PHA02666 hypothetical protein; 32.6 70 0.0015 28.6 4.1 27 17-43 200-230 (287)
386 PF12017 Tnp_P_element: Transp 32.5 45 0.00097 28.6 2.9 28 19-46 19-46 (236)
387 PF07412 Geminin: Geminin; In 32.5 76 0.0017 27.1 4.2 21 25-45 125-145 (200)
388 cd01106 HTH_TipAL-Mta Helix-Tu 32.5 46 0.001 23.8 2.6 27 21-47 76-102 (103)
389 cd00159 RhoGAP RhoGAP: GTPase- 32.5 39 0.00084 24.8 2.2 53 16-72 17-74 (169)
390 PRK09458 pspB phage shock prot 32.4 50 0.0011 24.4 2.7 25 23-47 40-64 (75)
391 PF00700 Flagellin_C: Bacteria 32.4 56 0.0012 22.3 2.9 32 21-52 23-54 (86)
392 TIGR03755 conj_TIGR03755 integ 32.3 48 0.001 31.1 3.2 21 23-43 355-375 (418)
393 KOG3366 Mitochondrial F1F0-ATP 32.3 1.1E+02 0.0023 25.8 5.0 39 25-65 105-143 (172)
394 cd04790 HTH_Cfa-like_unk Helix 32.1 56 0.0012 26.0 3.2 18 30-47 79-96 (172)
395 cd00632 Prefoldin_beta Prefold 32.0 85 0.0018 22.8 3.9 24 25-48 20-43 (105)
396 PF00804 Syntaxin: Syntaxin; 32.0 44 0.00095 22.6 2.3 25 24-48 6-30 (103)
397 PF14817 HAUS5: HAUS augmin-li 31.9 55 0.0012 32.0 3.6 26 20-45 81-106 (632)
398 PRK04406 hypothetical protein; 31.8 55 0.0012 23.5 2.8 20 26-45 40-59 (75)
399 PF09969 DUF2203: Uncharacteri 31.8 1.2E+02 0.0027 23.3 4.9 26 21-46 16-41 (120)
400 PF00435 Spectrin: Spectrin re 31.8 1.4E+02 0.0031 19.2 4.8 39 23-61 46-85 (105)
401 PRK02793 phi X174 lysis protei 31.8 55 0.0012 23.1 2.8 24 23-46 6-29 (72)
402 TIGR02051 MerR Hg(II)-responsi 31.8 61 0.0013 24.3 3.2 22 27-48 78-99 (124)
403 PF03962 Mnd1: Mnd1 family; I 31.8 1.2E+02 0.0025 24.9 5.0 29 22-50 73-101 (188)
404 PF09311 Rab5-bind: Rabaptin-l 31.8 16 0.00034 29.4 0.0 17 31-47 56-72 (181)
405 PF10046 BLOC1_2: Biogenesis o 31.7 84 0.0018 23.0 3.9 26 27-52 51-76 (99)
406 PRK04325 hypothetical protein; 31.6 56 0.0012 23.2 2.8 24 23-46 7-30 (74)
407 PF09518 RE_HindIII: HindIII r 31.6 70 0.0015 29.2 4.0 18 33-50 263-280 (311)
408 PF14265 DUF4355: Domain of un 31.6 63 0.0014 23.8 3.2 35 22-56 46-80 (125)
409 PF10392 COG5: Golgi transport 31.5 96 0.0021 23.6 4.3 42 20-61 81-126 (132)
410 PRK00736 hypothetical protein; 31.5 56 0.0012 22.9 2.8 22 25-46 5-26 (68)
411 PF12808 Mto2_bdg: Micro-tubul 31.5 67 0.0015 22.1 3.1 22 23-44 27-48 (52)
412 PF11083 Streptin-Immun: Lanti 31.4 51 0.0011 25.6 2.7 18 26-43 53-70 (99)
413 PF11414 Suppressor_APC: Adeno 31.4 56 0.0012 24.2 2.9 44 25-72 7-50 (84)
414 PRK09343 prefoldin subunit bet 31.3 1E+02 0.0022 23.4 4.4 30 24-53 27-56 (121)
415 cd07596 BAR_SNX The Bin/Amphip 31.3 81 0.0017 24.0 3.8 30 19-48 111-140 (218)
416 PF10458 Val_tRNA-synt_C: Valy 31.3 83 0.0018 21.4 3.5 23 20-42 6-28 (66)
417 PF09429 Wbp11: WW domain bind 31.3 49 0.0011 23.7 2.5 28 33-60 38-68 (78)
418 cd01279 HTH_HspR-like Helix-Tu 31.3 67 0.0015 23.2 3.3 19 26-44 73-91 (98)
419 PF14978 MRP-63: Mitochondrial 31.1 32 0.0007 25.7 1.6 19 17-35 5-32 (91)
420 KOG4196 bZIP transcription fac 31.0 66 0.0014 26.3 3.4 28 29-58 78-105 (135)
421 PRK02119 hypothetical protein; 30.9 58 0.0013 23.1 2.8 25 23-47 7-31 (73)
422 PF14077 WD40_alt: Alternative 30.9 28 0.00061 24.0 1.1 26 29-60 15-40 (48)
423 PF08172 CASP_C: CASP C termin 30.8 54 0.0012 28.2 3.1 24 23-46 98-121 (248)
424 COG1329 Transcriptional regula 30.8 56 0.0012 27.3 3.1 27 25-51 125-151 (166)
425 PF09388 SpoOE-like: Spo0E lik 30.8 56 0.0012 20.8 2.5 16 29-44 1-16 (45)
426 PF04678 DUF607: Protein of un 30.8 72 0.0016 25.6 3.6 19 28-46 60-78 (180)
427 PRK10884 SH3 domain-containing 30.7 62 0.0013 27.1 3.4 22 23-44 123-144 (206)
428 PF04568 IATP: Mitochondrial A 30.7 79 0.0017 24.1 3.7 10 34-43 74-83 (100)
429 KOG4571 Activating transcripti 30.7 80 0.0017 28.6 4.2 38 9-48 219-264 (294)
430 COG3027 zapA Cell division pro 30.6 1E+02 0.0022 23.5 4.2 23 23-45 59-85 (105)
431 cd04777 HTH_MerR-like_sg1 Heli 30.6 80 0.0017 22.7 3.6 20 27-46 83-102 (107)
432 KOG1003 Actin filament-coating 30.5 49 0.0011 28.6 2.8 20 24-43 3-22 (205)
433 PF05008 V-SNARE: Vesicle tran 30.5 96 0.0021 21.0 3.8 25 18-42 54-78 (79)
434 PF06637 PV-1: PV-1 protein (P 30.5 86 0.0019 29.8 4.5 50 20-71 351-400 (442)
435 PF07996 T4SS: Type IV secreti 30.4 77 0.0017 24.7 3.7 30 23-52 24-53 (195)
436 PF07544 Med9: RNA polymerase 30.3 76 0.0016 22.7 3.4 10 33-42 60-69 (83)
437 PRK13130 H/ACA RNA-protein com 30.3 25 0.00053 24.5 0.8 14 15-28 38-51 (56)
438 PRK01885 greB transcription el 30.2 68 0.0015 25.5 3.4 32 13-44 5-37 (157)
439 cd04400 RhoGAP_fBEM3 RhoGAP_fB 30.1 82 0.0018 24.9 3.8 23 50-72 78-100 (190)
440 COG1043 LpxA Acyl-[acyl carrie 30.1 39 0.00085 30.1 2.2 47 22-68 212-258 (260)
441 PF14182 YgaB: YgaB-like prote 30.1 51 0.0011 24.7 2.5 25 24-48 39-63 (79)
442 PRK03947 prefoldin subunit alp 30.1 64 0.0014 24.3 3.1 18 23-40 18-35 (140)
443 PF14257 DUF4349: Domain of un 29.9 64 0.0014 26.7 3.3 31 22-52 166-196 (262)
444 TIGR01554 major_cap_HK97 phage 29.6 1.2E+02 0.0025 26.4 5.0 21 25-45 41-61 (378)
445 PF10376 Mei5: Double-strand r 29.6 75 0.0016 27.0 3.7 27 18-44 131-157 (221)
446 PRK09514 zntR zinc-responsive 29.6 80 0.0017 24.3 3.6 21 27-47 83-103 (140)
447 cd04779 HTH_MerR-like_sg4 Heli 29.6 56 0.0012 25.4 2.8 25 23-47 79-103 (134)
448 PF03961 DUF342: Protein of un 29.5 68 0.0015 28.8 3.6 24 22-45 379-402 (451)
449 PF00633 HHH: Helix-hairpin-he 29.5 28 0.0006 21.0 0.8 23 30-52 2-24 (30)
450 PF12795 MscS_porin: Mechanose 29.5 83 0.0018 25.9 3.9 34 20-53 152-185 (240)
451 PF00730 HhH-GPD: HhH-GPD supe 29.5 25 0.00053 24.7 0.7 48 38-85 38-89 (108)
452 PRK09514 zntR zinc-responsive 29.4 68 0.0015 24.7 3.2 27 20-46 83-109 (140)
453 cd04876 ACT_RelA-SpoT ACT dom 29.4 39 0.00085 19.5 1.5 20 32-51 51-70 (71)
454 COG4026 Uncharacterized protei 29.4 68 0.0015 28.8 3.5 21 26-46 157-177 (290)
455 PF12718 Tropomyosin_1: Tropom 29.2 62 0.0014 25.4 3.0 7 36-42 46-52 (143)
456 PRK11546 zraP zinc resistance 29.2 68 0.0015 26.0 3.2 21 24-44 88-108 (143)
457 PRK13768 GTPase; Provisional 29.1 1.1E+02 0.0024 25.3 4.6 37 55-91 209-248 (253)
458 PF08838 DUF1811: Protein of u 29.1 57 0.0012 25.4 2.7 26 27-52 9-34 (102)
459 KOG2391 Vacuolar sorting prote 29.0 68 0.0015 29.8 3.6 11 24-34 234-244 (365)
460 PF04006 Mpp10: Mpp10 protein; 28.9 45 0.00097 31.7 2.5 45 18-62 331-395 (600)
461 PRK10963 hypothetical protein; 28.9 59 0.0013 26.8 2.9 27 13-44 37-63 (223)
462 PF03961 DUF342: Protein of un 28.8 57 0.0012 29.3 3.0 23 23-45 332-354 (451)
463 cd07638 BAR_ACAP2 The Bin/Amph 28.8 50 0.0011 27.7 2.5 23 25-47 2-24 (200)
464 PF05529 Bap31: B-cell recepto 28.8 50 0.0011 26.2 2.4 19 25-43 154-172 (192)
465 PRK06008 flgL flagellar hook-a 28.7 83 0.0018 27.3 3.9 31 22-52 288-318 (348)
466 PRK05892 nucleoside diphosphat 28.7 81 0.0018 25.1 3.6 18 17-34 10-27 (158)
467 TIGR00636 PduO_Nterm ATP:cob(I 28.7 47 0.001 27.1 2.3 25 22-46 77-101 (171)
468 cd04779 HTH_MerR-like_sg4 Heli 28.6 72 0.0016 24.8 3.2 27 21-47 84-110 (134)
469 cd04776 HTH_GnyR Helix-Turn-He 28.5 64 0.0014 24.1 2.8 24 25-48 80-103 (118)
470 PF05377 FlaC_arch: Flagella a 28.5 85 0.0018 21.9 3.2 22 23-44 5-26 (55)
471 PHA03395 p10 fibrous body prot 28.4 86 0.0019 23.8 3.5 16 26-41 19-34 (87)
472 PF02388 FemAB: FemAB family; 28.4 1.4E+02 0.0029 26.8 5.3 17 24-40 248-264 (406)
473 PF07352 Phage_Mu_Gam: Bacteri 28.3 67 0.0015 24.8 3.0 14 56-69 54-67 (149)
474 PF04576 Zein-binding: Zein-bi 28.3 57 0.0012 24.9 2.5 17 26-42 78-94 (94)
475 PF05524 PEP-utilisers_N: PEP- 28.2 93 0.002 22.7 3.6 32 12-44 23-54 (123)
476 PRK15422 septal ring assembly 28.2 95 0.0021 23.3 3.6 26 21-46 7-32 (79)
477 PF14645 Chibby: Chibby family 28.2 68 0.0015 24.7 3.0 19 24-42 70-88 (116)
478 KOG3251 Golgi SNAP receptor co 28.1 1.1E+02 0.0023 26.5 4.4 37 27-63 5-44 (213)
479 PF00261 Tropomyosin: Tropomyo 28.1 67 0.0014 26.6 3.1 19 25-43 197-215 (237)
480 cd04786 HTH_MerR-like_sg7 Heli 28.0 1.4E+02 0.003 22.9 4.7 41 22-62 82-128 (131)
481 PF11598 COMP: Cartilage oligo 28.0 1E+02 0.0022 20.7 3.4 22 22-43 5-26 (45)
482 PF12841 YvrJ: YvrJ protein fa 28.0 74 0.0016 20.5 2.7 21 20-40 17-37 (38)
483 PF14335 DUF4391: Domain of un 27.9 81 0.0018 25.8 3.6 27 16-42 173-199 (221)
484 PRK11281 hypothetical protein; 27.8 54 0.0012 34.0 3.0 54 16-69 223-280 (1113)
485 TIGR01462 greA transcription e 27.8 76 0.0016 24.6 3.2 15 18-32 5-19 (151)
486 PF15568 Imm20: Immunity prote 27.8 24 0.00052 28.4 0.4 21 19-39 23-43 (129)
487 PF10191 COG7: Golgi complex c 27.7 97 0.0021 30.4 4.6 27 20-46 72-98 (766)
488 PF14782 BBS2_C: Ciliary BBSom 27.6 95 0.0021 28.9 4.3 50 17-74 53-102 (431)
489 cd04770 HTH_HMRTR Helix-Turn-H 27.6 58 0.0013 23.8 2.4 27 20-46 81-107 (123)
490 COG2919 Septum formation initi 27.6 50 0.0011 25.0 2.1 17 28-44 53-69 (117)
491 cd04387 RhoGAP_Bcr RhoGAP_Bcr: 27.5 63 0.0014 26.1 2.8 23 50-72 70-92 (196)
492 PF11559 ADIP: Afadin- and alp 27.4 77 0.0017 24.1 3.2 21 23-43 78-98 (151)
493 PF09177 Syntaxin-6_N: Syntaxi 27.4 85 0.0018 22.5 3.2 24 24-47 38-61 (97)
494 PF11221 Med21: Subunit 21 of 27.4 86 0.0019 24.4 3.4 21 23-43 102-122 (144)
495 TIGR01242 26Sp45 26S proteasom 27.4 69 0.0015 27.6 3.2 22 24-45 5-26 (364)
496 PRK01885 greB transcription el 27.3 52 0.0011 26.1 2.3 26 26-51 55-80 (157)
497 KOG0288 WD40 repeat protein Ti 27.3 66 0.0014 30.7 3.2 23 23-45 46-68 (459)
498 cd04381 RhoGap_RalBP1 RhoGap_R 27.3 1.1E+02 0.0025 24.1 4.2 21 51-71 72-92 (182)
499 PF10398 DUF2443: Protein of u 27.3 69 0.0015 24.1 2.7 26 23-48 48-73 (79)
500 TIGR01950 SoxR redox-sensitive 27.3 78 0.0017 24.7 3.2 28 20-47 82-109 (142)
No 1
>PF00631 G-gamma: GGL domain; InterPro: IPR015898 This entry represents the G protein gamma subunit and the GGL (G protein gamma-like) domain, which are related in sequence and are comprised of an extended alpha-helical polypeptide. The G protein gamma subunit forms a stable dimer with the beta subunit, but it does not make any contact with the alpha subunit, which contacts the opposite face of the beta subunit. The GGL domain is found in several RGS (regulators of G protein signaling) proteins. GGL domains can interact with beta subunits to form novel dimers that prevent gamma subunit binding, and may prevent heterotrimer formation by inhibiting alpha subunit binding. The interaction between G protein beta-5 neuro-specific isoforms and RGS GGL domains may represent a general mode of binding between beta-propeller proteins and their partners [].; GO: 0004871 signal transducer activity, 0007186 G-protein coupled receptor protein signaling pathway, 0005834 heterotrimeric G-protein complex; PDB: 3PSC_G 3SN6_G 1OMW_G 2BCJ_G 1GG2_G 3PVW_G 3PVU_G 3AH8_G 3CIK_G 1GP2_G ....
Probab=99.46 E-value=1.5e-14 Score=99.56 Aligned_cols=62 Identities=27% Similarity=0.489 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccccCCCchhhHHHHHhCC
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVNRKNRRSCRFWKWLCGT 88 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t~g~~~s~~~~rW~~~~ 88 (163)
++++++|.+||.+|++||+. |++ +||++|+||++||++.+|||||...|+.+ .++..|+.+.
T Consensus 1 ~~~~~~l~~ei~~L~~el~~-~r~-~vS~a~~~li~y~~~~~DPll~~~~~p~~-~~~NPw~~~~ 62 (68)
T PF00631_consen 1 KQEKDQLKREIEQLRQELER-ERI-KVSKACKELIEYCESTPDPLLPGPWGPPS-SSSNPWIEKD 62 (68)
T ss_dssp -THHHHHHHHHHHHHHHHTS------HHHHHHHHHHHHHGTC-HHHHT--SS---GGGSTTCC-S
T ss_pred ChHHHHHHHHHHHHHHHHcc-cce-eHHHHHHHHHHHhcCCCCceeCCCCCCCC-ccCCCCcCCC
Confidence 46789999999999999999 999 99999999999999999999999987764 6667888873
No 2
>cd00068 GGL G protein gamma subunit-like motifs, the alpha-helical G-gamma chain dimerizes with the G-beta propeller subunit as part of the heterotrimeric G-protein complex; involved in signal transduction via G-protein-coupled receptors
Probab=97.45 E-value=0.00023 Score=48.34 Aligned_cols=48 Identities=21% Similarity=0.353 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhc--CCCCcccccCCCc
Q 037836 28 QVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAK--SDPLIPVNRKNRR 77 (163)
Q Consensus 28 q~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~--pDPLLP~t~g~~~ 77 (163)
+++.++|.+|+.||+- + --+||.++.|++.|++.. .||||+...++.|
T Consensus 2 ~~~~~~veqLr~el~~-~-RikvS~a~~~l~~y~e~~~~~Dpll~g~~~~~N 51 (57)
T cd00068 2 DQLKKEVEQLRKELSR-E-RLKVSKAAAELLKYCEQNAENDPLLTGPPSPSN 51 (57)
T ss_pred HHHHHHHHHHHHHHCC-c-hhhHHHHHHHHHHHHHhcCCCCCCCCCCCCCCC
Confidence 5788889999999874 4 568999999999999999 9999987765545
No 3
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=96.45 E-value=0.005 Score=42.54 Aligned_cols=43 Identities=26% Similarity=0.422 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhh--hcCCCCcccc
Q 037836 28 QVLEREISFLEEELKTVDRFHPASRSCKEVADFVV--AKSDPLIPVN 72 (163)
Q Consensus 28 q~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ve--s~pDPLLP~t 72 (163)
+++.+||.+|++||+- + --+||.++.+++.|++ ..-||||.-.
T Consensus 2 ~~~~~~ve~Lr~el~~-~-RikvS~a~~~li~y~e~~~~~DP~l~g~ 46 (63)
T smart00224 2 DQLRKEVEQLRKELSR-E-RIKVSKAAEELLAYCEQHAEEDPLLTGP 46 (63)
T ss_pred hHHHHHHHHHHHHHCC-c-eehHHHHHHHHHHHHHcCCCCCCCcCCC
Confidence 5788999999999975 3 5689999999999999 5677777443
No 4
>KOG4119 consensus G protein gamma subunit [Signal transduction mechanisms]
Probab=95.73 E-value=0.018 Score=41.88 Aligned_cols=52 Identities=17% Similarity=0.308 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcC--CCCcccccCCCc
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKS--DPLIPVNRKNRR 77 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~p--DPLLP~t~g~~~ 77 (163)
.+++.++.+++..|..|+. +| -.+||.+.+||.+|+|+.. ||||-.-...+|
T Consensus 6 ~~~~~q~k~~VeqLk~e~~-~~-R~~vS~a~~el~~y~E~~~~~DpLl~gv~~~~N 59 (71)
T KOG4119|consen 6 NSKKPQMKKEVEQLKLEAN-IE-RIKVSKAAAELLEYCETHATEDPLLEGVPEKEN 59 (71)
T ss_pred ccchHHHHHHHHHHHHHHH-hh-HhhHHHHHHHHHHHHHhcCccCccccCCccccC
Confidence 3456777888888888876 34 6789999999999999988 999977666666
No 5
>PRK14011 prefoldin subunit alpha; Provisional
Probab=95.52 E-value=0.017 Score=45.94 Aligned_cols=54 Identities=19% Similarity=0.310 Sum_probs=47.5
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccccC
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVNRK 74 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t~g 74 (163)
..++++|++|.+||..|+++|+.|+.+..=-..++|.++.+....+=|+|+|.|
T Consensus 6 q~~~~~l~~~~~qie~L~~si~~L~~a~~e~~~~ie~L~~l~~~~eiLVPLg~s 59 (144)
T PRK14011 6 QNQFMALEVYNQQVQKLQEELSSIDMMKMELLKSIESMEGLKTSEEILIPLGPG 59 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCeEEEEcCCC
Confidence 457889999999999999999999987776678889998888888999999876
No 6
>PRK01203 prefoldin subunit alpha; Provisional
Probab=94.45 E-value=0.048 Score=43.20 Aligned_cols=54 Identities=13% Similarity=0.163 Sum_probs=43.4
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhh--hcCCCCcccccC
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVV--AKSDPLIPVNRK 74 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ve--s~pDPLLP~t~g 74 (163)
+-..++++.|++||..|+++|++|+....=-..++|.+..+. ...+=|+|+|.|
T Consensus 3 ~~~~~~~~~~~~q~e~l~~ql~~L~~a~se~~~~ie~L~~~~~~~~~eiLVPLg~s 58 (130)
T PRK01203 3 RDVEAQLNYIESLISSVDSQIDSLNKTLSEVQQTISFLSDNELDNSKELLISIGSG 58 (130)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCeEEEEccCC
Confidence 346789999999999999999999887766667777777753 567778999876
No 7
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=93.46 E-value=0.1 Score=38.55 Aligned_cols=52 Identities=15% Similarity=0.301 Sum_probs=38.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhc--CCCCcccccC
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAK--SDPLIPVNRK 74 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~--pDPLLP~t~g 74 (163)
+++++++|++||..|+..+.+|+..-+--...+|+++++..+ .+=|+|++.+
T Consensus 4 l~~q~~ql~~~i~~l~~~i~~l~~~i~e~~~~~~~L~~l~~~~~~~~lv~lg~~ 57 (126)
T TIGR00293 4 LAAELQILQQQVESLQAQIAALRALIAELETAIETLEDLKGAEGKETLVPVGAG 57 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCeEEEEcCCC
Confidence 566777777777777777777777766666778999999876 3447788765
No 8
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=92.25 E-value=0.23 Score=37.57 Aligned_cols=54 Identities=19% Similarity=0.297 Sum_probs=41.7
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhh---cCCCCcccccC
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVA---KSDPLIPVNRK 74 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves---~pDPLLP~t~g 74 (163)
..+++.+++|+++|..|+.++.+|+..-+--...+|.++++.. ..+=|+|++.+
T Consensus 9 ~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~e~l~~l~~~~~~~e~lvplg~~ 65 (140)
T PRK03947 9 EELAAQLQALQAQIEALQQQLEELQASINELDTAKETLEELKSKGEGKETLVPIGAG 65 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCeEEEEcCCC
Confidence 3567778889999999999999888887777788888888874 44456676654
No 9
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=92.09 E-value=0.23 Score=39.84 Aligned_cols=54 Identities=17% Similarity=0.287 Sum_probs=46.7
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcC---CCCcccccC
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKS---DPLIPVNRK 74 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~p---DPLLP~t~g 74 (163)
.++.|+++.|++||..|+.+|..|+.+..-=+-++|-++++.+.. -=|+|+..|
T Consensus 9 e~l~a~lq~l~~qie~L~~~i~~l~~~~~e~~~~~~tl~~lk~~~~g~E~LVpvGag 65 (145)
T COG1730 9 EELAAQLQILQSQIESLQAQIAALNAAISELQTAIETLENLKGAGEGKEVLVPVGAG 65 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEcCCC
Confidence 478899999999999999999999988888888999999998877 668887765
No 10
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=90.85 E-value=0.11 Score=43.07 Aligned_cols=66 Identities=12% Similarity=0.131 Sum_probs=48.0
Q ss_pred hhhhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccccCCCchhhHHH
Q 037836 18 YGKRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVNRKNRRSCRFWK 83 (163)
Q Consensus 18 ~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t~g~~~s~~~~r 83 (163)
.....+.+|.++|++|+..|+.|+.+++.+..-..--++++++....+-.+++..-=.++...|++
T Consensus 69 ~~~~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~~~~~~~~~i~A~Vi~~~~~~~~~ 134 (276)
T PRK13922 69 ASLFDLREENEELKKELLELESRLQELEQLEAENARLRELLNLKESLDYQFITARVISRSPDPWSQ 134 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccCCCceEEEEEEEeCCCCcee
Confidence 346678889999999999999999999888888888899988887766455554433333334433
No 11
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=89.97 E-value=0.49 Score=31.42 Aligned_cols=25 Identities=28% Similarity=0.462 Sum_probs=21.7
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 20 KRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
..|...+++++++|++-||.|+++|
T Consensus 43 ~~~~r~~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 43 RLRLRRRIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4677788999999999999999876
No 12
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=89.70 E-value=0.56 Score=36.43 Aligned_cols=41 Identities=24% Similarity=0.265 Sum_probs=34.3
Q ss_pred CCCCCchhhhHhHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 12 PEYPDLYGKRRELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 12 P~~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
.+.|..---.|++++|.++|-|+..|++||..|+.....-+
T Consensus 10 ~~~~~~~~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~ 50 (120)
T PF12325_consen 10 SGGPSVQLVERLQSQLRRLEGELASLQEELARLEAERDELR 50 (120)
T ss_pred cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566777789999999999999999999999988765443
No 13
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=88.63 E-value=0.74 Score=34.15 Aligned_cols=53 Identities=25% Similarity=0.360 Sum_probs=39.1
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhh---cCCCCcccccC
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVA---KSDPLIPVNRK 74 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves---~pDPLLP~t~g 74 (163)
.+++.+++|++||..|+.+++.|+....--...++.++.+.. ..+=|+|++.+
T Consensus 3 ~l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lvplg~~ 58 (129)
T cd00584 3 QLAAQLQVLQQEIEELQQELARLNEAIAEYEQAKETLETLKKADEGKETLVPLGAG 58 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCC
Confidence 356778888888888888888888777777777787777764 44567777654
No 14
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=86.75 E-value=1.3 Score=29.18 Aligned_cols=28 Identities=29% Similarity=0.401 Sum_probs=21.0
Q ss_pred hhhhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 18 YGKRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 18 ~GKhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+.|.|..+.++.|++++.+|++|..+|+
T Consensus 18 r~R~rkk~~~~~le~~~~~L~~en~~L~ 45 (54)
T PF07716_consen 18 RSRQRKKQREEELEQEVQELEEENEQLR 45 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466777778888888888888877774
No 15
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=86.03 E-value=0.99 Score=30.89 Aligned_cols=25 Identities=28% Similarity=0.473 Sum_probs=21.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
+.+|+++|++|+.-|+.+|+.+++.
T Consensus 2 ~~~E~~rL~Kel~kl~~~i~~~~~k 26 (66)
T PF10458_consen 2 VEAEIERLEKELEKLEKEIERLEKK 26 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688999999999999999888753
No 16
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=86.02 E-value=1.1 Score=32.97 Aligned_cols=25 Identities=28% Similarity=0.250 Sum_probs=21.7
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
|-|+-|-.+|++||+-||+||+++-
T Consensus 3 ~ei~eEn~~Lk~eiqkle~ELq~~~ 27 (76)
T PF07334_consen 3 HEIQEENARLKEEIQKLEAELQQNK 27 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788899999999999999998854
No 17
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=85.21 E-value=2 Score=31.47 Aligned_cols=48 Identities=23% Similarity=0.295 Sum_probs=34.9
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCC
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDP 67 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDP 67 (163)
+....++|..|..+|..|+.++..+|..=.-....+++++.|....+-
T Consensus 76 ~~~k~~ei~~l~~~l~~l~~~~~k~e~~l~~~~~Y~~fL~~v~~~~~e 123 (126)
T PF13863_consen 76 KEEKEAEIKKLKAELEELKSEISKLEEKLEEYKKYEEFLEKVVPKSPE 123 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccC
Confidence 445667778888888888877777777666667788888887666553
No 18
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=83.75 E-value=1.7 Score=35.40 Aligned_cols=38 Identities=18% Similarity=0.285 Sum_probs=33.2
Q ss_pred CCchhhhHhHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 15 PDLYGKRRELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 15 pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
.+...|.+++++++.|++|+..|+.||+.+...+|...
T Consensus 100 ~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i 137 (188)
T PF03962_consen 100 EESEEREELLEELEELKKELKELKKELEKYSENDPEKI 137 (188)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHH
Confidence 45578899999999999999999999999988888654
No 19
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=82.72 E-value=2 Score=28.24 Aligned_cols=24 Identities=29% Similarity=0.321 Sum_probs=20.4
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
-+..+|+.|+.|...|+.++..|+
T Consensus 29 ~le~~~~~L~~en~~L~~~i~~L~ 52 (54)
T PF07716_consen 29 ELEQEVQELEEENEQLRQEIAQLE 52 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 466788999999999999998886
No 20
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=81.46 E-value=2.5 Score=28.25 Aligned_cols=21 Identities=24% Similarity=0.400 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 037836 24 LAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~L 44 (163)
+.+++.|++|+..|++|++.|
T Consensus 30 ~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 30 QKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 344444555555555555555
No 21
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=81.15 E-value=3.3 Score=29.92 Aligned_cols=44 Identities=18% Similarity=0.285 Sum_probs=23.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh----cccCchhh---------hhHHHHHhhhhcCC
Q 037836 23 ELAKVQVLEREISFLEEELKTV----DRFHPASR---------SCKEVADFVVAKSD 66 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~L----E~~~paS~---------~CKEv~~~Ves~pD 66 (163)
+..=|+.|+.|++.|.-|+.+| ..++++.. -.++++.-+|.+.|
T Consensus 15 Ls~vl~~LqDE~~hm~~e~~~L~~~~~~~d~s~~~~~R~~L~~~l~~lv~~mE~K~d 71 (79)
T PF06657_consen 15 LSEVLKALQDEFGHMKMEHQELQDEYKQMDPSLGRRKRRDLEQELEELVKRMEAKAD 71 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444566666666665555554 33333331 45566666666654
No 22
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=80.34 E-value=3.1 Score=33.43 Aligned_cols=33 Identities=18% Similarity=0.190 Sum_probs=24.0
Q ss_pred CCCCCCC-CCCCCchhhhHhHHHHHHHHHHHHHH
Q 037836 5 PPCPKSP-PEYPDLYGKRRELAKVQVLEREISFL 37 (163)
Q Consensus 5 ~p~PKsP-P~~pD~~GKhR~~Aelq~LeqEI~fL 37 (163)
+++|.++ +.|--..|..++++||++|..+|.-.
T Consensus 20 ~~r~~~~~~~~lT~~G~~~L~~El~~L~~~i~~A 53 (160)
T PRK06342 20 PDRPISPHPNLVTEAGLKALEDQLAQARAAYEAA 53 (160)
T ss_pred CCCCCCCCCceECHHHHHHHHHHHHHHHHHHHHH
Confidence 4566544 56667789999999999997766554
No 23
>PF08286 Spc24: Spc24 subunit of Ndc80; InterPro: IPR013252 Spc24 is a component of the evolutionarily conserved kinetochore-associated Ndc80 complex and is involved in chromosome segregation [].; PDB: 2VE7_D 2FV4_B 2FTX_B.
Probab=80.23 E-value=0.48 Score=35.55 Aligned_cols=25 Identities=32% Similarity=0.377 Sum_probs=0.0
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 20 KRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
|-+++.+++.||++|.+|+.||++|
T Consensus 8 k~~laK~~~~LE~~l~~l~~el~~L 32 (118)
T PF08286_consen 8 KFRLAKELSDLESELESLQSELEEL 32 (118)
T ss_dssp -------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555444433
No 24
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=79.91 E-value=1.9 Score=35.80 Aligned_cols=36 Identities=25% Similarity=0.471 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhh
Q 037836 28 QVLEREISFLEEELKTVDRFHPASRSCKEVADFVVA 63 (163)
Q Consensus 28 q~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves 63 (163)
+.|+.||.-|++|++.||+++.-+..-|.=..++++
T Consensus 123 ~eL~~eI~~L~~~i~~le~~~~~~k~LrnKa~~L~~ 158 (171)
T PF04799_consen 123 NELEDEIKQLEKEIQRLEEIQSKSKTLRNKANWLES 158 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568999999999999999999988887765555543
No 25
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=79.73 E-value=2.7 Score=28.08 Aligned_cols=27 Identities=19% Similarity=0.210 Sum_probs=20.8
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
..++.++++.|+++|.-|++|.++|+.
T Consensus 19 ~~~~~~ei~~l~~~i~~l~~e~~~L~~ 45 (80)
T PF04977_consen 19 YYQLNQEIAELQKEIEELKKENEELKE 45 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677888888888888888887753
No 26
>TIGR03709 PPK2_rel_1 polyphosphate:nucleotide phosphotransferase, PPK2 family. Members of this protein family belong to the polyphosphate kinase 2 (PPK2) family, which is not related in sequence to PPK1. While PPK1 tends to act in the biosynthesis of polyphosphate, or poly(P), members of the PPK2 family tend to use the terminal phosphate of poly(P) to regenerate ATP or GTP from the corresponding nucleoside diphosphate, or ADP from AMP as is the case with polyphosphate:AMP phosphotransferase (PAP). Members of this protein family most likely transfer the terminal phosphate between poly(P) and some nucleotide, but it is not clear which.
Probab=79.69 E-value=5 Score=34.73 Aligned_cols=47 Identities=23% Similarity=0.276 Sum_probs=36.6
Q ss_pred CCchhhhHhHHHHHHHHHHHHHHHHHHhh---------hcccCchhh--hhHHHHHhh
Q 037836 15 PDLYGKRRELAKVQVLEREISFLEEELKT---------VDRFHPASR--SCKEVADFV 61 (163)
Q Consensus 15 pD~~GKhR~~Aelq~LeqEI~fLEEEL~~---------LE~~~paS~--~CKEv~~~V 61 (163)
|.+.+|....++++.|..++..||.+|.. +||++.|-+ .-+.|++.+
T Consensus 23 ~~~~~k~~y~~~l~~l~~~L~~LQ~~l~~~~~~~vlIv~eG~DaAGKG~~I~~l~~~l 80 (264)
T TIGR03709 23 PGFDSKEEAEALLAELVARLSDLQEKLYAEGRRSLLLVLQAMDAAGKDGTIRHVMSGV 80 (264)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCCchHHHHHHHHhc
Confidence 34445999999999999999999999976 588888877 445555444
No 27
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=79.59 E-value=0.73 Score=33.29 Aligned_cols=43 Identities=21% Similarity=0.391 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhh---hcCCCCcccccC
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVV---AKSDPLIPVNRK 74 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ve---s~pDPLLP~t~g 74 (163)
++++.|+++|..|++++++++.+ +|.++.+. ...+-|+|++.+
T Consensus 3 ~~l~~l~~~~~~l~~~~~e~~~~-------~~~l~~l~~~~~~~~~lvplg~~ 48 (120)
T PF02996_consen 3 EELENLQQQIEQLEEQIEEYEEA-------KETLEELKKEKKEHEILVPLGSG 48 (120)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHHH-------HHHHHHHTT--TT-EEEEEECTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhccCCCceeeecCCCC
Confidence 45677777787777777776543 33333332 345556666654
No 28
>PF02185 HR1: Hr1 repeat; InterPro: IPR000861 The HR1 repeat was first described as a three times repeated homology region of the N-terminal non-catalytic part of protein kinase PRK1(PKN) []. The first two of these repeats were later shown to bind the small G protein rho [, ] known to activate PKN in its GTP-bound form. Similar rho-binding domains also occur in a number of other protein kinases and in the rho-binding proteins rhophilin and rhotekin. Recently, the structure of the N-terminal HR1 repeat complexed with RhoA has been determined by X-ray crystallography []. It forms an antiparallel coiled-coil fold termed an ACC finger. This entry includes domains found within rho-associated protein kinases.; GO: 0007165 signal transduction, 0005622 intracellular; PDB: 1CXZ_B 3O0Z_C 2RMK_B 1URF_A.
Probab=78.96 E-value=3 Score=28.47 Aligned_cols=32 Identities=16% Similarity=0.257 Sum_probs=26.1
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchh
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPAS 51 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS 51 (163)
+.+.+.+|...++.|.+|+++|+.|.....++
T Consensus 35 ~~~~~~~l~~s~~kI~~L~~~L~~l~~~~~~~ 66 (70)
T PF02185_consen 35 LSEAESQLRESNQKIELLREQLEKLQQRSQNS 66 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCCHH--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCC
Confidence 56778889999999999999999998766544
No 29
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=77.91 E-value=4.3 Score=27.22 Aligned_cols=26 Identities=23% Similarity=0.373 Sum_probs=19.7
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
|.|..+.++.||+++..|+.|.+.|.
T Consensus 21 R~RKk~~~~~Le~~~~~L~~en~~L~ 46 (64)
T PF00170_consen 21 RQRKKQYIEELEEKVEELESENEELK 46 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 56777778888888888887777765
No 30
>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=77.49 E-value=2 Score=36.95 Aligned_cols=63 Identities=8% Similarity=0.023 Sum_probs=38.6
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcc-cCchhhhhHHHHHhhhhcCCCCcccccCCCchhhHH
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDR-FHPASRSCKEVADFVVAKSDPLIPVNRKNRRSCRFW 82 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~-~~paS~~CKEv~~~Ves~pDPLLP~t~g~~~s~~~~ 82 (163)
.+++++|-++|.+|+..|+++++.+.. +..--.-.|+++++-+..++..++..-=.++...|+
T Consensus 68 ~~~l~~EN~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~~~~~~~~~~i~A~Vi~r~~~~~~ 131 (283)
T TIGR00219 68 VNNLEYENYKLRQELLKKNQQLEILTQNLKQENVRLRELLNSPLSSDEYKISAEVIYLNYDNYS 131 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccCCceEEEEEEeCCCccc
Confidence 445666777777777666555554433 444455678888888877777766554444444444
No 31
>PF08286 Spc24: Spc24 subunit of Ndc80; InterPro: IPR013252 Spc24 is a component of the evolutionarily conserved kinetochore-associated Ndc80 complex and is involved in chromosome segregation [].; PDB: 2VE7_D 2FV4_B 2FTX_B.
Probab=77.43 E-value=0.74 Score=34.53 Aligned_cols=43 Identities=19% Similarity=0.206 Sum_probs=5.6
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCccc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPV 71 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~ 71 (163)
-+.++|++|++|+..|+++|++||..+.. ..-|+...++-+|.
T Consensus 17 ~LE~~l~~l~~el~~L~~~l~eLe~~~~~-------~~~~~~~~~~~~d~ 59 (118)
T PF08286_consen 17 DLESELESLQSELEELKEELEELEEQEVE-------GEEVDEDTTEEIDS 59 (118)
T ss_dssp --------------------------HT-------------CCCCCHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh-------hcccccccCcccch
Confidence 35678899999999999999999887766 33344444444443
No 32
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=76.80 E-value=5.4 Score=28.81 Aligned_cols=45 Identities=16% Similarity=0.251 Sum_probs=29.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCC
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDP 67 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDP 67 (163)
+.+++++|+++|..|+.++..|+....--..-++.++.+....+.
T Consensus 4 l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~ 48 (129)
T cd00890 4 LAAQLQQLQQQLEALQQQLQKLEAQLTEYEKAKETLETLKKAEEE 48 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCC
Confidence 456667777777777777777666665555667777777654443
No 33
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=76.56 E-value=2.7 Score=29.22 Aligned_cols=24 Identities=21% Similarity=0.551 Sum_probs=14.4
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+.+.+|.+|+++++.|.+.|++++
T Consensus 29 ~Qq~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 29 EQQRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 556777788888888887777765
No 34
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=75.87 E-value=4.4 Score=27.83 Aligned_cols=23 Identities=26% Similarity=0.320 Sum_probs=11.4
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhh
Q 037836 22 RELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~L 44 (163)
...++++.+++|+..|++|-++|
T Consensus 28 ~~~~~~~~~~~~~~~l~~en~~L 50 (85)
T TIGR02209 28 QLNNELQKLQLEIDKLQKEWRDL 50 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555555444444
No 35
>PRK02793 phi X174 lysis protein; Provisional
Probab=75.83 E-value=4.5 Score=28.65 Aligned_cols=25 Identities=20% Similarity=0.292 Sum_probs=14.4
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.+.+|++|+++++.|.+.|++++.
T Consensus 33 ~Qq~~I~~L~~~l~~L~~rl~~~~~ 57 (72)
T PRK02793 33 AHEMEMAKLRDHLRLLTEKLKASQP 57 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4455566666666666666655543
No 36
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=75.27 E-value=7.7 Score=27.25 Aligned_cols=29 Identities=24% Similarity=0.301 Sum_probs=19.5
Q ss_pred CCchhhhHhHHHHHHHHHHHHHHHHHHhh
Q 037836 15 PDLYGKRRELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 15 pD~~GKhR~~Aelq~LeqEI~fLEEEL~~ 43 (163)
=+.++-.-+...|..|+.||.-+|.++..
T Consensus 18 Ls~lSv~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 18 LSLLSVEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred chhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666667777777777777776654
No 37
>PRK14127 cell division protein GpsB; Provisional
Probab=74.76 E-value=3.9 Score=31.57 Aligned_cols=28 Identities=11% Similarity=0.156 Sum_probs=20.2
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
++.+|++.|+.|+..|+++|+++++--.
T Consensus 41 ~l~~e~~~Lk~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 41 AFQKEIEELQQENARLKAQVDELTKQVS 68 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4566777888888888888887776433
No 38
>PF10737 GerPC: Spore germination protein GerPC; InterPro: IPR019673 GerPC is required for the formation of functionally normal spores. The gerP locus encodes a number of proteins which are thought to be involved in the establishment of normal spore coat structure and/or permeability, which allows the access of germinants to their receptor [].
Probab=74.35 E-value=2.3 Score=35.30 Aligned_cols=21 Identities=29% Similarity=0.575 Sum_probs=14.0
Q ss_pred hHHHHHhhhhcCCCCcccccC
Q 037836 54 CKEVADFVVAKSDPLIPVNRK 74 (163)
Q Consensus 54 CKEv~~~Ves~pDPLLP~t~g 74 (163)
=+++.+|.....+|=+|...+
T Consensus 54 ~~~i~d~~v~~~~~~~~~~~~ 74 (176)
T PF10737_consen 54 GQSIEDFAVNQESPSIPPPEQ 74 (176)
T ss_pred cchHhHhhcCCcCCCCCCccc
Confidence 357777777777777765443
No 39
>smart00338 BRLZ basic region leucin zipper.
Probab=74.14 E-value=6.1 Score=26.45 Aligned_cols=27 Identities=30% Similarity=0.489 Sum_probs=19.6
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
.+-|..+.++.||.++..|+.|-+.|.
T Consensus 20 ~R~rKk~~~~~Le~~~~~L~~en~~L~ 46 (65)
T smart00338 20 SRERKKAEIEELERKVEQLEAENERLK 46 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667777888888888877777664
No 40
>PRK00846 hypothetical protein; Provisional
Probab=73.99 E-value=5.4 Score=29.25 Aligned_cols=25 Identities=20% Similarity=0.037 Sum_probs=13.9
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.+.+|.+|.++++.|-+.|++++.
T Consensus 38 ~qq~~I~~L~~ql~~L~~rL~~~~~ 62 (77)
T PRK00846 38 DARLTGARNAELIRHLLEDLGKVRS 62 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3455555555666666555555553
No 41
>PF03285 Paralemmin: Paralemmin; InterPro: IPR004965 Paralemmin was identified in the chicken lens as a protein with a molecular weight of 65 kDa (isoform 1) and a splice variant of 60 kDa (isoform 2). Isoform 2 is predominant during infancy and levels of isoform 1 increase with age. Paralemmin is localised to the plasma membrane of fibre cells, and was not detected in the annular pad cells. Its localisation to the short side of the fibre cell and the sites of fibre cell interlocking suggests that paralemmin may play a role in the development of such interdigitating processes []. Palmitoylation is important for localising these proteins to the filopodia of dendritic cells where they have been implicated in the regulation of membrane dynamics and process outgrowth. ; GO: 0008360 regulation of cell shape, 0016020 membrane
Probab=73.65 E-value=3.9 Score=36.14 Aligned_cols=28 Identities=25% Similarity=0.351 Sum_probs=21.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
-+++.+.||.-|.-||.||+.||+-+.+
T Consensus 8 DEqKtR~LEesI~RLEkEIe~LE~~es~ 35 (278)
T PF03285_consen 8 DEQKTRSLEESIHRLEKEIEALENGESQ 35 (278)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence 3567888888888888888888885544
No 42
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=73.31 E-value=5.3 Score=33.00 Aligned_cols=53 Identities=17% Similarity=0.272 Sum_probs=42.0
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCC---CCccccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSD---PLIPVNR 73 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pD---PLLP~t~ 73 (163)
.-+-+=.+++|||+.||++-|..|-|.+---+.+++-+..|..+++ -|+|.|.
T Consensus 16 eQL~~lk~q~dqEl~~lq~Sl~~L~~aq~k~~~~~~aln~~~~~~eGk~~LVPLTs 71 (153)
T KOG3048|consen 16 EQLGALKKQFDQELNFLQDSLNALKGAQTKYEESIAALNDVQAANEGKKLLVPLTS 71 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCeEEEeccc
Confidence 3444556899999999999999999999888888888887776665 3666653
No 43
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=73.27 E-value=5.4 Score=29.13 Aligned_cols=26 Identities=23% Similarity=0.411 Sum_probs=22.1
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
-..+.+||..||-||..||..+.+|.
T Consensus 56 ~keLL~EIA~lE~eV~~LE~~v~~L~ 81 (88)
T PF14389_consen 56 AKELLEEIALLEAEVAKLEQKVLSLY 81 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35678999999999999999988874
No 44
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=73.15 E-value=3.7 Score=29.76 Aligned_cols=23 Identities=30% Similarity=0.501 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcc
Q 037836 24 LAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.-|..|++.|..||+|++.|+-
T Consensus 24 llsV~El~eRIalLq~EIeRlkA 46 (65)
T COG5509 24 LLSVAELEERIALLQAEIERLKA 46 (65)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHH
Confidence 44578899999999999998873
No 45
>PF10975 DUF2802: Protein of unknown function (DUF2802); InterPro: IPR021244 This bacterial family of proteins has no known function.
Probab=72.54 E-value=11 Score=26.73 Aligned_cols=44 Identities=16% Similarity=0.251 Sum_probs=33.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCC
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSD 66 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pD 66 (163)
+--+|+.|++.+.-|++.+++++--++.+..=..-+..|+...|
T Consensus 3 ~g~~l~~l~~~l~~l~~~~~~~~~~d~~~~~Y~~A~klv~~Ga~ 46 (70)
T PF10975_consen 3 MGQRLAELEQQLKQLEDQQEELEQRDPDSPLYSQAIKLVRQGAS 46 (70)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHcCCCCcchHHHHHHHHHcCCC
Confidence 34568899999999999999999988888765555555554433
No 46
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=72.15 E-value=9.5 Score=29.72 Aligned_cols=33 Identities=18% Similarity=0.230 Sum_probs=25.5
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
...++.+++.|+++++.|+.||..|........
T Consensus 81 i~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~e 113 (169)
T PF07106_consen 81 IKELREELAELKKEVKSLEAELASLSSEPTNEE 113 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHH
Confidence 445677888888888888889988888775544
No 47
>PRK10697 DNA-binding transcriptional activator PspC; Provisional
Probab=72.14 E-value=5.4 Score=31.17 Aligned_cols=27 Identities=19% Similarity=0.398 Sum_probs=21.9
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
+.-.+.|.+|++|.+.+|.-|.++|.-
T Consensus 77 ~s~~~~l~~~~~~~~~~e~Rlr~mE~y 103 (118)
T PRK10697 77 PSSSELLDEVDRELAAGEQRLREMERY 103 (118)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455999999999999999999863
No 48
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=72.00 E-value=5.3 Score=23.72 Aligned_cols=18 Identities=33% Similarity=0.409 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 037836 26 KVQVLEREISFLEEELKT 43 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~ 43 (163)
||++|.+.|+-||.+|..
T Consensus 2 E~~rlr~rI~dLer~L~~ 19 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLSE 19 (23)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 688899999999988864
No 49
>PRK02119 hypothetical protein; Provisional
Probab=71.63 E-value=6.5 Score=27.97 Aligned_cols=23 Identities=9% Similarity=0.362 Sum_probs=11.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhc
Q 037836 23 ELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
.+.+|++|+++++.|.+.|++++
T Consensus 35 Qq~~id~L~~ql~~L~~rl~~~~ 57 (73)
T PRK02119 35 QQFVIDKMQVQLRYMANKLKDMQ 57 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Confidence 34445555555555555555544
No 50
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=71.52 E-value=3.7 Score=30.56 Aligned_cols=25 Identities=12% Similarity=0.146 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
.++++.+|++|++-|+.|++-|.+.
T Consensus 76 ~~~ei~~L~~el~~L~~E~diLKKa 100 (121)
T PRK09413 76 AMKQIKELQRLLGKKTMENELLKEA 100 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677888888888888887755443
No 51
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=71.49 E-value=5.2 Score=31.52 Aligned_cols=29 Identities=21% Similarity=0.336 Sum_probs=24.9
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
++-.+||+||..+..||..|.++.|++.+
T Consensus 25 ~~e~~Lq~~E~~l~iLEaKL~SIpgLe~v 53 (148)
T PF10152_consen 25 DMEQRLQRLEATLNILEAKLSSIPGLEDV 53 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccccccc
Confidence 45567999999999999999999887665
No 52
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=71.34 E-value=7.2 Score=36.12 Aligned_cols=38 Identities=16% Similarity=0.180 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhh
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFV 61 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~V 61 (163)
..++++|++|+..|++|+++|+.+.+..--=+||.+|.
T Consensus 401 ~~e~~kL~~e~~~l~~ei~~l~~~t~~~~w~~DL~~~~ 438 (439)
T PHA02592 401 SDEREKLQKEAEELEKEHEYWKKTTAKKEYIKDLEELK 438 (439)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 45889999999999999999999987776777776653
No 53
>PF01601 Corona_S2: Coronavirus S2 glycoprotein; InterPro: IPR002552 The type I glycoprotein S of Coronavirus, trimers of which constitute the typical viral spikes, is assembled into virions through noncovalent interactions with the M protein. The spike glycoprotein is translated as a large polypeptide that is subsequently cleaved to S1 IPR002551 from INTERPRO and S2 []. Both chimeric S proteins appeared to cause cell fusion when expressed individually, suggesting that they were biologically fully active []. The spike is a type I membrane glycoprotein that possesses a conserved transmembrane anchor and an unusual cysteine-rich (cys) domain that bridges the putative junction of the anchor and the cytoplasmic tail [].; GO: 0006944 cellular membrane fusion, 0046813 virion attachment, binding of host cell surface receptor, 0016021 integral to membrane, 0019031 viral envelope; PDB: 2BEQ_B 2FXP_A 1ZVB_A 1WNC_D 1ZV8_H 1ZV7_B 1WYY_B 1ZVA_A 2BEZ_F 1WDG_A ....
Probab=71.08 E-value=2.1 Score=41.61 Aligned_cols=28 Identities=14% Similarity=0.203 Sum_probs=13.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
+.+||++|++-|+-|-+-|-.||.+...
T Consensus 513 Lt~EI~~Lq~~I~~LN~tlVdLe~Ln~~ 540 (610)
T PF01601_consen 513 LTSEIDELQEVIDNLNNTLVDLEWLNRY 540 (610)
T ss_dssp HHHHHHHHHHHHHHHHCCHHHCCHHTTC
T ss_pred cHHHHHHHHHHHHHhhhhheeHHHhcce
Confidence 3445555555555555444444444433
No 54
>PF15011 CK2S: Casein Kinase 2 substrate
Probab=70.88 E-value=11 Score=30.30 Aligned_cols=60 Identities=23% Similarity=0.390 Sum_probs=47.3
Q ss_pred CCCCCchhhhHhHHHHHHHHHHHHHHHHHHhhhcccC-chhhhhHHHHHhhhhcC--CCCcccc
Q 037836 12 PEYPDLYGKRRELAKVQVLEREISFLEEELKTVDRFH-PASRSCKEVADFVVAKS--DPLIPVN 72 (163)
Q Consensus 12 P~~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~-paS~~CKEv~~~Ves~p--DPLLP~t 72 (163)
..+||+.++=|. ..+..||.++..|+|.|++|.++- ..++...++...++... |++-..+
T Consensus 52 ~~fpdl~~rL~~-Kq~~ale~vl~~L~e~l~~l~~v~~~l~~~~~~~~~l~~~~~~~~~l~~~~ 114 (168)
T PF15011_consen 52 RSFPDLQERLRR-KQLEALETVLAKLRETLEELQKVRDSLSRQVRDVFQLYEQHAGLDELSLKA 114 (168)
T ss_pred cccccHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHH
Confidence 678999886443 346678999999999999998875 45778999999999766 8776654
No 55
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=70.79 E-value=8.9 Score=31.72 Aligned_cols=50 Identities=18% Similarity=0.299 Sum_probs=31.5
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchh-----hhhHHHHHhhhhcCCCCccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPAS-----RSCKEVADFVVAKSDPLIPV 71 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS-----~~CKEv~~~Ves~pDPLLP~ 71 (163)
.++.+.|+.+++||.-|++++++++++..-= +.-.++..||+.-. ||+..
T Consensus 73 ~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~v~~d~-Pf~~~ 127 (251)
T PF11932_consen 73 EQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQFVELDL-PFLLE 127 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CCChH
Confidence 4556667777777777777777777554322 25566666666544 66655
No 56
>PF14282 FlxA: FlxA-like protein
Probab=70.37 E-value=5.3 Score=29.83 Aligned_cols=23 Identities=22% Similarity=0.489 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcc
Q 037836 24 LAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
...|+.|+++|.-|+++|++|..
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~ 40 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQ 40 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc
Confidence 67799999999999999999987
No 57
>PF14716 HHH_8: Helix-hairpin-helix domain; PDB: 2W9M_A 1HUZ_A 1HUO_A 2BPG_B 2BPF_A 1DK3_A 1BPE_A 1BNO_A 1BNP_A 1DK2_A ....
Probab=70.16 E-value=3.2 Score=28.19 Aligned_cols=32 Identities=28% Similarity=0.308 Sum_probs=25.3
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
+|-.+.|..|..+|..++|+|++|.|+++..+
T Consensus 29 ~~Aa~~i~~l~~~i~~~~~~~~~l~gIG~~ia 60 (68)
T PF14716_consen 29 RRAAAAIKALPYPITSGEEDLKKLPGIGKSIA 60 (68)
T ss_dssp HHHHHHHHHSSS-HHSHHHHHCTSTTTTHHHH
T ss_pred HHHHHHHHhCCHhHhhHHHHHhhCCCCCHHHH
Confidence 45567888999999999656999999997665
No 58
>PLN03128 DNA topoisomerase 2; Provisional
Probab=70.04 E-value=7.5 Score=40.03 Aligned_cols=39 Identities=26% Similarity=0.274 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhh
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVA 63 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves 63 (163)
.++++|++|+.-+++||++|+++.+..-=-+||.+|.++
T Consensus 1095 e~~~kL~~e~~~~~~ei~~l~~~t~~~~w~~DLd~~~~~ 1133 (1135)
T PLN03128 1095 EKVDELRAERAKKETEVEELKKTTPEDLWRKDLDAFEEA 1133 (1135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence 489999999999999999999999999999999998865
No 59
>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]
Probab=69.66 E-value=5.3 Score=36.71 Aligned_cols=28 Identities=29% Similarity=0.383 Sum_probs=24.8
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.-+|++|+-+.|+..++||.|||+.|.-
T Consensus 39 nlrrleaqrneln~kvr~lreel~~lqe 66 (404)
T KOG0728|consen 39 NLRRLEAQRNELNAKVRLLREELQLLQE 66 (404)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHhc
Confidence 3479999999999999999999999864
No 60
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=69.58 E-value=6.4 Score=28.94 Aligned_cols=49 Identities=12% Similarity=0.199 Sum_probs=37.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc-----------cCchhhhhHHHHHhhhhcCCCCccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR-----------FHPASRSCKEVADFVVAKSDPLIPV 71 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~-----------~~paS~~CKEv~~~Ves~pDPLLP~ 71 (163)
|.++|+.+++.+.-||..++.|+. ++..++.-..|...|.++.|=|-|-
T Consensus 9 Ir~dIk~vd~KVdaLq~~V~~l~~~~~~v~~l~~klDa~~~~l~~l~~~V~~I~~iL~~~ 68 (75)
T PF05531_consen 9 IRQDIKAVDDKVDALQTQVDDLESNLPDVTELNKKLDAQSAQLTTLNTKVNEIQDILNPD 68 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 567788888888888877777766 6667888888888888887776643
No 61
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=69.52 E-value=3.4 Score=32.72 Aligned_cols=28 Identities=32% Similarity=0.458 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
|+=.+|||++.-|++||+++.+...+.+
T Consensus 66 AkwaKl~Rk~~kl~~el~~~~~~~~~~~ 93 (161)
T PF04420_consen 66 AKWAKLNRKLDKLEEELEKLNKSLSSEK 93 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344677777788888887776655544
No 62
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=69.48 E-value=1.8 Score=35.62 Aligned_cols=30 Identities=27% Similarity=0.325 Sum_probs=6.8
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
|-++..++|||.-|++-|++||.--|++..
T Consensus 26 KE~L~~~~QRLkDE~RDLKqEl~V~ek~~~ 55 (166)
T PF04880_consen 26 KENLREEVQRLKDELRDLKQELIVQEKLRK 55 (166)
T ss_dssp HHHHHHCH----------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 677889999999999999999955455543
No 63
>KOG4529 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.35 E-value=4.6 Score=37.54 Aligned_cols=28 Identities=29% Similarity=0.541 Sum_probs=20.5
Q ss_pred CCCCCCCCchhhhHhHHHHHHHHHHHHHHHH
Q 037836 9 KSPPEYPDLYGKRRELAKVQVLEREISFLEE 39 (163)
Q Consensus 9 KsPP~~pD~~GKhR~~Aelq~LeqEI~fLEE 39 (163)
++...+-++-|++|+ +.+|++||+|||.
T Consensus 26 ls~a~f~~le~~~kl---~r~l~~ELkfLqk 53 (404)
T KOG4529|consen 26 LSTAKFITLEGRRKL---LRKLSSELKFLQK 53 (404)
T ss_pred hhhhhhcCCccHHHH---HHHHHHHHHHHHH
Confidence 344556778888888 5677888888874
No 64
>PRK04406 hypothetical protein; Provisional
Probab=68.56 E-value=8.3 Score=27.68 Aligned_cols=22 Identities=18% Similarity=0.460 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 037836 24 LAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE 45 (163)
.+.|..||-.|.|+|+-+++|.
T Consensus 10 e~Ri~~LE~~lAfQE~tIe~LN 31 (75)
T PRK04406 10 EERINDLECQLAFQEQTIEELN 31 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444443
No 65
>PRK00295 hypothetical protein; Provisional
Probab=68.29 E-value=8 Score=27.11 Aligned_cols=24 Identities=8% Similarity=0.122 Sum_probs=15.6
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+.+.+|++|+++++.|.+.|++++
T Consensus 30 ~Qq~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 30 EQQRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 455666677777777766666654
No 66
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=67.55 E-value=9.5 Score=26.18 Aligned_cols=32 Identities=16% Similarity=0.251 Sum_probs=24.7
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
.+++++++.|+.|.+-|+.|++.|...+..-.
T Consensus 34 ~~~~~~~~~l~~en~~L~~ei~~l~~~~rIe~ 65 (85)
T TIGR02209 34 QKLQLEIDKLQKEWRDLQLEVAELSRHERIEK 65 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHH
Confidence 45778888899999999999888876554433
No 67
>cd03351 LbH_UDP-GlcNAc_AT UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic pathway and is also referred to as LpxA. Lipid A is essential for the growth of Escherichia coli and related bacteria. It is also essential for maintaining the integrity of the outer membrane. UDP-GlcNAc acyltransferase is a homotrimer of left-handed parallel beta helix (LbH) subunits. Each subunit contains an N-terminal LbH region with 9 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X), and a C-terminal alpha-helical region.
Probab=67.53 E-value=6.1 Score=32.42 Aligned_cols=43 Identities=26% Similarity=0.315 Sum_probs=30.0
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAK 64 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~ 64 (163)
++.++++.+=+....|+++|++||...+-+..-+|+++|+.+.
T Consensus 208 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~ 250 (254)
T cd03351 208 ALKRAYRILYRSGLTLEEALEELEEEAPDSPEVEELVDFIRSS 250 (254)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHhcCCCHHHHHHHHHHHhc
Confidence 3344444444455568888999988876677788899999753
No 68
>PF14916 CCDC92: Coiled-coil domain of unknown function
Probab=67.36 E-value=5.7 Score=28.10 Aligned_cols=25 Identities=36% Similarity=0.547 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHhh-hcccC
Q 037836 24 LAKVQVLEREISFLEEELKT-VDRFH 48 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~-LE~~~ 48 (163)
+..|+.||+-|.|||+|=.. |.|++
T Consensus 2 ~~qv~s~e~~i~FLq~eH~~tL~~LH 27 (60)
T PF14916_consen 2 EQQVQSLEKSILFLQQEHAQTLKGLH 27 (60)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999999988543 55554
No 69
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=67.05 E-value=8.8 Score=27.28 Aligned_cols=24 Identities=38% Similarity=0.500 Sum_probs=17.8
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
++...++++|++|+..|++|-+.|
T Consensus 38 ~~~~~~l~~l~~~~~~l~~e~~~L 61 (97)
T PF04999_consen 38 RQLFYELQQLEKEIDQLQEENERL 61 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677888888888888886655
No 70
>PRK00736 hypothetical protein; Provisional
Probab=67.00 E-value=9.2 Score=26.83 Aligned_cols=24 Identities=13% Similarity=0.371 Sum_probs=15.1
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+.+.+|.+|+++++.|-+.|++++
T Consensus 30 ~Qq~~i~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00736 30 EQWKTVEQMRKKLDALTERFLSLE 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 455566666666666666666654
No 71
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=66.26 E-value=6.9 Score=34.20 Aligned_cols=30 Identities=20% Similarity=0.195 Sum_probs=22.0
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
...++.+++.|++|...|.+||++||....
T Consensus 45 ~~~~~~el~~le~Ee~~l~~eL~~LE~e~~ 74 (314)
T PF04111_consen 45 IEELEEELEKLEQEEEELLQELEELEKERE 74 (314)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355677888888888888888888876443
No 72
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=66.15 E-value=8.5 Score=27.55 Aligned_cols=22 Identities=32% Similarity=0.478 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHhhhccc
Q 037836 26 KVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~ 47 (163)
+++.|+++|..||+++..++..
T Consensus 71 ~~~~l~~~l~~l~~~~~~~~~~ 92 (104)
T PF13600_consen 71 ELKELEEELEALEDELAALQDE 92 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5555555555555555555443
No 73
>PF12097 DUF3573: Protein of unknown function (DUF3573); InterPro: IPR021956 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 372 to 530 amino acids in length.
Probab=65.74 E-value=6.3 Score=36.56 Aligned_cols=25 Identities=16% Similarity=0.407 Sum_probs=21.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
.+.+|-+|++||+.||.||++||..
T Consensus 40 ~~~~i~~Lq~QI~~Lq~ei~~l~~~ 64 (383)
T PF12097_consen 40 DQQEISELQKQIQQLQAEINQLEEQ 64 (383)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4567888999999999999999877
No 74
>PLN02678 seryl-tRNA synthetase
Probab=65.72 E-value=9.3 Score=35.37 Aligned_cols=48 Identities=17% Similarity=0.219 Sum_probs=34.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccccCC
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVNRKN 75 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t~g~ 75 (163)
-+.++++.|.+||.-||++|+++|. --.+++..+-..++|-.|+....
T Consensus 75 ~l~~~~~~Lk~ei~~le~~~~~~~~------~l~~~~~~iPNi~~~~VP~G~de 122 (448)
T PLN02678 75 ELIAETKELKKEITEKEAEVQEAKA------ALDAKLKTIGNLVHDSVPVSNDE 122 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHhCCCCCCccCCCCCCc
Confidence 3556677777777777777777664 34578888999999999987543
No 75
>PF02575 YbaB_DNA_bd: YbaB/EbfC DNA-binding family; InterPro: IPR004401 The function of this protein is unknown. It is restricted to bacteria and a few plants, such as Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A crystal structure of one member, YbaB from Haemophilus influenzae, revealed a core structure consisting of two layers, alpha/beta; YbaB forms a tight dimer with a 3-layer structure, beta/alpha/beta []. YbaB is co-transcribed with RecR, which appears to protect DNA strands of the replilcation fork when it is blocked by DNA damage. A deletion of the YbaB operon resulted in increased sensitivity to DNA-damaging agents compared with the wild-type strain.; PDB: 1PUG_B 3F42_B 1YBX_B 1J8B_A.
Probab=65.28 E-value=6.9 Score=27.47 Aligned_cols=27 Identities=15% Similarity=0.277 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
+.+++++++++.-+++||++++....+
T Consensus 1 m~~~~~~~~~~~~~~~~l~~~~~~~~s 27 (93)
T PF02575_consen 1 MKQAQEMQEKMEEAQEELAEIEVTGTS 27 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSEEEEEE
T ss_pred ChHHHHHHHHHHHHHHHHhcCEEEEEE
Confidence 568899999999999999998766544
No 76
>PRK04325 hypothetical protein; Provisional
Probab=65.12 E-value=10 Score=26.99 Aligned_cols=22 Identities=9% Similarity=0.406 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 037836 24 LAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+.+|.+|+++++.|-+.|++++
T Consensus 36 q~~I~~L~~ql~~L~~rl~~~~ 57 (74)
T PRK04325 36 QQTLDLLQAQLRLLYQQMRDAN 57 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3444455555555544444443
No 77
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=63.99 E-value=11 Score=28.93 Aligned_cols=38 Identities=18% Similarity=0.247 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCC
Q 037836 27 VQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDP 67 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDP 67 (163)
++.|++++.-|++++++|+.+..+ .+++++.++.++|+
T Consensus 80 ~~~l~~k~~~i~~~i~~L~~~~~~---L~~~i~~~~~~~~~ 117 (131)
T cd04786 80 LAALERKVADIEALEARLAQNKAQ---LLVLIDLIESKPDE 117 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhcCCCC
Confidence 455666666666666666665533 46777777776663
No 78
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=63.79 E-value=8.8 Score=33.17 Aligned_cols=25 Identities=16% Similarity=0.157 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
.++|++++++|+.||.+|++.+.-+
T Consensus 54 E~AL~~a~~ri~eLe~ql~q~~~~~ 78 (247)
T PF09849_consen 54 EQALKQAQARIQELEAQLQQAQAPQ 78 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccc
Confidence 3679999999999999998866554
No 79
>TIGR00103 DNA_YbaB_EbfC DNA-binding protein, YbaB/EbfC family. The function of this protein is unknown, but it has been expressed and crystallized. Its gene nearly always occurs next to recR and/or dnaX. It is restricted to Bacteria and the plant Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A member is present even in the minimal gene complement of Mycoplasm genitalium.
Probab=63.64 E-value=7.6 Score=28.94 Aligned_cols=30 Identities=13% Similarity=0.191 Sum_probs=24.6
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
-..++-++|++++++.-+|+||++.+-...
T Consensus 7 ~~~m~kqaq~mQ~k~~~~q~eL~~~~v~g~ 36 (102)
T TIGR00103 7 LGELMKQAQQMQEKMKKLQEEIAQFEVTGK 36 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccEEEEE
Confidence 345778899999999999999999885443
No 80
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=63.44 E-value=6.3 Score=37.35 Aligned_cols=19 Identities=16% Similarity=0.429 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 037836 26 KVQVLEREISFLEEELKTV 44 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~L 44 (163)
+|++|++||..||+|++.|
T Consensus 32 kie~L~kql~~Lk~q~~~l 50 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDL 50 (489)
T ss_pred HHHHHHHHHHHHHHhhccc
Confidence 6777777777777776643
No 81
>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 [].
Probab=63.16 E-value=17 Score=27.18 Aligned_cols=41 Identities=15% Similarity=0.201 Sum_probs=30.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchhh-hhHHHHHhhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPASR-SCKEVADFVVA 63 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS~-~CKEv~~~Ves 63 (163)
++.++++++++|.-++++++.||.-.+.+. -.++|..-|.+
T Consensus 6 ~~~~~~~~~~ki~~ve~~V~~l~~~~~i~~~q~~~i~~~v~~ 47 (116)
T PF10552_consen 6 LMQATEEHNEKIEEVENRVDDLEENMPIDPGQQKEIQKAVKS 47 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence 566788999999999999999976666554 45555554443
No 82
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=63.08 E-value=7.1 Score=38.07 Aligned_cols=30 Identities=30% Similarity=0.386 Sum_probs=24.6
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
|.=-..+|+++|++|+..||.||+.+++.-
T Consensus 805 ~~id~~~e~~rL~K~l~kl~~ei~~~~~kL 834 (874)
T PRK05729 805 GLIDVEAELARLEKELAKLEKEIERVEKKL 834 (874)
T ss_pred CccCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444478899999999999999999988753
No 83
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=62.86 E-value=9.8 Score=35.94 Aligned_cols=68 Identities=21% Similarity=0.224 Sum_probs=47.9
Q ss_pred CchhhhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccccCCCchhhHHHHHh
Q 037836 16 DLYGKRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVNRKNRRSCRFWKWLC 86 (163)
Q Consensus 16 D~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t~g~~~s~~~~rW~~ 86 (163)
|----+|-+||--|||-|+.|.++ |+.+ |+=|-..-|+|+..+-.+-+-.+-.-.++..+-.+.||.-
T Consensus 218 EnS~tsRHLAEFwMlEaE~AF~~s-l~d~--m~~~e~~~K~mik~llek~~edmel~~k~~~~~~~~rl~~ 285 (446)
T KOG0554|consen 218 ENSHTSRHLAEFWMLEAELAFAES-LDDL--MSCAEAYIKHMIKYLLEKCIEDMELMHKNEDPGSIDRLEL 285 (446)
T ss_pred ccCCchhHHhhhhhhhhHHHHHHH-HHHH--HHHHHHHHHHHHHHHHhhccchhheeccccCCCccchhhh
Confidence 334457999999999999999984 5433 4445566788888877776666666666666566666654
No 84
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=62.85 E-value=7 Score=29.87 Aligned_cols=20 Identities=30% Similarity=0.441 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q 037836 27 VQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~ 46 (163)
+..|+.||.-|+|+|+++|.
T Consensus 4 ~s~I~~eIekLqe~lk~~e~ 23 (92)
T PF07820_consen 4 SSKIREEIEKLQEQLKQAET 23 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 56788999999999998875
No 85
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=62.72 E-value=10 Score=27.40 Aligned_cols=41 Identities=17% Similarity=0.191 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcC
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKS 65 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~p 65 (163)
+..+|..||++|=-+|.+. ||...+.-.+-|-...|+.+.+
T Consensus 14 Le~~L~~lE~qIy~~Et~Y--L~~~~~~GNiikGfd~y~k~~~ 54 (80)
T PF09340_consen 14 LEKDLAALEKQIYDKETSY--LEDTSPYGNIIKGFDGYLKSSS 54 (80)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHccCcCCCCeeChhhhhcccc
Confidence 3444555555555444443 2223333335566666665555
No 86
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=62.53 E-value=13 Score=27.97 Aligned_cols=22 Identities=14% Similarity=0.066 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhcc
Q 037836 25 AKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+++++|++|...|++|++.|..
T Consensus 41 ~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 41 QTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHhhC
Confidence 3444555555666666666643
No 87
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=62.26 E-value=14 Score=24.69 Aligned_cols=21 Identities=38% Similarity=0.400 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 037836 24 LAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~L 44 (163)
..+|..|+.|..-|.+++..|
T Consensus 32 e~~~~~L~~en~~L~~~~~~L 52 (64)
T PF00170_consen 32 EEKVEELESENEELKKELEQL 52 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444
No 88
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=62.17 E-value=8.3 Score=30.27 Aligned_cols=20 Identities=40% Similarity=0.699 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q 037836 27 VQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~ 46 (163)
+..|++.|+.|||||+..|+
T Consensus 75 ~E~l~rriq~LEeele~ae~ 94 (143)
T PF12718_consen 75 AEQLNRRIQLLEEELEEAEK 94 (143)
T ss_pred HHHHHhhHHHHHHHHHHHHH
Confidence 34899999999999988764
No 89
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=61.77 E-value=12 Score=27.01 Aligned_cols=25 Identities=40% Similarity=0.486 Sum_probs=18.9
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
..+.++++.|..||.-||++++++|
T Consensus 70 ~~l~~e~~~lk~~i~~le~~~~~~e 94 (108)
T PF02403_consen 70 EELKAEVKELKEEIKELEEQLKELE 94 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777888888888888887776
No 90
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=61.64 E-value=8.9 Score=32.83 Aligned_cols=26 Identities=31% Similarity=0.410 Sum_probs=22.4
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.|+++++|.|.++++..|-||++|..
T Consensus 89 ~~l~ek~q~l~~t~s~veaEik~L~s 114 (201)
T KOG4603|consen 89 VALTEKVQSLQQTCSYVEAEIKELSS 114 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888999999999999999998864
No 91
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=61.58 E-value=9.3 Score=30.64 Aligned_cols=28 Identities=36% Similarity=0.367 Sum_probs=19.4
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
..+.+++..|+++|.-|++||++.+++.
T Consensus 119 ~~l~~~~~~L~~~~~~l~~~l~ek~k~~ 146 (194)
T PF08614_consen 119 AELEAELAQLEEKIKDLEEELKEKNKAN 146 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556677777777777777777766543
No 92
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=61.58 E-value=10 Score=31.41 Aligned_cols=25 Identities=24% Similarity=0.302 Sum_probs=16.7
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
++..++..|.+++..||.|++.|+.
T Consensus 108 ~l~~e~~~l~~~~e~Le~e~~~L~~ 132 (161)
T TIGR02894 108 RLKNQNESLQKRNEELEKELEKLRQ 132 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445666677777777777777755
No 93
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=61.35 E-value=9.8 Score=35.16 Aligned_cols=24 Identities=21% Similarity=0.362 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccC
Q 037836 25 AKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
.++.+|++|+.-|++|+++|+.+-
T Consensus 405 ~e~~kL~~E~~~l~~ei~~l~~~l 428 (445)
T cd00187 405 LEREKLLKELKELEAEIEDLEKIL 428 (445)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467899999999999999999988
No 94
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=61.26 E-value=10 Score=27.18 Aligned_cols=28 Identities=18% Similarity=0.391 Sum_probs=23.9
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
=-..+.++|+.|++|+..++++++-++.
T Consensus 71 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~ 98 (104)
T PF13600_consen 71 ELKELEEELEALEDELAALQDEIQALEA 98 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4467888999999999999999988765
No 95
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=61.17 E-value=12 Score=30.53 Aligned_cols=26 Identities=27% Similarity=0.405 Sum_probs=14.6
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
|+.++..+|+.|+.|+..|++++.+|
T Consensus 121 ~~~~l~~~i~~L~~e~~~L~~~~~~l 146 (189)
T PF10211_consen 121 GKQELEEEIEELEEEKEELEKQVQEL 146 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555666655555555544
No 96
>PRK14626 hypothetical protein; Provisional
Probab=61.05 E-value=10 Score=28.92 Aligned_cols=26 Identities=19% Similarity=0.289 Sum_probs=22.1
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
--++.+.|++++++.-+||||++.|=
T Consensus 8 ~~mmkqaq~mQ~km~~~qeeL~~~~v 33 (110)
T PRK14626 8 AELMKQMQSIKENVEKAKEELKKEEI 33 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccEE
Confidence 34677789999999999999999873
No 97
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=61.02 E-value=13 Score=27.16 Aligned_cols=26 Identities=23% Similarity=0.330 Sum_probs=19.9
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.++..++..|.+|+.-|+++++.|++
T Consensus 28 ~~l~~~~~~l~~e~~~L~~~~~~l~~ 53 (131)
T PF05103_consen 28 DELAEELERLQRENAELKEEIEELQA 53 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35667788888888888888887765
No 98
>PHA03386 P10 fibrous body protein; Provisional
Probab=60.83 E-value=13 Score=28.57 Aligned_cols=40 Identities=18% Similarity=0.240 Sum_probs=27.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhc----ccCchhhhhHHHHHhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTVD----RFHPASRSCKEVADFVV 62 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE----~~~paS~~CKEv~~~Ve 62 (163)
|.++|+.++..+.-||..++.|+ +++.-+.-..++...|.
T Consensus 10 Ir~dIkavd~KVdaLQ~qV~dv~~n~~~LDa~~~qL~~l~tkV~ 53 (94)
T PHA03386 10 ILDAVQEVDTKVDALQTQLNGLEEDSQPLDGLPAQLTELDTKVS 53 (94)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHhcchhhhhHHHHHHHHHHHHH
Confidence 56778887777777777777776 35555556666665555
No 99
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=60.65 E-value=12 Score=28.57 Aligned_cols=26 Identities=27% Similarity=0.544 Sum_probs=16.3
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
||+.+++.+|+..+.-|+++|+++|.
T Consensus 62 ~~l~~d~~~l~~~~~rL~~~~~~~er 87 (151)
T PF11559_consen 62 RRLRSDIERLQNDVERLKEQLEELER 87 (151)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666666666653
No 100
>PRK00153 hypothetical protein; Validated
Probab=60.64 E-value=8.7 Score=28.32 Aligned_cols=30 Identities=17% Similarity=0.267 Sum_probs=24.7
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
..++.+.|++++++.-+|+||++++-...+
T Consensus 6 ~~m~~qaq~~q~~~~~~q~~l~~~~~~~~s 35 (104)
T PRK00153 6 QNLMKQAQQMQEKMQKMQEELAQMEVEGEA 35 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccEEEEEE
Confidence 457788999999999999999998855443
No 101
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=60.61 E-value=13 Score=28.27 Aligned_cols=26 Identities=27% Similarity=0.466 Sum_probs=16.2
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
|+-+-++|.+||++|+.|-+||.+|-
T Consensus 3 k~~l~~~l~~le~~l~~l~~~~~~LK 28 (107)
T PF06156_consen 3 KKELFDRLDQLEQQLGQLLEELEELK 28 (107)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666666665553
No 102
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit, proteobacterial. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=60.00 E-value=12 Score=36.76 Aligned_cols=48 Identities=15% Similarity=0.216 Sum_probs=44.9
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCC
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDP 67 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDP 67 (163)
.||+..=.+|++-++..++++|+-|||+-.|-..--||+..+-+..||
T Consensus 348 ~~R~~~~~rR~~~~l~k~~~rl~il~Gl~ia~~~iDevI~iIR~s~~~ 395 (735)
T TIGR01062 348 VFRRNTVIRRLTYRLNKVLQRLHILEGLRIAFLNIDEVIEIIREEDEP 395 (735)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcChhh
Confidence 789999999999999999999999999999999999999999988776
No 103
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=59.68 E-value=9.8 Score=34.22 Aligned_cols=27 Identities=26% Similarity=0.546 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
..++++|++|+..|++||++|+++.+.
T Consensus 390 ~~e~~kL~~e~~~l~~ei~~l~~~~~~ 416 (426)
T PF00521_consen 390 KEEIEKLQKEIKELEKEIEELEKILPK 416 (426)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468999999999999999999988776
No 104
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=59.66 E-value=11 Score=29.52 Aligned_cols=22 Identities=36% Similarity=0.511 Sum_probs=17.1
Q ss_pred hHhHHHHHHHHHHHHHHHHHHh
Q 037836 21 RRELAKVQVLEREISFLEEELK 42 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~ 42 (163)
|-+-.+|++|++|+.-||+||+
T Consensus 86 ~~l~~rvd~Lerqv~~Lenk~k 107 (108)
T COG3937 86 DELTERVDALERQVADLENKLK 107 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 4456678888888888888875
No 105
>PF03285 Paralemmin: Paralemmin; InterPro: IPR004965 Paralemmin was identified in the chicken lens as a protein with a molecular weight of 65 kDa (isoform 1) and a splice variant of 60 kDa (isoform 2). Isoform 2 is predominant during infancy and levels of isoform 1 increase with age. Paralemmin is localised to the plasma membrane of fibre cells, and was not detected in the annular pad cells. Its localisation to the short side of the fibre cell and the sites of fibre cell interlocking suggests that paralemmin may play a role in the development of such interdigitating processes []. Palmitoylation is important for localising these proteins to the filopodia of dendritic cells where they have been implicated in the regulation of membrane dynamics and process outgrowth. ; GO: 0008360 regulation of cell shape, 0016020 membrane
Probab=59.36 E-value=6.4 Score=34.84 Aligned_cols=20 Identities=35% Similarity=0.415 Sum_probs=16.9
Q ss_pred hHhHHHHHHHHHHHHHHHHH
Q 037836 21 RRELAKVQVLEREISFLEEE 40 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEE 40 (163)
|.+.--|+|||+||..||.+
T Consensus 13 R~LEesI~RLEkEIe~LE~~ 32 (278)
T PF03285_consen 13 RSLEESIHRLEKEIEALENG 32 (278)
T ss_pred HHHHHHHHHHHHHHHHhccC
Confidence 55677799999999999975
No 106
>PRK14623 hypothetical protein; Provisional
Probab=59.31 E-value=12 Score=28.71 Aligned_cols=25 Identities=16% Similarity=0.197 Sum_probs=21.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
-++.+.|++++++.-+||||++.|=
T Consensus 5 ~~mkqaqkmQ~km~~~Qeel~~~~v 29 (106)
T PRK14623 5 GMMGKLKEAQQKVEATKKRLDTVLI 29 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccEE
Confidence 3567789999999999999999883
No 107
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=59.16 E-value=16 Score=38.72 Aligned_cols=39 Identities=26% Similarity=0.331 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhh
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVA 63 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves 63 (163)
-++.+|++|+.-+++||+.|+++.+..---+||..|.+.
T Consensus 1102 e~v~kL~~e~~~~~~e~~~L~~~t~~~lw~~DL~~~~~~ 1140 (1388)
T PTZ00108 1102 EKVEKLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEA 1140 (1388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 478999999999999999999999998888888877653
No 108
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=59.06 E-value=6 Score=37.50 Aligned_cols=24 Identities=17% Similarity=0.385 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
++++.|+ ||.-|+.||++|+.-..
T Consensus 25 ~~~~~~q-kie~L~kql~~Lk~q~~ 48 (489)
T PF11853_consen 25 DDIDLLQ-KIEALKKQLEELKAQQD 48 (489)
T ss_pred hhhHHHH-HHHHHHHHHHHHHHhhc
Confidence 4455555 99999999999987655
No 109
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=59.05 E-value=15 Score=25.58 Aligned_cols=20 Identities=30% Similarity=0.710 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 037836 25 AKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~L 44 (163)
++|+.|+.++..|+++|+++
T Consensus 76 ~~i~~l~~~~~~l~~~l~~~ 95 (106)
T PF01920_consen 76 KEIKKLEKQLKYLEKKLKEL 95 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444333
No 110
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=58.98 E-value=13 Score=26.92 Aligned_cols=27 Identities=22% Similarity=0.272 Sum_probs=16.4
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+..+..+++.|+++|..|++.++.|+.
T Consensus 73 ~~~l~~~~~~l~~~i~~l~~~~~~l~~ 99 (102)
T cd04775 73 QAILEERLQSLNREIQRLRQQQQVLAA 99 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556666666666666666665543
No 111
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=58.88 E-value=11 Score=25.78 Aligned_cols=20 Identities=10% Similarity=0.406 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q 037836 27 VQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~ 46 (163)
|..|.|++.-||++|+-|+.
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~ 20 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQA 20 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHH
Confidence 45688888888888877764
No 112
>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules. The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].
Probab=58.73 E-value=15 Score=31.01 Aligned_cols=41 Identities=20% Similarity=0.220 Sum_probs=31.9
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhccc-CchhhhhHHHHHhhh
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRF-HPASRSCKEVADFVV 62 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~-~paS~~CKEv~~~Ve 62 (163)
.++|.|++.+-++..|+++|++-..= +.-.+.|-||+.-|+
T Consensus 165 aLqa~lkk~e~~~~SLe~~LeQK~kEn~ELtkICDeLI~k~~ 206 (207)
T PF05010_consen 165 ALQASLKKEEMKVQSLEESLEQKTKENEELTKICDELISKMG 206 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46788888888888888888776543 566789999998775
No 113
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=58.64 E-value=15 Score=26.75 Aligned_cols=24 Identities=38% Similarity=0.468 Sum_probs=16.7
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
.++.++|..|..+|..|+++|+++
T Consensus 84 ~~l~~~l~~l~~~~~k~e~~l~~~ 107 (126)
T PF13863_consen 84 KKLKAELEELKSEISKLEEKLEEY 107 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466677777777777777777654
No 114
>PF03087 DUF241: Arabidopsis protein of unknown function; InterPro: IPR004320 This family represents plant proteins of unknown function.
Probab=58.58 E-value=14 Score=30.91 Aligned_cols=26 Identities=31% Similarity=0.327 Sum_probs=17.4
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
..+..+.+|+.||..|.-||++||.|
T Consensus 192 ~~~~~~~~Le~LE~~Ie~lE~glE~v 217 (231)
T PF03087_consen 192 EVQNAQKRLEELEECIEELEEGLECV 217 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666777777777777777655
No 115
>PLN02943 aminoacyl-tRNA ligase
Probab=58.55 E-value=8.9 Score=38.20 Aligned_cols=29 Identities=17% Similarity=0.164 Sum_probs=22.8
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
|.=-..+|+++|+.||..||.||+.+++.
T Consensus 883 ~~iD~~~E~~rL~K~l~klekei~~~~~k 911 (958)
T PLN02943 883 DMVDISAEVERLSKRLSKMQTEYDALAAR 911 (958)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33346788999999999999998888764
No 116
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=58.46 E-value=13 Score=28.32 Aligned_cols=22 Identities=18% Similarity=0.386 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhcc
Q 037836 25 AKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.+|+.|+..|.-|+.+|+.|++
T Consensus 96 ~ev~~L~~RI~~Le~~l~~l~~ 117 (118)
T TIGR01837 96 EEIEALSAKIEQLAVQVEELRR 117 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 4677788888888888887765
No 117
>smart00338 BRLZ basic region leucin zipper.
Probab=58.45 E-value=15 Score=24.51 Aligned_cols=19 Identities=37% Similarity=0.478 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 037836 26 KVQVLEREISFLEEELKTV 44 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~L 44 (163)
+|+.|+.|..-|..++..|
T Consensus 34 ~~~~L~~en~~L~~~~~~l 52 (65)
T smart00338 34 KVEQLEAENERLKKEIERL 52 (65)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444333
No 118
>KOG3000 consensus Microtubule-binding protein involved in cell cycle control [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=58.30 E-value=16 Score=32.62 Aligned_cols=38 Identities=8% Similarity=0.266 Sum_probs=26.5
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhcc--------cCchhhhhHH
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDR--------FHPASRSCKE 56 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~--------~~paS~~CKE 56 (163)
+..+.+.+|+.|.++|.-++..++.||+ +..+..-|++
T Consensus 192 ~~~~~~qe~~~l~~~l~~~~~~~~~le~ERdfyf~kLr~iEil~q~ 237 (295)
T KOG3000|consen 192 PVDKLKQELEELTQQLTELKTTIASLEKERDFYFSKLRDIEILCQT 237 (295)
T ss_pred cchhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhccchhhhccC
Confidence 4556678888888888888887777774 4555555554
No 119
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=58.21 E-value=14 Score=31.78 Aligned_cols=29 Identities=17% Similarity=0.190 Sum_probs=25.3
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
++.+.+|.+|.+|=.+|+++|++|++...
T Consensus 115 ~~~~~~~e~l~~e~~~l~~rl~ql~~~~s 143 (232)
T KOG2483|consen 115 ATQQQDIEDLSRENRKLKARLEQLSLPQS 143 (232)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCccc
Confidence 45678899999999999999999998774
No 120
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=58.18 E-value=10 Score=34.25 Aligned_cols=48 Identities=15% Similarity=0.225 Sum_probs=32.6
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccccCC
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVNRKN 75 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t~g~ 75 (163)
.+.++++.|.+||.-||++++++|. --.+++..|-..++|-.|+....
T Consensus 73 ~l~~~~~~l~~~~~~~~~~~~~~~~------~~~~~~~~lPN~~~~~vP~g~~~ 120 (418)
T TIGR00414 73 EIKKELKELKEELTELSAALKALEA------ELQDKLLSIPNIPHESVPVGKDE 120 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHhCCCCCCccCCCCCCc
Confidence 3445566666666666666666653 44677888888889999887543
No 121
>PF05873 Mt_ATP-synt_D: ATP synthase D chain, mitochondrial (ATP5H); InterPro: IPR008689 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit D from the F0 complex in F-ATPases found in mitochondria. The D subunit is part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit D in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2CLY_E 2WSS_U.
Probab=57.72 E-value=12 Score=29.95 Aligned_cols=40 Identities=23% Similarity=0.312 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCC
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSD 66 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pD 66 (163)
+-++..+++|.-||+||+.|+.+-|...- -|.++.+..||
T Consensus 103 ~~~~~s~~~i~~l~keL~~i~~~~P~e~m--T~dd~~~a~Pe 142 (161)
T PF05873_consen 103 EFEAESKKRIAELEKELANIESARPFEQM--TVDDYAAAFPE 142 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT---------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCChHhC--CHHHHHHhCcc
Confidence 44566788899999999999999887653 24455566655
No 122
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=57.30 E-value=17 Score=25.73 Aligned_cols=22 Identities=23% Similarity=0.276 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 037836 24 LAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE 45 (163)
-.+++.|..|+.+|++||+++.
T Consensus 46 ~~e~~~Lk~E~e~L~~el~~~r 67 (69)
T PF14197_consen 46 YEENNKLKEENEALRKELEELR 67 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 3456667777777777766543
No 123
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=57.05 E-value=13 Score=27.21 Aligned_cols=22 Identities=32% Similarity=0.379 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 037836 24 LAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE 45 (163)
..+++.|++||..|++-++.|+
T Consensus 81 ~~~~~~l~~~i~~l~~~~~~l~ 102 (108)
T cd01107 81 REKLAELEAEIEELQRILRLLE 102 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555444
No 124
>PLN03237 DNA topoisomerase 2; Provisional
Probab=56.90 E-value=18 Score=38.58 Aligned_cols=40 Identities=25% Similarity=0.239 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhh
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVA 63 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves 63 (163)
+-++++|.+|+.-+++||+.|+++.+..-=-+||..|.+.
T Consensus 1125 ~E~~~kL~~~~~~k~~el~~l~~~t~~~lW~~DLd~f~~~ 1164 (1465)
T PLN03237 1125 LEKVQELCADRDKLNIEVEDLKKTTPKSLWLKDLDALEKE 1164 (1465)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 3578999999999999999999999999988998888764
No 125
>PF05615 THOC7: Tho complex subunit 7; InterPro: IPR008501 The Tho complex (THOC) is involved in transcription elongation and mRNA export from the nucleus []. This entry represents the subunit THOC7, which is found in higher eukaryotes, and the non-homologous subunit Mft1p found in yeast. The funtions of these subunits are unknown, and it is not known if these subunits are functionally equivalent.
Probab=56.75 E-value=25 Score=26.57 Aligned_cols=46 Identities=17% Similarity=0.263 Sum_probs=28.1
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcC
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKS 65 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~p 65 (163)
+.++.++|+.+.++|.-|+++|+.--.+-.--.-.-+|...|.+.|
T Consensus 83 ~~~i~~~i~~~k~~ie~lk~~L~~ak~~r~~k~eyd~La~~I~~~p 128 (139)
T PF05615_consen 83 NEEIEQEIEQAKKEIEELKEELEEAKRVRQNKEEYDALAKKINSQP 128 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 3567777778888888888887765554443334444444444443
No 126
>PF02370 M: M protein repeat; InterPro: IPR003345 This short repeat is found in multiple copies in bacterial M proteins. The M proteins bind to IgA and are closely associated with virulence. The M protein has been postulated to be a major group A streptococcal (GAS) virulence factor because of its contribution to the bacterial resistance to opsonophagocytosis [].; PDB: 2KK9_A.
Probab=56.59 E-value=20 Score=20.93 Aligned_cols=20 Identities=25% Similarity=0.235 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHhhhc
Q 037836 26 KVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE 45 (163)
+-+.||-+..-|++|.+-+|
T Consensus 2 akk~lEa~~qkLe~e~q~~e 21 (21)
T PF02370_consen 2 AKKQLEADHQKLEAEKQISE 21 (21)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHhhcC
Confidence 45677777778887777654
No 127
>PRK14622 hypothetical protein; Provisional
Probab=56.59 E-value=15 Score=27.67 Aligned_cols=27 Identities=15% Similarity=0.188 Sum_probs=23.0
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
..++.+.|++++++.-+|+||+.++=.
T Consensus 4 ~~lmkqaq~mQ~~m~~~q~el~~~~v~ 30 (103)
T PRK14622 4 QYLMRQAKKLEKAMADAKEKLAEIAVE 30 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccEEE
Confidence 467888999999999999999987633
No 128
>PRK14629 hypothetical protein; Provisional
Probab=56.52 E-value=14 Score=28.02 Aligned_cols=27 Identities=11% Similarity=0.166 Sum_probs=22.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
++-+.|++++++.-+|+||++.|=...
T Consensus 8 ~mkqaq~mQ~km~~~Q~eL~~~~veg~ 34 (99)
T PRK14629 8 FLKNMSSFKDNIDNIKKEISQIVVCGR 34 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHhccEEEEE
Confidence 778899999999999999998764433
No 129
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=56.20 E-value=14 Score=34.75 Aligned_cols=24 Identities=21% Similarity=0.320 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccc
Q 037836 24 LAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
+.++++||++|.-||+++++||..
T Consensus 562 ~~~~~~~e~~i~~le~~~~~l~~~ 585 (638)
T PRK10636 562 RKEIARLEKEMEKLNAQLAQAEEK 585 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777777777777666643
No 130
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=56.08 E-value=19 Score=32.55 Aligned_cols=46 Identities=26% Similarity=0.354 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccccC
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVNRK 74 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t~g 74 (163)
+.++++.|.+||..||++++++|. --.+++..+-..++|-.|+...
T Consensus 71 l~~~~~~l~~~~~~~~~~~~~~~~------~~~~~~~~iPN~~~~~vP~g~~ 116 (425)
T PRK05431 71 LIAEVKELKEEIKALEAELDELEA------ELEELLLRIPNLPHDSVPVGKD 116 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHhCCCCCCccCCCCCC
Confidence 566677777777777777777663 3466777888888888887644
No 131
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=55.98 E-value=9.3 Score=33.72 Aligned_cols=25 Identities=40% Similarity=0.446 Sum_probs=21.1
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 20 KRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
+--.+.+++||.+||.-|+|||+.+
T Consensus 89 ~Es~~~kl~RL~~Ev~EL~eEl~~~ 113 (388)
T PF04912_consen 89 KESPEQKLQRLRREVEELKEELEKR 113 (388)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788999999999999999986
No 132
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=55.97 E-value=21 Score=26.78 Aligned_cols=27 Identities=11% Similarity=-0.027 Sum_probs=20.4
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
--++++++++.+++|+.-|++|-+.|+
T Consensus 28 ~~~~l~~q~~~~~~e~~~l~~~n~~L~ 54 (105)
T PRK00888 28 DYWRVNDQVAAQQQTNAKLKARNDQLF 54 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778888888888888888776654
No 133
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=55.88 E-value=13 Score=28.33 Aligned_cols=18 Identities=22% Similarity=0.470 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHhhhcc
Q 037836 29 VLEREISFLEEELKTVDR 46 (163)
Q Consensus 29 ~LeqEI~fLEEEL~~LE~ 46 (163)
+|++||.+-++||++||.
T Consensus 80 kl~~e~~~~~k~i~~le~ 97 (100)
T PF04568_consen 80 KLKEEIEHHRKEIDELEK 97 (100)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345566668888888874
No 134
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=55.86 E-value=9 Score=31.64 Aligned_cols=25 Identities=20% Similarity=0.349 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
..+|-.+|+||..+++||++++|-.
T Consensus 161 ~~d~l~ie~~L~~v~~eIe~~~~~~ 185 (262)
T PF14257_consen 161 VEDLLEIERELSRVRSEIEQLEGQL 185 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456677888888888888877743
No 135
>PF11464 Rbsn: Rabenosyn Rab binding domain; InterPro: IPR021565 Rabenosyn-5 (Rbsn) is a multivalent effector with interacts with the Rab family.Rsbn contains distinct Rab4 and Rab5 binding sites within residues 264-500 and 627-784 respectively []. Rab proteins are GTPases involved in the regulation of all stages of membrane trafficking []. ; PDB: 1Z0K_B 1YZM_A 1Z0J_B.
Probab=55.83 E-value=19 Score=23.97 Aligned_cols=24 Identities=25% Similarity=0.459 Sum_probs=18.9
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhh
Q 037836 20 KRRELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~ 43 (163)
+.|..-||..|++-++-|++|+++
T Consensus 17 ~~~r~dEV~~L~~NL~EL~~e~~~ 40 (42)
T PF11464_consen 17 AARRFDEVATLEENLRELQDEIDE 40 (42)
T ss_dssp HTT-HHHHHHHHHHHHHHHHHHHH
T ss_pred HhcCcHHHHHHHHHHHHHHHHHHh
Confidence 456778899999999999988864
No 136
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=55.82 E-value=17 Score=26.46 Aligned_cols=19 Identities=37% Similarity=0.504 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 037836 25 AKVQVLEREISFLEEELKT 43 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~ 43 (163)
++|++|+.++..|++++++
T Consensus 77 ~~i~~l~~~~~~l~~~~~e 95 (105)
T cd00632 77 LRIKRLERQEEDLQEKLKE 95 (105)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444333
No 137
>PF07412 Geminin: Geminin; InterPro: IPR022786 This family contains the eukaryotic protein geminin (approximately 200 residues long). Geminin inhibits DNA replication by preventing the incorporation of MCM complex into prereplication complex, and is degraded during the mitotic phase of the cell cycle. It has been proposed that geminin inhibits DNA replication during S, G2, and M phases and that geminin destruction at the metaphase-anaphase transition permits replication in the succeeding cell cycle []. ; GO: 0008156 negative regulation of DNA replication; PDB: 1T6F_B 2LP0_B 1UII_B 2WVR_B 2ZXX_B.
Probab=55.80 E-value=14 Score=31.43 Aligned_cols=37 Identities=19% Similarity=0.256 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhh
Q 037836 26 KVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVV 62 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ve 62 (163)
+|..|+.||.-|++|+++|.-+...-..-.||++-+.
T Consensus 133 ~ie~~~eEi~~lk~en~~L~elae~~~~la~~ie~l~ 169 (200)
T PF07412_consen 133 EIEQKDEEIAKLKEENEELKELAEHVQYLAEVIERLT 169 (200)
T ss_dssp HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444445555556555555554433334455554443
No 138
>smart00150 SPEC Spectrin repeats.
Probab=55.74 E-value=43 Score=21.73 Aligned_cols=34 Identities=26% Similarity=0.328 Sum_probs=28.0
Q ss_pred CCchhhhHhHHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 15 PDLYGKRRELAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 15 pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
.|.-+-..++.+.+.|+.||.-.++.++++..+.
T Consensus 28 ~d~~~~~~~~~~~~~~~~e~~~~~~~v~~~~~~~ 61 (101)
T smart00150 28 KDLESVEALLKKHEALEAELEAHEERVEALNELG 61 (101)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 5788888888889999999988888888877653
No 139
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=55.68 E-value=11 Score=37.36 Aligned_cols=29 Identities=14% Similarity=0.108 Sum_probs=23.3
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
|.=-..+|+++|+.||.+||.|++.+++.
T Consensus 923 ~~id~~~E~~rL~K~l~kl~~ei~~~~~k 951 (995)
T PTZ00419 923 EFIDLKKELAKLEKKLAKLQKSLESYLKK 951 (995)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44447789999999999999999888764
No 140
>TIGR02978 phageshock_pspC phage shock protein C. All members of this protein family are the phage shock protein PspC. These proteins contain a PspC domain, as do other members of the larger family of proteins described by Pfam model pfam04024. The phage shock regulon is restricted to the Proteobacteria and somewhat sparsely distributed there. It is expressed, under positive control of a sigma-54-dependent transcription factor, PspF, which binds and is modulated by PspA. Stresses that induce the psp regulon include phage secretin overexpression, ethanol, heat shock, and protein export defects.
Probab=55.65 E-value=16 Score=28.39 Aligned_cols=25 Identities=24% Similarity=0.473 Sum_probs=20.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
-.+.+.+|+++...+|.-|.++|.-
T Consensus 82 ~~~~l~~~~~~~~~~e~Rl~~mE~y 106 (121)
T TIGR02978 82 PRQALREVKREFRDLERRLRNMERY 106 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455899999999999999988863
No 141
>PRK00587 hypothetical protein; Provisional
Probab=55.59 E-value=15 Score=27.83 Aligned_cols=24 Identities=4% Similarity=0.199 Sum_probs=21.3
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
-++.+.|.+++++.-+||||++.|
T Consensus 5 ~lmkqaqkmQ~km~~~QeeL~~~~ 28 (99)
T PRK00587 5 KLAQQLKKMQNTMEKKQKEFEEKE 28 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccE
Confidence 467778999999999999999987
No 142
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=55.57 E-value=16 Score=28.33 Aligned_cols=20 Identities=30% Similarity=0.459 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 037836 25 AKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~L 44 (163)
.+++.|+++|..|+++++.+
T Consensus 112 ~~l~~L~~~i~~L~~~~~~~ 131 (134)
T PF07047_consen 112 ERLEELEERIEELEEQVEKQ 131 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444555555444443
No 143
>PF09432 THP2: Tho complex subunit THP2; InterPro: IPR018557 The THO complex plays a role in coupling transcription elongation to mRNA export. It is composed of subunits THP2, HPR1, THO2 and MFT1 [].
Probab=55.27 E-value=28 Score=28.27 Aligned_cols=46 Identities=15% Similarity=0.232 Sum_probs=40.1
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhccc--CchhhhhHHHHHhhhhc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDRF--HPASRSCKEVADFVVAK 64 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~~--~paS~~CKEv~~~Ves~ 64 (163)
.||-++-.|+.|++|+..-.+|.+.+|++ +.....-|-++.+||+.
T Consensus 79 Nky~L~~tL~~LtkEVn~Wr~ewd~iE~~mFGD~pnSmkkMl~nvesl 126 (132)
T PF09432_consen 79 NKYSLQDTLNQLTKEVNYWRKEWDNIEMLMFGDGPNSMKKMLQNVESL 126 (132)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHH
Confidence 57888999999999999999999999986 66777789999999864
No 144
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=55.17 E-value=20 Score=35.07 Aligned_cols=43 Identities=16% Similarity=0.139 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhccc--Cchhh---hhHHHHHhhhhcCCC
Q 037836 25 AKVQVLEREISFLEEELKTVDRF--HPASR---SCKEVADFVVAKSDP 67 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~--~paS~---~CKEv~~~Ves~pDP 67 (163)
.|+..|++|+.-|++|+++|+.+ .+.-. .-+|+.+..+.=.||
T Consensus 437 le~~kl~~E~~~l~~ei~~l~~iL~s~~~l~~~i~~eL~~ik~kfg~~ 484 (742)
T PRK05561 437 LEEIEIRKEQDELRKEIAELEAILASERKLRKLIKKELKADAKKFGDP 484 (742)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCCC
Confidence 57788999999999999999999 55443 467777776666665
No 145
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=54.98 E-value=16 Score=27.58 Aligned_cols=25 Identities=24% Similarity=0.267 Sum_probs=19.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
.++|++.|.++..+|++|++.|+.=
T Consensus 62 ~~~e~~~L~~~~~~l~~ei~~L~dg 86 (117)
T COG2919 62 QQAELEKLSARNTALEAEIKDLKDG 86 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccc
Confidence 4567778888888888888888765
No 146
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=54.49 E-value=18 Score=32.54 Aligned_cols=23 Identities=26% Similarity=0.381 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhccc
Q 037836 25 AKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
++++++++||..|++||+.|-+.
T Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~~ 65 (398)
T PTZ00454 43 EEQKNLKRELIRAKEEVKRIQSV 65 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCC
Confidence 33455555555555555555443
No 147
>PRK14621 hypothetical protein; Provisional
Probab=54.34 E-value=16 Score=28.08 Aligned_cols=27 Identities=7% Similarity=0.158 Sum_probs=22.4
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
.-++-+.|++++++.-+|+||+..|=.
T Consensus 7 ~~mmkqaq~mQ~km~~~Q~eL~~~~v~ 33 (111)
T PRK14621 7 GDMMKQIQQAGEKMQDVQKQLEKLVAH 33 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccEEE
Confidence 456778899999999999999987533
No 148
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=54.30 E-value=20 Score=26.81 Aligned_cols=23 Identities=26% Similarity=0.449 Sum_probs=10.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhh
Q 037836 22 RELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~L 44 (163)
.+...+.+|+++|..||.+++++
T Consensus 5 ~Lk~~~~~L~~~~~~le~~i~~~ 27 (171)
T PF03357_consen 5 KLKKTIRRLEKQIKRLEKKIKKL 27 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444
No 149
>PF08537 NBP1: Fungal Nap binding protein NBP1; InterPro: IPR013743 NBP1 is a nuclear protein which has been shown in Saccharomyces cerevisiae (Bakers yeast) to be essential for the G2/M transition of the cell cycle.
Probab=54.29 E-value=13 Score=33.79 Aligned_cols=37 Identities=22% Similarity=0.272 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc----cCchhhhhHHHHH
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR----FHPASRSCKEVAD 59 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~----~~paS~~CKEv~~ 59 (163)
+|-+|+.|+++|.-+++||+.+.+ ++.--+--+++++
T Consensus 180 Lqkk~~~l~~~l~~~~~eL~~~~k~L~faqekn~LlqslLd 220 (323)
T PF08537_consen 180 LQKKIDELEERLNDLEKELEITKKDLKFAQEKNALLQSLLD 220 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467889999999999999987543 3333334455543
No 150
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=54.29 E-value=18 Score=27.34 Aligned_cols=26 Identities=31% Similarity=0.272 Sum_probs=19.8
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.|-+.+|+.|++|+.-|.+|.++|.+
T Consensus 45 ~rwek~v~~L~~e~~~l~~E~e~L~~ 70 (87)
T PF12709_consen 45 ARWEKKVDELENENKALKRENEQLKK 70 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667788888888888888887765
No 151
>PLN02320 seryl-tRNA synthetase
Probab=54.23 E-value=27 Score=33.10 Aligned_cols=48 Identities=19% Similarity=0.250 Sum_probs=32.2
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccccCC
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVNRKN 75 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t~g~ 75 (163)
-+.++++.|.+||.-||++|+++|. --.+++..|-..+||-.|+.+..
T Consensus 134 ~l~~~~k~lk~~i~~le~~~~~~~~------~l~~~~l~iPN~~h~~VP~G~de 181 (502)
T PLN02320 134 ALVEEGKNLKEGLVTLEEDLVKLTD------ELQLEAQSIPNMTHPDVPVGGED 181 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHhCCCCCCccCCCCCCC
Confidence 3445556666666666666655543 45778888889999999976543
No 152
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=54.21 E-value=16 Score=28.42 Aligned_cols=25 Identities=32% Similarity=0.407 Sum_probs=21.0
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
-+..+|..|++||.-|++.|+.|.+
T Consensus 113 el~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 113 ELREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4677888999999999999988875
No 153
>PF07061 Swi5: Swi5; InterPro: IPR010760 This entry represents Swi5 and is involved in meiotic DNA repair synthesis and meiotic joint molecule formation []. It is known to interact with Swi2, Rhp51 and Swi6 [].
Probab=53.94 E-value=38 Score=24.81 Aligned_cols=35 Identities=23% Similarity=0.292 Sum_probs=24.8
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc--CchhhhhH
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF--HPASRSCK 55 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~--~paS~~CK 55 (163)
-+++++++.|++++.-|+.|+.++++- +.+...-+
T Consensus 3 ~~l~~~~~~L~~~~~~l~~~i~~~~~~l~~~~~~~v~ 39 (83)
T PF07061_consen 3 ESLEAEIQELKEQIEQLEKEISELEAELIEDPEKIVK 39 (83)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHH
Confidence 457788888888888888888887774 45444333
No 154
>PRK14627 hypothetical protein; Provisional
Probab=53.90 E-value=16 Score=27.32 Aligned_cols=24 Identities=21% Similarity=0.315 Sum_probs=20.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
-++.+.|++++++.-+|+||++.|
T Consensus 5 ~~mkqaq~mQ~km~~~Q~el~~~~ 28 (100)
T PRK14627 5 QLMQMAQQMQRQMQKVQEELAATI 28 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccE
Confidence 356778999999999999999887
No 155
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.77 E-value=17 Score=34.41 Aligned_cols=28 Identities=21% Similarity=0.304 Sum_probs=24.5
Q ss_pred hhhhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 18 YGKRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 18 ~GKhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
.+-|-++...+.|.+||.||++|+++..
T Consensus 233 ~~V~~L~~~~~~L~kqie~L~qeie~~~ 260 (439)
T KOG2911|consen 233 GSVADLIQARAKLAKQIEFLEQEIEKSK 260 (439)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678888889999999999999998875
No 156
>PF03885 DUF327: Protein of unknown function (DUF327); InterPro: IPR005585 The proteins in this family are around 140-170 residues in length. The proteins contain many conserved residues, with the most conserved motifs found in the central and C-terminal region. The function of these proteins is unknown. ; PDB: 2P61_A 2QUP_A.
Probab=53.77 E-value=18 Score=28.31 Aligned_cols=31 Identities=23% Similarity=0.378 Sum_probs=24.2
Q ss_pred CCchhhhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 15 PDLYGKRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 15 pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
-|.+|++|...-|++.++++.-|-++|=+=|
T Consensus 95 ~~~~g~~k~y~iV~~ID~kL~~L~~~ll~~e 125 (147)
T PF03885_consen 95 WDRRGRQKVYTIVKVIDEKLDELTDELLSEE 125 (147)
T ss_dssp --H-HHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred CCccCCCceeeehHHHHHHHHHHHHHHHHcc
Confidence 3678999999999999999999988874433
No 157
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=53.65 E-value=16 Score=26.91 Aligned_cols=20 Identities=35% Similarity=0.446 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q 037836 27 VQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~ 46 (163)
+..|+..|.+|+++++.||+
T Consensus 69 ~~~l~~r~e~ie~~i~~lek 88 (110)
T TIGR02338 69 IQELKEKKETLELRVKTLQR 88 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555555554
No 158
>PF04350 PilO: Pilus assembly protein, PilO; PDB: 2RJZ_B.
Probab=53.39 E-value=21 Score=26.07 Aligned_cols=42 Identities=17% Similarity=0.320 Sum_probs=29.3
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhh
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFV 61 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~V 61 (163)
.....+.++.+.+|+.-++++|+++...=|+-.---+++..|
T Consensus 18 ~~~~~~~l~~~~~~~~~~~~~l~~~~~~lP~~~~~~~ll~~l 59 (144)
T PF04350_consen 18 LKEKVANLEELKKQLEQLEQQLEELLKKLPAEEEIPSLLEDL 59 (144)
T ss_dssp TGGG-SSHHHHHHHHHHHHHHHHHHHHCTTGGGHHHHHHHHH
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCchhHHHHHHHH
Confidence 345566788888899999999998888777765444444443
No 159
>COG0718 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.36 E-value=18 Score=27.97 Aligned_cols=30 Identities=17% Similarity=0.300 Sum_probs=24.2
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
.-++.+.|++++++.-+|+||++.|=...|
T Consensus 8 ~~l~kqaqqmQ~~~~~~Q~ela~~ev~g~a 37 (105)
T COG0718 8 QKLMKQAQQMQKKMQKMQEELAQKEVTGKA 37 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcEEeeec
Confidence 346778899999999999999998754443
No 160
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=53.28 E-value=17 Score=27.37 Aligned_cols=24 Identities=8% Similarity=0.023 Sum_probs=14.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
++.+++.|+++|..|++.++.|+.
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~L~~ 107 (127)
T TIGR02047 84 LDEHISHVRARIIKLQALIEQLVD 107 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566666666666655555553
No 161
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=52.90 E-value=28 Score=24.26 Aligned_cols=21 Identities=33% Similarity=0.433 Sum_probs=9.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhh
Q 037836 23 ELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~ 43 (163)
+.+++++++++|.-|+.++++
T Consensus 10 l~~~l~~~~~q~~~l~~~~~~ 30 (106)
T PF01920_consen 10 LNQQLQQLEQQIQQLERQLRE 30 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444433
No 162
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.77 E-value=13 Score=32.68 Aligned_cols=28 Identities=11% Similarity=0.252 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
..|..||+||+-|+.++++|+|++..-.
T Consensus 56 ~~~~~l~~Ql~~l~g~i~~L~~~~~~q~ 83 (262)
T COG1729 56 YRLTQLEQQLRQLQGKIEELRGIQELQY 83 (262)
T ss_pred hccHHHHHHHHHHHhhHHHHHhHHHHHH
Confidence 3588899999999999999997544433
No 163
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=52.52 E-value=18 Score=27.93 Aligned_cols=27 Identities=37% Similarity=0.399 Sum_probs=17.4
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+..+..+++.|+++|..|++..+.|+.
T Consensus 81 ~~~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (135)
T PRK10227 81 KRRTLEKVAEIERHIEELQSMRDQLLA 107 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556677777777777766666553
No 164
>PRK14625 hypothetical protein; Provisional
Probab=52.41 E-value=17 Score=27.87 Aligned_cols=24 Identities=8% Similarity=0.196 Sum_probs=21.3
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
-++.+.|.+++++.-+|+||+..|
T Consensus 6 ~mmkqaq~mQ~km~~~Q~el~~~~ 29 (109)
T PRK14625 6 GLMKQAQAMQQKLADAQARLAETT 29 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccE
Confidence 467788999999999999999887
No 165
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=52.37 E-value=29 Score=32.13 Aligned_cols=35 Identities=20% Similarity=0.298 Sum_probs=29.1
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHH
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASRSCKE 56 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKE 56 (163)
-+..+||+|..||...-+||+.||.++++-+.=++
T Consensus 28 qL~deIq~Lk~Ei~ev~~eid~~~~~e~skt~q~~ 62 (395)
T KOG0930|consen 28 ELLDEIQRLKDEIAEVMEEIDNLESTEESKTKQRN 62 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhccccchhhHHHh
Confidence 35578999999999999999999999996654333
No 166
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=52.35 E-value=16 Score=30.31 Aligned_cols=18 Identities=28% Similarity=0.237 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHhhhc
Q 037836 28 QVLEREISFLEEELKTVD 45 (163)
Q Consensus 28 q~LeqEI~fLEEEL~~LE 45 (163)
+.|.+|...|++|+++|+
T Consensus 72 ~~l~~en~~L~~e~~~l~ 89 (276)
T PRK13922 72 FDLREENEELKKELLELE 89 (276)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333344444444443333
No 167
>cd04789 HTH_Cfa Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator. Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=52.34 E-value=20 Score=26.03 Aligned_cols=25 Identities=12% Similarity=0.139 Sum_probs=13.3
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
..++.++++|++||..|++-++.|+
T Consensus 74 ~~l~~~~~~l~~~i~~l~~~~~~l~ 98 (102)
T cd04789 74 SLLLERLSSLAEQIARKQQARDLLA 98 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555554444
No 168
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=52.34 E-value=19 Score=28.66 Aligned_cols=26 Identities=27% Similarity=0.442 Sum_probs=20.1
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.+++++|+.=+.||.+|.++|+++..
T Consensus 97 ~kLe~e~~~Kdsei~~Lr~~L~~~~~ 122 (131)
T PF04859_consen 97 KKLEAELRAKDSEIDRLREKLDELNR 122 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677777778888888888888764
No 169
>PF13864 Enkurin: Calmodulin-binding
Probab=52.24 E-value=25 Score=25.56 Aligned_cols=32 Identities=34% Similarity=0.516 Sum_probs=21.9
Q ss_pred CCCCCchhhhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 12 PEYPDLYGKRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 12 P~~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
|-..|+.+++|. -..||+|+.-||+-|+-|++
T Consensus 64 p~~~DT~~~~~r---K~~lE~~L~qlE~dI~~lsr 95 (98)
T PF13864_consen 64 PFSIDTLRKKRR---KEELEKELKQLEKDIKKLSR 95 (98)
T ss_pred CcccCCHHHHHH---HHHHHHHHHHHHHHHHHHcc
Confidence 344677777666 44577888888877777765
No 170
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.06 E-value=31 Score=30.26 Aligned_cols=26 Identities=35% Similarity=0.379 Sum_probs=21.6
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
.+++|+++++|.+||+-||..|++.+
T Consensus 59 ~~s~Q~~~~~L~~ev~~~~~~~~s~~ 84 (247)
T COG3879 59 LRSLQKKVNTLAAEVEDLENKLDSVR 84 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888888888888888888887
No 171
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=51.94 E-value=26 Score=24.47 Aligned_cols=25 Identities=12% Similarity=0.310 Sum_probs=15.2
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
|+-..|..++.|+.-|.++++.|+.
T Consensus 11 ~~~~~i~tvk~en~~i~~~ve~i~e 35 (55)
T PF05377_consen 11 RIESSINTVKKENEEISESVEKIEE 35 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444566666666666666666654
No 172
>PRK05560 DNA gyrase subunit A; Validated
Probab=51.77 E-value=23 Score=34.82 Aligned_cols=47 Identities=17% Similarity=0.141 Sum_probs=40.5
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCC
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSD 66 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pD 66 (163)
.||+..-.+|++-++.-+|++|+-|||+-.|-..-.+|++.+.+..|
T Consensus 351 ~~r~~~~~~r~~~~l~~~~~~~~~l~g~~~~~~~~d~vI~iir~s~~ 397 (805)
T PRK05560 351 EHRKEVITRRTRFELRKAEERAHILEGLLIALDNIDEVIALIRASPT 397 (805)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHcCCC
Confidence 68999999999999999999999999999997777888887766554
No 173
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=51.75 E-value=19 Score=26.47 Aligned_cols=25 Identities=24% Similarity=0.210 Sum_probs=15.3
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
-++.+++.|+++|..|++.++.|++
T Consensus 83 ~l~~~~~~l~~~i~~l~~~~~~l~~ 107 (116)
T cd04769 83 ALEDKKQEIRAQITELQQLLARLDA 107 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555566666666666666666553
No 174
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=51.50 E-value=22 Score=27.52 Aligned_cols=29 Identities=24% Similarity=0.400 Sum_probs=23.3
Q ss_pred hhhhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 18 YGKRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 18 ~GKhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+..+...++-+.+++++..||+++++|+-
T Consensus 98 Rs~~ke~~Ke~~~~~~l~~L~~~i~~L~~ 126 (134)
T PF07047_consen 98 RSARKEAKKEEELQERLEELEERIEELEE 126 (134)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556677788899999999999998864
No 175
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=51.46 E-value=24 Score=25.69 Aligned_cols=18 Identities=28% Similarity=0.440 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHhhhc
Q 037836 28 QVLEREISFLEEELKTVD 45 (163)
Q Consensus 28 q~LeqEI~fLEEEL~~LE 45 (163)
+.|++++..|++++++|+
T Consensus 82 ~~l~~~~~~l~~~i~~l~ 99 (113)
T cd01109 82 ELLEEHREELEEQIAELQ 99 (113)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444444444444444444
No 176
>KOG3021 consensus Predicted kinase [General function prediction only]
Probab=51.39 E-value=6.9 Score=35.25 Aligned_cols=20 Identities=15% Similarity=0.488 Sum_probs=17.1
Q ss_pred CCchhhhHhHHHHHHHHHHH
Q 037836 15 PDLYGKRRELAKVQVLEREI 34 (163)
Q Consensus 15 pD~~GKhR~~Aelq~LeqEI 34 (163)
+.|++|||+|++|++|+.+-
T Consensus 164 ~eFf~rhRlq~Qldl~~~~~ 183 (313)
T KOG3021|consen 164 EEFFARHRLQPQLDLLEKTY 183 (313)
T ss_pred HHHHHHHhhhHHHHHHHHhh
Confidence 56899999999999998654
No 177
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=51.22 E-value=21 Score=25.04 Aligned_cols=18 Identities=33% Similarity=0.497 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 037836 27 VQVLEREISFLEEELKTV 44 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~L 44 (163)
.+.|++||.-|++|++++
T Consensus 41 n~eL~~ei~~L~~e~ee~ 58 (61)
T PF08826_consen 41 NRELEQEIERLKKEMEEL 58 (61)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 455777777777777765
No 178
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=50.92 E-value=24 Score=22.89 Aligned_cols=19 Identities=21% Similarity=0.433 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 037836 27 VQVLEREISFLEEELKTVD 45 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE 45 (163)
.+.|++.+..|++.+++|+
T Consensus 38 ~~~l~~~~~~i~~~i~~L~ 56 (65)
T PF09278_consen 38 RALLEEKLEEIEEQIAELQ 56 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444443
No 179
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=50.87 E-value=20 Score=26.80 Aligned_cols=25 Identities=36% Similarity=0.452 Sum_probs=14.9
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.++.+++.|+++|..|++-++.|+.
T Consensus 83 ~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (127)
T TIGR02044 83 RTLEKVAEIERKISELQSMRDQLEA 107 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666666666666655553
No 180
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=50.57 E-value=23 Score=34.65 Aligned_cols=47 Identities=13% Similarity=0.138 Sum_probs=42.6
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCC
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSD 66 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pD 66 (163)
.||+..-.+|++-++.-+|++|+-|||+-.|-.--.||++.+.+..|
T Consensus 361 ~~R~~~~~rr~~~~l~k~~~r~~~l~g~~~~~~~id~vI~iir~s~~ 407 (742)
T PRK05561 361 DHRREVVTRRSQFRLDKVEKRLHILEGLLIAFLNIDEVIRIIRESDE 407 (742)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcCcc
Confidence 79999999999999999999999999999988888899888877665
No 181
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=50.49 E-value=16 Score=36.37 Aligned_cols=22 Identities=50% Similarity=0.573 Sum_probs=16.0
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhh
Q 037836 22 RELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~L 44 (163)
|.||+++ ||.+|+.|||||+.+
T Consensus 348 ~kqak~K-lee~i~elEEElk~~ 369 (832)
T KOG2077|consen 348 VKQAKLK-LEEKIRELEEELKKA 369 (832)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHH
Confidence 5566654 677888888888765
No 182
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=50.38 E-value=19 Score=26.19 Aligned_cols=25 Identities=32% Similarity=0.401 Sum_probs=21.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
.+.+|+.|-++++-|||-++.||.+
T Consensus 40 d~~~L~~L~~~a~rm~eRI~tLE~I 64 (75)
T TIGR02976 40 DQALLQELYAKADRLEERIDTLERI 64 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667888999999999999999876
No 183
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=50.23 E-value=21 Score=26.15 Aligned_cols=21 Identities=14% Similarity=0.347 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHhhhccc
Q 037836 27 VQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~ 47 (163)
++.|++++..|++++++|+.+
T Consensus 81 ~~~l~~~~~~l~~~i~~l~~~ 101 (123)
T cd04770 81 RALLEEKLAEVEAKIAELQAL 101 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 355666666666666665544
No 184
>PF02097 Filo_VP35: Filoviridae VP35; InterPro: IPR002953 The filoviridae are a group of viruses that cause haemorrhagic fevers with a high mortality rate. The family currently contains three viruses: Ebola virus sp., Lake Victoria marburgvirus and Reston ebolavirus, named after their corresponding outbreak regions. They possess negative-stranded RNA genomes, which encode at least 7 proteins. The VP35 protein is found in the genomes of all filoviruses. Its function is presently unknown, but it is thought to share the function of the phosphorylated proteins (polymerase subunits) of rhabdoviruses and paramyxoviruses due to its position in the genome. There is no evidence however, to suggest that VP35 is phosphorylated [].; PDB: 3KS8_D 3L2A_A 3KS4_A 3L28_E 3L25_D 3FKE_B 3L26_A 3L27_D 3L29_B.
Probab=49.98 E-value=5.4 Score=36.16 Aligned_cols=51 Identities=25% Similarity=0.464 Sum_probs=0.0
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCch----hhhhHHHHHhhhhcCCCCcccccCCC
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPA----SRSCKEVADFVVAKSDPLIPVNRKNR 76 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~pa----S~~CKEv~~~Ves~pDPLLP~t~g~~ 76 (163)
.|..+.++.|+++|..||..|+.|-+|... ++.|-||+ ++-| |||+++|+-
T Consensus 79 ~kQ~~~~e~L~~~l~~ie~~Lqpv~~M~~~i~~L~~~~sEmv----AKyd-~LvmttGrA 133 (321)
T PF02097_consen 79 EKQIVTMESLEARLTEIEAQLQPVLSMSKTISSLNRSCSEMV----AKYD-LLVMTTGRA 133 (321)
T ss_dssp ------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHH----HHhc-eeeeecCCc
Confidence 456677888999999999999888877654 34666666 4444 788888865
No 185
>PRK14127 cell division protein GpsB; Provisional
Probab=49.85 E-value=23 Score=27.37 Aligned_cols=24 Identities=17% Similarity=0.295 Sum_probs=17.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+..+++.|.+|+..|++|+..|+.
T Consensus 35 V~~dye~l~~e~~~Lk~e~~~l~~ 58 (109)
T PRK14127 35 VIKDYEAFQKEIEELQQENARLKA 58 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445667788888888888888764
No 186
>PRK09039 hypothetical protein; Validated
Probab=49.78 E-value=18 Score=31.98 Aligned_cols=29 Identities=17% Similarity=0.260 Sum_probs=19.2
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
.|++++|..|++++.-||++|+.+|..+.
T Consensus 140 ~~L~~qI~aLr~Qla~le~~L~~ae~~~~ 168 (343)
T PRK09039 140 ELLNQQIAALRRQLAALEAALDASEKRDR 168 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666667777777777777777666553
No 187
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=49.58 E-value=14 Score=24.23 Aligned_cols=44 Identities=25% Similarity=0.187 Sum_probs=34.0
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAK 64 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~ 64 (163)
.|+..-|++||+.=--|+|=++..+.-....+.|++.++.|+.+
T Consensus 6 ~~Le~Iv~~Le~~~~sLdes~~lyeeg~~l~~~c~~~L~~~e~~ 49 (53)
T PF02609_consen 6 ERLEEIVEKLESGELSLDESLKLYEEGMELIKKCQERLEEAEQK 49 (53)
T ss_dssp HHHHHHHHHHHTT-S-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666777787666668888888888888899999999988754
No 188
>PF06251 Caps_synth_GfcC: Capsule biosynthesis GfcC; InterPro: IPR010425 This entry represents uncharacterised bacterial proteins that contain a central beta-grasp like domain related to the SLBB domain [].; PDB: 3P42_B.
Probab=49.26 E-value=13 Score=30.34 Aligned_cols=29 Identities=10% Similarity=0.383 Sum_probs=9.2
Q ss_pred HhhhcccCchhhhhHHHHH-h--hhhcCCCCc
Q 037836 41 LKTVDRFHPASRSCKEVAD-F--VVAKSDPLI 69 (163)
Q Consensus 41 L~~LE~~~paS~~CKEv~~-~--Ves~pDPLL 69 (163)
+++|++++.+-|.=-+|.- . +....||+|
T Consensus 85 ~~qL~~~~~~gR~~i~lD~d~~r~~~~~n~~L 116 (229)
T PF06251_consen 85 IQQLQSLEATGRVVINLDPDWVRLNPEYNPLL 116 (229)
T ss_dssp HHHHTT--B----S----TTS-EESTTSS-B-
T ss_pred HHHHHhccccceEEEecCHHHhhccccCCCcC
Confidence 4455666666655445532 2 345678877
No 189
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=48.97 E-value=25 Score=25.57 Aligned_cols=34 Identities=21% Similarity=0.261 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHhhhcccCchhh-hhHHHHHhhhh
Q 037836 30 LEREISFLEEELKTVDRFHPASR-SCKEVADFVVA 63 (163)
Q Consensus 30 LeqEI~fLEEEL~~LE~~~paS~-~CKEv~~~Ves 63 (163)
|.+++.-|.+||++.+.+++..+ .-+++.+-|+.
T Consensus 2 L~~~L~~L~~eL~~~~~ld~~~~~~L~~l~~dIe~ 36 (85)
T PF14357_consen 2 LQELLEKLHQELEQNPPLDEETRAELSSLDDDIEA 36 (85)
T ss_pred HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence 66777888888889888888877 56667666665
No 190
>PF12644 DUF3782: Protein of unknown function (DUF3782); InterPro: IPR024271 This functionally uncharacterised family of proteins is found in bacteria and archaea. Proteins in this family are typically between 91 and 186 amino acids in length.
Probab=48.92 E-value=31 Score=22.80 Aligned_cols=20 Identities=30% Similarity=0.350 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q 037836 27 VQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~ 46 (163)
.+.++++|.-++++|++++.
T Consensus 3 ~~~~~~~i~a~~e~l~~~~~ 22 (64)
T PF12644_consen 3 YATKEDEIMATKEELEELEE 22 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 45667788888888888853
No 191
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=48.90 E-value=23 Score=26.56 Aligned_cols=22 Identities=18% Similarity=0.223 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 037836 24 LAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE 45 (163)
..++++|+++|..|++-++.|+
T Consensus 86 ~~~~~~l~~~~~~l~~~~~~L~ 107 (118)
T cd04776 86 EKRRAELEQQRRDIDAALAELD 107 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555555555554444443
No 192
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=48.83 E-value=23 Score=25.63 Aligned_cols=24 Identities=25% Similarity=0.403 Sum_probs=19.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
++++-+.||.++.-||+++-.+|+
T Consensus 7 l~~~k~~Le~~L~~lE~qIy~~Et 30 (80)
T PF09340_consen 7 LLQKKKKLEKDLAALEKQIYDKET 30 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667888888888888888886
No 193
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=48.82 E-value=27 Score=34.41 Aligned_cols=47 Identities=17% Similarity=0.125 Sum_probs=41.0
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCC
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSD 66 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pD 66 (163)
.||+..-.+|++-++.-+|++|+-|||+-.|-..-.||++.+.+..|
T Consensus 348 ~~r~~~~~~r~~~~l~~~~~~~~~~~g~~~~~~~~d~vi~~ir~~~~ 394 (800)
T TIGR01063 348 EHRKDVITRRTIFELRKAEERAHILEGLLIALDNIDEVIALIRASQN 394 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhCCC
Confidence 78999999999999999999999999999988888888887765544
No 194
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=48.68 E-value=22 Score=28.42 Aligned_cols=22 Identities=23% Similarity=0.246 Sum_probs=19.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~L 44 (163)
|-+||+++|.+|+-+|+|+++.
T Consensus 81 I~~Eikr~e~~i~d~q~e~~k~ 102 (120)
T KOG3478|consen 81 ISKEIKRLENQIRDSQEEFEKQ 102 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 6789999999999999988764
No 195
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=48.52 E-value=19 Score=29.35 Aligned_cols=31 Identities=32% Similarity=0.299 Sum_probs=22.8
Q ss_pred hhhHhHHH--HHHHHHHHHHHHHHHhhhcccCc
Q 037836 19 GKRRELAK--VQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 19 GKhR~~Ae--lq~LeqEI~fLEEEL~~LE~~~p 49 (163)
-|.+++++ .+.|+++|..|++|+++|+.-..
T Consensus 112 ~rk~l~~e~~~~~l~~~i~~L~~e~~~L~~~~~ 144 (189)
T PF10211_consen 112 MRKALQAEQGKQELEEEIEELEEEKEELEKQVQ 144 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455554 57889999999999999886543
No 196
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=48.41 E-value=27 Score=25.04 Aligned_cols=19 Identities=26% Similarity=0.492 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 037836 27 VQVLEREISFLEEELKTVD 45 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE 45 (163)
++.|++++..|++|+++|+
T Consensus 75 ~~~l~~~~~~l~~~i~~l~ 93 (103)
T cd01106 75 LEALREQKELLEEKKERLD 93 (103)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4556666666666666654
No 197
>TIGR00422 valS valyl-tRNA synthetase. The valyl-tRNA synthetase (ValS) is a class I amino acyl-tRNA ligase and is particularly closely related to the isoleucyl tRNA synthetase.
Probab=48.39 E-value=17 Score=35.39 Aligned_cols=28 Identities=11% Similarity=0.245 Sum_probs=24.3
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
|--..++|+++|++|+..||.||+.+|+
T Consensus 810 ~~~d~~~e~~~l~k~l~~~~~~i~~~~~ 837 (861)
T TIGR00422 810 GLINKAKELARLQKQLDKEKKEVIRIEG 837 (861)
T ss_pred hhcCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3345789999999999999999999987
No 198
>PRK05289 UDP-N-acetylglucosamine acyltransferase; Provisional
Probab=48.24 E-value=20 Score=29.92 Aligned_cols=43 Identities=28% Similarity=0.290 Sum_probs=31.6
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVA 63 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves 63 (163)
.++.++.+.|-+.-..|+|-|++|+...+.+.--+++++|+.+
T Consensus 210 ~~i~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~ 252 (262)
T PRK05289 210 HALRRAYKLLYRSGLTLEEALEELAEEYPDSPEVKEILDFIES 252 (262)
T ss_pred HHHHHHHHHHHHcCccHHHHHHHHHhhccCCHHHHHHHHHHhc
Confidence 3455666677777777788888888766667777889999965
No 199
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=48.07 E-value=27 Score=28.42 Aligned_cols=25 Identities=20% Similarity=0.210 Sum_probs=14.4
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 20 KRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
||-+.++-.+|+|||.-|.+|+.++
T Consensus 76 k~eLE~~k~~L~qqv~~L~~e~s~~ 100 (135)
T KOG4196|consen 76 KHELEKEKAELQQQVEKLKEENSRL 100 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555556666666666665443
No 200
>PF03449 GreA_GreB_N: Transcription elongation factor, N-terminal; InterPro: IPR022691 Bacterial proteins greA and greB are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3' terminus [, ]. Escherichia coli GreA and GreB are sequence homologues and have homologues in every known bacterial genome []. GreA induces cleavage two or three nucleotides behind the terminus and can only prevent the formation of arrested complexes while greB releases longer sequences up to eighteen nucleotides in length and can rescue preexisting arrested complexes. These functional differences correlate with a distinctive structural feature, the distribution of positively charged residues on one face of the N-terminal coiled coil. Remarkably, despite close functional similarity, the prokaryotic Gre factors have no sequence or structural similarity with eukaryotic TFIIS. ; GO: 0003677 DNA binding, 0032784 regulation of transcription elongation, DNA-dependent; PDB: 1GRJ_A 2EUL_C 3AOH_Y 3AOI_X 2F23_A 2ETN_C 2P4V_B.
Probab=48.07 E-value=34 Score=24.34 Aligned_cols=28 Identities=21% Similarity=0.251 Sum_probs=20.0
Q ss_pred hhhhHhHHHHHHHHH-HHHHHHHHHhhhc
Q 037836 18 YGKRRELAKVQVLER-EISFLEEELKTVD 45 (163)
Q Consensus 18 ~GKhR~~Aelq~Leq-EI~fLEEEL~~LE 45 (163)
-|.+|+++||+.|.+ +.-.+-++|+.-=
T Consensus 9 ~g~~~L~~EL~~L~~~~rpe~~~~i~~Ar 37 (74)
T PF03449_consen 9 EGYEKLQAELEHLKNVERPEIAEEIAEAR 37 (74)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 588889999998877 5556666665543
No 201
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=48.05 E-value=32 Score=24.13 Aligned_cols=21 Identities=19% Similarity=0.319 Sum_probs=9.2
Q ss_pred hHHHHHHHHHHHHHHHHHHhh
Q 037836 23 ELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~ 43 (163)
+..+|+.|+.+|.-|++|++.
T Consensus 8 Ls~dVq~L~~kvdqLs~dv~~ 28 (56)
T PF04728_consen 8 LSSDVQTLNSKVDQLSSDVNA 28 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444443
No 202
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=48.00 E-value=40 Score=21.57 Aligned_cols=27 Identities=15% Similarity=0.307 Sum_probs=22.6
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
-||+.+|..+|.+.-..|+--|++|-+
T Consensus 3 EqkL~sekeqLrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 3 EQKLISEKEQLRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 489999999999999999999988854
No 203
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=47.85 E-value=19 Score=28.06 Aligned_cols=25 Identities=24% Similarity=0.427 Sum_probs=12.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
|.+.+++.+++.+.-|++||+++++
T Consensus 78 ~~~~e~~~~~~~l~~l~~el~~l~~ 102 (191)
T PF04156_consen 78 RLQGELSELQQQLQQLQEELDQLQE 102 (191)
T ss_pred hhhhhHHhHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555555443
No 204
>PLN02381 valyl-tRNA synthetase
Probab=47.81 E-value=13 Score=37.67 Aligned_cols=30 Identities=10% Similarity=0.240 Sum_probs=24.4
Q ss_pred hhhhHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 18 YGKRRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 18 ~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
-|.=-..+|+++|+.||.+||.||+.+++.
T Consensus 990 ~~~iD~~~E~~rL~K~l~klekei~~~~~k 1019 (1066)
T PLN02381 990 QGAVNAEAELEKLRNKMDEIQKQQEKLEKK 1019 (1066)
T ss_pred CcccCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 343447899999999999999999988764
No 205
>PHA03395 p10 fibrous body protein; Provisional
Probab=47.65 E-value=32 Score=26.06 Aligned_cols=50 Identities=16% Similarity=0.228 Sum_probs=26.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhc-----------ccCchhhhhHHHHHhhhh---cCCCCcccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVD-----------RFHPASRSCKEVADFVVA---KSDPLIPVN 72 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE-----------~~~paS~~CKEv~~~Ves---~pDPLLP~t 72 (163)
|.+.|+.+...+..||..++.|+ +++.-++.-.++.+.|.. ...|-||..
T Consensus 9 Ir~dIkavd~KVdalQ~~V~~l~~nlpdv~~l~~kLdaq~~~Ltti~tkv~~I~diLnpdiPdl 72 (87)
T PHA03395 9 IRQDIKAVSDKVDALQAAVDDVRANLPDVTEINEKLDAQSASLDTISSAVDNITDILNPDIPDV 72 (87)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHhcCCcHHHHHHHHHhHHHHHHHHHHHHHHHHHccCCCCCCC
Confidence 45667777766666665555554 333444444555544444 434444443
No 206
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.41 E-value=45 Score=30.38 Aligned_cols=24 Identities=21% Similarity=0.268 Sum_probs=17.0
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+.|+||++=|+|++--|+||+.=|
T Consensus 64 ~kq~eL~~rqeEL~Rke~ELdRRE 87 (313)
T KOG3088|consen 64 KKQAELLKKQEELRRKEQELDRRE 87 (313)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHH
Confidence 367777777777777777776655
No 207
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=47.29 E-value=22 Score=29.41 Aligned_cols=13 Identities=54% Similarity=0.603 Sum_probs=4.8
Q ss_pred HHHHHHHHHHHHH
Q 037836 25 AKVQVLEREISFL 37 (163)
Q Consensus 25 Aelq~LeqEI~fL 37 (163)
+++.+|++|+..|
T Consensus 56 ~e~~~l~~e~e~L 68 (251)
T PF11932_consen 56 AEYRQLEREIENL 68 (251)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 208
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=47.13 E-value=25 Score=29.90 Aligned_cols=26 Identities=35% Similarity=0.425 Sum_probs=19.7
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
++++++|+-.+||+|.+.|..|++.|
T Consensus 82 ~~~~L~aq~rqlEkE~q~L~~~i~~L 107 (193)
T PF14662_consen 82 ENRSLLAQARQLEKEQQSLVAEIETL 107 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56778888888888887777776654
No 209
>COG2456 Uncharacterized conserved protein [Function unknown]
Probab=47.13 E-value=24 Score=28.31 Aligned_cols=24 Identities=29% Similarity=0.314 Sum_probs=19.7
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
-|+-+.|+++||||..|-.|+.-=
T Consensus 89 frlYl~IdkiereITelvreIAiR 112 (121)
T COG2456 89 FRLYLDIDKIEREITELVREIAIR 112 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 578899999999999998887533
No 210
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=46.68 E-value=22 Score=24.93 Aligned_cols=32 Identities=28% Similarity=0.407 Sum_probs=25.5
Q ss_pred CchhhhHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 16 DLYGKRRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 16 D~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
-..|.-=-..-|..|+.-|..||.|+..+|..
T Consensus 12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~ 43 (59)
T PF06698_consen 12 HEIGEDLSLLSVEELEERIALLEAEIARLEAA 43 (59)
T ss_pred cccCCCchhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 34566555667889999999999999998864
No 211
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=46.67 E-value=26 Score=26.27 Aligned_cols=18 Identities=6% Similarity=0.237 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHhhhcc
Q 037836 29 VLEREISFLEEELKTVDR 46 (163)
Q Consensus 29 ~LeqEI~fLEEEL~~LE~ 46 (163)
.|++++..|++++++|+.
T Consensus 83 ~l~~~~~~l~~~i~~L~~ 100 (126)
T cd04785 83 IARAHLADVRARIADLRR 100 (126)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444544444433
No 212
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=46.49 E-value=27 Score=30.59 Aligned_cols=25 Identities=28% Similarity=0.454 Sum_probs=12.1
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
.++.+||+.||+|-.-|++||++||
T Consensus 60 ~~l~~eL~~LE~e~~~l~~el~~le 84 (314)
T PF04111_consen 60 EELLQELEELEKEREELDQELEELE 84 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555554444444444444
No 213
>smart00434 TOP4c DNA Topoisomerase IV. Bacterial DNA topoisomerase IV, GyrA, ParC
Probab=46.40 E-value=19 Score=33.06 Aligned_cols=26 Identities=27% Similarity=0.519 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
.++.+|++|+.-|++|+++|+++-+.
T Consensus 415 ~e~~kL~~e~~~l~~ei~~l~~~l~~ 440 (445)
T smart00434 415 LEVEKLEKELKELEKEIEDLEKILAS 440 (445)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 46889999999999999999987654
No 214
>PRK09343 prefoldin subunit beta; Provisional
Probab=46.34 E-value=24 Score=26.81 Aligned_cols=21 Identities=19% Similarity=0.267 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHhhhccc
Q 037836 27 VQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~ 47 (163)
++.|+..|.|++.+|+.||+-
T Consensus 73 ~~~l~~r~E~ie~~ik~lekq 93 (121)
T PRK09343 73 EKELKERKELLELRSRTLEKQ 93 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455555555555555555543
No 215
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=46.31 E-value=30 Score=24.92 Aligned_cols=21 Identities=14% Similarity=0.563 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHhhhcc
Q 037836 26 KVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~ 46 (163)
+++.|++.|.+|++++++|++
T Consensus 88 A~~~l~~r~~~l~~~~~~l~~ 108 (129)
T cd00890 88 AIEFLKKRLETLEKQIEKLEK 108 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455555555555555555544
No 216
>PF08898 DUF1843: Domain of unknown function (DUF1843); InterPro: IPR014994 This domain is found in functionally uncharacterised proteins. It can be found independently or at the C terminus of the protein.
Probab=46.28 E-value=21 Score=24.91 Aligned_cols=16 Identities=38% Similarity=0.366 Sum_probs=10.5
Q ss_pred hHHHHHHHHHHHHHHH
Q 037836 23 ELAKVQVLEREISFLE 38 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLE 38 (163)
+.++|+.|+.||.-||
T Consensus 36 i~~al~~Lk~EIaklE 51 (53)
T PF08898_consen 36 IAAALEKLKAEIAKLE 51 (53)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 4566677777776665
No 217
>PF13887 MRF_C1: Myelin gene regulatory factor -C-terminal domain 1
Probab=46.24 E-value=21 Score=23.35 Aligned_cols=24 Identities=25% Similarity=0.386 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccc
Q 037836 24 LAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
.+++|.|-+-.+-||.-|++||.+
T Consensus 13 V~AvqeLck~t~~Le~rI~ele~~ 36 (36)
T PF13887_consen 13 VGAVQELCKLTDNLETRIDELERW 36 (36)
T ss_pred HHHHHHHHHHhccHHHHHHHHhhC
Confidence 478999999999999999999864
No 218
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=45.95 E-value=26 Score=24.60 Aligned_cols=22 Identities=18% Similarity=0.404 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhcc
Q 037836 25 AKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
++|.+|..+|+-|...+.+|..
T Consensus 3 akid~Ls~dVq~L~~kvdqLs~ 24 (56)
T PF04728_consen 3 AKIDQLSSDVQTLNSKVDQLSS 24 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555555544
No 219
>PRK03762 hypothetical protein; Provisional
Probab=45.80 E-value=26 Score=26.65 Aligned_cols=26 Identities=15% Similarity=0.138 Sum_probs=22.1
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
=..++..+|++++++.-+|+||++.|
T Consensus 7 ~~~m~kqaqkmQ~km~~~Q~el~~~~ 32 (103)
T PRK03762 7 FSKLGEMLEQMQKKAKQLEEENANKE 32 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccE
Confidence 44567778999999999999999887
No 220
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=45.68 E-value=31 Score=24.67 Aligned_cols=24 Identities=17% Similarity=0.243 Sum_probs=18.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.+.|.++..+|.-||..|..||.
T Consensus 55 q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 55 QKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 356677788888888888888874
No 221
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=45.48 E-value=37 Score=24.91 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=15.2
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
....++|+.|+.+-.-|.+||++.|
T Consensus 35 ~~~e~ei~~l~~dr~rLa~eLD~~~ 59 (89)
T PF13747_consen 35 DELEEEIQRLDADRSRLAQELDQAE 59 (89)
T ss_pred hhHHHHHHHHHhhHHHHHHHHHhHH
Confidence 4455666666666666666666554
No 222
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=45.43 E-value=31 Score=26.03 Aligned_cols=23 Identities=26% Similarity=0.258 Sum_probs=19.3
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhh
Q 037836 21 RRELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~ 43 (163)
++++++++.|.+|+..|+.+|+.
T Consensus 52 ~~L~~e~~~l~~E~e~L~~~l~~ 74 (87)
T PF12709_consen 52 DELENENKALKRENEQLKKKLDT 74 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888999999999999887763
No 223
>KOG4787 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.26 E-value=20 Score=35.86 Aligned_cols=47 Identities=15% Similarity=0.173 Sum_probs=29.3
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchh-hhhHHHHHhhhhcCCCC
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPAS-RSCKEVADFVVAKSDPL 68 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS-~~CKEv~~~Ves~pDPL 68 (163)
|+++|+..++.-|.-+|++++.|-....+. +-+|+++..=.+.+||-
T Consensus 519 ~L~~ElE~~~~~~~~~e~~~evL~~~~~~t~~l~Kq~L~~~~~q~de~ 566 (852)
T KOG4787|consen 519 DLVSELEGKIPTIDEIEQCCEVLAAVETQTGRLCKQFLKIDHAQKDER 566 (852)
T ss_pred HHHHHHHhhcCcHhHHHHHHHHHHHHhhhHHHHHHHHHHhcccCcchH
Confidence 444555555555555555555555544555 57888888888888874
No 224
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=45.22 E-value=19 Score=26.17 Aligned_cols=22 Identities=18% Similarity=0.113 Sum_probs=11.2
Q ss_pred chhhhHhH--HHHHHHHHHHHHHH
Q 037836 17 LYGKRREL--AKVQVLEREISFLE 38 (163)
Q Consensus 17 ~~GKhR~~--Aelq~LeqEI~fLE 38 (163)
+++||+++ ++.+.|.++|+.++
T Consensus 30 L~~~H~~~~~~~~~~i~~~~~~~~ 53 (109)
T PF12013_consen 30 LRKRHHILKSQERQRIVEAIRQWP 53 (109)
T ss_pred HHHhcccccHHHHHHHHHHHHhhh
Confidence 34566655 34555555554433
No 225
>COG3599 DivIVA Cell division initiation protein [Cell division and chromosome partitioning]
Probab=45.20 E-value=28 Score=29.46 Aligned_cols=27 Identities=37% Similarity=0.357 Sum_probs=23.9
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
+.++.+++.|++||..|++||++...+
T Consensus 40 e~~l~e~~~l~~~i~~L~~~l~~~~~~ 66 (212)
T COG3599 40 EQLLDENEDLEDEIDELKEELKEAADA 66 (212)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 567789999999999999999988876
No 226
>PF07303 Occludin_ELL: Occludin homology domain; InterPro: IPR010844 This represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localises to tight junctions [], while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA []. This shared domain is thought to mediate protein interactions [].; PDB: 1WPA_A 3G7C_A 1XAW_A.
Probab=45.19 E-value=34 Score=25.69 Aligned_cols=26 Identities=27% Similarity=0.367 Sum_probs=22.4
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
++++|+|+.+.+++.-|+.+|+.|..
T Consensus 25 k~L~~~v~~v~~~f~~L~~~l~~l~~ 50 (101)
T PF07303_consen 25 KELHAEVDAVSRRFQELDSELKRLPP 50 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHS-T
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 57899999999999999999988866
No 227
>PF14282 FlxA: FlxA-like protein
Probab=45.13 E-value=28 Score=25.96 Aligned_cols=22 Identities=23% Similarity=0.261 Sum_probs=11.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~L 44 (163)
++++|++|+.+|.-|+.+..+-
T Consensus 56 Lq~QI~~LqaQI~qlq~q~~~~ 77 (106)
T PF14282_consen 56 LQAQIQQLQAQIAQLQSQQAEQ 77 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555554443
No 228
>PRK14624 hypothetical protein; Provisional
Probab=44.96 E-value=27 Score=27.16 Aligned_cols=27 Identities=4% Similarity=0.203 Sum_probs=21.9
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
-++.+.|++++++.-+|+||++.+=..
T Consensus 10 ~~mkqAq~mQ~km~~~QeeL~~~~v~g 36 (115)
T PRK14624 10 EALSNMGNIREKMEEVKKRIASIRVVG 36 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccEEEE
Confidence 466778899999999999999876433
No 229
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=44.92 E-value=24 Score=26.25 Aligned_cols=35 Identities=17% Similarity=0.180 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhh
Q 037836 26 KVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVA 63 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves 63 (163)
+++.+++||.-|+.||.+|+ ++. ...|+.+.+-..
T Consensus 72 ~~~~~~~ei~~L~~el~~L~-~E~--diLKKa~~~~~~ 106 (121)
T PRK09413 72 ELAAAMKQIKELQRLLGKKT-MEN--ELLKEAVEYGRA 106 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHH--HHHHHHHHHhch
Confidence 46678888888998888887 222 255666655443
No 230
>PF11855 DUF3375: Protein of unknown function (DUF3375); InterPro: IPR021804 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 479 to 499 amino acids in length.
Probab=44.85 E-value=23 Score=32.58 Aligned_cols=23 Identities=26% Similarity=0.452 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhccc
Q 037836 25 AKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
+.|..||+||.-|++||+.|+--
T Consensus 144 ~Ri~~Le~e~~~i~~EI~~l~aG 166 (478)
T PF11855_consen 144 RRIAELEREIAEIDAEIDRLEAG 166 (478)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCC
Confidence 45788899999999999888754
No 231
>PRK11637 AmiB activator; Provisional
Probab=44.76 E-value=27 Score=31.00 Aligned_cols=22 Identities=14% Similarity=0.323 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 037836 24 LAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+++|+.+++||.-|++||++++
T Consensus 95 ~~~i~~~~~ei~~l~~eI~~~q 116 (428)
T PRK11637 95 QNTLNQLNKQIDELNASIAKLE 116 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555554
No 232
>PF12269 zf-CpG_bind_C: CpG binding protein zinc finger C terminal domain; InterPro: IPR022056 This domain family is found in eukaryotes, and is approximately 240 amino acids in length. This domain is the zinc finger domain of a CpG binding DNA methyltransferase protein. It contains a CxxC motif which forms the zinc finger and binds to DNA.
Probab=44.76 E-value=30 Score=30.11 Aligned_cols=41 Identities=10% Similarity=0.283 Sum_probs=27.6
Q ss_pred CCCCCchhhhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhh
Q 037836 12 PEYPDLYGKRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVV 62 (163)
Q Consensus 12 P~~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ve 62 (163)
|-+.+-.||++ |+++++++...+++|++||+.+ +||..+|.
T Consensus 20 p~~A~E~~r~~----Le~Ir~kq~~v~~~l~eLe~~~------~el~~~i~ 60 (236)
T PF12269_consen 20 PCVAEEQNRKL----LEEIRKKQQKVRNRLQELEKRF------KELEAIIA 60 (236)
T ss_pred CchhhhhhHHH----HHHHHHHHHHHHHHHHHHHHHH------HHHHHHHH
Confidence 44555555554 4678888888888888888766 45555554
No 233
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=44.72 E-value=34 Score=27.05 Aligned_cols=25 Identities=20% Similarity=0.319 Sum_probs=18.4
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.+..+|+.|+++.+.|+++|++|..
T Consensus 81 ~Le~ri~tLekQe~~l~e~l~eLq~ 105 (119)
T COG1382 81 TLELRIKTLEKQEEKLQERLEELQS 105 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556778888888888888877753
No 234
>cd07637 BAR_ACAP3 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 3. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP3 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 3), also called centaurin beta-5, is presumed to be an Arf GTPase activating protein (GAP) based on its similarity to the Arf6-specific GAPs ACAP1 and ACAP2. The specific function of ACAP3 is still unknown. ACAP3 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=44.60 E-value=19 Score=29.83 Aligned_cols=23 Identities=17% Similarity=0.385 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhccc
Q 037836 25 AKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
|.|..+|++|..||.+|+.|-+.
T Consensus 2 ~~~~~~E~~~~~le~~l~kl~K~ 24 (200)
T cd07637 2 ATIDEVETDVVEIEAKLDKLVKL 24 (200)
T ss_pred chHHHHHhhHHHHHHHHHHHHHH
Confidence 67999999999999999987654
No 235
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=44.58 E-value=38 Score=25.28 Aligned_cols=24 Identities=21% Similarity=0.196 Sum_probs=11.3
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
|+++.+|..|+-+++-|+++|+.+
T Consensus 68 ~~L~l~l~el~G~~~~l~~~l~~v 91 (106)
T PF10805_consen 68 HDLQLELAELRGELKELSARLQGV 91 (106)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHH
Confidence 444444444444444444444443
No 236
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=44.39 E-value=32 Score=30.33 Aligned_cols=32 Identities=28% Similarity=0.238 Sum_probs=22.0
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
.++..+++.+++|+..|++||+.|.+...+-.
T Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 (389)
T PRK03992 25 RDLEAENEKLERELERLKSELEKLKSPPLIVA 56 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCCceEE
Confidence 45566677777888888888887777554433
No 237
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=44.26 E-value=18 Score=26.35 Aligned_cols=27 Identities=19% Similarity=0.294 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
....-..|||||.-||+.|++=..+..
T Consensus 6 ~~~~r~~LeqeV~~Lq~~L~~E~~~r~ 32 (88)
T PF14389_consen 6 LHERRSALEQEVAELQKQLQEEQDLRR 32 (88)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344567899999999999987555443
No 238
>PF14735 HAUS4: HAUS augmin-like complex subunit 4
Probab=44.19 E-value=32 Score=29.54 Aligned_cols=31 Identities=16% Similarity=0.314 Sum_probs=27.5
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
|.++.++++.+++|..-.+.+|++.|++++.
T Consensus 180 r~~L~~~~~~~e~~~~~a~~~L~~Ye~lg~~ 210 (238)
T PF14735_consen 180 RDHLEEAIEELEQELQKARQRLESYEGLGPE 210 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccHh
Confidence 3456788999999999999999999999976
No 239
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=44.06 E-value=29 Score=31.17 Aligned_cols=26 Identities=19% Similarity=0.371 Sum_probs=20.2
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
-.|+.||..+|+++..-||+||+.|.
T Consensus 216 q~~~~ae~seLq~r~~~l~~~L~~L~ 241 (289)
T COG4985 216 QQHYVAEKSELQKRLAQLQTELDALR 241 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35677888888888888888888775
No 240
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=44.04 E-value=51 Score=21.38 Aligned_cols=32 Identities=28% Similarity=0.332 Sum_probs=23.7
Q ss_pred CCCchhhhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 14 YPDLYGKRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 14 ~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
..|.-.-.+++.+++.+++||.-.++.|+.|.
T Consensus 30 ~~~~~~~~~~~~~~~~~~~ei~~~~~~l~~l~ 61 (105)
T PF00435_consen 30 GSDLEELEEQLKKHKELQEEIESRQERLESLN 61 (105)
T ss_dssp SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 45666677777788888888887777777765
No 241
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=44.02 E-value=26 Score=32.87 Aligned_cols=20 Identities=45% Similarity=0.672 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHhhhc
Q 037836 26 KVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE 45 (163)
+++.|+++++.|++|+++++
T Consensus 101 ~i~~l~~~~~~L~~~~~~l~ 120 (646)
T PRK05771 101 EIKELEEEISELENEIKELE 120 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444433
No 242
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=44.00 E-value=34 Score=24.52 Aligned_cols=22 Identities=14% Similarity=0.442 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHhhhccc
Q 037836 26 KVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~ 47 (163)
..+.|++++..|++|+++|+.+
T Consensus 75 ~~~~l~~~~~~l~~~i~~l~~~ 96 (97)
T cd04782 75 LIELLKKQEKEIKEEIEELQKI 96 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3556777777777777777654
No 243
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=43.98 E-value=30 Score=25.81 Aligned_cols=20 Identities=40% Similarity=0.536 Sum_probs=12.1
Q ss_pred hHhHHHHHHHHHHHHHHHHH
Q 037836 21 RRELAKVQVLEREISFLEEE 40 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEE 40 (163)
.|++.++++|-||+..+|.|
T Consensus 89 s~le~~i~~L~qeiAl~e~~ 108 (115)
T PF10066_consen 89 SRLEEKIKRLAQEIALLEAE 108 (115)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 45556666666666666544
No 244
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=43.88 E-value=26 Score=25.81 Aligned_cols=27 Identities=15% Similarity=0.194 Sum_probs=15.7
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
..++.+++.|+++|..|+..+++++..
T Consensus 9 ~ql~~~i~~l~~~i~~l~~~i~e~~~~ 35 (126)
T TIGR00293 9 QILQQQVESLQAQIAALRALIAELETA 35 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666666655555443
No 245
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=43.80 E-value=40 Score=30.42 Aligned_cols=47 Identities=15% Similarity=0.071 Sum_probs=38.4
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCC
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSD 66 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pD 66 (163)
.||+..=.+|++-+++-|+++|+-|||+-.|-.--++|++.|.+.-|
T Consensus 314 ~~R~~~~~kR~~~~l~kl~~~l~il~gl~~~~~~idfIi~vI~~s~~ 360 (426)
T PF00521_consen 314 EFRLEYYQKRKQYLLEKLEERLHILEGLIKALNKIDFIIEVIRGSID 360 (426)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHSSS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccc
Confidence 57888888888888888999999999888887777888877777655
No 246
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=43.77 E-value=53 Score=24.20 Aligned_cols=27 Identities=19% Similarity=0.309 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 26 KVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
+++.|+.+++-.+-=+++|+++++-..
T Consensus 25 q~~~le~~~~E~~~v~~eL~~l~~d~~ 51 (110)
T TIGR02338 25 QKQQVEAQLKEAEKALEELERLPDDTP 51 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCcch
Confidence 344444444444444555666655443
No 247
>PF05308 Mito_fiss_reg: Mitochondrial fission regulator; InterPro: IPR007972 This family consists of several uncharacterised eukaryotic proteins of unknown function.
Probab=43.76 E-value=33 Score=29.72 Aligned_cols=27 Identities=26% Similarity=0.349 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 26 KVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
+|..||.|+.+|...|-.|=.+|..+.
T Consensus 123 KIsALEdELs~LRaQIA~IV~~qe~~~ 149 (253)
T PF05308_consen 123 KISALEDELSRLRAQIAKIVAAQEQSN 149 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccccc
Confidence 566699999999998888877776655
No 248
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=43.74 E-value=27 Score=25.04 Aligned_cols=23 Identities=4% Similarity=0.219 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHhhhcccC
Q 037836 26 KVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~~ 48 (163)
-.+.|++++..|++++++|+.++
T Consensus 74 ~~~~l~~~~~~l~~~i~~l~~~~ 96 (96)
T cd04768 74 LTAMLLEKKQAIQQKIDRLQQLE 96 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcC
Confidence 35668888888898888887653
No 249
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=43.70 E-value=48 Score=26.20 Aligned_cols=34 Identities=18% Similarity=0.325 Sum_probs=23.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHH
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPASRSCKE 56 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKE 56 (163)
+..+.+.||.+++..+.=|++||+++.-..+=|.
T Consensus 25 ~~~qk~~le~qL~E~~~al~Ele~l~eD~~vYk~ 58 (119)
T COG1382 25 VILQKQQLEAQLKEIEKALEELEKLDEDAPVYKK 58 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCcccHHHHH
Confidence 4455666777777777778888888776644443
No 250
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=43.47 E-value=47 Score=23.94 Aligned_cols=40 Identities=23% Similarity=0.197 Sum_probs=30.9
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHH
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVAD 59 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~ 59 (163)
-.-+..++..|.+|+..|+.++..+.|=+-.+-.-+||..
T Consensus 14 ~e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~ 53 (100)
T PF01486_consen 14 HEELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQ 53 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHH
Confidence 3456788888999999999888888887777766677654
No 251
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=43.46 E-value=30 Score=26.10 Aligned_cols=24 Identities=17% Similarity=0.034 Sum_probs=13.1
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
-++.+++.|+++|..|++-++.|+
T Consensus 83 ~l~~~~~~l~~~i~~l~~~~~~l~ 106 (133)
T cd04787 83 LIEQRLAETERRIKELLKLRDRMQ 106 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555566666666655555444
No 252
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=43.44 E-value=37 Score=25.49 Aligned_cols=17 Identities=24% Similarity=0.483 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHHhh
Q 037836 27 VQVLEREISFLEEELKT 43 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~ 43 (163)
+..|+.+++.+++|.++
T Consensus 82 ~~~l~~~~~~~~~~~~~ 98 (118)
T PF13815_consen 82 LEQLEERLQELQQEIEK 98 (118)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 253
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=43.19 E-value=32 Score=28.55 Aligned_cols=22 Identities=23% Similarity=0.309 Sum_probs=16.6
Q ss_pred hhHhHHHHHHHHHHHHHHHHHH
Q 037836 20 KRRELAKVQVLEREISFLEEEL 41 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL 41 (163)
|..+..||.++|.||..|.+-|
T Consensus 31 ~eeLr~EL~KvEeEI~TLrqvL 52 (162)
T PF04201_consen 31 REELRSELAKVEEEIQTLRQVL 52 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5667788888888888887644
No 254
>PF15112 DUF4559: Domain of unknown function (DUF4559)
Probab=43.11 E-value=35 Score=30.90 Aligned_cols=40 Identities=25% Similarity=0.454 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHhhh----cccC----chhhhhHHHHHhhhhcCC
Q 037836 27 VQVLEREISFLEEELKTV----DRFH----PASRSCKEVADFVVAKSD 66 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~L----E~~~----paS~~CKEv~~~Ves~pD 66 (163)
-++||.|+.+|+|-|++| |+-. ..+.--+=|.+|+.++.|
T Consensus 224 ~~i~e~e~e~Lke~lqel~~~~e~~~~~~ee~~~~l~~~~~fL~~NkD 271 (307)
T PF15112_consen 224 SQILEIEMELLKEKLQELYLQAEEQEVLPEEDSKRLEVLKEFLRNNKD 271 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHhcHH
Confidence 457899999999999888 3222 234455556666666655
No 255
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=43.03 E-value=32 Score=25.73 Aligned_cols=22 Identities=36% Similarity=0.462 Sum_probs=15.3
Q ss_pred hHhHHHHHHHHHHHHHHHHHHh
Q 037836 21 RRELAKVQVLEREISFLEEELK 42 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~ 42 (163)
.+-+.+||-|++-|.-||-||-
T Consensus 69 ~kTh~aIq~LdKtIS~LEMELA 90 (95)
T PF13334_consen 69 SKTHEAIQSLDKTISSLEMELA 90 (95)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445567778888888887774
No 256
>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit
Probab=43.03 E-value=39 Score=26.13 Aligned_cols=12 Identities=25% Similarity=0.634 Sum_probs=5.1
Q ss_pred HHHHHHHHhhhc
Q 037836 34 ISFLEEELKTVD 45 (163)
Q Consensus 34 I~fLEEEL~~LE 45 (163)
|..||+|++..|
T Consensus 43 l~lLq~e~~~~e 54 (160)
T PF13094_consen 43 LELLQEEIEKEE 54 (160)
T ss_pred HHHHHHHHHHHH
Confidence 334444444433
No 257
>smart00324 RhoGAP GTPase-activator protein for Rho-like GTPases. GTPase activator proteins towards Rho/Rac/Cdc42-like small GTPases. etter domain limits and outliers.
Probab=42.90 E-value=51 Score=24.81 Aligned_cols=24 Identities=21% Similarity=0.317 Sum_probs=18.6
Q ss_pred chhhhhHHHHHhhhhcCCCCcccc
Q 037836 49 PASRSCKEVADFVVAKSDPLIPVN 72 (163)
Q Consensus 49 paS~~CKEv~~~Ves~pDPLLP~t 72 (163)
.+..++-=+..|+.+-||||+|..
T Consensus 55 ~~~~va~~lK~~Lr~Lp~pli~~~ 78 (174)
T smart00324 55 DVHDVAGLLKLFLRELPEPLIPYE 78 (174)
T ss_pred CHHHHHHHHHHHHHhCCCccCCHH
Confidence 444566668888889999999975
No 258
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=42.68 E-value=34 Score=32.13 Aligned_cols=27 Identities=30% Similarity=0.352 Sum_probs=18.3
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.++++++++.+++|+..+++||+++-.
T Consensus 217 l~~l~~~l~~l~~~~~~~~~~l~~~~~ 243 (646)
T PRK05771 217 IREIKEELEEIEKERESLLEELKELAK 243 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666777777777777777776544
No 259
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=42.50 E-value=22 Score=35.92 Aligned_cols=26 Identities=15% Similarity=0.294 Sum_probs=17.7
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.|+.+||++|+.||.-||.+|...+.
T Consensus 845 ~rLekel~kl~Kel~kl~~~L~n~~f 870 (1052)
T PRK14900 845 ARVDKEIGKVDQDLAVLERKLQNPSF 870 (1052)
T ss_pred hhHHHHHHHHHHHHHHHHHHhcCchh
Confidence 46667777777777777776666655
No 260
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=42.50 E-value=35 Score=25.03 Aligned_cols=42 Identities=17% Similarity=0.166 Sum_probs=29.3
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccC-chhhhhHHHHHhhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFH-PASRSCKEVADFVV 62 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~-paS~~CKEv~~~Ve 62 (163)
++|.+.-.+|.+|+.-.+.+++.||+++ .+|+-.+-.++.|.
T Consensus 42 ~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~~a~e~Ir 84 (89)
T PF13747_consen 42 QRLDADRSRLAQELDQAEARANRLEEANREVSRRLDSAIETIR 84 (89)
T ss_pred HHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888888888888888888888654 34544444444443
No 261
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=42.44 E-value=35 Score=25.11 Aligned_cols=19 Identities=26% Similarity=0.581 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHhhhcc
Q 037836 28 QVLEREISFLEEELKTVDR 46 (163)
Q Consensus 28 q~LeqEI~fLEEEL~~LE~ 46 (163)
+.|++++..|++++++|+.
T Consensus 84 ~~l~~~~~~l~~~i~~L~~ 102 (112)
T cd01282 84 AVLRRELARIDRQIADLTR 102 (112)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444443
No 262
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=42.38 E-value=37 Score=33.33 Aligned_cols=47 Identities=15% Similarity=0.163 Sum_probs=40.2
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCC
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSD 66 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pD 66 (163)
.||+..=.+|.+-++.-++++++-|||+-.|-....|+++.+.+..|
T Consensus 348 ~~R~~~~~rr~~~~l~k~~~r~~il~g~~~~~~~id~~i~iir~~~~ 394 (738)
T TIGR01061 348 KHCHEVIINRSKYELEKASKRLEIVEGLIKAISIIDEIIKLIRSSED 394 (738)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhHHHHcCCC
Confidence 68888888899999999999999999998888888888887765554
No 263
>PF14854 LURAP: Leucine rich adaptor protein
Probab=42.35 E-value=43 Score=26.86 Aligned_cols=34 Identities=21% Similarity=0.140 Sum_probs=26.0
Q ss_pred CCCCCCCCCCCCchhhhHhHHHHHHHHHHHHHHH
Q 037836 5 PPCPKSPPEYPDLYGKRRELAKVQVLEREISFLE 38 (163)
Q Consensus 5 ~p~PKsPP~~pD~~GKhR~~Aelq~LeqEI~fLE 38 (163)
.+.|.+|........++++.++|+.|.+|+.-|.
T Consensus 2 ~~~~~~~~~~~~~~~~~~Ld~kl~~Lr~EM~~LR 35 (121)
T PF14854_consen 2 SATSGSPKRSSPEKDLSNLDAKLAFLRKEMAGLR 35 (121)
T ss_pred CCCCCCcccCCCCCCccCHHHHHHHHHHHHHHHH
Confidence 3455666666677788999999999999986664
No 264
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=42.32 E-value=32 Score=31.30 Aligned_cols=37 Identities=19% Similarity=0.285 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhh
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFV 61 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~V 61 (163)
.+|+.|++||.-||+||..++....+-..-..+++..
T Consensus 71 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~ 107 (525)
T TIGR02231 71 ERLAELRKQIRELEAELRDLEDRGDALKALAKFLEDI 107 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3677777777777777777776544444444444433
No 265
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=42.20 E-value=43 Score=24.37 Aligned_cols=21 Identities=38% Similarity=0.382 Sum_probs=9.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhh
Q 037836 23 ELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~ 43 (163)
+.+.|+.|+.|..-|+++|+.
T Consensus 85 L~~~l~~l~~eN~~L~~~i~~ 105 (109)
T PF03980_consen 85 LNARLQELEEENEALAEEIQE 105 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444443
No 266
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=41.96 E-value=25 Score=28.14 Aligned_cols=29 Identities=14% Similarity=0.271 Sum_probs=20.5
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
.+..++++.+++++..+++++++||+...
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 77 (151)
T PF14584_consen 49 NELFDQIDELKEELEELEKRIEELEEKLR 77 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566777777777788888777776543
No 267
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=41.87 E-value=34 Score=25.67 Aligned_cols=18 Identities=17% Similarity=0.250 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHhhhcc
Q 037836 29 VLEREISFLEEELKTVDR 46 (163)
Q Consensus 29 ~LeqEI~fLEEEL~~LE~ 46 (163)
.|++++..|++++++|+.
T Consensus 83 ~l~~~~~~l~~~i~~L~~ 100 (127)
T cd01108 83 LALEHIAELERKIAELQA 100 (127)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444445555555444433
No 268
>PF08655 DASH_Ask1: DASH complex subunit Ask1; InterPro: IPR013964 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=41.86 E-value=19 Score=25.81 Aligned_cols=17 Identities=29% Similarity=0.640 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHhh
Q 037836 27 VQVLEREISFLEEELKT 43 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~ 43 (163)
|.+|||||.++-.|+++
T Consensus 1 lE~ldQ~iTl~LQeID~ 17 (66)
T PF08655_consen 1 LEQLDQEITLLLQEIDS 17 (66)
T ss_pred CcHHHHHHHHHHHHHHH
Confidence 46899999998777764
No 269
>cd04772 HTH_TioE_rpt1 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD contains the N-terminal or first repeat (rpt1) of these tandem MerR-like domain proteins.
Probab=41.71 E-value=23 Score=25.64 Aligned_cols=22 Identities=9% Similarity=0.299 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhcc
Q 037836 25 AKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
..++.|++++..|++++++|+.
T Consensus 76 ~~~~ll~~~~~~l~~~i~~L~~ 97 (99)
T cd04772 76 SALALVDAAHALLQRYRQQLDQ 97 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4467788888888888888763
No 270
>PF10359 Fmp27_WPPW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019449 The function of the FMP27 protein is not known. FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a domain within FMP27 that contains characteristic HQR and WPPW sequence motifs.
Probab=41.34 E-value=36 Score=31.22 Aligned_cols=24 Identities=25% Similarity=0.299 Sum_probs=17.2
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
++..|+.|++||.-+++.|+++|.
T Consensus 168 ~~~Rl~~L~~qi~~~~~~l~~~~~ 191 (475)
T PF10359_consen 168 IQERLDELEEQIEKHEEKLGELEL 191 (475)
T ss_pred HHHHHHHHHHHHHHHHHhhhcccc
Confidence 445577788888888877777654
No 271
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=41.34 E-value=28 Score=27.88 Aligned_cols=26 Identities=19% Similarity=0.330 Sum_probs=20.9
Q ss_pred hHHHH-HHHHHHHHHHHHHHhhhcccC
Q 037836 23 ELAKV-QVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 23 ~~Ael-q~LeqEI~fLEEEL~~LE~~~ 48 (163)
.|.|+ .+||++|.+|++.++.+.|..
T Consensus 12 tQ~E~N~QLekqi~~l~~kiek~r~n~ 38 (129)
T PF15372_consen 12 TQLELNDQLEKQIIILREKIEKIRGNP 38 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 34444 589999999999999998854
No 272
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=41.19 E-value=30 Score=29.93 Aligned_cols=21 Identities=24% Similarity=0.401 Sum_probs=13.4
Q ss_pred cccCchhhhhHHHHHhhhhcC
Q 037836 45 DRFHPASRSCKEVADFVVAKS 65 (163)
Q Consensus 45 E~~~paS~~CKEv~~~Ves~p 65 (163)
+.+..=-.--||++++.+..+
T Consensus 93 ~~l~~EN~~Lr~lL~~~~~~~ 113 (284)
T COG1792 93 ESLEEENKRLKELLDFKESSS 113 (284)
T ss_pred HHHHHHHHHHHHHhCCccccc
Confidence 333333345588999988884
No 273
>cd00089 HR1 Protein kinase C-related kinase homology region 1 domain; also known as the ACC (antiparallel coiled-coil) finger domain or Rho-binding domain. Found in vertebrate PRK1 and yeast PKC1 protein kinases C; those found in rhophilin bind RhoGTP; those in PRK1 bind RhoA and RhoB. Rho family members function as molecular switches, cycling between inactive and active forms, controlling a variety of cellular processes. HR1 repeats often occur in tandem repeat arrangments, seperated by a short linker region.
Probab=40.80 E-value=59 Score=22.20 Aligned_cols=27 Identities=7% Similarity=0.171 Sum_probs=20.6
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
-..+.++...++.|.+|..+|+.++++
T Consensus 45 ~~~~~~l~es~~ki~~Lr~~L~k~~~~ 71 (72)
T cd00089 45 AEAEQMLRESKQKLELLKMQLEKLKQE 71 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 355667788888888888888877653
No 274
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=40.66 E-value=41 Score=28.95 Aligned_cols=30 Identities=23% Similarity=0.170 Sum_probs=19.9
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
..++.|++.+++|+..|+++|+++.....+
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 45 (364)
T TIGR01242 16 RSLEKEKIRLERELERLRSEIERLRSPPLI 45 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCeE
Confidence 345666777777777777777776655443
No 275
>PRK11147 ABC transporter ATPase component; Reviewed
Probab=40.42 E-value=32 Score=32.10 Aligned_cols=24 Identities=17% Similarity=0.238 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccc
Q 037836 24 LAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
+.+++.||++|.-||+++++||..
T Consensus 567 ~~~~~~~e~~i~~le~~~~~~~~~ 590 (635)
T PRK11147 567 QRELEQLPQLLEDLEAEIEALQAQ 590 (635)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344888888888888888877754
No 276
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=40.41 E-value=34 Score=25.66 Aligned_cols=22 Identities=18% Similarity=0.333 Sum_probs=12.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~L 44 (163)
.+.++++|+++++-+++|++.|
T Consensus 92 ~~~~~~~l~~~~~~~~~~~k~l 113 (118)
T PF13815_consen 92 LQQEIEKLKQKLKKQKEEIKKL 113 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555666666666665554
No 277
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=40.40 E-value=31 Score=25.12 Aligned_cols=26 Identities=23% Similarity=0.383 Sum_probs=21.2
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
.+..|+.|-++++-|||-++.||.+=
T Consensus 40 d~~~L~~L~~~a~rm~eRI~tLE~IL 65 (75)
T PF06667_consen 40 DEQRLQELYEQAERMEERIETLERIL 65 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45668888899999999999998763
No 278
>PRK09039 hypothetical protein; Validated
Probab=40.38 E-value=31 Score=30.49 Aligned_cols=22 Identities=9% Similarity=0.016 Sum_probs=8.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~L 44 (163)
++++|..+|++..-.++.|++|
T Consensus 156 le~~L~~ae~~~~~~~~~i~~L 177 (343)
T PRK09039 156 LEAALDASEKRDRESQAKIADL 177 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444433333333333
No 279
>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.
Probab=40.23 E-value=34 Score=27.11 Aligned_cols=30 Identities=23% Similarity=0.315 Sum_probs=25.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
+++++..|++||+-|+|-+++-|---.+||
T Consensus 6 ~~~q~~~l~~~v~~lRed~r~SEdrsa~SR 35 (112)
T PF07439_consen 6 LHQQLGTLNAEVKELREDIRRSEDRSAASR 35 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 456788899999999999998888777777
No 280
>TIGR03707 PPK2_P_aer polyphosphate kinase 2, PA0141 family. Members of this protein family are designated polyphosphate kinase 2 (PPK2) after the characterized protein in Pseudomonas aeruginosa. This family comprises one of three well-separated clades in the larger family described by Pfam model pfam03976. PA0141 from this family has been shown capable of operating in reverse, with GDP preferred (over ADP) as a substrate, producing GTP (or ATP) by transfer of a phosphate residue from polyphosphate. Most species with a member of this family also encode a polyphosphate kinase 1 (PPK1).
Probab=40.21 E-value=59 Score=27.59 Aligned_cols=43 Identities=16% Similarity=0.248 Sum_probs=32.8
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhh--------hcccCchhh--hhHHHHHhhh
Q 037836 20 KRRELAKVQVLEREISFLEEELKT--------VDRFHPASR--SCKEVADFVV 62 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~--------LE~~~paS~--~CKEv~~~Ve 62 (163)
|....++++.|..++..||.+|.. +||++.|-+ +-+.|+..++
T Consensus 4 k~e~~~~l~~L~~~L~~lQ~~l~~~~~~vlIv~eG~DaAGKg~~I~~l~~~lD 56 (230)
T TIGR03707 4 RKEYEAELERLQIELVKLQAWVKETGARVVIVFEGRDAAGKGGTIKRITEHLN 56 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCCCchHHHHHHHHhcC
Confidence 456788999999999999999886 678887766 5555555443
No 281
>PF05679 CHGN: Chondroitin N-acetylgalactosaminyltransferase; InterPro: IPR008428 This family represents Chondroitin N-acetylgalactosaminyltransferase. Proteins have a type II transmembrane topology. The enzyme is involved in the biosynthetic initiation and elongation of chondroitin sulphate and is the key enzyme responsible for the selective chain assembly of chondroitin/dermatan sulphate on the linkage region tetrasaccharide common to various proteoglycans containing chondroitin/dermatan sulphate or heparin/heparan sulphate chains. ; GO: 0016758 transferase activity, transferring hexosyl groups, 0032580 Golgi cisterna membrane
Probab=40.09 E-value=36 Score=31.45 Aligned_cols=26 Identities=23% Similarity=0.281 Sum_probs=21.5
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
|-...+|++|.+||..|++|+.++-.
T Consensus 79 y~~~~~l~~l~~~i~~L~~ei~~~s~ 104 (499)
T PF05679_consen 79 YFLSLELQKLRQEIAQLQREIQNMSN 104 (499)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33567889999999999999998865
No 282
>PF07028 DUF1319: Protein of unknown function (DUF1319); InterPro: IPR010746 This entry is represented by Commelina yellow mottle virus, Orf1. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains a number of viral proteins of unknown function approximately 200 residues long. Family members seem to be restricted to badnaviruses.
Probab=40.05 E-value=37 Score=27.25 Aligned_cols=23 Identities=22% Similarity=0.501 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcc
Q 037836 24 LAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.++|+.|++++.-|++||+.|..
T Consensus 59 r~~l~~l~~~l~~l~~eL~~Lr~ 81 (126)
T PF07028_consen 59 RSELKELKQELDVLSKELQALRK 81 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688999999999999988864
No 283
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=40.03 E-value=25 Score=35.56 Aligned_cols=32 Identities=19% Similarity=0.268 Sum_probs=25.9
Q ss_pred hhhhHhHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 18 YGKRRELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 18 ~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
-|.=-..+|+++|+.|+..||.||+.+|+.-.
T Consensus 835 ~~~iD~~~e~~rLekel~kl~Kel~kl~~~L~ 866 (1052)
T PRK14900 835 AGVIDLAAETARVDKEIGKVDQDLAVLERKLQ 866 (1052)
T ss_pred CcccCHHHHHhhHHHHHHHHHHHHHHHHHHhc
Confidence 34334789999999999999999999887533
No 284
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=40.02 E-value=32 Score=29.19 Aligned_cols=19 Identities=11% Similarity=0.200 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 037836 24 LAKVQVLEREISFLEEELK 42 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~ 42 (163)
+-+|+.|++||.-|...+|
T Consensus 60 ~~ql~~lq~ev~~LrG~~E 78 (263)
T PRK10803 60 QQQLSDNQSDIDSLRGQIQ 78 (263)
T ss_pred HHHHHHHHHHHHHHhhHHH
Confidence 3344455555554444443
No 285
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=39.97 E-value=50 Score=22.50 Aligned_cols=24 Identities=25% Similarity=0.268 Sum_probs=18.1
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
..++.-.+.|.++|..+++||+.+
T Consensus 22 ~~i~~~~~~L~~~i~~~~~eLr~~ 45 (87)
T PF08700_consen 22 KEIRQLENKLRQEIEEKDEELRKL 45 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556677888888889888876
No 286
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=39.87 E-value=38 Score=25.17 Aligned_cols=20 Identities=0% Similarity=0.346 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHhhhccc
Q 037836 28 QVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 28 q~LeqEI~fLEEEL~~LE~~ 47 (163)
+.|++++..|++++++|+.+
T Consensus 82 ~~l~~~~~~l~~~i~~L~~~ 101 (127)
T cd04784 82 ALIDEHLAHVRARIAELQAL 101 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555554443
No 287
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=39.85 E-value=45 Score=24.89 Aligned_cols=31 Identities=26% Similarity=0.239 Sum_probs=24.8
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
..+++..++++|+++|..++.+++.+-+-+.
T Consensus 9 ~~~~L~~~~~~le~~i~~~~~~~k~~~~~~~ 39 (171)
T PF03357_consen 9 TIRRLEKQIKRLEKKIKKLEKKAKKAIKKGN 39 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHCHHHHHHHHCTT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 3578888999999999999999888776554
No 288
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=39.83 E-value=44 Score=32.96 Aligned_cols=44 Identities=16% Similarity=0.157 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccCchhh-----hhHHHHHhhhhcCCC
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFHPASR-----SCKEVADFVVAKSDP 67 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~paS~-----~CKEv~~~Ves~pDP 67 (163)
..|+..|++|+.-|++|+++|+.+-..-. .=+|+.+.-+.=.||
T Consensus 426 ~~e~~kl~~e~~~l~~ei~~l~~iL~~~~~l~~vi~~EL~eikkkfg~~ 474 (800)
T TIGR01063 426 GLEREKLQEEYKELLELIADLEDILASEERVLEIIREELEEIKEQFGDP 474 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHhCCC
Confidence 35678888999999999999888765554 456666666665665
No 289
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=39.72 E-value=36 Score=28.28 Aligned_cols=25 Identities=8% Similarity=0.105 Sum_probs=16.7
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+++-|.++|++|+.-|++++++||+
T Consensus 101 ~~~~e~~~l~~e~~~l~~~~e~Le~ 125 (161)
T TIGR02894 101 ALQKENERLKNQNESLQKRNEELEK 125 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666777777777777777764
No 290
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=39.65 E-value=36 Score=23.60 Aligned_cols=21 Identities=19% Similarity=0.563 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhc
Q 037836 25 AKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE 45 (163)
+.|..||-.|.|+|+-|++|.
T Consensus 4 ~Ri~~LE~~la~qe~~ie~Ln 24 (69)
T PF04102_consen 4 ERIEELEIKLAFQEDTIEELN 24 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 445555555556555555543
No 291
>PF05064 Nsp1_C: Nsp1-like C-terminal region; InterPro: IPR007758 The NSP1-like protein appears to be an essential component of the nuclear pore complex, for example preribosome nuclear export requires the Nup82p-Nup159p-Nsp1p complex. The C-terminal of Nsp1 is involved in binding Nup82 [], probably via coiled-coil formation [, ]. The family is related to the rotavirus nonstructural protein NSP1 which is the least conserved protein in the rotavirus genome. Its function in the replication process is not fully understood.; GO: 0017056 structural constituent of nuclear pore, 0005643 nuclear pore; PDB: 3T97_C.
Probab=39.62 E-value=31 Score=26.09 Aligned_cols=49 Identities=20% Similarity=0.239 Sum_probs=22.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccccC
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVNRK 74 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t~g 74 (163)
+..+|.+++++-.-|+.+|+.||+-+. -..++++.+|..-+.++....+
T Consensus 62 L~~~v~~~~~~Q~~ld~~L~~ie~qQ~---eLe~~L~~lE~~~~~l~~~~~~ 110 (116)
T PF05064_consen 62 LYSEVQKAESEQKRLDQELDFIEAQQK---ELEELLDPLEKQVEKLLSNQSS 110 (116)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH---CHHHHHCCCCCTT---------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhh
Confidence 344555555555555555555555442 2356777777777777755443
No 292
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=39.62 E-value=45 Score=32.58 Aligned_cols=49 Identities=20% Similarity=0.206 Sum_probs=40.7
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHh--hhcccCch---------hhhhHHHHHhhhhcCCCC
Q 037836 20 KRRELAKVQVLEREISFLEEELK--TVDRFHPA---------SRSCKEVADFVVAKSDPL 68 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~--~LE~~~pa---------S~~CKEv~~~Ves~pDPL 68 (163)
.||+..=.++|+-|..-+||.++ .|||+-.| .+.=++|++.+.+.-+|+
T Consensus 318 ~~r~~vl~rr~~~~l~k~~~r~h~~~legl~i~~~i~~~i~~~~~~~~v~~~i~~~~~~~ 377 (635)
T PRK09631 318 EHLQKVLKMELELERAKLLEKIFAKTLEQIFIEERIYKRIETISSEEDVISIVLSELKPF 377 (635)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHhhhHHhhhhHHHHHHhhcCHHHHHHHHHhccchh
Confidence 68888888999999999999998 79999876 445568888888888875
No 293
>PF13720 Acetyltransf_11: Udp N-acetylglucosamine O-acyltransferase; Domain 2; PDB: 3I3A_A 3I3X_A 3HSQ_B 2JF2_A 1LXA_A 2AQ9_A 2QIV_X 2QIA_A 2JF3_A 4EQY_F ....
Probab=39.36 E-value=26 Score=25.11 Aligned_cols=29 Identities=31% Similarity=0.504 Sum_probs=22.2
Q ss_pred HHHHHHhhhcccCchhhhhHHHHHhhhhc
Q 037836 36 FLEEELKTVDRFHPASRSCKEVADFVVAK 64 (163)
Q Consensus 36 fLEEEL~~LE~~~paS~~CKEv~~~Ves~ 64 (163)
-++|-|++|+...+-+..-+++++||++.
T Consensus 49 ~~~~a~~~l~~~~~~~~~v~~~~~Fi~~S 77 (83)
T PF13720_consen 49 TLEEALEELEEEYPDSPEVREIVDFIRNS 77 (83)
T ss_dssp -HHHHHHHHHHHTTSCHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHhccCCHHHHHHHHHHHhC
Confidence 56788888888656678889999999843
No 294
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=39.35 E-value=45 Score=25.75 Aligned_cols=22 Identities=23% Similarity=0.350 Sum_probs=11.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~L 44 (163)
+-.+|.+||++|+.|-+||.+|
T Consensus 6 lfd~l~~le~~l~~l~~el~~L 27 (110)
T PRK13169 6 IFDALDDLEQNLGVLLKELGAL 27 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555555555555444444
No 295
>TIGR03708 poly_P_AMP_trns polyphosphate:AMP phosphotransferase. Members of this protein family contain a domain duplication. The characterized member from Acinetobacter johnsonii is polyphosphate:AMP phosphotransferase (PAP), which can transfer the terminal phosphate from poly(P) to AMP, yielding ADP. In the opposite direction, this enzyme can synthesize poly(P). Each domain of this protein family is homologous to polyphosphate kinase, an enzyme that can run in the forward direction to extend a polyphosphate chain with a new terminal phosphate from ATP, or in reverse to make ATP (or GTP) from ADP (or GDP).
Probab=39.15 E-value=60 Score=30.71 Aligned_cols=56 Identities=14% Similarity=0.164 Sum_probs=44.3
Q ss_pred hhhhHhHHHHHHHHHHHHHHHHHHhh---------hcccCchhh--hhHHHHHhhhhcCCCCccccc
Q 037836 18 YGKRRELAKVQVLEREISFLEEELKT---------VDRFHPASR--SCKEVADFVVAKSDPLIPVNR 73 (163)
Q Consensus 18 ~GKhR~~Aelq~LeqEI~fLEEEL~~---------LE~~~paS~--~CKEv~~~Ves~pDPLLP~t~ 73 (163)
..|....++++.|..++.-||+.|.. +||++.|-+ .-+.|+..++.+-=-..+++.
T Consensus 10 ~~k~ey~~~l~~l~~~L~~LQ~~l~~~~~~~vlIv~eG~DaaGKg~~I~~l~~~ldprg~~v~~~~~ 76 (493)
T TIGR03708 10 LDKATYKKQVPDLREALLDLQYELLESAGFPVIILIEGWDGAGKGETINLLNEWMDPRGIETHAFGR 76 (493)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHccCCeEEEEEeCCCCCChHHHHHHHHHHhCcCccEEEeCCC
Confidence 45677899999999999999999988 899998876 778888877766554444443
No 296
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=38.96 E-value=45 Score=25.97 Aligned_cols=27 Identities=22% Similarity=0.219 Sum_probs=14.3
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~p 49 (163)
++.|++.+++.+..++.||+.+++...
T Consensus 93 l~~el~~l~~~~~~~~~~l~~~~~~~~ 119 (191)
T PF04156_consen 93 LQEELDQLQERIQELESELEKLKEDLQ 119 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555544433
No 297
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=38.81 E-value=35 Score=31.52 Aligned_cols=26 Identities=23% Similarity=0.350 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
.+.+.+++++.+|+.+|++||.+++.
T Consensus 182 ~~~~~~~~eld~L~~ql~ELe~~~l~ 207 (563)
T TIGR00634 182 QKEQELAQRLDFLQFQLEELEEADLQ 207 (563)
T ss_pred hhhHHHHHHHHHHHHHHHHHHhCCcC
Confidence 33466788888998888888888764
No 298
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=38.63 E-value=59 Score=24.74 Aligned_cols=20 Identities=35% Similarity=0.411 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHhhhc
Q 037836 26 KVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE 45 (163)
+|++|+.+|..+|++++.++
T Consensus 146 ki~~l~~~i~~~e~~~~~~~ 165 (218)
T cd07596 146 KVEELEEELEEAESALEEAR 165 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444433
No 299
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=38.63 E-value=52 Score=22.75 Aligned_cols=31 Identities=16% Similarity=0.257 Sum_probs=24.2
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
.++.+|.++|..+..+++.++.||....+..
T Consensus 3 ~i~e~l~~ie~~l~~~~~~i~~lE~~~~~~e 33 (71)
T PF10779_consen 3 DIKEKLNRIETKLDNHEERIDKLEKRDAANE 33 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677888888888888888888887766544
No 300
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=38.59 E-value=56 Score=24.06 Aligned_cols=16 Identities=19% Similarity=0.368 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 037836 25 AKVQVLEREISFLEEE 40 (163)
Q Consensus 25 Aelq~LeqEI~fLEEE 40 (163)
.+|++|++|++-|+.-
T Consensus 78 d~i~~Lr~el~~L~~~ 93 (101)
T PRK10265 78 DEIAHLKQENRLLRQR 93 (101)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444433
No 301
>cd04388 RhoGAP_p85 RhoGAP_p85: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in the p85 isoforms of the regulatory subunit of the class IA PI3K (phosphatidylinositol 3'-kinase). This domain is also called Bcr (breakpoint cluster region protein) homology (BH) domain. Class IA PI3Ks are heterodimers, containing a regulatory subunit (p85) and a catalytic subunit (p110) and are activated by growth factor receptor tyrosine kinases (RTKs); this activation is mediated by the p85 subunit. p85 isoforms, alpha and beta, contain a C-terminal p110-binding domain flanked by two SH2 domains, an N-terminal SH3 domain, and a RhoGAP domain flanked by two proline-rich regions. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell p
Probab=38.55 E-value=19 Score=29.86 Aligned_cols=55 Identities=11% Similarity=0.234 Sum_probs=32.0
Q ss_pred CchhhhHh--HHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccc
Q 037836 16 DLYGKRRE--LAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVN 72 (163)
Q Consensus 16 D~~GKhR~--~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t 72 (163)
|.-|-.|+ .+++++|.|++..-. +.-.++..+ +-.+.--|-.|...-||||||..
T Consensus 32 ~~eGIYRvsgs~~~~~lk~~~d~~~-~~~d~~~~d-v~~va~~LK~ylReLPePLip~~ 88 (200)
T cd04388 32 ESSTLYRTQSSSSLTELRQILDCDA-ASVDLEQFD-VAALADALKRYLLDLPNPVIPAP 88 (200)
T ss_pred CCCceeeCCCccHHHHHHHHHhcCC-CCCCccccc-HHHHHHHHHHHHHhCCCccCCHH
Confidence 55677777 566666655433210 112233322 33355667778889999999965
No 302
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=38.42 E-value=26 Score=27.22 Aligned_cols=18 Identities=33% Similarity=0.521 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHhhhcc
Q 037836 29 VLEREISFLEEELKTVDR 46 (163)
Q Consensus 29 ~LeqEI~fLEEEL~~LE~ 46 (163)
.+..||.-|||+|+++|.
T Consensus 7 ~I~~eI~kLqe~lk~~e~ 24 (98)
T PRK13848 7 KIREEIAKLQEQLKQAET 24 (98)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 456677777777777664
No 303
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=38.40 E-value=41 Score=24.11 Aligned_cols=22 Identities=32% Similarity=0.603 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHhhhccc
Q 037836 26 KVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~ 47 (163)
.++.|++++..|++++++|..+
T Consensus 74 ~~~~l~~~~~~l~~~i~~l~~~ 95 (96)
T cd04788 74 PLELLRRQLARLEEQLELATRL 95 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3566777777777777777654
No 304
>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif. This domain is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain a C-terminal TTKRSYEDQ motif domain (IPR019348 from INTERPRO). The function of these proteins is not known.
Probab=38.39 E-value=42 Score=25.98 Aligned_cols=14 Identities=36% Similarity=0.643 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHh
Q 037836 29 VLEREISFLEEELK 42 (163)
Q Consensus 29 ~LeqEI~fLEEEL~ 42 (163)
+|++.|..||+||+
T Consensus 58 QL~kRV~~LQ~El~ 71 (102)
T PF10205_consen 58 QLTKRVEVLQEELE 71 (102)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444555554
No 305
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=38.38 E-value=47 Score=24.54 Aligned_cols=34 Identities=21% Similarity=0.291 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHhhhcccCchhh------hhHHHHHhhhh
Q 037836 30 LEREISFLEEELKTVDRFHPASR------SCKEVADFVVA 63 (163)
Q Consensus 30 LeqEI~fLEEEL~~LE~~~paS~------~CKEv~~~Ves 63 (163)
++..++-||....++|.++.+.. -=.||..|+..
T Consensus 20 ~Q~rlK~Le~qk~E~EN~EIv~~VR~~~mtp~eL~~~L~~ 59 (83)
T PF14193_consen 20 LQARLKELEAQKTEAENLEIVQMVRSMKMTPEELAAFLRA 59 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 33334444444444455444332 23455555544
No 306
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=38.17 E-value=45 Score=26.80 Aligned_cols=22 Identities=32% Similarity=0.521 Sum_probs=13.1
Q ss_pred HhHHHHHHHHHHHHHHHHHHhh
Q 037836 22 RELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~ 43 (163)
.++++|++|++|+.-|++.++.
T Consensus 26 ~~~~~I~~L~~e~~~ld~~i~~ 47 (188)
T PF10018_consen 26 ENQARIQQLRAEIEELDEQIRD 47 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666666666666655544
No 307
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=38.15 E-value=46 Score=22.57 Aligned_cols=20 Identities=15% Similarity=0.268 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 037836 25 AKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~L 44 (163)
..|+..+.-|+.+|-|+..+
T Consensus 32 ~~l~ea~~~l~qMe~E~~~~ 51 (79)
T PF05008_consen 32 RDLDEAEELLKQMELEVRSL 51 (79)
T ss_dssp HHHHHHHHHHHHHHHHHCTS
T ss_pred HHHHHHHHHHHHHHHHHHhC
Confidence 33444444444444444443
No 308
>PRK00295 hypothetical protein; Provisional
Probab=38.06 E-value=38 Score=23.70 Aligned_cols=23 Identities=17% Similarity=0.403 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcc
Q 037836 24 LAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.+.|..||-.+.|+|+-+++|..
T Consensus 4 e~Ri~~LE~kla~qE~tie~Ln~ 26 (68)
T PRK00295 4 EERVTELESRQAFQDDTIQALND 26 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45577777777777766665544
No 309
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=38.02 E-value=34 Score=33.49 Aligned_cols=25 Identities=20% Similarity=0.392 Sum_probs=16.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.+..|+++|.+|++..||++..||.
T Consensus 549 ~lE~E~~~lr~elk~kee~~~~~e~ 573 (697)
T PF09726_consen 549 QLESELKKLRRELKQKEEQIRELES 573 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445677777777777777766665
No 310
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=37.99 E-value=49 Score=30.71 Aligned_cols=42 Identities=21% Similarity=0.305 Sum_probs=30.1
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVV 62 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ve 62 (163)
+...++++.|.||+.+.+.-|+-||.+..+...-+++...++
T Consensus 79 ~~a~~e~~~L~~eL~~~~~~l~~L~~L~~i~~~l~~~~~al~ 120 (593)
T PF06248_consen 79 RDAAEELQELKRELEENEQLLEVLEQLQEIDELLEEVEEALK 120 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344567888888888888888888888777776666654433
No 311
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=37.83 E-value=30 Score=24.71 Aligned_cols=21 Identities=33% Similarity=0.506 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHhhhcc
Q 037836 26 KVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~ 46 (163)
||+.|..+|.-|++...+||.
T Consensus 15 EVevLK~~I~eL~~~n~~Le~ 35 (59)
T PF01166_consen 15 EVEVLKEQIAELEERNSQLEE 35 (59)
T ss_dssp SHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 677888888888888777764
No 312
>PF03195 DUF260: Protein of unknown function DUF260; InterPro: IPR004883 The lateral organ boundaries (LOB) gene is expressed at the adaxial base of initiating lateral organs and encodes a plant-specific protein of unknown function. The N-terminal one half of the LOB protein contains a conserved approximately 100-amino acid domain (the LOB domain) that is present in 42 other Arabidopsis thaliana proteins and in proteins from a variety of other plant species. Genes encoding LOB domain (LBD) proteins are expressed in a variety of temporal- and tissue-specific patterns, suggesting that they may function in diverse processes [] The LOB domain contains conserved blocks of amino acids that identify the LBD gene family. In particular, a conserved C-x(2)-C-x(6)-C-x(3)-C motif, which is defining feature of the LOB domain, is present in all LBD proteins. It is possible that this motif forms a new zinc finger [].
Probab=37.72 E-value=35 Score=25.74 Aligned_cols=19 Identities=26% Similarity=0.454 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 037836 27 VQVLEREISFLEEELKTVD 45 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE 45 (163)
|..|++||..++.||..+-
T Consensus 80 i~~L~~ql~~~~~el~~~~ 98 (101)
T PF03195_consen 80 ISQLQQQLQQLQAELALVR 98 (101)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 7888999999999987653
No 313
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=37.72 E-value=33 Score=29.16 Aligned_cols=36 Identities=25% Similarity=0.234 Sum_probs=22.4
Q ss_pred CCCCCchhhhHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 12 PEYPDLYGKRRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 12 P~~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
+.-+||-...=---|+-+|++|+.-||++|..+|..
T Consensus 83 ~~gTdfS~~~~~dwEevrLkrELa~Le~~l~~~~~~ 118 (195)
T PF12761_consen 83 EKGTDFSATEGTDWEEVRLKRELAELEEKLSKVEQA 118 (195)
T ss_pred CCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555443333446777888888888777777643
No 314
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.58 E-value=36 Score=30.05 Aligned_cols=20 Identities=20% Similarity=0.348 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 037836 25 AKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~L 44 (163)
++++++++||.-||.||+.|
T Consensus 73 ~~i~~~~~eik~l~~eI~~~ 92 (265)
T COG3883 73 KEIDQSKAEIKKLQKEIAEL 92 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444433
No 315
>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.
Probab=37.48 E-value=55 Score=22.19 Aligned_cols=23 Identities=22% Similarity=0.270 Sum_probs=11.5
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhh
Q 037836 22 RELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~L 44 (163)
++...|+.++++|..++.|++..
T Consensus 56 ~l~~~i~~~~~~~~~~~~~~~~~ 78 (123)
T PF02050_consen 56 ALEQAIQQQQQELERLEQEVEQA 78 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555555443
No 316
>PRK13979 DNA topoisomerase IV subunit A; Provisional
Probab=37.29 E-value=49 Score=33.68 Aligned_cols=47 Identities=13% Similarity=0.212 Sum_probs=42.7
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCC
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSD 66 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pD 66 (163)
+||+..=.+|.+-++.-+++.|+-|||+-.|-..-.||++.+.+..|
T Consensus 367 ~~r~~~~~rr~~~~l~k~~~r~~i~eGl~~a~~~id~vi~~ir~s~~ 413 (957)
T PRK13979 367 EHQKEVVTRRTKKELEIAEKRFHIVEGFIKAIGIMDEIIKTIRSSKS 413 (957)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcCCC
Confidence 79999999999999999999999999999999999999988776654
No 317
>PF09812 MRP-L28: Mitochondrial ribosomal protein L28; InterPro: IPR019192 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 [, ]. Members of this family are components of the mitochondrial large ribosomal subunit. Mature mitochondrial ribosomes consist of a small (37S) and a large (54S) subunit. The 37S subunit contains at least 33 different proteins and 1 molecule of RNA (15S). The 54S subunit contains at least 45 different proteins and 1 molecule of RNA (21S) [, ].
Probab=37.15 E-value=94 Score=25.09 Aligned_cols=47 Identities=19% Similarity=0.292 Sum_probs=34.3
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVN 72 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t 72 (163)
++...++.++|++++...++-|++|..+.+ ||-.-.....+-|+|+.
T Consensus 84 ~~~~~~~~~~l~~~~~sq~~AleeLr~~S~------eLY~aA~~~d~~~fP~e 130 (157)
T PF09812_consen 84 QQQREAREQQLRRQYESQQKALEELRLESP------ELYQAAIQPDPGLFPLE 130 (157)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCH------HHHHHHhccCCCCCCee
Confidence 344567889999999999999999988763 55554444444578876
No 318
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=37.15 E-value=44 Score=24.85 Aligned_cols=21 Identities=14% Similarity=0.434 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHhhhccc
Q 037836 27 VQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~ 47 (163)
.+.|++++..|++++++|+.+
T Consensus 79 ~~~l~~~~~~l~~~i~~L~~~ 99 (126)
T cd04783 79 RELAEQKLAEVDEKIADLQRM 99 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344555566666666555544
No 319
>PF00816 Histone_HNS: H-NS histone family Partial NMR structure.; InterPro: IPR001801 The histone-like nucleoid-structuring (H-NS) protein belongs to a family of bacterial proteins that play a role in the formation of nucleoid structure and affect gene expression under certain conditions [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2LEV_A 1HNS_A 1LR1_B 1HNR_A 1NI8_A 1OV9_A 2JR1_A 3NR7_A 2L93_A 2L92_A.
Probab=37.04 E-value=54 Score=23.28 Aligned_cols=34 Identities=24% Similarity=0.187 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHhhhcccC--chhhhhHHHHHhhh
Q 037836 29 VLEREISFLEEELKTVDRFH--PASRSCKEVADFVV 62 (163)
Q Consensus 29 ~LeqEI~fLEEEL~~LE~~~--paS~~CKEv~~~Ve 62 (163)
.|+++|.-||+|+++++.-+ .|-...+++++.-+
T Consensus 2 eL~~~~~~l~~~~~~~~~~e~~~~~~~i~~~~~~~G 37 (93)
T PF00816_consen 2 ELEAQIKELEKEIEERRKQEREEAIAEIRELMAEYG 37 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTT
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 34445555555554443333 22223444444433
No 320
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=36.98 E-value=48 Score=32.55 Aligned_cols=43 Identities=12% Similarity=0.233 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchhh-----hhHHHHHhhhhcCCC
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPASR-----SCKEVADFVVAKSDP 67 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS~-----~CKEv~~~Ves~pDP 67 (163)
.|+..|++|+.-|++|+++|+.+=..-. .=+|+.+.-+.=.||
T Consensus 427 ~e~~kl~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~kfg~~ 474 (738)
T TIGR01061 427 TDIFELKEEQNELEKKIISLEQIIASEKARNKLLKKQLEEYKKQFAQQ 474 (738)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCCC
Confidence 5677888889999999888888532222 445555555554554
No 321
>PF05190 MutS_IV: MutS family domain IV C-terminus.; InterPro: IPR007861 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the clamp domain (domain 4) found in proteins of the MutS family. The clamp domain is inserted within the core domain at the top of the lever helices. It has a beta-sheet structure [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B 1WBD_A 1WB9_A 3K0S_A 1OH6_A ....
Probab=36.67 E-value=50 Score=22.11 Aligned_cols=19 Identities=32% Similarity=0.466 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 037836 26 KVQVLEREISFLEEELKTV 44 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~L 44 (163)
+|+.+.+++.-++++|+++
T Consensus 5 ~Ld~~~~~~~~~~~~l~~~ 23 (92)
T PF05190_consen 5 ELDELREEYEEIEEELEEL 23 (92)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4555555555555554443
No 322
>PF05064 Nsp1_C: Nsp1-like C-terminal region; InterPro: IPR007758 The NSP1-like protein appears to be an essential component of the nuclear pore complex, for example preribosome nuclear export requires the Nup82p-Nup159p-Nsp1p complex. The C-terminal of Nsp1 is involved in binding Nup82 [], probably via coiled-coil formation [, ]. The family is related to the rotavirus nonstructural protein NSP1 which is the least conserved protein in the rotavirus genome. Its function in the replication process is not fully understood.; GO: 0017056 structural constituent of nuclear pore, 0005643 nuclear pore; PDB: 3T97_C.
Probab=36.57 E-value=38 Score=25.59 Aligned_cols=22 Identities=23% Similarity=0.511 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 037836 24 LAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE 45 (163)
..+=++|++++.|++..-++||
T Consensus 70 ~~~Q~~ld~~L~~ie~qQ~eLe 91 (116)
T PF05064_consen 70 ESEQKRLDQELDFIEAQQKELE 91 (116)
T ss_dssp HHHHHHHHHHHHHHHHHHHCHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555555555444444
No 323
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=36.38 E-value=55 Score=25.81 Aligned_cols=26 Identities=23% Similarity=0.258 Sum_probs=17.5
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.+++.+++||+|+.-|+-|++.++.
T Consensus 23 ~~l~~~i~~~d~el~QLefq~kr~~~ 48 (131)
T PF11068_consen 23 QELQEQIQQLDQELQQLEFQGKRMIK 48 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566677777777777777766654
No 324
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=36.33 E-value=46 Score=25.21 Aligned_cols=21 Identities=5% Similarity=0.471 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHhhhccc
Q 037836 27 VQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~ 47 (163)
.+.|++++..|++++++|+.+
T Consensus 83 ~~~l~~~~~~l~~~i~~L~~~ 103 (131)
T TIGR02043 83 KAIVDAKLELVDEKINELTKI 103 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344566666666666665544
No 325
>PF03234 CDC37_N: Cdc37 N terminal kinase binding; InterPro: IPR013855 In Saccharomyces cerevisiae (Baker's yeast), cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90 [].
Probab=36.30 E-value=42 Score=27.74 Aligned_cols=27 Identities=19% Similarity=0.215 Sum_probs=19.6
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
-++++.+++|+.+.+.++.+|++||+-
T Consensus 134 ~~l~~H~~kl~~~~ke~~~kLeeLekE 160 (177)
T PF03234_consen 134 EELQEHRAKLEKEQKELKKKLEELEKE 160 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777777778888887753
No 326
>KOG3990 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.19 E-value=40 Score=30.53 Aligned_cols=33 Identities=33% Similarity=0.491 Sum_probs=24.0
Q ss_pred CCCCCCchhhhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 11 PPEYPDLYGKRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 11 PP~~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
|| +.|.-+-+. +++|+.|+.||.-|+.-|.+-+
T Consensus 213 ~P-~~D~~~~dh-~V~i~~lkeeia~Lkk~L~qkd 245 (305)
T KOG3990|consen 213 PP-FGDRDPGDH-MVKIQKLKEEIARLKKLLHQKD 245 (305)
T ss_pred CC-CCCCCCcch-HHHHHHHHHHHHHHHHHHhhhH
Confidence 44 557766665 4679999999999987776533
No 327
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=36.18 E-value=49 Score=24.65 Aligned_cols=30 Identities=17% Similarity=0.237 Sum_probs=24.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchh
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPAS 51 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS 51 (163)
+..+++.+||++|+-|=+|+--+|..++-+
T Consensus 83 ~l~~~is~le~~i~~L~qeiAl~e~~~~~~ 112 (115)
T PF10066_consen 83 SLYVRISRLEEKIKRLAQEIALLEAEEKKE 112 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence 567889999999999999998887766543
No 328
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=36.17 E-value=51 Score=26.12 Aligned_cols=31 Identities=19% Similarity=0.256 Sum_probs=24.0
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchh
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPAS 51 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS 51 (163)
.+...+.++|.+||.-|.+|++.+.-.|+-.
T Consensus 36 ~~~~~~~~~l~~Ei~~l~~E~~~iS~qDeFA 66 (161)
T PF04420_consen 36 SKSSKEQRQLRKEILQLKRELNAISAQDEFA 66 (161)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTTS-TTTSHH
T ss_pred ccccHHHHHHHHHHHHHHHHHHcCCcHHHHH
Confidence 6778889999999999999999887666543
No 329
>cd04383 RhoGAP_srGAP RhoGAP_srGAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in srGAPs. srGAPs are components of the intracellular part of Slit-Robo signalling pathway that is important for axon guidance and cell migration. srGAPs contain an N-terminal FCH domain, a central RhoGAP domain and a C-terminal SH3 domain; this SH3 domain interacts with the intracellular proline-rich-tail of the Roundabout receptor (Robo). This interaction with Robo then activates the rhoGAP domain which in turn inhibits Cdc42 activity. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific group
Probab=36.11 E-value=33 Score=27.39 Aligned_cols=21 Identities=14% Similarity=0.273 Sum_probs=13.6
Q ss_pred hhhHHHHHhhhhcCCCCcccc
Q 037836 52 RSCKEVADFVVAKSDPLIPVN 72 (163)
Q Consensus 52 ~~CKEv~~~Ves~pDPLLP~t 72 (163)
.+.-=+-.|...-||||+|..
T Consensus 74 ~va~lLK~fLReLPepLip~~ 94 (188)
T cd04383 74 SVAGVLKLYFRGLENPLFPKE 94 (188)
T ss_pred HHHHHHHHHHHhCCCccCCHH
Confidence 344555566677778888754
No 330
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=36.06 E-value=43 Score=31.64 Aligned_cols=26 Identities=12% Similarity=0.204 Sum_probs=22.9
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
-||+.+.|++..+||.-|++||++|-
T Consensus 17 ~~~l~~~l~~~~~~~~~~~~~~~~~~ 42 (512)
T TIGR03689 17 NAKLAELLKAARDKLSKLKSQLEQLA 42 (512)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 36888899999999999999999984
No 331
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=36.01 E-value=48 Score=25.19 Aligned_cols=23 Identities=22% Similarity=0.377 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhccc
Q 037836 25 AKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
..++.|+++|.++++||+.+...
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~ 28 (204)
T cd01878 6 TDRRLIRERIAKLRRELEKVKKQ 28 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566666666666666665543
No 332
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=36.00 E-value=59 Score=31.40 Aligned_cols=29 Identities=17% Similarity=0.172 Sum_probs=21.6
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
-..++|+||+.|++|+..||.+|..-+..
T Consensus 26 ~i~~L~~ql~aLq~~v~eL~~~laa~~~a 54 (514)
T PF11336_consen 26 QIKALQAQLQALQDQVNELRAKLAAKPAA 54 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 34678888888888888888887766653
No 333
>COG3771 Predicted membrane protein [Function unknown]
Probab=36.00 E-value=35 Score=26.42 Aligned_cols=29 Identities=28% Similarity=0.323 Sum_probs=22.3
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
|.+..+-+|||+|+.+|..++++-.+..+
T Consensus 66 k~~l~~~~l~rqiKr~~~q~~~~t~~~d~ 94 (97)
T COG3771 66 KVRLSLMRLERQIKRLENQLSDVTVVRDS 94 (97)
T ss_pred HHHHHHHHHHHHHHHHHhhcCcceeeccc
Confidence 55667889999999999888876555443
No 334
>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit
Probab=35.94 E-value=51 Score=25.50 Aligned_cols=6 Identities=50% Similarity=0.772 Sum_probs=2.2
Q ss_pred HHHHHH
Q 037836 30 LEREIS 35 (163)
Q Consensus 30 LeqEI~ 35 (163)
|+.||.
T Consensus 46 Lq~e~~ 51 (160)
T PF13094_consen 46 LQEEIE 51 (160)
T ss_pred HHHHHH
Confidence 333333
No 335
>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif. This domain is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain a C-terminal TTKRSYEDQ motif domain (IPR019348 from INTERPRO). The function of these proteins is not known.
Probab=35.82 E-value=36 Score=26.34 Aligned_cols=21 Identities=19% Similarity=0.268 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 037836 24 LAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~L 44 (163)
..+|+.-|++|+-+|+|+++|
T Consensus 32 ~e~Lk~ke~~LRk~eqE~dSL 52 (102)
T PF10205_consen 32 KEQLKEKEQALRKLEQENDSL 52 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344555666666666666655
No 336
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=35.82 E-value=48 Score=30.22 Aligned_cols=20 Identities=30% Similarity=0.371 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 037836 25 AKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~L 44 (163)
+++..|++++.-|++||+.|
T Consensus 145 ~~~~~~~~~~~~~~~~l~~l 164 (525)
T TIGR02231 145 TEDREAERRIRELEKQLSEL 164 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555555444
No 337
>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=35.80 E-value=41 Score=29.00 Aligned_cols=8 Identities=13% Similarity=0.148 Sum_probs=3.6
Q ss_pred hhhcCCCC
Q 037836 61 VVAKSDPL 68 (163)
Q Consensus 61 Ves~pDPL 68 (163)
|...+|++
T Consensus 123 i~r~~~~~ 130 (283)
T TIGR00219 123 IYLNYDNY 130 (283)
T ss_pred EEeCCCcc
Confidence 33445554
No 338
>TIGR01461 greB transcription elongation factor GreB. The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB.
Probab=35.73 E-value=34 Score=27.16 Aligned_cols=28 Identities=14% Similarity=0.074 Sum_probs=15.7
Q ss_pred CCCchhhhHhHHHHHHHHH-HHHHHHHHH
Q 037836 14 YPDLYGKRRELAKVQVLER-EISFLEEEL 41 (163)
Q Consensus 14 ~pD~~GKhR~~Aelq~Leq-EI~fLEEEL 41 (163)
|--.-|..|+++||++|.+ +.--+-++|
T Consensus 4 ~lT~~G~~~L~~El~~L~~~~r~~~~~~i 32 (156)
T TIGR01461 4 LITPEGYEKLKQELNYLWREERPEVTQKV 32 (156)
T ss_pred ccCHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence 3344577777777777753 343333333
No 339
>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5
Probab=35.71 E-value=73 Score=30.88 Aligned_cols=36 Identities=31% Similarity=0.469 Sum_probs=22.4
Q ss_pred CCCCCCCCCCchhhhHhHHHHHHHHHHHHHHHHHHhh
Q 037836 7 CPKSPPEYPDLYGKRRELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 7 ~PKsPP~~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~ 43 (163)
.++.||..|.-.= -++++++++|.+|+.-|+++|+.
T Consensus 70 ~~~~~pa~pse~E-~~Lq~E~~~L~kElE~L~~qlqa 105 (617)
T PF15070_consen 70 PPPEPPAGPSEVE-QQLQAEAEHLRKELESLEEQLQA 105 (617)
T ss_pred CCccccccchHHH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444454443322 56777888888888777777654
No 340
>PRK05560 DNA gyrase subunit A; Validated
Probab=35.61 E-value=62 Score=31.95 Aligned_cols=43 Identities=14% Similarity=0.108 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchh-----hhhHHHHHhhhhcCCC
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPAS-----RSCKEVADFVVAKSDP 67 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS-----~~CKEv~~~Ves~pDP 67 (163)
.++.+|++|+.-|++|+++|+.+-..- -.=+|+.+.-+.=.||
T Consensus 430 ~e~~kL~~E~~~l~~ei~~l~~iL~~~~~l~~~i~~EL~~ikkkfg~~ 477 (805)
T PRK05560 430 LERDKIEDEYKELLALIADLKDILASPERLLEIIKEELLEIKEKFGDP 477 (805)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCCC
Confidence 578889999999999999999883332 2456666666655555
No 341
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=35.57 E-value=63 Score=23.09 Aligned_cols=20 Identities=25% Similarity=0.318 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 037836 25 AKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~L 44 (163)
++|+++=..|..|+.|+++|
T Consensus 11 ~ki~~aveti~~Lq~e~eeL 30 (72)
T PF06005_consen 11 EKIQQAVETIALLQMENEEL 30 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333344444443333
No 342
>PF02181 FH2: Formin Homology 2 Domain; InterPro: IPR015425 Formin homology (FH) proteins play a crucial role in the reorganisation of the actin cytoskeleton, which mediates various functions of the cell cortex including motility, adhesion, and cytokinesis []. Formins are multidomain proteins that interact with diverse signalling molecules and cytoskeletal proteins, although some formins have been assigned functions within the nucleus. Formins are characterised by the presence of three FH domains (FH1, FH2 and FH3), although members of the formin family do not necessarily contain all three domains []. The proline-rich FH1 domain mediates interactions with a variety of proteins, including the actin-binding protein profilin, SH3 (Src homology 3) domain proteins, and WW domain proteins. The FH2 domain is required for the self-association of formin proteins through the ability of FH2 domains to directly bind each other [], and may also act to inhibit actin polymerisation []. The FH3 domain (IPR010472 from INTERPRO) is less well conserved and may be important for determining intracellular localisation of formin family proteins. In addition, some formins can contain a GTPase-binding domain (GBD) (IPR010473 from INTERPRO) required for binding to Rho small GTPases, and a C-terminal conserved Dia-autoregulatory domain (DAD). This entry represents the FH2 domain, which was shown by X-ray crystallography to have an elongated, crescent shape containing three helical subdomains [].; PDB: 1Y64_B 1UX4_A 1UX5_A 3O4X_H 3OBV_E 1V9D_D 2Z6E_B 2J1D_G.
Probab=35.55 E-value=86 Score=26.83 Aligned_cols=25 Identities=16% Similarity=0.403 Sum_probs=16.9
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
-+.+.|+.|++++..++.+|+..+.
T Consensus 278 ~l~~~i~~l~~~~~~~~~~l~~~~~ 302 (370)
T PF02181_consen 278 ELEQDIKELEKGLEKIKKELEAIEK 302 (370)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCCT
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccc
Confidence 3556677777777777777766665
No 343
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=35.40 E-value=35 Score=32.84 Aligned_cols=26 Identities=8% Similarity=0.263 Sum_probs=22.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
..++|+.|+.|++-||+|.++||..-
T Consensus 23 ~a~~i~~L~~ql~aLq~~v~eL~~~l 48 (514)
T PF11336_consen 23 TADQIKALQAQLQALQDQVNELRAKL 48 (514)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36789999999999999999998653
No 344
>PF10076 DUF2313: Uncharacterized protein conserved in bacteria (DUF2313); InterPro: IPR018755 Members of this family of proteins comprise various hypothetical and putative bacteriophage tail proteins, including Gp48 from Bacteriophage Mu and other Mu-like prophages such as FluMu.
Probab=35.31 E-value=1.2e+02 Score=23.71 Aligned_cols=51 Identities=14% Similarity=-0.026 Sum_probs=41.0
Q ss_pred CCCCCCchhhhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhh
Q 037836 11 PPEYPDLYGKRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVV 62 (163)
Q Consensus 11 PP~~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ve 62 (163)
||.+-+..++..+++-++.+..|+..+++-+++|..-.-.+++= +.++.-|
T Consensus 8 P~~~~~~~~~~~~~~l~~a~~~el~~~~~~~~~l~~e~f~~Tat-~~L~~wE 58 (179)
T PF10076_consen 8 PPGYAWSREPSEFQALLEAEGPELDRLDDRADDLLDEQFPSTAT-WGLPRWE 58 (179)
T ss_pred CCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHH-HHHHHHH
Confidence 78888888885588888999999999999999998877777766 6665444
No 345
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=35.29 E-value=48 Score=26.19 Aligned_cols=23 Identities=17% Similarity=0.280 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcc
Q 037836 24 LAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
..+|+.|+..|.-|+.+|+.|.+
T Consensus 108 ~~dv~~L~~rId~L~~~v~~l~~ 130 (132)
T PF05597_consen 108 RKDVEALSARIDQLTAQVERLAN 130 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 34677888888888888888765
No 346
>TIGR02743 TraW type-F conjugative transfer system protein TraW. This protein is an essential component of the F-type conjugative transfer sytem for plasmid DNA transfer and has been shown to be localized to the periplasm.
Probab=35.20 E-value=85 Score=26.41 Aligned_cols=20 Identities=15% Similarity=0.391 Sum_probs=12.4
Q ss_pred HHHhhhhcCCCC--cccccCCCc
Q 037836 57 VADFVVAKSDPL--IPVNRKNRR 77 (163)
Q Consensus 57 v~~~Ves~pDPL--LP~t~g~~~ 77 (163)
+.++| .+|.|+ ||.+++++.
T Consensus 64 ~~~~~-~rP~pv~gL~~a~~~~t 85 (202)
T TIGR02743 64 VLEHV-KRPPPVPGLGTTETPKT 85 (202)
T ss_pred HHHhc-cCCCCCCCCcccccCce
Confidence 45555 368887 666666553
No 347
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=35.09 E-value=36 Score=26.51 Aligned_cols=24 Identities=21% Similarity=0.346 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHhhhcccCch
Q 037836 27 VQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
-+.|...|.|||.|.+.+|.+...
T Consensus 27 RaEmkarIa~LEGE~r~~e~l~~d 50 (134)
T PF08232_consen 27 RAEMKARIAFLEGERRGQENLKKD 50 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555666777777666665543
No 348
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=35.08 E-value=11 Score=27.45 Aligned_cols=27 Identities=22% Similarity=0.212 Sum_probs=16.4
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
.++..+++.|+++|..|+++|.+++..
T Consensus 35 ~~l~~e~~~L~~~~~~l~~~l~~~~~~ 61 (131)
T PF05103_consen 35 ERLQRENAELKEEIEELQAQLEELREE 61 (131)
T ss_dssp HHHHHHHHHHHHHHHCCCCT-------
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhH
Confidence 467788888888888888888887654
No 349
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=35.00 E-value=55 Score=23.01 Aligned_cols=16 Identities=38% Similarity=0.499 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHhhh
Q 037836 29 VLEREISFLEEELKTV 44 (163)
Q Consensus 29 ~LeqEI~fLEEEL~~L 44 (163)
.|.+++..|++||+.|
T Consensus 69 ~l~~~~~~l~~~l~~l 84 (91)
T cd04766 69 ELEEELAELRAELDEL 84 (91)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3555666666666665
No 350
>PRK14872 rod shape-determining protein MreC; Provisional
Probab=34.98 E-value=52 Score=29.85 Aligned_cols=34 Identities=21% Similarity=0.151 Sum_probs=26.9
Q ss_pred CCchhhhHhHHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 15 PDLYGKRRELAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 15 pD~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
|....-.++.+|-++|.+|+..|++||.++|.+.
T Consensus 54 p~~~~y~~L~~EN~~Lk~Ena~L~~~l~~~e~l~ 87 (337)
T PRK14872 54 GPSSHALVLETENFLLKERIALLEERLKSYEEAN 87 (337)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445667888899999999999999888877554
No 351
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=34.97 E-value=53 Score=22.82 Aligned_cols=23 Identities=13% Similarity=0.250 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhc
Q 037836 23 ELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+-+.|..||+++.-.|.|++.-|
T Consensus 30 iEqRLa~LE~rL~~ae~ra~~ae 52 (60)
T PF11471_consen 30 IEQRLAALEQRLQAAEQRAQAAE 52 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666666666554
No 352
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=34.97 E-value=51 Score=24.34 Aligned_cols=25 Identities=16% Similarity=0.307 Sum_probs=13.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.++.+|+.|+++|..|++.+++++.
T Consensus 10 ~l~~~i~~l~~~~~~l~~~~~e~~~ 34 (129)
T cd00584 10 VLQQEIEELQQELARLNEAIAEYEQ 34 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666666666555555443
No 353
>PTZ00421 coronin; Provisional
Probab=34.91 E-value=58 Score=30.07 Aligned_cols=31 Identities=19% Similarity=0.190 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcC
Q 037836 26 KVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKS 65 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~p 65 (163)
+|+.-++||+-++|+|++-| .+|++.||.+.
T Consensus 461 ~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~ 491 (493)
T PTZ00421 461 KLRTQHEEIKRCREALQKKE---------SIVMETLEKIQ 491 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHhh
Confidence 45566778888888887766 34666665543
No 354
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=34.86 E-value=33 Score=32.66 Aligned_cols=17 Identities=12% Similarity=0.290 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHh
Q 037836 26 KVQVLEREISFLEEELK 42 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~ 42 (163)
+++.||++|..|+.|++
T Consensus 77 kasELEKqLaaLrqElq 93 (475)
T PRK13729 77 TAAQMQKQYEEIRRELD 93 (475)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45556666666665554
No 355
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=34.62 E-value=60 Score=23.31 Aligned_cols=20 Identities=30% Similarity=0.511 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q 037836 27 VQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~ 46 (163)
++.|-.|++.|.+||+.||.
T Consensus 69 ~~~l~~e~~~lk~~i~~le~ 88 (108)
T PF02403_consen 69 AEELKAEVKELKEEIKELEE 88 (108)
T ss_dssp THHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34455566666666666664
No 356
>cd04772 HTH_TioE_rpt1 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD contains the N-terminal or first repeat (rpt1) of these tandem MerR-like domain proteins.
Probab=34.57 E-value=50 Score=23.91 Aligned_cols=19 Identities=32% Similarity=0.258 Sum_probs=11.4
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 037836 23 ELAKVQVLEREISFLEEEL 41 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL 41 (163)
+.+.++.|+++|.-||+||
T Consensus 81 l~~~~~~l~~~i~~L~~~~ 99 (99)
T cd04772 81 VDAAHALLQRYRQQLDQEL 99 (99)
T ss_pred HHHHHHHHHHHHHHHHhcC
Confidence 3445566666666666664
No 357
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=34.52 E-value=48 Score=23.80 Aligned_cols=18 Identities=33% Similarity=0.619 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 037836 27 VQVLEREISFLEEELKTV 44 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~L 44 (163)
++.|++.|.+|++.++.|
T Consensus 79 ~~~l~~r~~~l~~~~~~l 96 (120)
T PF02996_consen 79 IEFLKKRIKELEEQLEKL 96 (120)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444444444333
No 358
>PRK10869 recombination and repair protein; Provisional
Probab=34.44 E-value=49 Score=30.97 Aligned_cols=24 Identities=25% Similarity=0.404 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHhhhcccCc
Q 037836 26 KVQVLEREISFLEEELKTVDRFHP 49 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~~p 49 (163)
+.+..++++.||+.+|++||.+++
T Consensus 179 ~~~~~~~~~d~l~fql~Ei~~~~l 202 (553)
T PRK10869 179 QSQERAARKQLLQYQLKELNEFAP 202 (553)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCCC
Confidence 345667788888888888887765
No 359
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 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 family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=34.26 E-value=67 Score=27.42 Aligned_cols=26 Identities=23% Similarity=0.365 Sum_probs=16.3
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
.|.|++.++++|..|+.-|.+|++++
T Consensus 75 er~~~~~~i~r~~eey~~Lk~~in~~ 100 (230)
T PF10146_consen 75 ERNKRQEKIQRLYEEYKPLKDEINEL 100 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666666666544
No 360
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=34.24 E-value=70 Score=23.79 Aligned_cols=25 Identities=12% Similarity=0.142 Sum_probs=18.3
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
-++.+++.|+++|..|++-.+.|++
T Consensus 81 ~l~~~~~~l~~~i~~L~~~~~~l~~ 105 (126)
T cd04783 81 LAEQKLAEVDEKIADLQRMRASLQE 105 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788888888888877777663
No 361
>cd04392 RhoGAP_ARHGAP19 RhoGAP_ARHGAP19: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP19-like proteins. The function of ArhGAP19 is unknown. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=34.19 E-value=76 Score=25.91 Aligned_cols=22 Identities=18% Similarity=0.323 Sum_probs=16.3
Q ss_pred hhhhhHHHHHhhhhcCCCCccc
Q 037836 50 ASRSCKEVADFVVAKSDPLIPV 71 (163)
Q Consensus 50 aS~~CKEv~~~Ves~pDPLLP~ 71 (163)
+-.++-=+-.|.-.-|+||||.
T Consensus 61 ~h~va~lLK~flReLPePLi~~ 82 (208)
T cd04392 61 AHDCATVLKGFLGELPEPLLTH 82 (208)
T ss_pred HHHHHHHHHHHHHhCCCccCCH
Confidence 3446666777888889999886
No 362
>PRK10884 SH3 domain-containing protein; Provisional
Probab=34.19 E-value=31 Score=28.84 Aligned_cols=20 Identities=30% Similarity=0.576 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHhhhc
Q 037836 26 KVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE 45 (163)
.|..||+|+.-|+++|++++
T Consensus 94 rlp~le~el~~l~~~l~~~~ 113 (206)
T PRK10884 94 RVPDLENQVKTLTDKLNNID 113 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555444443
No 363
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=34.11 E-value=46 Score=28.83 Aligned_cols=24 Identities=42% Similarity=0.506 Sum_probs=13.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.++++++.+|+..||+|.+.|..
T Consensus 81 ~l~~~~~~~~~~~~l~~EN~~Lr~ 104 (284)
T COG1792 81 ELAELEQLLEEVESLEEENKRLKE 104 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555666666666555443
No 364
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=34.08 E-value=41 Score=24.49 Aligned_cols=27 Identities=26% Similarity=0.192 Sum_probs=18.0
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
.+-+..+++.|++||.-|++-++.|+.
T Consensus 81 ~~~l~~~~~~l~~~i~~l~~~~~~l~~ 107 (113)
T cd01109 81 LELLEEHREELEEQIAELQETLAYLDY 107 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566677777777777777766653
No 365
>PF12017 Tnp_P_element: Transposase protein; InterPro: IPR021896 Protein in this family are transposases found in insects. This region is about 230 amino acids in length and is found associated with PF05485 from PFAM.
Probab=34.01 E-value=64 Score=27.63 Aligned_cols=23 Identities=30% Similarity=0.361 Sum_probs=10.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhc
Q 037836 23 ELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+..|..+|..+|+-||+++++|.
T Consensus 16 ~~~e~~~Lk~kir~le~~l~~Lk 38 (236)
T PF12017_consen 16 LKIENKKLKKKIRRLEKELKKLK 38 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444433
No 366
>cd04380 RhoGAP_OCRL1 RhoGAP_OCRL1: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in OCRL1-like proteins. OCRL1 (oculocerebrorenal syndrome of Lowe 1)-like proteins contain two conserved domains: a central inositol polyphosphate 5-phosphatase domain and a C-terminal Rho GAP domain, this GAP domain lacks the catalytic residue and therefore maybe inactive. OCRL-like proteins are type II inositol polyphosphate 5-phosphatases that can hydrolyze lipid PI(4,5)P2 and PI(3,4,5)P3 and soluble Ins(1,4,5)P3 and Ins(1,3,4,5)P4, but their individual specificities vary. The functionality of the RhoGAP domain is still unclear. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPas
Probab=33.97 E-value=42 Score=27.37 Aligned_cols=23 Identities=26% Similarity=0.465 Sum_probs=15.3
Q ss_pred chhhhhHHHHHhhhhcCCCCccc
Q 037836 49 PASRSCKEVADFVVAKSDPLIPV 71 (163)
Q Consensus 49 paS~~CKEv~~~Ves~pDPLLP~ 71 (163)
.+-.+.--+..|..+-||||||.
T Consensus 103 ~~~~va~~LK~fLr~LpePlip~ 125 (220)
T cd04380 103 SAESVAEALLLFLESLPDPIIPY 125 (220)
T ss_pred CHHHHHHHHHHHHHhCCCCccCH
Confidence 34446666667777777777774
No 367
>PF03310 Cauli_DNA-bind: Caulimovirus DNA-binding protein; InterPro: IPR004986 The gene III product (P15) of cauliflower mosaic virus (CaMV) is a DNA binding protein in which the DNA binding activity is located on its C-terminal part. A family of related proteins is expressed by other members of the Caulimoviridae.; GO: 0003677 DNA binding; PDB: 3F6N_A 3K4T_D.
Probab=33.97 E-value=67 Score=25.65 Aligned_cols=18 Identities=22% Similarity=0.231 Sum_probs=6.2
Q ss_pred HHHHHhhhhcCCCCcccc
Q 037836 55 KEVADFVVAKSDPLIPVN 72 (163)
Q Consensus 55 KEv~~~Ves~pDPLLP~t 72 (163)
||+++.+.+.+|.=+..+
T Consensus 61 Kelle~Lk~q~d~~iip~ 78 (121)
T PF03310_consen 61 KELLEALKKQPDKQIIPS 78 (121)
T ss_dssp HHHHHHHT----------
T ss_pred HHHHHHHhcCCCCCcCCC
Confidence 777777778778877533
No 368
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=33.95 E-value=73 Score=21.48 Aligned_cols=25 Identities=12% Similarity=0.341 Sum_probs=20.0
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+-+.+|+.|.+.+..+..-|+.||.
T Consensus 20 ~v~~~lq~Lt~kL~~vs~RLe~LEn 44 (47)
T PF10393_consen 20 KVTSALQSLTQKLDAVSKRLEALEN 44 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4567889999988888888888874
No 369
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=33.82 E-value=31 Score=35.11 Aligned_cols=32 Identities=28% Similarity=0.380 Sum_probs=26.3
Q ss_pred CchhhhHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 16 DLYGKRRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 16 D~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
++-|.=-+.+|+.+|+.|+..||.|++.+++.
T Consensus 805 ~l~~~id~~~e~~rl~k~~~k~~~e~~~~~~k 836 (877)
T COG0525 805 PLAGLIDLAAELARLEKELEKLEKEIDRIEKK 836 (877)
T ss_pred eccchhhHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence 34555667799999999999999999988854
No 370
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=33.80 E-value=46 Score=32.22 Aligned_cols=29 Identities=24% Similarity=0.313 Sum_probs=22.3
Q ss_pred chhhhHhHHHHHHHHHHHHHHH----HHHhhhc
Q 037836 17 LYGKRRELAKVQVLEREISFLE----EELKTVD 45 (163)
Q Consensus 17 ~~GKhR~~Aelq~LeqEI~fLE----EEL~~LE 45 (163)
+.+|.+.+.++|.|.+||.|++ +||+++-
T Consensus 196 tllr~d~~n~~q~Lleel~f~~~~h~~eI~e~~ 228 (546)
T KOG0977|consen 196 TLLRVDLQNRVQTLLEELAFLKRIHKQEIEEER 228 (546)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHH
Confidence 4577788888888888888887 6666654
No 371
>cd04404 RhoGAP-p50rhoGAP RhoGAP-p50rhoGAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of p50RhoGAP-like proteins; p50RhoGAP, also known as RhoGAP-1, contains a C-terminal RhoGAP domain and an N-terminal Sec14 domain which binds phosphatidylinositol 3,4,5-trisphosphate (PtdIns(3,4,5)P3). It is ubiquitously expressed and preferentially active on Cdc42. This subgroup also contains closely related ARHGAP8. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=33.67 E-value=35 Score=26.97 Aligned_cols=58 Identities=17% Similarity=0.195 Sum_probs=30.2
Q ss_pred CCchhhhHhHHHHHHHHHHHHHHHH-HHhhhcccCchhhhhHHHHHhhhhcCCCCcccc
Q 037836 15 PDLYGKRRELAKVQVLEREISFLEE-ELKTVDRFHPASRSCKEVADFVVAKSDPLIPVN 72 (163)
Q Consensus 15 pD~~GKhR~~Aelq~LeqEI~fLEE-EL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t 72 (163)
.+.-|--|+....+++++=++.+++ +-..+++...+-.+.--+..|...-||||+|..
T Consensus 39 ~~~eGIFR~~g~~~~i~~l~~~~~~~~~~~~~~~~d~~~va~~LK~~lr~Lp~pLi~~~ 97 (195)
T cd04404 39 LTTEGIFRRSANTQVVKEVQQKYNMGEPVDFDQYEDVHLPAVILKTFLRELPEPLLTFD 97 (195)
T ss_pred CCCCCeeeCCCcHHHHHHHHHHHhCCCCCCcccccCHHHHHHHHHHHHHhCCCccCCHH
Confidence 4555666665554444433233321 111223332344455556677778899999853
No 372
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=33.56 E-value=44 Score=24.68 Aligned_cols=19 Identities=21% Similarity=0.480 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 037836 27 VQVLEREISFLEEELKTVD 45 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE 45 (163)
|+.|.+|..-|++||+.||
T Consensus 2 i~ei~eEn~~Lk~eiqkle 20 (76)
T PF07334_consen 2 IHEIQEENARLKEEIQKLE 20 (76)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 5677888888888888555
No 373
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=33.53 E-value=46 Score=29.86 Aligned_cols=19 Identities=47% Similarity=0.427 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 037836 27 VQVLEREISFLEEELKTVD 45 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE 45 (163)
|++|+.|.+.|+|+++.|+
T Consensus 172 lk~le~E~s~LeE~~~~l~ 190 (290)
T COG4026 172 LKRLEVENSRLEEMLKKLP 190 (290)
T ss_pred HHHHHHHHHHHHHHHHhch
Confidence 3444444444444444443
No 374
>PRK11530 hypothetical protein; Provisional
Probab=33.50 E-value=42 Score=28.58 Aligned_cols=20 Identities=20% Similarity=0.458 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 037836 25 AKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~L 44 (163)
-|+.+|+||++-|-.||.+|
T Consensus 24 ~ev~ql~~~vs~LNqem~~L 43 (183)
T PRK11530 24 SEVRQMHNSVSTLNQEMTQL 43 (183)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 45666666666666666665
No 375
>TIGR01554 major_cap_HK97 phage major capsid protein, HK97 family. This family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease.
Probab=33.12 E-value=52 Score=28.51 Aligned_cols=8 Identities=38% Similarity=0.418 Sum_probs=5.1
Q ss_pred hHHHHHhC
Q 037836 80 RFWKWLCG 87 (163)
Q Consensus 80 ~~~rW~~~ 87 (163)
.|.+|+++
T Consensus 88 ~~~~~~~~ 95 (378)
T TIGR01554 88 AFIKGVRG 95 (378)
T ss_pred HHHHHhhc
Confidence 56677665
No 376
>PHA02562 46 endonuclease subunit; Provisional
Probab=33.10 E-value=40 Score=30.11 Aligned_cols=22 Identities=27% Similarity=0.240 Sum_probs=10.1
Q ss_pred HhHHHHHHHHHHHHHHHHHHhh
Q 037836 22 RELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~ 43 (163)
+++++|..|+++..-+++||++
T Consensus 362 ~l~~ei~~l~~~~~~~~~~l~~ 383 (562)
T PHA02562 362 KVKAAIEELQAEFVDNAEELAK 383 (562)
T ss_pred HHHHHHHHHHhhhhchHHHHHH
Confidence 4444555554444444444433
No 377
>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]
Probab=33.06 E-value=35 Score=32.59 Aligned_cols=27 Identities=26% Similarity=0.349 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchh
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPAS 51 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS 51 (163)
.++|+||++..|||.|..+||..--++
T Consensus 259 ~~lq~lEt~q~~leqeva~le~yyQ~y 285 (499)
T COG4372 259 RQLQRLETAQARLEQEVAQLEAYYQAY 285 (499)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 358889999999999999999764443
No 378
>PHA02047 phage lambda Rz1-like protein
Probab=33.03 E-value=1.1e+02 Score=23.98 Aligned_cols=43 Identities=19% Similarity=0.267 Sum_probs=33.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCC
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSD 66 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pD 66 (163)
++.+.|..+|..|.-+|+-.+.||.- +-+.=+||..-.+.++|
T Consensus 38 ~la~qLE~a~~r~~~~Q~~V~~l~~k--ae~~t~Ei~~aL~~n~~ 80 (101)
T PHA02047 38 RQTARLEALEVRYATLQRHVQAVEAR--TNTQRQEVDRALDQNRP 80 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHhCCC
Confidence 45678888999999999999999876 44445888888887654
No 379
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=33.02 E-value=80 Score=25.39 Aligned_cols=45 Identities=18% Similarity=0.202 Sum_probs=26.3
Q ss_pred HhHHHHHHHHHHHHHHHHHH-hhh---cccCchhh-hhHHHHHhhhhcCC
Q 037836 22 RELAKVQVLEREISFLEEEL-KTV---DRFHPASR-SCKEVADFVVAKSD 66 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL-~~L---E~~~paS~-~CKEv~~~Ves~pD 66 (163)
+.-.+|++||+|+.-++..+ ..| |+++++.. --||+.+.+|...|
T Consensus 151 ~~~~~I~~lE~e~D~i~~~~~~~Lf~~e~~d~i~~i~~kei~~~le~iaD 200 (216)
T TIGR00153 151 DIIKEIKDLEDEIDVMQIRIYKKLYNLEVSNPWEGKILCKFIEKLGNISD 200 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHH
Confidence 45566777777777655543 233 33455544 56677776666554
No 380
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=32.99 E-value=46 Score=27.22 Aligned_cols=11 Identities=18% Similarity=0.175 Sum_probs=5.2
Q ss_pred cCCCCcccccC
Q 037836 64 KSDPLIPVNRK 74 (163)
Q Consensus 64 ~pDPLLP~t~g 74 (163)
.+|.-.+...+
T Consensus 150 ~~~~~~~~~~~ 160 (175)
T PRK13182 150 TPDTEPTYERE 160 (175)
T ss_pred CCccccccccc
Confidence 55554444433
No 381
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=32.73 E-value=58 Score=26.45 Aligned_cols=19 Identities=26% Similarity=0.394 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 037836 26 KVQVLEREISFLEEELKTV 44 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~L 44 (163)
++++|.++++-||++|++|
T Consensus 48 Q~~~LR~~~~~L~~~l~~L 66 (225)
T PF04340_consen 48 QLERLRERNRQLEEQLEEL 66 (225)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3556666666666666665
No 382
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=32.72 E-value=64 Score=21.21 Aligned_cols=22 Identities=23% Similarity=0.246 Sum_probs=11.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~L 44 (163)
+.++-..|.+|-.-|..|+..|
T Consensus 17 Lk~~~~~L~~E~~~L~aev~~L 38 (45)
T PF02183_consen 17 LKAEYDSLKKENEKLRAEVQEL 38 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555554
No 383
>PRK10772 cell division protein FtsL; Provisional
Probab=32.69 E-value=67 Score=24.83 Aligned_cols=25 Identities=24% Similarity=0.155 Sum_probs=19.4
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 20 KRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
-|++-+|+++|++|...||.|-.+|
T Consensus 47 tR~l~~ele~l~~e~~~Le~Ew~~L 71 (108)
T PRK10772 47 TRLLTAEREQLVLERDALDIEWRNL 71 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788888888888888886655
No 384
>COG1938 Archaeal enzymes of ATP-grasp superfamily [General function prediction only]
Probab=32.60 E-value=83 Score=27.51 Aligned_cols=36 Identities=25% Similarity=0.349 Sum_probs=27.8
Q ss_pred CCCCCCCchhhhHhHHHHH----------HHHHHHHHHHHHHhhhc
Q 037836 10 SPPEYPDLYGKRRELAKVQ----------VLEREISFLEEELKTVD 45 (163)
Q Consensus 10 sPP~~pD~~GKhR~~Aelq----------~LeqEI~fLEEEL~~LE 45 (163)
+...+||.++-.|..-.|+ .|++|+.-++++|++|.
T Consensus 179 t~~~~PDP~AAa~vve~lnk~~~l~V~td~L~keAe~i~~~lekl~ 224 (244)
T COG1938 179 TFGDRPDPRAAARVVEALNKMLGLNVDTDKLEKEAEEIEEQLEKLA 224 (244)
T ss_pred ccCCCCChHHHHHHHHHHHHHhcCccCHHHHHHHHHHHHHHHHHHH
Confidence 5577899999988866554 57888888888887764
No 385
>PHA02666 hypothetical protein; Provisional
Probab=32.58 E-value=70 Score=28.59 Aligned_cols=27 Identities=26% Similarity=0.361 Sum_probs=19.8
Q ss_pred chhhhHhHHHHHH----HHHHHHHHHHHHhh
Q 037836 17 LYGKRRELAKVQV----LEREISFLEEELKT 43 (163)
Q Consensus 17 ~~GKhR~~Aelq~----LeqEI~fLEEEL~~ 43 (163)
-.|||-+|..|-. +|+|++-||.-||+
T Consensus 200 ~agkpNLQ~DIcTLC~DIEtQLSALEKSLES 230 (287)
T PHA02666 200 SAGKPNLQSDICTLCHDIETQLSALEKSLES 230 (287)
T ss_pred cCCCCchhhHHHHhhhhHHHHHHHHHHHHHH
Confidence 5789999988854 47777777765554
No 386
>PF12017 Tnp_P_element: Transposase protein; InterPro: IPR021896 Protein in this family are transposases found in insects. This region is about 230 amino acids in length and is found associated with PF05485 from PFAM.
Probab=32.54 E-value=45 Score=28.56 Aligned_cols=28 Identities=21% Similarity=0.421 Sum_probs=22.5
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
...++.+++++|+.++..|++.|+..+.
T Consensus 19 e~~~Lk~kir~le~~l~~Lk~~l~~~~~ 46 (236)
T PF12017_consen 19 ENKKLKKKIRRLEKELKKLKQKLEKYQK 46 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566778999999999999988876553
No 387
>PF07412 Geminin: Geminin; InterPro: IPR022786 This family contains the eukaryotic protein geminin (approximately 200 residues long). Geminin inhibits DNA replication by preventing the incorporation of MCM complex into prereplication complex, and is degraded during the mitotic phase of the cell cycle. It has been proposed that geminin inhibits DNA replication during S, G2, and M phases and that geminin destruction at the metaphase-anaphase transition permits replication in the succeeding cell cycle []. ; GO: 0008156 negative regulation of DNA replication; PDB: 1T6F_B 2LP0_B 1UII_B 2WVR_B 2ZXX_B.
Probab=32.53 E-value=76 Score=27.12 Aligned_cols=21 Identities=24% Similarity=0.381 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhc
Q 037836 25 AKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE 45 (163)
.|..+|+++|..|+|||..|.
T Consensus 125 ~ENe~Lh~~ie~~~eEi~~lk 145 (200)
T PF07412_consen 125 EENEKLHKEIEQKDEEIAKLK 145 (200)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 356789999999999998775
No 388
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=32.51 E-value=46 Score=23.84 Aligned_cols=27 Identities=26% Similarity=0.324 Sum_probs=20.0
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
..+...++.|++||.-|++.++.|+.+
T Consensus 76 ~~l~~~~~~l~~~i~~l~~~~~~l~~~ 102 (103)
T cd01106 76 EALREQKELLEEKKERLDKLIKTIDRT 102 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445667778888888888888877653
No 389
>cd00159 RhoGAP RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when bound to GDP. The Rho family of small G proteins, which includes Cdc42Hs, activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. G proteins generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude. The RhoGAPs are one of the major classes of regulators of Rho G proteins.
Probab=32.46 E-value=39 Score=24.75 Aligned_cols=53 Identities=15% Similarity=0.160 Sum_probs=32.9
Q ss_pred CchhhhHhHHHHHHHHHHHHHHHHHHhhhcc-----cCchhhhhHHHHHhhhhcCCCCcccc
Q 037836 16 DLYGKRRELAKVQVLEREISFLEEELKTVDR-----FHPASRSCKEVADFVVAKSDPLIPVN 72 (163)
Q Consensus 16 D~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~-----~~paS~~CKEv~~~Ves~pDPLLP~t 72 (163)
+.-|--|.....++ +..|.+.++.-+. ...+..++.-+..|+.+-||||||..
T Consensus 17 ~~~giFR~~g~~~~----~~~l~~~~~~~~~~~~~~~~~~~~va~~lK~~l~~Lp~pli~~~ 74 (169)
T cd00159 17 NTEGIFRVSGSASK----IEELKKKFDRGEDIDDLEDYDVHDVASLLKLYLRELPEPLIPFE 74 (169)
T ss_pred CcCCeeeCCCcHHH----HHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHcCCCccCCHH
Confidence 34444455444333 4445555554443 33456688888899999999999973
No 390
>PRK09458 pspB phage shock protein B; Provisional
Probab=32.41 E-value=50 Score=24.41 Aligned_cols=25 Identities=12% Similarity=0.312 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
.+..|+.|-+.++-|||-++.||.+
T Consensus 40 d~~~L~~L~~~A~rm~~RI~tLE~I 64 (75)
T PRK09458 40 EQQRLAQLTEKAERMRERIQALEAI 64 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445677778888888888888865
No 391
>PF00700 Flagellin_C: Bacterial flagellin C-terminal helical region; InterPro: IPR001029 Bacterial flagella are responsible for motility and chemotaxis []. They comprise a basal body, a hook and a filament, the latter accounting for 98% of the mass []. Flagellin is the subunit protein that polymerises to form the flagellae [], the subunits being transported through the centre of the filament to the tip, where they then polymerise []. Both the N- and C- termini of the subunit protein, which are alpha-helical in structure [], are required to mediate polymerisation. Although no export or assembly consensus sequences have been identified, Ala, Val, Leu, Ile, Gly, Ser, Thr, Asn, Gln and Asp tend to make up around 90% of the sequence, Cys and Trp being absent []. This entry represents the N and C termini that come together to form the D0 and D1 structural domains []. These domains are responsible for flagellin's ability to polymerise into a filament. ; GO: 0005198 structural molecule activity, 0001539 ciliary or flagellar motility, 0009288 bacterial-type flagellum; PDB: 1ORY_B 3V47_C 1IO1_A 1UCU_A 3A5X_A 3K8V_A 2ZBI_B 3K8W_A.
Probab=32.38 E-value=56 Score=22.30 Aligned_cols=32 Identities=16% Similarity=0.114 Sum_probs=27.3
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
.|+.....+++.....|++-+..+|+++.|..
T Consensus 23 ~~l~~~~~~~~~~~~~l~~~~s~i~d~D~a~~ 54 (86)
T PF00700_consen 23 NRLESAKDRLSNQSENLTASLSNIEDADMAEA 54 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHhccHHHH
Confidence 46777888999999999999999999998854
No 392
>TIGR03755 conj_TIGR03755 integrating conjugative element protein, PFL_4711 family. Members of this protein family are found in genomic regions associated with conjugative transfer and integrated TOL-like plasmids. The specific function is unknown.
Probab=32.32 E-value=48 Score=31.15 Aligned_cols=21 Identities=33% Similarity=0.398 Sum_probs=15.2
Q ss_pred hHHHHHHHHHHHHHHHHHHhh
Q 037836 23 ELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~ 43 (163)
...+|+.|+|||.-|+-|++-
T Consensus 355 ~~~~i~~LDrEI~~Lk~E~~l 375 (418)
T TIGR03755 355 VDKAIDKLDREINNLKTELEL 375 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 445677888888888877763
No 393
>KOG3366 consensus Mitochondrial F1F0-ATP synthase, subunit d/ATP7 [Energy production and conversion]
Probab=32.30 E-value=1.1e+02 Score=25.82 Aligned_cols=39 Identities=23% Similarity=0.246 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcC
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKS 65 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~p 65 (163)
.-.+...+||+-||+||+.++.+-|.+.- -+.+++++.|
T Consensus 105 e~~~~s~~~iq~l~k~le~v~~~~P~dem--T~ed~~ea~P 143 (172)
T KOG3366|consen 105 EYESLSKKRIQELEKELEKVKSARPFDEM--TMEDLNEAFP 143 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCcccc--cHHHHHHhCc
Confidence 33445678899999999999999998873 3456666666
No 394
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=32.08 E-value=56 Score=26.05 Aligned_cols=18 Identities=22% Similarity=0.425 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHhhhccc
Q 037836 30 LEREISFLEEELKTVDRF 47 (163)
Q Consensus 30 LeqEI~fLEEEL~~LE~~ 47 (163)
|++++..|++|+++|+.+
T Consensus 79 L~~~~~~l~~ei~~L~~~ 96 (172)
T cd04790 79 LRRRLAELNREIQRLRQQ 96 (172)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444444444444444433
No 395
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=32.00 E-value=85 Score=22.81 Aligned_cols=24 Identities=13% Similarity=0.277 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccC
Q 037836 25 AKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
+++++|+.+++-.+.=+++|+.++
T Consensus 20 ~~~~~l~~~~~E~~~v~~EL~~l~ 43 (105)
T cd00632 20 VQRQKVEAQLNENKKALEELEKLA 43 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCC
Confidence 334444444433333334444443
No 396
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=31.95 E-value=44 Score=22.56 Aligned_cols=25 Identities=24% Similarity=0.538 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
..+++.+..+|..+++.|++|..++
T Consensus 6 ~~~v~~i~~~i~~i~~~~~~l~~l~ 30 (103)
T PF00804_consen 6 FDEVQEIREDIDKIKEKLNELRKLH 30 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555555555444
No 397
>PF14817 HAUS5: HAUS augmin-like complex subunit 5
Probab=31.88 E-value=55 Score=31.97 Aligned_cols=26 Identities=27% Similarity=0.405 Sum_probs=15.1
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
|..+++||.+|..||..|+.+|+.+|
T Consensus 81 r~~L~~everLraei~~l~~~I~~~e 106 (632)
T PF14817_consen 81 RRELEKEVERLRAEIQELDKEIESRE 106 (632)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455566666666666666655554
No 398
>PRK04406 hypothetical protein; Provisional
Probab=31.85 E-value=55 Score=23.48 Aligned_cols=20 Identities=10% Similarity=0.418 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHhhhc
Q 037836 26 KVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE 45 (163)
+|++|+++++.|-+.|++++
T Consensus 40 ~I~~L~~ql~~L~~rl~~~~ 59 (75)
T PRK04406 40 LITKMQDQMKYVVGKVKNMD 59 (75)
T ss_pred HHHHHHHHHHHHHHHHHhhc
Confidence 44444555555544444443
No 399
>PF09969 DUF2203: Uncharacterized conserved protein (DUF2203); InterPro: IPR018699 This family has no known function.
Probab=31.85 E-value=1.2e+02 Score=23.33 Aligned_cols=26 Identities=31% Similarity=0.482 Sum_probs=16.5
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+++..+++.+.++|..|+++|++++.
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~l~~~~~ 41 (120)
T PF09969_consen 16 RPILEEIRELKAELEELEERLQELED 41 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 34556666677777777766666544
No 400
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=31.83 E-value=1.4e+02 Score=19.19 Aligned_cols=39 Identities=10% Similarity=0.129 Sum_probs=21.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchh-hhhHHHHHhh
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPAS-RSCKEVADFV 61 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS-~~CKEv~~~V 61 (163)
++++|...+.+|..|.+.-+.|.+.++.. ...++-++.+
T Consensus 46 ~~~ei~~~~~~l~~l~~~~~~L~~~~~~~~~~i~~~~~~l 85 (105)
T PF00435_consen 46 LQEEIESRQERLESLNEQAQQLIDSGPEDSDEIQEKLEEL 85 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTHTTHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence 45566666666666666666665554332 2344443333
No 401
>PRK02793 phi X174 lysis protein; Provisional
Probab=31.82 E-value=55 Score=23.12 Aligned_cols=24 Identities=21% Similarity=0.321 Sum_probs=16.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.+.|..||-.+.|+|+-+++|..
T Consensus 6 ~e~Ri~~LE~~lafQe~tIe~Ln~ 29 (72)
T PRK02793 6 LEARLAELESRLAFQEITIEELNV 29 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445677777777777777766654
No 402
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=31.81 E-value=61 Score=24.25 Aligned_cols=22 Identities=9% Similarity=0.280 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHhhhcccC
Q 037836 27 VQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~~ 48 (163)
++.|++++..|++++++|+.+.
T Consensus 78 ~~~l~~~~~~l~~~i~~L~~~~ 99 (124)
T TIGR02051 78 YELASRKLKSVQAKMADLLRIE 99 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666777777766665554
No 403
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=31.80 E-value=1.2e+02 Score=24.88 Aligned_cols=29 Identities=21% Similarity=0.327 Sum_probs=18.2
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCch
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPA 50 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~pa 50 (163)
+++++++.++.+|.-|+++|+.+..-.+.
T Consensus 73 ~l~~~~~~~~~~i~~l~~~i~~~~~~r~~ 101 (188)
T PF03962_consen 73 KLQKEIEELEKKIEELEEKIEEAKKGREE 101 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 45666777777777777777665443333
No 404
>PF09311 Rab5-bind: Rabaptin-like protein; InterPro: IPR015390 This domain is predominantly found in Rabaptin and allows for binding to the GTPase Rab5. This interaction is necessary and sufficient for Rab5-dependent recruitment of Rabaptin5 to early endosomal membranes []. ; PDB: 3NF1_A 3CEQ_B 3EDT_H 1X79_C 1TU3_F.
Probab=31.79 E-value=16 Score=29.40 Aligned_cols=17 Identities=35% Similarity=0.534 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhhhccc
Q 037836 31 EREISFLEEELKTVDRF 47 (163)
Q Consensus 31 eqEI~fLEEEL~~LE~~ 47 (163)
++++.-|+||.+.|+-|
T Consensus 56 e~~~~~Lpee~~~Lqfl 72 (181)
T PF09311_consen 56 EQEVAQLPEEVKHLQFL 72 (181)
T ss_dssp -----------------
T ss_pred hhhhhcCcchHHHHHHH
Confidence 44555555555555433
No 405
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=31.65 E-value=84 Score=23.03 Aligned_cols=26 Identities=15% Similarity=0.266 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 27 VQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
++.|+++-.-|+.-|++|+.++.--+
T Consensus 51 ~~~l~~k~~~l~~~l~~Id~Ie~~V~ 76 (99)
T PF10046_consen 51 LEDLNQKYEELQPYLQQIDQIEEQVT 76 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555555444433
No 406
>PRK04325 hypothetical protein; Provisional
Probab=31.65 E-value=56 Score=23.23 Aligned_cols=24 Identities=17% Similarity=0.336 Sum_probs=17.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.+.|..||-.+.|+|+-+++|..
T Consensus 7 ~e~Ri~~LE~klAfQE~tIe~LN~ 30 (74)
T PRK04325 7 MEDRITELEIQLAFQEDLIDGLNA 30 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677788888887777766654
No 407
>PF09518 RE_HindIII: HindIII restriction endonuclease; InterPro: IPR019043 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry includes the HindIII restriction endonuclease which recognises and cleaves A^AGCTT. ; PDB: 3A4K_A 2E52_B.
Probab=31.60 E-value=70 Score=29.17 Aligned_cols=18 Identities=28% Similarity=0.615 Sum_probs=9.0
Q ss_pred HHHHHHHHHhhhcccCch
Q 037836 33 EISFLEEELKTVDRFHPA 50 (163)
Q Consensus 33 EI~fLEEEL~~LE~~~pa 50 (163)
||.+|+.|++.+.+|-+.
T Consensus 263 ei~~~~~Ei~rI~~~tre 280 (311)
T PF09518_consen 263 EIEYLASEIERIKRMTRE 280 (311)
T ss_dssp HHHHHHHHHHHHHTS-HH
T ss_pred HHHHHHHHHHHHHccCHH
Confidence 445555555555555443
No 408
>PF14265 DUF4355: Domain of unknown function (DUF4355)
Probab=31.59 E-value=63 Score=23.85 Aligned_cols=35 Identities=26% Similarity=0.306 Sum_probs=28.1
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHH
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASRSCKE 56 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKE 56 (163)
+.+.+++.+++|+.-|+.||...|-...|.....|
T Consensus 46 k~~~e~~~~~~el~~~~~e~~~~e~~~~~~~~l~e 80 (125)
T PF14265_consen 46 KAQEELEELEKELEELEAELARRELRSEAKKVLAE 80 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678899999999999999988877777776654
No 409
>PF10392 COG5: Golgi transport complex subunit 5; InterPro: IPR019465 The conserved oligomeric Golgi (COG) complex is a peripheral membrane complex involved in intra-Golgi protein trafficking. Subunit 5 is located in the smaller, B lobe, together with subunits 6-8, and has been shown to bind subunits 1 and 7 [].
Probab=31.51 E-value=96 Score=23.56 Aligned_cols=42 Identities=17% Similarity=0.265 Sum_probs=25.8
Q ss_pred hhHhHHHHHHHHHHHH----HHHHHHhhhcccCchhhhhHHHHHhh
Q 037836 20 KRRELAKVQVLEREIS----FLEEELKTVDRFHPASRSCKEVADFV 61 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~----fLEEEL~~LE~~~paS~~CKEv~~~V 61 (163)
-+++++.+++|..||. .++.-...|++++.++..-+-+.-|+
T Consensus 81 v~~L~~s~~RL~~eV~~Py~~~~~~~~~L~rl~~t~~LLR~~~r~l 126 (132)
T PF10392_consen 81 VESLQSSYERLRSEVIEPYEKIQKLTSQLERLHQTSDLLRSVSRFL 126 (132)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666666664 34444456777777777777776665
No 410
>PRK00736 hypothetical protein; Provisional
Probab=31.49 E-value=56 Score=22.85 Aligned_cols=22 Identities=14% Similarity=0.267 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhcc
Q 037836 25 AKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.|..||-.|.|+|+-+++|..
T Consensus 5 ~Ri~~LE~klafqe~tie~Ln~ 26 (68)
T PRK00736 5 ERLTELEIRVAEQEKTIEELSD 26 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4466677777777766665543
No 411
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=31.49 E-value=67 Score=22.11 Aligned_cols=22 Identities=27% Similarity=0.371 Sum_probs=17.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~L 44 (163)
..++|..|+.|...|.+||+-+
T Consensus 27 a~~rl~~l~~EN~~Lr~eL~~~ 48 (52)
T PF12808_consen 27 ARKRLSKLEGENRLLRAELERL 48 (52)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3467889999999999998754
No 412
>PF11083 Streptin-Immun: Lantibiotic streptin immunity protein; InterPro: IPR021112 Streptococcal species produce a lantibiotic, streptin, in a similar manner to the production of nisin and subtilin by other lactic acid bacteria, in order to compete against competing bacteria within the environment []. The immunity protein protects the bacterium from destruction by its own lantibiotic. In general, there is little homology between the immunity proteins of different genera of bacteria.
Probab=31.40 E-value=51 Score=25.59 Aligned_cols=18 Identities=28% Similarity=0.438 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 037836 26 KVQVLEREISFLEEELKT 43 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~ 43 (163)
.+.++|.||..||+||..
T Consensus 53 tle~ve~Ei~~lQ~qL~~ 70 (99)
T PF11083_consen 53 TLEQVEKEIRELQNQLGL 70 (99)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 467889999999988753
No 413
>PF11414 Suppressor_APC: Adenomatous polyposis coli tumour suppressor protein; PDB: 1M5I_A.
Probab=31.38 E-value=56 Score=24.16 Aligned_cols=44 Identities=18% Similarity=0.175 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccc
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVN 72 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t 72 (163)
-.++.||||=.+|-.+|+-+|+. -.=-.+=+..|..+-| .||-+
T Consensus 7 k~mkeLEqEkd~LLqgLe~~Er~---r~Wy~~qL~~vq~rq~-~Lg~~ 50 (84)
T PF11414_consen 7 KRMKELEQEKDVLLQGLEMEERE---RDWYQQQLQSVQERQR-HLGRN 50 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHT-T----
T ss_pred HHHHHHHHHHHHHHhHHHHHHHH---HHHHHHHHHHHHHHHH-HhCcc
Confidence 34788999999998887777653 3334445555665555 44433
No 414
>PRK09343 prefoldin subunit beta; Provisional
Probab=31.33 E-value=1e+02 Score=23.40 Aligned_cols=30 Identities=10% Similarity=0.266 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccCchhhh
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFHPASRS 53 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~paS~~ 53 (163)
..+.+.|+++++.++-=+++|+++++-+.+
T Consensus 27 ~~q~~~le~q~~e~~~~~~EL~~L~~d~~V 56 (121)
T PRK09343 27 LQQKSQIDLELREINKALEELEKLPDDTPI 56 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCcchh
Confidence 344555555555555555566666554443
No 415
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=31.32 E-value=81 Score=23.99 Aligned_cols=30 Identities=13% Similarity=0.273 Sum_probs=23.3
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 19 GKRRELAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
-|++++.+++++++++...+.+|+.|++..
T Consensus 111 ~R~~~~~~~~~~~~~l~~k~~~~~kl~~~~ 140 (218)
T cd07596 111 DRADALLTLQSLKKDLASKKAQLEKLKAAP 140 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 467788888888888888888887776543
No 416
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=31.30 E-value=83 Score=21.36 Aligned_cols=23 Identities=35% Similarity=0.421 Sum_probs=16.6
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHh
Q 037836 20 KRRELAKVQVLEREISFLEEELK 42 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~ 42 (163)
+-|++.+++.|+++|..++.-|.
T Consensus 6 ~~rL~Kel~kl~~~i~~~~~kL~ 28 (66)
T PF10458_consen 6 IERLEKELEKLEKEIERLEKKLS 28 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc
Confidence 35777778888888877776654
No 417
>PF09429 Wbp11: WW domain binding protein 11; InterPro: IPR019007 Synonym(s): Rsp5 or WWP domain The WW domain is a short conserved region in a number of unrelated proteins, which folds as a stable, triple stranded beta-sheet. This short domain of approximately 40 amino acids, may be repeated up to four times in some proteins [, , , ]. The name WW or WWP derives from the presence of two signature tryptophan residues that are spaced 20-23 amino acids apart and are present in most WW domains known to date, as well as that of a conserved Pro. The WW domain binds to proteins with particular proline-motifs, [AP]-P-P-[AP]-Y, and/or phosphoserine- phosphothreonine-containing motifs [, ]. It is frequently associated with other domains typical for proteins in signal transduction processes. A large variety of proteins containing the WW domain are known. These include; dystrophin, a multidomain cytoskeletal protein; utrophin, a dystrophin-like protein of unknown function; vertebrate YAP protein, substrate of an unknown serine kinase; Mus musculus (Mouse) NEDD-4, involved in the embryonic development and differentiation of the central nervous system; Saccharomyces cerevisiae (Baker's yeast) RSP5, similar to NEDD-4 in its molecular organisation; Rattus norvegicus (Rat) FE65, a transcription-factor activator expressed preferentially in liver; Nicotiana tabacum (Common tobacco) DB10 protein, amongst others. This entry represents WW domain-binding protein 11, which may play a role in the regulation of pre-mRNA processing. ; GO: 0006396 RNA processing
Probab=31.27 E-value=49 Score=23.72 Aligned_cols=28 Identities=21% Similarity=0.228 Sum_probs=13.4
Q ss_pred HHHHHHHHHhhhccc---CchhhhhHHHHHh
Q 037836 33 EISFLEEELKTVDRF---HPASRSCKEVADF 60 (163)
Q Consensus 33 EI~fLEEEL~~LE~~---~paS~~CKEv~~~ 60 (163)
....|++||+.|+.+ +..+..=++.+.-
T Consensus 38 dp~~l~~ei~~L~~~e~~~~l~~~~k~~l~~ 68 (78)
T PF09429_consen 38 DPDRLQEEIDKLEEMEFNGKLSKVEKEKLKK 68 (78)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence 344555555555554 3334444444433
No 418
>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=31.27 E-value=67 Score=23.18 Aligned_cols=19 Identities=21% Similarity=0.104 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 037836 26 KVQVLEREISFLEEELKTV 44 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~L 44 (163)
+++.|++++.-|++||..|
T Consensus 73 ~~~~l~~~~~~~~~~~~~~ 91 (98)
T cd01279 73 QVLLLQCRSCEHATELIGC 91 (98)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3444455555555555444
No 419
>PF14978 MRP-63: Mitochondrial ribosome protein 63
Probab=31.11 E-value=32 Score=25.74 Aligned_cols=19 Identities=32% Similarity=0.326 Sum_probs=11.6
Q ss_pred chhhhHh---------HHHHHHHHHHHH
Q 037836 17 LYGKRRE---------LAKVQVLEREIS 35 (163)
Q Consensus 17 ~~GKhR~---------~Aelq~LeqEI~ 35 (163)
++||||+ +.-+++||+|..
T Consensus 5 w~GKhR~~r~vt~~~k~~~~~~le~E~e 32 (91)
T PF14978_consen 5 WIGKHRRPRKVTWQMKENMIRRLEIEEE 32 (91)
T ss_pred ccCcCCCcCCCCHHHHHHHHHHHHHHHH
Confidence 5677775 445566666554
No 420
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=31.03 E-value=66 Score=26.25 Aligned_cols=28 Identities=25% Similarity=0.377 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHhhhcccCchhhhhHHHH
Q 037836 29 VLEREISFLEEELKTVDRFHPASRSCKEVA 58 (163)
Q Consensus 29 ~LeqEI~fLEEEL~~LE~~~paS~~CKEv~ 58 (163)
.||.|-..|+.||+.|- +..|+...|++
T Consensus 78 eLE~~k~~L~qqv~~L~--~e~s~~~~E~d 105 (135)
T KOG4196|consen 78 ELEKEKAELQQQVEKLK--EENSRLRRELD 105 (135)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHHH
Confidence 34555555555555442 34455555543
No 421
>PRK02119 hypothetical protein; Provisional
Probab=30.93 E-value=58 Score=23.12 Aligned_cols=25 Identities=24% Similarity=0.340 Sum_probs=16.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
+.+.|..||-.+.|+|+-|++|..+
T Consensus 7 ~e~Ri~~LE~rla~QE~tie~LN~~ 31 (73)
T PRK02119 7 LENRIAELEMKIAFQENLLEELNQA 31 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456777777777777777666543
No 422
>PF14077 WD40_alt: Alternative WD40 repeat motif
Probab=30.85 E-value=28 Score=24.02 Aligned_cols=26 Identities=35% Similarity=0.609 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHhhhcccCchhhhhHHHHHh
Q 037836 29 VLEREISFLEEELKTVDRFHPASRSCKEVADF 60 (163)
Q Consensus 29 ~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~ 60 (163)
+|.-.+..||||++.|-++. |++.+|
T Consensus 15 ~l~vrv~eLEeEV~~LrKIN------rdLfdF 40 (48)
T PF14077_consen 15 QLRVRVSELEEEVRTLRKIN------RDLFDF 40 (48)
T ss_pred hheeeHHHHHHHHHHHHHHh------HHHHhh
Confidence 33444566777777776665 555555
No 423
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=30.85 E-value=54 Score=28.16 Aligned_cols=24 Identities=17% Similarity=0.223 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+-+|+.+++++|..|+.|++.|..
T Consensus 98 LE~elr~~~~~~~~L~~Ev~~L~~ 121 (248)
T PF08172_consen 98 LEEELRKQQQTISSLRREVESLRA 121 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
No 424
>COG1329 Transcriptional regulators, similar to M. xanthus CarD [Transcription]
Probab=30.81 E-value=56 Score=27.30 Aligned_cols=27 Identities=19% Similarity=0.363 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCchh
Q 037836 25 AKVQVLEREISFLEEELKTVDRFHPAS 51 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~paS 51 (163)
.|-++|++-+.||+.||.-+|++++.-
T Consensus 125 ~Er~ll~~A~~~l~~Ela~~e~i~~~e 151 (166)
T COG1329 125 SERRLLEKALQILAGELALAEGISEEE 151 (166)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCHHH
Confidence 456789999999999999999998743
No 425
>PF09388 SpoOE-like: Spo0E like sporulation regulatory protein; InterPro: IPR018540 Spore formation is an extreme response to starvation and can also be a component of disease transmission. Sporulation is controlled by an expanded two-component system where starvation signals result in sensor kinase activation and phosphorylation of the master sporulation response regulator Spo0A. Phosphatases such as Spo0E dephosphorylate Spo0A thereby inhibiting sporulation. This is a family of Spo0E-like phosphatases. The structure of a Bacillus anthracis member of this family has revealed an anti-parallel alpha-helical structure []. ; PDB: 2BZB_B 2C0S_A.
Probab=30.81 E-value=56 Score=20.80 Aligned_cols=16 Identities=38% Similarity=0.414 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHhhh
Q 037836 29 VLEREISFLEEELKTV 44 (163)
Q Consensus 29 ~LeqEI~fLEEEL~~L 44 (163)
+|.++|..+.++|.++
T Consensus 1 ~L~~~Ie~~R~~L~~~ 16 (45)
T PF09388_consen 1 ELLEEIEELRQELNEL 16 (45)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHH
Confidence 4788888888888776
No 426
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109.
Probab=30.81 E-value=72 Score=25.61 Aligned_cols=19 Identities=21% Similarity=0.478 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHhhhcc
Q 037836 28 QVLEREISFLEEELKTVDR 46 (163)
Q Consensus 28 q~LeqEI~fLEEEL~~LE~ 46 (163)
+.|.+++..+++||+.||.
T Consensus 60 ~~l~~~l~~~~~el~~le~ 78 (180)
T PF04678_consen 60 RQLRKRLEELRQELAPLEK 78 (180)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344455555555555543
No 427
>PRK10884 SH3 domain-containing protein; Provisional
Probab=30.70 E-value=62 Score=27.07 Aligned_cols=22 Identities=27% Similarity=0.185 Sum_probs=11.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~L 44 (163)
++-+++.++++|.-|++|.++|
T Consensus 123 l~~~~~~~~~~~~~L~~~n~~L 144 (206)
T PRK10884 123 MQQKVAQSDSVINGLKEENQKL 144 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555555544
No 428
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=30.69 E-value=79 Score=24.13 Aligned_cols=10 Identities=40% Similarity=0.557 Sum_probs=4.7
Q ss_pred HHHHHHHHhh
Q 037836 34 ISFLEEELKT 43 (163)
Q Consensus 34 I~fLEEEL~~ 43 (163)
+.-|.+.|++
T Consensus 74 L~~Lk~kl~~ 83 (100)
T PF04568_consen 74 LKKLKEKLKE 83 (100)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 4444444444
No 429
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=30.65 E-value=80 Score=28.55 Aligned_cols=38 Identities=16% Similarity=0.177 Sum_probs=24.7
Q ss_pred CCCCCCCCchhhhHhHHHH--------HHHHHHHHHHHHHHhhhcccC
Q 037836 9 KSPPEYPDLYGKRRELAKV--------QVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 9 KsPP~~pD~~GKhR~~Ael--------q~LeqEI~fLEEEL~~LE~~~ 48 (163)
.++..-+++.+|-|+|.++ |++|+ .-|+.||+.||+..
T Consensus 219 ~~~~~~~~~~~rkr~qnk~AAtRYRqKkRae~--E~l~ge~~~Le~rN 264 (294)
T KOG4571|consen 219 HPYKTPEKKLRRKRQQNKAAATRYRQKKRAEK--EALLGELEGLEKRN 264 (294)
T ss_pred CCCCCchHHHHHHHHHhHHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence 3445566788888888877 34444 35677777776654
No 430
>COG3027 zapA Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]
Probab=30.57 E-value=1e+02 Score=23.50 Aligned_cols=23 Identities=17% Similarity=0.410 Sum_probs=14.8
Q ss_pred hHHHHHHHHHHHH----HHHHHHhhhc
Q 037836 23 ELAKVQVLEREIS----FLEEELKTVD 45 (163)
Q Consensus 23 ~~Aelq~LeqEI~----fLEEEL~~LE 45 (163)
.+.||+.|++++. +|++++..++
T Consensus 59 v~~eL~~l~~k~~~~~~~~~q~i~~~~ 85 (105)
T COG3027 59 VMHELLKLKEKLRDIEASLEQRIRKLD 85 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567888888888 4444444444
No 431
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=30.55 E-value=80 Score=22.75 Aligned_cols=20 Identities=20% Similarity=0.355 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q 037836 27 VQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~ 46 (163)
.+.|++++.-|++++++|+.
T Consensus 83 ~~~l~~~~~~l~~~i~~l~~ 102 (107)
T cd04777 83 KSFLKNKKDELEKEIEDLKK 102 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666554
No 432
>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]
Probab=30.51 E-value=49 Score=28.59 Aligned_cols=20 Identities=50% Similarity=0.645 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 037836 24 LAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~ 43 (163)
-|+|..|++.|..||+||+.
T Consensus 3 e~~va~lnrri~~leeele~ 22 (205)
T KOG1003|consen 3 EADVAALNRRIQLLEEELDR 22 (205)
T ss_pred hhhHHHHHHHHHHHHHHHHH
Confidence 36788899999999998865
No 433
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=30.48 E-value=96 Score=21.00 Aligned_cols=25 Identities=24% Similarity=0.324 Sum_probs=17.2
Q ss_pred hhhhHhHHHHHHHHHHHHHHHHHHh
Q 037836 18 YGKRRELAKVQVLEREISFLEEELK 42 (163)
Q Consensus 18 ~GKhR~~Aelq~LeqEI~fLEEEL~ 42 (163)
-.|..++.+|....+++.-|+.||+
T Consensus 54 s~r~~~~~kl~~yr~~l~~lk~~l~ 78 (79)
T PF05008_consen 54 SERNQYKSKLRSYRSELKKLKKELK 78 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4566677777777777777777665
No 434
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=30.48 E-value=86 Score=29.83 Aligned_cols=50 Identities=20% Similarity=0.234 Sum_probs=34.0
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCccc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPV 71 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~ 71 (163)
|-++..|-+.|++|+...+.||++|.+--.+++ .-+..-|.+++.|.+|.
T Consensus 351 KaaLrkerd~L~keLeekkreleql~~q~~v~~--saLdtCikaKsq~~~p~ 400 (442)
T PF06637_consen 351 KAALRKERDSLAKELEEKKRELEQLKMQLAVKT--SALDTCIKAKSQPMTPG 400 (442)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hHHHHHHHhccCCCCCC
Confidence 334455556677777777777777766555544 45677788999999876
No 435
>PF07996 T4SS: Type IV secretion system proteins; InterPro: IPR014158 This entry contains VirB5, a protein that is involved in the type IV DNA secretion systems typified by the Agrobacterium Ti plasmid vir system where it interacts with several other proteins essential for proper pilus formation []. VirB5 is homologous to the IncN (N-type) conjugation system protein TraC [] as well as the P-type protein TrbJ and the F-type protein TraE [].; PDB: 1R8I_A.
Probab=30.43 E-value=77 Score=24.75 Aligned_cols=30 Identities=3% Similarity=0.087 Sum_probs=19.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
...+|++|.++|..++..++.++|.-..+.
T Consensus 24 ~~~q~~q~~~Ql~~~k~q~~s~tG~r~~~~ 53 (195)
T PF07996_consen 24 WKQQLEQLKQQLQQAKQQYNSLTGNRGLGN 53 (195)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTT--GGG
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCcHHH
Confidence 345667777777777777777777655443
No 436
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=30.31 E-value=76 Score=22.73 Aligned_cols=10 Identities=50% Similarity=0.743 Sum_probs=4.6
Q ss_pred HHHHHHHHHh
Q 037836 33 EISFLEEELK 42 (163)
Q Consensus 33 EI~fLEEEL~ 42 (163)
||.-||++++
T Consensus 60 ~i~~Le~~i~ 69 (83)
T PF07544_consen 60 EIEELEEQIR 69 (83)
T ss_pred HHHHHHHHHH
Confidence 4444444443
No 437
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=30.26 E-value=25 Score=24.45 Aligned_cols=14 Identities=43% Similarity=0.563 Sum_probs=11.1
Q ss_pred CCchhhhHhHHHHH
Q 037836 15 PDLYGKRRELAKVQ 28 (163)
Q Consensus 15 pD~~GKhR~~Aelq 28 (163)
-|.+||||++.+-.
T Consensus 38 ~D~y~~yR~~~kk~ 51 (56)
T PRK13130 38 EDKYGKYRRALKKR 51 (56)
T ss_pred CCccHHHHHHHHHH
Confidence 48999999977643
No 438
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=30.23 E-value=68 Score=25.51 Aligned_cols=32 Identities=19% Similarity=0.135 Sum_probs=21.0
Q ss_pred CCCCchhhhHhHHHHHHHHH-HHHHHHHHHhhh
Q 037836 13 EYPDLYGKRRELAKVQVLER-EISFLEEELKTV 44 (163)
Q Consensus 13 ~~pD~~GKhR~~Aelq~Leq-EI~fLEEEL~~L 44 (163)
.|--.-|.+|+++||++|.+ +.--+-++|+..
T Consensus 5 ~~lT~~g~~~L~~EL~~L~~~~r~e~~~~i~~A 37 (157)
T PRK01885 5 NYITREGYARLKQELDYLWREERPEVTQKVSWA 37 (157)
T ss_pred cccCHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 34455688999999999865 545555555444
No 439
>cd04400 RhoGAP_fBEM3 RhoGAP_fBEM3: RhoGAP (GTPase-activator [GAP] protein for Rho-like small GTPases) domain of fungal BEM3-like proteins. Bem3 is a GAP protein of Cdc42, and is specifically involved in the control of the initial assembly of the septin ring in yeast bud formation. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=30.14 E-value=82 Score=24.92 Aligned_cols=23 Identities=0% Similarity=-0.067 Sum_probs=17.4
Q ss_pred hhhhhHHHHHhhhhcCCCCcccc
Q 037836 50 ASRSCKEVADFVVAKSDPLIPVN 72 (163)
Q Consensus 50 aS~~CKEv~~~Ves~pDPLLP~t 72 (163)
+-.+.--+-.|+..-|+||||..
T Consensus 78 ~h~va~lLK~flreLP~PLi~~~ 100 (190)
T cd04400 78 VHTVAGLLKLYLRELPTLILGGE 100 (190)
T ss_pred HHHHHHHHHHHHHhCCcccCCHH
Confidence 44566667778888999999963
No 440
>COG1043 LpxA Acyl-[acyl carrier protein]
Probab=30.10 E-value=39 Score=30.05 Aligned_cols=47 Identities=21% Similarity=0.198 Sum_probs=31.9
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCC
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPL 68 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPL 68 (163)
.+..+.++|=+.-.-|+|-|++++..-..+..-|++++|+.+..+..
T Consensus 212 alr~ayk~lfr~~~~~~e~~~~i~~~~~~~~~v~~~~dFi~~s~r~~ 258 (260)
T COG1043 212 ALRKAYKLLFRSGLTLREALEEIAEEYADNPEVKEFIDFIASSSRGI 258 (260)
T ss_pred HHHHHHHHHeeCCCCHHHHHHHHHHHhcCChHHHHHHHHHhhccccc
Confidence 33444555555555677788876665556667799999999887764
No 441
>PF14182 YgaB: YgaB-like protein
Probab=30.09 E-value=51 Score=24.70 Aligned_cols=25 Identities=32% Similarity=0.527 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 24 LAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
.|++..+..||+-.+.||+.+..+=
T Consensus 39 ea~l~~i~~EI~~mkk~Lk~Iq~~F 63 (79)
T PF14182_consen 39 EAELHSIQEEISQMKKELKEIQRVF 63 (79)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667777778888888888776543
No 442
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=30.06 E-value=64 Score=24.28 Aligned_cols=18 Identities=17% Similarity=0.340 Sum_probs=7.3
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 037836 23 ELAKVQVLEREISFLEEE 40 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEE 40 (163)
++.+++.|+++|..|+..
T Consensus 18 l~~~~~~l~~~~~~l~~~ 35 (140)
T PRK03947 18 LQAQIEALQQQLEELQAS 35 (140)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444444444333
No 443
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=29.93 E-value=64 Score=26.66 Aligned_cols=31 Identities=26% Similarity=0.180 Sum_probs=22.6
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
.++.+|.+++.||..|+.+++.|+..=.-|+
T Consensus 166 ~ie~~L~~v~~eIe~~~~~~~~l~~~v~~st 196 (262)
T PF14257_consen 166 EIERELSRVRSEIEQLEGQLKYLDDRVDYST 196 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhceEE
Confidence 5667788888888888888888876544444
No 444
>TIGR01554 major_cap_HK97 phage major capsid protein, HK97 family. This family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease.
Probab=29.64 E-value=1.2e+02 Score=26.37 Aligned_cols=21 Identities=29% Similarity=0.588 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhc
Q 037836 25 AKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE 45 (163)
.++.+++++...+++|++.+|
T Consensus 41 ~~~~~~~~~~~~~~~~~~~~~ 61 (378)
T TIGR01554 41 TDVEKLKEEIKLLEDAIADLE 61 (378)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444433
No 445
>PF10376 Mei5: Double-strand recombination repair protein ; InterPro: IPR018468 Mei5 is one of a pair of meiosis-specific proteins which facilitate the loading of Dmc1 on to Rad51 on DNA at double-strand breaks during recombination. Recombination is carried out by a large protein complex based around the two RecA homologues, Rad51 and Dmc1 []. This complex may play both a catalytic and a structural role in the interaction between homologous chromosomes during meiosis. Mei5 is seen to contain a coiled-coli region.
Probab=29.63 E-value=75 Score=27.03 Aligned_cols=27 Identities=22% Similarity=0.306 Sum_probs=21.5
Q ss_pred hhhhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 18 YGKRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 18 ~GKhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
..+.-+.+|-.+|++||.-.+|||..|
T Consensus 131 ~~~~el~~ek~kL~~q~~e~~e~lr~L 157 (221)
T PF10376_consen 131 LKQQELEEEKRKLEKQVDEKEEELRRL 157 (221)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456667778889999999999988644
No 446
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=29.63 E-value=80 Score=24.29 Aligned_cols=21 Identities=5% Similarity=0.324 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHhhhccc
Q 037836 27 VQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~ 47 (163)
.+.|++++..|++++++|+.+
T Consensus 83 ~~~l~~~~~~l~~~i~~L~~~ 103 (140)
T PRK09514 83 KGIVDEKLAEVEAKIAELQHM 103 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666665544
No 447
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=29.61 E-value=56 Score=25.37 Aligned_cols=25 Identities=28% Similarity=0.312 Sum_probs=15.3
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
+..++++|+++|..||+.+++|+.+
T Consensus 79 ~~~~~~~l~~~i~~Le~~l~~L~~~ 103 (134)
T cd04779 79 VAQEVQLVCDQIDGLEHRLKQLKPI 103 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666666666665443
No 448
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=29.55 E-value=68 Score=28.85 Aligned_cols=24 Identities=33% Similarity=0.403 Sum_probs=12.0
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhc
Q 037836 22 RELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+++.+.++|.+++.-|+++|++|+
T Consensus 379 ~l~~~~~~l~~~~~~l~~~~~~l~ 402 (451)
T PF03961_consen 379 KLKEKKKELKEELKELKEELKELK 402 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444555555555555555443
No 449
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ]. The HhH motif is similar to, but distinct from, the HtH motif. Both of these motifs have two helices connected by a short turn. In the HtH motif the second helix binds to DNA with the helix in the major groove. This allows the contact between specific base and residues throughout the protein. In the HhH motif the second helix does not protrude from the surface of the protein and therefore cannot lie in the major groove of the DNA. Crystallographic studies suggest that the interaction of the HhH domain with DNA is mediated by amino acids located in the strongly conserved loop (L-P-G-V) and at the N-terminal end of the second helix []. This interaction could involve the formation of hydrogen bonds between protein backbone nitrogens and DNA phosphate groups []. The structural difference between the HtH and HhH domains is reflected at the functional level: whereas the HtH domain, found primarily in gene regulatory proteins, binds DNA in a sequence specific manner, the HhH domain is rather found in proteins involved in enzymatic activities and binds DNA with no sequence specificity []. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain [].; GO: 0003677 DNA binding; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A 1Z00_A 2A1J_B 1KEA_A 1VRL_A 1RRQ_A 3G0Q_A ....
Probab=29.51 E-value=28 Score=21.04 Aligned_cols=23 Identities=26% Similarity=0.261 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHhhhcccCchhh
Q 037836 30 LEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 30 LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
++..+.--.|||.+|.|+++..+
T Consensus 2 ~~g~~pas~eeL~~lpGIG~~tA 24 (30)
T PF00633_consen 2 LDGLIPASIEELMKLPGIGPKTA 24 (30)
T ss_dssp HHHHHTSSHHHHHTSTT-SHHHH
T ss_pred CCCcCCCCHHHHHhCCCcCHHHH
Confidence 34445555789999999998765
No 450
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=29.51 E-value=83 Score=25.85 Aligned_cols=34 Identities=24% Similarity=0.242 Sum_probs=23.5
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhh
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRFHPASRS 53 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~ 53 (163)
+-.++||+..|+.+|.+||-||.+........+.
T Consensus 152 ~~~l~ae~~~l~~~~~~le~el~s~~~rq~L~~~ 185 (240)
T PF12795_consen 152 RWLLQAELAALEAQIEMLEQELLSNNNRQELLQL 185 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCcHHHHHHHHH
Confidence 3456777888888888888887776666555443
No 451
>PF00730 HhH-GPD: HhH-GPD superfamily base excision DNA repair protein This entry corresponds to Endonuclease III This entry corresponds to Alkylbase DNA glycosidase; InterPro: IPR003265 Endonuclease III (4.2.99.18 from EC) is a DNA repair enzyme which removes a number of damaged pyrimidines from DNA via its glycosylase activity and also cleaves the phosphodiester backbone at apurinic / apyrimidinic sites via a beta-elimination mechanism [, ]. The structurally related DNA glycosylase MutY recognises and excises the mutational intermediate 8-oxoguanine-adenine mispair []. The 3-D structures of Escherichia coli endonuclease III [] and catalytic domain of MutY [] have been determined. The structures contain two all-alpha domains: a sequence-continuous, six-helix domain (residues 22-132) and a Greek-key, four-helix domain formed by one N-terminal and three C-terminal helices (residues 1-21 and 133-211) together with the [Fe4S4] cluster. The cluster is bound entirely within the C-terminal loop by four cysteine residues with a ligation pattern Cys-(Xaa)6-Cys-(Xaa)2-Cys-(Xaa)5-Cys which is distinct from all other known Fe4S4 proteins. This structural motif is referred to as a [Fe4S4] cluster loop (FCL) []. Two DNA-binding motifs have been proposed, one at either end of the interdomain groove: the helix-hairpin-helix (HhH) and FCL motifs (see IPR003651 from INTERPRO). The primary role of the iron-sulphur cluster appears to involve positioning conserved basic residues for interaction with the DNA phosphate backbone by forming the loop of the FCL motif [, ]. The HhH-GPD domain gets its name from its hallmark helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate. This domain is found in a diverse range of structurally related DNA repair proteins that include: endonuclease III, 4.2.99.18 from EC and DNA glycosylase MutY, an A/G-specific adenine glycosylase. Both of these enzymes have a C-terminal iron-sulphur cluster loop (FCL). The methyl-CPG binding protein (MBD4) also contain a related domain that is a thymine DNA glycosylase. The family also includes DNA-3-methyladenine glycosylase II 3.2.2.21 from EC, 8-oxoguanine DNA glycosylases and other members of the AlkA family.; GO: 0006284 base-excision repair; PDB: 3F0Z_A 3I0X_A 3F10_A 3I0W_A 3S6I_D 3N5N_Y 1PU7_A 1PU8_B 1PU6_B 1NGN_A ....
Probab=29.46 E-value=25 Score=24.68 Aligned_cols=48 Identities=27% Similarity=0.400 Sum_probs=30.8
Q ss_pred HHHHhhh---cccC-chhhhhHHHHHhhhhcCCCCcccccCCCchhhHHHHH
Q 037836 38 EEELKTV---DRFH-PASRSCKEVADFVVAKSDPLIPVNRKNRRSCRFWKWL 85 (163)
Q Consensus 38 EEEL~~L---E~~~-paS~~CKEv~~~Ves~pDPLLP~t~g~~~s~~~~rW~ 85 (163)
+|||+++ -|+. .=.+..+++...+..++|++.|+..+-++...+..|+
T Consensus 38 ~~el~~~i~~~G~~~~ka~~i~~~a~~~~~~~d~~~~~D~~v~r~~~r~~~~ 89 (108)
T PF00730_consen 38 EEELRELIRPLGFSRRKAKYIIELARAILGRPDPFPPVDTHVRRVLQRLGGI 89 (108)
T ss_dssp HHHHHHHHTTSTSHHHHHHHHHHHHHHHHC-SSSS-TTSHHHHHHHHHHTSS
T ss_pred HHHHHHHhhccCCCHHHHHHHHHHHHHhhhcccceecCcHHHHHHHHHHcCC
Confidence 5666666 4555 3344778888888899999999887766644444433
No 452
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=29.44 E-value=68 Score=24.66 Aligned_cols=27 Identities=22% Similarity=0.218 Sum_probs=19.1
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.-++.+++.|+++|..|++-.+.|+.
T Consensus 83 ~~~l~~~~~~l~~~i~~L~~~~~~L~~ 109 (140)
T PRK09514 83 KGIVDEKLAEVEAKIAELQHMRRSLQR 109 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677888888888888865555543
No 453
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains. ACT_RelA-SpoT: the ACT domain found C-terminal of the RelA/SpoT domains. Enzymes of the Rel/Spo family enable bacteria to survive prolonged periods of nutrient limitation by controlling guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp) production and subsequent rRNA repression (stringent response). Both the synthesis of (p)ppGpp from ATP and GDP(GTP), and its hydrolysis to GDP(GTP) and pyrophosphate, are catalyzed by Rel/Spo proteins. In Escherichia coli and its close relatives, the metabolism of (p)ppGpp is governed by two homologous proteins, RelA and SpoT. The RelA protein catalyzes (p)ppGpp synthesis in a reaction requiring its binding to ribosomes bearing codon-specified uncharged tRNA. The major role of the SpoT protein is the breakdown of (p)ppGpp by a manganese-dependent (p)ppGpp pyrophosphohydrolase activity. Although the stringent response appears to be tightly regulated by these two enzymes i
Probab=29.42 E-value=39 Score=19.53 Aligned_cols=20 Identities=5% Similarity=0.154 Sum_probs=13.6
Q ss_pred HHHHHHHHHHhhhcccCchh
Q 037836 32 REISFLEEELKTVDRFHPAS 51 (163)
Q Consensus 32 qEI~fLEEEL~~LE~~~paS 51 (163)
.++..+.++|+.++|+..+.
T Consensus 51 ~~~~~~~~~l~~~~~v~~v~ 70 (71)
T cd04876 51 EHLARIMRKLRQIPGVIDVR 70 (71)
T ss_pred HHHHHHHHHHhCCCCcEEEE
Confidence 45667777888887766543
No 454
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=29.35 E-value=68 Score=28.79 Aligned_cols=21 Identities=29% Similarity=0.414 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHhhhcc
Q 037836 26 KVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~ 46 (163)
++..||-|..-++|+|++||+
T Consensus 157 eleele~e~ee~~erlk~le~ 177 (290)
T COG4026 157 ELEELEAEYEEVQERLKRLEV 177 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555554
No 455
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=29.20 E-value=62 Score=25.39 Aligned_cols=7 Identities=71% Similarity=0.795 Sum_probs=2.5
Q ss_pred HHHHHHh
Q 037836 36 FLEEELK 42 (163)
Q Consensus 36 fLEEEL~ 42 (163)
.||+||+
T Consensus 46 ~lE~eld 52 (143)
T PF12718_consen 46 QLEEELD 52 (143)
T ss_pred HHHHHHH
Confidence 3333333
No 456
>PRK11546 zraP zinc resistance protein; Provisional
Probab=29.18 E-value=68 Score=25.97 Aligned_cols=21 Identities=19% Similarity=0.419 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 037836 24 LAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~L 44 (163)
.++|+.|.+||.-|+.+|.++
T Consensus 88 ~~kI~aL~kEI~~Lr~kL~e~ 108 (143)
T PRK11546 88 SSKINAVAKEMENLRQSLDEL 108 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 356788888888888877765
No 457
>PRK13768 GTPase; Provisional
Probab=29.10 E-value=1.1e+02 Score=25.29 Aligned_cols=37 Identities=16% Similarity=0.136 Sum_probs=23.0
Q ss_pred HHHHHhhhhcC--CCCcccccCC-CchhhHHHHHhCCCcc
Q 037836 55 KEVADFVVAKS--DPLIPVNRKN-RRSCRFWKWLCGTPCF 91 (163)
Q Consensus 55 KEv~~~Ves~p--DPLLP~t~g~-~~s~~~~rW~~~~~c~ 91 (163)
.++++.++... ++++|++..+ ..--.|+.||....+.
T Consensus 209 ~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~~ 248 (253)
T PRK13768 209 LELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFCG 248 (253)
T ss_pred HHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcCC
Confidence 34444444433 5889988554 4456888999875544
No 458
>PF08838 DUF1811: Protein of unknown function (DUF1811); InterPro: IPR014938 This entry consists uncharacterised bacterial proteins. Some of the proteins are annotated as being transcriptional regulators (see Q4MQL7 from SWISSPROT, Q65MA2 from SWISSPROT). The structure of one of the proteins has revealed a beta-barrel like structure with helix-turn-helix like motif. ; PDB: 2YXY_A 1SF9_A.
Probab=29.09 E-value=57 Score=25.37 Aligned_cols=26 Identities=19% Similarity=0.317 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 27 VQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
...|++||..|+|+-+.-|-++.++-
T Consensus 9 ~~EL~~Ei~~L~ekarKAEq~G~~nE 34 (102)
T PF08838_consen 9 EEELRQEIARLKEKARKAEQLGIVNE 34 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCT-HHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCccH
Confidence 46789999999999999998888875
No 459
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=28.96 E-value=68 Score=29.85 Aligned_cols=11 Identities=18% Similarity=0.271 Sum_probs=4.8
Q ss_pred HHHHHHHHHHH
Q 037836 24 LAKVQVLEREI 34 (163)
Q Consensus 24 ~Aelq~LeqEI 34 (163)
|++|+|-++||
T Consensus 234 q~slkRt~EeL 244 (365)
T KOG2391|consen 234 QESLKRTEEEL 244 (365)
T ss_pred HHHHHhhHHHH
Confidence 34444444444
No 460
>PF04006 Mpp10: Mpp10 protein; InterPro: IPR007151 This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites [].
Probab=28.95 E-value=45 Score=31.67 Aligned_cols=45 Identities=24% Similarity=0.304 Sum_probs=30.4
Q ss_pred hhhhHhHHHHHHHHHHH--------------------HHHHHHHhhhcccCchhhhhHHHHHhhh
Q 037836 18 YGKRRELAKVQVLEREI--------------------SFLEEELKTVDRFHPASRSCKEVADFVV 62 (163)
Q Consensus 18 ~GKhR~~Aelq~LeqEI--------------------~fLEEEL~~LE~~~paS~~CKEv~~~Ve 62 (163)
..+.||+.+|.+||+|. ++||+.|+.=.++.+|-..=.|+...+|
T Consensus 331 k~q~~l~~~I~~lE~~~~~~k~W~l~GE~~a~~Rp~nSLLee~l~fe~~~k~~pvit~e~t~~lE 395 (600)
T PF04006_consen 331 KRQEKLQKQIEELEKENVAEKPWQLKGEVSARDRPENSLLEEDLDFERTAKPVPVITEEVTESLE 395 (600)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCceeeeeeccccCCccchhccCccccccCCCCCCCCHHHHHHHH
Confidence 35567888899999988 7888888855555555544445544443
No 461
>PRK10963 hypothetical protein; Provisional
Probab=28.87 E-value=59 Score=26.84 Aligned_cols=27 Identities=22% Similarity=0.213 Sum_probs=16.3
Q ss_pred CCCCchhhhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 13 EYPDLYGKRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 13 ~~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
+..++..+. +++|.++|+-||++|.+|
T Consensus 37 gaVSL~ErQ-----~~~LR~r~~~Le~~l~~L 63 (223)
T PRK10963 37 GTVSLVEWQ-----MARQRNHIHVLEEEMTLL 63 (223)
T ss_pred CeecHHHHH-----HHHHHHHHHHHHHHHHHH
Confidence 355665543 556666666666666655
No 462
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=28.83 E-value=57 Score=29.33 Aligned_cols=23 Identities=35% Similarity=0.445 Sum_probs=10.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhc
Q 037836 23 ELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+..++++|++|+.-++++|++|+
T Consensus 332 l~~~~~~l~~~~~~~~~~l~~l~ 354 (451)
T PF03961_consen 332 LKEKLEELEEELEELKEELEKLK 354 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555554444443
No 463
>cd07638 BAR_ACAP2 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP2 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 2), also called centaurin beta-2, is an Arf6-specific GTPase activating protein (GAP) which mediates Arf6 signaling. Arf6 is involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration. ACAP2 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=28.81 E-value=50 Score=27.66 Aligned_cols=23 Identities=22% Similarity=0.352 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhccc
Q 037836 25 AKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
|.|+.+|+++.-||++|+.|-+.
T Consensus 2 ~~i~~~E~d~~~Le~~l~Kl~K~ 24 (200)
T cd07638 2 AALEDVEGDVAELELKLDKLVKL 24 (200)
T ss_pred chHHHHHhhHHHHHHHHHHHHHH
Confidence 67999999999999999987543
No 464
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=28.80 E-value=50 Score=26.17 Aligned_cols=19 Identities=32% Similarity=0.408 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 037836 25 AKVQVLEREISFLEEELKT 43 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~ 43 (163)
.+.+.+++||.-|++||++
T Consensus 154 ~~~~~~~~ei~~lk~el~~ 172 (192)
T PF05529_consen 154 EENKKLSEEIEKLKKELEK 172 (192)
T ss_pred hhhhhhHHHHHHHHHHHHH
Confidence 4555667777777777776
No 465
>PRK06008 flgL flagellar hook-associated protein FlgL; Validated
Probab=28.69 E-value=83 Score=27.30 Aligned_cols=31 Identities=16% Similarity=0.280 Sum_probs=23.7
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcccCchhh
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRFHPASR 52 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~~paS~ 52 (163)
|+...-.+++.+..+|++.+.+||+++++..
T Consensus 288 rle~~~~~~~~~~~~l~~~~s~le~vD~~ea 318 (348)
T PRK06008 288 RVTKANTRLDAQIKLLNGQILDLEGVDPYEA 318 (348)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCHHHH
Confidence 4444556777888888888999999988754
No 466
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=28.68 E-value=81 Score=25.14 Aligned_cols=18 Identities=11% Similarity=-0.027 Sum_probs=12.2
Q ss_pred chhhhHhHHHHHHHHHHH
Q 037836 17 LYGKRRELAKVQVLEREI 34 (163)
Q Consensus 17 ~~GKhR~~Aelq~LeqEI 34 (163)
.-|..++++||+.|..+.
T Consensus 10 ~eg~~~L~~EL~~L~~~r 27 (158)
T PRK05892 10 PAARDHLEAELARLRARR 27 (158)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 357777777777776543
No 467
>TIGR00636 PduO_Nterm ATP:cob(I)alamin adenosyltransferase. This model represents as ATP:cob(I)alamin adenosyltransferase family corresponding to the N-terminal half of Salmonella PduO, a 1,2-propanediol utilization protein that probably is bifunctional. PduO represents one of at least three families of ATP:corrinoid adenosyltransferase: others are CobA (which partially complements PduO) and EutT. It was not clear originally whether ATP:cob(I)alamin adenosyltransferase activity resides in the N-terminal region of PduO, modeled here, but this has now become clear from the characterization of MeaD from Methylobacterium extorquens.
Probab=28.68 E-value=47 Score=27.13 Aligned_cols=25 Identities=24% Similarity=0.223 Sum_probs=19.7
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 22 RELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
-...+|+.||++|..++++|..|.+
T Consensus 77 i~~~~v~~LE~~id~~~~~l~~l~~ 101 (171)
T TIGR00636 77 ITEEDVKWLEERIDQYRKELPPLKL 101 (171)
T ss_pred cCHHHHHHHHHHHHHHHhhCCCCCc
Confidence 3456788999999999988876653
No 468
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=28.56 E-value=72 Score=24.79 Aligned_cols=27 Identities=19% Similarity=0.183 Sum_probs=18.1
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
..+.+.+++||+.+.-|++-+++||+.
T Consensus 84 ~~l~~~i~~Le~~l~~L~~~~~~l~~~ 110 (134)
T cd04779 84 QLVCDQIDGLEHRLKQLKPIASQTDRA 110 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666777777777777666666653
No 469
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=28.47 E-value=64 Score=24.11 Aligned_cols=24 Identities=17% Similarity=0.263 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccC
Q 037836 25 AKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
..++.|++++..|++++++|+.+.
T Consensus 80 ~~~~~l~~~~~~l~~~~~~l~~~~ 103 (118)
T cd04776 80 KMLEKIEKRRAELEQQRRDIDAAL 103 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788999999999888887654
No 470
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=28.47 E-value=85 Score=21.94 Aligned_cols=22 Identities=14% Similarity=0.199 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhh
Q 037836 23 ELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~L 44 (163)
+..+|.+|+-.|.-++.|+++|
T Consensus 5 lEn~~~~~~~~i~tvk~en~~i 26 (55)
T PF05377_consen 5 LENELPRIESSINTVKKENEEI 26 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888888888888887654
No 471
>PHA03395 p10 fibrous body protein; Provisional
Probab=28.40 E-value=86 Score=23.81 Aligned_cols=16 Identities=25% Similarity=0.395 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 037836 26 KVQVLEREISFLEEEL 41 (163)
Q Consensus 26 elq~LeqEI~fLEEEL 41 (163)
+|..|++++.-|++-|
T Consensus 19 KVdalQ~~V~~l~~nl 34 (87)
T PHA03395 19 KVDALQAAVDDVRANL 34 (87)
T ss_pred HHHHHHHHHHHHHhcC
Confidence 3444444444444433
No 472
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=28.35 E-value=1.4e+02 Score=26.77 Aligned_cols=17 Identities=47% Similarity=0.601 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 037836 24 LAKVQVLEREISFLEEE 40 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEE 40 (163)
+.++++|+++|.-|++.
T Consensus 248 ~~~~~~~~~~i~~l~~~ 264 (406)
T PF02388_consen 248 QEKLEKLEKEIEKLEEK 264 (406)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44444444444444444
No 473
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=28.29 E-value=67 Score=24.83 Aligned_cols=14 Identities=21% Similarity=0.297 Sum_probs=7.4
Q ss_pred HHHHhhhhcCCCCc
Q 037836 56 EVADFVVAKSDPLI 69 (163)
Q Consensus 56 Ev~~~Ves~pDPLL 69 (163)
.|..|++++.|=|.
T Consensus 54 ~l~~y~e~~r~e~~ 67 (149)
T PF07352_consen 54 LLQAYAEANRDELT 67 (149)
T ss_dssp HHHHHHHCTHHHH-
T ss_pred HHHHHHHHCHHhcc
Confidence 35556666655544
No 474
>PF04576 Zein-binding: Zein-binding; InterPro: IPR007656 This is a family of uncharacterised proteins.
Probab=28.27 E-value=57 Score=24.94 Aligned_cols=17 Identities=41% Similarity=0.428 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHh
Q 037836 26 KVQVLEREISFLEEELK 42 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~ 42 (163)
-|.+.|+||.+|+.||+
T Consensus 78 ~l~~rE~e~~~Le~ele 94 (94)
T PF04576_consen 78 ILYKREKEIQSLEAELE 94 (94)
T ss_pred HHHHHHHHHHHHHhhcC
Confidence 34555666666666653
No 475
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=28.23 E-value=93 Score=22.68 Aligned_cols=32 Identities=28% Similarity=0.360 Sum_probs=0.0
Q ss_pred CCCCCchhhhHhHHHHHHHHHHHHHHHHHHhhh
Q 037836 12 PEYPDLYGKRRELAKVQVLEREISFLEEELKTV 44 (163)
Q Consensus 12 P~~pD~~GKhR~~Aelq~LeqEI~fLEEEL~~L 44 (163)
+..+...- +...+|+++|++=|.-..+||+.|
T Consensus 23 ~~~~~~~~-~~~~~E~~rl~~Al~~~~~eL~~l 54 (123)
T PF05524_consen 23 PEIPERHI-DDIEAEIERLEQALEKAREELEQL 54 (123)
T ss_dssp ----TTB--SHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred Cccccccc-CCHHHHHHHHHHHHHHHHHHHHHH
No 476
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=28.19 E-value=95 Score=23.26 Aligned_cols=26 Identities=27% Similarity=0.319 Sum_probs=19.1
Q ss_pred hHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 21 RRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 21 hR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
+.+-++||+.=-.|..|+-|+++|..
T Consensus 7 eqLE~KIqqAvdtI~LLqmEieELKe 32 (79)
T PRK15422 7 EKLEAKVQQAIDTITLLQMEIEELKE 32 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567777777788888888888754
No 477
>PF14645 Chibby: Chibby family
Probab=28.17 E-value=68 Score=24.73 Aligned_cols=19 Identities=37% Similarity=0.237 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 037836 24 LAKVQVLEREISFLEEELK 42 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~ 42 (163)
..+.++|.+|++-|+||-+
T Consensus 70 ~~~~~~l~~~n~~L~EENN 88 (116)
T PF14645_consen 70 GEENQRLRKENQQLEEENN 88 (116)
T ss_pred hhHHHHHHHHHHHHHHHHH
Confidence 3444555555555555544
No 478
>KOG3251 consensus Golgi SNAP receptor complex member [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.14 E-value=1.1e+02 Score=26.53 Aligned_cols=37 Identities=16% Similarity=0.180 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHhhhccc---CchhhhhHHHHHhhhh
Q 037836 27 VQVLEREISFLEEELKTVDRF---HPASRSCKEVADFVVA 63 (163)
Q Consensus 27 lq~LeqEI~fLEEEL~~LE~~---~paS~~CKEv~~~Ves 63 (163)
.|.-++++.-+|.+|..+|++ +.+++.+.++...|..
T Consensus 5 y~~t~~~~~k~q~~l~rlE~~~~~~e~~~v~~~i~~sI~~ 44 (213)
T KOG3251|consen 5 YQSTNRQLDKLQRGLIRLERTIKTQEVSAVENSIQRSIDQ 44 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHccccccchHHHHHHHHHhHHH
Confidence 455556666666666666655 5588888888777653
No 479
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=28.10 E-value=67 Score=26.57 Aligned_cols=19 Identities=47% Similarity=0.697 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 037836 25 AKVQVLEREISFLEEELKT 43 (163)
Q Consensus 25 Aelq~LeqEI~fLEEEL~~ 43 (163)
..|++|+++|.-|+++|+.
T Consensus 197 ~~v~~Le~~id~le~eL~~ 215 (237)
T PF00261_consen 197 RRVKKLEKEIDRLEDELEK 215 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
No 480
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=28.03 E-value=1.4e+02 Score=22.88 Aligned_cols=41 Identities=20% Similarity=0.158 Sum_probs=21.4
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhccc------CchhhhhHHHHHhhh
Q 037836 22 RELAKVQVLEREISFLEEELKTVDRF------HPASRSCKEVADFVV 62 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~LE~~------~paS~~CKEv~~~Ve 62 (163)
.++.+++.|+++|.-|++-.+.|+++ .++...|-|...-+.
T Consensus 82 ~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~ 128 (131)
T cd04786 82 ALERKVADIEALEARLAQNKAQLLVLIDLIESKPDEMDCADNARRVM 128 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCchHHHHHHH
Confidence 45556666666666666554444332 234455655544433
No 481
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=27.98 E-value=1e+02 Score=20.66 Aligned_cols=22 Identities=18% Similarity=0.288 Sum_probs=16.5
Q ss_pred HhHHHHHHHHHHHHHHHHHHhh
Q 037836 22 RELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 22 R~~Aelq~LeqEI~fLEEEL~~ 43 (163)
.+.++++.|++-++.|.|+|++
T Consensus 5 ~l~~ql~~l~~~l~elk~~l~~ 26 (45)
T PF11598_consen 5 QLIKQLSELNQMLQELKELLRQ 26 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4567788888888888877765
No 482
>PF12841 YvrJ: YvrJ protein family; InterPro: IPR024419 This entry is represents a family of uncharacterised protein. The function of the Bacillus subtilis YvrJ protein is not known, but its expression is regulated by the cell envelope stress-inducible sigma factor YvrI [].
Probab=27.95 E-value=74 Score=20.53 Aligned_cols=21 Identities=29% Similarity=0.192 Sum_probs=14.2
Q ss_pred hhHhHHHHHHHHHHHHHHHHH
Q 037836 20 KRRELAKVQVLEREISFLEEE 40 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEE 40 (163)
=+|+..+++.|..-|..|.++
T Consensus 17 L~R~E~kld~L~~~i~~L~~~ 37 (38)
T PF12841_consen 17 LVRIEKKLDELTESINELSEA 37 (38)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 367777777777777666553
No 483
>PF14335 DUF4391: Domain of unknown function (DUF4391)
Probab=27.86 E-value=81 Score=25.85 Aligned_cols=27 Identities=30% Similarity=0.578 Sum_probs=18.2
Q ss_pred CchhhhHhHHHHHHHHHHHHHHHHHHh
Q 037836 16 DLYGKRRELAKVQVLEREISFLEEELK 42 (163)
Q Consensus 16 D~~GKhR~~Aelq~LeqEI~fLEEEL~ 42 (163)
++-=+.-.++++.+|++||.-|+.+++
T Consensus 173 ~~~~~~~~~~~i~~L~kei~~L~~~~~ 199 (221)
T PF14335_consen 173 SLWERIERLEQIEKLEKEIAKLKKKIK 199 (221)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333445566777788888888777765
No 484
>PRK11281 hypothetical protein; Provisional
Probab=27.83 E-value=54 Score=34.00 Aligned_cols=54 Identities=22% Similarity=0.413 Sum_probs=0.0
Q ss_pred CchhhhH--hHHHHHHHHHHHHHHHHHHhh--hcccCchhhhhHHHHHhhhhcCCCCc
Q 037836 16 DLYGKRR--ELAKVQVLEREISFLEEELKT--VDRFHPASRSCKEVADFVVAKSDPLI 69 (163)
Q Consensus 16 D~~GKhR--~~Aelq~LeqEI~fLEEEL~~--LE~~~paS~~CKEv~~~Ves~pDPLL 69 (163)
|+.-++| ..++++++|++|..||+.+++ ++..+.+-.-=+...+......||+|
T Consensus 223 ~l~~~q~d~~~~~~~~~~~~~~~lq~~in~kr~~~se~~~~~a~~~~~~~~~~~~p~i 280 (1113)
T PRK11281 223 DLLQKQRDYLTARIQRLEHQLQLLQEAINSKRLTLSEKTVQEAQSQDEAARIQANPLV 280 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccCCChHH
No 485
>TIGR01462 greA transcription elongation factor GreA. In the Chlamydias and some spirochetes, the region described by this model is found as the C-terminal region of a much larger protein.
Probab=27.79 E-value=76 Score=24.64 Aligned_cols=15 Identities=13% Similarity=0.193 Sum_probs=9.6
Q ss_pred hhhhHhHHHHHHHHH
Q 037836 18 YGKRRELAKVQVLER 32 (163)
Q Consensus 18 ~GKhR~~Aelq~Leq 32 (163)
.|.+|+++||+.|.+
T Consensus 5 ~g~~~L~~el~~L~~ 19 (151)
T TIGR01462 5 EGYEKLKEELEYLKT 19 (151)
T ss_pred HHHHHHHHHHHHHHh
Confidence 466666666666654
No 486
>PF15568 Imm20: Immunity protein 20
Probab=27.78 E-value=24 Score=28.39 Aligned_cols=21 Identities=24% Similarity=0.384 Sum_probs=19.1
Q ss_pred hhhHhHHHHHHHHHHHHHHHH
Q 037836 19 GKRRELAKVQVLEREISFLEE 39 (163)
Q Consensus 19 GKhR~~Aelq~LeqEI~fLEE 39 (163)
|++-+|-||.+|-|.|+|++|
T Consensus 23 ~~~~~~D~iE~~L~D~~F~~~ 43 (129)
T PF15568_consen 23 GMVVEQDKIEQMLIDSNFFED 43 (129)
T ss_pred eeeeeHhHHHHHHHhhcchhc
Confidence 777889999999999999986
No 487
>PF10191 COG7: Golgi complex component 7 (COG7); InterPro: IPR019335 The conserved oligomeric Golgi (COG) complex is an eight-subunit (Cog1-8) peripheral Golgi protein involved in membrane trafficking and glycoconjugate synthesis []. COG7 is required for normal Golgi morphology and trafficking. Mutation in COG7 causes a congenital disorder of glycosylation [].
Probab=27.70 E-value=97 Score=30.37 Aligned_cols=27 Identities=22% Similarity=0.385 Sum_probs=16.8
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
-+|++.++..|++++..++++++.+|+
T Consensus 72 v~~l~~ea~~L~~~~~~v~~~~~~~e~ 98 (766)
T PF10191_consen 72 VDRLRQEAASLQEQMASVQEEIKAVEQ 98 (766)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhc
Confidence 355666666666666666666666555
No 488
>PF14782 BBS2_C: Ciliary BBSome complex subunit 2, C-terminal
Probab=27.64 E-value=95 Score=28.86 Aligned_cols=50 Identities=18% Similarity=0.192 Sum_probs=36.6
Q ss_pred chhhhHhHHHHHHHHHHHHHHHHHHhhhcccCchhhhhHHHHHhhhhcCCCCcccccC
Q 037836 17 LYGKRRELAKVQVLEREISFLEEELKTVDRFHPASRSCKEVADFVVAKSDPLIPVNRK 74 (163)
Q Consensus 17 ~~GKhR~~Aelq~LeqEI~fLEEEL~~LE~~~paS~~CKEv~~~Ves~pDPLLP~t~g 74 (163)
..-....+.+|..|.|+-+-|.-||+.+|....+-. .+...+-++|..++
T Consensus 53 ~~~~~~~~~~lreL~qkKQ~Ll~EL~nyEe~~~~~~--------~~~~~~~~ipa~T~ 102 (431)
T PF14782_consen 53 LVDASDEQEALRELSQKKQNLLLELRNYEENAKREK--------QGDTDTGVIPANTQ 102 (431)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh--------cccCcCCccCCCCE
Confidence 334456778888999999999999999987766544 55566667776655
No 489
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=27.56 E-value=58 Score=23.82 Aligned_cols=27 Identities=15% Similarity=0.065 Sum_probs=20.9
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhcc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDR 46 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~ 46 (163)
++.++.+++.|++||..|+.-++.|+.
T Consensus 81 ~~~l~~~~~~l~~~i~~l~~~~~~l~~ 107 (123)
T cd04770 81 RALLEEKLAEVEAKIAELQALRAELAG 107 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455778888888888888888777764
No 490
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=27.55 E-value=50 Score=24.98 Aligned_cols=17 Identities=29% Similarity=0.444 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHhhh
Q 037836 28 QVLEREISFLEEELKTV 44 (163)
Q Consensus 28 q~LeqEI~fLEEEL~~L 44 (163)
.+|+++|.-++.|+++|
T Consensus 53 ~~l~~qi~~~~~e~~~L 69 (117)
T COG2919 53 LQLQRQIAAQQAELEKL 69 (117)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33344444444443333
No 491
>cd04387 RhoGAP_Bcr RhoGAP_Bcr: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of Bcr (breakpoint cluster region protein)-like proteins. Bcr is a multidomain protein with a variety of enzymatic functions. It contains a RhoGAP and a Rho GEF domain, a Ser/Thr kinase domain, an N-terminal oligomerization domain, and a C-terminal PDZ binding domain, in addition to PH and C2 domains. Bcr is a negative regulator of: i) RacGTPase, via the Rho GAP domain, ii) the Ras-Raf-MEK-ERK pathway, via phosphorylation of the Ras binding protein AF-6, and iii) the Wnt signaling pathway through binding beta-catenin. Bcr can form a complex with beta-catenin and Tcf1. The Wnt signaling pathway is involved in cell proliferation, differentiation, and cell renewal. Bcr was discovered as a fusion partner of Abl. The Bcr-Abl fusion is characteristic for a large majority of chronic myelogenous leukemias (CML). Small GTPases cluster into distinct families, and all act as molecular switch
Probab=27.46 E-value=63 Score=26.15 Aligned_cols=23 Identities=9% Similarity=0.150 Sum_probs=17.0
Q ss_pred hhhhhHHHHHhhhhcCCCCcccc
Q 037836 50 ASRSCKEVADFVVAKSDPLIPVN 72 (163)
Q Consensus 50 aS~~CKEv~~~Ves~pDPLLP~t 72 (163)
+-.+.--+-.|.-.-||||||..
T Consensus 70 ~h~va~lLK~fLReLPePLip~~ 92 (196)
T cd04387 70 VNAIAGTLKLYFRELPEPLFTDE 92 (196)
T ss_pred HHHHHHHHHHHHHhCCCccCCHH
Confidence 33455667778888899999953
No 492
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=27.44 E-value=77 Score=24.14 Aligned_cols=21 Identities=29% Similarity=0.355 Sum_probs=8.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhh
Q 037836 23 ELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~ 43 (163)
+..++..+++|+..+++....
T Consensus 78 L~~~~~~~ere~~~~~~~~~~ 98 (151)
T PF11559_consen 78 LKEQLEELERELASAEEKERQ 98 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444333
No 493
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=27.41 E-value=85 Score=22.54 Aligned_cols=24 Identities=13% Similarity=0.108 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccc
Q 037836 24 LAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
...-+.|+..++-||+.|+.||.+
T Consensus 38 ~~~~~eL~~~l~~ie~~L~DL~~a 61 (97)
T PF09177_consen 38 KWLKRELRNALQSIEWDLEDLEEA 61 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344466777778888888888643
No 494
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=27.37 E-value=86 Score=24.35 Aligned_cols=21 Identities=38% Similarity=0.490 Sum_probs=13.3
Q ss_pred hHHHHHHHHHHHHHHHHHHhh
Q 037836 23 ELAKVQVLEREISFLEEELKT 43 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~ 43 (163)
.++.|+.|+.|..-.++||++
T Consensus 102 Q~~~i~~L~~E~~~~~~el~~ 122 (144)
T PF11221_consen 102 QLKRIKELEEENEEAEEELQE 122 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345566677777666666654
No 495
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=27.36 E-value=69 Score=27.56 Aligned_cols=22 Identities=27% Similarity=0.305 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 037836 24 LAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 24 ~Aelq~LeqEI~fLEEEL~~LE 45 (163)
..++++|+++++.|+.|++.++
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~ 26 (364)
T TIGR01242 5 DVRIRKLEDEKRSLEKEKIRLE 26 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3566777777777777766554
No 496
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=27.32 E-value=52 Score=26.14 Aligned_cols=26 Identities=15% Similarity=0.450 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHhhhcccCchh
Q 037836 26 KVQVLEREISFLEEELKTVDRFHPAS 51 (163)
Q Consensus 26 elq~LeqEI~fLEEEL~~LE~~~paS 51 (163)
+..+||+.|..|+++|+..+-+++++
T Consensus 55 ~~~~~e~rI~~L~~~L~~A~iid~~~ 80 (157)
T PRK01885 55 RLREIDRRVRFLTKRLENLKVVDYSP 80 (157)
T ss_pred HHHHHHHHHHHHHHHHccCEEECCCC
Confidence 56778899999999998877666543
No 497
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=27.31 E-value=66 Score=30.73 Aligned_cols=23 Identities=35% Similarity=0.303 Sum_probs=17.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhc
Q 037836 23 ELAKVQVLEREISFLEEELKTVD 45 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE 45 (163)
+-|+++.+|-||.-||||+.+|-
T Consensus 46 i~a~~~~~E~~l~~Lq~e~~~l~ 68 (459)
T KOG0288|consen 46 IKAKLQEKELELNRLQEENTQLN 68 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677778888888888877763
No 498
>cd04381 RhoGap_RalBP1 RhoGap_RalBP1: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in RalBP1 proteins, also known as RLIP, RLIP76 or cytocentrin. RalBP1 plays an important role in endocytosis during interphase. During mitosis, RalBP1 transiently associates with the centromere and has been shown to play an essential role in the proper assembly of the mitotic apparatus. RalBP1 is an effector of the Ral GTPase which itself is an effector of Ras. RalBP1 contains a RhoGAP domain, which shows weak activity towards Rac1 and Cdc42, but not towards Ral, and a Ral effector domain binding motif. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low int
Probab=27.31 E-value=1.1e+02 Score=24.06 Aligned_cols=21 Identities=10% Similarity=0.287 Sum_probs=15.3
Q ss_pred hhhhHHHHHhhhhcCCCCccc
Q 037836 51 SRSCKEVADFVVAKSDPLIPV 71 (163)
Q Consensus 51 S~~CKEv~~~Ves~pDPLLP~ 71 (163)
-.+.-=+-.|...-||||||.
T Consensus 72 h~va~lLK~fLReLP~pLi~~ 92 (182)
T cd04381 72 PTVASLLKQYLRELPEPLLTK 92 (182)
T ss_pred HHHHHHHHHHHHhCCCccCCH
Confidence 345555677778888999886
No 499
>PF10398 DUF2443: Protein of unknown function (DUF2443); InterPro: IPR019469 This entry represents a small group of highly conserved proteins from bacteria, in particular Helicobacter species. The structure is a bundle of alpha helices. The function is not known. ; PDB: 1ZKE_F.
Probab=27.30 E-value=69 Score=24.09 Aligned_cols=26 Identities=15% Similarity=0.434 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhcccC
Q 037836 23 ELAKVQVLEREISFLEEELKTVDRFH 48 (163)
Q Consensus 23 ~~Aelq~LeqEI~fLEEEL~~LE~~~ 48 (163)
-++-++++..|+.-|+|.++.|.++.
T Consensus 48 ~~~~~~QideeV~~LKe~IdaLNK~K 73 (79)
T PF10398_consen 48 NMAFLAQIDEEVEKLKEHIDALNKIK 73 (79)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999999999998765
No 500
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR. SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur cluster activates SoxR. The physiological role in E. coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In E. coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.
Probab=27.27 E-value=78 Score=24.65 Aligned_cols=28 Identities=18% Similarity=0.107 Sum_probs=0.0
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHhhhccc
Q 037836 20 KRRELAKVQVLEREISFLEEELKTVDRF 47 (163)
Q Consensus 20 KhR~~Aelq~LeqEI~fLEEEL~~LE~~ 47 (163)
+..+...++.|+++|.-|++-++.|+++
T Consensus 82 ~~~l~~~~~~l~~ki~~L~~~~~~L~~~ 109 (142)
T TIGR01950 82 ARLSSQWREELDERIDQLNALRDQLDGC 109 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Done!