Query 038668
Match_columns 83
No_of_seqs 55 out of 57
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 13:24:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038668.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038668hhsearch_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; 99.3 8E-13 1.7E-17 82.2 2.6 47 33-81 1-47 (68)
2 cd00068 GGL G protein gamma su 97.6 0.00013 2.9E-09 44.6 4.0 42 37-80 2-45 (57)
3 smart00224 GGL G protein gamma 96.8 0.0022 4.8E-08 39.9 3.9 41 37-79 2-44 (63)
4 KOG4119 G protein gamma subuni 95.8 0.016 3.4E-07 38.0 3.9 44 34-79 7-52 (71)
5 PRK14011 prefoldin subunit alp 94.6 0.065 1.4E-06 38.3 4.2 53 30-82 6-58 (144)
6 PRK01203 prefoldin subunit alp 91.9 0.29 6.3E-06 34.9 4.0 51 31-81 4-56 (130)
7 TIGR00293 prefoldin, archaeal 90.6 0.53 1.1E-05 31.2 4.1 50 32-81 4-55 (126)
8 PRK03947 prefoldin subunit alp 88.6 1.2 2.5E-05 30.2 4.6 44 30-73 9-52 (140)
9 COG1730 GIM5 Predicted prefold 88.5 0.92 2E-05 32.7 4.3 51 30-80 9-62 (145)
10 PF13863 DUF4200: Domain of un 87.8 2.1 4.6E-05 28.0 5.4 49 28-76 75-123 (126)
11 PF12325 TMF_TATA_bd: TATA ele 87.6 1.2 2.6E-05 31.1 4.2 39 21-59 10-48 (120)
12 PF06305 DUF1049: Protein of u 86.8 1.3 2.8E-05 26.3 3.6 26 28-53 42-67 (68)
13 PF10458 Val_tRNA-synt_C: Valy 83.6 1.8 3.9E-05 26.5 3.3 24 32-55 2-25 (66)
14 PRK13130 H/ACA RNA-protein com 82.5 1.5 3.2E-05 27.4 2.5 28 5-36 23-50 (56)
15 PF07716 bZIP_2: Basic region 81.6 4 8.6E-05 24.0 4.1 28 27-54 18-45 (54)
16 PF07334 IFP_35_N: Interferon- 81.6 2.6 5.7E-05 27.9 3.6 25 30-54 3-27 (76)
17 PF14389 Lzipper-MIP1: Leucine 80.3 4.3 9.4E-05 26.6 4.3 26 29-54 56-81 (88)
18 cd00584 Prefoldin_alpha Prefol 77.3 6 0.00013 26.2 4.3 42 31-72 3-44 (129)
19 PF03962 Mnd1: Mnd1 family; I 77.1 6.1 0.00013 28.9 4.7 38 24-61 100-137 (188)
20 PF07716 bZIP_2: Basic region 76.1 5.3 0.00012 23.5 3.5 24 31-54 29-52 (54)
21 PF04977 DivIC: Septum formati 74.3 6.1 0.00013 23.6 3.5 21 33-53 30-50 (80)
22 PF04977 DivIC: Septum formati 74.3 6.8 0.00015 23.3 3.7 28 28-55 18-45 (80)
23 KOG3048 Molecular chaperone Pr 74.2 5.3 0.00012 29.7 3.8 45 31-75 17-61 (153)
24 PRK13922 rod shape-determining 73.4 6.8 0.00015 29.1 4.2 49 26-74 68-116 (276)
25 PF02185 HR1: Hr1 repeat; Int 72.5 8.9 0.00019 23.4 4.0 32 29-60 35-66 (70)
26 PF04102 SlyX: SlyX; InterPro 71.9 4.8 0.0001 25.1 2.7 24 31-54 29-52 (69)
27 cd00890 Prefoldin Prefoldin is 71.6 15 0.00032 23.7 5.0 44 32-75 4-47 (129)
28 PF08286 Spc24: Spc24 subunit 70.8 1.4 2.9E-05 29.7 0.0 23 30-52 9-31 (118)
29 PF10737 GerPC: Spore germinat 70.4 3.3 7.1E-05 30.9 1.9 24 36-59 1-24 (176)
30 PF00170 bZIP_1: bZIP transcri 70.3 11 0.00023 22.6 3.9 26 29-54 21-46 (64)
31 PF04799 Fzo_mitofusin: fzo-li 70.1 6.4 0.00014 29.4 3.4 34 37-70 123-156 (171)
32 PF14282 FlxA: FlxA-like prote 68.8 6.2 0.00013 26.4 2.9 23 33-55 18-40 (106)
33 PF03285 Paralemmin: Paralemmi 68.6 6.1 0.00013 31.4 3.2 27 33-59 9-35 (278)
34 KOG2911 Uncharacterized conser 67.8 8.3 0.00018 32.7 4.0 37 27-65 233-269 (439)
35 KOG4529 Uncharacterized conser 67.3 7.2 0.00016 32.7 3.5 39 23-64 31-92 (404)
36 TIGR02209 ftsL_broad cell divi 66.7 12 0.00026 22.9 3.7 23 31-53 28-50 (85)
37 PRK02793 phi X174 lysis protei 66.6 11 0.00023 24.0 3.4 25 31-55 33-57 (72)
38 PRK09413 IS2 repressor TnpA; R 66.2 8.1 0.00017 25.8 3.0 31 31-61 75-105 (121)
39 PF07106 TBPIP: Tat binding pr 66.0 21 0.00044 24.9 5.1 33 29-61 81-113 (169)
40 PRK14127 cell division protein 65.8 9.8 0.00021 26.3 3.4 27 31-57 41-67 (109)
41 PF05010 TACC: Transforming ac 65.3 15 0.00032 27.8 4.6 41 31-71 165-206 (207)
42 COG5509 Uncharacterized small 65.1 8 0.00017 25.2 2.7 22 34-55 25-46 (65)
43 PRK00846 hypothetical protein; 65.0 12 0.00026 24.6 3.6 25 31-55 38-62 (77)
44 PLN03128 DNA topoisomerase 2; 64.9 11 0.00025 34.8 4.6 39 34-72 1095-1133(1135)
45 PF10552 ORF6C: ORF6C domain; 64.3 15 0.00033 24.5 4.1 40 32-71 6-46 (116)
46 PF14916 CCDC92: Coiled-coil d 64.3 7.4 0.00016 24.7 2.4 34 33-66 2-40 (60)
47 PRK06342 transcription elongat 64.3 19 0.0004 26.0 4.8 34 13-46 20-53 (160)
48 smart00338 BRLZ basic region l 62.6 19 0.00042 21.5 4.0 27 28-54 20-46 (65)
49 TIGR01834 PHA_synth_III_E poly 62.3 15 0.00033 29.7 4.4 30 26-55 288-317 (320)
50 PRK00295 hypothetical protein; 62.1 15 0.00032 23.1 3.5 24 31-54 30-53 (68)
51 PHA02592 52 DNA topisomerase I 61.7 17 0.00036 30.3 4.6 37 33-69 401-437 (439)
52 KOG0728 26S proteasome regulat 61.7 11 0.00024 31.4 3.5 28 28-55 39-66 (404)
53 KOG2658 NADH:ubiquinone oxidor 61.6 6 0.00013 33.7 2.0 34 5-38 25-74 (478)
54 PF10376 Mei5: Double-strand r 61.5 17 0.00037 27.6 4.4 48 6-53 110-157 (221)
55 PF04508 Pox_A_type_inc: Viral 61.3 13 0.00028 19.8 2.6 18 35-52 2-19 (23)
56 PF04420 CHD5: CHD5-like prote 61.3 8.8 0.00019 27.2 2.6 27 34-60 66-92 (161)
57 PF04135 Nop10p: Nucleolar RNA 61.1 5.9 0.00013 24.5 1.5 28 5-36 23-50 (53)
58 PRK02119 hypothetical protein; 60.4 16 0.00034 23.3 3.4 24 31-54 34-57 (73)
59 PF08286 Spc24: Spc24 subunit 59.2 3.1 6.7E-05 27.9 -0.0 28 32-59 18-45 (118)
60 PRK00736 hypothetical protein; 58.9 18 0.00039 22.7 3.5 24 31-54 30-53 (68)
61 PF14716 HHH_8: Helix-hairpin- 58.9 9.5 0.00021 23.2 2.1 32 30-61 29-60 (68)
62 PF07820 TraC: TraC-like prote 58.6 11 0.00023 25.9 2.5 20 36-55 4-23 (92)
63 PF15011 CK2S: Casein Kinase 2 58.1 50 0.0011 23.8 6.1 60 17-77 48-110 (168)
64 PRK05729 valS valyl-tRNA synth 57.7 12 0.00026 32.7 3.3 29 28-56 805-833 (874)
65 PF10152 DUF2360: Predicted co 56.9 16 0.00035 25.8 3.3 29 31-59 25-53 (148)
66 PRK04325 hypothetical protein; 56.9 20 0.00043 22.8 3.4 24 31-54 34-57 (74)
67 PF11932 DUF3450: Protein of u 56.8 39 0.00084 25.0 5.5 48 30-78 73-125 (251)
68 PF04111 APG6: Autophagy prote 56.8 16 0.00035 28.6 3.6 29 29-57 45-73 (314)
69 PRK04406 hypothetical protein; 56.3 20 0.00044 23.0 3.4 21 33-53 38-58 (75)
70 PF03285 Paralemmin: Paralemmi 55.9 8.8 0.00019 30.5 2.0 20 30-49 13-32 (278)
71 PRK00888 ftsB cell division pr 55.7 29 0.00064 23.3 4.3 20 35-54 42-61 (105)
72 PF13600 DUF4140: N-terminal d 55.2 22 0.00047 22.7 3.5 21 35-55 71-91 (104)
73 PF04999 FtsL: Cell division p 55.1 24 0.00052 22.4 3.7 24 30-53 38-61 (97)
74 PF12718 Tropomyosin_1: Tropom 55.0 15 0.00034 25.7 3.0 19 37-55 76-94 (143)
75 PTZ00322 6-phosphofructo-2-kin 54.6 25 0.00054 29.8 4.6 58 4-61 5-62 (664)
76 PF12097 DUF3573: Protein of u 54.5 15 0.00032 30.8 3.2 24 33-56 41-64 (383)
77 PF10211 Ax_dynein_light: Axon 53.5 25 0.00053 25.7 3.9 26 28-53 121-146 (189)
78 PF06698 DUF1192: Protein of u 52.9 46 0.001 20.9 4.6 29 24-52 18-46 (59)
79 TIGR02894 DNA_bind_RsfA transc 52.7 20 0.00044 26.6 3.4 25 31-55 108-132 (161)
80 PF01920 Prefoldin_2: Prefoldi 52.7 23 0.00051 22.0 3.3 18 35-52 77-94 (106)
81 PLN02943 aminoacyl-tRNA ligase 51.8 16 0.00035 32.6 3.2 29 28-56 883-911 (958)
82 cd04786 HTH_MerR-like_sg7 Heli 51.7 32 0.0007 23.6 4.1 36 37-75 81-116 (131)
83 PLN03237 DNA topoisomerase 2; 51.7 26 0.00056 33.7 4.6 39 34-72 1126-1164(1465)
84 PF10975 DUF2802: Protein of u 51.6 50 0.0011 20.9 4.6 38 34-71 5-42 (70)
85 PF00521 DNA_topoisoIV: DNA gy 51.6 23 0.0005 28.5 3.8 26 34-59 391-416 (426)
86 PF02403 Seryl_tRNA_N: Seryl-t 51.5 27 0.00058 22.5 3.5 25 30-54 70-94 (108)
87 PF08614 ATG16: Autophagy prot 51.5 22 0.00048 25.5 3.4 27 30-56 119-145 (194)
88 TIGR00103 DNA_YbaB_EbfC DNA-bi 51.4 21 0.00045 23.8 3.0 29 30-58 8-36 (102)
89 PF06156 DUF972: Protein of un 51.2 28 0.00061 23.7 3.7 26 29-54 3-28 (107)
90 PF11559 ADIP: Afadin- and alp 51.1 26 0.00057 23.8 3.6 26 30-55 62-87 (151)
91 PF13863 DUF4200: Domain of un 51.0 29 0.00063 22.6 3.6 24 30-53 84-107 (126)
92 TIGR03709 PPK2_rel_1 polyphosp 51.0 48 0.001 25.8 5.3 48 23-70 22-80 (264)
93 COG3937 Uncharacterized conser 50.9 22 0.00048 25.1 3.2 22 30-51 86-107 (108)
94 PTZ00108 DNA topoisomerase 2-l 50.9 26 0.00056 33.4 4.4 38 34-71 1102-1139(1388)
95 PF05615 THOC7: Tho complex su 50.8 61 0.0013 21.9 5.3 46 29-74 83-128 (139)
96 KOG3021 Predicted kinase [Gene 50.5 11 0.00025 30.6 1.9 22 23-44 163-184 (313)
97 cd00187 TOP4c DNA Topoisomeras 50.5 23 0.00049 29.4 3.7 24 34-57 405-428 (445)
98 PF13600 DUF4140: N-terminal d 50.4 28 0.0006 22.2 3.4 28 28-55 71-98 (104)
99 PF02575 YbaB_DNA_bd: YbaB/Ebf 50.2 19 0.00042 22.5 2.6 27 33-59 1-27 (93)
100 PF10805 DUF2730: Protein of u 49.5 28 0.00062 23.2 3.4 24 30-53 68-91 (106)
101 PTZ00419 valyl-tRNA synthetase 49.4 19 0.00041 32.0 3.3 29 28-56 923-951 (995)
102 cd00632 Prefoldin_beta Prefold 49.4 32 0.00069 22.4 3.6 19 34-52 77-95 (105)
103 PF05103 DivIVA: DivIVA protei 49.4 29 0.00064 22.5 3.4 25 31-55 29-53 (131)
104 TIGR01062 parC_Gneg DNA topois 48.9 35 0.00077 30.2 4.8 49 28-76 347-395 (735)
105 PF04880 NUDE_C: NUDE protein, 48.7 7.2 0.00016 28.8 0.5 29 29-57 26-54 (166)
106 PF14197 Cep57_CLD_2: Centroso 48.6 35 0.00077 21.6 3.6 21 33-53 46-66 (69)
107 PRK00888 ftsB cell division pr 48.5 37 0.00079 22.8 3.9 30 25-54 25-54 (105)
108 KOG4603 TBP-1 interacting prot 48.4 24 0.00052 27.3 3.3 26 30-55 89-114 (201)
109 cd07637 BAR_ACAP3 The Bin/Amph 48.1 23 0.0005 26.3 3.1 23 34-56 2-24 (200)
110 PRK14626 hypothetical protein; 48.1 25 0.00053 24.1 3.0 25 31-55 9-33 (110)
111 PF09849 DUF2076: Uncharacteri 48.1 24 0.00053 27.3 3.3 25 33-57 54-78 (247)
112 KOG4196 bZIP transcription fac 48.0 63 0.0014 23.7 5.2 41 29-69 76-117 (135)
113 PF05531 NPV_P10: Nucleopolyhe 47.8 30 0.00066 22.8 3.3 47 32-78 9-66 (75)
114 TIGR02338 gimC_beta prefoldin, 47.3 29 0.00062 22.9 3.2 20 36-55 69-88 (110)
115 PF04912 Dynamitin: Dynamitin 46.6 26 0.00056 27.7 3.3 24 30-53 90-113 (388)
116 PLN02381 valyl-tRNA synthetase 46.5 23 0.00049 32.3 3.3 30 27-56 990-1019(1066)
117 PF13747 DUF4164: Domain of un 46.4 54 0.0012 21.5 4.4 40 30-69 35-75 (89)
118 TIGR01837 PHA_granule_1 poly(h 46.4 26 0.00057 23.9 2.9 22 34-55 96-117 (118)
119 PF03357 Snf7: Snf7; InterPro 46.3 39 0.00085 22.5 3.7 26 30-55 11-36 (171)
120 PLN02678 seryl-tRNA synthetase 46.1 40 0.00086 28.1 4.5 44 32-81 76-119 (448)
121 COG3132 Uncharacterized protei 46.0 42 0.0009 26.2 4.3 24 32-55 190-213 (215)
122 cd03351 LbH_UDP-GlcNAc_AT UDP- 45.6 30 0.00064 25.4 3.3 43 30-72 207-249 (254)
123 COG2260 Predicted Zn-ribbon RN 45.3 29 0.00062 22.2 2.8 27 5-35 23-49 (59)
124 TIGR02209 ftsL_broad cell divi 45.3 55 0.0012 20.0 4.0 30 30-59 34-63 (85)
125 PF11853 DUF3373: Protein of u 45.1 21 0.00046 30.5 2.8 20 35-54 32-51 (489)
126 PF03885 DUF327: Protein of un 45.0 38 0.00083 23.6 3.7 29 24-52 95-123 (147)
127 smart00324 RhoGAP GTPase-activ 44.9 29 0.00063 23.3 3.0 24 58-81 55-78 (174)
128 PRK10636 putative ABC transpor 44.7 32 0.0007 28.9 3.8 24 33-56 562-585 (638)
129 PRK14623 hypothetical protein; 44.5 30 0.00066 23.7 3.0 24 32-55 6-29 (106)
130 KOG4787 Uncharacterized conser 44.4 28 0.00061 31.5 3.5 45 32-76 520-565 (852)
131 PF02609 Exonuc_VII_S: Exonucl 44.2 25 0.00054 20.7 2.3 43 30-72 6-48 (53)
132 PF09432 THP2: Tho complex sub 44.1 59 0.0013 23.7 4.6 45 28-72 79-125 (132)
133 PF04859 DUF641: Plant protein 44.1 37 0.00079 24.2 3.5 26 30-55 97-122 (131)
134 cd01107 HTH_BmrR Helix-Turn-He 43.8 33 0.00073 22.3 3.1 22 33-54 81-102 (108)
135 PRK00153 hypothetical protein; 43.7 27 0.00058 23.0 2.6 29 30-58 6-34 (104)
136 cd04775 HTH_Cfa-like Helix-Tur 43.6 42 0.00092 21.7 3.5 26 29-54 73-98 (102)
137 KOG3478 Prefoldin subunit 6, K 43.3 34 0.00074 24.6 3.2 22 32-53 81-102 (120)
138 PF08826 DMPK_coil: DMPK coile 43.3 38 0.00082 21.3 3.1 18 36-53 41-58 (61)
139 PF12709 Kinetocho_Slk19: Cent 43.1 39 0.00085 22.9 3.3 26 30-55 45-70 (87)
140 PF09006 Surfac_D-trimer: Lung 43.1 31 0.00068 21.1 2.6 31 36-69 1-31 (46)
141 PF14257 DUF4349: Domain of un 42.9 30 0.00066 25.5 3.0 23 34-56 162-184 (262)
142 PTZ00454 26S protease regulato 42.8 42 0.0009 27.1 4.0 19 36-54 45-63 (398)
143 TIGR00422 valS valyl-tRNA synt 42.8 29 0.00062 30.3 3.3 28 28-55 810-837 (861)
144 TIGR00219 mreC rod shape-deter 42.5 51 0.0011 25.4 4.3 50 28-77 67-117 (283)
145 COG3879 Uncharacterized protei 42.5 36 0.00078 26.8 3.5 26 29-54 59-84 (247)
146 PRK14629 hypothetical protein; 42.3 34 0.00075 23.2 3.0 26 32-57 8-33 (99)
147 PF07106 TBPIP: Tat binding pr 42.1 39 0.00085 23.5 3.3 25 31-55 113-137 (169)
148 TIGR02231 conserved hypothetic 41.8 47 0.001 27.0 4.2 36 35-70 72-107 (525)
149 PF04568 IATP: Mitochondrial A 41.5 47 0.001 22.7 3.6 18 38-55 80-97 (100)
150 PRK09343 prefoldin subunit bet 41.5 39 0.00084 23.0 3.2 20 36-55 73-92 (121)
151 KOG2077 JNK/SAPK-associated pr 41.4 31 0.00068 31.2 3.3 22 31-53 348-369 (832)
152 PF07061 Swi5: Swi5; InterPro 41.3 93 0.002 20.3 4.8 34 31-64 4-39 (83)
153 PRK14622 hypothetical protein; 41.2 42 0.00091 22.6 3.3 26 30-55 4-29 (103)
154 PRK05560 DNA gyrase subunit A; 40.9 65 0.0014 28.5 5.1 49 27-75 349-397 (805)
155 PRK00587 hypothetical protein; 40.9 38 0.00081 23.0 3.0 24 31-54 5-28 (99)
156 PF15070 GOLGA2L5: Putative go 40.6 60 0.0013 28.2 4.9 37 30-66 83-120 (617)
157 PF08898 DUF1843: Domain of un 40.6 33 0.00072 21.5 2.5 16 32-47 36-51 (53)
158 TIGR02047 CadR-PbrR Cd(II)/Pb( 40.3 47 0.001 22.3 3.4 27 30-56 82-108 (127)
159 PF06657 Cep57_MT_bd: Centroso 40.2 79 0.0017 20.3 4.3 44 32-75 15-71 (79)
160 PRK09039 hypothetical protein; 39.6 44 0.00096 26.4 3.6 28 30-57 140-167 (343)
161 PRK05561 DNA topoisomerase IV 39.6 66 0.0014 28.3 5.0 49 27-75 359-407 (742)
162 PF03087 DUF241: Arabidopsis p 39.5 53 0.0011 24.5 3.9 26 28-53 192-217 (231)
163 PRK14627 hypothetical protein; 39.4 41 0.00088 22.5 3.0 23 32-54 6-28 (100)
164 KOG2483 Upstream transcription 39.4 48 0.001 25.6 3.7 28 30-57 115-142 (232)
165 COG1382 GimC Prefoldin, chaper 39.1 56 0.0012 23.1 3.7 24 31-54 81-104 (119)
166 PRK14621 hypothetical protein; 38.8 42 0.00091 23.1 3.0 27 30-56 7-33 (111)
167 PF08537 NBP1: Fungal Nap bind 38.6 38 0.00082 27.7 3.2 23 32-54 180-202 (323)
168 PRK10227 DNA-binding transcrip 38.5 51 0.0011 22.7 3.4 27 29-55 81-107 (135)
169 TIGR01061 parC_Gpos DNA topois 38.5 68 0.0015 28.3 4.9 49 27-75 346-394 (738)
170 PF10066 DUF2304: Uncharacteri 38.5 42 0.00091 22.3 2.9 20 30-49 89-108 (115)
171 COG1792 MreC Cell shape-determ 38.4 57 0.0012 25.2 4.0 14 61-74 100-113 (284)
172 cd04789 HTH_Cfa Helix-Turn-Hel 38.3 58 0.0013 21.1 3.5 25 30-54 74-98 (102)
173 PF02370 M: M protein repeat; 38.2 62 0.0014 16.9 3.1 20 35-54 2-21 (21)
174 PF09278 MerR-DNA-bind: MerR, 38.0 68 0.0015 18.5 3.5 23 32-54 41-63 (65)
175 PF11464 Rbsn: Rabenosyn Rab b 38.0 53 0.0012 19.5 3.0 24 29-52 17-40 (42)
176 cd07596 BAR_SNX The Bin/Amphip 38.0 83 0.0018 21.3 4.4 20 35-54 146-165 (218)
177 cd01109 HTH_YyaN Helix-Turn-He 37.9 67 0.0015 20.8 3.8 24 31-54 83-106 (113)
178 cd04392 RhoGAP_ARHGAP19 RhoGAP 37.7 40 0.00086 24.6 2.9 24 59-82 61-84 (208)
179 PRK14127 cell division protein 37.7 56 0.0012 22.6 3.5 22 34-55 37-58 (109)
180 TIGR01063 gyrA DNA gyrase, A s 37.6 74 0.0016 28.1 5.0 49 27-75 346-394 (800)
181 PF12709 Kinetocho_Slk19: Cent 37.6 58 0.0013 22.0 3.5 23 30-52 52-74 (87)
182 PRK14625 hypothetical protein; 37.5 45 0.00097 23.0 3.0 24 31-54 6-29 (109)
183 PF07047 OPA3: Optic atrophy 3 37.5 52 0.0011 22.7 3.4 19 35-53 113-131 (134)
184 PRK05561 DNA topoisomerase IV 37.5 60 0.0013 28.6 4.4 43 34-76 437-484 (742)
185 COG4985 ABC-type phosphate tra 37.4 46 0.00099 27.0 3.4 26 29-54 216-241 (289)
186 PF03449 GreA_GreB_N: Transcri 37.2 79 0.0017 20.1 3.9 26 27-52 9-35 (74)
187 PF13815 Dzip-like_N: Iguana/D 37.2 49 0.0011 22.2 3.1 20 34-53 80-99 (118)
188 TIGR02338 gimC_beta prefoldin, 37.1 93 0.002 20.4 4.4 30 34-63 24-53 (110)
189 TIGR02044 CueR Cu(I)-responsiv 37.0 58 0.0012 21.7 3.4 27 30-56 82-108 (127)
190 PF14662 CCDC155: Coiled-coil 37.0 57 0.0012 24.9 3.8 26 28-53 82-107 (193)
191 COG2919 Septum formation initi 36.9 53 0.0011 22.2 3.3 25 32-56 62-86 (117)
192 cd04776 HTH_GnyR Helix-Turn-He 36.8 48 0.001 22.2 3.0 24 32-55 85-108 (118)
193 PF07412 Geminin: Geminin; In 36.5 72 0.0016 24.4 4.3 35 36-70 134-168 (200)
194 PF10211 Ax_dynein_light: Axon 36.2 61 0.0013 23.6 3.7 32 26-57 110-143 (189)
195 smart00434 TOP4c DNA Topoisome 36.1 35 0.00077 28.1 2.7 26 34-59 415-440 (445)
196 KOG4094 Uncharacterized conser 35.9 48 0.001 25.2 3.2 34 22-55 54-92 (178)
197 cd04770 HTH_HMRTR Helix-Turn-H 35.8 64 0.0014 21.1 3.4 23 32-54 84-106 (123)
198 PF14193 DUF4315: Domain of un 35.6 67 0.0015 21.2 3.5 35 37-71 18-58 (83)
199 COG0718 Uncharacterized protei 35.5 53 0.0012 22.7 3.1 28 31-58 9-36 (105)
200 PF04728 LPP: Lipoprotein leuc 35.4 77 0.0017 19.9 3.6 19 33-51 9-27 (56)
201 COG3599 DivIVA Cell division i 35.3 60 0.0013 24.7 3.6 27 30-56 40-66 (212)
202 PF07047 OPA3: Optic atrophy 3 35.3 69 0.0015 22.1 3.7 29 27-55 98-126 (134)
203 PF11855 DUF3375: Protein of u 35.2 46 0.00099 27.4 3.2 23 34-56 144-166 (478)
204 PRK13922 rod shape-determining 34.7 52 0.0011 24.4 3.2 22 35-56 70-91 (276)
205 PRK11637 AmiB activator; Provi 34.7 59 0.0013 25.8 3.7 19 35-53 97-115 (428)
206 PF08232 Striatin: Striatin fa 34.6 42 0.00091 23.4 2.5 25 35-59 26-50 (134)
207 PF05377 FlaC_arch: Flagella a 34.5 78 0.0017 19.8 3.5 24 32-55 12-35 (55)
208 PF04156 IncA: IncA protein; 34.2 49 0.0011 23.0 2.8 25 31-55 78-102 (191)
209 PRK10697 DNA-binding transcrip 34.1 67 0.0015 22.5 3.5 23 33-55 80-102 (118)
210 PF04111 APG6: Autophagy prote 34.1 69 0.0015 25.1 3.9 24 31-54 61-84 (314)
211 PF04201 TPD52: Tumour protein 34.1 68 0.0015 23.9 3.7 24 28-51 30-53 (162)
212 PF04380 BMFP: Membrane fusoge 34.1 71 0.0015 20.4 3.4 24 32-55 55-78 (79)
213 COG1722 XseB Exonuclease VII s 33.9 26 0.00057 23.0 1.4 38 35-72 22-59 (81)
214 cd00159 RhoGAP RhoGAP: GTPase- 33.9 55 0.0012 21.4 2.9 39 43-81 31-74 (169)
215 cd04769 HTH_MerR2 Helix-Turn-H 33.9 72 0.0016 20.9 3.5 27 30-56 82-108 (116)
216 COG2456 Uncharacterized conser 33.9 58 0.0012 23.5 3.2 23 29-51 88-110 (121)
217 COG1382 GimC Prefoldin, chaper 33.7 1E+02 0.0022 21.8 4.3 35 32-66 25-59 (119)
218 KOG0930 Guanine nucleotide exc 33.5 1.1E+02 0.0023 25.7 5.1 33 30-62 27-59 (395)
219 PHA03386 P10 fibrous body prot 33.5 72 0.0016 22.1 3.5 40 32-71 10-53 (94)
220 COG0525 ValS Valyl-tRNA synthe 33.4 44 0.00096 30.5 3.1 32 25-56 805-836 (877)
221 PRK13848 conjugal transfer pro 33.3 40 0.00086 23.5 2.2 18 38-55 7-24 (98)
222 PRK05771 V-type ATP synthase s 33.1 75 0.0016 26.7 4.2 28 28-55 216-243 (646)
223 PF03357 Snf7: Snf7; InterPro 33.1 85 0.0018 20.8 3.8 25 30-54 4-28 (171)
224 PF14735 HAUS4: HAUS augmin-li 32.4 79 0.0017 24.3 3.9 31 29-59 180-210 (238)
225 cd04373 RhoGAP_p190 RhoGAP_p19 32.4 47 0.001 23.6 2.5 24 58-81 67-90 (185)
226 PF13815 Dzip-like_N: Iguana/D 32.4 83 0.0018 21.0 3.6 19 34-52 94-112 (118)
227 cd01106 HTH_TipAL-Mta Helix-Tu 32.3 89 0.0019 19.9 3.6 19 36-54 75-93 (103)
228 PF15372 DUF4600: Domain of un 32.3 49 0.0011 23.8 2.6 25 33-57 13-38 (129)
229 PRK14900 valS valyl-tRNA synth 32.1 47 0.001 30.2 3.0 26 30-55 845-870 (1052)
230 PRK09039 hypothetical protein; 31.9 61 0.0013 25.7 3.3 22 34-55 137-158 (343)
231 cd04785 HTH_CadR-PbrR-like Hel 31.8 79 0.0017 21.1 3.4 24 32-55 84-107 (126)
232 TIGR00414 serS seryl-tRNA synt 31.6 1E+02 0.0023 24.9 4.7 44 32-81 74-117 (418)
233 PF05873 Mt_ATP-synt_D: ATP sy 31.5 63 0.0014 23.2 3.1 28 34-61 103-130 (161)
234 cd04772 HTH_TioE_rpt1 First He 31.2 50 0.0011 21.4 2.3 21 34-54 76-96 (99)
235 smart00150 SPEC Spectrin repea 31.2 1E+02 0.0023 17.7 3.6 33 24-56 28-60 (101)
236 PF08655 DASH_Ask1: DASH compl 31.2 38 0.00082 21.8 1.7 17 36-52 1-17 (66)
237 PF08618 Opi1: Transcription f 31.1 1.2E+02 0.0025 25.7 5.0 24 32-55 240-263 (427)
238 PRK05431 seryl-tRNA synthetase 30.9 64 0.0014 26.2 3.4 44 32-81 71-114 (425)
239 PF03980 Nnf1: Nnf1 ; InterPr 30.8 1E+02 0.0023 19.9 3.8 22 31-52 84-105 (109)
240 TIGR02894 DNA_bind_RsfA transc 30.8 70 0.0015 23.8 3.3 25 31-55 101-125 (161)
241 PRK14900 valS valyl-tRNA synth 30.8 51 0.0011 29.9 3.0 31 28-58 836-866 (1052)
242 PF02996 Prefoldin: Prefoldin 30.7 64 0.0014 20.6 2.8 19 35-53 78-96 (120)
243 PRK05771 V-type ATP synthase s 30.5 67 0.0014 27.0 3.5 19 35-53 101-119 (646)
244 PF00521 DNA_topoisoIV: DNA gy 30.5 1.2E+02 0.0027 24.4 4.9 47 29-75 314-360 (426)
245 PRK03762 hypothetical protein; 30.4 69 0.0015 21.8 3.0 25 30-54 8-32 (103)
246 PRK11239 hypothetical protein; 30.4 67 0.0015 25.0 3.2 24 32-55 188-211 (215)
247 PF05679 CHGN: Chondroitin N-a 30.3 76 0.0017 26.2 3.8 31 25-55 72-104 (499)
248 PRK03992 proteasome-activating 30.3 89 0.0019 24.7 4.0 29 30-58 25-53 (389)
249 PF09311 Rab5-bind: Rabaptin-l 30.2 17 0.00037 26.1 0.0 22 29-50 24-45 (181)
250 PRK14624 hypothetical protein; 29.9 70 0.0015 22.2 3.0 26 31-56 10-35 (115)
251 PF07028 DUF1319: Protein of u 29.9 83 0.0018 22.7 3.4 23 33-55 59-81 (126)
252 PF03195 DUF260: Protein of un 29.8 62 0.0014 21.8 2.7 18 36-53 80-97 (101)
253 cd04787 HTH_HMRTR_unk Helix-Tu 29.7 89 0.0019 21.0 3.4 25 30-54 82-106 (133)
254 PF14477 Mso1_C: Membrane-pola 29.6 16 0.00035 23.2 -0.2 26 8-34 2-27 (57)
255 PF13334 DUF4094: Domain of un 29.6 80 0.0017 21.1 3.2 29 23-51 61-90 (95)
256 PF09340 NuA4: Histone acetylt 29.6 85 0.0018 20.2 3.2 18 32-49 14-31 (80)
257 PF14265 DUF4355: Domain of un 29.6 1.1E+02 0.0024 20.1 3.8 35 31-65 46-80 (125)
258 TIGR02976 phageshock_pspB phag 29.4 73 0.0016 20.7 2.9 25 32-56 40-64 (75)
259 PF12795 MscS_porin: Mechanose 29.2 1.3E+02 0.0029 22.0 4.5 36 28-63 151-186 (240)
260 PF12761 End3: Actin cytoskele 29.2 63 0.0014 24.6 2.9 37 20-56 82-118 (195)
261 cd01108 HTH_CueR Helix-Turn-He 29.1 93 0.002 20.8 3.4 25 31-55 83-107 (127)
262 cd00089 HR1 Protein kinase C-r 29.0 95 0.0021 18.9 3.2 27 30-56 45-71 (72)
263 PF14357 DUF4404: Domain of un 28.8 91 0.002 20.2 3.2 33 39-71 2-35 (85)
264 PLN02320 seryl-tRNA synthetase 28.8 1.4E+02 0.003 25.6 5.1 44 32-81 135-178 (502)
265 PF14965 BRI3BP: Negative regu 28.8 48 0.001 25.1 2.2 20 30-49 155-174 (177)
266 PF01486 K-box: K-box region; 28.7 1.2E+02 0.0026 19.5 3.8 38 30-67 15-52 (100)
267 PF05064 Nsp1_C: Nsp1-like C-t 28.5 80 0.0017 21.3 3.0 42 34-78 64-105 (116)
268 PF10018 Med4: Vitamin-D-recep 28.5 96 0.0021 22.3 3.6 21 32-52 27-47 (188)
269 PRK13169 DNA replication intia 28.4 1E+02 0.0022 21.3 3.6 22 32-53 6-27 (110)
270 PF02344 Myc-LZ: Myc leucine z 28.4 1.2E+02 0.0027 17.3 3.7 27 29-55 3-29 (32)
271 KOG1003 Actin filament-coating 28.4 64 0.0014 25.1 2.8 20 34-53 4-23 (205)
272 cd01282 HTH_MerR-like_sg3 Heli 28.4 1E+02 0.0023 20.2 3.5 24 31-54 85-108 (112)
273 cd04389 RhoGAP_KIAA1688 RhoGAP 28.4 72 0.0016 22.8 3.0 25 58-82 72-96 (187)
274 COG3883 Uncharacterized protei 28.2 76 0.0016 25.2 3.3 18 35-52 74-91 (265)
275 PF08700 Vps51: Vps51/Vps67; 28.1 1.2E+02 0.0027 18.3 3.6 23 31-53 23-45 (87)
276 TIGR01242 26Sp45 26S proteasom 28.1 96 0.0021 23.8 3.8 26 31-56 17-42 (364)
277 cd04390 RhoGAP_ARHGAP22_24_25 28.1 71 0.0015 22.6 2.9 25 58-82 73-97 (199)
278 cd04383 RhoGAP_srGAP RhoGAP_sr 28.0 36 0.00077 24.3 1.3 22 61-82 74-95 (188)
279 PF12017 Tnp_P_element: Transp 27.9 1.4E+02 0.0031 22.8 4.7 23 32-54 16-38 (236)
280 PF00435 Spectrin: Spectrin re 27.8 1.3E+02 0.0028 17.3 4.3 32 23-54 30-61 (105)
281 PF10205 KLRAQ: Predicted coil 27.8 95 0.0021 21.5 3.3 17 37-53 57-73 (102)
282 PF06251 Caps_synth_GfcC: Caps 27.7 60 0.0013 23.7 2.5 28 51-78 86-116 (229)
283 COG1675 TFA1 Transcription ini 27.7 70 0.0015 23.8 2.8 23 35-57 150-172 (176)
284 KOG4571 Activating transcripti 27.6 1.5E+02 0.0033 24.0 4.9 32 23-56 224-263 (294)
285 TIGR00634 recN DNA repair prot 27.6 81 0.0018 26.1 3.5 24 36-59 184-207 (563)
286 COG1729 Uncharacterized protei 27.6 47 0.001 26.1 2.0 25 34-58 56-80 (262)
287 PF07303 Occludin_ELL: Occludi 27.6 1.8E+02 0.0039 19.4 4.6 26 30-55 25-50 (101)
288 cd04768 HTH_BmrR-like Helix-Tu 27.5 80 0.0017 20.2 2.8 21 36-56 75-95 (96)
289 PF11068 YlqD: YlqD protein; 27.5 1.2E+02 0.0026 21.4 3.9 26 30-55 23-48 (131)
290 cd04782 HTH_BltR Helix-Turn-He 27.5 80 0.0017 20.2 2.8 21 36-56 76-96 (97)
291 PRK11147 ABC transporter ATPas 27.4 84 0.0018 26.3 3.6 23 34-56 568-590 (635)
292 KOG2675 Adenylate cyclase-asso 27.4 69 0.0015 27.7 3.1 13 25-37 260-272 (480)
293 PF12737 Mating_C: C-terminal 27.3 1.6E+02 0.0035 24.6 5.1 38 13-50 381-418 (419)
294 PF11853 DUF3373: Protein of u 27.2 58 0.0012 27.9 2.6 24 34-58 25-48 (489)
295 PRK10803 tol-pal system protei 27.2 79 0.0017 24.0 3.1 18 33-50 60-77 (263)
296 PF11083 Streptin-Immun: Lanti 27.1 68 0.0015 22.3 2.5 18 35-52 53-70 (99)
297 PF04350 PilO: Pilus assembly 26.9 87 0.0019 20.3 2.9 40 29-68 18-57 (144)
298 cd04400 RhoGAP_fBEM3 RhoGAP_fB 26.9 75 0.0016 22.4 2.8 24 59-82 78-101 (190)
299 PRK13979 DNA topoisomerase IV 26.8 1.5E+02 0.0032 27.3 5.1 50 26-75 364-413 (957)
300 TIGR03689 pup_AAA proteasome A 26.8 89 0.0019 26.5 3.6 26 29-54 17-42 (512)
301 PF04576 Zein-binding: Zein-bi 26.6 54 0.0012 22.5 1.9 17 35-51 78-94 (94)
302 PRK10265 chaperone-modulator p 26.5 1.4E+02 0.003 19.6 3.8 18 33-50 77-94 (101)
303 PF02050 FliJ: Flagellar FliJ 26.4 1.4E+02 0.0031 17.9 3.7 21 32-52 57-77 (123)
304 COG4026 Uncharacterized protei 26.4 81 0.0017 25.5 3.2 19 36-54 172-190 (290)
305 PF12644 DUF3782: Protein of u 26.3 1.4E+02 0.0031 17.4 3.6 19 36-54 3-21 (64)
306 PF14817 HAUS5: HAUS augmin-li 26.3 95 0.0021 27.2 3.8 27 28-54 80-106 (632)
307 PF07439 DUF1515: Protein of u 26.3 1E+02 0.0022 21.9 3.4 30 33-62 7-36 (112)
308 cd04784 HTH_CadR-PbrR Helix-Tu 26.2 1.1E+02 0.0025 20.2 3.4 24 32-55 84-107 (127)
309 PF13864 Enkurin: Calmodulin-b 26.0 1.3E+02 0.0028 19.5 3.6 29 24-55 67-95 (98)
310 PF09726 Macoilin: Transmembra 26.0 95 0.0021 27.4 3.7 24 32-55 550-573 (697)
311 PF06005 DUF904: Protein of un 25.7 1.5E+02 0.0032 18.9 3.8 20 34-53 11-30 (72)
312 PF03234 CDC37_N: Cdc37 N term 25.4 1E+02 0.0022 22.8 3.3 27 30-56 134-160 (177)
313 PF13887 MRF_C1: Myelin gene r 25.3 85 0.0018 18.4 2.3 24 33-56 13-36 (36)
314 PF05008 V-SNARE: Vesicle tran 25.3 1.6E+02 0.0035 17.7 3.8 25 27-51 54-78 (79)
315 PF14584 DUF4446: Protein of u 25.3 1E+02 0.0022 22.1 3.2 29 30-58 49-77 (151)
316 TIGR03755 conj_TIGR03755 integ 25.2 85 0.0018 26.5 3.2 21 31-51 354-374 (418)
317 PF10779 XhlA: Haemolysin XhlA 25.1 1.3E+02 0.0028 18.5 3.3 29 31-59 3-31 (71)
318 PF15112 DUF4559: Domain of un 25.0 95 0.0021 25.3 3.4 39 37-75 225-271 (307)
319 PRK05289 UDP-N-acetylglucosami 24.9 99 0.0021 23.1 3.3 44 30-73 210-253 (262)
320 PF09388 SpoOE-like: Spo0E lik 24.9 90 0.0019 17.7 2.4 16 38-53 1-16 (45)
321 KOG1655 Protein involved in va 24.9 1.2E+02 0.0025 23.9 3.7 39 15-53 9-52 (218)
322 PF10393 Matrilin_ccoil: Trime 24.8 1.5E+02 0.0032 17.9 3.4 25 31-55 20-44 (47)
323 PRK09631 DNA topoisomerase IV 24.8 1.4E+02 0.003 26.3 4.5 51 27-77 316-377 (635)
324 PRK10884 SH3 domain-containing 24.7 1E+02 0.0022 23.1 3.3 24 33-56 92-115 (206)
325 COG4372 Uncharacterized protei 24.7 69 0.0015 27.7 2.6 26 35-60 260-285 (499)
326 KOG3251 Golgi SNAP receptor co 24.7 1.5E+02 0.0031 23.1 4.2 36 36-71 5-43 (213)
327 TIGR01061 parC_Gpos DNA topois 24.6 1.2E+02 0.0027 26.7 4.2 24 34-57 427-450 (738)
328 PF11414 Suppressor_APC: Adeno 24.5 87 0.0019 20.7 2.6 22 35-56 8-29 (84)
329 TIGR02231 conserved hypothetic 24.4 1.2E+02 0.0025 24.8 3.8 30 24-53 133-164 (525)
330 cd04783 HTH_MerR1 Helix-Turn-H 24.4 1.3E+02 0.0028 19.9 3.4 18 35-52 85-102 (126)
331 PF11336 DUF3138: Protein of u 24.1 83 0.0018 27.4 3.0 27 29-55 27-53 (514)
332 cd01878 HflX HflX subfamily. 24.1 1.2E+02 0.0027 20.5 3.4 20 35-54 7-26 (204)
333 KOG4807 F-actin binding protei 24.0 75 0.0016 27.8 2.7 34 33-66 518-552 (593)
334 PF06248 Zw10: Centromere/kine 24.0 1.8E+02 0.004 24.1 4.9 42 30-71 79-120 (593)
335 cd04379 RhoGAP_SYD1 RhoGAP_SYD 23.8 91 0.002 22.8 2.8 23 60-82 74-96 (207)
336 TIGR02043 ZntR Zn(II)-responsi 23.8 1.3E+02 0.0028 20.3 3.4 24 31-54 85-108 (131)
337 PF00261 Tropomyosin: Tropomyo 23.8 99 0.0021 22.8 3.0 20 34-53 197-216 (237)
338 PF01166 TSC22: TSC-22/dip/bun 23.7 83 0.0018 20.1 2.3 21 35-55 15-35 (59)
339 COG4026 Uncharacterized protei 23.6 1.2E+02 0.0027 24.5 3.7 22 34-55 156-177 (290)
340 KOG0554 Asparaginyl-tRNA synth 23.6 77 0.0017 27.2 2.7 24 25-48 218-241 (446)
341 PF12808 Mto2_bdg: Micro-tubul 23.6 1.3E+02 0.0028 18.5 3.0 21 33-53 28-48 (52)
342 PLN02708 Probable pectinestera 23.5 4.5E+02 0.0098 22.6 7.2 43 27-69 75-124 (553)
343 PF10359 Fmp27_WPPW: RNA pol I 23.5 1.4E+02 0.003 24.6 4.1 24 32-55 168-191 (475)
344 PRK10869 recombination and rep 23.3 1.2E+02 0.0025 25.5 3.7 23 36-58 180-202 (553)
345 KOG3863 bZIP transcription fac 23.2 1.5E+02 0.0032 26.3 4.3 27 29-55 506-532 (604)
346 KOG0977 Nuclear envelope prote 23.0 1.1E+02 0.0025 26.6 3.6 29 26-54 196-228 (546)
347 PF05300 DUF737: Protein of un 22.8 1.3E+02 0.0029 22.5 3.6 31 32-62 81-111 (187)
348 PF08838 DUF1811: Protein of u 22.8 1E+02 0.0022 21.5 2.7 26 36-61 9-34 (102)
349 PF14182 YgaB: YgaB-like prote 22.8 99 0.0021 20.8 2.6 24 33-56 39-62 (79)
350 PHA03395 p10 fibrous body prot 22.7 1.7E+02 0.0037 19.9 3.8 23 32-54 9-31 (87)
351 PF03962 Mnd1: Mnd1 family; I 22.7 1.5E+02 0.0033 21.6 3.8 24 31-54 73-96 (188)
352 PF12520 DUF3723: Protein of u 22.6 44 0.00095 28.0 1.1 18 23-40 50-67 (511)
353 cd04388 RhoGAP_p85 RhoGAP_p85: 22.6 28 0.00061 25.8 -0.0 55 25-81 32-88 (200)
354 cd04766 HTH_HspR Helix-Turn-He 22.6 1.4E+02 0.003 18.7 3.2 16 38-53 69-84 (91)
355 PF14257 DUF4349: Domain of un 22.5 1.3E+02 0.0028 22.2 3.4 26 31-56 166-191 (262)
356 PHA02562 46 endonuclease subun 22.5 98 0.0021 24.7 2.9 22 31-52 362-383 (562)
357 PRK10772 cell division protein 22.4 1.6E+02 0.0034 20.4 3.6 25 29-53 47-71 (108)
358 PF05700 BCAS2: Breast carcino 22.4 1.3E+02 0.0028 22.2 3.4 25 31-55 193-217 (221)
359 PF12107 VEK-30: Plasminogen ( 22.1 78 0.0017 15.9 1.5 9 34-42 3-11 (17)
360 PF10224 DUF2205: Predicted co 22.0 1.8E+02 0.0039 19.1 3.7 17 36-52 18-34 (80)
361 PF00633 HHH: Helix-hairpin-he 21.9 49 0.0011 17.8 0.9 22 40-61 3-24 (30)
362 cd04788 HTH_NolA-AlbR Helix-Tu 21.8 1.1E+02 0.0025 19.4 2.7 21 36-56 75-95 (96)
363 PRK13729 conjugal transfer pil 21.7 1.2E+02 0.0025 26.1 3.4 17 35-51 77-93 (475)
364 PHA03158 hypothetical protein; 21.7 56 0.0012 26.0 1.5 15 42-56 255-269 (273)
365 PF12443 AKNA: AT-hook-contain 21.7 1E+02 0.0022 21.6 2.6 25 30-54 48-72 (106)
366 PF11471 Sugarporin_N: Maltopo 21.7 1.5E+02 0.0034 18.3 3.2 23 32-54 30-52 (60)
367 TIGR01063 gyrA DNA gyrase, A s 21.7 1.2E+02 0.0026 26.9 3.5 28 34-61 427-454 (800)
368 PF06667 PspB: Phage shock pro 21.6 1.2E+02 0.0027 19.7 2.9 24 33-56 41-64 (75)
369 PF12958 DUF3847: Protein of u 21.6 1.5E+02 0.0032 19.9 3.2 20 35-54 16-35 (86)
370 PF05190 MutS_IV: MutS family 21.5 1.5E+02 0.0033 17.6 3.1 18 35-52 5-22 (92)
371 PF08172 CASP_C: CASP C termin 21.5 1.2E+02 0.0026 23.3 3.2 24 32-55 98-121 (248)
372 PRK05560 DNA gyrase subunit A; 21.5 84 0.0018 27.8 2.6 25 34-58 430-454 (805)
373 cd04790 HTH_Cfa-like_unk Helix 21.5 1.5E+02 0.0032 21.1 3.4 24 32-55 79-102 (172)
374 PF07544 Med9: RNA polymerase 21.5 1.6E+02 0.0035 18.8 3.3 8 29-36 34-41 (83)
375 PF05597 Phasin: Poly(hydroxya 21.5 1.2E+02 0.0025 21.5 2.9 22 34-55 109-130 (132)
376 cd04376 RhoGAP_ARHGAP6 RhoGAP_ 21.5 1.1E+02 0.0024 22.2 2.9 24 59-82 61-84 (206)
377 PF02181 FH2: Formin Homology 21.4 2.1E+02 0.0046 21.8 4.5 24 32-55 279-302 (370)
378 PF14335 DUF4391: Domain of un 21.3 1.5E+02 0.0034 21.6 3.6 27 25-51 173-199 (221)
379 PF01420 Methylase_S: Type I r 21.2 2E+02 0.0044 18.0 3.8 30 25-54 137-166 (167)
380 PF09059 TyeA: TyeA; InterPro 21.1 41 0.0009 22.4 0.5 35 34-69 33-79 (87)
381 cd04380 RhoGAP_OCRL1 RhoGAP_OC 21.1 50 0.0011 24.0 1.0 40 42-81 84-126 (220)
382 PF12017 Tnp_P_element: Transp 21.0 1.4E+02 0.0031 22.8 3.5 28 28-55 19-46 (236)
383 cd04385 RhoGAP_ARAP RhoGAP_ARA 21.0 53 0.0011 23.2 1.1 24 58-81 68-91 (184)
384 cd04786 HTH_MerR-like_sg7 Heli 20.9 2.5E+02 0.0053 19.2 4.4 41 30-70 81-127 (131)
385 KOG4378 Nuclear protein COP1 [ 20.9 1E+02 0.0023 27.5 3.0 20 34-53 650-669 (673)
386 PRK09343 prefoldin subunit bet 20.8 2.5E+02 0.0054 19.0 4.4 29 34-62 28-56 (121)
387 PF07996 T4SS: Type IV secreti 20.7 1.8E+02 0.004 20.2 3.8 29 32-60 24-52 (195)
388 PF11336 DUF3138: Protein of u 20.7 1.3E+02 0.0027 26.3 3.4 24 33-56 24-47 (514)
389 PF04156 IncA: IncA protein; 20.7 3E+02 0.0065 19.0 5.1 20 34-53 95-114 (191)
390 PF05928 Zea_mays_MuDR: Zea ma 20.6 1.8E+02 0.0039 22.5 4.0 30 42-71 106-136 (207)
391 PF04340 DUF484: Protein of un 20.5 1.5E+02 0.0033 21.4 3.4 18 36-53 49-66 (225)
392 PF07352 Phage_Mu_Gam: Bacteri 20.5 1.4E+02 0.0029 20.6 3.0 16 34-49 39-54 (149)
393 PF02183 HALZ: Homeobox associ 20.5 1.8E+02 0.0038 17.1 3.1 21 33-53 18-38 (45)
394 COG4985 ABC-type phosphate tra 20.4 1.3E+02 0.0028 24.4 3.3 25 28-52 222-246 (289)
395 PF11221 Med21: Subunit 21 of 20.3 1.6E+02 0.0034 20.4 3.4 22 31-52 101-122 (144)
396 PF11598 COMP: Cartilage oligo 20.3 2E+02 0.0043 17.2 3.4 22 31-52 5-26 (45)
397 PRK11546 zraP zinc resistance 20.3 1.4E+02 0.0031 21.6 3.2 21 33-53 88-108 (143)
398 COG3771 Predicted membrane pro 20.3 1.1E+02 0.0023 21.4 2.4 27 31-57 66-92 (97)
399 TIGR01461 greB transcription e 20.3 98 0.0021 22.0 2.3 19 38-56 56-74 (156)
400 PF04423 Rad50_zn_hook: Rad50 20.2 1.9E+02 0.004 16.7 3.2 25 26-51 30-54 (54)
401 PRK11530 hypothetical protein; 20.2 1.1E+02 0.0024 23.4 2.7 19 35-53 25-43 (183)
402 TIGR02978 phageshock_pspC phag 20.1 1.6E+02 0.0035 20.5 3.4 24 33-56 83-106 (121)
403 PRK01885 greB transcription el 20.1 1.7E+02 0.0036 20.8 3.5 28 25-52 8-36 (157)
404 PF09032 Siah-Interact_N: Siah 20.1 1.1E+02 0.0025 20.0 2.5 18 38-55 30-47 (79)
405 COG3750 Uncharacterized protei 20.0 1.3E+02 0.0029 20.5 2.8 20 34-53 21-40 (85)
406 PF15619 Lebercilin: Ciliary p 20.0 1.7E+02 0.0037 21.6 3.7 25 31-55 168-192 (194)
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=99.32 E-value=8e-13 Score=82.24 Aligned_cols=47 Identities=34% Similarity=0.549 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCCCCCccc
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
++++.+|.+||.+|++||+. +++ ++|.||++|++|+++.+|||||..
T Consensus 1 ~~~~~~l~~ei~~L~~el~~-~r~-~vS~a~~~li~y~~~~~DPll~~~ 47 (68)
T PF00631_consen 1 KQEKDQLKREIEQLRQELER-ERI-KVSKACKELIEYCESTPDPLLPGP 47 (68)
T ss_dssp -THHHHHHHHHHHHHHHHTS------HHHHHHHHHHHHHGTC-HHHHT-
T ss_pred ChHHHHHHHHHHHHHHHHcc-cce-eHHHHHHHHHHHhcCCCCceeCCC
Confidence 35788999999999999999 999 999999999999999999999975
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=97.56 E-value=0.00013 Score=44.61 Aligned_cols=42 Identities=26% Similarity=0.375 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccC--CCCCCcc
Q 038668 37 QVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAK--PDPLVAM 80 (83)
Q Consensus 37 ~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~--pDPLLP~ 80 (83)
+.+.+++.+|+.||.- + --++|.+|.+++.|++.. .||||+-
T Consensus 2 ~~~~~~veqLr~el~~-~-RikvS~a~~~l~~y~e~~~~~Dpll~g 45 (57)
T cd00068 2 DQLKKEVEQLRKELSR-E-RLKVSKAAAELLKYCEQNAENDPLLTG 45 (57)
T ss_pred HHHHHHHHHHHHHHCC-c-hhhHHHHHHHHHHHHHhcCCCCCCCCC
Confidence 4677888899988874 3 568999999999999999 9999974
No 3
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=96.81 E-value=0.0022 Score=39.87 Aligned_cols=41 Identities=29% Similarity=0.438 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhc--cCCCCCCc
Q 038668 37 QVLEREIGLLQEELKSVEDVQPASICCKEVDDFVG--AKPDPLVA 79 (83)
Q Consensus 37 ~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve--s~pDPLLP 79 (83)
+.+.+++.+|+.||+- + --++|.+|.+++.|++ ..-||||.
T Consensus 2 ~~~~~~ve~Lr~el~~-~-RikvS~a~~~li~y~e~~~~~DP~l~ 44 (63)
T smart00224 2 DQLRKEVEQLRKELSR-E-RIKVSKAAEELLAYCEQHAEEDPLLT 44 (63)
T ss_pred hHHHHHHHHHHHHHCC-c-eehHHHHHHHHHHHHHcCCCCCCCcC
Confidence 5678899999999875 3 5689999999999999 66788884
No 4
>KOG4119 consensus G protein gamma subunit [Signal transduction mechanisms]
Probab=95.82 E-value=0.016 Score=37.96 Aligned_cols=44 Identities=23% Similarity=0.355 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCC--CCCCc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKP--DPLVA 79 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~p--DPLLP 79 (83)
.++.++..++..|..|+. +| -.++|.+|+|+.+|+|... |||+-
T Consensus 7 ~~~~q~k~~VeqLk~e~~-~~-R~~vS~a~~el~~y~E~~~~~DpLl~ 52 (71)
T KOG4119|consen 7 SKKPQMKKEVEQLKLEAN-IE-RIKVSKAAAELLEYCETHATEDPLLE 52 (71)
T ss_pred cchHHHHHHHHHHHHHHH-hh-HhhHHHHHHHHHHHHHhcCccCcccc
Confidence 345667777777777775 33 6789999999999999988 99973
No 5
>PRK14011 prefoldin subunit alpha; Provisional
Probab=94.55 E-value=0.065 Score=38.29 Aligned_cols=53 Identities=19% Similarity=0.263 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCCCCCcccC
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPDPLVAMYD 82 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t~ 82 (83)
..++.+|+.+.+||..|+.+|..|.....=-..|+|.+..+....+=|+|.+-
T Consensus 6 q~~~~~l~~~~~qie~L~~si~~L~~a~~e~~~~ie~L~~l~~~~eiLVPLg~ 58 (144)
T PRK14011 6 QNQFMALEVYNQQVQKLQEELSSIDMMKMELLKSIESMEGLKTSEEILIPLGP 58 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCeEEEEcCC
Confidence 35778999999999999999999998877778899999988888888888763
No 6
>PRK01203 prefoldin subunit alpha; Provisional
Probab=91.88 E-value=0.29 Score=34.87 Aligned_cols=51 Identities=8% Similarity=0.033 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhc--cCCCCCCccc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVG--AKPDPLVAMY 81 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve--s~pDPLLP~t 81 (83)
-.-++++.|++||..|+++|+.|.....=-..|+|.+.... ...+=|+|.|
T Consensus 4 ~~~~~~~~~~~q~e~l~~ql~~L~~a~se~~~~ie~L~~~~~~~~~eiLVPLg 56 (130)
T PRK01203 4 DVEAQLNYIESLISSVDSQIDSLNKTLSEVQQTISFLSDNELDNSKELLISIG 56 (130)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCeEEEEcc
Confidence 45689999999999999999999887776677888887764 4556677765
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=90.62 E-value=0.53 Score=31.19 Aligned_cols=50 Identities=14% Similarity=0.195 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccC--CCCCCccc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAK--PDPLVAMY 81 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~--pDPLLP~t 81 (83)
+++.+++|.+++..|+..+.+|+..-+--..+++++.++..+ .+=|+|.+
T Consensus 4 l~~q~~ql~~~i~~l~~~i~~l~~~i~e~~~~~~~L~~l~~~~~~~~lv~lg 55 (126)
T TIGR00293 4 LAAELQILQQQVESLQAQIAALRALIAELETAIETLEDLKGAEGKETLVPVG 55 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCeEEEEcC
Confidence 567788888888888888888888888778889999999876 22355553
No 8
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=88.59 E-value=1.2 Score=30.20 Aligned_cols=44 Identities=20% Similarity=0.222 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccC
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAK 73 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~ 73 (83)
..+++.++.|.++|..|+..+..|+..-+--..+++.+.++...
T Consensus 9 ~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~e~l~~l~~~ 52 (140)
T PRK03947 9 EELAAQLQALQAQIEALQQQLEELQASINELDTAKETLEELKSK 52 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 35677888999999999999999998888888899999998853
No 9
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=88.54 E-value=0.92 Score=32.72 Aligned_cols=51 Identities=16% Similarity=0.207 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCC---CCCCcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKP---DPLVAM 80 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~p---DPLLP~ 80 (83)
.++.++++.|+++|..|+-++..|+-.-.-=+.|++-++++.+.. -=|+|+
T Consensus 9 e~l~a~lq~l~~qie~L~~~i~~l~~~~~e~~~~~~tl~~lk~~~~g~E~LVpv 62 (145)
T COG1730 9 EELAAQLQILQSQIESLQAQIAALNAAISELQTAIETLENLKGAGEGKEVLVPV 62 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEc
Confidence 468899999999999999999999988888888999999988766 345554
No 10
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=87.76 E-value=2.1 Score=28.02 Aligned_cols=49 Identities=18% Similarity=0.182 Sum_probs=38.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCCC
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPDP 76 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDP 76 (83)
-+....++|..|..+|..|+.+...++..=.-...|++++..|-...+-
T Consensus 75 ~~~~k~~ei~~l~~~l~~l~~~~~k~e~~l~~~~~Y~~fL~~v~~~~~e 123 (126)
T PF13863_consen 75 KKEEKEAEIKKLKAELEELKSEISKLEEKLEEYKKYEEFLEKVVPKSPE 123 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccC
Confidence 3455677888888888888888888887777777899999888766654
No 11
>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=87.55 E-value=1.2 Score=31.10 Aligned_cols=39 Identities=26% Similarity=0.269 Sum_probs=33.4
Q ss_pred CCCCcchhHHHHHHHHHHHHHHHHHHHHHHhhhhccchh
Q 038668 21 AAALDLYGKRRQMVKVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 21 ~g~~D~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
.+.+..----|+++.|.++|-|+..|++||..|+.....
T Consensus 10 ~~~~~~~~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~ 48 (120)
T PF12325_consen 10 SGGPSVQLVERLQSQLRRLEGELASLQEELARLEAERDE 48 (120)
T ss_pred cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346677778899999999999999999999999876543
No 12
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=86.76 E-value=1.3 Score=26.33 Aligned_cols=26 Identities=23% Similarity=0.432 Sum_probs=21.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~L 53 (83)
...|...+++++++++.-+|.|+++|
T Consensus 42 ~~~~~r~~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 42 SRLRLRRRIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34677788999999999999998875
No 13
>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=83.62 E-value=1.8 Score=26.52 Aligned_cols=24 Identities=25% Similarity=0.482 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+.+++.+|+.++.-++.++..+++
T Consensus 2 ~~~E~~rL~Kel~kl~~~i~~~~~ 25 (66)
T PF10458_consen 2 VEAEIERLEKELEKLEKEIERLEK 25 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357888999999999988888775
No 14
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=82.48 E-value=1.5 Score=27.38 Aligned_cols=28 Identities=29% Similarity=0.323 Sum_probs=17.4
Q ss_pred cccCCCCCCCCCCCCCCCCCcchhHHHHHHHH
Q 038668 5 CRSSLVESPMGPRSPPAAALDLYGKRRQMVKV 36 (83)
Q Consensus 5 ~~sS~~~~~p~pksPp~g~~D~~GkhR~~ael 36 (83)
||+...-+.|.+=| +-|.+||+|+..+-
T Consensus 23 CG~~t~~~~P~rfS----p~D~y~~yR~~~kk 50 (56)
T PRK13130 23 CGGKTKNPHPPRFS----PEDKYGKYRRALKK 50 (56)
T ss_pred CCCCCCCCCCCCCC----CCCccHHHHHHHHH
Confidence 55544444444333 34999999997763
No 15
>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=81.64 E-value=4 Score=24.01 Aligned_cols=28 Identities=25% Similarity=0.385 Sum_probs=20.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+.|.|....+..|++++.+|+.|...|.
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 3456667777788888888887777774
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=81.60 E-value=2.6 Score=27.89 Aligned_cols=25 Identities=24% Similarity=0.230 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
|-++-+-.+|.+||+-||.||+++-
T Consensus 3 ~ei~eEn~~Lk~eiqkle~ELq~~~ 27 (76)
T PF07334_consen 3 HEIQEENARLKEEIQKLEAELQQNK 27 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678888999999999999998753
No 17
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=80.29 E-value=4.3 Score=26.57 Aligned_cols=26 Identities=19% Similarity=0.381 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
-.-+.++|..||-||..||..+.+|-
T Consensus 56 ~keLL~EIA~lE~eV~~LE~~v~~L~ 81 (88)
T PF14389_consen 56 AKELLEEIALLEAEVAKLEQKVLSLY 81 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35688999999999999999988874
No 18
>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=77.26 E-value=6 Score=26.22 Aligned_cols=42 Identities=26% Similarity=0.290 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhcc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGA 72 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 72 (83)
-+.+.+++|.++|..|+.++..|...-.--..+++.+..+..
T Consensus 3 ~l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~ 44 (129)
T cd00584 3 QLAAQLQVLQQEIEELQQELARLNEAIAEYEQAKETLETLKK 44 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 356778888888888888888888877777778888888864
No 19
>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=77.15 E-value=6.1 Score=28.91 Aligned_cols=38 Identities=18% Similarity=0.336 Sum_probs=32.6
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhh
Q 038668 24 LDLYGKRRQMVKVQVLEREIGLLQEELKSVEDVQPASI 61 (83)
Q Consensus 24 ~D~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~ 61 (83)
.+...|..++++++.|+.++..|+.||+.+...+|...
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 34578889999999999999999999998887777654
No 20
>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=76.08 E-value=5.3 Score=23.46 Aligned_cols=24 Identities=33% Similarity=0.361 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
-+..+|+.|+.+...|+.++..|+
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 356778889999999998888876
No 21
>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=74.29 E-value=6.1 Score=23.56 Aligned_cols=21 Identities=24% Similarity=0.395 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 038668 33 MVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~L 53 (83)
+.+++.|.+|+..|++|++.|
T Consensus 30 ~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 30 QKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 334444444455555555555
No 22
>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=74.28 E-value=6.8 Score=23.35 Aligned_cols=28 Identities=18% Similarity=0.243 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-..++..+++.|+++|.-|++|.++|+.
T Consensus 18 ~~~~~~~ei~~l~~~i~~l~~e~~~L~~ 45 (80)
T PF04977_consen 18 RYYQLNQEIAELQKEIEELKKENEELKE 45 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677888888888888888887753
No 23
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=74.24 E-value=5.3 Score=29.70 Aligned_cols=45 Identities=16% Similarity=0.144 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCC
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPD 75 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 75 (83)
-+-+=.++++||+.||++-|..|-|.+---+.|++-+.-|..+++
T Consensus 17 QL~~lk~q~dqEl~~lq~Sl~~L~~aq~k~~~~~~aln~~~~~~e 61 (153)
T KOG3048|consen 17 QLGALKKQFDQELNFLQDSLNALKGAQTKYEESIAALNDVQAANE 61 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCC
Confidence 344556889999999999999999999888889988887766654
No 24
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=73.36 E-value=6.8 Score=29.09 Aligned_cols=49 Identities=14% Similarity=0.137 Sum_probs=37.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCC
Q 038668 26 LYGKRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKP 74 (83)
Q Consensus 26 ~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~p 74 (83)
+.....+.+|.++|.+|+..|+.++.+++.+..-..--++++.+....+
T Consensus 68 ~~~~~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~~~~~~ 116 (276)
T PRK13922 68 LASLFDLREENEELKKELLELESRLQELEQLEAENARLRELLNLKESLD 116 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccCC
Confidence 3456677888888999988888888888777777777788877765544
No 25
>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=72.52 E-value=8.9 Score=23.41 Aligned_cols=32 Identities=19% Similarity=0.282 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhccchhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVEDVQPAS 60 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS 60 (83)
+.+...+|..-++.|.+|+++|+.+......+
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 26
>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=71.92 E-value=4.8 Score=25.09 Aligned_cols=24 Identities=33% Similarity=0.602 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+.+.+|.+|+++++.|.+.|++++
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 566778888888888888887776
No 27
>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=71.63 E-value=15 Score=23.75 Aligned_cols=44 Identities=18% Similarity=0.216 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCC
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPD 75 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 75 (83)
+.+.++.|+++|..|+..+..|+....--..+++.+..+....+
T Consensus 4 l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~ 47 (129)
T cd00890 4 LAAQLQQLQQQLEALQQQLQKLEAQLTEYEKAKETLETLKKAEE 47 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Confidence 45667777777777777777777666666667777777764433
No 28
>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=70.80 E-value=1.4 Score=29.67 Aligned_cols=23 Identities=35% Similarity=0.358 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~ 52 (83)
-++..+++.||++|.+|+-||..
T Consensus 9 ~~laK~~~~LE~~l~~l~~el~~ 31 (118)
T PF08286_consen 9 FRLAKELSDLESELESLQSELEE 31 (118)
T ss_dssp -----------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555444433
No 29
>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=70.37 E-value=3.3 Score=30.88 Aligned_cols=24 Identities=33% Similarity=0.558 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHhhhhccchh
Q 038668 36 VQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
|++||+.+..|++||++|..-.+.
T Consensus 1 I~~LE~~~~~l~~e~~~Lk~~p~~ 24 (176)
T PF10737_consen 1 IQRLEQRLQELQQELEELKQQPPT 24 (176)
T ss_pred ChHHHHHHHHHHHHHHHHHhCCCC
Confidence 468999999999999988765433
No 30
>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=70.28 E-value=11 Score=22.62 Aligned_cols=26 Identities=19% Similarity=0.359 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+.|....++.|+.++..|+.|...|.
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 56677778888888888877777665
No 31
>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=70.09 E-value=6.4 Score=29.38 Aligned_cols=34 Identities=26% Similarity=0.460 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHh
Q 038668 37 QVLEREIGLLQEELKSVEDVQPASICCKEVDDFV 70 (83)
Q Consensus 37 ~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~V 70 (83)
+.|+.||.-|+.|++.||+++.-+..-+.=..++
T Consensus 123 ~eL~~eI~~L~~~i~~le~~~~~~k~LrnKa~~L 156 (171)
T PF04799_consen 123 NELEDEIKQLEKEIQRLEEIQSKSKTLRNKANWL 156 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5689999999999999999998888766444333
No 32
>PF14282 FlxA: FlxA-like protein
Probab=68.77 E-value=6.2 Score=26.39 Aligned_cols=23 Identities=26% Similarity=0.476 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhc
Q 038668 33 MVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
...|..|+++|.-|+++|++|..
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~ 40 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQ 40 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc
Confidence 66799999999999999999976
No 33
>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=68.55 E-value=6.1 Score=31.39 Aligned_cols=27 Identities=26% Similarity=0.379 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccchh
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
+++.+.||.-|.-||.||+.||+-..+
T Consensus 9 EqKtR~LEesI~RLEkEIe~LE~~es~ 35 (278)
T PF03285_consen 9 EQKTRSLEESIHRLEKEIEALENGESQ 35 (278)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCCcc
Confidence 466777888888888888888875443
No 34
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.75 E-value=8.3 Score=32.70 Aligned_cols=37 Identities=16% Similarity=0.204 Sum_probs=29.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHH
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKE 65 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkE 65 (83)
.+-|-++...+.|.++|.||++|++.... .+-.|||+
T Consensus 233 ~~V~~L~~~~~~L~kqie~L~qeie~~~~--~~r~~~k~ 269 (439)
T KOG2911|consen 233 GSVADLIQARAKLAKQIEFLEQEIEKSKE--KLRQALKE 269 (439)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHh
Confidence 56788888899999999999999998753 33366665
No 35
>KOG4529 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.29 E-value=7.2 Score=32.75 Aligned_cols=39 Identities=28% Similarity=0.432 Sum_probs=28.2
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHH-----------------------HHHhhhhccchhhhhhH
Q 038668 23 ALDLYGKRRQMVKVQVLEREIGLLQ-----------------------EELKSVEDVQPASICCK 64 (83)
Q Consensus 23 ~~D~~GkhR~~ael~~LeqEi~fLe-----------------------eEL~~LE~~~~aS~~Ck 64 (83)
+.++-|++|+ ..+|++|++||+ +|+++||++--++++||
T Consensus 31 f~~le~~~kl---~r~l~~ELkfLqkv~~~~~e~hl~S~N~~hy~sii~~~e~le~vt~Vl~vfk 92 (404)
T KOG4529|consen 31 FITLEGRRKL---LRKLSSELKFLQKVSSKDKEPHLLSVNIGHYESIIREIEQLESVTGVLRVFK 92 (404)
T ss_pred hcCCccHHHH---HHHHHHHHHHHHHHHhccccccceeechHHHHHHHHHHHhhhhhHHHHHhhc
Confidence 4677888888 566778888887 45666666666677665
No 36
>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=66.65 E-value=12 Score=22.95 Aligned_cols=23 Identities=30% Similarity=0.355 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~L 53 (83)
....+++.+++++..+++|-++|
T Consensus 28 ~~~~~~~~~~~~~~~l~~en~~L 50 (85)
T TIGR02209 28 QLNNELQKLQLEIDKLQKEWRDL 50 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555444444
No 37
>PRK02793 phi X174 lysis protein; Provisional
Probab=66.58 E-value=11 Score=24.00 Aligned_cols=25 Identities=24% Similarity=0.381 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+.+.+|.+|.++++.|-+.|++++.
T Consensus 33 ~Qq~~I~~L~~~l~~L~~rl~~~~~ 57 (72)
T PRK02793 33 AHEMEMAKLRDHLRLLTEKLKASQP 57 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4455666666777777666666553
No 38
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=66.24 E-value=8.1 Score=25.75 Aligned_cols=31 Identities=16% Similarity=0.175 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccchhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDVQPASI 61 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~ 61 (83)
....++.+|+++++-|+.|.+-|.+.-...+
T Consensus 75 ~~~~ei~~L~~el~~L~~E~diLKKa~~~~~ 105 (121)
T PRK09413 75 AAMKQIKELQRLLGKKTMENELLKEAVEYGR 105 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3567788899999888888887766554443
No 39
>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=65.98 E-value=21 Score=24.91 Aligned_cols=33 Identities=18% Similarity=0.213 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhccchhhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVEDVQPASI 61 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~ 61 (83)
...++.++..|+++++.|+.||..|.......-
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 455677778888888888888888887765543
No 40
>PRK14127 cell division protein GpsB; Provisional
Probab=65.76 E-value=9.8 Score=26.35 Aligned_cols=27 Identities=11% Similarity=0.168 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~~ 57 (83)
++..++..|..|+..|+++|.+++.--
T Consensus 41 ~l~~e~~~Lk~e~~~l~~~l~e~~~~~ 67 (109)
T PRK14127 41 AFQKEIEELQQENARLKAQVDELTKQV 67 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 455677778888888888887777643
No 41
>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=65.29 E-value=15 Score=27.81 Aligned_cols=41 Identities=17% Similarity=0.229 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcc-chhhhhhHHHHHHhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDV-QPASICCKEVDDFVG 71 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~-~~aS~~CkEv~~~Ve 71 (83)
.++|.|++.+=.+..|++.|++-..= +.-.+.|-||+.-|+
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 36788888888888888888776543 667788999998775
No 42
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=65.06 E-value=8 Score=25.25 Aligned_cols=22 Identities=36% Similarity=0.560 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhhc
Q 038668 34 VKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.-|..|++-|..|++|++.|+-
T Consensus 25 lsV~El~eRIalLq~EIeRlkA 46 (65)
T COG5509 25 LSVAELEERIALLQAEIERLKA 46 (65)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 3467788888888888887763
No 43
>PRK00846 hypothetical protein; Provisional
Probab=65.05 E-value=12 Score=24.60 Aligned_cols=25 Identities=20% Similarity=0.081 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+.+..|.+|.++++.|-+.|++++.
T Consensus 38 ~qq~~I~~L~~ql~~L~~rL~~~~~ 62 (77)
T PRK00846 38 DARLTGARNAELIRHLLEDLGKVRS 62 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4555666677777777766666653
No 44
>PLN03128 DNA topoisomerase 2; Provisional
Probab=64.93 E-value=11 Score=34.78 Aligned_cols=39 Identities=26% Similarity=0.372 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhcc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGA 72 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 72 (83)
.++.+|.+|+.-+++||+.|+++.+..--.+||..|.+.
T Consensus 1095 e~~~kL~~e~~~~~~ei~~l~~~t~~~~w~~DLd~~~~~ 1133 (1135)
T PLN03128 1095 EKVDELRAERAKKETEVEELKKTTPEDLWRKDLDAFEEA 1133 (1135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence 488999999999999999999999999999999998764
No 45
>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=64.34 E-value=15 Score=24.52 Aligned_cols=40 Identities=18% Similarity=0.216 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhhhh-hHHHHHHhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPASIC-CKEVDDFVG 71 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~-CkEv~~~Ve 71 (83)
++.+++.++++|.-++..++.||.-.+.+.. |+++-.-|.
T Consensus 6 ~~~~~~~~~~ki~~ve~~V~~l~~~~~i~~~q~~~i~~~v~ 46 (116)
T PF10552_consen 6 LMQATEEHNEKIEEVENRVDDLEENMPIDPGQQKEIQKAVK 46 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence 4567889999999999999999776666554 777665543
No 46
>PF14916 CCDC92: Coiled-coil domain of unknown function
Probab=64.33 E-value=7.4 Score=24.71 Aligned_cols=34 Identities=26% Similarity=0.316 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHhh-hhccch----hhhhhHHH
Q 038668 33 MVKVQVLEREIGLLQEELKS-VEDVQP----ASICCKEV 66 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~-LE~~~~----aS~~CkEv 66 (83)
...|+.+|+-|.|||+|=.. |.|++. --+-|+|+
T Consensus 2 ~~qv~s~e~~i~FLq~eH~~tL~~LH~EIe~Lq~~~~dL 40 (60)
T PF14916_consen 2 EQQVQSLEKSILFLQQEHAQTLKGLHAEIERLQKRNKDL 40 (60)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 35688999999999988443 444432 22346664
No 47
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=64.27 E-value=19 Score=25.96 Aligned_cols=34 Identities=15% Similarity=0.095 Sum_probs=23.6
Q ss_pred CCCCCCCCCCCCcchhHHHHHHHHHHHHHHHHHH
Q 038668 13 PMGPRSPPAAALDLYGKRRQMVKVQVLEREIGLL 46 (83)
Q Consensus 13 ~p~pksPp~g~~D~~GkhR~~ael~~LeqEi~fL 46 (83)
+++|.||-.-|--..|..++++||++|..+|.-.
T Consensus 20 ~~r~~~~~~~~lT~~G~~~L~~El~~L~~~i~~A 53 (160)
T PRK06342 20 PDRPISPHPNLVTEAGLKALEDQLAQARAAYEAA 53 (160)
T ss_pred CCCCCCCCCceECHHHHHHHHHHHHHHHHHHHHH
Confidence 3455444444667789999999999997665544
No 48
>smart00338 BRLZ basic region leucin zipper.
Probab=62.56 E-value=19 Score=21.46 Aligned_cols=27 Identities=22% Similarity=0.458 Sum_probs=18.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
.+-|..+.++.|+.++..|+.|-..|.
T Consensus 20 ~R~rKk~~~~~Le~~~~~L~~en~~L~ 46 (65)
T smart00338 20 SRERKKAEIEELERKVEQLEAENERLK 46 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666777777777777777766664
No 49
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=62.26 E-value=15 Score=29.70 Aligned_cols=30 Identities=23% Similarity=0.283 Sum_probs=24.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 26 LYGKRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 26 ~~GkhR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-..-+-+...|..|+|+++-|+.||.+|++
T Consensus 288 RsElDe~~krL~ELrR~vr~L~k~l~~l~~ 317 (320)
T TIGR01834 288 RSELDEAHQRIQQLRREVKSLKKRLGDLEA 317 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 344455666799999999999999999886
No 50
>PRK00295 hypothetical protein; Provisional
Probab=62.11 E-value=15 Score=23.06 Aligned_cols=24 Identities=13% Similarity=0.160 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+.+.+|.+|+++++.|.+.|++++
T Consensus 30 ~Qq~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 30 EQQRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 556677777777777777777664
No 51
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=61.72 E-value=17 Score=30.28 Aligned_cols=37 Identities=14% Similarity=0.185 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHH
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDF 69 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~ 69 (83)
..++.+|++|+.-|++|++.|+.+.+..---+|+.+|
T Consensus 401 ~~e~~kL~~e~~~l~~ei~~l~~~t~~~~w~~DL~~~ 437 (439)
T PHA02592 401 SDEREKLQKEAEELEKEHEYWKKTTAKKEYIKDLEEL 437 (439)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 3578899999999999999999988777767777665
No 52
>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]
Probab=61.68 E-value=11 Score=31.37 Aligned_cols=28 Identities=29% Similarity=0.434 Sum_probs=24.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.-+|++|+-+.|+..++||.|||..|.-
T Consensus 39 nlrrleaqrneln~kvr~lreel~~lqe 66 (404)
T KOG0728|consen 39 NLRRLEAQRNELNAKVRLLREELQLLQE 66 (404)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHhc
Confidence 3479999999999999999999998864
No 53
>KOG2658 consensus NADH:ubiquinone oxidoreductase, NDUFV1/51kDa subunit [Energy production and conversion]
Probab=61.58 E-value=6 Score=33.68 Aligned_cols=34 Identities=26% Similarity=0.511 Sum_probs=22.9
Q ss_pred cccCCCCCCCCCCCCCCC--------------CCcchhHH--HHHHHHHH
Q 038668 5 CRSSLVESPMGPRSPPAA--------------ALDLYGKR--RQMVKVQV 38 (83)
Q Consensus 5 ~~sS~~~~~p~pksPp~g--------------~~D~~Gkh--R~~ael~~ 38 (83)
|.+.+..++|+|+.||+. .+++|||| |+..++++
T Consensus 25 ~~~~~~~~~~~p~~ppp~~Kt~fG~l~d~dRiFtNLygrhd~rlkgA~~r 74 (478)
T KOG2658|consen 25 CKLGHTFPPPRPGNPPPQLKTKFGPLADEDRIFTNLYGRHDWRLKGALAR 74 (478)
T ss_pred cccCCCCCCCCCCCCCcccccccCCccchhhhhhhhhhccchhhhhhhhc
Confidence 555555666667676663 67899998 66666665
No 54
>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=61.50 E-value=17 Score=27.60 Aligned_cols=48 Identities=17% Similarity=0.242 Sum_probs=37.3
Q ss_pred ccCCCCCCCCCCCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038668 6 RSSLVESPMGPRSPPAAALDLYGKRRQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 6 ~sS~~~~~p~pksPp~g~~D~~GkhR~~ael~~LeqEi~fLeeEL~~L 53 (83)
.++...-...++.+-.|...-..+.-+.++-.+|++++.-.+|+|..|
T Consensus 110 ~~~~~~ns~~~k~~~~g~~~~~~~~el~~ek~kL~~q~~e~~e~lr~L 157 (221)
T PF10376_consen 110 ASSYLLNSSSPKIQKMGGYEELKQQELEEEKRKLEKQVDEKEEELRRL 157 (221)
T ss_pred hchhhhhhhhhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 555555666777777766666778888889999999999999998644
No 55
>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=61.34 E-value=13 Score=19.81 Aligned_cols=18 Identities=22% Similarity=0.355 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 038668 35 KVQVLEREIGLLQEELKS 52 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~ 52 (83)
|+++|-..|+-||-+|..
T Consensus 2 E~~rlr~rI~dLer~L~~ 19 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLSE 19 (23)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 577888888888888754
No 56
>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=61.30 E-value=8.8 Score=27.24 Aligned_cols=27 Identities=26% Similarity=0.383 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhh
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPAS 60 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS 60 (83)
|+=.+|+|++.-|++||+++.+...+.
T Consensus 66 AkwaKl~Rk~~kl~~el~~~~~~~~~~ 92 (161)
T PF04420_consen 66 AKWAKLNRKLDKLEEELEKLNKSLSSE 92 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334456777777777777776655443
No 57
>PF04135 Nop10p: Nucleolar RNA-binding protein, Nop10p family; InterPro: IPR007264 H/ACA ribonucleoprotein particles (RNPs) are a family of RNA pseudouridine synthases that specify modification sites through guide RNAs. More than 100 mammalian H/ACA RNAs form an equal number of ribonucleoproteins (RNPs) by associating with the same four core proteins: Cbf5, Gar1, Nhp2 and Nop10. The function of these H/ACA RNPs is essential for biogenesis of the ribosome, splicing of precursor mRNAs (pre-mRNAs), maintenance of telomeres and probably for additional cellular processes []. Recent crystal structures of archaeal H/ACA protein complexes show how the same four proteins accommodate >100 distinct but related H/ACA RNAs []. The complex contains a stable core composed of Cbf5 and Nop10, to which Gar1 and Nhp2 subsequently bind, the complex interacts with snoRNAs []. In eukaryotes Nop10 is a nucleolar protein that is specifically associated with H/ACA snoRNAs. It is essential for normal 18S rRNA production and rRNA pseudouridylation by the ribonucleoprotein particles containing H/ACA snoRNAs (H/ACA snoRNPs). Nop10 is probably necessary for the stability of these RNPs [].; PDB: 2RFK_B 3LWR_B 2HVY_C 3HAX_C 3MQK_B 3LWO_B 3LWV_B 3HAY_C 3HJY_B 2EY4_E ....
Probab=61.14 E-value=5.9 Score=24.52 Aligned_cols=28 Identities=25% Similarity=0.221 Sum_probs=16.3
Q ss_pred cccCCCCCCCCCCCCCCCCCcchhHHHHHHHH
Q 038668 5 CRSSLVESPMGPRSPPAAALDLYGKRRQMVKV 36 (83)
Q Consensus 5 ~~sS~~~~~p~pksPp~g~~D~~GkhR~~ael 36 (83)
||.....+-|..=| +-|.+||+|+..+.
T Consensus 23 cG~~T~~ahPaRFS----PdDky~~yRi~lKk 50 (53)
T PF04135_consen 23 CGGPTESAHPARFS----PDDKYSKYRIALKK 50 (53)
T ss_dssp TSSBSEESSSSSS-----TTTTTCHHHHHHHH
T ss_pred CCCCCcCCcCCCCC----CCCccHHHHHHHHh
Confidence 44444334333333 34999999997653
No 58
>PRK02119 hypothetical protein; Provisional
Probab=60.38 E-value=16 Score=23.28 Aligned_cols=24 Identities=13% Similarity=0.342 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+.+.+|.+|.++++.|.+.|++++
T Consensus 34 ~Qq~~id~L~~ql~~L~~rl~~~~ 57 (73)
T PRK02119 34 EQQFVIDKMQVQLRYMANKLKDMQ 57 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhc
Confidence 345556666666666666665554
No 59
>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=59.15 E-value=3.1 Score=27.95 Aligned_cols=28 Identities=25% Similarity=0.382 Sum_probs=1.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchh
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
+-.+|.+|+.|+..|++++.+||.....
T Consensus 18 LE~~l~~l~~el~~L~~~l~eLe~~~~~ 45 (118)
T PF08286_consen 18 LESELESLQSELEELKEELEELEEQEVE 45 (118)
T ss_dssp -------------------------HT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 4567889999999999999999887765
No 60
>PRK00736 hypothetical protein; Provisional
Probab=58.91 E-value=18 Score=22.69 Aligned_cols=24 Identities=25% Similarity=0.396 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+.+.+|.+|.++++.|-+.|++++
T Consensus 30 ~Qq~~i~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00736 30 EQWKTVEQMRKKLDALTERFLSLE 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 556677777777877777777765
No 61
>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=58.89 E-value=9.5 Score=23.16 Aligned_cols=32 Identities=22% Similarity=0.285 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPASI 61 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~ 61 (83)
+|-.+.|..|...|..+++.+++|-|+++...
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 45667888999999999656999999997654
No 62
>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=58.58 E-value=11 Score=25.94 Aligned_cols=20 Identities=40% Similarity=0.483 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHhhhhc
Q 038668 36 VQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~ 55 (83)
+..|+.||.-|+|+|+++|.
T Consensus 4 ~s~I~~eIekLqe~lk~~e~ 23 (92)
T PF07820_consen 4 SSKIREEIEKLQEQLKQAET 23 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 46788999999999999875
No 63
>PF15011 CK2S: Casein Kinase 2 substrate
Probab=58.09 E-value=50 Score=23.83 Aligned_cols=60 Identities=23% Similarity=0.328 Sum_probs=45.2
Q ss_pred CCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHhhhhccc-hhhhhhHHHHHHhccCC--CCC
Q 038668 17 RSPPAAALDLYGKRRQMVKVQVLEREIGLLQEELKSVEDVQ-PASICCKEVDDFVGAKP--DPL 77 (83)
Q Consensus 17 ksPp~g~~D~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~-~aS~~CkEv~~~Ves~p--DPL 77 (83)
.+|-..+||+.++=|. ..+.-+|.++..|.|.|+++.++- ..++.|..+...++... |++
T Consensus 48 ~~pL~~fpdl~~rL~~-Kq~~ale~vl~~L~e~l~~l~~v~~~l~~~~~~~~~l~~~~~~~~~l 110 (168)
T PF15011_consen 48 GTPLRSFPDLQERLRR-KQLEALETVLAKLRETLEELQKVRDSLSRQVRDVFQLYEQHAGLDEL 110 (168)
T ss_pred CCcccccccHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCC
Confidence 3456668899886442 335678999999999999998874 45778999999888654 654
No 64
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=57.73 E-value=12 Score=32.75 Aligned_cols=29 Identities=28% Similarity=0.397 Sum_probs=23.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
|.=-..+|+++|++++..||.||+.+++.
T Consensus 805 ~~id~~~e~~rL~K~l~kl~~ei~~~~~k 833 (874)
T PRK05729 805 GLIDVEAELARLEKELAKLEKEIERVEKK 833 (874)
T ss_pred CccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 43347788999999999999999988865
No 65
>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=56.93 E-value=16 Score=25.76 Aligned_cols=29 Identities=21% Similarity=0.370 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccchh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
++--.||+||..+..||-.|.++.|++.+
T Consensus 25 ~~e~~Lq~~E~~l~iLEaKL~SIpgLe~v 53 (148)
T PF10152_consen 25 DMEQRLQRLEATLNILEAKLSSIPGLEDV 53 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccccccc
Confidence 45567999999999999999999887655
No 66
>PRK04325 hypothetical protein; Provisional
Probab=56.92 E-value=20 Score=22.84 Aligned_cols=24 Identities=21% Similarity=0.484 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+.+.+|.+|+++++.|-+.|++++
T Consensus 34 ~Qq~~I~~L~~ql~~L~~rl~~~~ 57 (74)
T PRK04325 34 RQQQTLDLLQAQLRLLYQQMRDAN 57 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345556666677777766666654
No 67
>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=56.82 E-value=39 Score=24.99 Aligned_cols=48 Identities=19% Similarity=0.391 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchh-----hhhhHHHHHHhccCCCCCC
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPA-----SICCKEVDDFVGAKPDPLV 78 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~a-----S~~CkEv~~~Ves~pDPLL 78 (83)
.++...++.++++|..|++++++++++..- -....++-.||+.-. ||+
T Consensus 73 ~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~v~~d~-Pf~ 125 (251)
T PF11932_consen 73 EQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQFVELDL-PFL 125 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CCC
Confidence 345556666677777777777777754332 234677777776543 554
No 68
>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=56.77 E-value=16 Score=28.62 Aligned_cols=29 Identities=24% Similarity=0.245 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~~~ 57 (83)
...+..+++.|++|...|.+||+.||.-.
T Consensus 45 ~~~~~~el~~le~Ee~~l~~eL~~LE~e~ 73 (314)
T PF04111_consen 45 IEELEEELEKLEQEEEELLQELEELEKER 73 (314)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35567788888888888888888887643
No 69
>PRK04406 hypothetical protein; Provisional
Probab=56.28 E-value=20 Score=22.99 Aligned_cols=21 Identities=5% Similarity=0.249 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 038668 33 MVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~L 53 (83)
+.+|.+|.++++.|-+.|+++
T Consensus 38 q~~I~~L~~ql~~L~~rl~~~ 58 (75)
T PRK04406 38 QLLITKMQDQMKYVVGKVKNM 58 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 334444444444444444443
No 70
>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=55.87 E-value=8.8 Score=30.52 Aligned_cols=20 Identities=30% Similarity=0.386 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 038668 30 RRQMVKVQVLEREIGLLQEE 49 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeE 49 (83)
+.+.--|+|||+||..||-+
T Consensus 13 R~LEesI~RLEkEIe~LE~~ 32 (278)
T PF03285_consen 13 RSLEESIHRLEKEIEALENG 32 (278)
T ss_pred HHHHHHHHHHHHHHHHhccC
Confidence 45667799999999999865
No 71
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=55.72 E-value=29 Score=23.25 Aligned_cols=20 Identities=15% Similarity=0.144 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHhhhh
Q 038668 35 KVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE 54 (83)
+++.|+++...|++|++.|.
T Consensus 42 e~~~l~~~n~~L~~eI~~L~ 61 (105)
T PRK00888 42 TNAKLKARNDQLFAEIDDLK 61 (105)
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 33445555555555655554
No 72
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=55.24 E-value=22 Score=22.73 Aligned_cols=21 Identities=33% Similarity=0.634 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHhhhhc
Q 038668 35 KVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE~ 55 (83)
+++.|+++|..|++++..++.
T Consensus 71 ~~~~l~~~l~~l~~~~~~~~~ 91 (104)
T PF13600_consen 71 ELKELEEELEALEDELAALQD 91 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455555555555555554443
No 73
>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=55.15 E-value=24 Score=22.37 Aligned_cols=24 Identities=42% Similarity=0.548 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~L 53 (83)
++...+++++++|+..|++|-+.|
T Consensus 38 ~~~~~~l~~l~~~~~~l~~e~~~L 61 (97)
T PF04999_consen 38 RQLFYELQQLEKEIDQLQEENERL 61 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667888888888888876554
No 74
>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=54.96 E-value=15 Score=25.74 Aligned_cols=19 Identities=47% Similarity=0.697 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHhhhhc
Q 038668 37 QVLEREIGLLQEELKSVED 55 (83)
Q Consensus 37 ~~LeqEi~fLeeEL~~LE~ 55 (83)
..|++-|..||+||+..++
T Consensus 76 E~l~rriq~LEeele~ae~ 94 (143)
T PF12718_consen 76 EQLNRRIQLLEEELEEAEK 94 (143)
T ss_pred HHHHhhHHHHHHHHHHHHH
Confidence 3899999999999988764
No 75
>PTZ00322 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional
Probab=54.60 E-value=25 Score=29.79 Aligned_cols=58 Identities=10% Similarity=0.123 Sum_probs=42.3
Q ss_pred ccccCCCCCCCCCCCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhh
Q 038668 4 ACRSSLVESPMGPRSPPAAALDLYGKRRQMVKVQVLEREIGLLQEELKSVEDVQPASI 61 (83)
Q Consensus 4 ~~~sS~~~~~p~pksPp~g~~D~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~ 61 (83)
-|+.+|++.++++==++.|.-+-.=+|.....+..++.||.-+++.|+.++.......
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~eia~i~~~l~~l~~~e~~~~ 62 (664)
T PTZ00322 5 VCSVASSAFAAQLFFGTEGSRKRRAKPISFERMAAIQEEIARIDTHLEALEATENKDA 62 (664)
T ss_pred eecccCCcchhhcccCCCcccccccchhHHHHHHHHHhHHHHHHHHHHHhhccccccc
Confidence 4788888877777766665555555666667777889999999999988886654433
No 76
>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=54.53 E-value=15 Score=30.81 Aligned_cols=24 Identities=25% Similarity=0.450 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
+-.|-.|.+||+.||.||+.|+..
T Consensus 41 ~~~i~~Lq~QI~~Lq~ei~~l~~~ 64 (383)
T PF12097_consen 41 QQEISELQKQIQQLQAEINQLEEQ 64 (383)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456788889999999999988876
No 77
>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=53.55 E-value=25 Score=25.70 Aligned_cols=26 Identities=23% Similarity=0.387 Sum_probs=13.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~L 53 (83)
|+.++..+|..|+.++..|+.++..|
T Consensus 121 ~~~~l~~~i~~L~~e~~~L~~~~~~l 146 (189)
T PF10211_consen 121 GKQELEEEIEELEEEKEELEKQVQEL 146 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555544
No 78
>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=52.88 E-value=46 Score=20.91 Aligned_cols=29 Identities=24% Similarity=0.358 Sum_probs=20.8
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHhh
Q 038668 24 LDLYGKRRQMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 24 ~D~~GkhR~~ael~~LeqEi~fLeeEL~~ 52 (83)
-+.++-.-+...|..|+.||.-++.++..
T Consensus 18 Ls~lSv~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 18 LSLLSVEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred chhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777777777777777777777654
No 79
>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=52.71 E-value=20 Score=26.65 Aligned_cols=25 Identities=20% Similarity=0.279 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
++..++..|.+++..|+.|++.|+.
T Consensus 108 ~l~~e~~~l~~~~e~Le~e~~~L~~ 132 (161)
T TIGR02894 108 RLKNQNESLQKRNEELEKELEKLRQ 132 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666677777777776654
No 80
>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=52.66 E-value=23 Score=22.00 Aligned_cols=18 Identities=28% Similarity=0.617 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 038668 35 KVQVLEREIGLLQEELKS 52 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~ 52 (83)
+|..|+.++..+++++++
T Consensus 77 ~i~~l~~~~~~l~~~l~~ 94 (106)
T PF01920_consen 77 EIKKLEKQLKYLEKKLKE 94 (106)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333344444444444333
No 81
>PLN02943 aminoacyl-tRNA ligase
Probab=51.84 E-value=16 Score=32.61 Aligned_cols=29 Identities=14% Similarity=0.186 Sum_probs=22.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
|.=-..+|+++|+.|+..||.||+.+++.
T Consensus 883 ~~iD~~~E~~rL~K~l~klekei~~~~~k 911 (958)
T PLN02943 883 DMVDISAEVERLSKRLSKMQTEYDALAAR 911 (958)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33336788888888888888888887764
No 82
>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=51.74 E-value=32 Score=23.57 Aligned_cols=36 Identities=19% Similarity=0.293 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCC
Q 038668 37 QVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPD 75 (83)
Q Consensus 37 ~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 75 (83)
..|++.+.-+++++++|..+... .+++++.++.+++
T Consensus 81 ~~l~~k~~~i~~~i~~L~~~~~~---L~~~i~~~~~~~~ 116 (131)
T cd04786 81 AALERKVADIEALEARLAQNKAQ---LLVLIDLIESKPD 116 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhcCCC
Confidence 34455555555555554444322 4555555555554
No 83
>PLN03237 DNA topoisomerase 2; Provisional
Probab=51.69 E-value=26 Score=33.67 Aligned_cols=39 Identities=26% Similarity=0.323 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhcc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGA 72 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 72 (83)
-++.+|.+|+.-+++||+.|.++.+..--.++|..|.+.
T Consensus 1126 E~~~kL~~~~~~k~~el~~l~~~t~~~lW~~DLd~f~~~ 1164 (1465)
T PLN03237 1126 EKVQELCADRDKLNIEVEDLKKTTPKSLWLKDLDALEKE 1164 (1465)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 568899999999999999999999999999999988753
No 84
>PF10975 DUF2802: Protein of unknown function (DUF2802); InterPro: IPR021244 This bacterial family of proteins has no known function.
Probab=51.58 E-value=50 Score=20.87 Aligned_cols=38 Identities=18% Similarity=0.307 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVG 71 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve 71 (83)
-+|..|++.+.-|++.+++++.-++.+..=..-+..|.
T Consensus 5 ~~l~~l~~~l~~l~~~~~~~~~~d~~~~~Y~~A~klv~ 42 (70)
T PF10975_consen 5 QRLAELEQQLKQLEDQQEELEQRDPDSPLYSQAIKLVR 42 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCcchHHHHHHHHH
Confidence 46889999999999999999988887765444444443
No 85
>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=51.56 E-value=23 Score=28.51 Aligned_cols=26 Identities=27% Similarity=0.562 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchh
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
.+++.|.+|+..|++|++.|+.+-+.
T Consensus 391 ~e~~kL~~e~~~l~~ei~~l~~~~~~ 416 (426)
T PF00521_consen 391 EEIEKLQKEIKELEKEIEELEKILPK 416 (426)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999999988776
No 86
>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=51.49 E-value=27 Score=22.46 Aligned_cols=25 Identities=36% Similarity=0.470 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
..+.++++.|..+|.-|+++++.+|
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 3456667777777777777777665
No 87
>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=51.45 E-value=22 Score=25.47 Aligned_cols=27 Identities=30% Similarity=0.320 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
..+.+++..|+.+|.-|+++|++.++.
T Consensus 119 ~~l~~~~~~L~~~~~~l~~~l~ek~k~ 145 (194)
T PF08614_consen 119 AELEAELAQLEEKIKDLEEELKEKNKA 145 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666666666666666665543
No 88
>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=51.37 E-value=21 Score=23.82 Aligned_cols=29 Identities=24% Similarity=0.281 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccch
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQP 58 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~ 58 (83)
-.++-+.+++++++.-+|+||++.+-...
T Consensus 8 ~~m~kqaq~mQ~k~~~~q~eL~~~~v~g~ 36 (102)
T TIGR00103 8 GELMKQAQQMQEKMKKLQEEIAQFEVTGK 36 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccEEEEE
Confidence 45677889999999999999999885443
No 89
>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=51.17 E-value=28 Score=23.73 Aligned_cols=26 Identities=31% Similarity=0.564 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
|+-+-..|..|+++|+.|-+++.+|-
T Consensus 3 k~~l~~~l~~le~~l~~l~~~~~~LK 28 (107)
T PF06156_consen 3 KKELFDRLDQLEQQLGQLLEELEELK 28 (107)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566667777777776666666553
No 90
>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=51.11 E-value=26 Score=23.85 Aligned_cols=26 Identities=27% Similarity=0.495 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
||+.+++.+|+..+.-|++.++.+|.
T Consensus 62 ~~l~~d~~~l~~~~~rL~~~~~~~er 87 (151)
T PF11559_consen 62 RRLRSDIERLQNDVERLKEQLEELER 87 (151)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 45555666666666666666655553
No 91
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=51.05 E-value=29 Score=22.60 Aligned_cols=24 Identities=25% Similarity=0.432 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~L 53 (83)
.++.++|..|..+|..+++.|+.+
T Consensus 84 ~~l~~~l~~l~~~~~k~e~~l~~~ 107 (126)
T PF13863_consen 84 KKLKAELEELKSEISKLEEKLEEY 107 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666777777777777766654
No 92
>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=51.04 E-value=48 Score=25.77 Aligned_cols=48 Identities=19% Similarity=0.144 Sum_probs=35.2
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHHhh---------hhccchhhh--hhHHHHHHh
Q 038668 23 ALDLYGKRRQMVKVQVLEREIGLLQEELKS---------VEDVQPASI--CCKEVDDFV 70 (83)
Q Consensus 23 ~~D~~GkhR~~ael~~LeqEi~fLeeEL~~---------LE~~~~aS~--~CkEv~~~V 70 (83)
-|.+.+|....+++..|..++..||..|.. +||++-|-+ +-+.|+..+
T Consensus 22 ~~~~~~k~~y~~~l~~l~~~L~~LQ~~l~~~~~~~vlIv~eG~DaAGKG~~I~~l~~~l 80 (264)
T TIGR03709 22 TPGFDSKEEAEALLAELVARLSDLQEKLYAEGRRSLLLVLQAMDAAGKDGTIRHVMSGV 80 (264)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCCchHHHHHHHHhc
Confidence 344456899999999999999999999966 467776644 345555444
No 93
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=50.91 E-value=22 Score=25.06 Aligned_cols=22 Identities=32% Similarity=0.481 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 038668 30 RRQMVKVQVLEREIGLLQEELK 51 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~ 51 (83)
|-+-.+|.+|++++.-||.+|+
T Consensus 86 ~~l~~rvd~Lerqv~~Lenk~k 107 (108)
T COG3937 86 DELTERVDALERQVADLENKLK 107 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 4455678889999998888875
No 94
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=50.89 E-value=26 Score=33.40 Aligned_cols=38 Identities=24% Similarity=0.442 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVG 71 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve 71 (83)
-++.+|.+|+.-+++||+.|.++-+..--.+||..|.+
T Consensus 1102 e~v~kL~~e~~~~~~e~~~L~~~t~~~lw~~DL~~~~~ 1139 (1388)
T PTZ00108 1102 EKVEKLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEE 1139 (1388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 47889999999999999999999999999999988865
No 95
>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=50.83 E-value=61 Score=21.87 Aligned_cols=46 Identities=17% Similarity=0.275 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCC
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKP 74 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~p 74 (83)
+.++..+++.+..+|.-|+.+|..--.+-.--.-|-++...|.+.|
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 3566777777778888888887766555444445666665555554
No 96
>KOG3021 consensus Predicted kinase [General function prediction only]
Probab=50.52 E-value=11 Score=30.56 Aligned_cols=22 Identities=18% Similarity=0.449 Sum_probs=18.2
Q ss_pred CCcchhHHHHHHHHHHHHHHHH
Q 038668 23 ALDLYGKRRQMVKVQVLEREIG 44 (83)
Q Consensus 23 ~~D~~GkhR~~ael~~LeqEi~ 44 (83)
.+.|+++||++.+|++++.+-+
T Consensus 163 W~eFf~rhRlq~Qldl~~~~~~ 184 (313)
T KOG3021|consen 163 WEEFFARHRLQPQLDLLEKTYG 184 (313)
T ss_pred HHHHHHHHhhhHHHHHHHHhhc
Confidence 4579999999999999986543
No 97
>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=50.50 E-value=23 Score=29.42 Aligned_cols=24 Identities=21% Similarity=0.398 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~ 57 (83)
.++..|++|+.-|++|+++|+.+-
T Consensus 405 ~e~~kL~~E~~~l~~ei~~l~~~l 428 (445)
T cd00187 405 LEREKLLKELKELEAEIEDLEKIL 428 (445)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467889999999999999999887
No 98
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=50.37 E-value=28 Score=22.23 Aligned_cols=28 Identities=25% Similarity=0.430 Sum_probs=23.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
=-..+.++|+.|++++..++.+++-++.
T Consensus 71 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~ 98 (104)
T PF13600_consen 71 ELKELEEELEALEDELAALQDEIQALEA 98 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567888999999999999999987764
No 99
>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=50.23 E-value=19 Score=22.52 Aligned_cols=27 Identities=26% Similarity=0.329 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccchh
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
+.+++.+.+++.-++++|++++....+
T Consensus 1 m~~~~~~~~~~~~~~~~l~~~~~~~~s 27 (93)
T PF02575_consen 1 MKQAQEMQEKMEEAQEELAEIEVTGTS 27 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSEEEEEE
T ss_pred ChHHHHHHHHHHHHHHHHhcCEEEEEE
Confidence 467889999999999999998765543
No 100
>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=49.48 E-value=28 Score=23.19 Aligned_cols=24 Identities=21% Similarity=0.282 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~L 53 (83)
|+++.+|..++-+++-|.+.|+.+
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 555555555555555555555444
No 101
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=49.44 E-value=19 Score=32.04 Aligned_cols=29 Identities=21% Similarity=0.148 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
|.=-..+|+++|+.||.+|+.|++.+++.
T Consensus 923 ~~id~~~E~~rL~K~l~kl~~ei~~~~~k 951 (995)
T PTZ00419 923 EFIDLKKELAKLEKKLAKLQKSLESYLKK 951 (995)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 43346788888999999999888887754
No 102
>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=49.44 E-value=32 Score=22.38 Aligned_cols=19 Identities=42% Similarity=0.571 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 038668 34 VKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~ 52 (83)
++|+.|+.++..|++++++
T Consensus 77 ~~i~~l~~~~~~l~~~~~e 95 (105)
T cd00632 77 LRIKRLERQEEDLQEKLKE 95 (105)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444433
No 103
>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=49.39 E-value=29 Score=22.51 Aligned_cols=25 Identities=24% Similarity=0.373 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
++..++..|.+|+.-|+.+++.|+.
T Consensus 29 ~l~~~~~~l~~e~~~L~~~~~~l~~ 53 (131)
T PF05103_consen 29 ELAEELERLQRENAELKEEIEELQA 53 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5666777777888888877777765
No 104
>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=48.88 E-value=35 Score=30.20 Aligned_cols=49 Identities=16% Similarity=0.208 Sum_probs=44.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCCC
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPDP 76 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDP 76 (83)
=.||+..=.+|++-.+.-+++.|+-|||+-.|-..--||+..+-+..||
T Consensus 347 ~~~R~~~~~rR~~~~l~k~~~rl~il~Gl~ia~~~iDevI~iIR~s~~~ 395 (735)
T TIGR01062 347 LVFRRNTVIRRLTYRLNKVLQRLHILEGLRIAFLNIDEVIEIIREEDEP 395 (735)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcChhh
Confidence 3799999999999999999999999999999999999999999887765
No 105
>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=48.69 E-value=7.2 Score=28.78 Aligned_cols=29 Identities=31% Similarity=0.322 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~~~ 57 (83)
|-.+..++|||.-|++-|+.||.--|++.
T Consensus 26 KE~L~~~~QRLkDE~RDLKqEl~V~ek~~ 54 (166)
T PF04880_consen 26 KENLREEVQRLKDELRDLKQELIVQEKLR 54 (166)
T ss_dssp HHHHHHCH---------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 66788999999999999999994445543
No 106
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=48.61 E-value=35 Score=21.60 Aligned_cols=21 Identities=24% Similarity=0.284 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 038668 33 MVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~L 53 (83)
-.++..|..|+.+|+.||+..
T Consensus 46 ~~e~~~Lk~E~e~L~~el~~~ 66 (69)
T PF14197_consen 46 YEENNKLKEENEALRKELEEL 66 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 345677777777777777654
No 107
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=48.47 E-value=37 Score=22.79 Aligned_cols=30 Identities=10% Similarity=0.012 Sum_probs=21.8
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 25 DLYGKRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 25 D~~GkhR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
.+.--+.+++++..+++|+.-|+++-+.|+
T Consensus 25 G~~~~~~l~~q~~~~~~e~~~l~~~n~~L~ 54 (105)
T PRK00888 25 GILDYWRVNDQVAAQQQTNAKLKARNDQLF 54 (105)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334566777888888888888888776664
No 108
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=48.38 E-value=24 Score=27.28 Aligned_cols=26 Identities=23% Similarity=0.307 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-|++++++.|.++++..+-||++|..
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 46788888888888888888888754
No 109
>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=48.13 E-value=23 Score=26.31 Aligned_cols=23 Identities=9% Similarity=0.287 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
+.|..+|++|.-||.+|+.|-+.
T Consensus 2 ~~~~~~E~~~~~le~~l~kl~K~ 24 (200)
T cd07637 2 ATIDEVETDVVEIEAKLDKLVKL 24 (200)
T ss_pred chHHHHHhhHHHHHHHHHHHHHH
Confidence 67899999999999999887553
No 110
>PRK14626 hypothetical protein; Provisional
Probab=48.12 E-value=25 Score=24.07 Aligned_cols=25 Identities=28% Similarity=0.327 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-++-+.|.+++++.-+|+||++.+=
T Consensus 9 ~mmkqaq~mQ~km~~~qeeL~~~~v 33 (110)
T PRK14626 9 ELMKQMQSIKENVEKAKEELKKEEI 33 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccEE
Confidence 4567789999999999999999873
No 111
>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=48.11 E-value=24 Score=27.32 Aligned_cols=25 Identities=16% Similarity=0.187 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccc
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~~ 57 (83)
.++|++++++|..||.+|.+.+.-.
T Consensus 54 E~AL~~a~~ri~eLe~ql~q~~~~~ 78 (247)
T PF09849_consen 54 EQALKQAQARIQELEAQLQQAQAPQ 78 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccc
Confidence 3578999999999999998855433
No 112
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=48.04 E-value=63 Score=23.66 Aligned_cols=41 Identities=12% Similarity=0.102 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcc-chhhhhhHHHHHH
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVEDV-QPASICCKEVDDF 69 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~~-~~aS~~CkEv~~~ 69 (83)
||-+.++-.+|.||+.-|.+|+.++--- +.--..|+-+..|
T Consensus 76 k~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~~ 117 (135)
T KOG4196|consen 76 KHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQNS 117 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4555555566666666666665444221 1112235555556
No 113
>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=47.77 E-value=30 Score=22.78 Aligned_cols=47 Identities=15% Similarity=0.221 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc-----------cchhhhhhHHHHHHhccCCCCCC
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED-----------VQPASICCKEVDDFVGAKPDPLV 78 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~-----------~~~aS~~CkEv~~~Ves~pDPLL 78 (83)
|.+.|+.+++.+..||..++.|+. ++..++.-..|...|.++.|=|-
T Consensus 9 Ir~dIk~vd~KVdaLq~~V~~l~~~~~~v~~l~~klDa~~~~l~~l~~~V~~I~~iL~ 66 (75)
T PF05531_consen 9 IRQDIKAVDDKVDALQTQVDDLESNLPDVTELNKKLDAQSAQLTTLNTKVNEIQDILN 66 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 456778888888777777777765 56667777777777777666554
No 114
>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=47.26 E-value=29 Score=22.90 Aligned_cols=20 Identities=20% Similarity=0.326 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHhhhhc
Q 038668 36 VQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~ 55 (83)
+..|+..|.|+++.++.|++
T Consensus 69 ~~~l~~r~e~ie~~i~~lek 88 (110)
T TIGR02338 69 IQELKEKKETLELRVKTLQR 88 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555544
No 115
>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=46.58 E-value=26 Score=27.70 Aligned_cols=24 Identities=38% Similarity=0.423 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~L 53 (83)
--...+++||.+||.-|++||+.+
T Consensus 90 Es~~~kl~RL~~Ev~EL~eEl~~~ 113 (388)
T PF04912_consen 90 ESPEQKLQRLRREVEELKEELEKR 113 (388)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677888888888888888876
No 116
>PLN02381 valyl-tRNA synthetase
Probab=46.48 E-value=23 Score=32.26 Aligned_cols=30 Identities=13% Similarity=0.243 Sum_probs=23.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
-|.=-..+|+++|+.+|.+||.||+.+++.
T Consensus 990 ~~~iD~~~E~~rL~K~l~klekei~~~~~k 1019 (1066)
T PLN02381 990 QGAVNAEAELEKLRNKMDEIQKQQEKLEKK 1019 (1066)
T ss_pred CcccCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 343347789999999999999999888764
No 117
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=46.45 E-value=54 Score=21.50 Aligned_cols=40 Identities=20% Similarity=0.194 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc-cchhhhhhHHHHHH
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVED-VQPASICCKEVDDF 69 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~-~~~aS~~CkEv~~~ 69 (83)
....++|+.|+..-.-|.+||+..+. .......|+||..-
T Consensus 35 ~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~r 75 (89)
T PF13747_consen 35 DELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRR 75 (89)
T ss_pred hhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 45566777777777777777766553 33444557776543
No 118
>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=46.39 E-value=26 Score=23.85 Aligned_cols=22 Identities=14% Similarity=0.294 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhc
Q 038668 34 VKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.+|+.|+..|.-|+..|+.|++
T Consensus 96 ~ev~~L~~RI~~Le~~l~~l~~ 117 (118)
T TIGR01837 96 EEIEALSAKIEQLAVQVEELRR 117 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3567777778888877777764
No 119
>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=46.29 E-value=39 Score=22.49 Aligned_cols=26 Identities=27% Similarity=0.368 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+++..++++|+++|..+..+++..-.
T Consensus 11 ~~L~~~~~~le~~i~~~~~~~k~~~~ 36 (171)
T PF03357_consen 11 RRLEKQIKRLEKKIKKLEKKAKKAIK 36 (171)
T ss_dssp HHHHHHHHHHHHHHHHCHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555555544433
No 120
>PLN02678 seryl-tRNA synthetase
Probab=46.11 E-value=40 Score=28.07 Aligned_cols=44 Identities=14% Similarity=0.151 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCCCCCccc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
+.++++.|..||.-|++++++++. --.+++..+-..++|-.|+-
T Consensus 76 l~~~~~~Lk~ei~~le~~~~~~~~------~l~~~~~~iPNi~~~~VP~G 119 (448)
T PLN02678 76 LIAETKELKKEITEKEAEVQEAKA------ALDAKLKTIGNLVHDSVPVS 119 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHhCCCCCCccCCCC
Confidence 455666666666666666666653 24577888888888888864
No 121
>COG3132 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.98 E-value=42 Score=26.20 Aligned_cols=24 Identities=29% Similarity=0.412 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+.|.|..||+|+.-|+.-|++|.+
T Consensus 190 learv~aLe~eva~L~~rld~ll~ 213 (215)
T COG3132 190 LEARVEALEQEVAELRARLDSLLG 213 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 899999999999999999999876
No 122
>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=45.61 E-value=30 Score=25.40 Aligned_cols=43 Identities=28% Similarity=0.322 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGA 72 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 72 (83)
.++.+++..+=+...-|++.|++||...+-+..-+++++|+.+
T Consensus 207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~ 249 (254)
T cd03351 207 RALKRAYRILYRSGLTLEEALEELEEEAPDSPEVEELVDFIRS 249 (254)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHhcCCCHHHHHHHHHHHh
Confidence 3445555444455566888888888876667777889999875
No 123
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=45.30 E-value=29 Score=22.23 Aligned_cols=27 Identities=30% Similarity=0.310 Sum_probs=15.9
Q ss_pred cccCCCCCCCCCCCCCCCCCcchhHHHHHHH
Q 038668 5 CRSSLVESPMGPRSPPAAALDLYGKRRQMVK 35 (83)
Q Consensus 5 ~~sS~~~~~p~pksPp~g~~D~~GkhR~~ae 35 (83)
||+-..-+-|.+=| +-|-+||.|+.++
T Consensus 23 CG~~t~~~~PprFS----PeD~y~kYR~~lk 49 (59)
T COG2260 23 CGGDTKVPHPPRFS----PEDKYGKYRRELK 49 (59)
T ss_pred CCCccccCCCCCCC----ccchHHHHHHHHH
Confidence 44444444443333 3499999998644
No 124
>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=45.26 E-value=55 Score=19.96 Aligned_cols=30 Identities=17% Similarity=0.234 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
.+++.+++.++.|..-|+.|+..|-.-+..
T Consensus 34 ~~~~~~~~~l~~en~~L~~ei~~l~~~~rI 63 (85)
T TIGR02209 34 QKLQLEIDKLQKEWRDLQLEVAELSRHERI 63 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCHHHH
Confidence 457778888888999998888887765443
No 125
>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=45.10 E-value=21 Score=30.47 Aligned_cols=20 Identities=15% Similarity=0.438 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHhhhh
Q 038668 35 KVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE 54 (83)
+|+.|++||..||++++.|.
T Consensus 32 kie~L~kql~~Lk~q~~~l~ 51 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDLN 51 (489)
T ss_pred HHHHHHHHHHHHHHhhcccc
Confidence 77788888888887776543
No 126
>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=44.98 E-value=38 Score=23.64 Aligned_cols=29 Identities=28% Similarity=0.456 Sum_probs=23.0
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHhh
Q 038668 24 LDLYGKRRQMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 24 ~D~~GkhR~~ael~~LeqEi~fLeeEL~~ 52 (83)
-|.+|++|...-|+..++++.-|-++|=+
T Consensus 95 ~~~~g~~k~y~iV~~ID~kL~~L~~~ll~ 123 (147)
T PF03885_consen 95 WDRRGRQKVYTIVKVIDEKLDELTDELLS 123 (147)
T ss_dssp --H-HHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred CCccCCCceeeehHHHHHHHHHHHHHHHH
Confidence 47789999999999999999999887643
No 127
>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=44.92 E-value=29 Score=23.35 Aligned_cols=24 Identities=17% Similarity=0.257 Sum_probs=18.7
Q ss_pred hhhhhhHHHHHHhccCCCCCCccc
Q 038668 58 PASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 58 ~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
.+..+|-=+-.|..+-||||+|..
T Consensus 55 ~~~~va~~lK~~Lr~Lp~pli~~~ 78 (174)
T smart00324 55 DVHDVAGLLKLFLRELPEPLIPYE 78 (174)
T ss_pred CHHHHHHHHHHHHHhCCCccCCHH
Confidence 444566668888999999999974
No 128
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=44.70 E-value=32 Score=28.85 Aligned_cols=24 Identities=25% Similarity=0.378 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
+.+++.||.+|.-||+++++||..
T Consensus 562 ~~~~~~~e~~i~~le~~~~~l~~~ 585 (638)
T PRK10636 562 RKEIARLEKEMEKLNAQLAQAEEK 585 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446777888888888888777654
No 129
>PRK14623 hypothetical protein; Provisional
Probab=44.45 E-value=30 Score=23.68 Aligned_cols=24 Identities=17% Similarity=0.189 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
++-+.|++++++.-+|+||+..+=
T Consensus 6 ~mkqaqkmQ~km~~~Qeel~~~~v 29 (106)
T PRK14623 6 MMGKLKEAQQKVEATKKRLDTVLI 29 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHhccEE
Confidence 566789999999999999999883
No 130
>KOG4787 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.39 E-value=28 Score=31.54 Aligned_cols=45 Identities=13% Similarity=0.144 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhh-hhhHHHHHHhccCCCC
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPAS-ICCKEVDDFVGAKPDP 76 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS-~~CkEv~~~Ves~pDP 76 (83)
+++|+..++.-+.-++++++.|-....+. +-||+++..=.+.+||
T Consensus 520 L~~ElE~~~~~~~~~e~~~evL~~~~~~t~~l~Kq~L~~~~~q~de 565 (852)
T KOG4787|consen 520 LVSELEGKIPTIDEIEQCCEVLAAVETQTGRLCKQFLKIDHAQKDE 565 (852)
T ss_pred HHHHHHhhcCcHhHHHHHHHHHHHHhhhHHHHHHHHHHhcccCcch
Confidence 33333333333333444444443333344 4577777777777776
No 131
>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=44.23 E-value=25 Score=20.66 Aligned_cols=43 Identities=26% Similarity=0.104 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGA 72 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 72 (83)
.|+..-|++|++.=-.|++=++..+.--.....|++.++.++.
T Consensus 6 ~~Le~Iv~~Le~~~~sLdes~~lyeeg~~l~~~c~~~L~~~e~ 48 (53)
T PF02609_consen 6 ERLEEIVEKLESGELSLDESLKLYEEGMELIKKCQERLEEAEQ 48 (53)
T ss_dssp HHHHHHHHHHHTT-S-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556667777765556778888888888888899999998875
No 132
>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=44.13 E-value=59 Score=23.71 Aligned_cols=45 Identities=16% Similarity=0.164 Sum_probs=39.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhcc--chhhhhhHHHHHHhcc
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVEDV--QPASICCKEVDDFVGA 72 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~~--~~aS~~CkEv~~~Ves 72 (83)
.||-++-.|+.|+.|+..--+|.+.+|++ +.....-|-++.+|++
T Consensus 79 Nky~L~~tL~~LtkEVn~Wr~ewd~iE~~mFGD~pnSmkkMl~nves 125 (132)
T PF09432_consen 79 NKYSLQDTLNQLTKEVNYWRKEWDNIEMLMFGDGPNSMKKMLQNVES 125 (132)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence 57888899999999999999999999986 6667778888888876
No 133
>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=44.05 E-value=37 Score=24.22 Aligned_cols=26 Identities=19% Similarity=0.383 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.++++++..=+-||.+|.++|+++..
T Consensus 97 ~kLe~e~~~Kdsei~~Lr~~L~~~~~ 122 (131)
T PF04859_consen 97 KKLEAELRAKDSEIDRLREKLDELNR 122 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35778888888889999999888754
No 134
>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=43.81 E-value=33 Score=22.32 Aligned_cols=22 Identities=41% Similarity=0.376 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhh
Q 038668 33 MVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE 54 (83)
...++.|+++|..|+.-++.|+
T Consensus 81 ~~~~~~l~~~i~~l~~~~~~l~ 102 (108)
T cd01107 81 REKLAELEAEIEELQRILRLLE 102 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555544
No 135
>PRK00153 hypothetical protein; Validated
Probab=43.68 E-value=27 Score=23.01 Aligned_cols=29 Identities=24% Similarity=0.306 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccch
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQP 58 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~ 58 (83)
-.++.+.+++++++.-+|+||+..+-...
T Consensus 6 ~~m~~qaq~~q~~~~~~q~~l~~~~~~~~ 34 (104)
T PRK00153 6 QNLMKQAQQMQEKMQKMQEELAQMEVEGE 34 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccEEEEE
Confidence 35677899999999999999999875443
No 136
>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=43.63 E-value=42 Score=21.68 Aligned_cols=26 Identities=23% Similarity=0.294 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+..+...++.|+++|.-|++.++.|+
T Consensus 73 ~~~l~~~~~~l~~~i~~l~~~~~~l~ 98 (102)
T cd04775 73 QAILEERLQSLNREIQRLRQQQQVLA 98 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455556666666666666555554
No 137
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=43.32 E-value=34 Score=24.62 Aligned_cols=22 Identities=27% Similarity=0.259 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~L 53 (83)
|-+||+++|..|+-+++|+...
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 6789999999999999887653
No 138
>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=43.28 E-value=38 Score=21.29 Aligned_cols=18 Identities=33% Similarity=0.508 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 038668 36 VQVLEREIGLLQEELKSV 53 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~L 53 (83)
..-|++||.-|++|++++
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 445777777777777654
No 139
>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=43.08 E-value=39 Score=22.85 Aligned_cols=26 Identities=31% Similarity=0.272 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.|-...|..|+.++.-|.+|.++|.+
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 35667777888888888888777764
No 140
>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=43.06 E-value=31 Score=21.07 Aligned_cols=31 Identities=19% Similarity=0.341 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHH
Q 038668 36 VQVLEREIGLLQEELKSVEDVQPASICCKEVDDF 69 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~ 69 (83)
|..|.|++.-||++|+-|+. +=.-+|-+.-|
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~---~fs~yKKa~lF 31 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQA---AFSQYKKAELF 31 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHT
T ss_pred ChHHHHHHHHHHHHHHHHHH---HHHHHHHHHHC
Confidence 45688888888888877754 33335555444
No 141
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=42.88 E-value=30 Score=25.52 Aligned_cols=23 Identities=22% Similarity=0.406 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.++-.+|+|+...+.||+++++-
T Consensus 162 ~d~l~ie~~L~~v~~eIe~~~~~ 184 (262)
T PF14257_consen 162 EDLLEIERELSRVRSEIEQLEGQ 184 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677777777777776663
No 142
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=42.78 E-value=42 Score=27.06 Aligned_cols=19 Identities=32% Similarity=0.431 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHhhhh
Q 038668 36 VQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE 54 (83)
++.+++|+..|++||+.|-
T Consensus 45 ~~~~~~~~~~~~~~~~~~~ 63 (398)
T PTZ00454 45 QKNLKRELIRAKEEVKRIQ 63 (398)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3444444444444444443
No 143
>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=42.75 E-value=29 Score=30.27 Aligned_cols=28 Identities=14% Similarity=0.275 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
|--...+++++|+.++..||.|++.+++
T Consensus 810 ~~~d~~~e~~~l~k~l~~~~~~i~~~~~ 837 (861)
T TIGR00422 810 GLINKAKELARLQKQLDKEKKEVIRIEG 837 (861)
T ss_pred hhcCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3345789999999999999999999987
No 144
>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=42.49 E-value=51 Score=25.40 Aligned_cols=50 Identities=8% Similarity=0.019 Sum_probs=26.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhc-cchhhhhhHHHHHHhccCCCCC
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVED-VQPASICCKEVDDFVGAKPDPL 77 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~-~~~aS~~CkEv~~~Ves~pDPL 77 (83)
-..++.+|-++|.+|+..|+.+++.... +..=-.--++++.+-+..++..
T Consensus 67 ~~~~l~~EN~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~~~~~~~~~~ 117 (283)
T TIGR00219 67 DVNNLEYENYKLRQELLKKNQQLEILTQNLKQENVRLRELLNSPLSSDEYK 117 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccCCc
Confidence 3445566666666666655444444322 3333444666777665555443
No 145
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.46 E-value=36 Score=26.83 Aligned_cols=26 Identities=35% Similarity=0.373 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
.+++|+++.+|..||+-|+..+++..
T Consensus 59 ~~s~Q~~~~~L~~ev~~~~~~~~s~~ 84 (247)
T COG3879 59 LRSLQKKVNTLAAEVEDLENKLDSVR 84 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677888888888888888888777
No 146
>PRK14629 hypothetical protein; Provisional
Probab=42.25 E-value=34 Score=23.19 Aligned_cols=26 Identities=8% Similarity=0.188 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~ 57 (83)
++-+.+.+++++.-+|+||++.+=..
T Consensus 8 ~mkqaq~mQ~km~~~Q~eL~~~~veg 33 (99)
T PRK14629 8 FLKNMSSFKDNIDNIKKEISQIVVCG 33 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHhccEEEE
Confidence 67788999999999999999876443
No 147
>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=42.08 E-value=39 Score=23.50 Aligned_cols=25 Identities=28% Similarity=0.399 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-+...|..|++||.-|++.|+.|.+
T Consensus 113 el~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 113 ELREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4667788888888888888888875
No 148
>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=41.78 E-value=47 Score=27.03 Aligned_cols=36 Identities=22% Similarity=0.277 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHh
Q 038668 35 KVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFV 70 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~V 70 (83)
+++.|+++|.-|++||..++.--.+-.....+++..
T Consensus 72 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~ 107 (525)
T TIGR02231 72 RLAELRKQIRELEAELRDLEDRGDALKALAKFLEDI 107 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556666666666666666655444444444444444
No 149
>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=41.55 E-value=47 Score=22.69 Aligned_cols=18 Identities=28% Similarity=0.420 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHhhhhc
Q 038668 38 VLEREIGLLQEELKSVED 55 (83)
Q Consensus 38 ~LeqEi~fLeeEL~~LE~ 55 (83)
.|++||.+-+++|++||.
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 150
>PRK09343 prefoldin subunit beta; Provisional
Probab=41.52 E-value=39 Score=22.99 Aligned_cols=20 Identities=20% Similarity=0.270 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHhhhhc
Q 038668 36 VQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~ 55 (83)
++.|+..+.|++.+++.||+
T Consensus 73 ~~~l~~r~E~ie~~ik~lek 92 (121)
T PRK09343 73 EKELKERKELLELRSRTLEK 92 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555554
No 151
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=41.44 E-value=31 Score=31.20 Aligned_cols=22 Identities=41% Similarity=0.528 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~L 53 (83)
+.||+++ ||..|+-|||||+.+
T Consensus 348 ~kqak~K-lee~i~elEEElk~~ 369 (832)
T KOG2077|consen 348 VKQAKLK-LEEKIRELEEELKKA 369 (832)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHH
Confidence 5566664 678899999998876
No 152
>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=41.29 E-value=93 Score=20.34 Aligned_cols=34 Identities=21% Similarity=0.282 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcc--chhhhhhH
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDV--QPASICCK 64 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~--~~aS~~Ck 64 (83)
.+.+.++.|+.++.-++.++.+++.- +.+....+
T Consensus 4 ~l~~~~~~L~~~~~~l~~~i~~~~~~l~~~~~~~v~ 39 (83)
T PF07061_consen 4 SLEAEIQELKEQIEQLEKEISELEAELIEDPEKIVK 39 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHH
Confidence 56677777777777777777777664 44444433
No 153
>PRK14622 hypothetical protein; Provisional
Probab=41.24 E-value=42 Score=22.64 Aligned_cols=26 Identities=19% Similarity=0.261 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
..++.+.|++++++.-+|+||+..+=
T Consensus 4 ~~lmkqaq~mQ~~m~~~q~el~~~~v 29 (103)
T PRK14622 4 QYLMRQAKKLEKAMADAKEKLAEIAV 29 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccEE
Confidence 45777889999999999999998753
No 154
>PRK05560 DNA gyrase subunit A; Validated
Probab=40.91 E-value=65 Score=28.47 Aligned_cols=49 Identities=20% Similarity=0.159 Sum_probs=40.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCC
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPD 75 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 75 (83)
+=.||+..-.++.+-++.-++++|+-|||+-.|-..-.+|+..+.+..|
T Consensus 349 ~~~~r~~~~~~r~~~~l~~~~~~~~~l~g~~~~~~~~d~vI~iir~s~~ 397 (805)
T PRK05560 349 FLEHRKEVITRRTRFELRKAEERAHILEGLLIALDNIDEVIALIRASPT 397 (805)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHcCCC
Confidence 3478999999999999999999999999999997777788887765543
No 155
>PRK00587 hypothetical protein; Provisional
Probab=40.85 E-value=38 Score=22.96 Aligned_cols=24 Identities=13% Similarity=0.238 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
-++.+.+.+++++.-+|+||...|
T Consensus 5 ~lmkqaqkmQ~km~~~QeeL~~~~ 28 (99)
T PRK00587 5 KLAQQLKKMQNTMEKKQKEFEEKE 28 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccE
Confidence 356678899999999999999887
No 156
>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5
Probab=40.65 E-value=60 Score=28.17 Aligned_cols=37 Identities=24% Similarity=0.336 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh-hhccchhhhhhHHH
Q 038668 30 RRQMVKVQVLEREIGLLQEELKS-VEDVQPASICCKEV 66 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~-LE~~~~aS~~CkEv 66 (83)
-+++++++.|.+|+.-|+++|+. ++....-|+.++|-
T Consensus 83 ~~Lq~E~~~L~kElE~L~~qlqaqv~~ne~Ls~L~~Eq 120 (617)
T PF15070_consen 83 QQLQAEAEHLRKELESLEEQLQAQVENNEQLSRLNQEQ 120 (617)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56778888888888888877765 44445556666543
No 157
>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=40.57 E-value=33 Score=21.48 Aligned_cols=16 Identities=25% Similarity=0.318 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 038668 32 QMVKVQVLEREIGLLQ 47 (83)
Q Consensus 32 ~~ael~~LeqEi~fLe 47 (83)
+.+++..|+.||.-||
T Consensus 36 i~~al~~Lk~EIaklE 51 (53)
T PF08898_consen 36 IAAALEKLKAEIAKLE 51 (53)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 5667777777777765
No 158
>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=40.29 E-value=47 Score=22.33 Aligned_cols=27 Identities=15% Similarity=0.082 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
+-+..+++.|+++|..|++-++.|+.+
T Consensus 82 ~~l~~~~~~l~~~i~~L~~~~~~L~~~ 108 (127)
T TIGR02047 82 ALLDEHISHVRARIIKLQALIEQLVDL 108 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 335567777788887777777776643
No 159
>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=40.16 E-value=79 Score=20.34 Aligned_cols=44 Identities=20% Similarity=0.258 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh----hccchhhh--h-------hHHHHHHhccCCC
Q 038668 32 QMVKVQVLEREIGLLQEELKSV----EDVQPASI--C-------CKEVDDFVGAKPD 75 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~L----E~~~~aS~--~-------CkEv~~~Ves~pD 75 (83)
+..=|+.|+-|+..|.-|+.+| ..++++.. . .++++.-+|.+.|
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 3444666777766666666555 33444432 2 4555666665544
No 160
>PRK09039 hypothetical protein; Validated
Probab=39.62 E-value=44 Score=26.44 Aligned_cols=28 Identities=18% Similarity=0.283 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~ 57 (83)
.++.++|..|..++.-||.+|..+|...
T Consensus 140 ~~L~~qI~aLr~Qla~le~~L~~ae~~~ 167 (343)
T PRK09039 140 ELLNQQIAALRRQLAALEAALDASEKRD 167 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555666666666666666666666554
No 161
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=39.58 E-value=66 Score=28.32 Aligned_cols=49 Identities=14% Similarity=0.158 Sum_probs=42.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCC
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPD 75 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 75 (83)
+=.||+..=.+|.+-++.-++++|+-|||+-.|-..-.+|+..+.+..|
T Consensus 359 f~~~R~~~~~rr~~~~l~k~~~r~~~l~g~~~~~~~id~vI~iir~s~~ 407 (742)
T PRK05561 359 WLDHRREVVTRRSQFRLDKVEKRLHILEGLLIAFLNIDEVIRIIRESDE 407 (742)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcCcc
Confidence 3479999999999999999999999999998888888888887766544
No 162
>PF03087 DUF241: Arabidopsis protein of unknown function; InterPro: IPR004320 This family represents plant proteins of unknown function.
Probab=39.53 E-value=53 Score=24.53 Aligned_cols=26 Identities=27% Similarity=0.300 Sum_probs=17.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~L 53 (83)
.....+..+..||.-|.-||++|+.+
T Consensus 192 ~~~~~~~~Le~LE~~Ie~lE~glE~v 217 (231)
T PF03087_consen 192 EVQNAQKRLEELEECIEELEEGLECV 217 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666777777777777777654
No 163
>PRK14627 hypothetical protein; Provisional
Probab=39.43 E-value=41 Score=22.54 Aligned_cols=23 Identities=30% Similarity=0.365 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE 54 (83)
++...|.+++++.-+|+||+..+
T Consensus 6 ~mkqaq~mQ~km~~~Q~el~~~~ 28 (100)
T PRK14627 6 LMQMAQQMQRQMQKVQEELAATI 28 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHhccE
Confidence 56678889999999999999876
No 164
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=39.41 E-value=48 Score=25.62 Aligned_cols=28 Identities=25% Similarity=0.223 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~ 57 (83)
++.+..+.+|.+|=.+|+.+|++|++..
T Consensus 115 ~~~~~~~e~l~~e~~~l~~rl~ql~~~~ 142 (232)
T KOG2483|consen 115 ATQQQDIEDLSRENRKLKARLEQLSLPQ 142 (232)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCcc
Confidence 4567789999999999999999999776
No 165
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=39.08 E-value=56 Score=23.14 Aligned_cols=24 Identities=25% Similarity=0.436 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
.+-.+|+.|+++...|+++|++|.
T Consensus 81 ~Le~ri~tLekQe~~l~e~l~eLq 104 (119)
T COG1382 81 TLELRIKTLEKQEEKLQERLEELQ 104 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677788888888888887775
No 166
>PRK14621 hypothetical protein; Provisional
Probab=38.83 E-value=42 Score=23.07 Aligned_cols=27 Identities=15% Similarity=0.169 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.-++-+.|++++++.-+|+||+..+=.
T Consensus 7 ~~mmkqaq~mQ~km~~~Q~eL~~~~v~ 33 (111)
T PRK14621 7 GDMMKQIQQAGEKMQDVQKQLEKLVAH 33 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccEEE
Confidence 346677899999999999999987533
No 167
>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=38.60 E-value=38 Score=27.74 Aligned_cols=23 Identities=26% Similarity=0.345 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE 54 (83)
++-+|+.|+++|.-++.||+.+-
T Consensus 180 Lqkk~~~l~~~l~~~~~eL~~~~ 202 (323)
T PF08537_consen 180 LQKKIDELEERLNDLEKELEITK 202 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46678889999999998887753
No 168
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=38.48 E-value=51 Score=22.69 Aligned_cols=27 Identities=37% Similarity=0.396 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+..+..++..|+++|..|+...+.|+.
T Consensus 81 ~~~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (135)
T PRK10227 81 KRRTLEKVAEIERHIEELQSMRDQLLA 107 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445667788888888888887777764
No 169
>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=38.47 E-value=68 Score=28.25 Aligned_cols=49 Identities=20% Similarity=0.195 Sum_probs=41.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCC
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPD 75 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 75 (83)
+=.||+..=.+|.+-++.-+++.++-|||+-.+-..+.+++..+.+..|
T Consensus 346 ~~~~R~~~~~rr~~~~l~k~~~r~~il~g~~~~~~~id~~i~iir~~~~ 394 (738)
T TIGR01061 346 YIKHCHEVIINRSKYELEKASKRLEIVEGLIKAISIIDEIIKLIRSSED 394 (738)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhHHHHcCCC
Confidence 3478888888999999999999999999999988889999988765554
No 170
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=38.45 E-value=42 Score=22.34 Aligned_cols=20 Identities=40% Similarity=0.529 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 038668 30 RRQMVKVQVLEREIGLLQEE 49 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeE 49 (83)
.|...++++|-||+..+|.|
T Consensus 89 s~le~~i~~L~qeiAl~e~~ 108 (115)
T PF10066_consen 89 SRLEEKIKRLAQEIALLEAE 108 (115)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 45666777777777777544
No 171
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=38.40 E-value=57 Score=25.24 Aligned_cols=14 Identities=29% Similarity=0.230 Sum_probs=9.2
Q ss_pred hhhHHHHHHhccCC
Q 038668 61 ICCKEVDDFVGAKP 74 (83)
Q Consensus 61 ~~CkEv~~~Ves~p 74 (83)
.--++++.+....+
T Consensus 100 ~~Lr~lL~~~~~~~ 113 (284)
T COG1792 100 KRLKELLDFKESSS 113 (284)
T ss_pred HHHHHHhCCccccc
Confidence 34577777777763
No 172
>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=38.34 E-value=58 Score=21.09 Aligned_cols=25 Identities=12% Similarity=0.126 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
..+...++.|+++|..|+.-.+.|+
T Consensus 74 ~~l~~~~~~l~~~i~~l~~~~~~l~ 98 (102)
T cd04789 74 SLLLERLSSLAEQIARKQQARDLLA 98 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555444443
No 173
>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=38.20 E-value=62 Score=16.88 Aligned_cols=20 Identities=25% Similarity=0.199 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHhhhh
Q 038668 35 KVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE 54 (83)
+-+.||-+..-|++|.+-+|
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 34567777777777766543
No 174
>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=38.03 E-value=68 Score=18.47 Aligned_cols=23 Identities=26% Similarity=0.239 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+..+++.++++|..|+.-.+.|+
T Consensus 41 l~~~~~~i~~~i~~L~~~~~~L~ 63 (65)
T PF09278_consen 41 LEEKLEEIEEQIAELQALRAQLE 63 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 44455556666655554444443
No 175
>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=38.00 E-value=53 Score=19.51 Aligned_cols=24 Identities=29% Similarity=0.455 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~ 52 (83)
+.|..-||..|+.-++-|+.|++.
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 456667888888888888888764
No 176
>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=38.00 E-value=83 Score=21.33 Aligned_cols=20 Identities=30% Similarity=0.398 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHhhhh
Q 038668 35 KVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE 54 (83)
+|..|+.+|..++++++.++
T Consensus 146 ki~~l~~~i~~~e~~~~~~~ 165 (218)
T cd07596 146 KVEELEEELEEAESALEEAR 165 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555555444
No 177
>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=37.91 E-value=67 Score=20.85 Aligned_cols=24 Identities=29% Similarity=0.259 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
-+..+++.|+++|.-|+.-++.|+
T Consensus 83 ~l~~~~~~l~~~i~~l~~~~~~l~ 106 (113)
T cd01109 83 LLEEHREELEEQIAELQETLAYLD 106 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555444443
No 178
>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=37.70 E-value=40 Score=24.61 Aligned_cols=24 Identities=29% Similarity=0.632 Sum_probs=17.9
Q ss_pred hhhhhHHHHHHhccCCCCCCcccC
Q 038668 59 ASICCKEVDDFVGAKPDPLVAMYD 82 (83)
Q Consensus 59 aS~~CkEv~~~Ves~pDPLLP~t~ 82 (83)
+-.+|-=+-.|.-.-|+||+|...
T Consensus 61 ~h~va~lLK~flReLPePLi~~~~ 84 (208)
T cd04392 61 AHDCATVLKGFLGELPEPLLTHAH 84 (208)
T ss_pred HHHHHHHHHHHHHhCCCccCCHHH
Confidence 345666777788888999999643
No 179
>PRK14127 cell division protein GpsB; Provisional
Probab=37.69 E-value=56 Score=22.61 Aligned_cols=22 Identities=23% Similarity=0.320 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhc
Q 038668 34 VKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~ 55 (83)
..+..|.+|+..|++|+..|+.
T Consensus 37 ~dye~l~~e~~~Lk~e~~~l~~ 58 (109)
T PRK14127 37 KDYEAFQKEIEELQQENARLKA 58 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555666666666655543
No 180
>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=37.55 E-value=74 Score=28.13 Aligned_cols=49 Identities=18% Similarity=0.101 Sum_probs=41.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCC
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPD 75 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 75 (83)
+=.||+..-.++.+-++.-++++|+-|+|+-.+-..-.+++..+.+..|
T Consensus 346 ~~~~r~~~~~~r~~~~l~~~~~~~~~~~g~~~~~~~~d~vi~~ir~~~~ 394 (800)
T TIGR01063 346 FVEHRKDVITRRTIFELRKAEERAHILEGLLIALDNIDEVIALIRASQN 394 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhCCC
Confidence 3379999999999999999999999999999988888888877765543
No 181
>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=37.55 E-value=58 Score=22.03 Aligned_cols=23 Identities=22% Similarity=0.250 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~ 52 (83)
++++.++..|.+|+..|+-+|+.
T Consensus 52 ~~L~~e~~~l~~E~e~L~~~l~~ 74 (87)
T PF12709_consen 52 DELENENKALKRENEQLKKKLDT 74 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788889999999988887753
No 182
>PRK14625 hypothetical protein; Provisional
Probab=37.55 E-value=45 Score=22.96 Aligned_cols=24 Identities=17% Similarity=0.231 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
-++.+.|.+++++.-+|+||+..+
T Consensus 6 ~mmkqaq~mQ~km~~~Q~el~~~~ 29 (109)
T PRK14625 6 GLMKQAQAMQQKLADAQARLAETT 29 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccE
Confidence 356778899999999999999887
No 183
>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=37.47 E-value=52 Score=22.74 Aligned_cols=19 Identities=26% Similarity=0.452 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 038668 35 KVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~L 53 (83)
++..|+++|..|+++++.+
T Consensus 113 ~l~~L~~~i~~L~~~~~~~ 131 (134)
T PF07047_consen 113 RLEELEERIEELEEQVEKQ 131 (134)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444443
No 184
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=37.46 E-value=60 Score=28.58 Aligned_cols=43 Identities=19% Similarity=0.247 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcc--chhhh---hhHHHHHHhccCCCC
Q 038668 34 VKVQVLEREIGLLQEELKSVEDV--QPASI---CCKEVDDFVGAKPDP 76 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~--~~aS~---~CkEv~~~Ves~pDP 76 (83)
.++..|++|+.-|++|+++|+.+ .+.-. .-+|+.+.-..=.||
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 46778899999999999999988 54433 356666655444443
No 185
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=37.40 E-value=46 Score=26.96 Aligned_cols=26 Identities=19% Similarity=0.385 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
-.|+.||...|+++..-|++||+.|.
T Consensus 216 q~~~~ae~seLq~r~~~l~~~L~~L~ 241 (289)
T COG4985 216 QQHYVAEKSELQKRLAQLQTELDALR 241 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45677888888888888888888775
No 186
>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=37.20 E-value=79 Score=20.06 Aligned_cols=26 Identities=19% Similarity=0.256 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHHHHH-HHHHHHHHHhh
Q 038668 27 YGKRRQMVKVQVLER-EIGLLQEELKS 52 (83)
Q Consensus 27 ~GkhR~~ael~~Leq-Ei~fLeeEL~~ 52 (83)
-|.+|++++|+.|.+ +.-.+-++|..
T Consensus 9 ~g~~~L~~EL~~L~~~~rpe~~~~i~~ 35 (74)
T PF03449_consen 9 EGYEKLQAELEHLKNVERPEIAEEIAE 35 (74)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence 577888888888776 44445555543
No 187
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=37.16 E-value=49 Score=22.17 Aligned_cols=20 Identities=25% Similarity=0.464 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 038668 34 VKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~L 53 (83)
..+..|+.++..++++.+++
T Consensus 80 ~~~~~l~~~~~~~~~~~~~l 99 (118)
T PF13815_consen 80 SQLEQLEERLQELQQEIEKL 99 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444443
No 188
>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=37.08 E-value=93 Score=20.43 Aligned_cols=30 Identities=13% Similarity=0.198 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhhhhh
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPASICC 63 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS~~C 63 (83)
.+++.|+.+++-.+-=+++|+++++-..|=
T Consensus 24 ~q~~~le~~~~E~~~v~~eL~~l~~d~~vy 53 (110)
T TIGR02338 24 TQKQQVEAQLKEAEKALEELERLPDDTPVY 53 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCcchhH
Confidence 344444555445554555666666554443
No 189
>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=37.04 E-value=58 Score=21.73 Aligned_cols=27 Identities=33% Similarity=0.417 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
..++.+++.|+++|..|+.-++.|+.+
T Consensus 82 ~~l~~~~~~l~~~i~~L~~~~~~L~~~ 108 (127)
T TIGR02044 82 ARTLEKVAEIERKISELQSMRDQLEAL 108 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667777888887777777776654
No 190
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=37.00 E-value=57 Score=24.94 Aligned_cols=26 Identities=23% Similarity=0.382 Sum_probs=18.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhh
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~L 53 (83)
++++++|+-..||+|.+.|..++..|
T Consensus 82 ~~~~L~aq~rqlEkE~q~L~~~i~~L 107 (193)
T PF14662_consen 82 ENRSLLAQARQLEKEQQSLVAEIETL 107 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888888888777776666554
No 191
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=36.87 E-value=53 Score=22.20 Aligned_cols=25 Identities=24% Similarity=0.320 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
..++++.|.++..+|+.|++.|+.=
T Consensus 62 ~~~e~~~L~~~~~~l~~ei~~L~dg 86 (117)
T COG2919 62 QQAELEKLSARNTALEAEIKDLKDG 86 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccc
Confidence 3566777777778888888887765
No 192
>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=36.81 E-value=48 Score=22.17 Aligned_cols=24 Identities=13% Similarity=0.115 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+..+++.|+++|..|++-++.|+.
T Consensus 85 l~~~~~~l~~~~~~l~~~~~~L~~ 108 (118)
T cd04776 85 IEKRRAELEQQRRDIDAALAELDA 108 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666666666554
No 193
>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=36.54 E-value=72 Score=24.43 Aligned_cols=35 Identities=20% Similarity=0.255 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHh
Q 038668 36 VQVLEREIGLLQEELKSVEDVQPASICCKEVDDFV 70 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~V 70 (83)
|..++.||.-|++|+.+|--+-..-..-.+|++-+
T Consensus 134 ie~~~eEi~~lk~en~~L~elae~~~~la~~ie~l 168 (200)
T PF07412_consen 134 IEQKDEEIAKLKEENEELKELAEHVQYLAEVIERL 168 (200)
T ss_dssp HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444445555555544433333344444433
No 194
>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=36.24 E-value=61 Score=23.65 Aligned_cols=32 Identities=28% Similarity=0.254 Sum_probs=23.3
Q ss_pred chhHHHHHHH--HHHHHHHHHHHHHHHhhhhccc
Q 038668 26 LYGKRRQMVK--VQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 26 ~~GkhR~~ae--l~~LeqEi~fLeeEL~~LE~~~ 57 (83)
|.-|.+++++ ...|+.+|..|++|+++|+.--
T Consensus 110 f~~rk~l~~e~~~~~l~~~i~~L~~e~~~L~~~~ 143 (189)
T PF10211_consen 110 FGMRKALQAEQGKQELEEEIEELEEEKEELEKQV 143 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555 5788999999999999987643
No 195
>smart00434 TOP4c DNA Topoisomerase IV. Bacterial DNA topoisomerase IV, GyrA, ParC
Probab=36.14 E-value=35 Score=28.08 Aligned_cols=26 Identities=27% Similarity=0.552 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchh
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
.++.+|++|+.-|++|+++|+++-+.
T Consensus 415 ~e~~kL~~e~~~l~~ei~~l~~~l~~ 440 (445)
T smart00434 415 LEVEKLEKELKELEKEIEDLEKILAS 440 (445)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 46788999999999999999887553
No 196
>KOG4094 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.91 E-value=48 Score=25.18 Aligned_cols=34 Identities=26% Similarity=0.292 Sum_probs=24.4
Q ss_pred CCCcchhH-----HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 22 AALDLYGK-----RRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 22 g~~D~~Gk-----hR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
|+||-+.+ ||---+-..|||+.+.+.+|+++-..
T Consensus 54 GPPD~~SnlRp~v~~y~deEs~Ler~lRl~R~E~~~WN~ 92 (178)
T KOG4094|consen 54 GPPDNLSNLRPIVLRYVDEESELERQLRLAREELNQWNS 92 (178)
T ss_pred CCchhhhhhhHHHHHhCCcccHHHHHHHHHHHHHHHHHH
Confidence 46665554 33445678899999999999987643
No 197
>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=35.79 E-value=64 Score=21.09 Aligned_cols=23 Identities=22% Similarity=0.124 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+..+++.|+++|..|+.-++.|+
T Consensus 84 l~~~~~~l~~~i~~l~~~~~~l~ 106 (123)
T cd04770 84 LEEKLAEVEAKIAELQALRAELA 106 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444333
No 198
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=35.58 E-value=67 Score=21.21 Aligned_cols=35 Identities=14% Similarity=0.270 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHhhhhccchhhhh------hHHHHHHhc
Q 038668 37 QVLEREIGLLQEELKSVEDVQPASIC------CKEVDDFVG 71 (83)
Q Consensus 37 ~~LeqEi~fLeeEL~~LE~~~~aS~~------CkEv~~~Ve 71 (83)
..++..++-|+....++|+++.+..+ =.+|..|+.
T Consensus 18 ae~Q~rlK~Le~qk~E~EN~EIv~~VR~~~mtp~eL~~~L~ 58 (83)
T PF14193_consen 18 AELQARLKELEAQKTEAENLEIVQMVRSMKMTPEELAAFLR 58 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence 33444444555555555666555443 345555543
No 199
>COG0718 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.45 E-value=53 Score=22.69 Aligned_cols=28 Identities=25% Similarity=0.337 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccch
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDVQP 58 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~~~ 58 (83)
-++.+.|++++++.-+|+||.+.|=...
T Consensus 9 ~l~kqaqqmQ~~~~~~Q~ela~~ev~g~ 36 (105)
T COG0718 9 KLMKQAQQMQKKMQKMQEELAQKEVTGK 36 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcEEeee
Confidence 4567789999999999999998874443
No 200
>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=35.39 E-value=77 Score=19.87 Aligned_cols=19 Identities=21% Similarity=0.377 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 038668 33 MVKVQVLEREIGLLQEELK 51 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~ 51 (83)
...|+.|+..|.-|+.+++
T Consensus 9 s~dVq~L~~kvdqLs~dv~ 27 (56)
T PF04728_consen 9 SSDVQTLNSKVDQLSSDVN 27 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444443
No 201
>COG3599 DivIVA Cell division initiation protein [Cell division and chromosome partitioning]
Probab=35.34 E-value=60 Score=24.65 Aligned_cols=27 Identities=37% Similarity=0.436 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
+.++.+++.|+++|..|+++|+.....
T Consensus 40 e~~l~e~~~l~~~i~~L~~~l~~~~~~ 66 (212)
T COG3599 40 EQLLDENEDLEDEIDELKEELKEAADA 66 (212)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 567788999999999999999988776
No 202
>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=35.34 E-value=69 Score=22.11 Aligned_cols=29 Identities=21% Similarity=0.389 Sum_probs=22.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+..+...++-+.+++++..|++++++|+-
T Consensus 98 Rs~~ke~~Ke~~~~~~l~~L~~~i~~L~~ 126 (134)
T PF07047_consen 98 RSARKEAKKEEELQERLEELEERIEELEE 126 (134)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555667788889999999999988863
No 203
>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=35.18 E-value=46 Score=27.42 Aligned_cols=23 Identities=30% Similarity=0.458 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
..|..|++||.-|+.||+.|+--
T Consensus 144 ~Ri~~Le~e~~~i~~EI~~l~aG 166 (478)
T PF11855_consen 144 RRIAELEREIAEIDAEIDRLEAG 166 (478)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCC
Confidence 34788999999999999888743
No 204
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=34.71 E-value=52 Score=24.39 Aligned_cols=22 Identities=27% Similarity=0.225 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHhhhhcc
Q 038668 35 KVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE~~ 56 (83)
....|.+|...|++|+.+|+..
T Consensus 70 ~~~~l~~en~~L~~e~~~l~~~ 91 (276)
T PRK13922 70 SLFDLREENEELKKELLELESR 91 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555554443
No 205
>PRK11637 AmiB activator; Provisional
Probab=34.68 E-value=59 Score=25.81 Aligned_cols=19 Identities=16% Similarity=0.368 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 038668 35 KVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~L 53 (83)
+|+.++++|.-|+++|+.+
T Consensus 97 ~i~~~~~ei~~l~~eI~~~ 115 (428)
T PRK11637 97 TLNQLNKQIDELNASIAKL 115 (428)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444333
No 206
>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=34.62 E-value=42 Score=23.37 Aligned_cols=25 Identities=16% Similarity=0.315 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHhhhhccchh
Q 038668 35 KVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
|-+.|...|.|||.|.+.+|.+...
T Consensus 26 ERaEmkarIa~LEGE~r~~e~l~~d 50 (134)
T PF08232_consen 26 ERAEMKARIAFLEGERRGQENLKKD 50 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345666788888888877776643
No 207
>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=34.47 E-value=78 Score=19.79 Aligned_cols=24 Identities=13% Similarity=0.296 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+-..|..+..|+.-|.++++.++.
T Consensus 12 ~~~~i~tvk~en~~i~~~ve~i~e 35 (55)
T PF05377_consen 12 IESSINTVKKENEEISESVEKIEE 35 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444466666666666666665553
No 208
>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=34.21 E-value=49 Score=22.98 Aligned_cols=25 Identities=28% Similarity=0.454 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
|.+.+++.+++.+.-|++||.++++
T Consensus 78 ~~~~e~~~~~~~l~~l~~el~~l~~ 102 (191)
T PF04156_consen 78 RLQGELSELQQQLQQLQEELDQLQE 102 (191)
T ss_pred hhhhhHHhHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555555443
No 209
>PRK10697 DNA-binding transcriptional activator PspC; Provisional
Probab=34.13 E-value=67 Score=22.49 Aligned_cols=23 Identities=17% Similarity=0.313 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhc
Q 038668 33 MVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.+.+.+++++...+|.-|.++|.
T Consensus 80 ~~~l~~~~~~~~~~e~Rlr~mE~ 102 (118)
T PRK10697 80 SELLDEVDRELAAGEQRLREMER 102 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34488999999999999998885
No 210
>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=34.12 E-value=69 Score=25.12 Aligned_cols=24 Identities=29% Similarity=0.443 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
++.++|..||+|-.-|..||++|+
T Consensus 61 ~l~~eL~~LE~e~~~l~~el~~le 84 (314)
T PF04111_consen 61 ELLQELEELEKEREELDQELEELE 84 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555554444444444443
No 211
>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=34.10 E-value=68 Score=23.91 Aligned_cols=24 Identities=21% Similarity=0.273 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHh
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELK 51 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~ 51 (83)
=|..+..||.++|.||..|..-|-
T Consensus 30 E~eeLr~EL~KvEeEI~TLrqvL~ 53 (162)
T PF04201_consen 30 EREELRSELAKVEEEIQTLRQVLA 53 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466778888889999888876543
No 212
>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=34.07 E-value=71 Score=20.35 Aligned_cols=24 Identities=17% Similarity=0.234 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+.+.|.++...|.-||..|..||.
T Consensus 55 q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 55 QKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345567777888888888888773
No 213
>COG1722 XseB Exonuclease VII small subunit [DNA replication, recombination, and repair]
Probab=33.94 E-value=26 Score=22.97 Aligned_cols=38 Identities=26% Similarity=0.137 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhcc
Q 038668 35 KVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGA 72 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves 72 (83)
=|++||+-.--|++=|+.+|.--..++-|++.+.-++.
T Consensus 22 IV~~LE~Gel~Le~sl~~~erG~~L~k~c~~~L~~Ae~ 59 (81)
T COG1722 22 IVESLESGELPLEEALKEFERGMALYKECQEKLQQAEQ 59 (81)
T ss_pred HHHHHHcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677777777889999999988999999998876653
No 214
>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=33.93 E-value=55 Score=21.37 Aligned_cols=39 Identities=18% Similarity=0.262 Sum_probs=26.6
Q ss_pred HHHHHHHHhhhhc-----cchhhhhhHHHHHHhccCCCCCCccc
Q 038668 43 IGLLQEELKSVED-----VQPASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 43 i~fLeeEL~~LE~-----~~~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
+..|.+.++.-.. ...+..+|.=+-.|+..-|+||+|..
T Consensus 31 ~~~l~~~~~~~~~~~~~~~~~~~~va~~lK~~l~~Lp~pli~~~ 74 (169)
T cd00159 31 IEELKKKFDRGEDIDDLEDYDVHDVASLLKLYLRELPEPLIPFE 74 (169)
T ss_pred HHHHHHHHhcCCCCccccccCHHHHHHHHHHHHHcCCCccCCHH
Confidence 3344444444433 33466678889999999999999964
No 215
>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=33.93 E-value=72 Score=20.94 Aligned_cols=27 Identities=22% Similarity=0.180 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.-++.+++.|+++|..|++.++.|+..
T Consensus 82 ~~l~~~~~~l~~~i~~l~~~~~~l~~~ 108 (116)
T cd04769 82 QALEDKKQEIRAQITELQQLLARLDAF 108 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566677777777777777666543
No 216
>COG2456 Uncharacterized conserved protein [Function unknown]
Probab=33.85 E-value=58 Score=23.49 Aligned_cols=23 Identities=30% Similarity=0.377 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELK 51 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~ 51 (83)
--|+-+.++++||||..|--|+.
T Consensus 88 lfrlYl~IdkiereITelvreIA 110 (121)
T COG2456 88 LFRLYLDIDKIEREITELVREIA 110 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 35788889999999988887764
No 217
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=33.70 E-value=1e+02 Score=21.85 Aligned_cols=35 Identities=20% Similarity=0.345 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHH
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPASICCKEV 66 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv 66 (83)
+....+.|+.+++-.+.=|++||+++.-..+-|-|
T Consensus 25 ~~~qk~~le~qL~E~~~al~Ele~l~eD~~vYk~V 59 (119)
T COG1382 25 VILQKQQLEAQLKEIEKALEELEKLDEDAPVYKKV 59 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCcccHHHHHh
Confidence 34455667777777777788888887766544433
No 218
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.54 E-value=1.1e+02 Score=25.73 Aligned_cols=33 Identities=21% Similarity=0.330 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchhhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPASIC 62 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~ 62 (83)
.-+..+|++|..||.-.-+||+.++-++++-+.
T Consensus 27 ~qL~deIq~Lk~Ei~ev~~eid~~~~~e~skt~ 59 (395)
T KOG0930|consen 27 QELLDEIQRLKDEIAEVMEEIDNLESTEESKTK 59 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccccchhhH
Confidence 335678999999999999999999999986554
No 219
>PHA03386 P10 fibrous body protein; Provisional
Probab=33.53 E-value=72 Score=22.06 Aligned_cols=40 Identities=23% Similarity=0.312 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc----cchhhhhhHHHHHHhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED----VQPASICCKEVDDFVG 71 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~----~~~aS~~CkEv~~~Ve 71 (83)
|.+.|+.++..+..||.-++.|++ ++.-+.-.-++...|.
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 567788877777777777777663 4444555555555544
No 220
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=33.43 E-value=44 Score=30.54 Aligned_cols=32 Identities=25% Similarity=0.360 Sum_probs=25.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 25 DLYGKRRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 25 D~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.+-|.=-..+++.+|+.|+..|+.|++.+++.
T Consensus 805 ~l~~~id~~~e~~rl~k~~~k~~~e~~~~~~k 836 (877)
T COG0525 805 PLAGLIDLAAELARLEKELEKLEKEIDRIEKK 836 (877)
T ss_pred eccchhhHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence 34555567789999999999999999988754
No 221
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=33.31 E-value=40 Score=23.55 Aligned_cols=18 Identities=44% Similarity=0.575 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHhhhhc
Q 038668 38 VLEREIGLLQEELKSVED 55 (83)
Q Consensus 38 ~LeqEi~fLeeEL~~LE~ 55 (83)
.+..||.-||++|+++|.
T Consensus 7 ~I~~eI~kLqe~lk~~e~ 24 (98)
T PRK13848 7 KIREEIAKLQEQLKQAET 24 (98)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 456778888888887765
No 222
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=33.14 E-value=75 Score=26.72 Aligned_cols=28 Identities=29% Similarity=0.274 Sum_probs=20.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-.++++.+++.+++++..+++||+++-.
T Consensus 216 ~l~~l~~~l~~l~~~~~~~~~~l~~~~~ 243 (646)
T PRK05771 216 LIREIKEELEEIEKERESLLEELKELAK 243 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466777788888888888888877654
No 223
>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=33.11 E-value=85 Score=20.85 Aligned_cols=25 Identities=24% Similarity=0.412 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+.+.....+|++++..|+.+++.++
T Consensus 4 ~~Lk~~~~~L~~~~~~le~~i~~~~ 28 (171)
T PF03357_consen 4 LKLKKTIRRLEKQIKRLEKKIKKLE 28 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677778888888888888888875
No 224
>PF14735 HAUS4: HAUS augmin-like complex subunit 4
Probab=32.37 E-value=79 Score=24.30 Aligned_cols=31 Identities=23% Similarity=0.358 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhccchh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
|..+..+++.++++..-.+.+|++.|++++.
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 225
>cd04373 RhoGAP_p190 RhoGAP_p190: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of p190-like proteins. p190, also named RhoGAP5, plays a role in neuritogenesis and axon branch stability. p190 shows a preference for Rho, over Rac and Cdc42, and consists of an N-terminal GTPase domain and a C-terminal GAP domain. The central portion of p190 contains important regulatory phosphorylation sites. 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=32.37 E-value=47 Score=23.57 Aligned_cols=24 Identities=21% Similarity=0.461 Sum_probs=19.6
Q ss_pred hhhhhhHHHHHHhccCCCCCCccc
Q 038668 58 PASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 58 ~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
.+-.+|-=+-.|...-||||+|..
T Consensus 67 ~~~~va~~lK~fLreLPePlip~~ 90 (185)
T cd04373 67 TVNAVAGALKSFFSELPDPLIPYS 90 (185)
T ss_pred cHHHHHHHHHHHHhcCCchhccHH
Confidence 345678888889999999999965
No 226
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=32.37 E-value=83 Score=21.05 Aligned_cols=19 Identities=21% Similarity=0.414 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 038668 34 VKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~ 52 (83)
.++++|++.++-+++|++.
T Consensus 94 ~~~~~l~~~~~~~~~~~k~ 112 (118)
T PF13815_consen 94 QEIEKLKQKLKKQKEEIKK 112 (118)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444443
No 227
>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=32.30 E-value=89 Score=19.95 Aligned_cols=19 Identities=21% Similarity=0.441 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHhhhh
Q 038668 36 VQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE 54 (83)
.+.|.+....|++++++|+
T Consensus 75 ~~~l~~~~~~l~~~i~~l~ 93 (103)
T cd01106 75 LEALREQKELLEEKKERLD 93 (103)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4555566666666665554
No 228
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=32.27 E-value=49 Score=23.80 Aligned_cols=25 Identities=20% Similarity=0.442 Sum_probs=20.2
Q ss_pred HHHH-HHHHHHHHHHHHHHhhhhccc
Q 038668 33 MVKV-QVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 33 ~ael-~~LeqEi~fLeeEL~~LE~~~ 57 (83)
|.|+ .+||++|.+|++.++.+.|..
T Consensus 13 Q~E~N~QLekqi~~l~~kiek~r~n~ 38 (129)
T PF15372_consen 13 QLELNDQLEKQIIILREKIEKIRGNP 38 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 4444 579999999999999998843
No 229
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=32.12 E-value=47 Score=30.18 Aligned_cols=26 Identities=12% Similarity=0.270 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.|+.+++++|+.||.-++.+|...+.
T Consensus 845 ~rLekel~kl~Kel~kl~~~L~n~~f 870 (1052)
T PRK14900 845 ARVDKEIGKVDQDLAVLERKLQNPSF 870 (1052)
T ss_pred hhHHHHHHHHHHHHHHHHHHhcCchh
Confidence 46666666666666666666666554
No 230
>PRK09039 hypothetical protein; Validated
Probab=31.88 E-value=61 Score=25.66 Aligned_cols=22 Identities=27% Similarity=0.566 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhhc
Q 038668 34 VKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.+|..|++||.-|+..|..||.
T Consensus 137 ~~V~~L~~qI~aLr~Qla~le~ 158 (343)
T PRK09039 137 AQVELLNQQIAALRRQLAALEA 158 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555555543
No 231
>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=31.84 E-value=79 Score=21.11 Aligned_cols=24 Identities=8% Similarity=0.041 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
++.+++.|+++|.-|++-.+.|+.
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~L~~ 107 (126)
T cd04785 84 ARAHLADVRARIADLRRLEAELKR 107 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566666666666665555553
No 232
>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=31.62 E-value=1e+02 Score=24.94 Aligned_cols=44 Identities=18% Similarity=0.126 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCCCCCccc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
+.++++.|.++|.-|+++++.+|. --.+++..+-..++|-.|+.
T Consensus 74 l~~~~~~l~~~~~~~~~~~~~~~~------~~~~~~~~lPN~~~~~vP~g 117 (418)
T TIGR00414 74 IKKELKELKEELTELSAALKALEA------ELQDKLLSIPNIPHESVPVG 117 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHhCCCCCCccCCCC
Confidence 444556666666666666655543 34566777777777777764
No 233
>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=31.46 E-value=63 Score=23.19 Aligned_cols=28 Identities=21% Similarity=0.265 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhhh
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPASI 61 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS~ 61 (83)
.-++..+.+|.-|+.||+.++.+-|...
T Consensus 103 ~~~~~s~~~i~~l~keL~~i~~~~P~e~ 130 (161)
T PF05873_consen 103 EFEAESKKRIAELEKELANIESARPFEQ 130 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT-------
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCChHh
Confidence 4456678889999999999999888765
No 234
>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=31.25 E-value=50 Score=21.36 Aligned_cols=21 Identities=14% Similarity=0.265 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 038668 34 VKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE 54 (83)
..+..|++.+..+++++++|+
T Consensus 76 ~~~~ll~~~~~~l~~~i~~L~ 96 (99)
T cd04772 76 SALALVDAAHALLQRYRQQLD 96 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 335677777777777777775
No 235
>smart00150 SPEC Spectrin repeats.
Probab=31.24 E-value=1e+02 Score=17.71 Aligned_cols=33 Identities=21% Similarity=0.319 Sum_probs=27.6
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 24 LDLYGKRRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 24 ~D~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.|.-+-..++.+.+.|..+|.-.+..++.+..+
T Consensus 28 ~d~~~~~~~~~~~~~~~~e~~~~~~~v~~~~~~ 60 (101)
T smart00150 28 KDLESVEALLKKHEALEAELEAHEERVEALNEL 60 (101)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 588888888889999999998888888887665
No 236
>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=31.18 E-value=38 Score=21.76 Aligned_cols=17 Identities=41% Similarity=0.665 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHhh
Q 038668 36 VQVLEREIGLLQEELKS 52 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~ 52 (83)
|.+|||||.++=.|+++
T Consensus 1 lE~ldQ~iTl~LQeID~ 17 (66)
T PF08655_consen 1 LEQLDQEITLLLQEIDS 17 (66)
T ss_pred CcHHHHHHHHHHHHHHH
Confidence 45899999998777764
No 237
>PF08618 Opi1: Transcription factor Opi1; InterPro: IPR013927 Opi1 is a leucine zipper containing yeast transcription factor that negatively regulates phospholipid biosynthesis []. It represses the expression of several UAS(INO) cis acting element containing genes and its activity is mediated by phosphorylations catalysed by protein kinase A, protein kinase C and casein kinase II [].
Probab=31.10 E-value=1.2e+02 Score=25.65 Aligned_cols=24 Identities=21% Similarity=0.303 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+..+-.+|++.|.||+.-|++.|.
T Consensus 240 Lr~AN~~i~~~i~~Lq~~l~e~e~ 263 (427)
T PF08618_consen 240 LRLANAHIDSKINFLQDVLEEYER 263 (427)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345667899999999999999994
No 238
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=30.87 E-value=64 Score=26.17 Aligned_cols=44 Identities=25% Similarity=0.242 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCCCCCccc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
+.++++.|.++|.-|+++++.+|. --.+++..+-..++|=.|+.
T Consensus 71 l~~~~~~l~~~~~~~~~~~~~~~~------~~~~~~~~iPN~~~~~vP~g 114 (425)
T PRK05431 71 LIAEVKELKEEIKALEAELDELEA------ELEELLLRIPNLPHDSVPVG 114 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHhCCCCCCccCCCC
Confidence 556667777777777777776653 34566777777777777753
No 239
>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=30.83 E-value=1e+02 Score=19.94 Aligned_cols=22 Identities=32% Similarity=0.386 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~ 52 (83)
++.+.++.++.+-.-|.++|..
T Consensus 84 ~L~~~l~~l~~eN~~L~~~i~~ 105 (109)
T PF03980_consen 84 QLNARLQELEEENEALAEEIQE 105 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444443
No 240
>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=30.80 E-value=70 Score=23.85 Aligned_cols=25 Identities=16% Similarity=0.108 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
++.-+.++|++|+.-|+.+++.||.
T Consensus 101 ~~~~e~~~l~~e~~~l~~~~e~Le~ 125 (161)
T TIGR02894 101 ALQKENERLKNQNESLQKRNEELEK 125 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666677777777777777664
No 241
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=30.76 E-value=51 Score=29.93 Aligned_cols=31 Identities=19% Similarity=0.320 Sum_probs=25.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhccch
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVEDVQP 58 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~ 58 (83)
|.=-..+|+++|+.|+..|+.||+.+++.-.
T Consensus 836 ~~iD~~~e~~rLekel~kl~Kel~kl~~~L~ 866 (1052)
T PRK14900 836 GVIDLAAETARVDKEIGKVDQDLAVLERKLQ 866 (1052)
T ss_pred cccCHHHHHhhHHHHHHHHHHHHHHHHHHhc
Confidence 3334789999999999999999999887533
No 242
>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=30.66 E-value=64 Score=20.65 Aligned_cols=19 Identities=26% Similarity=0.545 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 038668 35 KVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~L 53 (83)
+++.|++.|.+|++.++.+
T Consensus 78 A~~~l~~r~~~l~~~~~~l 96 (120)
T PF02996_consen 78 AIEFLKKRIKELEEQLEKL 96 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444333
No 243
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=30.51 E-value=67 Score=27.02 Aligned_cols=19 Identities=37% Similarity=0.620 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 038668 35 KVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~L 53 (83)
++..|+++++.|++|++++
T Consensus 101 ~i~~l~~~~~~L~~~~~~l 119 (646)
T PRK05771 101 EIKELEEEISELENEIKEL 119 (646)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444433
No 244
>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=30.49 E-value=1.2e+02 Score=24.43 Aligned_cols=47 Identities=15% Similarity=0.025 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCC
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPD 75 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 75 (83)
.||+..=.+|.+-+++-++++++-|+|+-.|-.--+++...+.+.-|
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 57777778888888888888888888887777777777777665543
No 245
>PRK03762 hypothetical protein; Provisional
Probab=30.41 E-value=69 Score=21.77 Aligned_cols=25 Identities=16% Similarity=0.179 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
..++...+.+++++.-+|+||+..+
T Consensus 8 ~~m~kqaqkmQ~km~~~Q~el~~~~ 32 (103)
T PRK03762 8 SKLGEMLEQMQKKAKQLEEENANKE 32 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccE
Confidence 3456668889999999999999877
No 246
>PRK11239 hypothetical protein; Provisional
Probab=30.35 E-value=67 Score=24.97 Aligned_cols=24 Identities=29% Similarity=0.390 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+.++|..|++|+.-|+..|++|.+
T Consensus 188 Le~rv~~Le~eva~L~~~l~~l~~ 211 (215)
T PRK11239 188 LQARVEALEIEVAELKQRLDSLLA 211 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667788888888888877777653
No 247
>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=30.33 E-value=76 Score=26.25 Aligned_cols=31 Identities=29% Similarity=0.486 Sum_probs=23.3
Q ss_pred cchhHHH--HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 25 DLYGKRR--QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 25 D~~GkhR--~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
++|-=|+ ...+|++|.+||..|++|+..+-.
T Consensus 72 ~mYrLH~y~~~~~l~~l~~~i~~L~~ei~~~s~ 104 (499)
T PF05679_consen 72 YMYRLHRYFLSLELQKLRQEIAQLQREIQNMSN 104 (499)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444444 456788999999999999997755
No 248
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=30.29 E-value=89 Score=24.66 Aligned_cols=29 Identities=28% Similarity=0.339 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccch
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQP 58 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~ 58 (83)
.++..+++.+++++..|+++++.+.+...
T Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 53 (389)
T PRK03992 25 RDLEAENEKLERELERLKSELEKLKSPPL 53 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCCc
Confidence 34555666667777777777776665443
No 249
>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=30.16 E-value=17 Score=26.09 Aligned_cols=22 Identities=27% Similarity=0.351 Sum_probs=2.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 038668 29 KRRQMVKVQVLEREIGLLQEEL 50 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL 50 (83)
|.++.+++.+|.+|-.+|.+|+
T Consensus 24 rqkl~~qv~rL~qEN~~Lr~el 45 (181)
T PF09311_consen 24 RQKLRAQVRRLCQENDWLRGEL 45 (181)
T ss_dssp CHHHHT----------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555444
No 250
>PRK14624 hypothetical protein; Provisional
Probab=29.93 E-value=70 Score=22.23 Aligned_cols=26 Identities=8% Similarity=0.238 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
-++-+.|.+++++.-+|+||++.+=.
T Consensus 10 ~~mkqAq~mQ~km~~~QeeL~~~~v~ 35 (115)
T PRK14624 10 EALSNMGNIREKMEEVKKRIASIRVV 35 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccEEE
Confidence 35667788999999999999987643
No 251
>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=29.91 E-value=83 Score=22.65 Aligned_cols=23 Identities=22% Similarity=0.482 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhc
Q 038668 33 MVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.++|+.|+.++.-|++||..|..
T Consensus 59 r~~l~~l~~~l~~l~~eL~~Lr~ 81 (126)
T PF07028_consen 59 RSELKELKQELDVLSKELQALRK 81 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688899999999999988864
No 252
>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=29.83 E-value=62 Score=21.82 Aligned_cols=18 Identities=33% Similarity=0.484 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 038668 36 VQVLEREIGLLQEELKSV 53 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~L 53 (83)
|..|+++|..++.||..+
T Consensus 80 i~~L~~ql~~~~~el~~~ 97 (101)
T PF03195_consen 80 ISQLQQQLQQLQAELALV 97 (101)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 788888888888888765
No 253
>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=29.66 E-value=89 Score=21.03 Aligned_cols=25 Identities=20% Similarity=0.125 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
.-+..+++.|+++|..|+.-++.|+
T Consensus 82 ~~l~~~~~~l~~~i~~l~~~~~~l~ 106 (133)
T cd04787 82 RLIEQRLAETERRIKELLKLRDRMQ 106 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455667777777777776666554
No 254
>PF14477 Mso1_C: Membrane-polarising domain of Mso1
Probab=29.63 E-value=16 Score=23.22 Aligned_cols=26 Identities=35% Similarity=0.353 Sum_probs=19.7
Q ss_pred CCCCCCCCCCCCCCCCCcchhHHHHHH
Q 038668 8 SLVESPMGPRSPPAAALDLYGKRRQMV 34 (83)
Q Consensus 8 S~~~~~p~pksPp~g~~D~~GkhR~~a 34 (83)
|+...+|..|++-+ ..|++-|+|.++
T Consensus 2 S~~~s~~~rrsssr-lqd~yn~srqqs 27 (57)
T PF14477_consen 2 SSNASPSVRRSSSR-LQDMYNSSRQQS 27 (57)
T ss_pred CcccCCcccccHHH-HHHHHhhhhhcc
Confidence 44555666678877 899999999875
No 255
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=29.62 E-value=80 Score=21.07 Aligned_cols=29 Identities=28% Similarity=0.415 Sum_probs=19.4
Q ss_pred CCcchh-HHHHHHHHHHHHHHHHHHHHHHh
Q 038668 23 ALDLYG-KRRQMVKVQVLEREIGLLQEELK 51 (83)
Q Consensus 23 ~~D~~G-khR~~ael~~LeqEi~fLeeEL~ 51 (83)
+.|..| --+-+-.|+-|++-|.-||=||-
T Consensus 61 ~~di~~eV~kTh~aIq~LdKtIS~LEMELA 90 (95)
T PF13334_consen 61 QRDIMGEVSKTHEAIQSLDKTISSLEMELA 90 (95)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334443 24455678888888888888874
No 256
>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=29.61 E-value=85 Score=20.25 Aligned_cols=18 Identities=17% Similarity=0.088 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 038668 32 QMVKVQVLEREIGLLQEE 49 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeE 49 (83)
+..+|..||++|=-+|.+
T Consensus 14 Le~~L~~lE~qIy~~Et~ 31 (80)
T PF09340_consen 14 LEKDLAALEKQIYDKETS 31 (80)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444555554444443
No 257
>PF14265 DUF4355: Domain of unknown function (DUF4355)
Probab=29.60 E-value=1.1e+02 Score=20.13 Aligned_cols=35 Identities=26% Similarity=0.246 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHH
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDVQPASICCKE 65 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkE 65 (83)
+.+.+++.++.++.-|+.++...+-...+...+.|
T Consensus 46 k~~~e~~~~~~el~~~~~e~~~~e~~~~~~~~l~e 80 (125)
T PF14265_consen 46 KAQEELEELEKELEELEAELARRELRSEAKKVLAE 80 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45578889999999999999988888777776654
No 258
>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=29.37 E-value=73 Score=20.67 Aligned_cols=25 Identities=20% Similarity=0.298 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.+..|+.|-+.++-|++-++.||.+
T Consensus 40 d~~~L~~L~~~a~rm~eRI~tLE~I 64 (75)
T TIGR02976 40 DQALLQELYAKADRLEERIDTLERI 64 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566788888888888888888875
No 259
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=29.19 E-value=1.3e+02 Score=22.03 Aligned_cols=36 Identities=22% Similarity=0.188 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhh
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVEDVQPASICC 63 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~C 63 (83)
-+-.+++++..|+.++.+|+-||.+........+.=
T Consensus 151 ~~~~l~ae~~~l~~~~~~le~el~s~~~rq~L~~~q 186 (240)
T PF12795_consen 151 QRWLLQAELAALEAQIEMLEQELLSNNNRQELLQLQ 186 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCcHHHHHHHHHH
Confidence 355677888889999999998888777666555443
No 260
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=29.17 E-value=63 Score=24.63 Aligned_cols=37 Identities=24% Similarity=0.271 Sum_probs=22.8
Q ss_pred CCCCCcchhHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 20 PAAALDLYGKRRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 20 p~g~~D~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.+..+||-...=---|+-+|.+|+.-|+++|..+|..
T Consensus 82 ~~~gTdfS~~~~~dwEevrLkrELa~Le~~l~~~~~~ 118 (195)
T PF12761_consen 82 KEKGTDFSATEGTDWEEVRLKRELAELEEKLSKVEQA 118 (195)
T ss_pred CCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 3335566553333346777777777777777776654
No 261
>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=29.11 E-value=93 Score=20.78 Aligned_cols=25 Identities=24% Similarity=0.353 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-+..+++.|+++|..|+.-.+.|+.
T Consensus 83 ~l~~~~~~l~~~i~~L~~~~~~l~~ 107 (127)
T cd01108 83 LALEHIAELERKIAELQAMRRTLQQ 107 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555666666666555555543
No 262
>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=28.98 E-value=95 Score=18.88 Aligned_cols=27 Identities=11% Similarity=0.204 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
-..+.++...++.|.+|..+|+.+...
T Consensus 45 ~~~~~~l~es~~ki~~Lr~~L~k~~~~ 71 (72)
T cd00089 45 AEAEQMLRESKQKLELLKMQLEKLKQE 71 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 356677888899999999999887653
No 263
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=28.84 E-value=91 Score=20.23 Aligned_cols=33 Identities=18% Similarity=0.257 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHhhhhccchhhhh-hHHHHHHhc
Q 038668 39 LEREIGLLQEELKSVEDVQPASIC-CKEVDDFVG 71 (83)
Q Consensus 39 LeqEi~fLeeEL~~LE~~~~aS~~-CkEv~~~Ve 71 (83)
|.+.+.-|.+||.+...+++..+. -+++.+-|+
T Consensus 2 L~~~L~~L~~eL~~~~~ld~~~~~~L~~l~~dIe 35 (85)
T PF14357_consen 2 LQELLEKLHQELEQNPPLDEETRAELSSLDDDIE 35 (85)
T ss_pred HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence 556667777777777777776654 445544443
No 264
>PLN02320 seryl-tRNA synthetase
Probab=28.81 E-value=1.4e+02 Score=25.58 Aligned_cols=44 Identities=14% Similarity=0.047 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCCCCCccc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
+.++++.|.++|.-||++++.+| .--.+++..+-..+||-.|+.
T Consensus 135 l~~~~k~lk~~i~~le~~~~~~~------~~l~~~~l~iPN~~h~~VP~G 178 (502)
T PLN02320 135 LVEEGKNLKEGLVTLEEDLVKLT------DELQLEAQSIPNMTHPDVPVG 178 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHhCCCCCCccCCCC
Confidence 34445555555555555555544 245677788888888888763
No 265
>PF14965 BRI3BP: Negative regulator of p53/TP53
Probab=28.77 E-value=48 Score=25.13 Aligned_cols=20 Identities=30% Similarity=0.293 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 038668 30 RRQMVKVQVLEREIGLLQEE 49 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeE 49 (83)
+++-++|+.||++|+.|+--
T Consensus 155 ~~LE~kv~~LE~qvr~L~~R 174 (177)
T PF14965_consen 155 ASLEAKVRHLERQVRELNIR 174 (177)
T ss_pred ccHHHHHHHHHHHHHHHHHH
Confidence 88889999999999887743
No 266
>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=28.71 E-value=1.2e+02 Score=19.46 Aligned_cols=38 Identities=24% Similarity=0.281 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHH
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVD 67 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~ 67 (83)
.-+..++..|.+++..|+.++..+.|=+-.+-.-+|+.
T Consensus 15 e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~ 52 (100)
T PF01486_consen 15 EELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQ 52 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHH
Confidence 44567788888888888888888877665555555554
No 267
>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=28.48 E-value=80 Score=21.29 Aligned_cols=42 Identities=29% Similarity=0.274 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCCCCC
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPDPLV 78 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLL 78 (83)
.++.+++..-.-|+.+|+.+|+-+.- -.++++.+|..-+.++
T Consensus 64 ~~v~~~~~~Q~~ld~~L~~ie~qQ~e---Le~~L~~lE~~~~~l~ 105 (116)
T PF05064_consen 64 SEVQKAESEQKRLDQELDFIEAQQKE---LEELLDPLEKQVEKLL 105 (116)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHC---HHHHHCCCCCTT----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Confidence 34444444444444444444433311 1234444444444443
No 268
>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=28.48 E-value=96 Score=22.25 Aligned_cols=21 Identities=29% Similarity=0.490 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 038668 32 QMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~ 52 (83)
.+++|+.|.+|+.-|.+.++.
T Consensus 27 ~~~~I~~L~~e~~~ld~~i~~ 47 (188)
T PF10018_consen 27 NQARIQQLRAEIEELDEQIRD 47 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666554443
No 269
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=28.40 E-value=1e+02 Score=21.27 Aligned_cols=22 Identities=27% Similarity=0.462 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~L 53 (83)
+-..|..|+++|+.|-+|+.+|
T Consensus 6 lfd~l~~le~~l~~l~~el~~L 27 (110)
T PRK13169 6 IFDALDDLEQNLGVLLKELGAL 27 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555444444
No 270
>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=28.40 E-value=1.2e+02 Score=17.32 Aligned_cols=27 Identities=15% Similarity=0.330 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-||+.++..+|.+.-..|+--|++|-+
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 478899999999988888888887754
No 271
>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]
Probab=28.40 E-value=64 Score=25.05 Aligned_cols=20 Identities=45% Similarity=0.637 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 038668 34 VKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~L 53 (83)
++|..|++.|..|++||+.-
T Consensus 4 ~~va~lnrri~~leeele~a 23 (205)
T KOG1003|consen 4 ADVAALNRRIQLLEEELDRA 23 (205)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 67888999999999888653
No 272
>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=28.38 E-value=1e+02 Score=20.15 Aligned_cols=24 Identities=13% Similarity=0.184 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
-+..+++.|+++|..|+.-.+.|+
T Consensus 85 ~l~~~~~~l~~~i~~L~~~~~~L~ 108 (112)
T cd01282 85 VLRRELARIDRQIADLTRSRDRLD 108 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555554444443
No 273
>cd04389 RhoGAP_KIAA1688 RhoGAP_KIAA1688: GTPase-activator protein (GAP) domain for Rho-like GTPases found in KIAA1688-like proteins; KIAA1688 is a protein of unknown function that contains a RhoGAP domain and a myosin tail homology 4 (MyTH4) domain. 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=28.37 E-value=72 Score=22.76 Aligned_cols=25 Identities=8% Similarity=0.080 Sum_probs=18.0
Q ss_pred hhhhhhHHHHHHhccCCCCCCcccC
Q 038668 58 PASICCKEVDDFVGAKPDPLVAMYD 82 (83)
Q Consensus 58 ~aS~~CkEv~~~Ves~pDPLLP~t~ 82 (83)
.+-.+|-=+-.|...-|+||+|..-
T Consensus 72 d~h~va~lLK~fLReLpePli~~~~ 96 (187)
T cd04389 72 DPHVPASLLKLWLRELEEPLIPDAL 96 (187)
T ss_pred CHHHHHHHHHHHHHhCCCCCCCHHH
Confidence 3444566667788889999999653
No 274
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.15 E-value=76 Score=25.19 Aligned_cols=18 Identities=28% Similarity=0.385 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 038668 35 KVQVLEREIGLLQEELKS 52 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~ 52 (83)
++.+++.||.-|+.|++.
T Consensus 74 ~i~~~~~eik~l~~eI~~ 91 (265)
T COG3883 74 EIDQSKAEIKKLQKEIAE 91 (265)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333344444433333
No 275
>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=28.14 E-value=1.2e+02 Score=18.31 Aligned_cols=23 Identities=26% Similarity=0.216 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~L 53 (83)
.+..-.+.|.++|.-.++||+.+
T Consensus 23 ~i~~~~~~L~~~i~~~~~eLr~~ 45 (87)
T PF08700_consen 23 EIRQLENKLRQEIEEKDEELRKL 45 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555677888888888888875
No 276
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=28.12 E-value=96 Score=23.83 Aligned_cols=26 Identities=23% Similarity=0.256 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.++.+++.+++|+..++++|+++-..
T Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 42 (364)
T TIGR01242 17 SLEKEKIRLERELERLRSEIERLRSP 42 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 34455556666666666666655444
No 277
>cd04390 RhoGAP_ARHGAP22_24_25 RhoGAP_ARHGAP22_24_25: GTPase-activator protein (GAP) domain for Rho-like GTPases found in ARHGAP22, 24 and 25-like proteins; longer isoforms of these proteins contain an additional N-terminal pleckstrin homology (PH) domain. ARHGAP25 (KIA0053) has been identified as a GAP for Rac1 and Cdc42. Short isoforms (without the PH domain) of ARHGAP24, called RC-GAP72 and p73RhoGAP, and of ARHGAP22, called p68RacGAP, has been shown to be involved in angiogenesis and endothelial cell capillary 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 r
Probab=28.09 E-value=71 Score=22.64 Aligned_cols=25 Identities=8% Similarity=0.259 Sum_probs=17.9
Q ss_pred hhhhhhHHHHHHhccCCCCCCcccC
Q 038668 58 PASICCKEVDDFVGAKPDPLVAMYD 82 (83)
Q Consensus 58 ~aS~~CkEv~~~Ves~pDPLLP~t~ 82 (83)
.+-.+|-=+-.|.-.-||||+|...
T Consensus 73 d~h~va~lLK~fLReLPePLi~~~~ 97 (199)
T cd04390 73 DVHTVASLLKLYLRELPEPVIPWAQ 97 (199)
T ss_pred CHHHHHHHHHHHHHhCCCccCCHHH
Confidence 3445566667777888999998654
No 278
>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=27.97 E-value=36 Score=24.30 Aligned_cols=22 Identities=9% Similarity=0.092 Sum_probs=16.5
Q ss_pred hhhHHHHHHhccCCCCCCcccC
Q 038668 61 ICCKEVDDFVGAKPDPLVAMYD 82 (83)
Q Consensus 61 ~~CkEv~~~Ves~pDPLLP~t~ 82 (83)
.+|-=+-.|.-.-||||+|...
T Consensus 74 ~va~lLK~fLReLPepLip~~~ 95 (188)
T cd04383 74 SVAGVLKLYFRGLENPLFPKER 95 (188)
T ss_pred HHHHHHHHHHHhCCCccCCHHH
Confidence 4566666788888999999653
No 279
>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=27.91 E-value=1.4e+02 Score=22.82 Aligned_cols=23 Identities=26% Similarity=0.430 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+..+...|..+|+-|+.++++|.
T Consensus 16 ~~~e~~~Lk~kir~le~~l~~Lk 38 (236)
T PF12017_consen 16 LKIENKKLKKKIRRLEKELKKLK 38 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444443
No 280
>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=27.83 E-value=1.3e+02 Score=17.31 Aligned_cols=32 Identities=34% Similarity=0.338 Sum_probs=24.8
Q ss_pred CCcchhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 23 ALDLYGKRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 23 ~~D~~GkhR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
..|...-...+.+++.++++|.-.+..++.|.
T Consensus 30 ~~~~~~~~~~~~~~~~~~~ei~~~~~~l~~l~ 61 (105)
T PF00435_consen 30 GSDLEELEEQLKKHKELQEEIESRQERLESLN 61 (105)
T ss_dssp SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 44677777888888888888888888777765
No 281
>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=27.81 E-value=95 Score=21.53 Aligned_cols=17 Identities=41% Similarity=0.601 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHhhh
Q 038668 37 QVLEREIGLLQEELKSV 53 (83)
Q Consensus 37 ~~LeqEi~fLeeEL~~L 53 (83)
++|.+.|..||+||+..
T Consensus 57 ~QL~kRV~~LQ~El~~~ 73 (102)
T PF10205_consen 57 QQLTKRVEVLQEELEES 73 (102)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 35556666666666643
No 282
>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=27.69 E-value=60 Score=23.73 Aligned_cols=28 Identities=14% Similarity=0.452 Sum_probs=7.3
Q ss_pred hhhhccchhhhhhHHHH-HH--hccCCCCCC
Q 038668 51 KSVEDVQPASICCKEVD-DF--VGAKPDPLV 78 (83)
Q Consensus 51 ~~LE~~~~aS~~CkEv~-~~--Ves~pDPLL 78 (83)
++|+.++.+-|.=-++. +. +....||+|
T Consensus 86 ~qL~~~~~~gR~~i~lD~d~~r~~~~~n~~L 116 (229)
T PF06251_consen 86 QQLQSLEATGRVVINLDPDWVRLNPEYNPLL 116 (229)
T ss_dssp HHHTT--B----S----TTS-EESTTSS-B-
T ss_pred HHHHhccccceEEEecCHHHhhccccCCCcC
Confidence 34444444444433332 12 345567766
No 283
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=27.66 E-value=70 Score=23.81 Aligned_cols=23 Identities=30% Similarity=0.543 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHhhhhccc
Q 038668 35 KVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE~~~ 57 (83)
.++.|+++|..|++||+..+...
T Consensus 150 ~i~~l~~~i~~l~~~l~~~~~~~ 172 (176)
T COG1675 150 EIEELESELDELEEELERNDKLK 172 (176)
T ss_pred HHHHHHHHHHHHHHHHhcccccc
Confidence 68999999999999999877654
No 284
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=27.64 E-value=1.5e+02 Score=24.04 Aligned_cols=32 Identities=28% Similarity=0.309 Sum_probs=21.2
Q ss_pred CCcchhHHHHHHHH--------HHHHHHHHHHHHHHhhhhcc
Q 038668 23 ALDLYGKRRQMVKV--------QVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 23 ~~D~~GkhR~~ael--------~~LeqEi~fLeeEL~~LE~~ 56 (83)
.++..+|-|++-++ |+.|+| -|+.||+.||+-
T Consensus 224 ~~~~~~rkr~qnk~AAtRYRqKkRae~E--~l~ge~~~Le~r 263 (294)
T KOG4571|consen 224 PEKKLRRKRQQNKAAATRYRQKKRAEKE--ALLGELEGLEKR 263 (294)
T ss_pred chHHHHHHHHHhHHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Confidence 56788888888777 344443 466666666654
No 285
>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=27.63 E-value=81 Score=26.12 Aligned_cols=24 Identities=25% Similarity=0.365 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHhhhhccchh
Q 038668 36 VQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
.+.+++++.+|+.+|++||.+++-
T Consensus 184 ~~~~~~eld~L~~ql~ELe~~~l~ 207 (563)
T TIGR00634 184 EQELAQRLDFLQFQLEELEEADLQ 207 (563)
T ss_pred hHHHHHHHHHHHHHHHHHHhCCcC
Confidence 456778888888888888877764
No 286
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.60 E-value=47 Score=26.12 Aligned_cols=25 Identities=20% Similarity=0.425 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccch
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQP 58 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~ 58 (83)
..+..|+++|+-|+.++++|+|++.
T Consensus 56 ~~~~~l~~Ql~~l~g~i~~L~~~~~ 80 (262)
T COG1729 56 YRLTQLEQQLRQLQGKIEELRGIQE 80 (262)
T ss_pred hccHHHHHHHHHHHhhHHHHHhHHH
Confidence 3578899999999999999987443
No 287
>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=27.56 E-value=1.8e+02 Score=19.45 Aligned_cols=26 Identities=23% Similarity=0.341 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+++.|+|....+...-|+.+|+.+-.
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 57889999999999999999988765
No 288
>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=27.52 E-value=80 Score=20.16 Aligned_cols=21 Identities=10% Similarity=0.281 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHhhhhcc
Q 038668 36 VQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~~ 56 (83)
.+.|++.+..|++++++|+.+
T Consensus 75 ~~~l~~~~~~l~~~i~~l~~~ 95 (96)
T cd04768 75 TAMLLEKKQAIQQKIDRLQQL 95 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 456788888888888887764
No 289
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=27.50 E-value=1.2e+02 Score=21.38 Aligned_cols=26 Identities=19% Similarity=0.216 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+.+++.++++++|+.-|+-+++.+..
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 34556677777777777777666554
No 290
>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=27.50 E-value=80 Score=20.20 Aligned_cols=21 Identities=14% Similarity=0.515 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHhhhhcc
Q 038668 36 VQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~~ 56 (83)
.+.|++++..|++++++|+.+
T Consensus 76 ~~~l~~~~~~l~~~i~~l~~~ 96 (97)
T cd04782 76 IELLKKQEKEIKEEIEELQKI 96 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 556777777788887777654
No 291
>PRK11147 ABC transporter ATPase component; Reviewed
Probab=27.43 E-value=84 Score=26.25 Aligned_cols=23 Identities=13% Similarity=0.255 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.+++.||.+|.-||+++++||..
T Consensus 568 ~~~~~~e~~i~~le~~~~~~~~~ 590 (635)
T PRK11147 568 RELEQLPQLLEDLEAEIEALQAQ 590 (635)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33888888888888888777654
No 292
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=27.39 E-value=69 Score=27.68 Aligned_cols=13 Identities=8% Similarity=0.204 Sum_probs=6.2
Q ss_pred cchhHHHHHHHHH
Q 038668 25 DLYGKRRQMVKVQ 37 (83)
Q Consensus 25 D~~GkhR~~ael~ 37 (83)
+.-|+--+.|+|+
T Consensus 260 ~k~~~~AlFaqlN 272 (480)
T KOG2675|consen 260 NKGGRGALFAQLN 272 (480)
T ss_pred ccccHHHHHHHHh
Confidence 3445555544443
No 293
>PF12737 Mating_C: C-terminal domain of homeodomain 1; InterPro: IPR024441 Mating in fungi is controlled by the loci that determine the mating type of an individual, and only individuals with differing mating types can mate. Basidiomycete fungi have evolved a unique mating system, termed tetrapolar or bifactorial incompatibility, in which mating type is determined by two unlinked loci; compatibility at both loci is required for mating to occur. The multi-allelic tetrapolar mating system is considered to be a novel innovation that could have only evolved once, and is thus unique to the mushroom fungi. This domain is found in the C-terminal of some mating-type proteins.
Probab=27.34 E-value=1.6e+02 Score=24.58 Aligned_cols=38 Identities=29% Similarity=0.402 Sum_probs=23.5
Q ss_pred CCCCCCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHH
Q 038668 13 PMGPRSPPAAALDLYGKRRQMVKVQVLEREIGLLQEEL 50 (83)
Q Consensus 13 ~p~pksPp~g~~D~~GkhR~~ael~~LeqEi~fLeeEL 50 (83)
++++-+|++...-.-+|-=.+-|++.|+-+++-|+.||
T Consensus 381 ~~~~t~~~~~~l~~~~~~AK~reL~eLeAq~~aL~AEL 418 (419)
T PF12737_consen 381 PAQPTSPSPVALPEAEREAKRRELEELEAQARALRAEL 418 (419)
T ss_pred ccccCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 34444444433334555555566788888888888887
No 294
>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=27.20 E-value=58 Score=27.92 Aligned_cols=24 Identities=21% Similarity=0.408 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccch
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQP 58 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~ 58 (83)
++++.++ +|.-|+.||++|+.-..
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 3444444 88889988888886544
No 295
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=27.18 E-value=79 Score=23.99 Aligned_cols=18 Identities=11% Similarity=0.196 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 038668 33 MVKVQVLEREIGLLQEEL 50 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL 50 (83)
+-.|..|++||.-|...+
T Consensus 60 ~~ql~~lq~ev~~LrG~~ 77 (263)
T PRK10803 60 QQQLSDNQSDIDSLRGQI 77 (263)
T ss_pred HHHHHHHHHHHHHHhhHH
Confidence 334444444544444433
No 296
>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=27.13 E-value=68 Score=22.29 Aligned_cols=18 Identities=33% Similarity=0.447 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 038668 35 KVQVLEREIGLLQEELKS 52 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~ 52 (83)
.+.++|.||..||+||..
T Consensus 53 tle~ve~Ei~~lQ~qL~~ 70 (99)
T PF11083_consen 53 TLEQVEKEIRELQNQLGL 70 (99)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 367889999999988753
No 297
>PF04350 PilO: Pilus assembly protein, PilO; PDB: 2RJZ_B.
Probab=26.89 E-value=87 Score=20.33 Aligned_cols=40 Identities=13% Similarity=0.258 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHH
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDD 68 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~ 68 (83)
.....+.+..+.+++.-++.+|+.+...=|.-.---+++.
T Consensus 18 ~~~~~~~l~~~~~~~~~~~~~l~~~~~~lP~~~~~~~ll~ 57 (144)
T PF04350_consen 18 LKEKVANLEELKKQLEQLEQQLEELLKKLPAEEEIPSLLE 57 (144)
T ss_dssp TGGG-SSHHHHHHHHHHHHHHHHHHHHCTTGGGHHHHHHH
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCchhHHHHHH
Confidence 3445566777888888888888888777666543333333
No 298
>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=26.88 E-value=75 Score=22.43 Aligned_cols=24 Identities=4% Similarity=-0.022 Sum_probs=18.2
Q ss_pred hhhhhHHHHHHhccCCCCCCcccC
Q 038668 59 ASICCKEVDDFVGAKPDPLVAMYD 82 (83)
Q Consensus 59 aS~~CkEv~~~Ves~pDPLLP~t~ 82 (83)
+-.+|-=+-.|...-|+||+|...
T Consensus 78 ~h~va~lLK~flreLP~PLi~~~~ 101 (190)
T cd04400 78 VHTVAGLLKLYLRELPTLILGGEL 101 (190)
T ss_pred HHHHHHHHHHHHHhCCcccCCHHH
Confidence 445666777888899999999643
No 299
>PRK13979 DNA topoisomerase IV subunit A; Provisional
Probab=26.83 E-value=1.5e+02 Score=27.29 Aligned_cols=50 Identities=14% Similarity=0.163 Sum_probs=43.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCC
Q 038668 26 LYGKRRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPD 75 (83)
Q Consensus 26 ~~GkhR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pD 75 (83)
.+=+||+..=.++.+-++.-+++.++-|||+-.|-..-.||++.+-+..|
T Consensus 364 ~~~~~r~~~~~rr~~~~l~k~~~r~~i~eGl~~a~~~id~vi~~ir~s~~ 413 (957)
T PRK13979 364 HYVEHQKEVVTRRTKKELEIAEKRFHIVEGFIKAIGIMDEIIKTIRSSKS 413 (957)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcCCC
Confidence 34489999999999999999999999999999999889999988776654
No 300
>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=26.75 E-value=89 Score=26.49 Aligned_cols=26 Identities=8% Similarity=0.204 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
-+|+.+.++...+||.-|++||+.|-
T Consensus 17 ~~~l~~~l~~~~~~~~~~~~~~~~~~ 42 (512)
T TIGR03689 17 NAKLAELLKAARDKLSKLKSQLEQLA 42 (512)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 36888899999999999999999884
No 301
>PF04576 Zein-binding: Zein-binding; InterPro: IPR007656 This is a family of uncharacterised proteins.
Probab=26.56 E-value=54 Score=22.48 Aligned_cols=17 Identities=35% Similarity=0.382 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHh
Q 038668 35 KVQVLEREIGLLQEELK 51 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~ 51 (83)
-|.+.|+||.+|+.||+
T Consensus 78 ~l~~rE~e~~~Le~ele 94 (94)
T PF04576_consen 78 ILYKREKEIQSLEAELE 94 (94)
T ss_pred HHHHHHHHHHHHHhhcC
Confidence 35566677777776653
No 302
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=26.50 E-value=1.4e+02 Score=19.62 Aligned_cols=18 Identities=28% Similarity=0.447 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 038668 33 MVKVQVLEREIGLLQEEL 50 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL 50 (83)
+.+|..|++|++-|+.-|
T Consensus 77 Ld~i~~Lr~el~~L~~~l 94 (101)
T PRK10265 77 LDEIAHLKQENRLLRQRL 94 (101)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444555555444433
No 303
>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=26.42 E-value=1.4e+02 Score=17.91 Aligned_cols=21 Identities=19% Similarity=0.287 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 038668 32 QMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~ 52 (83)
+...|..+++++..++.+++.
T Consensus 57 l~~~i~~~~~~~~~~~~~~~~ 77 (123)
T PF02050_consen 57 LEQAIQQQQQELERLEQEVEQ 77 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555554443
No 304
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=26.41 E-value=81 Score=25.54 Aligned_cols=19 Identities=37% Similarity=0.384 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHhhhh
Q 038668 36 VQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE 54 (83)
|++|+-|.+.|+|+++.|+
T Consensus 172 lk~le~E~s~LeE~~~~l~ 190 (290)
T COG4026 172 LKRLEVENSRLEEMLKKLP 190 (290)
T ss_pred HHHHHHHHHHHHHHHHhch
Confidence 3444444444444444443
No 305
>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=26.35 E-value=1.4e+02 Score=17.43 Aligned_cols=19 Identities=37% Similarity=0.370 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHhhhh
Q 038668 36 VQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE 54 (83)
.+.++++|.-++++|++++
T Consensus 3 ~~~~~~~i~a~~e~l~~~~ 21 (64)
T PF12644_consen 3 YATKEDEIMATKEELEELE 21 (64)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455667777777777774
No 306
>PF14817 HAUS5: HAUS augmin-like complex subunit 5
Probab=26.34 E-value=95 Score=27.23 Aligned_cols=27 Identities=33% Similarity=0.383 Sum_probs=17.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
-|..++++|.+|..||.-|..+|+.+|
T Consensus 80 ~r~~L~~everLraei~~l~~~I~~~e 106 (632)
T PF14817_consen 80 RRRELEKEVERLRAEIQELDKEIESRE 106 (632)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566666666666666666666554
No 307
>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=26.32 E-value=1e+02 Score=21.93 Aligned_cols=30 Identities=27% Similarity=0.359 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccchhhhh
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDVQPASIC 62 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~~~aS~~ 62 (83)
..++.-|+++|.-|++-+++-|----+||+
T Consensus 7 ~~q~~~l~~~v~~lRed~r~SEdrsa~SRa 36 (112)
T PF07439_consen 7 HQQLGTLNAEVKELREDIRRSEDRSAASRA 36 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Confidence 456888999999999999988887778875
No 308
>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=26.18 E-value=1.1e+02 Score=20.17 Aligned_cols=24 Identities=17% Similarity=0.069 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+..+++.|+++|.-|+.-.+.|+.
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~L~~ 107 (127)
T cd04784 84 IDEHLAHVRARIAELQALEKQLQA 107 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555666666655554444443
No 309
>PF13864 Enkurin: Calmodulin-binding
Probab=26.02 E-value=1.3e+02 Score=19.48 Aligned_cols=29 Identities=28% Similarity=0.539 Sum_probs=18.4
Q ss_pred CcchhHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 24 LDLYGKRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 24 ~D~~GkhR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.|+.+++|. =..||+++.-||+-++-|++
T Consensus 67 ~DT~~~~~r---K~~lE~~L~qlE~dI~~lsr 95 (98)
T PF13864_consen 67 IDTLRKKRR---KEELEKELKQLEKDIKKLSR 95 (98)
T ss_pred cCCHHHHHH---HHHHHHHHHHHHHHHHHHcc
Confidence 466666655 34567777777776666654
No 310
>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=25.97 E-value=95 Score=27.36 Aligned_cols=24 Identities=21% Similarity=0.383 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+-.|+++|.+|++..||++..+|.
T Consensus 550 lE~E~~~lr~elk~kee~~~~~e~ 573 (697)
T PF09726_consen 550 LESELKKLRRELKQKEEQIRELES 573 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445677777777777777766665
No 311
>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=25.74 E-value=1.5e+02 Score=18.93 Aligned_cols=20 Identities=35% Similarity=0.332 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 038668 34 VKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~L 53 (83)
++|+.+=..|..|+.|+++|
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 33333333333444333333
No 312
>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=25.39 E-value=1e+02 Score=22.85 Aligned_cols=27 Identities=22% Similarity=0.229 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
-+++..++.|....+.++.+|++|++-
T Consensus 134 ~~l~~H~~kl~~~~ke~~~kLeeLekE 160 (177)
T PF03234_consen 134 EELQEHRAKLEKEQKELKKKLEELEKE 160 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777777788888887753
No 313
>PF13887 MRF_C1: Myelin gene regulatory factor -C-terminal domain 1
Probab=25.30 E-value=85 Score=18.38 Aligned_cols=24 Identities=21% Similarity=0.162 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.+++|.|-+-.+-|+.-+++||.+
T Consensus 13 V~AvqeLck~t~~Le~rI~ele~~ 36 (36)
T PF13887_consen 13 VGAVQELCKLTDNLETRIDELERW 36 (36)
T ss_pred HHHHHHHHHHhccHHHHHHHHhhC
Confidence 367888988889999988888753
No 314
>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=25.26 E-value=1.6e+02 Score=17.67 Aligned_cols=25 Identities=24% Similarity=0.323 Sum_probs=13.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHh
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELK 51 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~ 51 (83)
-.|..++.+|....+++.-|+.+|+
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 3455555555555555555555554
No 315
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=25.26 E-value=1e+02 Score=22.14 Aligned_cols=29 Identities=14% Similarity=0.291 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccch
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQP 58 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~ 58 (83)
.+...++..+++++..++++++.+++...
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 77 (151)
T PF14584_consen 49 NELFDQIDELKEELEELEKRIEELEEKLR 77 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566777778888888888877776543
No 316
>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=25.18 E-value=85 Score=26.50 Aligned_cols=21 Identities=33% Similarity=0.425 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 038668 31 RQMVKVQVLEREIGLLQEELK 51 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~ 51 (83)
-..-+|..|+|||.-|+-|++
T Consensus 354 ~~~~~i~~LDrEI~~Lk~E~~ 374 (418)
T TIGR03755 354 EVDKAIDKLDREINNLKTELE 374 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344567888888888887775
No 317
>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=25.13 E-value=1.3e+02 Score=18.51 Aligned_cols=29 Identities=17% Similarity=0.234 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccchh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDVQPA 59 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~~~a 59 (83)
.++.+|.++|..+..+++.+..||.-..+
T Consensus 3 ~i~e~l~~ie~~l~~~~~~i~~lE~~~~~ 31 (71)
T PF10779_consen 3 DIKEKLNRIETKLDNHEERIDKLEKRDAA 31 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667777788877777777777765544
No 318
>PF15112 DUF4559: Domain of unknown function (DUF4559)
Probab=24.99 E-value=95 Score=25.30 Aligned_cols=39 Identities=31% Similarity=0.487 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHhhh----hccc----hhhhhhHHHHHHhccCCC
Q 038668 37 QVLEREIGLLQEELKSV----EDVQ----PASICCKEVDDFVGAKPD 75 (83)
Q Consensus 37 ~~LeqEi~fLeeEL~~L----E~~~----~aS~~CkEv~~~Ves~pD 75 (83)
+.++.|..+|+|-|++| |+-. ..+.--+=+.+|+-++.|
T Consensus 225 ~i~e~e~e~Lke~lqel~~~~e~~~~~~ee~~~~l~~~~~fL~~NkD 271 (307)
T PF15112_consen 225 QILEIEMELLKEKLQELYLQAEEQEVLPEEDSKRLEVLKEFLRNNKD 271 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhccccchhhhHHHHHHHHHHHhcHH
Confidence 47788999999999888 2222 234444555555555544
No 319
>PRK05289 UDP-N-acetylglucosamine acyltransferase; Provisional
Probab=24.95 E-value=99 Score=23.06 Aligned_cols=44 Identities=25% Similarity=0.252 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccC
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAK 73 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~ 73 (83)
.++.++...|=+.-..|++-|++++...+-+.--+++++|+.+.
T Consensus 210 ~~i~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~ 253 (262)
T PRK05289 210 HALRRAYKLLYRSGLTLEEALEELAEEYPDSPEVKEILDFIESS 253 (262)
T ss_pred HHHHHHHHHHHHcCccHHHHHHHHHhhccCCHHHHHHHHHHhcC
Confidence 34556666676666677888887776655566678899999654
No 320
>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=24.91 E-value=90 Score=17.68 Aligned_cols=16 Identities=38% Similarity=0.445 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHhhh
Q 038668 38 VLEREIGLLQEELKSV 53 (83)
Q Consensus 38 ~LeqEi~fLeeEL~~L 53 (83)
+|.++|..+.++|.++
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 4778888888888776
No 321
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.90 E-value=1.2e+02 Score=23.87 Aligned_cols=39 Identities=23% Similarity=0.434 Sum_probs=26.9
Q ss_pred CCCCCCCCCCcchhH---H--HHHHHHHHHHHHHHHHHHHHhhh
Q 038668 15 GPRSPPAAALDLYGK---R--RQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 15 ~pksPp~g~~D~~Gk---h--R~~ael~~LeqEi~fLeeEL~~L 53 (83)
.||+||+...|-.+. | -+-.+|++|+.|+.-+++.|+..
T Consensus 9 k~k~p~psL~dai~~v~~r~dSve~KIskLDaeL~k~~~Qi~k~ 52 (218)
T KOG1655|consen 9 KPKEPPPSLQDAIDSVNKRSDSVEKKISKLDAELCKYKDQIKKT 52 (218)
T ss_pred CCCCCChhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHhc
Confidence 578888864443332 2 24567888999998888887765
No 322
>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=24.78 E-value=1.5e+02 Score=17.87 Aligned_cols=25 Identities=16% Similarity=0.381 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+-..+|+.|.+.+..+-.-|+.||.
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 3456788888888777777777774
No 323
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=24.76 E-value=1.4e+02 Score=26.32 Aligned_cols=51 Identities=22% Similarity=0.139 Sum_probs=40.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHh--hhhccchh---------hhhhHHHHHHhccCCCCC
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELK--SVEDVQPA---------SICCKEVDDFVGAKPDPL 77 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~--~LE~~~~a---------S~~CkEv~~~Ves~pDPL 77 (83)
+=.||...=.++++-+..-+++.+. .|||+-.+ .+.-+++++.+.+.-+|+
T Consensus 316 ~~~~r~~vl~rr~~~~l~k~~~r~h~~~legl~i~~~i~~~i~~~~~~~~v~~~i~~~~~~~ 377 (635)
T PRK09631 316 HAEHLQKVLKMELELERAKLLEKIFAKTLEQIFIEERIYKRIETISSEEDVISIVLSELKPF 377 (635)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhHHhhhhHHHHHHhhcCHHHHHHHHHhccchh
Confidence 3478988889999999999999998 79999776 334467777777777765
No 324
>PRK10884 SH3 domain-containing protein; Provisional
Probab=24.70 E-value=1e+02 Score=23.08 Aligned_cols=24 Identities=21% Similarity=0.462 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
...|..|++|+.-|+++|.++.+.
T Consensus 92 ~~rlp~le~el~~l~~~l~~~~~~ 115 (206)
T PRK10884 92 RTRVPDLENQVKTLTDKLNNIDNT 115 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhH
Confidence 345678888888888888877644
No 325
>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]
Probab=24.69 E-value=69 Score=27.70 Aligned_cols=26 Identities=27% Similarity=0.296 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHhhhhccchhh
Q 038668 35 KVQVLEREIGLLQEELKSVEDVQPAS 60 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE~~~~aS 60 (83)
.++.||.+..|||.|..+||..--++
T Consensus 260 ~lq~lEt~q~~leqeva~le~yyQ~y 285 (499)
T COG4372 260 QLQRLETAQARLEQEVAQLEAYYQAY 285 (499)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48889999999999999999765444
No 326
>KOG3251 consensus Golgi SNAP receptor complex member [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.69 E-value=1.5e+02 Score=23.06 Aligned_cols=36 Identities=22% Similarity=0.245 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHhhhhcc---chhhhhhHHHHHHhc
Q 038668 36 VQVLEREIGLLQEELKSVEDV---QPASICCKEVDDFVG 71 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~~---~~aS~~CkEv~~~Ve 71 (83)
.+.-++++.-+|..|..+|+. +.+++.|.++..+|.
T Consensus 5 y~~t~~~~~k~q~~l~rlE~~~~~~e~~~v~~~i~~sI~ 43 (213)
T KOG3251|consen 5 YQSTNRQLDKLQRGLIRLERTIKTQEVSAVENSIQRSID 43 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHccccccchHHHHHHHHHhHH
Confidence 344455555666666666655 458888998887765
No 327
>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=24.63 E-value=1.2e+02 Score=26.70 Aligned_cols=24 Identities=21% Similarity=0.314 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccc
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~ 57 (83)
.++..|++|+.-|++|+++|+.+=
T Consensus 427 ~e~~kl~~e~~~l~~~i~~l~~iL 450 (738)
T TIGR01061 427 TDIFELKEEQNELEKKIISLEQII 450 (738)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 567788888888998888888843
No 328
>PF11414 Suppressor_APC: Adenomatous polyposis coli tumour suppressor protein; PDB: 1M5I_A.
Probab=24.52 E-value=87 Score=20.68 Aligned_cols=22 Identities=27% Similarity=0.350 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHhhhhcc
Q 038668 35 KVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE~~ 56 (83)
-++.||||=.+|-.+|+-+|..
T Consensus 8 ~mkeLEqEkd~LLqgLe~~Er~ 29 (84)
T PF11414_consen 8 RMKELEQEKDVLLQGLEMEERE 29 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhHHHHHHHH
Confidence 4688999999998887777653
No 329
>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=24.43 E-value=1.2e+02 Score=24.81 Aligned_cols=30 Identities=23% Similarity=0.374 Sum_probs=13.4
Q ss_pred CcchhHHH--HHHHHHHHHHHHHHHHHHHhhh
Q 038668 24 LDLYGKRR--QMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 24 ~D~~GkhR--~~ael~~LeqEi~fLeeEL~~L 53 (83)
.+++|.+. +.+++..|++++.-|+++|+.|
T Consensus 133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l 164 (525)
T TIGR02231 133 FDFNGSEIERLLTEDREAERRIRELEKQLSEL 164 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555443 2333444444444444444444
No 330
>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=24.38 E-value=1.3e+02 Score=19.94 Aligned_cols=18 Identities=28% Similarity=0.265 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 038668 35 KVQVLEREIGLLQEELKS 52 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~ 52 (83)
+++.|+++|..|+.-.+.
T Consensus 85 ~~~~l~~~i~~L~~~~~~ 102 (126)
T cd04783 85 KLAEVDEKIADLQRMRAS 102 (126)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444444444444433333
No 331
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=24.13 E-value=83 Score=27.41 Aligned_cols=27 Identities=15% Similarity=0.252 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
...++++|+.|.+|+..||.+|..-..
T Consensus 27 i~~L~~ql~aLq~~v~eL~~~laa~~~ 53 (514)
T PF11336_consen 27 IKALQAQLQALQDQVNELRAKLAAKPA 53 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 356777777777777777777665544
No 332
>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=24.10 E-value=1.2e+02 Score=20.48 Aligned_cols=20 Identities=25% Similarity=0.461 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHhhhh
Q 038668 35 KVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE 54 (83)
.++.+.++|.++++||+.+.
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~ 26 (204)
T cd01878 7 DRRLIRERIAKLRRELEKVK 26 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666665554
No 333
>KOG4807 consensus F-actin binding protein, regulates actin cytoskeletal organization [Cytoskeleton]
Probab=24.01 E-value=75 Score=27.77 Aligned_cols=34 Identities=29% Similarity=0.328 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc-chhhhhhHHH
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDV-QPASICCKEV 66 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~-~~aS~~CkEv 66 (83)
-.|||-|.|||+.|.+||+-.-+- .-+|.--|+|
T Consensus 518 EsEiQYLKqEissLkDELQtalrDKkyaSdKYkDi 552 (593)
T KOG4807|consen 518 ESEIQYLKQEISSLKDELQTALRDKKYASDKYKDI 552 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhccccchhHH
Confidence 467889999999999998754322 2244444444
No 334
>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=23.99 E-value=1.8e+02 Score=24.13 Aligned_cols=42 Identities=24% Similarity=0.289 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhc
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVG 71 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ve 71 (83)
+-..++++.|.+|+.+.+.-++-|+.+..+...-+++...+.
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 344566778888888888888888888777766666554443
No 335
>cd04379 RhoGAP_SYD1 RhoGAP_SYD1: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in SYD-1_like proteins. Syd-1, first identified and best studied in C.elegans, has been shown to play an important role in neuronal development by specifying axonal properties. 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=23.84 E-value=91 Score=22.84 Aligned_cols=23 Identities=17% Similarity=0.403 Sum_probs=16.9
Q ss_pred hhhhHHHHHHhccCCCCCCcccC
Q 038668 60 SICCKEVDDFVGAKPDPLVAMYD 82 (83)
Q Consensus 60 S~~CkEv~~~Ves~pDPLLP~t~ 82 (83)
-.+|-=+-.|.-.-|+||+|..-
T Consensus 74 h~vA~lLK~fLReLPePLip~~~ 96 (207)
T cd04379 74 NVITGVLKDYLRELPEPLITPQL 96 (207)
T ss_pred HHHHHHHHHHHHhCCCccCCHHH
Confidence 34566666788888999999643
No 336
>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=23.80 E-value=1.3e+02 Score=20.27 Aligned_cols=24 Identities=17% Similarity=0.246 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
.+..+++.|+++|..|+.-.+.|+
T Consensus 85 ~l~~~~~~l~~~i~~L~~~~~~L~ 108 (131)
T TIGR02043 85 IVDAKLELVDEKINELTKIRRSLK 108 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555554444443
No 337
>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=23.79 E-value=99 Score=22.83 Aligned_cols=20 Identities=40% Similarity=0.586 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 038668 34 VKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~L 53 (83)
..+++|+++|.-|+++|...
T Consensus 197 ~~v~~Le~~id~le~eL~~~ 216 (237)
T PF00261_consen 197 RRVKKLEKEIDRLEDELEKE 216 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34778888888888887654
No 338
>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=23.72 E-value=83 Score=20.15 Aligned_cols=21 Identities=33% Similarity=0.537 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHhhhhc
Q 038668 35 KVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE~ 55 (83)
||..|-..|.-|++...+||-
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 466666677777766666653
No 339
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=23.60 E-value=1.2e+02 Score=24.52 Aligned_cols=22 Identities=36% Similarity=0.386 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhc
Q 038668 34 VKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-++..|+-|..-++|+|++||+
T Consensus 156 ~eleele~e~ee~~erlk~le~ 177 (290)
T COG4026 156 KELEELEAEYEEVQERLKRLEV 177 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555556666666554
No 340
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=23.58 E-value=77 Score=27.18 Aligned_cols=24 Identities=17% Similarity=0.306 Sum_probs=19.6
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHH
Q 038668 25 DLYGKRRQMVKVQVLEREIGLLQE 48 (83)
Q Consensus 25 D~~GkhR~~ael~~LeqEi~fLee 48 (83)
+----+|-+||--+||-|+.|.+.
T Consensus 218 EnS~tsRHLAEFwMlEaE~AF~~s 241 (446)
T KOG0554|consen 218 ENSHTSRHLAEFWMLEAELAFAES 241 (446)
T ss_pred ccCCchhHHhhhhhhhhHHHHHHH
Confidence 333457889999999999999984
No 341
>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=23.56 E-value=1.3e+02 Score=18.54 Aligned_cols=21 Identities=33% Similarity=0.412 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 038668 33 MVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~L 53 (83)
..+|..|+.|-..|.+||+-+
T Consensus 28 ~~rl~~l~~EN~~Lr~eL~~~ 48 (52)
T PF12808_consen 28 RKRLSKLEGENRLLRAELERL 48 (52)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456888999999999998754
No 342
>PLN02708 Probable pectinesterase/pectinesterase inhibitor
Probab=23.53 E-value=4.5e+02 Score=22.61 Aligned_cols=43 Identities=21% Similarity=0.131 Sum_probs=25.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhc-------cchhhhhhHHHHHH
Q 038668 27 YGKRRQMVKVQVLEREIGLLQEELKSVED-------VQPASICCKEVDDF 69 (83)
Q Consensus 27 ~GkhR~~ael~~LeqEi~fLeeEL~~LE~-------~~~aS~~CkEv~~~ 69 (83)
.++.-+.+.|+.--.++.....-++.|.. ...|-.-|+|+++.
T Consensus 75 ~p~~Li~aAL~vsl~~a~~a~~~v~~L~~~~~~~~~~~~AL~DC~ELldd 124 (553)
T PLN02708 75 KPIQIIQSAISVSRENLKTAQSMVKSILDSSAGNVNRTTAATNCLEVLSN 124 (553)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHHHH
Confidence 44444566777666666666555554422 11344569999864
No 343
>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=23.46 E-value=1.4e+02 Score=24.62 Aligned_cols=24 Identities=25% Similarity=0.260 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
++..++.|+.+|.-+++.|++++.
T Consensus 168 ~~~Rl~~L~~qi~~~~~~l~~~~~ 191 (475)
T PF10359_consen 168 IQERLDELEEQIEKHEEKLGELEL 191 (475)
T ss_pred HHHHHHHHHHHHHHHHHhhhcccc
Confidence 344566677777777777666553
No 344
>PRK10869 recombination and repair protein; Provisional
Probab=23.33 E-value=1.2e+02 Score=25.52 Aligned_cols=23 Identities=30% Similarity=0.354 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHhhhhccch
Q 038668 36 VQVLEREIGLLQEELKSVEDVQP 58 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~~~~ 58 (83)
-+..++++.||+-++++|+.+.+
T Consensus 180 ~~~~~~~~d~l~fql~Ei~~~~l 202 (553)
T PRK10869 180 SQERAARKQLLQYQLKELNEFAP 202 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCC
Confidence 35566777888888888877665
No 345
>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]
Probab=23.17 E-value=1.5e+02 Score=26.34 Aligned_cols=27 Identities=26% Similarity=0.354 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
|-|.+-.|.+||+||.-|+.|=++|=.
T Consensus 506 RKRKLd~I~nLE~ev~~l~~eKeqLl~ 532 (604)
T KOG3863|consen 506 RKRKLDCILNLEDEVEKLQKEKEQLLR 532 (604)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667899999999999888776643
No 346
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=23.00 E-value=1.1e+02 Score=26.57 Aligned_cols=29 Identities=21% Similarity=0.263 Sum_probs=21.6
Q ss_pred chhHHHHHHHHHHHHHHHHHHH----HHHhhhh
Q 038668 26 LYGKRRQMVKVQVLEREIGLLQ----EELKSVE 54 (83)
Q Consensus 26 ~~GkhR~~ael~~LeqEi~fLe----eEL~~LE 54 (83)
+.+|-+.+.++|.|-.||.|++ .||+++-
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 4567778888888888888887 6666553
No 347
>PF05300 DUF737: Protein of unknown function (DUF737); InterPro: IPR007964 This family consists of several uncharacterised mammalian proteins of unknown function.
Probab=22.84 E-value=1.3e+02 Score=22.49 Aligned_cols=31 Identities=19% Similarity=0.237 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhhhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPASIC 62 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS~~ 62 (83)
...-.+++++|-..+||||..+=.-+..+..
T Consensus 81 ~e~~~kr~e~eQa~VQeEL~r~a~rEReAa~ 111 (187)
T PF05300_consen 81 KEELLKRFEQEQAQVQEELARLAQREREAAA 111 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344799999999999999988665555443
No 348
>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=22.82 E-value=1e+02 Score=21.52 Aligned_cols=26 Identities=23% Similarity=0.293 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHhhhhccchhhh
Q 038668 36 VQVLEREIGLLQEELKSVEDVQPASI 61 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~~~~aS~ 61 (83)
...|++||..|+|+-..-|-++.+|-
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 35688999999999888887777654
No 349
>PF14182 YgaB: YgaB-like protein
Probab=22.80 E-value=99 Score=20.76 Aligned_cols=24 Identities=25% Similarity=0.515 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.|++..+..||+-.+.+|+.+..+
T Consensus 39 ea~l~~i~~EI~~mkk~Lk~Iq~~ 62 (79)
T PF14182_consen 39 EAELHSIQEEISQMKKELKEIQRV 62 (79)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHH
Confidence 356677777788888887777654
No 350
>PHA03395 p10 fibrous body protein; Provisional
Probab=22.72 E-value=1.7e+02 Score=19.89 Aligned_cols=23 Identities=13% Similarity=0.267 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE 54 (83)
|.+.|+.+...+..||..++.+.
T Consensus 9 Ir~dIkavd~KVdalQ~~V~~l~ 31 (87)
T PHA03395 9 IRQDIKAVSDKVDALQAAVDDVR 31 (87)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHH
Confidence 45667777777777775555554
No 351
>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=22.71 E-value=1.5e+02 Score=21.61 Aligned_cols=24 Identities=21% Similarity=0.423 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE 54 (83)
++++++..++.+|.-|+++|+...
T Consensus 73 ~l~~~~~~~~~~i~~l~~~i~~~~ 96 (188)
T PF03962_consen 73 KLQKEIEELEKKIEELEEKIEEAK 96 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566666666666666666553
No 352
>PF12520 DUF3723: Protein of unknown function (DUF3723) ; InterPro: IPR022198 This family of proteins is found in eukaryotes. Proteins in this family are typically between 374 and 1069 amino acids in length. There is a conserved LGF sequence motif.
Probab=22.64 E-value=44 Score=27.99 Aligned_cols=18 Identities=22% Similarity=0.191 Sum_probs=14.7
Q ss_pred CCcchhHHHHHHHHHHHH
Q 038668 23 ALDLYGKRRQMVKVQVLE 40 (83)
Q Consensus 23 ~~D~~GkhR~~ael~~Le 40 (83)
..-++||||+.|+.+.|-
T Consensus 50 l~cL~Grhri~Aa~~~L~ 67 (511)
T PF12520_consen 50 LRCLHGRHRIAAAREFLP 67 (511)
T ss_pred eeeecChHHHHHHHHhcC
Confidence 446899999999988854
No 353
>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=22.61 E-value=28 Score=25.83 Aligned_cols=55 Identities=9% Similarity=0.131 Sum_probs=30.9
Q ss_pred cchhHHHH--HHHHHHHHHHHHHHHHHHhhhhccchhhhhhHHHHHHhccCCCCCCccc
Q 038668 25 DLYGKRRQ--MVKVQVLEREIGLLQEELKSVEDVQPASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 25 D~~GkhR~--~ael~~LeqEi~fLeeEL~~LE~~~~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
|.-|-.|+ .+.++.|.+.+..-. +.-.++..+ .-.++--+-.|.-.-||||+|..
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 66677777 455665544333200 111223222 33355566678888999999965
No 354
>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=22.60 E-value=1.4e+02 Score=18.67 Aligned_cols=16 Identities=38% Similarity=0.538 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHhhh
Q 038668 38 VLEREIGLLQEELKSV 53 (83)
Q Consensus 38 ~LeqEi~fLeeEL~~L 53 (83)
.|..++..|+.+|+.|
T Consensus 69 ~l~~~~~~l~~~l~~l 84 (91)
T cd04766 69 ELEEELAELRAELDEL 84 (91)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3556666777776665
No 355
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=22.49 E-value=1.3e+02 Score=22.21 Aligned_cols=26 Identities=23% Similarity=0.284 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.+..+|.+++.||..++.+++.|+.-
T Consensus 166 ~ie~~L~~v~~eIe~~~~~~~~l~~~ 191 (262)
T PF14257_consen 166 EIERELSRVRSEIEQLEGQLKYLDDR 191 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45667777777777777777777654
No 356
>PHA02562 46 endonuclease subunit; Provisional
Probab=22.46 E-value=98 Score=24.69 Aligned_cols=22 Identities=23% Similarity=0.191 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~ 52 (83)
+++++|..|+.+..-++++|++
T Consensus 362 ~l~~ei~~l~~~~~~~~~~l~~ 383 (562)
T PHA02562 362 KVKAAIEELQAEFVDNAEELAK 383 (562)
T ss_pred HHHHHHHHHHhhhhchHHHHHH
Confidence 4445555554444444444443
No 357
>PRK10772 cell division protein FtsL; Provisional
Probab=22.41 E-value=1.6e+02 Score=20.39 Aligned_cols=25 Identities=20% Similarity=0.141 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Q 038668 29 KRRQMVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 29 khR~~ael~~LeqEi~fLeeEL~~L 53 (83)
-|+.-++++++.+|-..|+.|--.|
T Consensus 47 tR~l~~ele~l~~e~~~Le~Ew~~L 71 (108)
T PRK10772 47 TRLLTAEREQLVLERDALDIEWRNL 71 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566788888888888888876654
No 358
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=22.40 E-value=1.3e+02 Score=22.24 Aligned_cols=25 Identities=24% Similarity=0.335 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-+.+++..|++||..|+.+..+++.
T Consensus 193 eie~a~~~Le~ei~~l~~~~~~~~~ 217 (221)
T PF05700_consen 193 EIEVACEELEQEIEQLKRKAAELKE 217 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4567778888888888877766654
No 359
>PF12107 VEK-30: Plasminogen (Pg) ligand in fibrinolytic pathway; InterPro: IPR021965 Pg is an important mediator of angiostatin production in the fibrinolytic pathway. Pg is made up of five subunit kringle molecules (Pg-K1 to Pg-K5), of which the first three make the protein angiostatin. VEK-30 is a domain of the group A streptococcal protein PAM. It binds to Pg-K2 of angiostatin and activates the molecule to mediate its anti-angiogenic effects. VEK-30 binds to angiostatin via a C-terminal lysine with argininyl and glutamyl side chain residues known as a 'through space isostere' [].; PDB: 2KJ4_B 2DOI_B 2DOH_C 1I5K_D.
Probab=22.13 E-value=78 Score=15.88 Aligned_cols=9 Identities=22% Similarity=0.442 Sum_probs=6.4
Q ss_pred HHHHHHHHH
Q 038668 34 VKVQVLERE 42 (83)
Q Consensus 34 ael~~LeqE 42 (83)
|||++|..|
T Consensus 3 aeLerLkne 11 (17)
T PF12107_consen 3 AELERLKNE 11 (17)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 677777765
No 360
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=22.03 E-value=1.8e+02 Score=19.11 Aligned_cols=17 Identities=35% Similarity=0.339 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHhh
Q 038668 36 VQVLEREIGLLQEELKS 52 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~ 52 (83)
-.+|-+||..||+-|..
T Consensus 18 k~~Li~ei~~LQ~sL~~ 34 (80)
T PF10224_consen 18 KEELIQEILELQDSLEA 34 (80)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45666677777766663
No 361
>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=21.89 E-value=49 Score=17.80 Aligned_cols=22 Identities=23% Similarity=0.265 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHhhhhccchhhh
Q 038668 40 EREIGLLQEELKSVEDVQPASI 61 (83)
Q Consensus 40 eqEi~fLeeEL~~LE~~~~aS~ 61 (83)
+..+.--.|||.+|.|+++..+
T Consensus 3 ~g~~pas~eeL~~lpGIG~~tA 24 (30)
T PF00633_consen 3 DGLIPASIEELMKLPGIGPKTA 24 (30)
T ss_dssp HHHHTSSHHHHHTSTT-SHHHH
T ss_pred CCcCCCCHHHHHhCCCcCHHHH
Confidence 3344445689999999998765
No 362
>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=21.77 E-value=1.1e+02 Score=19.44 Aligned_cols=21 Identities=24% Similarity=0.521 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHhhhhcc
Q 038668 36 VQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~LE~~ 56 (83)
.+.|++++..|++++++|..+
T Consensus 75 ~~~l~~~~~~l~~~i~~l~~~ 95 (96)
T cd04788 75 LELLRRQLARLEEQLELATRL 95 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 456777777777777776644
No 363
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=21.74 E-value=1.2e+02 Score=26.11 Aligned_cols=17 Identities=12% Similarity=0.313 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHh
Q 038668 35 KVQVLEREIGLLQEELK 51 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~ 51 (83)
++..||+++..|+.|++
T Consensus 77 kasELEKqLaaLrqElq 93 (475)
T PRK13729 77 TAAQMQKQYEEIRRELD 93 (475)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45566666666665554
No 364
>PHA03158 hypothetical protein; Provisional
Probab=21.73 E-value=56 Score=26.04 Aligned_cols=15 Identities=27% Similarity=0.353 Sum_probs=12.2
Q ss_pred HHHHHHHHHhhhhcc
Q 038668 42 EIGLLQEELKSVEDV 56 (83)
Q Consensus 42 Ei~fLeeEL~~LE~~ 56 (83)
-+..|||||++||+.
T Consensus 255 ~~~~leeei~eleks 269 (273)
T PHA03158 255 HEKELEEEIEELEKS 269 (273)
T ss_pred HHHHHHHHHHHHHHh
Confidence 367899999999874
No 365
>PF12443 AKNA: AT-hook-containing transcription factor; InterPro: IPR022150 This domain family is found in eukaryotes, and is approximately 110 amino acids in length. This family contains a transcription factor which regulates the expression of the costimulatory molecules on lymphocytes.
Probab=21.70 E-value=1e+02 Score=21.59 Aligned_cols=25 Identities=16% Similarity=0.236 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+..-+++++|-....-|++..++..
T Consensus 48 ~ege~~~qkL~eqteeLK~kvqe~s 72 (106)
T PF12443_consen 48 REGEQMIQKLGEQTEELKDKVQEFS 72 (106)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344455555555555555444443
No 366
>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=21.69 E-value=1.5e+02 Score=18.30 Aligned_cols=23 Identities=13% Similarity=0.245 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE 54 (83)
+-+.|..||+++.-.|.+++.-|
T Consensus 30 iEqRLa~LE~rL~~ae~ra~~ae 52 (60)
T PF11471_consen 30 IEQRLAALEQRLQAAEQRAQAAE 52 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455666666666666665544
No 367
>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=21.69 E-value=1.2e+02 Score=26.92 Aligned_cols=28 Identities=21% Similarity=0.272 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhhh
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPASI 61 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS~ 61 (83)
.++..|++|+.-|++|+++|+.+-..-.
T Consensus 427 ~e~~kl~~e~~~l~~ei~~l~~iL~~~~ 454 (800)
T TIGR01063 427 LEREKLQEEYKELLELIADLEDILASEE 454 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCHH
Confidence 4677888888888888888887755544
No 368
>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=21.65 E-value=1.2e+02 Score=19.68 Aligned_cols=24 Identities=17% Similarity=0.329 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
...|+.|-+...-|+|-++.||.+
T Consensus 41 ~~~L~~L~~~a~rm~eRI~tLE~I 64 (75)
T PF06667_consen 41 EQRLQELYEQAERMEERIETLERI 64 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788888888899888888875
No 369
>PF12958 DUF3847: Protein of unknown function (DUF3847); InterPro: IPR024215 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=21.58 E-value=1.5e+02 Score=19.86 Aligned_cols=20 Identities=30% Similarity=0.406 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHhhhh
Q 038668 35 KVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~LE 54 (83)
+|.+.+.++.-|+-.++.|+
T Consensus 16 kl~q~e~~~k~L~nr~k~l~ 35 (86)
T PF12958_consen 16 KLEQAEHKIKQLENRKKKLE 35 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444555555555554
No 370
>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=21.51 E-value=1.5e+02 Score=17.56 Aligned_cols=18 Identities=28% Similarity=0.431 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 038668 35 KVQVLEREIGLLQEELKS 52 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~ 52 (83)
+|+.+.+.+.-++++|++
T Consensus 5 ~Ld~~~~~~~~~~~~l~~ 22 (92)
T PF05190_consen 5 ELDELREEYEEIEEELEE 22 (92)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444444444443
No 371
>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=21.50 E-value=1.2e+02 Score=23.31 Aligned_cols=24 Identities=17% Similarity=0.248 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+-.|+.++.++|..|+.|+++|..
T Consensus 98 LE~elr~~~~~~~~L~~Ev~~L~~ 121 (248)
T PF08172_consen 98 LEEELRKQQQTISSLRREVESLRA 121 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
No 372
>PRK05560 DNA gyrase subunit A; Validated
Probab=21.50 E-value=84 Score=27.77 Aligned_cols=25 Identities=16% Similarity=0.232 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccch
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQP 58 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~ 58 (83)
.++..|++|+.-|++|+++|+.+=.
T Consensus 430 ~e~~kL~~E~~~l~~ei~~l~~iL~ 454 (805)
T PRK05560 430 LERDKIEDEYKELLALIADLKDILA 454 (805)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 5678888899999999988888733
No 373
>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=21.49 E-value=1.5e+02 Score=21.13 Aligned_cols=24 Identities=21% Similarity=0.353 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+...++.|++||.-|+.-++.|+.
T Consensus 79 L~~~~~~l~~ei~~L~~~~~~l~~ 102 (172)
T cd04790 79 LRRRLAELNREIQRLRQQQRAIAT 102 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555554443
No 374
>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=21.48 E-value=1.6e+02 Score=18.78 Aligned_cols=8 Identities=13% Similarity=-0.006 Sum_probs=3.9
Q ss_pred HHHHHHHH
Q 038668 29 KRRQMVKV 36 (83)
Q Consensus 29 khR~~ael 36 (83)
|||++..-
T Consensus 34 k~Klq~ar 41 (83)
T PF07544_consen 34 KHKLQKAR 41 (83)
T ss_pred HHHHHHHH
Confidence 45555443
No 375
>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=21.46 E-value=1.2e+02 Score=21.46 Aligned_cols=22 Identities=18% Similarity=0.350 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhc
Q 038668 34 VKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~ 55 (83)
.+|+.|+..|.-|..+|+.|.+
T Consensus 109 ~dv~~L~~rId~L~~~v~~l~~ 130 (132)
T PF05597_consen 109 KDVEALSARIDQLTAQVERLAN 130 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 4577788888888888877764
No 376
>cd04376 RhoGAP_ARHGAP6 RhoGAP_ARHGAP6: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP6-like proteins. ArhGAP6 shows GAP activity towards RhoA, but not towards Cdc42 and Rac1. ArhGAP6 is often deleted in microphthalmia with linear skin defects syndrome (MLS); MLS is a severe X-linked developmental disorder. 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=21.45 E-value=1.1e+02 Score=22.23 Aligned_cols=24 Identities=21% Similarity=0.285 Sum_probs=17.2
Q ss_pred hhhhhHHHHHHhccCCCCCCcccC
Q 038668 59 ASICCKEVDDFVGAKPDPLVAMYD 82 (83)
Q Consensus 59 aS~~CkEv~~~Ves~pDPLLP~t~ 82 (83)
+-.+|-=+-.|.-.-|+||+|..-
T Consensus 61 ~h~va~lLK~fLReLPePLi~~~~ 84 (206)
T cd04376 61 VHDVAALLKEFFRDMPDPLLPREL 84 (206)
T ss_pred HHHHHHHHHHHHHhCCCccCCHHH
Confidence 334566667778888999999643
No 377
>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=21.43 E-value=2.1e+02 Score=21.83 Aligned_cols=24 Identities=21% Similarity=0.419 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 32 QMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
+.+.|+.|++.+..++.+++..+.
T Consensus 279 l~~~i~~l~~~~~~~~~~l~~~~~ 302 (370)
T PF02181_consen 279 LEQDIKELEKGLEKIKKELEAIEK 302 (370)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCCT
T ss_pred HHHHHHHHHHHHHHHHHHHHhccc
Confidence 556677777777777777766665
No 378
>PF14335 DUF4391: Domain of unknown function (DUF4391)
Probab=21.30 E-value=1.5e+02 Score=21.62 Aligned_cols=27 Identities=26% Similarity=0.565 Sum_probs=19.5
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHh
Q 038668 25 DLYGKRRQMVKVQVLEREIGLLQEELK 51 (83)
Q Consensus 25 D~~GkhR~~ael~~LeqEi~fLeeEL~ 51 (83)
++-=+.-.+.++..|++||.-|+..++
T Consensus 173 ~~~~~~~~~~~i~~L~kei~~L~~~~~ 199 (221)
T PF14335_consen 173 SLWERIERLEQIEKLEKEIAKLKKKIK 199 (221)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455667788888888888887765
No 379
>PF01420 Methylase_S: Type I restriction modification DNA specificity domain; InterPro: IPR000055 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 I restriction endonucleases are components of prokaryotic DNA restriction-modification mechanisms that protects the organism against invading foreign DNA. Type I enzymes have three different subunits subunits - M (modification), S (specificity) and R (restriction) - that form multifunctional enzymes with restriction (3.1.21.3 from EC), methylase (2.1.1.72 from EC) and ATPase activities [, ]. The S subunit is required for both restriction and modification and is responsible for recognition of the DNA sequence specific for the system. The M subunit is necessary for modification, and the R subunit is required for restriction. These enzymes use S-Adenosyl-L-methionine (AdoMet) as the methyl group donor in the methylation reaction, and have a requirement for ATP. They recognise asymmetric DNA sequences split into two domains of specific sequence, one 3-4 bp long and another 4-5 bp long, separated by a nonspecific spacer 6-8 bp in length. Cleavage occurs a considerable distance from the recognition sites, rarely less than 400 bp away and up to 7000 bp away. Adenosyl residues are methylated, one on each strand of the recognition sequence. These enzymes are widespread in eubacteria and archaea. In enteric bacteria they have been subdivide into four families: types IA, IB, IC and ID. This entry represents the S subunit of type I restriction endonucleases (3.1.21.3 from EC). The M and S subunits together form a methyltransferase that methylates two adenine residues in complementary strands of a bipartite DNA recognition sequence. In the presence of the R subunit the complex can also act as an endonuclease, binding to the same target sequence but cutting the DNA some distance from this site. Whether the DNA is cut or modified depends on the methylation state of the target sequence: when the target site is unmodified, the DNA is cut; when the target site is hemi-methylated, the complex acts as a maintenance methyltransferase to modify the DNA, methylating both strands []. Most of the proteins in this family have two copies of the domain.; GO: 0003677 DNA binding, 0006304 DNA modification; PDB: 1YF2_B 2Y7H_A 2Y7C_A 3OKG_A 1YDX_A.
Probab=21.19 E-value=2e+02 Score=17.95 Aligned_cols=30 Identities=17% Similarity=0.298 Sum_probs=20.8
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 038668 25 DLYGKRRQMVKVQVLEREIGLLQEELKSVE 54 (83)
Q Consensus 25 D~~GkhR~~ael~~LeqEi~fLeeEL~~LE 54 (83)
.+-=-+++...+..+...|...++.+++||
T Consensus 137 ~~~eQ~~i~~~l~~~~~~~~l~~~~~~~l~ 166 (167)
T PF01420_consen 137 PLEEQQKIVEILDQLDKKIALEKKIIAELE 166 (167)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 333356677778888887777777777775
No 380
>PF09059 TyeA: TyeA; InterPro: IPR015144 This domain is composed of two pairs of parallel alpha-helices, and interacts with the bacterial protein YopN via hydrophobic residues located on the helices. Association of TyeA with the C terminus of YopN is accompanied by conformational changes in both polypeptides that create order out of disorder: the resulting structure then serves as an impediment to type III secretion of YopN []. ; PDB: 1XL3_D.
Probab=21.14 E-value=41 Score=22.45 Aligned_cols=35 Identities=29% Similarity=0.299 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHhhh------------hccchhhhhhHHHHHH
Q 038668 34 VKVQVLEREIGLLQEELKSV------------EDVQPASICCKEVDDF 69 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~L------------E~~~~aS~~CkEv~~~ 69 (83)
+.+..++++|.||++ ++.| |+-+.+=.+|++.++-
T Consensus 33 ~~~~d~e~qI~Flre-l~~l~r~~Pv~vF~D~EqR~~vL~a~Q~alD~ 79 (87)
T PF09059_consen 33 LGLPDIEQQILFLRE-LKELFRLMPVDVFNDEEQRQNVLDAVQEALDQ 79 (87)
T ss_dssp T--SSHHHHHHHHHH-HHHHHHTS-GGGSS-HHHHHHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHHHHH-HHHHHHHCcHHhcCCHHHHHHHHHHHHHHHHH
Confidence 345678999999995 4443 3334445567776653
No 381
>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=21.13 E-value=50 Score=24.05 Aligned_cols=40 Identities=15% Similarity=0.277 Sum_probs=26.6
Q ss_pred HHHHHHHHHhhhh---ccchhhhhhHHHHHHhccCCCCCCccc
Q 038668 42 EIGLLQEELKSVE---DVQPASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 42 Ei~fLeeEL~~LE---~~~~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
.|.-+.+.|+.=. ....+-.+|-=+..|..+-||||||..
T Consensus 84 ~i~~l~~~ld~~~~~~~~~~~~~va~~LK~fLr~LpePlip~~ 126 (220)
T cd04380 84 LLAEIRDALDTGSPFNSPGSAESVAEALLLFLESLPDPIIPYS 126 (220)
T ss_pred HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhCCCCccCHH
Confidence 3444555554432 224555678888899999999999964
No 382
>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=20.99 E-value=1.4e+02 Score=22.82 Aligned_cols=28 Identities=21% Similarity=0.415 Sum_probs=21.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
...++..++..|+.++..|++.|+..+.
T Consensus 19 e~~~Lk~kir~le~~l~~Lk~~l~~~~~ 46 (236)
T PF12017_consen 19 ENKKLKKKIRRLEKELKKLKQKLEKYQK 46 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4466778899999999999988866543
No 383
>cd04385 RhoGAP_ARAP RhoGAP_ARAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in ARAPs. ARAPs (also known as centaurin deltas) contain, besides the RhoGAP domain, an Arf GAP, ankyrin repeat ras-associating, and PH domains. Since their ArfGAP activity is PIP3-dependent, ARAPs are considered integration points for phosphoinositide, Arf and Rho signaling. 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=20.96 E-value=53 Score=23.21 Aligned_cols=24 Identities=21% Similarity=0.347 Sum_probs=18.4
Q ss_pred hhhhhhHHHHHHhccCCCCCCccc
Q 038668 58 PASICCKEVDDFVGAKPDPLVAMY 81 (83)
Q Consensus 58 ~aS~~CkEv~~~Ves~pDPLLP~t 81 (83)
.+-.+|-=+-.|...-||||+|..
T Consensus 68 d~~~va~llK~yLreLP~pLi~~~ 91 (184)
T cd04385 68 TVHDVADVLKRFLRDLPDPLLTSE 91 (184)
T ss_pred CHHHHHHHHHHHHHhCCCccCCHH
Confidence 445567777788888899999964
No 384
>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=20.94 E-value=2.5e+02 Score=19.20 Aligned_cols=41 Identities=17% Similarity=0.139 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcc------chhhhhhHHHHHHh
Q 038668 30 RRQMVKVQVLEREIGLLQEELKSVEDV------QPASICCKEVDDFV 70 (83)
Q Consensus 30 hR~~ael~~LeqEi~fLeeEL~~LE~~------~~aS~~CkEv~~~V 70 (83)
..+..+++.++++|.-|++-.+.|+.+ .+...+|-|-..-+
T Consensus 81 ~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~~~~~~~~~~~~~~~~ 127 (131)
T cd04786 81 AALERKVADIEALEARLAQNKAQLLVLIDLIESKPDEMDCADNARRV 127 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCchHHHHHH
Confidence 345556666666666666554444332 33455675554433
No 385
>KOG4378 consensus Nuclear protein COP1 [Signal transduction mechanisms]
Probab=20.90 E-value=1e+02 Score=27.51 Aligned_cols=20 Identities=25% Similarity=0.443 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 038668 34 VKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~L 53 (83)
.|-++|-.||+||+||=+.|
T Consensus 650 ~eNe~l~aelk~lreenq~l 669 (673)
T KOG4378|consen 650 NENEMLKAELKFLREENQTL 669 (673)
T ss_pred hhhHHHHHHHHHHHHhhhhh
Confidence 44455666777777766554
No 386
>PRK09343 prefoldin subunit beta; Provisional
Probab=20.78 E-value=2.5e+02 Score=18.99 Aligned_cols=29 Identities=10% Similarity=0.201 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccchhhhh
Q 038668 34 VKVQVLEREIGLLQEELKSVEDVQPASIC 62 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~LE~~~~aS~~ 62 (83)
...+.|+.+++-++-=+++|+++++-+.+
T Consensus 28 ~q~~~le~q~~e~~~~~~EL~~L~~d~~V 56 (121)
T PRK09343 28 QQKSQIDLELREINKALEELEKLPDDTPI 56 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCcchh
Confidence 34445555555555555555665544443
No 387
>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=20.70 E-value=1.8e+02 Score=20.18 Aligned_cols=29 Identities=7% Similarity=0.139 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhccchhh
Q 038668 32 QMVKVQVLEREIGLLQEELKSVEDVQPAS 60 (83)
Q Consensus 32 ~~ael~~LeqEi~fLeeEL~~LE~~~~aS 60 (83)
....|+.+.++|..++..++++.|.-..+
T Consensus 24 ~~~q~~q~~~Ql~~~k~q~~s~tG~r~~~ 52 (195)
T PF07996_consen 24 WKQQLEQLKQQLQQAKQQYNSLTGNRGLG 52 (195)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTT--GG
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCcHH
Confidence 34556777777777777777777765544
No 388
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=20.66 E-value=1.3e+02 Score=26.35 Aligned_cols=24 Identities=13% Similarity=0.336 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
..+|+.|..|+.-||++.++|+.-
T Consensus 24 a~~i~~L~~ql~aLq~~v~eL~~~ 47 (514)
T PF11336_consen 24 ADQIKALQAQLQALQDQVNELRAK 47 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568999999999999999999864
No 389
>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=20.66 E-value=3e+02 Score=19.03 Aligned_cols=20 Identities=25% Similarity=0.398 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 038668 34 VKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~L 53 (83)
.++..+++.+..++.++..+
T Consensus 95 ~el~~l~~~~~~~~~~l~~~ 114 (191)
T PF04156_consen 95 EELDQLQERIQELESELEKL 114 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444
No 390
>PF05928 Zea_mays_MuDR: Zea mays MURB-like protein (MuDR); InterPro: IPR009227 This family consists of several Zea mays (Maize) specific MURB-like proteins. The transposition of Mu elements underlying Mutator activity in maize requires a transcriptionally active MuDR element. Despite variation in MuDR copy number and RNA levels in Mutator lines, transposition events are consistently late in plant development, and Mu excision frequencies are similar [].
Probab=20.65 E-value=1.8e+02 Score=22.51 Aligned_cols=30 Identities=30% Similarity=0.372 Sum_probs=22.5
Q ss_pred HHHHHHHHHhhhh-ccchhhhhhHHHHHHhc
Q 038668 42 EIGLLQEELKSVE-DVQPASICCKEVDDFVG 71 (83)
Q Consensus 42 Ei~fLeeEL~~LE-~~~~aS~~CkEv~~~Ve 71 (83)
+|+.+.+-|+.+- +++..|+.|.|.+++--
T Consensus 106 kIgk~~~~l~hVck~l~ktS~lCeEdle~k~ 136 (207)
T PF05928_consen 106 KIGKYKEKLNHVCKDLNKTSALCEEDLENKC 136 (207)
T ss_pred chhhHHHHHHHHHhccchhhHHHHHHHhccC
Confidence 5666777777664 57888999999988643
No 391
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=20.51 E-value=1.5e+02 Score=21.43 Aligned_cols=18 Identities=22% Similarity=0.362 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 038668 36 VQVLEREIGLLQEELKSV 53 (83)
Q Consensus 36 l~~LeqEi~fLeeEL~~L 53 (83)
+++|.++++-||++|++|
T Consensus 49 ~~~LR~~~~~L~~~l~~L 66 (225)
T PF04340_consen 49 LERLRERNRQLEEQLEEL 66 (225)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 556666666666666665
No 392
>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=20.48 E-value=1.4e+02 Score=20.64 Aligned_cols=16 Identities=19% Similarity=0.295 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 038668 34 VKVQVLEREIGLLQEE 49 (83)
Q Consensus 34 ael~~LeqEi~fLeeE 49 (83)
+++..|+.+|.+|+.-
T Consensus 39 ~~~~~l~~~i~~l~~~ 54 (149)
T PF07352_consen 39 AEIAPLQNRIEYLEGL 54 (149)
T ss_dssp HHCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333444444444433
No 393
>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=20.46 E-value=1.8e+02 Score=17.05 Aligned_cols=21 Identities=19% Similarity=0.302 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 038668 33 MVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~L 53 (83)
.++-..|.+|-.-|..|+..|
T Consensus 18 k~~~~~L~~E~~~L~aev~~L 38 (45)
T PF02183_consen 18 KAEYDSLKKENEKLRAEVQEL 38 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555444
No 394
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=20.44 E-value=1.3e+02 Score=24.41 Aligned_cols=25 Identities=24% Similarity=0.348 Sum_probs=19.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhh
Q 038668 28 GKRRQMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 28 GkhR~~ael~~LeqEi~fLeeEL~~ 52 (83)
-|.++|++++.|+.|+.-|+.|++.
T Consensus 222 e~seLq~r~~~l~~~L~~L~~e~~r 246 (289)
T COG4985 222 EKSELQKRLAQLQTELDALRAELER 246 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 3667888888888888888887764
No 395
>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=20.34 E-value=1.6e+02 Score=20.41 Aligned_cols=22 Identities=32% Similarity=0.428 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~ 52 (83)
-....|+.|+.|..-.++||++
T Consensus 101 ~Q~~~i~~L~~E~~~~~~el~~ 122 (144)
T PF11221_consen 101 EQLKRIKELEEENEEAEEELQE 122 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445667777777766666654
No 396
>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=20.33 E-value=2e+02 Score=17.17 Aligned_cols=22 Identities=18% Similarity=0.288 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 038668 31 RQMVKVQVLEREIGLLQEELKS 52 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~ 52 (83)
.+...++.|++-++.|.++|++
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 3556677777777777776654
No 397
>PRK11546 zraP zinc resistance protein; Provisional
Probab=20.32 E-value=1.4e+02 Score=21.61 Aligned_cols=21 Identities=19% Similarity=0.404 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 038668 33 MVKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~L 53 (83)
.++|..|.+||.-|...|.++
T Consensus 88 ~~kI~aL~kEI~~Lr~kL~e~ 108 (143)
T PRK11546 88 SSKINAVAKEMENLRQSLDEL 108 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345777888888888777654
No 398
>COG3771 Predicted membrane protein [Function unknown]
Probab=20.28 E-value=1.1e+02 Score=21.38 Aligned_cols=27 Identities=30% Similarity=0.410 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVEDVQ 57 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~~~ 57 (83)
|.+..+-+|+|+|+.++..+.++-.+.
T Consensus 66 k~~l~~~~l~rqiKr~~~q~~~~t~~~ 92 (97)
T COG3771 66 KVRLSLMRLERQIKRLENQLSDVTVVR 92 (97)
T ss_pred HHHHHHHHHHHHHHHHHhhcCcceeec
Confidence 455677889999999988877655443
No 399
>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=20.27 E-value=98 Score=21.95 Aligned_cols=19 Identities=21% Similarity=0.492 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHhhhhcc
Q 038668 38 VLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 38 ~LeqEi~fLeeEL~~LE~~ 56 (83)
.|++.|..|+..|+..+=+
T Consensus 56 ~le~rI~~L~~~L~~A~ii 74 (156)
T TIGR01461 56 EIDRRVRFLTKRLENLKVV 74 (156)
T ss_pred HHHHHHHHHHHHHhcCEEe
Confidence 3444555555555544333
No 400
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=20.23 E-value=1.9e+02 Score=16.71 Aligned_cols=25 Identities=32% Similarity=0.343 Sum_probs=16.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHh
Q 038668 26 LYGKRRQMVKVQVLEREIGLLQEELK 51 (83)
Q Consensus 26 ~~GkhR~~ael~~LeqEi~fLeeEL~ 51 (83)
|-.-|| +.=|+.++.+|..+.++|+
T Consensus 30 l~~e~~-~~li~~~~~~i~~~~~~lk 54 (54)
T PF04423_consen 30 LDEEHR-QELIKKYKSEIEELPEKLK 54 (54)
T ss_dssp E-HHHH-HHHHHHHHHHHHHHHH---
T ss_pred CCHHHH-HHHHHHHHHHHHhhhhccC
Confidence 444455 6678899999999998875
No 401
>PRK11530 hypothetical protein; Provisional
Probab=20.17 E-value=1.1e+02 Score=23.38 Aligned_cols=19 Identities=16% Similarity=0.447 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 038668 35 KVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 35 el~~LeqEi~fLeeEL~~L 53 (83)
|+.+|++|++-|-.||..|
T Consensus 25 ev~ql~~~vs~LNqem~~L 43 (183)
T PRK11530 25 EVRQMHNSVSTLNQEMTQL 43 (183)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444455555554444444
No 402
>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=20.14 E-value=1.6e+02 Score=20.46 Aligned_cols=24 Identities=21% Similarity=0.321 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcc
Q 038668 33 MVKVQVLEREIGLLQEELKSVEDV 56 (83)
Q Consensus 33 ~ael~~LeqEi~fLeeEL~~LE~~ 56 (83)
.+.+..++++..-+|.-|..+|.-
T Consensus 83 ~~~l~~~~~~~~~~e~Rl~~mE~y 106 (121)
T TIGR02978 83 RQALREVKREFRDLERRLRNMERY 106 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345888889999999888888863
No 403
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=20.09 E-value=1.7e+02 Score=20.81 Aligned_cols=28 Identities=18% Similarity=0.080 Sum_probs=16.6
Q ss_pred cchhHHHHHHHHHHHHH-HHHHHHHHHhh
Q 038668 25 DLYGKRRQMVKVQVLER-EIGLLQEELKS 52 (83)
Q Consensus 25 D~~GkhR~~ael~~Leq-Ei~fLeeEL~~ 52 (83)
---|.+|+++||+.|.+ +.--+-++|+.
T Consensus 8 T~~g~~~L~~EL~~L~~~~r~e~~~~i~~ 36 (157)
T PRK01885 8 TREGYARLKQELDYLWREERPEVTQKVSW 36 (157)
T ss_pred CHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence 34677888888888754 43333334333
No 404
>PF09032 Siah-Interact_N: Siah interacting protein, N terminal ; InterPro: IPR015120 The N-terminal domain of Siah interacting protein (SIP) adopts a helical hairpin structure with a hydrophobic core stabilised by a classic knobs-and-holes arrangement of side chains contributed by the two amphipathic helices. Little is known about this domain's function, except that it is crucial for interactions with Siah. It has also been hypothesised that SIP can dimerise through this N-terminal domain []. ; PDB: 1YSM_A 2A26_C 2A25_B 1X5M_A.
Probab=20.05 E-value=1.1e+02 Score=20.01 Aligned_cols=18 Identities=33% Similarity=0.584 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHhhhhc
Q 038668 38 VLEREIGLLQEELKSVED 55 (83)
Q Consensus 38 ~LeqEi~fLeeEL~~LE~ 55 (83)
.|.+||+-||.||..++.
T Consensus 30 ~L~~ei~klE~eI~~~~~ 47 (79)
T PF09032_consen 30 LLTNEIRKLETEIKKLKE 47 (79)
T ss_dssp HHHHHHHHHHHHHHHCHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345555555555555543
No 405
>COG3750 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.03 E-value=1.3e+02 Score=20.47 Aligned_cols=20 Identities=25% Similarity=0.478 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 038668 34 VKVQVLEREIGLLQEELKSV 53 (83)
Q Consensus 34 ael~~LeqEi~fLeeEL~~L 53 (83)
..|.|||+|..-|.++++++
T Consensus 21 erIERlEeEk~~i~~dikdv 40 (85)
T COG3750 21 ERIERLEEEKKTIADDIKDV 40 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45788888888888887764
No 406
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=20.00 E-value=1.7e+02 Score=21.62 Aligned_cols=25 Identities=32% Similarity=0.395 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q 038668 31 RQMVKVQVLEREIGLLQEELKSVED 55 (83)
Q Consensus 31 R~~ael~~LeqEi~fLeeEL~~LE~ 55 (83)
-.+.+++.|+.||..|+.-|++-|.
T Consensus 168 ~~~~~~~~l~~ei~~L~~klkEKer 192 (194)
T PF15619_consen 168 EAQEEVKSLQEEIQRLNQKLKEKER 192 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3466777777777777777666553
Done!