Query psy15717
Match_columns 72
No_of_seqs 100 out of 223
Neff 6.3
Searched_HMMs 46136
Date Fri Aug 16 19:38:19 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15717.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15717hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1760|consensus 100.0 6.8E-29 1.5E-33 158.2 8.1 68 3-70 64-131 (131)
2 PF01920 Prefoldin_2: Prefoldi 99.5 1.3E-13 2.8E-18 83.5 7.0 62 3-64 45-106 (106)
3 cd00632 Prefoldin_beta Prefold 99.1 3.6E-10 7.8E-15 69.6 5.9 57 2-58 45-101 (105)
4 COG1382 GimC Prefoldin, chaper 99.0 1.1E-09 2.5E-14 69.7 6.5 65 4-68 54-118 (119)
5 cd00890 Prefoldin Prefoldin is 98.7 1E-07 2.2E-12 59.3 7.2 59 2-60 68-127 (129)
6 TIGR02338 gimC_beta prefoldin, 98.1 2.3E-05 5E-10 48.6 6.9 57 5-61 52-108 (110)
7 PRK09343 prefoldin subunit bet 98.0 3.8E-05 8.2E-10 48.6 6.4 58 4-61 54-112 (121)
8 PRK14011 prefoldin subunit alp 97.2 0.0029 6.3E-08 41.4 7.6 60 2-61 69-129 (144)
9 PF02996 Prefoldin: Prefoldin 97.2 0.0018 3.8E-08 39.8 6.3 57 3-59 59-116 (120)
10 PRK03947 prefoldin subunit alp 97.1 0.0038 8.1E-08 39.7 7.3 47 11-57 85-131 (140)
11 cd00584 Prefoldin_alpha Prefol 97.1 0.0046 9.9E-08 38.7 7.5 58 4-61 70-128 (129)
12 TIGR00293 prefoldin, archaeal 96.9 0.0081 1.8E-07 37.4 7.0 49 10-58 76-124 (126)
13 KOG3478|consensus 96.9 0.0046 9.9E-08 39.3 5.6 55 3-57 51-106 (120)
14 COG1730 GIM5 Predicted prefold 94.3 0.36 7.8E-06 31.7 6.9 55 3-57 76-131 (145)
15 PRK01203 prefoldin subunit alp 94.1 0.35 7.7E-06 31.2 6.5 53 2-54 68-121 (130)
16 PF08286 Spc24: Spc24 subunit 93.7 0.026 5.6E-07 35.3 0.6 50 18-69 11-76 (118)
17 PF06632 XRCC4: DNA double-str 93.0 0.65 1.4E-05 34.2 7.1 38 24-61 148-185 (342)
18 KOG4196|consensus 91.1 1.5 3.2E-05 28.6 6.3 41 22-62 76-116 (135)
19 KOG4098|consensus 90.1 1.4 3E-05 28.9 5.5 49 8-56 67-115 (140)
20 COG4064 MtrG Tetrahydromethano 89.6 0.6 1.3E-05 27.5 3.2 33 34-66 15-47 (75)
21 PF07195 FliD_C: Flagellar hoo 89.4 1.2 2.5E-05 30.6 5.1 40 24-63 190-229 (239)
22 PF08199 E2: Bacteriophage E2- 87.9 0.17 3.8E-06 25.7 0.2 14 53-66 2-15 (37)
23 PF04201 TPD52: Tumour protein 87.8 3.2 6.9E-05 27.9 6.2 35 23-57 32-66 (162)
24 KOG3501|consensus 87.0 3.3 7.1E-05 26.2 5.5 44 8-51 55-98 (114)
25 PF05529 Bap31: B-cell recepto 86.4 2.6 5.7E-05 27.9 5.3 33 25-57 152-184 (192)
26 PRK06798 fliD flagellar cappin 86.4 1.6 3.6E-05 32.9 4.7 38 25-62 377-414 (440)
27 TIGR00293 prefoldin, archaeal 86.3 2 4.2E-05 26.5 4.3 53 5-57 50-116 (126)
28 PF08946 Osmo_CC: Osmosensory 85.7 2 4.3E-05 23.2 3.6 32 18-49 3-34 (46)
29 PRK08032 fliD flagellar cappin 84.1 3.2 6.8E-05 31.4 5.3 38 25-62 404-441 (462)
30 PRK09343 prefoldin subunit bet 83.5 5.6 0.00012 24.9 5.5 45 18-62 76-120 (121)
31 PRK07737 fliD flagellar cappin 83.1 2.8 6.1E-05 32.1 4.7 35 28-62 442-476 (501)
32 KOG4010|consensus 83.0 5.6 0.00012 27.5 5.7 35 23-57 47-81 (208)
33 smart00338 BRLZ basic region l 83.0 5.9 0.00013 21.8 5.9 36 22-57 28-63 (65)
34 PF04977 DivIC: Septum formati 82.6 5.2 0.00011 22.3 4.7 33 21-53 18-50 (80)
35 cd00632 Prefoldin_beta Prefold 82.6 6.6 0.00014 23.7 5.4 33 21-53 71-103 (105)
36 PF02183 HALZ: Homeobox associ 81.6 6.1 0.00013 20.9 5.2 35 25-59 10-44 (45)
37 PRK06664 fliD flagellar hook-a 81.4 3.7 8E-05 32.7 5.0 38 25-62 598-635 (661)
38 PF06156 DUF972: Protein of un 80.7 5.7 0.00012 24.7 4.7 29 25-53 13-41 (107)
39 PF07106 TBPIP: Tat binding pr 80.6 5 0.00011 26.1 4.7 49 6-55 59-107 (169)
40 cd00890 Prefoldin Prefoldin is 80.3 9.6 0.00021 23.1 5.7 48 10-57 69-117 (129)
41 PF05565 Sipho_Gp157: Siphovir 80.2 12 0.00026 24.5 6.4 40 21-60 48-87 (162)
42 TIGR02338 gimC_beta prefoldin, 80.0 5.6 0.00012 24.3 4.5 36 22-57 62-97 (110)
43 PF03789 ELK: ELK domain ; In 79.9 0.62 1.4E-05 21.5 0.2 15 52-66 1-15 (22)
44 PF00170 bZIP_1: bZIP transcri 79.9 8 0.00017 21.3 6.1 34 23-56 29-62 (64)
45 cd04769 HTH_MerR2 Helix-Turn-H 79.3 8.1 0.00018 23.6 5.1 38 18-55 77-114 (116)
46 PHA01750 hypothetical protein 79.2 10 0.00022 22.1 6.2 38 20-57 35-72 (75)
47 PF11285 DUF3086: Protein of u 77.9 8.3 0.00018 27.9 5.4 33 19-51 3-35 (283)
48 PF05524 PEP-utilisers_N: PEP- 77.7 3.5 7.5E-05 25.3 3.1 56 7-64 10-65 (123)
49 PF15518 L_protein_N: L protei 77.4 1.7 3.7E-05 29.6 1.7 17 48-64 159-175 (183)
50 PRK08724 fliD flagellar cappin 77.1 7.8 0.00017 31.2 5.5 37 26-62 616-652 (673)
51 KOG3313|consensus 77.1 10 0.00022 26.0 5.4 47 3-49 110-157 (187)
52 PF02388 FemAB: FemAB family; 76.7 17 0.00036 26.9 6.9 55 12-67 234-305 (406)
53 TIGR03592 yidC_oxa1_cterm memb 76.4 17 0.00036 24.0 6.3 43 21-63 23-65 (181)
54 TIGR01149 mtrG N5-methyltetrah 76.3 6.4 0.00014 23.0 3.7 33 34-66 12-44 (70)
55 PF04201 TPD52: Tumour protein 76.0 7.6 0.00016 26.1 4.5 31 24-61 26-56 (162)
56 PRK02793 phi X174 lysis protei 75.7 11 0.00023 21.8 4.6 31 22-52 24-54 (72)
57 PRK14127 cell division protein 75.1 18 0.00038 22.7 6.3 46 13-58 20-68 (109)
58 PF04568 IATP: Mitochondrial A 74.8 13 0.00029 22.9 5.1 26 23-48 72-97 (100)
59 PF10458 Val_tRNA-synt_C: Valy 74.6 8 0.00017 21.6 3.8 17 24-40 8-24 (66)
60 PF07106 TBPIP: Tat binding pr 74.5 5.4 0.00012 25.9 3.5 31 27-57 72-102 (169)
61 PF02090 SPAM: Salmonella surf 74.3 22 0.00048 23.5 6.6 43 18-60 14-56 (147)
62 PRK01026 tetrahydromethanopter 73.9 7.7 0.00017 23.1 3.7 32 35-66 16-47 (77)
63 PF04210 MtrG: Tetrahydrometha 73.9 8.3 0.00018 22.5 3.8 32 35-66 13-44 (70)
64 PF02183 HALZ: Homeobox associ 73.5 12 0.00025 19.8 5.1 34 24-57 2-35 (45)
65 PF13015 PRKCSH_1: Glucosidase 73.5 5.5 0.00012 26.2 3.4 31 33-63 2-32 (154)
66 PRK13729 conjugal transfer pil 73.1 14 0.0003 28.7 5.8 38 20-57 80-120 (475)
67 PF10458 Val_tRNA-synt_C: Valy 72.6 13 0.00029 20.7 4.4 25 26-50 3-27 (66)
68 PF11336 DUF3138: Protein of u 72.3 6.4 0.00014 30.5 3.9 29 33-61 24-52 (514)
69 PF10602 RPN7: 26S proteasome 71.9 14 0.00031 24.3 5.1 41 23-63 3-51 (177)
70 PF04102 SlyX: SlyX; InterPro 71.9 16 0.00034 20.7 4.8 20 31-50 29-48 (69)
71 PF04799 Fzo_mitofusin: fzo-li 71.5 26 0.00056 23.7 6.2 34 22-55 115-148 (171)
72 COG2433 Uncharacterized conser 71.1 22 0.00048 28.6 6.6 45 17-61 426-470 (652)
73 KOG1029|consensus 71.0 19 0.00041 30.2 6.3 42 19-60 541-582 (1118)
74 COG5248 TAF19 Transcription in 70.8 4 8.6E-05 26.1 2.1 18 49-67 11-28 (126)
75 PF07889 DUF1664: Protein of u 70.2 26 0.00056 22.5 6.4 40 18-57 52-91 (126)
76 TIGR02209 ftsL_broad cell divi 69.9 12 0.00025 21.4 3.9 35 21-55 25-59 (85)
77 PF04111 APG6: Autophagy prote 69.6 33 0.00071 24.8 6.9 37 23-59 53-89 (314)
78 PF08172 CASP_C: CASP C termin 68.6 28 0.00062 24.5 6.3 37 24-60 90-129 (248)
79 PF04977 DivIC: Septum formati 68.2 18 0.0004 20.0 5.0 24 23-46 27-50 (80)
80 PRK13169 DNA replication intia 67.9 18 0.0004 22.6 4.7 35 22-56 10-44 (110)
81 PRK05771 V-type ATP synthase s 67.4 28 0.00061 27.2 6.5 42 17-58 83-124 (646)
82 KOG1760|consensus 67.4 25 0.00055 22.8 5.3 33 18-50 86-118 (131)
83 PF14193 DUF4315: Domain of un 67.4 21 0.00044 21.3 4.6 24 31-54 5-28 (83)
84 PF00170 bZIP_1: bZIP transcri 67.3 19 0.0004 19.7 5.6 33 26-58 25-57 (64)
85 PF10473 CENP-F_leu_zip: Leuci 67.3 31 0.00068 22.4 5.8 34 24-57 42-75 (140)
86 PF05190 MutS_IV: MutS family 67.1 14 0.00031 20.8 3.9 36 33-68 3-39 (92)
87 PRK14127 cell division protein 67.1 28 0.00061 21.8 6.0 31 23-53 40-70 (109)
88 PRK09737 EcoKI restriction-mod 67.1 38 0.00081 24.5 6.8 57 9-65 362-419 (461)
89 PRK04325 hypothetical protein; 66.5 23 0.00049 20.4 5.7 31 22-52 25-55 (74)
90 PF02996 Prefoldin: Prefoldin 66.5 26 0.00055 21.0 5.6 48 10-57 59-107 (120)
91 PF05377 FlaC_arch: Flagella a 66.3 21 0.00045 19.9 5.1 30 25-54 5-34 (55)
92 PRK00295 hypothetical protein; 66.3 22 0.00048 20.2 5.7 32 21-52 20-51 (68)
93 PF04508 Pox_A_type_inc: Viral 65.8 13 0.00027 17.3 2.8 16 31-46 5-20 (23)
94 cd00584 Prefoldin_alpha Prefol 65.6 29 0.00062 21.3 5.7 47 11-57 70-117 (129)
95 PF12718 Tropomyosin_1: Tropom 65.5 34 0.00073 22.0 6.3 34 24-57 32-65 (143)
96 TIGR02894 DNA_bind_RsfA transc 65.3 38 0.00081 22.7 6.0 29 29-57 106-134 (161)
97 PF05615 THOC7: Tho complex su 65.0 32 0.00069 21.6 6.1 30 28-57 75-104 (139)
98 PF06386 GvpL_GvpF: Gas vesicl 64.9 9.7 0.00021 26.1 3.3 38 3-42 77-114 (249)
99 KOG3901|consensus 64.7 6.2 0.00013 24.9 2.0 18 48-66 10-27 (109)
100 PF04859 DUF641: Plant protein 64.4 24 0.00051 22.8 4.8 27 23-49 97-123 (131)
101 PF13815 Dzip-like_N: Iguana/D 64.1 32 0.00069 21.2 6.2 32 24-55 84-115 (118)
102 PRK11637 AmiB activator; Provi 63.9 42 0.0009 24.9 6.7 35 25-59 101-135 (428)
103 COG3883 Uncharacterized protei 63.8 36 0.00078 24.5 6.0 24 24-47 42-65 (265)
104 PRK14160 heat shock protein Gr 63.6 31 0.00067 23.9 5.5 36 22-57 49-84 (211)
105 PF12329 TMF_DNA_bd: TATA elem 63.5 26 0.00057 20.1 6.1 39 19-57 32-70 (74)
106 PF02096 60KD_IMP: 60Kd inner 63.3 40 0.00086 22.1 6.3 42 21-62 24-65 (198)
107 PF05600 DUF773: Protein of un 63.2 43 0.00093 25.9 6.8 47 21-67 454-505 (507)
108 PF07889 DUF1664: Protein of u 63.2 33 0.00072 22.0 5.3 39 18-56 59-97 (126)
109 PRK03947 prefoldin subunit alp 63.0 35 0.00075 21.3 6.3 34 24-57 91-124 (140)
110 PRK12765 flagellar capping pro 62.9 20 0.00043 28.2 5.0 37 25-61 530-566 (595)
111 cd08637 DNA_pol_A_pol_I_C Poly 62.5 20 0.00043 26.4 4.7 40 23-62 3-48 (377)
112 PRK04406 hypothetical protein; 62.2 29 0.00062 20.1 5.7 24 32-55 30-53 (75)
113 PRK10884 SH3 domain-containing 61.5 50 0.0011 22.6 6.4 30 25-54 137-166 (206)
114 PF07888 CALCOCO1: Calcium bin 61.4 52 0.0011 26.0 7.0 31 27-57 150-180 (546)
115 PRK13922 rod shape-determining 61.4 37 0.00081 23.5 5.7 38 23-60 72-112 (276)
116 PF11641 Antigen_Bd37: Glycosy 61.3 17 0.00036 25.4 3.8 28 34-64 197-224 (224)
117 PF10211 Ax_dynein_light: Axon 61.3 33 0.00071 23.1 5.3 26 30-55 123-148 (189)
118 COG5019 CDC3 Septin family pro 61.3 36 0.00079 25.7 5.9 37 22-58 330-366 (373)
119 PF14389 Lzipper-MIP1: Leucine 61.0 29 0.00064 20.6 4.5 35 25-59 52-86 (88)
120 PRK15335 type III secretion sy 60.9 45 0.00097 21.9 6.3 43 18-60 14-56 (147)
121 PRK05771 V-type ATP synthase s 60.8 55 0.0012 25.7 7.0 36 18-53 213-248 (646)
122 PRK02119 hypothetical protein; 60.7 30 0.00066 19.9 5.7 25 31-55 27-51 (73)
123 PF08286 Spc24: Spc24 subunit 60.7 2.8 6.1E-05 26.0 0.0 33 25-57 4-36 (118)
124 PF12329 TMF_DNA_bd: TATA elem 60.5 30 0.00066 19.9 5.5 35 23-57 22-56 (74)
125 KOG3048|consensus 60.0 49 0.0011 22.0 7.2 51 3-53 83-134 (153)
126 PRK00846 hypothetical protein; 59.6 34 0.00074 20.2 5.7 35 20-54 27-61 (77)
127 PRK00888 ftsB cell division pr 59.5 38 0.00083 20.7 5.0 35 21-55 28-62 (105)
128 PF15290 Syntaphilin: Golgi-lo 58.9 22 0.00047 26.1 4.3 29 31-59 72-100 (305)
129 PF14193 DUF4315: Domain of un 58.9 36 0.00079 20.2 5.1 31 23-53 4-34 (83)
130 PF06720 Phi-29_GP16_7: Bacter 58.6 4.3 9.3E-05 26.0 0.6 39 31-69 31-70 (130)
131 PTZ00464 SNF-7-like protein; P 58.3 58 0.0013 22.4 6.8 38 16-53 14-51 (211)
132 PF03962 Mnd1: Mnd1 family; I 58.1 53 0.0011 22.0 5.8 43 11-54 54-96 (188)
133 PF06825 HSBP1: Heat shock fac 57.9 17 0.00038 20.0 2.9 37 19-55 13-49 (54)
134 cd01107 HTH_BmrR Helix-Turn-He 57.9 39 0.00085 20.3 4.9 32 19-50 74-105 (108)
135 PF04728 LPP: Lipoprotein leuc 57.8 32 0.00069 19.2 5.6 27 31-57 7-33 (56)
136 PRK11637 AmiB activator; Provi 57.7 63 0.0014 23.9 6.7 12 35-46 104-115 (428)
137 KOG2266|consensus 57.5 17 0.00036 28.7 3.6 36 31-68 524-559 (594)
138 PF11853 DUF3373: Protein of u 57.3 11 0.00024 29.3 2.7 27 28-54 32-58 (489)
139 KOG4010|consensus 57.0 29 0.00064 24.1 4.5 30 22-51 39-68 (208)
140 COG4467 Regulator of replicati 56.9 35 0.00077 21.6 4.5 24 34-57 8-31 (114)
141 COG2919 Septum formation initi 56.8 45 0.00097 20.6 5.1 35 22-56 52-86 (117)
142 COG3105 Uncharacterized protei 56.8 37 0.00081 22.2 4.7 50 7-56 19-70 (138)
143 COG2825 HlpA Outer membrane pr 56.6 28 0.00061 23.1 4.3 45 8-52 31-76 (170)
144 PF06698 DUF1192: Protein of u 56.4 34 0.00075 19.2 4.9 38 8-49 13-50 (59)
145 PF14560 Ubiquitin_2: Ubiquiti 55.0 13 0.00028 21.4 2.2 17 50-66 26-42 (87)
146 PF07888 CALCOCO1: Calcium bin 55.0 55 0.0012 25.9 6.1 34 23-56 160-193 (546)
147 PF08317 Spc7: Spc7 kinetochor 54.7 68 0.0015 23.1 6.3 34 24-57 234-267 (325)
148 PRK10803 tol-pal system protei 54.7 64 0.0014 22.6 6.0 37 24-60 58-97 (263)
149 PF14584 DUF4446: Protein of u 54.5 59 0.0013 21.3 5.5 35 24-58 43-77 (151)
150 PF13600 DUF4140: N-terminal d 54.4 43 0.00094 19.7 5.1 29 28-56 71-99 (104)
151 PF11932 DUF3450: Protein of u 54.3 69 0.0015 22.0 6.1 33 25-57 75-107 (251)
152 PF04822 Takusan: Takusan; In 53.8 46 0.001 19.9 4.7 30 34-63 19-49 (84)
153 cd01109 HTH_YyaN Helix-Turn-He 53.8 47 0.001 20.0 5.5 27 21-47 80-106 (113)
154 PF07047 OPA3: Optic atrophy 3 53.8 16 0.00035 23.2 2.7 25 30-54 108-132 (134)
155 cd01106 HTH_TipAL-Mta Helix-Tu 53.6 45 0.00098 19.7 5.0 12 16-27 58-69 (103)
156 PF08826 DMPK_coil: DMPK coile 53.5 39 0.00086 19.0 6.0 31 25-55 30-60 (61)
157 PF05103 DivIVA: DivIVA protei 53.3 15 0.00034 22.3 2.5 44 9-52 11-57 (131)
158 TIGR02894 DNA_bind_RsfA transc 53.2 62 0.0013 21.7 5.4 32 23-54 107-138 (161)
159 PHA02562 46 endonuclease subun 53.0 76 0.0016 23.8 6.5 31 27-57 213-243 (562)
160 PF01920 Prefoldin_2: Prefoldi 52.6 44 0.00096 19.3 5.6 32 26-57 61-92 (106)
161 TIGR01062 parC_Gneg DNA topois 52.5 57 0.0012 26.6 6.0 16 15-30 404-419 (735)
162 PF05278 PEARLI-4: Arabidopsis 52.3 52 0.0011 23.8 5.3 22 32-53 219-240 (269)
163 TIGR02977 phageshock_pspA phag 52.1 72 0.0016 21.6 6.1 37 20-56 99-135 (219)
164 PRK02654 putative inner membra 52.0 23 0.00051 26.7 3.6 35 29-63 60-94 (375)
165 PF15397 DUF4618: Domain of un 52.0 73 0.0016 22.8 6.0 37 18-54 65-101 (258)
166 cd07624 BAR_SNX7_30 The Bin/Am 51.9 48 0.001 22.1 4.9 36 15-50 122-157 (200)
167 PF06970 RepA_N: Replication i 51.7 11 0.00024 21.9 1.5 27 9-35 46-72 (76)
168 PF03357 Snf7: Snf7; InterPro 51.7 32 0.0007 21.5 3.9 39 20-58 8-46 (171)
169 PF15458 NTR2: Nineteen comple 51.7 63 0.0014 22.7 5.6 47 9-57 206-252 (254)
170 PF15205 PLAC9: Placenta-speci 51.5 48 0.001 19.4 5.4 39 19-57 21-59 (74)
171 PRK02201 putative inner membra 51.1 46 0.001 24.8 5.0 47 17-63 150-202 (357)
172 PF06103 DUF948: Bacterial pro 51.1 47 0.001 19.2 5.5 44 17-60 23-66 (90)
173 KOG0250|consensus 51.0 70 0.0015 27.4 6.4 45 13-57 654-698 (1074)
174 PF10211 Ax_dynein_light: Axon 51.0 46 0.001 22.3 4.7 41 23-63 130-170 (189)
175 PF05615 THOC7: Tho complex su 50.9 59 0.0013 20.3 5.8 41 18-58 72-112 (139)
176 TIGR01837 PHA_granule_1 poly(h 50.8 59 0.0013 20.2 5.9 21 34-54 96-116 (118)
177 PRK14148 heat shock protein Gr 50.8 34 0.00074 23.4 4.0 22 33-54 39-60 (195)
178 PF11853 DUF3373: Protein of u 50.7 22 0.00047 27.7 3.3 26 31-57 29-54 (489)
179 PF15397 DUF4618: Domain of un 50.5 92 0.002 22.3 6.4 39 18-56 72-110 (258)
180 PF08336 P4Ha_N: Prolyl 4-Hydr 50.1 61 0.0013 20.2 5.1 46 21-66 16-61 (134)
181 PRK15396 murein lipoprotein; P 49.3 54 0.0012 19.3 5.2 32 28-59 26-57 (78)
182 KOG4571|consensus 49.3 95 0.0021 22.8 6.2 41 21-61 249-289 (294)
183 COG1382 GimC Prefoldin, chaper 49.1 68 0.0015 20.4 5.2 29 28-56 71-99 (119)
184 PF09766 FimP: Fms-interacting 49.0 97 0.0021 22.8 6.4 37 20-56 108-144 (355)
185 KOG4657|consensus 48.9 82 0.0018 22.5 5.7 40 23-62 89-128 (246)
186 PRK08453 fliD flagellar cappin 48.9 50 0.0011 26.7 5.2 38 25-62 619-656 (673)
187 COG1579 Zn-ribbon protein, pos 48.8 94 0.002 22.0 6.1 19 35-53 118-136 (239)
188 PF11221 Med21: Subunit 21 of 48.7 69 0.0015 20.4 5.8 43 21-63 98-140 (144)
189 PRK11239 hypothetical protein; 48.7 47 0.001 23.3 4.5 26 30-55 186-211 (215)
190 PF09726 Macoilin: Transmembra 48.6 73 0.0016 25.8 6.1 38 20-57 538-575 (697)
191 PHA02107 hypothetical protein 48.6 41 0.00089 23.1 4.1 31 26-56 183-213 (216)
192 PF11471 Sugarporin_N: Maltopo 48.6 48 0.001 18.5 4.5 31 24-54 29-59 (60)
193 TIGR00219 mreC rod shape-deter 48.4 97 0.0021 22.0 6.2 35 24-58 70-108 (283)
194 cd04772 HTH_TioE_rpt1 First He 48.4 34 0.00073 20.4 3.4 22 20-41 76-97 (99)
195 TIGR01242 26Sp45 26S proteasom 48.2 76 0.0016 22.8 5.7 31 27-57 6-36 (364)
196 COG1842 PspA Phage shock prote 48.1 92 0.002 21.7 6.1 32 24-55 110-141 (225)
197 COG1579 Zn-ribbon protein, pos 47.8 98 0.0021 21.9 6.1 34 24-57 49-82 (239)
198 PF10186 Atg14: UV radiation r 47.7 87 0.0019 21.3 6.2 30 28-57 71-100 (302)
199 PF10234 Cluap1: Clusterin-ass 47.4 79 0.0017 22.7 5.6 33 23-55 186-218 (267)
200 KOG0995|consensus 47.3 73 0.0016 25.5 5.7 36 24-59 291-326 (581)
201 KOG4603|consensus 47.2 93 0.002 21.5 5.8 29 25-53 84-112 (201)
202 PF07061 Swi5: Swi5; InterPro 47.1 58 0.0013 19.2 4.2 25 32-56 5-29 (83)
203 PF13174 TPR_6: Tetratricopept 47.1 7.1 0.00015 17.6 0.2 22 6-27 3-25 (33)
204 PRK09631 DNA topoisomerase IV 46.9 86 0.0019 25.2 6.2 49 15-63 384-447 (635)
205 PRK11546 zraP zinc resistance 46.9 59 0.0013 21.3 4.5 17 43-59 91-107 (143)
206 COG2900 SlyX Uncharacterized p 46.8 59 0.0013 19.1 4.8 18 47-64 38-55 (72)
207 PF12447 DUF3683: Protein of u 46.4 45 0.00097 21.2 3.8 43 8-50 51-93 (115)
208 PRK05560 DNA gyrase subunit A; 46.4 90 0.0019 25.5 6.3 21 25-45 435-455 (805)
209 PRK01318 membrane protein inse 46.3 86 0.0019 24.4 6.0 48 16-63 339-386 (521)
210 KOG1510|consensus 45.8 85 0.0018 20.6 5.5 42 21-63 86-127 (139)
211 TIGR03185 DNA_S_dndD DNA sulfu 45.7 1E+02 0.0023 24.1 6.5 26 26-51 427-452 (650)
212 PF02388 FemAB: FemAB family; 45.7 75 0.0016 23.6 5.4 21 29-49 244-264 (406)
213 PRK00736 hypothetical protein; 45.6 56 0.0012 18.5 6.6 28 23-50 22-49 (68)
214 cd01789 Alp11_N Ubiquitin-like 45.5 17 0.00037 21.0 1.7 15 50-64 25-39 (84)
215 PF11363 DUF3164: Protein of u 45.4 32 0.00069 23.4 3.2 37 31-67 21-57 (195)
216 PRK01156 chromosome segregatio 45.4 74 0.0016 25.7 5.7 45 10-55 453-497 (895)
217 PF04340 DUF484: Protein of un 45.4 90 0.0019 21.0 5.5 41 9-49 29-69 (225)
218 TIGR01061 parC_Gpos DNA topois 45.4 96 0.0021 25.2 6.3 6 58-63 468-473 (738)
219 PF04012 PspA_IM30: PspA/IM30 45.4 90 0.002 20.8 6.2 32 24-55 102-133 (221)
220 PRK13443 atpC F0F1 ATP synthas 45.1 52 0.0011 21.1 4.0 42 15-56 88-133 (136)
221 PHA02557 22 prohead core prote 45.1 1.1E+02 0.0023 22.3 5.9 47 9-55 128-176 (271)
222 COG4026 Uncharacterized protei 45.0 99 0.0022 22.3 5.7 25 29-53 151-175 (290)
223 PRK05561 DNA topoisomerase IV 45.0 1E+02 0.0022 25.1 6.4 6 58-63 478-483 (742)
224 COG4717 Uncharacterized conser 44.9 19 0.00041 30.2 2.4 28 3-30 926-953 (984)
225 PRK09039 hypothetical protein; 44.9 92 0.002 22.8 5.7 29 30-58 168-200 (343)
226 PF05667 DUF812: Protein of un 44.8 99 0.0022 24.6 6.2 34 24-57 325-358 (594)
227 PF07926 TPR_MLP1_2: TPR/MLP1/ 44.7 77 0.0017 19.8 6.1 34 21-54 85-118 (132)
228 PF11312 DUF3115: Protein of u 44.6 21 0.00045 26.3 2.3 25 45-69 16-45 (315)
229 PRK01156 chromosome segregatio 44.5 81 0.0018 25.4 5.8 33 24-56 413-445 (895)
230 PF05929 Phage_GPO: Phage caps 44.4 94 0.002 22.4 5.6 31 32-62 226-256 (276)
231 PF00476 DNA_pol_A: DNA polyme 44.3 57 0.0012 23.9 4.6 32 37-68 4-35 (383)
232 PF04325 DUF465: Protein of un 44.3 48 0.001 17.3 4.8 31 25-55 4-34 (49)
233 cd04790 HTH_Cfa-like_unk Helix 44.2 90 0.002 20.4 5.2 34 19-52 73-106 (172)
234 PRK01315 putative inner membra 44.1 1E+02 0.0022 22.7 5.8 48 17-64 59-106 (329)
235 KOG0963|consensus 43.8 1.1E+02 0.0025 24.6 6.4 39 21-59 304-342 (629)
236 COG2433 Uncharacterized conser 43.8 1.1E+02 0.0024 24.8 6.3 36 22-57 424-459 (652)
237 COG4942 Membrane-bound metallo 43.8 1.2E+02 0.0025 23.4 6.2 13 41-53 66-78 (420)
238 PF14988 DUF4515: Domain of un 43.8 1E+02 0.0022 21.0 6.5 38 24-61 75-112 (206)
239 COG3937 Uncharacterized conser 43.6 70 0.0015 20.1 4.3 23 35-57 84-106 (108)
240 PF12017 Tnp_P_element: Transp 43.5 71 0.0015 22.4 4.8 23 35-57 19-41 (236)
241 PF15188 CCDC-167: Coiled-coil 43.3 57 0.0012 19.6 3.7 14 44-57 39-52 (85)
242 PRK13848 conjugal transfer pro 43.1 53 0.0012 20.3 3.6 22 31-52 7-28 (98)
243 PF05983 Med7: MED7 protein; 43.0 80 0.0017 20.7 4.8 31 19-49 130-160 (162)
244 PF15456 Uds1: Up-regulated Du 43.0 86 0.0019 19.9 5.6 33 26-58 80-112 (124)
245 KOG0288|consensus 43.0 1.1E+02 0.0025 23.7 6.1 40 18-57 25-64 (459)
246 PF10805 DUF2730: Protein of u 42.7 77 0.0017 19.3 5.5 13 31-43 46-58 (106)
247 PF04129 Vps52: Vps52 / Sac2 f 42.5 1.2E+02 0.0026 23.3 6.2 42 17-58 25-66 (508)
248 PRK14011 prefoldin subunit alp 42.2 95 0.0021 20.1 5.0 26 24-49 99-124 (144)
249 PF13815 Dzip-like_N: Iguana/D 42.2 81 0.0018 19.4 6.1 36 22-57 68-103 (118)
250 PF05278 PEARLI-4: Arabidopsis 41.9 1.3E+02 0.0029 21.7 6.5 22 33-54 206-227 (269)
251 PF08203 RNA_polI_A14: Yeast R 41.8 67 0.0014 18.9 3.8 32 4-36 2-33 (76)
252 TIGR01062 parC_Gneg DNA topois 41.8 92 0.002 25.4 5.7 41 23-63 427-470 (735)
253 PF12548 DUF3740: Sulfatase pr 41.5 77 0.0017 20.7 4.5 28 27-54 106-133 (145)
254 PRK00145 putative inner membra 41.4 1.1E+02 0.0025 20.8 5.8 42 21-62 52-93 (223)
255 PF13758 Prefoldin_3: Prefoldi 41.4 86 0.0019 19.4 4.5 43 8-50 55-98 (99)
256 COG4942 Membrane-bound metallo 41.3 1.1E+02 0.0024 23.5 5.8 27 29-55 40-66 (420)
257 PF14005 YpjP: YpjP-like prote 41.0 21 0.00045 23.3 1.7 21 46-66 9-29 (136)
258 cd04779 HTH_MerR-like_sg4 Heli 40.6 95 0.0021 19.7 5.7 29 25-53 79-107 (134)
259 KOG3436|consensus 40.6 64 0.0014 20.7 3.8 20 37-56 15-34 (123)
260 PF10158 LOH1CR12: Tumour supp 40.5 98 0.0021 19.8 6.1 36 27-63 49-84 (131)
261 cd04766 HTH_HspR Helix-Turn-He 40.4 74 0.0016 18.4 4.5 19 39-57 70-88 (91)
262 TIGR01063 gyrA DNA gyrase, A s 40.4 1E+02 0.0022 25.2 5.8 40 24-63 431-473 (800)
263 PRK05260 condesin subunit F; P 40.3 1.1E+02 0.0024 23.6 5.7 54 4-59 159-224 (440)
264 TIGR01063 gyrA DNA gyrase, A s 40.3 1.3E+02 0.0029 24.6 6.4 42 16-57 408-450 (800)
265 PRK11546 zraP zinc resistance 40.3 71 0.0015 20.9 4.1 22 35-56 90-111 (143)
266 PF05529 Bap31: B-cell recepto 40.2 1E+02 0.0022 20.2 5.0 11 47-57 160-170 (192)
267 PF03915 AIP3: Actin interacti 40.2 1.7E+02 0.0036 22.4 6.7 42 19-60 198-239 (424)
268 KOG0979|consensus 40.1 95 0.0021 26.6 5.6 49 12-60 853-903 (1072)
269 PRK13979 DNA topoisomerase IV 40.1 94 0.002 26.1 5.6 41 23-63 449-492 (957)
270 cd04776 HTH_GnyR Helix-Turn-He 40.0 89 0.0019 19.2 6.3 27 30-56 83-109 (118)
271 PF12777 MT: Microtubule-bindi 39.9 42 0.00091 24.3 3.3 33 24-56 225-257 (344)
272 PRK09631 DNA topoisomerase IV 39.9 1.5E+02 0.0034 23.8 6.6 36 24-60 408-447 (635)
273 TIGR00513 accA acetyl-CoA carb 39.8 1.2E+02 0.0027 22.2 5.7 45 16-60 6-54 (316)
274 KOG1655|consensus 39.8 87 0.0019 21.9 4.7 34 19-52 18-51 (218)
275 PF12709 Kinetocho_Slk19: Cent 39.8 86 0.0019 19.0 5.5 29 25-53 54-82 (87)
276 TIGR01834 PHA_synth_III_E poly 39.7 61 0.0013 23.9 4.1 25 33-57 288-312 (320)
277 KOG4001|consensus 39.6 95 0.0021 22.0 4.9 32 26-57 184-215 (259)
278 PF10813 DUF2733: Protein of u 39.4 9.7 0.00021 19.0 -0.0 9 62-70 20-28 (32)
279 PF08766 DEK_C: DEK C terminal 39.3 42 0.00092 17.8 2.6 32 31-62 4-35 (54)
280 KOG3684|consensus 39.2 86 0.0019 24.5 5.0 37 20-56 434-470 (489)
281 TIGR03752 conj_TIGR03752 integ 39.2 1.3E+02 0.0028 23.5 5.9 41 21-61 103-143 (472)
282 TIGR01242 26Sp45 26S proteasom 39.2 1E+02 0.0022 22.2 5.2 35 21-55 7-41 (364)
283 PRK05560 DNA gyrase subunit A; 39.1 1E+02 0.0023 25.1 5.7 42 15-56 410-452 (805)
284 COG1842 PspA Phage shock prote 39.0 1.3E+02 0.0029 20.9 6.3 38 19-56 98-135 (225)
285 PF05266 DUF724: Protein of un 38.9 1.2E+02 0.0027 20.5 6.1 23 34-56 124-146 (190)
286 COG5185 HEC1 Protein involved 38.8 72 0.0016 25.3 4.5 31 29-59 332-362 (622)
287 COG5449 Uncharacterized conser 38.8 19 0.0004 25.1 1.3 13 56-68 187-199 (225)
288 cd08637 DNA_pol_A_pol_I_C Poly 38.6 67 0.0015 23.7 4.2 33 37-69 3-35 (377)
289 PRK03992 proteasome-activating 38.6 1.6E+02 0.0034 21.6 6.5 36 23-58 11-46 (389)
290 PF07820 TraC: TraC-like prote 38.5 71 0.0015 19.5 3.7 22 31-52 6-27 (92)
291 COG1730 GIM5 Predicted prefold 38.3 1.1E+02 0.0025 19.9 5.8 33 24-56 10-42 (145)
292 PRK11519 tyrosine kinase; Prov 38.2 78 0.0017 25.2 4.8 49 7-55 247-295 (719)
293 COG1345 FliD Flagellar capping 38.2 72 0.0016 24.7 4.5 33 29-61 424-456 (483)
294 PF10018 Med4: Vitamin-D-recep 38.2 1.2E+02 0.0026 20.1 6.3 33 25-57 27-59 (188)
295 PF09356 Phage_BR0599: Phage c 38.0 15 0.00031 21.5 0.6 12 56-67 59-70 (80)
296 COG5509 Uncharacterized small 38.0 80 0.0017 18.1 3.9 17 27-43 32-48 (65)
297 PF09766 FimP: Fms-interacting 38.0 1.6E+02 0.0035 21.6 6.2 38 22-59 103-140 (355)
298 cd04784 HTH_CadR-PbrR Helix-Tu 38.0 96 0.0021 19.0 5.4 24 20-43 79-102 (127)
299 PF13015 PRKCSH_1: Glucosidase 38.0 54 0.0012 21.5 3.3 25 26-50 2-26 (154)
300 KOG3856|consensus 37.9 1.1E+02 0.0025 19.8 5.0 34 30-63 13-46 (135)
301 PF10359 Fmp27_WPPW: RNA pol I 37.7 1.6E+02 0.0035 22.4 6.3 36 11-46 152-189 (475)
302 PRK05724 acetyl-CoA carboxylas 37.7 1.3E+02 0.0028 22.1 5.6 46 16-61 6-55 (319)
303 PF09730 BicD: Microtubule-ass 37.7 71 0.0015 26.1 4.5 35 25-59 581-615 (717)
304 COG1566 EmrA Multidrug resista 37.7 1.7E+02 0.0037 21.7 6.4 26 4-29 72-97 (352)
305 PF09278 MerR-DNA-bind: MerR, 37.6 67 0.0014 17.1 4.8 14 24-37 40-53 (65)
306 KOG2391|consensus 37.6 1.4E+02 0.003 22.6 5.7 25 13-37 211-235 (365)
307 PRK05561 DNA topoisomerase IV 37.4 1.1E+02 0.0025 24.8 5.6 42 15-56 417-459 (742)
308 KOG4603|consensus 37.4 83 0.0018 21.7 4.2 23 32-54 121-143 (201)
309 PF12486 DUF3702: ImpA domain 37.2 93 0.002 20.4 4.3 38 31-68 63-109 (148)
310 PF07544 Med9: RNA polymerase 37.1 64 0.0014 18.8 3.3 25 40-65 58-82 (83)
311 COG4985 ABC-type phosphate tra 37.1 1.1E+02 0.0025 22.1 5.0 30 20-49 214-243 (289)
312 TIGR02047 CadR-PbrR Cd(II)/Pb( 37.0 1E+02 0.0022 19.0 5.7 26 20-45 79-104 (127)
313 PRK01203 prefoldin subunit alp 36.7 1.2E+02 0.0025 19.6 5.7 31 25-55 5-35 (130)
314 PF07334 IFP_35_N: Interferon- 36.7 92 0.002 18.4 4.0 22 25-46 5-26 (76)
315 cd04775 HTH_Cfa-like Helix-Tur 36.6 93 0.002 18.4 5.6 25 31-55 75-99 (102)
316 PRK14153 heat shock protein Gr 36.5 1.2E+02 0.0026 20.7 4.9 21 30-50 36-56 (194)
317 PF05873 Mt_ATP-synt_D: ATP sy 36.5 68 0.0015 21.1 3.7 24 24-47 100-123 (161)
318 PF01763 Herpes_UL6: Herpesvir 36.5 1.7E+02 0.0037 23.3 6.3 40 19-58 362-401 (557)
319 PRK14161 heat shock protein Gr 36.4 1.3E+02 0.0029 20.1 6.1 37 18-54 10-46 (178)
320 PF08781 DP: Transcription fac 36.2 1.2E+02 0.0027 19.8 6.0 34 22-55 3-36 (142)
321 PF03962 Mnd1: Mnd1 family; I 36.2 1.3E+02 0.0029 20.1 5.1 24 21-44 70-93 (188)
322 PF08317 Spc7: Spc7 kinetochor 36.1 1.6E+02 0.0035 21.1 6.2 21 34-54 237-257 (325)
323 PF00677 Lum_binding: Lumazine 36.1 6.9 0.00015 22.9 -1.0 11 60-70 75-85 (85)
324 PF09304 Cortex-I_coil: Cortex 36.0 1.1E+02 0.0024 19.2 6.5 32 21-52 45-76 (107)
325 TIGR03755 conj_TIGR03755 integ 36.0 1.1E+02 0.0024 23.5 5.1 35 18-52 348-382 (418)
326 cd04782 HTH_BltR Helix-Turn-He 35.9 63 0.0014 19.0 3.2 37 16-54 58-94 (97)
327 PF09812 MRP-L28: Mitochondria 35.9 1.2E+02 0.0026 19.9 4.7 33 28-60 83-118 (157)
328 PF09457 RBD-FIP: FIP domain ; 35.7 75 0.0016 17.0 4.9 27 30-56 3-29 (48)
329 PF08232 Striatin: Striatin fa 35.6 1.2E+02 0.0026 19.3 5.2 30 26-55 24-53 (134)
330 PF11365 DUF3166: Protein of u 35.5 1.1E+02 0.0023 18.8 5.7 33 23-55 11-43 (96)
331 PF05791 Bacillus_HBL: Bacillu 35.1 1.3E+02 0.0029 19.8 6.4 41 19-59 102-142 (184)
332 smart00787 Spc7 Spc7 kinetocho 35.1 1.7E+02 0.0037 21.3 5.8 25 31-55 236-260 (312)
333 TIGR01730 RND_mfp RND family e 35.1 1.5E+02 0.0032 20.2 6.2 21 6-26 47-67 (322)
334 PF06120 Phage_HK97_TLTM: Tail 35.0 1.7E+02 0.0038 21.3 5.8 31 27-57 74-104 (301)
335 PRK09413 IS2 repressor TnpA; R 34.9 1.1E+02 0.0024 18.7 5.0 27 31-57 75-101 (121)
336 CHL00198 accA acetyl-CoA carbo 34.8 1.6E+02 0.0035 21.7 5.7 46 16-61 9-58 (322)
337 PRK14145 heat shock protein Gr 34.5 79 0.0017 21.6 3.8 25 31-55 42-66 (196)
338 KOG0963|consensus 34.4 1.8E+02 0.0039 23.6 6.1 40 24-66 321-366 (629)
339 PF08172 CASP_C: CASP C termin 34.4 1.2E+02 0.0027 21.3 4.9 48 18-65 77-124 (248)
340 PF13991 BssS: BssS protein fa 34.3 88 0.0019 18.3 3.5 26 12-41 38-63 (73)
341 cd01282 HTH_MerR-like_sg3 Heli 34.3 1.1E+02 0.0023 18.5 5.2 9 17-25 58-66 (112)
342 PF10737 GerPC: Spore germinat 34.2 44 0.00095 22.6 2.5 20 37-56 2-21 (176)
343 PF09789 DUF2353: Uncharacteri 34.2 1.8E+02 0.0039 21.5 5.8 47 17-63 6-58 (319)
344 PF03148 Tektin: Tektin family 34.1 1.7E+02 0.0036 21.7 5.7 43 15-57 312-354 (384)
345 PF04880 NUDE_C: NUDE protein, 34.1 41 0.00088 22.5 2.3 22 29-50 26-47 (166)
346 PF10400 Vir_act_alpha_C: Viru 34.1 90 0.002 17.5 4.7 34 15-48 16-49 (90)
347 PF13905 Thioredoxin_8: Thiore 34.0 42 0.00091 18.7 2.1 22 44-66 14-37 (95)
348 PF01496 V_ATPase_I: V-type AT 33.9 1.1E+02 0.0024 24.5 5.0 26 20-45 229-254 (759)
349 PF13166 AAA_13: AAA domain 33.8 1.2E+02 0.0025 23.7 5.0 32 26-57 423-454 (712)
350 PF07407 Seadorna_VP6: Seadorn 33.6 82 0.0018 23.9 4.0 27 25-51 37-63 (420)
351 COG5057 LAG1 Phosphotyrosyl ph 33.6 37 0.0008 25.3 2.2 23 47-69 116-138 (353)
352 PF04816 DUF633: Family of unk 33.6 59 0.0013 22.1 3.1 50 6-57 151-200 (205)
353 PRK09841 cryptic autophosphory 33.5 1E+02 0.0022 24.6 4.8 48 8-55 248-295 (726)
354 PF12958 DUF3847: Protein of u 33.5 1.1E+02 0.0024 18.3 5.1 33 22-54 3-35 (86)
355 TIGR02051 MerR Hg(II)-responsi 33.5 1.2E+02 0.0025 18.7 5.7 27 19-45 75-101 (124)
356 KOG3047|consensus 33.4 1.4E+02 0.0031 19.6 5.7 42 10-51 95-136 (157)
357 PRK00295 hypothetical protein; 33.4 94 0.002 17.5 6.6 36 24-59 16-51 (68)
358 PF10046 BLOC1_2: Biogenesis o 33.3 1.1E+02 0.0024 18.3 6.0 38 24-62 25-62 (99)
359 KOG0999|consensus 33.2 1.4E+02 0.0031 24.3 5.4 36 24-59 595-630 (772)
360 PRK06798 fliD flagellar cappin 33.2 2E+02 0.0044 21.8 6.1 9 47-55 417-425 (440)
361 cd04787 HTH_HMRTR_unk Helix-Tu 33.0 1.2E+02 0.0027 18.8 5.8 26 22-47 81-106 (133)
362 PRK03918 chromosome segregatio 32.8 1.8E+02 0.004 23.2 6.1 33 24-56 395-427 (880)
363 PF08537 NBP1: Fungal Nap bind 32.7 1E+02 0.0022 22.9 4.3 25 33-57 181-205 (323)
364 PF06305 DUF1049: Protein of u 32.6 70 0.0015 17.2 2.8 15 36-50 50-64 (68)
365 PF08700 Vps51: Vps51/Vps67; 32.5 97 0.0021 17.4 4.5 17 38-54 62-78 (87)
366 PF11083 Streptin-Immun: Lanti 32.5 1.3E+02 0.0027 18.7 6.2 42 16-57 48-89 (99)
367 PRK12758 DNA topoisomerase IV 32.3 1.7E+02 0.0037 24.6 5.9 49 15-63 405-468 (869)
368 PRK13729 conjugal transfer pil 32.2 1.5E+02 0.0034 23.1 5.4 13 30-42 79-91 (475)
369 PF06780 Erp_C: Erp protein C- 31.9 84 0.0018 20.8 3.4 23 36-58 109-131 (146)
370 PF14257 DUF4349: Domain of un 31.8 1.5E+02 0.0032 20.4 4.9 20 38-57 166-185 (262)
371 KOG2629|consensus 31.8 2.1E+02 0.0046 21.1 6.1 12 52-63 158-169 (300)
372 TIGR00998 8a0101 efflux pump m 31.7 1.8E+02 0.0039 20.2 6.8 25 7-31 64-88 (334)
373 TIGR01069 mutS2 MutS2 family p 31.7 2E+02 0.0042 23.5 6.1 19 21-39 502-520 (771)
374 PF13863 DUF4200: Domain of un 31.7 1.2E+02 0.0026 18.2 6.1 27 30-56 77-103 (126)
375 PF13874 Nup54: Nucleoporin co 31.6 1.4E+02 0.003 18.9 7.1 35 36-70 67-110 (141)
376 TIGR01061 parC_Gpos DNA topois 31.4 1.6E+02 0.0035 23.9 5.6 42 16-57 408-450 (738)
377 KOG0483|consensus 31.1 1.6E+02 0.0034 20.2 4.9 37 23-59 108-144 (198)
378 TIGR02231 conserved hypothetic 31.0 2.4E+02 0.0052 21.5 6.3 38 22-59 133-170 (525)
379 PF09153 DUF1938: Domain of un 31.0 59 0.0013 19.7 2.4 26 45-71 36-61 (86)
380 PF11740 KfrA_N: Plasmid repli 30.9 1.2E+02 0.0026 18.0 6.4 38 19-56 80-117 (120)
381 PF10552 ORF6C: ORF6C domain; 30.9 1.3E+02 0.0028 18.3 4.5 23 20-42 8-30 (116)
382 PF04999 FtsL: Cell division p 30.9 1.1E+02 0.0025 17.7 4.3 31 24-54 39-69 (97)
383 PF04065 Not3: Not1 N-terminal 30.8 1.5E+02 0.0034 20.8 4.9 31 18-48 120-150 (233)
384 TIGR03017 EpsF chain length de 30.8 1.3E+02 0.0029 21.9 4.7 45 9-53 153-197 (444)
385 PF00261 Tropomyosin: Tropomyo 30.8 1.8E+02 0.0038 19.9 6.0 34 24-57 194-227 (237)
386 PF11945 WASH_WAHD: WAHD domai 30.8 2.1E+02 0.0046 20.8 5.9 34 21-54 37-70 (297)
387 cd04786 HTH_MerR-like_sg7 Heli 30.8 1.4E+02 0.003 18.7 6.0 30 19-48 77-106 (131)
388 PF12718 Tropomyosin_1: Tropom 30.7 1.5E+02 0.0032 19.0 5.7 32 25-56 26-57 (143)
389 PF05384 DegS: Sensor protein 30.7 1.6E+02 0.0035 19.4 6.3 36 21-56 7-42 (159)
390 PF06424 PRP1_N: PRP1 splicing 30.7 63 0.0014 20.9 2.7 28 31-58 87-114 (133)
391 PF11043 DUF2856: Protein of u 30.7 1.3E+02 0.0028 18.3 4.2 49 11-63 31-79 (97)
392 PLN02678 seryl-tRNA synthetase 30.6 1.3E+02 0.0028 23.1 4.7 28 33-60 77-104 (448)
393 PF11629 Mst1_SARAH: C termina 30.5 98 0.0021 16.8 5.2 32 15-46 7-38 (49)
394 PF07195 FliD_C: Flagellar hoo 30.4 1.8E+02 0.0039 19.8 5.4 31 20-50 193-223 (239)
395 TIGR00606 rad50 rad50. This fa 30.4 1.8E+02 0.0039 25.0 5.9 33 24-56 974-1006(1311)
396 PF03670 UPF0184: Uncharacteri 30.3 1.3E+02 0.0028 18.1 4.8 29 24-52 30-58 (83)
397 PRK10803 tol-pal system protei 30.3 1.9E+02 0.0042 20.2 5.6 36 24-59 65-100 (263)
398 PF04859 DUF641: Plant protein 30.2 1.5E+02 0.0033 19.0 5.7 28 30-57 90-117 (131)
399 cd04783 HTH_MerR1 Helix-Turn-H 30.2 1.3E+02 0.0029 18.3 5.5 29 19-47 76-104 (126)
400 PF03961 DUF342: Protein of un 30.1 1.2E+02 0.0026 22.7 4.5 25 30-54 337-361 (451)
401 PF12128 DUF3584: Protein of u 30.0 2.8E+02 0.006 23.7 6.9 42 20-61 671-712 (1201)
402 PRK02793 phi X174 lysis protei 29.9 1.1E+02 0.0025 17.4 5.6 34 24-57 19-52 (72)
403 PF04102 SlyX: SlyX; InterPro 29.8 1.1E+02 0.0024 17.1 5.7 34 24-57 15-48 (69)
404 PF10241 KxDL: Uncharacterized 29.8 1.2E+02 0.0027 17.7 6.3 28 35-62 58-85 (88)
405 PTZ00454 26S protease regulato 29.7 2.4E+02 0.0052 21.0 6.8 34 25-58 27-60 (398)
406 TIGR03185 DNA_S_dndD DNA sulfu 29.7 2.4E+02 0.0053 22.1 6.2 35 23-57 431-465 (650)
407 PF13779 DUF4175: Domain of un 29.6 1.1E+02 0.0025 25.2 4.5 40 17-57 466-505 (820)
408 PRK02224 chromosome segregatio 29.5 2.7E+02 0.0058 22.4 6.5 37 20-56 468-504 (880)
409 PLN03230 acetyl-coenzyme A car 29.5 2.3E+02 0.0049 21.9 5.8 45 16-60 76-124 (431)
410 PRK09973 putative outer membra 29.5 1.3E+02 0.0029 18.0 5.2 32 28-59 25-56 (85)
411 KOG3335|consensus 29.5 1.9E+02 0.0041 19.8 5.5 28 27-54 106-133 (181)
412 PF07462 MSP1_C: Merozoite sur 29.4 31 0.00067 27.4 1.2 16 55-70 195-210 (574)
413 PF15361 RIC3: Resistance to i 29.4 95 0.0021 20.3 3.4 23 31-53 128-150 (152)
414 PF05121 GvpK: Gas vesicle pro 29.4 1.4E+02 0.003 18.1 3.9 24 33-56 44-67 (88)
415 PRK14975 bifunctional 3'-5' ex 29.4 1.1E+02 0.0024 23.7 4.3 22 48-69 204-226 (553)
416 PLN02943 aminoacyl-tRNA ligase 29.2 72 0.0016 26.5 3.4 25 20-44 889-913 (958)
417 PF10224 DUF2205: Predicted co 29.2 1.3E+02 0.0028 17.8 6.2 27 28-54 17-43 (80)
418 PRK02944 OxaA-like protein pre 28.9 1.5E+02 0.0033 20.7 4.6 43 21-63 80-126 (255)
419 PF13935 Ead_Ea22: Ead/Ea22-li 28.9 1.6E+02 0.0034 18.7 5.4 47 12-59 59-108 (139)
420 PF09006 Surfac_D-trimer: Lung 28.9 1E+02 0.0022 16.5 4.8 27 31-57 3-29 (46)
421 KOG2116|consensus 28.9 18 0.00039 29.4 -0.1 10 57-66 652-661 (738)
422 KOG4552|consensus 28.8 2.1E+02 0.0046 20.4 5.2 28 21-48 75-102 (272)
423 PRK11239 hypothetical protein; 28.7 1.6E+02 0.0034 20.7 4.5 27 23-49 186-212 (215)
424 PRK07353 F0F1 ATP synthase sub 28.7 1.5E+02 0.0032 18.3 5.3 37 21-57 30-66 (140)
425 PF02560 Cyanate_lyase: Cyanat 28.6 34 0.00073 20.1 1.0 15 51-65 24-38 (73)
426 PF02403 Seryl_tRNA_N: Seryl-t 28.6 1.3E+02 0.0029 17.7 5.6 28 32-59 72-99 (108)
427 PF04156 IncA: IncA protein; 28.5 1.7E+02 0.0037 18.9 5.5 33 26-58 87-119 (191)
428 COG1080 PtsA Phosphoenolpyruva 28.5 51 0.0011 26.3 2.3 59 6-64 11-69 (574)
429 PRK13979 DNA topoisomerase IV 28.4 1.7E+02 0.0037 24.7 5.4 43 15-57 426-469 (957)
430 PF05008 V-SNARE: Vesicle tran 28.4 1.1E+02 0.0025 16.9 5.9 21 37-57 57-77 (79)
431 cd04770 HTH_HMRTR Helix-Turn-H 28.4 1.4E+02 0.0031 18.0 5.7 24 32-55 84-107 (123)
432 KOG1451|consensus 28.4 1.1E+02 0.0024 25.1 4.1 47 12-59 208-254 (812)
433 PF10779 XhlA: Haemolysin XhlA 28.4 1.2E+02 0.0025 17.0 6.2 24 25-48 25-48 (71)
434 PF03175 DNA_pol_B_2: DNA poly 28.4 32 0.00068 25.6 1.1 13 56-68 365-377 (459)
435 PRK12758 DNA topoisomerase IV 28.3 3E+02 0.0064 23.2 6.6 32 28-60 433-468 (869)
436 PF15469 Sec5: Exocyst complex 28.2 1.7E+02 0.0037 18.9 5.7 29 35-63 122-150 (182)
437 COG5391 Phox homology (PX) dom 28.1 3E+02 0.0065 21.6 6.7 46 9-54 435-481 (524)
438 PF09932 DUF2164: Uncharacteri 28.0 64 0.0014 18.8 2.2 32 9-40 43-74 (76)
439 PF14257 DUF4349: Domain of un 27.9 1.6E+02 0.0035 20.2 4.5 26 31-56 166-191 (262)
440 cd01878 HflX HflX subfamily. 27.9 1.7E+02 0.0036 18.6 4.5 30 24-53 3-32 (204)
441 TIGR01005 eps_transp_fam exopo 27.8 1.4E+02 0.0031 23.6 4.7 48 6-53 173-220 (754)
442 PF06580 His_kinase: Histidine 27.8 89 0.0019 17.8 2.8 51 17-68 28-81 (82)
443 PF03961 DUF342: Protein of un 27.7 2.6E+02 0.0057 20.9 5.9 26 23-48 337-362 (451)
444 cd00187 TOP4c DNA Topoisomeras 27.7 2.8E+02 0.0061 21.2 6.1 42 16-57 386-428 (445)
445 smart00434 TOP4c DNA Topoisome 27.7 2.4E+02 0.0051 21.5 5.7 42 16-57 396-438 (445)
446 COG0732 HsdS Restriction endon 27.4 2.1E+02 0.0045 19.6 7.2 58 6-63 129-186 (391)
447 PLN03229 acetyl-coenzyme A car 27.4 2.4E+02 0.0051 23.4 5.9 50 17-68 643-692 (762)
448 PF14662 CCDC155: Coiled-coil 27.4 2.1E+02 0.0046 19.7 5.2 31 24-54 92-122 (193)
449 PRK11177 phosphoenolpyruvate-p 27.4 51 0.0011 25.9 2.2 56 8-63 12-67 (575)
450 PF15369 KIAA1328: Uncharacter 27.3 2.7E+02 0.0058 20.8 6.4 39 16-54 22-60 (328)
451 PRK04406 hypothetical protein; 27.1 1.3E+02 0.0029 17.3 5.6 30 22-51 27-56 (75)
452 TIGR02977 phageshock_pspA phag 27.1 2E+02 0.0044 19.4 6.0 24 28-51 114-137 (219)
453 KOG2391|consensus 27.1 2.8E+02 0.0061 21.0 6.3 37 21-57 240-276 (365)
454 PF09738 DUF2051: Double stran 27.1 1.8E+02 0.0039 21.2 4.8 34 34-67 140-179 (302)
455 PRK10698 phage shock protein P 27.1 2.1E+02 0.0046 19.6 6.3 30 25-54 104-133 (222)
456 KOG0993|consensus 27.0 1.1E+02 0.0024 23.9 3.8 36 22-57 136-171 (542)
457 PRK10476 multidrug resistance 27.0 2.3E+02 0.0049 20.1 5.3 27 6-32 69-95 (346)
458 PRK11061 fused phosphoenolpyru 27.0 48 0.0011 26.8 2.0 56 7-62 180-235 (748)
459 KOG4074|consensus 26.9 1.7E+02 0.0037 22.0 4.7 33 31-63 141-173 (383)
460 PRK03918 chromosome segregatio 26.8 2.4E+02 0.0052 22.5 5.8 20 31-50 204-223 (880)
461 PRK09039 hypothetical protein; 26.8 2.6E+02 0.0056 20.4 5.7 31 28-58 152-182 (343)
462 KOG2773|consensus 26.7 1.5E+02 0.0032 23.2 4.5 53 16-68 214-267 (483)
463 KOG1003|consensus 26.7 1.9E+02 0.0042 20.1 4.6 34 24-57 162-195 (205)
464 cd04087 PTPA Phosphotyrosyl ph 26.6 1.9E+02 0.0041 20.8 4.8 23 47-69 83-105 (266)
465 PRK13182 racA polar chromosome 26.4 2E+02 0.0044 19.2 5.0 29 19-47 84-112 (175)
466 PRK06669 fliH flagellar assemb 26.4 2.3E+02 0.005 19.8 6.8 41 18-58 76-116 (281)
467 TIGR02044 CueR Cu(I)-responsiv 26.4 1.6E+02 0.0035 18.0 5.7 24 22-45 81-104 (127)
468 PF11382 DUF3186: Protein of u 26.3 2.5E+02 0.0054 20.2 5.7 39 18-56 30-68 (308)
469 PRK09630 DNA topoisomerase IV 26.3 1.9E+02 0.0041 22.7 5.0 36 28-63 412-454 (479)
470 PF13851 GAS: Growth-arrest sp 26.2 2.1E+02 0.0046 19.3 5.7 35 24-58 45-79 (201)
471 cd01108 HTH_CueR Helix-Turn-He 26.2 1.6E+02 0.0036 18.0 5.7 29 19-47 78-106 (127)
472 PRK14160 heat shock protein Gr 26.1 2.3E+02 0.0049 19.6 6.2 30 24-53 58-87 (211)
473 PRK13902 alaS alanyl-tRNA synt 26.1 1.6E+02 0.0034 24.7 4.8 27 31-57 758-784 (900)
474 KOG0971|consensus 26.1 2.7E+02 0.0059 24.1 6.1 41 20-60 1012-1052(1243)
475 PRK10227 DNA-binding transcrip 26.0 1.8E+02 0.0038 18.3 5.7 24 32-55 84-107 (135)
476 TIGR01834 PHA_synth_III_E poly 26.0 1.7E+02 0.0036 21.7 4.5 28 28-55 290-317 (320)
477 cd07637 BAR_ACAP3 The Bin/Amph 25.9 1.9E+02 0.0041 19.7 4.5 27 23-49 5-31 (200)
478 PF07716 bZIP_2: Basic region 25.8 1.1E+02 0.0025 16.0 4.9 24 31-54 29-52 (54)
479 cd04768 HTH_BmrR-like Helix-Tu 25.8 1.5E+02 0.0032 17.3 4.4 36 16-54 58-93 (96)
480 TIGR03007 pepcterm_ChnLen poly 25.8 1.2E+02 0.0026 22.6 3.8 22 32-53 166-187 (498)
481 PF05911 DUF869: Plant protein 25.7 2.9E+02 0.0063 22.9 6.1 27 31-57 614-640 (769)
482 PF01608 I_LWEQ: I/LWEQ domain 25.7 2E+02 0.0043 19.0 4.4 28 32-59 123-150 (152)
483 COG3605 PtsP Signal transducti 25.7 86 0.0019 25.7 3.1 50 7-56 187-236 (756)
484 TIGR01843 type_I_hlyD type I s 25.6 2.5E+02 0.0054 19.9 6.4 21 31-51 148-168 (423)
485 cd07666 BAR_SNX7 The Bin/Amphi 25.6 1.7E+02 0.0037 20.6 4.4 52 14-67 49-100 (243)
486 PF04849 HAP1_N: HAP1 N-termin 25.6 2.8E+02 0.006 20.4 5.6 38 24-61 87-124 (306)
487 PF03135 CagE_TrbE_VirB: CagE, 25.5 1.7E+02 0.0037 19.1 4.2 51 5-55 91-141 (205)
488 PRK00409 recombination and DNA 25.5 3.2E+02 0.007 22.3 6.4 22 20-41 506-527 (782)
489 PF05816 TelA: Toxic anion res 25.4 2.6E+02 0.0057 20.1 6.7 41 19-59 101-141 (333)
490 PRK05755 DNA polymerase I; Pro 25.4 1.6E+02 0.0034 24.2 4.6 41 22-62 502-548 (880)
491 COG4694 Uncharacterized protei 25.3 1.8E+02 0.004 23.7 4.8 37 18-54 450-486 (758)
492 cd04789 HTH_Cfa Helix-Turn-Hel 25.3 1.6E+02 0.0034 17.5 4.7 42 16-57 58-101 (102)
493 KOG2072|consensus 25.2 2.9E+02 0.0062 23.6 6.0 47 21-69 611-658 (988)
494 PF04912 Dynamitin: Dynamitin 25.1 1.8E+02 0.004 21.3 4.6 36 19-54 353-388 (388)
495 cd07622 BAR_SNX4 The Bin/Amphi 25.0 2.2E+02 0.0049 19.2 5.2 38 15-52 121-158 (201)
496 COG0216 PrfA Protein chain rel 25.0 2.6E+02 0.0057 21.1 5.4 37 17-53 61-102 (363)
497 COG1938 Archaeal enzymes of AT 25.0 2E+02 0.0042 20.5 4.5 31 22-52 206-236 (244)
498 PF03223 V-ATPase_C: V-ATPase 24.9 2.9E+02 0.0062 20.7 5.6 33 25-57 116-148 (371)
499 PF13339 AATF-Che1: Apoptosis 24.9 1.8E+02 0.0038 17.9 4.9 43 16-58 35-77 (131)
500 PF08702 Fib_alpha: Fibrinogen 24.8 2E+02 0.0043 18.5 5.8 34 24-57 94-127 (146)
No 1
>KOG1760|consensus
Probab=99.96 E-value=6.8e-29 Score=158.24 Aligned_cols=68 Identities=32% Similarity=0.576 Sum_probs=66.4
Q ss_pred cccccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCccCCCC
Q psy15717 3 RVERNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNHIKLEAD 70 (72)
Q Consensus 3 ~~v~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~InLe~~ 70 (72)
..|||+||+||+|++.+.++++||+.++.+.++|+.|+++++.|..+|.+||++||||||++||||++
T Consensus 64 ~~Ip~~vGdvF~~~~~~~~~~~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~~LYaKFgdnINLeae 131 (131)
T KOG1760|consen 64 EDIPFKVGDVFIHVKLDKLQDQLEEKKETLEKEIEELESELESISARMDELKKVLYAKFGDNINLEAE 131 (131)
T ss_pred cccceehhhhheeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCccCC
Confidence 47999999999999999999999999999999999999999999999999999999999999999985
No 2
>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=99.49 E-value=1.3e-13 Score=83.53 Aligned_cols=62 Identities=26% Similarity=0.497 Sum_probs=58.2
Q ss_pred cccccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCC
Q psy15717 3 RVERNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNH 64 (72)
Q Consensus 3 ~~v~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~ 64 (72)
.++|..||.|||..|.+++.+.|+...+.++.+|++++..+..+..+|.+++..||++||++
T Consensus 45 ~~~y~~vG~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~~~~~q 106 (106)
T PF01920_consen 45 RKVYKSVGKMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYELFGQQ 106 (106)
T ss_dssp -EEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCS--
T ss_pred chhHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 47888999999999999999999999999999999999999999999999999999999985
No 3
>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=99.08 E-value=3.6e-10 Score=69.60 Aligned_cols=57 Identities=16% Similarity=0.270 Sum_probs=54.5
Q ss_pred CcccccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 2 SRVERNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 2 ~~~v~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
.+++++.||.|||+.|.++|...|+...+.++.+|++++..++.+..+|.+||..|-
T Consensus 45 d~~vy~~VG~vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~ 101 (105)
T cd00632 45 DAEVYKLVGNVLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQ 101 (105)
T ss_pred cchHHHHhhhHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467889999999999999999999999999999999999999999999999999874
No 4
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=99.02 E-value=1.1e-09 Score=69.70 Aligned_cols=65 Identities=15% Similarity=0.330 Sum_probs=61.9
Q ss_pred ccccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCccCC
Q psy15717 4 VERNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNHIKLE 68 (72)
Q Consensus 4 ~v~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~InLe 68 (72)
+|...+|+.||..+.+.|.+.|+...+.++-+|+.|+...+.+.++..+|+..||++||..+|..
T Consensus 54 ~vYk~VG~llvk~~k~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l~~~~~~~ 118 (119)
T COG1382 54 PVYKKVGNLLVKVSKEEAVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKALGDAANGG 118 (119)
T ss_pred HHHHHhhhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCC
Confidence 45566999999999999999999999999999999999999999999999999999999999875
No 5
>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=98.70 E-value=1e-07 Score=59.26 Aligned_cols=59 Identities=12% Similarity=0.255 Sum_probs=55.1
Q ss_pred Ccccccccc-cceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 2 SRVERNGAG-EIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 2 ~~~v~y~iG-e~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYak 60 (72)
+++|++.|| ++||+.+.++|.+.|++..+.+++.++.++..+..+..+|..|+..|=.+
T Consensus 68 ~~~v~v~iG~~~~ve~~~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~ 127 (129)
T cd00890 68 DDKVLVDLGTGVYVEKSLEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQL 127 (129)
T ss_pred CCEEEEEecCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467889999 99999999999999999999999999999999999999999999987543
No 6
>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=98.08 E-value=2.3e-05 Score=48.56 Aligned_cols=57 Identities=11% Similarity=0.324 Sum_probs=52.6
Q ss_pred cccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 5 ERNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 5 v~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
+.-.||.+||..+.++|...|+...+.++..|..|+.....+..++.++...|..-+
T Consensus 52 vyk~VG~vlv~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~~ 108 (110)
T TIGR02338 52 VYKSVGNLLVKTDKEEAIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEAL 108 (110)
T ss_pred hHHHhchhhheecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333499999999999999999999999999999999999999999999999987654
No 7
>PRK09343 prefoldin subunit beta; Provisional
Probab=97.97 E-value=3.8e-05 Score=48.61 Aligned_cols=58 Identities=16% Similarity=0.309 Sum_probs=51.6
Q ss_pred ccccc-cccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 4 VERNG-AGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 4 ~v~y~-iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
...|+ ||.+||..|.++|...|++..+-++.+|..|+...+.++..+.++...|..-+
T Consensus 54 ~~VYk~VG~vlv~qd~~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll 112 (121)
T PRK09343 54 TPIYKIVGNLLVKVDKTKVEKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEML 112 (121)
T ss_pred chhHHHhhHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455 99999999999999999999999999999999999999999999988876544
No 8
>PRK14011 prefoldin subunit alpha; Provisional
Probab=97.25 E-value=0.0029 Score=41.36 Aligned_cols=60 Identities=10% Similarity=0.211 Sum_probs=53.9
Q ss_pred Ccccccccc-cceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 2 SRVERNGAG-EIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 2 ~~~v~y~iG-e~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
+++|..-|| ..||..+.++|.+.+++..+.+++.+++|...+..+...+.+|...|=+|+
T Consensus 69 ~dkVlVdIGtGy~VEk~~~eA~~~~~~ri~~l~~~~~~l~~~i~~~~~~~~~l~~~L~~k~ 129 (144)
T PRK14011 69 PDKAILGVGSDIYLEKDVSEVIEDFKKSVEELDKTKKEGNKKIEELNKEITKLRKELEKRA 129 (144)
T ss_pred CCeEEEEccCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777777 589999999999999999999999999999999999999999998887764
No 9
>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=97.24 E-value=0.0018 Score=39.79 Aligned_cols=57 Identities=11% Similarity=0.261 Sum_probs=49.0
Q ss_pred cccccccc-cceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 3 RVERNGAG-EIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 3 ~~v~y~iG-e~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
++|...|| +.|+.++.++|.+.+......+++.+++++.++..+..++..+-..+-.
T Consensus 59 ~~vlV~lG~~~~vE~s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~ 116 (120)
T PF02996_consen 59 DKVLVSLGAGYYVEMSLEEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQQ 116 (120)
T ss_dssp TEEEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred CEEEEEeeCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555 5899999999999999999999999999999999999999888776643
No 10
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=97.14 E-value=0.0038 Score=39.71 Aligned_cols=47 Identities=9% Similarity=0.249 Sum_probs=44.2
Q ss_pred cceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 11 EIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 11 e~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.+||..+.++|.+.|++..+.++..++.+...+..+..++..+...|
T Consensus 85 g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l 131 (140)
T PRK03947 85 GYSAEKDLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQEL 131 (140)
T ss_pred CEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999988765
No 11
>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=97.13 E-value=0.0046 Score=38.69 Aligned_cols=58 Identities=12% Similarity=0.204 Sum_probs=50.2
Q ss_pred ccccccc-cceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 4 VERNGAG-EIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 4 ~v~y~iG-e~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
.|.+.|| .+||..+.++|.+.+++..+.+++.+++++..+..+..+++.+-..+=.++
T Consensus 70 ~v~v~iG~g~~vE~~~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~~~ 128 (129)
T cd00584 70 KVLVDLGTGYYVEKDLEEAIEFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQELQ 128 (129)
T ss_pred EEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3455544 699999999999999999999999999999999999999999887765543
No 12
>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=96.89 E-value=0.0081 Score=37.41 Aligned_cols=49 Identities=8% Similarity=0.220 Sum_probs=45.4
Q ss_pred ccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 10 GEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 10 Ge~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
+..||..+.++|.+.|+...+.+++.++.++..+..+..++..+-..|=
T Consensus 76 ~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i~~~l~ 124 (126)
T TIGR00293 76 SGYYVEKDAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQLEQEAQ 124 (126)
T ss_pred CCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4688999999999999999999999999999999999999999887764
No 13
>KOG3478|consensus
Probab=96.85 E-value=0.0046 Score=39.31 Aligned_cols=55 Identities=9% Similarity=0.168 Sum_probs=49.4
Q ss_pred cccccc-cccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 3 RVERNG-AGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 3 ~~v~y~-iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+...|+ ||.+.|..+.++|...+.+..+=+.++|.++++.+.++..++..-|..+
T Consensus 51 d~~VYKliGpvLvkqel~EAr~nV~kRlefI~~Eikr~e~~i~d~q~e~~k~R~~v 106 (120)
T KOG3478|consen 51 DSNVYKLIGPVLVKQELEEARTNVGKRLEFISKEIKRLENQIRDSQEEFEKQREAV 106 (120)
T ss_pred cchHHHHhcchhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444565 9999999999999999999999999999999999999999998887654
No 14
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=94.31 E-value=0.36 Score=31.69 Aligned_cols=55 Identities=9% Similarity=0.201 Sum_probs=47.6
Q ss_pred ccccccccc-ceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 3 RVERNGAGE-IFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 3 ~~v~y~iGe-~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+++...||. .++..+.++|.+.|.+..+++++.+.++...+..+..++..|-..+
T Consensus 76 ~kviV~iGsg~~ae~~~~eAie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~ 131 (145)
T COG1730 76 DKVIVSIGSGYYAEKSADEAIEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEA 131 (145)
T ss_pred ceEEEEcCCceeeeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666664 6789999999999999999999999999999999999998887655
No 15
>PRK01203 prefoldin subunit alpha; Provisional
Probab=94.14 E-value=0.35 Score=31.24 Aligned_cols=53 Identities=9% Similarity=0.202 Sum_probs=47.2
Q ss_pred Ccccccccc-cceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 2 SRVERNGAG-EIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 2 ~~~v~y~iG-e~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
+++|..-|| ..||..+.+++.+.|.+..++++.-+.+....++.+...+++|-
T Consensus 68 ~~kVlVdIGTGy~VEK~~e~kie~L~~~ie~Le~~i~~K~~~l~~i~~~~~~l~ 121 (130)
T PRK01203 68 DKDLIVPIGSGVYIAEERERTIERLKENLEDLKDSIQKLNDQRKTLVDQYNTVY 121 (130)
T ss_pred CCeEEEEcCCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666676 57999999999999999999999999999999999999999886
No 16
>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=93.65 E-value=0.026 Score=35.27 Aligned_cols=50 Identities=22% Similarity=0.432 Sum_probs=15.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------HHHHHHhhhCCCccCCC
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSD----------------LKTHLYAKFGNHIKLEA 69 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e----------------LK~~LYakFG~~InLe~ 69 (72)
..++..-||.....++.++++|.+++.++..+..+ ||..||...| |-++.
T Consensus 11 laK~~~~LE~~l~~l~~el~~L~~~l~eLe~~~~~~~~~~~~~~~~~d~~vlklkLYrsLG--I~~e~ 76 (118)
T PF08286_consen 11 LAKELSDLESELESLQSELEELKEELEELEEQEVEGEEVDEDTTEEIDSNVLKLKLYRSLG--IELEY 76 (118)
T ss_dssp --------------------------------HT------CCCCCHHCCCHHHHHHHHHCC--EEEEC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccccCcccchHHHHHHHHHhCc--EEEEe
Confidence 34455677788888888888888888888888877 9999999999 88876
No 17
>PF06632 XRCC4: DNA double-strand break repair and V(D)J recombination protein XRCC4; InterPro: IPR010585 This entry represents the DNA double-strand break repair and V(D)J recombination protein XRCC4, which is found in certain Metazoans, fungi and plants. XRCC4 binds to DNA, and to DNA ligase IV (LIG4) to form the LIG4-XRCC4 complex []. The LIG4-XRCC4 complex is responsible for the ligation step in the non-homologous end joining (NHEJ) pathway of DNA double-strand break repair. XRCC4 enhances the joining activity of LIG4. It is thought that XRCC4 and LIG4 are essential for alignment-based gap filling, as well as for final ligation of the breaks []. Binding of the LIG4-XRCC4 complex to DNA ends is dependent on the assembly of the DNA-dependent protein kinase complex DNA-PK to these DNA ends. ; GO: 0003677 DNA binding, 0006302 double-strand break repair, 0006310 DNA recombination, 0005634 nucleus; PDB: 3RWR_R 1IK9_B 3SR2_E 3Q4F_H 3II6_B 1FU1_A 3MUD_B.
Probab=93.01 E-value=0.65 Score=34.23 Aligned_cols=38 Identities=18% Similarity=0.414 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
.|.+..+++..+++++..+++.+...-.++=..||+||
T Consensus 148 ~L~~enerL~~e~~~~~~qlE~~v~~K~~~E~~L~~KF 185 (342)
T PF06632_consen 148 HLQKENERLESEANKLLKQLEKFVNAKEEHEEDLYAKF 185 (342)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666788889999999999999999999999999999
No 18
>KOG4196|consensus
Probab=91.08 E-value=1.5 Score=28.62 Aligned_cols=41 Identities=12% Similarity=0.290 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
...||+++..+..++++|..+.....-+..-+|..+|+=.+
T Consensus 76 k~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~ 116 (135)
T KOG4196|consen 76 KHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQN 116 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45799999999999999999999999999999999987543
No 19
>KOG4098|consensus
Probab=90.14 E-value=1.4 Score=28.88 Aligned_cols=49 Identities=14% Similarity=0.253 Sum_probs=45.8
Q ss_pred ccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 8 GAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 8 ~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
+||.+.|.-+.-++.--|+..++.++.-|..|.+.+....++++.-|+.
T Consensus 67 mIgGvLVErTVkeVlP~L~~nke~i~~~i~~l~~qL~~k~kElnkfk~~ 115 (140)
T KOG4098|consen 67 MIGGVLVERTVKEVLPILQTNKENIEKVIKKLTDQLVQKGKELNKFKKD 115 (140)
T ss_pred HhccchhhhhHHHHhHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4999999999999999999999999999999999999999999888763
No 20
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=89.59 E-value=0.6 Score=27.47 Aligned_cols=33 Identities=18% Similarity=0.424 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCcc
Q psy15717 34 SDIASIEQTMSSIKTVMSDLKTHLYAKFGNHIK 66 (72)
Q Consensus 34 ~ei~~L~~el~~i~~~m~eLK~~LYakFG~~In 66 (72)
.+.+++.+.+++|+.+..---..+|.+||.+|-
T Consensus 15 ~dfne~~kRLdeieekvef~~~Ev~Qr~GkkiG 47 (75)
T COG4064 15 DDFNEIHKRLDEIEEKVEFVNGEVYQRIGKKIG 47 (75)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence 456666777777777777777788999998874
No 21
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=89.43 E-value=1.2 Score=30.65 Aligned_cols=40 Identities=15% Similarity=0.355 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
.+......++.++..++.+++.++.+|......||++|..
T Consensus 190 ~i~~~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l~~qf~~ 229 (239)
T PF07195_consen 190 SITSRIDSLNSQIKSLDKQIEDLEERLESKEERLRKQFSA 229 (239)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556778899999999999999999999999999999963
No 22
>PF08199 E2: Bacteriophage E2-like protein; InterPro: IPR013184 This is a family of short conserved proteins of 37 amino acids, described in Lactococcus phage c2 and in related phage. The function of these proteins is unknown.
Probab=87.92 E-value=0.17 Score=25.72 Aligned_cols=14 Identities=50% Similarity=0.930 Sum_probs=10.8
Q ss_pred HHHHHHhhhCCCcc
Q psy15717 53 LKTHLYAKFGNHIK 66 (72)
Q Consensus 53 LK~~LYakFG~~In 66 (72)
|-..||.+||..|.
T Consensus 2 l~rlly~rfgk~ik 15 (37)
T PF08199_consen 2 LSRLLYSRFGKFIK 15 (37)
T ss_pred hHHHHHHHHHHHHH
Confidence 34579999998773
No 23
>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=87.83 E-value=3.2 Score=27.85 Aligned_cols=35 Identities=17% Similarity=0.377 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.|-....+++.+|..|+.-+-..+....+||..|
T Consensus 32 eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrkL 66 (162)
T PF04201_consen 32 EELRSELAKVEEEIQTLRQVLAAKERHCAELKRKL 66 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 45566667777777777777778888888999887
No 24
>KOG3501|consensus
Probab=86.99 E-value=3.3 Score=26.18 Aligned_cols=44 Identities=16% Similarity=0.275 Sum_probs=36.4
Q ss_pred ccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 8 GAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMS 51 (72)
Q Consensus 8 ~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~ 51 (72)
.+|..|+.-|..-....+++.....++.|+.|+..-.=++...+
T Consensus 55 svgrmF~l~dk~a~~s~leak~k~see~IeaLqkkK~YlEk~v~ 98 (114)
T KOG3501|consen 55 SVGRMFMLSDKAAVRSHLEAKMKSSEEKIEALQKKKTYLEKTVS 98 (114)
T ss_pred HHHHHHHcCcHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 38999999999999999999999999999998877655544443
No 25
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=86.44 E-value=2.6 Score=27.90 Aligned_cols=33 Identities=15% Similarity=0.366 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
..+..+..+++++++..+++..+.++..||++.
T Consensus 152 ~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~ 184 (192)
T PF05529_consen 152 LKEENKKLSEEIEKLKKELEKKEKEIEALKKQS 184 (192)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556778899999999999999999999875
No 26
>PRK06798 fliD flagellar capping protein; Validated
Probab=86.36 E-value=1.6 Score=32.87 Aligned_cols=38 Identities=13% Similarity=0.344 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
|......++.+|..++.+++.++.+|......||.+|.
T Consensus 377 i~~r~~~l~~~i~~l~~~~~~~e~rl~~~e~~l~~qf~ 414 (440)
T PRK06798 377 IGERSKSIDNRVSKLDLKITDIDTQNKQKQDNIVDKYQ 414 (440)
T ss_pred eehhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567788889999999999999999999999999985
No 27
>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=86.27 E-value=2 Score=26.54 Aligned_cols=53 Identities=19% Similarity=0.363 Sum_probs=40.2
Q ss_pred ccccccc-ceeecchhHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 5 ERNGAGE-IFVDLIKRNSE-------------KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 5 v~y~iGe-~Fv~l~~e~a~-------------e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+++.||+ +||.-....+. .-+++.++-++..++.|+..++.+...+..|+...
T Consensus 50 ~lv~lg~~~~v~~~v~~~~~v~v~iG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~ 116 (126)
T TIGR00293 50 TLVPVGAGSFVKAKVKDTDKVLVSIGSGYYVEKDAEEAIEFLKKRIEELEKAIEKLQEALAELASRA 116 (126)
T ss_pred EEEEcCCCeEEEEEeCCCCEEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455544 45555444444 57889999999999999999999999999998754
No 28
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=85.74 E-value=2 Score=23.20 Aligned_cols=32 Identities=19% Similarity=0.438 Sum_probs=12.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~ 49 (72)
..+|.+.|.+--..++..|+.+..++.+++.+
T Consensus 3 ~~EAkelLqe~~d~IEqkiedid~qIaeLe~K 34 (46)
T PF08946_consen 3 RAEAKELLQEHYDNIEQKIEDIDEQIAELEAK 34 (46)
T ss_dssp ------------THHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhHHHhHHHHHHHHHHHHHH
Confidence 35667777666666666666666666665555
No 29
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=84.09 E-value=3.2 Score=31.39 Aligned_cols=38 Identities=5% Similarity=0.256 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
|......+...|..++.+++.+..+|..+...||.+|.
T Consensus 404 l~~~~~~l~~~i~~l~~~i~~~~~rl~~~e~rl~~qF~ 441 (462)
T PRK08032 404 IKTATDGVNKTLKKLTKQYNAVSDSIDATIARYKAQFT 441 (462)
T ss_pred chhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44466788999999999999999999999999999995
No 30
>PRK09343 prefoldin subunit beta; Provisional
Probab=83.53 E-value=5.6 Score=24.90 Aligned_cols=45 Identities=9% Similarity=0.307 Sum_probs=36.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
.+.-.+.|+...+.+++..+.++..+.+++..+.++-..+|.+=|
T Consensus 76 l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~~~~~~~~ 120 (121)
T PRK09343 76 LKERKELLELRSRTLEKQEKKLREKLKELQAKINEMLSKYYPQGG 120 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 445567788888888888888888888888888888888877655
No 31
>PRK07737 fliD flagellar capping protein; Validated
Probab=83.13 E-value=2.8 Score=32.07 Aligned_cols=35 Identities=20% Similarity=0.444 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
....+..+|..+..+++..+.+|..+...||++|.
T Consensus 442 ~~~~l~~~i~~l~~~i~~~~~rl~~~e~ry~~qf~ 476 (501)
T PRK07737 442 QQFAIGKDLNQIETQIDRFQDRLKQIEDRYYKKFS 476 (501)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567888889999999999999999999999995
No 32
>KOG4010|consensus
Probab=83.02 E-value=5.6 Score=27.54 Aligned_cols=35 Identities=17% Similarity=0.378 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.|-....++++||..|+.-+...+....+||..|
T Consensus 47 eelr~EL~kvEeEI~TLrqVLaAKerH~~ELKRKL 81 (208)
T KOG4010|consen 47 EELRTELAKVEEEIVTLRQVLAAKERHAAELKRKL 81 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35555556666666666666666666677787765
No 33
>smart00338 BRLZ basic region leucin zipper.
Probab=83.00 E-value=5.9 Score=21.81 Aligned_cols=36 Identities=14% Similarity=0.371 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
...|+.....+..+...|..++..+..+...||..|
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 28 IEELERKVEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 446777777888888888888888888888887765
No 34
>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=82.60 E-value=5.2 Score=22.30 Aligned_cols=33 Identities=12% Similarity=0.260 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
....+......+++++++++.+.+.+..+...|
T Consensus 18 ~~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 18 RYYQLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344666677777888888888888777777777
No 35
>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=82.58 E-value=6.6 Score=23.69 Aligned_cols=33 Identities=3% Similarity=0.197 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
-.+.++...+++++.++.++.++.+++.++.+|
T Consensus 71 ~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~ 103 (105)
T cd00632 71 RLETIELRIKRLERQEEDLQEKLKELQEKIQQA 103 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555666666655555555554
No 36
>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=81.59 E-value=6.1 Score=20.94 Aligned_cols=35 Identities=20% Similarity=0.381 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
|-..-+.+..+-+.|..+...+..++..|+..|..
T Consensus 10 LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~kl~~ 44 (45)
T PF02183_consen 10 LKASYDSLKAEYDSLKKENEKLRAEVQELKEKLQM 44 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 44444455555555555555666666666655543
No 37
>PRK06664 fliD flagellar hook-associated protein FliD; Validated
Probab=81.44 E-value=3.7 Score=32.71 Aligned_cols=38 Identities=11% Similarity=0.194 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
+......++..|..+..+++....+|..+...||++|.
T Consensus 598 i~~r~~~l~~~i~~l~~~i~~~e~rl~~~e~rl~~QFt 635 (661)
T PRK06664 598 IYNKVKGLDERIADNNKKIEEYEKKLESKERKLKGKYL 635 (661)
T ss_pred eehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566788899999999999999999999999999996
No 38
>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=80.75 E-value=5.7 Score=24.68 Aligned_cols=29 Identities=10% Similarity=0.273 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
+|+....+-++|..|...+..+..+=..|
T Consensus 13 le~~l~~l~~~~~~LK~~~~~l~EEN~~L 41 (107)
T PF06156_consen 13 LEQQLGQLLEELEELKKQLQELLEENARL 41 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444433333
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=80.61 E-value=5 Score=26.07 Aligned_cols=49 Identities=8% Similarity=0.191 Sum_probs=25.1
Q ss_pred ccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 6 RNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 6 ~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.+..-+.|=.++.++ ...++.....++.++..|..++..+..+++.|.+
T Consensus 59 Y~~~Q~~~~~~s~ee-l~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~ 107 (169)
T PF07106_consen 59 YFANQDELEVPSPEE-LAELDAEIKELREELAELKKEVKSLEAELASLSS 107 (169)
T ss_pred EeeCccccCCCCchh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 333334443333333 3334444566666666666666666666665554
No 40
>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=80.30 E-value=9.6 Score=23.09 Aligned_cols=48 Identities=25% Similarity=0.434 Sum_probs=30.1
Q ss_pred ccceeecc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 10 GEIFVDLI-KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 10 Ge~Fv~l~-~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.++|++- .-.+.--+++..+-++..++.++..++.+...+..+...+
T Consensus 69 ~~v~v~iG~~~~ve~~~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~ 117 (129)
T cd00890 69 DKVLVDLGTGVYVEKSLEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQI 117 (129)
T ss_pred CEEEEEecCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555 3344445666666777777777777777777777666553
No 41
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=80.24 E-value=12 Score=24.49 Aligned_cols=40 Identities=28% Similarity=0.363 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYak 60 (72)
....++.+.+.+++++.+|.+..+...++...||..|..-
T Consensus 48 ~Ik~~ea~~e~~k~E~krL~~rkk~~e~~~~~Lk~yL~~~ 87 (162)
T PF05565_consen 48 VIKNLEADIEAIKAEIKRLQERKKSIENRIDRLKEYLLDA 87 (162)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788888999999999999999999999999999764
No 42
>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=80.04 E-value=5.6 Score=24.26 Aligned_cols=36 Identities=19% Similarity=0.329 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
..-.+.....++++++.++..++.+..++..|...+
T Consensus 62 ~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l 97 (110)
T TIGR02338 62 KTDKEEAIQELKEKKETLELRVKTLQRQEERLREQL 97 (110)
T ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444445555555555555555555555555443
No 43
>PF03789 ELK: ELK domain ; InterPro: IPR005539 This domain is required for the nuclear localisation of these proteins []. All of these proteins are members of the Tale/Knox homeodomain family, a subfamily, containing homeobox IPR001356 from INTERPRO.; GO: 0003677 DNA binding, 0005634 nucleus
Probab=79.91 E-value=0.62 Score=21.49 Aligned_cols=15 Identities=33% Similarity=0.561 Sum_probs=13.0
Q ss_pred HHHHHHHhhhCCCcc
Q psy15717 52 DLKTHLYAKFGNHIK 66 (72)
Q Consensus 52 eLK~~LYakFG~~In 66 (72)
|||.+|-.|||..|.
T Consensus 1 ELK~~LlrkY~g~i~ 15 (22)
T PF03789_consen 1 ELKHQLLRKYSGYIS 15 (22)
T ss_pred CHHHHHHHHHhHhHH
Confidence 589999999998874
No 44
>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=79.91 E-value=8 Score=21.26 Aligned_cols=34 Identities=21% Similarity=0.439 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
+.|+.....+..+...|..++..+..+...|+..
T Consensus 29 ~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e 62 (64)
T PF00170_consen 29 EELEEKVEELESENEELKKELEQLKKEIQSLKSE 62 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4455555566666666666666666666666553
No 45
>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=79.33 E-value=8.1 Score=23.61 Aligned_cols=38 Identities=21% Similarity=0.436 Sum_probs=29.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.+.....|++..+.++++|..++.....+...+..++.
T Consensus 77 ~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~~~ 114 (116)
T cd04769 77 WPHLQQALEDKKQEIRAQITELQQLLARLDAFEASLKD 114 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 35566778888888888888888888888877777664
No 46
>PHA01750 hypothetical protein
Probab=79.25 E-value=10 Score=22.15 Aligned_cols=38 Identities=13% Similarity=0.329 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
-..+-+.+....+..+|..+.-+.+.+..+..++|+.+
T Consensus 35 AvkeIV~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~ 72 (75)
T PHA01750 35 AVKEIVNSELDNLKTEIEELKIKQDELSRQVEEIKRKL 72 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Confidence 34456666777888888888888888888888888876
No 47
>PF11285 DUF3086: Protein of unknown function (DUF3086); InterPro: IPR021437 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=77.91 E-value=8.3 Score=27.91 Aligned_cols=33 Identities=24% Similarity=0.417 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMS 51 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~ 51 (72)
..+...|++.+..++.+|++|+..-+.|+++|+
T Consensus 3 ~~~L~eL~qrk~~Lq~eIe~LerR~~ri~~Emr 35 (283)
T PF11285_consen 3 QEALKELEQRKQALQIEIEQLERRRERIEKEMR 35 (283)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788999999999999999999999999986
No 48
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=77.66 E-value=3.5 Score=25.25 Aligned_cols=56 Identities=20% Similarity=0.287 Sum_probs=34.2
Q ss_pred cccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCC
Q psy15717 7 NGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNH 64 (72)
Q Consensus 7 y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~ 64 (72)
..+|-+|+.-+....-. +..-...+.|+.++..-+.....++..|+..+=++.|..
T Consensus 10 ia~G~~~~~~~~~~~~~--~~~~~~~~~E~~rl~~Al~~~~~eL~~l~~~~~~~~~~~ 65 (123)
T PF05524_consen 10 IAIGPAFVLRPPEPEIP--ERHIDDIEAEIERLEQALEKAREELEQLAERAESKLGEE 65 (123)
T ss_dssp EEEEEEEE-----------TTB-SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHSS
T ss_pred EEEEEEEEEecccCccc--ccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 45788888886662221 111157778888888888888888888888877776654
No 49
>PF15518 L_protein_N: L protein N-terminus; PDB: 2XI5_D 2XI7_D.
Probab=77.36 E-value=1.7 Score=29.59 Aligned_cols=17 Identities=47% Similarity=0.679 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHhhhCCC
Q psy15717 48 TVMSDLKTHLYAKFGNH 64 (72)
Q Consensus 48 ~~m~eLK~~LYakFG~~ 64 (72)
+.--+||+.||.||++.
T Consensus 159 ~~Ff~Lk~~L~~KF~Dd 175 (183)
T PF15518_consen 159 TWFFELKTMLYDKFADD 175 (183)
T ss_dssp HHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHhcCh
Confidence 34568999999999973
No 50
>PRK08724 fliD flagellar capping protein; Validated
Probab=77.14 E-value=7.8 Score=31.19 Aligned_cols=37 Identities=14% Similarity=0.268 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
......++..+..+..+++.+..+|..+-..||++|.
T Consensus 616 ~~R~~sL~~~i~~l~dqi~~Le~Rle~~E~Ry~~QFt 652 (673)
T PRK08724 616 RTREKSLREQNYRLNDDQVALDRRMESLEKRTHAKFA 652 (673)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455668888888888888999999999999999985
No 51
>KOG3313|consensus
Probab=77.07 E-value=10 Score=26.01 Aligned_cols=47 Identities=9% Similarity=0.134 Sum_probs=38.1
Q ss_pred cccccccc-cceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 3 RVERNGAG-EIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 3 ~~v~y~iG-e~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~ 49 (72)
++|.+-+| ++.+..+.++|++.|.+......+.+..++.+++=++.+
T Consensus 110 ~kV~LWLGAnVMlEY~leEAeaLLkknl~sa~k~l~~~~~DldfLrdQ 157 (187)
T KOG3313|consen 110 DKVYLWLGANVMLEYDLEEAEALLKKNLTSAVKSLDVLEEDLDFLRDQ 157 (187)
T ss_pred CeEEEEecceeEEEecHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhh
Confidence 44555555 678899999999999999999998888888888776654
No 52
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=76.68 E-value=17 Score=26.95 Aligned_cols=55 Identities=22% Similarity=0.480 Sum_probs=35.0
Q ss_pred ceeecchhHHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHhhhCCCccC
Q psy15717 12 IFVDLIKRNSEKSLEESRQNIKSDIASIEQT-----------------MSSIKTVMSDLKTHLYAKFGNHIKL 67 (72)
Q Consensus 12 ~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~e-----------------l~~i~~~m~eLK~~LYakFG~~InL 67 (72)
++..++.++..+.|++..++++++|++|.+. +.....++.+++. |.+..|+-|.|
T Consensus 234 ~~A~l~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~~k~~~k~~~~~~q~~~~~k~~~~~~~-~~~~~~~~~~l 305 (406)
T PF02388_consen 234 FLAELNGKEYLESLQEKLEKLEKEIEKLEEKLEKNPKKKNKLKELEEQLASLEKRIEEAEE-LIAEYGDEIPL 305 (406)
T ss_dssp EEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHH-THHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH-SEEEE
T ss_pred EEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHHHHHHHH-HHHhcCCcceE
Confidence 4567788888888888888888777777665 4444444444443 35666665543
No 53
>TIGR03592 yidC_oxa1_cterm membrane protein insertase, YidC/Oxa1 family, C-terminal domain. This model describes full-length from some species, and the C-terminal region only from other species, of the YidC/Oxa1 family of proteins. This domain appears to be univeral among bacteria (although absent from Archaea). The well-characterized YidC protein from Escherichia coli and its close homologs contain a large N-terminal periplasmic domain in addition to the region modeled here.
Probab=76.41 E-value=17 Score=23.98 Aligned_cols=43 Identities=12% Similarity=0.161 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
.+.+-.+....++-++++++++.++-..++++-...||.|.|=
T Consensus 23 ~~~~~~~km~~i~P~~~~i~~k~k~~~~~~~~e~~~l~k~~~~ 65 (181)
T TIGR03592 23 KQYKSMRKMQELQPKLKEIQEKYKDDPQKLQQEMMKLYKEEGV 65 (181)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHhhHHHHHHHHHHHHHHhCC
Confidence 3444445566788888888888887777788888899999874
No 54
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G. coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=76.27 E-value=6.4 Score=23.01 Aligned_cols=33 Identities=6% Similarity=0.261 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCcc
Q psy15717 34 SDIASIEQTMSSIKTVMSDLKTHLYAKFGNHIK 66 (72)
Q Consensus 34 ~ei~~L~~el~~i~~~m~eLK~~LYakFG~~In 66 (72)
++.+++.+++++++.+..---..++.++|.+|-
T Consensus 12 ~d~~~i~~rLd~iEeKVEf~~~E~~Qr~Gkk~G 44 (70)
T TIGR01149 12 DEFNEVMKRLDEIEEKVEFVNGEVAQRIGKKVG 44 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhh
Confidence 345555566666666666666667777777653
No 55
>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=76.05 E-value=7.6 Score=26.06 Aligned_cols=31 Identities=32% Similarity=0.489 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
+=|+.++++..++.++++++ .-|+.+|+||.
T Consensus 26 LsEeE~eeLr~EL~KvEeEI-------~TLrqvL~aKe 56 (162)
T PF04201_consen 26 LSEEEREELRSELAKVEEEI-------QTLRQVLAAKE 56 (162)
T ss_pred CCHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence 34555666666666655555 45666666663
No 56
>PRK02793 phi X174 lysis protein; Provisional
Probab=75.68 E-value=11 Score=21.76 Aligned_cols=31 Identities=6% Similarity=0.155 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
.+.|.+...+-+..|+.|+..+..+..++.+
T Consensus 24 Ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~ 54 (72)
T PRK02793 24 IEELNVTVTAHEMEMAKLRDHLRLLTEKLKA 54 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3333334444444444444444444444433
No 57
>PRK14127 cell division protein GpsB; Provisional
Probab=75.15 E-value=18 Score=22.69 Aligned_cols=46 Identities=13% Similarity=0.292 Sum_probs=31.0
Q ss_pred eeecchhHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 13 FVDLIKRNSEKSLEE---SRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 13 Fv~l~~e~a~e~LE~---~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
|-=.+.+++.+.|+. +.+.+..++..|++++..++.++.+++..+=
T Consensus 20 ~RGYd~~EVD~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 20 MRGYDQDEVDKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVS 68 (109)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 445666777766654 4455667777777777777777777776553
No 58
>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=74.81 E-value=13 Score=22.90 Aligned_cols=26 Identities=12% Similarity=0.392 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKT 48 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~ 48 (72)
+.|++.++++.++++..+.+++.+++
T Consensus 72 EqL~~Lk~kl~~e~~~~~k~i~~le~ 97 (100)
T PF04568_consen 72 EQLKKLKEKLKEEIEHHRKEIDELEK 97 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444443
No 59
>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=74.56 E-value=8 Score=21.58 Aligned_cols=17 Identities=24% Similarity=0.513 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIE 40 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~ 40 (72)
+|++..++++.+|..++
T Consensus 8 rL~Kel~kl~~~i~~~~ 24 (66)
T PF10458_consen 8 RLEKELEKLEKEIERLE 24 (66)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 60
>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=74.53 E-value=5.4 Score=25.90 Aligned_cols=31 Identities=16% Similarity=0.417 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 27 ESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 27 ~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.....++.+|..|++++..+....+.|++.|
T Consensus 72 eel~~ld~ei~~L~~el~~l~~~~k~l~~eL 102 (169)
T PF07106_consen 72 EELAELDAEIKELREELAELKKEVKSLEAEL 102 (169)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455777778888888888888877777766
No 61
>PF02090 SPAM: Salmonella surface presentation of antigen gene type M protein; InterPro: IPR002954 The Salmonella typhimurium Surface Presentation of Antigens M gene (SpaM) is one of 12 that form a cluster responsible for invasion properties []. The gene product is required for entry by the bacterium into epithelial cells, and is thus considered to be a virulence factor []. Other Spa genes in the cluster are related to invasion (Inv) genes in similar Salmonella and Shigella species [], and flagella biosynthesis genes in Helicobacter pylori []. A homologue of this protein has been found recently in Salmonella enterica []. The protein, named InvI, is required by the organism to gain access to mammalian epithelial cells, and cellular mutants (InvI-) failed to successfully infect these cells. It has also been found that the inv-spa loci of this particular species encode for a type III protein secretion system, essential in the bacterium's host cell invasion process [].
Probab=74.25 E-value=22 Score=23.49 Aligned_cols=43 Identities=9% Similarity=0.126 Sum_probs=39.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYak 60 (72)
++-+...+|...-++..+-..|..+...++.+..-||..||..
T Consensus 14 c~~~~~rCe~~L~ql~~e~~~L~~ee~~~~~Q~~~L~~LL~~~ 56 (147)
T PF02090_consen 14 CEMFQSRCEQALLQLQREEQKLDAEEEAIEEQRAGLQSLLDTQ 56 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566788999999999999999999999999999999999986
No 62
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=73.91 E-value=7.7 Score=23.06 Aligned_cols=32 Identities=13% Similarity=0.403 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhCCCcc
Q psy15717 35 DIASIEQTMSSIKTVMSDLKTHLYAKFGNHIK 66 (72)
Q Consensus 35 ei~~L~~el~~i~~~m~eLK~~LYakFG~~In 66 (72)
+.+++.+++++++.+..--=..++.+.|.+|-
T Consensus 16 d~~~i~~rLD~iEeKVEftn~Ei~Qr~GkkvG 47 (77)
T PRK01026 16 DFKEIQKRLDEIEEKVEFTNAEIFQRIGKKVG 47 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhh
Confidence 34455555555555555555667777777653
No 63
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=73.87 E-value=8.3 Score=22.53 Aligned_cols=32 Identities=16% Similarity=0.265 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhCCCcc
Q psy15717 35 DIASIEQTMSSIKTVMSDLKTHLYAKFGNHIK 66 (72)
Q Consensus 35 ei~~L~~el~~i~~~m~eLK~~LYakFG~~In 66 (72)
+..++.+++++++++..---..+|.+.|.+|-
T Consensus 13 ~~~~i~~rLd~iEeKvEf~~~Ei~Qr~GkkiG 44 (70)
T PF04210_consen 13 DFNEIMKRLDEIEEKVEFTNAEIAQRAGKKIG 44 (70)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHhHHhh
Confidence 34455555555555555555667777777663
No 64
>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=73.51 E-value=12 Score=19.84 Aligned_cols=34 Identities=21% Similarity=0.342 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.||.+-+.+....+.|.++.+.+..+-..|++.+
T Consensus 2 QlE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev 35 (45)
T PF02183_consen 2 QLERDYDALKASYDSLKAEYDSLKKENEKLRAEV 35 (45)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788888888888888888888888888888765
No 65
>PF13015 PRKCSH_1: Glucosidase II beta subunit-like protein
Probab=73.46 E-value=5.5 Score=26.17 Aligned_cols=31 Identities=19% Similarity=0.492 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 33 KSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 33 ~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
+.++++++.++.+++.++.++...|=..||-
T Consensus 2 ~~~~~~~e~~~~~l~~~i~~~~~~l~~dyG~ 32 (154)
T PF13015_consen 2 EKEIDEAERKLSDLESKIRELEDDLNKDYGP 32 (154)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhhcccCc
Confidence 5677777888888888888888777777775
No 66
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=73.06 E-value=14 Score=28.67 Aligned_cols=38 Identities=13% Similarity=0.227 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIK---SDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 20 ~a~e~LE~~ke~l~---~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.+..|+..+.+++ .....++.++++++.+...|+.++
T Consensus 80 ELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 80 QMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 33444444443333 555567777778888888888887
No 67
>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=72.57 E-value=13 Score=20.65 Aligned_cols=25 Identities=8% Similarity=0.383 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m 50 (72)
++..+++++++++++.++..+...|
T Consensus 3 ~~E~~rL~Kel~kl~~~i~~~~~kL 27 (66)
T PF10458_consen 3 EAEIERLEKELEKLEKEIERLEKKL 27 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555554444
No 68
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=72.35 E-value=6.4 Score=30.50 Aligned_cols=29 Identities=17% Similarity=0.387 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 33 KSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 33 ~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
-.+|+.|..++..++.+|++|++.|=+|=
T Consensus 24 a~~i~~L~~ql~aLq~~v~eL~~~laa~~ 52 (514)
T PF11336_consen 24 ADQIKALQAQLQALQDQVNELRAKLAAKP 52 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 45688888888889999999999887764
No 69
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=71.90 E-value=14 Score=24.27 Aligned_cols=41 Identities=17% Similarity=0.363 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHhhhCC
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSD--------LKTHLYAKFGN 63 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~e--------LK~~LYakFG~ 63 (72)
.+++....+.++++++|+.+++..++.+.+ =+...|.+.|+
T Consensus 3 ~w~~~~~~~~~~~~~~Le~elk~~~~n~~kesir~~~~~l~~~~~~~Gd 51 (177)
T PF10602_consen 3 EWIEETKAKNAEELEKLEAELKDAKSNLGKESIRMALEDLADHYCKIGD 51 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHhhh
Confidence 466777777777777777777764443322 35667888775
No 70
>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=71.87 E-value=16 Score=20.68 Aligned_cols=20 Identities=5% Similarity=0.292 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m 50 (72)
+-+.+|+.|+..+..+..++
T Consensus 29 ~Qq~~I~~L~~~l~~L~~rl 48 (69)
T PF04102_consen 29 EQQRQIDRLQRQLRLLRERL 48 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333
No 71
>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=71.51 E-value=26 Score=23.70 Aligned_cols=34 Identities=15% Similarity=0.435 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
....+.-+.+++.+|++|+.+++.++.-.+.+|.
T Consensus 115 ~~~Vd~~~~eL~~eI~~L~~~i~~le~~~~~~k~ 148 (171)
T PF04799_consen 115 CQQVDQTKNELEDEIKQLEKEIQRLEEIQSKSKT 148 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666677778888888887777777777664
No 72
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=71.07 E-value=22 Score=28.59 Aligned_cols=45 Identities=11% Similarity=0.330 Sum_probs=34.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 17 IKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 17 ~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
+.+...+.|+.....|+.++++++.++..+.+++.+++...+.+-
T Consensus 426 ~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~~~~ 470 (652)
T COG2433 426 KLEETVERLEEENSELKRELEELKREIEKLESELERFRREVRDKV 470 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667778888888888888888888888888888888777553
No 73
>KOG1029|consensus
Probab=70.95 E-value=19 Score=30.16 Aligned_cols=42 Identities=7% Similarity=0.210 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYak 60 (72)
+-+...|......+.+|++.--++++....+|.+||..+|++
T Consensus 541 e~irq~ikdqldelskE~esk~~eidi~n~qlkelk~~~~~q 582 (1118)
T KOG1029|consen 541 ELIRQAIKDQLDELSKETESKLNEIDIFNNQLKELKEDVNSQ 582 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence 445566777778888888888888999999999999999875
No 74
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=70.81 E-value=4 Score=26.07 Aligned_cols=18 Identities=33% Similarity=0.743 Sum_probs=14.8
Q ss_pred HHHHHHHHHHhhhCCCccC
Q psy15717 49 VMSDLKTHLYAKFGNHIKL 67 (72)
Q Consensus 49 ~m~eLK~~LYakFG~~InL 67 (72)
=|.++|+.+|| ||+-+|-
T Consensus 11 F~KDikslmYa-yGDvv~P 28 (126)
T COG5248 11 FMKDIKSLMYA-YGDVVAP 28 (126)
T ss_pred HHHHHHHHHHH-hCCCCCc
Confidence 47899999998 8987663
No 75
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=70.24 E-value=26 Score=22.46 Aligned_cols=40 Identities=13% Similarity=0.348 Sum_probs=24.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.++.-+.|...+.++.++|+.+..+++++.+--...+..+
T Consensus 52 l~~vs~~l~~tKkhLsqRId~vd~klDe~~ei~~~i~~eV 91 (126)
T PF07889_consen 52 LEQVSESLSSTKKHLSQRIDRVDDKLDEQKEISKQIKDEV 91 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 3455566666677777777777666666655555544443
No 76
>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=69.89 E-value=12 Score=21.37 Aligned_cols=35 Identities=11% Similarity=0.331 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
....+......++++++.++++-+.+..+.+.|..
T Consensus 25 ~~~~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~~ 59 (85)
T TIGR02209 25 QTRQLNNELQKLQLEIDKLQKEWRDLQLEVAELSR 59 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 34456666667777777777777777777766654
No 77
>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=69.56 E-value=33 Score=24.82 Aligned_cols=37 Identities=14% Similarity=0.369 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
+.|++..+.+.+++.+|+.+...+..++.+|+..+..
T Consensus 53 ~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~ 89 (314)
T PF04111_consen 53 EKLEQEEEELLQELEELEKEREELDQELEELEEELEE 89 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666677777777777777777776665543
No 78
>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=68.61 E-value=28 Score=24.50 Aligned_cols=37 Identities=22% Similarity=0.491 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhh
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKT---HLYAK 60 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~---~LYak 60 (72)
+.-....++++++.++..++..++.++..||+ .||.|
T Consensus 90 RFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEK 129 (248)
T PF08172_consen 90 RFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEK 129 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444556677777777777777777777774 58876
No 79
>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=68.24 E-value=18 Score=19.97 Aligned_cols=24 Identities=8% Similarity=0.338 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSI 46 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i 46 (72)
..|+...++++++.+.|+.+++.+
T Consensus 27 ~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 27 AELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345555555555555555555555
No 80
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=67.95 E-value=18 Score=22.63 Aligned_cols=35 Identities=9% Similarity=0.230 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
...+|+....+-+++..|...+.++..+=..|+..
T Consensus 10 l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iE 44 (110)
T PRK13169 10 LDDLEQNLGVLLKELGALKKQLAELLEENTALRLE 44 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555566666666666666666666666665543
No 81
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=67.44 E-value=28 Score=27.24 Aligned_cols=42 Identities=19% Similarity=0.351 Sum_probs=29.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 17 IKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 17 ~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
+.+++....+..-.++.+++.++.+++.+++++.++|+..+-
T Consensus 83 ~~~e~~~~~~~~~~~~~~~i~~l~~~~~~L~~~~~~l~~~~~ 124 (646)
T PRK05771 83 SLEELIKDVEEELEKIEKEIKELEEEISELENEIKELEQEIE 124 (646)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555556666777777788888888888888777776553
No 82
>KOG1760|consensus
Probab=67.39 E-value=25 Score=22.79 Aligned_cols=33 Identities=24% Similarity=0.480 Sum_probs=24.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m 50 (72)
.+++.+.+++..+.++++++.+.+.++.++..+
T Consensus 86 LEe~ke~l~k~i~~les~~e~I~~~m~~LK~~L 118 (131)
T KOG1760|consen 86 LEEKKETLEKEIEELESELESISARMDELKKVL 118 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677777777888888888888888777654
No 83
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=67.35 E-value=21 Score=21.33 Aligned_cols=24 Identities=13% Similarity=0.491 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
++.++|++.+.++.+.+.++.+|-
T Consensus 5 Ki~~eieK~k~Kiae~Q~rlK~Le 28 (83)
T PF14193_consen 5 KIRAEIEKTKEKIAELQARLKELE 28 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444444443
No 84
>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=67.29 E-value=19 Score=19.73 Aligned_cols=33 Identities=12% Similarity=0.313 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
....+.++..+..|+.+...+..++..|+..+.
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~ 57 (64)
T PF00170_consen 25 KQYIEELEEKVEELESENEELKKELEQLKKEIQ 57 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345567788888888888888888888877654
No 85
>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]. There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding
Probab=67.27 E-value=31 Score=22.44 Aligned_cols=34 Identities=21% Similarity=0.406 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.+..+.+..+++|..|.+++..+....+.|...|
T Consensus 42 ~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL 75 (140)
T PF10473_consen 42 CLILDAENSKAEIETLEEELEELTSELNQLELEL 75 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555555555555554443
No 86
>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=67.15 E-value=14 Score=20.76 Aligned_cols=36 Identities=17% Similarity=0.369 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC-CccCC
Q psy15717 33 KSDIASIEQTMSSIKTVMSDLKTHLYAKFGN-HIKLE 68 (72)
Q Consensus 33 ~~ei~~L~~el~~i~~~m~eLK~~LYakFG~-~InLe 68 (72)
+.+++.+...++.+...|.++-..+=.++|. +|.+.
T Consensus 3 d~~Ld~~~~~~~~~~~~l~~~~~~~~~~~~~~~lk~~ 39 (92)
T PF05190_consen 3 DEELDELREEYEEIEEELEELLEEIRKKLGIPSLKLV 39 (92)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHCT-TTBEEE
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcEEEE
Confidence 3567788888888888888888888888887 66553
No 87
>PRK14127 cell division protein GpsB; Provisional
Probab=67.12 E-value=28 Score=21.75 Aligned_cols=31 Identities=6% Similarity=0.199 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
+.+.+....++.++..|+.++.....+....
T Consensus 40 e~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~~ 70 (109)
T PRK14127 40 EAFQKEIEELQQENARLKAQVDELTKQVSVG 70 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 4455566677777777777777766665543
No 88
>PRK09737 EcoKI restriction-modification system protein HsdS; Provisional
Probab=67.12 E-value=38 Score=24.48 Aligned_cols=57 Identities=11% Similarity=0.189 Sum_probs=41.7
Q ss_pred cccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hCCCc
Q psy15717 9 AGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAK-FGNHI 65 (72)
Q Consensus 9 iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYak-FG~~I 65 (72)
|...-|.+|.-+-|+.+-.....+.+.++.++..+....+.+.+||.-|=.| |...|
T Consensus 362 l~~l~IplPpl~EQ~kI~~~l~~l~~~~d~i~~~~~~~l~~L~~lKqslLqk~ftG~l 419 (461)
T PRK09737 362 LANYPIRVPPLEEQAEIVRRVEQLFAYADTIEKQVNNALARVNNLTQSILAKAFRGEL 419 (461)
T ss_pred HhcCcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcc
Confidence 4566677887777888877777888888888877777778888888877544 44333
No 89
>PRK04325 hypothetical protein; Provisional
Probab=66.52 E-value=23 Score=20.45 Aligned_cols=31 Identities=10% Similarity=0.171 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
.+.|.....+-+.+|+.|+..+..+..++.+
T Consensus 25 Ie~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~ 55 (74)
T PRK04325 25 IDGLNATVARQQQTLDLLQAQLRLLYQQMRD 55 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444444444433
No 90
>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=66.50 E-value=26 Score=21.02 Aligned_cols=48 Identities=21% Similarity=0.382 Sum_probs=35.1
Q ss_pred ccceeecchhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 10 GEIFVDLIKRNSEK-SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 10 Ge~Fv~l~~e~a~e-~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.+||++..+-..+ -+++..+-++..++.++..++.+...+..++..+
T Consensus 59 ~~vlV~lG~~~~vE~s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~ 107 (120)
T PF02996_consen 59 DKVLVSLGAGYYVEMSLEEAIEFLKKRIKELEEQLEKLEKELAELQAQI 107 (120)
T ss_dssp TEEEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CEEEEEeeCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555554333 5778888888888888888888888888887764
No 91
>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=66.29 E-value=21 Score=19.89 Aligned_cols=30 Identities=20% Similarity=0.367 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
||....+++..|+.++++.+++.....+++
T Consensus 5 lEn~~~~~~~~i~tvk~en~~i~~~ve~i~ 34 (55)
T PF05377_consen 5 LENELPRIESSINTVKKENEEISESVEKIE 34 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444445555555555444444444
No 92
>PRK00295 hypothetical protein; Provisional
Probab=66.26 E-value=22 Score=20.18 Aligned_cols=32 Identities=9% Similarity=0.165 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
+.+.|.....+-+.+|+.|+..+..+..++.+
T Consensus 20 tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~ 51 (68)
T PRK00295 20 TIQALNDVLVEQQRVIERLQLQMAALIKRQEE 51 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444444444443
No 93
>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=65.79 E-value=13 Score=17.26 Aligned_cols=16 Identities=19% Similarity=0.501 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSI 46 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i 46 (72)
.+...|..|+.++..|
T Consensus 5 rlr~rI~dLer~L~~C 20 (23)
T PF04508_consen 5 RLRNRISDLERQLSEC 20 (23)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444455555544444
No 94
>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=65.60 E-value=29 Score=21.30 Aligned_cols=47 Identities=19% Similarity=0.364 Sum_probs=29.3
Q ss_pred cceeecchhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 11 EIFVDLIKRNSEK-SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 11 e~Fv~l~~e~a~e-~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.++|++-..-.-+ -+++..+-++..++.|+..++.+...+..|+..+
T Consensus 70 ~v~v~iG~g~~vE~~~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~ 117 (129)
T cd00584 70 KVLVDLGTGYYVEKDLEEAIEFLDKKIEELTKQIEKLQKELAKLKDQI 117 (129)
T ss_pred EEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444443333 5666667777777777777777777777776654
No 95
>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=65.54 E-value=34 Score=22.04 Aligned_cols=34 Identities=12% Similarity=0.297 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.+|.....++..+..|+.+++.+...+.++|..|
T Consensus 32 ~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~l 65 (143)
T PF12718_consen 32 QKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKL 65 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555666666666666666667776666654
No 96
>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=65.26 E-value=38 Score=22.74 Aligned_cols=29 Identities=14% Similarity=0.352 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 29 RQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 29 ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
...++.++.+|..+.+.+..+...|+..+
T Consensus 106 ~~~l~~e~~~l~~~~e~Le~e~~~L~~~~ 134 (161)
T TIGR02894 106 NERLKNQNESLQKRNEELEKELEKLRQRL 134 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555555554433
No 97
>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=65.03 E-value=32 Score=21.57 Aligned_cols=30 Identities=30% Similarity=0.391 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.+..+..-..++..+......+.+||..|
T Consensus 75 e~e~Y~~~~~~i~~~i~~~k~~ie~lk~~L 104 (139)
T PF05615_consen 75 ERENYEQLNEEIEQEIEQAKKEIEELKEEL 104 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444455555555444
No 98
>PF06386 GvpL_GvpF: Gas vesicle synthesis protein GvpL/GvpF; InterPro: IPR009430 Gas vesicles provide cells with buoyancy, enabling them to remain at the water surface. These organelles are generally synthesized by halophilic archaea and cyanobacteria, as well as some other prokaryotes. A cluster of 12-14 gvp genes (gvpMLKJIHGFEDACNO)is responsible for gas vesicle synthesis in Halobacterium sp. []. GvpF and GvpL are essential for gas vesicle formation and display sequence similarity to one another, both containing predicted coiled-coil domains that are often involved in self-oligomerisation; and are structural components of the vesicle [].; GO: 0031412 gas vesicle organization, 0031411 gas vesicle
Probab=64.86 E-value=9.7 Score=26.13 Aligned_cols=38 Identities=16% Similarity=0.242 Sum_probs=33.4
Q ss_pred cccccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 3 RVERNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQT 42 (72)
Q Consensus 3 ~~v~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~e 42 (72)
..+|+++|.+| -+.+.+.+.|......+.+.+++|...
T Consensus 77 tvLP~rFGtv~--~~~~~l~~~L~~~~~~~~~~L~~l~g~ 114 (249)
T PF06386_consen 77 TVLPMRFGTVF--SSEEELRELLAENYDEFRAALDRLEGK 114 (249)
T ss_pred CeeeeeCcccc--CCHHHHHHHHHHhHHHHHHHHHHcCCc
Confidence 46899999999 778999999999999999999888654
No 99
>KOG3901|consensus
Probab=64.73 E-value=6.2 Score=24.87 Aligned_cols=18 Identities=28% Similarity=0.746 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHhhhCCCcc
Q psy15717 48 TVMSDLKTHLYAKFGNHIK 66 (72)
Q Consensus 48 ~~m~eLK~~LYakFG~~In 66 (72)
-=+.+||+.+|| ||+-.|
T Consensus 10 lF~Kdl~~mmYg-fGDd~n 27 (109)
T KOG3901|consen 10 LFSKDLRSMMYG-FGDDVN 27 (109)
T ss_pred HHHHHHHHHHHh-cCCCCC
Confidence 346899999998 998766
No 100
>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=64.42 E-value=24 Score=22.80 Aligned_cols=27 Identities=19% Similarity=0.358 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~ 49 (72)
+.|+.....-+.+|..|+.+++++...
T Consensus 97 ~kLe~e~~~Kdsei~~Lr~~L~~~~~~ 123 (131)
T PF04859_consen 97 KKLEAELRAKDSEIDRLREKLDELNRA 123 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444433
No 101
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=64.08 E-value=32 Score=21.23 Aligned_cols=32 Identities=28% Similarity=0.453 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.+++.......++++++..+.....++..||.
T Consensus 84 ~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk~ 115 (118)
T PF13815_consen 84 QLEERLQELQQEIEKLKQKLKKQKEEIKKLKK 115 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444445555555555555555555554
No 102
>PRK11637 AmiB activator; Provisional
Probab=63.92 E-value=42 Score=24.86 Aligned_cols=35 Identities=14% Similarity=0.297 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
++.....++.+|..++.+++.....+..+...+|.
T Consensus 101 ~~~ei~~l~~eI~~~q~~l~~~~~~l~~rlra~Y~ 135 (428)
T PRK11637 101 LNKQIDELNASIAKLEQQQAAQERLLAAQLDAAFR 135 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444555555555555555555555555554
No 103
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.82 E-value=36 Score=24.49 Aligned_cols=24 Identities=25% Similarity=0.628 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIK 47 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~ 47 (72)
.+.+.+..++.+|+.|..+++++.
T Consensus 42 ~~~~~~~~~q~ei~~L~~qi~~~~ 65 (265)
T COG3883 42 ELQKEKKNIQNEIESLDNQIEEIQ 65 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444433333333
No 104
>PRK14160 heat shock protein GrpE; Provisional
Probab=63.63 E-value=31 Score=23.92 Aligned_cols=36 Identities=19% Similarity=0.306 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.+.-+...+.++.++..|+.++..+..+..+||-.+
T Consensus 49 ~~~~~~~~~~l~~e~~~l~~~l~~l~~e~~elkd~~ 84 (211)
T PRK14160 49 EESNEVKIEELKDENNKLKEENKKLENELEALKDRL 84 (211)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344455566666666666666666666665443
No 105
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole 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. 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.
Probab=63.49 E-value=26 Score=20.14 Aligned_cols=39 Identities=15% Similarity=0.375 Sum_probs=20.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
..+...|-.....++..+..+...+......+..|+..|
T Consensus 32 ~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~l 70 (74)
T PF12329_consen 32 NNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEERL 70 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334444555555555555555555555555555555444
No 106
>PF02096 60KD_IMP: 60Kd inner membrane protein; InterPro: IPR001708 This family of proteins is required for the insertion of integral membrane proteins into cellular membranes. Many of these integral membrane proteins are associated with respiratory chain complexes, for example a large number of members of this family play an essential role in the activity and assembly of cytochrome c oxidase. Stage III sporulation protein J (SP3J) is a probable lipoprotein, rich in basic and hydrophobic amino acids. Mutations in the protein abolish the transcription of prespore-specific genes transcribed by the sigma G form of RNA polymerase []. SP3J could be involved in a signal transduction pathway coupling gene expression in the prespore to events in the mother cell, or it may be necessary for essential metabolic interactions between the two cells []. The protein shows a high degree of similarity to Bacillus subtilis YQJG, to yeast OXA1 and also to bacterial 60 kDa inner-membrane proteins [, , , ]. ; GO: 0051205 protein insertion into membrane, 0016021 integral to membrane
Probab=63.32 E-value=40 Score=22.10 Aligned_cols=42 Identities=17% Similarity=0.317 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
.+.+-.+....++-++++++++..+-..++..-...||.|.|
T Consensus 24 ~~~~~~~k~~~~~P~l~~i~~k~~~~~~~~~~~~~~l~k~~~ 65 (198)
T PF02096_consen 24 KQQRSSAKMQELQPELKEIQEKYKEDQQKMQQEMQKLYKKHG 65 (198)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHcC
Confidence 344444666678888889998888777788888888999987
No 107
>PF05600 DUF773: Protein of unknown function (DUF773); InterPro: IPR008491 This family contains several eukaryotic sequences which are thought to be CDK5 activator-binding proteins, however, the function of this family is unknown.
Probab=63.24 E-value=43 Score=25.95 Aligned_cols=47 Identities=19% Similarity=0.460 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----hh-CCCccC
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA----KF-GNHIKL 67 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa----kF-G~~InL 67 (72)
..+.++....++..++.+++.+++.+..+=++||+.+=+ +| |..|||
T Consensus 454 ~~~~l~~kr~e~~~e~~~l~pkL~~l~~~Tr~Lq~~iE~~ISk~y~gR~Vni 505 (507)
T PF05600_consen 454 KREDLEEKRQEAQEEQQELEPKLDALVERTRELQKQIEADISKRYKGRPVNI 505 (507)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeec
Confidence 345567777788889999999999999999999987644 67 445665
No 108
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=63.19 E-value=33 Score=21.95 Aligned_cols=39 Identities=10% Similarity=0.269 Sum_probs=21.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
...|...|.+..+.++..+++..+-.+.+.+++.+++..
T Consensus 59 l~~tKkhLsqRId~vd~klDe~~ei~~~i~~eV~~v~~d 97 (126)
T PF07889_consen 59 LSSTKKHLSQRIDRVDDKLDEQKEISKQIKDEVTEVRED 97 (126)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhh
Confidence 344555555555555555555555555555555555543
No 109
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=63.03 E-value=35 Score=21.33 Aligned_cols=34 Identities=12% Similarity=0.366 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
-+++..+-++..++.|+..++.+...+..++..+
T Consensus 91 ~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~ 124 (140)
T PRK03947 91 DLDEAIEILDKRKEELEKALEKLEEALQKLASRI 124 (140)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666777777777777777777777776654
No 110
>PRK12765 flagellar capping protein; Provisional
Probab=62.94 E-value=20 Score=28.23 Aligned_cols=37 Identities=14% Similarity=0.282 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
|....+.++.+++.|.++.+..+.+|..+...|+.+|
T Consensus 530 l~~~~~~l~~~~~~l~~~~~~~~~rl~~~~~r~~~qf 566 (595)
T PRK12765 530 LTKYDESLTNEIKSLTTSKESTQELIDTKYETMANKW 566 (595)
T ss_pred chhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666777777777777777777777777777776
No 111
>cd08637 DNA_pol_A_pol_I_C Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Family A polymerase (polymerase I) functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I (pol I) ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuc
Probab=62.46 E-value=20 Score=26.42 Aligned_cols=40 Identities=23% Similarity=0.430 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHhhhC
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTV------MSDLKTHLYAKFG 62 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~------m~eLK~~LYakFG 62 (72)
+.|.+.++++.++++++++++-.+-.. =.++...||.++|
T Consensus 3 ~~l~~~~~~~~~~~~~l~~~~~~l~g~~fn~~S~~qv~~~L~~~lg 48 (377)
T cd08637 3 EYLEELSEELEKELAELEEEIYELAGEEFNINSPKQLGEVLFEKLG 48 (377)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHhCC
Confidence 456666777777777777777654332 1467777887776
No 112
>PRK04406 hypothetical protein; Provisional
Probab=62.23 E-value=29 Score=20.15 Aligned_cols=24 Identities=4% Similarity=0.169 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 32 IKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 32 l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
+...|-+...+++.+..++..|+.
T Consensus 30 LN~~v~~Qq~~I~~L~~ql~~L~~ 53 (75)
T PRK04406 30 LNDALSQQQLLITKMQDQMKYVVG 53 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333444444444433
No 113
>PRK10884 SH3 domain-containing protein; Provisional
Probab=61.49 E-value=50 Score=22.64 Aligned_cols=30 Identities=17% Similarity=0.356 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
|+++..++.+++..++++.+.+..+...++
T Consensus 137 L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~ 166 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKKVDAANLQLDDKQ 166 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444444444444444
No 114
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=61.43 E-value=52 Score=26.01 Aligned_cols=31 Identities=10% Similarity=0.354 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 27 ESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 27 ~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.++.+.+....|+.+...+..++..|++.|
T Consensus 150 kE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL 180 (546)
T PF07888_consen 150 KEKEELLKENEQLEEEVEQLREEVERLEAEL 180 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555555555555554444
No 115
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=61.38 E-value=37 Score=23.49 Aligned_cols=38 Identities=18% Similarity=0.344 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhh
Q psy15717 23 KSLEESRQNIKSDIASIEQTMS---SIKTVMSDLKTHLYAK 60 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~---~i~~~m~eLK~~LYak 60 (72)
..+.++.+++++++..|+.+.. .+..+..+||..|--+
T Consensus 72 ~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~~ 112 (276)
T PRK13922 72 FDLREENEELKKELLELESRLQELEQLEAENARLRELLNLK 112 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 3556666777777777777666 6677778888877443
No 116
>PF11641 Antigen_Bd37: Glycosylphosphatidylinositol-anchored merozoite surface protein; InterPro: IPR021669 This family of proteins represents the core region of Bd37, a surface antigen of B.divergens which is GPI-anchored at the surface of the merozoite. The structure of the protein consists of mainly alpha folds and has three sub domains []. ; PDB: 2JO7_A.
Probab=61.33 E-value=17 Score=25.43 Aligned_cols=28 Identities=25% Similarity=0.551 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhCCC
Q psy15717 34 SDIASIEQTMSSIKTVMSDLKTHLYAKFGNH 64 (72)
Q Consensus 34 ~ei~~L~~el~~i~~~m~eLK~~LYakFG~~ 64 (72)
.++..|-.++-+.+.+|-+| ||+.||+.
T Consensus 197 ~elk~Lia~lI~~Re~mMDL---lYGpiGh~ 224 (224)
T PF11641_consen 197 TELKTLIAELIEQREKMMDL---LYGPIGHH 224 (224)
T ss_dssp HHHHHHHHHHHHHHHHHHHH---HH--SS--
T ss_pred HHHHHHHHHHHHHHHHHHHH---hcCCcCCC
Confidence 34555555555555555554 89999973
No 117
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=61.33 E-value=33 Score=23.05 Aligned_cols=26 Identities=19% Similarity=0.469 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
..+..+|..|+.+...+..++.+|+.
T Consensus 123 ~~l~~~i~~L~~e~~~L~~~~~~l~~ 148 (189)
T PF10211_consen 123 QELEEEIEELEEEKEELEKQVQELKN 148 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444555555555555555554443
No 118
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=61.31 E-value=36 Score=25.65 Aligned_cols=37 Identities=30% Similarity=0.448 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
+..|++...++.+++..+..++.++..++.+++..|=
T Consensus 330 e~~l~~~E~~l~~e~~~~n~~Le~~~~~l~~~e~~l~ 366 (373)
T COG5019 330 EKRLEELEQNLIEERKELNSKLEEIQKKLEDLEKRLE 366 (373)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577788888889999999999999999999988774
No 119
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=60.98 E-value=29 Score=20.58 Aligned_cols=35 Identities=17% Similarity=0.358 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
+.....++=.+|.-++.++-..+..+.+|+..||.
T Consensus 52 lp~~~keLL~EIA~lE~eV~~LE~~v~~L~~~l~~ 86 (88)
T PF14389_consen 52 LPKKAKELLEEIALLEAEVAKLEQKVLSLYRQLFQ 86 (88)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444455568888888888888888888888874
No 120
>PRK15335 type III secretion system protein SpaM; Provisional
Probab=60.91 E-value=45 Score=21.91 Aligned_cols=43 Identities=12% Similarity=0.010 Sum_probs=37.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYak 60 (72)
+.-++..++....++..+=..|..+.+.|..+-.-||..||+-
T Consensus 14 C~~~qsrC~~~l~q~~~~e~~ld~e~Eai~~q~agLk~LL~~~ 56 (147)
T PRK15335 14 CTVFHSQCESILLRYQDEDRGLQAEEEAILEQIAGLKLLLDTL 56 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHh
Confidence 4556778888888999999999999999999999999999975
No 121
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=60.79 E-value=55 Score=25.65 Aligned_cols=36 Identities=8% Similarity=0.162 Sum_probs=19.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
..++-+.+++..++++++++.+++++.++......+
T Consensus 213 p~~~l~~l~~~l~~l~~~~~~~~~~l~~~~~~~~~~ 248 (646)
T PRK05771 213 PSELIREIKEELEEIEKERESLLEELKELAKKYLEE 248 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555555555555555544433
No 122
>PRK02119 hypothetical protein; Provisional
Probab=60.67 E-value=30 Score=19.89 Aligned_cols=25 Identities=0% Similarity=0.163 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.+...+-+....++.+..++..|..
T Consensus 27 ~LN~~v~~Qq~~id~L~~ql~~L~~ 51 (73)
T PRK02119 27 ELNQALIEQQFVIDKMQVQLRYMAN 51 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333444444443333
No 123
>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=60.66 E-value=2.8 Score=25.98 Aligned_cols=33 Identities=18% Similarity=0.512 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
|+..+-++.+++..|+.++..+..++.+||..|
T Consensus 4 Ld~~k~~laK~~~~LE~~l~~l~~el~~L~~~l 36 (118)
T PF08286_consen 4 LDNEKFRLAKELSDLESELESLQSELEELKEEL 36 (118)
T ss_dssp ---------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555555555555555544
No 124
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole 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. 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.
Probab=60.55 E-value=30 Score=19.87 Aligned_cols=35 Identities=14% Similarity=0.385 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.|....-+...-|.+|+..+.+....+.+|+..+
T Consensus 22 ekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~ 56 (74)
T PF12329_consen 22 EKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKL 56 (74)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555556666677777777777777777776544
No 125
>KOG3048|consensus
Probab=60.00 E-value=49 Score=22.03 Aligned_cols=51 Identities=10% Similarity=0.146 Sum_probs=39.7
Q ss_pred ccccccccc-ceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 3 RVERNGAGE-IFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 3 ~~v~y~iGe-~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
.+++.-||. -||.-+.+.|..+..+..+-+.+.++.++.-+.+....-...
T Consensus 83 ~k~lVDIGTGYyVEK~~e~akdyfkRKve~l~kq~e~i~~i~~eK~~~~~~v 134 (153)
T KOG3048|consen 83 SKFLVDIGTGYYVEKDAEDAKDYFKRKVEYLTKQIEQIEGILKEKTRTRASV 134 (153)
T ss_pred cceeEeccCceEEeechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566775 489999999999999999999999999988777655444333
No 126
>PRK00846 hypothetical protein; Provisional
Probab=59.63 E-value=34 Score=20.15 Aligned_cols=35 Identities=9% Similarity=0.108 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
.+.+.|.....+.+..|+.|+..+.-+..++.++.
T Consensus 27 ~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~ 61 (77)
T PRK00846 27 QALTELSEALADARLTGARNAELIRHLLEDLGKVR 61 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34444444444455555555555555555444443
No 127
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=59.54 E-value=38 Score=20.70 Aligned_cols=35 Identities=11% Similarity=0.105 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.-..+.+..+.+++++++++.+-..+..+...||.
T Consensus 28 ~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 28 DYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 34456666777777777777777777777777765
No 128
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=58.91 E-value=22 Score=26.08 Aligned_cols=29 Identities=21% Similarity=0.381 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
.++..+.+-++.+.+-+.+..+||.+||-
T Consensus 72 HLkakLkes~~~l~dRetEI~eLksQL~R 100 (305)
T PF15290_consen 72 HLKAKLKESENRLHDRETEIDELKSQLAR 100 (305)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 45666666666777778888899999884
No 129
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=58.90 E-value=36 Score=20.25 Aligned_cols=31 Identities=10% Similarity=0.288 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
+.|.++.++....|..++..++.+..+..++
T Consensus 4 eKi~~eieK~k~Kiae~Q~rlK~Le~qk~E~ 34 (83)
T PF14193_consen 4 EKIRAEIEKTKEKIAELQARLKELEAQKTEA 34 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777788888888888888887776654
No 130
>PF06720 Phi-29_GP16_7: Bacteriophage phi-29 early protein GP16.7; InterPro: IPR009595 The early-expressed gene 16.7 is conserved in bacteriophage phi-29 and related phages. It encodes a membrane protein, GP16.7, consisting of an N-terminal transmembrane domain and a C-terminal DNA-binding and dimerisation domain. GP16.7 plays an important role in organising membrane-associated bacteriophage DNA replication [, ]. The C-terminal domain has a similar secondary structure similar to homeodomains, but forms a fundamentally different tertiary structure consisting of a six-helical dimeric fold []. Multimerisation of this dimer leads to efficient DNA binding.; PDB: 2C5R_B 2BNK_A 1ZAE_B.
Probab=58.62 E-value=4.3 Score=26.04 Aligned_cols=39 Identities=15% Similarity=0.439 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hCCCccCCC
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHLYAK-FGNHIKLEA 69 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~LYak-FG~~InLe~ 69 (72)
.++..|+.|..........+++|--++|++ .|++||+-.
T Consensus 31 e~edyiEdL~k~i~q~~qil~elne~i~nR~id~t~~~s~ 70 (130)
T PF06720_consen 31 ELEDYIEDLNKRIQQRTQILSELNEVIYNRSIDKTVNLSA 70 (130)
T ss_dssp --------------------------------SS-SSS-H
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCcchhHHH
Confidence 455668888888888888899999999987 788888753
No 131
>PTZ00464 SNF-7-like protein; Provisional
Probab=58.31 E-value=58 Score=22.41 Aligned_cols=38 Identities=11% Similarity=0.211 Sum_probs=29.7
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
.+..++...|....+.+++.|.++..++...+..+...
T Consensus 14 ~t~~d~~~~l~~r~~~l~kKi~~ld~E~~~ak~~~k~~ 51 (211)
T PTZ00464 14 PTLEDASKRIGGRSEVVDARINKIDAELMKLKEQIQRT 51 (211)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45677778888888899999988888877777666433
No 132
>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=58.13 E-value=53 Score=22.05 Aligned_cols=43 Identities=7% Similarity=0.298 Sum_probs=24.8
Q ss_pred cceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 11 EIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 11 e~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
..|-++|.... ..+....++++++++.++.++..+..++..+|
T Consensus 54 n~YWsFps~~~-~~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~ 96 (188)
T PF03962_consen 54 NYYWSFPSQAK-QKRQNKLEKLQKEIEELEKKIEELEEKIEEAK 96 (188)
T ss_pred eEEEecChHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556665443 34555555666666666666666666655554
No 133
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=57.87 E-value=17 Score=20.03 Aligned_cols=37 Identities=14% Similarity=0.320 Sum_probs=17.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.+.+.+.......+-.+|+.....+++++..+.+|..
T Consensus 13 ~qmq~kFq~mS~~I~~riDeM~~RIDdLE~si~dl~~ 49 (54)
T PF06825_consen 13 QQMQDKFQTMSDQILGRIDEMSSRIDDLEKSIADLMT 49 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 3344444444444555566666666666666665543
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=57.86 E-value=39 Score=20.28 Aligned_cols=32 Identities=13% Similarity=0.307 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m 50 (72)
+.+...+....+.++.++..++...+.+...+
T Consensus 74 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l 105 (108)
T cd01107 74 DELRKLLREKLAELEAEIEELQRILRLLEDRL 105 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677777777777777777777666665544
No 135
>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=57.82 E-value=32 Score=19.21 Aligned_cols=27 Identities=11% Similarity=0.426 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+|..+|..|..+++.+...++.|+...
T Consensus 7 ~Ls~dVq~L~~kvdqLs~dv~~lr~~v 33 (56)
T PF04728_consen 7 QLSSDVQTLNSKVDQLSSDVNALRADV 33 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444444444443
No 136
>PRK11637 AmiB activator; Provisional
Probab=57.73 E-value=63 Score=23.93 Aligned_cols=12 Identities=8% Similarity=0.454 Sum_probs=4.3
Q ss_pred HHHHHHHHHHHH
Q psy15717 35 DIASIEQTMSSI 46 (72)
Q Consensus 35 ei~~L~~el~~i 46 (72)
+|+.++.++...
T Consensus 104 ei~~l~~eI~~~ 115 (428)
T PRK11637 104 QIDELNASIAKL 115 (428)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 137
>KOG2266|consensus
Probab=57.52 E-value=17 Score=28.70 Aligned_cols=36 Identities=31% Similarity=0.450 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCccCC
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNHIKLE 68 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~InLe 68 (72)
+|..-|.+|-...+=-...|..+=+.||++|| |.|-
T Consensus 524 elk~~V~kILk~vdfntaTm~dIlKkl~~~f~--~dLt 559 (594)
T KOG2266|consen 524 ELKEVVKKILKEVDFNTATMKDILKKLYAKFP--IDLT 559 (594)
T ss_pred HHHHHHHHHHHhcCcchhhHHHHHHHHHHhCC--cccc
Confidence 45555666666666667789999999999999 8884
No 138
>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=57.26 E-value=11 Score=29.30 Aligned_cols=27 Identities=4% Similarity=0.250 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
..++|+++|++|+++++++..+++...
T Consensus 32 kie~L~kql~~Lk~q~~~l~~~v~k~e 58 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDLNDRVDKVE 58 (489)
T ss_pred HHHHHHHHHHHHHHhhcccccccchhh
Confidence 455566666666666555555544443
No 139
>KOG4010|consensus
Probab=57.04 E-value=29 Score=24.06 Aligned_cols=30 Identities=20% Similarity=0.565 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMS 51 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~ 51 (72)
.-+=++.++++..++.++++++..++..++
T Consensus 39 ~~LSe~Ekeelr~EL~kvEeEI~TLrqVLa 68 (208)
T KOG4010|consen 39 EALSEEEKEELRTELAKVEEEIVTLRQVLA 68 (208)
T ss_pred hhhcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334456666666666666665555444443
No 140
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=56.88 E-value=35 Score=21.62 Aligned_cols=24 Identities=21% Similarity=0.491 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 34 SDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 34 ~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
..+..++..+.+.-.+++.||.+|
T Consensus 8 d~v~~le~~l~~l~~el~~lK~~l 31 (114)
T COG4467 8 DQVDNLEEQLGVLLAELGGLKQHL 31 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444445555555555444
No 141
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=56.80 E-value=45 Score=20.64 Aligned_cols=35 Identities=11% Similarity=0.237 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
...+..+.+..+++++.|..+-..++.++..|+..
T Consensus 52 ~~~l~~qi~~~~~e~~~L~~~~~~l~~ei~~L~dg 86 (117)
T COG2919 52 VLQLQRQIAAQQAELEKLSARNTALEAEIKDLKDG 86 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 34566667788888888888888888888887754
No 142
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.78 E-value=37 Score=22.19 Aligned_cols=50 Identities=14% Similarity=0.191 Sum_probs=37.6
Q ss_pred cccccceeecchhHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 7 NGAGEIFVDLIKRNSEK--SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 7 y~iGe~Fv~l~~e~a~e--~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.-||-.|+.+....+.. .++...++++..++.-+.++...=++-.+|=+.
T Consensus 19 i~IG~li~Rlt~~~~k~q~~~q~ELe~~K~~ld~~rqel~~HFa~sAeLlkt 70 (138)
T COG3105 19 IIIGALIARLTNRKLKQQQKLQYELEKVKAQLDEYRQELVKHFARSAELLKT 70 (138)
T ss_pred HHHHHHHHHHcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35788888888877766 777778888888888888877777777776543
No 143
>COG2825 HlpA Outer membrane protein [Cell envelope biogenesis, outer membrane]
Probab=56.64 E-value=28 Score=23.09 Aligned_cols=45 Identities=13% Similarity=0.310 Sum_probs=33.1
Q ss_pred ccccceeecchh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 8 GAGEIFVDLIKR-NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 8 ~iGe~Fv~l~~e-~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
-.|-||.+.|.. .+...|+........++.+++.++..+...+.+
T Consensus 31 n~~~i~~~~~~~k~~~~~le~~f~~~~~~lq~~~~el~~~~~kL~~ 76 (170)
T COG2825 31 NLGRIFQESPQAKKVSADLESEFKKRQKELQKMQKELKAKEAKLQD 76 (170)
T ss_pred cHHHHHHHcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 367788888887 555678888888888877777777777666653
No 144
>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=56.36 E-value=34 Score=19.17 Aligned_cols=38 Identities=18% Similarity=0.247 Sum_probs=26.3
Q ss_pred ccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 8 GAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 8 ~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~ 49 (72)
.||.-.=.++.++..+++. .++.||..++..+......
T Consensus 13 ~ig~dLs~lSv~EL~~RIa----~L~aEI~R~~~~~~~K~a~ 50 (59)
T PF06698_consen 13 EIGEDLSLLSVEELEERIA----LLEAEIARLEAAIAKKSAS 50 (59)
T ss_pred ccCCCchhcCHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence 4566666666666666555 8888888888887766544
No 145
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=55.05 E-value=13 Score=21.44 Aligned_cols=17 Identities=29% Similarity=0.219 Sum_probs=13.6
Q ss_pred HHHHHHHHHhhhCCCcc
Q psy15717 50 MSDLKTHLYAKFGNHIK 66 (72)
Q Consensus 50 m~eLK~~LYakFG~~In 66 (72)
..+||..||..||-..+
T Consensus 26 v~eLK~kl~~~~Gi~~~ 42 (87)
T PF14560_consen 26 VSELKQKLEKLTGIPPS 42 (87)
T ss_dssp HHHHHHHHHHHHTS-TT
T ss_pred HHHHHHHHHHHhCCCcc
Confidence 67999999999997543
No 146
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=55.03 E-value=55 Score=25.92 Aligned_cols=34 Identities=21% Similarity=0.434 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
..|++..+.++.++++|+.++.....+|..|+..
T Consensus 160 ~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~ 193 (546)
T PF07888_consen 160 EQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQ 193 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666667777777777777777776654
No 147
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=54.75 E-value=68 Score=23.05 Aligned_cols=34 Identities=12% Similarity=0.271 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.++.....++..|+++.++...+..+++++++.+
T Consensus 234 el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~~ 267 (325)
T PF08317_consen 234 ELQEELEELEEKIEELEEQKQELLAEIAEAEKIR 267 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555555555555555555555555443
No 148
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=54.74 E-value=64 Score=22.63 Aligned_cols=37 Identities=16% Similarity=0.331 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhh
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKT---HLYAK 60 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~---~LYak 60 (72)
.|....+.++.+|.+|+..++...-++..++. .||..
T Consensus 58 ~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~rq~~~y~d 97 (263)
T PRK10803 58 QLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQIYLQ 97 (263)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566677788888888888888877777774 45644
No 149
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=54.52 E-value=59 Score=21.27 Aligned_cols=35 Identities=14% Similarity=0.359 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
.||........+++.+..+.+.+..++..|+..+=
T Consensus 43 ~lE~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 77 (151)
T PF14584_consen 43 NLEDLLNELFDQIDELKEELEELEKRIEELEEKLR 77 (151)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666667788888888888888888888887664
No 150
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=54.41 E-value=43 Score=19.74 Aligned_cols=29 Identities=7% Similarity=0.406 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
...++++++..++.++..+..++.-++..
T Consensus 71 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~ 99 (104)
T PF13600_consen 71 ELKELEEELEALEDELAALQDEIQALEAQ 99 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455555555555555555555555544
No 151
>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=54.31 E-value=69 Score=22.01 Aligned_cols=33 Identities=24% Similarity=0.386 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
++...+..+++++.|+.+++.+.....+|--.+
T Consensus 75 l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m 107 (251)
T PF11932_consen 75 LERQVASQEQELASLEQQIEQIEETRQELVPLM 107 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444444444433
No 152
>PF04822 Takusan: Takusan; InterPro: IPR006907 This family includes several uncharacterised muridae (mouse and rat) proteins.
Probab=53.78 E-value=46 Score=19.87 Aligned_cols=30 Identities=13% Similarity=0.244 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-hhhCC
Q psy15717 34 SDIASIEQTMSSIKTVMSDLKTHLY-AKFGN 63 (72)
Q Consensus 34 ~ei~~L~~el~~i~~~m~eLK~~LY-akFG~ 63 (72)
++++.|.-++..+..+.+||+..|= ...|+
T Consensus 19 k~lE~L~~eL~~it~ERnELr~~L~~~~~~~ 49 (84)
T PF04822_consen 19 KELERLKFELQKITKERNELRDILALYTEGS 49 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 6778888899999999999988873 44444
No 153
>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=53.76 E-value=47 Score=19.96 Aligned_cols=27 Identities=26% Similarity=0.496 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIK 47 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~ 47 (72)
....|+.....++.+|..|+..+..+.
T Consensus 80 ~~~~l~~~~~~l~~~i~~l~~~~~~l~ 106 (113)
T cd01109 80 RLELLEEHREELEEQIAELQETLAYLD 106 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444433
No 154
>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=53.75 E-value=16 Score=23.18 Aligned_cols=25 Identities=4% Similarity=0.338 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
+..+.+++.|+.++.++..++.+++
T Consensus 108 ~~~~~~l~~L~~~i~~L~~~~~~~~ 132 (134)
T PF07047_consen 108 EELQERLEELEERIEELEEQVEKQQ 132 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455666666666666666665554
No 155
>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=53.60 E-value=45 Score=19.70 Aligned_cols=12 Identities=8% Similarity=0.227 Sum_probs=5.7
Q ss_pred cchhHHHHHHHH
Q psy15717 16 LIKRNSEKSLEE 27 (72)
Q Consensus 16 l~~e~a~e~LE~ 27 (72)
+|.+++.+.+..
T Consensus 58 ~~l~~i~~~~~~ 69 (103)
T cd01106 58 FSLKEIKELLKD 69 (103)
T ss_pred CCHHHHHHHHHc
Confidence 444455554443
No 156
>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=53.48 E-value=39 Score=18.99 Aligned_cols=31 Identities=23% Similarity=0.382 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.+......+.....|..+++.+..+|.+++.
T Consensus 30 ~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r~ 60 (61)
T PF08826_consen 30 FESKLQEAEKRNRELEQEIERLKKEMEELRS 60 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3444445566666777777777777776653
No 157
>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=53.28 E-value=15 Score=22.31 Aligned_cols=44 Identities=7% Similarity=0.197 Sum_probs=18.6
Q ss_pred cccceeecchhHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 9 AGEIFVDLIKRNSEKSLE---ESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 9 iGe~Fv~l~~e~a~e~LE---~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
|+-+|.=.+.+++-.+|+ .....+..++..|..++..+..++..
T Consensus 11 F~~~~rGYd~~eVD~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~ 57 (131)
T PF05103_consen 11 FKKSMRGYDPDEVDDFLDELAEELERLQRENAELKEEIEELQAQLEE 57 (131)
T ss_dssp --EEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCT---
T ss_pred cCCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 344455566666666655 22233334444444444443333333
No 158
>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=53.24 E-value=62 Score=21.70 Aligned_cols=32 Identities=9% Similarity=0.367 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
+.|+...++++.+++.|+.++..+..+...++
T Consensus 107 ~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~ 138 (161)
T TIGR02894 107 ERLKNQNESLQKRNEELEKELEKLRQRLSTIE 138 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555566666666666666666655555443
No 159
>PHA02562 46 endonuclease subunit; Provisional
Probab=53.05 E-value=76 Score=23.83 Aligned_cols=31 Identities=16% Similarity=0.275 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 27 ESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 27 ~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
...+.++++++.+..+...+..++..|+..|
T Consensus 213 ~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i 243 (562)
T PHA02562 213 ENIARKQNKYDELVEEAKTIKAEIEELTDEL 243 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555555666655555
No 160
>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=52.62 E-value=44 Score=19.34 Aligned_cols=32 Identities=19% Similarity=0.414 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.....++..++.++.+++.+...+..|...+
T Consensus 61 ~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l 92 (106)
T PF01920_consen 61 EEAIEELEERIEKLEKEIKKLEKQLKYLEKKL 92 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555555555554443
No 161
>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=52.49 E-value=57 Score=26.56 Aligned_cols=16 Identities=19% Similarity=0.092 Sum_probs=8.2
Q ss_pred ecchhHHHHHHHHHHH
Q psy15717 15 DLIKRNSEKSLEESRQ 30 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke 30 (72)
.++..+|+--|+=..-
T Consensus 404 ~ls~~QaeaIL~mrL~ 419 (735)
T TIGR01062 404 KLSAIQAEAILNLRLR 419 (735)
T ss_pred CCCHHHHHHHHHhHHH
Confidence 4566666554443333
No 162
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=52.32 E-value=52 Score=23.77 Aligned_cols=22 Identities=14% Similarity=0.428 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 32 IKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 32 l~~ei~~L~~el~~i~~~m~eL 53 (72)
.++++..+...+.++..+|++|
T Consensus 219 ~Eke~~e~~~~i~e~~~rl~~l 240 (269)
T PF05278_consen 219 KEKEVKEIKERITEMKGRLGEL 240 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444
No 163
>TIGR02977 phageshock_pspA phage shock protein A. Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.
Probab=52.06 E-value=72 Score=21.59 Aligned_cols=37 Identities=8% Similarity=0.351 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
..-..|+.....+...+.+|...+..++.++.++|..
T Consensus 99 ~~~~~l~~~~~~~~~~v~~l~~~l~~L~~ki~~~k~k 135 (219)
T TIGR02977 99 ELAEALERELAAVEETLAKLQEDIAKLQAKLAEARAR 135 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555566666666666666666666666666543
No 164
>PRK02654 putative inner membrane protein translocase component YidC; Provisional
Probab=52.04 E-value=23 Score=26.67 Aligned_cols=35 Identities=17% Similarity=0.237 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 29 RQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 29 ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
+=++++.+++++++.++-..+|++=-..||.++||
T Consensus 60 QPemqkk~~eIqeKYKdDpqk~QqEmmkLYKE~GN 94 (375)
T PRK02654 60 QPVMQKRQAEIQERYKNDPQKQQEEMGKLMKEFGN 94 (375)
T ss_pred CchhhhHHHHHHHHhcCCHHHHHHHHHHHHHHcCC
Confidence 33555566777777776667777777899999993
No 165
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=52.02 E-value=73 Score=22.82 Aligned_cols=37 Identities=11% Similarity=0.293 Sum_probs=20.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
...|...|.+-.++....+..|+.+++....+.....
T Consensus 65 l~~ak~eLqe~eek~e~~l~~Lq~ql~~l~akI~k~~ 101 (258)
T PF15397_consen 65 LQQAKAELQEWEEKEESKLSKLQQQLEQLDAKIQKTQ 101 (258)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666666666665555555555544433
No 166
>cd07624 BAR_SNX7_30 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 7 and 30. 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. This subfamily consists of SNX7, SNX30, and similar proteins. The specific functions of SNX7 and SNX30 have not been elucidated. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=51.87 E-value=48 Score=22.14 Aligned_cols=36 Identities=8% Similarity=0.224 Sum_probs=29.1
Q ss_pred ecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 15 DLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m 50 (72)
.+..+.+++.|.+...+++++|+..+...+.+...|
T Consensus 122 q~~~e~~~e~L~~k~~~l~~ev~~a~~~~e~~~~~~ 157 (200)
T cd07624 122 QIEYELSVEELNKKRLELLKEVEKLQDKLECANADL 157 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677888888888888999998888888877766
No 167
>PF06970 RepA_N: Replication initiator protein A (RepA) N-terminus; InterPro: IPR010724 This entry represents the N terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids []. Most proteins in this entry are bacterial, but archaeal and eukaryotic members are also included.
Probab=51.72 E-value=11 Score=21.92 Aligned_cols=27 Identities=11% Similarity=0.217 Sum_probs=21.5
Q ss_pred cccceeecchhHHHHHHHHHHHHHHHH
Q psy15717 9 AGEIFVDLIKRNSEKSLEESRQNIKSD 35 (72)
Q Consensus 9 iGe~Fv~l~~e~a~e~LE~~ke~l~~e 35 (72)
=|.+|+..+.++..+.|-..+..+.+-
T Consensus 46 ~G~vYi~~s~eel~~~L~~s~~tv~~~ 72 (76)
T PF06970_consen 46 NGNVYIIFSIEELMELLNCSKSTVIKA 72 (76)
T ss_pred CCCEEEEeeHHHHHHHHCCCHHHHHHH
Confidence 389999999999999988766555443
No 168
>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=51.70 E-value=32 Score=21.54 Aligned_cols=39 Identities=13% Similarity=0.270 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
.+...|++...+++.+++++..++......-..=++..|
T Consensus 8 ~~~~~L~~~~~~le~~i~~~~~~~k~~~~~~~~~~A~~~ 46 (171)
T PF03357_consen 8 KTIRRLEKQIKRLEKKIKKLEKKAKKAIKKGNKERAKIY 46 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHCHHHHHHHHCTT-HHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence 445556666666666666666555555444333333333
No 169
>PF15458 NTR2: Nineteen complex-related protein 2
Probab=51.67 E-value=63 Score=22.67 Aligned_cols=47 Identities=26% Similarity=0.345 Sum_probs=32.4
Q ss_pred cccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 9 AGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 9 iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+++|+ -........++..+..+...++.|..+...|..+-.+|...|
T Consensus 206 L~~~~--~rL~~~l~~le~~~~~~~~~l~~l~~E~~~I~~re~elq~~l 252 (254)
T PF15458_consen 206 LSECL--ERLRESLSSLEDSKSQLQQQLESLEKEKEEIEEREKELQELL 252 (254)
T ss_pred hhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45555 233444556677777788888888888888888877777655
No 170
>PF15205 PLAC9: Placenta-specific protein 9
Probab=51.48 E-value=48 Score=19.40 Aligned_cols=39 Identities=10% Similarity=0.265 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
-..+.+|.-.-+.+++-++.|+++++.+-..+.+|--.|
T Consensus 21 mav~~RLdviEe~veKTVEhLeaEvk~LLg~leelawnl 59 (74)
T PF15205_consen 21 MAVHSRLDVIEETVEKTVEHLEAEVKGLLGLLEELAWNL 59 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 345677777778888888888888888888888775443
No 171
>PRK02201 putative inner membrane protein translocase component YidC; Provisional
Probab=51.10 E-value=46 Score=24.78 Aligned_cols=47 Identities=15% Similarity=0.157 Sum_probs=33.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHhhhCC
Q psy15717 17 IKRNSEKSLEESRQNIKSDIASIEQTMSSI------KTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 17 ~~e~a~e~LE~~ke~l~~ei~~L~~el~~i------~~~m~eLK~~LYakFG~ 63 (72)
|..-.+-.-.+...+++-++++++++.++. ..+++.--..||.+.|=
T Consensus 150 Pl~~k~~~s~~km~~lqPel~~Iq~Kyk~~~~d~~~~~k~q~e~~~Lykk~gi 202 (357)
T PRK02201 150 LITFKSTFNQEKQEELQGKKAKIDAKYKDYKKDKQMKQRKQQEIQELYKKHNI 202 (357)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHcCC
Confidence 344444455566667888899998888766 55666666789999873
No 172
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=51.08 E-value=47 Score=19.17 Aligned_cols=44 Identities=7% Similarity=0.213 Sum_probs=29.5
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 17 IKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 17 ~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYak 60 (72)
+..++...+.+....++.+++.+..+...+..+.+++....-.|
T Consensus 23 ~l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k 66 (90)
T PF06103_consen 23 KLKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEK 66 (90)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566666777777777777777777777777776554433
No 173
>KOG0250|consensus
Probab=51.01 E-value=70 Score=27.40 Aligned_cols=45 Identities=13% Similarity=0.264 Sum_probs=31.0
Q ss_pred eeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 13 FVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 13 Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
++..+.++..+.|+....+++.++..++......+..+.+++..|
T Consensus 654 ~~~~s~d~~ie~le~e~~~l~~~~~~l~~~~~~~e~~l~e~~~~~ 698 (1074)
T KOG0250|consen 654 VDEFSFDDEIEDLEREASRLQKEILELENQRREAEKNLEELEKKL 698 (1074)
T ss_pred ccchhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566677888888888888888777766666666555555555443
No 174
>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=51.00 E-value=46 Score=22.32 Aligned_cols=41 Identities=12% Similarity=0.308 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
..|+.....+..++..++..++.+...-.+.+..-..++.+
T Consensus 130 ~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e~~~~~~k~~~~ 170 (189)
T PF10211_consen 130 EELEEEKEELEKQVQELKNKCEQLEKREEELRQEEEKKHQE 170 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555556666555555555554544443
No 175
>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=50.93 E-value=59 Score=20.29 Aligned_cols=41 Identities=12% Similarity=0.288 Sum_probs=33.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
...-.+.-+....++..+|.....++..++.++.+-|..+=
T Consensus 72 n~~e~e~Y~~~~~~i~~~i~~~k~~ie~lk~~L~~ak~~r~ 112 (139)
T PF05615_consen 72 NKRERENYEQLNEEIEQEIEQAKKEIEELKEELEEAKRVRQ 112 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456677888889999999999999999999888887653
No 176
>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=50.80 E-value=59 Score=20.21 Aligned_cols=21 Identities=10% Similarity=0.412 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy15717 34 SDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 34 ~ei~~L~~el~~i~~~m~eLK 54 (72)
.+|+.|+.+++.+..++.+|+
T Consensus 96 ~ev~~L~~RI~~Le~~l~~l~ 116 (118)
T TIGR01837 96 EEIEALSAKIEQLAVQVEELR 116 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 445555555555555555543
No 177
>PRK14148 heat shock protein GrpE; Provisional
Probab=50.80 E-value=34 Score=23.36 Aligned_cols=22 Identities=9% Similarity=0.308 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 33 KSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 33 ~~ei~~L~~el~~i~~~m~eLK 54 (72)
..+++.++.++..++.+..+||
T Consensus 39 ~~e~~~l~~~l~~l~~e~~elk 60 (195)
T PRK14148 39 EEQLERAKDTIKELEDSCDQFK 60 (195)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444443
No 178
>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=50.75 E-value=22 Score=27.72 Aligned_cols=26 Identities=15% Similarity=0.413 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.++ +|++|+.+++++++++.+|...+
T Consensus 29 ~~q-kie~L~kql~~Lk~q~~~l~~~v 54 (489)
T PF11853_consen 29 LLQ-KIEALKKQLEELKAQQDDLNDRV 54 (489)
T ss_pred HHH-HHHHHHHHHHHHHHhhccccccc
Confidence 344 78888888888888777766543
No 179
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=50.48 E-value=92 Score=22.33 Aligned_cols=39 Identities=10% Similarity=0.181 Sum_probs=30.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
...+.+..+.....++.+++.|.+++.....+++-|.++
T Consensus 72 Lqe~eek~e~~l~~Lq~ql~~l~akI~k~~~el~~L~TY 110 (258)
T PF15397_consen 72 LQEWEEKEESKLSKLQQQLEQLDAKIQKTQEELNFLSTY 110 (258)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677778888888888888888888888888877664
No 180
>PF08336 P4Ha_N: Prolyl 4-Hydroxylase alpha-subunit, N-terminal region; InterPro: IPR013547 The members found in this entry are eukaryotic proteins, and include all three isoforms of the prolyl 4-hydroxylase alpha subunit. This enzyme (1.14.11.2 from EC) is important in the post-translational modification of collagen, as it catalyses the formation of 4-hydroxyproline. In vertebrates, the complete enzyme is an alpha2-beta2 tetramer; the beta-subunit is identical to protein disulphide isomerase [, , , ]. The function of the N-terminal region featured in this family does not seem to be known. ; GO: 0004656 procollagen-proline 4-dioxygenase activity, 0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen, 0055114 oxidation-reduction process, 0005783 endoplasmic reticulum
Probab=50.10 E-value=61 Score=20.16 Aligned_cols=46 Identities=9% Similarity=0.177 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCcc
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNHIK 66 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~In 66 (72)
....|+...+.++..++.++.-++.++.........-..=+||-||
T Consensus 16 l~~~L~~Yi~~~~~kl~~l~~~~~~~~~~~~~~~~d~e~yl~nPln 61 (134)
T PF08336_consen 16 LISNLRNYIEELQEKLDTLKRFLDEMKREHEKAKSDPEEYLSNPLN 61 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhcHHH
Confidence 3445555566666666666666666666655554433333444443
No 181
>PRK15396 murein lipoprotein; Provisional
Probab=49.27 E-value=54 Score=19.33 Aligned_cols=32 Identities=9% Similarity=0.335 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
..+++..++..|..+.+.+....+.++...++
T Consensus 26 kvd~LssqV~~L~~kvdql~~dv~~~~~~~~~ 57 (78)
T PRK15396 26 KIDQLSSDVQTLNAKVDQLSNDVNAMRSDVQA 57 (78)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34467777777777777777777777776654
No 182
>KOG4571|consensus
Probab=49.26 E-value=95 Score=22.77 Aligned_cols=41 Identities=10% Similarity=0.204 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
..|.|+..-+.+.++-++|+...+....+|..||..+-+++
T Consensus 249 e~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e~~ 289 (294)
T KOG4571|consen 249 EKEALLGELEGLEKRNEELKDQASELEREIRYLKQLILEVY 289 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667777778888889999999999999999998776554
No 183
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=49.12 E-value=68 Score=20.43 Aligned_cols=29 Identities=7% Similarity=0.234 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
..++++..++.|+-+++.+...+..|...
T Consensus 71 ~~~eL~er~E~Le~ri~tLekQe~~l~e~ 99 (119)
T COG1382 71 AVDELEERKETLELRIKTLEKQEEKLQER 99 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444433
No 184
>PF09766 FimP: Fms-interacting protein; InterPro: IPR019163 This entry represents Thoc5 which is one of the subunits of the THO complex, which additionally contains: HPR1, Thoc2, Thoc6 and Thoc7. The evolutionarily conserved multisubunit THO complex, which is recruited to actively transcribed genes is required for the efficient expression of genes that have internal tandem repeats. It is suggested that the THO complex functions to rectify aberrant structures that arise during transcription [, ] and is required for cell proliferation and for proper export of heat-shock mRNAs under heat stress []. This entry also identifies the crucial 144 N-terminal residues of the FmiP protein, which is essential for the binding of the protein to the cytoplasmic domain of activated Fms-molecules in M-CSF induced haematopoietic differentiation of macrophages. The C terminus contains a putative nuclear localisation sequence and a leucine zipper which suggest further, as yet unknown, nuclear functions. The level of FMIP expression might form a threshold that determines whether cells differentiate into macrophages or into granulocytes [].
Probab=49.04 E-value=97 Score=22.76 Aligned_cols=37 Identities=16% Similarity=0.312 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
...+.|++.++.+.+++.+.++.+..+...+..|+..
T Consensus 108 ~~~~el~~~k~~l~~~~~~k~~~L~~l~~~L~~l~~a 144 (355)
T PF09766_consen 108 EQLKELEQRKKKLQQENKKKKKFLDSLPPQLKSLKKA 144 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 3445566666666666666666666666666666654
No 185
>KOG4657|consensus
Probab=48.91 E-value=82 Score=22.48 Aligned_cols=40 Identities=15% Similarity=0.219 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
-.++++....+++++.++..+.....+|..+|..+-.|-|
T Consensus 89 ~~ieqeik~~q~elEvl~~n~Q~lkeE~dd~keiIs~kr~ 128 (246)
T KOG4657|consen 89 MGIEQEIKATQSELEVLRRNLQLLKEEKDDSKEIISQKRQ 128 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 3566777777788888888888888888888888877754
No 186
>PRK08453 fliD flagellar capping protein; Validated
Probab=48.86 E-value=50 Score=26.70 Aligned_cols=38 Identities=11% Similarity=0.218 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
+......+..++.+|..+++..+.+|...-..||++|-
T Consensus 619 l~~~~~sL~~q~k~L~~q~~~~e~rL~~ry~rl~~qFs 656 (673)
T PRK08453 619 LKIYEDSLTRDAKSLTKDKENAQELLKTRYDIMAERFA 656 (673)
T ss_pred ehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455567777777777777777777777777777774
No 187
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=48.77 E-value=94 Score=21.98 Aligned_cols=19 Identities=21% Similarity=0.499 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy15717 35 DIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 35 ei~~L~~el~~i~~~m~eL 53 (72)
++.+++.++......+..+
T Consensus 118 ~~~~l~~~i~~l~~~~~~~ 136 (239)
T COG1579 118 EIEKLEKEIEDLKERLERL 136 (239)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333
No 188
>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=48.74 E-value=69 Score=20.42 Aligned_cols=43 Identities=9% Similarity=0.124 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
..+.-.+...+++.+....+.++.....+..+|-..+.+.|..
T Consensus 98 see~Q~~~i~~L~~E~~~~~~el~~~v~e~e~ll~~v~~~i~~ 140 (144)
T PF11221_consen 98 SEEEQLKRIKELEEENEEAEEELQEAVKEAEELLKQVQELIRE 140 (144)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344446677888888888889888888888888888877653
No 189
>PRK11239 hypothetical protein; Provisional
Probab=48.72 E-value=47 Score=23.28 Aligned_cols=26 Identities=12% Similarity=0.362 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
+.++.++..|+.++..++..+.+|..
T Consensus 186 ~~Le~rv~~Le~eva~L~~~l~~l~~ 211 (215)
T PRK11239 186 GDLQARVEALEIEVAELKQRLDSLLA 211 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666666666544
No 190
>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=48.65 E-value=73 Score=25.76 Aligned_cols=38 Identities=13% Similarity=0.391 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+..+.|-....+++.|+.+|+.+++..+++...|...+
T Consensus 538 e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~ 575 (697)
T PF09726_consen 538 ECAESCRQRRRQLESELKKLRRELKQKEEQIRELESEL 575 (697)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677888889999999999999999999999999877
No 191
>PHA02107 hypothetical protein
Probab=48.62 E-value=41 Score=23.09 Aligned_cols=31 Identities=13% Similarity=0.244 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.....+++.+|.+|+...++++..|.-+|..
T Consensus 183 S~Ri~EID~EI~~LQA~RKEiEDN~K~IKN~ 213 (216)
T PHA02107 183 SVRISEIDEEIKELQARRKEIEDNIKSIKNA 213 (216)
T ss_pred hhhHhHHhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3456789999999999999999999988853
No 192
>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=48.58 E-value=48 Score=18.50 Aligned_cols=31 Identities=13% Similarity=0.233 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
-+|+..+.+++++...+.+...-+.+....|
T Consensus 29 tiEqRLa~LE~rL~~ae~ra~~ae~~~~~~k 59 (60)
T PF11471_consen 29 TIEQRLAALEQRLQAAEQRAQAAEARAKQAK 59 (60)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3666666777777777776666666655443
No 193
>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=48.42 E-value=97 Score=22.02 Aligned_cols=35 Identities=17% Similarity=0.276 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMS----SIKTVMSDLKTHLY 58 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~----~i~~~m~eLK~~LY 58 (72)
.|.++.++|++++..+..++. +++.+-.+||..|=
T Consensus 70 ~l~~EN~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~ 108 (283)
T TIGR00219 70 NLEYENYKLRQELLKKNQQLEILTQNLKQENVRLRELLN 108 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 456666677777766644444 37778888888763
No 194
>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=48.36 E-value=34 Score=20.37 Aligned_cols=22 Identities=5% Similarity=0.105 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQ 41 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~ 41 (72)
.+.+.|++.++.++.++..|+.
T Consensus 76 ~~~~ll~~~~~~l~~~i~~L~~ 97 (99)
T cd04772 76 SALALVDAAHALLQRYRQQLDQ 97 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4444555555555555554443
No 195
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=48.25 E-value=76 Score=22.80 Aligned_cols=31 Identities=10% Similarity=0.269 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 27 ESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 27 ~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
...++++..+..+..+.+....++..++..|
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 36 (364)
T TIGR01242 6 VRIRKLEDEKRSLEKEKIRLERELERLRSEI 36 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555555555555554
No 196
>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]
Probab=48.14 E-value=92 Score=21.65 Aligned_cols=32 Identities=25% Similarity=0.458 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.+....+++...+..|+.++...+.++..|+.
T Consensus 110 ~~~~~~~~l~~~~~~Le~Ki~e~~~~~~~l~a 141 (225)
T COG1842 110 QAEEQVEKLKKQLAALEQKIAELRAKKEALKA 141 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555555555555555554
No 197
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=47.78 E-value=98 Score=21.89 Aligned_cols=34 Identities=15% Similarity=0.383 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
-++...+.++.++..++.++.++..+++.+...|
T Consensus 49 ~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl 82 (239)
T COG1579 49 ALEIELEDLENQVSQLESEIQEIRERIKRAEEKL 82 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455556666666666666666666655555
No 198
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=47.68 E-value=87 Score=21.27 Aligned_cols=30 Identities=10% Similarity=0.344 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
....+...++.+..++...+.+..++|..|
T Consensus 71 r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l 100 (302)
T PF10186_consen 71 RLERLRERIERLRKRIEQKRERLEELRESL 100 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444444444
No 199
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=47.35 E-value=79 Score=22.72 Aligned_cols=33 Identities=15% Similarity=0.324 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
..|..+...++..|++-..+++-.++++..|++
T Consensus 186 ~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~ 218 (267)
T PF10234_consen 186 NNLASDEANLEAKIEKKKQELERNQKRLQSLQS 218 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344445555555555555555555555555543
No 200
>KOG0995|consensus
Probab=47.30 E-value=73 Score=25.46 Aligned_cols=36 Identities=19% Similarity=0.341 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
..+...+.+..+|++.+++++.++.+-.+||.++=-
T Consensus 291 ~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~ 326 (581)
T KOG0995|consen 291 HMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIEL 326 (581)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445666788888888888888898888899887643
No 201
>KOG4603|consensus
Probab=47.22 E-value=93 Score=21.45 Aligned_cols=29 Identities=21% Similarity=0.368 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
|......+++.+-.|...+...+.++.+|
T Consensus 84 ld~~i~~l~ek~q~l~~t~s~veaEik~L 112 (201)
T KOG4603|consen 84 LDGKIVALTEKVQSLQQTCSYVEAEIKEL 112 (201)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333333333
No 202
>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=47.13 E-value=58 Score=19.23 Aligned_cols=25 Identities=12% Similarity=0.484 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 32 IKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 32 l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
+.+++.+|..+...+..+..++++.
T Consensus 5 l~~~~~~L~~~~~~l~~~i~~~~~~ 29 (83)
T PF07061_consen 5 LEAEIQELKEQIEQLEKEISELEAE 29 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444444444444444444444444
No 203
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=47.11 E-value=7.1 Score=17.56 Aligned_cols=22 Identities=5% Similarity=-0.013 Sum_probs=14.2
Q ss_pred ccccccceeec-chhHHHHHHHH
Q psy15717 6 RNGAGEIFVDL-IKRNSEKSLEE 27 (72)
Q Consensus 6 ~y~iGe~Fv~l-~~e~a~e~LE~ 27 (72)
+|.+|.|+... ..++|.+.++.
T Consensus 3 ~~~~a~~~~~~g~~~~A~~~~~~ 25 (33)
T PF13174_consen 3 LYRLARCYYKLGDYDEAIEYFQR 25 (33)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHH
T ss_pred HHHHHHHHHHccCHHHHHHHHHH
Confidence 56777777776 55566665554
No 204
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=46.90 E-value=86 Score=25.20 Aligned_cols=49 Identities=18% Similarity=0.364 Sum_probs=24.3
Q ss_pred ecchhHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHH-------HHHhhhCC
Q psy15717 15 DLIKRNSEKSLEESRQ--------NIKSDIASIEQTMSSIKTVMSDLKT-------HLYAKFGN 63 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke--------~l~~ei~~L~~el~~i~~~m~eLK~-------~LYakFG~ 63 (72)
.++.++|+-.|+=... ++++++.+|..++..++.-++.|+. .|-.|||+
T Consensus 384 ~~t~~qa~ail~mrl~rlt~~e~~k~~~e~~~l~~~i~~~~~~L~~~~~~~~~el~~l~~kyg~ 447 (635)
T PRK09631 384 DVTEEDIENLLKIPIRRISLFDIDKNQKEIRILNKELKSVEKNLKSIKGYAINFIDKLLAKYSK 447 (635)
T ss_pred CCCHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 3566677666654333 3344444444444444444333332 23568887
No 205
>PRK11546 zraP zinc resistance protein; Provisional
Probab=46.86 E-value=59 Score=21.31 Aligned_cols=17 Identities=18% Similarity=0.389 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy15717 43 MSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 43 l~~i~~~m~eLK~~LYa 59 (72)
+..+..+|.+|+..||.
T Consensus 91 I~aL~kEI~~Lr~kL~e 107 (143)
T PRK11546 91 INAVAKEMENLRQSLDE 107 (143)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45566667777777764
No 206
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.82 E-value=59 Score=19.06 Aligned_cols=18 Identities=11% Similarity=-0.005 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHhhhCCC
Q psy15717 47 KTVMSDLKTHLYAKFGNH 64 (72)
Q Consensus 47 ~~~m~eLK~~LYakFG~~ 64 (72)
..+|...=..|+.||++.
T Consensus 38 i~k~q~qlr~L~~kl~~~ 55 (72)
T COG2900 38 IDKLQAQLRLLTEKLKDL 55 (72)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 334444445678888874
No 207
>PF12447 DUF3683: Protein of unknown function (DUF3683); InterPro: IPR022153 This domain family is found in bacteria, and is approximately 120 amino acids in length. The family is found in association with PF02754 from PFAM, PF01565 from PFAM, PF02913 from PFAM.
Probab=46.45 E-value=45 Score=21.23 Aligned_cols=43 Identities=12% Similarity=0.179 Sum_probs=37.1
Q ss_pred ccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 8 GAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 8 ~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m 50 (72)
.+||.||+......++-|=..-..-+.=++.+...++.|.+.-
T Consensus 51 vlGDiwvv~RNPyL~ddLld~~~Rr~~L~~al~hrL~~I~~r~ 93 (115)
T PF12447_consen 51 VLGDIWVVRRNPYLQDDLLDNPKRRRALFEALRHRLDEIEKRA 93 (115)
T ss_pred HhcceeeeecCchhHHHHccCHHHHHHHHHHHHHHHHHHHHhc
Confidence 3899999999999999888888888888888888888887754
No 208
>PRK05560 DNA gyrase subunit A; Validated
Probab=46.37 E-value=90 Score=25.51 Aligned_cols=21 Identities=19% Similarity=0.398 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSS 45 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~ 45 (72)
|.++.++++++|+.++.-+.+
T Consensus 435 L~~E~~~l~~ei~~l~~iL~~ 455 (805)
T PRK05560 435 IEDEYKELLALIADLKDILAS 455 (805)
T ss_pred HHHHHHHHHHHHHHHHHHhCC
Confidence 344444445555554444333
No 209
>PRK01318 membrane protein insertase; Provisional
Probab=46.26 E-value=86 Score=24.41 Aligned_cols=48 Identities=8% Similarity=0.021 Sum_probs=35.4
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 16 LIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
+|..-.+-+--+....++-++++++++.++-..+|+.--..||.|.|=
T Consensus 339 ~Pl~~~s~~s~~km~~lqP~~~~i~~kyk~d~~k~~~e~~~LYKk~~v 386 (521)
T PRK01318 339 FPLTYKSYVSMAKMKVLQPKMQELKEKYKDDPQKMQQEMMELYKKEKV 386 (521)
T ss_pred hhhHHHHHHHHHHHHHhhHHHHHHHHHhHhhHHHHHHHHHHHHHHcCC
Confidence 334444444446666788899999999887777788888889999873
No 210
>KOG1510|consensus
Probab=45.78 E-value=85 Score=20.60 Aligned_cols=42 Identities=10% Similarity=0.208 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
+...|++ ..+++.++.....++.+...+-..|..++-.+|++
T Consensus 86 ~e~Ql~~-i~kLq~en~e~~~el~~~v~~~e~Ll~~vq~~le~ 127 (139)
T KOG1510|consen 86 AEAQLEK-IKKLQEENEEVALELEELVSKGEKLLEQVQSLLED 127 (139)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445665 77888888888888888888888888888777764
No 211
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=45.69 E-value=1e+02 Score=24.13 Aligned_cols=26 Identities=8% Similarity=0.127 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVMS 51 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m~ 51 (72)
.+..+.++.++.++..+++.+..+..
T Consensus 427 ~e~l~~l~~~l~~~~~~~~~~~~~~~ 452 (650)
T TIGR03185 427 LEELGEAQNELFRSEAEIEELLRQLE 452 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444444333333
No 212
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=45.65 E-value=75 Score=23.55 Aligned_cols=21 Identities=5% Similarity=0.336 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy15717 29 RQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 29 ke~l~~ei~~L~~el~~i~~~ 49 (72)
.+.++.++++++.++..+..+
T Consensus 244 ~~~l~~~~~~~~~~i~~l~~~ 264 (406)
T PF02388_consen 244 LESLQEKLEKLEKEIEKLEEK 264 (406)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345666666666666666554
No 213
>PRK00736 hypothetical protein; Provisional
Probab=45.57 E-value=56 Score=18.46 Aligned_cols=28 Identities=4% Similarity=0.196 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m 50 (72)
+.|.....+-+..|+.|+.++..+..++
T Consensus 22 e~Ln~~v~~Qq~~i~~L~~ql~~L~~rl 49 (68)
T PRK00736 22 EELSDQLAEQWKTVEQMRKKLDALTERF 49 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333334444444443333333
No 214
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=45.54 E-value=17 Score=21.04 Aligned_cols=15 Identities=27% Similarity=0.417 Sum_probs=12.7
Q ss_pred HHHHHHHHHhhhCCC
Q psy15717 50 MSDLKTHLYAKFGNH 64 (72)
Q Consensus 50 m~eLK~~LYakFG~~ 64 (72)
..+||..||..||-.
T Consensus 25 v~~lK~kl~~~~G~~ 39 (84)
T cd01789 25 IAELKKKLELVVGTP 39 (84)
T ss_pred HHHHHHHHHHHHCCC
Confidence 578999999999964
No 215
>PF11363 DUF3164: Protein of unknown function (DUF3164); InterPro: IPR021505 This entry is represented by Bacteriophage B3, Orf6. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=45.43 E-value=32 Score=23.43 Aligned_cols=37 Identities=14% Similarity=0.252 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCccC
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNHIKL 67 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~InL 67 (72)
-.++-+.++-.+...+...|.++|.++|+-|+.-|.|
T Consensus 21 l~De~V~~~~~~a~~l~~~l~~fK~~~f~d~~af~~l 57 (195)
T PF11363_consen 21 LRDELVREIVGKAKELSEQLAEFKAHTFEDIEAFIEL 57 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466778888899999999999999999888765554
No 216
>PRK01156 chromosome segregation protein; Provisional
Probab=45.42 E-value=74 Score=25.66 Aligned_cols=45 Identities=11% Similarity=0.087 Sum_probs=24.5
Q ss_pred ccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 10 GEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 10 Ge~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
|-|=++.+... ++...........+|..++.++..+..+...|+.
T Consensus 453 ~~Cp~c~~~~~-~e~~~e~i~~~~~~i~~l~~~i~~l~~~~~~l~~ 497 (895)
T PRK01156 453 SVCPVCGTTLG-EEKSNHIINHYNEKKSRLEEKIREIEIEVKDIDE 497 (895)
T ss_pred CCCCCCCCcCC-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556666555 5555555555555555555555555555444433
No 217
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=45.40 E-value=90 Score=21.02 Aligned_cols=41 Identities=7% Similarity=0.112 Sum_probs=25.2
Q ss_pred cccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 9 AGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 9 iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~ 49 (72)
+...-+..+...|....|.+.+.+.+++..|+.++..+...
T Consensus 29 l~~l~~ph~~~~avSL~erQ~~~LR~~~~~L~~~l~~Li~~ 69 (225)
T PF04340_consen 29 LAELRLPHPSGGAVSLVERQLERLRERNRQLEEQLEELIEN 69 (225)
T ss_dssp ------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHcCCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445667778899999999999999999999988877543
No 218
>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=45.39 E-value=96 Score=25.20 Aligned_cols=6 Identities=17% Similarity=0.401 Sum_probs=4.4
Q ss_pred HhhhCC
Q psy15717 58 YAKFGN 63 (72)
Q Consensus 58 YakFG~ 63 (72)
-.|||+
T Consensus 468 k~kfg~ 473 (738)
T TIGR01061 468 KKQFAQ 473 (738)
T ss_pred HHHhCC
Confidence 468887
No 219
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=45.35 E-value=90 Score=20.79 Aligned_cols=32 Identities=13% Similarity=0.423 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.++...+.....+++|...+..+..++.++|.
T Consensus 102 ~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~ 133 (221)
T PF04012_consen 102 RLEQQLDQAEAQVEKLKEQLEELEAKLEELKS 133 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444443
No 220
>PRK13443 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=45.09 E-value=52 Score=21.12 Aligned_cols=42 Identities=14% Similarity=0.125 Sum_probs=25.5
Q ss_pred ecchhHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH
Q psy15717 15 DLIKRNSEKSLEESRQNIKSDIAS----IEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke~l~~ei~~----L~~el~~i~~~m~eLK~~ 56 (72)
.++.++|++.+++.++.+...-.. .....+.--.+|..|+..
T Consensus 88 dID~~~a~~a~~~Ae~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 (136)
T PRK13443 88 ELTGAVLDEFIAEARELASVALPENEPGDVDDAAKTLADMLALGAH 133 (136)
T ss_pred hCCHHHHHHHHHHHHHHHHhcCcccCCCCHHHHHHHHHHHHHHHhh
Confidence 356677777777777766654444 444455555566666554
No 221
>PHA02557 22 prohead core protein; Provisional
Probab=45.06 E-value=1.1e+02 Score=22.29 Aligned_cols=47 Identities=11% Similarity=0.165 Sum_probs=33.1
Q ss_pred cccceeecchhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 9 AGEIFVDLIKRN--SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 9 iGe~Fv~l~~e~--a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
+++.-|.+|.+. ..+-|+....+.+.+++.+-++...+....+.+++
T Consensus 128 F~Ehnv~vpee~vdvV~em~~~L~E~e~~~~~l~~en~~l~e~i~~~~r 176 (271)
T PHA02557 128 FVEHNVVVPEEKVDVVAEMEEELDEMEEELNELFEENVALEEYINEVKR 176 (271)
T ss_pred HHHhCcCCcHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455567777777 55667777777777777777777777777776654
No 222
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=45.05 E-value=99 Score=22.28 Aligned_cols=25 Identities=8% Similarity=0.364 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 29 RQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 29 ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
++.+-+++..++.++...+.++..|
T Consensus 151 keeL~~eleele~e~ee~~erlk~l 175 (290)
T COG4026 151 KEELLKELEELEAEYEEVQERLKRL 175 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444444
No 223
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=44.98 E-value=1e+02 Score=25.08 Aligned_cols=6 Identities=50% Similarity=0.911 Sum_probs=4.2
Q ss_pred HhhhCC
Q psy15717 58 YAKFGN 63 (72)
Q Consensus 58 YakFG~ 63 (72)
-.|||+
T Consensus 478 k~kfg~ 483 (742)
T PRK05561 478 AKKFGD 483 (742)
T ss_pred HHHhCC
Confidence 467886
No 224
>COG4717 Uncharacterized conserved protein [Function unknown]
Probab=44.93 E-value=19 Score=30.16 Aligned_cols=28 Identities=21% Similarity=0.160 Sum_probs=24.1
Q ss_pred cccccccccceeecchhHHHHHHHHHHH
Q psy15717 3 RVERNGAGEIFVDLIKRNSEKSLEESRQ 30 (72)
Q Consensus 3 ~~v~y~iGe~Fv~l~~e~a~e~LE~~ke 30 (72)
.+.|+-+.|+|||++.+++..+|+-.++
T Consensus 926 ~~LP~i~DD~fVhFD~~R~~r~~e~l~d 953 (984)
T COG4717 926 EPLPFIADDIFVHFDDERAKRMLELLAD 953 (984)
T ss_pred CCCCeeeccchhccCHHHHHHHHHHHHH
Confidence 4779999999999999999999985543
No 225
>PRK09039 hypothetical protein; Validated
Probab=44.86 E-value=92 Score=22.76 Aligned_cols=29 Identities=7% Similarity=0.315 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQTMSSI----KTVMSDLKTHLY 58 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i----~~~m~eLK~~LY 58 (72)
...+..|+.|..++... ..++..+|..++
T Consensus 168 ~~~~~~i~~L~~~L~~a~~~~~~~l~~~~~~~~ 200 (343)
T PRK09039 168 RESQAKIADLGRRLNVALAQRVQELNRYRSEFF 200 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 33444444444444433 233444444444
No 226
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=44.85 E-value=99 Score=24.57 Aligned_cols=34 Identities=15% Similarity=0.363 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.-++....++.+++.+..++..+...|..|+..+
T Consensus 325 ~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~ 358 (594)
T PF05667_consen 325 EQEQELEELQEQLDELESQIEELEAEIKMLKSSL 358 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555666667777777777777766666543
No 227
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=44.70 E-value=77 Score=19.79 Aligned_cols=34 Identities=24% Similarity=0.417 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
|...|+........+=..|+.++..+..+..+|.
T Consensus 85 a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL~ 118 (132)
T PF07926_consen 85 AKAELEESEASWEEQKEQLEKELSELEQRIEDLN 118 (132)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333443333333444444444444444444443
No 228
>PF11312 DUF3115: Protein of unknown function (DUF3115); InterPro: IPR021463 This eukaryotic family of proteins has no known function.
Probab=44.55 E-value=21 Score=26.31 Aligned_cols=25 Identities=40% Similarity=0.836 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHhh-----hCCCccCCC
Q psy15717 45 SIKTVMSDLKTHLYAK-----FGNHIKLEA 69 (72)
Q Consensus 45 ~i~~~m~eLK~~LYak-----FG~~InLe~ 69 (72)
++...+..+|.+||.| ||+.-+|++
T Consensus 16 ~l~~~iQ~VK~~LYnRDf~~AF~~~~~L~A 45 (315)
T PF11312_consen 16 DLQELIQEVKGHLYNRDFAAAFGDEEKLEA 45 (315)
T ss_pred hHHHHHHHHHHHHhcchHHHHhCChhhhhh
Confidence 3888999999999976 898777764
No 229
>PRK01156 chromosome segregation protein; Provisional
Probab=44.47 E-value=81 Score=25.45 Aligned_cols=33 Identities=18% Similarity=0.424 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.+....+.+.+++..|..++..+...+.+|++.
T Consensus 413 e~~~~~~~l~~~i~~l~~~i~~l~~~~~el~~~ 445 (895)
T PRK01156 413 EINVKLQDISSKVSSLNQRIRALRENLDELSRN 445 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445667777777777777777777777764
No 230
>PF05929 Phage_GPO: Phage capsid scaffolding protein (GPO) serine peptidase; InterPro: IPR009228 This entry is represented by Bacteriophage P2, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacteriophage capsid scaffolding protein (GpO) and some related bacterial sequences. GpO is thought to function in both the assembly of proheads and the cleavage of GpN [].; GO: 0019069 viral capsid assembly
Probab=44.35 E-value=94 Score=22.42 Aligned_cols=31 Identities=10% Similarity=0.129 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 32 IKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 32 l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
+.....++....+......++||..|=.--+
T Consensus 226 ~~~~~~~l~~~~~~~~~~f~~L~~~L~~~~~ 256 (276)
T PF05929_consen 226 VAELKQELKEQHEALTEDFAALKEKLSSTDA 256 (276)
T ss_pred HHHHhhhhhhHHHHHHHHHHHHHHHhhCCCC
Confidence 3333444445557778888888888755443
No 231
>PF00476 DNA_pol_A: DNA polymerase family A; InterPro: IPR001098 Synonym(s): DNA nucleotidyltransferase (DNA-directed) DNA-directed DNA polymerases(2.7.7.7 from EC) are the key enzymes catalysing the accurate replication of DNA. They require either a small RNA molecule or a protein as a primer for the de novo synthesis of a DNA chain. A number of polymerases belong to this family [, , ].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 1TKD_A 1TK5_A 2AJQ_F 1T8E_A 1T7P_A 1SKR_A 1X9W_A 1TK8_A 1TK0_A 1SL2_A ....
Probab=44.35 E-value=57 Score=23.87 Aligned_cols=32 Identities=16% Similarity=0.316 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhCCCccCC
Q psy15717 37 ASIEQTMSSIKTVMSDLKTHLYAKFGNHIKLE 68 (72)
Q Consensus 37 ~~L~~el~~i~~~m~eLK~~LYakFG~~InLe 68 (72)
+.++....++..++.+|...+|...|..+|+.
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~fN~~ 35 (383)
T PF00476_consen 4 EYLEQQSEELDAKLRELEAKAYKLAGEEFNPN 35 (383)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTSCSSTT
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHhcCCccCCC
Confidence 34555556666667777777888888888874
No 232
>PF04325 DUF465: Protein of unknown function (DUF465); InterPro: IPR007420 Family members are found in small bacterial proteins, and also in the heavy chains of eukaryotic myosin and kinesin, C-terminal of the motor domain. Members of this family may form coiled coil structures.; PDB: 1ZHC_A.
Probab=44.31 E-value=48 Score=17.32 Aligned_cols=31 Identities=19% Similarity=0.284 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
|...-..++.+|..++..-......+..||+
T Consensus 4 L~~~h~~Ld~~I~~~e~~~~~~d~~l~~LKk 34 (49)
T PF04325_consen 4 LFEEHHELDKEIHRLEKRPEPDDEELERLKK 34 (49)
T ss_dssp HHHHHHHHHHHHHHHHTT--S-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence 4445556777887777766566666666665
No 233
>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=44.23 E-value=90 Score=20.45 Aligned_cols=34 Identities=15% Similarity=0.322 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
+.+...|++..+.++.+|..|+.....+...+..
T Consensus 73 ~~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll~~ 106 (172)
T cd04790 73 DDATDVLRRRLAELNREIQRLRQQQRAIATLLKQ 106 (172)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666666666666666666665555443
No 234
>PRK01315 putative inner membrane protein translocase component YidC; Provisional
Probab=44.12 E-value=1e+02 Score=22.70 Aligned_cols=48 Identities=17% Similarity=0.194 Sum_probs=36.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCC
Q psy15717 17 IKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNH 64 (72)
Q Consensus 17 ~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~ 64 (72)
|.--.+..-.+....++-++++++++++.-..+|++=-..||.|.|=+
T Consensus 59 Pl~i~q~~~~~km~~lqPe~~~iq~kyk~~~~~~~~e~~~Lykk~gin 106 (329)
T PRK01315 59 PLFVKQIKSQRNMQEIQPKMKKIQEKYKGDRERMSQEMMKLYKETGTN 106 (329)
T ss_pred HHHHHHHHHHHHHHHccHHHHHHHHHHHhHHHHHHHHHHHHHHHcCCC
Confidence 333344445566667889999999999888888888888999998743
No 235
>KOG0963|consensus
Probab=43.84 E-value=1.1e+02 Score=24.64 Aligned_cols=39 Identities=28% Similarity=0.428 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
.+..+-...+.....|..|+.++....+.+.+||..|-+
T Consensus 304 ~~~S~~~e~e~~~~qI~~le~~l~~~~~~leel~~kL~~ 342 (629)
T KOG0963|consen 304 LEASLVEEREKHKAQISALEKELKAKISELEELKEKLNS 342 (629)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344444455555566666666666666666666666643
No 236
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=43.83 E-value=1.1e+02 Score=24.82 Aligned_cols=36 Identities=19% Similarity=0.422 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
...|++..++++.++..|+.+++..+.+...|+..|
T Consensus 424 i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l 459 (652)
T COG2433 424 IKKLEETVERLEEENSELKRELEELKREIEKLESEL 459 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555556666666666666666666666666555
No 237
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=43.77 E-value=1.2e+02 Score=23.38 Aligned_cols=13 Identities=23% Similarity=0.496 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHHH
Q psy15717 41 QTMSSIKTVMSDL 53 (72)
Q Consensus 41 ~el~~i~~~m~eL 53 (72)
.++.+++.+++.+
T Consensus 66 ~~lk~~e~~i~~~ 78 (420)
T COG4942 66 KQLKSLETEIASL 78 (420)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 238
>PF14988 DUF4515: Domain of unknown function (DUF4515)
Probab=43.76 E-value=1e+02 Score=21.02 Aligned_cols=38 Identities=8% Similarity=0.287 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
-.-..++..+.+|..|+.++..+.....+....+..+|
T Consensus 75 ~~~~~k~~qe~eI~~Le~e~~~~~~e~~~~l~~~~~qf 112 (206)
T PF14988_consen 75 EFRRLKEQQEREIQTLEEELEKMRAEHAEKLQEAESQF 112 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456677788888888888887776666666655555
No 239
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=43.62 E-value=70 Score=20.15 Aligned_cols=23 Identities=13% Similarity=0.472 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 35 DIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 35 ei~~L~~el~~i~~~m~eLK~~L 57 (72)
++..++++++.++.+...|+..|
T Consensus 84 ~~~~l~~rvd~Lerqv~~Lenk~ 106 (108)
T COG3937 84 EMDELTERVDALERQVADLENKL 106 (108)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHh
Confidence 33445555555555555555443
No 240
>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=43.50 E-value=71 Score=22.38 Aligned_cols=23 Identities=13% Similarity=0.359 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 35 DIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 35 ei~~L~~el~~i~~~m~eLK~~L 57 (72)
++..|..++...+.++..||..|
T Consensus 19 e~~~Lk~kir~le~~l~~Lk~~l 41 (236)
T PF12017_consen 19 ENKKLKKKIRRLEKELKKLKQKL 41 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333
No 241
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=43.31 E-value=57 Score=19.59 Aligned_cols=14 Identities=29% Similarity=0.532 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHH
Q psy15717 44 SSIKTVMSDLKTHL 57 (72)
Q Consensus 44 ~~i~~~m~eLK~~L 57 (72)
..++.+++.||.+|
T Consensus 39 ~~lE~E~~~l~~~l 52 (85)
T PF15188_consen 39 RSLEKELNELKEKL 52 (85)
T ss_pred HHHHHHHHHHHHHh
Confidence 34455555555554
No 242
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=43.07 E-value=53 Score=20.28 Aligned_cols=22 Identities=18% Similarity=0.439 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~e 52 (72)
++..+|++|+++++.+..+-.|
T Consensus 7 ~I~~eI~kLqe~lk~~e~keAE 28 (98)
T PRK13848 7 KIREEIAKLQEQLKQAETREAE 28 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5667777777777776665554
No 243
>PF05983 Med7: MED7 protein; InterPro: IPR009244 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 family consists of several eukaryotic proteins, which are homologues of the yeast MED7 protein. Activation of gene transcription in metazoans is a multistep process that is triggered by factors that recognise transcriptional enhancer sites in DNA. These factors work with co-activators such as MED7 to direct transcriptional initiation by the RNA polymerase II apparatus [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3FBI_C 3FBN_A 1YKH_A 1YKE_A.
Probab=43.05 E-value=80 Score=20.71 Aligned_cols=31 Identities=16% Similarity=0.239 Sum_probs=18.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~ 49 (72)
+....+++.+.++..++++.++..++.+++.
T Consensus 130 etLi~~me~Ql~~kr~~i~~i~~~~~~~~~~ 160 (162)
T PF05983_consen 130 ETLIMMMEEQLEEKREEIEEIRKVCEKAREV 160 (162)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444456666666666666666666655543
No 244
>PF15456 Uds1: Up-regulated During Septation
Probab=42.98 E-value=86 Score=19.86 Aligned_cols=33 Identities=12% Similarity=0.276 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
+......+..++.+..++..++.++.+++..|-
T Consensus 80 eeel~~~~rk~ee~~~eL~~le~R~~~~~~rLL 112 (124)
T PF15456_consen 80 EEELAESDRKCEELAQELWKLENRLAEVRQRLL 112 (124)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334448888899999999999999999887763
No 245
>KOG0288|consensus
Probab=42.97 E-value=1.1e+02 Score=23.65 Aligned_cols=40 Identities=8% Similarity=0.147 Sum_probs=28.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.+++++.+-++...+..+-..+...+...+.++++||..+
T Consensus 25 ~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~ 64 (459)
T KOG0288|consen 25 CEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQEEN 64 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666777777777777777777777777777654
No 246
>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=42.69 E-value=77 Score=19.25 Aligned_cols=13 Identities=8% Similarity=0.302 Sum_probs=4.9
Q ss_pred HHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTM 43 (72)
Q Consensus 31 ~l~~ei~~L~~el 43 (72)
..+..+..++.++
T Consensus 46 ~~~~Rl~~lE~~l 58 (106)
T PF10805_consen 46 EHDRRLQALETKL 58 (106)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 247
>PF04129 Vps52: Vps52 / Sac2 family ; InterPro: IPR007258 Vps52 complexes with Vps53 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=42.53 E-value=1.2e+02 Score=23.31 Aligned_cols=42 Identities=29% Similarity=0.309 Sum_probs=32.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 17 IKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 17 ~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
.++.+-+.+|......+.++..+..++..++.+-..|...|=
T Consensus 25 ~cd~~L~~le~~L~~Fq~~L~~iS~eI~~LQ~~S~~l~~~L~ 66 (508)
T PF04129_consen 25 ECDSILESLEEMLSNFQNDLGSISSEIRSLQERSSSLNVKLK 66 (508)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677778888888888888888888888888888776663
No 248
>PRK14011 prefoldin subunit alpha; Provisional
Probab=42.24 E-value=95 Score=20.14 Aligned_cols=26 Identities=8% Similarity=0.369 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~ 49 (72)
.|++..+++...|.++...+..+..+
T Consensus 99 ~l~~~~~~l~~~i~~~~~~~~~l~~~ 124 (144)
T PRK14011 99 ELDKTKKEGNKKIEELNKEITKLRKE 124 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444555555555444444433
No 249
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=42.16 E-value=81 Score=19.36 Aligned_cols=36 Identities=17% Similarity=0.349 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.++|--.++.+...+..+++.+.....+...|+..+
T Consensus 68 ieYLl~~q~~L~~~~~~l~~~~~~~~~~~~~l~~~~ 103 (118)
T PF13815_consen 68 IEYLLHCQEYLSSQLEQLEERLQELQQEIEKLKQKL 103 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555666666666666666666665555543
No 250
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=41.89 E-value=1.3e+02 Score=21.71 Aligned_cols=22 Identities=14% Similarity=0.424 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 33 KSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 33 ~~ei~~L~~el~~i~~~m~eLK 54 (72)
..+++.+.++++..+.++++++
T Consensus 206 ~~ELe~~~EeL~~~Eke~~e~~ 227 (269)
T PF05278_consen 206 KEELEELEEELKQKEKEVKEIK 227 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444443
No 251
>PF08203 RNA_polI_A14: Yeast RNA polymerase I subunit RPA14; InterPro: IPR013239 Saccharomyces cerevisiae RNA polymerase I (Pol I) is a complex consisting of 14 subunits. Subunit RPA14 forms part of a Pol I subcomplex consisting of RPA14 and and RPA43. The RPA14 and RPA43 heterodimer is proposed to play a role in the recruitment of Pol I to the promoter []. ; PDB: 2RF4_F.
Probab=41.85 E-value=67 Score=18.93 Aligned_cols=32 Identities=16% Similarity=-0.065 Sum_probs=21.3
Q ss_pred ccccccccceeecchhHHHHHHHHHHHHHHHHH
Q psy15717 4 VERNGAGEIFVDLIKRNSEKSLEESRQNIKSDI 36 (72)
Q Consensus 4 ~v~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei 36 (72)
++...++.. =|++.++|...|+.-....+...
T Consensus 2 Pv~i~~~~~-~~v~k~ea~~fL~~FI~~~E~~~ 33 (76)
T PF08203_consen 2 PVVIHVRGS-QHVSKDEAEQFLTEFIDEKESIA 33 (76)
T ss_dssp --EEEESS--EE--HHHHHHHHHHHHHHHHSS-
T ss_pred CeEEEecCc-ccCCHHHHHHHHHHHHHHHHHHh
Confidence 455667777 89999999999998877777663
No 252
>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=41.76 E-value=92 Score=25.43 Aligned_cols=41 Identities=15% Similarity=0.323 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hhhCC
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY---AKFGN 63 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY---akFG~ 63 (72)
..|.++.+++.++++.|+.-+.+-.....-++..|- .|||+
T Consensus 427 ~~i~~E~~~l~~e~~~l~~~L~~~~~~~~~i~~el~~~~~~~g~ 470 (735)
T TIGR01062 427 HAIIDEQSELEKERAILEKILKSERELNQLVKKEIQADATKYGL 470 (735)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCC
Confidence 356777788888888888877776666665555553 48887
No 253
>PF12548 DUF3740: Sulfatase protein; InterPro: IPR024609 This uncharacterised domain is found in the C-terminal region of extracellular sulphatase proteins.
Probab=41.54 E-value=77 Score=20.70 Aligned_cols=28 Identities=21% Similarity=0.520 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 27 ESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 27 ~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
..+..++.+|+.|+.+++.++.-=.-||
T Consensus 106 ~hr~~ID~eIe~Lq~Ki~~LKeiR~hLk 133 (145)
T PF12548_consen 106 DHRLHIDHEIETLQDKIKNLKEIRGHLK 133 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466788888888888877665444444
No 254
>PRK00145 putative inner membrane protein translocase component YidC; Provisional
Probab=41.45 E-value=1.1e+02 Score=20.85 Aligned_cols=42 Identities=12% Similarity=0.192 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
.+..-......++-++.+++++.+.-..++.+=-..||.+.|
T Consensus 52 ~q~~~~~km~~iqP~~~~i~~k~k~d~~~~~~e~~~Lyk~~~ 93 (223)
T PRK00145 52 KQTKSSLRMNEIQPEIKKLQAKYKNDPQKLQQEMMKLYKEKG 93 (223)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHccHHHHHHHHHHHHHHhC
Confidence 344444556677888888888887655566666678999987
No 255
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=41.38 E-value=86 Score=19.39 Aligned_cols=43 Identities=12% Similarity=0.204 Sum_probs=34.9
Q ss_pred cccc-ceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 8 GAGE-IFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 8 ~iGe-~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m 50 (72)
.+|+ ..+.=+.+++.+.|.....-+++.|+.|+..+..-+.++
T Consensus 55 ilG~~~~i~Rt~~Qvv~~l~RRiDYV~~Ni~tleKql~~aE~kl 98 (99)
T PF13758_consen 55 ILGEGQGITRTREQVVDVLSRRIDYVQQNIETLEKQLEAAENKL 98 (99)
T ss_pred HhCCCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3454 455678899999999999999999999999998877664
No 256
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=41.30 E-value=1.1e+02 Score=23.48 Aligned_cols=27 Identities=19% Similarity=0.367 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 29 RQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 29 ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
..+++++|++++.++.....+...|-+
T Consensus 40 l~q~q~ei~~~~~~i~~~~~~~~kL~~ 66 (420)
T COG4942 40 LKQIQKEIAALEKKIREQQDQRAKLEK 66 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444333
No 257
>PF14005 YpjP: YpjP-like protein
Probab=40.97 E-value=21 Score=23.35 Aligned_cols=21 Identities=33% Similarity=0.667 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHhhhCCCcc
Q psy15717 46 IKTVMSDLKTHLYAKFGNHIK 66 (72)
Q Consensus 46 i~~~m~eLK~~LYakFG~~In 66 (72)
+..-|++...+=|-|||..|-
T Consensus 9 ~~~~~~~A~~qs~~KfG~kI~ 29 (136)
T PF14005_consen 9 IEQLMEEAEKQSYKKFGSKIG 29 (136)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 345688888888999999884
No 258
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=40.59 E-value=95 Score=19.69 Aligned_cols=29 Identities=17% Similarity=0.323 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
+.+..+.+...+..++..+..+..-...|
T Consensus 79 ~~~~~~~l~~~i~~Le~~l~~L~~~~~~l 107 (134)
T cd04779 79 VAQEVQLVCDQIDGLEHRLKQLKPIASQT 107 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445555555555555554444444
No 259
>KOG3436|consensus
Probab=40.55 E-value=64 Score=20.74 Aligned_cols=20 Identities=10% Similarity=0.340 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy15717 37 ASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 37 ~~L~~el~~i~~~m~eLK~~ 56 (72)
+.|.++++++..+++.|++.
T Consensus 15 e~L~~ql~dLK~ELa~LRv~ 34 (123)
T KOG3436|consen 15 EQLLKQLDDLKVELAQLRVA 34 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 55666666666666666654
No 260
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=40.52 E-value=98 Score=19.79 Aligned_cols=36 Identities=17% Similarity=0.390 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 27 ESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 27 ~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
.+|..+.+.|...+..+..+...|.+ +...|+||-.
T Consensus 49 ~~Q~~L~~riKevd~~~~~l~~~~~e-rqk~~~k~ae 84 (131)
T PF10158_consen 49 FDQNALAKRIKEVDQEIAKLLQQMVE-RQKRFAKFAE 84 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 33444444444444444444444443 3455666644
No 261
>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=40.44 E-value=74 Score=18.36 Aligned_cols=19 Identities=16% Similarity=0.601 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy15717 39 IEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 39 L~~el~~i~~~m~eLK~~L 57 (72)
|.+++..++.++.+|+..|
T Consensus 70 l~~~~~~l~~~l~~l~~~~ 88 (91)
T cd04766 70 LEEELAELRAELDELRARL 88 (91)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 5556666666666665554
No 262
>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=40.38 E-value=1e+02 Score=25.24 Aligned_cols=40 Identities=25% Similarity=0.440 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhhhCC
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL---YAKFGN 63 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L---YakFG~ 63 (72)
.|.++.++++++|+.++.-+.+.....+-++..| -.+||+
T Consensus 431 kl~~e~~~l~~ei~~l~~iL~~~~~l~~vi~~EL~eikkkfg~ 473 (800)
T TIGR01063 431 KLQEEYKELLELIADLEDILASEERVLEIIREELEEIKEQFGD 473 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHhCC
Confidence 4455555666666666555544333333333322 237886
No 263
>PRK05260 condesin subunit F; Provisional
Probab=40.29 E-value=1.1e+02 Score=23.62 Aligned_cols=54 Identities=26% Similarity=0.398 Sum_probs=38.9
Q ss_pred ccccccccceeecchhHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHh
Q psy15717 4 VERNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASI------------EQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 4 ~v~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L------------~~el~~i~~~m~eLK~~LYa 59 (72)
+..|.++|.|=.++. .|..+.+.+..++++|..| +.-+++.-..++||+..|-+
T Consensus 159 ~LkySVaeifd~Idl--~QR~mDeqQ~~vk~eIA~LL~qdW~~AI~~Ce~LLdEtsgtLRELqdtL~a 224 (440)
T PRK05260 159 PLKYSVAEIFDSIDL--TQRLMDEQQQQVKDDIAQLLNKDWRAAISSCELLLSETSGTLRELQDTLEA 224 (440)
T ss_pred cCcCcHHHHHhhhhh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 345788888876654 5677778888887777655 55677777788888877755
No 264
>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=40.26 E-value=1.3e+02 Score=24.59 Aligned_cols=42 Identities=14% Similarity=0.261 Sum_probs=27.6
Q ss_pred cchhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQNIK-SDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~-~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
++..+|+-.|+=..-++. .++++|+.+.+++.+++.+|+..|
T Consensus 408 ~~~~qa~~il~m~L~~Lt~~e~~kl~~e~~~l~~ei~~l~~iL 450 (800)
T TIGR01063 408 LSEIQAQAILDMRLQRLTGLEREKLQEEYKELLELIADLEDIL 450 (800)
T ss_pred CCHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566655555444444 567777777777777777777765
No 265
>PRK11546 zraP zinc resistance protein; Provisional
Probab=40.25 E-value=71 Score=20.92 Aligned_cols=22 Identities=14% Similarity=0.501 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 35 DIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 35 ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.|.+|..|+.++..+|.++++.
T Consensus 90 kI~aL~kEI~~Lr~kL~e~r~~ 111 (143)
T PRK11546 90 KINAVAKEMENLRQSLDELRVK 111 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3666666777777666666653
No 266
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=40.24 E-value=1e+02 Score=20.18 Aligned_cols=11 Identities=27% Similarity=0.395 Sum_probs=4.3
Q ss_pred HHHHHHHHHHH
Q psy15717 47 KTVMSDLKTHL 57 (72)
Q Consensus 47 ~~~m~eLK~~L 57 (72)
..+..+||..|
T Consensus 160 ~~ei~~lk~el 170 (192)
T PF05529_consen 160 SEEIEKLKKEL 170 (192)
T ss_pred HHHHHHHHHHH
Confidence 33334444333
No 267
>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6. In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.
Probab=40.23 E-value=1.7e+02 Score=22.41 Aligned_cols=42 Identities=7% Similarity=0.325 Sum_probs=36.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYak 60 (72)
+...-+++..+.++..+.+.|-+++++++.-+.+||+....+
T Consensus 198 ~~~R~~~~~~k~~L~~~sd~Ll~kVdDLQD~VE~LRkDV~~R 239 (424)
T PF03915_consen 198 DSNRAYMESGKKKLSEESDRLLTKVDDLQDLVEDLRKDVVQR 239 (424)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 355779999999999999999999999999999999887654
No 268
>KOG0979|consensus
Probab=40.11 E-value=95 Score=26.59 Aligned_cols=49 Identities=16% Similarity=0.327 Sum_probs=33.6
Q ss_pred ceeecchhHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 12 IFVDLIKRNSEK--SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 12 ~Fv~l~~e~a~e--~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYak 60 (72)
+|+-++..-.++ ..+++...+...+..+...++.|..+|+++|..+-.+
T Consensus 853 ~~~n~ne~~vq~y~~r~~el~~l~~~~~~~~~~le~i~~kl~~~ke~w~~~ 903 (1072)
T KOG0979|consen 853 KFENVNEDAVQQYEVREDELRELETKLEKLSEDLERIKDKLSDVKEVWLPK 903 (1072)
T ss_pred HHhcCChHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHhhHHHHHHHH
Confidence 455555543332 4555666777888888888889999999988876543
No 269
>PRK13979 DNA topoisomerase IV subunit A; Provisional
Probab=40.11 E-value=94 Score=26.14 Aligned_cols=41 Identities=22% Similarity=0.402 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhhhCC
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL---YAKFGN 63 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L---YakFG~ 63 (72)
+.|+++.+++.++|+.++.-+.+-....+-+|..| -.|||+
T Consensus 449 ~kl~~E~~eL~~~I~~l~~iL~~~~~l~~vi~~EL~eik~kygd 492 (957)
T PRK13979 449 VAFEKEYKELEKLIKKLTKILSSEKELLKVIKKELKEVKEKYGD 492 (957)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCC
Confidence 34566666677777777666555555555555444 358887
No 270
>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=39.96 E-value=89 Score=19.15 Aligned_cols=27 Identities=22% Similarity=0.390 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
+.+...+..|+.++..+...+..|...
T Consensus 83 ~~l~~~~~~l~~~~~~l~~~~~~L~~~ 109 (118)
T cd04776 83 EKIEKRRAELEQQRRDIDAALAELDAA 109 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555444443
No 271
>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.
Probab=39.89 E-value=42 Score=24.30 Aligned_cols=33 Identities=9% Similarity=0.257 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.+++..+..++.+...+.++..+..++..|+..
T Consensus 225 ~a~~~l~~~~~~L~~~~~~l~~l~~~l~~l~~~ 257 (344)
T PF12777_consen 225 EAEAELEEAEEQLAEKQAELAELEEKLAALQKE 257 (344)
T ss_dssp HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444444444444444444
No 272
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=39.87 E-value=1.5e+02 Score=23.82 Aligned_cols=36 Identities=14% Similarity=0.315 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhh
Q psy15717 24 SLEESRQNIKSDIASIEQTM----SSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el----~~i~~~m~eLK~~LYak 60 (72)
.+++..+++.++|+.++.-+ +-+..++.+||.. ||+
T Consensus 408 k~~~e~~~l~~~i~~~~~~L~~~~~~~~~el~~l~~k-yg~ 447 (635)
T PRK09631 408 KNQKEIRILNKELKSVEKNLKSIKGYAINFIDKLLAK-YSK 447 (635)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCC
Confidence 44555556666666665554 4456678888754 555
No 273
>TIGR00513 accA acetyl-CoA carboxylase, carboxyl transferase, alpha subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the alpha chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=39.84 E-value=1.2e+02 Score=22.19 Aligned_cols=45 Identities=9% Similarity=0.244 Sum_probs=29.5
Q ss_pred cchhHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 16 LIKRNSEKSLEESRQNIKSDI----ASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei----~~L~~el~~i~~~m~eLK~~LYak 60 (72)
++.++-...|+...+++..-- -.+..++..++.++.+|+..+|+.
T Consensus 6 ~~fe~~i~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 54 (316)
T TIGR00513 6 LDFEKPIAELEAKIESLRARSRDEDVDLSEEIERLEKRSVELTKKIFSN 54 (316)
T ss_pred hhhhHHHHHHHHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHHHHhc
Confidence 344444455555555554311 246778888999999999999985
No 274
>KOG1655|consensus
Probab=39.77 E-value=87 Score=21.94 Aligned_cols=34 Identities=9% Similarity=0.320 Sum_probs=21.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
..|-..+.+....++..|.+|..++-..+.+|+.
T Consensus 18 ~dai~~v~~r~dSve~KIskLDaeL~k~~~Qi~k 51 (218)
T KOG1655|consen 18 QDAIDSVNKRSDSVEKKISKLDAELCKYKDQIKK 51 (218)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHh
Confidence 3455566666666667777776666666666543
No 275
>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=39.76 E-value=86 Score=18.95 Aligned_cols=29 Identities=14% Similarity=0.346 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
|+.....+..+++.|+.+++.-..+..+|
T Consensus 54 L~~e~~~l~~E~e~L~~~l~~e~~Ek~~L 82 (87)
T PF12709_consen 54 LENENKALKRENEQLKKKLDTEREEKQEL 82 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444443
No 276
>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=39.67 E-value=61 Score=23.92 Aligned_cols=25 Identities=20% Similarity=0.438 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 33 KSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 33 ~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.++|+.+...+.+++.++..||+.|
T Consensus 288 RsElDe~~krL~ELrR~vr~L~k~l 312 (320)
T TIGR01834 288 RSELDEAHQRIQQLRREVKSLKKRL 312 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666666666666665
No 277
>KOG4001|consensus
Probab=39.56 E-value=95 Score=22.05 Aligned_cols=32 Identities=16% Similarity=0.332 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+..+..+..++..|+.+-+++....++||+.|
T Consensus 184 e~ek~~~~~~~k~le~~k~~Le~~ia~~k~K~ 215 (259)
T KOG4001|consen 184 ENEKTRATTEWKVLEDKKKELELKIAQLKKKL 215 (259)
T ss_pred hhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 34455555556666666666666666666554
No 278
>PF10813 DUF2733: Protein of unknown function (DUF2733); InterPro: IPR024360 The UL11 gene product of herpes simplex virus is a membrane-associated tegument protein that is incorporated into the HSV virion and functions in viral envelopment []. UL11 is acylated, which is crucial for lipid raft association [].
Probab=39.44 E-value=9.7 Score=19.03 Aligned_cols=9 Identities=56% Similarity=0.730 Sum_probs=7.0
Q ss_pred CCCccCCCC
Q psy15717 62 GNHIKLEAD 70 (72)
Q Consensus 62 G~~InLe~~ 70 (72)
|+.|||..|
T Consensus 20 G~~Inl~~d 28 (32)
T PF10813_consen 20 GNPINLYKD 28 (32)
T ss_pred CCEEechhc
Confidence 888998764
No 279
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=39.27 E-value=42 Score=17.79 Aligned_cols=32 Identities=19% Similarity=0.319 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
++...|..+=...+--..-++.++..|.++||
T Consensus 4 ~i~~~i~~iL~~~dl~~vT~k~vr~~Le~~~~ 35 (54)
T PF08766_consen 4 EIREAIREILREADLDTVTKKQVREQLEERFG 35 (54)
T ss_dssp HHHHHHHHHHTTS-GGG--HHHHHHHHHHH-S
T ss_pred HHHHHHHHHHHhCCHhHhhHHHHHHHHHHHHC
Confidence 34444444444444445567889999999995
No 280
>KOG3684|consensus
Probab=39.21 E-value=86 Score=24.54 Aligned_cols=37 Identities=14% Similarity=0.334 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
+....+-..++.+++.|+.|+.+++.+...|+.|+-.
T Consensus 434 d~~~~l~~~q~~le~qI~~Le~kl~~l~~~l~s~~~~ 470 (489)
T KOG3684|consen 434 DLLQELHSRQEELEKQIDTLESKLEALTASLSSLPGL 470 (489)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchh
Confidence 3445566777888888888888888888887776543
No 281
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=39.16 E-value=1.3e+02 Score=23.50 Aligned_cols=41 Identities=10% Similarity=0.326 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
.+..|+....++..+.+.|.++.......+.+|..+|=+..
T Consensus 103 i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~l~~~l~~~~ 143 (472)
T TIGR03752 103 IQQAVQSETQELTKEIEQLKSERQQLQGLIDQLQRRLAGVL 143 (472)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 34445555566666777777777777777777777774433
No 282
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=39.15 E-value=1e+02 Score=22.17 Aligned_cols=35 Identities=11% Similarity=0.434 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
--+.|+.....++.+.+.++.++...+++...++.
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 41 (364)
T TIGR01242 7 RIRKLEDEKRSLEKEKIRLERELERLRSEIERLRS 41 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 34577888888888888999999998888887764
No 283
>PRK05560 DNA gyrase subunit A; Validated
Probab=39.06 E-value=1e+02 Score=25.14 Aligned_cols=42 Identities=19% Similarity=0.268 Sum_probs=23.4
Q ss_pred ecchhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 15 DLIKRNSEKSLEESRQNIK-SDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke~l~-~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.++..+|+-.|+=..-++. .++.+|+++++++.+++++|+..
T Consensus 410 ~~~~~qa~~IL~m~L~~LT~~e~~kL~~E~~~l~~ei~~l~~i 452 (805)
T PRK05560 410 GLSEIQAQAILDMRLQRLTGLERDKIEDEYKELLALIADLKDI 452 (805)
T ss_pred CCCHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666654444443 45566666666666666555554
No 284
>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]
Probab=39.03 E-value=1.3e+02 Score=20.87 Aligned_cols=38 Identities=13% Similarity=0.400 Sum_probs=23.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
++..+.++.........+++|+..+..++.++.++|+.
T Consensus 98 e~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~~~ 135 (225)
T COG1842 98 EDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELRAK 135 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555566666666666677777777776666654
No 285
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=38.86 E-value=1.2e+02 Score=20.45 Aligned_cols=23 Identities=9% Similarity=0.393 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 34 SDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 34 ~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.+..++++.+.+++.++.+|+.+
T Consensus 124 ~~~~~~e~~i~~Le~ki~el~~~ 146 (190)
T PF05266_consen 124 AELKELESEIKELEMKILELQRQ 146 (190)
T ss_pred HhhhhHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555554
No 286
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=38.80 E-value=72 Score=25.34 Aligned_cols=31 Identities=19% Similarity=0.398 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 29 RQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 29 ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
.++++.+|+..+++++.+++.-.+|+++|-.
T Consensus 332 l~kl~~eie~kEeei~~L~~~~d~L~~q~~k 362 (622)
T COG5185 332 LEKLKSEIELKEEEIKALQSNIDELHKQLRK 362 (622)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHh
Confidence 4578888888888888999999999888754
No 287
>COG5449 Uncharacterized conserved protein [Function unknown]
Probab=38.78 E-value=19 Score=25.07 Aligned_cols=13 Identities=38% Similarity=0.616 Sum_probs=10.6
Q ss_pred HHHhhhCCCccCC
Q psy15717 56 HLYAKFGNHIKLE 68 (72)
Q Consensus 56 ~LYakFG~~InLe 68 (72)
..-+||||.||.-
T Consensus 187 TC~akF~N~vNFR 199 (225)
T COG5449 187 TCKAKFGNGVNFR 199 (225)
T ss_pred HHHHHhCCccccC
Confidence 4678999999974
No 288
>cd08637 DNA_pol_A_pol_I_C Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. Family A polymerase (polymerase I) functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I (pol I) ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). Prokaryotic Pol Is have two functional domains located on the same polypeptide; a 5'-3' polymerase and 5'-3' exonuc
Probab=38.60 E-value=67 Score=23.65 Aligned_cols=33 Identities=12% Similarity=0.394 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhCCCccCCC
Q psy15717 37 ASIEQTMSSIKTVMSDLKTHLYAKFGNHIKLEA 69 (72)
Q Consensus 37 ~~L~~el~~i~~~m~eLK~~LYakFG~~InLe~ 69 (72)
+.|..-...+..++.+|...+|.-.|..+|+..
T Consensus 3 ~~l~~~~~~~~~~~~~l~~~~~~l~g~~fn~~S 35 (377)
T cd08637 3 EYLEELSEELEKELAELEEEIYELAGEEFNINS 35 (377)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCC
Confidence 456666677778888888888888898888753
No 289
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=38.56 E-value=1.6e+02 Score=21.63 Aligned_cols=36 Identities=19% Similarity=0.333 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
..++...++++..+..+..+++.+..++..|+..+-
T Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (389)
T PRK03992 11 SELEEQIRQLELKLRDLEAENEKLERELERLKSELE 46 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566667777777777777777777777777763
No 290
>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=38.54 E-value=71 Score=19.54 Aligned_cols=22 Identities=14% Similarity=0.407 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~e 52 (72)
+++.+|++|+++++..+.+-.+
T Consensus 6 ~I~~eIekLqe~lk~~e~keaE 27 (92)
T PF07820_consen 6 KIREEIEKLQEQLKQAETKEAE 27 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4555566666555555555444
No 291
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=38.28 E-value=1.1e+02 Score=19.92 Aligned_cols=33 Identities=24% Similarity=0.441 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.|.+...-++..++.|+.++..+...++++...
T Consensus 10 ~l~a~lq~l~~qie~L~~~i~~l~~~~~e~~~~ 42 (145)
T COG1730 10 ELAAQLQILQSQIESLQAQIAALNAAISELQTA 42 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555556666666666666666666555543
No 292
>PRK11519 tyrosine kinase; Provisional
Probab=38.23 E-value=78 Score=25.23 Aligned_cols=49 Identities=4% Similarity=0.153 Sum_probs=29.1
Q ss_pred cccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 7 NGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 7 y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
-.+.++|+....+.-.+......+=+++++..++.+++..+..+.+.|.
T Consensus 247 N~l~~~Yi~~~~~~k~~~a~~a~~fL~~ql~~l~~~L~~aE~~l~~fr~ 295 (719)
T PRK11519 247 NSITRNYLEQNIERKSEEASKSLAFLAQQLPEVRSRLDVAENKLNAFRQ 295 (719)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677766666555555555555666666666666666555555543
No 293
>COG1345 FliD Flagellar capping protein [Cell motility and secretion]
Probab=38.17 E-value=72 Score=24.67 Aligned_cols=33 Identities=12% Similarity=0.359 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 29 RQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 29 ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
...+...|..|..++.....++..+-..+|++|
T Consensus 424 ~~~l~~~i~~l~~~i~~~~~rl~~~e~~~~~qf 456 (483)
T COG1345 424 TDSLNKQIKSLDKDIKSLDKRLEAAEERYKTQF 456 (483)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555555555566655
No 294
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=38.15 E-value=1.2e+02 Score=20.09 Aligned_cols=33 Identities=12% Similarity=0.356 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+......+.+++..+...+..+...+.+....|
T Consensus 27 ~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L 59 (188)
T PF10018_consen 27 NQARIQQLRAEIEELDEQIRDILKQLKEARKEL 59 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555666777777777777776666655554
No 295
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=38.04 E-value=15 Score=21.53 Aligned_cols=12 Identities=33% Similarity=0.501 Sum_probs=9.0
Q ss_pred HHHhhhCCCccC
Q psy15717 56 HLYAKFGNHIKL 67 (72)
Q Consensus 56 ~LYakFG~~InL 67 (72)
..=+||+|.+|-
T Consensus 59 tC~~kF~N~~NF 70 (80)
T PF09356_consen 59 TCRAKFNNALNF 70 (80)
T ss_pred HHHHHhCCcccc
Confidence 345799999884
No 296
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=38.03 E-value=80 Score=18.06 Aligned_cols=17 Identities=12% Similarity=0.319 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy15717 27 ESRQNIKSDIASIEQTM 43 (72)
Q Consensus 27 ~~ke~l~~ei~~L~~el 43 (72)
+...-++.+|++|+.++
T Consensus 32 eRIalLq~EIeRlkAe~ 48 (65)
T COG5509 32 ERIALLQAEIERLKAEL 48 (65)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334444444444443
No 297
>PF09766 FimP: Fms-interacting protein; InterPro: IPR019163 This entry represents Thoc5 which is one of the subunits of the THO complex, which additionally contains: HPR1, Thoc2, Thoc6 and Thoc7. The evolutionarily conserved multisubunit THO complex, which is recruited to actively transcribed genes is required for the efficient expression of genes that have internal tandem repeats. It is suggested that the THO complex functions to rectify aberrant structures that arise during transcription [, ] and is required for cell proliferation and for proper export of heat-shock mRNAs under heat stress []. This entry also identifies the crucial 144 N-terminal residues of the FmiP protein, which is essential for the binding of the protein to the cytoplasmic domain of activated Fms-molecules in M-CSF induced haematopoietic differentiation of macrophages. The C terminus contains a putative nuclear localisation sequence and a leucine zipper which suggest further, as yet unknown, nuclear functions. The level of FMIP expression might form a threshold that determines whether cells differentiate into macrophages or into granulocytes [].
Probab=38.00 E-value=1.6e+02 Score=21.59 Aligned_cols=38 Identities=21% Similarity=0.303 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
...|.+..++++++..++..+....+..++.|...|-+
T Consensus 103 Rk~L~~~~~el~~~k~~l~~~~~~k~~~L~~l~~~L~~ 140 (355)
T PF09766_consen 103 RKRLEEQLKELEQRKKKLQQENKKKKKFLDSLPPQLKS 140 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 34667777788888888888888888888888777753
No 298
>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=37.98 E-value=96 Score=18.98 Aligned_cols=24 Identities=13% Similarity=0.282 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTM 43 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el 43 (72)
.+...|+...+.++.+|.+|+.-.
T Consensus 79 ~~~~~l~~~~~~l~~~i~~L~~~~ 102 (127)
T cd04784 79 EVNALIDEHLAHVRARIAELQALE 102 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445544455555554444333
No 299
>PF13015 PRKCSH_1: Glucosidase II beta subunit-like protein
Probab=37.98 E-value=54 Score=21.47 Aligned_cols=25 Identities=8% Similarity=0.303 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m 50 (72)
++..++++..+..++.++..++..+
T Consensus 2 ~~~~~~~e~~~~~l~~~i~~~~~~l 26 (154)
T PF13015_consen 2 EKEIDEAERKLSDLESKIRELEDDL 26 (154)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445556666666666666665554
No 300
>KOG3856|consensus
Probab=37.89 E-value=1.1e+02 Score=19.83 Aligned_cols=34 Identities=18% Similarity=0.448 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 30 QNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
+.+.+|+.++-.+-.+....+..|-.+.|++=|.
T Consensus 13 e~~kaEL~elikkrqe~eetl~nLe~qIY~~Egs 46 (135)
T KOG3856|consen 13 EDTKAELAELIKKRQELEETLANLERQIYAFEGS 46 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4677788888888888999999999999998664
No 301
>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=37.68 E-value=1.6e+02 Score=22.40 Aligned_cols=36 Identities=11% Similarity=0.267 Sum_probs=22.5
Q ss_pred ccee--ecchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 11 EIFV--DLIKRNSEKSLEESRQNIKSDIASIEQTMSSI 46 (72)
Q Consensus 11 e~Fv--~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i 46 (72)
+|++ .-|..-=.+.+++...+|+++|..++..++..
T Consensus 152 ~C~m~~~~p~~vQ~~L~~~Rl~~L~~qi~~~~~~l~~~ 189 (475)
T PF10359_consen 152 DCLMGDNDPRRVQIELIQERLDELEEQIEKHEEKLGEL 189 (475)
T ss_pred eeEeecCCcchHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 4666 33333344467777777777777777776663
No 302
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=37.67 E-value=1.3e+02 Score=22.11 Aligned_cols=46 Identities=11% Similarity=0.302 Sum_probs=31.2
Q ss_pred cchhHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 16 LIKRNSEKSLEESRQNIKSDI----ASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei----~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
++.++--..|+...+++..-- -.+.+++..++.+..+|++.+|+..
T Consensus 6 l~fe~~i~~l~~~i~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l 55 (319)
T PRK05724 6 LDFEKPIAELEAKIEELRAVAEDSDVDLSEEIERLEKKLEELTKKIYSNL 55 (319)
T ss_pred hhhhhHHHHHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHHHhcCC
Confidence 455555556666655554421 2367788889999999999999864
No 303
>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []. Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus
Probab=37.67 E-value=71 Score=26.08 Aligned_cols=35 Identities=17% Similarity=0.385 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
.+.+++.+..+|-+|.+-+...+.+..-|+++|-|
T Consensus 581 ~d~d~e~l~eqilKLKSLLSTKREQIaTLRTVLKA 615 (717)
T PF09730_consen 581 ADKDKEELQEQILKLKSLLSTKREQIATLRTVLKA 615 (717)
T ss_pred ccccHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36788899999999999999999999999999976
No 304
>COG1566 EmrA Multidrug resistance efflux pump [Defense mechanisms]
Probab=37.66 E-value=1.7e+02 Score=21.74 Aligned_cols=26 Identities=15% Similarity=0.298 Sum_probs=20.4
Q ss_pred ccccccccceeecchhHHHHHHHHHH
Q psy15717 4 VERNGAGEIFVDLIKRNSEKSLEESR 29 (72)
Q Consensus 4 ~v~y~iGe~Fv~l~~e~a~e~LE~~k 29 (72)
+-..+=|++.|.++....+-.|++.+
T Consensus 72 nq~Vk~Gd~L~~iD~~~y~~al~qAe 97 (352)
T COG1566 72 NQLVKKGDVLFRIDPRDYRAALEQAE 97 (352)
T ss_pred CCEecCCCeEEEECcHHHHHHHHHHH
Confidence 44567899999999999887777544
No 305
>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=37.64 E-value=67 Score=17.06 Aligned_cols=14 Identities=43% Similarity=0.532 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIA 37 (72)
Q Consensus 24 ~LE~~ke~l~~ei~ 37 (72)
.+....+++++.|+
T Consensus 40 ~l~~~~~~i~~~i~ 53 (65)
T PF09278_consen 40 LLEEKLEEIEEQIA 53 (65)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 306
>KOG2391|consensus
Probab=37.59 E-value=1.4e+02 Score=22.60 Aligned_cols=25 Identities=8% Similarity=0.295 Sum_probs=10.9
Q ss_pred eeecchhHHHHHHHHHHHHHHHHHH
Q psy15717 13 FVDLIKRNSEKSLEESRQNIKSDIA 37 (72)
Q Consensus 13 Fv~l~~e~a~e~LE~~ke~l~~ei~ 37 (72)
-++...+......++..+++.++++
T Consensus 211 visa~~eklR~r~eeeme~~~aeq~ 235 (365)
T KOG2391|consen 211 VISAVREKLRRRREEEMERLQAEQE 235 (365)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444443333
No 307
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=37.42 E-value=1.1e+02 Score=24.79 Aligned_cols=42 Identities=17% Similarity=0.255 Sum_probs=22.6
Q ss_pred ecchhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 15 DLIKRNSEKSLEESRQNIK-SDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke~l~-~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.++..+|+-.|+=..-++. -++++|+.+++++..++.+|+..
T Consensus 417 ~~~~~qa~~Il~m~L~~Lt~le~~kl~~E~~~l~~ei~~l~~i 459 (742)
T PRK05561 417 DLSEIQAEAILELRLRRLAKLEEIEIRKEQDELRKEIAELEAI 459 (742)
T ss_pred CCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555666665554444433 44555555555555555555554
No 308
>KOG4603|consensus
Probab=37.41 E-value=83 Score=21.69 Aligned_cols=23 Identities=9% Similarity=0.442 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 32 IKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 32 l~~ei~~L~~el~~i~~~m~eLK 54 (72)
++++|.+|..++.....++..+|
T Consensus 121 mQe~i~~L~kev~~~~erl~~~k 143 (201)
T KOG4603|consen 121 MQEEIQELKKEVAGYRERLKNIK 143 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444443
No 309
>PF12486 DUF3702: ImpA domain protein ; InterPro: IPR021069 This entry represents a conserved region located towards the C-terminal end of ImpA and related proteins. ImpA is an inner membrane protein, which has been suggested to be involved with proteins that are exported and associated with colony variations in Actinobacillus actinomycetemcomitans []. Note that many members are hypothetical proteins.
Probab=37.15 E-value=93 Score=20.38 Aligned_cols=38 Identities=18% Similarity=0.427 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHH------HHHHHHHHHh---hhCCCccCC
Q psy15717 31 NIKSDIASIEQTMSSIKTV------MSDLKTHLYA---KFGNHIKLE 68 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~------m~eLK~~LYa---kFG~~InLe 68 (72)
+....+..|.+++..++.+ .++||+..|+ -|+..|=+|
T Consensus 63 q~~~~Lq~L~~rL~~le~~rg~Y~TiSeLKT~vy~i~q~l~~~~P~E 109 (148)
T PF12486_consen 63 QGMTQLQQLADRLNQLEEQRGKYMTISELKTAVYQIQQSLNQSVPLE 109 (148)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCceeHHHHHHHHHHHHHHhcCCCCHH
Confidence 3456677777777777664 5899999996 465555443
No 310
>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=37.14 E-value=64 Score=18.78 Aligned_cols=25 Identities=16% Similarity=0.393 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhCCCc
Q psy15717 40 EQTMSSIKTVMSDLKTHLYAKFGNHI 65 (72)
Q Consensus 40 ~~el~~i~~~m~eLK~~LYakFG~~I 65 (72)
+.++..++.++. .|..+-++|++.|
T Consensus 58 ~~~i~~Le~~i~-~k~~~L~~~~~~~ 82 (83)
T PF07544_consen 58 EEEIEELEEQIR-KKREVLQKFKERV 82 (83)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHHHhh
Confidence 333333333332 3344456666554
No 311
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=37.07 E-value=1.1e+02 Score=22.06 Aligned_cols=30 Identities=3% Similarity=0.287 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~ 49 (72)
.++..+...+.+++++...|+++++.+..+
T Consensus 214 ~~q~~~~ae~seLq~r~~~l~~~L~~L~~e 243 (289)
T COG4985 214 EFQQHYVAEKSELQKRLAQLQTELDALRAE 243 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 344444444455555554444444444433
No 312
>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=37.05 E-value=1e+02 Score=19.04 Aligned_cols=26 Identities=12% Similarity=0.316 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSS 45 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~ 45 (72)
.....|+...+.++.+|.+|+.....
T Consensus 79 ~~~~~l~~~~~~l~~~i~~L~~~~~~ 104 (127)
T TIGR02047 79 DVNALLDEHISHVRARIIKLQALIEQ 104 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444443333
No 313
>PRK01203 prefoldin subunit alpha; Provisional
Probab=36.68 E-value=1.2e+02 Score=19.57 Aligned_cols=31 Identities=23% Similarity=0.424 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
+++...-++++++.|+.++..++...+++..
T Consensus 5 ~~~~~~~~~~q~e~l~~ql~~L~~a~se~~~ 35 (130)
T PRK01203 5 VEAQLNYIESLISSVDSQIDSLNKTLSEVQQ 35 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455666666666666666666555543
No 314
>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=36.65 E-value=92 Score=18.37 Aligned_cols=22 Identities=18% Similarity=0.425 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSI 46 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i 46 (72)
|-+.+.+++.+|.+|++++...
T Consensus 5 i~eEn~~Lk~eiqkle~ELq~~ 26 (76)
T PF07334_consen 5 IQEENARLKEEIQKLEAELQQN 26 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555443
No 315
>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=36.57 E-value=93 Score=18.43 Aligned_cols=25 Identities=8% Similarity=0.242 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
-+...+..++.++..+....+.|..
T Consensus 75 ~l~~~~~~l~~~i~~l~~~~~~l~~ 99 (102)
T cd04775 75 ILEERLQSLNREIQRLRQQQQVLAA 99 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444433
No 316
>PRK14153 heat shock protein GrpE; Provisional
Probab=36.52 E-value=1.2e+02 Score=20.72 Aligned_cols=21 Identities=14% Similarity=0.284 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i~~~m 50 (72)
..++.+|+.++.++.+...++
T Consensus 36 ~~~~~ei~~l~~e~~elkd~~ 56 (194)
T PRK14153 36 STADSETEKCREEIESLKEQL 56 (194)
T ss_pred ccchHHHHHHHHHHHHHHHHH
Confidence 344444444444444444333
No 317
>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=36.51 E-value=68 Score=21.07 Aligned_cols=24 Identities=25% Similarity=0.386 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIK 47 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~ 47 (72)
.+++-.+..+++|..|+.++..|+
T Consensus 100 ~~~~~~~~s~~~i~~l~keL~~i~ 123 (161)
T PF05873_consen 100 EAKEFEAESKKRIAELEKELANIE 123 (161)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444445555555555554444
No 318
>PF01763 Herpes_UL6: Herpesvirus UL6 like; InterPro: IPR002660 This family consists of various proteins from the Herpesviridae that are similar to Human herpesvirus 1 (HHV-1) UL6 virion protein. UL6 is essential for cleavage and packaging of the viral genome [].; GO: 0006323 DNA packaging
Probab=36.48 E-value=1.7e+02 Score=23.30 Aligned_cols=40 Identities=18% Similarity=0.281 Sum_probs=34.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
...-..||....+.=.+|+.|++.-+....+.++++..|=
T Consensus 362 nsI~kcLe~qIn~qf~tIe~Lk~~n~~~~~kl~~~e~~L~ 401 (557)
T PF01763_consen 362 NSINKCLEGQINNQFDTIEDLKEENQDLEKKLRELESELS 401 (557)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566789999999999999999999999999999998873
No 319
>PRK14161 heat shock protein GrpE; Provisional
Probab=36.42 E-value=1.3e+02 Score=20.13 Aligned_cols=37 Identities=11% Similarity=0.224 Sum_probs=21.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
..+...-+++..+..++++..|+.++.+...+.-.+.
T Consensus 10 ~~~~~~~~~~~~~~~~~ei~~l~~e~~elkd~~lR~~ 46 (178)
T PRK14161 10 EQTINDIAEEIVETANPEITALKAEIEELKDKLIRTT 46 (178)
T ss_pred HHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445566666666666666666666555554433
No 320
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=36.23 E-value=1.2e+02 Score=19.77 Aligned_cols=34 Identities=18% Similarity=0.244 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.+.|+..+.++..+|.+-.+.+.++..+...+|.
T Consensus 3 ~~~Le~ek~~~~~rI~~K~~~LqEL~~Q~va~kn 36 (142)
T PF08781_consen 3 CEELEEEKQRRRERIKKKKEQLQELILQQVAFKN 36 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3678888999999999999999999988888885
No 321
>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=36.22 E-value=1.3e+02 Score=20.09 Aligned_cols=24 Identities=13% Similarity=0.357 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMS 44 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~ 44 (72)
..+.|.+..+.+..++..++.++.
T Consensus 70 ~~~~l~~~~~~~~~~i~~l~~~i~ 93 (188)
T PF03962_consen 70 KLEKLQKEIEELEKKIEELEEKIE 93 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444455555554444433
No 322
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=36.14 E-value=1.6e+02 Score=21.10 Aligned_cols=21 Identities=10% Similarity=0.363 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy15717 34 SDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 34 ~ei~~L~~el~~i~~~m~eLK 54 (72)
.++..++.+++.+..++.+|.
T Consensus 237 ~el~~l~~~i~~~~~~k~~l~ 257 (325)
T PF08317_consen 237 EELEELEEKIEELEEQKQELL 257 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333333
No 323
>PF00677 Lum_binding: Lumazine binding domain; InterPro: IPR001783 The following proteins have been shown [, ] to be structurally and evolutionary related: Riboflavin synthase alpha chain (2.5.1.9 from EC) (RS-alpha) (gene ribC in Escherichia coli, ribB in Bacillus subtilis and Photobacterium leiognathi, RIB5 in yeast. This enzyme synthesises riboflavin from two moles of 6,7- dimethyl-8-(1'-D-ribityl)lumazine (Lum), a pteridine-derivative. Photobacterium phosphoreum lumazine protein (LumP) (gene luxL). LumP is a protein that modulates the colour of the bioluminescence emission of bacterial luciferase. In the presence of LumP, light emission is shifted to higher energy values (shorter wavelength). LumP binds non-covalently to 6,7-dimethyl-8-(1'-D-ribityl)lumazine. Vibrio fischeri yellow fluorescent protein (YFP) (gene luxY). Like LumP, YFP modulates light emission but towards a longer wavelength. YFP binds non-covalently to FMN. These proteins seem to have evolved from the duplication of a domain of about 100 residues. In its C-terminal section, this domain contains a conserved motif [KR]-V-N-[LI]-E which has been proposed to be the binding site for lumazine (Lum) and some of its derivatives. RS-alpha which binds two molecules of Lum has two perfect copies of this motif, while LumP which binds one molecule of Lum, has a Glu instead of Lys/Arg in the first position of the second copy of the motif. Similarly, YFP, which binds to one molecule of FMN, also seems to have a potentially dysfunctional binding site by substitution of Gly for Glu in the last position of the first copy of the motif.; GO: 0004746 riboflavin synthase activity, 0009231 riboflavin biosynthetic process; PDB: 3DDY_A 1KZL_A 3A3G_B 3A35_B 3A3B_B 1I8D_C 1PKV_B 1HZE_B 1I18_B.
Probab=36.13 E-value=6.9 Score=22.94 Aligned_cols=11 Identities=45% Similarity=0.857 Sum_probs=6.8
Q ss_pred hhCCCccCCCC
Q psy15717 60 KFGNHIKLEAD 70 (72)
Q Consensus 60 kFG~~InLe~~ 70 (72)
|=|+.+|||.+
T Consensus 75 ~~G~~VNlE~d 85 (85)
T PF00677_consen 75 KVGDRVNLERD 85 (85)
T ss_dssp -TTSEEEEEEE
T ss_pred CCCCEEEEeEC
Confidence 34777777753
No 324
>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold). The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.
Probab=35.99 E-value=1.1e+02 Score=19.17 Aligned_cols=32 Identities=16% Similarity=0.299 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
+...|....+.....+..|+.++.++...+..
T Consensus 45 ~l~~L~~q~~s~~qr~~eLqaki~ea~~~le~ 76 (107)
T PF09304_consen 45 ALQSLQAQNASRNQRIAELQAKIDEARRNLED 76 (107)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444445555555555555555444443
No 325
>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=35.96 E-value=1.1e+02 Score=23.46 Aligned_cols=35 Identities=9% Similarity=0.331 Sum_probs=26.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
...|++.++.....|+.||..|..|++.-+.-+++
T Consensus 348 ~~~A~~~~~~~i~~LDrEI~~Lk~E~~lRk~l~~n 382 (418)
T TIGR03755 348 NKPAQQEVDKAIDKLDREINNLKTELELRKELASN 382 (418)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35678888888888888888888888766555443
No 326
>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=35.90 E-value=63 Score=19.02 Aligned_cols=37 Identities=16% Similarity=0.250 Sum_probs=16.5
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
+|.++..+.+... ....-..-+......+..++.+|.
T Consensus 58 ~~l~eI~~~l~~~--~~~~~~~~l~~~~~~l~~~i~~l~ 94 (97)
T cd04782 58 ISLKEIKDYLDNR--NPDELIELLKKQEKEIKEEIEELQ 94 (97)
T ss_pred CCHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444321 122334445555555555555554
No 327
>PF09812 MRP-L28: Mitochondrial ribosomal protein L28; InterPro: IPR019192 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Members of this family are components of the mitochondrial large ribosomal subunit. Mature mitochondrial ribosomes consist of a small (37S) and a large (54S) subunit. The 37S subunit contains at least 33 different proteins and 1 molecule of RNA (15S). The 54S subunit contains at least 45 different proteins and 1 molecule of RNA (21S) [, ].
Probab=35.86 E-value=1.2e+02 Score=19.93 Aligned_cols=33 Identities=15% Similarity=0.318 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHhh
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKTH---LYAK 60 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~~---LYak 60 (72)
.+.+-.++...|...+..+..-|.+|+.. ||..
T Consensus 83 k~~~~~~~~~~l~~~~~sq~~AleeLr~~S~eLY~a 118 (157)
T PF09812_consen 83 KQQQREAREQQLRRQYESQQKALEELRLESPELYQA 118 (157)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence 35566788899999999999999999976 8864
No 328
>PF09457 RBD-FIP: FIP domain ; InterPro: IPR019018 The Rab11 GTPase regulates recycling of internalized plasma membrane receptors and is essential for completion of cytokinesis. A family of Rab11 interacting proteins (FIPs) that conserve a C-terminal Rab-binding domain (RBD) selectively recognise the active form of Rab11. FIPs are diverse in sequence length and composition toward their N-termini, presumably a feature that underpins their specific roles in Rab11-mediated vesicle trafficking. They have been divided into three subfamilies (classe I, II, and III)on the basis of domain architecture. Class I FIPs comprises a subfamily of three proteins (Rip11/pp75/FIP5, Rab-coupling protein (RCP), and FIP2) that possess an N- terminal C2 domain, localize to recycling endosomes, and regulate plasma membrane recycling. The class II subfamily consists of two proteins (FIP3/eferin/arfophilin and FIP4) with tandem EF hands and a proline-rich region. Class II FIPs localize to recycling endosomes, the trans-Golgi network, and have been implicated in the regulation of membrane trafficking during cytokinesis. The class III subfamily consists of a single protein, FIP1, which does not contain obvious homology domains or motifs other than the FIP-RBD [, , , ]. The FIP-RBD domain is also found in Rab6-interacting protein Erc1/Elks. Erc1 is the regulatory subunit of the IKK complex and probably recruits IkappaBalpha/NFKBIA to the complex []. It may be involved in the organisation of the cytomatrix at the nerve terminals active zone (CAZ) which regulates neurotransmitter release. It may also be involved in vesicle trafficking at the CAZ, as well as in Rab-6 regulated endosomes to Golgi transport []. The FIB-RBD domain consists of an N-terminal long alpha-helix, followed by a 90 degrees bend at a conserved proline residue, a 3(10) helix and a C-terminal short beta-strand, adopting an "L" shape. The long alpha-helix forms a parallel coiled-coil homodimer that symmetrically interacts with two Rab11 molecules on both sides, forming a quaternary Rab11-(FIP)2-Rab11 complex. The Rab11-interacting region of FIP-RBD is confined to the C-terminal 24 amino acids, which cover the C-terminal half of the long alpha-helix and the short beta-strand [, , , ]. This entry represents the FIP-RBD domain.; PDB: 2HV8_E 2D7C_D 2K6S_B 2GZD_D 2GZH_B.
Probab=35.66 E-value=75 Score=17.04 Aligned_cols=27 Identities=11% Similarity=0.138 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
+++-+.+.+.+.+......++++|+..
T Consensus 3 eeL~~~l~~~e~~~~~k~~~v~eLe~Y 29 (48)
T PF09457_consen 3 EELISLLKKQEEENARKDSRVRELEDY 29 (48)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555566656666666543
No 329
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=35.56 E-value=1.2e+02 Score=19.29 Aligned_cols=30 Identities=30% Similarity=0.361 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
+-.+.++++.|..|+.+....+.-..+|++
T Consensus 24 eiERaEmkarIa~LEGE~r~~e~l~~dL~r 53 (134)
T PF08232_consen 24 EIERAEMKARIAFLEGERRGQENLKKDLKR 53 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334668888888888888866665555554
No 330
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=35.51 E-value=1.1e+02 Score=18.80 Aligned_cols=33 Identities=12% Similarity=0.315 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
...|+..+-+...|.+++++-+.+..+++.+|.
T Consensus 11 qFvEEEa~LlRRkl~ele~eN~~l~~EL~kyk~ 43 (96)
T PF11365_consen 11 QFVEEEAELLRRKLSELEDENKQLTEELNKYKS 43 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677778888899999999999888888887
No 331
>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []. Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.
Probab=35.14 E-value=1.3e+02 Score=19.83 Aligned_cols=41 Identities=15% Similarity=0.343 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
..+.+.+-+....|..+|...+.+.......+..+|..|+.
T Consensus 102 ~~~~~~~~~~i~~L~~~i~~~q~~~~~~i~~L~~f~~~l~~ 142 (184)
T PF05791_consen 102 QKDKEDLKEIIEDLQDQIQKNQDKVQALINELNDFKDKLQK 142 (184)
T ss_dssp HT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555566777777777777777777777776653
No 332
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=35.11 E-value=1.7e+02 Score=21.25 Aligned_cols=25 Identities=16% Similarity=0.364 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.+...|+...++...+..+.+++.+
T Consensus 236 ~l~~~I~~~~~~k~e~~~~I~~ae~ 260 (312)
T smart00787 236 ELESKIEDLTNKKSELNTEIAEAEK 260 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444433
No 333
>TIGR01730 RND_mfp RND family efflux transporter, MFP subunit. This model represents the MFP (membrane fusion protein) component of the RND family of transporters. RND refers to Resistance, Nodulation, and cell Division. It is, in part, a subfamily of pfam00529 (Pfam release 7.5) but hits substantial numbers of proteins missed by that model. The related HlyD secretion protein, for which pfam00529 is named, is outside the scope of this model. Attributed functions imply outward transport. These functions include nodulation, acriflavin resistance, heavy metal efflux, and multidrug resistance proteins. Most members of this family are found in Gram-negative bacteria. The proposed function of MFP proteins is to bring the inner and outer membranes together and enable transport to the outside of the outer membrane. Note, however, that a few members of this family are found in Gram-positive bacteria, where there is no outer membrane.
Probab=35.06 E-value=1.5e+02 Score=20.22 Aligned_cols=21 Identities=14% Similarity=0.308 Sum_probs=15.2
Q ss_pred ccccccceeecchhHHHHHHH
Q psy15717 6 RNGAGEIFVDLIKRNSEKSLE 26 (72)
Q Consensus 6 ~y~iGe~Fv~l~~e~a~e~LE 26 (72)
..+-|+.-+.++....+..+.
T Consensus 47 ~V~kG~~L~~l~~~~~~~~~~ 67 (322)
T TIGR01730 47 KVKKGQVLARLDDDDYQLALQ 67 (322)
T ss_pred EEcCCCEEEEECCHHHHHHHH
Confidence 345688888998887766654
No 334
>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12).
Probab=35.02 E-value=1.7e+02 Score=21.34 Aligned_cols=31 Identities=13% Similarity=0.321 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 27 ESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 27 ~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
....++...|......+++.+.++..|+..+
T Consensus 74 ~~~~k~~~si~~q~~~i~~l~~~i~~l~~~i 104 (301)
T PF06120_consen 74 ANIAKAEESIAAQKRAIEDLQKKIDSLKDQI 104 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555556666666666666666666555
No 335
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=34.90 E-value=1.1e+02 Score=18.68 Aligned_cols=27 Identities=11% Similarity=0.100 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.++.++.+|+.++..+.-+..=||+.+
T Consensus 75 ~~~~ei~~L~~el~~L~~E~diLKKa~ 101 (121)
T PRK09413 75 AAMKQIKELQRLLGKKTMENELLKEAV 101 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666666666666666666553
No 336
>CHL00198 accA acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional
Probab=34.78 E-value=1.6e+02 Score=21.69 Aligned_cols=46 Identities=13% Similarity=0.134 Sum_probs=32.3
Q ss_pred cchhHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 16 LIKRNSEKSLEESRQNIKSDI----ASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei----~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
++.++-...||...+++..-- -.+.+++..++.+..+|+..+|+..
T Consensus 9 l~fe~~i~el~~~i~~l~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~l 58 (322)
T CHL00198 9 PDFMKPLAELESQVEELSKLAPKNDKVINNKLKSFQRKLRILKKEIFYSL 58 (322)
T ss_pred cchhhhHHHHHHHHHHHHhhhcccccCHHHHHHHHHHHHHHHHHHHHhcC
Confidence 455555566666666655411 2467789999999999999999875
No 337
>PRK14145 heat shock protein GrpE; Provisional
Probab=34.48 E-value=79 Score=21.65 Aligned_cols=25 Identities=8% Similarity=0.177 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
....++..|..++..++.+..+|+.
T Consensus 42 ~~~~e~~~l~~~l~~le~e~~el~d 66 (196)
T PRK14145 42 QTVDEIEELKQKLQQKEVEAQEYLD 66 (196)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555555555555444443
No 338
>KOG0963|consensus
Probab=34.37 E-value=1.8e+02 Score=23.57 Aligned_cols=40 Identities=25% Similarity=0.387 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHhhhCCCcc
Q psy15717 24 SLEESRQNIKSDIASIEQT------MSSIKTVMSDLKTHLYAKFGNHIK 66 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~e------l~~i~~~m~eLK~~LYakFG~~In 66 (72)
.||+.......+++++..+ +++|+.+++-||.. .||+++-
T Consensus 321 ~le~~l~~~~~~leel~~kL~~~sDYeeIK~ELsiLk~i---ef~~se~ 366 (629)
T KOG0963|consen 321 ALEKELKAKISELEELKEKLNSRSDYEEIKKELSILKAI---EFGDSEE 366 (629)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccHHHHHHHHHHHHHh---hcCCccc
Confidence 4555555556666666544 56788888888886 6776664
No 339
>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=34.36 E-value=1.2e+02 Score=21.30 Aligned_cols=48 Identities=10% Similarity=0.209 Sum_probs=33.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCc
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNHI 65 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~I 65 (72)
.......+-.+-++......+|++++......+..|+..+=.-=.|||
T Consensus 77 ~~siLpIVtsQRDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~ 124 (248)
T PF08172_consen 77 DSSILPIVTSQRDRFRQRNAELEEELRKQQQTISSLRREVESLRADNV 124 (248)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556677777788888888888888888888888776654433443
No 340
>PF13991 BssS: BssS protein family
Probab=34.35 E-value=88 Score=18.32 Aligned_cols=26 Identities=15% Similarity=0.114 Sum_probs=19.0
Q ss_pred ceeecchhHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 12 IFVDLIKRNSEKSLEESRQNIKSDIASIEQ 41 (72)
Q Consensus 12 ~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~ 41 (72)
-|+-++.+.|+.++. .|++-|+++++
T Consensus 38 ~~~~lT~e~Ar~Li~----~L~~~I~kiE~ 63 (73)
T PF13991_consen 38 RTYWLTTEMARQLIS----ILEAGIDKIES 63 (73)
T ss_pred ceeEecHHHHHHHHH----HHHHHHHHHHh
Confidence 367788888888777 66777777765
No 341
>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=34.27 E-value=1.1e+02 Score=18.47 Aligned_cols=9 Identities=11% Similarity=-0.012 Sum_probs=3.4
Q ss_pred chhHHHHHH
Q psy15717 17 IKRNSEKSL 25 (72)
Q Consensus 17 ~~e~a~e~L 25 (72)
|.+++.+.+
T Consensus 58 sl~eI~~~l 66 (112)
T cd01282 58 TLEEIREFL 66 (112)
T ss_pred CHHHHHHHH
Confidence 333333333
No 342
>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=34.21 E-value=44 Score=22.61 Aligned_cols=20 Identities=20% Similarity=0.471 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy15717 37 ASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 37 ~~L~~el~~i~~~m~eLK~~ 56 (72)
..|+..+..+..++.+||..
T Consensus 2 ~~LE~~~~~l~~e~~~Lk~~ 21 (176)
T PF10737_consen 2 QRLEQRLQELQQELEELKQQ 21 (176)
T ss_pred hHHHHHHHHHHHHHHHHHhC
Confidence 45666666666666666653
No 343
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=34.16 E-value=1.8e+02 Score=21.50 Aligned_cols=47 Identities=17% Similarity=0.184 Sum_probs=34.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHhhhCC
Q psy15717 17 IKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH------LYAKFGN 63 (72)
Q Consensus 17 ~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~------LYakFG~ 63 (72)
+..+|.-.|-++.++-+.+-+......+.++.+...||+. -++.||+
T Consensus 6 SK~eAL~IL~~eLe~cq~ErDqyKlMAEqLqer~q~LKkk~~el~~~~~~~~d 58 (319)
T PF09789_consen 6 SKSEALLILSQELEKCQSERDQYKLMAEQLQERYQALKKKYRELIQEAAGFGD 58 (319)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccCC
Confidence 3456667777777777778777777777777777777773 3677885
No 344
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=34.13 E-value=1.7e+02 Score=21.66 Aligned_cols=43 Identities=12% Similarity=0.312 Sum_probs=35.7
Q ss_pred ecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 15 DLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.+-.|.|+-.|-.....+..-|..|...+...+..++.|....
T Consensus 312 ElcrD~~q~~L~~Ev~~l~~~i~~L~~~L~~a~~~l~~L~~~~ 354 (384)
T PF03148_consen 312 ELCRDPPQYGLIEEVKELRESIEALQEKLDEAEASLQKLERTR 354 (384)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788888888889999999999999999999998887654
No 345
>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=34.11 E-value=41 Score=22.54 Aligned_cols=22 Identities=9% Similarity=0.518 Sum_probs=3.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 29 RQNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 29 ke~l~~ei~~L~~el~~i~~~m 50 (72)
++.|..++-+|.+|+.+++.++
T Consensus 26 KE~L~~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 26 KENLREEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHCH--------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444444
No 346
>PF10400 Vir_act_alpha_C: Virulence activator alpha C-term; InterPro: IPR018309 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response []. This entry represents the C-terminal domain.; PDB: 1YG2_A.
Probab=34.06 E-value=90 Score=17.50 Aligned_cols=34 Identities=24% Similarity=0.255 Sum_probs=24.9
Q ss_pred ecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 15 DLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKT 48 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~ 48 (72)
+++.+.+...|++..+.....+..++.-...+..
T Consensus 16 ~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~ 49 (90)
T PF10400_consen 16 HLDPEEAIELLEERREQHEERLAEYEEIEQEIFS 49 (90)
T ss_dssp TS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4688888888888888888888887776655433
No 347
>PF13905 Thioredoxin_8: Thioredoxin-like; PDB: 1FG4_A 1I5G_A 1OC8_B 1O6J_A 1OC9_B 1O81_A 3FKF_A 1O85_A 1O7U_A 1O8W_A ....
Probab=33.95 E-value=42 Score=18.73 Aligned_cols=22 Identities=27% Similarity=0.567 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHhhhC--CCcc
Q psy15717 44 SSIKTVMSDLKTHLYAKFG--NHIK 66 (72)
Q Consensus 44 ~~i~~~m~eLK~~LYakFG--~~In 66 (72)
..|...+..|+. ||.+|+ +.|+
T Consensus 14 ~~c~~~~~~l~~-l~~~~~~~~~v~ 37 (95)
T PF13905_consen 14 PPCKKELPKLKE-LYKKYKKKDDVE 37 (95)
T ss_dssp HHHHHHHHHHHH-HHHHHTTTTTEE
T ss_pred HHHHHHHHHHHH-HHHHhCCCCCEE
Confidence 346677777776 888888 5443
No 348
>PF01496 V_ATPase_I: V-type ATPase 116kDa subunit family ; InterPro: IPR002490 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. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents the 116kDa subunit (or subunit a) and subunit I found in the V0 or A0 complex of V- or A-ATPases, respectively. The 116kDa subunit is a transmembrane glycoprotein required for the assembly and proton transport activity of the ATPase complex. Several isoforms of the 116kDa subunit exist, providing a potential role in the differential targeting and regulation of the V-ATPase for specific organelles []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033177 proton-transporting two-sector ATPase complex, proton-transporting domain; PDB: 2RPW_X 2NVJ_A 2JTW_A 3RRK_A.
Probab=33.88 E-value=1.1e+02 Score=24.50 Aligned_cols=26 Identities=19% Similarity=0.451 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSS 45 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~ 45 (72)
++.+.+++..++++++++.+++++..
T Consensus 229 e~~~~l~~~i~~l~~~~~~~~~~l~~ 254 (759)
T PF01496_consen 229 EAIKELEEEIEELEKELEELEEELKK 254 (759)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555555544443
No 349
>PF13166 AAA_13: AAA domain
Probab=33.76 E-value=1.2e+02 Score=23.71 Aligned_cols=32 Identities=13% Similarity=0.373 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.....+...+..++..+..+..+..+|+..+
T Consensus 423 ~~~i~~~~~~~~~~~~~~~~~~~~i~~l~~~~ 454 (712)
T PF13166_consen 423 EKEINSLEKKLKKAKEEIKKIEKEIKELEAQL 454 (712)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444555555555555555555555443
No 350
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=33.65 E-value=82 Score=23.88 Aligned_cols=27 Identities=11% Similarity=0.244 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMS 51 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~ 51 (72)
|..+...+++|+++|+.++..++++|.
T Consensus 37 Lr~EN~~LKkEN~~Lk~eVerLE~e~l 63 (420)
T PF07407_consen 37 LRMENHSLKKENNDLKIEVERLENEML 63 (420)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHhh
Confidence 445556666666666666666665554
No 351
>COG5057 LAG1 Phosphotyrosyl phosphatase activator [Cell division and chromosome partitioning / Signal transduction mechanisms]
Probab=33.63 E-value=37 Score=25.27 Aligned_cols=23 Identities=26% Similarity=0.521 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHhhhCCCccCCC
Q psy15717 47 KTVMSDLKTHLYAKFGNHIKLEA 69 (72)
Q Consensus 47 ~~~m~eLK~~LYakFG~~InLe~ 69 (72)
.+..-||--.||..|||+|-+|.
T Consensus 116 ~ea~~el~~Yl~~SfGN~~RiDY 138 (353)
T COG5057 116 HEAVPELQYYLRNSFGNSIRIDY 138 (353)
T ss_pred hHHHHHHHHHHHhccCceeeecc
Confidence 35567888999999999998875
No 352
>PF04816 DUF633: Family of unknown function (DUF633) ; InterPro: IPR006901 This is a family of uncharacterised bacterial proteins.; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity; PDB: 3LEC_A 3KU1_G 3KR9_A 3GNL_B.
Probab=33.57 E-value=59 Score=22.06 Aligned_cols=50 Identities=14% Similarity=0.222 Sum_probs=35.3
Q ss_pred ccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 6 RNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 6 ~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
-|.+|.+...-..+-..+++.....+++.-+..+.. .....+..+|+..+
T Consensus 151 ~~~~G~~l~~~~~~~~~~~l~~~~~~~~~i~~~l~~--~~~~~~~~~~~~~i 200 (205)
T PF04816_consen 151 ELEFGPVLLEKKDPLLKEYLQRKLRKLKRILQQLES--SQAQKKYEELKEEI 200 (205)
T ss_dssp HHHH-HHHHHHT-HHHHHHHHHHHHHHHHHHHHSHT--CHHHHHHHHHHHHH
T ss_pred HHHhCHHHHhccCHHHHHHHHHHHHHHHHHHHhccc--cchHHHHHHHHHHH
Confidence 467899999889999999999999998888888773 22344555555544
No 353
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=33.50 E-value=1e+02 Score=24.61 Aligned_cols=48 Identities=2% Similarity=0.094 Sum_probs=26.1
Q ss_pred ccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 8 GAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 8 ~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.+.++|+.-+.+.-...-.+..+=+++++..++.+++..+..+.+.|.
T Consensus 248 ~la~~Yi~~~l~~k~~~a~~a~~fL~~qL~~l~~~L~~aE~~l~~fr~ 295 (726)
T PRK09841 248 SIANNYLQQNIARQAAQDSQSLEFLQRQLPEVRSELDQAEEKLNVYRQ 295 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566655544444444444555555556666666665555555554
No 354
>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=33.49 E-value=1.1e+02 Score=18.34 Aligned_cols=33 Identities=9% Similarity=0.228 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
.+.|.+..+.++.++...+.++.-+++++..|-
T Consensus 3 Le~l~~e~e~~~~kl~q~e~~~k~L~nr~k~l~ 35 (86)
T PF12958_consen 3 LEELQAEIEKAEKKLEQAEHKIKQLENRKKKLE 35 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666666777777777777777777777663
No 355
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=33.49 E-value=1.2e+02 Score=18.65 Aligned_cols=27 Identities=7% Similarity=0.107 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSS 45 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~ 45 (72)
+.+...++...+.++.+|.+|+.-...
T Consensus 75 ~~~~~~l~~~~~~l~~~i~~L~~~~~~ 101 (124)
T TIGR02051 75 REMYELASRKLKSVQAKMADLLRIERL 101 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555554444333
No 356
>KOG3047|consensus
Probab=33.40 E-value=1.4e+02 Score=19.65 Aligned_cols=42 Identities=14% Similarity=0.230 Sum_probs=30.0
Q ss_pred ccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 10 GEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMS 51 (72)
Q Consensus 10 Ge~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~ 51 (72)
-+.|+.+...+|...+.....-+..-+++|+...-.|+..+-
T Consensus 95 ~~fflElkLadAiKf~DRK~dlLkel~ekLqKdsmkiKa~ih 136 (157)
T KOG3047|consen 95 DDFFLELKLADAIKFCDRKMDLLKELMEKLQKDSMKIKADIH 136 (157)
T ss_pred cceeeeehHHHHHHHHHHhHHHHHHHHHHHHHhHHHHHHHHH
Confidence 357899999999988887777776666666666555554443
No 357
>PRK00295 hypothetical protein; Provisional
Probab=33.38 E-value=94 Score=17.52 Aligned_cols=36 Identities=8% Similarity=0.146 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
+.|...+.+...+-+...+++.+..++..|...|=+
T Consensus 16 ~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~ 51 (68)
T PRK00295 16 FQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEE 51 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445556666666666666666666666555543
No 358
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=33.32 E-value=1.1e+02 Score=18.27 Aligned_cols=38 Identities=13% Similarity=0.269 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
.||+.......+..++......+...+.+|+. .|..|.
T Consensus 25 LLe~mN~~~~~kY~~~~~~~~~l~~~~~~l~~-k~~~l~ 62 (99)
T PF10046_consen 25 LLENMNKATSLKYKKMKDIAAGLEKNLEDLNQ-KYEELQ 62 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHH
Confidence 56666666666677777777777777777665 555554
No 359
>KOG0999|consensus
Probab=33.20 E-value=1.4e+02 Score=24.30 Aligned_cols=36 Identities=17% Similarity=0.350 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
.+++.++.+..+|-+|.+-+.....++.-|+++|-|
T Consensus 595 ~~dk~~e~l~~~ilklksllstkreqi~tlrtvlka 630 (772)
T KOG0999|consen 595 AADKDKEALMEQILKLKSLLSTKREQITTLRTVLKA 630 (772)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888999999999999999999999999999976
No 360
>PRK06798 fliD flagellar capping protein; Validated
Probab=33.19 E-value=2e+02 Score=21.75 Aligned_cols=9 Identities=11% Similarity=0.457 Sum_probs=3.6
Q ss_pred HHHHHHHHH
Q psy15717 47 KTVMSDLKT 55 (72)
Q Consensus 47 ~~~m~eLK~ 55 (72)
+..|+.|..
T Consensus 417 e~~ms~lns 425 (440)
T PRK06798 417 ESTLAALDS 425 (440)
T ss_pred HHHHHHHHH
Confidence 333444443
No 361
>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=33.03 E-value=1.2e+02 Score=18.75 Aligned_cols=26 Identities=8% Similarity=0.183 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIK 47 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~ 47 (72)
.+.|.+..+.++.+|..|+.....+.
T Consensus 81 ~~~l~~~~~~l~~~i~~l~~~~~~l~ 106 (133)
T cd04787 81 RRLIEQRLAETERRIKELLKLRDRMQ 106 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444333
No 362
>PRK03918 chromosome segregation protein; Provisional
Probab=32.79 E-value=1.8e+02 Score=23.18 Aligned_cols=33 Identities=24% Similarity=0.519 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.++.....+..++..+..+...+...+.+|+..
T Consensus 395 ~l~~~~~~l~~~i~~l~~~~~~~~~~i~eL~~~ 427 (880)
T PRK03918 395 ELEKAKEEIEEEISKITARIGELKKEIKELKKA 427 (880)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444556666777777777777777777654
No 363
>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=32.72 E-value=1e+02 Score=22.95 Aligned_cols=25 Identities=16% Similarity=0.347 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 33 KSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 33 ~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.++.+|+.++.+.+.+|.-+++.|
T Consensus 181 qkk~~~l~~~l~~~~~eL~~~~k~L 205 (323)
T PF08537_consen 181 QKKIDELEERLNDLEKELEITKKDL 205 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444445555444444444444
No 364
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=32.56 E-value=70 Score=17.23 Aligned_cols=15 Identities=7% Similarity=0.352 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHHHH
Q psy15717 36 IASIEQTMSSIKTVM 50 (72)
Q Consensus 36 i~~L~~el~~i~~~m 50 (72)
+.+++.+++..+.+.
T Consensus 50 ~~~~~k~l~~le~e~ 64 (68)
T PF06305_consen 50 IRRLRKELKKLEKEL 64 (68)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 365
>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=32.54 E-value=97 Score=17.39 Aligned_cols=17 Identities=29% Similarity=0.690 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy15717 38 SIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 38 ~L~~el~~i~~~m~eLK 54 (72)
.++..+..+...+.+|+
T Consensus 62 ~m~~~~~~l~~~l~~l~ 78 (87)
T PF08700_consen 62 SMENDLSELRNLLSELQ 78 (87)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 366
>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=32.48 E-value=1.3e+02 Score=18.71 Aligned_cols=42 Identities=7% Similarity=0.145 Sum_probs=33.4
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+|.+-+-+.+++....++.+++..-.+.+.+..++...-++|
T Consensus 48 ltesitle~ve~Ei~~lQ~qL~~~ldeYE~~VrrLE~fvkvL 89 (99)
T PF11083_consen 48 LTESITLEQVEKEIRELQNQLGLYLDEYEKLVRRLEKFVKVL 89 (99)
T ss_pred CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666778888888888888888888888888888776665
No 367
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=32.29 E-value=1.7e+02 Score=24.61 Aligned_cols=49 Identities=18% Similarity=0.312 Sum_probs=29.5
Q ss_pred ecchhHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHhhhCC
Q psy15717 15 DLIKRNSEKSLEESR--------QNIKSDIASIEQTMSSIKTVMSDLKT-------HLYAKFGN 63 (72)
Q Consensus 15 ~l~~e~a~e~LE~~k--------e~l~~ei~~L~~el~~i~~~m~eLK~-------~LYakFG~ 63 (72)
.++.++|+..|+=.. .++++++.+|+.++..++.-++.|+. .|-.|||+
T Consensus 405 ~lte~qa~aIlemrL~rlt~le~~k~~~e~~~l~~~i~~~~~~L~~l~~~ii~el~~i~~kyg~ 468 (869)
T PRK12758 405 EVTEDDIVRLTEIKIKRISKFDSDKADELIARLEAEIAEVKHHLAHLTDYAIAYFTNLKKKYGK 468 (869)
T ss_pred CCCHHHHHHHHHhHHHHHhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 478888877766443 34455555555555555555555443 24678887
No 368
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=32.20 E-value=1.5e+02 Score=23.08 Aligned_cols=13 Identities=8% Similarity=0.279 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQT 42 (72)
Q Consensus 30 e~l~~ei~~L~~e 42 (72)
++++++++.++.+
T Consensus 79 sELEKqLaaLrqE 91 (475)
T PRK13729 79 AQMQKQYEEIRRE 91 (475)
T ss_pred HHHHHHHHHHHHH
Confidence 3344444444433
No 369
>PF06780 Erp_C: Erp protein C-terminus; InterPro: IPR009618 This entry represents the C terminus of bacterial Erp proteins that seem to be specific to Borrelia burgdorferi (a causative agent of Lyme disease). Borrelia Erp proteins are particularly heterogeneous, which might enable them to interact with a wide variety of host components [].
Probab=31.91 E-value=84 Score=20.79 Aligned_cols=23 Identities=17% Similarity=0.411 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 36 IASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 36 i~~L~~el~~i~~~m~eLK~~LY 58 (72)
+..+.+.++.+++.+.+||..|-
T Consensus 109 vseIk~DLekLKs~LekvK~YL~ 131 (146)
T PF06780_consen 109 VSEIKEDLEKLKSKLEKVKEYLK 131 (146)
T ss_pred hHHHHhHHHHHHHHHHHHHHHHh
Confidence 45566777777777777777764
No 370
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=31.83 E-value=1.5e+02 Score=20.40 Aligned_cols=20 Identities=25% Similarity=0.539 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy15717 38 SIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 38 ~L~~el~~i~~~m~eLK~~L 57 (72)
+++.++..++.++..++..+
T Consensus 166 ~ie~~L~~v~~eIe~~~~~~ 185 (262)
T PF14257_consen 166 EIERELSRVRSEIEQLEGQL 185 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444433
No 371
>KOG2629|consensus
Probab=31.76 E-value=2.1e+02 Score=21.07 Aligned_cols=12 Identities=17% Similarity=0.119 Sum_probs=5.9
Q ss_pred HHHHHHHhhhCC
Q psy15717 52 DLKTHLYAKFGN 63 (72)
Q Consensus 52 eLK~~LYakFG~ 63 (72)
||=..||.=++.
T Consensus 158 Els~~L~~l~~~ 169 (300)
T KOG2629|consen 158 ELSRALASLKNT 169 (300)
T ss_pred HHHHHHHHHHHH
Confidence 444455555554
No 372
>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A).
Probab=31.75 E-value=1.8e+02 Score=20.22 Aligned_cols=25 Identities=28% Similarity=0.417 Sum_probs=17.4
Q ss_pred cccccceeecchhHHHHHHHHHHHH
Q psy15717 7 NGAGEIFVDLIKRNSEKSLEESRQN 31 (72)
Q Consensus 7 y~iGe~Fv~l~~e~a~e~LE~~ke~ 31 (72)
.+=|++.+.++.......++..+..
T Consensus 64 V~kGq~L~~ld~~~~~~~l~~a~a~ 88 (334)
T TIGR00998 64 VKQGDVLVRLDPTNAELALAKAEAN 88 (334)
T ss_pred EcCCCEEEEECchHHHHHHHHHHHH
Confidence 4568888999888877666544443
No 373
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=31.70 E-value=2e+02 Score=23.52 Aligned_cols=19 Identities=16% Similarity=0.205 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASI 39 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L 39 (72)
|.+.+.....+++.-|++|
T Consensus 502 A~~~~~~~~~~~~~li~~L 520 (771)
T TIGR01069 502 AKTFYGEFKEEINVLIEKL 520 (771)
T ss_pred HHHHHHhhHHHHHHHHHHH
Confidence 3333333333333333333
No 374
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=31.68 E-value=1.2e+02 Score=18.24 Aligned_cols=27 Identities=15% Similarity=0.404 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.....+|..|..++..+.+....|...
T Consensus 77 ~~k~~ei~~l~~~l~~l~~~~~k~e~~ 103 (126)
T PF13863_consen 77 EEKEAEIKKLKAELEELKSEISKLEEK 103 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555555443
No 375
>PF13874 Nup54: Nucleoporin complex subunit 54; PDB: 3T97_B.
Probab=31.60 E-value=1.4e+02 Score=18.90 Aligned_cols=35 Identities=11% Similarity=0.170 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHH---------HHHHHhhhCCCccCCCC
Q psy15717 36 IASIEQTMSSIKTVMSDL---------KTHLYAKFGNHIKLEAD 70 (72)
Q Consensus 36 i~~L~~el~~i~~~m~eL---------K~~LYakFG~~InLe~~ 70 (72)
-......+..+..+..+| +...+.+.|-+|+-|++
T Consensus 67 ~~~~~~rl~~~r~r~~~L~hR~l~v~~~~eilr~~g~~l~~eEe 110 (141)
T PF13874_consen 67 DLETSARLEEARRRHQELSHRLLRVLRKQEILRNRGYALSPEEE 110 (141)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence 334455566666666666 77888999988765543
No 376
>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=31.39 E-value=1.6e+02 Score=23.91 Aligned_cols=42 Identities=10% Similarity=0.221 Sum_probs=18.5
Q ss_pred cchhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQNIK-SDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~-~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
++..+|+-.|+=..-++. .++.+|..+.+++.+++.+|+..|
T Consensus 408 ~~~~q~~~il~m~l~~lt~~e~~kl~~e~~~l~~~i~~l~~iL 450 (738)
T TIGR01061 408 FTENQAEAIVSLRLYRLTNTDIFELKEEQNELEKKIISLEQII 450 (738)
T ss_pred CCHHHHHHHHhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444444444443333322 344444444444444444444433
No 377
>KOG0483|consensus
Probab=31.06 E-value=1.6e+02 Score=20.21 Aligned_cols=37 Identities=19% Similarity=0.375 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
..+|.+-+.++...+.|..+....+.+..+|+..++.
T Consensus 108 kqlE~d~~~Lk~~~~~l~~~~~~Lq~e~~eL~~~~~~ 144 (198)
T KOG0483|consen 108 KQLEKDYESLKRQLESLRSENDRLQSEVQELVAELSS 144 (198)
T ss_pred hhhhhhHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhh
Confidence 4678888899999999999999999999999888885
No 378
>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=31.01 E-value=2.4e+02 Score=21.45 Aligned_cols=38 Identities=13% Similarity=0.169 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
.....+...++..++..++.++.++..++..|...|=+
T Consensus 133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~ 170 (525)
T TIGR02231 133 FDFNGSEIERLLTEDREAERRIRELEKQLSELQNELNA 170 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34555666777777788888888888888888877733
No 379
>PF09153 DUF1938: Domain of unknown function (DUF1938); InterPro: IPR015236 This domain, which is predominantly found in the archaeal protein O6-alkylguanine-DNA alkyltransferase, adopts a secondary structure consisting of a three stranded antiparallel beta-sheet and three alpha helices. The exact function has not, as yet, been defined, though it has been postulated that this domain may confer thermostability to the protein []. ; GO: 0005737 cytoplasm; PDB: 1MGT_A.
Probab=30.96 E-value=59 Score=19.69 Aligned_cols=26 Identities=19% Similarity=0.347 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHhhhCCCccCCCCC
Q psy15717 45 SIKTVMSDLKTHLYAKFGNHIKLEADD 71 (72)
Q Consensus 45 ~i~~~m~eLK~~LYakFG~~InLe~~~ 71 (72)
-++.+.+.|..+|-.+ |-++||+..+
T Consensus 36 fl~eri~~L~~~L~kR-gv~v~L~~~~ 61 (86)
T PF09153_consen 36 FLRERISRLIEFLKKR-GVSVSLDEEP 61 (86)
T ss_dssp HHH-HHHHHHHHHHHT-T------B--
T ss_pred HHHHHHHHHHHHHHhc-CceeEEeecC
Confidence 3556788888999888 9999997743
No 380
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=30.91 E-value=1.2e+02 Score=18.02 Aligned_cols=38 Identities=18% Similarity=0.387 Sum_probs=25.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
..+...++...+.++..+..+..+..+.......|...
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~e 117 (120)
T PF11740_consen 80 EEAEEELEAARAELEQERAAAEAELAEAEAQAEELEAE 117 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666677777777777777777777776666666543
No 381
>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=30.90 E-value=1.3e+02 Score=18.35 Aligned_cols=23 Identities=9% Similarity=0.332 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQT 42 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~e 42 (72)
++.+.+++...+++.+++.|++.
T Consensus 8 ~~~~~~~~ki~~ve~~V~~l~~~ 30 (116)
T PF10552_consen 8 QATEEHNEKIEEVENRVDDLEEN 30 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 45556666666666666665543
No 382
>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=30.86 E-value=1.1e+02 Score=17.71 Aligned_cols=31 Identities=13% Similarity=0.255 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
.+.....+++.++.+++.+-..+.-+.+.|+
T Consensus 39 ~~~~~l~~l~~~~~~l~~e~~~L~lE~~~l~ 69 (97)
T PF04999_consen 39 QLFYELQQLEKEIDQLQEENERLRLEIATLS 69 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3334455666666666666666666665554
No 383
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=30.85 E-value=1.5e+02 Score=20.76 Aligned_cols=31 Identities=19% Similarity=0.395 Sum_probs=23.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKT 48 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~ 48 (72)
..+|..+|......|...|+.++.+++.+..
T Consensus 120 k~e~~~wl~~~Id~L~~QiE~~E~E~E~L~~ 150 (233)
T PF04065_consen 120 KEEARDWLKDSIDELNRQIEQLEAEIESLSS 150 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466778888888888888888888776554
No 384
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=30.83 E-value=1.3e+02 Score=21.93 Aligned_cols=45 Identities=9% Similarity=0.163 Sum_probs=17.4
Q ss_pred cccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 9 AGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 9 iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
+.+.|+....+.-........+=++.++..++.++...+..+...
T Consensus 153 ~~~~y~~~~~~~~~~~~~~~~~fl~~ql~~~~~~l~~ae~~l~~f 197 (444)
T TIGR03017 153 FAQAYIDTNIELKVEPAQKAALWFVQQIAALREDLARAQSKLSAY 197 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455433333222223333333344444444444444443333
No 385
>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=30.80 E-value=1.8e+02 Score=19.89 Aligned_cols=34 Identities=15% Similarity=0.270 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
..+.....++..|+.|+.++...+..-..++..|
T Consensus 194 ~aE~~v~~Le~~id~le~eL~~~k~~~~~~~~el 227 (237)
T PF00261_consen 194 FAERRVKKLEKEIDRLEDELEKEKEKYKKVQEEL 227 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555566666666555555555555544
No 386
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 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. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=30.78 E-value=2.1e+02 Score=20.76 Aligned_cols=34 Identities=9% Similarity=0.185 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
.-.++....+.....+..+...+..++.++..|+
T Consensus 37 iF~rI~~Rv~~~~~~l~~i~~Ri~~~qaKi~~l~ 70 (297)
T PF11945_consen 37 IFSRISARVERNRERLQAIQQRIEVAQAKIEKLQ 70 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3345555555666666666666667766666665
No 387
>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=30.75 E-value=1.4e+02 Score=18.70 Aligned_cols=30 Identities=17% Similarity=0.145 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKT 48 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~ 48 (72)
+.....|+...+.++.+|..|......+..
T Consensus 77 ~~~~~~l~~k~~~i~~~i~~L~~~~~~L~~ 106 (131)
T cd04786 77 DELLAALERKVADIEALEARLAQNKAQLLV 106 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444445555555555555554444444433
No 388
>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=30.74 E-value=1.5e+02 Score=19.00 Aligned_cols=32 Identities=16% Similarity=0.391 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
++....+.+.+|..|+.++..+..+...+-..
T Consensus 26 le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~ 57 (143)
T PF12718_consen 26 LEQENEQKEQEITSLQKKNQQLEEELDKLEEQ 57 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444455555555555555555544443
No 389
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=30.73 E-value=1.6e+02 Score=19.44 Aligned_cols=36 Identities=14% Similarity=0.260 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
+.+-++..++++=.=-+..+.+++.+..++.++|..
T Consensus 7 ti~~ie~sK~qIf~I~E~~R~E~~~l~~EL~evk~~ 42 (159)
T PF05384_consen 7 TIDTIESSKEQIFEIAEQARQEYERLRKELEEVKEE 42 (159)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455544444444555555555555555443
No 390
>PF06424 PRP1_N: PRP1 splicing factor, N-terminal; InterPro: IPR010491 This domain is specific to the N-terminal part of the prp1 splicing factor, which is involved in mRNA splicing (and possibly also poly(A)+ RNA nuclear export and cell cycle progression). This domain is specific to the N terminus of the RNA splicing factor encoded by prp1 []. It is involved in mRNA splicing and possibly also poly(A)and RNA nuclear export and cell cycle progression.; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005634 nucleus
Probab=30.70 E-value=63 Score=20.89 Aligned_cols=28 Identities=25% Similarity=0.325 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
+.+.++++.+.+--.|..+-++||..|-
T Consensus 87 ~~~~e~e~~~~~~pkI~~QFaDLKR~La 114 (133)
T PF06424_consen 87 REKEEIEKYRKENPKIQQQFADLKRSLA 114 (133)
T ss_pred hhhhHHHhhhccCchHHHHHHHHHHHHc
Confidence 3444455555555578999999999884
No 391
>PF11043 DUF2856: Protein of unknown function (DUF2856); InterPro: IPR020500 This phage protein modulates the activity of the host recBCD nuclease and thus protects the linear double stranded DNA from exonuclease degradation [].
Probab=30.69 E-value=1.3e+02 Score=18.26 Aligned_cols=49 Identities=14% Similarity=0.245 Sum_probs=30.2
Q ss_pred cceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 11 EIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 11 e~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
+.|+.++.+.-.|+-= .-.-.+..-+++-.-.+.-|.-+++.-|.||-.
T Consensus 31 D~~~aL~~ETKaEr~~----R~~I~LA~k~Ek~r~~~tsirp~rkat~~~f~e 79 (97)
T PF11043_consen 31 DAFMALPPETKAERMY----RRDIQLAEKQEKERINQTSIRPFRKATYTKFPE 79 (97)
T ss_pred HHHHcCChhhHHHHHH----HHHHHHHHHHHHHHHHHhhcchHHHhhhhcccc
Confidence 5677887776544322 112223333444445677899999999999965
No 392
>PLN02678 seryl-tRNA synthetase
Probab=30.56 E-value=1.3e+02 Score=23.10 Aligned_cols=28 Identities=14% Similarity=0.256 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 33 KSDIASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 33 ~~ei~~L~~el~~i~~~m~eLK~~LYak 60 (72)
.+++..|.+++..++.++.+++..|+..
T Consensus 77 ~~~~~~Lk~ei~~le~~~~~~~~~l~~~ 104 (448)
T PLN02678 77 IAETKELKKEITEKEAEVQEAKAALDAK 104 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555555555555555555543
No 393
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=30.49 E-value=98 Score=16.83 Aligned_cols=32 Identities=13% Similarity=0.167 Sum_probs=22.1
Q ss_pred ecchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 15 DLIKRNSEKSLEESRQNIKSDIASIEQTMSSI 46 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i 46 (72)
.++.++.+.+|..--...+.||+.|+......
T Consensus 7 ~ls~~eL~~rl~~LD~~ME~Eieelr~RY~~K 38 (49)
T PF11629_consen 7 FLSYEELQQRLASLDPEMEQEIEELRQRYQAK 38 (49)
T ss_dssp GS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence 35677777788777777777777777665543
No 394
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=30.41 E-value=1.8e+02 Score=19.79 Aligned_cols=31 Identities=16% Similarity=0.299 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m 50 (72)
.....|......++.+|+.++..++..+.+|
T Consensus 193 ~~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l 223 (239)
T PF07195_consen 193 SRIDSLNSQIKSLDKQIEDLEERLESKEERL 223 (239)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666666666666666666655544
No 395
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.40 E-value=1.8e+02 Score=24.96 Aligned_cols=33 Identities=12% Similarity=0.209 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.++.....+...++.++.++..+..++..|+..
T Consensus 974 ~~e~el~~~~~~ie~le~e~~~l~~~i~~l~ke 1006 (1311)
T TIGR00606 974 QKETELNTVNAQLEECEKHQEKINEDMRLMRQD 1006 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333334444444444444444444444443
No 396
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=30.34 E-value=1.3e+02 Score=18.07 Aligned_cols=29 Identities=10% Similarity=0.267 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
.|......|..-++.|+.+-+.+..++.+
T Consensus 30 ~ins~LD~Lns~LD~LE~rnD~l~~~L~~ 58 (83)
T PF03670_consen 30 AINSMLDQLNSCLDHLEQRNDHLHAQLQE 58 (83)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 34444444444444444444444444433
No 397
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=30.29 E-value=1.9e+02 Score=20.19 Aligned_cols=36 Identities=3% Similarity=0.115 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
.|..+..++...|+.+.-+++.+..+..+|-..|=.
T Consensus 65 ~lq~ev~~LrG~~E~~~~~l~~~~~rq~~~y~dld~ 100 (263)
T PRK10803 65 DNQSDIDSLRGQIQENQYQLNQVVERQKQIYLQIDS 100 (263)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555555555666655555555544443
No 398
>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=30.18 E-value=1.5e+02 Score=19.01 Aligned_cols=28 Identities=11% Similarity=0.267 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
...+.-+.+|+.+++....+...||..|
T Consensus 90 ~~yE~~~~kLe~e~~~Kdsei~~Lr~~L 117 (131)
T PF04859_consen 90 KTYEIVVKKLEAELRAKDSEIDRLREKL 117 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666677776666666666665
No 399
>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=30.16 E-value=1.3e+02 Score=18.31 Aligned_cols=29 Identities=14% Similarity=0.306 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIK 47 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~ 47 (72)
+.+...|+...+.++.+|..|+.-...+.
T Consensus 76 ~~~~~~l~~~~~~l~~~i~~L~~~~~~l~ 104 (126)
T cd04783 76 SEARELAEQKLAEVDEKIADLQRMRASLQ 104 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555566666655554444433
No 400
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=30.08 E-value=1.2e+02 Score=22.69 Aligned_cols=25 Identities=12% Similarity=0.477 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 30 QNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 30 e~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
..+..++..+..++..+...+..|+
T Consensus 337 ~~l~~~~~~~~~~l~~l~~~l~~l~ 361 (451)
T PF03961_consen 337 EELEEELEELKEELEKLKKNLKKLK 361 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3444444444444444444444443
No 401
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=30.03 E-value=2.8e+02 Score=23.69 Aligned_cols=42 Identities=19% Similarity=0.418 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
+..+.+++.+..++..+..++.++..+..+...++..+-..+
T Consensus 671 ~~~~~~~~~~~~~~~~l~~l~~~l~~~~~e~~~~~~~~~~~~ 712 (1201)
T PF12128_consen 671 EIEEAKEERKEQIEEQLNELEEELKQLKQELEELLEELKEQL 712 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566667777777777777777777777777666655443
No 402
>PRK02793 phi X174 lysis protein; Provisional
Probab=29.90 E-value=1.1e+02 Score=17.37 Aligned_cols=34 Identities=15% Similarity=0.219 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.|...+.+...+-+....++.+..++..|+..|
T Consensus 19 fQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl 52 (72)
T PRK02793 19 FQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKL 52 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455556666666666666666666665555
No 403
>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=29.84 E-value=1.1e+02 Score=17.14 Aligned_cols=34 Identities=9% Similarity=0.249 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.+...+++...+-+...+++.+...+..|...|
T Consensus 15 ~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl 48 (69)
T PF04102_consen 15 FQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERL 48 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444555555555555555555555444433
No 404
>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins. There is a characteristic KxDL motif towards the C terminus. The function is unknown.
Probab=29.76 E-value=1.2e+02 Score=17.75 Aligned_cols=28 Identities=14% Similarity=0.259 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 35 DIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 35 ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
-+..+...++.|..+++.||..|=.+|.
T Consensus 58 ~l~~mK~DLd~i~krir~lk~kl~~~yP 85 (88)
T PF10241_consen 58 LLKEMKKDLDYIFKRIRSLKAKLAKQYP 85 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 3445566677777777777777766654
No 405
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=29.74 E-value=2.4e+02 Score=21.04 Aligned_cols=34 Identities=15% Similarity=0.165 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
++.....++.++..++.+...+..+...||..|.
T Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (398)
T PTZ00454 27 LEKELEFLDIQEEYIKEEQKNLKRELIRAKEEVK 60 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455556666666666666666666666666553
No 406
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=29.69 E-value=2.4e+02 Score=22.11 Aligned_cols=35 Identities=11% Similarity=0.273 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.+++...+++.++..+..+++.+..+...++..+
T Consensus 431 ~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~ 465 (650)
T TIGR03185 431 GEAQNELFRSEAEIEELLRQLETLKEAIEALRKTL 465 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444555555555555555555555544433
No 407
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=29.60 E-value=1.1e+02 Score=25.23 Aligned_cols=40 Identities=13% Similarity=0.283 Sum_probs=31.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 17 IKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 17 ~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+.+.|...|...++.|..-++.=-+ -++|..-|.+||..+
T Consensus 466 ~ls~A~~~Lr~AQe~L~eAL~~gAs-~eEI~rLm~eLR~A~ 505 (820)
T PF13779_consen 466 DLSDAERRLRAAQEALREALERGAS-DEEIARLMQELREAM 505 (820)
T ss_pred cHHHHHHHHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHHH
Confidence 4578888999999999888876433 388888888888766
No 408
>PRK02224 chromosome segregation protein; Provisional
Probab=29.53 E-value=2.7e+02 Score=22.40 Aligned_cols=37 Identities=5% Similarity=0.233 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.....+......+..+++.|+.+++.+......|+..
T Consensus 468 ~~~~~~~~~~~~~~~~~~~le~~l~~~~~~~e~l~~~ 504 (880)
T PRK02224 468 ETIEEDRERVEELEAELEDLEEEVEEVEERLERAEDL 504 (880)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555556666667776666666666655554
No 409
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=29.52 E-value=2.3e+02 Score=21.93 Aligned_cols=45 Identities=11% Similarity=0.250 Sum_probs=29.2
Q ss_pred cchhHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 16 LIKRNSEKSLEESRQNIKSDI----ASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei----~~L~~el~~i~~~m~eLK~~LYak 60 (72)
++.++-...||...+++..-- -.+.+++..++.+..+|+..+|+.
T Consensus 76 l~fe~pi~ele~ki~el~~~~~~~~~~~~~ei~~l~~~~~~~~~~i~~~ 124 (431)
T PLN03230 76 LPFEKPIVDLENRIDEVRELANKTGVDFSAQIAELEERYDQVRRELYSR 124 (431)
T ss_pred cchhhHHHHHHHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHHHHhc
Confidence 344444455555555554311 246778888999999999999985
No 410
>PRK09973 putative outer membrane lipoprotein; Provisional
Probab=29.51 E-value=1.3e+02 Score=18.04 Aligned_cols=32 Identities=16% Similarity=0.458 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
...++.+++..|..+.+.+....+.+|...++
T Consensus 25 kvdqLss~V~~L~~kvdql~~dv~~a~aaa~a 56 (85)
T PRK09973 25 KVNQLASNVQTLNAKIARLEQDMKALRPQIYA 56 (85)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566777777777777777777777766543
No 411
>KOG3335|consensus
Probab=29.48 E-value=1.9e+02 Score=19.80 Aligned_cols=28 Identities=11% Similarity=0.363 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 27 ESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 27 ~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
....++...+.+|+.++.+.....++|-
T Consensus 106 ~e~~elr~~~~~l~~~i~~~~~~~~~L~ 133 (181)
T KOG3335|consen 106 QEIMELRLKVEKLENAIAELTKFFSQLH 133 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555555555555555555554
No 412
>PF07462 MSP1_C: Merozoite surface protein 1 (MSP1) C-terminus; InterPro: IPR010901 This entry represents the C-terminal region of merozoite surface protein 1 (MSP1), which is found in a number of Plasmodium species. MSP-1 is a 200 kDa protein expressed on the surface of the Plasmodium vivax merozoite. MSP-1 of Plasmodium species is synthesised as a high-molecular-weight precursor and then processed into several fragments. At the time of red cell invasion by the merozoite, only the 19 kDa C-terminal fragment (MSP-119), which contains two epidermal growth factor-like domains, remains on the surface. Antibodies against MSP-119 inhibit merozoite entry into red cells, and immunisation with MSP-119 protects monkeys from challenging infections. Hence, MSP-119 is considered a promising vaccine candidate [].; GO: 0009405 pathogenesis, 0016020 membrane
Probab=29.40 E-value=31 Score=27.42 Aligned_cols=16 Identities=31% Similarity=0.665 Sum_probs=12.7
Q ss_pred HHHHhhhCCCccCCCC
Q psy15717 55 THLYAKFGNHIKLEAD 70 (72)
Q Consensus 55 ~~LYakFG~~InLe~~ 70 (72)
+.|=+|+|++||||-+
T Consensus 195 SrlEgrl~~Ni~LeKe 210 (574)
T PF07462_consen 195 SRLEGRLGKNINLEKE 210 (574)
T ss_pred HHHHHHhccccccchh
Confidence 3466899999999864
No 413
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=29.39 E-value=95 Score=20.27 Aligned_cols=23 Identities=9% Similarity=0.316 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eL 53 (72)
..+.+++.|++++.+.+..|+.|
T Consensus 128 ~~~~eL~qLq~rL~qTE~~m~ki 150 (152)
T PF15361_consen 128 ITDYELAQLQERLAQTERAMEKI 150 (152)
T ss_pred chHHHHHHHHHHHHHHHHHHHHH
Confidence 45678888888888888888765
No 414
>PF05121 GvpK: Gas vesicle protein K ; InterPro: IPR007805 Gas vesicles are intracellular, protein-coated, and hollow organelles found in cyanobacteria and halophilic archaea. They are permeable to ambient gases by diffusion and provide buoyancy, enabling cells to move upwards in liquid to access oxygen and/or light. Proteins containing this domain are involved in the formation of gas vesicles [].; GO: 0031412 gas vesicle organization
Probab=29.39 E-value=1.4e+02 Score=18.14 Aligned_cols=24 Identities=17% Similarity=0.372 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 33 KSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 33 ~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
+.+|+++-..+-.+..+|.+||..
T Consensus 44 e~qiErlG~tLm~Le~~~~~l~~~ 67 (88)
T PF05121_consen 44 EEQIERLGETLMKLEEAMEELCER 67 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888889999999988864
No 415
>PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional
Probab=29.37 E-value=1.1e+02 Score=23.66 Aligned_cols=22 Identities=9% Similarity=0.354 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHhhhCCC-ccCCC
Q psy15717 48 TVMSDLKTHLYAKFGNH-IKLEA 69 (72)
Q Consensus 48 ~~m~eLK~~LYakFG~~-InLe~ 69 (72)
.++.+|...+|..||.. +|+..
T Consensus 204 ~~~~~l~~~i~~~~g~~~~n~~S 226 (553)
T PRK14975 204 ARLAELAAEIREALGRPRLNPDS 226 (553)
T ss_pred HHHHHHHHHHHHHhCCCCCCCCC
Confidence 67889999999999986 78853
No 416
>PLN02943 aminoacyl-tRNA ligase
Probab=29.23 E-value=72 Score=26.54 Aligned_cols=25 Identities=8% Similarity=0.251 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMS 44 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~ 44 (72)
.-.++|++..++++++|++++..+.
T Consensus 889 ~E~~rL~K~l~klekei~~~~~kLs 913 (958)
T PLN02943 889 AEVERLSKRLSKMQTEYDALAARLS 913 (958)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3345667777777776666665543
No 417
>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=29.16 E-value=1.3e+02 Score=17.78 Aligned_cols=27 Identities=7% Similarity=0.415 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
.++++-.++..|+..+..+-.+....|
T Consensus 17 ~k~~Li~ei~~LQ~sL~~L~~Rve~Vk 43 (80)
T PF10224_consen 17 EKEELIQEILELQDSLEALSDRVEEVK 43 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555554444444
No 418
>PRK02944 OxaA-like protein precursor; Validated
Probab=28.92 E-value=1.5e+02 Score=20.71 Aligned_cols=43 Identities=14% Similarity=0.265 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhhhCC
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSI----KTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i----~~~m~eLK~~LYakFG~ 63 (72)
.+.+-.+...+++-++++++++.+.- ..++++=-..||.+.|=
T Consensus 80 ~q~~~~~km~~iqPe~~~iq~kyk~~~~~~~~k~~~e~~~Lyk~~gv 126 (255)
T PRK02944 80 KQTKSTKAMQALQPEMQKLKEKYSSKDQATQQKLQQEMMQLFQKNGV 126 (255)
T ss_pred HHHHHHHHHHHccHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCC
Confidence 33344455556777888888777532 34455556679999874
No 419
>PF13935 Ead_Ea22: Ead/Ea22-like protein
Probab=28.88 E-value=1.6e+02 Score=18.67 Aligned_cols=47 Identities=21% Similarity=0.215 Sum_probs=31.9
Q ss_pred ceeec-chhHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHh
Q psy15717 12 IFVDL-IKRNSEKSLEESRQNIKSDIASIEQT--MSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 12 ~Fv~l-~~e~a~e~LE~~ke~l~~ei~~L~~e--l~~i~~~m~eLK~~LYa 59 (72)
.|+-. ++..+..+|+ ..+..+..|..++.. ...+...+.+|.+.|-+
T Consensus 59 ~fia~anP~tvLALLD-ElE~~~~~i~~~~~~~e~~~~a~~~~~l~~~Le~ 108 (139)
T PF13935_consen 59 EFIAAANPATVLALLD-ELERAQQRIAELEQECENEDIALDVQKLRVELEA 108 (139)
T ss_pred HHHHHhcchHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555 3555555555 455677888888866 88888888888887754
No 420
>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=28.88 E-value=1e+02 Score=16.54 Aligned_cols=27 Identities=7% Similarity=0.310 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.+...++.|+.++..++..++.-|+..
T Consensus 3 aLrqQv~aL~~qv~~Lq~~fs~yKKa~ 29 (46)
T PF09006_consen 3 ALRQQVEALQGQVQRLQAAFSQYKKAE 29 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466677777777777777777766553
No 421
>KOG2116|consensus
Probab=28.86 E-value=18 Score=29.40 Aligned_cols=10 Identities=60% Similarity=1.105 Sum_probs=7.9
Q ss_pred HHhhhCCCcc
Q psy15717 57 LYAKFGNHIK 66 (72)
Q Consensus 57 LYakFG~~In 66 (72)
.||=|||+|+
T Consensus 652 FYAgFGNR~T 661 (738)
T KOG2116|consen 652 FYAGFGNRIT 661 (738)
T ss_pred eeeecCCCcc
Confidence 4788888886
No 422
>KOG4552|consensus
Probab=28.80 E-value=2.1e+02 Score=20.42 Aligned_cols=28 Identities=14% Similarity=0.233 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKT 48 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~ 48 (72)
+...||+..++-+.+|-+|+..+++++.
T Consensus 75 ~m~~Lea~VEkrD~~IQqLqk~LK~aE~ 102 (272)
T KOG4552|consen 75 LMRTLEAHVEKRDEVIQQLQKNLKSAEV 102 (272)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 3344444444455555555555444443
No 423
>PRK11239 hypothetical protein; Provisional
Probab=28.72 E-value=1.6e+02 Score=20.72 Aligned_cols=27 Identities=15% Similarity=0.325 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~ 49 (72)
..|+.....++.++..|+..+..+..+
T Consensus 186 ~~Le~rv~~Le~eva~L~~~l~~l~~~ 212 (215)
T PRK11239 186 GDLQARVEALEIEVAELKQRLDSLLAH 212 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346666666666666666666655544
No 424
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=28.68 E-value=1.5e+02 Score=18.26 Aligned_cols=37 Identities=16% Similarity=0.311 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
....|++.+..+...++..+....+....+.+-+..|
T Consensus 30 i~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~~~e~~L 66 (140)
T PRK07353 30 VGKVVEEREDYIRTNRAEAKERLAEAEKLEAQYEQQL 66 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666666766666666666555555555544443
No 425
>PF02560 Cyanate_lyase: Cyanate lyase C-terminal domain; InterPro: IPR003712 Some bacteria can overcome the toxicity of environmental cyanate by hydrolysis of cyanate. This reaction is catalyzed by cyanate lyase (also known as cyanase) []. Cyanate lyase is found in bacteria and plants and catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. The cyanate lyase monomer is composed of two domains. The N-terminal domain shows structural similarity to the DNA-binding alpha-helix bundle motif. The C-terminal domain has an 'open fold' with no structural homology to other proteins. The dimer structure reveals the C-terminal domains to be intertwined, and the decamer is formed by a pentamer of these dimers. The active site of the enzyme is located between dimers and is comprised of residues from four adjacent subunits of the homodecamer []. ; GO: 0008824 cyanate hydratase activity, 0009439 cyanate metabolic process; PDB: 2IV1_B 2IUO_A 2IVQ_B 1DW9_A 1DWK_E 2IVG_G 2IU7_J 2IVB_A.
Probab=28.62 E-value=34 Score=20.15 Aligned_cols=15 Identities=33% Similarity=0.600 Sum_probs=11.4
Q ss_pred HHHHHHHHhhhCCCc
Q psy15717 51 SDLKTHLYAKFGNHI 65 (72)
Q Consensus 51 ~eLK~~LYakFG~~I 65 (72)
..||...--||||-|
T Consensus 24 ~~~K~li~E~FGDGI 38 (73)
T PF02560_consen 24 PAIKALIHEKFGDGI 38 (73)
T ss_dssp HHHHHHHHHHT-SEE
T ss_pred HHHHHHHHHhhCcce
Confidence 468899999999965
No 426
>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=28.56 E-value=1.3e+02 Score=17.71 Aligned_cols=28 Identities=11% Similarity=0.444 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 32 IKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 32 l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
+..++..+..++..+..++.++...|+.
T Consensus 72 l~~e~~~lk~~i~~le~~~~~~e~~l~~ 99 (108)
T PF02403_consen 72 LKAEVKELKEEIKELEEQLKELEEELNE 99 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444445555555555444444
No 427
>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=28.47 E-value=1.7e+02 Score=18.90 Aligned_cols=33 Identities=12% Similarity=0.410 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 26 EESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 26 E~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
......+..+++.++....+.......++...|
T Consensus 87 ~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~ 119 (191)
T PF04156_consen 87 QQQLQQLQEELDQLQERIQELESELEKLKEDLQ 119 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555555566666666666555555554
No 428
>COG1080 PtsA Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]
Probab=28.45 E-value=51 Score=26.28 Aligned_cols=59 Identities=10% Similarity=0.202 Sum_probs=39.6
Q ss_pred ccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCC
Q psy15717 6 RNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNH 64 (72)
Q Consensus 6 ~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~ 64 (72)
=+.+|-+|+..+.+-.-...--....++.|++++..-+....+++..||..--..+|..
T Consensus 11 GiA~Gka~~l~~~~l~~~~~~~~~~~~e~E~~rl~~A~~~~~~~L~~i~~~a~~~~g~~ 69 (574)
T COG1080 11 GIAIGKAFLLQEPELEVQKKTPAAEDVEAEIERLDAALAAARAELEALKEKAAEDGGEE 69 (574)
T ss_pred CceeEEEEEecCcccccccccccccChHHHHHHHHHHHHHHHHHHHHHHHHHhhccchh
Confidence 35688888887755443333223456677777777777777777777777777777753
No 429
>PRK13979 DNA topoisomerase IV subunit A; Provisional
Probab=28.42 E-value=1.7e+02 Score=24.67 Aligned_cols=43 Identities=16% Similarity=0.265 Sum_probs=30.1
Q ss_pred ecchhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 15 DLIKRNSEKSLEESRQNI-KSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke~l-~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.++..+|+.-|+=..-+| .-++.+|++|.+++..+..+|+..|
T Consensus 426 ~~s~~qa~aIl~mrL~~Lt~le~~kl~~E~~eL~~~I~~l~~iL 469 (957)
T PRK13979 426 GFTDEQAEAILELMLYRLTGLEIVAFEKEYKELEKLIKKLTKIL 469 (957)
T ss_pred CCCHHHHHHHHhCcHHhhhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467777777666555555 4567777777777777777777665
No 430
>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=28.41 E-value=1.1e+02 Score=16.91 Aligned_cols=21 Identities=19% Similarity=0.354 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy15717 37 ASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 37 ~~L~~el~~i~~~m~eLK~~L 57 (72)
..+..++..++..+..||..|
T Consensus 57 ~~~~~kl~~yr~~l~~lk~~l 77 (79)
T PF05008_consen 57 NQYKSKLRSYRSELKKLKKEL 77 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 344555666666666666554
No 431
>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=28.40 E-value=1.4e+02 Score=17.98 Aligned_cols=24 Identities=13% Similarity=0.443 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 32 IKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 32 l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
++..+..++.++..+......|..
T Consensus 84 l~~~~~~l~~~i~~l~~~~~~l~~ 107 (123)
T cd04770 84 LEEKLAEVEAKIAELQALRAELAG 107 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444443
No 432
>KOG1451|consensus
Probab=28.40 E-value=1.1e+02 Score=25.06 Aligned_cols=47 Identities=6% Similarity=0.179 Sum_probs=37.9
Q ss_pred ceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 12 IFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 12 ~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
+|+|+..+=++..+. -+.+++-.+...++.......+|.+||+.+-+
T Consensus 208 ~f~h~g~el~qDF~p-fk~qlq~s~QnTrn~f~~Tr~E~EeLkKkmke 254 (812)
T KOG1451|consen 208 SFFHVGSELHQDFKP-FKDQLQTSVQNTRNNFNATRAEAEELKKKMKE 254 (812)
T ss_pred HHhhhhHHHHhhhhh-HHHHHHHHHHHhhhcccchHHHHHHHHHHHhh
Confidence 578888888887765 45678888888888889999999999988754
No 433
>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=28.37 E-value=1.2e+02 Score=17.01 Aligned_cols=24 Identities=25% Similarity=0.452 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKT 48 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~ 48 (72)
||...+..+..|..+..+++++.+
T Consensus 25 lE~~~~~~e~~i~~~~~~l~~I~~ 48 (71)
T PF10779_consen 25 LEKRDAANEKDIKNLNKQLEKIKS 48 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444433
No 434
>PF03175 DNA_pol_B_2: DNA polymerase type B, organellar and viral; InterPro: IPR004868 This entry is found in DNA polymerase type B proteins. Proteins in this entry are found in plant and fungal mitochondria, and in viruses.; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication; PDB: 1XI1_B 2EX3_G 1XHZ_D 1XHX_C 2PZS_B 2PY5_A 2PYL_A 2PYJ_A.
Probab=28.36 E-value=32 Score=25.62 Aligned_cols=13 Identities=38% Similarity=0.687 Sum_probs=8.2
Q ss_pred HHHhhhCCCccCC
Q psy15717 56 HLYAKFGNHIKLE 68 (72)
Q Consensus 56 ~LYakFG~~InLe 68 (72)
-||||||-+.+..
T Consensus 365 SlyGkf~~~~~~~ 377 (459)
T PF03175_consen 365 SLYGKFGQNPNKT 377 (459)
T ss_dssp HHHHHHS--SB-S
T ss_pred hhhhhhccCcccc
Confidence 4999999988654
No 435
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=28.30 E-value=3e+02 Score=23.25 Aligned_cols=32 Identities=19% Similarity=0.361 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhh
Q psy15717 28 SRQNIKSDIASIEQT----MSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 28 ~ke~l~~ei~~L~~e----l~~i~~~m~eLK~~LYak 60 (72)
..+++.++|..++.- .+-+..++.+||.. |++
T Consensus 433 e~~~l~~~i~~~~~~L~~l~~~ii~el~~i~~k-yg~ 468 (869)
T PRK12758 433 LIARLEAEIAEVKHHLAHLTDYAIAYFTNLKKK-YGK 468 (869)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCC
Confidence 333444444444433 34456667777665 454
No 436
>PF15469 Sec5: Exocyst complex component Sec5
Probab=28.18 E-value=1.7e+02 Score=18.85 Aligned_cols=29 Identities=10% Similarity=0.424 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 35 DIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 35 ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
.+.-+..=..+++..|.++|..||.++.+
T Consensus 122 ~~~vf~~v~~eve~ii~~~r~~l~~~L~~ 150 (182)
T PF15469_consen 122 QVPVFQKVWSEVEKIIEEFREKLWEKLLS 150 (182)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 45566677788899999999999999876
No 437
>COG5391 Phox homology (PX) domain protein [Intracellular trafficking and secretion / General function prediction only]
Probab=28.07 E-value=3e+02 Score=21.64 Aligned_cols=46 Identities=17% Similarity=0.261 Sum_probs=38.7
Q ss_pred ccccee-ecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 9 AGEIFV-DLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 9 iGe~Fv-~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
-|-+|+ .-+..++.+.|+++.+.+.+.+......+..+..++...=
T Consensus 435 ~~~~~~~e~sr~k~~~~Lqq~~~~l~~~L~~a~~d~~~i~e~~~~el 481 (524)
T COG5391 435 KLRDFVQEKSRSKSIESLQQDKEKLEEQLAIAEKDAQEINEELKNEL 481 (524)
T ss_pred cccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566 7788899999999999999999999999999998887653
No 438
>PF09932 DUF2164: Uncharacterized conserved protein (DUF2164); InterPro: IPR018680 This family of various hypothetical prokaryotic proteins has no known function.
Probab=27.98 E-value=64 Score=18.80 Aligned_cols=32 Identities=19% Similarity=0.370 Sum_probs=19.9
Q ss_pred cccceeecchhHHHHHHHHHHHHHHHHHHHHH
Q psy15717 9 AGEIFVDLIKRNSEKSLEESRQNIKSDIASIE 40 (72)
Q Consensus 9 iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~ 40 (72)
||-.|.-.-..+|+..+.+..+.+..++=.|+
T Consensus 43 lGp~~YNqgv~DA~~~~~~r~~~l~~~ly~lE 74 (76)
T PF09932_consen 43 LGPHFYNQGVQDAQAVLEERMEDLEEELYELE 74 (76)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHhHHHHHHHhh
Confidence 56666666666777766666666666555443
No 439
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=27.95 E-value=1.6e+02 Score=20.21 Aligned_cols=26 Identities=8% Similarity=0.327 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
+++.++.+++.+++.++.++..|...
T Consensus 166 ~ie~~L~~v~~eIe~~~~~~~~l~~~ 191 (262)
T PF14257_consen 166 EIERELSRVRSEIEQLEGQLKYLDDR 191 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56777777888888877777777643
No 440
>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=27.92 E-value=1.7e+02 Score=18.65 Aligned_cols=30 Identities=23% Similarity=0.335 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
.||-+...++.++..++.+++.+..+-...
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 (204)
T cd01878 3 QLETDRRLIRERIAKLRRELEKVKKQRELQ 32 (204)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 567777788888888888888877764333
No 441
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=27.76 E-value=1.4e+02 Score=23.59 Aligned_cols=48 Identities=6% Similarity=0.117 Sum_probs=21.2
Q ss_pred ccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 6 RNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 6 ~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
.-.+.++|+.-..+.-.+...+..+=++.++..++.++...+.++.+.
T Consensus 173 aN~la~~Y~~~~~~~k~~~~~~a~~~L~~ql~~l~~~l~~aE~~l~~f 220 (754)
T TIGR01005 173 PDAIAAAYIAGQGAAKSESNTAAADFLAPEIADLSKQSRDAEAEVAAY 220 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344666777554444333333333334444444444444444333333
No 442
>PF06580 His_kinase: Histidine kinase; InterPro: IPR010559 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This family represents a region within bacterial histidine kinase enzymes. Two-component signal transduction systems such as those mediated by histidine kinase are integral parts of bacterial cellular regulatory processes, and are used to regulate the expression of genes involved in virulence. Members of this family often contain IPR003594 from INTERPRO and/or IPR003660 from INTERPRO.; GO: 0000155 two-component sensor activity, 0000160 two-component signal transduction system (phosphorelay), 0016021 integral to membrane
Probab=27.76 E-value=89 Score=17.83 Aligned_cols=51 Identities=10% Similarity=0.236 Sum_probs=29.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hhhCCCccCC
Q psy15717 17 IKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY---AKFGNHIKLE 68 (72)
Q Consensus 17 ~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY---akFG~~InLe 68 (72)
+.++|.+.+..-..=+.--+ .-....-.+..++.-++..|. .+||++|+++
T Consensus 28 ~~~~~~~~i~~ls~~lRy~l-~~~~~~v~l~~El~~i~~Yl~i~~~R~~~~l~~~ 81 (82)
T PF06580_consen 28 DPEKASEMILSLSDLLRYSL-SSKEEFVTLEEELEFIENYLEIQKIRFGDRLEYE 81 (82)
T ss_pred CHHHHHHHHHHHHHHHHHHh-CCCCCeeeHHHHHHHHHHHHHHHHHHCCCceEee
Confidence 35556666665555555554 333344455566666665553 5899988764
No 443
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=27.73 E-value=2.6e+02 Score=20.88 Aligned_cols=26 Identities=19% Similarity=0.515 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKT 48 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~ 48 (72)
+.|.+...+++.++++++..+..+..
T Consensus 337 ~~l~~~~~~~~~~l~~l~~~l~~l~~ 362 (451)
T PF03961_consen 337 EELEEELEELKEELEKLKKNLKKLKK 362 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 55666666666666666666555444
No 444
>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=27.70 E-value=2.8e+02 Score=21.21 Aligned_cols=42 Identities=10% Similarity=0.226 Sum_probs=26.4
Q ss_pred cchhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQNIK-SDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~-~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
++..+|.-.|+=..-++. .++++|..+.+++..++.+|++.|
T Consensus 386 ~~~~qa~~IL~m~L~~LT~~e~~kL~~E~~~l~~ei~~l~~~l 428 (445)
T cd00187 386 FSEIQADAILDMRLRRLTKLEREKLLKELKELEAEIEDLEKIL 428 (445)
T ss_pred CCHHHHHHHHHhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444455555554444443 347777777777777777777766
No 445
>smart00434 TOP4c DNA Topoisomerase IV. Bacterial DNA topoisomerase IV, GyrA, ParC
Probab=27.65 E-value=2.4e+02 Score=21.50 Aligned_cols=42 Identities=14% Similarity=0.355 Sum_probs=30.4
Q ss_pred cchhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQNIK-SDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~-~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
++..+|.-.|+=..-++. .++++|+++++++..+..+|+..|
T Consensus 396 ~~~~q~~~IL~m~L~~LT~~e~~kL~~e~~~l~~ei~~l~~~l 438 (445)
T smart00434 396 LSEEQADAILDMRLRRLTKLEVEKLEKELKELEKEIEDLEKIL 438 (445)
T ss_pred CCHHHHHHHHHhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 456677777765555554 458888888888888888888765
No 446
>COG0732 HsdS Restriction endonuclease S subunits [Defense mechanisms]
Probab=27.44 E-value=2.1e+02 Score=19.61 Aligned_cols=58 Identities=14% Similarity=0.202 Sum_probs=48.6
Q ss_pred ccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 6 RNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 6 ~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
+..+.+.-+.+|.-.-|..+-.-...++..++..+..++.++.....+-.+++.+++.
T Consensus 129 ~~~~~~~~i~~Ppl~eQ~~I~~iL~~~d~~i~~~~~~i~~l~~~~~~~~~~~~~~~~~ 186 (391)
T COG0732 129 KSSLKEIPIPLPPLEEQQAIAKILSTLDDLIELLEKLIELLEAIKQKLFKELFTKGKY 186 (391)
T ss_pred HhhhheeeccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 4456777788888888888888888999999998889999888888888888888776
No 447
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=27.41 E-value=2.4e+02 Score=23.45 Aligned_cols=50 Identities=20% Similarity=0.247 Sum_probs=39.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCccCC
Q psy15717 17 IKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNHIKLE 68 (72)
Q Consensus 17 ~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~InLe 68 (72)
|.....+.+|+-.+++++.|+..-+ ..++++....||..+ +|-|+.=+.+
T Consensus 643 p~~~~k~KIe~L~~eIkkkIe~av~-ss~LK~k~E~Lk~Ev-aka~~~pd~~ 692 (762)
T PLN03229 643 PPPNLQEKIESLNEEINKKIERVIR-SSDLKSKIELLKLEV-AKASKTPDVT 692 (762)
T ss_pred CChhhHHHHHHHHHHHHHHHHHHhc-chhHHHHHHHHHHHH-HhcCCCCCcc
Confidence 4455578899999999999998887 566999999999988 8888764443
No 448
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=27.40 E-value=2.1e+02 Score=19.71 Aligned_cols=31 Identities=19% Similarity=0.373 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
.+|+.+..+-++|..|+++-..+..+...||
T Consensus 92 qlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk 122 (193)
T PF14662_consen 92 QLEKEQQSLVAEIETLQEENGKLLAERDGLK 122 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHhhhhHH
Confidence 3444444455555554444444444443333
No 449
>PRK11177 phosphoenolpyruvate-protein phosphotransferase; Provisional
Probab=27.40 E-value=51 Score=25.90 Aligned_cols=56 Identities=11% Similarity=0.125 Sum_probs=28.8
Q ss_pred ccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 8 GAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 8 ~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
.||-+|+..+.+.......-....++.|+.+++.-++....++..|+..+=.++|.
T Consensus 12 AiG~a~~~~~~~~~~~~~~~~~~~ie~E~~Rl~~A~~~a~~eL~~l~~~~~~~~g~ 67 (575)
T PRK11177 12 AFGKALLLKEDEIVINRKKISADQVDQEVERFLSGRAKASAQLEAIKTKAGETFGE 67 (575)
T ss_pred EEEEEEEEccccCcccccccCccChHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCh
Confidence 47777766543211111110112345566666666666666666666666555554
No 450
>PF15369 KIAA1328: Uncharacterised protein KIAA1328
Probab=27.27 E-value=2.7e+02 Score=20.81 Aligned_cols=39 Identities=21% Similarity=0.264 Sum_probs=30.4
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
-..+.+.+.|...++..+..|..|++.-.-|..+-..|-
T Consensus 22 ~~~e~~~~~~~~~~~~~e~~~~~l~~~~~~~~~~~~~~~ 60 (328)
T PF15369_consen 22 EEKEVTEERLKAEQESFEKKIRQLEEQNELIIKEREDLQ 60 (328)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 356677888888888888888888888777777666664
No 451
>PRK04406 hypothetical protein; Provisional
Probab=27.13 E-value=1.3e+02 Score=17.30 Aligned_cols=30 Identities=10% Similarity=0.138 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMS 51 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~ 51 (72)
.+.|.....+-+.+|+.|+..+..+..++.
T Consensus 27 Ie~LN~~v~~Qq~~I~~L~~ql~~L~~rl~ 56 (75)
T PRK04406 27 IEELNDALSQQQLLITKMQDQMKYVVGKVK 56 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444444444444333
No 452
>TIGR02977 phageshock_pspA phage shock protein A. Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.
Probab=27.10 E-value=2e+02 Score=19.38 Aligned_cols=24 Identities=13% Similarity=0.331 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMS 51 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~ 51 (72)
...++...+..|+.++.+.+.+-.
T Consensus 114 ~v~~l~~~l~~L~~ki~~~k~k~~ 137 (219)
T TIGR02977 114 TLAKLQEDIAKLQAKLAEARARQK 137 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444433
No 453
>KOG2391|consensus
Probab=27.10 E-value=2.8e+02 Score=20.99 Aligned_cols=37 Identities=22% Similarity=0.368 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
..+.|-..+.++..+++.|+.++.++.....=|++.-
T Consensus 240 t~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~~k~ 276 (365)
T KOG2391|consen 240 TEEELNIGKQKLVAMKETLEQQLQSLQKNIDILKSKV 276 (365)
T ss_pred hHHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence 3444444455555555555555555555555554443
No 454
>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA. They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.
Probab=27.10 E-value=1.8e+02 Score=21.21 Aligned_cols=34 Identities=15% Similarity=0.301 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------hhhCCCccC
Q psy15717 34 SDIASIEQTMSSIKTVMSDLKTHLY------AKFGNHIKL 67 (72)
Q Consensus 34 ~ei~~L~~el~~i~~~m~eLK~~LY------akFG~~InL 67 (72)
.+++.+....+.+..+..+||..|- .+-|=-|+-
T Consensus 140 ~elEr~K~~~d~L~~e~~~Lre~L~~rdeli~khGlVlv~ 179 (302)
T PF09738_consen 140 RELERQKRAHDSLREELDELREQLKQRDELIEKHGLVLVP 179 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCeeeCC
Confidence 3345555555566666666666555 445544443
No 455
>PRK10698 phage shock protein PspA; Provisional
Probab=27.09 E-value=2.1e+02 Score=19.58 Aligned_cols=30 Identities=13% Similarity=0.358 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
|+...+..+..+++|+..+..++.++.+.|
T Consensus 104 l~~~~~~~~~~~~~L~~~l~~L~~ki~eak 133 (222)
T PRK10698 104 LEHEVTLVDETLARMKKEIGELENKLSETR 133 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333444444444444444444444333
No 456
>KOG0993|consensus
Probab=27.00 E-value=1.1e+02 Score=23.93 Aligned_cols=36 Identities=19% Similarity=0.376 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+..|+...++....-++|++-.-.+.++.++||+.|
T Consensus 136 ~~~Lenem~ka~Ed~eKlrelv~pmekeI~elk~kl 171 (542)
T KOG0993|consen 136 QLDLENEMDKAKEDEEKLRELVTPMEKEINELKKKL 171 (542)
T ss_pred hhhhHHHHHHHHhhHHHHHHHHhhHHHHHHHHHHHH
Confidence 344555555555555666666666677777777765
No 457
>PRK10476 multidrug resistance protein MdtN; Provisional
Probab=26.98 E-value=2.3e+02 Score=20.11 Aligned_cols=27 Identities=11% Similarity=0.295 Sum_probs=17.9
Q ss_pred ccccccceeecchhHHHHHHHHHHHHH
Q psy15717 6 RNGAGEIFVDLIKRNSEKSLEESRQNI 32 (72)
Q Consensus 6 ~y~iGe~Fv~l~~e~a~e~LE~~ke~l 32 (72)
+.+=|++-+.++....+..+.+.+.++
T Consensus 69 ~VkkGq~L~~ld~~~~~~~l~~a~a~l 95 (346)
T PRK10476 69 AVKKGDLLFRIDPRPYELTVAQAQADL 95 (346)
T ss_pred EEcCCCEEEEECcHHHHHHHHHHHHHH
Confidence 455688889999887666555444333
No 458
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=26.96 E-value=48 Score=26.77 Aligned_cols=56 Identities=9% Similarity=0.011 Sum_probs=28.2
Q ss_pred cccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Q psy15717 7 NGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFG 62 (72)
Q Consensus 7 y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG 62 (72)
..||-+|+..................+.|+.+++.-++....++..|+..+=++.|
T Consensus 180 ia~G~~~~~~~~~~~~~~~~~~~~~~e~E~~Rl~~A~~~a~~eL~~l~~~~~~~~g 235 (748)
T PRK11061 180 VAIAEGWQDATQPLLEQVYPASTLDPALERERLTGALEEAANEFRRYSKRFAAGAQ 235 (748)
T ss_pred EEEEEEEEeccccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhC
Confidence 34788887654322111111111234456666666666666666666655544444
No 459
>KOG4074|consensus
Probab=26.89 E-value=1.7e+02 Score=21.97 Aligned_cols=33 Identities=21% Similarity=0.387 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGN 63 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~ 63 (72)
++..+.+-|+.++.--...=+|||+.|-|--|+
T Consensus 141 ~l~~e~~~l~~ql~iqt~vNsELK~LlVASvgd 173 (383)
T KOG4074|consen 141 ELERELDLLRKQLNIQTKVNSELKRLLVASVGD 173 (383)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence 677888888999888888888999999999887
No 460
>PRK03918 chromosome segregation protein; Provisional
Probab=26.78 E-value=2.4e+02 Score=22.54 Aligned_cols=20 Identities=10% Similarity=0.373 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVM 50 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m 50 (72)
.+.+++..++.++..+...+
T Consensus 204 ~l~~ei~~l~~e~~~l~~~~ 223 (880)
T PRK03918 204 EVLREINEISSELPELREEL 223 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333
No 461
>PRK09039 hypothetical protein; Validated
Probab=26.77 E-value=2.6e+02 Score=20.45 Aligned_cols=31 Identities=13% Similarity=0.204 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
....++..|+..+....+.+.++.+|+..|-
T Consensus 152 Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~ 182 (343)
T PRK09039 152 QLAALEAALDASEKRDRESQAKIADLGRRLN 182 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444455555554443
No 462
>KOG2773|consensus
Probab=26.72 E-value=1.5e+02 Score=23.23 Aligned_cols=53 Identities=11% Similarity=0.271 Sum_probs=43.0
Q ss_pred cchhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCccCC
Q psy15717 16 LIKRNSEKSLEESRQ-NIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNHIKLE 68 (72)
Q Consensus 16 l~~e~a~e~LE~~ke-~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~InLe 68 (72)
+|.+.+-..+..+-+ .++.-+..+..-+..+-..|-.|+..|.-++++.++..
T Consensus 214 LP~~ev~~lf~sd~~ee~st~lke~~k~l~kll~~ll~lr~~ll~~~~~~~~~v 267 (483)
T KOG2773|consen 214 LPQPEVLSLFKSDDEEELSTALKELAKNLKKLLQSLLKLREALLTKYPNTTKIV 267 (483)
T ss_pred CCChhhHHHhhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCchhhhhh
Confidence 455555555544443 89999999999999999999999999999999988764
No 463
>KOG1003|consensus
Probab=26.67 E-value=1.9e+02 Score=20.14 Aligned_cols=34 Identities=15% Similarity=0.239 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
..++....++.+++.|+..+.....+-..++..|
T Consensus 162 ~aERsVakLeke~DdlE~kl~~~k~ky~~~~~eL 195 (205)
T KOG1003|consen 162 FAERRVAKLEKERDDLEEKLEEAKEKYEEAKKEL 195 (205)
T ss_pred HHHHHHHHHcccHHHHHHhhHHHHHHHHHHHHHH
Confidence 4556666666677777766666666655555555
No 464
>cd04087 PTPA Phosphotyrosyl phosphatase activator (PTPA) is also known as protein phosphatase 2A (PP2A) phosphatase activator. PTPA is an essential, well conserved protein that stimulates the tyrosyl phosphatase activity of PP2A. It also reactivates the serine/threonine phosphatase activity of an inactive form of PP2A. Together, PTPA and PP2A constitute an ATPase. It has been suggested that PTPA alters the relative specificity of PP2A from phosphoserine/phosphothreonine substrates to phosphotyrosine substrates in an ATP-hydrolysis-dependent manner. Basal expression of PTPA is controlled by the transcription factor Yin Yang1 (YY1). PTPA has been suggested to play a role in the insertion of metals to the PP2A catalytic subunit (PP2Ac) active site, to act as a chaperone, and more recently, to have peptidyl prolyl cis/trans isomerase activity that specifically targets human PP2Ac.
Probab=26.56 E-value=1.9e+02 Score=20.79 Aligned_cols=23 Identities=22% Similarity=0.470 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHhhhCCCccCCC
Q psy15717 47 KTVMSDLKTHLYAKFGNHIKLEA 69 (72)
Q Consensus 47 ~~~m~eLK~~LYakFG~~InLe~ 69 (72)
..-..||...|-.-|||++-||.
T Consensus 83 ~~~~~EL~~Yl~~SFGn~~RiDY 105 (266)
T cd04087 83 DEAVNELSYYLLESFGNSTRIDY 105 (266)
T ss_pred hHHHHHHHHHHHhccCCCccccc
Confidence 45688999999999999988875
No 465
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=26.45 E-value=2e+02 Score=19.16 Aligned_cols=29 Identities=14% Similarity=0.201 Sum_probs=21.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIK 47 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~ 47 (72)
+.-.+.|+...+.+.+.|+.|+..+..+.
T Consensus 84 ~~R~~lLe~~~~~l~~ri~eLe~~l~~ka 112 (175)
T PRK13182 84 SVDFEQLEAQLNTITRRLDELERQLQQKA 112 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35567788888888888888887766543
No 466
>PRK06669 fliH flagellar assembly protein H; Validated
Probab=26.42 E-value=2.3e+02 Score=19.75 Aligned_cols=41 Identities=10% Similarity=0.130 Sum_probs=30.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
.+.|.+.|.+..++...-+.+++.+++.+..+...-+..++
T Consensus 76 ~~~a~~~l~~~~~ea~~~l~~a~~q~e~~~~ea~~e~e~~~ 116 (281)
T PRK06669 76 EEEAKEELLKKTDEASSIIEKLQMQIEREQEEWEEELERLI 116 (281)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788888888888888888888888888777664444433
No 467
>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=26.41 E-value=1.6e+02 Score=18.02 Aligned_cols=24 Identities=13% Similarity=0.180 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSS 45 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~ 45 (72)
...|....+.++.+|..|+.....
T Consensus 81 ~~~l~~~~~~l~~~i~~L~~~~~~ 104 (127)
T TIGR02044 81 KARTLEKVAEIERKISELQSMRDQ 104 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444443333
No 468
>PF11382 DUF3186: Protein of unknown function (DUF3186); InterPro: IPR021522 This bacterial family of proteins has no known function.
Probab=26.34 E-value=2.5e+02 Score=20.16 Aligned_cols=39 Identities=10% Similarity=0.260 Sum_probs=26.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
.+..-..|+.+...+.++.++++.+.+....+.+..+..
T Consensus 30 ~~~l~~~l~~~~~~lr~e~~~l~~~~~~~~~~~~~~d~f 68 (308)
T PF11382_consen 30 QPNLIDSLEDQFDSLREENDELRAELDALQAQLNAADQF 68 (308)
T ss_pred chhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556677777777777777777777777777665543
No 469
>PRK09630 DNA topoisomerase IV subunit A; Provisional
Probab=26.30 E-value=1.9e+02 Score=22.66 Aligned_cols=36 Identities=22% Similarity=0.472 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHhhhCC
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKT-------HLYAKFGN 63 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~-------~LYakFG~ 63 (72)
+..+.+++|.+++.++.+++..+..|+. .|-.|||.
T Consensus 412 d~~k~~~~~~~~~~~~~~~~~~l~~~~~~~i~~~~~l~~kyg~ 454 (479)
T PRK09630 412 NENSYTKELACIEKKQAAVQKDLSQLKKYTVKYLKGLLETYGQ 454 (479)
T ss_pred CHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3456778888899999999888888885 46677774
No 470
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=26.21 E-value=2.1e+02 Score=19.29 Aligned_cols=35 Identities=11% Similarity=0.218 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
..++....+..+...|..-+.....+..+|+..|-
T Consensus 45 ~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~ 79 (201)
T PF13851_consen 45 RNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLK 79 (201)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 34444555556666666666666666666666553
No 471
>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=26.20 E-value=1.6e+02 Score=18.02 Aligned_cols=29 Identities=10% Similarity=0.180 Sum_probs=14.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIK 47 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~ 47 (72)
+.....|+...+.++.+|..|+.....+.
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~L~~~~~~l~ 106 (127)
T cd01108 78 ADVKALALEHIAELERKIAELQAMRRTLQ 106 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555544444333
No 472
>PRK14160 heat shock protein GrpE; Provisional
Probab=26.14 E-value=2.3e+02 Score=19.64 Aligned_cols=30 Identities=13% Similarity=0.336 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
.|+.....+++++..++.++.++..+...+
T Consensus 58 ~l~~e~~~l~~~l~~l~~e~~elkd~~lR~ 87 (211)
T PRK14160 58 ELKDENNKLKEENKKLENELEALKDRLLRT 87 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444455555555555555555544433
No 473
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=26.13 E-value=1.6e+02 Score=24.66 Aligned_cols=27 Identities=11% Similarity=0.222 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
++...++++.++.+.++.++..||..|
T Consensus 758 el~~~v~kl~ee~k~l~kei~~l~~~l 784 (900)
T PRK13902 758 QLPKTVERFFEEWKEQKKEIEKLRKEL 784 (900)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444444
No 474
>KOG0971|consensus
Probab=26.12 E-value=2.7e+02 Score=24.12 Aligned_cols=41 Identities=10% Similarity=0.345 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAK 60 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYak 60 (72)
+++-.|-....+.+.-++.|..+++.+++.-.+||-.|-..
T Consensus 1012 e~~a~lr~Ke~efeetmdaLq~di~~lEsek~elKqrl~~~ 1052 (1243)
T KOG0971|consen 1012 ETQALLRKKEKEFEETMDALQADIDQLESEKAELKQRLNSQ 1052 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhc
Confidence 34444445556677888999999999999999999988553
No 475
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=26.04 E-value=1.8e+02 Score=18.33 Aligned_cols=24 Identities=17% Similarity=0.349 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 32 IKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 32 l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
+...+..++.++..+......|..
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~L~~ 107 (135)
T PRK10227 84 TLEKVAEIERHIEELQSMRDQLLA 107 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555544
No 476
>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=26.03 E-value=1.7e+02 Score=21.69 Aligned_cols=28 Identities=18% Similarity=0.356 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 28 SRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 28 ~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
+...+.++|.+|+.+++.++.++.+|++
T Consensus 290 ElDe~~krL~ELrR~vr~L~k~l~~l~~ 317 (320)
T TIGR01834 290 ELDEAHQRIQQLRREVKSLKKRLGDLEA 317 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4456666666777777777777776664
No 477
>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=25.86 E-value=1.9e+02 Score=19.66 Aligned_cols=27 Identities=11% Similarity=0.206 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 23 KSLEESRQNIKSDIASIEQTMSSIKTV 49 (72)
Q Consensus 23 e~LE~~ke~l~~ei~~L~~el~~i~~~ 49 (72)
+.+|.+..+++.+++++-..++....-
T Consensus 5 ~~~E~~~~~le~~l~kl~K~~~~~~d~ 31 (200)
T cd07637 5 DEVETDVVEIEAKLDKLVKLCSGMIEA 31 (200)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666666666655555444
No 478
>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=25.82 E-value=1.1e+02 Score=16.03 Aligned_cols=24 Identities=8% Similarity=0.423 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
.++.++..|+.+...+..++..|+
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 445555555555555555555554
No 479
>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=25.78 E-value=1.5e+02 Score=17.34 Aligned_cols=36 Identities=11% Similarity=0.132 Sum_probs=19.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
+|.+++.+.+..... .-..-|+.....+..++.+|+
T Consensus 58 ~~l~~I~~~l~~~~~---~~~~~l~~~~~~l~~~i~~l~ 93 (96)
T cd04768 58 FSLAEIKELLDTEME---ELTAMLLEKKQAIQQKIDRLQ 93 (96)
T ss_pred CCHHHHHHHHhcCcH---HHHHHHHHHHHHHHHHHHHHH
Confidence 556666666654322 334445566666666666654
No 480
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=25.78 E-value=1.2e+02 Score=22.62 Aligned_cols=22 Identities=14% Similarity=0.347 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 32 IKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 32 l~~ei~~L~~el~~i~~~m~eL 53 (72)
++.++..++.+++..+.++.+.
T Consensus 166 l~~ql~~~~~~L~~ae~~l~~f 187 (498)
T TIGR03007 166 IDEQIKTYEKKLEAAENRLKAF 187 (498)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444443
No 481
>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants. The function of this family is unknown.
Probab=25.74 E-value=2.9e+02 Score=22.87 Aligned_cols=27 Identities=11% Similarity=0.375 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
..+..++.+..++.+.+..+.+|+..|
T Consensus 614 ~~~d~lE~~~~qL~E~E~~L~eLq~eL 640 (769)
T PF05911_consen 614 SCQDQLESLKNQLKESEQKLEELQSEL 640 (769)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333466666666666666666666665
No 482
>PF01608 I_LWEQ: I/LWEQ domain; InterPro: IPR002558 I/LWEQ domains bind to actin. It has been shown that the I/LWEQ domains from mouse talin P26039 from SWISSPROT and yeast Sla2p P33338 from SWISSPROT interact with F-actin []. The domain has four conserved blocks, the name of the domain is derived from the initial conserved amino acid of each of the four blocks []. I/LWEQ domains can be placed into four major groups based on sequence similarity: Metazoan talin. Dictyostelium discoideum (Slime mould) TalA/TalB P54633 from SWISSPROT and SLA110. Metazoan Hip1p O00291 from SWISSPROT. Saccharomyces cerevisiae Sla2p P33338 from SWISSPROT. ; GO: 0003779 actin binding; PDB: 2QDQ_A 2JSW_A 1R0D_B.
Probab=25.72 E-value=2e+02 Score=19.00 Aligned_cols=28 Identities=14% Similarity=0.373 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 32 IKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 32 l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
.+-+|=+|+.+++.-+.++.+|++.=|.
T Consensus 123 ~Qv~iL~lE~eLe~ar~kL~~lRk~~Y~ 150 (152)
T PF01608_consen 123 AQVRILKLEKELEKARKKLAELRKAHYH 150 (152)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 3456889999999999999999998775
No 483
>COG3605 PtsP Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]
Probab=25.68 E-value=86 Score=25.65 Aligned_cols=50 Identities=12% Similarity=0.217 Sum_probs=43.9
Q ss_pred cccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 7 NGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTH 56 (72)
Q Consensus 7 y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~ 56 (72)
..+|.+..|.|....+..+++.....+.|++.|..-+++....+..+-+.
T Consensus 187 v~~g~~v~~~~~~~~~~v~~as~~D~~~E~~Rl~~Ale~lr~~i~~m~~r 236 (756)
T COG3605 187 VAIGEVVLHEPRPVVENVLNASTLDPDAERERLTGALESLRASIRRMLKR 236 (756)
T ss_pred ceeeEEEEeCCCccHhhhccccccChHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45899999999999999999999999999999999999988888876554
No 484
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=25.61 E-value=2.5e+02 Score=19.94 Aligned_cols=21 Identities=14% Similarity=0.343 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy15717 31 NIKSDIASIEQTMSSIKTVMS 51 (72)
Q Consensus 31 ~l~~ei~~L~~el~~i~~~m~ 51 (72)
.++.+++.++.++.....++.
T Consensus 148 ~l~~~i~~~~~~i~~~~~~l~ 168 (423)
T TIGR01843 148 LILAQIKQLEAELAGLQAQLQ 168 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333333
No 485
>cd07666 BAR_SNX7 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 7. 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. The specific function of SNX7 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=25.58 E-value=1.7e+02 Score=20.60 Aligned_cols=52 Identities=12% Similarity=0.089 Sum_probs=34.3
Q ss_pred eecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCccC
Q psy15717 14 VDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKFGNHIKL 67 (72)
Q Consensus 14 v~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakFG~~InL 67 (72)
|+=|.++-.++-+ ...+++..|..+..-..-+..+..++ ..+|+.||..+.|
T Consensus 49 v~~~~~eF~Emke-y~d~L~~~L~~ieki~~Rl~kr~~ey-~~~~~~fgk~~~l 100 (243)
T cd07666 49 VKNRPEEFTEMNE-YVEAFSQKINVLDKISQRIYKEQREY-FEELKEYGPIYTL 100 (243)
T ss_pred cCCCCHHHHHHHH-HHHHHHHHhhhhHHHHHHHHHhhHHH-HHHHHHHHHHHHH
Confidence 3434444433332 34466677777777677777777788 8899999988777
No 486
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=25.58 E-value=2.8e+02 Score=20.43 Aligned_cols=38 Identities=21% Similarity=0.274 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYAKF 61 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYakF 61 (72)
.|-+....+....+.++..+......+..|+-.|+.|+
T Consensus 87 sLl~~N~~L~~~~~~le~~L~~~~e~v~qLrHeL~~kd 124 (306)
T PF04849_consen 87 SLLEQNQDLSERNEALEEQLGAALEQVEQLRHELSMKD 124 (306)
T ss_pred HHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445556778888999999999999999999998875
No 487
>PF03135 CagE_TrbE_VirB: CagE, TrbE, VirB family, component of type IV transporter system; InterPro: IPR018145 This domain is found in (amongst others): the Helicobacter pylori protein CagE (see examples), which together with other proteins from the cag pathogenicity island (PAI), encodes a type IV transporter secretion system. The precise role of CagE is not known, but studies in animal models have shown that it is essential for pathogenesis in Helicobacter pylori induced gastritis and peptic ulceration []. Indeed, the expression of the cag PAI has been shown to be essential for stimulating human gastric epithelial cell apoptosis in vitro []. Similar type IV transport systems are also found in other bacteria. This domain is also found in proteins from the trb and Vir conjugal transfer systems in Agrobacterium tumefaciens and homologues of VirB proteins from other species.; GO: 0005524 ATP binding
Probab=25.55 E-value=1.7e+02 Score=19.15 Aligned_cols=51 Identities=12% Similarity=0.133 Sum_probs=34.8
Q ss_pred cccccccceeecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 5 ERNGAGEIFVDLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKT 55 (72)
Q Consensus 5 v~y~iGe~Fv~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~ 55 (72)
.-|.+=.+|..++..+|...+...+.++.+-=+.-.++..++..-+.+|..
T Consensus 91 ~e~~itqsf~~~~~~~a~~~l~~~~~~~~~~~d~a~~~~~~l~~a~~~~~s 141 (205)
T PF03135_consen 91 FEFIITQSFRFIWKQKAIKFLKRQQNQLRSSDDDALSQIEELDDALDELAS 141 (205)
T ss_pred HHHHHhheEEecchHHHHHHHHHHhhhhcccchhHHHHHHHHHHHHHHHhC
Confidence 445566789999999999999986555555444555556666666665543
No 488
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=25.47 E-value=3.2e+02 Score=22.32 Aligned_cols=22 Identities=27% Similarity=0.487 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy15717 20 NSEKSLEESRQNIKSDIASIEQ 41 (72)
Q Consensus 20 ~a~e~LE~~ke~l~~ei~~L~~ 41 (72)
+|.+.+..+..+++.-|++|+.
T Consensus 506 ~A~~~~~~~~~~~~~li~~l~~ 527 (782)
T PRK00409 506 EAKKLIGEDKEKLNELIASLEE 527 (782)
T ss_pred HHHHHHhhhhhHHHHHHHHHHH
Confidence 4444444444444444444443
No 489
>PF05816 TelA: Toxic anion resistance protein (TelA); InterPro: IPR008863 This family consists of several prokaryotic TelA like proteins. TelA and KlA are associated with tellurite resistance [] and plasmid fertility inhibition [].
Probab=25.43 E-value=2.6e+02 Score=20.13 Aligned_cols=41 Identities=17% Similarity=0.157 Sum_probs=29.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLYA 59 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LYa 59 (72)
+.....|+..+..+...+..|+...+....-+.+|..+.++
T Consensus 101 d~I~~~L~~~~~~L~~d~~~L~~l~~~n~~~~~~L~~~I~a 141 (333)
T PF05816_consen 101 DKIIAELESGQDELLRDNAMLDQLYEKNWEYYQELEKYIAA 141 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555667777777777777777777777777777766654
No 490
>PRK05755 DNA polymerase I; Provisional
Probab=25.40 E-value=1.6e+02 Score=24.19 Aligned_cols=41 Identities=22% Similarity=0.362 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHhhhC
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVM------SDLKTHLYAKFG 62 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m------~eLK~~LYakFG 62 (72)
.+.+++...+++.++++++.++..+-..- .+|...||.++|
T Consensus 502 ~~~~~~~~~~~~~~~~~l~~~~~~~~g~~fn~~S~~ql~~~L~~~lg 548 (880)
T PRK05755 502 REYLKELSAELAQRLAELEQEIYELAGEEFNINSPKQLGEILFEKLG 548 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHhcC
No 491
>COG4694 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.30 E-value=1.8e+02 Score=23.73 Aligned_cols=37 Identities=14% Similarity=0.313 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 18 KRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 18 ~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
.+.-.+.||+.....++++++|..+++.|..-|...+
T Consensus 450 ~ekk~n~LE~e~kn~~~ev~kls~ei~~ie~~l~~~~ 486 (758)
T COG4694 450 LEKKINNLEKEIKNNQEEVKKLSNEIKEIEKFLVSIK 486 (758)
T ss_pred HHHHHhHHHHHHHhhHHHHHHHHHHHHHHHHHHhhch
No 492
>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=25.28 E-value=1.6e+02 Score=17.47 Aligned_cols=42 Identities=12% Similarity=0.127 Sum_probs=0.0
Q ss_pred cchhHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQ--NIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 16 l~~e~a~e~LE~~ke--~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
+|.+++.+.+..... .+...+..++.++..+....+.|...|
T Consensus 58 ~~l~ei~~~l~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 101 (102)
T cd04789 58 LSLKECLACLQGKLTRSLLLERLSSLAEQIARKQQARDLLAALL 101 (102)
T ss_pred CCHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
No 493
>KOG2072|consensus
Probab=25.17 E-value=2.9e+02 Score=23.56 Aligned_cols=47 Identities=28% Similarity=0.325 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhhCCCccCCC
Q psy15717 21 SEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK-THLYAKFGNHIKLEA 69 (72)
Q Consensus 21 a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK-~~LYakFG~~InLe~ 69 (72)
.++..|...+.+..|+++++.+ .++.....|+ +.+|+|=|.-|+++.
T Consensus 611 ~ee~~Ere~~R~l~E~e~i~~k--~~ke~~~~~~~te~~aK~~k~~d~ed 658 (988)
T KOG2072|consen 611 IEEKKEREAKRILREKEAIRKK--ELKERLEQLKQTEVGAKGGKEKDLED 658 (988)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhccccCChHH
No 494
>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=25.09 E-value=1.8e+02 Score=21.31 Aligned_cols=36 Identities=17% Similarity=0.412 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 19 RNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLK 54 (72)
Q Consensus 19 e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK 54 (72)
..-.+.|......+.+.+..+...+..++.+|..|+
T Consensus 353 ~~~~~~L~~ve~~~~~N~~~i~~n~~~le~Ri~~L~ 388 (388)
T PF04912_consen 353 KKWEELLNKVEEKFKENMETIEKNVKKLEERIAKLQ 388 (388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
No 495
>cd07622 BAR_SNX4 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 4. 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. SNX4 is involved in recycling traffic from the sorting endosome (post-Golgi endosome) back to the late Golgi. It is also implicated in the regulation of plasma membrane receptor trafficking and interacts with receptors for EGF, insulin, platelet-derived growth factor and leptin. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and
Probab=25.03 E-value=2.2e+02 Score=19.17 Aligned_cols=38 Identities=8% Similarity=0.141 Sum_probs=0.0
Q ss_pred ecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 15 DLIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 15 ~l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
+++.+.+.+.|......++.+++..+...+....+|..
T Consensus 121 q~~~e~~~~~L~~k~~~l~~~ve~a~~~~e~f~~~~~~ 158 (201)
T cd07622 121 QYDLEKAEDALANKKQQGEEAVKEAKDELNEFVKKALE 158 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 496
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=25.00 E-value=2.6e+02 Score=21.11 Aligned_cols=37 Identities=16% Similarity=0.277 Sum_probs=0.0
Q ss_pred chhHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 17 IKRNSEKSLE-----ESRQNIKSDIASIEQTMSSIKTVMSDL 53 (72)
Q Consensus 17 ~~e~a~e~LE-----~~ke~l~~ei~~L~~el~~i~~~m~eL 53 (72)
+...|.++|. ..++-.+.+|..++.++..+..++.-|
T Consensus 61 ~l~~a~~~l~~~~D~em~ema~~Ei~~~~~~~~~le~~L~~l 102 (363)
T COG0216 61 DLEDAKEMLAEEKDPEMREMAEEEIKELEAKIEELEEELKIL 102 (363)
T ss_pred HHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
No 497
>COG1938 Archaeal enzymes of ATP-grasp superfamily [General function prediction only]
Probab=24.98 E-value=2e+02 Score=20.52 Aligned_cols=31 Identities=10% Similarity=0.283 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 22 EKSLEESRQNIKSDIASIEQTMSSIKTVMSD 52 (72)
Q Consensus 22 ~e~LE~~ke~l~~ei~~L~~el~~i~~~m~e 52 (72)
.+.|+++.+.++.+++++.++++.-...+..
T Consensus 206 td~L~keAe~i~~~lekl~eq~~~~~~~~~~ 236 (244)
T COG1938 206 TDKLEKEAEEIEEQLEKLAEQLEKEEERVER 236 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
No 498
>PF03223 V-ATPase_C: V-ATPase subunit C; InterPro: IPR004907 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. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C subunit that is part of the V1 complex, and is localised to the interface between the V1 and V0 complexes []. This subunit does not show any homology with F-ATPase subunits. The C subunit plays an essential role in controlling the assembly of V-ATPase, acting as a flexible stator that holds together the catalytic (V1) and membrane (V0) sectors of the enzyme []. The release of subunit C from the ATPase complex results in the dissociation of the V1 and V0 subcomplexes, which is an important mechanism in controlling V-ATPase activity in cells. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0033180 proton-transporting V-type ATPase, V1 domain; PDB: 1U7L_A.
Probab=24.93 E-value=2.9e+02 Score=20.68 Aligned_cols=33 Identities=21% Similarity=0.383 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 25 LEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 25 LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
|..-.+.+.+++.++++.++...+.-+++|..|
T Consensus 116 l~el~~~i~~~v~~id~dlk~k~~~Yn~~K~~l 148 (371)
T PF03223_consen 116 LKELVDIISKEVSQIDNDLKSKSSAYNNAKSNL 148 (371)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 499
>PF13339 AATF-Che1: Apoptosis antagonizing transcription factor
Probab=24.91 E-value=1.8e+02 Score=17.91 Aligned_cols=43 Identities=16% Similarity=0.298 Sum_probs=0.0
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 16 LIKRNSEKSLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHLY 58 (72)
Q Consensus 16 l~~e~a~e~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~LY 58 (72)
+|...+-+.+-..-+...+.+......+..+-..+-+|+..|+
T Consensus 35 LP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~l~~Lq~~L~ 77 (131)
T PF13339_consen 35 LPQPETLKEFCESDEEFQEALEEAEKALKKLLDSLLELQEELL 77 (131)
T ss_pred CCCchhHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
No 500
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=24.85 E-value=2e+02 Score=18.55 Aligned_cols=34 Identities=21% Similarity=0.276 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15717 24 SLEESRQNIKSDIASIEQTMSSIKTVMSDLKTHL 57 (72)
Q Consensus 24 ~LE~~ke~l~~ei~~L~~el~~i~~~m~eLK~~L 57 (72)
.+|.-.-...+.|..|++-+.....+|..|++..
T Consensus 94 ~~e~~i~~~~~~I~~Lq~~~~~~~~ki~~Le~~i 127 (146)
T PF08702_consen 94 ILETKIINQPSNIRVLQNILRSNRQKIQRLEQDI 127 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhhhHhHHHHHHHHHHHHHHHHHHHHHHH
Done!