Query 027236
Match_columns 226
No_of_seqs 112 out of 250
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 06:58:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027236.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027236hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4603 TBP-1 interacting prot 100.0 5.8E-51 1.2E-55 321.2 22.7 201 1-201 1-201 (201)
2 PF07106 TBPIP: Tat binding pr 100.0 6.5E-49 1.4E-53 319.3 22.4 169 7-176 1-169 (169)
3 PF03962 Mnd1: Mnd1 family; I 100.0 1.5E-28 3.3E-33 202.5 21.8 180 12-205 1-188 (188)
4 KOG3433 Protein involved in me 100.0 8.8E-27 1.9E-31 186.0 17.2 194 1-205 1-201 (203)
5 COG5124 Protein predicted to b 99.9 3.4E-26 7.4E-31 181.9 19.3 197 1-209 1-208 (209)
6 PF04703 FaeA: FaeA-like prote 98.1 6.1E-06 1.3E-10 56.0 5.2 57 9-68 2-59 (62)
7 PF03965 Penicillinase_R: Peni 97.8 0.0012 2.6E-08 50.0 13.4 61 7-68 3-64 (115)
8 PF01978 TrmB: Sugar-specific 97.7 9.9E-05 2.1E-09 50.6 5.8 58 6-68 7-64 (68)
9 cd07153 Fur_like Ferric uptake 97.7 0.00015 3.2E-09 54.8 7.3 62 8-69 2-66 (116)
10 smart00550 Zalpha Z-DNA-bindin 97.7 0.0002 4.3E-09 49.4 6.9 58 6-66 5-63 (68)
11 PF01475 FUR: Ferric uptake re 97.6 0.00037 8E-09 53.1 7.4 63 7-69 8-73 (120)
12 PRK06474 hypothetical protein; 97.4 0.011 2.3E-07 48.5 15.0 73 6-81 10-87 (178)
13 TIGR02698 CopY_TcrY copper tra 97.4 0.009 2E-07 46.4 13.5 61 7-68 4-65 (130)
14 smart00418 HTH_ARSR helix_turn 97.2 0.0021 4.5E-08 42.2 6.6 52 12-68 2-53 (66)
15 PF09339 HTH_IclR: IclR helix- 97.1 0.00085 1.8E-08 43.6 4.1 46 9-57 5-50 (52)
16 PHA00738 putative HTH transcri 97.0 0.009 1.9E-07 44.8 9.6 65 4-72 9-73 (108)
17 COG0735 Fur Fe2+/Zn2+ uptake r 96.9 0.0054 1.2E-07 48.6 8.0 66 6-71 20-88 (145)
18 PRK09462 fur ferric uptake reg 96.9 0.0048 1E-07 48.8 7.4 64 6-69 16-83 (148)
19 PF13412 HTH_24: Winged helix- 96.9 0.0059 1.3E-07 38.7 6.4 46 7-56 3-48 (48)
20 PF07061 Swi5: Swi5; InterPro 96.8 0.025 5.5E-07 40.6 9.8 78 121-202 5-82 (83)
21 PRK10141 DNA-binding transcrip 96.7 0.042 9E-07 42.0 11.3 61 5-69 14-74 (117)
22 PF12840 HTH_20: Helix-turn-he 96.7 0.0082 1.8E-07 40.2 6.5 53 6-62 9-61 (61)
23 COG3355 Predicted transcriptio 96.7 0.035 7.6E-07 42.9 10.7 52 6-60 26-77 (126)
24 PF08679 DsrD: Dissimilatory s 96.6 0.0087 1.9E-07 40.8 6.1 60 7-68 1-63 (67)
25 smart00420 HTH_DEOR helix_turn 96.6 0.011 2.5E-07 37.4 6.2 49 9-61 2-50 (53)
26 PRK11639 zinc uptake transcrip 96.5 0.011 2.3E-07 48.1 7.0 57 6-62 25-83 (169)
27 PF13463 HTH_27: Winged helix 96.4 0.017 3.8E-07 38.9 6.7 57 9-68 5-64 (68)
28 cd00090 HTH_ARSR Arsenical Res 96.4 0.029 6.3E-07 37.7 7.8 59 6-69 6-64 (78)
29 PF01022 HTH_5: Bacterial regu 96.4 0.013 2.9E-07 37.1 5.5 46 6-56 1-46 (47)
30 smart00346 HTH_ICLR helix_turn 96.4 0.014 3E-07 41.7 6.2 48 8-58 6-53 (91)
31 TIGR02702 SufR_cyano iron-sulf 96.3 0.25 5.3E-06 41.0 14.5 59 8-70 2-65 (203)
32 PF01325 Fe_dep_repress: Iron 96.3 0.019 4.2E-07 38.5 6.2 50 9-62 10-59 (60)
33 COG4565 CitB Response regulato 96.1 0.023 5.1E-07 47.7 7.2 64 3-69 152-222 (224)
34 PF08279 HTH_11: HTH domain; 96.0 0.035 7.6E-07 36.0 6.3 44 9-55 2-45 (55)
35 COG1378 Predicted transcriptio 95.9 0.17 3.7E-06 43.6 11.8 93 7-113 16-108 (247)
36 PF08317 Spc7: Spc7 kinetochor 95.8 0.21 4.6E-06 44.7 12.4 86 73-164 203-288 (325)
37 COG2345 Predicted transcriptio 95.6 0.76 1.6E-05 38.9 14.2 58 7-68 11-73 (218)
38 PF12802 MarR_2: MarR family; 95.6 0.065 1.4E-06 35.4 6.4 49 8-59 6-55 (62)
39 PF12325 TMF_TATA_bd: TATA ele 95.6 0.44 9.5E-06 36.6 11.6 87 81-170 25-114 (120)
40 COG3682 Predicted transcriptio 95.5 0.12 2.5E-06 39.9 8.3 62 6-68 5-67 (123)
41 cd00092 HTH_CRP helix_turn_hel 95.5 0.066 1.4E-06 35.7 6.2 40 19-61 22-61 (67)
42 TIGR01610 phage_O_Nterm phage 95.2 0.12 2.7E-06 37.7 7.4 50 19-73 44-93 (95)
43 PF02403 Seryl_tRNA_N: Seryl-t 95.2 0.3 6.4E-06 36.3 9.7 66 78-143 28-94 (108)
44 PF08461 HTH_12: Ribonuclease 95.2 0.063 1.4E-06 36.7 5.4 51 11-61 2-54 (66)
45 PHA02943 hypothetical protein; 95.2 0.47 1E-05 37.9 10.9 63 1-68 1-67 (165)
46 PF01726 LexA_DNA_bind: LexA D 95.1 0.075 1.6E-06 36.3 5.6 49 7-58 10-59 (65)
47 PRK06266 transcription initiat 95.1 0.41 8.8E-06 39.2 10.8 59 6-68 21-84 (178)
48 COG1510 Predicted transcriptio 95.0 0.11 2.4E-06 42.2 7.1 59 10-71 29-89 (177)
49 PRK11546 zraP zinc resistance 95.0 0.32 6.9E-06 38.5 9.6 72 70-143 38-109 (143)
50 PRK14127 cell division protein 95.0 0.64 1.4E-05 35.1 10.7 83 22-132 5-101 (109)
51 PF08220 HTH_DeoR: DeoR-like h 94.9 0.15 3.2E-06 33.7 6.4 49 9-62 2-50 (57)
52 smart00787 Spc7 Spc7 kinetocho 94.9 0.46 1E-05 42.4 11.4 87 73-165 198-284 (312)
53 PRK03573 transcriptional regul 94.8 1.1 2.4E-05 34.7 12.4 52 7-61 31-82 (144)
54 smart00345 HTH_GNTR helix_turn 94.5 0.085 1.9E-06 34.1 4.5 37 20-59 17-54 (60)
55 PRK11569 transcriptional repre 94.5 0.078 1.7E-06 46.1 5.6 49 7-58 28-76 (274)
56 PF13730 HTH_36: Helix-turn-he 94.4 0.1 2.3E-06 33.7 4.8 32 21-55 23-55 (55)
57 PF02082 Rrf2: Transcriptional 94.4 0.17 3.6E-06 35.9 6.2 56 11-70 12-69 (83)
58 PF06005 DUF904: Protein of un 94.4 0.71 1.5E-05 32.2 9.1 59 78-138 3-61 (72)
59 TIGR02431 pcaR_pcaU beta-ketoa 94.3 0.088 1.9E-06 44.9 5.4 48 8-58 10-57 (248)
60 PF05812 Herpes_BLRF2: Herpesv 94.0 0.84 1.8E-05 34.8 9.4 47 115-161 2-53 (118)
61 PF13601 HTH_34: Winged helix 94.0 0.71 1.5E-05 32.6 8.6 73 9-93 2-78 (80)
62 PF06810 Phage_GP20: Phage min 93.9 0.7 1.5E-05 37.0 9.5 58 80-137 14-72 (155)
63 PRK09834 DNA-binding transcrip 93.9 0.16 3.5E-06 43.8 6.2 52 7-61 11-62 (263)
64 TIGR00122 birA_repr_reg BirA b 93.9 0.58 1.3E-05 31.7 7.8 62 11-81 4-65 (69)
65 COG1579 Zn-ribbon protein, pos 93.6 1.8 4E-05 37.1 12.0 88 81-172 12-105 (239)
66 PRK10163 DNA-binding transcrip 93.4 0.2 4.3E-06 43.5 5.9 57 7-68 25-81 (271)
67 smart00347 HTH_MARR helix_turn 93.3 2 4.4E-05 30.3 10.8 50 7-60 10-59 (101)
68 PF05584 Sulfolobus_pRN: Sulfo 93.2 0.71 1.5E-05 32.2 7.2 56 9-69 7-66 (72)
69 PF08784 RPA_C: Replication pr 93.2 0.22 4.8E-06 36.6 5.1 47 6-55 46-95 (102)
70 PF05557 MAD: Mitotic checkpoi 93.2 2.7 5.8E-05 41.6 14.1 68 78-145 502-588 (722)
71 PF02295 z-alpha: Adenosine de 93.1 0.3 6.5E-06 33.4 5.2 50 7-58 4-53 (66)
72 PRK11637 AmiB activator; Provi 92.9 5.9 0.00013 36.6 15.3 63 78-142 46-108 (428)
73 TIGR02944 suf_reg_Xantho FeS a 92.8 0.27 5.9E-06 37.7 5.3 56 9-68 11-67 (130)
74 COG3937 Uncharacterized conser 92.7 2.7 5.9E-05 31.4 10.1 81 36-140 20-107 (108)
75 PRK10884 SH3 domain-containing 92.7 4.4 9.6E-05 34.0 12.8 58 81-143 95-152 (206)
76 PRK11637 AmiB activator; Provi 92.6 3.4 7.3E-05 38.3 13.2 59 83-143 44-102 (428)
77 PF08614 ATG16: Autophagy prot 92.5 2.1 4.5E-05 35.3 10.5 22 151-172 164-185 (194)
78 COG1321 TroR Mn-dependent tran 92.5 0.38 8.3E-06 38.5 5.9 57 6-66 9-65 (154)
79 smart00419 HTH_CRP helix_turn_ 92.5 0.42 9.1E-06 29.5 5.0 34 22-58 8-41 (48)
80 COG1777 Predicted transcriptio 92.3 3.4 7.3E-05 34.7 11.3 48 5-57 13-60 (217)
81 PF01047 MarR: MarR family; I 92.2 0.55 1.2E-05 30.5 5.5 47 9-59 5-51 (59)
82 TIGR02337 HpaR homoprotocatech 92.2 1.6 3.4E-05 32.7 8.7 57 8-68 29-88 (118)
83 TIGR00738 rrf2_super rrf2 fami 92.1 0.41 8.8E-06 36.6 5.5 54 11-68 12-67 (132)
84 PRK03902 manganese transport t 92.0 0.59 1.3E-05 36.5 6.4 52 6-61 7-58 (142)
85 cd07377 WHTH_GntR Winged helix 91.9 0.99 2.1E-05 29.5 6.6 49 7-58 5-58 (66)
86 PF09012 FeoC: FeoC like trans 91.9 0.35 7.5E-06 33.1 4.4 46 11-60 4-49 (69)
87 PF14197 Cep57_CLD_2: Centroso 91.8 2.2 4.8E-05 29.4 8.2 59 84-142 3-66 (69)
88 PRK05431 seryl-tRNA synthetase 91.5 1.6 3.4E-05 40.6 9.7 66 78-143 27-93 (425)
89 PRK15090 DNA-binding transcrip 91.4 0.5 1.1E-05 40.5 5.9 56 7-68 14-69 (257)
90 PF12718 Tropomyosin_1: Tropom 91.4 3.4 7.4E-05 32.6 10.1 90 82-171 31-130 (143)
91 PRK10870 transcriptional repre 91.4 6.7 0.00015 31.8 12.4 53 7-62 55-108 (176)
92 PF07381 DUF1495: Winged helix 91.1 1.4 3.1E-05 32.0 7.1 63 7-72 9-83 (90)
93 TIGR01889 Staph_reg_Sar staphy 90.9 2.1 4.5E-05 31.8 8.2 57 9-68 27-88 (109)
94 PF07848 PaaX: PaaX-like prote 90.9 0.59 1.3E-05 32.4 4.7 55 14-68 12-66 (70)
95 TIGR00373 conserved hypothetic 90.9 3.9 8.4E-05 32.8 10.1 55 10-68 17-76 (158)
96 PLN02678 seryl-tRNA synthetase 90.8 2.1 4.5E-05 40.2 9.7 65 79-143 33-98 (448)
97 COG2433 Uncharacterized conser 90.8 3.8 8.2E-05 39.6 11.3 16 124-139 475-490 (652)
98 PF00325 Crp: Bacterial regula 90.7 0.56 1.2E-05 27.4 3.7 31 22-55 2-32 (32)
99 PF14282 FlxA: FlxA-like prote 90.6 2.2 4.7E-05 31.9 7.9 52 85-143 18-71 (106)
100 TIGR02449 conserved hypothetic 90.4 4 8.8E-05 27.8 8.3 62 81-144 2-63 (65)
101 PF13545 HTH_Crp_2: Crp-like h 90.3 0.59 1.3E-05 32.0 4.4 33 21-56 27-59 (76)
102 TIGR00414 serS seryl-tRNA synt 90.2 2.5 5.5E-05 39.1 9.7 65 79-143 30-96 (418)
103 TIGR01884 cas_HTH CRISPR locus 90.2 1.4 3E-05 36.5 7.3 58 6-68 142-199 (203)
104 PF12329 TMF_DNA_bd: TATA elem 90.1 3.5 7.7E-05 28.8 8.2 61 81-143 7-67 (74)
105 PRK00215 LexA repressor; Valid 90.1 1.2 2.5E-05 36.9 6.8 57 8-68 5-66 (205)
106 COG5185 HEC1 Protein involved 89.6 13 0.00029 35.0 13.5 81 119-200 333-429 (622)
107 PF09744 Jnk-SapK_ap_N: JNK_SA 89.5 9.6 0.00021 30.6 14.2 102 79-181 50-153 (158)
108 COG2512 Predicted membrane-ass 89.3 1.3 2.7E-05 38.5 6.5 60 6-68 194-253 (258)
109 PF05158 RNA_pol_Rpc34: RNA po 89.3 1.7 3.6E-05 39.1 7.5 79 1-81 1-87 (327)
110 PF10552 ORF6C: ORF6C domain; 89.3 7.8 0.00017 29.2 10.5 68 122-190 7-86 (116)
111 smart00529 HTH_DTXR Helix-turn 89.1 6.2 0.00013 28.1 9.2 33 26-61 3-35 (96)
112 KOG4603 TBP-1 interacting prot 89.0 2.8 6.1E-05 34.1 7.8 23 36-58 22-44 (201)
113 PF08657 DASH_Spc34: DASH comp 89.0 3.5 7.6E-05 35.8 9.1 64 79-142 180-258 (259)
114 PF00392 GntR: Bacterial regul 89.0 1.2 2.6E-05 29.7 5.0 36 22-60 23-59 (64)
115 PF14389 Lzipper-MIP1: Leucine 88.9 4.7 0.0001 29.1 8.3 65 79-143 8-81 (88)
116 PF10146 zf-C4H2: Zinc finger- 88.7 10 0.00023 32.3 11.6 100 90-201 5-109 (230)
117 PLN02320 seryl-tRNA synthetase 88.6 3.9 8.4E-05 38.9 9.7 65 78-142 92-156 (502)
118 PRK11512 DNA-binding transcrip 88.6 1.5 3.4E-05 34.0 6.1 49 8-60 41-89 (144)
119 PF05732 RepL: Firmicute plasm 88.5 1.9 4.1E-05 34.9 6.7 60 8-73 56-120 (165)
120 PRK10046 dpiA two-component re 88.0 1.4 3E-05 36.6 5.9 49 11-62 166-215 (225)
121 PRK09954 putative kinase; Prov 87.9 1.4 3.1E-05 39.5 6.3 50 7-60 3-52 (362)
122 TIGR02010 IscR iron-sulfur clu 87.9 2.1 4.5E-05 33.1 6.4 54 11-68 12-67 (135)
123 PF10458 Val_tRNA-synt_C: Valy 87.9 3.9 8.5E-05 27.7 7.0 58 85-142 3-65 (66)
124 COG1414 IclR Transcriptional r 87.8 1.4 2.9E-05 37.9 5.7 48 9-59 6-53 (246)
125 COG1497 Predicted transcriptio 87.6 13 0.00029 31.9 11.4 81 2-98 6-87 (260)
126 PRK10411 DNA-binding transcrip 87.6 8 0.00017 33.0 10.3 54 6-64 3-56 (240)
127 COG4189 Predicted transcriptio 87.4 2.2 4.7E-05 36.7 6.5 63 6-72 22-88 (308)
128 PRK09391 fixK transcriptional 87.2 1.9 4.1E-05 36.2 6.3 52 7-61 154-215 (230)
129 PF07106 TBPIP: Tat binding pr 86.8 1.9 4.1E-05 34.7 5.7 60 85-144 71-130 (169)
130 COG0640 ArsR Predicted transcr 86.5 5.1 0.00011 27.8 7.4 58 6-67 24-81 (110)
131 PRK12423 LexA repressor; Provi 86.4 3.4 7.3E-05 34.3 7.2 59 8-69 7-70 (202)
132 PRK11050 manganese transport r 86.1 3.8 8.3E-05 32.4 7.1 51 6-60 36-86 (152)
133 TIGR00498 lexA SOS regulatory 86.1 1.5 3.3E-05 36.0 5.0 54 6-63 5-63 (199)
134 KOG0971 Microtubule-associated 86.1 11 0.00025 38.1 11.5 96 78-174 312-418 (1243)
135 PF15188 CCDC-167: Coiled-coil 86.0 4 8.8E-05 29.4 6.4 59 86-144 5-64 (85)
136 PF12718 Tropomyosin_1: Tropom 86.0 7.2 0.00016 30.7 8.5 21 91-111 19-39 (143)
137 PF09726 Macoilin: Transmembra 86.0 11 0.00025 37.3 11.7 66 77-144 416-481 (697)
138 smart00344 HTH_ASNC helix_turn 86.0 2.9 6.3E-05 30.6 6.0 46 7-56 3-48 (108)
139 PF14257 DUF4349: Domain of un 85.9 6 0.00013 34.0 8.8 118 6-144 62-190 (262)
140 PF13851 GAS: Growth-arrest sp 85.9 19 0.00041 30.0 11.7 16 125-140 64-79 (201)
141 KOG4809 Rab6 GTPase-interactin 85.8 26 0.00055 33.7 13.2 60 120-180 384-445 (654)
142 PHA02701 ORF020 dsRNA-binding 85.8 2.5 5.4E-05 34.7 5.9 61 7-70 4-64 (183)
143 KOG0994 Extracellular matrix g 85.8 6.2 0.00013 41.0 9.6 73 74-146 1220-1297(1758)
144 PRK15422 septal ring assembly 85.5 11 0.00023 26.7 9.5 21 81-101 6-26 (79)
145 PRK11014 transcriptional repre 85.5 2.5 5.3E-05 32.9 5.7 47 19-68 22-68 (141)
146 PRK11920 rirA iron-responsive 85.5 3.5 7.7E-05 32.7 6.6 54 12-68 13-67 (153)
147 PF11932 DUF3450: Protein of u 85.4 14 0.0003 31.6 10.8 60 83-144 39-98 (251)
148 PRK14137 recX recombination re 85.3 2.5 5.5E-05 35.1 5.9 56 6-61 36-93 (195)
149 PRK11642 exoribonuclease R; Pr 85.1 2.2 4.7E-05 43.0 6.3 49 9-57 21-70 (813)
150 PF10805 DUF2730: Protein of u 85.0 5.8 0.00013 29.6 7.2 56 88-143 37-92 (106)
151 COG3883 Uncharacterized protei 84.8 4.7 0.0001 35.1 7.5 28 85-112 37-64 (265)
152 KOG3647 Predicted coiled-coil 84.3 28 0.0006 30.5 12.2 95 119-214 136-250 (338)
153 PF00038 Filament: Intermediat 84.1 7.3 0.00016 34.2 8.6 10 209-218 299-308 (312)
154 KOG0979 Structural maintenance 83.8 19 0.00042 36.8 12.1 107 79-202 821-927 (1072)
155 PRK10906 DNA-binding transcrip 83.8 3 6.5E-05 35.9 5.9 54 6-64 4-57 (252)
156 COG3398 Uncharacterized protei 83.7 5.3 0.00011 33.9 7.1 65 6-74 100-164 (240)
157 PHA03162 hypothetical protein; 83.7 19 0.0004 28.0 11.3 49 114-162 11-64 (135)
158 PRK11534 DNA-binding transcrip 83.7 20 0.00043 29.7 10.8 38 20-60 28-65 (224)
159 PF07926 TPR_MLP1_2: TPR/MLP1/ 83.6 9.3 0.0002 29.5 8.1 30 81-110 61-90 (132)
160 PF01486 K-box: K-box region; 83.5 9.2 0.0002 27.9 7.7 54 119-172 15-69 (100)
161 PF06008 Laminin_I: Laminin Do 83.4 27 0.00058 30.1 11.7 52 119-170 90-141 (264)
162 PF04977 DivIC: Septum formati 83.3 4.9 0.00011 27.6 5.9 38 79-116 17-54 (80)
163 COG4026 Uncharacterized protei 83.1 22 0.00047 30.4 10.4 27 118-144 151-177 (290)
164 COG1846 MarR Transcriptional r 83.0 3.9 8.5E-05 29.8 5.6 48 9-60 24-71 (126)
165 PF02002 TFIIE_alpha: TFIIE al 82.8 3.5 7.6E-05 30.3 5.2 57 8-68 14-75 (105)
166 PHA03155 hypothetical protein; 82.8 18 0.0004 27.3 11.2 48 114-161 6-54 (115)
167 PRK04984 fatty acid metabolism 82.8 6.4 0.00014 33.0 7.5 53 6-61 10-67 (239)
168 PF03938 OmpH: Outer membrane 82.8 6.2 0.00013 31.0 7.0 60 82-141 39-98 (158)
169 PF03551 PadR: Transcriptional 82.7 6.5 0.00014 26.9 6.3 55 12-68 1-65 (75)
170 PHA02562 46 endonuclease subun 82.6 25 0.00055 33.3 12.3 63 81-143 176-240 (562)
171 PF07200 Mod_r: Modifier of ru 82.4 22 0.00047 27.8 12.2 90 79-172 55-144 (150)
172 COG4026 Uncharacterized protei 82.2 11 0.00024 32.0 8.4 56 85-142 134-189 (290)
173 PRK13729 conjugal transfer pil 82.2 7.1 0.00015 36.8 8.0 57 86-144 69-125 (475)
174 PF15456 Uds1: Up-regulated Du 82.2 21 0.00045 27.5 10.1 70 73-143 16-101 (124)
175 PF08614 ATG16: Autophagy prot 82.2 27 0.00057 28.7 11.6 32 83-114 78-109 (194)
176 TIGR02787 codY_Gpos GTP-sensin 82.1 4.6 9.9E-05 34.8 6.2 58 7-67 183-240 (251)
177 PF01638 HxlR: HxlR-like helix 82.1 15 0.00033 26.1 8.2 47 11-61 9-55 (90)
178 PF07544 Med9: RNA polymerase 82.0 15 0.00033 26.0 8.1 54 91-144 26-80 (83)
179 PRK03918 chromosome segregatio 81.8 29 0.00062 34.9 12.9 30 84-113 624-653 (880)
180 KOG4302 Microtubule-associated 81.8 56 0.0012 32.2 18.9 76 119-202 113-202 (660)
181 COG4942 Membrane-bound metallo 81.4 46 0.001 31.0 13.4 20 166-185 108-127 (420)
182 PRK00117 recX recombination re 81.4 3.8 8.3E-05 32.3 5.3 54 6-61 11-64 (157)
183 PRK14165 winged helix-turn-hel 81.3 22 0.00047 30.1 10.1 48 18-68 15-64 (217)
184 PRK05638 threonine synthase; V 81.3 4.8 0.0001 37.5 6.7 60 6-68 370-430 (442)
185 PRK11161 fumarate/nitrate redu 81.2 3.1 6.7E-05 34.6 5.0 49 7-58 155-217 (235)
186 PRK09802 DNA-binding transcrip 81.2 4.5 9.7E-05 35.2 6.1 53 6-63 16-68 (269)
187 PF04065 Not3: Not1 N-terminal 81.2 34 0.00073 29.3 11.5 82 83-166 126-211 (233)
188 COG1654 BirA Biotin operon rep 80.9 7 0.00015 27.7 5.9 54 10-68 7-60 (79)
189 KOG0250 DNA repair protein RAD 80.8 16 0.00034 37.7 10.3 51 94-144 366-422 (1074)
190 PRK13777 transcriptional regul 80.7 30 0.00066 28.4 12.2 57 8-68 46-104 (185)
191 PF14947 HTH_45: Winged helix- 80.4 15 0.00033 25.4 7.6 49 11-68 10-58 (77)
192 PRK10857 DNA-binding transcrip 80.4 3.2 6.9E-05 33.5 4.5 49 18-70 21-69 (164)
193 KOG0977 Nuclear envelope prote 80.2 56 0.0012 31.5 13.3 26 119-144 151-176 (546)
194 PF08280 HTH_Mga: M protein tr 80.0 3.8 8.3E-05 27.0 4.1 40 8-51 6-45 (59)
195 PRK10079 phosphonate metabolis 79.9 3.7 8.1E-05 34.7 5.1 37 24-64 37-73 (241)
196 PF06156 DUF972: Protein of un 79.6 14 0.0003 27.7 7.4 25 120-144 33-57 (107)
197 COG3883 Uncharacterized protei 79.5 42 0.0009 29.3 11.7 59 79-139 38-96 (265)
198 PRK11886 bifunctional biotin-- 79.5 6.3 0.00014 34.9 6.6 51 8-62 5-55 (319)
199 PRK13918 CRP/FNR family transc 79.4 4.4 9.5E-05 32.8 5.2 42 21-68 148-189 (202)
200 PRK13182 racA polar chromosome 79.3 33 0.00071 28.0 11.1 56 79-134 85-143 (175)
201 PF06163 DUF977: Bacterial pro 79.1 9.4 0.0002 29.5 6.4 51 6-60 11-61 (127)
202 TIGR02231 conserved hypothetic 79.1 45 0.00098 31.7 12.6 65 76-140 68-148 (525)
203 TIGR03697 NtcA_cyano global ni 78.9 6.4 0.00014 31.4 6.0 56 7-68 114-183 (193)
204 PF12325 TMF_TATA_bd: TATA ele 78.9 27 0.00058 26.7 11.5 52 77-137 14-65 (120)
205 TIGR02404 trehalos_R_Bsub treh 78.8 3.2 6.9E-05 34.8 4.3 37 24-64 26-62 (233)
206 PF11559 ADIP: Afadin- and alp 78.6 30 0.00064 27.1 10.2 13 45-57 7-19 (151)
207 PF10473 CENP-F_leu_zip: Leuci 78.5 18 0.0004 28.4 8.1 19 120-138 84-102 (140)
208 TIGR00606 rad50 rad50. This fa 78.5 56 0.0012 34.8 14.1 28 168-195 950-977 (1311)
209 PRK02224 chromosome segregatio 78.4 51 0.0011 33.3 13.4 33 86-118 613-645 (880)
210 TIGR03752 conj_TIGR03752 integ 78.4 12 0.00025 35.3 8.0 28 86-113 66-93 (472)
211 PF10805 DUF2730: Protein of u 78.4 20 0.00044 26.6 8.0 64 77-142 33-98 (106)
212 PF01920 Prefoldin_2: Prefoldi 78.2 23 0.00049 25.6 10.0 39 80-118 6-44 (106)
213 PRK10884 SH3 domain-containing 78.1 19 0.0004 30.2 8.6 54 86-144 93-146 (206)
214 PF10376 Mei5: Double-strand r 78.1 41 0.00089 28.5 10.7 83 117-203 132-217 (221)
215 TIGR01529 argR_whole arginine 78.0 27 0.00059 27.5 9.1 57 8-68 2-61 (146)
216 COG3937 Uncharacterized conser 77.9 2.1 4.5E-05 32.1 2.5 38 25-62 26-64 (108)
217 PF07851 TMPIT: TMPIT-like pro 77.8 43 0.00094 30.2 11.2 86 79-180 4-89 (330)
218 COG1522 Lrp Transcriptional re 77.7 9.4 0.0002 29.5 6.5 50 6-59 7-56 (154)
219 PF15294 Leu_zip: Leucine zipp 77.7 2.2 4.7E-05 37.4 3.0 133 23-166 30-174 (278)
220 TIGR03338 phnR_burk phosphonat 77.7 37 0.0008 27.7 13.5 39 20-61 32-70 (212)
221 PRK14999 histidine utilization 77.6 5.1 0.00011 33.8 5.2 37 24-64 38-74 (241)
222 KOG3230 Vacuolar assembly/sort 77.5 41 0.00089 28.1 14.7 130 83-213 20-185 (224)
223 TIGR03185 DNA_S_dndD DNA sulfu 77.2 76 0.0017 31.1 14.6 85 79-163 209-311 (650)
224 PRK09990 DNA-binding transcrip 77.1 43 0.00094 28.2 16.4 39 20-61 28-67 (251)
225 PRK13509 transcriptional repre 77.0 8.2 0.00018 33.1 6.4 53 6-63 4-56 (251)
226 TIGR02338 gimC_beta prefoldin, 76.9 28 0.0006 25.9 9.8 39 80-118 11-49 (110)
227 PF12795 MscS_porin: Mechanose 76.8 45 0.00098 28.2 11.7 82 75-158 74-156 (240)
228 PRK04406 hypothetical protein; 76.8 23 0.00049 24.8 7.4 52 91-144 9-60 (75)
229 PRK04172 pheS phenylalanyl-tRN 76.6 10 0.00022 35.8 7.4 50 7-60 6-55 (489)
230 PRK11753 DNA-binding transcrip 76.3 8.7 0.00019 31.1 6.2 41 22-66 168-208 (211)
231 PF06224 HTH_42: Winged helix 76.1 8.3 0.00018 34.0 6.4 57 7-68 167-225 (327)
232 TIGR02325 C_P_lyase_phnF phosp 76.1 4.2 9.1E-05 34.0 4.3 34 24-60 34-67 (238)
233 PF15290 Syntaphilin: Golgi-lo 76.0 53 0.0012 28.9 10.8 70 76-145 54-139 (305)
234 PF08317 Spc7: Spc7 kinetochor 75.9 58 0.0013 29.0 14.0 32 84-115 168-199 (325)
235 PF05531 NPV_P10: Nucleopolyhe 75.9 25 0.00053 24.7 8.1 54 91-144 9-63 (75)
236 PRK11169 leucine-responsive tr 75.8 8.8 0.00019 30.6 5.9 48 6-57 13-60 (164)
237 PRK02119 hypothetical protein; 75.6 24 0.00052 24.5 7.3 53 91-145 7-59 (73)
238 PRK10434 srlR DNA-bindng trans 75.6 9 0.0002 32.9 6.3 54 6-64 4-57 (256)
239 COG3398 Uncharacterized protei 75.4 9 0.00019 32.6 5.9 58 9-70 176-233 (240)
240 PRK11402 DNA-binding transcrip 75.2 4.6 9.9E-05 34.1 4.3 40 21-64 32-71 (241)
241 KOG0977 Nuclear envelope prote 75.1 10 0.00022 36.5 6.8 67 78-144 295-370 (546)
242 PF08826 DMPK_coil: DMPK coile 75.0 23 0.00049 23.9 8.2 44 91-143 16-59 (61)
243 PHA02562 46 endonuclease subun 74.9 77 0.0017 30.0 13.7 45 63-109 285-329 (562)
244 PF14197 Cep57_CLD_2: Centroso 74.9 24 0.00053 24.2 7.3 59 79-137 5-68 (69)
245 PF15290 Syntaphilin: Golgi-lo 74.8 25 0.00054 30.9 8.5 30 112-141 113-142 (305)
246 TIGR02844 spore_III_D sporulat 74.8 8.3 0.00018 27.4 4.8 36 6-46 5-40 (80)
247 TIGR02277 PaaX_trns_reg phenyl 74.7 5.4 0.00012 35.0 4.7 58 14-71 9-66 (280)
248 PRK13182 racA polar chromosome 74.6 45 0.00098 27.2 13.5 112 23-144 1-146 (175)
249 PF02186 TFIIE_beta: TFIIE bet 74.6 17 0.00036 24.7 6.1 47 10-61 8-54 (65)
250 PRK04778 septation ring format 74.5 85 0.0018 30.3 14.2 21 177-197 429-450 (569)
251 COG3074 Uncharacterized protei 74.5 26 0.00056 24.3 8.9 12 162-173 59-70 (79)
252 PF04102 SlyX: SlyX; InterPro 74.4 15 0.00033 25.1 5.9 49 93-143 4-52 (69)
253 KOG1962 B-cell receptor-associ 74.3 19 0.00042 30.4 7.6 59 79-139 151-209 (216)
254 KOG0250 DNA repair protein RAD 74.2 1.2E+02 0.0025 31.7 14.6 32 81-112 663-694 (1074)
255 PRK10402 DNA-binding transcrip 74.2 9.8 0.00021 31.6 6.0 56 7-68 150-209 (226)
256 COG3888 Predicted transcriptio 74.1 16 0.00036 31.9 7.3 60 8-71 5-67 (321)
257 PRK00846 hypothetical protein; 74.0 20 0.00043 25.3 6.5 52 91-144 11-62 (77)
258 TIGR02018 his_ut_repres histid 74.0 6.9 0.00015 32.7 5.1 34 24-60 27-60 (230)
259 PRK11239 hypothetical protein; 73.9 18 0.00039 30.5 7.3 53 9-61 9-75 (215)
260 PF07989 Microtub_assoc: Micro 73.9 28 0.0006 24.4 8.9 60 82-142 3-62 (75)
261 COG1579 Zn-ribbon protein, pos 73.7 58 0.0013 28.0 13.3 6 91-96 64-69 (239)
262 PF08222 HTH_CodY: CodY helix- 73.6 10 0.00022 25.3 4.6 39 25-66 7-45 (61)
263 PF02183 HALZ: Homeobox associ 73.4 15 0.00034 23.0 5.3 35 80-114 6-40 (45)
264 PRK04424 fatty acid biosynthes 73.3 7.1 0.00015 32.0 4.8 47 6-56 6-52 (185)
265 COG5293 Predicted ATPase [Gene 73.1 56 0.0012 30.9 10.9 104 84-187 340-459 (591)
266 PF15450 DUF4631: Domain of un 73.0 90 0.0019 29.9 12.7 90 85-174 411-508 (531)
267 PRK13169 DNA replication intia 72.9 30 0.00065 26.1 7.7 48 95-144 10-57 (110)
268 PF09602 PhaP_Bmeg: Polyhydrox 72.9 49 0.0011 26.8 12.2 99 86-185 48-147 (165)
269 PF00261 Tropomyosin: Tropomyo 72.9 58 0.0012 27.6 13.4 21 161-181 209-229 (237)
270 PF06005 DUF904: Protein of un 72.9 29 0.00062 24.1 9.6 12 161-172 51-62 (72)
271 PF12128 DUF3584: Protein of u 72.9 1.3E+02 0.0029 31.8 15.5 54 83-141 820-873 (1201)
272 PF10211 Ax_dynein_light: Axon 72.6 26 0.00057 28.8 8.1 8 124-131 128-135 (189)
273 PRK01156 chromosome segregatio 72.5 54 0.0012 33.2 11.8 30 85-114 635-664 (895)
274 PF10234 Cluap1: Clusterin-ass 72.2 67 0.0015 28.1 12.5 75 97-174 173-247 (267)
275 PRK11179 DNA-binding transcrip 72.1 11 0.00025 29.6 5.6 47 6-56 8-54 (153)
276 PF09726 Macoilin: Transmembra 72.1 23 0.00049 35.2 8.7 59 81-139 547-610 (697)
277 PF05008 V-SNARE: Vesicle tran 72.0 29 0.00063 23.8 7.2 57 82-141 21-79 (79)
278 COG5570 Uncharacterized small 72.0 25 0.00053 22.9 6.3 50 93-144 5-54 (57)
279 PF12630 Pox_polyA_pol_N: Poxv 71.9 2.1 4.6E-05 32.0 1.2 43 6-48 63-105 (108)
280 PF12252 SidE: Dot/Icm substra 71.8 1.1E+02 0.0024 32.0 13.3 49 119-167 1127-1175(1439)
281 PF06657 Cep57_MT_bd: Centroso 71.8 32 0.0007 24.2 9.8 54 81-134 12-68 (79)
282 PF10359 Fmp27_WPPW: RNA pol I 71.8 18 0.0004 34.0 7.8 56 87-142 164-219 (475)
283 PF08826 DMPK_coil: DMPK coile 71.7 28 0.0006 23.4 6.7 18 124-141 33-50 (61)
284 PRK10265 chaperone-modulator p 71.5 38 0.00081 24.9 8.4 97 17-143 2-98 (101)
285 PF05837 CENP-H: Centromere pr 71.0 40 0.00087 25.0 10.2 29 150-178 56-84 (106)
286 PRK03918 chromosome segregatio 70.7 1.2E+02 0.0026 30.5 14.5 6 192-197 751-756 (880)
287 COG3432 Predicted transcriptio 70.7 6.8 0.00015 28.8 3.6 57 9-68 17-74 (95)
288 PRK09764 DNA-binding transcrip 70.6 6.9 0.00015 33.1 4.3 34 24-60 31-64 (240)
289 PF12329 TMF_DNA_bd: TATA elem 70.5 33 0.00071 23.8 8.4 16 123-138 54-69 (74)
290 PRK09464 pdhR transcriptional 70.3 65 0.0014 27.1 16.0 39 20-61 31-70 (254)
291 COG1959 Predicted transcriptio 70.0 14 0.0003 29.2 5.7 55 11-68 12-68 (150)
292 PF09377 SBDS_C: SBDS protein 70.0 6.4 0.00014 30.2 3.6 43 10-52 4-59 (125)
293 COG1340 Uncharacterized archae 69.9 68 0.0015 28.5 10.3 24 120-143 225-248 (294)
294 KOG0804 Cytoplasmic Zn-finger 69.9 24 0.00052 33.0 7.7 62 81-142 384-447 (493)
295 PF10771 DUF2582: Protein of u 69.7 15 0.00033 25.0 5.0 53 7-63 8-60 (65)
296 PRK09334 30S ribosomal protein 69.7 7.1 0.00015 28.2 3.5 46 20-68 39-85 (86)
297 smart00531 TFIIE Transcription 69.6 49 0.0011 25.9 8.7 53 12-68 6-66 (147)
298 PRK15178 Vi polysaccharide exp 69.4 76 0.0017 29.7 11.1 46 95-140 288-338 (434)
299 COG4942 Membrane-bound metallo 68.9 1E+02 0.0022 28.8 14.6 30 148-177 136-168 (420)
300 PF02796 HTH_7: Helix-turn-hel 68.8 13 0.00029 22.9 4.3 35 7-47 9-43 (45)
301 PF14282 FlxA: FlxA-like prote 68.8 16 0.00034 27.2 5.4 60 78-142 18-77 (106)
302 PF01920 Prefoldin_2: Prefoldi 68.8 26 0.00055 25.3 6.6 64 42-114 34-97 (106)
303 PF13801 Metal_resist: Heavy-m 68.8 41 0.00089 24.3 9.7 43 75-117 41-83 (125)
304 PF05667 DUF812: Protein of un 68.7 1.2E+02 0.0026 29.6 14.0 57 82-140 324-380 (594)
305 PF15397 DUF4618: Domain of un 68.7 79 0.0017 27.5 11.8 32 84-115 79-110 (258)
306 PF06156 DUF972: Protein of un 68.7 27 0.00059 26.2 6.6 48 81-137 10-57 (107)
307 COG2996 Predicted RNA-bindinin 68.7 6.1 0.00013 34.6 3.5 50 6-58 224-279 (287)
308 TIGR01010 BexC_CtrB_KpsE polys 68.5 67 0.0015 28.8 10.5 55 90-144 174-235 (362)
309 TIGR00634 recN DNA repair prot 68.5 39 0.00086 32.4 9.4 22 116-137 322-343 (563)
310 PRK10869 recombination and rep 68.5 1.2E+02 0.0025 29.3 13.1 32 153-184 349-381 (553)
311 KOG1029 Endocytic adaptor prot 68.4 26 0.00057 35.1 8.0 64 79-142 430-505 (1118)
312 PRK02224 chromosome segregatio 68.3 80 0.0017 31.9 12.0 6 202-207 762-767 (880)
313 TIGR03433 padR_acidobact trans 68.3 42 0.00092 24.3 7.6 57 10-68 7-73 (100)
314 COG0172 SerS Seryl-tRNA synthe 68.3 38 0.00083 31.6 8.9 65 78-142 28-94 (429)
315 PF03961 DUF342: Protein of un 68.2 42 0.0009 31.3 9.3 32 83-114 331-362 (451)
316 PRK00295 hypothetical protein; 68.2 35 0.00076 23.3 6.7 48 95-144 7-54 (68)
317 COG2186 FadR Transcriptional r 68.2 74 0.0016 27.0 13.5 58 6-66 13-75 (241)
318 PRK10225 DNA-binding transcrip 68.2 11 0.00025 31.9 5.2 39 20-61 30-69 (257)
319 PF11559 ADIP: Afadin- and alp 68.1 39 0.00085 26.4 7.9 40 125-168 110-149 (151)
320 PF09639 YjcQ: YjcQ protein; 68.0 29 0.00063 24.8 6.5 63 11-82 3-65 (88)
321 COG1802 GntR Transcriptional r 68.0 18 0.00039 30.2 6.3 52 6-60 15-74 (230)
322 PRK02793 phi X174 lysis protei 67.9 37 0.00081 23.4 7.3 52 92-145 7-58 (72)
323 PF06698 DUF1192: Protein of u 67.8 12 0.00027 25.0 4.1 30 114-143 19-48 (59)
324 PHA03395 p10 fibrous body prot 67.6 44 0.00095 24.1 8.0 54 91-144 9-63 (87)
325 PRK04863 mukB cell division pr 67.3 1.8E+02 0.0039 31.7 14.6 48 120-167 401-453 (1486)
326 PF04420 CHD5: CHD5-like prote 67.2 29 0.00062 27.8 7.0 49 91-139 38-89 (161)
327 KOG0995 Centromere-associated 67.1 1.2E+02 0.0026 29.4 11.9 102 80-181 253-365 (581)
328 COG2188 PhnF Transcriptional r 67.0 8.9 0.00019 32.5 4.2 37 23-63 32-68 (236)
329 COG3352 FlaC Putative archaeal 67.0 20 0.00043 28.6 5.8 98 37-142 37-134 (157)
330 PF07926 TPR_MLP1_2: TPR/MLP1/ 66.9 56 0.0012 25.1 13.8 55 119-181 55-109 (132)
331 PRK11281 hypothetical protein; 66.8 1.2E+02 0.0027 31.9 12.9 74 81-156 123-196 (1113)
332 PRK11020 hypothetical protein; 66.7 42 0.00092 25.4 7.2 48 92-143 4-51 (118)
333 TIGR01837 PHA_granule_1 poly(h 66.7 54 0.0012 24.8 11.0 22 36-57 18-39 (118)
334 TIGR02812 fadR_gamma fatty aci 66.6 11 0.00025 31.4 4.8 37 22-61 29-66 (235)
335 PTZ00326 phenylalanyl-tRNA syn 66.2 23 0.00049 33.7 7.1 56 6-64 5-60 (494)
336 PRK00888 ftsB cell division pr 66.0 21 0.00045 26.6 5.5 36 80-115 28-63 (105)
337 PF10146 zf-C4H2: Zinc finger- 66.0 45 0.00098 28.4 8.3 33 81-113 41-73 (230)
338 PRK11414 colanic acid/biofilm 66.0 74 0.0016 26.2 17.9 53 6-61 14-70 (221)
339 PRK09392 ftrB transcriptional 65.9 25 0.00054 29.2 6.7 55 7-68 148-212 (236)
340 PF13851 GAS: Growth-arrest sp 65.9 77 0.0017 26.3 10.9 33 81-113 50-82 (201)
341 PF15372 DUF4600: Domain of un 65.8 61 0.0013 25.2 11.9 55 115-180 50-104 (129)
342 PRK06342 transcription elongat 65.8 23 0.00049 28.5 6.1 53 77-143 32-84 (160)
343 PF11932 DUF3450: Protein of u 65.8 85 0.0018 26.7 11.6 22 191-214 152-173 (251)
344 PF14394 DUF4423: Domain of un 65.5 71 0.0015 25.8 9.6 46 24-73 41-86 (171)
345 PF03233 Cauli_AT: Aphid trans 65.4 54 0.0012 26.5 8.0 51 91-141 109-160 (163)
346 TIGR03185 DNA_S_dndD DNA sulfu 65.4 99 0.0021 30.3 11.6 61 123-188 230-295 (650)
347 COG3177 Fic family protein [Fu 65.4 12 0.00026 33.8 4.9 47 18-67 300-346 (348)
348 PRK10246 exonuclease subunit S 65.3 1.8E+02 0.0039 30.4 14.6 67 77-143 775-849 (1047)
349 PF14502 HTH_41: Helix-turn-he 65.3 21 0.00045 22.9 4.6 40 20-62 4-43 (48)
350 TIGR02063 RNase_R ribonuclease 65.3 14 0.00031 36.5 5.9 49 9-57 4-54 (709)
351 PF09969 DUF2203: Uncharacteri 65.2 59 0.0013 24.8 9.2 65 78-142 5-69 (120)
352 KOG4674 Uncharacterized conser 65.1 1.2E+02 0.0026 33.5 12.7 25 119-143 1246-1270(1822)
353 PRK10780 periplasmic chaperone 65.0 69 0.0015 25.5 9.9 60 81-140 45-104 (165)
354 PF12252 SidE: Dot/Icm substra 64.8 1.9E+02 0.0041 30.4 14.7 126 38-172 970-1112(1439)
355 PF00038 Filament: Intermediat 64.8 96 0.0021 27.0 14.4 38 78-115 3-40 (312)
356 KOG0964 Structural maintenance 64.4 88 0.0019 32.4 10.9 94 84-184 395-488 (1200)
357 PRK15422 septal ring assembly 64.2 49 0.0011 23.4 9.5 45 123-172 25-69 (79)
358 PRK11020 hypothetical protein; 63.9 19 0.0004 27.3 4.8 10 191-200 99-108 (118)
359 PF04111 APG6: Autophagy prote 63.8 53 0.0011 29.3 8.7 27 79-105 43-69 (314)
360 PRK09775 putative DNA-binding 63.5 20 0.00044 33.5 6.2 51 11-68 4-54 (442)
361 PRK00736 hypothetical protein; 63.3 42 0.00092 22.9 6.3 48 95-144 7-54 (68)
362 KOG0971 Microtubule-associated 63.1 69 0.0015 32.9 9.8 31 84-114 408-438 (1243)
363 PF03444 HrcA_DNA-bdg: Winged 62.9 32 0.0007 24.3 5.7 45 11-58 12-56 (78)
364 PF14735 HAUS4: HAUS augmin-li 62.9 99 0.0021 26.5 9.9 49 119-172 181-229 (238)
365 PF14277 DUF4364: Domain of un 62.8 34 0.00073 27.6 6.6 58 11-68 4-63 (163)
366 PF15070 GOLGA2L5: Putative go 62.8 1.2E+02 0.0026 29.8 11.5 63 80-142 30-106 (617)
367 COG2433 Uncharacterized conser 62.8 64 0.0014 31.5 9.3 21 41-62 389-409 (652)
368 KOG0981 DNA topoisomerase I [R 62.8 37 0.00081 32.9 7.7 64 42-105 592-662 (759)
369 PF10007 DUF2250: Uncharacteri 62.6 39 0.00085 24.6 6.3 53 6-63 6-58 (92)
370 PF07407 Seadorna_VP6: Seadorn 62.6 35 0.00077 30.7 7.1 37 73-109 26-62 (420)
371 PF04849 HAP1_N: HAP1 N-termin 62.5 58 0.0013 29.0 8.5 19 37-55 160-178 (306)
372 PF14712 Snapin_Pallidin: Snap 62.5 53 0.0011 23.3 8.9 64 80-143 15-84 (92)
373 KOG0996 Structural maintenance 62.4 86 0.0019 33.0 10.6 28 75-102 774-801 (1293)
374 PRK14136 recX recombination re 62.4 21 0.00045 31.8 5.7 54 7-62 163-216 (309)
375 PF05278 PEARLI-4: Arabidopsis 62.4 61 0.0013 28.3 8.5 16 36-51 145-160 (269)
376 PRK14135 recX recombination re 61.8 21 0.00046 30.5 5.7 53 7-61 58-110 (263)
377 PF13600 DUF4140: N-terminal d 61.7 51 0.0011 23.9 7.0 62 50-112 35-103 (104)
378 smart00338 BRLZ basic region l 61.7 31 0.00068 22.9 5.4 21 118-138 42-62 (65)
379 PF10668 Phage_terminase: Phag 61.7 28 0.0006 23.4 4.9 41 1-44 1-41 (60)
380 PF02646 RmuC: RmuC family; I 61.7 33 0.00071 30.3 7.0 50 163-220 68-118 (304)
381 KOG0161 Myosin class II heavy 61.6 1.4E+02 0.003 33.4 12.5 23 92-114 1061-1083(1930)
382 PF10267 Tmemb_cc2: Predicted 61.6 1.2E+02 0.0026 28.0 10.7 72 81-161 214-285 (395)
383 PRK04863 mukB cell division pr 61.6 2.2E+02 0.0048 31.1 14.0 29 115-143 434-462 (1486)
384 PF04849 HAP1_N: HAP1 N-termin 61.6 1.2E+02 0.0026 27.1 11.0 49 94-144 207-255 (306)
385 PRK05729 valS valyl-tRNA synth 61.6 61 0.0013 33.0 9.6 60 84-143 809-873 (874)
386 PF00435 Spectrin: Spectrin re 61.4 51 0.0011 22.7 10.4 63 77-139 32-96 (105)
387 PRK13169 DNA replication intia 61.3 45 0.00097 25.2 6.6 46 81-128 10-55 (110)
388 PRK14154 heat shock protein Gr 61.2 92 0.002 26.2 9.1 25 191-215 144-170 (208)
389 PF00170 bZIP_1: bZIP transcri 61.2 38 0.00082 22.4 5.7 17 121-137 45-61 (64)
390 PF04380 BMFP: Membrane fusoge 61.1 54 0.0012 23.0 8.8 35 73-107 44-78 (79)
391 PF04297 UPF0122: Putative hel 60.7 22 0.00047 26.5 4.7 39 7-50 20-58 (101)
392 PRK10132 hypothetical protein; 60.5 60 0.0013 24.3 7.2 20 92-111 11-30 (108)
393 PRK04325 hypothetical protein; 60.4 54 0.0012 22.7 7.2 49 94-144 10-58 (74)
394 PRK03837 transcriptional regul 60.2 99 0.0021 25.6 10.6 34 24-60 39-72 (241)
395 COG1733 Predicted transcriptio 59.9 28 0.0006 26.5 5.4 55 10-68 26-82 (120)
396 PRK11523 DNA-binding transcrip 59.8 19 0.00041 30.5 5.0 39 21-62 30-69 (253)
397 cd01279 HTH_HspR-like Helix-Tu 59.8 43 0.00094 24.3 6.3 29 22-57 1-29 (98)
398 PHA03103 double-strand RNA-bin 59.3 39 0.00085 27.8 6.5 56 11-70 17-72 (183)
399 PF14723 SSFA2_C: Sperm-specif 59.1 80 0.0017 25.8 8.0 100 40-141 65-170 (179)
400 KOG0933 Structural maintenance 59.1 2.3E+02 0.005 29.6 13.0 104 79-183 741-853 (1174)
401 KOG3344 40s ribosomal protein 59.1 19 0.00041 28.3 4.3 58 8-68 7-67 (150)
402 COG4742 Predicted transcriptio 59.0 26 0.00056 30.5 5.6 48 6-58 12-59 (260)
403 PF08672 APC2: Anaphase promot 59.0 16 0.00034 24.4 3.4 28 35-63 31-58 (60)
404 PRK11448 hsdR type I restricti 58.8 91 0.002 32.9 10.5 105 36-144 99-205 (1123)
405 PF06577 DUF1134: Protein of u 58.8 20 0.00044 28.7 4.5 47 22-68 2-74 (160)
406 PRK10421 DNA-binding transcrip 58.7 1.1E+02 0.0024 25.7 15.6 39 20-61 23-62 (253)
407 PF09789 DUF2353: Uncharacteri 58.6 1.4E+02 0.003 26.8 12.7 87 57-143 53-153 (319)
408 PF12777 MT: Microtubule-bindi 58.6 28 0.00061 31.3 6.1 62 79-142 221-282 (344)
409 PF09681 Phage_rep_org_N: N-te 58.5 38 0.00083 25.9 5.9 46 19-69 50-95 (121)
410 PF03961 DUF342: Protein of un 58.4 66 0.0014 30.0 8.7 29 79-107 334-362 (451)
411 KOG4005 Transcription factor X 58.4 87 0.0019 27.0 8.5 54 81-136 92-145 (292)
412 TIGR00634 recN DNA repair prot 58.2 1.7E+02 0.0037 28.1 11.7 32 84-115 264-295 (563)
413 PF14662 CCDC155: Coiled-coil 58.0 1.1E+02 0.0024 25.4 11.0 17 123-139 123-139 (193)
414 PF02344 Myc-LZ: Myc leucine z 57.8 27 0.00059 20.2 3.7 26 120-145 5-30 (32)
415 PRK02363 DNA-directed RNA poly 57.7 28 0.0006 27.0 5.1 52 10-61 7-63 (129)
416 KOG0161 Myosin class II heavy 57.6 2E+02 0.0044 32.2 12.9 107 79-185 1716-1848(1930)
417 TIGR00998 8a0101 efflux pump m 57.5 1.3E+02 0.0028 26.2 11.6 48 123-170 115-164 (334)
418 TIGR01010 BexC_CtrB_KpsE polys 57.4 1.4E+02 0.0031 26.7 10.6 47 95-141 216-267 (362)
419 PF02994 Transposase_22: L1 tr 57.2 21 0.00045 32.6 5.0 61 83-143 102-164 (370)
420 COG5185 HEC1 Protein involved 57.2 1.1E+02 0.0023 29.2 9.5 63 81-143 332-395 (622)
421 cd01106 HTH_TipAL-Mta Helix-Tu 57.1 69 0.0015 23.2 7.0 28 20-47 36-68 (103)
422 PRK01156 chromosome segregatio 57.1 2.3E+02 0.0049 28.8 14.0 11 191-201 767-777 (895)
423 PF05667 DUF812: Protein of un 57.0 1.4E+02 0.0031 29.1 10.9 54 78-133 327-380 (594)
424 TIGR00606 rad50 rad50. This fa 57.0 2.8E+02 0.006 29.8 14.6 21 148-168 297-317 (1311)
425 PF06008 Laminin_I: Laminin Do 56.9 1.3E+02 0.0027 25.9 12.0 102 81-185 82-190 (264)
426 PF03297 Ribosomal_S25: S25 ri 56.9 15 0.00032 27.5 3.3 45 21-68 58-103 (105)
427 PF04156 IncA: IncA protein; 56.8 1E+02 0.0022 24.8 13.8 64 80-143 82-150 (191)
428 PF04100 Vps53_N: Vps53-like, 56.7 1.6E+02 0.0035 27.0 14.1 66 73-140 14-81 (383)
429 PF04111 APG6: Autophagy prote 56.6 1.5E+02 0.0032 26.5 11.7 52 85-138 42-93 (314)
430 cd00632 Prefoldin_beta Prefold 56.6 76 0.0016 23.2 11.6 40 79-118 6-45 (105)
431 PF04201 TPD52: Tumour protein 56.5 74 0.0016 25.7 7.4 42 74-115 24-65 (162)
432 PF10826 DUF2551: Protein of u 56.4 61 0.0013 23.2 6.2 60 8-68 12-75 (83)
433 PF12795 MscS_porin: Mechanose 56.4 1.2E+02 0.0027 25.5 9.5 65 80-144 32-106 (240)
434 COG1693 Repressor of nif and g 56.4 38 0.00081 30.0 6.1 57 7-63 6-64 (325)
435 PRK10430 DNA-binding transcrip 56.1 36 0.00078 28.2 6.0 57 11-70 166-227 (239)
436 PF10678 DUF2492: Protein of u 56.0 27 0.00058 24.7 4.3 49 11-59 8-66 (78)
437 PF09904 HTH_43: Winged helix- 55.9 29 0.00063 25.2 4.5 46 8-57 8-53 (90)
438 PF08100 Dimerisation: Dimeris 55.8 25 0.00054 22.6 3.9 39 12-50 11-51 (51)
439 PRK10869 recombination and rep 55.7 1.7E+02 0.0037 28.2 11.2 50 151-200 340-389 (553)
440 PF07439 DUF1515: Protein of u 55.6 87 0.0019 23.6 9.2 55 85-144 7-61 (112)
441 PRK09413 IS2 repressor TnpA; R 55.6 86 0.0019 23.5 10.6 44 6-55 16-59 (121)
442 TIGR03853 matur_matur probable 55.5 28 0.0006 24.6 4.3 51 11-61 6-66 (77)
443 PF09789 DUF2353: Uncharacteri 55.4 1.6E+02 0.0034 26.5 12.5 25 120-144 90-114 (319)
444 KOG0996 Structural maintenance 55.3 2.5E+02 0.0053 29.9 12.4 58 81-138 787-849 (1293)
445 PF10498 IFT57: Intra-flagella 55.3 1.1E+02 0.0024 27.9 9.3 18 40-61 198-215 (359)
446 TIGR03337 phnR transcriptional 55.2 25 0.00055 29.1 4.9 33 25-60 28-60 (231)
447 COG1093 SUI2 Translation initi 55.2 20 0.00043 31.2 4.3 55 162-217 91-145 (269)
448 PF04156 IncA: IncA protein; 55.1 1.1E+02 0.0024 24.6 12.3 30 86-115 81-110 (191)
449 PF03980 Nnf1: Nnf1 ; InterPr 54.8 45 0.00098 24.6 5.7 66 43-113 36-107 (109)
450 COG3879 Uncharacterized protei 54.8 96 0.0021 26.8 8.3 34 79-113 51-84 (247)
451 PF14966 DNA_repr_REX1B: DNA r 54.8 82 0.0018 23.1 7.9 61 82-142 36-96 (97)
452 cd04766 HTH_HspR Helix-Turn-He 54.7 74 0.0016 22.5 9.8 30 22-58 1-30 (91)
453 KOG0288 WD40 repeat protein Ti 54.4 1.3E+02 0.0029 28.0 9.5 57 85-141 12-73 (459)
454 KOG4302 Microtubule-associated 54.1 2.3E+02 0.0051 28.1 13.1 101 76-184 157-258 (660)
455 PF01166 TSC22: TSC-22/dip/bun 54.0 33 0.00072 22.9 4.2 28 79-106 14-41 (59)
456 PF10168 Nup88: Nuclear pore c 54.0 1.7E+02 0.0037 29.3 11.0 63 91-155 570-636 (717)
457 PF08598 Sds3: Sds3-like; Int 54.0 25 0.00055 28.8 4.7 57 79-138 5-61 (205)
458 PF10186 Atg14: UV radiation r 53.9 1.4E+02 0.003 25.5 13.0 27 84-110 61-87 (302)
459 PRK00409 recombination and DNA 53.8 2E+02 0.0044 29.0 11.7 16 36-51 498-513 (782)
460 KOG0243 Kinesin-like protein [ 53.6 2E+02 0.0044 30.0 11.5 47 62-110 426-472 (1041)
461 PHA02996 poly(A) polymerase la 53.6 12 0.00026 34.5 2.8 48 6-53 60-107 (467)
462 TIGR02209 ftsL_broad cell divi 53.5 57 0.0012 22.6 5.9 34 81-114 26-59 (85)
463 PF10458 Val_tRNA-synt_C: Valy 53.5 55 0.0012 22.0 5.5 18 124-141 5-22 (66)
464 KOG3231 Predicted assembly/vac 53.5 1.2E+02 0.0027 24.7 14.3 56 148-203 114-175 (208)
465 PF08221 HTH_9: RNA polymerase 53.4 58 0.0013 21.6 5.5 47 7-57 13-59 (62)
466 cd04765 HTH_MlrA-like_sg2 Heli 53.3 85 0.0019 22.8 9.1 95 23-138 1-98 (99)
467 PF10205 KLRAQ: Predicted coil 53.3 81 0.0018 23.5 6.7 15 119-133 57-71 (102)
468 PF13384 HTH_23: Homeodomain-l 53.1 28 0.0006 21.5 3.8 41 8-54 6-46 (50)
469 PF09730 BicD: Microtubule-ass 53.1 1.7E+02 0.0038 29.2 10.8 82 79-167 55-136 (717)
470 PF09304 Cortex-I_coil: Cortex 52.9 96 0.0021 23.3 9.0 20 86-105 16-35 (107)
471 TIGR00331 hrcA heat shock gene 52.9 55 0.0012 29.4 7.0 44 15-59 14-57 (337)
472 PF09743 DUF2042: Uncharacteri 52.9 46 0.001 29.1 6.3 55 9-68 179-233 (272)
473 PRK15178 Vi polysaccharide exp 52.8 1.4E+02 0.003 28.1 9.6 79 89-168 245-330 (434)
474 PF05791 Bacillus_HBL: Bacillu 52.7 51 0.0011 26.9 6.2 57 78-139 102-158 (184)
475 COG1349 GlpR Transcriptional r 52.7 44 0.00094 28.7 6.1 54 6-63 4-57 (253)
476 PF12128 DUF3584: Protein of u 52.5 3.1E+02 0.0068 29.1 14.5 15 146-160 765-779 (1201)
477 cd01109 HTH_YyaN Helix-Turn-He 52.5 92 0.002 23.0 9.1 70 19-109 35-109 (113)
478 PF04977 DivIC: Septum formati 52.3 48 0.0011 22.4 5.3 24 120-143 28-51 (80)
479 PF02388 FemAB: FemAB family; 52.2 97 0.0021 28.5 8.6 58 79-142 242-299 (406)
480 TIGR03007 pepcterm_ChnLen poly 52.1 2E+02 0.0044 26.8 11.3 15 6-20 178-192 (498)
481 PRK14153 heat shock protein Gr 52.1 1.4E+02 0.003 24.9 8.6 24 191-214 124-148 (194)
482 KOG3067 Translin family protei 52.1 1.4E+02 0.003 24.9 11.1 110 91-212 25-139 (226)
483 PF05719 GPP34: Golgi phosphop 52.0 65 0.0014 26.4 6.9 53 4-60 56-108 (205)
484 PRK13729 conjugal transfer pil 51.9 31 0.00068 32.5 5.3 47 95-143 71-117 (475)
485 KOG3758 Uncharacterized conser 51.8 1.5E+02 0.0033 29.0 9.8 61 81-143 73-133 (655)
486 KOG0963 Transcription factor/C 51.7 2.5E+02 0.0053 27.6 13.7 82 86-171 242-329 (629)
487 KOG2916 Translation initiation 51.7 40 0.00086 29.5 5.5 63 147-217 88-150 (304)
488 PLN02943 aminoacyl-tRNA ligase 51.6 79 0.0017 32.7 8.6 61 84-144 887-952 (958)
489 cd04786 HTH_MerR-like_sg7 Heli 51.6 1.1E+02 0.0024 23.5 8.8 77 19-117 35-116 (131)
490 COG5045 Ribosomal protein S10E 51.6 22 0.00049 25.9 3.4 50 7-58 6-58 (105)
491 PF02403 Seryl_tRNA_N: Seryl-t 51.6 33 0.00072 25.1 4.6 31 85-115 73-103 (108)
492 PRK09841 cryptic autophosphory 51.6 1.9E+02 0.0041 28.8 11.1 83 79-168 304-386 (726)
493 PF07334 IFP_35_N: Interferon- 51.5 31 0.00067 24.3 4.0 28 88-115 2-29 (76)
494 PF12808 Mto2_bdg: Micro-tubul 51.5 65 0.0014 20.9 5.7 43 102-144 6-50 (52)
495 PF09325 Vps5: Vps5 C terminal 51.5 1.4E+02 0.003 24.7 13.3 109 79-197 121-233 (236)
496 KOG4403 Cell surface glycoprot 51.4 2.2E+02 0.0047 26.9 12.6 112 65-182 231-367 (575)
497 PTZ00034 40S ribosomal protein 51.4 18 0.00038 27.9 3.0 72 9-88 9-81 (124)
498 PRK14134 recX recombination re 51.2 38 0.00082 29.7 5.5 46 8-55 63-108 (283)
499 KOG4797 Transcriptional regula 51.1 93 0.002 23.5 6.7 46 83-128 64-109 (123)
500 PF04912 Dynamitin: Dynamitin 51.1 79 0.0017 28.9 7.8 63 81-143 324-388 (388)
No 1
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=100.00 E-value=5.8e-51 Score=321.20 Aligned_cols=201 Identities=44% Similarity=0.665 Sum_probs=197.2
Q ss_pred CCCCcchHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHH
Q 027236 1 MAPKSDNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEE 80 (226)
Q Consensus 1 M~~kg~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee 80 (226)
|+|..++++..||.||++||||||-+||++||++..++|++|+++||+|.+.|+|..|.||||+||+++|+.|..+|+++
T Consensus 1 mae~~~~~e~ivl~~~~eqNrP~ssq~v~~~lq~e~lgktavqk~Ld~La~~Gki~~K~YGKqKIY~a~QDqF~~~~~ee 80 (201)
T KOG4603|consen 1 MAEAAEDAEGIVLRYLQEQNRPYSSQDVFGNLQREHLGKTAVQKTLDQLAQQGKIKEKMYGKQKIYFADQDQFDMVSDEE 80 (201)
T ss_pred CCccccccHHHHHHHHHHhcCCCchHHHHHHHHHHhccchHHHHHHHHHHHcCchhHHhccceeeEeecHHhhcCCChHH
Confidence 88888999999999999999999999999999984479999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEM 160 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~ 160 (226)
+..|+.+|..|++++.++++.++..+++|+.|.+.+|.+|+...|++|.+++...+++|.++++|...|+|++++.+.+.
T Consensus 81 l~~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~k~g~~~vtpedk~~v~~~ 160 (201)
T KOG4603|consen 81 LQVLDGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNIKAGTNHVTPEDKEQVYRE 160 (201)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCccc
Q 027236 161 FLEKLSQWRKRKRMLRDIWDPIMENSPKNLKEFKEELGIEY 201 (226)
Q Consensus 161 ~~~~~~~w~kRkri~~~i~~~i~e~~~~~~k~l~e~lGie~ 201 (226)
|.+++++|++|+|||++||+.+++++|+++++|++++|||+
T Consensus 161 y~~~~~~wrk~krmf~ei~d~~~e~~pk~ksel~eelGIE~ 201 (201)
T KOG4603|consen 161 YQKYCKEWRKRKRMFREIIDKLLEGLPKKKSELYEELGIEA 201 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHhCcCC
Confidence 99999999999999999999999999999999999999985
No 2
>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=100.00 E-value=6.5e-49 Score=319.34 Aligned_cols=169 Identities=43% Similarity=0.716 Sum_probs=166.5
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHHHHHH
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELNQMKE 86 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~ 86 (226)
||++.|++||..||||||++||++|||+ +|+|++|+++|++||++|.|++|.||||+||||+|+.|+++|++++..|+.
T Consensus 1 eAe~~Il~y~~~qNRPys~~di~~nL~~-~~~K~~v~k~Ld~L~~~g~i~~K~~GKqkiY~~~Q~~~~~~s~eel~~ld~ 79 (169)
T PF07106_consen 1 EAEDAILEYMKEQNRPYSAQDIFDNLHN-KVGKTAVQKALDSLVEEGKIVEKEYGKQKIYFANQDELEVPSPEELAELDA 79 (169)
T ss_pred ChHHHHHHHHHHcCCCCcHHHHHHHHHh-hccHHHHHHHHHHHHhCCCeeeeeecceEEEeeCccccCCCCchhHHHHHH
Confidence 6899999999999999999999999998 899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH
Q 027236 87 ENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLS 166 (226)
Q Consensus 87 ~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~ 166 (226)
+|.+|++++.+++.+++.++++|+.|.+.||+++|...|.+|++++..++++|..|++++.++|+++++++.+.|.+|++
T Consensus 80 ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~k 159 (169)
T PF07106_consen 80 EIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRSGSKPVSPEEKEKLEKEYKKWRK 159 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999998889999999999999999999
Q ss_pred HHHHHHHHHH
Q 027236 167 QWRKRKRMLR 176 (226)
Q Consensus 167 ~w~kRkri~~ 176 (226)
+|++|||||+
T Consensus 160 ~w~kRKri~k 169 (169)
T PF07106_consen 160 EWKKRKRICK 169 (169)
T ss_pred HHHHHHHHhC
Confidence 9999999995
No 3
>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=99.97 E-value=1.5e-28 Score=202.49 Aligned_cols=180 Identities=23% Similarity=0.352 Sum_probs=164.0
Q ss_pred HHHHHHhcCCCCcHHHHHHHHhc-ccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHHHHHHHHHH
Q 027236 12 VLNYVNEQNRPLNSQNVADALQK-YNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELNQMKEENAK 90 (226)
Q Consensus 12 Il~y~~~~nrPys~~di~~~l~~-~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~~i~~ 90 (226)
||++||++..||+++||++.+++ .||+-++|+++|++||++|+|.+.++|.+++||| || +++...+...+..
T Consensus 1 il~~f~e~~~~y~lKELEK~~pK~~gI~~~~VKdvlq~LvDDglV~~EKiGssn~YWs----Fp---s~~~~~~~~~~~~ 73 (188)
T PF03962_consen 1 ILEIFHESKDFYTLKELEKLAPKEKGIVSMSVKDVLQSLVDDGLVHVEKIGSSNYYWS----FP---SQAKQKRQNKLEK 73 (188)
T ss_pred ChHHHhhcCCcccHHHHHHHcccccCCchhhHHHHHHHHhccccchhhhccCeeEEEe----cC---hHHHHHHHHHHHH
Confidence 68999999999999999999999 7999999999999999999999999999999999 99 6999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccC----CHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHH---HHHH
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSNL----TLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEE---MFLE 163 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~~----t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~---~~~~ 163 (226)
|++++..++..+..++.+|..+.... ....+.+.+.+|+.++..++.+|..+..++ |+.++.+.. .+..
T Consensus 74 l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~~D----p~~i~~~~~~~~~~~~ 149 (188)
T PF03962_consen 74 LQKEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKYSEND----PEKIEKLKEEIKIAKE 149 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC----HHHHHHHHHHHHHHHH
Confidence 99999999999999999999998642 237788899999999999999999888764 666665554 5889
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCccccccc
Q 027236 164 KLSQWRKRKRMLRDIWDPIMENSPKNLKEFKEELGIEYDEDV 205 (226)
Q Consensus 164 ~~~~w~kRkri~~~i~~~i~e~~~~~~k~l~e~lGie~Ded~ 205 (226)
++++||++. ..|.+||...++++.++|..+|||+.|+||
T Consensus 150 ~anrwTDNI---~~l~~~~~~k~~~~~~~i~k~f~Ip~d~dy 188 (188)
T PF03962_consen 150 AANRWTDNI---FSLKSYLKKKFGMDEEDIRKEFGIPEDFDY 188 (188)
T ss_pred HHHHHHhhH---HHHHHHHHHhcCCCHHHHHHHcCCccccCC
Confidence 999999997 456699999999999999999999999987
No 4
>KOG3433 consensus Protein involved in meiotic recombination/predicted coiled-coil protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=99.95 E-value=8.8e-27 Score=186.02 Aligned_cols=194 Identities=21% Similarity=0.272 Sum_probs=172.4
Q ss_pred CCCC--cchHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCH
Q 027236 1 MAPK--SDNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNS 78 (226)
Q Consensus 1 M~~k--g~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ 78 (226)
|||| .++++..++++|+++...|-+++|++..++.||.-+.|+.+|++|||+|+|.++++|.+++||+ || +
T Consensus 1 m~~kls~~ekr~~l~eIf~eskDff~LkelEKlG~kKgIv~~tvKdvLQsLvDD~lV~~eKIgtSnyyws----fp---s 73 (203)
T KOG3433|consen 1 MTVKLSSDEKRMILLEIFQESKDFFQLKELEKLGSKKGIVWQTVKDVLQSLVDDGLVIKEKIGTSNYYWS----FP---S 73 (203)
T ss_pred CCcccchHHHHHHHHHHHHhhHhHHHHHHHHHhCCccceehhHHHHHHHHHhccchHHHHHhcccccccc----cc---h
Confidence 7886 4999999999999999999999999988888999999999999999999999999999999999 99 5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC-----HHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLT-----LEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPED 153 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t-----~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee 153 (226)
+.+-.....+.+|.++|+...+....+...+.+.+.... +++|...+..|+..++.++.+|..++.+++ ..-+.
T Consensus 74 ~a~~~~ks~~qeLe~~L~~~~qk~~tl~e~~en~K~~~e~tEer~~el~kklnslkk~~e~lr~el~k~~e~dp-qv~~k 152 (203)
T KOG3433|consen 74 EAICDRKSVLQELESQLATGSQKKATLGESIENRKAGREETEERTDELTKKLNSLKKILESLRWELAKIQETDP-QVFEK 152 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCH-HHHHH
Confidence 888888899999999999999999999988877765422 257788888999999999999999997753 22445
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCccccccc
Q 027236 154 RMAVEEMFLEKLSQWRKRKRMLRDIWDPIMENSPKNLKEFKEELGIEYDEDV 205 (226)
Q Consensus 154 ~~~~~~~~~~~~~~w~kRkri~~~i~~~i~e~~~~~~k~l~e~lGie~Ded~ 205 (226)
+..+.+.+..++|+|+++. .-++++|+..+|+.+.++.+.|||+.|+||
T Consensus 153 ~~~~~K~~~eaanrwtDnI---~il~dy~~rkf~~e~nqi~~~fgIPed~d~ 201 (203)
T KOG3433|consen 153 KVHLEKTMAEAANRWTDNI---FILIDYLYRKFGLEPNQIRKEFGIPEDFDY 201 (203)
T ss_pred HHHHHHHHHHHHhhhhhhH---HHHHHHHHHhcCCCHHHHhHhcCCCccccc
Confidence 5567788999999999997 556799999999999999999999999998
No 5
>COG5124 Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only]
Probab=99.95 E-value=3.4e-26 Score=181.86 Aligned_cols=197 Identities=19% Similarity=0.238 Sum_probs=162.7
Q ss_pred CCCCc---chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCC
Q 027236 1 MAPKS---DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPN 77 (226)
Q Consensus 1 M~~kg---~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~ 77 (226)
|||+| ++++.+++.+||.+..+|-+++|+...++.+|+-++|+++|++|||+|.|.+.++|.+++||+ |+
T Consensus 1 M~~~~ls~~eKrr~L~aI~~~SKdFFqLkEvEkLGSKK~IVl~tVKd~lQqlVDDgvV~~EK~GtsN~YWs----F~--- 73 (209)
T COG5124 1 MPPKGLSLAEKRRRLEAIFHDSKDFFQLKEVEKLGSKKQIVLMTVKDLLQQLVDDGVVSVEKCGTSNIYWS----FK--- 73 (209)
T ss_pred CCCccccHHHHHHHHHHHHhccHHHHHHHHHHHhccccccHHHHHHHHHHHHhhcCceeeeeeccceeEEe----cc---
Confidence 99998 899999999999999999999999999888999999999999999999999999999999999 99
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH-------HHHHHHHHHH-HHHHHHHHHHHHHhhCCCCCC
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL-------EQIREKEAQL-VKEVKEMENKLAKLRGGVTLV 149 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~-------~el~~~i~~L-~~e~~~l~~kL~~l~~~~~~v 149 (226)
++.+..+......|++++..+++.++.+..+|..-.+.... .+....+..+ +.+..+++.+|..|+... |+
T Consensus 74 s~~~qk~~~~~~~l~~~~~~~kqdi~t~~e~i~~ek~~r~k~~Te~~~n~~~~~Ll~~~k~eqd~~k~~l~~l~~~~-pi 152 (209)
T COG5124 74 SQTLQKLYDSSELLKKKIQEVKQDIATYKEEIDKEKATRRKKFTEGQKNYNREALLEKRKKEQDEIKKKLNSLQKIE-PI 152 (209)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHhccccccC-ch
Confidence 58899999999999999999999999999998887754322 3444444333 444455555776666432 23
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCcccccccccch
Q 027236 150 KPEDRMAVEEMFLEKLSQWRKRKRMLRDIWDPIMENSPKNLKEFKEELGIEYDEDVGVSL 209 (226)
Q Consensus 150 s~ee~~~~~~~~~~~~~~w~kRkri~~~i~~~i~e~~~~~~k~l~e~lGie~Ded~~v~~ 209 (226)
.-+....-.+.+...++.|+++. .-+++++|..+|++++++.+++||+.|.|+ +..
T Consensus 153 ~~d~~~~~~kk~~~~~n~~tDnI---~ilidy~c~kf~~~~~qir~~fgIPedld~-~q~ 208 (209)
T COG5124 153 RWDAAKIQEKKKKVHLNKTTDNI---EILIDYLCKKFFLKPEQIRKEFGIPEDLDE-FQE 208 (209)
T ss_pred hHHHHhhhHHHHHHHHHhhhhhH---HHHHHHHHHHcCCCHHHHHHhcCCCcchhh-hcc
Confidence 33333333345888899999997 557799999999999999999999999998 543
No 6
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=98.12 E-value=6.1e-06 Score=56.02 Aligned_cols=57 Identities=32% Similarity=0.502 Sum_probs=47.1
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCcee-EEEe
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQK-IYIA 68 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~k-iY~~ 68 (226)
.+.|++||+.++.|.+..||.+.+ |++..+|-..|..|+.+|.|..-..|+.+ .||-
T Consensus 2 ke~Il~~i~~~~~p~~T~eiA~~~---gls~~~aR~yL~~Le~eG~V~~~~~~rG~~~~W~ 59 (62)
T PF04703_consen 2 KEKILEYIKEQNGPLKTREIADAL---GLSIYQARYYLEKLEKEGKVERSPVRRGKSTYWR 59 (62)
T ss_dssp HHCHHHHHHHHTS-EEHHHHHHHH---TS-HHHHHHHHHHHHHCTSEEEES-SSSSS-EEE
T ss_pred cHHHHHHHHHcCCCCCHHHHHHHh---CCCHHHHHHHHHHHHHCCCEEEecCCCCcceeee
Confidence 367999999999999999999998 89999999999999999999887775443 4775
No 7
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=97.80 E-value=0.0012 Score=50.04 Aligned_cols=61 Identities=16% Similarity=0.326 Sum_probs=54.9
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhc-ccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQK-YNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~-~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
+++..|++++-+... -++.+|.+.++. ++.+.++|..+|..|+++|.|..+..|++.+|.+
T Consensus 3 ~~E~~IM~~lW~~~~-~t~~eI~~~l~~~~~~~~sTv~t~L~rL~~Kg~l~~~~~gr~~~Y~p 64 (115)
T PF03965_consen 3 DLELEIMEILWESGE-ATVREIHEALPEERSWAYSTVQTLLNRLVEKGFLTREKIGRAYVYSP 64 (115)
T ss_dssp HHHHHHHHHHHHHSS-EEHHHHHHHHCTTSS--HHHHHHHHHHHHHTTSEEEEEETTCEEEEE
T ss_pred HHHHHHHHHHHhCCC-CCHHHHHHHHHhccccchhHHHHHHHHHHhCCceeEeecCCceEEEe
Confidence 578899999998887 999999999987 4799999999999999999999999999999988
No 8
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=97.72 E-value=9.9e-05 Score=50.62 Aligned_cols=58 Identities=29% Similarity=0.513 Sum_probs=52.4
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.+-+..|+.+|. .+.|.++.+|...+ +++++.|-++|..|++.|+|.... |+..+|.+
T Consensus 7 s~~E~~vy~~Ll-~~~~~t~~eIa~~l---~i~~~~v~~~L~~L~~~GlV~~~~-~~~~~Y~a 64 (68)
T PF01978_consen 7 SENEAKVYLALL-KNGPATAEEIAEEL---GISRSTVYRALKSLEEKGLVEREE-GRPKVYRA 64 (68)
T ss_dssp HHHHHHHHHHHH-HHCHEEHHHHHHHH---TSSHHHHHHHHHHHHHTTSEEEEE-ECCEEEEE
T ss_pred CHHHHHHHHHHH-HcCCCCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEEEc-CceEEEEE
Confidence 356788999998 88999999999988 899999999999999999998888 77888887
No 9
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=97.72 E-value=0.00015 Score=54.75 Aligned_cols=62 Identities=19% Similarity=0.308 Sum_probs=53.5
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcc--cccHHHHHHHHHHHHHcCCcceeecCce-eEEEee
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKY--NLKKAGIQKALDSLADNGKISFKEYGKQ-KIYIAR 69 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~--~v~K~~v~k~L~~Lv~~g~i~~K~~GK~-kiY~~~ 69 (226)
.+..|+++|..+++|+|+.+|.+.+... .++.++|=.+|+.|++.|+|..-.++.. ..|..+
T Consensus 2 qR~~Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~~~~~~~~~y~~~ 66 (116)
T cd07153 2 QRLAILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGKARYELN 66 (116)
T ss_pred HHHHHHHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEEEeCCCceEEEeC
Confidence 4678999999999999999999999763 6899999999999999999999888655 555443
No 10
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=97.69 E-value=0.0002 Score=49.44 Aligned_cols=58 Identities=21% Similarity=0.283 Sum_probs=49.0
Q ss_pred chHHHHHHHHHHhcCCC-CcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEE
Q 027236 6 DNTEAIVLNYVNEQNRP-LNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIY 66 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrP-ys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY 66 (226)
+.-++.||.+|.....| +++.+|...| |+++..|.++|..|.+.|+|....-....++
T Consensus 5 ~~~~~~IL~~L~~~g~~~~ta~eLa~~l---gl~~~~v~r~L~~L~~~G~V~~~~~~~~~W~ 63 (68)
T smart00550 5 DSLEEKILEFLENSGDETSTALQLAKNL---GLPKKEVNRVLYSLEKKGKVCKQGGTPPLWK 63 (68)
T ss_pred hHHHHHHHHHHHHCCCCCcCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEecCCCCCceE
Confidence 56788999999999875 9999999998 8999999999999999999987554334333
No 11
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=97.56 E-value=0.00037 Score=53.05 Aligned_cols=63 Identities=24% Similarity=0.375 Sum_probs=52.9
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcc--cccHHHHHHHHHHHHHcCCcceeecC-ceeEEEee
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKY--NLKKAGIQKALDSLADNGKISFKEYG-KQKIYIAR 69 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~--~v~K~~v~k~L~~Lv~~g~i~~K~~G-K~kiY~~~ 69 (226)
..+..||++|.++++|+|+.+|.+.|... .|+.++|=.+|+.|++.|+|..-..+ ....|-..
T Consensus 8 ~~R~~Il~~l~~~~~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~~~~~~~~~~Y~~~ 73 (120)
T PF01475_consen 8 PQRLAILELLKESPEHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRKIEFGDGESRYELS 73 (120)
T ss_dssp HHHHHHHHHHHHHSSSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEETTSEEEEEES
T ss_pred HHHHHHHHHHHcCCCCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEEEEcCCCcceEeec
Confidence 46889999999999999999999999763 69999999999999999999998887 44555443
No 12
>PRK06474 hypothetical protein; Provisional
Probab=97.43 E-value=0.011 Score=48.49 Aligned_cols=73 Identities=14% Similarity=0.264 Sum_probs=60.7
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec-----CceeEEEeecCCCCCCCHHH
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY-----GKQKIYIARQDQFDIPNSEE 80 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~-----GK~kiY~~~Q~~~~~~~~ee 80 (226)
..-+..|+++|...+.|+|+.+|...+. +|+.++|=..|..|++.|+|..-.. |..++|.++...+.. ++++
T Consensus 10 ~p~R~~Il~~L~~~~~~~ta~el~~~l~--~is~aTvYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~~~~~~~~-~~~~ 86 (178)
T PRK06474 10 HPVRMKICQVLMRNKEGLTPLELVKILK--DVPQATLYRHLQTMVDSGILHVVKEKKVRSVSEKYYAINEEDAKI-EGSE 86 (178)
T ss_pred CHHHHHHHHHHHhCCCCCCHHHHHHHhc--CCCHHHHHHHHHHHHHCCCEEEeecccccCceeEEEEeccceeee-CHHH
Confidence 5568899999999888899999999885 6999999999999999999998665 345899998887653 3444
Q ss_pred H
Q 027236 81 L 81 (226)
Q Consensus 81 ~ 81 (226)
+
T Consensus 87 ~ 87 (178)
T PRK06474 87 W 87 (178)
T ss_pred H
Confidence 3
No 13
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=97.40 E-value=0.009 Score=46.42 Aligned_cols=61 Identities=23% Similarity=0.318 Sum_probs=53.2
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhc-ccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQK-YNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~-~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
+++-.|+.++-.. .|-++.+|.+.|.. .++..++|...|..|+++|.|..+..|...+|.+
T Consensus 4 ~~E~~VM~vlW~~-~~~t~~eI~~~l~~~~~~~~tTv~T~L~rL~~KG~v~~~k~gr~~~Y~p 65 (130)
T TIGR02698 4 DAEWEVMRVVWTL-GETTSRDIIRILAEKKDWSDSTIKTLLGRLVDKGCLTTEKEGRKFIYTA 65 (130)
T ss_pred HHHHHHHHHHHcC-CCCCHHHHHHHHhhccCCcHHHHHHHHHHHHHCCceeeecCCCcEEEEe
Confidence 4677899999864 48899999998865 4789999999999999999999999999888876
No 14
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=97.15 E-value=0.0021 Score=42.22 Aligned_cols=52 Identities=21% Similarity=0.368 Sum_probs=45.1
Q ss_pred HHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 12 VLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 12 Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
|+.++. ++|.+..+|...+ +++++.|.++|+.|.+.|.|....-|...+|..
T Consensus 2 il~~l~--~~~~~~~~i~~~l---~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~~~ 53 (66)
T smart00418 2 ILKLLA--EGELCVCELAEIL---GLSQSTVSHHLKKLREAGLVESRREGKRVYYSL 53 (66)
T ss_pred HHHHhh--cCCccHHHHHHHH---CCCHHHHHHHHHHHHHCCCeeeeecCCEEEEEE
Confidence 677776 8899999998888 799999999999999999999877677677766
No 15
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=97.10 E-value=0.00085 Score=43.58 Aligned_cols=46 Identities=26% Similarity=0.444 Sum_probs=41.3
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcce
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISF 57 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~ 57 (226)
--.||++|..+..|.++.+|...+ |+++++|...|.+|++.|.|..
T Consensus 5 al~iL~~l~~~~~~~t~~eia~~~---gl~~stv~r~L~tL~~~g~v~~ 50 (52)
T PF09339_consen 5 ALRILEALAESGGPLTLSEIARAL---GLPKSTVHRLLQTLVEEGYVER 50 (52)
T ss_dssp HHHHHHCHHCTBSCEEHHHHHHHH---TS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHcCCCCCCHHHHHHHH---CcCHHHHHHHHHHHHHCcCeec
Confidence 357999999999999999999988 8999999999999999999864
No 16
>PHA00738 putative HTH transcription regulator
Probab=97.05 E-value=0.009 Score=44.81 Aligned_cols=65 Identities=18% Similarity=0.274 Sum_probs=57.1
Q ss_pred CcchHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCC
Q 027236 4 KSDNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQ 72 (226)
Q Consensus 4 kg~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~ 72 (226)
.|+..|-.|+.+|.. +.|.++.+|...+ +++.++|-+-|.-|.+-|+|....-|+..+|..+.+.
T Consensus 9 ~~dptRr~IL~lL~~-~e~~~V~eLae~l---~lSQptVS~HLKvLreAGLV~srK~Gr~vyY~Ln~~~ 73 (108)
T PHA00738 9 RAKILRRKILELIAE-NYILSASLISHTL---LLSYTTVLRHLKILNEQGYIELYKEGRTLYAKIRENS 73 (108)
T ss_pred cCCHHHHHHHHHHHH-cCCccHHHHHHhh---CCCHHHHHHHHHHHHHCCceEEEEECCEEEEEECCCc
Confidence 367889999999964 5579988998877 7999999999999999999999999999999996554
No 17
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=96.91 E-value=0.0054 Score=48.56 Aligned_cols=66 Identities=17% Similarity=0.273 Sum_probs=57.1
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhc--ccccHHHHHHHHHHHHHcCCcceeecCc-eeEEEeecC
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQK--YNLKKAGIQKALDSLADNGKISFKEYGK-QKIYIARQD 71 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~--~~v~K~~v~k~L~~Lv~~g~i~~K~~GK-~kiY~~~Q~ 71 (226)
-.-|..|++||.++..|+|+.+|.+.|.. -+|+.++|=.+|+.|++.|+|..=.++. ...|..++.
T Consensus 20 T~qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv~~~~~~~~~~~y~~~~~ 88 (145)
T COG0735 20 TPQRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLVHRLEFEGGKTRYELNSE 88 (145)
T ss_pred CHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEEEEEeCCCEEEEecCCC
Confidence 45688999999999999999999999986 3699999999999999999999999955 466655555
No 18
>PRK09462 fur ferric uptake regulator; Provisional
Probab=96.87 E-value=0.0048 Score=48.80 Aligned_cols=64 Identities=13% Similarity=0.286 Sum_probs=53.2
Q ss_pred chHHHHHHHHHHhc-CCCCcHHHHHHHHhcc--cccHHHHHHHHHHHHHcCCcceeecC-ceeEEEee
Q 027236 6 DNTEAIVLNYVNEQ-NRPLNSQNVADALQKY--NLKKAGIQKALDSLADNGKISFKEYG-KQKIYIAR 69 (226)
Q Consensus 6 ~ea~~~Il~y~~~~-nrPys~~di~~~l~~~--~v~K~~v~k~L~~Lv~~g~i~~K~~G-K~kiY~~~ 69 (226)
-..+..||++|..+ .+|+|+.+|.+.|.+. +|+.++|=.+|+.|++.|+|..=.+| ....|-++
T Consensus 16 T~qR~~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli~~~~~~~~~~~y~~~ 83 (148)
T PRK09462 16 TLPRLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGKSVFELT 83 (148)
T ss_pred CHHHHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCEEEEEcCCCcEEEEeC
Confidence 46789999999986 5899999999999763 58999999999999999999877764 34556443
No 19
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=96.85 E-value=0.0059 Score=38.70 Aligned_cols=46 Identities=26% Similarity=0.554 Sum_probs=38.5
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcc
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKIS 56 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~ 56 (226)
+-+..|+.|+.+ |.+.|..+|...+ |++.++|...|..|.++|.|.
T Consensus 3 ~~~~~Il~~l~~-~~~~t~~ela~~~---~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 3 ETQRKILNYLRE-NPRITQKELAEKL---GISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHHHHHH-CTTS-HHHHHHHH---TS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHH-cCCCCHHHHHHHh---CCCHHHHHHHHHHHHHCcCcC
Confidence 456789999998 5559999999988 899999999999999999873
No 20
>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=96.79 E-value=0.025 Score=40.58 Aligned_cols=78 Identities=15% Similarity=0.350 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCcc
Q 027236 121 IREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQWRKRKRMLRDIWDPIMENSPKNLKEFKEELGIE 200 (226)
Q Consensus 121 l~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w~kRkri~~~i~~~i~e~~~~~~k~l~e~lGie 200 (226)
+...+..|++++..+...+..+.+.- +.......+.|.+....|.+=|-++-.+++.|++.-+....++++++|++
T Consensus 5 l~~~~~~L~~~~~~l~~~i~~~~~~l----~~~~~~~v~~hI~lLheYNeiKD~gQ~Lig~iA~~rgvt~~~v~~e~gl~ 80 (83)
T PF07061_consen 5 LEAEIQELKEQIEQLEKEISELEAEL----IEDPEKIVKRHIKLLHEYNEIKDIGQGLIGLIADQRGVTVKDVYEEFGLD 80 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc----ccCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcCCcHHHHHHHcCCC
Confidence 44455555555555555555554321 12334566777777889999999999999999999999999999999998
Q ss_pred cc
Q 027236 201 YD 202 (226)
Q Consensus 201 ~D 202 (226)
.+
T Consensus 81 ~~ 82 (83)
T PF07061_consen 81 MN 82 (83)
T ss_pred CC
Confidence 64
No 21
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=96.74 E-value=0.042 Score=42.02 Aligned_cols=61 Identities=23% Similarity=0.260 Sum_probs=54.8
Q ss_pred cchHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEee
Q 027236 5 SDNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIAR 69 (226)
Q Consensus 5 g~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~ 69 (226)
++..+-.|+.++... .|.++.+|.+.+ +++.++|.+-|.-|.+-|+|....-|...+|..+
T Consensus 14 adptRl~IL~~L~~~-~~~~v~ela~~l---~lsqstvS~HL~~L~~AGLV~~~r~Gr~~~Y~l~ 74 (117)
T PRK10141 14 SDETRLGIVLLLRES-GELCVCDLCTAL---DQSQPKISRHLALLRESGLLLDRKQGKWVHYRLS 74 (117)
T ss_pred CCHHHHHHHHHHHHc-CCcCHHHHHHHH---CcCHHHHHHHHHHHHHCCceEEEEEcCEEEEEEC
Confidence 478888999999753 489999999888 7999999999999999999999999999999884
No 22
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=96.72 E-value=0.0082 Score=40.15 Aligned_cols=53 Identities=23% Similarity=0.444 Sum_probs=46.7
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCc
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
+..+-.|+.++ ..+.|.++.+|...+ +++.+++-.-|..|.+-|+|....-|+
T Consensus 9 ~p~R~~Il~~L-~~~~~~t~~ela~~l---~~~~~t~s~hL~~L~~aGli~~~~~gr 61 (61)
T PF12840_consen 9 DPTRLRILRLL-ASNGPMTVSELAEEL---GISQSTVSYHLKKLEEAGLIEVEREGR 61 (61)
T ss_dssp SHHHHHHHHHH-HHCSTBEHHHHHHHH---TS-HHHHHHHHHHHHHTTSEEEEEETT
T ss_pred CHHHHHHHHHH-hcCCCCCHHHHHHHH---CCCHHHHHHHHHHHHHCCCeEEeccCC
Confidence 45677899999 679999999999988 799999999999999999999988774
No 23
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=96.71 E-value=0.035 Score=42.91 Aligned_cols=52 Identities=21% Similarity=0.377 Sum_probs=44.9
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
.++.-.|+.-|.+.|.|.++-+|...| +.++++|+++|+.|++-|+|.-...
T Consensus 26 s~~Dv~v~~~LL~~~~~~tvdelae~l---nr~rStv~rsl~~L~~~GlV~Rek~ 77 (126)
T COG3355 26 SELDVEVYKALLEENGPLTVDELAEIL---NRSRSTVYRSLQNLLEAGLVEREKV 77 (126)
T ss_pred cHHHHHHHHHHHhhcCCcCHHHHHHHH---CccHHHHHHHHHHHHHcCCeeeeee
Confidence 455566777777799999999999988 6799999999999999999987765
No 24
>PF08679 DsrD: Dissimilatory sulfite reductase D (DsrD); InterPro: IPR014793 The structure of the dissimilatory sulphite reductase D (DsrD) protein has shown it to contain a winged-helix motif similar to those found in DNA binding proteins []. The structure suggests a possible role for DsrD in transcription or translation of genes, which catalyse dissimilatory sulphite reduction. ; PDB: 1WQ2_B 1UCR_B.
Probab=96.64 E-value=0.0087 Score=40.83 Aligned_cols=60 Identities=15% Similarity=0.377 Sum_probs=49.5
Q ss_pred hHHHHHHHHHH---hcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 7 NTEAIVLNYVN---EQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 7 ea~~~Il~y~~---~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
|+.+.|++||. .....|=.+|+.+..+ ....-.|+|++..||.+|.+..=--|++..|-.
T Consensus 1 e~K~~Ile~L~~k~~~KskfYfkD~~k~~p--d~k~R~vKKi~~~LV~Eg~l~yWSSGSTTmYgl 63 (67)
T PF08679_consen 1 EAKQKILEFLEAKKKKKSKFYFKDFYKAFP--DAKPREVKKIVNELVNEGKLEYWSSGSTTMYGL 63 (67)
T ss_dssp HHHHHHHHHHSSCCCHSS-EEHHHHHHH-T--TS-HHHHHHHHHHHHHTTSEEEEEETTEEEEEE
T ss_pred CHHHHHHHHHHhccCCCCceeHHHHHHHCC--CcCHHHHHHHHHHHHhhCeEEEEcCCCcEEecC
Confidence 57889999987 3355788999999886 578999999999999999999988999999965
No 25
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=96.56 E-value=0.011 Score=37.37 Aligned_cols=49 Identities=16% Similarity=0.369 Sum_probs=41.6
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
...|+.|+.. +.|+++.++...+ +++.++|.+.|+.|.+.|.|....-|
T Consensus 2 ~~~il~~l~~-~~~~s~~~l~~~l---~~s~~tv~~~l~~L~~~g~i~~~~~~ 50 (53)
T smart00420 2 QQQILELLAQ-QGKVSVEELAELL---GVSEMTIRRDLNKLEEQGLLTRVHGG 50 (53)
T ss_pred HHHHHHHHHH-cCCcCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEeecC
Confidence 3578999885 5789999999988 79999999999999999998765544
No 26
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=96.48 E-value=0.011 Score=48.06 Aligned_cols=57 Identities=21% Similarity=0.239 Sum_probs=51.2
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcc--cccHHHHHHHHHHHHHcCCcceeecCc
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKY--NLKKAGIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~--~v~K~~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
-..+..||++|..+.+|+|+.+|.+.|... .|+.++|=.+|+.|++.|+|..=..|.
T Consensus 25 T~qR~~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv~~~~~~~ 83 (169)
T PRK11639 25 TPQRLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVHKVESTN 83 (169)
T ss_pred CHHHHHHHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCCCEEEEecCC
Confidence 456889999999999999999999999773 589999999999999999998877754
No 27
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=96.40 E-value=0.017 Score=38.86 Aligned_cols=57 Identities=18% Similarity=0.361 Sum_probs=43.0
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec---CceeEEEe
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY---GKQKIYIA 68 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~---GK~kiY~~ 68 (226)
+-.||.++..+++|-+..+|.+.+ +++++++-++|+.|++.|+|....- |...+|-.
T Consensus 5 q~~vL~~l~~~~~~~t~~~l~~~~---~~~~~~vs~~i~~L~~~glv~~~~~~~d~R~~~~~L 64 (68)
T PF13463_consen 5 QWQVLRALAHSDGPMTQSDLAERL---GISKSTVSRIIKKLEEKGLVEKERDPHDKRSKRYRL 64 (68)
T ss_dssp HHHHHHHHT--TS-BEHHHHHHHT---T--HHHHHHHHHHHHHTTSEEEEEESSCTTSEEEEE
T ss_pred HHHHHHHHHccCCCcCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEecCCCCcCCeeEEEe
Confidence 457899999999999999999988 7999999999999999999965533 55555544
No 28
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=96.39 E-value=0.029 Score=37.65 Aligned_cols=59 Identities=24% Similarity=0.425 Sum_probs=50.0
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEee
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIAR 69 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~ 69 (226)
...+..|+.++... |.+..+|...+ +++.+.+.++|+.|++.|.|.....|...+|.+.
T Consensus 6 ~~~~~~il~~l~~~--~~~~~ei~~~~---~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~ 64 (78)
T cd00090 6 DPTRLRILRLLLEG--PLTVSELAERL---GLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLT 64 (78)
T ss_pred ChHHHHHHHHHHHC--CcCHHHHHHHH---CcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEeC
Confidence 46678899998864 48999988877 7899999999999999999999888877777774
No 29
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=96.35 E-value=0.013 Score=37.09 Aligned_cols=46 Identities=26% Similarity=0.484 Sum_probs=40.5
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcc
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKIS 56 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~ 56 (226)
++.+-.|+.++.+ .|+++.+|.+.+ ++++++|..-|..|.+.|+|.
T Consensus 1 d~~R~~Il~~L~~--~~~~~~el~~~l---~~s~~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 1 DPTRLRILKLLSE--GPLTVSELAEEL---GLSQSTVSHHLKKLREAGLVE 46 (47)
T ss_dssp SHHHHHHHHHHTT--SSEEHHHHHHHH---TS-HHHHHHHHHHHHHTTSEE
T ss_pred CHHHHHHHHHHHh--CCCchhhHHHhc---cccchHHHHHHHHHHHCcCee
Confidence 3567789999987 999999999988 899999999999999999985
No 30
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=96.35 E-value=0.014 Score=41.73 Aligned_cols=48 Identities=23% Similarity=0.319 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
.--.|+++|.....|.++.+|...+ ++++++|.+.|..|++.|.|...
T Consensus 6 r~~~Il~~l~~~~~~~t~~~ia~~l---~i~~~tv~r~l~~L~~~g~l~~~ 53 (91)
T smart00346 6 RGLAVLRALAEEPGGLTLAELAERL---GLSKSTAHRLLNTLQELGYVEQD 53 (91)
T ss_pred HHHHHHHHHHhCCCCcCHHHHHHHh---CCCHHHHHHHHHHHHHCCCeeec
Confidence 3456899998877899999999988 89999999999999999999875
No 31
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=96.32 E-value=0.25 Score=41.04 Aligned_cols=59 Identities=24% Similarity=0.440 Sum_probs=47.5
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceee----cCc-eeEEEeec
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKE----YGK-QKIYIARQ 70 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~----~GK-~kiY~~~Q 70 (226)
.+..||.++... .|.|..+|.+.+ +|+.++|.+.|+.|+++|+|.... -|. ..+|....
T Consensus 2 tr~~IL~~L~~~-~~~t~~eLA~~l---gis~~tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~ 65 (203)
T TIGR02702 2 TKEDILSYLLKQ-GQATAAALAEAL---AISPQAVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSR 65 (203)
T ss_pred HHHHHHHHHHHc-CCCCHHHHHHHH---CcCHHHHHHHHHHHHHCCCeEEeecccCCCCCceEEEECc
Confidence 367899999875 568999999988 899999999999999999998662 344 45565543
No 32
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=96.29 E-value=0.019 Score=38.52 Aligned_cols=50 Identities=16% Similarity=0.437 Sum_probs=41.7
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCc
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
-..|+..-. .+.|-+..+|...| +|++++|.++|..|.++|+|....||-
T Consensus 10 L~~Iy~l~~-~~~~v~~~~iA~~L---~vs~~tvt~ml~~L~~~GlV~~~~y~g 59 (60)
T PF01325_consen 10 LKAIYELSE-EGGPVRTKDIAERL---GVSPPTVTEMLKRLAEKGLVEYEPYKG 59 (60)
T ss_dssp HHHHHHHHH-CTSSBBHHHHHHHH---TS-HHHHHHHHHHHHHTTSEEEETTTE
T ss_pred HHHHHHHHc-CCCCccHHHHHHHH---CCChHHHHHHHHHHHHCCCEEecCCCC
Confidence 344555544 78999999999999 799999999999999999999998873
No 33
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=96.12 E-value=0.023 Score=47.71 Aligned_cols=64 Identities=27% Similarity=0.469 Sum_probs=55.5
Q ss_pred CCc--chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee-ecCc----eeEEEee
Q 027236 3 PKS--DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK-EYGK----QKIYIAR 69 (226)
Q Consensus 3 ~kg--~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K-~~GK----~kiY~~~ 69 (226)
||| .---..|.+.+..+.-|||+.++...+ |++++++.+.|+-|++.|.+... .||+ ...||..
T Consensus 152 PkGi~~~Tl~~i~~~~~~~~~~~Taeela~~~---giSRvTaRRYLeyl~~~~~l~a~i~yG~vGRP~r~Y~~~ 222 (224)
T COG4565 152 PKGLDELTLQKVREALKEPDQELTAEELAQAL---GISRVTARRYLEYLVSNGILEAEIHYGKVGRPERRYRLK 222 (224)
T ss_pred CCCcCHHHHHHHHHHHhCcCCccCHHHHHHHh---CccHHHHHHHHHHHHhcCeeeEEeeccccCCcceeeecc
Confidence 577 566788999999999999999998877 89999999999999999999988 6785 4777764
No 34
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=95.99 E-value=0.035 Score=36.02 Aligned_cols=44 Identities=18% Similarity=0.422 Sum_probs=38.3
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCc
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKI 55 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i 55 (226)
...|+.+|..++.|+|+.++.+.| +|+..+|.+.|+.|-+.|..
T Consensus 2 ~~~il~~L~~~~~~it~~eLa~~l---~vS~rTi~~~i~~L~~~~~~ 45 (55)
T PF08279_consen 2 QKQILKLLLESKEPITAKELAEEL---GVSRRTIRRDIKELREWGIP 45 (55)
T ss_dssp HHHHHHHHHHTTTSBEHHHHHHHC---TS-HHHHHHHHHHHHHTT-E
T ss_pred HHHHHHHHHHcCCCcCHHHHHHHh---CCCHHHHHHHHHHHHHCCCe
Confidence 357999999999999999999988 79999999999999999933
No 35
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=95.90 E-value=0.17 Score=43.57 Aligned_cols=93 Identities=25% Similarity=0.310 Sum_probs=67.6
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHHHHHH
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELNQMKE 86 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~ 86 (226)
+=+..|+-.|.. ..|-++.+|.... ||+.+-|=++|.+|.++|.|..- -|+-++|.| .| ++++ ++.
T Consensus 16 ~yEa~vY~aLl~-~g~~tA~eis~~s---gvP~~kvY~vl~sLe~kG~v~~~-~g~P~~y~a----v~---p~~~--i~~ 81 (247)
T COG1378 16 EYEAKVYLALLC-LGEATAKEISEAS---GVPRPKVYDVLRSLEKKGLVEVI-EGRPKKYRA----VP---PEEL--IER 81 (247)
T ss_pred HHHHHHHHHHHH-hCCccHHHHHHHc---CCCchhHHHHHHHHHHCCCEEee-CCCCceEEe----CC---HHHH--HHH
Confidence 345566666663 4588999998876 89999999999999999999988 899999999 65 5663 345
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 87 ENAKLQEQLEEQRKAISKLEGEIRTLQ 113 (226)
Q Consensus 87 ~i~~l~~~l~~l~~~~k~l~~el~~l~ 113 (226)
...+++..+..+......+..++....
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 108 (247)
T COG1378 82 IKEELQELLRELESELEELERELARRE 108 (247)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcccccc
Confidence 555565556666655555555444433
No 36
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=95.79 E-value=0.21 Score=44.67 Aligned_cols=86 Identities=21% Similarity=0.357 Sum_probs=67.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHH
Q 027236 73 FDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPE 152 (226)
Q Consensus 73 ~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~e 152 (226)
...++++++..+..++..+..++...+..+.+++.++..+... .+++.+++.++..+|.+++..+..-+ ..|..
T Consensus 203 ~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~--i~~~~~~k~~l~~eI~e~~~~~~~~r----~~t~~ 276 (325)
T PF08317_consen 203 IESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEK--IEELEEQKQELLAEIAEAEKIREECR----GWTRS 276 (325)
T ss_pred hhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHhc----CCCHH
Confidence 4567788899999999999999999999999998888888765 46777778888888887777665543 34788
Q ss_pred HHHHHHHHHHHH
Q 027236 153 DRMAVEEMFLEK 164 (226)
Q Consensus 153 e~~~~~~~~~~~ 164 (226)
|+..++..+...
T Consensus 277 Ev~~Lk~~~~~L 288 (325)
T PF08317_consen 277 EVKRLKAKVDAL 288 (325)
T ss_pred HHHHHHHHHHHH
Confidence 888888877543
No 37
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=95.61 E-value=0.76 Score=38.90 Aligned_cols=58 Identities=19% Similarity=0.439 Sum_probs=47.3
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC-----ceeEEEe
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG-----KQKIYIA 68 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G-----K~kiY~~ 68 (226)
.-++.|+.++.+ --|-|+.++.+.| ||++++|..-|+.|+.+|+|...... .+++|-.
T Consensus 11 ~tr~~il~lL~~-~g~~sa~elA~~L---gis~~avR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~L 73 (218)
T COG2345 11 STRERILELLKK-SGPVSADELAEEL---GISPMAVRRHLDDLEAEGLVEVERQQGGRGRPAKLYRL 73 (218)
T ss_pred cHHHHHHHHHhc-cCCccHHHHHHHh---CCCHHHHHHHHHHHHhCcceeeeeccCCCCCCceeeee
Confidence 356778888774 4699999999999 89999999999999999999998543 2466644
No 38
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=95.59 E-value=0.065 Score=35.35 Aligned_cols=49 Identities=16% Similarity=0.298 Sum_probs=41.5
Q ss_pred HHHHHHHHHHhcCCC-CcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceee
Q 027236 8 TEAIVLNYVNEQNRP-LNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKE 59 (226)
Q Consensus 8 a~~~Il~y~~~~nrP-ys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~ 59 (226)
.+-.||.|+.....+ .++.+|...+ ++++++|..++..|++.|+|....
T Consensus 6 ~q~~vL~~l~~~~~~~~t~~~la~~l---~~~~~~vs~~v~~L~~~Glv~r~~ 55 (62)
T PF12802_consen 6 SQFRVLMALARHPGEELTQSELAERL---GISKSTVSRIVKRLEKKGLVERER 55 (62)
T ss_dssp HHHHHHHHHHHSTTSGEEHHHHHHHH---TS-HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHHHCCCCCcCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEEeC
Confidence 455788888877776 8999999988 799999999999999999998764
No 39
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=95.57 E-value=0.44 Score=36.60 Aligned_cols=87 Identities=22% Similarity=0.309 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH-HHHHHHHHHHHHHHHHHHHHHHHhhC--CCCCCCHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL-EQIREKEAQLVKEVKEMENKLAKLRG--GVTLVKPEDRMAV 157 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~-~el~~~i~~L~~e~~~l~~kL~~l~~--~~~~vs~ee~~~~ 157 (226)
+..++.++..++.++..+...-..+..+|-.+...... ......+..|+.++.+++.++..+-. |- -.++++.+
T Consensus 25 lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~LellGE---K~E~veEL 101 (120)
T PF12325_consen 25 LRRLEGELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLLELLGE---KSEEVEEL 101 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc---hHHHHHHH
Confidence 33445555555555555555555566666555543222 45556788888888888888876643 32 25777777
Q ss_pred HHHHHHHHHHHHH
Q 027236 158 EEMFLEKLSQWRK 170 (226)
Q Consensus 158 ~~~~~~~~~~w~k 170 (226)
..++.+...+|+.
T Consensus 102 ~~Dv~DlK~myr~ 114 (120)
T PF12325_consen 102 RADVQDLKEMYRE 114 (120)
T ss_pred HHHHHHHHHHHHH
Confidence 7777666655544
No 40
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=95.53 E-value=0.12 Score=39.85 Aligned_cols=62 Identities=16% Similarity=0.269 Sum_probs=57.1
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhc-ccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQK-YNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~-~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
..|+..|++++=... |-++.||...+++ ...+.++|+-.|..|+.+|.|.++.=|+.-+|-+
T Consensus 5 s~aE~eVM~ilW~~~-~~t~~eI~~~l~~~~ews~sTV~TLl~RL~KKg~l~~~kdgr~~~y~p 67 (123)
T COG3682 5 SAAEWEVMEILWSRG-PATVREIIEELPADREWSYSTVKTLLNRLVKKGLLTRKKDGRAFRYSP 67 (123)
T ss_pred cHHHHHHHHHHHHcC-CccHHHHHHHHhhcccccHHHHHHHHHHHHhccchhhhhcCCeeeeec
Confidence 468889999999877 9999999999987 5799999999999999999999999999999977
No 41
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=95.47 E-value=0.066 Score=35.72 Aligned_cols=40 Identities=33% Similarity=0.532 Sum_probs=34.6
Q ss_pred cCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 19 QNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 19 ~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
.+.|.+..+|.+.+ |++.++|.++|..|.++|+|.....|
T Consensus 22 ~~~~~s~~ela~~~---g~s~~tv~r~l~~L~~~g~i~~~~~~ 61 (67)
T cd00092 22 VQLPLTRQEIADYL---GLTRETVSRTLKELEEEGLISRRGRG 61 (67)
T ss_pred ccCCcCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEecCCC
Confidence 34689999999888 79999999999999999999876544
No 42
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=95.24 E-value=0.12 Score=37.74 Aligned_cols=50 Identities=18% Similarity=0.173 Sum_probs=42.3
Q ss_pred cCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCC
Q 027236 19 QNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQF 73 (226)
Q Consensus 19 ~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~ 73 (226)
...|.|.++|...+ |+++++|.++|..|..+|+|... |....|.+|++.+
T Consensus 44 ~~~~is~~eLa~~~---g~sr~tVsr~L~~Le~~GlI~r~--~~~~~~~~n~~~~ 93 (95)
T TIGR01610 44 KQDRVTATVIAELT---GLSRTHVSDAIKSLARRRIIFRQ--GMMGIVGVNTPLS 93 (95)
T ss_pred cCCccCHHHHHHHH---CcCHHHHHHHHHHHHHCCCeeee--cCCceeecCCCcc
Confidence 57899999998877 79999999999999999999743 5578888887653
No 43
>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=95.23 E-value=0.3 Score=36.32 Aligned_cols=66 Identities=30% Similarity=0.494 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN-LTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~-~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
-+++..++.+..++..++..++.+.+.+..++..+... ...+++.++...+..++.+++..+..+.
T Consensus 28 vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~~~~e 94 (108)
T PF02403_consen 28 VDEIIELDQERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQLKELE 94 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788899999999999999999999999999999987 5778899998888888888888887654
No 44
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=95.20 E-value=0.063 Score=36.73 Aligned_cols=51 Identities=18% Similarity=0.383 Sum_probs=44.0
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcc--cccHHHHHHHHHHHHHcCCcceeecC
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKY--NLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~--~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
.||++|.+++.|.+...|.+.|... .++..+|..-|..|-.+|++...-|+
T Consensus 2 ~IL~~L~~~~~P~g~~~l~~~L~~~g~~~se~avRrrLr~me~~Glt~~~g~~ 54 (66)
T PF08461_consen 2 FILRILAESDKPLGRKQLAEELKLRGEELSEEAVRRRLRAMERDGLTRKVGRQ 54 (66)
T ss_pred HHHHHHHHcCCCCCHHHHHHHHHhcChhhhHHHHHHHHHHHHHCCCccccCCc
Confidence 5899999999999999999999764 57789999999999999966654454
No 45
>PHA02943 hypothetical protein; Provisional
Probab=95.19 E-value=0.47 Score=37.88 Aligned_cols=63 Identities=19% Similarity=0.239 Sum_probs=52.3
Q ss_pred CCCCc----chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 1 MAPKS----DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 1 M~~kg----~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
||.+- -+-...||+|+ ..-+-|..+|...| |++-.+|+-+|--|.-+|.|..-.+|+..+|++
T Consensus 1 MPr~~sd~v~~R~~eILE~L--k~G~~TtseIAkaL---GlS~~qa~~~LyvLErEG~VkrV~~G~~tyw~l 67 (165)
T PHA02943 1 MPRGMSDTVHTRMIKTLRLL--ADGCKTTSRIANKL---GVSHSMARNALYQLAKEGMVLKVEIGRAAIWCL 67 (165)
T ss_pred CCcchhHHHHHHHHHHHHHH--hcCCccHHHHHHHH---CCCHHHHHHHHHHHHHcCceEEEeecceEEEEE
Confidence 66542 35567799999 33345577888888 899999999999999999999999999999998
No 46
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=95.14 E-value=0.075 Score=36.28 Aligned_cols=49 Identities=27% Similarity=0.467 Sum_probs=37.6
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhccccc-HHHHHHHHHHHHHcCCccee
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLK-KAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~-K~~v~k~L~~Lv~~g~i~~K 58 (226)
+.-+-|.+|+.+...|=|+.+|.+.+ |+. .++|+..|+.|.+.|.|...
T Consensus 10 ~vL~~I~~~~~~~G~~Pt~rEIa~~~---g~~S~~tv~~~L~~Le~kG~I~r~ 59 (65)
T PF01726_consen 10 EVLEFIREYIEENGYPPTVREIAEAL---GLKSTSTVQRHLKALERKGYIRRD 59 (65)
T ss_dssp HHHHHHHHHHHHHSS---HHHHHHHH---TSSSHHHHHHHHHHHHHTTSEEEG
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHh---CCCChHHHHHHHHHHHHCcCccCC
Confidence 34455666677788999999999988 665 99999999999999999753
No 47
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=95.08 E-value=0.41 Score=39.24 Aligned_cols=59 Identities=17% Similarity=0.175 Sum_probs=48.3
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceee-----cCceeEEEe
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKE-----YGKQKIYIA 68 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~-----~GK~kiY~~ 68 (226)
++....|++.|.... +.+..++...| ||+...|-++|..|.++|+|.... .|--.+||.
T Consensus 21 ~~~~~~Vl~~L~~~g-~~tdeeLA~~L---gi~~~~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w~ 84 (178)
T PRK06266 21 DEEGFEVLKALIKKG-EVTDEEIAEQT---GIKLNTVRKILYKLYDARLADYKREKDEETNWYTYTWK 84 (178)
T ss_pred CccHhHHHHHHHHcC-CcCHHHHHHHH---CCCHHHHHHHHHHHHHCCCeEEeeeeccCCCcEEEEEE
Confidence 455677888888544 89999998888 899999999999999999998432 466678888
No 48
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=95.05 E-value=0.11 Score=42.19 Aligned_cols=59 Identities=20% Similarity=0.343 Sum_probs=48.4
Q ss_pred HHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec-C-ceeEEEeecC
Q 027236 10 AIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY-G-KQKIYIARQD 71 (226)
Q Consensus 10 ~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~-G-K~kiY~~~Q~ 71 (226)
..|+-.|+-+++|.++.+|..++ |++|+.|--+|..|.+-|+|.-... | .-.+|.+.++
T Consensus 29 G~iYgilyls~~Pmtl~Ei~E~l---g~Sks~vS~~lkkL~~~~lV~~~~~~G~Rk~~F~a~~d 89 (177)
T COG1510 29 GQIYGILYLSRKPLTLDEIAEAL---GMSKSNVSMGLKKLQDWNLVKKVFEKGDRKDYFEAEKD 89 (177)
T ss_pred HHHhhhheecCCCccHHHHHHHH---CCCcchHHHHHHHHHhcchHHhhhccCcchhhhcccch
Confidence 46888888899999999999988 8999999999999999999876544 4 4456666443
No 49
>PRK11546 zraP zinc resistance protein; Provisional
Probab=95.04 E-value=0.32 Score=38.46 Aligned_cols=72 Identities=17% Similarity=0.186 Sum_probs=57.9
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 70 QDQFDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 70 Q~~~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+.....+|+|.-+.++.-..+...+...|++++-..+.||+.|...+..+ .+.|.+|.+||..|+.+|...+
T Consensus 38 ~~~~~~LT~EQQa~~q~I~~~f~~~t~~LRqqL~aKr~ELnALl~~~~pD--~~kI~aL~kEI~~Lr~kL~e~r 109 (143)
T PRK11546 38 QQNAAPLTTEQQAAWQKIHNDFYAQTSALRQQLVSKRYEYNALLTANPPD--SSKINAVAKEMENLRQSLDELR 109 (143)
T ss_pred ccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHHHHHHHHHHH
Confidence 33456678999999999999999999999999999999999998774443 3457777788888888775543
No 50
>PRK14127 cell division protein GpsB; Provisional
Probab=94.99 E-value=0.64 Score=35.07 Aligned_cols=83 Identities=17% Similarity=0.283 Sum_probs=60.0
Q ss_pred CCcHHHHHH-HHhc--ccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 027236 22 PLNSQNVAD-ALQK--YNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELNQMKEENAKLQEQLEEQ 98 (226)
Q Consensus 22 Pys~~di~~-~l~~--~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~~l~~l 98 (226)
+++..||.. -++. .|+....|-..||..++ ++..+..++.+|++++..+
T Consensus 5 ~LTp~DI~~KeF~~~~RGYd~~EVD~FLd~V~~----------------------------dye~l~~e~~~Lk~e~~~l 56 (109)
T PRK14127 5 KLTPKDILEKEFKTSMRGYDQDEVDKFLDDVIK----------------------------DYEAFQKEIEELQQENARL 56 (109)
T ss_pred CCCHHHHhhCccCCCCCCCCHHHHHHHHHHHHH----------------------------HHHHHHHHHHHHHHHHHHH
Confidence 466666633 2222 38888888888887764 5566677888888888888
Q ss_pred HHHHHHHHHHHHHHhc-----------cCCHHHHHHHHHHHHHHH
Q 027236 99 RKAISKLEGEIRTLQS-----------NLTLEQIREKEAQLVKEV 132 (226)
Q Consensus 99 ~~~~k~l~~el~~l~~-----------~~t~~el~~~i~~L~~e~ 132 (226)
+.++.+++.++....+ ..|+-+++..|..|++++
T Consensus 57 ~~~l~e~~~~~~~~~~~~~~~~~~~~~~~tn~DiLKRls~LEk~V 101 (109)
T PRK14127 57 KAQVDELTKQVSVGASSSSVATTQPSSSATNYDILKRLSNLEKHV 101 (109)
T ss_pred HHHHHHHHHhhccccccccccccCCCCCcchHHHHHHHHHHHHHH
Confidence 8888888887776542 257788889998888876
No 51
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=94.88 E-value=0.15 Score=33.69 Aligned_cols=49 Identities=18% Similarity=0.420 Sum_probs=41.0
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCc
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
...|++|+.+ +.+.++.++...+ +|+..++-.-|+.|.+.|+|. +.+|-
T Consensus 2 ~~~Il~~l~~-~~~~s~~ela~~~---~VS~~TiRRDl~~L~~~g~i~-r~~GG 50 (57)
T PF08220_consen 2 QQQILELLKE-KGKVSVKELAEEF---GVSEMTIRRDLNKLEKQGLIK-RTHGG 50 (57)
T ss_pred HHHHHHHHHH-cCCEEHHHHHHHH---CcCHHHHHHHHHHHHHCCCEE-EEcCE
Confidence 4679999865 6789999999888 899999999999999999854 45553
No 52
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=94.87 E-value=0.46 Score=42.37 Aligned_cols=87 Identities=25% Similarity=0.338 Sum_probs=63.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHH
Q 027236 73 FDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPE 152 (226)
Q Consensus 73 ~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~e 152 (226)
+..++++++..+..++..+..++.....++.+++.++..+.... ++..+++.++..+|.+++..++..+ ..|..
T Consensus 198 ~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I--~~~~~~k~e~~~~I~~ae~~~~~~r----~~t~~ 271 (312)
T smart00787 198 LEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKI--EDLTNKKSELNTEIAEAEKKLEQCR----GFTFK 271 (312)
T ss_pred HHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhcC----CCCHH
Confidence 45667888888888888888888888888888888887777543 4556667777777777777665544 34688
Q ss_pred HHHHHHHHHHHHH
Q 027236 153 DRMAVEEMFLEKL 165 (226)
Q Consensus 153 e~~~~~~~~~~~~ 165 (226)
|+..+...+..+.
T Consensus 272 Ei~~Lk~~~~~Le 284 (312)
T smart00787 272 EIEKLKEQLKLLQ 284 (312)
T ss_pred HHHHHHHHHHHHH
Confidence 8888888765433
No 53
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=94.84 E-value=1.1 Score=34.72 Aligned_cols=52 Identities=19% Similarity=0.346 Sum_probs=44.0
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
..+-.||.++...+.|-+..+|.+.+ ++++++|.++++.|+..|+|.-..-.
T Consensus 31 ~~q~~vL~~l~~~~~~~t~~eLa~~l---~~~~~tvt~~v~~Le~~GlV~r~~~~ 82 (144)
T PRK03573 31 QTHWVTLHNIHQLPPEQSQIQLAKAI---GIEQPSLVRTLDQLEEKGLISRQTCA 82 (144)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHh---CCChhhHHHHHHHHHHCCCEeeecCC
Confidence 34557888888766678899999988 79999999999999999999988653
No 54
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=94.52 E-value=0.085 Score=34.11 Aligned_cols=37 Identities=19% Similarity=0.390 Sum_probs=30.9
Q ss_pred CCCC-cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceee
Q 027236 20 NRPL-NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKE 59 (226)
Q Consensus 20 nrPy-s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~ 59 (226)
+..+ |..++...+ +++.++|.++|..|.++|.|....
T Consensus 17 ~~~l~s~~~la~~~---~vs~~tv~~~l~~L~~~g~i~~~~ 54 (60)
T smart00345 17 GDKLPSERELAAQL---GVSRTTVREALSRLEAEGLVQRRP 54 (60)
T ss_pred CCcCcCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEec
Confidence 3345 888888877 799999999999999999987543
No 55
>PRK11569 transcriptional repressor IclR; Provisional
Probab=94.52 E-value=0.078 Score=46.09 Aligned_cols=49 Identities=14% Similarity=0.268 Sum_probs=43.9
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
+.--.||++|.+.++|.++.+|...+ |++|++|-..|.+|++.|.|...
T Consensus 28 ~ral~IL~~l~~~~~~~~lseia~~l---glpksTv~RlL~tL~~~G~l~~~ 76 (274)
T PRK11569 28 TRGLKLLEWIAESNGSVALTELAQQA---GLPNSTTHRLLTTMQQQGFVRQV 76 (274)
T ss_pred HHHHHHHHHHHhCCCCcCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEEc
Confidence 34457899999999999999999988 89999999999999999999754
No 56
>PF13730 HTH_36: Helix-turn-helix domain
Probab=94.44 E-value=0.1 Score=33.72 Aligned_cols=32 Identities=22% Similarity=0.452 Sum_probs=27.2
Q ss_pred CCC-cHHHHHHHHhcccccHHHHHHHHHHHHHcCCc
Q 027236 21 RPL-NSQNVADALQKYNLKKAGIQKALDSLADNGKI 55 (226)
Q Consensus 21 rPy-s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i 55 (226)
..| |...|.+.+ |+++.+|+++++.|++.|.|
T Consensus 23 ~~~pS~~~la~~~---g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 23 GCFPSQETLAKDL---GVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CCCcCHHHHHHHH---CcCHHHHHHHHHHHHHCcCC
Confidence 344 777787777 89999999999999999986
No 57
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=94.43 E-value=0.17 Score=35.90 Aligned_cols=56 Identities=23% Similarity=0.402 Sum_probs=43.1
Q ss_pred HHHHHHHhcCC--CCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeec
Q 027236 11 IVLNYVNEQNR--PLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQ 70 (226)
Q Consensus 11 ~Il~y~~~~nr--Pys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q 70 (226)
.++-|+-.++. |.|..+|...+ +++...+.++|+.|+..|+|.+.. |..-=|+...
T Consensus 12 ~~l~~la~~~~~~~~s~~eiA~~~---~i~~~~l~kil~~L~~~Gli~s~~-G~~GGy~L~~ 69 (83)
T PF02082_consen 12 RILLYLARHPDGKPVSSKEIAERL---GISPSYLRKILQKLKKAGLIESSR-GRGGGYRLAR 69 (83)
T ss_dssp HHHHHHHCTTTSC-BEHHHHHHHH---TS-HHHHHHHHHHHHHTTSEEEET-STTSEEEESS
T ss_pred HHHHHHHhCCCCCCCCHHHHHHHH---CcCHHHHHHHHHHHhhCCeeEecC-CCCCceeecC
Confidence 45666665555 89999999987 799999999999999999998776 7765566533
No 58
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=94.41 E-value=0.71 Score=32.19 Aligned_cols=59 Identities=20% Similarity=0.250 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHH
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENK 138 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~k 138 (226)
-+.+..+..+|..+-+.+..|+.++..|..+-..+. -.+.+|..+..+|+.+-....++
T Consensus 3 ~E~l~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~--~e~~~L~~en~~L~~e~~~~~~r 61 (72)
T PF06005_consen 3 LELLEQLEEKIQQAVETIALLQMENEELKEKNNELK--EENEELKEENEQLKQERNAWQER 61 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677777788777777777777777776655555 22333333444444333333333
No 59
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=94.34 E-value=0.088 Score=44.93 Aligned_cols=48 Identities=21% Similarity=0.280 Sum_probs=43.3
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
.--.||++|-...+|.++.||...+ |++|++|-..|.+|++.|.|...
T Consensus 10 ral~IL~~l~~~~~~~~l~eia~~l---glpksT~~RlL~tL~~~G~l~~~ 57 (248)
T TIGR02431 10 RGLAVIEAFGAERPRLTLTDVAEAT---GLTRAAARRFLLTLVELGYVTSD 57 (248)
T ss_pred HHHHHHHHHhcCCCCCCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEeC
Confidence 3457899999999999999999988 89999999999999999999753
No 60
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=94.00 E-value=0.84 Score=34.81 Aligned_cols=47 Identities=21% Similarity=0.328 Sum_probs=33.5
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHhhC-----CCCCCCHHHHHHHHHHH
Q 027236 115 NLTLEQIREKEAQLVKEVKEMENKLAKLRG-----GVTLVKPEDRMAVEEMF 161 (226)
Q Consensus 115 ~~t~~el~~~i~~L~~e~~~l~~kL~~l~~-----~~~~vs~ee~~~~~~~~ 161 (226)
.+|.+||.+++..|+-||+.|..+|..--+ +...+||.+.+.+...|
T Consensus 2 ~~t~EeLaaeL~kLqmENk~LKkkl~~~~~p~~~p~~~~LTp~qKe~~I~s~ 53 (118)
T PF05812_consen 2 DMTMEELAAELQKLQMENKALKKKLRQSVGPGPSPDDEVLTPAQKEAMITSA 53 (118)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHTT---S-TT--B--HHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCCCccccChHHHHHHHHHH
Confidence 357799999999999999999999976542 33568888877666554
No 61
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=93.97 E-value=0.71 Score=32.65 Aligned_cols=73 Identities=18% Similarity=0.312 Sum_probs=51.7
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec--Cc--eeEEEeecCCCCCCCHHHHHHH
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY--GK--QKIYIARQDQFDIPNSEELNQM 84 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~--GK--~kiY~~~Q~~~~~~~~ee~~~l 84 (226)
+-.|+.|+.. ++.-+..+|.+.+ ++++..+-+.|..|.+.|.|..++- |+ ..+|.. |+.-...+
T Consensus 2 Rl~Il~~L~~-~~~~~f~~L~~~l---~lt~g~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~l--------T~~Gr~~~ 69 (80)
T PF13601_consen 2 RLAILALLYA-NEEATFSELKEEL---GLTDGNLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSL--------TDKGREAF 69 (80)
T ss_dssp HHHHHHHHHH-HSEEEHHHHHHHT---T--HHHHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE---------HHHHHHH
T ss_pred HHHHHHHHhh-cCCCCHHHHHHHh---CcCHHHHHHHHHHHHHCCCEEEEEeccCCCCeEEEEE--------CHHHHHHH
Confidence 3468888886 7778888998888 8999999999999999999999865 22 344444 34556555
Q ss_pred HHHHHHHHH
Q 027236 85 KEENAKLQE 93 (226)
Q Consensus 85 ~~~i~~l~~ 93 (226)
...+..|++
T Consensus 70 ~~~~~~L~~ 78 (80)
T PF13601_consen 70 ERYVAALRE 78 (80)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 555555543
No 62
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=93.92 E-value=0.7 Score=37.01 Aligned_cols=58 Identities=14% Similarity=0.302 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHHHHHHHH
Q 027236 80 ELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN-LTLEQIREKEAQLVKEVKEMEN 137 (226)
Q Consensus 80 e~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~-~t~~el~~~i~~L~~e~~~l~~ 137 (226)
++.....+...+.+++..++.++.....+|..|... ..+++|..+|..|+.++....+
T Consensus 14 ~i~~~K~~~~~~~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~~~~~ 72 (155)
T PF06810_consen 14 DIEAPKAKVDKVKEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAKNKTAKE 72 (155)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHH
Confidence 344455677777888888888888888888888874 7789999999999998884333
No 63
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=93.89 E-value=0.16 Score=43.82 Aligned_cols=52 Identities=15% Similarity=0.263 Sum_probs=45.6
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
+.--.||++|.....|.++.+|...+ |++|++|-..|+.|++.|.|....-+
T Consensus 11 ~ral~iL~~l~~~~~~ls~~eia~~l---gl~kstv~RlL~tL~~~g~v~~~~~~ 62 (263)
T PRK09834 11 SRGLMVLRALNRLDGGATVGLLAELT---GLHRTTVRRLLETLQEEGYVRRSASD 62 (263)
T ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEEecCC
Confidence 44557899999888899999999988 89999999999999999999876543
No 64
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain. This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.
Probab=93.87 E-value=0.58 Score=31.75 Aligned_cols=62 Identities=18% Similarity=0.394 Sum_probs=44.3
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHH
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEEL 81 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~ 81 (226)
.|+..+. ++|++..++...+ +|+.++|.+.+..|.+.|...... |+ -|+. +...+.++++.+
T Consensus 4 ~il~~L~--~~~~~~~eLa~~l---~vS~~tv~~~l~~L~~~g~~i~~~-~~--g~~l-~~~~~ll~~~~i 65 (69)
T TIGR00122 4 RLLALLA--DNPFSGEKLGEAL---GMSRTAVNKHIQTLREWGVDVLTV-GK--GYRL-PPPIPLLNAKQI 65 (69)
T ss_pred HHHHHHH--cCCcCHHHHHHHH---CCCHHHHHHHHHHHHHCCCeEEec-CC--ceEe-cCccccCCHHHH
Confidence 4677766 5578888888888 899999999999999999977666 43 4443 222344444433
No 65
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=93.61 E-value=1.8 Score=37.10 Aligned_cols=88 Identities=19% Similarity=0.352 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH-----HHHHHHHHHHHHHHHHHHHHHHHhhCC-CCCCCHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL-----EQIREKEAQLVKEVKEMENKLAKLRGG-VTLVKPEDR 154 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~-----~el~~~i~~L~~e~~~l~~kL~~l~~~-~~~vs~ee~ 154 (226)
+..+|.++..+..........++.+.+++..++....+ +++..++.+++.++.++++++...+.. +..-+..+.
T Consensus 12 iq~lD~e~~rl~~~~~~~~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~ 91 (239)
T COG1579 12 IQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDEREL 91 (239)
T ss_pred HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHH
Confidence 34455555555555555555555555555555543322 555666666666666666666555431 122234444
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027236 155 MAVEEMFLEKLSQWRKRK 172 (226)
Q Consensus 155 ~~~~~~~~~~~~~w~kRk 172 (226)
..+..+. ..|.+|.
T Consensus 92 ~aL~~E~----~~ak~r~ 105 (239)
T COG1579 92 RALNIEI----QIAKERI 105 (239)
T ss_pred HHHHHHH----HHHHHHH
Confidence 4444443 3444544
No 66
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=93.40 E-value=0.2 Score=43.54 Aligned_cols=57 Identities=11% Similarity=0.146 Sum_probs=47.8
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
+.--.||++|-..++|.++.+|...+ |++|++|-..|.+|++.|.|.... ...-|..
T Consensus 25 ~r~l~IL~~~~~~~~~~tl~eIa~~l---glpkStv~RlL~tL~~~G~l~~~~--~~~~Y~l 81 (271)
T PRK10163 25 ERGIAILQYLEKSGGSSSVSDISLNL---DLPLSTTFRLLKVLQAADFVYQDS--QLGWWHI 81 (271)
T ss_pred HHHHHHHHHHHhCCCCcCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEEcC--CCCeEEe
Confidence 45567999999999999999999988 899999999999999999996653 2344655
No 67
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=93.31 E-value=2 Score=30.31 Aligned_cols=50 Identities=26% Similarity=0.384 Sum_probs=42.2
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
..+-.||.++.. +.|.+..+|...+ +++.++|.+.|..|++.|.|.....
T Consensus 10 ~~~~~il~~l~~-~~~~~~~~la~~~---~~s~~~i~~~l~~L~~~g~v~~~~~ 59 (101)
T smart00347 10 PTQFLVLRILYE-EGPLSVSELAKRL---GVSPSTVTRVLDRLEKKGLIRRLPS 59 (101)
T ss_pred HHHHHHHHHHHH-cCCcCHHHHHHHH---CCCchhHHHHHHHHHHCCCeEecCC
Confidence 456678888886 4589999998877 7899999999999999999987754
No 68
>PF05584 Sulfolobus_pRN: Sulfolobus plasmid regulatory protein; InterPro: IPR008848 This family consists of several plasmid regulatory proteins from the extreme thermophilic and acidophilic archaea Sulfolobus.
Probab=93.20 E-value=0.71 Score=32.15 Aligned_cols=56 Identities=20% Similarity=0.301 Sum_probs=44.4
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee--ecC--ceeEEEee
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK--EYG--KQKIYIAR 69 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K--~~G--K~kiY~~~ 69 (226)
.+.|+-++-.. -.++.++... .||++..+.-.|-.|+++|+|.-+ .|| |-.+||..
T Consensus 7 ~~~IL~~ls~~--c~TLeeL~ek---Tgi~k~~LlV~LsrL~k~GiI~Rkw~~~~gkk~R~YclK 66 (72)
T PF05584_consen 7 TQKILIILSKR--CCTLEELEEK---TGISKNTLLVYLSRLAKRGIIERKWRKFGGKKYREYCLK 66 (72)
T ss_pred HHHHHHHHHhc--cCCHHHHHHH---HCCCHHHHHHHHHHHHHCCCeeeeeEEecCeEEEEEEec
Confidence 45677776644 7776666554 489999999999999999999999 776 66888873
No 69
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=93.18 E-value=0.22 Score=36.61 Aligned_cols=47 Identities=26% Similarity=0.514 Sum_probs=38.6
Q ss_pred chHHHHHHHHHHh---cCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCc
Q 027236 6 DNTEAIVLNYVNE---QNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKI 55 (226)
Q Consensus 6 ~ea~~~Il~y~~~---~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i 55 (226)
.....+||+|++. ...-.++.+|..-| +++...|.++|+.|+++|.|
T Consensus 46 ~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l---~~~~~~v~~al~~L~~eG~I 95 (102)
T PF08784_consen 46 SPLQDKVLNFIKQQPNSEEGVHVDEIAQQL---GMSENEVRKALDFLSNEGHI 95 (102)
T ss_dssp -HHHHHHHHHHHC----TTTEEHHHHHHHS---TS-HHHHHHHHHHHHHTTSE
T ss_pred CHHHHHHHHHHHhcCCCCCcccHHHHHHHh---CcCHHHHHHHHHHHHhCCeE
Confidence 4568999999999 44557888888877 79999999999999999987
No 70
>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins. The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.
Probab=93.17 E-value=2.7 Score=41.65 Aligned_cols=68 Identities=29% Similarity=0.425 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--c--------------cCCH---HHHHHHHHHHHHHHHHHHHH
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQ--S--------------NLTL---EQIREKEAQLVKEVKEMENK 138 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~--~--------------~~t~---~el~~~i~~L~~e~~~l~~k 138 (226)
.+.+..+..++.+|+.++..|..++..|+.+|..+. + .|+. .-....+..|+.|+..|..+
T Consensus 502 ~e~~~~L~~~~~~Le~e~~~L~~~~~~Le~~l~~~~L~g~~~~~~trVL~lr~NP~~~~~~~k~~~l~~L~~En~~L~~~ 581 (722)
T PF05557_consen 502 SEELNELQKEIEELERENERLRQELEELESELEKLTLQGEFNPSKTRVLHLRDNPTSKAEQIKKSTLEALQAENEDLLAR 581 (722)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCT--BTTTEEEEEESS-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCCCceeeeeCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466788899999999999999999999999998732 1 1222 12346789999999999999
Q ss_pred HHHhhCC
Q 027236 139 LAKLRGG 145 (226)
Q Consensus 139 L~~l~~~ 145 (226)
|..+..+
T Consensus 582 l~~le~~ 588 (722)
T PF05557_consen 582 LRSLEEG 588 (722)
T ss_dssp HHHHTTT
T ss_pred HHhcccC
Confidence 9888754
No 71
>PF02295 z-alpha: Adenosine deaminase z-alpha domain; InterPro: IPR000607 Double-stranded RNA-specific adenosine deaminase (3.5 from EC) converts multiple adenosines to inosines and creates I/U mismatched base pairs in double-helical RNA substrates without apparent sequence specificity. DRADA has been found to modify adenosines in AU-rich regions more frequently, probably due to the relative ease of melting A/U base pairs compared to G/C base pairs. The protein functions to modify viral RNA genomes, and may be responsible for hypermutation of certain negative-stranded viruses. DRADA edits the mRNAs for the glutamate receptor subunits by site-selective adenosine deamination. The DRADA repeat is also found in viral E3 proteins, which contain a double-stranded RNA-binding domain.; GO: 0003723 RNA binding, 0003726 double-stranded RNA adenosine deaminase activity; PDB: 1OYI_A 3EYI_A 2L4M_A 2HEO_D 1J75_A 1SFU_B 3IRR_B 2ACJ_C 3F22_B 2L54_A ....
Probab=93.09 E-value=0.3 Score=33.42 Aligned_cols=50 Identities=22% Similarity=0.392 Sum_probs=42.3
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
+-++.|++||.... |-++..+..+++ .+++|..|-.+|=+|..+|+|.+.
T Consensus 4 ~~ee~Il~~L~~~g-~~~a~~ia~~~~-L~~~kk~VN~~LY~L~k~g~v~k~ 53 (66)
T PF02295_consen 4 DLEEKILDFLKELG-GSTATAIAKALG-LSVPKKEVNRVLYRLEKQGKVCKE 53 (66)
T ss_dssp HHHHHHHHHHHHHT-SSEEEHHHHHHH-HTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred hHHHHHHHHHHhcC-CccHHHHHHHhC-cchhHHHHHHHHHHHHHCCCEeeC
Confidence 56789999999999 888888888774 356799999999999999999753
No 72
>PRK11637 AmiB activator; Provisional
Probab=92.90 E-value=5.9 Score=36.64 Aligned_cols=63 Identities=11% Similarity=0.306 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
.+++..+..++.+++.++..++.+++.+..++..+...+ ..+...|..++.++..++.++..+
T Consensus 46 ~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi--~~~~~~i~~~~~~i~~~~~ei~~l 108 (428)
T PRK11637 46 RDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAI--SQASRKLRETQNTLNQLNKQIDEL 108 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666666666666666666666555432 223444444444444444444443
No 73
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=92.81 E-value=0.27 Score=37.67 Aligned_cols=56 Identities=21% Similarity=0.374 Sum_probs=43.8
Q ss_pred HHHHHHHHHhc-CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 9 EAIVLNYVNEQ-NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 9 ~~~Il~y~~~~-nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
--.|+.||-.. +.|.|+.+|.+.+ +++.+.|.++|..|+..|+|... -|..--|..
T Consensus 11 al~~l~~la~~~~~~~s~~eia~~l---~is~~~v~~~l~~L~~~Gli~~~-~g~~ggy~l 67 (130)
T TIGR02944 11 ATLVLTTLAQNDSQPYSAAEIAEQT---GLNAPTVSKILKQLSLAGIVTSK-RGVEGGYTL 67 (130)
T ss_pred HHHHHHHHHhCCCCCccHHHHHHHH---CcCHHHHHHHHHHHHHCCcEEec-CCCCCChhh
Confidence 34567777654 5689999998888 89999999999999999999764 344445655
No 74
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=92.71 E-value=2.7 Score=31.45 Aligned_cols=81 Identities=22% Similarity=0.365 Sum_probs=49.5
Q ss_pred cccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027236 36 NLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEE-LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQS 114 (226)
Q Consensus 36 ~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee-~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~ 114 (226)
..+...+++..|.||.+|.+. .++ ..-.+.-+.+.+.+-.++... ....+..+.+
T Consensus 20 a~~~ek~~klvDelVkkGeln---------------------~eEak~~vddl~~q~k~~~~e~e~K---~~r~i~~ml~ 75 (108)
T COG3937 20 AETAEKVQKLVDELVKKGELN---------------------AEEAKRFVDDLLRQAKEAQGELEEK---IPRKIEEMLS 75 (108)
T ss_pred HHHHHHHHHHHHHHHHcCCCC---------------------HHHHHHHHHHHHHHHHHHhhhHHHh---hhHHHHHHHh
Confidence 356778999999999999874 233 333344444444433333322 2233333333
Q ss_pred c------CCHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 115 N------LTLEQIREKEAQLVKEVKEMENKLA 140 (226)
Q Consensus 115 ~------~t~~el~~~i~~L~~e~~~l~~kL~ 140 (226)
. -+..++...|..|++++..|++++.
T Consensus 76 ~~~~~r~~~~~~l~~rvd~Lerqv~~Lenk~k 107 (108)
T COG3937 76 DLEVARQSEMDELTERVDALERQVADLENKLK 107 (108)
T ss_pred hccccccchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 2 2237888889999999999988763
No 75
>PRK10884 SH3 domain-containing protein; Provisional
Probab=92.67 E-value=4.4 Score=33.98 Aligned_cols=58 Identities=14% Similarity=0.207 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+..++.+++++++++.++..+.....+++..-. .+....+.+|+.+++.|.++|..++
T Consensus 95 lp~le~el~~l~~~l~~~~~~~~~~~~~l~~~~-----~~~~~~~~~L~~~n~~L~~~l~~~~ 152 (206)
T PRK10884 95 VPDLENQVKTLTDKLNNIDNTWNQRTAEMQQKV-----AQSDSVINGLKEENQKLKNQLIVAQ 152 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566677777777777666666554444443322 2345556667777777777776655
No 76
>PRK11637 AmiB activator; Provisional
Probab=92.59 E-value=3.4 Score=38.25 Aligned_cols=59 Identities=17% Similarity=0.348 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 83 QMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 83 ~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
....++.+++.++..++.++..++.++..+... ...+..+|..+..++..++.+|..+.
T Consensus 44 ~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~--l~~l~~qi~~~~~~i~~~~~~i~~~~ 102 (428)
T PRK11637 44 DNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQ--LKKQEEAISQASRKLRETQNTLNQLN 102 (428)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666666666666666655544 23455566666666666666665544
No 77
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=92.49 E-value=2.1 Score=35.35 Aligned_cols=22 Identities=32% Similarity=0.424 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027236 151 PEDRMAVEEMFLEKLSQWRKRK 172 (226)
Q Consensus 151 ~ee~~~~~~~~~~~~~~w~kRk 172 (226)
.+...+++.+......+|-+++
T Consensus 164 e~k~~~l~~En~~Lv~Rwm~~k 185 (194)
T PF08614_consen 164 EEKLRKLEEENRELVERWMQRK 185 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3456678888899999999986
No 78
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=92.47 E-value=0.38 Score=38.46 Aligned_cols=57 Identities=12% Similarity=0.339 Sum_probs=47.9
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEE
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIY 66 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY 66 (226)
++=-..|+.+.. .+-|-..+||...| +|+.++|.+.|..|...|+|....||....+
T Consensus 9 edYL~~Iy~l~~-~~~~~~~~diA~~L---~Vsp~sVt~ml~rL~~~GlV~~~~y~gi~LT 65 (154)
T COG1321 9 EDYLETIYELLE-EKGFARTKDIAERL---KVSPPSVTEMLKRLERLGLVEYEPYGGVTLT 65 (154)
T ss_pred HHHHHHHHHHHh-ccCcccHHHHHHHh---CCCcHHHHHHHHHHHHCCCeEEecCCCeEEC
Confidence 455566777777 66677788998888 7999999999999999999999999987665
No 79
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=92.46 E-value=0.42 Score=29.45 Aligned_cols=34 Identities=32% Similarity=0.565 Sum_probs=30.1
Q ss_pred CCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 22 PLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 22 Pys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
|.+..+|.+.+ +++.++|.++|..|.+.|.|...
T Consensus 8 ~~s~~~la~~l---~~s~~tv~~~l~~L~~~g~l~~~ 41 (48)
T smart00419 8 PLTRQEIAELL---GLTRETVSRTLKRLEKEGLISRE 41 (48)
T ss_pred ccCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEe
Confidence 67888888877 79999999999999999999754
No 80
>COG1777 Predicted transcriptional regulators [Transcription]
Probab=92.28 E-value=3.4 Score=34.73 Aligned_cols=48 Identities=19% Similarity=0.344 Sum_probs=40.2
Q ss_pred cchHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcce
Q 027236 5 SDNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISF 57 (226)
Q Consensus 5 g~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~ 57 (226)
|.+-+-.|+..+. ++||=+.++..-+ ||+-++|.+.|+-|...|+|.+
T Consensus 13 GNetRR~Il~lLt--~~p~yvsEiS~~l---gvsqkAVl~HL~~LE~AGlveS 60 (217)
T COG1777 13 GNETRRRILQLLT--RRPCYVSEISREL---GVSQKAVLKHLRILERAGLVES 60 (217)
T ss_pred cCcHHHHHHHHHh--cCchHHHHHHhhc---CcCHHHHHHHHHHHHHcCCchh
Confidence 4566778888876 8897766666555 8999999999999999999999
No 81
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=92.18 E-value=0.55 Score=30.55 Aligned_cols=47 Identities=15% Similarity=0.346 Sum_probs=38.4
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceee
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKE 59 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~ 59 (226)
+-.||.++. ++.|-+..+|...+ +++++++..+++.|++.|+|....
T Consensus 5 q~~iL~~l~-~~~~~~~~~la~~~---~~~~~~~t~~i~~L~~~g~I~r~~ 51 (59)
T PF01047_consen 5 QFRILRILY-ENGGITQSELAEKL---GISRSTVTRIIKRLEKKGLIERER 51 (59)
T ss_dssp HHHHHHHHH-HHSSEEHHHHHHHH---TS-HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHH-HcCCCCHHHHHHHH---CCChhHHHHHHHHHHHCCCEEecc
Confidence 346777776 46679999998888 799999999999999999998653
No 82
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=92.17 E-value=1.6 Score=32.72 Aligned_cols=57 Identities=11% Similarity=0.166 Sum_probs=45.6
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC---ceeEEEe
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG---KQKIYIA 68 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G---K~kiY~~ 68 (226)
.+-.||.++.. +.|-+..+|.+.+ ++++++|...|+.|..+|+|...... ..++|..
T Consensus 29 ~q~~iL~~l~~-~~~~t~~ela~~~---~~~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~L 88 (118)
T TIGR02337 29 QQWRILRILAE-QGSMEFTQLANQA---CILRPSLTGILARLERDGLVTRLKASNDQRRVYISL 88 (118)
T ss_pred HHHHHHHHHHH-cCCcCHHHHHHHh---CCCchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEE
Confidence 34468888765 6688999999888 79999999999999999999988764 4445544
No 83
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=92.11 E-value=0.41 Score=36.59 Aligned_cols=54 Identities=17% Similarity=0.238 Sum_probs=41.4
Q ss_pred HHHHHHHhc--CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 11 IVLNYVNEQ--NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 11 ~Il~y~~~~--nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.++-|+... ..|.|..+|...+ +++.+.|.++|+.|+..|+|.... |..--|..
T Consensus 12 ~~l~~la~~~~~~~~s~~eia~~~---~i~~~~v~~il~~L~~~gli~~~~-g~~ggy~l 67 (132)
T TIGR00738 12 RALLDLALNPDEGPVSVKEIAERQ---GISRSYLEKILRTLRRAGLVESVR-GPGGGYRL 67 (132)
T ss_pred HHHHHHHhCCCCCcCcHHHHHHHH---CcCHHHHHHHHHHHHHCCcEEecc-CCCCCccC
Confidence 455555543 2399999998888 799999999999999999998753 54435655
No 84
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=92.04 E-value=0.59 Score=36.46 Aligned_cols=52 Identities=12% Similarity=0.305 Sum_probs=40.9
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
++--..|+.++. ++.|-++.+|...| +|++++|..+|+.|.+.|+|....++
T Consensus 7 edyL~~I~~l~~-~~~~~~~~ela~~l---~vs~~svs~~l~~L~~~Gli~~~~~~ 58 (142)
T PRK03902 7 EDYIEQIYLLIE-EKGYARVSDIAEAL---SVHPSSVTKMVQKLDKDEYLIYEKYR 58 (142)
T ss_pred HHHHHHHHHHHh-cCCCcCHHHHHHHh---CCChhHHHHHHHHHHHCCCEEEecCc
Confidence 455566666665 45566888898888 79999999999999999999866543
No 85
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=91.90 E-value=0.99 Score=29.52 Aligned_cols=49 Identities=12% Similarity=0.242 Sum_probs=35.0
Q ss_pred hHHHHHHHHHHhc----CCC-CcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 7 NTEAIVLNYVNEQ----NRP-LNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 7 ea~~~Il~y~~~~----nrP-ys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
+..+.|..++... +.+ .+..+|.+.+ +++.++|.++|..|.+.|.|...
T Consensus 5 ~~~~~i~~~i~~~~~~~~~~~~~~~~la~~~---~is~~~v~~~l~~L~~~G~i~~~ 58 (66)
T cd07377 5 QIADQLREAILSGELKPGDRLPSERELAEEL---GVSRTTVREALRELEAEGLVERR 58 (66)
T ss_pred HHHHHHHHHHHcCCCCCCCCCCCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEec
Confidence 3445555554432 222 3488887777 79999999999999999997644
No 86
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=91.86 E-value=0.35 Score=33.06 Aligned_cols=46 Identities=13% Similarity=0.298 Sum_probs=36.2
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
.|.+|+. .+..+|+.+|...+ +++..+|...|+.|+..|.|..-..
T Consensus 4 ~i~~~l~-~~~~~S~~eLa~~~---~~s~~~ve~mL~~l~~kG~I~~~~~ 49 (69)
T PF09012_consen 4 EIRDYLR-ERGRVSLAELAREF---GISPEAVEAMLEQLIRKGYIRKVDM 49 (69)
T ss_dssp HHHHHHH-HS-SEEHHHHHHHT---T--HHHHHHHHHHHHCCTSCEEEEE
T ss_pred HHHHHHH-HcCCcCHHHHHHHH---CcCHHHHHHHHHHHHHCCcEEEecC
Confidence 5778887 46678998998877 7999999999999999999986544
No 87
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=91.75 E-value=2.2 Score=29.44 Aligned_cols=59 Identities=22% Similarity=0.271 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH-----HHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL-----EQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~-----~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
|+..+..|+..+..+...+......++.|...-+. .++-..+..|+.++..+...|+.+
T Consensus 3 Lea~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~ 66 (69)
T PF14197_consen 3 LEAEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELEEL 66 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45566666666666666666666666666653222 334445555666666666655544
No 88
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=91.52 E-value=1.6 Score=40.59 Aligned_cols=66 Identities=29% Similarity=0.385 Sum_probs=50.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNL-TLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~-t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
-+++..++.+..+++.++..|+.+.+.+..++..+.... ..+++.++..++.+++.++++++..+.
T Consensus 27 vd~i~~ld~~~r~l~~~~~~lr~~rn~~sk~i~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~ 93 (425)
T PRK05431 27 VDELLELDEERRELQTELEELQAERNALSKEIGQAKRKGEDAEALIAEVKELKEEIKALEAELDELE 93 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467778899999999999999999999999998865554 445677777777777777766665544
No 89
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=91.44 E-value=0.5 Score=40.51 Aligned_cols=56 Identities=14% Similarity=0.262 Sum_probs=45.1
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
+.--.||++|-.. +|.++.+|...+ |++|++|-..|.+|++.|.|... +...-|..
T Consensus 14 ~r~l~IL~~l~~~-~~l~l~eia~~l---gl~kstv~Rll~tL~~~G~l~~~--~~~~~Y~l 69 (257)
T PRK15090 14 LKVFGILQALGEE-REIGITELSQRV---MMSKSTVYRFLQTMKTLGYVAQE--GESEKYSL 69 (257)
T ss_pred HHHHHHHHHhhcC-CCCCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEEc--CCCCcEEe
Confidence 4455789999764 699999999988 89999999999999999999875 22333555
No 90
>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=91.40 E-value=3.4 Score=32.56 Aligned_cols=90 Identities=23% Similarity=0.337 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-------C-HHHHHHHHHHHHHHHHHHHHHHHHhhCC--CCCCCH
Q 027236 82 NQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNL-------T-LEQIREKEAQLVKEVKEMENKLAKLRGG--VTLVKP 151 (226)
Q Consensus 82 ~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~-------t-~~el~~~i~~L~~e~~~l~~kL~~l~~~--~~~vs~ 151 (226)
...+.+|..|+..+..+..++..+...|..+...+ + ++.|...|..|+.++...+.+|...... ..-+.+
T Consensus 31 ~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~a 110 (143)
T PF12718_consen 31 EQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQLLEEELEEAEKKLKETTEKLREADVKA 110 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444555555555555555555555555444432 2 2445556666666666666655443221 111234
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027236 152 EDRMAVEEMFLEKLSQWRKR 171 (226)
Q Consensus 152 ee~~~~~~~~~~~~~~w~kR 171 (226)
+.+.+-...+..-...|=.|
T Consensus 111 e~~eRkv~~le~~~~~~E~k 130 (143)
T PF12718_consen 111 EHFERKVKALEQERDQWEEK 130 (143)
T ss_pred HHHHHHHHHHHhhHHHHHHH
Confidence 44444444555555566665
No 91
>PRK10870 transcriptional repressor MprA; Provisional
Probab=91.37 E-value=6.7 Score=31.77 Aligned_cols=53 Identities=21% Similarity=0.271 Sum_probs=43.9
Q ss_pred hHHHHHHHHHHhc-CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCc
Q 027236 7 NTEAIVLNYVNEQ-NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 7 ea~~~Il~y~~~~-nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
..+-.||.++... +.|-+..+|...+ ++++++|..+++.|+..|+|....-+.
T Consensus 55 ~~q~~iL~~L~~~~~~~it~~eLa~~l---~l~~~tvsr~v~rLe~kGlV~R~~~~~ 108 (176)
T PRK10870 55 ETLFMALITLESQENHSIQPSELSCAL---GSSRTNATRIADELEKRGWIERRESDN 108 (176)
T ss_pred HHHHHHHHHHhcCCCCCcCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEecCCCC
Confidence 3455677777754 5678889999988 799999999999999999999887754
No 92
>PF07381 DUF1495: Winged helix DNA-binding domain (DUF1495); InterPro: IPR010863 This family consists of several hypothetical archaeal proteins of around 110 residues in length. The function of this family is unknown, although one sequence (Q8U3W1 from SWISSPROT) is described as a putative HTH transcription regulator.
Probab=91.12 E-value=1.4 Score=32.00 Aligned_cols=63 Identities=24% Similarity=0.306 Sum_probs=51.9
Q ss_pred hHHHHHHHHHHhc-CCCCcHHHHHHHHhcccccHHHHHHHH----------HHHHHcCCc-ceeecCceeEEEeecCC
Q 027236 7 NTEAIVLNYVNEQ-NRPLNSQNVADALQKYNLKKAGIQKAL----------DSLADNGKI-SFKEYGKQKIYIARQDQ 72 (226)
Q Consensus 7 ea~~~Il~y~~~~-nrPys~~di~~~l~~~~v~K~~v~k~L----------~~Lv~~g~i-~~K~~GK~kiY~~~Q~~ 72 (226)
..+..||.||.+. -+|+.+.+|.... ++.-+.|.-|| ++|+.-|+| .+...+-.++|-..+..
T Consensus 9 ~~R~~vl~~L~~~yp~~~~~~eIar~v---~~~~snV~GaL~G~g~rY~~e~SLv~lGLV~~~~~~~g~k~Y~lT~~G 83 (90)
T PF07381_consen 9 KVRKKVLEYLCSIYPEPAYPSEIARSV---GSDYSNVLGALRGDGKRYNKEDSLVGLGLVEEEEEKGGFKYYRLTEKG 83 (90)
T ss_pred HHHHHHHHHHHHcCCCcCCHHHHHHHH---CCCHHHHHHHHhcCCCCcCcchhHHHcCCeeEeeecCCeeEEEeChhh
Confidence 4678999999999 8899999998877 67888888888 579999999 66676888888774443
No 93
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=90.92 E-value=2.1 Score=31.77 Aligned_cols=57 Identities=21% Similarity=0.420 Sum_probs=44.9
Q ss_pred HHHHHHHHH--hc-CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCce--eEEEe
Q 027236 9 EAIVLNYVN--EQ-NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQ--KIYIA 68 (226)
Q Consensus 9 ~~~Il~y~~--~~-nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~--kiY~~ 68 (226)
+-.||.++. .. ..|-+.++|...+ ++.+++|.++++.|++.|.|.-..-..- .+|+.
T Consensus 27 q~~vL~~l~~~~~~~~~~t~~eL~~~l---~~~~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~ 88 (109)
T TIGR01889 27 ELLILYYLGKLENNEGKLTLKEIIKEI---LIKQSALVKIIKKLSKKGYLSKERSEDDERKVIIS 88 (109)
T ss_pred HHHHHHHHHhhhccCCcCcHHHHHHHH---CCCHHHHHHHHHHHHHCCCEeccCCcccCCeEEEE
Confidence 345677766 33 3679999999988 7999999999999999999998777643 45544
No 94
>PF07848 PaaX: PaaX-like protein; InterPro: IPR012906 This entry describes the N-terminal region of proteins that are similar to, and nclude, the product of the paaX gene of Escherichia coli (P76086 from SWISSPROT). PaaX is a transcriptional regulator that is always found in association with operons believed to be involved in the degradation of phenylacetic acid []. The gene product has been shown to bind to the promoter sites and repress their transcription []. ; PDB: 3KFW_X 3L09_B.
Probab=90.90 E-value=0.59 Score=32.37 Aligned_cols=55 Identities=15% Similarity=0.320 Sum_probs=45.8
Q ss_pred HHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 14 NYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 14 ~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
+|+.....|.++.++...+...||+-++|--+|--|+.+|.|....-|...+|-.
T Consensus 12 dy~~~~g~~i~~~~Li~ll~~~Gv~e~avR~alsRl~~~G~L~~~r~Gr~~~Y~L 66 (70)
T PF07848_consen 12 DYLRPRGGWIWVASLIRLLAAFGVSESAVRTALSRLVRRGWLESERRGRRSYYRL 66 (70)
T ss_dssp HHCCTTTS-EEHHHHHHHHCCTT--HHHHHHHHHHHHHTTSEEEECCCTEEEEEE
T ss_pred HHhccCCCceeHHHHHHHHHHcCCChHHHHHHHHHHHHcCceeeeecCccceEee
Confidence 3445566777899999999888999999999999999999999999999998865
No 95
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=90.86 E-value=3.9 Score=32.76 Aligned_cols=55 Identities=24% Similarity=0.293 Sum_probs=42.2
Q ss_pred HHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcce---e--ecCceeEEEe
Q 027236 10 AIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISF---K--EYGKQKIYIA 68 (226)
Q Consensus 10 ~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~---K--~~GK~kiY~~ 68 (226)
-.|++.+.. ..+.+--+|...| |++...|-++|..|.++|+|.. + .-|-..+||.
T Consensus 17 v~Vl~aL~~-~~~~tdEeLa~~L---gi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~ 76 (158)
T TIGR00373 17 GLVLFSLGI-KGEFTDEEISLEL---GIKLNEVRKALYALYDAGLADYKRRKDDETGWYEYTWR 76 (158)
T ss_pred HHHHHHHhc-cCCCCHHHHHHHH---CCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEEE
Confidence 445665553 3378988888877 8999999999999999999932 2 2366788887
No 96
>PLN02678 seryl-tRNA synthetase
Probab=90.81 E-value=2.1 Score=40.18 Aligned_cols=65 Identities=23% Similarity=0.334 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNL-TLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~-t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+++..++.+..+++.++..++.+.+.+..++..+.... ..+++.++..+|.+++..++.++..+.
T Consensus 33 d~il~ld~~~r~l~~~~e~lr~erN~~sk~I~~~k~~~~~~~~l~~~~~~Lk~ei~~le~~~~~~~ 98 (448)
T PLN02678 33 DEVIALDKEWRQRQFELDSLRKEFNKLNKEVAKLKIAKEDATELIAETKELKKEITEKEAEVQEAK 98 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66778889999999999999999999999998755443 346676666677666666666665543
No 97
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=90.79 E-value=3.8 Score=39.57 Aligned_cols=16 Identities=13% Similarity=0.268 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 027236 124 KEAQLVKEVKEMENKL 139 (226)
Q Consensus 124 ~i~~L~~e~~~l~~kL 139 (226)
++.+++.+|..|+.+|
T Consensus 475 ei~~~~~~I~~L~~~L 490 (652)
T COG2433 475 EIRARDRRIERLEKEL 490 (652)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444555554444
No 98
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=90.67 E-value=0.56 Score=27.44 Aligned_cols=31 Identities=32% Similarity=0.607 Sum_probs=25.9
Q ss_pred CCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCc
Q 027236 22 PLNSQNVADALQKYNLKKAGIQKALDSLADNGKI 55 (226)
Q Consensus 22 Pys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i 55 (226)
|.+-+||.+.+ |.+..+|-++|..|..+|+|
T Consensus 2 ~mtr~diA~~l---G~t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 2 PMTRQDIADYL---GLTRETVSRILKKLERQGLI 32 (32)
T ss_dssp E--HHHHHHHH---TS-HHHHHHHHHHHHHTTSE
T ss_pred CcCHHHHHHHh---CCcHHHHHHHHHHHHHcCCC
Confidence 67889999988 89999999999999999986
No 99
>PF14282 FlxA: FlxA-like protein
Probab=90.56 E-value=2.2 Score=31.90 Aligned_cols=52 Identities=19% Similarity=0.413 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--cCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRTLQS--NLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~l~~--~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+..|..|+.++..|..+ |..|.. .++.++....+..|+.+|..|+..|..+.
T Consensus 18 ~~~I~~L~~Qi~~Lq~q-------l~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq 71 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQ-------LQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQLQ 71 (106)
T ss_pred HHHHHHHHHHHHHHHHH-------HHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555544444444 444444 36777788888888888888888887765
No 100
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=90.39 E-value=4 Score=27.85 Aligned_cols=62 Identities=24% Similarity=0.289 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+..+..+++.|-..+..|+.+...|..++..+.+. +..|..+.+.-...+..+-++|..+..
T Consensus 2 L~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~E--R~~L~ekne~Ar~rvEamI~RLk~leq 63 (65)
T TIGR02449 2 LQALAAQVEHLLEYLERLKSENRLLRAQEKTWREE--RAQLLEKNEQARQKVEAMITRLKALEQ 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence 45677888888888888888888888888877753 567778888888888888888877653
No 101
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=90.33 E-value=0.59 Score=31.98 Aligned_cols=33 Identities=30% Similarity=0.581 Sum_probs=30.3
Q ss_pred CCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcc
Q 027236 21 RPLNSQNVADALQKYNLKKAGIQKALDSLADNGKIS 56 (226)
Q Consensus 21 rPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~ 56 (226)
-|+|-++|.+.+ |++..+|.++|..|.++|.|.
T Consensus 27 ~~lt~~~iA~~~---g~sr~tv~r~l~~l~~~g~I~ 59 (76)
T PF13545_consen 27 LPLTQEEIADML---GVSRETVSRILKRLKDEGIIE 59 (76)
T ss_dssp EESSHHHHHHHH---TSCHHHHHHHHHHHHHTTSEE
T ss_pred ecCCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEE
Confidence 478999998888 899999999999999999888
No 102
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=90.23 E-value=2.5 Score=39.14 Aligned_cols=65 Identities=25% Similarity=0.397 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC--HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLT--LEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t--~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+++..++.+..++..++..++.+...+..++..+..... .+++.++..++.+++.+++.++..+.
T Consensus 30 d~i~~ld~~~r~~~~~~~~l~~erN~~sk~i~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~ 96 (418)
T TIGR00414 30 EKLIALDDERKKLLSEIEELQAKRNELSKQIGKAKGQKKDKIEEIKKELKELKEELTELSAALKALE 96 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667788899999999999999999999999988655433 45777777777777777766665543
No 103
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=90.21 E-value=1.4 Score=36.52 Aligned_cols=58 Identities=24% Similarity=0.287 Sum_probs=48.3
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
...+-.||.|+... .|-+..+|.+.+ ++++++|.+.|+.|.+.|+|.... +..+.|..
T Consensus 142 s~~~~~IL~~l~~~-g~~s~~eia~~l---~is~stv~r~L~~Le~~GlI~r~~-~r~~~~~l 199 (203)
T TIGR01884 142 SREELKVLEVLKAE-GEKSVKNIAKKL---GKSLSTISRHLRELEKKGLVEQKG-RKGKRYSL 199 (203)
T ss_pred CHHHHHHHHHHHHc-CCcCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEEEc-CCccEEEe
Confidence 56677999999854 567999999888 799999999999999999999886 46666665
No 104
>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=90.14 E-value=3.5 Score=28.75 Aligned_cols=61 Identities=28% Similarity=0.432 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+..-|..|..|+++-..|....-.+...+..|+.. +.++...+..+...+......+..++
T Consensus 7 l~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~--~~e~e~~~~~l~~~~~~~e~~~~~l~ 67 (74)
T PF12329_consen 7 LAEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAK--IKELEKQIKELKKKLEELEKELESLE 67 (74)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55667888888888888877777777777777754 23444555555555555555554443
No 105
>PRK00215 LexA repressor; Validated
Probab=90.13 E-value=1.2 Score=36.85 Aligned_cols=57 Identities=21% Similarity=0.362 Sum_probs=44.9
Q ss_pred HHHHHHHHHH----hcCCCCcHHHHHHHHhcccc-cHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 8 TEAIVLNYVN----EQNRPLNSQNVADALQKYNL-KKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 8 a~~~Il~y~~----~~nrPys~~di~~~l~~~~v-~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.+..||.|+. ..+.|-++.+|.+.+ |+ ++++|...|..|.+.|.|....-+ ...+..
T Consensus 5 ~q~~il~~i~~~~~~~~~~~s~~ela~~~---~~~~~~tv~~~l~~L~~~g~i~~~~~~-~r~~~l 66 (205)
T PRK00215 5 RQQEILDFIRDHIEETGYPPSRREIADAL---GLRSPSAVHEHLKALERKGFIRRDPGR-SRAIEV 66 (205)
T ss_pred HHHHHHHHHHHHHHHhCCCCCHHHHHHHh---CCCChHHHHHHHHHHHHCCCEEeCCCC-cceEEe
Confidence 4556677665 457899999999888 89 999999999999999999776644 444444
No 106
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=89.63 E-value=13 Score=35.00 Aligned_cols=81 Identities=10% Similarity=0.133 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhC--CCCCCCHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHH
Q 027236 119 EQIREKEAQLVKEVKEMENKLAKLRG--GVTLVKPEDRMAVEEM--------------FLEKLSQWRKRKRMLRDIWDPI 182 (226)
Q Consensus 119 ~el~~~i~~L~~e~~~l~~kL~~l~~--~~~~vs~ee~~~~~~~--------------~~~~~~~w~kRkri~~~i~~~i 182 (226)
..|..+|..-+.+++.|+++...|+. ....+|+++++....+ ..+..+.-.+|++-+..+++.+
T Consensus 333 ~kl~~eie~kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~k~V~~~~leaq~~~~sl 412 (622)
T COG5185 333 EKLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQGIFKSL 412 (622)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHHHHHHHHHHH
Confidence 33444444444444444444444432 1245888877754332 3445566667776666555554
Q ss_pred HhcCCCCHHHHHHHhCcc
Q 027236 183 MENSPKNLKEFKEELGIE 200 (226)
Q Consensus 183 ~e~~~~~~k~l~e~lGie 200 (226)
...+- .-+-+...+|+-
T Consensus 413 ek~~~-~~~sl~~~i~~~ 429 (622)
T COG5185 413 EKTLR-QYDSLIQNITRS 429 (622)
T ss_pred HHHHH-HHHHHHHHhccc
Confidence 44321 123455555554
No 107
>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans. Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.
Probab=89.54 E-value=9.6 Score=30.63 Aligned_cols=102 Identities=20% Similarity=0.292 Sum_probs=63.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN--LTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMA 156 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~--~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~ 156 (226)
.++..+......|..+...-+...+..+.++-.+.-. -...+|...+.+|+.++..|+.++..+..-.....+. -..
T Consensus 50 ~e~~~L~~d~e~L~~q~~~ek~~r~~~e~~l~~~Ed~~~~e~k~L~~~v~~Le~e~r~L~~~~~~~~~q~~rlee~-e~~ 128 (158)
T PF09744_consen 50 VELELLREDNEQLETQYEREKELRKQAEEELLELEDQWRQERKDLQSQVEQLEEENRQLELKLKNLSDQSSRLEER-EAE 128 (158)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccchh-HHH
Confidence 4566667777777777766666666666666544322 3446788899999999999998887766432222222 223
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 157 VEEMFLEKLSQWRKRKRMLRDIWDP 181 (226)
Q Consensus 157 ~~~~~~~~~~~w~kRkri~~~i~~~ 181 (226)
+...+...+.+.+.=.+..++.++.
T Consensus 129 l~~e~~~l~er~~e~l~~~~e~ver 153 (158)
T PF09744_consen 129 LKKEYNRLHERERELLRKLKEHVER 153 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666655554445555554
No 108
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=89.32 E-value=1.3 Score=38.54 Aligned_cols=60 Identities=22% Similarity=0.373 Sum_probs=48.7
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.+.+..|++|+.++.-=-.-.|+-..+ |++|+.|-++|..|...|+|.-.+.|+.+++-.
T Consensus 194 ~~~e~~il~~i~~~GGri~Q~eL~r~l---glsktTvsR~L~~LEk~GlIe~~K~G~~n~V~l 253 (258)
T COG2512 194 NEDEKEILDLIRERGGRITQAELRRAL---GLSKTTVSRILRRLEKRGLIEKEKKGRTNIVEL 253 (258)
T ss_pred CHHHHHHHHHHHHhCCEEeHHHHHHhh---CCChHHHHHHHHHHHhCCceEEEEeCCeeEEEE
Confidence 456677788877765544445666655 899999999999999999999999999999866
No 109
>PF05158 RNA_pol_Rpc34: RNA polymerase Rpc34 subunit; InterPro: IPR007832 The family comprises a subunit specific to RNA Pol III, the tRNA specific polymerase. The C34 subunit of Saccharomyces cerevisiae RNA Pol III is part of a subcomplex of three subunits which have no counterpart in the other two nuclear RNA polymerases. This subunit interacts with TFIIIB70 and therefore participates in Pol III recruitment [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2DK8_A 2DK5_A 2YU3_A.
Probab=89.31 E-value=1.7 Score=39.07 Aligned_cols=79 Identities=19% Similarity=0.291 Sum_probs=55.0
Q ss_pred CCCCc--chHHHHHHHHHHhc--CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEee-cCC---
Q 027236 1 MAPKS--DNTEAIVLNYVNEQ--NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIAR-QDQ--- 72 (226)
Q Consensus 1 M~~kg--~ea~~~Il~y~~~~--nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~-Q~~--- 72 (226)
|+.-+ .+.++.|++.+... .+.|+..+|...++ +.....+..+|+.|.++|+|..-.-|...+|-+. ++.
T Consensus 1 m~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~L~~~~~--~~~~~~~~~~in~Ll~~~~~~~~~~~~~l~~~~~~~~~a~k 78 (327)
T PF05158_consen 1 MASIDKLSELEKKLLELCRENPSPKGFSQEDLQQLIP--GLDLQELVKAINELLSSGLLKLLKKGGGLSYKAVSEEEAKK 78 (327)
T ss_dssp ------HHHHHHHHHHHHHH---SS-EEHHHHHHH-T--TS-HHHHHHHHHHHHHHTSEEEEE-SSSEEEEE--SSS---
T ss_pred CcccchHHHHHHHHHHHHHHhcCCCCcCHHHHHhhcC--CCCHHHHHHHHHHHHhCCCEEEEEcCCEEEEEEeCHHHHhh
Confidence 55433 68899999999998 99999999999865 6899999999999999999999997777777554 222
Q ss_pred CCCCCHHHH
Q 027236 73 FDIPNSEEL 81 (226)
Q Consensus 73 ~~~~~~ee~ 81 (226)
+..++++|.
T Consensus 79 ~~~l~~~e~ 87 (327)
T PF05158_consen 79 LKGLSDEER 87 (327)
T ss_dssp --SSSCCHH
T ss_pred hcCCCHHHH
Confidence 455556664
No 110
>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=89.29 E-value=7.8 Score=29.24 Aligned_cols=68 Identities=12% Similarity=0.317 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHH---------HH---HHHHHHHHHHHHHhcCCCC
Q 027236 122 REKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQW---------RK---RKRMLRDIWDPIMENSPKN 189 (226)
Q Consensus 122 ~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w---------~k---Rkri~~~i~~~i~e~~~~~ 189 (226)
...+.++.+++.+++.++..|..+ .++++.+-..+.+....-...| .+ |++.|.+||..+..-++.+
T Consensus 7 ~~~~~~~~~ki~~ve~~V~~l~~~-~~i~~~q~~~i~~~v~~rv~~~lgg~~s~ay~~~~~~~k~f~~i~~~lk~~F~V~ 85 (116)
T PF10552_consen 7 MQATEEHNEKIEEVENRVDDLEEN-MPIDPGQQKEIQKAVKSRVYELLGGKGSPAYKDKSFRRKLFSDIYRDLKRHFGVP 85 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHHHHHHHhccccchhhhhHHhHHHHHHHHHHHHHHhCCc
Confidence 345666777778888888777754 3567777776666544333333 44 8889999999998888775
Q ss_pred H
Q 027236 190 L 190 (226)
Q Consensus 190 ~ 190 (226)
.
T Consensus 86 s 86 (116)
T PF10552_consen 86 S 86 (116)
T ss_pred h
Confidence 3
No 111
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=89.10 E-value=6.2 Score=28.06 Aligned_cols=33 Identities=21% Similarity=0.532 Sum_probs=28.3
Q ss_pred HHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 26 QNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 26 ~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
.++.+.+ +|++++|.++|+.|++.|+|.....+
T Consensus 3 ~ela~~l---~is~stvs~~l~~L~~~glI~r~~~~ 35 (96)
T smart00529 3 SEIAERL---NVSPPTVTQMLKKLEKDGLVEYEPYR 35 (96)
T ss_pred HHHHHHh---CCChHHHHHHHHHHHHCCCEEEcCCC
Confidence 4566666 79999999999999999999998754
No 112
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=89.04 E-value=2.8 Score=34.09 Aligned_cols=23 Identities=9% Similarity=-0.090 Sum_probs=13.5
Q ss_pred cccHHHHHHHHHHHHHcCCccee
Q 027236 36 NLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 36 ~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
-++++.|-..|+.-+-.+-++.|
T Consensus 22 P~ssq~v~~~lq~e~lgktavqk 44 (201)
T KOG4603|consen 22 PYSSQDVFGNLQREHLGKTAVQK 44 (201)
T ss_pred CCchHHHHHHHHHHhccchHHHH
Confidence 46677777777766644444444
No 113
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=89.00 E-value=3.5 Score=35.81 Aligned_cols=64 Identities=14% Similarity=0.288 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHH---------------HHHHHHHHHHHHHHHHHHHHHHh
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLE---------------QIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~---------------el~~~i~~L~~e~~~l~~kL~~l 142 (226)
+.+..+..+...+..+++.++.++..-+.+|..+....+.. ...+.|..-+.+|.+|+.++..|
T Consensus 180 eki~~Lr~~y~~l~~~i~~lE~~VaeQ~~qL~~~n~~~~~~~~~~~~~~~~~~~~~~~de~I~rEeeEIreLE~k~~~L 258 (259)
T PF08657_consen 180 EKIAALRQRYNQLSNSIAYLEAEVAEQEAQLERMNRSSSDSSSDDEESEESSEDSVDTDEDIRREEEEIRELERKKREL 258 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccccccccccccccchhHHHHHHHHHHHHHHHHHHHHhc
Confidence 34677777777788888888888888888888876643332 45566777777788887777655
No 114
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=88.98 E-value=1.2 Score=29.70 Aligned_cols=36 Identities=19% Similarity=0.348 Sum_probs=28.4
Q ss_pred CC-cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 22 PL-NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 22 Py-s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
.+ |..++...+ +|+.+.|.++|..|+++|+|....-
T Consensus 23 ~lps~~~la~~~---~vsr~tvr~al~~L~~~g~i~~~~~ 59 (64)
T PF00392_consen 23 RLPSERELAERY---GVSRTTVREALRRLEAEGLIERRPG 59 (64)
T ss_dssp BE--HHHHHHHH---TS-HHHHHHHHHHHHHTTSEEEETT
T ss_pred EeCCHHHHHHHh---ccCCcHHHHHHHHHHHCCcEEEECC
Confidence 45 777777666 8999999999999999999987644
No 115
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=88.94 E-value=4.7 Score=29.08 Aligned_cols=65 Identities=29% Similarity=0.371 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC---------CHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNL---------TLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~---------t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+-...+..++..|+.++..-..-...|+.-+..-.+.. ...+|..+|+.++.+|..|+.++..|.
T Consensus 8 ~~r~~LeqeV~~Lq~~L~~E~~~r~aLe~al~~~~~~~~~~~~~lp~~~keLL~EIA~lE~eV~~LE~~v~~L~ 81 (88)
T PF14389_consen 8 ERRSALEQEVAELQKQLQEEQDLRRALEKALGRSSGSLPSSPSSLPKKAKELLEEIALLEAEVAKLEQKVLSLY 81 (88)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcccCCccccCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567788888888888877777777776665543322 338999999999999999999998875
No 116
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=88.71 E-value=10 Score=32.32 Aligned_cols=100 Identities=21% Similarity=0.372 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHH
Q 027236 90 KLQEQLEEQRKAISKLEGEIRTLQSN-LTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQW 168 (226)
Q Consensus 90 ~l~~~l~~l~~~~k~l~~el~~l~~~-~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w 168 (226)
+++.....+..-...+..++..+... .-..|+..+++.|.+|-....+.|.... +|+..++..+. ..|
T Consensus 5 ~ir~K~~~lek~k~~i~~e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~--------~DIn~lE~iIk---qa~ 73 (230)
T PF10146_consen 5 EIRNKTLELEKLKNEILQEVESLENEEKCLEEYRKEMEELLQERMAHVEELRQIN--------QDINTLENIIK---QAE 73 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHH---HHH
Confidence 34444444444444444444444433 2235666677777777777766665544 34555555554 333
Q ss_pred HHHHHHHHHHHHHHHhc-CCCC--HHHHHHH-hCccc
Q 027236 169 RKRKRMLRDIWDPIMEN-SPKN--LKEFKEE-LGIEY 201 (226)
Q Consensus 169 ~kRkri~~~i~~~i~e~-~~~~--~k~l~e~-lGie~ 201 (226)
..|.++...+ ..+.+. .+.. ..++..+ +|++.
T Consensus 74 ~er~~~~~~i-~r~~eey~~Lk~~in~~R~e~lgl~~ 109 (230)
T PF10146_consen 74 SERNKRQEKI-QRLYEEYKPLKDEINELRKEYLGLEP 109 (230)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 4444432333 222233 2221 2455556 77763
No 117
>PLN02320 seryl-tRNA synthetase
Probab=88.59 E-value=3.9 Score=38.89 Aligned_cols=65 Identities=18% Similarity=0.227 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
-+++..++.+..++..++..++.+.+.+..++.........++|.++..+|.+++.++++.+..+
T Consensus 92 vd~l~~ld~~~r~~~~~~~~lr~ern~~sk~i~~~~~~~~~~~l~~~~k~lk~~i~~le~~~~~~ 156 (502)
T PLN02320 92 LELVLELYENMLALQKEVERLRAERNAVANKMKGKLEPSERQALVEEGKNLKEGLVTLEEDLVKL 156 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47788889999999999999999999999999873333455777777777777777777766554
No 118
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=88.58 E-value=1.5 Score=34.01 Aligned_cols=49 Identities=14% Similarity=0.161 Sum_probs=41.3
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
.+-.||..+.. +.|-+..+|...+ ++++++|..+|+.|++.|+|....-
T Consensus 41 ~q~~vL~~l~~-~~~~t~~eLa~~l---~i~~~tvsr~l~~Le~~GlI~R~~~ 89 (144)
T PRK11512 41 AQFKVLCSIRC-AACITPVELKKVL---SVDLGALTRMLDRLVCKGWVERLPN 89 (144)
T ss_pred HHHHHHHHHHH-cCCCCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEeccC
Confidence 45567777764 5678889999888 7999999999999999999998765
No 119
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=88.48 E-value=1.9 Score=34.86 Aligned_cols=60 Identities=20% Similarity=0.346 Sum_probs=43.7
Q ss_pred HHHHHHHHHHhcCC-----CCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCC
Q 027236 8 TEAIVLNYVNEQNR-----PLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQF 73 (226)
Q Consensus 8 a~~~Il~y~~~~nr-----Pys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~ 73 (226)
+...|+.|+.+.-. ..|..+|.+.+ ++++++|.+++..|.+.|.|... ++.+|++|.+.+
T Consensus 56 k~~~Vl~~il~~~d~~N~v~~t~~~ia~~l---~iS~~Tv~r~ik~L~e~~iI~k~---~~G~Y~iNP~~~ 120 (165)
T PF05732_consen 56 KAFRVLMYILENMDKDNAVVATQKEIAEKL---GISKPTVSRAIKELEEKNIIKKI---RNGAYMINPNFF 120 (165)
T ss_pred hHHHHHHHHHHhcCCCCeEEeeHHHHHHHh---CCCHHHHHHHHHHHHhCCcEEEc---cCCeEEECcHHh
Confidence 34566666665322 34555666665 89999999999999999988764 456999987753
No 120
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=88.02 E-value=1.4 Score=36.58 Aligned_cols=49 Identities=22% Similarity=0.242 Sum_probs=43.8
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee-ecCc
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK-EYGK 62 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K-~~GK 62 (226)
.|+.++..-...++.++|...| +|+..+|.+.+..|+..|++... .||+
T Consensus 166 ~Vl~~~~~g~~g~s~~eIa~~l---~iS~~Tv~~~~~~~~~~~~~~~~~~~~~ 215 (225)
T PRK10046 166 AVRKLFKEPGVQHTAETVAQAL---TISRTTARRYLEYCASRHLIIAEIVHGK 215 (225)
T ss_pred HHHHHHHcCCCCcCHHHHHHHh---CccHHHHHHHHHHHHhCCeEEEEeecCC
Confidence 7888888777789999999988 89999999999999999999998 6664
No 121
>PRK09954 putative kinase; Provisional
Probab=87.93 E-value=1.4 Score=39.45 Aligned_cols=50 Identities=24% Similarity=0.418 Sum_probs=42.8
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
+-...||.+|++ |-+.|.++|.+.| +|++++|.+.|..|.++|.|....|
T Consensus 3 ~~~~~il~~l~~-~~~~s~~~la~~l---~~s~~~v~~~i~~L~~~g~i~~~~~ 52 (362)
T PRK09954 3 NREKEILAILRR-NPLIQQNEIADIL---QISRSRVAAHIMDLMRKGRIKGKGY 52 (362)
T ss_pred hHHHHHHHHHHH-CCCCCHHHHHHHH---CCCHHHHHHHHHHHHHCCCcCCcEE
Confidence 456679999995 4589999999999 7999999999999999999975544
No 122
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR. This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.
Probab=87.93 E-value=2.1 Score=33.13 Aligned_cols=54 Identities=9% Similarity=0.169 Sum_probs=40.8
Q ss_pred HHHHHHHh--cCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 11 IVLNYVNE--QNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 11 ~Il~y~~~--~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.++-||-. ...|+++.+|...+ +|+...+.++|..|+..|+|.+.. |+.==|+.
T Consensus 12 ~~l~~La~~~~~~~~s~~~ia~~~---~ip~~~l~kil~~L~~~glv~s~~-G~~Ggy~l 67 (135)
T TIGR02010 12 TAMLDLALNAETGPVTLADISERQ---GISLSYLEQLFAKLRKAGLVKSVR-GPGGGYQL 67 (135)
T ss_pred HHHHHHHhCCCCCcCcHHHHHHHH---CcCHHHHHHHHHHHHHCCceEEEe-CCCCCEec
Confidence 34555543 34599999998877 799999999999999999998843 44334555
No 123
>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=87.89 E-value=3.9 Score=27.69 Aligned_cols=58 Identities=29% Similarity=0.462 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HhccCCH--HHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRT---LQSNLTL--EQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~---l~~~~t~--~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
+.++..|+.++..++.++..+...|.+ +.+.|.. +.-...+..+..++..+...|..|
T Consensus 3 ~~E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 3 EAEIERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 456666777777777776666666654 2233433 555667777888888888877665
No 124
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=87.81 E-value=1.4 Score=37.86 Aligned_cols=48 Identities=21% Similarity=0.348 Sum_probs=42.3
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceee
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKE 59 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~ 59 (226)
--.||++|.....+-++.+|...+ |++|++|-..|..|++.|.|....
T Consensus 6 al~iL~~l~~~~~~l~l~ela~~~---glpksT~~RlL~tL~~~G~v~~d~ 53 (246)
T COG1414 6 ALAILDLLAEGPGGLSLAELAERL---GLPKSTVHRLLQTLVELGYVEQDP 53 (246)
T ss_pred HHHHHHHHHhCCCCCCHHHHHHHh---CcCHHHHHHHHHHHHHCCCEEEcC
Confidence 347999999977777799998877 899999999999999999998775
No 125
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=87.64 E-value=13 Score=31.95 Aligned_cols=81 Identities=19% Similarity=0.235 Sum_probs=52.5
Q ss_pred CCCcchHHHHHHH-HHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHH
Q 027236 2 APKSDNTEAIVLN-YVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEE 80 (226)
Q Consensus 2 ~~kg~ea~~~Il~-y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee 80 (226)
.|| +.-+-.||- +...|.+ -+-+||.++| |||-++|...+..|+.+|+|..+.= --|-+ |.+-
T Consensus 6 ~kk-~~t~fqIL~ei~~~qp~-v~q~eIA~~l---giT~QaVsehiK~Lv~eG~i~~~gR---~~Y~i--------TkkG 69 (260)
T COG1497 6 SKK-NLTRFQILSEIAVRQPR-VKQKEIAKKL---GITLQAVSEHIKELVKEGLIEKEGR---GEYEI--------TKKG 69 (260)
T ss_pred ccc-cchHHHHHHHHHHhCCC-CCHHHHHHHc---CCCHHHHHHHHHHHHhccceeecCC---eeEEE--------ehhH
Confidence 344 333444444 4443333 3567999988 8999999999999999999998322 23444 2455
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQ 98 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l 98 (226)
...+.+++.+++.=..+.
T Consensus 70 ~e~l~~~~~dlr~f~~ev 87 (260)
T COG1497 70 AEWLLEQLSDLRRFSEEV 87 (260)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 666666666665544444
No 126
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=87.58 E-value=8 Score=32.99 Aligned_cols=54 Identities=24% Similarity=0.447 Sum_probs=46.4
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCcee
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQK 64 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~k 64 (226)
.+-+..|++|+.+ +.+.+..++...| +|+..+|.+-|..|.+.|+|.. .+|...
T Consensus 3 ~~R~~~Il~~l~~-~~~~~~~eLa~~l---~VS~~TiRRdL~~L~~~~~l~r-~~Gga~ 56 (240)
T PRK10411 3 AARQQAIVDLLLN-HTSLTTEALAEQL---NVSKETIRRDLNELQTQGKILR-NHGRAK 56 (240)
T ss_pred hHHHHHHHHHHHH-cCCCcHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEE-ecCeEE
Confidence 3567889999995 6699999999998 7999999999999999999875 677654
No 127
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=87.41 E-value=2.2 Score=36.66 Aligned_cols=63 Identities=27% Similarity=0.480 Sum_probs=54.4
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec----CceeEEEeecCC
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY----GKQKIYIARQDQ 72 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~----GK~kiY~~~Q~~ 72 (226)
...+-.||+.|+.. -|.|+++|...+ |.+.+.+.--+..|++-|+|..+.. |.|+|.++.-+.
T Consensus 22 S~vRv~Il~lL~~k-~plNvneiAe~l---gLpqst~s~~ik~Le~aGlirT~t~karkG~QKiC~s~~~e 88 (308)
T COG4189 22 SKVRVAILQLLHRK-GPLNVNEIAEAL---GLPQSTMSANIKVLEKAGLIRTETVKARKGSQKICISTTDE 88 (308)
T ss_pred HHHHHHHHHHHHHh-CCCCHHHHHHHh---CCchhhhhhhHHHHHhcCceeeeeeccccCceeEeEeecce
Confidence 45677899999854 599999998888 7899999999999999999999876 999999886664
No 128
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=87.23 E-value=1.9 Score=36.15 Aligned_cols=52 Identities=25% Similarity=0.383 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHhc----------CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 7 NTEAIVLNYVNEQ----------NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 7 ea~~~Il~y~~~~----------nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
.++++|..||... .-|++-++|.+.+ |++..+|.++|..|.++|+|.....|
T Consensus 154 ~~~~Rla~~Ll~l~~~~g~~~~i~i~lt~~~IA~~l---GisretlsR~L~~L~~~GlI~~~~~~ 215 (230)
T PRK09391 154 TAMERVAAFLLEMDERLGGAGMMALPMSRRDIADYL---GLTIETVSRALSQLQDRGLIGLSGAR 215 (230)
T ss_pred CHHHHHHHHHHHHHHHhCCCCEEEecCCHHHHHHHH---CCCHHHHHHHHHHHHHCCcEEecCCc
Confidence 4677777777652 2367888998888 89999999999999999999544333
No 129
>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=86.80 E-value=1.9 Score=34.71 Aligned_cols=60 Identities=25% Similarity=0.473 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
..++..+..++..++.++..+..++..|.+.+.+-.-.-...+|...+..++.++..+.+
T Consensus 71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~ 130 (169)
T PF07106_consen 71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEE 130 (169)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 345666666666666666666666666665544333333345566666666666655553
No 130
>COG0640 ArsR Predicted transcriptional regulators [Transcription]
Probab=86.51 E-value=5.1 Score=27.77 Aligned_cols=58 Identities=24% Similarity=0.445 Sum_probs=48.7
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEE
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYI 67 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~ 67 (226)
+..+..|+..+... .+.++.++..++ +++..+|...|..|.+.|+|....-|...+|-
T Consensus 24 ~~~r~~il~~l~~~-~~~~~~~l~~~~---~~~~~~v~~hL~~L~~~glv~~~~~~~~~~~~ 81 (110)
T COG0640 24 DPTRLEILSLLAEG-GELTVGELAEAL---GLSQSTVSHHLKVLREAGLVELRREGRLRLYR 81 (110)
T ss_pred CHHHHHHHHHHHhc-CCccHHHHHHHH---CCChhHHHHHHHHHHHCCCeEEEecccEEEEe
Confidence 55678888888876 567777888877 78999999999999999999998888886665
No 131
>PRK12423 LexA repressor; Provisional
Probab=86.39 E-value=3.4 Score=34.25 Aligned_cols=59 Identities=19% Similarity=0.343 Sum_probs=46.4
Q ss_pred HHHHHHHHHH----hcCCCCcHHHHHHHHhccc-ccHHHHHHHHHHHHHcCCcceeecCceeEEEee
Q 027236 8 TEAIVLNYVN----EQNRPLNSQNVADALQKYN-LKKAGIQKALDSLADNGKISFKEYGKQKIYIAR 69 (226)
Q Consensus 8 a~~~Il~y~~----~~nrPys~~di~~~l~~~~-v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~ 69 (226)
.+..||+++. +..-|=|..+|.+.+ | ++.++|.+.|+.|+..|+|....-|...++...
T Consensus 7 ~q~~il~~l~~~i~~~g~~Ps~~eia~~~---g~~s~~~v~~~l~~L~~~G~l~~~~~~~~~~~v~~ 70 (202)
T PRK12423 7 KRAAILAFIRERIAQAGQPPSLAEIAQAF---GFASRSVARKHVQALAEAGLIEVVPNQARGIRLPG 70 (202)
T ss_pred HHHHHHHHHHHHHHHcCCCCCHHHHHHHh---CCCChHHHHHHHHHHHHCCCEEecCCCcceeeecc
Confidence 4455555554 455567999999888 6 489999999999999999999888877777653
No 132
>PRK11050 manganese transport regulator MntR; Provisional
Probab=86.11 E-value=3.8 Score=32.42 Aligned_cols=51 Identities=18% Similarity=0.391 Sum_probs=40.9
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
++.-..|+.++.. +-|.+..+|...+ +|++++|.++|+.|.+.|+|....+
T Consensus 36 e~~l~~I~~~l~~-~~~~t~~eLA~~l---~is~stVsr~l~~Le~~GlI~r~~~ 86 (152)
T PRK11050 36 EDYVELIADLIAE-VGEARQVDIAARL---GVSQPTVAKMLKRLARDGLVEMRPY 86 (152)
T ss_pred HHHHHHHHHHHHh-cCCCCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEecC
Confidence 3444566666654 5688999999888 7999999999999999999877654
No 133
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=86.10 E-value=1.5 Score=35.98 Aligned_cols=54 Identities=22% Similarity=0.383 Sum_probs=43.3
Q ss_pred chHHHHHHHHHHhc----CCCCcHHHHHHHHhccccc-HHHHHHHHHHHHHcCCcceeecCce
Q 027236 6 DNTEAIVLNYVNEQ----NRPLNSQNVADALQKYNLK-KAGIQKALDSLADNGKISFKEYGKQ 63 (226)
Q Consensus 6 ~ea~~~Il~y~~~~----nrPys~~di~~~l~~~~v~-K~~v~k~L~~Lv~~g~i~~K~~GK~ 63 (226)
...+..||+|+.+. ..|-++.+|...+ +++ +++|...|+.|.+.|.|.... |..
T Consensus 5 t~~q~~iL~~l~~~~~~~~~~~~~~ela~~~---~~~s~~tv~~~l~~L~~~g~i~~~~-~~~ 63 (199)
T TIGR00498 5 TARQQEVLDLIRAHIESTGYPPSIREIARAV---GLRSPSAAEEHLKALERKGYIERDP-GKP 63 (199)
T ss_pred CHHHHHHHHHHHHHHHhcCCCCcHHHHHHHh---CCCChHHHHHHHHHHHHCCCEecCC-CCC
Confidence 45677888888754 4577788998888 787 999999999999999998764 443
No 134
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=86.09 E-value=11 Score=38.15 Aligned_cols=96 Identities=18% Similarity=0.293 Sum_probs=59.8
Q ss_pred HHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHhccCCH------HHHHHHHHHHHHHHHHHHHHHHHhhCCC
Q 027236 78 SEELNQMKEEN-----AKLQEQLEEQRKAISKLEGEIRTLQSNLTL------EQIREKEAQLVKEVKEMENKLAKLRGGV 146 (226)
Q Consensus 78 ~ee~~~l~~~i-----~~l~~~l~~l~~~~k~l~~el~~l~~~~t~------~el~~~i~~L~~e~~~l~~kL~~l~~~~ 146 (226)
.-|+..+|.++ +.|+.++..++..+.+|+..|..|++...+ .-=.-+..+|++++..|++-|-.|++-.
T Consensus 312 ~iEmaTldKEmAEERaesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRDls 391 (1243)
T KOG0971|consen 312 AIEMATLDKEMAEERAESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRDLS 391 (1243)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 34555555444 457778888888888888888887764332 1112357889999999999999998621
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 147 TLVKPEDRMAVEEMFLEKLSQWRKRKRM 174 (226)
Q Consensus 147 ~~vs~ee~~~~~~~~~~~~~~w~kRkri 174 (226)
. -...+..++.+...+-..+...=+|+
T Consensus 392 A-~ek~d~qK~~kelE~k~sE~~eL~r~ 418 (1243)
T KOG0971|consen 392 A-SEKQDHQKLQKELEKKNSELEELRRQ 418 (1243)
T ss_pred h-HHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 1 12334556666655555444443334
No 135
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=86.04 E-value=4 Score=29.36 Aligned_cols=59 Identities=20% Similarity=0.325 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC-HHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 86 EENAKLQEQLEEQRKAISKLEGEIRTLQSNLT-LEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 86 ~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t-~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
.+|+.+.+.+......+..++..|..-.-+|. ...+..+...+.......+.+|..|+.
T Consensus 5 ~eId~lEekl~~cr~~le~ve~rL~~~eLs~e~R~~lE~E~~~l~~~l~~~E~eL~~Lrk 64 (85)
T PF15188_consen 5 KEIDGLEEKLAQCRRRLEAVESRLRRRELSPEARRSLEKELNELKEKLENNEKELKLLRK 64 (85)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHcccCCChHHHHHHHHHHHHHHHHhhccHHHHHHHHH
Confidence 56777888888888888888777776665543 367777778888888888888877764
No 136
>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=86.04 E-value=7.2 Score=30.73 Aligned_cols=21 Identities=19% Similarity=0.327 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027236 91 LQEQLEEQRKAISKLEGEIRT 111 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~ 111 (226)
+.+++..++.....+..+|..
T Consensus 19 ~e~~~K~le~~~~~~E~EI~s 39 (143)
T PF12718_consen 19 LEAKVKQLEQENEQKEQEITS 39 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333333
No 137
>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=86.03 E-value=11 Score=37.26 Aligned_cols=66 Identities=23% Similarity=0.440 Sum_probs=53.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 77 NSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 77 ~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+++....|..++..|+.++...++...+|+..|..+.+. .-.+..++.+++.++..|+.++..|..
T Consensus 416 ~~~a~~rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~--Er~lk~eL~qlr~ene~Lq~Kl~~L~~ 481 (697)
T PF09726_consen 416 EPDAISRLEADVKKLRAELQSSRQSEQELRSQISSLTNN--ERSLKSELSQLRQENEQLQNKLQNLVQ 481 (697)
T ss_pred ChHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhcccc--chHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677888899999999998888888888887777652 347788899999999999999988853
No 138
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=85.97 E-value=2.9 Score=30.55 Aligned_cols=46 Identities=13% Similarity=0.322 Sum_probs=38.6
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcc
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKIS 56 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~ 56 (226)
+..-.|+.+|... .+-+..+|...+ |++.++|.+.++.|.++|.|.
T Consensus 3 ~~D~~il~~L~~~-~~~~~~~la~~l---~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKD-ARISLAELAKKV---GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHh-CCCCHHHHHHHH---CcCHHHHHHHHHHHHHCCCee
Confidence 3456788888864 467777888877 899999999999999999988
No 139
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=85.92 E-value=6 Score=34.03 Aligned_cols=118 Identities=17% Similarity=0.266 Sum_probs=71.7
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHH-----------HHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCC
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVAD-----------ALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFD 74 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~-----------~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~ 74 (226)
+.+...|.+...+.+ .|-...-.. ++. ..|+...+..+|+.|..-|.|......
T Consensus 62 ~~a~~~i~~~~~~~g-G~i~~~~~~~~~~~~~~~~~~lt-iRVP~~~~~~~l~~l~~~g~v~~~~~~------------- 126 (262)
T PF14257_consen 62 EKAVKKIENLVESYG-GYIESSSSSSSGGSDDERSASLT-IRVPADKFDSFLDELSELGKVTSRNIS------------- 126 (262)
T ss_pred HHHHHHHHHHHHHcC-CEEEEEeeecccCCCCcceEEEE-EEECHHHHHHHHHHHhccCceeeeecc-------------
Confidence 466667777776654 332211111 111 279999999999999976655544322
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 75 IPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 75 ~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
.+++. .++..+..+++.++.....|.+-|++....-..-++..++.+.+.+|..++.++..|..
T Consensus 127 ---~~DvT---~~y~D~~arl~~l~~~~~rl~~ll~ka~~~~d~l~ie~~L~~v~~eIe~~~~~~~~l~~ 190 (262)
T PF14257_consen 127 ---SEDVT---EQYVDLEARLKNLEAEEERLLELLEKAKTVEDLLEIERELSRVRSEIEQLEGQLKYLDD 190 (262)
T ss_pred ---ccchH---HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 12221 44455666666666666666555553332222246667888888999999998888865
No 140
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=85.88 E-value=19 Score=29.97 Aligned_cols=16 Identities=25% Similarity=0.362 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 027236 125 EAQLVKEVKEMENKLA 140 (226)
Q Consensus 125 i~~L~~e~~~l~~kL~ 140 (226)
+..++.++.+|+..|.
T Consensus 64 L~~a~~e~~eL~k~L~ 79 (201)
T PF13851_consen 64 LKKAEEEVEELRKQLK 79 (201)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333333333333
No 141
>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.85 E-value=26 Score=33.70 Aligned_cols=60 Identities=18% Similarity=0.135 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 120 QIREKEAQLVKEVKEMENKLAKLRG--GVTLVKPEDRMAVEEMFLEKLSQWRKRKRMLRDIWD 180 (226)
Q Consensus 120 el~~~i~~L~~e~~~l~~kL~~l~~--~~~~vs~ee~~~~~~~~~~~~~~w~kRkri~~~i~~ 180 (226)
.+.-.+++-..+|..++..|.+... .+..++|+ +....+.+...++.|++=-.++...++
T Consensus 384 ~leIalEqkkEec~kme~qLkkAh~~~ddar~~pe-~~d~i~~le~e~~~y~de~~kaqaevd 445 (654)
T KOG4809|consen 384 SLEIALEQKKEECSKMEAQLKKAHNIEDDARMNPE-FADQIKQLEKEASYYRDECGKAQAEVD 445 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhcChh-hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444566777888888888877754 33445553 233333344444555444333333333
No 142
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=85.78 E-value=2.5 Score=34.75 Aligned_cols=61 Identities=13% Similarity=0.249 Sum_probs=51.1
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeec
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQ 70 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q 70 (226)
+-+.+|++||.....+-.|.+|...| |+.|..|-+.|=.|-..|.|.+-.--.-.+|.-.+
T Consensus 4 ~~~~~i~~~l~~~~~~~~a~~i~k~l---~i~k~~vNr~LY~L~~~~~v~~~~~~pP~W~~~~~ 64 (183)
T PHA02701 4 DCASLILTLLSSSGDKLPAKRIAKEL---GISKHEANRCLYRLLESDAVSCEDGCPPLWSVECE 64 (183)
T ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHh---CccHHHHHHHHHHHhhcCcEecCCCCCCccccccC
Confidence 45789999999888679999999988 89999999999999999999887555556665543
No 143
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=85.78 E-value=6.2 Score=41.00 Aligned_cols=73 Identities=19% Similarity=0.352 Sum_probs=63.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH-----HHHHHHHHHHHHHHHHHHHHHHHhhCCC
Q 027236 74 DIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL-----EQIREKEAQLVKEVKEMENKLAKLRGGV 146 (226)
Q Consensus 74 ~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~-----~el~~~i~~L~~e~~~l~~kL~~l~~~~ 146 (226)
++++.+++++|...+.+|+.++..+...+.+++..|.....+.+. +-|+.....|..-..+|+++++.+++++
T Consensus 1220 ~svs~~~i~~l~~~~~~lr~~l~~~~e~L~~~E~~Lsdi~~~~~~a~~~LesLq~~~~~l~~~~keL~e~~~~ik~sd 1297 (1758)
T KOG0994|consen 1220 PSVSAEDIAQLASATESLRRQLQALTEDLPQEEETLSDITNSLPLAGKDLESLQREFNGLLTTYKELREQLEKIKESD 1297 (1758)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence 566789999999999999999999999999999999988876553 6677778888888999999999998754
No 144
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=85.53 E-value=11 Score=26.74 Aligned_cols=21 Identities=0% Similarity=0.109 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKA 101 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~ 101 (226)
+..+..+|...-+.+.-|+-+
T Consensus 6 leqLE~KIqqAvdtI~LLqmE 26 (79)
T PRK15422 6 FEKLEAKVQQAIDTITLLQME 26 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444443333333
No 145
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=85.49 E-value=2.5 Score=32.92 Aligned_cols=47 Identities=13% Similarity=0.222 Sum_probs=38.5
Q ss_pred cCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 19 QNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 19 ~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.+.|.|..+|...+ +|+.+.|.++|..|...|+|....-...-++.+
T Consensus 22 ~g~~~s~~~ia~~~---~is~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~ 68 (141)
T PRK11014 22 EGRMTSISEVTEVY---GVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLG 68 (141)
T ss_pred CCCccCHHHHHHHH---CcCHHHHHHHHHHHHhCCEEEEecCCCCCeeec
Confidence 44688988888877 899999999999999999999987654445554
No 146
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=85.46 E-value=3.5 Score=32.71 Aligned_cols=54 Identities=15% Similarity=0.201 Sum_probs=41.1
Q ss_pred HHHHH-HhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 12 VLNYV-NEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 12 Il~y~-~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
++-|| ....+|.++.+|.+.. +|+...+.|+|..|+..|+|.+..--..=++.+
T Consensus 13 ~L~~LA~~~~~~~s~~eIA~~~---~is~~~L~kIl~~L~~aGlv~S~rG~~GGy~La 67 (153)
T PRK11920 13 MLMYCAANDGKLSRIPEIARAY---GVSELFLFKILQPLVEAGLVETVRGRNGGVRLG 67 (153)
T ss_pred HHHHHHhCCCCcCcHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEeecCCCCCeeec
Confidence 44455 3456688999998866 899999999999999999999988433344444
No 147
>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=85.41 E-value=14 Score=31.60 Aligned_cols=60 Identities=20% Similarity=0.296 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 83 QMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 83 ~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
..+.+++.+.++-..+..++..+..++..|... +..+...+..+++++..++.++..+..
T Consensus 39 ~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~--~~~l~~~v~~q~~el~~L~~qi~~~~~ 98 (251)
T PF11932_consen 39 QSQKRIDQWDDEKQELLAEYRQLEREIENLEVY--NEQLERQVASQEQELASLEQQIEQIEE 98 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666667777777777777777777653 667777777777777777777777654
No 148
>PRK14137 recX recombination regulator RecX; Provisional
Probab=85.29 E-value=2.5 Score=35.10 Aligned_cols=56 Identities=14% Similarity=0.255 Sum_probs=48.3
Q ss_pred chHHHHHHHHHHh--cCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 6 DNTEAIVLNYVNE--QNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 6 ~ea~~~Il~y~~~--~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
+++...++.|-.. +.|+||-.+|..-|...++.-..|..+|+.|.+.|.|.=..|.
T Consensus 36 ~e~~~~~~~~Al~~Ls~R~rS~~ELr~KL~~kg~~~e~Ie~vI~rL~e~gyLDD~rfA 93 (195)
T PRK14137 36 DEAREALLAYAFRALAARAMTAAELRAKLERRSEDEALVTEVLERVQELGYQDDAQVA 93 (195)
T ss_pred HHHHHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence 7888888887765 5999999999999988899999999999999999987655553
No 149
>PRK11642 exoribonuclease R; Provisional
Probab=85.11 E-value=2.2 Score=43.01 Aligned_cols=49 Identities=14% Similarity=0.389 Sum_probs=40.7
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhccc-ccHHHHHHHHHHHHHcCCcce
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYN-LKKAGIQKALDSLADNGKISF 57 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~-v~K~~v~k~L~~Lv~~g~i~~ 57 (226)
++.||+||..+++|++..+|...|.-.+ -.+..+..+|+.|+.+|.|..
T Consensus 21 ~~~Il~~l~~~~~~~~~~~L~~~l~l~~~~~~~~l~~~L~~L~~~g~l~~ 70 (813)
T PRK11642 21 REFILEHLTKREKPASREELAVELNIEGEEQLEALRRRLRAMERDGQLVF 70 (813)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHhCCCChHHHHHHHHHHHHHHHCCCEEE
Confidence 5779999999899999999999883211 236779999999999999974
No 150
>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=84.98 E-value=5.8 Score=29.57 Aligned_cols=56 Identities=25% Similarity=0.413 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 88 NAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 88 i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+..+.+.+......+..++.++..+=..-....|...+.+++-++..+..+|..+.
T Consensus 37 ~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~ 92 (106)
T PF10805_consen 37 IEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVS 92 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 33344444444555555555544442222235566677777777777777776653
No 151
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=84.75 E-value=4.7 Score=35.09 Aligned_cols=28 Identities=18% Similarity=0.375 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRTL 112 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~l 112 (226)
+.++.+++.+...+..++..|..++..+
T Consensus 37 ds~l~~~~~~~~~~q~ei~~L~~qi~~~ 64 (265)
T COG3883 37 DSKLSELQKEKKNIQNEIESLDNQIEEI 64 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444443333
No 152
>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]
Probab=84.34 E-value=28 Score=30.53 Aligned_cols=95 Identities=16% Similarity=0.148 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------Hh
Q 027236 119 EQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQWRKRKRMLRDIWDPI--------------ME 184 (226)
Q Consensus 119 ~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w~kRkri~~~i~~~i--------------~e 184 (226)
..|..+|+.-+.++..++.+|+.|++-. |.--.+.++.++++.+.-..|.-|.+...-+-..+ ..
T Consensus 136 a~L~~Kierrk~ElEr~rkRle~LqsiR-P~~MdEyE~~EeeLqkly~~Y~l~f~nl~yL~~qldd~~rse~~rqeeaen 214 (338)
T KOG3647|consen 136 AALGSKIERRKAELERTRKRLEALQSIR-PAHMDEYEDCEEELQKLYQRYFLRFHNLDYLKSQLDDRTRSEPIRQEEAEN 214 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc-hHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhHHHHHHHHh
Confidence 6778889999999999999999998632 22234555555555444444444433222111111 12
Q ss_pred cCCCCHHHHHH------HhCcccccccccchhhchh
Q 027236 185 NSPKNLKEFKE------ELGIEYDEDVGVSLQSFSD 214 (226)
Q Consensus 185 ~~~~~~k~l~e------~lGie~Ded~~v~~~~~~~ 214 (226)
.||+-++.|.+ ..|.-.|+|..+.+|+.++
T Consensus 215 sm~~i~ekl~ee~~~~d~~g~~DD~d~D~~~~D~rd 250 (338)
T KOG3647|consen 215 SMPFIPEKLIEEDDDDDDEGDLDDEDLDSEIPDIRD 250 (338)
T ss_pred cchhhHHHhhhhhhhccccccccccccCCCCCchhh
Confidence 24443443432 3566677777777777654
No 153
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=84.08 E-value=7.3 Score=34.17 Aligned_cols=10 Identities=20% Similarity=0.607 Sum_probs=4.3
Q ss_pred hhhchhhhhC
Q 027236 209 LQSFSDLLQR 218 (226)
Q Consensus 209 ~~~~~~~~~~ 218 (226)
+.+|++|+.+
T Consensus 299 IatYR~LLEg 308 (312)
T PF00038_consen 299 IATYRKLLEG 308 (312)
T ss_dssp HHHHHHHHTC
T ss_pred HHHHHHHHhC
Confidence 3444444433
No 154
>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=83.78 E-value=19 Score=36.83 Aligned_cols=107 Identities=20% Similarity=0.238 Sum_probs=75.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVE 158 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~ 158 (226)
+-...+..++.++-..+.++.+.+..-.+. .+.-.-.++....+....++++.+++.++..+. ++++.+.
T Consensus 821 ek~~~~~~e~~e~p~t~~eld~~I~~e~t~--~~~~~n~ne~~vq~y~~r~~el~~l~~~~~~~~--------~~le~i~ 890 (1072)
T KOG0979|consen 821 EKSLVLMKELAEEPTTMDELDQAITDELTR--ALKFENVNEDAVQQYEVREDELRELETKLEKLS--------EDLERIK 890 (1072)
T ss_pred hhHHHHHHHHHhCCCcHHHHHHHHHHHHHH--HHHHhcCChHHHHHHHHHHHHHHHHHhhhhhhh--------hhHHHHH
Confidence 334445556666666666776665443331 222234445578888999999999999987754 4577788
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCcccc
Q 027236 159 EMFLEKLSQWRKRKRMLRDIWDPIMENSPKNLKEFKEELGIEYD 202 (226)
Q Consensus 159 ~~~~~~~~~w~kRkri~~~i~~~i~e~~~~~~k~l~e~lGie~D 202 (226)
+......+.|..+. .+++..|.+.+ ..|+..+|.-+.
T Consensus 891 ~kl~~~ke~w~~~l---e~~V~~In~~F----s~~F~~mg~aGe 927 (1072)
T KOG0979|consen 891 DKLSDVKEVWLPKL---EEMVEQINERF----SQLFSSMGCAGE 927 (1072)
T ss_pred HHHhhHHHHHHHHH---HHHHHHHHHHH----HHHHhhcccCce
Confidence 88888889999986 88999998887 368888887654
No 155
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=83.77 E-value=3 Score=35.86 Aligned_cols=54 Identities=17% Similarity=0.367 Sum_probs=46.4
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCcee
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQK 64 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~k 64 (226)
.+-+..|++|+. ++...++.++...| +|+..+|-+-|..|.++|+|. +.+|-..
T Consensus 4 ~~R~~~Il~~l~-~~~~~~~~ela~~l---~vS~~TiRRdL~~Le~~g~l~-r~~GGa~ 57 (252)
T PRK10906 4 TQRHDAIIELVK-QQGYVSTEELVEHF---SVSPQTIRRDLNDLAEQNKIL-RHHGGAA 57 (252)
T ss_pred HHHHHHHHHHHH-HcCCEeHHHHHHHh---CCCHHHHHHHHHHHHHCCCEE-EecCCEE
Confidence 466789999995 46679999999988 799999999999999999985 7888873
No 156
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=83.74 E-value=5.3 Score=33.93 Aligned_cols=65 Identities=15% Similarity=0.258 Sum_probs=56.1
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCC
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFD 74 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~ 74 (226)
...+..|++|++. |--|++.++..|+ ++.+.++.=.|..|-..++|....+|-...|+++-..+-
T Consensus 100 ns~R~~Iy~~i~~-nPG~~lsEl~~nl---~i~R~TlRyhlriLe~~~li~a~~~~g~~~yfpa~~t~~ 164 (240)
T COG3398 100 NSKRDGIYNYIKP-NPGFSLSELRANL---YINRSTLRYHLRILESNPLIEAGRVGGALRYFPADMTYG 164 (240)
T ss_pred hhhHHHHHHHhcc-CCCccHHHHHHhc---CCChHHHHHHHHHHHhCcchhhhccCCceEEccCCCCcc
Confidence 4678999999984 4557889999988 789999999999999999999999999999988655544
No 157
>PHA03162 hypothetical protein; Provisional
Probab=83.73 E-value=19 Score=28.04 Aligned_cols=49 Identities=18% Similarity=0.221 Sum_probs=37.6
Q ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCC-----CCCCCHHHHHHHHHHHH
Q 027236 114 SNLTLEQIREKEAQLVKEVKEMENKLAKLRGG-----VTLVKPEDRMAVEEMFL 162 (226)
Q Consensus 114 ~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~-----~~~vs~ee~~~~~~~~~ 162 (226)
..+|.+||.+++..|+-||+.|..+|..--++ +...||.+.+.+...|.
T Consensus 11 ~~~tmEeLaaeL~kLqmENK~LKkkl~~~~~~~~~p~d~~LTp~qKea~I~s~v 64 (135)
T PHA03162 11 AQPTMEDLAAEIAKLQLENKALKKKIKEGTDDDPLPGDPILTPAAKEAMIGAAT 64 (135)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCCHHHHHHHHHHHH
Confidence 46899999999999999999999998543222 34588888877665543
No 158
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=83.68 E-value=20 Score=29.70 Aligned_cols=38 Identities=13% Similarity=0.183 Sum_probs=31.7
Q ss_pred CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 20 NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 20 nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
+...+..++...+ ||+++.|-.+|..|..+|+|.....
T Consensus 28 G~~L~e~eLae~l---gVSRtpVREAL~~L~~eGlv~~~~~ 65 (224)
T PRK11534 28 DEKLRMSLLTSRY---ALGVGPLREALSQLVAERLVTVVNQ 65 (224)
T ss_pred CCcCCHHHHHHHH---CCChHHHHHHHHHHHHCCCEEEeCC
Confidence 5567766766666 8999999999999999999988654
No 159
>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=83.64 E-value=9.3 Score=29.47 Aligned_cols=30 Identities=27% Similarity=0.479 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIR 110 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~ 110 (226)
+..+..++..++.++..++.........|.
T Consensus 61 L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~ 90 (132)
T PF07926_consen 61 LQQLREELQELQQEINELKAEAESAKAELE 90 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444444444444333
No 160
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=83.53 E-value=9.2 Score=27.93 Aligned_cols=54 Identities=24% Similarity=0.377 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 027236 119 EQIREKEAQLVKEVKEMENKLAKLRGG-VTLVKPEDRMAVEEMFLEKLSQWRKRK 172 (226)
Q Consensus 119 ~el~~~i~~L~~e~~~l~~kL~~l~~~-~~~vs~ee~~~~~~~~~~~~~~w~kRk 172 (226)
..+..++..|+.++..|+..+..+.+. -...|..++..++..+..+.+.-+.||
T Consensus 15 e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK 69 (100)
T PF01486_consen 15 EELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRK 69 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHH
Confidence 556667777777777777777777652 245677888888888877777777776
No 161
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=83.35 E-value=27 Score=30.07 Aligned_cols=52 Identities=15% Similarity=0.174 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 027236 119 EQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQWRK 170 (226)
Q Consensus 119 ~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w~k 170 (226)
.+|...|..+...|.++-+++..|..+....+..++...-.+...+..+-++
T Consensus 90 ~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~ 141 (264)
T PF06008_consen 90 QDLEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRK 141 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 5666677777777777777777776533344555555544444444444333
No 162
>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=83.33 E-value=4.9 Score=27.60 Aligned_cols=38 Identities=32% Similarity=0.462 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNL 116 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~ 116 (226)
.....+..++..++.+++.++.+...|+.++..+++.|
T Consensus 17 ~~~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~ 54 (80)
T PF04977_consen 17 SRYYQLNQEIAELQKEIEELKKENEELKEEIERLKNDP 54 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Confidence 45667778888888888888888888888888885544
No 163
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=83.05 E-value=22 Score=30.38 Aligned_cols=27 Identities=22% Similarity=0.352 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 118 LEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 118 ~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+++|...+..|+.+..+.+++|+.++.
T Consensus 151 keeL~~eleele~e~ee~~erlk~le~ 177 (290)
T COG4026 151 KEELLKELEELEAEYEEVQERLKRLEV 177 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566666666666666666666553
No 164
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=83.02 E-value=3.9 Score=29.78 Aligned_cols=48 Identities=23% Similarity=0.256 Sum_probs=36.3
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
+-.|+.++......-. .+|.+.+ ++++++|..+|+.|++.|+|....-
T Consensus 24 q~~~L~~l~~~~~~~~-~~la~~l---~i~~~~vt~~l~~Le~~glv~r~~~ 71 (126)
T COG1846 24 QYQVLLALYEAGGITV-KELAERL---GLDRSTVTRLLKRLEDKGLIERLRD 71 (126)
T ss_pred HHHHHHHHHHhCCCcH-HHHHHHH---CCCHHHHHHHHHHHHHCCCeeecCC
Confidence 4456666665443332 6777766 8999999999999999999988766
No 165
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=82.83 E-value=3.5 Score=30.33 Aligned_cols=57 Identities=25% Similarity=0.412 Sum_probs=35.3
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee-----ecCceeEEEe
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK-----EYGKQKIYIA 68 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K-----~~GK~kiY~~ 68 (226)
....|++.|... ..-+-.+|...+ +++...|-++|..|.++|+|... .-|-..+||.
T Consensus 14 ~~~~Il~~L~~~-~~l~de~la~~~---~l~~~~vRkiL~~L~~~~lv~~~~~~d~~~~~~~~yw~ 75 (105)
T PF02002_consen 14 EAVRILDALLRK-GELTDEDLAKKL---GLKPKEVRKILYKLYEDGLVSYRRRKDDERGWTRYYWY 75 (105)
T ss_dssp TTHHHHHHHHHH---B-HHHHHHTT----S-HHHHHHHHHHHHHHSS-EEEEE--------EEEEE
T ss_pred hHHHHHHHHHHc-CCcCHHHHHHHh---CCCHHHHHHHHHHHHHCCCeEEEEEEcCCCcEEEEEEE
Confidence 345667777643 345655665544 89999999999999999999766 3477788898
No 166
>PHA03155 hypothetical protein; Provisional
Probab=82.83 E-value=18 Score=27.35 Aligned_cols=48 Identities=19% Similarity=0.255 Sum_probs=37.2
Q ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHhh-CCCCCCCHHHHHHHHHHH
Q 027236 114 SNLTLEQIREKEAQLVKEVKEMENKLAKLR-GGVTLVKPEDRMAVEEMF 161 (226)
Q Consensus 114 ~~~t~~el~~~i~~L~~e~~~l~~kL~~l~-~~~~~vs~ee~~~~~~~~ 161 (226)
..+|.+||.+++..|+-|++.|..+|..-- .++..+||.+.+.+...+
T Consensus 6 ~~~tvEeLaaeL~kL~~ENK~LKkkl~~~~~p~d~~LT~~qKea~I~s~ 54 (115)
T PHA03155 6 ACADVEELEKELQKLKIENKALKKKLLQHGNPEDELLTPAQKDAIINSL 54 (115)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHccCCCCccccCHHHHHHHHHHH
Confidence 357889999999999999999999985422 245678888877665553
No 167
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=82.81 E-value=6.4 Score=33.02 Aligned_cols=53 Identities=11% Similarity=0.290 Sum_probs=37.9
Q ss_pred chHHHHHHHHHHhc----CCCC-cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 6 DNTEAIVLNYVNEQ----NRPL-NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 6 ~ea~~~Il~y~~~~----nrPy-s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
+.+.+.|.+.+... +.+. |-.++...+ ||+++.|-+||..|..+|+|......
T Consensus 10 ~~~~~~l~~~I~~g~l~pG~~LPsE~eLae~~---gVSRt~VReAL~~L~~eGlv~~~~g~ 67 (239)
T PRK04984 10 GFAEEYIIESIWNNRFPPGSILPAERELSELI---GVTRTTLREVLQRLARDGWLTIQHGK 67 (239)
T ss_pred HHHHHHHHHHHHcCCCCCCCcCCCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEeCCC
Confidence 34444444444432 3456 666777666 89999999999999999999987553
No 168
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=82.77 E-value=6.2 Score=30.95 Aligned_cols=60 Identities=18% Similarity=0.398 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 82 NQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAK 141 (226)
Q Consensus 82 ~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~ 141 (226)
..++......+.++.....++..+..++......+|.++....-.++.....+++.....
T Consensus 39 ~~l~~~~~~~~~~l~~~~~el~~~~~~l~~~~~~ls~~~~~~~~~~l~~~~~~l~~~~~~ 98 (158)
T PF03938_consen 39 AKLQEKFKALQKELQAKQKELQKLQQKLQSQKATLSEEERQKRQQELQQKEQELQQFQQQ 98 (158)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS----SSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555666666677777776666666666666777777766666666555555554433
No 169
>PF03551 PadR: Transcriptional regulator PadR-like family; InterPro: IPR005149 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 [].; PDB: 1XMA_B 2ESH_A 2DQL_B 3L9F_C 3ELK_B 4EJO_B 3L7W_A 3HHH_A 1YG2_A 3F8B_A ....
Probab=82.67 E-value=6.5 Score=26.91 Aligned_cols=55 Identities=20% Similarity=0.367 Sum_probs=42.0
Q ss_pred HHHHHHhcCCCCcHHHHHHHHhcc-----cccHHHHHHHHHHHHHcCCcceeecC-----ceeEEEe
Q 027236 12 VLNYVNEQNRPLNSQNVADALQKY-----NLKKAGIQKALDSLADNGKISFKEYG-----KQKIYIA 68 (226)
Q Consensus 12 Il~y~~~~nrPys~~di~~~l~~~-----~v~K~~v~k~L~~Lv~~g~i~~K~~G-----K~kiY~~ 68 (226)
||..+.. +|.+--+|...+... .|+..+|=.+|+.|.++|+|.+..-. ..++|.+
T Consensus 1 iL~~L~~--~~~~Gyei~~~l~~~~~~~~~i~~g~lY~~L~~Le~~gli~~~~~~~~~~~~rk~Y~i 65 (75)
T PF03551_consen 1 ILGLLSE--GPMHGYEIKQELEERTGGFWKISPGSLYPALKRLEEEGLIESRWEEEGNGRPRKYYRI 65 (75)
T ss_dssp HHHHHHH--S-EEHHHHHHHHHHCSTTTEETTHHHHHHHHHHHHHTTSEEEEEEEETTSSEEEEEEE
T ss_pred Chhhhcc--CCCcHHHHHHHHHHHhCCCcccChhHHHHHHHHHHhCCCEEEeeeccCCCCCCEEEEE
Confidence 4556654 777777777666552 58899999999999999999998775 4678877
No 170
>PHA02562 46 endonuclease subunit; Provisional
Probab=82.62 E-value=25 Score=33.30 Aligned_cols=63 Identities=14% Similarity=0.330 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN--LTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~--~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+..+..++..+..++..+..++..++..+..+.+. ...+++..++..+..+...++.++..++
T Consensus 176 ~~e~~~~i~~l~~~i~~l~~~i~~~~~~i~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l~ 240 (562)
T PHA02562 176 IRELNQQIQTLDMKIDHIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKAEIEELT 240 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555555444444443 2234555555555555444444444443
No 171
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=82.35 E-value=22 Score=27.78 Aligned_cols=90 Identities=20% Similarity=0.220 Sum_probs=59.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVE 158 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~ 158 (226)
.++..+..++..+..++..+..+...+..++..+....+..-+...+. ..+.+.++.=+.+..... -..-++....
T Consensus 55 ~~l~~~r~~l~~~~~~~~~L~~~~~~k~~~~~~l~~~~s~~~l~~~L~---~~~~e~eeeSe~lae~fl-~g~~d~~~Fl 130 (150)
T PF07200_consen 55 PELEELRSQLQELYEELKELESEYQEKEQQQDELSSNYSPDALLARLQ---AAASEAEEESEELAEEFL-DGEIDVDDFL 130 (150)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH---HHHHHHHHHHHHHC-S-S-SSHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHH---HHHHHHHHHHHHHHHHHh-CCCCCHHHHH
Confidence 567777888888888888888888888888888866555555555444 444444444434432111 1245677788
Q ss_pred HHHHHHHHHHHHHH
Q 027236 159 EMFLEKLSQWRKRK 172 (226)
Q Consensus 159 ~~~~~~~~~w~kRk 172 (226)
+.|...++.|-.|+
T Consensus 131 ~~f~~~R~~yH~R~ 144 (150)
T PF07200_consen 131 KQFKEKRKLYHLRR 144 (150)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 88888888888876
No 172
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=82.23 E-value=11 Score=32.05 Aligned_cols=56 Identities=34% Similarity=0.486 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
.....++++.+.++..+..+|..++..+.+. -+++...+..|+.+++.|++.+..+
T Consensus 134 ke~~ee~kekl~E~~~EkeeL~~eleele~e--~ee~~erlk~le~E~s~LeE~~~~l 189 (290)
T COG4026 134 KEDYEELKEKLEELQKEKEELLKELEELEAE--YEEVQERLKRLEVENSRLEEMLKKL 189 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3444444444444444444444444444432 2455566666666666666665443
No 173
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=82.23 E-value=7.1 Score=36.77 Aligned_cols=57 Identities=11% Similarity=0.202 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 86 EENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 86 ~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
..+.+-+....+|++++..++.++..+.... .++..+|++|+.++..|+.+++.+..
T Consensus 69 SALteqQ~kasELEKqLaaLrqElq~~saq~--~dle~KIkeLEaE~~~Lk~Ql~a~~~ 125 (475)
T PRK13729 69 HATTEMQVTAAQMQKQYEEIRRELDVLNKQR--GDDQRRIEKLGQDNAALAEQVKALGA 125 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--hhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 4444555556666666666655555444332 46688889999999999999865543
No 174
>PF15456 Uds1: Up-regulated During Septation
Probab=82.22 E-value=21 Score=27.51 Aligned_cols=70 Identities=30% Similarity=0.408 Sum_probs=46.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHhccCC---------HHHHHHHHHHHHHHHHHHH
Q 027236 73 FDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEI-------RTLQSNLT---------LEQIREKEAQLVKEVKEME 136 (226)
Q Consensus 73 ~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el-------~~l~~~~t---------~~el~~~i~~L~~e~~~l~ 136 (226)
|..++.+|++.+..++..|...+..++..+. ++..+ ..+...++ ..+-...+.+....|.++.
T Consensus 16 feiLs~eEVe~LKkEl~~L~~R~~~lr~kl~-le~k~RdAa~sl~~l~~~~~~~~~~~~~~~~~~eeel~~~~rk~ee~~ 94 (124)
T PF15456_consen 16 FEILSFEEVEELKKELRSLDSRLEYLRRKLA-LESKIRDAAHSLSRLYSSSSRRARFSRESSLKAEEELAESDRKCEELA 94 (124)
T ss_pred CcccCHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcCCCccccCCCcchHHHHHHHHHHHHhhHHHHH
Confidence 6777889999998888888888887776666 44444 33333333 3445555666666666666
Q ss_pred HHHHHhh
Q 027236 137 NKLAKLR 143 (226)
Q Consensus 137 ~kL~~l~ 143 (226)
.+|..+.
T Consensus 95 ~eL~~le 101 (124)
T PF15456_consen 95 QELWKLE 101 (124)
T ss_pred HHHHHHH
Confidence 6665554
No 175
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=82.19 E-value=27 Score=28.72 Aligned_cols=32 Identities=25% Similarity=0.396 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027236 83 QMKEENAKLQEQLEEQRKAISKLEGEIRTLQS 114 (226)
Q Consensus 83 ~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~ 114 (226)
.+..++.++.....++...+..+..++..+..
T Consensus 78 ~l~~ELael~r~~~el~~~L~~~~~~l~~l~~ 109 (194)
T PF08614_consen 78 KLQEELAELYRSKGELAQQLVELNDELQELEK 109 (194)
T ss_dssp --------------------------------
T ss_pred cccccccccccccccccccccccccccchhhh
Confidence 33444444444444444444444444444443
No 176
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=82.15 E-value=4.6 Score=34.78 Aligned_cols=58 Identities=21% Similarity=0.352 Sum_probs=48.5
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEE
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYI 67 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~ 67 (226)
+|-+.||+-|...+--.+..++.+.+ ||+.+.|..++..|...|.|....-|..-.|+
T Consensus 183 eAv~~IL~~L~~~egrlse~eLAerl---GVSRs~ireAlrkLE~aGvIe~r~LG~kGt~V 240 (251)
T TIGR02787 183 EAVEHIFEELDGNEGLLVASKIADRV---GITRSVIVNALRKLESAGVIESRSLGMKGTYI 240 (251)
T ss_pred HHHHHHHHHhccccccccHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEeccCCCCccEe
Confidence 67788888888766667877888877 89999999999999999999999988544444
No 177
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=82.09 E-value=15 Score=26.10 Aligned_cols=47 Identities=15% Similarity=0.331 Sum_probs=38.1
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
.|+..+.. .|-...++...++ +|+...+.+.|..|.+.|+|....+.
T Consensus 9 ~IL~~l~~--g~~rf~el~~~l~--~is~~~L~~~L~~L~~~GLv~r~~~~ 55 (90)
T PF01638_consen 9 LILRALFQ--GPMRFSELQRRLP--GISPKVLSQRLKELEEAGLVERRVYP 55 (90)
T ss_dssp HHHHHHTT--SSEEHHHHHHHST--TS-HHHHHHHHHHHHHTTSEEEEEES
T ss_pred HHHHHHHh--CCCcHHHHHHhcc--hhHHHHHHHHHHHHHHcchhhccccc
Confidence 45666665 6888788988885 79999999999999999999888773
No 178
>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=82.02 E-value=15 Score=26.04 Aligned_cols=54 Identities=19% Similarity=0.308 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSN-LTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~-~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+......++..+...++-+..+-.. .|.++-..+|.+|++++....+-|..|++
T Consensus 26 ~~~~~~~lk~Klq~ar~~i~~lpgi~~s~eeq~~~i~~Le~~i~~k~~~L~~~~~ 80 (83)
T PF07544_consen 26 LDTATGSLKHKLQKARAAIRELPGIDRSVEEQEEEIEELEEQIRKKREVLQKFKE 80 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444455555555555555543 77789999999999999999998888874
No 179
>PRK03918 chromosome segregation protein; Provisional
Probab=81.80 E-value=29 Score=34.94 Aligned_cols=30 Identities=33% Similarity=0.480 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIRTLQ 113 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~~l~ 113 (226)
+..++..++.++..++.++..+..++..+.
T Consensus 624 ~~~~l~~~~~~i~~l~~~i~~l~~~~~~l~ 653 (880)
T PRK03918 624 LEEELDKAFEELAETEKRLEELRKELEELE 653 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444555555555555555554
No 180
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=81.79 E-value=56 Score=32.23 Aligned_cols=76 Identities=21% Similarity=0.288 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhC--CC------------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 119 EQIREKEAQLVKEVKEMENKLAKLRG--GV------------TLVKPEDRMAVEEMFLEKLSQWRKRKRMLRDIWDPIME 184 (226)
Q Consensus 119 ~el~~~i~~L~~e~~~l~~kL~~l~~--~~------------~~vs~ee~~~~~~~~~~~~~~w~kRkri~~~i~~~i~e 184 (226)
++|.++..+-..++.++..+++.|.. |. ..+|-+.++.+...+..++++...|.+-+.+++..|
T Consensus 113 e~lr~qk~eR~~ef~el~~qie~l~~~l~g~~~~~~~~~~D~~dlsl~kLeelr~~L~~L~~ek~~Rlekv~~~~~~I-- 190 (660)
T KOG4302|consen 113 EGLRKQKDERRAEFKELYHQIEKLCEELGGPEDLPSFLIADESDLSLEKLEELREHLNELQKEKSDRLEKVLELKEEI-- 190 (660)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCcccccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
Confidence 55555666666666666666666642 11 245667888888999999999999986555554443
Q ss_pred cCCCCHHHHHHHhCcccc
Q 027236 185 NSPKNLKEFKEELGIEYD 202 (226)
Q Consensus 185 ~~~~~~k~l~e~lGie~D 202 (226)
..+++.||++..
T Consensus 191 ------~~l~~~Lg~~~~ 202 (660)
T KOG4302|consen 191 ------KSLCSVLGLDFS 202 (660)
T ss_pred ------HHHHHHhCCCcc
Confidence 346666666654
No 181
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=81.45 E-value=46 Score=30.99 Aligned_cols=20 Identities=20% Similarity=0.287 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHhc
Q 027236 166 SQWRKRKRMLRDIWDPIMEN 185 (226)
Q Consensus 166 ~~w~kRkri~~~i~~~i~e~ 185 (226)
..-+.|++.+-.+++++.-.
T Consensus 108 ~q~r~qr~~La~~L~A~~r~ 127 (420)
T COG4942 108 VQEREQRRRLAEQLAALQRS 127 (420)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 33366777777788876554
No 182
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=81.36 E-value=3.8 Score=32.33 Aligned_cols=54 Identities=17% Similarity=0.281 Sum_probs=45.7
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
..|....+.|+- .|+||..+|..-|...|++...|..+|+.|.+.|.|.-..|.
T Consensus 11 ~~a~~~al~~L~--~r~~s~~el~~kL~~kg~~~~~i~~vl~~l~~~~~ldD~~~a 64 (157)
T PRK00117 11 ASARARALRLLA--RREHSRAELRRKLAAKGFSEEVIEAVLDRLKEEGLLDDERFA 64 (157)
T ss_pred HHHHHHHHHHHc--cchhHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence 567777888886 779999999999988899999999999999999887544443
No 183
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=81.33 E-value=22 Score=30.07 Aligned_cols=48 Identities=17% Similarity=0.215 Sum_probs=38.1
Q ss_pred hcCCC--CcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 18 EQNRP--LNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 18 ~~nrP--ys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
..++| -|..++.+.+ +++++++.+.|+.|.+.|+|.....+....++.
T Consensus 15 ~l~~~~~IS~~eLA~~L---~iS~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~L 64 (217)
T PRK14165 15 AVNNTVKISSSEFANHT---GTSSKTAARILKQLEDEGYITRTIVPRGQLITI 64 (217)
T ss_pred ccCCCCCcCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEEEEcCCceEEEE
Confidence 34444 5788888888 799999999999999999999887765544444
No 184
>PRK05638 threonine synthase; Validated
Probab=81.29 E-value=4.8 Score=37.45 Aligned_cols=60 Identities=22% Similarity=0.300 Sum_probs=49.5
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee-ecCceeEEEe
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK-EYGKQKIYIA 68 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K-~~GK~kiY~~ 68 (226)
+..+-.||.+|.+. |.+..+|...+.. .++.++|-..|..|.+.|+|... .-|+.++|..
T Consensus 370 ~~~r~~IL~~L~~~--~~~~~el~~~l~~-~~s~~~v~~hL~~Le~~GLV~~~~~~g~~~~Y~L 430 (442)
T PRK05638 370 GGTKLEILKILSER--EMYGYEIWKALGK-PLKYQAVYQHIKELEELGLIEEAYRKGRRVYYKL 430 (442)
T ss_pred cchHHHHHHHHhhC--CccHHHHHHHHcc-cCCcchHHHHHHHHHHCCCEEEeecCCCcEEEEE
Confidence 46688999999844 8889999998853 48999999999999999999874 4488666666
No 185
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=81.25 E-value=3.1 Score=34.61 Aligned_cols=49 Identities=16% Similarity=0.335 Sum_probs=40.4
Q ss_pred hHHHHHHHHHHhc--------------CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 7 NTEAIVLNYVNEQ--------------NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 7 ea~~~Il~y~~~~--------------nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
.++++|..||..- .-|++-++|.+.| |++..+|.++|..|..+|+|...
T Consensus 155 ~~~~Rla~~L~~l~~~~~~~~~~~~~~~~~lt~~~iA~~l---G~sr~tvsR~l~~l~~~g~I~~~ 217 (235)
T PRK11161 155 NAEERLAAFIYNLSRRFAQRGFSPREFRLTMTRGDIGNYL---GLTVETISRLLGRFQKSGMLAVK 217 (235)
T ss_pred CHHHHHHHHHHHHHHHHhhcCCCCceeEccccHHHHHHHh---CCcHHHHHHHHHHHHHCCCEEec
Confidence 5677777777652 1378889999988 89999999999999999999844
No 186
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=81.22 E-value=4.5 Score=35.15 Aligned_cols=53 Identities=13% Similarity=0.310 Sum_probs=45.7
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCce
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQ 63 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~ 63 (226)
.+-...|++++....+ .++.++...| +|+..+|.+=|..|.+.|++. +.+|-.
T Consensus 16 ~eR~~~Il~~L~~~~~-vtv~eLa~~l---~VS~~TIRRDL~~Le~~G~l~-r~~GGa 68 (269)
T PRK09802 16 SERREQIIQRLRQQGS-VQVNDLSALY---GVSTVTIRNDLAFLEKQGIAV-RAYGGA 68 (269)
T ss_pred HHHHHHHHHHHHHcCC-EeHHHHHHHH---CCCHHHHHHHHHHHHhCCCeE-EEeCCE
Confidence 5668899999997665 8999999988 899999999999999999998 666664
No 187
>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=81.22 E-value=34 Score=29.30 Aligned_cols=82 Identities=17% Similarity=0.223 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH----HHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHH
Q 027236 83 QMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL----EQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVE 158 (226)
Q Consensus 83 ~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~----~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~ 158 (226)
-+..-|.+|..++..+..++-.|......-+...+. +++...+...+-=+..|+.-|..|.++. ++|+.+..++
T Consensus 126 wl~~~Id~L~~QiE~~E~E~E~L~~~~kKkk~~~~~~~r~~~l~~~ierhk~Hi~kLE~lLR~L~N~~--l~~e~V~~ik 203 (233)
T PF04065_consen 126 WLKDSIDELNRQIEQLEAEIESLSSQKKKKKKDSTKQERIEELESRIERHKFHIEKLELLLRLLDNDE--LDPEQVEDIK 203 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccCccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC--CCHHHHHHHH
Confidence 345555666666666665555555433222111222 5666667777777778888777777654 7899988888
Q ss_pred HHHHHHHH
Q 027236 159 EMFLEKLS 166 (226)
Q Consensus 159 ~~~~~~~~ 166 (226)
..+..+..
T Consensus 204 edieyYve 211 (233)
T PF04065_consen 204 EDIEYYVE 211 (233)
T ss_pred HHHHHHHH
Confidence 77754443
No 188
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=80.92 E-value=7 Score=27.71 Aligned_cols=54 Identities=15% Similarity=0.212 Sum_probs=40.6
Q ss_pred HHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 10 AIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 10 ~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
....-+....++|.|=..|.+.| |++.++|-|.+++|-+.|.=+.-.- ++-|-.
T Consensus 7 ~~~~ll~~~~~~~~SGe~La~~L---giSRtaVwK~Iq~Lr~~G~~I~s~~--~kGY~L 60 (79)
T COG1654 7 MLLLLLLLLTGNFVSGEKLAEEL---GISRTAVWKHIQQLREEGVDIESVR--GKGYLL 60 (79)
T ss_pred HHHHHHHHcCCCcccHHHHHHHH---CccHHHHHHHHHHHHHhCCceEecC--CCceec
Confidence 33444556678899999999988 8999999999999999997554433 334544
No 189
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=80.84 E-value=16 Score=37.69 Aligned_cols=51 Identities=31% Similarity=0.507 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhccC------CHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 94 QLEEQRKAISKLEGEIRTLQSNL------TLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 94 ~l~~l~~~~k~l~~el~~l~~~~------t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
.+..++..+..++..+..+.... ..+|+..+++.|++++..+++.+..|+.
T Consensus 366 ~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~ 422 (1074)
T KOG0250|consen 366 SIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLRE 422 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444432 2267778888888888888888877764
No 190
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=80.66 E-value=30 Score=28.41 Aligned_cols=57 Identities=16% Similarity=0.180 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC--ceeEEEe
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG--KQKIYIA 68 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G--K~kiY~~ 68 (226)
.+-.||.++.. +.+-+.++|.+.+ ++.+++|..+|+.|..+|+|....-. +=.+|..
T Consensus 46 ~q~~iL~~L~~-~~~itq~eLa~~l---~l~~sTvtr~l~rLE~kGlI~R~~~~~DrR~~~I~ 104 (185)
T PRK13777 46 NEHHILWIAYH-LKGASISEIAKFG---VMHVSTAFNFSKKLEERGYLTFSKKEDDKRNTYIE 104 (185)
T ss_pred HHHHHHHHHHh-CCCcCHHHHHHHH---CCCHhhHHHHHHHHHHCCCEEecCCCCCCCeeEEE
Confidence 34568877765 5588999998866 68999999999999999999976543 3344444
No 191
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=80.44 E-value=15 Score=25.41 Aligned_cols=49 Identities=20% Similarity=0.286 Sum_probs=31.7
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.||.++. +.|-+.++|...+ +++-..+.+.|..|.+.|+|. . ....|..
T Consensus 10 ~IL~~l~--~~~~~~t~i~~~~---~L~~~~~~~yL~~L~~~gLI~--~--~~~~Y~l 58 (77)
T PF14947_consen 10 DILKILS--KGGAKKTEIMYKA---NLNYSTLKKYLKELEEKGLIK--K--KDGKYRL 58 (77)
T ss_dssp HHHHHH---TT-B-HHHHHTTS---T--HHHHHHHHHHHHHTTSEE--E--ETTEEEE
T ss_pred HHHHHHH--cCCCCHHHHHHHh---CcCHHHHHHHHHHHHHCcCee--C--CCCEEEE
Confidence 3555554 5666666675433 789999999999999999992 1 4566666
No 192
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=80.38 E-value=3.2 Score=33.45 Aligned_cols=49 Identities=14% Similarity=0.270 Sum_probs=39.3
Q ss_pred hcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeec
Q 027236 18 EQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQ 70 (226)
Q Consensus 18 ~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q 70 (226)
....|.++.+|...+ +++...+.++|..|+..|+|.+ .-|..==|....
T Consensus 21 ~~~~~vs~~eIA~~~---~ip~~~l~kIl~~L~~aGLv~s-~rG~~GGy~Lar 69 (164)
T PRK10857 21 SEAGPVPLADISERQ---GISLSYLEQLFSRLRKNGLVSS-VRGPGGGYLLGK 69 (164)
T ss_pred CCCCcCcHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEe-CCCCCCCeeccC
Confidence 344699999998877 7999999999999999999998 435444576633
No 193
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=80.20 E-value=56 Score=31.49 Aligned_cols=26 Identities=19% Similarity=0.492 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 119 EQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 119 ~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
.++.+++..++..+..+++.+..|+.
T Consensus 151 ~~leAe~~~~krr~~~le~e~~~Lk~ 176 (546)
T KOG0977|consen 151 SELEAEINTLKRRIKALEDELKRLKA 176 (546)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 56677777788888888888887765
No 194
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=79.98 E-value=3.8 Score=26.99 Aligned_cols=40 Identities=18% Similarity=0.352 Sum_probs=33.7
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHH
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLAD 51 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~ 51 (226)
.+-.|++||.+ ++.+++.++...+ +++.-+++..+..|-+
T Consensus 6 rq~~Ll~~L~~-~~~~~~~ela~~l---~~S~rti~~~i~~L~~ 45 (59)
T PF08280_consen 6 RQLKLLELLLK-NKWITLKELAKKL---NISERTIKNDINELNE 45 (59)
T ss_dssp HHHHHHHHHHH-HTSBBHHHHHHHC---TS-HHHHHHHHHHHHT
T ss_pred HHHHHHHHHHc-CCCCcHHHHHHHH---CCCHHHHHHHHHHHHH
Confidence 35579999999 9999999988877 7999999999998864
No 195
>PRK10079 phosphonate metabolism transcriptional regulator PhnF; Provisional
Probab=79.94 E-value=3.7 Score=34.67 Aligned_cols=37 Identities=19% Similarity=0.359 Sum_probs=28.2
Q ss_pred cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCcee
Q 027236 24 NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQK 64 (226)
Q Consensus 24 s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~k 64 (226)
|-.++...+ ||++.+|.+||+.|+++|+|.. .-|+..
T Consensus 37 sE~eLa~~~---~VSR~TVR~Al~~L~~eGli~r-~~G~Gt 73 (241)
T PRK10079 37 AEQQLAARY---EVNRHTLRRAIDQLVEKGWVQR-RQGVGV 73 (241)
T ss_pred CHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEE-ecCCEE
Confidence 434444443 8999999999999999999984 456654
No 196
>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=79.62 E-value=14 Score=27.74 Aligned_cols=25 Identities=24% Similarity=0.404 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 120 QIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 120 el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+|.++-..|+-|+..|+++|..+..
T Consensus 33 ~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 33 ELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4566777788888888888877754
No 197
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.53 E-value=42 Score=29.31 Aligned_cols=59 Identities=22% Similarity=0.494 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKL 139 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL 139 (226)
..+..+......++.++..|..++..+..++..+... .+++...+..|+.+|.++++++
T Consensus 38 s~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~--i~~~~~eik~l~~eI~~~~~~I 96 (265)
T COG3883 38 SKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKE--IDQSKAEIKKLQKEIAELKENI 96 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455556666666666666666666666665555433 2333444444444444444443
No 198
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=79.48 E-value=6.3 Score=34.89 Aligned_cols=51 Identities=20% Similarity=0.300 Sum_probs=41.4
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCc
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
....|+.++.. ++|.+..+|...+ +|++++|.+.|+.|.+.|.+....-|+
T Consensus 5 r~~~il~~L~~-~~~~s~~~LA~~l---gvsr~tV~~~l~~L~~~G~~i~~~~~~ 55 (319)
T PRK11886 5 VMLQLLSLLAD-GDFHSGEQLGEEL---GISRAAIWKHIQTLEEWGLDIFSVKGK 55 (319)
T ss_pred HHHHHHHHHHc-CCCcCHHHHHHHH---CCCHHHHHHHHHHHHHCCCceEEecCC
Confidence 45678888875 7888988888877 899999999999999999955444443
No 199
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=79.43 E-value=4.4 Score=32.76 Aligned_cols=42 Identities=21% Similarity=0.271 Sum_probs=35.8
Q ss_pred CCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 21 RPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 21 rPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
-|++-++|.+.+ |++..+|.++|..|.++|+|. +|...|+..
T Consensus 148 ~~~t~~~iA~~l---G~tretvsR~l~~l~~~g~I~---~~~~~i~I~ 189 (202)
T PRK13918 148 IYATHDELAAAV---GSVRETVTKVIGELSREGYIR---SGYGKIQLL 189 (202)
T ss_pred ecCCHHHHHHHh---CccHHHHHHHHHHHHHCCCEE---cCCCEEEEE
Confidence 478889998888 899999999999999999996 454557766
No 200
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=79.31 E-value=33 Score=28.00 Aligned_cols=56 Identities=14% Similarity=0.329 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---ccCCHHHHHHHHHHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQ---SNLTLEQIREKEAQLVKEVKE 134 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~---~~~t~~el~~~i~~L~~e~~~ 134 (226)
+-++.+..+...+.+++++|+..+..+...+.... -.-..+|+...|..|++.+..
T Consensus 85 ~R~~lLe~~~~~l~~ri~eLe~~l~~kad~vvsYqll~hr~e~ee~~~~l~~le~~~~~ 143 (175)
T PRK13182 85 VDFEQLEAQLNTITRRLDELERQLQQKADDVVSYQLLQHRREMEEMLERLQKLEARLKK 143 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 44555666666666666666666555555444432 122234444444444444444
No 201
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=79.11 E-value=9.4 Score=29.52 Aligned_cols=51 Identities=12% Similarity=0.246 Sum_probs=41.3
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
++-...|+++.+++. ..+..++.... |++..++.+.|..||+.|-|..--+
T Consensus 11 ~eLk~rIvElVRe~G-RiTi~ql~~~T---GasR~Tvk~~lreLVa~G~l~~~G~ 61 (127)
T PF06163_consen 11 EELKARIVELVREHG-RITIKQLVAKT---GASRNTVKRYLRELVARGDLYRHGR 61 (127)
T ss_pred HHHHHHHHHHHHHcC-CccHHHHHHHH---CCCHHHHHHHHHHHHHcCCeEeCCC
Confidence 556678888888655 57888887766 8999999999999999999877433
No 202
>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=79.06 E-value=45 Score=31.67 Aligned_cols=65 Identities=14% Similarity=0.176 Sum_probs=46.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC----------------CHHHHHHHHHHHHHHHHHHHHHH
Q 027236 76 PNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNL----------------TLEQIREKEAQLVKEVKEMENKL 139 (226)
Q Consensus 76 ~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~----------------t~~el~~~i~~L~~e~~~l~~kL 139 (226)
..++++..++.++..++.++..+..++..++.+++-|.+.. +..++.+....+.+++.++...+
T Consensus 68 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 147 (525)
T TIGR02231 68 PDPERLAELRKQIRELEAELRDLEDRGDALKALAKFLEDIREGLTEPIKDSAKRNEPDLKEWFQAFDFNGSEIERLLTED 147 (525)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678889999999999999999999999888887666532 33555555555555555555544
Q ss_pred H
Q 027236 140 A 140 (226)
Q Consensus 140 ~ 140 (226)
.
T Consensus 148 ~ 148 (525)
T TIGR02231 148 R 148 (525)
T ss_pred H
Confidence 3
No 203
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=78.95 E-value=6.4 Score=31.39 Aligned_cols=56 Identities=20% Similarity=0.282 Sum_probs=42.6
Q ss_pred hHHHHHHHHHHhc--------------CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 7 NTEAIVLNYVNEQ--------------NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 7 ea~~~Il~y~~~~--------------nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.++++|..|+... .-|++-.+|.+.+ |++..+|.++|..|.++|+|... .| .|++.
T Consensus 114 ~~~~Rla~~L~~l~~~~~~~~~~~~~~~~~~t~~~iA~~l---G~tretvsR~l~~l~~~g~I~~~-~~--~i~I~ 183 (193)
T TIGR03697 114 DMGSRLVSFLLILCRDFGVPGQRGVTIDLRLSHQAIAEAI---GSTRVTITRLLGDLRKKKLISIH-KK--KITVH 183 (193)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCeEEecCCCCHHHHHHHh---CCcHHHHHHHHHHHHHCCCEEec-CC--EEEEe
Confidence 4566777776421 2478999999988 89999999999999999999654 23 46655
No 204
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=78.87 E-value=27 Score=26.74 Aligned_cols=52 Identities=19% Similarity=0.415 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHH
Q 027236 77 NSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMEN 137 (226)
Q Consensus 77 ~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~ 137 (226)
+..-+..|...|..+..++..++.++..+..+-. ++.++|-.|..++.+++.
T Consensus 14 ~~~~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~---------~l~~Eiv~l~~~~e~~~~ 65 (120)
T PF12325_consen 14 SVQLVERLQSQLRRLEGELASLQEELARLEAERD---------ELREEIVKLMEENEELRA 65 (120)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHH
Confidence 4455566666666666666666666555554433 444445555555544433
No 205
>TIGR02404 trehalos_R_Bsub trehalose operon repressor, B. subtilis-type. This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from E. coli.
Probab=78.79 E-value=3.2 Score=34.83 Aligned_cols=37 Identities=24% Similarity=0.406 Sum_probs=28.8
Q ss_pred cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCcee
Q 027236 24 NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQK 64 (226)
Q Consensus 24 s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~k 64 (226)
|-.++...+ ||++++|.+||+.|+++|+|..+. |+..
T Consensus 26 sE~eLa~~~---gVSR~TVR~Al~~L~~eGli~r~~-G~GT 62 (233)
T TIGR02404 26 SEHELMDQY---GASRETVRKALNLLTEAGYIQKIQ-GKGS 62 (233)
T ss_pred CHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEeC-CceE
Confidence 545555544 899999999999999999998765 4444
No 206
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=78.63 E-value=30 Score=27.08 Aligned_cols=13 Identities=23% Similarity=0.015 Sum_probs=5.8
Q ss_pred HHHHHHHcCCcce
Q 027236 45 ALDSLADNGKISF 57 (226)
Q Consensus 45 ~L~~Lv~~g~i~~ 57 (226)
+-..|+.-|.+..
T Consensus 7 iN~~L~s~G~~~~ 19 (151)
T PF11559_consen 7 INQQLLSRGYPSD 19 (151)
T ss_pred HHHHHHHCCCCCC
Confidence 3344444444443
No 207
>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=78.54 E-value=18 Score=28.44 Aligned_cols=19 Identities=16% Similarity=0.268 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027236 120 QIREKEAQLVKEVKEMENK 138 (226)
Q Consensus 120 el~~~i~~L~~e~~~l~~k 138 (226)
.|...+...+.+|.+|+..
T Consensus 84 ~L~k~lq~~q~kv~eLE~~ 102 (140)
T PF10473_consen 84 NLDKELQKKQEKVSELESL 102 (140)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444443
No 208
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=78.51 E-value=56 Score=34.84 Aligned_cols=28 Identities=18% Similarity=0.248 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCHHHHHH
Q 027236 168 WRKRKRMLRDIWDPIMENSPKNLKEFKE 195 (226)
Q Consensus 168 w~kRkri~~~i~~~i~e~~~~~~k~l~e 195 (226)
...=..++..|-+++..+.|...+++-.
T Consensus 950 ~~~~~~~~~~i~~y~~~~~~~qL~~~e~ 977 (1311)
T TIGR00606 950 VKNIHGYMKDIENKIQDGKDDYLKQKET 977 (1311)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 3333345555555655665543344333
No 209
>PRK02224 chromosome segregation protein; Provisional
Probab=78.42 E-value=51 Score=33.25 Aligned_cols=33 Identities=21% Similarity=0.335 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH
Q 027236 86 EENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL 118 (226)
Q Consensus 86 ~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~ 118 (226)
..+..+.+....++.++..++.++..+...++.
T Consensus 613 ~~~~~l~~~~~~~~~~l~~~r~~i~~l~~~~~~ 645 (880)
T PRK02224 613 EKREALAELNDERRERLAEKRERKRELEAEFDE 645 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCH
Confidence 333334334445555555566666665544444
No 210
>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=78.39 E-value=12 Score=35.31 Aligned_cols=28 Identities=25% Similarity=0.265 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 86 EENAKLQEQLEEQRKAISKLEGEIRTLQ 113 (226)
Q Consensus 86 ~~i~~l~~~l~~l~~~~k~l~~el~~l~ 113 (226)
.++.+++.++..+..+.+.|.+|...|+
T Consensus 66 a~~k~~r~~~~~l~~~N~~l~~eN~~L~ 93 (472)
T TIGR03752 66 AEVKELRKRLAKLISENEALKAENERLQ 93 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444444443
No 211
>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=78.36 E-value=20 Score=26.62 Aligned_cols=64 Identities=17% Similarity=0.365 Sum_probs=39.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 77 NSEELNQMKEENAKLQEQLEEQRKAISKL--EGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 77 ~~ee~~~l~~~i~~l~~~l~~l~~~~k~l--~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
+.+++..+...+......+..++.++.++ ...+..|.. ..+++...+..+..++..+...+.-|
T Consensus 33 ~~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l--~l~el~G~~~~l~~~l~~v~~~~~lL 98 (106)
T PF10805_consen 33 KREDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQL--ELAELRGELKELSARLQGVSHQLDLL 98 (106)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHH--HHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 36777777666666666666666666666 566666653 33455556666666666665555443
No 212
>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=78.24 E-value=23 Score=25.55 Aligned_cols=39 Identities=13% Similarity=0.286 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH
Q 027236 80 ELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL 118 (226)
Q Consensus 80 e~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~ 118 (226)
.+..+..++..+..++..++.++..+..-+..|...++.
T Consensus 6 ~~~~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~ 44 (106)
T PF01920_consen 6 KFQELNQQLQQLEQQIQQLERQLRELELTLEELEKLDDD 44 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 455667777777777777777777777777777765433
No 213
>PRK10884 SH3 domain-containing protein; Provisional
Probab=78.07 E-value=19 Score=30.24 Aligned_cols=54 Identities=13% Similarity=0.239 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 86 EENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 86 ~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
..+..++.+++.++.++..+..+.. -...++...+++..+.+.+|+++...|+.
T Consensus 93 ~rlp~le~el~~l~~~l~~~~~~~~-----~~~~~l~~~~~~~~~~~~~L~~~n~~L~~ 146 (206)
T PRK10884 93 TRVPDLENQVKTLTDKLNNIDNTWN-----QRTAEMQQKVAQSDSVINGLKEENQKLKN 146 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555555544444443322 22367788888888888888888888863
No 214
>PF10376 Mei5: Double-strand recombination repair protein ; InterPro: IPR018468 Mei5 is one of a pair of meiosis-specific proteins which facilitate the loading of Dmc1 on to Rad51 on DNA at double-strand breaks during recombination. Recombination is carried out by a large protein complex based around the two RecA homologues, Rad51 and Dmc1 []. This complex may play both a catalytic and a structural role in the interaction between homologous chromosomes during meiosis. Mei5 is seen to contain a coiled-coli region.
Probab=78.05 E-value=41 Score=28.52 Aligned_cols=83 Identities=23% Similarity=0.406 Sum_probs=46.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHh--cCCCCHHHH
Q 027236 117 TLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQWRKRK-RMLRDIWDPIME--NSPKNLKEF 193 (226)
Q Consensus 117 t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w~kRk-ri~~~i~~~i~e--~~~~~~k~l 193 (226)
...+|..+...|+.++.+.++.|..|..-..--+..+...++..+ ..|+.-. ..+.++...+.+ +-.+++.+|
T Consensus 132 ~~~el~~ek~kL~~q~~e~~e~lr~L~~~k~~r~Kn~~~~Lq~lI----~Kwr~~~q~~l~eL~~~~~~~e~~~~TM~eL 207 (221)
T PF10376_consen 132 KQQELEEEKRKLEKQVDEKEEELRRLKLVKQYRSKNDLEQLQSLI----KKWRSASQEALYELQSEMSEEEGEKFTMGEL 207 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhccHHHHHHHH----HHHHHHHHHHHHHHHHHHhhccccCccHHHH
Confidence 346677777777788888777777665210000112222233333 3333321 133455555555 344468999
Q ss_pred HHHhCccccc
Q 027236 194 KEELGIEYDE 203 (226)
Q Consensus 194 ~e~lGie~De 203 (226)
+..|||+.+.
T Consensus 208 ~~~l~ID~~L 217 (221)
T PF10376_consen 208 IKRLGIDYDL 217 (221)
T ss_pred HHHhCCCccc
Confidence 9999999863
No 215
>TIGR01529 argR_whole arginine repressor. This model includes most members of the arginine-responsive transcriptional regulator family ArgR. This hexameric protein binds DNA at its amino end to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbor-joining tree, some of these paralogous sequences show long branches and differ significantly in an otherwise well-conserved C-terminal region motif GT[VIL][AC]GDDT. These paralogs are excluded from the seed and score in the gray zone of this model, between trusted and noise cutoffs.
Probab=77.97 E-value=27 Score=27.51 Aligned_cols=57 Identities=9% Similarity=0.223 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcc--cccHHHHHHHHHHHHHcCCcceeecCce-eEEEe
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKY--NLKKAGIQKALDSLADNGKISFKEYGKQ-KIYIA 68 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~--~v~K~~v~k~L~~Lv~~g~i~~K~~GK~-kiY~~ 68 (226)
.+..++..|.+++.+.+..+|...|.+. .|+-++|-. .|.+-|++.... |.. .+|.+
T Consensus 2 ~R~~~i~~Li~~~~i~tqeeL~~~L~~~G~~vsqaTIsR---dL~elglvk~~~-~~g~~~Y~~ 61 (146)
T TIGR01529 2 QRQERIKEIITEEKISTQEELVALLKAEGIEVTQATVSR---DLRELGAVKVRD-EDGSYVYSL 61 (146)
T ss_pred hHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCcCHHHHHH---HHHHcCCEEEEC-CCCcEEEee
Confidence 5677888899999999999999999875 466788877 677788886555 444 45655
No 216
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=77.92 E-value=2.1 Score=32.06 Aligned_cols=38 Identities=24% Similarity=0.256 Sum_probs=27.3
Q ss_pred HHHHHHHHhc-ccccHHHHHHHHHHHHHcCCcceeecCc
Q 027236 25 SQNVADALQK-YNLKKAGIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 25 ~~di~~~l~~-~~v~K~~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
++.|.|-|=+ ..++....+++++.|..+........+.
T Consensus 26 ~~klvDelVkkGeln~eEak~~vddl~~q~k~~~~e~e~ 64 (108)
T COG3937 26 VQKLVDELVKKGELNAEEAKRFVDDLLRQAKEAQGELEE 64 (108)
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhhhHHH
Confidence 4566776655 4599999999999999987755554443
No 217
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=77.75 E-value=43 Score=30.18 Aligned_cols=86 Identities=20% Similarity=0.247 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVE 158 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~ 158 (226)
+|...+..+..+|++......+.+.++.+-.... ...|..-+..++++...|..++.+.....++.+++++
T Consensus 4 eEW~eL~~efq~Lqethr~Y~qKleel~~lQ~~C---------~ssI~~QkkrLk~L~~sLk~~~~~~~~e~~~~i~~L~ 74 (330)
T PF07851_consen 4 EEWEELQKEFQELQETHRSYKQKLEELSKLQDKC---------SSSISHQKKRLKELKKSLKRCKKSLSAEERELIEKLE 74 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHhccCCChhHHHHHHHHH
Confidence 3444445555555555544444444443333222 2334444556677777777776553322333333444
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 027236 159 EMFLEKLSQWRKRKRMLRDIWD 180 (226)
Q Consensus 159 ~~~~~~~~~w~kRkri~~~i~~ 180 (226)
. .-.+|+..+.|+-.
T Consensus 75 ~-------~Ik~r~~~l~DmEa 89 (330)
T PF07851_consen 75 E-------DIKERRCQLFDMEA 89 (330)
T ss_pred H-------HHHHHHhhHHHHHh
Confidence 3 34556556666553
No 218
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=77.75 E-value=9.4 Score=29.54 Aligned_cols=50 Identities=18% Similarity=0.388 Sum_probs=42.8
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceee
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKE 59 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~ 59 (226)
++....||+.+..-.| -+..+|.+.+ |++.++|..-+..|.++|.|..-.
T Consensus 7 D~~D~~IL~~L~~d~r-~~~~eia~~l---glS~~~v~~Ri~~L~~~GiI~~~~ 56 (154)
T COG1522 7 DDIDRRILRLLQEDAR-ISNAELAERV---GLSPSTVLRRIKRLEEEGVIKGYT 56 (154)
T ss_pred cHHHHHHHHHHHHhCC-CCHHHHHHHH---CCCHHHHHHHHHHHHHCCceeeEE
Confidence 7778899999998777 7777888877 899999999999999999886543
No 219
>PF15294 Leu_zip: Leucine zipper
Probab=77.69 E-value=2.2 Score=37.40 Aligned_cols=133 Identities=18% Similarity=0.213 Sum_probs=0.0
Q ss_pred CcHHHHHHHHhc-ccccHHHHHHHHHHHHHcCCcceeecCce--eEEEeecCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 027236 23 LNSQNVADALQK-YNLKKAGIQKALDSLADNGKISFKEYGKQ--KIYIARQDQFDIPNSEELNQMKEENAKLQEQLEEQR 99 (226)
Q Consensus 23 ys~~di~~~l~~-~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~--kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~~l~~l~ 99 (226)
|+..+|.+.|.. ..+.++.|..-|..-.--+.+.++-...| ++|.-.|-... .-+..+|-++++..+
T Consensus 30 ~T~~EV~~~ldgL~~~v~~~vesEL~N~~htn~lllrql~~qAek~~lkl~~dis----------elEn~eLLe~i~~~E 99 (278)
T PF15294_consen 30 YTSDEVTEMLDGLQVVVKSEVESELINTSHTNVLLLRQLFSQAEKWYLKLQTDIS----------ELENRELLEQIAEFE 99 (278)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhHHHhHHHHHHHHHHHHHHHHHHhcccHH----------HHHHHHHHHHHHHHH
Q ss_pred HHHHHHHH---------HHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH
Q 027236 100 KAISKLEG---------EIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLS 166 (226)
Q Consensus 100 ~~~k~l~~---------el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~ 166 (226)
..--.... .|..+....+.+=+..+|..|+.|+..++++|..+. ..+..-.++..++...+.....
T Consensus 100 ~~~~~~~~~~~~~~~~~KL~pl~e~g~~~ll~kEi~rLq~EN~kLk~rl~~le-~~at~~l~Ek~kl~~~L~~lq~ 174 (278)
T PF15294_consen 100 KQEFTSSFKPNQETSKPKLEPLNESGGSELLNKEIDRLQEENEKLKERLKSLE-KQATSALDEKSKLEAQLKELQD 174 (278)
T ss_pred HhhhcccCCccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
No 220
>TIGR03338 phnR_burk phosphonate utilization associated transcriptional regulator. This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Polaromonas, Burkholderia, Ralstonia and Verminephrobacter.
Probab=77.67 E-value=37 Score=27.70 Aligned_cols=39 Identities=18% Similarity=0.376 Sum_probs=31.4
Q ss_pred CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 20 NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 20 nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
+...+-.++...+ ||+++.|-++|..|..+|+|.....+
T Consensus 32 G~~L~e~~La~~l---gVSRtpVReAL~~L~~eGlv~~~~~~ 70 (212)
T TIGR03338 32 GAKLNESDIAARL---GVSRGPVREAFRALEEAGLVRNEKNR 70 (212)
T ss_pred CCEecHHHHHHHh---CCChHHHHHHHHHHHHCCCEEEecCC
Confidence 4445666666655 89999999999999999999887654
No 221
>PRK14999 histidine utilization repressor; Provisional
Probab=77.59 E-value=5.1 Score=33.81 Aligned_cols=37 Identities=19% Similarity=0.294 Sum_probs=28.6
Q ss_pred cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCcee
Q 027236 24 NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQK 64 (226)
Q Consensus 24 s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~k 64 (226)
|-.++.+.+ ||++++|.+||+.|+++|+|..+ =|+..
T Consensus 38 sE~eLa~~~---gVSR~TVR~Al~~L~~eGli~r~-~GkGT 74 (241)
T PRK14999 38 SEAELVAQY---GFSRMTINRALRELTDEGWLVRL-QGVGT 74 (241)
T ss_pred CHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEe-cCcEE
Confidence 545555544 89999999999999999999654 45554
No 222
>KOG3230 consensus Vacuolar assembly/sorting protein DID4 [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.48 E-value=41 Score=28.08 Aligned_cols=130 Identities=12% Similarity=0.237 Sum_probs=82.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH--H-----HH------HHHHHHHHHHHHHHHHHHHHhhCCC---
Q 027236 83 QMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL--E-----QI------REKEAQLVKEVKEMENKLAKLRGGV--- 146 (226)
Q Consensus 83 ~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~--~-----el------~~~i~~L~~e~~~l~~kL~~l~~~~--- 146 (226)
.|...+.++..+...++.+.+.+-.+++...+..-. . +| .......+.++....-++..+++++
T Consensus 20 al~~a~ReleRer~~le~qeKklvaeIKk~AK~gq~~A~KimAkdLvRtR~~i~kf~~~kaqiqaVSl~iQtlkss~sma 99 (224)
T KOG3230|consen 20 ALNKATRELERERQKLELQEKKLVAEIKKTAKQGQMDAVKIMAKDLVRTRRYIKKFQNMKAQIQAVSLRIQTLKSSTSMA 99 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 455666777788888888889999999887765333 1 11 1123334566666667777776532
Q ss_pred --------------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC------HHHHHHHhCcccccccc
Q 027236 147 --------------TLVKPEDRMAVEEMFLEKLSQWRKRKRMLRDIWDPIMENSPKN------LKEFKEELGIEYDEDVG 206 (226)
Q Consensus 147 --------------~~vs~ee~~~~~~~~~~~~~~w~kRkri~~~i~~~i~e~~~~~------~k~l~e~lGie~Ded~~ 206 (226)
...++..+.++-.+|.+--..---+--+..+.||-..+.-+.. ..+++++|||..-...
T Consensus 100 ~aMkGaTkam~~MNrqmnlpq~qkIm~eFekQse~Mdm~~Emm~daIDdal~~~edEEEtd~lvnqVLDEiGvdl~~qL- 178 (224)
T KOG3230|consen 100 QAMKGATKAMAGMNRQMNLPQIQKIMQEFEKQSEIMDMKEEMMDDAIDDALGDDEDEEETDDLVNQVLDEIGVDLASQL- 178 (224)
T ss_pred HHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHHHHcccHHHHh-
Confidence 3456667777777777666666666666665555444332221 2678999999876544
Q ss_pred cchhhch
Q 027236 207 VSLQSFS 213 (226)
Q Consensus 207 v~~~~~~ 213 (226)
.++|+..
T Consensus 179 ~~~P~~~ 185 (224)
T KOG3230|consen 179 SSLPSAA 185 (224)
T ss_pred ccCcccc
Confidence 4556533
No 223
>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=77.21 E-value=76 Score=31.06 Aligned_cols=85 Identities=18% Similarity=0.234 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC----------------HHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLT----------------LEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t----------------~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
.++..++.++.++..+...+.+++..++.++..+..... .+++..++.+++.+..+.+.++..+
T Consensus 209 ~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l~~~~~~~GG~~~~~r~~Le~ei~~le~e~~e~~~~l~~l 288 (650)
T TIGR03185 209 SEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLEKKFRSEGGDLFEEREQLERQLKEIEAARKANRAQLREL 288 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666666555555555555555444444433211 2477778888888888888888888
Q ss_pred hCCCCC--CCHHHHHHHHHHHHH
Q 027236 143 RGGVTL--VKPEDRMAVEEMFLE 163 (226)
Q Consensus 143 ~~~~~~--vs~ee~~~~~~~~~~ 163 (226)
.++.-| +.+.-+..+...+..
T Consensus 289 ~~~~~p~~l~~~ll~~~~~q~~~ 311 (650)
T TIGR03185 289 AADPLPLLLIPNLLDSTKAQLQK 311 (650)
T ss_pred hcccCCHhhhHHHHHHHHHHHHH
Confidence 765432 455666665555443
No 224
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=77.11 E-value=43 Score=28.17 Aligned_cols=39 Identities=15% Similarity=0.344 Sum_probs=33.1
Q ss_pred CCCC-cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 20 NRPL-NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 20 nrPy-s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
+.+. |-.++...+ ||+++.|-++|..|..+|+|.....+
T Consensus 28 G~~LPsE~eLa~~~---gVSRtpVREAL~~L~~eGlV~~~~~~ 67 (251)
T PRK09990 28 GQALPSERRLCEKL---GFSRSALREGLTVLRGRGIIETAQGR 67 (251)
T ss_pred CCcCcCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEeCCC
Confidence 4457 777777766 89999999999999999999988764
No 225
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=76.97 E-value=8.2 Score=33.10 Aligned_cols=53 Identities=15% Similarity=0.274 Sum_probs=45.5
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCce
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQ 63 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~ 63 (226)
++-+..|++|+.+ +...++.++...+ +|+..+|-+-|..|.+.|+|.. .+|-.
T Consensus 4 ~~R~~~Il~~l~~-~~~~~~~ela~~l---~vS~~TirRdL~~Le~~g~i~r-~~gga 56 (251)
T PRK13509 4 AQRHQILLELLAQ-LGFVTVEKVIERL---GISPATARRDINKLDESGKLKK-VRNGA 56 (251)
T ss_pred HHHHHHHHHHHHH-cCCcCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEE-ecCCc
Confidence 4677889999994 7789999999988 7999999999999999999865 56555
No 226
>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=76.94 E-value=28 Score=25.88 Aligned_cols=39 Identities=13% Similarity=0.187 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH
Q 027236 80 ELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL 118 (226)
Q Consensus 80 e~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~ 118 (226)
.+..+..++..+..++..+..++.+...-+..|...++.
T Consensus 11 ~~q~~q~~~~~l~~q~~~le~~~~E~~~v~~eL~~l~~d 49 (110)
T TIGR02338 11 QLQQLQQQLQAVATQKQQVEAQLKEAEKALEELERLPDD 49 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCc
Confidence 356667778888888888888888888877777776554
No 227
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=76.76 E-value=45 Score=28.22 Aligned_cols=82 Identities=15% Similarity=0.264 Sum_probs=62.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCC-CCCCHHH
Q 027236 75 IPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGV-TLVKPED 153 (226)
Q Consensus 75 ~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~-~~vs~ee 153 (226)
.++.-.+..+...+.....++..+...+....+.+..+...|+ .+...+.+....+.++...|..+..++ .++++..
T Consensus 74 ~~~~~s~~eLeq~l~~~~~~L~~~q~~l~~~~~~l~~~~~~p~--~aq~~l~~~~~~l~ei~~~L~~~~~~~~~~l~~a~ 151 (240)
T PF12795_consen 74 ILANLSLEELEQRLSQEQAQLQELQEQLQQENSQLIEIQTRPE--RAQQQLSEARQRLQEIRNQLQNLPPNGESPLSEAQ 151 (240)
T ss_pred CcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHH--HHHHHHHHHHHHHHHHHHHHhccCCCCcchhhHHH
Confidence 3334446667789999999999999999999999999887764 567788888899999999988876544 5566665
Q ss_pred HHHHH
Q 027236 154 RMAVE 158 (226)
Q Consensus 154 ~~~~~ 158 (226)
...+.
T Consensus 152 ~~~l~ 156 (240)
T PF12795_consen 152 RWLLQ 156 (240)
T ss_pred HHHHH
Confidence 55443
No 228
>PRK04406 hypothetical protein; Provisional
Probab=76.75 E-value=23 Score=24.78 Aligned_cols=52 Identities=17% Similarity=0.250 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+.+.+..|+..+...+..+..|+... .+-...|..|+.++..|..+|..+.+
T Consensus 9 le~Ri~~LE~~lAfQE~tIe~LN~~v--~~Qq~~I~~L~~ql~~L~~rl~~~~~ 60 (75)
T PRK04406 9 LEERINDLECQLAFQEQTIEELNDAL--SQQQLLITKMQDQMKYVVGKVKNMDS 60 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 44445555555555555555555433 23456678888888888888877764
No 229
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=76.61 E-value=10 Score=35.83 Aligned_cols=50 Identities=22% Similarity=0.330 Sum_probs=42.8
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
..+..||.++.... +.+..+|...+ ++..++|..+++.|...|+|....-
T Consensus 6 ~~e~~vL~~L~~~~-~~s~~eLA~~l---~l~~~tVt~~i~~Le~kGlV~~~~~ 55 (489)
T PRK04172 6 PNEKKVLKALKELK-EATLEELAEKL---GLPPEAVMRAAEWLEEKGLVKVEER 55 (489)
T ss_pred HHHHHHHHHHHhCC-CCCHHHHHHHh---CcCHHHHHHHHHHHHhCCCEEEEee
Confidence 35678999997655 88999998877 7999999999999999999998753
No 230
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=76.33 E-value=8.7 Score=31.14 Aligned_cols=41 Identities=20% Similarity=0.305 Sum_probs=33.0
Q ss_pred CCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEE
Q 027236 22 PLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIY 66 (226)
Q Consensus 22 Pys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY 66 (226)
|++-++|.+.+ |++..+|-++|..|.++|+|... .|+-.||
T Consensus 168 ~~t~~~lA~~l---G~tr~tvsR~l~~l~~~gii~~~-~~~i~i~ 208 (211)
T PRK11753 168 KITRQEIGRIV---GCSREMVGRVLKMLEDQGLISAH-GKTIVVY 208 (211)
T ss_pred CCCHHHHHHHh---CCCHHHHHHHHHHHHHCCCEEec-CCEEEEe
Confidence 78888888888 89999999999999999988643 3444443
No 231
>PF06224 HTH_42: Winged helix DNA-binding domain; InterPro: IPR009351 This is a family of conserved bacterial proteins with unknown function.
Probab=76.14 E-value=8.3 Score=33.96 Aligned_cols=57 Identities=21% Similarity=0.274 Sum_probs=42.4
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcc-eeec-CceeEEEe
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKIS-FKEY-GKQKIYIA 68 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~-~K~~-GK~kiY~~ 68 (226)
--...|..||. ..-|.++.|+...+ |++++.+..+|.+|++.|.|+ +..= |+. .||+
T Consensus 167 a~~~Lv~Ryl~-~~GPat~~d~a~w~---gl~~~~~r~~l~~l~~~~~L~~v~~~~G~~-~~~~ 225 (327)
T PF06224_consen 167 ALAELVRRYLR-AYGPATLADFAWWS---GLPKTQARRALAQLVEEGELVEVEVEGGKE-PLYD 225 (327)
T ss_pred HHHHHHHHHHH-HcCCccHHHHHHHh---ccCHHHHHHHHHhhccCCcEEEEEEcCcce-eEEe
Confidence 34455666666 55699999998887 799999999999999875554 4444 666 5555
No 232
>TIGR02325 C_P_lyase_phnF phosphonates metabolism transcriptional regulator PhnF. All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond.
Probab=76.11 E-value=4.2 Score=34.03 Aligned_cols=34 Identities=12% Similarity=0.352 Sum_probs=27.6
Q ss_pred cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 24 NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 24 s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
|-.++...+ +|++.+|.+||+.|+++|+|..+--
T Consensus 34 sE~eLa~~~---~VSR~TvR~Al~~L~~eGli~r~~G 67 (238)
T TIGR02325 34 AEMQLAERF---GVNRHTVRRAIAALVERGLLRAEQG 67 (238)
T ss_pred CHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEecC
Confidence 544554444 8999999999999999999988754
No 233
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=75.97 E-value=53 Score=28.91 Aligned_cols=70 Identities=26% Similarity=0.364 Sum_probs=40.1
Q ss_pred CCHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH------------HHHHHHHHHHHHHHHHHHHHH
Q 027236 76 PNSEE----LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL------------EQIREKEAQLVKEVKEMENKL 139 (226)
Q Consensus 76 ~~~ee----~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~------------~el~~~i~~L~~e~~~l~~kL 139 (226)
+++|. +.+...-|.-|+..|.+-...+..-..||..|+++++. -|.+--+.+.++||+.|+.-+
T Consensus 54 P~PEQYLTPLQQKEV~iRHLkakLkes~~~l~dRetEI~eLksQL~RMrEDWIEEECHRVEAQLALKEARkEIkQLkQvi 133 (305)
T PF15290_consen 54 PNPEQYLTPLQQKEVCIRHLKAKLKESENRLHDRETEIDELKSQLARMREDWIEEECHRVEAQLALKEARKEIKQLKQVI 133 (305)
T ss_pred CCHHHhcChHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56676 44445555666666666655555555555555554443 233334556666677776666
Q ss_pred HHhhCC
Q 027236 140 AKLRGG 145 (226)
Q Consensus 140 ~~l~~~ 145 (226)
+..+++
T Consensus 134 eTmrss 139 (305)
T PF15290_consen 134 ETMRSS 139 (305)
T ss_pred HHHHhh
Confidence 666654
No 234
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=75.95 E-value=58 Score=29.04 Aligned_cols=32 Identities=25% Similarity=0.387 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIRTLQSN 115 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~ 115 (226)
+...+..+..-+..+......|..++..|+..
T Consensus 168 L~~~~~~l~~~~~~l~~~~~~L~~e~~~Lk~~ 199 (325)
T PF08317_consen 168 LDKQLEQLDELLPKLRERKAELEEELENLKQL 199 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444445555556666666666666654
No 235
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=75.89 E-value=25 Score=24.73 Aligned_cols=54 Identities=11% Similarity=0.332 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSN-LTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~-~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
.++.+..+..++..++..+..+... |..++|..++..+...+..++.++....+
T Consensus 9 Ir~dIk~vd~KVdaLq~~V~~l~~~~~~v~~l~~klDa~~~~l~~l~~~V~~I~~ 63 (75)
T PF05531_consen 9 IRQDIKAVDDKVDALQTQVDDLESNLPDVTELNKKLDAQSAQLTTLNTKVNEIQD 63 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555666666666666665 66688888888888888888888777664
No 236
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=75.82 E-value=8.8 Score=30.61 Aligned_cols=48 Identities=15% Similarity=0.235 Sum_probs=41.0
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcce
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISF 57 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~ 57 (226)
|+--.+|+..|. .|-..|..+|...+ |++.++|..-++.|.+.|.|..
T Consensus 13 D~~D~~IL~~Lq-~d~R~s~~eiA~~l---glS~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 13 DRIDRNILNELQ-KDGRISNVELSKRV---GLSPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred HHHHHHHHHHhc-cCCCCCHHHHHHHH---CcCHHHHHHHHHHHHHCCCeEE
Confidence 778889999776 55567777898888 8999999999999999999863
No 237
>PRK02119 hypothetical protein; Provisional
Probab=75.63 E-value=24 Score=24.49 Aligned_cols=53 Identities=19% Similarity=0.239 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGG 145 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~ 145 (226)
+.+.+..|+..+...+..+..|+... .+-...|..|+.++..|..+|..+.++
T Consensus 7 ~e~Ri~~LE~rla~QE~tie~LN~~v--~~Qq~~id~L~~ql~~L~~rl~~~~~~ 59 (73)
T PRK02119 7 LENRIAELEMKIAFQENLLEELNQAL--IEQQFVIDKMQVQLRYMANKLKDMQPS 59 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 44444444555555555555555333 234566788888888888888777643
No 238
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=75.58 E-value=9 Score=32.94 Aligned_cols=54 Identities=20% Similarity=0.372 Sum_probs=45.4
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCcee
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQK 64 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~k 64 (226)
++-+..|++++.+ +.+-++.|+...+ +|+..+|-+-|..|.++|+|. +.+|...
T Consensus 4 ~eR~~~Il~~L~~-~~~v~v~eLa~~l---~VS~~TIRRDL~~Le~~g~l~-r~~Gga~ 57 (256)
T PRK10434 4 RQRQAAILEYLQK-QGKTSVEELAQYF---DTTGTTIRKDLVILEHAGTVI-RTYGGVV 57 (256)
T ss_pred HHHHHHHHHHHHH-cCCEEHHHHHHHH---CCCHHHHHHHHHHHHHCCCEE-EEECCEE
Confidence 5678899999997 4568999999988 899999999999999999876 4566653
No 239
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=75.39 E-value=9 Score=32.58 Aligned_cols=58 Identities=24% Similarity=0.276 Sum_probs=44.1
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeec
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQ 70 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q 70 (226)
...|..++.+ |.--.+-.|...+ +++.++|-=.|..|.+-|+|..+..|++.||+||.
T Consensus 176 ~k~I~~eiq~-~~~~t~~~ia~~l---~ls~aTV~~~lk~l~~~Gii~~~~~Gr~iiy~in~ 233 (240)
T COG3398 176 SKAIIYEIQE-NKCNTNLLIAYEL---NLSVATVAYHLKKLEELGIIPEDREGRSIIYSINP 233 (240)
T ss_pred HHHHHHHHhc-CCcchHHHHHHHc---CccHHHHHHHHHHHHHcCCCcccccCceEEEEeCH
Confidence 3455555553 2224444454444 89999999999999999999999999999999954
No 240
>PRK11402 DNA-binding transcriptional regulator FrlR; Provisional
Probab=75.23 E-value=4.6 Score=34.09 Aligned_cols=40 Identities=20% Similarity=0.292 Sum_probs=31.5
Q ss_pred CCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCcee
Q 027236 21 RPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQK 64 (226)
Q Consensus 21 rPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~k 64 (226)
+--|-.++...+ ||++.+|.+||+.|+++|+|..+ -|+..
T Consensus 32 kLPsE~eLa~~~---~VSR~TvR~Al~~L~~eGli~r~-~G~GT 71 (241)
T PRK11402 32 QIPTENELCTQY---NVSRITIRKAISDLVADGVLIRW-QGKGT 71 (241)
T ss_pred cCcCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEe-cCcee
Confidence 345656666655 89999999999999999999866 45555
No 241
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=75.09 E-value=10 Score=36.45 Aligned_cols=67 Identities=25% Similarity=0.332 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH---------HHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL---------EQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~---------~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
-||+..+...+..|+.++.+++.....|..++..|...+.. ++..+.|..+..++..+-..|+.|-+
T Consensus 295 rEEl~~~R~~i~~Lr~klselE~~n~~L~~~I~dL~~ql~e~~r~~e~~L~~kd~~i~~mReec~~l~~Elq~LlD 370 (546)
T KOG0977|consen 295 REELRRIRSRISGLRAKLSELESRNSALEKRIEDLEYQLDEDQRSFEQALNDKDAEIAKMREECQQLSVELQKLLD 370 (546)
T ss_pred HHHHHHHHhcccchhhhhccccccChhHHHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 46677777777778888877777777777777777765433 55666777777777777777777653
No 242
>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=75.00 E-value=23 Score=23.86 Aligned_cols=44 Identities=20% Similarity=0.466 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+++++...+.....++..|... ......|..+|..|+.+++.++
T Consensus 16 ~~eEL~kvk~~n~~~e~kLqea---------E~rn~eL~~ei~~L~~e~ee~r 59 (61)
T PF08826_consen 16 IQEELTKVKSANLAFESKLQEA---------EKRNRELEQEIERLKKEMEELR 59 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHhh
Confidence 4445555555555554444433 3344445555555555554443
No 243
>PHA02562 46 endonuclease subunit; Provisional
Probab=74.90 E-value=77 Score=29.99 Aligned_cols=45 Identities=22% Similarity=0.264 Sum_probs=27.9
Q ss_pred eeEEEeecCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 63 QKIYIARQDQFDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEI 109 (226)
Q Consensus 63 ~kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el 109 (226)
..+..|.|.- +.. +..+..+...+..++.++..+...+..++...
T Consensus 285 ~~Cp~C~~~~-~~~-~~~~~~l~d~i~~l~~~l~~l~~~i~~~~~~~ 329 (562)
T PHA02562 285 GVCPTCTQQI-SEG-PDRITKIKDKLKELQHSLEKLDTAIDELEEIM 329 (562)
T ss_pred CCCCCCCCcC-CCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3666776664 332 56666777777777777776666666444433
No 244
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=74.87 E-value=24 Score=24.22 Aligned_cols=59 Identities=15% Similarity=0.240 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----ccCCHHHHHHHHHHHHHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQ-----SNLTLEQIREKEAQLVKEVKEMEN 137 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~-----~~~t~~el~~~i~~L~~e~~~l~~ 137 (226)
.+...+...++.+..++......++.|..+=.... +...+.+|..++..|++++.....
T Consensus 5 a~~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~r~ 68 (69)
T PF14197_consen 5 AEIATLRNRLDSLTRKNSVHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELEELRA 68 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 44566777777777777777777777766543322 247788999999999998776643
No 245
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=74.81 E-value=25 Score=30.93 Aligned_cols=30 Identities=27% Similarity=0.469 Sum_probs=23.2
Q ss_pred HhccCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 112 LQSNLTLEQIREKEAQLVKEVKEMENKLAK 141 (226)
Q Consensus 112 l~~~~t~~el~~~i~~L~~e~~~l~~kL~~ 141 (226)
..+++...|...+|.+|++-|..+++.|..
T Consensus 113 VEAQLALKEARkEIkQLkQvieTmrssL~e 142 (305)
T PF15290_consen 113 VEAQLALKEARKEIKQLKQVIETMRSSLAE 142 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhch
Confidence 345677788888888888888888887744
No 246
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID. Members of this protein are the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if and only if the species is capable of endospore formation as occurs in the model species Bacillus subtilis. SpoIIID is a DNA binding protein that, in B. subtilis, downregulates many genes but also turns on ten genes.
Probab=74.81 E-value=8.3 Score=27.39 Aligned_cols=36 Identities=14% Similarity=0.268 Sum_probs=30.7
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHH
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKAL 46 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L 46 (226)
++-...|++|+.. ...++.||...+ ||++++|-.+|
T Consensus 5 ~~R~~~I~e~l~~--~~~ti~dvA~~~---gvS~~TVsr~L 40 (80)
T TIGR02844 5 EERVLEIGKYIVE--TKATVRETAKVF---GVSKSTVHKDV 40 (80)
T ss_pred HHHHHHHHHHHHH--CCCCHHHHHHHh---CCCHHHHHHHh
Confidence 3557889999999 667999998877 89999999977
No 247
>TIGR02277 PaaX_trns_reg phenylacetic acid degradation operon negative regulatory protein PaaX. This transcriptional regulator is always found in association with operons believed to be involved in the degradation of phenylacetic acid. The gene product has been shown to bind to the promoter sites and repress their transcription.
Probab=74.70 E-value=5.4 Score=34.96 Aligned_cols=58 Identities=10% Similarity=0.231 Sum_probs=50.9
Q ss_pred HHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecC
Q 027236 14 NYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQD 71 (226)
Q Consensus 14 ~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~ 71 (226)
+|+...+.+.++.++...+.-.||+-.+|--+|..|+.+|.|....-|..++|...+.
T Consensus 9 d~~~~~gg~i~~~~Li~l~~~~gi~~~~vr~al~RL~~~G~l~~~~~grr~~Y~LT~~ 66 (280)
T TIGR02277 9 DAIRPRGGAIWLGSLIEFLAGLGINERLVRTAVSRLVAQGWLQSERKGRRSFYSLTDK 66 (280)
T ss_pred hhccCCCCceeHHHHHHHHHhcCCCcchHHHHHHHHHHCCCEEeeecCCCCEEEECHH
Confidence 5677778889999999988878999999999999999999999988888899977443
No 248
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=74.63 E-value=45 Score=27.19 Aligned_cols=112 Identities=13% Similarity=0.253 Sum_probs=68.8
Q ss_pred CcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec-CceeEE------------EeecCCCCCCCHHHHHH------
Q 027236 23 LNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY-GKQKIY------------IARQDQFDIPNSEELNQ------ 83 (226)
Q Consensus 23 ys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~-GK~kiY------------~~~Q~~~~~~~~ee~~~------ 83 (226)
|+..+|...+ ||+-.++..--+ .|.|.+..- |-..+| +..+.+++ ..++..
T Consensus 1 mti~evA~~l---GVS~~TLRrw~k----~g~L~~~R~~~G~R~y~~~dl~~L~~I~~l~~~Gm~---i~~i~~~~~~~l 70 (175)
T PRK13182 1 MKTPFVAKKL---GVSPKTVQRWVK----QLNLPCEKNEYGHYIFTEEDLQLLEYVKSQIEEGQN---MQDTQKPSSNDV 70 (175)
T ss_pred CCHHHHHHHH---CcCHHHHHHHHH----cCCCCCCcCCCCCEEECHHHHHHHHHHHHHHHcCCC---HHHHHHHhhhhh
Confidence 5677777766 788877765544 566654332 223333 11122233 344322
Q ss_pred ------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHH---HHHHHHHHHHHHHHHHHHHhhC
Q 027236 84 ------------MKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIR---EKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 84 ------------l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~---~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
....+.-|.++.+.+...+.+|+..++.+.-..-.=+|. .+|+++-+.+..|+.++..+..
T Consensus 71 ~~~~l~~~G~~t~~~R~~lLe~~~~~l~~ri~eLe~~l~~kad~vvsYqll~hr~e~ee~~~~l~~le~~~~~~e~ 146 (175)
T PRK13182 71 EETQVNTIVQNISSVDFEQLEAQLNTITRRLDELERQLQQKADDVVSYQLLQHRREMEEMLERLQKLEARLKKLEP 146 (175)
T ss_pred hHHHHHHcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 114456677777777788888877777777666665554 4677778888888888877654
No 249
>PF02186 TFIIE_beta: TFIIE beta subunit core domain; InterPro: IPR003166 Initiation of eukaryotic mRNA transcription requires melting of promoter DNA with the help of the general transcription factors TFIIE and TFIIH. In higher eukaryotes, the general transcription factor TFIIE consists of two subunits: the large alpha subunit (IPR002853 from INTERPRO) and the small beta (IPR003166 from INTERPRO). TFIIE beta has been found to bind to the region where the promoter starts to open to be single-stranded upon transcription initiation by RNA polymerase II. The approximately 120-residue central core domain of TFIIE beta plays a role in double-stranded DNA binding of TFIIE []. The TFIIE beta central core DNA-binding domain consists of three helices with a beta hairpin at the C terminus, resembling the winged helix proteins. It shows a novel double-stranded DNA-binding activity where the DNA-binding surface locates on the opposite side to the previously reported winged helix motif by forming a positively charged furrow []. This entry represents the beta subunit of the transcription factor TFIIE.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005673 transcription factor TFIIE complex; PDB: 1D8K_A 1D8J_A.
Probab=74.57 E-value=17 Score=24.73 Aligned_cols=47 Identities=28% Similarity=0.489 Sum_probs=32.5
Q ss_pred HHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 10 AIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 10 ~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
..|.+||++.+.|.++.||.+-+. ..++. +.++-|-...+|....=|
T Consensus 8 ~~~VeymK~r~~Plt~~eI~d~l~-~d~~~----~~~~~Lk~npKI~~d~~~ 54 (65)
T PF02186_consen 8 AKAVEYMKKRDHPLTLEEILDYLS-LDIGK----KLKQWLKNNPKIEYDPDG 54 (65)
T ss_dssp HHHHHHHHHH-S-B-HHHHHHHHT-SSS-H----HHHHHHHH-TTEEEE-TT
T ss_pred HHHHHHHHhcCCCcCHHHHHHHHc-CCCCH----HHHHHHHcCCCEEEecCC
Confidence 468899999999999999999997 56653 455666688888887655
No 250
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=74.54 E-value=85 Score=30.29 Aligned_cols=21 Identities=14% Similarity=0.197 Sum_probs=10.7
Q ss_pred HHHHHHHhc-CCCCHHHHHHHh
Q 027236 177 DIWDPIMEN-SPKNLKEFKEEL 197 (226)
Q Consensus 177 ~i~~~i~e~-~~~~~k~l~e~l 197 (226)
.+-..+... .|+-+..+.+.|
T Consensus 429 ~ikr~l~k~~lpgip~~y~~~~ 450 (569)
T PRK04778 429 EIKRYLEKSNLPGLPEDYLEMF 450 (569)
T ss_pred HHHHHHHHcCCCCCcHHHHHHH
Confidence 333444444 666665555544
No 251
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=74.48 E-value=26 Score=24.28 Aligned_cols=12 Identities=33% Similarity=0.700 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHH
Q 027236 162 LEKLSQWRKRKR 173 (226)
Q Consensus 162 ~~~~~~w~kRkr 173 (226)
+.-+.-|..|.|
T Consensus 59 k~e~~~WQerlr 70 (79)
T COG3074 59 KEEQNGWQERLR 70 (79)
T ss_pred HHHHHHHHHHHH
Confidence 333456666653
No 252
>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=74.35 E-value=15 Score=25.08 Aligned_cols=49 Identities=18% Similarity=0.335 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 93 EQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 93 ~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+.+..|+..+.-.+..+..|+... .+-...|..|+.++..|..+|..+.
T Consensus 4 ~Ri~~LE~~la~qe~~ie~Ln~~v--~~Qq~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 4 ERIEELEIKLAFQEDTIEELNDVV--TEQQRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 334444444444444444444322 3445678888888888888888887
No 253
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=74.33 E-value=19 Score=30.41 Aligned_cols=59 Identities=22% Similarity=0.469 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKL 139 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL 139 (226)
++.+.+.++...|++++++...+++.++.....+.++ .+++..+...|-++.+.|++++
T Consensus 151 ~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq--~e~~~~EydrLlee~~~Lq~~i 209 (216)
T KOG1962|consen 151 EENDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQ--SEGLQDEYDRLLEEYSKLQEQI 209 (216)
T ss_pred hhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHcccHHHHHHHHHHHHHHHH
Confidence 3444455555555555555555555555555544433 2445555666666666666655
No 254
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=74.23 E-value=1.2e+02 Score=31.72 Aligned_cols=32 Identities=19% Similarity=0.383 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTL 112 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l 112 (226)
+..+..++..++.++..+.....+++..|..+
T Consensus 663 ie~le~e~~~l~~~~~~l~~~~~~~e~~l~e~ 694 (1074)
T KOG0250|consen 663 IEDLEREASRLQKEILELENQRREAEKNLEEL 694 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444555444444444444444444443333
No 255
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=74.20 E-value=9.8 Score=31.63 Aligned_cols=56 Identities=11% Similarity=0.109 Sum_probs=43.0
Q ss_pred hHHHHHHHHHHhcC----CCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 7 NTEAIVLNYVNEQN----RPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 7 ea~~~Il~y~~~~n----rPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.++++|..|+...- -|.+-.+|.+.+ |++..+|.++|..|.++|+|... |+ .|+..
T Consensus 150 ~~~~Rla~~L~~~~~~~~~~~t~~~lA~~l---G~sretvsR~L~~L~~~G~I~~~--~~-~i~I~ 209 (226)
T PRK10402 150 PLENRLAAFILLTQEGDLYHEKHTQAAEYL---GVSYRHLLYVLAQFIQDGYLKKS--KR-GYLIK 209 (226)
T ss_pred hHHHHHHHHHHhcccCCcccchHHHHHHHH---CCcHHHHHHHHHHHHHCCCEEee--CC-EEEEe
Confidence 46788888887532 245677887777 89999999999999999999764 22 46655
No 256
>COG3888 Predicted transcriptional regulator [Transcription]
Probab=74.14 E-value=16 Score=31.92 Aligned_cols=60 Identities=17% Similarity=0.334 Sum_probs=44.9
Q ss_pred HHHHHHHHHHhcCCC--CcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec-CceeEEEeecC
Q 027236 8 TEAIVLNYVNEQNRP--LNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY-GKQKIYIARQD 71 (226)
Q Consensus 8 a~~~Il~y~~~~nrP--ys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~-GK~kiY~~~Q~ 71 (226)
++++|+.-|+ ..+| -.-.+|.... |++|.+|-.+|-.|.++|.|.-+++ ||.+=-|.-|.
T Consensus 5 ~reklir~Lk-~a~~~GI~Q~eIeel~---GlSKStvSEaLs~LE~~giv~RrkvsGKs~rVwLaey 67 (321)
T COG3888 5 LREKLIRELK-RAGPEGIDQTEIEELM---GLSKSTVSEALSELEKQGIVKRRKVSGKSKRVWLAEY 67 (321)
T ss_pred HHHHHHHHHH-hcCCCCccHHHHHHHh---CcchhHHHHHHHHHHhcCeeeeeeecCcceEEeeccc
Confidence 3556666665 3456 4555666655 8999999999999999999998876 78865566554
No 257
>PRK00846 hypothetical protein; Provisional
Probab=74.04 E-value=20 Score=25.33 Aligned_cols=52 Identities=23% Similarity=0.309 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+.+.+..|+..+.-.+..+..|+...+ .....|..|+.++..+.++|..+.+
T Consensus 11 le~Ri~~LE~rlAfQe~tIe~LN~~v~--~qq~~I~~L~~ql~~L~~rL~~~~~ 62 (77)
T PRK00846 11 LEARLVELETRLSFQEQALTELSEALA--DARLTGARNAELIRHLLEDLGKVRS 62 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 344555555555555555555554443 3567788888999999999988874
No 258
>TIGR02018 his_ut_repres histidine utilization repressor, proteobacterial. This model represents a proteobacterial histidine utilization repressor. It is usually found clustered with the enzymes HutUHIG so that it can regulate its own expression as well. A number of species have several paralogs and may fine-tune the regulation according to levels of degradation intermediates such as urocanate. This family belongs to the larger GntR family of transcriptional regulators.
Probab=74.03 E-value=6.9 Score=32.73 Aligned_cols=34 Identities=15% Similarity=0.305 Sum_probs=27.8
Q ss_pred cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 24 NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 24 s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
|-.++...+ ||++.+|.+||+.|+++|+|..+.-
T Consensus 27 sE~eLa~~~---~VSR~TVR~Al~~L~~eGli~r~~G 60 (230)
T TIGR02018 27 SEHELVAQY---GCSRMTVNRALRELTDAGLLERRQG 60 (230)
T ss_pred CHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEecC
Confidence 555555544 8999999999999999999887754
No 259
>PRK11239 hypothetical protein; Provisional
Probab=73.86 E-value=18 Score=30.49 Aligned_cols=53 Identities=28% Similarity=0.419 Sum_probs=38.8
Q ss_pred HHHHHHHHHhc------CCCCcHHHHHHHHhcc-------cccHHHHHHHHHHHHHcCCccee-ecC
Q 027236 9 EAIVLNYVNEQ------NRPLNSQNVADALQKY-------NLKKAGIQKALDSLADNGKISFK-EYG 61 (226)
Q Consensus 9 ~~~Il~y~~~~------nrPys~~di~~~l~~~-------~v~K~~v~k~L~~Lv~~g~i~~K-~~G 61 (226)
+.+|+=.|.+- .=|.|++-+...+-.+ .++-+.|+.+||+|...++|..- -+|
T Consensus 9 EaRVlG~LiEKe~TTPd~YPLSLNaL~~aCNQKsnRePVm~lsE~eV~~ald~L~~~~Lv~~~~~~g 75 (215)
T PRK11239 9 EARVIGCLLEKQVTTPEQYPLSVNGVVTACNQKTNREPVMNLSESEVQEQLDNLVKRHYLRTVSGFG 75 (215)
T ss_pred HHHHHHHhhhhcccCCCcCcchHHHHHHHhccccccCccccCCHHHHHHHHHHHHhCcCeeeecCCC
Confidence 44555555442 3399998888776432 67889999999999999999875 445
No 260
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=73.85 E-value=28 Score=24.35 Aligned_cols=60 Identities=20% Similarity=0.286 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 82 NQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 82 ~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
......|..|+.+.=.|+-.+--|+..+..... ....++..+..+|+.++..+...|..+
T Consensus 3 rEqe~~i~~L~KENF~LKLrI~fLee~l~~~~~-~~~~~~~keNieLKve~~~L~~el~~~ 62 (75)
T PF07989_consen 3 REQEEQIDKLKKENFNLKLRIYFLEERLQKLGP-ESIEELLKENIELKVEVESLKRELQEK 62 (75)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHHhccc-ccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455688999999999999999999999884332 333555555555555555555555444
No 261
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=73.66 E-value=58 Score=28.00 Aligned_cols=6 Identities=17% Similarity=0.673 Sum_probs=2.1
Q ss_pred HHHHHH
Q 027236 91 LQEQLE 96 (226)
Q Consensus 91 l~~~l~ 96 (226)
++.++.
T Consensus 64 ~e~ei~ 69 (239)
T COG1579 64 LESEIQ 69 (239)
T ss_pred HHHHHH
Confidence 333333
No 262
>PF08222 HTH_CodY: CodY helix-turn-helix domain; InterPro: IPR013198 This family consists of the C-terminal helix-turn-helix domain found in several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; PDB: 2B0L_C.
Probab=73.65 E-value=10 Score=25.29 Aligned_cols=39 Identities=26% Similarity=0.454 Sum_probs=29.7
Q ss_pred HHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEE
Q 027236 25 SQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIY 66 (226)
Q Consensus 25 ~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY 66 (226)
+..|.|.. ||+++.++.+|..|..-|.|.++..|--=.|
T Consensus 7 as~iAd~~---GiTRSvIVNALRKleSaGvIesrSlGmKGT~ 45 (61)
T PF08222_consen 7 ASKIADRV---GITRSVIVNALRKLESAGVIESRSLGMKGTY 45 (61)
T ss_dssp HHHHHHHH---T--HHHHHHHHHHHHHTTSEEEEETTSS-EE
T ss_pred HHHHHHHh---CccHHHHHHHHHHHHhcCceeecccCCCcee
Confidence 44566655 8999999999999999999999999844333
No 263
>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=73.37 E-value=15 Score=23.03 Aligned_cols=35 Identities=20% Similarity=0.411 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027236 80 ELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQS 114 (226)
Q Consensus 80 e~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~ 114 (226)
+...+....+.|..+...|..+...|.+++..|..
T Consensus 6 Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~ 40 (45)
T PF02183_consen 6 DYDALKASYDSLKAEYDSLKKENEKLRAEVQELKE 40 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555666666666666666666666666665554
No 264
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=73.29 E-value=7.1 Score=31.99 Aligned_cols=47 Identities=11% Similarity=0.116 Sum_probs=40.6
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcc
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKIS 56 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~ 56 (226)
.+-+..|++|+.. +..-+..++.+.+ +|+.++|-+=|+.|..+|+|.
T Consensus 6 ~~R~~~Il~~l~~-~~~~~~~~La~~~---~vS~~TiRRDl~~L~~~g~~~ 52 (185)
T PRK04424 6 KERQKALQELIEE-NPFITDEELAEKF---GVSIQTIRLDRMELGIPELRE 52 (185)
T ss_pred HHHHHHHHHHHHH-CCCEEHHHHHHHH---CcCHHHHHHHHHHHhcchHHH
Confidence 4678899999997 6667888888877 899999999999999998764
No 265
>COG5293 Predicted ATPase [General function prediction only]
Probab=73.10 E-value=56 Score=30.87 Aligned_cols=104 Identities=17% Similarity=0.236 Sum_probs=53.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH-------HHHHHHHHHHHHHHHHHHHHHHHhhCCCC---CCCH--
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL-------EQIREKEAQLVKEVKEMENKLAKLRGGVT---LVKP-- 151 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~-------~el~~~i~~L~~e~~~l~~kL~~l~~~~~---~vs~-- 151 (226)
+..+|.+++..+.+++.++..+..+++....-+.+ .-+.+++-.++.++.+++-+++.|+.-.. -+..
T Consensus 340 l~~ei~~i~~dLk~~n~~~~~l~~~rae~l~~Lk~~g~~e~y~~l~ee~~~~~~elae~~~rie~l~k~~~~~~~i~~lk 419 (591)
T COG5293 340 LQEEIAEIEGDLKEVNAELDDLGKRRAEGLAFLKNRGVFEKYQTLCEEIIALRGELAELEYRIEPLRKLHALDQYIGTLK 419 (591)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHhhhHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 44555666666666666666666555554443333 33344555566667777777777664210 0000
Q ss_pred HHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 027236 152 EDRMAVEE----MFLEKLSQWRKRKRMLRDIWDPIMENSP 187 (226)
Q Consensus 152 ee~~~~~~----~~~~~~~~w~kRkri~~~i~~~i~e~~~ 187 (226)
.+.=.+.. +..........=++.|+++++.+-+-+|
T Consensus 420 he~l~~~~r~y~e~q~q~~~~~~~~~lF~~~~r~~yd~~G 459 (591)
T COG5293 420 HECLDLEERIYTEVQQQCSLFASIGRLFKEMIREVYDCYG 459 (591)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 11111111 1333333355556778888877766654
No 266
>PF15450 DUF4631: Domain of unknown function (DUF4631)
Probab=73.00 E-value=90 Score=29.87 Aligned_cols=90 Identities=9% Similarity=0.112 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH------HHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHH-H-
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL------EQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRM-A- 156 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~------~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~-~- 156 (226)
+..+..+++.+.++-.++..+.......++.... ......|..+++++..+-+.+.-++++++.-+..++. +
T Consensus 411 ~~~l~~v~eKVd~LpqqI~~vs~Kc~~~Ksd~d~kIdtE~k~R~~eV~~vRqELa~lLssvQ~~~e~~~~rkiaeiqg~l 490 (531)
T PF15450_consen 411 EKHLKEVQEKVDSLPQQIEEVSDKCDLHKSDSDTKIDTEGKAREREVGAVRQELATLLSSVQLLKEDNPGRKIAEIQGKL 490 (531)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhhHHHHHHHH
Confidence 4455666677777777777777777776664332 4455567777888877777777777665433344444 1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027236 157 VEEMFLEKLSQWRKRKRM 174 (226)
Q Consensus 157 ~~~~~~~~~~~w~kRkri 174 (226)
....+.+..+....+|-|
T Consensus 491 ~~~qi~kle~siq~nKti 508 (531)
T PF15450_consen 491 ATNQIMKLENSIQTNKTI 508 (531)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 223355555666665433
No 267
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=72.93 E-value=30 Score=26.09 Aligned_cols=48 Identities=21% Similarity=0.387 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 95 LEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 95 l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+..+.+.+..+..++..|+.. ..++.++-..|+-|+..|+.+|..+..
T Consensus 10 l~~le~~l~~l~~el~~LK~~--~~el~EEN~~L~iEN~~Lr~~l~~~~~ 57 (110)
T PRK13169 10 LDDLEQNLGVLLKELGALKKQ--LAELLEENTALRLENDKLRERLEELEA 57 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 333344444444444444422 235677778888888899999888743
No 268
>PF09602 PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); InterPro: IPR011728 This entry describes a protein found in polyhydroxyalkanoic acid (PHA) gene regions and incorporated into PHA inclusions in Bacillus cereus and Bacillus megaterium. The role of the protein may include amino acid storage [].
Probab=72.92 E-value=49 Score=26.79 Aligned_cols=99 Identities=14% Similarity=0.301 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHH
Q 027236 86 EENAKLQEQLEEQRKAISKLEGE-IRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEK 164 (226)
Q Consensus 86 ~~i~~l~~~l~~l~~~~k~l~~e-l~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~ 164 (226)
...++|+..+.......+.+..+ +..|++ -+...+.+.|.+++.+..++..++..+--+-...+.+-+.+....|...
T Consensus 48 k~veeLe~~~~q~~~~~s~~~~~~vk~L~k-~~~~~l~d~inE~t~k~~El~~~i~el~~~~~Ks~~~~l~q~~~~~eEt 126 (165)
T PF09602_consen 48 KQVEELEKELKQFKREFSDLYEEYVKQLRK-ATGNSLNDSINEWTDKLNELSAKIQELLLSPSKSSFSLLSQISKQYEET 126 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHcchHHHHHHHHHHHHhhHHHH
Confidence 44444555555555555555544 444444 4667889999999999999999997775332112334444555555444
Q ss_pred HHHHHHHHHHHHHHHHHHHhc
Q 027236 165 LSQWRKRKRMLRDIWDPIMEN 185 (226)
Q Consensus 165 ~~~w~kRkri~~~i~~~i~e~ 185 (226)
.+...+-.+.-++-|.-..+.
T Consensus 127 v~~~ieqqk~~r~e~qk~~~~ 147 (165)
T PF09602_consen 127 VKQLIEQQKLTREEWQKVLDA 147 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444444333323333333333
No 269
>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=72.91 E-value=58 Score=27.61 Aligned_cols=21 Identities=10% Similarity=0.278 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027236 161 FLEKLSQWRKRKRMLRDIWDP 181 (226)
Q Consensus 161 ~~~~~~~w~kRkri~~~i~~~ 181 (226)
+..-...|+.+..-+..-++.
T Consensus 209 le~eL~~~k~~~~~~~~eld~ 229 (237)
T PF00261_consen 209 LEDELEKEKEKYKKVQEELDQ 229 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444445666666555554433
No 270
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=72.90 E-value=29 Score=24.11 Aligned_cols=12 Identities=17% Similarity=0.578 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHH
Q 027236 161 FLEKLSQWRKRK 172 (226)
Q Consensus 161 ~~~~~~~w~kRk 172 (226)
+..-++.|..|.
T Consensus 51 L~~e~~~~~~rl 62 (72)
T PF06005_consen 51 LKQERNAWQERL 62 (72)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 334557888886
No 271
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=72.89 E-value=1.3e+02 Score=31.81 Aligned_cols=54 Identities=19% Similarity=0.478 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 83 QMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAK 141 (226)
Q Consensus 83 ~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~ 141 (226)
.+..++..+..++..+..+...+..++.... .++...+..+...+..+++.+..
T Consensus 820 ~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-----~~le~~~~~~~~~~~~~~~~l~~ 873 (1201)
T PF12128_consen 820 ELEEQLRDLEQELQELEQELNQLQKEVKQRR-----KELEEELKALEEQLEQLEEQLRR 873 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444433333 34455555555555555544443
No 272
>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=72.62 E-value=26 Score=28.81 Aligned_cols=8 Identities=25% Similarity=0.297 Sum_probs=2.8
Q ss_pred HHHHHHHH
Q 027236 124 KEAQLVKE 131 (226)
Q Consensus 124 ~i~~L~~e 131 (226)
.|..|+.+
T Consensus 128 ~i~~L~~e 135 (189)
T PF10211_consen 128 EIEELEEE 135 (189)
T ss_pred HHHHHHHH
Confidence 33333333
No 273
>PRK01156 chromosome segregation protein; Provisional
Probab=72.50 E-value=54 Score=33.25 Aligned_cols=30 Identities=20% Similarity=0.227 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRTLQS 114 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~l~~ 114 (226)
...+.+++.++..+..++..+..++..+..
T Consensus 635 ~~~l~~~~~~i~~~~~~i~~l~~~i~~l~~ 664 (895)
T PRK01156 635 YNEIQENKILIEKLRGKIDNYKKQIAEIDS 664 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334444444455555555555555544433
No 274
>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=72.23 E-value=67 Score=28.09 Aligned_cols=75 Identities=12% Similarity=0.176 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 97 EQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQWRKRKRM 174 (226)
Q Consensus 97 ~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w~kRkri 174 (226)
.+..++..++..+.++.+. ..-|..+|+.-+.++...+.+|..|++= .|.=-+|.++++.++...-..|..|-|.
T Consensus 173 ~~~~~~~~~~~~l~~l~~d--e~~Le~KIekkk~ELER~qKRL~sLq~v-RPAfmdEyEklE~EL~~lY~~Y~~kfRN 247 (267)
T PF10234_consen 173 AVQQQLQQTQQQLNNLASD--EANLEAKIEKKKQELERNQKRLQSLQSV-RPAFMDEYEKLEEELQKLYEIYVEKFRN 247 (267)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3333334444444443322 2456788888899999999999999853 2333467888888888888888888665
No 275
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=72.08 E-value=11 Score=29.55 Aligned_cols=47 Identities=19% Similarity=0.311 Sum_probs=37.9
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcc
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKIS 56 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~ 56 (226)
++.--.|+..|....| -|..+|...+ |++.++|..-++.|.++|.|.
T Consensus 8 D~~D~~Il~~Lq~d~R-~s~~eiA~~l---glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENAR-TPYAELAKQF---GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCC-CCHHHHHHHH---CcCHHHHHHHHHHHHHCCCee
Confidence 5667788888875533 3444788887 899999999999999999996
No 276
>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=72.08 E-value=23 Score=35.24 Aligned_cols=59 Identities=24% Similarity=0.384 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-----cCCHHHHHHHHHHHHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQS-----NLTLEQIREKEAQLVKEVKEMENKL 139 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~-----~~t~~el~~~i~~L~~e~~~l~~kL 139 (226)
..+|+.++..|+.++...+..+..++.++..|+. ....+.|...+..++++...|+..|
T Consensus 547 ~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amqdk~~~LE~sL 610 (697)
T PF09726_consen 547 RRQLESELKKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSAMQDKNQHLENSL 610 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhh
Confidence 4567788888888888888888888887766554 2456778888888888888888765
No 277
>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=72.04 E-value=29 Score=23.84 Aligned_cols=57 Identities=25% Similarity=0.365 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH--HHHHHHHHHHHHHHHHHHHHHHH
Q 027236 82 NQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL--EQIREKEAQLVKEVKEMENKLAK 141 (226)
Q Consensus 82 ~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~--~el~~~i~~L~~e~~~l~~kL~~ 141 (226)
......+..++..+.+...-+..++-|+..+ |++ ..+...+...+.++..++..|..
T Consensus 21 ~~r~~~i~~~e~~l~ea~~~l~qMe~E~~~~---p~s~r~~~~~kl~~yr~~l~~lk~~l~~ 79 (79)
T PF05008_consen 21 EQRKSLIREIERDLDEAEELLKQMELEVRSL---PPSERNQYKSKLRSYRSELKKLKKELKK 79 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS----HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC---CHHHHHHHHHHHHHHHHHHHHHHHHhcC
No 278
>COG5570 Uncharacterized small protein [Function unknown]
Probab=71.96 E-value=25 Score=22.95 Aligned_cols=50 Identities=20% Similarity=0.319 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 93 EQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 93 ~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
.-+.+|...-..++.++...-..|+.+++ .|.+|+...-.+.+.++.|++
T Consensus 5 shl~eL~kkHg~le~ei~ea~n~Ps~dd~--~i~eLKRrKL~lKeeIEkLka 54 (57)
T COG5570 5 SHLAELEKKHGNLEREIQEAMNSPSSDDL--AIRELKRRKLRLKEEIEKLKA 54 (57)
T ss_pred HHHHHHHHhhchHHHHHHHHhcCCCcchH--HHHHHHHHHHHHHHHHHHHhc
Confidence 34556666667777778777788887654 356666666667777766664
No 279
>PF12630 Pox_polyA_pol_N: Poxvirus poly(A) polymerase N-terminal domain; InterPro: IPR024398 This domain is found at the N terminus of the pox virus Poly(A) polymerase protein []. Poly(A) polymerase (2.7.7.19 from EC) catalyses template-independent extension of the 3'-end of a DNA or RNA strand by one nucleotide at a time. The Poxvirus enzyme creates the 3'(poly)A tail of mRNAs, and is a heterodimer of a catalytic and a regulatory subunit. This is the catalytic subunit.; PDB: 3ERC_C 3ER8_D 3OWG_A 2GA9_D 2GAF_D 3ER9_B.
Probab=71.86 E-value=2.1 Score=31.96 Aligned_cols=43 Identities=12% Similarity=0.205 Sum_probs=29.2
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHH
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDS 48 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~ 48 (226)
.|-...|++||.+|++|+++-.|...+.=..|--+.+.++|-.
T Consensus 63 ~eIk~rI~~YFsKQ~~~~kiG~i~tIiElQ~vlVtt~T~ilGv 105 (108)
T PF12630_consen 63 SEIKRRILEYFSKQRRTYKIGKILTIIELQHVLVTTYTDILGV 105 (108)
T ss_dssp HHHHHHHHHHTTGGGC---HHHHHHHHHHHHHHHHHHHHHTGG
T ss_pred HHHHHHHHHHHHhcccHHHHhhHHHHHhhHhHHHhHHhhhHhh
Confidence 5677899999999999999888877653334556666666543
No 280
>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria. There is little literature describing the family.
Probab=71.79 E-value=1.1e+02 Score=32.01 Aligned_cols=49 Identities=16% Similarity=0.188 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 027236 119 EQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQ 167 (226)
Q Consensus 119 ~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~ 167 (226)
......+..|++|+.-|+.+=..+..++..|+-.+++++++++..+..-
T Consensus 1127 kK~ia~lnnlqqElklLRnEK~Rmh~~~dkVDFSDIEkLE~qLq~~~~k 1175 (1439)
T PF12252_consen 1127 KKAIANLNNLQQELKLLRNEKIRMHSGTDKVDFSDIEKLEKQLQVIHTK 1175 (1439)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHhhccCCCcccHHHHHHHHHHHHHhhhh
Confidence 4455667888999999998887887777779999999999886544443
No 281
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=71.78 E-value=32 Score=24.23 Aligned_cols=54 Identities=17% Similarity=0.289 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHH---HHHHHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLE---QIREKEAQLVKEVKE 134 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~---el~~~i~~L~~e~~~ 134 (226)
...+-.-+..|+.++..++-+...|.++++.+..+++.. .|...+..|-..+..
T Consensus 12 ~~~Ls~vl~~LqDE~~hm~~e~~~L~~~~~~~d~s~~~~~R~~L~~~l~~lv~~mE~ 68 (79)
T PF06657_consen 12 GEALSEVLKALQDEFGHMKMEHQELQDEYKQMDPSLGRRKRRDLEQELEELVKRMEA 68 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHHHH
Confidence 334567888899999999999999999999999887763 344444444333333
No 282
>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=71.75 E-value=18 Score=34.05 Aligned_cols=56 Identities=20% Similarity=0.334 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 87 ENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 87 ~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
++.-+++.+.+|+.++...+..+..+...+...++...+..+..++..|..++..+
T Consensus 164 Q~~L~~~Rl~~L~~qi~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l 219 (475)
T PF10359_consen 164 QIELIQERLDELEEQIEKHEEKLGELELNPDDPELKSDIEELERHISSLKERIEFL 219 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445556666666666666666666554444555555555555555555444433
No 283
>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=71.72 E-value=28 Score=23.43 Aligned_cols=18 Identities=22% Similarity=0.377 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027236 124 KEAQLVKEVKEMENKLAK 141 (226)
Q Consensus 124 ~i~~L~~e~~~l~~kL~~ 141 (226)
.+..-+..+.+|..++..
T Consensus 33 kLqeaE~rn~eL~~ei~~ 50 (61)
T PF08826_consen 33 KLQEAEKRNRELEQEIER 50 (61)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333444444433333
No 284
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=71.53 E-value=38 Score=24.89 Aligned_cols=97 Identities=10% Similarity=0.146 Sum_probs=58.4
Q ss_pred HhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHHHHHHHHHHHHHHHH
Q 027236 17 NEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELNQMKEENAKLQEQLE 96 (226)
Q Consensus 17 ~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~~l~ 96 (226)
-.++.+|+..++.... |+.- ..|..|++-|+|.-..-|...+++. +.++... ..+..|...+.
T Consensus 2 ~~~~~~lt~~Elc~~~---gi~~----~~l~eLve~GlIep~~~~~~~~~F~---------~~~l~r~-~~a~rL~~dl~ 64 (101)
T PRK10265 2 ANVTVTFTITEFCLHT---GVSE----EELNEIVGLGVIEPREIQETTWVFD---------DHAAIVV-QRAVRLRHELA 64 (101)
T ss_pred CceEEEeeHHHHHHHH---CcCH----HHHHHHHHCCCeecCCCCcccceEC---------HHHHHHH-HHHHHHHHHcC
Confidence 3567889988887766 5554 5678899999999877775555554 2333211 11112211110
Q ss_pred HHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 97 EQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 97 ~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
-. +.+..-.-+|.++|.+|++++..++.+|..|.
T Consensus 65 ----------in---~~gialvl~LLd~i~~Lr~el~~L~~~l~~~~ 98 (101)
T PRK10265 65 ----------LD---WPGIAVALTLLDEIAHLKQENRLLRQRLSRFV 98 (101)
T ss_pred ----------CC---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 00 00112225788888888888888888887664
No 285
>PF05837 CENP-H: Centromere protein H (CENP-H); InterPro: IPR008426 Chromosome segregation in eukaryotes requires the kinetochore, a multi-protein structure that assembles on centromeric DNA, and which acts to link chromosomes to spindle microtubules. Kinetochore structure and composition is highly conserved among vertebrates. The inner kinetochore is essential for kinetochore assembly, and is involved in chromosome segregation via regulation of the spindle. Inner kinetochore components include the multi-subunit CENP-H/I complex, which may function, in part, in directing centromere protein A (CENP-A) deposition to centromeres, where CENP-A is a centromere-specific histone H3 variant required for the organisation of centromeric chromatin during interphase. The CENP-H/I complex contains three functional classes of proteins [, ]: CENP-H class (includes CENP-H, -I, -K, -L) CENP-M class (includes CENP-M) CENP-O class (includes CENP-O, -P, -Q, -R, -50) CENP-H is required for the localisation of CENP-C, but not CENP-A, to the centromere. However, it may be involved in the incorporation of newly synthesised CENP-A into centromeres via its interaction with the CENP-A/CENP-HI complex. CENP-H contains a coiled-coil structure and a nuclear localisation signal. CENP-H is specifically and constitutively localised in kinetochores throughout the cell cycle, and may play a role in kinetochore organisation and function throughout the cell cycle []. Studies show that CENP-H may be associated with certain human cancers [, ]. This entry also includes Kinetochore protein Fta3 which is a subunit of the Sim4 complex. This complex is required for loading the DASH complex onto the kinetochore via interaction with dad1. Fta2, Fta3 and Fta4 associate with the central core and inner repeat region of the centromere [].; GO: 0043515 kinetochore binding, 0007059 chromosome segregation, 0051301 cell division, 0000777 condensed chromosome kinetochore, 0005634 nucleus
Probab=70.96 E-value=40 Score=25.00 Aligned_cols=29 Identities=17% Similarity=0.343 Sum_probs=20.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 150 KPEDRMAVEEMFLEKLSQWRKRKRMLRDI 178 (226)
Q Consensus 150 s~ee~~~~~~~~~~~~~~w~kRkri~~~i 178 (226)
....+..++..++..+..|+-=+.+|..|
T Consensus 56 ~~~~l~~~~~~lk~~r~~~~v~k~v~q~l 84 (106)
T PF05837_consen 56 LSEKLEKLEKELKKSRQRWRVMKNVFQAL 84 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677778888888777777665555533
No 286
>PRK03918 chromosome segregation protein; Provisional
Probab=70.70 E-value=1.2e+02 Score=30.45 Aligned_cols=6 Identities=67% Similarity=0.695 Sum_probs=2.6
Q ss_pred HHHHHh
Q 027236 192 EFKEEL 197 (226)
Q Consensus 192 ~l~e~l 197 (226)
.+|..|
T Consensus 751 ~if~~l 756 (880)
T PRK03918 751 EIFEEL 756 (880)
T ss_pred HHHHHH
Confidence 344444
No 287
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=70.68 E-value=6.8 Score=28.80 Aligned_cols=57 Identities=19% Similarity=0.309 Sum_probs=39.4
Q ss_pred HHHHHHHHH-hcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 9 EAIVLNYVN-EQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 9 ~~~Il~y~~-~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
-+.|++.|+ ..+-+-..+-|+=+ ..+.=...+++++.|++.|+|....-|..++|..
T Consensus 17 ~eIi~dIL~~~~~~~~~~Tri~y~---aNlny~~~~~yi~~L~~~Gli~~~~~~~~~~y~l 74 (95)
T COG3432 17 LEIIFDILKAISEGGIGITRIIYG---ANLNYKRAQKYIEMLVEKGLIIKQDNGRRKVYEL 74 (95)
T ss_pred HHHHHHHHHHhcCCCCCceeeeee---cCcCHHHHHHHHHHHHhCCCEEeccCCccceEEE
Confidence 456666666 33333332222211 1345578899999999999999999999999998
No 288
>PRK09764 DNA-binding transcriptional repressor MngR; Provisional
Probab=70.58 E-value=6.9 Score=33.05 Aligned_cols=34 Identities=9% Similarity=0.206 Sum_probs=27.6
Q ss_pred cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 24 NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 24 s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
|-.++...+ ||++++|.+||+.|+.+|+|..+.-
T Consensus 31 sE~eL~~~~---~VSR~TvR~Al~~L~~eGli~r~~G 64 (240)
T PRK09764 31 TESALQTEF---GVSRVTVRQALRQLVEQQILESIQG 64 (240)
T ss_pred CHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEecC
Confidence 545555544 8999999999999999999987653
No 289
>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=70.53 E-value=33 Score=23.82 Aligned_cols=16 Identities=31% Similarity=0.530 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 027236 123 EKEAQLVKEVKEMENK 138 (226)
Q Consensus 123 ~~i~~L~~e~~~l~~k 138 (226)
..++.+..++..++.+
T Consensus 54 ~~~~~~e~~~~~l~~~ 69 (74)
T PF12329_consen 54 KKLEELEKELESLEER 69 (74)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3334444444444433
No 290
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=70.32 E-value=65 Score=27.14 Aligned_cols=39 Identities=15% Similarity=0.384 Sum_probs=32.4
Q ss_pred CCCC-cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 20 NRPL-NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 20 nrPy-s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
+.+. |-.++...+ ||+++.|-.+|..|..+|+|..+..+
T Consensus 31 G~~LpsE~eLa~~l---gVSRtpVREAL~~L~~eGlv~~~~~~ 70 (254)
T PRK09464 31 GEKLPPERELAKQF---DVSRPSLREAIQRLEAKGLLLRRQGG 70 (254)
T ss_pred CCcCCCHHHHHHHh---CCCHHHHHHHHHHHHHCCCEEEecCc
Confidence 4455 666777666 89999999999999999999998753
No 291
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=70.01 E-value=14 Score=29.22 Aligned_cols=55 Identities=18% Similarity=0.207 Sum_probs=40.0
Q ss_pred HHHHHHHhcCC--CCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 11 IVLNYVNEQNR--PLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 11 ~Il~y~~~~nr--Pys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.+|-||-.+.. |.|+.+|.... +|+...+.++|..|...|+|.+..--+.=+..+
T Consensus 12 ~~L~~LA~~~~~~~~s~~~IA~~~---~is~~~L~kil~~L~kaGlV~S~rG~~GGy~La 68 (150)
T COG1959 12 RALLYLALLPGGGPVSSAEIAERQ---GISPSYLEKILSKLRKAGLVKSVRGKGGGYRLA 68 (150)
T ss_pred HHHHHHHhCCCCCcccHHHHHHHh---CcCHHHHHHHHHHHHHcCCEEeecCCCCCccCC
Confidence 34555554333 99988886644 899999999999999999999987633333333
No 292
>PF09377 SBDS_C: SBDS protein C-terminal domain; InterPro: IPR018978 This entry represents the C-terminal domain of proteins that are highly conserved in species ranging from archaea to vertebrates and plants []. The family contains several Shwachman-Bodian-Diamond syndrome (SBDS, OMIM 260400) proteins from both mouse and humans. Shwachman-Diamond syndrome is an autosomal recessive disorder with clinical features that include pancreatic exocrine insufficiency, haematological dysfunction and skeletal abnormalities. It is characterised by bone marrow failure and leukemia predisposition. Members of this family play a role in RNA metabolism [, ]. In yeast Sdo1 is involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with the EF-2-like GTPase RIA1 (EfI1), it triggers the GTP-dependent release of TIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating TIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. This data links defective late 60S subunit maturation to an inherited bone marrow failure syndrome associated with leukemia predisposition []. A number of uncharacterised hydrophilic proteins of about 30 kDa share regions of similarity. These include, Mouse protein 22A3. Saccharomyces cerevisiae chromosome XII hypothetical protein YLR022c. Caenorhabditis elegans hypothetical protein W06E11.4. Methanocaldococcus jannaschii (Methanococcus jannaschii) hypothetical protein MJ0592. ; GO: 0042254 ribosome biogenesis; PDB: 2KDO_A 2L9N_A 2WBM_B 1P9Q_C 1T95_A.
Probab=69.98 E-value=6.4 Score=30.24 Aligned_cols=43 Identities=14% Similarity=0.321 Sum_probs=31.9
Q ss_pred HHHHHHHH------hcCCCCcHHHHHHHHhcccc-------cHHHHHHHHHHHHHc
Q 027236 10 AIVLNYVN------EQNRPLNSQNVADALQKYNL-------KKAGIQKALDSLADN 52 (226)
Q Consensus 10 ~~Il~y~~------~~nrPys~~di~~~l~~~~v-------~K~~v~k~L~~Lv~~ 52 (226)
..|..|+. .+||||+.+-|+.+|...++ .|.++.+++..|...
T Consensus 4 keI~~~Ia~~~VnP~T~rP~p~~~IE~Am~e~~~~v~p~ksak~QalevIk~L~~~ 59 (125)
T PF09377_consen 4 KEIATIIAEKCVNPRTNRPYPPTRIEKAMKEAHFSVDPNKSAKQQALEVIKKLKEK 59 (125)
T ss_dssp HHHHHHHHHHEEBTTTTBTT-HHHHHHHHHHTTS-SSTTS-HHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHhccCCCCCCCCCHHHHHHHHHhCCcccCCCCCHHHHHHHHHHHHHHh
Confidence 34555555 48999999999999976433 388999999999884
No 293
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=69.94 E-value=68 Score=28.45 Aligned_cols=24 Identities=33% Similarity=0.587 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 120 QIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 120 el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
++-..+.+++.++.++...|..|+
T Consensus 225 e~~ee~~~~~~elre~~k~ik~l~ 248 (294)
T COG1340 225 ELHEEFRNLQNELRELEKKIKALR 248 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444555555555544444
No 294
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=69.85 E-value=24 Score=33.04 Aligned_cols=62 Identities=23% Similarity=0.325 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH--HHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL--EQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~--~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
+.+++.++..++.++..++...+.|.+.+......++. +...+.+.+...+|.+|+++|..|
T Consensus 384 ~~q~q~k~~k~~kel~~~~E~n~~l~knq~vw~~kl~~~~e~~~~~~~s~d~~I~dLqEQlrDl 447 (493)
T KOG0804|consen 384 LQQLQTKLKKCQKELKEEREENKKLIKNQDVWRGKLKELEEREKEALGSKDEKITDLQEQLRDL 447 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
No 295
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=69.75 E-value=15 Score=25.01 Aligned_cols=53 Identities=25% Similarity=0.307 Sum_probs=43.8
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCce
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQ 63 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~ 63 (226)
+.--.|.++|.+ +++.|+.+|.... +++...|.-++==|+-+|+|.+..-+..
T Consensus 8 ~nAG~Vw~~L~~-~~~~s~~el~k~~---~l~~~~~~~AiGWLarE~KI~~~~~~~~ 60 (65)
T PF10771_consen 8 ENAGKVWQLLNE-NGEWSVSELKKAT---GLSDKEVYLAIGWLARENKIEFEEKNGE 60 (65)
T ss_dssp HHHHHHHHHHCC-SSSEEHHHHHHHC---T-SCHHHHHHHHHHHCTTSEEEEEETTE
T ss_pred HHHHHHHHHHhh-CCCcCHHHHHHHh---CcCHHHHHHHHHHHhccCceeEEeeCCE
Confidence 345678999998 9999999998655 7899999999999999999998865544
No 296
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=69.73 E-value=7.1 Score=28.17 Aligned_cols=46 Identities=17% Similarity=0.315 Sum_probs=33.4
Q ss_pred CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceee-cCceeEEEe
Q 027236 20 NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKE-YGKQKIYIA 68 (226)
Q Consensus 20 nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~-~GK~kiY~~ 68 (226)
.+-.+...|.+-| +|+-+.+.++|..|.++|+|..=. -..|.||-+
T Consensus 39 ~K~ITps~lserl---kI~~SlAr~~Lr~L~~kG~Ik~V~~~~~q~IYt~ 85 (86)
T PRK09334 39 EKIVTPYTLASKY---GIKISVAKKVLRELEKRGVLVLYSKNRRTPIYVP 85 (86)
T ss_pred CcEEcHHHHHHHh---cchHHHHHHHHHHHHHCCCEEEEecCCCeEEecc
Confidence 3334444455555 799999999999999999995543 347888864
No 297
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=69.57 E-value=49 Score=25.92 Aligned_cols=53 Identities=25% Similarity=0.294 Sum_probs=37.4
Q ss_pred HHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee-------ecC-ceeEEEe
Q 027236 12 VLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK-------EYG-KQKIYIA 68 (226)
Q Consensus 12 Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K-------~~G-K~kiY~~ 68 (226)
|++.+.. +...+-.||...+ |+....|-++|-.|.+++++... .-| ...+||.
T Consensus 6 v~d~L~~-~~~~~dedLa~~l---~i~~n~vRkiL~~L~ed~~~~~~~~~e~~~~~~~~~~~yw~ 66 (147)
T smart00531 6 VLDALMR-NGCVTEEDLAELL---GIKQKQLRKILYLLYDEKLIKIDYKREKDPETKTWYRYYWY 66 (147)
T ss_pred ehHHHHh-cCCcCHHHHHHHh---CCCHHHHHHHHHHHHhhhcchhheeeeeCCCCceEEEEEEE
Confidence 4555543 3467777777766 89999999999999997775332 124 4577887
No 298
>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional
Probab=69.40 E-value=76 Score=29.73 Aligned_cols=46 Identities=20% Similarity=0.280 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHhc-----cCCHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 95 LEEQRKAISKLEGEIRTLQS-----NLTLEQIREKEAQLVKEVKEMENKLA 140 (226)
Q Consensus 95 l~~l~~~~k~l~~el~~l~~-----~~t~~el~~~i~~L~~e~~~l~~kL~ 140 (226)
+..|+.++..++.+|+.|.. .|....+..+|..|+++|...+.+|.
T Consensus 288 I~~Le~qLa~~~aeL~~L~~~~~p~sPqV~~l~~rI~aLe~QIa~er~kl~ 338 (434)
T PRK15178 288 IAGFETQLAEAKAEYAQLMVNGLDQNPLIPRLSAKIKVLEKQIGEQRNRLS 338 (434)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHHHHhh
Confidence 33444444444555554433 35556777777777777777777764
No 299
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=68.94 E-value=1e+02 Score=28.80 Aligned_cols=30 Identities=23% Similarity=0.272 Sum_probs=15.9
Q ss_pred CCCHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Q 027236 148 LVKPEDRMAVEEM---FLEKLSQWRKRKRMLRD 177 (226)
Q Consensus 148 ~vs~ee~~~~~~~---~~~~~~~w~kRkri~~~ 177 (226)
.+++++....... |......-..+...+..
T Consensus 136 l~~~eda~~~~R~ai~~~~l~~~~~~~i~~l~~ 168 (420)
T COG4942 136 LVSPEDAQRSVRLAIYYGALNPARAERIDALKA 168 (420)
T ss_pred hcChhhhhHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 5788886655544 44444444444444433
No 300
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=68.82 E-value=13 Score=22.90 Aligned_cols=35 Identities=6% Similarity=0.225 Sum_probs=22.9
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHH
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALD 47 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~ 47 (226)
+..+.|.+ |+.+. +|..+|...+ ||++++|-++|.
T Consensus 9 ~~~~~i~~-l~~~G--~si~~IA~~~---gvsr~TvyR~l~ 43 (45)
T PF02796_consen 9 EQIEEIKE-LYAEG--MSIAEIAKQF---GVSRSTVYRYLN 43 (45)
T ss_dssp CCHHHHHH-HHHTT----HHHHHHHT---TS-HHHHHHHHC
T ss_pred HHHHHHHH-HHHCC--CCHHHHHHHH---CcCHHHHHHHHh
Confidence 34455666 44444 8988998877 899999999874
No 301
>PF14282 FlxA: FlxA-like protein
Probab=68.78 E-value=16 Score=27.22 Aligned_cols=60 Identities=23% Similarity=0.420 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
...+..|..+|..|++++..|... ..+..+-+.-. ...|..+|..|+.+|..+......-
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~~-~~~~~e~k~~q----~q~Lq~QI~~LqaQI~qlq~q~~~~ 77 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQD-SDLDAEQKQQQ----IQLLQAQIQQLQAQIAQLQSQQAEQ 77 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcc-cCCCHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456888899999999999888873 11111111111 1356677777777777777666544
No 302
>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=68.78 E-value=26 Score=25.27 Aligned_cols=64 Identities=22% Similarity=0.405 Sum_probs=38.1
Q ss_pred HHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027236 42 IQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQS 114 (226)
Q Consensus 42 v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~ 114 (226)
+.+.|..| +++..+.+.+|+.=|-.. . ++-...+...+..+..++..++.....+..++..+..
T Consensus 34 ~~~eL~~l-~~~~~~y~~vG~~fv~~~----~----~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~ 97 (106)
T PF01920_consen 34 TLEELEKL-DDDRKVYKSVGKMFVKQD----K----EEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKK 97 (106)
T ss_dssp HHHHHHTS-STT-EEEEEETTEEEEEE----H----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhC-CCcchhHHHHhHHHHHhh----H----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344443 345677788888743333 1 2445666777777777777777777777666666543
No 303
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=68.77 E-value=41 Score=24.26 Aligned_cols=43 Identities=12% Similarity=0.234 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Q 027236 75 IPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLT 117 (226)
Q Consensus 75 ~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t 117 (226)
.+|+++...+..-..+...+...+..++.....++..+-..++
T Consensus 41 ~Lt~eQ~~~l~~~~~~~~~~~~~~r~~~~~~r~~l~~ll~~~~ 83 (125)
T PF13801_consen 41 NLTPEQQAKLRALMDEFRQEMRALRQELRAARQELRALLAAPP 83 (125)
T ss_dssp -TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCSS
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 3467888888888888888888888888888888888877644
No 304
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=68.73 E-value=1.2e+02 Score=29.62 Aligned_cols=57 Identities=37% Similarity=0.520 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 82 NQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLA 140 (226)
Q Consensus 82 ~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~ 140 (226)
..-..++.+|+.++..+..++..+..+++.+... ..++..++.+.+.++.+++..+.
T Consensus 324 ~~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~--~~q~~~e~~~~~~~~~~le~~~~ 380 (594)
T PF05667_consen 324 EEQEQELEELQEQLDELESQIEELEAEIKMLKSS--LKQLEEELEEKEAENEELEEELK 380 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445667777777777777777777777776644 34555555555555555555543
No 305
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=68.73 E-value=79 Score=27.51 Aligned_cols=32 Identities=31% Similarity=0.370 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIRTLQSN 115 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~ 115 (226)
+..++..|+.++..++..+.....+|..|...
T Consensus 79 ~e~~l~~Lq~ql~~l~akI~k~~~el~~L~TY 110 (258)
T PF15397_consen 79 EESKLSKLQQQLEQLDAKIQKTQEELNFLSTY 110 (258)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667788889999999999999999988864
No 306
>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=68.69 E-value=27 Score=26.15 Aligned_cols=48 Identities=29% Similarity=0.490 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMEN 137 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~ 137 (226)
+..+..++..+.+++..|+..+..+.+| |..|.-+...|+..+.++..
T Consensus 10 l~~le~~l~~l~~~~~~LK~~~~~l~EE---------N~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 10 LDQLEQQLGQLLEELEELKKQLQELLEE---------NARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHhc
Confidence 3444555555555555555555555444 33444444444444444443
No 307
>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]
Probab=68.69 E-value=6.1 Score=34.56 Aligned_cols=50 Identities=22% Similarity=0.542 Sum_probs=40.4
Q ss_pred chHHHHHHHHHHhcCC--CCc----HHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 6 DNTEAIVLNYVNEQNR--PLN----SQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nr--Pys----~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
++..++||.||.+.+- ||| .-||-+-+ +++|.+.++||=.|-..|+|.-.
T Consensus 224 ~~daq~Il~yL~~~gG~mpf~DKSsPEdIk~~F---giSKg~FKrAiGgL~K~g~I~q~ 279 (287)
T COG2996 224 DEDAQMILTYLESNGGFMPFNDKSSPEDIKATF---GISKGQFKRAIGGLMKAGKIKQD 279 (287)
T ss_pred hhhHHHHHHHHHHcCCccccCCCCCHHHHHHHh---CcCHHHHHHHHHHHHhCCeEEEc
Confidence 6778899999999876 664 34454444 89999999999999999999763
No 308
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=68.54 E-value=67 Score=28.80 Aligned_cols=55 Identities=16% Similarity=0.193 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc-----CC--HHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 90 KLQEQLEEQRKAISKLEGEIRTLQSN-----LT--LEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 90 ~l~~~l~~l~~~~k~l~~el~~l~~~-----~t--~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
-+++++..++.++...+..|...+.. |+ .......+.+|+.++.+++.+|..++.
T Consensus 174 fl~~ql~~~~~~l~~ae~~l~~fr~~~~~~d~~~~~~~~~~~i~~L~~~l~~~~~~l~~l~~ 235 (362)
T TIGR01010 174 FAENEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQLSLISTLEGELIRVQAQLAQLRS 235 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35567777777788887777777762 21 123556788899999999999988875
No 309
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=68.53 E-value=39 Score=32.44 Aligned_cols=22 Identities=14% Similarity=0.439 Sum_probs=13.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHH
Q 027236 116 LTLEQIREKEAQLVKEVKEMEN 137 (226)
Q Consensus 116 ~t~~el~~~i~~L~~e~~~l~~ 137 (226)
++.+++...+.+++.++..+..
T Consensus 322 ~s~e~l~~~~~~l~~eL~~l~~ 343 (563)
T TIGR00634 322 ASVEEVLEYAEKIKEELDQLDD 343 (563)
T ss_pred CCHHHHHHHHHHHHHHHHHHhC
Confidence 5666666666666666555444
No 310
>PRK10869 recombination and repair protein; Provisional
Probab=68.50 E-value=1.2e+02 Score=29.33 Aligned_cols=32 Identities=19% Similarity=0.210 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHh
Q 027236 153 DRMAVEEMFLEKLSQWR-KRKRMLRDIWDPIME 184 (226)
Q Consensus 153 e~~~~~~~~~~~~~~w~-kRkri~~~i~~~i~e 184 (226)
++..+.+.+...+..+. .|++.+..+-..|..
T Consensus 349 e~~~l~~~l~~~A~~LS~~R~~aA~~l~~~v~~ 381 (553)
T PRK10869 349 AVEKHHQQALETAQKLHQSRQRYAKELAQLITE 381 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455566665555555 466666666666543
No 311
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=68.43 E-value=26 Score=35.13 Aligned_cols=64 Identities=27% Similarity=0.428 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH------------HHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL------------EQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~------------~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
+..-.++.+...|+-+++.|+..+.+|...|...+...++ +-...+|.+|+++|++++++|..|
T Consensus 430 e~iv~~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~q~kl~~l 505 (1118)
T KOG1029|consen 430 EWIVYLNAKKKQLQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKELQEKLQKL 505 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3344556666777777777777777777777666655554 223346677777777777777655
No 312
>PRK02224 chromosome segregation protein; Provisional
Probab=68.33 E-value=80 Score=31.87 Aligned_cols=6 Identities=17% Similarity=0.363 Sum_probs=2.3
Q ss_pred cccccc
Q 027236 202 DEDVGV 207 (226)
Q Consensus 202 Ded~~v 207 (226)
|++|+|
T Consensus 762 ~~~~~i 767 (880)
T PRK02224 762 DGEYEL 767 (880)
T ss_pred cCCcce
Confidence 334433
No 313
>TIGR03433 padR_acidobact transcriptional regulator, Acidobacterial, PadR-family. Members of this protein family are putative transcriptional regulators of the PadR family, as found in species of the Acidobacteria. This family of proteins has expanded greatly in this lineage, and where it regularly is found in the vicinity of a putative transporter protein
Probab=68.32 E-value=42 Score=24.32 Aligned_cols=57 Identities=23% Similarity=0.402 Sum_probs=41.6
Q ss_pred HHHHHHHHhcCCCCcHHHHHHHHhc-----ccccHHHHHHHHHHHHHcCCccee--e--cCc-eeEEEe
Q 027236 10 AIVLNYVNEQNRPLNSQNVADALQK-----YNLKKAGIQKALDSLADNGKISFK--E--YGK-QKIYIA 68 (226)
Q Consensus 10 ~~Il~y~~~~nrPys~~di~~~l~~-----~~v~K~~v~k~L~~Lv~~g~i~~K--~--~GK-~kiY~~ 68 (226)
-.||-.+. ..|..--+|...+.. ..++..++-.+|..|..+|+|.+. . -|+ .++|.+
T Consensus 7 ~~iL~~L~--~~~~~GYei~~~l~~~~~~~~~i~~gtlY~~L~rLe~~GlI~~~~~~~~~~~~rk~y~i 73 (100)
T TIGR03433 7 LLILKTLS--LGPLHGYGIAQRIQQISEDVLQVEEGSLYPALHRLERRGWIAAEWGESENNRRAKFYRL 73 (100)
T ss_pred HHHHHHHh--cCCCCHHHHHHHHHHHcCCccccCCCcHHHHHHHHHHCCCeEEEeeecCCCCCceEEEE
Confidence 46777776 457776677666543 258899999999999999999985 2 233 377777
No 314
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=68.32 E-value=38 Score=31.64 Aligned_cols=65 Identities=28% Similarity=0.367 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-C-CHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN-L-TLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~-~-t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
-+++-.++.+..++..+++.|+.+.+.+..++...... . ...++.+.+..+..++..++..+..+
T Consensus 28 ~~~~~~ld~~~r~~~~~~e~l~~~rn~~sk~ig~~~~~~~~~~~~l~~e~~~l~~~l~~~e~~~~~~ 94 (429)
T COG0172 28 VDKLLELDEERRKLLRELEELQAERNELSKEIGRALKRGEDDAEELIAEVKELKEKLKELEAALDEL 94 (429)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHhccHHHHHH
Confidence 46788899999999999999999999999999854443 2 24566666666666666655555443
No 315
>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=68.24 E-value=42 Score=31.31 Aligned_cols=32 Identities=31% Similarity=0.601 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027236 83 QMKEENAKLQEQLEEQRKAISKLEGEIRTLQS 114 (226)
Q Consensus 83 ~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~ 114 (226)
.+..++..|.+++..++.++..++..|..+..
T Consensus 331 ~l~~~~~~l~~~~~~~~~~l~~l~~~l~~l~~ 362 (451)
T PF03961_consen 331 ELKEKLEELEEELEELKEELEKLKKNLKKLKK 362 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 34456666666666666666666666666554
No 316
>PRK00295 hypothetical protein; Provisional
Probab=68.23 E-value=35 Score=23.27 Aligned_cols=48 Identities=13% Similarity=0.172 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 95 LEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 95 l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+..|+..+.-.+..+..|+... .+-...|..|+.++..|..+|..+.+
T Consensus 7 i~~LE~kla~qE~tie~Ln~~v--~~Qq~~I~~L~~ql~~L~~rl~~~~~ 54 (68)
T PRK00295 7 VTELESRQAFQDDTIQALNDVL--VEQQRVIERLQLQMAALIKRQEEMVG 54 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3444444444444444444332 23345667777778888787777664
No 317
>COG2186 FadR Transcriptional regulators [Transcription]
Probab=68.22 E-value=74 Score=26.98 Aligned_cols=58 Identities=12% Similarity=0.236 Sum_probs=39.6
Q ss_pred chHHHHHHHHHHhcC-----CCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEE
Q 027236 6 DNTEAIVLNYVNEQN-----RPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIY 66 (226)
Q Consensus 6 ~ea~~~Il~y~~~~n-----rPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY 66 (226)
++.-+.|.+++..-- +.=+--++..-+ ||++++|-++|..|..+|+|..+..+-+.|-
T Consensus 13 ~~v~~~i~~~I~~g~~~~G~~LP~EreLae~f---gVSR~~vREAl~~L~a~Glve~r~G~Gt~V~ 75 (241)
T COG2186 13 DEVAEQIGALIVSGELPPGDRLPSERELAERF---GVSRTVVREALKRLEAKGLVEIRQGSGTFVR 75 (241)
T ss_pred HHHHHHHHHHHHcCCCCCCCCCCCHHHHHHHH---CCCcHHHHHHHHHHHHCCCeeecCCCceEec
Confidence 444455555555311 112334444444 9999999999999999999999988776664
No 318
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=68.20 E-value=11 Score=31.93 Aligned_cols=39 Identities=18% Similarity=0.315 Sum_probs=31.8
Q ss_pred CCCC-cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 20 NRPL-NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 20 nrPy-s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
+.+. |-.++...+ ||+++.|-++|..|..+|+|.....+
T Consensus 30 G~~LpsE~eLa~~~---gVSRtpVREAL~~L~~eGlV~~~~~~ 69 (257)
T PRK10225 30 GERLPPEREIAEML---DVTRTVVREALIMLEIKGLVEVRRGA 69 (257)
T ss_pred CCcCcCHHHHHHHh---CCCHHHHHHHHHHHHHCCCEEEecCC
Confidence 3345 566676666 89999999999999999999988754
No 319
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=68.07 E-value=39 Score=26.39 Aligned_cols=40 Identities=13% Similarity=0.086 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHH
Q 027236 125 EAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQW 168 (226)
Q Consensus 125 i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w 168 (226)
+...+.++..+...+...+.. -.-++.+-+.++.+..+.+
T Consensus 110 ~k~~kee~~klk~~~~~~~tq----~~~e~rkke~E~~kLk~rL 149 (151)
T PF11559_consen 110 LKQEKEELQKLKNQLQQRKTQ----YEHELRKKEREIEKLKERL 149 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHh
Confidence 333444444444444433321 1346667777776666554
No 320
>PF09639 YjcQ: YjcQ protein; InterPro: IPR018597 YjcQ is a protein of approx. 100 residues containing four alpha helices and three beta strands. It is found in bacteria and also in the Lactococcus phage Tuc2009. In bacteria it appears to be under the regulation of SigD RNA polymerase which is responsible for the expression of many genes encoding cell-surface proteins related to flagellar assembly, motility, chemotaxis and autolysis in the late exponential growth phase. The exact function of YjcQ is unknown []. However, it is thought to be the major head protein in viruses [] and is found in prophage in bacteria. ; PDB: 2HGC_A.
Probab=67.98 E-value=29 Score=24.78 Aligned_cols=63 Identities=14% Similarity=0.115 Sum_probs=37.3
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHH
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELN 82 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~ 82 (226)
+||.|+....+++..-+. ++.....-++|+.|+++|+|..-.+-...+++... -+..|.+-++
T Consensus 3 kIL~~l~~~~~~~~~~~~-------~~~~~~~~~il~~L~d~GyI~G~~~~~~~~~~~~~--~~~IT~~Gi~ 65 (88)
T PF09639_consen 3 KILKYLYKCMKNGKEPDP-------DITDSYWSDILRMLQDEGYIKGVSVVRYSPYVALS--DPRITLKGIE 65 (88)
T ss_dssp HHHHHHHHH-S---HHHH-------TS-HHHHHHHHHHHHHHTSEE--EESSSSEE--SS----EE-HHHHH
T ss_pred hHHHHHHHHHcCCCCCCc-------chhHHHHHHHHHHHHHCCCccceEEEeccceeecC--CceEcHHHHH
Confidence 589999998888774222 56669999999999999999988876665555522 2334554443
No 321
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=67.98 E-value=18 Score=30.17 Aligned_cols=52 Identities=19% Similarity=0.358 Sum_probs=41.4
Q ss_pred chHHHHHHHHHHh--------cCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 6 DNTEAIVLNYVNE--------QNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 6 ~ea~~~Il~y~~~--------~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
....+.|++++.+ -+.+.+-.+|...+ ||+++-|-++|..|+.+|+|.....
T Consensus 15 ~~~~~~vy~~Lr~~Il~g~l~pG~~l~e~~La~~~---gvSrtPVReAL~rL~~eGlv~~~p~ 74 (230)
T COG1802 15 DTLADQVYEELREAILSGELAPGERLSEEELAEEL---GVSRTPVREALRRLEAEGLVEIEPN 74 (230)
T ss_pred ccHHHHHHHHHHHHHHhCCCCCCCCccHHHHHHHh---CCCCccHHHHHHHHHHCCCeEecCC
Confidence 5556666666665 36688877777766 8999999999999999999998833
No 322
>PRK02793 phi X174 lysis protein; Provisional
Probab=67.86 E-value=37 Score=23.43 Aligned_cols=52 Identities=17% Similarity=0.189 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Q 027236 92 QEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGG 145 (226)
Q Consensus 92 ~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~ 145 (226)
.+.+..|+..+.-.+..+..|+... .+-...|..|+.++..|..+|..+.++
T Consensus 7 e~Ri~~LE~~lafQe~tIe~Ln~~v--~~Qq~~I~~L~~~l~~L~~rl~~~~~~ 58 (72)
T PRK02793 7 EARLAELESRLAFQEITIEELNVTV--TAHEMEMAKLRDHLRLLTEKLKASQPS 58 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 3444444444455555555554333 234566788888888888888887653
No 323
>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=67.75 E-value=12 Score=24.96 Aligned_cols=30 Identities=33% Similarity=0.441 Sum_probs=23.5
Q ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 114 SNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 114 ~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+.+|.+||...|..|+.||..++..+..-+
T Consensus 19 s~lSv~EL~~RIa~L~aEI~R~~~~~~~K~ 48 (59)
T PF06698_consen 19 SLLSVEELEERIALLEAEIARLEAAIAKKS 48 (59)
T ss_pred hhcCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346778889999999999988888776543
No 324
>PHA03395 p10 fibrous body protein; Provisional
Probab=67.56 E-value=44 Score=24.12 Aligned_cols=54 Identities=9% Similarity=0.287 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSN-LTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~-~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
.++.++.+..++..++..+..+++. |+.++|-..+..+...+..+.+++....+
T Consensus 9 Ir~dIkavd~KVdalQ~~V~~l~~nlpdv~~l~~kLdaq~~~Ltti~tkv~~I~d 63 (87)
T PHA03395 9 IRQDIKAVSDKVDALQAAVDDVRANLPDVTEINEKLDAQSASLDTISSAVDNITD 63 (87)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHhcCCcHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 3444555555566666666666665 67789999999999999999998887664
No 325
>PRK04863 mukB cell division protein MukB; Provisional
Probab=67.30 E-value=1.8e+02 Score=31.70 Aligned_cols=48 Identities=10% Similarity=0.103 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhC-----CCCCCCHHHHHHHHHHHHHHHHH
Q 027236 120 QIREKEAQLVKEVKEMENKLAKLRG-----GVTLVKPEDRMAVEEMFLEKLSQ 167 (226)
Q Consensus 120 el~~~i~~L~~e~~~l~~kL~~l~~-----~~~~vs~ee~~~~~~~~~~~~~~ 167 (226)
++...+..++.+...++..+..+.. +.+.+|.+++.....+|..-...
T Consensus 401 elqqel~elQ~el~q~qq~i~~Le~~~~~~~~~~~SdEeLe~~LenF~aklee 453 (1486)
T PRK04863 401 DYQQALDVQQTRAIQYQQAVQALERAKQLCGLPDLTADNAEDWLEEFQAKEQE 453 (1486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555554432 23567888777655554433333
No 326
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=67.23 E-value=29 Score=27.79 Aligned_cols=49 Identities=18% Similarity=0.353 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCH---HHHHHHHHHHHHHHHHHHHHH
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSNLTL---EQIREKEAQLVKEVKEMENKL 139 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~~t~---~el~~~i~~L~~e~~~l~~kL 139 (226)
...+...++.++.++..|+..+.+.-+- ..+..+++.+++|++++.+.+
T Consensus 38 ~~~~~~~l~~Ei~~l~~E~~~iS~qDeFAkwaKl~Rk~~kl~~el~~~~~~~ 89 (161)
T PF04420_consen 38 SSKEQRQLRKEILQLKRELNAISAQDEFAKWAKLNRKLDKLEEELEKLNKSL 89 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTS-TTTSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555666666666666666554433 445555555555555555544
No 327
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=67.10 E-value=1.2e+02 Score=29.38 Aligned_cols=102 Identities=13% Similarity=0.218 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH-----HHHHHHHHHHHHHHHHHHHHHHHhhC--CCCCCCHH
Q 027236 80 ELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL-----EQIREKEAQLVKEVKEMENKLAKLRG--GVTLVKPE 152 (226)
Q Consensus 80 e~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~-----~el~~~i~~L~~e~~~l~~kL~~l~~--~~~~vs~e 152 (226)
+.......+..|++..+.|+.++..+++-+..+.+--.. +.+..+|+.-+.+++.++..-..|+. ....+|++
T Consensus 253 e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~ 332 (581)
T KOG0995|consen 253 EREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGISGE 332 (581)
T ss_pred HHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHH
Q ss_pred HHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Q 027236 153 DRMAVEEM----FLEKLSQWRKRKRMLRDIWDP 181 (226)
Q Consensus 153 e~~~~~~~----~~~~~~~w~kRkri~~~i~~~ 181 (226)
++++...+ .+.....=.++=++-+.+|+.
T Consensus 333 dve~mn~Er~~l~r~l~~i~~~~d~l~k~vw~~ 365 (581)
T KOG0995|consen 333 DVERMNLERNKLKRELNKIQSELDRLSKEVWEL 365 (581)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
No 328
>COG2188 PhnF Transcriptional regulators [Transcription]
Probab=67.02 E-value=8.9 Score=32.47 Aligned_cols=37 Identities=27% Similarity=0.518 Sum_probs=28.4
Q ss_pred CcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCce
Q 027236 23 LNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQ 63 (226)
Q Consensus 23 ys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~ 63 (226)
.|-.++...+ +|++.+|-+||+.|+++|+|.-.- |+.
T Consensus 32 PsE~eLa~~f---~VSR~TvRkAL~~L~~eGli~r~~-G~G 68 (236)
T COG2188 32 PSERELAEQF---GVSRMTVRKALDELVEEGLIVRRQ-GKG 68 (236)
T ss_pred CCHHHHHHHH---CCcHHHHHHHHHHHHHCCcEEEEe-cCe
Confidence 4444555544 899999999999999999997664 443
No 329
>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]
Probab=67.01 E-value=20 Score=28.63 Aligned_cols=98 Identities=19% Similarity=0.270 Sum_probs=50.8
Q ss_pred ccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 027236 37 LKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNL 116 (226)
Q Consensus 37 v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~ 116 (226)
|.-..--+.|+..-+.--.+...+|+-++=.-.|. ..+..++.++..|...++.+...+..+...+..+.+.
T Consensus 37 ve~g~dne~id~imer~~~ieNdlg~~~~~~~g~k-------k~~~~~~eelerLe~~iKdl~~lye~Vs~d~Npf~s~- 108 (157)
T COG3352 37 VENGIDNEVIDAIMERMTDIENDLGKVKIEIEGQK-------KQLQDIKEELERLEENIKDLVSLYELVSRDFNPFMSK- 108 (157)
T ss_pred cccCCChHHHHHHHHHHHHHHhhcccccccccchh-------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhh-
Confidence 33333334444444443445556676666555443 2344455666666666666666666666666555543
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 117 TLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 117 t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
+..++.-.+.+|..++.++..-++..
T Consensus 109 ~~qes~~~veel~eqV~el~~i~emv 134 (157)
T COG3352 109 TPQESRGIVEELEEQVNELKMIVEMV 134 (157)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 22233334555666665555554443
No 330
>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=66.87 E-value=56 Score=25.07 Aligned_cols=55 Identities=16% Similarity=0.295 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 119 EQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQWRKRKRMLRDIWDP 181 (226)
Q Consensus 119 ~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w~kRkri~~~i~~~ 181 (226)
.+....+..++.+...++..+..++.. ...+...+......|..++..+..=++-
T Consensus 55 a~~~~~L~~lr~e~~~~~~~~~~l~~~--------~~~a~~~l~~~e~sw~~qk~~le~e~~~ 109 (132)
T PF07926_consen 55 AEDIKELQQLREELQELQQEINELKAE--------AESAKAELEESEASWEEQKEQLEKELSE 109 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 455667777888888888877777633 4455666666777888888666644333
No 331
>PRK11281 hypothetical protein; Provisional
Probab=66.76 E-value=1.2e+02 Score=31.92 Aligned_cols=74 Identities=16% Similarity=0.266 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMA 156 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~ 156 (226)
+.+++..+.++..++.+.+..+..+.+++..+.+.|.. ....+.+..+.+.+++.+|.....++.+.++.....
T Consensus 123 l~qLEq~L~q~~~~Lq~~Q~~La~~NsqLi~~qT~PER--AQ~~lsea~~RlqeI~~~L~~~~~~~~~l~~~~~~~ 196 (1113)
T PRK11281 123 LRQLESRLAQTLDQLQNAQNDLAEYNSQLVSLQTQPER--AQAALYANSQRLQQIRNLLKGGKVGGKALRPSQRVL 196 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchHH--HHHHHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHH
Confidence 35577888888889999999999999999988887754 456667777788888887766554445577755443
No 332
>PRK11020 hypothetical protein; Provisional
Probab=66.69 E-value=42 Score=25.45 Aligned_cols=48 Identities=19% Similarity=0.298 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 92 QEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 92 ~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
..++..|...+..++-.++.+...... ..|.++..|+..+..++..++
T Consensus 4 K~Eiq~L~drLD~~~~Klaaa~~rgd~----~~i~qf~~E~~~l~k~I~~lk 51 (118)
T PRK11020 4 KNEIKRLSDRLDAIRHKLAAASLRGDA----EKYAQFEKEKATLEAEIARLK 51 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCH----HHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555544332 345555566666666665555
No 333
>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=66.65 E-value=54 Score=24.83 Aligned_cols=22 Identities=14% Similarity=0.160 Sum_probs=18.6
Q ss_pred cccHHHHHHHHHHHHHcCCcce
Q 027236 36 NLKKAGIQKALDSLADNGKISF 57 (226)
Q Consensus 36 ~v~K~~v~k~L~~Lv~~g~i~~ 57 (226)
..+..-+.++++.||.+|.+..
T Consensus 18 a~~~ek~~k~~~~LVkkGe~~~ 39 (118)
T TIGR01837 18 ARVQEEGSKFFNRLVKEGELAE 39 (118)
T ss_pred HHHHHHHHHHHHHHHHhccccH
Confidence 5677888999999999998754
No 334
>TIGR02812 fadR_gamma fatty acid metabolism transcriptional regulator FadR. Members of this family are FadR, a transcriptional regulator of fatty acid metabolism, including both biosynthesis and beta-oxidation. It is found exclusively in a subset of Gammaproteobacteria, with strictly one copy per genome. It has an N-terminal DNA-binding domain and a less well conserved C-terminal long chain acyl-CoA-binding domain. FadR from this family heterologously expressed in Escherichia coli show differences in regulatory response and fatty acid binding profiles. The family is nevertheless designated equivalog, as all member proteins have at least nominally the same function.
Probab=66.60 E-value=11 Score=31.43 Aligned_cols=37 Identities=14% Similarity=0.355 Sum_probs=31.7
Q ss_pred CC-cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 22 PL-NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 22 Py-s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
.. |-.++...+ ||+++.|-.||..|..+|+|.....+
T Consensus 29 ~LpsE~~La~~l---gVSRtpVREAL~~Le~eGlV~~~~~~ 66 (235)
T TIGR02812 29 ILPAERELSELI---GVTRTTLREVLQRLARDGWLTIQHGK 66 (235)
T ss_pred cCcCHHHHHHHH---CcCHHHHHHHHHHHHHCCCEEEeCCC
Confidence 46 777777777 89999999999999999999988653
No 335
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=66.15 E-value=23 Score=33.72 Aligned_cols=56 Identities=21% Similarity=0.298 Sum_probs=46.5
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCcee
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQK 64 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~k 64 (226)
.+-+..||.++.+.+.+.+..++...+ |+....|..++.+|.+.|+|..+..-...
T Consensus 5 ~~~e~~iL~~l~~~~~~~~~~~la~~~---~~~~~~v~~~~~~L~~kg~v~~~~~~~~~ 60 (494)
T PTZ00326 5 ELEENTILSKLESENEIVNSLALAESL---NIDHQKVVGAIKSLESANYITTEMKKSNT 60 (494)
T ss_pred hHHHHHHHHHHHhcCCCCCHHHHHHHc---CCCHHHHHHHHHHHHhCCCEEEEEEEEEE
Confidence 567889999999877888888886665 78999999999999999988887764443
No 336
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=66.02 E-value=21 Score=26.60 Aligned_cols=36 Identities=17% Similarity=0.203 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 027236 80 ELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN 115 (226)
Q Consensus 80 e~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~ 115 (226)
....+..++.+++.+++.++.+...|..++..|+..
T Consensus 28 ~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~ 63 (105)
T PRK00888 28 DYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGG 63 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc
Confidence 566778888888888888888888888888888753
No 337
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=66.01 E-value=45 Score=28.44 Aligned_cols=33 Identities=21% Similarity=0.362 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQ 113 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~ 113 (226)
++.|..+-....++|....+++..++..++.+.
T Consensus 41 ~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~ 73 (230)
T PF10146_consen 41 MEELLQERMAHVEELRQINQDINTLENIIKQAE 73 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444444444444444444
No 338
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=65.96 E-value=74 Score=26.18 Aligned_cols=53 Identities=17% Similarity=0.150 Sum_probs=37.6
Q ss_pred chHHHHHHHHHHhc----CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 6 DNTEAIVLNYVNEQ----NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 6 ~ea~~~Il~y~~~~----nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
+..-+.|.+.+..- +...+..++.+.+ ||+++.|-+||..|..+|+|.....+
T Consensus 14 e~v~~~l~~~I~~g~l~pG~~L~e~~La~~l---gVSRtpVREAL~~L~~eGLV~~~~~~ 70 (221)
T PRK11414 14 LQVENDLKHQLSIGALKPGARLITKNLAEQL---GMSITPVREALLRLVSVNALSVAPAQ 70 (221)
T ss_pred HHHHHHHHHHHHhCCCCCCCccCHHHHHHHH---CCCchhHHHHHHHHHHCCCEEecCCC
Confidence 44444444444432 2456656666655 89999999999999999999887554
No 339
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=65.94 E-value=25 Score=29.16 Aligned_cols=55 Identities=22% Similarity=0.424 Sum_probs=40.7
Q ss_pred hHHHHHHHHHHhcCC----------CCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 7 NTEAIVLNYVNEQNR----------PLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 7 ea~~~Il~y~~~~nr----------Pys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.++.++..||..... |++-++|.+.+ |++..+|.++|..|.++|+ .. . | .+|.+.
T Consensus 148 ~~~~Rla~~Ll~~~~~~~~~~~~~i~~t~~~iA~~l---G~tretvsR~l~~L~~~gl-~~-~-~-~~i~I~ 212 (236)
T PRK09392 148 SSAERLANYLLKQSLRQGGADVVTLPYEKRVLASYL---GMTPENLSRAFAALASHGV-HV-D-G-SAVTIT 212 (236)
T ss_pred CHHHHHHHHHHHhccccCCCcEEEeeCCHHHHHHHh---CCChhHHHHHHHHHHhCCe-Ee-e-C-CEEEEc
Confidence 567777777764322 56678888877 8999999999999999995 32 2 3 356665
No 340
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=65.88 E-value=77 Score=26.32 Aligned_cols=33 Identities=18% Similarity=0.514 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQ 113 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~ 113 (226)
+..+..++..|.+-+..+..++..|+..|....
T Consensus 50 m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~ 82 (201)
T PF13851_consen 50 MAEISQENKRLSEPLKKAEEEVEELRKQLKNYE 82 (201)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444444444444444433
No 341
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=65.82 E-value=61 Score=25.16 Aligned_cols=55 Identities=22% Similarity=0.270 Sum_probs=37.7
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 115 NLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQWRKRKRMLRDIWD 180 (226)
Q Consensus 115 ~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w~kRkri~~~i~~ 180 (226)
.+|.+.|...+.+|+.+-..|+..|..+.- +++.+-+.+++.--.|+..+.+|..
T Consensus 50 ~Ms~~~l~~llkqLEkeK~~Le~qlk~~e~-----------rLeQEsKAyhk~ndeRr~ylaEi~~ 104 (129)
T PF15372_consen 50 QMSVESLNQLLKQLEKEKRSLENQLKDYEW-----------RLEQESKAYHKANDERRQYLAEISQ 104 (129)
T ss_pred hccHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 356688888999999999999998877652 2555555555555556655554443
No 342
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=65.80 E-value=23 Score=28.49 Aligned_cols=53 Identities=9% Similarity=0.203 Sum_probs=35.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 77 NSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 77 ~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
|++-+..|..++..|. .+++..++.....|...+...++..|..|+.+|...+
T Consensus 32 T~~G~~~L~~El~~L~--------------~~i~~Ar~~GDlsEak~~~~~~e~rI~~L~~~L~~A~ 84 (160)
T PRK06342 32 TEAGLKALEDQLAQAR--------------AAYEAAQAIEDVNERRRQMARPLRDLRYLAARRRTAQ 84 (160)
T ss_pred CHHHHHHHHHHHHHHH--------------HHHHHHHHCCChhHHHHHHHHHHHHHHHHHHHHccCE
Confidence 4566666666655554 3455555556666667778888888999988886643
No 343
>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=65.76 E-value=85 Score=26.75 Aligned_cols=22 Identities=18% Similarity=0.397 Sum_probs=12.4
Q ss_pred HHHHHHhCcccccccccchhhchh
Q 027236 191 KEFKEELGIEYDEDVGVSLQSFSD 214 (226)
Q Consensus 191 k~l~e~lGie~Ded~~v~~~~~~~ 214 (226)
..+++.+.+|.+. |-.+..|..
T Consensus 152 r~vlea~~~E~~y--g~~i~~~~~ 173 (251)
T PF11932_consen 152 RRVLEAYQIEMEY--GRTIEVYQG 173 (251)
T ss_pred HHHHHHHHHHHHh--CCceeEEEE
Confidence 4567777777754 444444433
No 344
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=65.52 E-value=71 Score=25.79 Aligned_cols=46 Identities=20% Similarity=0.372 Sum_probs=35.7
Q ss_pred cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCC
Q 027236 24 NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQF 73 (226)
Q Consensus 24 s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~ 73 (226)
+...|.+.+.. +|+-..|.++|+-|+.-|+|.-..-|+ |......+
T Consensus 41 d~~~iak~l~p-~is~~ev~~sL~~L~~~gli~k~~~g~---y~~t~~~l 86 (171)
T PF14394_consen 41 DPEWIAKRLRP-KISAEEVRDSLEFLEKLGLIKKDGDGK---YVQTDKSL 86 (171)
T ss_pred CHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCeEECCCCc---EEEeccee
Confidence 56677777755 899999999999999999998887753 44444433
No 345
>PF03233 Cauli_AT: Aphid transmission protein; InterPro: IPR004917 This protein is found in various caulimoviruses. It codes for an 18 kDa protein (PII), which is dispensable for infection but which is required for aphid transmission of the virus []. This protein interacts with the PIII protein []. ; GO: 0019089 transmission of virus
Probab=65.45 E-value=54 Score=26.50 Aligned_cols=51 Identities=35% Similarity=0.473 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSN-LTLEQIREKEAQLVKEVKEMENKLAK 141 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~-~t~~el~~~i~~L~~e~~~l~~kL~~ 141 (226)
+-..|.+....+..|+.+...|... .++.++...|..+...+.++++.+..
T Consensus 109 ~l~~L~e~snki~kLe~~~k~L~d~Iv~~~~i~e~IKd~de~L~~I~d~iK~ 160 (163)
T PF03233_consen 109 LLPTLEEISNKIRKLETEVKKLKDNIVTEKLIEELIKDFDERLKEIRDKIKK 160 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHhhhccccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4445555566777777777776665 45567777777777777777776654
No 346
>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=65.38 E-value=99 Score=30.27 Aligned_cols=61 Identities=20% Similarity=0.234 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhC-----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 027236 123 EKEAQLVKEVKEMENKLAKLRG-----GVTLVKPEDRMAVEEMFLEKLSQWRKRKRMLRDIWDPIMENSPK 188 (226)
Q Consensus 123 ~~i~~L~~e~~~l~~kL~~l~~-----~~~~vs~ee~~~~~~~~~~~~~~w~kRkri~~~i~~~i~e~~~~ 188 (226)
..+.+++.++..++.++..++. |+ .-.++++.++.+...+...-..+. ..+..++.+..|.
T Consensus 230 ~~i~~l~~ele~a~~~l~~l~~~~~~~GG--~~~~~r~~Le~ei~~le~e~~e~~---~~l~~l~~~~~p~ 295 (650)
T TIGR03185 230 QEIAHLRNELEEAQRSLESLEKKFRSEGG--DLFEEREQLERQLKEIEAARKANR---AQLRELAADPLPL 295 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcc--hHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhcccCCH
Confidence 3344444444444444444432 22 234555566666554444444444 3333444444443
No 347
>COG3177 Fic family protein [Function unknown]
Probab=65.35 E-value=12 Score=33.80 Aligned_cols=47 Identities=17% Similarity=0.161 Sum_probs=38.1
Q ss_pred hcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEE
Q 027236 18 EQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYI 67 (226)
Q Consensus 18 ~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~ 67 (226)
.++-.+++.++...+ +|+++++.+.|..|++.|.|....-|+...|+
T Consensus 300 ~~~~~~t~~~~~~~~---~~s~~Ta~r~l~~l~~~g~l~~~~~~~r~~~~ 346 (348)
T COG3177 300 GQEGYLTAAEIEAIL---GVSKATATRDLKELLELGILEEVKGRGRSKLY 346 (348)
T ss_pred ccCCCccHHHHHHHh---CccHHHHHHHHHHHHhCCCeeecCCCCCceec
Confidence 355667777776655 89999999999999999999999888665444
No 348
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=65.34 E-value=1.8e+02 Score=30.37 Aligned_cols=67 Identities=21% Similarity=0.395 Sum_probs=48.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---h-----ccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 77 NSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTL---Q-----SNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 77 ~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l---~-----~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+..++..+...+..+...+..+...+..+...+..- . ..|+.+++...+..++.++..+...+..+.
T Consensus 775 ~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 849 (1047)
T PRK10246 775 DEETLTQLEQLKQNLENQRQQAQTLVTQTAQALAQHQQHRPDGLDLTVTVEQIQQELAQLAQQLRENTTRQGEIR 849 (1047)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777788888888888888877777666555541 1 246778888888888888888777776655
No 349
>PF14502 HTH_41: Helix-turn-helix domain
Probab=65.34 E-value=21 Score=22.87 Aligned_cols=40 Identities=25% Similarity=0.432 Sum_probs=30.2
Q ss_pred CCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCc
Q 027236 20 NRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 20 nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
+|-=++.+..+-+ +++...||.+|..|.+.|-|.-..-|-
T Consensus 4 dRi~tI~e~~~~~---~vs~GtiQ~Alk~Le~~gaI~Le~rGh 43 (48)
T PF14502_consen 4 DRIPTISEYSEKF---GVSRGTIQNALKFLEENGAIKLESRGH 43 (48)
T ss_pred cccCCHHHHHHHh---CcchhHHHHHHHHHHHCCcEEeeecCc
Confidence 3444555555544 899999999999999999988776553
No 350
>TIGR02063 RNase_R ribonuclease R. This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans.
Probab=65.26 E-value=14 Score=36.53 Aligned_cols=49 Identities=20% Similarity=0.472 Sum_probs=39.8
Q ss_pred HHHHHHHHHh-cCCCCcHHHHHHHHhccc-ccHHHHHHHHHHHHHcCCcce
Q 027236 9 EAIVLNYVNE-QNRPLNSQNVADALQKYN-LKKAGIQKALDSLADNGKISF 57 (226)
Q Consensus 9 ~~~Il~y~~~-~nrPys~~di~~~l~~~~-v~K~~v~k~L~~Lv~~g~i~~ 57 (226)
++.||+||.+ .++|.+..++...|+-.+ -.+..+.++|+.|+.+|.|..
T Consensus 4 ~~~il~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~l~~~l~~l~~~g~l~~ 54 (709)
T TIGR02063 4 RELILEFLKSKKGKPISLKELAKAFHLKGADEKKALRKRLRALEDDGLVKK 54 (709)
T ss_pred HHHHHHHHHhCCCCCCCHHHHHHHhCCCChHHHHHHHHHHHHHHHCCCEEE
Confidence 4579999987 679999999999884311 247889999999999999864
No 351
>PF09969 DUF2203: Uncharacterized conserved protein (DUF2203); InterPro: IPR018699 This family has no known function.
Probab=65.19 E-value=59 Score=24.78 Aligned_cols=65 Identities=18% Similarity=0.350 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
-++-+.+--.+..+-.++..+..++..+.++|......++...+..++..+..++...-..+..+
T Consensus 5 l~EA~~lLP~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~ 69 (120)
T PF09969_consen 5 LEEANALLPLLRPILEEIRELKAELEELEERLQELEDSLEVNGLEAELEELEARLRELIDEIEEL 69 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHHHHHHc
Confidence 45555666666667777777788888888888777776656666666666666666665555443
No 352
>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]
Probab=65.06 E-value=1.2e+02 Score=33.51 Aligned_cols=25 Identities=28% Similarity=0.529 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 119 EQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 119 ~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
.||.+.|..++.++.-++..|..+.
T Consensus 1246 qEl~~~i~kl~~el~plq~~l~el~ 1270 (1822)
T KOG4674|consen 1246 QELRDKIEKLNFELAPLQNELKELK 1270 (1822)
T ss_pred HHHHHHHHHHHhhHhhHHHHHHHHH
Confidence 3444455555555555555444444
No 353
>PRK10780 periplasmic chaperone; Provisional
Probab=65.01 E-value=69 Score=25.48 Aligned_cols=60 Identities=10% Similarity=0.109 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLA 140 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~ 140 (226)
...++.+....+.++..+..++..+..++..-.+..|..+....-.++.....+++.+..
T Consensus 45 ~~~le~~~~~~q~el~~~~~elq~~~~~~q~~~~~ms~~~~~~~~~el~~~~~~~q~~~~ 104 (165)
T PRK10780 45 SKQLENEFKGRASELQRMETDLQAKMQKLQRDGSTMKGSDRTKLEKDVMAQRQTFSQKAQ 104 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566667777777777777776666666656667766655554444444444444433
No 354
>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria. There is little literature describing the family.
Probab=64.80 E-value=1.9e+02 Score=30.44 Aligned_cols=126 Identities=16% Similarity=0.272 Sum_probs=79.9
Q ss_pred cHHHHHHHHHHHHHcCCcc----eeecCceeEEEeecCCCCCCCHHHHHHHHHHHHHHHHHH---------HHHHH--HH
Q 027236 38 KKAGIQKALDSLADNGKIS----FKEYGKQKIYIARQDQFDIPNSEELNQMKEENAKLQEQL---------EEQRK--AI 102 (226)
Q Consensus 38 ~K~~v~k~L~~Lv~~g~i~----~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~~l---------~~l~~--~~ 102 (226)
.-+++++|+-.|.+.+... --+|-+-.=|.. |. ..|-...+.+++.++.-+ .+.+. +-
T Consensus 970 ViPvLEeCl~aL~~nn~~~L~kaLA~FP~d~qWSa----FN---s~EA~~AK~QMDaIKqmIekKv~L~~L~qCqdALeK 1042 (1439)
T PF12252_consen 970 VIPVLEECLNALRENNMDMLQKALAAFPSDKQWSA----FN---SEEARQAKAQMDAIKQMIEKKVVLQALTQCQDALEK 1042 (1439)
T ss_pred cHHHHHHHHHHHHhcCHHHHHHHHHhCCCcccchh----cC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4578899999999988766 334444444444 44 455444445444443321 11111 22
Q ss_pred HHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 027236 103 SKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG--GVTLVKPEDRMAVEEMFLEKLSQWRKRK 172 (226)
Q Consensus 103 k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~--~~~~vs~ee~~~~~~~~~~~~~~w~kRk 172 (226)
..+...|..|++-|+..|+-.-=..|+.+|..++..|+.|+. -+++++.+ +++...|......-++|.
T Consensus 1043 qnIa~AL~ALn~IPSdKEms~Is~eLReQIq~~KQ~LesLQRAV~TPVvtd~--eKvr~rYe~LI~~iTKrI 1112 (1439)
T PF12252_consen 1043 QNIAGALQALNNIPSDKEMSKISSELREQIQSVKQDLESLQRAVVTPVVTDA--EKVRVRYETLITDITKRI 1112 (1439)
T ss_pred hhHHHHHHHHhcCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhhcccccccH--HHHHHHHHHHHHHHHHHH
Confidence 334556888899999988887447788888888888999974 34445544 356667777777777775
No 355
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=64.76 E-value=96 Score=27.02 Aligned_cols=38 Identities=26% Similarity=0.375 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN 115 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~ 115 (226)
.+++..|+..+...-+.+..|+.+.+.|+.+|..+...
T Consensus 3 K~eL~~LNdRla~YIekVr~LE~~N~~Le~~i~~~~~~ 40 (312)
T PF00038_consen 3 KEELQSLNDRLASYIEKVRFLEQENKRLESEIEELREK 40 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhc
Confidence 46788899999999999999999999999999998876
No 356
>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]
Probab=64.38 E-value=88 Score=32.38 Aligned_cols=94 Identities=20% Similarity=0.387 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHH
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLE 163 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~ 163 (226)
+..+|..+..-+...+.....++.++..+.+.. .+...+|..|...+.+...+++.+.+.. .+..+..+..+.+
T Consensus 395 ir~ei~~l~~~i~~~ke~e~~lq~e~~~~e~~l--~~~~e~i~~l~~si~e~~~r~~~~~~~~----~~~k~~~del~~~ 468 (1200)
T KOG0964|consen 395 IRSEIEKLKRGINDTKEQENILQKEIEDLESEL--KEKLEEIKELESSINETKGRMEEFDAEN----TELKRELDELQDK 468 (1200)
T ss_pred HHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH--HHHHHHHHHHHhhHhhhhhHHHHHHHHH----HHHHHHHHHHHHH
Confidence 345555555555555555555555555555432 4556677777777777777777775432 2334455555555
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 027236 164 KLSQWRKRKRMLRDIWDPIME 184 (226)
Q Consensus 164 ~~~~w~kRkri~~~i~~~i~e 184 (226)
-...|+.-+++ ...++.+.+
T Consensus 469 Rk~lWREE~~l-~~~i~~~~~ 488 (1200)
T KOG0964|consen 469 RKELWREEKKL-RSLIANLEE 488 (1200)
T ss_pred HHHHHHHHHHH-HHHHHHHHH
Confidence 56677776665 555555544
No 357
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=64.18 E-value=49 Score=23.44 Aligned_cols=45 Identities=11% Similarity=0.216 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 027236 123 EKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQWRKRK 172 (226)
Q Consensus 123 ~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w~kRk 172 (226)
-+|++|+.++..+......++++ -+++..-...++.-+..|..|.
T Consensus 25 mEieELKekn~~L~~e~~~~~~~-----r~~L~~en~qLk~E~~~WqerL 69 (79)
T PRK15422 25 MEIEELKEKNNSLSQEVQNAQHQ-----REELERENNHLKEQQNGWQERL 69 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh-----HHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555554433 2333333344444556677665
No 358
>PRK11020 hypothetical protein; Provisional
Probab=63.86 E-value=19 Score=27.34 Aligned_cols=10 Identities=20% Similarity=0.614 Sum_probs=5.9
Q ss_pred HHHHHHhCcc
Q 027236 191 KEFKEELGIE 200 (226)
Q Consensus 191 k~l~e~lGie 200 (226)
-.|-.++||.
T Consensus 99 TaLGrEmgLk 108 (118)
T PRK11020 99 TALGREMGLK 108 (118)
T ss_pred hHHHHHcCcc
Confidence 4566666665
No 359
>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=63.79 E-value=53 Score=29.27 Aligned_cols=27 Identities=30% Similarity=0.526 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKL 105 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l 105 (226)
++...++.++..+..+...+.+++..+
T Consensus 43 ~~~~~~~~el~~le~Ee~~l~~eL~~L 69 (314)
T PF04111_consen 43 EDIEELEEELEKLEQEEEELLQELEEL 69 (314)
T ss_dssp H--HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444333333333333333
No 360
>PRK09775 putative DNA-binding transcriptional regulator; Provisional
Probab=63.54 E-value=20 Score=33.53 Aligned_cols=51 Identities=16% Similarity=0.286 Sum_probs=44.1
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
.|+..+. +.|.++.+|...+ +|+.++|-+.|..| .|+|....-|++..|-.
T Consensus 4 ~~~~~L~--~g~~~~~eL~~~l---~~sq~~~s~~L~~L--~~~V~~~~~gr~~~Y~l 54 (442)
T PRK09775 4 LLTTLLL--QGPLSAAELAARL---GVSQATLSRLLAAL--GDQVVRFGKARATRYAL 54 (442)
T ss_pred HHHHHHh--cCCCCHHHHHHHh---CCCHHHHHHHHHHh--hcceeEeccCceEEEEe
Confidence 4556665 5699999999999 79999999999999 99999999999888854
No 361
>PRK00736 hypothetical protein; Provisional
Probab=63.30 E-value=42 Score=22.88 Aligned_cols=48 Identities=19% Similarity=0.294 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 95 LEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 95 l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+..|+..+...+..+..|+... .+-...|..|+.++..|.++|....+
T Consensus 7 i~~LE~klafqe~tie~Ln~~v--~~Qq~~i~~L~~ql~~L~~rl~~~~~ 54 (68)
T PRK00736 7 LTELEIRVAEQEKTIEELSDQL--AEQWKTVEQMRKKLDALTERFLSLEE 54 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3333444444444444444332 23345667777888888888877654
No 362
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=63.08 E-value=69 Score=32.87 Aligned_cols=31 Identities=23% Similarity=0.318 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIRTLQS 114 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~ 114 (226)
...++.+|...-+.|..++..+++.++.|+.
T Consensus 408 k~sE~~eL~r~kE~Lsr~~d~aEs~iadlkE 438 (1243)
T KOG0971|consen 408 KNSELEELRRQKERLSRELDQAESTIADLKE 438 (1243)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444555555555555555543
No 363
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=62.95 E-value=32 Score=24.31 Aligned_cols=45 Identities=20% Similarity=0.364 Sum_probs=37.9
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
.|.+-+.+.++|-..+.|...+ +++-++|-..+..|-+-|+|..+
T Consensus 12 alV~~Y~~~~~PVgSk~ia~~l---~~s~aTIRN~M~~Le~lGlve~~ 56 (78)
T PF03444_consen 12 ALVELYIETGEPVGSKTIAEEL---GRSPATIRNEMADLEELGLVESQ 56 (78)
T ss_pred HHHHHHHhcCCCcCHHHHHHHH---CCChHHHHHHHHHHHHCCCccCC
Confidence 3444555679999999999877 67899999999999999999765
No 364
>PF14735 HAUS4: HAUS augmin-like complex subunit 4
Probab=62.91 E-value=99 Score=26.53 Aligned_cols=49 Identities=10% Similarity=0.230 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 027236 119 EQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQWRKRK 172 (226)
Q Consensus 119 ~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w~kRk 172 (226)
+.|...+.+++++....+.+|..|++-+ .++..+-++|.......-.++
T Consensus 181 ~~L~~~~~~~e~~~~~a~~~L~~Ye~lg-----~~F~~ivreY~~l~~~ie~k~ 229 (238)
T PF14735_consen 181 DHLEEAIEELEQELQKARQRLESYEGLG-----PEFEEIVREYTDLQQEIENKR 229 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccc-----HhHHHHHHHHHHHHHHHHHHH
Confidence 6677788888999999999999998632 458888888888777766555
No 365
>PF14277 DUF4364: Domain of unknown function (DUF4364)
Probab=62.84 E-value=34 Score=27.57 Aligned_cols=58 Identities=17% Similarity=0.332 Sum_probs=46.9
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcc-cccHHHHHHHHHHHHHcCCcceee-cCceeEEEe
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKY-NLKKAGIQKALDSLADNGKISFKE-YGKQKIYIA 68 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~-~v~K~~v~k~L~~Lv~~g~i~~K~-~GK~kiY~~ 68 (226)
.||-.|++-+-|.+-..|.+.+-.. -+.==.+|.+|..|++.|+|.... .-....|..
T Consensus 4 lILYiL~~v~~pltn~qit~~iL~~~~~nYF~lqq~l~eL~es~~i~~~~~~~~~~~y~i 63 (163)
T PF14277_consen 4 LILYILKKVKFPLTNSQITEFILENEYTNYFTLQQALSELVESGLITLETDSDNKTRYSI 63 (163)
T ss_pred hHhHHHHhCCCCCCHHHHHHHHHhcCcccHHHHHHHHHHHHHCCCEEEeeccCCCcEEEE
Confidence 5788888899999999998855443 456778999999999999999874 655667777
No 366
>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5
Probab=62.80 E-value=1.2e+02 Score=29.82 Aligned_cols=63 Identities=25% Similarity=0.389 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc------------cCCHH--HHHHHHHHHHHHHHHHHHHHHHh
Q 027236 80 ELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQS------------NLTLE--QIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 80 e~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~------------~~t~~--el~~~i~~L~~e~~~l~~kL~~l 142 (226)
.+..|..++..|.++....-..+..|+..|..|+. .|+.. .|.+.+..|.+++..+..+|...
T Consensus 30 r~~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~~~~~pa~pse~E~~Lq~E~~~L~kElE~L~~qlqaq 106 (617)
T PF15070_consen 30 RMQQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPPPPEPPAGPSEVEQQLQAEAEHLRKELESLEEQLQAQ 106 (617)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555666666555555555566655555553 12232 46777888888888888877654
No 367
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=62.77 E-value=64 Score=31.46 Aligned_cols=21 Identities=14% Similarity=0.314 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHcCCcceeecCc
Q 027236 41 GIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 41 ~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
.+..||....+.-. -....|+
T Consensus 389 ~l~eal~~~~e~~~-p~e~~~~ 409 (652)
T COG2433 389 PLAEALSKVKEEER-PREKEGT 409 (652)
T ss_pred cHHHHHHHHHhhhc-ccccccc
Confidence 34455555444433 3334444
No 368
>KOG0981 consensus DNA topoisomerase I [Replication, recombination and repair]
Probab=62.77 E-value=37 Score=32.89 Aligned_cols=64 Identities=19% Similarity=0.393 Sum_probs=32.2
Q ss_pred HHHHHHHHHH-cCCcceee--c---CceeEEEeecCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 42 IQKALDSLAD-NGKISFKE--Y---GKQKIYIARQDQ-FDIPNSEELNQMKEENAKLQEQLEEQRKAISKL 105 (226)
Q Consensus 42 v~k~L~~Lv~-~g~i~~K~--~---GK~kiY~~~Q~~-~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l 105 (226)
++.-|+.|.. +|-|..|- | ..+.--.||.+. .+.--...+..+...|..+++++.+++.++...
T Consensus 592 lqeqL~~lt~p~~~v~~KIl~YnrANr~VAIlCNHQR~v~K~h~~smekl~~kI~~~keql~e~~~~l~~a 662 (759)
T KOG0981|consen 592 LQEQLDKLTNPDGNVAAKILSYNRANRTVAILCNHQRAVSKTHEKSMEKLAEKIKAKKEQLKEAEAELKSA 662 (759)
T ss_pred HHHHHHhccCCCccHHHHHHHHhhccceeeeeecccccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4555555555 56555552 2 344344555543 333223335566666666666655555444433
No 369
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=62.65 E-value=39 Score=24.62 Aligned_cols=53 Identities=21% Similarity=0.334 Sum_probs=42.2
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCce
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQ 63 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~ 63 (226)
++..-.||.++...|- =.+.-|..++ +++...|..+|+.|.+-|+|.--. |+.
T Consensus 6 ~~l~~~IL~hl~~~~~-Dy~k~ia~~l---~~~~~~v~~~l~~Le~~GLler~~-g~~ 58 (92)
T PF10007_consen 6 DPLDLKILQHLKKAGP-DYAKSIARRL---KIPLEEVREALEKLEEMGLLERVE-GKT 58 (92)
T ss_pred ChhHHHHHHHHHHHCC-CcHHHHHHHH---CCCHHHHHHHHHHHHHCCCeEEec-Ccc
Confidence 5566789999998774 4445677766 799999999999999999998766 553
No 370
>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=62.57 E-value=35 Score=30.72 Aligned_cols=37 Identities=19% Similarity=0.324 Sum_probs=20.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 73 FDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEI 109 (226)
Q Consensus 73 ~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el 109 (226)
+..+|-.+...++.+...|++++..|+.++..|+++.
T Consensus 26 ~~~~~~~e~~aLr~EN~~LKkEN~~Lk~eVerLE~e~ 62 (420)
T PF07407_consen 26 LEGVSIDENFALRMENHSLKKENNDLKIEVERLENEM 62 (420)
T ss_pred ccccchhhhhhHHHHhHHHHHHHHHHHHHHHHHHHHh
Confidence 4445555666655555555555555555555554443
No 371
>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=62.47 E-value=58 Score=29.04 Aligned_cols=19 Identities=21% Similarity=0.405 Sum_probs=11.3
Q ss_pred ccHHHHHHHHHHHHHcCCc
Q 027236 37 LKKAGIQKALDSLADNGKI 55 (226)
Q Consensus 37 v~K~~v~k~L~~Lv~~g~i 55 (226)
+.-..+++-|..|-++|..
T Consensus 160 ~~le~Lq~Klk~LEeEN~~ 178 (306)
T PF04849_consen 160 IQLEALQEKLKSLEEENEQ 178 (306)
T ss_pred hhHHHHHHHHHHHHHHHHH
Confidence 4456666666666665543
No 372
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=62.47 E-value=53 Score=23.26 Aligned_cols=64 Identities=20% Similarity=0.436 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CC----HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 80 ELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN--LT----LEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 80 e~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~--~t----~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
.+..++..+.+++..=..|...+..+..+|..+... +. ...-...+..++.++..+..++..++
T Consensus 15 ~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~~~~~~~~~~~~~y~~KL~~ikkrm~~l~~~l~~lk 84 (92)
T PF14712_consen 15 DLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNEVEQINEPFDLDPYVKKLVNIKKRMSNLHERLQKLK 84 (92)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355667777777777777777777777777777662 22 23345566666777777777666654
No 373
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=62.43 E-value=86 Score=32.99 Aligned_cols=28 Identities=7% Similarity=0.275 Sum_probs=14.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 75 IPNSEELNQMKEENAKLQEQLEEQRKAI 102 (226)
Q Consensus 75 ~~~~ee~~~l~~~i~~l~~~l~~l~~~~ 102 (226)
..++++...++.++.........+..+.
T Consensus 774 ~~s~~~v~~le~~l~~~~~~~~~~~~~~ 801 (1293)
T KOG0996|consen 774 GVSKESVEKLERALSKMSDKARQHQEQL 801 (1293)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466666666666655444444433333
No 374
>PRK14136 recX recombination regulator RecX; Provisional
Probab=62.37 E-value=21 Score=31.83 Aligned_cols=54 Identities=20% Similarity=0.367 Sum_probs=44.8
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCc
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
.+....|.||- .|+||-.+|..-|..+++.-..|..+|+.|.+.|.|.-..|-.
T Consensus 163 ~lk~kAL~lLS--rReRSe~ELr~KL~kkG~~ee~IE~VIerLke~gYLDDeRFAe 216 (309)
T PRK14136 163 SLKGRALGYLS--RREYSRAELARKLAPYADESDSVEPLLDALEREGWLSDARFAE 216 (309)
T ss_pred HHHHHHHHHhh--cccccHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCcCHHHHHH
Confidence 45566777775 8999999999999888999999999999999998875554443
No 375
>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=62.35 E-value=61 Score=28.34 Aligned_cols=16 Identities=19% Similarity=0.511 Sum_probs=7.2
Q ss_pred cccHHHHHHHHHHHHH
Q 027236 36 NLKKAGIQKALDSLAD 51 (226)
Q Consensus 36 ~v~K~~v~k~L~~Lv~ 51 (226)
.+++.-+.+++..|.|
T Consensus 145 ~LS~~dl~e~~~~l~D 160 (269)
T PF05278_consen 145 ELSESDLKEMIATLKD 160 (269)
T ss_pred hhhHHHHHHHHHHHHH
Confidence 3444444444444443
No 376
>PRK14135 recX recombination regulator RecX; Provisional
Probab=61.83 E-value=21 Score=30.54 Aligned_cols=53 Identities=25% Similarity=0.372 Sum_probs=43.8
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
.|....+.|+ +.|++|-.+|..-|...|++-..|..+|+.|.+.|.|.-..|.
T Consensus 58 ~a~~~Al~~L--~~r~~s~~el~~kL~~kg~~~~~Ie~vl~~l~~~~~ldD~~~a 110 (263)
T PRK14135 58 KGKNLALYYL--SYQMRTEKEVRDYLKKHEISEEIISEVIDKLKEEKYIDDKEYA 110 (263)
T ss_pred HHHHHHHHHh--hhccccHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence 4555666667 4889999999999988899999999999999999987655443
No 377
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=61.74 E-value=51 Score=23.92 Aligned_cols=62 Identities=26% Similarity=0.355 Sum_probs=38.2
Q ss_pred HHcCCcceeecCceeEE---EeecCCCC----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 50 ADNGKISFKEYGKQKIY---IARQDQFD----IPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTL 112 (226)
Q Consensus 50 v~~g~i~~K~~GK~kiY---~~~Q~~~~----~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l 112 (226)
++.+-|..+..|...|- |.... .+ ...+.++..+..++..++.++..+..++..++.+++-|
T Consensus 35 ~d~~Sl~V~~~g~~~i~~v~~~~~~-~~~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~L 103 (104)
T PF13600_consen 35 LDPDSLRVSGEGGVTILSVRFRRDF-LPEPEKESDSPELKELEEELEALEDELAALQDEIQALEAQIAFL 103 (104)
T ss_pred cCCCcEEEEecCCEEEEEEEEEEec-cCccccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 35566667766644333 32222 11 23456777777888888887777777777777776544
No 378
>smart00338 BRLZ basic region leucin zipper.
Probab=61.70 E-value=31 Score=22.90 Aligned_cols=21 Identities=14% Similarity=0.436 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027236 118 LEQIREKEAQLVKEVKEMENK 138 (226)
Q Consensus 118 ~~el~~~i~~L~~e~~~l~~k 138 (226)
+.+|...+..|+.++..+...
T Consensus 42 n~~L~~~~~~l~~e~~~lk~~ 62 (65)
T smart00338 42 NERLKKEIERLRRELEKLKSE 62 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555443
No 379
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=61.68 E-value=28 Score=23.36 Aligned_cols=41 Identities=22% Similarity=0.360 Sum_probs=33.8
Q ss_pred CCCCcchHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHH
Q 027236 1 MAPKSDNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQK 44 (226)
Q Consensus 1 M~~kg~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k 44 (226)
||.+.+--++.-++++.++|---.+.||.+.| ||+-.+|.+
T Consensus 1 M~r~Rsp~rdkA~e~y~~~~g~i~lkdIA~~L---gvs~~tIr~ 41 (60)
T PF10668_consen 1 MARKRSPNRDKAFEIYKESNGKIKLKDIAEKL---GVSESTIRK 41 (60)
T ss_pred CCCCCCcCHHHHHHHHHHhCCCccHHHHHHHH---CCCHHHHHH
Confidence 78766677888888899999999999999988 788777653
No 380
>PF02646 RmuC: RmuC family; InterPro: IPR003798 This protein contains several bacterial RmuC DNA recombination proteins. The function of the RMUC protein is unknown but it is suspected that it is either a structural protein that protects DNA against nuclease action, or is itself involved in DNA cleavage at the regions of DNA secondary structures []. Proteins in this family are predicted to contain a central endonuclease-like fold domain, surrounded by coiled coils, consistent with a direct role in DNA cleavage [, ].
Probab=61.67 E-value=33 Score=30.34 Aligned_cols=50 Identities=20% Similarity=0.318 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCH-HHHHHHhCcccccccccchhhchhhhhCCC
Q 027236 163 EKLSQWRKRKRMLRDIWDPIMENSPKNL-KEFKEELGIEYDEDVGVSLQSFSDLLQRGK 220 (226)
Q Consensus 163 ~~~~~w~kRkri~~~i~~~i~e~~~~~~-k~l~e~lGie~Ded~~v~~~~~~~~~~~~~ 220 (226)
+.+..|... .+..|.+..++.. .+|..+..+ |.+-+-..|++---+|++|
T Consensus 68 k~rG~wGE~------~Le~iLe~~gl~~~~~y~~Q~~~--~~~~~~~rpD~vI~LP~~~ 118 (304)
T PF02646_consen 68 KTRGNWGEM------QLERILEDSGLPEGCDYETQVSL--DEDGNGLRPDFVIHLPGGR 118 (304)
T ss_pred CchhhHHHH------HHHHHHHHcCCCcccchhhcccc--cCCCCCcCceEEEEcCCCC
Confidence 345667665 3456677766554 367666666 4455566677777777644
No 381
>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]
Probab=61.65 E-value=1.4e+02 Score=33.39 Aligned_cols=23 Identities=39% Similarity=0.469 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q 027236 92 QEQLEEQRKAISKLEGEIRTLQS 114 (226)
Q Consensus 92 ~~~l~~l~~~~k~l~~el~~l~~ 114 (226)
..+...+..+++..+.++..+.+
T Consensus 1061 ~~~~~el~~~l~kke~El~~l~~ 1083 (1930)
T KOG0161|consen 1061 KKQKEELDNQLKKKESELSQLQS 1083 (1930)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333334444444444444433
No 382
>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans. Its function is unknown.
Probab=61.62 E-value=1.2e+02 Score=28.04 Aligned_cols=72 Identities=17% Similarity=0.203 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEM 160 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~ 160 (226)
+..+..++.++++....|...+..|+..+..-- .-+...+.+-+-....|++.|..+-.. -..|+..++.+
T Consensus 214 l~~~~~el~eik~~~~~L~~~~e~Lk~~~~~e~-----~~~~~~LqEEr~R~erLEeqlNd~~el----Hq~Ei~~LKqe 284 (395)
T PF10267_consen 214 LQKILEELREIKESQSRLEESIEKLKEQYQREY-----QFILEALQEERYRYERLEEQLNDLTEL----HQNEIYNLKQE 284 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHhHHHHHHHHHHHHHHHHH----HHHHHHHHHHH
Confidence 445555555555555555555555544322111 223333344444444455555444332 14455555555
Q ss_pred H
Q 027236 161 F 161 (226)
Q Consensus 161 ~ 161 (226)
+
T Consensus 285 L 285 (395)
T PF10267_consen 285 L 285 (395)
T ss_pred H
Confidence 4
No 383
>PRK04863 mukB cell division protein MukB; Provisional
Probab=61.57 E-value=2.2e+02 Score=31.06 Aligned_cols=29 Identities=17% Similarity=0.251 Sum_probs=20.9
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 115 NLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 115 ~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
.+|.++|...+.++.....+++..+..++
T Consensus 434 ~~SdEeLe~~LenF~aklee~e~qL~elE 462 (1486)
T PRK04863 434 DLTADNAEDWLEEFQAKEQEATEELLSLE 462 (1486)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56778888877777777777776666554
No 384
>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=61.57 E-value=1.2e+02 Score=27.07 Aligned_cols=49 Identities=18% Similarity=0.312 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 94 QLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 94 ~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
++...+.++..|..+|+.-. -.+.....+|..|..++..++.++..+..
T Consensus 207 QL~~An~qia~LseELa~k~--Ee~~rQQEEIt~LlsqivdlQ~r~k~~~~ 255 (306)
T PF04849_consen 207 QLSEANQQIASLSEELARKT--EENRRQQEEITSLLSQIVDLQQRCKQLAA 255 (306)
T ss_pred HhhhcchhHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44444445555555544332 22234455677777777777777766653
No 385
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=61.56 E-value=61 Score=33.02 Aligned_cols=60 Identities=25% Similarity=0.407 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hccCCH--HHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIRTL---QSNLTL--EQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~~l---~~~~t~--~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
.+.++..|+.+++.++.++..++..|.+- .+.|.. +.-..++.+++.++..+++.|..|+
T Consensus 809 ~~~e~~rL~K~l~kl~~ei~~~~~kL~n~~F~~KAP~~vve~e~~kl~~~~~~~~~l~~~l~~l~ 873 (874)
T PRK05729 809 VEAELARLEKELAKLEKEIERVEKKLSNEGFVAKAPEEVVEKEREKLAEYEEKLAKLKERLARLK 873 (874)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34556666666666666666666666542 233433 3344556677777777777776654
No 386
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=61.42 E-value=51 Score=22.69 Aligned_cols=63 Identities=21% Similarity=0.340 Sum_probs=34.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CCHHHHHHHHHHHHHHHHHHHHHH
Q 027236 77 NSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN--LTLEQIREKEAQLVKEVKEMENKL 139 (226)
Q Consensus 77 ~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~--~t~~el~~~i~~L~~e~~~l~~kL 139 (226)
+.+++..+..++..+..++......+..+.+.-..|... +....+...+..|......+...+
T Consensus 32 ~~~~~~~~~~~~~~~~~ei~~~~~~l~~l~~~~~~L~~~~~~~~~~i~~~~~~l~~~w~~l~~~~ 96 (105)
T PF00435_consen 32 DLEELEEQLKKHKELQEEIESRQERLESLNEQAQQLIDSGPEDSDEIQEKLEELNQRWEALCELV 96 (105)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555566666666666666666666555555333 344555555555555555554443
No 387
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=61.31 E-value=45 Score=25.16 Aligned_cols=46 Identities=24% Similarity=0.408 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQL 128 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L 128 (226)
+..+..++..+.+++..|+..+..+-+|=+.|+ ..|+-|...+.++
T Consensus 10 l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~--iEN~~Lr~~l~~~ 55 (110)
T PRK13169 10 LDDLEQNLGVLLKELGALKKQLAELLEENTALR--LENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHh
Confidence 455566666666666666666666665544444 3344444444433
No 388
>PRK14154 heat shock protein GrpE; Provisional
Probab=61.21 E-value=92 Score=26.20 Aligned_cols=25 Identities=8% Similarity=0.158 Sum_probs=14.5
Q ss_pred HHHHHHhCcccccc-cccch-hhchhh
Q 027236 191 KEFKEELGIEYDED-VGVSL-QSFSDL 215 (226)
Q Consensus 191 k~l~e~lGie~Ded-~~v~~-~~~~~~ 215 (226)
..+++.+||+.-+. .|-.| |.+-..
T Consensus 144 ~~vL~k~GVe~I~~~~G~~FDP~~HEA 170 (208)
T PRK14154 144 HNTLAKHGVQVINPNPGDPFDPALHEA 170 (208)
T ss_pred HHHHHHCCCEEecCCCCCCCChhHhhe
Confidence 34577888886543 46666 444333
No 389
>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=61.18 E-value=38 Score=22.44 Aligned_cols=17 Identities=24% Similarity=0.522 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 027236 121 IREKEAQLVKEVKEMEN 137 (226)
Q Consensus 121 l~~~i~~L~~e~~~l~~ 137 (226)
|...+..|..++..|..
T Consensus 45 L~~~~~~L~~~~~~L~~ 61 (64)
T PF00170_consen 45 LKKELEQLKKEIQSLKS 61 (64)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 33444444444444443
No 390
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=61.13 E-value=54 Score=22.97 Aligned_cols=35 Identities=29% Similarity=0.419 Sum_probs=27.9
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 73 FDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEG 107 (226)
Q Consensus 73 ~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~ 107 (226)
++.+|-+|++....-+..+++++..|+..+..|++
T Consensus 44 ldlVtREEFd~q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 44 LDLVTREEFDAQKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56677899988888888888888888887777754
No 391
>PF04297 UPF0122: Putative helix-turn-helix protein, YlxM / p13 like; InterPro: IPR007394 Members of this family are predicted to contain a helix-turn-helix motif, for example residues 37-55 in Mycoplasma mycoides p13 (O05290 from SWISSPROT). Genes encoding family members are often part of operons that encode components of the SRP pathway, and this protein may regulate the expression of an operon related to the SRP pathway [].; PDB: 1S7O_A 1XSV_B.
Probab=60.66 E-value=22 Score=26.46 Aligned_cols=39 Identities=10% Similarity=0.282 Sum_probs=27.5
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHH
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLA 50 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv 50 (226)
+++..++++.+ +.-||+.+|.+++ ||++++|-+.+..-.
T Consensus 20 ~kQ~~~l~lyy--~eDlSlsEIAe~~---~iSRqaV~d~ikr~~ 58 (101)
T PF04297_consen 20 EKQREILELYY--EEDLSLSEIAEEL---GISRQAVYDSIKRAE 58 (101)
T ss_dssp HHHHHHHHHHC--TS---HHHHHHHC---TS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHH--ccCCCHHHHHHHH---CCCHHHHHHHHHHHH
Confidence 56667777666 6679999999988 899999988887643
No 392
>PRK10132 hypothetical protein; Provisional
Probab=60.54 E-value=60 Score=24.33 Aligned_cols=20 Identities=5% Similarity=0.391 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027236 92 QEQLEEQRKAISKLEGEIRT 111 (226)
Q Consensus 92 ~~~l~~l~~~~k~l~~el~~ 111 (226)
.++.+.+..+++.|...+..
T Consensus 11 ~~q~e~L~~Dl~~L~~~le~ 30 (108)
T PRK10132 11 DDGVQDIQNDVNQLADSLES 30 (108)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444433
No 393
>PRK04325 hypothetical protein; Provisional
Probab=60.45 E-value=54 Score=22.74 Aligned_cols=49 Identities=10% Similarity=0.150 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 94 QLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 94 ~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
.+..|+..+.-.+..+..|+...+ +-...|..|+.++..|..+|..+..
T Consensus 10 Ri~~LE~klAfQE~tIe~LN~vv~--~Qq~~I~~L~~ql~~L~~rl~~~~~ 58 (74)
T PRK04325 10 RITELEIQLAFQEDLIDGLNATVA--RQQQTLDLLQAQLRLLYQQMRDANP 58 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 344444444444444444443332 3345677888888888888877764
No 394
>PRK03837 transcriptional regulator NanR; Provisional
Probab=60.17 E-value=99 Score=25.65 Aligned_cols=34 Identities=12% Similarity=0.317 Sum_probs=29.8
Q ss_pred cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 24 NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 24 s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
+-.++...+ ||+++.|-+||..|..+|+|....-
T Consensus 39 ~E~~Lae~~---gVSRt~VREAL~~L~~eGlv~~~~~ 72 (241)
T PRK03837 39 SERELMAFF---GVGRPAVREALQALKRKGLVQISHG 72 (241)
T ss_pred CHHHHHHHh---CCCHHHHHHHHHHHHHCCCEEEecC
Confidence 777777766 8999999999999999999999754
No 395
>COG1733 Predicted transcriptional regulators [Transcription]
Probab=59.88 E-value=28 Score=26.53 Aligned_cols=55 Identities=11% Similarity=0.248 Sum_probs=42.5
Q ss_pred HHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC--ceeEEEe
Q 027236 10 AIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG--KQKIYIA 68 (226)
Q Consensus 10 ~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G--K~kiY~~ 68 (226)
-.|+..+.. .|.-..++-..+. +|+-..+...|..|+++|+|.-+.|- .-+++|.
T Consensus 26 ~lIl~~L~~--g~~RF~eL~r~i~--~Is~k~Ls~~Lk~Le~~Glv~R~~~~~~PprveY~ 82 (120)
T COG1733 26 LLILRDLFD--GPKRFNELRRSIG--GISPKMLSRRLKELEEDGLVERVVYPEEPPRVEYR 82 (120)
T ss_pred HHHHHHHhc--CCCcHHHHHHHcc--ccCHHHHHHHHHHHHHCCCEEeeecCCCCceeEEE
Confidence 346666665 6666667777664 69999999999999999999999995 3466666
No 396
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=59.81 E-value=19 Score=30.53 Aligned_cols=39 Identities=18% Similarity=0.259 Sum_probs=31.9
Q ss_pred CCC-cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCc
Q 027236 21 RPL-NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGK 62 (226)
Q Consensus 21 rPy-s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK 62 (226)
.+. +-.++...+ ||+++.|-++|..|..+|+|......-
T Consensus 30 ~~LpsE~eLae~~---gVSRtpVREAL~~L~~eGlV~~~~~~G 69 (253)
T PRK11523 30 DKLPAERFIADEK---NVSRTVVREAIIMLEVEGYVEVRKGSG 69 (253)
T ss_pred CCCCCHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEecCCe
Confidence 355 456676666 899999999999999999999887643
No 397
>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=59.78 E-value=43 Score=24.26 Aligned_cols=29 Identities=14% Similarity=0.068 Sum_probs=22.1
Q ss_pred CCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcce
Q 027236 22 PLNSQNVADALQKYNLKKAGIQKALDSLADNGKISF 57 (226)
Q Consensus 22 Pys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~ 57 (226)
+|++.++...+ ||+..++... ...|+|..
T Consensus 1 ~~~i~eva~~~---gVs~~tLR~y----e~~Gli~p 29 (98)
T cd01279 1 LYPISVAAELL---GIHPQTLRVY----DRLGLVSP 29 (98)
T ss_pred CcCHHHHHHHH---CcCHHHHHHH----HHCCCCCC
Confidence 58888888877 7887766654 67898876
No 398
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=59.33 E-value=39 Score=27.84 Aligned_cols=56 Identities=14% Similarity=0.280 Sum_probs=44.3
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeec
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQ 70 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q 70 (226)
.++++|. .+.+-+|.+|...| |+.|..|-++|=.|...|.|.+-.--.-.+|....
T Consensus 17 ~~~~~l~-~~~~~~a~~i~~~l---~~~k~~vNr~LY~l~~~~~v~~~~~~pp~w~~~~~ 72 (183)
T PHA03103 17 KEVKNLG-LGEGITAIEISRKL---NIEKSEVNKQLYKLQREGMVYMSDSNPPKWFKTTE 72 (183)
T ss_pred HHHHHhc-cCCCccHHHHHHHh---CCCHHHHHHHHHHHHhcCceecCCCCCCCcccccC
Confidence 3445554 78899999999988 89999999999999999999887555556565433
No 399
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=59.15 E-value=80 Score=25.78 Aligned_cols=100 Identities=17% Similarity=0.221 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHcCCcceeecCceeEEEeecCC---CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--
Q 027236 40 AGIQKALDSLADNGKISFKEYGKQKIYIARQDQ---FDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQS-- 114 (226)
Q Consensus 40 ~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~---~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~-- 114 (226)
-.++.+|++|...-........... |..|.. +=+.+-.|+..|..-+..++.++.+++..+-.-++-.=.=-+
T Consensus 65 hdir~t~q~l~q~~~~~g~~~~~~~--~~~~~sv~~L~~~T~~Elq~mr~~ln~FR~qm~dlE~~l~~QQalvy~hMSee 142 (179)
T PF14723_consen 65 HDIRDTLQNLSQYPVMRGSDLNADP--YSTQRSVRELYSCTVQELQQMRRSLNSFREQMMDLELHLMRQQALVYRHMSEE 142 (179)
T ss_pred HHHHHHHHHhccccccccccccccc--cccchhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhcCCHH
Confidence 3456666666664433333222222 222211 122356788889999999999999888765444332221111
Q ss_pred -cCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 115 -NLTLEQIREKEAQLVKEVKEMENKLAK 141 (226)
Q Consensus 115 -~~t~~el~~~i~~L~~e~~~l~~kL~~ 141 (226)
....++|...-+.+++|+.+|+-.|+.
T Consensus 143 ER~EaeQLQsLR~avRqElqELE~QL~D 170 (179)
T PF14723_consen 143 EREEAEQLQSLRSAVRQELQELEFQLED 170 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 122255556667777788887776643
No 400
>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=59.13 E-value=2.3e+02 Score=29.58 Aligned_cols=104 Identities=16% Similarity=0.269 Sum_probs=53.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH--HHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHH----
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL--EQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPE---- 152 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~--~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~e---- 152 (226)
+++..+...+.++..++.+....++.-..++..+.+.... .+-...+..|+.++.....+++....... -...
T Consensus 741 ~~~~~~~e~v~e~~~~Ike~~~~~k~~~~~i~~lE~~~~d~~~~re~rlkdl~keik~~k~~~e~~~~~~e-k~~~e~e~ 819 (1174)
T KOG0933|consen 741 DDLKELLEEVEESEQQIKEKERALKKCEDKISTLEKKMKDAKANRERRLKDLEKEIKTAKQRAEESSKELE-KRENEYER 819 (1174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 4455556666666666666666666666666555554433 22334455555555555555544432110 0111
Q ss_pred ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 153 ---DRMAVEEMFLEKLSQWRKRKRMLRDIWDPIM 183 (226)
Q Consensus 153 ---e~~~~~~~~~~~~~~w~kRkri~~~i~~~i~ 183 (226)
+.+.+.+.+......|..-..-|..+..-+.
T Consensus 820 l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~ 853 (1174)
T KOG0933|consen 820 LQLEHEELEKEISSLKQQLEQLEKQISSLKSELG 853 (1174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2334455566666667666555555555443
No 401
>KOG3344 consensus 40s ribosomal protein s10 [Translation, ribosomal structure and biogenesis]
Probab=59.09 E-value=19 Score=28.27 Aligned_cols=58 Identities=16% Similarity=0.324 Sum_probs=45.6
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcc---cccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKY---NLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~---~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
-+-.|.+|+-+..--+.-+|. ++.++ .|+--.|.|+++||...|.|. .-|-=..+||.
T Consensus 7 nr~~I~e~Lfkegv~vakkD~--~~~kH~el~vpNL~vikaMQSl~SrgYvk-eqfaWrH~Yw~ 67 (150)
T KOG3344|consen 7 NRKAIYEYLFKEGVLVAKKDF--NLPKHPELEVPNLHVIKAMQSLKSRGYVK-EQFAWRHFYWY 67 (150)
T ss_pred HHHHHHHHHHHhcceeecccc--CCccCcccCCccHHHHHHHHHHhhhhhHH-hhhhhheeeee
Confidence 466899999988877776776 44443 678889999999999999554 56777889999
No 402
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=58.98 E-value=26 Score=30.51 Aligned_cols=48 Identities=19% Similarity=0.336 Sum_probs=44.1
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
.++|..||-++.+ .|=|..+|-+.+ +|+.+++.--|..|.+.|+|+-+
T Consensus 12 SekRk~lLllL~e--gPkti~EI~~~l---~vs~~ai~pqiKkL~~~~LV~~~ 59 (260)
T COG4742 12 SEKRKDLLLLLKE--GPKTIEEIKNEL---NVSSSAILPQIKKLKDKGLVVQE 59 (260)
T ss_pred cHHHHHHHHHHHh--CCCCHHHHHHHh---CCCcHHHHHHHHHHhhCCCEEec
Confidence 4788999999997 899999999988 79999999999999999999877
No 403
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=58.95 E-value=16 Score=24.43 Aligned_cols=28 Identities=29% Similarity=0.521 Sum_probs=20.7
Q ss_pred ccccHHHHHHHHHHHHHcCCcceeecCce
Q 027236 35 YNLKKAGIQKALDSLADNGKISFKEYGKQ 63 (226)
Q Consensus 35 ~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~ 63 (226)
..++-..++..|+.||++|+|.+. -|+-
T Consensus 31 ~~~s~~eL~~fL~~lv~e~~L~~~-~G~Y 58 (60)
T PF08672_consen 31 YDISLEELQEFLDRLVEEGKLECS-GGSY 58 (60)
T ss_dssp TT--HHHHHHHHHHHHHTTSEE---TTEE
T ss_pred CCCCHHHHHHHHHHHHHCCcEEec-CCEE
Confidence 368889999999999999999998 5553
No 404
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=58.80 E-value=91 Score=32.85 Aligned_cols=105 Identities=20% Similarity=0.223 Sum_probs=53.9
Q ss_pred cccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 36 NLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIP--NSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQ 113 (226)
Q Consensus 36 ~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~--~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~ 113 (226)
.++......+|..|..=..=....||...=|-+ ..|..+ +......+..++..|+++++.+.++....+..+....
T Consensus 99 ~~~~~~Al~~Lk~lf~l~~Wf~~~Y~~~~~~~~--~~F~~p~~p~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 176 (1123)
T PRK11448 99 HGDHREALMGLKLAFRLAVWFHRTYGKDWDFKP--GPFVPPEDPENLLHALQQEVLTLKQQLELQAREKAQSQALAEAQQ 176 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHcCCccCCCC--CCCCCCCCCcchhhhhHHHHHHHHHHHHHhhhhhhhhhhhHHHHH
Confidence 366677777777777655555667776311211 123211 1122334566667777776655555555554444432
Q ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 114 SNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 114 ~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
... ........++++++.+++++|+.+++
T Consensus 177 ~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~ 205 (1123)
T PRK11448 177 QEL--VALEGLAAELEEKQQELEAQLEQLQE 205 (1123)
T ss_pred HHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 221 11112234566666777777766654
No 405
>PF06577 DUF1134: Protein of unknown function (DUF1134); InterPro: IPR008325 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=58.77 E-value=20 Score=28.70 Aligned_cols=47 Identities=19% Similarity=0.408 Sum_probs=36.5
Q ss_pred CCcHHHHHHHHhc-ccccHHHHHHHHHHHHH-------------------------cCCcceeecCceeEEEe
Q 027236 22 PLNSQNVADALQK-YNLKKAGIQKALDSLAD-------------------------NGKISFKEYGKQKIYIA 68 (226)
Q Consensus 22 Pys~~di~~~l~~-~~v~K~~v~k~L~~Lv~-------------------------~g~i~~K~~GK~kiY~~ 68 (226)
-||..+|.+..|. .|.+-..+-++++...+ +|.+.+|..|..+|||-
T Consensus 2 tY~~~ei~~~~~~fFG~~s~gla~~ie~af~~~G~PngYI~G~E~sGA~~~GlrYGeG~L~~k~~g~~~vyWq 74 (160)
T PF06577_consen 2 TYSEDEIVDAGHGFFGSTSEGLAKVIEKAFKDYGRPNGYILGEEASGAFVVGLRYGEGTLYTKNAGQHKVYWQ 74 (160)
T ss_pred ccCHHHHHHHHhhhhhhhhHHHHHHHHHHHHHcCCCceEEEeeeccccEEEEEEecccEEEEcCCCeeEEEEe
Confidence 3889999999887 45555666666666665 48899999999999997
No 406
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=58.68 E-value=1.1e+02 Score=25.75 Aligned_cols=39 Identities=21% Similarity=0.343 Sum_probs=32.0
Q ss_pred CCCC-cHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecC
Q 027236 20 NRPL-NSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 20 nrPy-s~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
.... +-.++...+ ||+++.|-++|..|..+|+|.....+
T Consensus 23 G~~LpsE~eLae~~---gVSRtpVREAL~~Le~~GlV~~~~~~ 62 (253)
T PRK10421 23 GMKLPAERQLAMQL---GVSRNSLREALAKLVSEGVLLSRRGG 62 (253)
T ss_pred CCcCCCHHHHHHHh---CCCHHHHHHHHHHHHHCCCEEEeCCC
Confidence 3456 566776666 89999999999999999999988653
No 407
>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=58.58 E-value=1.4e+02 Score=26.85 Aligned_cols=87 Identities=20% Similarity=0.308 Sum_probs=54.1
Q ss_pred eeecCceeEEEee-cCCCCC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC----------CHHHHH
Q 027236 57 FKEYGKQKIYIAR-QDQFDI---PNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNL----------TLEQIR 122 (226)
Q Consensus 57 ~K~~GK~kiY~~~-Q~~~~~---~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~----------t~~el~ 122 (226)
+-.||.+.++... +..+.. -+.+.-..+..++..|+..+.+++.+++-|+..++..+... ..+.+.
T Consensus 53 ~~~~~d~~~~~~~~~~~La~lL~~sre~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~~~~~~~~~~~~~ere~lV 132 (319)
T PF09789_consen 53 AAGFGDPSIPPEKENKNLAQLLSESREQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQRVGDEGIGARHFPHEREDLV 132 (319)
T ss_pred hcccCCccCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhhhhccccccccchHHHHHH
Confidence 3446666666542 111110 02333455677777888888888888888888888766521 126677
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 027236 123 EKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 123 ~~i~~L~~e~~~l~~kL~~l~ 143 (226)
.+++.++.++..|+..+..+-
T Consensus 133 ~qLEk~~~q~~qLe~d~qs~l 153 (319)
T PF09789_consen 133 EQLEKLREQIEQLERDLQSLL 153 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 777777888888877765544
No 408
>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=58.57 E-value=28 Score=31.29 Aligned_cols=62 Identities=27% Similarity=0.486 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
..+..+..++...++++...+.++..++.+|..|.... ++...+...|+.++...+.+|...
T Consensus 221 ~~l~~a~~~l~~~~~~L~~~~~~l~~l~~~l~~l~~~~--~~~~~e~~~l~~~~~~~~~kl~rA 282 (344)
T PF12777_consen 221 QKLEEAEAELEEAEEQLAEKQAELAELEEKLAALQKEY--EEAQKEKQELEEEIEETERKLERA 282 (344)
T ss_dssp HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHhhhccH
Confidence 44666666777777777777777777777777777553 344556777777777777777543
No 409
>PF09681 Phage_rep_org_N: N-terminal phage replisome organiser (Phage_rep_org_N); InterPro: IPR010056 This entry is represented by the N-terminal domain of Bacteriophage A500, Gp45. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The proteins in this entry contains a region of low-complexity sequence that reflects DNA direct repeats able to function as an origin of phage replication. The low-complexity region is adjacent to this N-terminal domain.
Probab=58.49 E-value=38 Score=25.88 Aligned_cols=46 Identities=24% Similarity=0.309 Sum_probs=37.7
Q ss_pred cCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEee
Q 027236 19 QNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIAR 69 (226)
Q Consensus 19 ~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~ 69 (226)
.+-||++..++..+ ..+...|..+|+.|.+-|+|..-. ...||..+
T Consensus 50 ~~ipy~~e~LA~~~---~~~~~~V~~AL~~f~k~glIe~~e--d~~i~i~~ 95 (121)
T PF09681_consen 50 GNIPYTAEMLALEF---DRPVDTVRLALAVFQKLGLIEIDE--DGVIYIPN 95 (121)
T ss_pred CCCCCcHHHHHHHH---CCCHHHHHHHHHHHHHCCCEEEec--CCeEEeec
Confidence 46799999998888 468899999999999999998844 45566654
No 410
>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=58.41 E-value=66 Score=29.98 Aligned_cols=29 Identities=38% Similarity=0.628 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEG 107 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~ 107 (226)
+.+..+..++.+++.++..++..+..+..
T Consensus 334 ~~~~~l~~~~~~~~~~l~~l~~~l~~l~~ 362 (451)
T PF03961_consen 334 EKLEELEEELEELKEELEKLKKNLKKLKK 362 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 44667777777777777777777666654
No 411
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=58.36 E-value=87 Score=27.00 Aligned_cols=54 Identities=19% Similarity=0.200 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEME 136 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~ 136 (226)
+.+|+.++.+|.++...|..++..|+..-..|- ..+.|+...++.+.+++.++.
T Consensus 92 m~eme~~i~dL~een~~L~~en~~Lr~~n~~L~--~~n~el~~~le~~~~~l~~~~ 145 (292)
T KOG4005|consen 92 MEEMEYEIKDLTEENEILQNENDSLRAINESLL--AKNHELDSELELLRQELAELK 145 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hhhHHHHHHHHHHHHHHHhhH
Confidence 444444555555555555544444444433333 223455555555555544443
No 412
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=58.20 E-value=1.7e+02 Score=28.14 Aligned_cols=32 Identities=13% Similarity=0.211 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIRTLQSN 115 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~ 115 (226)
.+..+.++.+.+.+....+..+..+|..+...
T Consensus 264 ~d~~~~~~~~~l~~~~~~l~d~~~~l~~~~~~ 295 (563)
T TIGR00634 264 IDGSLRELAEQVGNALTEVEEATRELQNYLDE 295 (563)
T ss_pred hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34555666666666666666666666665554
No 413
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=57.98 E-value=1.1e+02 Score=25.45 Aligned_cols=17 Identities=18% Similarity=0.419 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 027236 123 EKEAQLVKEVKEMENKL 139 (226)
Q Consensus 123 ~~i~~L~~e~~~l~~kL 139 (226)
..+.+|..+...|+.++
T Consensus 123 ~~~~eL~~~~~~Lq~Ql 139 (193)
T PF14662_consen 123 KRSKELATEKATLQRQL 139 (193)
T ss_pred HHHHHHHHhhHHHHHHH
Confidence 33333333334444433
No 414
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=57.76 E-value=27 Score=20.25 Aligned_cols=26 Identities=23% Similarity=0.470 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCC
Q 027236 120 QIREKEAQLVKEVKEMENKLAKLRGG 145 (226)
Q Consensus 120 el~~~i~~L~~e~~~l~~kL~~l~~~ 145 (226)
-|..+.++|+.....|..+|++|+++
T Consensus 5 kL~sekeqLrrr~eqLK~kLeqlrnS 30 (32)
T PF02344_consen 5 KLISEKEQLRRRREQLKHKLEQLRNS 30 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 45677888888888899999888754
No 415
>PRK02363 DNA-directed RNA polymerase subunit delta; Reviewed
Probab=57.74 E-value=28 Score=27.04 Aligned_cols=52 Identities=13% Similarity=0.279 Sum_probs=39.7
Q ss_pred HHHHHHHHhcCCCCcHHHHHHHHhc-ccccHHHHHHHHHH----HHHcCCcceeecC
Q 027236 10 AIVLNYVNEQNRPLNSQNVADALQK-YNLKKAGIQKALDS----LADNGKISFKEYG 61 (226)
Q Consensus 10 ~~Il~y~~~~nrPys~~di~~~l~~-~~v~K~~v~k~L~~----Lv~~g~i~~K~~G 61 (226)
+..+++|.+.+.|++..+|+....+ .|+++..+...+-+ |.-+|+.++--=|
T Consensus 7 dvAy~iL~~~~~~m~f~dL~~ev~~~~~~s~e~~~~~iaq~YtdLn~DGRFi~lG~n 63 (129)
T PRK02363 7 EVAYEILKEKKEPMSFYDLVNEIQKYLGKSDEEIRERIAQFYTDLNLDGRFISLGDN 63 (129)
T ss_pred HHHHHHHHHcCCcccHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhccCCeeEcCCC
Confidence 4678899999999999999997766 57888777666555 5667877765444
No 416
>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]
Probab=57.57 E-value=2e+02 Score=32.19 Aligned_cols=107 Identities=20% Similarity=0.286 Sum_probs=63.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc------------CCHHHHHHHHHHHHHHHHHHHHHHHHhhCCC
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN------------LTLEQIREKEAQLVKEVKEMENKLAKLRGGV 146 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~------------~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~ 146 (226)
.+-..+..+|..|++++++...++....+..+..... -.+..+......|+..++.|+.+|..+....
T Consensus 1716 ~~KrklE~~i~~l~~elee~~~~~~~~~Er~kka~~~a~~~~~el~~Eq~~~~~le~~k~~LE~~~kdLq~rL~e~E~~a 1795 (1930)
T KOG0161|consen 1716 AEKRKLEAEIAQLQSELEEEQSELRAAEERAKKAQADAAKLAEELRKEQETSQKLERLKKSLERQVKDLQLRLDEAEQAA 1795 (1930)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4445556666666666666555555555544443321 1223444566778999999999999988654
Q ss_pred CCCCHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHhc
Q 027236 147 TLVKPEDRMAVEEM--------------FLEKLSQWRKRKRMLRDIWDPIMEN 185 (226)
Q Consensus 147 ~~vs~ee~~~~~~~--------------~~~~~~~w~kRkri~~~i~~~i~e~ 185 (226)
.+-+...+.+++.. .....+.|+++-|-++++--.+.+.
T Consensus 1796 ~~~~k~~i~~Learir~LE~~l~~E~~~~~e~~k~~rk~er~vkEl~~q~eed 1848 (1930)
T KOG0161|consen 1796 LKGGKKQIAKLEARIRELESELEGEQRRKAEAIKGLRKKERRVKELQFQVEED 1848 (1930)
T ss_pred hhccHHHHHHHHHHHHHHHHHHhHhhhhhHHHhHHHHHHHHHHHHHHHHhhhh
Confidence 44444444444332 4445566776666667776665544
No 417
>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A).
Probab=57.54 E-value=1.3e+02 Score=26.24 Aligned_cols=48 Identities=15% Similarity=0.066 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHH
Q 027236 123 EKEAQLVKEVKEMENKLAKLRG--GVTLVKPEDRMAVEEMFLEKLSQWRK 170 (226)
Q Consensus 123 ~~i~~L~~e~~~l~~kL~~l~~--~~~~vs~ee~~~~~~~~~~~~~~w~k 170 (226)
..+...+.++...+..++.++. ....+|..+++.....+..+...+..
T Consensus 115 ~~~~~a~~~l~~a~~~~~r~~~L~~~g~is~~~~~~a~~~~~~a~~~l~~ 164 (334)
T TIGR00998 115 IKLEQAREKLLQAELDLRRRVPLFKKGLISREELDHARKALLSAKAALNA 164 (334)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHCCCcCHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444445544443 22357888888887777666665543
No 418
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=57.40 E-value=1.4e+02 Score=26.65 Aligned_cols=47 Identities=17% Similarity=0.355 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHhc-----cCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 95 LEEQRKAISKLEGEIRTLQS-----NLTLEQIREKEAQLVKEVKEMENKLAK 141 (226)
Q Consensus 95 l~~l~~~~k~l~~el~~l~~-----~~t~~el~~~i~~L~~e~~~l~~kL~~ 141 (226)
+..++.++..++.+++.+.. .|..-.+..++..|+.++.+...++..
T Consensus 216 i~~L~~~l~~~~~~l~~l~~~~~~~~P~v~~l~~~i~~l~~~i~~e~~~i~~ 267 (362)
T TIGR01010 216 ISTLEGELIRVQAQLAQLRSITPEQNPQVPSLQARIKSLRKQIDEQRNQLSG 267 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHhhCCCCCCchHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34445555555666665553 355577788888888888777776643
No 419
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=57.24 E-value=21 Score=32.60 Aligned_cols=61 Identities=21% Similarity=0.444 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH--HHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 83 QMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL--EQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 83 ~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~--~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
.+...+.++..++..++........++..+.....+ ..|...+.++++.+..++.++..+.
T Consensus 102 el~~~~~elkkEie~IKk~q~e~~~~i~~~~~~~~~~~~~l~~Ri~e~Eeris~lEd~~~~i~ 164 (370)
T PF02994_consen 102 ELKKRIKELKKEIENIKKNQSEMKLEIENLKKKLENIDESLNSRIDELEERISELEDRIEEIE 164 (370)
T ss_dssp ----------------H-------------------------HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence 344445555555555555444444445544443322 3566677777777777777776654
No 420
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=57.22 E-value=1.1e+02 Score=29.15 Aligned_cols=63 Identities=19% Similarity=0.328 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH-HHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL-EQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~-~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+..|..+|....+++..|+..+..|...+.+-.-.++. +.+-.+-.+|..++..+..+...|.
T Consensus 332 l~kl~~eie~kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~ 395 (622)
T COG5185 332 LEKLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLT 395 (622)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence 33444444444444444444444444444433222222 3344455556666666655555554
No 421
>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=57.11 E-value=69 Score=23.22 Aligned_cols=28 Identities=14% Similarity=0.248 Sum_probs=20.3
Q ss_pred CCCCcHHHHHH-----HHhcccccHHHHHHHHH
Q 027236 20 NRPLNSQNVAD-----ALQKYNLKKAGIQKALD 47 (226)
Q Consensus 20 nrPys~~di~~-----~l~~~~v~K~~v~k~L~ 47 (226)
.|-|+..||.. .|...|++-..++.+++
T Consensus 36 ~R~y~~~di~~l~~i~~lr~~g~~l~~i~~~~~ 68 (103)
T cd01106 36 YRLYTEEDLERLQQILFLKELGFSLKEIKELLK 68 (103)
T ss_pred ceeeCHHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence 46788888843 34445889888888875
No 422
>PRK01156 chromosome segregation protein; Provisional
Probab=57.09 E-value=2.3e+02 Score=28.81 Aligned_cols=11 Identities=9% Similarity=0.594 Sum_probs=6.3
Q ss_pred HHHHHHhCccc
Q 027236 191 KEFKEELGIEY 201 (226)
Q Consensus 191 k~l~e~lGie~ 201 (226)
.+++..+|+..
T Consensus 767 ~e~~~~~~~~~ 777 (895)
T PRK01156 767 RKYLFEFNLDF 777 (895)
T ss_pred HHHHHHhCCCc
Confidence 34556677653
No 423
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=56.98 E-value=1.4e+02 Score=29.10 Aligned_cols=54 Identities=28% Similarity=0.499 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHH
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVK 133 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~ 133 (226)
..++..++.++.++..++..+..+++.+..++..+.... ++.......+++++.
T Consensus 327 ~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~--~~~~~~~~~le~~~~ 380 (594)
T PF05667_consen 327 EQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEEL--EEKEAENEELEEELK 380 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHH
Confidence 457889999999999999999999999998888877543 355555566666655
No 424
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=56.97 E-value=2.8e+02 Score=29.77 Aligned_cols=21 Identities=5% Similarity=-0.152 Sum_probs=10.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHH
Q 027236 148 LVKPEDRMAVEEMFLEKLSQW 168 (226)
Q Consensus 148 ~vs~ee~~~~~~~~~~~~~~w 168 (226)
+-|.+++..+...|..-...|
T Consensus 297 ~~s~eEL~~ll~~f~~~~~e~ 317 (1311)
T TIGR00606 297 QGTDEQLNDLYHNHQRTVREK 317 (1311)
T ss_pred CCCHHHHHHHHHHHHHHHHHH
Confidence 345666665555544433333
No 425
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=56.94 E-value=1.3e+02 Score=25.85 Aligned_cols=102 Identities=12% Similarity=0.210 Sum_probs=66.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc---cCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQS---NLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAV 157 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~---~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~ 157 (226)
...+......|...+..+...+..+-..+..+.. .++..++...+.+.+.-+.+++.+ .|..-- .....+...+
T Consensus 82 t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r--~f~~~~-~~Ae~El~~A 158 (264)
T PF06008_consen 82 TERTLQRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKR--DFTPQR-QNAEDELKEA 158 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhc--cchhHH-HHHHHHHHHH
Confidence 4445566677778888888888888888888888 688888888888888877777775 233211 1113344444
Q ss_pred HHH---HHHH-HHHHHHHHHHHHHHHHHHHhc
Q 027236 158 EEM---FLEK-LSQWRKRKRMLRDIWDPIMEN 185 (226)
Q Consensus 158 ~~~---~~~~-~~~w~kRkri~~~i~~~i~e~ 185 (226)
..- ...+ .+.|.....+...|++.+.+-
T Consensus 159 ~~LL~~v~~~~~~~~~~~~~l~~~i~~~L~~~ 190 (264)
T PF06008_consen 159 EDLLSRVQKWFQKPQQENESLAEAIRDDLNDY 190 (264)
T ss_pred HHHHHHHHHHHhhHHHhhHHHHHHHHHHHHHH
Confidence 432 3333 466667766667777776554
No 426
>PF03297 Ribosomal_S25: S25 ribosomal protein; InterPro: IPR004977 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S25 ribosomal protein is a component of the 40S ribosomal subunit.; PDB: 2XZM_8 2XZN_8 3O30_Q 3U5G_Z 3IZB_V 3U5C_Z 3O2Z_Q 3IZ6_V.
Probab=56.89 E-value=15 Score=27.51 Aligned_cols=45 Identities=22% Similarity=0.335 Sum_probs=34.0
Q ss_pred CCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec-CceeEEEe
Q 027236 21 RPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY-GKQKIYIA 68 (226)
Q Consensus 21 rPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~-GK~kiY~~ 68 (226)
+--+...|.+-| +|+-+...++|..|.++|+|..=.- ..+.||--
T Consensus 58 K~ITp~~lserl---kI~~SlAr~~Lr~L~~kG~Ik~V~k~~~~~IYtr 103 (105)
T PF03297_consen 58 KLITPSVLSERL---KINGSLARKALRELESKGLIKPVSKHHRQRIYTR 103 (105)
T ss_dssp SCECHHHHHHHH---CCSCHHHHHHHHHHHHCCSSEEEECCTTCEEEEE
T ss_pred cEeeHHHHHHhH---hhHHHHHHHHHHHHHHCCCEEEEeccCCeEEEec
Confidence 444555566666 7888999999999999999976544 47788853
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=56.77 E-value=1e+02 Score=24.79 Aligned_cols=64 Identities=28% Similarity=0.545 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH-----HHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 80 ELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL-----EQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 80 e~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~-----~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
++...+..+..+..++..+...+..+..++..++..... ......+..+...+..+.+++..+.
T Consensus 82 e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~ 150 (191)
T PF04156_consen 82 ELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQ 150 (191)
T ss_pred hHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566666666667766666666666666666554222 2333444445555555555554444
No 428
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=56.68 E-value=1.6e+02 Score=26.98 Aligned_cols=66 Identities=24% Similarity=0.352 Sum_probs=47.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CCHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 73 FDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN--LTLEQIREKEAQLVKEVKEMENKLA 140 (226)
Q Consensus 73 ~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~--~t~~el~~~i~~L~~e~~~l~~kL~ 140 (226)
||+ ++-+..++.-+..++.++..+..++.....+....... ...+++...|.+|-.++.+++.+=+
T Consensus 14 fp~--e~SL~~ld~~i~~l~~~i~~ld~eI~~~v~~q~~~~~~~~~~l~~a~~~i~~L~~~i~~ik~kA~ 81 (383)
T PF04100_consen 14 FPD--EQSLSNLDELIAKLRKEIRELDEEIKELVREQSSSGQDAEEDLEEAQEAIQELFEKISEIKSKAE 81 (383)
T ss_pred CCC--hHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 663 56688899999999999999999998887766643332 3336666677777777776666543
No 429
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=56.65 E-value=1.5e+02 Score=26.47 Aligned_cols=52 Identities=23% Similarity=0.429 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHH
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENK 138 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~k 138 (226)
...+..+..++..++.+...+..+|..+... .+++.+++.+++.+..++...
T Consensus 42 ~~~~~~~~~el~~le~Ee~~l~~eL~~LE~e--~~~l~~el~~le~e~~~l~~e 93 (314)
T PF04111_consen 42 EEDIEELEEELEKLEQEEEELLQELEELEKE--REELDQELEELEEELEELDEE 93 (314)
T ss_dssp HH--HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH
Confidence 4556666667777777777776666666533 345555555555555555443
No 430
>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=56.60 E-value=76 Score=23.21 Aligned_cols=40 Identities=10% Similarity=0.117 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL 118 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~ 118 (226)
..+..+..++..+..++..+..+..+...-+..+...++.
T Consensus 6 ~~~q~l~~~~~~l~~~~~~l~~~~~E~~~v~~EL~~l~~d 45 (105)
T cd00632 6 AQLQQLQQQLQAYIVQRQKVEAQLNENKKALEELEKLADD 45 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCc
Confidence 4566777778888888887777777777666666655433
No 431
>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=56.46 E-value=74 Score=25.70 Aligned_cols=42 Identities=21% Similarity=0.344 Sum_probs=28.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 027236 74 DIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN 115 (226)
Q Consensus 74 ~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~ 115 (226)
+.++.+|-.++..++..+.+++..|++-+...+.....|+..
T Consensus 24 ~~LsEeE~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrk 65 (162)
T PF04201_consen 24 EGLSEEEREELRSELAKVEEEIQTLRQVLAAKERHCAELKRK 65 (162)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 455677777777777777777777777766666665555543
No 432
>PF10826 DUF2551: Protein of unknown function (DUF2551) ; InterPro: IPR020501 This entry contains proteins with no known function.
Probab=56.44 E-value=61 Score=23.20 Aligned_cols=60 Identities=15% Similarity=0.437 Sum_probs=45.6
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhc-ccccHHHHHHHHHHHHHc-CCcce--eecCceeEEEe
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQK-YNLKKAGIQKALDSLADN-GKISF--KEYGKQKIYIA 68 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~-~~v~K~~v~k~L~~Lv~~-g~i~~--K~~GK~kiY~~ 68 (226)
-+..||..|. +.++|+..||...|+. ..|+-..|--.+=-.+.. |.++. +.+|..++|..
T Consensus 12 iRr~vL~~fl-~~~~~T~~di~e~L~~~f~vs~~~VasMVG~i~SrlGIL~~~k~~~g~~~~Y~L 75 (83)
T PF10826_consen 12 IRRAVLKLFL-KGKKFTTDDIYERLKEKFDVSYRGVASMVGLIHSRLGILSIHKDSYGDHNVYSL 75 (83)
T ss_pred HHHHHHHHHH-hCCCeeHHHHHHHHHHHcCchHHHHHHHHHHHHHhhhheeecccccCCccEEEe
Confidence 3567888888 5789999999999987 367766665555444443 88888 89999999987
No 433
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=56.39 E-value=1.2e+02 Score=25.55 Aligned_cols=65 Identities=26% Similarity=0.486 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc----------CCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 80 ELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN----------LTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 80 e~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~----------~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+......+...++..+...-..+..+..+|..+.+. .|.++|...+......+..++..|..+.+
T Consensus 32 ~~~~~~~~~~~~~~~i~~aP~~~~~l~~~l~~l~~~~~~~~~~~~~~s~~eLeq~l~~~~~~L~~~q~~l~~~~~ 106 (240)
T PF12795_consen 32 EIKKQKKRAAEYQKQIDQAPKEIRELQKELEALKSQDAPSKEILANLSLEELEQRLSQEQAQLQELQEQLQQENS 106 (240)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhccccccccCcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455666677777777777777777777777553 44488888888888888888887776654
No 434
>COG1693 Repressor of nif and glnA expression [Transcription]
Probab=56.37 E-value=38 Score=30.04 Aligned_cols=57 Identities=21% Similarity=0.324 Sum_probs=48.6
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcc--cccHHHHHHHHHHHHHcCCcceeecCce
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKY--NLKKAGIQKALDSLADNGKISFKEYGKQ 63 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~--~v~K~~v~k~L~~Lv~~g~i~~K~~GK~ 63 (226)
.+...||..+.++.+|.+++.|++.|.+. .++--+|--.|+-|-+.|++.---|+..
T Consensus 6 rk~ieIl~il~esd~plgak~Ia~el~kRGy~igeRavRYhlk~lderglt~kvgyagr 64 (325)
T COG1693 6 RKLIEILRILAESDEPLGAKIIALELRKRGYNIGERAVRYHLKKLDERGLTRKVGYAGR 64 (325)
T ss_pred HHHHHHHHHHHhcCCccchHHHHHHHHhcccchhHHHHHHHHHHHhhccchhhccccce
Confidence 35678999999999999999999999884 5788899999999999999876555543
No 435
>PRK10430 DNA-binding transcriptional activator DcuR; Provisional
Probab=56.05 E-value=36 Score=28.22 Aligned_cols=57 Identities=18% Similarity=0.288 Sum_probs=43.3
Q ss_pred HHHHHHH-hcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee-ec---CceeEEEeec
Q 027236 11 IVLNYVN-EQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK-EY---GKQKIYIARQ 70 (226)
Q Consensus 11 ~Il~y~~-~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K-~~---GK~kiY~~~Q 70 (226)
.++.|+. ....-+|.++|...| +++..+|...+..|++-|++..+ .| |.-.+|+-.|
T Consensus 166 ~l~~~i~~~~~~g~s~~eIA~~l---~iS~~Tv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 (239)
T PRK10430 166 TLCQWIDAHQDYEFSTDELANAV---NISRVSCRKYLIWLVNCHILFTSIHYGVTGRPVYRYRLQ 227 (239)
T ss_pred HHHHHHHhCCCCCcCHHHHHHHh---CchHHHHHHHHHHHHhCCEEEEEeeccCCCCCCeeeecc
Confidence 4556664 235788999998888 79999999999999999999554 44 6667666544
No 436
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=55.96 E-value=27 Score=24.73 Aligned_cols=49 Identities=20% Similarity=0.292 Sum_probs=32.7
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcc----------cccHHHHHHHHHHHHHcCCcceee
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKY----------NLKKAGIQKALDSLADNGKISFKE 59 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~----------~v~K~~v~k~L~~Lv~~g~i~~K~ 59 (226)
.||+.|..+++|||-.++..+.... .-.--.+-..++-|..+|++..-.
T Consensus 8 eVL~mmi~~~~~~t~~~L~~ai~~~FG~~arFhTCSae~m~a~eLv~FL~~rgKfi~~~ 66 (78)
T PF10678_consen 8 EVLNMMIESGNPYTKEELKAAIIEKFGEDARFHTCSAEGMTADELVDFLEERGKFIPSD 66 (78)
T ss_pred HHHHHHHHcCCCcCHHHHHHHHHHHhCCCceEEecCCCCCCHHHHHHHHHHcCCEeecC
Confidence 4899999999999998887766541 111223455566666777766543
No 437
>PF09904 HTH_43: Winged helix-turn helix; InterPro: IPR017162 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 3KE2_B.
Probab=55.85 E-value=29 Score=25.23 Aligned_cols=46 Identities=17% Similarity=0.276 Sum_probs=33.2
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcce
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISF 57 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~ 57 (226)
.+..-+.|+.++.+. |+..|...- |++.-++|++|.+|.+-|..+.
T Consensus 8 ~Rrlyla~li~~~~~-nvp~L~~~T---GmPrRT~Qd~i~aL~~~~I~~~ 53 (90)
T PF09904_consen 8 YRRLYLAYLIDSGER-NVPALMEAT---GMPRRTIQDTIKALPELGIECE 53 (90)
T ss_dssp HHHHHHHHHHHHS-B--HHHHHHHH------HHHHHHHHHGGGGGT-EEE
T ss_pred HHHHHHHHHHhcCCc-cHHHHHHHh---CCCHhHHHHHHHHhhcCCeEEE
Confidence 466778999999999 988876644 8999999999999998776655
No 438
>PF08100 Dimerisation: Dimerisation domain; InterPro: IPR012967 This domain is found at the N terminus of a variety of plant O-methyltransferases. It has been shown to mediate dimerisation of these proteins [].; GO: 0008168 methyltransferase activity, 0046983 protein dimerization activity; PDB: 1ZGJ_A 1ZG3_A 1ZHF_A 1ZGA_A 2QYO_A 1KYW_A 1KYZ_A 3REO_D 1FPX_A 1FP2_A ....
Probab=55.83 E-value=25 Score=22.65 Aligned_cols=39 Identities=13% Similarity=0.243 Sum_probs=27.5
Q ss_pred HHHHHHhcC-CCCcHHHHHHHHhc-ccccHHHHHHHHHHHH
Q 027236 12 VLNYVNEQN-RPLNSQNVADALQK-YNLKKAGIQKALDSLA 50 (226)
Q Consensus 12 Il~y~~~~n-rPys~~di~~~l~~-~~v~K~~v~k~L~~Lv 50 (226)
|.+.+++.. .|.|+.+|...++. .--.-..+..+|.-|+
T Consensus 11 I~dii~~~g~~~ls~~eia~~l~~~~p~~~~~L~RimR~L~ 51 (51)
T PF08100_consen 11 IPDIIHNAGGGPLSLSEIAARLPTSNPSAPPMLDRIMRLLV 51 (51)
T ss_dssp HHHHHHHHTTS-BEHHHHHHTSTCT-TTHHHHHHHHHHHHH
T ss_pred cHHHHHHcCCCCCCHHHHHHHcCCCCcchHHHHHHHHHHhC
Confidence 788899887 99999999998872 2233456677766654
No 439
>PRK10869 recombination and repair protein; Provisional
Probab=55.74 E-value=1.7e+02 Score=28.19 Aligned_cols=50 Identities=12% Similarity=0.061 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCcc
Q 027236 151 PEDRMAVEEMFLEKLSQWRKRKRMLRDIWDPIMENSPKNLKEFKEELGIE 200 (226)
Q Consensus 151 ~ee~~~~~~~~~~~~~~w~kRkri~~~i~~~i~e~~~~~~k~l~e~lGie 200 (226)
.+.++.+..........+..--.-........+..+.......+..||++
T Consensus 340 e~~l~~Le~e~~~l~~~l~~~A~~LS~~R~~aA~~l~~~v~~~L~~L~m~ 389 (553)
T PRK10869 340 EDDLETLALAVEKHHQQALETAQKLHQSRQRYAKELAQLITESMHELSMP 389 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 44556666665555555544333334444444555544445556666765
No 440
>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.
Probab=55.65 E-value=87 Score=23.59 Aligned_cols=55 Identities=18% Similarity=0.354 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
-.++..|.+++..++..++.-+..- .-+..-+-..+.+|...+..+++.+..+++
T Consensus 7 ~~q~~~l~~~v~~lRed~r~SEdrs-----a~SRa~mhrRlDElV~Rv~~lEs~~~~lk~ 61 (112)
T PF07439_consen 7 HQQLGTLNAEVKELREDIRRSEDRS-----AASRASMHRRLDELVERVTTLESSVSTLKA 61 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh-----hhhhHHHHHhHHHHHHHHHHHHHHHHHHHh
Confidence 3455566666666666666333222 233334445555556666666666665554
No 441
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=55.56 E-value=86 Score=23.53 Aligned_cols=44 Identities=11% Similarity=0.043 Sum_probs=29.7
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCc
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKI 55 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i 55 (226)
+.+..+|..++. .+ +|+.+|...+ ||+.+++-.=+...-..|..
T Consensus 16 EfK~~aV~~~~~-~g--~sv~evA~e~---gIs~~tl~~W~r~y~~~~~~ 59 (121)
T PRK09413 16 QEKIAIVQQSFE-PG--MTVSLVARQH---GVAASQLFLWRKQYQEGSLT 59 (121)
T ss_pred HHHHHHHHHHHc-CC--CCHHHHHHHH---CcCHHHHHHHHHHHhhcccc
Confidence 455555555544 44 4555777665 89999999999888766553
No 442
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=55.50 E-value=28 Score=24.58 Aligned_cols=51 Identities=20% Similarity=0.268 Sum_probs=34.2
Q ss_pred HHHHHHHhcCCCCcHHHHHHHHhcc----------cccHHHHHHHHHHHHHcCCcceeecC
Q 027236 11 IVLNYVNEQNRPLNSQNVADALQKY----------NLKKAGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 11 ~Il~y~~~~nrPys~~di~~~l~~~----------~v~K~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
.||+.|..+.+||+-.++....... ...--.+-..|+-|..+|+++.-.-|
T Consensus 6 eVL~mml~~~~~~t~~~L~~~i~~~FG~~arFhTCSa~~m~a~~Li~FL~~kgKfi~~~~g 66 (77)
T TIGR03853 6 EVLNLMLASGEPYTRESLKAAIEQKFGEDARFHTCSAEGMTADELLQFLLKKGKFIESDGG 66 (77)
T ss_pred HHHHHHHHcCCCcCHHHHHHHHHHHhCCCceEeecccccCCHHHHHHHHHHCCCEeecCCc
Confidence 4899999999999988887766541 11223455666777777777655433
No 443
>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=55.39 E-value=1.6e+02 Score=26.50 Aligned_cols=25 Identities=28% Similarity=0.419 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 120 QIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 120 el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+|...+.+++..+.-|+.++..++.
T Consensus 90 ~Lrqkl~E~qGD~KlLR~~la~~r~ 114 (319)
T PF09789_consen 90 ELRQKLNEAQGDIKLLREKLARQRV 114 (319)
T ss_pred HHHHHHHHHhchHHHHHHHHHhhhh
Confidence 3444444444555555555555543
No 444
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=55.26 E-value=2.5e+02 Score=29.85 Aligned_cols=58 Identities=26% Similarity=0.402 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-----CCHHHHHHHHHHHHHHHHHHHHH
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSN-----LTLEQIREKEAQLVKEVKEMENK 138 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~-----~t~~el~~~i~~L~~e~~~l~~k 138 (226)
+..+......+++++-.+......+...+..+... .+...+...++.|+..+.+++..
T Consensus 787 l~~~~~~~~~~~~~~~~~ee~~~~lr~~~~~l~~~l~~~~~~~k~~~~~~~~l~~~i~~~E~~ 849 (1293)
T KOG0996|consen 787 LSKMSDKARQHQEQLHELEERVRKLRERIPELENRLEKLTASVKRLAELIEYLESQIAELEAA 849 (1293)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555544445544444444444432 12233333445555555555554
No 445
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=55.26 E-value=1.1e+02 Score=27.92 Aligned_cols=18 Identities=17% Similarity=0.414 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHcCCcceeecC
Q 027236 40 AGIQKALDSLADNGKISFKEYG 61 (226)
Q Consensus 40 ~~v~k~L~~Lv~~g~i~~K~~G 61 (226)
.-|.+++-.| +|+.+.-+
T Consensus 198 lEvERV~PqL----Kv~~~~d~ 215 (359)
T PF10498_consen 198 LEVERVLPQL----KVTIRADA 215 (359)
T ss_pred HHHHHHhhhh----eeeccCCc
Confidence 3455555555 44444444
No 446
>TIGR03337 phnR transcriptional regulator protein. This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Salmonella, Vibrio Aeromonas hydrophila, Hahella chejuensis and Psychromonas ingrahamii.
Probab=55.20 E-value=25 Score=29.09 Aligned_cols=33 Identities=21% Similarity=0.394 Sum_probs=26.8
Q ss_pred HHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 25 SQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 25 ~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
-.++...+ ||+..+|.++|+.|+++|+|..+..
T Consensus 28 E~eLa~~~---~Vsr~Tvr~Al~~L~~eGli~~~~g 60 (231)
T TIGR03337 28 ERDLGERF---NTTRVTIREALQQLEAEGLIYREDR 60 (231)
T ss_pred HHHHHHHH---CCCHHHHHHHHHHHHHCCeEEEeCC
Confidence 33444444 8999999999999999999998765
No 447
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=55.19 E-value=20 Score=31.19 Aligned_cols=55 Identities=24% Similarity=0.475 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCcccccccccchhhchhhhh
Q 027236 162 LEKLSQWRKRKRMLRDIWDPIMENSPKNLKEFKEELGIEYDEDVGVSLQSFSDLLQ 217 (226)
Q Consensus 162 ~~~~~~w~kRkri~~~i~~~i~e~~~~~~k~l~e~lGie~Ded~~v~~~~~~~~~~ 217 (226)
.+-..+|++..+. ..++..+++..+++.++.++.+|...-+.+|--+..|.....
T Consensus 91 ~~k~~~wk~~qka-~klle~aaekl~~~~ee~~~~vg~~L~e~fG~~y~aFE~aa~ 145 (269)
T COG1093 91 RKKIQEWKKEQKA-DKLLELAAEKLGKDLEEAYEEVGWKLEEEFGSLYDAFEAAAK 145 (269)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHhCCCHHHHHHHHhHHHHHHhCCHHHHHHHHHh
Confidence 3334678888877 668899999999999999999999998889888888875543
No 448
>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=55.10 E-value=1.1e+02 Score=24.61 Aligned_cols=30 Identities=30% Similarity=0.512 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 027236 86 EENAKLQEQLEEQRKAISKLEGEIRTLQSN 115 (226)
Q Consensus 86 ~~i~~l~~~l~~l~~~~k~l~~el~~l~~~ 115 (226)
.++.+.+..+..+..++.+++..+..+.+.
T Consensus 81 ~e~~~~~~~l~~l~~el~~l~~~~~~~~~~ 110 (191)
T PF04156_consen 81 GELSELQQQLQQLQEELDQLQERIQELESE 110 (191)
T ss_pred hhHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355555555555555555555555555443
No 449
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=54.83 E-value=45 Score=24.56 Aligned_cols=66 Identities=23% Similarity=0.198 Sum_probs=35.3
Q ss_pred HHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 43 QKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELN------QMKEENAKLQEQLEEQRKAISKLEGEIRTLQ 113 (226)
Q Consensus 43 ~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~------~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~ 113 (226)
-..||.|+.+........+...--|+ +..+|++.- .....+..|...+..+..+...|..+|...+
T Consensus 36 LneLd~Li~eA~~r~~~~~~~~~~~~-----~~l~P~~~i~a~l~~~~~~~~~~L~~~l~~l~~eN~~L~~~i~~~r 107 (109)
T PF03980_consen 36 LNELDKLIEEAKERKNSGEREKPVWR-----HSLTPEEDIRAHLAPYKKKEREQLNARLQELEEENEALAEEIQEQR 107 (109)
T ss_pred HHHHHHHHHHHHHhHhccccCCCCCC-----CCCChHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34567777776665554333222222 444566532 3345556666666666666666666655544
No 450
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.82 E-value=96 Score=26.80 Aligned_cols=34 Identities=18% Similarity=0.394 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQ 113 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~ 113 (226)
.++ .+..++..++++...|..+++.++..++...
T Consensus 51 r~~-~L~~e~~s~Q~~~~~L~~ev~~~~~~~~s~~ 84 (247)
T COG3879 51 RDL-DLVKELRSLQKKVNTLAAEVEDLENKLDSVR 84 (247)
T ss_pred hhh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444 6778888888888889989888888888877
No 451
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=54.81 E-value=82 Score=23.05 Aligned_cols=61 Identities=20% Similarity=0.261 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 82 NQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 82 ~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
.....-+.+...+...+-.++..+++.|..-...|...++...+.+.+++.-.+-..|.-+
T Consensus 36 ~~y~~~~~~iT~~f~~~S~ei~~ie~~L~~~~~~~~la~~i~~lQ~~Ek~KL~lT~~lQ~l 96 (97)
T PF14966_consen 36 EAYRQLCHEITQEFSAISKEILAIEAELRDEHERPDLAELIRELQEQEKEKLELTAKLQVL 96 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4445666777777777777888887777765666777888888888887777777766543
No 452
>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=54.71 E-value=74 Score=22.51 Aligned_cols=30 Identities=10% Similarity=0.010 Sum_probs=22.2
Q ss_pred CCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCccee
Q 027236 22 PLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 22 Pys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
+|+..++...+ ||+..++.. .++.|+|...
T Consensus 1 ~~~i~e~A~~~---gvs~~tLr~----ye~~Gli~p~ 30 (91)
T cd04766 1 VYVISVAAELS---GMHPQTLRL----YERLGLLSPS 30 (91)
T ss_pred CcCHHHHHHHH---CcCHHHHHH----HHHCCCcCCC
Confidence 58888887776 788776554 4678999864
No 453
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=54.40 E-value=1.3e+02 Score=27.97 Aligned_cols=57 Identities=16% Similarity=0.238 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH-----HHHHHHHHHHHHHHHHHHHHHHH
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL-----EQIREKEAQLVKEVKEMENKLAK 141 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~-----~el~~~i~~L~~e~~~l~~kL~~ 141 (226)
+..+..+..+++...+....+.+++..+..+-.. .+....+..|++++..+.+++-.
T Consensus 12 dqr~~~~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~e~~~l~e~~v~ 73 (459)
T KOG0288|consen 12 DQRLIDLNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQEENTQLNEERVR 73 (459)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444444444432111 34445566666666666665544
No 454
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=54.06 E-value=2.3e+02 Score=28.07 Aligned_cols=101 Identities=22% Similarity=0.334 Sum_probs=68.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC-CCCCCCHHHH
Q 027236 76 PNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRG-GVTLVKPEDR 154 (226)
Q Consensus 76 ~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~-~~~~vs~ee~ 154 (226)
++.+.++.+..++.+|+++...=-+++-.+..+|..+.+.+..+ +..-+...+..|...-. -...+|++.+
T Consensus 157 lsl~kLeelr~~L~~L~~ek~~Rlekv~~~~~~I~~l~~~Lg~~--------~~~~vt~~~~sL~~~~~~~~~~is~etl 228 (660)
T KOG4302|consen 157 LSLEKLEELREHLNELQKEKSDRLEKVLELKEEIKSLCSVLGLD--------FSMTVTDVEPSLVDHDGEQSRSISDETL 228 (660)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC--------cccchhhhhhhhhhccCcccccCCHHHH
Confidence 34577888888888888887777777777777777776653321 11112234444544432 1356899999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 155 MAVEEMFLEKLSQWRKRKRMLRDIWDPIME 184 (226)
Q Consensus 155 ~~~~~~~~~~~~~w~kRkri~~~i~~~i~e 184 (226)
.++......+...-.+|---+.++...|.+
T Consensus 229 ~~L~~~v~~l~~~k~qr~~kl~~l~~~~~~ 258 (660)
T KOG4302|consen 229 DRLDKMVKKLKEEKKQRLQKLQDLRTKLLE 258 (660)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999997777777666654
No 455
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=54.01 E-value=33 Score=22.86 Aligned_cols=28 Identities=29% Similarity=0.375 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLE 106 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~ 106 (226)
+|...+..+|.+|.+++..|+.+..-|+
T Consensus 14 EEVevLK~~I~eL~~~n~~Le~EN~~Lk 41 (59)
T PF01166_consen 14 EEVEVLKEQIAELEERNSQLEEENNLLK 41 (59)
T ss_dssp TSHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5556666666666666666665544443
No 456
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=54.00 E-value=1.7e+02 Score=29.32 Aligned_cols=63 Identities=17% Similarity=0.343 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh----CCCCCCCHHHHH
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR----GGVTLVKPEDRM 155 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~----~~~~~vs~ee~~ 155 (226)
|+.+.+..-.++..++.++..++ -+.+.|.++++...+.-+.|..|++.+- ...+..|.+|.+
T Consensus 570 Lk~~~e~Ql~~L~~l~e~~~~l~--~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AEr~ 636 (717)
T PF10168_consen 570 LKQQKEQQLKELQELQEERKSLR--ESAEKLAERYEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAERE 636 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHH
Confidence 33333333444444444444443 2335556667777666677777666552 234456666544
No 457
>PF08598 Sds3: Sds3-like; InterPro: IPR013907 Repression of gene transcription is mediated by histone deacetylases containing repressor-co-repressor complexes, which are recruited to promoters of target genes via interactions with sequence-specific transcription factors. The co-repressor complex contains a core of at least seven proteins []. This entry represents the conserved region found in Sds3, Dep1 and BRMS1-homologue p40 proteins. ; PDB: 2XUS_A.
Probab=53.99 E-value=25 Score=28.81 Aligned_cols=57 Identities=23% Similarity=0.331 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENK 138 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~k 138 (226)
+++..+..+..++++++ ....+..|+.++..+. .++..|+...+..|+.....--..
T Consensus 5 ~~l~~le~~F~~~Rd~l--Y~e~l~~L~~el~~l~-~~t~pe~l~~l~~l~~~rd~~l~~ 61 (205)
T PF08598_consen 5 DDLAKLEKQFAELRDQL--YRERLAQLQQELEQLQ-EGTHPEYLRRLQDLEERRDERLRV 61 (205)
T ss_dssp HHHHHHHHHHHHHHHHH--HHHHHHHHHHCHHHH--------------------------
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHHHHHHHH
Confidence 45777788888888876 6778888888888888 688888888888887765544433
No 458
>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=53.90 E-value=1.4e+02 Score=25.47 Aligned_cols=27 Identities=37% Similarity=0.565 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIR 110 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~ 110 (226)
+..++..++.++..++..+..+..++.
T Consensus 61 ~~~~~~~~~~r~~~l~~~i~~~~~~i~ 87 (302)
T PF10186_consen 61 LKREIEELRERLERLRERIERLRKRIE 87 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444433333
No 459
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=53.82 E-value=2e+02 Score=28.99 Aligned_cols=16 Identities=19% Similarity=0.248 Sum_probs=10.5
Q ss_pred cccHHHHHHHHHHHHH
Q 027236 36 NLKKAGIQKALDSLAD 51 (226)
Q Consensus 36 ~v~K~~v~k~L~~Lv~ 51 (226)
|++...|..|-.-|-+
T Consensus 498 Glp~~ii~~A~~~~~~ 513 (782)
T PRK00409 498 GLPENIIEEAKKLIGE 513 (782)
T ss_pred CcCHHHHHHHHHHHhh
Confidence 6777777777665543
No 460
>KOG0243 consensus Kinesin-like protein [Cytoskeleton]
Probab=53.63 E-value=2e+02 Score=30.00 Aligned_cols=47 Identities=26% Similarity=0.458 Sum_probs=28.4
Q ss_pred ceeEEEeecCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 62 KQKIYIARQDQFDIPNSEELNQMKEENAKLQEQLEEQRKAISKLEGEIR 110 (226)
Q Consensus 62 K~kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~ 110 (226)
|.-||.+ |+.+-. ...+...+..+|.++..++..++..+..+++.+.
T Consensus 426 KnGvyis-ee~y~~-~e~e~~~~~~~ieele~el~~~~~~l~~~~e~~~ 472 (1041)
T KOG0243|consen 426 KNGVYIS-EERYTQ-EEKEKKEMAEQIEELEEELENLEKQLKDLTELYM 472 (1041)
T ss_pred hCceEec-hHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5557777 222210 1234666677777777777777777777766654
No 461
>PHA02996 poly(A) polymerase large subunit; Provisional
Probab=53.57 E-value=12 Score=34.46 Aligned_cols=48 Identities=15% Similarity=0.241 Sum_probs=40.9
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcC
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNG 53 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g 53 (226)
.+-...|++||.+|+|++++-.|...+.=+.+--+.+.++|-.|...+
T Consensus 60 ~eIk~ri~~YFsKQ~~~~kiG~i~tIielQ~vlVt~~t~~lgvLttk~ 107 (467)
T PHA02996 60 SEIKARILEYFSKQRRTYKIGKLLTIIELQSVLVTTYTDVLGVLTTKA 107 (467)
T ss_pred HHHHHHHHHHHhhccchhhhhhhheeeeeheehhhhHhhhhhhhccCC
Confidence 567789999999999999988887766444688999999999998855
No 462
>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=53.50 E-value=57 Score=22.60 Aligned_cols=34 Identities=26% Similarity=0.345 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQS 114 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~ 114 (226)
...+..++..++.++..++.+...|..++..|.+
T Consensus 26 ~~~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~~ 59 (85)
T TIGR02209 26 TRQLNNELQKLQLEIDKLQKEWRDLQLEVAELSR 59 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4455666677777777777777777777666654
No 463
>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=53.49 E-value=55 Score=21.96 Aligned_cols=18 Identities=22% Similarity=0.501 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027236 124 KEAQLVKEVKEMENKLAK 141 (226)
Q Consensus 124 ~i~~L~~e~~~l~~kL~~ 141 (226)
++..|+.++..++..+..
T Consensus 5 E~~rL~Kel~kl~~~i~~ 22 (66)
T PF10458_consen 5 EIERLEKELEKLEKEIER 22 (66)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333444333333333
No 464
>KOG3231 consensus Predicted assembly/vacuolar sorting protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.45 E-value=1.2e+02 Score=24.65 Aligned_cols=56 Identities=21% Similarity=0.357 Sum_probs=33.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCH------HHHHHHhCccccc
Q 027236 148 LVKPEDRMAVEEMFLEKLSQWRKRKRMLRDIWDPIMENSPKNL------KEFKEELGIEYDE 203 (226)
Q Consensus 148 ~vs~ee~~~~~~~~~~~~~~w~kRkri~~~i~~~i~e~~~~~~------k~l~e~lGie~De 203 (226)
.+.|+.+-...++|..+.----=---|..|-+|-|.++.+... .++++++|||...
T Consensus 114 ~M~pek~~~tmr~FQ~anmKMemTeEMiNDTLDdild~sgDeeEs~aiVNqVLDEIGIEisg 175 (208)
T KOG3231|consen 114 KMDPEKTLQTMRNFQKANMKMEMTEEMINDTLDDILDGSGDEEESQAIVNQVLDEIGIEISG 175 (208)
T ss_pred cCCHHHHHHHHHHHHHHHHHhhhHHHHHHhhHHHHhcCCCcHHHHHHHHHHHHHHhhhhhcc
Confidence 3455555555555543322211122366788888888876532 6889999999754
No 465
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=53.37 E-value=58 Score=21.60 Aligned_cols=47 Identities=17% Similarity=0.201 Sum_probs=34.6
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcce
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISF 57 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~ 57 (226)
+.-..|.+++.... +-++.+|.... +++...|.++|-.|+.-|.|..
T Consensus 13 ~~~~~V~~~Ll~~G-~ltl~~i~~~t---~l~~~~Vk~~L~~LiQh~~v~y 59 (62)
T PF08221_consen 13 EIVAKVGEVLLSRG-RLTLREIVRRT---GLSPKQVKKALVVLIQHNLVQY 59 (62)
T ss_dssp HHHHHHHHHHHHC--SEEHHHHHHHH---T--HHHHHHHHHHHHHTTSEEE
T ss_pred hHHHHHHHHHHHcC-CcCHHHHHHHh---CCCHHHHHHHHHHHHHcCCeee
Confidence 44567888887666 56677887755 6999999999999999998753
No 466
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=53.33 E-value=85 Score=22.81 Aligned_cols=95 Identities=14% Similarity=0.203 Sum_probs=53.7
Q ss_pred CcHHHHHHHHhcccccHHHHHHHHHHHHHc-CCccee-ecCceeEEEeecCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 027236 23 LNSQNVADALQKYNLKKAGIQKALDSLADN-GKISFK-EYGKQKIYIARQDQFDIPNSEELNQMKEENAKLQEQLEEQRK 100 (226)
Q Consensus 23 ys~~di~~~l~~~~v~K~~v~k~L~~Lv~~-g~i~~K-~~GK~kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~~l~~l~~ 100 (226)
|+..+|...+ ||+..++-.. ... |++... .-|-..+| + .+++..+.. |..+ +....-
T Consensus 1 yti~EvA~~~---gVs~~tLR~y----e~~~gli~p~r~~~g~R~Y-------t---~~di~~l~~-I~~l---lr~~G~ 59 (99)
T cd04765 1 FSIGEVAEIL---GLPPHVLRYW----ETEFPQLKPVKRAGGRRYY-------R---PKDVELLLL-IKHL---LYEKGY 59 (99)
T ss_pred CCHHHHHHHH---CcCHHHHHHH----HHHcCCCCCcCCCCCCeee-------C---HHHHHHHHH-HHHH---HHHCCC
Confidence 6778888777 7888776644 444 555432 22222222 2 355543221 1111 122333
Q ss_pred HHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHHHHHHHHH
Q 027236 101 AISKLEGEIRTLQSN-LTLEQIREKEAQLVKEVKEMENK 138 (226)
Q Consensus 101 ~~k~l~~el~~l~~~-~t~~el~~~i~~L~~e~~~l~~k 138 (226)
.++++..-+...... ...+++...+.++..++..|+..
T Consensus 60 ~l~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 98 (99)
T cd04765 60 TIEGAKQALKEDGAAAIREEEAEERLPSIRAELLDLRDQ 98 (99)
T ss_pred CHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHhc
Confidence 444455555555544 67788889999999988888764
No 467
>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif. This domain is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain a C-terminal TTKRSYEDQ motif domain (IPR019348 from INTERPRO). The function of these proteins is not known.
Probab=53.26 E-value=81 Score=23.48 Aligned_cols=15 Identities=20% Similarity=0.397 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHH
Q 027236 119 EQIREKEAQLVKEVK 133 (226)
Q Consensus 119 ~el~~~i~~L~~e~~ 133 (226)
..|...++.|+.++.
T Consensus 57 ~QL~kRV~~LQ~El~ 71 (102)
T PF10205_consen 57 QQLTKRVEVLQEELE 71 (102)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444444444444444
No 468
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=53.12 E-value=28 Score=21.48 Aligned_cols=41 Identities=12% Similarity=0.305 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCC
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGK 54 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~ 54 (226)
.+..|+..+.+ -+|..+|...+ ||+.++|...+....+.|+
T Consensus 6 ~R~~ii~l~~~---G~s~~~ia~~l---gvs~~Tv~~w~kr~~~~G~ 46 (50)
T PF13384_consen 6 RRAQIIRLLRE---GWSIREIAKRL---GVSRSTVYRWIKRYREEGL 46 (50)
T ss_dssp ----HHHHHHH---T--HHHHHHHH---TS-HHHHHHHHT-------
T ss_pred HHHHHHHHHHC---CCCHHHHHHHH---CcCHHHHHHHHHHcccccc
Confidence 34455555555 88988999988 8999999999988777663
No 469
>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=53.07 E-value=1.7e+02 Score=29.25 Aligned_cols=82 Identities=12% Similarity=0.202 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVE 158 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~ 158 (226)
.|...+...+.++.+.++.++.+.+.|..+++.++ .-..-|.....+|+.++-.|+..+..|+++ .-+++-++
T Consensus 55 ~e~~rl~~~~~~~~~~~~~~e~~~~~lr~e~ke~K--~rE~rll~dyselEeENislQKqvs~Lk~s-----QvefE~~K 127 (717)
T PF09730_consen 55 AENERLSQLNQELRKECEDLELERKRLREEIKEYK--FREARLLQDYSELEEENISLQKQVSVLKQS-----QVEFEGLK 127 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHhhhhHHHHHHHHHHHHHHHHHHHh-----HHHHHHHH
Q ss_pred HHHHHHHHH
Q 027236 159 EMFLEKLSQ 167 (226)
Q Consensus 159 ~~~~~~~~~ 167 (226)
-+++....+
T Consensus 128 hei~rl~Ee 136 (717)
T PF09730_consen 128 HEIKRLEEE 136 (717)
T ss_pred HHHHHHHHH
No 470
>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=52.94 E-value=96 Score=23.28 Aligned_cols=20 Identities=25% Similarity=0.446 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027236 86 EENAKLQEQLEEQRKAISKL 105 (226)
Q Consensus 86 ~~i~~l~~~l~~l~~~~k~l 105 (226)
..+..|+..++..+-....|
T Consensus 16 n~La~Le~slE~~K~S~~eL 35 (107)
T PF09304_consen 16 NRLASLERSLEDEKTSQGEL 35 (107)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhHHHH
Confidence 33444444444444333333
No 471
>TIGR00331 hrcA heat shock gene repressor HrcA. In Bacillus subtilis, hrcA is the first gene of the dnaK operon and so is itself a heat shock gene.
Probab=52.90 E-value=55 Score=29.43 Aligned_cols=44 Identities=20% Similarity=0.295 Sum_probs=36.1
Q ss_pred HHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceee
Q 027236 15 YVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKE 59 (226)
Q Consensus 15 y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~ 59 (226)
.+..+.+|-+..++.+... .+|+.++|-.-|..|.+.|+|.---
T Consensus 14 ~~l~~~~pv~s~~l~~~~~-~~vS~aTiR~d~~~Le~~G~l~~~h 57 (337)
T TIGR00331 14 EYIKTGQPVGSKTLLEKYN-LGLSSATIRNDMADLEDLGFIEKPH 57 (337)
T ss_pred HHHhcCCCcCHHHHHhhcC-CCCChHHHHHHHHHHHHCCCccCCC
Confidence 4444888999999988732 3899999999999999999997733
No 472
>PF09743 DUF2042: Uncharacterized conserved protein (DUF2042); InterPro: IPR018611 The ubiquitin fold modifier 1 (Ufm1) is the most recently discovered ubiquitin-like modifier whose conjugation (ufmylation) system is conserved in multicellular organisms. Ufm1 is known to covalently attach with cellular protein(s) via a specific E1-activating enzyme (Uba5), an E2-conjugating enzyme (Ufc1), and a E3-ligating enzyme []. This entry represents E3 UFM1-protein ligase 1.
Probab=52.88 E-value=46 Score=29.09 Aligned_cols=55 Identities=18% Similarity=0.312 Sum_probs=46.9
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEe
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIA 68 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~ 68 (226)
+.+|--.|...-||-++..+... .++.-..+..++++|+..|.|.....| .+|.+
T Consensus 179 ka~iRG~l~a~T~Pt~l~~l~~~---~~~~~~l~~~il~~Li~~~~l~G~i~G--~~yvP 233 (272)
T PF09743_consen 179 KARIRGALSAITRPTPLSSLLKR---YGFEEKLFQSILEELIKSGELPGSIVG--ASYVP 233 (272)
T ss_pred HHHHHHHHhcCccceEHHHHHHH---hCCcHHHHHHHHHHHHhcCcceEEEEC--CEEec
Confidence 56677788888899997777665 378999999999999999999999999 66665
No 473
>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional
Probab=52.82 E-value=1.4e+02 Score=28.08 Aligned_cols=79 Identities=14% Similarity=0.045 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcc-----C--CHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHH
Q 027236 89 AKLQEQLEEQRKAISKLEGEIRTLQSN-----L--TLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMF 161 (226)
Q Consensus 89 ~~l~~~l~~l~~~~k~l~~el~~l~~~-----~--t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~ 161 (226)
.-.++++...+..+...+..|..++.. | +.+-+...|..|+.++.+++.+|..+.....+-+| .+..++.++
T Consensus 245 ~~Ae~ev~~Ae~rl~~Ar~aL~~fRn~~gvlDP~~~a~~~~~lI~~Le~qLa~~~aeL~~L~~~~~p~sP-qV~~l~~rI 323 (434)
T PRK15178 245 LWLENDVKSAQENLGAARLELLKIQHIQKDIDPKETITAIYQLIAGFETQLAEAKAEYAQLMVNGLDQNP-LIPRLSAKI 323 (434)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCC-chhHHHHHH
Confidence 345556777777777777777777652 2 22555678999999999999999988764223333 344455554
Q ss_pred HHHHHHH
Q 027236 162 LEKLSQW 168 (226)
Q Consensus 162 ~~~~~~w 168 (226)
.......
T Consensus 324 ~aLe~QI 330 (434)
T PRK15178 324 KVLEKQI 330 (434)
T ss_pred HHHHHHH
Confidence 4333333
No 474
>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=52.74 E-value=51 Score=26.92 Aligned_cols=57 Identities=19% Similarity=0.415 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHH
Q 027236 78 SEELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKL 139 (226)
Q Consensus 78 ~ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL 139 (226)
..+...+...|..|+.++..-+.....+..+|..++.. +......|.....++...|
T Consensus 102 ~~~~~~~~~~i~~L~~~i~~~q~~~~~~i~~L~~f~~~-----l~~D~~~l~~~~~~l~~~l 158 (184)
T PF05791_consen 102 QKDKEDLKEIIEDLQDQIQKNQDKVQALINELNDFKDK-----LQKDSRNLKTDVDELQSIL 158 (184)
T ss_dssp HT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHH
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHhHHHHHHHH
Confidence 44555566677777777777777777777777766642 3333344444444444433
No 475
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=52.65 E-value=44 Score=28.69 Aligned_cols=54 Identities=15% Similarity=0.321 Sum_probs=44.9
Q ss_pred chHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeecCce
Q 027236 6 DNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEYGKQ 63 (226)
Q Consensus 6 ~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~ 63 (226)
.+-+..|++++.+ +.--++.|+...+ +|+..+|-+=|..|.++|+|.---.|-.
T Consensus 4 ~eR~~~Il~~l~~-~g~v~v~eLa~~~---~VS~~TIRRDL~~Le~~g~l~R~hGGa~ 57 (253)
T COG1349 4 EERHQKILELLKE-KGKVSVEELAELF---GVSEMTIRRDLNELEEQGLLLRVHGGAV 57 (253)
T ss_pred HHHHHHHHHHHHH-cCcEEHHHHHHHh---CCCHHHHHHhHHHHHHCCcEEEEeCCEe
Confidence 4578899999997 5566888888877 8999999999999999999986655543
No 476
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=52.51 E-value=3.1e+02 Score=29.09 Aligned_cols=15 Identities=20% Similarity=0.142 Sum_probs=9.9
Q ss_pred CCCCCHHHHHHHHHH
Q 027236 146 VTLVKPEDRMAVEEM 160 (226)
Q Consensus 146 ~~~vs~ee~~~~~~~ 160 (226)
+..|++..+..+...
T Consensus 765 ~~GvD~~~I~~l~~~ 779 (1201)
T PF12128_consen 765 GKGVDPERIQQLKQE 779 (1201)
T ss_pred hCCCCHHHHHHHHHH
Confidence 356788777766554
No 477
>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=52.51 E-value=92 Score=22.95 Aligned_cols=70 Identities=19% Similarity=0.294 Sum_probs=41.1
Q ss_pred cCCCCcHHHHHH-----HHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHHHHHHHHHHHHH
Q 027236 19 QNRPLNSQNVAD-----ALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELNQMKEENAKLQE 93 (226)
Q Consensus 19 ~nrPys~~di~~-----~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~ 93 (226)
.+|-|+..+|.. .+...|++-..+...|+.... | . .+ -++-...+..++..+..
T Consensus 35 gyR~Y~~~~l~~l~~I~~lr~~G~sL~eI~~~l~~~~~-~--------~----------~~--~~~~~~~l~~~~~~l~~ 93 (113)
T cd01109 35 GIRDFTEEDLEWLEFIKCLRNTGMSIKDIKEYAELRRE-G--------D----------ST--IPERLELLEEHREELEE 93 (113)
T ss_pred CCccCCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHcc-C--------C----------cc--HHHHHHHHHHHHHHHHH
Confidence 467899888854 344458999999988875321 1 0 01 02334455666666666
Q ss_pred HHHHHHHHHHHHHHHH
Q 027236 94 QLEEQRKAISKLEGEI 109 (226)
Q Consensus 94 ~l~~l~~~~k~l~~el 109 (226)
++..++..+..+...+
T Consensus 94 ~i~~l~~~~~~l~~~~ 109 (113)
T cd01109 94 QIAELQETLAYLDYKI 109 (113)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 6666666555554443
No 478
>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=52.29 E-value=48 Score=22.42 Aligned_cols=24 Identities=21% Similarity=0.520 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 120 QIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 120 el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
++..++.++++++..|+.+++.++
T Consensus 28 ~l~~~i~~l~~e~~~L~~ei~~l~ 51 (80)
T PF04977_consen 28 ELQKEIEELKKENEELKEEIERLK 51 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445556666666666666666664
No 479
>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=52.17 E-value=97 Score=28.51 Aligned_cols=58 Identities=26% Similarity=0.395 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKL 142 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l 142 (226)
+-+..++.++..++.+++.+...+.+.... .--..++..++..+++++.++++-+...
T Consensus 242 ~~~~~l~~~~~~~~~~i~~l~~~l~~~~k~------~~k~~~~~~q~~~~~k~~~~~~~~~~~~ 299 (406)
T PF02388_consen 242 EYLESLQEKLEKLEKEIEKLEEKLEKNPKK------KNKLKELEEQLASLEKRIEEAEELIAEY 299 (406)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH-THH------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCcch------hhHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445555666666655555555543333210 0111456666777777777766655443
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=52.15 E-value=2e+02 Score=26.81 Aligned_cols=15 Identities=13% Similarity=0.271 Sum_probs=10.6
Q ss_pred chHHHHHHHHHHhcC
Q 027236 6 DNTEAIVLNYVNEQN 20 (226)
Q Consensus 6 ~ea~~~Il~y~~~~n 20 (226)
++++..+.+|..+.+
T Consensus 178 ~~ae~~l~~f~~~~~ 192 (498)
T TIGR03007 178 EAAENRLKAFKQENG 192 (498)
T ss_pred HHHHHHHHHHHHhCc
Confidence 567778888876544
No 481
>PRK14153 heat shock protein GrpE; Provisional
Probab=52.14 E-value=1.4e+02 Score=24.86 Aligned_cols=24 Identities=21% Similarity=0.173 Sum_probs=14.5
Q ss_pred HHHHHHhCcccccccccch-hhchh
Q 027236 191 KEFKEELGIEYDEDVGVSL-QSFSD 214 (226)
Q Consensus 191 k~l~e~lGie~Ded~~v~~-~~~~~ 214 (226)
..+++.+||+.-+..|-.| |.+-.
T Consensus 124 ~~vL~k~Gv~~I~~~G~~FDP~~HE 148 (194)
T PRK14153 124 FSILEKYGLERIECEGEEFDPHRHE 148 (194)
T ss_pred HHHHHHCCCeeeCCCCCCCChhHhc
Confidence 3456688888765556666 44433
No 482
>KOG3067 consensus Translin family protein [General function prediction only]
Probab=52.10 E-value=1.4e+02 Score=24.92 Aligned_cols=110 Identities=14% Similarity=0.244 Sum_probs=62.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHH-
Q 027236 91 LQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEMFLEKLSQWR- 169 (226)
Q Consensus 91 l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~~~w~- 169 (226)
+++.+.+++...+.++..|..... ....+.+...--.+.+..+..++..|..-. ++. .|-++...|+
T Consensus 25 iravV~~ie~~~r~iq~~L~~vhq--~~~~i~k~~~~are~~~~~kq~~~~LaE~~---~~~-------qyyry~~~w~~ 92 (226)
T KOG3067|consen 25 IRAVVDEIEEKLREIQLLLQNVHQ--NENLIPKECGLAREDLENIKQKYRMLAELP---PAG-------QYYRYNGHWRR 92 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhc--ccccchHHHHHHHHHHHHHHHHHHHHhhcC---Ccc-------ceEEecchHHH
Confidence 444555555555555555555554 222334444444555555666555554321 121 2334445554
Q ss_pred --HHHHHHHHHHHHHHhcCCCCHHHHHHHhCcccccccc--cchhhc
Q 027236 170 --KRKRMLRDIWDPIMENSPKNLKEFKEELGIEYDEDVG--VSLQSF 212 (226)
Q Consensus 170 --kRkri~~~i~~~i~e~~~~~~k~l~e~lGie~Ded~~--v~~~~~ 212 (226)
+|-.-.-.++.|+-.++=...+++-|-+||+.|..-| +++.+|
T Consensus 93 ~~Q~vv~l~alv~~Let~~Llt~e~v~eilgl~p~~s~~FhLdvedy 139 (226)
T KOG3067|consen 93 STQRVVSLPALVAWLETGTLLTREEVTEILGLEPDRSEGFHLDVEDY 139 (226)
T ss_pred HHHHHHHHHHHHHHHhhcccccHHHHHHHhcCCccccccceeeHHHH
Confidence 3555556777887777767889999999999886544 344444
No 483
>PF05719 GPP34: Golgi phosphoprotein 3 (GPP34); InterPro: IPR008628 This family consists of several eukaryotic GPP34 like proteins. GPP34 localises to the Golgi complex and is conserved from Saccharomyces cerevisiae to humans. The cytosolic-ally exposed location of GPP34 predicts a role for a novel coat protein in Golgi trafficking [].; PDB: 2ZII_B 2ZIH_D 3KN1_A.
Probab=51.98 E-value=65 Score=26.43 Aligned_cols=53 Identities=15% Similarity=0.171 Sum_probs=39.6
Q ss_pred CcchHHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCcceeec
Q 027236 4 KSDNTEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKISFKEY 60 (226)
Q Consensus 4 kg~ea~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~ 60 (226)
-|+---+.+++.+....+|-++.+....++. +.....++++|++.|.|....-
T Consensus 56 ~gdp~L~~~l~~l~~~~~~~~~~~wv~~l~~----~~~~~~v~~~L~~~Gil~~~~~ 108 (205)
T PF05719_consen 56 TGDPLLDEALARLARARRPRSVRHWVRRLSG----RGLRERVRDRLVERGILREERR 108 (205)
T ss_dssp -S-HHHHHHHHHHHHTSS-EEHHHHHHHHTT----TSHHHHHHHHHHHTTSB--EEE
T ss_pred CCcHHHHHHHHHHhcccCCCCHHHHHHHhhc----ccHHHHHHHHHHHCCeEEecCC
Confidence 3566778899999977779998888877642 5668999999999999988764
No 484
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=51.95 E-value=31 Score=32.55 Aligned_cols=47 Identities=9% Similarity=0.240 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 95 LEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 95 l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+.+.+...++|+.+|+.++. +.+++......++.+++++++.+..|+
T Consensus 71 LteqQ~kasELEKqLaaLrq--Elq~~saq~~dle~KIkeLEaE~~~Lk 117 (475)
T PRK13729 71 TTEMQVTAAQMQKQYEEIRR--ELDVLNKQRGDDQRRIEKLGQDNAALA 117 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHhhhhhhHHHHHHHHHHHHHHHH
Confidence 34444455555555555531 112222444444444444444444443
No 485
>KOG3758 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.76 E-value=1.5e+02 Score=29.03 Aligned_cols=61 Identities=20% Similarity=0.337 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+..+...+..+.+++..+..-+..+.+++.+ +.+++..|..++++++.+-..++.+.+-+.
T Consensus 73 f~~i~~~l~~v~e~v~km~~t~~~l~s~ls~--~k~~t~dli~~t~~l~~e~~~le~r~kii~ 133 (655)
T KOG3758|consen 73 FKEIKRRLDRVSEDVEKMANTCDKLKSNLST--SKATTQDLIQKTETLKEEAAQLELRKKIIN 133 (655)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555555555555555555444433 237789999999999999999888876554
No 486
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=51.69 E-value=2.5e+02 Score=27.61 Aligned_cols=82 Identities=12% Similarity=0.199 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcc------CCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHH
Q 027236 86 EENAKLQEQLEEQRKAISKLEGEIRTLQSN------LTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEE 159 (226)
Q Consensus 86 ~~i~~l~~~l~~l~~~~k~l~~el~~l~~~------~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~ 159 (226)
.+++..+..+..++.++..|..+++..++. +..+.+...+.+...+|..|-..++.++++. .++++....
T Consensus 242 ~eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~~~~~~~~i~~~~~~L~~kd~~i~~L~~di~~~~~S~----~~e~e~~~~ 317 (629)
T KOG0963|consen 242 TELEDAQQRIVFLEREVEQLREQLAKANSSKKLAKIDDIDALGSVLNQKDSEIAQLSNDIERLEASL----VEEREKHKA 317 (629)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCchHHHHHHHhHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence 344444455555555555555555554442 4444444555556666666666666665442 344444444
Q ss_pred HHHHHHHHHHHH
Q 027236 160 MFLEKLSQWRKR 171 (226)
Q Consensus 160 ~~~~~~~~w~kR 171 (226)
.+....+.-+.-
T Consensus 318 qI~~le~~l~~~ 329 (629)
T KOG0963|consen 318 QISALEKELKAK 329 (629)
T ss_pred HHHHHHHHHHHH
Confidence 444333433333
No 487
>KOG2916 consensus Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=51.69 E-value=40 Score=29.51 Aligned_cols=63 Identities=25% Similarity=0.392 Sum_probs=49.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCcccccccccchhhchhhhh
Q 027236 147 TLVKPEDRMAVEEMFLEKLSQWRKRKRMLRDIWDPIMENSPKNLKEFKEELGIEYDEDVGVSLQSFSDLLQ 217 (226)
Q Consensus 147 ~~vs~ee~~~~~~~~~~~~~~w~kRkri~~~i~~~i~e~~~~~~k~l~e~lGie~Ded~~v~~~~~~~~~~ 217 (226)
.-|||+++.+-+..+. +.| +...|+..+++..+...++|++.+|+.-+.-+|--+..|.....
T Consensus 88 rrVs~ed~~kC~Er~~-------ksK-~v~sIlrhvAe~~g~~LeeLY~~igW~~~rk~g~aYdaFK~~vt 150 (304)
T KOG2916|consen 88 RRVSPEDKEKCEERFA-------KSK-LVYSILRHVAEKLGYELEELYQRIGWPLERKYGHAYDAFKIAVT 150 (304)
T ss_pred ccCCHHHHHHHHHHHH-------HhH-HHHHHHHHHHHHhCCcHHHHHHHhCCchhhhhchHHHHHHHhcc
Confidence 4588998877766654 444 66889999999999999999999999999888876766655443
No 488
>PLN02943 aminoacyl-tRNA ligase
Probab=51.64 E-value=79 Score=32.65 Aligned_cols=61 Identities=21% Similarity=0.324 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hccCCH--HHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 84 MKEENAKLQEQLEEQRKAISKLEGEIRTL---QSNLTL--EQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 84 l~~~i~~l~~~l~~l~~~~k~l~~el~~l---~~~~t~--~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
.+.++..|.++++.++.++..++..|.+- .+.|.. +.-...+++++.++..+++.|..|.+
T Consensus 887 ~~~E~~rL~K~l~klekei~~~~~kLsN~~F~~KAP~evv~~e~~kl~~~~~~l~~~~~~l~~l~~ 952 (958)
T PLN02943 887 ISAEVERLSKRLSKMQTEYDALAARLSSPKFVEKAPEDVVRGVREKAAEAEEKIKLTKNRLAFLKS 952 (958)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45666667777777777777776666642 233433 44445677888888888888888874
No 489
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=51.63 E-value=1.1e+02 Score=23.52 Aligned_cols=77 Identities=16% Similarity=0.149 Sum_probs=45.0
Q ss_pred cCCCCcHHHHH-----HHHhcccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHHHHHHHHHHHHH
Q 027236 19 QNRPLNSQNVA-----DALQKYNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELNQMKEENAKLQE 93 (226)
Q Consensus 19 ~nrPys~~di~-----~~l~~~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~~i~~l~~ 93 (226)
.+|-|+..+|. ..+...|++-..+...|.... | ..+ ..+-...+..++.++.+
T Consensus 35 gyR~Y~~~~v~~l~~I~~lr~~GfsL~eI~~ll~~~~----------~----------~~~--~~~~~~~l~~k~~~i~~ 92 (131)
T cd04786 35 GYRDYPPETVWVLEIISSAQQAGFSLDEIRQLLPADA----------S----------NWQ--HDELLAALERKVADIEA 92 (131)
T ss_pred CCeecCHHHHHHHHHHHHHHHcCCCHHHHHHHHhccc----------C----------CCC--HHHHHHHHHHHHHHHHH
Confidence 46789988884 344446899999988875210 0 001 02224455666666666
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCC
Q 027236 94 QLEEQRKAISKLEGEIRTLQSNLT 117 (226)
Q Consensus 94 ~l~~l~~~~k~l~~el~~l~~~~t 117 (226)
++.+|......+..-+..+...|+
T Consensus 93 ~i~~L~~~~~~L~~~i~~~~~~~~ 116 (131)
T cd04786 93 LEARLAQNKAQLLVLIDLIESKPD 116 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCC
Confidence 666666666665555555554443
No 490
>COG5045 Ribosomal protein S10E [Translation, ribosomal structure and biogenesis]
Probab=51.62 E-value=22 Score=25.91 Aligned_cols=50 Identities=14% Similarity=0.182 Sum_probs=39.4
Q ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHHhcc---cccHHHHHHHHHHHHHcCCccee
Q 027236 7 NTEAIVLNYVNEQNRPLNSQNVADALQKY---NLKKAGIQKALDSLADNGKISFK 58 (226)
Q Consensus 7 ea~~~Il~y~~~~nrPys~~di~~~l~~~---~v~K~~v~k~L~~Lv~~g~i~~K 58 (226)
+-+-+|.+++-++.--...+|- |++++ +|+--.|.+++++|...|-|..-
T Consensus 6 ~nr~kIhq~Lf~~gv~vakkDf--nl~kH~el~ipNL~vika~qsl~S~GYvkt~ 58 (105)
T COG5045 6 ENRYKIHQRLFQKGVAVAKKDF--NLGKHRELEIPNLHVIKAMQSLISYGYVKTI 58 (105)
T ss_pred HHHHHHHHHHHHhhhhHhhhhc--cccCCcccCCCchHHHHHHHHHhhcceeEEE
Confidence 4567888999888777666665 56564 78999999999999999987653
No 491
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=51.59 E-value=33 Score=25.11 Aligned_cols=31 Identities=29% Similarity=0.456 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 027236 85 KEENAKLQEQLEEQRKAISKLEGEIRTLQSN 115 (226)
Q Consensus 85 ~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~ 115 (226)
..+..++.+++..++.++..++.++..+...
T Consensus 73 ~~e~~~lk~~i~~le~~~~~~e~~l~~~l~~ 103 (108)
T PF02403_consen 73 KAEVKELKEEIKELEEQLKELEEELNELLLS 103 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3444444444444444444444444444433
No 492
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=51.56 E-value=1.9e+02 Score=28.82 Aligned_cols=83 Identities=13% Similarity=0.165 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVE 158 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~ 158 (226)
.+...+-.++.+++.++..++.....+.... -...|....+..++.+|++++..++.++..+-.. ..+...+.
T Consensus 304 ~ea~~~l~~~~~l~~ql~~l~~~~~~l~~~~--~~~hP~v~~l~~~~~~L~~~~~~l~~~~~~~p~~-----e~~~~~L~ 376 (726)
T PRK09841 304 LEAKAVLEQIVNVDNQLNELTFREAEISQLY--KKDHPTYRALLEKRQTLEQERKRLNKRVSAMPST-----QQEVLRLS 376 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cccCchHHHHHHHHHHHHHHHHHHHHHHHhccHH-----HHHHHHHH
Q ss_pred HHHHHHHHHH
Q 027236 159 EMFLEKLSQW 168 (226)
Q Consensus 159 ~~~~~~~~~w 168 (226)
+++.-....|
T Consensus 377 R~~~~~~~lY 386 (726)
T PRK09841 377 RDVEAGRAVY 386 (726)
T ss_pred HHHHHHHHHH
No 493
>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=51.54 E-value=31 Score=24.28 Aligned_cols=28 Identities=25% Similarity=0.367 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 027236 88 NAKLQEQLEEQRKAISKLEGEIRTLQSN 115 (226)
Q Consensus 88 i~~l~~~l~~l~~~~k~l~~el~~l~~~ 115 (226)
|.+++++...|+.++..++++|..++..
T Consensus 2 i~ei~eEn~~Lk~eiqkle~ELq~~~~~ 29 (76)
T PF07334_consen 2 IHEIQEENARLKEEIQKLEAELQQNKRE 29 (76)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhh
No 494
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=51.53 E-value=65 Score=20.94 Aligned_cols=43 Identities=21% Similarity=0.382 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHh--ccCCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 027236 102 ISKLEGEIRTLQ--SNLTLEQIREKEAQLVKEVKEMENKLAKLRG 144 (226)
Q Consensus 102 ~k~l~~el~~l~--~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~ 144 (226)
+.+++..+..-. -..+.......|..|+.++..|..+|...++
T Consensus 6 l~ELe~klkaerE~R~~d~~~a~~rl~~l~~EN~~Lr~eL~~~r~ 50 (52)
T PF12808_consen 6 LEELERKLKAEREARSLDRSAARKRLSKLEGENRLLRAELERLRS 50 (52)
T ss_pred HHHHHHHHHHhHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHhh
No 495
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=51.47 E-value=1.4e+02 Score=24.67 Aligned_cols=109 Identities=16% Similarity=0.273 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHH
Q 027236 79 EELNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVE 158 (226)
Q Consensus 79 ee~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~ 158 (226)
..+..+-.....+..++..+...+...+..+..+...+.+. ...+..++.++.+++.+...++ .+.+.+.
T Consensus 121 ~svk~~l~~R~~~~~~~~~a~~~l~kkk~~~~kl~~~~~~~--~~k~~~~~~ei~~~~~~~~~~~--------~~~~~is 190 (236)
T PF09325_consen 121 ESVKEALNRRDKKLIEYQNAEKELQKKKAQLEKLKASGKNR--QDKVEQAENEIEEAERRVEQAK--------DEFEEIS 190 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhh--hHHHHHHHHHHHHHHHHHHHHH--------HHHHHHH
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHhc---CCCCHHHHHHHh
Q 027236 159 EMFLEKLSQWRK-RKRMLRDIWDPIMEN---SPKNLKEFKEEL 197 (226)
Q Consensus 159 ~~~~~~~~~w~k-Rkri~~~i~~~i~e~---~~~~~k~l~e~l 197 (226)
.....-..+|-. |..-|+.++...++. +-...-++|+.+
T Consensus 191 ~~~k~E~~rf~~~k~~d~k~~l~~~~~~~i~~~~~~~~~We~~ 233 (236)
T PF09325_consen 191 ENIKKELERFEKEKVKDFKSMLEEYAESQIEYQKKMLEAWETF 233 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
No 496
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=51.44 E-value=2.2e+02 Score=26.90 Aligned_cols=112 Identities=21% Similarity=0.227 Sum_probs=0.0
Q ss_pred EEEeecCCCCCCCHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH--------------------HHHHhccCCHHHH
Q 027236 65 IYIARQDQFDIPNSEELNQMKEENAKLQE---QLEEQRKAISKLEGE--------------------IRTLQSNLTLEQI 121 (226)
Q Consensus 65 iY~~~Q~~~~~~~~ee~~~l~~~i~~l~~---~l~~l~~~~k~l~~e--------------------l~~l~~~~t~~el 121 (226)
+|.+.|+... .+-++.|-..++.|+. .+..++..+...+.+ |..++....++..
T Consensus 231 w~ay~Qnk~a---kehv~km~kdle~Lq~aEqsl~dlQk~Lekar~e~rnvavek~~lerkl~ea~rl~elreg~e~e~~ 307 (575)
T KOG4403|consen 231 WFAYRQNKKA---KEHVNKMMKDLEGLQRAEQSLEDLQKRLEKAREEQRNVAVEKLDLERKLDEAPRLSELREGVENETS 307 (575)
T ss_pred hhhhhhhhHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHhhhhhhhhhhcchhHHHH
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Q 027236 122 REKEAQLVKEVKEMENKLAKLRGGVTLVKPEDRMAVEEM--FLEKLSQWRKRKRMLRDIWDPI 182 (226)
Q Consensus 122 ~~~i~~L~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~--~~~~~~~w~kRkri~~~i~~~i 182 (226)
..++++++.++.+-+.+|+.=.+-.+ |..+++.-.. -......=++|--.++.+..+.
T Consensus 308 rkelE~lR~~L~kAEkele~nS~wsa---P~aLQ~wLq~T~E~E~q~~~kkrqnaekql~~Ak 367 (575)
T KOG4403|consen 308 RKELEQLRVALEKAEKELEANSSWSA---PLALQKWLQLTHEVEVQYYNKKRQNAEKQLKEAK 367 (575)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCC---cHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
No 497
>PTZ00034 40S ribosomal protein S10; Provisional
Probab=51.44 E-value=18 Score=27.89 Aligned_cols=72 Identities=11% Similarity=0.227 Sum_probs=0.0
Q ss_pred HHHHHHHHHhcCCCCcHHHHHHHHhc-ccccHHHHHHHHHHHHHcCCcceeecCceeEEEeecCCCCCCCHHHHHHHHHH
Q 027236 9 EAIVLNYVNEQNRPLNSQNVADALQK-YNLKKAGIQKALDSLADNGKISFKEYGKQKIYIARQDQFDIPNSEELNQMKEE 87 (226)
Q Consensus 9 ~~~Il~y~~~~nrPys~~di~~~l~~-~~v~K~~v~k~L~~Lv~~g~i~~K~~GK~kiY~~~Q~~~~~~~~ee~~~l~~~ 87 (226)
+.+|++||-+..=-..-+|...-.|. .+|+-=.|.++|+||...|.|. ..|-=+.+||. +. .+-++-|..-
T Consensus 9 r~~Iye~LfkeGVlvakKd~~~~~h~el~vpNL~Vik~mqSL~Srg~Vk-e~f~WrhyYw~----LT---~eGieyLR~y 80 (124)
T PTZ00034 9 RKAIYRYLFKEGVIVCKKDPKGPWHPELNVPNLHVMMLMRSLKSRGLVK-EQFAWQHYYYY----LT---DEGIEYLRTY 80 (124)
T ss_pred HHHHHHHHhhCceEEEecCCCCCCCCccCCccHHHHHHHHccccCCceE-EEEeeEEEEEE----Ec---hHHHHHHHHH
Q ss_pred H
Q 027236 88 N 88 (226)
Q Consensus 88 i 88 (226)
+
T Consensus 81 L 81 (124)
T PTZ00034 81 L 81 (124)
T ss_pred h
No 498
>PRK14134 recX recombination regulator RecX; Provisional
Probab=51.18 E-value=38 Score=29.70 Aligned_cols=46 Identities=11% Similarity=0.246 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhcCCCCcHHHHHHHHhcccccHHHHHHHHHHHHHcCCc
Q 027236 8 TEAIVLNYVNEQNRPLNSQNVADALQKYNLKKAGIQKALDSLADNGKI 55 (226)
Q Consensus 8 a~~~Il~y~~~~nrPys~~di~~~l~~~~v~K~~v~k~L~~Lv~~g~i 55 (226)
|...-|.||- .|++|-.+|.+-|...|++...|..+|+.|.+.|.|
T Consensus 63 a~~~AL~~Ls--~r~rSe~Elr~KL~~k~~~~~~Ie~vI~~L~e~~yl 108 (283)
T PRK14134 63 CKGYALKYIE--KSYKTEKQIKEKLYLKEYDEDAVNRVIRFLKEYNFI 108 (283)
T ss_pred HHHHHHHHhc--cCcchHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCC
No 499
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=51.14 E-value=93 Score=23.45 Aligned_cols=46 Identities=35% Similarity=0.356 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 027236 83 QMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTLEQIREKEAQL 128 (226)
Q Consensus 83 ~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~~el~~~i~~L 128 (226)
+..++.+-|++++.+|......|+.|-.-|+...++++|..--.++
T Consensus 64 AVREEVe~Lk~qI~eL~er~~~Le~EN~lLk~~~spe~L~ql~~~~ 109 (123)
T KOG4797|consen 64 AVREEVEVLKEQIRELEERNSALERENSLLKTLASPEQLAQLPAQL 109 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHhc
No 500
>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=51.07 E-value=79 Score=28.86 Aligned_cols=63 Identities=29% Similarity=0.488 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCH--HHHHHHHHHHHHHHHHHHHHHHHhh
Q 027236 81 LNQMKEENAKLQEQLEEQRKAISKLEGEIRTLQSNLTL--EQIREKEAQLVKEVKEMENKLAKLR 143 (226)
Q Consensus 81 ~~~l~~~i~~l~~~l~~l~~~~k~l~~el~~l~~~~t~--~el~~~i~~L~~e~~~l~~kL~~l~ 143 (226)
+..+..+..+....+..+......+...+..+...+.. ..+...+..++..++.|++|+..|+
T Consensus 324 L~~lH~~a~~~~~~l~~le~~q~~l~~~l~~~~~~L~~ve~~~~~N~~~i~~n~~~le~Ri~~L~ 388 (388)
T PF04912_consen 324 LKSLHEEAAEFSQTLSELESQQSDLQSQLKKWEELLNKVEEKFKENMETIEKNVKKLEERIAKLQ 388 (388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Done!