Query psy7115
Match_columns 132
No_of_seqs 147 out of 1373
Neff 5.7
Searched_HMMs 46136
Date Fri Aug 16 18:31:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7115.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7115hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05207 zf-CSL: CSL zinc fing 99.8 2.6E-21 5.6E-26 123.9 4.9 55 37-95 1-55 (55)
2 KOG2923|consensus 99.8 1.3E-20 2.7E-25 123.5 3.6 61 34-98 2-62 (67)
3 COG5216 Uncharacterized conser 99.7 8.3E-17 1.8E-21 104.6 4.7 60 34-97 2-61 (67)
4 KOG0712|consensus 98.9 9.3E-10 2E-14 92.5 4.4 32 1-32 43-74 (337)
5 COG0484 DnaJ DnaJ-class molecu 98.9 1.2E-09 2.6E-14 92.9 3.2 30 1-30 46-75 (371)
6 PTZ00037 DnaJ_C chaperone prot 98.6 3.4E-08 7.5E-13 85.1 2.9 88 1-89 66-159 (421)
7 PRK14298 chaperone protein Dna 98.5 4.8E-08 1E-12 82.8 2.6 27 1-27 46-72 (377)
8 KOG0715|consensus 98.4 2.1E-07 4.5E-12 76.7 3.4 28 1-28 84-111 (288)
9 KOG0713|consensus 98.3 4.2E-07 9.1E-12 76.4 2.5 30 1-30 58-87 (336)
10 TIGR02349 DnaJ_bact chaperone 98.3 7.6E-07 1.6E-11 74.5 4.0 27 1-27 41-67 (354)
11 PRK14296 chaperone protein Dna 98.1 1.3E-06 2.9E-11 74.0 1.8 27 1-27 45-71 (372)
12 PRK14288 chaperone protein Dna 98.1 1.9E-06 4.1E-11 72.9 2.1 27 1-27 45-71 (369)
13 PRK14279 chaperone protein Dna 98.0 2.9E-06 6.3E-11 72.4 2.0 26 1-26 51-76 (392)
14 KOG0718|consensus 98.0 4.1E-06 9E-11 73.4 2.3 30 1-30 54-83 (546)
15 PRK14286 chaperone protein Dna 97.9 5.2E-06 1.1E-10 70.3 2.1 27 1-27 46-72 (372)
16 PRK14287 chaperone protein Dna 97.9 5.2E-06 1.1E-10 70.3 2.0 27 1-27 45-71 (371)
17 PRK14282 chaperone protein Dna 97.8 6.5E-06 1.4E-10 69.6 1.7 27 1-27 47-73 (369)
18 PRK14291 chaperone protein Dna 97.8 7.3E-06 1.6E-10 69.6 1.9 27 1-27 44-70 (382)
19 PRK14276 chaperone protein Dna 97.8 7.3E-06 1.6E-10 69.5 1.7 27 1-27 45-71 (380)
20 PF00226 DnaJ: DnaJ domain; I 97.8 1E-05 2.2E-10 51.4 2.0 22 1-22 43-64 (64)
21 PRK14283 chaperone protein Dna 97.8 8.1E-06 1.8E-10 69.2 1.9 27 1-27 46-72 (378)
22 PRK14277 chaperone protein Dna 97.8 9.7E-06 2.1E-10 68.9 2.1 27 1-27 47-73 (386)
23 PRK14280 chaperone protein Dna 97.8 1.1E-05 2.3E-10 68.5 1.9 27 1-27 45-71 (376)
24 PRK14299 chaperone protein Dna 97.8 1.2E-05 2.5E-10 66.1 2.0 27 1-27 45-71 (291)
25 PRK14285 chaperone protein Dna 97.8 1.1E-05 2.3E-10 68.3 1.6 27 1-27 45-71 (365)
26 PRK14297 chaperone protein Dna 97.7 1E-05 2.2E-10 68.6 0.9 27 1-27 46-72 (380)
27 PRK14301 chaperone protein Dna 97.7 1.3E-05 2.9E-10 67.9 1.3 27 1-27 46-72 (373)
28 PRK14284 chaperone protein Dna 97.7 1.8E-05 3.8E-10 67.5 2.0 27 1-27 43-69 (391)
29 PRK14278 chaperone protein Dna 97.7 1.4E-05 3E-10 67.9 1.2 26 1-26 44-69 (378)
30 PRK14294 chaperone protein Dna 97.7 2.1E-05 4.5E-10 66.4 2.1 27 1-27 46-72 (366)
31 PRK14295 chaperone protein Dna 97.6 2.5E-05 5.5E-10 66.6 2.1 23 1-23 51-73 (389)
32 PRK14281 chaperone protein Dna 97.6 2.1E-05 4.6E-10 67.1 1.5 27 1-27 45-71 (397)
33 KOG0691|consensus 97.6 3.3E-05 7.2E-10 64.2 2.5 29 1-29 47-75 (296)
34 KOG0716|consensus 97.5 4.5E-05 9.8E-10 62.8 2.3 29 1-29 73-101 (279)
35 PRK10767 chaperone protein Dna 97.5 3.5E-05 7.7E-10 65.0 1.7 27 1-27 46-72 (371)
36 PRK10266 curved DNA-binding pr 97.5 4.9E-05 1.1E-09 62.7 2.2 26 1-26 45-70 (306)
37 PRK14290 chaperone protein Dna 97.5 3.5E-05 7.5E-10 65.1 1.0 27 1-27 46-72 (365)
38 PRK14289 chaperone protein Dna 97.5 5.5E-05 1.2E-09 64.2 2.2 27 1-27 47-73 (386)
39 PRK14292 chaperone protein Dna 97.5 4.1E-05 9E-10 64.6 1.4 27 1-27 43-69 (371)
40 PRK14293 chaperone protein Dna 97.5 5.4E-05 1.2E-09 64.1 1.7 26 1-26 44-69 (374)
41 PRK14300 chaperone protein Dna 97.5 5.3E-05 1.1E-09 64.2 1.6 27 1-27 44-70 (372)
42 PF05207 zf-CSL: CSL zinc fing 97.3 0.00027 5.8E-09 45.1 3.0 51 65-130 3-53 (55)
43 PTZ00341 Ring-infected erythro 97.3 0.00012 2.7E-09 69.0 1.9 28 1-28 614-641 (1136)
44 KOG0717|consensus 97.2 0.00018 4E-09 63.0 2.5 28 1-28 51-78 (508)
45 PRK01356 hscB co-chaperone Hsc 97.1 0.00033 7.1E-09 53.6 2.8 26 2-27 50-75 (166)
46 PRK05014 hscB co-chaperone Hsc 97.1 0.00029 6.3E-09 54.0 2.3 27 2-28 51-77 (171)
47 PRK00294 hscB co-chaperone Hsc 97.1 0.00036 7.9E-09 53.8 2.4 27 2-28 54-80 (173)
48 TIGR00714 hscB Fe-S protein as 97.0 0.00037 8E-09 52.8 2.2 26 2-27 39-64 (157)
49 KOG0719|consensus 96.9 0.00036 7.9E-09 56.7 1.5 28 1-28 58-85 (264)
50 COG2214 CbpA DnaJ-class molecu 96.8 0.00065 1.4E-08 50.3 1.9 25 1-25 49-73 (237)
51 TIGR03835 termin_org_DnaJ term 96.7 0.00091 2E-08 62.0 2.1 28 1-28 43-70 (871)
52 PRK03578 hscB co-chaperone Hsc 96.6 0.0015 3.2E-08 50.5 2.8 27 2-28 56-82 (176)
53 COG5269 ZUO1 Ribosome-associat 96.2 0.0021 4.7E-08 53.7 1.6 25 2-26 91-115 (379)
54 KOG0720|consensus 96.1 0.0046 1E-07 54.4 2.9 28 2-29 277-304 (490)
55 KOG0714|consensus 95.9 0.0017 3.8E-08 50.4 -0.4 26 1-26 46-71 (306)
56 PHA03102 Small T antigen; Revi 95.9 0.0022 4.9E-08 48.7 0.0 28 1-28 45-72 (153)
57 PRK01773 hscB co-chaperone Hsc 95.8 0.0064 1.4E-07 46.9 2.3 24 3-26 53-76 (173)
58 TIGR02098 MJ0042_CXXC MJ0042 f 95.6 0.02 4.3E-07 33.1 3.5 34 55-92 3-37 (38)
59 PF13717 zinc_ribbon_4: zinc-r 93.2 0.082 1.8E-06 30.8 2.2 30 56-89 4-34 (36)
60 KOG0550|consensus 93.0 0.049 1.1E-06 47.9 1.5 25 1-25 416-440 (486)
61 KOG0624|consensus 92.9 0.051 1.1E-06 47.2 1.5 24 1-24 439-462 (504)
62 COG1996 RPC10 DNA-directed RNA 91.7 0.31 6.8E-06 30.5 3.6 35 52-95 4-39 (49)
63 PF13719 zinc_ribbon_5: zinc-r 91.5 0.22 4.8E-06 29.0 2.6 32 55-90 3-35 (37)
64 KOG3192|consensus 90.4 0.17 3.7E-06 39.0 1.8 26 3-28 59-84 (168)
65 PF05180 zf-DNL: DNL zinc fing 90.1 0.33 7.2E-06 32.2 2.7 35 53-91 3-40 (66)
66 smart00834 CxxC_CXXC_SSSS Puta 88.3 0.7 1.5E-05 26.5 3.0 32 52-89 3-35 (41)
67 KOG0722|consensus 87.1 0.27 5.8E-06 41.0 0.9 28 1-28 74-101 (329)
68 TIGR01206 lysW lysine biosynth 86.9 1.4 3E-05 28.0 4.0 36 55-97 3-39 (54)
69 smart00659 RPOLCX RNA polymera 85.4 1.8 3.9E-05 26.2 3.8 31 54-94 2-33 (44)
70 PF09723 Zn-ribbon_8: Zinc rib 83.9 1.6 3.5E-05 25.9 3.1 31 52-88 3-34 (42)
71 PHA02624 large T antigen; Prov 83.7 0.53 1.1E-05 43.2 1.2 21 1-21 51-71 (647)
72 KOG0721|consensus 82.6 1 2.2E-05 36.5 2.3 27 2-28 142-168 (230)
73 PF07709 SRR: Seven Residue Re 81.8 1.1 2.5E-05 20.8 1.4 13 1-13 2-14 (14)
74 TIGR02605 CxxC_CxxC_SSSS putat 81.7 1.6 3.4E-05 26.5 2.5 37 52-94 3-42 (52)
75 KOG2923|consensus 76.1 2.4 5.1E-05 28.1 2.1 16 115-130 42-57 (67)
76 PRK00398 rpoP DNA-directed RNA 76.0 5.8 0.00013 23.7 3.7 29 54-91 3-32 (46)
77 COG5216 Uncharacterized conser 73.6 3.6 7.9E-05 27.0 2.5 38 78-130 20-57 (67)
78 KOG3277|consensus 72.3 3.7 8E-05 31.7 2.6 37 50-90 75-114 (165)
79 PF14353 CpXC: CpXC protein 69.7 6.7 0.00014 28.0 3.4 39 56-94 3-52 (128)
80 PF05502 Dynactin_p62: Dynacti 68.1 8.4 0.00018 34.1 4.4 70 52-125 24-94 (483)
81 PF09855 DUF2082: Nucleic-acid 65.8 6.6 0.00014 25.7 2.5 35 55-89 1-45 (64)
82 COG5407 SEC63 Preprotein trans 64.2 4.5 9.7E-05 36.4 1.9 29 1-29 145-173 (610)
83 PF05280 FlhC: Flagellar trans 60.9 6.7 0.00014 30.4 2.1 35 51-92 131-166 (175)
84 COG3364 Zn-ribbon containing p 60.1 3.1 6.8E-05 30.1 0.1 25 54-87 2-27 (112)
85 PF09845 DUF2072: Zn-ribbon co 59.8 3.3 7.2E-05 30.9 0.3 26 55-89 2-28 (131)
86 COG1076 DjlA DnaJ-domain-conta 58.7 3.6 7.9E-05 31.2 0.3 25 2-26 51-75 (174)
87 PF03604 DNA_RNApol_7kD: DNA d 57.4 7.1 0.00015 22.2 1.3 27 55-91 1-28 (32)
88 smart00531 TFIIE Transcription 55.9 11 0.00025 27.8 2.6 39 51-92 96-135 (147)
89 COG1579 Zn-ribbon protein, pos 54.8 4.6 0.0001 32.9 0.3 37 57-96 198-234 (239)
90 PRK12722 transcriptional activ 51.3 9.7 0.00021 30.0 1.6 33 52-91 132-165 (187)
91 COG4888 Uncharacterized Zn rib 50.2 54 0.0012 23.5 5.1 36 54-93 22-59 (104)
92 PRK12860 transcriptional activ 50.0 10 0.00023 29.8 1.6 34 51-91 131-165 (189)
93 PF01667 Ribosomal_S27e: Ribos 49.6 27 0.00058 22.3 3.2 32 78-127 5-36 (55)
94 PRK00762 hypA hydrogenase nick 49.3 13 0.00029 26.9 2.0 43 53-101 69-112 (124)
95 PF13831 PHD_2: PHD-finger; PD 49.3 16 0.00034 21.0 1.9 19 78-96 2-20 (36)
96 PF08271 TF_Zn_Ribbon: TFIIB z 47.4 28 0.00062 20.3 2.9 29 55-91 1-30 (43)
97 PF00684 DnaJ_CXXCXGXG: DnaJ c 47.2 26 0.00057 22.3 3.0 39 53-93 14-54 (66)
98 PTZ00083 40S ribosomal protein 46.5 35 0.00076 23.7 3.6 16 78-94 33-48 (85)
99 PF07295 DUF1451: Protein of u 45.1 16 0.00035 27.4 2.0 27 54-89 112-139 (146)
100 PLN00209 ribosomal protein S27 44.5 39 0.00085 23.5 3.6 16 78-94 34-49 (86)
101 smart00440 ZnF_C2C2 C2C2 Zinc 42.0 39 0.00084 19.7 2.9 11 78-88 26-36 (40)
102 PF05907 DUF866: Eukaryotic pr 41.3 62 0.0013 24.5 4.6 15 78-92 62-76 (161)
103 PRK06260 threonine synthase; V 41.1 18 0.00039 30.7 1.9 32 53-95 2-34 (397)
104 KOG0724|consensus 40.6 15 0.00033 30.2 1.3 24 2-25 39-62 (335)
105 PF12662 cEGF: Complement Clr- 40.2 9.8 0.00021 20.3 0.1 15 54-68 1-15 (24)
106 PRK14282 chaperone protein Dna 39.4 33 0.00072 29.0 3.2 34 56-91 171-206 (369)
107 COG2331 Uncharacterized protei 37.6 2.9 6.3E-05 28.7 -2.8 33 51-89 9-42 (82)
108 PRK03824 hypA hydrogenase nick 37.3 48 0.001 24.3 3.4 48 53-102 69-128 (135)
109 PF08190 PIH1: pre-RNA process 36.3 28 0.00061 28.2 2.2 20 12-31 1-20 (328)
110 PF09297 zf-NADH-PPase: NADH p 34.8 33 0.00072 18.8 1.7 26 55-89 4-30 (32)
111 PRK14810 formamidopyrimidine-D 33.2 1E+02 0.0022 25.1 5.0 27 54-87 244-271 (272)
112 PF11331 DUF3133: Protein of u 31.4 39 0.00084 20.8 1.7 15 78-92 29-43 (46)
113 PF00880 Nebulin: Nebulin repe 31.3 46 0.001 17.6 1.9 23 2-24 5-27 (29)
114 TIGR00373 conserved hypothetic 31.1 29 0.00063 26.1 1.4 31 52-90 107-138 (158)
115 COG1326 Uncharacterized archae 30.3 29 0.00063 27.7 1.3 35 52-89 4-39 (201)
116 PRK06266 transcription initiat 30.1 24 0.00052 27.2 0.8 31 52-90 115-146 (178)
117 PRK00415 rps27e 30S ribosomal 29.5 81 0.0018 20.4 3.1 18 77-95 8-25 (59)
118 PRK14277 chaperone protein Dna 29.2 70 0.0015 27.3 3.6 35 55-91 173-209 (386)
119 cd03031 GRX_GRX_like Glutaredo 29.1 71 0.0015 23.8 3.2 33 78-124 108-140 (147)
120 PF13453 zf-TFIIB: Transcripti 28.7 66 0.0014 18.5 2.4 10 78-87 17-26 (41)
121 KOG1779|consensus 28.4 1.3E+02 0.0028 20.8 4.0 38 51-93 29-66 (84)
122 PRK10141 DNA-binding transcrip 28.2 49 0.0011 23.8 2.1 25 2-26 3-27 (117)
123 PHA00616 hypothetical protein 27.9 13 0.00028 22.7 -0.9 10 55-64 2-12 (44)
124 PRK14276 chaperone protein Dna 26.8 53 0.0012 27.9 2.4 10 3-12 19-28 (380)
125 PF11833 DUF3353: Protein of u 26.5 84 0.0018 24.6 3.3 27 2-28 6-41 (194)
126 TIGR03844 cysteate_syn cysteat 26.4 54 0.0012 28.2 2.4 31 53-95 1-32 (398)
127 PRK07591 threonine synthase; V 26.3 52 0.0011 28.3 2.3 32 52-95 16-48 (421)
128 KOG3053|consensus 26.0 22 0.00047 29.7 -0.1 39 52-94 37-85 (293)
129 cd08874 START_STARD9-like C-te 25.2 44 0.00096 26.2 1.5 25 5-29 57-81 (205)
130 PRK13945 formamidopyrimidine-D 25.2 2.1E+02 0.0047 23.2 5.6 26 55-87 255-281 (282)
131 KOG3960|consensus 24.6 34 0.00073 28.5 0.8 18 2-19 130-152 (284)
132 COG5061 ERO1 Oxidoreductin, en 24.5 34 0.00073 29.9 0.8 18 79-96 310-327 (425)
133 PRK00464 nrdR transcriptional 24.4 1.1E+02 0.0025 23.1 3.6 9 90-98 49-57 (154)
134 TIGR00100 hypA hydrogenase nic 24.2 70 0.0015 22.8 2.3 36 53-101 69-106 (115)
135 COG3427 Carbon monoxide dehydr 24.2 57 0.0012 24.7 1.9 17 4-20 12-28 (146)
136 KOG1150|consensus 23.6 94 0.002 25.3 3.1 26 2-27 97-122 (250)
137 PF12840 HTH_20: Helix-turn-he 23.6 85 0.0018 19.2 2.4 18 7-24 2-19 (61)
138 PF01155 HypA: Hydrogenase exp 23.6 72 0.0016 22.5 2.2 36 53-101 69-106 (113)
139 PF04502 DUF572: Family of unk 23.0 1.4E+02 0.003 25.0 4.1 52 53-104 39-102 (324)
140 PRK14283 chaperone protein Dna 22.9 89 0.0019 26.5 3.1 34 55-90 164-199 (378)
141 PRK14280 chaperone protein Dna 22.8 92 0.002 26.5 3.1 10 3-12 19-28 (376)
142 TIGR02642 phage_xxxx uncharact 22.8 61 0.0013 25.4 1.9 35 54-100 99-135 (186)
143 PF01096 TFIIS_C: Transcriptio 22.5 1.5E+02 0.0032 17.0 3.1 10 78-87 26-35 (39)
144 PRK14281 chaperone protein Dna 22.3 1.1E+02 0.0024 26.2 3.6 35 56-92 181-217 (397)
145 PTZ00037 DnaJ_C chaperone prot 22.1 90 0.002 27.2 3.0 37 55-93 167-205 (421)
146 PRK14278 chaperone protein Dna 22.0 1.1E+02 0.0023 26.2 3.3 36 55-92 157-194 (378)
147 PF02754 CCG: Cysteine-rich do 22.0 24 0.00052 22.0 -0.5 15 77-91 71-85 (85)
148 cd08914 START_STARD15-like Lip 21.6 50 0.0011 26.8 1.2 25 5-29 90-114 (236)
149 PRK14296 chaperone protein Dna 21.5 81 0.0018 26.8 2.5 10 3-12 19-28 (372)
150 cd08876 START_1 Uncharacterize 21.5 60 0.0013 24.1 1.6 25 5-29 53-77 (195)
151 PF06975 DUF1299: Protein of u 21.4 26 0.00057 21.4 -0.3 12 5-16 9-20 (47)
152 PRK14287 chaperone protein Dna 20.9 88 0.0019 26.6 2.6 10 3-12 19-28 (371)
153 PF06397 Desulfoferrod_N: Desu 20.8 93 0.002 18.1 1.9 15 54-68 6-21 (36)
154 cd07812 SRPBCC START/RHO_alpha 20.8 66 0.0014 20.6 1.5 21 5-25 11-31 (141)
155 KOG3507|consensus 20.1 65 0.0014 21.1 1.3 30 51-90 17-47 (62)
156 PRK14293 chaperone protein Dna 20.1 1.4E+02 0.0031 25.3 3.7 35 56-92 162-198 (374)
157 PF04216 FdhE: Protein involve 20.0 71 0.0015 26.0 1.8 18 78-95 236-253 (290)
158 PRK11032 hypothetical protein; 20.0 75 0.0016 24.3 1.8 26 54-88 124-150 (160)
No 1
>PF05207 zf-CSL: CSL zinc finger; InterPro: IPR007872 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a probable zinc binding motif that contains four cysteines and may chelate zinc, known as the DPH-type after the diphthamide (DPH) biosynthesis protein in which it was first characterised, including the proteins DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ IPR001623 from INTERPRO domain. Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death []. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the conserved motif of the final cysteine) zinc finger [, ]. The function of this motif is unknown. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2L6L_A 1WGE_A 2JR7_A 1YOP_A 1YWS_A.
Probab=99.84 E-value=2.6e-21 Score=123.91 Aligned_cols=55 Identities=44% Similarity=0.947 Sum_probs=48.5
Q ss_pred ccccccCcEEcCccceEeeeccCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEec
Q psy7115 37 KSVSLSDMEHKGESQMFTYPCRCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITAR 95 (132)
Q Consensus 37 d~v~LdDm~~~e~~~~~~~~CRCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~ 95 (132)
|+|+|+||.++++.+.|+|+||||+.|.|++++|+++ ..+|+|++|||||+|+|+
T Consensus 1 dev~l~d~~~~~~~~~~~y~CRCG~~f~i~e~~l~~~----~~iv~C~sCSL~I~V~~~ 55 (55)
T PF05207_consen 1 DEVSLDDMEFDEEEGVYSYPCRCGGEFEISEEDLEEG----EVIVQCDSCSLWIRVNYD 55 (55)
T ss_dssp -EEETTTSEEETTTTEEEEEETTSSEEEEEHHHHHCT------EEEETTTTEEEEEE--
T ss_pred CeEEhhhceecCCCCEEEEcCCCCCEEEEcchhccCc----CEEEECCCCccEEEEEeC
Confidence 5789999999998889999999999999999999998 899999999999999984
No 2
>KOG2923|consensus
Probab=99.81 E-value=1.3e-20 Score=123.54 Aligned_cols=61 Identities=31% Similarity=0.683 Sum_probs=57.0
Q ss_pred cccccccccCcEEcCccceEeeeccCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEecCCc
Q psy7115 34 NIYKSVSLSDMEHKGESQMFTYPCRCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITARCGA 98 (132)
Q Consensus 34 ~~~d~v~LdDm~~~e~~~~~~~~CRCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~~~e 98 (132)
.++++|.|+||+|+++++.|+|||+||+.|+|++++|++| ..+++|++|||.|+|+|+..+
T Consensus 2 ~~ydeVeiedfe~~~e~~~y~yPCpCGDrf~It~edL~~g----e~Va~CpsCSL~I~ViYd~ed 62 (67)
T KOG2923|consen 2 SFYDEVEIEDFEFDEENQTYYYPCPCGDRFQITLEDLENG----EDVARCPSCSLIIRVIYDKED 62 (67)
T ss_pred cccceEEeecceeccCCCeEEcCCCCCCeeeecHHHHhCC----CeeecCCCceEEEEEEeCHHH
Confidence 4679999999999999999999999999999999999999 899999999999999997554
No 3
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=99.66 E-value=8.3e-17 Score=104.57 Aligned_cols=60 Identities=28% Similarity=0.711 Sum_probs=56.1
Q ss_pred cccccccccCcEEcCccceEeeeccCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEecCC
Q psy7115 34 NIYKSVSLSDMEHKGESQMFTYPCRCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITARCG 97 (132)
Q Consensus 34 ~~~d~v~LdDm~~~e~~~~~~~~CRCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~~~ 97 (132)
.++++|.++||.|..++..|+|||.||+.|+|++++|.+| ..+..||+|||-|.|+|+.+
T Consensus 2 sfYDEieiedftf~~e~~~ftyPCPCGDRFeIsLeDl~~G----E~VArCPSCSLiv~vvyd~e 61 (67)
T COG5216 2 SFYDEIEIEDFTFSREEKTFTYPCPCGDRFEISLEDLRNG----EVVARCPSCSLIVCVVYDAE 61 (67)
T ss_pred CccceeEeeeeEEcCCCceEEecCCCCCEeEEEHHHhhCC----ceEEEcCCceEEEEEEecHH
Confidence 4789999999999998899999999999999999999999 89999999999999999643
No 4
>KOG0712|consensus
Probab=98.92 E-value=9.3e-10 Score=92.50 Aligned_cols=32 Identities=25% Similarity=0.426 Sum_probs=28.8
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhhhhhc
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQQQTH 32 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~~~~~ 32 (132)
||++|.+||+|||||+||+.||+++.+..+.+
T Consensus 43 kfkei~~AyevLsd~ekr~~yD~~g~~~~~~g 74 (337)
T KOG0712|consen 43 KFKEISQAYEVLSDPEKREIYDQYGEEGLQGG 74 (337)
T ss_pred HHHHHHHHHHHhcCHHHHHHHHhhhhhhhccc
Confidence 79999999999999999999999998776443
No 5
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=1.2e-09 Score=92.86 Aligned_cols=30 Identities=30% Similarity=0.459 Sum_probs=27.3
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQQQ 30 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~~~ 30 (132)
||++|++||||||||+||++||+.+.....
T Consensus 46 KFKEI~eAYEVLsD~eKRa~YD~fG~~~~~ 75 (371)
T COG0484 46 KFKEINEAYEVLSDPEKRAAYDQFGHAGFK 75 (371)
T ss_pred HHHHHHHHHHHhCCHHHHHHhhccCccccc
Confidence 699999999999999999999998887654
No 6
>PTZ00037 DnaJ_C chaperone protein; Provisional
Probab=98.56 E-value=3.4e-08 Score=85.07 Aligned_cols=88 Identities=17% Similarity=0.179 Sum_probs=49.6
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhhhhhcccccccccccCcEEcCccceEeeeccCCCe---EEEeeccccCCCCCC
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQQQTHMNIYKSVSLSDMEHKGESQMFTYPCRCGAE---FCIEEQDTEGDGSDD 77 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~~~~~~~~~d~v~LdDm~~~e~~~~~~~~CRCGg~---f~It~edL~~G~~~~ 77 (132)
+|++|++||+|||||+||+.||..+......+....+..++.+..|+.+. .-..+-|-.+. +.|++++++.|....
T Consensus 66 ~F~~i~~AYevLsD~~kR~~YD~~G~~~~~~~~~~~d~~d~f~~~Fggg~-~~~~~~rg~di~~~l~vtLee~~~G~~~~ 144 (421)
T PTZ00037 66 KFKEISRAYEVLSDPEKRKIYDEYGEEGLEGGEQPADASDLFDLIFGGGR-KPGGKKRGEDIVSHLKVTLEQIYNGAMRK 144 (421)
T ss_pred HHHHHHHHHHHhccHHHHHHHhhhcchhcccCCCCcchhhhHHHhhcccc-ccccccCCCCEEEEeeeeHHHHhCCCceE
Confidence 59999999999999999999999776432111111122233333343211 00112232232 778899999886421
Q ss_pred ---ceEEECCCCCce
Q psy7115 78 ---NILIACDTCSLL 89 (132)
Q Consensus 78 ---~~vv~C~sCSL~ 89 (132)
...+.|+.|+..
T Consensus 145 i~~~r~~~C~~C~G~ 159 (421)
T PTZ00037 145 LAINKDVICANCEGH 159 (421)
T ss_pred EEeeccccccccCCC
Confidence 123455555443
No 7
>PRK14298 chaperone protein DnaJ; Provisional
Probab=98.52 E-value=4.8e-08 Score=82.84 Aligned_cols=27 Identities=30% Similarity=0.481 Sum_probs=24.6
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||+.+..
T Consensus 46 ~f~~i~~Ay~vL~d~~kR~~YD~~G~~ 72 (377)
T PRK14298 46 KFKEISEAYAVLSDAEKRAQYDRFGHA 72 (377)
T ss_pred HHHHHHHHHHHhcchHhhhhhhhcCcc
Confidence 599999999999999999999997653
No 8
>KOG0715|consensus
Probab=98.40 E-value=2.1e-07 Score=76.73 Aligned_cols=28 Identities=43% Similarity=0.633 Sum_probs=26.5
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
+|++|.+|||||+|+++|++||..+..+
T Consensus 84 kF~eI~~AYEiLsd~eKR~~YD~~~~~~ 111 (288)
T KOG0715|consen 84 KFKEISEAYEILSDEEKRQEYDVYGLEQ 111 (288)
T ss_pred HHHHHHHHHHHhcCHHHHHHHHHhhhhc
Confidence 6999999999999999999999999875
No 9
>KOG0713|consensus
Probab=98.27 E-value=4.2e-07 Score=76.40 Aligned_cols=30 Identities=30% Similarity=0.466 Sum_probs=27.3
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQQQ 30 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~~~ 30 (132)
+|++|+.||||||||++|+.||..++....
T Consensus 58 ~F~~in~AYEVLsDpekRk~YD~~GEegL~ 87 (336)
T KOG0713|consen 58 KFKEINAAYEVLSDPEKRKHYDTYGEEGLK 87 (336)
T ss_pred HHHHHHHHHHHhcCHHHHHHHHhhhHhhhc
Confidence 599999999999999999999999986644
No 10
>TIGR02349 DnaJ_bact chaperone protein DnaJ. This model represents bacterial forms of DnaJ, part of the DnaK-DnaJ-GrpE chaperone system. The three components typically are encoded by consecutive genes. DnaJ homologs occur in many genomes, typically not near DnaK and GrpE-like genes; most such genes are not included by this family. Eukaryotic (mitochondrial and chloroplast) forms are not included in the scope of this family.
Probab=98.27 E-value=7.6e-07 Score=74.53 Aligned_cols=27 Identities=33% Similarity=0.530 Sum_probs=24.6
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||..+..
T Consensus 41 ~f~~i~~Ay~vL~d~~~R~~yd~~g~~ 67 (354)
T TIGR02349 41 KFKEINEAYEVLSDPEKRAQYDQFGHA 67 (354)
T ss_pred HHHHHHHHHHHhhChHHHHhhhhcccc
Confidence 589999999999999999999997654
No 11
>PRK14296 chaperone protein DnaJ; Provisional
Probab=98.09 E-value=1.3e-06 Score=73.99 Aligned_cols=27 Identities=33% Similarity=0.463 Sum_probs=24.8
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+|||||+||+.||+.+..
T Consensus 45 ~F~~i~~AyevLsD~~KR~~YD~~G~~ 71 (372)
T PRK14296 45 KMVEINEAADVLLDKDKRKQYDQFGHA 71 (372)
T ss_pred HHHHHHHHHHHhcCHHHhhhhhhccch
Confidence 599999999999999999999997654
No 12
>PRK14288 chaperone protein DnaJ; Provisional
Probab=98.06 E-value=1.9e-06 Score=72.92 Aligned_cols=27 Identities=44% Similarity=0.619 Sum_probs=24.8
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+|||||++|+.||+.+..
T Consensus 45 ~f~~i~~AYevLsd~~kR~~YD~~G~~ 71 (369)
T PRK14288 45 KFKLINEAYGVLSDEKKRALYDRYGKK 71 (369)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHhccc
Confidence 599999999999999999999997754
No 13
>PRK14279 chaperone protein DnaJ; Provisional
Probab=97.99 E-value=2.9e-06 Score=72.38 Aligned_cols=26 Identities=31% Similarity=0.486 Sum_probs=24.2
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLL 26 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~ 26 (132)
+|++|++||+|||||+||+.||+++.
T Consensus 51 ~f~~i~~Ay~vLsD~~KR~~YD~~G~ 76 (392)
T PRK14279 51 RFKAVSEAHDVLSDPAKRKEYDETRR 76 (392)
T ss_pred HHHHHHHHHHHhcchhhhhHHHHhhh
Confidence 59999999999999999999999864
No 14
>KOG0718|consensus
Probab=97.95 E-value=4.1e-06 Score=73.38 Aligned_cols=30 Identities=23% Similarity=0.468 Sum_probs=27.4
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQQQ 30 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~~~ 30 (132)
+|+.|++||||||||.+|+.||..+.+...
T Consensus 54 ~F~~i~~AyEVLsDp~kRaIYD~~G~qGL~ 83 (546)
T KOG0718|consen 54 KFQRIQRAYEVLSDPQKRAIYDNYGEQGLK 83 (546)
T ss_pred HHHHHHHHHHHhcChHHHHHHHHhhhcccc
Confidence 599999999999999999999999987644
No 15
>PRK14286 chaperone protein DnaJ; Provisional
Probab=97.91 E-value=5.2e-06 Score=70.34 Aligned_cols=27 Identities=33% Similarity=0.524 Sum_probs=24.9
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+|||||++|+.||+.+..
T Consensus 46 ~f~~i~~Ay~vL~d~~kR~~YD~~G~~ 72 (372)
T PRK14286 46 KFKEATEAYEILRDPKKRQAYDQFGKA 72 (372)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHhCch
Confidence 599999999999999999999997754
No 16
>PRK14287 chaperone protein DnaJ; Provisional
Probab=97.90 E-value=5.2e-06 Score=70.30 Aligned_cols=27 Identities=22% Similarity=0.433 Sum_probs=24.8
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||++|+.||+++..
T Consensus 45 ~f~~i~~Ay~~L~d~~kR~~YD~~G~~ 71 (371)
T PRK14287 45 KFKEVKEAYDTLSDPQKKAHYDQFGHT 71 (371)
T ss_pred HHHHHHHHHHHhCcHhHHHHHHhhCCc
Confidence 599999999999999999999997754
No 17
>PRK14282 chaperone protein DnaJ; Provisional
Probab=97.85 E-value=6.5e-06 Score=69.57 Aligned_cols=27 Identities=30% Similarity=0.543 Sum_probs=24.6
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+|||||++|+.||..+..
T Consensus 47 ~f~~i~~Ay~vL~d~~kR~~YD~~g~~ 73 (369)
T PRK14282 47 KFKEIQEAYEVLSDPQKRAMYDRFGYV 73 (369)
T ss_pred HHHHHHHHHHHhcChhhHHHHhhcCcc
Confidence 599999999999999999999997653
No 18
>PRK14291 chaperone protein DnaJ; Provisional
Probab=97.84 E-value=7.3e-06 Score=69.60 Aligned_cols=27 Identities=41% Similarity=0.641 Sum_probs=24.9
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+|||||.+|+.||+++..
T Consensus 44 ~f~~i~~Ay~vLsd~~kR~~YD~~g~~ 70 (382)
T PRK14291 44 KFKEINEAYQVLSDPEKRKLYDQFGHA 70 (382)
T ss_pred HHHHHHHHHHHhcCHHHHHHHhhhccc
Confidence 599999999999999999999997764
No 19
>PRK14276 chaperone protein DnaJ; Provisional
Probab=97.83 E-value=7.3e-06 Score=69.55 Aligned_cols=27 Identities=22% Similarity=0.440 Sum_probs=24.7
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||++|+.||+++..
T Consensus 45 ~f~~i~~Ay~vL~d~~kR~~YD~~G~~ 71 (380)
T PRK14276 45 KYKEVQEAYETLSDPQKRAAYDQYGAA 71 (380)
T ss_pred HHHHHHHHHHHhcCHhhhhhHhhcCCc
Confidence 599999999999999999999997754
No 20
>PF00226 DnaJ: DnaJ domain; InterPro: IPR001623 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Such a structure is shown in the following schematic representation: +------------+-+-------+-----+-----------+--------------------------------+ | N-terminal | | Gly-R | | CXXCXGXG | C-terminal | +------------+-+-------+-----+-----------+--------------------------------+ It is thought that the 'J' domain of DnaJ mediates the interaction with the dnaK protein and consists of four helices, the second of which has a charged surface that includes at least one pair of basic residues that are essential for interaction with the ATPase domain of Hsp70. The J- and CRR-domains are found in many prokaryotic and eukaryotic proteins [], either together or separately. In yeast, J-domains have been classified into 3 groups; the class III proteins are functionally distinct and do not appear to act as molecular chaperones []. ; GO: 0031072 heat shock protein binding; PDB: 2GUZ_C 2L6L_A 1HDJ_A 2EJ7_A 1FPO_C 2CUG_A 2QSA_A 2OCH_A 3BVO_B 3APQ_A ....
Probab=97.83 E-value=1e-05 Score=51.43 Aligned_cols=22 Identities=45% Similarity=0.841 Sum_probs=20.7
Q ss_pred ChhhHHHHHHhcCChhHHHHHH
Q psy7115 1 MFLKINEAWNILKDEKERKLYE 22 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD 22 (132)
.|..|++||++|+||.+|+.||
T Consensus 43 ~~~~i~~Ay~~L~~~~~R~~YD 64 (64)
T PF00226_consen 43 KFARINEAYEILSDPERRRRYD 64 (64)
T ss_dssp HHHHHHHHHHHHHSHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHhcC
Confidence 3789999999999999999998
No 21
>PRK14283 chaperone protein DnaJ; Provisional
Probab=97.82 E-value=8.1e-06 Score=69.18 Aligned_cols=27 Identities=30% Similarity=0.535 Sum_probs=24.6
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+|||||.+|+.||+.+..
T Consensus 46 ~f~~i~~Ay~~Lsd~~kR~~YD~~G~~ 72 (378)
T PRK14283 46 KFKEISEAYAVLSDDEKRQRYDQFGHA 72 (378)
T ss_pred HHHHHHHHHHHhchhHHHHHHhhhccc
Confidence 599999999999999999999997653
No 22
>PRK14277 chaperone protein DnaJ; Provisional
Probab=97.80 E-value=9.7e-06 Score=68.93 Aligned_cols=27 Identities=37% Similarity=0.545 Sum_probs=24.7
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+|||||.+|+.||.++..
T Consensus 47 ~f~~i~~Ay~vL~d~~kr~~yD~~G~~ 73 (386)
T PRK14277 47 KFKEINEAYEILSDPQKRAQYDQFGHA 73 (386)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHhhccc
Confidence 599999999999999999999997653
No 23
>PRK14280 chaperone protein DnaJ; Provisional
Probab=97.78 E-value=1.1e-05 Score=68.48 Aligned_cols=27 Identities=30% Similarity=0.538 Sum_probs=24.8
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+|||||.+|+.||+++..
T Consensus 45 ~f~~i~~Ay~vL~d~~kr~~yD~~G~~ 71 (376)
T PRK14280 45 KFKEISEAYEVLSDDQKRAQYDQFGHA 71 (376)
T ss_pred HHHHHHHHHHHhccHhHHHHHHhcCcc
Confidence 589999999999999999999997754
No 24
>PRK14299 chaperone protein DnaJ; Provisional
Probab=97.77 E-value=1.2e-05 Score=66.06 Aligned_cols=27 Identities=33% Similarity=0.657 Sum_probs=24.8
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+|||||.+|+.||..+..
T Consensus 45 ~f~~i~~Ay~~L~d~~kr~~yD~~g~~ 71 (291)
T PRK14299 45 KFKEINEAYTVLSDPEKRRIYDTYGTT 71 (291)
T ss_pred HHHHHHHHHHHhcCHHHHHHHHhcCCc
Confidence 589999999999999999999997764
No 25
>PRK14285 chaperone protein DnaJ; Provisional
Probab=97.76 E-value=1.1e-05 Score=68.32 Aligned_cols=27 Identities=26% Similarity=0.486 Sum_probs=24.8
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||++|+.||.++..
T Consensus 45 ~f~~i~~Ay~vL~d~~kr~~yd~~g~~ 71 (365)
T PRK14285 45 IFKEATEAYEVLIDDNKRAQYDRFGHT 71 (365)
T ss_pred HHHHHHHHHHHHcCcchhHHHHhcCcc
Confidence 599999999999999999999997754
No 26
>PRK14297 chaperone protein DnaJ; Provisional
Probab=97.71 E-value=1e-05 Score=68.58 Aligned_cols=27 Identities=30% Similarity=0.514 Sum_probs=24.7
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||+++..
T Consensus 46 ~f~~i~~Ay~vL~d~~~r~~yD~~G~~ 72 (380)
T PRK14297 46 KFKEINEAYQVLSDPQKKAQYDQFGTA 72 (380)
T ss_pred HHHHHHHHHHHhcCHhhhCchhhcCcc
Confidence 599999999999999999999997654
No 27
>PRK14301 chaperone protein DnaJ; Provisional
Probab=97.70 E-value=1.3e-05 Score=67.90 Aligned_cols=27 Identities=26% Similarity=0.447 Sum_probs=24.7
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||.++..
T Consensus 46 ~f~~i~~Ay~vL~d~~kr~~yD~~g~~ 72 (373)
T PRK14301 46 KFKEAAEAYEVLRDAEKRARYDRFGHA 72 (373)
T ss_pred HHHHHHHHHHHhcchhhhhhhhhcccc
Confidence 599999999999999999999997754
No 28
>PRK14284 chaperone protein DnaJ; Provisional
Probab=97.69 E-value=1.8e-05 Score=67.48 Aligned_cols=27 Identities=26% Similarity=0.500 Sum_probs=24.8
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||++|+.||+.+..
T Consensus 43 ~f~~i~~Ay~vL~d~~kR~~YD~~G~~ 69 (391)
T PRK14284 43 RFKEVSEAYEVLSDAQKRESYDRYGKD 69 (391)
T ss_pred HHHHHHHHHHHhcCHHHHHHHHhcccc
Confidence 599999999999999999999997754
No 29
>PRK14278 chaperone protein DnaJ; Provisional
Probab=97.68 E-value=1.4e-05 Score=67.87 Aligned_cols=26 Identities=23% Similarity=0.376 Sum_probs=24.1
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLL 26 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~ 26 (132)
+|++|++||+||+||++|+.||+.+.
T Consensus 44 ~f~~i~~Ay~vL~d~~~r~~YD~~G~ 69 (378)
T PRK14278 44 KFKEISVAYEVLSDPEKRRIVDLGGD 69 (378)
T ss_pred HHHHHHHHHHHhchhhhhhhhhccCC
Confidence 59999999999999999999998764
No 30
>PRK14294 chaperone protein DnaJ; Provisional
Probab=97.67 E-value=2.1e-05 Score=66.42 Aligned_cols=27 Identities=30% Similarity=0.543 Sum_probs=24.8
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||+++..
T Consensus 46 ~f~~~~~Ay~vL~d~~~r~~yD~~G~~ 72 (366)
T PRK14294 46 LFKEAAEAYEVLSDPKKRGIYDQYGHE 72 (366)
T ss_pred HHHHHHHHHHHhccHHHHHHHHhhccc
Confidence 489999999999999999999998754
No 31
>PRK14295 chaperone protein DnaJ; Provisional
Probab=97.63 E-value=2.5e-05 Score=66.59 Aligned_cols=23 Identities=48% Similarity=0.830 Sum_probs=22.2
Q ss_pred ChhhHHHHHHhcCChhHHHHHHH
Q psy7115 1 MFLKINEAWNILKDEKERKLYES 23 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~ 23 (132)
+|++|++||+||+||.+|+.||+
T Consensus 51 ~f~~i~~Ay~vL~d~~~r~~yD~ 73 (389)
T PRK14295 51 RFKEISEAYDVLSDEKKRKEYDE 73 (389)
T ss_pred HHHHHHHHHHHHCchhhHHHHHH
Confidence 59999999999999999999998
No 32
>PRK14281 chaperone protein DnaJ; Provisional
Probab=97.62 E-value=2.1e-05 Score=67.13 Aligned_cols=27 Identities=26% Similarity=0.551 Sum_probs=24.7
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||..+..
T Consensus 45 ~f~~i~~Ay~vL~d~~~r~~yD~~g~~ 71 (397)
T PRK14281 45 HFKEVNEAYEVLSNDDKRRRYDQFGHA 71 (397)
T ss_pred HHHHHHHHHHHhhhhhhhhhhhhccch
Confidence 599999999999999999999997754
No 33
>KOG0691|consensus
Probab=97.62 E-value=3.3e-05 Score=64.23 Aligned_cols=29 Identities=31% Similarity=0.529 Sum_probs=26.6
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQQ 29 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~~ 29 (132)
+|+++++||+||+||.+|++||..+....
T Consensus 47 kFq~L~eAy~VL~D~~~R~~YDk~~k~~~ 75 (296)
T KOG0691|consen 47 KFQELSEAYEVLSDEESRAAYDKLRKSGS 75 (296)
T ss_pred HHHHHHHHHHHhcCHHHHHHHHHHhhhcc
Confidence 59999999999999999999999988653
No 34
>KOG0716|consensus
Probab=97.54 E-value=4.5e-05 Score=62.78 Aligned_cols=29 Identities=31% Similarity=0.422 Sum_probs=26.5
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQQ 29 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~~ 29 (132)
||++|++||+||+||.+|..||.++....
T Consensus 73 kf~eIN~Ay~ILsD~~kR~~YD~~g~~~l 101 (279)
T KOG0716|consen 73 KFKEINTAYAILSDPTKRNVYDEYGELGL 101 (279)
T ss_pred HHHHHHHHHHHhcChhhhhhHHHhhhHHH
Confidence 69999999999999999999999977554
No 35
>PRK10767 chaperone protein DnaJ; Provisional
Probab=97.54 E-value=3.5e-05 Score=65.03 Aligned_cols=27 Identities=30% Similarity=0.513 Sum_probs=24.6
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||+.+..
T Consensus 46 ~f~~i~~Ay~~L~d~~~r~~yd~~g~~ 72 (371)
T PRK10767 46 KFKEIKEAYEVLSDPQKRAAYDQYGHA 72 (371)
T ss_pred HHHHHHHHHHHhcchhhhhHhhhcccc
Confidence 589999999999999999999987654
No 36
>PRK10266 curved DNA-binding protein CbpA; Provisional
Probab=97.52 E-value=4.9e-05 Score=62.73 Aligned_cols=26 Identities=35% Similarity=0.693 Sum_probs=24.0
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLL 26 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~ 26 (132)
+|++|++||+||+||.+|+.||..+.
T Consensus 45 ~f~~i~~Ay~~L~~~~kr~~yD~~g~ 70 (306)
T PRK10266 45 RFKEVAEAWEVLSDEQRRAEYDQLWQ 70 (306)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHhhc
Confidence 59999999999999999999998764
No 37
>PRK14290 chaperone protein DnaJ; Provisional
Probab=97.49 E-value=3.5e-05 Score=65.07 Aligned_cols=27 Identities=30% Similarity=0.550 Sum_probs=24.5
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||..+..
T Consensus 46 ~f~~i~~Ay~~L~d~~~r~~yd~~G~~ 72 (365)
T PRK14290 46 KFKEISEAYEVLSDPQKRRQYDQTGTV 72 (365)
T ss_pred HHHHHHHHHHHhcChhhhhhhcccCCc
Confidence 599999999999999999999987653
No 38
>PRK14289 chaperone protein DnaJ; Provisional
Probab=97.49 E-value=5.5e-05 Score=64.23 Aligned_cols=27 Identities=26% Similarity=0.427 Sum_probs=24.6
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||..+..
T Consensus 47 ~f~~i~~Ay~~L~d~~~R~~yD~~G~~ 73 (386)
T PRK14289 47 KFKEAAEAYDVLSDPDKRSRYDQFGHA 73 (386)
T ss_pred HHHHHHHHHHHhcCHHHHHHHHHhccc
Confidence 599999999999999999999997653
No 39
>PRK14292 chaperone protein DnaJ; Provisional
Probab=97.48 E-value=4.1e-05 Score=64.62 Aligned_cols=27 Identities=33% Similarity=0.535 Sum_probs=24.4
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||+++..
T Consensus 43 ~~~~i~~Ay~vL~d~~~r~~yd~~G~~ 69 (371)
T PRK14292 43 KFAQINEAYAVLSDAEKRAHYDRFGTA 69 (371)
T ss_pred HHHHHHHHHHHhcchhhhhhHhhcCCc
Confidence 589999999999999999999997643
No 40
>PRK14293 chaperone protein DnaJ; Provisional
Probab=97.45 E-value=5.4e-05 Score=64.09 Aligned_cols=26 Identities=31% Similarity=0.456 Sum_probs=24.0
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLL 26 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~ 26 (132)
+|++|++||+||+||.+|+.||.++.
T Consensus 44 ~f~~i~~Ay~vL~~~~~R~~yd~~g~ 69 (374)
T PRK14293 44 RFKEINRAYEVLSDPETRARYDQFGE 69 (374)
T ss_pred HHHHHHHHHHHHhchHHHHHHhhccc
Confidence 58999999999999999999998765
No 41
>PRK14300 chaperone protein DnaJ; Provisional
Probab=97.45 E-value=5.3e-05 Score=64.19 Aligned_cols=27 Identities=37% Similarity=0.587 Sum_probs=24.5
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
+|++|++||+||+||.+|+.||+++..
T Consensus 44 ~f~~i~~Ay~~L~d~~~r~~yD~~G~~ 70 (372)
T PRK14300 44 KFKEINAAYDVLKDEQKRAAYDRFGHD 70 (372)
T ss_pred HHHHHHHHHHHhhhHhHhhHHHhcccc
Confidence 589999999999999999999997653
No 42
>PF05207 zf-CSL: CSL zinc finger; InterPro: IPR007872 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a probable zinc binding motif that contains four cysteines and may chelate zinc, known as the DPH-type after the diphthamide (DPH) biosynthesis protein in which it was first characterised, including the proteins DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ IPR001623 from INTERPRO domain. Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death []. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the conserved motif of the final cysteine) zinc finger [, ]. The function of this motif is unknown. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2L6L_A 1WGE_A 2JR7_A 1YOP_A 1YWS_A.
Probab=97.28 E-value=0.00027 Score=45.05 Aligned_cols=51 Identities=25% Similarity=0.580 Sum_probs=31.0
Q ss_pred EeeccccCCCCCCceEEECCCCCceEEEEecCCcceeeccccccCCCCCccEEEEcCCceeeEEEe
Q psy7115 65 IEEQDTEGDGSDDNILIACDTCSLLLEITARCGAEFCIEEQDTKGDSSEGNILIACDTCSLLLEIT 130 (132)
Q Consensus 65 It~edL~~G~~~~~~vv~C~sCSL~ikV~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 (132)
|++++|.-.........+| .|+....|.-. ..+++ ++++.|++|||.|+|.
T Consensus 3 v~l~d~~~~~~~~~~~y~C-RCG~~f~i~e~---------~l~~~-----~~iv~C~sCSL~I~V~ 53 (55)
T PF05207_consen 3 VSLDDMEFDEEEGVYSYPC-RCGGEFEISEE---------DLEEG-----EVIVQCDSCSLWIRVN 53 (55)
T ss_dssp EETTTSEEETTTTEEEEEE-TTSSEEEEEHH---------HHHCT-------EEEETTTTEEEEEE
T ss_pred EEhhhceecCCCCEEEEcC-CCCCEEEEcch---------hccCc-----CEEEECCCCccEEEEE
Confidence 4455554322223578899 99887443321 12222 8999999999999986
No 43
>PTZ00341 Ring-infected erythrocyte surface antigen; Provisional
Probab=97.27 E-value=0.00012 Score=69.01 Aligned_cols=28 Identities=39% Similarity=0.547 Sum_probs=25.5
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
+|++|.+||+|||||.+|+.||..+...
T Consensus 614 kFq~I~EAYeVLSDp~kRk~YD~~G~~G 641 (1136)
T PTZ00341 614 KFKKINEAYQILGDIDKKKMYNKFGYDG 641 (1136)
T ss_pred HHHHHHHHHHHhCCHHHHHHHhhccccc
Confidence 5999999999999999999999977654
No 44
>KOG0717|consensus
Probab=97.24 E-value=0.00018 Score=63.05 Aligned_cols=28 Identities=32% Similarity=0.497 Sum_probs=25.2
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
+|++|+.||+|||||..|+=||....+-
T Consensus 51 ~F~~i~aAYeVLSdp~eR~wyd~hreqi 78 (508)
T KOG0717|consen 51 QFQLIQAAYEVLSDPQERAWYDSHREQI 78 (508)
T ss_pred HHHHHHHHHHHhcChHhhhhHHHHHHHH
Confidence 4999999999999999999999877643
No 45
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=97.15 E-value=0.00033 Score=53.62 Aligned_cols=26 Identities=31% Similarity=0.373 Sum_probs=23.4
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
|..|++||+||+||.+|+.|+..+..
T Consensus 50 s~~in~AY~~L~dp~~Ra~YlL~l~g 75 (166)
T PRK01356 50 ASELNNAYSTLKDALKRAEYMLLLQN 75 (166)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHccC
Confidence 56899999999999999999888753
No 46
>PRK05014 hscB co-chaperone HscB; Provisional
Probab=97.11 E-value=0.00029 Score=54.03 Aligned_cols=27 Identities=30% Similarity=0.303 Sum_probs=24.0
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
|..|++||++|+||.+|+.|+..+...
T Consensus 51 s~~iN~AY~~L~dp~~Ra~Yll~l~g~ 77 (171)
T PRK05014 51 AATINDAYQTLKHPLKRAEYLLSLHGF 77 (171)
T ss_pred HHHHHHHHHHHCChhHHHHHHHHhcCC
Confidence 678999999999999999999877643
No 47
>PRK00294 hscB co-chaperone HscB; Provisional
Probab=97.06 E-value=0.00036 Score=53.80 Aligned_cols=27 Identities=30% Similarity=0.349 Sum_probs=24.4
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
|..|++||+||+||.+|+.|+..+...
T Consensus 54 s~~IN~AY~~L~~p~~Ra~YlL~l~g~ 80 (173)
T PRK00294 54 SASLNEAYQTLKSPPRRARYLLALSGH 80 (173)
T ss_pred HHHHHHHHHHhCChhhhHHHHHHhcCC
Confidence 679999999999999999999988753
No 48
>TIGR00714 hscB Fe-S protein assembly co-chaperone HscB. This model describes the small subunit, Hsc20 (20K heat shock cognate protein) of a pair of proteins Hsc66-Hsc20, related to the DnaK-DnaJ heat shock proteins, which also serve as molecular chaperones. Hsc20, unlike DnaJ, appears not to have chaperone activity on its own, but to act solely as a regulatory subunit for Hsc66 (i.e., to be a co-chaperone). The gene for Hsc20 in E. coli, hscB, is not induced by heat shock.
Probab=97.04 E-value=0.00037 Score=52.78 Aligned_cols=26 Identities=31% Similarity=0.336 Sum_probs=24.1
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
|..|++||++|+||.+|+.|+..+..
T Consensus 39 s~~iN~AY~~L~~p~~Ra~ylL~l~g 64 (157)
T TIGR00714 39 STTLNQAYQTLKDPLMRAEYMLSLHG 64 (157)
T ss_pred HHHHHHHHHHhCChhhhHHHHHHhcC
Confidence 67899999999999999999998874
No 49
>KOG0719|consensus
Probab=96.94 E-value=0.00036 Score=56.74 Aligned_cols=28 Identities=29% Similarity=0.544 Sum_probs=25.2
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
+|++++.||.||+|.++|+.||..+.-.
T Consensus 58 kFq~l~k~y~iLsDeekR~~YDetG~id 85 (264)
T KOG0719|consen 58 KFQQLQKAYQILSDEEKRAVYDETGSID 85 (264)
T ss_pred HHHHHHHHHHHhhHHHHHHHHhccCCCC
Confidence 6999999999999999999999877543
No 50
>COG2214 CbpA DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=96.83 E-value=0.00065 Score=50.30 Aligned_cols=25 Identities=40% Similarity=0.577 Sum_probs=23.0
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQL 25 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l 25 (132)
+|+.|++||+||+||.+|+.||..+
T Consensus 49 ~f~~i~~Ay~vLsd~~~r~~yd~~~ 73 (237)
T COG2214 49 KFKEINEAYEILSDPERRAEYDKIG 73 (237)
T ss_pred HHHHHHHHHHHhhCHHHHHHhhhhc
Confidence 5899999999999999999999853
No 51
>TIGR03835 termin_org_DnaJ terminal organelle assembly protein TopJ. This model describes TopJ (MG_200, CbpA), a DnaJ homolog and probable assembly protein of the Mycoplasma terminal organelle. The terminal organelle is involved in both cytadherence and gliding motility.
Probab=96.67 E-value=0.00091 Score=62.00 Aligned_cols=28 Identities=32% Similarity=0.461 Sum_probs=25.1
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
+|++|++||++|+||.+|+.||..+...
T Consensus 43 kFqeINEAYEVLSDP~KRa~YD~fG~aG 70 (871)
T TIGR03835 43 IFAEINEANDVLSNPKKRANYDKYGHDG 70 (871)
T ss_pred HHHHHHHHHHHhCCHHHHHHHhhhcccc
Confidence 4899999999999999999999977643
No 52
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=96.65 E-value=0.0015 Score=50.52 Aligned_cols=27 Identities=30% Similarity=0.362 Sum_probs=24.0
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
+..|++||++|+||.+|+.|+..+...
T Consensus 56 s~~iN~AY~tL~~p~~Ra~Yll~l~G~ 82 (176)
T PRK03578 56 ATRANEAYQTLRDPLKRARYLLHLRGV 82 (176)
T ss_pred HHHHHHHHHHhCChhhHHHHHHHhcCC
Confidence 478999999999999999999877644
No 53
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=96.24 E-value=0.0021 Score=53.66 Aligned_cols=25 Identities=36% Similarity=0.458 Sum_probs=22.7
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLL 26 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~ 26 (132)
|+.||+||+||+|+.+|.+||+--.
T Consensus 91 Fk~iqkA~evL~D~~~R~qyDS~df 115 (379)
T COG5269 91 FKLIQKAREVLGDRKLRLQYDSNDF 115 (379)
T ss_pred HHHHHHHHHHhccHHHHhhcccccc
Confidence 8899999999999999999997544
No 54
>KOG0720|consensus
Probab=96.07 E-value=0.0046 Score=54.35 Aligned_cols=28 Identities=29% Similarity=0.541 Sum_probs=25.6
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhhhhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLLSQQ 29 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~~~~ 29 (132)
|+.++.||++|+|+++|++||..+....
T Consensus 277 fk~Lq~Afevig~~~kR~eYd~e~~ken 304 (490)
T KOG0720|consen 277 FKKLQVAFEVIGDSVKRKEYDLELKKEN 304 (490)
T ss_pred HHHHHHHHHHhcchhhhhHHHHHHHHHH
Confidence 8999999999999999999999887553
No 55
>KOG0714|consensus
Probab=95.91 E-value=0.0017 Score=50.45 Aligned_cols=26 Identities=38% Similarity=0.612 Sum_probs=24.5
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLL 26 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~ 26 (132)
+|++|.+||+||+||.+|+.||....
T Consensus 46 ~~~~~~ea~~~ls~~~kr~~~d~~~~ 71 (306)
T KOG0714|consen 46 KFKEIAEAYEVLSDPKKRKIYDQYGE 71 (306)
T ss_pred HHhhhhccccccCCHHHhhhccccCc
Confidence 58999999999999999999999887
No 56
>PHA03102 Small T antigen; Reviewed
Probab=95.85 E-value=0.0022 Score=48.73 Aligned_cols=28 Identities=4% Similarity=-0.009 Sum_probs=24.9
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
+|++|++||++|+|+.+|+.||......
T Consensus 45 ~~k~in~Ay~~L~d~~~r~~yd~~g~~~ 72 (153)
T PHA03102 45 KMKELNTLYKKFRESVKSLRDLDGEEDS 72 (153)
T ss_pred HHHHHHHHHHHHhhHHHhccccccCCcc
Confidence 4899999999999999999999877544
No 57
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=95.78 E-value=0.0064 Score=46.91 Aligned_cols=24 Identities=33% Similarity=0.253 Sum_probs=21.4
Q ss_pred hhHHHHHHhcCChhHHHHHHHHhh
Q psy7115 3 LKINEAWNILKDEKERKLYESQLL 26 (132)
Q Consensus 3 ~~I~eAyevLsdp~~R~~YD~~l~ 26 (132)
..|++||.+|+||-+|++|=..+.
T Consensus 53 s~iN~AY~tLkdPl~RA~YLL~L~ 76 (173)
T PRK01773 53 AEVNDALQILKDPILRAEAIIALN 76 (173)
T ss_pred HHHHHHHHHHCChHHHHHHHHHhc
Confidence 369999999999999999977766
No 58
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=95.62 E-value=0.02 Score=33.12 Aligned_cols=34 Identities=15% Similarity=0.473 Sum_probs=28.0
Q ss_pred eec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEEE
Q psy7115 55 YPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEI 92 (132)
Q Consensus 55 ~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV 92 (132)
..| +|+..|.|..+.+... ...+.|++|...+.|
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~----~~~v~C~~C~~~~~~ 37 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGAN----GGKVRCGKCGHVWYA 37 (38)
T ss_pred EECCCCCCEEEeCHHHcCCC----CCEEECCCCCCEEEe
Confidence 568 9999999999988754 347999999987765
No 59
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=93.23 E-value=0.082 Score=30.75 Aligned_cols=30 Identities=20% Similarity=0.665 Sum_probs=25.2
Q ss_pred ec-cCCCeEEEeeccccCCCCCCceEEECCCCCce
Q psy7115 56 PC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLL 89 (132)
Q Consensus 56 ~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ 89 (132)
.| +|+..|.|..+.+-.. ...++|+.|+-.
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~----g~~v~C~~C~~~ 34 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPK----GRKVRCSKCGHV 34 (36)
T ss_pred ECCCCCCEEeCCHHHCCCC----CcEEECCCCCCE
Confidence 58 9999999999988865 568999999743
No 60
>KOG0550|consensus
Probab=92.99 E-value=0.049 Score=47.85 Aligned_cols=25 Identities=32% Similarity=0.522 Sum_probs=22.9
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQL 25 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l 25 (132)
+|++|-+||.+||||.+|..||...
T Consensus 416 kFkevgeAy~il~d~~kr~r~dsg~ 440 (486)
T KOG0550|consen 416 KFKEVGEAYTILSDPMKRVRFDSGQ 440 (486)
T ss_pred HHHHHHHHHHHhcCHHHHhhccccc
Confidence 6999999999999999999999643
No 61
>KOG0624|consensus
Probab=92.92 E-value=0.051 Score=47.20 Aligned_cols=24 Identities=25% Similarity=0.552 Sum_probs=22.4
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHH
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQ 24 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~ 24 (132)
||..|..|=|||+||++|+++|..
T Consensus 439 KFIDIAAAKEVLsd~EkRrqFDnG 462 (504)
T KOG0624|consen 439 KFIDIAAAKEVLSDPEKRRQFDNG 462 (504)
T ss_pred hhhhHHHHHHhhcCHHHHhhccCC
Confidence 699999999999999999999964
No 62
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=91.73 E-value=0.31 Score=30.55 Aligned_cols=35 Identities=31% Similarity=0.692 Sum_probs=25.1
Q ss_pred eEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEec
Q psy7115 52 MFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITAR 95 (132)
Q Consensus 52 ~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~ 95 (132)
...|.| |||-.|.+ +.. ...+.|+-|+-+|-+.-.
T Consensus 4 ~~~Y~C~~Cg~~~~~----~~~-----~~~irCp~Cg~rIl~K~R 39 (49)
T COG1996 4 MMEYKCARCGREVEL----DQE-----TRGIRCPYCGSRILVKER 39 (49)
T ss_pred eEEEEhhhcCCeeeh----hhc-----cCceeCCCCCcEEEEecc
Confidence 568999 99999822 212 345899999988876543
No 63
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=91.45 E-value=0.22 Score=28.97 Aligned_cols=32 Identities=16% Similarity=0.585 Sum_probs=26.2
Q ss_pred eec-cCCCeEEEeeccccCCCCCCceEEECCCCCceE
Q psy7115 55 YPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLL 90 (132)
Q Consensus 55 ~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~i 90 (132)
-.| .|+..|.|+.+.|..+ ...|.|+.|.-..
T Consensus 3 i~CP~C~~~f~v~~~~l~~~----~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAG----GRKVRCPKCGHVF 35 (37)
T ss_pred EECCCCCceEEcCHHHcccC----CcEEECCCCCcEe
Confidence 358 8999999999998876 5689999997543
No 64
>KOG3192|consensus
Probab=90.38 E-value=0.17 Score=39.01 Aligned_cols=26 Identities=35% Similarity=0.471 Sum_probs=22.6
Q ss_pred hhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 3 LKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 3 ~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
.++++||.+|.||-+|+.|=..+...
T Consensus 59 a~lnkAY~TLk~pL~RA~Yilkl~g~ 84 (168)
T KOG3192|consen 59 AELNKAYDTLKDPLARARYLLKLKGQ 84 (168)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHhCC
Confidence 46899999999999999998777653
No 65
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=90.10 E-value=0.33 Score=32.17 Aligned_cols=35 Identities=20% Similarity=0.563 Sum_probs=24.6
Q ss_pred Eeeec-cCCCe--EEEeeccccCCCCCCceEEECCCCCceEE
Q psy7115 53 FTYPC-RCGAE--FCIEEQDTEGDGSDDNILIACDTCSLLLE 91 (132)
Q Consensus 53 ~~~~C-RCGg~--f~It~edL~~G~~~~~~vv~C~sCSL~ik 91 (132)
..+.| .|+.. -.|+...-..| .++|+||+|.-+=.
T Consensus 3 l~FTC~~C~~Rs~~~~sk~aY~~G----vViv~C~gC~~~Hl 40 (66)
T PF05180_consen 3 LTFTCNKCGTRSAKMFSKQAYHKG----VVIVQCPGCKNRHL 40 (66)
T ss_dssp EEEEETTTTEEEEEEEEHHHHHTS----EEEEE-TTS--EEE
T ss_pred EEEEcCCCCCccceeeCHHHHhCC----eEEEECCCCcceee
Confidence 56889 99965 66777766677 89999999987633
No 66
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=88.32 E-value=0.7 Score=26.51 Aligned_cols=32 Identities=25% Similarity=0.712 Sum_probs=23.2
Q ss_pred eEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCce
Q psy7115 52 MFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLL 89 (132)
Q Consensus 52 ~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ 89 (132)
.|.|.| .||..|.+...--. ...+.|+.|+-.
T Consensus 3 ~Y~y~C~~Cg~~fe~~~~~~~------~~~~~CP~Cg~~ 35 (41)
T smart00834 3 IYEYRCEDCGHTFEVLQKISD------DPLATCPECGGD 35 (41)
T ss_pred CEEEEcCCCCCEEEEEEecCC------CCCCCCCCCCCc
Confidence 488999 99999887754211 346789999864
No 67
>KOG0722|consensus
Probab=87.13 E-value=0.27 Score=41.03 Aligned_cols=28 Identities=39% Similarity=0.654 Sum_probs=25.4
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
.|..|.+||++|.|.+.|+.||-.+.+.
T Consensus 74 ~F~~iAtayeilkd~e~rt~ydyaldhp 101 (329)
T KOG0722|consen 74 LFVKIATAYEILKDNETRTQYDYALDHP 101 (329)
T ss_pred hhhhhhcccccccchhhHHhHHHHhcCc
Confidence 4899999999999999999999888754
No 68
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=86.93 E-value=1.4 Score=28.00 Aligned_cols=36 Identities=33% Similarity=0.731 Sum_probs=27.1
Q ss_pred eec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEecCC
Q psy7115 55 YPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITARCG 97 (132)
Q Consensus 55 ~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~~~ 97 (132)
..| +||..+.|....+ | .++.|+.|...+.|.....
T Consensus 3 ~~CP~CG~~iev~~~~~--G-----eiV~Cp~CGaeleVv~~~p 39 (54)
T TIGR01206 3 FECPDCGAEIELENPEL--G-----ELVICDECGAELEVVSLDP 39 (54)
T ss_pred cCCCCCCCEEecCCCcc--C-----CEEeCCCCCCEEEEEeCCC
Confidence 368 9999888854433 4 3779999999999876654
No 69
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=85.39 E-value=1.8 Score=26.22 Aligned_cols=31 Identities=26% Similarity=0.626 Sum_probs=23.1
Q ss_pred eeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEe
Q psy7115 54 TYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITA 94 (132)
Q Consensus 54 ~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~ 94 (132)
.|.| +||..|.+. . ...+.|+.|.-.|-...
T Consensus 2 ~Y~C~~Cg~~~~~~-----~-----~~~irC~~CG~rIlyK~ 33 (44)
T smart00659 2 IYICGECGRENEIK-----S-----KDVVRCRECGYRILYKK 33 (44)
T ss_pred EEECCCCCCEeecC-----C-----CCceECCCCCceEEEEe
Confidence 5889 999988776 1 24589999997765443
No 70
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=83.92 E-value=1.6 Score=25.88 Aligned_cols=31 Identities=29% Similarity=0.803 Sum_probs=23.2
Q ss_pred eEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCc
Q psy7115 52 MFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSL 88 (132)
Q Consensus 52 ~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL 88 (132)
.|.|.| .||..|++...--+ ...+.|+.|.-
T Consensus 3 ~Yey~C~~Cg~~fe~~~~~~~------~~~~~CP~Cg~ 34 (42)
T PF09723_consen 3 IYEYRCEECGHEFEVLQSISE------DDPVPCPECGS 34 (42)
T ss_pred CEEEEeCCCCCEEEEEEEcCC------CCCCcCCCCCC
Confidence 488999 89999877654211 35689999986
No 71
>PHA02624 large T antigen; Provisional
Probab=83.68 E-value=0.53 Score=43.20 Aligned_cols=21 Identities=10% Similarity=0.186 Sum_probs=20.1
Q ss_pred ChhhHHHHHHhcCChhHHHHH
Q psy7115 1 MFLKINEAWNILKDEKERKLY 21 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~Y 21 (132)
+|++|++||++|+|+.+|+.|
T Consensus 51 kfk~Ln~AYevL~d~~k~~r~ 71 (647)
T PHA02624 51 KMKRLNSLYKKLQEGVKSARQ 71 (647)
T ss_pred HHHHHHHHHHHHhcHHHhhhc
Confidence 589999999999999999999
No 72
>KOG0721|consensus
Probab=82.56 E-value=1 Score=36.52 Aligned_cols=27 Identities=30% Similarity=0.389 Sum_probs=24.3
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhhhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLLSQ 28 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~~~ 28 (132)
|.+|.+||+-|+|+.+|+.|-.++...
T Consensus 142 ~~~I~KAY~aLTD~~sreN~ekYG~PD 168 (230)
T KOG0721|consen 142 FEAIAKAYQALTDKKSRENWEKYGNPD 168 (230)
T ss_pred HHHHHHHHHHhcchhhHHHHHHhCCCC
Confidence 789999999999999999999887644
No 73
>PF07709 SRR: Seven Residue Repeat; InterPro: IPR011714 This repeat is found in some Plasmodium and Theileria proteins.
Probab=81.82 E-value=1.1 Score=20.78 Aligned_cols=13 Identities=31% Similarity=0.524 Sum_probs=11.3
Q ss_pred ChhhHHHHHHhcC
Q psy7115 1 MFLKINEAWNILK 13 (132)
Q Consensus 1 kF~~I~eAyevLs 13 (132)
+|.+|..||+.|+
T Consensus 2 ~~~~V~~aY~~l~ 14 (14)
T PF07709_consen 2 KFEKVKNAYEQLS 14 (14)
T ss_pred cHHHHHHHHHhcC
Confidence 5899999999885
No 74
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=81.67 E-value=1.6 Score=26.54 Aligned_cols=37 Identities=24% Similarity=0.691 Sum_probs=24.9
Q ss_pred eEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCc-eE-EEEe
Q psy7115 52 MFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSL-LL-EITA 94 (132)
Q Consensus 52 ~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL-~i-kV~~ 94 (132)
.|.|.| .||..|++... +.. ...+.|+.|.- .+ +|..
T Consensus 3 ~Yey~C~~Cg~~fe~~~~-~~~-----~~~~~CP~Cg~~~~~r~~s 42 (52)
T TIGR02605 3 IYEYRCTACGHRFEVLQK-MSD-----DPLATCPECGGEKLRRLLS 42 (52)
T ss_pred CEEEEeCCCCCEeEEEEe-cCC-----CCCCCCCCCCCCceeEEec
Confidence 488999 89999987632 111 24577999985 45 4443
No 75
>KOG2923|consensus
Probab=76.09 E-value=2.4 Score=28.14 Aligned_cols=16 Identities=25% Similarity=0.750 Sum_probs=13.3
Q ss_pred cEEEEcCCceeeEEEe
Q psy7115 115 NILIACDTCSLLLEIT 130 (132)
Q Consensus 115 ~~~~~~~~~~~~~~~~ 130 (132)
.-|.-|.+|||.|++.
T Consensus 42 e~Va~CpsCSL~I~Vi 57 (67)
T KOG2923|consen 42 EDVARCPSCSLIIRVI 57 (67)
T ss_pred CeeecCCCceEEEEEE
Confidence 4578899999999874
No 76
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=76.03 E-value=5.8 Score=23.65 Aligned_cols=29 Identities=31% Similarity=0.748 Sum_probs=21.5
Q ss_pred eeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEE
Q psy7115 54 TYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLE 91 (132)
Q Consensus 54 ~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ik 91 (132)
.|.| +||..|.+.... ..+.|+.|.-.+-
T Consensus 3 ~y~C~~CG~~~~~~~~~---------~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEYG---------TGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCCC---------CceECCCCCCeEE
Confidence 5789 999998886442 1579999986544
No 77
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=73.64 E-value=3.6 Score=26.99 Aligned_cols=38 Identities=26% Similarity=0.663 Sum_probs=26.4
Q ss_pred ceEEECCCCCceEEEEecCCcceeeccccccCCCCCccEEEEcCCceeeEEEe
Q psy7115 78 NILIACDTCSLLLEITARCGAEFCIEEQDTKGDSSEGNILIACDTCSLLLEIT 130 (132)
Q Consensus 78 ~~vv~C~sCSL~ikV~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 (132)
.-..||| |.-+..|..+ |=-.|.+|--|.||||.+.+.
T Consensus 20 ~ftyPCP-CGDRFeIsLe--------------Dl~~GE~VArCPSCSLiv~vv 57 (67)
T COG5216 20 TFTYPCP-CGDRFEISLE--------------DLRNGEVVARCPSCSLIVCVV 57 (67)
T ss_pred eEEecCC-CCCEeEEEHH--------------HhhCCceEEEcCCceEEEEEE
Confidence 4567887 7666666552 123456899999999998764
No 78
>KOG3277|consensus
Probab=72.31 E-value=3.7 Score=31.66 Aligned_cols=37 Identities=22% Similarity=0.510 Sum_probs=29.3
Q ss_pred cceEeeec-cCCCe--EEEeeccccCCCCCCceEEECCCCCceE
Q psy7115 50 SQMFTYPC-RCGAE--FCIEEQDTEGDGSDDNILIACDTCSLLL 90 (132)
Q Consensus 50 ~~~~~~~C-RCGg~--f~It~edL~~G~~~~~~vv~C~sCSL~i 90 (132)
.+...|.| -|+-. -.|++..-+.| .++|+|++|...=
T Consensus 75 ~m~l~yTCkvCntRs~ktisk~AY~~G----vVivqC~gC~~~H 114 (165)
T KOG3277|consen 75 RMQLAYTCKVCNTRSTKTISKQAYEKG----VVIVQCPGCKNHH 114 (165)
T ss_pred ceEEEEEeeccCCccccccChhhhhCc----eEEEECCCCccce
Confidence 35688999 99954 67777777777 8999999999653
No 79
>PF14353 CpXC: CpXC protein
Probab=69.70 E-value=6.7 Score=28.01 Aligned_cols=39 Identities=21% Similarity=0.492 Sum_probs=21.4
Q ss_pred ec-cCCCeEEEeeccccCCCC----------CCceEEECCCCCceEEEEe
Q psy7115 56 PC-RCGAEFCIEEQDTEGDGS----------DDNILIACDTCSLLLEITA 94 (132)
Q Consensus 56 ~C-RCGg~f~It~edL~~G~~----------~~~~vv~C~sCSL~ikV~~ 94 (132)
.| .||..|.+..-.+-+... +....+.||+|.-..+|.+
T Consensus 3 tCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~ 52 (128)
T PF14353_consen 3 TCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEY 52 (128)
T ss_pred CCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCC
Confidence 47 477765555544333211 2345777888876555443
No 80
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=68.06 E-value=8.4 Score=34.15 Aligned_cols=70 Identities=21% Similarity=0.372 Sum_probs=46.2
Q ss_pred eEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEecCCcceeeccccccCCCCCccEEEEcCCcee
Q psy7115 52 MFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITARCGAEFCIEEQDTKGDSSEGNILIACDTCSL 125 (132)
Q Consensus 52 ~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 (132)
...|.| .|-..+--++.-++...- .-.=+.||.|.-.+.|....... ...+.+++..++...+.|..|..
T Consensus 24 i~~~yCp~CL~~~p~~e~~~~~nrC-~r~Cf~CP~C~~~L~~~~~~~~~---~~~~~~~~~~~~~~~l~C~~C~W 94 (483)
T PF05502_consen 24 IDSYYCPNCLFEVPSSEARSEKNRC-SRNCFDCPICFSPLSVRASDTPP---SPPDPSSDSGGKPYYLSCSYCRW 94 (483)
T ss_pred cceeECccccccCChhhheecccee-ccccccCCCCCCcceeEeccccc---ccccccccCCCCCEEEECCCcee
Confidence 456778 776555444332232210 01458999999888887755422 44477788899999999999965
No 81
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins.
Probab=65.77 E-value=6.6 Score=25.70 Aligned_cols=35 Identities=29% Similarity=0.749 Sum_probs=20.5
Q ss_pred eec-cCCCe-EEEeeccccCCCC--------CCceEEECCCCCce
Q psy7115 55 YPC-RCGAE-FCIEEQDTEGDGS--------DDNILIACDTCSLL 89 (132)
Q Consensus 55 ~~C-RCGg~-f~It~edL~~G~~--------~~~~vv~C~sCSL~ 89 (132)
|.| +||.. |.+.+-.+..+.. +....+.|++|+..
T Consensus 1 y~C~KCg~~~~e~~~v~~tgg~~skiFdvq~~~f~~v~C~~CGYT 45 (64)
T PF09855_consen 1 YKCPKCGNEEYESGEVRATGGGLSKIFDVQNKKFTTVSCTNCGYT 45 (64)
T ss_pred CCCCCCCCcceecceEEccCCeeEEEEEecCcEEEEEECCCCCCE
Confidence 457 88864 5554444433321 23468889999754
No 82
>COG5407 SEC63 Preprotein translocase subunit Sec63 [Intracellular trafficking and secretion]
Probab=64.23 E-value=4.5 Score=36.39 Aligned_cols=29 Identities=24% Similarity=0.387 Sum_probs=24.6
Q ss_pred ChhhHHHHHHhcCChhHHHHHHHHhhhhh
Q psy7115 1 MFLKINEAWNILKDEKERKLYESQLLSQQ 29 (132)
Q Consensus 1 kF~~I~eAyevLsdp~~R~~YD~~l~~~~ 29 (132)
++++|++||+.|+|...|..|-.++.-..
T Consensus 145 ~y~~ItkAY~~lTd~k~renyl~yGtPd~ 173 (610)
T COG5407 145 KYKTITKAYGLLTDKKRRENYLNYGTPDS 173 (610)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHhcCCCCC
Confidence 36899999999999999999988766443
No 83
>PF05280 FlhC: Flagellar transcriptional activator (FlhC); InterPro: IPR007944 This family consists of several bacterial flagellar transcriptional activator (FlhC) proteins. FlhC combines with FlhD to form a regulatory complex in Escherichia coli, this complex has been shown to be a global regulator involved in many cellular processes as well as a flagellar transcriptional activator [].; GO: 0003677 DNA binding, 0030092 regulation of flagellum assembly, 0045893 positive regulation of transcription, DNA-dependent; PDB: 2AVU_E.
Probab=60.89 E-value=6.7 Score=30.37 Aligned_cols=35 Identities=26% Similarity=0.620 Sum_probs=14.6
Q ss_pred ceEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEEE
Q psy7115 51 QMFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEI 92 (132)
Q Consensus 51 ~~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV 92 (132)
..-..+| +||+.|+....++... +.|+=|++.-+-
T Consensus 131 ~l~l~~C~~C~~~fv~~~~~~~~~-------~~Cp~C~~psRa 166 (175)
T PF05280_consen 131 MLQLAPCRRCGGHFVTHAHDPRHS-------FVCPFCQPPSRA 166 (175)
T ss_dssp SEEEEE-TTT--EEEEESS--SS-----------TT-------
T ss_pred CccccCCCCCCCCeECcCCCCCcC-------cCCCCCCCcccc
Confidence 3457889 8999999987765443 689999875543
No 84
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=60.05 E-value=3.1 Score=30.06 Aligned_cols=25 Identities=36% Similarity=0.845 Sum_probs=17.2
Q ss_pred eeec-cCCCeEEEeeccccCCCCCCceEEECCCCC
Q psy7115 54 TYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCS 87 (132)
Q Consensus 54 ~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCS 87 (132)
-|.| |||..|.=-.+. ++-.|+.|.
T Consensus 2 pH~CtrCG~vf~~g~~~---------il~GCp~CG 27 (112)
T COG3364 2 PHQCTRCGEVFDDGSEE---------ILSGCPKCG 27 (112)
T ss_pred CceecccccccccccHH---------HHccCcccc
Confidence 4789 999888543333 444599997
No 85
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=59.79 E-value=3.3 Score=30.89 Aligned_cols=26 Identities=23% Similarity=0.563 Sum_probs=17.2
Q ss_pred eec-cCCCeEEEeeccccCCCCCCceEEECCCCCce
Q psy7115 55 YPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLL 89 (132)
Q Consensus 55 ~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ 89 (132)
|.| +||..|.=-..+|-. .|+.|...
T Consensus 2 H~Ct~Cg~~f~dgs~eil~---------GCP~CGg~ 28 (131)
T PF09845_consen 2 HQCTKCGRVFEDGSKEILS---------GCPECGGN 28 (131)
T ss_pred cccCcCCCCcCCCcHHHHc---------cCcccCCc
Confidence 678 999888544434444 49999744
No 86
>COG1076 DjlA DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]
Probab=58.71 E-value=3.6 Score=31.24 Aligned_cols=25 Identities=32% Similarity=0.317 Sum_probs=22.4
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLL 26 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~ 26 (132)
+..++.||.+|.||-+|++|=..+.
T Consensus 51 ~~~~~~a~~tLk~~l~ra~~~lal~ 75 (174)
T COG1076 51 SAEVNPAYQTLKDPLLRAEYLLALA 75 (174)
T ss_pred HHHhcchHHHHHHHHHHHHHHHHhc
Confidence 5678999999999999999987776
No 87
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=57.44 E-value=7.1 Score=22.17 Aligned_cols=27 Identities=33% Similarity=0.712 Sum_probs=17.3
Q ss_pred eec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEE
Q psy7115 55 YPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLE 91 (132)
Q Consensus 55 ~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ik 91 (132)
|.| +||..+.|.. + ..+.|+.|.-+|-
T Consensus 1 Y~C~~Cg~~~~~~~-----~-----~~irC~~CG~RIl 28 (32)
T PF03604_consen 1 YICGECGAEVELKP-----G-----DPIRCPECGHRIL 28 (32)
T ss_dssp EBESSSSSSE-BST-----S-----STSSBSSSS-SEE
T ss_pred CCCCcCCCeeEcCC-----C-----CcEECCcCCCeEE
Confidence 568 9998776432 2 2368999987764
No 88
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=55.94 E-value=11 Score=27.76 Aligned_cols=39 Identities=23% Similarity=0.414 Sum_probs=25.6
Q ss_pred ceEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEEE
Q psy7115 51 QMFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEI 92 (132)
Q Consensus 51 ~~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV 92 (132)
+...|.| +||..|.+.+....... ...+.||.|.-.+..
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~d~---~~~f~Cp~Cg~~l~~ 135 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLLDM---DGTFTCPRCGEELEE 135 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhcCC---CCcEECCCCCCEEEE
Confidence 3568999 99998886544222111 344999999876653
No 89
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=54.83 E-value=4.6 Score=32.89 Aligned_cols=37 Identities=16% Similarity=0.175 Sum_probs=22.8
Q ss_pred ccCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEecC
Q psy7115 57 CRCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITARC 96 (132)
Q Consensus 57 CRCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~~ 96 (132)
-+|||-+.+-.............+|.||.| .+|.|..
T Consensus 198 ~~C~GC~m~l~~~~~~~V~~~d~iv~CP~C---gRILy~~ 234 (239)
T COG1579 198 RVCGGCHMKLPSQTLSKVRKKDEIVFCPYC---GRILYYD 234 (239)
T ss_pred CcccCCeeeecHHHHHHHhcCCCCccCCcc---chHHHhh
Confidence 389986443334333333345789999999 4555543
No 90
>PRK12722 transcriptional activator FlhC; Provisional
Probab=51.33 E-value=9.7 Score=29.96 Aligned_cols=33 Identities=24% Similarity=0.612 Sum_probs=24.5
Q ss_pred eEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEE
Q psy7115 52 MFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLE 91 (132)
Q Consensus 52 ~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ik 91 (132)
.-..+| +||+.|.....++... +.|+=|..-=|
T Consensus 132 L~l~~C~~Cgg~fv~~~~e~~~~-------f~CplC~~psR 165 (187)
T PRK12722 132 LQLSSCNCCGGHFVTHAHDPVGS-------FVCGLCQPPSR 165 (187)
T ss_pred EeeccCCCCCCCeeccccccCCC-------CcCCCCCCccc
Confidence 345789 7999999888876544 57999986433
No 91
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=50.18 E-value=54 Score=23.55 Aligned_cols=36 Identities=28% Similarity=0.561 Sum_probs=20.5
Q ss_pred eeec-cCCCe-EEEeeccccCCCCCCceEEECCCCCceEEEE
Q psy7115 54 TYPC-RCGAE-FCIEEQDTEGDGSDDNILIACDTCSLLLEIT 93 (132)
Q Consensus 54 ~~~C-RCGg~-f~It~edL~~G~~~~~~vv~C~sCSL~ikV~ 93 (132)
+..| |||.. ..+.. +..+ .....+-|.+|.|.-...
T Consensus 22 ~FtCp~Cghe~vs~ct--vkk~--~~~g~~~Cg~CGls~e~e 59 (104)
T COG4888 22 TFTCPRCGHEKVSSCT--VKKT--VNIGTAVCGNCGLSFECE 59 (104)
T ss_pred eEecCccCCeeeeEEE--EEec--CceeEEEcccCcceEEEe
Confidence 5678 89876 33222 1111 124578888888765443
No 92
>PRK12860 transcriptional activator FlhC; Provisional
Probab=50.02 E-value=10 Score=29.85 Aligned_cols=34 Identities=24% Similarity=0.591 Sum_probs=24.7
Q ss_pred ceEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEE
Q psy7115 51 QMFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLE 91 (132)
Q Consensus 51 ~~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ik 91 (132)
+.-..+| +||+.|.....++... +.|+=|..-=|
T Consensus 131 ~L~l~~C~~Cgg~fv~~~~e~~~~-------f~CplC~~psR 165 (189)
T PRK12860 131 MLQLARCCRCGGKFVTHAHDLRHN-------FVCGLCQPPSR 165 (189)
T ss_pred CeeeccCCCCCCCeeccccccCCC-------CcCCCCCCccc
Confidence 3446789 7999999887766554 57999985433
No 93
>PF01667 Ribosomal_S27e: Ribosomal protein S27; InterPro: IPR000592 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 [, ]. A number of eukaryotic and archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families include mammalian, yeast, Chlamydomonas reinhardtii and Entamoeba histolytica S27, and Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0250 []. These proteins have from 62 to 87 amino acids. They contain, in their central section, a putative zinc-finger region of the type C-x(2)-C-x(14)-C-x(2)-C.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1QXF_A 3IZ6_X 2XZN_6 2XZM_6 3U5G_b 3IZB_X 3U5C_b.
Probab=49.60 E-value=27 Score=22.30 Aligned_cols=32 Identities=16% Similarity=0.465 Sum_probs=17.6
Q ss_pred ceEEECCCCCceEEEEecCCcceeeccccccCCCCCccEEEEcCCceeeE
Q psy7115 78 NILIACDTCSLLLEITARCGAEFCIEEQDTKGDSSEGNILIACDTCSLLL 127 (132)
Q Consensus 78 ~~vv~C~sCSL~ikV~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 127 (132)
.+-|.|++|. .+.|+|.+ ++.++.|..|+-.|
T Consensus 5 Fm~VkCp~C~-~~q~vFSh-----------------a~t~V~C~~Cg~~L 36 (55)
T PF01667_consen 5 FMDVKCPGCY-NIQTVFSH-----------------AQTVVKCVVCGTVL 36 (55)
T ss_dssp EEEEE-TTT--SEEEEETT------------------SS-EE-SSSTSEE
T ss_pred EEEEECCCCC-CeeEEEec-----------------CCeEEEcccCCCEe
Confidence 5678888884 35677743 44556777776554
No 94
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=49.30 E-value=13 Score=26.89 Aligned_cols=43 Identities=26% Similarity=0.531 Sum_probs=25.2
Q ss_pred EeeeccCCCeEEEeeccccCCCCCCceEEECCCCC-ceEEEEecCCccee
Q psy7115 53 FTYPCRCGAEFCIEEQDTEGDGSDDNILIACDTCS-LLLEITARCGAEFC 101 (132)
Q Consensus 53 ~~~~CRCGg~f~It~edL~~G~~~~~~vv~C~sCS-L~ikV~~~~~e~~~ 101 (132)
-.-.|.||..|.+....+..- .....||.|. ..++|.. |.|.-
T Consensus 69 ~~~~C~Cg~~~~~~~~~~~~~----~~~~~CP~Cgs~~~~i~~--G~El~ 112 (124)
T PRK00762 69 VEIECECGYEGVVDEDEIDHY----AAVIECPVCGNKRAHILG--GRECN 112 (124)
T ss_pred eeEEeeCcCcccccccchhcc----ccCCcCcCCCCCCCEEec--CCeEE
Confidence 346678887777664332211 2246799996 5666655 55443
No 95
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=49.26 E-value=16 Score=21.03 Aligned_cols=19 Identities=26% Similarity=0.595 Sum_probs=10.8
Q ss_pred ceEEECCCCCceEEEEecC
Q psy7115 78 NILIACDTCSLLLEITARC 96 (132)
Q Consensus 78 ~~vv~C~sCSL~ikV~~~~ 96 (132)
+.++.|++|++.|+-.=+.
T Consensus 2 n~ll~C~~C~v~VH~~CYG 20 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYG 20 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT
T ss_pred CceEEeCCCCCcCChhhCC
Confidence 4688999999887644433
No 96
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=47.36 E-value=28 Score=20.29 Aligned_cols=29 Identities=31% Similarity=0.726 Sum_probs=16.9
Q ss_pred eec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEE
Q psy7115 55 YPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLE 91 (132)
Q Consensus 55 ~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ik 91 (132)
|.| .||....+.. -.. .-+-|+.|.+.+.
T Consensus 1 m~Cp~Cg~~~~~~D--~~~------g~~vC~~CG~Vl~ 30 (43)
T PF08271_consen 1 MKCPNCGSKEIVFD--PER------GELVCPNCGLVLE 30 (43)
T ss_dssp ESBTTTSSSEEEEE--TTT------TEEEETTT-BBEE
T ss_pred CCCcCCcCCceEEc--CCC------CeEECCCCCCEee
Confidence 468 8998763332 122 2458999976654
No 97
>PF00684 DnaJ_CXXCXGXG: DnaJ central domain; InterPro: IPR001305 The hsp70 chaperone machine performs many diverse roles in the cell, including folding of nascent proteins, translocation of polypeptides across organelle membranes, coordinating responses to stress, and targeting selected proteins for degradation. DnaJ is a member of the hsp40 family of molecular chaperones, which is also called the J-protein family, the members of which regulate the activity of hsp70s. DnaJ (hsp40) binds to DnaK (hsp70) and stimulates its ATPase activity, generating the ADP-bound state of DnaK, which interacts stably with the polypeptide substrate []. Besides stimulating the ATPase activity of DnaK through its J-domain, DnaJ also associates with unfolded polypeptide chains and prevents their aggregation []. DnaJ consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acid residues, a glycine and phenylalanine-rich domain ('G/F' domain), a central cysteine rich domain (CR-type zinc finger) containing four repeats of a CXXCXGXG motif which can coordinate two zinc atom and a C-terminal domain (CTD) []. This entry represents the central cysteine-rich (CR) domain of DnaJ proteins. This central cysteine rich domain (CR-type zinc finger) has an overall V-shaped extended beta-hairpin topology and contains four repeats of the motif CXXCXGXG where X is any amino acid. The isolated cysteine rich domain folds in zinc dependent fashion. Each set of two repeats binds one unit of zinc. Although this domain has been implicated in substrate binding, no evidence of specific interaction between the isolated DnaJ cysteine rich domain and various hydrophobic peptides has been found [].; GO: 0031072 heat shock protein binding, 0051082 unfolded protein binding; PDB: 1NLT_A 2CTT_A 1EXK_A.
Probab=47.18 E-value=26 Score=22.31 Aligned_cols=39 Identities=21% Similarity=0.348 Sum_probs=24.3
Q ss_pred Eeeec-cCCCe-EEEeeccccCCCCCCceEEECCCCCceEEEE
Q psy7115 53 FTYPC-RCGAE-FCIEEQDTEGDGSDDNILIACDTCSLLLEIT 93 (132)
Q Consensus 53 ~~~~C-RCGg~-f~It~edL~~G~~~~~~vv~C~sCSL~ikV~ 93 (132)
....| .|.+. +++.......+ ..+..+.|+.|....+|+
T Consensus 14 ~~~~C~~C~G~G~~~~~~~~~~~--~~~~~~~C~~C~G~G~~i 54 (66)
T PF00684_consen 14 KPKTCPQCNGSGQVTRRQQTPGG--VFQMQQTCPKCGGTGKII 54 (66)
T ss_dssp T-EE-TTSSSSSEEEEEEESSST--TEEEEEE-TTTSSSSEE-
T ss_pred CCcCCcCCCCeeEEEEEEeCCCe--EEEEEEECCCCcceeeEE
Confidence 46788 89875 54444443333 257899999999998887
No 98
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=46.46 E-value=35 Score=23.68 Aligned_cols=16 Identities=19% Similarity=0.412 Sum_probs=8.8
Q ss_pred ceEEECCCCCceEEEEe
Q psy7115 78 NILIACDTCSLLLEITA 94 (132)
Q Consensus 78 ~~vv~C~sCSL~ikV~~ 94 (132)
.+-|.|++|. .+.|+|
T Consensus 33 Fm~VkCp~C~-n~q~VF 48 (85)
T PTZ00083 33 FMDVKCPGCS-QITTVF 48 (85)
T ss_pred EEEEECCCCC-CeeEEE
Confidence 4566666663 345555
No 99
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=45.08 E-value=16 Score=27.45 Aligned_cols=27 Identities=30% Similarity=0.657 Sum_probs=20.4
Q ss_pred eeec-cCCCeEEEeeccccCCCCCCceEEECCCCCce
Q psy7115 54 TYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLL 89 (132)
Q Consensus 54 ~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ 89 (132)
.+.| .||....++.. ..+-+|+.|.-.
T Consensus 112 ~l~C~~Cg~~~~~~~~---------~~l~~Cp~C~~~ 139 (146)
T PF07295_consen 112 TLVCENCGHEVELTHP---------ERLPPCPKCGHT 139 (146)
T ss_pred eEecccCCCEEEecCC---------CcCCCCCCCCCC
Confidence 5899 99998777643 347899999743
No 100
>PLN00209 ribosomal protein S27; Provisional
Probab=44.52 E-value=39 Score=23.51 Aligned_cols=16 Identities=13% Similarity=0.312 Sum_probs=8.8
Q ss_pred ceEEECCCCCceEEEEe
Q psy7115 78 NILIACDTCSLLLEITA 94 (132)
Q Consensus 78 ~~vv~C~sCSL~ikV~~ 94 (132)
.+-|.|++|. .+.|+|
T Consensus 34 Fm~VkCp~C~-n~q~VF 49 (86)
T PLN00209 34 FMDVKCQGCF-NITTVF 49 (86)
T ss_pred EEEEECCCCC-CeeEEE
Confidence 4556666663 345555
No 101
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=42.02 E-value=39 Score=19.73 Aligned_cols=11 Identities=18% Similarity=0.806 Sum_probs=8.1
Q ss_pred ceEEECCCCCc
Q psy7115 78 NILIACDTCSL 88 (132)
Q Consensus 78 ~~vv~C~sCSL 88 (132)
.....|.+|.-
T Consensus 26 T~fy~C~~C~~ 36 (40)
T smart00440 26 TVFYVCTKCGH 36 (40)
T ss_pred eEEEEeCCCCC
Confidence 57788888863
No 102
>PF05907 DUF866: Eukaryotic protein of unknown function (DUF866); InterPro: IPR008584 This family consists of a number of hypothetical eukaryotic proteins of unknown function with an average length of around 165 residues.; PDB: 1ZSO_B.
Probab=41.30 E-value=62 Score=24.53 Aligned_cols=15 Identities=27% Similarity=0.605 Sum_probs=6.5
Q ss_pred ceEEECCCCCceEEE
Q psy7115 78 NILIACDTCSLLLEI 92 (132)
Q Consensus 78 ~~vv~C~sCSL~ikV 92 (132)
+.+.-|..|+=...|
T Consensus 62 Nfv~KCk~C~re~si 76 (161)
T PF05907_consen 62 NFVMKCKFCKRESSI 76 (161)
T ss_dssp SEEE--SSSS--EEE
T ss_pred EeEecCcCcCCccEE
Confidence 556677777744333
No 103
>PRK06260 threonine synthase; Validated
Probab=41.09 E-value=18 Score=30.71 Aligned_cols=32 Identities=31% Similarity=0.767 Sum_probs=21.2
Q ss_pred Eeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEec
Q psy7115 53 FTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITAR 95 (132)
Q Consensus 53 ~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~ 95 (132)
+...| +||..|..+ .....|+.|...+.+.|+
T Consensus 2 ~~~~C~~cg~~~~~~-----------~~~~~Cp~cg~~l~~~y~ 34 (397)
T PRK06260 2 YWLKCIECGKEYDPD-----------EIIYTCPECGGLLEVIYD 34 (397)
T ss_pred CEEEECCCCCCCCCC-----------CccccCCCCCCeEEEEec
Confidence 45778 888666322 123458888888888875
No 104
>KOG0724|consensus
Probab=40.60 E-value=15 Score=30.24 Aligned_cols=24 Identities=38% Similarity=0.465 Sum_probs=20.0
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQL 25 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l 25 (132)
|+.|++||.||.+.++|...|.+.
T Consensus 39 ~k~i~ka~~i~~~~~~~~t~~~~~ 62 (335)
T KOG0724|consen 39 FKKIEKALAILDDDEPRRTPDSWD 62 (335)
T ss_pred HHHHHHHHHHHhccccccchhhhh
Confidence 689999999999977777777655
No 105
>PF12662 cEGF: Complement Clr-like EGF-like
Probab=40.25 E-value=9.8 Score=20.27 Aligned_cols=15 Identities=20% Similarity=0.804 Sum_probs=12.1
Q ss_pred eeeccCCCeEEEeec
Q psy7115 54 TYPCRCGAEFCIEEQ 68 (132)
Q Consensus 54 ~~~CRCGg~f~It~e 68 (132)
+|.|.|...|.++..
T Consensus 1 sy~C~C~~Gy~l~~d 15 (24)
T PF12662_consen 1 SYTCSCPPGYQLSPD 15 (24)
T ss_pred CEEeeCCCCCcCCCC
Confidence 478999999988754
No 106
>PRK14282 chaperone protein DnaJ; Provisional
Probab=39.42 E-value=33 Score=29.02 Aligned_cols=34 Identities=18% Similarity=0.211 Sum_probs=18.6
Q ss_pred ec-cCCCe-EEEeeccccCCCCCCceEEECCCCCceEE
Q psy7115 56 PC-RCGAE-FCIEEQDTEGDGSDDNILIACDTCSLLLE 91 (132)
Q Consensus 56 ~C-RCGg~-f~It~edL~~G~~~~~~vv~C~sCSL~ik 91 (132)
.| +|+|. ..+....+..|.. +...+|+.|..+.+
T Consensus 171 ~C~~C~G~G~~~~~~~~~~G~~--~~~~~C~~C~G~G~ 206 (369)
T PRK14282 171 TCPKCHGTGRIREERRSFFGVF--VSERTCERCGGTGK 206 (369)
T ss_pred CCCCCCCcCEEEEEEEccCcce--EEEEECCCCCCcce
Confidence 46 67664 5555555554432 34556776654443
No 107
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.58 E-value=2.9 Score=28.71 Aligned_cols=33 Identities=27% Similarity=0.794 Sum_probs=23.4
Q ss_pred ceEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCce
Q psy7115 51 QMFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLL 89 (132)
Q Consensus 51 ~~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ 89 (132)
-.|.|.| .||..|.|-.. +. ...++.|+.|+-.
T Consensus 9 PtY~Y~c~~cg~~~dvvq~-----~~-ddplt~ce~c~a~ 42 (82)
T COG2331 9 PTYSYECTECGNRFDVVQA-----MT-DDPLTTCEECGAR 42 (82)
T ss_pred cceEEeecccchHHHHHHh-----cc-cCccccChhhChH
Confidence 3699999 99988754322 21 3568899999944
No 108
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=37.31 E-value=48 Score=24.29 Aligned_cols=48 Identities=23% Similarity=0.580 Sum_probs=27.8
Q ss_pred Eeeec-cCCCeEEEee--ccccCCCCC--------CceEEECCCCCce-EEEEecCCcceee
Q psy7115 53 FTYPC-RCGAEFCIEE--QDTEGDGSD--------DNILIACDTCSLL-LEITARCGAEFCI 102 (132)
Q Consensus 53 ~~~~C-RCGg~f~It~--edL~~G~~~--------~~~vv~C~sCSL~-ikV~~~~~e~~~~ 102 (132)
-.+.| .||..|.+.. ..|...... ......||.|.-+ ++|.. |.|.-+
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~i~~--G~el~i 128 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFEIVK--GRGVYI 128 (135)
T ss_pred eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcEEec--CceEEE
Confidence 56889 7998888872 233221100 1235679999743 55555 555543
No 109
>PF08190 PIH1: pre-RNA processing PIH1/Nop17
Probab=36.30 E-value=28 Score=28.16 Aligned_cols=20 Identities=25% Similarity=0.508 Sum_probs=17.4
Q ss_pred cCChhHHHHHHHHhhhhhhh
Q psy7115 12 LKDEKERKLYESQLLSQQQT 31 (132)
Q Consensus 12 Lsdp~~R~~YD~~l~~~~~~ 31 (132)
||||+.|++|.+++.+....
T Consensus 1 isdp~~~~~~~~~~~~~~~~ 20 (328)
T PF08190_consen 1 ISDPENRKEYEKEIQQLEKE 20 (328)
T ss_pred CCChHHHHHHHHHHHHHHhc
Confidence 69999999999999977654
No 110
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=34.85 E-value=33 Score=18.79 Aligned_cols=26 Identities=27% Similarity=0.451 Sum_probs=12.5
Q ss_pred eec-cCCCeEEEeeccccCCCCCCceEEECCCCCce
Q psy7115 55 YPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLL 89 (132)
Q Consensus 55 ~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ 89 (132)
+.| |||..-.+...+ ..-.|++|...
T Consensus 4 rfC~~CG~~t~~~~~g---------~~r~C~~Cg~~ 30 (32)
T PF09297_consen 4 RFCGRCGAPTKPAPGG---------WARRCPSCGHE 30 (32)
T ss_dssp SB-TTT--BEEE-SSS---------S-EEESSSS-E
T ss_pred cccCcCCccccCCCCc---------CEeECCCCcCE
Confidence 458 999876655442 34567888643
No 111
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=33.24 E-value=1e+02 Score=25.08 Aligned_cols=27 Identities=19% Similarity=0.401 Sum_probs=16.9
Q ss_pred eeec-cCCCeEEEeeccccCCCCCCceEEECCCCC
Q psy7115 54 TYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCS 87 (132)
Q Consensus 54 ~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCS 87 (132)
..|| |||....- ..+. | -...-|+.|.
T Consensus 244 g~pCprCG~~I~~--~~~~-g----R~t~~CP~CQ 271 (272)
T PRK14810 244 GEPCLNCKTPIRR--VVVA-G----RSSHYCPHCQ 271 (272)
T ss_pred CCcCCCCCCeeEE--EEEC-C----CccEECcCCc
Confidence 3599 99976522 2221 2 4568899995
No 112
>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function.
Probab=31.37 E-value=39 Score=20.78 Aligned_cols=15 Identities=27% Similarity=0.645 Sum_probs=7.4
Q ss_pred ceEEECCCCCceEEE
Q psy7115 78 NILIACDTCSLLLEI 92 (132)
Q Consensus 78 ~~vv~C~sCSL~ikV 92 (132)
+..++|.+||-.|.+
T Consensus 29 ~~klrCGaCs~vl~~ 43 (46)
T PF11331_consen 29 QQKLRCGACSEVLSF 43 (46)
T ss_pred eeEEeCCCCceeEEE
Confidence 345555555544443
No 113
>PF00880 Nebulin: Nebulin repeat; InterPro: IPR000900 Nebulin is a 600-800kDa protein found in the thin filaments of striated vertebrate muscle. It is presumed to play a role in binding and stabilising F-actin [], essentially by providing a template for actin polymerisation (i.e., acting as an "actin zipper"). The amino acid sequence shows a uniform repeating pattern along its length, a repeated 35-residue motif constituting up to 97% of the polypeptide. Analysis of individual repeats reveals a progressive N- to C-terminal divergence, coupled with an increasing alpha-helix propensity. This correlates with a higher binding affinity for F-actin at the C terminus. Thus, it is postulated that once the repeats have formed an initiation complex, the whole length of the nebulin molecule may then associate in a highly co-operative process with the thin filament, in a manner similar to the closing of a zipper [].
Probab=31.34 E-value=46 Score=17.62 Aligned_cols=23 Identities=22% Similarity=0.304 Sum_probs=20.0
Q ss_pred hhhHHHHHHhcCChhHHHHHHHH
Q psy7115 2 FLKINEAWNILKDEKERKLYESQ 24 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~ 24 (132)
|...++|.+++||-.-|+.|+..
T Consensus 5 ~~~ak~~~~~~Sd~~Yk~~~ek~ 27 (29)
T PF00880_consen 5 MVHAKKAAQLQSDVKYKEDYEKS 27 (29)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc
Confidence 67789999999999999999764
No 114
>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=31.06 E-value=29 Score=26.07 Aligned_cols=31 Identities=23% Similarity=0.498 Sum_probs=22.1
Q ss_pred eEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceE
Q psy7115 52 MFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLL 90 (132)
Q Consensus 52 ~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~i 90 (132)
.-.|.| +|+-.|.+.+. +.. -+.||.|.-.+
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA-~~~-------~F~Cp~Cg~~L 138 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEA-MEL-------NFTCPRCGAML 138 (158)
T ss_pred CCeEECCCCCcEeeHHHH-HHc-------CCcCCCCCCEe
Confidence 467899 99988866544 333 37899998663
No 115
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=30.32 E-value=29 Score=27.68 Aligned_cols=35 Identities=17% Similarity=0.493 Sum_probs=17.1
Q ss_pred eEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCce
Q psy7115 52 MFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLL 89 (132)
Q Consensus 52 ~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ 89 (132)
..+++| .|| .-.++.+-|-.+ +...++.|.+|...
T Consensus 4 ~iy~~Cp~Cg-~eev~hEVik~~--g~~~lvrC~eCG~V 39 (201)
T COG1326 4 EIYIECPSCG-SEEVSHEVIKER--GREPLVRCEECGTV 39 (201)
T ss_pred eEEEECCCCC-cchhhHHHHHhc--CCceEEEccCCCcE
Confidence 346677 777 222222222222 13567777777543
No 116
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=30.12 E-value=24 Score=27.17 Aligned_cols=31 Identities=26% Similarity=0.595 Sum_probs=22.2
Q ss_pred eEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceE
Q psy7115 52 MFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLL 90 (132)
Q Consensus 52 ~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~i 90 (132)
.-.|.| +|+-.|.+.+. ++. -+.||.|.-.+
T Consensus 115 ~~~Y~Cp~C~~rytf~eA-~~~-------~F~Cp~Cg~~L 146 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEA-MEY-------GFRCPQCGEML 146 (178)
T ss_pred CCEEECCCCCcEEeHHHH-hhc-------CCcCCCCCCCC
Confidence 457899 99988877643 333 47899997553
No 117
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=29.48 E-value=81 Score=20.41 Aligned_cols=18 Identities=11% Similarity=0.357 Sum_probs=11.6
Q ss_pred CceEEECCCCCceEEEEec
Q psy7115 77 DNILIACDTCSLLLEITAR 95 (132)
Q Consensus 77 ~~~vv~C~sCSL~ikV~~~ 95 (132)
..+.|.|++|.- +.|+|.
T Consensus 8 ~F~~VkCp~C~n-~q~vFs 25 (59)
T PRK00415 8 RFLKVKCPDCGN-EQVVFS 25 (59)
T ss_pred eEEEEECCCCCC-eEEEEe
Confidence 356778888853 466663
No 118
>PRK14277 chaperone protein DnaJ; Provisional
Probab=29.20 E-value=70 Score=27.27 Aligned_cols=35 Identities=20% Similarity=0.251 Sum_probs=17.8
Q ss_pred eec-cCCCe-EEEeeccccCCCCCCceEEECCCCCceEE
Q psy7115 55 YPC-RCGAE-FCIEEQDTEGDGSDDNILIACDTCSLLLE 91 (132)
Q Consensus 55 ~~C-RCGg~-f~It~edL~~G~~~~~~vv~C~sCSL~ik 91 (132)
..| .|++. ..+....+..|.. +...+|+.|....+
T Consensus 173 ~~C~~C~G~G~~~~~~~~~~G~~--~~~~~C~~C~G~G~ 209 (386)
T PRK14277 173 VTCPVCHGTGQVRTRQNTPFGRI--VNIRTCDRCHGEGK 209 (386)
T ss_pred ccCCCCCCEEEEEEEEeccCceE--EEEEECCCCCccee
Confidence 345 56654 5555555544432 34456766654443
No 119
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=29.08 E-value=71 Score=23.83 Aligned_cols=33 Identities=15% Similarity=0.475 Sum_probs=22.5
Q ss_pred ceEEECCCCCceEEEEecCCcceeeccccccCCCCCccEEEEcCCce
Q psy7115 78 NILIACDTCSLLLEITARCGAEFCIEEQDTKGDSSEGNILIACDTCS 124 (132)
Q Consensus 78 ~~vv~C~sCSL~ikV~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~ 124 (132)
.-.|+|+.|+..=||...... .+.+++-|..|-
T Consensus 108 ~rfv~C~~C~Gs~k~~~~~~~--------------~~~~~~rC~~Cn 140 (147)
T cd03031 108 ARFVPCSECNGSCKVFAENAT--------------AAGGFLRCPECN 140 (147)
T ss_pred cCeEECCCCCCcceEEeccCc--------------ccccEEECCCCC
Confidence 446899999999898652211 334578888874
No 120
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=28.68 E-value=66 Score=18.51 Aligned_cols=10 Identities=20% Similarity=0.614 Sum_probs=6.2
Q ss_pred ceEEECCCCC
Q psy7115 78 NILIACDTCS 87 (132)
Q Consensus 78 ~~vv~C~sCS 87 (132)
..+-.|++|.
T Consensus 17 ~~id~C~~C~ 26 (41)
T PF13453_consen 17 VEIDVCPSCG 26 (41)
T ss_pred EEEEECCCCC
Confidence 4556677774
No 121
>KOG1779|consensus
Probab=28.42 E-value=1.3e+02 Score=20.79 Aligned_cols=38 Identities=18% Similarity=0.414 Sum_probs=27.5
Q ss_pred ceEeeeccCCCeEEEeeccccCCCCCCceEEECCCCCceEEEE
Q psy7115 51 QMFTYPCRCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEIT 93 (132)
Q Consensus 51 ~~~~~~CRCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~ 93 (132)
+.|.+.=+|++-|.||-- ... .+.+|-|.+|+..+-..
T Consensus 29 nsyFm~VkC~gc~~iT~v--fSH---aqtvVvc~~c~~il~~~ 66 (84)
T KOG1779|consen 29 NSYFMDVKCPGCFKITTV--FSH---AQTVVVCEGCSTILCQP 66 (84)
T ss_pred CceEEEEEcCCceEEEEE--eec---CceEEEcCCCceEEEEe
Confidence 457777799999888743 222 47899999999776443
No 122
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=28.22 E-value=49 Score=23.81 Aligned_cols=25 Identities=24% Similarity=0.162 Sum_probs=20.5
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLL 26 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~ 26 (132)
+.++.+.++.|+||.+|+....-..
T Consensus 3 ~~~~~~~fkaLadptRl~IL~~L~~ 27 (117)
T PRK10141 3 FLLPLQLFKILSDETRLGIVLLLRE 27 (117)
T ss_pred hhHHHHHHHHhCCHHHHHHHHHHHH
Confidence 3567789999999999999986543
No 123
>PHA00616 hypothetical protein
Probab=27.88 E-value=13 Score=22.74 Aligned_cols=10 Identities=60% Similarity=1.481 Sum_probs=7.1
Q ss_pred eec-cCCCeEE
Q psy7115 55 YPC-RCGAEFC 64 (132)
Q Consensus 55 ~~C-RCGg~f~ 64 (132)
|.| |||..|.
T Consensus 2 YqC~~CG~~F~ 12 (44)
T PHA00616 2 YQCLRCGGIFR 12 (44)
T ss_pred CccchhhHHHh
Confidence 578 8887653
No 124
>PRK14276 chaperone protein DnaJ; Provisional
Probab=26.79 E-value=53 Score=27.93 Aligned_cols=10 Identities=30% Similarity=0.398 Sum_probs=6.6
Q ss_pred hhHHHHHHhc
Q psy7115 3 LKINEAWNIL 12 (132)
Q Consensus 3 ~~I~eAyevL 12 (132)
.+|++||.-|
T Consensus 19 ~eik~ayr~l 28 (380)
T PRK14276 19 DEIKKAYRKL 28 (380)
T ss_pred HHHHHHHHHH
Confidence 4667777766
No 125
>PF11833 DUF3353: Protein of unknown function (DUF3353); InterPro: IPR021788 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 205 to 258 amino acids in length.
Probab=26.51 E-value=84 Score=24.60 Aligned_cols=27 Identities=41% Similarity=0.615 Sum_probs=21.7
Q ss_pred hhhHHHHHHhc-----CChhHHH----HHHHHhhhh
Q psy7115 2 FLKINEAWNIL-----KDEKERK----LYESQLLSQ 28 (132)
Q Consensus 2 F~~I~eAyevL-----sdp~~R~----~YD~~l~~~ 28 (132)
|.+||+|++-| .|+.+|+ +||+-+.++
T Consensus 6 feEIq~Arn~ll~~y~gd~~~~~~IEaAYD~ILM~r 41 (194)
T PF11833_consen 6 FEEIQAARNRLLAQYAGDEKSREAIEAAYDAILMER 41 (194)
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Confidence 88999999988 6777774 699877765
No 126
>TIGR03844 cysteate_syn cysteate synthase. Members of this family are cysteate synthase, an enzyme of alternate pathway to sulfopyruvate, a precursor of coenzyme M.
Probab=26.41 E-value=54 Score=28.21 Aligned_cols=31 Identities=23% Similarity=0.442 Sum_probs=20.2
Q ss_pred Eeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEec
Q psy7115 53 FTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITAR 95 (132)
Q Consensus 53 ~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~ 95 (132)
|++.| |||..|. +.. ...|+.|-..+.+.|+
T Consensus 1 ~~l~C~~Cg~~~~---~~~---------~~~C~~c~g~l~~~y~ 32 (398)
T TIGR03844 1 YTLRCPGCGEVLP---DHY---------TLSCPLDCGLLRAEYA 32 (398)
T ss_pred CEEEeCCCCCccC---Ccc---------ccCCCCCCCceEEeec
Confidence 56788 9997772 211 2458877767777775
No 127
>PRK07591 threonine synthase; Validated
Probab=26.27 E-value=52 Score=28.33 Aligned_cols=32 Identities=31% Similarity=0.680 Sum_probs=23.9
Q ss_pred eEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceEEEEec
Q psy7115 52 MFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLLEITAR 95 (132)
Q Consensus 52 ~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~ 95 (132)
.+.+.| +||..|.+. .. ..|+.|...+.|.|+
T Consensus 16 ~~~l~C~~Cg~~~~~~-----------~~-~~C~~cg~~l~~~y~ 48 (421)
T PRK07591 16 AVALKCRECGAEYPLG-----------PI-HVCEECFGPLEVAYD 48 (421)
T ss_pred eeEEEeCCCCCcCCCC-----------CC-ccCCCCCCeEEEEec
Confidence 467899 999877432 12 569999989999985
No 128
>KOG3053|consensus
Probab=26.01 E-value=22 Score=29.73 Aligned_cols=39 Identities=23% Similarity=0.496 Sum_probs=26.3
Q ss_pred eEeeeccCCCe----------EEEeeccccCCCCCCceEEECCCCCceEEEEe
Q psy7115 52 MFTYPCRCGAE----------FCIEEQDTEGDGSDDNILIACDTCSLLLEITA 94 (132)
Q Consensus 52 ~~~~~CRCGg~----------f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~ 94 (132)
.|.+||||-|. -=|++.++.+ ....|.|+-|.-.-.+.+
T Consensus 37 ~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n----~~q~V~C~QCqTEYiiv~ 85 (293)
T KOG3053|consen 37 AWVHPCRCRGTTKWVHQSCLSRWIDEKQRGN----PLQTVSCPQCQTEYIIVF 85 (293)
T ss_pred hhcccccccCccHHHHHHHHHHHHhHHhcCC----CCceeechhhcchheeec
Confidence 59999999875 2255555532 256899999985444444
No 129
>cd08874 START_STARD9-like C-terminal START domain of mammalian STARD9, and related domains; lipid binding. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD9 (also known as KIAA1300), and related domains. The START domain family belongs to the SRPBCC (START/RHO_alpha_C /PITP /Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Some members of this subfamily have N-terminal kinesin motor domains. STARD9 interacts with supervillin, a protein important for efficient cytokinesis, perhaps playing a role in coordinating microtubule motors with actin and myosin II functions at membranes. The human gene encoding STARD9 lies within a target region for LGMD2A, an autosomal recessive form of limb-girdle muscular dystrophy.
Probab=25.20 E-value=44 Score=26.16 Aligned_cols=25 Identities=24% Similarity=0.646 Sum_probs=21.5
Q ss_pred HHHHHHhcCChhHHHHHHHHhhhhh
Q psy7115 5 INEAWNILKDEKERKLYESQLLSQQ 29 (132)
Q Consensus 5 I~eAyevLsdp~~R~~YD~~l~~~~ 29 (132)
..+.|.+|.|+..|.++|..+.+.+
T Consensus 57 ~~~v~~ll~D~~~r~~Wd~~~~~~~ 81 (205)
T cd08874 57 LATVWKAVKDPRTRFLYDTMIKTAR 81 (205)
T ss_pred HHHHHHHHhCcchhhhhHHhhhhee
Confidence 4688999999999999999777643
No 130
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=25.17 E-value=2.1e+02 Score=23.24 Aligned_cols=26 Identities=23% Similarity=0.588 Sum_probs=16.8
Q ss_pred eec-cCCCeEEEeeccccCCCCCCceEEECCCCC
Q psy7115 55 YPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCS 87 (132)
Q Consensus 55 ~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCS 87 (132)
.|| |||....- ..+ .| -...-|+.|.
T Consensus 255 ~pC~~Cg~~I~~--~~~-~g----R~t~~CP~CQ 281 (282)
T PRK13945 255 KPCRKCGTPIER--IKL-AG----RSTHWCPNCQ 281 (282)
T ss_pred CCCCcCCCeeEE--EEE-CC----CccEECCCCc
Confidence 499 99986432 222 23 4578899995
No 131
>KOG3960|consensus
Probab=24.65 E-value=34 Score=28.50 Aligned_cols=18 Identities=33% Similarity=0.571 Sum_probs=14.4
Q ss_pred hhhHHHHHHhc-----CChhHHH
Q psy7115 2 FLKINEAWNIL-----KDEKERK 19 (132)
Q Consensus 2 F~~I~eAyevL-----sdp~~R~ 19 (132)
.++|+||+|+| +||..|-
T Consensus 130 LkKVNEAFE~LKRrT~~NPNQRL 152 (284)
T KOG3960|consen 130 LKKVNEAFETLKRRTSSNPNQRL 152 (284)
T ss_pred HHHHHHHHHHHHhhcCCCccccc
Confidence 57899999998 5777663
No 132
>COG5061 ERO1 Oxidoreductin, endoplasmic reticulum membrane-associated protein involved in disulfide bond formation [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=24.46 E-value=34 Score=29.88 Aligned_cols=18 Identities=22% Similarity=0.490 Sum_probs=15.5
Q ss_pred eEEECCCCCceEEEEecC
Q psy7115 79 ILIACDTCSLLLEITARC 96 (132)
Q Consensus 79 ~vv~C~sCSL~ikV~~~~ 96 (132)
.-|+|+.|.||++|....
T Consensus 310 dcVgCekCrLWGkIQttG 327 (425)
T COG5061 310 DCVGCEKCRLWGKIQTTG 327 (425)
T ss_pred HhcCchhhheeeeeeecc
Confidence 479999999999998763
No 133
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=24.43 E-value=1.1e+02 Score=23.07 Aligned_cols=9 Identities=22% Similarity=0.327 Sum_probs=5.4
Q ss_pred EEEEecCCc
Q psy7115 90 LEITARCGA 98 (132)
Q Consensus 90 ikV~~~~~e 98 (132)
++|+..+|.
T Consensus 49 i~VIKRDG~ 57 (154)
T PRK00464 49 LLVIKKDGR 57 (154)
T ss_pred cEEEecCCc
Confidence 566666664
No 134
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=24.18 E-value=70 Score=22.75 Aligned_cols=36 Identities=31% Similarity=0.643 Sum_probs=22.4
Q ss_pred Eeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCce-EEEEecCCccee
Q psy7115 53 FTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLL-LEITARCGAEFC 101 (132)
Q Consensus 53 ~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~-ikV~~~~~e~~~ 101 (132)
-.-.| +||..|.+... ...||.|.-. ++|.. |.|.-
T Consensus 69 ~~~~C~~Cg~~~~~~~~-----------~~~CP~Cgs~~~~i~~--G~El~ 106 (115)
T TIGR00100 69 VECECEDCSEEVSPEID-----------LYRCPKCHGIMLQVRA--GKELN 106 (115)
T ss_pred cEEEcccCCCEEecCCc-----------CccCcCCcCCCcEEec--CCeEE
Confidence 35678 89977765532 3579999854 44544 55554
No 135
>COG3427 Carbon monoxide dehydrogenase subunit G, CoxG [Energy production and conversion]
Probab=24.18 E-value=57 Score=24.71 Aligned_cols=17 Identities=18% Similarity=0.436 Sum_probs=14.1
Q ss_pred hHHHHHHhcCChhHHHH
Q psy7115 4 KINEAWNILKDEKERKL 20 (132)
Q Consensus 4 ~I~eAyevLsdp~~R~~ 20 (132)
-+.++|+-|.||++.+.
T Consensus 12 p~e~Vw~~L~dpe~~a~ 28 (146)
T COG3427 12 PPEAVWEFLNDPEQVAA 28 (146)
T ss_pred CHHHHHHHhcCHHHHHh
Confidence 36799999999988754
No 136
>KOG1150|consensus
Probab=23.60 E-value=94 Score=25.30 Aligned_cols=26 Identities=23% Similarity=0.359 Sum_probs=21.1
Q ss_pred hhhHHHHHHhcCChhHHHHHHHHhhh
Q psy7115 2 FLKINEAWNILKDEKERKLYESQLLS 27 (132)
Q Consensus 2 F~~I~eAyevLsdp~~R~~YD~~l~~ 27 (132)
|.-|++||..|-|+.-|+.-+.-...
T Consensus 97 FdivkKA~k~l~n~~~rkr~~~~y~~ 122 (250)
T KOG1150|consen 97 FDIVKKAYKLLENDKIRKRCLDVYTA 122 (250)
T ss_pred HHHHHHHHHHHhCHHHHHHHHHHHHH
Confidence 77899999999999988776655443
No 137
>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=23.56 E-value=85 Score=19.19 Aligned_cols=18 Identities=17% Similarity=0.283 Sum_probs=15.6
Q ss_pred HHHHhcCChhHHHHHHHH
Q psy7115 7 EAWNILKDEKERKLYESQ 24 (132)
Q Consensus 7 eAyevLsdp~~R~~YD~~ 24 (132)
+..++|+||.+++.+..-
T Consensus 2 ~i~~aL~~p~R~~Il~~L 19 (61)
T PF12840_consen 2 EIFKALSDPTRLRILRLL 19 (61)
T ss_dssp HHHHHHTSHHHHHHHHHH
T ss_pred HHHHHhCCHHHHHHHHHH
Confidence 567899999999999866
No 138
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=23.55 E-value=72 Score=22.53 Aligned_cols=36 Identities=36% Similarity=0.702 Sum_probs=21.4
Q ss_pred Eeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCce-EEEEecCCccee
Q psy7115 53 FTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLL-LEITARCGAEFC 101 (132)
Q Consensus 53 ~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~-ikV~~~~~e~~~ 101 (132)
..-.| .||..|.+.... ..||.|.-. ++|.. |.|.-
T Consensus 69 ~~~~C~~Cg~~~~~~~~~-----------~~CP~Cgs~~~~i~~--G~el~ 106 (113)
T PF01155_consen 69 ARARCRDCGHEFEPDEFD-----------FSCPRCGSPDVEIIS--GRELR 106 (113)
T ss_dssp -EEEETTTS-EEECHHCC-----------HH-SSSSSS-EEEEE--SS-EE
T ss_pred CcEECCCCCCEEecCCCC-----------CCCcCCcCCCcEEcc--CCeEE
Confidence 45778 899888776553 349999866 45554 55543
No 139
>PF04502 DUF572: Family of unknown function (DUF572) ; InterPro: IPR007590 This entry represents eukaryotic proteins with undetermined function belonging to the CWC16 family.
Probab=22.97 E-value=1.4e+02 Score=25.00 Aligned_cols=52 Identities=21% Similarity=0.455 Sum_probs=33.0
Q ss_pred Eeeec-cCCCe------EEEeeccccC----CCCCCceEEECCCCCceEEEEecCCc-ceeecc
Q psy7115 53 FTYPC-RCGAE------FCIEEQDTEG----DGSDDNILIACDTCSLLLEITARCGA-EFCIEE 104 (132)
Q Consensus 53 ~~~~C-RCGg~------f~It~edL~~----G~~~~~~vv~C~sCSL~ikV~~~~~e-~~~~~~ 104 (132)
|...| -||.. |--..+.+.. +.....-.+-|+.|+-+|.|..++.- +|+.+.
T Consensus 39 f~i~C~~C~~~I~kG~rFNA~Ke~v~~E~Yls~~I~rF~~kC~~C~~~i~~kTDPkn~dY~~~~ 102 (324)
T PF04502_consen 39 FNIWCNTCGEYIYKGVRFNARKEKVGNEKYLSTPIYRFYIKCPRCSNEIEFKTDPKNTDYVVES 102 (324)
T ss_pred ccCcCCCCccccccceeeeeeeEecCCCccccceEEEEEEEcCCCCCEEeeecCCCCCCeeeec
Confidence 66778 88842 5555554433 11123458899999999999988653 444444
No 140
>PRK14283 chaperone protein DnaJ; Provisional
Probab=22.95 E-value=89 Score=26.52 Aligned_cols=34 Identities=18% Similarity=0.270 Sum_probs=16.9
Q ss_pred eec-cCCCe-EEEeeccccCCCCCCceEEECCCCCceE
Q psy7115 55 YPC-RCGAE-FCIEEQDTEGDGSDDNILIACDTCSLLL 90 (132)
Q Consensus 55 ~~C-RCGg~-f~It~edL~~G~~~~~~vv~C~sCSL~i 90 (132)
..| .|.+. .......+..|.. +...+|+.|..+.
T Consensus 164 ~~C~~C~G~G~~~~~~~~~~g~~--~~~~~C~~C~G~G 199 (378)
T PRK14283 164 KTCPTCGGTGQVKQVRNTILGQM--MNVTTCPDCQGEG 199 (378)
T ss_pred ccCCCcCCccEEEEEEeccCceE--EEEEECCCCCccc
Confidence 345 56654 5555555444422 3445666664443
No 141
>PRK14280 chaperone protein DnaJ; Provisional
Probab=22.77 E-value=92 Score=26.46 Aligned_cols=10 Identities=30% Similarity=0.398 Sum_probs=6.0
Q ss_pred hhHHHHHHhc
Q psy7115 3 LKINEAWNIL 12 (132)
Q Consensus 3 ~~I~eAyevL 12 (132)
.+|++||.-|
T Consensus 19 ~eik~ayr~l 28 (376)
T PRK14280 19 DEIKKAYRKL 28 (376)
T ss_pred HHHHHHHHHH
Confidence 3566666655
No 142
>TIGR02642 phage_xxxx uncharacterized phage protein. This uncharacterized protein is found in prophage regions of Shewanella oneidensis MR-1, Vibrio vulnificus YJ016, Yersinia pseudotuberculosis IP 32953, and Aeromonas hydrophila ATCC7966. It appears to have regions of sequence similarity to phage lambda antitermination protein Q.
Probab=22.77 E-value=61 Score=25.39 Aligned_cols=35 Identities=23% Similarity=0.460 Sum_probs=23.8
Q ss_pred eeec-cCCCe-EEEeeccccCCCCCCceEEECCCCCceEEEEecCCcce
Q psy7115 54 TYPC-RCGAE-FCIEEQDTEGDGSDDNILIACDTCSLLLEITARCGAEF 100 (132)
Q Consensus 54 ~~~C-RCGg~-f~It~edL~~G~~~~~~vv~C~sCSL~ikV~~~~~e~~ 100 (132)
..+| +|+|. +.+... -+|+.|...++|........
T Consensus 99 ~~~C~~C~G~G~~i~~~------------~~C~~C~G~G~v~~~~~~~~ 135 (186)
T TIGR02642 99 SCKCPRCRGTGLIQRRQ------------RECDTCAGTGRFRPTVEDLL 135 (186)
T ss_pred CCcCCCCCCeeEEecCC------------CCCCCCCCccEEeeeEEEEE
Confidence 6778 88875 555422 27999998888877655444
No 143
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 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 zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=22.47 E-value=1.5e+02 Score=17.02 Aligned_cols=10 Identities=20% Similarity=0.846 Sum_probs=6.1
Q ss_pred ceEEECCCCC
Q psy7115 78 NILIACDTCS 87 (132)
Q Consensus 78 ~~vv~C~sCS 87 (132)
.....|.+|+
T Consensus 26 T~fy~C~~C~ 35 (39)
T PF01096_consen 26 TLFYVCCNCG 35 (39)
T ss_dssp EEEEEESSST
T ss_pred eEEEEeCCCC
Confidence 4566666665
No 144
>PRK14281 chaperone protein DnaJ; Provisional
Probab=22.30 E-value=1.1e+02 Score=26.18 Aligned_cols=35 Identities=20% Similarity=0.255 Sum_probs=17.9
Q ss_pred ec-cCCCe-EEEeeccccCCCCCCceEEECCCCCceEEE
Q psy7115 56 PC-RCGAE-FCIEEQDTEGDGSDDNILIACDTCSLLLEI 92 (132)
Q Consensus 56 ~C-RCGg~-f~It~edL~~G~~~~~~vv~C~sCSL~ikV 92 (132)
.| .|++. .......+..|.. +...+|+.|....++
T Consensus 181 ~C~~C~G~G~~~~~~~~~~g~~--~~~~~C~~C~G~G~~ 217 (397)
T PRK14281 181 TCPTCHGSGEVRQASKTMFGQF--VNITACPTCGGEGRV 217 (397)
T ss_pred cCCCCCCCcEEEEEEecccceE--EEEEecCCCcceeee
Confidence 45 56654 4444443333322 345677777665554
No 145
>PTZ00037 DnaJ_C chaperone protein; Provisional
Probab=22.12 E-value=90 Score=27.20 Aligned_cols=37 Identities=14% Similarity=0.331 Sum_probs=18.5
Q ss_pred eec-cCCCe-EEEeeccccCCCCCCceEEECCCCCceEEEE
Q psy7115 55 YPC-RCGAE-FCIEEQDTEGDGSDDNILIACDTCSLLLEIT 93 (132)
Q Consensus 55 ~~C-RCGg~-f~It~edL~~G~~~~~~vv~C~sCSL~ikV~ 93 (132)
..| .|+|. ..+....+... ..+...+|+.|..+.+++
T Consensus 167 ~~C~~C~G~G~~~~~~~~g~~--~~q~~~~C~~C~G~G~~i 205 (421)
T PTZ00037 167 VDCKLCNGQGIRVQIRQMGSM--IHQTQSTCNSCNGQGKII 205 (421)
T ss_pred ccCCCCCCCCeEEEEEeecce--eeEEEEeCCCCCCcceec
Confidence 457 77764 44444443221 124455666665555443
No 146
>PRK14278 chaperone protein DnaJ; Provisional
Probab=21.99 E-value=1.1e+02 Score=26.16 Aligned_cols=36 Identities=22% Similarity=0.285 Sum_probs=16.0
Q ss_pred eec-cCCCe-EEEeeccccCCCCCCceEEECCCCCceEEE
Q psy7115 55 YPC-RCGAE-FCIEEQDTEGDGSDDNILIACDTCSLLLEI 92 (132)
Q Consensus 55 ~~C-RCGg~-f~It~edL~~G~~~~~~vv~C~sCSL~ikV 92 (132)
..| .|.+. ..++......|. .+...+|+.|..+.++
T Consensus 157 ~~C~~C~G~G~~~~~~~~~~g~--~~~~~~C~~C~G~G~~ 194 (378)
T PRK14278 157 VTCDTCGGRGEVQTVQRSFLGQ--VMTSRPCPTCRGVGEV 194 (378)
T ss_pred eecCCccCceEEEEEEecccee--EEEEEECCCCCcccee
Confidence 345 66654 333333222221 1334566666544443
No 147
>PF02754 CCG: Cysteine-rich domain; InterPro: IPR004017 This domain is usually found in two copies per protein. It contains up to four conserved cysteines. The group includes proteins characterised as: heterodisulphide reductase, subunit B (HrdB); succinate dehydrogenase, subunit C (SdhC, 1.3.99.1 from EC); Fe-S oxidoreductase; glycerol-3-phosphate dehydrogenase subunit C (Anaerobic GlpC, 1.1.99.5 from EC); and glycolate oxidase iron-sulphur subunit (GlcF) [].
Probab=21.98 E-value=24 Score=22.00 Aligned_cols=15 Identities=33% Similarity=0.848 Sum_probs=12.1
Q ss_pred CceEEECCCCCceEE
Q psy7115 77 DNILIACDTCSLLLE 91 (132)
Q Consensus 77 ~~~vv~C~sCSL~ik 91 (132)
..+++.|++|.+.+|
T Consensus 71 ~~iv~~c~~C~~~lr 85 (85)
T PF02754_consen 71 DTIVTPCPSCYMQLR 85 (85)
T ss_pred CEEEEeChhHHHhhC
Confidence 468999999987654
No 148
>cd08914 START_STARD15-like Lipid-binding START domain of mammalian STARD15 and related proteins. This subgroup includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of STARD15/ACOT12 (also known as cytoplasmic acetyl-CoA hydrolase/CACH, THEAL, and MGC105114) and related domains. It belongs to the START domain family, and in turn to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD15/ACOT12 is a type II acetyl-CoA thioesterase; it catalyzes the hydrolysis of acyl-CoAs to free fatty acid and CoASH. Rat CACH hydrolyzes acetyl-CoA to acetate and CoA. In addition to having a START domain, most proteins in this subgroup have two tandem copies of the hotdog domain. Human STARD15/ACOT12 may have roles in cholesterol metabolism and in beta-oxidation.
Probab=21.61 E-value=50 Score=26.76 Aligned_cols=25 Identities=28% Similarity=0.499 Sum_probs=22.1
Q ss_pred HHHHHHhcCChhHHHHHHHHhhhhh
Q psy7115 5 INEAWNILKDEKERKLYESQLLSQQ 29 (132)
Q Consensus 5 I~eAyevLsdp~~R~~YD~~l~~~~ 29 (132)
..++|.+|.|++.|+++|....+.+
T Consensus 90 ~~~l~~LL~D~~~r~~Wd~~~~e~~ 114 (236)
T cd08914 90 AHLAYRLLSDFTKRPLWDPHFLSCE 114 (236)
T ss_pred HHHHHHHHhChhhhchhHHhhceEE
Confidence 5689999999999999999888754
No 149
>PRK14296 chaperone protein DnaJ; Provisional
Probab=21.51 E-value=81 Score=26.81 Aligned_cols=10 Identities=30% Similarity=0.478 Sum_probs=6.9
Q ss_pred hhHHHHHHhc
Q psy7115 3 LKINEAWNIL 12 (132)
Q Consensus 3 ~~I~eAyevL 12 (132)
.+|++||.-|
T Consensus 19 ~eik~ayrkl 28 (372)
T PRK14296 19 QEIRQAYRKL 28 (372)
T ss_pred HHHHHHHHHH
Confidence 4577777776
No 150
>cd08876 START_1 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family. Functionally uncharacterized subgroup of the START domain family. The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. For some mammalian members of the START family (STARDs), it is known which lipids bind in this pocket; these include cholesterol (STARD1, -3, -4, and -5), 25-hydroxycholesterol (STARD5), phosphatidylcholine (STARD2, -7, and -10), phosphatidylethanolamine (STARD10) and ceramides (STARD11). Mammalian STARDs participate in the control of various cellular processes, including lipid trafficking between intracellular compartments, lipid metabolism, and modulation of signaling events. Mutation or altered expression of STARDs is linked to diseases such as cancer, genetic disorders, a
Probab=21.51 E-value=60 Score=24.06 Aligned_cols=25 Identities=12% Similarity=0.197 Sum_probs=21.3
Q ss_pred HHHHHHhcCChhHHHHHHHHhhhhh
Q psy7115 5 INEAWNILKDEKERKLYESQLLSQQ 29 (132)
Q Consensus 5 I~eAyevLsdp~~R~~YD~~l~~~~ 29 (132)
..++|+++.|++.|+.+|.......
T Consensus 53 ~e~v~~vi~d~e~~~~w~~~~~~~~ 77 (195)
T cd08876 53 IEAFLALLRDTESYPQWMPNCKESR 77 (195)
T ss_pred HHHHHHHHhhhHhHHHHHhhcceEE
Confidence 4688999999999999999876543
No 151
>PF06975 DUF1299: Protein of unknown function (DUF1299); InterPro: IPR010725 This entry represents a conserved region approximately 50 residues long within a number of proteins of unknown function that seem to be specific to Arabidopsis thaliana. Note that many proteins contain multiple copies of this region.
Probab=21.44 E-value=26 Score=21.41 Aligned_cols=12 Identities=42% Similarity=0.598 Sum_probs=9.8
Q ss_pred HHHHHHhcCChh
Q psy7115 5 INEAWNILKDEK 16 (132)
Q Consensus 5 I~eAyevLsdp~ 16 (132)
=|+||-+|||.+
T Consensus 9 dqeayvilsdde 20 (47)
T PF06975_consen 9 DQEAYVILSDDE 20 (47)
T ss_pred hhhheeeccccc
Confidence 478999999874
No 152
>PRK14287 chaperone protein DnaJ; Provisional
Probab=20.90 E-value=88 Score=26.56 Aligned_cols=10 Identities=20% Similarity=0.368 Sum_probs=6.7
Q ss_pred hhHHHHHHhc
Q psy7115 3 LKINEAWNIL 12 (132)
Q Consensus 3 ~~I~eAyevL 12 (132)
.+|++||.-|
T Consensus 19 ~eik~ayr~l 28 (371)
T PRK14287 19 DEVKKAYRKL 28 (371)
T ss_pred HHHHHHHHHH
Confidence 4677777666
No 153
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=20.80 E-value=93 Score=18.10 Aligned_cols=15 Identities=27% Similarity=0.707 Sum_probs=8.5
Q ss_pred eeec-cCCCeEEEeec
Q psy7115 54 TYPC-RCGAEFCIEEQ 68 (132)
Q Consensus 54 ~~~C-RCGg~f~It~e 68 (132)
.|.| .||..+.+...
T Consensus 6 ~YkC~~CGniVev~~~ 21 (36)
T PF06397_consen 6 FYKCEHCGNIVEVVHD 21 (36)
T ss_dssp EEE-TTT--EEEEEE-
T ss_pred EEEccCCCCEEEEEEC
Confidence 6888 99998877655
No 154
>cd07812 SRPBCC START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket; they bind diverse ligands. Included in this superfamily are the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, and the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), as well as the SRPBCC domains of phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of this superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=20.78 E-value=66 Score=20.55 Aligned_cols=21 Identities=19% Similarity=0.480 Sum_probs=17.0
Q ss_pred HHHHHHhcCChhHHHHHHHHh
Q psy7115 5 INEAWNILKDEKERKLYESQL 25 (132)
Q Consensus 5 I~eAyevLsdp~~R~~YD~~l 25 (132)
+.++|++|+|+.....+....
T Consensus 11 ~~~v~~~l~d~~~~~~~~~~~ 31 (141)
T cd07812 11 PEAVWDLLSDPERWPEWSPGL 31 (141)
T ss_pred HHHHHHHHhChhhhhhhCccc
Confidence 689999999999888775443
No 155
>KOG3507|consensus
Probab=20.10 E-value=65 Score=21.05 Aligned_cols=30 Identities=27% Similarity=0.715 Sum_probs=21.1
Q ss_pred ceEeeec-cCCCeEEEeeccccCCCCCCceEEECCCCCceE
Q psy7115 51 QMFTYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSLLL 90 (132)
Q Consensus 51 ~~~~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL~i 90 (132)
....|.| -||....|.. -.+++|..|..+|
T Consensus 17 ~~miYiCgdC~~en~lk~----------~D~irCReCG~RI 47 (62)
T KOG3507|consen 17 ATMIYICGDCGQENTLKR----------GDVIRCRECGYRI 47 (62)
T ss_pred ccEEEEeccccccccccC----------CCcEehhhcchHH
Confidence 4578999 9996554443 3578999998654
No 156
>PRK14293 chaperone protein DnaJ; Provisional
Probab=20.08 E-value=1.4e+02 Score=25.27 Aligned_cols=35 Identities=20% Similarity=0.369 Sum_probs=16.5
Q ss_pred ec-cCCCe-EEEeeccccCCCCCCceEEECCCCCceEEE
Q psy7115 56 PC-RCGAE-FCIEEQDTEGDGSDDNILIACDTCSLLLEI 92 (132)
Q Consensus 56 ~C-RCGg~-f~It~edL~~G~~~~~~vv~C~sCSL~ikV 92 (132)
.| .|.+. .......+..|.. +...+|+.|..+.++
T Consensus 162 ~C~~C~G~G~~~~~~~~~~g~~--~~~~~C~~C~G~G~~ 198 (374)
T PRK14293 162 TCSTCGGAGQVRRATRTPFGSF--TQVSECPTCNGTGQV 198 (374)
T ss_pred eCCCCCCcceEEEEEecCcceE--EEEeeCCCCCcceeE
Confidence 45 55543 3333333333322 334667666655554
No 157
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=20.03 E-value=71 Score=25.98 Aligned_cols=18 Identities=22% Similarity=0.554 Sum_probs=13.4
Q ss_pred ceEEECCCCCceEEEEec
Q psy7115 78 NILIACDTCSLLLEITAR 95 (132)
Q Consensus 78 ~~vv~C~sCSL~ikV~~~ 95 (132)
.-+..|.+|.-.+|+.+.
T Consensus 236 ~rve~C~~C~~YlK~vd~ 253 (290)
T PF04216_consen 236 YRVEVCESCGSYLKTVDR 253 (290)
T ss_dssp EEEEEETTTTEEEEEEET
T ss_pred EEEEECCcccchHHHHhh
Confidence 557778888888887773
No 158
>PRK11032 hypothetical protein; Provisional
Probab=20.02 E-value=75 Score=24.35 Aligned_cols=26 Identities=19% Similarity=0.618 Sum_probs=18.8
Q ss_pred eeec-cCCCeEEEeeccccCCCCCCceEEECCCCCc
Q psy7115 54 TYPC-RCGAEFCIEEQDTEGDGSDDNILIACDTCSL 88 (132)
Q Consensus 54 ~~~C-RCGg~f~It~edL~~G~~~~~~vv~C~sCSL 88 (132)
...| .||....|... ..+.+|+.|.-
T Consensus 124 ~LvC~~Cg~~~~~~~p---------~~i~pCp~C~~ 150 (160)
T PRK11032 124 NLVCEKCHHHLAFYTP---------EVLPLCPKCGH 150 (160)
T ss_pred eEEecCCCCEEEecCC---------CcCCCCCCCCC
Confidence 4789 99987766433 46788999963
Done!