Query 032793
Match_columns 133
No_of_seqs 22 out of 24
Neff 1.7
Searched_HMMs 46136
Date Fri Mar 29 06:02:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032793.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032793hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03165 chaperone protein dna 97.3 0.00021 4.5E-09 52.7 3.4 48 74-128 19-87 (111)
2 PF00684 DnaJ_CXXCXGXG: DnaJ c 96.9 0.00053 1.2E-08 44.5 1.9 39 87-129 16-54 (66)
3 KOG0712 Molecular chaperone (D 96.1 0.0039 8.4E-08 53.4 2.7 60 69-128 110-182 (337)
4 COG0484 DnaJ DnaJ-class molecu 96.0 0.005 1.1E-07 53.2 2.5 59 64-128 120-195 (371)
5 TIGR02642 phage_xxxx uncharact 95.7 0.0049 1.1E-07 48.7 1.4 47 68-129 82-128 (186)
6 PRK14297 chaperone protein Dna 95.7 0.0063 1.4E-07 50.4 2.0 29 69-97 131-159 (380)
7 PTZ00037 DnaJ_C chaperone prot 95.6 0.0099 2.1E-07 50.9 2.9 61 66-128 130-204 (421)
8 PRK14285 chaperone protein Dna 95.5 0.0097 2.1E-07 49.3 2.5 58 69-128 129-197 (365)
9 TIGR02349 DnaJ_bact chaperone 95.5 0.01 2.2E-07 48.3 2.4 60 69-128 126-198 (354)
10 PRK14278 chaperone protein Dna 95.4 0.011 2.4E-07 49.2 2.5 31 67-97 120-150 (378)
11 PRK14298 chaperone protein Dna 95.4 0.015 3.2E-07 48.5 3.2 55 70-128 125-196 (377)
12 PRK14294 chaperone protein Dna 95.3 0.011 2.3E-07 48.9 1.9 61 66-128 124-195 (366)
13 PRK14296 chaperone protein Dna 95.2 0.016 3.5E-07 48.3 3.0 63 66-128 129-204 (372)
14 PRK14300 chaperone protein Dna 95.1 0.015 3.3E-07 48.2 2.4 52 69-128 128-196 (372)
15 PRK14279 chaperone protein Dna 95.1 0.014 3E-07 48.9 2.2 61 66-128 153-224 (392)
16 PRK14300 chaperone protein Dna 95.1 0.014 3E-07 48.4 2.1 33 82-130 180-212 (372)
17 PRK14301 chaperone protein Dna 95.0 0.015 3.2E-07 48.4 2.1 55 66-128 124-195 (373)
18 PRK14282 chaperone protein Dna 95.0 0.018 4E-07 47.5 2.6 32 66-97 132-163 (369)
19 PRK14276 chaperone protein Dna 94.8 0.023 5E-07 47.2 2.7 28 70-97 130-157 (380)
20 PRK14287 chaperone protein Dna 94.8 0.018 3.8E-07 47.9 1.9 29 69-97 121-149 (371)
21 PRK10767 chaperone protein Dna 94.7 0.022 4.7E-07 46.9 2.3 57 70-128 126-193 (371)
22 PRK14288 chaperone protein Dna 94.7 0.023 5E-07 47.2 2.5 55 66-128 120-190 (369)
23 PRK14295 chaperone protein Dna 94.7 0.029 6.2E-07 47.1 3.0 58 69-128 149-217 (389)
24 PRK14280 chaperone protein Dna 94.6 0.022 4.9E-07 47.3 2.2 29 69-97 126-154 (376)
25 PRK14291 chaperone protein Dna 94.4 0.026 5.7E-07 47.0 2.1 51 69-127 139-206 (382)
26 PRK10767 chaperone protein Dna 94.3 0.028 6.1E-07 46.2 2.2 28 86-129 181-208 (371)
27 PRK14279 chaperone protein Dna 94.3 0.027 5.8E-07 47.3 2.0 44 86-129 190-239 (392)
28 PRK14277 chaperone protein Dna 94.3 0.029 6.3E-07 46.7 2.2 29 69-97 138-166 (386)
29 PRK14286 chaperone protein Dna 94.2 0.027 5.9E-07 46.8 1.9 59 68-128 132-201 (372)
30 PRK14284 chaperone protein Dna 94.2 0.033 7.1E-07 46.5 2.4 53 68-128 140-209 (391)
31 PRK14287 chaperone protein Dna 94.2 0.034 7.3E-07 46.3 2.4 39 86-128 155-193 (371)
32 PRK14281 chaperone protein Dna 94.0 0.036 7.9E-07 46.5 2.3 34 64-97 141-174 (397)
33 PRK14290 chaperone protein Dna 93.9 0.038 8.1E-07 45.7 2.2 61 69-129 132-204 (365)
34 PRK14288 chaperone protein Dna 93.9 0.039 8.5E-07 45.8 2.3 27 87-129 179-205 (369)
35 PRK14289 chaperone protein Dna 93.9 0.037 8.1E-07 45.9 2.1 60 66-129 134-210 (386)
36 PRK14291 chaperone protein Dna 93.9 0.036 7.8E-07 46.1 2.0 31 82-129 191-221 (382)
37 PRK14289 chaperone protein Dna 93.6 0.052 1.1E-06 45.1 2.5 32 82-129 193-224 (386)
38 PRK14290 chaperone protein Dna 93.4 0.05 1.1E-06 45.0 2.0 14 117-130 206-219 (365)
39 PRK14281 chaperone protein Dna 93.3 0.051 1.1E-06 45.6 2.1 38 87-128 180-217 (397)
40 PRK14301 chaperone protein Dna 93.1 0.066 1.4E-06 44.6 2.3 33 82-130 179-211 (373)
41 PF00684 DnaJ_CXXCXGXG: DnaJ c 92.9 0.079 1.7E-06 34.4 2.1 29 89-130 1-29 (66)
42 PRK14292 chaperone protein Dna 92.7 0.079 1.7E-06 43.7 2.2 35 63-97 116-150 (371)
43 PRK14280 chaperone protein Dna 92.6 0.088 1.9E-06 43.8 2.4 38 87-128 161-198 (376)
44 PRK14283 chaperone protein Dna 92.4 0.1 2.2E-06 43.3 2.5 29 69-97 129-157 (378)
45 PRK14297 chaperone protein Dna 92.3 0.09 1.9E-06 43.7 2.1 39 86-128 165-203 (380)
46 PRK14293 chaperone protein Dna 91.8 0.16 3.4E-06 42.2 3.0 59 70-128 127-198 (374)
47 TIGR02349 DnaJ_bact chaperone 91.2 0.1 2.2E-06 42.6 1.3 31 84-130 184-214 (354)
48 TIGR00630 uvra excinuclease AB 91.2 0.12 2.7E-06 48.6 2.0 34 86-126 736-769 (924)
49 PRK00349 uvrA excinuclease ABC 91.2 0.11 2.4E-06 49.0 1.7 35 85-126 737-771 (943)
50 PRK14292 chaperone protein Dna 90.5 0.18 3.9E-06 41.6 2.1 39 86-128 157-195 (371)
51 PRK14294 chaperone protein Dna 90.5 0.14 3E-06 42.4 1.4 31 83-129 180-210 (366)
52 PRK14276 chaperone protein Dna 90.4 0.13 2.8E-06 42.9 1.2 39 86-128 163-201 (380)
53 PRK14283 chaperone protein Dna 90.4 0.2 4.3E-06 41.7 2.3 38 87-128 164-201 (378)
54 PRK14296 chaperone protein Dna 90.3 0.17 3.7E-06 42.2 1.9 33 81-129 187-219 (372)
55 PRK14278 chaperone protein Dna 90.0 0.19 4E-06 42.0 1.8 37 88-128 158-194 (378)
56 PRK14293 chaperone protein Dna 89.6 0.24 5.1E-06 41.1 2.2 33 82-130 182-214 (374)
57 PRK14286 chaperone protein Dna 89.5 0.21 4.5E-06 41.6 1.8 31 84-130 187-217 (372)
58 PRK14285 chaperone protein Dna 89.1 0.22 4.8E-06 41.4 1.6 31 83-129 182-212 (365)
59 PRK14277 chaperone protein Dna 88.7 0.24 5.1E-06 41.4 1.5 14 87-100 173-186 (386)
60 PF10080 DUF2318: Predicted me 88.1 0.56 1.2E-05 34.1 3.0 26 87-125 36-61 (102)
61 PRK14284 chaperone protein Dna 88.0 0.24 5.2E-06 41.4 1.1 31 83-129 194-224 (391)
62 PF14369 zf-RING_3: zinc-finge 87.6 0.33 7.1E-06 29.3 1.3 12 88-100 23-34 (35)
63 PRK14282 chaperone protein Dna 87.5 0.25 5.4E-06 40.9 1.0 38 87-128 170-207 (369)
64 COG0484 DnaJ DnaJ-class molecu 86.7 0.35 7.5E-06 42.1 1.4 33 81-129 178-210 (371)
65 PRK14298 chaperone protein Dna 86.4 0.41 8.8E-06 40.1 1.6 33 81-129 179-211 (377)
66 TIGR02642 phage_xxxx uncharact 85.9 0.64 1.4E-05 36.9 2.4 33 76-110 107-139 (186)
67 KOG2813 Predicted molecular ch 85.4 0.42 9.1E-06 42.6 1.3 37 87-128 199-246 (406)
68 PRK14295 chaperone protein Dna 84.8 0.52 1.1E-05 39.6 1.6 29 85-129 204-232 (389)
69 TIGR00630 uvra excinuclease AB 84.7 0.52 1.1E-05 44.5 1.6 47 80-132 244-290 (924)
70 PTZ00037 DnaJ_C chaperone prot 83.4 0.74 1.6E-05 39.6 1.9 34 82-129 188-221 (421)
71 COG1107 Archaea-specific RecJ- 83.0 0.52 1.1E-05 44.5 0.9 41 87-127 19-64 (715)
72 PF14353 CpXC: CpXC protein 82.9 1.4 2.9E-05 31.0 2.8 43 87-129 2-51 (128)
73 PRK00635 excinuclease ABC subu 81.5 1.1 2.3E-05 45.7 2.5 46 81-132 239-284 (1809)
74 PLN03165 chaperone protein dna 79.0 1.2 2.5E-05 33.0 1.4 27 83-128 72-98 (111)
75 PRK00349 uvrA excinuclease ABC 78.7 1.1 2.5E-05 42.4 1.6 46 81-132 247-292 (943)
76 COG1107 Archaea-specific RecJ- 78.4 1.3 2.8E-05 41.9 1.9 37 80-131 47-83 (715)
77 PRK00635 excinuclease ABC subu 78.2 1.3 2.9E-05 45.1 2.0 35 85-126 1606-1640(1809)
78 PF08271 TF_Zn_Ribbon: TFIIB z 77.0 3.9 8.4E-05 24.6 3.1 24 88-122 2-25 (43)
79 COG0178 UvrA Excinuclease ATPa 72.9 2.4 5.3E-05 41.2 2.2 47 80-132 239-285 (935)
80 TIGR00155 pqiA_fam integral me 72.8 2.4 5.3E-05 36.3 1.9 28 88-125 15-42 (403)
81 PF08274 PhnA_Zn_Ribbon: PhnA 69.1 3.2 6.8E-05 24.8 1.3 23 88-123 4-26 (30)
82 TIGR02098 MJ0042_CXXC MJ0042 f 69.0 4.3 9.4E-05 23.4 1.9 30 88-124 4-33 (38)
83 PF08792 A2L_zn_ribbon: A2L zi 67.9 5.2 0.00011 24.0 2.1 25 87-123 4-28 (33)
84 smart00834 CxxC_CXXC_SSSS Puta 65.8 2.7 5.9E-05 24.0 0.6 11 114-124 24-34 (41)
85 PRK00423 tfb transcription ini 64.1 6.4 0.00014 32.0 2.6 28 86-124 11-38 (310)
86 PRK00420 hypothetical protein; 63.9 5.4 0.00012 29.7 2.0 25 87-124 24-48 (112)
87 PF14354 Lar_restr_allev: Rest 63.7 6.4 0.00014 24.4 2.0 33 88-124 5-37 (61)
88 PRK02935 hypothetical protein; 63.5 3.4 7.4E-05 31.5 0.9 7 88-94 72-78 (110)
89 TIGR02538 type_IV_pilB type IV 63.4 4.4 9.6E-05 35.6 1.7 14 118-131 490-503 (564)
90 PF07295 DUF1451: Protein of u 60.4 4.8 0.0001 30.7 1.2 18 84-101 128-145 (146)
91 PF09986 DUF2225: Uncharacteri 59.7 7.7 0.00017 30.3 2.3 14 82-95 1-14 (214)
92 PRK15103 paraquat-inducible me 59.7 6.2 0.00013 34.1 1.9 10 116-125 30-39 (419)
93 PF10122 Mu-like_Com: Mu-like 58.1 5.9 0.00013 26.6 1.2 23 105-127 13-35 (51)
94 COG4393 Predicted membrane pro 57.9 5.3 0.00012 35.9 1.2 25 87-124 335-359 (405)
95 PF13719 zinc_ribbon_5: zinc-r 56.8 9.4 0.0002 22.7 1.8 30 88-124 4-33 (37)
96 TIGR00155 pqiA_fam integral me 56.7 5.6 0.00012 34.1 1.2 22 89-125 218-239 (403)
97 PF12301 CD99L2: CD99 antigen 55.5 2.7 5.8E-05 33.0 -0.9 31 60-90 114-145 (169)
98 TIGR02533 type_II_gspE general 55.3 6.9 0.00015 34.1 1.5 28 88-131 381-427 (486)
99 PRK11032 hypothetical protein; 55.2 8 0.00017 30.2 1.7 19 84-102 140-158 (160)
100 PF05605 zf-Di19: Drought indu 55.2 4.3 9.2E-05 25.2 0.1 37 87-124 3-39 (54)
101 PF07191 zinc-ribbons_6: zinc- 55.2 9.9 0.00022 26.6 2.0 10 116-125 50-59 (70)
102 cd03031 GRX_GRX_like Glutaredo 54.1 14 0.0003 27.8 2.8 39 87-126 100-143 (147)
103 CHL00114 psbX photosystem II p 53.8 9.4 0.0002 24.5 1.6 24 65-88 12-35 (39)
104 smart00661 RPOL9 RNA polymeras 53.3 12 0.00025 22.3 1.8 10 116-125 20-29 (52)
105 PRK00564 hypA hydrogenase nick 52.7 9.6 0.00021 27.5 1.7 15 45-59 24-38 (117)
106 KOG3803 Transcription factor c 51.7 10 0.00022 36.9 2.1 45 85-129 688-752 (968)
107 KOG0712 Molecular chaperone (D 51.2 9 0.00019 33.2 1.5 27 75-103 177-203 (337)
108 PRK03681 hypA hydrogenase nick 51.1 9.7 0.00021 27.3 1.5 14 45-58 24-37 (114)
109 COG0178 UvrA Excinuclease ATPa 50.9 8.8 0.00019 37.6 1.6 41 63-103 239-286 (935)
110 PRK06921 hypothetical protein; 50.5 8.5 0.00018 30.6 1.2 23 78-101 25-47 (266)
111 PF07092 DUF1356: Protein of u 50.4 7.3 0.00016 32.4 0.8 17 86-102 38-54 (238)
112 KOG2824 Glutaredoxin-related p 50.3 14 0.0003 31.7 2.5 40 87-126 230-272 (281)
113 PRK00464 nrdR transcriptional 48.9 14 0.00031 28.4 2.2 35 88-125 2-37 (154)
114 smart00531 TFIIE Transcription 48.5 13 0.00028 27.3 1.8 11 115-125 122-132 (147)
115 PF11023 DUF2614: Protein of u 47.8 7.6 0.00017 29.6 0.5 7 88-94 71-77 (114)
116 PF06677 Auto_anti-p27: Sjogre 47.7 15 0.00032 23.1 1.7 24 87-123 18-41 (41)
117 COG2835 Uncharacterized conser 47.4 17 0.00037 25.0 2.1 24 88-123 10-33 (60)
118 PF09855 DUF2082: Nucleic-acid 46.7 15 0.00032 24.9 1.7 36 88-123 2-43 (64)
119 TIGR03597 GTPase_YqeH ribosome 46.6 11 0.00025 31.0 1.4 30 93-131 14-43 (360)
120 PRK12380 hydrogenase nickel in 46.4 13 0.00027 26.7 1.5 20 87-106 87-106 (113)
121 PF13453 zf-TFIIB: Transcripti 46.0 16 0.00034 21.7 1.6 10 116-125 19-28 (41)
122 cd01129 PulE-GspE PulE/GspE Th 45.6 13 0.00028 29.4 1.5 14 117-130 251-264 (264)
123 COG1645 Uncharacterized Zn-fin 45.0 15 0.00032 28.4 1.7 23 87-123 29-51 (131)
124 PF10263 SprT-like: SprT-like 44.8 16 0.00034 25.7 1.7 37 83-131 120-156 (157)
125 PF04606 Ogr_Delta: Ogr/Delta- 42.2 17 0.00038 22.4 1.4 16 88-103 1-16 (47)
126 TIGR03655 anti_R_Lar restricti 42.2 34 0.00074 21.3 2.8 34 88-128 3-38 (53)
127 PRK06835 DNA replication prote 41.6 12 0.00026 31.1 0.9 14 85-98 97-110 (329)
128 PF05876 Terminase_GpA: Phage 39.3 22 0.00047 31.5 2.1 37 87-125 201-238 (557)
129 TIGR02605 CxxC_CxxC_SSSS putat 39.2 26 0.00056 21.1 1.8 8 117-124 27-34 (52)
130 PRK08665 ribonucleotide-diphos 38.2 19 0.0004 33.6 1.6 15 87-102 725-739 (752)
131 PF13717 zinc_ribbon_4: zinc-r 38.0 27 0.00059 20.8 1.8 30 88-124 4-33 (36)
132 PF07282 OrfB_Zn_ribbon: Putat 37.8 24 0.00052 22.2 1.6 25 87-123 29-53 (69)
133 PRK11712 ribonuclease G; Provi 37.3 16 0.00034 32.7 0.9 17 87-103 403-419 (489)
134 TIGR03830 CxxCG_CxxCG_HTH puta 36.9 24 0.00053 23.8 1.6 9 115-123 30-38 (127)
135 PF08802 CytB6-F_Fe-S: Cytochr 36.7 7.2 0.00016 24.8 -0.9 20 63-82 13-32 (39)
136 PRK00762 hypA hydrogenase nick 36.6 21 0.00046 26.0 1.4 20 87-106 93-112 (124)
137 TIGR00757 RNaseEG ribonuclease 36.4 14 0.0003 32.1 0.4 16 87-102 391-406 (414)
138 PF03966 Trm112p: Trm112p-like 36.4 31 0.00068 22.3 2.0 12 112-123 49-60 (68)
139 PF02150 RNA_POL_M_15KD: RNA p 35.7 29 0.00063 20.7 1.6 26 88-124 3-28 (35)
140 PF10058 DUF2296: Predicted in 35.6 24 0.00052 22.9 1.4 31 87-125 23-53 (54)
141 smart00440 ZnF_C2C2 C2C2 Zinc 35.0 43 0.00093 20.3 2.3 32 88-124 2-36 (40)
142 TIGR00595 priA primosomal prot 35.0 37 0.0008 29.6 2.8 37 88-124 224-261 (505)
143 COG2260 Predicted Zn-ribbon RN 34.8 19 0.0004 24.9 0.8 12 86-97 17-28 (59)
144 TIGR00100 hypA hydrogenase nic 34.0 25 0.00054 25.2 1.4 20 87-106 87-106 (115)
145 PRK10220 hypothetical protein; 33.7 27 0.00058 26.6 1.6 13 112-124 16-28 (111)
146 COG1656 Uncharacterized conser 33.4 23 0.00049 28.3 1.2 23 72-95 84-106 (165)
147 PF08955 BofC_C: BofC C-termin 33.2 18 0.00038 25.5 0.5 14 86-99 1-14 (75)
148 PRK13796 GTPase YqeH; Provisio 33.2 22 0.00048 29.4 1.1 34 93-131 16-49 (365)
149 PF12128 DUF3584: Protein of u 32.9 16 0.00034 35.0 0.2 25 53-77 1116-1140(1201)
150 PRK00432 30S ribosomal protein 32.9 29 0.00063 22.2 1.4 24 87-123 21-44 (50)
151 PRK07220 DNA topoisomerase I; 32.7 49 0.0011 30.5 3.3 32 86-125 635-666 (740)
152 PF03589 Antiterm: Antitermina 32.4 27 0.00058 24.8 1.3 10 87-96 6-15 (95)
153 PF09538 FYDLN_acid: Protein o 30.8 26 0.00057 25.6 1.1 27 85-124 8-34 (108)
154 COG3677 Transposase and inacti 30.8 52 0.0011 24.4 2.6 47 66-124 15-61 (129)
155 COG0675 Transposase and inacti 30.5 32 0.00069 25.4 1.5 8 87-94 310-317 (364)
156 PF01155 HypA: Hydrogenase exp 30.4 32 0.00068 24.5 1.4 20 87-106 87-106 (113)
157 KOG1940 Zn-finger protein [Gen 30.2 18 0.00039 30.6 0.1 41 87-127 197-245 (276)
158 PRK10436 hypothetical protein; 29.8 25 0.00054 30.8 0.9 14 117-131 386-399 (462)
159 PRK08115 ribonucleotide-diphos 29.5 29 0.00062 33.5 1.3 29 86-127 827-855 (858)
160 PRK06266 transcription initiat 29.2 25 0.00054 27.1 0.7 12 114-125 134-145 (178)
161 PF09723 Zn-ribbon_8: Zinc rib 29.1 65 0.0014 19.4 2.4 28 88-124 7-34 (42)
162 KOG0715 Molecular chaperone (D 29.1 40 0.00087 27.8 2.0 34 63-96 141-174 (288)
163 TIGR01206 lysW lysine biosynth 29.0 40 0.00088 22.2 1.6 28 87-124 3-30 (54)
164 PRK14873 primosome assembly pr 28.8 37 0.0008 31.2 1.8 38 87-124 393-430 (665)
165 PRK10811 rne ribonuclease E; R 28.6 25 0.00055 35.0 0.8 16 87-102 402-417 (1068)
166 PF09237 GAGA: GAGA factor; I 27.9 20 0.00044 24.5 0.0 8 87-94 25-32 (54)
167 PF14690 zf-ISL3: zinc-finger 27.5 43 0.00094 19.5 1.4 14 86-99 2-15 (47)
168 PHA00626 hypothetical protein 27.2 61 0.0013 22.5 2.3 29 88-123 2-30 (59)
169 PF11672 DUF3268: Protein of u 27.0 57 0.0012 23.9 2.3 36 87-124 3-39 (102)
170 TIGR03831 YgiT_finger YgiT-typ 26.6 42 0.00091 19.1 1.2 12 89-100 1-12 (46)
171 COG2804 PulE Type II secretory 26.5 32 0.00069 31.5 1.0 53 74-130 385-438 (500)
172 COG1592 Rubrerythrin [Energy p 26.4 30 0.00065 27.3 0.8 24 87-125 135-158 (166)
173 PF10571 UPF0547: Uncharacteri 26.3 30 0.00065 19.8 0.6 7 88-94 2-8 (26)
174 COG0551 TopA Zn-finger domain 25.2 58 0.0013 23.3 2.0 16 87-102 61-76 (140)
175 PF08063 PADR1: PADR1 (NUC008) 25.1 13 0.00029 24.2 -1.2 18 81-98 9-26 (55)
176 PRK14890 putative Zn-ribbon RN 24.6 68 0.0015 22.0 2.1 31 88-126 27-58 (59)
177 PF06596 PsbX: Photosystem II 23.5 14 0.0003 23.6 -1.3 23 65-87 12-34 (39)
178 cd03271 ABC_UvrA_II The excisi 23.3 31 0.00068 27.7 0.3 12 89-100 103-114 (261)
179 COG1328 NrdD Oxygen-sensitive 22.9 42 0.0009 31.7 1.1 8 87-94 642-649 (700)
180 PF12760 Zn_Tnp_IS1595: Transp 22.0 1E+02 0.0022 18.6 2.4 26 87-123 19-44 (46)
181 PF01096 TFIIS_C: Transcriptio 21.6 91 0.002 18.7 2.1 31 88-123 2-35 (39)
182 PF00098 zf-CCHC: Zinc knuckle 21.5 40 0.00087 17.6 0.4 12 117-128 1-12 (18)
183 COG1530 CafA Ribonucleases G a 21.1 43 0.00093 29.6 0.8 18 86-103 395-412 (487)
184 PRK09678 DNA-binding transcrip 21.0 62 0.0014 22.4 1.4 16 88-103 3-18 (72)
185 PF15061 DUF4538: Domain of un 20.9 47 0.001 22.8 0.8 14 71-84 14-28 (58)
186 PF13790 DUF4182: Domain of un 20.5 48 0.001 21.1 0.7 10 116-125 3-12 (38)
187 CHL00037 petA cytochrome f 20.4 43 0.00092 29.5 0.6 19 109-127 46-64 (320)
188 PRK03824 hypA hydrogenase nick 20.3 68 0.0015 23.6 1.6 17 88-104 109-125 (135)
189 PF01927 Mut7-C: Mut7-C RNAse 20.1 1E+02 0.0022 22.5 2.4 17 78-94 80-99 (147)
190 PLN03123 poly [ADP-ribose] pol 20.0 51 0.0011 32.2 1.1 23 77-100 290-312 (981)
191 PF06906 DUF1272: Protein of u 20.0 41 0.0009 23.1 0.4 9 116-124 41-49 (57)
No 1
>PLN03165 chaperone protein dnaJ-related; Provisional
Probab=97.34 E-value=0.00021 Score=52.67 Aligned_cols=48 Identities=27% Similarity=0.667 Sum_probs=35.1
Q ss_pred HhcccceeeeecC---------------------CCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 74 LLGTGFPILFSRK---------------------DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 74 lvGTAfpIlfsRk---------------------d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
.+|...||||--. ..|+.|+|.|++..... -.-+.|..|+.|+|-||.
T Consensus 19 ~~~~~~~~~~~~q~~~~~~~~~~v~C~~C~GsG~~~C~~C~G~G~v~~~~~-------g~~q~~~~C~~C~G~Gk~ 87 (111)
T PLN03165 19 AVGIGIPVFYETQIDNAAKRENTQPCFPCSGTGAQVCRFCVGSGNVTVELG-------GGEKEVSKCINCDGAGSL 87 (111)
T ss_pred hhccCCcEEEEEeeehhhhhccCCCCCCCCCCCCcCCCCCcCcCeEEEEeC-------CcEEEEEECCCCCCccee
Confidence 3688899999532 27889999998875421 124678899999999973
No 2
>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=96.93 E-value=0.00053 Score=44.55 Aligned_cols=39 Identities=33% Similarity=0.789 Sum_probs=27.3
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
.+||.|+|.|++...-.. -----|.|++|+.|+|.|++=
T Consensus 16 ~~C~~C~G~G~~~~~~~~----~~~~~~~~~~C~~C~G~G~~i 54 (66)
T PF00684_consen 16 KTCPQCNGSGQVTRRQQT----PGGVFQMQQTCPKCGGTGKII 54 (66)
T ss_dssp EE-TTSSSSSEEEEEEES----SSTTEEEEEE-TTTSSSSEE-
T ss_pred cCCcCCCCeeEEEEEEeC----CCeEEEEEEECCCCcceeeEE
Confidence 479999999999875421 112347899999999999873
No 3
>KOG0712 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=96.15 E-value=0.0039 Score=53.37 Aligned_cols=60 Identities=27% Similarity=0.519 Sum_probs=46.4
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcceeeecc----------c---cchhhhhccccceEeecccCCCccc
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGFVRKSG----------A---TLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~g----------~---~l~anaArkd~~qivc~~cnglgkl 128 (133)
-.-=..+|...|.+++|+.+|+.|.|.|+-..+- . +.+.-..-.++.|-+|..|+|.|+-
T Consensus 110 ~Le~~y~G~s~kl~l~~~~iCs~C~GsGgksg~~~~C~~C~GsGv~~~~~~~gPg~~qs~q~~C~~C~G~G~~ 182 (337)
T KOG0712|consen 110 TLEELYMGKSKKLFLSRNFICSKCSGSGGKSGSAPKCTTCRGSGVQTRTRQMGPGMVQSPQLVCDSCNGSGET 182 (337)
T ss_pred EHHHhhcCCccceecccCccCCcCCCCCCCCCCCCCCCCCCCCCceeEEEeccccccccceeEeccCCCcccc
Confidence 3445678999999999999999999999976543 1 1222333568899999999999984
No 4
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]
Probab=95.95 E-value=0.005 Score=53.23 Aligned_cols=59 Identities=34% Similarity=0.581 Sum_probs=37.9
Q ss_pred eeehhHHHHHHhcccceeeeecCCC-----------------CCCCCCcceeeeccccchhhhhccccceEeecccCCCc
Q 032793 64 YLIAGAAAVALLGTGFPILFSRKDM-----------------CPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLG 126 (133)
Q Consensus 64 yliagAiAvalvGTAfpIlfsRkd~-----------------CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglg 126 (133)
|-+-.-.==|+.|.-.+|-+.|..+ ||.|+|.|.|+..-.+ =.-+.|-.|+.|+|-|
T Consensus 120 ~~l~isleEa~~G~~~~i~~~~~~~C~~C~GsGak~gt~~~tC~tC~G~G~v~~~~~~------g~~~~~~~C~~C~G~G 193 (371)
T COG0484 120 YNLEITLEEAVFGVKKEIRVTRSVTCSTCHGSGAKPGTDPKTCPTCNGSGQVRTVQRT------GFFSFQQTCPTCNGTG 193 (371)
T ss_pred EEEEeEhhhhccCceeeEecceeeECCcCCCCCCCCCCCCCcCCCCCCcCeEEEEEee------eEEEEEEECCCCccce
Confidence 3344444456778888999988854 5555555665554433 2245677888888888
Q ss_pred cc
Q 032793 127 KL 128 (133)
Q Consensus 127 kl 128 (133)
+.
T Consensus 194 ~~ 195 (371)
T COG0484 194 KI 195 (371)
T ss_pred eE
Confidence 75
No 5
>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=95.69 E-value=0.0049 Score=48.68 Aligned_cols=47 Identities=26% Similarity=0.518 Sum_probs=35.4
Q ss_pred hHHHHHHhcccceeeeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 68 GAAAVALLGTGFPILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 68 gAiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
+-...+|.-.||.- ++|.-.||+|.|.|++-+.. -.|+.|+|-|++.
T Consensus 82 ~~~~~~la~~A~~d-y~~~~~C~~C~G~G~~i~~~--------------~~C~~C~G~G~v~ 128 (186)
T TIGR02642 82 PNAAEAASYLAVNE-VLNSCKCPRCRGTGLIQRRQ--------------RECDTCAGTGRFR 128 (186)
T ss_pred HHHHHHHHHHHHHH-HHcCCcCCCCCCeeEEecCC--------------CCCCCCCCccEEe
Confidence 45555666666654 46799999999999987632 3699999999864
No 6
>PRK14297 chaperone protein DnaJ; Provisional
Probab=95.68 E-value=0.0063 Score=50.42 Aligned_cols=29 Identities=28% Similarity=0.578 Sum_probs=22.5
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcce
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGF 97 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGF 97 (133)
-.-=+..|+-..|-+.|...|+.|+|.|.
T Consensus 131 sLee~~~G~~~~i~~~r~~~C~~C~G~G~ 159 (380)
T PRK14297 131 TFEEAVFGVEKEISVTRNENCETCNGTGA 159 (380)
T ss_pred EHHHhcCCeEEEEEeeeeccCCCcccccc
Confidence 34456678889999999888888877776
No 7
>PTZ00037 DnaJ_C chaperone protein; Provisional
Probab=95.58 E-value=0.0099 Score=50.89 Aligned_cols=61 Identities=23% Similarity=0.467 Sum_probs=40.1
Q ss_pred ehhHHHHHHhcccceeeeecCCCCCCCCCcceeeeccccc----------hhh----hhccccceEeecccCCCccc
Q 032793 66 IAGAAAVALLGTGFPILFSRKDMCPECDGAGFVRKSGATL----------RAN----AARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 66 iagAiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~g~~l----------~an----aArkd~~qivc~~cnglgkl 128 (133)
+-.-+-=+..|.-..|-+.|+..|+.|+|.|. +.+..- +-. .-.--|.|..|+.|+|.|+.
T Consensus 130 l~vtLee~~~G~~~~i~~~r~~~C~~C~G~G~--~~~~~~~C~~C~G~G~~~~~~~~g~~~~q~~~~C~~C~G~G~~ 204 (421)
T PTZ00037 130 LKVTLEQIYNGAMRKLAINKDVICANCEGHGG--PKDAFVDCKLCNGQGIRVQIRQMGSMIHQTQSTCNSCNGQGKI 204 (421)
T ss_pred eeeeHHHHhCCCceEEEeeccccccccCCCCC--CCCCCccCCCCCCCCeEEEEEeecceeeEEEEeCCCCCCccee
Confidence 33445556778889999999999999999884 222100 000 00122568899999999986
No 8
>PRK14285 chaperone protein DnaJ; Provisional
Probab=95.53 E-value=0.0097 Score=49.33 Aligned_cols=58 Identities=28% Similarity=0.476 Sum_probs=35.9
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcceeee-----------ccccchhhhhccccceEeecccCCCccc
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGFVRK-----------SGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGFvrk-----------~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
-.-=+..|.-..|-+.|...|+.|+|.|.-.. +|.... .--. -|.|..|+.|+|-|++
T Consensus 129 tlee~~~G~~~~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~-~~G~-~~~~~~C~~C~G~G~~ 197 (365)
T PRK14285 129 SLEDAYLGYKNNINITRNMLCESCLGKKSEKGTSPSICNMCNGSGRVMQ-GGGF-FRVTTTCPKCYGNGKI 197 (365)
T ss_pred EHHHhhCCeEEEEEeeecccCCCCCCcccCCCCCCccCCCccCceeEEe-cCce-eEEeeecCCCCCcccc
Confidence 34456678899999999887777777664211 010000 0011 1568899999999976
No 9
>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=95.46 E-value=0.01 Score=48.31 Aligned_cols=60 Identities=27% Similarity=0.459 Sum_probs=36.8
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcceeeec---------cccchhhhhc----cccceEeecccCCCccc
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGFVRKS---------GATLRANAAR----KDEVQIVCARCNGLGKL 128 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~---------g~~l~anaAr----kd~~qivc~~cnglgkl 128 (133)
-.-=+..|.-..|-+.|...|+.|+|.|.-... |.-.....-+ .-|.|..|..|+|-|+.
T Consensus 126 sLee~~~G~~~~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~~~~~~~g~~~~~~~C~~C~G~G~~ 198 (354)
T TIGR02349 126 TFEEAVFGVEKEIEIPRKESCETCHGTGAKPGTDPKTCPTCGGTGQVRRQQGTPFGFFQQQQTCPTCGGEGKI 198 (354)
T ss_pred EHHHHhCCeeEEEEeecCCcCCCCCCCCCCCCCCCccCCCCCCeeEEEEEEeccCCceEEEEecCCCCCccee
Confidence 345566788889999999998888888863221 0000000000 11236789999998876
No 10
>PRK14278 chaperone protein DnaJ; Provisional
Probab=95.41 E-value=0.011 Score=49.24 Aligned_cols=31 Identities=16% Similarity=0.292 Sum_probs=23.9
Q ss_pred hhHHHHHHhcccceeeeecCCCCCCCCCcce
Q 032793 67 AGAAAVALLGTGFPILFSRKDMCPECDGAGF 97 (133)
Q Consensus 67 agAiAvalvGTAfpIlfsRkd~CPECdGaGF 97 (133)
-.-.-=+.-|.-..|-+.|...|+.|+|.|.
T Consensus 120 ~vtLee~~~G~~~~i~~~~~~~C~~C~G~G~ 150 (378)
T PRK14278 120 RLDLEECATGVTKQVTVDTAVLCDRCHGKGT 150 (378)
T ss_pred EEEHHHhcCCeEEEEEEEeeccCCCCcCccC
Confidence 3344556679999999999988888888775
No 11
>PRK14298 chaperone protein DnaJ; Provisional
Probab=95.37 E-value=0.015 Score=48.54 Aligned_cols=55 Identities=25% Similarity=0.499 Sum_probs=35.6
Q ss_pred HHHHHhcccceeeeecCCCCCCCCCcce-----------------eeeccccchhhhhccccceEeecccCCCccc
Q 032793 70 AAVALLGTGFPILFSRKDMCPECDGAGF-----------------VRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 70 iAvalvGTAfpIlfsRkd~CPECdGaGF-----------------vrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
.-=+.-|.-..|-+.|...|+.|+|.|. +...-.. ---.-|.|..|..|+|.|+.
T Consensus 125 lee~~~G~~~~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~~~~~----~~g~~~~~~~C~~C~G~G~~ 196 (377)
T PRK14298 125 LEEAAFGVRKDIDVPRAERCSTCSGTGAKPGTSPKRCPTCGGTGQVTTTRST----PLGQFVTTTTCSTCHGRGQV 196 (377)
T ss_pred HHHhhCCeEEEEEEEeeccCCCCCCCcccCCCCCCcCCCCCCccEEEEEEec----CceeEEEEEeCCCCCCCCcc
Confidence 4456678889999998877777777664 2221100 00012568889999999975
No 12
>PRK14294 chaperone protein DnaJ; Provisional
Probab=95.26 E-value=0.011 Score=48.90 Aligned_cols=61 Identities=25% Similarity=0.511 Sum_probs=38.0
Q ss_pred ehhHHHHHHhcccceeeeecCCCCCCCCCcceeeecc-----------ccchhhhhccccceEeecccCCCccc
Q 032793 66 IAGAAAVALLGTGFPILFSRKDMCPECDGAGFVRKSG-----------ATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 66 iagAiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~g-----------~~l~anaArkd~~qivc~~cnglgkl 128 (133)
+-.-+-=+..|.-..|-+.|...|+.|+|.|.-.... ...... . --|.|..|+.|+|-|+.
T Consensus 124 l~lslee~~~G~~~~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~~~-G-~~~~~~~C~~C~G~G~~ 195 (366)
T PRK14294 124 LTLPFLEAAFGTEKEIRIQKLETCEECHGSGCEPGTSPTTCPQCGGSGQVTQSQ-G-FFSIRTTCPRCRGMGKV 195 (366)
T ss_pred EEeeHHHhcCCeEEEEEeeecccCCCCCCccccCCCCcccCCCcCCeEEEEEEe-e-eEEEEeeCCCCCCcCee
Confidence 3334455667888899999988888888777632210 000000 0 11467889999999876
No 13
>PRK14296 chaperone protein DnaJ; Provisional
Probab=95.24 E-value=0.016 Score=48.29 Aligned_cols=63 Identities=27% Similarity=0.384 Sum_probs=38.0
Q ss_pred ehhHHHHHHhcccceeeeecCCCCCCCCCcceeeec-----------cccc--hhhhhccccceEeecccCCCccc
Q 032793 66 IAGAAAVALLGTGFPILFSRKDMCPECDGAGFVRKS-----------GATL--RANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 66 iagAiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~-----------g~~l--~anaArkd~~qivc~~cnglgkl 128 (133)
+---.-=+.-|+-..|-+.|...|+.|+|.|.--.+ |... +-..----|.|..|+.|+|-|+.
T Consensus 129 l~ltlee~~~G~~~~i~~~~~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~~~~~g~~~~q~~~~C~~C~G~G~~ 204 (372)
T PRK14296 129 IYLTFKELLFGVDKIIELDLLTNCSKCFGSGAESNSDIHICNNCHGTGEVLVQKNMGFFQFQQSAKCNVCNGAGKI 204 (372)
T ss_pred eeccHHHhhCCeeEEEEEeeeeccCCCCCCccCCCCCCccCCCCCCCceEEEEEeccceEEEEEecCCCcCCccee
Confidence 334455567899999999998888888877752111 0000 00000011467789999998876
No 14
>PRK14300 chaperone protein DnaJ; Provisional
Probab=95.10 E-value=0.015 Score=48.16 Aligned_cols=52 Identities=27% Similarity=0.505 Sum_probs=34.8
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcce-----------------eeeccccchhhhhccccceEeecccCCCccc
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGF-----------------VRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGF-----------------vrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
-.-=++-|.-..|-+.|+..||.|+|.|. ++..- ---|.+..|..|+|-|++
T Consensus 128 sLee~~~G~~k~i~~~r~~~C~~C~G~g~~~~~~~~~C~~C~G~G~~~~~~--------g~~~~~~~C~~C~G~G~~ 196 (372)
T PRK14300 128 NLEEAFHGIEKNISFSSEVKCDTCHGSGSEKGETVTTCDACSGVGATRMQQ--------GFFTIEQACHKCQGNGQI 196 (372)
T ss_pred EHHHHhCCceEEEEeeeccccCCCCCcccCCCCCCccCCCccCeEEEEEee--------ceEEEEEeCCCCCccceE
Confidence 34455678889999999877777666654 33211 012457789999998876
No 15
>PRK14279 chaperone protein DnaJ; Provisional
Probab=95.08 E-value=0.014 Score=48.92 Aligned_cols=61 Identities=21% Similarity=0.411 Sum_probs=37.3
Q ss_pred ehhHHHHHHhcccceeeeecCCCCCCCCCcceeeec-----------cccchhhhhccccceEeecccCCCccc
Q 032793 66 IAGAAAVALLGTGFPILFSRKDMCPECDGAGFVRKS-----------GATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 66 iagAiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~-----------g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
+-.-.-=+.-|.-..|-+.|...||.|+|.|.-..+ |....-. .--+.|..|..|+|-|++
T Consensus 153 l~ltLee~~~G~~~~v~~~~~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~~~--g~~~~~~~C~~C~G~G~~ 224 (392)
T PRK14279 153 TTLDFVEAAKGVTMPLRLTSPAPCTTCHGSGARPGTSPKVCPTCNGSGVISRNQ--GAFGFSEPCTDCRGTGSI 224 (392)
T ss_pred EEEEHHHHhCCeEEEEeeeccccCCCCccccccCCCCCCCCCCCcceEEEEEEe--cceEEEEecCCCCceeEE
Confidence 333455566788888999988777777776653211 1100000 111467889999999876
No 16
>PRK14300 chaperone protein DnaJ; Provisional
Probab=95.07 E-value=0.014 Score=48.40 Aligned_cols=33 Identities=30% Similarity=0.956 Sum_probs=24.8
Q ss_pred eeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccccc
Q 032793 82 LFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQ 130 (133)
Q Consensus 82 lfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q 130 (133)
+|.-.-.|++|+|.|++.+. .|..|+|.|.+.+
T Consensus 180 ~~~~~~~C~~C~G~G~~~~~----------------~C~~C~G~g~v~~ 212 (372)
T PRK14300 180 FFTIEQACHKCQGNGQIIKN----------------PCKKCHGMGRYHK 212 (372)
T ss_pred eEEEEEeCCCCCccceEeCC----------------CCCCCCCceEEEe
Confidence 34445599999999998531 2999999998643
No 17
>PRK14301 chaperone protein DnaJ; Provisional
Probab=95.03 E-value=0.015 Score=48.40 Aligned_cols=55 Identities=24% Similarity=0.527 Sum_probs=36.8
Q ss_pred ehhHHHHHHhcccceeeeecCCCCCCCCCcce-----------------eeeccccchhhhhccccceEeecccCCCccc
Q 032793 66 IAGAAAVALLGTGFPILFSRKDMCPECDGAGF-----------------VRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 66 iagAiAvalvGTAfpIlfsRkd~CPECdGaGF-----------------vrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
+---.-=+..|.-..|-+.|...|+.|+|.|. +...- . --|.|..|+.|+|.|+.
T Consensus 124 l~vtLee~~~G~~k~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~v~~~~-------G-~~~~~~~C~~C~G~G~~ 195 (373)
T PRK14301 124 LTVSFRQAAKGDEVTLRIPKNVTCDDCGGSGAAPGTSPETCRHCGGSGQVRQSQ-------G-FFQIAVPCPVCRGEGRV 195 (373)
T ss_pred EeccHHHHhCCceEEEEeeecccCCCCCCcccCCCCCCcccCCccCeeEEEEEe-------e-eEEEEEeCCCCCceeee
Confidence 44445556678888999988877776666654 33221 0 12458899999999976
No 18
>PRK14282 chaperone protein DnaJ; Provisional
Probab=94.98 E-value=0.018 Score=47.54 Aligned_cols=32 Identities=28% Similarity=0.703 Sum_probs=23.9
Q ss_pred ehhHHHHHHhcccceeeeecCCCCCCCCCcce
Q 032793 66 IAGAAAVALLGTGFPILFSRKDMCPECDGAGF 97 (133)
Q Consensus 66 iagAiAvalvGTAfpIlfsRkd~CPECdGaGF 97 (133)
+---.-=+.-|.-..|-+.|+.+|+.|+|.|.
T Consensus 132 l~~slee~~~G~~~~i~~~r~~~C~~C~G~G~ 163 (369)
T PRK14282 132 IEVTLSDLINGAEIPVEYDRYETCPHCGGTGV 163 (369)
T ss_pred EEEEHHHhcCCeEEEEEeeecccCCCCCccCC
Confidence 33344556678888999999988888888776
No 19
>PRK14276 chaperone protein DnaJ; Provisional
Probab=94.78 E-value=0.023 Score=47.24 Aligned_cols=28 Identities=25% Similarity=0.632 Sum_probs=21.3
Q ss_pred HHHHHhcccceeeeecCCCCCCCCCcce
Q 032793 70 AAVALLGTGFPILFSRKDMCPECDGAGF 97 (133)
Q Consensus 70 iAvalvGTAfpIlfsRkd~CPECdGaGF 97 (133)
.-=+.-|.-..|-+.|...|+.|+|.|.
T Consensus 130 Lee~~~G~~~~i~~~~~~~C~~C~G~G~ 157 (380)
T PRK14276 130 FEEAIFGKEKEVSYNREATCHTCNGSGA 157 (380)
T ss_pred HHHhcCCeEEEEEeeccccCCCCcCccc
Confidence 3445568888899999888887777775
No 20
>PRK14287 chaperone protein DnaJ; Provisional
Probab=94.75 E-value=0.018 Score=47.92 Aligned_cols=29 Identities=28% Similarity=0.565 Sum_probs=23.0
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcce
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGF 97 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGF 97 (133)
-.-=+..|+-..|-+.|...|+.|+|.|.
T Consensus 121 slee~~~G~~~~i~~~r~~~C~~C~G~G~ 149 (371)
T PRK14287 121 EFKEAVFGKETEIEIPREETCGTCHGSGA 149 (371)
T ss_pred EHHHhcCCeEEEEEEeeeccCCCCCCccc
Confidence 34556678999999999888888888775
No 21
>PRK10767 chaperone protein DnaJ; Provisional
Probab=94.70 E-value=0.022 Score=46.90 Aligned_cols=57 Identities=26% Similarity=0.410 Sum_probs=35.9
Q ss_pred HHHHHhcccceeeeecCCCCCCCCCcceeeec-----------cccchhhhhccccceEeecccCCCccc
Q 032793 70 AAVALLGTGFPILFSRKDMCPECDGAGFVRKS-----------GATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 70 iAvalvGTAfpIlfsRkd~CPECdGaGFvrk~-----------g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
.-=+.-|.-..|-+.|...||.|+|.|.-... |...... ---|.|..|..|+|.|+.
T Consensus 126 Lee~~~G~~~~v~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~~~--g~~~~~~~C~~C~G~G~~ 193 (371)
T PRK10767 126 LEEAVRGVTKEIRIPTLVTCDTCHGSGAKPGTSPKTCPTCHGAGQVRMQQ--GFFTVQQTCPTCHGRGKI 193 (371)
T ss_pred hHHhhCCeeEEEeeeecccCCCCCCcccCCCCCCccCCCCCCeeEEEEee--ceEEEEEeCCCCCCceeE
Confidence 44566788899999998888888777753211 1000000 011467789999999876
No 22
>PRK14288 chaperone protein DnaJ; Provisional
Probab=94.69 E-value=0.023 Score=47.17 Aligned_cols=55 Identities=27% Similarity=0.463 Sum_probs=35.4
Q ss_pred ehhHHHHHHhcccceeeeecCCCCCCCCCcce----------------eeeccccchhhhhccccceEeecccCCCccc
Q 032793 66 IAGAAAVALLGTGFPILFSRKDMCPECDGAGF----------------VRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 66 iagAiAvalvGTAfpIlfsRkd~CPECdGaGF----------------vrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
+-.-.-=+..|+-..|-+.|...|+.|+|.|. ++... ---|.|..|+.|+|-|+.
T Consensus 120 l~vslee~~~G~~~~i~~~r~~~C~~C~G~G~~~~~~~~C~~C~G~G~~~~~~--------g~~~~~~~C~~C~G~G~~ 190 (369)
T PRK14288 120 IELSFKEAVFGCKKTIKVQYQSVCESCDGTGAKDKALETCKQCNGQGQVFMRQ--------GFMSFAQTCGACQGKGKI 190 (369)
T ss_pred ccccHHHHhCCeEEEEEEEeeccCCCCCCcccCCCCCcCCCCCCCCcEEEEEe--------ceEEEEEecCCCCCCceE
Confidence 33344556679889999998877776666653 32221 012456688888888875
No 23
>PRK14295 chaperone protein DnaJ; Provisional
Probab=94.67 E-value=0.029 Score=47.05 Aligned_cols=58 Identities=26% Similarity=0.560 Sum_probs=35.5
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcceeeec-----------cccchhhhhccccceEeecccCCCccc
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGFVRKS-----------GATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~-----------g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
-.-=+..|.-..|-+.|...|+.|+|.|.-..+ |.... .- ---+.|..|+.|+|-|++
T Consensus 149 sLee~~~G~~k~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~-~~-g~~~~~~~C~~C~G~G~~ 217 (389)
T PRK14295 149 SFTEAIDGATVPLRLTSQAPCPACSGTGAKNGTTPRVCPTCSGTGQVSR-NS-GGFSLSEPCPDCKGRGLI 217 (389)
T ss_pred EHHHHhCCceEEEEeeccccCCCCcccccCCCCCCcCCCCCCCEeEEEE-Ee-cceEEEEecCCCcceeEE
Confidence 344456788889999998777777776653211 00000 00 012467889999999875
No 24
>PRK14280 chaperone protein DnaJ; Provisional
Probab=94.62 E-value=0.022 Score=47.26 Aligned_cols=29 Identities=24% Similarity=0.551 Sum_probs=23.4
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcce
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGF 97 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGF 97 (133)
-.-=+.-|+-..|-++|...|+.|+|.|.
T Consensus 126 tLee~~~G~~~~i~~~r~~~C~~C~G~G~ 154 (376)
T PRK14280 126 TFEEAVFGKEKEIEIPKEETCDTCHGSGA 154 (376)
T ss_pred EHHHHhCCceeEEEEeeeccCCCCCCccc
Confidence 34556789999999999988888888775
No 25
>PRK14291 chaperone protein DnaJ; Provisional
Probab=94.38 E-value=0.026 Score=46.95 Aligned_cols=51 Identities=25% Similarity=0.483 Sum_probs=34.2
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcc-----------------eeeeccccchhhhhccccceEeecccCCCcc
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAG-----------------FVRKSGATLRANAARKDEVQIVCARCNGLGK 127 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaG-----------------Fvrk~g~~l~anaArkd~~qivc~~cnglgk 127 (133)
-.-=+.-|.-..|-+.|...|+.|+|.| .+...+. --+.|..|..|+|.|.
T Consensus 139 sLee~~~G~~~~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~~~g--------~~~~~~~C~~C~G~G~ 206 (382)
T PRK14291 139 SLEEAYTGTTVSLEVPRYVPCEACGGTGYDPGSGEKVCPTCGGSGEIYQRGG--------FFRISQTCPTCGGEGV 206 (382)
T ss_pred EHHHhhCCEEEEEEEeeeccCCCCccccCCCCCCCccCCCCCCceEEEEecc--------eEEEEecCCCCCCceE
Confidence 3555677888999998887766666655 4444321 1245778888888885
No 26
>PRK10767 chaperone protein DnaJ; Provisional
Probab=94.32 E-value=0.028 Score=46.25 Aligned_cols=28 Identities=36% Similarity=0.997 Sum_probs=19.8
Q ss_pred CCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 86 KDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
.-+|+.|.|.|++.+ ..|..|+|.|.+.
T Consensus 181 ~~~C~~C~G~G~~~~----------------~~C~~C~G~g~v~ 208 (371)
T PRK10767 181 QQTCPTCHGRGKIIK----------------DPCKKCHGQGRVE 208 (371)
T ss_pred EEeCCCCCCceeECC----------------CCCCCCCCCceEe
Confidence 347777777776632 2499999998764
No 27
>PRK14279 chaperone protein DnaJ; Provisional
Probab=94.29 E-value=0.027 Score=47.27 Aligned_cols=44 Identities=20% Similarity=0.641 Sum_probs=27.2
Q ss_pred CCCCCCCCCcceeeeccccchhhh------hccccceEeecccCCCcccc
Q 032793 86 KDMCPECDGAGFVRKSGATLRANA------ARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~~l~ana------Arkd~~qivc~~cnglgkl~ 129 (133)
..+||.|+|.|++...-....... -+-.-..-.|..|+|.|.+.
T Consensus 190 ~~~C~~C~G~G~~~~~~g~~~~~~~C~~C~G~G~~i~~~C~~C~G~g~v~ 239 (392)
T PRK14279 190 PKVCPTCNGSGVISRNQGAFGFSEPCTDCRGTGSIIEDPCEECKGTGVTT 239 (392)
T ss_pred CCCCCCCcceEEEEEEecceEEEEecCCCCceeEEeCCcCCCCCCCeEEE
Confidence 368999999999876543321100 01112345699999988764
No 28
>PRK14277 chaperone protein DnaJ; Provisional
Probab=94.28 E-value=0.029 Score=46.73 Aligned_cols=29 Identities=31% Similarity=0.474 Sum_probs=23.8
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcce
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGF 97 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGF 97 (133)
-..=+.-|.-..|-+.|+..||.|+|.|.
T Consensus 138 tLee~~~G~~~~v~~~r~~~C~~C~G~G~ 166 (386)
T PRK14277 138 TFEEAAFGTEKEIEVERFEKCDVCKGSGA 166 (386)
T ss_pred EHHHHhCCeEEEEEEEeeccCCCCCCCCc
Confidence 44556679999999999999998888775
No 29
>PRK14286 chaperone protein DnaJ; Provisional
Probab=94.22 E-value=0.027 Score=46.81 Aligned_cols=59 Identities=29% Similarity=0.545 Sum_probs=35.9
Q ss_pred hHHHHHHhcccceeeeecCCCCCCCCCcceeeec-----------cccchhhhhccccceEeecccCCCccc
Q 032793 68 GAAAVALLGTGFPILFSRKDMCPECDGAGFVRKS-----------GATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 68 gAiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~-----------g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
.-.-=+.-|.-..|-+.|...|+.|+|.|.-... |....-. ---|.|..|+.|+|-|+.
T Consensus 132 vtLee~~~G~~k~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~v~~~~--G~~~~~~~C~~C~G~G~~ 201 (372)
T PRK14286 132 VSLEDAALGREYKIEIPRLESCVDCNGSGASKGSSPTTCPDCGGSGQIRRTQ--GFFSVATTCPTCRGKGTV 201 (372)
T ss_pred EEHHHHhCCeeEEEEeeccccCCCCcCCCcCCCCCCccCCCCcCeEEEEEEe--ceEEEEEeCCCCCceeeE
Confidence 3445567788999999998888888777752111 0000000 011456688888888875
No 30
>PRK14284 chaperone protein DnaJ; Provisional
Probab=94.21 E-value=0.033 Score=46.52 Aligned_cols=53 Identities=26% Similarity=0.426 Sum_probs=35.1
Q ss_pred hHHHHHHhcccceeeeecCCCCCCCCCcce-----------------eeeccccchhhhhccccceEeecccCCCccc
Q 032793 68 GAAAVALLGTGFPILFSRKDMCPECDGAGF-----------------VRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 68 gAiAvalvGTAfpIlfsRkd~CPECdGaGF-----------------vrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
.-.-=+..|.-..|-+.|...|+.|+|.|. |...- ---|.|..|+.|+|-|+.
T Consensus 140 vslee~~~G~~~~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~v~~~~--------G~~~~~~~C~~C~G~G~~ 209 (391)
T PRK14284 140 LSFEEAAKGVEKELLVSGYKSCDACSGSGANSSQGIKVCDRCKGSGQVVQSR--------GFFSMASTCPECGGEGRV 209 (391)
T ss_pred EEHHHHhCCeeEEEEEeeeccCCCCcccccCCCCCCeecCccCCeeEEEEEe--------ceEEEEEECCCCCCCCcc
Confidence 334456678888888988877777666664 32211 012467789999999875
No 31
>PRK14287 chaperone protein DnaJ; Provisional
Probab=94.20 E-value=0.034 Score=46.27 Aligned_cols=39 Identities=28% Similarity=0.610 Sum_probs=24.5
Q ss_pred CCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 86 KDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
..+||.|+|.|.+...-...--. -+.|..|+.|+|-|++
T Consensus 155 ~~~C~~C~G~G~~~~~~~~~~G~----~~~~~~C~~C~G~G~~ 193 (371)
T PRK14287 155 PETCSHCGGSGQLNVEQNTPFGR----VVNRRVCHHCEGTGKI 193 (371)
T ss_pred CcccCCCCCEEEEEEEEecCCce----EEEEEeCCCCCCCCcc
Confidence 46799999999876542111000 1236688888888875
No 32
>PRK14281 chaperone protein DnaJ; Provisional
Probab=94.04 E-value=0.036 Score=46.45 Aligned_cols=34 Identities=18% Similarity=0.305 Sum_probs=24.4
Q ss_pred eeehhHHHHHHhcccceeeeecCCCCCCCCCcce
Q 032793 64 YLIAGAAAVALLGTGFPILFSRKDMCPECDGAGF 97 (133)
Q Consensus 64 yliagAiAvalvGTAfpIlfsRkd~CPECdGaGF 97 (133)
|-+-.-.-=+..|.-..|-+.|...|+.|+|.|.
T Consensus 141 ~~l~vtLee~~~G~~~~i~~~r~~~C~~C~G~G~ 174 (397)
T PRK14281 141 IRLKLTLEEIAKGVEKTLKIKKQVPCKECNGTGS 174 (397)
T ss_pred EEEEeEHHHHhCCeEEEEEEEeeecCCCCCCccc
Confidence 3344445556789999999999888877777664
No 33
>PRK14290 chaperone protein DnaJ; Provisional
Probab=93.94 E-value=0.038 Score=45.67 Aligned_cols=61 Identities=28% Similarity=0.575 Sum_probs=36.1
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcceeeec----------cc--cchhhhhccccceEeecccCCCcccc
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGFVRKS----------GA--TLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~----------g~--~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
-.-=+.-|.-..|-+.|...||.|+|.|+-... |. ..+..--=..|.|..|+.|+|-|+..
T Consensus 132 sLee~~~G~~~~i~~~r~~~C~~C~G~g~~~~~~~~C~~C~G~G~~~~~~~~g~~~~~~~~~C~~C~G~G~~~ 204 (365)
T PRK14290 132 SLEDAYYGTEKRIKYRRNAMCPDCSGTGAKNGKLITCPTCHGTGQQRIVRGQGFFRMVTVTTCRTCGGRGRIP 204 (365)
T ss_pred cHHHhcCCEEEEEEeeecccCCCCccccCCCCCCccCCCCCCcCEEEEEeccCeEEEEEEEeCCCCCCceeEc
Confidence 344456688888889999888888888852110 00 00000000123467899999988763
No 34
>PRK14288 chaperone protein DnaJ; Provisional
Probab=93.92 E-value=0.039 Score=45.84 Aligned_cols=27 Identities=30% Similarity=0.712 Sum_probs=21.3
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
-.||+|.|.|++.+ -.|..|+|.|.+.
T Consensus 179 ~~C~~C~G~G~~~~----------------~~C~~C~G~g~v~ 205 (369)
T PRK14288 179 QTCGACQGKGKIIK----------------TPCQACKGKTYIL 205 (369)
T ss_pred EecCCCCCCceEcc----------------ccCccCCCcceEE
Confidence 48999999998742 1299999998654
No 35
>PRK14289 chaperone protein DnaJ; Provisional
Probab=93.89 E-value=0.037 Score=45.88 Aligned_cols=60 Identities=20% Similarity=0.325 Sum_probs=36.3
Q ss_pred ehhHHHHHHhcccceeeeecCCCCCCCCCccee-----------------eeccccchhhhhccccceEeecccCCCccc
Q 032793 66 IAGAAAVALLGTGFPILFSRKDMCPECDGAGFV-----------------RKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 66 iagAiAvalvGTAfpIlfsRkd~CPECdGaGFv-----------------rk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
+-.-.-=++-|.-..|-+.|+..|+.|+|.|.- ...-. ..--.-+.|..|+.|+|-|+.
T Consensus 134 l~vsLee~~~G~~~~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~~~~----~~~G~~~~~~~C~~C~G~G~~ 209 (386)
T PRK14289 134 VKLNLKEISTGVEKKFKVKKYVPCSHCHGTGAEGNNGSETCPTCKGSGSVTRVQN----TILGTMQTQSTCPTCNGEGKI 209 (386)
T ss_pred EEEEHHHhhCCeEEEEEEEeecccCCCCCCCCCCCCCCCcCCCCcCeEEEEEEEe----cccceEEEEEecCCCCccccc
Confidence 333445566788888888888777777666642 22110 000112357889999999876
Q ss_pred c
Q 032793 129 N 129 (133)
Q Consensus 129 ~ 129 (133)
-
T Consensus 210 ~ 210 (386)
T PRK14289 210 I 210 (386)
T ss_pred c
Confidence 3
No 36
>PRK14291 chaperone protein DnaJ; Provisional
Probab=93.88 E-value=0.036 Score=46.14 Aligned_cols=31 Identities=39% Similarity=0.980 Sum_probs=24.0
Q ss_pred eeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 82 LFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 82 lfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
++...-.|+.|.|.|+++ ..|..|+|.|-+.
T Consensus 191 ~~~~~~~C~~C~G~G~~~-----------------~~C~~C~G~g~v~ 221 (382)
T PRK14291 191 FFRISQTCPTCGGEGVLR-----------------EPCSKCNGRGLVI 221 (382)
T ss_pred eEEEEecCCCCCCceEEc-----------------cCCCCCCCCceEE
Confidence 456678999999999641 2499999988653
No 37
>PRK14289 chaperone protein DnaJ; Provisional
Probab=93.61 E-value=0.052 Score=45.06 Aligned_cols=32 Identities=31% Similarity=0.821 Sum_probs=24.0
Q ss_pred eeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 82 LFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 82 lfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
++...-.||.|+|.|++.+ -.|..|+|-|.+.
T Consensus 193 ~~~~~~~C~~C~G~G~~~~----------------~~C~~C~G~g~v~ 224 (386)
T PRK14289 193 TMQTQSTCPTCNGEGKIIK----------------KKCKKCGGEGIVY 224 (386)
T ss_pred eEEEEEecCCCCccccccC----------------cCCCCCCCCcEEe
Confidence 3345778999999998752 1399999998654
No 38
>PRK14290 chaperone protein DnaJ; Provisional
Probab=93.38 E-value=0.05 Score=44.96 Aligned_cols=14 Identities=43% Similarity=0.892 Sum_probs=10.5
Q ss_pred EeecccCCCccccc
Q 032793 117 IVCARCNGLGKLNQ 130 (133)
Q Consensus 117 ivc~~cnglgkl~q 130 (133)
-.|..|+|-|-+.+
T Consensus 206 ~~C~~C~G~g~v~~ 219 (365)
T PRK14290 206 EKCPRCNGTGTVVV 219 (365)
T ss_pred CCCCCCCCceeEEE
Confidence 35999999886543
No 39
>PRK14281 chaperone protein DnaJ; Provisional
Probab=93.35 E-value=0.051 Score=45.56 Aligned_cols=38 Identities=32% Similarity=0.751 Sum_probs=23.4
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
..|+.|+|.|.++......-- --+.|..|..|+|-|+.
T Consensus 180 ~~C~~C~G~G~~~~~~~~~~g----~~~~~~~C~~C~G~G~~ 217 (397)
T PRK14281 180 ETCPTCHGSGEVRQASKTMFG----QFVNITACPTCGGEGRV 217 (397)
T ss_pred ccCCCCCCCcEEEEEEecccc----eEEEEEecCCCcceeee
Confidence 579999999888654321110 01225678888888765
No 40
>PRK14301 chaperone protein DnaJ; Provisional
Probab=93.12 E-value=0.066 Score=44.58 Aligned_cols=33 Identities=36% Similarity=0.838 Sum_probs=25.2
Q ss_pred eeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccccc
Q 032793 82 LFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQ 130 (133)
Q Consensus 82 lfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q 130 (133)
+|...-.|++|+|.|++ .+-.|+.|+|.|.+.+
T Consensus 179 ~~~~~~~C~~C~G~G~~----------------~~~~C~~C~G~g~v~~ 211 (373)
T PRK14301 179 FFQIAVPCPVCRGEGRV----------------ITHPCPKCKGSGIVQQ 211 (373)
T ss_pred eEEEEEeCCCCCceeee----------------cCCCCCCCCCCceecc
Confidence 46667889999999985 1234999999987654
No 41
>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=92.94 E-value=0.079 Score=34.36 Aligned_cols=29 Identities=34% Similarity=0.982 Sum_probs=20.1
Q ss_pred CCCCCCcceeeeccccchhhhhccccceEeecccCCCccccc
Q 032793 89 CPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQ 130 (133)
Q Consensus 89 CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q 130 (133)
||+|+|.|.- ++.....|+.|+|-|.+-+
T Consensus 1 C~~C~G~G~~-------------~~~~~~~C~~C~G~G~~~~ 29 (66)
T PF00684_consen 1 CPKCNGTGAK-------------PGKKPKTCPQCNGSGQVTR 29 (66)
T ss_dssp -CCCTTTSB--------------STTT-EE-TTSSSSSEEEE
T ss_pred CCcCCCcccC-------------CCCCCcCCcCCCCeeEEEE
Confidence 8999998852 4555679999999998644
No 42
>PRK14292 chaperone protein DnaJ; Provisional
Probab=92.72 E-value=0.079 Score=43.67 Aligned_cols=35 Identities=17% Similarity=0.200 Sum_probs=27.4
Q ss_pred eeeehhHHHHHHhcccceeeeecCCCCCCCCCcce
Q 032793 63 TYLIAGAAAVALLGTGFPILFSRKDMCPECDGAGF 97 (133)
Q Consensus 63 ~yliagAiAvalvGTAfpIlfsRkd~CPECdGaGF 97 (133)
.|-+.....=+..|....|-+.|...||.|+|.|+
T Consensus 116 ~~~l~~sLee~~~G~~~~v~~~r~~~C~~C~G~G~ 150 (371)
T PRK14292 116 ETEARITLEQARAGEEVEVEVDRLTECEHCHGSRT 150 (371)
T ss_pred EEEEeccHHHHcCCeEEEEEEEeeecCCCCccccc
Confidence 34444556667789999999999999998888886
No 43
>PRK14280 chaperone protein DnaJ; Provisional
Probab=92.58 E-value=0.088 Score=43.79 Aligned_cols=38 Identities=29% Similarity=0.608 Sum_probs=20.2
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
-.|+.|+|.|++...-..--- .-+.|..|..|+|-|+.
T Consensus 161 ~~C~~C~G~G~~~~~~~~~~g----~~~~~~~C~~C~G~G~~ 198 (376)
T PRK14280 161 ETCSHCGGSGQVSVEQNTPFG----RVVNRQTCPHCNGTGQE 198 (376)
T ss_pred ccCCCCCCEEEEEEEeecCCc----eEEEEEEcCCCCCCCce
Confidence 468888888776543211000 01235567777776654
No 44
>PRK14283 chaperone protein DnaJ; Provisional
Probab=92.39 E-value=0.1 Score=43.33 Aligned_cols=29 Identities=24% Similarity=0.407 Sum_probs=22.0
Q ss_pred HHHHHHhcccceeeeecCCCCCCCCCcce
Q 032793 69 AAAVALLGTGFPILFSRKDMCPECDGAGF 97 (133)
Q Consensus 69 AiAvalvGTAfpIlfsRkd~CPECdGaGF 97 (133)
-.-=+.-|.-..|-+.|...||.|.|.|.
T Consensus 129 sLed~~~G~~~~i~~~r~~~C~~C~G~G~ 157 (378)
T PRK14283 129 TLEEAASGVEKDIKVRHTKKCPVCNGSRA 157 (378)
T ss_pred eHHHHhCCcceEEEeeeeccCCCCCcccc
Confidence 34555678888898988888888877774
No 45
>PRK14297 chaperone protein DnaJ; Provisional
Probab=92.34 E-value=0.09 Score=43.69 Aligned_cols=39 Identities=28% Similarity=0.620 Sum_probs=23.2
Q ss_pred CCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 86 KDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
.-+||.|+|.|++...-..- .. --+.|..|..|+|-|+.
T Consensus 165 ~~~C~~C~G~G~~~~~~~~~-~G---~~~~~~~C~~C~G~G~~ 203 (380)
T PRK14297 165 PKTCDKCGGTGQIRVQRNTP-LG---SFVSTTTCDKCGGSGKV 203 (380)
T ss_pred CccCCCccCeEEEEEEEEcC-Cc---eeEEEEeCCCCCCCceE
Confidence 35688888888876432100 00 11236678888887765
No 46
>PRK14293 chaperone protein DnaJ; Provisional
Probab=91.80 E-value=0.16 Score=42.16 Aligned_cols=59 Identities=24% Similarity=0.418 Sum_probs=35.1
Q ss_pred HHHHHhcccceeeeecCCCCCCCCCcceeeeccc---------cchhhhh----ccccceEeecccCCCccc
Q 032793 70 AAVALLGTGFPILFSRKDMCPECDGAGFVRKSGA---------TLRANAA----RKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 70 iAvalvGTAfpIlfsRkd~CPECdGaGFvrk~g~---------~l~anaA----rkd~~qivc~~cnglgkl 128 (133)
.-=+..|.-..|-+.|...|+.|+|.|.-..+.. -.....- -.-+.|..|..|+|.|++
T Consensus 127 Lee~~~G~~k~i~~~r~~~C~~C~G~G~~~~~~~~~C~~C~G~G~~~~~~~~~~g~~~~~~~C~~C~G~G~~ 198 (374)
T PRK14293 127 FREAIFGGEKEIRIPHLETCETCRGSGAKPGTGPTTCSTCGGAGQVRRATRTPFGSFTQVSECPTCNGTGQV 198 (374)
T ss_pred HHHHhCCceEEEEeeccccCCCCCCcCCCCCCCCeeCCCCCCcceEEEEEecCcceEEEEeeCCCCCcceeE
Confidence 3445578888888999888888888775221100 0000000 011235789999999986
No 47
>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=91.23 E-value=0.1 Score=42.56 Aligned_cols=31 Identities=32% Similarity=0.926 Sum_probs=21.7
Q ss_pred ecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccccc
Q 032793 84 SRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQ 130 (133)
Q Consensus 84 sRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q 130 (133)
...-.|++|.|.|++.+ ..|..|+|-|.+.+
T Consensus 184 ~~~~~C~~C~G~G~~~~----------------~~C~~C~G~g~v~~ 214 (354)
T TIGR02349 184 QQQQTCPTCGGEGKIIK----------------EPCSTCKGKGRVKE 214 (354)
T ss_pred EEEEecCCCCCcceecC----------------CCCCCCCCCcEecc
Confidence 33557888888777642 24999999987643
No 48
>TIGR00630 uvra excinuclease ABC, A subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.22 E-value=0.12 Score=48.57 Aligned_cols=34 Identities=24% Similarity=0.572 Sum_probs=25.6
Q ss_pred CCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCc
Q 032793 86 KDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLG 126 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglg 126 (133)
.+-||.|.|.|++.-.- +--+.....|+.|+|..
T Consensus 736 ~G~C~~C~G~G~~~~~~-------~f~~~~~~~C~~C~G~R 769 (924)
T TIGR00630 736 GGRCEACQGDGVIKIEM-------HFLPDVYVPCEVCKGKR 769 (924)
T ss_pred CCCCCCCccceEEEEEc-------cCCCCcccCCCCcCCce
Confidence 37899999999998422 22344688999999964
No 49
>PRK00349 uvrA excinuclease ABC subunit A; Reviewed
Probab=91.21 E-value=0.11 Score=49.00 Aligned_cols=35 Identities=23% Similarity=0.579 Sum_probs=25.3
Q ss_pred cCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCc
Q 032793 85 RKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLG 126 (133)
Q Consensus 85 Rkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglg 126 (133)
..+.||+|.|.|++.-.-. --+.....|+.|+|..
T Consensus 737 ~~G~C~~C~G~G~~~~~~~-------f~~~~~~~C~~C~G~R 771 (943)
T PRK00349 737 KGGRCEACQGDGVIKIEMH-------FLPDVYVPCDVCKGKR 771 (943)
T ss_pred CCCCCCcccccceEEEEec-------cCCCccccCccccCcc
Confidence 3578999999999984322 1223567999999964
No 50
>PRK14292 chaperone protein DnaJ; Provisional
Probab=90.55 E-value=0.18 Score=41.60 Aligned_cols=39 Identities=38% Similarity=0.759 Sum_probs=22.5
Q ss_pred CCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 86 KDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
..+|+.|.|.|.++..-.+..-- -|.|..|..|+|-|+.
T Consensus 157 ~~~C~~C~G~G~~~~~~~~~~g~----~~~~~~C~~C~G~G~~ 195 (371)
T PRK14292 157 PKTCPTCRGAGAVRAQARTIFGV----VETQQPCPTCRGEGQI 195 (371)
T ss_pred CccCCCCCCccEEEEEEeccCce----EEEeeecCCCccccee
Confidence 46788888888776543221111 1235667777776654
No 51
>PRK14294 chaperone protein DnaJ; Provisional
Probab=90.50 E-value=0.14 Score=42.38 Aligned_cols=31 Identities=39% Similarity=0.908 Sum_probs=23.2
Q ss_pred eecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 83 FSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 83 fsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
|...-.||.|+|.|++.+ -.|..|+|.|...
T Consensus 180 ~~~~~~C~~C~G~G~~~~----------------~~C~~C~G~g~v~ 210 (366)
T PRK14294 180 FSIRTTCPRCRGMGKVIV----------------SPCKTCHGQGRVR 210 (366)
T ss_pred EEEEeeCCCCCCcCeecC----------------cCCCCCCCceEee
Confidence 345668999999998742 3499999988654
No 52
>PRK14276 chaperone protein DnaJ; Provisional
Probab=90.37 E-value=0.13 Score=42.87 Aligned_cols=39 Identities=28% Similarity=0.560 Sum_probs=24.0
Q ss_pred CCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 86 KDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
..+||.|+|.|.++..-...-.. -|.|..|+.|+|-|+.
T Consensus 163 ~~~C~~C~G~G~~~~~~~~~~G~----~~~~~~C~~C~G~G~~ 201 (380)
T PRK14276 163 PVTCGKCHGSGVITVDTQTPLGM----MRRQVTCDVCHGTGKE 201 (380)
T ss_pred CccCCCCCCeeEEEEEEecCCce----EEEEEECCCCCCCCcc
Confidence 35799999999886542110000 1236688888888875
No 53
>PRK14283 chaperone protein DnaJ; Provisional
Probab=90.36 E-value=0.2 Score=41.65 Aligned_cols=38 Identities=32% Similarity=0.727 Sum_probs=22.3
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
..||.|.|.|.+.+.-....- --+.|..|..|+|-|+.
T Consensus 164 ~~C~~C~G~G~~~~~~~~~~g----~~~~~~~C~~C~G~G~~ 201 (378)
T PRK14283 164 KTCPTCGGTGQVKQVRNTILG----QMMNVTTCPDCQGEGKI 201 (378)
T ss_pred ccCCCcCCccEEEEEEeccCc----eEEEEEECCCCCcccee
Confidence 568888888887643211000 01235677777777765
No 54
>PRK14296 chaperone protein DnaJ; Provisional
Probab=90.30 E-value=0.17 Score=42.23 Aligned_cols=33 Identities=36% Similarity=0.763 Sum_probs=22.8
Q ss_pred eeeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 81 ILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 81 IlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
+.+...-+||.|.|.|++.+ ..|..|+|.|.+.
T Consensus 187 ~~~q~~~~C~~C~G~G~~~~----------------~~C~~C~G~g~v~ 219 (372)
T PRK14296 187 FQFQQSAKCNVCNGAGKIIK----------------NKCKNCKGKGKYL 219 (372)
T ss_pred eEEEEEecCCCcCCcceeec----------------ccccCCCCceEEE
Confidence 44555667788887777632 3499999988653
No 55
>PRK14278 chaperone protein DnaJ; Provisional
Probab=89.97 E-value=0.19 Score=42.02 Aligned_cols=37 Identities=24% Similarity=0.605 Sum_probs=17.6
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
+||.|+|.|.+...-...- -.-+.|..|..|+|.|+.
T Consensus 158 ~C~~C~G~G~~~~~~~~~~----g~~~~~~~C~~C~G~G~~ 194 (378)
T PRK14278 158 TCDTCGGRGEVQTVQRSFL----GQVMTSRPCPTCRGVGEV 194 (378)
T ss_pred ecCCccCceEEEEEEeccc----eeEEEEEECCCCCcccee
Confidence 5777777776554321000 000124456666666654
No 56
>PRK14293 chaperone protein DnaJ; Provisional
Probab=89.64 E-value=0.24 Score=41.14 Aligned_cols=33 Identities=33% Similarity=0.755 Sum_probs=21.3
Q ss_pred eeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccccc
Q 032793 82 LFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQ 130 (133)
Q Consensus 82 lfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q 130 (133)
+|...-.|+.|+|.|++.+ ..|..|+|.|.+.+
T Consensus 182 ~~~~~~~C~~C~G~G~~~~----------------~~C~~C~G~g~v~~ 214 (374)
T PRK14293 182 SFTQVSECPTCNGTGQVIE----------------DPCDACGGQGVKQV 214 (374)
T ss_pred eEEEEeeCCCCCcceeEec----------------cCCCCCCCCccccc
Confidence 4444457777777776521 23999999886643
No 57
>PRK14286 chaperone protein DnaJ; Provisional
Probab=89.53 E-value=0.21 Score=41.64 Aligned_cols=31 Identities=35% Similarity=0.748 Sum_probs=21.8
Q ss_pred ecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccccc
Q 032793 84 SRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQ 130 (133)
Q Consensus 84 sRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q 130 (133)
...-.|++|+|.|++.+ -.|..|+|.|-+.+
T Consensus 187 ~~~~~C~~C~G~G~~~~----------------~~C~~C~G~g~~~~ 217 (372)
T PRK14286 187 SVATTCPTCRGKGTVIS----------------NPCKTCGGQGLQEK 217 (372)
T ss_pred EEEEeCCCCCceeeEec----------------ccCCCCCCCcEEec
Confidence 34458888888887742 13999999987643
No 58
>PRK14285 chaperone protein DnaJ; Provisional
Probab=89.05 E-value=0.22 Score=41.36 Aligned_cols=31 Identities=35% Similarity=0.842 Sum_probs=22.7
Q ss_pred eecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 83 FSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 83 fsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
|...-.||+|.|.|++.+ -.|..|+|.|.+.
T Consensus 182 ~~~~~~C~~C~G~G~~~~----------------~~C~~C~G~g~v~ 212 (365)
T PRK14285 182 FRVTTTCPKCYGNGKIIS----------------NPCKSCKGKGSLK 212 (365)
T ss_pred eEEeeecCCCCCcccccC----------------CCCCCCCCCCEEe
Confidence 355678888888887731 1399999998654
No 59
>PRK14277 chaperone protein DnaJ; Provisional
Probab=88.68 E-value=0.24 Score=41.42 Aligned_cols=14 Identities=50% Similarity=1.070 Sum_probs=9.0
Q ss_pred CCCCCCCCcceeee
Q 032793 87 DMCPECDGAGFVRK 100 (133)
Q Consensus 87 d~CPECdGaGFvrk 100 (133)
..|+.|.|.|.+..
T Consensus 173 ~~C~~C~G~G~~~~ 186 (386)
T PRK14277 173 VTCPVCHGTGQVRT 186 (386)
T ss_pred ccCCCCCCEEEEEE
Confidence 45777777776544
No 60
>PF10080 DUF2318: Predicted membrane protein (DUF2318); InterPro: IPR018758 This domain of unknown function is found in hypothetical bacterial membrane proteins with no known function.
Probab=88.10 E-value=0.56 Score=34.09 Aligned_cols=26 Identities=31% Similarity=0.800 Sum_probs=21.9
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCCC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGL 125 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cngl 125 (133)
|.|--|.+.||..+.+ ++||.+|+-.
T Consensus 36 daCeiC~~~GY~q~g~-------------~lvC~~C~~~ 61 (102)
T PF10080_consen 36 DACEICGPKGYYQEGD-------------QLVCKNCGVR 61 (102)
T ss_pred EeccccCCCceEEECC-------------EEEEecCCCE
Confidence 8899999999996544 7999999854
No 61
>PRK14284 chaperone protein DnaJ; Provisional
Probab=87.98 E-value=0.24 Score=41.44 Aligned_cols=31 Identities=42% Similarity=0.936 Sum_probs=23.4
Q ss_pred eecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 83 FSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 83 fsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
|...-.||+|.|.|++.+ -.|..|+|.|.+.
T Consensus 194 ~~~~~~C~~C~G~G~~~~----------------~~C~~C~G~g~v~ 224 (391)
T PRK14284 194 FSMASTCPECGGEGRVIT----------------DPCSVCRGQGRIK 224 (391)
T ss_pred EEEEEECCCCCCCCcccC----------------CcCCCCCCcceec
Confidence 344559999999998643 1399999998763
No 62
>PF14369 zf-RING_3: zinc-finger
Probab=87.60 E-value=0.33 Score=29.28 Aligned_cols=12 Identities=58% Similarity=1.550 Sum_probs=9.9
Q ss_pred CCCCCCCcceeee
Q 032793 88 MCPECDGAGFVRK 100 (133)
Q Consensus 88 ~CPECdGaGFvrk 100 (133)
+||.|+| |||..
T Consensus 23 ~CP~C~~-gFvEe 34 (35)
T PF14369_consen 23 ACPRCHG-GFVEE 34 (35)
T ss_pred CCcCCCC-cEeEe
Confidence 4999996 99863
No 63
>PRK14282 chaperone protein DnaJ; Provisional
Probab=87.51 E-value=0.25 Score=40.92 Aligned_cols=38 Identities=32% Similarity=0.732 Sum_probs=23.0
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
-+||.|+|.|.+...-...--. -|.|..|+.|+|-|++
T Consensus 170 ~~C~~C~G~G~~~~~~~~~~G~----~~~~~~C~~C~G~G~~ 207 (369)
T PRK14282 170 VTCPKCHGTGRIREERRSFFGV----FVSERTCERCGGTGKI 207 (369)
T ss_pred cCCCCCCCcCEEEEEEEccCcc----eEEEEECCCCCCccee
Confidence 4688888888876532110000 1236688888888865
No 64
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]
Probab=86.69 E-value=0.35 Score=42.08 Aligned_cols=33 Identities=36% Similarity=0.910 Sum_probs=22.7
Q ss_pred eeeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 81 ILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 81 IlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
-+|+..-+||.|.|.|-+-| --|..|+|.|.+.
T Consensus 178 g~~~~~~~C~~C~G~G~~i~----------------~pC~~C~G~G~v~ 210 (371)
T COG0484 178 GFFSFQQTCPTCNGTGKIIK----------------DPCGKCKGKGRVK 210 (371)
T ss_pred eEEEEEEECCCCccceeECC----------------CCCCCCCCCCeEe
Confidence 35667778888888886542 2488888887654
No 65
>PRK14298 chaperone protein DnaJ; Provisional
Probab=86.37 E-value=0.41 Score=40.09 Aligned_cols=33 Identities=33% Similarity=0.716 Sum_probs=24.5
Q ss_pred eeeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 81 ILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 81 IlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
.+|...-.||.|+|.|++.+ ..|..|+|.|.+.
T Consensus 179 g~~~~~~~C~~C~G~G~~~~----------------~~C~~C~G~g~v~ 211 (377)
T PRK14298 179 GQFVTTTTCSTCHGRGQVIE----------------SPCPVCSGTGKVR 211 (377)
T ss_pred eeEEEEEeCCCCCCCCcccC----------------CCCCCCCCccEEE
Confidence 34566779999999998631 1399999988653
No 66
>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=85.89 E-value=0.64 Score=36.90 Aligned_cols=33 Identities=30% Similarity=0.529 Sum_probs=25.2
Q ss_pred cccceeeeecCCCCCCCCCcceeeeccccchhhhh
Q 032793 76 GTGFPILFSRKDMCPECDGAGFVRKSGATLRANAA 110 (133)
Q Consensus 76 GTAfpIlfsRkd~CPECdGaGFvrk~g~~l~anaA 110 (133)
|+.+-| ++++.||+|.|.|+++++-..+++-+.
T Consensus 107 G~G~~i--~~~~~C~~C~G~G~v~~~~~~~~k~~g 139 (186)
T TIGR02642 107 GTGLIQ--RRQRECDTCAGTGRFRPTVEDLLKSFG 139 (186)
T ss_pred CeeEEe--cCCCCCCCCCCccEEeeeEEEEEEeee
Confidence 565533 445899999999999999887777633
No 67
>KOG2813 consensus Predicted molecular chaperone, contains DnaJ domain [Posttranslational modification, protein turnover, chaperones]
Probab=85.44 E-value=0.42 Score=42.59 Aligned_cols=37 Identities=27% Similarity=0.566 Sum_probs=29.1
Q ss_pred CCCCCCCCcc-----------eeeeccccchhhhhccccceEeecccCCCccc
Q 032793 87 DMCPECDGAG-----------FVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 87 d~CPECdGaG-----------Fvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
-.||.|.|+| |..+.| -+++||...-.|-+|||-|++
T Consensus 199 ~vc~gc~g~G~~~y~~~~~m~c~sc~G-----~~~~k~gt~~~C~~C~G~G~~ 246 (406)
T KOG2813|consen 199 MVCHGCSGSGSNSYGIGTPMHCMSCTG-----VPPPKIGTHDLCYMCHGRGIK 246 (406)
T ss_pred eeccCcCCCCccccccCcceecccccC-----CCCCCCCccchhhhccCCCcc
Confidence 4688888888 334445 478999999999999999986
No 68
>PRK14295 chaperone protein DnaJ; Provisional
Probab=84.82 E-value=0.52 Score=39.62 Aligned_cols=29 Identities=31% Similarity=0.896 Sum_probs=20.8
Q ss_pred cCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 85 RKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 85 Rkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
..-.||.|.|.|++.+ -.|..|+|.|...
T Consensus 204 ~~~~C~~C~G~G~~~~----------------~~C~~C~G~g~~~ 232 (389)
T PRK14295 204 LSEPCPDCKGRGLIAD----------------DPCLVCKGSGRAK 232 (389)
T ss_pred EEEecCCCcceeEEec----------------cCCCCCCCCceEe
Confidence 3447888888887642 2399999988653
No 69
>TIGR00630 uvra excinuclease ABC, A subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=84.68 E-value=0.52 Score=44.54 Aligned_cols=47 Identities=30% Similarity=0.569 Sum_probs=31.7
Q ss_pred eeeeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccccccC
Q 032793 80 PILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQID 132 (133)
Q Consensus 80 pIlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q~d 132 (133)
..+||.+-.||+|.- .|- .+..+.=--...+-.|+.|.|+|+.-++|
T Consensus 244 ~~~~s~~~~c~~~g~-~~~-----~~~~~~FSfNsp~G~Cp~C~G~G~~~~~d 290 (924)
T TIGR00630 244 EELFSKHAACPECGF-SLP-----ELEPRLFSFNSPYGACPECSGLGIKQEFD 290 (924)
T ss_pred cccchhcccCcccCc-ccC-----cCChhhcCCCCCcCCCCCCccceeeeecC
Confidence 356999999999972 222 23333333344567899999999987776
No 70
>PTZ00037 DnaJ_C chaperone protein; Provisional
Probab=83.40 E-value=0.74 Score=39.62 Aligned_cols=34 Identities=24% Similarity=0.656 Sum_probs=20.9
Q ss_pred eeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccc
Q 032793 82 LFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 82 lfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
++.-.-.||+|.|.|++.+. .-.|..|+|-|-+.
T Consensus 188 ~~q~~~~C~~C~G~G~~i~~--------------~~~C~~C~G~g~v~ 221 (421)
T PTZ00037 188 IHQTQSTCNSCNGQGKIIPE--------------SKKCKNCSGKGVKK 221 (421)
T ss_pred eeEEEEeCCCCCCcceeccc--------------cccCCcCCCcceee
Confidence 33445567777777765531 12399999887653
No 71
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=83.02 E-value=0.52 Score=44.47 Aligned_cols=41 Identities=34% Similarity=0.771 Sum_probs=19.5
Q ss_pred CCCCCCCCcceeeeccccchhhhhccc-----cceEeecccCCCcc
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKD-----EVQIVCARCNGLGK 127 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd-----~~qivc~~cnglgk 127 (133)
-.||-|+|-||+-.-.-.--+|-+|++ .-.|+|+-|.|-|+
T Consensus 19 e~c~vc~gtG~~~~~d~k~~~~~~~~~~D~~~~~~~pc~~c~gkG~ 64 (715)
T COG1107 19 EECPVCHGTGFSDDFDPKGVANLSRETVDLFASFEIPCPKCRGKGT 64 (715)
T ss_pred eecccccccccccccChhhhhhhhhccccccccCCCCCCeecccee
Confidence 357777777776211111224445542 22345555555444
No 72
>PF14353 CpXC: CpXC protein
Probab=82.94 E-value=1.4 Score=31.03 Aligned_cols=43 Identities=16% Similarity=0.289 Sum_probs=28.0
Q ss_pred CCCCCCCCcceeeeccc-------cchhhhhccccceEeecccCCCcccc
Q 032793 87 DMCPECDGAGFVRKSGA-------TLRANAARKDEVQIVCARCNGLGKLN 129 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~-------~l~anaArkd~~qivc~~cnglgkl~ 129 (133)
-+||.|...+-+.--.+ .|+..--..+-...+||+|...+.++
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLE 51 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecC
Confidence 37999998876653321 23333334455689999998877764
No 73
>PRK00635 excinuclease ABC subunit A; Provisional
Probab=81.50 E-value=1.1 Score=45.69 Aligned_cols=46 Identities=22% Similarity=0.431 Sum_probs=31.8
Q ss_pred eeeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccccccC
Q 032793 81 ILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQID 132 (133)
Q Consensus 81 IlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q~d 132 (133)
.+||..-.||+|+ -+|-.-+-....-| ..+-.|+.|.|+|+.-++|
T Consensus 239 ~~~s~~~~cp~~~-~~~~~~~p~~FSfN-----sp~GaCp~C~GlG~~~~~d 284 (1809)
T PRK00635 239 RTFSTQATIPETQ-QTYTPLTPQLFSPH-----SLEDRCPQCQGSGIFISID 284 (1809)
T ss_pred eeeeccccCCccC-cccCcCChhhcCCC-----CccccCCCCCCcccccccC
Confidence 4699999999995 34432222222223 3467899999999988887
No 74
>PLN03165 chaperone protein dnaJ-related; Provisional
Probab=78.98 E-value=1.2 Score=32.99 Aligned_cols=27 Identities=37% Similarity=0.816 Sum_probs=21.6
Q ss_pred eecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccc
Q 032793 83 FSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKL 128 (133)
Q Consensus 83 fsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl 128 (133)
+...-.||.|+|.|.+ .|..|.|-|..
T Consensus 72 ~q~~~~C~~C~G~Gk~-------------------~C~~C~G~G~~ 98 (111)
T PLN03165 72 EKEVSKCINCDGAGSL-------------------TCTTCQGSGIQ 98 (111)
T ss_pred EEEEEECCCCCCccee-------------------eCCCCCCCEEE
Confidence 5667899999999932 39999998753
No 75
>PRK00349 uvrA excinuclease ABC subunit A; Reviewed
Probab=78.67 E-value=1.1 Score=42.42 Aligned_cols=46 Identities=30% Similarity=0.555 Sum_probs=31.0
Q ss_pred eeeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccccccC
Q 032793 81 ILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQID 132 (133)
Q Consensus 81 IlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q~d 132 (133)
.+||..-.||+|. .+|-. +..+.=--...+-.|+.|.|+|..-++|
T Consensus 247 ~~~s~~~~c~~~g-~~~~~-----~~p~~FSfN~p~G~Cp~C~G~G~~~~~d 292 (943)
T PRK00349 247 LLFSEKFACPVCG-FSIPE-----LEPRLFSFNSPYGACPTCDGLGVKLEFD 292 (943)
T ss_pred ccccccccCcccC-CCcCc-----CChhhcCCCCccCCCCcCCCceeEeecC
Confidence 4588999999986 44432 2222223334567899999999887766
No 76
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=78.36 E-value=1.3 Score=41.91 Aligned_cols=37 Identities=32% Similarity=0.638 Sum_probs=27.2
Q ss_pred eeeeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccccc
Q 032793 80 PILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQI 131 (133)
Q Consensus 80 pIlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q~ 131 (133)
-.+.|+---||+|+|-|-|.- --.|+.|+|.||...-
T Consensus 47 D~~~~~~~pc~~c~gkG~V~v---------------~~~c~~c~G~gkv~~c 83 (715)
T COG1107 47 DLFASFEIPCPKCRGKGTVTV---------------YDTCPECGGTGKVLTC 83 (715)
T ss_pred cccccCCCCCCeeccceeEEE---------------EeecccCCCceeEEee
Confidence 345555668999999997743 3479999999987643
No 77
>PRK00635 excinuclease ABC subunit A; Provisional
Probab=78.22 E-value=1.3 Score=45.06 Aligned_cols=35 Identities=23% Similarity=0.544 Sum_probs=27.3
Q ss_pred cCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCc
Q 032793 85 RKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLG 126 (133)
Q Consensus 85 Rkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglg 126 (133)
.++-||.|.|.|++.-. -+--+...+.|+.|+|..
T Consensus 1606 ~~GrC~~C~G~G~i~i~-------m~fl~dv~~~C~~C~G~R 1640 (1809)
T PRK00635 1606 KQGQCSDCWGLGYQWID-------RAFYALEKRPCPTCSGFR 1640 (1809)
T ss_pred CCCCCCCCccCceEEEe-------cccCCCcccCCCCCCCcC
Confidence 46889999999998633 234567889999999863
No 78
>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=76.98 E-value=3.9 Score=24.57 Aligned_cols=24 Identities=29% Similarity=0.858 Sum_probs=17.8
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeeccc
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARC 122 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~c 122 (133)
.||+|...-++.. ..+.++||++|
T Consensus 2 ~Cp~Cg~~~~~~D-----------~~~g~~vC~~C 25 (43)
T PF08271_consen 2 KCPNCGSKEIVFD-----------PERGELVCPNC 25 (43)
T ss_dssp SBTTTSSSEEEEE-----------TTTTEEEETTT
T ss_pred CCcCCcCCceEEc-----------CCCCeEECCCC
Confidence 5999988765433 24567899999
No 79
>COG0178 UvrA Excinuclease ATPase subunit [DNA replication, recombination, and repair]
Probab=72.88 E-value=2.4 Score=41.23 Aligned_cols=47 Identities=28% Similarity=0.511 Sum_probs=28.2
Q ss_pred eeeeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCccccccC
Q 032793 80 PILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQID 132 (133)
Q Consensus 80 pIlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q~d 132 (133)
-++||.+..||+|. |.-... .-.---=...---|+.|.|||..-.+|
T Consensus 239 ~~~FS~~~acp~~g---~~~~el---eprlFSFNsP~GaCp~C~GlG~~~~~D 285 (935)
T COG0178 239 ELLFSENFACPVCG---FSIPEL---EPRLFSFNSPFGACPTCDGLGVKLEVD 285 (935)
T ss_pred eeeeecccCCCccC---cccCCC---CcccccCCCCCCCCCcCCCcceeeeeC
Confidence 57899999999884 332221 111111112334699999999876665
No 80
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=72.77 E-value=2.4 Score=36.26 Aligned_cols=28 Identities=25% Similarity=0.621 Sum_probs=16.4
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccCCC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGL 125 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cngl 125 (133)
.|||||-- ++. ...+..-+..|+||+..
T Consensus 15 ~C~~Cd~l--~~~--------~~l~~g~~a~CpRCg~~ 42 (403)
T TIGR00155 15 LCSQCDML--VAL--------PRIESGQKAACPRCGTT 42 (403)
T ss_pred eCCCCCCc--ccc--------cCCCCCCeeECCCCCCC
Confidence 39999853 111 12223335679999864
No 81
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=69.09 E-value=3.2 Score=24.79 Aligned_cols=23 Identities=30% Similarity=0.746 Sum_probs=12.9
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCN 123 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cn 123 (133)
-||.|..+-=. .|+.+.||+.|.
T Consensus 4 ~Cp~C~se~~y-------------~D~~~~vCp~C~ 26 (30)
T PF08274_consen 4 KCPLCGSEYTY-------------EDGELLVCPECG 26 (30)
T ss_dssp --TTT-----E-------------E-SSSEEETTTT
T ss_pred CCCCCCCccee-------------ccCCEEeCCccc
Confidence 58999765322 799999999995
No 82
>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=69.03 E-value=4.3 Score=23.36 Aligned_cols=30 Identities=23% Similarity=0.554 Sum_probs=18.2
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
.||+|...-.|... ....+...+.|++|..
T Consensus 4 ~CP~C~~~~~v~~~-------~~~~~~~~v~C~~C~~ 33 (38)
T TIGR02098 4 QCPNCKTSFRVVDS-------QLGANGGKVRCGKCGH 33 (38)
T ss_pred ECCCCCCEEEeCHH-------HcCCCCCEEECCCCCC
Confidence 69999876443321 1122334789999975
No 83
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=67.86 E-value=5.2 Score=23.96 Aligned_cols=25 Identities=36% Similarity=0.873 Sum_probs=19.4
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCN 123 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cn 123 (133)
-.|+.|.+.|-+- +++...+|..|.
T Consensus 4 ~~C~~C~~~~i~~------------~~~~~~~C~~Cg 28 (33)
T PF08792_consen 4 KKCSKCGGNGIVN------------KEDDYEVCIFCG 28 (33)
T ss_pred eEcCCCCCCeEEE------------ecCCeEEcccCC
Confidence 3689999988663 466788999995
No 84
>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=65.76 E-value=2.7 Score=23.98 Aligned_cols=11 Identities=27% Similarity=0.884 Sum_probs=8.6
Q ss_pred cceEeecccCC
Q 032793 114 EVQIVCARCNG 124 (133)
Q Consensus 114 ~~qivc~~cng 124 (133)
...++|+.|.+
T Consensus 24 ~~~~~CP~Cg~ 34 (41)
T smart00834 24 DPLATCPECGG 34 (41)
T ss_pred CCCCCCCCCCC
Confidence 56778888876
No 85
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=64.12 E-value=6.4 Score=32.04 Aligned_cols=28 Identities=36% Similarity=0.783 Sum_probs=19.8
Q ss_pred CCCCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 86 KDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
...||+|.+.-+|.. ..+-++||.+|--
T Consensus 11 ~~~Cp~Cg~~~iv~d-----------~~~Ge~vC~~CG~ 38 (310)
T PRK00423 11 KLVCPECGSDKLIYD-----------YERGEIVCADCGL 38 (310)
T ss_pred CCcCcCCCCCCeeEE-----------CCCCeEeecccCC
Confidence 357999987555443 2367899999953
No 86
>PRK00420 hypothetical protein; Validated
Probab=63.95 E-value=5.4 Score=29.67 Aligned_cols=25 Identities=28% Similarity=0.518 Sum_probs=17.6
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
+.||.|...=|=.+. -+++||+|.-
T Consensus 24 ~~CP~Cg~pLf~lk~-------------g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFELKD-------------GEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceecCC-------------CceECCCCCC
Confidence 899999755442243 3789999965
No 87
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar
Probab=63.69 E-value=6.4 Score=24.37 Aligned_cols=33 Identities=21% Similarity=0.341 Sum_probs=19.6
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
-||-| |..-+........... +...|.|.+|..
T Consensus 5 PCPFC-G~~~~~~~~~~~~~~~---~~~~V~C~~Cga 37 (61)
T PF14354_consen 5 PCPFC-GSADVLIRQDEGFDYG---MYYYVECTDCGA 37 (61)
T ss_pred CCCCC-CCcceEeecccCCCCC---CEEEEEcCCCCC
Confidence 49999 7666655442211110 007899999976
No 88
>PRK02935 hypothetical protein; Provisional
Probab=63.50 E-value=3.4 Score=31.46 Aligned_cols=7 Identities=43% Similarity=1.659 Sum_probs=4.4
Q ss_pred CCCCCCC
Q 032793 88 MCPECDG 94 (133)
Q Consensus 88 ~CPECdG 94 (133)
.||+|+-
T Consensus 72 ~CP~C~K 78 (110)
T PRK02935 72 ICPSCEK 78 (110)
T ss_pred ECCCCCc
Confidence 5777764
No 89
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=63.39 E-value=4.4 Score=35.60 Aligned_cols=14 Identities=21% Similarity=0.648 Sum_probs=11.4
Q ss_pred eecccCCCcccccc
Q 032793 118 VCARCNGLGKLNQI 131 (133)
Q Consensus 118 vc~~cnglgkl~q~ 131 (133)
-|+.|+|.|-.|.+
T Consensus 490 gC~~C~~~Gy~GR~ 503 (564)
T TIGR02538 490 GCDECSNTGYKGRV 503 (564)
T ss_pred CCcccCCCCCCCce
Confidence 69999999976653
No 90
>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=60.37 E-value=4.8 Score=30.69 Aligned_cols=18 Identities=33% Similarity=0.807 Sum_probs=15.1
Q ss_pred ecCCCCCCCCCcceeeec
Q 032793 84 SRKDMCPECDGAGFVRKS 101 (133)
Q Consensus 84 sRkd~CPECdGaGFvrk~ 101 (133)
++-..||+|++..|.|..
T Consensus 128 ~~l~~Cp~C~~~~F~R~~ 145 (146)
T PF07295_consen 128 ERLPPCPKCGHTEFTRQP 145 (146)
T ss_pred CcCCCCCCCCCCeeeeCC
Confidence 345789999999999975
No 91
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=59.72 E-value=7.7 Score=30.32 Aligned_cols=14 Identities=36% Similarity=0.923 Sum_probs=10.6
Q ss_pred eeecCCCCCCCCCc
Q 032793 82 LFSRKDMCPECDGA 95 (133)
Q Consensus 82 lfsRkd~CPECdGa 95 (133)
||..+-.||-|+..
T Consensus 1 ly~k~~~CPvC~~~ 14 (214)
T PF09986_consen 1 LYDKKITCPVCGKE 14 (214)
T ss_pred CCCCceECCCCCCe
Confidence 46677889999864
No 92
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=59.68 E-value=6.2 Score=34.08 Aligned_cols=10 Identities=30% Similarity=0.893 Sum_probs=7.8
Q ss_pred eEeecccCCC
Q 032793 116 QIVCARCNGL 125 (133)
Q Consensus 116 qivc~~cngl 125 (133)
+-.|+||...
T Consensus 30 ~a~CpRCg~~ 39 (419)
T PRK15103 30 KAACPRCGTT 39 (419)
T ss_pred eeECCCCCCC
Confidence 5679999864
No 93
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=58.06 E-value=5.9 Score=26.58 Aligned_cols=23 Identities=35% Similarity=0.634 Sum_probs=15.3
Q ss_pred chhhhhccccceEeecccCCCcc
Q 032793 105 LRANAARKDEVQIVCARCNGLGK 127 (133)
Q Consensus 105 l~anaArkd~~qivc~~cnglgk 127 (133)
|-|-+-.-++.+|-|++|-.+-+
T Consensus 13 lLa~~g~~~~leIKCpRC~tiN~ 35 (51)
T PF10122_consen 13 LLAKAGEVIELEIKCPRCKTINH 35 (51)
T ss_pred HHhhhcCccEEEEECCCCCccce
Confidence 33444445688999999965543
No 94
>COG4393 Predicted membrane protein [Function unknown]
Probab=57.92 E-value=5.3 Score=35.85 Aligned_cols=25 Identities=36% Similarity=0.990 Sum_probs=22.4
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
|-|--|.-+|||.+.+ |++|.+|+-
T Consensus 335 DAC~iCGd~GYv~e~d-------------qvICv~C~V 359 (405)
T COG4393 335 DACDICGDQGYVMEGD-------------QVICVRCDV 359 (405)
T ss_pred hHHHhccccceEeECC-------------EEEEEEccE
Confidence 8899999999998765 899999983
No 95
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=56.85 E-value=9.4 Score=22.70 Aligned_cols=30 Identities=17% Similarity=0.551 Sum_probs=19.6
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
.||+|...- .+...+-+.......|++|.-
T Consensus 4 ~CP~C~~~f-------~v~~~~l~~~~~~vrC~~C~~ 33 (37)
T PF13719_consen 4 TCPNCQTRF-------RVPDDKLPAGGRKVRCPKCGH 33 (37)
T ss_pred ECCCCCceE-------EcCHHHcccCCcEEECCCCCc
Confidence 699997543 333444455666788999963
No 96
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=56.71 E-value=5.6 Score=34.06 Aligned_cols=22 Identities=27% Similarity=0.644 Sum_probs=14.8
Q ss_pred CCCCCCcceeeeccccchhhhhccccceEeecccCCC
Q 032793 89 CPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGL 125 (133)
Q Consensus 89 CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cngl 125 (133)
|||||-.- ....+..|+||+..
T Consensus 218 C~~Cd~~~---------------~~~~~a~CpRC~~~ 239 (403)
T TIGR00155 218 CSACHTTI---------------LPAQEPVCPRCSTP 239 (403)
T ss_pred CCCCCCcc---------------CCCCCcCCcCCCCc
Confidence 99999721 12335679999863
No 97
>PF12301 CD99L2: CD99 antigen like protein 2; InterPro: IPR022078 This family of proteins is found in eukaryotes. Proteins in this family are typically between 165 and 237 amino acids in length. CD99L2 and CD99 are involved in trans-endothelial migration of neutrophils in vitro and in the recruitment of neutrophils into inflamed peritoneum.
Probab=55.53 E-value=2.7 Score=33.03 Aligned_cols=31 Identities=32% Similarity=0.497 Sum_probs=23.6
Q ss_pred CCceeeehhHHHHHHhcccceee-eecCCCCC
Q 032793 60 DGTTYLIAGAAAVALLGTGFPIL-FSRKDMCP 90 (133)
Q Consensus 60 ~gt~yliagAiAvalvGTAfpIl-fsRkd~CP 90 (133)
-|++-=|++||+|||||.+-..| +-+|-+|-
T Consensus 114 ~g~IaGIvsav~valvGAvsSyiaYqkKKlCF 145 (169)
T PF12301_consen 114 AGTIAGIVSAVVVALVGAVSSYIAYQKKKLCF 145 (169)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHhhccce
Confidence 35555688999999999887654 45778885
No 98
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=55.33 E-value=6.9 Score=34.12 Aligned_cols=28 Identities=36% Similarity=0.924 Sum_probs=0.0
Q ss_pred CCCCCC-------------------CcceeeeccccchhhhhccccceEeecccCCCcccccc
Q 032793 88 MCPECD-------------------GAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQI 131 (133)
Q Consensus 88 ~CPECd-------------------GaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q~ 131 (133)
+||.|. ..-|.|..| |+.|++.|-.|++
T Consensus 381 lCp~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~G----------------C~~C~~tGy~GR~ 427 (486)
T TIGR02533 381 LCPHCKEPYEATPEEIALFGISPEGPINLYRPVG----------------CPHCNHTGYLGRT 427 (486)
T ss_pred cCccccCCCCCCHHHHHhccCCccccceeecCcC----------------chhccCCCCCCeE
No 99
>PRK11032 hypothetical protein; Provisional
Probab=55.23 E-value=8 Score=30.22 Aligned_cols=19 Identities=26% Similarity=0.623 Sum_probs=16.3
Q ss_pred ecCCCCCCCCCcceeeecc
Q 032793 84 SRKDMCPECDGAGFVRKSG 102 (133)
Q Consensus 84 sRkd~CPECdGaGFvrk~g 102 (133)
++-..||+|++-.|.|+..
T Consensus 140 ~~i~pCp~C~~~~F~R~~~ 158 (160)
T PRK11032 140 EVLPLCPKCGHDQFQRRPF 158 (160)
T ss_pred CcCCCCCCCCCCeeeeCCC
Confidence 4558999999999999865
No 100
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=55.18 E-value=4.3 Score=25.20 Aligned_cols=37 Identities=27% Similarity=0.590 Sum_probs=23.2
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
-.||-|.- +|-......=-...=+.+....+||-|..
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchh
Confidence 47999988 77654433222233344555789999975
No 101
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=55.15 E-value=9.9 Score=26.64 Aligned_cols=10 Identities=40% Similarity=1.178 Sum_probs=3.9
Q ss_pred eEeecccCCC
Q 032793 116 QIVCARCNGL 125 (133)
Q Consensus 116 qivc~~cngl 125 (133)
...|.+||||
T Consensus 50 dYFC~~c~gL 59 (70)
T PF07191_consen 50 DYFCNHCHGL 59 (70)
T ss_dssp EEE-TTTT-E
T ss_pred ceeeccCCce
Confidence 3445555554
No 102
>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=54.12 E-value=14 Score=27.82 Aligned_cols=39 Identities=33% Similarity=0.669 Sum_probs=23.3
Q ss_pred CCCCCCCCcceeee---cccc--chhhhhccccceEeecccCCCc
Q 032793 87 DMCPECDGAGFVRK---SGAT--LRANAARKDEVQIVCARCNGLG 126 (133)
Q Consensus 87 d~CPECdGaGFvrk---~g~~--l~anaArkd~~qivc~~cnglg 126 (133)
..|..|.|.+||-= .|+. ..+++. ....-..|+.||--|
T Consensus 100 ~~C~~Cgg~rfv~C~~C~Gs~k~~~~~~~-~~~~~~rC~~Cneng 143 (147)
T cd03031 100 GVCEGCGGARFVPCSECNGSCKVFAENAT-AAGGFLRCPECNENG 143 (147)
T ss_pred CCCCCCCCcCeEECCCCCCcceEEeccCc-ccccEEECCCCCccc
Confidence 45999999999852 2331 111111 234567899998665
No 103
>CHL00114 psbX photosystem II protein X; Reviewed
Probab=53.82 E-value=9.4 Score=24.54 Aligned_cols=24 Identities=33% Similarity=0.290 Sum_probs=18.0
Q ss_pred eehhHHHHHHhcccceeeeecCCC
Q 032793 65 LIAGAAAVALLGTGFPILFSRKDM 88 (133)
Q Consensus 65 liagAiAvalvGTAfpIlfsRkd~ 88 (133)
|++||+-+.+--+.+=||+|.+|.
T Consensus 12 L~~Ga~ivvipi~~aLifvSq~D~ 35 (39)
T CHL00114 12 LLLGAIIVVIPITLALLFVSQKDR 35 (39)
T ss_pred HHHHHHHhHHHhhhheEEEeccce
Confidence 567777766665677799999984
No 104
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=53.28 E-value=12 Score=22.33 Aligned_cols=10 Identities=30% Similarity=0.820 Sum_probs=8.2
Q ss_pred eEeecccCCC
Q 032793 116 QIVCARCNGL 125 (133)
Q Consensus 116 qivc~~cngl 125 (133)
..+|+.|.-.
T Consensus 20 ~~vC~~Cg~~ 29 (52)
T smart00661 20 RFVCRKCGYE 29 (52)
T ss_pred EEECCcCCCe
Confidence 7899999754
No 105
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=52.71 E-value=9.6 Score=27.48 Aligned_cols=15 Identities=27% Similarity=0.344 Sum_probs=11.2
Q ss_pred cCcceEEeeeccccc
Q 032793 45 KRSLTVVAAAGDVSA 59 (133)
Q Consensus 45 ~rs~~VV~Avgdvs~ 59 (133)
+|-.+|+--||+.|.
T Consensus 24 ~~V~~V~l~IG~ls~ 38 (117)
T PRK00564 24 HKIEKVVVGIGERSG 38 (117)
T ss_pred CeEEEEEEEEccccC
Confidence 455778888999884
No 106
>KOG3803 consensus Transcription factor containing C2HC type Zn finger [Transcription]
Probab=51.67 E-value=10 Score=36.87 Aligned_cols=45 Identities=31% Similarity=0.848 Sum_probs=33.4
Q ss_pred cCCCCC--CCCCccee----------------eeccccchhhhhccccceEeec--ccCCCcccc
Q 032793 85 RKDMCP--ECDGAGFV----------------RKSGATLRANAARKDEVQIVCA--RCNGLGKLN 129 (133)
Q Consensus 85 Rkd~CP--ECdGaGFv----------------rk~g~~l~anaArkd~~qivc~--~cnglgkl~ 129 (133)
.+--|| .|||.|.+ +|+|.+.---.+-|....+.|+ .|.|.|.++
T Consensus 688 qeLkCPTPGCDGSGHiTGnYasHRSLSGCPRa~k~gvkv~qtke~keD~elrCpv~GC~GqGHIs 752 (968)
T KOG3803|consen 688 QELKCPTPGCDGSGHITGNYASHRSLSGCPRAKKSGVKVAQTKEDKEDPELRCPVPGCDGQGHIS 752 (968)
T ss_pred ccccCCCCCCCCCCcccccccccccccCCCCCCCCCceeccchhhccCceeecCCCCcCCccccc
Confidence 356775 79999986 4667776666666666669995 799998764
No 107
>KOG0712 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=51.17 E-value=9 Score=33.19 Aligned_cols=27 Identities=41% Similarity=0.660 Sum_probs=20.1
Q ss_pred hcccceeeeecCCCCCCCCCcceeeeccc
Q 032793 75 LGTGFPILFSRKDMCPECDGAGFVRKSGA 103 (133)
Q Consensus 75 vGTAfpIlfsRkd~CPECdGaGFvrk~g~ 103 (133)
-|+..+ ++-+|.||.|.|+++++....
T Consensus 177 ~G~G~~--~~~kd~C~~C~G~~~v~~kki 203 (337)
T KOG0712|consen 177 NGSGET--ISLKDRCKTCSGAKVVREKKI 203 (337)
T ss_pred CCcccc--ccccccCcccccchhhhhhhe
Confidence 344444 678899999999999887653
No 108
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=51.07 E-value=9.7 Score=27.34 Aligned_cols=14 Identities=36% Similarity=0.276 Sum_probs=10.3
Q ss_pred cCcceEEeeecccc
Q 032793 45 KRSLTVVAAAGDVS 58 (133)
Q Consensus 45 ~rs~~VV~Avgdvs 58 (133)
+|-.+|+--+|+.|
T Consensus 24 ~~V~~V~l~iG~ls 37 (114)
T PRK03681 24 KRVTGVWLKIGAFS 37 (114)
T ss_pred CeEEEEEEEEcCcc
Confidence 44466777899988
No 109
>COG0178 UvrA Excinuclease ATPase subunit [DNA replication, recombination, and repair]
Probab=50.85 E-value=8.8 Score=37.58 Aligned_cols=41 Identities=32% Similarity=0.574 Sum_probs=26.7
Q ss_pred eeeehhHHHHHHhccccee----eeecC---CCCCCCCCcceeeeccc
Q 032793 63 TYLIAGAAAVALLGTGFPI----LFSRK---DMCPECDGAGFVRKSGA 103 (133)
Q Consensus 63 ~yliagAiAvalvGTAfpI----lfsRk---d~CPECdGaGFvrk~g~ 103 (133)
.++.+-..|-..-|..+|= +||-+ +.||+|+|-|+...-..
T Consensus 239 ~~~FS~~~acp~~g~~~~eleprlFSFNsP~GaCp~C~GlG~~~~~D~ 286 (935)
T COG0178 239 ELLFSENFACPVCGFSIPELEPRLFSFNSPFGACPTCDGLGVKLEVDP 286 (935)
T ss_pred eeeeecccCCCccCcccCCCCcccccCCCCCCCCCcCCCcceeeeeCh
Confidence 4444444444444555543 47654 99999999999876544
No 110
>PRK06921 hypothetical protein; Provisional
Probab=50.53 E-value=8.5 Score=30.62 Aligned_cols=23 Identities=17% Similarity=0.355 Sum_probs=15.7
Q ss_pred cceeeeecCCCCCCCCCcceeeec
Q 032793 78 GFPILFSRKDMCPECDGAGFVRKS 101 (133)
Q Consensus 78 AfpIlfsRkd~CPECdGaGFvrk~ 101 (133)
.+|-. .-.-.||.|.+.||+-..
T Consensus 25 g~~~~-~~~~~Cp~C~dtG~i~~~ 47 (266)
T PRK06921 25 PEESD-AERYDCPKCKDRGIIIYR 47 (266)
T ss_pred CCCCc-CCCCCCCCCCCCEEEEee
Confidence 34433 334569999999999643
No 111
>PF07092 DUF1356: Protein of unknown function (DUF1356); InterPro: IPR009790 This family consists of several hypothetical mammalian proteins of around 250 residues in length. The function of this family is unknown.
Probab=50.40 E-value=7.3 Score=32.41 Aligned_cols=17 Identities=29% Similarity=0.837 Sum_probs=14.3
Q ss_pred CCCCCCCCCcceeeecc
Q 032793 86 KDMCPECDGAGFVRKSG 102 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g 102 (133)
..+||-|.|.|.+.+.-
T Consensus 38 ~vtCPTCqGtGrIP~eq 54 (238)
T PF07092_consen 38 SVTCPTCQGTGRIPREQ 54 (238)
T ss_pred CCcCCCCcCCccCCccc
Confidence 46999999999998754
No 112
>KOG2824 consensus Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=50.31 E-value=14 Score=31.75 Aligned_cols=40 Identities=28% Similarity=0.586 Sum_probs=28.6
Q ss_pred CCCCCCCCcceeee---ccccchhhhhccccceEeecccCCCc
Q 032793 87 DMCPECDGAGFVRK---SGATLRANAARKDEVQIVCARCNGLG 126 (133)
Q Consensus 87 d~CPECdGaGFvrk---~g~~l~anaArkd~~qivc~~cnglg 126 (133)
..|..|.|++|+-= .|+.-.......|..-..|..||--|
T Consensus 230 ~~C~~CGg~rFlpC~~C~GS~kv~~~~~~~~~~~rC~~CNENG 272 (281)
T KOG2824|consen 230 GVCESCGGARFLPCSNCHGSCKVHEEEEDDGGVLRCLECNENG 272 (281)
T ss_pred CcCCCcCCcceEecCCCCCceeeeeeccCCCcEEECcccCCCC
Confidence 68999999999853 35544333356677778898887555
No 113
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=48.88 E-value=14 Score=28.35 Aligned_cols=35 Identities=29% Similarity=0.462 Sum_probs=22.8
Q ss_pred CCCCCCCcc-eeeeccccchhhhhccccceEeecccCCC
Q 032793 88 MCPECDGAG-FVRKSGATLRANAARKDEVQIVCARCNGL 125 (133)
Q Consensus 88 ~CPECdGaG-Fvrk~g~~l~anaArkd~~qivc~~cngl 125 (133)
.||.|...- -|+.+-.--.-|.-|+- --|++|...
T Consensus 2 ~cp~c~~~~~~~~~s~~~~~~~~~~~~---~~c~~c~~~ 37 (154)
T PRK00464 2 RCPFCGHPDTRVIDSRPAEDGNAIRRR---RECLACGKR 37 (154)
T ss_pred cCCCCCCCCCEeEeccccCCCCceeee---eeccccCCc
Confidence 599999876 77776543334444433 459999763
No 114
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=48.49 E-value=13 Score=27.27 Aligned_cols=11 Identities=27% Similarity=0.682 Sum_probs=8.5
Q ss_pred ceEeecccCCC
Q 032793 115 VQIVCARCNGL 125 (133)
Q Consensus 115 ~qivc~~cngl 125 (133)
..+.||+|++.
T Consensus 122 ~~f~Cp~Cg~~ 132 (147)
T smart00531 122 GTFTCPRCGEE 132 (147)
T ss_pred CcEECCCCCCE
Confidence 34999999864
No 115
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=47.78 E-value=7.6 Score=29.61 Aligned_cols=7 Identities=43% Similarity=1.355 Sum_probs=4.5
Q ss_pred CCCCCCC
Q 032793 88 MCPECDG 94 (133)
Q Consensus 88 ~CPECdG 94 (133)
.||+|+-
T Consensus 71 ~CP~C~K 77 (114)
T PF11023_consen 71 ECPNCGK 77 (114)
T ss_pred ECCCCCC
Confidence 4777764
No 116
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=47.72 E-value=15 Score=23.07 Aligned_cols=24 Identities=29% Similarity=0.974 Sum_probs=15.2
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCN 123 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cn 123 (133)
+.||.|. .=.+| ..+-+++|+.|.
T Consensus 18 ~~Cp~C~-~PL~~------------~k~g~~~Cv~C~ 41 (41)
T PF06677_consen 18 EHCPDCG-TPLMR------------DKDGKIYCVSCG 41 (41)
T ss_pred CccCCCC-CeeEE------------ecCCCEECCCCC
Confidence 6899993 33333 223468999983
No 117
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=47.45 E-value=17 Score=25.01 Aligned_cols=24 Identities=29% Similarity=0.919 Sum_probs=15.9
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCN 123 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cn 123 (133)
-||.|+|.=.+-+... ..+|+.|+
T Consensus 10 aCP~~kg~L~~~~~~~------------~L~c~~~~ 33 (60)
T COG2835 10 ACPVCKGPLVYDEEKQ------------ELICPRCK 33 (60)
T ss_pred eccCcCCcceEeccCC------------EEEecccC
Confidence 4999999733322221 78899886
No 118
>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=46.70 E-value=15 Score=24.92 Aligned_cols=36 Identities=25% Similarity=0.714 Sum_probs=20.7
Q ss_pred CCCCCCCccee----eeccccchh--hhhccccceEeecccC
Q 032793 88 MCPECDGAGFV----RKSGATLRA--NAARKDEVQIVCARCN 123 (133)
Q Consensus 88 ~CPECdGaGFv----rk~g~~l~a--naArkd~~qivc~~cn 123 (133)
.||.|...-|- +-+|..+-. +-..+.=.-++|+||-
T Consensus 2 ~C~KCg~~~~e~~~v~~tgg~~skiFdvq~~~f~~v~C~~CG 43 (64)
T PF09855_consen 2 KCPKCGNEEYESGEVRATGGGLSKIFDVQNKKFTTVSCTNCG 43 (64)
T ss_pred CCCCCCCcceecceEEccCCeeEEEEEecCcEEEEEECCCCC
Confidence 59999987663 334433321 1122334567899994
No 119
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=46.64 E-value=11 Score=30.97 Aligned_cols=30 Identities=33% Similarity=0.731 Sum_probs=20.1
Q ss_pred CCcceeeeccccchhhhhccccceEeecccCCCcccccc
Q 032793 93 DGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQI 131 (133)
Q Consensus 93 dGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q~ 131 (133)
+..||+-+ ..+. ++ .++|.||.-|=--|++
T Consensus 14 ~~~Gy~p~--~~~~-----~~--~~~C~RC~~l~hy~~~ 43 (360)
T TIGR03597 14 KKPGYTPK--SALE-----KE--EVYCQRCFRLKHYNEI 43 (360)
T ss_pred CCCCCCch--HHcC-----cC--CeeecchhhhhccCcc
Confidence 56788875 2232 22 7899999987666654
No 120
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=46.41 E-value=13 Score=26.71 Aligned_cols=20 Identities=30% Similarity=0.752 Sum_probs=12.3
Q ss_pred CCCCCCCCcceeeeccccch
Q 032793 87 DMCPECDGAGFVRKSGATLR 106 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~ 106 (133)
..||.|.+..+--.+|..|+
T Consensus 87 ~~CP~Cgs~~~~i~~G~El~ 106 (113)
T PRK12380 87 AQCPHCHGERLRVDTGDSLI 106 (113)
T ss_pred ccCcCCCCCCcEEccCCeEE
Confidence 34777777666666665443
No 121
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=46.05 E-value=16 Score=21.74 Aligned_cols=10 Identities=40% Similarity=1.019 Sum_probs=7.0
Q ss_pred eEeecccCCC
Q 032793 116 QIVCARCNGL 125 (133)
Q Consensus 116 qivc~~cngl 125 (133)
--+|++|.|+
T Consensus 19 id~C~~C~G~ 28 (41)
T PF13453_consen 19 IDVCPSCGGI 28 (41)
T ss_pred EEECCCCCeE
Confidence 3468888875
No 122
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=45.60 E-value=13 Score=29.45 Aligned_cols=14 Identities=29% Similarity=0.589 Sum_probs=11.0
Q ss_pred EeecccCCCccccc
Q 032793 117 IVCARCNGLGKLNQ 130 (133)
Q Consensus 117 ivc~~cnglgkl~q 130 (133)
--|..|+|.|--|+
T Consensus 251 ~gC~~C~~~G~~GR 264 (264)
T cd01129 251 KGCEHCFGTGYKGR 264 (264)
T ss_pred CCchhhCCCCCCCC
Confidence 47999999986653
No 123
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=45.05 E-value=15 Score=28.37 Aligned_cols=23 Identities=35% Similarity=0.982 Sum_probs=18.1
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCN 123 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cn 123 (133)
..||+|.-.=|= |.| .++||.|-
T Consensus 29 ~hCp~Cg~PLF~-KdG-------------~v~CPvC~ 51 (131)
T COG1645 29 KHCPKCGTPLFR-KDG-------------EVFCPVCG 51 (131)
T ss_pred hhCcccCCccee-eCC-------------eEECCCCC
Confidence 689999777664 776 47899996
No 124
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=44.83 E-value=16 Score=25.71 Aligned_cols=37 Identities=27% Similarity=0.609 Sum_probs=23.2
Q ss_pred eecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcccccc
Q 032793 83 FSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQI 131 (133)
Q Consensus 83 fsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q~ 131 (133)
..-.-.|++|... +.|+.-+ +-.+..|..|+ |+|-||
T Consensus 120 ~~~~~~C~~C~~~-~~r~~~~---------~~~~~~C~~C~--~~l~~~ 156 (157)
T PF10263_consen 120 KKYVYRCPSCGRE-YKRHRRS---------KRKRYRCGRCG--GPLVQV 156 (157)
T ss_pred cceEEEcCCCCCE-eeeeccc---------chhhEECCCCC--CEEEEc
Confidence 3445679999876 4444332 22338999999 666554
No 125
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=42.21 E-value=17 Score=22.36 Aligned_cols=16 Identities=31% Similarity=0.742 Sum_probs=13.5
Q ss_pred CCCCCCCcceeeeccc
Q 032793 88 MCPECDGAGFVRKSGA 103 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~ 103 (133)
.||+|....-+|++-.
T Consensus 1 ~CP~Cg~~a~ir~S~~ 16 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQ 16 (47)
T ss_pred CcCCCCCeeEEEEchh
Confidence 4999999999998653
No 126
>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family. Restriction alleviation proteins provide a countermeasure to host cell restriction enzyme defense against foreign DNA such as phage or plasmids. This family consists of homologs to the phage antirestriction protein Lar, and most members belong to phage genomes or prophage regions of bacterial genomes.
Probab=42.16 E-value=34 Score=21.33 Aligned_cols=34 Identities=29% Similarity=0.635 Sum_probs=21.7
Q ss_pred CCCCCCCcce-eeeccccchhhhhccccceE-eecccCCCccc
Q 032793 88 MCPECDGAGF-VRKSGATLRANAARKDEVQI-VCARCNGLGKL 128 (133)
Q Consensus 88 ~CPECdGaGF-vrk~g~~l~anaArkd~~qi-vc~~cnglgkl 128 (133)
-||-|.|... +|.... -+|..-+ .|..|..-|-.
T Consensus 3 PCPfCGg~~~~~~~~~~-------~~~~~~~~~C~~Cga~~~~ 38 (53)
T TIGR03655 3 PCPFCGGADVYLRRGFD-------PLDLSHYFECSTCGASGPV 38 (53)
T ss_pred CCCCCCCcceeeEeccC-------CCCCEEEEECCCCCCCccc
Confidence 4999999888 553221 2333333 69999877654
No 127
>PRK06835 DNA replication protein DnaC; Validated
Probab=41.60 E-value=12 Score=31.08 Aligned_cols=14 Identities=43% Similarity=1.137 Sum_probs=12.1
Q ss_pred cCCCCCCCCCccee
Q 032793 85 RKDMCPECDGAGFV 98 (133)
Q Consensus 85 Rkd~CPECdGaGFv 98 (133)
-+-.||.|.+.|||
T Consensus 97 ~~y~Cp~C~dtG~i 110 (329)
T PRK06835 97 MKYTCPKCKDTGFI 110 (329)
T ss_pred CCCCCCCCCCCCCc
Confidence 34589999999999
No 128
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=39.30 E-value=22 Score=31.54 Aligned_cols=37 Identities=19% Similarity=0.487 Sum_probs=25.9
Q ss_pred CCCCCCCCcceeeeccccchhhhh-ccccceEeecccCCC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAA-RKDEVQIVCARCNGL 125 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaA-rkd~~qivc~~cngl 125 (133)
--||.|...=..+-.+ ++-+.- ..+.+-.+|+.|...
T Consensus 201 vpCPhCg~~~~l~~~~--l~w~~~~~~~~a~y~C~~Cg~~ 238 (557)
T PF05876_consen 201 VPCPHCGEEQVLEWEN--LKWDKGEAPETARYVCPHCGCE 238 (557)
T ss_pred ccCCCCCCCccccccc--eeecCCCCccceEEECCCCcCC
Confidence 5699998876655343 333321 777899999999764
No 129
>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=39.19 E-value=26 Score=21.13 Aligned_cols=8 Identities=38% Similarity=1.244 Sum_probs=3.6
Q ss_pred EeecccCC
Q 032793 117 IVCARCNG 124 (133)
Q Consensus 117 ivc~~cng 124 (133)
+.||.|..
T Consensus 27 ~~CP~Cg~ 34 (52)
T TIGR02605 27 ATCPECGG 34 (52)
T ss_pred CCCCCCCC
Confidence 34555543
No 130
>PRK08665 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=38.18 E-value=19 Score=33.55 Aligned_cols=15 Identities=40% Similarity=1.010 Sum_probs=10.8
Q ss_pred CCCCCCCCcceeeecc
Q 032793 87 DMCPECDGAGFVRKSG 102 (133)
Q Consensus 87 d~CPECdGaGFvrk~g 102 (133)
+.|||| |.-.++..|
T Consensus 725 ~~Cp~C-g~~l~~~~G 739 (752)
T PRK08665 725 GACPEC-GSILEHEEG 739 (752)
T ss_pred CCCCCC-CcccEECCC
Confidence 569999 456666666
No 131
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=38.04 E-value=27 Score=20.77 Aligned_cols=30 Identities=17% Similarity=0.604 Sum_probs=19.2
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
.||.|...= .+..+.-+......-|++|.-
T Consensus 4 ~Cp~C~~~y-------~i~d~~ip~~g~~v~C~~C~~ 33 (36)
T PF13717_consen 4 TCPNCQAKY-------EIDDEKIPPKGRKVRCSKCGH 33 (36)
T ss_pred ECCCCCCEE-------eCCHHHCCCCCcEEECCCCCC
Confidence 588886432 344445555666788998863
No 132
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=37.76 E-value=24 Score=22.19 Aligned_cols=25 Identities=28% Similarity=0.802 Sum_probs=16.0
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCN 123 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cn 123 (133)
-+||.|.. +.+. +..+.-.+|++|.
T Consensus 29 q~C~~CG~---~~~~---------~~~~r~~~C~~Cg 53 (69)
T PF07282_consen 29 QTCPRCGH---RNKK---------RRSGRVFTCPNCG 53 (69)
T ss_pred cCccCccc---cccc---------ccccceEEcCCCC
Confidence 56888853 2222 4456678899985
No 133
>PRK11712 ribonuclease G; Provisional
Probab=37.25 E-value=16 Score=32.66 Aligned_cols=17 Identities=35% Similarity=0.870 Sum_probs=14.8
Q ss_pred CCCCCCCCcceeeeccc
Q 032793 87 DMCPECDGAGFVRKSGA 103 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~ 103 (133)
..||-|.|.|+|+..-.
T Consensus 403 ~~Cp~C~G~G~v~s~e~ 419 (489)
T PRK11712 403 GECPTCHGRGTVKTVET 419 (489)
T ss_pred CCCCCCCCCCCcCCHHH
Confidence 78999999999987654
No 134
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=36.95 E-value=24 Score=23.80 Aligned_cols=9 Identities=22% Similarity=0.645 Sum_probs=4.6
Q ss_pred ceEeecccC
Q 032793 115 VQIVCARCN 123 (133)
Q Consensus 115 ~qivc~~cn 123 (133)
...+|+.|.
T Consensus 30 ~~~~C~~CG 38 (127)
T TIGR03830 30 PGWYCPACG 38 (127)
T ss_pred eeeECCCCC
Confidence 344566653
No 135
>PF08802 CytB6-F_Fe-S: Cytochrome B6-F complex Fe-S subunit ; InterPro: IPR014909 The cytochrome b6-f complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions. The cytochrome b6-f complex has 4 large subunits, these are: cytochrome b6, subunit IV (17 kDa polypeptide, PetD), cytochrome f and the Rieske protein, while the 4 small subunits are: PetG, PetL, PetM and PetN. The complex functions as a dimer. This protein corresponds to the alpha helical transmembrane domain of the cytochrome b6-f complex Rieske iron-sulphur subunit. ; GO: 0009496 plastoquinol-plastocyanin reductase activity, 0051537 2 iron, 2 sulfur cluster binding, 0055114 oxidation-reduction process, 0042651 thylakoid membrane; PDB: 1Q90_R 1VF5_D 2E75_D 2E74_D 2E76_D 2D2C_Q 2ZT9_D.
Probab=36.72 E-value=7.2 Score=24.75 Aligned_cols=20 Identities=35% Similarity=0.547 Sum_probs=17.0
Q ss_pred eeeehhHHHHHHhcccceee
Q 032793 63 TYLIAGAAAVALLGTGFPIL 82 (133)
Q Consensus 63 ~yliagAiAvalvGTAfpIl 82 (133)
++|..|++|+...|++.|+.
T Consensus 13 N~ll~Gava~~a~~~lyP~~ 32 (39)
T PF08802_consen 13 NLLLGGAVAVPAGGMLYPYV 32 (39)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhhHHHHHHHHhhhhe
Confidence 56889999999999998863
No 136
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=36.59 E-value=21 Score=25.95 Aligned_cols=20 Identities=20% Similarity=0.307 Sum_probs=15.6
Q ss_pred CCCCCCCCcceeeeccccch
Q 032793 87 DMCPECDGAGFVRKSGATLR 106 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~ 106 (133)
..||+|.+...-..+|..|+
T Consensus 93 ~~CP~Cgs~~~~i~~G~El~ 112 (124)
T PRK00762 93 IECPVCGNKRAHILGGRECN 112 (124)
T ss_pred CcCcCCCCCCCEEecCCeEE
Confidence 46999998887777777665
No 137
>TIGR00757 RNaseEG ribonuclease, Rne/Rng family. The C-terminal half of RNase E (excluded from the seed alignment for this model) lacks ribonuclease activity but participates in mRNA degradation by organizing the degradosome.
Probab=36.42 E-value=14 Score=32.10 Aligned_cols=16 Identities=44% Similarity=1.155 Sum_probs=13.8
Q ss_pred CCCCCCCCcceeeecc
Q 032793 87 DMCPECDGAGFVRKSG 102 (133)
Q Consensus 87 d~CPECdGaGFvrk~g 102 (133)
+.||-|.|.|+|+..-
T Consensus 391 ~~Cp~C~G~G~v~s~~ 406 (414)
T TIGR00757 391 TVCPHCSGTGIVKTSE 406 (414)
T ss_pred CCCCCCcCeeEEccHH
Confidence 7899999999998643
No 138
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=36.40 E-value=31 Score=22.27 Aligned_cols=12 Identities=25% Similarity=0.750 Sum_probs=9.3
Q ss_pred cccceEeecccC
Q 032793 112 KDEVQIVCARCN 123 (133)
Q Consensus 112 kd~~qivc~~cn 123 (133)
..+-..+|++|+
T Consensus 49 i~eg~L~Cp~c~ 60 (68)
T PF03966_consen 49 IVEGELICPECG 60 (68)
T ss_dssp TTTTEEEETTTT
T ss_pred ccCCEEEcCCCC
Confidence 456778999996
No 139
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=35.69 E-value=29 Score=20.66 Aligned_cols=26 Identities=23% Similarity=0.675 Sum_probs=16.2
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
-||||..-=++++.... .+ +|.+|.-
T Consensus 3 FCp~C~nlL~p~~~~~~----------~~-~C~~C~Y 28 (35)
T PF02150_consen 3 FCPECGNLLYPKEDKEK----------RV-ACRTCGY 28 (35)
T ss_dssp BETTTTSBEEEEEETTT----------TE-EESSSS-
T ss_pred eCCCCCccceEcCCCcc----------Cc-CCCCCCC
Confidence 49999876666554422 12 8888864
No 140
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=35.63 E-value=24 Score=22.95 Aligned_cols=31 Identities=26% Similarity=0.595 Sum_probs=20.5
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCCC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGL 125 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cngl 125 (133)
-+|+.|..- .|..+ ....+..+.+|+.|+-+
T Consensus 23 LIC~~C~~h-----NGla~---~~~~~~i~y~C~~Cg~~ 53 (54)
T PF10058_consen 23 LICSKCFSH-----NGLAP---KEEFEEIQYRCPYCGAL 53 (54)
T ss_pred EECcccchh-----hcccc---cccCCceEEEcCCCCCc
Confidence 479999642 33332 34556789999999753
No 141
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=35.04 E-value=43 Score=20.28 Aligned_cols=32 Identities=28% Similarity=0.524 Sum_probs=18.1
Q ss_pred CCCCCCCcceeeeccccchhhhhccccc---eEeecccCC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEV---QIVCARCNG 124 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~---qivc~~cng 124 (133)
.||+|....-+--.- ..| ..|+. -.+|.+|+-
T Consensus 2 ~Cp~C~~~~a~~~q~-Q~R----saDE~mT~fy~C~~C~~ 36 (40)
T smart00440 2 PCPKCGNREATFFQL-QTR----SADEPMTVFYVCTKCGH 36 (40)
T ss_pred cCCCCCCCeEEEEEE-ccc----CCCCCCeEEEEeCCCCC
Confidence 599998765443321 122 13433 568999863
No 142
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=34.97 E-value=37 Score=29.63 Aligned_cols=37 Identities=24% Similarity=0.596 Sum_probs=18.5
Q ss_pred CCCCCCCcceeeeccccchhhhh-ccccceEeecccCC
Q 032793 88 MCPECDGAGFVRKSGATLRANAA-RKDEVQIVCARCNG 124 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaA-rkd~~qivc~~cng 124 (133)
.||.||+.==+.|....|+-.-= .+-..--.|++|.+
T Consensus 224 ~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s 261 (505)
T TIGR00595 224 CCPNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGS 261 (505)
T ss_pred CCCCCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCC
Confidence 49999876444444434432211 11122346777754
No 143
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=34.80 E-value=19 Score=24.91 Aligned_cols=12 Identities=42% Similarity=0.977 Sum_probs=9.3
Q ss_pred CCCCCCCCCcce
Q 032793 86 KDMCPECDGAGF 97 (133)
Q Consensus 86 kd~CPECdGaGF 97 (133)
||.||+|.|.=.
T Consensus 17 ke~Cp~CG~~t~ 28 (59)
T COG2260 17 KEKCPVCGGDTK 28 (59)
T ss_pred cccCCCCCCccc
Confidence 589999987543
No 144
>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=33.98 E-value=25 Score=25.21 Aligned_cols=20 Identities=30% Similarity=0.712 Sum_probs=14.7
Q ss_pred CCCCCCCCcceeeeccccch
Q 032793 87 DMCPECDGAGFVRKSGATLR 106 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~ 106 (133)
..||.|.+..+--.+|..|+
T Consensus 87 ~~CP~Cgs~~~~i~~G~El~ 106 (115)
T TIGR00100 87 YRCPKCHGIMLQVRAGKELN 106 (115)
T ss_pred ccCcCCcCCCcEEecCCeEE
Confidence 55999988887777776554
No 145
>PRK10220 hypothetical protein; Provisional
Probab=33.71 E-value=27 Score=26.61 Aligned_cols=13 Identities=23% Similarity=0.690 Sum_probs=7.5
Q ss_pred cccceEeecccCC
Q 032793 112 KDEVQIVCARCNG 124 (133)
Q Consensus 112 kd~~qivc~~cng 124 (133)
.|+.+.+||.|..
T Consensus 16 ~d~~~~vCpeC~h 28 (111)
T PRK10220 16 EDNGMYICPECAH 28 (111)
T ss_pred cCCCeEECCcccC
Confidence 3455666666643
No 146
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=33.36 E-value=23 Score=28.30 Aligned_cols=23 Identities=43% Similarity=0.787 Sum_probs=16.9
Q ss_pred HHHhcccceeeeecCCCCCCCCCc
Q 032793 72 VALLGTGFPILFSRKDMCPECDGA 95 (133)
Q Consensus 72 valvGTAfpIlfsRkd~CPECdGa 95 (133)
++.+|... -++-..+.||+|+|.
T Consensus 84 ~~~~~l~~-~~~~e~~RCp~CN~~ 106 (165)
T COG1656 84 LARLGLKP-RLFPEFSRCPECNGE 106 (165)
T ss_pred HHHhccch-hcccccccCcccCCE
Confidence 34566665 666678899999985
No 147
>PF08955 BofC_C: BofC C-terminal domain; InterPro: IPR015050 The C-terminal domain of the bacterial protein, bypass of forespore C (BofC), contains a three-stranded beta-sheet and three alpha-helices. The exact function is unknown []. ; PDB: 2BW2_A.
Probab=33.21 E-value=18 Score=25.54 Aligned_cols=14 Identities=29% Similarity=0.816 Sum_probs=7.6
Q ss_pred CCCCCCCCCcceee
Q 032793 86 KDMCPECDGAGFVR 99 (133)
Q Consensus 86 kd~CPECdGaGFvr 99 (133)
.|++|+|+.-||+-
T Consensus 1 ~DiSP~~K~ngYfG 14 (75)
T PF08955_consen 1 DDISPLCKENGYFG 14 (75)
T ss_dssp SS--TGGGT---EE
T ss_pred CCCChhHhcCeeEE
Confidence 48999999999985
No 148
>PRK13796 GTPase YqeH; Provisional
Probab=33.18 E-value=22 Score=29.44 Aligned_cols=34 Identities=24% Similarity=0.579 Sum_probs=21.3
Q ss_pred CCcceeeeccccchhhhhccccceEeecccCCCcccccc
Q 032793 93 DGAGFVRKSGATLRANAARKDEVQIVCARCNGLGKLNQI 131 (133)
Q Consensus 93 dGaGFvrk~g~~l~anaArkd~~qivc~~cnglgkl~q~ 131 (133)
+..||+-+ +.|+ ..+ +.-+++|.||.-|-.-|++
T Consensus 16 ~~~Gy~p~--~~~~--~~~-~~~~~~C~RC~~l~hy~~~ 49 (365)
T PRK13796 16 NKPGYAPA--SALK--KGL-ETEEVYCQRCFRLKHYNEI 49 (365)
T ss_pred CCCCCCCH--HHhh--ccc-ccCCeEchhhhhhhccCcc
Confidence 45688875 3332 111 2238999999988776665
No 149
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=32.89 E-value=16 Score=35.01 Aligned_cols=25 Identities=36% Similarity=0.438 Sum_probs=21.7
Q ss_pred eecccccCCceeeehhHHHHHHhcc
Q 032793 53 AAGDVSADGTTYLIAGAAAVALLGT 77 (133)
Q Consensus 53 Avgdvs~~gt~yliagAiAvalvGT 77 (133)
=+-||||+|+.|||-..+-++|+..
T Consensus 1116 ~L~~vsS~G~syLi~~~~~i~l~~~ 1140 (1201)
T PF12128_consen 1116 QLNNVSSHGTSYLILCMFFIALTRM 1140 (1201)
T ss_pred HHHhcCCchHHHHHHHHHHHHHHHH
Confidence 4679999999999999988888764
No 150
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=32.86 E-value=29 Score=22.18 Aligned_cols=24 Identities=25% Similarity=0.834 Sum_probs=16.5
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCN 123 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cn 123 (133)
-.||+|... |..... -...|.+|.
T Consensus 21 ~fCP~Cg~~-~m~~~~------------~r~~C~~Cg 44 (50)
T PRK00432 21 KFCPRCGSG-FMAEHL------------DRWHCGKCG 44 (50)
T ss_pred CcCcCCCcc-hheccC------------CcEECCCcC
Confidence 389999654 665543 367898885
No 151
>PRK07220 DNA topoisomerase I; Validated
Probab=32.74 E-value=49 Score=30.50 Aligned_cols=32 Identities=19% Similarity=0.435 Sum_probs=17.9
Q ss_pred CCCCCCCCCcceeeeccccchhhhhccccceEeecccCCC
Q 032793 86 KDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGL 125 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cngl 125 (133)
...||+|. .+.+.+... .+....+.|++|+-.
T Consensus 635 ~~~Cp~Cg-~~~~k~~~~-------g~~~~~~~Cp~C~~~ 666 (740)
T PRK07220 635 DKVCEAHG-LNHIRIING-------GKRPWDLGCPQCNFI 666 (740)
T ss_pred CCCCCCCC-CceEEEEec-------CCccceeeCCCCCCc
Confidence 35799995 344433210 011126799999854
No 152
>PF03589 Antiterm: Antitermination protein; InterPro: IPR003222 This entry consists of antitermination proteins found in bacteriophages, such as protein Q from phage lambda, and some bacterial homologues. Protein Q positively regulates expression of the phage late gene operon by binding to the bacterial host RNA polymerase (RNAP) and modifying it. The modified RNAP transcribes through termination sites that otherwise prevent expression of the regulated genes [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=32.38 E-value=27 Score=24.81 Aligned_cols=10 Identities=50% Similarity=1.278 Sum_probs=6.3
Q ss_pred CCCCCCCCcc
Q 032793 87 DMCPECDGAG 96 (133)
Q Consensus 87 d~CPECdGaG 96 (133)
|.|.-|.|.|
T Consensus 6 ~~c~~c~g~g 15 (95)
T PF03589_consen 6 DSCRRCAGDG 15 (95)
T ss_pred CCcCccCCcc
Confidence 5566666666
No 153
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=30.82 E-value=26 Score=25.56 Aligned_cols=27 Identities=48% Similarity=1.034 Sum_probs=17.0
Q ss_pred cCCCCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 85 RKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 85 Rkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
-|-+||+| |+=|. .|+ | --||||.|--
T Consensus 8 tKR~Cp~C-G~kFY-----DLn-----k--~PivCP~CG~ 34 (108)
T PF09538_consen 8 TKRTCPSC-GAKFY-----DLN-----K--DPIVCPKCGT 34 (108)
T ss_pred CcccCCCC-cchhc-----cCC-----C--CCccCCCCCC
Confidence 47789999 44454 343 2 2488888853
No 154
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=30.81 E-value=52 Score=24.35 Aligned_cols=47 Identities=30% Similarity=0.494 Sum_probs=30.3
Q ss_pred ehhHHHHHHhcccceeeeecCCCCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 66 IAGAAAVALLGTGFPILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 66 iagAiAvalvGTAfpIlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
++-|+++...+.+.+ +-.||-|.-.= +.|.|...+- ..-..|+.|+-
T Consensus 15 ~~~~~~~~~~~~~~~-----~~~cP~C~s~~-~~k~g~~~~~------~qRyrC~~C~~ 61 (129)
T COG3677 15 IALADAAYAIRMQIT-----KVNCPRCKSSN-VVKIGGIRRG------HQRYKCKSCGS 61 (129)
T ss_pred HHHHHHHHHHhhhcc-----cCcCCCCCccc-eeeECCcccc------ccccccCCcCc
Confidence 344555555555443 46899999887 6666654432 55688999974
No 155
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=30.52 E-value=32 Score=25.39 Aligned_cols=8 Identities=38% Similarity=1.090 Sum_probs=5.6
Q ss_pred CCCCCCCC
Q 032793 87 DMCPECDG 94 (133)
Q Consensus 87 d~CPECdG 94 (133)
.+||.|..
T Consensus 310 ~~C~~cg~ 317 (364)
T COG0675 310 KTCPCCGH 317 (364)
T ss_pred ccccccCC
Confidence 56777755
No 156
>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=30.38 E-value=32 Score=24.46 Aligned_cols=20 Identities=35% Similarity=0.609 Sum_probs=13.6
Q ss_pred CCCCCCCCcceeeeccccch
Q 032793 87 DMCPECDGAGFVRKSGATLR 106 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~ 106 (133)
..||.|.+..+-..+|..|+
T Consensus 87 ~~CP~Cgs~~~~i~~G~el~ 106 (113)
T PF01155_consen 87 FSCPRCGSPDVEIISGRELR 106 (113)
T ss_dssp HH-SSSSSS-EEEEESS-EE
T ss_pred CCCcCCcCCCcEEccCCeEE
Confidence 56999999988777776654
No 157
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=30.24 E-value=18 Score=30.58 Aligned_cols=41 Identities=27% Similarity=0.478 Sum_probs=30.4
Q ss_pred CCCCCCCCcceeeeccccchhhhhc-------cccce-EeecccCCCcc
Q 032793 87 DMCPECDGAGFVRKSGATLRANAAR-------KDEVQ-IVCARCNGLGK 127 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaAr-------kd~~q-ivc~~cnglgk 127 (133)
-.||.|.-.|-.-..+..|...-++ +.+.| |+|..||..+.
T Consensus 197 y~CP~C~~~~d~~~~~~~~d~~l~~~~~p~~y~~~~~~i~cndC~~~~~ 245 (276)
T KOG1940|consen 197 YTCPICSKPGDMSHYFRKLDKELAGSPMPEEYKNKTQDILCNDCGSGTN 245 (276)
T ss_pred CCCCcccchHHHHHHHHHHHHHHhcCCCCchhhchhheeeccCCCCCCc
Confidence 7899997766666666666666664 55555 99999998873
No 158
>PRK10436 hypothetical protein; Provisional
Probab=29.81 E-value=25 Score=30.80 Aligned_cols=14 Identities=21% Similarity=0.629 Sum_probs=10.1
Q ss_pred EeecccCCCcccccc
Q 032793 117 IVCARCNGLGKLNQI 131 (133)
Q Consensus 117 ivc~~cnglgkl~q~ 131 (133)
--|+.|++ |.-|++
T Consensus 386 ~GC~~C~~-Gy~GR~ 399 (462)
T PRK10436 386 VGCEHCYH-GYYGRT 399 (462)
T ss_pred CCchhhcC-CCCCeE
Confidence 36999997 766653
No 159
>PRK08115 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=29.53 E-value=29 Score=33.52 Aligned_cols=29 Identities=31% Similarity=0.716 Sum_probs=20.0
Q ss_pred CCCCCCCCCcceeeeccccchhhhhccccceEeecccCCCcc
Q 032793 86 KDMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGLGK 127 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cnglgk 127 (133)
.++||+|. .|-|.+.|.- -.|.||+.-=|
T Consensus 827 ~~~cp~c~-~~~~~~~~~c------------~~c~~c~~~~~ 855 (858)
T PRK08115 827 GNTCPVCR-EGTVEEIGGC------------NTCTNCGAQLK 855 (858)
T ss_pred CCCCCccC-CCceeecCCC------------ccccchhhhhc
Confidence 47999995 5777777742 36888875443
No 160
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=29.18 E-value=25 Score=27.11 Aligned_cols=12 Identities=25% Similarity=0.769 Sum_probs=9.6
Q ss_pred cceEeecccCCC
Q 032793 114 EVQIVCARCNGL 125 (133)
Q Consensus 114 ~~qivc~~cngl 125 (133)
+.+..|++|++.
T Consensus 134 ~~~F~Cp~Cg~~ 145 (178)
T PRK06266 134 EYGFRCPQCGEM 145 (178)
T ss_pred hcCCcCCCCCCC
Confidence 357999999974
No 161
>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=29.13 E-value=65 Score=19.40 Aligned_cols=28 Identities=25% Similarity=0.520 Sum_probs=15.4
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
.|++|+..--+..+.+ |...+.||.|.+
T Consensus 7 ~C~~Cg~~fe~~~~~~---------~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 7 RCEECGHEFEVLQSIS---------EDDPVPCPECGS 34 (42)
T ss_pred EeCCCCCEEEEEEEcC---------CCCCCcCCCCCC
Confidence 3677765544433321 245567888866
No 162
>KOG0715 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=29.07 E-value=40 Score=27.77 Aligned_cols=34 Identities=26% Similarity=0.361 Sum_probs=26.5
Q ss_pred eeeehhHHHHHHhcccceeeeecCCCCCCCCCcc
Q 032793 63 TYLIAGAAAVALLGTGFPILFSRKDMCPECDGAG 96 (133)
Q Consensus 63 ~yliagAiAvalvGTAfpIlfsRkd~CPECdGaG 96 (133)
.|-.....--|.-|.=.-+=|+..+.|.-|.|.|
T Consensus 141 ~~d~~~~f~~A~~g~~~~~~~~~~~~~~t~~~~~ 174 (288)
T KOG0715|consen 141 YYDLSLDFKEAVRGSKKRISFNVLSDCETCFGSG 174 (288)
T ss_pred ccccccCHHHHhhccccceEEEeecccccccCcC
Confidence 3445566667777877778888899999999998
No 163
>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=29.00 E-value=40 Score=22.18 Aligned_cols=28 Identities=21% Similarity=0.657 Sum_probs=16.1
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
-.||+|... + .+... .+ ...+.|+.|.-
T Consensus 3 ~~CP~CG~~-i------ev~~~-~~--GeiV~Cp~CGa 30 (54)
T TIGR01206 3 FECPDCGAE-I------ELENP-EL--GELVICDECGA 30 (54)
T ss_pred cCCCCCCCE-E------ecCCC-cc--CCEEeCCCCCC
Confidence 379999652 1 33222 22 34678999853
No 164
>PRK14873 primosome assembly protein PriA; Provisional
Probab=28.83 E-value=37 Score=31.22 Aligned_cols=38 Identities=24% Similarity=0.484 Sum_probs=21.7
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNG 124 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cng 124 (133)
-.||.||+.==+.|....|+-.-=-..+....|++|.+
T Consensus 393 ~~C~~C~~~L~~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs 430 (665)
T PRK14873 393 ARCRHCTGPLGLPSAGGTPRCRWCGRAAPDWRCPRCGS 430 (665)
T ss_pred eECCCCCCceeEecCCCeeECCCCcCCCcCccCCCCcC
Confidence 57999998655555544553322111123457888865
No 165
>PRK10811 rne ribonuclease E; Reviewed
Probab=28.58 E-value=25 Score=35.00 Aligned_cols=16 Identities=44% Similarity=1.120 Sum_probs=13.7
Q ss_pred CCCCCCCCcceeeecc
Q 032793 87 DMCPECDGAGFVRKSG 102 (133)
Q Consensus 87 d~CPECdGaGFvrk~g 102 (133)
+.||.|+|.|+|++.-
T Consensus 402 e~Cp~C~GtG~v~s~e 417 (1068)
T PRK10811 402 HVCPRCSGTGTVRDNE 417 (1068)
T ss_pred ccCcccCCCcccccHH
Confidence 6899999999997654
No 166
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=27.88 E-value=20 Score=24.48 Aligned_cols=8 Identities=38% Similarity=1.149 Sum_probs=4.2
Q ss_pred CCCCCCCC
Q 032793 87 DMCPECDG 94 (133)
Q Consensus 87 d~CPECdG 94 (133)
-+||+|+-
T Consensus 25 atCP~C~a 32 (54)
T PF09237_consen 25 ATCPICGA 32 (54)
T ss_dssp EE-TTT--
T ss_pred CCCCcchh
Confidence 57999974
No 167
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=27.45 E-value=43 Score=19.49 Aligned_cols=14 Identities=29% Similarity=0.762 Sum_probs=10.6
Q ss_pred CCCCCCCCCcceee
Q 032793 86 KDMCPECDGAGFVR 99 (133)
Q Consensus 86 kd~CPECdGaGFvr 99 (133)
...||.|.....++
T Consensus 2 ~~~Cp~Cg~~~~~~ 15 (47)
T PF14690_consen 2 PPRCPHCGSPSVHR 15 (47)
T ss_pred CccCCCcCCCceEC
Confidence 46799999998433
No 168
>PHA00626 hypothetical protein
Probab=27.21 E-value=61 Score=22.53 Aligned_cols=29 Identities=24% Similarity=0.673 Sum_probs=18.4
Q ss_pred CCCCCCCcceeeeccccchhhhhccccceEeecccC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEVQIVCARCN 123 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cn 123 (133)
.||+|...-.+|- + .-|+.--..+|+.|+
T Consensus 2 ~CP~CGS~~Ivrc-g------~cr~~snrYkCkdCG 30 (59)
T PHA00626 2 SCPKCGSGNIAKE-K------TMRGWSDDYVCCDCG 30 (59)
T ss_pred CCCCCCCceeeee-c------eecccCcceEcCCCC
Confidence 6999987655532 2 123434468899997
No 169
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=27.02 E-value=57 Score=23.94 Aligned_cols=36 Identities=25% Similarity=0.621 Sum_probs=23.7
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccce-EeecccCC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQ-IVCARCNG 124 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~q-ivc~~cng 124 (133)
..||-|.|..-.+. ++.+--... .+... .+|.+|+.
T Consensus 3 ~~CpYCg~~~~l~~-~~~iYg~~~-~~~~~~y~C~~C~A 39 (102)
T PF11672_consen 3 IICPYCGGPAELVD-GSEIYGHRY-DDGPYLYVCTPCDA 39 (102)
T ss_pred cccCCCCCeeEEcc-cchhcCccC-CCCceeEECCCCCc
Confidence 57999999888766 455543222 12233 89999985
No 170
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=26.58 E-value=42 Score=19.06 Aligned_cols=12 Identities=42% Similarity=1.002 Sum_probs=7.2
Q ss_pred CCCCCCcceeee
Q 032793 89 CPECDGAGFVRK 100 (133)
Q Consensus 89 CPECdGaGFvrk 100 (133)
||.|.|.-..++
T Consensus 1 C~~C~~~~~~~~ 12 (46)
T TIGR03831 1 CPICGGEELEGK 12 (46)
T ss_pred CCCCCCceecce
Confidence 888955444433
No 171
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=26.49 E-value=32 Score=31.46 Aligned_cols=53 Identities=26% Similarity=0.429 Sum_probs=26.0
Q ss_pred HhcccceeeeecCCCCCCCCCcceeeeccccchhhhhccccce-EeecccCCCccccc
Q 032793 74 LLGTGFPILFSRKDMCPECDGAGFVRKSGATLRANAARKDEVQ-IVCARCNGLGKLNQ 130 (133)
Q Consensus 74 lvGTAfpIlfsRkd~CPECdGaGFvrk~g~~l~anaArkd~~q-ivc~~cnglgkl~q 130 (133)
|.|...-=|.+ -+||.|..+.= ......+..... ....+ .-|..|++.|--|.
T Consensus 385 l~gViaQRLvr--~lC~~C~~~~~-~~~~~~~~~~~~-~~~~~~~GC~~C~~~Gy~GR 438 (500)
T COG2804 385 LLGVIAQRLVR--RLCPHCKEECE-PEELARLGLSES-LPLYRAVGCEACNGSGYKGR 438 (500)
T ss_pred HHHHHHHHHHh--hhCchhccccc-chhhhhhccccc-ccccccCCchhhccCCcCCc
Confidence 44443333333 47999998774 111111100000 11111 34999999887664
No 172
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=26.44 E-value=30 Score=27.26 Aligned_cols=24 Identities=33% Similarity=0.866 Sum_probs=17.8
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccCCC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCNGL 125 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cngl 125 (133)
-.||.| ||+-+ |++--+||.|+-.
T Consensus 135 ~vC~vC---Gy~~~------------ge~P~~CPiCga~ 158 (166)
T COG1592 135 WVCPVC---GYTHE------------GEAPEVCPICGAP 158 (166)
T ss_pred EEcCCC---CCccc------------CCCCCcCCCCCCh
Confidence 579999 66543 4677899999854
No 173
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=26.32 E-value=30 Score=19.78 Aligned_cols=7 Identities=57% Similarity=1.625 Sum_probs=5.5
Q ss_pred CCCCCCC
Q 032793 88 MCPECDG 94 (133)
Q Consensus 88 ~CPECdG 94 (133)
.||||+.
T Consensus 2 ~CP~C~~ 8 (26)
T PF10571_consen 2 TCPECGA 8 (26)
T ss_pred cCCCCcC
Confidence 6999975
No 174
>COG0551 TopA Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]
Probab=25.20 E-value=58 Score=23.28 Aligned_cols=16 Identities=38% Similarity=0.744 Sum_probs=10.4
Q ss_pred CCCCCCCCcceeeecc
Q 032793 87 DMCPECDGAGFVRKSG 102 (133)
Q Consensus 87 d~CPECdGaGFvrk~g 102 (133)
-.||+|.....+.+.+
T Consensus 61 ~~Cp~C~~~~~~~k~~ 76 (140)
T COG0551 61 VKCPKCGKGLLVLKKG 76 (140)
T ss_pred eeCCCCCCCceEEEec
Confidence 5688888655555554
No 175
>PF08063 PADR1: PADR1 (NUC008) domain; InterPro: IPR012982 This domain is found in poly(ADP-ribose)-synthetases []. The function of this domain is unknown.; GO: 0003950 NAD+ ADP-ribosyltransferase activity, 0005634 nucleus; PDB: 2JVN_A 4DQY_E 2RIQ_A.
Probab=25.05 E-value=13 Score=24.18 Aligned_cols=18 Identities=33% Similarity=0.940 Sum_probs=9.5
Q ss_pred eeeecCCCCCCCCCccee
Q 032793 81 ILFSRKDMCPECDGAGFV 98 (133)
Q Consensus 81 IlfsRkd~CPECdGaGFv 98 (133)
++|.+-.-||+|.|-=++
T Consensus 9 m~fGal~~Cp~C~~~~l~ 26 (55)
T PF08063_consen 9 MLFGALEPCPKCKGGQLY 26 (55)
T ss_dssp HHHTEE---SSSSE-EEE
T ss_pred HHhcCCCCCCCCCCCeEE
Confidence 356677889999984443
No 176
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=24.61 E-value=68 Score=22.02 Aligned_cols=31 Identities=32% Similarity=0.802 Sum_probs=22.9
Q ss_pred CCCCCCCcc-eeeeccccchhhhhccccceEeecccCCCc
Q 032793 88 MCPECDGAG-FVRKSGATLRANAARKDEVQIVCARCNGLG 126 (133)
Q Consensus 88 ~CPECdGaG-Fvrk~g~~l~anaArkd~~qivc~~cnglg 126 (133)
.||+| |+= .+ |-..-||.-...+|++|.--|
T Consensus 27 ~CPnC-G~~~I~-------RC~~CRk~~~~Y~CP~CGF~G 58 (59)
T PRK14890 27 LCPNC-GEVIIY-------RCEKCRKQSNPYTCPKCGFEG 58 (59)
T ss_pred eCCCC-CCeeEe-------echhHHhcCCceECCCCCCcC
Confidence 59999 443 33 366788999999999996544
No 177
>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.
Probab=23.47 E-value=14 Score=23.64 Aligned_cols=23 Identities=39% Similarity=0.452 Sum_probs=12.8
Q ss_pred eehhHHHHHHhcccceeeeecCC
Q 032793 65 LIAGAAAVALLGTGFPILFSRKD 87 (133)
Q Consensus 65 liagAiAvalvGTAfpIlfsRkd 87 (133)
|++|++-|.+.-+++=|+.|.+|
T Consensus 12 l~aG~~iVv~~i~~ali~VSq~D 34 (39)
T PF06596_consen 12 LVAGAVIVVIPIAGALIFVSQFD 34 (39)
T ss_dssp HHHHH-HHHHHHHHHHHHHHCCS
T ss_pred HHhhhhhhhhhhhhheEEEeccC
Confidence 45666444444444556777776
No 178
>cd03271 ABC_UvrA_II The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=23.27 E-value=31 Score=27.72 Aligned_cols=12 Identities=33% Similarity=0.974 Sum_probs=10.6
Q ss_pred CCCCCCcceeee
Q 032793 89 CPECDGAGFVRK 100 (133)
Q Consensus 89 CPECdGaGFvrk 100 (133)
||+|.|..|-++
T Consensus 103 C~~C~G~r~~~~ 114 (261)
T cd03271 103 CEVCKGKRYNRE 114 (261)
T ss_pred CccccccccCHH
Confidence 999999999764
No 179
>COG1328 NrdD Oxygen-sensitive ribonucleoside-triphosphate reductase [Nucleotide transport and metabolism]
Probab=22.89 E-value=42 Score=31.71 Aligned_cols=8 Identities=25% Similarity=0.862 Sum_probs=5.7
Q ss_pred CCCCCCCC
Q 032793 87 DMCPECDG 94 (133)
Q Consensus 87 d~CPECdG 94 (133)
+.|++|.-
T Consensus 642 ~~C~~cg~ 649 (700)
T COG1328 642 SVCNRCGY 649 (700)
T ss_pred eeeccCCc
Confidence 67888853
No 180
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=22.04 E-value=1e+02 Score=18.61 Aligned_cols=26 Identities=23% Similarity=0.599 Sum_probs=16.0
Q ss_pred CCCCCCCCcceeeeccccchhhhhccccceEeecccC
Q 032793 87 DMCPECDGAGFVRKSGATLRANAARKDEVQIVCARCN 123 (133)
Q Consensus 87 d~CPECdGaGFvrk~g~~l~anaArkd~~qivc~~cn 123 (133)
-.||.|...-..+-++ .-...|..|.
T Consensus 19 ~~CP~Cg~~~~~~~~~-----------~~~~~C~~C~ 44 (46)
T PF12760_consen 19 FVCPHCGSTKHYRLKT-----------RGRYRCKACR 44 (46)
T ss_pred CCCCCCCCeeeEEeCC-----------CCeEECCCCC
Confidence 4699998864443332 4456677764
No 181
>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=21.65 E-value=91 Score=18.67 Aligned_cols=31 Identities=35% Similarity=0.597 Sum_probs=14.3
Q ss_pred CCCCCCCcceeeeccccchhhhhccccc---eEeecccC
Q 032793 88 MCPECDGAGFVRKSGATLRANAARKDEV---QIVCARCN 123 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~l~anaArkd~~---qivc~~cn 123 (133)
.||.|....-+.-.-.+ | ..|+. -.+|.+|.
T Consensus 2 ~Cp~Cg~~~a~~~~~Q~-r----saDE~~T~fy~C~~C~ 35 (39)
T PF01096_consen 2 KCPKCGHNEAVFFQIQT-R----SADEPMTLFYVCCNCG 35 (39)
T ss_dssp --SSS-SSEEEEEEESS-S----SSSSSSEEEEEESSST
T ss_pred CCcCCCCCeEEEEEeec-c----CCCCCCeEEEEeCCCC
Confidence 59999876644331111 1 12433 35688885
No 182
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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 the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=21.53 E-value=40 Score=17.64 Aligned_cols=12 Identities=25% Similarity=0.672 Sum_probs=8.6
Q ss_pred EeecccCCCccc
Q 032793 117 IVCARCNGLGKL 128 (133)
Q Consensus 117 ivc~~cnglgkl 128 (133)
+.|-+|+..|-+
T Consensus 1 ~~C~~C~~~GH~ 12 (18)
T PF00098_consen 1 RKCFNCGEPGHI 12 (18)
T ss_dssp SBCTTTSCSSSC
T ss_pred CcCcCCCCcCcc
Confidence 368888877754
No 183
>COG1530 CafA Ribonucleases G and E [Translation, ribosomal structure and biogenesis]
Probab=21.05 E-value=43 Score=29.58 Aligned_cols=18 Identities=39% Similarity=1.019 Sum_probs=15.2
Q ss_pred CCCCCCCCCcceeeeccc
Q 032793 86 KDMCPECDGAGFVRKSGA 103 (133)
Q Consensus 86 kd~CPECdGaGFvrk~g~ 103 (133)
.+.||.|.|-|.++-.-.
T Consensus 395 ~~~cp~c~G~g~v~~~~~ 412 (487)
T COG1530 395 SERCPGCKGTGHVRSTES 412 (487)
T ss_pred eeECCCceeeEEEecCch
Confidence 389999999999987554
No 184
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=20.96 E-value=62 Score=22.40 Aligned_cols=16 Identities=38% Similarity=0.681 Sum_probs=13.9
Q ss_pred CCCCCCCcceeeeccc
Q 032793 88 MCPECDGAGFVRKSGA 103 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~ 103 (133)
.||+|...--||++-.
T Consensus 3 ~CP~Cg~~a~irtSr~ 18 (72)
T PRK09678 3 HCPLCQHAAHARTSRY 18 (72)
T ss_pred cCCCCCCccEEEEChh
Confidence 5999999999998864
No 185
>PF15061 DUF4538: Domain of unknown function (DUF4538)
Probab=20.87 E-value=47 Score=22.76 Aligned_cols=14 Identities=43% Similarity=0.868 Sum_probs=9.4
Q ss_pred HHHHhcccc-eeeee
Q 032793 71 AVALLGTGF-PILFS 84 (133)
Q Consensus 71 AvalvGTAf-pIlfs 84 (133)
-|+++|.|| ||.|+
T Consensus 14 fVg~iG~a~Ypi~~~ 28 (58)
T PF15061_consen 14 FVGLIGAALYPIYFR 28 (58)
T ss_pred HHHHHHHHHhhhhcc
Confidence 366777776 67665
No 186
>PF13790 DUF4182: Domain of unknown function (DUF4182)
Probab=20.49 E-value=48 Score=21.10 Aligned_cols=10 Identities=50% Similarity=1.082 Sum_probs=8.3
Q ss_pred eEeecccCCC
Q 032793 116 QIVCARCNGL 125 (133)
Q Consensus 116 qivc~~cngl 125 (133)
-|||..||+.
T Consensus 3 tIvCq~C~~~ 12 (38)
T PF13790_consen 3 TIVCQHCNET 12 (38)
T ss_pred EEEeccccce
Confidence 4899999974
No 187
>CHL00037 petA cytochrome f
Probab=20.43 E-value=43 Score=29.50 Aligned_cols=19 Identities=37% Similarity=0.632 Sum_probs=13.8
Q ss_pred hhccccceEeecccCCCcc
Q 032793 109 AARKDEVQIVCARCNGLGK 127 (133)
Q Consensus 109 aArkd~~qivc~~cnglgk 127 (133)
-.|.-.-.|||+||.---|
T Consensus 46 nPREAtGrIVCANCHLA~K 64 (320)
T CHL00037 46 NPREATGRIVCANCHLANK 64 (320)
T ss_pred ChhhhcCcEEeeccccccC
Confidence 3566677899999975444
No 188
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.28 E-value=68 Score=23.62 Aligned_cols=17 Identities=29% Similarity=0.714 Sum_probs=8.1
Q ss_pred CCCCCCCcceeeecccc
Q 032793 88 MCPECDGAGFVRKSGAT 104 (133)
Q Consensus 88 ~CPECdGaGFvrk~g~~ 104 (133)
.||.|.+..+---+|..
T Consensus 109 ~CP~Cgs~~~~i~~G~e 125 (135)
T PRK03824 109 KCPKCGSRDFEIVKGRG 125 (135)
T ss_pred CCcCCCCCCcEEecCce
Confidence 36666555443344433
No 189
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=20.06 E-value=1e+02 Score=22.49 Aligned_cols=17 Identities=29% Similarity=0.874 Sum_probs=10.9
Q ss_pred cceeeeecC---CCCCCCCC
Q 032793 78 GFPILFSRK---DMCPECDG 94 (133)
Q Consensus 78 AfpIlfsRk---d~CPECdG 94 (133)
.|.+-.... ..||+|+|
T Consensus 80 ~~~l~~~~~~~~sRC~~CN~ 99 (147)
T PF01927_consen 80 RFGLKLRLDPIFSRCPKCNG 99 (147)
T ss_pred HcCCccccCCCCCccCCCCc
Confidence 455444333 36999999
No 190
>PLN03123 poly [ADP-ribose] polymerase; Provisional
Probab=20.04 E-value=51 Score=32.16 Aligned_cols=23 Identities=22% Similarity=0.537 Sum_probs=17.1
Q ss_pred ccceeeeecCCCCCCCCCcceeee
Q 032793 77 TGFPILFSRKDMCPECDGAGFVRK 100 (133)
Q Consensus 77 TAfpIlfsRkd~CPECdGaGFvrk 100 (133)
.|=-++|.+-..||+|.| +|+-.
T Consensus 290 ~AD~m~FGal~~CP~C~g-~l~~~ 312 (981)
T PLN03123 290 CADGMMFGALGPCPLCSG-PLLYS 312 (981)
T ss_pred HHHHHHhCCCCCCCCCCC-eeEEc
Confidence 344567888899999998 66543
No 191
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=20.02 E-value=41 Score=23.11 Aligned_cols=9 Identities=44% Similarity=1.117 Sum_probs=7.5
Q ss_pred eEeecccCC
Q 032793 116 QIVCARCNG 124 (133)
Q Consensus 116 qivc~~cng 124 (133)
+-+||||.|
T Consensus 41 ~~~CPNCgG 49 (57)
T PF06906_consen 41 NGVCPNCGG 49 (57)
T ss_pred cCcCcCCCC
Confidence 678999987
Done!