Query psy8513
Match_columns 183
No_of_seqs 202 out of 1687
Neff 6.3
Searched_HMMs 46136
Date Fri Aug 16 20:52:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8513.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8513hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK01773 hscB co-chaperone Hsc 100.0 1E-37 2.2E-42 251.1 16.4 129 54-182 2-135 (173)
2 PRK03578 hscB co-chaperone Hsc 100.0 2.9E-37 6.3E-42 249.1 16.7 131 52-182 4-138 (176)
3 PRK00294 hscB co-chaperone Hsc 100.0 3.5E-36 7.6E-41 242.2 15.2 129 52-181 2-130 (173)
4 PRK05014 hscB co-chaperone Hsc 100.0 5.5E-36 1.2E-40 240.6 14.4 129 54-182 1-134 (171)
5 PRK01356 hscB co-chaperone Hsc 100.0 1.6E-35 3.5E-40 236.9 15.6 127 54-182 2-130 (166)
6 TIGR00714 hscB Fe-S protein as 100.0 5.9E-31 1.3E-35 208.8 14.7 117 66-182 1-121 (157)
7 KOG3192|consensus 100.0 7.2E-29 1.6E-33 194.5 11.7 134 48-181 2-135 (168)
8 COG0484 DnaJ DnaJ-class molecu 99.8 9.3E-19 2E-23 154.8 6.8 66 53-125 3-68 (371)
9 KOG0713|consensus 99.7 8.2E-18 1.8E-22 146.2 7.2 72 48-126 10-81 (336)
10 PF00226 DnaJ: DnaJ domain; I 99.7 1.3E-17 2.9E-22 112.5 6.0 64 55-124 1-64 (64)
11 COG1076 DjlA DnaJ-domain-conta 99.7 9.8E-18 2.1E-22 134.9 6.0 128 54-181 1-134 (174)
12 PRK14288 chaperone protein Dna 99.7 2E-16 4.2E-21 140.6 7.3 65 54-125 3-67 (369)
13 KOG0718|consensus 99.6 3E-16 6.5E-21 141.2 7.9 69 53-125 8-76 (546)
14 PRK14296 chaperone protein Dna 99.6 6E-16 1.3E-20 137.7 6.9 65 53-125 3-67 (372)
15 PRK14286 chaperone protein Dna 99.6 8.5E-16 1.8E-20 136.7 7.2 65 54-125 4-68 (372)
16 smart00271 DnaJ DnaJ molecular 99.6 1.7E-15 3.7E-20 100.5 6.8 60 54-119 1-60 (60)
17 PRK14282 chaperone protein Dna 99.6 1.1E-15 2.5E-20 135.6 7.4 67 53-125 3-69 (369)
18 PRK14279 chaperone protein Dna 99.6 1.3E-15 2.9E-20 136.3 7.0 67 53-126 8-74 (392)
19 PRK14295 chaperone protein Dna 99.6 1.9E-15 4.1E-20 135.2 7.1 65 54-125 9-73 (389)
20 PRK14297 chaperone protein Dna 99.6 1.5E-15 3.4E-20 135.3 6.5 65 54-125 4-68 (380)
21 PRK14287 chaperone protein Dna 99.6 2.5E-15 5.4E-20 133.6 7.2 64 54-125 4-67 (371)
22 PRK14301 chaperone protein Dna 99.6 2.1E-15 4.6E-20 134.2 6.5 65 54-125 4-68 (373)
23 KOG0716|consensus 99.6 4.5E-15 9.6E-20 125.9 7.9 67 53-126 30-96 (279)
24 PRK14294 chaperone protein Dna 99.6 3.4E-15 7.3E-20 132.5 7.3 66 53-125 3-68 (366)
25 cd06257 DnaJ DnaJ domain or J- 99.6 6.7E-15 1.5E-19 95.9 6.5 55 55-116 1-55 (55)
26 PRK14277 chaperone protein Dna 99.6 3.8E-15 8.1E-20 133.1 7.0 65 54-125 5-69 (386)
27 PRK14298 chaperone protein Dna 99.6 3.4E-15 7.4E-20 133.1 6.5 64 54-125 5-68 (377)
28 PRK14276 chaperone protein Dna 99.6 4.4E-15 9.5E-20 132.4 7.0 64 54-125 4-67 (380)
29 PRK14291 chaperone protein Dna 99.6 4.2E-15 9E-20 132.7 6.7 65 54-126 3-67 (382)
30 PRK14299 chaperone protein Dna 99.6 5.1E-15 1.1E-19 127.7 6.9 64 54-125 4-67 (291)
31 PRK14285 chaperone protein Dna 99.6 5.3E-15 1.1E-19 131.3 7.1 65 54-125 3-67 (365)
32 PRK14280 chaperone protein Dna 99.6 5.2E-15 1.1E-19 131.8 7.0 64 54-125 4-67 (376)
33 PRK10767 chaperone protein Dna 99.6 6.4E-15 1.4E-19 130.9 7.1 66 53-125 3-68 (371)
34 PRK14281 chaperone protein Dna 99.6 5.8E-15 1.2E-19 132.4 6.8 65 54-125 3-67 (397)
35 PRK14284 chaperone protein Dna 99.6 6.5E-15 1.4E-19 131.8 7.1 65 54-125 1-65 (391)
36 PTZ00037 DnaJ_C chaperone prot 99.6 4E-15 8.6E-20 134.4 5.7 62 53-125 27-88 (421)
37 PRK14290 chaperone protein Dna 99.5 9.1E-15 2E-19 129.7 6.8 66 54-125 3-68 (365)
38 PRK14278 chaperone protein Dna 99.5 8.6E-15 1.9E-19 130.5 6.4 64 54-125 3-66 (378)
39 PRK14283 chaperone protein Dna 99.5 1E-14 2.3E-19 129.9 6.8 65 53-125 4-68 (378)
40 PRK14292 chaperone protein Dna 99.5 1.3E-14 2.9E-19 128.8 6.7 64 54-125 2-65 (371)
41 PRK14293 chaperone protein Dna 99.5 1.7E-14 3.7E-19 128.4 7.1 64 54-125 3-66 (374)
42 PRK14300 chaperone protein Dna 99.5 1.6E-14 3.4E-19 128.6 6.9 64 54-125 3-66 (372)
43 PRK10266 curved DNA-binding pr 99.5 1.6E-14 3.4E-19 125.4 6.7 65 54-126 4-68 (306)
44 KOG0712|consensus 99.5 1.4E-14 3E-19 126.9 6.2 64 53-126 3-66 (337)
45 TIGR02349 DnaJ_bact chaperone 99.5 1.3E-14 2.9E-19 128.0 6.0 63 55-125 1-63 (354)
46 PRK14289 chaperone protein Dna 99.5 2.1E-14 4.6E-19 128.2 7.2 66 53-125 4-69 (386)
47 PTZ00341 Ring-infected erythro 99.5 2.4E-13 5.1E-18 131.4 13.2 80 53-142 572-651 (1136)
48 KOG0715|consensus 99.5 4.6E-14 9.9E-19 121.9 7.3 83 39-129 28-110 (288)
49 KOG0691|consensus 99.5 2.6E-13 5.7E-18 117.4 10.3 69 53-128 4-72 (296)
50 KOG0719|consensus 99.5 3.3E-13 7.1E-18 112.7 9.7 68 53-125 13-80 (264)
51 KOG0717|consensus 99.4 2E-13 4.4E-18 122.8 7.2 70 51-126 5-74 (508)
52 TIGR03835 termin_org_DnaJ term 99.4 4E-13 8.6E-18 127.4 9.2 66 54-127 2-67 (871)
53 COG2214 CbpA DnaJ-class molecu 99.4 4.5E-13 9.7E-18 106.6 6.7 68 52-125 4-71 (237)
54 PHA03102 Small T antigen; Revi 99.4 1.3E-12 2.7E-17 103.5 6.0 63 54-125 5-67 (153)
55 KOG0721|consensus 99.3 3.6E-12 7.7E-17 105.4 7.6 66 53-125 98-163 (230)
56 KOG0624|consensus 99.2 2.3E-11 4.9E-16 107.4 5.9 69 52-124 392-460 (504)
57 PRK09430 djlA Dna-J like membr 99.2 3.7E-11 8E-16 102.8 6.4 63 52-116 198-262 (267)
58 KOG0720|consensus 99.1 1.7E-10 3.8E-15 104.0 6.2 70 52-129 233-302 (490)
59 KOG0722|consensus 99.1 1.4E-10 3E-15 98.4 4.4 68 53-128 32-99 (329)
60 PTZ00100 DnaJ chaperone protei 99.0 2.7E-10 5.9E-15 86.3 5.2 58 47-115 58-115 (116)
61 PHA02624 large T antigen; Prov 99.0 5.5E-10 1.2E-14 104.7 5.1 63 53-124 10-72 (647)
62 KOG0550|consensus 99.0 8.2E-10 1.8E-14 99.1 5.7 68 52-125 371-438 (486)
63 COG5407 SEC63 Preprotein trans 99.0 1E-09 2.2E-14 99.3 6.0 72 53-126 97-168 (610)
64 KOG0714|consensus 98.9 2E-09 4.4E-14 89.6 4.4 68 53-126 2-69 (306)
65 PF07743 HSCB_C: HSCB C-termin 98.8 6.5E-09 1.4E-13 72.9 5.2 44 139-182 2-48 (78)
66 COG5269 ZUO1 Ribosome-associat 98.6 8.4E-08 1.8E-12 82.3 5.8 80 53-135 42-122 (379)
67 KOG1150|consensus 98.6 1.2E-07 2.6E-12 78.2 6.2 64 53-122 52-115 (250)
68 KOG1789|consensus 97.8 3E-05 6.4E-10 76.8 5.6 53 55-115 1282-1336(2235)
69 KOG0568|consensus 97.8 4.3E-05 9.2E-10 64.7 5.5 55 54-116 47-102 (342)
70 KOG0723|consensus 97.6 0.00015 3.1E-09 54.3 5.2 54 52-116 54-107 (112)
71 PF13248 zf-ribbon_3: zinc-rib 97.0 0.00035 7.7E-09 39.3 1.5 22 25-46 3-24 (26)
72 PF13240 zinc_ribbon_2: zinc-r 96.7 0.00075 1.6E-08 37.0 1.3 21 26-46 1-21 (23)
73 KOG0431|consensus 96.7 0.0027 5.9E-08 58.4 5.6 48 68-115 400-449 (453)
74 COG1076 DjlA DnaJ-domain-conta 96.1 0.0055 1.2E-07 49.2 3.4 59 54-114 113-173 (174)
75 PF10571 UPF0547: Uncharacteri 95.4 0.011 2.4E-07 33.4 1.8 22 26-47 2-23 (26)
76 PF09538 FYDLN_acid: Protein o 94.7 0.025 5.5E-07 42.4 2.6 28 24-51 9-39 (108)
77 PF14687 DUF4460: Domain of un 94.0 0.17 3.6E-06 38.2 5.6 48 70-118 8-55 (112)
78 TIGR02300 FYDLN_acid conserved 92.6 0.096 2.1E-06 40.4 2.4 29 23-51 8-39 (129)
79 PF09889 DUF2116: Uncharacteri 92.6 0.031 6.8E-07 37.6 -0.2 23 24-46 3-26 (59)
80 PF07754 DUF1610: Domain of un 92.5 0.083 1.8E-06 29.3 1.5 20 27-46 1-24 (24)
81 PRK00420 hypothetical protein; 91.3 0.13 2.8E-06 38.9 1.9 28 23-50 22-52 (112)
82 PF12773 DZR: Double zinc ribb 91.0 0.13 2.9E-06 32.5 1.5 28 23-50 11-41 (50)
83 PF14803 Nudix_N_2: Nudix N-te 90.7 0.052 1.1E-06 32.5 -0.7 23 26-48 2-32 (34)
84 PF12773 DZR: Double zinc ribb 90.1 0.26 5.7E-06 31.1 2.2 23 23-45 28-50 (50)
85 COG1645 Uncharacterized Zn-fin 89.0 0.19 4.2E-06 38.9 1.1 24 23-46 27-52 (131)
86 PRK14890 putative Zn-ribbon RN 88.3 0.34 7.3E-06 32.6 1.8 24 24-47 7-34 (59)
87 PRK14559 putative protein seri 88.3 0.34 7.3E-06 46.6 2.5 24 25-48 28-51 (645)
88 PF09862 DUF2089: Protein of u 87.8 0.2 4.4E-06 37.9 0.6 35 27-61 1-35 (113)
89 PF03656 Pam16: Pam16; InterP 87.7 1.7 3.6E-05 33.6 5.6 53 55-118 59-111 (127)
90 COG1439 Predicted nucleic acid 86.4 0.34 7.4E-06 39.4 1.2 24 24-47 139-162 (177)
91 PF13877 RPAP3_C: Potential Mo 83.8 4.3 9.4E-05 28.8 5.9 49 105-153 8-58 (94)
92 smart00661 RPOL9 RNA polymeras 83.6 0.79 1.7E-05 29.0 1.7 28 26-53 2-35 (52)
93 PRK14559 putative protein seri 82.2 0.83 1.8E-05 44.0 2.0 28 23-52 14-41 (645)
94 COG2888 Predicted Zn-ribbon RN 82.0 0.73 1.6E-05 31.1 1.1 23 24-46 9-35 (61)
95 COG0375 HybF Zn finger protein 81.8 0.73 1.6E-05 35.0 1.2 26 24-49 70-97 (115)
96 PRK00398 rpoP DNA-directed RNA 81.2 0.77 1.7E-05 28.7 0.9 23 25-47 4-30 (46)
97 PF08271 TF_Zn_Ribbon: TFIIB z 80.3 0.87 1.9E-05 28.1 1.0 24 26-49 2-30 (43)
98 PF14353 CpXC: CpXC protein 79.3 1.1 2.3E-05 33.8 1.4 18 37-54 37-54 (128)
99 PF06677 Auto_anti-p27: Sjogre 78.3 1.1 2.3E-05 27.9 0.9 22 24-45 17-41 (41)
100 COG4306 Uncharacterized protei 78.1 0.97 2.1E-05 35.1 0.8 29 23-51 38-81 (160)
101 COG0675 Transposase and inacti 76.4 1.5 3.3E-05 36.9 1.7 28 23-51 308-335 (364)
102 PF14205 Cys_rich_KTR: Cystein 76.2 1.8 3.9E-05 28.7 1.6 23 25-47 5-37 (55)
103 PRK12380 hydrogenase nickel in 76.1 1.5 3.2E-05 32.9 1.3 25 24-48 70-96 (113)
104 PF07282 OrfB_Zn_ribbon: Putat 76.1 1.9 4.2E-05 28.9 1.8 27 23-49 27-57 (69)
105 PRK03681 hypA hydrogenase nick 76.0 1.5 3.3E-05 32.9 1.4 25 24-48 70-97 (114)
106 PRK12495 hypothetical protein; 75.7 1.7 3.7E-05 36.6 1.7 27 23-49 41-69 (226)
107 PF09297 zf-NADH-PPase: NADH p 75.5 0.88 1.9E-05 26.4 -0.0 24 24-47 3-30 (32)
108 PF12172 DUF35_N: Rubredoxin-l 75.2 0.93 2E-05 27.0 0.0 21 26-46 13-33 (37)
109 PRK12286 rpmF 50S ribosomal pr 75.0 2 4.4E-05 28.5 1.6 22 24-46 27-48 (57)
110 PRK01343 zinc-binding protein; 74.4 2 4.3E-05 28.7 1.4 25 23-47 8-34 (57)
111 TIGR01384 TFS_arch transcripti 74.1 2.5 5.4E-05 30.7 2.1 26 26-51 2-29 (104)
112 PF08772 NOB1_Zn_bind: Nin one 73.7 1.4 3E-05 30.8 0.6 22 25-46 10-32 (73)
113 TIGR01031 rpmF_bact ribosomal 73.5 2 4.3E-05 28.3 1.3 23 23-46 25-47 (55)
114 PRK04023 DNA polymerase II lar 73.3 5.9 0.00013 40.2 5.0 26 23-49 637-662 (1121)
115 PRK00418 DNA gyrase inhibitor; 73.1 1.8 3.9E-05 29.4 1.0 24 24-47 6-35 (62)
116 PF08792 A2L_zn_ribbon: A2L zi 72.9 1.7 3.8E-05 25.7 0.8 26 24-49 3-32 (33)
117 PF09567 RE_MamI: MamI restric 72.2 2.2 4.9E-05 36.8 1.6 39 25-64 83-121 (314)
118 PF08274 PhnA_Zn_Ribbon: PhnA 72.2 1.6 3.4E-05 25.4 0.5 22 25-46 3-27 (30)
119 TIGR02098 MJ0042_CXXC MJ0042 f 72.1 1.7 3.7E-05 25.8 0.6 23 25-47 3-34 (38)
120 PF09986 DUF2225: Uncharacteri 71.0 49 0.0011 27.3 9.3 73 37-123 47-119 (214)
121 COG4031 Predicted metal-bindin 70.2 2.6 5.5E-05 34.9 1.5 60 26-88 2-73 (227)
122 PRK03824 hypA hydrogenase nick 69.9 2.3 5E-05 32.8 1.1 12 24-35 70-81 (135)
123 smart00659 RPOLCX RNA polymera 69.7 2.7 5.9E-05 26.4 1.2 21 26-46 4-27 (44)
124 TIGR00373 conserved hypothetic 69.3 2.2 4.7E-05 33.8 0.9 24 25-48 110-138 (158)
125 PRK14714 DNA polymerase II lar 69.1 4.1 8.8E-05 42.1 2.9 27 24-51 679-705 (1337)
126 PF01783 Ribosomal_L32p: Ribos 68.9 2.8 6E-05 27.6 1.2 22 24-46 26-47 (56)
127 TIGR00375 conserved hypothetic 68.9 9.3 0.0002 34.6 4.9 72 17-89 233-332 (374)
128 smart00531 TFIIE Transcription 68.8 2.3 5E-05 33.1 0.9 27 24-50 99-135 (147)
129 PRK00564 hypA hydrogenase nick 68.5 2.9 6.3E-05 31.5 1.4 25 24-48 71-98 (117)
130 smart00834 CxxC_CXXC_SSSS Puta 68.3 2.6 5.6E-05 25.1 0.9 21 26-46 7-34 (41)
131 TIGR00686 phnA alkylphosphonat 67.6 2.8 6.1E-05 31.5 1.1 27 25-51 3-32 (109)
132 PF01155 HypA: Hydrogenase exp 67.4 1.8 3.8E-05 32.4 -0.0 25 24-48 70-96 (113)
133 PRK06266 transcription initiat 67.3 2.4 5.1E-05 34.3 0.7 26 25-50 118-148 (178)
134 TIGR00100 hypA hydrogenase nic 67.3 3.2 6.9E-05 31.1 1.4 25 24-48 70-96 (115)
135 COG2093 DNA-directed RNA polym 67.1 2.6 5.6E-05 28.7 0.8 35 23-60 3-37 (64)
136 PRK02935 hypothetical protein; 65.9 3.7 8.1E-05 30.8 1.5 30 23-52 69-100 (110)
137 PF10083 DUF2321: Uncharacteri 65.9 3.4 7.3E-05 33.0 1.3 28 23-50 38-80 (158)
138 COG3024 Uncharacterized protei 65.8 3.2 6.9E-05 28.4 1.0 25 23-47 6-36 (65)
139 PRK14714 DNA polymerase II lar 65.1 3.7 8E-05 42.4 1.7 23 25-49 668-690 (1337)
140 PF11023 DUF2614: Protein of u 65.0 3.1 6.7E-05 31.5 0.9 31 23-53 68-100 (114)
141 PF14446 Prok-RING_1: Prokaryo 64.9 4.9 0.00011 26.6 1.7 25 24-48 5-31 (54)
142 PF02591 DUF164: Putative zinc 64.7 3 6.6E-05 27.1 0.7 25 23-47 21-55 (56)
143 COG1545 Predicted nucleic-acid 64.2 3.6 7.8E-05 32.0 1.2 24 24-47 29-52 (140)
144 PF13719 zinc_ribbon_5: zinc-r 63.3 3.9 8.5E-05 24.5 1.0 24 25-48 3-35 (37)
145 PRK10220 hypothetical protein; 63.2 4.3 9.2E-05 30.6 1.3 29 24-52 3-34 (111)
146 PF06827 zf-FPG_IleRS: Zinc fi 63.0 2.1 4.5E-05 24.3 -0.3 21 26-46 3-29 (30)
147 KOG2577|consensus 62.8 11 0.00024 33.9 4.1 99 66-181 69-181 (354)
148 PF13453 zf-TFIIB: Transcripti 62.8 3.4 7.4E-05 25.2 0.7 22 26-47 1-28 (41)
149 PRK14892 putative transcriptio 62.7 5.4 0.00012 29.5 1.8 25 23-47 20-51 (99)
150 PHA00626 hypothetical protein 62.4 6.4 0.00014 26.3 1.9 24 26-49 2-34 (59)
151 PF06044 DRP: Dam-replacing fa 62.1 2.6 5.6E-05 36.0 0.0 24 25-48 32-63 (254)
152 PF03604 DNA_RNApol_7kD: DNA d 60.6 4.9 0.00011 23.6 1.0 21 26-46 2-25 (32)
153 TIGR00595 priA primosomal prot 60.2 6.8 0.00015 36.6 2.4 29 23-51 221-253 (505)
154 cd00729 rubredoxin_SM Rubredox 60.2 6 0.00013 23.4 1.4 21 26-46 4-26 (34)
155 PF14260 zf-C4pol: C4-type zin 59.8 10 0.00022 25.6 2.7 46 27-83 1-47 (73)
156 PF04161 Arv1: Arv1-like famil 59.7 4.4 9.6E-05 33.3 1.0 50 26-82 2-62 (208)
157 KOG0724|consensus 59.3 13 0.00028 32.5 3.9 50 70-120 6-55 (335)
158 PRK00432 30S ribosomal protein 59.2 5.7 0.00012 25.6 1.2 24 24-47 20-46 (50)
159 TIGR00201 comF comF family pro 58.9 5.2 0.00011 32.1 1.3 21 27-47 1-21 (190)
160 COG3877 Uncharacterized protei 58.9 4.9 0.00011 30.3 1.0 38 23-60 5-42 (122)
161 PRK12496 hypothetical protein; 58.7 7 0.00015 31.2 2.0 22 25-46 128-151 (164)
162 PF07191 zinc-ribbons_6: zinc- 58.7 2.9 6.2E-05 29.1 -0.2 25 25-49 31-61 (70)
163 PF13717 zinc_ribbon_4: zinc-r 57.1 5.8 0.00012 23.7 0.9 23 25-47 3-34 (36)
164 PRK04023 DNA polymerase II lar 57.0 7.5 0.00016 39.5 2.2 23 23-47 625-647 (1121)
165 KOG2807|consensus 56.6 6.8 0.00015 35.0 1.7 58 4-64 254-318 (378)
166 PRK06393 rpoE DNA-directed RNA 56.4 6.1 0.00013 27.0 1.1 35 23-62 4-38 (64)
167 PRK11827 hypothetical protein; 56.0 7.8 0.00017 26.1 1.5 28 25-52 9-40 (60)
168 COG1198 PriA Primosomal protei 56.0 6.9 0.00015 38.4 1.8 28 24-51 444-475 (730)
169 PF02150 RNA_POL_M_15KD: RNA p 55.8 3.1 6.7E-05 24.8 -0.4 26 26-51 3-33 (35)
170 CHL00174 accD acetyl-CoA carbo 55.6 5.2 0.00011 35.1 0.8 27 25-51 39-70 (296)
171 COG4640 Predicted membrane pro 55.4 6.8 0.00015 35.8 1.5 23 25-47 2-24 (465)
172 PRK14873 primosome assembly pr 54.7 8.4 0.00018 37.4 2.1 40 23-62 391-438 (665)
173 cd00350 rubredoxin_like Rubred 54.5 9.1 0.0002 22.2 1.5 21 26-46 3-25 (33)
174 KOG1984|consensus 54.3 6.3 0.00014 39.3 1.2 68 21-90 335-421 (1007)
175 TIGR01206 lysW lysine biosynth 54.1 7.2 0.00016 25.7 1.1 25 26-50 4-34 (54)
176 PRK08351 DNA-directed RNA poly 53.3 8.6 0.00019 26.0 1.4 32 25-61 4-35 (61)
177 cd04476 RPA1_DBD_C RPA1_DBD_C: 53.3 6.8 0.00015 30.6 1.1 26 23-48 33-61 (166)
178 TIGR00515 accD acetyl-CoA carb 52.8 6.2 0.00013 34.3 0.8 27 25-51 27-58 (285)
179 COG4068 Uncharacterized protei 52.8 7.4 0.00016 26.2 1.0 25 23-47 7-32 (64)
180 COG3357 Predicted transcriptio 52.4 9.8 0.00021 27.9 1.7 28 23-50 57-90 (97)
181 COG1998 RPS31 Ribosomal protei 51.9 7.9 0.00017 25.2 1.0 26 23-48 18-47 (51)
182 COG3043 NapB Nitrate reductase 51.6 7.1 0.00015 31.0 0.9 14 36-49 124-137 (155)
183 PF09779 Ima1_N: Ima1 N-termin 51.4 14 0.00031 28.3 2.6 31 25-55 1-37 (131)
184 COG1096 Predicted RNA-binding 51.4 6.6 0.00014 32.3 0.7 33 24-56 149-183 (188)
185 PF11278 DUF3079: Protein of u 50.9 12 0.00027 24.2 1.8 31 21-51 10-41 (52)
186 COG5151 SSL1 RNA polymerase II 50.5 4.8 0.0001 35.8 -0.2 60 4-63 286-349 (421)
187 PRK05654 acetyl-CoA carboxylas 50.2 7.2 0.00016 34.0 0.8 28 24-51 27-59 (292)
188 PHA02942 putative transposase; 49.7 12 0.00026 33.7 2.2 27 23-49 324-353 (383)
189 PRK05580 primosome assembly pr 49.4 12 0.00025 36.3 2.2 29 23-51 389-421 (679)
190 TIGR00622 ssl1 transcription f 48.6 13 0.00027 28.2 1.8 40 26-65 3-44 (112)
191 PF07295 DUF1451: Protein of u 48.1 8.5 0.00018 30.3 0.8 28 21-48 109-140 (146)
192 COG4307 Uncharacterized protei 47.7 5.9 0.00013 34.6 -0.1 27 25-51 4-30 (349)
193 PRK09710 lar restriction allev 47.6 13 0.00027 25.5 1.5 28 24-51 6-40 (64)
194 KOG2893|consensus 47.2 8 0.00017 33.3 0.6 27 21-47 7-43 (341)
195 COG2816 NPY1 NTP pyrophosphohy 46.9 17 0.00036 31.7 2.5 28 23-50 110-141 (279)
196 smart00709 Zpr1 Duplicated dom 46.6 9.5 0.00021 30.4 0.9 21 26-46 2-37 (160)
197 PF11781 RRN7: RNA polymerase 46.3 7.4 0.00016 23.4 0.2 23 26-48 10-35 (36)
198 PRK11586 napB nitrate reductas 46.1 14 0.00031 29.2 1.8 16 35-50 117-132 (149)
199 PF00098 zf-CCHC: Zinc knuckle 46.1 12 0.00027 18.9 1.0 8 26-33 2-9 (18)
200 PRK11032 hypothetical protein; 45.9 9.4 0.0002 30.6 0.8 28 21-48 121-152 (160)
201 PF10122 Mu-like_Com: Mu-like 45.4 5.6 0.00012 26.0 -0.5 28 24-51 4-37 (51)
202 COG1571 Predicted DNA-binding 44.8 14 0.00031 33.9 1.9 29 23-51 349-380 (421)
203 TIGR01053 LSD1 zinc finger dom 44.6 13 0.00029 21.6 1.1 23 25-47 2-28 (31)
204 TIGR00310 ZPR1_znf ZPR1 zinc f 44.5 12 0.00026 30.7 1.2 21 26-46 2-38 (192)
205 PRK12366 replication factor A; 44.4 11 0.00023 36.4 1.1 26 24-49 532-559 (637)
206 PRK00241 nudC NADH pyrophospha 44.1 17 0.00037 30.9 2.2 29 23-51 98-130 (256)
207 PF08447 PAS_3: PAS fold; Int 43.9 6.8 0.00015 26.3 -0.2 31 53-89 5-36 (91)
208 COG1996 RPC10 DNA-directed RNA 43.4 12 0.00026 24.2 0.9 21 26-46 8-32 (49)
209 smart00401 ZnF_GATA zinc finge 43.2 20 0.00044 23.0 2.0 23 24-46 3-33 (52)
210 PF09845 DUF2072: Zn-ribbon co 43.0 14 0.0003 28.7 1.3 23 24-46 1-27 (131)
211 PRK05978 hypothetical protein; 42.8 22 0.00049 28.1 2.5 37 24-60 33-77 (148)
212 PRK00423 tfb transcription ini 42.8 15 0.00034 31.9 1.8 27 23-49 10-41 (310)
213 PF14319 Zn_Tnp_IS91: Transpos 42.7 17 0.00038 27.0 1.8 27 23-49 41-71 (111)
214 PF13446 RPT: A repeated domai 42.6 93 0.002 20.2 5.4 26 55-82 6-31 (62)
215 PF14369 zf-RING_3: zinc-finge 42.4 15 0.00033 21.8 1.2 21 26-46 4-29 (35)
216 PRK00762 hypA hydrogenase nick 40.7 16 0.00034 27.8 1.3 25 24-49 70-103 (124)
217 PRK03988 translation initiatio 40.6 17 0.00038 28.3 1.5 28 24-51 102-136 (138)
218 PF03206 NifW: Nitrogen fixati 40.1 91 0.002 23.2 5.3 61 51-115 12-75 (105)
219 TIGR00340 zpr1_rel ZPR1-relate 40.1 14 0.00031 29.5 1.0 10 37-46 27-36 (163)
220 KOG3795|consensus 40.0 15 0.00032 30.2 1.1 37 22-63 13-49 (230)
221 cd01121 Sms Sms (bacterial rad 39.7 20 0.00043 32.2 2.0 21 26-46 2-22 (372)
222 COG0777 AccD Acetyl-CoA carbox 39.5 11 0.00025 32.8 0.4 28 25-52 29-61 (294)
223 PF07709 SRR: Seven Residue Re 39.4 19 0.00041 17.0 1.0 13 103-115 2-14 (14)
224 PRK07218 replication factor A; 38.8 20 0.00043 33.0 1.8 25 24-50 297-321 (423)
225 PRK09521 exosome complex RNA-b 38.7 13 0.00028 30.0 0.6 27 24-50 149-178 (189)
226 COG0333 RpmF Ribosomal protein 38.4 21 0.00046 23.7 1.5 22 24-46 27-48 (57)
227 PRK01110 rpmF 50S ribosomal pr 38.3 17 0.00037 24.3 1.1 21 24-46 27-47 (60)
228 PF03833 PolC_DP2: DNA polymer 37.9 11 0.00023 37.7 0.0 20 71-90 714-733 (900)
229 COG1594 RPB9 DNA-directed RNA 37.9 16 0.00035 27.4 1.0 27 26-52 4-36 (113)
230 PRK14102 nifW nitrogenase stab 37.9 1.3E+02 0.0027 22.5 5.7 61 52-115 13-76 (105)
231 COG3809 Uncharacterized protei 37.7 14 0.0003 26.4 0.6 23 26-48 3-31 (88)
232 PRK08579 anaerobic ribonucleos 37.7 25 0.00055 33.9 2.5 25 22-46 566-590 (625)
233 PRK11823 DNA repair protein Ra 37.5 21 0.00046 32.7 1.8 26 24-49 7-32 (446)
234 smart00154 ZnF_AN1 AN1-like Zi 37.0 27 0.00059 21.1 1.7 21 27-47 1-21 (39)
235 KOG2906|consensus 36.4 11 0.00024 28.0 -0.1 26 26-51 3-34 (105)
236 KOG2463|consensus 36.3 12 0.00026 33.5 0.0 24 23-46 241-265 (376)
237 KOG1598|consensus 36.2 22 0.00047 33.6 1.7 25 26-50 2-31 (521)
238 KOG4623|consensus 36.0 13 0.00028 35.1 0.2 25 23-47 27-56 (611)
239 TIGR01562 FdhE formate dehydro 35.3 22 0.00047 31.4 1.5 33 25-61 211-243 (305)
240 PRK00415 rps27e 30S ribosomal 35.3 21 0.00046 24.0 1.1 27 23-49 10-41 (59)
241 COG1110 Reverse gyrase [DNA re 35.2 20 0.00042 36.8 1.3 25 25-49 9-37 (1187)
242 PRK09401 reverse gyrase; Revie 35.1 19 0.00042 37.2 1.3 23 24-46 7-33 (1176)
243 PF14206 Cys_rich_CPCC: Cystei 35.0 59 0.0013 22.9 3.4 53 25-80 2-59 (78)
244 TIGR00311 aIF-2beta translatio 34.9 25 0.00053 27.3 1.6 28 24-51 97-131 (133)
245 KOG1818|consensus 34.9 31 0.00068 33.4 2.6 23 23-51 180-202 (634)
246 PTZ00073 60S ribosomal protein 34.9 26 0.00057 25.5 1.6 24 23-46 15-39 (91)
247 PF09723 Zn-ribbon_8: Zinc rib 34.7 18 0.0004 22.1 0.7 21 26-46 7-34 (42)
248 TIGR02642 phage_xxxx uncharact 33.8 37 0.0008 27.8 2.5 60 24-83 99-161 (186)
249 PF08312 cwf21: cwf21 domain; 33.6 1.1E+02 0.0025 19.2 4.2 14 145-158 11-24 (46)
250 PRK08271 anaerobic ribonucleos 33.1 34 0.00074 33.1 2.5 26 21-46 563-588 (623)
251 TIGR00416 sms DNA repair prote 33.1 27 0.00058 32.2 1.8 23 24-46 7-29 (454)
252 PF03367 zf-ZPR1: ZPR1 zinc-fi 33.0 15 0.00033 29.2 0.1 21 26-46 3-38 (161)
253 PF01194 RNA_pol_N: RNA polyme 32.9 27 0.00058 23.5 1.3 12 24-35 4-15 (60)
254 TIGR01054 rgy reverse gyrase. 32.4 26 0.00056 36.3 1.7 23 24-46 7-33 (1171)
255 PF08882 Acetone_carb_G: Aceto 32.3 29 0.00064 26.2 1.6 38 37-77 73-110 (112)
256 PF04640 PLATZ: PLATZ transcri 32.1 29 0.00063 24.2 1.4 23 23-45 48-71 (72)
257 PRK03564 formate dehydrogenase 32.0 27 0.00059 30.8 1.6 32 26-61 214-245 (309)
258 PF04810 zf-Sec23_Sec24: Sec23 31.5 18 0.00038 22.0 0.2 28 24-51 2-37 (40)
259 PF15136 UPF0449: Uncharacteri 31.4 1E+02 0.0022 22.8 4.2 35 146-182 61-95 (97)
260 COG3364 Zn-ribbon containing p 31.2 23 0.00049 26.6 0.8 23 24-46 2-28 (112)
261 COG1656 Uncharacterized conser 31.1 24 0.00052 28.5 1.0 27 24-50 97-142 (165)
262 COG5041 SKB2 Casein kinase II, 31.1 34 0.00074 28.8 1.9 63 37-135 148-210 (242)
263 smart00778 Prim_Zn_Ribbon Zinc 29.9 46 0.00099 20.1 1.9 23 24-46 3-33 (37)
264 COG1601 GCD7 Translation initi 29.8 15 0.00033 29.1 -0.3 33 24-56 105-144 (151)
265 COG1675 TFA1 Transcription ini 29.4 29 0.00062 28.3 1.2 27 23-49 112-143 (176)
266 PF08646 Rep_fac-A_C: Replicat 29.4 19 0.00041 27.5 0.1 25 24-48 18-47 (146)
267 PRK04179 rpl37e 50S ribosomal 29.3 33 0.00072 23.3 1.3 24 23-46 16-40 (62)
268 PF10005 DUF2248: Uncharacteri 29.3 34 0.00074 30.7 1.7 24 110-133 97-120 (343)
269 PRK15103 paraquat-inducible me 29.2 67 0.0014 29.4 3.7 27 23-49 220-246 (419)
270 cd02340 ZZ_NBR1_like Zinc fing 29.1 45 0.00098 20.5 1.8 20 26-45 2-21 (43)
271 PRK06386 replication factor A; 29.1 34 0.00074 30.8 1.7 20 25-46 237-256 (358)
272 TIGR03655 anti_R_Lar restricti 28.8 52 0.0011 21.0 2.1 26 25-50 2-38 (53)
273 COG1198 PriA Primosomal protei 28.7 37 0.0008 33.5 2.0 66 22-88 460-534 (730)
274 PF03884 DUF329: Domain of unk 28.7 15 0.00032 24.5 -0.5 22 25-46 3-30 (57)
275 COG5349 Uncharacterized protei 28.5 31 0.00066 26.6 1.1 40 24-63 21-68 (126)
276 PF12760 Zn_Tnp_IS1595: Transp 28.3 49 0.0011 20.4 1.9 22 25-46 19-45 (46)
277 TIGR00354 polC DNA polymerase, 28.3 33 0.00072 34.9 1.6 22 24-47 625-646 (1095)
278 COG0731 Fe-S oxidoreductases [ 28.2 81 0.0018 27.7 3.9 26 66-91 55-85 (296)
279 COG5625 Predicted transcriptio 28.1 70 0.0015 24.0 2.9 24 160-183 86-109 (113)
280 PRK13130 H/ACA RNA-protein com 27.5 57 0.0012 21.6 2.2 24 24-49 5-28 (56)
281 PRK14701 reverse gyrase; Provi 27.2 31 0.00067 37.1 1.2 22 25-46 7-32 (1638)
282 COG1499 NMD3 NMD protein affec 27.1 38 0.00083 30.5 1.7 16 37-52 42-57 (355)
283 PF11157 DUF2937: Protein of u 27.1 1.4E+02 0.003 23.8 4.8 62 67-133 55-118 (167)
284 PRK08402 replication factor A; 27.1 33 0.00071 30.8 1.2 26 24-49 212-241 (355)
285 PRK13666 hypothetical protein; 26.9 2.5E+02 0.0055 20.4 6.1 75 105-181 7-89 (92)
286 TIGR00155 pqiA_fam integral me 26.9 73 0.0016 29.0 3.5 27 23-49 214-241 (403)
287 PRK12336 translation initiatio 26.5 37 0.0008 27.9 1.4 29 24-52 98-133 (201)
288 KOG4739|consensus 26.5 88 0.0019 26.6 3.6 54 23-84 24-82 (233)
289 COG2824 PhnA Uncharacterized Z 26.4 29 0.00064 26.1 0.7 25 25-49 4-31 (112)
290 TIGR00575 dnlj DNA ligase, NAD 26.1 35 0.00076 33.1 1.3 24 23-46 391-420 (652)
291 PF13824 zf-Mss51: Zinc-finger 26.1 52 0.0011 21.8 1.7 20 27-46 2-22 (55)
292 KOG2123|consensus 25.8 23 0.0005 31.6 0.0 22 12-33 11-32 (388)
293 COG5145 RAD14 DNA excision rep 25.7 1.7E+02 0.0037 25.0 5.2 62 38-126 116-177 (292)
294 PF06556 ASFV_p27: IAP-like pr 25.6 20 0.00044 27.0 -0.3 33 26-63 95-128 (131)
295 smart00291 ZnF_ZZ Zinc-binding 25.4 76 0.0017 19.4 2.4 23 23-45 3-25 (44)
296 PF13597 NRDD: Anaerobic ribon 24.9 28 0.00062 32.9 0.5 34 24-58 491-526 (546)
297 TIGR02605 CxxC_CxxC_SSSS putat 24.7 39 0.00084 21.1 1.0 21 26-46 7-34 (52)
298 PRK11595 DNA utilization prote 24.6 34 0.00073 28.3 0.8 22 25-46 35-56 (227)
299 COG4530 Uncharacterized protei 24.6 47 0.001 25.2 1.5 32 24-59 9-43 (129)
300 PRK00810 nifW nitrogenase stab 24.6 2E+02 0.0043 21.7 4.9 66 52-122 17-87 (113)
301 TIGR02827 RNR_anaer_Bdell anae 24.5 53 0.0011 31.6 2.2 25 22-46 530-554 (586)
302 TIGR03826 YvyF flagellar opero 24.0 27 0.00059 27.2 0.1 23 23-46 80-102 (137)
303 COG2995 PqiA Uncharacterized p 24.0 61 0.0013 29.8 2.3 29 23-51 17-51 (418)
304 cd01675 RNR_III Class III ribo 23.8 52 0.0011 31.2 2.0 24 24-47 518-541 (555)
305 PF10146 zf-C4H2: Zinc finger- 23.8 15 0.00032 31.1 -1.5 22 26-47 196-217 (230)
306 PF06943 zf-LSD1: LSD1 zinc fi 23.5 53 0.0012 18.2 1.2 21 27-47 1-25 (25)
307 cd07973 Spt4 Transcription elo 23.3 70 0.0015 23.5 2.2 22 25-46 4-28 (98)
308 PF07889 DUF1664: Protein of u 23.0 2.1E+02 0.0045 22.0 4.8 76 101-178 46-123 (126)
309 PRK06330 transcript cleavage f 22.9 3.8E+02 0.0082 26.6 7.6 108 55-183 525-634 (718)
310 TIGR02487 NrdD anaerobic ribon 22.8 68 0.0015 30.6 2.5 26 21-46 521-546 (579)
311 TIGR00595 priA primosomal prot 22.8 55 0.0012 30.6 1.9 23 23-46 239-261 (505)
312 cd00202 ZnF_GATA Zinc finger D 22.8 31 0.00067 22.4 0.2 10 37-46 20-29 (54)
313 PF03461 TRCF: TRCF domain; I 22.7 1.4E+02 0.003 21.5 3.7 30 145-174 17-46 (101)
314 COG4647 AcxC Acetone carboxyla 22.7 60 0.0013 25.5 1.8 46 37-88 119-164 (165)
315 KOG1129|consensus 22.6 1.6E+02 0.0035 27.0 4.7 55 103-163 258-312 (478)
316 KOG4451|consensus 22.5 14 0.0003 31.5 -1.9 23 25-47 250-272 (286)
317 PF01927 Mut7-C: Mut7-C RNAse 22.4 42 0.0009 25.9 0.9 25 25-49 92-135 (147)
318 PF04859 DUF641: Plant protein 22.4 79 0.0017 24.5 2.4 17 71-87 22-38 (131)
319 COG1779 C4-type Zn-finger prot 22.3 33 0.00072 28.5 0.3 23 24-46 14-51 (201)
320 PF06906 DUF1272: Protein of u 22.2 39 0.00085 22.5 0.6 11 24-34 41-51 (57)
321 PRK02793 phi X174 lysis protei 22.2 99 0.0021 21.2 2.7 20 161-180 25-44 (72)
322 KOG1814|consensus 22.1 50 0.0011 30.5 1.4 40 22-64 366-417 (445)
323 COG2126 RPL37A Ribosomal prote 22.1 42 0.00091 22.6 0.7 25 23-47 15-40 (61)
324 PF05191 ADK_lid: Adenylate ki 22.0 35 0.00076 20.4 0.3 21 26-46 3-29 (36)
325 PF08209 Sgf11: Sgf11 (transcr 21.8 15 0.00033 21.7 -1.3 12 25-36 5-16 (33)
326 PRK04136 rpl40e 50S ribosomal 21.6 72 0.0016 20.5 1.7 25 23-47 13-37 (48)
327 PLN00032 DNA-directed RNA poly 21.3 43 0.00093 23.3 0.7 12 24-35 4-15 (71)
328 COG1405 SUA7 Transcription ini 21.3 56 0.0012 28.4 1.6 25 25-49 2-31 (285)
329 PF06750 DiS_P_DiS: Bacterial 21.0 96 0.0021 22.2 2.5 27 23-49 32-69 (92)
330 KOG2997|consensus 20.9 86 0.0019 28.2 2.6 47 106-152 66-123 (366)
331 PRK14873 primosome assembly pr 20.7 59 0.0013 31.6 1.7 27 23-51 409-437 (665)
332 COG1379 PHP family phosphoeste 20.6 93 0.002 28.1 2.8 37 52-88 296-338 (403)
333 PF04032 Rpr2: RNAse P Rpr2/Rp 20.6 53 0.0011 22.4 1.0 17 37-53 45-61 (85)
334 PF03119 DNA_ligase_ZBD: NAD-d 20.6 26 0.00056 19.7 -0.5 8 27-34 2-9 (28)
335 PRK00448 polC DNA polymerase I 20.1 67 0.0015 34.2 2.1 56 14-69 894-969 (1437)
No 1
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=100.00 E-value=1e-37 Score=251.10 Aligned_cols=129 Identities=28% Similarity=0.509 Sum_probs=120.0
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhc-CCCc
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQ-NISI 132 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~-g~~~ 132 (183)
.|||++||||++|+||+..|+++|++||+++|||+|++.++.++++|.++|+.||+||+||+||++||.|+|.|+ |+++
T Consensus 2 ~nyF~lf~lp~~F~iD~~~L~~~y~~Lq~~~HPD~f~~~~~~eq~~a~~~ss~iN~AY~tLkdPl~RA~YLL~L~~g~~~ 81 (173)
T PRK01773 2 NNPFALFDLPVDFQLDNALLSERYLALQKSLHPDNFANSSAQEQRLAMQKSAEVNDALQILKDPILRAEAIIALNTGEQQ 81 (173)
T ss_pred CChHHhcCCCCCCCCCHHHHHHHHHHHHHHhCcCcccCCCHHHHHHHHHHHHHHHHHHHHHCChHHHHHHHHHhccCCCC
Confidence 599999999999999999999999999999999999999999999999999999999999999999999999999 8775
Q ss_pred c-ccCccCCHHHHHHHHHHhHHHhcCC---CHHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 133 E-EDSKGTDQKLLMEILMLNEELDEAS---SEEDLENLQTSIRATIEELTKKVN 182 (183)
Q Consensus 133 ~-~~~~~~d~~fLme~me~~E~le~a~---~~~~l~~l~~~~~~~i~~~~~~l~ 182 (183)
. ++.+..||+|||++|||||+|+++. +.++|..|..+|+++++++.++|.
T Consensus 82 ~~e~~~~~d~~fLme~ME~rE~lee~~~~~d~~~L~~l~~~v~~~~~~~~~~l~ 135 (173)
T PRK01773 82 NLEEKSTQDMAFLMQQMEWREQLEEIEQQQDEDALTAFSKEIKQEQQAILTELS 135 (173)
T ss_pred CcccccCCCHHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4 3467889999999999999999863 578899999999999999988764
No 2
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=100.00 E-value=2.9e-37 Score=249.07 Aligned_cols=131 Identities=23% Similarity=0.529 Sum_probs=122.8
Q ss_pred CCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhcCCC
Q psy8513 52 PQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQNIS 131 (183)
Q Consensus 52 ~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~g~~ 131 (183)
...|||++||||++|++|..+|+++||+||+++|||++++.++.++..+.++|+.||+||+||+||.+|+.|++.++|++
T Consensus 4 ~~~dyf~llglp~~f~~d~~~L~~~yr~lq~~~HPD~~~~~~~~e~~~a~~~s~~iN~AY~tL~~p~~Ra~Yll~l~G~~ 83 (176)
T PRK03578 4 LKDDHFSLFGLPARFALDEAALDAAYRTVQAQVHPDRFAAAGDAEKRVAMQWATRANEAYQTLRDPLKRARYLLHLRGVD 83 (176)
T ss_pred CCCCHHHHcCCCCCCCCCHHHHHHHHHHHHHHHCcCCCCCCCHHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHhcCCC
Confidence 34799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccc-CccCCHHHHHHHHHHhHHHhcCC---CHHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 132 IEED-SKGTDQKLLMEILMLNEELDEAS---SEEDLENLQTSIRATIEELTKKVN 182 (183)
Q Consensus 132 ~~~~-~~~~d~~fLme~me~~E~le~a~---~~~~l~~l~~~~~~~i~~~~~~l~ 182 (183)
+..+ .+.+||+|||++|||||+|+++. +.++|..|..+++++++++.++|.
T Consensus 84 ~~~e~~~~~d~~fLme~mE~rE~lee~~~~~d~~~L~~l~~e~~~~~~~~~~~l~ 138 (176)
T PRK03578 84 VQAENNTAMPPAFLMQQMEWREAIEDARAARDVDALDALLAELRDERRERYAELG 138 (176)
T ss_pred CccccCCCCCHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8654 67889999999999999999986 678999999999999999988764
No 3
>PRK00294 hscB co-chaperone HscB; Provisional
Probab=100.00 E-value=3.5e-36 Score=242.17 Aligned_cols=129 Identities=26% Similarity=0.513 Sum_probs=114.5
Q ss_pred CCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhcCCC
Q psy8513 52 PQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQNIS 131 (183)
Q Consensus 52 ~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~g~~ 131 (183)
...|||++||||++|+||..+|+++||+||+++|||++++.++.++..+.++|+.||+||+||+||.+|+.|+|.++|++
T Consensus 2 ~~~~~F~l~~l~~~f~id~~~L~~~Yr~Lq~~~HPDk~~~~~~~e~~~a~~~s~~IN~AY~~L~~p~~Ra~YlL~l~g~~ 81 (173)
T PRK00294 2 GTPCHFALFDLQPSFRLDLDQLATRYRELAREVHPDRFADAPEREQRLALERSASLNEAYQTLKSPPRRARYLLALSGHE 81 (173)
T ss_pred CCCChhhhcCcCCCCCCCHHHHHHHHHHHHHHHCcCCCCCCcHHHHHHHHHHHHHHHHHHHHhCChhhhHHHHHHhcCCC
Confidence 35799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCccCCHHHHHHHHHHhHHHhcCCCHHHHHHHHHHHHHHHHHHHHHh
Q psy8513 132 IEEDSKGTDQKLLMEILMLNEELDEASSEEDLENLQTSIRATIEELTKKV 181 (183)
Q Consensus 132 ~~~~~~~~d~~fLme~me~~E~le~a~~~~~l~~l~~~~~~~i~~~~~~l 181 (183)
+.++.+..|++|||++|||||+|+++.+.+++.+|.. +..+|+.+.+++
T Consensus 82 ~~~~~~~~d~~fLme~me~rE~le~~~~~~d~~~l~~-~~~~i~~~~~~l 130 (173)
T PRK00294 82 VPLEVTVHDPEFLLQQMQLREELEELQDEADLAGVAT-FKRRLKAAQDEL 130 (173)
T ss_pred CCcccCCCCHHHHHHHHHHHHHHHhhcccccHHHHHH-HHHHHHHHHHHH
Confidence 8766567799999999999999999987766666544 555555555443
No 4
>PRK05014 hscB co-chaperone HscB; Provisional
Probab=100.00 E-value=5.5e-36 Score=240.62 Aligned_cols=129 Identities=30% Similarity=0.573 Sum_probs=119.1
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhcCCCcc
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQNISIE 133 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~g~~~~ 133 (183)
.|||++||||++|++|..+|+++||+||+++|||++++.++.++..+.++|+.||+||+||+||.+|+.|++.++|+++.
T Consensus 1 ~~yf~llgl~~~~~~d~~~L~~~yr~l~~~~HPDk~~~~~~~~~~~a~~~s~~iN~AY~~L~dp~~Ra~Yll~l~g~~~~ 80 (171)
T PRK05014 1 MDYFTLFGLPARYDIDTQLLASRYQELQRQFHPDKFANASERERLLAVQQAATINDAYQTLKHPLKRAEYLLSLHGFDLA 80 (171)
T ss_pred CCHHHHCCCCCCCCCCHHHHHHHHHHHHHHhCcCCCCCCcHHHHHHHHHHHHHHHHHHHHHCChhHHHHHHHHhcCCccc
Confidence 48999999999999999999999999999999999999888899999999999999999999999999999999999987
Q ss_pred cc-CccCCHHHHHHHHHHhHHHhcCCC----HHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 134 ED-SKGTDQKLLMEILMLNEELDEASS----EEDLENLQTSIRATIEELTKKVN 182 (183)
Q Consensus 134 ~~-~~~~d~~fLme~me~~E~le~a~~----~~~l~~l~~~~~~~i~~~~~~l~ 182 (183)
.+ .+..||+|||++|||||+|+++.+ .+.|.+|..+|+++++++.++|.
T Consensus 81 ~~~~~~~d~efLme~me~rE~le~~~~~~d~~~~l~~l~~~~~~~~~~~~~~l~ 134 (171)
T PRK05014 81 HEQHTVRDTAFLMEQMELREELEDIEQSKDPEAALESFIKRVKKMFKTRLQQMV 134 (171)
T ss_pred cccCCcCCHHHHHHHHHHHHHHHhhccccCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55 567899999999999999999863 34599999999999999888764
No 5
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=100.00 E-value=1.6e-35 Score=236.92 Aligned_cols=127 Identities=26% Similarity=0.375 Sum_probs=117.6
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhcCCCcc
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQNISIE 133 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~g~~~~ 133 (183)
.|||++||||++|++|..+|+++||+||+++|||++++ +.++..+.++|+.||+||+||+||.+|+.|+|.++|+++.
T Consensus 2 ~~yf~llgl~~~f~id~~~L~~aYr~lq~~~HPDk~~~--~~~k~~~~~~s~~in~AY~~L~dp~~Ra~YlL~l~g~~~~ 79 (166)
T PRK01356 2 QNYFQLLGLPQEYNIDLKILEKQYFAMQVKYHPDKAKT--LQEKEQNLIIASELNNAYSTLKDALKRAEYMLLLQNINLN 79 (166)
T ss_pred CCHHHHcCCCCCCCCCHHHHHHHHHHHHHHHCcCCCCC--HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHccCCCCC
Confidence 59999999999999999999999999999999999974 5567777889999999999999999999999999999987
Q ss_pred cc--CccCCHHHHHHHHHHhHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 134 ED--SKGTDQKLLMEILMLNEELDEASSEEDLENLQTSIRATIEELTKKVN 182 (183)
Q Consensus 134 ~~--~~~~d~~fLme~me~~E~le~a~~~~~l~~l~~~~~~~i~~~~~~l~ 182 (183)
.+ .+.+||+|||++||+||+|+++.+.++|++|..+++.+++++..+|.
T Consensus 80 ~~~~~~~~d~~fLme~me~rE~le~~~~~~~L~~l~~~~~~~~~~~~~~l~ 130 (166)
T PRK01356 80 DEKTRSLLSPLELSIFWDEMERIENTILFSDLEKIKNKYELMYKNEIDSLK 130 (166)
T ss_pred CccccccCCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 64 36789999999999999999999999999999999999999988764
No 6
>TIGR00714 hscB Fe-S protein assembly co-chaperone HscB. This model describes the small subunit, Hsc20 (20K heat shock cognate protein) of a pair of proteins Hsc66-Hsc20, related to the DnaK-DnaJ heat shock proteins, which also serve as molecular chaperones. Hsc20, unlike DnaJ, appears not to have chaperone activity on its own, but to act solely as a regulatory subunit for Hsc66 (i.e., to be a co-chaperone). The gene for Hsc20 in E. coli, hscB, is not induced by heat shock.
Probab=99.97 E-value=5.9e-31 Score=208.84 Aligned_cols=117 Identities=35% Similarity=0.558 Sum_probs=108.3
Q ss_pred CCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhcCCCcccc-CccCCHHHH
Q psy8513 66 YLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQNISIEED-SKGTDQKLL 144 (183)
Q Consensus 66 ~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~g~~~~~~-~~~~d~~fL 144 (183)
|+||..+|+++||+||+++|||++++.++.++..+.++|+.||+||+||+||.+|+.|+|.|+|+++..+ .+..|++||
T Consensus 1 f~iD~~~L~~~yr~lq~~~HPD~~~~~~~~~~~~a~~~s~~iN~AY~~L~~p~~Ra~ylL~l~g~~~~~e~~~~~d~~fL 80 (157)
T TIGR00714 1 YQLDTQALSLRYQDLQRQYHPDKFASGSAQEQLAAVQQSTTLNQAYQTLKDPLMRAEYMLSLHGIDLASEQHSVRDTAFL 80 (157)
T ss_pred CCCCHHHHHHHHHHHHHHHCcCCCCCCChhhhHHHHHHHHHHHHHHHHhCChhhhHHHHHHhcCCCCCcccCCCCCHHHH
Confidence 6899999999999999999999999988889999999999999999999999999999999999998765 567899999
Q ss_pred HHHHHHhHHHhcC---CCHHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 145 MEILMLNEELDEA---SSEEDLENLQTSIRATIEELTKKVN 182 (183)
Q Consensus 145 me~me~~E~le~a---~~~~~l~~l~~~~~~~i~~~~~~l~ 182 (183)
|++|||||+|+++ .+.++|+.|..+++++++++.+.|.
T Consensus 81 me~Me~rE~lee~~~~~d~~~L~~l~~~~~~~~~~~~~~l~ 121 (157)
T TIGR00714 81 MEQLELREELDEIEQAKDEARLESFIKRVKKMFQTRHQLLV 121 (157)
T ss_pred HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999998765 4678899999999999999988764
No 7
>KOG3192|consensus
Probab=99.96 E-value=7.2e-29 Score=194.47 Aligned_cols=134 Identities=28% Similarity=0.518 Sum_probs=124.9
Q ss_pred cCCCCCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHh
Q psy8513 48 QKPDPQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSL 127 (183)
Q Consensus 48 q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l 127 (183)
++.+...+||.+||....+.+|++.+...|...++++|||+.......+...|.+.|+.||+||.||+||++||.|++.+
T Consensus 2 ~~~~~~~~ff~~Fg~e~~~~~~p~~l~~~~~~~skkL~~d~~~~~~~~~~d~a~eqSa~lnkAY~TLk~pL~RA~Yilkl 81 (168)
T KOG3192|consen 2 LKMGSPSRFFDIFGMELSFKIDPDKLKEKYTDISKKLHPDRPGLSFAGDTDQASEQSAELNKAYDTLKDPLARARYLLKL 81 (168)
T ss_pred cccchHHHHHHHhccccCCCCCcchhhHHHHHHHHhhCcccccccccccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 45566789999999999999999999999999999999999888877788899999999999999999999999999999
Q ss_pred cCCCccccCccCCHHHHHHHHHHhHHHhcCCCHHHHHHHHHHHHHHHHHHHHHh
Q psy8513 128 QNISIEEDSKGTDQKLLMEILMLNEELDEASSEEDLENLQTSIRATIEELTKKV 181 (183)
Q Consensus 128 ~g~~~~~~~~~~d~~fLme~me~~E~le~a~~~~~l~~l~~~~~~~i~~~~~~l 181 (183)
.|+...++....||+|||+|||++|+|.++++.++|..+.++|+++|+++..+|
T Consensus 82 ~g~e~~sne~stDpe~Lmevle~~E~IS~~~De~~l~~lk~q~q~ri~q~~~ql 135 (168)
T KOG3192|consen 82 KGQEQTSNELSTDPEFLMEVLEYHEAISEMDDEEDLKQLKSQNQERIAQCKQQL 135 (168)
T ss_pred hCCCCchhhhccCHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHHHHH
Confidence 999887765666999999999999999999999999999999999999999886
No 8
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]
Probab=99.76 E-value=9.3e-19 Score=154.84 Aligned_cols=66 Identities=24% Similarity=0.492 Sum_probs=59.9
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..|||++|||+++++. ++||+|||+|+++||||++... +.|+++|+.||+||++|+||.+|+.|+.
T Consensus 3 ~~dyYeiLGV~k~As~--~EIKkAYRkLA~kyHPD~n~g~-----~~AeeKFKEI~eAYEVLsD~eKRa~YD~ 68 (371)
T COG0484 3 KRDYYEILGVSKDASE--EEIKKAYRKLAKKYHPDRNPGD-----KEAEEKFKEINEAYEVLSDPEKRAAYDQ 68 (371)
T ss_pred ccchhhhcCCCCCCCH--HHHHHHHHHHHHHhCCCCCCCC-----HHHHHHHHHHHHHHHHhCCHHHHHHhhc
Confidence 4699999999999775 9999999999999999999863 2467999999999999999999999974
No 9
>KOG0713|consensus
Probab=99.72 E-value=8.2e-18 Score=146.24 Aligned_cols=72 Identities=21% Similarity=0.367 Sum_probs=64.6
Q ss_pred cCCCCCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHH
Q psy8513 48 QKPDPQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLS 126 (183)
Q Consensus 48 q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~ 126 (183)
+++...+|||+||||+.+++. .+||+|||+|++++||||+++.+. |.+.|+.||.||+||+||.+|..|+-.
T Consensus 10 ~~v~~~rDfYelLgV~k~Asd--~eIKkAYRKLALk~HPDkNpddp~-----A~e~F~~in~AYEVLsDpekRk~YD~~ 81 (336)
T KOG0713|consen 10 EAVLAGRDFYELLGVPKNASD--QEIKKAYRKLALKYHPDKNPDDPN-----ANEKFKEINAAYEVLSDPEKRKHYDTY 81 (336)
T ss_pred hhhhcCCCHHHHhCCCCCCCH--HHHHHHHHHHHHHhCCCCCCCCHH-----HHHHHHHHHHHHHHhcCHHHHHHHHhh
Confidence 345567899999999999886 999999999999999999988754 578999999999999999999999864
No 10
>PF00226 DnaJ: DnaJ domain; InterPro: IPR001623 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Such a structure is shown in the following schematic representation: +------------+-+-------+-----+-----------+--------------------------------+ | N-terminal | | Gly-R | | CXXCXGXG | C-terminal | +------------+-+-------+-----+-----------+--------------------------------+ It is thought that the 'J' domain of DnaJ mediates the interaction with the dnaK protein and consists of four helices, the second of which has a charged surface that includes at least one pair of basic residues that are essential for interaction with the ATPase domain of Hsp70. The J- and CRR-domains are found in many prokaryotic and eukaryotic proteins [], either together or separately. In yeast, J-domains have been classified into 3 groups; the class III proteins are functionally distinct and do not appear to act as molecular chaperones []. ; GO: 0031072 heat shock protein binding; PDB: 2GUZ_C 2L6L_A 1HDJ_A 2EJ7_A 1FPO_C 2CUG_A 2QSA_A 2OCH_A 3BVO_B 3APQ_A ....
Probab=99.71 E-value=1.3e-17 Score=112.48 Aligned_cols=64 Identities=31% Similarity=0.519 Sum_probs=58.2
Q ss_pred ChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHH
Q psy8513 55 NYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYL 124 (183)
Q Consensus 55 ~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yl 124 (183)
|||++|||+++.+ .++|+++|+++++++|||++++.+ ..+.+.+..|++||++|+||.+|+.|+
T Consensus 1 ~~y~iLgl~~~~~--~~eik~~y~~l~~~~HPD~~~~~~----~~~~~~~~~i~~Ay~~L~~~~~R~~YD 64 (64)
T PF00226_consen 1 NPYEILGLPPDAS--DEEIKKAYRRLSKQYHPDKNSGDE----AEAEEKFARINEAYEILSDPERRRRYD 64 (64)
T ss_dssp HHHHHCTSTTTSS--HHHHHHHHHHHHHHTSTTTGTSTH----HHHHHHHHHHHHHHHHHHSHHHHHHHH
T ss_pred ChHHHCCCCCCCC--HHHHHHHHHhhhhccccccchhhh----hhhhHHHHHHHHHHHHhCCHHHHHhcC
Confidence 6999999999755 599999999999999999998764 567789999999999999999999995
No 11
>COG1076 DjlA DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.71 E-value=9.8e-18 Score=134.86 Aligned_cols=128 Identities=30% Similarity=0.478 Sum_probs=114.9
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhc-CCCc
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQ-NISI 132 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~-g~~~ 132 (183)
.+||.+||+++.|.+|.+.++..|+.+++.+|||++...+..++..+.+.+..+|.||.||+||+.|+.|++.+. |...
T Consensus 1 ~~~~~~~~~~~~f~~~~~~l~~~~~~~~~~~~~dr~~~~~~~~~~~~l~~~~~~~~a~~tLk~~l~ra~~~lal~~g~~~ 80 (174)
T COG1076 1 SDGFVLFGLPRAFQIDLDALKLQYRELQRAYHPDRFGKASEAEQRKALQQSAEVNPAYQTLKDPLLRAEYLLALADGLDH 80 (174)
T ss_pred CCcccccccHHHHHHHHhHhhhhHHHHHHhhCcccccccchHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhcccccc
Confidence 379999999999999999999999999999999999999999999999999999999999999999999999998 7655
Q ss_pred ccc-CccCCHHHHHHHHHHhHHHhcCCC----HHHHHHHHHHHHHHHHHHHHHh
Q psy8513 133 EED-SKGTDQKLLMEILMLNEELDEASS----EEDLENLQTSIRATIEELTKKV 181 (183)
Q Consensus 133 ~~~-~~~~d~~fLme~me~~E~le~a~~----~~~l~~l~~~~~~~i~~~~~~l 181 (183)
..+ .+..+..|+|++|+++|+++.+.. .+.+..+...++..++.+.+.+
T Consensus 81 ~~e~~~l~~~~~l~~~~~~~~e~~~~~~~~~~~~~l~~l~~~~~~~~~~i~~~~ 134 (174)
T COG1076 81 AKERQTLRDIAFLLEQSELREELEEAREQLDREDALKVLGVEIKADQDAIKKAY 134 (174)
T ss_pred hhHHHHHHHHHHHHHhhHHHHHHHHHHHcccchhHHHHhcCchhhhHHHHHHHH
Confidence 433 678889999999999999998752 4668888888888888887765
No 12
>PRK14288 chaperone protein DnaJ; Provisional
Probab=99.65 E-value=2e-16 Score=140.63 Aligned_cols=65 Identities=25% Similarity=0.477 Sum_probs=58.3
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++||++||+|+++||||++.... .|.+.|+.||+||++|+||.+|+.|+.
T Consensus 3 ~dyY~vLgv~~~As~--~eIkkayrkla~k~HPD~~~~~~-----~a~~~f~~i~~AYevLsd~~kR~~YD~ 67 (369)
T PRK14288 3 LSYYEILEVEKHSNQ--ETIKKSYRKLALKYHPDRNAGDK-----EAEEKFKLINEAYGVLSDEKKRALYDR 67 (369)
T ss_pred CChHHHcCCCCCCCH--HHHHHHHHHHHHHHCCCCCCCcc-----HHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence 699999999999765 99999999999999999986432 256899999999999999999999986
No 13
>KOG0718|consensus
Probab=99.65 E-value=3e-16 Score=141.18 Aligned_cols=69 Identities=22% Similarity=0.487 Sum_probs=63.8
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..+||.+||||+.++. ++|+++||++.+.|||||+.. +.+++.|++.|..|..||++|+||.+|+.|+.
T Consensus 8 e~e~Ya~LNlpkdAt~--eeI~~AYrr~~~lfHPDkh~d--pd~K~~AE~~F~~i~~AyEVLsDp~kRaIYD~ 76 (546)
T KOG0718|consen 8 EIELYALLNLPKDATD--EEIKKAYRRLSRLFHPDKHTD--PDQKKAAEEKFQRIQRAYEVLSDPQKRAIYDN 76 (546)
T ss_pred hhhHHHHhCCCcccCH--HHHHHHHHHHHHhcCCcccCC--hhHHHHHHHHHHHHHHHHHHhcChHHHHHHHH
Confidence 3599999999999886 999999999999999999975 46788899999999999999999999999986
No 14
>PRK14296 chaperone protein DnaJ; Provisional
Probab=99.62 E-value=6e-16 Score=137.70 Aligned_cols=65 Identities=22% Similarity=0.330 Sum_probs=57.9
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..|||++|||+++++. ++||++||+|+++||||++... .|.++|+.||+||++|+||.+|+.|+.
T Consensus 3 ~~dyY~~Lgv~~~a~~--~eik~ayrkla~~~HPD~n~~~------~a~~~F~~i~~AyevLsD~~KR~~YD~ 67 (372)
T PRK14296 3 KKDYYEVLGVSKTASE--QEIRQAYRKLAKQYHPDLNKSP------DAHDKMVEINEAADVLLDKDKRKQYDQ 67 (372)
T ss_pred CCCHHHhcCCCCCCCH--HHHHHHHHHHHHHHCcCCCCCc------hHHHHHHHHHHHHHHhcCHHHhhhhhh
Confidence 3699999999998664 9999999999999999997532 256899999999999999999999986
No 15
>PRK14286 chaperone protein DnaJ; Provisional
Probab=99.61 E-value=8.5e-16 Score=136.68 Aligned_cols=65 Identities=26% Similarity=0.436 Sum_probs=58.5
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|+++||||++.... .|.+.|+.|++||++|+||.+|+.|+.
T Consensus 4 ~d~y~~Lgv~~~a~~--~eik~ayr~la~~~HPD~~~~~~-----~a~~~f~~i~~Ay~vL~d~~kR~~YD~ 68 (372)
T PRK14286 4 RSYYDILGVSKSAND--EEIKSAYRKLAIKYHPDKNKGNK-----ESEEKFKEATEAYEILRDPKKRQAYDQ 68 (372)
T ss_pred CCHHHhcCCCCCCCH--HHHHHHHHHHHHHHCcCCCCCch-----HHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence 599999999999876 89999999999999999986432 256899999999999999999999986
No 16
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=99.61 E-value=1.7e-15 Score=100.52 Aligned_cols=60 Identities=25% Similarity=0.516 Sum_probs=53.0
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchh
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLK 119 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~ 119 (183)
.|||++|||+++ .+..+|+++|+++++.+|||++++. ...+.+.|..|++||++|+||.+
T Consensus 1 ~~~y~vLgl~~~--~~~~~ik~ay~~l~~~~HPD~~~~~----~~~~~~~~~~l~~Ay~~L~~~~~ 60 (60)
T smart00271 1 TDYYEILGVPRD--ASLDEIKKAYRKLALKYHPDKNPGD----KEEAEEKFKEINEAYEVLSDPEK 60 (60)
T ss_pred CCHHHHcCCCCC--CCHHHHHHHHHHHHHHHCcCCCCCc----hHHHHHHHHHHHHHHHHHcCCCC
Confidence 489999999998 4569999999999999999999764 45677899999999999999853
No 17
>PRK14282 chaperone protein DnaJ; Provisional
Probab=99.61 E-value=1.1e-15 Score=135.63 Aligned_cols=67 Identities=22% Similarity=0.518 Sum_probs=59.0
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..|||++|||+++++. ++|+++||+|+++||||++... +..|.+.|+.||+||++|+||.+|+.|+.
T Consensus 3 ~~d~y~~lgv~~~a~~--~eik~ayr~la~~~HPD~~~~~----~~~a~~~f~~i~~Ay~vL~d~~kR~~YD~ 69 (369)
T PRK14282 3 KKDYYEILGVSRNATQ--EEIKRAYKRLVKEWHPDRHPEN----RKEAEQKFKEIQEAYEVLSDPQKRAMYDR 69 (369)
T ss_pred CCChHHhcCCCCCCCH--HHHHHHHHHHHHHHCCCCCccc----hhHHHHHHHHHHHHHHHhcChhhHHHHhh
Confidence 3699999999998665 9999999999999999998542 22367899999999999999999999986
No 18
>PRK14279 chaperone protein DnaJ; Provisional
Probab=99.60 E-value=1.3e-15 Score=136.34 Aligned_cols=67 Identities=21% Similarity=0.400 Sum_probs=59.3
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLS 126 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~ 126 (183)
..|||++|||+++++. ++||++||+|+++||||++.... .|.+.|+.|++||++|+||.+|+.|+..
T Consensus 8 ~~Dyy~~Lgv~~~a~~--~eik~ayr~la~~~HPD~~~~~~-----~a~~~f~~i~~Ay~vLsD~~KR~~YD~~ 74 (392)
T PRK14279 8 EKDFYKELGVSSDASA--EEIKKAYRKLARELHPDANPGDP-----AAEERFKAVSEAHDVLSDPAKRKEYDET 74 (392)
T ss_pred ccCHHHhcCCCCCCCH--HHHHHHHHHHHHHHCcCCCCCCh-----HHHHHHHHHHHHHHHhcchhhhhHHHHh
Confidence 3699999999998775 99999999999999999986432 3567999999999999999999999863
No 19
>PRK14295 chaperone protein DnaJ; Provisional
Probab=99.59 E-value=1.9e-15 Score=135.20 Aligned_cols=65 Identities=25% Similarity=0.422 Sum_probs=58.0
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|+++||||++.... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 9 ~d~y~~Lgv~~~a~~--~eik~ayr~la~~~HPD~~~~~~-----~a~~~f~~i~~Ay~vL~d~~~r~~yD~ 73 (389)
T PRK14295 9 KDYYKVLGVPKDATE--AEIKKAYRKLAREYHPDANKGDA-----KAEERFKEISEAYDVLSDEKKRKEYDE 73 (389)
T ss_pred cCHHHhcCCCCCCCH--HHHHHHHHHHHHHHCCCcCCCch-----hHHHHHHHHHHHHHHHCchhhHHHHHH
Confidence 599999999998665 99999999999999999986432 356899999999999999999999995
No 20
>PRK14297 chaperone protein DnaJ; Provisional
Probab=99.59 E-value=1.5e-15 Score=135.27 Aligned_cols=65 Identities=28% Similarity=0.493 Sum_probs=58.4
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|+++||||++.... .|++.|+.||+||++|+||.+|+.|+.
T Consensus 4 ~d~y~~Lgv~~~a~~--~~ik~ayr~la~~~HPD~~~~~~-----~a~~~f~~i~~Ay~vL~d~~~r~~yD~ 68 (380)
T PRK14297 4 KDYYEVLGLEKGASD--DEIKKAFRKLAIKYHPDKNKGNK-----EAEEKFKEINEAYQVLSDPQKKAQYDQ 68 (380)
T ss_pred CChHHhhCCCCCCCH--HHHHHHHHHHHHHHCcCCCCCcH-----HHHHHHHHHHHHHHHhcCHhhhCchhh
Confidence 699999999999775 89999999999999999986532 356899999999999999999999986
No 21
>PRK14287 chaperone protein DnaJ; Provisional
Probab=99.58 E-value=2.5e-15 Score=133.64 Aligned_cols=64 Identities=23% Similarity=0.439 Sum_probs=57.5
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|+++||||++... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 4 ~d~y~~Lgv~~~a~~--~eik~ayr~la~~~HpD~~~~~------~~~~~f~~i~~Ay~~L~d~~kR~~YD~ 67 (371)
T PRK14287 4 RDYYEVLGVDRNASV--DEVKKAYRKLARKYHPDVNKAP------DAEDKFKEVKEAYDTLSDPQKKAHYDQ 67 (371)
T ss_pred CCHHHhcCCCCCCCH--HHHHHHHHHHHHHHCcCCCCCh------hHHHHHHHHHHHHHHhCcHhHHHHHHh
Confidence 599999999999876 8999999999999999997531 246789999999999999999999986
No 22
>PRK14301 chaperone protein DnaJ; Provisional
Probab=99.58 E-value=2.1e-15 Score=134.18 Aligned_cols=65 Identities=25% Similarity=0.413 Sum_probs=58.0
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|+++||||+++... .+.+.|+.|++||++|+||.+|+.|+.
T Consensus 4 ~~~y~~Lgv~~~a~~--~~ik~ayr~la~~~HPD~~~~~~-----~a~~~f~~i~~Ay~vL~d~~kr~~yD~ 68 (373)
T PRK14301 4 RDYYEVLGVSRDASE--DEIKKAYRKLALQYHPDRNPDNP-----EAEQKFKEAAEAYEVLRDAEKRARYDR 68 (373)
T ss_pred CChHHhcCCCCCCCH--HHHHHHHHHHHHHhCCCcCCCCh-----HHHHHHHHHHHHHHHhcchhhhhhhhh
Confidence 699999999998664 89999999999999999986542 256789999999999999999999986
No 23
>KOG0716|consensus
Probab=99.58 E-value=4.5e-15 Score=125.94 Aligned_cols=67 Identities=25% Similarity=0.454 Sum_probs=60.0
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLS 126 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~ 126 (183)
..++|++||++++++- ++||++||+|++++|||+.+..++ +.++|..||+||++|+||.+|-.|+..
T Consensus 30 ~~~LYdVLgl~k~at~--d~IKKaYR~L~~k~HPD~~gd~P~-----~~dkf~eIN~Ay~ILsD~~kR~~YD~~ 96 (279)
T KOG0716|consen 30 RLDLYDVLGLPKTATK--DEIKKAYRKLALKYHPDKNGDNPE-----ATDKFKEINTAYAILSDPTKRNVYDEY 96 (279)
T ss_pred hhHHHHHhCCCcccch--HHHHHHHHHHHHHhCCCcCCCCch-----hHHHHHHHHHHHHHhcChhhhhhHHHh
Confidence 6799999999997654 789999999999999999987643 468999999999999999999999864
No 24
>PRK14294 chaperone protein DnaJ; Provisional
Probab=99.57 E-value=3.4e-15 Score=132.52 Aligned_cols=66 Identities=24% Similarity=0.534 Sum_probs=58.2
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..|||++|||+++++ .++|+++||+|+++||||++.... .+.+.|+.|++||++|+||.+|+.|+.
T Consensus 3 ~~d~y~~lgv~~~a~--~~eik~ayr~la~~~HPD~~~~~~-----~~~~~f~~~~~Ay~vL~d~~~r~~yD~ 68 (366)
T PRK14294 3 KRDYYEILGVTRDAS--EEEIKKSYRKLAMKYHPDRNPGDK-----EAEELFKEAAEAYEVLSDPKKRGIYDQ 68 (366)
T ss_pred CCChHHHhCCCCCCC--HHHHHHHHHHHHHHHCCCCCCCch-----HHHHHHHHHHHHHHHhccHHHHHHHHh
Confidence 369999999999765 599999999999999999986532 256789999999999999999999986
No 25
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=99.57 E-value=6.7e-15 Score=95.87 Aligned_cols=55 Identities=24% Similarity=0.543 Sum_probs=49.2
Q ss_pred ChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy8513 55 NYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQN 116 (183)
Q Consensus 55 ~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~d 116 (183)
|||++|||+++. +.++|+++|++|++++|||+.++. ..+.+.+..|++||++|+|
T Consensus 1 ~~y~vLgl~~~~--~~~~ik~~y~~l~~~~HPD~~~~~-----~~~~~~~~~l~~Ay~~L~d 55 (55)
T cd06257 1 DYYDILGVPPDA--SDEEIKKAYRKLALKYHPDKNPDD-----PEAEEKFKEINEAYEVLSD 55 (55)
T ss_pred ChHHHcCCCCCC--CHHHHHHHHHHHHHHHCcCCCCCc-----HHHHHHHHHHHHHHHHhcC
Confidence 799999999764 569999999999999999999764 4567899999999999986
No 26
>PRK14277 chaperone protein DnaJ; Provisional
Probab=99.57 E-value=3.8e-15 Score=133.10 Aligned_cols=65 Identities=26% Similarity=0.507 Sum_probs=58.1
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++ .++|+++||+|+++||||++.... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 5 ~d~y~~Lgv~~~a~--~~eik~ayr~la~~~HPD~~~~~~-----~a~~~f~~i~~Ay~vL~d~~kr~~yD~ 69 (386)
T PRK14277 5 KDYYEILGVDRNAT--EEEIKKAYRRLAKKYHPDLNPGDK-----EAEQKFKEINEAYEILSDPQKRAQYDQ 69 (386)
T ss_pred CCHHHhcCCCCCCC--HHHHHHHHHHHHHHHCCCcCCCch-----HHHHHHHHHHHHHHHhCCHHHHHHHHh
Confidence 69999999999866 499999999999999999986432 256789999999999999999999986
No 27
>PRK14298 chaperone protein DnaJ; Provisional
Probab=99.57 E-value=3.4e-15 Score=133.09 Aligned_cols=64 Identities=25% Similarity=0.479 Sum_probs=57.1
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|+++||||+++.. .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 5 ~d~y~iLgv~~~a~~--~eik~ayr~la~~~HPD~~~~~------~~~~~f~~i~~Ay~vL~d~~kR~~YD~ 68 (377)
T PRK14298 5 RDYYEILGLSKDASV--EDIKKAYRKLAMKYHPDKNKEP------DAEEKFKEISEAYAVLSDAEKRAQYDR 68 (377)
T ss_pred CCHHHhhCCCCCCCH--HHHHHHHHHHHHHhCccccCCh------hHHHHHHHHHHHHHHhcchHhhhhhhh
Confidence 599999999998664 8999999999999999998532 245789999999999999999999985
No 28
>PRK14276 chaperone protein DnaJ; Provisional
Probab=99.56 E-value=4.4e-15 Score=132.42 Aligned_cols=64 Identities=23% Similarity=0.412 Sum_probs=57.4
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|+++||||++... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 4 ~d~y~~Lgv~~~a~~--~eik~ayr~la~~~HpD~~~~~------~a~~~f~~i~~Ay~vL~d~~kR~~YD~ 67 (380)
T PRK14276 4 TEYYDRLGVSKDASQ--DEIKKAYRKLSKKYHPDINKEP------GAEEKYKEVQEAYETLSDPQKRAAYDQ 67 (380)
T ss_pred CCHHHhhCCCCCCCH--HHHHHHHHHHHHHHCcCCCCCc------CHHHHHHHHHHHHHHhcCHhhhhhHhh
Confidence 699999999998664 9999999999999999998643 246789999999999999999999986
No 29
>PRK14291 chaperone protein DnaJ; Provisional
Probab=99.56 E-value=4.2e-15 Score=132.66 Aligned_cols=65 Identities=28% Similarity=0.484 Sum_probs=58.1
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLS 126 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~ 126 (183)
.|||++|||+++++. ++|+++||+|+++||||++... .+.+.|+.|++||++|+||.+|+.|+..
T Consensus 3 ~d~Y~~Lgv~~~a~~--~~ik~ayr~la~~~HPD~~~~~------~~~~~f~~i~~Ay~vLsd~~kR~~YD~~ 67 (382)
T PRK14291 3 KDYYEILGVSRNATQ--EEIKKAYRRLARKYHPDFNKNP------EAEEKFKEINEAYQVLSDPEKRKLYDQF 67 (382)
T ss_pred CCHHHhhCCCCCCCH--HHHHHHHHHHHHHHCCCCCCCc------cHHHHHHHHHHHHHHhcCHHHHHHHhhh
Confidence 699999999998765 9999999999999999998642 2467899999999999999999999863
No 30
>PRK14299 chaperone protein DnaJ; Provisional
Probab=99.56 E-value=5.1e-15 Score=127.70 Aligned_cols=64 Identities=28% Similarity=0.504 Sum_probs=57.3
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++ .++||++||+|+++||||++... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 4 ~d~y~vLgv~~~a~--~~eik~ayr~la~~~HPD~~~~~------~~~~~f~~i~~Ay~~L~d~~kr~~yD~ 67 (291)
T PRK14299 4 KDYYAILGVPKNAS--QDEIKKAFKKLARKYHPDVNKSP------GAEEKFKEINEAYTVLSDPEKRRIYDT 67 (291)
T ss_pred CCHHHHcCCCCCCC--HHHHHHHHHHHHHHHCcCCCCCh------hHHHHHHHHHHHHHHhcCHHHHHHHHh
Confidence 69999999999865 59999999999999999998532 256789999999999999999999986
No 31
>PRK14285 chaperone protein DnaJ; Provisional
Probab=99.56 E-value=5.3e-15 Score=131.32 Aligned_cols=65 Identities=22% Similarity=0.401 Sum_probs=58.1
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|+++||||++.... .+.+.|..|++||++|+||.+|+.|+.
T Consensus 3 ~d~y~iLgv~~~a~~--~eIk~ayr~la~~~HPD~~~~~~-----~a~~~f~~i~~Ay~vL~d~~kr~~yd~ 67 (365)
T PRK14285 3 RDYYEILGLSKGASK--DEIKKAYRKIAIKYHPDKNKGNK-----EAESIFKEATEAYEVLIDDNKRAQYDR 67 (365)
T ss_pred CCHHHhcCCCCCCCH--HHHHHHHHHHHHHHCCCCCCCCH-----HHHHHHHHHHHHHHHHcCcchhHHHHh
Confidence 599999999998665 99999999999999999976432 256799999999999999999999986
No 32
>PRK14280 chaperone protein DnaJ; Provisional
Probab=99.56 E-value=5.2e-15 Score=131.78 Aligned_cols=64 Identities=22% Similarity=0.415 Sum_probs=57.5
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|+++||||++... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 4 ~~~y~iLgv~~~a~~--~eik~ayr~la~~~HpD~~~~~------~a~~~f~~i~~Ay~vL~d~~kr~~yD~ 67 (376)
T PRK14280 4 RDYYEVLGVSKSASK--DEIKKAYRKLSKKYHPDINKEE------GADEKFKEISEAYEVLSDDQKRAQYDQ 67 (376)
T ss_pred CChHHhhCCCCCCCH--HHHHHHHHHHHHHHCcCCCCCc------cHHHHHHHHHHHHHHhccHhHHHHHHh
Confidence 599999999998765 9999999999999999998642 256789999999999999999999986
No 33
>PRK10767 chaperone protein DnaJ; Provisional
Probab=99.55 E-value=6.4e-15 Score=130.85 Aligned_cols=66 Identities=24% Similarity=0.479 Sum_probs=58.4
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..|||++|||+++++. ++|+++||+|+++||||++.... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 3 ~~d~y~iLgv~~~as~--~eik~ayr~la~~~HPD~~~~~~-----~a~~~f~~i~~Ay~~L~d~~~r~~yd~ 68 (371)
T PRK10767 3 KRDYYEVLGVSRNASE--DEIKKAYRKLAMKYHPDRNPGDK-----EAEEKFKEIKEAYEVLSDPQKRAAYDQ 68 (371)
T ss_pred CCChHHhcCCCCCCCH--HHHHHHHHHHHHHHCCCCCCCcH-----HHHHHHHHHHHHHHHhcchhhhhHhhh
Confidence 3699999999998664 99999999999999999986432 256899999999999999999999985
No 34
>PRK14281 chaperone protein DnaJ; Provisional
Probab=99.55 E-value=5.8e-15 Score=132.38 Aligned_cols=65 Identities=28% Similarity=0.444 Sum_probs=58.0
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++ .++|+++||+|+++||||++.... .|.+.|+.||+||++|+||.+|+.|+.
T Consensus 3 ~d~y~iLgv~~~a~--~~eikkayr~la~~~HPD~~~~~~-----~a~~~f~~i~~Ay~vL~d~~~r~~yD~ 67 (397)
T PRK14281 3 RDYYEVLGVSRSAD--KDEIKKAYRKLALKYHPDKNPDNK-----EAEEHFKEVNEAYEVLSNDDKRRRYDQ 67 (397)
T ss_pred CChhhhcCCCCCCC--HHHHHHHHHHHHHHHCCCcCCCch-----HHHHHHHHHHHHHHHhhhhhhhhhhhh
Confidence 59999999999865 599999999999999999986532 256899999999999999999999986
No 35
>PRK14284 chaperone protein DnaJ; Provisional
Probab=99.55 E-value=6.5e-15 Score=131.76 Aligned_cols=65 Identities=23% Similarity=0.416 Sum_probs=57.7
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++ .++||++||+|+++||||++.... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 1 ~d~y~iLgv~~~a~--~~eikkayr~la~~~HPD~~~~~~-----~a~~~f~~i~~Ay~vL~d~~kR~~YD~ 65 (391)
T PRK14284 1 MDYYTILGVSKTAS--PEEIKKAYRKLAVKYHPDKNPGDA-----EAEKRFKEVSEAYEVLSDAQKRESYDR 65 (391)
T ss_pred CCHHHhcCCCCCCC--HHHHHHHHHHHHHHHCcCCCCCch-----HHHHHHHHHHHHHHHhcCHHHHHHHHh
Confidence 48999999999855 599999999999999999986532 356789999999999999999999986
No 36
>PTZ00037 DnaJ_C chaperone protein; Provisional
Probab=99.55 E-value=4e-15 Score=134.42 Aligned_cols=62 Identities=24% Similarity=0.488 Sum_probs=56.1
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..|||++|||+++++. ++||++||+|+++||||++.. .+.|+.||+||++|+||.+|+.|+.
T Consensus 27 ~~d~Y~vLGV~~~As~--~eIKkAYrkla~k~HPDk~~~---------~e~F~~i~~AYevLsD~~kR~~YD~ 88 (421)
T PTZ00037 27 NEKLYEVLNLSKDCTT--SEIKKAYRKLAIKHHPDKGGD---------PEKFKEISRAYEVLSDPEKRKIYDE 88 (421)
T ss_pred chhHHHHcCCCCCCCH--HHHHHHHHHHHHHHCCCCCch---------HHHHHHHHHHHHHhccHHHHHHHhh
Confidence 4699999999998765 999999999999999999631 2689999999999999999999986
No 37
>PRK14290 chaperone protein DnaJ; Provisional
Probab=99.54 E-value=9.1e-15 Score=129.74 Aligned_cols=66 Identities=27% Similarity=0.514 Sum_probs=58.5
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++ .++|+++||+|+++||||++... ++.|.+.|+.||+||++|+||.+|+.|+.
T Consensus 3 ~d~y~vLgv~~~a~--~~eik~ayr~la~~~HPD~~~~~----~~~a~~~f~~i~~Ay~~L~d~~~r~~yd~ 68 (365)
T PRK14290 3 KDYYKILGVDRNAS--QEDIKKAFRELAKKWHPDLHPGN----KAEAEEKFKEISEAYEVLSDPQKRRQYDQ 68 (365)
T ss_pred CChhhhcCCCCCCC--HHHHHHHHHHHHHHHCcCCCCCc----hhHHHHHHHHHHHHHHHhcChhhhhhhcc
Confidence 59999999999865 49999999999999999997542 33467899999999999999999999986
No 38
>PRK14278 chaperone protein DnaJ; Provisional
Probab=99.54 E-value=8.6e-15 Score=130.50 Aligned_cols=64 Identities=23% Similarity=0.454 Sum_probs=57.4
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|+++||||++.. ..+.+.|+.|++||++|+||.+|+.|+.
T Consensus 3 ~d~y~iLgv~~~a~~--~eik~ayr~la~~~hpD~~~~------~~a~~~f~~i~~Ay~vL~d~~~r~~YD~ 66 (378)
T PRK14278 3 RDYYGLLGVSRNASD--AEIKRAYRKLARELHPDVNPD------EEAQEKFKEISVAYEVLSDPEKRRIVDL 66 (378)
T ss_pred CCcceecCCCCCCCH--HHHHHHHHHHHHHHCCCCCCc------HHHHHHHHHHHHHHHHhchhhhhhhhhc
Confidence 599999999998764 999999999999999999852 1356899999999999999999999985
No 39
>PRK14283 chaperone protein DnaJ; Provisional
Probab=99.53 E-value=1e-14 Score=129.89 Aligned_cols=65 Identities=23% Similarity=0.396 Sum_probs=58.4
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..|||++|||+++++. ++|+++||+|+++||||++.. ..|.+.|+.|++||++|+||.+|+.|+.
T Consensus 4 ~~d~y~~Lgv~~~a~~--~eik~ayr~la~~~HPD~~~~------~~a~~~f~~i~~Ay~~Lsd~~kR~~YD~ 68 (378)
T PRK14283 4 KRDYYEVLGVDRNADK--KEIKKAYRKLARKYHPDVSEE------EGAEEKFKEISEAYAVLSDDEKRQRYDQ 68 (378)
T ss_pred cCChHHhhCCCCCCCH--HHHHHHHHHHHHHHCcCCCCC------ccHHHHHHHHHHHHHHhchhHHHHHHhh
Confidence 4699999999998775 999999999999999999753 1367899999999999999999999986
No 40
>PRK14292 chaperone protein DnaJ; Provisional
Probab=99.53 E-value=1.3e-14 Score=128.78 Aligned_cols=64 Identities=22% Similarity=0.414 Sum_probs=57.6
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++. ++|+++||+|++++|||++... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 2 ~d~y~~Lgv~~~a~~--~~ik~ayr~l~~~~hpD~~~~~------~a~~~~~~i~~Ay~vL~d~~~r~~yd~ 65 (371)
T PRK14292 2 MDYYELLGVSRTASA--DEIKSAYRKLALKYHPDRNKEK------GAAEKFAQINEAYAVLSDAEKRAHYDR 65 (371)
T ss_pred CChHHHcCCCCCCCH--HHHHHHHHHHHHHHCCCCCCCh------hHHHHHHHHHHHHHHhcchhhhhhHhh
Confidence 599999999998765 8999999999999999998632 256789999999999999999999986
No 41
>PRK14293 chaperone protein DnaJ; Provisional
Probab=99.52 E-value=1.7e-14 Score=128.39 Aligned_cols=64 Identities=23% Similarity=0.483 Sum_probs=57.1
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++ .++|+++||+|+++||||++.... +.+.|+.||+||++|+||.+|+.|+.
T Consensus 3 ~d~y~vLgv~~~a~--~~eik~ayr~la~~~HPD~~~~~~------a~~~f~~i~~Ay~vL~~~~~R~~yd~ 66 (374)
T PRK14293 3 ADYYEILGVSRDAD--KDELKRAYRRLARKYHPDVNKEPG------AEDRFKEINRAYEVLSDPETRARYDQ 66 (374)
T ss_pred CChhhhcCCCCCCC--HHHHHHHHHHHHHHHCCCCCCCcC------HHHHHHHHHHHHHHHhchHHHHHHhh
Confidence 59999999999755 599999999999999999986432 45789999999999999999999986
No 42
>PRK14300 chaperone protein DnaJ; Provisional
Probab=99.52 E-value=1.6e-14 Score=128.56 Aligned_cols=64 Identities=31% Similarity=0.484 Sum_probs=57.1
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
.|||++|||+++++ .++|+++||+|+++||||++... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 3 ~~~y~iLgv~~~as--~~eik~ayr~la~~~HPD~~~~~------~~~~~f~~i~~Ay~~L~d~~~r~~yD~ 66 (372)
T PRK14300 3 QDYYQILGVSKTAS--QADLKKAYLKLAKQYHPDTTDAK------DAEKKFKEINAAYDVLKDEQKRAAYDR 66 (372)
T ss_pred CChHHHcCCCCCCC--HHHHHHHHHHHHHHHCcCCCCCc------CHHHHHHHHHHHHHHhhhHhHhhHHHh
Confidence 59999999999866 49999999999999999998632 245789999999999999999999986
No 43
>PRK10266 curved DNA-binding protein CbpA; Provisional
Probab=99.52 E-value=1.6e-14 Score=125.40 Aligned_cols=65 Identities=18% Similarity=0.349 Sum_probs=57.8
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLS 126 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~ 126 (183)
.|||++|||+++++. ++|+++||+|+++||||+.... .+.+.|+.||+||++|+||.+|+.|+..
T Consensus 4 ~d~y~~Lgv~~~a~~--~eik~ayr~la~k~HPD~~~~~------~~~~~f~~i~~Ay~~L~~~~kr~~yD~~ 68 (306)
T PRK10266 4 KDYYAIMGVKPTDDL--KTIKTAYRRLARKYHPDVSKEP------DAEARFKEVAEAWEVLSDEQRRAEYDQL 68 (306)
T ss_pred CChHHHcCCCCCCCH--HHHHHHHHHHHHHHCcCCCCCc------cHHHHHHHHHHHHHHhhhHHHHHHHHHh
Confidence 599999999998665 9999999999999999996432 3578999999999999999999999863
No 44
>KOG0712|consensus
Probab=99.52 E-value=1.4e-14 Score=126.94 Aligned_cols=64 Identities=22% Similarity=0.440 Sum_probs=58.8
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLS 126 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~ 126 (183)
...||++|||++.++. ++||++||+|+++|||||+.+ +.++|+.|..||++|+||.+|..|+..
T Consensus 3 ~~~~y~il~v~~~As~--~eikkayrkla~k~HpDkn~~--------~~ekfkei~~AyevLsd~ekr~~yD~~ 66 (337)
T KOG0712|consen 3 NTKLYDILGVSPDASE--EEIKKAYRKLALKYHPDKNPD--------AGEKFKEISQAYEVLSDPEKREIYDQY 66 (337)
T ss_pred ccccceeeccCCCcCH--HHHHHHHHHHHHHhCCCCCcc--------HHHHHHHHHHHHHHhcCHHHHHHHHhh
Confidence 4589999999998775 999999999999999999987 468999999999999999999999763
No 45
>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=99.52 E-value=1.3e-14 Score=127.99 Aligned_cols=63 Identities=27% Similarity=0.547 Sum_probs=56.2
Q ss_pred ChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 55 NYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 55 ~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
|||++|||+++++ .++|+++||+|+++||||++... .+.+.|+.||+||++|+||.+|+.|+.
T Consensus 1 d~y~~Lgv~~~a~--~~~ik~ayr~la~~~HPD~~~~~------~~~~~f~~i~~Ay~vL~d~~~R~~yd~ 63 (354)
T TIGR02349 1 DYYEILGVSKDAS--EEEIKKAYRKLAKKYHPDRNKDK------EAEEKFKEINEAYEVLSDPEKRAQYDQ 63 (354)
T ss_pred ChHHhCCCCCCCC--HHHHHHHHHHHHHHHCCCCCCCc------cHHHHHHHHHHHHHHhhChHHHHhhhh
Confidence 7999999999865 59999999999999999998621 246789999999999999999999976
No 46
>PRK14289 chaperone protein DnaJ; Provisional
Probab=99.52 E-value=2.1e-14 Score=128.19 Aligned_cols=66 Identities=26% Similarity=0.444 Sum_probs=59.0
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..|||++|||+++++. ++|+++||+|+++||||++.... .+.+.|+.|++||++|+||.+|+.|+.
T Consensus 4 ~~~~y~~Lgv~~~a~~--~eik~ayr~la~~~HpD~~~~~~-----~a~~~f~~i~~Ay~~L~d~~~R~~yD~ 69 (386)
T PRK14289 4 KRDYYEVLGVSKTATV--DEIKKAYRKKAIQYHPDKNPGDK-----EAEEKFKEAAEAYDVLSDPDKRSRYDQ 69 (386)
T ss_pred cCCHHHHcCCCCCCCH--HHHHHHHHHHHHHHCCCCCCCCh-----HHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence 3699999999999776 89999999999999999986532 256789999999999999999999986
No 47
>PTZ00341 Ring-infected erythrocyte surface antigen; Provisional
Probab=99.50 E-value=2.4e-13 Score=131.42 Aligned_cols=80 Identities=16% Similarity=0.201 Sum_probs=64.2
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhcCCCc
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQNISI 132 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~g~~~ 132 (183)
..+||++|||+++++. .+||++||+|++++|||++.+. .+.+.|+.|++||++|+||.+|+.|+. +|...
T Consensus 572 d~dYYdILGVs~dAS~--~EIKKAYRKLAlkyHPDKN~~~------~A~ekFq~I~EAYeVLSDp~kRk~YD~--~G~~G 641 (1136)
T PTZ00341 572 DTLFYDILGVGVNADM--KEISERYFKLAENYYPPKRSGN------EGFHKFKKINEAYQILGDIDKKKMYNK--FGYDG 641 (1136)
T ss_pred CCChHHHcCCCCCCCH--HHHHHHHHHHHHHhCCCCCCCc------hHHHHHHHHHHHHHHhCCHHHHHHHhh--ccccc
Confidence 4799999999999775 9999999999999999998653 256799999999999999999999975 34332
Q ss_pred cccCccCCHH
Q psy8513 133 EEDSKGTDQK 142 (183)
Q Consensus 133 ~~~~~~~d~~ 142 (183)
..+...+||.
T Consensus 642 l~~~~~iDP~ 651 (1136)
T PTZ00341 642 IKGVNFIHPS 651 (1136)
T ss_pred cCCCCccCHH
Confidence 2222345554
No 48
>KOG0715|consensus
Probab=99.49 E-value=4.6e-14 Score=121.94 Aligned_cols=83 Identities=19% Similarity=0.302 Sum_probs=68.6
Q ss_pred ccCCCCCCCcCCCCCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCch
Q psy8513 39 LFCQHCSSVQKPDPQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPL 118 (183)
Q Consensus 39 ~fC~~C~~~q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~ 118 (183)
.+|..+...--+....|||++||++++++. .+||++|++|+++||||.+..+ .+.+.|+.|.+||++|+|+.
T Consensus 28 ~~~~r~~~~s~~~~~~d~Y~vLgv~~~At~--~EIK~Af~~LaKkyHPD~n~~~------~a~~kF~eI~~AYEiLsd~e 99 (288)
T KOG0715|consen 28 ALNTRKFHASRIISKEDYYKVLGVSRNATL--SEIKSAFRKLAKKYHPDVNKDK------EASKKFKEISEAYEILSDEE 99 (288)
T ss_pred ccccceeeecccCCCcchhhhhCcCCCCCH--HHHHHHHHHHHHhhCCCCCCCc------chhhHHHHHHHHHHHhcCHH
Confidence 444444443333344499999999999887 9999999999999999998765 45789999999999999999
Q ss_pred hHHHHHHHhcC
Q psy8513 119 KRGLYLLSLQN 129 (183)
Q Consensus 119 ~Ra~Yll~l~g 129 (183)
+|.+|+..+.+
T Consensus 100 KR~~YD~~~~~ 110 (288)
T KOG0715|consen 100 KRQEYDVYGLE 110 (288)
T ss_pred HHHHHHHhhhh
Confidence 99999987664
No 49
>KOG0691|consensus
Probab=99.47 E-value=2.6e-13 Score=117.42 Aligned_cols=69 Identities=23% Similarity=0.377 Sum_probs=62.4
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhc
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQ 128 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~ 128 (183)
..|||+||||.+..+. .+|+++||..++.+||||+.+.+. |.+.|+.+.+||++|+||.+|+.|+--+.
T Consensus 4 ~~dyY~lLgi~~~at~--~eIkKaYr~kaL~~HPDKNp~dP~-----A~ekFq~L~eAy~VL~D~~~R~~YDk~~k 72 (296)
T KOG0691|consen 4 DTDYYDLLGISEDATD--AEIKKAYRKKALQYHPDKNPGDPQ-----AAEKFQELSEAYEVLSDEESRAAYDKLRK 72 (296)
T ss_pred cchHHHHhCCCCCCCH--HHHHHHHHHHHHhcCCCCCCCChH-----HHHHHHHHHHHHHHhcCHHHHHHHHHHhh
Confidence 5799999999998775 999999999999999999988754 67999999999999999999999986554
No 50
>KOG0719|consensus
Probab=99.46 E-value=3.3e-13 Score=112.70 Aligned_cols=68 Identities=28% Similarity=0.446 Sum_probs=61.9
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..+.|+||||..+++- .+|+++||+|++++|||+.. +..+..+...|+.+++||++|+|..+|+.|+-
T Consensus 13 ~~d~YevLGVer~a~~--~eIrkAY~klal~~HPDk~~---eed~~ea~~kFq~l~k~y~iLsDeekR~~YDe 80 (264)
T KOG0719|consen 13 KKDLYEVLGVERDATD--KEIRKAYHKLALRLHPDKNH---EEDKVEATEKFQQLQKAYQILSDEEKRAVYDE 80 (264)
T ss_pred ccCHHHHhhhcccCCH--HHHHHHHHHHHHHhCCCcch---hhhHHHHHHHHHHHHHHHHHhhHHHHHHHHhc
Confidence 3599999999998764 99999999999999999985 56777899999999999999999999999974
No 51
>KOG0717|consensus
Probab=99.43 E-value=2e-13 Score=122.83 Aligned_cols=70 Identities=23% Similarity=0.396 Sum_probs=60.9
Q ss_pred CCCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHH
Q psy8513 51 DPQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLS 126 (183)
Q Consensus 51 ~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~ 126 (183)
...+.||++|||...++. .+|+++||+|+++||||+++.. -+.+.++|++|+.||++|+||..|+=|+-.
T Consensus 5 ~~~~c~YE~L~v~~~a~d--~eik~~YRklALq~HPDknpd~----ieeat~~F~~i~aAYeVLSdp~eR~wyd~h 74 (508)
T KOG0717|consen 5 FKKRCYYEVLGVERDADD--DEIKKNYRKLALQYHPDKNPDR----IEEATQQFQLIQAAYEVLSDPQERAWYDSH 74 (508)
T ss_pred hhhhHHHHHhcccccCCH--HHHHHHHHHHHHhhCCCCCCcc----HHHHHHHHHHHHHHHHHhcChHhhhhHHHH
Confidence 355789999999998664 9999999999999999996543 345789999999999999999999999753
No 52
>TIGR03835 termin_org_DnaJ terminal organelle assembly protein TopJ. This model describes TopJ (MG_200, CbpA), a DnaJ homolog and probable assembly protein of the Mycoplasma terminal organelle. The terminal organelle is involved in both cytadherence and gliding motility.
Probab=99.43 E-value=4e-13 Score=127.37 Aligned_cols=66 Identities=26% Similarity=0.419 Sum_probs=57.9
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHh
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSL 127 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l 127 (183)
.|||++|||+++++ ..+||++||+|++++|||++++. .+.+.|+.||+||++|+||.+|+.|+...
T Consensus 2 ~DYYeVLGVs~dAS--~eEIKKAYRKLAKKyHPDKn~~~------eAeekFqeINEAYEVLSDP~KRa~YD~fG 67 (871)
T TIGR03835 2 RDYYEVLGIDRDAD--EQEIKKAFRKLAKKYHPDRNKAP------DAASIFAEINEANDVLSNPKKRANYDKYG 67 (871)
T ss_pred CChhHhcCCCCCCC--HHHHHHHHHHHHHHHCcCCCCCh------hHHHHHHHHHHHHHHhCCHHHHHHHhhhc
Confidence 59999999999765 59999999999999999998752 24568899999999999999999998753
No 53
>COG2214 CbpA DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=99.41 E-value=4.5e-13 Score=106.64 Aligned_cols=68 Identities=24% Similarity=0.474 Sum_probs=61.0
Q ss_pred CCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 52 PQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 52 ~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
...+||++|||+++++. .+|+++||++++++|||++..... .+.+.|..||+||.+|+||..|+.|+.
T Consensus 4 ~~~~~y~iLgv~~~as~--~eik~ayrkla~~~HPD~~~~~~~----~a~~~f~~i~~Ay~vLsd~~~r~~yd~ 71 (237)
T COG2214 4 DLLDYYEILGVPPNASL--EEIKKAYRKLALKYHPDRNPGDPK----VAEEKFKEINEAYEILSDPERRAEYDK 71 (237)
T ss_pred hhhhHHHHhCCCCCCCH--HHHHHHHHHHHHHhCCCCCCCchh----HHHHHHHHHHHHHHHhhCHHHHHHhhh
Confidence 34699999999977664 999999999999999999987643 567999999999999999999999987
No 54
>PHA03102 Small T antigen; Reviewed
Probab=99.35 E-value=1.3e-12 Score=103.52 Aligned_cols=63 Identities=19% Similarity=0.177 Sum_probs=54.4
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..++++|||++++--+.++||++||++++++|||+.++ .+.++.||+||++|+|+.+|+.|+.
T Consensus 5 ~~l~~vLGl~~~A~~s~~eIKkAYr~la~~~HPDkgg~---------~e~~k~in~Ay~~L~d~~~r~~yd~ 67 (153)
T PHA03102 5 KELMDLLGLPRSAWGNLPLMRKAYLRKCLEFHPDKGGD---------EEKMKELNTLYKKFRESVKSLRDLD 67 (153)
T ss_pred HHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHCcCCCch---------hHHHHHHHHHHHHHhhHHHhccccc
Confidence 46899999999983345999999999999999999532 2588999999999999999999954
No 55
>KOG0721|consensus
Probab=99.33 E-value=3.6e-12 Score=105.42 Aligned_cols=66 Identities=20% Similarity=0.324 Sum_probs=58.3
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
..|+|++|||+++.+. ++||++||+|..++||||....+ ..++.+..|++||+.|+|+.+|..|+.
T Consensus 98 ~fDPyEILGl~pgas~--~eIKkaYR~LSik~HPDK~~~~~-----~~e~~~~~I~KAY~aLTD~~sreN~ek 163 (230)
T KOG0721|consen 98 KFDPYEILGLDPGASE--KEIKKAYRRLSIKYHPDKQPPEE-----GDEEFFEAIAKAYQALTDKKSRENWEK 163 (230)
T ss_pred cCCcHHhhCCCCCCCH--HHHHHHHHHhhhhhCCCcCCCcc-----hhHHHHHHHHHHHHHhcchhhHHHHHH
Confidence 4699999999999776 99999999999999999986542 235788999999999999999999965
No 56
>KOG0624|consensus
Probab=99.19 E-value=2.3e-11 Score=107.42 Aligned_cols=69 Identities=25% Similarity=0.480 Sum_probs=64.0
Q ss_pred CCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHH
Q psy8513 52 PQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYL 124 (183)
Q Consensus 52 ~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yl 124 (183)
..+|||.||||.++++- .+|.++||+++.+||||.|+. ++|+..|+.+|.-|..|-++|+||.+|.+++
T Consensus 392 ~kRDYYKILGVkRnAsK--qEI~KAYRKlAqkWHPDNFqd--EeEKKkAEKKFIDIAAAKEVLsd~EkRrqFD 460 (504)
T KOG0624|consen 392 GKRDYYKILGVKRNASK--QEITKAYRKLAQKWHPDNFQD--EEEKKKAEKKFIDIAAAKEVLSDPEKRRQFD 460 (504)
T ss_pred ccchHHHHhhhcccccH--HHHHHHHHHHHHhcCCccccC--HHHHHHHHHhhhhHHHHHHhhcCHHHHhhcc
Confidence 46799999999999875 999999999999999999975 5778889999999999999999999999997
No 57
>PRK09430 djlA Dna-J like membrane chaperone protein; Provisional
Probab=99.18 E-value=3.7e-11 Score=102.85 Aligned_cols=63 Identities=19% Similarity=0.411 Sum_probs=55.2
Q ss_pred CCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCC--CHHHHHHHHHHHHHHHHHHHHhcC
Q psy8513 52 PQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNK--NQEEQAISETYSSYLNKAYSILQN 116 (183)
Q Consensus 52 ~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~--~~~e~~~a~~~s~~In~AY~tL~d 116 (183)
...++|++||++++.+ .++||++||+|++++|||++.+. ++..++.+.++++.||+||++|+.
T Consensus 198 ~~~~ay~vLgv~~~as--~~eIk~aYr~L~~~~HPDk~~~~g~~~~~~~~a~ek~~~I~~AYe~L~~ 262 (267)
T PRK09430 198 TLEDAYKVLGVSESDD--DQEIKRAYRKLMSEHHPDKLVAKGLPPEMMEMAKEKAQEIQAAYELIKK 262 (267)
T ss_pred cHHhHHHHcCCCCCCC--HHHHHHHHHHHHHHhCcCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHH
Confidence 3469999999999855 59999999999999999998653 466678899999999999999985
No 58
>KOG0720|consensus
Probab=99.08 E-value=1.7e-10 Score=104.04 Aligned_cols=70 Identities=24% Similarity=0.363 Sum_probs=61.8
Q ss_pred CCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhcC
Q psy8513 52 PQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQN 129 (183)
Q Consensus 52 ~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~g 129 (183)
...|+|.+|||+.+ +|.++||+.||+++-..||||+..+ .|.+.|..+.-||++|+|+.+|.+|++++..
T Consensus 233 ~~~daYsvlGl~~d--~sd~~lKk~Yrk~A~LVhPDKn~~~------~A~Eafk~Lq~Afevig~~~kR~eYd~e~~k 302 (490)
T KOG0720|consen 233 NILDAYSALGLPSD--CSDADLKKNYRKKAMLVHPDKNMIP------RAEEAFKKLQVAFEVIGDSVKRKEYDLELKK 302 (490)
T ss_pred cCCCchhhcCCCCC--CCHHHHHHHHHhhceEeCCCccCCh------hHHHHHHHHHHHHHHhcchhhhhHHHHHHHH
Confidence 36799999999965 6679999999999999999998743 4678999999999999999999999987643
No 59
>KOG0722|consensus
Probab=99.05 E-value=1.4e-10 Score=98.36 Aligned_cols=68 Identities=24% Similarity=0.464 Sum_probs=60.5
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhc
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQ 128 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~ 128 (183)
..|-|++||+.+.. +..+|.++||+|++++|||++.++.. ...|..|..||++|+|...|+.|+..+.
T Consensus 32 ~enCYdVLgV~Rea--~KseIakAYRqLARrhHPDr~r~~e~------k~~F~~iAtayeilkd~e~rt~ydyald 99 (329)
T KOG0722|consen 32 AENCYDVLGVAREA--NKSEIAKAYRQLARRHHPDRNRDPES------KKLFVKIATAYEILKDNETRTQYDYALD 99 (329)
T ss_pred chhHHHHhhhhhhc--cHHHHHHHHHHHHHHhCCcccCCchh------hhhhhhhhcccccccchhhHHhHHHHhc
Confidence 46999999999986 56999999999999999999987643 3789999999999999999999987664
No 60
>PTZ00100 DnaJ chaperone protein; Provisional
Probab=99.05 E-value=2.7e-10 Score=86.33 Aligned_cols=58 Identities=19% Similarity=0.315 Sum_probs=47.1
Q ss_pred CcCCCCCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 47 VQKPDPQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQ 115 (183)
Q Consensus 47 ~q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~ 115 (183)
++......++|++||++++++ .++|+++||+|++++|||+.++ .+.++.||+||++|.
T Consensus 58 f~~~Ms~~eAy~ILGv~~~As--~~eIkkaYRrLa~~~HPDkgGs---------~~~~~kIneAyevL~ 115 (116)
T PTZ00100 58 FENPMSKSEAYKILNISPTAS--KERIREAHKQLMLRNHPDNGGS---------TYIASKVNEAKDLLL 115 (116)
T ss_pred ccCCCCHHHHHHHcCCCCCCC--HHHHHHHHHHHHHHhCCCCCCC---------HHHHHHHHHHHHHHh
Confidence 344444569999999999866 5999999999999999998422 246678999999985
No 61
>PHA02624 large T antigen; Provisional
Probab=98.97 E-value=5.5e-10 Score=104.71 Aligned_cols=63 Identities=22% Similarity=0.240 Sum_probs=54.7
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYL 124 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yl 124 (183)
..++|++|||++++--+..+||++||++++++|||+.+. .+.++.||.||++|+|+.+|+.|.
T Consensus 10 ~~elyelLGL~~~A~gs~~eIKkAYRkLAkkyHPDKgGd---------eekfk~Ln~AYevL~d~~k~~r~~ 72 (647)
T PHA02624 10 SKELMDLLGLPMAAWGNLPLMRKAYLRKCKEYHPDKGGD---------EEKMKRLNSLYKKLQEGVKSARQS 72 (647)
T ss_pred HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHCcCCCCc---------HHHHHHHHHHHHHHhcHHHhhhcc
Confidence 458999999999872245999999999999999999532 368899999999999999999994
No 62
>KOG0550|consensus
Probab=98.96 E-value=8.2e-10 Score=99.07 Aligned_cols=68 Identities=24% Similarity=0.417 Sum_probs=62.2
Q ss_pred CCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHH
Q psy8513 52 PQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLL 125 (183)
Q Consensus 52 ~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll 125 (183)
+..+||.+||+....+. .+|+++||++++.+|||++++. |..++..|..|-+||.+|+||.+|.+|+-
T Consensus 371 kRkd~ykilGi~~~as~--~eikkayrk~AL~~Hpd~~ags----q~eaE~kFkevgeAy~il~d~~kr~r~ds 438 (486)
T KOG0550|consen 371 KRKDWYKILGISRNASD--DEIKKAYRKLALVHHPDKNAGS----QKEAEAKFKEVGEAYTILSDPMKRVRFDS 438 (486)
T ss_pred hhhhHHHHhhhhhhccc--chhhhHHHHHHHHhCCCcCcch----hHHHHHHHHHHHHHHHHhcCHHHHhhccc
Confidence 46799999999999887 8999999999999999999875 66678899999999999999999999974
No 63
>COG5407 SEC63 Preprotein translocase subunit Sec63 [Intracellular trafficking and secretion]
Probab=98.95 E-value=1e-09 Score=99.26 Aligned_cols=72 Identities=24% Similarity=0.358 Sum_probs=67.5
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLS 126 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~ 126 (183)
..|+|++||+..+.+. .+||++||+|.-++||||.+...+.++..-++....|++||..|+|...|..|+..
T Consensus 97 ~fDPyEILGI~~~ts~--rdik~~yr~Ls~KfhpdK~~~mvn~~rse~Ee~y~~ItkAY~~lTd~k~renyl~y 168 (610)
T COG5407 97 GFDPYEILGIDQDTSE--RDIKKRYRMLSMKFHPDKAPPMVNELRSEYEEKYKTITKAYGLLTDKKRRENYLNY 168 (610)
T ss_pred CCChHHhhcccCCCcH--HHHHHHHHhheeecChhhcCCCChhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhc
Confidence 4699999999998876 99999999999999999999888889999999999999999999999999999875
No 64
>KOG0714|consensus
Probab=98.86 E-value=2e-09 Score=89.58 Aligned_cols=68 Identities=25% Similarity=0.492 Sum_probs=57.0
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLS 126 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~ 126 (183)
..+||.+||+++.++. .+|+++|+.+++++|||++.. . ...+...+..|++||++|+||.+|..|+..
T Consensus 2 ~~d~~~~l~i~~~as~--~~i~ka~~~~a~~~hpdk~~~--~--~~~~~~~~~~~~ea~~~ls~~~kr~~~d~~ 69 (306)
T KOG0714|consen 2 GKDYYKILGIARSASE--EDIKKAYRKLALKYHPDKNPS--P--KEVAEAKFKEIAEAYEVLSDPKKRKIYDQY 69 (306)
T ss_pred cccHHHHhCccccccH--HHHHHHHHHHHHhhCCCCCCC--c--hhhHHHHHhhhhccccccCCHHHhhhcccc
Confidence 3689999999988776 499999999999999999433 3 334445889999999999999999999753
No 65
>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein). HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.
Probab=98.82 E-value=6.5e-09 Score=72.94 Aligned_cols=44 Identities=43% Similarity=0.652 Sum_probs=40.5
Q ss_pred CCHHHHHHHHHHhHHHhcC---CCHHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 139 TDQKLLMEILMLNEELDEA---SSEEDLENLQTSIRATIEELTKKVN 182 (183)
Q Consensus 139 ~d~~fLme~me~~E~le~a---~~~~~l~~l~~~~~~~i~~~~~~l~ 182 (183)
+||+|||++|||||+|+++ ++.++|.+|..+++.+++++.++|.
T Consensus 2 ~d~eFLme~mE~rE~le~~~~~~~~~~L~~l~~~~~~~~~~~~~~l~ 48 (78)
T PF07743_consen 2 MDPEFLMEQMELREELEEAQNSDDEAELEELKKEIEERIKELIKELA 48 (78)
T ss_dssp S-HHHHHHHHHHHHHHHHHCCCTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6899999999999999999 7789999999999999999999875
No 66
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=8.4e-08 Score=82.33 Aligned_cols=80 Identities=15% Similarity=0.194 Sum_probs=63.9
Q ss_pred CCChhhhcCccc-cCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhcCCC
Q psy8513 53 QNNYYNVFDMKM-QYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQNIS 131 (183)
Q Consensus 53 ~~~~f~llgl~~-~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~g~~ 131 (183)
..|+|.+|||+. .+..++..|.++.++.+.+||||+.+..+... ....|..|.+||+||+|+..|.+|+-.-...+
T Consensus 42 ~~DlYa~lgLskyR~ka~~~qi~kah~kkv~kyHPDk~aa~g~~~---~d~fFk~iqkA~evL~D~~~R~qyDS~df~ad 118 (379)
T COG5269 42 KVDLYALLGLSKYRTKAIPPQILKAHKKKVYKYHPDKTAAGGNKG---CDEFFKLIQKAREVLGDRKLRLQYDSNDFDAD 118 (379)
T ss_pred hhhHHHHhchHhhhcCCCcHHHHHHHHHHHHHhCccchhccCCCC---cHHHHHHHHHHHHHhccHHHHhhccccccccC
Confidence 369999999985 46667789999999999999999985433322 24789999999999999999999987655555
Q ss_pred cccc
Q psy8513 132 IEED 135 (183)
Q Consensus 132 ~~~~ 135 (183)
+...
T Consensus 119 vppp 122 (379)
T COG5269 119 VPPP 122 (379)
T ss_pred CCCc
Confidence 5543
No 67
>KOG1150|consensus
Probab=98.57 E-value=1.2e-07 Score=78.16 Aligned_cols=64 Identities=23% Similarity=0.380 Sum_probs=55.0
Q ss_pred CCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHH
Q psy8513 53 QNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGL 122 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~ 122 (183)
+.|+|++|.+.|..++ ++|+++||+|+...|||++... ++-|...|.-|.+||+.|-|+..|..
T Consensus 52 nLNpfeVLqIdpev~~--edikkryRklSilVHPDKN~Dd----~~rAqkAFdivkKA~k~l~n~~~rkr 115 (250)
T KOG1150|consen 52 NLNPFEVLQIDPEVTD--EDIKKRYRKLSILVHPDKNPDD----AERAQKAFDIVKKAYKLLENDKIRKR 115 (250)
T ss_pred ccChHHHHhcCCCCCH--HHHHHHHHhhheeecCCCCccc----HHHHHHHHHHHHHHHHHHhCHHHHHH
Confidence 5799999999998665 9999999999999999998764 33456889999999999999995543
No 68
>KOG1789|consensus
Probab=97.81 E-value=3e-05 Score=76.77 Aligned_cols=53 Identities=21% Similarity=0.364 Sum_probs=44.1
Q ss_pred ChhhhcCcccc--CCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 55 NYYNVFDMKMQ--YLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQ 115 (183)
Q Consensus 55 ~~f~llgl~~~--~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~ 115 (183)
+-+++|.++-+ -..|+..|+++|++|+.+|||||+.- ..+.|-.||+||+.|.
T Consensus 1282 ~A~eiL~i~l~n~~hD~~~KirrqY~kLA~kYHPDKNPE--------GRemFe~VnKAYE~L~ 1336 (2235)
T KOG1789|consen 1282 LAREILSVDLTNEEHDKPAKIRRQYYKLAAKYHPDKNPE--------GREMFERVNKAYELLS 1336 (2235)
T ss_pred HHHHHhccccCCCCcccHHHHHHHHHHHHHHhCCCCCch--------HHHHHHHHHHHHHHHH
Confidence 66888888743 34456999999999999999999853 2588999999999998
No 69
>KOG0568|consensus
Probab=97.78 E-value=4.3e-05 Score=64.66 Aligned_cols=55 Identities=18% Similarity=0.345 Sum_probs=46.3
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHH-HhcC
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYS-ILQN 116 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~-tL~d 116 (183)
+.||.+||+..+.+. .+++.+|+.|++++|||..... ...+.|.+|.+||+ +|+.
T Consensus 47 ~e~fril~v~e~~~a--devr~af~~lakq~hpdsgs~~------adaa~f~qideafrkvlq~ 102 (342)
T KOG0568|consen 47 MECFRILGVEEGADA--DEVREAFHDLAKQVHPDSGSEE------ADAARFIQIDEAFRKVLQE 102 (342)
T ss_pred HHHHHHhcccccCch--hHHHHHHHHHHHHcCCCCCCcc------ccHHHHHHHHHHHHHHHHH
Confidence 589999999999765 8999999999999999997553 23478999999998 6654
No 70
>KOG0723|consensus
Probab=97.58 E-value=0.00015 Score=54.28 Aligned_cols=54 Identities=13% Similarity=0.268 Sum_probs=44.5
Q ss_pred CCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy8513 52 PQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQN 116 (183)
Q Consensus 52 ~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~d 116 (183)
....--.||||.++ +|.+.||.++|+....-|||+-+++ -..+.||+|+.+|..
T Consensus 54 sr~EA~lIL~v~~s--~~k~KikeaHrriM~~NHPD~GGSP---------YlAsKINEAKdlLe~ 107 (112)
T KOG0723|consen 54 SRREAALILGVTPS--LDKDKIKEAHRRIMLANHPDRGGSP---------YLASKINEAKDLLEG 107 (112)
T ss_pred chHHHHHHhCCCcc--ccHHHHHHHHHHHHHcCCCcCCCCH---------HHHHHHHHHHHHHhc
Confidence 33455578999976 6679999999999999999998764 456889999999864
No 71
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=97.02 E-value=0.00035 Score=39.29 Aligned_cols=22 Identities=27% Similarity=0.763 Sum_probs=20.2
Q ss_pred CCCCCCCCCCCCCcccCCCCCC
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
..||+||+.+....-||++||+
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 4799999998889999999997
No 72
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=96.74 E-value=0.00075 Score=37.04 Aligned_cols=21 Identities=29% Similarity=0.803 Sum_probs=19.4
Q ss_pred CCCCCCCCCCCCcccCCCCCC
Q psy8513 26 KCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
.|++||+.+....-||+.||+
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 399999999999999999996
No 73
>KOG0431|consensus
Probab=96.73 E-value=0.0027 Score=58.39 Aligned_cols=48 Identities=25% Similarity=0.435 Sum_probs=40.7
Q ss_pred CCHHHHHHHHHHHHHhhCCCCCCCC--CHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 68 INNADLSKKFKHLQSQLHPDKFSNK--NQEEQAISETYSSYLNKAYSILQ 115 (183)
Q Consensus 68 iD~~~Lk~~Yr~l~~~~HPDk~~~~--~~~e~~~a~~~s~~In~AY~tL~ 115 (183)
|...++|++||+..+.+||||.++. +...+-++++.|..+++||....
T Consensus 400 Vtp~~VKKaYrKA~L~VHPDKlqq~gas~~qK~Iaekvfd~l~eawn~f~ 449 (453)
T KOG0431|consen 400 VTPAQVKKAYRKAVLCVHPDKLQQKGASLEQKYIAEKVFDALSEAWNKFN 449 (453)
T ss_pred cCHHHHHHHHHhhhheeCcccccCCcccHHHHHHHHHHHHHHHHHHHhhh
Confidence 7789999999999999999999766 45566678889999999987654
No 74
>COG1076 DjlA DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]
Probab=96.12 E-value=0.0055 Score=49.20 Aligned_cols=59 Identities=20% Similarity=0.289 Sum_probs=50.2
Q ss_pred CChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCC--HHHHHHHHHHHHHHHHHHHHh
Q psy8513 54 NNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKN--QEEQAISETYSSYLNKAYSIL 114 (183)
Q Consensus 54 ~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~--~~e~~~a~~~s~~In~AY~tL 114 (183)
.+.|.+||++++.+ ..+|+++|+++....|||+-...+ .+--+.+.+..+.|++||..+
T Consensus 113 ~~~l~~l~~~~~~~--~~~i~~~~r~l~~e~~~d~a~~~~~~~e~~~~~~~~~~~i~~a~~~~ 173 (174)
T COG1076 113 EDALKVLGVEIKAD--QDAIKKAYRKLLSEQHPDKAAAKGLKLEFIEKLKEKLQEIQEAYEDI 173 (174)
T ss_pred hhHHHHhcCchhhh--HHHHHHHHHHHHHhcCHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhc
Confidence 58899999998855 499999999999999999986554 556677889999999999754
No 75
>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=95.42 E-value=0.011 Score=33.36 Aligned_cols=22 Identities=27% Similarity=0.702 Sum_probs=20.4
Q ss_pred CCCCCCCCCCCCcccCCCCCCC
Q psy8513 26 KCWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 26 ~Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
.|+.|++.++...-+|+.||..
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYD 23 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCC
Confidence 6999999999999999999985
No 76
>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=94.73 E-value=0.025 Score=42.41 Aligned_cols=28 Identities=21% Similarity=0.612 Sum_probs=24.2
Q ss_pred CCCCCCCCCC---CCCCcccCCCCCCCcCCC
Q psy8513 24 ELKCWNCLKS---LSGKSLFCQHCSSVQKPD 51 (183)
Q Consensus 24 ~~~Cw~C~~~---~~~~~~fC~~C~~~q~~~ 51 (183)
+..|++||+. ++..+.+||.||..+++.
T Consensus 9 KR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 5689999995 566889999999999986
No 77
>PF14687 DUF4460: Domain of unknown function (DUF4460)
Probab=93.98 E-value=0.17 Score=38.17 Aligned_cols=48 Identities=25% Similarity=0.394 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCch
Q psy8513 70 NADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPL 118 (183)
Q Consensus 70 ~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~ 118 (183)
..+++.+.|.+-++.|||.|+.. +.+++.-++-.+.+|.-.+.|..+.
T Consensus 8 ~~~l~~aLr~Fy~~VHPDlF~~~-P~~k~~Ne~SLk~Ln~~Ld~l~~~~ 55 (112)
T PF14687_consen 8 SPDLRSALRPFYFAVHPDLFGQH-PEEKQVNEESLKLLNSYLDSLKKRK 55 (112)
T ss_pred hHHHHHHHHHHHHHhCCcccccC-hHHHHhhHHHHHHHHHHHHHHhccC
Confidence 37899999999999999999885 4588888888888888888888765
No 78
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. 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=92.60 E-value=0.096 Score=40.42 Aligned_cols=29 Identities=14% Similarity=0.123 Sum_probs=24.3
Q ss_pred CCCCCCCCCCC---CCCCcccCCCCCCCcCCC
Q psy8513 23 LELKCWNCLKS---LSGKSLFCQHCSSVQKPD 51 (183)
Q Consensus 23 ~~~~Cw~C~~~---~~~~~~fC~~C~~~q~~~ 51 (183)
.+..|++||+. ++.....||.||..+++.
T Consensus 8 tKr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 8 TKRICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccccCCCcCccccccCCCCccCCCcCCccCcc
Confidence 35689999995 556899999999999875
No 79
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=92.58 E-value=0.031 Score=37.59 Aligned_cols=23 Identities=26% Similarity=0.651 Sum_probs=19.8
Q ss_pred CCCCCCCCCCCCCCcccCC-CCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQ-HCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~-~C~~ 46 (183)
+..|.+||++++.+..||+ .|+.
T Consensus 3 HkHC~~CG~~Ip~~~~fCS~~C~~ 26 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDESFCSPKCRE 26 (59)
T ss_pred CCcCCcCCCcCCcchhhhCHHHHH
Confidence 5689999999999999995 7764
No 80
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=92.53 E-value=0.083 Score=29.30 Aligned_cols=20 Identities=20% Similarity=0.665 Sum_probs=15.0
Q ss_pred CCCCCCCCCC----CcccCCCCCC
Q psy8513 27 CWNCLKSLSG----KSLFCQHCSS 46 (183)
Q Consensus 27 Cw~C~~~~~~----~~~fC~~C~~ 46 (183)
|-+|+..+.. ..|.||+||.
T Consensus 1 C~sC~~~i~~r~~~v~f~CPnCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCPNCGF 24 (24)
T ss_pred CccCCCcccCcccCceEeCCCCCC
Confidence 6788887654 6788999973
No 81
>PRK00420 hypothetical protein; Validated
Probab=91.32 E-value=0.13 Score=38.86 Aligned_cols=28 Identities=21% Similarity=0.252 Sum_probs=22.2
Q ss_pred CCCCCCCCCCCCC---CCcccCCCCCCCcCC
Q psy8513 23 LELKCWNCLKSLS---GKSLFCQHCSSVQKP 50 (183)
Q Consensus 23 ~~~~Cw~C~~~~~---~~~~fC~~C~~~q~~ 50 (183)
....|+.||.++. ....|||+|+.+--.
T Consensus 22 l~~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~v 52 (112)
T PRK00420 22 LSKHCPVCGLPLFELKDGEVVCPVHGKVYIV 52 (112)
T ss_pred ccCCCCCCCCcceecCCCceECCCCCCeeee
Confidence 3568999999875 389999999985443
No 82
>PF12773 DZR: Double zinc ribbon
Probab=91.02 E-value=0.13 Score=32.50 Aligned_cols=28 Identities=21% Similarity=0.487 Sum_probs=19.3
Q ss_pred CCCCCCCCCCCCC--C-CcccCCCCCCCcCC
Q psy8513 23 LELKCWNCLKSLS--G-KSLFCQHCSSVQKP 50 (183)
Q Consensus 23 ~~~~Cw~C~~~~~--~-~~~fC~~C~~~q~~ 50 (183)
+...|++||.++. . ...+|++|++..++
T Consensus 11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~ 41 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPPDQSKKICPNCGAENPP 41 (50)
T ss_pred cccCChhhcCChhhccCCCCCCcCCcCCCcC
Confidence 4557888888776 2 56788888886443
No 83
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=90.69 E-value=0.052 Score=32.53 Aligned_cols=23 Identities=26% Similarity=0.616 Sum_probs=14.0
Q ss_pred CCCCCCCCCCC--------CcccCCCCCCCc
Q psy8513 26 KCWNCLKSLSG--------KSLFCQHCSSVQ 48 (183)
Q Consensus 26 ~Cw~C~~~~~~--------~~~fC~~C~~~q 48 (183)
-|+.||.++.. ..++|++|+.|.
T Consensus 2 fC~~CG~~l~~~ip~gd~r~R~vC~~Cg~Ih 32 (34)
T PF14803_consen 2 FCPQCGGPLERRIPEGDDRERLVCPACGFIH 32 (34)
T ss_dssp B-TTT--B-EEE--TT-SS-EEEETTTTEEE
T ss_pred ccccccChhhhhcCCCCCccceECCCCCCEE
Confidence 48999997642 678999999863
No 84
>PF12773 DZR: Double zinc ribbon
Probab=90.10 E-value=0.26 Score=31.13 Aligned_cols=23 Identities=26% Similarity=0.567 Sum_probs=20.2
Q ss_pred CCCCCCCCCCCCCCCcccCCCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCS 45 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~ 45 (183)
....|.+|+..+.....||+.||
T Consensus 28 ~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 28 SKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCCcCCcCCCcCCcCccCccc
Confidence 34579999999988999999996
No 85
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=88.97 E-value=0.19 Score=38.93 Aligned_cols=24 Identities=29% Similarity=0.623 Sum_probs=20.2
Q ss_pred CCCCCCCCCCCCCC--CcccCCCCCC
Q psy8513 23 LELKCWNCLKSLSG--KSLFCQHCSS 46 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~--~~~fC~~C~~ 46 (183)
...+|+.||.|+-- ...|||.|++
T Consensus 27 L~~hCp~Cg~PLF~KdG~v~CPvC~~ 52 (131)
T COG1645 27 LAKHCPKCGTPLFRKDGEVFCPVCGY 52 (131)
T ss_pred HHhhCcccCCcceeeCCeEECCCCCc
Confidence 34589999999753 8899999996
No 86
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=88.32 E-value=0.34 Score=32.60 Aligned_cols=24 Identities=25% Similarity=0.656 Sum_probs=17.3
Q ss_pred CCCCCCCCCCCCC----CcccCCCCCCC
Q psy8513 24 ELKCWNCLKSLSG----KSLFCQHCSSV 47 (183)
Q Consensus 24 ~~~Cw~C~~~~~~----~~~fC~~C~~~ 47 (183)
...|.+|+..+.. ..|.||+|+..
T Consensus 7 ~~~CtSCg~~i~~~~~~~~F~CPnCG~~ 34 (59)
T PRK14890 7 PPKCTSCGIEIAPREKAVKFLCPNCGEV 34 (59)
T ss_pred CccccCCCCcccCCCccCEeeCCCCCCe
Confidence 4468888887653 56888888874
No 87
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=88.28 E-value=0.34 Score=46.64 Aligned_cols=24 Identities=17% Similarity=0.470 Sum_probs=20.8
Q ss_pred CCCCCCCCCCCCCcccCCCCCCCc
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSSVQ 48 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~~q 48 (183)
..|++||+.++...-||+.||.-.
T Consensus 28 ~~Cp~CG~~~~~~~~fC~~CG~~~ 51 (645)
T PRK14559 28 KPCPQCGTEVPVDEAHCPNCGAET 51 (645)
T ss_pred CcCCCCCCCCCcccccccccCCcc
Confidence 579999999988999999999743
No 88
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=87.81 E-value=0.2 Score=37.89 Aligned_cols=35 Identities=17% Similarity=0.356 Sum_probs=26.6
Q ss_pred CCCCCCCCCCCcccCCCCCCCcCCCCCCChhhhcC
Q psy8513 27 CWNCLKSLSGKSLFCQHCSSVQKPDPQNNYYNVFD 61 (183)
Q Consensus 27 Cw~C~~~~~~~~~fC~~C~~~q~~~~~~~~f~llg 61 (183)
||.||.++....+.|++|+..-.-.=..++|..|.
T Consensus 1 CPvCg~~l~vt~l~C~~C~t~i~G~F~l~~~~~L~ 35 (113)
T PF09862_consen 1 CPVCGGELVVTRLKCPSCGTEIEGEFELPWFARLS 35 (113)
T ss_pred CCCCCCceEEEEEEcCCCCCEEEeeeccchhhcCC
Confidence 99999998889999999999665443445555553
No 89
>PF03656 Pam16: Pam16; InterPro: IPR005341 The Pam16 protein is the fifth essential subunit of the pre-sequence translocase-associated protein import motor (PAM) []. In Saccharomyces cerevisiae (Baker's yeast), Pam16 is required for preprotein translocation into the matrix, but not for protein insertion into the inner membrane [].; PDB: 2GUZ_J.
Probab=87.70 E-value=1.7 Score=33.58 Aligned_cols=53 Identities=21% Similarity=0.283 Sum_probs=37.4
Q ss_pred ChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCch
Q psy8513 55 NYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPL 118 (183)
Q Consensus 55 ~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~ 118 (183)
.-..||||++ .++.++|.++|..|-..-+|++.++ .-.-+.|..|.+.|...+
T Consensus 59 EA~~ILnv~~--~~~~eeI~k~y~~Lf~~Nd~~kGGS---------fYLQSKV~rAKErl~~El 111 (127)
T PF03656_consen 59 EARQILNVKE--ELSREEIQKRYKHLFKANDPSKGGS---------FYLQSKVFRAKERLEQEL 111 (127)
T ss_dssp HHHHHHT--G----SHHHHHHHHHHHHHHT-CCCTS----------HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHcCCCC--ccCHHHHHHHHHHHHhccCCCcCCC---------HHHHHHHHHHHHHHHHHH
Confidence 4568999998 4667999999999999999998653 234467888888877544
No 90
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=86.44 E-value=0.34 Score=39.39 Aligned_cols=24 Identities=29% Similarity=0.750 Sum_probs=20.8
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
...||.|++..+.+.-||+.||+-
T Consensus 139 ~~rC~GC~~~f~~~~~~Cp~CG~~ 162 (177)
T COG1439 139 RLRCHGCKRIFPEPKDFCPICGSP 162 (177)
T ss_pred eEEEecCceecCCCCCcCCCCCCc
Confidence 357999999888889999999983
No 91
>PF13877 RPAP3_C: Potential Monad-binding region of RPAP3
Probab=83.78 E-value=4.3 Score=28.81 Aligned_cols=49 Identities=24% Similarity=0.299 Sum_probs=36.4
Q ss_pred HHHHHHHHHh-cCchhHHHHHHHhcCCCcccc-CccCCHHHHHHHHHHhHH
Q psy8513 105 SYLNKAYSIL-QNPLKRGLYLLSLQNISIEED-SKGTDQKLLMEILMLNEE 153 (183)
Q Consensus 105 ~~In~AY~tL-~dp~~Ra~Yll~l~g~~~~~~-~~~~d~~fLme~me~~E~ 153 (183)
...-.+|+.+ ++|..|+.|+..+....+..= ...+++++|.++++.=..
T Consensus 8 ~eF~~~w~~~~~~~~~~~~yL~~i~p~~l~~if~~~l~~~~L~~il~~l~~ 58 (94)
T PF13877_consen 8 YEFERDWRRLKKDPEERYEYLKSIPPDSLPKIFKNSLEPEFLSEILEALNE 58 (94)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHhCChHHHHHHHHccCCHHHHHHHHHHHHH
Confidence 3456777888 889999999988765544432 357899999999987655
No 92
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=83.60 E-value=0.79 Score=28.96 Aligned_cols=28 Identities=18% Similarity=0.476 Sum_probs=21.2
Q ss_pred CCCCCCCCCCC------CcccCCCCCCCcCCCCC
Q psy8513 26 KCWNCLKSLSG------KSLFCQHCSSVQKPDPQ 53 (183)
Q Consensus 26 ~Cw~C~~~~~~------~~~fC~~C~~~q~~~~~ 53 (183)
.|+.||..+.. ..+.|+.|+...+..+.
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~~~~~~ 35 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGYEEPIEQK 35 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCCeEECCCc
Confidence 59999996543 26889999998876543
No 93
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=82.21 E-value=0.83 Score=44.03 Aligned_cols=28 Identities=25% Similarity=0.419 Sum_probs=21.0
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCcCCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSVQKPDP 52 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~q~~~~ 52 (183)
+...|.+||.++. .-+|+.||+.-|++.
T Consensus 14 ~akFC~~CG~~l~--~~~Cp~CG~~~~~~~ 41 (645)
T PRK14559 14 NNRFCQKCGTSLT--HKPCPQCGTEVPVDE 41 (645)
T ss_pred CCccccccCCCCC--CCcCCCCCCCCCccc
Confidence 4567899988874 357999998877654
No 94
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=82.05 E-value=0.73 Score=31.06 Aligned_cols=23 Identities=17% Similarity=0.550 Sum_probs=13.0
Q ss_pred CCCCCCCCCCCCC----CcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSG----KSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~----~~~fC~~C~~ 46 (183)
+..|.+||..+.. ..|.||+||.
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPnCGe 35 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPNCGE 35 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCCCCc
Confidence 3456666665522 5566666663
No 95
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=81.81 E-value=0.73 Score=35.01 Aligned_cols=26 Identities=23% Similarity=0.525 Sum_probs=19.9
Q ss_pred CCCCCCCCCCCCC--CcccCCCCCCCcC
Q psy8513 24 ELKCWNCLKSLSG--KSLFCQHCSSVQK 49 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--~~~fC~~C~~~q~ 49 (183)
...||.|+.++.. ..+.||.|++.-.
T Consensus 70 ~~~C~~C~~~~~~e~~~~~CP~C~s~~~ 97 (115)
T COG0375 70 ECWCLDCGQEVELEELDYRCPKCGSINL 97 (115)
T ss_pred EEEeccCCCeecchhheeECCCCCCCce
Confidence 4479999997765 6677999997543
No 96
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=81.16 E-value=0.77 Score=28.75 Aligned_cols=23 Identities=22% Similarity=0.511 Sum_probs=17.5
Q ss_pred CCCCCCCCCCCC----CcccCCCCCCC
Q psy8513 25 LKCWNCLKSLSG----KSLFCQHCSSV 47 (183)
Q Consensus 25 ~~Cw~C~~~~~~----~~~fC~~C~~~ 47 (183)
..|.+||+.+.. ..+.||.||.-
T Consensus 4 y~C~~CG~~~~~~~~~~~~~Cp~CG~~ 30 (46)
T PRK00398 4 YKCARCGREVELDEYGTGVRCPYCGYR 30 (46)
T ss_pred EECCCCCCEEEECCCCCceECCCCCCe
Confidence 379999996532 37899999973
No 97
>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=80.35 E-value=0.87 Score=28.12 Aligned_cols=24 Identities=33% Similarity=0.635 Sum_probs=17.7
Q ss_pred CCCCCCCCC-----CCCcccCCCCCCCcC
Q psy8513 26 KCWNCLKSL-----SGKSLFCQHCSSVQK 49 (183)
Q Consensus 26 ~Cw~C~~~~-----~~~~~fC~~C~~~q~ 49 (183)
.|++|+... ....++|+.||.+..
T Consensus 2 ~Cp~Cg~~~~~~D~~~g~~vC~~CG~Vl~ 30 (43)
T PF08271_consen 2 KCPNCGSKEIVFDPERGELVCPNCGLVLE 30 (43)
T ss_dssp SBTTTSSSEEEEETTTTEEEETTT-BBEE
T ss_pred CCcCCcCCceEEcCCCCeEECCCCCCEee
Confidence 599999953 137889999998765
No 98
>PF14353 CpXC: CpXC protein
Probab=79.33 E-value=1.1 Score=33.85 Aligned_cols=18 Identities=17% Similarity=0.261 Sum_probs=13.9
Q ss_pred CcccCCCCCCCcCCCCCC
Q psy8513 37 KSLFCQHCSSVQKPDPQN 54 (183)
Q Consensus 37 ~~~fC~~C~~~q~~~~~~ 54 (183)
..+.||+||....+....
T Consensus 37 ~~~~CP~Cg~~~~~~~p~ 54 (128)
T PF14353_consen 37 FSFTCPSCGHKFRLEYPL 54 (128)
T ss_pred CEEECCCCCCceecCCCE
Confidence 578899999988775543
No 99
>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=78.29 E-value=1.1 Score=27.95 Aligned_cols=22 Identities=23% Similarity=0.712 Sum_probs=17.3
Q ss_pred CCCCCCCCCCCCC---CcccCCCCC
Q psy8513 24 ELKCWNCLKSLSG---KSLFCQHCS 45 (183)
Q Consensus 24 ~~~Cw~C~~~~~~---~~~fC~~C~ 45 (183)
...|+.|+.|+-. ...||++|+
T Consensus 17 ~~~Cp~C~~PL~~~k~g~~~Cv~C~ 41 (41)
T PF06677_consen 17 DEHCPDCGTPLMRDKDGKIYCVSCG 41 (41)
T ss_pred cCccCCCCCeeEEecCCCEECCCCC
Confidence 4579999988642 789999995
No 100
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=78.11 E-value=0.97 Score=35.13 Aligned_cols=29 Identities=28% Similarity=0.493 Sum_probs=22.4
Q ss_pred CCCCCCCCCCCCCC---------------CcccCCCCCCCcCCC
Q psy8513 23 LELKCWNCLKSLSG---------------KSLFCQHCSSVQKPD 51 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~---------------~~~fC~~C~~~q~~~ 51 (183)
.-..|+.|+.++.. .+.||++|++--|-.
T Consensus 38 ti~qcp~csasirgd~~vegvlglg~dye~psfchncgs~fpwt 81 (160)
T COG4306 38 TITQCPICSASIRGDYYVEGVLGLGGDYEPPSFCHNCGSRFPWT 81 (160)
T ss_pred HHhcCCccCCcccccceeeeeeccCCCCCCcchhhcCCCCCCcH
Confidence 34589999998652 678999999977743
No 101
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=76.37 E-value=1.5 Score=36.92 Aligned_cols=28 Identities=32% Similarity=0.611 Sum_probs=22.6
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCcCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSVQKPD 51 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~q~~~ 51 (183)
++..|+.||. +....++|+.||....-+
T Consensus 308 tS~~C~~cg~-~~~r~~~C~~cg~~~~rD 335 (364)
T COG0675 308 TSKTCPCCGH-LSGRLFKCPRCGFVHDRD 335 (364)
T ss_pred CcccccccCC-ccceeEECCCCCCeehhh
Confidence 4668999999 656889999999976543
No 102
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=76.20 E-value=1.8 Score=28.66 Aligned_cols=23 Identities=22% Similarity=0.570 Sum_probs=17.1
Q ss_pred CCCCCCCCCCC----------CCcccCCCCCCC
Q psy8513 25 LKCWNCLKSLS----------GKSLFCQHCSSV 47 (183)
Q Consensus 25 ~~Cw~C~~~~~----------~~~~fC~~C~~~ 47 (183)
..|+.||.... --.+|||.|..-
T Consensus 5 i~CP~CgnKTR~kir~DT~LkNfPlyCpKCK~E 37 (55)
T PF14205_consen 5 ILCPICGNKTRLKIREDTVLKNFPLYCPKCKQE 37 (55)
T ss_pred EECCCCCCccceeeecCceeccccccCCCCCce
Confidence 36999997432 178999999873
No 103
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=76.07 E-value=1.5 Score=32.91 Aligned_cols=25 Identities=24% Similarity=0.776 Sum_probs=18.3
Q ss_pred CCCCCCCCCCCCC--CcccCCCCCCCc
Q psy8513 24 ELKCWNCLKSLSG--KSLFCQHCSSVQ 48 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--~~~fC~~C~~~q 48 (183)
...|..|+..... ..+.||.|++..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~CP~Cgs~~ 96 (113)
T PRK12380 70 QAWCWDCSQVVEIHQHDAQCPHCHGER 96 (113)
T ss_pred EEEcccCCCEEecCCcCccCcCCCCCC
Confidence 4479999986544 455699999753
No 104
>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=76.05 E-value=1.9 Score=28.86 Aligned_cols=27 Identities=19% Similarity=0.447 Sum_probs=20.9
Q ss_pred CCCCCCCCCCCCC----CCcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKSLS----GKSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~~~----~~~~fC~~C~~~q~ 49 (183)
.+..|+.||.... ...+.|+.|+....
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMD 57 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEEC
Confidence 4568999999643 37899999998654
No 105
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=75.97 E-value=1.5 Score=32.88 Aligned_cols=25 Identities=20% Similarity=0.413 Sum_probs=18.1
Q ss_pred CCCCCCCCCCCCC--Cc-ccCCCCCCCc
Q psy8513 24 ELKCWNCLKSLSG--KS-LFCQHCSSVQ 48 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--~~-~fC~~C~~~q 48 (183)
...|..|+...+. .. +.||.|++..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 70 ECWCETCQQYVTLLTQRVRRCPQCHGDM 97 (114)
T ss_pred EEEcccCCCeeecCCccCCcCcCcCCCC
Confidence 4479999997654 23 4599999854
No 106
>PRK12495 hypothetical protein; Provisional
Probab=75.67 E-value=1.7 Score=36.58 Aligned_cols=27 Identities=19% Similarity=0.448 Sum_probs=22.4
Q ss_pred CCCCCCCCCCCCCC--CcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKSLSG--KSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~--~~~fC~~C~~~q~ 49 (183)
....|..||.||.. ...||+.|..+-.
T Consensus 41 sa~hC~~CG~PIpa~pG~~~Cp~CQ~~~~ 69 (226)
T PRK12495 41 TNAHCDECGDPIFRHDGQEFCPTCQQPVT 69 (226)
T ss_pred chhhcccccCcccCCCCeeECCCCCCccc
Confidence 45689999999875 7889999998754
No 107
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=75.53 E-value=0.88 Score=26.36 Aligned_cols=24 Identities=17% Similarity=0.281 Sum_probs=14.0
Q ss_pred CCCCCCCCCCCCC----CcccCCCCCCC
Q psy8513 24 ELKCWNCLKSLSG----KSLFCQHCSSV 47 (183)
Q Consensus 24 ~~~Cw~C~~~~~~----~~~fC~~C~~~ 47 (183)
..-|..||.++.. ....|++|+..
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-E
T ss_pred CcccCcCCccccCCCCcCEeECCCCcCE
Confidence 4579999997543 77899999864
No 108
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=75.19 E-value=0.93 Score=27.00 Aligned_cols=21 Identities=29% Similarity=0.730 Sum_probs=12.7
Q ss_pred CCCCCCCCCCCCcccCCCCCC
Q psy8513 26 KCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
.|.+|+...-++..+|+.|++
T Consensus 13 rC~~Cg~~~~pPr~~Cp~C~s 33 (37)
T PF12172_consen 13 RCRDCGRVQFPPRPVCPHCGS 33 (37)
T ss_dssp E-TTT--EEES--SEETTTT-
T ss_pred EcCCCCCEecCCCcCCCCcCc
Confidence 699999976667799999986
No 109
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=75.00 E-value=2 Score=28.54 Aligned_cols=22 Identities=23% Similarity=0.504 Sum_probs=18.0
Q ss_pred CCCCCCCCCCCCCCcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
-..|++||.... +...|++||.
T Consensus 27 l~~C~~CG~~~~-~H~vC~~CG~ 48 (57)
T PRK12286 27 LVECPNCGEPKL-PHRVCPSCGY 48 (57)
T ss_pred ceECCCCCCccC-CeEECCCCCc
Confidence 447999999764 7899999985
No 110
>PRK01343 zinc-binding protein; Provisional
Probab=74.37 E-value=2 Score=28.68 Aligned_cols=25 Identities=24% Similarity=0.546 Sum_probs=18.4
Q ss_pred CCCCCCCCCCCCCC-CcccCC-CCCCC
Q psy8513 23 LELKCWNCLKSLSG-KSLFCQ-HCSSV 47 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~-~~~fC~-~C~~~ 47 (183)
....|+.|++++.. ...||+ .|..|
T Consensus 8 p~~~CP~C~k~~~~~~rPFCS~RC~~i 34 (57)
T PRK01343 8 PTRPCPECGKPSTREAYPFCSERCRDI 34 (57)
T ss_pred CCCcCCCCCCcCcCCCCcccCHHHhhh
Confidence 45689999997654 668887 67654
No 111
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=74.13 E-value=2.5 Score=30.70 Aligned_cols=26 Identities=15% Similarity=0.406 Sum_probs=21.3
Q ss_pred CCCCCCCCCCC--CcccCCCCCCCcCCC
Q psy8513 26 KCWNCLKSLSG--KSLFCQHCSSVQKPD 51 (183)
Q Consensus 26 ~Cw~C~~~~~~--~~~fC~~C~~~q~~~ 51 (183)
.|++||..+.. ..++|+.|+......
T Consensus 2 fC~~Cg~~l~~~~~~~~C~~C~~~~~~~ 29 (104)
T TIGR01384 2 FCPKCGSLMTPKNGVYVCPSCGYEKEKK 29 (104)
T ss_pred CCcccCcccccCCCeEECcCCCCccccc
Confidence 59999998754 789999999976653
No 112
>PF08772 NOB1_Zn_bind: Nin one binding (NOB1) Zn-ribbon like; InterPro: IPR014881 This entry corresponds to a zinc ribbon and is found on the RNA binding protein NOB1. ; PDB: 2CON_A.
Probab=73.65 E-value=1.4 Score=30.83 Aligned_cols=22 Identities=32% Similarity=0.927 Sum_probs=10.3
Q ss_pred CCCCCCCCCCCC-CcccCCCCCC
Q psy8513 25 LKCWNCLKSLSG-KSLFCQHCSS 46 (183)
Q Consensus 25 ~~Cw~C~~~~~~-~~~fC~~C~~ 46 (183)
..|..|-..... ...|||+||.
T Consensus 10 lrC~aCf~~t~~~~k~FCp~CGn 32 (73)
T PF08772_consen 10 LRCHACFKITKDMTKQFCPKCGN 32 (73)
T ss_dssp EE-SSS--EES-SS--S-SSS--
T ss_pred EEccccccCcCCCCceeCcccCC
Confidence 468889886553 8899999997
No 113
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=73.52 E-value=2 Score=28.30 Aligned_cols=23 Identities=22% Similarity=0.375 Sum_probs=18.5
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
.-..|.+||.... +..+|++||.
T Consensus 25 ~l~~C~~cG~~~~-~H~vc~~cG~ 47 (55)
T TIGR01031 25 TLVVCPNCGEFKL-PHRVCPSCGY 47 (55)
T ss_pred cceECCCCCCccc-CeeECCccCe
Confidence 3457999999764 8899999985
No 114
>PRK04023 DNA polymerase II large subunit; Validated
Probab=73.33 E-value=5.9 Score=40.18 Aligned_cols=26 Identities=15% Similarity=0.298 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~q~ 49 (183)
....|++||... ....||+.|+....
T Consensus 637 ~~frCP~CG~~T-e~i~fCP~CG~~~~ 662 (1121)
T PRK04023 637 FYRRCPFCGTHT-EPVYRCPRCGIEVE 662 (1121)
T ss_pred CcccCCCCCCCC-CcceeCccccCcCC
Confidence 345777777763 25567777766544
No 115
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=73.09 E-value=1.8 Score=29.39 Aligned_cols=24 Identities=25% Similarity=0.650 Sum_probs=17.6
Q ss_pred CCCCCCCCCCCC-----CCcccCC-CCCCC
Q psy8513 24 ELKCWNCLKSLS-----GKSLFCQ-HCSSV 47 (183)
Q Consensus 24 ~~~Cw~C~~~~~-----~~~~fC~-~C~~~ 47 (183)
...|+.|++++. ....||+ .|..|
T Consensus 6 ~v~CP~C~k~~~w~~~~~~rPFCS~RCk~I 35 (62)
T PRK00418 6 TVNCPTCGKPVEWGEISPFRPFCSKRCQLI 35 (62)
T ss_pred cccCCCCCCcccccCCCCcCCcccHHHHhh
Confidence 468999999863 3567997 67654
No 116
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=72.88 E-value=1.7 Score=25.66 Aligned_cols=26 Identities=23% Similarity=0.301 Sum_probs=20.1
Q ss_pred CCCCCCCCCCCC----CCcccCCCCCCCcC
Q psy8513 24 ELKCWNCLKSLS----GKSLFCQHCSSVQK 49 (183)
Q Consensus 24 ~~~Cw~C~~~~~----~~~~fC~~C~~~q~ 49 (183)
...|..|+...- ..-.||..|+.++|
T Consensus 3 ~~~C~~C~~~~i~~~~~~~~~C~~Cg~~~~ 32 (33)
T PF08792_consen 3 LKKCSKCGGNGIVNKEDDYEVCIFCGSSFP 32 (33)
T ss_pred ceEcCCCCCCeEEEecCCeEEcccCCcEee
Confidence 457999999632 27899999999875
No 117
>PF09567 RE_MamI: MamI restriction endonuclease; InterPro: IPR019067 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry includes the MamI restriction endonuclease which recognises and cleaves GATNN^NNATC. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=72.18 E-value=2.2 Score=36.76 Aligned_cols=39 Identities=23% Similarity=0.480 Sum_probs=29.3
Q ss_pred CCCCCCCCCCCCCcccCCCCCCCcCCCCCCChhhhcCccc
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSSVQKPDPQNNYYNVFDMKM 64 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~~q~~~~~~~~f~llgl~~ 64 (183)
..|-+||..+.....-||+|++.--.......+ +|++..
T Consensus 83 ~~C~~CGa~V~~~e~~Cp~C~StnI~r~DdSkW-l~~ir~ 121 (314)
T PF09567_consen 83 GKCNNCGANVSRLEESCPNCGSTNIKRKDDSKW-LFGIRS 121 (314)
T ss_pred hhhccccceeeehhhcCCCCCcccccccCCcce-eccccc
Confidence 379999999988889999999976554444444 666643
No 118
>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=72.17 E-value=1.6 Score=25.41 Aligned_cols=22 Identities=32% Similarity=0.705 Sum_probs=12.0
Q ss_pred CCCCCCCCCCC---CCcccCCCCCC
Q psy8513 25 LKCWNCLKSLS---GKSLFCQHCSS 46 (183)
Q Consensus 25 ~~Cw~C~~~~~---~~~~fC~~C~~ 46 (183)
+.|+.|+.... ...++|+.|+.
T Consensus 3 p~Cp~C~se~~y~D~~~~vCp~C~~ 27 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGELLVCPECGH 27 (30)
T ss_dssp ---TTT-----EE-SSSEEETTTTE
T ss_pred CCCCCCCCcceeccCCEEeCCcccc
Confidence 47999999643 38899999985
No 119
>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=72.11 E-value=1.7 Score=25.84 Aligned_cols=23 Identities=35% Similarity=0.847 Sum_probs=16.2
Q ss_pred CCCCCCCCCCC---------CCcccCCCCCCC
Q psy8513 25 LKCWNCLKSLS---------GKSLFCQHCSSV 47 (183)
Q Consensus 25 ~~Cw~C~~~~~---------~~~~fC~~C~~~ 47 (183)
..|++|+.... ...+.|++|+..
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~ 34 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHV 34 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCE
Confidence 36999998422 135899999874
No 120
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=70.96 E-value=49 Score=27.32 Aligned_cols=73 Identities=14% Similarity=0.183 Sum_probs=41.9
Q ss_pred CcccCCCCCCCcCCCCCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy8513 37 KSLFCQHCSSVQKPDPQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQN 116 (183)
Q Consensus 37 ~~~fC~~C~~~q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~d 116 (183)
...+||+||...-. +.|. .++....++-...+..+++|.-+...-.-+. |.+.+.+.---|+....
T Consensus 47 ~V~vCP~CgyA~~~----~~F~--------~l~~~~~~~i~~~i~~~~~~~~~~~~Rt~~~--ai~~YkLAll~~~~~~~ 112 (214)
T PF09986_consen 47 EVWVCPHCGYAAFE----EDFE--------KLSPEQKEKIKENISSRWKPRDFSGERTLEE--AIESYKLALLCAQIKKE 112 (214)
T ss_pred eEEECCCCCCcccc----cccc--------cCCHHHHHHHHHHHHhhcccCCCCCCCCHHH--HHHHHHHHHHHHHHhCC
Confidence 45577888774322 2233 2444666666777888899998876433333 34444544455666665
Q ss_pred chhHHHH
Q psy8513 117 PLKRGLY 123 (183)
Q Consensus 117 p~~Ra~Y 123 (183)
+.....+
T Consensus 113 ~~s~~A~ 119 (214)
T PF09986_consen 113 KPSKKAG 119 (214)
T ss_pred CHHHHHH
Confidence 5543333
No 121
>COG4031 Predicted metal-binding protein [General function prediction only]
Probab=70.22 E-value=2.6 Score=34.92 Aligned_cols=60 Identities=15% Similarity=0.408 Sum_probs=37.3
Q ss_pred CCCCCCCCCCCCcccCCCCCCCcCCC-----CCCChh-hhcC------ccccCCCCHHHHHHHHHHHHHhhCCCC
Q psy8513 26 KCWNCLKSLSGKSLFCQHCSSVQKPD-----PQNNYY-NVFD------MKMQYLINNADLSKKFKHLQSQLHPDK 88 (183)
Q Consensus 26 ~Cw~C~~~~~~~~~fC~~C~~~q~~~-----~~~~~f-~llg------l~~~~~iD~~~Lk~~Yr~l~~~~HPDk 88 (183)
.| .||.++..+ .||+.|+.-..+. ....|| .++| ++...+-| ..|+.-|-.|+-..|--+
T Consensus 2 ~C-rCG~~l~~p-~~Cl~Cg~~~av~~~vy~~~~r~~v~~vge~D~~t~~~~gDed-g~lRNl~erlae~i~s~r 73 (227)
T COG4031 2 IC-RCGAELSSP-AFCLNCGRRHAVGCGVYVSESRVFVRIVGERDFETFSIRGDED-GSLRNLYERLAERIYSYR 73 (227)
T ss_pred cc-ccCCccccc-chhcccCCcceeEeeeeccccEEEEEEeccccceeecccCCCc-chHHHHHHHHHHHHHhcC
Confidence 58 899999855 9999999754332 111222 2222 12334443 388888888888777544
No 122
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=69.87 E-value=2.3 Score=32.83 Aligned_cols=12 Identities=50% Similarity=0.794 Sum_probs=8.6
Q ss_pred CCCCCCCCCCCC
Q psy8513 24 ELKCWNCLKSLS 35 (183)
Q Consensus 24 ~~~Cw~C~~~~~ 35 (183)
...|.+||....
T Consensus 70 ~~~C~~CG~~~~ 81 (135)
T PRK03824 70 VLKCRNCGNEWS 81 (135)
T ss_pred EEECCCCCCEEe
Confidence 347999998543
No 123
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=69.74 E-value=2.7 Score=26.40 Aligned_cols=21 Identities=19% Similarity=0.485 Sum_probs=16.2
Q ss_pred CCCCCCCCCCC---CcccCCCCCC
Q psy8513 26 KCWNCLKSLSG---KSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~---~~~fC~~C~~ 46 (183)
.|..||..+.. ....|+.||+
T Consensus 4 ~C~~Cg~~~~~~~~~~irC~~CG~ 27 (44)
T smart00659 4 ICGECGRENEIKSKDVVRCRECGY 27 (44)
T ss_pred ECCCCCCEeecCCCCceECCCCCc
Confidence 58888886543 7788999987
No 124
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=69.27 E-value=2.2 Score=33.82 Aligned_cols=24 Identities=17% Similarity=0.386 Sum_probs=19.2
Q ss_pred CCCCCCCCCCCC-----CcccCCCCCCCc
Q psy8513 25 LKCWNCLKSLSG-----KSLFCQHCSSVQ 48 (183)
Q Consensus 25 ~~Cw~C~~~~~~-----~~~fC~~C~~~q 48 (183)
-.|++|+..++. ..|.||.||...
T Consensus 110 Y~Cp~c~~r~tf~eA~~~~F~Cp~Cg~~L 138 (158)
T TIGR00373 110 FICPNMCVRFTFNEAMELNFTCPRCGAML 138 (158)
T ss_pred EECCCCCcEeeHHHHHHcCCcCCCCCCEe
Confidence 379999986542 679999999964
No 125
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=69.12 E-value=4.1 Score=42.13 Aligned_cols=27 Identities=26% Similarity=0.610 Sum_probs=17.4
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCCcCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSSVQKPD 51 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~~q~~~ 51 (183)
...|++||..+. ..++|++|++-.+++
T Consensus 679 ~~fCP~CGs~te-~vy~CPsCGaev~~d 705 (1337)
T PRK14714 679 ENRCPDCGTHTE-PVYVCPDCGAEVPPD 705 (1337)
T ss_pred cccCcccCCcCC-CceeCccCCCccCCC
Confidence 347777777664 345777777755544
No 126
>PF01783 Ribosomal_L32p: Ribosomal L32p protein family; InterPro: IPR002677 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L32p is part of the 50S ribosomal subunit. This family is found in both prokaryotes and eukaryotes. Ribosomal protein L32 of yeast binds to and regulates the splicing and the translation of the transcript of its own gene [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3PYT_2 3F1F_5 3PYV_2 3D5B_5 3MRZ_2 3D5D_5 3F1H_5 1VSP_Y 3PYR_2 3MS1_2 ....
Probab=68.88 E-value=2.8 Score=27.57 Aligned_cols=22 Identities=27% Similarity=0.499 Sum_probs=17.0
Q ss_pred CCCCCCCCCCCCCCcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
-..|++||... .....|++||.
T Consensus 26 l~~c~~cg~~~-~~H~vc~~cG~ 47 (56)
T PF01783_consen 26 LVKCPNCGEPK-LPHRVCPSCGY 47 (56)
T ss_dssp EEESSSSSSEE-STTSBCTTTBB
T ss_pred eeeeccCCCEe-cccEeeCCCCe
Confidence 34799999754 38899999973
No 127
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=68.85 E-value=9.3 Score=34.59 Aligned_cols=72 Identities=14% Similarity=0.230 Sum_probs=47.6
Q ss_pred hhhhccCCCCCCCCCCCCCCCc-----ccCCCCCCCcCC-----------------CCCCChhhhcCcc------ccCCC
Q psy8513 17 TETAKSLELKCWNCLKSLSGKS-----LFCQHCSSVQKP-----------------DPQNNYYNVFDMK------MQYLI 68 (183)
Q Consensus 17 ~~~~~~~~~~Cw~C~~~~~~~~-----~fC~~C~~~q~~-----------------~~~~~~f~llgl~------~~~~i 68 (183)
|+..++....|-+|+..+.... ..|| |+..... ...+.|+.+.-|+ ..-.+
T Consensus 233 P~~GKYh~~~c~~C~~~~~~~~~~~~~~~Cp-CG~~i~~GV~~Rv~eLad~~~~~p~~rppy~~~iPL~ei~~~~~~~~~ 311 (374)
T TIGR00375 233 PLLGKYHQTACEACGEPAVSEDAETACANCP-CGGRIKKGVSDRLRELSDQKLEHPVPRPPYVHLIPLAEVIGVGPKKGI 311 (374)
T ss_pred cCCCccchhhhcccCCcCCchhhhhcCCCCC-CCCcceechHHHHHHHhcCCCCCCCCCCCeeeeCCHHHHHhhhcCCCC
Confidence 3444666678999998877633 6799 9874221 1144566555443 33445
Q ss_pred CHHHHHHHHHHHHHhhCCCCC
Q psy8513 69 NNADLSKKFKHLQSQLHPDKF 89 (183)
Q Consensus 69 D~~~Lk~~Yr~l~~~~HPDk~ 89 (183)
-.+.++..|.+|...+-|.-.
T Consensus 312 ~~k~v~~~~~~l~~~fG~E~~ 332 (374)
T TIGR00375 312 FTKAVQSLWEKLKKAFGTEIA 332 (374)
T ss_pred ccHHHHHHHHHHHHHhccHHH
Confidence 568889999999999888765
No 128
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=68.78 E-value=2.3 Score=33.08 Aligned_cols=27 Identities=22% Similarity=0.477 Sum_probs=19.2
Q ss_pred CCCCCCCCCCCCC----------CcccCCCCCCCcCC
Q psy8513 24 ELKCWNCLKSLSG----------KSLFCQHCSSVQKP 50 (183)
Q Consensus 24 ~~~Cw~C~~~~~~----------~~~fC~~C~~~q~~ 50 (183)
.-.|++|+..... ..|.||.||.....
T Consensus 99 ~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~ 135 (147)
T smart00531 99 YYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEE 135 (147)
T ss_pred EEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEE
Confidence 3479999985432 23999999986543
No 129
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=68.53 E-value=2.9 Score=31.51 Aligned_cols=25 Identities=28% Similarity=0.640 Sum_probs=18.0
Q ss_pred CCCCCCCCCCCCC--Cccc-CCCCCCCc
Q psy8513 24 ELKCWNCLKSLSG--KSLF-CQHCSSVQ 48 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--~~~f-C~~C~~~q 48 (183)
...|..|+..... ..++ ||.|++..
T Consensus 71 ~~~C~~Cg~~~~~~~~~~~~CP~Cgs~~ 98 (117)
T PRK00564 71 ELECKDCSHVFKPNALDYGVCEKCHSKN 98 (117)
T ss_pred EEEhhhCCCccccCCccCCcCcCCCCCc
Confidence 3479999986654 3455 99999854
No 130
>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=68.27 E-value=2.6 Score=25.12 Aligned_cols=21 Identities=19% Similarity=0.659 Sum_probs=15.2
Q ss_pred CCCCCCCCCC-------CCcccCCCCCC
Q psy8513 26 KCWNCLKSLS-------GKSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~-------~~~~fC~~C~~ 46 (183)
.|+.||.... .....||.|++
T Consensus 7 ~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 7 RCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred EcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 6888988432 24677999987
No 131
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=67.64 E-value=2.8 Score=31.51 Aligned_cols=27 Identities=22% Similarity=0.533 Sum_probs=21.4
Q ss_pred CCCCCCCCCCC---CCcccCCCCCCCcCCC
Q psy8513 25 LKCWNCLKSLS---GKSLFCQHCSSVQKPD 51 (183)
Q Consensus 25 ~~Cw~C~~~~~---~~~~fC~~C~~~q~~~ 51 (183)
+.|+.|+.... ...+.||.|++--++.
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYEWNEN 32 (109)
T ss_pred CcCCcCCCcceEecCCeeECcccccccccc
Confidence 68999999653 2789999999966654
No 132
>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=67.36 E-value=1.8 Score=32.40 Aligned_cols=25 Identities=20% Similarity=0.587 Sum_probs=16.9
Q ss_pred CCCCCCCCCCCCC--CcccCCCCCCCc
Q psy8513 24 ELKCWNCLKSLSG--KSLFCQHCSSVQ 48 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--~~~fC~~C~~~q 48 (183)
...|..|+..... ..+.||.|++..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~CP~Cgs~~ 96 (113)
T PF01155_consen 70 RARCRDCGHEFEPDEFDFSCPRCGSPD 96 (113)
T ss_dssp EEEETTTS-EEECHHCCHH-SSSSSS-
T ss_pred cEECCCCCCEEecCCCCCCCcCCcCCC
Confidence 3479999997655 557799999854
No 133
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=67.28 E-value=2.4 Score=34.35 Aligned_cols=26 Identities=19% Similarity=0.475 Sum_probs=20.3
Q ss_pred CCCCCCCCCCCC-----CcccCCCCCCCcCC
Q psy8513 25 LKCWNCLKSLSG-----KSLFCQHCSSVQKP 50 (183)
Q Consensus 25 ~~Cw~C~~~~~~-----~~~fC~~C~~~q~~ 50 (183)
-.|++|+..++. ..|.||.||...-.
T Consensus 118 Y~Cp~C~~rytf~eA~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 118 FFCPNCHIRFTFDEAMEYGFRCPQCGEMLEE 148 (178)
T ss_pred EECCCCCcEEeHHHHhhcCCcCCCCCCCCee
Confidence 379999986542 78999999996544
No 134
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=67.27 E-value=3.2 Score=31.14 Aligned_cols=25 Identities=24% Similarity=0.624 Sum_probs=18.6
Q ss_pred CCCCCCCCCCCCC--CcccCCCCCCCc
Q psy8513 24 ELKCWNCLKSLSG--KSLFCQHCSSVQ 48 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--~~~fC~~C~~~q 48 (183)
...|.+|+..... ..+.||+|++..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSPEIDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEecCCcCccCcCCcCCC
Confidence 3479999986654 356699999855
No 135
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=67.15 E-value=2.6 Score=28.69 Aligned_cols=35 Identities=20% Similarity=0.548 Sum_probs=26.1
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCcCCCCCCChhhhc
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSVQKPDPQNNYYNVF 60 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~q~~~~~~~~f~ll 60 (183)
....|-+|+..++...-.||.|++-+- ..+||-++
T Consensus 3 ~~kAC~~Ck~l~~~d~e~CP~Cgs~~~---te~W~G~~ 37 (64)
T COG2093 3 TEKACKNCKRLTPEDTEICPVCGSTDL---TEEWFGLL 37 (64)
T ss_pred hhHHHhhccccCCCCCccCCCCCCccc---chhhccEE
Confidence 345799999998878888999998543 34565554
No 136
>PRK02935 hypothetical protein; Provisional
Probab=65.95 E-value=3.7 Score=30.76 Aligned_cols=30 Identities=23% Similarity=0.455 Sum_probs=23.3
Q ss_pred CCCCCCCCCCCCCC--CcccCCCCCCCcCCCC
Q psy8513 23 LELKCWNCLKSLSG--KSLFCQHCSSVQKPDP 52 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~--~~~fC~~C~~~q~~~~ 52 (183)
.+..||+|+++..- ..--|..|+.....++
T Consensus 69 vqV~CP~C~K~TKmLGrvD~CM~C~~PLTLd~ 100 (110)
T PRK02935 69 VQVICPSCEKPTKMLGRVDACMHCNQPLTLDR 100 (110)
T ss_pred eeeECCCCCchhhhccceeecCcCCCcCCcCc
Confidence 57799999997643 7789999998665544
No 137
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=65.86 E-value=3.4 Score=33.02 Aligned_cols=28 Identities=21% Similarity=0.524 Sum_probs=20.0
Q ss_pred CCCCCCCCCCCCCC---------------CcccCCCCCCCcCC
Q psy8513 23 LELKCWNCLKSLSG---------------KSLFCQHCSSVQKP 50 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~---------------~~~fC~~C~~~q~~ 50 (183)
.-..|++|+.++.. .+.+|.+||+.-|=
T Consensus 38 tI~~Cp~C~~~IrG~y~v~gv~~~g~~~~~PsYC~~CGkpyPW 80 (158)
T PF10083_consen 38 TITSCPNCSTPIRGDYHVEGVFGLGGHYEAPSYCHNCGKPYPW 80 (158)
T ss_pred HHHHCcCCCCCCCCceecCCeeeeCCCCCCChhHHhCCCCCch
Confidence 34579999988652 45678888887663
No 138
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=65.76 E-value=3.2 Score=28.39 Aligned_cols=25 Identities=24% Similarity=0.594 Sum_probs=17.7
Q ss_pred CCCCCCCCCCCCCC-----CcccCC-CCCCC
Q psy8513 23 LELKCWNCLKSLSG-----KSLFCQ-HCSSV 47 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~-----~~~fC~-~C~~~ 47 (183)
....|+-||+++.. ...||+ .|.-|
T Consensus 6 ~~v~CP~Cgkpv~w~~~s~frPFCSkRCklI 36 (65)
T COG3024 6 ITVPCPTCGKPVVWGEESPFRPFCSKRCKLI 36 (65)
T ss_pred ccccCCCCCCcccccccCCcCcchhHhhhhc
Confidence 35689999998753 556776 66654
No 139
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=65.13 E-value=3.7 Score=42.45 Aligned_cols=23 Identities=17% Similarity=0.442 Sum_probs=18.9
Q ss_pred CCCCCCCCCCCCCcccCCCCCCCcC
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSSVQK 49 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~~q~ 49 (183)
..|++||..+. ..||+.||+-..
T Consensus 668 rkCPkCG~~t~--~~fCP~CGs~te 690 (1337)
T PRK14714 668 RRCPSCGTETY--ENRCPDCGTHTE 690 (1337)
T ss_pred EECCCCCCccc--cccCcccCCcCC
Confidence 68999999763 469999999763
No 140
>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=64.96 E-value=3.1 Score=31.50 Aligned_cols=31 Identities=32% Similarity=0.681 Sum_probs=23.4
Q ss_pred CCCCCCCCCCCCC--CCcccCCCCCCCcCCCCC
Q psy8513 23 LELKCWNCLKSLS--GKSLFCQHCSSVQKPDPQ 53 (183)
Q Consensus 23 ~~~~Cw~C~~~~~--~~~~fC~~C~~~q~~~~~ 53 (183)
....|++|+++.. ...--|..|+.....+++
T Consensus 68 v~V~CP~C~K~TKmLGr~D~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 68 VQVECPNCGKQTKMLGRVDACMHCKEPLTLDPS 100 (114)
T ss_pred eeeECCCCCChHhhhchhhccCcCCCcCccCch
Confidence 5678999999753 366799999987665543
No 141
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=64.86 E-value=4.9 Score=26.55 Aligned_cols=25 Identities=24% Similarity=0.533 Sum_probs=20.7
Q ss_pred CCCCCCCCCCC--CCCcccCCCCCCCc
Q psy8513 24 ELKCWNCLKSL--SGKSLFCQHCSSVQ 48 (183)
Q Consensus 24 ~~~Cw~C~~~~--~~~~~fC~~C~~~q 48 (183)
...|..|+.++ .....+|+.|++.-
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~Cgapy 31 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPY 31 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcc
Confidence 45899999998 44889999999854
No 142
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=64.66 E-value=3 Score=27.06 Aligned_cols=25 Identities=24% Similarity=0.632 Sum_probs=19.7
Q ss_pred CCCCCCCCCCCCCC----------CcccCCCCCCC
Q psy8513 23 LELKCWNCLKSLSG----------KSLFCQHCSSV 47 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~----------~~~fC~~C~~~ 47 (183)
....|-.|+..+++ .-.+|++|+.|
T Consensus 21 ~~~~C~gC~~~l~~~~~~~i~~~~~i~~Cp~CgRi 55 (56)
T PF02591_consen 21 EGGTCSGCHMELPPQELNEIRKGDEIVFCPNCGRI 55 (56)
T ss_pred eCCccCCCCEEcCHHHHHHHHcCCCeEECcCCCcc
Confidence 45589999997653 56899999986
No 143
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=64.23 E-value=3.6 Score=31.97 Aligned_cols=24 Identities=25% Similarity=0.577 Sum_probs=20.2
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
...|.+||...-++..+|+.|++-
T Consensus 29 g~kC~~CG~v~~PPr~~Cp~C~~~ 52 (140)
T COG1545 29 GTKCKKCGRVYFPPRAYCPKCGSE 52 (140)
T ss_pred EEEcCCCCeEEcCCcccCCCCCCC
Confidence 347999999777788999999985
No 144
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=63.28 E-value=3.9 Score=24.50 Aligned_cols=24 Identities=29% Similarity=0.794 Sum_probs=17.0
Q ss_pred CCCCCCCCCCC---------CCcccCCCCCCCc
Q psy8513 25 LKCWNCLKSLS---------GKSLFCQHCSSVQ 48 (183)
Q Consensus 25 ~~Cw~C~~~~~---------~~~~fC~~C~~~q 48 (183)
..|++|+.... ....-|+.|+.+-
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 36999998422 2578899998753
No 145
>PRK10220 hypothetical protein; Provisional
Probab=63.20 E-value=4.3 Score=30.61 Aligned_cols=29 Identities=14% Similarity=0.355 Sum_probs=22.4
Q ss_pred CCCCCCCCCCCC---CCcccCCCCCCCcCCCC
Q psy8513 24 ELKCWNCLKSLS---GKSLFCQHCSSVQKPDP 52 (183)
Q Consensus 24 ~~~Cw~C~~~~~---~~~~fC~~C~~~q~~~~ 52 (183)
-+.|+.|+.... ...+.||.|+.--++..
T Consensus 3 lP~CP~C~seytY~d~~~~vCpeC~hEW~~~~ 34 (111)
T PRK10220 3 LPHCPKCNSEYTYEDNGMYICPECAHEWNDAE 34 (111)
T ss_pred CCcCCCCCCcceEcCCCeEECCcccCcCCccc
Confidence 368999999654 27899999999666543
No 146
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 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 domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=62.96 E-value=2.1 Score=24.30 Aligned_cols=21 Identities=24% Similarity=0.795 Sum_probs=12.0
Q ss_pred CCCCCCCCCCC------CcccCCCCCC
Q psy8513 26 KCWNCLKSLSG------KSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~------~~~fC~~C~~ 46 (183)
.|..|+..+.. ..+||+.|..
T Consensus 3 ~C~rC~~~~~~~~~~~r~~~~C~rCq~ 29 (30)
T PF06827_consen 3 KCPRCWNYIEDIGINGRSTYLCPRCQK 29 (30)
T ss_dssp B-TTT--BBEEEEETTEEEEE-TTTCC
T ss_pred cCccCCCcceEeEecCCCCeECcCCcC
Confidence 57777776532 6799999975
No 147
>KOG2577|consensus
Probab=62.85 E-value=11 Score=33.88 Aligned_cols=99 Identities=28% Similarity=0.345 Sum_probs=60.7
Q ss_pred CCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHH--hcCCCccccC-------
Q psy8513 66 YLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLS--LQNISIEEDS------- 136 (183)
Q Consensus 66 ~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~--l~g~~~~~~~------- 136 (183)
++-...-|.++|-.|.+ .-||.. --+|+|-++|.=- +|..|++. |.|+.+-+..
T Consensus 69 ~d~SLglLTkKFv~Llq-~s~dGv---------------ldLn~aA~~L~Vq-KRRIYDITNVLEGI~LIeKksKN~IqW 131 (354)
T KOG2577|consen 69 SDTSLGLLTKKFVDLLQ-ESPDGV---------------LDLNKAAEVLNVQ-KRRIYDITNVLEGIGLIEKKSKNNIQW 131 (354)
T ss_pred chhhHHHHHHHHHHHHH-hCCCce---------------eeHHHHHHHhccc-cceeeehhhhhhcccceeeccccceee
Confidence 33445788899988876 356654 3479999999866 99999986 7788776531
Q ss_pred ----ccCCHHHHHHHHHHhHHHhcCCC-HHHHHHHHHHHHHHHHHHHHHh
Q psy8513 137 ----KGTDQKLLMEILMLNEELDEASS-EEDLENLQTSIRATIEELTKKV 181 (183)
Q Consensus 137 ----~~~d~~fLme~me~~E~le~a~~-~~~l~~l~~~~~~~i~~~~~~l 181 (183)
...+.+...+.-.++.+++.... +.+|+++.....+.+..+..+.
T Consensus 132 ~G~~~~~~~~~~e~~~~l~~e~~~L~~~E~~LD~~i~~~q~~L~~lted~ 181 (354)
T KOG2577|consen 132 IGGDFNSTGGVPERLNGLEAEVEDLSQEEDDLDQLIRDCQQNLRLLTEDV 181 (354)
T ss_pred ecCCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcch
Confidence 01112222333336666666543 3356666666666665555543
No 148
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=62.77 E-value=3.4 Score=25.16 Aligned_cols=22 Identities=27% Similarity=0.637 Sum_probs=14.2
Q ss_pred CCCCCCCCCCC------CcccCCCCCCC
Q psy8513 26 KCWNCLKSLSG------KSLFCQHCSSV 47 (183)
Q Consensus 26 ~Cw~C~~~~~~------~~~fC~~C~~~ 47 (183)
.||+|+..+.. ....|++|+-+
T Consensus 1 ~CP~C~~~l~~~~~~~~~id~C~~C~G~ 28 (41)
T PF13453_consen 1 KCPRCGTELEPVRLGDVEIDVCPSCGGI 28 (41)
T ss_pred CcCCCCcccceEEECCEEEEECCCCCeE
Confidence 48888876543 44567777754
No 149
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=62.73 E-value=5.4 Score=29.46 Aligned_cols=25 Identities=20% Similarity=0.398 Sum_probs=17.5
Q ss_pred CCCCCCCCCCCCCC-------CcccCCCCCCC
Q psy8513 23 LELKCWNCLKSLSG-------KSLFCQHCSSV 47 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~-------~~~fC~~C~~~ 47 (183)
.-..|++|+...-. ....|+.|+.-
T Consensus 20 t~f~CP~Cge~~v~v~~~k~~~h~~C~~CG~y 51 (99)
T PRK14892 20 KIFECPRCGKVSISVKIKKNIAIITCGNCGLY 51 (99)
T ss_pred cEeECCCCCCeEeeeecCCCcceEECCCCCCc
Confidence 34579999953211 48899999973
No 150
>PHA00626 hypothetical protein
Probab=62.39 E-value=6.4 Score=26.29 Aligned_cols=24 Identities=17% Similarity=0.538 Sum_probs=16.7
Q ss_pred CCCCCCCC-CC--------CCcccCCCCCCCcC
Q psy8513 26 KCWNCLKS-LS--------GKSLFCQHCSSVQK 49 (183)
Q Consensus 26 ~Cw~C~~~-~~--------~~~~fC~~C~~~q~ 49 (183)
.||+|+.. +- .+.+.|+.|+.--.
T Consensus 2 ~CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~ft 34 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDS 34 (59)
T ss_pred CCCCCCCceeeeeceecccCcceEcCCCCCeec
Confidence 57788773 11 27899999998544
No 151
>PF06044 DRP: Dam-replacing family; InterPro: IPR010324 Dam-replacing protein (DRP) is a restriction endonuclease that is flanked by pseudo-transposable small repeat elements. The replacement of Dam-methylase by DRP allows phase variation through slippage-like mechanisms in several pathogenic isolates of Neisseria meningitidis [].; PDB: 4ESJ_A.
Probab=62.05 E-value=2.6 Score=36.04 Aligned_cols=24 Identities=29% Similarity=0.693 Sum_probs=10.3
Q ss_pred CCCCCCCCC-CC-------CCcccCCCCCCCc
Q psy8513 25 LKCWNCLKS-LS-------GKSLFCQHCSSVQ 48 (183)
Q Consensus 25 ~~Cw~C~~~-~~-------~~~~fC~~C~~~q 48 (183)
..|++||.. +. ...|+|++|+.--
T Consensus 32 ~yCP~Cg~~~L~~f~NN~PVaDF~C~~C~eey 63 (254)
T PF06044_consen 32 MYCPNCGSKPLSKFENNRPVADFYCPNCNEEY 63 (254)
T ss_dssp ---TTT--SS-EE--------EEE-TTT--EE
T ss_pred CcCCCCCChhHhhccCCCccceeECCCCchHH
Confidence 469999996 32 2789999998743
No 152
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=60.62 E-value=4.9 Score=23.61 Aligned_cols=21 Identities=19% Similarity=0.551 Sum_probs=13.0
Q ss_pred CCCCCCCCCCC---CcccCCCCCC
Q psy8513 26 KCWNCLKSLSG---KSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~---~~~fC~~C~~ 46 (183)
.|..|++.+.. ...-|+.||.
T Consensus 2 ~C~~Cg~~~~~~~~~~irC~~CG~ 25 (32)
T PF03604_consen 2 ICGECGAEVELKPGDPIRCPECGH 25 (32)
T ss_dssp BESSSSSSE-BSTSSTSSBSSSS-
T ss_pred CCCcCCCeeEcCCCCcEECCcCCC
Confidence 36777775443 6677888775
No 153
>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=60.17 E-value=6.8 Score=36.56 Aligned_cols=29 Identities=31% Similarity=0.439 Sum_probs=22.3
Q ss_pred CCCCCCCCCCCCC----CCcccCCCCCCCcCCC
Q psy8513 23 LELKCWNCLKSLS----GKSLFCQHCSSVQKPD 51 (183)
Q Consensus 23 ~~~~Cw~C~~~~~----~~~~fC~~C~~~q~~~ 51 (183)
....|++|+.++. .+.+.|+.|+..++++
T Consensus 221 ~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~ 253 (505)
T TIGR00595 221 YILCCPNCDVSLTYHKKEGKLRCHYCGYQEPIP 253 (505)
T ss_pred CccCCCCCCCceEEecCCCeEEcCCCcCcCCCC
Confidence 4568999998764 2778899999988744
No 154
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=60.17 E-value=6 Score=23.35 Aligned_cols=21 Identities=24% Similarity=0.425 Sum_probs=15.9
Q ss_pred CCCCCCCCCCC--CcccCCCCCC
Q psy8513 26 KCWNCLKSLSG--KSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~--~~~fC~~C~~ 46 (183)
.|..||..... ..-.||.|++
T Consensus 4 ~C~~CG~i~~g~~~p~~CP~Cg~ 26 (34)
T cd00729 4 VCPVCGYIHEGEEAPEKCPICGA 26 (34)
T ss_pred ECCCCCCEeECCcCCCcCcCCCC
Confidence 68899986443 4568999987
No 155
>PF14260 zf-C4pol: C4-type zinc-finger of DNA polymerase delta
Probab=59.79 E-value=10 Score=25.64 Aligned_cols=46 Identities=24% Similarity=0.553 Sum_probs=29.9
Q ss_pred CCCCCCCCCCCc-ccCCCCCCCcCCCCCCChhhhcCccccCCCCHHHHHHHHHHHHHh
Q psy8513 27 CWNCLKSLSGKS-LFCQHCSSVQKPDPQNNYYNVFDMKMQYLINNADLSKKFKHLQSQ 83 (183)
Q Consensus 27 Cw~C~~~~~~~~-~fC~~C~~~q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~ 83 (183)
|-.|+..+.... .+|+.|.. .| ....|.++. ....++++|.++...
T Consensus 1 C~~C~~~~~~~~~~lC~~C~~-~~---~~~~~~l~~-------~~~~~E~~~~~l~~i 47 (73)
T PF14260_consen 1 CLVCGAKTQEGESPLCSNCRS-DP---QQTIYNLLS-------RLRELERRFNELWTI 47 (73)
T ss_pred CCCCCCcCCCCCCCcCcccCc-Ch---HHHHHHHHH-------HHHHHHHHHHHHHHH
Confidence 778999887644 99999997 22 234444442 126667777776654
No 156
>PF04161 Arv1: Arv1-like family ; InterPro: IPR007290 Arv1 is a transmembrane protein, with potential zinc-binding motifs, that mediates sterol homeostasis. Its action is important in lipid homeostasis, which prevents free sterol toxicity []. Arv1 contains a homology domain (AHD), which consists of an N-terminal cysteine-rich subdomain with a putative zinc-binding motif, followed by a C-terminal subdomain of 33 amino acids. The C-terminal subdomain of the AHD is critical for the protein's function []. In yeast, Arv1p is important for the delivery of an early glycosylphosphatidylinositol GPI intermediate, GlcN-acylPI, to the first mannosyltransferase of GPI synthesis in the ER lumen []. It is important for the traffic of sterol in yeast and in humans. In eukaryotic cells, it may fuction in the sphingolipid metabolic pathway as a transporter of ceramides between the ER and Golgi [].
Probab=59.75 E-value=4.4 Score=33.35 Aligned_cols=50 Identities=20% Similarity=0.399 Sum_probs=33.2
Q ss_pred CCCCCCCCCCC----------CcccCCCCCCCcCCCCCCChhhhcCccccCCCCHHHHH-HHHHHHHH
Q psy8513 26 KCWNCLKSLSG----------KSLFCQHCSSVQKPDPQNNYYNVFDMKMQYLINNADLS-KKFKHLQS 82 (183)
Q Consensus 26 ~Cw~C~~~~~~----------~~~fC~~C~~~q~~~~~~~~f~llgl~~~~~iD~~~Lk-~~Yr~l~~ 82 (183)
.|-+||.+++. .--.|++|+.+...=-.-|..-+| +|.=-+| ++||.+.=
T Consensus 2 iCIeCg~~v~~Ly~~Ys~~~irLt~C~~C~~vaDkYiE~d~vil~-------IDLlLlK~~AYRHllf 62 (208)
T PF04161_consen 2 ICIECGHPVKSLYRQYSPGNIRLTKCPNCGKVADKYIEYDNVILF-------IDLLLLKPQAYRHLLF 62 (208)
T ss_pred EeccCCCcchhhhhccCCCcEEEeeccccCCcccceeccccHHHH-------HHHHHcchhhHHHhhc
Confidence 58999998752 446899999877543333444444 5555665 78888753
No 157
>KOG0724|consensus
Probab=59.27 E-value=13 Score=32.45 Aligned_cols=50 Identities=22% Similarity=0.292 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhH
Q psy8513 70 NADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKR 120 (183)
Q Consensus 70 ~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~R 120 (183)
...|..+|+.....+||++... ....-....+.+..|.+||.+|.+...|
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~k~i~ka~~i~~~~~~~ 55 (335)
T KOG0724|consen 6 EDELRLAYREMALKSHPEKKSF-YEKLSLWTEEEFKKIEKALAILDDDEPR 55 (335)
T ss_pred HHHHHHHHHHHhhhcCcHHHHH-HHHhhhhHHHHHHHHHHHHHHHhccccc
Confidence 4688999999999999999753 0111123456789999999999985554
No 158
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=59.20 E-value=5.7 Score=25.60 Aligned_cols=24 Identities=17% Similarity=0.373 Sum_probs=17.0
Q ss_pred CCCCCCCCC-CCC--CCcccCCCCCCC
Q psy8513 24 ELKCWNCLK-SLS--GKSLFCQHCSSV 47 (183)
Q Consensus 24 ~~~Cw~C~~-~~~--~~~~fC~~C~~~ 47 (183)
...|++|+. -+. ...+.|..|+..
T Consensus 20 ~~fCP~Cg~~~m~~~~~r~~C~~Cgyt 46 (50)
T PRK00432 20 NKFCPRCGSGFMAEHLDRWHCGKCGYT 46 (50)
T ss_pred cCcCcCCCcchheccCCcEECCCcCCE
Confidence 447999988 322 278889999863
No 159
>TIGR00201 comF comF family protein. This protein is found in species that do (Bacillus subtilis, Haemophilus influenzae) or do not (E. coli, Borrelia burgdorferi) have described systems for natural transformation with exogenous DNA. It is involved in competence for transformation in Bacillus subtilis.
Probab=58.89 E-value=5.2 Score=32.14 Aligned_cols=21 Identities=24% Similarity=0.645 Sum_probs=17.0
Q ss_pred CCCCCCCCCCCcccCCCCCCC
Q psy8513 27 CWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 27 Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
|+.|++++.....+|+.|..-
T Consensus 1 C~~C~~~~~~~~~~C~~C~~~ 21 (190)
T TIGR00201 1 CSLCGRPYQSVHALCRQCGSW 21 (190)
T ss_pred CCccccccccccCCchhhCCc
Confidence 899999876566899999874
No 160
>COG3877 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=58.86 E-value=4.9 Score=30.30 Aligned_cols=38 Identities=16% Similarity=0.370 Sum_probs=28.2
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCcCCCCCCChhhhc
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSVQKPDPQNNYYNVF 60 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~q~~~~~~~~f~ll 60 (183)
-...|+-|+..+-...+.|+.|...---.=..+.|+.|
T Consensus 5 ~~~~cPvcg~~~iVTeL~c~~~etTVrg~F~~s~F~~L 42 (122)
T COG3877 5 VINRCPVCGRKLIVTELKCSNCETTVRGNFKMSKFEYL 42 (122)
T ss_pred CCCCCCcccccceeEEEecCCCCceEecceeccccccc
Confidence 45689999997656889999999865544445666665
No 161
>PRK12496 hypothetical protein; Provisional
Probab=58.70 E-value=7 Score=31.15 Aligned_cols=22 Identities=27% Similarity=0.576 Sum_probs=17.4
Q ss_pred CCCCCCCCCCCC--CcccCCCCCC
Q psy8513 25 LKCWNCLKSLSG--KSLFCQHCSS 46 (183)
Q Consensus 25 ~~Cw~C~~~~~~--~~~fC~~C~~ 46 (183)
..|..|++..+. ..-|||-||+
T Consensus 128 ~~C~gC~~~~~~~~~~~~C~~CG~ 151 (164)
T PRK12496 128 KVCKGCKKKYPEDYPDDVCEICGS 151 (164)
T ss_pred EECCCCCccccCCCCCCcCCCCCC
Confidence 459999997753 4578999997
No 162
>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=58.67 E-value=2.9 Score=29.08 Aligned_cols=25 Identities=28% Similarity=0.664 Sum_probs=12.8
Q ss_pred CCCCCCCCCCCC------CcccCCCCCCCcC
Q psy8513 25 LKCWNCLKSLSG------KSLFCQHCSSVQK 49 (183)
Q Consensus 25 ~~Cw~C~~~~~~------~~~fC~~C~~~q~ 49 (183)
..|+.|+.++.. ..+||.+|+.+..
T Consensus 31 a~CPdC~~~Le~LkACGAvdYFC~~c~gLiS 61 (70)
T PF07191_consen 31 AFCPDCGQPLEVLKACGAVDYFCNHCHGLIS 61 (70)
T ss_dssp EE-TTT-SB-EEEEETTEEEEE-TTTT-EE-
T ss_pred ccCCCcccHHHHHHHhcccceeeccCCceee
Confidence 357888887652 5678888877653
No 163
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=57.06 E-value=5.8 Score=23.71 Aligned_cols=23 Identities=30% Similarity=0.846 Sum_probs=16.1
Q ss_pred CCCCCCCCCCC---------CCcccCCCCCCC
Q psy8513 25 LKCWNCLKSLS---------GKSLFCQHCSSV 47 (183)
Q Consensus 25 ~~Cw~C~~~~~---------~~~~fC~~C~~~ 47 (183)
..|++|++... ....-|+.|+.+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~ 34 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHV 34 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCE
Confidence 36899988422 156889999874
No 164
>PRK04023 DNA polymerase II large subunit; Validated
Probab=57.04 E-value=7.5 Score=39.48 Aligned_cols=23 Identities=26% Similarity=0.372 Sum_probs=18.1
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
+...|++||... ..++|+.||..
T Consensus 625 g~RfCpsCG~~t--~~frCP~CG~~ 647 (1121)
T PRK04023 625 GRRKCPSCGKET--FYRRCPFCGTH 647 (1121)
T ss_pred cCccCCCCCCcC--CcccCCCCCCC
Confidence 456788998875 66889889886
No 165
>KOG2807|consensus
Probab=56.61 E-value=6.8 Score=35.01 Aligned_cols=58 Identities=22% Similarity=0.402 Sum_probs=31.1
Q ss_pred CCCcccccccccchhhhcc-----CCCCCCCCCCCCCCCcccCCCCCCCcC--CCCCCChhhhcCccc
Q psy8513 4 IPSAILGSETALCTETAKS-----LELKCWNCLKSLSGKSLFCQHCSSVQK--PDPQNNYYNVFDMKM 64 (183)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~-----~~~~Cw~C~~~~~~~~~fC~~C~~~q~--~~~~~~~f~llgl~~ 64 (183)
+|++-.-.-+++| +.+ +.-.|+.|++.+=.-+.-||.|+-..- |.-.+.|.-+|-|.+
T Consensus 254 FP~~~~e~~ps~C---~CH~~~~~~Gy~CP~CkakvCsLP~eCpiC~ltLVss~hLARSyhhL~PL~~ 318 (378)
T KOG2807|consen 254 FPSRSPEDTPSFC---ACHSELSGGGYFCPQCKAKVCSLPIECPICSLTLVSSPHLARSYHHLFPLKP 318 (378)
T ss_pred CCCcccccCcchh---eeccccccCceeCCcccCeeecCCccCCccceeEecchHHHHHHHhhcCCcc
Confidence 4555544445555 322 233577777765445566777776332 223346666665543
No 166
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=56.45 E-value=6.1 Score=26.99 Aligned_cols=35 Identities=9% Similarity=0.252 Sum_probs=24.0
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCcCCCCCCChhhhcCc
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSVQKPDPQNNYYNVFDM 62 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~q~~~~~~~~f~llgl 62 (183)
.-..|-+|+..+. .-.||.|++- .-+.||.-++-+
T Consensus 4 ~~~AC~~C~~i~~--~~~Cp~Cgs~---~~S~~w~G~v~i 38 (64)
T PRK06393 4 QYRACKKCKRLTP--EKTCPVHGDE---KTTTEWFGFLII 38 (64)
T ss_pred hhhhHhhCCcccC--CCcCCCCCCC---cCCcCcceEEEE
Confidence 3457999999884 4499999994 223466655544
No 167
>PRK11827 hypothetical protein; Provisional
Probab=56.00 E-value=7.8 Score=26.09 Aligned_cols=28 Identities=18% Similarity=0.215 Sum_probs=22.6
Q ss_pred CCCCCCCCCCCC----CcccCCCCCCCcCCCC
Q psy8513 25 LKCWNCLKSLSG----KSLFCQHCSSVQKPDP 52 (183)
Q Consensus 25 ~~Cw~C~~~~~~----~~~fC~~C~~~q~~~~ 52 (183)
..|+.|++++.. ..+.|..|+..-|+..
T Consensus 9 LaCP~ckg~L~~~~~~~~Lic~~~~laYPI~d 40 (60)
T PRK11827 9 IACPVCNGKLWYNQEKQELICKLDNLAFPLRD 40 (60)
T ss_pred eECCCCCCcCeEcCCCCeEECCccCeeccccC
Confidence 479999998754 5699999999888754
No 168
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=55.99 E-value=6.9 Score=38.39 Aligned_cols=28 Identities=25% Similarity=0.399 Sum_probs=20.8
Q ss_pred CCCCCCCCCCCCC----CcccCCCCCCCcCCC
Q psy8513 24 ELKCWNCLKSLSG----KSLFCQHCSSVQKPD 51 (183)
Q Consensus 24 ~~~Cw~C~~~~~~----~~~fC~~C~~~q~~~ 51 (183)
...|++|+.++.. +.++|+.|+.-++++
T Consensus 444 v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p 475 (730)
T COG1198 444 IAECPNCDSPLTLHKATGQLRCHYCGYQEPIP 475 (730)
T ss_pred cccCCCCCcceEEecCCCeeEeCCCCCCCCCC
Confidence 4478888887643 788888888876654
No 169
>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=55.80 E-value=3.1 Score=24.79 Aligned_cols=26 Identities=23% Similarity=0.420 Sum_probs=15.3
Q ss_pred CCCCCCCCCCC-----CcccCCCCCCCcCCC
Q psy8513 26 KCWNCLKSLSG-----KSLFCQHCSSVQKPD 51 (183)
Q Consensus 26 ~Cw~C~~~~~~-----~~~fC~~C~~~q~~~ 51 (183)
-|+.|+..+-. ....|.+|++..|..
T Consensus 3 FCp~C~nlL~p~~~~~~~~~C~~C~Y~~~~~ 33 (35)
T PF02150_consen 3 FCPECGNLLYPKEDKEKRVACRTCGYEEPIS 33 (35)
T ss_dssp BETTTTSBEEEEEETTTTEEESSSS-EEE-S
T ss_pred eCCCCCccceEcCCCccCcCCCCCCCccCCC
Confidence 47888875432 222688888877753
No 170
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=55.56 E-value=5.2 Score=35.10 Aligned_cols=27 Identities=26% Similarity=0.476 Sum_probs=21.5
Q ss_pred CCCCCCCCCCCC-----CcccCCCCCCCcCCC
Q psy8513 25 LKCWNCLKSLSG-----KSLFCQHCSSVQKPD 51 (183)
Q Consensus 25 ~~Cw~C~~~~~~-----~~~fC~~C~~~q~~~ 51 (183)
..|++|+..+-. +..+||.|++-....
T Consensus 39 ~kc~~C~~~~~~~~l~~~~~vcp~c~~h~rlt 70 (296)
T CHL00174 39 VQCENCYGLNYKKFLKSKMNICEQCGYHLKMS 70 (296)
T ss_pred eECCCccchhhHHHHHHcCCCCCCCCCCcCCC
Confidence 479999997643 778999999976654
No 171
>COG4640 Predicted membrane protein [Function unknown]
Probab=55.44 E-value=6.8 Score=35.85 Aligned_cols=23 Identities=17% Similarity=0.442 Sum_probs=17.4
Q ss_pred CCCCCCCCCCCCCcccCCCCCCC
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
..|++||..-.-...+|+.||+-
T Consensus 2 ~fC~kcG~qk~Ed~~qC~qCG~~ 24 (465)
T COG4640 2 KFCPKCGSQKAEDDVQCTQCGHK 24 (465)
T ss_pred CcccccccccccccccccccCCc
Confidence 36999996444466779999984
No 172
>PRK14873 primosome assembly protein PriA; Provisional
Probab=54.70 E-value=8.4 Score=37.36 Aligned_cols=40 Identities=13% Similarity=0.249 Sum_probs=25.6
Q ss_pred CCCCCCCCCCCCCC----CcccCCCCCCCcCCCCC----CChhhhcCc
Q psy8513 23 LELKCWNCLKSLSG----KSLFCQHCSSVQKPDPQ----NNYYNVFDM 62 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~----~~~fC~~C~~~q~~~~~----~~~f~llgl 62 (183)
....|++|+.++.. +.+.|+.|+...++... ...+..+|+
T Consensus 391 ~~~~C~~C~~~L~~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~~l~~~g~ 438 (665)
T PRK14873 391 TPARCRHCTGPLGLPSAGGTPRCRWCGRAAPDWRCPRCGSDRLRAVVV 438 (665)
T ss_pred CeeECCCCCCceeEecCCCeeECCCCcCCCcCccCCCCcCCcceeeec
Confidence 45578888887653 56889999886654322 234555554
No 173
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=54.46 E-value=9.1 Score=22.25 Aligned_cols=21 Identities=24% Similarity=0.550 Sum_probs=15.6
Q ss_pred CCCCCCCCCCC--CcccCCCCCC
Q psy8513 26 KCWNCLKSLSG--KSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~--~~~fC~~C~~ 46 (183)
.|..||..... ....||.|++
T Consensus 3 ~C~~CGy~y~~~~~~~~CP~Cg~ 25 (33)
T cd00350 3 VCPVCGYIYDGEEAPWVCPVCGA 25 (33)
T ss_pred ECCCCCCEECCCcCCCcCcCCCC
Confidence 57888886443 5778999987
No 174
>KOG1984|consensus
Probab=54.32 E-value=6.3 Score=39.35 Aligned_cols=68 Identities=16% Similarity=0.389 Sum_probs=45.5
Q ss_pred ccCCCCCCCCCCCCCC--------CcccCCCCCCCcCCCCCCChhhhcCcc-ccCCCCH----------HHHHHHHHHHH
Q psy8513 21 KSLELKCWNCLKSLSG--------KSLFCQHCSSVQKPDPQNNYYNVFDMK-MQYLINN----------ADLSKKFKHLQ 81 (183)
Q Consensus 21 ~~~~~~Cw~C~~~~~~--------~~~fC~~C~~~q~~~~~~~~f~llgl~-~~~~iD~----------~~Lk~~Yr~l~ 81 (183)
.+++..||.|.+=+.. ..|.|.=|+..-.+. .+||.-||=. +.-+++. =...+-|-+..
T Consensus 335 ~sgPvRC~RCkaYinPFmqF~~~gr~f~Cn~C~~~n~vp--~~yf~~L~~~grr~D~~erpEL~~Gt~dfvatk~Y~~~~ 412 (1007)
T KOG1984|consen 335 ESGPVRCNRCKAYINPFMQFIDGGRKFICNFCGSKNQVP--DDYFNHLGPTGRRVDVEERPELCLGTVDFVATKDYCRKT 412 (1007)
T ss_pred CCCCcchhhhhhhcCcceEEecCCceEEecCCCccccCC--hhhcccCCCcccccccccCchhcccccceeeehhhhhcC
Confidence 5678999999995443 679999999976653 3788887752 1111110 12346677777
Q ss_pred HhhCCCCCC
Q psy8513 82 SQLHPDKFS 90 (183)
Q Consensus 82 ~~~HPDk~~ 90 (183)
+-.||-.|.
T Consensus 413 k~p~ppafv 421 (1007)
T KOG1984|consen 413 KPPKPPAFV 421 (1007)
T ss_pred CCCCCceEE
Confidence 888888763
No 175
>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=54.07 E-value=7.2 Score=25.65 Aligned_cols=25 Identities=16% Similarity=0.521 Sum_probs=18.7
Q ss_pred CCCCCCCCCCC------CcccCCCCCCCcCC
Q psy8513 26 KCWNCLKSLSG------KSLFCQHCSSVQKP 50 (183)
Q Consensus 26 ~Cw~C~~~~~~------~~~fC~~C~~~q~~ 50 (183)
.|+.|+..+.. ...-|+.|++-.-+
T Consensus 4 ~CP~CG~~iev~~~~~GeiV~Cp~CGaeleV 34 (54)
T TIGR01206 4 ECPDCGAEIELENPELGELVICDECGAELEV 34 (54)
T ss_pred CCCCCCCEEecCCCccCCEEeCCCCCCEEEE
Confidence 79999996543 56789999985443
No 176
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=53.30 E-value=8.6 Score=25.98 Aligned_cols=32 Identities=16% Similarity=0.421 Sum_probs=22.6
Q ss_pred CCCCCCCCCCCCCcccCCCCCCCcCCCCCCChhhhcC
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSSVQKPDPQNNYYNVFD 61 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~~q~~~~~~~~f~llg 61 (183)
..|-+|+..+. .-.||.|++.. -..+||.++=
T Consensus 4 kAC~~C~~i~~--~~~CP~Cgs~~---~T~~W~G~vi 35 (61)
T PRK08351 4 KACRHCHYITT--EDRCPVCGSRD---LSDEWFDLVI 35 (61)
T ss_pred hhhhhCCcccC--CCcCCCCcCCc---cccccccEEE
Confidence 37999999884 34799999944 2356666543
No 177
>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun
Probab=53.26 E-value=6.8 Score=30.63 Aligned_cols=26 Identities=19% Similarity=0.432 Sum_probs=20.8
Q ss_pred CCCCCCCCCCCCCC---CcccCCCCCCCc
Q psy8513 23 LELKCWNCLKSLSG---KSLFCQHCSSVQ 48 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~---~~~fC~~C~~~q 48 (183)
-...|+.|++.+.. ..++|+.|+..-
T Consensus 33 ~Y~aC~~C~kkv~~~~~~~~~C~~C~~~~ 61 (166)
T cd04476 33 WYPACPGCNKKVVEEGNGTYRCEKCNKSV 61 (166)
T ss_pred EEccccccCcccEeCCCCcEECCCCCCcC
Confidence 35589999998765 469999999864
No 178
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=52.85 E-value=6.2 Score=34.35 Aligned_cols=27 Identities=26% Similarity=0.488 Sum_probs=21.4
Q ss_pred CCCCCCCCCCCC-----CcccCCCCCCCcCCC
Q psy8513 25 LKCWNCLKSLSG-----KSLFCQHCSSVQKPD 51 (183)
Q Consensus 25 ~~Cw~C~~~~~~-----~~~fC~~C~~~q~~~ 51 (183)
..|++|+..+-. +..+||.|++-.+..
T Consensus 27 ~~c~~c~~~~~~~~l~~~~~vc~~c~~h~rl~ 58 (285)
T TIGR00515 27 TKCPKCGQVLYTKELERNLEVCPKCDHHMRMD 58 (285)
T ss_pred eECCCCcchhhHHHHHhhCCCCCCCCCcCcCC
Confidence 479999997542 678999999977754
No 179
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=52.84 E-value=7.4 Score=26.25 Aligned_cols=25 Identities=20% Similarity=0.570 Sum_probs=19.9
Q ss_pred CCCCCCCCCCCCCCCcccCC-CCCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQ-HCSSV 47 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~-~C~~~ 47 (183)
.+..|.-||++++...-||+ .|+-|
T Consensus 7 PH~HC~VCg~aIp~de~~CSe~C~ei 32 (64)
T COG4068 7 PHRHCVVCGKAIPPDEQVCSEECGEI 32 (64)
T ss_pred CCccccccCCcCCCccchHHHHHHHH
Confidence 45689999999988889997 66644
No 180
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=52.38 E-value=9.8 Score=27.86 Aligned_cols=28 Identities=25% Similarity=0.609 Sum_probs=20.7
Q ss_pred CCCCCCCCCCCCCC----CcccCCCCCC--CcCC
Q psy8513 23 LELKCWNCLKSLSG----KSLFCQHCSS--VQKP 50 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~----~~~fC~~C~~--~q~~ 50 (183)
.+..|-+||..... .+.-||.|.+ |++|
T Consensus 57 ~Pa~CkkCGfef~~~~ik~pSRCP~CKSE~Ie~p 90 (97)
T COG3357 57 RPARCKKCGFEFRDDKIKKPSRCPKCKSEWIEEP 90 (97)
T ss_pred cChhhcccCccccccccCCcccCCcchhhcccCC
Confidence 36789999996543 4788999987 5554
No 181
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=51.93 E-value=7.9 Score=25.18 Aligned_cols=26 Identities=15% Similarity=0.322 Sum_probs=18.6
Q ss_pred CCCCCCCCCCCCC----CCcccCCCCCCCc
Q psy8513 23 LELKCWNCLKSLS----GKSLFCQHCSSVQ 48 (183)
Q Consensus 23 ~~~~Cw~C~~~~~----~~~~fC~~C~~~q 48 (183)
....|++||.-+- .....|..|+..+
T Consensus 18 k~~~CPrCG~gvfmA~H~dR~~CGkCgyTe 47 (51)
T COG1998 18 KNRFCPRCGPGVFMADHKDRWACGKCGYTE 47 (51)
T ss_pred ccccCCCCCCcchhhhcCceeEeccccceE
Confidence 3557999996322 2778999999764
No 182
>COG3043 NapB Nitrate reductase cytochrome c-type subunit [Energy production and conversion]
Probab=51.55 E-value=7.1 Score=30.98 Aligned_cols=14 Identities=29% Similarity=0.710 Sum_probs=12.2
Q ss_pred CCcccCCCCCCCcC
Q psy8513 36 GKSLFCQHCSSVQK 49 (183)
Q Consensus 36 ~~~~fC~~C~~~q~ 49 (183)
+..+||..|++-|.
T Consensus 124 PRRYFClQCHVPQa 137 (155)
T COG3043 124 PRRYFCLQCHVPQA 137 (155)
T ss_pred ccceeeeecccccc
Confidence 47899999999886
No 183
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=51.42 E-value=14 Score=28.25 Aligned_cols=31 Identities=23% Similarity=0.643 Sum_probs=22.6
Q ss_pred CCCCCCCCCCCC-----C-cccCCCCCCCcCCCCCCC
Q psy8513 25 LKCWNCLKSLSG-----K-SLFCQHCSSVQKPDPQNN 55 (183)
Q Consensus 25 ~~Cw~C~~~~~~-----~-~~fC~~C~~~q~~~~~~~ 55 (183)
+.||=||..... . .+.|++|...--..++.+
T Consensus 1 v~C~fC~~~s~~~~~~~~~~w~C~~C~q~N~f~e~Gd 37 (131)
T PF09779_consen 1 VNCWFCGQNSKVPYDNRNSNWTCPHCEQYNGFDEDGD 37 (131)
T ss_pred CeeccCCCCCCCCCCCCCCeeECCCCCCccCccccCC
Confidence 379999985321 4 499999999776666655
No 184
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=51.35 E-value=6.6 Score=32.26 Aligned_cols=33 Identities=24% Similarity=0.570 Sum_probs=23.7
Q ss_pred CCCCCCCCCCCCC--CcccCCCCCCCcCCCCCCCh
Q psy8513 24 ELKCWNCLKSLSG--KSLFCQHCSSVQKPDPQNNY 56 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--~~~fC~~C~~~q~~~~~~~~ 56 (183)
...|.+|+.++-. ..+.||.|+.+---.-..+|
T Consensus 149 ~A~CsrC~~~L~~~~~~l~Cp~Cg~tEkRKia~~y 183 (188)
T COG1096 149 YARCSRCRAPLVKKGNMLKCPNCGNTEKRKIAKDY 183 (188)
T ss_pred EEEccCCCcceEEcCcEEECCCCCCEEeeeecccc
Confidence 3469999998654 88999999987544333333
No 185
>PF11278 DUF3079: Protein of unknown function (DUF3079); InterPro: IPR021430 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=50.86 E-value=12 Score=24.21 Aligned_cols=31 Identities=35% Similarity=0.645 Sum_probs=21.5
Q ss_pred ccCCCCCCCCCCCCCCCcccCC-CCCCCcCCC
Q psy8513 21 KSLELKCWNCLKSLSGKSLFCQ-HCSSVQKPD 51 (183)
Q Consensus 21 ~~~~~~Cw~C~~~~~~~~~fC~-~C~~~q~~~ 51 (183)
++....||.|.+=-+...+-|. .+..+|.|.
T Consensus 10 ~hPERiCWGCD~YC~a~~l~CGNGs~RtqHP~ 41 (52)
T PF11278_consen 10 KHPERICWGCDRYCPADSLACGNGSSRTQHPA 41 (52)
T ss_pred CCccceeeccccccChhhhcccCCcccccCch
Confidence 3456789999996656778887 355566654
No 186
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=50.48 E-value=4.8 Score=35.82 Aligned_cols=60 Identities=18% Similarity=0.406 Sum_probs=36.6
Q ss_pred CCCcccccccccc--hhhhccCCCCCCCCCCCCCCCcccCCCCCCCcCC--CCCCChhhhcCcc
Q psy8513 4 IPSAILGSETALC--TETAKSLELKCWNCLKSLSGKSLFCQHCSSVQKP--DPQNNYYNVFDMK 63 (183)
Q Consensus 4 ~~~~~~~~~~~~~--~~~~~~~~~~Cw~C~~~~~~~~~fC~~C~~~q~~--~~~~~~f~llgl~ 63 (183)
+||+..-.-.+.| +..-+.+.-.|++|+..+-.-+..||.|.-..-. .-.+.|.-++-|.
T Consensus 286 FPs~~~E~~Ps~CaCHs~~~~gGy~CP~CktkVCsLPi~CP~Csl~LilsthLarSyhhL~PLk 349 (421)
T COG5151 286 FPSPMMEQLPSVCACHSEVKGGGYECPVCKTKVCSLPISCPICSLQLILSTHLARSYHHLYPLK 349 (421)
T ss_pred CCchhhhcCccceeeeeeeccCceeCCcccceeecCCccCcchhHHHHHHHHHHHHHHhhccCc
Confidence 5666655555555 2222344567999998776667889988764332 2334666666664
No 187
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=50.23 E-value=7.2 Score=34.05 Aligned_cols=28 Identities=21% Similarity=0.367 Sum_probs=21.4
Q ss_pred CCCCCCCCCCCCC-----CcccCCCCCCCcCCC
Q psy8513 24 ELKCWNCLKSLSG-----KSLFCQHCSSVQKPD 51 (183)
Q Consensus 24 ~~~Cw~C~~~~~~-----~~~fC~~C~~~q~~~ 51 (183)
-..|++|+..+-. +..+|+.|++-....
T Consensus 27 ~~~c~~c~~~~~~~~l~~~~~vc~~c~~h~rl~ 59 (292)
T PRK05654 27 WTKCPSCGQVLYRKELEANLNVCPKCGHHMRIS 59 (292)
T ss_pred eeECCCccchhhHHHHHhcCCCCCCCCCCeeCC
Confidence 3479999997542 678999999976654
No 188
>PHA02942 putative transposase; Provisional
Probab=49.71 E-value=12 Score=33.75 Aligned_cols=27 Identities=15% Similarity=0.477 Sum_probs=19.8
Q ss_pred CCCCCCCCCCCCC---CCcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKSLS---GKSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~~~---~~~~fC~~C~~~q~ 49 (183)
.+..|+.||.... ...|.|++||....
T Consensus 324 TSq~Cs~CG~~~~~l~~r~f~C~~CG~~~d 353 (383)
T PHA02942 324 SSVSCPKCGHKMVEIAHRYFHCPSCGYEND 353 (383)
T ss_pred CCccCCCCCCccCcCCCCEEECCCCCCEeC
Confidence 3557999997543 25689999999654
No 189
>PRK05580 primosome assembly protein PriA; Validated
Probab=49.36 E-value=12 Score=36.29 Aligned_cols=29 Identities=28% Similarity=0.543 Sum_probs=21.8
Q ss_pred CCCCCCCCCCCCC----CCcccCCCCCCCcCCC
Q psy8513 23 LELKCWNCLKSLS----GKSLFCQHCSSVQKPD 51 (183)
Q Consensus 23 ~~~~Cw~C~~~~~----~~~~fC~~C~~~q~~~ 51 (183)
....|++|+.++. .+.+.|+.|+..++++
T Consensus 389 ~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~ 421 (679)
T PRK05580 389 WVAECPHCDASLTLHRFQRRLRCHHCGYQEPIP 421 (679)
T ss_pred CccCCCCCCCceeEECCCCeEECCCCcCCCCCC
Confidence 3557999998764 3778899999987743
No 190
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=48.60 E-value=13 Score=28.19 Aligned_cols=40 Identities=18% Similarity=0.397 Sum_probs=30.8
Q ss_pred CCCCCCCCCCCCcccCCCCCC--CcCCCCCCChhhhcCcccc
Q psy8513 26 KCWNCLKSLSGKSLFCQHCSS--VQKPDPQNNYYNVFDMKMQ 65 (183)
Q Consensus 26 ~Cw~C~~~~~~~~~fC~~C~~--~q~~~~~~~~f~llgl~~~ 65 (183)
.|+.|+..+-.-+..|+.|+- |.++.-.+.|.-+|-+++=
T Consensus 3 ~CPrC~skvC~LP~~CpiCgLtLVss~HLARSyHHLfPl~~f 44 (112)
T TIGR00622 3 FCPQCRAKVCELPVECPICGLTLILSTHLARSYHHLFPLKAF 44 (112)
T ss_pred cCCCCCCCccCCCCcCCcCCCEEeccchHHHhhhccCCCccc
Confidence 599999977656688999998 4455556789999988753
No 191
>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=48.05 E-value=8.5 Score=30.30 Aligned_cols=28 Identities=21% Similarity=0.442 Sum_probs=19.8
Q ss_pred ccCCCCCCCCCCCCC----CCcccCCCCCCCc
Q psy8513 21 KSLELKCWNCLKSLS----GKSLFCQHCSSVQ 48 (183)
Q Consensus 21 ~~~~~~Cw~C~~~~~----~~~~fC~~C~~~q 48 (183)
+.+...|-+||..+. ..-..||.|+..+
T Consensus 109 g~G~l~C~~Cg~~~~~~~~~~l~~Cp~C~~~~ 140 (146)
T PF07295_consen 109 GPGTLVCENCGHEVELTHPERLPPCPKCGHTE 140 (146)
T ss_pred cCceEecccCCCEEEecCCCcCCCCCCCCCCe
Confidence 345668999998543 2667899998743
No 192
>COG4307 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.65 E-value=5.9 Score=34.59 Aligned_cols=27 Identities=22% Similarity=0.428 Sum_probs=22.6
Q ss_pred CCCCCCCCCCCCCcccCCCCCCCcCCC
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSSVQKPD 51 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~~q~~~ 51 (183)
-.|.+|+.++.-...+|-+|++.....
T Consensus 4 FhC~~CgQ~v~FeN~~C~~Cg~~Lg~~ 30 (349)
T COG4307 4 FHCPNCGQRVAFENSACLSCGSALGFS 30 (349)
T ss_pred ccCCCCCCeeeecchHHHhhhhHhhhc
Confidence 379999999887889999999976533
No 193
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=47.64 E-value=13 Score=25.47 Aligned_cols=28 Identities=18% Similarity=0.134 Sum_probs=19.9
Q ss_pred CCCCCCCCCCCCC-------CcccCCCCCCCcCCC
Q psy8513 24 ELKCWNCLKSLSG-------KSLFCQHCSSVQKPD 51 (183)
Q Consensus 24 ~~~Cw~C~~~~~~-------~~~fC~~C~~~q~~~ 51 (183)
-.+||.|+..... ..++|..|++.-|..
T Consensus 6 lKPCPFCG~~~~~v~~~~g~~~v~C~~CgA~~~~~ 40 (64)
T PRK09710 6 VKPCPFCGCPSVTVKAISGYYRAKCNGCESRTGYG 40 (64)
T ss_pred ccCCCCCCCceeEEEecCceEEEEcCCCCcCcccc
Confidence 3589999985321 568899999965543
No 194
>KOG2893|consensus
Probab=47.25 E-value=8 Score=33.31 Aligned_cols=27 Identities=26% Similarity=0.665 Sum_probs=20.5
Q ss_pred ccCCCCCCCCCCCCCC----------CcccCCCCCCC
Q psy8513 21 KSLELKCWNCLKSLSG----------KSLFCQHCSSV 47 (183)
Q Consensus 21 ~~~~~~Cw~C~~~~~~----------~~~fC~~C~~~ 47 (183)
+....+||-|++.... ..|.|+-|+.-
T Consensus 7 k~~kpwcwycnrefddekiliqhqkakhfkchichkk 43 (341)
T KOG2893|consen 7 KVDKPWCWYCNREFDDEKILIQHQKAKHFKCHICHKK 43 (341)
T ss_pred ccCCceeeecccccchhhhhhhhhhhccceeeeehhh
Confidence 3467899999996432 77899999873
No 195
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=46.89 E-value=17 Score=31.75 Aligned_cols=28 Identities=18% Similarity=0.309 Sum_probs=22.8
Q ss_pred CCCCCCCCCCCCCC----CcccCCCCCCCcCC
Q psy8513 23 LELKCWNCLKSLSG----KSLFCQHCSSVQKP 50 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~----~~~fC~~C~~~q~~ 50 (183)
...-|.+||.+... ....|++|+..+=|
T Consensus 110 ~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~fP 141 (279)
T COG2816 110 SHRFCGRCGTKTYPREGGWARVCPKCGHEHFP 141 (279)
T ss_pred hCcCCCCCCCcCccccCceeeeCCCCCCccCC
Confidence 35689999997654 88999999997755
No 196
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=46.60 E-value=9.5 Score=30.40 Aligned_cols=21 Identities=29% Similarity=0.564 Sum_probs=15.8
Q ss_pred CCCCCCCCCC---------------CCcccCCCCCC
Q psy8513 26 KCWNCLKSLS---------------GKSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~---------------~~~~fC~~C~~ 46 (183)
.|++|+.... .-.|.|++||.
T Consensus 2 ~Cp~C~~~~~~~~~~~~IP~F~evii~sf~C~~CGy 37 (160)
T smart00709 2 DCPSCGGNGTTRMLLTSIPYFREVIIMSFECEHCGY 37 (160)
T ss_pred cCCCCCCCCEEEEEEecCCCcceEEEEEEECCCCCC
Confidence 6999987522 15789999997
No 197
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=46.31 E-value=7.4 Score=23.36 Aligned_cols=23 Identities=17% Similarity=0.463 Sum_probs=18.0
Q ss_pred CCCCCCCCCC---CCcccCCCCCCCc
Q psy8513 26 KCWNCLKSLS---GKSLFCQHCSSVQ 48 (183)
Q Consensus 26 ~Cw~C~~~~~---~~~~fC~~C~~~q 48 (183)
.|..|+..+- ...++|..|++++
T Consensus 10 ~C~~C~~~~~~~~dG~~yC~~cG~~~ 35 (36)
T PF11781_consen 10 PCPVCGSRWFYSDDGFYYCDRCGHQS 35 (36)
T ss_pred cCCCCCCeEeEccCCEEEhhhCceEc
Confidence 5999998632 3889999999864
No 198
>PRK11586 napB nitrate reductase cytochrome C550 subunit; Provisional
Probab=46.15 E-value=14 Score=29.19 Aligned_cols=16 Identities=25% Similarity=0.629 Sum_probs=13.0
Q ss_pred CCCcccCCCCCCCcCC
Q psy8513 35 SGKSLFCQHCSSVQKP 50 (183)
Q Consensus 35 ~~~~~fC~~C~~~q~~ 50 (183)
....+||..|++-|.-
T Consensus 117 sprRYfCtQCHVPQad 132 (149)
T PRK11586 117 APRRYFCLQCHVPQAD 132 (149)
T ss_pred CccceeeccccCcccc
Confidence 3478999999998873
No 199
>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=46.06 E-value=12 Score=18.90 Aligned_cols=8 Identities=50% Similarity=1.281 Sum_probs=6.7
Q ss_pred CCCCCCCC
Q psy8513 26 KCWNCLKS 33 (183)
Q Consensus 26 ~Cw~C~~~ 33 (183)
.||+|+..
T Consensus 2 ~C~~C~~~ 9 (18)
T PF00098_consen 2 KCFNCGEP 9 (18)
T ss_dssp BCTTTSCS
T ss_pred cCcCCCCc
Confidence 69999885
No 200
>PRK11032 hypothetical protein; Provisional
Probab=45.88 E-value=9.4 Score=30.59 Aligned_cols=28 Identities=25% Similarity=0.444 Sum_probs=20.5
Q ss_pred ccCCCCCCCCCCCCC----CCcccCCCCCCCc
Q psy8513 21 KSLELKCWNCLKSLS----GKSLFCQHCSSVQ 48 (183)
Q Consensus 21 ~~~~~~Cw~C~~~~~----~~~~fC~~C~~~q 48 (183)
+-+...|-+||..+. ..-.-||.|+..+
T Consensus 121 g~G~LvC~~Cg~~~~~~~p~~i~pCp~C~~~~ 152 (160)
T PRK11032 121 GLGNLVCEKCHHHLAFYTPEVLPLCPKCGHDQ 152 (160)
T ss_pred ecceEEecCCCCEEEecCCCcCCCCCCCCCCe
Confidence 446678999999543 2677899998754
No 201
>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=45.36 E-value=5.6 Score=25.98 Aligned_cols=28 Identities=25% Similarity=0.670 Sum_probs=20.9
Q ss_pred CCCCCCCCCCCCC------CcccCCCCCCCcCCC
Q psy8513 24 ELKCWNCLKSLSG------KSLFCQHCSSVQKPD 51 (183)
Q Consensus 24 ~~~Cw~C~~~~~~------~~~fC~~C~~~q~~~ 51 (183)
...|.+|++.+.. -...||.|+.+..+.
T Consensus 4 eiRC~~CnklLa~~g~~~~leIKCpRC~tiN~~~ 37 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIELEIKCPRCKTINHVR 37 (51)
T ss_pred ceeccchhHHHhhhcCccEEEEECCCCCccceEe
Confidence 4579999986543 467899999977654
No 202
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=44.83 E-value=14 Score=33.91 Aligned_cols=29 Identities=14% Similarity=0.479 Sum_probs=23.1
Q ss_pred CCCCCCCCCCCCCC---CcccCCCCCCCcCCC
Q psy8513 23 LELKCWNCLKSLSG---KSLFCQHCSSVQKPD 51 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~---~~~fC~~C~~~q~~~ 51 (183)
..+.|+.||..+.. +-|-|+.|+...+-.
T Consensus 349 ~~p~Cp~Cg~~m~S~G~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 349 VNPVCPRCGGRMKSAGRNGFRCKKCGTRARET 380 (421)
T ss_pred cCCCCCccCCchhhcCCCCcccccccccCCcc
Confidence 45689999997654 589999999977643
No 203
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=44.62 E-value=13 Score=21.59 Aligned_cols=23 Identities=30% Similarity=0.657 Sum_probs=17.2
Q ss_pred CCCCCCCCCCC----CCcccCCCCCCC
Q psy8513 25 LKCWNCLKSLS----GKSLFCQHCSSV 47 (183)
Q Consensus 25 ~~Cw~C~~~~~----~~~~fC~~C~~~ 47 (183)
..|.+|+..+. ...+-|+.|+.+
T Consensus 2 ~~C~~C~t~L~yP~gA~~vrCs~C~~v 28 (31)
T TIGR01053 2 VVCGGCRTLLMYPRGASSVRCALCQTV 28 (31)
T ss_pred cCcCCCCcEeecCCCCCeEECCCCCeE
Confidence 46888988654 277889888875
No 204
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=44.51 E-value=12 Score=30.75 Aligned_cols=21 Identities=29% Similarity=0.638 Sum_probs=15.1
Q ss_pred CCCCCCCCC-------C-C--------CcccCCCCCC
Q psy8513 26 KCWNCLKSL-------S-G--------KSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~-------~-~--------~~~fC~~C~~ 46 (183)
.|++|+... . . -.+.|++||.
T Consensus 2 ~Cp~C~~~~~~~~~~~~~IP~F~evii~sf~C~~CGy 38 (192)
T TIGR00310 2 DCPSCGGECETVMKTVNDIPYFGEVLETSTICEHCGY 38 (192)
T ss_pred cCCCCCCCCEEEEEEEcCCCCcceEEEEEEECCCCCC
Confidence 699998641 1 1 3788999987
No 205
>PRK12366 replication factor A; Reviewed
Probab=44.35 E-value=11 Score=36.37 Aligned_cols=26 Identities=27% Similarity=0.625 Sum_probs=20.5
Q ss_pred CCCCCCCCCCCCC--CcccCCCCCCCcC
Q psy8513 24 ELKCWNCLKSLSG--KSLFCQHCSSVQK 49 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--~~~fC~~C~~~q~ 49 (183)
...|+.|++.+.. ....|+.|+...|
T Consensus 532 y~aCp~CnkKv~~~~g~~~C~~c~~~~p 559 (637)
T PRK12366 532 LYLCPNCRKRVEEVDGEYICEFCGEVEP 559 (637)
T ss_pred EecccccCeEeEcCCCcEECCCCCCCCC
Confidence 4589999998753 5689999998843
No 206
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=44.05 E-value=17 Score=30.90 Aligned_cols=29 Identities=21% Similarity=0.469 Sum_probs=22.2
Q ss_pred CCCCCCCCCCCCCC----CcccCCCCCCCcCCC
Q psy8513 23 LELKCWNCLKSLSG----KSLFCQHCSSVQKPD 51 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~----~~~fC~~C~~~q~~~ 51 (183)
...-|+.||.++.. ....|++|+.+.=|.
T Consensus 98 ~~~fC~~CG~~~~~~~~~~~~~C~~c~~~~yp~ 130 (256)
T PRK00241 98 SHRFCGYCGHPMHPSKTEWAMLCPHCRERYYPR 130 (256)
T ss_pred cCccccccCCCCeecCCceeEECCCCCCEECCC
Confidence 35689999998642 678899999876553
No 207
>PF08447 PAS_3: PAS fold; InterPro: IPR013655 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. The PAS domain contains a sensory box, or S-box domain that occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include haem in the oxygen sensor FixL [], FAD in the redox potential sensor NifL [], and a 4-hydroxycinnamyl chromophore in photoactive yellow protein []. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. This domain has been found in the gene product of the madA gene of the filamentous zygomycete fungus Phycomyces blakesleeanus. It has been shown that MadA encodes a blue-light photoreceptor for phototropism and other light responses. The gene is involved in the phototropic responses associated with sporangiophore growth; they exhibit phototropism by bending toward near-UV and blue wavelengths and away from far-UV wavelengths in a manner that is physiologically similar to plant phototropic responses [].; GO: 0005515 protein binding; PDB: 3NJA_D 3H9W_A 3GDI_B 3ICY_A 3EEH_A 3MR0_B.
Probab=43.95 E-value=6.8 Score=26.26 Aligned_cols=31 Identities=23% Similarity=0.641 Sum_probs=20.7
Q ss_pred CCChhhhcCccccCCCCHHHH-HHHHHHHHHhhCCCCC
Q psy8513 53 QNNYYNVFDMKMQYLINNADL-SKKFKHLQSQLHPDKF 89 (183)
Q Consensus 53 ~~~~f~llgl~~~~~iD~~~L-k~~Yr~l~~~~HPDk~ 89 (183)
+.+++++||+++ +++ ...+..+....|||=.
T Consensus 5 s~~~~~i~G~~~------~~~~~~~~~~~~~~ihpdD~ 36 (91)
T PF08447_consen 5 SDNFYEIFGYSP------EEIGKPDFEEWLERIHPDDR 36 (91)
T ss_dssp -THHHHHHTS-H------HHHTCBEHHHHHHHB-TTTH
T ss_pred eHHHHHHhCCCH------HHhccCCHHHHHhhcCHHHH
Confidence 357899999986 344 4556668889999874
No 208
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=43.40 E-value=12 Score=24.19 Aligned_cols=21 Identities=29% Similarity=0.713 Sum_probs=16.9
Q ss_pred CCCCCCCCCCC----CcccCCCCCC
Q psy8513 26 KCWNCLKSLSG----KSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~----~~~fC~~C~~ 46 (183)
.|-.||+.+.. ...-|+.||+
T Consensus 8 ~C~~Cg~~~~~~~~~~~irCp~Cg~ 32 (49)
T COG1996 8 KCARCGREVELDQETRGIRCPYCGS 32 (49)
T ss_pred EhhhcCCeeehhhccCceeCCCCCc
Confidence 68899987652 7788999997
No 209
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=43.25 E-value=20 Score=23.01 Aligned_cols=23 Identities=22% Similarity=0.547 Sum_probs=15.7
Q ss_pred CCCCCCCCCCCCC--------CcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSG--------KSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--------~~~fC~~C~~ 46 (183)
...|.+|+..-.+ ...+|.+|+-
T Consensus 3 ~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl 33 (52)
T smart00401 3 GRSCSNCGTTETPLWRRGPSGNKTLCNACGL 33 (52)
T ss_pred CCCcCCCCCCCCCccccCCCCCCcEeecccH
Confidence 4578888874322 3488999975
No 210
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=43.04 E-value=14 Score=28.71 Aligned_cols=23 Identities=17% Similarity=0.458 Sum_probs=16.6
Q ss_pred CCCCCCCCCCCCC----CcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSG----KSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~----~~~fC~~C~~ 46 (183)
++.|.+||..... -.--||.||.
T Consensus 1 PH~Ct~Cg~~f~dgs~eil~GCP~CGg 27 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGSKEILSGCPECGG 27 (131)
T ss_pred CcccCcCCCCcCCCcHHHHccCcccCC
Confidence 4689999997654 2356888875
No 211
>PRK05978 hypothetical protein; Provisional
Probab=42.80 E-value=22 Score=28.07 Aligned_cols=37 Identities=19% Similarity=0.328 Sum_probs=23.0
Q ss_pred CCCCCCCCCC-C----CCCcccCCCCCCCcC---CCCCCChhhhc
Q psy8513 24 ELKCWNCLKS-L----SGKSLFCQHCSSVQK---PDPQNNYYNVF 60 (183)
Q Consensus 24 ~~~Cw~C~~~-~----~~~~~fC~~C~~~q~---~~~~~~~f~ll 60 (183)
...|++||.- + -.-..-|+.|+.--. ..-..-||.++
T Consensus 33 ~grCP~CG~G~LF~g~Lkv~~~C~~CG~~~~~~~a~DgpAy~~i~ 77 (148)
T PRK05978 33 RGRCPACGEGKLFRAFLKPVDHCAACGEDFTHHRADDLPAYLVIV 77 (148)
T ss_pred cCcCCCCCCCcccccccccCCCccccCCccccCCccccCcchhHH
Confidence 4589999983 2 125678999997333 22233466555
No 212
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=42.78 E-value=15 Score=31.94 Aligned_cols=27 Identities=26% Similarity=0.559 Sum_probs=20.1
Q ss_pred CCCCCCCCCCC-C----CCCcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKS-L----SGKSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~-~----~~~~~fC~~C~~~q~ 49 (183)
....|+.||.. + .....+|..||.|..
T Consensus 10 ~~~~Cp~Cg~~~iv~d~~~Ge~vC~~CG~Vl~ 41 (310)
T PRK00423 10 EKLVCPECGSDKLIYDYERGEIVCADCGLVIE 41 (310)
T ss_pred cCCcCcCCCCCCeeEECCCCeEeecccCCccc
Confidence 34579999972 2 128899999999764
No 213
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=42.67 E-value=17 Score=27.01 Aligned_cols=27 Identities=22% Similarity=0.501 Sum_probs=18.9
Q ss_pred CCCCCCCCCCCC----CCCcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKSL----SGKSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~~----~~~~~fC~~C~~~q~ 49 (183)
....|.+||... +...-+||+|+....
T Consensus 41 ~~~~C~~Cg~~~~~~~SCk~R~CP~C~~~~~ 71 (111)
T PF14319_consen 41 HRYRCEDCGHEKIVYNSCKNRHCPSCQAKAT 71 (111)
T ss_pred ceeecCCCCceEEecCcccCcCCCCCCChHH
Confidence 345799999842 235569999998643
No 214
>PF13446 RPT: A repeated domain in UCH-protein
Probab=42.57 E-value=93 Score=20.16 Aligned_cols=26 Identities=8% Similarity=0.239 Sum_probs=20.8
Q ss_pred ChhhhcCccccCCCCHHHHHHHHHHHHH
Q psy8513 55 NYYNVFDMKMQYLINNADLSKKFKHLQS 82 (183)
Q Consensus 55 ~~f~llgl~~~~~iD~~~Lk~~Yr~l~~ 82 (183)
+-|+.||++++. +...|-..|+....
T Consensus 6 ~Ay~~Lgi~~~~--~Dd~Ii~~f~~~~~ 31 (62)
T PF13446_consen 6 EAYEILGIDEDT--DDDFIISAFQSKVN 31 (62)
T ss_pred HHHHHhCcCCCC--CHHHHHHHHHHHHH
Confidence 458999998764 45899999988776
No 215
>PF14369 zf-RING_3: zinc-finger
Probab=42.40 E-value=15 Score=21.80 Aligned_cols=21 Identities=19% Similarity=0.589 Sum_probs=13.7
Q ss_pred CCCCCCCCCCC-----CcccCCCCCC
Q psy8513 26 KCWNCLKSLSG-----KSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~-----~~~fC~~C~~ 46 (183)
.|-.|.+.+.. ...+||.|+.
T Consensus 4 wCh~C~~~V~~~~~~~~~~~CP~C~~ 29 (35)
T PF14369_consen 4 WCHQCNRFVRIAPSPDSDVACPRCHG 29 (35)
T ss_pred eCccCCCEeEeCcCCCCCcCCcCCCC
Confidence 68888875442 3335888875
No 216
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=40.72 E-value=16 Score=27.77 Aligned_cols=25 Identities=20% Similarity=0.486 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCCCC---------cccCCCCCCCcC
Q psy8513 24 ELKCWNCLKSLSGK---------SLFCQHCSSVQK 49 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~---------~~fC~~C~~~q~ 49 (183)
...| +|+...... .+.||.|+....
T Consensus 70 ~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~ 103 (124)
T PRK00762 70 EIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRA 103 (124)
T ss_pred eEEe-eCcCcccccccchhccccCCcCcCCCCCCC
Confidence 4479 999864321 145999997543
No 217
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=40.60 E-value=17 Score=28.28 Aligned_cols=28 Identities=18% Similarity=0.273 Sum_probs=21.7
Q ss_pred CCCCCCCCCCCC-------CCcccCCCCCCCcCCC
Q psy8513 24 ELKCWNCLKSLS-------GKSLFCQHCSSVQKPD 51 (183)
Q Consensus 24 ~~~Cw~C~~~~~-------~~~~fC~~C~~~q~~~ 51 (183)
...|+.|+.|=. ...+.|.+||+..|+.
T Consensus 102 yVlC~~C~spdT~l~k~~r~~~l~C~ACGa~~~V~ 136 (138)
T PRK03988 102 YVICPECGSPDTKLIKEGRIWVLKCEACGAETPVK 136 (138)
T ss_pred cEECCCCCCCCcEEEEcCCeEEEEcccCCCCCcCC
Confidence 468999999622 1567899999998874
No 218
>PF03206 NifW: Nitrogen fixation protein NifW; InterPro: IPR004893 Nitrogenase is a complex metalloenzyme composed of two proteins designated the Fe-protein and the MoFe-protein. Apart from these two proteins, a number of accessory proteins are essential for the maturation and assembly of nitrogenase. Even though experimental evidence suggests that these accessory proteins are required for nitrogenase activity, the exact roles played by many of these proteins in the functions of nitrogenase are unclear []. Using yeast two-hybrid screening it has been shown that NifW can interact with itself as well as NifZ. ; GO: 0009399 nitrogen fixation
Probab=40.10 E-value=91 Score=23.19 Aligned_cols=61 Identities=15% Similarity=0.288 Sum_probs=38.1
Q ss_pred CCCCChhhhcCcccc---CCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 51 DPQNNYYNVFDMKMQ---YLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQ 115 (183)
Q Consensus 51 ~~~~~~f~llgl~~~---~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~ 115 (183)
....+||+.|||+-+ ..+..=-|=++|.+.....++. ...++. +.-...-..+.+||+..-
T Consensus 12 ~sAEdFf~fF~V~YDp~vv~V~RLHILkrF~~yL~~~~~~--~~~~e~--~~~~~~R~~L~~AY~dFv 75 (105)
T PF03206_consen 12 SSAEDFFDFFGVPYDPKVVNVNRLHILKRFGQYLRAADFA--PGLSEE--EDWAAYRRALERAYQDFV 75 (105)
T ss_pred cCHHHHHHHhCCCcchhHHHHhhHHHHHHHHHHHHhccCC--CCCCHH--HHHHHHHHHHHHHHHHHh
Confidence 344689999999832 1222235667888888877665 222332 333455677889998754
No 219
>TIGR00340 zpr1_rel ZPR1-related zinc finger protein. A model ZPR1_znf (TIGR00310) has been created to describe the domain shared by this protein and ZPR1.
Probab=40.06 E-value=14 Score=29.53 Aligned_cols=10 Identities=20% Similarity=0.879 Sum_probs=8.5
Q ss_pred CcccCCCCCC
Q psy8513 37 KSLFCQHCSS 46 (183)
Q Consensus 37 ~~~fC~~C~~ 46 (183)
-.+.|++||.
T Consensus 27 ~sf~C~~CGy 36 (163)
T TIGR00340 27 STYICEKCGY 36 (163)
T ss_pred EEEECCCCCC
Confidence 4788999997
No 220
>KOG3795|consensus
Probab=40.03 E-value=15 Score=30.24 Aligned_cols=37 Identities=16% Similarity=0.389 Sum_probs=25.1
Q ss_pred cCCCCCCCCCCCCCCCcccCCCCCCCcCCCCCCChhhhcCcc
Q psy8513 22 SLELKCWNCLKSLSGKSLFCQHCSSVQKPDPQNNYYNVFDMK 63 (183)
Q Consensus 22 ~~~~~Cw~C~~~~~~~~~fC~~C~~~q~~~~~~~~f~llgl~ 63 (183)
.+...|..|+.+ ..|||-+|-+--++.. .+--.+.||
T Consensus 13 eGRs~C~~C~~S---RkFfCY~C~VPV~vp~--E~~P~vkLP 49 (230)
T KOG3795|consen 13 EGRSTCPGCKSS---RKFFCYDCRVPVPVPG--EFTPTVKLP 49 (230)
T ss_pred cccccCCCCCCc---ceEEEEeeccccCcch--hcccccccc
Confidence 356689999987 6799999998655433 333344444
No 221
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=39.65 E-value=20 Score=32.24 Aligned_cols=21 Identities=19% Similarity=0.305 Sum_probs=15.8
Q ss_pred CCCCCCCCCCCCcccCCCCCC
Q psy8513 26 KCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
.|-+||.......-.||+|+.
T Consensus 2 ~c~~cg~~~~~~~g~cp~c~~ 22 (372)
T cd01121 2 VCSECGYVSPKWLGKCPECGE 22 (372)
T ss_pred CCCCCCCCCCCccEECcCCCC
Confidence 577888876667777888876
No 222
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=39.51 E-value=11 Score=32.84 Aligned_cols=28 Identities=21% Similarity=0.465 Sum_probs=22.0
Q ss_pred CCCCCCCCCC-----CCCcccCCCCCCCcCCCC
Q psy8513 25 LKCWNCLKSL-----SGKSLFCQHCSSVQKPDP 52 (183)
Q Consensus 25 ~~Cw~C~~~~-----~~~~~fC~~C~~~q~~~~ 52 (183)
..|++|+..+ ..+..+|++|++--....
T Consensus 29 ~KCp~c~~~~y~~eL~~n~~vcp~c~~h~ri~A 61 (294)
T COG0777 29 TKCPSCGEMLYRKELESNLKVCPKCGHHMRISA 61 (294)
T ss_pred eECCCccceeeHHHHHhhhhcccccCcccccCH
Confidence 4799999954 348899999999777653
No 223
>PF07709 SRR: Seven Residue Repeat; InterPro: IPR011714 This repeat is found in some Plasmodium and Theileria proteins.
Probab=39.44 E-value=19 Score=17.02 Aligned_cols=13 Identities=23% Similarity=0.240 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHhc
Q psy8513 103 YSSYLNKAYSILQ 115 (183)
Q Consensus 103 ~s~~In~AY~tL~ 115 (183)
.+..|..||+.|+
T Consensus 2 ~~~~V~~aY~~l~ 14 (14)
T PF07709_consen 2 KFEKVKNAYEQLS 14 (14)
T ss_pred cHHHHHHHHHhcC
Confidence 3566778887764
No 224
>PRK07218 replication factor A; Provisional
Probab=38.83 E-value=20 Score=33.03 Aligned_cols=25 Identities=16% Similarity=0.348 Sum_probs=20.2
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCCcCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSSVQKP 50 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~~q~~ 50 (183)
-..||.|++.+. ...|+.|+.+-|.
T Consensus 297 i~rCP~C~r~v~--~~~C~~hG~ve~~ 321 (423)
T PRK07218 297 IERCPECGRVIQ--KGQCRSHGAVEGE 321 (423)
T ss_pred eecCcCcccccc--CCcCCCCCCcCCe
Confidence 358999999984 4799999987553
No 225
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=38.68 E-value=13 Score=30.01 Aligned_cols=27 Identities=22% Similarity=0.571 Sum_probs=21.1
Q ss_pred CCCCCCCCCCCC---CCcccCCCCCCCcCC
Q psy8513 24 ELKCWNCLKSLS---GKSLFCQHCSSVQKP 50 (183)
Q Consensus 24 ~~~Cw~C~~~~~---~~~~fC~~C~~~q~~ 50 (183)
...|..|+.++- .+.+.|+.|+.+.+-
T Consensus 149 ~a~~~~~g~~~~~~~~~~~~c~~~~~~e~r 178 (189)
T PRK09521 149 YAMCSRCRTPLVKKGENELKCPNCGNIETR 178 (189)
T ss_pred EEEccccCCceEECCCCEEECCCCCCEEee
Confidence 346999999653 378999999987763
No 226
>COG0333 RpmF Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=38.42 E-value=21 Score=23.75 Aligned_cols=22 Identities=23% Similarity=0.357 Sum_probs=17.4
Q ss_pred CCCCCCCCCCCCCCcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
-..|.+||...- +..+|+.||.
T Consensus 27 ~~~c~~cG~~~l-~Hrvc~~cg~ 48 (57)
T COG0333 27 LSVCPNCGEYKL-PHRVCLKCGY 48 (57)
T ss_pred ceeccCCCCccc-CceEcCCCCC
Confidence 457999998653 7889999985
No 227
>PRK01110 rpmF 50S ribosomal protein L32; Validated
Probab=38.35 E-value=17 Score=24.26 Aligned_cols=21 Identities=0% Similarity=-0.462 Sum_probs=15.8
Q ss_pred CCCCCCCCCCCCCCcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
-..|.+||.... +...|+ ||.
T Consensus 27 ~~~c~~cg~~~~-pH~vc~-cG~ 47 (60)
T PRK01110 27 LSVDKTTGEYHL-PHHVSP-KGY 47 (60)
T ss_pred eeEcCCCCceec-cceecC-Ccc
Confidence 346999998764 677898 884
No 228
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=37.94 E-value=11 Score=37.68 Aligned_cols=20 Identities=15% Similarity=0.478 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhhCCCCCC
Q psy8513 71 ADLSKKFKHLQSQLHPDKFS 90 (183)
Q Consensus 71 ~~Lk~~Yr~l~~~~HPDk~~ 90 (183)
..+.+++.++--+-.||.+.
T Consensus 714 ~~~~~A~e~lg~r~~~~~~K 733 (900)
T PF03833_consen 714 EEYDRALENLGERENPDELK 733 (900)
T ss_dssp --------------------
T ss_pred HHHHHHHHhhccccchhhhh
Confidence 35566666666555566653
No 229
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=37.94 E-value=16 Score=27.39 Aligned_cols=27 Identities=26% Similarity=0.561 Sum_probs=21.2
Q ss_pred CCCCCCCCCC------CCcccCCCCCCCcCCCC
Q psy8513 26 KCWNCLKSLS------GKSLFCQHCSSVQKPDP 52 (183)
Q Consensus 26 ~Cw~C~~~~~------~~~~fC~~C~~~q~~~~ 52 (183)
.|++||..+- ...+.|++|+...+...
T Consensus 4 FCp~Cgsll~p~~~~~~~~l~C~kCgye~~~~~ 36 (113)
T COG1594 4 FCPKCGSLLYPKKDDEGGKLVCRKCGYEEEASN 36 (113)
T ss_pred ccCCccCeeEEeEcCCCcEEECCCCCcchhccc
Confidence 6999998532 26899999999888764
No 230
>PRK14102 nifW nitrogenase stabilizing/protective protein; Provisional
Probab=37.87 E-value=1.3e+02 Score=22.54 Aligned_cols=61 Identities=18% Similarity=0.414 Sum_probs=37.8
Q ss_pred CCCChhhhcCcccc---CCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 52 PQNNYYNVFDMKMQ---YLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQ 115 (183)
Q Consensus 52 ~~~~~f~llgl~~~---~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~ 115 (183)
...+||+.|||+-+ ..+..=-|=++|.+.....+.+.- ..++ .+.-...-..+.+||+...
T Consensus 13 sAEdFf~ff~v~YDp~vvnV~RLHILkrf~qyl~~~~~~~~-~~~e--~~~~~~yr~~L~~AY~dF~ 76 (105)
T PRK14102 13 DAEDYFQFFELPYDPTVVNVNRLHILKQFSQLIAEIDANFP-DLSE--EEKLEKYQLALEEAYQVFL 76 (105)
T ss_pred cHHHHHHHhCCCCCcchhhHHHHHHHHHHHHHHHHhccccC-CCCH--HHHHHHHHHHHHHHHHHHc
Confidence 44689999999733 233333566788887776664432 2233 3334456678889998753
No 231
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.70 E-value=14 Score=26.40 Aligned_cols=23 Identities=26% Similarity=0.457 Sum_probs=16.4
Q ss_pred CCCCCCCCCCC------CcccCCCCCCCc
Q psy8513 26 KCWNCLKSLSG------KSLFCQHCSSVQ 48 (183)
Q Consensus 26 ~Cw~C~~~~~~------~~~fC~~C~~~q 48 (183)
.|++|+..+.. .--.||.|+-+-
T Consensus 3 lCP~C~v~l~~~~rs~vEiD~CPrCrGVW 31 (88)
T COG3809 3 LCPICGVELVMSVRSGVEIDYCPRCRGVW 31 (88)
T ss_pred ccCcCCceeeeeeecCceeeeCCccccEe
Confidence 69999986432 456799998754
No 232
>PRK08579 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=37.67 E-value=25 Score=33.91 Aligned_cols=25 Identities=28% Similarity=0.514 Sum_probs=20.0
Q ss_pred cCCCCCCCCCCCCCCCcccCCCCCC
Q psy8513 22 SLELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 22 ~~~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
..-..|..||.........||.|+.
T Consensus 566 p~~~~C~~CG~~~~g~~~~CP~CGs 590 (625)
T PRK08579 566 PAITVCNKCGRSTTGLYTRCPRCGS 590 (625)
T ss_pred CCCccCCCCCCccCCCCCcCcCCCC
Confidence 3456899999965557799999997
No 233
>PRK11823 DNA repair protein RadA; Provisional
Probab=37.49 E-value=21 Score=32.75 Aligned_cols=26 Identities=15% Similarity=0.281 Sum_probs=19.9
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCCcC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSSVQK 49 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~~q~ 49 (183)
...|-+||.......-.||+|+.--.
T Consensus 7 ~y~C~~Cg~~~~~~~g~Cp~C~~w~t 32 (446)
T PRK11823 7 AYVCQECGAESPKWLGRCPECGAWNT 32 (446)
T ss_pred eEECCcCCCCCcccCeeCcCCCCccc
Confidence 34799999987778888999987443
No 234
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=37.02 E-value=27 Score=21.14 Aligned_cols=21 Identities=29% Similarity=0.806 Sum_probs=14.3
Q ss_pred CCCCCCCCCCCcccCCCCCCC
Q psy8513 27 CWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 27 Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
|+.|+..+....+.|..|+.+
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~ 21 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNL 21 (39)
T ss_pred CcccCCcccccCeECCccCCc
Confidence 677887665446778777753
No 235
>KOG2906|consensus
Probab=36.43 E-value=11 Score=27.98 Aligned_cols=26 Identities=23% Similarity=0.399 Sum_probs=20.4
Q ss_pred CCCCCCCCCC------CCcccCCCCCCCcCCC
Q psy8513 26 KCWNCLKSLS------GKSLFCQHCSSVQKPD 51 (183)
Q Consensus 26 ~Cw~C~~~~~------~~~~fC~~C~~~q~~~ 51 (183)
-|+.||.-+- .+.|+|..|..+-|+.
T Consensus 3 FCP~Cgn~Live~g~~~~rf~C~tCpY~~~I~ 34 (105)
T KOG2906|consen 3 FCPTCGNMLIVESGESCNRFSCRTCPYVFPIS 34 (105)
T ss_pred ccCCCCCEEEEecCCeEeeEEcCCCCceeeEe
Confidence 5889988432 2789999999998876
No 236
>KOG2463|consensus
Probab=36.35 E-value=12 Score=33.52 Aligned_cols=24 Identities=29% Similarity=0.726 Sum_probs=17.6
Q ss_pred CCCCCCCCCCCCCC-CcccCCCCCC
Q psy8513 23 LELKCWNCLKSLSG-KSLFCQHCSS 46 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~-~~~fC~~C~~ 46 (183)
--..|..|=..... ...||++||.
T Consensus 241 ~iLRCh~Cfsit~~m~k~FCp~CG~ 265 (376)
T KOG2463|consen 241 YILRCHGCFSITSEMPKDFCPSCGH 265 (376)
T ss_pred heeEeeeeeEecCccchhcccccCC
Confidence 34578888776544 6889999986
No 237
>KOG1598|consensus
Probab=36.23 E-value=22 Score=33.63 Aligned_cols=25 Identities=32% Similarity=0.591 Sum_probs=19.8
Q ss_pred CCCCCCCCCC-----CCcccCCCCCCCcCC
Q psy8513 26 KCWNCLKSLS-----GKSLFCQHCSSVQKP 50 (183)
Q Consensus 26 ~Cw~C~~~~~-----~~~~fC~~C~~~q~~ 50 (183)
.|.+||.... .....|..||.|+--
T Consensus 2 ~C~~C~~s~fe~d~a~g~~~C~~CG~v~E~ 31 (521)
T KOG1598|consen 2 VCKNCGGSNFERDEATGNLYCTACGTVLEY 31 (521)
T ss_pred cCCCCCCCCcccccccCCceeccccceeec
Confidence 6999999643 288999999998753
No 238
>KOG4623|consensus
Probab=35.98 E-value=13 Score=35.13 Aligned_cols=25 Identities=28% Similarity=0.710 Sum_probs=19.2
Q ss_pred CCCCCCCCCCCCCC-----CcccCCCCCCC
Q psy8513 23 LELKCWNCLKSLSG-----KSLFCQHCSSV 47 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~-----~~~fC~~C~~~ 47 (183)
..+.||=|++.+.. +..-||+|..-
T Consensus 27 t~VnCwFCnk~t~vpyq~rNswTCpsCEQy 56 (611)
T KOG4623|consen 27 TTVNCWFCNKKTEVPYQGRNSWTCPSCEQY 56 (611)
T ss_pred ceEEEEEecCcceeccCCCCCCcCCcHHhh
Confidence 35689999996532 88999999653
No 239
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=35.34 E-value=22 Score=31.35 Aligned_cols=33 Identities=21% Similarity=0.450 Sum_probs=24.4
Q ss_pred CCCCCCCCCCCCCcccCCCCCCCcCCCCCCChhhhcC
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSSVQKPDPQNNYYNVFD 61 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~~q~~~~~~~~f~llg 61 (183)
..|.-|+..|......|+.|+.- ...+||.+=+
T Consensus 211 L~CslC~teW~~~R~~C~~Cg~~----~~l~y~~~e~ 243 (305)
T TIGR01562 211 LSCSLCATEWHYVRVKCSHCEES----KHLAYLSLEH 243 (305)
T ss_pred EEcCCCCCcccccCccCCCCCCC----CceeeEeecC
Confidence 36888888887788899999973 3467776644
No 240
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=35.25 E-value=21 Score=23.95 Aligned_cols=27 Identities=22% Similarity=0.525 Sum_probs=20.1
Q ss_pred CCCCCCCCCCCC-----CCCcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKSL-----SGKSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~~-----~~~~~fC~~C~~~q~ 49 (183)
-...|+.|+... ......|..|+.+..
T Consensus 10 ~~VkCp~C~n~q~vFsha~t~V~C~~Cg~~L~ 41 (59)
T PRK00415 10 LKVKCPDCGNEQVVFSHASTVVRCLVCGKTLA 41 (59)
T ss_pred EEEECCCCCCeEEEEecCCcEEECcccCCCcc
Confidence 355799999854 447788999999663
No 241
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=35.17 E-value=20 Score=36.79 Aligned_cols=25 Identities=32% Similarity=0.623 Sum_probs=18.4
Q ss_pred CCCCCCCCCCCC----CcccCCCCCCCcC
Q psy8513 25 LKCWNCLKSLSG----KSLFCQHCSSVQK 49 (183)
Q Consensus 25 ~~Cw~C~~~~~~----~~~fC~~C~~~q~ 49 (183)
..|+|||..+.. ..+.|..|=.--+
T Consensus 9 ~~CpNCGG~isseRL~~glpCe~CLp~~~ 37 (1187)
T COG1110 9 SSCPNCGGDISSERLEKGLPCERCLPEDT 37 (1187)
T ss_pred ccCCCCCCcCcHHHHhcCCCchhccCCcc
Confidence 479999998765 5666888865433
No 242
>PRK09401 reverse gyrase; Reviewed
Probab=35.12 E-value=19 Score=37.22 Aligned_cols=23 Identities=35% Similarity=0.690 Sum_probs=18.3
Q ss_pred CCCCCCCCCCCCC----CcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSG----KSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~----~~~fC~~C~~ 46 (183)
...|+|||.++.. ..+.|..|--
T Consensus 7 ~~~cpnc~g~i~~~rl~~g~~c~~cl~ 33 (1176)
T PRK09401 7 KNSCPNCGGDISDERLEKGLPCEKCLP 33 (1176)
T ss_pred cccCCCCCCcCcHhHHhcCCcChhhCC
Confidence 3489999998875 6688998865
No 243
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=35.00 E-value=59 Score=22.94 Aligned_cols=53 Identities=9% Similarity=0.071 Sum_probs=31.3
Q ss_pred CCCCCCCCCCCC---C--cccCCCCCCCcCCCCCCChhhhcCccccCCCCHHHHHHHHHHH
Q psy8513 25 LKCWNCLKSLSG---K--SLFCQHCSSVQKPDPQNNYYNVFDMKMQYLINNADLSKKFKHL 80 (183)
Q Consensus 25 ~~Cw~C~~~~~~---~--~~fC~~C~~~q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l 80 (183)
..|+=||..+-. . --.|+-|+.--......+.-.. |=+...++ .+-++.|++.
T Consensus 2 ~~CPCCg~~Tl~~~~~~~ydIC~VC~WEdD~~q~~~pd~~-~G~N~~SL--~eAr~ny~~~ 59 (78)
T PF14206_consen 2 YPCPCCGYYTLEERGEGTYDICPVCFWEDDGVQLRDPDYY-GGANHMSL--NEARENYKKF 59 (78)
T ss_pred ccCCCCCcEEeccCCCcCceECCCCCcccCCccccCCccc-CCCCHHHH--HHHHHHHHHH
Confidence 479999985422 2 5589999986665432222222 33334444 7778888764
No 244
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=34.90 E-value=25 Score=27.26 Aligned_cols=28 Identities=18% Similarity=0.417 Sum_probs=21.0
Q ss_pred CCCCCCCCCCCCC-------CcccCCCCCCCcCCC
Q psy8513 24 ELKCWNCLKSLSG-------KSLFCQHCSSVQKPD 51 (183)
Q Consensus 24 ~~~Cw~C~~~~~~-------~~~fC~~C~~~q~~~ 51 (183)
.+.|+.|+.|=.. ..+.|.+||+..|+.
T Consensus 97 yVlC~~C~sPdT~l~k~~r~~~l~C~ACGa~~~v~ 131 (133)
T TIGR00311 97 YVICRECNRPDTRIIKEGRVSLLKCEACGAKAPLR 131 (133)
T ss_pred eEECCCCCCCCcEEEEeCCeEEEecccCCCCCccC
Confidence 4679999997221 346899999988874
No 245
>KOG1818|consensus
Probab=34.90 E-value=31 Score=33.35 Aligned_cols=23 Identities=35% Similarity=0.709 Sum_probs=17.4
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCcCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSVQKPD 51 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~q~~~ 51 (183)
.++.|.+||. .||..|....-+-
T Consensus 180 rkHHCr~CG~------vFC~qcss~s~~l 202 (634)
T KOG1818|consen 180 RKHHCRNCGQ------VFCGQCSSKSLTL 202 (634)
T ss_pred ccccccccch------hhccCccccccCc
Confidence 4568999976 6999998865543
No 246
>PTZ00073 60S ribosomal protein L37; Provisional
Probab=34.85 E-value=26 Score=25.49 Aligned_cols=24 Identities=25% Similarity=0.477 Sum_probs=19.6
Q ss_pred CCCCCCCCCC-CCCCCcccCCCCCC
Q psy8513 23 LELKCWNCLK-SLSGKSLFCQHCSS 46 (183)
Q Consensus 23 ~~~~Cw~C~~-~~~~~~~fC~~C~~ 46 (183)
....|-.||. +.....-.|.+|+.
T Consensus 15 tHtlCrRCG~~syH~qK~~CasCGy 39 (91)
T PTZ00073 15 THTLCRRCGKRSFHVQKKRCASCGY 39 (91)
T ss_pred CcchhcccCccccccccccchhcCC
Confidence 4568999999 45558889999999
No 247
>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=34.72 E-value=18 Score=22.10 Aligned_cols=21 Identities=29% Similarity=0.770 Sum_probs=12.8
Q ss_pred CCCCCCCC------CC-CCcccCCCCCC
Q psy8513 26 KCWNCLKS------LS-GKSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~------~~-~~~~fC~~C~~ 46 (183)
.|.+||.. +. .....||.|+.
T Consensus 7 ~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 7 RCEECGHEFEVLQSISEDDPVPCPECGS 34 (42)
T ss_pred EeCCCCCEEEEEEEcCCCCCCcCCCCCC
Confidence 57777752 11 15677777776
No 248
>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=33.83 E-value=37 Score=27.82 Aligned_cols=60 Identities=13% Similarity=0.133 Sum_probs=38.4
Q ss_pred CCCCCCCCCCCCC--CcccCCCCCCCcCCC-CCCChhhhcCccccCCCCHHHHHHHHHHHHHh
Q psy8513 24 ELKCWNCLKSLSG--KSLFCQHCSSVQKPD-PQNNYYNVFDMKMQYLINNADLSKKFKHLQSQ 83 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--~~~fC~~C~~~q~~~-~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~ 83 (183)
...|+.|+..=.. ..--|+.|+----.. .....+.+||+..+..|-.+.-+..|..+...
T Consensus 99 ~~~C~~C~G~G~~i~~~~~C~~C~G~G~v~~~~~~~~k~~g~~~g~~it~~~~~~~~~~~~~~ 161 (186)
T TIGR02642 99 SCKCPRCRGTGLIQRRQRECDTCAGTGRFRPTVEDLLKSFGVDSGAAIVLKDNWPQVVTSVRA 161 (186)
T ss_pred CCcCCCCCCeeEEecCCCCCCCCCCccEEeeeEEEEEEeeeccCCceeeHHHhHHHHHHHHHH
Confidence 5689999985211 235788887633322 23477888998776666666666666665543
No 249
>PF08312 cwf21: cwf21 domain; InterPro: IPR013170 The cwf21 domain is found in proteins involved in mRNA splicing. Proteins containing this domain have been isolated as a subcomplex of the splicosome in Schizosaccharomyces pombe (Fission yeast) []. In yeast, this domain binds the protein Prp8p [], a large and highly conserved U5 snRNP protein which has been proposed as a protein cofactor at the spliceosomal catalytic centre []. The cwf21 domain is found in, amongst others, the small Cwc21p protein in yeast as well as in the much larger human ortholog SRm300 (serine/arginine repetitive matrix protein). ; PDB: 2E62_A.
Probab=33.63 E-value=1.1e+02 Score=19.24 Aligned_cols=14 Identities=36% Similarity=0.620 Sum_probs=11.5
Q ss_pred HHHHHHhHHHhcCC
Q psy8513 145 MEILMLNEELDEAS 158 (183)
Q Consensus 145 me~me~~E~le~a~ 158 (183)
..+|++++.|++-.
T Consensus 11 lk~~elrd~LEe~g 24 (46)
T PF08312_consen 11 LKCLELRDELEEQG 24 (46)
T ss_dssp HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHhCC
Confidence 56899999999854
No 250
>PRK08271 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=33.11 E-value=34 Score=33.06 Aligned_cols=26 Identities=19% Similarity=0.304 Sum_probs=20.0
Q ss_pred ccCCCCCCCCCCCCCCCcccCCCCCC
Q psy8513 21 KSLELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 21 ~~~~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
+..-..|..||.........||.|+.
T Consensus 563 n~~~~iC~~CG~~~~g~~~~CP~CGs 588 (623)
T PRK08271 563 NVKITICNDCHHIDKRTGKRCPICGS 588 (623)
T ss_pred CCCCccCCCCCCcCCCCCcCCcCCCC
Confidence 33456899999864446799999987
No 251
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=33.05 E-value=27 Score=32.23 Aligned_cols=23 Identities=17% Similarity=0.404 Sum_probs=18.6
Q ss_pred CCCCCCCCCCCCCCcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
...|-+||.......-.||+|++
T Consensus 7 ~y~C~~Cg~~~~~~~g~Cp~C~~ 29 (454)
T TIGR00416 7 KFVCQHCGADSPKWQGKCPACHA 29 (454)
T ss_pred eEECCcCCCCCccccEECcCCCC
Confidence 34799999987777888999987
No 252
>PF03367 zf-ZPR1: ZPR1 zinc-finger domain; InterPro: IPR004457 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 ZPR1-type zinc finger domains. An orthologous protein found once in each of the completed archaeal genomes corresponds to a zinc finger-containing domain repeated as the N-terminal and C-terminal halves of the mouse protein ZPR1. ZPR1 is an experimentally proven zinc-binding protein that binds the tyrosine kinase domain of the epidermal growth factor receptor (EGFR); binding is inhibited by EGF stimulation and tyrosine phosphorylation, and activation by EGF is followed by some redistribution of ZPR1 to the nucleus. By analogy, other proteins with the ZPR1 zinc finger domain may be regulatory proteins that sense protein phosphorylation state and/or participate in signal transduction (see also IPR004470 from INTERPRO). Deficiencies in ZPR1 may contribute to neurodegenerative disorders. ZPR1 appears to be down-regulated in patients with spinal muscular atrophy (SMA), a disease characterised by degeneration of the alpha-motor neurons in the spinal cord that can arise from mutations affecting the expression of Survival Motor Neurons (SMN) []. ZPR1 interacts with complexes formed by SMN [], and may act as a modifier that effects the severity of SMA. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2QKD_A.
Probab=32.98 E-value=15 Score=29.20 Aligned_cols=21 Identities=33% Similarity=0.605 Sum_probs=12.7
Q ss_pred CCCCCCCCCC---------------CCcccCCCCCC
Q psy8513 26 KCWNCLKSLS---------------GKSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~---------------~~~~fC~~C~~ 46 (183)
.|++|+.... ...|.|++||.
T Consensus 3 ~Cp~C~~~~~~~~~~~~IP~F~evii~sf~C~~CGy 38 (161)
T PF03367_consen 3 LCPNCGENGTTRILLTDIPYFKEVIIMSFECEHCGY 38 (161)
T ss_dssp E-TTTSSCCEEEEEEEEETTTEEEEEEEEE-TTT--
T ss_pred cCCCCCCCcEEEEEEEcCCCCceEEEEEeECCCCCC
Confidence 6999999621 16789999997
No 253
>PF01194 RNA_pol_N: RNA polymerases N / 8 kDa subunit; InterPro: IPR000268 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. Archaebacterial subunit N (gene rpoN) [] is a small protein of about 8 kDa, it is evolutionary related [] to a 8.3 kDa component shared by all three forms of eukaryotic RNA polymerases (gene RPB10 in yeast and POLR2J in mammals) as well as to African swine fever virus (ASFV) protein CP80R []. There is a conserved region which is located at the N-terminal extremity of these polymerase subunits; this region contains two cysteines that binds a zinc ion [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_N 3HKZ_N 1EF4_A 3H0G_V 2Y0S_N 2R92_J 3M4O_J 3S2D_J 1R9S_J 1Y1W_J ....
Probab=32.86 E-value=27 Score=23.53 Aligned_cols=12 Identities=25% Similarity=0.891 Sum_probs=7.3
Q ss_pred CCCCCCCCCCCC
Q psy8513 24 ELKCWNCLKSLS 35 (183)
Q Consensus 24 ~~~Cw~C~~~~~ 35 (183)
+..|++||+.+.
T Consensus 4 PVRCFTCGkvi~ 15 (60)
T PF01194_consen 4 PVRCFTCGKVIG 15 (60)
T ss_dssp SSS-STTTSBTC
T ss_pred ceecCCCCCChh
Confidence 457777777663
No 254
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=32.41 E-value=26 Score=36.30 Aligned_cols=23 Identities=35% Similarity=0.616 Sum_probs=18.6
Q ss_pred CCCCCCCCCCCCC----CcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSG----KSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~----~~~fC~~C~~ 46 (183)
...|||||.++.. ....|..|--
T Consensus 7 ~~~CPnCgg~i~~~rl~~~~~c~~Clp 33 (1171)
T TIGR01054 7 SNLCPNCGGEISSERLEKGLPCARCLP 33 (1171)
T ss_pred cCCCCCCCCccchhHhhcCCCccccCc
Confidence 4589999998764 7788999964
No 255
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=32.31 E-value=29 Score=26.21 Aligned_cols=38 Identities=8% Similarity=0.323 Sum_probs=22.1
Q ss_pred CcccCCCCCCCcCCCCCCChhhhcCccccCCCCHHHHHHHH
Q psy8513 37 KSLFCQHCSSVQKPDPQNNYYNVFDMKMQYLINNADLSKKF 77 (183)
Q Consensus 37 ~~~fC~~C~~~q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Y 77 (183)
..++||+|+.+..+......|-++ -+|..|.+.+++.+
T Consensus 73 rEyyCP~Cgt~levE~~~Pg~P~~---hD~epDid~fy~~w 110 (112)
T PF08882_consen 73 REYYCPGCGTQLEVEAPPPGYPPI---HDFEPDIDTFYREW 110 (112)
T ss_pred EEEECCCCcceeEEccCCCCCCce---EecccCHHHHHHHh
Confidence 678999999987765433333221 13445556665544
No 256
>PF04640 PLATZ: PLATZ transcription factor; InterPro: IPR006734 This family includes a conserved region in several uncharacterised plant proteins.
Probab=32.06 E-value=29 Score=24.17 Aligned_cols=23 Identities=30% Similarity=0.637 Sum_probs=18.2
Q ss_pred CCCCCCCCCCCCCCCcccCC-CCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQ-HCS 45 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~-~C~ 45 (183)
....|-.|+..+..+..||+ +|.
T Consensus 48 ~~~~C~~C~R~L~d~~~fCSl~CK 71 (72)
T PF04640_consen 48 SGNICETCHRSLQDPYRFCSLSCK 71 (72)
T ss_pred CCCccCCCCCCCCCCCeEEeeeEE
Confidence 46689999999887788997 553
No 257
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=31.99 E-value=27 Score=30.81 Aligned_cols=32 Identities=16% Similarity=0.427 Sum_probs=22.2
Q ss_pred CCCCCCCCCCCCcccCCCCCCCcCCCCCCChhhhcC
Q psy8513 26 KCWNCLKSLSGKSLFCQHCSSVQKPDPQNNYYNVFD 61 (183)
Q Consensus 26 ~Cw~C~~~~~~~~~fC~~C~~~q~~~~~~~~f~llg 61 (183)
.|.-|+..|.-....|+.|+. ....+||.+=+
T Consensus 214 ~CslC~teW~~~R~~C~~Cg~----~~~l~y~~~~~ 245 (309)
T PRK03564 214 HCNLCESEWHVVRVKCSNCEQ----SGKLHYWSLDS 245 (309)
T ss_pred EcCCCCCcccccCccCCCCCC----CCceeeeeecC
Confidence 577777777777788899986 24456765533
No 258
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=31.48 E-value=18 Score=21.96 Aligned_cols=28 Identities=21% Similarity=0.600 Sum_probs=13.9
Q ss_pred CCCCCCCCCCCCC--------CcccCCCCCCCcCCC
Q psy8513 24 ELKCWNCLKSLSG--------KSLFCQHCSSVQKPD 51 (183)
Q Consensus 24 ~~~Cw~C~~~~~~--------~~~fC~~C~~~q~~~ 51 (183)
+..|.+|++-+.+ ....|+-|+...+++
T Consensus 2 p~rC~~C~aylNp~~~~~~~~~~w~C~~C~~~N~lp 37 (40)
T PF04810_consen 2 PVRCRRCRAYLNPFCQFDDGGKTWICNFCGTKNPLP 37 (40)
T ss_dssp S-B-TTT--BS-TTSEEETTTTEEEETTT--EEE--
T ss_pred ccccCCCCCEECCcceEcCCCCEEECcCCCCcCCCC
Confidence 5678899886543 467888888876653
No 259
>PF15136 UPF0449: Uncharacterised protein family UPF0449
Probab=31.36 E-value=1e+02 Score=22.77 Aligned_cols=35 Identities=26% Similarity=0.445 Sum_probs=25.1
Q ss_pred HHHHHhHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhc
Q psy8513 146 EILMLNEELDEASSEEDLENLQTSIRATIEELTKKVN 182 (183)
Q Consensus 146 e~me~~E~le~a~~~~~l~~l~~~~~~~i~~~~~~l~ 182 (183)
.-|++|++|.++. ..|.+-..+++...+++++++.
T Consensus 61 ~Yv~~NerLqqa~--~~Lkkk~e~L~~age~Le~~i~ 95 (97)
T PF15136_consen 61 TYVAMNERLQQAR--DQLKKKCEELRQAGEELERDIE 95 (97)
T ss_pred HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHh
Confidence 3688899999874 5666666677777777776654
No 260
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=31.18 E-value=23 Score=26.57 Aligned_cols=23 Identities=17% Similarity=0.431 Sum_probs=15.5
Q ss_pred CCCCCCCCCCCCC----CcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSG----KSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~----~~~fC~~C~~ 46 (183)
++.|.+||..... -..-||.||.
T Consensus 2 pH~CtrCG~vf~~g~~~il~GCp~CG~ 28 (112)
T COG3364 2 PHQCTRCGEVFDDGSEEILSGCPKCGC 28 (112)
T ss_pred CceecccccccccccHHHHccCccccc
Confidence 4579999986654 2345877775
No 261
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=31.12 E-value=24 Score=28.45 Aligned_cols=27 Identities=19% Similarity=0.386 Sum_probs=18.6
Q ss_pred CCCCCCCCCCCCC---C----------------cccCCCCCCCcCC
Q psy8513 24 ELKCWNCLKSLSG---K----------------SLFCQHCSSVQKP 50 (183)
Q Consensus 24 ~~~Cw~C~~~~~~---~----------------~~fC~~C~~~q~~ 50 (183)
-..|+-|+.++.. . -..|++|+.+-=+
T Consensus 97 ~~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~~~f~~C~~CgkiYW~ 142 (165)
T COG1656 97 FSRCPECNGELEKVSREEVKEKVPEKVYRNYEEFYRCPKCGKIYWK 142 (165)
T ss_pred cccCcccCCEeccCcHHHHhhccchhhhhcccceeECCCCcccccC
Confidence 3489999997542 1 2239999997654
No 262
>COG5041 SKB2 Casein kinase II, beta subunit [Signal transduction mechanisms / Cell division and chromosome partitioning / Transcription]
Probab=31.07 E-value=34 Score=28.79 Aligned_cols=63 Identities=21% Similarity=0.394 Sum_probs=38.6
Q ss_pred CcccCCCCCCCcCCCCCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcC
Q psy8513 37 KSLFCQHCSSVQKPDPQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQN 116 (183)
Q Consensus 37 ~~~fC~~C~~~q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~d 116 (183)
-.++||+|..+-.|... .|- .||-..--..|=.+-.+.||+.+..
T Consensus 148 vkLyCpsC~dlY~p~Ss-r~~---------~iDGa~fGtSFPh~f~~~~pel~p~------------------------- 192 (242)
T COG5041 148 VKLYCPSCEDLYLPKSS-RHQ---------SIDGAFFGTSFPHMFLQTFPELFPK------------------------- 192 (242)
T ss_pred eEEecCchhhhcCcccc-ccc---------ccccchhccCCchHHHHhchhhcCC-------------------------
Confidence 78999999998755433 111 2222223333444556677777654
Q ss_pred chhHHHHHHHhcCCCcccc
Q psy8513 117 PLKRGLYLLSLQNISIEED 135 (183)
Q Consensus 117 p~~Ra~Yll~l~g~~~~~~ 135 (183)
..+..|...+.|..+...
T Consensus 193 -~~~e~YiprIfGfri~~~ 210 (242)
T COG5041 193 -RSCERYIPRIFGFRIHSH 210 (242)
T ss_pred -cchhhhcceeeeeEeehh
Confidence 344678888889888653
No 263
>smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase. This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Probab=29.95 E-value=46 Score=20.14 Aligned_cols=23 Identities=30% Similarity=0.665 Sum_probs=15.8
Q ss_pred CCCCCCCCCC----CCC----CcccCCCCCC
Q psy8513 24 ELKCWNCLKS----LSG----KSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~----~~~----~~~fC~~C~~ 46 (183)
...|+.|+.. +.. ...+|..|++
T Consensus 3 ~~pCP~CGG~DrFr~~d~~g~G~~~C~~Cg~ 33 (37)
T smart00778 3 HGPCPNCGGSDRFRFDDKDGRGTWFCSVCGA 33 (37)
T ss_pred ccCCCCCCCccccccccCCCCcCEEeCCCCC
Confidence 4589999883 221 5679988864
No 264
>COG1601 GCD7 Translation initiation factor 2, beta subunit (eIF-2beta)/eIF-5 N-terminal domain [Translation, ribosomal structure and biogenesis]
Probab=29.79 E-value=15 Score=29.10 Aligned_cols=33 Identities=21% Similarity=0.462 Sum_probs=24.5
Q ss_pred CCCCCCCCCCCCC-------CcccCCCCCCCcCCCCCCCh
Q psy8513 24 ELKCWNCLKSLSG-------KSLFCQHCSSVQKPDPQNNY 56 (183)
Q Consensus 24 ~~~Cw~C~~~~~~-------~~~fC~~C~~~q~~~~~~~~ 56 (183)
-..|.-|+.+-+. ..+.|..||+++|+.....|
T Consensus 105 yv~C~~c~s~dt~l~~~~R~~~l~c~acGa~~pv~~~~~~ 144 (151)
T COG1601 105 YVKCKECGSPDTELIKEERLLFLKCEACGAIRPVKLMKEY 144 (151)
T ss_pred eeEeccCCCCchhhhhhhhhHhhHHHHhCCcccchhhhhc
Confidence 3579999996332 67889999999998744333
No 265
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=29.41 E-value=29 Score=28.25 Aligned_cols=27 Identities=22% Similarity=0.331 Sum_probs=20.3
Q ss_pred CCCCCCCCCCCCCC-----CcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKSLSG-----KSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~-----~~~fC~~C~~~q~ 49 (183)
..-.|++|+-.... ..|.||.||....
T Consensus 112 ~~y~C~~~~~r~sfdeA~~~~F~Cp~Cg~~L~ 143 (176)
T COG1675 112 NYYVCPNCHVKYSFDEAMELGFTCPKCGEDLE 143 (176)
T ss_pred CceeCCCCCCcccHHHHHHhCCCCCCCCchhh
Confidence 34479999887653 7799999998544
No 266
>PF08646 Rep_fac-A_C: Replication factor-A C terminal domain; InterPro: IPR013955 Replication factor A (RP-A) binds and subsequently stabilises single-stranded DNA intermediates and thus prevents complementary DNA from reannealing. It also plays an essential role in several cellular processes in DNA metabolism including replication, recombination and repair of DNA []. Replication factor-A protein is also known as Replication protein A 70 kDa DNA-binding subunit. This entry is found at the C terminus of Replication factor A.; PDB: 1L1O_F 3U50_C.
Probab=29.35 E-value=19 Score=27.53 Aligned_cols=25 Identities=24% Similarity=0.519 Sum_probs=17.1
Q ss_pred CCCCC--CCCCCCCC---CcccCCCCCCCc
Q psy8513 24 ELKCW--NCLKSLSG---KSLFCQHCSSVQ 48 (183)
Q Consensus 24 ~~~Cw--~C~~~~~~---~~~fC~~C~~~q 48 (183)
...|+ .|++.+.. ..++|++|+..-
T Consensus 18 Y~aC~~~~C~kKv~~~~~~~y~C~~C~~~~ 47 (146)
T PF08646_consen 18 YPACPNEKCNKKVTENGDGSYRCEKCNKTV 47 (146)
T ss_dssp EEE-TSTTTS-B-EEETTTEEEETTTTEEE
T ss_pred ECCCCCccCCCEeecCCCcEEECCCCCCcC
Confidence 45799 99997653 468999999863
No 267
>PRK04179 rpl37e 50S ribosomal protein L37e; Reviewed
Probab=29.28 E-value=33 Score=23.26 Aligned_cols=24 Identities=21% Similarity=0.692 Sum_probs=19.5
Q ss_pred CCCCCCCCCC-CCCCCcccCCCCCC
Q psy8513 23 LELKCWNCLK-SLSGKSLFCQHCSS 46 (183)
Q Consensus 23 ~~~~Cw~C~~-~~~~~~~fC~~C~~ 46 (183)
....|..||. +.......|.+|+.
T Consensus 16 tHt~CrRCG~~syh~qK~~CasCGy 40 (62)
T PRK04179 16 THIRCRRCGRHSYNVRKKYCAACGF 40 (62)
T ss_pred ccchhcccCcccccccccchhhcCC
Confidence 4568999999 45558899999997
No 268
>PF10005 DUF2248: Uncharacterized protein conserved in bacteria (DUF2248); InterPro: IPR011201 This is a family of uncharacterised bacterial proteins.
Probab=29.27 E-value=34 Score=30.70 Aligned_cols=24 Identities=13% Similarity=0.252 Sum_probs=15.8
Q ss_pred HHHHhcCchhHHHHHHHhcCCCcc
Q psy8513 110 AYSILQNPLKRGLYLLSLQNISIE 133 (183)
Q Consensus 110 AY~tL~dp~~Ra~Yll~l~g~~~~ 133 (183)
.|..|-.-.+|-.|-|...|.++.
T Consensus 97 ~W~~~E~AKRRL~y~L~rLgLP~~ 120 (343)
T PF10005_consen 97 RWRRIEAAKRRLFYSLLRLGLPLP 120 (343)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCCC
Confidence 344444456788888877777664
No 269
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=29.20 E-value=67 Score=29.42 Aligned_cols=27 Identities=19% Similarity=0.352 Sum_probs=21.3
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~q~ 49 (183)
+-..|..|+...+.....|+.|++...
T Consensus 220 ~l~~C~~Cd~l~~~~~a~CpRC~~~L~ 246 (419)
T PRK15103 220 GLRSCSCCTAILPADQPVCPRCHTKGY 246 (419)
T ss_pred CCCcCCCCCCCCCCCCCCCCCCCCcCc
Confidence 345699999977666778999999654
No 270
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=29.08 E-value=45 Score=20.54 Aligned_cols=20 Identities=25% Similarity=0.614 Sum_probs=14.7
Q ss_pred CCCCCCCCCCCCcccCCCCC
Q psy8513 26 KCWNCLKSLSGKSLFCQHCS 45 (183)
Q Consensus 26 ~Cw~C~~~~~~~~~fC~~C~ 45 (183)
.|..|+.++....+-|..|.
T Consensus 2 ~Cd~C~~~i~G~ry~C~~C~ 21 (43)
T cd02340 2 ICDGCQGPIVGVRYKCLVCP 21 (43)
T ss_pred CCCCCCCcCcCCeEECCCCC
Confidence 58888887766667777665
No 271
>PRK06386 replication factor A; Reviewed
Probab=29.07 E-value=34 Score=30.81 Aligned_cols=20 Identities=25% Similarity=0.494 Sum_probs=17.2
Q ss_pred CCCCCCCCCCCCCcccCCCCCC
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
..||.|++.+.. -+|+.|+.
T Consensus 237 ~rCP~C~R~l~~--g~C~~HG~ 256 (358)
T PRK06386 237 TKCSVCNKIIED--GVCKDHPD 256 (358)
T ss_pred ecCcCCCeEccC--CcCCCCCC
Confidence 589999999863 59999997
No 272
>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=28.83 E-value=52 Score=20.96 Aligned_cols=26 Identities=15% Similarity=0.197 Sum_probs=17.4
Q ss_pred CCCCCCCCCCC----------C-CcccCCCCCCCcCC
Q psy8513 25 LKCWNCLKSLS----------G-KSLFCQHCSSVQKP 50 (183)
Q Consensus 25 ~~Cw~C~~~~~----------~-~~~fC~~C~~~q~~ 50 (183)
.+||-||..-. . .-+.|..|++..|.
T Consensus 2 kPCPfCGg~~~~~~~~~~~~~~~~~~~C~~Cga~~~~ 38 (53)
T TIGR03655 2 KPCPFCGGADVYLRRGFDPLDLSHYFECSTCGASGPV 38 (53)
T ss_pred CCCCCCCCcceeeEeccCCCCCEEEEECCCCCCCccc
Confidence 36888888422 1 23369999998775
No 273
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=28.70 E-value=37 Score=33.47 Aligned_cols=66 Identities=15% Similarity=0.238 Sum_probs=38.0
Q ss_pred cCCCCCCCCCCCCCCCcccCCCCCCC--cCCCCCC-----ChhhhcCccc--cCCCCHHHHHHHHHHHHHhhCCCC
Q psy8513 22 SLELKCWNCLKSLSGKSLFCQHCSSV--QKPDPQN-----NYYNVFDMKM--QYLINNADLSKKFKHLQSQLHPDK 88 (183)
Q Consensus 22 ~~~~~Cw~C~~~~~~~~~fC~~C~~~--q~~~~~~-----~~f~llgl~~--~~~iD~~~Lk~~Yr~l~~~~HPDk 88 (183)
.+...|.-||... .....||+|++. +..+... ..=.+|-=-+ .++.|...-+.+.+.+...+|+-.
T Consensus 460 ~~~L~CH~Cg~~~-~~p~~Cp~Cgs~~L~~~G~GterieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge 534 (730)
T COG1198 460 TGQLRCHYCGYQE-PIPQSCPECGSEHLRAVGPGTERIEEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFANGE 534 (730)
T ss_pred CCeeEeCCCCCCC-CCCCCCCCCCCCeeEEecccHHHHHHHHHHHCCCCcEEEEccccccchhhHHHHHHHHhCCC
Confidence 3577899999984 477999999995 3322210 1112221111 234455555566666666666644
No 274
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=28.65 E-value=15 Score=24.51 Aligned_cols=22 Identities=32% Similarity=0.612 Sum_probs=10.5
Q ss_pred CCCCCCCCCCCC-----CcccCC-CCCC
Q psy8513 25 LKCWNCLKSLSG-----KSLFCQ-HCSS 46 (183)
Q Consensus 25 ~~Cw~C~~~~~~-----~~~fC~-~C~~ 46 (183)
..|+.|++++.. ...||+ .|..
T Consensus 3 v~CP~C~k~~~~~~~n~~rPFCS~RCk~ 30 (57)
T PF03884_consen 3 VKCPICGKPVEWSPENPFRPFCSERCKL 30 (57)
T ss_dssp EE-TTT--EEE-SSSSS--SSSSHHHHH
T ss_pred ccCCCCCCeecccCCCCcCCcccHhhcc
Confidence 379999996532 567886 5543
No 275
>COG5349 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.51 E-value=31 Score=26.59 Aligned_cols=40 Identities=18% Similarity=0.375 Sum_probs=29.2
Q ss_pred CCCCCCCCCC-C----CCCcccCCCCCC---CcCCCCCCChhhhcCcc
Q psy8513 24 ELKCWNCLKS-L----SGKSLFCQHCSS---VQKPDPQNNYYNVFDMK 63 (183)
Q Consensus 24 ~~~Cw~C~~~-~----~~~~~fC~~C~~---~q~~~~~~~~f~llgl~ 63 (183)
...|++|+.- + -.....|.+|+- .++.+...-||-+|-+-
T Consensus 21 ~grCP~CGeGrLF~gFLK~~p~C~aCG~dyg~~~a~DgPa~fvI~IvG 68 (126)
T COG5349 21 RGRCPRCGEGRLFRGFLKVVPACEACGLDYGFADADDGPAYFVILIVG 68 (126)
T ss_pred cCCCCCCCCchhhhhhcccCchhhhccccccCCcccCCCcEEEEEeec
Confidence 4479999982 1 126778999996 56666777899888763
No 276
>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=28.35 E-value=49 Score=20.42 Aligned_cols=22 Identities=23% Similarity=0.588 Sum_probs=13.7
Q ss_pred CCCCCCCCC----CCC-CcccCCCCCC
Q psy8513 25 LKCWNCLKS----LSG-KSLFCQHCSS 46 (183)
Q Consensus 25 ~~Cw~C~~~----~~~-~~~fC~~C~~ 46 (183)
..|+.||.. +.. ..+-|..|+.
T Consensus 19 ~~CP~Cg~~~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGSTKHYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCeeeEEeCCCCeEECCCCCC
Confidence 468888863 222 5677777764
No 277
>TIGR00354 polC DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.
Probab=28.29 E-value=33 Score=34.89 Aligned_cols=22 Identities=32% Similarity=0.473 Sum_probs=18.1
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
-..|++||... ....||.|+.-
T Consensus 625 ~RKCPkCG~yT--lk~rCP~CG~~ 646 (1095)
T TIGR00354 625 IRKCPQCGKES--FWLKCPVCGEL 646 (1095)
T ss_pred EEECCCCCccc--ccccCCCCCCc
Confidence 34799999975 67899999985
No 278
>COG0731 Fe-S oxidoreductases [Energy production and conversion]
Probab=28.23 E-value=81 Score=27.71 Aligned_cols=26 Identities=19% Similarity=0.268 Sum_probs=21.2
Q ss_pred CCCCHHHHHHHHHHHHHh-----hCCCCCCC
Q psy8513 66 YLINNADLSKKFKHLQSQ-----LHPDKFSN 91 (183)
Q Consensus 66 ~~iD~~~Lk~~Yr~l~~~-----~HPDk~~~ 91 (183)
.-++.+.|+..++.+... ++||..+-
T Consensus 55 efi~~~~I~~~~~~~~~~~g~ea~~pd~vti 85 (296)
T COG0731 55 EFIVEESILEELKLLLGYKGDEATEPDHVTI 85 (296)
T ss_pred ceecHHHHHHHHHHHhcccccccCCCCEEEE
Confidence 346689999999999998 59999643
No 279
>COG5625 Predicted transcription regulator containing HTH domain [Transcription]
Probab=28.07 E-value=70 Score=23.97 Aligned_cols=24 Identities=38% Similarity=0.544 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcC
Q psy8513 160 EEDLENLQTSIRATIEELTKKVNN 183 (183)
Q Consensus 160 ~~~l~~l~~~~~~~i~~~~~~l~~ 183 (183)
.+-|++|.+++.+.|+++++++.|
T Consensus 86 ~k~leei~~~i~keiEelEk~~k~ 109 (113)
T COG5625 86 PKPLEEIEEEIMKEIEELEKEFKN 109 (113)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHh
Confidence 455788888888888888887754
No 280
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=27.50 E-value=57 Score=21.57 Aligned_cols=24 Identities=25% Similarity=0.378 Sum_probs=17.3
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCCcC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSSVQK 49 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~~q~ 49 (183)
-..|.+|+.-.- .-.||.||..-.
T Consensus 5 mr~C~~CgvYTL--k~~CP~CG~~t~ 28 (56)
T PRK13130 5 IRKCPKCGVYTL--KEICPVCGGKTK 28 (56)
T ss_pred ceECCCCCCEEc--cccCcCCCCCCC
Confidence 457999988432 678999998543
No 281
>PRK14701 reverse gyrase; Provisional
Probab=27.22 E-value=31 Score=37.05 Aligned_cols=22 Identities=23% Similarity=0.566 Sum_probs=18.0
Q ss_pred CCCCCCCCCCCC----CcccCCCCCC
Q psy8513 25 LKCWNCLKSLSG----KSLFCQHCSS 46 (183)
Q Consensus 25 ~~Cw~C~~~~~~----~~~fC~~C~~ 46 (183)
..|+|||..+.. ..+.|..|--
T Consensus 7 ~~cpnc~g~~~~~rl~~g~~c~~cl~ 32 (1638)
T PRK14701 7 EMCPNCGGDITDERLAEKGVCEKCLK 32 (1638)
T ss_pred ccCCCCCCccchhHHhcCCCchhhcc
Confidence 479999998875 6789999943
No 282
>COG1499 NMD3 NMD protein affecting ribosome stability and mRNA decay [Translation, ribosomal structure and biogenesis]
Probab=27.13 E-value=38 Score=30.46 Aligned_cols=16 Identities=19% Similarity=0.536 Sum_probs=12.3
Q ss_pred CcccCCCCCCCcCCCC
Q psy8513 37 KSLFCQHCSSVQKPDP 52 (183)
Q Consensus 37 ~~~fC~~C~~~q~~~~ 52 (183)
+--+|..|+++++++.
T Consensus 42 ~v~~C~~Cga~~~~~~ 57 (355)
T COG1499 42 NVEVCRHCGAYRIRGR 57 (355)
T ss_pred EEEECCcCCCccCCCc
Confidence 5568999998887754
No 283
>PF11157 DUF2937: Protein of unknown function (DUF2937); InterPro: IPR022584 This family of proteins with unknown function appears to be found mainly in Proteobacteria.
Probab=27.10 E-value=1.4e+02 Score=23.83 Aligned_cols=62 Identities=16% Similarity=0.228 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHh--cCchhHHHHHHHhcCCCcc
Q psy8513 67 LINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSIL--QNPLKRGLYLLSLQNISIE 133 (183)
Q Consensus 67 ~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL--~dp~~Ra~Yll~l~g~~~~ 133 (183)
..|.+++-+.|+. .+|-+............+....++.++..| ..|..|..|++.....++.
T Consensus 55 ~~~~~~li~~~~~-----s~dp~~~~~a~~~~~~~~R~~~L~~~~~~l~~~~~~~r~~~~~~~~d~~i~ 118 (167)
T PF11157_consen 55 GGDREALIAHYRQ-----SSDPVFRARAESMQATIERYQRLSQQLQALAQASPFERAWYFLRPADPEIA 118 (167)
T ss_pred CCCHHHHHHHHHh-----CCCHHHHhhHHHHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHhcccHHHH
Confidence 4444555555443 677554444444555567889999999999 7789999998876554443
No 284
>PRK08402 replication factor A; Reviewed
Probab=27.07 E-value=33 Score=30.81 Aligned_cols=26 Identities=15% Similarity=0.404 Sum_probs=20.4
Q ss_pred CCCCCCCCCCCC----CCcccCCCCCCCcC
Q psy8513 24 ELKCWNCLKSLS----GKSLFCQHCSSVQK 49 (183)
Q Consensus 24 ~~~Cw~C~~~~~----~~~~fC~~C~~~q~ 49 (183)
.+.|++|++.+. .....|..|+.+.|
T Consensus 212 y~aCp~CnKkv~~~~~~~~~~Ce~~~~v~p 241 (355)
T PRK08402 212 YDACPECRRKVDYDPATDTWICPEHGEVEP 241 (355)
T ss_pred EecCCCCCeEEEEecCCCCEeCCCCCCcCc
Confidence 468999999874 25789999987555
No 285
>PRK13666 hypothetical protein; Provisional
Probab=26.94 E-value=2.5e+02 Score=20.45 Aligned_cols=75 Identities=21% Similarity=0.283 Sum_probs=45.5
Q ss_pred HHHHHHHHHhcCchhHHHHHHHhc--CCCccccCccCCHHHHHHHH-HHhHHHhcCC-----CHHHHHHHHHHHHHHHHH
Q psy8513 105 SYLNKAYSILQNPLKRGLYLLSLQ--NISIEEDSKGTDQKLLMEIL-MLNEELDEAS-----SEEDLENLQTSIRATIEE 176 (183)
Q Consensus 105 ~~In~AY~tL~dp~~Ra~Yll~l~--g~~~~~~~~~~d~~fLme~m-e~~E~le~a~-----~~~~l~~l~~~~~~~i~~ 176 (183)
..=++||..|..+..|-.+++... ...+.. .+.-.+.|-.+| =+.-+|+-|. +.++=..|..+++.++..
T Consensus 7 ~~~~~A~~lL~~DA~kI~~LI~vQ~~nL~~~q--CPlyEEVlDTQmfGlSreVdFAvrlgli~~~~Gk~ll~~LE~~Ls~ 84 (92)
T PRK13666 7 DHREKALALLKADAEKILKLIKVQMDNLTMPQ--CPLYEEVLDTQMFGLSREVDFAVRLGLIDEEEGKQLLSRLERELSA 84 (92)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhcccccc--CchHHHHHHHHHhhhHHHHHHHHHhccccHHHHHHHHHHHHHHHHH
Confidence 445799999999999999988743 333332 344445555433 4445555442 455556666666666666
Q ss_pred HHHHh
Q psy8513 177 LTKKV 181 (183)
Q Consensus 177 ~~~~l 181 (183)
+...+
T Consensus 85 L~~a~ 89 (92)
T PRK13666 85 LHEAF 89 (92)
T ss_pred HHHHH
Confidence 65543
No 286
>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=26.85 E-value=73 Score=28.98 Aligned_cols=27 Identities=19% Similarity=0.400 Sum_probs=20.5
Q ss_pred CCCCCCCCCCCCCC-CcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKSLSG-KSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~-~~~fC~~C~~~q~ 49 (183)
+-..|..|+..+.. ....|+.|++...
T Consensus 214 ~~~~C~~Cd~~~~~~~~a~CpRC~~~L~ 241 (403)
T TIGR00155 214 KLRSCSACHTTILPAQEPVCPRCSTPLY 241 (403)
T ss_pred CCCcCCCCCCccCCCCCcCCcCCCCccc
Confidence 34469999996644 6678999999654
No 287
>PRK12336 translation initiation factor IF-2 subunit beta; Provisional
Probab=26.49 E-value=37 Score=27.90 Aligned_cols=29 Identities=17% Similarity=0.284 Sum_probs=22.2
Q ss_pred CCCCCCCCCCCC-------CCcccCCCCCCCcCCCC
Q psy8513 24 ELKCWNCLKSLS-------GKSLFCQHCSSVQKPDP 52 (183)
Q Consensus 24 ~~~Cw~C~~~~~-------~~~~fC~~C~~~q~~~~ 52 (183)
...|+.|+.|=. ...+.|..||+..|+..
T Consensus 98 yV~C~~C~~pdT~l~k~~~~~~l~C~aCGa~~~v~~ 133 (201)
T PRK12336 98 YVICSECGLPDTRLVKEDRVLMLRCDACGAHRPVKK 133 (201)
T ss_pred eEECCCCCCCCcEEEEcCCeEEEEcccCCCCccccc
Confidence 467999999622 14568999999998864
No 288
>KOG4739|consensus
Probab=26.48 E-value=88 Score=26.61 Aligned_cols=54 Identities=19% Similarity=0.313 Sum_probs=30.2
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCcC---CCC--CCChhhhcCccccCCCCHHHHHHHHHHHHHhh
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSVQK---PDP--QNNYYNVFDMKMQYLINNADLSKKFKHLQSQL 84 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~q~---~~~--~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~ 84 (183)
.+.-|-.|-+.... .+|+-|+...- ... ..+...+|+-++ ..|..-|++++++.
T Consensus 24 ~HvfC~~C~k~~~~--~~C~lCkk~ir~i~l~~slp~~ik~~F~d~~------~~~~~~~~~l~r~i 82 (233)
T KOG4739|consen 24 RHVFCEPCLKASSP--DVCPLCKKSIRIIQLNRSLPTDIKSYFADPP------RLIQDLYRKLQRVI 82 (233)
T ss_pred hhhhhhhhcccCCc--cccccccceeeeeecccccchhHHHHccCcH------HHHHHHHHHHHHHH
Confidence 35567777665432 27888876322 111 235555555443 45677777777763
No 289
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=26.40 E-value=29 Score=26.10 Aligned_cols=25 Identities=24% Similarity=0.610 Sum_probs=18.4
Q ss_pred CCCCCCCCCCC---CCcccCCCCCCCcC
Q psy8513 25 LKCWNCLKSLS---GKSLFCQHCSSVQK 49 (183)
Q Consensus 25 ~~Cw~C~~~~~---~~~~fC~~C~~~q~ 49 (183)
+.|+.|+.... ...+.||.|+.--.
T Consensus 4 p~cp~c~sEytYed~~~~~cpec~~ew~ 31 (112)
T COG2824 4 PPCPKCNSEYTYEDGGQLICPECAHEWN 31 (112)
T ss_pred CCCCccCCceEEecCceEeCchhccccc
Confidence 57999987532 26799999988544
No 290
>TIGR00575 dnlj DNA ligase, NAD-dependent. The member of this family from Treponema pallidum differs in having three rather than just one copy of the BRCT (BRCA1 C Terminus) domain (pfam00533) at the C-terminus. It is included in the seed.
Probab=26.15 E-value=35 Score=33.07 Aligned_cols=24 Identities=21% Similarity=0.575 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCCCC----CcccCC--CCCC
Q psy8513 23 LELKCWNCLKSLSG----KSLFCQ--HCSS 46 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~----~~~fC~--~C~~ 46 (183)
-+..||.|+.++.. ..++|+ .|-+
T Consensus 391 ~P~~CP~C~s~l~~~~~~~~~~C~n~~C~a 420 (652)
T TIGR00575 391 FPTHCPSCGSPLVKIEEEAVIRCPNLNCPA 420 (652)
T ss_pred CCCCCCCCCCEeEecCCcEEEEECCCCCHH
Confidence 35689999997632 457886 4544
No 291
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=26.13 E-value=52 Score=21.78 Aligned_cols=20 Identities=30% Similarity=0.690 Sum_probs=12.7
Q ss_pred CCCCCCCCCC-CcccCCCCCC
Q psy8513 27 CWNCLKSLSG-KSLFCQHCSS 46 (183)
Q Consensus 27 Cw~C~~~~~~-~~~fC~~C~~ 46 (183)
|+-|+..... ..|-||.||-
T Consensus 2 Cpv~~~~~~~~v~~~Cp~cGi 22 (55)
T PF13824_consen 2 CPVCKKDLPAHVNFECPDCGI 22 (55)
T ss_pred CCCCccccccccCCcCCCCCC
Confidence 6666663322 5678888875
No 292
>KOG2123|consensus
Probab=25.79 E-value=23 Score=31.60 Aligned_cols=22 Identities=27% Similarity=0.714 Sum_probs=16.4
Q ss_pred ccccchhhhccCCCCCCCCCCC
Q psy8513 12 ETALCTETAKSLELKCWNCLKS 33 (183)
Q Consensus 12 ~~~~~~~~~~~~~~~Cw~C~~~ 33 (183)
.++.|+.-+...+.+||+|+-.
T Consensus 11 ~raK~sdl~~vkKLNcwg~~L~ 32 (388)
T KOG2123|consen 11 IRAKCSDLENVKKLNCWGCGLD 32 (388)
T ss_pred HHHHhhHHHHhhhhcccCCCcc
Confidence 4567765566678899999874
No 293
>COG5145 RAD14 DNA excision repair protein [DNA replication, recombination, and repair]
Probab=25.65 E-value=1.7e+02 Score=25.03 Aligned_cols=62 Identities=18% Similarity=0.345 Sum_probs=34.0
Q ss_pred cccCCCCCCCcCCCCCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCc
Q psy8513 38 SLFCQHCSSVQKPDPQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNP 117 (183)
Q Consensus 38 ~~fC~~C~~~q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp 117 (183)
..-|--|.. ..-..-||.+||+..-- --+.-|||+++--...+ -..-| .|.||
T Consensus 116 apkC~eC~~---IelD~~l~d~F~~~VC~-------------~Cr~~~pdky~llTKTe----------Ck~dY-lLTdp 168 (292)
T COG5145 116 APKCKECLQ---IELDDELEDTFGISVCR-------------SCRHSMPDKYKLLTKTE----------CKSDY-LLTDP 168 (292)
T ss_pred Cccceeeee---eecchHHHhhhcchhHH-------------hhhhhcchhhhhhhhhh----------hhhhh-hcCCh
Confidence 344555554 33445789999986431 23557899986432111 11122 57777
Q ss_pred hhHHHHHHH
Q psy8513 118 LKRGLYLLS 126 (183)
Q Consensus 118 ~~Ra~Yll~ 126 (183)
....+-++.
T Consensus 169 EL~dqelf~ 177 (292)
T COG5145 169 ELKDQELFR 177 (292)
T ss_pred hhcchHHHH
Confidence 666655443
No 294
>PF06556 ASFV_p27: IAP-like protein p27 C-terminus; InterPro: IPR010549 This entry represents the C-terminal region of the African swine fever virus (ASFV) IAP-like protein p27. This domain is found in conjunction with IPR001370 from INTERPRO. It has been suggested that the domain may be incoded by the gene involved in aspects of infection in the arthropod host, ticks of the genus Ornithodoros [].
Probab=25.62 E-value=20 Score=26.96 Aligned_cols=33 Identities=18% Similarity=0.624 Sum_probs=24.8
Q ss_pred CCCCCCC-CCCCCcccCCCCCCCcCCCCCCChhhhcCcc
Q psy8513 26 KCWNCLK-SLSGKSLFCQHCSSVQKPDPQNNYYNVFDMK 63 (183)
Q Consensus 26 ~Cw~C~~-~~~~~~~fC~~C~~~q~~~~~~~~f~llgl~ 63 (183)
-|-.||. ++....-||..|..+- -.||..|+.+
T Consensus 95 ycmtcgie~i~kdenfc~acktln-----yk~yk~lnfs 128 (131)
T PF06556_consen 95 YCMTCGIEQINKDENFCNACKTLN-----YKHYKMLNFS 128 (131)
T ss_pred EEEeeCceecccchhhhhhhcccc-----hhheeeeeeE
Confidence 5889998 5666889999998753 3567776653
No 295
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=25.44 E-value=76 Score=19.36 Aligned_cols=23 Identities=26% Similarity=0.611 Sum_probs=17.1
Q ss_pred CCCCCCCCCCCCCCCcccCCCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCS 45 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~ 45 (183)
....|..|+.++....+.|..|.
T Consensus 3 ~~~~C~~C~~~i~g~ry~C~~C~ 25 (44)
T smart00291 3 HSYSCDTCGKPIVGVRYHCLVCP 25 (44)
T ss_pred CCcCCCCCCCCCcCCEEECCCCC
Confidence 34579999997766777777774
No 296
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=24.92 E-value=28 Score=32.88 Aligned_cols=34 Identities=18% Similarity=0.183 Sum_probs=14.8
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCCc--CCCCCCChhh
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSSVQ--KPDPQNNYYN 58 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~~q--~~~~~~~~f~ 58 (183)
-..|.+||..... ...||.|+.-- -...-.-||.
T Consensus 491 ~~~C~~CG~~~~~-~~~CP~CGs~~~~~~~Rv~GYl~ 526 (546)
T PF13597_consen 491 IDICPDCGYIGGE-GDKCPKCGSENIEVYSRVTGYLR 526 (546)
T ss_dssp EEEETTT---S---EEE-CCC----EEEEB-SSSS-B
T ss_pred cccccCCCcCCCC-CCCCCCCCCcccceEEEeecccc
Confidence 3479999997664 88999999842 2223345555
No 297
>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=24.73 E-value=39 Score=21.11 Aligned_cols=21 Identities=19% Similarity=0.551 Sum_probs=11.9
Q ss_pred CCCCCCCCCCC-------CcccCCCCCC
Q psy8513 26 KCWNCLKSLSG-------KSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~~-------~~~fC~~C~~ 46 (183)
.|.+|+..... ....||.|++
T Consensus 7 ~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 7 RCTACGHRFEVLQKMSDDPLATCPECGG 34 (52)
T ss_pred EeCCCCCEeEEEEecCCCCCCCCCCCCC
Confidence 46777762211 2346777776
No 298
>PRK11595 DNA utilization protein GntX; Provisional
Probab=24.61 E-value=34 Score=28.30 Aligned_cols=22 Identities=23% Similarity=0.418 Sum_probs=12.4
Q ss_pred CCCCCCCCCCCCCcccCCCCCC
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
..|+.|+.+......+|..|..
T Consensus 35 ~~C~~Cg~~~~~~~~~C~~C~~ 56 (227)
T PRK11595 35 TCCPQCGLPATHPHLPCGRCLQ 56 (227)
T ss_pred CcCccCCCcCCCCCCCcHHHHc
Confidence 3577777664333345776644
No 299
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.59 E-value=47 Score=25.25 Aligned_cols=32 Identities=9% Similarity=0.036 Sum_probs=23.8
Q ss_pred CCCCCCCCCC---CCCCcccCCCCCCCcCCCCCCChhhh
Q psy8513 24 ELKCWNCLKS---LSGKSLFCQHCSSVQKPDPQNNYYNV 59 (183)
Q Consensus 24 ~~~Cw~C~~~---~~~~~~fC~~C~~~q~~~~~~~~f~l 59 (183)
+..|++|++. ++..+.+||.||.--| ..||+-
T Consensus 9 KridPetg~KFYDLNrdPiVsPytG~s~P----~s~fe~ 43 (129)
T COG4530 9 KRIDPETGKKFYDLNRDPIVSPYTGKSYP----RSYFEE 43 (129)
T ss_pred cccCccccchhhccCCCccccCcccccch----HHHHHh
Confidence 4579999995 5558899999998554 366654
No 300
>PRK00810 nifW nitrogenase stabilizing/protective protein; Provisional
Probab=24.56 E-value=2e+02 Score=21.75 Aligned_cols=66 Identities=14% Similarity=0.336 Sum_probs=36.9
Q ss_pred CCCChhhhcCcccc---CCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHh--cCchhHHH
Q psy8513 52 PQNNYYNVFDMKMQ---YLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSIL--QNPLKRGL 122 (183)
Q Consensus 52 ~~~~~f~llgl~~~---~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL--~dp~~Ra~ 122 (183)
...+||+.|||+-+ .++..--|=++|.+....-. +.+.++.+ .....-..+.+||+.. ++|+.-..
T Consensus 17 sAEdff~ff~V~YDp~vvnV~RLHILKrF~~yL~~~~---~~~~~e~~--~~~~yr~aL~~AY~dF~~Stp~~ekv 87 (113)
T PRK00810 17 SAEEFFQLLGVPYDPKVVNVARLHILKRMGQYLAQED---FAGLPEAE--ARARCRAVLERAYADFVASSPLDQRV 87 (113)
T ss_pred cHHHHHHHhCCCCCHHHHHHhHHHHHHHHHHHHHhcc---cCCCCHHH--HHHHHHHHHHHHHHHHccCCHhHHHH
Confidence 34589999999732 12222345566666555332 44434433 3345667788999875 44444333
No 301
>TIGR02827 RNR_anaer_Bdell anaerobic ribonucleoside-triphosphate reductase. Members of this family belong to the class III anaerobic ribonucleoside-triphosphate reductases (RNR). These glycine-radical-containing enzymes are oxygen-sensitive and operate under anaerobic conditions. The genes for this family are pair with genes for an acitivating protein that creates a glycine radical. Members of this family, though related, fall outside the scope of TIGR02487, a functionally equivalent protein set; no genome has members in both familes. Identification as RNR is supported by gene pairing with the activating protein, lack of other anaerobic RNR, and presence of an upstream regulatory element strongly conserved upstream of most RNR operons.
Probab=24.47 E-value=53 Score=31.56 Aligned_cols=25 Identities=20% Similarity=0.267 Sum_probs=17.9
Q ss_pred cCCCCCCCCCCCCCCCcccCCCCCC
Q psy8513 22 SLELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 22 ~~~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
..-..|..||.........||.|+.
T Consensus 530 ~~~siC~~CGy~~g~~~~~CP~CGs 554 (586)
T TIGR02827 530 IKITICNDCHHIDKRTLHRCPVCGS 554 (586)
T ss_pred CCCeecCCCCCcCCCcCCcCcCCCC
Confidence 3455899999843223489999996
No 302
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=24.05 E-value=27 Score=27.19 Aligned_cols=23 Identities=26% Similarity=0.706 Sum_probs=18.8
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
....|-+||.++. ..-||++|..
T Consensus 80 l~~~CE~CG~~I~-~Gr~C~~C~~ 102 (137)
T TIGR03826 80 LGYPCERCGTSIR-EGRLCDSCAG 102 (137)
T ss_pred CcCcccccCCcCC-CCCccHHHHH
Confidence 4568999999987 4589999975
No 303
>COG2995 PqiA Uncharacterized paraquat-inducible protein A [Function unknown]
Probab=23.99 E-value=61 Score=29.79 Aligned_cols=29 Identities=21% Similarity=0.414 Sum_probs=21.9
Q ss_pred CCCCCCCCCCCCCC------CcccCCCCCCCcCCC
Q psy8513 23 LELKCWNCLKSLSG------KSLFCQHCSSVQKPD 51 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~------~~~fC~~C~~~q~~~ 51 (183)
....|+.|+..++. ..-+||.|++..-..
T Consensus 17 ~~~~C~eCd~~~~~P~l~~~q~A~CPRC~~~l~~~ 51 (418)
T COG2995 17 HLILCPECDMLVSLPRLDSGQSAYCPRCGHTLTRG 51 (418)
T ss_pred ceecCCCCCceeccccCCCCCcccCCCCCCccccC
Confidence 34579999996432 778999999976544
No 304
>cd01675 RNR_III Class III ribonucleotide reductase. Ribonucleotide reductase (RNR) catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, and bacteriophage, use a diiron-tyrosyl radical. Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in strict or facultative anaerobic bacteria, bacteriophage, and archaea, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. All three RNRs have a ten-stranded alpha-beta barrel domain that is structurally similar to the domain of PFL (pyruvate formate lyase). The class III enzyme from phage T4 consists of two subunits, this model covers the larger subunit w
Probab=23.81 E-value=52 Score=31.17 Aligned_cols=24 Identities=25% Similarity=0.436 Sum_probs=18.7
Q ss_pred CCCCCCCCCCCCCCcccCCCCCCC
Q psy8513 24 ELKCWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 24 ~~~Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
...|..||.........||.||.-
T Consensus 518 ~~~C~~CG~~~~~~~~~CP~CGs~ 541 (555)
T cd01675 518 IDICNDCGYIGEGEGFKCPKCGSE 541 (555)
T ss_pred CccCCCCCCCCcCCCCCCcCCCCc
Confidence 448999998653467999999973
No 305
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=23.77 E-value=15 Score=31.05 Aligned_cols=22 Identities=18% Similarity=0.662 Sum_probs=19.8
Q ss_pred CCCCCCCCCCCCcccCCCCCCC
Q psy8513 26 KCWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 26 ~Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
.|-+|+..+.-++..||-|.+-
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccc
Confidence 6999999888899999999873
No 306
>PF06943 zf-LSD1: LSD1 zinc finger; InterPro: IPR005735 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 model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC []. This domain may play a role in the regulation of transcription, via either repression of a prodeath pathway or activation of an antideath pathway, in response to signals emanating from cells undergoing pathogen-induced hypersensitive cell death. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=23.52 E-value=53 Score=18.23 Aligned_cols=21 Identities=33% Similarity=0.710 Sum_probs=10.9
Q ss_pred CCCCCCCCC----CCcccCCCCCCC
Q psy8513 27 CWNCLKSLS----GKSLFCQHCSSV 47 (183)
Q Consensus 27 Cw~C~~~~~----~~~~fC~~C~~~ 47 (183)
|-+|...+. ....-|+.|+.+
T Consensus 1 C~~Cr~~L~yp~GA~sVrCa~C~~V 25 (25)
T PF06943_consen 1 CGGCRTLLMYPRGAPSVRCACCHTV 25 (25)
T ss_pred CCCCCceEEcCCCCCCeECCccCcC
Confidence 455655432 255666666543
No 307
>cd07973 Spt4 Transcription elongation factor Spt4. Spt4 is a transcription elongation factor. Three transcription-elongation factors Spt4, Spt5, and Spt6, are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles. Spt4 functions entirely in the context of the Spt4-Spt5 heterodimer and it has been found only as a complex to Spt5 in Yeast and Human. Spt4 is a small protein that has zinc finger at the N-terminus. Spt5 is a large protein that has several interesting structural features of an acidic N-terminus, a single NGN domain, five or six KOW domains, and a set of simple C-termianl repeats. Spt4 binds to Spt5 NGN domain. Unlike Spt5, Spt4 is not essential for viability in yeast, however Spt4 is critical for normal function of the Spt4-Spt5 compl
Probab=23.30 E-value=70 Score=23.51 Aligned_cols=22 Identities=18% Similarity=0.386 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCCCc---ccCCCCCC
Q psy8513 25 LKCWNCLKSLSGKS---LFCQHCSS 46 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~---~fC~~C~~ 46 (183)
..|-+|+..++... -.||+|+.
T Consensus 4 rAC~~C~~I~~~~qf~~~gCpnC~~ 28 (98)
T cd07973 4 RACLLCSLIKTEDQFERDGCPNCEG 28 (98)
T ss_pred chhccCCcccccccccCCCCCCCcc
Confidence 47999999776433 47999963
No 308
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=22.96 E-value=2.1e+02 Score=21.96 Aligned_cols=76 Identities=13% Similarity=0.232 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHhcCchhHHHHHHHhcCCCcccc-CccCCHHHHHHHHHHhHHHhcCCC-HHHHHHHHHHHHHHHHHHH
Q psy8513 101 ETYSSYLNKAYSILQNPLKRGLYLLSLQNISIEED-SKGTDQKLLMEILMLNEELDEASS-EEDLENLQTSIRATIEELT 178 (183)
Q Consensus 101 ~~~s~~In~AY~tL~dp~~Ra~Yll~l~g~~~~~~-~~~~d~~fLme~me~~E~le~a~~-~~~l~~l~~~~~~~i~~~~ 178 (183)
...++.+.+-|+.|.+-.+.-. -.+.+++-.-+ .......+-.++.++++.++.... -+.++..-..++.+|..++
T Consensus 46 ~~v~kql~~vs~~l~~tKkhLs--qRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie 123 (126)
T PF07889_consen 46 ASVSKQLEQVSESLSSTKKHLS--QRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKIDEIE 123 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4456667777777764333222 22333332211 122334555666777777766543 3445555555666666554
No 309
>PRK06330 transcript cleavage factor/unknown domain fusion protein; Validated
Probab=22.88 E-value=3.8e+02 Score=26.59 Aligned_cols=108 Identities=11% Similarity=0.065 Sum_probs=54.9
Q ss_pred ChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHhcCCCccc
Q psy8513 55 NYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDKFSNKNQEEQAISETYSSYLNKAYSILQNPLKRGLYLLSLQNISIEE 134 (183)
Q Consensus 55 ~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk~~~~~~~e~~~a~~~s~~In~AY~tL~dp~~Ra~Yll~l~g~~~~~ 134 (183)
++|.++-.-+.|+ ...++.-|.|++..||+--.+....+.+ ..-.-.++|+.|...+.+- .+
T Consensus 525 ~l~~l~~~~~~F~---~~dk~~L~sLa~~v~P~l~~~~~~~~~~----~~~vT~eG~~kLkeEL~~L------~~----- 586 (718)
T PRK06330 525 EFLLLSSKCPQFS---SSDLGVLRSLAEVVQPSLKKGTSEVEEE----ILWTTSESFTRMKNKLQSL------VG----- 586 (718)
T ss_pred HHHHHHhcCCCCC---hHhHHHHHHHHHHhCcchhcCcccCCCC----CceeCHHHHHHHHHHHHHH------Hh-----
Confidence 3455555556676 5667778889999999984332221111 0011123444443322211 11
Q ss_pred cCccCCHHHHHHHHHHhHHHhcCCCH--HHHHHHHHHHHHHHHHHHHHhcC
Q psy8513 135 DSKGTDQKLLMEILMLNEELDEASSE--EDLENLQTSIRATIEELTKKVNN 183 (183)
Q Consensus 135 ~~~~~d~~fLme~me~~E~le~a~~~--~~l~~l~~~~~~~i~~~~~~l~~ 183 (183)
..-|+...++-+.|+.=+-.++. .+-.+-+..+..+|..+.+.|.+
T Consensus 587 ---v~rpei~k~I~eAR~~GDLsENaEY~aAKe~q~~le~RI~~Le~~L~r 634 (718)
T PRK06330 587 ---KEMVENAKEIEDARALGDLRENSEYKFALEKRARLQEEIRVLSEEINR 634 (718)
T ss_pred ---cchHHHHHHHHHHHHCCCcccchhhHHHHHHHHHHHHHHHHHHHHHcc
Confidence 12344555555555443333333 23345566677777777777653
No 310
>TIGR02487 NrdD anaerobic ribonucleoside-triphosphate reductase. This model represents the oxygen-sensitive (anaerobic, class III) ribonucleotide reductase. The mechanism of the enzyme involves a glycine-centered radical, a C-terminal zinc binding site, and a set of conserved active site cysteines and asparagines. This enzyme requires an activating component, NrdG, a radical-SAM domain containing enzyme (TIGR02491). Together the two form an alpha-2/beta-2 heterodimer.
Probab=22.82 E-value=68 Score=30.61 Aligned_cols=26 Identities=23% Similarity=0.349 Sum_probs=18.0
Q ss_pred ccCCCCCCCCCCCCCCCcccCCCCCC
Q psy8513 21 KSLELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 21 ~~~~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
+..-..|..||..-......||.|+.
T Consensus 521 n~~~~~C~~CG~~g~~~~~~CP~Cgs 546 (579)
T TIGR02487 521 NPPVDVCEDCGYTGEGLNDKCPKCGS 546 (579)
T ss_pred ccCCccCCCCCCCCCCCCCcCcCCCC
Confidence 34556899999832223378999996
No 311
>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=22.79 E-value=55 Score=30.56 Aligned_cols=23 Identities=26% Similarity=0.525 Sum_probs=18.5
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSS 46 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~ 46 (183)
+...|..||.... ....||.|++
T Consensus 239 ~~l~Ch~Cg~~~~-~~~~Cp~C~s 261 (505)
T TIGR00595 239 GKLRCHYCGYQEP-IPKTCPQCGS 261 (505)
T ss_pred CeEEcCCCcCcCC-CCCCCCCCCC
Confidence 4567999999765 4579999998
No 312
>cd00202 ZnF_GATA Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
Probab=22.78 E-value=31 Score=22.40 Aligned_cols=10 Identities=30% Similarity=0.767 Sum_probs=6.2
Q ss_pred CcccCCCCCC
Q psy8513 37 KSLFCQHCSS 46 (183)
Q Consensus 37 ~~~fC~~C~~ 46 (183)
...+|.+|+.
T Consensus 20 ~~~LCNaCgl 29 (54)
T cd00202 20 GSTLCNACGL 29 (54)
T ss_pred cchHHHHHHH
Confidence 4566777764
No 313
>PF03461 TRCF: TRCF domain; InterPro: IPR005118 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli. A lesion in the template strand blocks the RNA polymerase complex (RNAP). The RNAP-DNA-RNA complex is specifically recognised by the transcription-repair-coupling factor (TRCF) which releases RNAP and the truncated transcript.; GO: 0003684 damaged DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0006281 DNA repair; PDB: 2QSR_A 2EYQ_A.
Probab=22.67 E-value=1.4e+02 Score=21.51 Aligned_cols=30 Identities=37% Similarity=0.429 Sum_probs=22.8
Q ss_pred HHHHHHhHHHhcCCCHHHHHHHHHHHHHHH
Q psy8513 145 MEILMLNEELDEASSEEDLENLQTSIRATI 174 (183)
Q Consensus 145 me~me~~E~le~a~~~~~l~~l~~~~~~~i 174 (183)
.+=|++--+|..+.+.++|+++..++..+-
T Consensus 17 ~~Rl~~Yrrl~~~~~~~el~~l~~El~DRF 46 (101)
T PF03461_consen 17 DERLELYRRLASAESEEELEDLREELIDRF 46 (101)
T ss_dssp HHHHHHHHHHHC--SHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhCCCHHHHHHHHHHHHHHc
Confidence 467888888999999999999888887654
No 314
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=22.67 E-value=60 Score=25.45 Aligned_cols=46 Identities=13% Similarity=0.444 Sum_probs=31.7
Q ss_pred CcccCCCCCCCcCCCCCCChhhhcCccccCCCCHHHHHHHHHHHHHhhCCCC
Q psy8513 37 KSLFCQHCSSVQKPDPQNNYYNVFDMKMQYLINNADLSKKFKHLQSQLHPDK 88 (183)
Q Consensus 37 ~~~fC~~C~~~q~~~~~~~~f~llgl~~~~~iD~~~Lk~~Yr~l~~~~HPDk 88 (183)
..|+||-|+.+..+......|-+. .+|. .+|..-||.+.-+--||+
T Consensus 119 reficpecg~l~eveaaap~ypiv---hdfe---pdlegfyrdwlgkp~~e~ 164 (165)
T COG4647 119 REFICPECGILHEVEAAAPGYPIV---HDFE---PDLEGFYRDWLGKPLPER 164 (165)
T ss_pred HHhhCccccceeeeccCCCCCcee---ccCC---ccHHHHHHHHcCCCCccC
Confidence 689999999999887665555443 2343 467777887766555554
No 315
>KOG1129|consensus
Probab=22.61 E-value=1.6e+02 Score=26.96 Aligned_cols=55 Identities=18% Similarity=0.255 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHhcCchhHHHHHHHhcCCCccccCccCCHHHHHHHHHHhHHHhcCCCHHHH
Q psy8513 103 YSSYLNKAYSILQNPLKRGLYLLSLQNISIEEDSKGTDQKLLMEILMLNEELDEASSEEDL 163 (183)
Q Consensus 103 ~s~~In~AY~tL~dp~~Ra~Yll~l~g~~~~~~~~~~d~~fLme~me~~E~le~a~~~~~l 163 (183)
-|..+.++|.-+..|.. |. .+.|..++ ....+-..|..+--+.|++++-++..++
T Consensus 258 TfllLskvY~ridQP~~-AL---~~~~~gld--~fP~~VT~l~g~ARi~eam~~~~~a~~l 312 (478)
T KOG1129|consen 258 TFLLLSKVYQRIDQPER-AL---LVIGEGLD--SFPFDVTYLLGQARIHEAMEQQEDALQL 312 (478)
T ss_pred HHHHHHHHHHHhccHHH-HH---HHHhhhhh--cCCchhhhhhhhHHHHHHHHhHHHHHHH
Confidence 45788999999998874 32 33333332 2345556888888899998886655444
No 316
>KOG4451|consensus
Probab=22.48 E-value=14 Score=31.55 Aligned_cols=23 Identities=17% Similarity=0.606 Sum_probs=20.1
Q ss_pred CCCCCCCCCCCCCcccCCCCCCC
Q psy8513 25 LKCWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 25 ~~Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
..|-+||..+.-+...||-|.+-
T Consensus 250 K~ClsChqqIHRNAPiCPlCKaK 272 (286)
T KOG4451|consen 250 KVCLSCHQQIHRNAPICPLCKAK 272 (286)
T ss_pred hHHHHHHHHHhcCCCCCcchhhc
Confidence 36999999988899999999873
No 317
>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=22.44 E-value=42 Score=25.93 Aligned_cols=25 Identities=20% Similarity=0.430 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCC-------------------CcccCCCCCCCcC
Q psy8513 25 LKCWNCLKSLSG-------------------KSLFCQHCSSVQK 49 (183)
Q Consensus 25 ~~Cw~C~~~~~~-------------------~~~fC~~C~~~q~ 49 (183)
..|..|+.++.. .-..|++|+.+-=
T Consensus 92 sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~kiyW 135 (147)
T PF01927_consen 92 SRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGKIYW 135 (147)
T ss_pred CccCCCCcEeeechhhccccccCccccccCCeEEECCCCCCEec
Confidence 479999986421 2456888887643
No 318
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=22.38 E-value=79 Score=24.48 Aligned_cols=17 Identities=24% Similarity=0.382 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHhhCCC
Q psy8513 71 ADLSKKFKHLQSQLHPD 87 (183)
Q Consensus 71 ~~Lk~~Yr~l~~~~HPD 87 (183)
..||.+|-+||..+||=
T Consensus 22 SalKaAY~qLQ~Ah~Py 38 (131)
T PF04859_consen 22 SALKAAYAQLQQAHSPY 38 (131)
T ss_pred HHHHHHHHHHHHhcCCC
Confidence 78999999999999984
No 319
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=22.27 E-value=33 Score=28.48 Aligned_cols=23 Identities=22% Similarity=0.598 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCCC---------------CcccCCCCCC
Q psy8513 24 ELKCWNCLKSLSG---------------KSLFCQHCSS 46 (183)
Q Consensus 24 ~~~Cw~C~~~~~~---------------~~~fC~~C~~ 46 (183)
...||.|+..+.. ...+|.+||.
T Consensus 14 ~~~CPvCg~~l~~~~~~~~IPyFG~V~i~t~~C~~CgY 51 (201)
T COG1779 14 RIDCPVCGGTLKAHMYLYDIPYFGEVLISTGVCERCGY 51 (201)
T ss_pred eecCCcccceeeEEEeeecCCccceEEEEEEEccccCC
Confidence 3479999984321 5678999997
No 320
>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=22.24 E-value=39 Score=22.50 Aligned_cols=11 Identities=36% Similarity=0.465 Sum_probs=7.2
Q ss_pred CCCCCCCCCCC
Q psy8513 24 ELKCWNCLKSL 34 (183)
Q Consensus 24 ~~~Cw~C~~~~ 34 (183)
...|+|||..+
T Consensus 41 ~~~CPNCgGel 51 (57)
T PF06906_consen 41 NGVCPNCGGEL 51 (57)
T ss_pred cCcCcCCCCcc
Confidence 55677777654
No 321
>PRK02793 phi X174 lysis protein; Provisional
Probab=22.18 E-value=99 Score=21.21 Aligned_cols=20 Identities=20% Similarity=0.265 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy8513 161 EDLENLQTSIRATIEELTKK 180 (183)
Q Consensus 161 ~~l~~l~~~~~~~i~~~~~~ 180 (183)
++|++...+-...|+.+.++
T Consensus 25 e~Ln~~v~~Qq~~I~~L~~~ 44 (72)
T PRK02793 25 EELNVTVTAHEMEMAKLRDH 44 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444
No 322
>KOG1814|consensus
Probab=22.10 E-value=50 Score=30.50 Aligned_cols=40 Identities=25% Similarity=0.489 Sum_probs=24.7
Q ss_pred cCCCCCCCCCCCCCC----Cc--------ccCCCCCCCcCCCCCCChhhhcCccc
Q psy8513 22 SLELKCWNCLKSLSG----KS--------LFCQHCSSVQKPDPQNNYYNVFDMKM 64 (183)
Q Consensus 22 ~~~~~Cw~C~~~~~~----~~--------~fC~~C~~~q~~~~~~~~f~llgl~~ 64 (183)
+++..|++|+.++.. ++ +||--|+.+.-+ .|+|+-|.-+.
T Consensus 366 ~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~~---~nPYkHF~e~~ 417 (445)
T KOG1814|consen 366 SNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLYP---ENPYKHFSEPG 417 (445)
T ss_pred hcCCCCCcccceeecCCCccceeeccccccceeehhhhcCC---CChhhhhcCCc
Confidence 467789999887653 44 444445444332 57777776553
No 323
>COG2126 RPL37A Ribosomal protein L37E [Translation, ribosomal structure and biogenesis]
Probab=22.07 E-value=42 Score=22.58 Aligned_cols=25 Identities=20% Similarity=0.606 Sum_probs=19.3
Q ss_pred CCCCCCCCCC-CCCCCcccCCCCCCC
Q psy8513 23 LELKCWNCLK-SLSGKSLFCQHCSSV 47 (183)
Q Consensus 23 ~~~~Cw~C~~-~~~~~~~fC~~C~~~ 47 (183)
....|-.||. +.....-.|.+|+.-
T Consensus 15 tH~~CRRCGr~syhv~k~~CaaCGfg 40 (61)
T COG2126 15 THIRCRRCGRRSYHVRKKYCAACGFG 40 (61)
T ss_pred ceehhhhccchheeeccceecccCCC
Confidence 3568999998 344578899999975
No 324
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=21.96 E-value=35 Score=20.38 Aligned_cols=21 Identities=19% Similarity=0.509 Sum_probs=13.3
Q ss_pred CCCCCCCCCC------CCcccCCCCCC
Q psy8513 26 KCWNCLKSLS------GKSLFCQHCSS 46 (183)
Q Consensus 26 ~Cw~C~~~~~------~~~~fC~~C~~ 46 (183)
.|.+||+... ...-+|..|+.
T Consensus 3 ~C~~Cg~~Yh~~~~pP~~~~~Cd~cg~ 29 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNPPKVEGVCDNCGG 29 (36)
T ss_dssp EETTTTEEEETTTB--SSTTBCTTTTE
T ss_pred CcCCCCCccccccCCCCCCCccCCCCC
Confidence 4777877432 15567777775
No 325
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=21.82 E-value=15 Score=21.71 Aligned_cols=12 Identities=25% Similarity=0.747 Sum_probs=7.5
Q ss_pred CCCCCCCCCCCC
Q psy8513 25 LKCWNCLKSLSG 36 (183)
Q Consensus 25 ~~Cw~C~~~~~~ 36 (183)
..|++|+.++..
T Consensus 5 ~~C~nC~R~v~a 16 (33)
T PF08209_consen 5 VECPNCGRPVAA 16 (33)
T ss_dssp EE-TTTSSEEEG
T ss_pred EECCCCcCCcch
Confidence 468888887653
No 326
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=21.56 E-value=72 Score=20.54 Aligned_cols=25 Identities=16% Similarity=0.364 Sum_probs=20.7
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSSV 47 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~~ 47 (183)
+...|-+|++..+...--|-.||+-
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~~ 37 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGYK 37 (48)
T ss_pred cccchhcccCCCCccccccccCCCC
Confidence 5668999999888888889899873
No 327
>PLN00032 DNA-directed RNA polymerase; Provisional
Probab=21.32 E-value=43 Score=23.34 Aligned_cols=12 Identities=25% Similarity=0.891 Sum_probs=8.2
Q ss_pred CCCCCCCCCCCC
Q psy8513 24 ELKCWNCLKSLS 35 (183)
Q Consensus 24 ~~~Cw~C~~~~~ 35 (183)
|..|++||+.+.
T Consensus 4 PVRCFTCGkvig 15 (71)
T PLN00032 4 PVRCFTCGKVIG 15 (71)
T ss_pred ceeecCCCCCcH
Confidence 457777877663
No 328
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=21.29 E-value=56 Score=28.44 Aligned_cols=25 Identities=20% Similarity=0.634 Sum_probs=19.2
Q ss_pred CCCCCCCCC--C---CCCcccCCCCCCCcC
Q psy8513 25 LKCWNCLKS--L---SGKSLFCQHCSSVQK 49 (183)
Q Consensus 25 ~~Cw~C~~~--~---~~~~~fC~~C~~~q~ 49 (183)
..|+.|+.. + .-...+|..||.+..
T Consensus 2 ~~CpeCg~~~~~~d~~~ge~VC~~CG~Vi~ 31 (285)
T COG1405 2 MSCPECGSTNIITDYERGEIVCADCGLVLE 31 (285)
T ss_pred CCCCCCCCccceeeccCCeEEeccCCEEec
Confidence 379999986 1 127899999998765
No 329
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=21.04 E-value=96 Score=22.24 Aligned_cols=27 Identities=22% Similarity=0.300 Sum_probs=19.2
Q ss_pred CCCCCCCCCCCCCC-----------CcccCCCCCCCcC
Q psy8513 23 LELKCWNCLKSLSG-----------KSLFCQHCSSVQK 49 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~-----------~~~fC~~C~~~q~ 49 (183)
....|.+|+.++.. ..--|..|+.--|
T Consensus 32 ~rS~C~~C~~~L~~~~lIPi~S~l~lrGrCr~C~~~I~ 69 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLIPILSYLLLRGRCRYCGAPIP 69 (92)
T ss_pred CCCcCcCCCCcCcccccchHHHHHHhCCCCcccCCCCC
Confidence 45689999998653 4556888886443
No 330
>KOG2997|consensus
Probab=20.92 E-value=86 Score=28.21 Aligned_cols=47 Identities=19% Similarity=0.200 Sum_probs=27.9
Q ss_pred HHHHHHHHhcCchhHHHHHHHhcCCCcc-cc---------C-ccCCHHHHHHHHHHhH
Q psy8513 106 YLNKAYSILQNPLKRGLYLLSLQNISIE-ED---------S-KGTDQKLLMEILMLNE 152 (183)
Q Consensus 106 ~In~AY~tL~dp~~Ra~Yll~l~g~~~~-~~---------~-~~~d~~fLme~me~~E 152 (183)
-+++-|--|-+...+..=+++-.+.++. ++ . ...++++||.|+++--
T Consensus 66 ~~k~~~l~l~~D~~~~~~~~s~f~~tLt~qe~v~~qp~~~~~~~LPdEvLm~I~~~vv 123 (366)
T KOG2997|consen 66 GVKNSYLELNDDASKMADLLSYFQQTLTFQESVLCQPELISISVLPDEVLMRIFRWVV 123 (366)
T ss_pred ccCcchhhccccchhhcCchhccccccccccccccchhhhhhhhCCHHHHHHHHHHHH
Confidence 3445555666666666544444444444 11 1 3467899999998854
No 331
>PRK14873 primosome assembly protein PriA; Provisional
Probab=20.67 E-value=59 Score=31.61 Aligned_cols=27 Identities=19% Similarity=0.398 Sum_probs=20.4
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCC--CcCCC
Q psy8513 23 LELKCWNCLKSLSGKSLFCQHCSS--VQKPD 51 (183)
Q Consensus 23 ~~~~Cw~C~~~~~~~~~fC~~C~~--~q~~~ 51 (183)
+...|.-||... ....|++|+. +++.+
T Consensus 409 ~~l~Ch~CG~~~--~p~~Cp~Cgs~~l~~~g 437 (665)
T PRK14873 409 GTPRCRWCGRAA--PDWRCPRCGSDRLRAVV 437 (665)
T ss_pred CeeECCCCcCCC--cCccCCCCcCCcceeee
Confidence 356799999964 4789999998 45544
No 332
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=20.60 E-value=93 Score=28.13 Aligned_cols=37 Identities=8% Similarity=0.229 Sum_probs=24.1
Q ss_pred CCCChhhhcCcc------ccCCCCHHHHHHHHHHHHHhhCCCC
Q psy8513 52 PQNNYYNVFDMK------MQYLINNADLSKKFKHLQSQLHPDK 88 (183)
Q Consensus 52 ~~~~~f~llgl~------~~~~iD~~~Lk~~Yr~l~~~~HPDk 88 (183)
..+.|..+.-|. -+-.|.++.+++.+-+|.+.|--+.
T Consensus 296 ~RPPYlhliPLaeIi~~~~g~gi~tK~V~~~we~lv~~FGtEi 338 (403)
T COG1379 296 HRPPYLHLIPLAEIISMALGKGITTKAVKRTWERLVRAFGTEI 338 (403)
T ss_pred CCCCceecccHHHHHHHHhccceechhHHHHHHHHHHHhcchh
Confidence 445666655442 1223667889999999998876554
No 333
>PF04032 Rpr2: RNAse P Rpr2/Rpp21/SNM1 subunit domain; InterPro: IPR007175 This family contains a ribonuclease P subunit of human and yeast. Other members of the family include the probable archaeal homologues. This subunit possibly binds the precursor tRNA [].; PDB: 2K3R_A 2KI7_B 2ZAE_B 1X0T_A.
Probab=20.58 E-value=53 Score=22.43 Aligned_cols=17 Identities=29% Similarity=0.688 Sum_probs=9.5
Q ss_pred CcccCCCCCCCcCCCCC
Q psy8513 37 KSLFCQHCSSVQKPDPQ 53 (183)
Q Consensus 37 ~~~fC~~C~~~q~~~~~ 53 (183)
...||..|+.+..|+.+
T Consensus 45 kr~~Ck~C~~~liPG~~ 61 (85)
T PF04032_consen 45 KRTICKKCGSLLIPGVN 61 (85)
T ss_dssp CCTB-TTT--B--CTTT
T ss_pred hcccccCCCCEEeCCCc
Confidence 67899999998888754
No 334
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 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 zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=20.57 E-value=26 Score=19.75 Aligned_cols=8 Identities=38% Similarity=0.650 Sum_probs=3.1
Q ss_pred CCCCCCCC
Q psy8513 27 CWNCLKSL 34 (183)
Q Consensus 27 Cw~C~~~~ 34 (183)
|+.|+..+
T Consensus 2 CP~C~s~l 9 (28)
T PF03119_consen 2 CPVCGSKL 9 (28)
T ss_dssp -TTT--BE
T ss_pred cCCCCCEe
Confidence 66676654
No 335
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=20.12 E-value=67 Score=34.16 Aligned_cols=56 Identities=21% Similarity=0.256 Sum_probs=32.4
Q ss_pred ccchhhhccCCC----CCCCCCCCC-----------CCCcccCCCCCCCcCCCCCCChhh-hcCcc----ccCCCC
Q psy8513 14 ALCTETAKSLEL----KCWNCLKSL-----------SGKSLFCQHCSSVQKPDPQNNYYN-VFDMK----MQYLIN 69 (183)
Q Consensus 14 ~~~~~~~~~~~~----~Cw~C~~~~-----------~~~~~fC~~C~~~q~~~~~~~~f~-llgl~----~~~~iD 69 (183)
++|...+..+|. .|++|+..- ..+.--||.||...--+.-.=+|+ .||.. |+.++|
T Consensus 894 Ay~lgITeVdPL~phy~C~~C~~~ef~~~~~~~sG~Dlpdk~Cp~Cg~~~~kdg~~l~FErFL~~~r~~~PDIDld 969 (1437)
T PRK00448 894 ATMIGITEVNPLPPHYVCPNCKYSEFFTDGSVGSGFDLPDKDCPKCGTKLKKDGHDIPFETFLGFKGDKVPDIDLN 969 (1437)
T ss_pred HHHhcCCCcCCCCccccCcccccccccccccccccccCccccCccccccccccCCCceeeeccCCCCCCCCCCccc
Confidence 444444455555 599998841 125567999999765544333444 44543 445544
Done!