Query 017446
Match_columns 371
No_of_seqs 147 out of 234
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 08:38:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017446.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017446hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2846 Predicted membrane pro 100.0 5.8E-46 1.3E-50 359.0 14.6 242 71-331 15-257 (328)
2 COG5415 Predicted integral mem 100.0 3.6E-39 7.8E-44 293.5 21.1 219 37-332 9-230 (251)
3 PF10058 DUF2296: Predicted in 99.9 1.5E-27 3.3E-32 176.9 4.2 51 276-326 1-54 (54)
4 KOG1924 RhoA GTPase effector D 94.5 0.3 6.4E-06 53.7 10.9 15 155-169 487-501 (1102)
5 KOG1924 RhoA GTPase effector D 93.4 1.2 2.5E-05 49.3 12.8 27 147-173 462-488 (1102)
6 PF10166 DUF2368: Uncharacteri 92.6 2.8 6.1E-05 36.8 11.9 20 131-150 92-111 (131)
7 PF04678 DUF607: Protein of un 89.4 9.4 0.0002 34.9 12.7 42 42-83 63-104 (180)
8 PF07754 DUF1610: Domain of un 88.0 0.42 9.2E-06 30.0 2.0 18 305-324 7-24 (24)
9 PF03604 DNA_RNApol_7kD: DNA d 84.9 0.62 1.3E-05 31.1 1.6 25 296-325 2-26 (32)
10 COG5415 Predicted integral mem 82.9 24 0.00053 33.5 11.8 62 22-85 1-62 (251)
11 KOG3507 DNA-directed RNA polym 81.7 0.8 1.7E-05 34.8 1.3 27 294-325 20-46 (62)
12 smart00659 RPOLCX RNA polymera 81.0 1.1 2.3E-05 32.1 1.7 26 295-325 3-28 (44)
13 PF00664 ABC_membrane: ABC tra 80.6 13 0.00029 33.1 9.3 39 134-172 172-210 (275)
14 PF10864 DUF2663: Protein of u 80.1 41 0.00089 29.6 12.1 31 133-163 83-114 (130)
15 smart00709 Zpr1 Duplicated dom 79.2 1.5 3.3E-05 39.7 2.5 60 296-358 2-69 (160)
16 COG3105 Uncharacterized protei 78.3 10 0.00022 33.3 7.2 38 133-172 38-75 (138)
17 PF04210 MtrG: Tetrahydrometha 78.0 9.5 0.00021 30.0 6.2 44 38-83 11-58 (70)
18 COG1996 RPC10 DNA-directed RNA 77.5 1.3 2.8E-05 32.5 1.3 28 294-325 6-33 (49)
19 smart00661 RPOL9 RNA polymeras 75.9 2.6 5.5E-05 30.2 2.5 29 296-327 2-31 (52)
20 PRK00398 rpoP DNA-directed RNA 75.5 2 4.3E-05 30.5 1.8 27 295-325 4-30 (46)
21 PF05876 Terminase_GpA: Phage 75.2 2.7 5.9E-05 45.1 3.5 52 287-338 193-251 (557)
22 PF08274 PhnA_Zn_Ribbon: PhnA 73.5 1.4 3E-05 29.1 0.5 24 297-325 5-28 (30)
23 PRK11677 hypothetical protein; 73.3 14 0.00031 32.5 7.0 38 133-172 33-70 (134)
24 PF04341 DUF485: Protein of un 72.8 25 0.00055 28.6 7.9 27 58-84 6-32 (91)
25 TIGR00416 sms DNA repair prote 72.7 2.2 4.7E-05 44.7 2.0 31 292-330 5-35 (454)
26 TIGR00310 ZPR1_znf ZPR1 zinc f 71.6 2.2 4.8E-05 39.8 1.6 59 295-358 1-68 (192)
27 PRK01026 tetrahydromethanopter 70.9 18 0.00039 29.0 6.3 44 38-83 14-61 (77)
28 COG2888 Predicted Zn-ribbon RN 70.6 2 4.4E-05 32.7 0.9 12 316-327 50-61 (61)
29 PRK11823 DNA repair protein Ra 70.1 2.7 5.8E-05 43.9 2.0 30 293-330 6-35 (446)
30 cd01121 Sms Sms (bacterial rad 69.5 2.7 5.9E-05 42.9 1.8 27 296-330 2-28 (372)
31 PF11460 DUF3007: Protein of u 69.2 19 0.0004 30.5 6.4 24 133-156 70-94 (104)
32 TIGR02976 phageshock_pspB phag 68.7 8.9 0.00019 30.5 4.2 23 141-168 36-58 (75)
33 TIGR01562 FdhE formate dehydro 68.5 4.5 9.7E-05 40.4 3.1 65 281-356 196-268 (305)
34 PRK14890 putative Zn-ribbon RN 68.0 2.7 5.8E-05 32.0 1.0 13 315-327 47-59 (59)
35 TIGR00467 lysS_arch lysyl-tRNA 66.7 4.2 9.2E-05 43.3 2.7 36 292-330 166-204 (515)
36 TIGR02605 CxxC_CxxC_SSSS putat 66.6 3.2 7E-05 29.9 1.2 39 293-336 4-43 (52)
37 TIGR02868 CydC thiol reductant 65.8 60 0.0013 34.0 11.0 33 138-170 189-221 (529)
38 TIGR02098 MJ0042_CXXC MJ0042 f 65.4 4.3 9.3E-05 27.4 1.6 32 295-326 3-35 (38)
39 smart00440 ZnF_C2C2 C2C2 Zinc 64.8 5.2 0.00011 27.8 1.9 29 296-325 2-37 (40)
40 TIGR01149 mtrG N5-methyltetrah 64.6 32 0.0007 27.0 6.4 44 38-83 11-58 (70)
41 PF01921 tRNA-synt_1f: tRNA sy 64.5 4.2 9.1E-05 41.5 2.0 54 278-331 155-214 (360)
42 PF07295 DUF1451: Protein of u 64.2 3.8 8.3E-05 36.6 1.5 30 294-327 112-141 (146)
43 PF05055 DUF677: Protein of un 64.2 1E+02 0.0023 31.2 11.8 15 157-171 258-272 (336)
44 PF01616 Orbi_NS3: Orbivirus N 64.1 1.1E+02 0.0024 28.8 11.1 25 131-162 152-176 (195)
45 PF04810 zf-Sec23_Sec24: Sec23 62.9 4 8.7E-05 28.3 1.1 35 295-330 3-38 (40)
46 PRK11788 tetratricopeptide rep 62.7 8.5 0.00019 37.7 3.8 40 275-326 339-378 (389)
47 PRK04136 rpl40e 50S ribosomal 62.6 4.5 9.8E-05 29.5 1.3 25 294-326 14-38 (48)
48 PLN02777 photosystem I P subun 62.6 55 0.0012 29.9 8.5 6 127-132 140-145 (167)
49 COG3162 Predicted membrane pro 62.5 64 0.0014 27.2 8.2 28 57-84 13-40 (102)
50 PF01020 Ribosomal_L40e: Ribos 62.4 5.2 0.00011 29.7 1.6 26 294-327 17-44 (52)
51 PF15188 CCDC-167: Coiled-coil 61.5 23 0.0005 28.9 5.4 30 39-68 39-68 (85)
52 PF08395 7tm_7: 7tm Chemosenso 61.0 1.1E+02 0.0023 28.3 10.7 8 158-165 224-231 (372)
53 PRK11032 hypothetical protein; 60.0 5 0.00011 36.4 1.5 29 294-326 124-152 (160)
54 PF09771 Tmemb_18A: Transmembr 59.3 81 0.0017 27.6 8.7 29 38-67 3-31 (125)
55 TIGR00340 zpr1_rel ZPR1-relate 59.2 5.9 0.00013 36.0 1.8 57 297-358 1-66 (163)
56 PF03367 zf-ZPR1: ZPR1 zinc-fi 58.8 3.1 6.8E-05 37.6 -0.0 60 296-358 3-70 (161)
57 COG3887 Predicted signaling pr 56.6 59 0.0013 35.5 8.9 44 106-152 37-80 (655)
58 PF13248 zf-ribbon_3: zinc-rib 56.3 6.2 0.00013 24.8 1.0 24 294-325 2-25 (26)
59 KOG2703 C4-type Zn-finger prot 56.3 4.9 0.00011 41.4 0.9 33 295-328 40-80 (460)
60 TIGR00686 phnA alkylphosphonat 55.4 6.6 0.00014 33.4 1.4 25 297-326 5-29 (109)
61 smart00731 SprT SprT homologue 55.0 17 0.00037 31.8 4.0 32 292-324 110-141 (146)
62 PRK11160 cysteine/glutathione 54.9 1.2E+02 0.0026 32.3 11.2 36 135-170 193-228 (574)
63 PF15086 UPF0542: Uncharacteri 54.3 92 0.002 24.8 7.4 21 135-155 51-71 (74)
64 PF08271 TF_Zn_Ribbon: TFIIB z 54.3 6.2 0.00013 27.6 0.9 27 296-325 2-28 (43)
65 PRK10220 hypothetical protein; 54.2 9.3 0.0002 32.6 2.1 28 296-328 5-32 (111)
66 PF00957 Synaptobrevin: Synapt 54.1 81 0.0018 25.0 7.5 10 58-67 49-58 (89)
67 PF01096 TFIIS_C: Transcriptio 53.7 6.7 0.00015 27.0 1.0 29 297-325 3-37 (39)
68 PF06305 DUF1049: Protein of u 53.5 50 0.0011 24.7 5.9 12 133-144 52-63 (68)
69 COG1326 Uncharacterized archae 53.3 6.4 0.00014 36.8 1.1 39 293-331 5-45 (201)
70 COG1552 RPL40A Ribosomal prote 53.1 3.3 7.1E-05 30.4 -0.7 27 295-329 15-41 (50)
71 PF10122 Mu-like_Com: Mu-like 52.9 6.9 0.00015 28.9 1.0 32 295-328 5-36 (51)
72 PF08285 DPM3: Dolichol-phosph 52.8 1.3E+02 0.0028 24.7 9.0 50 103-154 36-86 (91)
73 PF09972 DUF2207: Predicted me 52.5 1.3E+02 0.0028 30.7 10.6 15 39-53 362-376 (511)
74 PF14803 Nudix_N_2: Nudix N-te 52.4 8.4 0.00018 26.0 1.2 28 297-324 3-30 (34)
75 KOG1986 Vesicle coat complex C 50.9 9 0.0002 42.0 1.8 39 293-331 52-90 (745)
76 KOG3214 Uncharacterized Zn rib 50.5 6.7 0.00015 33.0 0.6 31 313-349 20-50 (109)
77 COG3478 Predicted nucleic-acid 50.4 7.2 0.00016 30.3 0.7 27 316-342 4-30 (68)
78 KOG2846 Predicted membrane pro 50.3 1.7E+02 0.0036 29.7 10.4 121 43-167 22-143 (328)
79 COG1066 Sms Predicted ATP-depe 50.3 9.5 0.00021 39.8 1.8 38 293-338 6-43 (456)
80 PF06295 DUF1043: Protein of u 50.1 56 0.0012 28.3 6.4 35 135-171 31-65 (128)
81 smart00531 TFIIE Transcription 49.9 6.8 0.00015 34.6 0.7 34 289-325 94-132 (147)
82 TIGR02857 CydD thiol reductant 49.6 1.5E+02 0.0033 31.0 10.7 31 139-169 180-210 (529)
83 COG4064 MtrG Tetrahydromethano 49.6 78 0.0017 25.0 6.3 44 38-83 14-61 (75)
84 PF09855 DUF2082: Nucleic-acid 49.5 7.8 0.00017 29.9 0.8 23 317-339 1-23 (64)
85 PF01956 DUF106: Integral memb 49.3 56 0.0012 29.2 6.5 63 106-168 12-75 (168)
86 PRK02201 putative inner membra 48.9 1.8E+02 0.0039 29.7 10.7 57 116-173 141-205 (357)
87 PF08792 A2L_zn_ribbon: A2L zi 47.9 9.5 0.00021 25.6 0.9 28 296-327 5-32 (33)
88 cd00674 LysRS_core_class_I cat 47.0 13 0.00029 37.7 2.3 56 273-331 145-207 (353)
89 PF03904 DUF334: Domain of unk 46.8 2.8E+02 0.006 26.8 10.9 10 123-132 217-226 (230)
90 PF14981 FAM165: FAM165 family 46.7 44 0.00095 24.3 4.2 17 131-147 32-48 (51)
91 PRK11174 cysteine/glutathione 46.6 1.2E+02 0.0027 32.2 9.6 30 139-168 199-228 (588)
92 PF04120 Iron_permease: Low af 45.1 1.1E+02 0.0024 26.9 7.5 14 140-153 70-83 (132)
93 PRK14704 anaerobic ribonucleos 45.0 13 0.00029 40.5 2.0 57 273-338 534-594 (618)
94 PRK09263 anaerobic ribonucleos 44.7 11 0.00024 41.8 1.4 58 273-335 617-678 (711)
95 TIGR00958 3a01208 Conjugate Tr 44.6 2E+02 0.0043 31.7 11.0 6 111-116 310-315 (711)
96 PRK11176 lipid transporter ATP 43.8 2.4E+02 0.0052 29.9 11.3 25 146-170 208-232 (582)
97 CHL00104 rpl33 ribosomal prote 43.6 18 0.00038 28.2 2.0 13 293-305 11-23 (66)
98 PRK08271 anaerobic ribonucleos 43.3 13 0.00029 40.6 1.7 54 273-335 541-599 (623)
99 PF07282 OrfB_Zn_ribbon: Putat 42.9 17 0.00036 27.6 1.7 32 295-330 29-60 (69)
100 PF03268 DUF267: Caenorhabditi 42.7 1.9E+02 0.0041 29.7 9.6 29 40-68 88-116 (353)
101 smart00834 CxxC_CXXC_SSSS Puta 42.6 12 0.00025 25.3 0.8 30 293-324 4-34 (41)
102 PF07332 DUF1469: Protein of u 42.3 2E+02 0.0043 23.9 12.0 19 136-154 102-120 (121)
103 PF11902 DUF3422: Protein of u 41.9 1.8E+02 0.0039 30.5 9.6 13 40-52 309-321 (420)
104 PRK00750 lysK lysyl-tRNA synth 41.8 24 0.00052 37.6 3.3 58 273-331 151-214 (510)
105 PF13239 2TM: 2TM domain 41.1 1.8E+02 0.0038 22.9 8.3 19 65-83 11-29 (83)
106 PF12773 DZR: Double zinc ribb 41.0 14 0.00031 26.1 1.1 30 294-328 12-41 (50)
107 PF08882 Acetone_carb_G: Aceto 40.9 17 0.00036 31.2 1.6 22 304-325 61-83 (112)
108 PRK07111 anaerobic ribonucleos 40.6 15 0.00034 40.8 1.7 52 273-333 655-710 (735)
109 PHA00626 hypothetical protein 40.6 18 0.0004 27.3 1.6 31 295-328 1-35 (59)
110 PF06103 DUF948: Bacterial pro 40.5 1.7E+02 0.0036 23.3 7.4 37 132-170 29-65 (90)
111 COG0375 HybF Zn finger protein 40.5 14 0.0003 31.8 1.1 27 295-327 71-97 (115)
112 COG1132 MdlB ABC-type multidru 40.4 4.1E+02 0.0089 28.1 12.4 58 112-170 162-219 (567)
113 COG1379 PHP family phosphoeste 40.2 9.3 0.0002 38.6 -0.0 61 276-339 215-289 (403)
114 TIGR01842 type_I_sec_PrtD type 40.1 2.8E+02 0.0061 29.2 11.1 20 149-168 187-206 (544)
115 PRK10790 putative multidrug tr 40.1 3.5E+02 0.0075 28.8 11.8 32 138-169 200-231 (592)
116 PRK00564 hypA hydrogenase nick 40.1 15 0.00033 31.4 1.2 27 293-327 70-99 (117)
117 KOG3976 Mitochondrial F1F0-ATP 39.6 1.6E+02 0.0036 28.5 8.2 49 118-166 111-159 (247)
118 PF12597 DUF3767: Protein of u 39.1 2.5E+02 0.0054 24.1 9.2 22 70-91 40-62 (118)
119 PRK06266 transcription initiat 39.0 7.7 0.00017 35.6 -0.8 33 290-325 113-145 (178)
120 COG1592 Rubrerythrin [Energy p 38.8 36 0.00077 31.2 3.5 39 275-325 120-158 (166)
121 PRK03954 ribonuclease P protei 38.7 17 0.00037 31.5 1.3 36 295-330 65-107 (121)
122 PRK02935 hypothetical protein; 38.5 18 0.00038 30.8 1.3 13 67-79 13-25 (110)
123 PF12760 Zn_Tnp_IS1595: Transp 38.4 34 0.00074 24.1 2.7 39 277-324 7-45 (46)
124 TIGR00100 hypA hydrogenase nic 37.8 18 0.00038 30.8 1.3 26 293-326 69-96 (115)
125 PF04216 FdhE: Protein involve 37.8 11 0.00023 37.0 -0.1 38 293-338 196-233 (290)
126 PF13597 NRDD: Anaerobic ribon 37.6 14 0.00031 39.6 0.9 35 291-334 488-522 (546)
127 PRK01642 cls cardiolipin synth 37.2 2E+02 0.0043 30.3 9.2 18 106-123 38-55 (483)
128 PRK12380 hydrogenase nickel in 36.8 16 0.00036 30.9 1.0 28 293-326 69-96 (113)
129 COG1422 Predicted membrane pro 36.2 2E+02 0.0043 27.2 8.0 33 134-166 70-105 (201)
130 COG1384 LysS Lysyl-tRNA synthe 36.0 30 0.00065 37.0 2.9 39 292-331 169-209 (521)
131 PF13894 zf-C2H2_4: C2H2-type 35.9 18 0.00039 20.7 0.8 15 317-331 1-15 (24)
132 PRK14714 DNA polymerase II lar 35.8 23 0.0005 41.6 2.2 24 332-355 735-758 (1337)
133 PF13240 zinc_ribbon_2: zinc-r 35.7 17 0.00038 22.3 0.7 12 318-329 1-12 (23)
134 PF07431 DUF1512: Protein of u 35.7 1.7E+02 0.0036 30.0 8.0 37 133-169 33-69 (355)
135 PRK03824 hypA hydrogenase nick 35.3 19 0.00041 31.5 1.1 12 315-326 106-117 (135)
136 PF14255 Cys_rich_CPXG: Cystei 34.7 15 0.00033 27.2 0.4 15 317-331 1-15 (52)
137 PRK05654 acetyl-CoA carboxylas 34.6 9.1 0.0002 37.9 -1.1 30 295-327 28-57 (292)
138 COG2023 RPR2 RNase P subunit R 34.5 19 0.00042 30.5 1.0 32 294-326 56-92 (105)
139 PRK14559 putative protein seri 34.5 23 0.0005 38.9 1.9 31 318-348 29-59 (645)
140 PF08772 NOB1_Zn_bind: Nin one 34.4 19 0.00042 28.5 0.9 38 291-338 6-43 (73)
141 PF13821 DUF4187: Domain of un 34.2 22 0.00047 26.6 1.1 27 315-341 26-52 (55)
142 TIGR00954 3a01203 Peroxysomal 34.0 2.1E+02 0.0045 31.4 9.1 58 111-169 248-305 (659)
143 PF10779 XhlA: Haemolysin XhlA 34.0 1.8E+02 0.0039 22.4 6.4 9 58-66 35-43 (71)
144 KOG2302 T-type voltage-gated C 33.8 2.2E+02 0.0047 33.5 9.0 46 295-340 1598-1649(1956)
145 PRK01315 putative inner membra 33.6 3.7E+02 0.0079 27.2 10.1 15 159-173 94-108 (329)
146 TIGR00373 conserved hypothetic 33.6 10 0.00023 34.0 -0.8 34 289-325 104-137 (158)
147 PRK03449 putative inner membra 33.4 3.8E+02 0.0082 26.8 10.0 15 159-173 84-98 (304)
148 PRK08579 anaerobic ribonucleos 33.3 21 0.00044 39.1 1.2 52 273-334 543-600 (625)
149 PRK05886 yajC preprotein trans 33.0 78 0.0017 27.0 4.4 15 141-155 28-42 (109)
150 COG5056 ARE1 Acyl-CoA choleste 33.0 3.2E+02 0.007 28.9 9.6 25 144-168 229-253 (512)
151 PF06305 DUF1049: Protein of u 32.9 2E+02 0.0043 21.3 6.3 9 137-145 49-57 (68)
152 PRK10789 putative multidrug tr 32.5 3.7E+02 0.0081 28.6 10.6 32 139-170 173-204 (569)
153 KOG1726 HVA22/DP1 gene product 32.3 3E+02 0.0065 26.4 8.7 33 136-169 91-123 (225)
154 PF13974 YebO: YebO-like prote 32.1 1.5E+02 0.0032 24.0 5.6 13 138-150 32-44 (80)
155 cd01675 RNR_III Class III ribo 31.7 20 0.00044 38.5 0.9 51 273-332 493-548 (555)
156 PF13717 zinc_ribbon_4: zinc-r 31.6 30 0.00066 23.4 1.4 31 295-325 3-34 (36)
157 KOG2662 Magnesium transporters 31.6 3.3E+02 0.0072 28.5 9.4 27 60-86 339-365 (414)
158 KOG1923 Rac1 GTPase effector F 31.6 1.5E+02 0.0033 33.3 7.4 14 274-287 386-399 (830)
159 PRK10755 sensor protein BasS/P 31.4 2.3E+02 0.0049 27.5 8.1 16 272-287 243-258 (356)
160 PRK02654 putative inner membra 31.2 2.8E+02 0.0062 28.5 8.7 39 133-172 51-95 (375)
161 PRK11380 hypothetical protein; 31.0 1.6E+02 0.0034 30.1 6.9 36 275-311 225-268 (353)
162 PF05129 Elf1: Transcription e 30.8 21 0.00046 28.7 0.6 18 314-331 20-37 (81)
163 TIGR02487 NrdD anaerobic ribon 30.6 31 0.00066 37.4 2.0 54 273-334 499-556 (579)
164 PF06676 DUF1178: Protein of u 30.3 14 0.0003 33.2 -0.6 35 292-326 3-42 (148)
165 COG2888 Predicted Zn-ribbon RN 30.3 37 0.00081 26.0 1.8 27 294-324 9-35 (61)
166 PF05605 zf-Di19: Drought indu 29.8 21 0.00045 26.0 0.4 17 316-334 2-18 (54)
167 PRK09458 pspB phage shock prot 29.7 77 0.0017 25.3 3.6 11 110-120 6-16 (75)
168 TIGR03796 NHPM_micro_ABC1 NHPM 29.6 5.6E+02 0.012 28.0 11.5 12 158-169 348-359 (710)
169 PF00957 Synaptobrevin: Synapt 29.5 2.8E+02 0.0061 21.8 7.9 7 45-51 33-39 (89)
170 COG1422 Predicted membrane pro 29.3 3.9E+02 0.0084 25.3 8.7 17 70-86 121-137 (201)
171 PF14353 CpXC: CpXC protein 29.2 32 0.00068 29.3 1.5 17 312-328 34-50 (128)
172 PRK15103 paraquat-inducible me 29.2 47 0.001 34.6 3.0 37 295-333 11-51 (419)
173 PF02150 RNA_POL_M_15KD: RNA p 28.9 18 0.0004 24.4 -0.0 29 297-328 4-32 (35)
174 PF14992 TMCO5: TMCO5 family 28.9 1.6E+02 0.0035 29.2 6.4 55 63-121 211-265 (280)
175 PF14257 DUF4349: Domain of un 28.8 2.5E+02 0.0055 26.7 7.8 35 38-73 158-192 (262)
176 PF14952 zf-tcix: Putative tre 28.6 28 0.00061 25.0 0.9 12 318-329 13-24 (44)
177 PF06695 Sm_multidrug_ex: Puta 28.5 2E+02 0.0044 24.5 6.4 11 159-169 63-73 (121)
178 smart00547 ZnF_RBZ Zinc finger 28.4 32 0.00069 21.0 1.0 21 317-337 3-23 (26)
179 TIGR01385 TFSII transcription 28.4 27 0.00058 34.8 1.0 34 316-351 258-291 (299)
180 PF00641 zf-RanBP: Zn-finger i 28.4 20 0.00043 23.0 0.1 24 316-339 4-27 (30)
181 PF05055 DUF677: Protein of un 28.3 6.4E+02 0.014 25.6 12.5 17 44-60 147-163 (336)
182 PF11471 Sugarporin_N: Maltopo 28.3 1.4E+02 0.003 22.7 4.7 32 36-67 25-56 (60)
183 PRK04351 hypothetical protein; 28.3 42 0.0009 30.0 2.1 32 291-324 109-140 (149)
184 COG2824 PhnA Uncharacterized Z 27.9 29 0.00062 29.6 0.9 11 315-325 19-29 (112)
185 cd00729 rubredoxin_SM Rubredox 27.7 41 0.00088 22.5 1.5 24 295-325 3-27 (34)
186 KOG1557 Fructose-biphosphate a 27.6 17 0.00036 36.4 -0.5 19 291-313 171-189 (363)
187 PF02748 PyrI_C: Aspartate car 27.5 40 0.00087 24.9 1.6 31 295-325 7-44 (52)
188 TIGR02203 MsbA_lipidA lipid A 27.4 7.3E+02 0.016 26.0 11.7 12 292-303 438-449 (571)
189 COG4640 Predicted membrane pro 27.3 32 0.0007 35.6 1.4 32 295-334 2-33 (465)
190 PRK06260 threonine synthase; V 27.3 39 0.00085 34.5 2.0 27 293-325 2-28 (397)
191 PF12794 MscS_TM: Mechanosensi 27.3 5.8E+02 0.013 25.6 10.4 17 136-152 258-274 (340)
192 PF00096 zf-C2H2: Zinc finger, 27.2 32 0.00069 20.1 0.8 13 317-329 1-13 (23)
193 COG1862 YajC Preprotein transl 27.1 1.1E+02 0.0024 25.5 4.3 14 141-154 33-46 (97)
194 PF10458 Val_tRNA-synt_C: Valy 27.1 1E+02 0.0022 23.4 3.8 27 40-66 1-27 (66)
195 PRK10633 hypothetical protein; 27.1 3.4E+02 0.0073 21.9 7.4 10 110-119 51-60 (80)
196 PTZ00265 multidrug resistance 27.1 5.6E+02 0.012 31.1 11.7 33 138-170 232-264 (1466)
197 TIGR03797 NHPM_micro_ABC2 NHPM 27.0 6.5E+02 0.014 27.4 11.5 10 330-339 558-567 (686)
198 PHA02942 putative transposase; 26.9 48 0.001 34.0 2.6 33 294-331 325-357 (383)
199 COG1781 PyrI Aspartate carbamo 26.8 33 0.00071 30.9 1.2 33 294-327 106-146 (153)
200 COG3091 SprT Zn-dependent meta 26.8 41 0.00088 30.5 1.8 32 291-325 114-149 (156)
201 TIGR02230 ATPase_gene1 F0F1-AT 26.5 3.9E+02 0.0084 22.4 8.3 11 69-79 38-48 (100)
202 cd04476 RPA1_DBD_C RPA1_DBD_C: 26.3 51 0.0011 29.2 2.4 61 293-358 33-98 (166)
203 COG1096 Predicted RNA-binding 26.2 39 0.00085 31.5 1.6 24 296-325 151-174 (188)
204 COG4888 Uncharacterized Zn rib 26.1 32 0.0007 29.0 0.9 29 315-349 21-49 (104)
205 PRK00432 30S ribosomal protein 26.1 44 0.00096 24.4 1.6 28 293-325 19-46 (50)
206 PF06667 PspB: Phage shock pro 26.1 1.2E+02 0.0025 24.3 4.0 9 134-142 40-48 (75)
207 PRK15033 tricarballylate utili 26.0 2.7E+02 0.0059 28.9 7.7 21 64-84 231-251 (389)
208 PF15361 RIC3: Resistance to i 25.9 1.4E+02 0.003 26.8 5.0 14 135-148 130-143 (152)
209 COG1503 eRF1 Peptide chain rel 25.9 26 0.00057 36.4 0.5 17 272-288 277-293 (411)
210 COG0675 Transposase and inacti 25.9 43 0.00093 32.0 1.9 28 295-331 310-337 (364)
211 PRK09609 hypothetical protein; 25.5 5.6E+02 0.012 25.8 9.6 31 114-144 95-127 (312)
212 PRK00762 hypA hydrogenase nick 25.5 40 0.00087 29.1 1.5 32 293-326 69-102 (124)
213 PRK06393 rpoE DNA-directed RNA 25.4 34 0.00074 26.5 0.9 22 294-325 5-26 (64)
214 PRK08270 anaerobic ribonucleos 25.4 33 0.00071 37.8 1.1 43 273-324 600-647 (656)
215 PRK10747 putative protoheme IX 25.2 6E+02 0.013 25.6 10.2 16 155-170 97-112 (398)
216 PF13909 zf-H2C2_5: C2H2-type 25.2 36 0.00079 20.2 0.8 11 317-327 1-11 (24)
217 PF06196 DUF997: Protein of un 25.2 3.4E+02 0.0074 21.7 6.6 9 110-118 51-59 (80)
218 PF04032 Rpr2: RNAse P Rpr2/Rp 25.2 29 0.00062 27.2 0.5 31 294-324 46-85 (85)
219 TIGR00155 pqiA_fam integral me 24.9 69 0.0015 33.1 3.3 30 295-326 14-43 (403)
220 COG5416 Uncharacterized integr 24.8 3.7E+02 0.0081 22.6 6.9 23 71-93 24-46 (98)
221 CHL00118 atpG ATP synthase CF0 24.7 4.8E+02 0.01 22.9 8.4 7 114-120 34-40 (156)
222 TIGR03592 yidC_oxa1_cterm memb 24.6 3.2E+02 0.0069 24.7 7.3 40 133-172 26-67 (181)
223 PF13314 DUF4083: Domain of un 24.6 1.6E+02 0.0036 22.4 4.4 13 140-152 43-55 (58)
224 KOG1962 B-cell receptor-associ 24.6 6.3E+02 0.014 24.2 10.9 6 112-117 105-110 (216)
225 PRK09458 pspB phage shock prot 24.5 2E+02 0.0044 23.0 5.1 12 133-144 39-50 (75)
226 PF10571 UPF0547: Uncharacteri 24.5 43 0.00094 21.2 1.1 16 312-327 10-25 (26)
227 PF09723 Zn-ribbon_8: Zinc rib 24.3 42 0.00092 23.3 1.1 30 293-324 4-34 (42)
228 KOG0055 Multidrug/pheromone ex 24.1 1.3E+03 0.028 27.8 13.4 63 107-170 813-875 (1228)
229 KOG2296 Integral membrane prot 24.1 7.7E+02 0.017 27.3 10.8 33 138-172 215-247 (673)
230 PF15145 DUF4577: Domain of un 24.0 1.1E+02 0.0023 26.5 3.7 17 138-155 96-112 (128)
231 PRK08351 DNA-directed RNA poly 23.9 40 0.00087 25.9 1.0 21 296-326 5-25 (61)
232 PF05814 DUF843: Baculovirus p 23.8 2.3E+02 0.0049 23.1 5.3 19 133-151 47-65 (83)
233 PLN00162 transport protein sec 23.8 46 0.001 37.3 1.9 36 295-331 54-90 (761)
234 PF06667 PspB: Phage shock pro 23.7 3.6E+02 0.0077 21.5 6.4 23 141-168 36-58 (75)
235 PRK03681 hypA hydrogenase nick 23.4 37 0.00081 28.8 0.9 26 293-326 69-97 (114)
236 cd09235 V_Alix Middle V-domain 23.4 88 0.0019 31.4 3.7 34 134-168 196-229 (339)
237 PRK07591 threonine synthase; V 23.4 49 0.0011 34.2 1.9 26 293-325 17-42 (421)
238 TIGR01846 type_I_sec_HlyB type 22.9 1E+03 0.022 26.0 12.3 29 141-169 316-344 (694)
239 PRK00464 nrdR transcriptional 22.9 58 0.0013 29.4 2.0 32 295-326 1-38 (154)
240 TIGR02976 phageshock_pspB phag 22.8 3.1E+02 0.0067 21.8 5.9 11 134-144 40-50 (75)
241 TIGR02484 CitB CitB domain pro 22.6 2.8E+02 0.0061 28.6 7.1 21 64-84 211-231 (372)
242 PF03811 Zn_Tnp_IS1: InsA N-te 22.6 81 0.0018 21.5 2.2 29 294-322 5-35 (36)
243 COG3924 Predicted membrane pro 22.5 3.6E+02 0.0078 21.6 6.1 12 80-91 21-33 (80)
244 PF14163 SieB: Superinfection 22.3 5.2E+02 0.011 22.5 8.0 10 143-152 70-79 (151)
245 PF14257 DUF4349: Domain of un 22.0 35 0.00076 32.7 0.5 22 41-62 167-188 (262)
246 COG2919 Septum formation initi 22.0 3.7E+02 0.0079 22.8 6.7 19 134-152 62-80 (117)
247 TIGR00782 ccoP cytochrome c ox 22.0 2.7E+02 0.0059 27.1 6.7 34 275-308 180-225 (285)
248 PHA00476 hypothetical protein 21.9 4E+02 0.0086 22.6 6.5 31 75-105 6-36 (110)
249 TIGR03844 cysteate_syn cysteat 21.9 53 0.0011 33.8 1.7 24 293-323 1-24 (398)
250 PF06703 SPC25: Microsomal sig 21.8 2E+02 0.0044 25.4 5.4 35 48-83 6-40 (162)
251 PF13719 zinc_ribbon_5: zinc-r 21.7 56 0.0012 22.1 1.3 32 295-326 3-35 (37)
252 PF04999 FtsL: Cell division p 21.6 3.8E+02 0.0082 21.4 6.5 9 138-146 44-52 (97)
253 PF14126 DUF4293: Domain of un 21.5 4E+02 0.0087 23.6 7.1 9 128-136 133-141 (149)
254 PF04568 IATP: Mitochondrial A 21.4 1.4E+02 0.0031 25.0 3.9 22 130-151 66-87 (100)
255 TIGR00540 hemY_coli hemY prote 21.4 8.5E+02 0.018 24.5 11.1 15 155-169 97-111 (409)
256 PF03907 Spo7: Spo7-like prote 21.3 4.8E+02 0.01 24.8 7.8 26 67-92 27-52 (207)
257 PF13453 zf-TFIIB: Transcripti 21.1 58 0.0013 22.3 1.3 25 297-323 2-26 (41)
258 KOG4050 Glutamate transporter 21.1 4.5E+02 0.0098 24.2 7.3 20 135-154 149-168 (188)
259 PF04420 CHD5: CHD5-like prote 21.0 1.5E+02 0.0032 26.7 4.2 26 43-68 73-98 (161)
260 PF13038 DUF3899: Domain of un 20.9 54 0.0012 26.3 1.3 6 23-28 24-29 (92)
261 KOG1994 Predicted RNA binding 20.6 44 0.00096 32.2 0.8 25 316-340 239-263 (268)
262 PRK08032 fliD flagellar cappin 20.6 1.1E+02 0.0024 32.1 3.9 37 32-68 402-438 (462)
263 KOG2568 Predicted membrane pro 20.6 5.2E+02 0.011 27.9 8.8 32 71-102 385-418 (518)
264 PF10112 Halogen_Hydrol: 5-bro 20.6 4.6E+02 0.0099 23.9 7.6 11 277-287 176-186 (199)
265 PF05405 Mt_ATP-synt_B: Mitoch 20.4 1.4E+02 0.0031 26.4 4.0 39 120-158 32-70 (163)
266 PF00301 Rubredoxin: Rubredoxi 20.2 52 0.0011 23.8 0.9 23 303-325 19-43 (47)
267 COG1594 RPB9 DNA-directed RNA 20.2 62 0.0013 27.5 1.6 31 297-329 5-35 (113)
268 PRK03564 formate dehydrogenase 20.2 62 0.0013 32.4 1.8 37 286-333 205-241 (309)
269 PF13209 DUF4017: Protein of u 20.2 1.5E+02 0.0033 22.4 3.4 20 78-97 8-27 (60)
270 PF14584 DUF4446: Protein of u 20.2 2.3E+02 0.005 25.4 5.3 33 124-156 30-62 (151)
271 KOG2966 Uncharacterized conser 20.1 3.1E+02 0.0067 27.7 6.5 12 39-50 182-193 (325)
272 KOG1655 Protein involved in va 20.1 1.5E+02 0.0032 28.1 4.1 18 134-151 124-141 (218)
273 PRK02944 OxaA-like protein pre 20.1 7.9E+02 0.017 23.7 9.5 40 133-172 83-128 (255)
No 1
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=100.00 E-value=5.8e-46 Score=359.04 Aligned_cols=242 Identities=25% Similarity=0.315 Sum_probs=180.0
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcccccchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Q 017446 71 RHLIIFTVVFEVIAVGYAIMTTRSMELNWKTRALQVLPIFLLPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKID 150 (371)
Q Consensus 71 ~~L~~ys~~l~vi~ivY~~~~~~~~~~~w~~r~~~~lp~l~~P~li~li~~~~~~f~~~~~~~~e~kL~~L~~qkkk~Ie 150 (371)
..++.|++.+|++ .|.++.....+..|..+..+++|++++|++++++++++.+|+.+.+++++.+|.+|++++.++++
T Consensus 15 ~~~~~y~~~~~~~--~~~i~~~~~~~~~~q~~~~~~~p~l~~~~I~~~~~~~~~~y~~~~~~r~~~~lt~L~s~~~~ll~ 92 (328)
T KOG2846|consen 15 TFVTKYTSDLYIF--TSQIHQLDYAPEKSQSILSQWQPNLGFPGIILTVRRLSYTYFEYRLNRNTLKLTRLKSQKSKLLE 92 (328)
T ss_pred eeeeehhHHHHHH--HHHHHhhhccCchhHHHHHHHHHHhcchHHHHHHHHHHHhhhheecccchHHHHHHHHHHHHHHH
Confidence 3344455554444 34444444456788889999999999999999999999999999999999999999999999999
Q ss_pred HhhhhcChHHHHHHHHhcCCChhhHHHHHHHHhhhcCCCCCCccccCCCCC-CCCCCCCCCCcccCCCcccccccCCCCC
Q 017446 151 ELKERTNYYTTQQLIQRYDPDPAAKAAAATVLASKLGADSGLNVFVGDESN-FNVPLGNSNDVEVMPSSGLRNRKQLQPR 229 (371)
Q Consensus 151 elKe~t~Y~~Tk~LLekYd~~~~~~~~aat~~~~k~g~~~~~~~~~~~e~~-~~~~~~~~~~~~~~~~~~lr~R~~~~~~ 229 (371)
++++.+.|..++.||+|||++++++..+.|..+.+.+++++++.++.+..+ ... +.+.+++.+...+
T Consensus 93 ~v~~~~ly~~a~~il~Ry~~~~~a~~~~~t~~~~k~~~~s~~~l~~~~~~r~~~l------------s~~~~~~r~~~t~ 160 (328)
T KOG2846|consen 93 LVLETKLYKVALNILERYDPDPAAKRAAPTSLAEKLGARSGLNLTKLTAARQVFL------------SGGKQNQRQANTL 160 (328)
T ss_pred HHHHHHHHHHHHHHHHHhcchHHHHhhhhhhhhhhhccccCCchhhhhhhhhhcc------------Cccchhhhhcccc
Confidence 999999999999999999999888888889999999999999887776543 111 1222332222221
Q ss_pred CCCCCCCCCCCCCccccCCCCCCCCCCCcccccCCCCCCccCCCccHHHHHHHHHhcCCCCCcceeeccccccccCccCC
Q 017446 230 SGGAGSTPLHHSDEETSSSFGSEGPEHNQLVVNHHYPQVSTMHDGGWIARIAAILVGDDPSQSYALICGNCHMHNGESIR 309 (371)
Q Consensus 230 ~~~pg~p~~~~~~~~l~~~~~~~~~~~~q~~~~~~~P~p~~~~er~w~DRv~D~LvGddp~~ryALIC~~C~~HNGlA~k 309 (371)
...-..++ .++.+.+...-++ ....+.+..++....+++++|||||+|+||||||++||||||++||.|||||++
T Consensus 161 ~~~e~nt~-~~s~~~~k~~~~s----~~~~vpg~~~~~~~~~r~~~a~DRI~d~lvGdsP~~ryALIC~~C~~HNGla~~ 235 (328)
T KOG2846|consen 161 LNDELNTE-AHSLNNLKYHLES----ASKSVPGKSLFEHYKPRSRAAFDRILDYLVGDSPNNRYALICSQCHHHNGLARK 235 (328)
T ss_pred cccccccc-ccccccchhhhhc----ccccCCCcCccccCCcchhhHHHHHHHHHhcCCCcchhhhcchhhccccCcCCh
Confidence 11111111 1221112211111 111111111222345788999999999999999999999999999999999999
Q ss_pred CCCCcceeEcCCCCCcCCcchh
Q 017446 310 KDIPTLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 310 eefe~i~y~C~~C~~~np~~~~ 331 (371)
|||+||.|+|++||+|||+++.
T Consensus 236 ee~~yi~F~C~~Cn~LN~~~k~ 257 (328)
T KOG2846|consen 236 EEYEYITFRCPHCNALNPAKKS 257 (328)
T ss_pred hhcCceEEECccccccCCCcCC
Confidence 9999999999999999999988
No 2
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=100.00 E-value=3.6e-39 Score=293.52 Aligned_cols=219 Identities=20% Similarity=0.341 Sum_probs=170.4
Q ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHHHHHhhhcccccchhhhhhhhhhhhhHHHHHH
Q 017446 37 KGDDFEKRLQYISKEEAAILARVKRRSQTWRRMSRHLIIFTVVFEVIAVGYAIMTTRSMELNWKTRALQVLPIFLLPGLS 116 (371)
Q Consensus 37 k~~~fEK~L~~L~~kI~~~~~rL~~~~~~~rr~~~~L~~ys~~l~vi~ivY~~~~~~~~~~~w~~r~~~~lp~l~~P~li 116 (371)
.-.+|-.+|+.|+++|++.+-++++.+.....|+.++++||+.++++.+.|.||-.. .....+.+..++++.+-.
T Consensus 9 ~~~~~~~~L~rle~qi~q~~~~~~~~qs~l~~~~~r~tv~slAl~~l~~S~iy~~~~-----~y~~~~~It~~llgs~sl 83 (251)
T COG5415 9 FVTKYTADLSRLESQIHQLDVALKKSQSILSQWQSRLTVYSLALTVLALSYIYWEYH-----GYRPYLVITALLLGSGSL 83 (251)
T ss_pred ccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhcc-----ccchhHHHHHHHHhhhHH
Confidence 357888999999999999999999999999999999999999999998888775211 011222333445566777
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCCChhhHHHHHHHHhhhcCCCCCCcccc
Q 017446 117 ALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDPDPAAKAAAATVLASKLGADSGLNVFV 196 (371)
Q Consensus 117 ~li~~~~~~f~~~~~~~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~~~~~~~~aat~~~~k~g~~~~~~~~~ 196 (371)
|+.|+++.+||.++++|...+|.+|+++|+|+||.||++|.|+.|+.|||||++.+..+. .+++. .++
T Consensus 84 ymfrwal~~lye~r~~r~~~~L~kLra~~rk~l~~LK~e~~y~aT~~ii~ky~e~~~~~~-------~~l~N---~k~-- 151 (251)
T COG5415 84 YMFRWALTKLYEFRNNRRLRKLAKLRAIHRKKLEKLKEETHYNATSSIIQKYSEELNAKY-------QELNN---LKT-- 151 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhccchhHHH-------HHHhh---HHH--
Confidence 888999999999999999999999999999999999999999999999999986543221 11110 000
Q ss_pred CCCCCCCCCCCCCCCcccCCCcccccccCCCCCCCCCCCCCCCCCCccccCCCCCCCCCCCcccccCCCCCCccCCCccH
Q 017446 197 GDESNFNVPLGNSNDVEVMPSSGLRNRKQLQPRSGGAGSTPLHHSDEETSSSFGSEGPEHNQLVVNHHYPQVSTMHDGGW 276 (371)
Q Consensus 197 ~~e~~~~~~~~~~~~~~~~~~~~lr~R~~~~~~~~~pg~p~~~~~~~~l~~~~~~~~~~~~q~~~~~~~P~p~~~~er~w 276 (371)
..+ -++++ + + ...+ ...++|
T Consensus 152 ~k~-----~~~~~-------s----------------------~--------------~~~~------------~~~~~w 171 (251)
T COG5415 152 EKE-----KFKKE-------S----------------------H--------------VKKK------------EDSDAW 171 (251)
T ss_pred Hhh-----ccccc-------c----------------------c--------------ccCc------------ccchHH
Confidence 000 00000 0 0 0011 124699
Q ss_pred HHHHHHHHhcCCC---CCcceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhh
Q 017446 277 IARIAAILVGDDP---SQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVL 332 (371)
Q Consensus 277 ~DRv~D~LvGddp---~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~ 332 (371)
||||+|.|+|+|| +++|||||.+||.|||+|...|.+.+.|+|++|++||+.+..+
T Consensus 172 ~D~V~~vl~G~ne~~~~~~~alIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~~ 230 (251)
T COG5415 172 FDKVISVLAGGNELDLSPFKALICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKER 230 (251)
T ss_pred HHHHHHHHhCCCccccCchhhhccccccccccccccccccchheecccchhhcCccccc
Confidence 9999999999999 7899999999999999999999999999999999999866554
No 3
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=99.94 E-value=1.5e-27 Score=176.93 Aligned_cols=51 Identities=33% Similarity=0.696 Sum_probs=50.2
Q ss_pred HHHHHHHHHhcCCC---CCcceeeccccccccCccCCCCCCcceeEcCCCCCcC
Q 017446 276 WIARIAAILVGDDP---SQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTT 326 (371)
Q Consensus 276 w~DRv~D~LvGddp---~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~n 326 (371)
|||||+|+|+|||| ++||||||++|++|||||++||+++++|+|++||++|
T Consensus 1 W~Dki~d~L~G~d~~~~~~r~aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 1 WFDKILDVLLGDDPTSPSNRYALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred ChHHHHHHHhCCCCccccCceeEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 99999999999999 8999999999999999999999999999999999998
No 4
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=94.53 E-value=0.3 Score=53.71 Aligned_cols=15 Identities=20% Similarity=0.122 Sum_probs=8.0
Q ss_pred hcChHHHHHHHHhcC
Q 017446 155 RTNYYTTQQLIQRYD 169 (371)
Q Consensus 155 ~t~Y~~Tk~LLekYd 169 (371)
-|.+.+++.=|+|-+
T Consensus 487 ~ta~qe~qael~k~e 501 (1102)
T KOG1924|consen 487 LTARQEAQAELQKHE 501 (1102)
T ss_pred HhHHHHHHHHHHHhh
Confidence 455555555555554
No 5
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=93.41 E-value=1.2 Score=49.27 Aligned_cols=27 Identities=15% Similarity=0.297 Sum_probs=15.6
Q ss_pred HHHHHhhhhcChHHHHHHHHhcCCChh
Q 017446 147 AKIDELKERTNYYTTQQLIQRYDPDPA 173 (371)
Q Consensus 147 k~IeelKe~t~Y~~Tk~LLekYd~~~~ 173 (371)
+.+|+-|-++.=..+.++-.||+..-.
T Consensus 462 ~~vdkak~eeseqkA~e~~kk~~ke~t 488 (1102)
T KOG1924|consen 462 KMVDKAKAEESEQKAAELEKKFDKELT 488 (1102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444444433477788888887543
No 6
>PF10166 DUF2368: Uncharacterised conserved protein (DUF2368); InterPro: IPR019319 This family is conserved from nematodes to humans. The function is not known.
Probab=92.57 E-value=2.8 Score=36.82 Aligned_cols=20 Identities=25% Similarity=0.368 Sum_probs=11.4
Q ss_pred hhhhHHHHHHHHHHHHHHHH
Q 017446 131 DRKDQKTLERLRVERKAKID 150 (371)
Q Consensus 131 ~~~~e~kL~~L~~qkkk~Ie 150 (371)
+...-.+|++.+++=+.+++
T Consensus 92 D~ayG~kl~RIr~eAE~Il~ 111 (131)
T PF10166_consen 92 DMAYGTKLQRIREEAERILE 111 (131)
T ss_pred HHHhhHHHHHHHHHHHHHHH
Confidence 33445567777776554444
No 7
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109.
Probab=89.40 E-value=9.4 Score=34.93 Aligned_cols=42 Identities=19% Similarity=0.214 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHH
Q 017446 42 EKRLQYISKEEAAILARVKRRSQTWRRMSRHLIIFTVVFEVI 83 (371)
Q Consensus 42 EK~L~~L~~kI~~~~~rL~~~~~~~rr~~~~L~~ys~~l~vi 83 (371)
++.|..+++++..++..-.......++-.+++...++.+.++
T Consensus 63 ~~~l~~~~~el~~le~~k~~id~~A~~~~~~~~w~gl~~l~~ 104 (180)
T PF04678_consen 63 RKRLEELRQELAPLEKIKQEIDEKAEKRARRLLWGGLALLVV 104 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777766555444444444444334444444444333
No 8
>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=87.96 E-value=0.42 Score=29.95 Aligned_cols=18 Identities=6% Similarity=-0.092 Sum_probs=13.4
Q ss_pred CccCCCCCCcceeEcCCCCC
Q 017446 305 GESIRKDIPTLLLLNNEITC 324 (371)
Q Consensus 305 GlA~keefe~i~y~C~~C~~ 324 (371)
.||+.| ..+.|.||.||.
T Consensus 7 ~i~~r~--~~v~f~CPnCG~ 24 (24)
T PF07754_consen 7 PIAPRE--QAVPFPCPNCGF 24 (24)
T ss_pred cccCcc--cCceEeCCCCCC
Confidence 355544 489999999995
No 9
>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=84.89 E-value=0.62 Score=31.14 Aligned_cols=25 Identities=20% Similarity=0.283 Sum_probs=17.7
Q ss_pred eccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 296 ICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 296 IC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
||..|..-|.+-..+. -+|++||+.
T Consensus 2 ~C~~Cg~~~~~~~~~~-----irC~~CG~R 26 (32)
T PF03604_consen 2 ICGECGAEVELKPGDP-----IRCPECGHR 26 (32)
T ss_dssp BESSSSSSE-BSTSST-----SSBSSSS-S
T ss_pred CCCcCCCeeEcCCCCc-----EECCcCCCe
Confidence 7999999999654332 399999985
No 10
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=82.91 E-value=24 Score=33.55 Aligned_cols=62 Identities=6% Similarity=0.002 Sum_probs=42.2
Q ss_pred cceeeecccccccccCCCcHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHH
Q 017446 22 RKGIISRLWNGIFRLKGDDFEKRLQYISKEEAAILARVKRRSQTWRRMSRHLIIFTVVFEVIAV 85 (371)
Q Consensus 22 ~ggi~Sr~w~~~Fr~k~~~fEK~L~~L~~kI~~~~~rL~~~~~~~rr~~~~L~~ys~~l~vi~i 85 (371)
||.+|++=+--=|+.+=+-.|.+++.++..+.+.++.++.-+ .|-.+..|.+|.+.+..+|.
T Consensus 1 mG~~f~K~~~~~~~~~L~rle~qi~q~~~~~~~~qs~l~~~~--~r~tv~slAl~~l~~S~iy~ 62 (251)
T COG5415 1 MGSRFDKDFVTKYTADLSRLESQIHQLDVALKKSQSILSQWQ--SRLTVYSLALTVLALSYIYW 62 (251)
T ss_pred CCccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHhHHHHHHHHHHHHHHHh
Confidence 677777622111355555678888989988888888776653 34467788888887777765
No 11
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7.0 [Transcription]
Probab=81.68 E-value=0.8 Score=34.79 Aligned_cols=27 Identities=22% Similarity=0.393 Sum_probs=23.3
Q ss_pred eeeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
--||..|++-|-+-+++ .++|-+|||.
T Consensus 20 iYiCgdC~~en~lk~~D-----~irCReCG~R 46 (62)
T KOG3507|consen 20 IYICGDCGQENTLKRGD-----VIRCRECGYR 46 (62)
T ss_pred EEEeccccccccccCCC-----cEehhhcchH
Confidence 47999999999998876 3699999985
No 12
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=80.96 E-value=1.1 Score=32.05 Aligned_cols=26 Identities=23% Similarity=0.377 Sum_probs=19.6
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
.||..|..-|-+- +.-.-+|++||+.
T Consensus 3 Y~C~~Cg~~~~~~-----~~~~irC~~CG~r 28 (44)
T smart00659 3 YICGECGRENEIK-----SKDVVRCRECGYR 28 (44)
T ss_pred EECCCCCCEeecC-----CCCceECCCCCce
Confidence 5899998877654 2345799999985
No 13
>PF00664 ABC_membrane: ABC transporter transmembrane region; InterPro: IPR001140 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). A variety of ATP-binding transport proteins have a six transmembrane helical region. They are all integral membrane proteins involved in a variety of transport systems. Members of this family include; the cystic fibrosis transmembrane conductance regulator (CFTR), bacterial leukotoxin secretion ATP-binding protein, multidrug resistance proteins, the yeast leptomycin B resistance protein, the mammalian sulphonylurea receptor and antigen peptide transporter 2. Many of these proteins have two such regions.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3G61_B 3G5U_B 3G60_A 3B60_D 3QF4_B 2HYD_A 2ONJ_A 4A82_B 4AA3_A 2YL4_A.
Probab=80.60 E-value=13 Score=33.07 Aligned_cols=39 Identities=8% Similarity=0.157 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCCCh
Q 017446 134 DQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDPDP 172 (371)
Q Consensus 134 ~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~~~ 172 (371)
..+..+++.+.-.+.++-.+.-..|+.-+...+||+...
T Consensus 172 ~~~~~~~~~~~~~e~l~g~~~Ik~~~~e~~~~~~~~~~~ 210 (275)
T PF00664_consen 172 YQEANSELNSFLSESLSGIRTIKAFGAEDYFLERFNKAL 210 (275)
T ss_dssp HHHHHHHHHHHHHHHHHTHHHHHHTTSHHHHHHHHHHHH
T ss_pred ccccccccccccccchhhhHHHHHHHhhHHHHHHHHHHH
Confidence 344555566666667777777777888888888887543
No 14
>PF10864 DUF2663: Protein of unknown function (DUF2663); InterPro: IPR020210 This entry represents a group of uncharacterised transmembrane proteins.
Probab=80.11 E-value=41 Score=29.59 Aligned_cols=31 Identities=23% Similarity=0.349 Sum_probs=14.8
Q ss_pred hhHHHHHHHHHHHHHHHHHh-hhhcChHHHHH
Q 017446 133 KDQKTLERLRVERKAKIDEL-KERTNYYTTQQ 163 (371)
Q Consensus 133 ~~e~kL~~L~~qkkk~Ieel-Ke~t~Y~~Tk~ 163 (371)
+.|+.-..||.|-=++=.+| ++....++=.+
T Consensus 83 KAEkefhaLRcEiI~kS~dLW~~~~~W~~R~~ 114 (130)
T PF10864_consen 83 KAEKEFHALRCEIIQKSKDLWPKEESWKKRHE 114 (130)
T ss_pred HHHHHHHHHHHHHHHhHHhcccCchhHHHHHH
Confidence 44555666666544433344 34444444333
No 15
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=79.19 E-value=1.5 Score=39.67 Aligned_cols=60 Identities=20% Similarity=0.168 Sum_probs=39.9
Q ss_pred eccccccccCccC--CCCCCc------ceeEcCCCCCcCCcchhhhhhccCCccceeeeeehHHhhhcccc
Q 017446 296 ICGNCHMHNGESI--RKDIPT------LLLLNNEITCTTPKSIVLFMKCSGLKKTIFSFVVCVKVLLGRRI 358 (371)
Q Consensus 296 IC~~C~~HNGlA~--keefe~------i~y~C~~C~~~np~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 (371)
.|.+|. +||... .-+-+| .+|.|++||+.|-. +...+.-.++.+-+.+-|.-+--|-|++
T Consensus 2 ~Cp~C~-~~~~~~~~~~~IP~F~evii~sf~C~~CGyk~~e--v~~~~~~~p~G~r~~l~V~~~~DL~r~V 69 (160)
T smart00709 2 DCPSCG-GNGTTRMLLTSIPYFREVIIMSFECEHCGYRNNE--VKSGGAIEPKGTRITLKVESPEDLNRDV 69 (160)
T ss_pred cCCCCC-CCCEEEEEEecCCCcceEEEEEEECCCCCCccce--EEECcccCCCceEEEEEECChhhccceE
Confidence 599997 467643 223333 47999999999743 4455566667667777776666666665
No 16
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=78.28 E-value=10 Score=33.33 Aligned_cols=38 Identities=21% Similarity=0.289 Sum_probs=30.1
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCCCh
Q 017446 133 KDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDPDP 172 (371)
Q Consensus 133 ~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~~~ 172 (371)
+.+..|++++.+...-=.|| .+.|..|.+|+++-..|-
T Consensus 38 ~~q~ELe~~K~~ld~~rqel--~~HFa~sAeLlktl~~dY 75 (138)
T COG3105 38 KLQYELEKVKAQLDEYRQEL--VKHFARSAELLKTLAQDY 75 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Confidence 45677888888887777777 568999999998877664
No 17
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=77.98 E-value=9.5 Score=29.97 Aligned_cols=44 Identities=30% Similarity=0.539 Sum_probs=26.4
Q ss_pred CCcHH---HHHHHHHHHHHHHHHHHHHhHHHHHhhhhHH-HHHHHHHHHH
Q 017446 38 GDDFE---KRLQYISKEEAAILARVKRRSQTWRRMSRHL-IIFTVVFEVI 83 (371)
Q Consensus 38 ~~~fE---K~L~~L~~kI~~~~~rL~~~~~~~rr~~~~L-~~ys~~l~vi 83 (371)
+++|+ ++|..||+|+.-+.+.+-.+ .-+++-|-+ ++|++.+.++
T Consensus 11 ~~~~~~i~~rLd~iEeKvEf~~~Ei~Qr--~GkkiGRDiGIlYG~v~Gli 58 (70)
T PF04210_consen 11 PDDFNEIMKRLDEIEEKVEFTNAEIAQR--AGKKIGRDIGILYGLVIGLI 58 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHH--HhHHhhhHHHHHHHHHHHHH
Confidence 56666 66777888877776665433 224443333 4677776555
No 18
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=77.50 E-value=1.3 Score=32.48 Aligned_cols=28 Identities=14% Similarity=0.076 Sum_probs=20.4
Q ss_pred eeeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
--+|..|..-+ ..+-.+-..+||+||+.
T Consensus 6 ~Y~C~~Cg~~~----~~~~~~~~irCp~Cg~r 33 (49)
T COG1996 6 EYKCARCGREV----ELDQETRGIRCPYCGSR 33 (49)
T ss_pred EEEhhhcCCee----ehhhccCceeCCCCCcE
Confidence 45799998877 21335667899999986
No 19
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=75.86 E-value=2.6 Score=30.19 Aligned_cols=29 Identities=17% Similarity=0.267 Sum_probs=19.1
Q ss_pred eccccccccCccCCCCCCc-ceeEcCCCCCcCC
Q 017446 296 ICGNCHMHNGESIRKDIPT-LLLLNNEITCTTP 327 (371)
Q Consensus 296 IC~~C~~HNGlA~keefe~-i~y~C~~C~~~np 327 (371)
-|..|.. |...++.+. -.|.|+.||+..+
T Consensus 2 FCp~Cg~---~l~~~~~~~~~~~vC~~Cg~~~~ 31 (52)
T smart00661 2 FCPKCGN---MLIPKEGKEKRRFVCRKCGYEEP 31 (52)
T ss_pred CCCCCCC---ccccccCCCCCEEECCcCCCeEE
Confidence 3888844 444444433 4899999998744
No 20
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=75.46 E-value=2 Score=30.50 Aligned_cols=27 Identities=7% Similarity=-0.075 Sum_probs=18.1
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
.+|.+|....-.-.. ...++||+||..
T Consensus 4 y~C~~CG~~~~~~~~----~~~~~Cp~CG~~ 30 (46)
T PRK00398 4 YKCARCGREVELDEY----GTGVRCPYCGYR 30 (46)
T ss_pred EECCCCCCEEEECCC----CCceECCCCCCe
Confidence 579999775433221 127899999974
No 21
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=75.20 E-value=2.7 Score=45.06 Aligned_cols=52 Identities=13% Similarity=0.151 Sum_probs=37.7
Q ss_pred CCCCCcceeeccccccccCccC------CC-CCCcceeEcCCCCCcCCcchhhhhhccC
Q 017446 287 DDPSQSYALICGNCHMHNGESI------RK-DIPTLLLLNNEITCTTPKSIVLFMKCSG 338 (371)
Q Consensus 287 ddp~~ryALIC~~C~~HNGlA~------ke-efe~i~y~C~~C~~~np~~~~~~~~~~~ 338 (371)
++.+.+|.+-|.+|....=|.- ++ ..+.+.|+|++||+.....-.+.|-..|
T Consensus 193 ~sdqr~~~vpCPhCg~~~~l~~~~l~w~~~~~~~~a~y~C~~Cg~~i~e~~k~~m~~~G 251 (557)
T PF05876_consen 193 ESDQRRYYVPCPHCGEEQVLEWENLKWDKGEAPETARYVCPHCGCEIEEHDKRRMVRRG 251 (557)
T ss_pred hCCceEEEccCCCCCCCccccccceeecCCCCccceEEECCCCcCCCCHHHHhhccCCe
Confidence 4555599999999998877652 11 3456889999999997776655554443
No 22
>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=73.54 E-value=1.4 Score=29.06 Aligned_cols=24 Identities=21% Similarity=0.149 Sum_probs=13.9
Q ss_pred ccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 297 CGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 297 C~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
|.+|.+-+.+ .+...|+|+.|++.
T Consensus 5 Cp~C~se~~y-----~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 5 CPLCGSEYTY-----EDGELLVCPECGHE 28 (30)
T ss_dssp -TTT-----E-----E-SSSEEETTTTEE
T ss_pred CCCCCCccee-----ccCCEEeCCccccc
Confidence 7888888877 35678999999985
No 23
>PRK11677 hypothetical protein; Provisional
Probab=73.28 E-value=14 Score=32.53 Aligned_cols=38 Identities=21% Similarity=0.240 Sum_probs=27.4
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCCCh
Q 017446 133 KDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDPDP 172 (371)
Q Consensus 133 ~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~~~ 172 (371)
..++.|++.+.+...-=.|| .+.|..|.+|+++-..+-
T Consensus 33 ~le~eLe~~k~ele~YkqeV--~~HFa~TA~Ll~~L~~~Y 70 (134)
T PRK11677 33 ALQYELEKNKAELEEYRQEL--VSHFARSAELLDTMAKDY 70 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Confidence 44566777766666666666 568999999998876654
No 24
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=72.81 E-value=25 Score=28.55 Aligned_cols=27 Identities=15% Similarity=0.095 Sum_probs=12.8
Q ss_pred HHHHhHHHHHhhhhHHHHHHHHHHHHH
Q 017446 58 RVKRRSQTWRRMSRHLIIFTVVFEVIA 84 (371)
Q Consensus 58 rL~~~~~~~rr~~~~L~~ys~~l~vi~ 84 (371)
++++..++.+|+...+++..+.+|+.+
T Consensus 6 ~f~~L~r~r~r~~~~l~~i~l~~y~~~ 32 (91)
T PF04341_consen 6 EFQELVRRRRRLAWPLSAIFLVLYFGF 32 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555455554444444443
No 25
>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=72.68 E-value=2.2 Score=44.67 Aligned_cols=31 Identities=13% Similarity=0.174 Sum_probs=23.8
Q ss_pred cceeeccccccccCccCCCCCCcceeEcCCCCCcCCcch
Q 017446 292 SYALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSI 330 (371)
Q Consensus 292 ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~ 330 (371)
+..-+|++|.. +..-+.++||.|+.||--..
T Consensus 5 ~~~y~C~~Cg~--------~~~~~~g~Cp~C~~w~t~~~ 35 (454)
T TIGR00416 5 KSKFVCQHCGA--------DSPKWQGKCPACHAWNTITE 35 (454)
T ss_pred CCeEECCcCCC--------CCccccEECcCCCCccccch
Confidence 34568999964 45678899999999986544
No 26
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=71.63 E-value=2.2 Score=39.76 Aligned_cols=59 Identities=17% Similarity=0.246 Sum_probs=34.8
Q ss_pred eeccccccccCccC--CCC-CCc------ceeEcCCCCCcCCcchhhhhhccCCccceeeeeehHHhhhcccc
Q 017446 295 LICGNCHMHNGESI--RKD-IPT------LLLLNNEITCTTPKSIVLFMKCSGLKKTIFSFVVCVKVLLGRRI 358 (371)
Q Consensus 295 LIC~~C~~HNGlA~--kee-fe~------i~y~C~~C~~~np~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 (371)
+-|.+|+. ||-.. .-+ -+| .+|.|++||+.|-. +...+.-+++ -+.+.|.-+-=|-|++
T Consensus 1 ~~Cp~C~~-~~~~~~~~~~~IP~F~evii~sf~C~~CGyr~~e--v~~~g~~~p~--r~~l~V~~~~DL~r~V 68 (192)
T TIGR00310 1 IDCPSCGG-ECETVMKTVNDIPYFGEVLETSTICEHCGYRSND--VKTLGAKEPK--RYILKIDDEADLNRRV 68 (192)
T ss_pred CcCCCCCC-CCEEEEEEEcCCCCcceEEEEEEECCCCCCccce--eEECCCCCCE--EEEEEECChhcccceE
Confidence 35999985 67665 223 333 47999999999743 3333444444 4555555444455544
No 27
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=70.91 E-value=18 Score=29.02 Aligned_cols=44 Identities=25% Similarity=0.463 Sum_probs=24.6
Q ss_pred CCcHH---HHHHHHHHHHHHHHHHHHHhHHHHHhhhhHH-HHHHHHHHHH
Q 017446 38 GDDFE---KRLQYISKEEAAILARVKRRSQTWRRMSRHL-IIFTVVFEVI 83 (371)
Q Consensus 38 ~~~fE---K~L~~L~~kI~~~~~rL~~~~~~~rr~~~~L-~~ys~~l~vi 83 (371)
+++|+ +.|..||+|+..+-+.+-++ .-+++-|-+ ++|++++.++
T Consensus 14 ~~d~~~i~~rLD~iEeKVEftn~Ei~Qr--~GkkvGRDiGIlYG~viGll 61 (77)
T PRK01026 14 PKDFKEIQKRLDEIEEKVEFTNAEIFQR--IGKKVGRDIGILYGLVIGLL 61 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HhHHhhhHHHHHHHHHHHHH
Confidence 67787 55666777776665554332 223443333 4677665544
No 28
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=70.58 E-value=2 Score=32.71 Aligned_cols=12 Identities=8% Similarity=-0.069 Sum_probs=7.0
Q ss_pred eeEcCCCCCcCC
Q 017446 316 LLLNNEITCTTP 327 (371)
Q Consensus 316 ~y~C~~C~~~np 327 (371)
.|+||.||+.-|
T Consensus 50 ~Y~Cp~CGF~GP 61 (61)
T COG2888 50 PYRCPKCGFEGP 61 (61)
T ss_pred ceECCCcCccCC
Confidence 466666666543
No 29
>PRK11823 DNA repair protein RadA; Provisional
Probab=70.08 E-value=2.7 Score=43.85 Aligned_cols=30 Identities=20% Similarity=0.226 Sum_probs=23.5
Q ss_pred ceeeccccccccCccCCCCCCcceeEcCCCCCcCCcch
Q 017446 293 YALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSI 330 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~ 330 (371)
..-+|++|.. +...+.++||.|+.||--..
T Consensus 6 ~~y~C~~Cg~--------~~~~~~g~Cp~C~~w~t~~e 35 (446)
T PRK11823 6 TAYVCQECGA--------ESPKWLGRCPECGAWNTLVE 35 (446)
T ss_pred CeEECCcCCC--------CCcccCeeCcCCCCccceee
Confidence 3468999964 35678899999999986655
No 30
>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=69.50 E-value=2.7 Score=42.86 Aligned_cols=27 Identities=19% Similarity=0.158 Sum_probs=21.2
Q ss_pred eccccccccCccCCCCCCcceeEcCCCCCcCCcch
Q 017446 296 ICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSI 330 (371)
Q Consensus 296 IC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~ 330 (371)
+|++|.. +..-+.++||.||.||--..
T Consensus 2 ~c~~cg~--------~~~~~~g~cp~c~~w~~~~e 28 (372)
T cd01121 2 VCSECGY--------VSPKWLGKCPECGEWNTLVE 28 (372)
T ss_pred CCCCCCC--------CCCCccEECcCCCCceeeee
Confidence 6999953 45668899999999986555
No 31
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=69.15 E-value=19 Score=30.54 Aligned_cols=24 Identities=17% Similarity=0.376 Sum_probs=14.2
Q ss_pred hhHHHHHHHHH-HHHHHHHHhhhhc
Q 017446 133 KDQKTLERLRV-ERKAKIDELKERT 156 (371)
Q Consensus 133 ~~e~kL~~L~~-qkkk~IeelKe~t 156 (371)
++++..+++.. +.+|++|++.+++
T Consensus 70 ~Ye~a~~~~~~~~lqkRle~l~~eE 94 (104)
T PF11460_consen 70 DYEEAVDQLTNEELQKRLEELSPEE 94 (104)
T ss_pred HHHHHHHHHhHHHHHHHHHhCCHHH
Confidence 34455555533 4578888886654
No 32
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=68.72 E-value=8.9 Score=30.52 Aligned_cols=23 Identities=30% Similarity=0.508 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHhhhhcChHHHHHHHHhc
Q 017446 141 LRVERKAKIDELKERTNYYTTQQLIQRY 168 (371)
Q Consensus 141 L~~qkkk~IeelKe~t~Y~~Tk~LLekY 168 (371)
|-++-+++|++| |..++.+-||=
T Consensus 36 ls~~d~~~L~~L-----~~~a~rm~eRI 58 (75)
T TIGR02976 36 LSTDDQALLQEL-----YAKADRLEERI 58 (75)
T ss_pred CCHHHHHHHHHH-----HHHHHHHHHHH
Confidence 444445555555 44555555544
No 33
>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=68.51 E-value=4.5 Score=40.36 Aligned_cols=65 Identities=15% Similarity=0.288 Sum_probs=39.5
Q ss_pred HHHHhcCC--CCCcceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhhhhccCCccceeeeeeh------HHh
Q 017446 281 AAILVGDD--PSQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLFMKCSGLKKTIFSFVVC------VKV 352 (371)
Q Consensus 281 ~D~LvGdd--p~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~~~~~~~~~~~~~~~~~------~~~ 352 (371)
+.+|.+.+ ...|| |.|+-|.+ ||.+..-.|++||.. ..+.-+.-.++....-+..=+| +|+
T Consensus 196 ~s~~~~~~~~~G~Ry-L~CslC~t--------eW~~~R~~C~~Cg~~--~~l~y~~~e~~~~~~~~r~e~C~~C~~YlK~ 264 (305)
T TIGR01562 196 ASMVRQGGKETGLRY-LSCSLCAT--------EWHYVRVKCSHCEES--KHLAYLSLEHDAEKAVLKAETCDSCQGYLKI 264 (305)
T ss_pred hhhhcccCCCCCceE-EEcCCCCC--------cccccCccCCCCCCC--CceeeEeecCCCCCcceEEeeccccccchhh
Confidence 44455543 34565 89999976 799999999999964 4455444333222333444455 566
Q ss_pred hhcc
Q 017446 353 LLGR 356 (371)
Q Consensus 353 ~~~~ 356 (371)
+..+
T Consensus 265 ~~~~ 268 (305)
T TIGR01562 265 LYQE 268 (305)
T ss_pred hccc
Confidence 5433
No 34
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=67.98 E-value=2.7 Score=32.03 Aligned_cols=13 Identities=8% Similarity=-0.118 Sum_probs=8.2
Q ss_pred ceeEcCCCCCcCC
Q 017446 315 LLLLNNEITCTTP 327 (371)
Q Consensus 315 i~y~C~~C~~~np 327 (371)
..|+||.||+.-|
T Consensus 47 ~~Y~CP~CGF~GP 59 (59)
T PRK14890 47 NPYTCPKCGFEGP 59 (59)
T ss_pred CceECCCCCCcCc
Confidence 5567777776543
No 35
>TIGR00467 lysS_arch lysyl-tRNA synthetase, archaeal and spirochete. This model represents the lysyl-tRNA synthetases that are class I amino-acyl tRNA synthetases. It includes archaeal and spirochete examples of the enzyme. All other known examples are class IIc amino-acyl tRNA synthetases and seem to form a separate orthologous set.
Probab=66.73 E-value=4.2 Score=43.33 Aligned_cols=36 Identities=14% Similarity=0.219 Sum_probs=27.3
Q ss_pred cceeeccccccccCccCCCCCC---cceeEcCCCCCcCCcch
Q 017446 292 SYALICGNCHMHNGESIRKDIP---TLLLLNNEITCTTPKSI 330 (371)
Q Consensus 292 ryALIC~~C~~HNGlA~keefe---~i~y~C~~C~~~np~~~ 330 (371)
.|--||.+|.....=.- +++ .|.|.| .||+..-.++
T Consensus 166 P~~pic~~cGrv~~~~~--~~~~~~~v~Y~c-~cG~~g~~~~ 204 (515)
T TIGR00467 166 PISVFCENCGRDTTTVN--NYDNEYSIEYSC-ECGNQESVDI 204 (515)
T ss_pred eeeeecCCcCccCceEE--EecCCceEEEEc-CCCCEEEEee
Confidence 48899999999976222 332 499999 6999977766
No 36
>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=66.57 E-value=3.2 Score=29.86 Aligned_cols=39 Identities=15% Similarity=0.174 Sum_probs=25.3
Q ss_pred ceeecccccc-ccCccCCCCCCcceeEcCCCCCcCCcchhhhhhc
Q 017446 293 YALICGNCHM-HNGESIRKDIPTLLLLNNEITCTTPKSIVLFMKC 336 (371)
Q Consensus 293 yALIC~~C~~-HNGlA~keefe~i~y~C~~C~~~np~~~~~~~~~ 336 (371)
|-..|.+|.. ...+..-.+ .-.-.||.||..+ ++|++++
T Consensus 4 Yey~C~~Cg~~fe~~~~~~~--~~~~~CP~Cg~~~---~~r~~s~ 43 (52)
T TIGR02605 4 YEYRCTACGHRFEVLQKMSD--DPLATCPECGGEK---LRRLLSA 43 (52)
T ss_pred EEEEeCCCCCEeEEEEecCC--CCCCCCCCCCCCc---eeEEecc
Confidence 7789999987 666655443 2223599999854 3444554
No 37
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=65.76 E-value=60 Score=34.02 Aligned_cols=33 Identities=9% Similarity=0.133 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCC
Q 017446 138 LERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (371)
Q Consensus 138 L~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~ 170 (371)
.+++...-.+.++-++.-..|+......+||+.
T Consensus 189 ~~~~~~~~~e~~~g~~~ik~~~~~~~~~~~~~~ 221 (529)
T TIGR02868 189 RSQLYQQLTDALDGAADLVAYGALDPALAQVEA 221 (529)
T ss_pred HHHHHHHHHHHhccHHHHHHcCChHHHHHHHHH
Confidence 344444444445444555556555555566654
No 38
>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=65.36 E-value=4.3 Score=27.36 Aligned_cols=32 Identities=9% Similarity=-0.044 Sum_probs=22.9
Q ss_pred eeccccccccCccCCCC-CCcceeEcCCCCCcC
Q 017446 295 LICGNCHMHNGESIRKD-IPTLLLLNNEITCTT 326 (371)
Q Consensus 295 LIC~~C~~HNGlA~kee-fe~i~y~C~~C~~~n 326 (371)
+-|.+|..++-+....- -.....+|+.||...
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~ 35 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEE
Confidence 56999999988875221 123478999999754
No 39
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=64.81 E-value=5.2 Score=27.81 Aligned_cols=29 Identities=10% Similarity=0.269 Sum_probs=16.5
Q ss_pred eccccccccCccC-------CCCCCcceeEcCCCCCc
Q 017446 296 ICGNCHMHNGESI-------RKDIPTLLLLNNEITCT 325 (371)
Q Consensus 296 IC~~C~~HNGlA~-------keefe~i~y~C~~C~~~ 325 (371)
.|.+|. |+..+. ..|-.-+-|.|..||+.
T Consensus 2 ~Cp~C~-~~~a~~~q~Q~RsaDE~mT~fy~C~~C~~~ 37 (40)
T smart00440 2 PCPKCG-NREATFFQLQTRSADEPMTVFYVCTKCGHR 37 (40)
T ss_pred cCCCCC-CCeEEEEEEcccCCCCCCeEEEEeCCCCCE
Confidence 477775 444442 23444566777777763
No 40
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G. coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=64.64 E-value=32 Score=27.04 Aligned_cols=44 Identities=27% Similarity=0.524 Sum_probs=24.3
Q ss_pred CCcHH---HHHHHHHHHHHHHHHHHHHhHHHHHhhhhHH-HHHHHHHHHH
Q 017446 38 GDDFE---KRLQYISKEEAAILARVKRRSQTWRRMSRHL-IIFTVVFEVI 83 (371)
Q Consensus 38 ~~~fE---K~L~~L~~kI~~~~~rL~~~~~~~rr~~~~L-~~ys~~l~vi 83 (371)
+++|+ +.|..|++|+..+-+.+-.+ .-+++-|-+ ++|++++.++
T Consensus 11 ~~d~~~i~~rLd~iEeKVEf~~~E~~Qr--~Gkk~GRDiGIlYG~viGll 58 (70)
T TIGR01149 11 PDEFNEVMKRLDEIEEKVEFVNGEVAQR--IGKKVGRDIGILYGLVIGLI 58 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HhHHhhhHHHHHHHHHHHHH
Confidence 57777 45666777766665554322 223343322 4677776554
No 41
>PF01921 tRNA-synt_1f: tRNA synthetases class I (K); InterPro: IPR002904 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Lysyl-tRNA synthetase (6.1.1.6 from EC) is an alpha 2 homodimer that belong to both class I and class II. In eubacteria and eukaryota lysyl-tRNA synthetases belong to class II in the same family as aspartyl tRNA synthetase. The class Ic lysyl-tRNA synthetase family is present in archaea and in a number of bacterial groups that include the alphaproteobacteria and spirochaetes[]. A refined crystal structures shows that the active site of LysU is shaped to position the substrates for the nucleophilic attack of the lysine carboxylate on the ATP alpha-phosphate. No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. A loop close to the catalytic pocket, disordered in the lysine-bound structure, becomes ordered upon adenine binding [].; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IRX_A.
Probab=64.54 E-value=4.2 Score=41.45 Aligned_cols=54 Identities=15% Similarity=0.204 Sum_probs=29.0
Q ss_pred HHHHHHHhcCCCCC---cceeeccccccccCccCC---CCCCcceeEcCCCCCcCCcchh
Q 017446 278 ARIAAILVGDDPSQ---SYALICGNCHMHNGESIR---KDIPTLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 278 DRv~D~LvGddp~~---ryALIC~~C~~HNGlA~k---eefe~i~y~C~~C~~~np~~~~ 331 (371)
.+|++-..|+.-.. .|--||.+|...+.---. ++-..|.|+|..||+..-.++.
T Consensus 155 ~~Il~~~~~~~~~~~y~Pf~piC~~cGri~tt~v~~~d~~~~~v~Y~c~~cG~~g~~~i~ 214 (360)
T PF01921_consen 155 REILNEYRGRERPETYSPFLPICEKCGRIDTTEVTEYDPEGGTVTYRCEECGHEGEVDIT 214 (360)
T ss_dssp HHHHHHHHHHT--TT--SEEEEETTTEE--EEEEEEE--SSSEEEEE--TTS---EEETT
T ss_pred HHHHHHhcCcCCCCCeeeeeeeccccCCcccceeeEeecCCCEEEEEecCCCCEEEEecC
Confidence 33444444555332 588999999997664322 1245699999999998766553
No 42
>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=64.21 E-value=3.8 Score=36.58 Aligned_cols=30 Identities=20% Similarity=0.297 Sum_probs=24.1
Q ss_pred eeeccccccccCccCCCCCCcceeEcCCCCCcCC
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNEITCTTP 327 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np 327 (371)
-|+|.+|..+-=+..++..+ .||.||+..=
T Consensus 112 ~l~C~~Cg~~~~~~~~~~l~----~Cp~C~~~~F 141 (146)
T PF07295_consen 112 TLVCENCGHEVELTHPERLP----PCPKCGHTEF 141 (146)
T ss_pred eEecccCCCEEEecCCCcCC----CCCCCCCCee
Confidence 38999999888777766666 8999998753
No 43
>PF05055 DUF677: Protein of unknown function (DUF677); InterPro: IPR007749 This entry contains proteins belonging to the UPF0496 family, found in plants. This family includes AT14A like proteins from Arabidopsis thaliana. At14a contains a small domain that has sequence similarities to integrins from fungi, insects and humans. Transcripts of At14a are found in all Arabidopsis tissues and the protein localises partly to the plasma membrane [].
Probab=64.16 E-value=1e+02 Score=31.19 Aligned_cols=15 Identities=20% Similarity=0.454 Sum_probs=9.1
Q ss_pred ChHHHHHHHHhcCCC
Q 017446 157 NYYTTQQLIQRYDPD 171 (371)
Q Consensus 157 ~Y~~Tk~LLekYd~~ 171 (371)
+.++...|.+|-.+.
T Consensus 258 DldTIsrLV~RL~de 272 (336)
T PF05055_consen 258 DLDTISRLVDRLEDE 272 (336)
T ss_pred HHhhHHHHHHHHHHH
Confidence 345666677776554
No 44
>PF01616 Orbi_NS3: Orbivirus NS3; InterPro: IPR002565 This is a family of Orbivirus non structural protein of unknown function, but which may play a role in release of the virus from infected cells [].
Probab=64.07 E-value=1.1e+02 Score=28.77 Aligned_cols=25 Identities=28% Similarity=0.530 Sum_probs=14.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhhhhcChHHHH
Q 017446 131 DRKDQKTLERLRVERKAKIDELKERTNYYTTQ 162 (371)
Q Consensus 131 ~~~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk 162 (371)
+.....+++.+++ |+.++..|+.+-
T Consensus 152 ~~~l~~~i~r~kk-------eI~KR~sYn~aa 176 (195)
T PF01616_consen 152 ERSLQEQIKRLKK-------EIMKRQSYNDAA 176 (195)
T ss_pred HHHHHHHHHHHHH-------HHHHHHHHHHHH
Confidence 3444555666665 455566688754
No 45
>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=62.94 E-value=4 Score=28.27 Aligned_cols=35 Identities=14% Similarity=0.047 Sum_probs=17.6
Q ss_pred eeccccccc-cCccCCCCCCcceeEcCCCCCcCCcch
Q 017446 295 LICGNCHMH-NGESIRKDIPTLLLLNNEITCTTPKSI 330 (371)
Q Consensus 295 LIC~~C~~H-NGlA~keefe~i~y~C~~C~~~np~~~ 330 (371)
+-|++|++- |-.+.-. +..-+|+|+.|++.|+-+-
T Consensus 3 ~rC~~C~aylNp~~~~~-~~~~~w~C~~C~~~N~lp~ 38 (40)
T PF04810_consen 3 VRCRRCRAYLNPFCQFD-DGGKTWICNFCGTKNPLPP 38 (40)
T ss_dssp -B-TTT--BS-TTSEEE-TTTTEEEETTT--EEE--G
T ss_pred cccCCCCCEECCcceEc-CCCCEEECcCCCCcCCCCC
Confidence 468888763 4333322 3556899999999998653
No 46
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=62.71 E-value=8.5 Score=37.74 Aligned_cols=40 Identities=18% Similarity=0.216 Sum_probs=29.0
Q ss_pred cHHHHHHHHHhcCCCCCcceeeccccccccCccCCCCCCcceeEcCCCCCcC
Q 017446 275 GWIARIAAILVGDDPSQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTT 326 (371)
Q Consensus 275 ~w~DRv~D~LvGddp~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~n 326 (371)
.++.+.+...+-.||.+ +|.+| |... +...++||.||-|.
T Consensus 339 ~~~~~~~~~~~~~~p~~----~c~~c----g~~~----~~~~~~c~~c~~~~ 378 (389)
T PRK11788 339 LLLRDLVGEQLKRKPRY----RCRNC----GFTA----RTLYWHCPSCKAWE 378 (389)
T ss_pred HHHHHHHHHHHhCCCCE----ECCCC----CCCC----ccceeECcCCCCcc
Confidence 45677777677777773 49999 4444 45678999999884
No 47
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=62.60 E-value=4.5 Score=29.52 Aligned_cols=25 Identities=16% Similarity=0.177 Sum_probs=18.4
Q ss_pred eeeccccccccCccCCCCCCcceeEcCCCCCcC
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNEITCTT 326 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~C~~~n 326 (371)
-.||.+|...|..- +-.|-.||+.|
T Consensus 14 k~ICrkC~ARnp~~--------A~~CRKCg~~~ 38 (48)
T PRK04136 14 KKICMRCNARNPWR--------ATKCRKCGYKN 38 (48)
T ss_pred ccchhcccCCCCcc--------ccccccCCCCC
Confidence 47999999888654 22788898854
No 48
>PLN02777 photosystem I P subunit (PSI-P)
Probab=62.57 E-value=55 Score=29.95 Aligned_cols=6 Identities=0% Similarity=-0.468 Sum_probs=3.3
Q ss_pred HHhhhh
Q 017446 127 NRMCDR 132 (371)
Q Consensus 127 ~~~~~~ 132 (371)
|+|+..
T Consensus 140 yRyLLf 145 (167)
T PLN02777 140 YKNLVF 145 (167)
T ss_pred hhHhcC
Confidence 566554
No 49
>COG3162 Predicted membrane protein [Function unknown]
Probab=62.47 E-value=64 Score=27.17 Aligned_cols=28 Identities=18% Similarity=0.179 Sum_probs=13.0
Q ss_pred HHHHHhHHHHHhhhhHHHHHHHHHHHHH
Q 017446 57 ARVKRRSQTWRRMSRHLIIFTVVFEVIA 84 (371)
Q Consensus 57 ~rL~~~~~~~rr~~~~L~~ys~~l~vi~ 84 (371)
.+.+...+..+++..-+++..+.+|+.+
T Consensus 13 p~f~eLv~kr~~Fa~~ltl~flv~Y~~f 40 (102)
T COG3162 13 PRFRELVRKRRRFAVPLTLIFLVVYFGF 40 (102)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444555444444445555543
No 50
>PF01020 Ribosomal_L40e: Ribosomal L40e family; InterPro: IPR001975 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 [, ]. This family contains the L40 ribosomal protein from both archaea and eukaryotes. Bovine ribosomal protein L40 has been identified as a secondary RNA binding protein []. L40 is fused to a ubiquitin protein [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_p 3IZR_p 2AYJ_A 4A1B_K 4A19_K 4A18_K 4A1D_K.
Probab=62.40 E-value=5.2 Score=29.69 Aligned_cols=26 Identities=12% Similarity=0.195 Sum_probs=14.0
Q ss_pred eeeccccccccCccCCCCCCcceeEcCC--CCCcCC
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNE--ITCTTP 327 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~--C~~~np 327 (371)
-.||.+|++||..-- . .|-. |||.|.
T Consensus 17 k~ICrkCyarl~~~A--~------nCRKkkCGhsn~ 44 (52)
T PF01020_consen 17 KMICRKCYARLPPRA--T------NCRKKKCGHSNN 44 (52)
T ss_dssp -EEETTT--EE-TTS--S------S-TSSSCTS-S-
T ss_pred ceecccccCcCCCCc--c------ceecccCCCCcc
Confidence 489999999986432 2 5776 887764
No 51
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=61.54 E-value=23 Score=28.93 Aligned_cols=30 Identities=17% Similarity=0.153 Sum_probs=22.3
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 017446 39 DDFEKRLQYISKEEAAILARVKRRSQTWRR 68 (371)
Q Consensus 39 ~~fEK~L~~L~~kI~~~~~rL~~~~~~~rr 68 (371)
.+.|+++..|.++....+.+|+..++--|+
T Consensus 39 ~~lE~E~~~l~~~l~~~E~eL~~LrkENrK 68 (85)
T PF15188_consen 39 RSLEKELNELKEKLENNEKELKLLRKENRK 68 (85)
T ss_pred HHHHHHHHHHHHHhhccHHHHHHHHHhhhh
Confidence 467788888888888788888777665543
No 52
>PF08395 7tm_7: 7tm Chemosensory receptor; InterPro: IPR013604 This family includes a number of gustatory and odorant receptors mainly from insect species such as Anopheles gambiae (African malaria mosquito) and Drosophila melanogaster (Fruit fly). They are classified as G-protein-coupled receptors (GPCRs), or seven-transmembrane receptors. They show high sequence divergence, consistent with an ancient origin for the family [, ]. ; GO: 0050909 sensory perception of taste, 0016021 integral to membrane
Probab=60.97 E-value=1.1e+02 Score=28.35 Aligned_cols=8 Identities=13% Similarity=-0.031 Sum_probs=3.0
Q ss_pred hHHHHHHH
Q 017446 158 YYTTQQLI 165 (371)
Q Consensus 158 Y~~Tk~LL 165 (371)
|..-.++.
T Consensus 224 ~~~L~~~~ 231 (372)
T PF08395_consen 224 HDELCDLV 231 (372)
T ss_pred HHHHHHHH
Confidence 33333333
No 53
>PRK11032 hypothetical protein; Provisional
Probab=59.98 E-value=5 Score=36.42 Aligned_cols=29 Identities=24% Similarity=0.442 Sum_probs=22.3
Q ss_pred eeeccccccccCccCCCCCCcceeEcCCCCCcC
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNEITCTT 326 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~C~~~n 326 (371)
.|+|.+|..+==+-.++..+ .||.||+.-
T Consensus 124 ~LvC~~Cg~~~~~~~p~~i~----pCp~C~~~~ 152 (160)
T PRK11032 124 NLVCEKCHHHLAFYTPEVLP----LCPKCGHDQ 152 (160)
T ss_pred eEEecCCCCEEEecCCCcCC----CCCCCCCCe
Confidence 49999998876665566555 899999864
No 54
>PF09771 Tmemb_18A: Transmembrane protein 188; InterPro: IPR019168 The function of this family of transmembrane proteins has not, as yet, been determined.
Probab=59.25 E-value=81 Score=27.60 Aligned_cols=29 Identities=14% Similarity=0.390 Sum_probs=21.7
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 017446 38 GDDFEKRLQYISKEEAAILARVKRRSQTWR 67 (371)
Q Consensus 38 ~~~fEK~L~~L~~kI~~~~~rL~~~~~~~r 67 (371)
+++.| +|.+-|....++.+.++-...|+|
T Consensus 3 ~t~ce-DLkaFErRLtEvI~~l~Pst~RWR 31 (125)
T PF09771_consen 3 PTACE-DLKAFERRLTEVINSLQPSTTRWR 31 (125)
T ss_pred chhHH-HHHHHHHHHHHHHHhcCCcchhHH
Confidence 45566 688888888888888777766665
No 55
>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=59.20 E-value=5.9 Score=36.00 Aligned_cols=57 Identities=12% Similarity=0.074 Sum_probs=32.5
Q ss_pred ccccccccCccCC---CCCCc------ceeEcCCCCCcCCcchhhhhhccCCccceeeeeehHHhhhcccc
Q 017446 297 CGNCHMHNGESIR---KDIPT------LLLLNNEITCTTPKSIVLFMKCSGLKKTIFSFVVCVKVLLGRRI 358 (371)
Q Consensus 297 C~~C~~HNGlA~k---eefe~------i~y~C~~C~~~np~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 (371)
|..|... +|-.. -+-+| .+|.|++||+.|-. +...+.-++ .-+.+-|.-+.=|-|++
T Consensus 1 CP~Cg~~-~~~~~~~~~~IP~F~evii~sf~C~~CGyr~~e--v~~~~~~~p--~r~~l~V~~~~DL~r~V 66 (163)
T TIGR00340 1 CPVCGSR-TLKAVTYDYDIPYFGKIMLSTYICEKCGYRSTD--VYQLEEKEP--VRYIIKIENEDDLFTLV 66 (163)
T ss_pred CCCCCCc-ceEeeeEeccCCCcceEEEEEEECCCCCCchhh--eeEcCCcCC--EEEEEEECChhhccceE
Confidence 8888764 43331 23333 47999999999752 233333333 45555555555455554
No 56
>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=58.77 E-value=3.1 Score=37.59 Aligned_cols=60 Identities=22% Similarity=0.206 Sum_probs=32.4
Q ss_pred eccccccccCccC--CCCCC------cceeEcCCCCCcCCcchhhhhhccCCccceeeeeehHHhhhcccc
Q 017446 296 ICGNCHMHNGESI--RKDIP------TLLLLNNEITCTTPKSIVLFMKCSGLKKTIFSFVVCVKVLLGRRI 358 (371)
Q Consensus 296 IC~~C~~HNGlA~--keefe------~i~y~C~~C~~~np~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 (371)
.|.+|.. ||... .-+-+ ..+|.|.+||+.|- .+....+..+....+.+-|--..=|-|++
T Consensus 3 ~Cp~C~~-~~~~~~~~~~IP~F~evii~sf~C~~CGyk~~--ev~~~~~~~~~G~r~tl~V~~~~DL~r~V 70 (161)
T PF03367_consen 3 LCPNCGE-NGTTRILLTDIPYFKEVIIMSFECEHCGYKNN--EVKSGGQIQPKGVRITLKVESPEDLNRQV 70 (161)
T ss_dssp E-TTTSS-CCEEEEEEEEETTTEEEEEEEEE-TTT--EEE--EEEEECSS-SSEEEEEEEE-SHHHHC-EE
T ss_pred cCCCCCC-CcEEEEEEEcCCCCceEEEEEeECCCCCCEee--eEEECccCCCCceEEEEEECCHHHhcceE
Confidence 5999995 77653 12222 35699999999974 34555566666556666665555555554
No 57
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=56.64 E-value=59 Score=35.52 Aligned_cols=44 Identities=20% Similarity=0.309 Sum_probs=21.4
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHh
Q 017446 106 VLPIFLLPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDEL 152 (371)
Q Consensus 106 ~lp~l~~P~li~li~~~~~~f~~~~~~~~e~kL~~L~~qkkk~Ieel 152 (371)
+++++++-++++++.+....++... +....+.|..+-++-+++.
T Consensus 37 ~i~~l~~~~~~i~~l~~~~~~~~~~---~~~~i~~ls~~~~~~~~~a 80 (655)
T COG3887 37 AIAVLLLVVFLIFLLLAFTLFYQDS---DQNYISYLSYQAEKSLEEA 80 (655)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence 3444444344444333334444333 3336666666666665554
No 58
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=56.31 E-value=6.2 Score=24.76 Aligned_cols=24 Identities=17% Similarity=0.355 Sum_probs=14.0
Q ss_pred eeeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
..+|.+|...| .+++. .|++||..
T Consensus 2 ~~~Cp~Cg~~~----~~~~~----fC~~CG~~ 25 (26)
T PF13248_consen 2 EMFCPNCGAEI----DPDAK----FCPNCGAK 25 (26)
T ss_pred cCCCcccCCcC----Ccccc----cChhhCCC
Confidence 45677776632 33333 68888753
No 59
>KOG2703 consensus C4-type Zn-finger protein [General function prediction only]
Probab=56.29 E-value=4.9 Score=41.39 Aligned_cols=33 Identities=15% Similarity=0.191 Sum_probs=21.7
Q ss_pred eeccccccccCccC-----CCCCC---cceeEcCCCCCcCCc
Q 017446 295 LICGNCHMHNGESI-----RKDIP---TLLLLNNEITCTTPK 328 (371)
Q Consensus 295 LIC~~C~~HNGlA~-----keefe---~i~y~C~~C~~~np~ 328 (371)
-.|-+|+- ||+-+ --.|. ..+|.|++||+.|-.
T Consensus 40 S~Cm~Cg~-nG~TRlllT~IP~fREvVimSF~CpHCG~kN~e 80 (460)
T KOG2703|consen 40 SLCMNCGE-NGTTRLLLTSIPYFREVVIMSFECPHCGHKNNE 80 (460)
T ss_pred Hhhhhccc-CCceeEEEeecchhheeeeEEeecCccCCcccc
Confidence 46999986 44421 12232 357999999999853
No 60
>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=55.38 E-value=6.6 Score=33.41 Aligned_cols=25 Identities=12% Similarity=0.096 Sum_probs=17.8
Q ss_pred ccccccccCccCCCCCCcceeEcCCCCCcC
Q 017446 297 CGNCHMHNGESIRKDIPTLLLLNNEITCTT 326 (371)
Q Consensus 297 C~~C~~HNGlA~keefe~i~y~C~~C~~~n 326 (371)
|.+|.+.+-..- .-.|+||+|+|.-
T Consensus 5 CP~C~seytY~d-----g~~~iCpeC~~EW 29 (109)
T TIGR00686 5 CPKCNSEYTYHD-----GTQLICPSCLYEW 29 (109)
T ss_pred CCcCCCcceEec-----CCeeECccccccc
Confidence 888887654432 2459999999964
No 61
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=54.98 E-value=17 Score=31.83 Aligned_cols=32 Identities=13% Similarity=0.134 Sum_probs=26.5
Q ss_pred cceeeccccccccCccCCCCCCcceeEcCCCCC
Q 017446 292 SYALICGNCHMHNGESIRKDIPTLLLLNNEITC 324 (371)
Q Consensus 292 ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~ 324 (371)
+|.-.|..|..|.+-..+.. .--.|+|..||-
T Consensus 110 ~~~y~C~~C~~~~~~~rr~~-~~~~y~C~~C~g 141 (146)
T smart00731 110 KYPYRCTGCGQRYLRVRRSN-NVSRYRCGKCGG 141 (146)
T ss_pred eEEEECCCCCCCCceEcccc-CcceEEcCCCCC
Confidence 79999999999998777664 337899999985
No 62
>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=54.85 E-value=1.2e+02 Score=32.32 Aligned_cols=36 Identities=14% Similarity=0.122 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCC
Q 017446 135 QKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (371)
Q Consensus 135 e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~ 170 (371)
++...++.....+.+.-++.-..|..-....++|+.
T Consensus 193 ~~~~~~~~~~~~e~l~g~~~ik~~~~e~~~~~~~~~ 228 (574)
T PRK11160 193 THLRAQYRVQLTEWLQGQAELTLFGAEDRYRQQLEQ 228 (574)
T ss_pred HHHHHHHHHHHHHHHCCHHHHHHcCChHHHHHHHHH
Confidence 344455555555555555555555555555555554
No 63
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=54.27 E-value=92 Score=24.78 Aligned_cols=21 Identities=14% Similarity=0.346 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 017446 135 QKTLERLRVERKAKIDELKER 155 (371)
Q Consensus 135 e~kL~~L~~qkkk~IeelKe~ 155 (371)
+++=++.++++++.|.+.++.
T Consensus 51 ~ere~K~k~Kr~~~i~k~rr~ 71 (74)
T PF15086_consen 51 EEREKKKKAKRQANIAKARRT 71 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 345567778888888887654
No 64
>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=54.27 E-value=6.2 Score=27.55 Aligned_cols=27 Identities=19% Similarity=0.105 Sum_probs=18.9
Q ss_pred eccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 296 ICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 296 IC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
+|.+|.+-+ + -+|+..-.++|+.||.-
T Consensus 2 ~Cp~Cg~~~-~--~~D~~~g~~vC~~CG~V 28 (43)
T PF08271_consen 2 KCPNCGSKE-I--VFDPERGELVCPNCGLV 28 (43)
T ss_dssp SBTTTSSSE-E--EEETTTTEEEETTT-BB
T ss_pred CCcCCcCCc-e--EEcCCCCeEECCCCCCE
Confidence 688888865 3 34566778899999864
No 65
>PRK10220 hypothetical protein; Provisional
Probab=54.25 E-value=9.3 Score=32.58 Aligned_cols=28 Identities=11% Similarity=0.098 Sum_probs=19.6
Q ss_pred eccccccccCccCCCCCCcceeEcCCCCCcCCc
Q 017446 296 ICGNCHMHNGESIRKDIPTLLLLNNEITCTTPK 328 (371)
Q Consensus 296 IC~~C~~HNGlA~keefe~i~y~C~~C~~~np~ 328 (371)
-|.+|.+.+-+.-. -.|+||.|+|.-++
T Consensus 5 ~CP~C~seytY~d~-----~~~vCpeC~hEW~~ 32 (111)
T PRK10220 5 HCPKCNSEYTYEDN-----GMYICPECAHEWND 32 (111)
T ss_pred cCCCCCCcceEcCC-----CeEECCcccCcCCc
Confidence 48889876654332 35999999997433
No 66
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=54.10 E-value=81 Score=25.02 Aligned_cols=10 Identities=10% Similarity=0.418 Sum_probs=4.0
Q ss_pred HHHHhHHHHH
Q 017446 58 RVKRRSQTWR 67 (371)
Q Consensus 58 rL~~~~~~~r 67 (371)
.+++.....+
T Consensus 49 ~F~k~a~~l~ 58 (89)
T PF00957_consen 49 QFKKNAKKLK 58 (89)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 4444433333
No 67
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=53.66 E-value=6.7 Score=27.05 Aligned_cols=29 Identities=14% Similarity=0.230 Sum_probs=14.9
Q ss_pred ccccccccCccC------CCCCCcceeEcCCCCCc
Q 017446 297 CGNCHMHNGESI------RKDIPTLLLLNNEITCT 325 (371)
Q Consensus 297 C~~C~~HNGlA~------keefe~i~y~C~~C~~~ 325 (371)
|.+|..++...- ..|..-+-|+|..||+.
T Consensus 3 Cp~Cg~~~a~~~~~Q~rsaDE~~T~fy~C~~C~~~ 37 (39)
T PF01096_consen 3 CPKCGHNEAVFFQIQTRSADEPMTLFYVCCNCGHR 37 (39)
T ss_dssp -SSS-SSEEEEEEESSSSSSSSSEEEEEESSSTEE
T ss_pred CcCCCCCeEEEEEeeccCCCCCCeEEEEeCCCCCe
Confidence 666666554333 22344566777777653
No 68
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=53.46 E-value=50 Score=24.69 Aligned_cols=12 Identities=33% Similarity=0.487 Sum_probs=5.1
Q ss_pred hhHHHHHHHHHH
Q 017446 133 KDQKTLERLRVE 144 (371)
Q Consensus 133 ~~e~kL~~L~~q 144 (371)
+.+++++++++|
T Consensus 52 ~~~k~l~~le~e 63 (68)
T PF06305_consen 52 RLRKELKKLEKE 63 (68)
T ss_pred HHHHHHHHHHHH
Confidence 334444444443
No 69
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=53.30 E-value=6.4 Score=36.79 Aligned_cols=39 Identities=21% Similarity=0.242 Sum_probs=25.7
Q ss_pred ceeeccccccccC--ccCCCCCCcceeEcCCCCCcCCcchh
Q 017446 293 YALICGNCHMHNG--ESIRKDIPTLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 293 yALIC~~C~~HNG--lA~keefe~i~y~C~~C~~~np~~~~ 331 (371)
.-+.|.+|.+--= =+.++.=....++|..||+-+|+++.
T Consensus 5 iy~~Cp~Cg~eev~hEVik~~g~~~lvrC~eCG~V~~~~i~ 45 (201)
T COG1326 5 IYIECPSCGSEEVSHEVIKERGREPLVRCEECGTVHPAIIK 45 (201)
T ss_pred EEEECCCCCcchhhHHHHHhcCCceEEEccCCCcEeeceee
Confidence 4578999972111 12333334478999999999988654
No 70
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=53.08 E-value=3.3 Score=30.37 Aligned_cols=27 Identities=15% Similarity=0.235 Sum_probs=20.6
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCcCCcc
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKS 329 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~ 329 (371)
.||..|..-|++.- + .|-.||+.|=-+
T Consensus 15 kIC~rC~Arnp~~A--~------kCRkC~~k~LR~ 41 (50)
T COG1552 15 KICRRCYARNPPRA--T------KCRKCGYKNLRP 41 (50)
T ss_pred HHHHHhcCCCCcch--h------HHhhccCCCccc
Confidence 58999999998764 2 688898877443
No 71
>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=52.93 E-value=6.9 Score=28.94 Aligned_cols=32 Identities=13% Similarity=0.230 Sum_probs=23.0
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCcCCc
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCTTPK 328 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~ 328 (371)
+=|.+|..- ||.-+++.+++-.||.|+..|--
T Consensus 5 iRC~~Cnkl--La~~g~~~~leIKCpRC~tiN~~ 36 (51)
T PF10122_consen 5 IRCGHCNKL--LAKAGEVIELEIKCPRCKTINHV 36 (51)
T ss_pred eeccchhHH--HhhhcCccEEEEECCCCCccceE
Confidence 347777543 33336889999999999999853
No 72
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=52.81 E-value=1.3e+02 Score=24.75 Aligned_cols=50 Identities=14% Similarity=0.154 Sum_probs=27.6
Q ss_pred hhhhhhhhH-HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhh
Q 017446 103 ALQVLPIFL-LPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKE 154 (371)
Q Consensus 103 ~~~~lp~l~-~P~li~li~~~~~~f~~~~~~~~e~kL~~L~~qkkk~IeelKe 154 (371)
.+.++|+.+ +.+.+|.+..+.++.+.|-+ -++.-++|++|-++-=++|++
T Consensus 36 ii~~lP~~~Lv~fG~Ysl~~lgy~v~tFnD--cpeA~~eL~~eI~eAK~dLr~ 86 (91)
T PF08285_consen 36 IIPYLPFYALVSFGCYSLFTLGYGVATFND--CPEAAKELQKEIKEAKADLRK 86 (91)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHhhhccCC--CHHHHHHHHHHHHHHHHHHHH
Confidence 444566554 45555555555555555543 345566676665555555544
No 73
>PF09972 DUF2207: Predicted membrane protein (DUF2207); InterPro: IPR018702 This domain has no known function.
Probab=52.50 E-value=1.3e+02 Score=30.73 Aligned_cols=15 Identities=13% Similarity=0.113 Sum_probs=8.0
Q ss_pred CcHHHHHHHHHHHHH
Q 017446 39 DDFEKRLQYISKEEA 53 (371)
Q Consensus 39 ~~fEK~L~~L~~kI~ 53 (371)
..|.+.+....+.+.
T Consensus 362 ~~~~~~~~~~~~~i~ 376 (511)
T PF09972_consen 362 KRFYKAFKKWQEAIK 376 (511)
T ss_pred HHHHHHHHHHHHHHH
Confidence 455555555555544
No 74
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=52.37 E-value=8.4 Score=26.05 Aligned_cols=28 Identities=14% Similarity=0.089 Sum_probs=15.2
Q ss_pred ccccccccCccCCCCCCcceeEcCCCCC
Q 017446 297 CGNCHMHNGESIRKDIPTLLLLNNEITC 324 (371)
Q Consensus 297 C~~C~~HNGlA~keefe~i~y~C~~C~~ 324 (371)
|.+|..---+..++.=+-..++|+.||+
T Consensus 3 C~~CG~~l~~~ip~gd~r~R~vC~~Cg~ 30 (34)
T PF14803_consen 3 CPQCGGPLERRIPEGDDRERLVCPACGF 30 (34)
T ss_dssp -TTT--B-EEE--TT-SS-EEEETTTTE
T ss_pred cccccChhhhhcCCCCCccceECCCCCC
Confidence 7888777655555544668899999986
No 75
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=50.89 E-value=9 Score=42.05 Aligned_cols=39 Identities=13% Similarity=0.048 Sum_probs=32.7
Q ss_pred ceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchh
Q 017446 293 YALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~ 331 (371)
-.+.|.+|.+.=-.+-.-+|.--.|.|+.|++.|+-|-+
T Consensus 52 ~P~~C~~C~AvlNPyc~vd~~a~~W~CpfC~qrN~~p~~ 90 (745)
T KOG1986|consen 52 DPLRCSKCGAVLNPYCSVDFRAKSWICPFCNQRNPFPPH 90 (745)
T ss_pred CCchhccchhhcCcceeecccCceEeccccccCCCCChh
Confidence 359999999987777777788889999999999976654
No 76
>KOG3214 consensus Uncharacterized Zn ribbon-containing protein [Function unknown]
Probab=50.51 E-value=6.7 Score=32.98 Aligned_cols=31 Identities=13% Similarity=-0.011 Sum_probs=21.5
Q ss_pred CcceeEcCCCCCcCCcchhhhhhccCCccceeeeeeh
Q 017446 313 PTLLLLNNEITCTTPKSIVLFMKCSGLKKTIFSFVVC 349 (371)
Q Consensus 313 e~i~y~C~~C~~~np~~~~~~~~~~~~~~~~~~~~~~ 349 (371)
-..+|.|++|||.+ -++|.=+++....+.-|
T Consensus 20 ldt~FnClfcnHek------~v~~~~Dk~~~iG~~sC 50 (109)
T KOG3214|consen 20 LDTQFNCLFCNHEK------SVSCTLDKKHNIGKASC 50 (109)
T ss_pred hheeeccCcccccc------ceeeeehhhcCcceeee
Confidence 45889999999998 45666566555544443
No 77
>COG3478 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=50.38 E-value=7.2 Score=30.26 Aligned_cols=27 Identities=15% Similarity=0.028 Sum_probs=21.4
Q ss_pred eeEcCCCCCcCCcchhhhhhccCCccc
Q 017446 316 LLLNNEITCTTPKSIVLFMKCSGLKKT 342 (371)
Q Consensus 316 ~y~C~~C~~~np~~~~~~~~~~~~~~~ 342 (371)
.|.||.||..|-.-.+.++--+|++|-
T Consensus 4 ~~kCpKCgn~~~~ekei~~tg~~lski 30 (68)
T COG3478 4 AFKCPKCGNTNYEEKEIAATGGGLSKI 30 (68)
T ss_pred cccCCCcCCcchhhceeeccCCCccee
Confidence 456999999998888877777777764
No 78
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=50.30 E-value=1.7e+02 Score=29.70 Aligned_cols=121 Identities=12% Similarity=0.043 Sum_probs=69.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHHHHHhhhcccccchhh-hhhhhhhhhhHHHHHHHHHHH
Q 017446 43 KRLQYISKEEAAILARVKRRSQTWRRMSRHLIIFTVVFEVIAVGYAIMTTRSMELNWK-TRALQVLPIFLLPGLSALAYS 121 (371)
Q Consensus 43 K~L~~L~~kI~~~~~rL~~~~~~~rr~~~~L~~ys~~l~vi~ivY~~~~~~~~~~~w~-~r~~~~lp~l~~P~li~li~~ 121 (371)
-+|..+.-+|..+.-....-+.+...|.-.+.|+++++.+..+.|+||.-+....+-. .++....-.++.=++...+
T Consensus 22 ~~~~~~~~~i~~~~~~~~~~q~~~~~~~p~l~~~~I~~~~~~~~~~y~~~~~~r~~~~lt~L~s~~~~ll~~v~~~~l-- 99 (328)
T KOG2846|consen 22 SDLYIFTSQIHQLDYAPEKSQSILSQWQPNLGFPGIILTVRRLSYTYFEYRLNRNTLKLTRLKSQKSKLLELVLETKL-- 99 (328)
T ss_pred HHHHHHHHHHHhhhccCchhHHHHHHHHHHhcchHHHHHHHHHHHhhhheecccchHHHHHHHHHHHHHHHHHHHHHH--
Confidence 4577888888887777777778888888888888888777777777753321111000 0111100011110111111
Q ss_pred HHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHh
Q 017446 122 AFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQR 167 (371)
Q Consensus 122 ~~~~f~~~~~~~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLek 167 (371)
+.+...++.+...+=..++.......+++..++-++.++..++|
T Consensus 100 --y~~a~~il~Ry~~~~~a~~~~~t~~~~k~~~~s~~~l~~~~~~r 143 (328)
T KOG2846|consen 100 --YKVALNILERYDPDPAAKRAAPTSLAEKLGARSGLNLTKLTAAR 143 (328)
T ss_pred --HHHHHHHHHHhcchHHHHhhhhhhhhhhhccccCCchhhhhhhh
Confidence 11222222222222223566677888999999999999999988
No 79
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=50.28 E-value=9.5 Score=39.80 Aligned_cols=38 Identities=16% Similarity=0.198 Sum_probs=27.7
Q ss_pred ceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhhhhccC
Q 017446 293 YALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLFMKCSG 338 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~~~~~~ 338 (371)
-+-+|++|..+ .+-+.=+||.||.||---......+.+
T Consensus 6 t~f~C~~CG~~--------s~KW~GkCp~Cg~Wns~vE~~~~~~~~ 43 (456)
T COG1066 6 TAFVCQECGYV--------SPKWLGKCPACGAWNTLVEEVLAASPG 43 (456)
T ss_pred cEEEcccCCCC--------CccccccCCCCCCccceEEeecccccc
Confidence 46799999642 345666999999999877776555444
No 80
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=50.08 E-value=56 Score=28.29 Aligned_cols=35 Identities=20% Similarity=0.359 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCCC
Q 017446 135 QKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDPD 171 (371)
Q Consensus 135 e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~~ 171 (371)
++.|++.+.+...-=.+| .+.|..|.+|+++-..+
T Consensus 31 ~~eL~~~k~el~~yk~~V--~~HF~~ta~Ll~~l~~~ 65 (128)
T PF06295_consen 31 EQELEQAKQELEQYKQEV--NDHFAQTAELLDNLTQD 65 (128)
T ss_pred HHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHH
Confidence 444555555554444444 45799999999766544
No 81
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=49.90 E-value=6.8 Score=34.58 Aligned_cols=34 Identities=9% Similarity=0.079 Sum_probs=20.7
Q ss_pred CCCcceeeccccccccCccCCCCCC-----cceeEcCCCCCc
Q 017446 289 PSQSYALICGNCHMHNGESIRKDIP-----TLLLLNNEITCT 325 (371)
Q Consensus 289 p~~ryALIC~~C~~HNGlA~keefe-----~i~y~C~~C~~~ 325 (371)
..++--.+|.+|..- .-. .|.. .-.|.||.||..
T Consensus 94 e~~~~~Y~Cp~C~~~--y~~-~ea~~~~d~~~~f~Cp~Cg~~ 132 (147)
T smart00531 94 ETNNAYYKCPNCQSK--YTF-LEANQLLDMDGTFTCPRCGEE 132 (147)
T ss_pred ccCCcEEECcCCCCE--eeH-HHHHHhcCCCCcEECCCCCCE
Confidence 445678999999621 111 1111 233999999975
No 82
>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit. Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD
Probab=49.63 E-value=1.5e+02 Score=31.04 Aligned_cols=31 Identities=10% Similarity=0.018 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHhhhhcChHHHHHHHHhcC
Q 017446 139 ERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (371)
Q Consensus 139 ~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd 169 (371)
+++...-.+.++-.+.-..|...+..+++|+
T Consensus 180 ~~~~~~~~e~l~g~~~ik~~~~e~~~~~~~~ 210 (529)
T TIGR02857 180 SRLSGHFLDRLRGLPTLKLFGRAKAQAAAIA 210 (529)
T ss_pred HHHHHHHHHHhcCHHHHHHccccHHHHHHHH
Confidence 3343333444433444444444444455554
No 83
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=49.58 E-value=78 Score=25.02 Aligned_cols=44 Identities=30% Similarity=0.533 Sum_probs=23.3
Q ss_pred CCcHH---HHHHHHHHHHHHHHHHHHHhHHHHHhhhhHH-HHHHHHHHHH
Q 017446 38 GDDFE---KRLQYISKEEAAILARVKRRSQTWRRMSRHL-IIFTVVFEVI 83 (371)
Q Consensus 38 ~~~fE---K~L~~L~~kI~~~~~rL~~~~~~~rr~~~~L-~~ys~~l~vi 83 (371)
|++|+ |+|+.|++|..-+-..+-++ .-+++-|.+ ++|++.+.++
T Consensus 14 ~~dfne~~kRLdeieekvef~~~Ev~Qr--~GkkiGRDIGILYGlVIGli 61 (75)
T COG4064 14 PDDFNEIHKRLDEIEEKVEFVNGEVYQR--IGKKIGRDIGILYGLVIGLI 61 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHH--HHHHhcchHHHHHHHHHHHH
Confidence 88998 55666666655544443221 224443433 3566654433
No 84
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins.
Probab=49.46 E-value=7.8 Score=29.94 Aligned_cols=23 Identities=13% Similarity=-0.097 Sum_probs=11.0
Q ss_pred eEcCCCCCcCCcchhhhhhccCC
Q 017446 317 LLNNEITCTTPKSIVLFMKCSGL 339 (371)
Q Consensus 317 y~C~~C~~~np~~~~~~~~~~~~ 339 (371)
|.||+||+..=..-+-.+.-+++
T Consensus 1 y~C~KCg~~~~e~~~v~~tgg~~ 23 (64)
T PF09855_consen 1 YKCPKCGNEEYESGEVRATGGGL 23 (64)
T ss_pred CCCCCCCCcceecceEEccCCee
Confidence 45666666544433333333333
No 85
>PF01956 DUF106: Integral membrane protein DUF106; InterPro: IPR002809 This entry represents a group of eukaryotic and archaeal proteins that have no known function. Members are predicted to be integral membrane proteins.; GO: 0016020 membrane
Probab=49.28 E-value=56 Score=29.16 Aligned_cols=63 Identities=16% Similarity=0.216 Sum_probs=34.7
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhc
Q 017446 106 VLPIFLLPGLSALAYSAFVSFNRMC-DRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRY 168 (371)
Q Consensus 106 ~lp~l~~P~li~li~~~~~~f~~~~-~~~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekY 168 (371)
.+|+.++-+++.+++..+..+.++. +.+...+.+.+.++.++..+++++..++...+++-++-
T Consensus 12 ~~P~~i~v~~~~~~~~~~s~l~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~ 75 (168)
T PF01956_consen 12 LLPITIVVFLIAILRGLISELLQKFLIDRKMDKYQKRMKEFQKRYRELRKNGDFKKPKKLEKRQ 75 (168)
T ss_pred hcCHHHHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHcCCccCHHHHHHHH
Confidence 4555444344444444443333332 22223556667777778888888877777766655544
No 86
>PRK02201 putative inner membrane protein translocase component YidC; Provisional
Probab=48.88 E-value=1.8e+02 Score=29.75 Aligned_cols=57 Identities=12% Similarity=0.049 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhhhcCh--------HHHHHHHHhcCCChh
Q 017446 116 SALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNY--------YTTQQLIQRYDPDPA 173 (371)
Q Consensus 116 i~li~~~~~~f~~~~~~~~e~kL~~L~~qkkk~IeelKe~t~Y--------~~Tk~LLekYd~~~~ 173 (371)
.+++|.++.-++.. ..+..+++.+||-|.+++=++.|++++- .++++|-++++-.+.
T Consensus 141 TiivRlillPl~~k-~~~s~~km~~lqPel~~Iq~Kyk~~~~d~~~~~k~q~e~~~Lykk~ginP~ 205 (357)
T PRK02201 141 VLIIRLISFLITFK-STFNQEKQEELQGKKAKIDAKYKDYKKDKQMKQRKQQEIQELYKKHNISPF 205 (357)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHhhHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHcCCCcH
Confidence 33445544444322 2345677888888777777777655222 445667777776653
No 87
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=47.86 E-value=9.5 Score=25.58 Aligned_cols=28 Identities=21% Similarity=0.277 Sum_probs=18.8
Q ss_pred eccccccccCccCCCCCCcceeEcCCCCCcCC
Q 017446 296 ICGNCHMHNGESIRKDIPTLLLLNNEITCTTP 327 (371)
Q Consensus 296 IC~~C~~HNGlA~keefe~i~y~C~~C~~~np 327 (371)
.|..|. |||+.-+++ -.+.|.+||.-.|
T Consensus 5 ~C~~C~-~~~i~~~~~---~~~~C~~Cg~~~~ 32 (33)
T PF08792_consen 5 KCSKCG-GNGIVNKED---DYEVCIFCGSSFP 32 (33)
T ss_pred EcCCCC-CCeEEEecC---CeEEcccCCcEee
Confidence 577775 778775443 3458999997543
No 88
>cd00674 LysRS_core_class_I catalytic core domain of class I lysyl tRNA synthetase. Class I lysyl tRNA synthetase (LysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The class I LysRS is found only in archaea and some bacteria and has evolved separately from class II LysRS, as the two do not share structural or sequence similarity.
Probab=46.98 E-value=13 Score=37.72 Aligned_cols=56 Identities=14% Similarity=0.128 Sum_probs=37.4
Q ss_pred CccHHHHHHHHHhcCCC-C--CcceeeccccccccCccCCCC----CCcceeEcCCCCCcCCcchh
Q 017446 273 DGGWIARIAAILVGDDP-S--QSYALICGNCHMHNGESIRKD----IPTLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 273 er~w~DRv~D~LvGddp-~--~ryALIC~~C~~HNGlA~kee----fe~i~y~C~~C~~~np~~~~ 331 (371)
++.-+.+|++-..|..- . ..|--||.+|..-. ++-.+ ...|.|+| .||+..-.++-
T Consensus 145 ~~~~I~~i~~~~~~~~~~~~~~P~~p~c~~cg~~~--~~v~~~d~~~~~v~y~c-~cG~~g~~~~~ 207 (353)
T cd00674 145 KRDEIMAILNEYRGRELQETWYPFMPYCEKCGKDT--TTVEAYDAKAGTVTYKC-ECGHEETVDIR 207 (353)
T ss_pred HCChHHHHHHHhcCCccCCCceeeeeecCCcCcce--eEEEEEeCCCCeEEEEc-CCCCEEEEeec
Confidence 45566667777777632 2 35889999998433 44333 34599999 69998766653
No 89
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=46.76 E-value=2.8e+02 Score=26.78 Aligned_cols=10 Identities=10% Similarity=0.208 Sum_probs=5.3
Q ss_pred HHHHHHhhhh
Q 017446 123 FVSFNRMCDR 132 (371)
Q Consensus 123 ~~~f~~~~~~ 132 (371)
+.++|.|+..
T Consensus 217 ~i~l~~~~~~ 226 (230)
T PF03904_consen 217 FIYLYEWIRA 226 (230)
T ss_pred HHHHHHHHHH
Confidence 3455666543
No 90
>PF14981 FAM165: FAM165 family
Probab=46.74 E-value=44 Score=24.35 Aligned_cols=17 Identities=24% Similarity=0.472 Sum_probs=11.9
Q ss_pred hhhhHHHHHHHHHHHHH
Q 017446 131 DRKDQKTLERLRVERKA 147 (371)
Q Consensus 131 ~~~~e~kL~~L~~qkkk 147 (371)
.++.|.++.++++++++
T Consensus 32 ~krlEak~~k~~aekk~ 48 (51)
T PF14981_consen 32 RKRLEAKLKKLEAEKKK 48 (51)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 34667788888877654
No 91
>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=46.57 E-value=1.2e+02 Score=32.16 Aligned_cols=30 Identities=10% Similarity=0.062 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHhhhhcChHHHHHHHHhc
Q 017446 139 ERLRVERKAKIDELKERTNYYTTQQLIQRY 168 (371)
Q Consensus 139 ~~L~~qkkk~IeelKe~t~Y~~Tk~LLekY 168 (371)
+++...-.+.++-++.-..|.......++|
T Consensus 199 ~~~~~~~~e~l~g~~~ik~~~~e~~~~~~~ 228 (588)
T PRK11174 199 ARLSGHFLDRLRGLETLRLFNRGEAETESI 228 (588)
T ss_pred HHHHHHHHHHhcchHHHHHhcccHHHHHHH
Confidence 333333344444334333444444444444
No 92
>PF04120 Iron_permease: Low affinity iron permease ; InterPro: IPR007251 Although originally identified as a low-affinity iron(II) permease [, ], Fet4 has since been shown to import several other transition metal ions, including copper [, ] and zinc []. Copper, cobalt, and cadmium inhibit Fet4 [, ]. Fet4 is an integral protein of the plasma membrane [, ]. FET4 is not essential, not even in fet3 fet4 double mutants []. Over expression of FET4 improves growth under alkaline conditions []. Transcription of FET4 is induced by Aft1 in response to low levels of iron [, , ] or by Zap1 in response to low zinc [, ], but not in response to low copper []. When the high-affinity iron permease component Fet3 is deleted, FET4 is induced by the addition of copper, zinc, cobalt, or manganese []. It is also induced under anaerobic conditions [, , ] and repressed by Rox1 in aerobic conditions [, ]. Rox1 attenuates the activation of FET4 by Aft1 or Zap1 []. ; GO: 0055085 transmembrane transport
Probab=45.13 E-value=1.1e+02 Score=26.90 Aligned_cols=14 Identities=21% Similarity=0.266 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHhh
Q 017446 140 RLRVERKAKIDELK 153 (371)
Q Consensus 140 ~L~~qkkk~IeelK 153 (371)
.++.++.+.|..++
T Consensus 70 al~~KLdeLi~~~~ 83 (132)
T PF04120_consen 70 ALQAKLDELIRAVK 83 (132)
T ss_pred HHHHHHHHHHHHHH
Confidence 44555555555554
No 93
>PRK14704 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=44.96 E-value=13 Score=40.54 Aligned_cols=57 Identities=11% Similarity=0.085 Sum_probs=35.4
Q ss_pred CccHHHHHHHHHhcCC-C---CCcceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhhhhccC
Q 017446 273 DGGWIARIAAILVGDD-P---SQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLFMKCSG 338 (371)
Q Consensus 273 er~w~DRv~D~LvGdd-p---~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~~~~~~ 338 (371)
+...+..|++++...+ + -|.=-=||..|.. .|- +.|.||.||-.+|+.+..+.--.|
T Consensus 534 n~~Al~~lvk~~~~~~i~Y~sin~~~~~C~~CGy-~g~--------~~~~CP~CG~~d~~~~~v~~Ri~G 594 (618)
T PRK14704 534 NKKALKQIVQAMAEHGVGYGSINHPVDRCKCCSY-HGV--------IGNECPSCGNEDEANIERIRRITG 594 (618)
T ss_pred CHHHHHHHHHHHHhcCCceEEeCCCCeecCCCCC-CCC--------cCccCcCCCCCCcchhHHHHHHHh
Confidence 5577778888854311 0 1333368999985 342 138999999988776555544333
No 94
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=44.72 E-value=11 Score=41.77 Aligned_cols=58 Identities=10% Similarity=0.067 Sum_probs=33.1
Q ss_pred CccHHHHHHHHHhcCCC---CCcceeeccccccccCccC-CCCCCcceeEcCCCCCcCCcchhhhhh
Q 017446 273 DGGWIARIAAILVGDDP---SQSYALICGNCHMHNGESI-RKDIPTLLLLNNEITCTTPKSIVLFMK 335 (371)
Q Consensus 273 er~w~DRv~D~LvGddp---~~ryALIC~~C~~HNGlA~-keefe~i~y~C~~C~~~np~~~~~~~~ 335 (371)
+...+-.|++++.-.-+ -|.=-=||..|.. .|... -++ .+.||.||-.+|.++..+.-
T Consensus 617 n~~a~~~lv~~~~~~i~Y~~in~~~~~C~~CG~-~Ge~~~~~~----~~~CP~CG~~~~~~~~v~~R 678 (711)
T PRK09263 617 NLKALEAVWDYSYDRVGYLGTNTPIDECYECGF-TGEFECTEK----GFTCPKCGNHDPKTVSVTRR 678 (711)
T ss_pred CHHHHHHHHHHHHHCCCeEEeCCCCcccCCCCC-CccccCCCC----CCcCcCCCCCCCcceeEEEe
Confidence 33556666666643111 1233368999984 56542 111 27899999888665544433
No 95
>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein.
Probab=44.55 E-value=2e+02 Score=31.72 Aligned_cols=6 Identities=33% Similarity=0.179 Sum_probs=2.4
Q ss_pred HHHHHH
Q 017446 111 LLPGLS 116 (371)
Q Consensus 111 ~~P~li 116 (371)
++|+.+
T Consensus 310 ~~~l~~ 315 (711)
T TIGR00958 310 NLPLVF 315 (711)
T ss_pred HHHHHH
Confidence 344433
No 96
>PRK11176 lipid transporter ATP-binding/permease protein; Provisional
Probab=43.83 E-value=2.4e+02 Score=29.87 Aligned_cols=25 Identities=16% Similarity=0.177 Sum_probs=11.5
Q ss_pred HHHHHHhhhhcChHHHHHHHHhcCC
Q 017446 146 KAKIDELKERTNYYTTQQLIQRYDP 170 (371)
Q Consensus 146 kk~IeelKe~t~Y~~Tk~LLekYd~ 170 (371)
.+.++-+++-..|.......++|+.
T Consensus 208 ~e~l~g~~~ik~~~~~~~~~~~~~~ 232 (582)
T PRK11176 208 EQMLKGHKEVLIFGGQEVETKRFDK 232 (582)
T ss_pred HHHHhCHHHHHHhCcCHHHHHHHHH
Confidence 3333333444445555555555554
No 97
>CHL00104 rpl33 ribosomal protein L33
Probab=43.57 E-value=18 Score=28.22 Aligned_cols=13 Identities=23% Similarity=0.432 Sum_probs=12.0
Q ss_pred ceeeccccccccC
Q 017446 293 YALICGNCHMHNG 305 (371)
Q Consensus 293 yALIC~~C~~HNG 305 (371)
..|.|..|..+||
T Consensus 11 I~L~Ct~c~~~n~ 23 (66)
T CHL00104 11 VILECTSCVRNGV 23 (66)
T ss_pred EEEEecCCcCCCc
Confidence 7799999999996
No 98
>PRK08271 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=43.32 E-value=13 Score=40.59 Aligned_cols=54 Identities=9% Similarity=0.014 Sum_probs=34.4
Q ss_pred CccHHHHHHHHHhcCC----CCCcceeeccccccc-cCccCCCCCCcceeEcCCCCCcCCcchhhhhh
Q 017446 273 DGGWIARIAAILVGDD----PSQSYALICGNCHMH-NGESIRKDIPTLLLLNNEITCTTPKSIVLFMK 335 (371)
Q Consensus 273 er~w~DRv~D~LvGdd----p~~ryALIC~~C~~H-NGlA~keefe~i~y~C~~C~~~np~~~~~~~~ 335 (371)
+...+-+|++++.-.+ --|.=-=||..|... -| ..+.||.||-.+-..+.|+.-
T Consensus 541 n~eal~~lv~~~~~~~i~Yf~in~~~~iC~~CG~~~~g---------~~~~CP~CGs~~~ev~~RV~G 599 (623)
T PRK08271 541 SEEGYRKLLNIAAKTGCNYFAFNVKITICNDCHHIDKR---------TGKRCPICGSENIDYYTRVIG 599 (623)
T ss_pred CHHHHHHHHHHHHHcCCceEEeCCCCccCCCCCCcCCC---------CCcCCcCCCCcchhHHHHHhh
Confidence 4456666777664211 113334689999865 22 237999999877777777653
No 99
>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=42.88 E-value=17 Score=27.56 Aligned_cols=32 Identities=9% Similarity=0.192 Sum_probs=22.3
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCcCCcch
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSI 330 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~ 330 (371)
-.|..|...+.- ....-.|.|+.||+.-..-+
T Consensus 29 q~C~~CG~~~~~----~~~~r~~~C~~Cg~~~~rD~ 60 (69)
T PF07282_consen 29 QTCPRCGHRNKK----RRSGRVFTCPNCGFEMDRDV 60 (69)
T ss_pred cCccCccccccc----ccccceEEcCCCCCEECcHH
Confidence 468888877766 23445789999998755543
No 100
>PF03268 DUF267: Caenorhabditis protein of unknown function, DUF267; InterPro: IPR004950 This family of proteins, from Caenorhabditis species, have not been characterised though a number are annotated as 'serpentine receptor, class r' proteins.
Probab=42.73 E-value=1.9e+02 Score=29.65 Aligned_cols=29 Identities=17% Similarity=0.217 Sum_probs=12.9
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 017446 40 DFEKRLQYISKEEAAILARVKRRSQTWRR 68 (371)
Q Consensus 40 ~fEK~L~~L~~kI~~~~~rL~~~~~~~rr 68 (371)
.||+.|..+-.==-+.-.++|..+.-+++
T Consensus 88 ~f~~~L~~lR~LRv~~n~~~D~Y~~lh~k 116 (353)
T PF03268_consen 88 KFEKKLARLRTLRVEPNQEIDDYRILHRK 116 (353)
T ss_pred HHHHHHHHHHHHhCCcccccchHHHHHHH
Confidence 45555555433211112236665555544
No 101
>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=42.55 E-value=12 Score=25.28 Aligned_cols=30 Identities=20% Similarity=0.204 Sum_probs=16.9
Q ss_pred ceeecccccc-ccCccCCCCCCcceeEcCCCCC
Q 017446 293 YALICGNCHM-HNGESIRKDIPTLLLLNNEITC 324 (371)
Q Consensus 293 yALIC~~C~~-HNGlA~keefe~i~y~C~~C~~ 324 (371)
|-.-|..|.. ...+..-++ .-.-.||.||.
T Consensus 4 Y~y~C~~Cg~~fe~~~~~~~--~~~~~CP~Cg~ 34 (41)
T smart00834 4 YEYRCEDCGHTFEVLQKISD--DPLATCPECGG 34 (41)
T ss_pred EEEEcCCCCCEEEEEEecCC--CCCCCCCCCCC
Confidence 5667777766 333333332 22336888887
No 102
>PF07332 DUF1469: Protein of unknown function (DUF1469); InterPro: IPR009937 This entry represents proteins found in hypothetical bacterial proteins where is is annotated as ycf49 or ycf49-like. The function is not known.
Probab=42.26 E-value=2e+02 Score=23.88 Aligned_cols=19 Identities=37% Similarity=0.378 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 017446 136 KTLERLRVERKAKIDELKE 154 (371)
Q Consensus 136 ~kL~~L~~qkkk~IeelKe 154 (371)
...++.++|.++.++-+|+
T Consensus 102 ~~~~~t~~~l~~d~~~lk~ 120 (121)
T PF07332_consen 102 PPFEETIAELKEDIAALKE 120 (121)
T ss_pred CCHHHHHHHHHHHHHHhhc
Confidence 4566666666666666664
No 103
>PF11902 DUF3422: Protein of unknown function (DUF3422); InterPro: IPR021830 This family of proteins are functionally uncharacterised. This protein is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 426 to 444 amino acids in length.
Probab=41.91 E-value=1.8e+02 Score=30.46 Aligned_cols=13 Identities=23% Similarity=0.368 Sum_probs=8.6
Q ss_pred cHHHHHHHHHHHH
Q 017446 40 DFEKRLQYISKEE 52 (371)
Q Consensus 40 ~fEK~L~~L~~kI 52 (371)
.+++.++.|+.++
T Consensus 309 a~~~R~~~Ls~rv 321 (420)
T PF11902_consen 309 AVERRQEDLSRRV 321 (420)
T ss_pred HHHHHHHHHHHHH
Confidence 5566777777665
No 104
>PRK00750 lysK lysyl-tRNA synthetase; Reviewed
Probab=41.83 E-value=24 Score=37.57 Aligned_cols=58 Identities=14% Similarity=0.188 Sum_probs=38.4
Q ss_pred CccHHHHHHHHHhcCCCCC---cceeeccccccccCccC---CCCCCcceeEcCCCCCcCCcchh
Q 017446 273 DGGWIARIAAILVGDDPSQ---SYALICGNCHMHNGESI---RKDIPTLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 273 er~w~DRv~D~LvGddp~~---ryALIC~~C~~HNGlA~---keefe~i~y~C~~C~~~np~~~~ 331 (371)
++..+-+|++-..|+.-.. .|--||.+|...+.-.- -.+...|.|.| .||+..-.++.
T Consensus 151 ~~~~i~~il~~~~~~~~~~~~~P~~pic~~cg~~~~~~~~~~d~~~~~v~y~~-~cG~~~~~~~~ 214 (510)
T PRK00750 151 NRDEIMEILLPYLGEERQATYSPFLPICPKCGKVLTTPVISYDAEAGTVTYDC-ECGHEGEVPVT 214 (510)
T ss_pred hHHHHHHHHHHhcCCccCCCeeeeeeeCCCCCccceEEEEEEeCCCCEEEEEc-CCCCEEEEecC
Confidence 3445555555566764332 58899999999987544 22334689988 59998766654
No 105
>PF13239 2TM: 2TM domain
Probab=41.09 E-value=1.8e+02 Score=22.92 Aligned_cols=19 Identities=21% Similarity=0.473 Sum_probs=10.7
Q ss_pred HHHhhhhHHHHHHHHHHHH
Q 017446 65 TWRRMSRHLIIFTVVFEVI 83 (371)
Q Consensus 65 ~~rr~~~~L~~ys~~l~vi 83 (371)
+.+.+...++.|.++..++
T Consensus 11 ~~k~fy~Hl~~y~ivn~~l 29 (83)
T PF13239_consen 11 RRKGFYRHLAVYLIVNSFL 29 (83)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344666677666554443
No 106
>PF12773 DZR: Double zinc ribbon
Probab=40.96 E-value=14 Score=26.13 Aligned_cols=30 Identities=13% Similarity=0.142 Sum_probs=17.9
Q ss_pred eeeccccccccCccCCCCCCcceeEcCCCCCcCCc
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPK 328 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~ 328 (371)
+..|.+|..--. ..+....+|+.||..|++
T Consensus 12 ~~fC~~CG~~l~-----~~~~~~~~C~~Cg~~~~~ 41 (50)
T PF12773_consen 12 AKFCPHCGTPLP-----PPDQSKKICPNCGAENPP 41 (50)
T ss_pred ccCChhhcCChh-----hccCCCCCCcCCcCCCcC
Confidence 566777755444 123345678888777654
No 107
>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=40.91 E-value=17 Score=31.19 Aligned_cols=22 Identities=0% Similarity=-0.295 Sum_probs=17.7
Q ss_pred cCccCCCCCC-cceeEcCCCCCc
Q 017446 304 NGESIRKDIP-TLLLLNNEITCT 325 (371)
Q Consensus 304 NGlA~keefe-~i~y~C~~C~~~ 325 (371)
+.||+--+|. +..|+||.||.+
T Consensus 61 ~~~aPdp~w~~irEyyCP~Cgt~ 83 (112)
T PF08882_consen 61 FTMAPDPEWQVIREYYCPGCGTQ 83 (112)
T ss_pred cccCCCCCcEEEEEEECCCCcce
Confidence 4788877774 577999999976
No 108
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=40.62 E-value=15 Score=40.82 Aligned_cols=52 Identities=10% Similarity=-0.058 Sum_probs=31.7
Q ss_pred CccHHHHHHHHHhcCC-C---CCcceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhh
Q 017446 273 DGGWIARIAAILVGDD-P---SQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLF 333 (371)
Q Consensus 273 er~w~DRv~D~LvGdd-p---~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~ 333 (371)
+...+..|+++..-.+ + -|.=-=||..|..+.|+- +.||.||-.+=..+.|+
T Consensus 655 n~eal~~lvk~~~~~~i~Y~sin~~~~~C~~CG~~~~~~---------~~CP~CG~~~~~~~~Ri 710 (735)
T PRK07111 655 NVEAFEIIVKAMKNTNIGYGSINHPVDRCPVCGYLGVIE---------DKCPKCGSTNIQRIRRI 710 (735)
T ss_pred CHHHHHHHHHHHHhCCCceEEeCCCCeecCCCCCCCCcC---------ccCcCCCCccceeeehh
Confidence 4567777888753211 1 122346899999666642 79999996443444443
No 109
>PHA00626 hypothetical protein
Probab=40.56 E-value=18 Score=27.33 Aligned_cols=31 Identities=13% Similarity=0.084 Sum_probs=20.1
Q ss_pred eecccccccc----CccCCCCCCcceeEcCCCCCcCCc
Q 017446 295 LICGNCHMHN----GESIRKDIPTLLLLNNEITCTTPK 328 (371)
Q Consensus 295 LIC~~C~~HN----GlA~keefe~i~y~C~~C~~~np~ 328 (371)
+.|.+|.+-| |-..+ ..-.|.|+.||+..-+
T Consensus 1 m~CP~CGS~~Ivrcg~cr~---~snrYkCkdCGY~ft~ 35 (59)
T PHA00626 1 MSCPKCGSGNIAKEKTMRG---WSDDYVCCDCGYNDSK 35 (59)
T ss_pred CCCCCCCCceeeeeceecc---cCcceEcCCCCCeech
Confidence 3588888753 33332 2356899999998543
No 110
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=40.48 E-value=1.7e+02 Score=23.28 Aligned_cols=37 Identities=16% Similarity=0.276 Sum_probs=24.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCC
Q 017446 132 RKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (371)
Q Consensus 132 ~~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~ 170 (371)
+..++.+++++++-....+|..+ --.+++++++.-+.
T Consensus 29 ~~~~~ti~~l~~~~~~i~~e~~~--ll~~~n~l~~dv~~ 65 (90)
T PF06103_consen 29 DEVNKTIDTLQEQVDPITKEIND--LLHNTNELLEDVNE 65 (90)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence 34566777887777777777744 34677777776543
No 111
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=40.47 E-value=14 Score=31.84 Aligned_cols=27 Identities=11% Similarity=0.155 Sum_probs=17.7
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCcCC
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCTTP 327 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~np 327 (371)
.=|.+| ++-..++++. |+||.||-.+.
T Consensus 71 ~~C~~C---~~~~~~e~~~---~~CP~C~s~~~ 97 (115)
T COG0375 71 CWCLDC---GQEVELEELD---YRCPKCGSINL 97 (115)
T ss_pred EEeccC---CCeecchhhe---eECCCCCCCce
Confidence 557777 5555555544 45999997654
No 112
>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
Probab=40.36 E-value=4.1e+02 Score=28.14 Aligned_cols=58 Identities=14% Similarity=0.202 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCC
Q 017446 112 LPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (371)
Q Consensus 112 ~P~li~li~~~~~~f~~~~~~~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~ 170 (371)
+|++++.+....... +...++.++.+.++...-.+.+...+....|.....-.++|+.
T Consensus 162 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~e~l~~~~~ik~f~~~~~~~~~~~~ 219 (567)
T COG1132 162 LPLLALVLSLLARKS-RKLSRRVREALGELNARLLESLSGIRVIKAFGAEDRELKRFEE 219 (567)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhchHHHHHHhhhHHHHHHHHH
Confidence 455554443333222 2223334445566666666666666665566665555555544
No 113
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=40.19 E-value=9.3 Score=38.60 Aligned_cols=61 Identities=10% Similarity=0.112 Sum_probs=39.0
Q ss_pred HHHHHHHHHhcCCC-----------C-Cc-ceeeccccccccCccCCCCCCcceeEcCCCCCcCCcch-hhhhhccCC
Q 017446 276 WIARIAAILVGDDP-----------S-QS-YALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSI-VLFMKCSGL 339 (371)
Q Consensus 276 w~DRv~D~LvGddp-----------~-~r-yALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~-~~~~~~~~~ 339 (371)
-||-+--+|.|.|- - -+ |---|.+|+.-- -.||.....|+||.||-..-+.. .|+-+-++.
T Consensus 215 sF~~~r~Ai~~~~g~~ivaNyGLdP~LGKY~~TAC~rC~t~y---~le~A~~~~wrCpkCGg~ikKGV~dRv~ELad~ 289 (403)
T COG1379 215 SFEELRKAIKGKDGCKIVANYGLDPRLGKYHLTACSRCYTRY---SLEEAKSLRWRCPKCGGKIKKGVSDRVLELADT 289 (403)
T ss_pred CHHHHHHHHhcCCCceEEEecCcCccccchhHHHHHHhhhcc---CcchhhhhcccCcccccchhhhHHHHHHHhhcc
Confidence 46777778877642 2 12 334699999753 34566778899999998655443 344444443
No 114
>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.
Probab=40.14 E-value=2.8e+02 Score=29.21 Aligned_cols=20 Identities=10% Similarity=0.114 Sum_probs=7.6
Q ss_pred HHHhhhhcChHHHHHHHHhc
Q 017446 149 IDELKERTNYYTTQQLIQRY 168 (371)
Q Consensus 149 IeelKe~t~Y~~Tk~LLekY 168 (371)
++-.+.-..|.......++|
T Consensus 187 l~g~~~ik~~~~e~~~~~~~ 206 (544)
T TIGR01842 187 LRNAEVIEAMGMMGNLTKRW 206 (544)
T ss_pred HhcHHHHHHcCchHHHHHHH
Confidence 33333333344333333444
No 115
>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=40.10 E-value=3.5e+02 Score=28.83 Aligned_cols=32 Identities=9% Similarity=0.128 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHhhhhcChHHHHHHHHhcC
Q 017446 138 LERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (371)
Q Consensus 138 L~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd 169 (371)
.+++...-.+.++.++.-..|..-....++|+
T Consensus 200 ~~~~~~~~~e~l~~~~~ik~~~~~~~~~~~~~ 231 (592)
T PRK10790 200 LADINDGFNEVINGMSVIQQFRQQARFGERMG 231 (592)
T ss_pred HHHHHHHHHHHHcChHHHHHhhhhHHHHHHHH
Confidence 34444444444444444444444444444443
No 116
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=40.06 E-value=15 Score=31.35 Aligned_cols=27 Identities=15% Similarity=0.272 Sum_probs=17.2
Q ss_pred ceeeccccccccCccCCCCCCc--cee-EcCCCCCcCC
Q 017446 293 YALICGNCHMHNGESIRKDIPT--LLL-LNNEITCTTP 327 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~--i~y-~C~~C~~~np 327 (371)
--.-|.+|. .+|+. ..| +||.||..+-
T Consensus 70 ~~~~C~~Cg--------~~~~~~~~~~~~CP~Cgs~~~ 99 (117)
T PRK00564 70 VELECKDCS--------HVFKPNALDYGVCEKCHSKNV 99 (117)
T ss_pred CEEEhhhCC--------CccccCCccCCcCcCCCCCce
Confidence 457899997 12222 233 5999997653
No 117
>KOG3976 consensus Mitochondrial F1F0-ATP synthase, subunit b/ATP4 [Energy production and conversion]
Probab=39.58 E-value=1.6e+02 Score=28.52 Aligned_cols=49 Identities=18% Similarity=0.185 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHH
Q 017446 118 LAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQ 166 (371)
Q Consensus 118 li~~~~~~f~~~~~~~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLe 166 (371)
.++++...+-.|.++.+++++..|++-+++.|.++.+..+=...++-++
T Consensus 111 ~~k~~g~ai~~~adk~~~k~~~~~~~arq~~ik~i~d~id~~~sqq~~~ 159 (247)
T KOG3976|consen 111 AIKKLGPAIADWADKLIEKILSQLEEARQAHIKAISDAIDTEKSQQALA 159 (247)
T ss_pred HHHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHH
Confidence 3455555667888888999999999999999988888765544444433
No 118
>PF12597 DUF3767: Protein of unknown function (DUF3767); InterPro: IPR022533 This group of proteins includes mitochodrial cytochrome c oxidase proteins [], and some transmembrane domain-containing proteins of unknown function known as FAM36A. Proteins in this family are typically between 112 and 199 amino acids in length.
Probab=39.10 E-value=2.5e+02 Score=24.11 Aligned_cols=22 Identities=9% Similarity=-0.031 Sum_probs=13.4
Q ss_pred hhHHHHHHHHHHHHH-HHHHhhh
Q 017446 70 SRHLIIFTVVFEVIA-VGYAIMT 91 (371)
Q Consensus 70 ~~~L~~ys~~l~vi~-ivY~~~~ 91 (371)
.|.-.+|++...+++ ++.|++.
T Consensus 40 fR~slL~Gi~~G~~vG~~~fl~~ 62 (118)
T PF12597_consen 40 FRDSLLYGIAGGFGVGGLRFLFT 62 (118)
T ss_pred HHHHHHHHHHHHHHHHhhhhccc
Confidence 466677888776664 4444443
No 119
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=38.97 E-value=7.7 Score=35.61 Aligned_cols=33 Identities=12% Similarity=0.189 Sum_probs=20.5
Q ss_pred CCcceeeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 290 SQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 290 ~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
++.-=-+|.+|+.- ..-+|.-...|.||.||..
T Consensus 113 ~~~~~Y~Cp~C~~r---ytf~eA~~~~F~Cp~Cg~~ 145 (178)
T PRK06266 113 ENNMFFFCPNCHIR---FTFDEAMEYGFRCPQCGEM 145 (178)
T ss_pred cCCCEEECCCCCcE---EeHHHHhhcCCcCCCCCCC
Confidence 34456799999721 1112222357999999975
No 120
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=38.79 E-value=36 Score=31.16 Aligned_cols=39 Identities=13% Similarity=0.210 Sum_probs=23.6
Q ss_pred cHHHHHHHHHhcCCCCCcceeeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 275 GWIARIAAILVGDDPSQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 275 ~w~DRv~D~LvGddp~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
.-|-+++|.+=++- ..||..| |.....|.+ .+||-||+.
T Consensus 120 ~~~~~~Le~~~~~~-----~~vC~vC----Gy~~~ge~P---~~CPiCga~ 158 (166)
T COG1592 120 EMFRGLLERLEEGK-----VWVCPVC----GYTHEGEAP---EVCPICGAP 158 (166)
T ss_pred HHHHHHHHhhhcCC-----EEEcCCC----CCcccCCCC---CcCCCCCCh
Confidence 34556666653332 9999999 333322222 289999974
No 121
>PRK03954 ribonuclease P protein component 4; Validated
Probab=38.69 E-value=17 Score=31.55 Aligned_cols=36 Identities=17% Similarity=0.289 Sum_probs=24.3
Q ss_pred eeccccccc-----cCccCCC--CCCcceeEcCCCCCcCCcch
Q 017446 295 LICGNCHMH-----NGESIRK--DIPTLLLLNNEITCTTPKSI 330 (371)
Q Consensus 295 LIC~~C~~H-----NGlA~ke--efe~i~y~C~~C~~~np~~~ 330 (371)
.||.+|.++ |--+.-+ .+..+.+.|-.||+..-=|+
T Consensus 65 ~~CK~C~t~LiPG~n~~vRi~~~~~~~vvitCl~CG~~kR~P~ 107 (121)
T PRK03954 65 RYCKRCHSFLVPGVNARVRLRQKRMPHVVITCLECGHIMRYPY 107 (121)
T ss_pred HHhhcCCCeeecCCceEEEEecCCcceEEEECccCCCEEeecc
Confidence 589999876 4333322 24578999999999754443
No 122
>PRK02935 hypothetical protein; Provisional
Probab=38.52 E-value=18 Score=30.80 Aligned_cols=13 Identities=15% Similarity=0.411 Sum_probs=6.0
Q ss_pred HhhhhHHHHHHHH
Q 017446 67 RRMSRHLIIFTVV 79 (371)
Q Consensus 67 rr~~~~L~~ys~~ 79 (371)
|.|.-.|+|.+++
T Consensus 13 Rt~aL~lvfiG~~ 25 (110)
T PRK02935 13 RTFALSLVFIGFI 25 (110)
T ss_pred HHHHHHHHHHHHH
Confidence 4454445554443
No 123
>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=38.39 E-value=34 Score=24.12 Aligned_cols=39 Identities=10% Similarity=0.118 Sum_probs=24.9
Q ss_pred HHHHHHHHhcCCCCCcceeeccccccccCccCCCCCCcceeEcCCCCC
Q 017446 277 IARIAAILVGDDPSQSYALICGNCHMHNGESIRKDIPTLLLLNNEITC 324 (371)
Q Consensus 277 ~DRv~D~LvGddp~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~ 324 (371)
++=|.++--++| .+|.+|.+........ .-.|+|..|++
T Consensus 7 ~~~l~~~RW~~g------~~CP~Cg~~~~~~~~~---~~~~~C~~C~~ 45 (46)
T PF12760_consen 7 REYLEEIRWPDG------FVCPHCGSTKHYRLKT---RGRYRCKACRK 45 (46)
T ss_pred HHHHHHhcCCCC------CCCCCCCCeeeEEeCC---CCeEECCCCCC
Confidence 344444444555 5699998874444433 56789999876
No 124
>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=37.84 E-value=18 Score=30.81 Aligned_cols=26 Identities=12% Similarity=0.225 Sum_probs=17.6
Q ss_pred ceeeccccccccCccCCCCCC--cceeEcCCCCCcC
Q 017446 293 YALICGNCHMHNGESIRKDIP--TLLLLNNEITCTT 326 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe--~i~y~C~~C~~~n 326 (371)
--..|.+|. .+|+ ...|.||.||..+
T Consensus 69 ~~~~C~~Cg--------~~~~~~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 69 VECECEDCS--------EEVSPEIDLYRCPKCHGIM 96 (115)
T ss_pred cEEEcccCC--------CEEecCCcCccCcCCcCCC
Confidence 457899997 1222 2357899999764
No 125
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=37.81 E-value=11 Score=36.98 Aligned_cols=38 Identities=13% Similarity=0.088 Sum_probs=19.6
Q ss_pred ceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhhhhccC
Q 017446 293 YALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLFMKCSG 338 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~~~~~~ 338 (371)
--|.|+-|.+ +|.|....|++||..++..+.-|..-..
T Consensus 196 R~L~Cs~C~t--------~W~~~R~~Cp~Cg~~~~~~l~~~~~e~~ 233 (290)
T PF04216_consen 196 RYLHCSLCGT--------EWRFVRIKCPYCGNTDHEKLEYFTVEGE 233 (290)
T ss_dssp EEEEETTT----------EEE--TTS-TTT---SS-EEE-------
T ss_pred EEEEcCCCCC--------eeeecCCCCcCCCCCCCcceeeEecCCC
Confidence 3599999986 6889999999999999999988854333
No 126
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=37.61 E-value=14 Score=39.55 Aligned_cols=35 Identities=11% Similarity=0.035 Sum_probs=16.5
Q ss_pred CcceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhhh
Q 017446 291 QSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLFM 334 (371)
Q Consensus 291 ~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~~ 334 (371)
|.=--||..|....| . .+.||.||-.|=..+.|+.
T Consensus 488 n~~~~~C~~CG~~~~--------~-~~~CP~CGs~~~~~~~Rv~ 522 (546)
T PF13597_consen 488 NPPIDICPDCGYIGG--------E-GDKCPKCGSENIEVYSRVT 522 (546)
T ss_dssp E--EEEETTT---S-----------EEE-CCC----EEEEB-SS
T ss_pred ecCcccccCCCcCCC--------C-CCCCCCCCCcccceEEEee
Confidence 334569999986544 1 6799999999966666654
No 127
>PRK01642 cls cardiolipin synthetase; Reviewed
Probab=37.16 E-value=2e+02 Score=30.31 Aligned_cols=18 Identities=33% Similarity=0.733 Sum_probs=12.8
Q ss_pred hhhhhHHHHHHHHHHHHH
Q 017446 106 VLPIFLLPGLSALAYSAF 123 (371)
Q Consensus 106 ~lp~l~~P~li~li~~~~ 123 (371)
++.++++|++-.++|.++
T Consensus 38 l~~i~~~P~~G~~lY~~f 55 (483)
T PRK01642 38 LLILYILPYVGIIAYLLF 55 (483)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 456667898888777654
No 128
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=36.80 E-value=16 Score=30.93 Aligned_cols=28 Identities=11% Similarity=0.024 Sum_probs=17.4
Q ss_pred ceeeccccccccCccCCCCCCcceeEcCCCCCcC
Q 017446 293 YALICGNCHMHNGESIRKDIPTLLLLNNEITCTT 326 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i~y~C~~C~~~n 326 (371)
-..-|.+|... .+.+...|.||.||-.+
T Consensus 69 ~~~~C~~Cg~~------~~~~~~~~~CP~Cgs~~ 96 (113)
T PRK12380 69 AQAWCWDCSQV------VEIHQHDAQCPHCHGER 96 (113)
T ss_pred cEEEcccCCCE------EecCCcCccCcCCCCCC
Confidence 45789999711 11223556799999654
No 129
>COG1422 Predicted membrane protein [Function unknown]
Probab=36.16 E-value=2e+02 Score=27.17 Aligned_cols=33 Identities=18% Similarity=0.268 Sum_probs=18.3
Q ss_pred hHHHHHHHHHH---HHHHHHHhhhhcChHHHHHHHH
Q 017446 134 DQKTLERLRVE---RKAKIDELKERTNYYTTQQLIQ 166 (371)
Q Consensus 134 ~e~kL~~L~~q---kkk~IeelKe~t~Y~~Tk~LLe 166 (371)
+.++++++|++ -|+..+|.+++-|-+.-++|=|
T Consensus 70 D~ekm~~~qk~m~efq~e~~eA~~~~d~~~lkkLq~ 105 (201)
T COG1422 70 DQEKMKELQKMMKEFQKEFREAQESGDMKKLKKLQE 105 (201)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 34566666554 4556666666555555555443
No 130
>COG1384 LysS Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]
Probab=36.01 E-value=30 Score=36.96 Aligned_cols=39 Identities=18% Similarity=0.152 Sum_probs=27.8
Q ss_pred cceeeccccccccCccCCC-CC-CcceeEcCCCCCcCCcchh
Q 017446 292 SYALICGNCHMHNGESIRK-DI-PTLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 292 ryALIC~~C~~HNGlA~ke-ef-e~i~y~C~~C~~~np~~~~ 331 (371)
.|--||.+|...|=---.+ +. ..+.|+| .|||..-.+|-
T Consensus 169 P~~piC~kcGri~~t~v~~~d~~~~v~Y~C-e~Gh~g~v~ir 209 (521)
T COG1384 169 PFMPICEKCGRILTTPVIEWDGEGTVEYRC-ECGHEGEVDIR 209 (521)
T ss_pred eccccccccCCcceeEEEEecCCceEEEEe-cCCccceeecc
Confidence 4789999998855322211 22 4799999 58999888775
No 131
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=35.91 E-value=18 Score=20.75 Aligned_cols=15 Identities=0% Similarity=-0.332 Sum_probs=9.4
Q ss_pred eEcCCCCCcCCcchh
Q 017446 317 LLNNEITCTTPKSIV 331 (371)
Q Consensus 317 y~C~~C~~~np~~~~ 331 (371)
|.|+.||...+..-.
T Consensus 1 ~~C~~C~~~~~~~~~ 15 (24)
T PF13894_consen 1 FQCPICGKSFRSKSE 15 (24)
T ss_dssp EE-SSTS-EESSHHH
T ss_pred CCCcCCCCcCCcHHH
Confidence 789999988665443
No 132
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=35.85 E-value=23 Score=41.56 Aligned_cols=24 Identities=21% Similarity=0.254 Sum_probs=14.9
Q ss_pred hhhhccCCccceeeeeehHHhhhc
Q 017446 332 LFMKCSGLKKTIFSFVVCVKVLLG 355 (371)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~~~~ 355 (371)
++++.-|.....|.-|=|||-|..
T Consensus 735 ~A~~~~g~~~~~~~~~KgVkgl~S 758 (1337)
T PRK14714 735 SALENVGERENAFDLLKGVKGLTS 758 (1337)
T ss_pred HHHHHhCcccccccccccceeccc
Confidence 455666666666666667765543
No 133
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=35.73 E-value=17 Score=22.27 Aligned_cols=12 Identities=0% Similarity=-0.100 Sum_probs=9.9
Q ss_pred EcCCCCCcCCcc
Q 017446 318 LNNEITCTTPKS 329 (371)
Q Consensus 318 ~C~~C~~~np~~ 329 (371)
+|++||..++..
T Consensus 1 ~Cp~CG~~~~~~ 12 (23)
T PF13240_consen 1 YCPNCGAEIEDD 12 (23)
T ss_pred CCcccCCCCCCc
Confidence 599999998764
No 134
>PF07431 DUF1512: Protein of unknown function (DUF1512); InterPro: IPR009995 This family consists of several archaeal proteins of around 370 residues in length. The function of this family is unknown.
Probab=35.73 E-value=1.7e+02 Score=30.02 Aligned_cols=37 Identities=24% Similarity=0.276 Sum_probs=18.7
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcC
Q 017446 133 KDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (371)
Q Consensus 133 ~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd 169 (371)
+.-..|+++..+=++.+.+.-++..-....++++|+-
T Consensus 33 ~~l~~L~~~~~~a~~~~~~~l~~~~~~~~e~~i~r~~ 69 (355)
T PF07431_consen 33 GKLSELEQYRNEARKKVIEYLKKNGSEDPESLIDRLL 69 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHH
Confidence 3344566666555554444433333455555555553
No 135
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=35.29 E-value=19 Score=31.51 Aligned_cols=12 Identities=8% Similarity=-0.028 Sum_probs=9.2
Q ss_pred ceeEcCCCCCcC
Q 017446 315 LLLLNNEITCTT 326 (371)
Q Consensus 315 i~y~C~~C~~~n 326 (371)
..++||.||..+
T Consensus 106 ~~~~CP~Cgs~~ 117 (135)
T PRK03824 106 AFLKCPKCGSRD 117 (135)
T ss_pred cCcCCcCCCCCC
Confidence 447899999664
No 136
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=34.73 E-value=15 Score=27.20 Aligned_cols=15 Identities=7% Similarity=-0.296 Sum_probs=11.1
Q ss_pred eEcCCCCCcCCcchh
Q 017446 317 LLNNEITCTTPKSIV 331 (371)
Q Consensus 317 y~C~~C~~~np~~~~ 331 (371)
+.|||||+.+---|.
T Consensus 1 i~CPyCge~~~~~iD 15 (52)
T PF14255_consen 1 IQCPYCGEPIEILID 15 (52)
T ss_pred CCCCCCCCeeEEEEe
Confidence 469999998765443
No 137
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=34.61 E-value=9.1 Score=37.91 Aligned_cols=30 Identities=17% Similarity=0.205 Sum_probs=20.5
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCcCC
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCTTP 327 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~np 327 (371)
.-|.+|.. +...+|++.-.++||+|||...
T Consensus 28 ~~c~~c~~---~~~~~~l~~~~~vc~~c~~h~r 57 (292)
T PRK05654 28 TKCPSCGQ---VLYRKELEANLNVCPKCGHHMR 57 (292)
T ss_pred eECCCccc---hhhHHHHHhcCCCCCCCCCCee
Confidence 56888865 4445555555679999998854
No 138
>COG2023 RPR2 RNase P subunit RPR2 [Translation, ribosomal structure and biogenesis]
Probab=34.53 E-value=19 Score=30.48 Aligned_cols=32 Identities=16% Similarity=0.278 Sum_probs=22.2
Q ss_pred eeeccccccc--cCccC---CCCCCcceeEcCCCCCcC
Q 017446 294 ALICGNCHMH--NGESI---RKDIPTLLLLNNEITCTT 326 (371)
Q Consensus 294 ALIC~~C~~H--NGlA~---keefe~i~y~C~~C~~~n 326 (371)
.-||.+|++. -|.-. -.+ ..+...|..||+.-
T Consensus 56 R~~CkkC~t~Lvpg~n~rvR~~~-~~v~vtC~~CG~~~ 92 (105)
T COG2023 56 RTICKKCYTPLVPGKNARVRLRK-GRVVVTCLECGTIR 92 (105)
T ss_pred HHhccccCcccccCcceEEEEcC-CeEEEEecCCCcEE
Confidence 3699999984 44332 222 34999999999863
No 139
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=34.50 E-value=23 Score=38.89 Aligned_cols=31 Identities=13% Similarity=0.139 Sum_probs=23.2
Q ss_pred EcCCCCCcCCcchhhhhhccCCccceeeeee
Q 017446 318 LNNEITCTTPKSIVLFMKCSGLKKTIFSFVV 348 (371)
Q Consensus 318 ~C~~C~~~np~~~~~~~~~~~~~~~~~~~~~ 348 (371)
.|++||+.||..-.---+|+-.-.|++--++
T Consensus 29 ~Cp~CG~~~~~~~~fC~~CG~~~~~~~~~~~ 59 (645)
T PRK14559 29 PCPQCGTEVPVDEAHCPNCGAETGTIWWAII 59 (645)
T ss_pred cCCCCCCCCCcccccccccCCcccchhhhhc
Confidence 5999999998888777788777666654443
No 140
>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=34.39 E-value=19 Score=28.51 Aligned_cols=38 Identities=8% Similarity=0.118 Sum_probs=16.4
Q ss_pred CcceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhhhhccC
Q 017446 291 QSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLFMKCSG 338 (371)
Q Consensus 291 ~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~~~~~~ 338 (371)
.+|+|.|.-||..-- +.-..-||.||.. .+.|.+=+-+
T Consensus 6 k~~vlrC~aCf~~t~-------~~~k~FCp~CGn~---TL~rvsvsv~ 43 (73)
T PF08772_consen 6 KTWVLRCHACFKITK-------DMTKQFCPKCGNA---TLKRVSVSVD 43 (73)
T ss_dssp --EEEE-SSS--EES--------SS--S-SSS--S-----EEEE-B--
T ss_pred heeeEEccccccCcC-------CCCceeCcccCCC---cceEEEEEEC
Confidence 469999999998754 4445579999986 4555544434
No 141
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=34.21 E-value=22 Score=26.59 Aligned_cols=27 Identities=11% Similarity=-0.124 Sum_probs=23.3
Q ss_pred ceeEcCCCCCcCCcchhhhhhccCCcc
Q 017446 315 LLLLNNEITCTTPKSIVLFMKCSGLKK 341 (371)
Q Consensus 315 i~y~C~~C~~~np~~~~~~~~~~~~~~ 341 (371)
.-++|.+||+...........|-|+..
T Consensus 26 ~~~YC~~Cg~~Y~d~~dL~~~CPG~t~ 52 (55)
T PF13821_consen 26 EHNYCFWCGTKYDDEEDLERNCPGPTE 52 (55)
T ss_pred hCceeeeeCCccCCHHHHHhCCCCCCc
Confidence 446999999999999999999999753
No 142
>TIGR00954 3a01203 Peroxysomal Fatty Acyl CoA Transporter (FAT) Family protei.
Probab=34.04 E-value=2.1e+02 Score=31.39 Aligned_cols=58 Identities=10% Similarity=-0.018 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcC
Q 017446 111 LLPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (371)
Q Consensus 111 ~~P~li~li~~~~~~f~~~~~~~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd 169 (371)
.+|+.+++.+.....+.+.. .+.++...+++..+.+.++...+-..|+......++|+
T Consensus 248 ~~~l~~~i~~~~~~~~~~~~-~~~~~~~~~~~~~~~e~l~g~~~I~~~~~e~~e~~~~~ 305 (659)
T TIGR00954 248 YLFATGVVLTKLRPPIGKLT-VEEQALEGEYRYVHSRLIMNSEEIAFYQGNKVEKETVM 305 (659)
T ss_pred HHHHHHHHHHHHccchhHHH-HHHHHHHHHHHHHHHHHHHhHHHHHHhCCHHHHHHHHH
Confidence 35555555544333332222 23344555666666665555555555554444444444
No 143
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=33.97 E-value=1.8e+02 Score=22.38 Aligned_cols=9 Identities=11% Similarity=0.217 Sum_probs=3.3
Q ss_pred HHHHhHHHH
Q 017446 58 RVKRRSQTW 66 (371)
Q Consensus 58 rL~~~~~~~ 66 (371)
.+.....+.
T Consensus 35 ~i~~~~~~l 43 (71)
T PF10779_consen 35 DIKNLNKQL 43 (71)
T ss_pred HHHHHHHHH
Confidence 333333333
No 144
>KOG2302 consensus T-type voltage-gated Ca2+ channel, pore-forming alpha1I subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=33.85 E-value=2.2e+02 Score=33.51 Aligned_cols=46 Identities=13% Similarity=0.066 Sum_probs=26.3
Q ss_pred eeccccccccCccCCCCCCcc------eeEcCCCCCcCCcchhhhhhccCCc
Q 017446 295 LICGNCHMHNGESIRKDIPTL------LLLNNEITCTTPKSIVLFMKCSGLK 340 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i------~y~C~~C~~~np~~~~~~~~~~~~~ 340 (371)
|-|..=.---||.+-..|+.+ -|+---=.-||+--++-+-.|+-.+
T Consensus 1598 lec~e~npceglsrhatf~nfgmafltlfrvstgdnwngimkdtlrdc~~e~ 1649 (1956)
T KOG2302|consen 1598 LECNEENPCEGLSRHATFENFGMAFLTLFRVSTGDNWNGIMKDTLRDCTHEE 1649 (1956)
T ss_pred cccCCCCCccccccccchhhhchHhhhheeeccCCcccchhhhhHhhcccch
Confidence 556554444566665555432 2455445566777667776776655
No 145
>PRK01315 putative inner membrane protein translocase component YidC; Provisional
Probab=33.64 E-value=3.7e+02 Score=27.23 Aligned_cols=15 Identities=13% Similarity=0.228 Sum_probs=10.8
Q ss_pred HHHHHHHHhcCCChh
Q 017446 159 YTTQQLIQRYDPDPA 173 (371)
Q Consensus 159 ~~Tk~LLekYd~~~~ 173 (371)
.++++|.++|+-.+-
T Consensus 94 ~e~~~Lykk~ginp~ 108 (329)
T PRK01315 94 QEMMKLYKETGTNPL 108 (329)
T ss_pred HHHHHHHHHcCCCch
Confidence 457778888887653
No 146
>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=33.56 E-value=10 Score=33.98 Aligned_cols=34 Identities=12% Similarity=0.105 Sum_probs=20.4
Q ss_pred CCCcceeeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 289 PSQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 289 p~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
.++.-=-+|.+|+.- ..-+|.-...|.||.||..
T Consensus 104 e~~~~~Y~Cp~c~~r---~tf~eA~~~~F~Cp~Cg~~ 137 (158)
T TIGR00373 104 ETNNMFFICPNMCVR---FTFNEAMELNFTCPRCGAM 137 (158)
T ss_pred ccCCCeEECCCCCcE---eeHHHHHHcCCcCCCCCCE
Confidence 344555789999721 1112222347999999975
No 147
>PRK03449 putative inner membrane protein translocase component YidC; Provisional
Probab=33.37 E-value=3.8e+02 Score=26.79 Aligned_cols=15 Identities=20% Similarity=0.237 Sum_probs=11.0
Q ss_pred HHHHHHHHhcCCChh
Q 017446 159 YTTQQLIQRYDPDPA 173 (371)
Q Consensus 159 ~~Tk~LLekYd~~~~ 173 (371)
.++++|.++|+-.+.
T Consensus 84 ~e~~~Lyk~~gvnP~ 98 (304)
T PRK03449 84 LEMQKLQKEHGFNPI 98 (304)
T ss_pred HHHHHHHHHcCCCch
Confidence 457788899987653
No 148
>PRK08579 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=33.33 E-value=21 Score=39.15 Aligned_cols=52 Identities=10% Similarity=0.142 Sum_probs=32.7
Q ss_pred CccHHHHHHHHHhcCCCC------CcceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhhh
Q 017446 273 DGGWIARIAAILVGDDPS------QSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLFM 334 (371)
Q Consensus 273 er~w~DRv~D~LvGddp~------~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~~ 334 (371)
+...+-+|++++ .+-. +.=-=||..|...- ....+.||.||..+=..+.|+.
T Consensus 543 n~~al~~lv~~~--~~~~i~Y~~inp~~~~C~~CG~~~--------~g~~~~CP~CGs~~~~v~~Rv~ 600 (625)
T PRK08579 543 DPEALAKLTKRI--MNTKLVYWSYTPAITVCNKCGRST--------TGLYTRCPRCGSEDVEVWSRII 600 (625)
T ss_pred CHHHHHHHHHHH--HhcCCceEEeCCCCccCCCCCCcc--------CCCCCcCcCCCCchhHHHHHHH
Confidence 456788888888 3322 22346899997621 1124799999976655555554
No 149
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=33.04 E-value=78 Score=27.00 Aligned_cols=15 Identities=7% Similarity=-0.095 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHhhhh
Q 017446 141 LRVERKAKIDELKER 155 (371)
Q Consensus 141 L~~qkkk~IeelKe~ 155 (371)
-++++++.+++||.-
T Consensus 28 r~K~~~~m~~~Lk~G 42 (109)
T PRK05886 28 AMQATIDLHESLQPG 42 (109)
T ss_pred HHHHHHHHHHhcCCC
Confidence 366778888888763
No 150
>COG5056 ARE1 Acyl-CoA cholesterol acyltransferase [Lipid metabolism]
Probab=32.95 E-value=3.2e+02 Score=28.93 Aligned_cols=25 Identities=12% Similarity=0.259 Sum_probs=16.9
Q ss_pred HHHHHHHHhhhhcChHHHHHHHHhc
Q 017446 144 ERKAKIDELKERTNYYTTQQLIQRY 168 (371)
Q Consensus 144 qkkk~IeelKe~t~Y~~Tk~LLekY 168 (371)
+-+++++.+|+..+--++.+.+||=
T Consensus 229 ~~~~~L~~~~d~~~~~e~~e~~ek~ 253 (512)
T COG5056 229 GSSSILDKVKDSLNIPEKDEQLEKS 253 (512)
T ss_pred HHHHHHHHHHHHhcChhhhhHhhhh
Confidence 3356667777777777777777764
No 151
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=32.85 E-value=2e+02 Score=21.34 Aligned_cols=9 Identities=44% Similarity=0.597 Sum_probs=3.9
Q ss_pred HHHHHHHHH
Q 017446 137 TLERLRVER 145 (371)
Q Consensus 137 kL~~L~~qk 145 (371)
++++++++.
T Consensus 49 ~~~~~~k~l 57 (68)
T PF06305_consen 49 RIRRLRKEL 57 (68)
T ss_pred HHHHHHHHH
Confidence 444444443
No 152
>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=32.51 E-value=3.7e+02 Score=28.58 Aligned_cols=32 Identities=3% Similarity=0.091 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHhhhhcChHHHHHHHHhcCC
Q 017446 139 ERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (371)
Q Consensus 139 ~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~ 170 (371)
.++...-.+.+.-++.-..|+......+||+.
T Consensus 173 ~~~~~~~~e~l~~i~~ik~~~~e~~~~~~~~~ 204 (569)
T PRK10789 173 SSLNDRTQESLTSIRMIKAFGLEDRQSALFAA 204 (569)
T ss_pred HHHHHHHHHHHcChHHHHHhcccHHHHHHHHH
Confidence 33433334444433333344444444444443
No 153
>KOG1726 consensus HVA22/DP1 gene product-related proteins [Defense mechanisms]
Probab=32.32 E-value=3e+02 Score=26.44 Aligned_cols=33 Identities=24% Similarity=0.251 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcC
Q 017446 136 KTLERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (371)
Q Consensus 136 ~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd 169 (371)
-.|.+-.++.+..+.+.|++- |+.+..++.|.=
T Consensus 91 p~ls~~E~eid~~l~~~k~~~-~~~a~~~~~r~l 123 (225)
T KOG1726|consen 91 PFLSKHEEEIDRMLVEAKERV-YDAAVSILKRAL 123 (225)
T ss_pred hhhhhHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 345555666777777888775 888888888873
No 154
>PF13974 YebO: YebO-like protein
Probab=32.07 E-value=1.5e+02 Score=24.02 Aligned_cols=13 Identities=23% Similarity=0.281 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHH
Q 017446 138 LERLRVERKAKID 150 (371)
Q Consensus 138 L~~L~~qkkk~Ie 150 (371)
|+.+-+|++...+
T Consensus 32 L~~ileqQKrQn~ 44 (80)
T PF13974_consen 32 LEEILEQQKRQNA 44 (80)
T ss_pred HHHHHHHHHHHHH
Confidence 4555555444444
No 155
>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=31.71 E-value=20 Score=38.50 Aligned_cols=51 Identities=12% Similarity=0.089 Sum_probs=30.9
Q ss_pred CccHHHHHHHHHhcCC--C--CCcceeecccccccc-CccCCCCCCcceeEcCCCCCcCCcchhh
Q 017446 273 DGGWIARIAAILVGDD--P--SQSYALICGNCHMHN-GESIRKDIPTLLLLNNEITCTTPKSIVL 332 (371)
Q Consensus 273 er~w~DRv~D~LvGdd--p--~~ryALIC~~C~~HN-GlA~keefe~i~y~C~~C~~~np~~~~~ 332 (371)
+...+-.|+++..-.+ + .+-=..||..|.... |. .+.||.||-.+=..+.|
T Consensus 493 n~~al~~lv~~a~~~~~~y~~~~~p~~~C~~CG~~~~~~---------~~~CP~CGs~~~~~~~R 548 (555)
T cd01675 493 NPEALEALVKKAAKRGVIYFGINTPIDICNDCGYIGEGE---------GFKCPKCGSEDVEVISR 548 (555)
T ss_pred CHHHHHHHHHHHHHcCCceEEEecCCccCCCCCCCCcCC---------CCCCcCCCCcCceEEEe
Confidence 4556666777765442 2 122234999998644 22 27999999876333333
No 156
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=31.65 E-value=30 Score=23.40 Aligned_cols=31 Identities=13% Similarity=0.087 Sum_probs=21.1
Q ss_pred eeccccccccCccCCCC-CCcceeEcCCCCCc
Q 017446 295 LICGNCHMHNGESIRKD-IPTLLLLNNEITCT 325 (371)
Q Consensus 295 LIC~~C~~HNGlA~kee-fe~i~y~C~~C~~~ 325 (371)
+.|.+|..---.....- -.-...+|+.||+.
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 57888887766554211 23468899999985
No 157
>KOG2662 consensus Magnesium transporters: CorA family [Inorganic ion transport and metabolism]
Probab=31.64 E-value=3.3e+02 Score=28.48 Aligned_cols=27 Identities=19% Similarity=0.137 Sum_probs=13.2
Q ss_pred HHhHHHHHhhhhHHHHHHHHHHHHHHH
Q 017446 60 KRRSQTWRRMSRHLIIFTVVFEVIAVG 86 (371)
Q Consensus 60 ~~~~~~~rr~~~~L~~ys~~l~vi~iv 86 (371)
+++|-..-++--.++.+++.+.+..++
T Consensus 339 Ds~RN~LiqleL~Lt~gT~~~s~~~~v 365 (414)
T KOG2662|consen 339 DSNRNELIQLELLLTIGTFCLSVFSVV 365 (414)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333334445556666665555433
No 158
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=31.58 E-value=1.5e+02 Score=33.29 Aligned_cols=14 Identities=7% Similarity=0.057 Sum_probs=7.2
Q ss_pred ccHHHHHHHHHhcC
Q 017446 274 GGWIARIAAILVGD 287 (371)
Q Consensus 274 r~w~DRv~D~LvGd 287 (371)
++-|-.+.|-.+=+
T Consensus 386 ~tvf~~~~De~Il~ 399 (830)
T KOG1923|consen 386 GTVFHELNDEKILE 399 (830)
T ss_pred cchhhhhhHHHHHH
Confidence 35555555554443
No 159
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=31.35 E-value=2.3e+02 Score=27.48 Aligned_cols=16 Identities=19% Similarity=0.189 Sum_probs=12.8
Q ss_pred CCccHHHHHHHHHhcC
Q 017446 272 HDGGWIARIAAILVGD 287 (371)
Q Consensus 272 ~er~w~DRv~D~LvGd 287 (371)
-++.|+.+++.=|+..
T Consensus 243 ~d~~~l~~il~nLi~N 258 (356)
T PRK10755 243 GDATLLRLLLRNLVEN 258 (356)
T ss_pred ECHHHHHHHHHHHHHH
Confidence 4678999999888754
No 160
>PRK02654 putative inner membrane protein translocase component YidC; Provisional
Probab=31.21 E-value=2.8e+02 Score=28.49 Aligned_cols=39 Identities=13% Similarity=0.329 Sum_probs=24.1
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhc------ChHHHHHHHHhcCCCh
Q 017446 133 KDQKTLERLRVERKAKIDELKERT------NYYTTQQLIQRYDPDP 172 (371)
Q Consensus 133 ~~e~kL~~L~~qkkk~IeelKe~t------~Y~~Tk~LLekYd~~~ 172 (371)
+..+++..+|=+.+++++|++++- --.++++|-++|+ .+
T Consensus 51 KS~~KM~~LQPemqkk~~eIqeKYKdDpqk~QqEmmkLYKE~G-NP 95 (375)
T PRK02654 51 RNMRRMKIAQPVMQKRQAEIQERYKNDPQKQQEEMGKLMKEFG-NP 95 (375)
T ss_pred HHHHHHHHhCchhhhHHHHHHHHhcCCHHHHHHHHHHHHHHcC-CC
Confidence 345667777777777777776431 2345667777887 54
No 161
>PRK11380 hypothetical protein; Provisional
Probab=30.99 E-value=1.6e+02 Score=30.10 Aligned_cols=36 Identities=14% Similarity=0.149 Sum_probs=18.8
Q ss_pred cHHHHHHHHHhcCCCC--------CcceeeccccccccCccCCCC
Q 017446 275 GWIARIAAILVGDDPS--------QSYALICGNCHMHNGESIRKD 311 (371)
Q Consensus 275 ~w~DRv~D~LvGddp~--------~ryALIC~~C~~HNGlA~kee 311 (371)
-.+++.++.+-|-+|. -|+.-+|.-|+. ||..-.||
T Consensus 225 e~ir~ca~q~~~~~~a~lI~AWDlgR~v~LaR~~~~-aGyIsEEE 268 (353)
T PRK11380 225 DYISDCANHSSGKSPAKLIWAADLSWMISLSRTAFQ-AGTIEEEL 268 (353)
T ss_pred HHHHHHHHhhccCCcccchHHHHHHHHHHHHHHHHH-cCCCCHHH
Confidence 4444455555555444 255666666664 45555443
No 162
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=30.78 E-value=21 Score=28.66 Aligned_cols=18 Identities=6% Similarity=-0.152 Sum_probs=7.3
Q ss_pred cceeEcCCCCCcCCcchh
Q 017446 314 TLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 314 ~i~y~C~~C~~~np~~~~ 331 (371)
...|.||+|||.+-=.+.
T Consensus 20 ~~~F~CPfC~~~~sV~v~ 37 (81)
T PF05129_consen 20 PKVFDCPFCNHEKSVSVK 37 (81)
T ss_dssp SS----TTT--SS-EEEE
T ss_pred CceEcCCcCCCCCeEEEE
Confidence 467999999998754443
No 163
>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=30.60 E-value=31 Score=37.37 Aligned_cols=54 Identities=13% Similarity=0.131 Sum_probs=33.0
Q ss_pred CccHHHHHHHHHhcCC-C---CCcceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhhh
Q 017446 273 DGGWIARIAAILVGDD-P---SQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLFM 334 (371)
Q Consensus 273 er~w~DRv~D~LvGdd-p---~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~~ 334 (371)
+...+-.|+++..-.+ + -|.=-=||..|.- .|--. .+.||.||-.+=..+.|+.
T Consensus 499 n~eal~~lv~~a~~~~i~Y~~~n~~~~~C~~CG~-~g~~~-------~~~CP~Cgs~~~~~~~Rv~ 556 (579)
T TIGR02487 499 DPEALKDITKKAMKNGIGYFGINPPVDVCEDCGY-TGEGL-------NDKCPKCGSHDIEVISRIT 556 (579)
T ss_pred CHHHHHHHHHHHHhcCCceEEeccCCccCCCCCC-CCCCC-------CCcCcCCCCccceehhhhh
Confidence 4566777777776554 1 1333468999953 33222 3789999977655555543
No 164
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=30.32 E-value=14 Score=33.19 Aligned_cols=35 Identities=23% Similarity=0.192 Sum_probs=26.3
Q ss_pred cceeeccccccccCccCCC-CCCcc----eeEcCCCCCcC
Q 017446 292 SYALICGNCHMHNGESIRK-DIPTL----LLLNNEITCTT 326 (371)
Q Consensus 292 ryALIC~~C~~HNGlA~ke-efe~i----~y~C~~C~~~n 326 (371)
+|.|+|.+=|..-|-..-. +|+.- .--||.||...
T Consensus 3 ~y~L~C~~gH~FEgWF~ss~~fd~Q~~~glv~CP~Cgs~~ 42 (148)
T PF06676_consen 3 VYDLRCENGHEFEGWFRSSAAFDRQQARGLVSCPVCGSTE 42 (148)
T ss_pred eEEEecCCCCccceecCCHHHHHHHHHcCCccCCCCCCCe
Confidence 6999999888888877743 45532 26899999874
No 165
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=30.26 E-value=37 Score=25.98 Aligned_cols=27 Identities=7% Similarity=0.114 Sum_probs=19.1
Q ss_pred eeeccccccccCccCCCCCCcceeEcCCCCC
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNEITC 324 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~C~~ 324 (371)
+-+|..|.. ++|+.| -++.|.||.||-
T Consensus 9 ~~~CtSCg~--~i~p~e--~~v~F~CPnCGe 35 (61)
T COG2888 9 PPVCTSCGR--EIAPGE--TAVKFPCPNCGE 35 (61)
T ss_pred CceeccCCC--EeccCC--ceeEeeCCCCCc
Confidence 457777743 344444 789999999993
No 166
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=29.82 E-value=21 Score=26.02 Aligned_cols=17 Identities=6% Similarity=-0.314 Sum_probs=11.7
Q ss_pred eeEcCCCCCcCCcchhhhh
Q 017446 316 LLLNNEITCTTPKSIVLFM 334 (371)
Q Consensus 316 ~y~C~~C~~~np~~~~~~~ 334 (371)
.|.||+||. + -..+.+.
T Consensus 2 ~f~CP~C~~-~-~~~~~L~ 18 (54)
T PF05605_consen 2 SFTCPYCGK-G-FSESSLV 18 (54)
T ss_pred CcCCCCCCC-c-cCHHHHH
Confidence 589999999 4 3344443
No 167
>PRK09458 pspB phage shock protein B; Provisional
Probab=29.73 E-value=77 Score=25.34 Aligned_cols=11 Identities=9% Similarity=0.217 Sum_probs=5.0
Q ss_pred hHHHHHHHHHH
Q 017446 110 FLLPGLSALAY 120 (371)
Q Consensus 110 l~~P~li~li~ 120 (371)
+++|++++++.
T Consensus 6 l~~PliiF~if 16 (75)
T PRK09458 6 LAIPLTIFVLF 16 (75)
T ss_pred HHHhHHHHHHH
Confidence 34454444443
No 168
>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein. This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.
Probab=29.62 E-value=5.6e+02 Score=28.02 Aligned_cols=12 Identities=8% Similarity=0.155 Sum_probs=5.1
Q ss_pred hHHHHHHHHhcC
Q 017446 158 YYTTQQLIQRYD 169 (371)
Q Consensus 158 Y~~Tk~LLekYd 169 (371)
|...+..+++|+
T Consensus 348 ~~~e~~~~~~~~ 359 (710)
T TIGR03796 348 SGLESDFFSRWA 359 (710)
T ss_pred ccCCHHHHHHHH
Confidence 444444444443
No 169
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=29.51 E-value=2.8e+02 Score=21.83 Aligned_cols=7 Identities=14% Similarity=0.368 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 017446 45 LQYISKE 51 (371)
Q Consensus 45 L~~L~~k 51 (371)
|+.|+.+
T Consensus 33 L~~L~~k 39 (89)
T PF00957_consen 33 LEELEDK 39 (89)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 3333333
No 170
>COG1422 Predicted membrane protein [Function unknown]
Probab=29.33 E-value=3.9e+02 Score=25.29 Aligned_cols=17 Identities=6% Similarity=0.163 Sum_probs=8.5
Q ss_pred hhHHHHHHHHHHHHHHH
Q 017446 70 SRHLIIFTVVFEVIAVG 86 (371)
Q Consensus 70 ~~~L~~ys~~l~vi~iv 86 (371)
+.+-.+|...+.+..+.
T Consensus 121 qfkPM~~~~v~tI~~F~ 137 (201)
T COG1422 121 QFKPMLYISVLTIPFFA 137 (201)
T ss_pred hhhhHHHHHHHHHHHHH
Confidence 34455566555554433
No 171
>PF14353 CpXC: CpXC protein
Probab=29.20 E-value=32 Score=29.32 Aligned_cols=17 Identities=0% Similarity=-0.308 Sum_probs=13.7
Q ss_pred CCcceeEcCCCCCcCCc
Q 017446 312 IPTLLLLNNEITCTTPK 328 (371)
Q Consensus 312 fe~i~y~C~~C~~~np~ 328 (371)
-+...|.||.||+....
T Consensus 34 g~l~~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 34 GSLFSFTCPSCGHKFRL 50 (128)
T ss_pred CCcCEEECCCCCCceec
Confidence 35778999999998644
No 172
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=29.19 E-value=47 Score=34.56 Aligned_cols=37 Identities=11% Similarity=0.033 Sum_probs=26.0
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCcC----Ccchhhh
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCTT----PKSIVLF 333 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~n----p~~~~~~ 333 (371)
++|..|...+-..+.+. .-+-+|+.||+.- +.+++|.
T Consensus 11 ~~C~~Cd~l~~~~~l~~--g~~a~CpRCg~~L~~~~~~~~~~~ 51 (419)
T PRK15103 11 ILCPQCDMLVALPRLEH--GQKAACPRCGTTLTVRWDEPRQRP 51 (419)
T ss_pred ccCCCCCceeecCCCCC--CCeeECCCCCCCCcCCCCCcHHHH
Confidence 67999999887765432 1256899999984 5555554
No 173
>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=28.93 E-value=18 Score=24.37 Aligned_cols=29 Identities=17% Similarity=0.214 Sum_probs=18.5
Q ss_pred ccccccccCccCCCCCCcceeEcCCCCCcCCc
Q 017446 297 CGNCHMHNGESIRKDIPTLLLLNNEITCTTPK 328 (371)
Q Consensus 297 C~~C~~HNGlA~keefe~i~y~C~~C~~~np~ 328 (371)
|..|. |-|.++++-+... .|..||+..|+
T Consensus 4 Cp~C~--nlL~p~~~~~~~~-~C~~C~Y~~~~ 32 (35)
T PF02150_consen 4 CPECG--NLLYPKEDKEKRV-ACRTCGYEEPI 32 (35)
T ss_dssp ETTTT--SBEEEEEETTTTE-EESSSS-EEE-
T ss_pred CCCCC--ccceEcCCCccCc-CCCCCCCccCC
Confidence 56664 5677776644444 99999998765
No 174
>PF14992 TMCO5: TMCO5 family
Probab=28.85 E-value=1.6e+02 Score=29.21 Aligned_cols=55 Identities=18% Similarity=0.240 Sum_probs=22.3
Q ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHHhhhcccccchhhhhhhhhhhhhHHHHHHHHHHH
Q 017446 63 SQTWRRMSRHLIIFTVVFEVIAVGYAIMTTRSMELNWKTRALQVLPIFLLPGLSALAYS 121 (371)
Q Consensus 63 ~~~~rr~~~~L~~ys~~l~vi~ivY~~~~~~~~~~~w~~r~~~~lp~l~~P~li~li~~ 121 (371)
+..++|..+.++||.++ ++-.++|.+++...++.+. ...+||.+++=.-+|=+|.
T Consensus 211 ~~~wkr~lr~l~f~vL~-f~~LL~y~~f~~~fInpdl---l~~~LP~~L~R~tlw~LR~ 265 (280)
T PF14992_consen 211 PTFWKRALRLLFFMVLF-FTRLLGYLLFYIQFINPDL---LEDVLPKMLSRRTLWRLRE 265 (280)
T ss_pred hHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhcCcHH---HHHHhHHhcchhHHHHHHH
Confidence 35556665554443333 2233444443322233322 2224455444444443433
No 175
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=28.78 E-value=2.5e+02 Score=26.73 Aligned_cols=35 Identities=11% Similarity=0.222 Sum_probs=23.3
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhhHH
Q 017446 38 GDDFEKRLQYISKEEAAILARVKRRSQTWRRMSRHL 73 (371)
Q Consensus 38 ~~~fEK~L~~L~~kI~~~~~rL~~~~~~~rr~~~~L 73 (371)
.++.| ++-.|+.++.+++.+|+....+.+.+..+.
T Consensus 158 a~~~~-d~l~ie~~L~~v~~eIe~~~~~~~~l~~~v 192 (262)
T PF14257_consen 158 AKTVE-DLLEIERELSRVRSEIEQLEGQLKYLDDRV 192 (262)
T ss_pred cCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44665 466677777777777777777766664433
No 176
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=28.63 E-value=28 Score=25.01 Aligned_cols=12 Identities=0% Similarity=-0.258 Sum_probs=10.0
Q ss_pred EcCCCCCcCCcc
Q 017446 318 LNNEITCTTPKS 329 (371)
Q Consensus 318 ~C~~C~~~np~~ 329 (371)
.||+||..|+.|
T Consensus 13 kCp~CGt~NG~R 24 (44)
T PF14952_consen 13 KCPKCGTYNGTR 24 (44)
T ss_pred cCCcCcCccCcc
Confidence 699999999765
No 177
>PF06695 Sm_multidrug_ex: Putative small multi-drug export protein; InterPro: IPR009577 This family contains a small number of putative small multi-drug export proteins.
Probab=28.48 E-value=2e+02 Score=24.53 Aligned_cols=11 Identities=18% Similarity=0.407 Sum_probs=7.9
Q ss_pred HHHHHHHHhcC
Q 017446 159 YTTQQLIQRYD 169 (371)
Q Consensus 159 ~~Tk~LLekYd 169 (371)
+..++.+|||+
T Consensus 63 ~~~~~~i~kyg 73 (121)
T PF06695_consen 63 EKKSKKIEKYG 73 (121)
T ss_pred HHHHHHHHHHh
Confidence 33667789997
No 178
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=28.43 E-value=32 Score=21.03 Aligned_cols=21 Identities=14% Similarity=-0.023 Sum_probs=14.4
Q ss_pred eEcCCCCCcCCcchhhhhhcc
Q 017446 317 LLNNEITCTTPKSIVLFMKCS 337 (371)
Q Consensus 317 y~C~~C~~~np~~~~~~~~~~ 337 (371)
|.|+.|+..|.+.-..-..|+
T Consensus 3 W~C~~C~~~N~~~~~~C~~C~ 23 (26)
T smart00547 3 WECPACTFLNFASRSKCFACG 23 (26)
T ss_pred ccCCCCCCcChhhhccccccC
Confidence 678888888877666555544
No 179
>TIGR01385 TFSII transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
Probab=28.42 E-value=27 Score=34.77 Aligned_cols=34 Identities=18% Similarity=0.172 Sum_probs=0.0
Q ss_pred eeEcCCCCCcCCcchhhhhhccCCccceeeeeehHH
Q 017446 316 LLLNNEITCTTPKSIVLFMKCSGLKKTIFSFVVCVK 351 (371)
Q Consensus 316 ~y~C~~C~~~np~~~~~~~~~~~~~~~~~~~~~~~~ 351 (371)
.|.|+.||+.+-.-.|.=..+.+..-|+ |++|+.
T Consensus 258 ~~~C~~C~~~~~~~~q~QtrsaDEpmT~--f~~C~~ 291 (299)
T TIGR01385 258 LFTCGKCKQKKCTYYQLQTRSADEPMTT--FVTCEE 291 (299)
T ss_pred cccCCCCCCccceEEEecccCCCCCCeE--EEEcCC
No 180
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=28.38 E-value=20 Score=22.97 Aligned_cols=24 Identities=17% Similarity=0.080 Sum_probs=14.0
Q ss_pred eeEcCCCCCcCCcchhhhhhccCC
Q 017446 316 LLLNNEITCTTPKSIVLFMKCSGL 339 (371)
Q Consensus 316 ~y~C~~C~~~np~~~~~~~~~~~~ 339 (371)
.|.|+.|+..|++.-..=..|+.+
T Consensus 4 ~W~C~~C~~~N~~~~~~C~~C~~~ 27 (30)
T PF00641_consen 4 DWKCPSCTFMNPASRSKCVACGAP 27 (30)
T ss_dssp SEEETTTTEEEESSSSB-TTT--B
T ss_pred CccCCCCcCCchHHhhhhhCcCCC
Confidence 467777777777766555555443
No 181
>PF05055 DUF677: Protein of unknown function (DUF677); InterPro: IPR007749 This entry contains proteins belonging to the UPF0496 family, found in plants. This family includes AT14A like proteins from Arabidopsis thaliana. At14a contains a small domain that has sequence similarities to integrins from fungi, insects and humans. Transcripts of At14a are found in all Arabidopsis tissues and the protein localises partly to the plasma membrane [].
Probab=28.33 E-value=6.4e+02 Score=25.57 Aligned_cols=17 Identities=18% Similarity=0.511 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q 017446 44 RLQYISKEEAAILARVK 60 (371)
Q Consensus 44 ~L~~L~~kI~~~~~rL~ 60 (371)
.++.+.++=..++.+|+
T Consensus 147 ~F~~i~~~~~~Ll~kL~ 163 (336)
T PF05055_consen 147 QFQSIHDQQSSLLEKLD 163 (336)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334333333333333
No 182
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=28.29 E-value=1.4e+02 Score=22.67 Aligned_cols=32 Identities=16% Similarity=0.103 Sum_probs=25.9
Q ss_pred cCCCcHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 017446 36 LKGDDFEKRLQYISKEEAAILARVKRRSQTWR 67 (371)
Q Consensus 36 ~k~~~fEK~L~~L~~kI~~~~~rL~~~~~~~r 67 (371)
..+.+.|.+|..||+++.+.+.+.+.-..+.+
T Consensus 25 a~~ltiEqRLa~LE~rL~~ae~ra~~ae~~~~ 56 (60)
T PF11471_consen 25 AAPLTIEQRLAALEQRLQAAEQRAQAAEARAK 56 (60)
T ss_pred cccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678999999999999999888877666654
No 183
>PRK04351 hypothetical protein; Provisional
Probab=28.25 E-value=42 Score=30.02 Aligned_cols=32 Identities=19% Similarity=0.216 Sum_probs=25.0
Q ss_pred CcceeeccccccccCccCCCCCCcceeEcCCCCC
Q 017446 291 QSYALICGNCHMHNGESIRKDIPTLLLLNNEITC 324 (371)
Q Consensus 291 ~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~ 324 (371)
.+|...|.+|..+..-... ...-+|+|-.|+-
T Consensus 109 ~~y~Y~C~~Cg~~~~r~Rr--~n~~~yrCg~C~g 140 (149)
T PRK04351 109 KNYLYECQSCGQQYLRKRR--INTKRYRCGKCRG 140 (149)
T ss_pred ceEEEECCCCCCEeeeeee--cCCCcEEeCCCCc
Confidence 5699999999988866643 3457899999984
No 184
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=27.85 E-value=29 Score=29.60 Aligned_cols=11 Identities=18% Similarity=-0.003 Sum_probs=9.8
Q ss_pred ceeEcCCCCCc
Q 017446 315 LLLLNNEITCT 325 (371)
Q Consensus 315 i~y~C~~C~~~ 325 (371)
.+|+||.|++.
T Consensus 19 ~~~~cpec~~e 29 (112)
T COG2824 19 GQLICPECAHE 29 (112)
T ss_pred ceEeCchhccc
Confidence 68999999986
No 185
>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=27.70 E-value=41 Score=22.50 Aligned_cols=24 Identities=17% Similarity=0.273 Sum_probs=13.9
Q ss_pred eeccccccc-cCccCCCCCCcceeEcCCCCCc
Q 017446 295 LICGNCHMH-NGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 295 LIC~~C~~H-NGlA~keefe~i~y~C~~C~~~ 325 (371)
-+|..|... .|-.+++ .||.||+.
T Consensus 3 ~~C~~CG~i~~g~~~p~-------~CP~Cg~~ 27 (34)
T cd00729 3 WVCPVCGYIHEGEEAPE-------KCPICGAP 27 (34)
T ss_pred EECCCCCCEeECCcCCC-------cCcCCCCc
Confidence 367777543 4433322 78888863
No 186
>KOG1557 consensus Fructose-biphosphate aldolase [Carbohydrate transport and metabolism]
Probab=27.63 E-value=17 Score=36.39 Aligned_cols=19 Identities=32% Similarity=0.394 Sum_probs=15.8
Q ss_pred CcceeeccccccccCccCCCCCC
Q 017446 291 QSYALICGNCHMHNGESIRKDIP 313 (371)
Q Consensus 291 ~ryALIC~~C~~HNGlA~keefe 313 (371)
.|||-||++ |||+|--|.|
T Consensus 171 ARYA~IcQ~----nGLVPIVEPE 189 (363)
T KOG1557|consen 171 ARYASICQQ----NGLVPIVEPE 189 (363)
T ss_pred HHHHHHHhh----cCcccccccc
Confidence 489999985 9999976655
No 187
>PF02748 PyrI_C: Aspartate carbamoyltransferase regulatory chain, metal binding domain; InterPro: IPR020542 Aspartate carbamoyltransferase (aspartate transcarbamylase, ATCase) 2.1.3.2 from EC is an allosteric enzyme that plays a central role in the regulation of the pyrimidine pathway in bacteria. The holoenzyme is a dodecamer composed of six catalytic chains, each with an active site, and six regulatory chains lacking catalytic activity []. The catalytic subunits exist as a dimer of catalytic trimers, (c3)2, while the regulatory subunits exist as a trimer of regulatory dimers, (r2)3, therefore the complete holoenzyme can be represented as (c3)2(r2)3. The association of the catalytic subunits c3 with the regulatory subunits r2 is responsible for the establishment of positive co-operativity between catalytic sites for the binding of aspartate and it dictates the pattern of allosteric response toward nucleotide effectors. ATCase from Escherichia coli is the most extensively studied allosteric enzyme []. The crystal structure of the T-state, the T-state with CTP bound, the R-state with N-phosphonacetyl-L-aspartate (PALA) bound, and the R-state with phosphonoacetamide plus malonate bound have been used in interpreting kinetic and mutational studies. A high-resolution structure of E. coli ATCase in the presence of PALA (a bisubstrate analog) allows a detailed description of the binding at the active site of the enzyme and allows a detailed model of the tetrahedral intermediate to be constructed. The entire regulatory chain has been traced showing that the N-terminal regions of the regulatory chains R1 and R6 are located in close proximity to each other and to the regulatory site. This portion of the molecule may be involved in the observed asymmetry between the regulatory binding sites as well as in the heterotropic response of the enzyme []. The C-terminal domain of the regulatory chains have a rubredoxin-like zinc-bound fold. ATCase from Enterobacter agglomerans (Erwinia herbicola) (Pantoea agglomerans) differs from the other investigated enterobacterial ATCases by its absence of homotropic co-operativity toward the substrate aspartate and its lack of response to ATP which is an allosteric effector (activator) of this family of enzymes. Nevertheless, the E. herbicola ATCase has the same quaternary structure, two trimers of catalytic chains with three dimers of regulatory chains, (c3)2(r2)3, as other enterobacterial ATCases and shows extensive primary structure conservation []. This entry represents the C-terminal domain.; PDB: 2YWW_B 1SKU_D 1Q95_L 8ATC_B 3AT1_D 1RAI_D 4E2F_D 1NBE_B 6AT1_B 2FZC_D ....
Probab=27.46 E-value=40 Score=24.87 Aligned_cols=31 Identities=19% Similarity=0.323 Sum_probs=17.2
Q ss_pred eec--cccccccCccCCCCC-----CcceeEcCCCCCc
Q 017446 295 LIC--GNCHMHNGESIRKDI-----PTLLLLNNEITCT 325 (371)
Q Consensus 295 LIC--~~C~~HNGlA~keef-----e~i~y~C~~C~~~ 325 (371)
|.| .+|-+|..-.....| +...|+|-||+..
T Consensus 7 l~C~Np~CITn~~E~v~~~F~v~~~~~~~~rC~YCe~~ 44 (52)
T PF02748_consen 7 LKCPNPNCITNSNEPVESRFYVIDKEPIKLRCHYCERI 44 (52)
T ss_dssp SE-SSTTBTTT-TSSS--EEEEEETTTCEEEETTT--E
T ss_pred EEcCCCCcccCCCCCCCceEEEEeCCCCEEEeeCCCCE
Confidence 556 568888322222334 5689999999865
No 188
>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA. This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.
Probab=27.35 E-value=7.3e+02 Score=26.04 Aligned_cols=12 Identities=0% Similarity=-0.164 Sum_probs=5.7
Q ss_pred cceeeccccccc
Q 017446 292 SYALICGNCHMH 303 (371)
Q Consensus 292 ryALIC~~C~~H 303 (371)
+..-.|+.|..|
T Consensus 438 ~i~~~l~~~~l~ 449 (571)
T TIGR02203 438 EIERALAAAYAQ 449 (571)
T ss_pred HHHHHHHHcChH
Confidence 344455555443
No 189
>COG4640 Predicted membrane protein [Function unknown]
Probab=27.32 E-value=32 Score=35.60 Aligned_cols=32 Identities=6% Similarity=0.094 Sum_probs=23.0
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhhh
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLFM 334 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~~ 334 (371)
+-|.+|.+||- | +..+ |+.||+....+-...-
T Consensus 2 ~fC~kcG~qk~-----E-d~~q--C~qCG~~~t~~~sqan 33 (465)
T COG4640 2 KFCPKCGSQKA-----E-DDVQ--CTQCGHKFTSRQSQAN 33 (465)
T ss_pred Ccccccccccc-----c-cccc--ccccCCcCCchhhhhh
Confidence 46999999872 2 2233 9999999877765554
No 190
>PRK06260 threonine synthase; Validated
Probab=27.31 E-value=39 Score=34.45 Aligned_cols=27 Identities=19% Similarity=0.171 Sum_probs=18.4
Q ss_pred ceeeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 293 YALICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
|.|.|..|... .+ -+...|+||.||-.
T Consensus 2 ~~~~C~~cg~~---~~---~~~~~~~Cp~cg~~ 28 (397)
T PRK06260 2 YWLKCIECGKE---YD---PDEIIYTCPECGGL 28 (397)
T ss_pred CEEEECCCCCC---CC---CCCccccCCCCCCe
Confidence 67999999632 11 12356899999854
No 191
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=27.25 E-value=5.8e+02 Score=25.56 Aligned_cols=17 Identities=18% Similarity=0.266 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHh
Q 017446 136 KTLERLRVERKAKIDEL 152 (371)
Q Consensus 136 ~kL~~L~~qkkk~Ieel 152 (371)
-..+++++++++...+-
T Consensus 258 LA~~Ra~~kR~~~~aqr 274 (340)
T PF12794_consen 258 LAYERAKEKRAEALAQR 274 (340)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 45678888887776444
No 192
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=27.23 E-value=32 Score=20.05 Aligned_cols=13 Identities=0% Similarity=-0.319 Sum_probs=9.9
Q ss_pred eEcCCCCCcCCcc
Q 017446 317 LLNNEITCTTPKS 329 (371)
Q Consensus 317 y~C~~C~~~np~~ 329 (371)
|.|+.||...+.+
T Consensus 1 y~C~~C~~~f~~~ 13 (23)
T PF00096_consen 1 YKCPICGKSFSSK 13 (23)
T ss_dssp EEETTTTEEESSH
T ss_pred CCCCCCCCccCCH
Confidence 7899999765544
No 193
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=27.13 E-value=1.1e+02 Score=25.51 Aligned_cols=14 Identities=21% Similarity=0.278 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHhhh
Q 017446 141 LRVERKAKIDELKE 154 (371)
Q Consensus 141 L~~qkkk~IeelKe 154 (371)
=+++|++.+++|++
T Consensus 33 r~K~~~~ml~sL~k 46 (97)
T COG1862 33 RMKEHQELLNSLKK 46 (97)
T ss_pred HHHHHHHHHHhccC
Confidence 35678888888865
No 194
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=27.12 E-value=1e+02 Score=23.44 Aligned_cols=27 Identities=19% Similarity=0.318 Sum_probs=19.9
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 017446 40 DFEKRLQYISKEEAAILARVKRRSQTW 66 (371)
Q Consensus 40 ~fEK~L~~L~~kI~~~~~rL~~~~~~~ 66 (371)
|+++++..|++++..++..+.+.....
T Consensus 1 D~~~E~~rL~Kel~kl~~~i~~~~~kL 27 (66)
T PF10458_consen 1 DVEAEIERLEKELEKLEKEIERLEKKL 27 (66)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678888889999888777776665544
No 195
>PRK10633 hypothetical protein; Provisional
Probab=27.09 E-value=3.4e+02 Score=21.94 Aligned_cols=10 Identities=50% Similarity=0.547 Sum_probs=4.5
Q ss_pred hHHHHHHHHH
Q 017446 110 FLLPGLSALA 119 (371)
Q Consensus 110 l~~P~li~li 119 (371)
+++|++..++
T Consensus 51 i~~p~lfi~l 60 (80)
T PRK10633 51 LLLPLLFILL 60 (80)
T ss_pred HHHHHHHHHH
Confidence 3445544443
No 196
>PTZ00265 multidrug resistance protein (mdr1); Provisional
Probab=27.05 E-value=5.6e+02 Score=31.13 Aligned_cols=33 Identities=3% Similarity=0.161 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCC
Q 017446 138 LERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (371)
Q Consensus 138 L~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~ 170 (371)
..++...-.+.|.-++.-..|..-...++||+.
T Consensus 232 ~~~~~~~~~E~l~gi~tVka~~~e~~~~~~f~~ 264 (1466)
T PTZ00265 232 NNNTMSIIEEALVGIRTVVSYCGEKTILKKFNL 264 (1466)
T ss_pred HHHHHHHHHHHHhChHHHHHhccCHHHHHHHHH
Confidence 345555556666666666677777777777764
No 197
>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein. Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif
Probab=27.04 E-value=6.5e+02 Score=27.37 Aligned_cols=10 Identities=20% Similarity=0.145 Sum_probs=3.8
Q ss_pred hhhhhhccCC
Q 017446 330 IVLFMKCSGL 339 (371)
Q Consensus 330 ~~~~~~~~~~ 339 (371)
+..+.+..|.
T Consensus 558 i~~al~~a~l 567 (686)
T TIGR03797 558 AWEAARMAGL 567 (686)
T ss_pred HHHHHHHcCc
Confidence 3333333333
No 198
>PHA02942 putative transposase; Provisional
Probab=26.93 E-value=48 Score=33.99 Aligned_cols=33 Identities=9% Similarity=0.246 Sum_probs=21.5
Q ss_pred eeeccccccccCccCCCCCCcceeEcCCCCCcCCcchh
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~ 331 (371)
--.|..|..-+. +...=.|.|+.||+..++-+.
T Consensus 325 Sq~Cs~CG~~~~-----~l~~r~f~C~~CG~~~drD~n 357 (383)
T PHA02942 325 SVSCPKCGHKMV-----EIAHRYFHCPSCGYENDRDVI 357 (383)
T ss_pred CccCCCCCCccC-----cCCCCEEECCCCCCEeCcHHH
Confidence 467888876542 122336889899988766554
No 199
>COG1781 PyrI Aspartate carbamoyltransferase, regulatory subunit [Nucleotide transport and metabolism]
Probab=26.84 E-value=33 Score=30.94 Aligned_cols=33 Identities=21% Similarity=0.189 Sum_probs=23.1
Q ss_pred eeec--cccccccC-ccCCCCC-----CcceeEcCCCCCcCC
Q 017446 294 ALIC--GNCHMHNG-ESIRKDI-----PTLLLLNNEITCTTP 327 (371)
Q Consensus 294 ALIC--~~C~~HNG-lA~keef-----e~i~y~C~~C~~~np 327 (371)
.|.| .+|-+|+- -+.. .| +.+.|+|-||....-
T Consensus 106 vlkCpN~nCITn~e~pv~s-~F~~~~~~~~~lrC~YCe~~~~ 146 (153)
T COG1781 106 VLRCPNPNCITNAEEPVES-KFYVVSKEPLALRCKYCEKTFS 146 (153)
T ss_pred EEEcCCCCcccCCCccCCc-cEEEEecCCcEEEEEecCcEec
Confidence 3889 68999998 3332 24 236799999987643
No 200
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=26.81 E-value=41 Score=30.45 Aligned_cols=32 Identities=16% Similarity=0.217 Sum_probs=22.0
Q ss_pred CcceeeccccccccCccCCCCCCcce----eEcCCCCCc
Q 017446 291 QSYALICGNCHMHNGESIRKDIPTLL----LLNNEITCT 325 (371)
Q Consensus 291 ~ryALIC~~C~~HNGlA~keefe~i~----y~C~~C~~~ 325 (371)
++|--.|+ |..| .-.+-...-+. |+|-.|+-.
T Consensus 114 ~~~~Y~C~-C~q~--~l~~RRhn~~~~g~~YrC~~C~gk 149 (156)
T COG3091 114 TTYPYRCQ-CQQH--YLRIRRHNTVRRGEVYRCGKCGGK 149 (156)
T ss_pred cceeEEee-cCCc--cchhhhcccccccceEEeccCCce
Confidence 46889999 9988 22222344455 999999853
No 201
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=26.55 E-value=3.9e+02 Score=22.44 Aligned_cols=11 Identities=18% Similarity=0.334 Sum_probs=5.2
Q ss_pred hhhHHHHHHHH
Q 017446 69 MSRHLIIFTVV 79 (371)
Q Consensus 69 ~~~~L~~ys~~ 79 (371)
+.+.+.++|++
T Consensus 38 ~~~~l~~~g~I 48 (100)
T TIGR02230 38 IWEGLGMFGLI 48 (100)
T ss_pred HHHHHHHHHHH
Confidence 44555544443
No 202
>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=26.32 E-value=51 Score=29.19 Aligned_cols=61 Identities=8% Similarity=0.169 Sum_probs=34.5
Q ss_pred ceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhhh---hccCCccc--eeeeeehHHhhhcccc
Q 017446 293 YALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLFM---KCSGLKKT--IFSFVVCVKVLLGRRI 358 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~~---~~~~~~~~--~~~~~~~~~~~~~~~~ 358 (371)
|=.-|.+|..- +. +.+.-.|+|..|+...+.+.-|++ .-+|...+ +.-|-=+...|+|+..
T Consensus 33 ~Y~aC~~C~kk--v~---~~~~~~~~C~~C~~~~~~~~~ry~l~~~i~D~Tg~~~~~~F~~~ae~l~G~sa 98 (166)
T cd04476 33 WYPACPGCNKK--VV---EEGNGTYRCEKCNKSVPNPEYRYILSLNVADHTGEAWLTLFDEVAEQIFGKSA 98 (166)
T ss_pred EEccccccCcc--cE---eCCCCcEECCCCCCcCCCccEEEEEEEEEEeCCCCEEEEEehHHHHHHhCCCH
Confidence 44568888551 21 112278999999999666655554 22222222 2233346677777643
No 203
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=26.22 E-value=39 Score=31.48 Aligned_cols=24 Identities=17% Similarity=0.147 Sum_probs=18.0
Q ss_pred eccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 296 ICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 296 IC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
.|++|.. .|.+ +..+-+||.||..
T Consensus 151 ~CsrC~~--~L~~----~~~~l~Cp~Cg~t 174 (188)
T COG1096 151 RCSRCRA--PLVK----KGNMLKCPNCGNT 174 (188)
T ss_pred EccCCCc--ceEE----cCcEEECCCCCCE
Confidence 5899975 4544 5567899999975
No 204
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=26.14 E-value=32 Score=29.01 Aligned_cols=29 Identities=14% Similarity=0.125 Sum_probs=18.1
Q ss_pred ceeEcCCCCCcCCcchhhhhhccCCccceeeeeeh
Q 017446 315 LLLLNNEITCTTPKSIVLFMKCSGLKKTIFSFVVC 349 (371)
Q Consensus 315 i~y~C~~C~~~np~~~~~~~~~~~~~~~~~~~~~~ 349 (371)
-.|-||+|||.+- ++|+=.++.--.+++|
T Consensus 21 k~FtCp~Cghe~v------s~ctvkk~~~~g~~~C 49 (104)
T COG4888 21 KTFTCPRCGHEKV------SSCTVKKTVNIGTAVC 49 (104)
T ss_pred ceEecCccCCeee------eEEEEEecCceeEEEc
Confidence 5799999999874 3444333333445555
No 205
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=26.11 E-value=44 Score=24.39 Aligned_cols=28 Identities=11% Similarity=-0.063 Sum_probs=19.0
Q ss_pred ceeeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 293 YALICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
-.-.|.+|.+. =|+..+ -.|.|..||+.
T Consensus 19 ~~~fCP~Cg~~-~m~~~~----~r~~C~~Cgyt 46 (50)
T PRK00432 19 KNKFCPRCGSG-FMAEHL----DRWHCGKCGYT 46 (50)
T ss_pred ccCcCcCCCcc-hheccC----CcEECCCcCCE
Confidence 34489999764 333322 48899999985
No 206
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=26.06 E-value=1.2e+02 Score=24.26 Aligned_cols=9 Identities=33% Similarity=0.593 Sum_probs=3.9
Q ss_pred hHHHHHHHH
Q 017446 134 DQKTLERLR 142 (371)
Q Consensus 134 ~e~kL~~L~ 142 (371)
+++.|++|-
T Consensus 40 d~~~L~~L~ 48 (75)
T PF06667_consen 40 DEQRLQELY 48 (75)
T ss_pred HHHHHHHHH
Confidence 334444443
No 207
>PRK15033 tricarballylate utilization protein B; Provisional
Probab=25.99 E-value=2.7e+02 Score=28.91 Aligned_cols=21 Identities=24% Similarity=0.278 Sum_probs=17.6
Q ss_pred HHHHhhhhHHHHHHHHHHHHH
Q 017446 64 QTWRRMSRHLIIFTVVFEVIA 84 (371)
Q Consensus 64 ~~~rr~~~~L~~ys~~l~vi~ 84 (371)
...||..+.+++|++++.++.
T Consensus 231 ~~~Rr~~H~l~~yGFil~f~a 251 (389)
T PRK15033 231 TLARRRFHHLTFYGFMLCFAA 251 (389)
T ss_pred chHHHHHHHHHHHHHHHHHHH
Confidence 466788899999999988874
No 208
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=25.92 E-value=1.4e+02 Score=26.82 Aligned_cols=14 Identities=14% Similarity=0.133 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHH
Q 017446 135 QKTLERLRVERKAK 148 (371)
Q Consensus 135 e~kL~~L~~qkkk~ 148 (371)
+.+|++|+++.+++
T Consensus 130 ~~eL~qLq~rL~qT 143 (152)
T PF15361_consen 130 DYELAQLQERLAQT 143 (152)
T ss_pred HHHHHHHHHHHHHH
Confidence 45677777665443
No 209
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=25.92 E-value=26 Score=36.39 Aligned_cols=17 Identities=12% Similarity=0.141 Sum_probs=11.5
Q ss_pred CCccHHHHHHHHHhcCC
Q 017446 272 HDGGWIARIAAILVGDD 288 (371)
Q Consensus 272 ~er~w~DRv~D~LvGdd 288 (371)
+++..+.++++.+..++
T Consensus 277 ~eK~l~e~f~~e~~~~~ 293 (411)
T COG1503 277 REKKLMEEFFKELAKDS 293 (411)
T ss_pred cchhHHHHHHHHhccCc
Confidence 45667777777777654
No 210
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=25.92 E-value=43 Score=32.02 Aligned_cols=28 Identities=11% Similarity=0.190 Sum_probs=19.5
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCcCCcchh
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~ 331 (371)
=.|..|.. +..=.|.|+.||+...+-+.
T Consensus 310 ~~C~~cg~---------~~~r~~~C~~cg~~~~rD~n 337 (364)
T COG0675 310 KTCPCCGH---------LSGRLFKCPRCGFVHDRDVN 337 (364)
T ss_pred ccccccCC---------ccceeEECCCCCCeehhhHH
Confidence 57888876 34456889999987665544
No 211
>PRK09609 hypothetical protein; Provisional
Probab=25.50 E-value=5.6e+02 Score=25.84 Aligned_cols=31 Identities=3% Similarity=-0.065 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHH--HhhhhhhHHHHHHHHHH
Q 017446 114 GLSALAYSAFVSFN--RMCDRKDQKTLERLRVE 144 (371)
Q Consensus 114 ~li~li~~~~~~f~--~~~~~~~e~kL~~L~~q 144 (371)
++.+++++.+..++ ++++.+.+++.+.++++
T Consensus 95 lf~~~~fk~~~~~f~~~~~~~~~~~~i~~~~~~ 127 (312)
T PRK09609 95 IVGWFFFKFGKKFFGKESRIKRYDNKIFKQKEQ 127 (312)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 34455555554443 44555666666555554
No 212
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=25.45 E-value=40 Score=29.06 Aligned_cols=32 Identities=9% Similarity=0.148 Sum_probs=16.5
Q ss_pred ceeeccccccccCccCCCCCCcc--eeEcCCCCCcC
Q 017446 293 YALICGNCHMHNGESIRKDIPTL--LLLNNEITCTT 326 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i--~y~C~~C~~~n 326 (371)
-..-| +|...=.+-- .+.... .|.||.||-.+
T Consensus 69 ~~~~C-~Cg~~~~~~~-~~~~~~~~~~~CP~Cgs~~ 102 (124)
T PRK00762 69 VEIEC-ECGYEGVVDE-DEIDHYAAVIECPVCGNKR 102 (124)
T ss_pred eeEEe-eCcCcccccc-cchhccccCCcCcCCCCCC
Confidence 45779 8973321110 011112 36799999654
No 213
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=25.43 E-value=34 Score=26.50 Aligned_cols=22 Identities=9% Similarity=0.052 Sum_probs=16.6
Q ss_pred eeeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 294 ALICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 294 ALIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
.+-|.+|+..+ .++ .||.||-.
T Consensus 5 ~~AC~~C~~i~----~~~------~Cp~Cgs~ 26 (64)
T PRK06393 5 YRACKKCKRLT----PEK------TCPVHGDE 26 (64)
T ss_pred hhhHhhCCccc----CCC------cCCCCCCC
Confidence 45799999887 222 89999974
No 214
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=25.38 E-value=33 Score=37.80 Aligned_cols=43 Identities=14% Similarity=0.094 Sum_probs=27.7
Q ss_pred CccHHHHHHHHHhcC--CC---CCcceeeccccccccCccCCCCCCcceeEcCCCCC
Q 017446 273 DGGWIARIAAILVGD--DP---SQSYALICGNCHMHNGESIRKDIPTLLLLNNEITC 324 (371)
Q Consensus 273 er~w~DRv~D~LvGd--dp---~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~ 324 (371)
+...+-+|++++.-. -+ -|.=-=||..|..+.|. .|.||.||.
T Consensus 600 n~~a~~~lv~~~~~~~~i~Y~~in~~~~~C~~CG~~~g~---------~~~CP~CG~ 647 (656)
T PRK08270 600 DAEACKKLVKKALENYRLPYITITPTFSICPKHGYLSGE---------HEFCPKCGE 647 (656)
T ss_pred CHHHHHHHHHHHHHhCCCceEEeCCCCcccCCCCCcCCC---------CCCCcCCcC
Confidence 456777788877421 11 23344689999866444 379999994
No 215
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=25.22 E-value=6e+02 Score=25.65 Aligned_cols=16 Identities=19% Similarity=0.409 Sum_probs=11.6
Q ss_pred hcChHHHHHHHHhcCC
Q 017446 155 RTNYYTTQQLIQRYDP 170 (371)
Q Consensus 155 ~t~Y~~Tk~LLekYd~ 170 (371)
+-+|..+.+++.+-..
T Consensus 97 eGd~~~A~k~l~~~~~ 112 (398)
T PRK10747 97 EGDYQQVEKLMTRNAD 112 (398)
T ss_pred CCCHHHHHHHHHHHHh
Confidence 5688888888886433
No 216
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=25.17 E-value=36 Score=20.23 Aligned_cols=11 Identities=9% Similarity=-0.000 Sum_probs=7.3
Q ss_pred eEcCCCCCcCC
Q 017446 317 LLNNEITCTTP 327 (371)
Q Consensus 317 y~C~~C~~~np 327 (371)
|+|+.|++...
T Consensus 1 y~C~~C~y~t~ 11 (24)
T PF13909_consen 1 YKCPHCSYSTS 11 (24)
T ss_dssp EE-SSSS-EES
T ss_pred CCCCCCCCcCC
Confidence 79999998753
No 217
>PF06196 DUF997: Protein of unknown function (DUF997); InterPro: IPR010398 This is a family of predicted bacterial membrane protein with unknown function.
Probab=25.17 E-value=3.4e+02 Score=21.74 Aligned_cols=9 Identities=22% Similarity=-0.053 Sum_probs=4.2
Q ss_pred hHHHHHHHH
Q 017446 110 FLLPGLSAL 118 (371)
Q Consensus 110 l~~P~li~l 118 (371)
+++|+++.+
T Consensus 51 i~~~il~~~ 59 (80)
T PF06196_consen 51 IGGPILFII 59 (80)
T ss_pred HHHHHHHHH
Confidence 445555443
No 218
>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=25.17 E-value=29 Score=27.17 Aligned_cols=31 Identities=16% Similarity=0.166 Sum_probs=17.1
Q ss_pred eeeccccccc--cC---ccCCC----CCCcceeEcCCCCC
Q 017446 294 ALICGNCHMH--NG---ESIRK----DIPTLLLLNNEITC 324 (371)
Q Consensus 294 ALIC~~C~~H--NG---lA~ke----efe~i~y~C~~C~~ 324 (371)
-.||++|++. -| -..-. .-..+.|.|-.||+
T Consensus 46 r~~Ck~C~~~liPG~~~~vri~~~~~~~~~l~~~C~~C~~ 85 (85)
T PF04032_consen 46 RTICKKCGSLLIPGVNCSVRIRKKKKKKNFLVYTCLNCGH 85 (85)
T ss_dssp CTB-TTT--B--CTTTEEEEEE---SSS-EEEEEETTTTE
T ss_pred cccccCCCCEEeCCCccEEEEEecCCCCCEEEEEccccCC
Confidence 3699999873 22 22211 24568999999986
No 219
>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=24.94 E-value=69 Score=33.11 Aligned_cols=30 Identities=13% Similarity=0.161 Sum_probs=21.9
Q ss_pred eeccccccccCccCCCCCCcceeEcCCCCCcC
Q 017446 295 LICGNCHMHNGESIRKDIPTLLLLNNEITCTT 326 (371)
Q Consensus 295 LIC~~C~~HNGlA~keefe~i~y~C~~C~~~n 326 (371)
.+|.+|...+-..+.+. .-+.+|+.||+.-
T Consensus 14 ~~C~~Cd~l~~~~~l~~--g~~a~CpRCg~~L 43 (403)
T TIGR00155 14 ILCSQCDMLVALPRIES--GQKAACPRCGTTL 43 (403)
T ss_pred eeCCCCCCcccccCCCC--CCeeECCCCCCCC
Confidence 45999999887765332 2256899999984
No 220
>COG5416 Uncharacterized integral membrane protein [Function unknown]
Probab=24.77 E-value=3.7e+02 Score=22.55 Aligned_cols=23 Identities=17% Similarity=0.385 Sum_probs=12.0
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcc
Q 017446 71 RHLIIFTVVFEVIAVGYAIMTTR 93 (371)
Q Consensus 71 ~~L~~ys~~l~vi~ivY~~~~~~ 93 (371)
...++-++++-++.++++...+.
T Consensus 24 w~vi~~gilillLllifav~Nt~ 46 (98)
T COG5416 24 WTVIIVGILILLLLLIFAVINTD 46 (98)
T ss_pred eeHHHHHHHHHHHHHHHHHhccC
Confidence 44445445555555556665444
No 221
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=24.69 E-value=4.8e+02 Score=22.91 Aligned_cols=7 Identities=29% Similarity=-0.012 Sum_probs=2.8
Q ss_pred HHHHHHH
Q 017446 114 GLSALAY 120 (371)
Q Consensus 114 ~li~li~ 120 (371)
+++++++
T Consensus 34 iL~~lL~ 40 (156)
T CHL00118 34 LLMVLLN 40 (156)
T ss_pred HHHHHHH
Confidence 3334443
No 222
>TIGR03592 yidC_oxa1_cterm membrane protein insertase, YidC/Oxa1 family, C-terminal domain. This model describes full-length from some species, and the C-terminal region only from other species, of the YidC/Oxa1 family of proteins. This domain appears to be univeral among bacteria (although absent from Archaea). The well-characterized YidC protein from Escherichia coli and its close homologs contain a large N-terminal periplasmic domain in addition to the region modeled here.
Probab=24.64 E-value=3.2e+02 Score=24.72 Aligned_cols=40 Identities=15% Similarity=0.218 Sum_probs=21.6
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhc--ChHHHHHHHHhcCCCh
Q 017446 133 KDQKTLERLRVERKAKIDELKERT--NYYTTQQLIQRYDPDP 172 (371)
Q Consensus 133 ~~e~kL~~L~~qkkk~IeelKe~t--~Y~~Tk~LLekYd~~~ 172 (371)
+...++.+++-|.++.-|+.|++. --.+.++|.+|++-.+
T Consensus 26 ~~~~km~~i~P~~~~i~~k~k~~~~~~~~e~~~l~k~~~~~p 67 (181)
T TIGR03592 26 KSMRKMQELQPKLKEIQEKYKDDPQKLQQEMMKLYKEEGVNP 67 (181)
T ss_pred HHHHHHHHhhHHHHHHHHHHHhhHHHHHHHHHHHHHHhCCCc
Confidence 344556666555555555554321 2345667777777554
No 223
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=24.61 E-value=1.6e+02 Score=22.35 Aligned_cols=13 Identities=15% Similarity=0.161 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHh
Q 017446 140 RLRVERKAKIDEL 152 (371)
Q Consensus 140 ~L~~qkkk~Ieel 152 (371)
.+.++.++.||-|
T Consensus 43 ~~eqKLDrIIeLL 55 (58)
T PF13314_consen 43 SMEQKLDRIIELL 55 (58)
T ss_pred HHHHHHHHHHHHH
Confidence 4455555555543
No 224
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=24.57 E-value=6.3e+02 Score=24.17 Aligned_cols=6 Identities=0% Similarity=-0.175 Sum_probs=2.2
Q ss_pred HHHHHH
Q 017446 112 LPGLSA 117 (371)
Q Consensus 112 ~P~li~ 117 (371)
|.++.+
T Consensus 105 f~LFL~ 110 (216)
T KOG1962|consen 105 FVLFLS 110 (216)
T ss_pred HHHHHH
Confidence 333333
No 225
>PRK09458 pspB phage shock protein B; Provisional
Probab=24.47 E-value=2e+02 Score=22.96 Aligned_cols=12 Identities=25% Similarity=0.459 Sum_probs=6.4
Q ss_pred hhHHHHHHHHHH
Q 017446 133 KDQKTLERLRVE 144 (371)
Q Consensus 133 ~~e~kL~~L~~q 144 (371)
.++++|++|-+.
T Consensus 39 ~d~~~L~~L~~~ 50 (75)
T PRK09458 39 EEQQRLAQLTEK 50 (75)
T ss_pred HHHHHHHHHHHH
Confidence 355566666443
No 226
>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=24.47 E-value=43 Score=21.21 Aligned_cols=16 Identities=6% Similarity=-0.008 Sum_probs=11.1
Q ss_pred CCcceeEcCCCCCcCC
Q 017446 312 IPTLLLLNNEITCTTP 327 (371)
Q Consensus 312 fe~i~y~C~~C~~~np 327 (371)
....+-.||+|||...
T Consensus 10 V~~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 10 VPESAKFCPHCGYDFE 25 (26)
T ss_pred chhhcCcCCCCCCCCc
Confidence 3445568999998654
No 227
>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=24.35 E-value=42 Score=23.33 Aligned_cols=30 Identities=13% Similarity=0.120 Sum_probs=16.6
Q ss_pred ceeeccccc-cccCccCCCCCCcceeEcCCCCC
Q 017446 293 YALICGNCH-MHNGESIRKDIPTLLLLNNEITC 324 (371)
Q Consensus 293 yALIC~~C~-~HNGlA~keefe~i~y~C~~C~~ 324 (371)
|-..|..|. ...=+.+-.| .-.-.||.||.
T Consensus 4 Yey~C~~Cg~~fe~~~~~~~--~~~~~CP~Cg~ 34 (42)
T PF09723_consen 4 YEYRCEECGHEFEVLQSISE--DDPVPCPECGS 34 (42)
T ss_pred EEEEeCCCCCEEEEEEEcCC--CCCCcCCCCCC
Confidence 556677776 3333444333 33346777776
No 228
>KOG0055 consensus Multidrug/pheromone exporter, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=24.08 E-value=1.3e+03 Score=27.80 Aligned_cols=63 Identities=13% Similarity=0.224 Sum_probs=32.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCC
Q 017446 107 LPIFLLPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (371)
Q Consensus 107 lp~l~~P~li~li~~~~~~f~~~~~~~~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~ 170 (371)
+.+..+|++++..+.- ..|......+..+..++.-.---+.|+.++--.-|..-..+++.|..
T Consensus 813 v~la~~Pll~~~~~~~-~~~~~~~~~~~~~~~~ea~~iA~eai~NIrTV~al~~e~~~~~~y~~ 875 (1228)
T KOG0055|consen 813 VVLATFPLLILSGYLQ-KKFLKGFSKDDKKAYEEASKIAIEAVSNIRTVAALCAEEKFMELYKE 875 (1228)
T ss_pred HHHHHHHHHHHHHHHH-HHHHhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHhhHHHHHHHHHH
Confidence 3455677777654332 22222222333333444444445566666666666666666666654
No 229
>KOG2296 consensus Integral membrane protein [General function prediction only]
Probab=24.06 E-value=7.7e+02 Score=27.31 Aligned_cols=33 Identities=18% Similarity=0.309 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHhhhhcChHHHHHHHHhcCCCh
Q 017446 138 LERLRVERKAKIDELKERTNYYTTQQLIQRYDPDP 172 (371)
Q Consensus 138 L~~L~~qkkk~IeelKe~t~Y~~Tk~LLekYd~~~ 172 (371)
.+++-++++..=|+++. -|+..+.+.+-+..++
T Consensus 215 ~akia~~~a~aee~~~~--i~~~~qa~~~~~~~~~ 247 (673)
T KOG2296|consen 215 IAKIAVEKAEAEEEVSD--IYVKLQALSTSMSNRD 247 (673)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHhhhcCCc
Confidence 34444444444444443 4788888888887663
No 230
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=24.02 E-value=1.1e+02 Score=26.50 Aligned_cols=17 Identities=47% Similarity=0.546 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHhhhh
Q 017446 138 LERLRVERKAKIDELKER 155 (371)
Q Consensus 138 L~~L~~qkkk~IeelKe~ 155 (371)
-.+|.+| .|-|||||+.
T Consensus 96 SrRL~aE-gKdIdeLKKi 112 (128)
T PF15145_consen 96 SRRLTAE-GKDIDELKKI 112 (128)
T ss_pred HHHHHhc-cCCHHHHHHH
Confidence 3455565 5668888763
No 231
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=23.88 E-value=40 Score=25.86 Aligned_cols=21 Identities=19% Similarity=0.368 Sum_probs=15.6
Q ss_pred eccccccccCccCCCCCCcceeEcCCCCCcC
Q 017446 296 ICGNCHMHNGESIRKDIPTLLLLNNEITCTT 326 (371)
Q Consensus 296 IC~~C~~HNGlA~keefe~i~y~C~~C~~~n 326 (371)
-|.+|+..+ .++ +||.||-..
T Consensus 5 AC~~C~~i~----~~~------~CP~Cgs~~ 25 (61)
T PRK08351 5 ACRHCHYIT----TED------RCPVCGSRD 25 (61)
T ss_pred hhhhCCccc----CCC------cCCCCcCCc
Confidence 699999887 222 699999743
No 232
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=23.83 E-value=2.3e+02 Score=23.14 Aligned_cols=19 Identities=26% Similarity=0.412 Sum_probs=13.3
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 017446 133 KDQKTLERLRVERKAKIDE 151 (371)
Q Consensus 133 ~~e~kL~~L~~qkkk~Iee 151 (371)
+.|..-.+|+.++.|++.+
T Consensus 47 kteS~~~dL~t~k~K~~KK 65 (83)
T PF05814_consen 47 KTESTPQDLQTEKAKSIKK 65 (83)
T ss_pred CCCCcHHHHhhhhhhhHHH
Confidence 5677788888876665543
No 233
>PLN00162 transport protein sec23; Provisional
Probab=23.77 E-value=46 Score=37.27 Aligned_cols=36 Identities=14% Similarity=0.053 Sum_probs=25.2
Q ss_pred eeccccccc-cCccCCCCCCcceeEcCCCCCcCCcchh
Q 017446 295 LICGNCHMH-NGESIRKDIPTLLLLNNEITCTTPKSIV 331 (371)
Q Consensus 295 LIC~~C~~H-NGlA~keefe~i~y~C~~C~~~np~~~~ 331 (371)
+.|++|++- |-...- ++..-.|+|+.|++.|+-|-.
T Consensus 54 vRC~~CraylNPf~~~-d~~~~~W~C~~C~~~N~~P~~ 90 (761)
T PLN00162 54 LRCRTCRAVLNPYCRV-DFQAKIWICPFCFQRNHFPPH 90 (761)
T ss_pred CccCCCcCEECCceEE-ecCCCEEEccCCCCCCCCchH
Confidence 679999863 444432 234568999999999986643
No 234
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=23.69 E-value=3.6e+02 Score=21.49 Aligned_cols=23 Identities=26% Similarity=0.507 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHhhhhcChHHHHHHHHhc
Q 017446 141 LRVERKAKIDELKERTNYYTTQQLIQRY 168 (371)
Q Consensus 141 L~~qkkk~IeelKe~t~Y~~Tk~LLekY 168 (371)
|-++=.+.|++| |+.++.+=||=
T Consensus 36 Ls~~d~~~L~~L-----~~~a~rm~eRI 58 (75)
T PF06667_consen 36 LSEEDEQRLQEL-----YEQAERMEERI 58 (75)
T ss_pred CCHHHHHHHHHH-----HHHHHHHHHHH
Confidence 344445666666 55555555544
No 235
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=23.41 E-value=37 Score=28.81 Aligned_cols=26 Identities=8% Similarity=0.088 Sum_probs=17.5
Q ss_pred ceeeccccccccCccCCCCCCc---ceeEcCCCCCcC
Q 017446 293 YALICGNCHMHNGESIRKDIPT---LLLLNNEITCTT 326 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~---i~y~C~~C~~~n 326 (371)
-..-|.+|.. +|+. ..+.||.||-.+
T Consensus 69 ~~~~C~~Cg~--------~~~~~~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 69 AECWCETCQQ--------YVTLLTQRVRRCPQCHGDM 97 (114)
T ss_pred cEEEcccCCC--------eeecCCccCCcCcCcCCCC
Confidence 4678999973 3332 236799999654
No 236
>cd09235 V_Alix Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules. This family contains the middle V-shaped (V) domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X) and related domains. It belongs to the V_Alix_like superfamily which includes the V-domains of Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, mammalian His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), is part of the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in membrane remodeling processes, including the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), the abscission reactions of mammalian cell division, and in apoptosis. The Alix V-domain is a dimerization domain, and contains a binding site, partially conserved in the
Probab=23.41 E-value=88 Score=31.37 Aligned_cols=34 Identities=18% Similarity=0.306 Sum_probs=28.8
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhcChHHHHHHHHhc
Q 017446 134 DQKTLERLRVERKAKIDELKERTNYYTTQQLIQRY 168 (371)
Q Consensus 134 ~e~kL~~L~~qkkk~IeelKe~t~Y~~Tk~LLekY 168 (371)
.-++|+.|+.+|...+++||.. +++.+..||.-|
T Consensus 196 ~l~~l~~lk~eR~~~~~~Lk~~-~dDI~~~ll~~~ 229 (339)
T cd09235 196 LMEQVETIKAEREVIESELKSA-TFDMKSKFLSAL 229 (339)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc-ccccHHHHHHHH
Confidence 4468999999999999999887 789999998655
No 237
>PRK07591 threonine synthase; Validated
Probab=23.39 E-value=49 Score=34.15 Aligned_cols=26 Identities=19% Similarity=0.250 Sum_probs=17.6
Q ss_pred ceeeccccccccCccCCCCCCcceeEcCCCCCc
Q 017446 293 YALICGNCHMHNGESIRKDIPTLLLLNNEITCT 325 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i~y~C~~C~~~ 325 (371)
|.|.|..|..- .+. ++. |+||.||-+
T Consensus 17 ~~l~C~~Cg~~----~~~--~~~-~~C~~cg~~ 42 (421)
T PRK07591 17 VALKCRECGAE----YPL--GPI-HVCEECFGP 42 (421)
T ss_pred eEEEeCCCCCc----CCC--CCC-ccCCCCCCe
Confidence 56999999643 111 234 999999754
No 238
>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.
Probab=22.93 E-value=1e+03 Score=25.99 Aligned_cols=29 Identities=14% Similarity=0.101 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHhhhhcChHHHHHHHHhcC
Q 017446 141 LRVERKAKIDELKERTNYYTTQQLIQRYD 169 (371)
Q Consensus 141 L~~qkkk~IeelKe~t~Y~~Tk~LLekYd 169 (371)
+...-.+.++-+..-..|..-....++|+
T Consensus 316 ~~~~~~e~l~g~~~ik~~~~e~~~~~~~~ 344 (694)
T TIGR01846 316 ATSFLVESVTGIETIKATATEPQFQNRWD 344 (694)
T ss_pred HHHHHHHHHhhHHHHHHcccCHHHHHHHH
Confidence 33333333333333333433333444443
No 239
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=22.85 E-value=58 Score=29.36 Aligned_cols=32 Identities=9% Similarity=-0.003 Sum_probs=20.0
Q ss_pred eeccccccccCccCCCC--CC--cce--eEcCCCCCcC
Q 017446 295 LICGNCHMHNGESIRKD--IP--TLL--LLNNEITCTT 326 (371)
Q Consensus 295 LIC~~C~~HNGlA~kee--fe--~i~--y~C~~C~~~n 326 (371)
+.|.+|.+.---|.... -+ .+. |.|+.||+..
T Consensus 1 m~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f 38 (154)
T PRK00464 1 MRCPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRF 38 (154)
T ss_pred CcCCCCCCCCCEeEeccccCCCCceeeeeeccccCCcc
Confidence 47999987553333221 12 243 9999999974
No 240
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=22.80 E-value=3.1e+02 Score=21.81 Aligned_cols=11 Identities=36% Similarity=0.465 Sum_probs=6.6
Q ss_pred hHHHHHHHHHH
Q 017446 134 DQKTLERLRVE 144 (371)
Q Consensus 134 ~e~kL~~L~~q 144 (371)
++++|++|-++
T Consensus 40 d~~~L~~L~~~ 50 (75)
T TIGR02976 40 DQALLQELYAK 50 (75)
T ss_pred HHHHHHHHHHH
Confidence 45567666554
No 241
>TIGR02484 CitB CitB domain protein. CobZ is essential for cobalamin biosynthesis (by knockout of the R. capsulatus gene ) and is complemented by the characterized precorrin 3B synthase CobG. The enzyme has been shown to contain flavin, heme and Fe-S cluster cofactors and is believed to require dioxygen as a substrate. This model identifies the C-terminal domain of the R. capsulatus CobZ, which, in most other species exists as a separate gene adjacent to CobZ.
Probab=22.63 E-value=2.8e+02 Score=28.60 Aligned_cols=21 Identities=19% Similarity=0.273 Sum_probs=17.3
Q ss_pred HHHHhhhhHHHHHHHHHHHHH
Q 017446 64 QTWRRMSRHLIIFTVVFEVIA 84 (371)
Q Consensus 64 ~~~rr~~~~L~~ys~~l~vi~ 84 (371)
...||..+.+++|++++.++.
T Consensus 211 ~~~Rr~~H~l~~yGF~l~f~a 231 (372)
T TIGR02484 211 SHRRRILHHLLAGGFGLTFLS 231 (372)
T ss_pred chHHHHHHHHHHHHHHHHHHH
Confidence 456777899999999998885
No 242
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=22.62 E-value=81 Score=21.53 Aligned_cols=29 Identities=10% Similarity=0.171 Sum_probs=21.5
Q ss_pred eeeccccccccCccCC--CCCCcceeEcCCC
Q 017446 294 ALICGNCHMHNGESIR--KDIPTLLLLNNEI 322 (371)
Q Consensus 294 ALIC~~C~~HNGlA~k--eefe~i~y~C~~C 322 (371)
-+-|..|.+..+...- ...-.-.|+|-.|
T Consensus 5 ~v~CP~C~s~~~v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 5 DVHCPRCQSTEGVKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeeCCCCCCCCcceeCCCCCCCCEeEecCcC
Confidence 4679999998877773 3345678999887
No 243
>COG3924 Predicted membrane protein [Function unknown]
Probab=22.54 E-value=3.6e+02 Score=21.59 Aligned_cols=12 Identities=8% Similarity=-0.064 Sum_probs=6.6
Q ss_pred HHHH-HHHHHhhh
Q 017446 80 FEVI-AVGYAIMT 91 (371)
Q Consensus 80 l~vi-~ivY~~~~ 91 (371)
+|++ +++.+|..
T Consensus 21 lYl~gW~v~AYlp 33 (80)
T COG3924 21 LYLAGWLVAAYLP 33 (80)
T ss_pred HHHHHHHHHHhCC
Confidence 3444 56667653
No 244
>PF14163 SieB: Superinfection exclusion protein B
Probab=22.27 E-value=5.2e+02 Score=22.51 Aligned_cols=10 Identities=20% Similarity=0.345 Sum_probs=4.6
Q ss_pred HHHHHHHHHh
Q 017446 143 VERKAKIDEL 152 (371)
Q Consensus 143 ~qkkk~Ieel 152 (371)
+..+++++.|
T Consensus 70 ~~~~~~l~~L 79 (151)
T PF14163_consen 70 KKIEKKLNSL 79 (151)
T ss_pred HHHHHHHHhC
Confidence 3334445555
No 245
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=22.05 E-value=35 Score=32.66 Aligned_cols=22 Identities=18% Similarity=0.256 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 017446 41 FEKRLQYISKEEAAILARVKRR 62 (371)
Q Consensus 41 fEK~L~~L~~kI~~~~~rL~~~ 62 (371)
.|.+|..++.+|.+.+.+++..
T Consensus 167 ie~~L~~v~~eIe~~~~~~~~l 188 (262)
T PF14257_consen 167 IERELSRVRSEIEQLEGQLKYL 188 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444433
No 246
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=22.03 E-value=3.7e+02 Score=22.81 Aligned_cols=19 Identities=32% Similarity=0.384 Sum_probs=9.1
Q ss_pred hHHHHHHHHHHHHHHHHHh
Q 017446 134 DQKTLERLRVERKAKIDEL 152 (371)
Q Consensus 134 ~e~kL~~L~~qkkk~Ieel 152 (371)
.+++++.|.++...+-.|+
T Consensus 62 ~~~e~~~L~~~~~~l~~ei 80 (117)
T COG2919 62 QQAELEKLSARNTALEAEI 80 (117)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4455555555544443333
No 247
>TIGR00782 ccoP cytochrome c oxidase, cbb3-type, subunit III. This model describes a di-heme subunit of approximately 26 kDa of the cbb3 type copper and heme-containing cytochrome oxidase.
Probab=21.97 E-value=2.7e+02 Score=27.06 Aligned_cols=34 Identities=21% Similarity=0.437 Sum_probs=21.1
Q ss_pred cHHHHHHHHHhcCC------CC--Cc----ceeeccccccccCccC
Q 017446 275 GWIARIAAILVGDD------PS--QS----YALICGNCHMHNGESI 308 (371)
Q Consensus 275 ~w~DRv~D~LvGdd------p~--~r----yALIC~~C~~HNGlA~ 308 (371)
.-++-|++||..-. +. .+ |.--|..||.-+|.-.
T Consensus 180 eeI~aVaaYv~sl~~~~~~~~~~~~~G~~lf~~~Ca~CHG~~G~G~ 225 (285)
T TIGR00782 180 ADIKDVASYVMSLSSGKPKDEALAAKGQELFADNCTTCHGEDGKGL 225 (285)
T ss_pred HHHHHHHHHHHHhccCCccchhHHHHHHHHHhccchhhCCCCCCCC
Confidence 34566777776432 11 11 5456999999998754
No 248
>PHA00476 hypothetical protein
Probab=21.87 E-value=4e+02 Score=22.63 Aligned_cols=31 Identities=19% Similarity=0.199 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHhhhcccccchhhhhhhh
Q 017446 75 IFTVVFEVIAVGYAIMTTRSMELNWKTRALQ 105 (371)
Q Consensus 75 ~ys~~l~vi~ivY~~~~~~~~~~~w~~r~~~ 105 (371)
++-+..|++.+.|+=+...+.+++-..+.++
T Consensus 6 Lf~LLTyvvl~~cAn~lILSlp~sVtSK~ic 36 (110)
T PHA00476 6 LFLLLTYVVLVLCANYLILSLPLSVTSKGIC 36 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence 3445556665555544444344433334443
No 249
>TIGR03844 cysteate_syn cysteate synthase. Members of this family are cysteate synthase, an enzyme of alternate pathway to sulfopyruvate, a precursor of coenzyme M.
Probab=21.85 E-value=53 Score=33.84 Aligned_cols=24 Identities=21% Similarity=0.279 Sum_probs=16.9
Q ss_pred ceeeccccccccCccCCCCCCcceeEcCCCC
Q 017446 293 YALICGNCHMHNGESIRKDIPTLLLLNNEIT 323 (371)
Q Consensus 293 yALIC~~C~~HNGlA~keefe~i~y~C~~C~ 323 (371)
|-|+|.+|... .+++ ..|+|+.|+
T Consensus 1 ~~l~C~~Cg~~----~~~~---~~~~C~~c~ 24 (398)
T TIGR03844 1 YTLRCPGCGEV----LPDH---YTLSCPLDC 24 (398)
T ss_pred CEEEeCCCCCc----cCCc---cccCCCCCC
Confidence 77999999743 2232 358999876
No 250
>PF06703 SPC25: Microsomal signal peptidase 25 kDa subunit (SPC25); InterPro: IPR009582 This family consists of several microsomal signal peptidase 25 kDa subunit proteins. Translocation of polypeptide chains across the endoplasmic reticulum (ER) membrane is triggered by signal sequences. Subsequently, signal recognition particle interacts with its membrane receptor and the ribosome-bound nascent chain is targeted to the ER where it is transferred into a protein-conducting channel. At some point, a second signal sequence recognition event takes place in the membrane and translocation of the nascent chain through the membrane occurs. The signal sequence of most secretory and membrane proteins is cleaved off at this stage. Cleavage occurs by the signal peptidase complex (SPC) as soon as the lumenal domain of the translocating polypeptide is large enough to expose its cleavage site to the enzyme. The signal peptidase complex is possibly also involved in proteolytic events in the ER membrane other than the processing of the signal sequence, for example the further digestion of the cleaved signal peptide or the degradation of membrane proteins. Mammalian signal peptidase is as a complex of five different polypeptide chains [].; GO: 0008233 peptidase activity, 0006465 signal peptide processing, 0005787 signal peptidase complex, 0016021 integral to membrane
Probab=21.77 E-value=2e+02 Score=25.40 Aligned_cols=35 Identities=6% Similarity=0.034 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHH
Q 017446 48 ISKEEAAILARVKRRSQTWRRMSRHLIIFTVVFEVI 83 (371)
Q Consensus 48 L~~kI~~~~~rL~~~~~~~rr~~~~L~~ys~~l~vi 83 (371)
+++-+.+...++ .-.+.++-.-.+|++-.+...++
T Consensus 6 lDD~l~~~l~~~-gy~e~~~l~d~kL~lg~~a~~iA 40 (162)
T PF06703_consen 6 LDDALPEYLTEL-GYKESHTLTDIKLALGYLAVIIA 40 (162)
T ss_pred HHHHHHHHHhhC-CceeEEEEEcHHHHHHHHHHHHH
Confidence 444455555554 34444444445565544443333
No 251
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=21.69 E-value=56 Score=22.12 Aligned_cols=32 Identities=13% Similarity=0.065 Sum_probs=20.2
Q ss_pred eeccccccccCccCCC-CCCcceeEcCCCCCcC
Q 017446 295 LICGNCHMHNGESIRK-DIPTLLLLNNEITCTT 326 (371)
Q Consensus 295 LIC~~C~~HNGlA~ke-efe~i~y~C~~C~~~n 326 (371)
..|.+|...--+.... --.-...+|+.|++..
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 4688887765544421 1235688999998853
No 252
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=21.62 E-value=3.8e+02 Score=21.44 Aligned_cols=9 Identities=33% Similarity=0.431 Sum_probs=3.9
Q ss_pred HHHHHHHHH
Q 017446 138 LERLRVERK 146 (371)
Q Consensus 138 L~~L~~qkk 146 (371)
+++++.+.+
T Consensus 44 l~~l~~~~~ 52 (97)
T PF04999_consen 44 LQQLEKEID 52 (97)
T ss_pred HHHHHHHHH
Confidence 444444433
No 253
>PF14126 DUF4293: Domain of unknown function (DUF4293)
Probab=21.48 E-value=4e+02 Score=23.63 Aligned_cols=9 Identities=33% Similarity=0.401 Sum_probs=5.0
Q ss_pred HhhhhhhHH
Q 017446 128 RMCDRKDQK 136 (371)
Q Consensus 128 ~~~~~~~e~ 136 (371)
++-+++||+
T Consensus 133 ~r~I~kDEk 141 (149)
T PF14126_consen 133 NRAIKKDEK 141 (149)
T ss_pred HHHhHHHHH
Confidence 444666664
No 254
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=21.41 E-value=1.4e+02 Score=25.02 Aligned_cols=22 Identities=23% Similarity=0.507 Sum_probs=13.1
Q ss_pred hhhhhHHHHHHHHHHHHHHHHH
Q 017446 130 CDRKDQKTLERLRVERKAKIDE 151 (371)
Q Consensus 130 ~~~~~e~kL~~L~~qkkk~Iee 151 (371)
+.+....+|++|++++++.++.
T Consensus 66 ~r~~EkEqL~~Lk~kl~~e~~~ 87 (100)
T PF04568_consen 66 FRKKEKEQLKKLKEKLKEEIEH 87 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344556788887776654333
No 255
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=21.37 E-value=8.5e+02 Score=24.54 Aligned_cols=15 Identities=20% Similarity=0.441 Sum_probs=10.5
Q ss_pred hcChHHHHHHHHhcC
Q 017446 155 RTNYYTTQQLIQRYD 169 (371)
Q Consensus 155 ~t~Y~~Tk~LLekYd 169 (371)
+-+|..+.+.+.+-.
T Consensus 97 ~g~~~~A~~~l~~~~ 111 (409)
T TIGR00540 97 EGDYAKAEKLIAKNA 111 (409)
T ss_pred CCCHHHHHHHHHHHh
Confidence 557888888876643
No 256
>PF03907 Spo7: Spo7-like protein; InterPro: IPR005605 Saccharomyces cerevisiae (Baker's yeast) Spo7 P18410 from SWISSPROT is an integral nuclear/ER membrane protein of unknown function, required for normal nuclear envelope morphology and sporulation [].
Probab=21.32 E-value=4.8e+02 Score=24.77 Aligned_cols=26 Identities=15% Similarity=0.181 Sum_probs=12.7
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHhhhc
Q 017446 67 RRMSRHLIIFTVVFEVIAVGYAIMTT 92 (371)
Q Consensus 67 rr~~~~L~~ys~~l~vi~ivY~~~~~ 92 (371)
||.+..+.+..+.+.+++++|..+..
T Consensus 27 rrrkyt~FL~~L~~~i~~~~y~lf~~ 52 (207)
T PF03907_consen 27 RRRKYTFFLSLLCLWIAFFFYALFFR 52 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 33333343434444445667776543
No 257
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=21.13 E-value=58 Score=22.34 Aligned_cols=25 Identities=8% Similarity=-0.020 Sum_probs=16.2
Q ss_pred ccccccccCccCCCCCCcceeEcCCCC
Q 017446 297 CGNCHMHNGESIRKDIPTLLLLNNEIT 323 (371)
Q Consensus 297 C~~C~~HNGlA~keefe~i~y~C~~C~ 323 (371)
|.+|.. -|....--+...++|+.|+
T Consensus 2 CP~C~~--~l~~~~~~~~~id~C~~C~ 26 (41)
T PF13453_consen 2 CPRCGT--ELEPVRLGDVEIDVCPSCG 26 (41)
T ss_pred cCCCCc--ccceEEECCEEEEECCCCC
Confidence 777755 3554433345678899997
No 258
>KOG4050 consensus Glutamate transporter EAAC1-interacting protein GTRAP3-18 [Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=21.07 E-value=4.5e+02 Score=24.22 Aligned_cols=20 Identities=15% Similarity=0.248 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 017446 135 QKTLERLRVERKAKIDELKE 154 (371)
Q Consensus 135 e~kL~~L~~qkkk~IeelKe 154 (371)
.-+|..++.+..-+||.+--
T Consensus 149 SLRLRnikNkleN~iEsigl 168 (188)
T KOG4050|consen 149 SLRLRNIKNKLENKIESIGL 168 (188)
T ss_pred HHHHhhHHHHHHHHHhhcCc
Confidence 45677777777777777633
No 259
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=21.04 E-value=1.5e+02 Score=26.67 Aligned_cols=26 Identities=8% Similarity=0.282 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHh
Q 017446 43 KRLQYISKEEAAILARVKRRSQTWRR 68 (371)
Q Consensus 43 K~L~~L~~kI~~~~~rL~~~~~~~rr 68 (371)
.++..+++|+++..+.+...+.....
T Consensus 73 Rk~~kl~~el~~~~~~~~~~~~~~~~ 98 (161)
T PF04420_consen 73 RKLDKLEEELEKLNKSLSSEKSSFDK 98 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555666666555555544444443
No 260
>PF13038 DUF3899: Domain of unknown function (DUF3899)
Probab=20.93 E-value=54 Score=26.29 Aligned_cols=6 Identities=17% Similarity=0.457 Sum_probs=3.4
Q ss_pred ceeeec
Q 017446 23 KGIISR 28 (371)
Q Consensus 23 ggi~Sr 28 (371)
+|+|..
T Consensus 24 ~GfFd~ 29 (92)
T PF13038_consen 24 SGFFDG 29 (92)
T ss_pred cCchHH
Confidence 566654
No 261
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=20.64 E-value=44 Score=32.18 Aligned_cols=25 Identities=12% Similarity=0.102 Sum_probs=22.6
Q ss_pred eeEcCCCCCcCCcchhhhhhccCCc
Q 017446 316 LLLNNEITCTTPKSIVLFMKCSGLK 340 (371)
Q Consensus 316 ~y~C~~C~~~np~~~~~~~~~~~~~ 340 (371)
.|+|.+||...-.+...+.-|-|..
T Consensus 239 h~YC~fCG~~y~~~edl~ehCPGvn 263 (268)
T KOG1994|consen 239 HYYCFFCGIKYKDEEDLYEHCPGVN 263 (268)
T ss_pred ceEEEEeccccCCHHHHHHhCCCCC
Confidence 4999999999999999999998853
No 262
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=20.63 E-value=1.1e+02 Score=32.07 Aligned_cols=37 Identities=19% Similarity=0.358 Sum_probs=29.1
Q ss_pred cccccCCCcHHHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 017446 32 GIFRLKGDDFEKRLQYISKEEAAILARVKRRSQTWRR 68 (371)
Q Consensus 32 ~~Fr~k~~~fEK~L~~L~~kI~~~~~rL~~~~~~~rr 68 (371)
|++..+.+.+++++..|+++|...+.||+....+.++
T Consensus 402 G~l~~~~~~l~~~i~~l~~~i~~~~~rl~~~e~rl~~ 438 (462)
T PRK08032 402 GIIKTATDGVNKTLKKLTKQYNAVSDSIDATIARYKA 438 (462)
T ss_pred ccchhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444456788999999999999999999888777654
No 263
>KOG2568 consensus Predicted membrane protein [Function unknown]
Probab=20.62 E-value=5.2e+02 Score=27.91 Aligned_cols=32 Identities=22% Similarity=0.328 Sum_probs=15.0
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcc--cccchhhhh
Q 017446 71 RHLIIFTVVFEVIAVGYAIMTTR--SMELNWKTR 102 (371)
Q Consensus 71 ~~L~~ys~~l~vi~ivY~~~~~~--~~~~~w~~r 102 (371)
...+.++++.+++++++..+..+ .....|+.+
T Consensus 385 ~n~l~~~Vvas~~~i~~~~~~~~~~~~~~~Wk~~ 418 (518)
T KOG2568|consen 385 TNTLAFSVVASFAFILVETIFYSIMSCNKDWKER 418 (518)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHh
Confidence 44445566666665544333322 223456543
No 264
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=20.55 E-value=4.6e+02 Score=23.91 Aligned_cols=11 Identities=18% Similarity=0.184 Sum_probs=4.4
Q ss_pred HHHHHHHHhcC
Q 017446 277 IARIAAILVGD 287 (371)
Q Consensus 277 ~DRv~D~LvGd 287 (371)
|++-.|-|+.|
T Consensus 176 f~~~~~~l~~~ 186 (199)
T PF10112_consen 176 FEKDLDKLLED 186 (199)
T ss_pred HHHHHHHHHHh
Confidence 33334444433
No 265
>PF05405 Mt_ATP-synt_B: Mitochondrial ATP synthase B chain precursor (ATP-synt_B); InterPro: IPR008688 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit B from the F0 complex in F-ATPases found in mitochondria of eukaryotes (metazoa, viridiplantae (plants and green algae), jakobidae and the malawimonadidae). The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2WSS_X 2CLY_D.
Probab=20.43 E-value=1.4e+02 Score=26.37 Aligned_cols=39 Identities=28% Similarity=0.228 Sum_probs=22.6
Q ss_pred HHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhhhcCh
Q 017446 120 YSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNY 158 (371)
Q Consensus 120 ~~~~~~f~~~~~~~~e~kL~~L~~qkkk~IeelKe~t~Y 158 (371)
+++-..+..|++.+.++..+.|+.-+...++.+++.-++
T Consensus 32 k~~g~~i~~~ld~~~~~i~~~l~~~~~~~~~~~~~~i~~ 70 (163)
T PF05405_consen 32 KKFGPSIAEWLDERIQKIEDELNQSRNDHIKALKERIEQ 70 (163)
T ss_dssp --------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333345667777777777888888877777777664433
No 266
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=20.23 E-value=52 Score=23.82 Aligned_cols=23 Identities=13% Similarity=-0.002 Sum_probs=12.2
Q ss_pred ccCccCCCCCCcc--eeEcCCCCCc
Q 017446 303 HNGESIRKDIPTL--LLLNNEITCT 325 (371)
Q Consensus 303 HNGlA~keefe~i--~y~C~~C~~~ 325 (371)
.+|.++--.|+.+ .|+||.|+.-
T Consensus 19 ~~~i~pGt~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 19 ENGIPPGTPFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp GGTB-TT--GGGS-TT-B-TTTSSB
T ss_pred ccCcCCCCCHHHCCCCCcCcCCCCc
Confidence 4666665556654 4999999863
No 267
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=20.22 E-value=62 Score=27.55 Aligned_cols=31 Identities=19% Similarity=0.140 Sum_probs=21.5
Q ss_pred ccccccccCccCCCCCCcceeEcCCCCCcCCcc
Q 017446 297 CGNCHMHNGESIRKDIPTLLLLNNEITCTTPKS 329 (371)
Q Consensus 297 C~~C~~HNGlA~keefe~i~y~C~~C~~~np~~ 329 (371)
|..|.+. |.++++-....+.|..||+..++.
T Consensus 5 Cp~Cgsl--l~p~~~~~~~~l~C~kCgye~~~~ 35 (113)
T COG1594 5 CPKCGSL--LYPKKDDEGGKLVCRKCGYEEEAS 35 (113)
T ss_pred cCCccCe--eEEeEcCCCcEEECCCCCcchhcc
Confidence 5566432 555554445599999999998877
No 268
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=20.17 E-value=62 Score=32.44 Aligned_cols=37 Identities=14% Similarity=0.302 Sum_probs=26.9
Q ss_pred cCCCCCcceeeccccccccCccCCCCCCcceeEcCCCCCcCCcchhhh
Q 017446 286 GDDPSQSYALICGNCHMHNGESIRKDIPTLLLLNNEITCTTPKSIVLF 333 (371)
Q Consensus 286 Gddp~~ryALIC~~C~~HNGlA~keefe~i~y~C~~C~~~np~~~~~~ 333 (371)
|++...|| |.|+-|.+ ||.+..-.|++||. ...+.-+
T Consensus 205 ~~~~G~Ry-L~CslC~t--------eW~~~R~~C~~Cg~--~~~l~y~ 241 (309)
T PRK03564 205 GTTQGLRY-LHCNLCES--------EWHVVRVKCSNCEQ--SGKLHYW 241 (309)
T ss_pred cCCCCceE-EEcCCCCC--------cccccCccCCCCCC--CCceeee
Confidence 44444565 89999976 79999999999994 4445443
No 269
>PF13209 DUF4017: Protein of unknown function (DUF4017)
Probab=20.17 E-value=1.5e+02 Score=22.37 Aligned_cols=20 Identities=20% Similarity=0.160 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHhhhcccccc
Q 017446 78 VVFEVIAVGYAIMTTRSMEL 97 (371)
Q Consensus 78 ~~l~vi~ivY~~~~~~~~~~ 97 (371)
+.+|++..+.+++.+.+.|.
T Consensus 8 L~~Y~IVCiiaii~PaSegY 27 (60)
T PF13209_consen 8 LLVYIIVCIIAIILPASEGY 27 (60)
T ss_pred HHHHHHHHHHheeeecccCc
Confidence 44445545555666665554
No 270
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=20.16 E-value=2.3e+02 Score=25.40 Aligned_cols=33 Identities=39% Similarity=0.446 Sum_probs=20.4
Q ss_pred HHHHHhhhhhhHHHHHHHHHHHHHHHHHhhhhc
Q 017446 124 VSFNRMCDRKDQKTLERLRVERKAKIDELKERT 156 (371)
Q Consensus 124 ~~f~~~~~~~~e~kL~~L~~qkkk~IeelKe~t 156 (371)
.+|..+....+.+.|+++-.++.+.+++++++.
T Consensus 30 r~Y~~lm~g~~~~~lE~~l~~~~~~~~~~~~~~ 62 (151)
T PF14584_consen 30 RRYDALMRGKDGKNLEDLLNELFDQIDELKEEL 62 (151)
T ss_pred HHHHHHhCCCCcccHHHHHHHHHHHHHHHHHHH
Confidence 334334334445567887777777888776644
No 271
>KOG2966 consensus Uncharacterized conserved protein [General function prediction only]
Probab=20.10 E-value=3.1e+02 Score=27.67 Aligned_cols=12 Identities=8% Similarity=0.138 Sum_probs=5.3
Q ss_pred CcHHHHHHHHHH
Q 017446 39 DDFEKRLQYISK 50 (371)
Q Consensus 39 ~~fEK~L~~L~~ 50 (371)
+.-+++|..|+.
T Consensus 182 e~~keel~~Le~ 193 (325)
T KOG2966|consen 182 EPRKEELAPLEA 193 (325)
T ss_pred chHHHHHHHHHH
Confidence 334445554443
No 272
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.10 E-value=1.5e+02 Score=28.09 Aligned_cols=18 Identities=22% Similarity=0.357 Sum_probs=11.6
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 017446 134 DQKTLERLRVERKAKIDE 151 (371)
Q Consensus 134 ~e~kL~~L~~qkkk~Iee 151 (371)
+-.++++|+.+-...+|.
T Consensus 124 nId~IedlQDem~Dlmd~ 141 (218)
T KOG1655|consen 124 NIDKIEDLQDEMEDLMDQ 141 (218)
T ss_pred CHHHHHHHHHHHHHHHHH
Confidence 345688887776655554
No 273
>PRK02944 OxaA-like protein precursor; Validated
Probab=20.07 E-value=7.9e+02 Score=23.68 Aligned_cols=40 Identities=20% Similarity=0.273 Sum_probs=20.8
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhh------cChHHHHHHHHhcCCCh
Q 017446 133 KDQKTLERLRVERKAKIDELKER------TNYYTTQQLIQRYDPDP 172 (371)
Q Consensus 133 ~~e~kL~~L~~qkkk~IeelKe~------t~Y~~Tk~LLekYd~~~ 172 (371)
+...++.+++-|.++.-++.|++ .-..++++|-++++-.+
T Consensus 83 ~~~~km~~iqPe~~~iq~kyk~~~~~~~~k~~~e~~~Lyk~~gvnP 128 (255)
T PRK02944 83 KSTKAMQALQPEMQKLKEKYSSKDQATQQKLQQEMMQLFQKNGVNP 128 (255)
T ss_pred HHHHHHHHccHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCc
Confidence 34556666665554444444321 11335566667777554
Done!