Query 014540
Match_columns 423
No_of_seqs 157 out of 242
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 06:08:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014540.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014540hhsearch_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 4.2E-45 9.1E-50 360.3 18.0 259 73-349 17-275 (328)
2 COG5415 Predicted integral mem 100.0 4.6E-38 9.9E-43 292.6 21.9 220 38-334 10-232 (251)
3 PF10058 DUF2296: Predicted in 99.9 7.4E-27 1.6E-31 177.2 4.4 51 276-326 1-54 (54)
4 PF10166 DUF2368: Uncharacteri 93.2 2.3 4.9E-05 38.3 12.4 39 108-151 74-112 (131)
5 COG5415 Predicted integral mem 92.0 2.9 6.3E-05 40.6 12.0 62 22-85 1-62 (251)
6 PF07754 DUF1610: Domain of un 89.2 0.31 6.6E-06 31.5 2.0 18 305-324 7-24 (24)
7 PF04678 DUF607: Protein of un 88.1 10 0.00022 35.5 12.3 16 42-57 63-78 (180)
8 KOG1924 RhoA GTPase effector D 87.8 9 0.00019 43.7 13.2 24 144-169 478-501 (1102)
9 PF00664 ABC_membrane: ABC tra 87.6 6.2 0.00013 35.9 10.4 38 134-171 172-209 (275)
10 PF10864 DUF2663: Protein of u 86.6 19 0.00041 32.5 12.4 29 134-162 84-113 (130)
11 TIGR00416 sms DNA repair prote 84.9 0.52 1.1E-05 50.3 2.0 31 292-330 5-35 (454)
12 PRK11823 DNA repair protein Ra 84.7 0.52 1.1E-05 50.1 1.9 30 293-330 6-35 (446)
13 cd01121 Sms Sms (bacterial rad 84.2 0.55 1.2E-05 48.9 1.8 27 296-330 2-28 (372)
14 PF10122 Mu-like_Com: Mu-like 82.6 0.74 1.6E-05 34.9 1.5 33 295-329 5-37 (51)
15 COG1066 Sms Predicted ATP-depe 77.6 1.9 4.2E-05 45.7 3.1 30 293-330 6-35 (456)
16 PF03604 DNA_RNApol_7kD: DNA d 77.4 1.4 3E-05 30.4 1.3 25 296-325 2-26 (32)
17 smart00661 RPOL9 RNA polymeras 76.7 2.3 5E-05 31.2 2.5 30 296-327 2-31 (52)
18 COG3105 Uncharacterized protei 76.2 9.3 0.0002 34.5 6.5 37 133-171 38-74 (138)
19 PRK00398 rpoP DNA-directed RNA 76.0 1.9 4.1E-05 31.4 1.9 28 294-325 3-30 (46)
20 TIGR02976 phageshock_pspB phag 76.0 4.8 0.00011 32.9 4.4 54 109-169 5-59 (75)
21 PRK11160 cysteine/glutathione 75.2 25 0.00054 38.3 10.9 36 135-170 193-228 (574)
22 PRK11788 tetratricopeptide rep 74.9 3.3 7.1E-05 41.4 3.9 43 275-329 339-381 (389)
23 smart00709 Zpr1 Duplicated dom 74.6 1.5 3.3E-05 40.5 1.3 38 296-334 2-47 (160)
24 smart00659 RPOLCX RNA polymera 74.2 2.1 4.6E-05 31.4 1.7 26 295-325 3-28 (44)
25 PF11023 DUF2614: Protein of u 74.0 2.1 4.6E-05 37.5 1.9 35 284-324 59-93 (114)
26 TIGR02868 CydC thiol reductant 73.9 26 0.00055 37.5 10.5 32 139-170 190-221 (529)
27 PF04810 zf-Sec23_Sec24: Sec23 73.3 1.3 2.9E-05 31.5 0.4 33 295-328 3-36 (40)
28 COG1996 RPC10 DNA-directed RNA 72.5 2 4.4E-05 32.4 1.2 28 293-325 5-33 (49)
29 PF11460 DUF3007: Protein of u 72.0 11 0.00024 32.7 5.8 25 132-156 69-94 (104)
30 TIGR02098 MJ0042_CXXC MJ0042 f 71.0 2.9 6.3E-05 29.0 1.7 31 295-325 3-34 (38)
31 COG2888 Predicted Zn-ribbon RN 70.8 2 4.2E-05 33.7 0.9 10 316-325 50-59 (61)
32 PF08271 TF_Zn_Ribbon: TFIIB z 70.2 1.9 4.1E-05 31.0 0.6 31 296-329 2-32 (43)
33 PRK11677 hypothetical protein; 69.9 16 0.00035 33.0 6.6 37 133-171 33-69 (134)
34 PF13239 2TM: 2TM domain 69.2 39 0.00084 27.4 8.3 16 67-82 13-28 (83)
35 TIGR00310 ZPR1_znf ZPR1 zinc f 67.8 2.7 5.8E-05 40.1 1.3 39 295-334 1-48 (192)
36 PF14952 zf-tcix: Putative tre 66.9 2.8 6E-05 30.9 0.9 14 317-330 12-25 (44)
37 smart00440 ZnF_C2C2 C2C2 Zinc 66.5 5.3 0.00012 28.5 2.3 28 296-324 2-36 (40)
38 PF04341 DUF485: Protein of un 66.4 35 0.00076 28.4 7.6 18 65-82 13-30 (91)
39 PF14803 Nudix_N_2: Nudix N-te 66.4 3.4 7.3E-05 28.8 1.2 29 297-325 3-31 (34)
40 TIGR02203 MsbA_lipidA lipid A 65.4 52 0.0011 35.4 10.7 7 296-302 442-448 (571)
41 KOG1986 Vesicle coat complex C 65.2 4.6 0.0001 45.2 2.6 53 292-347 51-103 (745)
42 PF15086 UPF0542: Uncharacteri 64.2 40 0.00086 27.6 7.1 21 135-155 51-71 (74)
43 PRK14890 putative Zn-ribbon RN 63.2 3.6 7.8E-05 32.2 1.0 11 315-325 47-57 (59)
44 PF01921 tRNA-synt_1f: tRNA sy 63.1 4.8 0.0001 42.0 2.2 49 280-328 157-211 (360)
45 COG3887 Predicted signaling pr 63.1 35 0.00076 38.0 8.7 19 134-152 62-80 (655)
46 PF08792 A2L_zn_ribbon: A2L zi 62.9 5.1 0.00011 27.6 1.6 27 295-325 4-30 (33)
47 PF11781 RRN7: RNA polymerase 62.9 4.1 8.8E-05 28.7 1.1 28 293-325 7-34 (36)
48 TIGR02605 CxxC_CxxC_SSSS putat 61.9 3.5 7.7E-05 30.4 0.7 35 293-329 4-39 (52)
49 TIGR02857 CydD thiol reductant 61.8 81 0.0018 33.7 11.3 32 138-169 179-210 (529)
50 PF05876 Terminase_GpA: Phage 61.0 8.3 0.00018 42.3 3.7 41 288-328 194-241 (557)
51 PF09771 Tmemb_18A: Transmembr 59.7 63 0.0014 29.0 8.3 38 38-79 3-40 (125)
52 PF09972 DUF2207: Predicted me 59.6 65 0.0014 33.6 9.9 14 39-52 362-375 (511)
53 PF06305 DUF1049: Protein of u 58.6 30 0.00066 26.6 5.5 11 134-144 53-63 (68)
54 COG3162 Predicted membrane pro 58.3 74 0.0016 27.6 8.1 13 134-146 85-97 (102)
55 TIGR00467 lysS_arch lysyl-tRNA 57.8 9.2 0.0002 41.7 3.3 36 292-328 166-202 (515)
56 KOG3507 DNA-directed RNA polym 57.5 5.5 0.00012 31.2 1.1 28 293-325 19-46 (62)
57 PF05055 DUF677: Protein of un 57.4 1.5E+02 0.0033 30.7 11.9 15 157-171 258-272 (336)
58 PRK11032 hypothetical protein; 56.8 5.7 0.00012 37.0 1.3 32 294-329 124-155 (160)
59 COG1379 PHP family phosphoeste 56.0 3.5 7.6E-05 42.5 -0.2 46 276-324 215-273 (403)
60 PF01096 TFIIS_C: Transcriptio 55.9 5.8 0.00013 28.1 1.0 29 296-324 2-36 (39)
61 PF08285 DPM3: Dolichol-phosph 55.7 99 0.0021 26.1 8.5 51 102-154 35-86 (91)
62 PRK10789 putative multidrug tr 55.1 1E+02 0.0022 33.5 10.8 32 138-169 172-203 (569)
63 PF07295 DUF1451: Protein of u 53.8 7 0.00015 35.8 1.4 31 295-329 113-143 (146)
64 smart00731 SprT SprT homologue 53.7 11 0.00024 33.8 2.7 32 292-324 110-141 (146)
65 TIGR02230 ATPase_gene1 F0F1-AT 53.6 69 0.0015 27.6 7.3 13 67-79 36-48 (100)
66 PRK01642 cls cardiolipin synth 53.4 64 0.0014 34.7 8.8 18 106-123 38-55 (483)
67 PRK02201 putative inner membra 53.0 1.5E+02 0.0032 31.1 11.0 41 133-173 157-205 (357)
68 PF12597 DUF3767: Protein of u 52.8 1.4E+02 0.0031 26.3 9.4 21 71-91 41-62 (118)
69 PF07282 OrfB_Zn_ribbon: Putat 52.7 10 0.00022 29.4 2.0 30 294-327 28-57 (69)
70 PRK10790 putative multidrug tr 52.0 1.4E+02 0.003 32.5 11.3 32 138-169 200-231 (592)
71 PLN02777 photosystem I P subun 52.0 97 0.0021 29.1 8.4 9 125-133 138-146 (167)
72 smart00531 TFIIE Transcription 51.9 6.1 0.00013 35.7 0.7 36 290-326 95-133 (147)
73 PRK11174 cysteine/glutathione 51.5 1.4E+02 0.0031 32.4 11.2 30 139-168 199-228 (588)
74 TIGR01053 LSD1 zinc finger dom 51.3 12 0.00026 25.6 1.8 29 295-327 2-30 (31)
75 TIGR00340 zpr1_rel ZPR1-relate 51.0 9.1 0.0002 35.6 1.7 38 297-335 1-47 (163)
76 PRK04136 rpl40e 50S ribosomal 50.6 12 0.00025 28.3 1.8 31 294-332 14-44 (48)
77 KOG2691 RNA polymerase II subu 50.3 11 0.00024 32.9 2.0 42 284-325 61-110 (113)
78 CHL00118 atpG ATP synthase CF0 50.0 94 0.002 28.1 8.2 8 114-121 34-41 (156)
79 COG5416 Uncharacterized integr 49.7 66 0.0014 27.7 6.4 25 70-94 23-47 (98)
80 PF03367 zf-ZPR1: ZPR1 zinc-fi 49.4 3.2 7E-05 38.4 -1.5 38 296-334 3-48 (161)
81 TIGR01192 chvA glucan exporter 49.4 1.6E+02 0.0035 32.2 11.3 8 280-287 377-384 (585)
82 PF15188 CCDC-167: Coiled-coil 49.4 46 0.001 27.9 5.4 29 39-67 39-67 (85)
83 COG1592 Rubrerythrin [Energy p 49.4 20 0.00044 33.6 3.7 38 276-325 121-158 (166)
84 PRK11176 lipid transporter ATP 49.2 1.5E+02 0.0032 32.1 10.9 8 280-287 385-392 (582)
85 PF01956 DUF106: Integral memb 49.0 53 0.0011 30.0 6.4 33 136-168 43-75 (168)
86 PF07332 DUF1469: Protein of u 48.5 1.7E+02 0.0037 24.9 11.2 19 136-154 102-120 (121)
87 PF10779 XhlA: Haemolysin XhlA 48.5 76 0.0016 25.2 6.4 24 42-65 26-49 (71)
88 TIGR02204 MsbA_rel ABC transpo 48.4 1.4E+02 0.003 32.3 10.5 7 281-287 383-389 (576)
89 PF03268 DUF267: Caenorhabditi 48.3 1.6E+02 0.0035 30.8 10.3 8 163-170 205-212 (353)
90 TIGR01562 FdhE formate dehydro 47.7 13 0.00028 38.0 2.3 36 280-324 195-232 (305)
91 COG0375 HybF Zn finger protein 47.6 11 0.00023 33.4 1.5 33 294-332 70-102 (115)
92 PRK11380 hypothetical protein; 47.4 76 0.0016 33.1 7.7 35 274-309 224-266 (353)
93 PF14992 TMCO5: TMCO5 family 47.3 48 0.001 33.6 6.2 35 63-98 211-245 (280)
94 PF08274 PhnA_Zn_Ribbon: PhnA 47.0 7 0.00015 26.6 0.2 23 297-324 5-27 (30)
95 PRK10522 multidrug transporter 46.5 2.3E+02 0.005 30.6 11.8 9 280-288 365-373 (547)
96 PRK02654 putative inner membra 46.4 1.3E+02 0.0028 31.7 9.2 38 134-172 52-95 (375)
97 KOG3976 Mitochondrial F1F0-ATP 46.4 1.1E+02 0.0024 30.5 8.3 47 119-165 112-158 (247)
98 PRK02935 hypothetical protein; 46.3 16 0.00035 31.9 2.3 8 296-303 72-79 (110)
99 PF13248 zf-ribbon_3: zinc-rib 46.2 8.6 0.00019 24.8 0.5 23 294-324 2-24 (26)
100 KOG1726 HVA22/DP1 gene product 46.1 1.2E+02 0.0026 29.9 8.5 31 137-168 92-122 (225)
101 PHA00626 hypothetical protein 45.5 15 0.00032 28.6 1.8 31 295-328 1-35 (59)
102 PF00957 Synaptobrevin: Synapt 45.4 1.3E+02 0.0028 24.4 7.6 7 45-51 33-39 (89)
103 PF09779 Ima1_N: Ima1 N-termin 45.1 24 0.00052 31.5 3.4 36 296-333 2-37 (131)
104 PF06295 DUF1043: Protein of u 45.1 68 0.0015 28.5 6.2 34 135-170 31-64 (128)
105 KOG2703 C4-type Zn-finger prot 44.7 12 0.00025 39.7 1.5 41 295-336 40-88 (460)
106 TIGR00845 caca sodium/calcium 44.5 6.2 0.00013 45.8 -0.6 28 106-133 233-262 (928)
107 TIGR03797 NHPM_micro_ABC2 NHPM 43.9 1.3E+02 0.0029 33.4 9.7 8 280-287 495-502 (686)
108 KOG1924 RhoA GTPase effector D 43.9 2.5E+02 0.0055 32.7 11.5 26 146-171 461-486 (1102)
109 COG1132 MdlB ABC-type multidru 43.5 2.9E+02 0.0063 29.9 12.1 58 112-170 162-219 (567)
110 PRK04351 hypothetical protein; 43.5 15 0.00033 33.6 1.9 32 291-324 109-140 (149)
111 TIGR01842 type_I_sec_PrtD type 43.4 2.6E+02 0.0055 30.2 11.5 8 280-287 360-367 (544)
112 PF06103 DUF948: Bacterial pro 43.3 1.5E+02 0.0033 24.1 7.7 36 133-170 30-65 (90)
113 COG1552 RPL40A Ribosomal prote 43.0 7 0.00015 29.5 -0.3 31 295-333 15-45 (50)
114 KOG2302 T-type voltage-gated C 42.8 1.2E+02 0.0026 36.2 9.0 35 132-167 1402-1436(1956)
115 smart00547 ZnF_RBZ Zinc finger 42.7 10 0.00022 24.0 0.5 15 316-330 2-16 (26)
116 PF01616 Orbi_NS3: Orbivirus N 42.6 3.2E+02 0.007 26.4 11.5 24 133-163 154-177 (195)
117 PRK13657 cyclic beta-1,2-gluca 42.5 2.9E+02 0.0062 30.1 11.8 8 280-287 377-384 (588)
118 PF04210 MtrG: Tetrahydrometha 42.4 1.4E+02 0.003 24.3 6.8 44 38-83 11-58 (70)
119 PRK07111 anaerobic ribonucleos 42.2 10 0.00022 43.1 0.7 43 273-324 655-701 (735)
120 COG1422 Predicted membrane pro 42.2 1E+02 0.0022 29.9 7.2 34 134-167 70-106 (201)
121 PF12760 Zn_Tnp_IS1595: Transp 41.9 27 0.00058 25.4 2.6 39 277-324 7-45 (46)
122 COG1326 Uncharacterized archae 41.7 15 0.00032 35.4 1.5 36 293-330 5-44 (201)
123 KOG4544 Uncharacterized conser 41.3 2.8E+02 0.0062 25.4 9.5 18 134-151 98-115 (144)
124 PF15361 RIC3: Resistance to i 41.2 40 0.00087 31.0 4.3 14 135-148 130-143 (152)
125 PRK01315 putative inner membra 41.0 2.4E+02 0.0052 29.2 10.3 39 135-173 68-108 (329)
126 PRK10747 putative protoheme IX 40.7 2.2E+02 0.0047 29.5 10.1 16 155-170 97-112 (398)
127 PLN00162 transport protein sec 40.4 16 0.00035 41.7 1.9 36 294-330 53-89 (761)
128 PRK00750 lysK lysyl-tRNA synth 40.2 32 0.00068 37.5 4.0 54 274-328 152-211 (510)
129 COG2274 SunT ABC-type bacterio 40.1 2.1E+02 0.0045 32.7 10.4 20 23-42 227-246 (709)
130 PRK10755 sensor protein BasS/P 40.0 1.2E+02 0.0027 30.0 8.0 16 272-287 243-258 (356)
131 TIGR01194 cyc_pep_trnsptr cycl 39.7 5E+02 0.011 28.2 13.1 23 137-159 186-208 (555)
132 TIGR01846 type_I_sec_HlyB type 39.7 1.9E+02 0.0041 32.3 10.1 8 280-287 499-506 (694)
133 COG4420 Predicted membrane pro 39.6 2.2E+02 0.0047 27.4 8.9 47 106-153 86-132 (191)
134 TIGR01384 TFS_arch transcripti 39.5 20 0.00043 30.2 1.9 33 292-325 60-99 (104)
135 cd00674 LysRS_core_class_I cat 39.3 25 0.00055 36.6 3.0 52 273-327 145-203 (353)
136 PF06667 PspB: Phage shock pro 39.3 53 0.0011 26.9 4.2 11 134-144 40-50 (75)
137 PTZ00265 multidrug resistance 39.2 2.1E+02 0.0045 35.4 10.9 32 138-169 232-263 (1466)
138 PRK03954 ribonuclease P protei 39.2 17 0.00037 32.4 1.4 32 295-326 65-103 (121)
139 COG3091 SprT Zn-dependent meta 39.1 19 0.00041 33.4 1.8 31 291-324 114-148 (156)
140 PRK15103 paraquat-inducible me 39.0 22 0.00047 37.8 2.5 33 295-329 11-43 (419)
141 COG1422 Predicted membrane pro 38.7 1.5E+02 0.0033 28.7 7.8 11 134-144 77-87 (201)
142 TIGR00540 hemY_coli hemY prote 38.5 3E+02 0.0065 28.5 10.8 15 155-169 97-111 (409)
143 PF13937 DUF4212: Domain of un 38.4 1.6E+02 0.0036 24.3 7.0 8 62-69 3-10 (81)
144 TIGR00155 pqiA_fam integral me 38.4 24 0.00053 37.3 2.7 33 295-329 14-46 (403)
145 PRK09609 hypothetical protein; 37.6 2.1E+02 0.0046 29.5 9.2 35 111-145 92-128 (312)
146 TIGR01031 rpmF_bact ribosomal 37.5 23 0.0005 27.2 1.7 26 295-329 27-52 (55)
147 PF13038 DUF3899: Domain of un 37.2 26 0.00057 28.9 2.2 7 22-28 23-29 (92)
148 PRK09458 pspB phage shock prot 37.0 44 0.00096 27.4 3.4 15 109-123 5-19 (75)
149 TIGR03375 type_I_sec_LssB type 36.8 3E+02 0.0065 30.7 11.1 8 280-287 507-514 (694)
150 PRK12380 hydrogenase nickel in 36.8 15 0.00033 31.9 0.7 31 293-329 69-99 (113)
151 PF14981 FAM165: FAM165 family 36.7 1.1E+02 0.0025 23.0 5.1 17 131-147 32-48 (51)
152 PF10779 XhlA: Haemolysin XhlA 36.4 2.1E+02 0.0045 22.7 7.2 9 58-66 35-43 (71)
153 KOG2662 Magnesium transporters 36.1 2.3E+02 0.005 30.3 9.3 27 60-86 339-365 (414)
154 PRK00888 ftsB cell division pr 36.1 1.4E+02 0.003 25.7 6.6 8 146-153 54-61 (105)
155 TIGR00954 3a01203 Peroxysomal 35.7 1.9E+02 0.0041 32.3 9.3 57 112-169 249-305 (659)
156 PRK03449 putative inner membra 35.7 3.4E+02 0.0073 27.8 10.3 15 159-173 84-98 (304)
157 KOG1557 Fructose-biphosphate a 35.5 10 0.00023 38.7 -0.5 19 291-313 171-189 (363)
158 PF12773 DZR: Double zinc ribb 35.4 19 0.00041 26.2 1.0 30 294-328 12-41 (50)
159 PRK12495 hypothetical protein; 35.4 2E+02 0.0044 28.3 8.2 49 273-329 23-71 (226)
160 TIGR01294 P_lamban phospholamb 35.3 1.8E+02 0.0039 21.8 6.0 45 45-89 4-48 (52)
161 PF12729 4HB_MCP_1: Four helix 35.3 2.9E+02 0.0062 23.6 9.8 35 136-170 82-116 (181)
162 COG1579 Zn-ribbon protein, pos 35.0 15 0.00033 36.3 0.5 27 295-325 198-230 (239)
163 PF13717 zinc_ribbon_4: zinc-r 34.9 27 0.00058 24.4 1.6 31 295-325 3-34 (36)
164 PRK00564 hypA hydrogenase nick 34.8 21 0.00046 31.2 1.3 33 293-330 70-102 (117)
165 PF08772 NOB1_Zn_bind: Nin one 34.8 16 0.00034 29.8 0.5 27 291-324 6-32 (73)
166 COG5056 ARE1 Acyl-CoA choleste 34.6 2.9E+02 0.0062 30.0 9.7 24 145-168 230-253 (512)
167 TIGR00100 hypA hydrogenase nic 34.6 20 0.00043 31.3 1.1 31 293-329 69-99 (115)
168 PF03907 Spo7: Spo7-like prote 34.6 1.3E+02 0.0027 29.4 6.6 14 78-91 38-51 (207)
169 PF04272 Phospholamban: Phosph 34.4 1.4E+02 0.003 22.4 5.3 28 62-89 21-48 (52)
170 PF13719 zinc_ribbon_5: zinc-r 34.4 25 0.00055 24.5 1.4 31 295-325 3-34 (37)
171 TIGR03796 NHPM_micro_ABC1 NHPM 34.3 3.5E+02 0.0076 30.2 11.2 8 280-287 521-528 (710)
172 PRK06266 transcription initiat 34.3 10 0.00022 35.7 -0.8 33 291-326 114-146 (178)
173 KOG0055 Multidrug/pheromone ex 34.2 5.4E+02 0.012 31.5 12.9 64 107-171 813-876 (1228)
174 PF00641 zf-RanBP: Zn-finger i 34.1 14 0.00031 24.3 0.1 16 315-330 3-18 (30)
175 KOG2846 Predicted membrane pro 34.1 3.2E+02 0.0069 28.5 9.7 119 45-167 24-143 (328)
176 PF07295 DUF1451: Protein of u 33.9 21 0.00046 32.7 1.2 27 301-327 96-123 (146)
177 PRK00423 tfb transcription ini 33.7 21 0.00047 36.1 1.4 35 294-331 11-45 (310)
178 PF03811 Zn_Tnp_IS1: InsA N-te 33.6 46 0.00099 23.4 2.6 31 293-323 4-36 (36)
179 PRK00432 30S ribosomal protein 33.0 30 0.00066 26.0 1.8 28 293-325 19-46 (50)
180 COG0675 Transposase and inacti 32.7 26 0.00056 34.2 1.7 24 295-327 310-333 (364)
181 PRK03824 hypA hydrogenase nick 32.7 46 0.00099 29.9 3.2 54 275-328 42-119 (135)
182 PRK03681 hypA hydrogenase nick 32.5 24 0.00051 30.8 1.3 32 293-329 69-100 (114)
183 PF13453 zf-TFIIB: Transcripti 32.3 31 0.00066 24.4 1.6 26 297-324 2-27 (41)
184 PF05605 zf-Di19: Drought indu 32.3 18 0.00039 27.0 0.4 12 316-328 2-13 (54)
185 PF01020 Ribosomal_L40e: Ribos 32.2 23 0.00051 27.1 1.0 26 294-327 17-44 (52)
186 PF14255 Cys_rich_CPXG: Cystei 32.1 17 0.00037 27.7 0.3 11 317-327 1-11 (52)
187 COG1405 SUA7 Transcription ini 31.9 26 0.00056 35.5 1.6 32 295-329 2-33 (285)
188 PRK09263 anaerobic ribonucleos 31.8 28 0.00061 39.5 2.1 47 275-326 619-669 (711)
189 PF03904 DUF334: Domain of unk 31.5 5.3E+02 0.011 25.6 10.7 7 73-79 149-155 (230)
190 PF07243 Phlebovirus_G1: Phleb 31.5 2E+02 0.0043 31.7 8.2 9 103-111 446-454 (526)
191 PRK13428 F0F1 ATP synthase sub 31.4 3.4E+02 0.0074 29.0 10.0 19 136-154 60-78 (445)
192 PRK01026 tetrahydromethanopter 31.3 2.2E+02 0.0049 23.5 6.6 44 38-83 14-61 (77)
193 smart00834 CxxC_CXXC_SSSS Puta 31.1 24 0.00052 24.3 0.9 30 293-324 4-34 (41)
194 PF13974 YebO: YebO-like prote 30.9 1.7E+02 0.0038 24.3 6.0 13 138-150 32-44 (80)
195 PF07431 DUF1512: Protein of u 30.8 1.9E+02 0.0041 30.4 7.6 33 136-168 36-68 (355)
196 PF14257 DUF4349: Domain of un 30.8 15 0.00032 36.0 -0.3 33 38-71 158-190 (262)
197 TIGR02209 ftsL_broad cell divi 30.4 2.8E+02 0.006 22.0 8.3 26 135-160 37-62 (85)
198 PHA02998 RNA polymerase subuni 30.3 33 0.00072 32.7 1.9 33 293-325 142-180 (195)
199 TIGR01149 mtrG N5-methyltetrah 30.3 2.8E+02 0.006 22.6 6.8 44 38-83 11-58 (70)
200 PF12794 MscS_TM: Mechanosensi 30.3 4.4E+02 0.0094 27.1 10.2 17 136-152 258-274 (340)
201 PF06305 DUF1049: Protein of u 30.2 2E+02 0.0044 21.9 6.1 11 136-146 48-58 (68)
202 PF10716 NdhL: NADH dehydrogen 29.9 64 0.0014 26.9 3.3 34 84-117 34-68 (81)
203 PF02150 RNA_POL_M_15KD: RNA p 29.9 19 0.00041 25.0 0.2 29 297-328 4-32 (35)
204 PF08882 Acetone_carb_G: Aceto 29.9 36 0.00078 30.0 1.9 24 304-327 61-85 (112)
205 PRK10220 hypothetical protein; 29.9 35 0.00076 30.0 1.9 29 296-329 5-34 (111)
206 PF11457 DUF3021: Protein of u 29.7 3E+02 0.0065 23.9 7.8 7 137-143 128-134 (136)
207 PRK08351 DNA-directed RNA poly 29.4 27 0.00059 27.5 1.0 21 296-326 5-25 (61)
208 PF04420 CHD5: CHD5-like prote 29.2 80 0.0017 29.0 4.2 20 44-63 74-93 (161)
209 PHA00476 hypothetical protein 29.2 1.2E+02 0.0026 26.4 4.9 31 75-105 6-36 (110)
210 PRK06771 hypothetical protein; 29.1 1.9E+02 0.0041 24.7 6.1 20 133-152 27-46 (93)
211 PF14353 CpXC: CpXC protein 29.0 34 0.00073 29.8 1.7 17 311-327 33-49 (128)
212 TIGR00686 phnA alkylphosphonat 28.9 31 0.00067 30.2 1.4 28 296-328 4-32 (109)
213 TIGR00373 conserved hypothetic 28.6 14 0.0003 34.0 -0.9 33 291-326 106-138 (158)
214 PF03904 DUF334: Domain of unk 28.6 5.3E+02 0.011 25.6 9.8 6 125-130 219-224 (230)
215 KOG3850 Predicted membrane pro 28.6 3.5E+02 0.0076 28.9 9.1 48 40-89 350-406 (455)
216 TIGR02896 spore_III_AF stage I 28.5 3.9E+02 0.0085 23.1 8.5 14 66-79 3-16 (106)
217 COG2023 RPR2 RNase P subunit R 28.4 31 0.00068 30.0 1.3 30 295-325 57-91 (105)
218 PRK01622 OxaA-like protein pre 28.3 5.7E+02 0.012 25.2 10.4 39 135-173 90-135 (256)
219 PRK06260 threonine synthase; V 27.9 34 0.00075 35.6 1.8 27 293-325 2-28 (397)
220 PF11902 DUF3422: Protein of u 27.8 3.3E+02 0.0072 29.2 9.1 16 39-54 308-323 (420)
221 PRK02944 OxaA-like protein pre 27.6 4.8E+02 0.01 25.8 9.7 40 133-172 83-128 (255)
222 PF00957 Synaptobrevin: Synapt 27.6 3E+02 0.0066 22.2 7.0 24 39-63 31-54 (89)
223 PRK06393 rpoE DNA-directed RNA 27.6 29 0.00063 27.6 0.9 22 294-325 5-26 (64)
224 TIGR03592 yidC_oxa1_cterm memb 27.5 2.4E+02 0.0052 26.2 7.2 39 134-172 27-67 (181)
225 PHA02942 putative transposase; 27.5 43 0.00093 35.1 2.4 31 293-328 324-354 (383)
226 TIGR01271 CFTR_protein cystic 27.4 4E+02 0.0086 33.0 10.8 9 274-282 515-523 (1490)
227 COG5038 Ca2+-dependent lipid-b 27.3 3.2E+02 0.007 33.0 9.4 41 127-170 192-235 (1227)
228 KOG4298 CAP-binding protein co 27.2 5.9E+02 0.013 24.8 9.8 11 109-119 187-197 (245)
229 KOG2568 Predicted membrane pro 27.2 3E+02 0.0065 30.4 8.7 50 53-102 363-418 (518)
230 KOG3012 Uncharacterized conser 27.0 5.4E+02 0.012 25.7 9.5 66 28-93 33-105 (259)
231 PRK08270 anaerobic ribonucleos 27.0 28 0.00061 39.2 1.0 42 273-323 600-646 (656)
232 TIGR00782 ccoP cytochrome c ox 26.8 1.9E+02 0.0042 28.7 6.8 16 273-288 178-193 (285)
233 PRK12705 hypothetical protein; 26.8 2E+02 0.0044 31.6 7.4 7 146-152 94-100 (508)
234 PRK00420 hypothetical protein; 26.7 49 0.0011 29.1 2.2 47 274-327 5-51 (112)
235 PRK15033 tricarballylate utili 26.7 2.9E+02 0.0063 29.4 8.3 21 64-84 231-251 (389)
236 PRK00247 putative inner membra 26.7 5.8E+02 0.013 27.5 10.6 60 113-173 37-103 (429)
237 COG1384 LysS Lysyl-tRNA synthe 26.6 58 0.0013 35.7 3.2 35 292-327 169-205 (521)
238 PF13894 zf-C2H2_4: C2H2-type 26.6 34 0.00073 20.1 0.9 11 317-327 1-11 (24)
239 PRK12452 cardiolipin synthetas 26.3 3.4E+02 0.0075 29.5 9.1 19 105-123 61-79 (509)
240 PF07271 Cytadhesin_P30: Cytad 26.1 4.9E+02 0.011 26.4 9.3 31 133-163 97-127 (279)
241 PF14257 DUF4349: Domain of un 25.9 2.5E+02 0.0054 27.4 7.3 25 40-64 166-190 (262)
242 COG4416 Com Mu-like prophage p 25.9 20 0.00043 27.8 -0.3 37 295-334 5-42 (60)
243 PF13597 NRDD: Anaerobic ribon 25.8 36 0.00079 37.4 1.6 25 293-326 490-514 (546)
244 PF14126 DUF4293: Domain of un 25.8 3.3E+02 0.0073 24.8 7.6 10 127-136 132-141 (149)
245 PF04341 DUF485: Protein of un 25.6 3.9E+02 0.0084 22.1 7.4 7 137-143 80-86 (91)
246 PF04032 Rpr2: RNAse P Rpr2/Rp 25.2 32 0.00068 27.6 0.7 31 294-324 46-85 (85)
247 CHL00104 rpl33 ribosomal prote 25.0 50 0.0011 26.4 1.8 13 293-305 11-23 (66)
248 KOG3064 RNA-binding nuclear pr 24.8 1.3E+02 0.0029 30.4 5.0 27 24-52 71-97 (303)
249 PRK12286 rpmF 50S ribosomal pr 24.8 68 0.0015 24.8 2.4 26 295-329 28-53 (57)
250 PF06695 Sm_multidrug_ex: Puta 24.7 2.6E+02 0.0057 24.5 6.5 10 160-169 64-73 (121)
251 COG1096 Predicted RNA-binding 24.6 49 0.0011 31.7 2.0 30 295-330 150-179 (188)
252 KOG1307 K+-dependent Ca2+/Na+ 24.4 53 0.0012 35.8 2.4 18 151-168 229-246 (588)
253 PF11672 DUF3268: Protein of u 24.3 53 0.0011 28.4 1.9 36 294-330 2-45 (102)
254 PF01277 Oleosin: Oleosin; In 24.1 2.6E+02 0.0056 24.9 6.3 34 123-156 75-111 (118)
255 PF10267 Tmemb_cc2: Predicted 23.9 3.5E+02 0.0076 28.8 8.3 17 40-56 302-318 (395)
256 PRK01110 rpmF 50S ribosomal pr 23.9 43 0.00094 26.1 1.2 26 295-330 28-53 (60)
257 PF04999 FtsL: Cell division p 23.7 3.3E+02 0.0071 22.4 6.6 10 136-145 49-58 (97)
258 PRK00145 putative inner membra 23.7 6.7E+02 0.015 24.2 10.3 40 133-172 55-96 (223)
259 PF04568 IATP: Mitochondrial A 23.5 1.3E+02 0.0028 26.0 4.1 23 130-152 66-88 (100)
260 PF10263 SprT-like: SprT-like 23.4 46 0.001 29.5 1.5 32 291-324 120-151 (157)
261 PF13240 zinc_ribbon_2: zinc-r 23.4 41 0.00089 21.3 0.8 12 318-329 1-12 (23)
262 PF01544 CorA: CorA-like Mg2+ 23.0 2.5E+02 0.0054 26.9 6.7 13 68-80 232-244 (292)
263 PF02173 pKID: pKID domain; I 22.9 45 0.00097 24.4 1.0 33 13-54 3-35 (41)
264 cd00729 rubredoxin_SM Rubredox 22.9 49 0.0011 22.8 1.2 10 316-325 2-11 (34)
265 PF14163 SieB: Superinfection 22.8 4.3E+02 0.0094 23.6 7.7 8 145-152 72-79 (151)
266 COG1867 TRM1 N2,N2-dimethylgua 22.6 48 0.001 35.0 1.6 26 292-323 238-264 (380)
267 PF09723 Zn-ribbon_8: Zinc rib 22.5 41 0.00088 24.1 0.8 31 293-325 4-35 (42)
268 COG0598 CorA Mg2+ and Co2+ tra 22.4 4.4E+02 0.0096 26.6 8.5 25 65-89 257-281 (322)
269 KOG1597 Transcription initiati 22.3 54 0.0012 33.5 1.8 38 295-333 1-38 (308)
270 PF00096 zf-C2H2: Zinc finger, 22.2 45 0.00097 20.0 0.8 9 317-325 1-9 (23)
271 PF04977 DivIC: Septum formati 22.0 1.7E+02 0.0037 22.7 4.4 10 136-145 31-40 (80)
272 PF01529 zf-DHHC: DHHC palmito 22.0 2E+02 0.0044 25.6 5.5 10 133-142 163-172 (174)
273 PRK13922 rod shape-determining 21.9 5.2E+02 0.011 25.3 8.7 6 160-165 104-109 (276)
274 PRK14559 putative protein seri 21.9 55 0.0012 36.9 2.0 12 318-329 29-40 (645)
275 cd01675 RNR_III Class III ribo 21.9 41 0.00088 37.0 1.0 46 273-326 493-542 (555)
276 PF06703 SPC25: Microsomal sig 21.8 1.7E+02 0.0036 26.6 4.9 31 47-78 5-35 (162)
277 TIGR00383 corA magnesium Mg(2+ 21.7 6.1E+02 0.013 25.1 9.3 26 64-89 252-277 (318)
278 cd09235 V_Alix Middle V-domain 21.3 1E+02 0.0022 31.6 3.7 33 135-168 197-229 (339)
279 KOG0860 Synaptobrevin/VAMP-lik 21.3 4E+02 0.0086 23.7 6.8 8 39-46 47-54 (116)
280 TIGR01385 TFSII transcription 21.3 61 0.0013 33.0 2.1 32 293-324 257-294 (299)
281 PF08946 Osmo_CC: Osmosensory 21.3 1.9E+02 0.0042 21.6 4.1 21 38-58 14-34 (46)
282 PF06667 PspB: Phage shock pro 21.3 3.1E+02 0.0067 22.5 5.7 26 139-169 34-59 (75)
283 PRK13454 F0F1 ATP synthase sub 21.3 3.8E+02 0.0082 25.0 7.2 20 135-154 89-108 (181)
284 KOG2296 Integral membrane prot 21.2 7.7E+02 0.017 28.0 10.4 15 157-171 232-246 (673)
285 PF01783 Ribosomal_L32p: Ribos 21.2 42 0.00091 25.6 0.7 27 294-329 26-52 (56)
286 PF01155 HypA: Hydrogenase exp 21.1 26 0.00056 30.4 -0.6 47 275-327 42-97 (113)
287 PRK00762 hypA hydrogenase nick 21.1 49 0.0011 29.2 1.2 36 293-330 69-106 (124)
288 PRK07591 threonine synthase; V 21.1 54 0.0012 34.6 1.7 26 293-325 17-42 (421)
289 COG2919 Septum formation initi 21.1 3.1E+02 0.0066 23.9 6.2 20 133-152 61-80 (117)
290 COG3924 Predicted membrane pro 21.0 3.4E+02 0.0073 22.4 5.8 13 79-91 20-33 (80)
291 PF11471 Sugarporin_N: Maltopo 21.0 2.1E+02 0.0047 22.3 4.6 31 37-67 26-56 (60)
292 PF09986 DUF2225: Uncharacteri 20.9 53 0.0011 31.6 1.4 16 314-329 46-61 (214)
293 PRK06231 F0F1 ATP synthase sub 20.9 6.6E+02 0.014 23.9 8.9 90 71-160 7-107 (205)
294 COG5047 SEC23 Vesicle coat com 20.6 1.2E+02 0.0025 34.1 4.0 37 294-330 53-90 (755)
295 TIGR03844 cysteate_syn cysteat 20.6 52 0.0011 34.6 1.4 24 293-323 1-24 (398)
296 KOG2463 Predicted RNA-binding 20.6 44 0.00095 34.7 0.8 28 291-325 239-266 (376)
297 KOG4253 Tryptophan-rich basic 20.6 4.8E+02 0.01 24.6 7.4 12 77-88 105-116 (175)
298 PF11812 DUF3333: Domain of un 20.5 1.3E+02 0.0027 27.9 3.8 14 56-69 2-15 (155)
299 TIGR01144 ATP_synt_b ATP synth 20.4 3.4E+02 0.0074 23.9 6.5 21 134-154 52-72 (147)
300 PF11286 DUF3087: Protein of u 20.4 6.5E+02 0.014 23.7 8.4 9 136-144 94-102 (165)
301 PF12172 DUF35_N: Rubredoxin-l 20.2 48 0.001 22.8 0.7 9 317-325 26-34 (37)
302 PF07195 FliD_C: Flagellar hoo 20.2 1.4E+02 0.0031 28.9 4.3 35 34-68 191-225 (239)
303 TIGR00219 mreC rod shape-deter 20.2 4.3E+02 0.0093 26.5 7.8 9 109-117 42-50 (283)
304 KOG4050 Glutamate transporter 20.0 3.5E+02 0.0077 25.6 6.5 33 135-169 149-181 (188)
No 1
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=100.00 E-value=4.2e-45 Score=360.34 Aligned_cols=259 Identities=31% Similarity=0.432 Sum_probs=185.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcccccchhhhhhhcccchhhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 014540 73 LIIFTVVFEVIAVGYAIMTTRSMELNWKTRALQVLPIFLLPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDEL 152 (423)
Q Consensus 73 Li~YS~il~ii~lvY~~~~~~~~~~~w~~r~~~~lp~~l~Pili~li~~~~~~f~r~~~~~~e~kL~~L~~e~kkkIeel 152 (423)
++.|++.+++ |.|.++.+...+..|....++++|+++||+|++++++++.+|+.+.+++++.+|.+|++++.++++++
T Consensus 17 ~~~y~~~~~~--~~~~i~~~~~~~~~~q~~~~~~~p~l~~~~I~~~~~~~~~~y~~~~~~r~~~~lt~L~s~~~~ll~~v 94 (328)
T KOG2846|consen 17 VTKYTSDLYI--FTSQIHQLDYAPEKSQSILSQWQPNLGFPGIILTVRRLSYTYFEYRLNRNTLKLTRLKSQKSKLLELV 94 (328)
T ss_pred eeehhHHHHH--HHHHHHhhhccCchhHHHHHHHHHHhcchHHHHHHHHHHHhhhheecccchHHHHHHHHHHHHHHHHH
Confidence 3344554433 34555555556778999999999999999999999999999999999999999999999999999999
Q ss_pred hhccChHHHHHHHHhcCCChhHHHHHHHHHhhhcCCCCCCccccCCCCCCCCCCCCCCCCcCCCCcccccCcCCCCCCCC
Q 014540 153 KERTNYYTTQQLIQRYDPDPAAKAAAATVLASKLGADSGLNVFVGDESNFNVPLGNSNDVEVMPSSGLRNRKQLQPRSGG 232 (423)
Q Consensus 153 K~~T~Y~~Tk~LLEKYd~~~~~k~~~~t~~a~k~g~~~~~~~~~~~e~~~~~~~gks~~~~~~~~~~lr~r~q~~~~~~~ 232 (423)
++.+.|..++.||+||++++.++..+.|.++.|+|++.+.+....+..+. ..-+.+.+++.+..++...
T Consensus 95 ~~~~ly~~a~~il~Ry~~~~~a~~~~~t~~~~k~~~~s~~~l~~~~~~r~-----------~~ls~~~~~~r~~~t~~~~ 163 (328)
T KOG2846|consen 95 LETKLYKVALNILERYDPDPAAKRAAPTSLAEKLGARSGLNLTKLTAARQ-----------VFLSGGKQNQRQANTLLND 163 (328)
T ss_pred HHHHHHHHHHHHHHHhcchHHHHhhhhhhhhhhhccccCCchhhhhhhhh-----------hccCccchhhhhccccccc
Confidence 99999999999999999998888888999999999999998877765430 0111222222222222111
Q ss_pred CCCCCCCCCCCcccCCCCCCCCCCCcccccCCCCCcccCCCCcHHHHHHHHHhcCCCCCcceeeccccccccCccccCCC
Q 014540 233 AGSTPLHHSDEETSSSFGSEGPEHNQLVVNHHYPQVSTMHDGGWIARIAAILVGDDPSQSYALICGNCHMHNGLARKEDF 312 (423)
Q Consensus 233 pg~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~P~~~~~~~r~W~DRIlD~LlGddpt~ryALIC~~C~~HNGlA~~ee~ 312 (423)
-..++.+.... .+...++ ....+.+-.++....+++++|||||+|+||||||++||||||++||.|||||++|||
T Consensus 164 e~nt~~~s~~~-~k~~~~s----~~~~vpg~~~~~~~~~r~~~a~DRI~d~lvGdsP~~ryALIC~~C~~HNGla~~ee~ 238 (328)
T KOG2846|consen 164 ELNTEAHSLNN-LKYHLES----ASKSVPGKSLFEHYKPRSRAAFDRILDYLVGDSPNNRYALICSQCHHHNGLARKEEY 238 (328)
T ss_pred ccccccccccc-chhhhhc----ccccCCCcCccccCCcchhhHHHHHHHHHhcCCCcchhhhcchhhccccCcCChhhc
Confidence 11111111111 1000000 000000001112235678999999999999999999999999999999999999999
Q ss_pred CceEEEcCCCCCccCCCCCCCCCCCCCCCCCcccccc
Q 014540 313 PYITYYCPHCNALNRPKESEGHISGSISSLPPKELEE 349 (423)
Q Consensus 313 e~i~yrC~~Cg~lN~~~~~~~~~~~~~~~~~p~~~~~ 349 (423)
+|+.|||++|++||++++..++-...+.+..|..+..
T Consensus 239 ~yi~F~C~~Cn~LN~~~k~~e~s~~~~~~a~ps~s~k 275 (328)
T KOG2846|consen 239 EYITFRCPHCNALNPAKKSPENSLEAPQPAPPSSSSK 275 (328)
T ss_pred CceEEECccccccCCCcCCcccccccCCCCCcccccC
Confidence 9999999999999999998555444444444443333
No 2
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=100.00 E-value=4.6e-38 Score=292.61 Aligned_cols=220 Identities=23% Similarity=0.426 Sum_probs=166.4
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHHHHHHhhcccccchhhhhhhcccchhhhhHHHH
Q 014540 38 GDDFEKRLQYISKEEAAILARVKRRSQTWRRMSRHLIIFTVVFEVIAVGYAIMTTRSMELNWKTRALQVLPIFLLPGLSA 117 (423)
Q Consensus 38 ~d~FEK~L~~Ls~kI~~~~srLk~~~~~~Rr~~~~Li~YS~il~ii~lvY~~~~~~~~~~~w~~r~~~~lp~~l~Pili~ 117 (423)
-.+|-..|..|+.+|.+.+-++++.+.....|..++++||+.++++++.|.||-... .-..+.+..++++.+-.|
T Consensus 10 ~~~~~~~L~rle~qi~q~~~~~~~~qs~l~~~~~r~tv~slAl~~l~~S~iy~~~~~-----y~~~~~It~~llgs~sly 84 (251)
T COG5415 10 VTKYTADLSRLESQIHQLDVALKKSQSILSQWQSRLTVYSLALTVLALSYIYWEYHG-----YRPYLVITALLLGSGSLY 84 (251)
T ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhccc-----cchhHHHHHHHHhhhHHH
Confidence 367888999999999999999999999999999999999999999988777752111 111222223333445556
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcCCChhHHHHHHHHHhhhcCCCCCCccccC
Q 014540 118 LAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDPDPAAKAAAATVLASKLGADSGLNVFVG 197 (423)
Q Consensus 118 li~~~~~~f~r~~~~~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~~~~~k~~~~t~~a~k~g~~~~~~~~~~ 197 (423)
+.++++.+|+.++++|...+|.+|++.|+|+||.||++|.|+.|++|||||+..+..+- .+++. .+
T Consensus 85 mfrwal~~lye~r~~r~~~~L~kLra~~rk~l~~LK~e~~y~aT~~ii~ky~e~~~~~~-------~~l~N---~k---- 150 (251)
T COG5415 85 MFRWALTKLYEFRNNRRLRKLAKLRAIHRKKLEKLKEETHYNATSSIIQKYSEELNAKY-------QELNN---LK---- 150 (251)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhccchhHHH-------HHHhh---HH----
Confidence 67788889999999999999999999999999999999999999999999986643221 11110 00
Q ss_pred CCCCCCCCCCCCCCCcCCCCcccccCcCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCcccccCCCCCcccCCCCcHH
Q 014540 198 DESNFNVPLGNSNDVEVMPSSGLRNRKQLQPRSGGAGSTPLHHSDEETSSSFGSEGPEHNQLVVNHHYPQVSTMHDGGWI 277 (423)
Q Consensus 198 ~e~~~~~~~gks~~~~~~~~~~lr~r~q~~~~~~~pg~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~P~~~~~~~r~W~ 277 (423)
+.++ .|+.. .+. . -....++||
T Consensus 151 --------~~k~----------------------~~~~~-s~~---------------~------------~~~~~~~w~ 172 (251)
T COG5415 151 --------TEKE----------------------KFKKE-SHV---------------K------------KKEDSDAWF 172 (251)
T ss_pred --------HHhh----------------------ccccc-ccc---------------c------------CcccchHHH
Confidence 0000 00000 000 0 011357999
Q ss_pred HHHHHHHhcCCC---CCcceeeccccccccCccccCCCCceEEEcCCCCCccCCCCCCCC
Q 014540 278 ARIAAILVGDDP---SQSYALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKESEGH 334 (423)
Q Consensus 278 DRIlD~LlGddp---t~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~~~~~ 334 (423)
|||+|+|+|+|| .+++||||++||.|||+|.++|.+.+.|+|++|++||+.++..+.
T Consensus 173 D~V~~vl~G~ne~~~~~~~alIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~~~d 232 (251)
T COG5415 173 DKVISVLAGGNELDLSPFKALICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKERED 232 (251)
T ss_pred HHHHHHHhCCCccccCchhhhccccccccccccccccccchheecccchhhcCccccccc
Confidence 999999999998 679999999999999999999999899999999999997766544
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=99.93 E-value=7.4e-27 Score=177.23 Aligned_cols=51 Identities=59% Similarity=1.178 Sum_probs=50.1
Q ss_pred HHHHHHHHHhcCCC---CCcceeeccccccccCccccCCCCceEEEcCCCCCcc
Q 014540 276 WIARIAAILVGDDP---SQSYALICGNCHMHNGLARKEDFPYITYYCPHCNALN 326 (423)
Q Consensus 276 W~DRIlD~LlGddp---t~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN 326 (423)
|||||+|+|+|||| ++||||||++|++||||||++++++++|||++||++|
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 7999999999999999999999999999999999998
No 4
>PF10166 DUF2368: Uncharacterised conserved protein (DUF2368); InterPro: IPR019319 This family is conserved from nematodes to humans. The function is not known.
Probab=93.18 E-value=2.3 Score=38.31 Aligned_cols=39 Identities=26% Similarity=0.439 Sum_probs=22.8
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 014540 108 PIFLLPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDE 151 (423)
Q Consensus 108 p~~l~Pili~li~~~~~~f~r~~~~~~e~kL~~L~~e~kkkIee 151 (423)
|.+++|++...+...+ .+|.-+-++|++.+++=+.++++
T Consensus 74 ~~~l~PlvPL~fv~~Y-----q~D~ayG~kl~RIr~eAE~Il~~ 112 (131)
T PF10166_consen 74 PLFLIPLVPLTFVLGY-----QYDMAYGTKLQRIREEAERILEE 112 (131)
T ss_pred cchhhhHHHHHHHHHH-----HHHHHhhHHHHHHHHHHHHHHHh
Confidence 4566676665443322 22444567788888776655554
No 5
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=91.98 E-value=2.9 Score=40.56 Aligned_cols=62 Identities=6% Similarity=0.002 Sum_probs=42.9
Q ss_pred ccceeehhhhhhhccCCCcHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHH
Q 014540 22 RKGIISRLWNGIFRLKGDDFEKRLQYISKEEAAILARVKRRSQTWRRMSRHLIIFTVVFEVIAV 85 (423)
Q Consensus 22 ~~~~~S~~w~~~Fr~~~d~FEK~L~~Ls~kI~~~~srLk~~~~~~Rr~~~~Li~YS~il~ii~l 85 (423)
||.+|++=+--=|+.+=+-.|-++..++.-+.+.++.++.-+ .|-.+.-|.+|.+.+.++|+
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 566777622111456667788899999998888888776653 35566778888887777765
No 6
>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=89.24 E-value=0.31 Score=31.51 Aligned_cols=18 Identities=28% Similarity=0.792 Sum_probs=13.3
Q ss_pred CccccCCCCceEEEcCCCCC
Q 014540 305 GLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 305 GlA~~ee~e~i~yrC~~Cg~ 324 (423)
.+|+.+. .+.|.||+||+
T Consensus 7 ~i~~r~~--~v~f~CPnCG~ 24 (24)
T PF07754_consen 7 PIAPREQ--AVPFPCPNCGF 24 (24)
T ss_pred cccCccc--CceEeCCCCCC
Confidence 3555544 58999999996
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=88.09 E-value=10 Score=35.47 Aligned_cols=16 Identities=31% Similarity=0.387 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 014540 42 EKRLQYISKEEAAILA 57 (423)
Q Consensus 42 EK~L~~Ls~kI~~~~s 57 (423)
++.|..+++++..++.
T Consensus 63 ~~~l~~~~~el~~le~ 78 (180)
T PF04678_consen 63 RKRLEELRQELAPLEK 78 (180)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3445566666655443
No 8
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=87.81 E-value=9 Score=43.68 Aligned_cols=24 Identities=29% Similarity=0.297 Sum_probs=13.5
Q ss_pred HHHHHHHHHhhccChHHHHHHHHhcC
Q 014540 144 ERKAKIDELKERTNYYTTQQLIQRYD 169 (423)
Q Consensus 144 e~kkkIeelK~~T~Y~~Tk~LLEKYd 169 (423)
+.++++++ +-|.+..++.=|+|-+
T Consensus 478 e~~kk~~k--e~ta~qe~qael~k~e 501 (1102)
T KOG1924|consen 478 ELEKKFDK--ELTARQEAQAELQKHE 501 (1102)
T ss_pred HHHHHHHH--HHhHHHHHHHHHHHhh
Confidence 33444443 3566666666666665
No 9
>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=87.58 E-value=6.2 Score=35.91 Aligned_cols=38 Identities=8% Similarity=0.181 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcCCC
Q 014540 134 DQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDPD 171 (423)
Q Consensus 134 ~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~~ 171 (423)
..+..+++.....+.++-.+.-..|+.-+..++||+..
T Consensus 172 ~~~~~~~~~~~~~e~l~g~~~Ik~~~~e~~~~~~~~~~ 209 (275)
T PF00664_consen 172 YQEANSELNSFLSESLSGIRTIKAFGAEDYFLERFNKA 209 (275)
T ss_dssp HHHHHHHHHHHHHHHHHTHHHHHHTTSHHHHHHHHHHH
T ss_pred ccccccccccccccchhhhHHHHHHHhhHHHHHHHHHH
Confidence 34445555555566666666666777777778888754
No 10
>PF10864 DUF2663: Protein of unknown function (DUF2663); InterPro: IPR020210 This entry represents a group of uncharacterised transmembrane proteins.
Probab=86.62 E-value=19 Score=32.53 Aligned_cols=29 Identities=21% Similarity=0.316 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHH-hhccChHHHH
Q 014540 134 DQKTLERLRVERKAKIDEL-KERTNYYTTQ 162 (423)
Q Consensus 134 ~e~kL~~L~~e~kkkIeel-K~~T~Y~~Tk 162 (423)
.|+.-..||.|-=++=.|| ++....++=.
T Consensus 84 AEkefhaLRcEiI~kS~dLW~~~~~W~~R~ 113 (130)
T PF10864_consen 84 AEKEFHALRCEIIQKSKDLWPKEESWKKRH 113 (130)
T ss_pred HHHHHHHHHHHHHHhHHhcccCchhHHHHH
Confidence 3444555555533333333 2333444333
No 11
>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=84.86 E-value=0.52 Score=50.28 Aligned_cols=31 Identities=29% Similarity=0.609 Sum_probs=24.3
Q ss_pred cceeeccccccccCccccCCCCceEEEcCCCCCccCCCC
Q 014540 292 SYALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 292 ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
+..-+|++|... ...+.|+||.|+.||.-..
T Consensus 5 ~~~y~C~~Cg~~--------~~~~~g~Cp~C~~w~t~~~ 35 (454)
T TIGR00416 5 KSKFVCQHCGAD--------SPKWQGKCPACHAWNTITE 35 (454)
T ss_pred CCeEECCcCCCC--------CccccEECcCCCCccccch
Confidence 345689999753 3458999999999998765
No 12
>PRK11823 DNA repair protein RadA; Provisional
Probab=84.67 E-value=0.52 Score=50.08 Aligned_cols=30 Identities=33% Similarity=0.610 Sum_probs=23.8
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCccCCCC
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
..-+|++|... ...+.|+||.|+.||.-..
T Consensus 6 ~~y~C~~Cg~~--------~~~~~g~Cp~C~~w~t~~e 35 (446)
T PRK11823 6 TAYVCQECGAE--------SPKWLGRCPECGAWNTLVE 35 (446)
T ss_pred CeEECCcCCCC--------CcccCeeCcCCCCccceee
Confidence 34689999764 3458999999999998765
No 13
>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=84.25 E-value=0.55 Score=48.89 Aligned_cols=27 Identities=30% Similarity=0.621 Sum_probs=21.6
Q ss_pred eccccccccCccccCCCCceEEEcCCCCCccCCCC
Q 014540 296 ICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 296 IC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
+|++|.. +..-+.|+||.|+.||.-..
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 6999964 34458999999999998654
No 14
>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=82.63 E-value=0.74 Score=34.94 Aligned_cols=33 Identities=27% Similarity=0.758 Sum_probs=24.3
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
+-|.+|... ||.-+++.++.-+||.|+.+|--+
T Consensus 5 iRC~~Cnkl--La~~g~~~~leIKCpRC~tiN~~~ 37 (51)
T PF10122_consen 5 IRCGHCNKL--LAKAGEVIELEIKCPRCKTINHVR 37 (51)
T ss_pred eeccchhHH--HhhhcCccEEEEECCCCCccceEe
Confidence 458888554 233257778999999999999755
No 15
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=77.61 E-value=1.9 Score=45.75 Aligned_cols=30 Identities=33% Similarity=0.595 Sum_probs=22.5
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCccCCCC
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
-+-+|++|..+ .+-+.=+|+.||.||.-..
T Consensus 6 t~f~C~~CG~~--------s~KW~GkCp~Cg~Wns~vE 35 (456)
T COG1066 6 TAFVCQECGYV--------SPKWLGKCPACGAWNTLVE 35 (456)
T ss_pred cEEEcccCCCC--------CccccccCCCCCCccceEE
Confidence 45799999753 3346669999999997543
No 16
>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=77.40 E-value=1.4 Score=30.36 Aligned_cols=25 Identities=32% Similarity=0.790 Sum_probs=17.2
Q ss_pred eccccccccCccccCCCCceEEEcCCCCCc
Q 014540 296 ICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 296 IC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
||..|...|.+-..+. -+|++||+.
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 7999999999554322 299999974
No 17
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=76.71 E-value=2.3 Score=31.16 Aligned_cols=30 Identities=23% Similarity=0.433 Sum_probs=19.1
Q ss_pred eccccccccCccccCCCCceEEEcCCCCCccC
Q 014540 296 ICGNCHMHNGLARKEDFPYITYYCPHCNALNR 327 (423)
Q Consensus 296 IC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~ 327 (423)
-|.+|.. -|.++++-.--.|+|+.||+.-.
T Consensus 2 FCp~Cg~--~l~~~~~~~~~~~vC~~Cg~~~~ 31 (52)
T smart00661 2 FCPKCGN--MLIPKEGKEKRRFVCRKCGYEEP 31 (52)
T ss_pred CCCCCCC--ccccccCCCCCEEECCcCCCeEE
Confidence 4888844 44454432223899999997643
No 18
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=76.18 E-value=9.3 Score=34.48 Aligned_cols=37 Identities=22% Similarity=0.325 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcCCC
Q 014540 133 KDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDPD 171 (423)
Q Consensus 133 ~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~~ 171 (423)
+.++.|++++.+....-.|| .+.|..|.+||++-..|
T Consensus 38 ~~q~ELe~~K~~ld~~rqel--~~HFa~sAeLlktl~~d 74 (138)
T COG3105 38 KLQYELEKVKAQLDEYRQEL--VKHFARSAELLKTLAQD 74 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHH
Confidence 45677888888887777777 56899999999887655
No 19
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=76.04 E-value=1.9 Score=31.38 Aligned_cols=28 Identities=21% Similarity=0.403 Sum_probs=18.7
Q ss_pred eeeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
..+|.+|....-.-+. ...++||+||.-
T Consensus 3 ~y~C~~CG~~~~~~~~----~~~~~Cp~CG~~ 30 (46)
T PRK00398 3 EYKCARCGREVELDEY----GTGVRCPYCGYR 30 (46)
T ss_pred EEECCCCCCEEEECCC----CCceECCCCCCe
Confidence 3579999875544222 127899999964
No 20
>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=76.01 E-value=4.8 Score=32.88 Aligned_cols=54 Identities=19% Similarity=0.314 Sum_probs=25.1
Q ss_pred hhhhhHHHHHHHHHHHHH-HHHHhHHHHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcC
Q 014540 109 IFLLPGLSALAYSAFVSF-NRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (423)
Q Consensus 109 ~~l~Pili~li~~~~~~f-~r~~~~~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd 169 (423)
++++|++++++..+..++ ..|..++.. =..|-++-+++|++| |..++.|-||=+
T Consensus 5 fl~~Pliif~ifVap~wl~lHY~~k~~~--~~~ls~~d~~~L~~L-----~~~a~rm~eRI~ 59 (75)
T TIGR02976 5 FLAIPLIIFVIFVAPLWLILHYRSKRKT--AASLSTDDQALLQEL-----YAKADRLEERID 59 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcc--CCCCCHHHHHHHHHH-----HHHHHHHHHHHH
Confidence 345676666655544443 333322111 122444445555555 445555555543
No 21
>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=75.15 E-value=25 Score=38.35 Aligned_cols=36 Identities=14% Similarity=0.122 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcCC
Q 014540 135 QKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (423)
Q Consensus 135 e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~ 170 (423)
++...++.....+.+.-++.-..|..-....++|+.
T Consensus 193 ~~~~~~~~~~~~e~l~g~~~ik~~~~e~~~~~~~~~ 228 (574)
T PRK11160 193 THLRAQYRVQLTEWLQGQAELTLFGAEDRYRQQLEQ 228 (574)
T ss_pred HHHHHHHHHHHHHHHCCHHHHHHcCChHHHHHHHHH
Confidence 344555555555544444444445444444444443
No 22
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=74.87 E-value=3.3 Score=41.43 Aligned_cols=43 Identities=21% Similarity=0.475 Sum_probs=30.5
Q ss_pred cHHHHHHHHHhcCCCCCcceeeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 275 GWIARIAAILVGDDPSQSYALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 275 ~W~DRIlD~LlGddpt~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
.++.+++...+-.||. -+|.+|... . +...|+||.|+.|..-.
T Consensus 339 ~~~~~~~~~~~~~~p~----~~c~~cg~~----~----~~~~~~c~~c~~~~~~~ 381 (389)
T PRK11788 339 LLLRDLVGEQLKRKPR----YRCRNCGFT----A----RTLYWHCPSCKAWETIK 381 (389)
T ss_pred HHHHHHHHHHHhCCCC----EECCCCCCC----C----ccceeECcCCCCccCcC
Confidence 3566677666777777 459999542 2 24789999999998643
No 23
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=74.56 E-value=1.5 Score=40.54 Aligned_cols=38 Identities=29% Similarity=0.613 Sum_probs=26.7
Q ss_pred eccccccccCcccc--------CCCCceEEEcCCCCCccCCCCCCCC
Q 014540 296 ICGNCHMHNGLARK--------EDFPYITYYCPHCNALNRPKESEGH 334 (423)
Q Consensus 296 IC~~C~~HNGlA~~--------ee~e~i~yrC~~Cg~lN~~~~~~~~ 334 (423)
.|.+|. +||...- .|.-...|.|++||+.|..-+..+.
T Consensus 2 ~Cp~C~-~~~~~~~~~~~IP~F~evii~sf~C~~CGyk~~ev~~~~~ 47 (160)
T smart00709 2 DCPSCG-GNGTTRMLLTSIPYFREVIIMSFECEHCGYRNNEVKSGGA 47 (160)
T ss_pred cCCCCC-CCCEEEEEEecCCCcceEEEEEEECCCCCCccceEEECcc
Confidence 599997 4676441 1222459999999999988766544
No 24
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=74.19 E-value=2.1 Score=31.40 Aligned_cols=26 Identities=27% Similarity=0.607 Sum_probs=19.5
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
.||..|..-+-+- ....-+|++||+-
T Consensus 3 Y~C~~Cg~~~~~~-----~~~~irC~~CG~r 28 (44)
T smart00659 3 YICGECGRENEIK-----SKDVVRCRECGYR 28 (44)
T ss_pred EECCCCCCEeecC-----CCCceECCCCCce
Confidence 6899999877654 2346799999974
No 25
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=74.03 E-value=2.1 Score=37.53 Aligned_cols=35 Identities=23% Similarity=0.559 Sum_probs=21.2
Q ss_pred HhcCCCCCcceeeccccccccCccccCCCCceEEEcCCCCC
Q 014540 284 LVGDDPSQSYALICGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 284 LlGddpt~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
.+|-.-+.....+|.+|+.+.=|.-++| .|+||+.
T Consensus 59 wIGmlStkav~V~CP~C~K~TKmLGr~D------~CM~C~~ 93 (114)
T PF11023_consen 59 WIGMLSTKAVQVECPNCGKQTKMLGRVD------ACMHCKE 93 (114)
T ss_pred HhhhhcccceeeECCCCCChHhhhchhh------ccCcCCC
Confidence 3444444556677777777666655543 6777764
No 26
>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=73.87 E-value=26 Score=37.53 Aligned_cols=32 Identities=9% Similarity=0.160 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHhhccChHHHHHHHHhcCC
Q 014540 139 ERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (423)
Q Consensus 139 ~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~ 170 (423)
.++.....+.++-++.-..|+......+||+.
T Consensus 190 ~~~~~~~~e~~~g~~~ik~~~~~~~~~~~~~~ 221 (529)
T TIGR02868 190 SQLYQQLTDALDGAADLVAYGALDPALAQVEA 221 (529)
T ss_pred HHHHHHHHHHhccHHHHHHcCChHHHHHHHHH
Confidence 34444444444444444445555555555543
No 27
>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=73.30 E-value=1.3 Score=31.51 Aligned_cols=33 Identities=24% Similarity=0.427 Sum_probs=16.7
Q ss_pred eeccccccc-cCccccCCCCceEEEcCCCCCccCC
Q 014540 295 LICGNCHMH-NGLARKEDFPYITYYCPHCNALNRP 328 (423)
Q Consensus 295 LIC~~C~~H-NGlA~~ee~e~i~yrC~~Cg~lN~~ 328 (423)
+-|++|+.. |-.... +..--+|+|..|+..|.-
T Consensus 3 ~rC~~C~aylNp~~~~-~~~~~~w~C~~C~~~N~l 36 (40)
T PF04810_consen 3 VRCRRCRAYLNPFCQF-DDGGKTWICNFCGTKNPL 36 (40)
T ss_dssp -B-TTT--BS-TTSEE-ETTTTEEEETTT--EEE-
T ss_pred cccCCCCCEECCcceE-cCCCCEEECcCCCCcCCC
Confidence 568888764 333333 223359999999999863
No 28
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=72.54 E-value=2 Score=32.39 Aligned_cols=28 Identities=25% Similarity=0.496 Sum_probs=20.1
Q ss_pred ceeeccccccccCccccC-CCCceEEEcCCCCCc
Q 014540 293 YALICGNCHMHNGLARKE-DFPYITYYCPHCNAL 325 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~e-e~e~i~yrC~~Cg~l 325 (423)
.--+|..|..-+ + +-.+-..+|+|||+-
T Consensus 5 ~~Y~C~~Cg~~~-----~~~~~~~~irCp~Cg~r 33 (49)
T COG1996 5 MEYKCARCGREV-----ELDQETRGIRCPYCGSR 33 (49)
T ss_pred EEEEhhhcCCee-----ehhhccCceeCCCCCcE
Confidence 345899998877 3 334567799999974
No 29
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=72.04 E-value=11 Score=32.71 Aligned_cols=25 Identities=16% Similarity=0.401 Sum_probs=15.3
Q ss_pred HHHHHHHHHHH-HHHHHHHHHHhhcc
Q 014540 132 RKDQKTLERLR-VERKAKIDELKERT 156 (423)
Q Consensus 132 ~~~e~kL~~L~-~e~kkkIeelK~~T 156 (423)
+++++..+++. ++++|++|++.+++
T Consensus 69 k~Ye~a~~~~~~~~lqkRle~l~~eE 94 (104)
T PF11460_consen 69 KDYEEAVDQLTNEELQKRLEELSPEE 94 (104)
T ss_pred HHHHHHHHHHhHHHHHHHHHhCCHHH
Confidence 34555555554 34588888886654
No 30
>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=71.02 E-value=2.9 Score=28.96 Aligned_cols=31 Identities=16% Similarity=0.325 Sum_probs=22.1
Q ss_pred eeccccccccCccccCC-CCceEEEcCCCCCc
Q 014540 295 LICGNCHMHNGLARKED-FPYITYYCPHCNAL 325 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee-~e~i~yrC~~Cg~l 325 (423)
+-|.+|..++-+..-.. ......+|++||..
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~ 34 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHV 34 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCE
Confidence 67999999988875211 11247899999964
No 31
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=70.83 E-value=2 Score=33.75 Aligned_cols=10 Identities=40% Similarity=1.085 Sum_probs=6.3
Q ss_pred EEEcCCCCCc
Q 014540 316 TYYCPHCNAL 325 (423)
Q Consensus 316 ~yrC~~Cg~l 325 (423)
.|+||+|||.
T Consensus 50 ~Y~Cp~CGF~ 59 (61)
T COG2888 50 PYRCPKCGFE 59 (61)
T ss_pred ceECCCcCcc
Confidence 5666666664
No 32
>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=70.23 E-value=1.9 Score=30.99 Aligned_cols=31 Identities=23% Similarity=0.457 Sum_probs=21.9
Q ss_pred eccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 296 ICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 296 IC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
+|.+|.+-+ + ..|+..+.++|..||..-...
T Consensus 2 ~Cp~Cg~~~-~--~~D~~~g~~vC~~CG~Vl~e~ 32 (43)
T PF08271_consen 2 KCPNCGSKE-I--VFDPERGELVCPNCGLVLEEN 32 (43)
T ss_dssp SBTTTSSSE-E--EEETTTTEEEETTT-BBEE-T
T ss_pred CCcCCcCCc-e--EEcCCCCeEECCCCCCEeecc
Confidence 699999866 4 345667899999999775543
No 33
>PRK11677 hypothetical protein; Provisional
Probab=69.86 E-value=16 Score=33.02 Aligned_cols=37 Identities=22% Similarity=0.275 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcCCC
Q 014540 133 KDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDPD 171 (423)
Q Consensus 133 ~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~~ 171 (423)
..++.|++.+.++..-=.|| .+.|..|.+|+++-..+
T Consensus 33 ~le~eLe~~k~ele~YkqeV--~~HFa~TA~Ll~~L~~~ 69 (134)
T PRK11677 33 ALQYELEKNKAELEEYRQEL--VSHFARSAELLDTMAKD 69 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHH
Confidence 34566777777766666666 55899999999887654
No 34
>PF13239 2TM: 2TM domain
Probab=69.18 E-value=39 Score=27.44 Aligned_cols=16 Identities=25% Similarity=0.540 Sum_probs=9.1
Q ss_pred HhhhhHHHHHHHHHHH
Q 014540 67 RRMSRHLIIFTVVFEV 82 (423)
Q Consensus 67 Rr~~~~Li~YS~il~i 82 (423)
+.++..++.|.++..+
T Consensus 13 k~fy~Hl~~y~ivn~~ 28 (83)
T PF13239_consen 13 KGFYRHLAVYLIVNSF 28 (83)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4455667666655433
No 35
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=67.84 E-value=2.7 Score=40.13 Aligned_cols=39 Identities=18% Similarity=0.370 Sum_probs=27.8
Q ss_pred eeccccccccCcccc--CC-CC------ceEEEcCCCCCccCCCCCCCC
Q 014540 295 LICGNCHMHNGLARK--ED-FP------YITYYCPHCNALNRPKESEGH 334 (423)
Q Consensus 295 LIC~~C~~HNGlA~~--ee-~e------~i~yrC~~Cg~lN~~~~~~~~ 334 (423)
+-|.+|+. ||-..- -+ .+ ...|.|.+||+.|..-+..+.
T Consensus 1 ~~Cp~C~~-~~~~~~~~~~~IP~F~evii~sf~C~~CGyr~~ev~~~g~ 48 (192)
T TIGR00310 1 IDCPSCGG-ECETVMKTVNDIPYFGEVLETSTICEHCGYRSNDVKTLGA 48 (192)
T ss_pred CcCCCCCC-CCEEEEEEEcCCCCcceEEEEEEECCCCCCccceeEECCC
Confidence 45999985 676642 22 22 358999999999988776555
No 36
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=66.91 E-value=2.8 Score=30.91 Aligned_cols=14 Identities=29% Similarity=0.788 Sum_probs=12.0
Q ss_pred EEcCCCCCccCCCC
Q 014540 317 YYCPHCNALNRPKE 330 (423)
Q Consensus 317 yrC~~Cg~lN~~~~ 330 (423)
-.||.||.+||.|-
T Consensus 12 rkCp~CGt~NG~R~ 25 (44)
T PF14952_consen 12 RKCPKCGTYNGTRG 25 (44)
T ss_pred ccCCcCcCccCccc
Confidence 37999999999874
No 37
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=66.52 E-value=5.3 Score=28.53 Aligned_cols=28 Identities=18% Similarity=0.511 Sum_probs=21.2
Q ss_pred eccccccccCccc-------cCCCCceEEEcCCCCC
Q 014540 296 ICGNCHMHNGLAR-------KEDFPYITYYCPHCNA 324 (423)
Q Consensus 296 IC~~C~~HNGlA~-------~ee~e~i~yrC~~Cg~ 324 (423)
.|.+|. |+..+. ..|...+-|+|..||+
T Consensus 2 ~Cp~C~-~~~a~~~q~Q~RsaDE~mT~fy~C~~C~~ 36 (40)
T smart00440 2 PCPKCG-NREATFFQLQTRSADEPMTVFYVCTKCGH 36 (40)
T ss_pred cCCCCC-CCeEEEEEEcccCCCCCCeEEEEeCCCCC
Confidence 599997 566554 2466678999999996
No 38
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=66.42 E-value=35 Score=28.45 Aligned_cols=18 Identities=22% Similarity=0.254 Sum_probs=7.5
Q ss_pred HHHhhhhHHHHHHHHHHH
Q 014540 65 TWRRMSRHLIIFTVVFEV 82 (423)
Q Consensus 65 ~~Rr~~~~Li~YS~il~i 82 (423)
+.+|+...+.+..+.+|+
T Consensus 13 ~r~r~~~~l~~i~l~~y~ 30 (91)
T PF04341_consen 13 RRRRLAWPLSAIFLVLYF 30 (91)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444443343333
No 39
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=66.39 E-value=3.4 Score=28.80 Aligned_cols=29 Identities=21% Similarity=0.345 Sum_probs=15.8
Q ss_pred ccccccccCccccCCCCceEEEcCCCCCc
Q 014540 297 CGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 297 C~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
|.+|..---+.-++.-+-.+++|+.||+.
T Consensus 3 C~~CG~~l~~~ip~gd~r~R~vC~~Cg~I 31 (34)
T PF14803_consen 3 CPQCGGPLERRIPEGDDRERLVCPACGFI 31 (34)
T ss_dssp -TTT--B-EEE--TT-SS-EEEETTTTEE
T ss_pred cccccChhhhhcCCCCCccceECCCCCCE
Confidence 88888776665564334569999999974
No 40
>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=65.38 E-value=52 Score=35.40 Aligned_cols=7 Identities=0% Similarity=-0.211 Sum_probs=2.8
Q ss_pred ecccccc
Q 014540 296 ICGNCHM 302 (423)
Q Consensus 296 IC~~C~~ 302 (423)
.|+.|..
T Consensus 442 ~l~~~~l 448 (571)
T TIGR02203 442 ALAAAYA 448 (571)
T ss_pred HHHHcCh
Confidence 3444433
No 41
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.20 E-value=4.6 Score=45.17 Aligned_cols=53 Identities=28% Similarity=0.392 Sum_probs=37.8
Q ss_pred cceeeccccccccCccccCCCCceEEEcCCCCCccCCCCCCCCCCCCCCCCCcccc
Q 014540 292 SYALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKESEGHISGSISSLPPKEL 347 (423)
Q Consensus 292 ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~~~~~~~~~~~~~~p~~~ 347 (423)
.-+|.|.+|...=-.+---++--..|.|+.|+..|+-... .++....+-|.++
T Consensus 51 y~P~~C~~C~AvlNPyc~vd~~a~~W~CpfC~qrN~~p~~---Y~~is~~n~P~el 103 (745)
T KOG1986|consen 51 YDPLRCSKCGAVLNPYCSVDFRAKSWICPFCNQRNPFPPH---YSGISENNLPPEL 103 (745)
T ss_pred CCCchhccchhhcCcceeecccCceEeccccccCCCCChh---hcccCccCCChhh
Confidence 3469999999987766666777679999999999987653 3333333455544
No 42
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=64.23 E-value=40 Score=27.57 Aligned_cols=21 Identities=14% Similarity=0.346 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhc
Q 014540 135 QKTLERLRVERKAKIDELKER 155 (423)
Q Consensus 135 e~kL~~L~~e~kkkIeelK~~ 155 (423)
+++=+++++++++.|.+.++.
T Consensus 51 ~ere~K~k~Kr~~~i~k~rr~ 71 (74)
T PF15086_consen 51 EEREKKKKAKRQANIAKARRT 71 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 345667788888888887654
No 43
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=63.17 E-value=3.6 Score=32.19 Aligned_cols=11 Identities=36% Similarity=0.899 Sum_probs=6.4
Q ss_pred eEEEcCCCCCc
Q 014540 315 ITYYCPHCNAL 325 (423)
Q Consensus 315 i~yrC~~Cg~l 325 (423)
..|+||.|||.
T Consensus 47 ~~Y~CP~CGF~ 57 (59)
T PRK14890 47 NPYTCPKCGFE 57 (59)
T ss_pred CceECCCCCCc
Confidence 45666666653
No 44
>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=63.08 E-value=4.8 Score=42.01 Aligned_cols=49 Identities=18% Similarity=0.365 Sum_probs=25.7
Q ss_pred HHHHHhcCCCCC---cceeeccccccccCcccc---CCCCceEEEcCCCCCccCC
Q 014540 280 IAAILVGDDPSQ---SYALICGNCHMHNGLARK---EDFPYITYYCPHCNALNRP 328 (423)
Q Consensus 280 IlD~LlGddpt~---ryALIC~~C~~HNGlA~~---ee~e~i~yrC~~Cg~lN~~ 328 (423)
|++-..|+.-.. .|--||.+|...+.---. .+-..+.|+|..||+-.-.
T Consensus 157 Il~~~~~~~~~~~y~Pf~piC~~cGri~tt~v~~~d~~~~~v~Y~c~~cG~~g~~ 211 (360)
T PF01921_consen 157 ILNEYRGRERPETYSPFLPICEKCGRIDTTEVTEYDPEGGTVTYRCEECGHEGEV 211 (360)
T ss_dssp HHHHHHHHT--TT--SEEEEETTTEE--EEEEEEE--SSSEEEEE--TTS---EE
T ss_pred HHHHhcCcCCCCCeeeeeeeccccCCcccceeeEeecCCCEEEEEecCCCCEEEE
Confidence 333334555332 588999999997663322 1345799999999986543
No 45
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=63.07 E-value=35 Score=38.03 Aligned_cols=19 Identities=21% Similarity=0.354 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 014540 134 DQKTLERLRVERKAKIDEL 152 (423)
Q Consensus 134 ~e~kL~~L~~e~kkkIeel 152 (423)
+++..+.|..+-++-+++.
T Consensus 62 ~~~~i~~ls~~~~~~~~~a 80 (655)
T COG3887 62 DQNYISYLSYQAEKSLEEA 80 (655)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3456777777776666665
No 46
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=62.94 E-value=5.1 Score=27.65 Aligned_cols=27 Identities=33% Similarity=0.648 Sum_probs=19.5
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
-+|..|. |||++-.++ ..+.|..||.-
T Consensus 4 ~~C~~C~-~~~i~~~~~---~~~~C~~Cg~~ 30 (33)
T PF08792_consen 4 KKCSKCG-GNGIVNKED---DYEVCIFCGSS 30 (33)
T ss_pred eEcCCCC-CCeEEEecC---CeEEcccCCcE
Confidence 3688875 688776555 46799999863
No 47
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=62.91 E-value=4.1 Score=28.66 Aligned_cols=28 Identities=25% Similarity=0.485 Sum_probs=21.5
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
+...|..|.+. ....+| +.|+|..||+.
T Consensus 7 ~~~~C~~C~~~--~~~~~d---G~~yC~~cG~~ 34 (36)
T PF11781_consen 7 PNEPCPVCGSR--WFYSDD---GFYYCDRCGHQ 34 (36)
T ss_pred CCCcCCCCCCe--EeEccC---CEEEhhhCceE
Confidence 55679999988 444444 89999999974
No 48
>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=61.94 E-value=3.5 Score=30.40 Aligned_cols=35 Identities=23% Similarity=0.466 Sum_probs=24.2
Q ss_pred ceeecccccc-ccCccccCCCCceEEEcCCCCCccCCC
Q 014540 293 YALICGNCHM-HNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 293 yALIC~~C~~-HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
|-..|.+|.. ...+.+-.+. ..-.||.||..+-.+
T Consensus 4 Yey~C~~Cg~~fe~~~~~~~~--~~~~CP~Cg~~~~~r 39 (52)
T TIGR02605 4 YEYRCTACGHRFEVLQKMSDD--PLATCPECGGEKLRR 39 (52)
T ss_pred EEEEeCCCCCEeEEEEecCCC--CCCCCCCCCCCceeE
Confidence 7789999987 6666554442 234699999865543
No 49
>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=61.76 E-value=81 Score=33.72 Aligned_cols=32 Identities=13% Similarity=0.059 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHhhccChHHHHHHHHhcC
Q 014540 138 LERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (423)
Q Consensus 138 L~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd 169 (423)
..++.....+.++-.+.-..|...+..+++|+
T Consensus 179 ~~~~~~~~~e~l~g~~~ik~~~~e~~~~~~~~ 210 (529)
T TIGR02857 179 LSRLSGHFLDRLRGLPTLKLFGRAKAQAAAIA 210 (529)
T ss_pred HHHHHHHHHHHhcCHHHHHHccccHHHHHHHH
Confidence 33343333444333333334444444444444
No 50
>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=60.97 E-value=8.3 Score=42.31 Aligned_cols=41 Identities=24% Similarity=0.480 Sum_probs=30.7
Q ss_pred CCCCcceeeccccccccCccc------cC-CCCceEEEcCCCCCccCC
Q 014540 288 DPSQSYALICGNCHMHNGLAR------KE-DFPYITYYCPHCNALNRP 328 (423)
Q Consensus 288 dpt~ryALIC~~C~~HNGlA~------~e-e~e~i~yrC~~Cg~lN~~ 328 (423)
+.+.+|.+-|.+|..+.=|.- ++ ..+...|+|++||..-..
T Consensus 194 sdqr~~~vpCPhCg~~~~l~~~~l~w~~~~~~~~a~y~C~~Cg~~i~e 241 (557)
T PF05876_consen 194 SDQRRYYVPCPHCGEEQVLEWENLKWDKGEAPETARYVCPHCGCEIEE 241 (557)
T ss_pred CCceEEEccCCCCCCCccccccceeecCCCCccceEEECCCCcCCCCH
Confidence 334589999999998877652 12 355789999999987654
No 51
>PF09771 Tmemb_18A: Transmembrane protein 188; InterPro: IPR019168 The function of this family of transmembrane proteins has not, as yet, been determined.
Probab=59.65 E-value=63 Score=29.02 Aligned_cols=38 Identities=16% Similarity=0.439 Sum_probs=24.9
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhhHHHHHHHH
Q 014540 38 GDDFEKRLQYISKEEAAILARVKRRSQTWRRMSRHLIIFTVV 79 (423)
Q Consensus 38 ~d~FEK~L~~Ls~kI~~~~srLk~~~~~~Rr~~~~Li~YS~i 79 (423)
++..|. |.+-|...+++...++-...|||-+ |.+++++
T Consensus 3 ~t~ceD-LkaFErRLtEvI~~l~Pst~RWRii---L~v~svc 40 (125)
T PF09771_consen 3 PTACED-LKAFERRLTEVINSLQPSTTRWRII---LVVVSVC 40 (125)
T ss_pred chhHHH-HHHHHHHHHHHHHhcCCcchhHHHH---HHHHHHH
Confidence 455674 8888888877878877776665532 4444444
No 52
>PF09972 DUF2207: Predicted membrane protein (DUF2207); InterPro: IPR018702 This domain has no known function.
Probab=59.62 E-value=65 Score=33.59 Aligned_cols=14 Identities=14% Similarity=0.131 Sum_probs=7.8
Q ss_pred CcHHHHHHHHHHHH
Q 014540 39 DDFEKRLQYISKEE 52 (423)
Q Consensus 39 d~FEK~L~~Ls~kI 52 (423)
..|.+.+....+.+
T Consensus 362 ~~~~~~~~~~~~~i 375 (511)
T PF09972_consen 362 KRFYKAFKKWQEAI 375 (511)
T ss_pred HHHHHHHHHHHHHH
Confidence 45555555555554
No 53
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=58.56 E-value=30 Score=26.56 Aligned_cols=11 Identities=36% Similarity=0.450 Sum_probs=4.7
Q ss_pred HHHHHHHHHHH
Q 014540 134 DQKTLERLRVE 144 (423)
Q Consensus 134 ~e~kL~~L~~e 144 (423)
.++++++|++|
T Consensus 53 ~~k~l~~le~e 63 (68)
T PF06305_consen 53 LRKELKKLEKE 63 (68)
T ss_pred HHHHHHHHHHH
Confidence 33444444443
No 54
>COG3162 Predicted membrane protein [Function unknown]
Probab=58.29 E-value=74 Score=27.55 Aligned_cols=13 Identities=23% Similarity=0.312 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHH
Q 014540 134 DQKTLERLRVERK 146 (423)
Q Consensus 134 ~e~kL~~L~~e~k 146 (423)
-+..+|+|..+.+
T Consensus 85 An~~fDrl~~~i~ 97 (102)
T COG3162 85 ANGEFDRLNAEIL 97 (102)
T ss_pred hhccchHHHHHHH
Confidence 3446777776533
No 55
>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=57.85 E-value=9.2 Score=41.69 Aligned_cols=36 Identities=22% Similarity=0.494 Sum_probs=24.4
Q ss_pred cceeeccccccccCccccCCCC-ceEEEcCCCCCccCC
Q 014540 292 SYALICGNCHMHNGLARKEDFP-YITYYCPHCNALNRP 328 (423)
Q Consensus 292 ryALIC~~C~~HNGlA~~ee~e-~i~yrC~~Cg~lN~~ 328 (423)
.|--||.+|.....-+---+.+ .+.|+| .||+-.-.
T Consensus 166 P~~pic~~cGrv~~~~~~~~~~~~v~Y~c-~cG~~g~~ 202 (515)
T TIGR00467 166 PISVFCENCGRDTTTVNNYDNEYSIEYSC-ECGNQESV 202 (515)
T ss_pred eeeeecCCcCccCceEEEecCCceEEEEc-CCCCEEEE
Confidence 5789999999997621111111 499999 59987544
No 56
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7.0 [Transcription]
Probab=57.53 E-value=5.5 Score=31.23 Aligned_cols=28 Identities=32% Similarity=0.731 Sum_probs=23.0
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
.--||..|+.-|-+-+.+ .++|.-||+-
T Consensus 19 miYiCgdC~~en~lk~~D-----~irCReCG~R 46 (62)
T KOG3507|consen 19 MIYICGDCGQENTLKRGD-----VIRCRECGYR 46 (62)
T ss_pred EEEEeccccccccccCCC-----cEehhhcchH
Confidence 457999999999887763 5699999974
No 57
>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=57.37 E-value=1.5e+02 Score=30.71 Aligned_cols=15 Identities=20% Similarity=0.454 Sum_probs=10.5
Q ss_pred ChHHHHHHHHhcCCC
Q 014540 157 NYYTTQQLIQRYDPD 171 (423)
Q Consensus 157 ~Y~~Tk~LLEKYd~~ 171 (423)
+.++...|.+|-.++
T Consensus 258 DldTIsrLV~RL~de 272 (336)
T PF05055_consen 258 DLDTISRLVDRLEDE 272 (336)
T ss_pred HHhhHHHHHHHHHHH
Confidence 456777778777654
No 58
>PRK11032 hypothetical protein; Provisional
Probab=56.84 E-value=5.7 Score=36.97 Aligned_cols=32 Identities=31% Similarity=0.772 Sum_probs=23.8
Q ss_pred eeeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
.|+|.+|..+-=+.-++-.+ .||.||+--=.|
T Consensus 124 ~LvC~~Cg~~~~~~~p~~i~----pCp~C~~~~F~R 155 (160)
T PRK11032 124 NLVCEKCHHHLAFYTPEVLP----LCPKCGHDQFQR 155 (160)
T ss_pred eEEecCCCCEEEecCCCcCC----CCCCCCCCeeee
Confidence 39999999887777676655 799999654333
No 59
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=56.04 E-value=3.5 Score=42.51 Aligned_cols=46 Identities=17% Similarity=0.434 Sum_probs=31.6
Q ss_pred HHHHHHHHHhcCCCC-----------C-c-ceeeccccccccCccccCCCCceEEEcCCCCC
Q 014540 276 WIARIAAILVGDDPS-----------Q-S-YALICGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 276 W~DRIlD~LlGddpt-----------~-r-yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
-||-+--+|.|.|-- - . |---|.+|+.-- -.++..-..|+||.||-
T Consensus 215 sF~~~r~Ai~~~~g~~ivaNyGLdP~LGKY~~TAC~rC~t~y---~le~A~~~~wrCpkCGg 273 (403)
T COG1379 215 SFEELRKAIKGKDGCKIVANYGLDPRLGKYHLTACSRCYTRY---SLEEAKSLRWRCPKCGG 273 (403)
T ss_pred CHHHHHHHHhcCCCceEEEecCcCccccchhHHHHHHhhhcc---CcchhhhhcccCccccc
Confidence 567788888776522 1 2 334699999753 34555557899999996
No 60
>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=55.93 E-value=5.8 Score=28.13 Aligned_cols=29 Identities=17% Similarity=0.496 Sum_probs=19.8
Q ss_pred eccccccccCcccc------CCCCceEEEcCCCCC
Q 014540 296 ICGNCHMHNGLARK------EDFPYITYYCPHCNA 324 (423)
Q Consensus 296 IC~~C~~HNGlA~~------ee~e~i~yrC~~Cg~ 324 (423)
-|.+|..++...-. .|...+-|+|..||+
T Consensus 2 ~Cp~Cg~~~a~~~~~Q~rsaDE~~T~fy~C~~C~~ 36 (39)
T PF01096_consen 2 KCPKCGHNEAVFFQIQTRSADEPMTLFYVCCNCGH 36 (39)
T ss_dssp --SSS-SSEEEEEEESSSSSSSSSEEEEEESSSTE
T ss_pred CCcCCCCCeEEEEEeeccCCCCCCeEEEEeCCCCC
Confidence 48999887765541 356688999999986
No 61
>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=55.66 E-value=99 Score=26.13 Aligned_cols=51 Identities=14% Similarity=0.154 Sum_probs=25.0
Q ss_pred hhhcccchhh-hhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhh
Q 014540 102 RALQVLPIFL-LPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKE 154 (423)
Q Consensus 102 r~~~~lp~~l-~Pili~li~~~~~~f~r~~~~~~e~kL~~L~~e~kkkIeelK~ 154 (423)
..+.++|+.+ +-+.+|.+..+....+.|-+ -++.-++|++|-++-=++|++
T Consensus 35 ~ii~~lP~~~Lv~fG~Ysl~~lgy~v~tFnD--cpeA~~eL~~eI~eAK~dLr~ 86 (91)
T PF08285_consen 35 EIIPYLPFYALVSFGCYSLFTLGYGVATFND--CPEAAKELQKEIKEAKADLRK 86 (91)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHhhhccCC--CHHHHHHHHHHHHHHHHHHHH
Confidence 3444566544 34444555555444444433 234556666655544445543
No 62
>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=55.06 E-value=1e+02 Score=33.54 Aligned_cols=32 Identities=3% Similarity=0.108 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHhhccChHHHHHHHHhcC
Q 014540 138 LERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (423)
Q Consensus 138 L~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd 169 (423)
..++.....+.+.-++.-..|+......++|+
T Consensus 172 ~~~~~~~~~e~l~~i~~ik~~~~e~~~~~~~~ 203 (569)
T PRK10789 172 FSSLNDRTQESLTSIRMIKAFGLEDRQSALFA 203 (569)
T ss_pred HHHHHHHHHHHHcChHHHHHhcccHHHHHHHH
Confidence 33344444444443333334444444444444
No 63
>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=53.83 E-value=7 Score=35.76 Aligned_cols=31 Identities=32% Similarity=0.776 Sum_probs=23.7
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
|+|.+|..+-=+.-++..+ .||.||.-.=.|
T Consensus 113 l~C~~Cg~~~~~~~~~~l~----~Cp~C~~~~F~R 143 (146)
T PF07295_consen 113 LVCENCGHEVELTHPERLP----PCPKCGHTEFTR 143 (146)
T ss_pred EecccCCCEEEecCCCcCC----CCCCCCCCeeee
Confidence 8999999888777776555 799999754433
No 64
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=53.65 E-value=11 Score=33.75 Aligned_cols=32 Identities=22% Similarity=0.531 Sum_probs=26.4
Q ss_pred cceeeccccccccCccccCCCCceEEEcCCCCC
Q 014540 292 SYALICGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 292 ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
+|.-.|..|..|.+-..+-.- ..+|+|.+|+.
T Consensus 110 ~~~y~C~~C~~~~~~~rr~~~-~~~y~C~~C~g 141 (146)
T smart00731 110 KYPYRCTGCGQRYLRVRRSNN-VSRYRCGKCGG 141 (146)
T ss_pred eEEEECCCCCCCCceEccccC-cceEEcCCCCC
Confidence 699999999999987776542 26899999985
No 65
>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=53.57 E-value=69 Score=27.62 Aligned_cols=13 Identities=23% Similarity=0.398 Sum_probs=6.1
Q ss_pred HhhhhHHHHHHHH
Q 014540 67 RRMSRHLIIFTVV 79 (423)
Q Consensus 67 Rr~~~~Li~YS~i 79 (423)
+...+.|.++|++
T Consensus 36 ~~~~~~l~~~g~I 48 (100)
T TIGR02230 36 RSIWEGLGMFGLI 48 (100)
T ss_pred CcHHHHHHHHHHH
Confidence 3344555544443
No 66
>PRK01642 cls cardiolipin synthetase; Reviewed
Probab=53.41 E-value=64 Score=34.69 Aligned_cols=18 Identities=33% Similarity=0.733 Sum_probs=13.7
Q ss_pred ccchhhhhHHHHHHHHHH
Q 014540 106 VLPIFLLPGLSALAYSAF 123 (423)
Q Consensus 106 ~lp~~l~Pili~li~~~~ 123 (423)
++.++++|++..++|.++
T Consensus 38 l~~i~~~P~~G~~lY~~f 55 (483)
T PRK01642 38 LLILYILPYVGIIAYLLF 55 (483)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 456777899998888654
No 67
>PRK02201 putative inner membrane protein translocase component YidC; Provisional
Probab=52.97 E-value=1.5e+02 Score=31.12 Aligned_cols=41 Identities=17% Similarity=0.178 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccC--------hHHHHHHHHhcCCChh
Q 014540 133 KDQKTLERLRVERKAKIDELKERTN--------YYTTQQLIQRYDPDPA 173 (423)
Q Consensus 133 ~~e~kL~~L~~e~kkkIeelK~~T~--------Y~~Tk~LLEKYd~~~~ 173 (423)
+..+|+.+||-|.+++=++.|++++ -..+++|-.+|+-.+-
T Consensus 157 ~s~~km~~lqPel~~Iq~Kyk~~~~d~~~~~k~q~e~~~Lykk~ginP~ 205 (357)
T PRK02201 157 FNQEKQEELQGKKAKIDAKYKDYKKDKQMKQRKQQEIQELYKKHNISPF 205 (357)
T ss_pred HHHHHHHHhhHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHcCCCcH
Confidence 4567788888877777666665422 2445677777876653
No 68
>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=52.78 E-value=1.4e+02 Score=26.26 Aligned_cols=21 Identities=10% Similarity=0.012 Sum_probs=11.2
Q ss_pred hHHHHHHHHHHHHH-HHHHHhh
Q 014540 71 RHLIIFTVVFEVIA-VGYAIMT 91 (423)
Q Consensus 71 ~~Li~YS~il~ii~-lvY~~~~ 91 (423)
+.-++|++...+++ ++.|++.
T Consensus 41 R~slL~Gi~~G~~vG~~~fl~~ 62 (118)
T PF12597_consen 41 RDSLLYGIAGGFGVGGLRFLFT 62 (118)
T ss_pred HHHHHHHHHHHHHHHhhhhccc
Confidence 44556777655543 4445443
No 69
>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=52.67 E-value=10 Score=29.42 Aligned_cols=30 Identities=20% Similarity=0.417 Sum_probs=21.8
Q ss_pred eeeccccccccCccccCCCCceEEEcCCCCCccC
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPHCNALNR 327 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~ 327 (423)
--.|..|...+.- ....-.|.|+.||+.-.
T Consensus 28 Sq~C~~CG~~~~~----~~~~r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 28 SQTCPRCGHRNKK----RRSGRVFTCPNCGFEMD 57 (69)
T ss_pred ccCccCccccccc----ccccceEEcCCCCCEEC
Confidence 3579999888877 22235899999998643
No 70
>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=51.98 E-value=1.4e+02 Score=32.47 Aligned_cols=32 Identities=9% Similarity=0.128 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHhhccChHHHHHHHHhcC
Q 014540 138 LERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (423)
Q Consensus 138 L~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd 169 (423)
..++.....+.++.++.-..|..-....++|+
T Consensus 200 ~~~~~~~~~e~l~~~~~ik~~~~~~~~~~~~~ 231 (592)
T PRK10790 200 LADINDGFNEVINGMSVIQQFRQQARFGERMG 231 (592)
T ss_pred HHHHHHHHHHHHcChHHHHHhhhhHHHHHHHH
Confidence 34444444444444433333443333333333
No 71
>PLN02777 photosystem I P subunit (PSI-P)
Probab=51.96 E-value=97 Score=29.13 Aligned_cols=9 Identities=11% Similarity=-0.381 Sum_probs=4.9
Q ss_pred HHHHHHhHH
Q 014540 125 SFNRMCDRK 133 (423)
Q Consensus 125 ~f~r~~~~~ 133 (423)
|.|||+..+
T Consensus 138 F~yRyLLfk 146 (167)
T PLN02777 138 FAYKNLVFK 146 (167)
T ss_pred hhhhHhcCc
Confidence 346666543
No 72
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=51.87 E-value=6.1 Score=35.70 Aligned_cols=36 Identities=22% Similarity=0.431 Sum_probs=21.5
Q ss_pred CCcceeeccccccccCcc--c-cCCCCceEEEcCCCCCcc
Q 014540 290 SQSYALICGNCHMHNGLA--R-KEDFPYITYYCPHCNALN 326 (423)
Q Consensus 290 t~ryALIC~~C~~HNGlA--~-~ee~e~i~yrC~~Cg~lN 326 (423)
.++--.+|.+|+.-=-.- . ..+. .+.|+||+||..=
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~~~d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQLLDM-DGTFTCPRCGEEL 133 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHHhcCC-CCcEECCCCCCEE
Confidence 456689999997322110 0 0122 3569999999653
No 73
>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=51.47 E-value=1.4e+02 Score=32.36 Aligned_cols=30 Identities=10% Similarity=0.062 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHhhccChHHHHHHHHhc
Q 014540 139 ERLRVERKAKIDELKERTNYYTTQQLIQRY 168 (423)
Q Consensus 139 ~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKY 168 (423)
+++.....+.++-++.-..|.......++|
T Consensus 199 ~~~~~~~~e~l~g~~~ik~~~~e~~~~~~~ 228 (588)
T PRK11174 199 ARLSGHFLDRLRGLETLRLFNRGEAETESI 228 (588)
T ss_pred HHHHHHHHHHhcchHHHHHhcccHHHHHHH
Confidence 333333333333333333344333334444
No 74
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=51.26 E-value=12 Score=25.57 Aligned_cols=29 Identities=24% Similarity=0.632 Sum_probs=20.3
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNR 327 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~ 327 (423)
++|..|+.. |..|... ..+||..|++.|.
T Consensus 2 ~~C~~C~t~--L~yP~gA--~~vrCs~C~~vt~ 30 (31)
T TIGR01053 2 VVCGGCRTL--LMYPRGA--SSVRCALCQTVNL 30 (31)
T ss_pred cCcCCCCcE--eecCCCC--CeEECCCCCeEec
Confidence 578888754 4444333 4899999998874
No 75
>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=51.01 E-value=9.1 Score=35.64 Aligned_cols=38 Identities=18% Similarity=0.287 Sum_probs=25.1
Q ss_pred ccccccccCccc----c-----CCCCceEEEcCCCCCccCCCCCCCCC
Q 014540 297 CGNCHMHNGLAR----K-----EDFPYITYYCPHCNALNRPKESEGHI 335 (423)
Q Consensus 297 C~~C~~HNGlA~----~-----ee~e~i~yrC~~Cg~lN~~~~~~~~~ 335 (423)
|..|... ++-. . .+.-...|.|.+||+.|..-+..+.+
T Consensus 1 CP~Cg~~-~~~~~~~~~~IP~F~evii~sf~C~~CGyr~~ev~~~~~~ 47 (163)
T TIGR00340 1 CPVCGSR-TLKAVTYDYDIPYFGKIMLSTYICEKCGYRSTDVYQLEEK 47 (163)
T ss_pred CCCCCCc-ceEeeeEeccCCCcceEEEEEEECCCCCCchhheeEcCCc
Confidence 7888754 3222 1 12224599999999999887765553
No 76
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=50.64 E-value=12 Score=28.25 Aligned_cols=31 Identities=23% Similarity=0.456 Sum_probs=19.5
Q ss_pred eeeccccccccCccccCCCCceEEEcCCCCCccCCCCCC
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKESE 332 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~~~ 332 (423)
-.||.+|...|..- +-.|..||+-|-..+.+
T Consensus 14 k~ICrkC~ARnp~~--------A~~CRKCg~~~LRpKkk 44 (48)
T PRK04136 14 KKICMRCNARNPWR--------ATKCRKCGYKNLRPKAK 44 (48)
T ss_pred ccchhcccCCCCcc--------ccccccCCCCCcCcccc
Confidence 36888888777432 33788888755444433
No 77
>KOG2691 consensus RNA polymerase II subunit 9 [Transcription]
Probab=50.33 E-value=11 Score=32.91 Aligned_cols=42 Identities=17% Similarity=0.373 Sum_probs=31.1
Q ss_pred HhcCCCCC-c-ceeeccccccccCcccc------CCCCceEEEcCCCCCc
Q 014540 284 LVGDDPSQ-S-YALICGNCHMHNGLARK------EDFPYITYYCPHCNAL 325 (423)
Q Consensus 284 LlGddpt~-r-yALIC~~C~~HNGlA~~------ee~e~i~yrC~~Cg~l 325 (423)
+++.||+= | -.--|.+|+.+-|..-. ++.-.+-|+|..||+.
T Consensus 61 Dl~~DPTLPrts~~~C~~C~~~eavffQ~~~~r~d~~m~l~yvC~~C~h~ 110 (113)
T KOG2691|consen 61 DLASDPTLPRTSDKHCPKCGHREAVFFQAQTRRADEAMRLFYVCCSCGHR 110 (113)
T ss_pred hhccCCCcCccccccCCccCCcceEEEecccccccceEEEEEEecccccc
Confidence 35677773 4 56779999999997663 2333578999999985
No 78
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=50.04 E-value=94 Score=28.15 Aligned_cols=8 Identities=25% Similarity=-0.085 Sum_probs=3.3
Q ss_pred HHHHHHHH
Q 014540 114 GLSALAYS 121 (423)
Q Consensus 114 ili~li~~ 121 (423)
+++|++++
T Consensus 34 iL~~lL~k 41 (156)
T CHL00118 34 LLMVLLNI 41 (156)
T ss_pred HHHHHHHH
Confidence 44444433
No 79
>COG5416 Uncharacterized integral membrane protein [Function unknown]
Probab=49.74 E-value=66 Score=27.71 Aligned_cols=25 Identities=20% Similarity=0.387 Sum_probs=13.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhccc
Q 014540 70 SRHLIIFTVVFEVIAVGYAIMTTRS 94 (423)
Q Consensus 70 ~~~Li~YS~il~ii~lvY~~~~~~~ 94 (423)
++..++-++++-++.++++...+.+
T Consensus 23 ~w~vi~~gilillLllifav~Nt~~ 47 (98)
T COG5416 23 QWTVIIVGILILLLLLIFAVINTDS 47 (98)
T ss_pred eeeHHHHHHHHHHHHHHHHHhccCc
Confidence 3445554555555555566655443
No 80
>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=49.42 E-value=3.2 Score=38.38 Aligned_cols=38 Identities=32% Similarity=0.710 Sum_probs=23.1
Q ss_pred eccccccccCcccc--------CCCCceEEEcCCCCCccCCCCCCCC
Q 014540 296 ICGNCHMHNGLARK--------EDFPYITYYCPHCNALNRPKESEGH 334 (423)
Q Consensus 296 IC~~C~~HNGlA~~--------ee~e~i~yrC~~Cg~lN~~~~~~~~ 334 (423)
.|.+|.. +|.... .+.-...|.|.+||+.|-.-+..+.
T Consensus 3 ~Cp~C~~-~~~~~~~~~~IP~F~evii~sf~C~~CGyk~~ev~~~~~ 48 (161)
T PF03367_consen 3 LCPNCGE-NGTTRILLTDIPYFKEVIIMSFECEHCGYKNNEVKSGGQ 48 (161)
T ss_dssp E-TTTSS-CCEEEEEEEEETTTEEEEEEEEE-TTT--EEEEEEEECS
T ss_pred cCCCCCC-CcEEEEEEEcCCCCceEEEEEeECCCCCCEeeeEEECcc
Confidence 6999995 776542 1222468999999999987766554
No 81
>TIGR01192 chvA glucan exporter ATP-binding protein. This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.
Probab=49.38 E-value=1.6e+02 Score=32.20 Aligned_cols=8 Identities=13% Similarity=0.131 Sum_probs=4.2
Q ss_pred HHHHHhcC
Q 014540 280 IAAILVGD 287 (423)
Q Consensus 280 IlD~LlGd 287 (423)
++..|+|.
T Consensus 377 L~~ll~g~ 384 (585)
T TIGR01192 377 LINLLQRV 384 (585)
T ss_pred HHHHHccC
Confidence 45555555
No 82
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=49.37 E-value=46 Score=27.93 Aligned_cols=29 Identities=17% Similarity=0.127 Sum_probs=20.7
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 014540 39 DDFEKRLQYISKEEAAILARVKRRSQTWR 67 (423)
Q Consensus 39 d~FEK~L~~Ls~kI~~~~srLk~~~~~~R 67 (423)
...|+++..|.++....+.+|+.-+..-|
T Consensus 39 ~~lE~E~~~l~~~l~~~E~eL~~LrkENr 67 (85)
T PF15188_consen 39 RSLEKELNELKEKLENNEKELKLLRKENR 67 (85)
T ss_pred HHHHHHHHHHHHHhhccHHHHHHHHHhhh
Confidence 46778888888887777777777665444
No 83
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=49.37 E-value=20 Score=33.58 Aligned_cols=38 Identities=24% Similarity=0.549 Sum_probs=25.7
Q ss_pred HHHHHHHHHhcCCCCCcceeeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 276 WIARIAAILVGDDPSQSYALICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 276 W~DRIlD~LlGddpt~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
-|-+++|.+-++- ..||..| |..-.++.+ .+||-||+-
T Consensus 121 ~~~~~Le~~~~~~-----~~vC~vC----Gy~~~ge~P---~~CPiCga~ 158 (166)
T COG1592 121 MFRGLLERLEEGK-----VWVCPVC----GYTHEGEAP---EVCPICGAP 158 (166)
T ss_pred HHHHHHHhhhcCC-----EEEcCCC----CCcccCCCC---CcCCCCCCh
Confidence 4556666663333 8999999 665555443 499999963
No 84
>PRK11176 lipid transporter ATP-binding/permease protein; Provisional
Probab=49.23 E-value=1.5e+02 Score=32.12 Aligned_cols=8 Identities=38% Similarity=0.310 Sum_probs=4.3
Q ss_pred HHHHHhcC
Q 014540 280 IAAILVGD 287 (423)
Q Consensus 280 IlD~LlGd 287 (423)
++++|.|.
T Consensus 385 Ll~ll~gl 392 (582)
T PRK11176 385 IANLLTRF 392 (582)
T ss_pred HHHHHHhc
Confidence 45555555
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=49.04 E-value=53 Score=30.01 Aligned_cols=33 Identities=15% Similarity=0.279 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHhhccChHHHHHHHHhc
Q 014540 136 KTLERLRVERKAKIDELKERTNYYTTQQLIQRY 168 (423)
Q Consensus 136 ~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKY 168 (423)
.+.+.+.++.++..+++++..++...+++-++-
T Consensus 43 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~ 75 (168)
T PF01956_consen 43 DKYQKRMKEFQKRYRELRKNGDFKKPKKLEKRQ 75 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCccCHHHHHHHH
Confidence 556777777788888888877777777755443
No 86
>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=48.49 E-value=1.7e+02 Score=24.89 Aligned_cols=19 Identities=37% Similarity=0.378 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 014540 136 KTLERLRVERKAKIDELKE 154 (423)
Q Consensus 136 ~kL~~L~~e~kkkIeelK~ 154 (423)
...++.+++.++-++-+|+
T Consensus 102 ~~~~~t~~~l~~d~~~lk~ 120 (121)
T PF07332_consen 102 PPFEETIAELKEDIAALKE 120 (121)
T ss_pred CCHHHHHHHHHHHHHHhhc
Confidence 3455666666666666654
No 87
>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=48.45 E-value=76 Score=25.18 Aligned_cols=24 Identities=17% Similarity=0.141 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHH
Q 014540 42 EKRLQYISKEEAAILARVKRRSQT 65 (423)
Q Consensus 42 EK~L~~Ls~kI~~~~srLk~~~~~ 65 (423)
|+.....+++|.+...+|+.-...
T Consensus 26 E~~~~~~e~~i~~~~~~l~~I~~n 49 (71)
T PF10779_consen 26 EKRDAANEKDIKNLNKQLEKIKSN 49 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444444433
No 88
>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein. This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.
Probab=48.36 E-value=1.4e+02 Score=32.26 Aligned_cols=7 Identities=14% Similarity=0.031 Sum_probs=2.6
Q ss_pred HHHHhcC
Q 014540 281 AAILVGD 287 (423)
Q Consensus 281 lD~LlGd 287 (423)
++.|+|.
T Consensus 383 lklL~gl 389 (576)
T TIGR02204 383 FQLLLRF 389 (576)
T ss_pred HHHHHhc
Confidence 3333333
No 89
>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=48.27 E-value=1.6e+02 Score=30.82 Aligned_cols=8 Identities=13% Similarity=0.675 Sum_probs=4.5
Q ss_pred HHHHhcCC
Q 014540 163 QLIQRYDP 170 (423)
Q Consensus 163 ~LLEKYd~ 170 (423)
..|++|+.
T Consensus 205 ~vL~~F~~ 212 (353)
T PF03268_consen 205 QVLEKFSH 212 (353)
T ss_pred HHHHHHhH
Confidence 34666664
No 90
>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=47.73 E-value=13 Score=38.03 Aligned_cols=36 Identities=25% Similarity=0.730 Sum_probs=25.6
Q ss_pred HHHHHhcCC--CCCcceeeccccccccCccccCCCCceEEEcCCCCC
Q 014540 280 IAAILVGDD--PSQSYALICGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 280 IlD~LlGdd--pt~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
++.+|.+++ ...|| |.|+-|.. ++.+.+-.|++||.
T Consensus 195 ~~s~~~~~~~~~G~Ry-L~CslC~t--------eW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 195 VASMVRQGGKETGLRY-LSCSLCAT--------EWHYVRVKCSHCEE 232 (305)
T ss_pred hhhhhcccCCCCCceE-EEcCCCCC--------cccccCccCCCCCC
Confidence 455665543 33455 89999976 66777889999994
No 91
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=47.63 E-value=11 Score=33.41 Aligned_cols=33 Identities=24% Similarity=0.592 Sum_probs=21.4
Q ss_pred eeeccccccccCccccCCCCceEEEcCCCCCccCCCCCC
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKESE 332 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~~~ 332 (423)
-.=|.+| ++-..+++ ..|+||.||.-|..-..+
T Consensus 70 ~~~C~~C---~~~~~~e~---~~~~CP~C~s~~~~i~~G 102 (115)
T COG0375 70 ECWCLDC---GQEVELEE---LDYRCPKCGSINLRIIGG 102 (115)
T ss_pred EEEeccC---CCeecchh---heeECCCCCCCceEEecC
Confidence 3567777 55555555 456699999877654433
No 92
>PRK11380 hypothetical protein; Provisional
Probab=47.42 E-value=76 Score=33.13 Aligned_cols=35 Identities=14% Similarity=0.219 Sum_probs=17.8
Q ss_pred CcHHHHHHHHHhcCCCC--------CcceeeccccccccCcccc
Q 014540 274 GGWIARIAAILVGDDPS--------QSYALICGNCHMHNGLARK 309 (423)
Q Consensus 274 r~W~DRIlD~LlGddpt--------~ryALIC~~C~~HNGlA~~ 309 (423)
.-.+++.++-+-|-+|. -|+.-+|.-|+. +|..-.
T Consensus 224 ~e~ir~ca~q~~~~~~a~lI~AWDlgR~v~LaR~~~~-aGyIsE 266 (353)
T PRK11380 224 SDYISDCANHSSGKSPAKLIWAADLSWMISLSRTAFQ-AGTIEE 266 (353)
T ss_pred HHHHHHHHHhhccCCcccchHHHHHHHHHHHHHHHHH-cCCCCH
Confidence 34444555555555444 145566666654 455443
No 93
>PF14992 TMCO5: TMCO5 family
Probab=47.32 E-value=48 Score=33.58 Aligned_cols=35 Identities=23% Similarity=0.487 Sum_probs=15.9
Q ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHHHhhcccccch
Q 014540 63 SQTWRRMSRHLIIFTVVFEVIAVGYAIMTTRSMELN 98 (423)
Q Consensus 63 ~~~~Rr~~~~Li~YS~il~ii~lvY~~~~~~~~~~~ 98 (423)
+..|+|..+.|+|| +++.+-.++|.++...+++.+
T Consensus 211 ~~~wkr~lr~l~f~-vL~f~~LL~y~~f~~~fInpd 245 (280)
T PF14992_consen 211 PTFWKRALRLLFFM-VLFFTRLLGYLLFYIQFINPD 245 (280)
T ss_pred hHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhcCcH
Confidence 45666665554433 333333445554443334443
No 94
>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=46.98 E-value=7 Score=26.56 Aligned_cols=23 Identities=22% Similarity=0.441 Sum_probs=12.4
Q ss_pred ccccccccCccccCCCCceEEEcCCCCC
Q 014540 297 CGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 297 C~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
|.+|.+-+.+ .+-..|+|+-|++
T Consensus 5 Cp~C~se~~y-----~D~~~~vCp~C~~ 27 (30)
T PF08274_consen 5 CPLCGSEYTY-----EDGELLVCPECGH 27 (30)
T ss_dssp -TTT-----E-----E-SSSEEETTTTE
T ss_pred CCCCCCccee-----ccCCEEeCCcccc
Confidence 7888888887 2235789999985
No 95
>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional
Probab=46.48 E-value=2.3e+02 Score=30.60 Aligned_cols=9 Identities=33% Similarity=0.412 Sum_probs=5.8
Q ss_pred HHHHHhcCC
Q 014540 280 IAAILVGDD 288 (423)
Q Consensus 280 IlD~LlGdd 288 (423)
++++|.|.-
T Consensus 365 L~~ll~g~~ 373 (547)
T PRK10522 365 LAMLLTGLY 373 (547)
T ss_pred HHHHHhCCC
Confidence 666677764
No 96
>PRK02654 putative inner membrane protein translocase component YidC; Provisional
Probab=46.40 E-value=1.3e+02 Score=31.66 Aligned_cols=38 Identities=13% Similarity=0.331 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc------cChHHHHHHHHhcCCCh
Q 014540 134 DQKTLERLRVERKAKIDELKER------TNYYTTQQLIQRYDPDP 172 (423)
Q Consensus 134 ~e~kL~~L~~e~kkkIeelK~~------T~Y~~Tk~LLEKYd~~~ 172 (423)
..+|...+|=+.+++++|++++ .--..+++|..+|+ .+
T Consensus 52 S~~KM~~LQPemqkk~~eIqeKYKdDpqk~QqEmmkLYKE~G-NP 95 (375)
T PRK02654 52 NMRRMKIAQPVMQKRQAEIQERYKNDPQKQQEEMGKLMKEFG-NP 95 (375)
T ss_pred HHHHHHHhCchhhhHHHHHHHHhcCCHHHHHHHHHHHHHHcC-CC
Confidence 4566777777777666666542 12345667777787 54
No 97
>KOG3976 consensus Mitochondrial F1F0-ATP synthase, subunit b/ATP4 [Energy production and conversion]
Probab=46.39 E-value=1.1e+02 Score=30.45 Aligned_cols=47 Identities=19% Similarity=0.203 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccChHHHHHHH
Q 014540 119 AYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLI 165 (423)
Q Consensus 119 i~~~~~~f~r~~~~~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LL 165 (423)
++++...+-.+.++.+++++..|++-+++.|.++.+..+=...++-+
T Consensus 112 ~k~~g~ai~~~adk~~~k~~~~~~~arq~~ik~i~d~id~~~sqq~~ 158 (247)
T KOG3976|consen 112 IKKLGPAIADWADKLIEKILSQLEEARQAHIKAISDAIDTEKSQQAL 158 (247)
T ss_pred HHHhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHH
Confidence 44444556677788889999999999999988888776554444433
No 98
>PRK02935 hypothetical protein; Provisional
Probab=46.28 E-value=16 Score=31.87 Aligned_cols=8 Identities=38% Similarity=1.007 Sum_probs=2.9
Q ss_pred eccccccc
Q 014540 296 ICGNCHMH 303 (423)
Q Consensus 296 IC~~C~~H 303 (423)
+|.+|+.+
T Consensus 72 ~CP~C~K~ 79 (110)
T PRK02935 72 ICPSCEKP 79 (110)
T ss_pred ECCCCCch
Confidence 33333333
No 99
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=46.17 E-value=8.6 Score=24.82 Aligned_cols=23 Identities=35% Similarity=0.976 Sum_probs=13.2
Q ss_pred eeeccccccccCccccCCCCceEEEcCCCCC
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
..+|.+|...+ ..+ .-.|++||+
T Consensus 2 ~~~Cp~Cg~~~----~~~----~~fC~~CG~ 24 (26)
T PF13248_consen 2 EMFCPNCGAEI----DPD----AKFCPNCGA 24 (26)
T ss_pred cCCCcccCCcC----Ccc----cccChhhCC
Confidence 45677776632 222 236888875
No 100
>KOG1726 consensus HVA22/DP1 gene product-related proteins [Defense mechanisms]
Probab=46.08 E-value=1.2e+02 Score=29.92 Aligned_cols=31 Identities=26% Similarity=0.316 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHhhccChHHHHHHHHhc
Q 014540 137 TLERLRVERKAKIDELKERTNYYTTQQLIQRY 168 (423)
Q Consensus 137 kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKY 168 (423)
.|.+-.++.+..+.+.|++- |+.+..++.|.
T Consensus 92 ~ls~~E~eid~~l~~~k~~~-~~~a~~~~~r~ 122 (225)
T KOG1726|consen 92 FLSKHEEEIDRMLVEAKERV-YDAAVSILKRA 122 (225)
T ss_pred hhhhHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence 34444555666677777665 88888877776
No 101
>PHA00626 hypothetical protein
Probab=45.48 E-value=15 Score=28.63 Aligned_cols=31 Identities=19% Similarity=0.359 Sum_probs=20.2
Q ss_pred eeccccccc----cCccccCCCCceEEEcCCCCCccCC
Q 014540 295 LICGNCHMH----NGLARKEDFPYITYYCPHCNALNRP 328 (423)
Q Consensus 295 LIC~~C~~H----NGlA~~ee~e~i~yrC~~Cg~lN~~ 328 (423)
+.|.+|.+. +|.... .--.|+|+.||+.-..
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 358888875 333332 1258999999987543
No 102
>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=45.42 E-value=1.3e+02 Score=24.41 Aligned_cols=7 Identities=14% Similarity=0.368 Sum_probs=3.0
Q ss_pred HHHHHHH
Q 014540 45 LQYISKE 51 (423)
Q Consensus 45 L~~Ls~k 51 (423)
|+.|+.+
T Consensus 33 L~~L~~k 39 (89)
T PF00957_consen 33 LEELEDK 39 (89)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 4444444
No 103
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=45.11 E-value=24 Score=31.48 Aligned_cols=36 Identities=22% Similarity=0.490 Sum_probs=22.7
Q ss_pred eccccccccCccccCCCCceEEEcCCCCCccCCCCCCC
Q 014540 296 ICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKESEG 333 (423)
Q Consensus 296 IC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~~~~ 333 (423)
-|--|..-.-....+- .-.|.|++|++.|+-.+.++
T Consensus 2 ~C~fC~~~s~~~~~~~--~~~w~C~~C~q~N~f~e~Gd 37 (131)
T PF09779_consen 2 NCWFCGQNSKVPYDNR--NSNWTCPHCEQYNGFDEDGD 37 (131)
T ss_pred eeccCCCCCCCCCCCC--CCeeECCCCCCccCccccCC
Confidence 3555655543322221 23499999999999877665
No 104
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=45.06 E-value=68 Score=28.46 Aligned_cols=34 Identities=18% Similarity=0.324 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcCC
Q 014540 135 QKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (423)
Q Consensus 135 e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~ 170 (423)
++.|++.+.++..-=.+| .+.|..|.+|+.+-..
T Consensus 31 ~~eL~~~k~el~~yk~~V--~~HF~~ta~Ll~~l~~ 64 (128)
T PF06295_consen 31 EQELEQAKQELEQYKQEV--NDHFAQTAELLDNLTQ 64 (128)
T ss_pred HHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHH
Confidence 445555555555444455 3478999998876554
No 105
>KOG2703 consensus C4-type Zn-finger protein [General function prediction only]
Probab=44.74 E-value=12 Score=39.67 Aligned_cols=41 Identities=32% Similarity=0.670 Sum_probs=28.0
Q ss_pred eeccccccccCccc--c---C---CCCceEEEcCCCCCccCCCCCCCCCC
Q 014540 295 LICGNCHMHNGLAR--K---E---DFPYITYYCPHCNALNRPKESEGHIS 336 (423)
Q Consensus 295 LIC~~C~~HNGlA~--~---e---e~e~i~yrC~~Cg~lN~~~~~~~~~~ 336 (423)
-.|-+|.. ||.-+ . . |.-.-.|.|++||+.|-.-.+.+.+.
T Consensus 40 S~Cm~Cg~-nG~TRlllT~IP~fREvVimSF~CpHCG~kN~eiQ~a~~iQ 88 (460)
T KOG2703|consen 40 SLCMNCGE-NGTTRLLLTSIPYFREVVIMSFECPHCGHKNNEIQSAEEIQ 88 (460)
T ss_pred Hhhhhccc-CCceeEEEeecchhheeeeEEeecCccCCccccccchhccc
Confidence 57999986 55522 1 1 22245899999999998877655543
No 106
>TIGR00845 caca sodium/calcium exchanger 1. This model is specific for the eukaryotic sodium ion/calcium ion exchangers of the Caca family
Probab=44.47 E-value=6.2 Score=45.79 Aligned_cols=28 Identities=21% Similarity=0.367 Sum_probs=18.1
Q ss_pred ccchhhhhHHHHHHHHHHH--HHHHHHhHH
Q 014540 106 VLPIFLLPGLSALAYSAFV--SFNRMCDRK 133 (423)
Q Consensus 106 ~lp~~l~Pili~li~~~~~--~f~r~~~~~ 133 (423)
++-++.||+++.+.|.+-+ +||+|+.+|
T Consensus 233 ~lTl~ffp~~V~~A~~aD~~l~~~k~~~k~ 262 (928)
T TIGR00845 233 LLTFFFFPLCVVFAWVADRRLLFYKYVYKR 262 (928)
T ss_pred HHHHHHHHHHHHHHHHHhcchhhhhhcccc
Confidence 3456778999988876632 355665543
No 107
>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=43.94 E-value=1.3e+02 Score=33.42 Aligned_cols=8 Identities=25% Similarity=0.488 Sum_probs=3.5
Q ss_pred HHHHHhcC
Q 014540 280 IAAILVGD 287 (423)
Q Consensus 280 IlD~LlGd 287 (423)
++.+|+|-
T Consensus 495 LlklL~gl 502 (686)
T TIGR03797 495 LLRLLLGF 502 (686)
T ss_pred HHHHHhCC
Confidence 34444444
No 108
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=43.94 E-value=2.5e+02 Score=32.70 Aligned_cols=26 Identities=15% Similarity=0.336 Sum_probs=15.0
Q ss_pred HHHHHHHhhccChHHHHHHHHhcCCC
Q 014540 146 KAKIDELKERTNYYTTQQLIQRYDPD 171 (423)
Q Consensus 146 kkkIeelK~~T~Y~~Tk~LLEKYd~~ 171 (423)
.+.+|+-|-++.=..+.++-.||+..
T Consensus 461 D~~vdkak~eeseqkA~e~~kk~~ke 486 (1102)
T KOG1924|consen 461 DKMVDKAKAEESEQKAAELEKKFDKE 486 (1102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444677777778765
No 109
>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
Probab=43.53 E-value=2.9e+02 Score=29.88 Aligned_cols=58 Identities=14% Similarity=0.202 Sum_probs=31.7
Q ss_pred hhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcCC
Q 014540 112 LPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (423)
Q Consensus 112 ~Pili~li~~~~~~f~r~~~~~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~ 170 (423)
+|++++++..+.... +...++.++.+.++.....+.+.-.+....|.....-.++|+.
T Consensus 162 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~e~l~~~~~ik~f~~~~~~~~~~~~ 219 (567)
T COG1132 162 LPLLALVLSLLARKS-RKLSRRVREALGELNARLLESLSGIRVIKAFGAEDRELKRFEE 219 (567)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhchHHHHHHhhhHHHHHHHHH
Confidence 455554444333222 2333344556667776666677666666666666655556554
No 110
>PRK04351 hypothetical protein; Provisional
Probab=43.45 E-value=15 Score=33.61 Aligned_cols=32 Identities=22% Similarity=0.533 Sum_probs=25.2
Q ss_pred CcceeeccccccccCccccCCCCceEEEcCCCCC
Q 014540 291 QSYALICGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 291 ~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
.+|...|.+|..+..-...-+ .-+|+|..|+.
T Consensus 109 ~~y~Y~C~~Cg~~~~r~Rr~n--~~~yrCg~C~g 140 (149)
T PRK04351 109 KNYLYECQSCGQQYLRKRRIN--TKRYRCGKCRG 140 (149)
T ss_pred ceEEEECCCCCCEeeeeeecC--CCcEEeCCCCc
Confidence 459999999998887665433 36899999984
No 111
>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=43.37 E-value=2.6e+02 Score=30.20 Aligned_cols=8 Identities=38% Similarity=0.684 Sum_probs=3.9
Q ss_pred HHHHHhcC
Q 014540 280 IAAILVGD 287 (423)
Q Consensus 280 IlD~LlGd 287 (423)
+++.|.|.
T Consensus 360 L~~ll~g~ 367 (544)
T TIGR01842 360 LARLIVGI 367 (544)
T ss_pred HHHHHhCC
Confidence 44445554
No 112
>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=43.28 E-value=1.5e+02 Score=24.11 Aligned_cols=36 Identities=17% Similarity=0.287 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcCC
Q 014540 133 KDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (423)
Q Consensus 133 ~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~ 170 (423)
..++.+++|+++.....+|..+ --.+++++++.-+.
T Consensus 30 ~~~~ti~~l~~~~~~i~~e~~~--ll~~~n~l~~dv~~ 65 (90)
T PF06103_consen 30 EVNKTIDTLQEQVDPITKEIND--LLHNTNELLEDVNE 65 (90)
T ss_pred HHHHHHHHHHHhHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence 3456677777777777776644 34667777765543
No 113
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=43.04 E-value=7 Score=29.52 Aligned_cols=31 Identities=23% Similarity=0.401 Sum_probs=23.4
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCCCCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKESEG 333 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~~~~ 333 (423)
.||..|..-|+..- -.|..||.-|-..+.++
T Consensus 15 kIC~rC~Arnp~~A--------~kCRkC~~k~LR~K~ke 45 (50)
T COG1552 15 KICRRCYARNPPRA--------TKCRKCGYKNLRPKKKE 45 (50)
T ss_pred HHHHHhcCCCCcch--------hHHhhccCCCccccccc
Confidence 68999998887643 38999988887666544
No 114
>KOG2302 consensus T-type voltage-gated Ca2+ channel, pore-forming alpha1I subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=42.78 E-value=1.2e+02 Score=36.20 Aligned_cols=35 Identities=31% Similarity=0.510 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHh
Q 014540 132 RKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQR 167 (423)
Q Consensus 132 ~~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEK 167 (423)
|+.|++|++|.+++++- +-.--..+|-.|+.||++
T Consensus 1402 RreEKrLrrlekkrR~A-q~kpyyseyt~~rrlIh~ 1436 (1956)
T KOG2302|consen 1402 RREEKRLRRLEKKRRAA-QRKPYYSEYTMTRRLIHS 1436 (1956)
T ss_pred HHHHHHHHHHHHHHHhc-cCCcccccccHHHHHHHH
Confidence 45677788887776621 111123356677777754
No 115
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=42.74 E-value=10 Score=23.96 Aligned_cols=15 Identities=33% Similarity=0.773 Sum_probs=11.6
Q ss_pred EEEcCCCCCccCCCC
Q 014540 316 TYYCPHCNALNRPKE 330 (423)
Q Consensus 316 ~yrC~~Cg~lN~~~~ 330 (423)
.|.|..|++.|....
T Consensus 2 ~W~C~~C~~~N~~~~ 16 (26)
T smart00547 2 DWECPACTFLNFASR 16 (26)
T ss_pred cccCCCCCCcChhhh
Confidence 588888888887653
No 116
>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=42.55 E-value=3.2e+02 Score=26.36 Aligned_cols=24 Identities=25% Similarity=0.470 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccChHHHHH
Q 014540 133 KDQKTLERLRVERKAKIDELKERTNYYTTQQ 163 (423)
Q Consensus 133 ~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~ 163 (423)
....+++.++. |+.++..|+.+-.
T Consensus 154 ~l~~~i~r~kk-------eI~KR~sYn~aar 177 (195)
T PF01616_consen 154 SLQEQIKRLKK-------EIMKRQSYNDAAR 177 (195)
T ss_pred HHHHHHHHHHH-------HHHHHHHHHHHHH
Confidence 33444555553 4445556887654
No 117
>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional
Probab=42.45 E-value=2.9e+02 Score=30.11 Aligned_cols=8 Identities=13% Similarity=0.131 Sum_probs=3.7
Q ss_pred HHHHHhcC
Q 014540 280 IAAILVGD 287 (423)
Q Consensus 280 IlD~LlGd 287 (423)
+++.|+|-
T Consensus 377 Ll~lL~gl 384 (588)
T PRK13657 377 LINLLQRV 384 (588)
T ss_pred HHHHHhcC
Confidence 44444444
No 118
>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=42.35 E-value=1.4e+02 Score=24.30 Aligned_cols=44 Identities=30% Similarity=0.511 Sum_probs=23.0
Q ss_pred CCcHH---HHHHHHHHHHHHHHHHHHHhHHHHHhhhhH-HHHHHHHHHHH
Q 014540 38 GDDFE---KRLQYISKEEAAILARVKRRSQTWRRMSRH-LIIFTVVFEVI 83 (423)
Q Consensus 38 ~d~FE---K~L~~Ls~kI~~~~srLk~~~~~~Rr~~~~-Li~YS~il~ii 83 (423)
+++|+ ++|..|++|+.-+.+.+-+|.- +++-|- =|+|++++-++
T Consensus 11 ~~~~~~i~~rLd~iEeKvEf~~~Ei~Qr~G--kkiGRDiGIlYG~v~Gli 58 (70)
T PF04210_consen 11 PDDFNEIMKRLDEIEEKVEFTNAEIAQRAG--KKIGRDIGILYGLVIGLI 58 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHh--HHhhhHHHHHHHHHHHHH
Confidence 45554 4566677777666665543321 333222 24577765544
No 119
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=42.24 E-value=10 Score=43.09 Aligned_cols=43 Identities=14% Similarity=0.240 Sum_probs=26.3
Q ss_pred CCcHHHHHHHHHhcCC-C---CCcceeeccccccccCccccCCCCceEEEcCCCCC
Q 014540 273 DGGWIARIAAILVGDD-P---SQSYALICGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 273 ~r~W~DRIlD~LlGdd-p---t~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
+..-+..|+++.--.+ + -+.=-=||..|..+.|. .|.||.||.
T Consensus 655 n~eal~~lvk~~~~~~i~Y~sin~~~~~C~~CG~~~~~---------~~~CP~CG~ 701 (735)
T PRK07111 655 NVEAFEIIVKAMKNTNIGYGSINHPVDRCPVCGYLGVI---------EDKCPKCGS 701 (735)
T ss_pred CHHHHHHHHHHHHhCCCceEEeCCCCeecCCCCCCCCc---------CccCcCCCC
Confidence 3455667777643211 0 02223689999966663 279999995
No 120
>COG1422 Predicted membrane protein [Function unknown]
Probab=42.22 E-value=1e+02 Score=29.85 Aligned_cols=34 Identities=18% Similarity=0.287 Sum_probs=20.1
Q ss_pred HHHHHHHHHHH---HHHHHHHHhhccChHHHHHHHHh
Q 014540 134 DQKTLERLRVE---RKAKIDELKERTNYYTTQQLIQR 167 (423)
Q Consensus 134 ~e~kL~~L~~e---~kkkIeelK~~T~Y~~Tk~LLEK 167 (423)
++++++++|++ .|+..+|.+++-|-..-++|-|+
T Consensus 70 D~ekm~~~qk~m~efq~e~~eA~~~~d~~~lkkLq~~ 106 (201)
T COG1422 70 DQEKMKELQKMMKEFQKEFREAQESGDMKKLKKLQEK 106 (201)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 34566666654 45566666666666665555443
No 121
>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=41.89 E-value=27 Score=25.38 Aligned_cols=39 Identities=21% Similarity=0.397 Sum_probs=26.2
Q ss_pred HHHHHHHHhcCCCCCcceeeccccccccCccccCCCCceEEEcCCCCC
Q 014540 277 IARIAAILVGDDPSQSYALICGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 277 ~DRIlD~LlGddpt~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
++=|.++--+++ .+|.+|.......... ...|+|-.|+.
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 344444445555 6799999885444444 37999999984
No 122
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=41.73 E-value=15 Score=35.37 Aligned_cols=36 Identities=17% Similarity=0.238 Sum_probs=24.5
Q ss_pred ceeeccccccccCcc----ccCCCCceEEEcCCCCCccCCCC
Q 014540 293 YALICGNCHMHNGLA----RKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 293 yALIC~~C~~HNGlA----~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
.-+.|.+|. -+=. .++.-....++|..||..+++..
T Consensus 5 iy~~Cp~Cg--~eev~hEVik~~g~~~lvrC~eCG~V~~~~i 44 (201)
T COG1326 5 IYIECPSCG--SEEVSHEVIKERGREPLVRCEECGTVHPAII 44 (201)
T ss_pred EEEECCCCC--cchhhHHHHHhcCCceEEEccCCCcEeecee
Confidence 458899998 2222 23322336899999999997653
No 123
>KOG4544 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.31 E-value=2.8e+02 Score=25.38 Aligned_cols=18 Identities=11% Similarity=0.183 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 014540 134 DQKTLERLRVERKAKIDE 151 (423)
Q Consensus 134 ~e~kL~~L~~e~kkkIee 151 (423)
+-.+|++.+++-..++|+
T Consensus 98 yGd~l~ri~etA~~lLet 115 (144)
T KOG4544|consen 98 YGDQLKRISETATQLLET 115 (144)
T ss_pred cchHHHHHHHHHHHHHhC
Confidence 345666666665544443
No 124
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=41.21 E-value=40 Score=30.98 Aligned_cols=14 Identities=14% Similarity=0.133 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHH
Q 014540 135 QKTLERLRVERKAK 148 (423)
Q Consensus 135 e~kL~~L~~e~kkk 148 (423)
+.+|.+|+++++++
T Consensus 130 ~~eL~qLq~rL~qT 143 (152)
T PF15361_consen 130 DYELAQLQERLAQT 143 (152)
T ss_pred HHHHHHHHHHHHHH
Confidence 45677777766543
No 125
>PRK01315 putative inner membrane protein translocase component YidC; Provisional
Probab=41.02 E-value=2.4e+02 Score=29.23 Aligned_cols=39 Identities=13% Similarity=0.203 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhc--cChHHHHHHHHhcCCChh
Q 014540 135 QKTLERLRVERKAKIDELKER--TNYYTTQQLIQRYDPDPA 173 (423)
Q Consensus 135 e~kL~~L~~e~kkkIeelK~~--T~Y~~Tk~LLEKYd~~~~ 173 (423)
..|...|+-+.+++-++.|.+ .-=..+++|..+|+-.+-
T Consensus 68 ~~km~~lqPe~~~iq~kyk~~~~~~~~e~~~Lykk~ginp~ 108 (329)
T PRK01315 68 QRNMQEIQPKMKKIQEKYKGDRERMSQEMMKLYKETGTNPL 108 (329)
T ss_pred HHHHHHccHHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCch
Confidence 445555554444444433311 112457788888887653
No 126
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=40.69 E-value=2.2e+02 Score=29.49 Aligned_cols=16 Identities=19% Similarity=0.409 Sum_probs=11.9
Q ss_pred ccChHHHHHHHHhcCC
Q 014540 155 RTNYYTTQQLIQRYDP 170 (423)
Q Consensus 155 ~T~Y~~Tk~LLEKYd~ 170 (423)
+-+|..+.+++.+-..
T Consensus 97 eGd~~~A~k~l~~~~~ 112 (398)
T PRK10747 97 EGDYQQVEKLMTRNAD 112 (398)
T ss_pred CCCHHHHHHHHHHHHh
Confidence 5688888888887443
No 127
>PLN00162 transport protein sec23; Provisional
Probab=40.43 E-value=16 Score=41.69 Aligned_cols=36 Identities=31% Similarity=0.579 Sum_probs=25.0
Q ss_pred eeeccccccc-cCccccCCCCceEEEcCCCCCccCCCC
Q 014540 294 ALICGNCHMH-NGLARKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 294 ALIC~~C~~H-NGlA~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
++.|++|+.. |-...- ++.--.|+|+.|+..|.-..
T Consensus 53 pvRC~~CraylNPf~~~-d~~~~~W~C~~C~~~N~~P~ 89 (761)
T PLN00162 53 PLRCRTCRAVLNPYCRV-DFQAKIWICPFCFQRNHFPP 89 (761)
T ss_pred CCccCCCcCEECCceEE-ecCCCEEEccCCCCCCCCch
Confidence 4779999863 444433 33346899999999997543
No 128
>PRK00750 lysK lysyl-tRNA synthetase; Reviewed
Probab=40.20 E-value=32 Score=37.47 Aligned_cols=54 Identities=19% Similarity=0.313 Sum_probs=34.3
Q ss_pred CcHHHHHHHHHhcCCCCC---cceeeccccccccCcccc---CCCCceEEEcCCCCCccCC
Q 014540 274 GGWIARIAAILVGDDPSQ---SYALICGNCHMHNGLARK---EDFPYITYYCPHCNALNRP 328 (423)
Q Consensus 274 r~W~DRIlD~LlGddpt~---ryALIC~~C~~HNGlA~~---ee~e~i~yrC~~Cg~lN~~ 328 (423)
+..+-+|+.-..|+.-.. .|--||.+|...+.-.-. .+...+.|.|. ||+-.-.
T Consensus 152 ~~~i~~il~~~~~~~~~~~~~P~~pic~~cg~~~~~~~~~~d~~~~~v~y~~~-cG~~~~~ 211 (510)
T PRK00750 152 RDEIMEILLPYLGEERQATYSPFLPICPKCGKVLTTPVISYDAEAGTVTYDCE-CGHEGEV 211 (510)
T ss_pred HHHHHHHHHHhcCCccCCCeeeeeeeCCCCCccceEEEEEEeCCCCEEEEEcC-CCCEEEE
Confidence 344444555555764332 578999999999764442 23335899885 9986543
No 129
>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]
Probab=40.06 E-value=2.1e+02 Score=32.75 Aligned_cols=20 Identities=25% Similarity=0.409 Sum_probs=12.3
Q ss_pred cceeehhhhhhhccCCCcHH
Q 014540 23 KGIISRLWNGIFRLKGDDFE 42 (423)
Q Consensus 23 ~~~~S~~w~~~Fr~~~d~FE 42 (423)
.++-.++|+.+++..-+-||
T Consensus 227 ~~l~~~~~~hll~Lpl~~f~ 246 (709)
T COG2274 227 LELSGRFFRHLLRLPLSYFE 246 (709)
T ss_pred HHHHHHHHHHHHcCcHHHcc
Confidence 44556667767666555566
No 130
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=40.03 E-value=1.2e+02 Score=29.96 Aligned_cols=16 Identities=19% Similarity=0.189 Sum_probs=12.2
Q ss_pred CCCcHHHHHHHHHhcC
Q 014540 272 HDGGWIARIAAILVGD 287 (423)
Q Consensus 272 ~~r~W~DRIlD~LlGd 287 (423)
-++.|+.+++.=|+..
T Consensus 243 ~d~~~l~~il~nLi~N 258 (356)
T PRK10755 243 GDATLLRLLLRNLVEN 258 (356)
T ss_pred ECHHHHHHHHHHHHHH
Confidence 3678999988888753
No 131
>TIGR01194 cyc_pep_trnsptr cyclic peptide transporter. This model describes cyclic peptide transporter in bacteria. Bacteria have elaborate pathways for the production of toxins and secondary metabolites. Many such compounds, including syringomycin and pyoverdine are synthesized on non-ribosomal templates consisting of a multienzyme complex. On several occasions the proteins of the complex and transporter protein are present on the same operon. Often times these compounds cross the biological membrane by specific transporters. Syringomycin is an amphipathic, cylclic lipodepsipeptide when inserted into host causes formation of channels, permeable to variety of cations. On the other hand, pyoverdine is a cyclic octa-peptidyl dihydroxyquinoline, which is efficient in sequestering iron for uptake.
Probab=39.72 E-value=5e+02 Score=28.20 Aligned_cols=23 Identities=13% Similarity=-0.155 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHhhccChH
Q 014540 137 TLERLRVERKAKIDELKERTNYY 159 (423)
Q Consensus 137 kL~~L~~e~kkkIeelK~~T~Y~ 159 (423)
..+++.....+.++-.+.-.-|.
T Consensus 186 ~~~~~~~~~~e~~~g~~~ik~~~ 208 (555)
T TIGR01194 186 EEDAFNEHTHAIAFGAKELKIHG 208 (555)
T ss_pred hHHHHHHHHHHHHhHHHHHhcCH
Confidence 34444444444444444433344
No 132
>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=39.69 E-value=1.9e+02 Score=32.32 Aligned_cols=8 Identities=13% Similarity=0.140 Sum_probs=4.0
Q ss_pred HHHHHhcC
Q 014540 280 IAAILVGD 287 (423)
Q Consensus 280 IlD~LlGd 287 (423)
++.+|.|.
T Consensus 499 L~~ll~g~ 506 (694)
T TIGR01846 499 LTKLLQRL 506 (694)
T ss_pred HHHHHhcC
Confidence 44455554
No 133
>COG4420 Predicted membrane protein [Function unknown]
Probab=39.55 E-value=2.2e+02 Score=27.44 Aligned_cols=47 Identities=19% Similarity=0.200 Sum_probs=24.2
Q ss_pred ccchhhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHh
Q 014540 106 VLPIFLLPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELK 153 (423)
Q Consensus 106 ~lp~~l~Pili~li~~~~~~f~r~~~~~~e~kL~~L~~e~kkkIeelK 153 (423)
-.|++++-+++.++..+..-+. ++-.+.+...++++++++-.+..+-
T Consensus 86 pyPFi~LnLllS~~AaiqAp~I-lmSQNRQa~rDr~~a~~d~qvnlka 132 (191)
T COG4420 86 PYPFILLNLLLSTLAAIQAPLI-LMSQNRQAERDRLRAELDYQVNLKA 132 (191)
T ss_pred CccHHHHHHHHHHHHHHHHhHH-HHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 3566666555544432222222 2233446677777777766555543
No 134
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=39.51 E-value=20 Score=30.19 Aligned_cols=33 Identities=18% Similarity=0.407 Sum_probs=24.3
Q ss_pred cceeeccccccccCcccc-------CCCCceEEEcCCCCCc
Q 014540 292 SYALICGNCHMHNGLARK-------EDFPYITYYCPHCNAL 325 (423)
Q Consensus 292 ryALIC~~C~~HNGlA~~-------ee~e~i~yrC~~Cg~l 325 (423)
+-...|.+|. |++++-- .|...+-|+|..||+.
T Consensus 60 ~~~~~Cp~Cg-~~~a~f~~~Q~RsadE~~T~fy~C~~C~~~ 99 (104)
T TIGR01384 60 TTRVECPKCG-HKEAYYWLLQTRRADEPETRFYKCTKCGYV 99 (104)
T ss_pred cccCCCCCCC-CCeeEEEEeccCCCCCCcEEEEEeCCCCCe
Confidence 3458999996 6665431 3667899999999973
No 135
>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=39.35 E-value=25 Score=36.56 Aligned_cols=52 Identities=19% Similarity=0.342 Sum_probs=33.7
Q ss_pred CCcHHHHHHHHHhcCCCC---CcceeeccccccccCccccC----CCCceEEEcCCCCCccC
Q 014540 273 DGGWIARIAAILVGDDPS---QSYALICGNCHMHNGLARKE----DFPYITYYCPHCNALNR 327 (423)
Q Consensus 273 ~r~W~DRIlD~LlGddpt---~ryALIC~~C~~HNGlA~~e----e~e~i~yrC~~Cg~lN~ 327 (423)
++.-+.+|+.-..|..-. ..|--||.+|..-. ++.. +...+.|+| .||+-.-
T Consensus 145 ~~~~I~~i~~~~~~~~~~~~~~P~~p~c~~cg~~~--~~v~~~d~~~~~v~y~c-~cG~~g~ 203 (353)
T cd00674 145 KRDEIMAILNEYRGRELQETWYPFMPYCEKCGKDT--TTVEAYDAKAGTVTYKC-ECGHEET 203 (353)
T ss_pred HCChHHHHHHHhcCCccCCCceeeeeecCCcCcce--eEEEEEeCCCCeEEEEc-CCCCEEE
Confidence 445556666666676322 25889999999443 5542 334599999 5997654
No 136
>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=39.31 E-value=53 Score=26.93 Aligned_cols=11 Identities=27% Similarity=0.480 Sum_probs=5.0
Q ss_pred HHHHHHHHHHH
Q 014540 134 DQKTLERLRVE 144 (423)
Q Consensus 134 ~e~kL~~L~~e 144 (423)
++++|++|..+
T Consensus 40 d~~~L~~L~~~ 50 (75)
T PF06667_consen 40 DEQRLQELYEQ 50 (75)
T ss_pred HHHHHHHHHHH
Confidence 34445555433
No 137
>PTZ00265 multidrug resistance protein (mdr1); Provisional
Probab=39.22 E-value=2.1e+02 Score=35.45 Aligned_cols=32 Identities=3% Similarity=0.189 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHhhccChHHHHHHHHhcC
Q 014540 138 LERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (423)
Q Consensus 138 L~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd 169 (423)
..++..-..+.|.-++.-..|..-...++||+
T Consensus 232 ~~~~~~~~~E~l~gi~tVka~~~e~~~~~~f~ 263 (1466)
T PTZ00265 232 NNNTMSIIEEALVGIRTVVSYCGEKTILKKFN 263 (1466)
T ss_pred HHHHHHHHHHHHhChHHHHHhccCHHHHHHHH
Confidence 34454555555555555556666666666665
No 138
>PRK03954 ribonuclease P protein component 4; Validated
Probab=39.17 E-value=17 Score=32.36 Aligned_cols=32 Identities=25% Similarity=0.612 Sum_probs=21.6
Q ss_pred eeccccccc-----cCccccCC--CCceEEEcCCCCCcc
Q 014540 295 LICGNCHMH-----NGLARKED--FPYITYYCPHCNALN 326 (423)
Q Consensus 295 LIC~~C~~H-----NGlA~~ee--~e~i~yrC~~Cg~lN 326 (423)
.||.+|.++ |--+.... ...+.+.|-.||+..
T Consensus 65 ~~CK~C~t~LiPG~n~~vRi~~~~~~~vvitCl~CG~~k 103 (121)
T PRK03954 65 RYCKRCHSFLVPGVNARVRLRQKRMPHVVITCLECGHIM 103 (121)
T ss_pred HHhhcCCCeeecCCceEEEEecCCcceEEEECccCCCEE
Confidence 689999776 33333322 246889999999763
No 139
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=39.05 E-value=19 Score=33.38 Aligned_cols=31 Identities=26% Similarity=0.707 Sum_probs=21.2
Q ss_pred CcceeeccccccccCccccCCCCceE----EEcCCCCC
Q 014540 291 QSYALICGNCHMHNGLARKEDFPYIT----YYCPHCNA 324 (423)
Q Consensus 291 ~ryALIC~~C~~HNGlA~~ee~e~i~----yrC~~Cg~ 324 (423)
.+|.-.|+ |..| .-.+--...++ |||..|+.
T Consensus 114 ~~~~Y~C~-C~q~--~l~~RRhn~~~~g~~YrC~~C~g 148 (156)
T COG3091 114 TTYPYRCQ-CQQH--YLRIRRHNTVRRGEVYRCGKCGG 148 (156)
T ss_pred cceeEEee-cCCc--cchhhhcccccccceEEeccCCc
Confidence 46899999 9998 22222222344 99999984
No 140
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=39.02 E-value=22 Score=37.84 Aligned_cols=33 Identities=27% Similarity=0.592 Sum_probs=25.1
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
++|..|..+.-..+.+.-+ +.+|+.||+.=-.+
T Consensus 11 ~~C~~Cd~l~~~~~l~~g~--~a~CpRCg~~L~~~ 43 (419)
T PRK15103 11 ILCPQCDMLVALPRLEHGQ--KAACPRCGTTLTVR 43 (419)
T ss_pred ccCCCCCceeecCCCCCCC--eeECCCCCCCCcCC
Confidence 6799999998877654332 67899999876544
No 141
>COG1422 Predicted membrane protein [Function unknown]
Probab=38.65 E-value=1.5e+02 Score=28.71 Aligned_cols=11 Identities=27% Similarity=0.338 Sum_probs=4.4
Q ss_pred HHHHHHHHHHH
Q 014540 134 DQKTLERLRVE 144 (423)
Q Consensus 134 ~e~kL~~L~~e 144 (423)
.++..+.+|++
T Consensus 77 ~qk~m~efq~e 87 (201)
T COG1422 77 LQKMMKEFQKE 87 (201)
T ss_pred HHHHHHHHHHH
Confidence 33444444433
No 142
>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=38.55 E-value=3e+02 Score=28.49 Aligned_cols=15 Identities=20% Similarity=0.441 Sum_probs=10.8
Q ss_pred ccChHHHHHHHHhcC
Q 014540 155 RTNYYTTQQLIQRYD 169 (423)
Q Consensus 155 ~T~Y~~Tk~LLEKYd 169 (423)
+-+|..+.+.+.+-.
T Consensus 97 ~g~~~~A~~~l~~~~ 111 (409)
T TIGR00540 97 EGDYAKAEKLIAKNA 111 (409)
T ss_pred CCCHHHHHHHHHHHh
Confidence 557888888886643
No 143
>PF13937 DUF4212: Domain of unknown function (DUF4212)
Probab=38.44 E-value=1.6e+02 Score=24.34 Aligned_cols=8 Identities=25% Similarity=0.688 Sum_probs=3.7
Q ss_pred hHHHHHhh
Q 014540 62 RSQTWRRM 69 (423)
Q Consensus 62 ~~~~~Rr~ 69 (423)
+++.+|+.
T Consensus 3 ~~~yWr~n 10 (81)
T PF13937_consen 3 ARAYWRKN 10 (81)
T ss_pred hHHHHHHH
Confidence 34445544
No 144
>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=38.38 E-value=24 Score=37.25 Aligned_cols=33 Identities=27% Similarity=0.575 Sum_probs=24.4
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
++|.+|....-..+.+.-+ +.+|+.||+.=-.+
T Consensus 14 ~~C~~Cd~l~~~~~l~~g~--~a~CpRCg~~L~~~ 46 (403)
T TIGR00155 14 ILCSQCDMLVALPRIESGQ--KAACPRCGTTLTVG 46 (403)
T ss_pred eeCCCCCCcccccCCCCCC--eeECCCCCCCCcCC
Confidence 4599999998887644322 67899999876443
No 145
>PRK09609 hypothetical protein; Provisional
Probab=37.62 E-value=2.1e+02 Score=29.48 Aligned_cols=35 Identities=3% Similarity=-0.085 Sum_probs=19.9
Q ss_pred hhhHHHHHHHHHHHHHH--HHHhHHHHHHHHHHHHHH
Q 014540 111 LLPGLSALAYSAFVSFN--RMCDRKDQKTLERLRVER 145 (423)
Q Consensus 111 l~Pili~li~~~~~~f~--r~~~~~~e~kL~~L~~e~ 145 (423)
+..++.|++++.+..++ ++++.+.++|.+.++++-
T Consensus 92 I~Glf~~~~fk~~~~~f~~~~~~~~~~~~i~~~~~~~ 128 (312)
T PRK09609 92 IPGIVGWFFFKFGKKFFGKESRIKRYDNKIFKQKEQY 128 (312)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 34455566666654443 555666666776666553
No 146
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=37.45 E-value=23 Score=27.15 Aligned_cols=26 Identities=27% Similarity=0.722 Sum_probs=19.5
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
-+|.+|.. +-.-...|+.||+.+|..
T Consensus 27 ~~C~~cG~---------~~~~H~vc~~cG~Y~gr~ 52 (55)
T TIGR01031 27 VVCPNCGE---------FKLPHRVCPSCGYYKGRQ 52 (55)
T ss_pred eECCCCCC---------cccCeeECCccCeECCEE
Confidence 46888863 334588999999998853
No 147
>PF13038 DUF3899: Domain of unknown function (DUF3899)
Probab=37.19 E-value=26 Score=28.87 Aligned_cols=7 Identities=14% Similarity=0.463 Sum_probs=4.1
Q ss_pred ccceeeh
Q 014540 22 RKGIISR 28 (423)
Q Consensus 22 ~~~~~S~ 28 (423)
++|+|..
T Consensus 23 ~~GfFd~ 29 (92)
T PF13038_consen 23 QSGFFDG 29 (92)
T ss_pred hcCchHH
Confidence 3566665
No 148
>PRK09458 pspB phage shock protein B; Provisional
Probab=37.02 E-value=44 Score=27.44 Aligned_cols=15 Identities=13% Similarity=0.129 Sum_probs=8.2
Q ss_pred hhhhhHHHHHHHHHH
Q 014540 109 IFLLPGLSALAYSAF 123 (423)
Q Consensus 109 ~~l~Pili~li~~~~ 123 (423)
++++|++|++++.+-
T Consensus 5 fl~~PliiF~ifVaP 19 (75)
T PRK09458 5 FLAIPLTIFVLFVAP 19 (75)
T ss_pred HHHHhHHHHHHHHHH
Confidence 344566666655443
No 149
>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB 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. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.
Probab=36.82 E-value=3e+02 Score=30.69 Aligned_cols=8 Identities=25% Similarity=0.517 Sum_probs=3.4
Q ss_pred HHHHHhcC
Q 014540 280 IAAILVGD 287 (423)
Q Consensus 280 IlD~LlGd 287 (423)
++..|.|-
T Consensus 507 LlklL~gl 514 (694)
T TIGR03375 507 LLKLLLGL 514 (694)
T ss_pred HHHHHhcC
Confidence 44444443
No 150
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=36.81 E-value=15 Score=31.94 Aligned_cols=31 Identities=19% Similarity=0.401 Sum_probs=19.6
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
...-|.+|... ...++ ..|.||.||..+-.-
T Consensus 69 ~~~~C~~Cg~~---~~~~~---~~~~CP~Cgs~~~~i 99 (113)
T PRK12380 69 AQAWCWDCSQV---VEIHQ---HDAQCPHCHGERLRV 99 (113)
T ss_pred cEEEcccCCCE---EecCC---cCccCcCCCCCCcEE
Confidence 55889999821 12222 456799999766443
No 151
>PF14981 FAM165: FAM165 family
Probab=36.67 E-value=1.1e+02 Score=22.97 Aligned_cols=17 Identities=24% Similarity=0.472 Sum_probs=12.0
Q ss_pred hHHHHHHHHHHHHHHHH
Q 014540 131 DRKDQKTLERLRVERKA 147 (423)
Q Consensus 131 ~~~~e~kL~~L~~e~kk 147 (423)
.++.|.++.++++++++
T Consensus 32 ~krlEak~~k~~aekk~ 48 (51)
T PF14981_consen 32 RKRLEAKLKKLEAEKKK 48 (51)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 34567788888877654
No 152
>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=36.39 E-value=2.1e+02 Score=22.66 Aligned_cols=9 Identities=11% Similarity=0.217 Sum_probs=3.2
Q ss_pred HHHHhHHHH
Q 014540 58 RVKRRSQTW 66 (423)
Q Consensus 58 rLk~~~~~~ 66 (423)
.++....+.
T Consensus 35 ~i~~~~~~l 43 (71)
T PF10779_consen 35 DIKNLNKQL 43 (71)
T ss_pred HHHHHHHHH
Confidence 333333333
No 153
>KOG2662 consensus Magnesium transporters: CorA family [Inorganic ion transport and metabolism]
Probab=36.13 E-value=2.3e+02 Score=30.34 Aligned_cols=27 Identities=19% Similarity=0.137 Sum_probs=12.1
Q ss_pred HHhHHHHHhhhhHHHHHHHHHHHHHHH
Q 014540 60 KRRSQTWRRMSRHLIIFTVVFEVIAVG 86 (423)
Q Consensus 60 k~~~~~~Rr~~~~Li~YS~il~ii~lv 86 (423)
+.+|...-++--.++.+++.+.+..++
T Consensus 339 Ds~RN~LiqleL~Lt~gT~~~s~~~~v 365 (414)
T KOG2662|consen 339 DSNRNELIQLELLLTIGTFCLSVFSVV 365 (414)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333334444455555555444333
No 154
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=36.12 E-value=1.4e+02 Score=25.67 Aligned_cols=8 Identities=63% Similarity=0.787 Sum_probs=3.2
Q ss_pred HHHHHHHh
Q 014540 146 KAKIDELK 153 (423)
Q Consensus 146 kkkIeelK 153 (423)
+..|+.|+
T Consensus 54 ~~eI~~L~ 61 (105)
T PRK00888 54 FAEIDDLK 61 (105)
T ss_pred HHHHHHhh
Confidence 33444443
No 155
>TIGR00954 3a01203 Peroxysomal Fatty Acyl CoA Transporter (FAT) Family protei.
Probab=35.72 E-value=1.9e+02 Score=32.34 Aligned_cols=57 Identities=11% Similarity=-0.016 Sum_probs=26.9
Q ss_pred hhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcC
Q 014540 112 LPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (423)
Q Consensus 112 ~Pili~li~~~~~~f~r~~~~~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd 169 (423)
+|+.+++.+.+...+.+. .++.++...+++..+.+.++-...-..|.......++|+
T Consensus 249 ~~l~~~i~~~~~~~~~~~-~~~~~~~~~~~~~~~~e~l~g~~~I~~~~~e~~e~~~~~ 305 (659)
T TIGR00954 249 LFATGVVLTKLRPPIGKL-TVEEQALEGEYRYVHSRLIMNSEEIAFYQGNKVEKETVM 305 (659)
T ss_pred HHHHHHHHHHHccchhHH-HHHHHHHHHHHHHHHHHHHHhHHHHHHhCCHHHHHHHHH
Confidence 455555444332223222 223345555666666655555555444554444444443
No 156
>PRK03449 putative inner membrane protein translocase component YidC; Provisional
Probab=35.66 E-value=3.4e+02 Score=27.80 Aligned_cols=15 Identities=20% Similarity=0.237 Sum_probs=11.1
Q ss_pred HHHHHHHHhcCCChh
Q 014540 159 YTTQQLIQRYDPDPA 173 (423)
Q Consensus 159 ~~Tk~LLEKYd~~~~ 173 (423)
..+++|.++|+-.+-
T Consensus 84 ~e~~~Lyk~~gvnP~ 98 (304)
T PRK03449 84 LEMQKLQKEHGFNPI 98 (304)
T ss_pred HHHHHHHHHcCCCch
Confidence 457788899997653
No 157
>KOG1557 consensus Fructose-biphosphate aldolase [Carbohydrate transport and metabolism]
Probab=35.51 E-value=10 Score=38.71 Aligned_cols=19 Identities=37% Similarity=0.543 Sum_probs=15.4
Q ss_pred CcceeeccccccccCccccCCCC
Q 014540 291 QSYALICGNCHMHNGLARKEDFP 313 (423)
Q Consensus 291 ~ryALIC~~C~~HNGlA~~ee~e 313 (423)
.|||.||++ ||++|.-|.|
T Consensus 171 ARYA~IcQ~----nGLVPIVEPE 189 (363)
T KOG1557|consen 171 ARYASICQQ----NGLVPIVEPE 189 (363)
T ss_pred HHHHHHHhh----cCcccccccc
Confidence 489999987 9999965544
No 158
>PF12773 DZR: Double zinc ribbon
Probab=35.44 E-value=19 Score=26.19 Aligned_cols=30 Identities=30% Similarity=0.524 Sum_probs=18.1
Q ss_pred eeeccccccccCccccCCCCceEEEcCCCCCccCC
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPHCNALNRP 328 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~ 328 (423)
+..|.+|..--. ......++|+.||+.|..
T Consensus 12 ~~fC~~CG~~l~-----~~~~~~~~C~~Cg~~~~~ 41 (50)
T PF12773_consen 12 AKFCPHCGTPLP-----PPDQSKKICPNCGAENPP 41 (50)
T ss_pred ccCChhhcCChh-----hccCCCCCCcCCcCCCcC
Confidence 567777765544 111235678888877654
No 159
>PRK12495 hypothetical protein; Provisional
Probab=35.43 E-value=2e+02 Score=28.31 Aligned_cols=49 Identities=14% Similarity=0.252 Sum_probs=34.3
Q ss_pred CCcHHHHHHHHHhcCCCCCcceeeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 273 DGGWIARIAAILVGDDPSQSYALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 273 ~r~W~DRIlD~LlGddpt~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
+|.-..|+.++|+-.. ...+..|..|..- .+ .. -+.-+|+.|+......
T Consensus 23 ~R~~~~~ma~lL~~ga--tmsa~hC~~CG~P----Ip-a~-pG~~~Cp~CQ~~~~~~ 71 (226)
T PRK12495 23 KREATERMSELLLQGA--TMTNAHCDECGDP----IF-RH-DGQEFCPTCQQPVTED 71 (226)
T ss_pred HHHHHHHHHHHHHhhc--ccchhhcccccCc----cc-CC-CCeeECCCCCCccccc
Confidence 4667788888887655 3467899999542 22 22 2778999999986643
No 160
>TIGR01294 P_lamban phospholamban. This model represents the short (52 residue) transmembrane phosphoprotein phospholamban. Phospholamban, in its unphosphorylated form, inhibits SERCA2, the cardiac sarcoplasmic reticulum Ca-ATPase.
Probab=35.35 E-value=1.8e+02 Score=21.80 Aligned_cols=45 Identities=13% Similarity=0.281 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 014540 45 LQYISKEEAAILARVKRRSQTWRRMSRHLIIFTVVFEVIAVGYAI 89 (423)
Q Consensus 45 L~~Ls~kI~~~~srLk~~~~~~Rr~~~~Li~YS~il~ii~lvY~~ 89 (423)
.+.|.+.-..--+.+.-..+..++.+-.++-|.+++..+++.|.+
T Consensus 4 vq~~trsairras~ie~~~qar~~lq~lfvnf~lilicllli~ii 48 (52)
T TIGR01294 4 VQYLTRSAIRRASTIEMPQQARQNLQNLFINFCLILICLLLICII 48 (52)
T ss_pred HHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444544322222334444444455555555555554333333433
No 161
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=35.26 E-value=2.9e+02 Score=23.63 Aligned_cols=35 Identities=17% Similarity=0.312 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcCC
Q 014540 136 KTLERLRVERKAKIDELKERTNYYTTQQLIQRYDP 170 (423)
Q Consensus 136 ~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~ 170 (423)
+++++..++..+.+++++....-...+++++++..
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 116 (181)
T PF12729_consen 82 KEIDEARAEIDEALEEYEKLILSPEEKQLLEEFKE 116 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence 34455555555666666554334444555555543
No 162
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=34.95 E-value=15 Score=36.26 Aligned_cols=27 Identities=33% Similarity=1.043 Sum_probs=16.9
Q ss_pred eecccccccc------CccccCCCCceEEEcCCCCCc
Q 014540 295 LICGNCHMHN------GLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 295 LIC~~C~~HN------GlA~~ee~e~i~yrC~~Cg~l 325 (423)
=+|+-||+.= ++.-+.+ --.|||||.+
T Consensus 198 ~~C~GC~m~l~~~~~~~V~~~d~----iv~CP~CgRI 230 (239)
T COG1579 198 RVCGGCHMKLPSQTLSKVRKKDE----IVFCPYCGRI 230 (239)
T ss_pred CcccCCeeeecHHHHHHHhcCCC----CccCCccchH
Confidence 4799999752 2222222 2279999965
No 163
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=34.93 E-value=27 Score=24.36 Aligned_cols=31 Identities=16% Similarity=0.419 Sum_probs=20.8
Q ss_pred eeccccccccCccccCC-CCceEEEcCCCCCc
Q 014540 295 LICGNCHMHNGLARKED-FPYITYYCPHCNAL 325 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee-~e~i~yrC~~Cg~l 325 (423)
+.|.+|...--...-.- ..-...+|+.|++.
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 67999988766554211 12358899999964
No 164
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=34.84 E-value=21 Score=31.23 Aligned_cols=33 Identities=18% Similarity=0.311 Sum_probs=19.6
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCccCCCC
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
.-..|..|... .+..+ +..++||+||..+-.-.
T Consensus 70 ~~~~C~~Cg~~---~~~~~--~~~~~CP~Cgs~~~~i~ 102 (117)
T PRK00564 70 VELECKDCSHV---FKPNA--LDYGVCEKCHSKNVIIT 102 (117)
T ss_pred CEEEhhhCCCc---cccCC--ccCCcCcCCCCCceEEe
Confidence 55889999821 12212 12236999998775433
No 165
>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=34.81 E-value=16 Score=29.78 Aligned_cols=27 Identities=22% Similarity=0.730 Sum_probs=13.4
Q ss_pred CcceeeccccccccCccccCCCCceEEEcCCCCC
Q 014540 291 QSYALICGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 291 ~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
.+|+|.|.-||...- +....-||.||.
T Consensus 6 k~~vlrC~aCf~~t~-------~~~k~FCp~CGn 32 (73)
T PF08772_consen 6 KTWVLRCHACFKITK-------DMTKQFCPKCGN 32 (73)
T ss_dssp --EEEE-SSS--EES--------SS--S-SSS--
T ss_pred heeeEEccccccCcC-------CCCceeCcccCC
Confidence 359999999998754 345678999994
No 166
>COG5056 ARE1 Acyl-CoA cholesterol acyltransferase [Lipid metabolism]
Probab=34.62 E-value=2.9e+02 Score=30.02 Aligned_cols=24 Identities=13% Similarity=0.281 Sum_probs=14.8
Q ss_pred HHHHHHHHhhccChHHHHHHHHhc
Q 014540 145 RKAKIDELKERTNYYTTQQLIQRY 168 (423)
Q Consensus 145 ~kkkIeelK~~T~Y~~Tk~LLEKY 168 (423)
-+++++++|+..+--++.+.+||=
T Consensus 230 ~~~~L~~~~d~~~~~e~~e~~ek~ 253 (512)
T COG5056 230 SSSILDKVKDSLNIPEKDEQLEKS 253 (512)
T ss_pred HHHHHHHHHHHhcChhhhhHhhhh
Confidence 355666666666666666666653
No 167
>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=34.57 E-value=20 Score=31.29 Aligned_cols=31 Identities=23% Similarity=0.503 Sum_probs=19.9
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
....|.+|... ....+ ..|.||.||..+-.-
T Consensus 69 ~~~~C~~Cg~~---~~~~~---~~~~CP~Cgs~~~~i 99 (115)
T TIGR00100 69 VECECEDCSEE---VSPEI---DLYRCPKCHGIMLQV 99 (115)
T ss_pred cEEEcccCCCE---EecCC---cCccCcCCcCCCcEE
Confidence 55889999821 12222 257899999776443
No 168
>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=34.56 E-value=1.3e+02 Score=29.37 Aligned_cols=14 Identities=14% Similarity=0.164 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHhh
Q 014540 78 VVFEVIAVGYAIMT 91 (423)
Q Consensus 78 ~il~ii~lvY~~~~ 91 (423)
++..+++++|.++.
T Consensus 38 L~~~i~~~~y~lf~ 51 (207)
T PF03907_consen 38 LCLWIAFFFYALFF 51 (207)
T ss_pred HHHHHHHHHHHhhc
Confidence 33334456676654
No 169
>PF04272 Phospholamban: Phospholamban; InterPro: IPR005984 Phospholamban (PLB) is a small protein (52 amino acids) that regulates the affinity of the cardiac sarcoplasmic reticulum Ca2+-ATPase (SERCA2a) for calcium. PLB is present in cardiac myocytes, in slow-twitch and smooth muscle and is expressed also in aorta endothelial cells in which it could play a role in tissue relaxation. The phosphorylation/dephosphorylation of phospholamban removes and restores, respectively, its inhibitory activity on SERCA2a. It has in fact been shown that phospholamban, in its non-phosphorylated form, binds to SERCA2a and inhibits this pump by lowering its affinity for Ca2+, whereas the phosphorylated form does not exert the inhibition. PLB is phosphorylated at two sites, namely at Ser-16 for a cAMP-dependent phosphokinase and at Thr-17 for a Ca2+/calmodulin-dependent phosphokinase, phosphorylation at Ser-16 being a prerequisite for the phosphorylation at Thr-17. The structure of a 36-amino-acid-long N-terminal fragment of human phospholamban phosphorylated at Ser-16 and Thr-17 and Cys36Ser mutated was determined from nuclear magnetic resonance data. The peptide assumes a conformation characterised by two alpha-helices connected by an irregular strand, which comprises the amino acids from Arg-13 to Pro-21. The proline is in a trans conformation. The two phosphate groups on Ser-16 and Thr-17 are shown to interact preferably with the side chains of Arg-14 and Arg-13, respectively [].; GO: 0005246 calcium channel regulator activity, 0042030 ATPase inhibitor activity, 0006816 calcium ion transport, 0016020 membrane; PDB: 1N7L_A 1FJP_A 1FJK_A 2HYN_C 1ZLL_D 1PLP_A 3O7L_I.
Probab=34.42 E-value=1.4e+02 Score=22.40 Aligned_cols=28 Identities=11% Similarity=0.227 Sum_probs=13.5
Q ss_pred hHHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 014540 62 RSQTWRRMSRHLIIFTVVFEVIAVGYAI 89 (423)
Q Consensus 62 ~~~~~Rr~~~~Li~YS~il~ii~lvY~~ 89 (423)
..+..++.+-.++-|.+++..+++.|.+
T Consensus 21 ~~qa~qnlqelfvnfclilicllli~ii 48 (52)
T PF04272_consen 21 PQQARQNLQELFVNFCLILICLLLICII 48 (52)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555555555554433444444
No 170
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=34.39 E-value=25 Score=24.53 Aligned_cols=31 Identities=19% Similarity=0.469 Sum_probs=20.7
Q ss_pred eeccccccccCccccCC-CCceEEEcCCCCCc
Q 014540 295 LICGNCHMHNGLARKED-FPYITYYCPHCNAL 325 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee-~e~i~yrC~~Cg~l 325 (423)
+.|.+|...--+..... ..-..-+|++|++.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~ 34 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHV 34 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcE
Confidence 57999987665554211 12368899999974
No 171
>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=34.29 E-value=3.5e+02 Score=30.18 Aligned_cols=8 Identities=38% Similarity=0.555 Sum_probs=3.5
Q ss_pred HHHHHhcC
Q 014540 280 IAAILVGD 287 (423)
Q Consensus 280 IlD~LlGd 287 (423)
++.+|+|-
T Consensus 521 LlklL~gl 528 (710)
T TIGR03796 521 IAKLVAGL 528 (710)
T ss_pred HHHHHhcC
Confidence 44444444
No 172
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=34.25 E-value=10 Score=35.70 Aligned_cols=33 Identities=21% Similarity=0.627 Sum_probs=20.1
Q ss_pred CcceeeccccccccCccccCCCCceEEEcCCCCCcc
Q 014540 291 QSYALICGNCHMHNGLARKEDFPYITYYCPHCNALN 326 (423)
Q Consensus 291 ~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN 326 (423)
+..=-+|.+|+.- +.-.|.-...|.||.||..=
T Consensus 114 ~~~~Y~Cp~C~~r---ytf~eA~~~~F~Cp~Cg~~L 146 (178)
T PRK06266 114 NNMFFFCPNCHIR---FTFDEAMEYGFRCPQCGEML 146 (178)
T ss_pred CCCEEECCCCCcE---EeHHHHhhcCCcCCCCCCCC
Confidence 3455799999721 11122222479999999653
No 173
>KOG0055 consensus Multidrug/pheromone exporter, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=34.18 E-value=5.4e+02 Score=31.45 Aligned_cols=64 Identities=13% Similarity=0.235 Sum_probs=34.4
Q ss_pred cchhhhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcCCC
Q 014540 107 LPIFLLPGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQRYDPD 171 (423)
Q Consensus 107 lp~~l~Pili~li~~~~~~f~r~~~~~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd~~ 171 (423)
+.+..+|+|++.-|.- ..|......+..+..++.-.=--+.|+.++--.-|..-.++++.|...
T Consensus 813 v~la~~Pll~~~~~~~-~~~~~~~~~~~~~~~~ea~~iA~eai~NIrTV~al~~e~~~~~~y~~~ 876 (1228)
T KOG0055|consen 813 VVLATFPLLILSGYLQ-KKFLKGFSKDDKKAYEEASKIAIEAVSNIRTVAALCAEEKFMELYKEE 876 (1228)
T ss_pred HHHHHHHHHHHHHHHH-HHHHhhhhHHHHHHHHHHHHHHHHHHHhHHHHHHHhhHHHHHHHHHHH
Confidence 3455678877654432 222222233333334444444455666666666677777777777653
No 174
>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=34.12 E-value=14 Score=24.31 Aligned_cols=16 Identities=25% Similarity=0.679 Sum_probs=12.5
Q ss_pred eEEEcCCCCCccCCCC
Q 014540 315 ITYYCPHCNALNRPKE 330 (423)
Q Consensus 315 i~yrC~~Cg~lN~~~~ 330 (423)
+.|.|..|.+.|.+..
T Consensus 3 g~W~C~~C~~~N~~~~ 18 (30)
T PF00641_consen 3 GDWKCPSCTFMNPASR 18 (30)
T ss_dssp SSEEETTTTEEEESSS
T ss_pred cCccCCCCcCCchHHh
Confidence 4688999998887654
No 175
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=34.11 E-value=3.2e+02 Score=28.46 Aligned_cols=119 Identities=13% Similarity=0.069 Sum_probs=64.0
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHHHHHHhhcccccchhh-hhhhcccchhhhhHHHHHHHHHH
Q 014540 45 LQYISKEEAAILARVKRRSQTWRRMSRHLIIFTVVFEVIAVGYAIMTTRSMELNWK-TRALQVLPIFLLPGLSALAYSAF 123 (423)
Q Consensus 45 L~~Ls~kI~~~~srLk~~~~~~Rr~~~~Li~YS~il~ii~lvY~~~~~~~~~~~w~-~r~~~~lp~~l~Pili~li~~~~ 123 (423)
|..+.-.|..+--.....+.+...|.-.|.|+.+++.+..++|.||.-+..-.+-. .++.+-.-.++.=++...+|++
T Consensus 24 ~~~~~~~i~~~~~~~~~~q~~~~~~~p~l~~~~I~~~~~~~~~~y~~~~~~r~~~~lt~L~s~~~~ll~~v~~~~ly~~- 102 (328)
T KOG2846|consen 24 LYIFTSQIHQLDYAPEKSQSILSQWQPNLGFPGIILTVRRLSYTYFEYRLNRNTLKLTRLKSQKSKLLELVLETKLYKV- 102 (328)
T ss_pred HHHHHHHHHhhhccCchhHHHHHHHHHHhcchHHHHHHHHHHHhhhheecccchHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence 66677777666555566666667777778888887766666676653222110000 1111111111111111112221
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccChHHHHHHHHh
Q 014540 124 VSFNRMCDRKDQKTLERLRVERKAKIDELKERTNYYTTQQLIQR 167 (423)
Q Consensus 124 ~~f~r~~~~~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEK 167 (423)
...++.++..+=..++.......+++..++-++.++..++|
T Consensus 103 ---a~~il~Ry~~~~~a~~~~~t~~~~k~~~~s~~~l~~~~~~r 143 (328)
T KOG2846|consen 103 ---ALNILERYDPDPAAKRAAPTSLAEKLGARSGLNLTKLTAAR 143 (328)
T ss_pred ---HHHHHHHhcchHHHHhhhhhhhhhhhccccCCchhhhhhhh
Confidence 22222222222223566667788999999999999999988
No 176
>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=33.90 E-value=21 Score=32.68 Aligned_cols=27 Identities=19% Similarity=0.287 Sum_probs=21.2
Q ss_pred ccccCccccCCC-CceEEEcCCCCCccC
Q 014540 301 HMHNGLARKEDF-PYITYYCPHCNALNR 327 (423)
Q Consensus 301 ~~HNGlA~~ee~-e~i~yrC~~Cg~lN~ 327 (423)
+.|+|.+--+|. -.+.|+|-.||+.--
T Consensus 96 ~~h~g~Y~sGE~~g~G~l~C~~Cg~~~~ 123 (146)
T PF07295_consen 96 LEHHGVYHSGEVVGPGTLVCENCGHEVE 123 (146)
T ss_pred HHhcCCeecCcEecCceEecccCCCEEE
Confidence 368998887774 369999999997643
No 177
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=33.72 E-value=21 Score=36.10 Aligned_cols=35 Identities=17% Similarity=0.367 Sum_probs=26.2
Q ss_pred eeeccccccccCccccCCCCceEEEcCCCCCccCCCCC
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKES 331 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~~ 331 (423)
.++|..|... -..+|++-+..+|..||..-.++--
T Consensus 11 ~~~Cp~Cg~~---~iv~d~~~Ge~vC~~CG~Vl~e~~i 45 (310)
T PRK00423 11 KLVCPECGSD---KLIYDYERGEIVCADCGLVIEENII 45 (310)
T ss_pred CCcCcCCCCC---CeeEECCCCeEeecccCCccccccc
Confidence 3789999963 2345677899999999997766543
No 178
>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=33.57 E-value=46 Score=23.44 Aligned_cols=31 Identities=19% Similarity=0.563 Sum_probs=22.5
Q ss_pred ceeeccccccccCccccCC--CCceEEEcCCCC
Q 014540 293 YALICGNCHMHNGLARKED--FPYITYYCPHCN 323 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee--~e~i~yrC~~Cg 323 (423)
.-+-|..|.+..+...-+- .-.-.|||..|.
T Consensus 4 i~v~CP~C~s~~~v~k~G~~~~G~qryrC~~C~ 36 (36)
T PF03811_consen 4 IDVHCPRCQSTEGVKKNGKSPSGHQRYRCKDCR 36 (36)
T ss_pred EeeeCCCCCCCCcceeCCCCCCCCEeEecCcCC
Confidence 3478999999887777432 224689999984
No 179
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=33.03 E-value=30 Score=25.97 Aligned_cols=28 Identities=18% Similarity=0.332 Sum_probs=18.9
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
-.-.|.+|... =|+.- + .+|.|..||+.
T Consensus 19 ~~~fCP~Cg~~-~m~~~-~---~r~~C~~Cgyt 46 (50)
T PRK00432 19 KNKFCPRCGSG-FMAEH-L---DRWHCGKCGYT 46 (50)
T ss_pred ccCcCcCCCcc-hhecc-C---CcEECCCcCCE
Confidence 34589999754 23332 2 58999999964
No 180
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=32.72 E-value=26 Score=34.19 Aligned_cols=24 Identities=21% Similarity=0.610 Sum_probs=18.3
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNR 327 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~ 327 (423)
=.|..|.. +..-.|.|+.||+...
T Consensus 310 ~~C~~cg~---------~~~r~~~C~~cg~~~~ 333 (364)
T COG0675 310 KTCPCCGH---------LSGRLFKCPRCGFVHD 333 (364)
T ss_pred ccccccCC---------ccceeEECCCCCCeeh
Confidence 68888887 3346899999999533
No 181
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=32.67 E-value=46 Score=29.86 Aligned_cols=54 Identities=17% Similarity=0.268 Sum_probs=28.7
Q ss_pred cHHHHHHHHHhcCCCC---------CcceeeccccccccCcc--c----c---------CCCCceEEEcCCCCCccCC
Q 014540 275 GWIARIAAILVGDDPS---------QSYALICGNCHMHNGLA--R----K---------EDFPYITYYCPHCNALNRP 328 (423)
Q Consensus 275 ~W~DRIlD~LlGddpt---------~ryALIC~~C~~HNGlA--~----~---------ee~e~i~yrC~~Cg~lN~~ 328 (423)
.-|...++++.-+.+- .+--..|.+|...-..- + . .|.....++||+||..+-.
T Consensus 42 e~L~fafe~l~~gt~~ega~L~i~~~p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~~~ 119 (135)
T PRK03824 42 EIVEFALNELLKGTILEGAEIIFEEEEAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRDFE 119 (135)
T ss_pred HHHHHHHHHHHcCCcccCCEEEEEecceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCCcE
Confidence 3445555665533332 23668999997332221 0 0 0101235789999977643
No 182
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=32.52 E-value=24 Score=30.76 Aligned_cols=32 Identities=16% Similarity=0.281 Sum_probs=19.9
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
-..-|.+|.. .++..+ +..|+||+||..+-.-
T Consensus 69 ~~~~C~~Cg~---~~~~~~--~~~~~CP~Cgs~~~~i 100 (114)
T PRK03681 69 AECWCETCQQ---YVTLLT--QRVRRCPQCHGDMLRI 100 (114)
T ss_pred cEEEcccCCC---eeecCC--ccCCcCcCcCCCCcEE
Confidence 5688999983 122111 2237799999776443
No 183
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=32.29 E-value=31 Score=24.43 Aligned_cols=26 Identities=23% Similarity=0.434 Sum_probs=17.8
Q ss_pred ccccccccCccccCCCCceEEEcCCCCC
Q 014540 297 CGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 297 C~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
|.+|.. -|....-.++..++|+.|+-
T Consensus 2 CP~C~~--~l~~~~~~~~~id~C~~C~G 27 (41)
T PF13453_consen 2 CPRCGT--ELEPVRLGDVEIDVCPSCGG 27 (41)
T ss_pred cCCCCc--ccceEEECCEEEEECCCCCe
Confidence 778865 35554434467889999984
No 184
>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=32.25 E-value=18 Score=27.02 Aligned_cols=12 Identities=25% Similarity=0.852 Sum_probs=9.5
Q ss_pred EEEcCCCCCccCC
Q 014540 316 TYYCPHCNALNRP 328 (423)
Q Consensus 316 ~yrC~~Cg~lN~~ 328 (423)
.|.||||+. +-.
T Consensus 2 ~f~CP~C~~-~~~ 13 (54)
T PF05605_consen 2 SFTCPYCGK-GFS 13 (54)
T ss_pred CcCCCCCCC-ccC
Confidence 589999998 543
No 185
>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=32.25 E-value=23 Score=27.07 Aligned_cols=26 Identities=23% Similarity=0.511 Sum_probs=12.8
Q ss_pred eeeccccccccCccccCCCCceEEEcCC--CCCccC
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPH--CNALNR 327 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~--Cg~lN~ 327 (423)
-.||.+|+.||-.-- -.|.. ||+-|.
T Consensus 17 k~ICrkCyarl~~~A--------~nCRKkkCGhsn~ 44 (52)
T PF01020_consen 17 KMICRKCYARLPPRA--------TNCRKKKCGHSNN 44 (52)
T ss_dssp -EEETTT--EE-TTS--------SS-TSSSCTS-S-
T ss_pred ceecccccCcCCCCc--------cceecccCCCCcc
Confidence 379999999985322 25665 776653
No 186
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=32.11 E-value=17 Score=27.70 Aligned_cols=11 Identities=27% Similarity=0.658 Sum_probs=8.9
Q ss_pred EEcCCCCCccC
Q 014540 317 YYCPHCNALNR 327 (423)
Q Consensus 317 yrC~~Cg~lN~ 327 (423)
+.|||||+.+-
T Consensus 1 i~CPyCge~~~ 11 (52)
T PF14255_consen 1 IQCPYCGEPIE 11 (52)
T ss_pred CCCCCCCCeeE
Confidence 36999998875
No 187
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=31.86 E-value=26 Score=35.45 Aligned_cols=32 Identities=19% Similarity=0.417 Sum_probs=24.9
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
..|..|...|+ -.|++.+.++|..||..-...
T Consensus 2 ~~CpeCg~~~~---~~d~~~ge~VC~~CG~Vi~~~ 33 (285)
T COG1405 2 MSCPECGSTNI---ITDYERGEIVCADCGLVLEDS 33 (285)
T ss_pred CCCCCCCCccc---eeeccCCeEEeccCCEEeccc
Confidence 46999999843 456778999999999876543
No 188
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=31.84 E-value=28 Score=39.49 Aligned_cols=47 Identities=15% Similarity=0.297 Sum_probs=26.2
Q ss_pred cHHHHHHHHHhcCCC---CCcceeeccccccccCccc-cCCCCceEEEcCCCCCcc
Q 014540 275 GWIARIAAILVGDDP---SQSYALICGNCHMHNGLAR-KEDFPYITYYCPHCNALN 326 (423)
Q Consensus 275 ~W~DRIlD~LlGddp---t~ryALIC~~C~~HNGlA~-~ee~e~i~yrC~~Cg~lN 326 (423)
.-+-.|++++.-.-+ -+.=.=||..|.- .|-.- .++ .|.||.||.-|
T Consensus 619 ~a~~~lv~~~~~~i~Y~~in~~~~~C~~CG~-~Ge~~~~~~----~~~CP~CG~~~ 669 (711)
T PRK09263 619 KALEAVWDYSYDRVGYLGTNTPIDECYECGF-TGEFECTEK----GFTCPKCGNHD 669 (711)
T ss_pred HHHHHHHHHHHHCCCeEEeCCCCcccCCCCC-CccccCCCC----CCcCcCCCCCC
Confidence 345556665542111 1222368999984 56542 222 27999999655
No 189
>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=31.51 E-value=5.3e+02 Score=25.57 Aligned_cols=7 Identities=0% Similarity=-0.230 Sum_probs=3.1
Q ss_pred HHHHHHH
Q 014540 73 LIIFTVV 79 (423)
Q Consensus 73 Li~YS~i 79 (423)
++++++.
T Consensus 149 ~~~~gi~ 155 (230)
T PF03904_consen 149 SMYKGIG 155 (230)
T ss_pred HHHHhHH
Confidence 3344544
No 190
>PF07243 Phlebovirus_G1: Phlebovirus glycoprotein G1; InterPro: IPR010826 This domain is found in several Phlebovirus glycoprotein G1 sequences. Members of the Bunyaviridae family acquire an envelope by budding through the lipid bilayer of the Golgi complex. The budding compartment is thought to be determined by the accumulation of the two heterodimeric membrane glycoproteins G1 and G2 in the Golgi [].; GO: 0016021 integral to membrane, 0019012 virion
Probab=31.46 E-value=2e+02 Score=31.75 Aligned_cols=9 Identities=22% Similarity=0.445 Sum_probs=3.6
Q ss_pred hhcccchhh
Q 014540 103 ALQVLPIFL 111 (423)
Q Consensus 103 ~~~~lp~~l 111 (423)
.+.++|-.+
T Consensus 446 ~~kliPkkL 454 (526)
T PF07243_consen 446 FFKLIPKKL 454 (526)
T ss_pred HHHHhHHHH
Confidence 333444333
No 191
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=31.37 E-value=3.4e+02 Score=29.04 Aligned_cols=19 Identities=26% Similarity=0.445 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 014540 136 KTLERLRVERKAKIDELKE 154 (423)
Q Consensus 136 ~kL~~L~~e~kkkIeelK~ 154 (423)
++|.+.+.+.++++++-++
T Consensus 60 ~~L~~Ak~ea~~Ii~~A~~ 78 (445)
T PRK13428 60 KAVEDAKAEAARVVEEARE 78 (445)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444445544433
No 192
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=31.33 E-value=2.2e+02 Score=23.52 Aligned_cols=44 Identities=20% Similarity=0.331 Sum_probs=20.5
Q ss_pred CCcHHHH---HHHHHHHHHHHHHHHHHhHHHHHhhhhH-HHHHHHHHHHH
Q 014540 38 GDDFEKR---LQYISKEEAAILARVKRRSQTWRRMSRH-LIIFTVVFEVI 83 (423)
Q Consensus 38 ~d~FEK~---L~~Ls~kI~~~~srLk~~~~~~Rr~~~~-Li~YS~il~ii 83 (423)
+++|++. |..|++|+.-+-+.+-++- -+++-|- =|+|++++-++
T Consensus 14 ~~d~~~i~~rLD~iEeKVEftn~Ei~Qr~--GkkvGRDiGIlYG~viGll 61 (77)
T PRK01026 14 PKDFKEIQKRLDEIEEKVEFTNAEIFQRI--GKKVGRDIGILYGLVIGLL 61 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hHHhhhHHHHHHHHHHHHH
Confidence 5677654 4555666555544443221 1233121 24577664443
No 193
>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=31.08 E-value=24 Score=24.32 Aligned_cols=30 Identities=27% Similarity=0.593 Sum_probs=18.3
Q ss_pred ceeecccccc-ccCccccCCCCceEEEcCCCCC
Q 014540 293 YALICGNCHM-HNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 293 yALIC~~C~~-HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
|-.-|..|.. ...+...++- ..-.||.||.
T Consensus 4 Y~y~C~~Cg~~fe~~~~~~~~--~~~~CP~Cg~ 34 (41)
T smart00834 4 YEYRCEDCGHTFEVLQKISDD--PLATCPECGG 34 (41)
T ss_pred EEEEcCCCCCEEEEEEecCCC--CCCCCCCCCC
Confidence 6677888877 4444443331 2346888887
No 194
>PF13974 YebO: YebO-like protein
Probab=30.93 E-value=1.7e+02 Score=24.33 Aligned_cols=13 Identities=23% Similarity=0.281 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHH
Q 014540 138 LERLRVERKAKID 150 (423)
Q Consensus 138 L~~L~~e~kkkIe 150 (423)
|+.|-+|++...+
T Consensus 32 L~~ileqQKrQn~ 44 (80)
T PF13974_consen 32 LEEILEQQKRQNA 44 (80)
T ss_pred HHHHHHHHHHHHH
Confidence 4444444444433
No 195
>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=30.79 E-value=1.9e+02 Score=30.36 Aligned_cols=33 Identities=27% Similarity=0.372 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHhhccChHHHHHHHHhc
Q 014540 136 KTLERLRVERKAKIDELKERTNYYTTQQLIQRY 168 (423)
Q Consensus 136 ~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKY 168 (423)
.+|+++..+=++.+.+.-++..-....++++|+
T Consensus 36 ~~L~~~~~~a~~~~~~~l~~~~~~~~e~~i~r~ 68 (355)
T PF07431_consen 36 SELEQYRNEARKKVIEYLKKNGSEDPESLIDRL 68 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCccchHHHHHHH
Confidence 345555444443333332222233334444443
No 196
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=30.79 E-value=15 Score=36.00 Aligned_cols=33 Identities=12% Similarity=0.219 Sum_probs=23.4
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhh
Q 014540 38 GDDFEKRLQYISKEEAAILARVKRRSQTWRRMSR 71 (423)
Q Consensus 38 ~d~FEK~L~~Ls~kI~~~~srLk~~~~~~Rr~~~ 71 (423)
.++.|. +..++.++.+++.+|+....+.+.+..
T Consensus 158 a~~~~d-~l~ie~~L~~v~~eIe~~~~~~~~l~~ 190 (262)
T PF14257_consen 158 AKTVED-LLEIERELSRVRSEIEQLEGQLKYLDD 190 (262)
T ss_pred cCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457774 777888888888888777776665533
No 197
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=30.38 E-value=2.8e+02 Score=22.04 Aligned_cols=26 Identities=19% Similarity=0.156 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChHH
Q 014540 135 QKTLERLRVERKAKIDELKERTNYYT 160 (423)
Q Consensus 135 e~kL~~L~~e~kkkIeelK~~T~Y~~ 160 (423)
+.++++|+.+..+...|...-.+.+.
T Consensus 37 ~~~~~~l~~en~~L~~ei~~l~~~~r 62 (85)
T TIGR02209 37 QLEIDKLQKEWRDLQLEVAELSRHER 62 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCHHH
Confidence 34455555554444444443333333
No 198
>PHA02998 RNA polymerase subunit; Provisional
Probab=30.32 E-value=33 Score=32.65 Aligned_cols=33 Identities=24% Similarity=0.565 Sum_probs=24.2
Q ss_pred ceeeccccccccCcccc------CCCCceEEEcCCCCCc
Q 014540 293 YALICGNCHMHNGLARK------EDFPYITYYCPHCNAL 325 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~------ee~e~i~yrC~~Cg~l 325 (423)
.-..|.+|...+...-. .|.+..-|+|..||+-
T Consensus 142 t~v~CPkCg~~~A~f~qlQTRSADEPmT~FYkC~~CG~~ 180 (195)
T PHA02998 142 YNTPCPNCKSKNTTPMMIQTRAADEPPLVRHACRDCKKH 180 (195)
T ss_pred cCCCCCCCCCCceEEEEEeeccCCCCceEEEEcCCCCCc
Confidence 56899999955544221 3677889999999963
No 199
>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=30.27 E-value=2.8e+02 Score=22.59 Aligned_cols=44 Identities=23% Similarity=0.395 Sum_probs=20.8
Q ss_pred CCcHHHH---HHHHHHHHHHHHHHHHHhHHHHHhhhhH-HHHHHHHHHHH
Q 014540 38 GDDFEKR---LQYISKEEAAILARVKRRSQTWRRMSRH-LIIFTVVFEVI 83 (423)
Q Consensus 38 ~d~FEK~---L~~Ls~kI~~~~srLk~~~~~~Rr~~~~-Li~YS~il~ii 83 (423)
+++|++. |..|++|+.-+-+.+-++. -+++-|- =|+|++++-++
T Consensus 11 ~~d~~~i~~rLd~iEeKVEf~~~E~~Qr~--Gkk~GRDiGIlYG~viGll 58 (70)
T TIGR01149 11 PDEFNEVMKRLDEIEEKVEFVNGEVAQRI--GKKVGRDIGILYGLVIGLI 58 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hHHhhhHHHHHHHHHHHHH
Confidence 4666654 4555666555544443221 1233121 24577765543
No 200
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=30.26 E-value=4.4e+02 Score=27.11 Aligned_cols=17 Identities=18% Similarity=0.266 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 014540 136 KTLERLRVERKAKIDEL 152 (423)
Q Consensus 136 ~kL~~L~~e~kkkIeel 152 (423)
-..++++++|++++.+.
T Consensus 258 LA~~Ra~~kR~~~~aqr 274 (340)
T PF12794_consen 258 LAYERAKEKRAEALAQR 274 (340)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 45777888877766444
No 201
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=30.17 E-value=2e+02 Score=21.86 Aligned_cols=11 Identities=45% Similarity=0.667 Sum_probs=5.2
Q ss_pred HHHHHHHHHHH
Q 014540 136 KTLERLRVERK 146 (423)
Q Consensus 136 ~kL~~L~~e~k 146 (423)
.++++++++.+
T Consensus 48 ~~~~~~~k~l~ 58 (68)
T PF06305_consen 48 RRIRRLRKELK 58 (68)
T ss_pred HHHHHHHHHHH
Confidence 44555554443
No 202
>PF10716 NdhL: NADH dehydrogenase transmembrane subunit; InterPro: IPR019654 NAD(P)H-quinone oxidoreductase subunit L (NdhL) is a component of the NDH-1L complex that is one of the proton-pumping NADH:ubiquinone oxidoreductases that catalyse the electron transfer from NADH to ubiquinone linked with proton translocation across the membrane. NDH-1L is essential for photoheterotrophic cell growth. NdhL appears to contain two transmembrane helices and it is necessary for the functioning of though not the correct assembly of the NDH-1 complex in Synechocystis 6803. The conservation between cyanobacteria and green plants suggests that chloroplast NDH-1 complexes contain related subunits []. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process
Probab=29.88 E-value=64 Score=26.87 Aligned_cols=34 Identities=24% Similarity=0.294 Sum_probs=17.3
Q ss_pred HHHHHHhhcccccchhhhhhhcc-cchhhhhHHHH
Q 014540 84 AVGYAIMTTRSMELNWKTRALQV-LPIFLLPGLSA 117 (423)
Q Consensus 84 ~lvY~~~~~~~~~~~w~~r~~~~-lp~~l~Pili~ 117 (423)
.++|+|+..|.--.+-.||...+ +.++.||.++.
T Consensus 34 ~~l~~wm~~RWy~~~~~Er~~~y~lvF~FFPGllL 68 (81)
T PF10716_consen 34 LILYFWMNKRWYVMSSFERLFMYFLVFLFFPGLLL 68 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 35677765542111112455554 44445788774
No 203
>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=29.87 E-value=19 Score=25.04 Aligned_cols=29 Identities=31% Similarity=0.424 Sum_probs=19.1
Q ss_pred ccccccccCccccCCCCceEEEcCCCCCccCC
Q 014540 297 CGNCHMHNGLARKEDFPYITYYCPHCNALNRP 328 (423)
Q Consensus 297 C~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~ 328 (423)
|.+|. |-|.|+++-+... +|..|++.-+.
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 67775 6678877655444 99999976543
No 204
>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=29.86 E-value=36 Score=29.98 Aligned_cols=24 Identities=25% Similarity=0.598 Sum_probs=17.2
Q ss_pred cCccccCCC-CceEEEcCCCCCccC
Q 014540 304 NGLARKEDF-PYITYYCPHCNALNR 327 (423)
Q Consensus 304 NGlA~~ee~-e~i~yrC~~Cg~lN~ 327 (423)
+.|||-.++ .+..|+||.||.+-.
T Consensus 61 ~~~aPdp~w~~irEyyCP~Cgt~le 85 (112)
T PF08882_consen 61 FTMAPDPEWQVIREYYCPGCGTQLE 85 (112)
T ss_pred cccCCCCCcEEEEEEECCCCcceeE
Confidence 567774443 367899999998754
No 205
>PRK10220 hypothetical protein; Provisional
Probab=29.86 E-value=35 Score=29.95 Aligned_cols=29 Identities=24% Similarity=0.626 Sum_probs=20.5
Q ss_pred eccccccccCccccCCCCceEEEcCCCCC-ccCCC
Q 014540 296 ICGNCHMHNGLARKEDFPYITYYCPHCNA-LNRPK 329 (423)
Q Consensus 296 IC~~C~~HNGlA~~ee~e~i~yrC~~Cg~-lN~~~ 329 (423)
-|.+|.+.+-+.-. ..|+||-|++ |++..
T Consensus 5 ~CP~C~seytY~d~-----~~~vCpeC~hEW~~~~ 34 (111)
T PRK10220 5 HCPKCNSEYTYEDN-----GMYICPECAHEWNDAE 34 (111)
T ss_pred cCCCCCCcceEcCC-----CeEECCcccCcCCccc
Confidence 48999887765432 3699999986 55543
No 206
>PF11457 DUF3021: Protein of unknown function (DUF3021); InterPro: IPR021560 This is a bacterial family of uncharacterised proteins.
Probab=29.68 E-value=3e+02 Score=23.86 Aligned_cols=7 Identities=0% Similarity=0.377 Sum_probs=2.9
Q ss_pred HHHHHHH
Q 014540 137 TLERLRV 143 (423)
Q Consensus 137 kL~~L~~ 143 (423)
+-+++++
T Consensus 128 ~i~kiN~ 134 (136)
T PF11457_consen 128 DIKKINE 134 (136)
T ss_pred HHHHHHh
Confidence 3444443
No 207
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=29.36 E-value=27 Score=27.52 Aligned_cols=21 Identities=38% Similarity=0.983 Sum_probs=15.8
Q ss_pred eccccccccCccccCCCCceEEEcCCCCCcc
Q 014540 296 ICGNCHMHNGLARKEDFPYITYYCPHCNALN 326 (423)
Q Consensus 296 IC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN 326 (423)
-|.+|+...- ++ +||.||.-.
T Consensus 5 AC~~C~~i~~----~~------~CP~Cgs~~ 25 (61)
T PRK08351 5 ACRHCHYITT----ED------RCPVCGSRD 25 (61)
T ss_pred hhhhCCcccC----CC------cCCCCcCCc
Confidence 6999998881 12 699999744
No 208
>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=29.20 E-value=80 Score=29.04 Aligned_cols=20 Identities=10% Similarity=0.194 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHHhH
Q 014540 44 RLQYISKEEAAILARVKRRS 63 (423)
Q Consensus 44 ~L~~Ls~kI~~~~srLk~~~ 63 (423)
++..+++|+.+....+...+
T Consensus 74 k~~kl~~el~~~~~~~~~~~ 93 (161)
T PF04420_consen 74 KLDKLEEELEKLNKSLSSEK 93 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34445555444444333333
No 209
>PHA00476 hypothetical protein
Probab=29.17 E-value=1.2e+02 Score=26.39 Aligned_cols=31 Identities=19% Similarity=0.199 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHhhcccccchhhhhhhc
Q 014540 75 IFTVVFEVIAVGYAIMTTRSMELNWKTRALQ 105 (423)
Q Consensus 75 ~YS~il~ii~lvY~~~~~~~~~~~w~~r~~~ 105 (423)
++-++.|+++..|+=++-++.+++-.-+.++
T Consensus 6 Lf~LLTyvvl~~cAn~lILSlp~sVtSK~ic 36 (110)
T PHA00476 6 LFLLLTYVVLVLCANYLILSLPLSVTSKGIC 36 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence 3445566665555544444444433345554
No 210
>PRK06771 hypothetical protein; Provisional
Probab=29.10 E-value=1.9e+02 Score=24.74 Aligned_cols=20 Identities=20% Similarity=0.275 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 014540 133 KDQKTLERLRVERKAKIDEL 152 (423)
Q Consensus 133 ~~e~kL~~L~~e~kkkIeel 152 (423)
+.+.+++.+....+.+.+++
T Consensus 27 ~~~~~~k~ie~~L~~I~~~~ 46 (93)
T PRK06771 27 KTDARLKRMEDRLQLITKEM 46 (93)
T ss_pred HHHHHHHHHHHHHHHHHHHc
Confidence 34456666665555555544
No 211
>PF14353 CpXC: CpXC protein
Probab=29.02 E-value=34 Score=29.82 Aligned_cols=17 Identities=29% Similarity=0.688 Sum_probs=13.3
Q ss_pred CCCceEEEcCCCCCccC
Q 014540 311 DFPYITYYCPHCNALNR 327 (423)
Q Consensus 311 e~e~i~yrC~~Cg~lN~ 327 (423)
+.++..|.||+||+...
T Consensus 33 ~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 33 DGSLFSFTCPSCGHKFR 49 (128)
T ss_pred cCCcCEEECCCCCCcee
Confidence 34577999999998754
No 212
>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=28.89 E-value=31 Score=30.22 Aligned_cols=28 Identities=21% Similarity=0.447 Sum_probs=19.5
Q ss_pred eccccccccCccccCCCCceEEEcCCCCC-ccCC
Q 014540 296 ICGNCHMHNGLARKEDFPYITYYCPHCNA-LNRP 328 (423)
Q Consensus 296 IC~~C~~HNGlA~~ee~e~i~yrC~~Cg~-lN~~ 328 (423)
-|.+|.+.+-+-- - ..|+||-|++ |++.
T Consensus 4 ~CP~C~seytY~d---g--~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYHD---G--TQLICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEec---C--CeeECcccccccccc
Confidence 3889988765532 2 3589999986 5554
No 213
>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=28.64 E-value=14 Score=33.96 Aligned_cols=33 Identities=21% Similarity=0.501 Sum_probs=19.8
Q ss_pred CcceeeccccccccCccccCCCCceEEEcCCCCCcc
Q 014540 291 QSYALICGNCHMHNGLARKEDFPYITYYCPHCNALN 326 (423)
Q Consensus 291 ~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN 326 (423)
+..=-+|.+|+.- +.-.|.-..-|.||.||..-
T Consensus 106 ~~~~Y~Cp~c~~r---~tf~eA~~~~F~Cp~Cg~~L 138 (158)
T TIGR00373 106 NNMFFICPNMCVR---FTFNEAMELNFTCPRCGAML 138 (158)
T ss_pred CCCeEECCCCCcE---eeHHHHHHcCCcCCCCCCEe
Confidence 4455799999821 11122212469999999753
No 214
>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=28.62 E-value=5.3e+02 Score=25.56 Aligned_cols=6 Identities=0% Similarity=-0.164 Sum_probs=2.5
Q ss_pred HHHHHH
Q 014540 125 SFNRMC 130 (423)
Q Consensus 125 ~f~r~~ 130 (423)
++|.++
T Consensus 219 ~l~~~~ 224 (230)
T PF03904_consen 219 YLYEWI 224 (230)
T ss_pred HHHHHH
Confidence 344443
No 215
>KOG3850 consensus Predicted membrane protein [Function unknown]
Probab=28.60 E-value=3.5e+02 Score=28.89 Aligned_cols=48 Identities=13% Similarity=0.226 Sum_probs=24.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHH--------HhH-HHHHhhhhHHHHHHHHHHHHHHHHHH
Q 014540 40 DFEKRLQYISKEEAAILARVK--------RRS-QTWRRMSRHLIIFTVVFEVIAVGYAI 89 (423)
Q Consensus 40 ~FEK~L~~Ls~kI~~~~srLk--------~~~-~~~Rr~~~~Li~YS~il~ii~lvY~~ 89 (423)
+.+..|+.....|.+++-... -.. ..+|++.++++ .+++.++.++.++
T Consensus 350 dIqEalEscqtrisKlEl~qq~qqv~Q~e~~~na~a~~llgk~i--NiiLalm~VlLvf 406 (455)
T KOG3850|consen 350 DIQEALESCQTRISKLELQQQQQQVVQLEGLENAVARRLLGKFI--NIILALMTVLLVF 406 (455)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHH--HHHHHHHHHHHHH
Confidence 444467777666655433222 111 24566555554 4566665444333
No 216
>TIGR02896 spore_III_AF stage III sporulation protein AF. This family represents the stage III sporulation protein AF of the bacterial endospore formation program, which exists in some but not all members of the Firmicutes (formerly called low-GC Gram-positives). The C-terminal region of this protein is poorly conserved, so only the N-terminal region, which includes two predicted transmembrane domains, is included in the seed alignment.
Probab=28.52 E-value=3.9e+02 Score=23.15 Aligned_cols=14 Identities=7% Similarity=0.389 Sum_probs=8.5
Q ss_pred HHhhhhHHHHHHHH
Q 014540 66 WRRMSRHLIIFTVV 79 (423)
Q Consensus 66 ~Rr~~~~Li~YS~i 79 (423)
.+.|.+.+++|.++
T Consensus 3 l~~Wv~~i~~~~il 16 (106)
T TIGR02896 3 LKEWVTNIIVLILL 16 (106)
T ss_pred HHHHHHHHHHHHHH
Confidence 45677777665444
No 217
>COG2023 RPR2 RNase P subunit RPR2 [Translation, ribosomal structure and biogenesis]
Probab=28.38 E-value=31 Score=30.03 Aligned_cols=30 Identities=20% Similarity=0.496 Sum_probs=20.5
Q ss_pred eeccccccc--cCccc---cCCCCceEEEcCCCCCc
Q 014540 295 LICGNCHMH--NGLAR---KEDFPYITYYCPHCNAL 325 (423)
Q Consensus 295 LIC~~C~~H--NGlA~---~ee~e~i~yrC~~Cg~l 325 (423)
-||.+|++. -|.=- ... ..+.+.|..||+.
T Consensus 57 ~~CkkC~t~Lvpg~n~rvR~~~-~~v~vtC~~CG~~ 91 (105)
T COG2023 57 TICKKCYTPLVPGKNARVRLRK-GRVVVTCLECGTI 91 (105)
T ss_pred HhccccCcccccCcceEEEEcC-CeEEEEecCCCcE
Confidence 689999984 33322 122 2489999999975
No 218
>PRK01622 OxaA-like protein precursor; Validated
Probab=28.32 E-value=5.7e+02 Score=25.25 Aligned_cols=39 Identities=15% Similarity=0.176 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChH-------HHHHHHHhcCCChh
Q 014540 135 QKTLERLRVERKAKIDELKERTNYY-------TTQQLIQRYDPDPA 173 (423)
Q Consensus 135 e~kL~~L~~e~kkkIeelK~~T~Y~-------~Tk~LLEKYd~~~~ 173 (423)
..|+..++=+.+++=++.|++.+-. ++++|..+|+-.+-
T Consensus 90 ~~km~~iqP~l~~iq~kyk~~~d~~~~~~~~~e~~~Lyk~~gi~P~ 135 (256)
T PRK01622 90 QEKMAVMKPELDKIQAKLKVTKDLEKQKEYQKEMMELYKSGNINPL 135 (256)
T ss_pred HHHHHHhCHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHcCCCCc
Confidence 4566667666666666665544422 35677788886554
No 219
>PRK06260 threonine synthase; Validated
Probab=27.87 E-value=34 Score=35.63 Aligned_cols=27 Identities=37% Similarity=0.871 Sum_probs=19.0
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
|-|.|..|... ++.++ ..|+||.||.+
T Consensus 2 ~~~~C~~cg~~---~~~~~---~~~~Cp~cg~~ 28 (397)
T PRK06260 2 YWLKCIECGKE---YDPDE---IIYTCPECGGL 28 (397)
T ss_pred CEEEECCCCCC---CCCCC---ccccCCCCCCe
Confidence 67999999754 33333 46899999753
No 220
>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=27.84 E-value=3.3e+02 Score=29.17 Aligned_cols=16 Identities=25% Similarity=0.393 Sum_probs=11.4
Q ss_pred CcHHHHHHHHHHHHHH
Q 014540 39 DDFEKRLQYISKEEAA 54 (423)
Q Consensus 39 d~FEK~L~~Ls~kI~~ 54 (423)
..+++.++.|+.+++.
T Consensus 308 ~a~~~R~~~Ls~rv~R 323 (420)
T PF11902_consen 308 EAVERRQEDLSRRVAR 323 (420)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4677788888887643
No 221
>PRK02944 OxaA-like protein precursor; Validated
Probab=27.58 E-value=4.8e+02 Score=25.81 Aligned_cols=40 Identities=20% Similarity=0.273 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc------cChHHHHHHHHhcCCCh
Q 014540 133 KDQKTLERLRVERKAKIDELKER------TNYYTTQQLIQRYDPDP 172 (423)
Q Consensus 133 ~~e~kL~~L~~e~kkkIeelK~~------T~Y~~Tk~LLEKYd~~~ 172 (423)
+...|+.+++-|.+++-++.|.+ .-..++++|..+|+-.+
T Consensus 83 ~~~~km~~iqPe~~~iq~kyk~~~~~~~~k~~~e~~~Lyk~~gvnP 128 (255)
T PRK02944 83 KSTKAMQALQPEMQKLKEKYSSKDQATQQKLQQEMMQLFQKNGVNP 128 (255)
T ss_pred HHHHHHHHccHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCc
Confidence 34566666666655554444321 12345677778888655
No 222
>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=27.58 E-value=3e+02 Score=22.23 Aligned_cols=24 Identities=17% Similarity=0.263 Sum_probs=10.6
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHHhH
Q 014540 39 DDFEKRLQYISKEEAAILARVKRRS 63 (423)
Q Consensus 39 d~FEK~L~~Ls~kI~~~~srLk~~~ 63 (423)
+.-| .|..-+++....-..++++.
T Consensus 31 e~L~-~L~~kt~~L~~~a~~F~k~a 54 (89)
T PF00957_consen 31 EKLE-ELEDKTEELSDNAKQFKKNA 54 (89)
T ss_dssp HHHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred chHH-HHHHHHHHHHHHhHHHHHHH
Confidence 3444 35555555543333444333
No 223
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=27.55 E-value=29 Score=27.65 Aligned_cols=22 Identities=23% Similarity=0.436 Sum_probs=16.5
Q ss_pred eeeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
.+-|.+|+..+. ++ +||.||.-
T Consensus 5 ~~AC~~C~~i~~----~~------~Cp~Cgs~ 26 (64)
T PRK06393 5 YRACKKCKRLTP----EK------TCPVHGDE 26 (64)
T ss_pred hhhHhhCCcccC----CC------cCCCCCCC
Confidence 367999999881 12 99999973
No 224
>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=27.48 E-value=2.4e+02 Score=26.15 Aligned_cols=39 Identities=13% Similarity=0.196 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcc--ChHHHHHHHHhcCCCh
Q 014540 134 DQKTLERLRVERKAKIDELKERT--NYYTTQQLIQRYDPDP 172 (423)
Q Consensus 134 ~e~kL~~L~~e~kkkIeelK~~T--~Y~~Tk~LLEKYd~~~ 172 (423)
...|+.+++-|.++.-|+.|++. --..+++|.+|++-.+
T Consensus 27 ~~~km~~i~P~~~~i~~k~k~~~~~~~~e~~~l~k~~~~~p 67 (181)
T TIGR03592 27 SMRKMQELQPKLKEIQEKYKDDPQKLQQEMMKLYKEEGVNP 67 (181)
T ss_pred HHHHHHHhhHHHHHHHHHHHhhHHHHHHHHHHHHHHhCCCc
Confidence 34455555555555444444321 2345777778887654
No 225
>PHA02942 putative transposase; Provisional
Probab=27.45 E-value=43 Score=35.14 Aligned_cols=31 Identities=19% Similarity=0.434 Sum_probs=21.2
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCccCC
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNALNRP 328 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~ 328 (423)
---.|+.|...+. . ...-.|+|+.||+...+
T Consensus 324 TSq~Cs~CG~~~~--~---l~~r~f~C~~CG~~~dr 354 (383)
T PHA02942 324 SSVSCPKCGHKMV--E---IAHRYFHCPSCGYENDR 354 (383)
T ss_pred CCccCCCCCCccC--c---CCCCEEECCCCCCEeCc
Confidence 3478999987653 1 12247999999996544
No 226
>TIGR01271 CFTR_protein cystic fibrosis transmembrane conductor regulator (CFTR). The model describes the cystis fibrosis transmembrane conductor regulator (CFTR) in eukaryotes. The principal role of this protein is chloride ion conductance. The protein is predicted to consist of 12 transmembrane domains. Mutations or lesions in the genetic loci have been linked to the aetiology of asthma, bronchiectasis, chronic obstructive pulmonary disease etc. Disease-causing mutations have been studied by 36Cl efflux assays in vitro cell cultures and electrophysiology, all of which point to the impairment of chloride channel stability and not the biosynthetic processing per se.
Probab=27.38 E-value=4e+02 Score=33.04 Aligned_cols=9 Identities=0% Similarity=-0.175 Sum_probs=4.8
Q ss_pred CcHHHHHHH
Q 014540 274 GGWIARIAA 282 (423)
Q Consensus 274 r~W~DRIlD 282 (423)
..||+++++
T Consensus 515 ~~~~~~~~~ 523 (1490)
T TIGR01271 515 EYRYTSVIK 523 (1490)
T ss_pred hHHHHHHHH
Confidence 346666544
No 227
>COG5038 Ca2+-dependent lipid-binding protein, contains C2 domain [General function prediction only]
Probab=27.32 E-value=3.2e+02 Score=33.03 Aligned_cols=41 Identities=20% Similarity=0.469 Sum_probs=22.3
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHhhccChHHH---HHHHHhcCC
Q 014540 127 NRMCDRKDQKTLERLRVERKAKIDELKERTNYYTT---QQLIQRYDP 170 (423)
Q Consensus 127 ~r~~~~~~e~kL~~L~~e~kkkIeelK~~T~Y~~T---k~LLEKYd~ 170 (423)
|+..+++..+.+++|- ++.+-+-|..-+|+++ +-+|+||=+
T Consensus 192 Y~~~~~rv~rnird~v---~~~~~~ek~~nd~ESveWLNtfL~KfW~ 235 (1227)
T COG5038 192 YRTCIKRVRRNIRDLV---QQELSEEKLENDYESVEWLNTFLQKFWP 235 (1227)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHhhhcchhHHHHHHHHHHhhee
Confidence 4444444445555553 3334444555566543 568899865
No 228
>KOG4298 consensus CAP-binding protein complex interacting protein 2 [RNA processing and modification]
Probab=27.24 E-value=5.9e+02 Score=24.78 Aligned_cols=11 Identities=18% Similarity=0.156 Sum_probs=5.8
Q ss_pred hhhhhHHHHHH
Q 014540 109 IFLLPGLSALA 119 (423)
Q Consensus 109 ~~l~Pili~li 119 (423)
.+++|+.++++
T Consensus 187 ~ilvPvgliFv 197 (245)
T KOG4298|consen 187 AILVPVGLIFV 197 (245)
T ss_pred hhhhhhhHHHH
Confidence 44566655443
No 229
>KOG2568 consensus Predicted membrane protein [Function unknown]
Probab=27.17 E-value=3e+02 Score=30.38 Aligned_cols=50 Identities=22% Similarity=0.329 Sum_probs=21.5
Q ss_pred HHHHHHHHHhHHHHHh-hhhH---HHHHHHHHHHHHHHHHHhhcc--cccchhhhh
Q 014540 53 AAILARVKRRSQTWRR-MSRH---LIIFTVVFEVIAVGYAIMTTR--SMELNWKTR 102 (423)
Q Consensus 53 ~~~~srLk~~~~~~Rr-~~~~---Li~YS~il~ii~lvY~~~~~~--~~~~~w~~r 102 (423)
+++...|+-+|+-.+- ++++ .+.++++.+|+.++|..+... .....|+.+
T Consensus 363 ~~Tlk~Lr~rRn~vKl~lYr~F~n~l~~~Vvas~~~i~~~~~~~~~~~~~~~Wk~~ 418 (518)
T KOG2568|consen 363 AKTLKKLRLRRNIVKLSLYRKFTNTLAFSVVASFAFILVETIFYSIMSCNKDWKER 418 (518)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHh
Confidence 3444455544443321 2333 334555555554443333222 234456643
No 230
>KOG3012 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.02 E-value=5.4e+02 Score=25.66 Aligned_cols=66 Identities=20% Similarity=0.332 Sum_probs=38.4
Q ss_pred hhhhhhhccCCCcHHHHHHHHHHHHH---HHHHHHHHhHHHHHhhhh----HHHHHHHHHHHHHHHHHHhhcc
Q 014540 28 RLWNGIFRLKGDDFEKRLQYISKEEA---AILARVKRRSQTWRRMSR----HLIIFTVVFEVIAVGYAIMTTR 93 (423)
Q Consensus 28 ~~w~~~Fr~~~d~FEK~L~~Ls~kI~---~~~srLk~~~~~~Rr~~~----~Li~YS~il~ii~lvY~~~~~~ 93 (423)
+.-.+||+-+.=|||-++-+|--=+. ++=..+.=++|...+|.| =+++.++.+.+..+.|+++.-+
T Consensus 33 ~~~RRL~k~~QMDfE~A~WqMl~L~~~P~kVYr~~~YrKQTKnQwARDDPaFlVl~s~~l~vssi~~a~~~~l 105 (259)
T KOG3012|consen 33 KYLRRLFKFRQMDFEFALWQMLYLFTSPRKVYRNFHYRKQTKNQWARDDPAFLVLLSLLLVVSSIGWAYVLDL 105 (259)
T ss_pred HHHHHHHHHhhccHHHHHHHHHHHHhChHHHHhHhhhhhhhhhhhhccCchHHHHHHHHHHHHHHHHHHHhcc
Confidence 44557787777899999998854432 122223334444444422 2455566666666778776543
No 231
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=27.01 E-value=28 Score=39.16 Aligned_cols=42 Identities=19% Similarity=0.416 Sum_probs=26.0
Q ss_pred CCcHHHHHHHHHhcC-C-C---CCcceeeccccccccCccccCCCCceEEEcCCCC
Q 014540 273 DGGWIARIAAILVGD-D-P---SQSYALICGNCHMHNGLARKEDFPYITYYCPHCN 323 (423)
Q Consensus 273 ~r~W~DRIlD~LlGd-d-p---t~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg 323 (423)
+..-+-+|++++.-. + + -+.=-=||..|..+.|. .|.||.||
T Consensus 600 n~~a~~~lv~~~~~~~~i~Y~~in~~~~~C~~CG~~~g~---------~~~CP~CG 646 (656)
T PRK08270 600 DAEACKKLVKKALENYRLPYITITPTFSICPKHGYLSGE---------HEFCPKCG 646 (656)
T ss_pred CHHHHHHHHHHHHHhCCCceEEeCCCCcccCCCCCcCCC---------CCCCcCCc
Confidence 345566777766421 1 1 13334689999865443 48999999
No 232
>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=26.79 E-value=1.9e+02 Score=28.74 Aligned_cols=16 Identities=13% Similarity=0.142 Sum_probs=11.1
Q ss_pred CCcHHHHHHHHHhcCC
Q 014540 273 DGGWIARIAAILVGDD 288 (423)
Q Consensus 273 ~r~W~DRIlD~LlGdd 288 (423)
.+.-++-|++||..-.
T Consensus 178 sdeeI~aVaaYv~sl~ 193 (285)
T TIGR00782 178 EEADIKDVASYVMSLS 193 (285)
T ss_pred ChHHHHHHHHHHHHhc
Confidence 3445788999988654
No 233
>PRK12705 hypothetical protein; Provisional
Probab=26.76 E-value=2e+02 Score=31.56 Aligned_cols=7 Identities=29% Similarity=0.605 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 014540 146 KAKIDEL 152 (423)
Q Consensus 146 kkkIeel 152 (423)
.++.+.|
T Consensus 94 ~~~~~~l 100 (508)
T PRK12705 94 DARAEKL 100 (508)
T ss_pred HHHHHHH
Confidence 3333333
No 234
>PRK00420 hypothetical protein; Validated
Probab=26.72 E-value=49 Score=29.09 Aligned_cols=47 Identities=15% Similarity=0.171 Sum_probs=30.1
Q ss_pred CcHHHHHHHHHhcCCCCCcceeeccccccccCccccCCCCceEEEcCCCCCccC
Q 014540 274 GGWIARIAAILVGDDPSQSYALICGNCHMHNGLARKEDFPYITYYCPHCNALNR 327 (423)
Q Consensus 274 r~W~DRIlD~LlGddpt~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~ 327 (423)
+.-.-++.++|+-+.-. .+-.|..|... ..+. ..+..+||.||..--
T Consensus 5 ~~~~k~~a~~Ll~Ga~m--l~~~CP~Cg~p----Lf~l-k~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 5 EDIVKKAAELLLKGAKM--LSKHCPVCGLP----LFEL-KDGEVVCPVHGKVYI 51 (112)
T ss_pred HHHHHHHHHHHHhHHHH--ccCCCCCCCCc----ceec-CCCceECCCCCCeee
Confidence 34456778888764322 55789998632 2221 347889999998644
No 235
>PRK15033 tricarballylate utilization protein B; Provisional
Probab=26.69 E-value=2.9e+02 Score=29.38 Aligned_cols=21 Identities=24% Similarity=0.278 Sum_probs=17.5
Q ss_pred HHHHhhhhHHHHHHHHHHHHH
Q 014540 64 QTWRRMSRHLIIFTVVFEVIA 84 (423)
Q Consensus 64 ~~~Rr~~~~Li~YS~il~ii~ 84 (423)
...||..+.+++|++++.++.
T Consensus 231 ~~~Rr~~H~l~~yGFil~f~a 251 (389)
T PRK15033 231 TLARRRFHHLTFYGFMLCFAA 251 (389)
T ss_pred chHHHHHHHHHHHHHHHHHHH
Confidence 456778899999999988885
No 236
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=26.67 E-value=5.8e+02 Score=27.52 Aligned_cols=60 Identities=25% Similarity=0.308 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccC-------hHHHHHHHHhcCCChh
Q 014540 113 PGLSALAYSAFVSFNRMCDRKDQKTLERLRVERKAKIDELKERTN-------YYTTQQLIQRYDPDPA 173 (423)
Q Consensus 113 Pili~li~~~~~~f~r~~~~~~e~kL~~L~~e~kkkIeelK~~T~-------Y~~Tk~LLEKYd~~~~ 173 (423)
.++.++++.++.-++..-. +..++...|+=+.+++-++.|.+.+ -..+++|-.+||-.+-
T Consensus 37 i~ltiiVRliLlPL~~~q~-ks~~km~~lqPel~~iq~kyk~~~d~e~~~~~qqe~~~LyKe~ginP~ 103 (429)
T PRK00247 37 FGLVITVRAIIAPFTWQQY-KSGRTAAHIRPKRKALREEYKGKTDEASIRELQQKQKDLNKEYGYNPL 103 (429)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHHcCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHcCCCch
Confidence 3444445544433322211 2234455555555555555554433 2357888888887653
No 237
>COG1384 LysS Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]
Probab=26.63 E-value=58 Score=35.68 Aligned_cols=35 Identities=20% Similarity=0.342 Sum_probs=22.7
Q ss_pred cceeeccccccccCcccc-CCC-CceEEEcCCCCCccC
Q 014540 292 SYALICGNCHMHNGLARK-EDF-PYITYYCPHCNALNR 327 (423)
Q Consensus 292 ryALIC~~C~~HNGlA~~-ee~-e~i~yrC~~Cg~lN~ 327 (423)
.|--||.+|+..+=-=-. =+. ..+.|+|. ||+-.-
T Consensus 169 P~~piC~kcGri~~t~v~~~d~~~~v~Y~Ce-~Gh~g~ 205 (521)
T COG1384 169 PFMPICEKCGRILTTPVIEWDGEGTVEYRCE-CGHEGE 205 (521)
T ss_pred eccccccccCCcceeEEEEecCCceEEEEec-CCccce
Confidence 477999999986532111 122 47999995 676543
No 238
>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=26.62 E-value=34 Score=20.08 Aligned_cols=11 Identities=36% Similarity=0.948 Sum_probs=6.8
Q ss_pred EEcCCCCCccC
Q 014540 317 YYCPHCNALNR 327 (423)
Q Consensus 317 yrC~~Cg~lN~ 327 (423)
|.|+.|+..-.
T Consensus 1 ~~C~~C~~~~~ 11 (24)
T PF13894_consen 1 FQCPICGKSFR 11 (24)
T ss_dssp EE-SSTS-EES
T ss_pred CCCcCCCCcCC
Confidence 78999987543
No 239
>PRK12452 cardiolipin synthetase; Reviewed
Probab=26.27 E-value=3.4e+02 Score=29.52 Aligned_cols=19 Identities=42% Similarity=0.592 Sum_probs=14.2
Q ss_pred cccchhhhhHHHHHHHHHH
Q 014540 105 QVLPIFLLPGLSALAYSAF 123 (423)
Q Consensus 105 ~~lp~~l~Pili~li~~~~ 123 (423)
+++.++++|++.+++|.++
T Consensus 61 Wl~~i~~~P~~G~~lYl~f 79 (509)
T PRK12452 61 WFLVLALLPVVGVLLYSIF 79 (509)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 3456777899998888664
No 240
>PF07271 Cytadhesin_P30: Cytadhesin P30/P32; InterPro: IPR009896 This family consists of several Mycoplasma species specific Cytadhesin P32 and P30 proteins. P30 has been found to be membrane associated and localised on the tip organelle. It is thought that it is important in cytadherence and virulence [].; GO: 0007157 heterophilic cell-cell adhesion, 0009405 pathogenesis, 0016021 integral to membrane
Probab=26.11 E-value=4.9e+02 Score=26.45 Aligned_cols=31 Identities=13% Similarity=0.171 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccChHHHHH
Q 014540 133 KDQKTLERLRVERKAKIDELKERTNYYTTQQ 163 (423)
Q Consensus 133 ~~e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~ 163 (423)
|+|+++-+-++++++..|++-....=+.|+.
T Consensus 97 rkek~~iee~e~~~q~~e~~~~i~qq~~~ea 127 (279)
T PF07271_consen 97 RKEKRMIEEKEEHEQLAEQLGRISQQEETEA 127 (279)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4467776677777777777755443333333
No 241
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=25.93 E-value=2.5e+02 Score=27.38 Aligned_cols=25 Identities=16% Similarity=0.280 Sum_probs=15.1
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHhHH
Q 014540 40 DFEKRLQYISKEEAAILARVKRRSQ 64 (423)
Q Consensus 40 ~FEK~L~~Ls~kI~~~~srLk~~~~ 64 (423)
..|.+|..+..+|...+.+++.-..
T Consensus 166 ~ie~~L~~v~~eIe~~~~~~~~l~~ 190 (262)
T PF14257_consen 166 EIERELSRVRSEIEQLEGQLKYLDD 190 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677777776666665544443
No 242
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=25.87 E-value=20 Score=27.76 Aligned_cols=37 Identities=27% Similarity=0.594 Sum_probs=24.8
Q ss_pred eeccccccccCccccCCCC-ceEEEcCCCCCccCCCCCCCC
Q 014540 295 LICGNCHMHNGLARKEDFP-YITYYCPHCNALNRPKESEGH 334 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e-~i~yrC~~Cg~lN~~~~~~~~ 334 (423)
+-|.+| |-+....++. |+.-.||.|..+|.-.-.+|+
T Consensus 5 iRC~~C---nKlLa~a~~~~yle~KCPrCK~vN~~~~~~e~ 42 (60)
T COG4416 5 IRCAKC---NKLLAEAEGQAYLEKKCPRCKEVNEFYIKEEA 42 (60)
T ss_pred eehHHH---hHHHHhcccceeeeecCCccceeeeeeccccc
Confidence 457777 4444444554 888999999999975444444
No 243
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=25.83 E-value=36 Score=37.36 Aligned_cols=25 Identities=32% Similarity=0.639 Sum_probs=11.9
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCcc
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNALN 326 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN 326 (423)
=--||..|....| ..+.||.||.-|
T Consensus 490 ~~~~C~~CG~~~~---------~~~~CP~CGs~~ 514 (546)
T PF13597_consen 490 PIDICPDCGYIGG---------EGDKCPKCGSEN 514 (546)
T ss_dssp -EEEETTT---S-----------EEE-CCC----
T ss_pred CcccccCCCcCCC---------CCCCCCCCCCcc
Confidence 3479999986543 278999999665
No 244
>PF14126 DUF4293: Domain of unknown function (DUF4293)
Probab=25.80 E-value=3.3e+02 Score=24.75 Aligned_cols=10 Identities=30% Similarity=0.352 Sum_probs=5.5
Q ss_pred HHHHhHHHHH
Q 014540 127 NRMCDRKDQK 136 (423)
Q Consensus 127 ~r~~~~~~e~ 136 (423)
-++-+++||+
T Consensus 132 A~r~I~kDEk 141 (149)
T PF14126_consen 132 ANRAIKKDEK 141 (149)
T ss_pred HHHHhHHHHH
Confidence 3445666664
No 245
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=25.58 E-value=3.9e+02 Score=22.14 Aligned_cols=7 Identities=14% Similarity=0.245 Sum_probs=3.2
Q ss_pred HHHHHHH
Q 014540 137 TLERLRV 143 (423)
Q Consensus 137 kL~~L~~ 143 (423)
..|.+.+
T Consensus 80 ~~D~l~~ 86 (91)
T PF04341_consen 80 EFDPLAR 86 (91)
T ss_pred ccCHHHH
Confidence 3554443
No 246
>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=32 Score=27.58 Aligned_cols=31 Identities=26% Similarity=0.628 Sum_probs=17.2
Q ss_pred eeeccccccc--cC---ccccC----CCCceEEEcCCCCC
Q 014540 294 ALICGNCHMH--NG---LARKE----DFPYITYYCPHCNA 324 (423)
Q Consensus 294 ALIC~~C~~H--NG---lA~~e----e~e~i~yrC~~Cg~ 324 (423)
-.||++|++. -| -+... ....+.|.|-.||+
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 3799999873 22 22212 23468999999984
No 247
>CHL00104 rpl33 ribosomal protein L33
Probab=24.96 E-value=50 Score=26.44 Aligned_cols=13 Identities=23% Similarity=0.432 Sum_probs=11.8
Q ss_pred ceeeccccccccC
Q 014540 293 YALICGNCHMHNG 305 (423)
Q Consensus 293 yALIC~~C~~HNG 305 (423)
..|.|..|..+||
T Consensus 11 I~L~Ct~c~~~n~ 23 (66)
T CHL00104 11 VILECTSCVRNGV 23 (66)
T ss_pred EEEEecCCcCCCc
Confidence 6799999999996
No 248
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=24.82 E-value=1.3e+02 Score=30.36 Aligned_cols=27 Identities=26% Similarity=0.503 Sum_probs=19.8
Q ss_pred ceeehhhhhhhccCCCcHHHHHHHHHHHH
Q 014540 24 GIISRLWNGIFRLKGDDFEKRLQYISKEE 52 (423)
Q Consensus 24 ~~~S~~w~~~Fr~~~d~FEK~L~~Ls~kI 52 (423)
-+=+++|-+|- =..+|||+|+.|++..
T Consensus 71 H~P~klwErik--LSkNyekALeQIde~L 97 (303)
T KOG3064|consen 71 HMPRKLWERIK--LSKNYEKALEQIDEQL 97 (303)
T ss_pred cCcHHHHHHHh--cchhHHHHHHHHHHHH
Confidence 34468887772 1468999999998864
No 249
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=24.76 E-value=68 Score=24.82 Aligned_cols=26 Identities=23% Similarity=0.506 Sum_probs=19.3
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
-.|.+|.. +-.-...|++||+.+|..
T Consensus 28 ~~C~~CG~---------~~~~H~vC~~CG~Y~gr~ 53 (57)
T PRK12286 28 VECPNCGE---------PKLPHRVCPSCGYYKGRE 53 (57)
T ss_pred eECCCCCC---------ccCCeEECCCCCcCCCEE
Confidence 46888853 334578999999999863
No 250
>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=24.70 E-value=2.6e+02 Score=24.48 Aligned_cols=10 Identities=20% Similarity=0.537 Sum_probs=7.6
Q ss_pred HHHHHHHhcC
Q 014540 160 TTQQLIQRYD 169 (423)
Q Consensus 160 ~Tk~LLEKYd 169 (423)
..++.+|||+
T Consensus 64 ~~~~~i~kyg 73 (121)
T PF06695_consen 64 KKSKKIEKYG 73 (121)
T ss_pred HHHHHHHHHh
Confidence 3667799997
No 251
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=24.58 E-value=49 Score=31.66 Aligned_cols=30 Identities=27% Similarity=0.586 Sum_probs=20.6
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
-.|++|+. .|.+. ..+-+||.||..-.++-
T Consensus 150 A~CsrC~~--~L~~~----~~~l~Cp~Cg~tEkRKi 179 (188)
T COG1096 150 ARCSRCRA--PLVKK----GNMLKCPNCGNTEKRKI 179 (188)
T ss_pred EEccCCCc--ceEEc----CcEEECCCCCCEEeeee
Confidence 36999985 46652 25779999997655443
No 252
>KOG1307 consensus K+-dependent Ca2+/Na+ exchanger NCKX1 and related proteins [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=24.40 E-value=53 Score=35.76 Aligned_cols=18 Identities=22% Similarity=0.329 Sum_probs=10.6
Q ss_pred HHhhccChHHHHHHHHhc
Q 014540 151 ELKERTNYYTTQQLIQRY 168 (423)
Q Consensus 151 elK~~T~Y~~Tk~LLEKY 168 (423)
+.|..++-+.+..+++|=
T Consensus 229 ~~~~~~~~~Aa~~~~~~~ 246 (588)
T KOG1307|consen 229 EIKPGKNEDAAAELLDKS 246 (588)
T ss_pred ccCCcccchhhhhhhccC
Confidence 344556666666666654
No 253
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=24.33 E-value=53 Score=28.45 Aligned_cols=36 Identities=31% Similarity=0.589 Sum_probs=25.2
Q ss_pred eeeccccccccCccccC--------CCCceEEEcCCCCCccCCCC
Q 014540 294 ALICGNCHMHNGLARKE--------DFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~e--------e~e~i~yrC~~Cg~lN~~~~ 330 (423)
+.+|..|...-=++.-+ +..+ -|+|..|+++-|--+
T Consensus 2 p~~CpYCg~~~~l~~~~~iYg~~~~~~~~-~y~C~~C~AyVG~H~ 45 (102)
T PF11672_consen 2 PIICPYCGGPAELVDGSEIYGHRYDDGPY-LYVCTPCDAYVGCHP 45 (102)
T ss_pred CcccCCCCCeeEEcccchhcCccCCCCce-eEECCCCCceeeeeC
Confidence 46899998776666521 2232 399999999988644
No 254
>PF01277 Oleosin: Oleosin; InterPro: IPR000136 Oleosins [] are the proteinaceous components of plants' lipid storage bodies called oil bodies. Oil bodies are small droplets (0.2 to 1.5 mu-m in diameter) containing mostly triacylglycerol that are surrounded by a phospholipid/ oleosin annulus. Oleosins may have a structural role in stabilising the lipid body during dessication of the seed, by preventing coalescence of the oil. They may also provide recognition signals for specific lipase anchorage in lipolysis during seedling growth. Oleosins are found in the monolayer lipid/ water interface of oil bodies and probably interact with both the lipid and phospholipid moieties. Oleosins are proteins of 16 Kd to 24 Kd and are composed of three domains: an N-terminal hydrophilic region of variable length (from 30 to 60 residues); a central hydrophobic domain of about 70 residues and a C-terminal amphipathic region of variable length (from 60 to 100 residues). The central hydrophobic domain is proposed to be made up of beta-strand structure and to interact with the lipids []. It is the only domain whose sequence is conserved.; GO: 0012511 monolayer-surrounded lipid storage body, 0016021 integral to membrane
Probab=24.13 E-value=2.6e+02 Score=24.90 Aligned_cols=34 Identities=3% Similarity=0.040 Sum_probs=21.8
Q ss_pred HHHHHHHHhHHH---HHHHHHHHHHHHHHHHHHhhcc
Q 014540 123 FVSFNRMCDRKD---QKTLERLRVERKAKIDELKERT 156 (423)
Q Consensus 123 ~~~f~r~~~~~~---e~kL~~L~~e~kkkIeelK~~T 156 (423)
+.|+++|+..+. .++++.-+...+++-+.+++++
T Consensus 75 lsW~~~y~rg~~~~~~~q~d~Ak~ri~d~a~~v~~ka 111 (118)
T PF01277_consen 75 LSWMYNYFRGRHPPGPDQLDYAKRRIADTASYVGQKA 111 (118)
T ss_pred HHHHHHHhccCCCCCCccHHHHHHHHHHHHHHHHHHH
Confidence 456677766542 3567777777677767776655
No 255
>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans. Its function is unknown.
Probab=23.93 E-value=3.5e+02 Score=28.83 Aligned_cols=17 Identities=6% Similarity=0.018 Sum_probs=11.0
Q ss_pred cHHHHHHHHHHHHHHHH
Q 014540 40 DFEKRLQYISKEEAAIL 56 (423)
Q Consensus 40 ~FEK~L~~Ls~kI~~~~ 56 (423)
|++..++....+|.+++
T Consensus 302 di~E~~Es~qtRisklE 318 (395)
T PF10267_consen 302 DIWEVMESCQTRISKLE 318 (395)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34445777777776666
No 256
>PRK01110 rpmF 50S ribosomal protein L32; Validated
Probab=23.91 E-value=43 Score=26.12 Aligned_cols=26 Identities=8% Similarity=-0.009 Sum_probs=18.8
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
-+|.+|. ++-.-..+|+ ||+.+|...
T Consensus 28 ~~c~~cg---------~~~~pH~vc~-cG~Y~gr~v 53 (60)
T PRK01110 28 SVDKTTG---------EYHLPHHVSP-KGYYKGRKV 53 (60)
T ss_pred eEcCCCC---------ceeccceecC-CcccCCeEe
Confidence 5788885 3334567899 999999654
No 257
>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=23.71 E-value=3.3e+02 Score=22.41 Aligned_cols=10 Identities=30% Similarity=0.587 Sum_probs=3.9
Q ss_pred HHHHHHHHHH
Q 014540 136 KTLERLRVER 145 (423)
Q Consensus 136 ~kL~~L~~e~ 145 (423)
+..++|+.+.
T Consensus 49 ~~~~~l~~e~ 58 (97)
T PF04999_consen 49 KEIDQLQEEN 58 (97)
T ss_pred HHHHHHHHHH
Confidence 3334444333
No 258
>PRK00145 putative inner membrane protein translocase component YidC; Provisional
Probab=23.70 E-value=6.7e+02 Score=24.20 Aligned_cols=40 Identities=15% Similarity=0.179 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccC--hHHHHHHHHhcCCCh
Q 014540 133 KDQKTLERLRVERKAKIDELKERTN--YYTTQQLIQRYDPDP 172 (423)
Q Consensus 133 ~~e~kL~~L~~e~kkkIeelK~~T~--Y~~Tk~LLEKYd~~~ 172 (423)
+...|+.+++-|.++.-++.|.+.. =..+++|.++++-.+
T Consensus 55 ~~~~km~~iqP~~~~i~~k~k~d~~~~~~e~~~Lyk~~~inp 96 (223)
T PRK00145 55 KSSLRMNEIQPEIKKLQAKYKNDPQKLQQEMMKLYKEKGVNP 96 (223)
T ss_pred HHHHHHHHhhHHHHHHHHHHHccHHHHHHHHHHHHHHhCCCc
Confidence 3456666666666555555543221 123566777777554
No 259
>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=23.53 E-value=1.3e+02 Score=26.01 Aligned_cols=23 Identities=22% Similarity=0.458 Sum_probs=14.1
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHH
Q 014540 130 CDRKDQKTLERLRVERKAKIDEL 152 (423)
Q Consensus 130 ~~~~~e~kL~~L~~e~kkkIeel 152 (423)
+.++...+|++|++++++.++.-
T Consensus 66 ~r~~EkEqL~~Lk~kl~~e~~~~ 88 (100)
T PF04568_consen 66 FRKKEKEQLKKLKEKLKEEIEHH 88 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445577888887766644433
No 260
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=23.44 E-value=46 Score=29.55 Aligned_cols=32 Identities=22% Similarity=0.553 Sum_probs=22.8
Q ss_pred CcceeeccccccccCccccCCCCceEEEcCCCCC
Q 014540 291 QSYALICGNCHMHNGLARKEDFPYITYYCPHCNA 324 (423)
Q Consensus 291 ~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~ 324 (423)
.+|...|..|...=.--.+- ...+|+|+.|+.
T Consensus 120 ~~~~~~C~~C~~~~~r~~~~--~~~~~~C~~C~~ 151 (157)
T PF10263_consen 120 KKYVYRCPSCGREYKRHRRS--KRKRYRCGRCGG 151 (157)
T ss_pred cceEEEcCCCCCEeeeeccc--chhhEECCCCCC
Confidence 56899999998664333332 446899999983
No 261
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=23.39 E-value=41 Score=21.27 Aligned_cols=12 Identities=42% Similarity=1.027 Sum_probs=9.2
Q ss_pred EcCCCCCccCCC
Q 014540 318 YCPHCNALNRPK 329 (423)
Q Consensus 318 rC~~Cg~lN~~~ 329 (423)
+|++||.-+...
T Consensus 1 ~Cp~CG~~~~~~ 12 (23)
T PF13240_consen 1 YCPNCGAEIEDD 12 (23)
T ss_pred CCcccCCCCCCc
Confidence 599999887653
No 262
>PF01544 CorA: CorA-like Mg2+ transporter protein; InterPro: IPR002523 The CorA transport system is the primary Mg2+ influx system of Salmonella typhimurium and Escherichia coli [, ]. CorA is virtually ubiquitous in the Bacteria and Archaea. There are also eukaryotic relatives of this protein. Transporter ZntB mediates efflux of zinc ions [].; GO: 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 2HN1_A 3NWI_D 3NVO_B 3CK6_A 2IUB_E 2BBJ_E 2HN2_A 2BBH_A.
Probab=23.03 E-value=2.5e+02 Score=26.88 Aligned_cols=13 Identities=38% Similarity=0.662 Sum_probs=6.8
Q ss_pred hhhhHHHHHHHHH
Q 014540 68 RMSRHLIIFTVVF 80 (423)
Q Consensus 68 r~~~~Li~YS~il 80 (423)
+..++|+++++++
T Consensus 232 ~~m~~LT~~t~if 244 (292)
T PF01544_consen 232 RVMKVLTIVTAIF 244 (292)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3445566555554
No 263
>PF02173 pKID: pKID domain; InterPro: IPR003102 The nuclear factor CREB activates transcription of target genes in part through direct interactions with the KIX domain of the coactivator CBP in a phosphorylation-dependent manner. CBP and P300 bind to the pKID (phosphorylated kinase-inducible-domain) domain of CREB [].; GO: 0005515 protein binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1KDX_B.
Probab=22.93 E-value=45 Score=24.37 Aligned_cols=33 Identities=33% Similarity=0.506 Sum_probs=21.2
Q ss_pred CChHHhhhhccceeehhhhhhhccCCCcHHHHHHHHHHHHHH
Q 014540 13 KDSKAVEKKRKGIISRLWNGIFRLKGDDFEKRLQYISKEEAA 54 (423)
Q Consensus 13 ~~~~~~~~~~~~~~S~~w~~~Fr~~~d~FEK~L~~Ls~kI~~ 54 (423)
.|....-+++..|++| --+|.|.|..|+.++..
T Consensus 3 ~~s~~~~~krReiLsR---------RPSYRKIlndLs~~~~~ 35 (41)
T PF02173_consen 3 SDSEEDSQKRREILSR---------RPSYRKILNDLSSEDTG 35 (41)
T ss_dssp -----HHHHHHHHHTT---------STHHHHHHHHHHHH---
T ss_pred cccccchHHHHHHHhh---------CchHHHHHHHhcccccc
Confidence 4555666777899998 46899999999887643
No 264
>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=22.89 E-value=49 Score=22.79 Aligned_cols=10 Identities=30% Similarity=1.085 Sum_probs=9.2
Q ss_pred EEEcCCCCCc
Q 014540 316 TYYCPHCNAL 325 (423)
Q Consensus 316 ~yrC~~Cg~l 325 (423)
.|+|..||+.
T Consensus 2 ~~~C~~CG~i 11 (34)
T cd00729 2 VWVCPVCGYI 11 (34)
T ss_pred eEECCCCCCE
Confidence 6999999988
No 265
>PF14163 SieB: Superinfection exclusion protein B
Probab=22.76 E-value=4.3e+02 Score=23.58 Aligned_cols=8 Identities=25% Similarity=0.451 Sum_probs=3.8
Q ss_pred HHHHHHHH
Q 014540 145 RKAKIDEL 152 (423)
Q Consensus 145 ~kkkIeel 152 (423)
.+++++.|
T Consensus 72 ~~~~l~~L 79 (151)
T PF14163_consen 72 IEKKLNSL 79 (151)
T ss_pred HHHHHHhC
Confidence 34445555
No 266
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=22.59 E-value=48 Score=34.96 Aligned_cols=26 Identities=27% Similarity=0.818 Sum_probs=18.6
Q ss_pred cceeeccccc-cccCccccCCCCceEEEcCCCC
Q 014540 292 SYALICGNCH-MHNGLARKEDFPYITYYCPHCN 323 (423)
Q Consensus 292 ryALIC~~C~-~HNGlA~~ee~e~i~yrC~~Cg 323 (423)
.|-+-|.+|. ..+++.+.. =.|++||
T Consensus 238 g~~~~c~~cg~~~~~~~~~~------~~c~~Cg 264 (380)
T COG1867 238 GYIYHCSRCGEIVGSFREVD------EKCPHCG 264 (380)
T ss_pred CcEEEcccccceeccccccc------ccCCccc
Confidence 5889999996 444444333 3899999
No 267
>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=22.53 E-value=41 Score=24.09 Aligned_cols=31 Identities=23% Similarity=0.534 Sum_probs=19.4
Q ss_pred ceeeccccc-cccCccccCCCCceEEEcCCCCCc
Q 014540 293 YALICGNCH-MHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 293 yALIC~~C~-~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
|-..|..|. ...=+.+-.+ + ..-.||.||.-
T Consensus 4 Yey~C~~Cg~~fe~~~~~~~-~-~~~~CP~Cg~~ 35 (42)
T PF09723_consen 4 YEYRCEECGHEFEVLQSISE-D-DPVPCPECGST 35 (42)
T ss_pred EEEEeCCCCCEEEEEEEcCC-C-CCCcCCCCCCC
Confidence 667788887 4444444444 2 34578888863
No 268
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=22.39 E-value=4.4e+02 Score=26.62 Aligned_cols=25 Identities=12% Similarity=0.129 Sum_probs=15.2
Q ss_pred HHHhhhhHHHHHHHHHHHHHHHHHH
Q 014540 65 TWRRMSRHLIIFTVVFEVIAVGYAI 89 (423)
Q Consensus 65 ~~Rr~~~~Li~YS~il~ii~lvY~~ 89 (423)
+...+.+.|+++|+++....++-.+
T Consensus 257 ~~N~imk~LTi~s~iflPpTlIagi 281 (322)
T COG0598 257 NQNEIMKILTIVSTIFLPPTLITGF 281 (322)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHcc
Confidence 4455667777777776555544443
No 269
>KOG1597 consensus Transcription initiation factor TFIIB [Transcription]
Probab=22.25 E-value=54 Score=33.54 Aligned_cols=38 Identities=18% Similarity=0.399 Sum_probs=31.8
Q ss_pred eeccccccccCccccCCCCceEEEcCCCCCccCCCCCCC
Q 014540 295 LICGNCHMHNGLARKEDFPYITYYCPHCNALNRPKESEG 333 (423)
Q Consensus 295 LIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~~~~ 333 (423)
++|..|..|-+ -..+++.-+--+|..||-.-+.|...+
T Consensus 1 ~~c~~C~~~~~-~~V~d~~~gdtvC~~CGlVl~~r~Id~ 38 (308)
T KOG1597|consen 1 MTCPDCKRHPE-NLVEDHSAGDTVCSECGLVLEDRIIDE 38 (308)
T ss_pred CCCCCCCCCCC-CeeeeccCCceecccCCeeeccccccc
Confidence 47999999999 556788888899999999888876643
No 270
>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=22.19 E-value=45 Score=19.99 Aligned_cols=9 Identities=44% Similarity=1.184 Sum_probs=7.2
Q ss_pred EEcCCCCCc
Q 014540 317 YYCPHCNAL 325 (423)
Q Consensus 317 yrC~~Cg~l 325 (423)
|.|+.|+..
T Consensus 1 y~C~~C~~~ 9 (23)
T PF00096_consen 1 YKCPICGKS 9 (23)
T ss_dssp EEETTTTEE
T ss_pred CCCCCCCCc
Confidence 789999853
No 271
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=22.00 E-value=1.7e+02 Score=22.65 Aligned_cols=10 Identities=40% Similarity=0.627 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q 014540 136 KTLERLRVER 145 (423)
Q Consensus 136 ~kL~~L~~e~ 145 (423)
+++++|+++.
T Consensus 31 ~~i~~l~~e~ 40 (80)
T PF04977_consen 31 KEIEELKKEN 40 (80)
T ss_pred HHHHHHHHHH
Confidence 3444444443
No 272
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 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 DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=22.00 E-value=2e+02 Score=25.62 Aligned_cols=10 Identities=30% Similarity=0.647 Sum_probs=4.4
Q ss_pred HHHHHHHHHH
Q 014540 133 KDQKTLERLR 142 (423)
Q Consensus 133 ~~e~kL~~L~ 142 (423)
++....|.++
T Consensus 163 ~n~Tt~E~~~ 172 (174)
T PF01529_consen 163 RNITTYERIK 172 (174)
T ss_pred cCCcHHHHHH
Confidence 3344444443
No 273
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=21.92 E-value=5.2e+02 Score=25.35 Aligned_cols=6 Identities=17% Similarity=0.473 Sum_probs=2.3
Q ss_pred HHHHHH
Q 014540 160 TTQQLI 165 (423)
Q Consensus 160 ~Tk~LL 165 (423)
..++||
T Consensus 104 ~L~~lL 109 (276)
T PRK13922 104 RLRELL 109 (276)
T ss_pred HHHHHh
Confidence 333333
No 274
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=21.90 E-value=55 Score=36.86 Aligned_cols=12 Identities=25% Similarity=0.625 Sum_probs=8.4
Q ss_pred EcCCCCCccCCC
Q 014540 318 YCPHCNALNRPK 329 (423)
Q Consensus 318 rC~~Cg~lN~~~ 329 (423)
.|+.||+.|+..
T Consensus 29 ~Cp~CG~~~~~~ 40 (645)
T PRK14559 29 PCPQCGTEVPVD 40 (645)
T ss_pred cCCCCCCCCCcc
Confidence 577777777654
No 275
>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=21.86 E-value=41 Score=37.02 Aligned_cols=46 Identities=13% Similarity=0.343 Sum_probs=26.8
Q ss_pred CCcHHHHHHHHHhcCC--C--CCcceeeccccccccCccccCCCCceEEEcCCCCCcc
Q 014540 273 DGGWIARIAAILVGDD--P--SQSYALICGNCHMHNGLARKEDFPYITYYCPHCNALN 326 (423)
Q Consensus 273 ~r~W~DRIlD~LlGdd--p--t~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN 326 (423)
+..-+-.|+++..-.+ . .+--..||..|...-. ++ .|.||.||.-+
T Consensus 493 n~~al~~lv~~a~~~~~~y~~~~~p~~~C~~CG~~~~----~~----~~~CP~CGs~~ 542 (555)
T cd01675 493 NPEALEALVKKAAKRGVIYFGINTPIDICNDCGYIGE----GE----GFKCPKCGSED 542 (555)
T ss_pred CHHHHHHHHHHHHHcCCceEEEecCCccCCCCCCCCc----CC----CCCCcCCCCcC
Confidence 3445556666665442 1 1222359999986441 11 37999999543
No 276
>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=21.76 E-value=1.7e+02 Score=26.62 Aligned_cols=31 Identities=6% Similarity=0.016 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHhHHHHHhhhhHHHHHHH
Q 014540 47 YISKEEAAILARVKRRSQTWRRMSRHLIIFTV 78 (423)
Q Consensus 47 ~Ls~kI~~~~srLk~~~~~~Rr~~~~Li~YS~ 78 (423)
++++-+.+...++ .-.+.++..-.+|++-.+
T Consensus 5 alDD~l~~~l~~~-gy~e~~~l~d~kL~lg~~ 35 (162)
T PF06703_consen 5 ALDDALPEYLTEL-GYKESHTLTDIKLALGYL 35 (162)
T ss_pred HHHHHHHHHHhhC-CceeEEEEEcHHHHHHHH
Confidence 3455555555555 455555544455655333
No 277
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=21.71 E-value=6.1e+02 Score=25.07 Aligned_cols=26 Identities=12% Similarity=0.221 Sum_probs=16.2
Q ss_pred HHHHhhhhHHHHHHHHHHHHHHHHHH
Q 014540 64 QTWRRMSRHLIIFTVVFEVIAVGYAI 89 (423)
Q Consensus 64 ~~~Rr~~~~Li~YS~il~ii~lvY~~ 89 (423)
.+..+..+.|+++++++....++-.+
T Consensus 252 ~~~N~~mk~LTvvt~IflP~t~IaGi 277 (318)
T TIGR00383 252 NKMNEIMKILTVVSTIFIPLTFIAGI 277 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455667788888776666544333
No 278
>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=21.33 E-value=1e+02 Score=31.65 Aligned_cols=33 Identities=18% Similarity=0.356 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhc
Q 014540 135 QKTLERLRVERKAKIDELKERTNYYTTQQLIQRY 168 (423)
Q Consensus 135 e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKY 168 (423)
-++|+.|+.+|+..+++||.+ +++.+..||.-|
T Consensus 197 l~~l~~lk~eR~~~~~~Lk~~-~dDI~~~ll~~~ 229 (339)
T cd09235 197 MEQVETIKAEREVIESELKSA-TFDMKSKFLSAL 229 (339)
T ss_pred HHHHHHHHHHHHHHHHHHHhc-ccccHHHHHHHH
Confidence 467999999999999999887 688888888654
No 279
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.31 E-value=4e+02 Score=23.73 Aligned_cols=8 Identities=38% Similarity=0.646 Sum_probs=3.9
Q ss_pred CcHHHHHH
Q 014540 39 DDFEKRLQ 46 (423)
Q Consensus 39 d~FEK~L~ 46 (423)
+++||.|+
T Consensus 47 ~NV~KVlE 54 (116)
T KOG0860|consen 47 ENVEKVLE 54 (116)
T ss_pred HhHHHHHH
Confidence 45555443
No 280
>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=21.31 E-value=61 Score=33.04 Aligned_cols=32 Identities=16% Similarity=0.372 Sum_probs=22.4
Q ss_pred ceeeccccccccCccc------cCCCCceEEEcCCCCC
Q 014540 293 YALICGNCHMHNGLAR------KEDFPYITYYCPHCNA 324 (423)
Q Consensus 293 yALIC~~C~~HNGlA~------~ee~e~i~yrC~~Cg~ 324 (423)
-.+-|.+|..++-.+- ..|...+-|+|..||+
T Consensus 257 ~~~~C~~C~~~~~~~~q~QtrsaDEpmT~f~~C~~Cg~ 294 (299)
T TIGR01385 257 DLFTCGKCKQKKCTYYQLQTRSADEPMTTFVTCEECGN 294 (299)
T ss_pred ccccCCCCCCccceEEEecccCCCCCCeEEEEcCCCCC
Confidence 4588999985554332 2355577889999996
No 281
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=21.30 E-value=1.9e+02 Score=21.62 Aligned_cols=21 Identities=24% Similarity=0.408 Sum_probs=17.4
Q ss_pred CCcHHHHHHHHHHHHHHHHHH
Q 014540 38 GDDFEKRLQYISKEEAAILAR 58 (423)
Q Consensus 38 ~d~FEK~L~~Ls~kI~~~~sr 58 (423)
-|+.|..++.|+.+|+.++.+
T Consensus 14 ~d~IEqkiedid~qIaeLe~K 34 (46)
T PF08946_consen 14 YDNIEQKIEDIDEQIAELEAK 34 (46)
T ss_dssp -THHHHHHHHHHHHHHHHHHH
T ss_pred HHhHHHhHHHHHHHHHHHHHH
Confidence 488999999999999887765
No 282
>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=21.29 E-value=3.1e+02 Score=22.49 Aligned_cols=26 Identities=23% Similarity=0.492 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHhhccChHHHHHHHHhcC
Q 014540 139 ERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (423)
Q Consensus 139 ~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd 169 (423)
..|-++=++.|++| |+.++.+=||=+
T Consensus 34 ~gLs~~d~~~L~~L-----~~~a~rm~eRI~ 59 (75)
T PF06667_consen 34 QGLSEEDEQRLQEL-----YEQAERMEERIE 59 (75)
T ss_pred CCCCHHHHHHHHHH-----HHHHHHHHHHHH
Confidence 33445556677777 666666666654
No 283
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=21.28 E-value=3.8e+02 Score=24.99 Aligned_cols=20 Identities=25% Similarity=0.358 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 014540 135 QKTLERLRVERKAKIDELKE 154 (423)
Q Consensus 135 e~kL~~L~~e~kkkIeelK~ 154 (423)
+.+|.+.+.+-++++++.+.
T Consensus 89 e~~L~~Ar~EA~~ii~~A~~ 108 (181)
T PRK13454 89 NKALADARAEAQRIVAETRA 108 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555543
No 284
>KOG2296 consensus Integral membrane protein [General function prediction only]
Probab=21.15 E-value=7.7e+02 Score=27.98 Aligned_cols=15 Identities=20% Similarity=0.142 Sum_probs=10.8
Q ss_pred ChHHHHHHHHhcCCC
Q 014540 157 NYYTTQQLIQRYDPD 171 (423)
Q Consensus 157 ~Y~~Tk~LLEKYd~~ 171 (423)
-|+..+.+.+-+..+
T Consensus 232 i~~~~qa~~~~~~~~ 246 (673)
T KOG2296|consen 232 IYVKLQALSTSMSNR 246 (673)
T ss_pred HHHHHHHHHhhhcCC
Confidence 477777777777765
No 285
>PF01783 Ribosomal_L32p: Ribosomal L32p protein family; InterPro: IPR002677 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L32p is part of the 50S ribosomal subunit. This family is found in both prokaryotes and eukaryotes. Ribosomal protein L32 of yeast binds to and regulates the splicing and the translation of the transcript of its own gene [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3PYT_2 3F1F_5 3PYV_2 3D5B_5 3MRZ_2 3D5D_5 3F1H_5 1VSP_Y 3PYR_2 3MS1_2 ....
Probab=21.15 E-value=42 Score=25.62 Aligned_cols=27 Identities=22% Similarity=0.483 Sum_probs=19.0
Q ss_pred eeeccccccccCccccCCCCceEEEcCCCCCccCCC
Q 014540 294 ALICGNCHMHNGLARKEDFPYITYYCPHCNALNRPK 329 (423)
Q Consensus 294 ALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~ 329 (423)
.-.|.+|.. +-.-...|++||+.++..
T Consensus 26 l~~c~~cg~---------~~~~H~vc~~cG~y~~r~ 52 (56)
T PF01783_consen 26 LVKCPNCGE---------PKLPHRVCPSCGYYKGRQ 52 (56)
T ss_dssp EEESSSSSS---------EESTTSBCTTTBBSSSSS
T ss_pred eeeeccCCC---------EecccEeeCCCCeECCEE
Confidence 357888862 223467999999988864
No 286
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=21.12 E-value=26 Score=30.38 Aligned_cols=47 Identities=13% Similarity=0.282 Sum_probs=25.6
Q ss_pred cHHHHHHHHHhcCCCCC---------cceeeccccccccCccccCCCCceEEEcCCCCCccC
Q 014540 275 GWIARIAAILVGDDPSQ---------SYALICGNCHMHNGLARKEDFPYITYYCPHCNALNR 327 (423)
Q Consensus 275 ~W~DRIlD~LlGddpt~---------ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~lN~ 327 (423)
-.+.--++++.-+-.-. +....|..|...-..-. ..|.||+||..+-
T Consensus 42 e~L~f~f~~~~~~T~~e~a~L~Ie~~p~~~~C~~Cg~~~~~~~------~~~~CP~Cgs~~~ 97 (113)
T PF01155_consen 42 EALRFAFEVLAEGTILEGAELEIEEVPARARCRDCGHEFEPDE------FDFSCPRCGSPDV 97 (113)
T ss_dssp HHHHHHHHHHHCCSTTTT-EEEEEEE--EEEETTTS-EEECHH------CCHH-SSSSSS-E
T ss_pred HHHHHHHHHHhCCCCccCCEEEEEecCCcEECCCCCCEEecCC------CCCCCcCCcCCCc
Confidence 34555566665543321 36688999987654322 2368999997753
No 287
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.08 E-value=49 Score=29.20 Aligned_cols=36 Identities=14% Similarity=0.401 Sum_probs=19.5
Q ss_pred ceeeccccccccCcc--ccCCCCceEEEcCCCCCccCCCC
Q 014540 293 YALICGNCHMHNGLA--RKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 293 yALIC~~C~~HNGlA--~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
...-| .|...-..- ....+. ..|.||.||..+-.-.
T Consensus 69 ~~~~C-~Cg~~~~~~~~~~~~~~-~~~~CP~Cgs~~~~i~ 106 (124)
T PRK00762 69 VEIEC-ECGYEGVVDEDEIDHYA-AVIECPVCGNKRAHIL 106 (124)
T ss_pred eeEEe-eCcCcccccccchhccc-cCCcCcCCCCCCCEEe
Confidence 55789 998442221 111110 1367999997765433
No 288
>PRK07591 threonine synthase; Validated
Probab=21.06 E-value=54 Score=34.63 Aligned_cols=26 Identities=27% Similarity=0.437 Sum_probs=18.3
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
|.|.|..|... ++.+ .. |+|+.||.+
T Consensus 17 ~~l~C~~Cg~~---~~~~---~~-~~C~~cg~~ 42 (421)
T PRK07591 17 VALKCRECGAE---YPLG---PI-HVCEECFGP 42 (421)
T ss_pred eEEEeCCCCCc---CCCC---CC-ccCCCCCCe
Confidence 56999999754 2332 24 999999743
No 289
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=21.06 E-value=3.1e+02 Score=23.90 Aligned_cols=20 Identities=30% Similarity=0.358 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 014540 133 KDQKTLERLRVERKAKIDEL 152 (423)
Q Consensus 133 ~~e~kL~~L~~e~kkkIeel 152 (423)
..+++++.|.++...+-.++
T Consensus 61 ~~~~e~~~L~~~~~~l~~ei 80 (117)
T COG2919 61 AQQAELEKLSARNTALEAEI 80 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34556666666654444444
No 290
>COG3924 Predicted membrane protein [Function unknown]
Probab=21.03 E-value=3.4e+02 Score=22.39 Aligned_cols=13 Identities=8% Similarity=-0.013 Sum_probs=6.6
Q ss_pred HHHHH-HHHHHHhh
Q 014540 79 VFEVI-AVGYAIMT 91 (423)
Q Consensus 79 il~ii-~lvY~~~~ 91 (423)
++|++ +++.+|..
T Consensus 20 llYl~gW~v~AYlp 33 (80)
T COG3924 20 LLYLAGWLVAAYLP 33 (80)
T ss_pred HHHHHHHHHHHhCC
Confidence 34444 45666643
No 291
>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=20.97 E-value=2.1e+02 Score=22.30 Aligned_cols=31 Identities=16% Similarity=0.119 Sum_probs=25.2
Q ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 014540 37 KGDDFEKRLQYISKEEAAILARVKRRSQTWR 67 (423)
Q Consensus 37 ~~d~FEK~L~~Ls~kI~~~~srLk~~~~~~R 67 (423)
.+.+.|.+|..||+++.+.+.|.+.-..+.+
T Consensus 26 ~~ltiEqRLa~LE~rL~~ae~ra~~ae~~~~ 56 (60)
T PF11471_consen 26 APLTIEQRLAALEQRLQAAEQRAQAAEARAK 56 (60)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3678999999999999888888877666554
No 292
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=20.92 E-value=53 Score=31.63 Aligned_cols=16 Identities=31% Similarity=0.810 Sum_probs=13.4
Q ss_pred ceEEEcCCCCCccCCC
Q 014540 314 YITYYCPHCNALNRPK 329 (423)
Q Consensus 314 ~i~yrC~~Cg~lN~~~ 329 (423)
|..|+||+||+-.-.+
T Consensus 46 Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 46 YEVWVCPHCGYAAFEE 61 (214)
T ss_pred eeEEECCCCCCccccc
Confidence 6789999999887654
No 293
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=20.88 E-value=6.6e+02 Score=23.94 Aligned_cols=90 Identities=9% Similarity=0.102 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhhcc----------cccchhhhhhhcccchhhhhHHHHHHHHHHHH-HHHHHhHHHHHHHH
Q 014540 71 RHLIIFTVVFEVIAVGYAIMTTR----------SMELNWKTRALQVLPIFLLPGLSALAYSAFVS-FNRMCDRKDQKTLE 139 (423)
Q Consensus 71 ~~Li~YS~il~ii~lvY~~~~~~----------~~~~~w~~r~~~~lp~~l~Pili~li~~~~~~-f~r~~~~~~e~kL~ 139 (423)
+.+-+..+.+.|+.++-++...- .++.-+.....-+.-++.|-+++++++++++. +.++++.|.+.=-+
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~qlInFlIlv~lL~k~l~kPi~~~L~~R~~~I~~ 86 (205)
T PRK06231 7 RVFKLLLLSFSFLIISLFLVSCTENVEELKSKSIINELFPNFWVFIAHLIAFSILLLLGIFLFWKPTQRFLNKRKELIEA 86 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccCChhhcCHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHhhccChHH
Q 014540 140 RLRVERKAKIDELKERTNYYT 160 (423)
Q Consensus 140 ~L~~e~kkkIeelK~~T~Y~~ 160 (423)
.|..-.+.+-+--+....|+.
T Consensus 87 ~L~~Ae~~~~eA~~~l~e~e~ 107 (205)
T PRK06231 87 EINQANELKQQAQQLLENAKQ 107 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
No 294
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=20.62 E-value=1.2e+02 Score=34.10 Aligned_cols=37 Identities=22% Similarity=0.377 Sum_probs=29.5
Q ss_pred eeeccc-cccccCccccCCCCceEEEcCCCCCccCCCC
Q 014540 294 ALICGN-CHMHNGLARKEDFPYITYYCPHCNALNRPKE 330 (423)
Q Consensus 294 ALIC~~-C~~HNGlA~~ee~e~i~yrC~~Cg~lN~~~~ 330 (423)
++-|.. |.++=-++---++----|.|+.|+.-|.-..
T Consensus 53 pv~C~~pC~avlnpyC~id~r~~~W~CpfCnqrn~lp~ 90 (755)
T COG5047 53 PVKCTAPCKAVLNPYCHIDERNQSWICPFCNQRNTLPP 90 (755)
T ss_pred CceecccchhhcCcceeeccCCceEecceecCCCCCCh
Confidence 588999 9998877776565556899999999886544
No 295
>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=20.59 E-value=52 Score=34.63 Aligned_cols=24 Identities=29% Similarity=0.524 Sum_probs=17.5
Q ss_pred ceeeccccccccCccccCCCCceEEEcCCCC
Q 014540 293 YALICGNCHMHNGLARKEDFPYITYYCPHCN 323 (423)
Q Consensus 293 yALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg 323 (423)
|-|+|.+|...- + ++ ..|+|+.|+
T Consensus 1 ~~l~C~~Cg~~~---~-~~---~~~~C~~c~ 24 (398)
T TIGR03844 1 YTLRCPGCGEVL---P-DH---YTLSCPLDC 24 (398)
T ss_pred CEEEeCCCCCcc---C-Cc---cccCCCCCC
Confidence 679999998652 3 33 358999876
No 296
>KOG2463 consensus Predicted RNA-binding protein Nob1p involved in 26S proteasome assembly [Posttranslational modification, protein turnover, chaperones]
Probab=20.56 E-value=44 Score=34.72 Aligned_cols=28 Identities=32% Similarity=0.742 Sum_probs=21.3
Q ss_pred CcceeeccccccccCccccCCCCceEEEcCCCCCc
Q 014540 291 QSYALICGNCHMHNGLARKEDFPYITYYCPHCNAL 325 (423)
Q Consensus 291 ~ryALIC~~C~~HNGlA~~ee~e~i~yrC~~Cg~l 325 (423)
.+|.|-|.-||+.. .+ ...--|+.||.-
T Consensus 239 r~~iLRCh~Cfsit----~~---m~k~FCp~CG~~ 266 (376)
T KOG2463|consen 239 RSYILRCHGCFSIT----SE---MPKDFCPSCGHK 266 (376)
T ss_pred hhheeEeeeeeEec----Cc---cchhcccccCCC
Confidence 46999999999987 22 235579999964
No 297
>KOG4253 consensus Tryptophan-rich basic nuclear protein [General function prediction only]
Probab=20.56 E-value=4.8e+02 Score=24.59 Aligned_cols=12 Identities=33% Similarity=0.639 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHH
Q 014540 77 TVVFEVIAVGYA 88 (423)
Q Consensus 77 S~il~ii~lvY~ 88 (423)
|+.+|++-..|.
T Consensus 105 Sv~f~vl~~~~~ 116 (175)
T KOG4253|consen 105 SVAFYVLKIMYG 116 (175)
T ss_pred HHHHHHHHHHHh
Confidence 455555544443
No 298
>PF11812 DUF3333: Domain of unknown function (DUF3333); InterPro: IPR024573 This N-terminal domain is functionally uncharacterised and it is found in proteins annotated as putative phosphate ABC transporter permease proteins. This presumed domain is typically between 116 to 159 amino acids in length.
Probab=20.51 E-value=1.3e+02 Score=27.89 Aligned_cols=14 Identities=43% Similarity=0.534 Sum_probs=9.4
Q ss_pred HHHHHHhHHHHHhh
Q 014540 56 LARVKRRSQTWRRM 69 (423)
Q Consensus 56 ~srLk~~~~~~Rr~ 69 (423)
..+|++|...-||+
T Consensus 2 ~~~lkkR~~~e~rF 15 (155)
T PF11812_consen 2 DARLKKRYRAERRF 15 (155)
T ss_pred chHHHHHHHHHHHH
Confidence 45677777766665
No 299
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=20.43 E-value=3.4e+02 Score=23.86 Aligned_cols=21 Identities=19% Similarity=0.241 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 014540 134 DQKTLERLRVERKAKIDELKE 154 (423)
Q Consensus 134 ~e~kL~~L~~e~kkkIeelK~ 154 (423)
++.+|.+.+.+-+.++++-+.
T Consensus 52 ~~~~l~~A~~ea~~i~~~a~~ 72 (147)
T TIGR01144 52 AQVILKEAKDEAQEIIENANK 72 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555544
No 300
>PF11286 DUF3087: Protein of unknown function (DUF3087); InterPro: IPR021438 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=20.42 E-value=6.5e+02 Score=23.70 Aligned_cols=9 Identities=11% Similarity=0.575 Sum_probs=4.1
Q ss_pred HHHHHHHHH
Q 014540 136 KTLERLRVE 144 (423)
Q Consensus 136 ~kL~~L~~e 144 (423)
++|.++++.
T Consensus 94 rkl~~ik~a 102 (165)
T PF11286_consen 94 RKLHKIKAA 102 (165)
T ss_pred HHHHHHHHH
Confidence 444444443
No 301
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=20.25 E-value=48 Score=22.79 Aligned_cols=9 Identities=44% Similarity=1.106 Sum_probs=4.6
Q ss_pred EEcCCCCCc
Q 014540 317 YYCPHCNAL 325 (423)
Q Consensus 317 yrC~~Cg~l 325 (423)
.+|++|+..
T Consensus 26 ~~Cp~C~s~ 34 (37)
T PF12172_consen 26 PVCPHCGSD 34 (37)
T ss_dssp SEETTTT--
T ss_pred cCCCCcCcc
Confidence 367777643
No 302
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=20.22 E-value=1.4e+02 Score=28.85 Aligned_cols=35 Identities=11% Similarity=0.314 Sum_probs=27.7
Q ss_pred hccCCCcHHHHHHHHHHHHHHHHHHHHHhHHHHHh
Q 014540 34 FRLKGDDFEKRLQYISKEEAAILARVKRRSQTWRR 68 (423)
Q Consensus 34 Fr~~~d~FEK~L~~Ls~kI~~~~srLk~~~~~~Rr 68 (423)
+....+..++++..++++|..++.||..+.++.+.
T Consensus 191 i~~~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l~~ 225 (239)
T PF07195_consen 191 ITSRIDSLNSQIKSLDKQIEDLEERLESKEERLRK 225 (239)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33446788999999999999999999888776643
No 303
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=20.19 E-value=4.3e+02 Score=26.55 Aligned_cols=9 Identities=0% Similarity=-0.256 Sum_probs=4.5
Q ss_pred hhhhhHHHH
Q 014540 109 IFLLPGLSA 117 (423)
Q Consensus 109 ~~l~Pili~ 117 (423)
.+++|+..+
T Consensus 42 ~~~~p~~~~ 50 (283)
T TIGR00219 42 TAVTLNYYI 50 (283)
T ss_pred eeeEHHHHH
Confidence 344565544
No 304
>KOG4050 consensus Glutamate transporter EAAC1-interacting protein GTRAP3-18 [Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=20.02 E-value=3.5e+02 Score=25.59 Aligned_cols=33 Identities=15% Similarity=0.266 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChHHHHHHHHhcC
Q 014540 135 QKTLERLRVERKAKIDELKERTNYYTTQQLIQRYD 169 (423)
Q Consensus 135 e~kL~~L~~e~kkkIeelK~~T~Y~~Tk~LLEKYd 169 (423)
.-||..++-+.+.+||.+--+++ -.-+|||.-+
T Consensus 149 SLRLRnikNkleN~iEsiglkrT--pMG~lLdal~ 181 (188)
T KOG4050|consen 149 SLRLRNIKNKLENKIESIGLKRT--PMGQLLDALG 181 (188)
T ss_pred HHHHhhHHHHHHHHHhhcCcCCC--cHHHHHHHhc
Confidence 45677777777777777644422 2334555444
Done!