Query 048215
Match_columns 305
No_of_seqs 246 out of 2298
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 07:29:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048215.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048215hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03210 Resistant to P. syrin 100.0 5.2E-65 1.1E-69 534.4 24.3 298 2-304 7-377 (1153)
2 PLN03194 putative disease resi 100.0 1.9E-42 4.1E-47 285.7 12.6 150 1-163 20-179 (187)
3 PF01582 TIR: TIR domain; Int 99.8 1.3E-20 2.7E-25 153.2 -0.7 121 10-130 1-140 (141)
4 smart00255 TIR Toll - interleu 99.7 6.4E-18 1.4E-22 136.6 8.9 125 7-133 1-138 (140)
5 KOG4658 Apoptotic ATPase [Sign 99.7 2.6E-18 5.7E-23 175.0 7.8 120 176-295 161-334 (889)
6 PF00931 NB-ARC: NB-ARC domain 99.6 1.5E-16 3.2E-21 143.8 4.4 118 178-295 1-174 (287)
7 PF13676 TIR_2: TIR domain; PD 99.5 8.8E-15 1.9E-19 111.9 0.4 76 10-87 1-76 (102)
8 KOG3678 SARM protein (with ste 98.1 7.2E-06 1.6E-10 76.8 8.0 144 4-166 609-761 (832)
9 PF08937 DUF1863: MTH538 TIR-l 97.8 2.2E-05 4.8E-10 62.6 4.2 80 8-88 1-98 (130)
10 PF05729 NACHT: NACHT domain 96.8 0.0027 5.9E-08 51.7 6.0 70 221-290 79-162 (166)
11 PF08357 SEFIR: SEFIR domain; 96.1 0.0084 1.8E-07 48.7 4.7 66 9-74 2-72 (150)
12 PRK06893 DNA replication initi 95.9 0.01 2.2E-07 52.0 4.2 72 224-295 92-178 (229)
13 PF10137 TIR-like: Predicted n 95.6 0.036 7.9E-07 43.7 5.9 60 9-71 1-61 (125)
14 TIGR01242 26Sp45 26S proteasom 95.3 0.037 8.1E-07 51.9 6.1 127 171-297 120-312 (364)
15 PF01637 Arch_ATPase: Archaeal 94.8 0.092 2E-06 45.0 6.8 68 223-290 118-203 (234)
16 PRK00411 cdc6 cell division co 94.3 0.3 6.5E-06 46.0 9.4 121 170-291 27-220 (394)
17 PF13173 AAA_14: AAA domain 93.9 0.098 2.1E-06 41.2 4.5 68 216-283 54-127 (128)
18 PRK13342 recombination factor 93.1 0.3 6.6E-06 46.6 7.2 116 173-291 12-164 (413)
19 PF13271 DUF4062: Domain of un 92.2 0.45 9.9E-06 34.5 5.6 67 9-76 1-68 (83)
20 TIGR02928 orc1/cdc6 family rep 89.2 2.3 5E-05 39.5 8.8 33 170-202 12-50 (365)
21 PRK03992 proteasome-activating 87.8 1.8 3.9E-05 41.0 7.2 125 171-295 129-319 (389)
22 TIGR02639 ClpA ATP-dependent C 87.4 2.8 6.2E-05 43.1 8.8 132 148-291 163-358 (731)
23 PRK07003 DNA polymerase III su 85.9 4.1 8.9E-05 41.9 8.7 70 222-291 118-191 (830)
24 PRK13341 recombination factor 85.5 2.6 5.6E-05 43.3 7.3 67 222-291 108-181 (725)
25 PRK09087 hypothetical protein; 84.6 2.9 6.3E-05 36.4 6.3 66 225-292 89-167 (226)
26 TIGR03420 DnaA_homol_Hda DnaA 84.4 1.9 4.1E-05 37.1 5.0 67 225-291 92-172 (226)
27 TIGR00635 ruvB Holliday juncti 83.7 1.7 3.7E-05 39.4 4.6 120 173-292 4-173 (305)
28 cd00009 AAA The AAA+ (ATPases 83.6 3.1 6.7E-05 32.1 5.6 42 221-262 82-131 (151)
29 COG4916 Uncharacterized protei 83.4 1.2 2.6E-05 39.2 3.2 81 3-87 173-261 (329)
30 PRK08691 DNA polymerase III su 83.2 5.2 0.00011 40.7 8.0 69 222-290 118-190 (709)
31 PLN03025 replication factor C 83.1 8.1 0.00018 35.4 8.9 67 222-291 98-171 (319)
32 PRK08727 hypothetical protein; 81.8 2.8 6.1E-05 36.6 5.1 70 224-293 94-177 (233)
33 PF02463 SMC_N: RecF/RecN/SMC 81.5 1.4 3E-05 37.9 3.0 51 223-275 158-211 (220)
34 PRK00080 ruvB Holliday junctio 80.6 4.9 0.00011 37.0 6.5 122 172-293 24-195 (328)
35 PRK14960 DNA polymerase III su 80.2 12 0.00027 38.0 9.4 70 222-291 117-190 (702)
36 PRK04841 transcriptional regul 78.8 4.6 9.9E-05 42.3 6.4 69 222-290 120-198 (903)
37 PRK08084 DNA replication initi 78.8 4.2 9E-05 35.6 5.2 69 225-293 99-182 (235)
38 PRK05564 DNA polymerase III su 77.4 8.7 0.00019 35.1 7.1 70 221-290 92-164 (313)
39 PRK06645 DNA polymerase III su 77.0 7.8 0.00017 38.1 6.9 73 220-292 125-201 (507)
40 PRK06620 hypothetical protein; 75.4 6.6 0.00014 33.9 5.4 68 224-292 86-161 (214)
41 TIGR00678 holB DNA polymerase 75.3 12 0.00027 31.1 7.0 69 222-290 95-167 (188)
42 PRK14951 DNA polymerase III su 74.2 25 0.00054 35.5 9.7 70 222-291 123-196 (618)
43 PTZ00112 origin recognition co 73.2 6.9 0.00015 41.1 5.6 33 170-202 752-791 (1164)
44 COG2256 MGS1 ATPase related to 73.1 10 0.00022 36.0 6.2 70 218-290 99-175 (436)
45 PRK00440 rfc replication facto 73.0 26 0.00056 31.6 9.0 120 173-292 17-175 (319)
46 TIGR03345 VI_ClpV1 type VI sec 72.3 19 0.00041 37.9 8.7 128 149-288 169-360 (852)
47 TIGR03015 pepcterm_ATPase puta 72.3 25 0.00054 30.9 8.5 70 221-291 121-205 (269)
48 PRK05642 DNA replication initi 72.2 5.5 0.00012 34.8 4.1 69 226-294 100-182 (234)
49 PRK07471 DNA polymerase III su 72.1 13 0.00029 34.9 7.0 70 222-291 140-213 (365)
50 PRK14962 DNA polymerase III su 72.1 27 0.00058 34.1 9.2 71 222-292 116-190 (472)
51 PRK14949 DNA polymerase III su 72.1 21 0.00046 37.6 8.8 70 221-290 117-190 (944)
52 CHL00095 clpC Clp protease ATP 70.0 19 0.00041 37.8 8.1 48 149-202 161-210 (821)
53 PRK11034 clpA ATP-dependent Cl 69.5 18 0.00038 37.6 7.6 30 173-202 186-217 (758)
54 PRK07764 DNA polymerase III su 69.2 18 0.00039 37.8 7.7 68 222-289 119-190 (824)
55 PF00308 Bac_DnaA: Bacterial d 68.5 5.5 0.00012 34.5 3.3 79 214-293 89-181 (219)
56 PHA02544 44 clamp loader, smal 68.5 29 0.00063 31.4 8.3 117 172-288 20-170 (316)
57 PRK14970 DNA polymerase III su 68.4 55 0.0012 30.4 10.3 72 222-293 107-182 (367)
58 PTZ00454 26S protease regulato 68.2 22 0.00048 33.8 7.6 71 221-291 236-329 (398)
59 COG1373 Predicted ATPase (AAA+ 67.5 16 0.00034 34.8 6.5 63 223-286 94-162 (398)
60 PRK14963 DNA polymerase III su 66.5 21 0.00044 35.2 7.2 72 222-293 115-190 (504)
61 TIGR03346 chaperone_ClpB ATP-d 66.3 35 0.00076 35.9 9.3 48 149-202 155-204 (852)
62 PRK12402 replication factor C 66.1 18 0.00038 33.0 6.4 69 223-291 125-197 (337)
63 TIGR02880 cbbX_cfxQ probable R 64.3 21 0.00046 32.2 6.4 68 224-291 122-208 (284)
64 PRK14958 DNA polymerase III su 63.6 43 0.00092 33.0 8.8 65 222-286 118-186 (509)
65 TIGR02903 spore_lon_C ATP-depe 63.5 17 0.00036 36.8 6.1 79 213-291 282-366 (615)
66 PRK04195 replication factor C 62.7 11 0.00024 36.8 4.5 119 172-292 13-174 (482)
67 PRK07994 DNA polymerase III su 61.6 57 0.0012 33.2 9.4 69 222-290 118-190 (647)
68 PRK14956 DNA polymerase III su 61.2 52 0.0011 32.2 8.7 70 222-291 120-193 (484)
69 PF05673 DUF815: Protein of un 60.1 20 0.00043 31.7 5.2 96 170-265 24-155 (249)
70 PF05014 Nuc_deoxyrib_tr: Nucl 58.6 25 0.00055 26.7 5.1 68 21-89 13-89 (113)
71 PRK14961 DNA polymerase III su 58.5 40 0.00087 31.5 7.4 70 222-291 118-191 (363)
72 KOG2227 Pre-initiation complex 58.5 11 0.00023 36.5 3.4 122 170-291 147-338 (529)
73 PRK14964 DNA polymerase III su 58.4 56 0.0012 32.1 8.4 71 222-292 115-189 (491)
74 cd00561 CobA_CobO_BtuR ATP:cor 56.8 7.8 0.00017 31.9 2.0 46 216-261 87-138 (159)
75 TIGR02397 dnaX_nterm DNA polym 56.1 40 0.00088 30.9 6.9 70 222-291 116-189 (355)
76 cd02042 ParA ParA and ParB of 55.2 73 0.0016 23.3 7.1 74 10-87 3-84 (104)
77 PRK14087 dnaA chromosomal repl 55.1 21 0.00045 34.6 4.9 69 224-292 207-289 (450)
78 PRK10865 protein disaggregatio 53.8 71 0.0015 33.7 8.9 48 149-202 160-209 (857)
79 COG4271 Predicted nucleotide-b 52.2 33 0.00072 29.2 5.0 61 9-73 84-146 (233)
80 PRK05707 DNA polymerase III su 50.3 71 0.0015 29.5 7.5 68 222-290 106-177 (328)
81 PRK14957 DNA polymerase III su 50.2 63 0.0014 32.2 7.4 69 221-289 117-189 (546)
82 PF03129 HGTP_anticodon: Antic 49.9 39 0.00085 24.4 4.7 47 21-70 15-61 (94)
83 cd00860 ThrRS_anticodon ThrRS 49.7 57 0.0012 23.1 5.6 60 8-71 2-61 (91)
84 PF02310 B12-binding: B12 bind 48.8 1E+02 0.0023 23.1 7.2 59 24-90 17-76 (121)
85 PRK05896 DNA polymerase III su 48.5 1.2E+02 0.0025 30.7 9.0 69 223-291 119-191 (605)
86 PRK09112 DNA polymerase III su 48.4 60 0.0013 30.3 6.7 70 222-291 140-213 (351)
87 PRK06647 DNA polymerase III su 47.5 2.2E+02 0.0048 28.5 10.9 72 221-292 117-192 (563)
88 PRK14086 dnaA chromosomal repl 47.4 30 0.00065 34.9 4.8 69 225-293 379-461 (617)
89 PRK12323 DNA polymerase III su 46.9 65 0.0014 32.9 7.0 71 221-291 122-196 (700)
90 PRK07940 DNA polymerase III su 46.1 74 0.0016 30.2 7.0 68 222-289 116-187 (394)
91 TIGR02881 spore_V_K stage V sp 45.9 70 0.0015 28.2 6.5 66 225-292 107-192 (261)
92 CHL00181 cbbX CbbX; Provisiona 45.3 83 0.0018 28.4 7.0 69 224-292 123-210 (287)
93 TIGR01241 FtsH_fam ATP-depende 45.2 98 0.0021 30.3 8.0 71 221-291 145-238 (495)
94 PRK08058 DNA polymerase III su 43.6 1E+02 0.0023 28.3 7.5 69 222-290 109-181 (329)
95 cd02067 B12-binding B12 bindin 43.3 1.2E+02 0.0026 22.9 6.8 57 26-87 18-75 (119)
96 PF13177 DNA_pol3_delta2: DNA 42.8 24 0.00053 28.8 2.9 57 222-278 101-161 (162)
97 PRK12422 chromosomal replicati 42.0 47 0.001 32.1 5.1 69 224-292 203-285 (445)
98 PF11074 DUF2779: Domain of un 41.9 21 0.00046 28.2 2.3 47 10-85 47-93 (130)
99 PTZ00361 26 proteosome regulat 41.6 50 0.0011 31.9 5.2 44 250-293 321-369 (438)
100 TIGR00362 DnaA chromosomal rep 41.1 46 0.001 31.5 4.9 69 225-293 201-283 (405)
101 COG0396 sufC Cysteine desulfur 40.1 53 0.0012 28.9 4.6 52 223-274 162-217 (251)
102 CHL00176 ftsH cell division pr 39.3 1.4E+02 0.0031 30.3 8.2 75 219-293 271-368 (638)
103 PRK08451 DNA polymerase III su 39.1 1.2E+02 0.0026 30.1 7.5 69 222-290 116-188 (535)
104 PRK14955 DNA polymerase III su 39.0 82 0.0018 29.8 6.2 69 222-290 126-198 (397)
105 KOG0741 AAA+-type ATPase [Post 38.9 77 0.0017 31.5 5.8 78 218-295 593-691 (744)
106 KOG2028 ATPase related to the 38.3 63 0.0014 30.6 5.0 68 219-289 218-292 (554)
107 PRK14959 DNA polymerase III su 38.2 85 0.0018 31.8 6.3 73 221-293 117-193 (624)
108 PRK06964 DNA polymerase III su 38.2 1.3E+02 0.0029 27.9 7.3 69 222-290 131-203 (342)
109 PF00004 AAA: ATPase family as 38.1 97 0.0021 23.3 5.6 11 223-233 58-68 (132)
110 PRK14969 DNA polymerase III su 37.8 90 0.002 30.9 6.4 69 221-289 117-189 (527)
111 PRK08903 DnaA regulatory inact 37.2 42 0.00091 28.8 3.6 67 224-290 91-169 (227)
112 PRK06305 DNA polymerase III su 36.6 1.5E+02 0.0032 28.8 7.6 69 222-290 120-192 (451)
113 PRK00149 dnaA chromosomal repl 35.7 56 0.0012 31.5 4.6 70 224-293 212-295 (450)
114 PF13304 AAA_21: AAA domain; P 35.4 28 0.0006 29.3 2.2 40 225-264 259-302 (303)
115 COG1474 CDC6 Cdc6-related prot 34.4 1.8E+02 0.004 27.3 7.6 33 170-202 14-52 (366)
116 COG3899 Predicted ATPase [Gene 34.3 1E+02 0.0022 32.5 6.4 70 222-291 153-232 (849)
117 PRK05563 DNA polymerase III su 34.2 4.2E+02 0.009 26.5 10.5 70 222-291 118-191 (559)
118 PF13401 AAA_22: AAA domain; P 33.5 47 0.001 25.3 3.0 44 215-260 78-125 (131)
119 cd00738 HGTP_anticodon HGTP an 33.1 1.3E+02 0.0027 21.3 5.2 60 8-70 2-63 (94)
120 PRK14971 DNA polymerase III su 32.4 1.7E+02 0.0037 29.6 7.5 70 222-291 120-193 (614)
121 PF01990 ATP-synt_F: ATP synth 32.3 55 0.0012 24.0 3.1 48 26-75 8-55 (95)
122 PRK00973 glucose-6-phosphate i 31.9 1.3E+02 0.0029 29.1 6.4 22 181-203 60-82 (446)
123 PRK06871 DNA polymerase III su 31.5 2.5E+02 0.0053 26.0 7.8 69 222-290 106-178 (325)
124 cd01424 MGS_CPS_II Methylglyox 31.4 1.3E+02 0.0029 22.5 5.2 61 9-71 2-76 (110)
125 COG0400 Predicted esterase [Ge 31.1 1.3E+02 0.0029 25.8 5.7 55 5-60 144-200 (207)
126 COG0593 DnaA ATPase involved i 30.8 79 0.0017 30.2 4.5 80 213-294 167-260 (408)
127 PF02562 PhoH: PhoH-like prote 30.7 70 0.0015 27.5 3.9 35 224-261 120-156 (205)
128 KOG2543 Origin recognition com 30.6 44 0.00096 31.6 2.7 32 171-202 4-40 (438)
129 cd00858 GlyRS_anticodon GlyRS 29.9 1.4E+02 0.0031 22.8 5.2 61 7-72 26-88 (121)
130 PRK08116 hypothetical protein; 29.5 32 0.0007 30.7 1.7 44 217-261 173-221 (268)
131 TIGR00640 acid_CoA_mut_C methy 29.5 2.8E+02 0.0061 21.8 8.1 77 8-89 3-80 (132)
132 cd00532 MGS-like MGS-like doma 28.7 1.4E+02 0.0029 22.6 4.8 60 10-71 2-77 (112)
133 COG1658 Small primase-like pro 28.4 83 0.0018 24.9 3.6 56 8-64 30-85 (127)
134 PRK14953 DNA polymerase III su 28.4 2.6E+02 0.0057 27.4 7.9 70 221-290 117-190 (486)
135 COG0576 GrpE Molecular chapero 28.3 90 0.0019 26.5 4.1 46 24-73 124-176 (193)
136 COG0542 clpA ATP-binding subun 27.7 1.7E+02 0.0036 30.6 6.5 30 172-201 169-199 (786)
137 PF03720 UDPG_MGDP_dh_C: UDP-g 27.7 68 0.0015 24.1 3.0 54 16-69 11-75 (106)
138 PRK07399 DNA polymerase III su 27.4 1.9E+02 0.0042 26.4 6.4 69 222-291 123-195 (314)
139 cd03247 ABCC_cytochrome_bd The 27.1 1.3E+02 0.0028 24.6 4.9 58 216-275 109-169 (178)
140 TIGR00708 cobA cob(I)alamin ad 26.4 53 0.0011 27.4 2.3 48 214-261 87-140 (173)
141 cd03028 GRX_PICOT_like Glutare 26.3 38 0.00083 24.6 1.3 25 64-88 9-35 (90)
142 cd03244 ABCC_MRP_domain2 Domai 26.3 1.4E+02 0.003 25.3 5.0 59 216-276 150-211 (221)
143 PF09419 PGP_phosphatase: Mito 26.1 1.5E+02 0.0032 24.7 4.8 46 31-76 36-91 (168)
144 PRK05986 cob(I)alamin adenolsy 26.0 70 0.0015 27.2 3.0 49 213-261 104-158 (191)
145 cd03228 ABCC_MRP_Like The MRP 25.8 1.7E+02 0.0037 23.7 5.3 58 216-275 107-167 (171)
146 TIGR03646 YtoQ_fam YtoQ family 25.7 1.2E+02 0.0025 24.2 3.9 41 30-73 47-88 (144)
147 COG0512 PabA Anthranilate/para 25.5 1.1E+02 0.0024 26.0 4.0 45 18-71 8-54 (191)
148 KOG2228 Origin recognition com 25.3 5.8E+02 0.013 24.1 9.0 69 223-291 137-219 (408)
149 PRK14952 DNA polymerase III su 25.2 3.2E+02 0.0069 27.5 7.9 70 222-291 117-190 (584)
150 COG0634 Hpt Hypoxanthine-guani 25.2 1.3E+02 0.0027 25.3 4.2 48 216-263 87-134 (178)
151 PF13191 AAA_16: AAA ATPase do 24.6 48 0.001 26.9 1.8 28 175-202 2-34 (185)
152 PRK14097 pgi glucose-6-phospha 24.6 2.2E+02 0.0047 27.7 6.4 35 224-261 112-146 (448)
153 cd04912 ACT_AKiii-LysC-EC-like 24.6 1.9E+02 0.0042 19.9 4.7 54 20-88 14-67 (75)
154 TIGR03689 pup_AAA proteasome A 24.5 2.1E+02 0.0045 28.3 6.3 70 222-291 288-378 (512)
155 PRK07132 DNA polymerase III su 24.4 2.6E+02 0.0057 25.4 6.7 69 222-290 89-161 (299)
156 PRK04132 replication factor C 24.4 3.2E+02 0.007 28.9 8.0 69 223-291 630-702 (846)
157 PRK09111 DNA polymerase III su 24.3 2E+02 0.0044 29.0 6.4 70 222-291 131-204 (598)
158 PF14258 DUF4350: Domain of un 24.3 2.3E+02 0.005 19.1 6.1 59 24-94 7-65 (70)
159 cd00861 ProRS_anticodon_short 23.6 2.2E+02 0.0047 20.2 5.0 49 21-72 17-65 (94)
160 PRK06090 DNA polymerase III su 23.2 3.8E+02 0.0081 24.7 7.5 68 223-290 108-179 (319)
161 PRK07414 cob(I)yrinic acid a,c 23.1 63 0.0014 27.1 2.1 47 215-261 106-158 (178)
162 TIGR00611 recf recF protein. A 23.1 96 0.0021 29.1 3.6 43 221-265 300-345 (365)
163 PRK08769 DNA polymerase III su 23.0 3.5E+02 0.0077 24.9 7.3 69 222-290 112-184 (319)
164 PRK08350 hypothetical protein; 22.9 75 0.0016 29.5 2.7 33 5-37 279-311 (341)
165 cd03249 ABC_MTABC3_MDL1_MDL2 M 22.2 1.9E+02 0.0041 24.8 5.2 58 216-275 150-210 (238)
166 PRK14096 pgi glucose-6-phospha 22.1 3E+02 0.0065 27.4 6.9 59 195-260 116-178 (528)
167 PRK08181 transposase; Validate 21.9 49 0.0011 29.6 1.4 10 224-233 168-177 (269)
168 PRK07133 DNA polymerase III su 21.9 3.2E+02 0.0069 28.4 7.2 69 222-290 117-189 (725)
169 PRK14088 dnaA chromosomal repl 21.8 2.3E+02 0.005 27.3 6.1 70 223-292 194-277 (440)
170 cd03227 ABC_Class2 ABC-type Cl 21.6 1.1E+02 0.0024 24.7 3.3 53 223-277 99-155 (162)
171 TIGR02324 CP_lyasePhnL phospho 21.6 1.4E+02 0.0031 25.3 4.2 59 217-276 161-223 (224)
172 cd03240 ABC_Rad50 The catalyti 21.6 1.4E+02 0.003 25.3 4.0 58 217-276 133-196 (204)
173 PF07693 KAP_NTPase: KAP famil 21.4 2E+02 0.0043 25.9 5.3 51 21-71 2-60 (325)
174 cd03253 ABCC_ATM1_transporter 21.3 2.2E+02 0.0047 24.4 5.3 58 216-275 148-208 (236)
175 cd03251 ABCC_MsbA MsbA is an e 21.2 2.1E+02 0.0045 24.4 5.2 57 217-275 150-209 (234)
176 PRK14954 DNA polymerase III su 21.2 3.5E+02 0.0076 27.5 7.4 69 222-290 126-198 (620)
177 PF00875 DNA_photolyase: DNA p 21.1 2.7E+02 0.0058 22.4 5.6 84 25-115 56-152 (165)
178 cd02426 Pol_gamma_b_Cterm C-te 21.1 53 0.0011 25.8 1.2 32 20-51 42-77 (128)
179 cd04893 ACT_GcvR_1 ACT domains 21.0 81 0.0018 22.1 2.1 29 10-39 2-30 (77)
180 PF11071 DUF2872: Protein of u 20.8 1.6E+02 0.0035 23.4 3.8 59 12-73 25-85 (141)
181 COG2109 BtuR ATP:corrinoid ade 20.8 81 0.0018 26.8 2.3 49 213-261 111-165 (198)
182 TIGR01243 CDC48 AAA family ATP 20.6 4.4E+02 0.0096 27.2 8.2 70 222-291 545-635 (733)
183 PRK14249 phosphate ABC transpo 20.5 1.7E+02 0.0037 25.4 4.5 52 216-267 158-212 (251)
184 PF01113 DapB_N: Dihydrodipico 20.5 2E+02 0.0043 22.1 4.5 56 8-72 68-124 (124)
185 cd03300 ABC_PotA_N PotA is an 20.4 1.2E+02 0.0027 25.9 3.6 51 216-266 141-196 (232)
186 PTZ00202 tuzin; Provisional 20.4 3E+02 0.0066 27.1 6.3 76 127-202 211-296 (550)
187 cd03369 ABCC_NFT1 Domain 2 of 20.3 2.2E+02 0.0047 23.8 5.0 57 217-275 137-196 (207)
188 PRK02261 methylaspartate mutas 20.3 4.4E+02 0.0095 20.8 6.8 56 27-87 23-79 (137)
189 PRK13883 conjugal transfer pro 20.2 1E+02 0.0022 25.1 2.8 27 16-42 58-84 (151)
190 PF07429 Glyco_transf_56: 4-al 20.2 1E+02 0.0022 28.8 3.0 47 26-74 299-347 (360)
No 1
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=5.2e-65 Score=534.44 Aligned_cols=298 Identities=36% Similarity=0.605 Sum_probs=265.8
Q ss_pred CCCCCcccEEecCCcCcCCcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHH
Q 048215 2 RSSTKKYDVFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDYASSRWCLDE 81 (305)
Q Consensus 2 ~s~~~~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~E 81 (305)
+|+.++|||||||||+|||++|++|||+||.++||++|.|+++++|+.|++++++||++|+++|||||+|||+|+|||+|
T Consensus 7 ~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s~wcl~e 86 (1153)
T PLN03210 7 SSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYASSSWCLNE 86 (1153)
T ss_pred CCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCcccchHHHHH
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhccceE-----------EEEeCCCCchHHHHHHHHHhhhhhhhHHHHHHHHHHhhcccccccCCCCchhhhh
Q 048215 82 LAEILECKKEHAQI-----------YVRNQTGSFGDSFSKLEERFEKNSEKLQTWRKGLREVAGLSGFHYRSIRPESELI 150 (305)
Q Consensus 82 L~~i~e~~~~~~~v-----------~Vr~q~g~f~~af~~~~~~~~~~~ekv~~Wr~aL~ev~~~~G~~~~~~~~e~~~I 150 (305)
|++|++|+++.+++ +||+|+|.||++|.++.++. ..+++++|++||+++++++||++..+.+|+++|
T Consensus 87 l~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g~~~~~~~~E~~~i 164 (1153)
T PLN03210 87 LLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNK--TEDEKIQWKQALTDVANILGYHSQNWPNEAKMI 164 (1153)
T ss_pred HHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCceecCCCCCHHHHH
Confidence 99999999887775 89999999999999987654 346799999999999999999998877899999
Q ss_pred hhhhhhhhhhccccccCCCCCCCCcccccchhhhHHHhhccCCCC---ceEeCC-C-----------cccccccc-----
Q 048215 151 NEVVNNILKRLLEEVFRPRDNKSQLVGVESRVEEIESLLSVESKD---VYALGF-G-----------ASVDENAI----- 210 (305)
Q Consensus 151 ~~Iv~~v~~~l~~~~~s~~~~~~~~vG~~~~~~~l~~~L~~~~~~---v~ivGi-G-----------~~v~e~~~----- 210 (305)
++||++|.+++..++. .+.+++||++.++++|..+|..+.++ +.|+|| | ..+...|+
T Consensus 165 ~~Iv~~v~~~l~~~~~---~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv 241 (1153)
T PLN03210 165 EEIANDVLGKLNLTPS---NDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFI 241 (1153)
T ss_pred HHHHHHHHHhhccccC---cccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEe
Confidence 9999999999988776 77889999999999999999876666 556666 5 11111110
Q ss_pred --------------------------------------c----chhhhhhhhcCCceeEEeccCCCHHHHHHHHhcCCCC
Q 048215 211 --------------------------------------P----GNDLNSRRLSCMKVLIVFDDVTCFSQLESIIGSLDWL 248 (305)
Q Consensus 211 --------------------------------------~----~~~~l~~~l~~kr~LlVLDdv~~~~~~~~l~~~~~~~ 248 (305)
+ ....++++|+++|+||||||||+..+|+.+.+...|+
T Consensus 242 ~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~ 321 (1153)
T PLN03210 242 DRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWF 321 (1153)
T ss_pred eccccccchhhcccccccccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccC
Confidence 0 1145678899999999999999999999999988999
Q ss_pred CCCcEEEEEcCChHHHHhcCCCceEEcCCCChHHHHHHHHHhhcCCCCCCCCcccC
Q 048215 249 MPVSRTIITTRNKQVLRNWGVRKICEMEALEYHHALELFSRHAFKQNHPDVGYAEL 304 (305)
Q Consensus 249 ~~gsrIIiTTR~~~v~~~~~~~~~~~v~~L~~~ea~~Lf~~~Af~~~~~~~~~~~l 304 (305)
++||+||||||+++++..++++++|+|+.|+.++||+||+++||++..|+++|+++
T Consensus 322 ~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l 377 (1153)
T PLN03210 322 GSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMEL 377 (1153)
T ss_pred CCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHH
Confidence 99999999999999999988899999999999999999999999998887777665
No 2
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=1.9e-42 Score=285.69 Aligned_cols=150 Identities=33% Similarity=0.538 Sum_probs=134.7
Q ss_pred CCCCCCcccEEecCCcCcCCcchHHHHHHHHhcCCceeEEeC-CCCCCCcchHHHHHHHHhcCcEEEEeecCcccchhhH
Q 048215 1 SRSSTKKYDVFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDD-QLNRGYEISESLVKAIKASAISVIIFSEDYASSRWCL 79 (305)
Q Consensus 1 s~s~~~~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~-~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl 79 (305)
|+|+..+|||||||+|+|||.+|++||+++|+++||+||+|+ ++++|+.+.++|.+||++|+++|||||++|++|+|||
T Consensus 20 ~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCL 99 (187)
T PLN03194 20 SSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCL 99 (187)
T ss_pred CCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHH
Confidence 578888999999999999999999999999999999999999 8999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhccceE-------EEEeC-CCCchHHHHHHHHHhhhhhhhHHHHHHHHHHhhcccccccCCC-Cchhhhh
Q 048215 80 DELAEILECKKEHAQI-------YVRNQ-TGSFGDSFSKLEERFEKNSEKLQTWRKGLREVAGLSGFHYRSI-RPESELI 150 (305)
Q Consensus 80 ~EL~~i~e~~~~~~~v-------~Vr~q-~g~f~~af~~~~~~~~~~~ekv~~Wr~aL~ev~~~~G~~~~~~-~~e~~~I 150 (305)
+||++|++|++..-|+ +||+| .|.. ..+++++|++||+++++++|+++... ++|+++|
T Consensus 100 dEL~~I~e~~~~ViPIFY~VdPsdVr~q~~~~~-------------~~e~v~~Wr~AL~~va~l~G~~~~~~~~~e~e~i 166 (187)
T PLN03194 100 HELALIMESKKRVIPIFCDVKPSQLRVVDNGTC-------------PDEEIRRFNWALEEAKYTVGLTFDSLKGNWSEVV 166 (187)
T ss_pred HHHHHHHHcCCEEEEEEecCCHHHhhccccCCC-------------CHHHHHHHHHHHHHHhccccccCCCCCCCHHHHH
Confidence 9999999997655555 78886 4432 24679999999999999999987643 3499999
Q ss_pred hhhhhhhhhhccc
Q 048215 151 NEVVNNILKRLLE 163 (305)
Q Consensus 151 ~~Iv~~v~~~l~~ 163 (305)
++|+..|.+.|-.
T Consensus 167 ~~iv~~v~k~l~~ 179 (187)
T PLN03194 167 TMASDAVIKNLIE 179 (187)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999988743
No 3
>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo. In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....
Probab=99.78 E-value=1.3e-20 Score=153.17 Aligned_cols=121 Identities=30% Similarity=0.479 Sum_probs=93.6
Q ss_pred EEecCCcCcCCcchHHHHHHHHhcC--CceeEEeC-CCCCCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHHH
Q 048215 10 VFVSFRGEDTLDDFTSHLYSALSRQ--NIQTFIDD-QLNRGYEISESLVKAIKASAISVIIFSEDYASSRWCLDELAEIL 86 (305)
Q Consensus 10 VFis~~~~D~~~~f~~~L~~~L~~~--gi~~f~d~-~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i~ 86 (305)
|||||++.+++..|+++|..+|.++ |+++|+++ ++.+|..+.+++.++|++|+.+|+|||++|+.|.||+.||..++
T Consensus 1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~ 80 (141)
T PF01582_consen 1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL 80 (141)
T ss_dssp EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence 8999999555778999999999999 99999999 89999999999999999999999999999999999999999999
Q ss_pred HHhhccc--eE-----------EEE-eCCCCchHHHHHHHHHhhhh--hhhHHHHHHHHH
Q 048215 87 ECKKEHA--QI-----------YVR-NQTGSFGDSFSKLEERFEKN--SEKLQTWRKGLR 130 (305)
Q Consensus 87 e~~~~~~--~v-----------~Vr-~q~g~f~~af~~~~~~~~~~--~ekv~~Wr~aL~ 130 (305)
++....+ .+ +++ .+.+.|+..+..+....+.. ..+...|++++.
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~ 140 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY 140 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence 9987644 32 333 23344444443332222222 346778888764
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.74 E-value=6.4e-18 Score=136.64 Aligned_cols=125 Identities=37% Similarity=0.648 Sum_probs=98.1
Q ss_pred cccEEecCCc-CcCCcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHH
Q 048215 7 KYDVFVSFRG-EDTLDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDYASSRWCLDELAEI 85 (305)
Q Consensus 7 ~~dVFis~~~-~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i 85 (305)
.|||||||++ .++...|+.+|..+|...|+.+|.|+....|.... +|.++|++|+..|+|+|++|..|.||..|+..+
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~~-~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a 79 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDLE-EIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA 79 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchHH-HHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence 5999999999 56668999999999999999999998544444444 999999999999999999999999999999999
Q ss_pred HHHhhc--cce---E-------EEEeCCCCchHHHHHHHHHhhhhhhhHHHHHHHHHHhh
Q 048215 86 LECKKE--HAQ---I-------YVRNQTGSFGDSFSKLEERFEKNSEKLQTWRKGLREVA 133 (305)
Q Consensus 86 ~e~~~~--~~~---v-------~Vr~q~g~f~~af~~~~~~~~~~~ekv~~Wr~aL~ev~ 133 (305)
+++... ... + .+..+.+.++.++.....++.+...+ ..|++++..+.
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~ 138 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVP 138 (140)
T ss_pred HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhc
Confidence 997643 112 2 24556677777777664444444333 68999887765
No 5
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]
Probab=99.74 E-value=2.6e-18 Score=175.04 Aligned_cols=120 Identities=23% Similarity=0.220 Sum_probs=106.8
Q ss_pred ccccchhhhHHHhhccCCCC-ceEeCC-C-------------cc-cccccc-----------------------------
Q 048215 176 VGVESRVEEIESLLSVESKD-VYALGF-G-------------AS-VDENAI----------------------------- 210 (305)
Q Consensus 176 vG~~~~~~~l~~~L~~~~~~-v~ivGi-G-------------~~-v~e~~~----------------------------- 210 (305)
||.+..++.+.+.|..++.. ++|+|| | .. ++.+|+
T Consensus 161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~ 240 (889)
T KOG4658|consen 161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDE 240 (889)
T ss_pred ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCc
Confidence 99999999999999977664 889999 6 12 555555
Q ss_pred --------cchhhhhhhhcCCceeEEeccCCCHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHh-cCCCceEEcCCCChH
Q 048215 211 --------PGNDLNSRRLSCMKVLIVFDDVTCFSQLESIIGSLDWLMPVSRTIITTRNKQVLRN-WGVRKICEMEALEYH 281 (305)
Q Consensus 211 --------~~~~~l~~~l~~kr~LlVLDdv~~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~-~~~~~~~~v~~L~~~ 281 (305)
..+..|.+.|.+|||||||||||+..+|+.+..++|...+||+|++|||++.||.. |++...+++++|..+
T Consensus 241 ~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~ 320 (889)
T KOG4658|consen 241 EWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPE 320 (889)
T ss_pred ccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCcc
Confidence 14566888999999999999999999999999999998899999999999999998 888999999999999
Q ss_pred HHHHHHHHhhcCCC
Q 048215 282 HALELFSRHAFKQN 295 (305)
Q Consensus 282 ea~~Lf~~~Af~~~ 295 (305)
|||.||++.||...
T Consensus 321 eaW~LF~~~v~~~~ 334 (889)
T KOG4658|consen 321 EAWDLFQKKVGPNT 334 (889)
T ss_pred ccHHHHHHhhcccc
Confidence 99999999999874
No 6
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=99.63 E-value=1.5e-16 Score=143.77 Aligned_cols=118 Identities=28% Similarity=0.357 Sum_probs=86.6
Q ss_pred ccchhhhHHHhhccCCCC---ceEeCC-C-----------cc--cccccc------------------------------
Q 048215 178 VESRVEEIESLLSVESKD---VYALGF-G-----------AS--VDENAI------------------------------ 210 (305)
Q Consensus 178 ~~~~~~~l~~~L~~~~~~---v~ivGi-G-----------~~--v~e~~~------------------------------ 210 (305)
||.++++|.+.|.....+ |.|+|| | .+ ++..|+
T Consensus 1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~ 80 (287)
T PF00931_consen 1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS 80 (287)
T ss_dssp -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence 577889999998874433 778888 6 12 333333
Q ss_pred --------cchhhhhhhhcCCceeEEeccCCCHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhcCC-CceEEcCCCChH
Q 048215 211 --------PGNDLNSRRLSCMKVLIVFDDVTCFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNWGV-RKICEMEALEYH 281 (305)
Q Consensus 211 --------~~~~~l~~~l~~kr~LlVLDdv~~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~~~-~~~~~v~~L~~~ 281 (305)
.....+++.|.++++||||||||+...|+.+...++.+..||+||||||+..++..++. ...|+|++|+.+
T Consensus 81 ~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~ 160 (287)
T PF00931_consen 81 ISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEE 160 (287)
T ss_dssp SSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HH
T ss_pred cccccccccccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 13466788899999999999999999999998888878889999999999999887754 678999999999
Q ss_pred HHHHHHHHhhcCCC
Q 048215 282 HALELFSRHAFKQN 295 (305)
Q Consensus 282 ea~~Lf~~~Af~~~ 295 (305)
||++||++.|+...
T Consensus 161 ea~~L~~~~~~~~~ 174 (287)
T PF00931_consen 161 EALELFKKRAGRKE 174 (287)
T ss_dssp HHHHHHHHHHTSHS
T ss_pred cccccccccccccc
Confidence 99999999999765
No 7
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.46 E-value=8.8e-15 Score=111.95 Aligned_cols=76 Identities=30% Similarity=0.596 Sum_probs=67.4
Q ss_pred EEecCCcCcCCcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHHHH
Q 048215 10 VFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDYASSRWCLDELAEILE 87 (305)
Q Consensus 10 VFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i~e 87 (305)
|||||+++| ..++..|...|+..|+++|.|.++..|+.+.+.+.++|++|+..|+++|++|..|.||..|+..+.+
T Consensus 1 VFIS~~~~D--~~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~ 76 (102)
T PF13676_consen 1 VFISYSSED--REFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK 76 (102)
T ss_dssp EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC
T ss_pred eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH
Confidence 899999999 6699999999999999999999889999999999999999999999999999999999999988844
No 8
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=98.14 E-value=7.2e-06 Score=76.80 Aligned_cols=144 Identities=23% Similarity=0.374 Sum_probs=96.7
Q ss_pred CCCcccEEecCCcCcCCcchHHHHHHHHhcCCceeEEeC-CCCCCCcchHHHHHHHHhcCcEEEEeecCcccc-------
Q 048215 4 STKKYDVFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDD-QLNRGYEISESLVKAIKASAISVIIFSEDYASS------- 75 (305)
Q Consensus 4 ~~~~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~-~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S------- 75 (305)
.+...|||||||..- ....++.|.--|+-+|+++|+|= .+..| .+.+.+++.|...+.+|.|++||...-
T Consensus 609 ~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AG-KFdssLlkni~aAkhFiLVLtP~sLDr~lnD~nC 686 (832)
T KOG3678|consen 609 LSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAG-KFDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNC 686 (832)
T ss_pred ccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhcc-cccHHHHHHHHhhheeEEEeCcchHHHHhccccH
Confidence 456899999998874 45578888888999999999997 67666 566889999999999999999986543
Q ss_pred -hhhHHHHHHHHHHhhccceEEEEeCCCCchHHHHHHHHHhhhhhhhHHHHHHHHHHhhcccccccCCCCchhhhhhhhh
Q 048215 76 -RWCLDELAEILECKKEHAQIYVRNQTGSFGDSFSKLEERFEKNSEKLQTWRKGLREVAGLSGFHYRSIRPESELINEVV 154 (305)
Q Consensus 76 -~~cl~EL~~i~e~~~~~~~v~Vr~q~g~f~~af~~~~~~~~~~~ekv~~Wr~aL~ev~~~~G~~~~~~~~e~~~I~~Iv 154 (305)
.|.-.||.-.++|.+...++ |.-+|. +....+.+..= +..+....|.....-. +...+.+|+
T Consensus 687 eDWVHKEl~~Afe~~KNIiPI--------~D~aFE-----~Pt~ed~iPnD---irmi~kyNGvKWvHdY-QdA~maKvv 749 (832)
T KOG3678|consen 687 EDWVHKELKCAFEHQKNIIPI--------FDTAFE-----FPTKEDQIPND---IRMITKYNGVKWVHDY-QDACMAKVV 749 (832)
T ss_pred HHHHHHHHHHHHHhcCCeeee--------eccccc-----CCCchhcCcHH---HHHHHhccCeeeehhh-HHHHHHHHH
Confidence 57778999999998766554 222221 11111112221 2222334443321111 445678888
Q ss_pred hhhhhhcccccc
Q 048215 155 NNILKRLLEEVF 166 (305)
Q Consensus 155 ~~v~~~l~~~~~ 166 (305)
.-+.-.++.+.+
T Consensus 750 RFitGe~nRttp 761 (832)
T KOG3678|consen 750 RFITGELNRTTP 761 (832)
T ss_pred HHHhccccCCCC
Confidence 888777766553
No 9
>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments. The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.
Probab=97.81 E-value=2.2e-05 Score=62.63 Aligned_cols=80 Identities=21% Similarity=0.328 Sum_probs=42.6
Q ss_pred ccEEecCCcCcCCcchHHHHHHHHhcC-------Ccee----------EEeC-CCCCCCcchHHHHHHHHhcCcEEEEee
Q 048215 8 YDVFVSFRGEDTLDDFTSHLYSALSRQ-------NIQT----------FIDD-QLNRGYEISESLVKAIKASAISVIIFS 69 (305)
Q Consensus 8 ~dVFis~~~~D~~~~f~~~L~~~L~~~-------gi~~----------f~d~-~~~~g~~~~~~i~~ai~~s~~~ivv~S 69 (305)
|.|||||+..|-. .....|...+... .+.. +.+. +......+...|.++|.+|.+.||+.|
T Consensus 1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig 79 (130)
T PF08937_consen 1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG 79 (130)
T ss_dssp ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence 6799999999933 2566666666652 2211 1121 223345778899999999999999999
Q ss_pred cCcccchhhHHHHHHHHHH
Q 048215 70 EDYASSRWCLDELAEILEC 88 (305)
Q Consensus 70 ~~y~~S~~cl~EL~~i~e~ 88 (305)
++-..|+|+-.|+...++.
T Consensus 80 ~~T~~s~wV~~EI~~A~~~ 98 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALKK 98 (130)
T ss_dssp TT----HHHHHHHHHHTTT
T ss_pred CCcccCcHHHHHHHHHHHC
Confidence 9999999999999987773
No 10
>PF05729 NACHT: NACHT domain
Probab=96.85 E-value=0.0027 Score=51.71 Aligned_cols=70 Identities=21% Similarity=0.318 Sum_probs=48.8
Q ss_pred cCCceeEEeccCCCHHH---------HHHHH-hcCCC-CCCCcEEEEEcCChHH---HHhcCCCceEEcCCCChHHHHHH
Q 048215 221 SCMKVLIVFDDVTCFSQ---------LESII-GSLDW-LMPVSRTIITTRNKQV---LRNWGVRKICEMEALEYHHALEL 286 (305)
Q Consensus 221 ~~kr~LlVLDdv~~~~~---------~~~l~-~~~~~-~~~gsrIIiTTR~~~v---~~~~~~~~~~~v~~L~~~ea~~L 286 (305)
..++++||||++++... +..+. .-++. ..+++++|||||.... .........+++++|++++..++
T Consensus 79 ~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 158 (166)
T PF05729_consen 79 KNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQY 158 (166)
T ss_pred cCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHH
Confidence 46799999999985432 22222 22222 3578999999999766 33344456899999999999998
Q ss_pred HHHh
Q 048215 287 FSRH 290 (305)
Q Consensus 287 f~~~ 290 (305)
+.++
T Consensus 159 ~~~~ 162 (166)
T PF05729_consen 159 LRKY 162 (166)
T ss_pred HHHH
Confidence 8644
No 11
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=96.14 E-value=0.0084 Score=48.70 Aligned_cols=66 Identities=20% Similarity=0.359 Sum_probs=51.8
Q ss_pred cEEecCCcCcCC-cchHHHHHHHHhcC-CceeEEeC-CCCC--CCcchHHHHHHHHhcCcEEEEeecCccc
Q 048215 9 DVFVSFRGEDTL-DDFTSHLYSALSRQ-NIQTFIDD-QLNR--GYEISESLVKAIKASAISVIIFSEDYAS 74 (305)
Q Consensus 9 dVFis~~~~D~~-~~f~~~L~~~L~~~-gi~~f~d~-~~~~--g~~~~~~i~~ai~~s~~~ivv~S~~y~~ 74 (305)
.|||||+..... ..-|-.|.+.|+.. |+.|.+|. +... +.....=+.+.|++++..|||.|+.|..
T Consensus 2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~~~ 72 (150)
T PF08357_consen 2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGYKE 72 (150)
T ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccchhH
Confidence 499999995432 24588899999999 99999998 6633 4455566788899999999999987643
No 12
>PRK06893 DNA replication initiation factor; Validated
Probab=95.88 E-value=0.01 Score=52.01 Aligned_cols=72 Identities=13% Similarity=0.281 Sum_probs=49.1
Q ss_pred ceeEEeccCCCH---HHHHH-HHhcCCCC-CCCcEEEEEcCC----------hHHHHhcCCCceEEcCCCChHHHHHHHH
Q 048215 224 KVLIVFDDVTCF---SQLES-IIGSLDWL-MPVSRTIITTRN----------KQVLRNWGVRKICEMEALEYHHALELFS 288 (305)
Q Consensus 224 r~LlVLDdv~~~---~~~~~-l~~~~~~~-~~gsrIIiTTR~----------~~v~~~~~~~~~~~v~~L~~~ea~~Lf~ 288 (305)
.-+|+|||+|.. .+|+. +...++.. ..|+.+||+|.+ +++...++....++++++++++.++++.
T Consensus 92 ~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~ 171 (229)
T PRK06893 92 QDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQ 171 (229)
T ss_pred CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHH
Confidence 358999999853 44542 22222222 246666554443 4777777667789999999999999999
Q ss_pred HhhcCCC
Q 048215 289 RHAFKQN 295 (305)
Q Consensus 289 ~~Af~~~ 295 (305)
++|+...
T Consensus 172 ~~a~~~~ 178 (229)
T PRK06893 172 RNAYQRG 178 (229)
T ss_pred HHHHHcC
Confidence 9998654
No 13
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=95.58 E-value=0.036 Score=43.74 Aligned_cols=60 Identities=23% Similarity=0.343 Sum_probs=49.5
Q ss_pred cEEecCCcCcCCcchHHHHHHHHhcCCceeEEe-CCCCCCCcchHHHHHHHHhcCcEEEEeecC
Q 048215 9 DVFVSFRGEDTLDDFTSHLYSALSRQNIQTFID-DQLNRGYEISESLVKAIKASAISVIIFSED 71 (305)
Q Consensus 9 dVFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d-~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~ 71 (305)
.|||.|. .| ......+...|+..|+.+..= +....|..+.+.+.+++.+++.+||+++|+
T Consensus 1 kVFIvhg-~~--~~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpD 61 (125)
T PF10137_consen 1 KVFIVHG-RD--LAAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPD 61 (125)
T ss_pred CEEEEeC-CC--HHHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEccc
Confidence 4899987 66 456788888898888876553 355889999999999999999999999985
No 14
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=95.31 E-value=0.037 Score=51.86 Aligned_cols=127 Identities=20% Similarity=0.311 Sum_probs=74.7
Q ss_pred CCCCcccccchhhhHHHhhccC--------------CCCceEeCC-C-------ccccc----ccc-------------c
Q 048215 171 NKSQLVGVESRVEEIESLLSVE--------------SKDVYALGF-G-------ASVDE----NAI-------------P 211 (305)
Q Consensus 171 ~~~~~vG~~~~~~~l~~~L~~~--------------~~~v~ivGi-G-------~~v~e----~~~-------------~ 211 (305)
..+++.|++..+++|.+.+... ...+.++|- | ..+.. .+- .
T Consensus 120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~~g~ 199 (364)
T TIGR01242 120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGE 199 (364)
T ss_pred CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHhhhH
Confidence 4457889999999998765321 223788898 7 11111 110 0
Q ss_pred chhhhhhhh----cCCceeEEeccCCCH-------------H---HHHHHHhcCCCC--CCCcEEEEEcCChHHHH----
Q 048215 212 GNDLNSRRL----SCMKVLIVFDDVTCF-------------S---QLESIIGSLDWL--MPVSRTIITTRNKQVLR---- 265 (305)
Q Consensus 212 ~~~~l~~~l----~~kr~LlVLDdv~~~-------------~---~~~~l~~~~~~~--~~gsrIIiTTR~~~v~~---- 265 (305)
....++..+ .....+|+||+++.. + .+..+...+... ..+.+||.||...+.+.
T Consensus 200 ~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~ 279 (364)
T TIGR01242 200 GARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALL 279 (364)
T ss_pred HHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhc
Confidence 111222222 234679999998743 1 122333222222 24678888887654332
Q ss_pred -hcCCCceEEcCCCChHHHHHHHHHhhcCCCCC
Q 048215 266 -NWGVRKICEMEALEYHHALELFSRHAFKQNHP 297 (305)
Q Consensus 266 -~~~~~~~~~v~~L~~~ea~~Lf~~~Af~~~~~ 297 (305)
....+..+.++..+.++..++|..++.+...+
T Consensus 280 r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~ 312 (364)
T TIGR01242 280 RPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLA 312 (364)
T ss_pred CcccCceEEEeCCcCHHHHHHHHHHHHhcCCCC
Confidence 11235688999999999999999998765533
No 15
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=94.83 E-value=0.092 Score=45.03 Aligned_cols=68 Identities=24% Similarity=0.310 Sum_probs=35.3
Q ss_pred CceeEEeccCCCHH--------HHHHHHhcCCC--CCCCcEEEEEcCChHHHHh--------cCCCceEEcCCCChHHHH
Q 048215 223 MKVLIVFDDVTCFS--------QLESIIGSLDW--LMPVSRTIITTRNKQVLRN--------WGVRKICEMEALEYHHAL 284 (305)
Q Consensus 223 kr~LlVLDdv~~~~--------~~~~l~~~~~~--~~~gsrIIiTTR~~~v~~~--------~~~~~~~~v~~L~~~ea~ 284 (305)
++++||+||+.... -...+...+.. ....-.+|+++-...+... .+....+.|++|+.++++
T Consensus 118 ~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~ 197 (234)
T PF01637_consen 118 KKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAR 197 (234)
T ss_dssp CCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHH
T ss_pred CcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHH
Confidence 46999999986544 12222222221 1233344555555555543 223345899999999999
Q ss_pred HHHHHh
Q 048215 285 ELFSRH 290 (305)
Q Consensus 285 ~Lf~~~ 290 (305)
+++...
T Consensus 198 ~~~~~~ 203 (234)
T PF01637_consen 198 EFLKEL 203 (234)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 999875
No 16
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=94.26 E-value=0.3 Score=46.05 Aligned_cols=121 Identities=16% Similarity=0.159 Sum_probs=72.0
Q ss_pred CCCCCcccccchhhhHHHhhccC-----CCCceEeCC-C-----------cccccc---cc-------------------
Q 048215 170 DNKSQLVGVESRVEEIESLLSVE-----SKDVYALGF-G-----------ASVDEN---AI------------------- 210 (305)
Q Consensus 170 ~~~~~~vG~~~~~~~l~~~L~~~-----~~~v~ivGi-G-----------~~v~e~---~~------------------- 210 (305)
..++.++||+.++++|...|... ...+-|.|. | ....+. +.
T Consensus 27 ~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i 106 (394)
T PRK00411 27 YVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEI 106 (394)
T ss_pred CcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHH
Confidence 56788999999999999887432 123788999 7 111000 00
Q ss_pred -----------------cchhhhhhhhc--CCceeEEeccCCCHH------HHHHHHhcCCCCCCCcE--EEEEcCChHH
Q 048215 211 -----------------PGNDLNSRRLS--CMKVLIVFDDVTCFS------QLESIIGSLDWLMPVSR--TIITTRNKQV 263 (305)
Q Consensus 211 -----------------~~~~~l~~~l~--~kr~LlVLDdv~~~~------~~~~l~~~~~~~~~gsr--IIiTTR~~~v 263 (305)
+....+.+.+. ++..+||||+++... .+..+...... .++++ +|.++....+
T Consensus 107 ~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~~ 185 (394)
T PRK00411 107 ARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLTF 185 (394)
T ss_pred HHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcch
Confidence 01122333333 345889999998643 34444432222 23444 6677666544
Q ss_pred HHhcC-------CCceEEcCCCChHHHHHHHHHhh
Q 048215 264 LRNWG-------VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 264 ~~~~~-------~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
..... ....+.+++++.++..+++..++
T Consensus 186 ~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~ 220 (394)
T PRK00411 186 LYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRV 220 (394)
T ss_pred hhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHH
Confidence 33221 12457899999999999988765
No 17
>PF13173 AAA_14: AAA domain
Probab=93.89 E-value=0.098 Score=41.19 Aligned_cols=68 Identities=18% Similarity=0.124 Sum_probs=49.8
Q ss_pred hhhhhcCCceeEEeccCCCHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhc------CCCceEEcCCCChHHH
Q 048215 216 NSRRLSCMKVLIVFDDVTCFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNW------GVRKICEMEALEYHHA 283 (305)
Q Consensus 216 l~~~l~~kr~LlVLDdv~~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~------~~~~~~~v~~L~~~ea 283 (305)
+.+....++.+|+||+|....+|......+-..++..+||+|+.+...+..- |-...++|.+|+..|-
T Consensus 54 ~~~~~~~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~ 127 (128)
T PF13173_consen 54 FLELIKPGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF 127 (128)
T ss_pred HHHhhccCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence 3333444788999999998888877766665556778999999988777431 2235678999998774
No 18
>PRK13342 recombination factor protein RarA; Reviewed
Probab=93.07 E-value=0.3 Score=46.60 Aligned_cols=116 Identities=15% Similarity=0.215 Sum_probs=67.2
Q ss_pred CCcccccchhhh---HHHhhccCCC-CceEeCC-C-------cccc----cccc------c-------chhhhhhh-hcC
Q 048215 173 SQLVGVESRVEE---IESLLSVESK-DVYALGF-G-------ASVD----ENAI------P-------GNDLNSRR-LSC 222 (305)
Q Consensus 173 ~~~vG~~~~~~~---l~~~L~~~~~-~v~ivGi-G-------~~v~----e~~~------~-------~~~~l~~~-l~~ 222 (305)
+++||.+..+.. +.+++..... .+.++|- | ..+. ..|. . ..+..... ..+
T Consensus 12 ~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~~~~~ir~ii~~~~~~~~~g 91 (413)
T PRK13342 12 DEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTSGVKDLREVIEEARQRRSAG 91 (413)
T ss_pred HHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccccHHHHHHHHHHHHHhhhcC
Confidence 568888877655 7777754432 3777888 7 1111 1111 0 11111111 235
Q ss_pred CceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEE--EcCChHHH--Hh-cCCCceEEcCCCChHHHHHHHHHhh
Q 048215 223 MKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTII--TTRNKQVL--RN-WGVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 223 kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIi--TTR~~~v~--~~-~~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
++.+|+||+++. ..+.+.|...+. .|+.++| ||.+.... .. ..--..+.+++|+.++.++++.+.+
T Consensus 92 ~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l 164 (413)
T PRK13342 92 RRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRAL 164 (413)
T ss_pred CceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHHHH
Confidence 788999999985 456677766543 3555444 44543211 11 1112678999999999999998754
No 19
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=92.18 E-value=0.45 Score=34.53 Aligned_cols=67 Identities=19% Similarity=0.198 Sum_probs=49.3
Q ss_pred cEEecCCcCcCCcchHHHHHHHHhcCCceeEEeCCC-CCCCcchHHHHHHHHhcCcEEEEeecCcccch
Q 048215 9 DVFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDDQL-NRGYEISESLVKAIKASAISVIIFSEDYASSR 76 (305)
Q Consensus 9 dVFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~-~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~ 76 (305)
.||||-.-.|... --..|.+++.+.|..+..-+.+ ..+....+.+++.|++|+++|.++-.+|-..+
T Consensus 1 rVFiSSt~~Dl~~-eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~~ 68 (83)
T PF13271_consen 1 RVFISSTFRDLKE-ERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSVP 68 (83)
T ss_pred CEEEecChhhHHH-HHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCCC
Confidence 4899988788532 3467888888777765443312 23556667899999999999999999998754
No 20
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=89.24 E-value=2.3 Score=39.52 Aligned_cols=33 Identities=21% Similarity=0.376 Sum_probs=26.0
Q ss_pred CCCCCcccccchhhhHHHhhcc---C--CCCceEeCC-C
Q 048215 170 DNKSQLVGVESRVEEIESLLSV---E--SKDVYALGF-G 202 (305)
Q Consensus 170 ~~~~~~vG~~~~~~~l~~~L~~---~--~~~v~ivGi-G 202 (305)
..++.++||+.++++|...|.. + ...+-|.|. |
T Consensus 12 ~~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~G 50 (365)
T TIGR02928 12 YVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTG 50 (365)
T ss_pred CCCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCC
Confidence 5677899999999999998863 1 234888999 7
No 21
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=87.84 E-value=1.8 Score=40.99 Aligned_cols=125 Identities=18% Similarity=0.274 Sum_probs=71.8
Q ss_pred CCCCcccccchhhhHHHhhcc--------------CCCCceEeCC-C-------cccccccc-----------------c
Q 048215 171 NKSQLVGVESRVEEIESLLSV--------------ESKDVYALGF-G-------ASVDENAI-----------------P 211 (305)
Q Consensus 171 ~~~~~vG~~~~~~~l~~~L~~--------------~~~~v~ivGi-G-------~~v~e~~~-----------------~ 211 (305)
..+++.|++..+++|.+.+.. ....+.+.|- | ..+..... .
T Consensus 129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~~~g~ 208 (389)
T PRK03992 129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGE 208 (389)
T ss_pred CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHhhccc
Confidence 345678999999999876532 1233788898 7 11111100 0
Q ss_pred chhhhhhhh----cCCceeEEeccCCCH-------------HHHHHHHh---cCCCC--CCCcEEEEEcCChHHHHhc--
Q 048215 212 GNDLNSRRL----SCMKVLIVFDDVTCF-------------SQLESIIG---SLDWL--MPVSRTIITTRNKQVLRNW-- 267 (305)
Q Consensus 212 ~~~~l~~~l----~~kr~LlVLDdv~~~-------------~~~~~l~~---~~~~~--~~gsrIIiTTR~~~v~~~~-- 267 (305)
....++..+ .....+|+|||++.. +....+.. .+..+ ..+-+||.||...+.+...
T Consensus 209 ~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~all 288 (389)
T PRK03992 209 GARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAIL 288 (389)
T ss_pred hHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHc
Confidence 112222222 234689999999753 11222222 12222 2355788888765443321
Q ss_pred ---CCCceEEcCCCChHHHHHHHHHhhcCCC
Q 048215 268 ---GVRKICEMEALEYHHALELFSRHAFKQN 295 (305)
Q Consensus 268 ---~~~~~~~v~~L~~~ea~~Lf~~~Af~~~ 295 (305)
..+..++++..+.++-.++|..++.+..
T Consensus 289 RpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~ 319 (389)
T PRK03992 289 RPGRFDRIIEVPLPDEEGRLEILKIHTRKMN 319 (389)
T ss_pred CCccCceEEEECCCCHHHHHHHHHHHhccCC
Confidence 1356789999999999999998876543
No 22
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=87.37 E-value=2.8 Score=43.14 Aligned_cols=132 Identities=12% Similarity=0.177 Sum_probs=76.6
Q ss_pred hhhhhhhhhhhhhccccccCCCCCCCCcccccchhhhHHHhhccC-CCCceEeCC-C-----------cc-----ccccc
Q 048215 148 ELINEVVNNILKRLLEEVFRPRDNKSQLVGVESRVEEIESLLSVE-SKDVYALGF-G-----------AS-----VDENA 209 (305)
Q Consensus 148 ~~I~~Iv~~v~~~l~~~~~s~~~~~~~~vG~~~~~~~l~~~L~~~-~~~v~ivGi-G-----------~~-----v~e~~ 209 (305)
..+++...+...+..+..+ +.++||+.+++.+.+.|... ..++.++|- | .. +-..+
T Consensus 163 ~~l~~~~~~l~~~~r~~~l------~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l 236 (731)
T TIGR02639 163 DALEKYTVDLTEKAKNGKI------DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENL 236 (731)
T ss_pred hHHHHHhhhHHHHHhcCCC------CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhh
Confidence 3455555555555544333 57899999999999988754 345889999 7 11 11100
Q ss_pred ------c-c-------------chhhhhhhh----cCCceeEEeccCCCH-----------HHHHHHHhcCCCCCCCc-E
Q 048215 210 ------I-P-------------GNDLNSRRL----SCMKVLIVFDDVTCF-----------SQLESIIGSLDWLMPVS-R 253 (305)
Q Consensus 210 ------~-~-------------~~~~l~~~l----~~kr~LlVLDdv~~~-----------~~~~~l~~~~~~~~~gs-r 253 (305)
. + ....+++.+ ..++.+|++|++... +.-+.|.+.+ ..|- +
T Consensus 237 ~~~~~~~~~~~~l~a~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l---~~g~i~ 313 (731)
T TIGR02639 237 KNAKIYSLDMGSLLAGTKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPAL---SSGKLR 313 (731)
T ss_pred cCCeEEEecHHHHhhhccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHH---hCCCeE
Confidence 0 1 112344444 245789999998732 1223333332 2343 3
Q ss_pred EEEEcCCh----------HHHHhcCCCceEEcCCCChHHHHHHHHHhh
Q 048215 254 TIITTRNK----------QVLRNWGVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 254 IIiTTR~~----------~v~~~~~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+|-+|... -+...+ ..++++.++.++..+++...+
T Consensus 314 ~IgaTt~~e~~~~~~~d~al~rRf---~~i~v~~p~~~~~~~il~~~~ 358 (731)
T TIGR02639 314 CIGSTTYEEYKNHFEKDRALSRRF---QKIDVGEPSIEETVKILKGLK 358 (731)
T ss_pred EEEecCHHHHHHHhhhhHHHHHhC---ceEEeCCCCHHHHHHHHHHHH
Confidence 44444432 222222 368999999999999998543
No 23
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=85.90 E-value=4.1 Score=41.89 Aligned_cols=70 Identities=13% Similarity=0.172 Sum_probs=48.9
Q ss_pred CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCChHHH-Hhc-CCCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRNKQVL-RNW-GVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~~~v~-~~~-~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
++.-++|||++... ..++.|...+..-....++|+||.+.+-+ ..+ .--..+.++.|+.++..+.+.+.+
T Consensus 118 gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il 191 (830)
T PRK07003 118 ARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERIL 191 (830)
T ss_pred CCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHH
Confidence 34457889999854 55888888777666788888888775432 221 112578999999999988777654
No 24
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=85.54 E-value=2.6 Score=43.29 Aligned_cols=67 Identities=18% Similarity=0.269 Sum_probs=43.7
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEE--EcCChH--HHHhc-CCCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTII--TTRNKQ--VLRNW-GVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIi--TTR~~~--v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+++.+|+||||+ +..+.+.|...+. .|+.++| ||.+.. +.... .-...+.+++|+.++...++.+.+
T Consensus 108 ~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi~~IL~~~l 181 (725)
T PRK13341 108 GKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQLLKRAL 181 (725)
T ss_pred CCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHHHHHHHHHH
Confidence 457799999997 5567777765443 4565555 444432 21111 113578999999999999988654
No 25
>PRK09087 hypothetical protein; Validated
Probab=84.59 E-value=2.9 Score=36.43 Aligned_cols=66 Identities=11% Similarity=0.101 Sum_probs=44.7
Q ss_pred eeEEeccCCC----HHHHHHHHhcCCCCCCCcEEEEEcC---------ChHHHHhcCCCceEEcCCCChHHHHHHHHHhh
Q 048215 225 VLIVFDDVTC----FSQLESIIGSLDWLMPVSRTIITTR---------NKQVLRNWGVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 225 ~LlVLDdv~~----~~~~~~l~~~~~~~~~gsrIIiTTR---------~~~v~~~~~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
-+|+|||+.. .+.+-.+...+ ...|..||+|++ .+++...+.....+++++++.++-.+++.+++
T Consensus 89 ~~l~iDDi~~~~~~~~~lf~l~n~~--~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~ 166 (226)
T PRK09087 89 GPVLIEDIDAGGFDETGLFHLINSV--RQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLF 166 (226)
T ss_pred CeEEEECCCCCCCCHHHHHHHHHHH--HhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHH
Confidence 4888899953 22222222211 134778999986 34555556566789999999999999998876
Q ss_pred c
Q 048215 292 F 292 (305)
Q Consensus 292 f 292 (305)
=
T Consensus 167 ~ 167 (226)
T PRK09087 167 A 167 (226)
T ss_pred H
Confidence 3
No 26
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=84.41 E-value=1.9 Score=37.05 Aligned_cols=67 Identities=15% Similarity=0.220 Sum_probs=41.7
Q ss_pred eeEEeccCCCHH---H-HHHHHhcCCC-CCCCcEEEEEcCCh---------HHHHhcCCCceEEcCCCChHHHHHHHHHh
Q 048215 225 VLIVFDDVTCFS---Q-LESIIGSLDW-LMPVSRTIITTRNK---------QVLRNWGVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 225 ~LlVLDdv~~~~---~-~~~l~~~~~~-~~~gsrIIiTTR~~---------~v~~~~~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
-+|||||+.... . .+.+...+.. ...+.++|+||+.. .+...+.....+++++++.++...++...
T Consensus 92 ~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~ 171 (226)
T TIGR03420 92 DLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSR 171 (226)
T ss_pred CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHH
Confidence 489999997542 2 2333332221 12345888988742 23333333467899999999999988765
Q ss_pred h
Q 048215 291 A 291 (305)
Q Consensus 291 A 291 (305)
+
T Consensus 172 ~ 172 (226)
T TIGR03420 172 A 172 (226)
T ss_pred H
Confidence 4
No 27
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=83.66 E-value=1.7 Score=39.36 Aligned_cols=120 Identities=16% Similarity=0.138 Sum_probs=67.6
Q ss_pred CCcccccchhhhHHHhhccC------CCCceEeCC-C-------cccccccc-----------cchhhhhhhh--cCCce
Q 048215 173 SQLVGVESRVEEIESLLSVE------SKDVYALGF-G-------ASVDENAI-----------PGNDLNSRRL--SCMKV 225 (305)
Q Consensus 173 ~~~vG~~~~~~~l~~~L~~~------~~~v~ivGi-G-------~~v~e~~~-----------~~~~~l~~~l--~~kr~ 225 (305)
.+++|++..++.|..++... ...+-+.|. | ..+..... .....+...+ .+...
T Consensus 4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~ 83 (305)
T TIGR00635 4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAAILTNLEEGD 83 (305)
T ss_pred HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcCchhHHHHHHhcccCC
Confidence 56899999999988887631 223778899 7 11111100 0111122211 13457
Q ss_pred eEEeccCCCH--HHHHHHHhcCC-------------------CCCCCcEEEEEcCChHHHHhc--CCCceEEcCCCChHH
Q 048215 226 LIVFDDVTCF--SQLESIIGSLD-------------------WLMPVSRTIITTRNKQVLRNW--GVRKICEMEALEYHH 282 (305)
Q Consensus 226 LlVLDdv~~~--~~~~~l~~~~~-------------------~~~~gsrIIiTTR~~~v~~~~--~~~~~~~v~~L~~~e 282 (305)
+|++|++... .+.+.+...+. ...+.+-|..||+...+.... .....+.+++++.++
T Consensus 84 vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e 163 (305)
T TIGR00635 84 VLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEE 163 (305)
T ss_pred EEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEEeCCCCHHH
Confidence 8899998742 33333322111 112345566677765443321 113467899999999
Q ss_pred HHHHHHHhhc
Q 048215 283 ALELFSRHAF 292 (305)
Q Consensus 283 a~~Lf~~~Af 292 (305)
..+++.+.|-
T Consensus 164 ~~~il~~~~~ 173 (305)
T TIGR00635 164 LAEIVSRSAG 173 (305)
T ss_pred HHHHHHHHHH
Confidence 9999998764
No 28
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=83.57 E-value=3.1 Score=32.09 Aligned_cols=42 Identities=17% Similarity=0.214 Sum_probs=25.8
Q ss_pred cCCceeEEeccCCCH--HH---HHHHHhcCCCC---CCCcEEEEEcCChH
Q 048215 221 SCMKVLIVFDDVTCF--SQ---LESIIGSLDWL---MPVSRTIITTRNKQ 262 (305)
Q Consensus 221 ~~kr~LlVLDdv~~~--~~---~~~l~~~~~~~---~~gsrIIiTTR~~~ 262 (305)
..+..+|++||++.. .. +..+....... ..+.+||+||....
T Consensus 82 ~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~ 131 (151)
T cd00009 82 KAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL 131 (151)
T ss_pred cCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence 456789999999853 22 22222222221 36788888887654
No 29
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=83.38 E-value=1.2 Score=39.24 Aligned_cols=81 Identities=22% Similarity=0.200 Sum_probs=59.1
Q ss_pred CCCCcccEEecCCcCcCCcchHHHHHHHHh--cCCceeEEeCC----CCCCCcchHHHHHHH--HhcCcEEEEeecCccc
Q 048215 3 SSTKKYDVFVSFRGEDTLDDFTSHLYSALS--RQNIQTFIDDQ----LNRGYEISESLVKAI--KASAISVIIFSEDYAS 74 (305)
Q Consensus 3 s~~~~~dVFis~~~~D~~~~f~~~L~~~L~--~~gi~~f~d~~----~~~g~~~~~~i~~ai--~~s~~~ivv~S~~y~~ 74 (305)
+.+..|||=+||.|+- ++.+.....+++ ..-+..|.|.+ +-+|+ + +.++.-+ ..|++.+|....+|..
T Consensus 173 ~~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L-~~~L~~~Y~~rC~~~~VF~~~~Y~~ 248 (329)
T COG4916 173 SSEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-L-VSTLDPGYDIRCVVTTVFNTGSYIC 248 (329)
T ss_pred ccccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCcc-H-HHhcccccCceEEEEEEEeCCceEE
Confidence 4567899999999997 779999999998 34466788762 33332 2 2333333 3688889999999999
Q ss_pred chhhHHHHHHHHH
Q 048215 75 SRWCLDELAEILE 87 (305)
Q Consensus 75 S~~cl~EL~~i~e 87 (305)
-.||--|-..+-+
T Consensus 249 K~~c~~E~~~~r~ 261 (329)
T COG4916 249 KSTCHIEGLEGRL 261 (329)
T ss_pred eeeeccchhhccc
Confidence 9999877655443
No 30
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=83.16 E-value=5.2 Score=40.75 Aligned_cols=69 Identities=10% Similarity=0.111 Sum_probs=41.7
Q ss_pred CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhc-CCCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRNK-QVLRNW-GVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+++-++|+|++... .....|...+..-...+++|++|.+. .+.... +.-..+.++.++.++....+.+.
T Consensus 118 gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~I 190 (709)
T PRK08691 118 GKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHV 190 (709)
T ss_pred CCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHH
Confidence 45668999999854 34566666665545567777776544 222211 11135677788888776666543
No 31
>PLN03025 replication factor C subunit; Provisional
Probab=83.11 E-value=8.1 Score=35.40 Aligned_cols=67 Identities=7% Similarity=0.191 Sum_probs=45.0
Q ss_pred CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCCh-H----HHHhcCCCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRNK-Q----VLRNWGVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~~-~----v~~~~~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
++.-+++||+++.. .....|...+....+.+++|++|... . +...| ..+++++++.++....+.+.|
T Consensus 98 ~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc---~~i~f~~l~~~~l~~~L~~i~ 171 (319)
T PLN03025 98 GRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRC---AIVRFSRLSDQEILGRLMKVV 171 (319)
T ss_pred CCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhh---hcccCCCCCHHHHHHHHHHHH
Confidence 34668999999843 44555655555556678887777543 2 22222 478899999999888877655
No 32
>PRK08727 hypothetical protein; Validated
Probab=81.85 E-value=2.8 Score=36.65 Aligned_cols=70 Identities=10% Similarity=0.099 Sum_probs=45.4
Q ss_pred ceeEEeccCCCH---HHHH-HHHhcCCC-CCCCcEEEEEcCC---------hHHHHhcCCCceEEcCCCChHHHHHHHHH
Q 048215 224 KVLIVFDDVTCF---SQLE-SIIGSLDW-LMPVSRTIITTRN---------KQVLRNWGVRKICEMEALEYHHALELFSR 289 (305)
Q Consensus 224 r~LlVLDdv~~~---~~~~-~l~~~~~~-~~~gsrIIiTTR~---------~~v~~~~~~~~~~~v~~L~~~ea~~Lf~~ 289 (305)
.-+|||||+... ..|. .+...+.. ..+|..||+||+. +++...+.....+++++++.++-.+++.+
T Consensus 94 ~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~ 173 (233)
T PRK08727 94 RSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRE 173 (233)
T ss_pred CCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHH
Confidence 458999999732 2232 22221111 1246779999974 34444443346889999999999999999
Q ss_pred hhcC
Q 048215 290 HAFK 293 (305)
Q Consensus 290 ~Af~ 293 (305)
+|..
T Consensus 174 ~a~~ 177 (233)
T PRK08727 174 RAQR 177 (233)
T ss_pred HHHH
Confidence 8764
No 33
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=81.54 E-value=1.4 Score=37.86 Aligned_cols=51 Identities=22% Similarity=0.249 Sum_probs=32.1
Q ss_pred CceeEEeccCC---CHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhcCCCceEEc
Q 048215 223 MKVLIVFDDVT---CFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNWGVRKICEM 275 (305)
Q Consensus 223 kr~LlVLDdv~---~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~~~~~~~~v 275 (305)
.--++|||||+ +......+...+......+.+||||.++.++..+ +..|.|
T Consensus 158 ~~p~~ilDEvd~~LD~~~~~~l~~~l~~~~~~~Q~ii~Th~~~~~~~a--~~~~~v 211 (220)
T PF02463_consen 158 PSPFLILDEVDAALDEQNRKRLADLLKELSKQSQFIITTHNPEMFEDA--DKLIGV 211 (220)
T ss_dssp --SEEEEESTTTTS-HHHHHHHHHHHHHHTTTSEEEEE-S-HHHHTT---SEEEEE
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccc--cccccc
Confidence 34578999998 3344555555555566779999999999988875 344444
No 34
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=80.57 E-value=4.9 Score=36.97 Aligned_cols=122 Identities=15% Similarity=0.126 Sum_probs=68.1
Q ss_pred CCCcccccchhhhHHHhhcc-----C-CCCceEeCC-C-------cccccc----cc-------cchhhhhhhhc--CCc
Q 048215 172 KSQLVGVESRVEEIESLLSV-----E-SKDVYALGF-G-------ASVDEN----AI-------PGNDLNSRRLS--CMK 224 (305)
Q Consensus 172 ~~~~vG~~~~~~~l~~~L~~-----~-~~~v~ivGi-G-------~~v~e~----~~-------~~~~~l~~~l~--~kr 224 (305)
..+++|++..++.+..++.. . ...+.+.|. | ..+.+. +. +....+...+. ...
T Consensus 24 ~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~ 103 (328)
T PRK00080 24 LDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDLAAILTNLEEG 103 (328)
T ss_pred HHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccChHHHHHHHHhcccC
Confidence 37799999999998877753 1 123888999 7 111100 00 11112222221 345
Q ss_pred eeEEeccCCCH--HHHHHHHhcCCC-------------------CCCCcEEEEEcCChHHHHhc--CCCceEEcCCCChH
Q 048215 225 VLIVFDDVTCF--SQLESIIGSLDW-------------------LMPVSRTIITTRNKQVLRNW--GVRKICEMEALEYH 281 (305)
Q Consensus 225 ~LlVLDdv~~~--~~~~~l~~~~~~-------------------~~~gsrIIiTTR~~~v~~~~--~~~~~~~v~~L~~~ 281 (305)
-+|++|++... ...+.+...+.. ..+.+-|..||+...+...+ .....+++++++.+
T Consensus 104 ~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~ 183 (328)
T PRK00080 104 DVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVE 183 (328)
T ss_pred CEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCeeeecCCCCHH
Confidence 68899998743 232322221110 11245566677754433221 11346899999999
Q ss_pred HHHHHHHHhhcC
Q 048215 282 HALELFSRHAFK 293 (305)
Q Consensus 282 ea~~Lf~~~Af~ 293 (305)
+..+++.+.+-.
T Consensus 184 e~~~il~~~~~~ 195 (328)
T PRK00080 184 ELEKIVKRSARI 195 (328)
T ss_pred HHHHHHHHHHHH
Confidence 999999987644
No 35
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=80.23 E-value=12 Score=37.96 Aligned_cols=70 Identities=9% Similarity=0.041 Sum_probs=47.3
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCChH-HHHh-cCCCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRNKQ-VLRN-WGVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~~~-v~~~-~~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+++-++|+|+|.. ....+.|...+..-..+.++|++|.+.. +... ...-..+++++|+.++..+.+.+.+
T Consensus 117 gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il 190 (702)
T PRK14960 117 GRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAIL 190 (702)
T ss_pred CCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHH
Confidence 4566889999974 4567777777766566778888776642 2211 1112578999999988877776544
No 36
>PRK04841 transcriptional regulator MalT; Provisional
Probab=78.82 E-value=4.6 Score=42.32 Aligned_cols=69 Identities=17% Similarity=0.161 Sum_probs=42.9
Q ss_pred CCceeEEeccCCCH---HHHHHHHhcCCCCCCCcEEEEEcCChHHH---HhcCCCceEEcC----CCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVTCF---SQLESIIGSLDWLMPVSRTIITTRNKQVL---RNWGVRKICEME----ALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~~~---~~~~~l~~~~~~~~~gsrIIiTTR~~~v~---~~~~~~~~~~v~----~L~~~ea~~Lf~~~ 290 (305)
..+++|||||+... ...+.+...+....++-++|||||...-+ ...-.....++. +|+.+|+.+||...
T Consensus 120 ~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~ 198 (903)
T PRK04841 120 HQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQR 198 (903)
T ss_pred CCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhc
Confidence 56899999999642 22233333333345677888999984211 111112345555 89999999999754
No 37
>PRK08084 DNA replication initiation factor; Provisional
Probab=78.79 E-value=4.2 Score=35.60 Aligned_cols=69 Identities=17% Similarity=0.264 Sum_probs=44.7
Q ss_pred eeEEeccCCCH---HHHHHHH-hcCCCC-CCC-cEEEEEcCCh---------HHHHhcCCCceEEcCCCChHHHHHHHHH
Q 048215 225 VLIVFDDVTCF---SQLESII-GSLDWL-MPV-SRTIITTRNK---------QVLRNWGVRKICEMEALEYHHALELFSR 289 (305)
Q Consensus 225 ~LlVLDdv~~~---~~~~~l~-~~~~~~-~~g-srIIiTTR~~---------~v~~~~~~~~~~~v~~L~~~ea~~Lf~~ 289 (305)
-+|+|||+... .+|+... ..+... ..| .++|+||+.. ++...+....+++++++++++-.+++.+
T Consensus 99 dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~ 178 (235)
T PRK08084 99 SLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQL 178 (235)
T ss_pred CEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHH
Confidence 47899999643 3343221 111111 134 4799999754 5555565567899999999999999888
Q ss_pred hhcC
Q 048215 290 HAFK 293 (305)
Q Consensus 290 ~Af~ 293 (305)
+|-.
T Consensus 179 ~a~~ 182 (235)
T PRK08084 179 RARL 182 (235)
T ss_pred HHHH
Confidence 6643
No 38
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=77.45 E-value=8.7 Score=35.08 Aligned_cols=70 Identities=11% Similarity=0.121 Sum_probs=48.8
Q ss_pred cCCceeEEec-cCCCHHHHHHHHhcCCCCCCCcEEEEEcCChHHH-HhcC-CCceEEcCCCChHHHHHHHHHh
Q 048215 221 SCMKVLIVFD-DVTCFSQLESIIGSLDWLMPVSRTIITTRNKQVL-RNWG-VRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 221 ~~kr~LlVLD-dv~~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~-~~~~-~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
.++|++||-| |..+...++.|...+..-.+++.+|++|.+.+.+ .... --..+++++++.++....+.+.
T Consensus 92 ~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~l~~~ 164 (313)
T PRK05564 92 GDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKFISYK 164 (313)
T ss_pred CCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHHHHHHHHH
Confidence 3455555544 4557788999999998888899999998776433 2111 1257889999999987766543
No 39
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=76.96 E-value=7.8 Score=38.12 Aligned_cols=73 Identities=14% Similarity=0.169 Sum_probs=51.9
Q ss_pred hcCCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEE-EEcCChHHHHhcC-CCceEEcCCCChHHHHHHHHHhhc
Q 048215 220 LSCMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTI-ITTRNKQVLRNWG-VRKICEMEALEYHHALELFSRHAF 292 (305)
Q Consensus 220 l~~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrII-iTTR~~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~Af 292 (305)
+.+++-++|+|+++. ...++.|...+....+.+.+| .||+...+..... .-..+++++++.++....+.+.+-
T Consensus 125 ~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~ 201 (507)
T PRK06645 125 LQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITK 201 (507)
T ss_pred ccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHH
Confidence 345677899999985 466888887777666677765 4555555554332 235789999999999988887664
No 40
>PRK06620 hypothetical protein; Validated
Probab=75.38 E-value=6.6 Score=33.90 Aligned_cols=68 Identities=7% Similarity=0.089 Sum_probs=43.1
Q ss_pred ceeEEeccCCCHHHHHHHHhcCCCC-CCCcEEEEEcCCh-------HHHHhcCCCceEEcCCCChHHHHHHHHHhhc
Q 048215 224 KVLIVFDDVTCFSQLESIIGSLDWL-MPVSRTIITTRNK-------QVLRNWGVRKICEMEALEYHHALELFSRHAF 292 (305)
Q Consensus 224 r~LlVLDdv~~~~~~~~l~~~~~~~-~~gsrIIiTTR~~-------~v~~~~~~~~~~~v~~L~~~ea~~Lf~~~Af 292 (305)
.-+|++|||....+ ..+...++.. .+|..||+|++.. ++.+.+...-+++++++++++-..+..+.+-
T Consensus 86 ~d~lliDdi~~~~~-~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~ 161 (214)
T PRK06620 86 YNAFIIEDIENWQE-PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFS 161 (214)
T ss_pred CCEEEEeccccchH-HHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHH
Confidence 45788999974332 1222211111 3577899998732 3444454456899999999998888877654
No 41
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=75.33 E-value=12 Score=31.12 Aligned_cols=69 Identities=13% Similarity=0.195 Sum_probs=48.4
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhc-CCCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRNK-QVLRNW-GVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+.+-++|+|++.. ...++.|...+....+.+.+|++|++. .+.... ..-..+++.+++.++..+.+.+.
T Consensus 95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~ 167 (188)
T TIGR00678 95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ 167 (188)
T ss_pred CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc
Confidence 4566888999874 455777877777766777888777654 222222 12358899999999988887765
No 42
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.25 E-value=25 Score=35.55 Aligned_cols=70 Identities=10% Similarity=0.113 Sum_probs=46.7
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhc-CCCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNW-GVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
++.-++|||+|. +...++.|...+..-...+++|++|.+ ..+.... .--..++++.|+.++..+.+.+.+
T Consensus 123 g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~ 196 (618)
T PRK14951 123 GRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVL 196 (618)
T ss_pred CCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHhceeeecCCCCHHHHHHHHHHHH
Confidence 345578999998 456688888777665566676665543 4443322 113678999999988877776544
No 43
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=73.25 E-value=6.9 Score=41.08 Aligned_cols=33 Identities=24% Similarity=0.371 Sum_probs=25.2
Q ss_pred CCCCCcccccchhhhHHHhhcc-----CCCC-ceEeCC-C
Q 048215 170 DNKSQLVGVESRVEEIESLLSV-----ESKD-VYALGF-G 202 (305)
Q Consensus 170 ~~~~~~vG~~~~~~~l~~~L~~-----~~~~-v~ivGi-G 202 (305)
..++.++||+.++++|...|.. .+.. +-|.|. |
T Consensus 752 YVPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PG 791 (1164)
T PTZ00112 752 VVPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPG 791 (1164)
T ss_pred cCCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCC
Confidence 5678999999999999887753 2223 468999 7
No 44
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=73.11 E-value=10 Score=35.96 Aligned_cols=70 Identities=19% Similarity=0.280 Sum_probs=49.9
Q ss_pred hhhcCCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEE--EcCChHHHHh---cCCCceEEcCCCChHHHHHHHHHh
Q 048215 218 RRLSCMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTII--TTRNKQVLRN---WGVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 218 ~~l~~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIi--TTR~~~v~~~---~~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
.+..+++.+|.+|.|. +..|-+.+.+.. -+|.-|+| ||.|..-.-. ..-..+|++++|+.++-.+++.+-
T Consensus 99 ~~~~gr~tiLflDEIHRfnK~QQD~lLp~v---E~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra 175 (436)
T COG2256 99 NRLLGRRTILFLDEIHRFNKAQQDALLPHV---ENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRA 175 (436)
T ss_pred HHhcCCceEEEEehhhhcChhhhhhhhhhh---cCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHH
Confidence 3445889999999996 667778776543 46776665 7776632211 112468999999999999999883
No 45
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=73.01 E-value=26 Score=31.60 Aligned_cols=120 Identities=13% Similarity=0.169 Sum_probs=69.5
Q ss_pred CCcccccchhhhHHHhhccCCC-CceEeCC-C-------ccccc-----ccc---------c--ch----hhhhhhh---
Q 048215 173 SQLVGVESRVEEIESLLSVESK-DVYALGF-G-------ASVDE-----NAI---------P--GN----DLNSRRL--- 220 (305)
Q Consensus 173 ~~~vG~~~~~~~l~~~L~~~~~-~v~ivGi-G-------~~v~e-----~~~---------~--~~----~~l~~~l--- 220 (305)
.+++|.+..++.+..++..+.. .+.+.|- | ..+.. .+. + .. ..+....
T Consensus 17 ~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~ 96 (319)
T PRK00440 17 DEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGIDVIRNKIKEFARTA 96 (319)
T ss_pred HHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchHHHHHHHHHHHhcC
Confidence 5688999888888888875433 3777888 6 01100 000 0 11 1222111
Q ss_pred --c-CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhc-CCCceEEcCCCChHHHHHHHHHhhc
Q 048215 221 --S-CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRNK-QVLRNW-GVRKICEMEALEYHHALELFSRHAF 292 (305)
Q Consensus 221 --~-~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~Af 292 (305)
. ..+-+|++|++... ...+.|...+....+.+++|+++... .+.... .....+++++++.++....+...+-
T Consensus 97 ~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~~~l~~~~~ 175 (319)
T PRK00440 97 PVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAE 175 (319)
T ss_pred CCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHHHHHHHHHH
Confidence 1 23568999998743 44566666665556667888777432 221111 1124688999999998887776653
No 46
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=72.32 E-value=19 Score=37.88 Aligned_cols=128 Identities=12% Similarity=0.185 Sum_probs=73.9
Q ss_pred hhhhhhhhhhhhccccccCCCCCCCCcccccchhhhHHHhhccCC-CCceEeCC-C-----------ccc-----ccccc
Q 048215 149 LINEVVNNILKRLLEEVFRPRDNKSQLVGVESRVEEIESLLSVES-KDVYALGF-G-----------ASV-----DENAI 210 (305)
Q Consensus 149 ~I~~Iv~~v~~~l~~~~~s~~~~~~~~vG~~~~~~~l~~~L~~~~-~~v~ivGi-G-----------~~v-----~e~~~ 210 (305)
.+++...+...+..+..+ +.++||+..+..+.+.|.... +++.++|- | ..+ -....
T Consensus 169 ~l~~~~~~L~~~~r~~~l------d~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~ 242 (852)
T TIGR03345 169 ALDQYTTDLTAQAREGKI------DPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALR 242 (852)
T ss_pred hHHHHhhhHHHHhcCCCC------CcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCcccc
Confidence 455555555555444333 679999999999999887643 45888998 7 111 10000
Q ss_pred --------------------cchhhhhhhhc-----CCceeEEeccCCCHH-------HHH---HHHhcCCCCCCC-cEE
Q 048215 211 --------------------PGNDLNSRRLS-----CMKVLIVFDDVTCFS-------QLE---SIIGSLDWLMPV-SRT 254 (305)
Q Consensus 211 --------------------~~~~~l~~~l~-----~kr~LlVLDdv~~~~-------~~~---~l~~~~~~~~~g-srI 254 (305)
+....+++.+. +.+++|++|++.... +-+ .|.+. ...| =++
T Consensus 243 ~~~i~~l~l~~l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~---l~~G~l~~ 319 (852)
T TIGR03345 243 NVRLLSLDLGLLQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPA---LARGELRT 319 (852)
T ss_pred CCeEEEeehhhhhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHH---hhCCCeEE
Confidence 01123332222 468999999986431 112 23222 2234 356
Q ss_pred EEEcCChHH----------HHhcCCCceEEcCCCChHHHHHHHH
Q 048215 255 IITTRNKQV----------LRNWGVRKICEMEALEYHHALELFS 288 (305)
Q Consensus 255 IiTTR~~~v----------~~~~~~~~~~~v~~L~~~ea~~Lf~ 288 (305)
|-+|...+. ...+ ..+.|++++.++..+++.
T Consensus 320 IgaTT~~e~~~~~~~d~AL~rRf---~~i~v~eps~~~~~~iL~ 360 (852)
T TIGR03345 320 IAATTWAEYKKYFEKDPALTRRF---QVVKVEEPDEETAIRMLR 360 (852)
T ss_pred EEecCHHHHhhhhhccHHHHHhC---eEEEeCCCCHHHHHHHHH
Confidence 666654322 2222 478999999999999974
No 47
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=72.32 E-value=25 Score=30.89 Aligned_cols=70 Identities=11% Similarity=0.215 Sum_probs=42.2
Q ss_pred cCCceeEEeccCCCH--HHHHHHHhcCCCC---CCCcEEEEEcCChHHHHhcC----------CCceEEcCCCChHHHHH
Q 048215 221 SCMKVLIVFDDVTCF--SQLESIIGSLDWL---MPVSRTIITTRNKQVLRNWG----------VRKICEMEALEYHHALE 285 (305)
Q Consensus 221 ~~kr~LlVLDdv~~~--~~~~~l~~~~~~~---~~gsrIIiTTR~~~v~~~~~----------~~~~~~v~~L~~~ea~~ 285 (305)
.+++.+||+||++.. ..++.+....... .....|++|... .....+. ....+++++|+.+|..+
T Consensus 121 ~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~-~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~ 199 (269)
T TIGR03015 121 AGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQP-EFRETLQSPQLQQLRQRIIASCHLGPLDREETRE 199 (269)
T ss_pred CCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCH-HHHHHHcCchhHHHHhheeeeeeCCCCCHHHHHH
Confidence 577899999999864 4566554322211 122345555543 2222111 13467899999999998
Q ss_pred HHHHhh
Q 048215 286 LFSRHA 291 (305)
Q Consensus 286 Lf~~~A 291 (305)
++...+
T Consensus 200 ~l~~~l 205 (269)
T TIGR03015 200 YIEHRL 205 (269)
T ss_pred HHHHHH
Confidence 887664
No 48
>PRK05642 DNA replication initiation factor; Validated
Probab=72.17 E-value=5.5 Score=34.84 Aligned_cols=69 Identities=14% Similarity=0.266 Sum_probs=43.6
Q ss_pred eEEeccCCCH---HHHHH-HHhcCCCC-CCCcEEEEEcCCh---------HHHHhcCCCceEEcCCCChHHHHHHHHHhh
Q 048215 226 LIVFDDVTCF---SQLES-IIGSLDWL-MPVSRTIITTRNK---------QVLRNWGVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 226 LlVLDdv~~~---~~~~~-l~~~~~~~-~~gsrIIiTTR~~---------~v~~~~~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+||+||+... .+|.. |...++.. .+|.++|+||+.. ++...++...++++++++.++-.+++.++|
T Consensus 100 ~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka 179 (234)
T PRK05642 100 LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRA 179 (234)
T ss_pred EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHH
Confidence 6789999622 34432 32222222 2577899988753 222233334678999999999999999776
Q ss_pred cCC
Q 048215 292 FKQ 294 (305)
Q Consensus 292 f~~ 294 (305)
...
T Consensus 180 ~~~ 182 (234)
T PRK05642 180 SRR 182 (234)
T ss_pred HHc
Confidence 543
No 49
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=72.12 E-value=13 Score=34.86 Aligned_cols=70 Identities=7% Similarity=0.046 Sum_probs=50.3
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCChHH-HHhcC-CCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRNKQV-LRNWG-VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v-~~~~~-~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+.+-++|+||+. +......|...+..-.+++.+|++|.+.+- +.... --..+.+++|+.++..+++....
T Consensus 140 ~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~ 213 (365)
T PRK07471 140 GGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAG 213 (365)
T ss_pred CCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhc
Confidence 456688999997 556677777777665567888888877643 32221 23578999999999999998753
No 50
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.06 E-value=27 Score=34.11 Aligned_cols=71 Identities=11% Similarity=0.136 Sum_probs=45.9
Q ss_pred CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhc-CCCceEEcCCCChHHHHHHHHHhhc
Q 048215 222 CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRN-KQVLRNW-GVRKICEMEALEYHHALELFSRHAF 292 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~Af 292 (305)
+++-++|+|++... .+.+.|...+........+|++|.+ ..+.... ..-..+++++++.++....+.+.+-
T Consensus 116 ~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~ 190 (472)
T PRK14962 116 GKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAE 190 (472)
T ss_pred CCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHH
Confidence 45678999999754 4567777666654455555555544 3333322 1235788999999998887776653
No 51
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.05 E-value=21 Score=37.57 Aligned_cols=70 Identities=9% Similarity=0.043 Sum_probs=49.4
Q ss_pred cCCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhcC-CCceEEcCCCChHHHHHHHHHh
Q 048215 221 SCMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNWG-VRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 221 ~~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
.+++-++|||++. +....+.|...+.......++|++|.+ ..+...+- --..|++++|+.++....+.+.
T Consensus 117 ~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~i 190 (944)
T PRK14949 117 RGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHI 190 (944)
T ss_pred cCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHH
Confidence 3567789999997 457788888877766667776666654 44443211 1267999999999998877663
No 52
>CHL00095 clpC Clp protease ATP binding subunit
Probab=70.04 E-value=19 Score=37.76 Aligned_cols=48 Identities=21% Similarity=0.391 Sum_probs=32.6
Q ss_pred hhhhhhhhhhhhccccccCCCCCCCCcccccchhhhHHHhhccC-CCCceEeCC-C
Q 048215 149 LINEVVNNILKRLLEEVFRPRDNKSQLVGVESRVEEIESLLSVE-SKDVYALGF-G 202 (305)
Q Consensus 149 ~I~~Iv~~v~~~l~~~~~s~~~~~~~~vG~~~~~~~l~~~L~~~-~~~v~ivGi-G 202 (305)
..++...++...-... ..+.++||+.+++.+.+.|... .+++.++|- |
T Consensus 161 ~l~~~~~~l~~~a~~~------~~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pG 210 (821)
T CHL00095 161 TLEEFGTNLTKEAIDG------NLDPVIGREKEIERVIQILGRRTKNNPILIGEPG 210 (821)
T ss_pred HHHHHHHHHHHHHHcC------CCCCCCCcHHHHHHHHHHHcccccCCeEEECCCC
Confidence 4555555554442222 2356899999999999999764 345889999 7
No 53
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=69.47 E-value=18 Score=37.57 Aligned_cols=30 Identities=23% Similarity=0.380 Sum_probs=24.9
Q ss_pred CCcccccchhhhHHHhhccC-CCCceEeCC-C
Q 048215 173 SQLVGVESRVEEIESLLSVE-SKDVYALGF-G 202 (305)
Q Consensus 173 ~~~vG~~~~~~~l~~~L~~~-~~~v~ivGi-G 202 (305)
+.++||+.++..+.+.|... ..++.++|- |
T Consensus 186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppG 217 (758)
T PRK11034 186 DPLIGREKELERAIQVLCRRRKNNPLLVGESG 217 (758)
T ss_pred CcCcCCCHHHHHHHHHHhccCCCCeEEECCCC
Confidence 56999999999999988764 445888998 7
No 54
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=69.21 E-value=18 Score=37.84 Aligned_cols=68 Identities=7% Similarity=0.062 Sum_probs=46.2
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhcC-CCceEEcCCCChHHHHHHHHH
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNWG-VRKICEMEALEYHHALELFSR 289 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~ 289 (305)
+++=++|||++. +...++.|...+..-...+.+|++|.+ ..++..+. --..|++..++.++..+.+.+
T Consensus 119 ~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~ 190 (824)
T PRK07764 119 SRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLER 190 (824)
T ss_pred CCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHH
Confidence 455578899997 446678888888777777776665544 44554332 236788999988887766655
No 55
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=68.54 E-value=5.5 Score=34.47 Aligned_cols=79 Identities=13% Similarity=0.215 Sum_probs=45.4
Q ss_pred hhhhhhhcCCceeEEeccCCCH---HHHH-HHHhcCCCC-CCCcEEEEEcCCh---------HHHHhcCCCceEEcCCCC
Q 048215 214 DLNSRRLSCMKVLIVFDDVTCF---SQLE-SIIGSLDWL-MPVSRTIITTRNK---------QVLRNWGVRKICEMEALE 279 (305)
Q Consensus 214 ~~l~~~l~~kr~LlVLDdv~~~---~~~~-~l~~~~~~~-~~gsrIIiTTR~~---------~v~~~~~~~~~~~v~~L~ 279 (305)
..+++.+. .-=+|+||||... ..|. .+...+... ..|.+||+|++.. ++.+.+...-.+++++++
T Consensus 89 ~~~~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd 167 (219)
T PF00308_consen 89 EEFKDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPD 167 (219)
T ss_dssp HHHHHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----
T ss_pred hhhhhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCC
Confidence 34455555 3456888999742 2232 222222221 3577999999443 333444445689999999
Q ss_pred hHHHHHHHHHhhcC
Q 048215 280 YHHALELFSRHAFK 293 (305)
Q Consensus 280 ~~ea~~Lf~~~Af~ 293 (305)
+++-.+++.++|-.
T Consensus 168 ~~~r~~il~~~a~~ 181 (219)
T PF00308_consen 168 DEDRRRILQKKAKE 181 (219)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999988754
No 56
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=68.53 E-value=29 Score=31.41 Aligned_cols=117 Identities=12% Similarity=0.137 Sum_probs=63.8
Q ss_pred CCCcccccchhhhHHHhhccCCC-C-ceEeCC-C-------cccccc----cc-----c-chhhhhhhh---------cC
Q 048215 172 KSQLVGVESRVEEIESLLSVESK-D-VYALGF-G-------ASVDEN----AI-----P-GNDLNSRRL---------SC 222 (305)
Q Consensus 172 ~~~~vG~~~~~~~l~~~L~~~~~-~-v~ivGi-G-------~~v~e~----~~-----~-~~~~l~~~l---------~~ 222 (305)
.++++|.+...+.+.+++..+.- . +-+.|- | ..+.+. +- + ....+++.+ ..
T Consensus 20 ~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~~~~~~i~~~l~~~~~~~~~~~ 99 (316)
T PHA02544 20 IDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSDCRIDFVRNRLTRFASTVSLTG 99 (316)
T ss_pred HHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCcccHHHHHHHHHHHHHhhcccC
Confidence 47789999888888888875432 2 344688 6 111100 00 0 111122211 13
Q ss_pred CceeEEeccCCCH---HHHHHHHhcCCCCCCCcEEEEEcCChHHHH-hc-CCCceEEcCCCChHHHHHHHH
Q 048215 223 MKVLIVFDDVTCF---SQLESIIGSLDWLMPVSRTIITTRNKQVLR-NW-GVRKICEMEALEYHHALELFS 288 (305)
Q Consensus 223 kr~LlVLDdv~~~---~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~-~~-~~~~~~~v~~L~~~ea~~Lf~ 288 (305)
.+-+||+||+... .....|...+.....++++|+||....-+. .. ..-..+.++..+.++..+++.
T Consensus 100 ~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~p~~~~~~~il~ 170 (316)
T PHA02544 100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMK 170 (316)
T ss_pred CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEeCCCCHHHHHHHHH
Confidence 4567889999744 233444443444557789999987543221 11 111356777777777765544
No 57
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.36 E-value=55 Score=30.43 Aligned_cols=72 Identities=13% Similarity=0.198 Sum_probs=44.7
Q ss_pred CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEc-CChHHHHhc-CCCceEEcCCCChHHHHHHHHHhhcC
Q 048215 222 CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITT-RNKQVLRNW-GVRKICEMEALEYHHALELFSRHAFK 293 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTT-R~~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~Af~ 293 (305)
+++-++++|++... ..++.+...+....+.+.+|++| ....+.... .....++.++++.++....+...|-.
T Consensus 107 ~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~ 182 (367)
T PRK14970 107 GKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGIAVK 182 (367)
T ss_pred CCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCccHHHHHHHHHHHHHH
Confidence 45557999998743 44677766555444556666555 333333221 12347889999999888877776543
No 58
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=68.20 E-value=22 Score=33.82 Aligned_cols=71 Identities=14% Similarity=0.201 Sum_probs=43.9
Q ss_pred cCCceeEEeccCCCH-------------H---HHHHHHhcCCCC--CCCcEEEEEcCChHHHHh-----cCCCceEEcCC
Q 048215 221 SCMKVLIVFDDVTCF-------------S---QLESIIGSLDWL--MPVSRTIITTRNKQVLRN-----WGVRKICEMEA 277 (305)
Q Consensus 221 ~~kr~LlVLDdv~~~-------------~---~~~~l~~~~~~~--~~gsrIIiTTR~~~v~~~-----~~~~~~~~v~~ 277 (305)
.....+|+||+++.. . .+..+...+..+ ..+-.||.||...+.+.. ...+..++++.
T Consensus 236 ~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~ 315 (398)
T PTZ00454 236 ENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPL 315 (398)
T ss_pred hcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCC
Confidence 356789999998632 1 122222222222 245678888886655432 12366789999
Q ss_pred CChHHHHHHHHHhh
Q 048215 278 LEYHHALELFSRHA 291 (305)
Q Consensus 278 L~~~ea~~Lf~~~A 291 (305)
.+.++-.++|..+.
T Consensus 316 P~~~~R~~Il~~~~ 329 (398)
T PTZ00454 316 PDRRQKRLIFQTIT 329 (398)
T ss_pred cCHHHHHHHHHHHH
Confidence 99998888887654
No 59
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=67.51 E-value=16 Score=34.80 Aligned_cols=63 Identities=22% Similarity=0.233 Sum_probs=50.8
Q ss_pred CceeEEeccCCCHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHh------cCCCceEEcCCCChHHHHHH
Q 048215 223 MKVLIVFDDVTCFSQLESIIGSLDWLMPVSRTIITTRNKQVLRN------WGVRKICEMEALEYHHALEL 286 (305)
Q Consensus 223 kr~LlVLDdv~~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~------~~~~~~~~v~~L~~~ea~~L 286 (305)
++.+|+||.|.....|......+...++. +|+||+-+..++.. .|-...+++-||+..|-..+
T Consensus 94 ~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~ 162 (398)
T COG1373 94 EKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKL 162 (398)
T ss_pred CCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhh
Confidence 77899999999999998888777777776 99999988766542 24456789999999999763
No 60
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=66.47 E-value=21 Score=35.20 Aligned_cols=72 Identities=10% Similarity=0.033 Sum_probs=49.7
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhcC-CCceEEcCCCChHHHHHHHHHhhcC
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNWG-VRKICEMEALEYHHALELFSRHAFK 293 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~Af~ 293 (305)
+++-++|||+++. ...++.|...+....+.+.+|++|.. ..+...+. ....+++.+++.++..+.+.+.+-.
T Consensus 115 ~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~ 190 (504)
T PRK14963 115 GGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEA 190 (504)
T ss_pred CCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceEEEEecCCCHHHHHHHHHHHHHH
Confidence 4566889999984 35688887777666666676666644 33322221 2357899999999999998876543
No 61
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=66.35 E-value=35 Score=35.94 Aligned_cols=48 Identities=15% Similarity=0.315 Sum_probs=32.8
Q ss_pred hhhhhhhhhhhhccccccCCCCCCCCcccccchhhhHHHhhccCC-CCceEeCC-C
Q 048215 149 LINEVVNNILKRLLEEVFRPRDNKSQLVGVESRVEEIESLLSVES-KDVYALGF-G 202 (305)
Q Consensus 149 ~I~~Iv~~v~~~l~~~~~s~~~~~~~~vG~~~~~~~l~~~L~~~~-~~v~ivGi-G 202 (305)
.+++...+......+..+ +.++||+.++..+++.|.... +.+.++|- |
T Consensus 155 ~l~~~~~~l~~~~~~~~~------~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pG 204 (852)
T TIGR03346 155 ALEKYARDLTERAREGKL------DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPG 204 (852)
T ss_pred HHHHHhhhHHHHhhCCCC------CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCC
Confidence 455555555444443332 569999999999999987643 44778898 7
No 62
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=66.10 E-value=18 Score=33.01 Aligned_cols=69 Identities=13% Similarity=0.107 Sum_probs=43.8
Q ss_pred CceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCChH-HHHhc-CCCceEEcCCCChHHHHHHHHHhh
Q 048215 223 MKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRNKQ-VLRNW-GVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 223 kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~~~-v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
.+-+|||||+... .....|...+....+.+++|+||.+.. +...+ .....+++.+++.++...++.+.+
T Consensus 125 ~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~ 197 (337)
T PRK12402 125 DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIA 197 (337)
T ss_pred CCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchhhcCCceEEEecCCCHHHHHHHHHHHH
Confidence 3458999999743 334555555544556678888875432 22222 112467889999998888887754
No 63
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=64.34 E-value=21 Score=32.19 Aligned_cols=68 Identities=7% Similarity=0.039 Sum_probs=43.4
Q ss_pred ceeEEeccCCC-----------HHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhc--C------CCceEEcCCCChHHHH
Q 048215 224 KVLIVFDDVTC-----------FSQLESIIGSLDWLMPVSRTIITTRNKQVLRNW--G------VRKICEMEALEYHHAL 284 (305)
Q Consensus 224 r~LlVLDdv~~-----------~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~--~------~~~~~~v~~L~~~ea~ 284 (305)
.-+|+||++.. .+.++.|...+.....+-+||.+|-....-... . ....+++++++.+|-.
T Consensus 122 ~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~ 201 (284)
T TIGR02880 122 GGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELL 201 (284)
T ss_pred CcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHH
Confidence 36888999862 233455555555445566777777543221111 1 2457899999999999
Q ss_pred HHHHHhh
Q 048215 285 ELFSRHA 291 (305)
Q Consensus 285 ~Lf~~~A 291 (305)
+|+..++
T Consensus 202 ~I~~~~l 208 (284)
T TIGR02880 202 VIAGLML 208 (284)
T ss_pred HHHHHHH
Confidence 9988764
No 64
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.56 E-value=43 Score=33.04 Aligned_cols=65 Identities=9% Similarity=0.027 Sum_probs=41.4
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhc-CCCceEEcCCCChHHHHHH
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRNK-QVLRNW-GVRKICEMEALEYHHALEL 286 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~-~~~~~~~v~~L~~~ea~~L 286 (305)
++.-++|+|+|.. ....+.|...+....+.+++|++|.+. .+.... .--..+++++++.++....
T Consensus 118 ~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~ 186 (509)
T PRK14958 118 GRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAH 186 (509)
T ss_pred CCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHH
Confidence 4556788999984 466777877777666678777666543 333221 1124677888887765543
No 65
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=63.54 E-value=17 Score=36.77 Aligned_cols=79 Identities=14% Similarity=-0.018 Sum_probs=45.1
Q ss_pred hhhhhhhhcCCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEE--EcCChHHHH-hc-CCCceEEcCCCChHHHHHH
Q 048215 213 NDLNSRRLSCMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTII--TTRNKQVLR-NW-GVRKICEMEALEYHHALEL 286 (305)
Q Consensus 213 ~~~l~~~l~~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIi--TTR~~~v~~-~~-~~~~~~~v~~L~~~ea~~L 286 (305)
+..|.+.+..++++++.|+.|.. ..|+.+...+....+..-+++ ||++...+. .+ ..-..+.+++++.+|.+.+
T Consensus 282 Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~I 361 (615)
T TIGR02903 282 QNKLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALI 361 (615)
T ss_pred HHHHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHH
Confidence 34455556666666665555432 335555544444444444555 666543221 11 1113567899999999999
Q ss_pred HHHhh
Q 048215 287 FSRHA 291 (305)
Q Consensus 287 f~~~A 291 (305)
+.+.+
T Consensus 362 l~~~a 366 (615)
T TIGR02903 362 VLNAA 366 (615)
T ss_pred HHHHH
Confidence 99865
No 66
>PRK04195 replication factor C large subunit; Provisional
Probab=62.73 E-value=11 Score=36.80 Aligned_cols=119 Identities=18% Similarity=0.211 Sum_probs=67.8
Q ss_pred CCCcccccchhhhHHHhhccC-----CCCceEeCC-C-------cccccccc---------c--chhhhhh---------
Q 048215 172 KSQLVGVESRVEEIESLLSVE-----SKDVYALGF-G-------ASVDENAI---------P--GNDLNSR--------- 218 (305)
Q Consensus 172 ~~~~vG~~~~~~~l~~~L~~~-----~~~v~ivGi-G-------~~v~e~~~---------~--~~~~l~~--------- 218 (305)
..+++|.+..++.|.+|+..- ...+-+.|- | ..+..... + ....++.
T Consensus 13 l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~~~~i~~~i~~~~~~~ 92 (482)
T PRK04195 13 LSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIERVAGEAATSG 92 (482)
T ss_pred HHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccccHHHHHHHHHHhhccC
Confidence 367899999999999888642 223788898 7 11111110 0 0111111
Q ss_pred hhc-CCceeEEeccCCCHH------HHHHHHhcCCCCCCCcEEEEEcCChH-HHH-hc-CCCceEEcCCCChHHHHHHHH
Q 048215 219 RLS-CMKVLIVFDDVTCFS------QLESIIGSLDWLMPVSRTIITTRNKQ-VLR-NW-GVRKICEMEALEYHHALELFS 288 (305)
Q Consensus 219 ~l~-~kr~LlVLDdv~~~~------~~~~l~~~~~~~~~gsrIIiTTR~~~-v~~-~~-~~~~~~~v~~L~~~ea~~Lf~ 288 (305)
.+. .++-+||||+++... .+..|...+. .++..||+|+.+.. +.. .. .....+++++++..+....+.
T Consensus 93 sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~~~i~~~L~ 170 (482)
T PRK04195 93 SLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIVPVLK 170 (482)
T ss_pred cccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhHhccceEEEecCCCHHHHHHHHH
Confidence 122 367899999998542 2555554443 23455666664421 111 11 123568889999998888777
Q ss_pred Hhhc
Q 048215 289 RHAF 292 (305)
Q Consensus 289 ~~Af 292 (305)
..+-
T Consensus 171 ~i~~ 174 (482)
T PRK04195 171 RICR 174 (482)
T ss_pred HHHH
Confidence 6654
No 67
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=61.63 E-value=57 Score=33.18 Aligned_cols=69 Identities=9% Similarity=0.100 Sum_probs=47.8
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhc-CCCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNW-GVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+++-++|+|++. +....+.|...+.......++|++|.+ ..+.... .--..|.+++|+.++..+.+.+.
T Consensus 118 g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~i 190 (647)
T PRK07994 118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRQQLEHI 190 (647)
T ss_pred CCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhheEeeCCCCCHHHHHHHHHHH
Confidence 566689999997 456788888777766667776665555 4443321 11367899999999988877654
No 68
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.16 E-value=52 Score=32.18 Aligned_cols=70 Identities=7% Similarity=0.013 Sum_probs=45.9
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhcC-CCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNWG-VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
++.-++|+|++. +...++.|...+........+|++|.. ..+....- --..|.+.+++.++..+.+.+.+
T Consensus 120 g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~ 193 (484)
T PRK14956 120 GKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLC 193 (484)
T ss_pred CCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhhheeeecCCCHHHHHHHHHHHH
Confidence 456689999997 456788888777655556665555543 44433221 12568999999888777666543
No 69
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=60.15 E-value=20 Score=31.75 Aligned_cols=96 Identities=16% Similarity=0.142 Sum_probs=53.5
Q ss_pred CCCCCcccccchhhhHHHh----hcc-CCCCceEeCC-C----ccccc--------------cccc---chhhhhhhhc-
Q 048215 170 DNKSQLVGVESRVEEIESL----LSV-ESKDVYALGF-G----ASVDE--------------NAIP---GNDLNSRRLS- 221 (305)
Q Consensus 170 ~~~~~~vG~~~~~~~l~~~----L~~-~~~~v~ivGi-G----~~v~e--------------~~~~---~~~~l~~~l~- 221 (305)
...++++|.+..++.|.+- +.. ..+++-+.|- | +-|+. ..++ ....|-..|+
T Consensus 24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l~~l~~~l~~ 103 (249)
T PF05673_consen 24 IRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDLPELLDLLRD 103 (249)
T ss_pred CCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccHHHHHHHHhc
Confidence 3457899999999888753 332 3455999999 7 22221 1111 2333444444
Q ss_pred -CCceeEEeccCC---CHHHHHHHHhcCCC----CCCCcEEEEEcCChHHHH
Q 048215 222 -CMKVLIVFDDVT---CFSQLESIIGSLDW----LMPVSRTIITTRNKQVLR 265 (305)
Q Consensus 222 -~kr~LlVLDdv~---~~~~~~~l~~~~~~----~~~gsrIIiTTR~~~v~~ 265 (305)
..||+|.+||+. +....+.|...+.- ....-.|..||--+++..
T Consensus 104 ~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~ 155 (249)
T PF05673_consen 104 RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVP 155 (249)
T ss_pred CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccc
Confidence 359999999995 23334444443332 223334555655555544
No 70
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=58.57 E-value=25 Score=26.67 Aligned_cols=68 Identities=16% Similarity=0.102 Sum_probs=48.4
Q ss_pred cchHHHHHHHHhcCCceeEEeC--CCC-------CCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHHHHHh
Q 048215 21 DDFTSHLYSALSRQNIQTFIDD--QLN-------RGYEISESLVKAIKASAISVIIFSEDYASSRWCLDELAEILECK 89 (305)
Q Consensus 21 ~~f~~~L~~~L~~~gi~~f~d~--~~~-------~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i~e~~ 89 (305)
..+...+.++|+..|+.+|... +.. ..+.|-..-.++|++|++.|+++.... -+.-+.-|+-......
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~alg 89 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYALG 89 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHCC
Confidence 5578899999999999888754 221 223445556778999999999998766 5566777887665543
No 71
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=58.55 E-value=40 Score=31.52 Aligned_cols=70 Identities=7% Similarity=0.122 Sum_probs=48.0
Q ss_pred CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhc-CCCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRNK-QVLRNW-GVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+++-++|+|++... ..++.+...+....+..++|++|.+. .+.... +.-..+++++++.++..+.+...+
T Consensus 118 ~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~ 191 (363)
T PRK14961 118 SRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYIL 191 (363)
T ss_pred CCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHH
Confidence 45568999999854 35777777776666677777777554 333322 123578999999999887776644
No 72
>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=58.45 E-value=11 Score=36.51 Aligned_cols=122 Identities=16% Similarity=0.254 Sum_probs=69.5
Q ss_pred CCCCCcccccchhhhHHHhhccC-----CCCceEeCC-C-------ccccc------------------------ccc--
Q 048215 170 DNKSQLVGVESRVEEIESLLSVE-----SKDVYALGF-G-------ASVDE------------------------NAI-- 210 (305)
Q Consensus 170 ~~~~~~vG~~~~~~~l~~~L~~~-----~~~v~ivGi-G-------~~v~e------------------------~~~-- 210 (305)
..+..++||+.++..+.+++... +..+.|.|- | .++.. .|.
T Consensus 147 ~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI 226 (529)
T KOG2227|consen 147 APPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKI 226 (529)
T ss_pred CCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHH
Confidence 34688999999999999987641 223888898 7 11110 011
Q ss_pred ---------------cchhhhhhhhcCC--ceeEEeccCCCHHH--HHHHHhcCCCC-CCCcEEEEEcCChH------HH
Q 048215 211 ---------------PGNDLNSRRLSCM--KVLIVFDDVTCFSQ--LESIIGSLDWL-MPVSRTIITTRNKQ------VL 264 (305)
Q Consensus 211 ---------------~~~~~l~~~l~~k--r~LlVLDdv~~~~~--~~~l~~~~~~~-~~gsrIIiTTR~~~------v~ 264 (305)
++...+....... -+|+|||.++.... -..|...+.|- -++||+|+.---.. .+
T Consensus 227 ~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~L 306 (529)
T KOG2227|consen 227 FSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFL 306 (529)
T ss_pred HHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHHh
Confidence 1234444444433 58999998874321 11222233443 37888776542221 11
Q ss_pred Hhc----C-CCceEEcCCCChHHHHHHHHHhh
Q 048215 265 RNW----G-VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 265 ~~~----~-~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
..+ + .......++-+.++..++|..+.
T Consensus 307 prL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl 338 (529)
T KOG2227|consen 307 PRLNLDLTIKPKLLVFPPYTKDQIVEILQQRL 338 (529)
T ss_pred hhhhhccCCCCceeeecCCCHHHHHHHHHHHH
Confidence 111 1 23456677888888888887764
No 73
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=58.42 E-value=56 Score=32.09 Aligned_cols=71 Identities=14% Similarity=0.140 Sum_probs=48.2
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcC-ChHHHHhcC-CCceEEcCCCChHHHHHHHHHhhc
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTR-NKQVLRNWG-VRKICEMEALEYHHALELFSRHAF 292 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR-~~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~Af 292 (305)
+++=++|+|++.. ....+.|...+..-.+.+++|++|. ...+..... .-..+++++++.++..+.+.+.+-
T Consensus 115 ~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~ 189 (491)
T PRK14964 115 SKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAK 189 (491)
T ss_pred CCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHH
Confidence 4566799999974 4567788877776667777766554 444443321 235788999998888777776553
No 74
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=56.84 E-value=7.8 Score=31.90 Aligned_cols=46 Identities=15% Similarity=0.211 Sum_probs=29.3
Q ss_pred hhhhhc-CCceeEEeccCCCH-----HHHHHHHhcCCCCCCCcEEEEEcCCh
Q 048215 216 NSRRLS-CMKVLIVFDDVTCF-----SQLESIIGSLDWLMPVSRTIITTRNK 261 (305)
Q Consensus 216 l~~~l~-~kr~LlVLDdv~~~-----~~~~~l~~~~~~~~~gsrIIiTTR~~ 261 (305)
.++.+. +.-=|||||.+.-. -..+.+...+....++.-||+|.|+.
T Consensus 87 a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~ 138 (159)
T cd00561 87 AKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA 138 (159)
T ss_pred HHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence 444443 45679999998633 22344444444455677899999995
No 75
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=56.07 E-value=40 Score=30.95 Aligned_cols=70 Identities=10% Similarity=0.135 Sum_probs=46.3
Q ss_pred CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCChH-HHHhc-CCCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRNKQ-VLRNW-GVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~~~-v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+++-++|+|++... ...+.+...+....+.+.+|++|.+.+ +...+ ..-..+++++++.++..+.+...+
T Consensus 116 ~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~ 189 (355)
T TIGR02397 116 GKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKIL 189 (355)
T ss_pred CCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHH
Confidence 45558889998643 557777777765556777777775554 33322 112467888999988887777654
No 76
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=55.21 E-value=73 Score=23.30 Aligned_cols=74 Identities=19% Similarity=0.205 Sum_probs=50.9
Q ss_pred EEecCCcCcCCcchHHHHHHHHhcCCceeEEeC-CCC-------CCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHH
Q 048215 10 VFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDD-QLN-------RGYEISESLVKAIKASAISVIIFSEDYASSRWCLDE 81 (305)
Q Consensus 10 VFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~-~~~-------~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~E 81 (305)
+|.|..|--.+..++.+|..+|.++|.++..-| +.. -+-...+....++..|+..|++..+...+ +..
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~~s----~~~ 78 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSPLD----LDG 78 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCHHH----HHH
Confidence 467777766677889999999999998876643 321 22233455668899999999998876443 455
Q ss_pred HHHHHH
Q 048215 82 LAEILE 87 (305)
Q Consensus 82 L~~i~e 87 (305)
+..+++
T Consensus 79 ~~~~~~ 84 (104)
T cd02042 79 LEKLLE 84 (104)
T ss_pred HHHHHH
Confidence 555444
No 77
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=55.07 E-value=21 Score=34.57 Aligned_cols=69 Identities=9% Similarity=0.205 Sum_probs=42.9
Q ss_pred ceeEEeccCCCH---HH-HHHHHhcCCCC-CCCcEEEEEcCCh---------HHHHhcCCCceEEcCCCChHHHHHHHHH
Q 048215 224 KVLIVFDDVTCF---SQ-LESIIGSLDWL-MPVSRTIITTRNK---------QVLRNWGVRKICEMEALEYHHALELFSR 289 (305)
Q Consensus 224 r~LlVLDdv~~~---~~-~~~l~~~~~~~-~~gsrIIiTTR~~---------~v~~~~~~~~~~~v~~L~~~ea~~Lf~~ 289 (305)
.-+|||||+... .. .+.+...++.. ..|..||+|+... .+...+...-...+++++.++-.+++.+
T Consensus 207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~ 286 (450)
T PRK14087 207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKK 286 (450)
T ss_pred CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHH
Confidence 458999999632 12 23333322221 3456788886532 3333333445778999999999999998
Q ss_pred hhc
Q 048215 290 HAF 292 (305)
Q Consensus 290 ~Af 292 (305)
++=
T Consensus 287 ~~~ 289 (450)
T PRK14087 287 EIK 289 (450)
T ss_pred HHH
Confidence 763
No 78
>PRK10865 protein disaggregation chaperone; Provisional
Probab=53.84 E-value=71 Score=33.71 Aligned_cols=48 Identities=13% Similarity=0.277 Sum_probs=33.2
Q ss_pred hhhhhhhhhhhhccccccCCCCCCCCcccccchhhhHHHhhccCCC-CceEeCC-C
Q 048215 149 LINEVVNNILKRLLEEVFRPRDNKSQLVGVESRVEEIESLLSVESK-DVYALGF-G 202 (305)
Q Consensus 149 ~I~~Iv~~v~~~l~~~~~s~~~~~~~~vG~~~~~~~l~~~L~~~~~-~v~ivGi-G 202 (305)
.+++...+......+..+ +.++||+.++..+++.|..... .+.++|= |
T Consensus 160 ~l~~~~~~l~~~~r~~~l------~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pG 209 (857)
T PRK10865 160 ALKKYTIDLTERAEQGKL------DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPG 209 (857)
T ss_pred HHHHHhhhHHHHHhcCCC------CcCCCCHHHHHHHHHHHhcCCcCceEEECCCC
Confidence 455555555554444333 5699999999999998876443 5778888 7
No 79
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=52.19 E-value=33 Score=29.23 Aligned_cols=61 Identities=25% Similarity=0.266 Sum_probs=46.7
Q ss_pred cEEecCCcCcCCcchHHHHHHHHhc-C-CceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCcc
Q 048215 9 DVFVSFRGEDTLDDFTSHLYSALSR-Q-NIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDYA 73 (305)
Q Consensus 9 dVFis~~~~D~~~~f~~~L~~~L~~-~-gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~ 73 (305)
.|||-|+.+- -+.....+|.+ - -..+|.|.-...|+.+-+.+.+-|++++.+|++..|+=.
T Consensus 84 kvFvv~ghd~----iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDk 146 (233)
T COG4271 84 KVFVVSGHDA----IARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDK 146 (233)
T ss_pred eEEEEeccHH----HHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCccc
Confidence 7999975432 45555566653 3 345677777789999999999999999999999999754
No 80
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=50.31 E-value=71 Score=29.52 Aligned_cols=68 Identities=9% Similarity=0.060 Sum_probs=47.6
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCChH-HHHhcC-CCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRNKQ-VLRNWG-VRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~~~-v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+.|++ |+|+++ +.+....|...+..-..++.+|+||.+.. ++...- --..+.+.+++.+++.+.+...
T Consensus 106 ~~kv~-iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~ 177 (328)
T PRK05707 106 GRKVV-LIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQA 177 (328)
T ss_pred CCeEE-EECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHh
Confidence 44555 569997 45667778777776667888888887763 333321 1256899999999998888764
No 81
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=50.16 E-value=63 Score=32.20 Aligned_cols=69 Identities=7% Similarity=0.072 Sum_probs=46.1
Q ss_pred cCCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhc-CCCceEEcCCCChHHHHHHHHH
Q 048215 221 SCMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNW-GVRKICEMEALEYHHALELFSR 289 (305)
Q Consensus 221 ~~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~ 289 (305)
.+++-++|+|++. +...++.|...+......+.+|++|-+ ..+.... .--..+++++++.++..+.+.+
T Consensus 117 ~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~ 189 (546)
T PRK14957 117 QGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKI 189 (546)
T ss_pred cCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHH
Confidence 3566689999997 445678888777765566766655444 4444321 1136789999999887766665
No 82
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=49.90 E-value=39 Score=24.36 Aligned_cols=47 Identities=21% Similarity=0.289 Sum_probs=32.2
Q ss_pred cchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeec
Q 048215 21 DDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSE 70 (305)
Q Consensus 21 ~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~ 70 (305)
..++.+|...|++.||.+.+|+ .+..+...+..|-..=--.++|+.+
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~---~~~~~~k~~~~a~~~g~p~~iiiG~ 61 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDD---SDKSLGKQIKYADKLGIPFIIIIGE 61 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEES---SSSTHHHHHHHHHHTTESEEEEEEH
T ss_pred HHHHHHHHHHHHHCCCEEEEEC---CCCchhHHHHHHhhcCCeEEEEECc
Confidence 4578999999999999999987 4455556666665433334444453
No 83
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=49.74 E-value=57 Score=23.05 Aligned_cols=60 Identities=15% Similarity=0.205 Sum_probs=37.0
Q ss_pred ccEEecCCcCcCCcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecC
Q 048215 8 YDVFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSED 71 (305)
Q Consensus 8 ~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~ 71 (305)
++|+|...+.+. ...+-.+...|++.|+.+-+|. .+..+...+..|-..---.++++.++
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~---~~~~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDL---RNEKLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEEC---CCCCHHHHHHHHHHcCCCEEEEECcc
Confidence 577776555432 3467788999999999998876 23455555555533333345555543
No 84
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=48.79 E-value=1e+02 Score=23.13 Aligned_cols=59 Identities=22% Similarity=0.242 Sum_probs=39.9
Q ss_pred HHHHHHHHhcCCcee-EEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHHHHHhh
Q 048215 24 TSHLYSALSRQNIQT-FIDDQLNRGYEISESLVKAIKASAISVIIFSEDYASSRWCLDELAEILECKK 90 (305)
Q Consensus 24 ~~~L~~~L~~~gi~~-f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i~e~~~ 90 (305)
...|...|+++|+.+ +.|-+... +++.+++.+.+.-+|.+|-.+.. .+.+...+.+..+
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~~---~~~~~~~l~~~~k 76 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMTP---NLPEAKRLARAIK 76 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSST---HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCcC---cHHHHHHHHHHHH
Confidence 457788999999988 44433322 77888999999999999865544 4445555555443
No 85
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=48.53 E-value=1.2e+02 Score=30.71 Aligned_cols=69 Identities=13% Similarity=0.085 Sum_probs=44.1
Q ss_pred CceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcC-ChHHHHhc-CCCceEEcCCCChHHHHHHHHHhh
Q 048215 223 MKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTR-NKQVLRNW-GVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 223 kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR-~~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
++=++|+|++.. ...+..|...+......+.+|++|. -..+.... ..-..+++.+++.++....+...+
T Consensus 119 ~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SRcq~ieF~~Ls~~eL~~~L~~il 191 (605)
T PRK05896 119 KYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYNFKKLNNSELQELLKSIA 191 (605)
T ss_pred CcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhhhhhcccCCCCHHHHHHHHHHHH
Confidence 334699999874 4567777776665555666665554 33443321 123578899999988877766543
No 86
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=48.44 E-value=60 Score=30.31 Aligned_cols=70 Identities=10% Similarity=0.084 Sum_probs=47.1
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhcC-CCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRNK-QVLRNWG-VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+++-++|+|++. +....+.|...+.....+..+|++|... .++.... --..+.+++++.++..+++...+
T Consensus 140 g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~ 213 (351)
T PRK09112 140 GNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLG 213 (351)
T ss_pred CCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhh
Confidence 456689999997 4455677777666555566655555444 3332221 12589999999999999988743
No 87
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=47.51 E-value=2.2e+02 Score=28.49 Aligned_cols=72 Identities=11% Similarity=0.166 Sum_probs=47.2
Q ss_pred cCCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhc-CCCceEEcCCCChHHHHHHHHHhhc
Q 048215 221 SCMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNW-GVRKICEMEALEYHHALELFSRHAF 292 (305)
Q Consensus 221 ~~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~Af 292 (305)
.+++-++|+|++.. ...++.|...+..-.+.+.+|.+|.+ ..+.... ..-..++.++++.++-.+.+.+.+-
T Consensus 117 ~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~ 192 (563)
T PRK06647 117 SSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCL 192 (563)
T ss_pred cCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHHhceEEEecCCCHHHHHHHHHHHHH
Confidence 35566888999874 45678888777765667777666644 3443322 1124688888988888777766553
No 88
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=47.43 E-value=30 Score=34.86 Aligned_cols=69 Identities=7% Similarity=0.241 Sum_probs=43.8
Q ss_pred eeEEeccCCCH---HHHH-HHHhcCCC-CCCCcEEEEEcCCh---------HHHHhcCCCceEEcCCCChHHHHHHHHHh
Q 048215 225 VLIVFDDVTCF---SQLE-SIIGSLDW-LMPVSRTIITTRNK---------QVLRNWGVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 225 ~LlVLDdv~~~---~~~~-~l~~~~~~-~~~gsrIIiTTR~~---------~v~~~~~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
=+|+|||+... +.|. .|...++. ...|..|||||... .+...+...-+++++..+.+.-..++.++
T Consensus 379 DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kk 458 (617)
T PRK14086 379 DILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKK 458 (617)
T ss_pred CEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHH
Confidence 47899999632 2222 22222211 12466788888752 33344444678999999999999999988
Q ss_pred hcC
Q 048215 291 AFK 293 (305)
Q Consensus 291 Af~ 293 (305)
|-.
T Consensus 459 a~~ 461 (617)
T PRK14086 459 AVQ 461 (617)
T ss_pred HHh
Confidence 754
No 89
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=46.91 E-value=65 Score=32.90 Aligned_cols=71 Identities=8% Similarity=0.056 Sum_probs=47.4
Q ss_pred cCCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhcC-CCceEEcCCCChHHHHHHHHHhh
Q 048215 221 SCMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNWG-VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 221 ~~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
.++.-++|+|++. +...++.|...+..-..++++|++|.+ ..++...- --..+.++.++.++..+.+.+.+
T Consensus 122 ~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il 196 (700)
T PRK12323 122 AGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAIL 196 (700)
T ss_pred cCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHH
Confidence 3456689999997 446788888887766667776555544 44443221 12578899999988887766543
No 90
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=46.11 E-value=74 Score=30.24 Aligned_cols=68 Identities=10% Similarity=0.112 Sum_probs=46.0
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhcC-CCceEEcCCCChHHHHHHHHH
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRNK-QVLRNWG-VRKICEMEALEYHHALELFSR 289 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~ 289 (305)
+++-++++|++.. ......|...+....++..+|++|.+. .+....- --..+.+++++.++..+.+..
T Consensus 116 ~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~ 187 (394)
T PRK07940 116 GRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVR 187 (394)
T ss_pred CCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHH
Confidence 4445777799974 455666777666666677777777664 3343321 135789999999999888864
No 91
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=45.92 E-value=70 Score=28.21 Aligned_cols=66 Identities=6% Similarity=0.074 Sum_probs=41.7
Q ss_pred eeEEeccCCC----------HHHHHHHHhcCCCCCCCcEEEEEcCChHH----------HHhcCCCceEEcCCCChHHHH
Q 048215 225 VLIVFDDVTC----------FSQLESIIGSLDWLMPVSRTIITTRNKQV----------LRNWGVRKICEMEALEYHHAL 284 (305)
Q Consensus 225 ~LlVLDdv~~----------~~~~~~l~~~~~~~~~gsrIIiTTR~~~v----------~~~~~~~~~~~v~~L~~~ea~ 284 (305)
-+|++|++.. .+..+.+............+|+++...+. ... ....+.++.++.+|-.
T Consensus 107 ~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sR--f~~~i~f~~~~~~el~ 184 (261)
T TIGR02881 107 GVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSR--FPISIDFPDYTVEELM 184 (261)
T ss_pred CEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhc--cceEEEECCCCHHHHH
Confidence 4888999974 23456665555444444456666543322 222 2356789999999999
Q ss_pred HHHHHhhc
Q 048215 285 ELFSRHAF 292 (305)
Q Consensus 285 ~Lf~~~Af 292 (305)
+++.+.+-
T Consensus 185 ~Il~~~~~ 192 (261)
T TIGR02881 185 EIAERMVK 192 (261)
T ss_pred HHHHHHHH
Confidence 99987663
No 92
>CHL00181 cbbX CbbX; Provisional
Probab=45.27 E-value=83 Score=28.41 Aligned_cols=69 Identities=6% Similarity=0.036 Sum_probs=45.4
Q ss_pred ceeEEeccCCC-----------HHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhc--------CCCceEEcCCCChHHHH
Q 048215 224 KVLIVFDDVTC-----------FSQLESIIGSLDWLMPVSRTIITTRNKQVLRNW--------GVRKICEMEALEYHHAL 284 (305)
Q Consensus 224 r~LlVLDdv~~-----------~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~--------~~~~~~~v~~L~~~ea~ 284 (305)
.-+|+||++.. .+..+.|...+.....+.+||.++....+.... .....+++++++.+|-.
T Consensus 123 ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~ 202 (287)
T CHL00181 123 GGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELL 202 (287)
T ss_pred CCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHH
Confidence 35889999863 234455555555555667788887644432111 13567899999999999
Q ss_pred HHHHHhhc
Q 048215 285 ELFSRHAF 292 (305)
Q Consensus 285 ~Lf~~~Af 292 (305)
+++.+.+=
T Consensus 203 ~I~~~~l~ 210 (287)
T CHL00181 203 QIAKIMLE 210 (287)
T ss_pred HHHHHHHH
Confidence 99888763
No 93
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=45.23 E-value=98 Score=30.26 Aligned_cols=71 Identities=15% Similarity=0.196 Sum_probs=41.7
Q ss_pred cCCceeEEeccCCCHH----------------HHHHHHhcCCCC--CCCcEEEEEcCChHHHH-----hcCCCceEEcCC
Q 048215 221 SCMKVLIVFDDVTCFS----------------QLESIIGSLDWL--MPVSRTIITTRNKQVLR-----NWGVRKICEMEA 277 (305)
Q Consensus 221 ~~kr~LlVLDdv~~~~----------------~~~~l~~~~~~~--~~gsrIIiTTR~~~v~~-----~~~~~~~~~v~~ 277 (305)
.....+|+||+++... ....+...+..+ ..+-.||.||...+.+. ....+..++++.
T Consensus 145 ~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~ 224 (495)
T TIGR01241 145 KNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDL 224 (495)
T ss_pred hcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHhcCCcceEEEEcCC
Confidence 3456899999996421 112222222222 23445677776654332 112356788999
Q ss_pred CChHHHHHHHHHhh
Q 048215 278 LEYHHALELFSRHA 291 (305)
Q Consensus 278 L~~~ea~~Lf~~~A 291 (305)
.+.++-.++|..+.
T Consensus 225 Pd~~~R~~il~~~l 238 (495)
T TIGR01241 225 PDIKGREEILKVHA 238 (495)
T ss_pred CCHHHHHHHHHHHH
Confidence 99988888887765
No 94
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=43.61 E-value=1e+02 Score=28.32 Aligned_cols=69 Identities=16% Similarity=0.157 Sum_probs=47.7
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCChH-HHHhcC-CCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRNKQ-VLRNWG-VRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~~~-v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+.+=++|+|++.. .+..+.|...+..-.+++.+|++|.+.. ++.... --..+++++++.++..+.+...
T Consensus 109 ~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~ 181 (329)
T PRK08058 109 SNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQEE 181 (329)
T ss_pred cCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence 4445688888874 4567788888877778888888886643 333221 1357889999999988777653
No 95
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=43.27 E-value=1.2e+02 Score=22.92 Aligned_cols=57 Identities=21% Similarity=0.215 Sum_probs=37.3
Q ss_pred HHHHHHhcCCceeEEeCCCCCCCcc-hHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHHHH
Q 048215 26 HLYSALSRQNIQTFIDDQLNRGYEI-SESLVKAIKASAISVIIFSEDYASSRWCLDELAEILE 87 (305)
Q Consensus 26 ~L~~~L~~~gi~~f~d~~~~~g~~~-~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i~e 87 (305)
.+...|+.+|+.+.. .|... .+++.+++.+.+.-+|.||-......--..++...++
T Consensus 18 ~~~~~l~~~G~~V~~-----lg~~~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~ 75 (119)
T cd02067 18 IVARALRDAGFEVID-----LGVDVPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELK 75 (119)
T ss_pred HHHHHHHHCCCEEEE-----CCCCCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHH
Confidence 455678899999855 23333 3578899999999999998664443333344444443
No 96
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=42.80 E-value=24 Score=28.80 Aligned_cols=57 Identities=14% Similarity=0.160 Sum_probs=35.5
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCChH-HHHhcC-CCceEEcCCC
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRNKQ-VLRNWG-VRKICEMEAL 278 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~~~-v~~~~~-~~~~~~v~~L 278 (305)
+++=++|+||++ +.+...+|...+..-..++++|++|.+.. ++...- --..+.+++|
T Consensus 101 ~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~i~~~~l 161 (162)
T PF13177_consen 101 GKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQVIRFRPL 161 (162)
T ss_dssp SSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEEEEE---
T ss_pred CCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceEEecCCC
Confidence 445578889987 45678888888877788999999998765 333321 1234555554
No 97
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=41.97 E-value=47 Score=32.13 Aligned_cols=69 Identities=13% Similarity=0.183 Sum_probs=41.1
Q ss_pred ceeEEeccCCCHH----HHHHHHhcCCCC-CCCcEEEEEcCCh---------HHHHhcCCCceEEcCCCChHHHHHHHHH
Q 048215 224 KVLIVFDDVTCFS----QLESIIGSLDWL-MPVSRTIITTRNK---------QVLRNWGVRKICEMEALEYHHALELFSR 289 (305)
Q Consensus 224 r~LlVLDdv~~~~----~~~~l~~~~~~~-~~gsrIIiTTR~~---------~v~~~~~~~~~~~v~~L~~~ea~~Lf~~ 289 (305)
.-+|++||+.... .-+.+...++.. ..|..||+||... .+...+.....+.+++++.++-..++.+
T Consensus 203 ~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~ 282 (445)
T PRK12422 203 VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLER 282 (445)
T ss_pred CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHH
Confidence 4588899986431 112222221111 2466788888542 2223333346789999999999999988
Q ss_pred hhc
Q 048215 290 HAF 292 (305)
Q Consensus 290 ~Af 292 (305)
+|=
T Consensus 283 k~~ 285 (445)
T PRK12422 283 KAE 285 (445)
T ss_pred HHH
Confidence 763
No 98
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=41.93 E-value=21 Score=28.25 Aligned_cols=47 Identities=26% Similarity=0.451 Sum_probs=28.0
Q ss_pred EEecCCcCcCCcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHH
Q 048215 10 VFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDYASSRWCLDELAEI 85 (305)
Q Consensus 10 VFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i 85 (305)
-||.-.+.|.|..|+..|.+++... .-+|||++..|=.+ ||.||.+.
T Consensus 47 efL~~~~~DPr~~~~~~L~~~i~~~---------------------------~g~ivvyN~sfE~~--rL~ela~~ 93 (130)
T PF11074_consen 47 EFLADPGEDPRRELIEALIKAIGSI---------------------------YGSIVVYNKSFEKT--RLKELAEL 93 (130)
T ss_pred HHhccCCCCchHHHHHHHHHHhhhh---------------------------cCeEEEechHHHHH--HHHHHHHH
Confidence 3555555666666666666665544 25566666655433 77887755
No 99
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=41.60 E-value=50 Score=31.89 Aligned_cols=44 Identities=16% Similarity=0.163 Sum_probs=32.5
Q ss_pred CCcEEEEEcCChHHHHhc-----CCCceEEcCCCChHHHHHHHHHhhcC
Q 048215 250 PVSRTIITTRNKQVLRNW-----GVRKICEMEALEYHHALELFSRHAFK 293 (305)
Q Consensus 250 ~gsrIIiTTR~~~v~~~~-----~~~~~~~v~~L~~~ea~~Lf~~~Af~ 293 (305)
.+-+||.||...+.+... ..+..++++..+.++-.++|..++-+
T Consensus 321 ~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k 369 (438)
T PTZ00361 321 GDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSK 369 (438)
T ss_pred CCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhc
Confidence 356788888876665532 13567899999999999999987643
No 100
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=41.08 E-value=46 Score=31.50 Aligned_cols=69 Identities=13% Similarity=0.281 Sum_probs=40.3
Q ss_pred eeEEeccCCCH---HHH-HHHHhcCCCC-CCCcEEEEEcCC-hH--------HHHhcCCCceEEcCCCChHHHHHHHHHh
Q 048215 225 VLIVFDDVTCF---SQL-ESIIGSLDWL-MPVSRTIITTRN-KQ--------VLRNWGVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 225 ~LlVLDdv~~~---~~~-~~l~~~~~~~-~~gsrIIiTTR~-~~--------v~~~~~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
-+|+|||+... +.+ +.+...+... ..|..+|+||.. .. +...+.......+++.+.++-..++.+.
T Consensus 201 dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~ 280 (405)
T TIGR00362 201 DLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKK 280 (405)
T ss_pred CEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHH
Confidence 48899999732 111 2222222211 245668887754 22 2222322356889999999999998887
Q ss_pred hcC
Q 048215 291 AFK 293 (305)
Q Consensus 291 Af~ 293 (305)
+=.
T Consensus 281 ~~~ 283 (405)
T TIGR00362 281 AEE 283 (405)
T ss_pred HHH
Confidence 643
No 101
>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=40.05 E-value=53 Score=28.92 Aligned_cols=52 Identities=13% Similarity=0.141 Sum_probs=35.0
Q ss_pred CceeEEeccCCC---HHHHHHHHhcCCC-CCCCcEEEEEcCChHHHHhcCCCceEE
Q 048215 223 MKVLIVFDDVTC---FSQLESIIGSLDW-LMPVSRTIITTRNKQVLRNWGVRKICE 274 (305)
Q Consensus 223 kr~LlVLDdv~~---~~~~~~l~~~~~~-~~~gsrIIiTTR~~~v~~~~~~~~~~~ 274 (305)
+.=|.|||.-++ .+.++.+...+.. ..+|+-++|.|..+.++.....+.+|-
T Consensus 162 ePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~vhv 217 (251)
T COG0396 162 EPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKVHV 217 (251)
T ss_pred CCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCEEEE
Confidence 344789998874 3444444433332 246888999999999999986665553
No 102
>CHL00176 ftsH cell division protein; Validated
Probab=39.35 E-value=1.4e+02 Score=30.30 Aligned_cols=75 Identities=13% Similarity=0.207 Sum_probs=45.9
Q ss_pred hhcCCceeEEeccCCCHH----------------HHHHHHhcCCCC--CCCcEEEEEcCChHHHHhc----C-CCceEEc
Q 048215 219 RLSCMKVLIVFDDVTCFS----------------QLESIIGSLDWL--MPVSRTIITTRNKQVLRNW----G-VRKICEM 275 (305)
Q Consensus 219 ~l~~kr~LlVLDdv~~~~----------------~~~~l~~~~~~~--~~gsrIIiTTR~~~v~~~~----~-~~~~~~v 275 (305)
......++|+||+++... .+..+...+..+ ..|-.||.||...+.+... | .+..+.+
T Consensus 271 A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v 350 (638)
T CHL00176 271 AKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITV 350 (638)
T ss_pred HhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhccccCceEEEE
Confidence 334568899999996331 133333333222 2455677788776554421 1 2467788
Q ss_pred CCCChHHHHHHHHHhhcC
Q 048215 276 EALEYHHALELFSRHAFK 293 (305)
Q Consensus 276 ~~L~~~ea~~Lf~~~Af~ 293 (305)
+..+.++-.+++..++=.
T Consensus 351 ~lPd~~~R~~IL~~~l~~ 368 (638)
T CHL00176 351 SLPDREGRLDILKVHARN 368 (638)
T ss_pred CCCCHHHHHHHHHHHHhh
Confidence 888888888888877543
No 103
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=39.11 E-value=1.2e+02 Score=30.14 Aligned_cols=69 Identities=7% Similarity=0.129 Sum_probs=46.1
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhc-CCCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRNK-QVLRNW-GVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+++-++|+|++.. .+..+.|...+....+.+++|++|.+. .+.... .-...+++.+++.++....+.+.
T Consensus 116 ~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~I 188 (535)
T PRK08451 116 ARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTI 188 (535)
T ss_pred CCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHH
Confidence 4556789999974 456777877777666778877777664 222111 11357889999988877766543
No 104
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=38.95 E-value=82 Score=29.84 Aligned_cols=69 Identities=9% Similarity=0.103 Sum_probs=45.4
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEc-CChHHHHhcC-CCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITT-RNKQVLRNWG-VRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTT-R~~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+.+-++|+|++.. ...++.|...+....+.+.+|++| +...+..... ....+++++++.++..+.+...
T Consensus 126 ~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~ 198 (397)
T PRK14955 126 GRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLEEIQQQLQGI 198 (397)
T ss_pred CCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence 4566889999874 456788887777666777776655 4444443221 1246888899888877666553
No 105
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=38.88 E-value=77 Score=31.53 Aligned_cols=78 Identities=19% Similarity=0.227 Sum_probs=51.8
Q ss_pred hhhcCCceeEEeccCCCHHHHHHHHhc------------CCCCC-CCcE--EEEEcCChHHHHhcCC----CceEEcCCC
Q 048215 218 RRLSCMKVLIVFDDVTCFSQLESIIGS------------LDWLM-PVSR--TIITTRNKQVLRNWGV----RKICEMEAL 278 (305)
Q Consensus 218 ~~l~~kr~LlVLDdv~~~~~~~~l~~~------------~~~~~-~gsr--IIiTTR~~~v~~~~~~----~~~~~v~~L 278 (305)
+.-++.--.||+||+...-+|-.+.+. +.... .|-| |+-||....++..|+. +..|.|+.|
T Consensus 593 DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl 672 (744)
T KOG0741|consen 593 DAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNL 672 (744)
T ss_pred HhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCcc
Confidence 334566788999999766555433322 22222 2333 6678888899999875 678899999
Q ss_pred Ch-HHHHHHHHHhh-cCCC
Q 048215 279 EY-HHALELFSRHA-FKQN 295 (305)
Q Consensus 279 ~~-~ea~~Lf~~~A-f~~~ 295 (305)
.. ++..+.++..- |...
T Consensus 673 ~~~~~~~~vl~~~n~fsd~ 691 (744)
T KOG0741|consen 673 TTGEQLLEVLEELNIFSDD 691 (744)
T ss_pred CchHHHHHHHHHccCCCcc
Confidence 88 77777777653 5443
No 106
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=38.31 E-value=63 Score=30.64 Aligned_cols=68 Identities=19% Similarity=0.233 Sum_probs=46.4
Q ss_pred hhcCCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEE--EcCChHHHH---hcCCCceEEcCCCChHHHHHHHHH
Q 048215 219 RLSCMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTII--TTRNKQVLR---NWGVRKICEMEALEYHHALELFSR 289 (305)
Q Consensus 219 ~l~~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIi--TTR~~~v~~---~~~~~~~~~v~~L~~~ea~~Lf~~ 289 (305)
.+.++|..|.+|.|. +..|-+.+.+ .--+|+-++| ||.|...-. .+.--.++-++.|+.++-..++.+
T Consensus 218 ~l~krkTilFiDEiHRFNksQQD~fLP---~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~r 292 (554)
T KOG2028|consen 218 SLTKRKTILFIDEIHRFNKSQQDTFLP---HVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMR 292 (554)
T ss_pred hhhcceeEEEeHHhhhhhhhhhhcccc---eeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHH
Confidence 456789999999996 5566666544 3456776655 777763211 111225789999999999988887
No 107
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=38.21 E-value=85 Score=31.83 Aligned_cols=73 Identities=5% Similarity=0.007 Sum_probs=47.7
Q ss_pred cCCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhc-CCCceEEcCCCChHHHHHHHHHhhcC
Q 048215 221 SCMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNW-GVRKICEMEALEYHHALELFSRHAFK 293 (305)
Q Consensus 221 ~~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~Af~ 293 (305)
.+++-++|+|++.. ...++.|...+..-.....+|++|.+ ..+...+ ..-..++++.++.++....+...+..
T Consensus 117 ~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~ 193 (624)
T PRK14959 117 EGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGR 193 (624)
T ss_pred cCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHH
Confidence 35567899999974 45677777776654456666666655 4444322 11246889999999888777765543
No 108
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=38.17 E-value=1.3e+02 Score=27.92 Aligned_cols=69 Identities=9% Similarity=0.052 Sum_probs=49.1
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhcC-CCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRN-KQVLRNWG-VRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+++=++|+|+++ +......|...+..-.+++.+|++|.+ ..++...- --..+.+++++.++..+.+...
T Consensus 131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~ 203 (342)
T PRK06964 131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ 203 (342)
T ss_pred CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc
Confidence 344467778887 557788888888877788887777766 44443321 1257889999999998888764
No 109
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=38.11 E-value=97 Score=23.29 Aligned_cols=11 Identities=9% Similarity=0.431 Sum_probs=9.6
Q ss_pred CceeEEeccCC
Q 048215 223 MKVLIVFDDVT 233 (305)
Q Consensus 223 kr~LlVLDdv~ 233 (305)
++.+|++||++
T Consensus 58 ~~~vl~iDe~d 68 (132)
T PF00004_consen 58 KPCVLFIDEID 68 (132)
T ss_dssp TSEEEEEETGG
T ss_pred cceeeeeccch
Confidence 37999999997
No 110
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=37.75 E-value=90 Score=30.92 Aligned_cols=69 Identities=9% Similarity=0.067 Sum_probs=43.1
Q ss_pred cCCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhcC-CCceEEcCCCChHHHHHHHHH
Q 048215 221 SCMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRNK-QVLRNWG-VRKICEMEALEYHHALELFSR 289 (305)
Q Consensus 221 ~~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~ 289 (305)
.+++-++|+|++... ...+.|...+..-...+.+|++|.+. .++.... --..++++.++.++..+.+.+
T Consensus 117 ~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~ 189 (527)
T PRK14969 117 RGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQH 189 (527)
T ss_pred cCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHH
Confidence 355668999999854 45777777776655667776666443 3322110 014677888888777665554
No 111
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=37.20 E-value=42 Score=28.75 Aligned_cols=67 Identities=12% Similarity=0.156 Sum_probs=36.9
Q ss_pred ceeEEeccCCCH--HHHHHHHhcCCCC-CCCc-EEEEEcCChHH--------HHhcCCCceEEcCCCChHHHHHHHHHh
Q 048215 224 KVLIVFDDVTCF--SQLESIIGSLDWL-MPVS-RTIITTRNKQV--------LRNWGVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 224 r~LlVLDdv~~~--~~~~~l~~~~~~~-~~gs-rIIiTTR~~~v--------~~~~~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
.-+||+||+... .+-+.|...+... ..|. .+|+|++.... ...+.....+++++|++++-..++.+.
T Consensus 91 ~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~ 169 (227)
T PRK08903 91 AELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAA 169 (227)
T ss_pred CCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHH
Confidence 457899999643 2323333333221 2344 36666664322 112222367899999998766666543
No 112
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=36.60 E-value=1.5e+02 Score=28.78 Aligned_cols=69 Identities=7% Similarity=0.129 Sum_probs=43.9
Q ss_pred CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhc-CCCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRN-KQVLRNW-GVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+.+-++|+|++... ...+.|...+..-.....+|++|.+ ..+...+ ..-..+++++++.++....+...
T Consensus 120 ~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~ 192 (451)
T PRK06305 120 SRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALI 192 (451)
T ss_pred CCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHH
Confidence 55667899998743 4566677666655556677666643 3333321 11356889999998877766654
No 113
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=35.66 E-value=56 Score=31.50 Aligned_cols=70 Identities=9% Similarity=0.204 Sum_probs=42.1
Q ss_pred ceeEEeccCCCH---H-HHHHHHhcCCC-CCCCcEEEEEcCCh---------HHHHhcCCCceEEcCCCChHHHHHHHHH
Q 048215 224 KVLIVFDDVTCF---S-QLESIIGSLDW-LMPVSRTIITTRNK---------QVLRNWGVRKICEMEALEYHHALELFSR 289 (305)
Q Consensus 224 r~LlVLDdv~~~---~-~~~~l~~~~~~-~~~gsrIIiTTR~~---------~v~~~~~~~~~~~v~~L~~~ea~~Lf~~ 289 (305)
.-+|+||||... . .-+.+...+.. ...|..||+||... .+...+.....+++++++.++-..++.+
T Consensus 212 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~ 291 (450)
T PRK00149 212 VDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKK 291 (450)
T ss_pred CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHH
Confidence 448999999632 1 11222222211 12455688887643 2233443346789999999999999998
Q ss_pred hhcC
Q 048215 290 HAFK 293 (305)
Q Consensus 290 ~Af~ 293 (305)
.+=.
T Consensus 292 ~~~~ 295 (450)
T PRK00149 292 KAEE 295 (450)
T ss_pred HHHH
Confidence 8743
No 114
>PF13304 AAA_21: AAA domain; PDB: 3QKS_B 1US8_B 1F2U_B 1F2T_B 3QKT_A 1II8_B 3QKR_B 3QKU_A.
Probab=35.37 E-value=28 Score=29.33 Aligned_cols=40 Identities=25% Similarity=0.237 Sum_probs=26.1
Q ss_pred eeEEeccCC---CHHHHHHHHhcCCCCC-CCcEEEEEcCChHHH
Q 048215 225 VLIVFDDVT---CFSQLESIIGSLDWLM-PVSRTIITTRNKQVL 264 (305)
Q Consensus 225 ~LlVLDdv~---~~~~~~~l~~~~~~~~-~gsrIIiTTR~~~v~ 264 (305)
.++++|... ++.....+...+.... .+..||+||.+..++
T Consensus 259 ~illiDEpE~~LHp~~q~~l~~~l~~~~~~~~QviitTHSp~il 302 (303)
T PF13304_consen 259 SILLIDEPENHLHPSWQRKLIELLKELSKKNIQVIITTHSPFIL 302 (303)
T ss_dssp SEEEEESSSTTSSHHHHHHHHHHHHHTGGGSSEEEEEES-GGG-
T ss_pred eEEEecCCcCCCCHHHHHHHHHHHHhhCccCCEEEEeCccchhc
Confidence 889999987 4444444444443333 489999999988764
No 115
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=34.36 E-value=1.8e+02 Score=27.28 Aligned_cols=33 Identities=18% Similarity=0.292 Sum_probs=24.5
Q ss_pred CCCCCcccccchhhhHHHhhcc-----CCCCceEeCC-C
Q 048215 170 DNKSQLVGVESRVEEIESLLSV-----ESKDVYALGF-G 202 (305)
Q Consensus 170 ~~~~~~vG~~~~~~~l~~~L~~-----~~~~v~ivGi-G 202 (305)
..++.+.+|+.+++.+...|.. .+.++-|.|- |
T Consensus 14 ~iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~G 52 (366)
T COG1474 14 YIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTG 52 (366)
T ss_pred CCcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCC
Confidence 4566699999999999887653 2234888899 7
No 116
>COG3899 Predicted ATPase [General function prediction only]
Probab=34.30 E-value=1e+02 Score=32.54 Aligned_cols=70 Identities=9% Similarity=0.084 Sum_probs=37.5
Q ss_pred CCceeEEeccC-C-CHHH---HHHHHhcCCC-CCCCcEEEEEcCChHH---HHhcC-CCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDV-T-CFSQ---LESIIGSLDW-LMPVSRTIITTRNKQV---LRNWG-VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv-~-~~~~---~~~l~~~~~~-~~~gsrIIiTTR~~~v---~~~~~-~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
.++..+|+||+ | +... ++.+.....- .-.-..|..+...... ..... .-..+.++||+..+...|....-
T Consensus 153 ~~plVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l 232 (849)
T COG3899 153 EHPLVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATL 232 (849)
T ss_pred cCCeEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHh
Confidence 45999999999 4 3323 3333332220 0001123222222211 22222 24688999999999998887653
No 117
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=34.21 E-value=4.2e+02 Score=26.49 Aligned_cols=70 Identities=9% Similarity=0.099 Sum_probs=43.7
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEc-CChHHHHhc-CCCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITT-RNKQVLRNW-GVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTT-R~~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+++-++|+|++.. ...+..|...+..-.....+|++| ....+.... ..-..++..+++.++....+.+.+
T Consensus 118 ~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~ 191 (559)
T PRK05563 118 AKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRFDFKRISVEDIVERLKYIL 191 (559)
T ss_pred CCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhHheEEecCCCCHHHHHHHHHHHH
Confidence 4566788999974 456778877766555555655554 444333322 112467888888888777666544
No 118
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=33.51 E-value=47 Score=25.29 Aligned_cols=44 Identities=20% Similarity=0.215 Sum_probs=27.3
Q ss_pred hhhhhhcCC-ceeEEeccCCCH---HHHHHHHhcCCCCCCCcEEEEEcCC
Q 048215 215 LNSRRLSCM-KVLIVFDDVTCF---SQLESIIGSLDWLMPVSRTIITTRN 260 (305)
Q Consensus 215 ~l~~~l~~k-r~LlVLDdv~~~---~~~~~l~~~~~~~~~gsrIIiTTR~ 260 (305)
.+.+.+... ..+||+|++... +.++.|....+ .++.++|++.+.
T Consensus 78 ~~~~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~ 125 (131)
T PF13401_consen 78 LLIDALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP 125 (131)
T ss_dssp HHHHHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred HHHHHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence 344445444 369999998754 44666654433 667777776654
No 119
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=33.08 E-value=1.3e+02 Score=21.31 Aligned_cols=60 Identities=20% Similarity=0.264 Sum_probs=36.9
Q ss_pred ccEEecCCcCc--CCcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeec
Q 048215 8 YDVFVSFRGED--TLDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSE 70 (305)
Q Consensus 8 ~dVFis~~~~D--~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~ 70 (305)
++|+|-.-+.+ .....+-.+...|++.|+.+-.|. .+..+...+..|-..---+++++.+
T Consensus 2 ~~v~ii~~~~~~~~~~~~a~~~~~~Lr~~g~~v~~~~---~~~~~~k~~~~a~~~g~~~~iiig~ 63 (94)
T cd00738 2 IDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYDD---RERKIGKKFREADLRGVPFAVVVGE 63 (94)
T ss_pred eEEEEEECCCCcHHHHHHHHHHHHHHHHCCCEEEecC---CCcCHhHHHHHHHhCCCCEEEEECC
Confidence 46666543330 124567788999999999998865 2345555555554433345666675
No 120
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=32.35 E-value=1.7e+02 Score=29.63 Aligned_cols=70 Identities=11% Similarity=0.151 Sum_probs=46.6
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEc-CChHHHHhcC-CCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITT-RNKQVLRNWG-VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTT-R~~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+++=++|+|++.. ...++.|...+..-...+.+|++| ....+..... .-.++++++++.++....+.+.|
T Consensus 120 ~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia 193 (614)
T PRK14971 120 GKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVA 193 (614)
T ss_pred CCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHH
Confidence 3455778999874 456788887777666677766555 5455554321 23578899999988877776543
No 121
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=32.34 E-value=55 Score=24.05 Aligned_cols=48 Identities=19% Similarity=0.267 Sum_probs=36.2
Q ss_pred HHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCcccc
Q 048215 26 HLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDYASS 75 (305)
Q Consensus 26 ~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S 75 (305)
.+...|+-.|+..+... ...++..+.+.+.+++..++|++++++++..
T Consensus 8 ~~v~gFrLaGv~~~~~~--~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~ 55 (95)
T PF01990_consen 8 DTVLGFRLAGVEGVYVN--TDPEEAEEALKELLKDEDVGIIIITEDLAEK 55 (95)
T ss_dssp HHHHHHHHTTSEEEEES--HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT
T ss_pred HHHHHHHHcCCCCccCC--CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH
Confidence 35567788899988853 1334566667777779999999999998884
No 122
>PRK00973 glucose-6-phosphate isomerase; Provisional
Probab=31.94 E-value=1.3e+02 Score=29.10 Aligned_cols=22 Identities=27% Similarity=0.454 Sum_probs=13.4
Q ss_pred hhhhHHHhhccCCCCceEeCC-Cc
Q 048215 181 RVEEIESLLSVESKDVYALGF-GA 203 (305)
Q Consensus 181 ~~~~l~~~L~~~~~~v~ivGi-G~ 203 (305)
+.+++.+.+. .-+.|-++|| |+
T Consensus 60 ~~~~~~~~~~-~~~~vVviGIGGS 82 (446)
T PRK00973 60 SYEELKEWSK-NFDNVVVLGIGGS 82 (446)
T ss_pred HHHHHHHHhh-cCCEEEEEcCCch
Confidence 4455554443 2356999999 73
No 123
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=31.45 E-value=2.5e+02 Score=26.00 Aligned_cols=69 Identities=9% Similarity=0.073 Sum_probs=49.3
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhcC-CCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRNK-QVLRNWG-VRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+++=.+|+|+++ +......|...+..-.+++.+|++|.+. .++...- --..+.+.+++.++..+.+...
T Consensus 106 g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~~~~~~L~~~ 178 (325)
T PRK06871 106 GGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQQALDWLQAQ 178 (325)
T ss_pred CCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHHHHHHHHHHH
Confidence 445567789887 4466788888887777888888888765 4443321 1257899999999998877764
No 124
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=31.37 E-value=1.3e+02 Score=22.47 Aligned_cols=61 Identities=20% Similarity=0.273 Sum_probs=35.9
Q ss_pred cEEecCCcCcCCcchHHHHHHHHhcCCceeEEeC---------C-----CCCCCcchHHHHHHHHhcCcEEEEeecC
Q 048215 9 DVFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDD---------Q-----LNRGYEISESLVKAIKASAISVIIFSED 71 (305)
Q Consensus 9 dVFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~---------~-----~~~g~~~~~~i~~ai~~s~~~ivv~S~~ 71 (305)
.||+|.+..| +.-.-.+.+.|...|+++|--. . +.....-.+.+.+.|++-.+.+||..++
T Consensus 2 ~vl~s~~~~~--k~~~~~~~~~l~~~G~~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~ 76 (110)
T cd01424 2 TVFISVADRD--KPEAVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPS 76 (110)
T ss_pred eEEEEEEcCc--HhHHHHHHHHHHHCCCEEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCC
Confidence 3788888777 3334477777777888887632 0 0011011256677777777776666543
No 125
>COG0400 Predicted esterase [General function prediction only]
Probab=31.08 E-value=1.3e+02 Score=25.75 Aligned_cols=55 Identities=16% Similarity=0.124 Sum_probs=43.2
Q ss_pred CCcccEEecCCcCcC--CcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHh
Q 048215 5 TKKYDVFVSFRGEDT--LDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKA 60 (305)
Q Consensus 5 ~~~~dVFis~~~~D~--~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~ 60 (305)
....-|||+|-..|. ......+|.+.|+..|..+.... .+-|=++.++-++++.+
T Consensus 144 ~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e~~~~~~~ 200 (207)
T COG0400 144 LAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPEELEAARS 200 (207)
T ss_pred cCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHHHHHHHHH
Confidence 345679999988887 57789999999999999987765 23777887776666654
No 126
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=30.77 E-value=79 Score=30.23 Aligned_cols=80 Identities=13% Similarity=0.202 Sum_probs=49.6
Q ss_pred hhhhhhhhcCCceeEEeccCCCH---HHH-HHHHhcCCCC-CCCcEEEEEcCC---------hHHHHhcCCCceEEcCCC
Q 048215 213 NDLNSRRLSCMKVLIVFDDVTCF---SQL-ESIIGSLDWL-MPVSRTIITTRN---------KQVLRNWGVRKICEMEAL 278 (305)
Q Consensus 213 ~~~l~~~l~~kr~LlVLDdv~~~---~~~-~~l~~~~~~~-~~gsrIIiTTR~---------~~v~~~~~~~~~~~v~~L 278 (305)
.+..++.. .-=++++||++.. +.| +.+...++.. ..|-.||+|++. ..+.+.+...-++++.++
T Consensus 167 ~~~Fk~~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~P 244 (408)
T COG0593 167 MEKFKEKY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPP 244 (408)
T ss_pred HHHHHHhh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCC
Confidence 34444444 3448888999732 122 2222222222 245589999843 345555555678999999
Q ss_pred ChHHHHHHHHHhhcCC
Q 048215 279 EYHHALELFSRHAFKQ 294 (305)
Q Consensus 279 ~~~ea~~Lf~~~Af~~ 294 (305)
+.+....++.++|-..
T Consensus 245 d~e~r~aiL~kka~~~ 260 (408)
T COG0593 245 DDETRLAILRKKAEDR 260 (408)
T ss_pred CHHHHHHHHHHHHHhc
Confidence 9999999999876543
No 127
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=30.70 E-value=70 Score=27.46 Aligned_cols=35 Identities=23% Similarity=0.286 Sum_probs=22.5
Q ss_pred ceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCCh
Q 048215 224 KVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRNK 261 (305)
Q Consensus 224 r~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~~ 261 (305)
..+||+|..-+ ..+++.+.. ..+.|||+|++--..
T Consensus 120 ~~~iIvDEaQN~t~~~~k~ilT---R~g~~skii~~GD~~ 156 (205)
T PF02562_consen 120 NAFIIVDEAQNLTPEELKMILT---RIGEGSKIIITGDPS 156 (205)
T ss_dssp SEEEEE-SGGG--HHHHHHHHT---TB-TT-EEEEEE---
T ss_pred ceEEEEecccCCCHHHHHHHHc---ccCCCcEEEEecCce
Confidence 57899999964 567887754 468999999987443
No 128
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=30.64 E-value=44 Score=31.65 Aligned_cols=32 Identities=28% Similarity=0.342 Sum_probs=23.8
Q ss_pred CCCCcccccchhhhHHHhhccCCCC----ceEeCC-C
Q 048215 171 NKSQLVGVESRVEEIESLLSVESKD----VYALGF-G 202 (305)
Q Consensus 171 ~~~~~vG~~~~~~~l~~~L~~~~~~----v~ivGi-G 202 (305)
..+++.+|+..+..+..+|...+.. |.|.|- |
T Consensus 4 l~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sg 40 (438)
T KOG2543|consen 4 LEPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSG 40 (438)
T ss_pred cccCccchHHHHHHHHHHhCCCCcccceeEEEeccCC
Confidence 4567889999999999998865543 455677 5
No 129
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=29.92 E-value=1.4e+02 Score=22.79 Aligned_cols=61 Identities=13% Similarity=0.068 Sum_probs=39.9
Q ss_pred cccEEecCCc--CcCCcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCc
Q 048215 7 KYDVFVSFRG--EDTLDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDY 72 (305)
Q Consensus 7 ~~dVFis~~~--~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y 72 (305)
.+||||-.-+ .+ ....+-.|+..|+.+|+.+-.|.. ..+...+..|-+.---.++|+.++-
T Consensus 26 p~~v~Ii~~~~~~~-~~~~a~~la~~LR~~gi~v~~d~~----~sl~kqlk~A~k~g~~~~iiiG~~e 88 (121)
T cd00858 26 PIKVAVLPLVKRDE-LVEIAKEISEELRELGFSVKYDDS----GSIGRRYARQDEIGTPFCVTVDFDT 88 (121)
T ss_pred CcEEEEEecCCcHH-HHHHHHHHHHHHHHCCCEEEEeCC----CCHHHHHHHhHhcCCCEEEEECcCc
Confidence 5788887666 22 234677889999999999988753 4565555565443333566666543
No 130
>PRK08116 hypothetical protein; Validated
Probab=29.53 E-value=32 Score=30.74 Aligned_cols=44 Identities=25% Similarity=0.258 Sum_probs=23.4
Q ss_pred hhhhcCCceeEEeccCC--CHHHH--HHHHhcCCC-CCCCcEEEEEcCCh
Q 048215 217 SRRLSCMKVLIVFDDVT--CFSQL--ESIIGSLDW-LMPVSRTIITTRNK 261 (305)
Q Consensus 217 ~~~l~~kr~LlVLDdv~--~~~~~--~~l~~~~~~-~~~gsrIIiTTR~~ 261 (305)
.+.+.+-. ||||||+. ....| +.|...+.. ..+|..+||||...
T Consensus 173 ~~~l~~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~ 221 (268)
T PRK08116 173 IRSLVNAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS 221 (268)
T ss_pred HHHhcCCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 33444333 89999993 22233 222222221 23567799999753
No 131
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=29.47 E-value=2.8e+02 Score=21.80 Aligned_cols=77 Identities=13% Similarity=0.109 Sum_probs=51.6
Q ss_pred ccEEecCCcCcCCcchHHHHHHHHhcCCceeEEeCCCCCC-CcchHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHHH
Q 048215 8 YDVFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDDQLNRG-YEISESLVKAIKASAISVIIFSEDYASSRWCLDELAEIL 86 (305)
Q Consensus 8 ~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g-~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i~ 86 (305)
.-|++.=-|.|....=.+.+...|+..|+.+.. .| ..-.+++.++..+.+.-+|++|--..++.--+.++...+
T Consensus 3 ~~v~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi~-----lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L 77 (132)
T TIGR00640 3 PRILVAKMGQDGHDRGAKVIATAYADLGFDVDV-----GPLFQTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKEL 77 (132)
T ss_pred CEEEEEeeCCCccHHHHHHHHHHHHhCCcEEEE-----CCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHH
Confidence 446666566665432234455677789999855 33 334457888899999999999988877665666666666
Q ss_pred HHh
Q 048215 87 ECK 89 (305)
Q Consensus 87 e~~ 89 (305)
+.+
T Consensus 78 ~~~ 80 (132)
T TIGR00640 78 DKL 80 (132)
T ss_pred Hhc
Confidence 543
No 132
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=28.69 E-value=1.4e+02 Score=22.63 Aligned_cols=60 Identities=22% Similarity=0.233 Sum_probs=37.9
Q ss_pred EEecCCcCcCCcchHHHHHHHHhcCCceeEEeC---------CC-----CCCCc-chHHHHHHHHh-cCcEEEEeecC
Q 048215 10 VFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDD---------QL-----NRGYE-ISESLVKAIKA-SAISVIIFSED 71 (305)
Q Consensus 10 VFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~---------~~-----~~g~~-~~~~i~~ai~~-s~~~ivv~S~~ 71 (305)
||||-+..| +..+ -.+.+.|...|+++|--. .+ .++.. -.+.+.+.|.+ -++.+||..++
T Consensus 2 i~isv~d~~-K~~~-~~~a~~l~~~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~ 77 (112)
T cd00532 2 VFLSVSDHV-KAML-VDLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred EEEEEEccc-HHHH-HHHHHHHHHCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC
Confidence 688877666 2334 467777778888776532 01 11111 23678888888 88888888765
No 133
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=28.40 E-value=83 Score=24.86 Aligned_cols=56 Identities=11% Similarity=0.088 Sum_probs=40.4
Q ss_pred ccEEecCCcCcCCcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcE
Q 048215 8 YDVFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAIS 64 (305)
Q Consensus 8 ~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ 64 (305)
.++|+-..+.=....+++.|..|+..+|+-++.|-+ .+|+.|...+.+.+.++.-+
T Consensus 30 ~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~~~~~ 85 (127)
T COG1658 30 AGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPGAKGA 85 (127)
T ss_pred CceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhcccccc
Confidence 456666544322266889999999999999999864 37888888888877764443
No 134
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=28.39 E-value=2.6e+02 Score=27.35 Aligned_cols=70 Identities=10% Similarity=0.075 Sum_probs=44.0
Q ss_pred cCCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEc-CChHHHHhc-CCCceEEcCCCChHHHHHHHHHh
Q 048215 221 SCMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITT-RNKQVLRNW-GVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 221 ~~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTT-R~~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
.+++-++|+|++.. ....+.|...+....+...+|++| +...+.... ..-..+.+++++.++....+.+.
T Consensus 117 ~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i 190 (486)
T PRK14953 117 KGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRI 190 (486)
T ss_pred cCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHH
Confidence 35566899999874 355677777666555566666555 433333221 11246888899888877666654
No 135
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=28.28 E-value=90 Score=26.53 Aligned_cols=46 Identities=17% Similarity=0.307 Sum_probs=35.4
Q ss_pred HHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhc-------CcEEEEeecCcc
Q 048215 24 TSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKAS-------AISVIIFSEDYA 73 (305)
Q Consensus 24 ~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s-------~~~ivv~S~~y~ 73 (305)
-+.|.++|.+.|+..+- ..|+.+.|.+-+||... ...+-|+.+.|-
T Consensus 124 ~~~l~~~L~k~Gv~~i~----~~Ge~FDP~~HeAv~~~~~~~~~~~tVv~v~qkGY~ 176 (193)
T COG0576 124 LDQLLDALEKLGVEEIG----PEGEKFDPNLHEAVQRVESEDVEPNTVVEVLQKGYK 176 (193)
T ss_pred HHHHHHHHHHCCCEEeC----CCCCCCCHHHhhheeeecCCCCCCCeEEEEeecCee
Confidence 46788899999998765 37999999999998743 245667777774
No 136
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=27.73 E-value=1.7e+02 Score=30.59 Aligned_cols=30 Identities=13% Similarity=0.254 Sum_probs=23.3
Q ss_pred CCCcccccchhhhHHHhhccC-CCCceEeCC
Q 048215 172 KSQLVGVESRVEEIESLLSVE-SKDVYALGF 201 (305)
Q Consensus 172 ~~~~vG~~~~~~~l~~~L~~~-~~~v~ivGi 201 (305)
-+.++||+.++..+++.|+.- .++...||=
T Consensus 169 lDPvIGRd~EI~r~iqIL~RR~KNNPvLiGE 199 (786)
T COG0542 169 LDPVIGRDEEIRRTIQILSRRTKNNPVLVGE 199 (786)
T ss_pred CCCCcChHHHHHHHHHHHhccCCCCCeEecC
Confidence 356899999999999999754 344667775
No 137
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=27.66 E-value=68 Score=24.06 Aligned_cols=54 Identities=19% Similarity=0.297 Sum_probs=34.3
Q ss_pred cCcCCcchHHHHHHHHhcCCceeEEeC-CCC----------CCCcchHHHHHHHHhcCcEEEEee
Q 048215 16 GEDTLDDFTSHLYSALSRQNIQTFIDD-QLN----------RGYEISESLVKAIKASAISVIIFS 69 (305)
Q Consensus 16 ~~D~~~~f~~~L~~~L~~~gi~~f~d~-~~~----------~g~~~~~~i~~ai~~s~~~ivv~S 69 (305)
-.|+|.+=+-.|.+.|.+.|..+...| -.. .|-.+.+.+.+++++++..|+.-.
T Consensus 11 ~~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~ 75 (106)
T PF03720_consen 11 TDDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATD 75 (106)
T ss_dssp SS--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS-
T ss_pred CcccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEec
Confidence 358899999999999999999988866 321 123334456788888887766433
No 138
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=27.35 E-value=1.9e+02 Score=26.43 Aligned_cols=69 Identities=12% Similarity=0.117 Sum_probs=45.9
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhcC-CCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRNK-QVLRNWG-VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+.+=++|+|++. +.....+|...+..-. .+.+|++|.+. .++.... --..+.+++++.++..+.+.+.+
T Consensus 123 ~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~ 195 (314)
T PRK07399 123 APRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLG 195 (314)
T ss_pred CCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhh
Confidence 456678888886 4456677776665544 45666665443 4444331 13678999999999999888764
No 139
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=27.11 E-value=1.3e+02 Score=24.57 Aligned_cols=58 Identities=14% Similarity=0.059 Sum_probs=32.9
Q ss_pred hhhhhcCCceeEEeccCC---CHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhcCCCceEEc
Q 048215 216 NSRRLSCMKVLIVFDDVT---CFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNWGVRKICEM 275 (305)
Q Consensus 216 l~~~l~~kr~LlVLDdv~---~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~~~~~~~~v 275 (305)
+-..+..+.=+++||.-. +...-+.+...+.....|..||++|.+...+.. .++++.+
T Consensus 109 laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l 169 (178)
T cd03247 109 LARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIEH--MDKILFL 169 (178)
T ss_pred HHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHHh--CCEEEEE
Confidence 344455666788999765 222222222222212246789999998887753 4555554
No 140
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=26.44 E-value=53 Score=27.44 Aligned_cols=48 Identities=21% Similarity=0.197 Sum_probs=30.1
Q ss_pred hhhhhhhc-CCceeEEeccCCCHH-----HHHHHHhcCCCCCCCcEEEEEcCCh
Q 048215 214 DLNSRRLS-CMKVLIVFDDVTCFS-----QLESIIGSLDWLMPVSRTIITTRNK 261 (305)
Q Consensus 214 ~~l~~~l~-~kr~LlVLDdv~~~~-----~~~~l~~~~~~~~~gsrIIiTTR~~ 261 (305)
+..++.+. +.-=|||||.+...- ..+.+...+....++.-||+|-|+.
T Consensus 87 ~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~ 140 (173)
T TIGR00708 87 QHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC 140 (173)
T ss_pred HHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence 33444554 455799999985221 2334444444455677999999986
No 141
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=26.30 E-value=38 Score=24.56 Aligned_cols=25 Identities=20% Similarity=0.415 Sum_probs=16.5
Q ss_pred EEEEeecCcccchhhH--HHHHHHHHH
Q 048215 64 SVIIFSEDYASSRWCL--DELAEILEC 88 (305)
Q Consensus 64 ~ivv~S~~y~~S~~cl--~EL~~i~e~ 88 (305)
-|||||+.+.+.+||- ..+.++++.
T Consensus 9 ~vvvf~k~~~~~~~Cp~C~~ak~~L~~ 35 (90)
T cd03028 9 PVVLFMKGTPEEPRCGFSRKVVQILNQ 35 (90)
T ss_pred CEEEEEcCCCCCCCCcHHHHHHHHHHH
Confidence 5778899888888885 244444443
No 142
>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C. This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=26.29 E-value=1.4e+02 Score=25.33 Aligned_cols=59 Identities=12% Similarity=0.095 Sum_probs=32.4
Q ss_pred hhhhhcCCceeEEeccCC---CHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhcCCCceEEcC
Q 048215 216 NSRRLSCMKVLIVFDDVT---CFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNWGVRKICEME 276 (305)
Q Consensus 216 l~~~l~~kr~LlVLDdv~---~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~~~~~~~~v~ 276 (305)
+-..|..+.=+|+||+-. +...-+.+...+.....+..||++|.+...+.. .++++.+.
T Consensus 150 laral~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~i~~l~ 211 (221)
T cd03244 150 LARALLRKSKILVLDEATASVDPETDALIQKTIREAFKDCTVLTIAHRLDTIID--SDRILVLD 211 (221)
T ss_pred HHHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHhcCCCEEEEEeCCHHHHhh--CCEEEEEE
Confidence 334455566688899875 222222222222222335678888888776654 35555543
No 143
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=26.06 E-value=1.5e+02 Score=24.65 Aligned_cols=46 Identities=26% Similarity=0.334 Sum_probs=34.3
Q ss_pred HhcCCceeEE-e--CCC--CCCCcchHHHHHHHHhcCc-----EEEEeecCcccch
Q 048215 31 LSRQNIQTFI-D--DQL--NRGYEISESLVKAIKASAI-----SVIIFSEDYASSR 76 (305)
Q Consensus 31 L~~~gi~~f~-d--~~~--~~g~~~~~~i~~ai~~s~~-----~ivv~S~~y~~S~ 76 (305)
|.+.||+..+ | +-+ ..-..+.+++.+.+++++- .|+|+|.+.-++.
T Consensus 36 Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~ 91 (168)
T PF09419_consen 36 LKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSD 91 (168)
T ss_pred hhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCCCeEEEEECCCCccc
Confidence 8999999766 3 333 4457888999999988873 3899998876654
No 144
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=26.04 E-value=70 Score=27.19 Aligned_cols=49 Identities=22% Similarity=0.266 Sum_probs=32.0
Q ss_pred hhhhhhhhc-CCceeEEeccCCCHH-----HHHHHHhcCCCCCCCcEEEEEcCCh
Q 048215 213 NDLNSRRLS-CMKVLIVFDDVTCFS-----QLESIIGSLDWLMPVSRTIITTRNK 261 (305)
Q Consensus 213 ~~~l~~~l~-~kr~LlVLDdv~~~~-----~~~~l~~~~~~~~~gsrIIiTTR~~ 261 (305)
.+..++.+. ++-=|||||.+...- ..+.+...+....++.-||+|-|+.
T Consensus 104 ~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~ 158 (191)
T PRK05986 104 WEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA 158 (191)
T ss_pred HHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence 334455554 456799999986332 2445555555556777999999986
No 145
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=25.76 E-value=1.7e+02 Score=23.72 Aligned_cols=58 Identities=17% Similarity=0.199 Sum_probs=32.6
Q ss_pred hhhhhcCCceeEEeccCC---CHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhcCCCceEEc
Q 048215 216 NSRRLSCMKVLIVFDDVT---CFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNWGVRKICEM 275 (305)
Q Consensus 216 l~~~l~~kr~LlVLDdv~---~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~~~~~~~~v 275 (305)
+-..+..+.=+|+||+-. +....+.+...+.....+..||++|.+.+.+.. .++++.+
T Consensus 107 la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l 167 (171)
T cd03228 107 IARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD--ADRIIVL 167 (171)
T ss_pred HHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh--CCEEEEE
Confidence 344455666789999764 222222222222222235778999988877754 4555554
No 146
>TIGR03646 YtoQ_fam YtoQ family protein. Members of this family are uncharacterized proteins, including YtoQ from Bacillus subtilis. This family shows some sequence similarity to a family of nucleoside 2-deoxyribosyltransferases (COG3613 as iterated through CDD), but sufficiently remote that PSI-BLAST starting from YtoQ and exploring outwards does not discover the relationship.
Probab=25.68 E-value=1.2e+02 Score=24.24 Aligned_cols=41 Identities=24% Similarity=0.402 Sum_probs=26.0
Q ss_pred HHhcCCceeEEeCCCCCCCcchH-HHHHHHHhcCcEEEEeecCcc
Q 048215 30 ALSRQNIQTFIDDQLNRGYEISE-SLVKAIKASAISVIIFSEDYA 73 (305)
Q Consensus 30 ~L~~~gi~~f~d~~~~~g~~~~~-~i~~ai~~s~~~ivv~S~~y~ 73 (305)
-|..+--+.|.|+ .|-.+.. .....|++|++.||-|-+.|-
T Consensus 47 iLG~e~~~fw~D~---k~a~iNaiRT~~li~~aDvvVvrFGekYK 88 (144)
T TIGR03646 47 ILGKQPSNFWRDD---AAASINNIRTRKLIEKADVVIALFGEKYK 88 (144)
T ss_pred HhCCCCccccccc---cccchhhHHHHHHHhhCCEEEEEechHHH
Confidence 3444444455555 3333311 345679999999999998884
No 147
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=25.52 E-value=1.1e+02 Score=25.96 Aligned_cols=45 Identities=29% Similarity=0.364 Sum_probs=32.2
Q ss_pred cCCcchHHHHHHHHhcCC--ceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecC
Q 048215 18 DTLDDFTSHLYSALSRQN--IQTFIDDQLNRGYEISESLVKAIKASAISVIIFSED 71 (305)
Q Consensus 18 D~~~~f~~~L~~~L~~~g--i~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~ 71 (305)
|-.++|+..|++.|+..| +.++..+ .++.. .++..+--.+|+||.
T Consensus 8 DNyDSFtyNLv~yl~~lg~~v~V~rnd------~~~~~---~~~~~~pd~iviSPG 54 (191)
T COG0512 8 DNYDSFTYNLVQYLRELGAEVTVVRND------DISLE---LIEALKPDAIVISPG 54 (191)
T ss_pred ECccchHHHHHHHHHHcCCceEEEECC------ccCHH---HHhhcCCCEEEEcCC
Confidence 345689999999999977 5666644 22222 567777789999974
No 148
>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]
Probab=25.35 E-value=5.8e+02 Score=24.08 Aligned_cols=69 Identities=19% Similarity=0.183 Sum_probs=39.7
Q ss_pred CceeEEeccCCC----HHH---HHHHHhcCCCCCCCcEEEEEcCChHHH-------HhcCCCceEEcCCCChHHHHHHHH
Q 048215 223 MKVLIVFDDVTC----FSQ---LESIIGSLDWLMPVSRTIITTRNKQVL-------RNWGVRKICEMEALEYHHALELFS 288 (305)
Q Consensus 223 kr~LlVLDdv~~----~~~---~~~l~~~~~~~~~gsrIIiTTR~~~v~-------~~~~~~~~~~v~~L~~~ea~~Lf~ 288 (305)
-++..|||..+- ..| ..-+-..-....|-|-|-+|||..-+- ....-..+|-++.++-++-..++.
T Consensus 137 ~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r 216 (408)
T KOG2228|consen 137 GKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYR 216 (408)
T ss_pred ceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHH
Confidence 368889988762 122 111111111245778889999976332 112112366678888888888777
Q ss_pred Hhh
Q 048215 289 RHA 291 (305)
Q Consensus 289 ~~A 291 (305)
.--
T Consensus 217 ~ll 219 (408)
T KOG2228|consen 217 KLL 219 (408)
T ss_pred HHh
Confidence 543
No 149
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=25.20 E-value=3.2e+02 Score=27.55 Aligned_cols=70 Identities=11% Similarity=0.087 Sum_probs=47.0
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEc-CChHHHHhc-CCCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITT-RNKQVLRNW-GVRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTT-R~~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+++=++|+|++. +....+.|...+........+|++| ....+.... .-...+++..++.++..+.+.+.+
T Consensus 117 ~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~ 190 (584)
T PRK14952 117 SRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHHYPFRLLPPRTMRALIARIC 190 (584)
T ss_pred CCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHHhceEEEeeCCCHHHHHHHHHHHH
Confidence 455588999987 4567888888777766677766555 445554332 123578899999888776665543
No 150
>COG0634 Hpt Hypoxanthine-guanine phosphoribosyltransferase [Nucleotide transport and metabolism]
Probab=25.16 E-value=1.3e+02 Score=25.30 Aligned_cols=48 Identities=23% Similarity=0.048 Sum_probs=32.7
Q ss_pred hhhhhcCCceeEEeccCCCHHHHHHHHhcCCCCCCCcEEEEEcCChHH
Q 048215 216 NSRRLSCMKVLIVFDDVTCFSQLESIIGSLDWLMPVSRTIITTRNKQV 263 (305)
Q Consensus 216 l~~~l~~kr~LlVLDdv~~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v 263 (305)
+..-+++|.+|||=|=+++-..+..+...+...++.|--|+|==++..
T Consensus 87 ld~di~grdVLiVeDIiDsG~TLs~i~~~l~~r~a~sv~i~tLldK~~ 134 (178)
T COG0634 87 LDEDIKGRDVLIVEDIIDSGLTLSKVRDLLKERGAKSVRIATLLDKPE 134 (178)
T ss_pred cccCCCCCeEEEEecccccChhHHHHHHHHHhCCCCeEEEEEEeeCcc
Confidence 445566777777766667667788887777777888876666544433
No 151
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=24.64 E-value=48 Score=26.88 Aligned_cols=28 Identities=29% Similarity=0.568 Sum_probs=17.5
Q ss_pred cccccchhhhHHHhhcc--CC--CCceEeCC-C
Q 048215 175 LVGVESRVEEIESLLSV--ES--KDVYALGF-G 202 (305)
Q Consensus 175 ~vG~~~~~~~l~~~L~~--~~--~~v~ivGi-G 202 (305)
++||+..++++...|.. .. ..+.|+|- |
T Consensus 2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G 34 (185)
T PF13191_consen 2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESG 34 (185)
T ss_dssp -TT-HHHHHHHHHTTGGTSS-----EEE-B-TT
T ss_pred CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCC
Confidence 79999999999999942 11 12888898 7
No 152
>PRK14097 pgi glucose-6-phosphate isomerase; Provisional
Probab=24.58 E-value=2.2e+02 Score=27.66 Aligned_cols=35 Identities=6% Similarity=0.127 Sum_probs=17.5
Q ss_pred ceeEEeccCCCHHHHHHHHhcCCCCCCCcEEEEEcCCh
Q 048215 224 KVLIVFDDVTCFSQLESIIGSLDWLMPVSRTIITTRNK 261 (305)
Q Consensus 224 r~LlVLDdv~~~~~~~~l~~~~~~~~~gsrIIiTTR~~ 261 (305)
+...+.|+++ +.....+...++ ...+.+||+|.+-
T Consensus 112 ~~~f~~dn~D-p~~~~~~l~~l~--~~~tl~iViSKSG 146 (448)
T PRK14097 112 QIIFAGNSIS-STYLADLLEYLK--DKDFSINVISKSG 146 (448)
T ss_pred cEEEecCCCC-HHHHHHHHhhCC--CCcEEEEEEeCCC
Confidence 4455667775 333444433332 2455666666553
No 153
>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC) and plants, (Zea mays Ask1, Ask2, and Arabidopsis thaliana AK1). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Like the A. thaliana AK1 (AK1-AT), the E. coli AKIII (LysC) has two bound feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The lysine-sensitive plant isoenzyme is synergistically inhibited by S-adenosylmethionine. A homolog of this group appears to be the Saccharomyces cerevisiae AK (Hom3) which clusters with this group as well. Members of this CD
Probab=24.55 E-value=1.9e+02 Score=19.90 Aligned_cols=54 Identities=13% Similarity=0.220 Sum_probs=36.3
Q ss_pred CcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHHHHH
Q 048215 20 LDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDYASSRWCLDELAEILEC 88 (305)
Q Consensus 20 ~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i~e~ 88 (305)
..+|+..+.++|.+.||++..= + . .+..++++|-..+.....-|+++|.+.++.
T Consensus 14 ~~g~~~~if~~L~~~~I~v~~i-----~----~------s~~~is~~v~~~~~~~~~~~~~~~~~~l~~ 67 (75)
T cd04912 14 AHGFLAKVFEIFAKHGLSVDLI-----S----T------SEVSVSLTLDPTKNLSDQLLLDALVKDLSQ 67 (75)
T ss_pred CccHHHHHHHHHHHcCCeEEEE-----E----c------CCcEEEEEEEchhhccchHHHHHHHHHHHh
Confidence 4679999999999999998541 1 0 224566666654432323488888877775
No 154
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=24.53 E-value=2.1e+02 Score=28.35 Aligned_cols=70 Identities=14% Similarity=0.214 Sum_probs=44.0
Q ss_pred CCceeEEeccCCCHH---------H-----HHHHHhcCCCCC--CCcEEEEEcCChHHHHhc-----CCCceEEcCCCCh
Q 048215 222 CMKVLIVFDDVTCFS---------Q-----LESIIGSLDWLM--PVSRTIITTRNKQVLRNW-----GVRKICEMEALEY 280 (305)
Q Consensus 222 ~kr~LlVLDdv~~~~---------~-----~~~l~~~~~~~~--~gsrIIiTTR~~~v~~~~-----~~~~~~~v~~L~~ 280 (305)
+++++|+||+++... + +..+...+.... .+-.||.||-..+.+... ..+..++++..+.
T Consensus 288 g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~ 367 (512)
T TIGR03689 288 GRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDA 367 (512)
T ss_pred CCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCH
Confidence 468999999997431 1 123333232222 344567777665544321 2356789999999
Q ss_pred HHHHHHHHHhh
Q 048215 281 HHALELFSRHA 291 (305)
Q Consensus 281 ~ea~~Lf~~~A 291 (305)
++..++|..+.
T Consensus 368 e~r~~Il~~~l 378 (512)
T TIGR03689 368 EAAADIFSKYL 378 (512)
T ss_pred HHHHHHHHHHh
Confidence 99999998874
No 155
>PRK07132 DNA polymerase III subunit delta'; Validated
Probab=24.44 E-value=2.6e+02 Score=25.41 Aligned_cols=69 Identities=13% Similarity=0.216 Sum_probs=47.3
Q ss_pred CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEcCC-hHHHHhc-CCCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITTRN-KQVLRNW-GVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTTR~-~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+.+=++|+|++... .....|...+..-.+++.+|++|.+ ..++... .....+++.++++++..+.+...
T Consensus 89 ~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l~~~ 161 (299)
T PRK07132 89 SQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLLSK 161 (299)
T ss_pred CCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHHHHc
Confidence 46666777887644 4567777777777788888776644 4455432 22467899999999988766653
No 156
>PRK04132 replication factor C small subunit; Provisional
Probab=24.41 E-value=3.2e+02 Score=28.87 Aligned_cols=69 Identities=10% Similarity=0.132 Sum_probs=47.7
Q ss_pred CceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhcC-CCceEEcCCCChHHHHHHHHHhh
Q 048215 223 MKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRNK-QVLRNWG-VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 223 kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
+.-++|||+++. ..+...|...+......+++|++|.+. .+..... --..+.+++++.++-.+.+.+-+
T Consensus 630 ~~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~ 702 (846)
T PRK04132 630 SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIA 702 (846)
T ss_pred CCEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHH
Confidence 347999999985 457888888777666778877766554 3333221 13578999999888877666543
No 157
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=24.32 E-value=2e+02 Score=29.00 Aligned_cols=70 Identities=16% Similarity=0.148 Sum_probs=46.0
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEc-CChHHHHhcC-CCceEEcCCCChHHHHHHHHHhh
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITT-RNKQVLRNWG-VRKICEMEALEYHHALELFSRHA 291 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTT-R~~~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~A 291 (305)
.++=++|+|++.. ....+.|...+..-.+.+.+|++| ....+...+. --..++++.++.++....+.+.+
T Consensus 131 a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~ 204 (598)
T PRK09111 131 ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIA 204 (598)
T ss_pred CCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHH
Confidence 4455689999874 455777777776666677766555 4444443321 12578899999988877776643
No 158
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=24.29 E-value=2.3e+02 Score=19.10 Aligned_cols=59 Identities=20% Similarity=0.224 Sum_probs=35.6
Q ss_pred HHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHHHHHhhccce
Q 048215 24 TSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDYASSRWCLDELAEILECKKEHAQ 94 (305)
Q Consensus 24 ~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i~e~~~~~~~ 94 (305)
+.-|++.|++.|+.+=..+ . ...+++...-.++++++.+.-+. -.++..+.+..+..+.
T Consensus 7 ~~a~~~~L~~~g~~v~~~~------~----~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~ 65 (70)
T PF14258_consen 7 TYALYQLLEEQGVKVERWR------K----PYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNT 65 (70)
T ss_pred HHHHHHHHHHCCCeeEEec------c----cHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCE
Confidence 3567888888899873321 1 12344557888999999955543 3444455555444443
No 159
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=23.65 E-value=2.2e+02 Score=20.16 Aligned_cols=49 Identities=14% Similarity=0.249 Sum_probs=30.4
Q ss_pred cchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCc
Q 048215 21 DDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDY 72 (305)
Q Consensus 21 ~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y 72 (305)
...+-.|...|+..|+++.+|.. +..+...+..|-..---.++|+.++-
T Consensus 17 ~~~a~~la~~Lr~~g~~v~~d~~---~~~l~k~i~~a~~~g~~~~iiiG~~e 65 (94)
T cd00861 17 QELAEKLYAELQAAGVDVLLDDR---NERPGVKFADADLIGIPYRIVVGKKS 65 (94)
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCCcccchhHHHhcCCCEEEEECCch
Confidence 34677889999999999999862 23444444455333333455555443
No 160
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=23.24 E-value=3.8e+02 Score=24.71 Aligned_cols=68 Identities=13% Similarity=0.108 Sum_probs=48.3
Q ss_pred CceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhcC-CCceEEcCCCChHHHHHHHHHh
Q 048215 223 MKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITTRNK-QVLRNWG-VRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 223 kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~~-~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
.+=.+|+|++. +......|...+..-.+++.+|++|.+. .++...- --..+.+++++.+++.+.+...
T Consensus 108 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~ 179 (319)
T PRK06090 108 GYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQ 179 (319)
T ss_pred CceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHc
Confidence 33467778887 4566888888887777888888877765 4444432 1357889999999998877654
No 161
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=23.14 E-value=63 Score=27.12 Aligned_cols=47 Identities=13% Similarity=0.095 Sum_probs=30.5
Q ss_pred hhhhhhc-CCceeEEeccCCCH-----HHHHHHHhcCCCCCCCcEEEEEcCCh
Q 048215 215 LNSRRLS-CMKVLIVFDDVTCF-----SQLESIIGSLDWLMPVSRTIITTRNK 261 (305)
Q Consensus 215 ~l~~~l~-~kr~LlVLDdv~~~-----~~~~~l~~~~~~~~~gsrIIiTTR~~ 261 (305)
..++.+. +.-=|||||.+... -..+.+...+....++.-||+|-|+.
T Consensus 106 ~a~~~l~~~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evILTGR~~ 158 (178)
T PRK07414 106 YTQAVVDEGRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGPEM 158 (178)
T ss_pred HHHHHHhCCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEECCCC
Confidence 3444553 45679999998632 22344544455556778999999984
No 162
>TIGR00611 recf recF protein. All proteins in this family for which functions are known are DNA binding proteins that assist the filamentation of RecA onto DNA for the initiation of recombination or recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.07 E-value=96 Score=29.09 Aligned_cols=43 Identities=16% Similarity=0.155 Sum_probs=27.1
Q ss_pred cCCceeEEeccCCC---HHHHHHHHhcCCCCCCCcEEEEEcCChHHHH
Q 048215 221 SCMKVLIVFDDVTC---FSQLESIIGSLDWLMPVSRTIITTRNKQVLR 265 (305)
Q Consensus 221 ~~kr~LlVLDdv~~---~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~ 265 (305)
.+..-+|+|||+-. ..--+.+...+... |..|+|||.+.+...
T Consensus 300 ~~~~pilLLDD~~seLD~~~r~~l~~~l~~~--~~qv~it~~~~~~~~ 345 (365)
T TIGR00611 300 GGEYPILLLDDVASELDDQRRRLLAELLQSL--GVQVFVTAISLDHLK 345 (365)
T ss_pred cCCCCEEEEcCchhccCHHHHHHHHHHHhhc--CCEEEEEecChhhcc
Confidence 44678899999963 22334444444322 668999998876543
No 163
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=23.03 E-value=3.5e+02 Score=24.87 Aligned_cols=69 Identities=10% Similarity=0.108 Sum_probs=46.8
Q ss_pred CCceeEEeccCCC--HHHHHHHHhcCCCCCCCcEEEEEcCCh-HHHHhcCC-CceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVTC--FSQLESIIGSLDWLMPVSRTIITTRNK-QVLRNWGV-RKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~~--~~~~~~l~~~~~~~~~gsrIIiTTR~~-~v~~~~~~-~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+++=++|+|+++. ...-..|...+..-.+++.+|++|.+. .++...-. -..+.+.+++.+++.+.+...
T Consensus 112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~ 184 (319)
T PRK08769 112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQ 184 (319)
T ss_pred CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHc
Confidence 4455788898874 455677777776666788888888764 44433211 256788899999888777653
No 164
>PRK08350 hypothetical protein; Provisional
Probab=22.90 E-value=75 Score=29.51 Aligned_cols=33 Identities=12% Similarity=0.154 Sum_probs=29.4
Q ss_pred CCcccEEecCCcCcCCcchHHHHHHHHhcCCce
Q 048215 5 TKKYDVFVSFRGEDTLDDFTSHLYSALSRQNIQ 37 (305)
Q Consensus 5 ~~~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~ 37 (305)
...|-+.+|||.-+|..+|+.||.-++.--.|+
T Consensus 279 ~~g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 279 SERITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred HcCCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 346889999999999999999999999877776
No 165
>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.
Probab=22.18 E-value=1.9e+02 Score=24.76 Aligned_cols=58 Identities=21% Similarity=0.224 Sum_probs=32.0
Q ss_pred hhhhhcCCceeEEeccCC---CHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhcCCCceEEc
Q 048215 216 NSRRLSCMKVLIVFDDVT---CFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNWGVRKICEM 275 (305)
Q Consensus 216 l~~~l~~kr~LlVLDdv~---~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~~~~~~~~v 275 (305)
+-..|..+.=+|+||+-. +....+.+...+.....|..||++|.+.+.+.. .++++-+
T Consensus 150 la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~g~~vi~~sh~~~~~~~--~d~v~~l 210 (238)
T cd03249 150 IARALLRNPKILLLDEATSALDAESEKLVQEALDRAMKGRTTIVIAHRLSTIRN--ADLIAVL 210 (238)
T ss_pred HHHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHhcCCCEEEEEeCCHHHHhh--CCEEEEE
Confidence 334455566688899764 222222222222212257778888888877653 4555544
No 166
>PRK14096 pgi glucose-6-phosphate isomerase; Provisional
Probab=22.11 E-value=3e+02 Score=27.35 Aligned_cols=59 Identities=12% Similarity=0.241 Sum_probs=29.1
Q ss_pred CceEeCC-CcccccccccchhhhhhhhcC---CceeEEeccCCCHHHHHHHHhcCCCCCCCcEEEEEcCC
Q 048215 195 DVYALGF-GASVDENAIPGNDLNSRRLSC---MKVLIVFDDVTCFSQLESIIGSLDWLMPVSRTIITTRN 260 (305)
Q Consensus 195 ~v~ivGi-G~~v~e~~~~~~~~l~~~l~~---kr~LlVLDdv~~~~~~~~l~~~~~~~~~gsrIIiTTR~ 260 (305)
+|-+||| |+... ...+.+.|.. ..-+-++||+ ++.....+...+......+-+||+|.+
T Consensus 116 ~vV~IGIGGS~LG------p~~v~~AL~~~~~~~~~~f~dN~-Dp~~~~~~l~~l~~~~~~TLviViSKS 178 (528)
T PRK14096 116 DVLWIGIGGSALG------PQFVAEALQPNSDGLNIHFIDNT-DPDGIDRVLAELGDRLATTLVVVISKS 178 (528)
T ss_pred eEEEECCCcchHH------HHHHHHHHhhcCCCCcEEEEcCC-CHHHHHHHHHHhcCCCCcEEEEEEeCC
Confidence 4889999 74431 1222222221 1224566887 444554444433222345566666654
No 167
>PRK08181 transposase; Validated
Probab=21.89 E-value=49 Score=29.65 Aligned_cols=10 Identities=30% Similarity=0.584 Sum_probs=8.2
Q ss_pred ceeEEeccCC
Q 048215 224 KVLIVFDDVT 233 (305)
Q Consensus 224 r~LlVLDdv~ 233 (305)
-=||||||+.
T Consensus 168 ~dLLIIDDlg 177 (269)
T PRK08181 168 FDLLILDDLA 177 (269)
T ss_pred CCEEEEeccc
Confidence 4589999995
No 168
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=21.87 E-value=3.2e+02 Score=28.38 Aligned_cols=69 Identities=9% Similarity=0.057 Sum_probs=45.7
Q ss_pred CCceeEEeccCC--CHHHHHHHHhcCCCCCCCcEEEEEc-CChHHHHhc-CCCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVT--CFSQLESIIGSLDWLMPVSRTIITT-RNKQVLRNW-GVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~--~~~~~~~l~~~~~~~~~gsrIIiTT-R~~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+++-++|+|++. ....+.+|...+......+.+|++| ....+.... ..-..+++.+++.++....+...
T Consensus 117 g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~i 189 (725)
T PRK07133 117 SKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFI 189 (725)
T ss_pred CCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhceeEEccCCCHHHHHHHHHHH
Confidence 556688999987 4466888887776655566655554 444554332 11257899999999887777653
No 169
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=21.77 E-value=2.3e+02 Score=27.28 Aligned_cols=70 Identities=10% Similarity=0.162 Sum_probs=41.1
Q ss_pred CceeEEeccCCCH---HHH-HHHHhcCCC-CCCCcEEEEEcC-ChHHHH--------hcCCCceEEcCCCChHHHHHHHH
Q 048215 223 MKVLIVFDDVTCF---SQL-ESIIGSLDW-LMPVSRTIITTR-NKQVLR--------NWGVRKICEMEALEYHHALELFS 288 (305)
Q Consensus 223 kr~LlVLDdv~~~---~~~-~~l~~~~~~-~~~gsrIIiTTR-~~~v~~--------~~~~~~~~~v~~L~~~ea~~Lf~ 288 (305)
..-+|+|||+... ..+ +.+...+.. ...|..||+||. ...-+. .+...-..++++.+.+.-..++.
T Consensus 194 ~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~ 273 (440)
T PRK14088 194 KVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIAR 273 (440)
T ss_pred cCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHH
Confidence 4458999999732 111 122221111 123557888874 332222 22234577899999999999988
Q ss_pred Hhhc
Q 048215 289 RHAF 292 (305)
Q Consensus 289 ~~Af 292 (305)
+.|-
T Consensus 274 ~~~~ 277 (440)
T PRK14088 274 KMLE 277 (440)
T ss_pred HHHH
Confidence 8764
No 170
>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.
Probab=21.65 E-value=1.1e+02 Score=24.70 Aligned_cols=53 Identities=11% Similarity=0.134 Sum_probs=32.0
Q ss_pred CceeEEeccCC---CHHHHHHHHhcCCC-CCCCcEEEEEcCChHHHHhcCCCceEEcCC
Q 048215 223 MKVLIVFDDVT---CFSQLESIIGSLDW-LMPVSRTIITTRNKQVLRNWGVRKICEMEA 277 (305)
Q Consensus 223 kr~LlVLDdv~---~~~~~~~l~~~~~~-~~~gsrIIiTTR~~~v~~~~~~~~~~~v~~ 277 (305)
+.-|++||+.. +...-..+...+.. ...|+.+|+||.+.+++... +..+.+.+
T Consensus 99 ~~~llllDEp~~gld~~~~~~l~~~l~~~~~~~~~vii~TH~~~~~~~~--d~~~~l~~ 155 (162)
T cd03227 99 PRPLYILDEIDRGLDPRDGQALAEAILEHLVKGAQVIVITHLPELAELA--DKLIHIKK 155 (162)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhh--hhEEEEEE
Confidence 67899999885 33222222222211 11278999999999988753 45565543
No 171
>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL. Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.
Probab=21.59 E-value=1.4e+02 Score=25.31 Aligned_cols=59 Identities=8% Similarity=0.075 Sum_probs=32.5
Q ss_pred hhhhcCCceeEEeccCC---CHHHHHHHHhcCCCC-CCCcEEEEEcCChHHHHhcCCCceEEcC
Q 048215 217 SRRLSCMKVLIVFDDVT---CFSQLESIIGSLDWL-MPVSRTIITTRNKQVLRNWGVRKICEME 276 (305)
Q Consensus 217 ~~~l~~kr~LlVLDdv~---~~~~~~~l~~~~~~~-~~gsrIIiTTR~~~v~~~~~~~~~~~v~ 276 (305)
-..|....-+++||.-- +....+.+...+... ..|..||++|.+...+..+ .+.++.+.
T Consensus 161 aral~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~g~tii~vsH~~~~~~~~-~d~i~~~~ 223 (224)
T TIGR02324 161 ARGFIADYPILLLDEPTASLDAANRQVVVELIAEAKARGAALIGIFHDEEVRELV-ADRVMDVT 223 (224)
T ss_pred HHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHh-cceeEecC
Confidence 33444556688999764 333222222222221 2467899999998877644 24555543
No 172
>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains. The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.
Probab=21.56 E-value=1.4e+02 Score=25.32 Aligned_cols=58 Identities=14% Similarity=0.191 Sum_probs=34.8
Q ss_pred hhhhcCCceeEEeccCC---CHHHHH-HHHhcCCCCC-C-CcEEEEEcCChHHHHhcCCCceEEcC
Q 048215 217 SRRLSCMKVLIVFDDVT---CFSQLE-SIIGSLDWLM-P-VSRTIITTRNKQVLRNWGVRKICEME 276 (305)
Q Consensus 217 ~~~l~~kr~LlVLDdv~---~~~~~~-~l~~~~~~~~-~-gsrIIiTTR~~~v~~~~~~~~~~~v~ 276 (305)
...+....-+++||+.- +....+ .+...+.... . |..||++|.+.+.+.. .+.++.++
T Consensus 133 a~al~~~p~illlDEP~~~LD~~~~~~~l~~~l~~~~~~~~~~iiiitH~~~~~~~--~d~i~~l~ 196 (204)
T cd03240 133 AETFGSNCGILALDEPTTNLDEENIEESLAEIIEERKSQKNFQLIVITHDEELVDA--ADHIYRVE 196 (204)
T ss_pred HHHhccCCCEEEEcCCccccCHHHHHHHHHHHHHHHHhccCCEEEEEEecHHHHhh--CCEEEEEe
Confidence 34556677889999875 232233 3333332222 2 6678999998887654 45666664
No 173
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=21.43 E-value=2e+02 Score=25.90 Aligned_cols=51 Identities=12% Similarity=0.129 Sum_probs=34.7
Q ss_pred cchHHHHHHHHhcC----CceeEEeCCCCCCC-cchHHHHHHHHhc---CcEEEEeecC
Q 048215 21 DDFTSHLYSALSRQ----NIQTFIDDQLNRGY-EISESLVKAIKAS---AISVIIFSED 71 (305)
Q Consensus 21 ~~f~~~L~~~L~~~----gi~~f~d~~~~~g~-~~~~~i~~ai~~s---~~~ivv~S~~ 71 (305)
..|+..|.+.+... ++.+.++-.+..|. .+-..+.+.+++- ++.++-|++=
T Consensus 2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w 60 (325)
T PF07693_consen 2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAW 60 (325)
T ss_pred hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccc
Confidence 45888888888753 66667777778885 3444556666655 5677777763
No 174
>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=21.28 E-value=2.2e+02 Score=24.36 Aligned_cols=58 Identities=17% Similarity=0.149 Sum_probs=33.3
Q ss_pred hhhhhcCCceeEEeccCC---CHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhcCCCceEEc
Q 048215 216 NSRRLSCMKVLIVFDDVT---CFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNWGVRKICEM 275 (305)
Q Consensus 216 l~~~l~~kr~LlVLDdv~---~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~~~~~~~~v 275 (305)
+-..|..+.=+|+||.-. +....+.+...+.....|..||++|.+...+.. .++++.+
T Consensus 148 la~aL~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tiii~sh~~~~~~~--~d~~~~l 208 (236)
T cd03253 148 IARAILKNPPILLLDEATSALDTHTEREIQAALRDVSKGRTTIVIAHRLSTIVN--ADKIIVL 208 (236)
T ss_pred HHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEEcCCHHHHHh--CCEEEEE
Confidence 445566777889999764 222222222222222226678888888877754 4455544
No 175
>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=21.20 E-value=2.1e+02 Score=24.45 Aligned_cols=57 Identities=18% Similarity=0.254 Sum_probs=31.4
Q ss_pred hhhhcCCceeEEeccCC---CHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhcCCCceEEc
Q 048215 217 SRRLSCMKVLIVFDDVT---CFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNWGVRKICEM 275 (305)
Q Consensus 217 ~~~l~~kr~LlVLDdv~---~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~~~~~~~~v 275 (305)
-..|..+.=+++||+-- +...-+.+...+.....|..||++|.+...+.. .++++.+
T Consensus 150 a~al~~~p~lllLDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~v~~l 209 (234)
T cd03251 150 ARALLKDPPILILDEATSALDTESERLVQAALERLMKNRTTFVIAHRLSTIEN--ADRIVVL 209 (234)
T ss_pred HHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHhh--CCEEEEe
Confidence 34444555688889764 222222222222222236678888888877754 4555544
No 176
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=21.17 E-value=3.5e+02 Score=27.47 Aligned_cols=69 Identities=9% Similarity=0.097 Sum_probs=44.9
Q ss_pred CCceeEEeccCCCH--HHHHHHHhcCCCCCCCcEEEEEc-CChHHHHhc-CCCceEEcCCCChHHHHHHHHHh
Q 048215 222 CMKVLIVFDDVTCF--SQLESIIGSLDWLMPVSRTIITT-RNKQVLRNW-GVRKICEMEALEYHHALELFSRH 290 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--~~~~~l~~~~~~~~~gsrIIiTT-R~~~v~~~~-~~~~~~~v~~L~~~ea~~Lf~~~ 290 (305)
+.+-++|+|++... ...+.|...+..-.+.+.+|++| +...+.... .....+++.+++.++....+.+.
T Consensus 126 ~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i 198 (620)
T PRK14954 126 GRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLDEIQSQLQMI 198 (620)
T ss_pred CCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhhceEEecCCCCHHHHHHHHHHH
Confidence 44557899998754 45777777776655666665555 445554432 22467899999988877666543
No 177
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=21.09 E-value=2.7e+02 Score=22.38 Aligned_cols=84 Identities=17% Similarity=0.281 Sum_probs=47.0
Q ss_pred HHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHHHHHhhc-cceE--------
Q 048215 25 SHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKASAISVIIFSEDYASSRWCLDELAEILECKKE-HAQI-------- 95 (305)
Q Consensus 25 ~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i~e~~~~-~~~v-------- 95 (305)
..|..+|...|+...+ ..|+.. +.+.+-+++..+..|++...|.... ...-..+.+.... .-.+
T Consensus 56 ~~L~~~L~~~g~~L~v----~~g~~~-~~l~~l~~~~~~~~V~~~~~~~~~~--~~rd~~v~~~l~~~~i~~~~~~~~~L 128 (165)
T PF00875_consen 56 ADLQESLRKLGIPLLV----LRGDPE-EVLPELAKEYGATAVYFNEEYTPYE--RRRDERVRKALKKHGIKVHTFDDHTL 128 (165)
T ss_dssp HHHHHHHHHTTS-EEE----EESSHH-HHHHHHHHHHTESEEEEE---SHHH--HHHHHHHHHHHHHTTSEEEEE--SSS
T ss_pred HHHHHHHHhcCcceEE----EecchH-HHHHHHHHhcCcCeeEeccccCHHH--HHHHHHHHHHHHhcceEEEEECCcEE
Confidence 4577788888998655 355533 5566667888899999999888742 2222233332222 1222
Q ss_pred ----EEEeCCCCchHHHHHHHHHh
Q 048215 96 ----YVRNQTGSFGDSFSKLEERF 115 (305)
Q Consensus 96 ----~Vr~q~g~f~~af~~~~~~~ 115 (305)
++....|..-+.|..+.++.
T Consensus 129 ~~~~~i~~~~~~~~~vFtpf~k~~ 152 (165)
T PF00875_consen 129 VPPDDIPKKDGEPYKVFTPFRKKW 152 (165)
T ss_dssp S-HHHCHSTTSSSHSSHHHHHHHH
T ss_pred EeccccccCCCCCcccHHHHHHHH
Confidence 45556666666776655554
No 178
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=21.05 E-value=53 Score=25.81 Aligned_cols=32 Identities=13% Similarity=0.151 Sum_probs=24.4
Q ss_pred CcchHHHHHHHHhcCCceeEEeC-CC---CCCCcch
Q 048215 20 LDDFTSHLYSALSRQNIQTFIDD-QL---NRGYEIS 51 (305)
Q Consensus 20 ~~~f~~~L~~~L~~~gi~~f~d~-~~---~~g~~~~ 51 (305)
-..++..||+.|...|+.++.|+ .- ..|..+.
T Consensus 42 ~~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~ 77 (128)
T cd02426 42 LRDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLD 77 (128)
T ss_pred HHHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHH
Confidence 35678999999999999999988 32 4555553
No 179
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=21.02 E-value=81 Score=22.08 Aligned_cols=29 Identities=21% Similarity=0.259 Sum_probs=25.0
Q ss_pred EEecCCcCcCCcchHHHHHHHHhcCCceeE
Q 048215 10 VFVSFRGEDTLDDFTSHLYSALSRQNIQTF 39 (305)
Q Consensus 10 VFis~~~~D~~~~f~~~L~~~L~~~gi~~f 39 (305)
+-|++.|+| +.+.+..+...|.++|.++-
T Consensus 2 ~iltv~g~D-r~GiVa~vs~~la~~g~nI~ 30 (77)
T cd04893 2 LVISALGTD-RPGILNELTRAVSESGCNIL 30 (77)
T ss_pred EEEEEEeCC-CChHHHHHHHHHHHcCCCEE
Confidence 457788999 78899999999999999863
No 180
>PF11071 DUF2872: Protein of unknown function (DUF2872); InterPro: IPR019884 This entry represents a family of uncharacterised proteins, including YtoQ from Bacillus subtilis. This family shows some sequence similarity to a family of nucleoside 2-deoxyribosyltransferases (COG3613 as iterated through CDD), but sufficiently remote that PSI-BLAST starting from YtoQ and exploring outwards does not discover the relationship.
Probab=20.78 E-value=1.6e+02 Score=23.45 Aligned_cols=59 Identities=20% Similarity=0.290 Sum_probs=34.0
Q ss_pred ecCCcCcCCcchHHHHH-HHHhcCCceeEEeCCCCCCCcchH-HHHHHHHhcCcEEEEeecCcc
Q 048215 12 VSFRGEDTLDDFTSHLY-SALSRQNIQTFIDDQLNRGYEISE-SLVKAIKASAISVIIFSEDYA 73 (305)
Q Consensus 12 is~~~~D~~~~f~~~L~-~~L~~~gi~~f~d~~~~~g~~~~~-~i~~ai~~s~~~ivv~S~~y~ 73 (305)
|.|.++-|...=-+..- +-|..+-=+.|.|. .|..+.. .....|++|++.||-|.+.|-
T Consensus 25 v~F~~PvtdH~~SD~~G~~iLG~e~~~fw~D~---k~a~iN~iRT~~li~~aDvVVvrFGekYK 85 (141)
T PF11071_consen 25 VEFTSPVTDHEASDDCGVDILGEEPNKFWRDH---KGAKINAIRTRTLIEKADVVVVRFGEKYK 85 (141)
T ss_pred eEEecCCCCchhhhhhhHHHhCCCCccccccc---hhhhhhHHHHHHHHhhCCEEEEEechHHH
Confidence 34445544333333333 34555555567765 2323311 345679999999999999884
No 181
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=20.77 E-value=81 Score=26.83 Aligned_cols=49 Identities=20% Similarity=0.235 Sum_probs=31.9
Q ss_pred hhhhhhhhcC-CceeEEeccCC-----CHHHHHHHHhcCCCCCCCcEEEEEcCCh
Q 048215 213 NDLNSRRLSC-MKVLIVFDDVT-----CFSQLESIIGSLDWLMPVSRTIITTRNK 261 (305)
Q Consensus 213 ~~~l~~~l~~-kr~LlVLDdv~-----~~~~~~~l~~~~~~~~~gsrIIiTTR~~ 261 (305)
-+..++.+.+ +-=|+|||.+. ..-.++.+...+.......-||+|-|..
T Consensus 111 w~~a~~~l~~~~ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~vIiTGr~a 165 (198)
T COG2109 111 WEHAKEALADGKYDLVILDELNYALRYGLLPLEEVVALLKARPEHTHVIITGRGA 165 (198)
T ss_pred HHHHHHHHhCCCCCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcEEEEECCCC
Confidence 3444556655 45688999885 2233555555555556778899999984
No 182
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=20.60 E-value=4.4e+02 Score=27.21 Aligned_cols=70 Identities=14% Similarity=0.281 Sum_probs=43.2
Q ss_pred CCceeEEeccCCCH--------------HHHHHHHhcCCCC--CCCcEEEEEcCChHHHHhc-----CCCceEEcCCCCh
Q 048215 222 CMKVLIVFDDVTCF--------------SQLESIIGSLDWL--MPVSRTIITTRNKQVLRNW-----GVRKICEMEALEY 280 (305)
Q Consensus 222 ~kr~LlVLDdv~~~--------------~~~~~l~~~~~~~--~~gsrIIiTTR~~~v~~~~-----~~~~~~~v~~L~~ 280 (305)
....+|++|+++.. .....+...+... ..+--||.||...+.+... ..+..+.++..+.
T Consensus 545 ~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~ 624 (733)
T TIGR01243 545 AAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDE 624 (733)
T ss_pred cCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCH
Confidence 45689999998632 1122333333322 2344567778766655421 2367888999999
Q ss_pred HHHHHHHHHhh
Q 048215 281 HHALELFSRHA 291 (305)
Q Consensus 281 ~ea~~Lf~~~A 291 (305)
++-.++|..+.
T Consensus 625 ~~R~~i~~~~~ 635 (733)
T TIGR01243 625 EARKEIFKIHT 635 (733)
T ss_pred HHHHHHHHHHh
Confidence 99999987654
No 183
>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional
Probab=20.46 E-value=1.7e+02 Score=25.38 Aligned_cols=52 Identities=19% Similarity=0.026 Sum_probs=28.8
Q ss_pred hhhhhcCCceeEEeccCC---CHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhc
Q 048215 216 NSRRLSCMKVLIVFDDVT---CFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNW 267 (305)
Q Consensus 216 l~~~l~~kr~LlVLDdv~---~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~ 267 (305)
+-..|..+.=+|+||.-- +......+...+.....|..||++|.+...+..+
T Consensus 158 laral~~~p~lllLDEPt~~LD~~~~~~l~~~l~~~~~~~tilivsh~~~~~~~~ 212 (251)
T PRK14249 158 IARVLAIEPEVILMDEPCSALDPVSTMRIEELMQELKQNYTIAIVTHNMQQAARA 212 (251)
T ss_pred HHHHHhcCCCEEEEeCCCccCCHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHhh
Confidence 344455667788999753 3222222222222122467888888887766543
No 184
>PF01113 DapB_N: Dihydrodipicolinate reductase, N-terminus; InterPro: IPR000846 Dihydrodipicolinate reductase catalyzes the second step in the biosynthesis of diaminopimelic acid and lysine, the NAD or NADP-dependent reduction of 2,3-dihydrodipicolinate into 2,3,4,5-tetrahydrodipicolinate [, , ]. In Escherichia coli and Mycobacterium tuberculosis, dihydrodipicolinate reductase has equal specificity for NADH and NADPH, however in Thermotoga maritima there it has a greater affinity for NADPH []. In addition, the enzyme is inhibited by high concentrations of its substrate, which consequently acts as a feedback control on the lysine biosynthesis pathway. In T. maritima, the enzyme also lacks N-terminal and C-terminal loops which are present in enzyme of the former two organisms. This entry represents the N-terminal domain of dihydrodipicolinate reductase which binds the dinucleotide NAD(P)H.; GO: 0008839 dihydrodipicolinate reductase activity, 0009089 lysine biosynthetic process via diaminopimelate, 0055114 oxidation-reduction process; PDB: 3QY9_D 1VM6_C 1ARZ_A 1DIH_A 1DRW_A 1DRV_A 1DRU_A 2DAP_A 1DAP_B 3DAP_A ....
Probab=20.45 E-value=2e+02 Score=22.14 Aligned_cols=56 Identities=16% Similarity=0.307 Sum_probs=25.3
Q ss_pred ccEEecCCcCcCCcchHHHHHHHHhcCCceeEEeCCCCCCCcchHHHHHHHHh-cCcEEEEeecCc
Q 048215 8 YDVFVSFRGEDTLDDFTSHLYSALSRQNIQTFIDDQLNRGYEISESLVKAIKA-SAISVIIFSEDY 72 (305)
Q Consensus 8 ~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~f~d~~~~~g~~~~~~i~~ai~~-s~~~ivv~S~~y 72 (305)
.||-|-|+.++ ...+++..+++. |+++-.- ---++++-.+.|++ ++..=+++|+||
T Consensus 68 ~DVvIDfT~p~---~~~~~~~~~~~~-g~~~ViG-----TTG~~~~~~~~l~~~a~~~~vl~a~Nf 124 (124)
T PF01113_consen 68 ADVVIDFTNPD---AVYDNLEYALKH-GVPLVIG-----TTGFSDEQIDELEELAKKIPVLIAPNF 124 (124)
T ss_dssp -SEEEEES-HH---HHHHHHHHHHHH-T-EEEEE------SSSHHHHHHHHHHHTTTSEEEE-SSS
T ss_pred CCEEEEcCChH---HhHHHHHHHHhC-CCCEEEE-----CCCCCHHHHHHHHHHhccCCEEEeCCC
Confidence 67777777554 334444444443 6654331 11223333444444 444556667765
No 185
>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=20.36 E-value=1.2e+02 Score=25.93 Aligned_cols=51 Identities=12% Similarity=0.062 Sum_probs=29.1
Q ss_pred hhhhhcCCceeEEeccCC---CHHHHHHHHhcCCCCC--CCcEEEEEcCChHHHHh
Q 048215 216 NSRRLSCMKVLIVFDDVT---CFSQLESIIGSLDWLM--PVSRTIITTRNKQVLRN 266 (305)
Q Consensus 216 l~~~l~~kr~LlVLDdv~---~~~~~~~l~~~~~~~~--~gsrIIiTTR~~~v~~~ 266 (305)
+-..+..+.=+++||+.- +....+.+...+.... .|..||++|.+...+..
T Consensus 141 laral~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~~~tiii~sh~~~~~~~ 196 (232)
T cd03300 141 IARALVNEPKVLLLDEPLGALDLKLRKDMQLELKRLQKELGITFVFVTHDQEEALT 196 (232)
T ss_pred HHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEeCCHHHHHH
Confidence 334455666788899864 3333333333332222 37788888888776543
No 186
>PTZ00202 tuzin; Provisional
Probab=20.35 E-value=3e+02 Score=27.07 Aligned_cols=76 Identities=20% Similarity=0.264 Sum_probs=42.0
Q ss_pred HHHHHhhcccccccCCCCc-hhhh-hhhhhhhhhhhccccc---cCCCCCCCCcccccchhhhHHHhhccCCCC----ce
Q 048215 127 KGLREVAGLSGFHYRSIRP-ESEL-INEVVNNILKRLLEEV---FRPRDNKSQLVGVESRVEEIESLLSVESKD----VY 197 (305)
Q Consensus 127 ~aL~ev~~~~G~~~~~~~~-e~~~-I~~Iv~~v~~~l~~~~---~s~~~~~~~~vG~~~~~~~l~~~L~~~~~~----v~ 197 (305)
-|+--++...||++++... +..+ ..--++..++.+++.. .+-+.+..+++||+.+...|...|...+.. +.
T Consensus 211 ~a~lgv~~vF~wn~r~y~rqQR~~Ql~~Av~tL~~~~~~~~~~~~~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privv 290 (550)
T PTZ00202 211 VALLGVASVFGWNFKNYRTQQRSYQLKVAVSTLTQPLNPRPSTLQSAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVV 290 (550)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhcccCCCcccccCCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEE
Confidence 3444556666777765543 1111 1122233333332211 111256788999999999999999753333 45
Q ss_pred EeCC-C
Q 048215 198 ALGF-G 202 (305)
Q Consensus 198 ivGi-G 202 (305)
|+|. |
T Consensus 291 LtG~~G 296 (550)
T PTZ00202 291 FTGFRG 296 (550)
T ss_pred EECCCC
Confidence 6777 6
No 187
>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1). NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.
Probab=20.34 E-value=2.2e+02 Score=23.84 Aligned_cols=57 Identities=18% Similarity=0.163 Sum_probs=32.3
Q ss_pred hhhhcCCceeEEeccCC---CHHHHHHHHhcCCCCCCCcEEEEEcCChHHHHhcCCCceEEc
Q 048215 217 SRRLSCMKVLIVFDDVT---CFSQLESIIGSLDWLMPVSRTIITTRNKQVLRNWGVRKICEM 275 (305)
Q Consensus 217 ~~~l~~kr~LlVLDdv~---~~~~~~~l~~~~~~~~~gsrIIiTTR~~~v~~~~~~~~~~~v 275 (305)
-..+..+.=+++||+-. +....+.+...+.....|..||++|.+...+.. .+.++.+
T Consensus 137 aral~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tiii~th~~~~~~~--~d~v~~l 196 (207)
T cd03369 137 ARALLKRPRVLVLDEATASIDYATDALIQKTIREEFTNSTILTIAHRLRTIID--YDKILVM 196 (207)
T ss_pred HHHHhhCCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEEeCCHHHHhh--CCEEEEE
Confidence 34445566778889764 333333333322222347788888888877654 3555554
No 188
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=20.25 E-value=4.4e+02 Score=20.81 Aligned_cols=56 Identities=20% Similarity=0.172 Sum_probs=38.3
Q ss_pred HHHHHhcCCceeEEeCCCCCCCcc-hHHHHHHHHhcCcEEEEeecCcccchhhHHHHHHHHH
Q 048215 27 LYSALSRQNIQTFIDDQLNRGYEI-SESLVKAIKASAISVIIFSEDYASSRWCLDELAEILE 87 (305)
Q Consensus 27 L~~~L~~~gi~~f~d~~~~~g~~~-~~~i~~ai~~s~~~ivv~S~~y~~S~~cl~EL~~i~e 87 (305)
+...|+.+|+.+.. -|... .+++.+++.+-+.-+|.+|--...+.--+.++...++
T Consensus 23 v~~~lr~~G~eVi~-----LG~~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~L~ 79 (137)
T PRK02261 23 LDRALTEAGFEVIN-----LGVMTSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLREKCI 79 (137)
T ss_pred HHHHHHHCCCEEEE-----CCCCCCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHHHHH
Confidence 44578899999866 55444 3679999999999888888555554444455554444
No 189
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=20.22 E-value=1e+02 Score=25.11 Aligned_cols=27 Identities=22% Similarity=0.214 Sum_probs=22.6
Q ss_pred cCcCCcchHHHHHHHHhcCCceeEEeC
Q 048215 16 GEDTLDDFTSHLYSALSRQNIQTFIDD 42 (305)
Q Consensus 16 ~~D~~~~f~~~L~~~L~~~gi~~f~d~ 42 (305)
..|+...|...|.++|+++|+-+-.++
T Consensus 58 ~q~~~D~Fg~aL~~aLR~~GYaV~e~~ 84 (151)
T PRK13883 58 QQPTPDAFGQALVKALRDKGYALLEYN 84 (151)
T ss_pred ecCCCcHHHHHHHHHHHHcCeEEEecC
Confidence 346677899999999999999987655
No 190
>PF07429 Glyco_transf_56: 4-alpha-L-fucosyltransferase glycosyl transferase group 56; InterPro: IPR009993 This family contains the bacterial enzyme 4-alpha-L-fucosyltransferase (Fuc4NAc transferase) (approximately 360 residues long). This catalyses the synthesis of Fuc4NAc-ManNAcA-GlcNAc-PP-Und (lipid III) as part of the biosynthetic pathway of enterobacterial common antigen (ECA), a polysaccharide comprised of the trisaccharide repeat unit Fuc4NAc-ManNAcA-GlcNAc [].; GO: 0008417 fucosyltransferase activity, 0009246 enterobacterial common antigen biosynthetic process, 0009276 Gram-negative-bacterium-type cell wall
Probab=20.17 E-value=1e+02 Score=28.84 Aligned_cols=47 Identities=15% Similarity=0.330 Sum_probs=26.1
Q ss_pred HHHHHHhcCCceeEEeC-CCCCCCcchHHHHHHHHhcC-cEEEEeecCccc
Q 048215 26 HLYSALSRQNIQTFIDD-QLNRGYEISESLVKAIKASA-ISVIIFSEDYAS 74 (305)
Q Consensus 26 ~L~~~L~~~gi~~f~d~-~~~~g~~~~~~i~~ai~~s~-~~ivv~S~~y~~ 74 (305)
-+++.|..+|+.+|+++ ++. +..+.++ .+-+...+ -.|..|+|||..
T Consensus 299 p~~~~l~~~~ipVlf~~d~L~-~~~v~ea-~rql~~~dk~~iaFf~pny~~ 347 (360)
T PF07429_consen 299 PFWQDLKEQGIPVLFYGDELD-EALVREA-QRQLANVDKQQIAFFAPNYLQ 347 (360)
T ss_pred hHHHHHHhCCCeEEeccccCC-HHHHHHH-HHHHhhCcccceeeeCCchHH
Confidence 45677888899887753 322 2222111 11122232 346688999987
Done!