Query 045329
Match_columns 404
No_of_seqs 141 out of 239
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 12:10:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045329.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045329hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3928 Mitochondrial ribosome 100.0 2.7E-67 5.9E-72 528.0 22.3 344 1-389 1-367 (461)
2 PF10236 DAP3: Mitochondrial r 100.0 1.3E-54 2.8E-59 429.7 19.0 214 160-398 1-222 (309)
3 PF01637 Arch_ATPase: Archaeal 97.2 0.00059 1.3E-08 62.4 5.2 35 192-226 22-56 (234)
4 PF13191 AAA_16: AAA ATPase do 97.1 0.00077 1.7E-08 60.1 5.6 35 192-226 26-60 (185)
5 PF05729 NACHT: NACHT domain 96.8 0.002 4.3E-08 56.0 5.1 27 192-218 2-28 (166)
6 TIGR03420 DnaA_homol_Hda DnaA 96.7 0.0038 8.3E-08 58.1 6.4 34 192-225 40-73 (226)
7 PF13245 AAA_19: Part of AAA d 96.6 0.0032 6.9E-08 50.6 4.8 32 193-224 13-48 (76)
8 PF13173 AAA_14: AAA domain 96.6 0.0026 5.6E-08 54.9 4.4 34 191-224 3-37 (128)
9 PRK06851 hypothetical protein; 96.5 0.0049 1.1E-07 63.5 6.5 38 190-227 214-251 (367)
10 cd01123 Rad51_DMC1_radA Rad51_ 96.5 0.025 5.4E-07 53.1 10.7 27 191-217 20-46 (235)
11 cd00009 AAA The AAA+ (ATPases 96.5 0.0036 7.8E-08 52.0 4.4 36 191-226 20-55 (151)
12 PF03266 NTPase_1: NTPase; In 96.4 0.0032 7E-08 57.7 3.7 29 192-220 1-29 (168)
13 PF13086 AAA_11: AAA domain; P 96.3 0.0049 1.1E-07 56.3 4.7 22 193-214 20-41 (236)
14 cd01120 RecA-like_NTPases RecA 96.3 0.0059 1.3E-07 52.5 4.8 34 193-226 2-35 (165)
15 PRK06835 DNA replication prote 96.3 0.0079 1.7E-07 61.0 6.3 93 130-228 117-221 (329)
16 PRK08903 DnaA regulatory inact 96.3 0.0053 1.2E-07 57.7 4.7 37 192-228 44-80 (227)
17 PRK08084 DNA replication initi 96.2 0.006 1.3E-07 58.4 4.9 36 192-227 47-82 (235)
18 cd01124 KaiC KaiC is a circadi 96.2 0.0063 1.4E-07 54.7 4.6 32 193-224 2-33 (187)
19 smart00382 AAA ATPases associa 96.2 0.0046 9.9E-08 50.6 3.4 28 191-218 3-30 (148)
20 PRK12377 putative replication 96.1 0.011 2.4E-07 57.6 6.4 36 192-227 103-138 (248)
21 PF14516 AAA_35: AAA-like doma 96.1 0.082 1.8E-06 53.4 12.7 32 193-224 34-65 (331)
22 PF13207 AAA_17: AAA domain; P 96.0 0.0098 2.1E-07 49.9 4.7 31 193-226 2-32 (121)
23 PRK00411 cdc6 cell division co 96.0 0.018 3.8E-07 58.4 7.2 60 159-226 31-93 (394)
24 PRK08727 hypothetical protein; 95.9 0.011 2.3E-07 56.7 4.6 35 192-226 43-77 (233)
25 PRK08181 transposase; Validate 95.8 0.009 2E-07 59.0 4.2 35 192-226 108-142 (269)
26 TIGR00362 DnaA chromosomal rep 95.8 0.01 2.2E-07 61.0 4.7 36 191-226 137-174 (405)
27 PRK06921 hypothetical protein; 95.7 0.026 5.5E-07 55.5 6.8 37 191-227 118-155 (266)
28 PF01580 FtsK_SpoIIIE: FtsK/Sp 95.7 0.14 2.9E-06 47.4 11.2 71 192-264 40-117 (205)
29 KOG1970 Checkpoint RAD17-RFC c 95.7 0.036 7.8E-07 59.8 8.1 126 192-351 112-246 (634)
30 PF07728 AAA_5: AAA domain (dy 95.7 0.014 3.1E-07 50.4 4.3 33 193-226 2-34 (139)
31 PRK06893 DNA replication initi 95.6 0.014 3.1E-07 55.6 4.6 36 191-226 40-75 (229)
32 PF05673 DUF815: Protein of un 95.5 0.034 7.4E-07 54.5 6.8 37 191-227 53-89 (249)
33 PRK06526 transposase; Provisio 95.5 0.011 2.3E-07 57.9 3.2 33 192-224 100-132 (254)
34 cd00984 DnaB_C DnaB helicase C 95.5 0.016 3.4E-07 54.7 4.3 35 192-226 15-50 (242)
35 COG1484 DnaC DNA replication p 95.5 0.042 9.2E-07 53.6 7.4 37 191-227 106-142 (254)
36 TIGR03878 thermo_KaiC_2 KaiC d 95.5 0.017 3.7E-07 56.2 4.6 34 192-225 38-71 (259)
37 cd01122 GP4d_helicase GP4d_hel 95.5 0.018 4E-07 55.4 4.7 34 192-225 32-66 (271)
38 KOG0743 AAA+-type ATPase [Post 95.4 0.012 2.6E-07 61.8 3.5 45 165-209 209-254 (457)
39 COG2805 PilT Tfp pilus assembl 95.4 0.017 3.7E-07 58.3 4.4 42 192-233 127-169 (353)
40 PRK05642 DNA replication initi 95.4 0.02 4.4E-07 54.8 4.8 36 192-227 47-82 (234)
41 PF00004 AAA: ATPase family as 95.4 0.016 3.4E-07 48.6 3.5 22 193-214 1-22 (132)
42 PRK09183 transposase/IS protei 95.4 0.02 4.4E-07 55.9 4.7 34 192-225 104-137 (259)
43 COG1474 CDC6 Cdc6-related prot 95.3 0.17 3.6E-06 52.2 11.5 50 160-217 19-69 (366)
44 PF03205 MobB: Molybdopterin g 95.3 0.026 5.6E-07 50.3 4.8 34 191-224 1-34 (140)
45 PF13401 AAA_22: AAA domain; P 95.3 0.023 4.9E-07 48.0 4.2 24 192-215 6-29 (131)
46 TIGR02236 recomb_radA DNA repa 95.3 0.067 1.5E-06 53.0 8.2 33 193-226 98-137 (310)
47 PRK08533 flagellar accessory p 95.3 0.023 5E-07 54.5 4.7 34 192-225 26-59 (230)
48 PRK04296 thymidine kinase; Pro 95.3 0.027 5.8E-07 52.3 5.0 32 193-224 5-36 (190)
49 cd03115 SRP The signal recogni 95.2 0.029 6.2E-07 50.5 4.8 33 193-225 3-35 (173)
50 cd01393 recA_like RecA is a b 95.2 0.024 5.3E-07 52.9 4.5 35 192-226 21-61 (226)
51 TIGR03880 KaiC_arch_3 KaiC dom 95.2 0.029 6.3E-07 52.7 4.9 34 192-225 18-51 (224)
52 TIGR02928 orc1/cdc6 family rep 95.1 0.053 1.1E-06 54.3 6.9 60 160-227 17-83 (365)
53 PF13521 AAA_28: AAA domain; P 95.1 0.025 5.3E-07 50.5 4.1 32 192-229 1-32 (163)
54 COG0467 RAD55 RecA-superfamily 95.1 0.027 5.8E-07 54.4 4.6 35 191-225 24-58 (260)
55 TIGR02237 recomb_radB DNA repa 95.1 0.033 7.1E-07 51.5 5.0 35 192-226 14-48 (209)
56 TIGR03499 FlhF flagellar biosy 95.1 0.06 1.3E-06 53.2 7.1 89 134-225 138-231 (282)
57 PRK09361 radB DNA repair and r 95.1 0.034 7.3E-07 52.2 5.0 34 192-225 25-58 (225)
58 PF03193 DUF258: Protein of un 95.0 0.027 5.8E-07 51.8 4.1 56 148-214 4-59 (161)
59 PF01695 IstB_IS21: IstB-like 95.0 0.033 7.2E-07 51.4 4.7 36 192-227 49-84 (178)
60 COG1066 Sms Predicted ATP-depe 95.0 0.026 5.7E-07 59.0 4.3 33 193-226 96-128 (456)
61 TIGR03015 pepcterm_ATPase puta 95.0 0.027 5.8E-07 53.8 4.1 32 192-223 45-76 (269)
62 PRK07952 DNA replication prote 95.0 0.034 7.5E-07 54.2 4.9 34 192-225 101-134 (244)
63 COG0468 RecA RecA/RadA recombi 94.9 0.15 3.3E-06 50.8 9.5 50 193-258 63-112 (279)
64 TIGR03881 KaiC_arch_4 KaiC dom 94.9 0.039 8.4E-07 51.9 5.0 34 192-225 22-55 (229)
65 PRK08116 hypothetical protein; 94.9 0.038 8.3E-07 54.3 5.0 34 192-225 116-149 (268)
66 PTZ00112 origin recognition co 94.8 0.31 6.7E-06 55.8 12.4 49 158-213 755-804 (1164)
67 PRK00149 dnaA chromosomal repl 94.8 0.036 7.9E-07 58.0 4.9 37 191-227 149-187 (450)
68 PF10923 DUF2791: P-loop Domai 94.8 0.068 1.5E-06 56.1 6.8 59 165-232 33-92 (416)
69 PRK13695 putative NTPase; Prov 94.7 0.054 1.2E-06 49.0 5.2 30 192-221 2-31 (174)
70 PRK08939 primosomal protein Dn 94.7 0.04 8.7E-07 55.3 4.7 34 191-224 157-190 (306)
71 cd00046 DEXDc DEAD-like helica 94.7 0.056 1.2E-06 44.2 4.9 26 192-217 2-27 (144)
72 cd01394 radB RadB. The archaea 94.7 0.048 1E-06 50.9 4.9 33 192-224 21-53 (218)
73 PF13481 AAA_25: AAA domain; P 94.6 0.042 9.1E-07 49.8 4.3 24 192-215 34-57 (193)
74 KOG2228 Origin recognition com 94.6 0.086 1.9E-06 54.2 6.7 52 165-224 32-85 (408)
75 PF13604 AAA_30: AAA domain; P 94.5 0.05 1.1E-06 50.8 4.7 32 193-224 21-52 (196)
76 cd01672 TMPK Thymidine monopho 94.5 0.063 1.4E-06 48.2 5.2 36 193-228 3-38 (200)
77 cd03281 ABC_MSH5_euk MutS5 hom 94.5 0.052 1.1E-06 51.4 4.7 33 191-223 30-64 (213)
78 PRK04328 hypothetical protein; 94.5 0.05 1.1E-06 52.6 4.7 34 192-225 25-58 (249)
79 PRK12422 chromosomal replicati 94.4 0.045 9.7E-07 57.7 4.6 36 191-226 142-177 (445)
80 PF13479 AAA_24: AAA domain 94.4 0.07 1.5E-06 50.3 5.5 33 192-230 5-37 (213)
81 cd01121 Sms Sms (bacterial rad 94.3 0.053 1.2E-06 55.9 4.8 33 193-225 85-117 (372)
82 TIGR03877 thermo_KaiC_1 KaiC d 94.3 0.06 1.3E-06 51.4 4.8 34 192-225 23-56 (237)
83 COG2804 PulE Type II secretory 94.2 0.059 1.3E-06 57.5 4.9 43 192-234 260-302 (500)
84 PRK05973 replicative DNA helic 94.2 0.065 1.4E-06 52.1 4.8 34 192-225 66-99 (237)
85 TIGR02012 tigrfam_recA protein 94.2 0.061 1.3E-06 54.6 4.7 33 192-224 57-89 (321)
86 cd01129 PulE-GspE PulE/GspE Th 94.2 0.1 2.3E-06 51.1 6.2 40 192-231 82-121 (264)
87 PF00308 Bac_DnaA: Bacterial d 94.2 0.065 1.4E-06 51.0 4.7 35 192-226 36-72 (219)
88 PF00448 SRP54: SRP54-type pro 94.1 0.068 1.5E-06 50.2 4.7 33 193-225 4-36 (196)
89 PLN03025 replication factor C 94.1 0.078 1.7E-06 52.9 5.3 29 191-219 35-63 (319)
90 PF08477 Miro: Miro-like prote 94.1 0.053 1.1E-06 45.0 3.5 23 192-214 1-23 (119)
91 PF13671 AAA_33: AAA domain; P 94.1 0.065 1.4E-06 46.0 4.2 32 193-227 2-33 (143)
92 PRK06067 flagellar accessory p 94.1 0.077 1.7E-06 50.3 5.0 35 192-226 27-61 (234)
93 PF13476 AAA_23: AAA domain; P 94.1 0.045 9.9E-07 49.0 3.3 22 193-215 22-43 (202)
94 PF12846 AAA_10: AAA-like doma 94.1 0.075 1.6E-06 50.6 4.9 39 192-230 3-41 (304)
95 PF06745 KaiC: KaiC; InterPro 94.1 0.058 1.3E-06 50.7 4.1 34 192-225 21-55 (226)
96 PRK11823 DNA repair protein Ra 94.0 0.067 1.5E-06 56.4 4.9 34 192-225 82-115 (446)
97 PRK12402 replication factor C 94.0 0.078 1.7E-06 52.2 5.1 28 192-219 38-65 (337)
98 cd01131 PilT Pilus retraction 94.0 0.094 2E-06 48.9 5.4 39 193-231 4-43 (198)
99 PRK13764 ATPase; Provisional 94.0 0.079 1.7E-06 58.0 5.5 42 191-232 258-299 (602)
100 PRK14974 cell division protein 94.0 0.073 1.6E-06 54.3 4.9 33 192-224 142-174 (336)
101 PF00437 T2SE: Type II/IV secr 94.0 0.099 2.2E-06 50.5 5.6 40 191-230 128-167 (270)
102 cd02027 APSK Adenosine 5'-phos 93.9 0.081 1.7E-06 47.1 4.5 32 193-224 2-33 (149)
103 TIGR00750 lao LAO/AO transport 93.9 0.092 2E-06 52.2 5.3 34 191-224 35-68 (300)
104 TIGR00064 ftsY signal recognit 93.8 0.094 2E-06 51.7 5.3 34 191-224 73-106 (272)
105 PHA03133 thymidine kinase; Pro 93.8 0.061 1.3E-06 55.4 3.9 38 191-230 41-79 (368)
106 PF07693 KAP_NTPase: KAP famil 93.8 0.081 1.8E-06 51.9 4.7 33 192-224 22-57 (325)
107 cd03114 ArgK-like The function 93.8 0.11 2.3E-06 46.6 5.0 32 193-224 2-33 (148)
108 CHL00181 cbbX CbbX; Provisiona 93.7 0.082 1.8E-06 52.5 4.6 29 192-220 61-89 (287)
109 COG1618 Predicted nucleotide k 93.7 0.088 1.9E-06 49.0 4.4 31 191-221 6-36 (179)
110 cd01983 Fer4_NifH The Fer4_Nif 93.7 0.14 3E-06 39.9 5.0 33 193-225 2-34 (99)
111 PRK06851 hypothetical protein; 93.7 0.1 2.2E-06 53.9 5.4 34 191-224 31-64 (367)
112 PRK14088 dnaA chromosomal repl 93.7 0.084 1.8E-06 55.5 4.8 35 192-226 132-168 (440)
113 PRK00440 rfc replication facto 93.7 0.11 2.5E-06 50.5 5.4 28 192-219 40-67 (319)
114 PF08423 Rad51: Rad51; InterP 93.6 0.28 6E-06 47.9 8.1 23 193-215 41-63 (256)
115 TIGR00416 sms DNA repair prote 93.6 0.08 1.7E-06 56.0 4.6 33 193-225 97-129 (454)
116 PRK09519 recA DNA recombinatio 93.6 0.28 6.1E-06 55.3 9.0 35 192-226 62-96 (790)
117 PRK01184 hypothetical protein; 93.6 0.08 1.7E-06 48.0 4.0 31 192-226 3-33 (184)
118 TIGR02655 circ_KaiC circadian 93.5 0.093 2E-06 55.7 4.9 34 192-225 265-298 (484)
119 PF13555 AAA_29: P-loop contai 93.5 0.054 1.2E-06 42.3 2.4 16 193-208 26-41 (62)
120 PLN03187 meiotic recombination 93.5 0.1 2.3E-06 53.4 5.1 97 111-215 52-151 (344)
121 COG4619 ABC-type uncharacteriz 93.5 0.057 1.2E-06 50.9 2.8 23 191-213 30-52 (223)
122 cd00983 recA RecA is a bacter 93.5 0.095 2.1E-06 53.3 4.6 34 192-225 57-90 (325)
123 PRK14738 gmk guanylate kinase; 93.4 0.084 1.8E-06 49.5 3.9 28 186-213 9-36 (206)
124 PRK09354 recA recombinase A; P 93.4 0.1 2.2E-06 53.6 4.7 35 192-226 62-96 (349)
125 TIGR02880 cbbX_cfxQ probable R 93.4 0.11 2.3E-06 51.5 4.7 29 192-220 60-88 (284)
126 PRK00889 adenylylsulfate kinas 93.4 0.13 2.8E-06 46.3 5.0 33 192-224 6-38 (175)
127 PRK06696 uridine kinase; Valid 93.3 0.26 5.6E-06 46.6 7.1 35 191-225 23-57 (223)
128 PF13238 AAA_18: AAA domain; P 93.3 0.056 1.2E-06 45.0 2.3 22 193-214 1-22 (129)
129 PRK07261 topology modulation p 93.3 0.09 2E-06 47.9 3.8 30 192-224 2-31 (171)
130 TIGR02782 TrbB_P P-type conjug 93.3 0.18 3.9E-06 50.4 6.3 39 192-230 134-174 (299)
131 PHA03135 thymidine kinase; Pro 93.2 0.099 2.1E-06 53.5 4.3 39 191-230 11-49 (343)
132 TIGR00231 small_GTP small GTP- 93.2 0.081 1.8E-06 44.1 3.1 21 192-212 3-23 (161)
133 PRK13833 conjugal transfer pro 93.2 0.27 5.8E-06 50.0 7.3 39 192-230 146-186 (323)
134 PRK07667 uridine kinase; Provi 93.1 0.31 6.8E-06 45.2 7.2 37 191-227 18-56 (193)
135 PF00910 RNA_helicase: RNA hel 93.1 0.12 2.6E-06 43.4 4.0 23 193-215 1-23 (107)
136 PRK09087 hypothetical protein; 93.1 0.11 2.3E-06 49.8 4.2 31 191-226 45-75 (226)
137 cd02021 GntK Gluconate kinase 93.1 0.12 2.7E-06 45.1 4.2 28 193-223 2-29 (150)
138 PF05496 RuvB_N: Holliday junc 93.1 0.13 2.9E-06 50.0 4.7 31 191-222 51-81 (233)
139 TIGR00176 mobB molybdopterin-g 93.1 0.16 3.4E-06 46.0 5.0 33 193-225 2-34 (155)
140 TIGR01313 therm_gnt_kin carboh 93.0 0.097 2.1E-06 46.5 3.5 28 193-223 1-28 (163)
141 PF02492 cobW: CobW/HypB/UreG, 93.0 0.11 2.3E-06 47.6 3.8 36 192-227 2-38 (178)
142 cd04155 Arl3 Arl3 subfamily. 92.9 0.13 2.8E-06 45.3 4.1 22 191-212 15-36 (173)
143 PRK14086 dnaA chromosomal repl 92.9 0.13 2.8E-06 56.5 4.9 36 192-227 316-353 (617)
144 PHA03138 thymidine kinase; Pro 92.9 0.12 2.6E-06 52.9 4.4 38 191-228 13-50 (340)
145 PRK14087 dnaA chromosomal repl 92.8 0.13 2.9E-06 54.2 4.8 36 191-226 142-179 (450)
146 PRK12608 transcription termina 92.8 0.17 3.6E-06 52.6 5.4 37 191-227 134-174 (380)
147 KOG2859 DNA repair protein, me 92.8 0.33 7.1E-06 47.4 6.9 114 193-346 41-167 (293)
148 TIGR00041 DTMP_kinase thymidyl 92.8 0.18 4E-06 45.8 5.1 35 192-226 5-39 (195)
149 cd01428 ADK Adenylate kinase ( 92.7 0.14 3E-06 46.4 4.2 32 192-226 1-32 (194)
150 TIGR01360 aden_kin_iso1 adenyl 92.7 0.14 3.1E-06 45.9 4.2 31 191-224 4-34 (188)
151 TIGR02881 spore_V_K stage V sp 92.7 0.12 2.6E-06 50.1 3.9 28 191-218 43-70 (261)
152 PRK14532 adenylate kinase; Pro 92.7 0.15 3.2E-06 46.4 4.3 31 192-225 2-32 (188)
153 TIGR00235 udk uridine kinase. 92.6 0.14 3E-06 47.8 4.0 33 192-224 8-40 (207)
154 PF12775 AAA_7: P-loop contain 92.6 0.11 2.3E-06 51.4 3.5 35 192-226 35-69 (272)
155 PF09848 DUF2075: Uncharacteri 92.5 0.13 2.8E-06 52.1 4.1 33 192-224 3-37 (352)
156 PHA03134 thymidine kinase; Pro 92.5 0.14 2.9E-06 52.5 4.2 39 191-230 14-52 (340)
157 TIGR02238 recomb_DMC1 meiotic 92.5 0.41 8.8E-06 48.3 7.6 97 111-215 22-121 (313)
158 PF04851 ResIII: Type III rest 92.5 0.42 9.1E-06 42.0 6.8 26 191-216 26-51 (184)
159 COG4088 Predicted nucleotide k 92.5 0.11 2.3E-06 50.4 3.2 34 193-226 4-37 (261)
160 PRK06620 hypothetical protein; 92.5 0.13 2.9E-06 48.8 3.8 18 191-208 45-62 (214)
161 PRK00771 signal recognition pa 92.5 0.17 3.6E-06 53.5 4.9 34 192-225 97-130 (437)
162 TIGR01359 UMP_CMP_kin_fam UMP- 92.5 0.16 3.5E-06 45.8 4.2 31 193-226 2-32 (183)
163 PRK10416 signal recognition pa 92.4 0.19 4.1E-06 50.8 5.0 34 191-224 115-148 (318)
164 cd01673 dNK Deoxyribonucleosid 92.4 0.12 2.5E-06 47.3 3.2 31 193-226 2-32 (193)
165 PF00158 Sigma54_activat: Sigm 92.4 0.26 5.6E-06 45.2 5.5 52 165-226 7-60 (168)
166 smart00763 AAA_PrkA PrkA AAA d 92.3 0.21 4.5E-06 51.6 5.3 58 151-214 45-102 (361)
167 TIGR02322 phosphon_PhnN phosph 92.3 0.12 2.6E-06 46.6 3.2 22 192-213 3-24 (179)
168 cd00154 Rab Rab family. Rab G 92.3 0.12 2.7E-06 43.5 3.1 20 192-211 2-21 (159)
169 PRK08118 topology modulation p 92.3 0.11 2.5E-06 47.2 3.0 22 191-212 2-23 (167)
170 cd02019 NK Nucleoside/nucleoti 92.3 0.15 3.3E-06 39.6 3.4 22 193-214 2-23 (69)
171 TIGR02640 gas_vesic_GvpN gas v 92.2 0.34 7.4E-06 47.2 6.4 32 192-224 23-54 (262)
172 smart00487 DEXDc DEAD-like hel 92.2 0.19 4.2E-06 43.7 4.3 27 192-218 26-52 (201)
173 PRK03992 proteasome-activating 92.2 0.17 3.6E-06 52.3 4.4 31 191-222 166-196 (389)
174 PRK14531 adenylate kinase; Pro 92.2 0.15 3.2E-06 46.7 3.6 30 191-223 3-32 (183)
175 TIGR00665 DnaB replicative DNA 92.1 0.18 3.9E-06 52.3 4.6 33 193-225 198-231 (434)
176 PF06414 Zeta_toxin: Zeta toxi 92.1 0.15 3.2E-06 47.4 3.6 35 193-227 18-52 (199)
177 PRK00279 adk adenylate kinase; 92.0 0.19 4.1E-06 47.2 4.2 32 192-226 2-33 (215)
178 PRK04301 radA DNA repair and r 92.0 0.18 3.9E-06 50.4 4.3 34 192-225 104-143 (317)
179 PRK12726 flagellar biosynthesi 92.0 0.21 4.6E-06 52.1 4.9 34 191-224 207-240 (407)
180 PRK00080 ruvB Holliday junctio 92.0 0.16 3.4E-06 50.9 3.9 28 192-222 53-80 (328)
181 PRK13894 conjugal transfer ATP 91.9 0.46 9.9E-06 48.1 7.1 40 191-230 149-190 (319)
182 PF01926 MMR_HSR1: 50S ribosom 91.9 0.14 3.1E-06 42.7 2.9 20 192-211 1-20 (116)
183 TIGR00635 ruvB Holliday juncti 91.9 0.14 3E-06 50.1 3.3 32 192-224 32-63 (305)
184 cd01130 VirB11-like_ATPase Typ 91.8 0.31 6.8E-06 44.8 5.4 24 192-215 27-50 (186)
185 PRK05541 adenylylsulfate kinas 91.8 0.26 5.6E-06 44.5 4.7 32 193-224 10-41 (176)
186 cd01861 Rab6 Rab6 subfamily. 91.7 0.16 3.5E-06 43.9 3.2 21 192-212 2-22 (161)
187 PF08433 KTI12: Chromatin asso 91.7 0.26 5.5E-06 48.8 4.9 36 193-228 4-39 (270)
188 COG3839 MalK ABC-type sugar tr 91.7 0.13 2.8E-06 52.7 2.8 31 192-222 31-62 (338)
189 PF05127 Helicase_RecD: Helica 91.6 0.048 1E-06 50.9 -0.3 37 194-230 1-39 (177)
190 TIGR00376 DNA helicase, putati 91.6 0.2 4.4E-06 55.1 4.5 33 192-224 175-207 (637)
191 cd01870 RhoA_like RhoA-like su 91.6 0.17 3.6E-06 44.7 3.2 22 191-212 2-23 (175)
192 TIGR01420 pilT_fam pilus retra 91.5 0.26 5.6E-06 50.0 4.9 41 192-232 124-165 (343)
193 PRK03846 adenylylsulfate kinas 91.5 0.26 5.6E-06 45.7 4.5 33 192-224 26-58 (198)
194 cd03280 ABC_MutS2 MutS2 homolo 91.5 0.16 3.4E-06 47.2 3.1 21 191-211 29-49 (200)
195 PRK14530 adenylate kinase; Pro 91.5 0.23 5E-06 46.5 4.2 30 191-223 4-33 (215)
196 TIGR02525 plasmid_TraJ plasmid 91.5 0.3 6.5E-06 50.5 5.4 41 192-232 151-193 (372)
197 KOG2749 mRNA cleavage and poly 91.5 0.3 6.6E-06 50.4 5.3 35 190-224 103-137 (415)
198 cd04137 RheB Rheb (Ras Homolog 91.5 0.18 3.9E-06 44.9 3.3 21 191-211 2-22 (180)
199 COG1136 SalX ABC-type antimicr 91.5 0.15 3.1E-06 49.5 2.9 32 192-223 33-65 (226)
200 PF14532 Sigma54_activ_2: Sigm 91.5 0.17 3.6E-06 44.2 3.0 39 165-214 6-44 (138)
201 cd04138 H_N_K_Ras_like H-Ras/N 91.5 0.19 4E-06 43.1 3.3 21 192-212 3-23 (162)
202 cd00157 Rho Rho (Ras homology) 91.4 0.18 3.9E-06 44.0 3.2 22 192-213 2-23 (171)
203 PTZ00035 Rad51 protein; Provis 91.4 0.097 2.1E-06 53.3 1.7 97 111-215 44-143 (337)
204 TIGR03574 selen_PSTK L-seryl-t 91.4 0.26 5.7E-06 47.2 4.6 32 193-224 2-33 (249)
205 cd02023 UMPK Uridine monophosp 91.4 0.26 5.6E-06 45.3 4.4 33 193-225 2-34 (198)
206 cd03283 ABC_MutS-like MutS-lik 91.4 0.15 3.2E-06 47.8 2.8 23 192-214 27-49 (199)
207 PRK13851 type IV secretion sys 91.4 0.23 5.1E-06 50.8 4.5 39 191-230 163-201 (344)
208 cd04129 Rho2 Rho2 subfamily. 91.4 0.18 3.9E-06 45.8 3.3 21 191-211 2-22 (187)
209 PTZ00202 tuzin; Provisional 91.4 0.17 3.7E-06 54.0 3.4 33 192-228 288-320 (550)
210 PHA03136 thymidine kinase; Pro 91.4 0.2 4.4E-06 51.9 3.9 36 191-229 37-74 (378)
211 PRK06762 hypothetical protein; 91.3 0.28 6.2E-06 43.6 4.4 30 193-223 5-34 (166)
212 cd04160 Arfrp1 Arfrp1 subfamil 91.3 0.16 3.5E-06 44.3 2.8 20 193-212 2-21 (167)
213 PRK09435 membrane ATPase/prote 91.3 0.31 6.7E-06 49.7 5.2 32 191-222 57-88 (332)
214 PF05707 Zot: Zonular occluden 91.3 0.22 4.8E-06 46.1 3.8 31 193-223 3-34 (193)
215 PRK13768 GTPase; Provisional 91.2 0.27 6E-06 47.7 4.6 33 192-224 4-36 (253)
216 smart00173 RAS Ras subfamily o 91.2 0.2 4.3E-06 43.6 3.3 21 192-212 2-22 (164)
217 PRK02496 adk adenylate kinase; 91.2 0.21 4.6E-06 45.3 3.6 33 191-226 2-34 (184)
218 cd03243 ABC_MutS_homologs The 91.2 0.18 3.8E-06 46.9 3.1 23 191-213 30-52 (202)
219 TIGR00764 lon_rel lon-related 91.2 0.32 7E-06 53.3 5.5 38 192-229 39-77 (608)
220 PRK00698 tmk thymidylate kinas 91.1 0.32 7E-06 44.3 4.7 35 192-226 5-41 (205)
221 CHL00195 ycf46 Ycf46; Provisio 91.1 0.23 5E-06 53.1 4.3 23 191-214 260-282 (489)
222 PRK10536 hypothetical protein; 91.1 0.34 7.4E-06 48.0 5.1 35 193-227 77-112 (262)
223 TIGR03263 guanyl_kin guanylate 91.1 0.19 4E-06 45.2 3.0 21 192-212 3-23 (180)
224 PF03796 DnaB_C: DnaB-like hel 91.1 0.32 7E-06 46.8 4.8 34 193-226 22-56 (259)
225 TIGR03600 phage_DnaB phage rep 91.1 0.26 5.7E-06 51.0 4.5 33 193-225 197-230 (421)
226 TIGR02533 type_II_gspE general 91.0 0.21 4.5E-06 53.4 3.8 40 193-232 245-284 (486)
227 PRK10078 ribose 1,5-bisphospho 91.0 0.18 3.8E-06 46.2 2.9 21 192-212 4-24 (186)
228 PRK10436 hypothetical protein; 91.0 0.28 6E-06 52.2 4.7 41 192-232 220-260 (462)
229 PF00005 ABC_tran: ABC transpo 91.0 0.18 3.9E-06 43.0 2.8 31 192-222 13-44 (137)
230 PRK08233 hypothetical protein; 91.0 0.21 4.5E-06 44.6 3.2 32 192-225 5-36 (182)
231 PF00931 NB-ARC: NB-ARC domain 91.0 0.52 1.1E-05 45.2 6.2 25 191-215 20-44 (287)
232 cd04163 Era Era subfamily. Er 91.0 0.22 4.8E-06 42.3 3.2 22 191-212 4-25 (168)
233 COG3911 Predicted ATPase [Gene 91.0 0.2 4.3E-06 46.3 3.0 31 191-225 10-40 (183)
234 PHA00729 NTP-binding motif con 90.9 0.34 7.3E-06 47.0 4.7 23 192-214 19-41 (226)
235 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 90.9 0.21 4.5E-06 43.7 3.1 21 192-212 4-24 (166)
236 cd03238 ABC_UvrA The excision 90.8 0.18 3.9E-06 46.6 2.7 19 192-210 23-41 (176)
237 cd04156 ARLTS1 ARLTS1 subfamil 90.8 0.2 4.3E-06 43.4 2.8 21 192-212 1-21 (160)
238 cd04139 RalA_RalB RalA/RalB su 90.8 0.23 5E-06 42.8 3.2 21 192-212 2-22 (164)
239 PRK11889 flhF flagellar biosyn 90.8 0.34 7.4E-06 51.0 5.0 34 191-224 242-275 (436)
240 cd04119 RJL RJL (RabJ-Like) su 90.8 0.23 5E-06 42.8 3.2 20 192-211 2-21 (168)
241 TIGR00455 apsK adenylylsulfate 90.7 0.41 8.8E-06 43.6 4.9 33 192-224 20-52 (184)
242 PRK13900 type IV secretion sys 90.7 0.46 1E-05 48.3 5.8 39 192-231 162-200 (332)
243 PRK03839 putative kinase; Prov 90.6 0.23 4.9E-06 45.0 3.2 32 192-226 2-33 (180)
244 PRK00300 gmk guanylate kinase; 90.6 0.23 4.9E-06 45.7 3.2 22 192-213 7-28 (205)
245 cd00071 GMPK Guanosine monopho 90.6 0.22 4.8E-06 43.8 3.0 21 193-213 2-22 (137)
246 smart00175 RAB Rab subfamily o 90.6 0.24 5.1E-06 42.8 3.2 20 192-211 2-21 (164)
247 cd00820 PEPCK_HprK Phosphoenol 90.6 0.31 6.8E-06 42.0 3.8 20 192-211 17-36 (107)
248 cd04136 Rap_like Rap-like subf 90.6 0.25 5.3E-06 42.8 3.2 21 192-212 3-23 (163)
249 PF00580 UvrD-helicase: UvrD/R 90.6 0.25 5.4E-06 47.4 3.6 34 193-226 16-55 (315)
250 PF04665 Pox_A32: Poxvirus A32 90.6 0.4 8.7E-06 46.9 5.0 34 192-225 15-49 (241)
251 TIGR01618 phage_P_loop phage n 90.6 0.3 6.4E-06 47.1 4.0 31 191-226 13-43 (220)
252 TIGR01425 SRP54_euk signal rec 90.6 0.33 7.1E-06 51.2 4.7 33 192-224 102-134 (429)
253 PF05970 PIF1: PIF1-like helic 90.5 0.31 6.7E-06 49.8 4.4 33 192-224 24-56 (364)
254 cd00876 Ras Ras family. The R 90.5 0.23 4.9E-06 42.5 2.9 20 192-211 1-20 (160)
255 PRK04841 transcriptional regul 90.5 1.4 3.1E-05 49.2 10.0 28 318-346 107-134 (903)
256 PRK14961 DNA polymerase III su 90.5 0.39 8.3E-06 49.1 5.0 22 192-213 40-61 (363)
257 cd01863 Rab18 Rab18 subfamily. 90.5 0.25 5.4E-06 42.8 3.2 20 192-211 2-21 (161)
258 cd01867 Rab8_Rab10_Rab13_like 90.5 0.25 5.3E-06 43.6 3.2 23 191-213 4-26 (167)
259 TIGR01351 adk adenylate kinase 90.4 0.28 6E-06 45.8 3.6 32 192-226 1-32 (210)
260 PRK12724 flagellar biosynthesi 90.4 0.38 8.2E-06 50.8 5.0 33 192-224 225-258 (432)
261 PRK10867 signal recognition pa 90.4 0.34 7.3E-06 51.2 4.6 33 192-224 102-135 (433)
262 cd02034 CooC The accessory pro 90.4 0.47 1E-05 40.9 4.7 32 193-224 2-33 (116)
263 TIGR02655 circ_KaiC circadian 90.3 0.32 7E-06 51.7 4.4 34 191-224 22-56 (484)
264 PRK04195 replication factor C 90.3 0.31 6.6E-06 51.7 4.2 31 191-224 40-70 (482)
265 cd02028 UMPK_like Uridine mono 90.3 0.87 1.9E-05 41.8 6.7 32 193-224 2-35 (179)
266 cd01128 rho_factor Transcripti 90.3 0.29 6.2E-06 47.9 3.7 26 191-216 17-42 (249)
267 PRK09302 circadian clock prote 90.3 0.31 6.8E-06 51.8 4.3 33 192-224 33-66 (509)
268 PRK05480 uridine/cytidine kina 90.2 0.42 9E-06 44.4 4.7 34 191-224 7-40 (209)
269 cd04159 Arl10_like Arl10-like 90.2 0.23 5E-06 42.0 2.7 21 193-213 2-22 (159)
270 TIGR02528 EutP ethanolamine ut 90.2 0.25 5.4E-06 42.2 2.9 20 192-211 2-21 (142)
271 TIGR02524 dot_icm_DotB Dot/Icm 90.1 0.4 8.7E-06 49.3 4.8 40 192-231 136-178 (358)
272 cd04145 M_R_Ras_like M-Ras/R-R 90.1 0.3 6.5E-06 42.3 3.3 22 192-213 4-25 (164)
273 PRK11608 pspF phage shock prot 90.0 0.58 1.3E-05 47.2 5.8 52 165-226 14-67 (326)
274 cd01862 Rab7 Rab7 subfamily. 90.0 0.28 6.1E-06 42.8 3.2 22 192-213 2-23 (172)
275 PRK05703 flhF flagellar biosyn 90.0 0.42 9.1E-06 50.2 4.9 33 192-224 223-257 (424)
276 TIGR01242 26Sp45 26S proteasom 90.0 0.26 5.7E-06 50.1 3.3 22 191-212 157-178 (364)
277 cd04113 Rab4 Rab4 subfamily. 89.9 0.3 6.5E-06 42.4 3.2 21 192-212 2-22 (161)
278 PF01443 Viral_helicase1: Vira 89.8 0.23 5E-06 46.2 2.6 22 193-214 1-22 (234)
279 cd01876 YihA_EngB The YihA (En 89.8 0.27 5.8E-06 42.0 2.8 19 193-211 2-20 (170)
280 PRK00131 aroK shikimate kinase 89.8 0.41 8.9E-06 42.2 4.1 30 192-224 6-35 (175)
281 PTZ00088 adenylate kinase 1; P 89.8 0.37 8.1E-06 46.4 4.0 34 191-227 7-40 (229)
282 cd04124 RabL2 RabL2 subfamily. 89.8 0.31 6.7E-06 42.9 3.2 21 192-212 2-22 (161)
283 COG1116 TauB ABC-type nitrate/ 89.8 0.22 4.9E-06 48.8 2.5 30 192-221 31-61 (248)
284 PRK10751 molybdopterin-guanine 89.7 0.54 1.2E-05 43.7 4.9 33 192-224 8-40 (173)
285 PRK13973 thymidylate kinase; P 89.7 0.56 1.2E-05 44.1 5.1 39 192-230 5-43 (213)
286 PRK04040 adenylate kinase; Pro 89.7 0.31 6.7E-06 45.4 3.3 34 192-226 4-37 (188)
287 cd01868 Rab11_like Rab11-like. 89.7 0.31 6.8E-06 42.5 3.2 20 192-211 5-24 (165)
288 COG4778 PhnL ABC-type phosphon 89.7 0.31 6.8E-06 46.2 3.2 31 193-223 40-71 (235)
289 cd02022 DPCK Dephospho-coenzym 89.6 0.39 8.5E-06 43.8 3.9 28 193-224 2-29 (179)
290 cd01878 HflX HflX subfamily. 89.6 0.27 5.9E-06 45.0 2.8 22 191-212 42-63 (204)
291 PTZ00454 26S protease regulato 89.6 0.29 6.2E-06 51.0 3.3 22 191-212 180-201 (398)
292 PF01583 APS_kinase: Adenylyls 89.6 0.6 1.3E-05 42.7 5.0 32 193-224 5-36 (156)
293 cd01860 Rab5_related Rab5-rela 89.6 0.33 7.1E-06 42.1 3.2 21 192-212 3-23 (163)
294 cd01866 Rab2 Rab2 subfamily. 89.5 0.32 7E-06 43.0 3.2 20 192-211 6-25 (168)
295 PF03215 Rad17: Rad17 cell cyc 89.5 0.53 1.2E-05 50.8 5.3 27 317-343 149-176 (519)
296 COG1100 GTPase SAR1 and relate 89.5 0.26 5.6E-06 45.3 2.6 27 191-217 6-32 (219)
297 TIGR03575 selen_PSTK_euk L-ser 89.4 0.48 1E-05 48.5 4.7 38 193-230 2-40 (340)
298 PLN03186 DNA repair protein RA 89.4 0.19 4E-06 51.5 1.7 97 111-215 49-148 (342)
299 TIGR02768 TraA_Ti Ti-type conj 89.4 0.45 9.7E-06 53.4 4.8 33 192-224 370-402 (744)
300 TIGR02538 type_IV_pilB type IV 89.3 0.48 1E-05 51.4 4.9 40 193-232 319-358 (564)
301 TIGR03819 heli_sec_ATPase heli 89.3 0.85 1.8E-05 46.5 6.4 39 192-231 180-218 (340)
302 PRK14722 flhF flagellar biosyn 89.3 0.52 1.1E-05 48.9 4.8 27 192-218 139-166 (374)
303 cd04140 ARHI_like ARHI subfami 89.2 0.35 7.6E-06 42.5 3.2 20 192-211 3-22 (165)
304 cd01864 Rab19 Rab19 subfamily. 89.2 0.35 7.7E-06 42.3 3.2 22 191-212 4-25 (165)
305 PRK09825 idnK D-gluconate kina 89.2 0.33 7E-06 44.7 3.0 22 192-213 5-26 (176)
306 TIGR03689 pup_AAA proteasome A 89.2 0.4 8.7E-06 51.7 4.1 22 191-212 217-238 (512)
307 PHA02544 44 clamp loader, smal 89.1 0.8 1.7E-05 45.0 5.9 19 193-211 46-64 (316)
308 PF00270 DEAD: DEAD/DEAH box h 89.0 0.84 1.8E-05 39.8 5.4 35 192-226 16-53 (169)
309 TIGR00959 ffh signal recogniti 89.0 0.56 1.2E-05 49.4 5.0 33 192-224 101-134 (428)
310 PRK06217 hypothetical protein; 89.0 0.39 8.4E-06 43.9 3.3 31 192-225 3-33 (183)
311 TIGR01241 FtsH_fam ATP-depende 89.0 0.37 8.1E-06 51.1 3.7 32 191-225 89-120 (495)
312 PRK06547 hypothetical protein; 88.9 0.48 1E-05 43.6 3.9 31 191-224 16-46 (172)
313 KOG0086 GTPase Rab4, small G p 88.9 0.32 7E-06 45.0 2.7 24 192-215 11-34 (214)
314 cd04114 Rab30 Rab30 subfamily. 88.9 0.39 8.4E-06 42.0 3.2 22 191-212 8-29 (169)
315 cd04117 Rab15 Rab15 subfamily. 88.9 0.38 8.3E-06 42.4 3.1 20 192-211 2-21 (161)
316 COG1119 ModF ABC-type molybden 88.8 0.31 6.6E-06 48.0 2.7 25 192-216 59-83 (257)
317 TIGR03598 GTPase_YsxC ribosome 88.8 0.41 9E-06 43.1 3.4 22 191-212 19-40 (179)
318 cd04123 Rab21 Rab21 subfamily. 88.8 0.41 8.9E-06 41.0 3.2 21 192-212 2-22 (162)
319 cd04134 Rho3 Rho3 subfamily. 88.8 0.38 8.3E-06 43.8 3.1 21 192-212 2-22 (189)
320 PRK14528 adenylate kinase; Pro 88.8 0.43 9.4E-06 44.0 3.5 30 192-224 3-32 (186)
321 PTZ00132 GTP-binding nuclear p 88.7 0.39 8.4E-06 44.6 3.2 22 191-212 10-31 (215)
322 cd01865 Rab3 Rab3 subfamily. 88.7 0.4 8.7E-06 42.2 3.2 21 192-212 3-23 (165)
323 cd04122 Rab14 Rab14 subfamily. 88.7 0.4 8.7E-06 42.1 3.2 21 192-212 4-24 (166)
324 PRK05416 glmZ(sRNA)-inactivati 88.7 0.47 1E-05 47.4 4.0 33 192-228 8-40 (288)
325 cd04127 Rab27A Rab27a subfamil 88.7 0.4 8.7E-06 42.5 3.1 23 191-213 5-27 (180)
326 cd04135 Tc10 TC10 subfamily. 88.7 0.41 8.8E-06 42.1 3.2 21 192-212 2-22 (174)
327 cd00464 SK Shikimate kinase (S 88.7 0.51 1.1E-05 40.9 3.7 29 193-224 2-30 (154)
328 cd04118 Rab24 Rab24 subfamily. 88.7 0.41 8.9E-06 43.2 3.3 21 192-212 2-22 (193)
329 PRK05896 DNA polymerase III su 88.7 0.63 1.4E-05 51.1 5.2 30 192-221 40-69 (605)
330 cd04157 Arl6 Arl6 subfamily. 88.6 0.34 7.5E-06 41.8 2.6 21 192-212 1-21 (162)
331 PRK14526 adenylate kinase; Pro 88.6 0.43 9.3E-06 45.4 3.5 29 192-223 2-30 (211)
332 PHA02530 pseT polynucleotide k 88.6 0.51 1.1E-05 46.1 4.1 30 192-224 4-34 (300)
333 PRK14527 adenylate kinase; Pro 88.6 0.35 7.7E-06 44.4 2.8 30 192-224 8-37 (191)
334 cd03240 ABC_Rad50 The catalyti 88.6 0.44 9.5E-06 44.7 3.5 21 193-214 25-45 (204)
335 COG3523 IcmF Type VI protein s 88.6 0.56 1.2E-05 55.1 4.9 136 192-352 127-276 (1188)
336 cd04125 RabA_like RabA-like su 88.5 0.41 8.8E-06 43.2 3.2 21 192-212 2-22 (188)
337 cd03234 ABCG_White The White s 88.5 0.38 8.2E-06 45.2 3.1 31 192-222 35-69 (226)
338 PRK14730 coaE dephospho-CoA ki 88.5 0.6 1.3E-05 43.6 4.3 35 192-232 3-37 (195)
339 PRK14731 coaE dephospho-CoA ki 88.5 0.5 1.1E-05 44.4 3.8 28 192-223 7-34 (208)
340 PRK14493 putative bifunctional 88.5 0.66 1.4E-05 46.0 4.8 33 193-226 4-36 (274)
341 cd01895 EngA2 EngA2 subfamily. 88.5 0.42 9E-06 41.1 3.0 22 191-212 3-24 (174)
342 COG1122 CbiO ABC-type cobalt t 88.5 0.37 8.1E-06 46.7 3.0 25 191-215 31-55 (235)
343 PRK13342 recombination factor 88.5 0.59 1.3E-05 48.5 4.6 31 192-223 38-68 (413)
344 cd01858 NGP_1 NGP-1. Autoanti 88.5 0.64 1.4E-05 41.2 4.3 43 165-212 82-124 (157)
345 KOG0727 26S proteasome regulat 88.5 0.34 7.3E-06 48.4 2.7 23 191-213 190-212 (408)
346 cd03260 ABC_PstB_phosphate_tra 88.3 0.52 1.1E-05 44.2 3.8 31 192-222 28-64 (227)
347 TIGR00150 HI0065_YjeE ATPase, 88.3 1 2.2E-05 40.2 5.4 39 165-213 7-45 (133)
348 COG1126 GlnQ ABC-type polar am 88.3 0.32 6.9E-06 47.3 2.3 31 192-222 30-61 (240)
349 TIGR01448 recD_rel helicase, p 88.2 0.63 1.4E-05 52.1 5.0 36 192-227 340-378 (720)
350 PRK08506 replicative DNA helic 88.2 0.59 1.3E-05 49.7 4.5 33 193-225 195-227 (472)
351 cd04106 Rab23_lke Rab23-like s 88.2 0.46 1E-05 41.1 3.1 21 192-212 2-22 (162)
352 COG1162 Predicted GTPases [Gen 88.2 0.44 9.6E-06 48.1 3.4 146 151-330 136-295 (301)
353 cd04164 trmE TrmE (MnmE, ThdF, 88.1 0.47 1E-05 40.3 3.1 21 192-212 3-23 (157)
354 PRK13700 conjugal transfer pro 88.1 0.57 1.2E-05 52.4 4.5 37 191-227 186-223 (732)
355 cd00878 Arf_Arl Arf (ADP-ribos 88.1 0.41 8.8E-06 41.4 2.8 21 192-212 1-21 (158)
356 PRK14970 DNA polymerase III su 88.1 0.79 1.7E-05 46.4 5.2 26 191-216 40-65 (367)
357 PRK09302 circadian clock prote 88.1 0.62 1.3E-05 49.6 4.7 33 192-224 275-307 (509)
358 TIGR02759 TraD_Ftype type IV c 88.1 0.6 1.3E-05 50.9 4.6 36 192-227 178-214 (566)
359 cd04175 Rap1 Rap1 subgroup. T 88.0 0.48 1E-05 41.4 3.2 20 192-211 3-22 (164)
360 cd04110 Rab35 Rab35 subfamily. 88.0 0.46 9.9E-06 43.7 3.2 22 191-212 7-28 (199)
361 PF10443 RNA12: RNA12 protein; 88.0 0.69 1.5E-05 48.8 4.8 38 192-233 19-56 (431)
362 KOG0989 Replication factor C, 88.0 0.54 1.2E-05 47.8 3.8 17 191-207 58-74 (346)
363 TIGR01166 cbiO cobalt transpor 88.0 0.43 9.3E-06 43.6 2.9 31 192-222 20-51 (190)
364 TIGR00073 hypB hydrogenase acc 88.0 0.86 1.9E-05 42.5 5.0 25 191-215 23-47 (207)
365 cd04176 Rap2 Rap2 subgroup. T 87.9 0.48 1E-05 41.2 3.1 21 192-212 3-23 (163)
366 PF04548 AIG1: AIG1 family; I 87.9 0.5 1.1E-05 44.4 3.4 20 192-211 2-21 (212)
367 PF03308 ArgK: ArgK protein; 87.9 1 2.2E-05 44.8 5.6 76 191-267 30-115 (266)
368 cd00877 Ran Ran (Ras-related n 87.9 0.48 1E-05 42.1 3.2 20 192-211 2-21 (166)
369 TIGR02974 phageshock_pspF psp 87.9 1.1 2.3E-05 45.5 6.0 51 165-225 7-59 (329)
370 cd00227 CPT Chloramphenicol (C 87.9 0.48 1E-05 42.9 3.2 29 193-222 5-33 (175)
371 PF09439 SRPRB: Signal recogni 87.9 0.51 1.1E-05 44.3 3.4 23 191-213 4-26 (181)
372 cd03116 MobB Molybdenum is an 87.9 0.86 1.9E-05 41.5 4.8 32 193-224 4-35 (159)
373 TIGR01243 CDC48 AAA family ATP 87.8 0.51 1.1E-05 52.6 4.0 20 191-210 213-232 (733)
374 COG1222 RPT1 ATP-dependent 26S 87.8 0.4 8.7E-06 49.7 2.9 21 191-212 186-206 (406)
375 PRK12723 flagellar biosynthesi 87.8 0.73 1.6E-05 48.0 4.9 24 192-215 176-199 (388)
376 PRK05428 HPr kinase/phosphoryl 87.8 0.55 1.2E-05 47.6 3.8 63 153-215 103-171 (308)
377 cd04177 RSR1 RSR1 subgroup. R 87.8 0.5 1.1E-05 41.7 3.2 21 192-212 3-23 (168)
378 cd04154 Arl2 Arl2 subfamily. 87.8 0.45 9.8E-06 42.2 2.9 22 191-212 15-36 (173)
379 cd02025 PanK Pantothenate kina 87.8 0.7 1.5E-05 44.0 4.3 23 193-215 2-24 (220)
380 cd04115 Rab33B_Rab33A Rab33B/R 87.7 0.51 1.1E-05 41.8 3.2 21 192-212 4-24 (170)
381 cd03276 ABC_SMC6_euk Eukaryoti 87.7 0.53 1.2E-05 44.0 3.5 23 193-216 24-46 (198)
382 cd04132 Rho4_like Rho4-like su 87.7 0.5 1.1E-05 42.3 3.2 21 192-212 2-22 (187)
383 PRK09270 nucleoside triphospha 87.7 1.1 2.3E-05 42.6 5.6 27 191-217 34-60 (229)
384 cd04101 RabL4 RabL4 (Rab-like4 87.7 0.52 1.1E-05 40.9 3.2 20 192-211 2-21 (164)
385 TIGR02788 VirB11 P-type DNA tr 87.6 0.74 1.6E-05 46.0 4.6 24 191-214 145-168 (308)
386 PF00071 Ras: Ras family; Int 87.6 0.52 1.1E-05 40.9 3.1 21 192-212 1-21 (162)
387 PLN02200 adenylate kinase fami 87.6 0.71 1.5E-05 44.5 4.3 31 191-224 44-74 (234)
388 PRK13949 shikimate kinase; Pro 87.6 0.54 1.2E-05 42.9 3.4 30 192-224 3-32 (169)
389 cd00879 Sar1 Sar1 subfamily. 87.6 0.5 1.1E-05 42.4 3.1 22 191-212 20-41 (190)
390 cd04112 Rab26 Rab26 subfamily. 87.6 0.5 1.1E-05 43.0 3.1 21 192-212 2-22 (191)
391 PRK06761 hypothetical protein; 87.6 0.67 1.4E-05 46.3 4.2 31 192-222 5-35 (282)
392 PRK14737 gmk guanylate kinase; 87.6 0.49 1.1E-05 44.0 3.1 21 193-213 7-27 (186)
393 cd03226 ABC_cobalt_CbiO_domain 87.6 0.49 1.1E-05 43.7 3.1 31 192-222 28-59 (205)
394 PRK07933 thymidylate kinase; V 87.6 0.94 2E-05 42.9 5.1 35 193-227 3-37 (213)
395 cd03264 ABC_drug_resistance_li 87.5 0.47 1E-05 44.0 3.0 32 192-223 27-59 (211)
396 cd01852 AIG1 AIG1 (avrRpt2-ind 87.5 0.46 1E-05 43.6 2.9 21 192-212 2-22 (196)
397 PRK00454 engB GTP-binding prot 87.5 0.56 1.2E-05 42.2 3.4 23 190-212 24-46 (196)
398 cd03269 ABC_putative_ATPase Th 87.5 0.51 1.1E-05 43.7 3.2 31 192-222 28-59 (210)
399 cd01853 Toc34_like Toc34-like 87.5 0.9 2E-05 44.3 5.0 22 191-212 32-53 (249)
400 cd01134 V_A-ATPase_A V/A-type 87.5 0.52 1.1E-05 48.8 3.4 36 191-228 158-193 (369)
401 cd04107 Rab32_Rab38 Rab38/Rab3 87.5 0.52 1.1E-05 43.3 3.2 22 192-213 2-23 (201)
402 PRK04196 V-type ATP synthase s 87.4 0.7 1.5E-05 49.2 4.5 39 191-229 144-186 (460)
403 TIGR03348 VI_IcmF type VI secr 87.4 0.43 9.3E-06 56.1 3.2 20 191-210 112-131 (1169)
404 cd04116 Rab9 Rab9 subfamily. 87.4 0.55 1.2E-05 41.2 3.2 22 191-212 6-27 (170)
405 cd04141 Rit_Rin_Ric Rit/Rin/Ri 87.4 0.54 1.2E-05 42.2 3.2 21 192-212 4-24 (172)
406 TIGR00157 ribosome small subun 87.3 0.85 1.8E-05 44.2 4.7 23 192-214 122-144 (245)
407 cd02026 PRK Phosphoribulokinas 87.3 0.81 1.8E-05 45.2 4.6 35 193-227 2-36 (273)
408 PRK14242 phosphate transporter 87.3 0.65 1.4E-05 44.3 3.9 31 192-222 34-70 (253)
409 TIGR02173 cyt_kin_arch cytidyl 87.3 0.7 1.5E-05 40.8 3.8 20 193-212 3-22 (171)
410 PRK05595 replicative DNA helic 87.3 0.73 1.6E-05 48.3 4.5 33 193-225 204-237 (444)
411 cd01918 HprK_C HprK/P, the bif 87.2 0.61 1.3E-05 42.4 3.4 23 191-213 15-37 (149)
412 cd04103 Centaurin_gamma Centau 87.2 0.58 1.3E-05 41.6 3.3 21 192-212 2-22 (158)
413 TIGR00960 3a0501s02 Type II (G 87.2 0.53 1.1E-05 43.8 3.1 32 192-223 31-63 (216)
414 TIGR02903 spore_lon_C ATP-depe 87.2 0.66 1.4E-05 51.0 4.3 33 192-224 177-218 (615)
415 PF10662 PduV-EutP: Ethanolami 87.1 0.53 1.2E-05 42.6 2.9 21 191-211 2-22 (143)
416 cd03275 ABC_SMC1_euk Eukaryoti 87.1 0.58 1.3E-05 44.9 3.4 23 192-215 24-46 (247)
417 cd01125 repA Hexameric Replica 87.1 0.6 1.3E-05 44.4 3.5 20 193-212 4-23 (239)
418 cd01874 Cdc42 Cdc42 subfamily. 87.1 0.56 1.2E-05 42.3 3.1 21 192-212 3-23 (175)
419 PRK14962 DNA polymerase III su 87.0 0.92 2E-05 48.4 5.1 22 192-213 38-59 (472)
420 cd04104 p47_IIGP_like p47 (47- 87.0 0.6 1.3E-05 43.2 3.3 21 192-212 3-23 (197)
421 smart00174 RHO Rho (Ras homolo 87.0 0.46 1E-05 41.8 2.5 20 193-212 1-20 (174)
422 cd01897 NOG NOG1 is a nucleola 87.0 0.57 1.2E-05 40.9 3.0 21 192-212 2-22 (168)
423 cd04151 Arl1 Arl1 subfamily. 87.0 0.51 1.1E-05 41.1 2.7 20 192-211 1-20 (158)
424 PRK14235 phosphate transporter 86.9 0.69 1.5E-05 44.9 3.9 31 192-222 47-83 (267)
425 TIGR01042 V-ATPase_V1_A V-type 86.9 0.56 1.2E-05 51.2 3.5 36 191-228 227-262 (591)
426 PRK10744 pstB phosphate transp 86.9 0.59 1.3E-05 45.0 3.4 31 192-222 41-77 (260)
427 TIGR02239 recomb_RAD51 DNA rep 86.9 0.3 6.5E-06 49.3 1.4 95 111-215 22-121 (316)
428 PRK15177 Vi polysaccharide exp 86.9 0.56 1.2E-05 44.1 3.1 30 192-221 15-45 (213)
429 PHA02774 E1; Provisional 86.9 1.7 3.6E-05 47.8 7.0 65 191-262 435-507 (613)
430 PRK00081 coaE dephospho-CoA ki 86.8 0.8 1.7E-05 42.5 4.1 29 192-224 4-32 (194)
431 cd03265 ABC_DrrA DrrA is the A 86.8 0.58 1.3E-05 43.7 3.2 31 192-222 28-59 (220)
432 cd03224 ABC_TM1139_LivF_branch 86.8 0.55 1.2E-05 43.7 3.0 31 192-222 28-59 (222)
433 KOG3347 Predicted nucleotide k 86.8 0.47 1E-05 43.8 2.4 21 191-211 8-28 (176)
434 smart00534 MUTSac ATPase domai 86.8 0.53 1.2E-05 43.2 2.8 29 193-221 2-32 (185)
435 COG0593 DnaA ATPase involved i 86.8 0.85 1.8E-05 47.9 4.6 37 191-227 114-152 (408)
436 PRK14238 phosphate transporter 86.7 0.66 1.4E-05 45.2 3.6 32 192-223 52-89 (271)
437 cd03219 ABC_Mj1267_LivG_branch 86.7 0.54 1.2E-05 44.3 2.9 31 192-222 28-59 (236)
438 PLN00020 ribulose bisphosphate 86.7 0.68 1.5E-05 48.4 3.8 35 191-226 149-183 (413)
439 PRK14274 phosphate ABC transpo 86.6 0.78 1.7E-05 44.1 4.0 31 192-222 40-76 (259)
440 cd03270 ABC_UvrA_I The excisio 86.6 0.63 1.4E-05 44.2 3.3 21 192-212 23-43 (226)
441 CHL00081 chlI Mg-protoporyphyr 86.5 0.7 1.5E-05 47.5 3.8 28 191-218 39-66 (350)
442 cd03261 ABC_Org_Solvent_Resist 86.5 0.6 1.3E-05 44.1 3.1 31 192-222 28-59 (235)
443 PRK05748 replicative DNA helic 86.5 0.82 1.8E-05 48.0 4.4 33 193-225 206-239 (448)
444 cd03218 ABC_YhbG The ABC trans 86.5 0.61 1.3E-05 43.8 3.1 31 192-222 28-59 (232)
445 PRK14248 phosphate ABC transpo 86.4 0.75 1.6E-05 44.5 3.8 31 192-222 49-85 (268)
446 cd03268 ABC_BcrA_bacitracin_re 86.4 0.59 1.3E-05 43.2 3.0 21 192-212 28-48 (208)
447 COG4136 ABC-type uncharacteriz 86.4 0.6 1.3E-05 43.5 2.9 19 193-211 31-49 (213)
448 cd03257 ABC_NikE_OppD_transpor 86.4 0.61 1.3E-05 43.5 3.1 31 192-222 33-64 (228)
449 PF10412 TrwB_AAD_bind: Type I 86.4 0.97 2.1E-05 46.7 4.8 38 191-228 16-54 (386)
450 cd02024 NRK1 Nicotinamide ribo 86.4 1.7 3.7E-05 40.7 6.0 32 193-226 2-33 (187)
451 cd03292 ABC_FtsE_transporter F 86.3 0.64 1.4E-05 43.0 3.1 31 192-222 29-60 (214)
452 cd03255 ABC_MJ0796_Lo1CDE_FtsE 86.3 0.59 1.3E-05 43.4 2.9 31 192-222 32-63 (218)
453 TIGR02211 LolD_lipo_ex lipopro 86.3 0.64 1.4E-05 43.3 3.1 31 192-222 33-64 (221)
454 cd03235 ABC_Metallic_Cations A 86.3 0.58 1.3E-05 43.4 2.9 31 192-222 27-58 (213)
455 cd04146 RERG_RasL11_like RERG/ 86.3 0.64 1.4E-05 40.7 3.0 20 193-212 2-21 (165)
456 KOG0734 AAA+-type ATPase conta 86.3 0.59 1.3E-05 50.8 3.2 42 164-208 314-355 (752)
457 PF01745 IPT: Isopentenyl tran 86.3 0.93 2E-05 44.1 4.3 35 193-230 4-38 (233)
458 TIGR03608 L_ocin_972_ABC putat 86.3 0.65 1.4E-05 42.7 3.2 31 192-222 26-57 (206)
459 cd03223 ABCD_peroxisomal_ALDP 86.3 0.66 1.4E-05 41.8 3.1 31 192-222 29-60 (166)
460 PRK14240 phosphate transporter 86.3 0.67 1.4E-05 44.2 3.3 32 192-223 31-68 (250)
461 cd04108 Rab36_Rab34 Rab34/Rab3 86.2 0.67 1.5E-05 41.5 3.1 21 192-212 2-22 (170)
462 PRK06645 DNA polymerase III su 86.2 1 2.2E-05 48.6 4.9 22 191-212 44-65 (507)
463 cd03256 ABC_PhnC_transporter A 86.2 0.6 1.3E-05 44.0 3.0 31 192-222 29-60 (241)
464 TIGR00101 ureG urease accessor 86.2 1.1 2.4E-05 42.0 4.7 23 192-214 3-25 (199)
465 TIGR02323 CP_lyasePhnK phospho 86.2 0.63 1.4E-05 44.4 3.1 32 192-223 31-63 (253)
466 PRK13540 cytochrome c biogenes 86.2 0.66 1.4E-05 42.8 3.2 31 192-222 29-60 (200)
467 PHA02244 ATPase-like protein 86.2 1.7 3.7E-05 45.3 6.4 30 193-223 122-151 (383)
468 COG1125 OpuBA ABC-type proline 86.1 0.57 1.2E-05 46.8 2.8 31 192-222 29-60 (309)
469 PRK13539 cytochrome c biogenes 86.1 0.67 1.4E-05 43.1 3.2 31 192-222 30-61 (207)
470 PRK10584 putative ABC transpor 86.1 0.63 1.4E-05 43.7 3.0 31 192-222 38-69 (228)
471 TIGR01243 CDC48 AAA family ATP 86.1 0.7 1.5E-05 51.5 3.9 35 191-226 488-522 (733)
472 cd03225 ABC_cobalt_CbiO_domain 86.1 0.67 1.4E-05 42.9 3.1 31 192-222 29-60 (211)
473 PF08298 AAA_PrkA: PrkA AAA do 86.1 1.2 2.5E-05 46.1 5.1 50 162-217 66-115 (358)
474 cd03250 ABCC_MRP_domain1 Domai 86.1 0.67 1.4E-05 42.8 3.1 30 192-221 33-63 (204)
475 cd01892 Miro2 Miro2 subfamily. 86.1 0.69 1.5E-05 41.3 3.1 21 192-212 6-26 (169)
476 cd03227 ABC_Class2 ABC-type Cl 86.1 0.92 2E-05 40.7 3.9 24 192-215 23-46 (162)
477 PRK12727 flagellar biosynthesi 86.1 0.96 2.1E-05 49.2 4.7 27 191-217 351-377 (559)
478 cd04153 Arl5_Arl8 Arl5/Arl8 su 86.1 0.62 1.4E-05 41.6 2.8 22 191-212 16-37 (174)
479 PLN03108 Rab family protein; P 86.0 0.68 1.5E-05 43.1 3.2 22 191-212 7-28 (210)
480 cd03254 ABCC_Glucan_exporter_l 86.0 0.66 1.4E-05 43.4 3.1 31 192-222 31-62 (229)
481 TIGR00767 rho transcription te 86.0 0.87 1.9E-05 47.9 4.2 27 191-217 169-195 (415)
482 PRK11629 lolD lipoprotein tran 86.0 0.67 1.5E-05 43.7 3.2 31 192-222 37-68 (233)
483 cd03297 ABC_ModC_molybdenum_tr 86.0 0.68 1.5E-05 43.1 3.1 31 192-222 25-56 (214)
484 cd04111 Rab39 Rab39 subfamily. 86.0 0.68 1.5E-05 43.3 3.2 21 192-212 4-24 (211)
485 cd03246 ABCC_Protease_Secretio 86.0 0.72 1.6E-05 41.7 3.2 31 192-222 30-61 (173)
486 PRK13765 ATP-dependent proteas 85.9 0.83 1.8E-05 50.5 4.2 36 192-227 52-88 (637)
487 cd03266 ABC_NatA_sodium_export 85.9 0.68 1.5E-05 43.0 3.1 31 192-222 33-64 (218)
488 cd03301 ABC_MalK_N The N-termi 85.9 0.69 1.5E-05 42.8 3.2 31 192-222 28-59 (213)
489 cd04158 ARD1 ARD1 subfamily. 85.9 0.64 1.4E-05 41.3 2.8 21 192-212 1-21 (169)
490 cd03298 ABC_ThiQ_thiamine_tran 85.9 0.69 1.5E-05 42.8 3.1 31 192-222 26-57 (211)
491 TIGR03410 urea_trans_UrtE urea 85.9 0.66 1.4E-05 43.6 3.0 31 192-222 28-59 (230)
492 cd03258 ABC_MetN_methionine_tr 85.9 0.69 1.5E-05 43.5 3.1 31 192-222 33-64 (233)
493 cd03289 ABCC_CFTR2 The CFTR su 85.9 0.81 1.8E-05 45.1 3.8 31 192-222 32-62 (275)
494 PRK06995 flhF flagellar biosyn 85.8 1.1 2.3E-05 48.2 4.8 28 192-219 258-286 (484)
495 PRK14241 phosphate transporter 85.8 0.69 1.5E-05 44.4 3.2 31 192-222 32-68 (258)
496 TIGR01978 sufC FeS assembly AT 85.8 0.68 1.5E-05 43.7 3.1 31 192-222 28-61 (243)
497 cd03247 ABCC_cytochrome_bd The 85.8 0.72 1.6E-05 41.8 3.1 21 192-212 30-50 (178)
498 cd01898 Obg Obg subfamily. Th 85.8 0.67 1.5E-05 40.4 2.9 20 193-212 3-22 (170)
499 cd00881 GTP_translation_factor 85.8 0.66 1.4E-05 40.9 2.8 23 193-215 2-24 (189)
500 COG3842 PotA ABC-type spermidi 85.7 0.59 1.3E-05 48.1 2.8 30 193-222 34-64 (352)
No 1
>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.7e-67 Score=527.97 Aligned_cols=344 Identities=30% Similarity=0.416 Sum_probs=300.8
Q ss_pred ChhHHHHHHHHHhhh------------ccCCCcc--eeeccccccceee-eeccccCCcccccccccccC--CCCCCCCC
Q 045329 1 MLRLISRAAAAAAAL------------SKQRNDT--VLTSTSILIHQFF-YSTKTQTKSSKKKQDDNKKS--SKSKSKSS 63 (404)
Q Consensus 1 ~~~~~~~~~~~~~~~------------~~~~~~~--~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~--~~~~~~~~ 63 (404)
||+.|.+.++.+... |+..+.. +.+.|++..|+|. +|++..+++++.++ |+. +.+++.+.
T Consensus 1 m~k~~~~~~~~i~~~~r~s~il~ntvch~~~~~~~~~~~~f~s~~~~ht~rs~~~~~~ss~~k~---K~~~~~~s~i~~~ 77 (461)
T KOG3928|consen 1 MYKNIYICILYIYINFRTSRILINTVCHVVIRMLRMSTSRFISQRLFHTARSLQAAKPSSKGKT---KGISNKSSSISRY 77 (461)
T ss_pred CCcccceehhhhhhhhhhhHhhcCcccccccchhhhhhccccccceeeeccccccCCCCccccc---ccccccccccccC
Confidence 777777777766554 3333322 7889999999999 88888888888777 333 33444444
Q ss_pred CCcccccccccccCccchhHHHHHHhhhcccCCCCCCcccCCCCccccccCCCccccCccccceeEEeCHHHHHhhccCC
Q 045329 64 DANSLSAPAAAQADSADDLESVRARARRLAEDDRNPSLDVGPNHRPLFTKTTSLSLLTRKDACTYFKFSEDELNAMLPEG 143 (404)
Q Consensus 64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ht~~~vGk~y~~p~e~~k~l~~~G 143 (404)
+|+.. ++. +|..+..++...+.+++|+++|+++.+ +|..|+.+++|++|+||++++++++++|
T Consensus 78 ~p~~~-------------lh~--g~~~~ns~~~~~~~~~~~e~~~~l~~p--~p~~~ssk~~gk~~~i~~~~lk~l~~~G 140 (461)
T KOG3928|consen 78 SPARQ-------------LHP--GRLSRNSTAATIHTLQLGENARPLSLP--IPNFHSSKTEGKVFKISEEQLKQLNPLG 140 (461)
T ss_pred Chhhe-------------ech--hhcccccccccccccccCccccccccC--CccccccccccceeecCHHHHHhhccCC
Confidence 55443 333 688999999999999999999999999 7999999999999999999999999999
Q ss_pred CCcchhhhccccCceeEEEchhHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 144 LPTGMLGEFKDSMRYALLVRQSFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 144 Lp~~~~kqfe~f~~p~~LVRk~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
+|.++.+||++|.+||+|||++++|+.++ ++..|+. .|. .||||||++|||||++|+|++|||+.|+|||||
T Consensus 141 ~p~~~~~q~~tf~ea~lLVRkpalel~~~-~r~~d~~-----~P~--~r~vL~Ge~GtGKSiaL~qa~h~a~~~~wlIlh 212 (461)
T KOG3928|consen 141 LPFKKSQQFKTFTEAVLLVRKPALELLLY-KRLVDPM-----HPV--KRFVLDGEPGTGKSIALAQAVHYAADQKWLILH 212 (461)
T ss_pred CchHHHHHHHhhhcchheechHHHHHHHH-hhhcccc-----Ccc--eEEEEeCCCCCchhhHHHHHHHHHhcCCeEEEE
Confidence 99999999999999999999999999999 4555642 455 579999999999999999999999999999999
Q ss_pred ecCcccccccCee--ecCCCCCCccCHHHHHHHHHHHHHHhHHHHh-cCCcccccCCCCCCCCccccccCCCccccCCCC
Q 045329 224 VPRGREWTHGGYF--YKNPQTGLWDTPLQAENVLKDFIKYNESHLR-ELPCQILDPIPLGEGAGVGLLKGVDSKEISEGS 300 (404)
Q Consensus 224 IP~a~~wvng~~~--y~~~~~g~ydQP~~A~~~Lk~fl~~N~~~Lk-kLkls~~~~~~lge~~~~~w~K~~d~~~~p~g~ 300 (404)
||+|+.|+||..+ |.+...|+||||++|+.||++|+++|++.|+ +|+++++ |+|+++ +.+++|+
T Consensus 213 ip~a~~w~~~~~~~~y~~~~kg~~dqP~~a~~~L~~fkk~N~~~L~~~lkt~~~----------yvwsk~---e~t~kG~ 279 (461)
T KOG3928|consen 213 IPYAELWTNGRKDYSYDSDLKGLWDQPLYAKKILKNFKKTNEPALKKQLKTSKD----------YVWSKR---ESTLKGK 279 (461)
T ss_pred CCcHHHhhhccccccccccccccccChhHHHHHHHHHHhhccHHHHHHhccccc----------eeeccc---CCccCCC
Confidence 9999999999654 4456789999999999999999999999999 7877764 779987 6789999
Q ss_pred CHHHHHHhhcccccchHHHHHHHHHHHhc---CCCCcEEEEEeCcccccCcCCcCCcccCCCCccccCCccchHHHHHhh
Q 045329 301 TLFDLVQMGINQMHASVGVVVRLRKELSL---VKDIPVLIAIDQYNNWFTFSEYEEPVTIRSTRPVHARELAMVNAFRSM 377 (404)
Q Consensus 301 tL~DLv~~Gi~~~~~A~~v~~aLl~EL~~---q~~~PVLvAVD~~Nalf~~S~Y~dp~~~r~~k~I~~~eLtLv~~f~~l 377 (404)
+|.+|++.||.+...|.+++++|++||+. ++++||||||||||+||+.|.|++. ++++|+|.+|+|+++++++
T Consensus 280 pl~ei~e~gI~~i~~a~~~vg~llrelk~~s~~~~~kVLvaID~~n~l~~~T~~k~~----~~~~v~P~dl~li~~~~~~ 355 (461)
T KOG3928|consen 280 PLVEIVETGIASIKNAPDAVGILLRELKRLSVQSKVKVLVAIDNFNSLFTVTAYKSE----DNKPVTPLDLTLIHLLRDI 355 (461)
T ss_pred cchhhHHhhhhhhccchHHHHHHHHHHHHhhhhcCccEEEEEcCcchheeeeeeecc----ccCcCCchhhhHHHHHHHH
Confidence 99999999999999999999999999987 7899999999999999999999988 8999999999999999999
Q ss_pred hcCCceeEEEec
Q 045329 378 MHNDMMVGAFSH 389 (404)
Q Consensus 378 l~~dw~~GAis~ 389 (404)
++|||.+|+|.+
T Consensus 356 i~ndwt~g~vi~ 367 (461)
T KOG3928|consen 356 ISNDWTFGSVIM 367 (461)
T ss_pred HhcccccceEEE
Confidence 999998876655
No 2
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=100.00 E-value=1.3e-54 Score=429.70 Aligned_cols=214 Identities=36% Similarity=0.609 Sum_probs=192.8
Q ss_pred EEEchhHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccccccCeeecC
Q 045329 160 LLVRQSFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTHGGYFYKN 239 (404)
Q Consensus 160 ~LVRk~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvng~~~y~~ 239 (404)
+|||++|+||+++|++. +. +++. +||||+|++|||||++|+|++|||+++||||||||+++.|++++++|.+
T Consensus 1 ~lvR~~t~el~~~l~~~-~~-----~~~~--~r~vL~G~~GsGKS~~L~q~~~~A~~~~wiVl~vp~a~~~~~~~~~~~~ 72 (309)
T PF10236_consen 1 SLVRKPTLELINKLKEA-DK-----SSKN--NRYVLTGERGSGKSVLLAQAVHYARENGWIVLYVPSAQDWVNGTTDYAP 72 (309)
T ss_pred CccchHHHHHHHHHHHh-cc-----cCCc--eEEEEECCCCCCHHHHHHHHHHHHHhCCEEEEEcCCHHHHhhCCeeEee
Confidence 58999999999999976 22 1233 5799999999999999999999999999999999999999999998865
Q ss_pred -C-CCCCccCHHHHHHHHHHHHHHhHHHHhcCCcccccCCCCCCCCccccccCCCccccCCCCCHHHHHHhhcccccchH
Q 045329 240 -P-QTGLWDTPLQAENVLKDFIKYNESHLRELPCQILDPIPLGEGAGVGLLKGVDSKEISEGSTLFDLVQMGINQMHASV 317 (404)
Q Consensus 240 -~-~~g~ydQP~~A~~~Lk~fl~~N~~~LkkLkls~~~~~~lge~~~~~w~K~~d~~~~p~g~tL~DLv~~Gi~~~~~A~ 317 (404)
+ ++|+||||++|++||++|+++|+++|++|+++++ |.|.+. +.+++|+||+||+++|++++++|+
T Consensus 73 ~~~~~~~~~qP~~a~~~L~~~~~~N~~~L~~i~~s~~----------~~~~~~---~~~~~g~tL~dLv~~g~~~~~~a~ 139 (309)
T PF10236_consen 73 SPYNPGLYDQPMYAAKWLKKFLKANEELLKKIKLSKD----------YKWSKR---ESTPKGSTLLDLVEQGINDPKYAW 139 (309)
T ss_pred CCCCCCeeecHHHHHHHHHHHHHHhHHHHHhcccccc----------cccccc---ccCCCCCCHHHHHHhhcccchhHH
Confidence 4 8999999999999999999999999999999887 446654 678999999999999999999999
Q ss_pred HHHHHHHHHHhcCCC-CcEEEEEeCcccccCcCCcCCcccCCCCccccCCccchHHHHHhhhc--CCceeEEE---eccc
Q 045329 318 GVVVRLRKELSLVKD-IPVLIAIDQYNNWFTFSEYEEPVTIRSTRPVHARELAMVNAFRSMMH--NDMMVGAF---SHST 391 (404)
Q Consensus 318 ~v~~aLl~EL~~q~~-~PVLvAVD~~Nalf~~S~Y~dp~~~r~~k~I~~~eLtLv~~f~~ll~--~dw~~GAi---s~s~ 391 (404)
+||++||+||++|++ +||||||||||+||+.|+|+++ ++++|||++|+|+++|+++++ .+|.+|++ ..++
T Consensus 140 ~~~~~l~~EL~~~~~~~PVL~avD~~n~l~~~S~Y~~~----~~~~I~~~~L~l~~~f~~~~s~~~~~~nG~~v~~l~~t 215 (309)
T PF10236_consen 140 DVFQALIRELKAQSKRPPVLVAVDGFNALFGPSAYRDP----DFKPIHPHDLTLVRLFLDLLSGKRDFKNGAVVTALAAT 215 (309)
T ss_pred HHHHHHHHHHHhcccCCceEEEehhhHHhhCCccccCC----CCccccHHHhhHHHHHHHHhcCccccCCCeEEEEEecc
Confidence 999999999999998 9999999999999999999999 889999999999999999955 56999998 4566
Q ss_pred ccccCcc
Q 045329 392 AVGSFAR 398 (404)
Q Consensus 392 ~v~k~~~ 398 (404)
+....|.
T Consensus 216 ~~~~~~~ 222 (309)
T PF10236_consen 216 SVSNAPK 222 (309)
T ss_pred ccccccC
Confidence 6555444
No 3
>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=97.16 E-value=0.00059 Score=62.41 Aligned_cols=35 Identities=31% Similarity=0.545 Sum_probs=27.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
.++|+|++|+|||.+|.+++......+..++|+-.
T Consensus 22 ~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~ 56 (234)
T PF01637_consen 22 HILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDF 56 (234)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCC
T ss_pred EEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEec
Confidence 48999999999999999999988766775555543
No 4
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=97.14 E-value=0.00077 Score=60.08 Aligned_cols=35 Identities=26% Similarity=0.344 Sum_probs=26.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
-++|+|++|+|||++|..++..+...+++++++..
T Consensus 26 ~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~ 60 (185)
T PF13191_consen 26 NLLLTGESGSGKTSLLRALLDRLAERGGYVISINC 60 (185)
T ss_dssp -EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEE
Confidence 48999999999999999999988887766776643
No 5
>PF05729 NACHT: NACHT domain
Probab=96.79 E-value=0.002 Score=56.00 Aligned_cols=27 Identities=30% Similarity=0.288 Sum_probs=22.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEG 218 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ng 218 (404)
-++|+|++|+|||++|.+++..-..++
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 379999999999999999887655554
No 6
>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=96.68 E-value=0.0038 Score=58.06 Aligned_cols=34 Identities=32% Similarity=0.334 Sum_probs=29.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-++|+|++|||||+++.++..++.+.+.-++|+.
T Consensus 40 ~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~ 73 (226)
T TIGR03420 40 FLYLWGESGSGKSHLLQAACAAAEERGKSAIYLP 73 (226)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEe
Confidence 4899999999999999999999887776666664
No 7
>PF13245 AAA_19: Part of AAA domain
Probab=96.64 E-value=0.0032 Score=50.57 Aligned_cols=32 Identities=34% Similarity=0.385 Sum_probs=25.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhC----CeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREE----GWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~n----gWIVL~I 224 (404)
++|.|++|||||+++.+++.+...+ +.=|+.+
T Consensus 13 ~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~ 48 (76)
T PF13245_consen 13 FVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVL 48 (76)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEE
Confidence 6779999999999999999988754 5555554
No 8
>PF13173 AAA_14: AAA domain
Probab=96.62 E-value=0.0026 Score=54.91 Aligned_cols=34 Identities=32% Similarity=0.360 Sum_probs=25.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHH-hCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAR-EEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL~I 224 (404)
+-++|+|+||||||++|.|+...-. .++++.+.+
T Consensus 3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~ 37 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINF 37 (128)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhcccccceeecc
Confidence 3489999999999999999987654 344444443
No 9
>PRK06851 hypothetical protein; Provisional
Probab=96.53 E-value=0.0049 Score=63.49 Aligned_cols=38 Identities=29% Similarity=0.330 Sum_probs=34.4
Q ss_pred ceeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 190 RKQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 190 r~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
.++|+|.|++|+|||++|.++...|.++|+-|.+...+
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~ 251 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCG 251 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCC
Confidence 36799999999999999999999999999998887654
No 10
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=96.50 E-value=0.025 Score=53.12 Aligned_cols=27 Identities=15% Similarity=0.026 Sum_probs=23.0
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE 217 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n 217 (404)
.-+.|+|++|||||+++.|+...+...
T Consensus 20 ~i~~i~G~~GsGKT~l~~~l~~~~~~~ 46 (235)
T cd01123 20 SITEIFGEFGSGKTQLCHQLAVTVQLP 46 (235)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHeeCc
Confidence 458999999999999999998776543
No 11
>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=96.49 E-value=0.0036 Score=51.97 Aligned_cols=36 Identities=25% Similarity=0.318 Sum_probs=28.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
+.++|+|++|||||+++..+.......+.-|+++..
T Consensus 20 ~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~ 55 (151)
T cd00009 20 KNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNA 55 (151)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEeh
Confidence 348999999999999988888877666666666643
No 12
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=96.37 E-value=0.0032 Score=57.75 Aligned_cols=29 Identities=24% Similarity=0.439 Sum_probs=24.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWL 220 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWI 220 (404)
+++|||++|+||||+|..++.....+|.-
T Consensus 1 ~i~iTG~pG~GKTTll~k~i~~l~~~~~~ 29 (168)
T PF03266_consen 1 HIFITGPPGVGKTTLLKKVIEELKKKGLP 29 (168)
T ss_dssp EEEEES-TTSSHHHHHHHHHHHHHHTCGG
T ss_pred CEEEECcCCCCHHHHHHHHHHHhhccCCc
Confidence 48999999999999999999999766543
No 13
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.32 E-value=0.0049 Score=56.27 Aligned_cols=22 Identities=32% Similarity=0.511 Sum_probs=20.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A 214 (404)
.++.|++|||||++++.+++.+
T Consensus 20 ~~i~GpPGTGKT~~l~~~i~~~ 41 (236)
T PF13086_consen 20 TLIQGPPGTGKTTTLASIIAQL 41 (236)
T ss_dssp EEEE-STTSSHHHHHHHHHHHH
T ss_pred EEEECCCCCChHHHHHHHHHHh
Confidence 7999999999999999999988
No 14
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=96.30 E-value=0.0059 Score=52.45 Aligned_cols=34 Identities=29% Similarity=0.317 Sum_probs=29.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
++|+|++|+|||+++.++...+..+|--|+|+.-
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~ 35 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDI 35 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEEC
Confidence 6899999999999999999998877777777754
No 15
>PRK06835 DNA replication protein DnaC; Validated
Probab=96.29 E-value=0.0079 Score=61.01 Aligned_cols=93 Identities=14% Similarity=0.215 Sum_probs=58.5
Q ss_pred EeCHHHHHhhccC-CCCcchhhh-ccccCce----------eEEEchhHHHHHHHHHHhcCCCccCCCCCccceeEEEEC
Q 045329 130 KFSEDELNAMLPE-GLPTGMLGE-FKDSMRY----------ALLVRQSFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDG 197 (404)
Q Consensus 130 ~~p~e~~k~l~~~-GLp~~~~kq-fe~f~~p----------~~LVRk~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G 197 (404)
.+-...++.++.. |++..+.+. |+.|.-- ..--|+....+++..++.++. + .. .. ..++|+|
T Consensus 117 C~~q~~i~~~~~~S~i~~~~~~~~F~nf~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~f~~~-f-~~---~~-~~Lll~G 190 (329)
T PRK06835 117 CYKQKLINLYYKQSNLKEILKEENFSNFNLNYYSDEKDDDEPLSPRKNMEKILEKCKNFIEN-F-DK---NN-ENLLFYG 190 (329)
T ss_pred chhHHHHHHHHHHcCCchHHHhCChhhCCccccCccccccCCCCHHHHHHHHHHHHHHHHHH-H-hc---cC-CcEEEEC
Confidence 3345566666655 888776665 6766422 113455544444433333221 1 01 11 3499999
Q ss_pred CCCCcHHHHHHHHHHHHHhCCeEEEEecCcc
Q 045329 198 PLCCGKSITLAMLVHWAREEGWLVLYVPRGR 228 (404)
Q Consensus 198 ~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~ 228 (404)
+.|+|||.++.-+...+..+|.-|+|++...
T Consensus 191 ~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~ 221 (329)
T PRK06835 191 NTGTGKTFLSNCIAKELLDRGKSVIYRTADE 221 (329)
T ss_pred CCCCcHHHHHHHHHHHHHHCCCeEEEEEHHH
Confidence 9999999988888888888899999987643
No 16
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=96.27 E-value=0.0053 Score=57.73 Aligned_cols=37 Identities=27% Similarity=0.172 Sum_probs=32.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGR 228 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~ 228 (404)
-++|+|++|||||.++..+.+.+...|+-+++|....
T Consensus 44 ~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~ 80 (227)
T PRK08903 44 FFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAAS 80 (227)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHH
Confidence 4899999999999999999988888899888886643
No 17
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.22 E-value=0.006 Score=58.44 Aligned_cols=36 Identities=28% Similarity=0.184 Sum_probs=30.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
.++|+|++|||||.++..+.+.+..+|.=|+|++-.
T Consensus 47 ~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~ 82 (235)
T PRK08084 47 YIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLD 82 (235)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHH
Confidence 489999999999999998888888888877777653
No 18
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=96.20 E-value=0.0063 Score=54.73 Aligned_cols=32 Identities=25% Similarity=0.206 Sum_probs=28.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
++|.|++|||||++..|+++.+.++|==|+|+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~ 33 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYV 33 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence 68999999999999999999888887777777
No 19
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.20 E-value=0.0046 Score=50.57 Aligned_cols=28 Identities=25% Similarity=0.312 Sum_probs=24.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEG 218 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ng 218 (404)
..++|.|++|||||+++..+.......+
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~ 30 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPG 30 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCC
Confidence 3589999999999999999988777765
No 20
>PRK12377 putative replication protein; Provisional
Probab=96.14 E-value=0.011 Score=57.65 Aligned_cols=36 Identities=22% Similarity=0.199 Sum_probs=31.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
.++|+|++|||||.++.-+...+.++|.-|++++-.
T Consensus 103 ~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~ 138 (248)
T PRK12377 103 NFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVP 138 (248)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHH
Confidence 489999999999999999999998889888887554
No 21
>PF14516 AAA_35: AAA-like domain
Probab=96.14 E-value=0.082 Score=53.38 Aligned_cols=32 Identities=25% Similarity=0.487 Sum_probs=30.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+.|.|+|.+|||++|.+++..+.++|..+++|
T Consensus 34 ~~I~apRq~GKTSll~~l~~~l~~~~~~~v~i 65 (331)
T PF14516_consen 34 IRIKAPRQMGKTSLLLRLLERLQQQGYRCVYI 65 (331)
T ss_pred EEEECcccCCHHHHHHHHHHHHHHCCCEEEEE
Confidence 79999999999999999999999999999998
No 22
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=96.04 E-value=0.0098 Score=49.87 Aligned_cols=31 Identities=29% Similarity=0.446 Sum_probs=26.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
|+|.|++||||||+..++...- |+.++++-+
T Consensus 2 I~I~G~~gsGKST~a~~La~~~---~~~~i~~d~ 32 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERL---GFPVISMDD 32 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH---TCEEEEEHH
T ss_pred EEEECCCCCCHHHHHHHHHHHH---CCeEEEecc
Confidence 8999999999999998886633 888888766
No 23
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.98 E-value=0.018 Score=58.40 Aligned_cols=60 Identities=18% Similarity=0.266 Sum_probs=41.5
Q ss_pred eEEEch-hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHHhC--CeEEEEecC
Q 045329 159 ALLVRQ-SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWAREE--GWLVLYVPR 226 (404)
Q Consensus 159 ~~LVRk-~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~~n--gWIVL~IP~ 226 (404)
.+.-|+ +..+|...|...+.. ..+ ..++|+|++|+|||+++..+....... ++.++||..
T Consensus 31 ~l~~Re~e~~~l~~~l~~~~~~-----~~~---~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~ 93 (394)
T PRK00411 31 NLPHREEQIEELAFALRPALRG-----SRP---LNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINC 93 (394)
T ss_pred CCCCHHHHHHHHHHHHHHHhCC-----CCC---CeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEEC
Confidence 344566 456666666554321 122 238999999999999999999887665 477888754
No 24
>PRK08727 hypothetical protein; Validated
Probab=95.85 E-value=0.011 Score=56.69 Aligned_cols=35 Identities=29% Similarity=0.368 Sum_probs=31.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
-++|+|+.|||||.++.-+.+.+.++|--|+|+|-
T Consensus 43 ~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~ 77 (233)
T PRK08727 43 WLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPL 77 (233)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeH
Confidence 48999999999999999888888889988889874
No 25
>PRK08181 transposase; Validated
Probab=95.84 E-value=0.009 Score=58.98 Aligned_cols=35 Identities=34% Similarity=0.445 Sum_probs=31.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
.++|+|++|||||.+++-+...|.++|+-|+|++-
T Consensus 108 nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~ 142 (269)
T PRK08181 108 NLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT 142 (269)
T ss_pred eEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeH
Confidence 38999999999999999999899999999988864
No 26
>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=95.82 E-value=0.01 Score=61.04 Aligned_cols=36 Identities=22% Similarity=0.245 Sum_probs=30.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC--CeEEEEecC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE--GWLVLYVPR 226 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n--gWIVL~IP~ 226 (404)
+.++|+|++|+|||.++..+.+.+.++ +|-|+|++.
T Consensus 137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 348999999999999998777777766 899999964
No 27
>PRK06921 hypothetical protein; Provisional
Probab=95.71 E-value=0.026 Score=55.50 Aligned_cols=37 Identities=30% Similarity=0.286 Sum_probs=32.0
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEecCc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE-GWLVLYVPRG 227 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~IP~a 227 (404)
..++|+|++|+|||.++.-+...+.++ |.-|+|++..
T Consensus 118 ~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~ 155 (266)
T PRK06921 118 NSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFV 155 (266)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHH
Confidence 359999999999999998888888777 9999999853
No 28
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=95.69 E-value=0.14 Score=47.44 Aligned_cols=71 Identities=17% Similarity=0.200 Sum_probs=42.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC---CeEEEEecCcccccccCeeecC-CC-C--CCccCHHHHHHHHHHHHHHhHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE---GWLVLYVPRGREWTHGGYFYKN-PQ-T--GLWDTPLQAENVLKDFIKYNES 264 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n---gWIVL~IP~a~~wvng~~~y~~-~~-~--g~ydQP~~A~~~Lk~fl~~N~~ 264 (404)
.+++.|..|||||++|..++..+... +-+-|||=++..- +-..|.+ +. . -.-..+..+.++|+.+...-+.
T Consensus 40 h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k~~--~l~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~em~~ 117 (205)
T PF01580_consen 40 HLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPKGS--DLAPLADLPHVAAVAVATDPEEILRLLEELVEEMER 117 (205)
T ss_dssp SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TTSS--CCGGGTT-TTBSS-S-B-SHHHHHHHHHHHHHHHHH
T ss_pred eEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCCcc--ccchhhhhhhhccccccccHHHHHHHHHHHHHHHHH
Confidence 58999999999999999888876662 5555666554421 0011222 11 1 1456888999998887664443
No 29
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=95.67 E-value=0.036 Score=59.76 Aligned_cols=126 Identities=16% Similarity=0.119 Sum_probs=69.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccccccCeeecCC-------CCCCccC--HHHHHHHHHHHHHHh
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTHGGYFYKNP-------QTGLWDT--PLQAENVLKDFIKYN 262 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvng~~~y~~~-------~~g~ydQ--P~~A~~~Lk~fl~~N 262 (404)
-.+|+||.||||||++-= .|.+.| +...+|.|+..+-.++ .-+.+++ -.....+|....+.|
T Consensus 112 iLLltGPsGcGKSTtvkv---Lskelg------~~~~Ew~Npi~~~~~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg 182 (634)
T KOG1970|consen 112 ILLLTGPSGCGKSTTVKV---LSKELG------YQLIEWSNPINLKEPENLHNETSFLMFPYQSQLAVFESFLLRATKYG 182 (634)
T ss_pred EEEEeCCCCCCchhHHHH---HHHhhC------ceeeeecCCccccccccccccchhcccchhhHHHHHHHHHHHHHhhc
Confidence 378999999999999732 344444 4456787775532221 1122233 233345666665555
Q ss_pred HHHHhcCCcccccCCCCCCCCccccccCCCccccCCCCCHHHHHHhhcccccchHHHHHHHHHHHhcCCCCcEEEEEeCc
Q 045329 263 ESHLRELPCQILDPIPLGEGAGVGLLKGVDSKEISEGSTLFDLVQMGINQMHASVGVVVRLRKELSLVKDIPVLIAIDQY 342 (404)
Q Consensus 263 ~~~LkkLkls~~~~~~lge~~~~~w~K~~d~~~~p~g~tL~DLv~~Gi~~~~~A~~v~~aLl~EL~~q~~~PVLvAVD~~ 342 (404)
.-.+.......+.++. + +.||=++--. + +...|+.+++++..-+.+|++|.|=+.
T Consensus 183 ~l~~~g~~~~~~~~li-----------------L-----veDLPn~~~~--d-~~~~f~evL~~y~s~g~~PlIf~iTd~ 237 (634)
T KOG1970|consen 183 SLQMSGDDLRTDKKLI-----------------L-----VEDLPNQFYR--D-DSETFREVLRLYVSIGRCPLIFIITDS 237 (634)
T ss_pred hhhhcccccccCceEE-----------------E-----eeccchhhhh--h-hHHHHHHHHHHHHhcCCCcEEEEEecc
Confidence 4333333322221111 0 0111111111 1 466789999999999999999999888
Q ss_pred ccccCcCCc
Q 045329 343 NNWFTFSEY 351 (404)
Q Consensus 343 Nalf~~S~Y 351 (404)
+.-.....|
T Consensus 238 ~~~g~nnq~ 246 (634)
T KOG1970|consen 238 LSNGNNNQD 246 (634)
T ss_pred ccCCCcchh
Confidence 775443334
No 30
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=95.67 E-value=0.014 Score=50.36 Aligned_cols=33 Identities=18% Similarity=0.206 Sum_probs=24.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
++|+|++|||||.+..++.+.. ...+++++++.
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~-~~~~~~i~~~~ 34 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL-GRPVIRINCSS 34 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH-TCEEEEEE-TT
T ss_pred EEEECCCCCCHHHHHHHHHHHh-hcceEEEEecc
Confidence 7999999999999887766655 55566665544
No 31
>PRK06893 DNA replication initiation factor; Validated
Probab=95.63 E-value=0.014 Score=55.56 Aligned_cols=36 Identities=19% Similarity=0.178 Sum_probs=29.0
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
+.++|+|++|||||.++.-+.+.+.++|-=|+|++-
T Consensus 40 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~ 75 (229)
T PRK06893 40 PFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPL 75 (229)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeH
Confidence 347999999999999998888887777656667664
No 32
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=95.53 E-value=0.034 Score=54.51 Aligned_cols=37 Identities=22% Similarity=0.295 Sum_probs=32.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
+.++|+|++|||||.++-.++.....+|-=+|.|+..
T Consensus 53 nnvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~ 89 (249)
T PF05673_consen 53 NNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKE 89 (249)
T ss_pred cceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHH
Confidence 3499999999999999999999888899888888764
No 33
>PRK06526 transposase; Provisional
Probab=95.51 E-value=0.011 Score=57.89 Aligned_cols=33 Identities=30% Similarity=0.324 Sum_probs=29.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.++|+|++|||||.+++.+...|..+|+-|+++
T Consensus 100 nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~ 132 (254)
T PRK06526 100 NVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFA 132 (254)
T ss_pred eEEEEeCCCCchHHHHHHHHHHHHHCCCchhhh
Confidence 489999999999999999999998889887775
No 34
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=95.50 E-value=0.016 Score=54.67 Aligned_cols=35 Identities=17% Similarity=0.197 Sum_probs=30.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE-GWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~IP~ 226 (404)
-++|.|++|+|||+++.|++..+..+ |+=|+|+.-
T Consensus 15 l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~ 50 (242)
T cd00984 15 LIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSL 50 (242)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeC
Confidence 38999999999999999988877666 999999863
No 35
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.50 E-value=0.042 Score=53.64 Aligned_cols=37 Identities=24% Similarity=0.303 Sum_probs=32.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
..++|+|++|+|||.+++-+.+.+...||=|++++-+
T Consensus 106 ~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~ 142 (254)
T COG1484 106 ENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAP 142 (254)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence 3499999999999999998888888889999999765
No 36
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=95.49 E-value=0.017 Score=56.23 Aligned_cols=34 Identities=26% Similarity=0.298 Sum_probs=30.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-++|.|++|||||++..|+...+.++|.=|+||.
T Consensus 38 ~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis 71 (259)
T TIGR03878 38 VINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT 71 (259)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence 3899999999999999999888777899888884
No 37
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=95.48 E-value=0.018 Score=55.38 Aligned_cols=34 Identities=21% Similarity=0.085 Sum_probs=29.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE-GWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~IP 225 (404)
-++|.|++|+|||+++.|+...+..+ ||-|+||.
T Consensus 32 ~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS 66 (271)
T cd01122 32 LIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS 66 (271)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence 38999999999999999988876555 99999985
No 38
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.44 E-value=0.012 Score=61.84 Aligned_cols=45 Identities=22% Similarity=0.215 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHhcCCCccCCC-CCccceeEEEECCCCCcHHHHHHH
Q 045329 165 SFLDIRDNFRRIVDPSLQSTN-GPKIRKQIVLDGPLCCGKSITLAM 209 (404)
Q Consensus 165 ~tleLi~~L~~~~d~~~~std-~~~~r~r~vL~G~rGsGKS~~L~q 209 (404)
--.+|++.|...+....|=.. +.+=+++|+||||+|||||++.+-
T Consensus 209 ~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaA 254 (457)
T KOG0743|consen 209 LKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAA 254 (457)
T ss_pred HHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHH
Confidence 355677777665443221111 455567899999999999998753
No 39
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.43 E-value=0.017 Score=58.32 Aligned_cols=42 Identities=29% Similarity=0.480 Sum_probs=36.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHh-CCeEEEEecCccccccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWARE-EGWLVLYVPRGREWTHG 233 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~-ngWIVL~IP~a~~wvng 233 (404)
=++++|+.||||||+|+-.+.|--+ ..--||.|-++-++++.
T Consensus 127 LILVTGpTGSGKSTTlAamId~iN~~~~~HIlTIEDPIE~vh~ 169 (353)
T COG2805 127 LILVTGPTGSGKSTTLAAMIDYINKHKAKHILTIEDPIEYVHE 169 (353)
T ss_pred eEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEecCchHhhhc
Confidence 3899999999999999999998665 48889999999998754
No 40
>PRK05642 DNA replication initiation factor; Validated
Probab=95.41 E-value=0.02 Score=54.84 Aligned_cols=36 Identities=25% Similarity=0.225 Sum_probs=28.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
.++|+|++|||||.+|.-+.+.+..+|--|+|++-.
T Consensus 47 ~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~ 82 (234)
T PRK05642 47 LIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLA 82 (234)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHH
Confidence 489999999999999766666566667778888753
No 41
>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=95.40 E-value=0.016 Score=48.63 Aligned_cols=22 Identities=32% Similarity=0.527 Sum_probs=19.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A 214 (404)
++|+|++|||||++...+..+.
T Consensus 1 ill~G~~G~GKT~l~~~la~~l 22 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL 22 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT
T ss_pred CEEECcCCCCeeHHHHHHHhhc
Confidence 5899999999999988777765
No 42
>PRK09183 transposase/IS protein; Provisional
Probab=95.38 E-value=0.02 Score=55.89 Aligned_cols=34 Identities=32% Similarity=0.270 Sum_probs=30.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
.++|+|++|||||++++.+.+.|..+|.=|+|++
T Consensus 104 ~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~ 137 (259)
T PRK09183 104 NIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT 137 (259)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 3899999999999999999888888898888875
No 43
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=95.35 E-value=0.17 Score=52.24 Aligned_cols=50 Identities=20% Similarity=0.303 Sum_probs=34.3
Q ss_pred EEEch-hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHHhC
Q 045329 160 LLVRQ-SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWAREE 217 (404)
Q Consensus 160 ~LVRk-~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~~n 217 (404)
+--|+ +-.++...|..++.. ..|.+ ++++|++|||||+++..++.-..+.
T Consensus 19 l~~Re~ei~~l~~~l~~~~~~-----~~p~n---~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 19 LPHREEEINQLASFLAPALRG-----ERPSN---IIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred ccccHHHHHHHHHHHHHHhcC-----CCCcc---EEEECCCCCCHhHHHHHHHHHHHhh
Confidence 44555 455566666655442 13443 8999999999999999888876643
No 44
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=95.33 E-value=0.026 Score=50.29 Aligned_cols=34 Identities=21% Similarity=0.374 Sum_probs=28.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+++.+.|.+|||||+++..++.++.++||=|.+|
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~i 34 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVI 34 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEE
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEE
Confidence 3589999999999999999999999999988766
No 45
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.30 E-value=0.023 Score=48.02 Aligned_cols=24 Identities=25% Similarity=0.401 Sum_probs=19.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
-++|+|++|+|||+++.++.....
T Consensus 6 ~~~i~G~~G~GKT~~~~~~~~~~~ 29 (131)
T PF13401_consen 6 ILVISGPPGSGKTTLIKRLARQLN 29 (131)
T ss_dssp -EEEEE-TTSSHHHHHHHHHHHHH
T ss_pred ccEEEcCCCCCHHHHHHHHHHHhH
Confidence 389999999999999999888654
No 46
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=95.30 E-value=0.067 Score=53.03 Aligned_cols=33 Identities=18% Similarity=0.198 Sum_probs=26.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHh-------CCeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWARE-------EGWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~-------ngWIVL~IP~ 226 (404)
+.|+|++|||||+++.|+...|.. +| -|+||--
T Consensus 98 ~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~-~~~yi~t 137 (310)
T TIGR02236 98 TEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGG-KAVYIDT 137 (310)
T ss_pred EEEECCCCCCHHHHHHHHHHHhcCCcccCCCcc-eEEEEEC
Confidence 689999999999999999776652 34 6777743
No 47
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.30 E-value=0.023 Score=54.46 Aligned_cols=34 Identities=32% Similarity=0.399 Sum_probs=30.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-++|.|++|||||++..|+++-..++|+-++||.
T Consensus 26 ~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~ 59 (230)
T PRK08533 26 LILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS 59 (230)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence 4899999999999999999887778898888885
No 48
>PRK04296 thymidine kinase; Provisional
Probab=95.27 E-value=0.027 Score=52.27 Aligned_cols=32 Identities=28% Similarity=0.238 Sum_probs=28.2
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.+++|+.|+|||++|.+.+..+...|.-|+++
T Consensus 5 ~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~ 36 (190)
T PRK04296 5 EFIYGAMNSGKSTELLQRAYNYEERGMKVLVF 36 (190)
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHcCCeEEEE
Confidence 68999999999999999999887778777766
No 49
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=95.20 E-value=0.029 Score=50.45 Aligned_cols=33 Identities=36% Similarity=0.434 Sum_probs=28.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
+++.|++|+|||++...+.....++|.-|+.|.
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~ 35 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA 35 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 689999999999999999988878887666664
No 50
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=95.20 E-value=0.024 Score=52.86 Aligned_cols=35 Identities=23% Similarity=0.179 Sum_probs=29.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCC------eEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEG------WLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ng------WIVL~IP~ 226 (404)
-+.|+|++|||||+++.|++..+..++ .-|+||--
T Consensus 21 v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~ 61 (226)
T cd01393 21 ITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDT 61 (226)
T ss_pred EEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEec
Confidence 489999999999999999998887776 77777643
No 51
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=95.16 E-value=0.029 Score=52.71 Aligned_cols=34 Identities=21% Similarity=0.251 Sum_probs=31.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-++|.|++|+|||++..|+++.+.++|.-|+||.
T Consensus 18 ~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s 51 (224)
T TIGR03880 18 VIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYIS 51 (224)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence 4899999999999999999999988999999984
No 52
>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=95.13 E-value=0.053 Score=54.31 Aligned_cols=60 Identities=18% Similarity=0.324 Sum_probs=38.5
Q ss_pred EEEch-hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHHh--CC----eEEEEecCc
Q 045329 160 LLVRQ-SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWARE--EG----WLVLYVPRG 227 (404)
Q Consensus 160 ~LVRk-~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~~--ng----WIVL~IP~a 227 (404)
+.-|+ +..+|...|+...+. ..+ ..++|+|++|||||+++..+.....+ .+ |.++||.-.
T Consensus 17 l~gRe~e~~~l~~~l~~~~~~-----~~~---~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~ 83 (365)
T TIGR02928 17 IVHRDEQIEELAKALRPILRG-----SRP---SNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQ 83 (365)
T ss_pred CCCcHHHHHHHHHHHHHHHcC-----CCC---CcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECC
Confidence 44577 445666666654331 112 24899999999999999887765432 22 777777643
No 53
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=95.12 E-value=0.025 Score=50.49 Aligned_cols=32 Identities=28% Similarity=0.466 Sum_probs=22.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGRE 229 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~ 229 (404)
|++|+|..|||||+++.++..+ |+.++ |..-.
T Consensus 1 rI~i~G~~stGKTTL~~~L~~~----g~~~v--~E~ar 32 (163)
T PF13521_consen 1 RIVITGGPSTGKTTLIEALAAR----GYPVV--PEYAR 32 (163)
T ss_dssp -EEEE--TTSHHHHHHHHHHHH----T-EEE----TTH
T ss_pred CEEEECCCCCCHHHHHHHHHHc----CCeEE--eecHH
Confidence 5899999999999999998877 88866 55443
No 54
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.11 E-value=0.027 Score=54.38 Aligned_cols=35 Identities=31% Similarity=0.435 Sum_probs=32.2
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
.-++++|++|||||+...|.+.-..+.|+-|+||.
T Consensus 24 ~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs 58 (260)
T COG0467 24 SVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS 58 (260)
T ss_pred cEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence 45999999999999999999998888899999993
No 55
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=95.11 E-value=0.033 Score=51.54 Aligned_cols=35 Identities=26% Similarity=0.314 Sum_probs=29.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
-+.|+|++|||||++..|+...+..+|-=|+||.-
T Consensus 14 i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~ 48 (209)
T TIGR02237 14 ITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDT 48 (209)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEC
Confidence 48999999999999999998888777777777643
No 56
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.10 E-value=0.06 Score=53.20 Aligned_cols=89 Identities=21% Similarity=0.185 Sum_probs=48.8
Q ss_pred HHHHhhccCCCCcchhhhc-cccCc--eeEEEchhHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHH
Q 045329 134 DELNAMLPEGLPTGMLGEF-KDSMR--YALLVRQSFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAML 210 (404)
Q Consensus 134 e~~k~l~~~GLp~~~~kqf-e~f~~--p~~LVRk~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qa 210 (404)
+-++.|...|++..+.+++ +...+ +.-.++ ..+.+.|.+.+....+..+-......++|.|+.|+|||++++.+
T Consensus 138 ~l~~~L~~~gv~~~la~~L~~~l~~~~~~~~~~---~~~~~~l~~~l~~~~~~~~~~~~~~vi~~vGptGvGKTTt~~kL 214 (282)
T TIGR03499 138 KLLERLLRAGVSPELARELLEKLPERADAEDAW---RWLREALEKMLPVKPEEDEILEQGGVIALVGPTGVGKTTTLAKL 214 (282)
T ss_pred HHHHHHHHCCCCHHHHHHHHHHhhccCCHHHHH---HHHHHHHHHHhccCCccccccCCCeEEEEECCCCCCHHHHHHHH
Confidence 3455667778888777776 22221 001111 22333343333211001000011135889999999999999999
Q ss_pred HHHHHhC-C-eEEEEec
Q 045329 211 VHWAREE-G-WLVLYVP 225 (404)
Q Consensus 211 v~~A~~n-g-WIVL~IP 225 (404)
..++..+ | +=|..|.
T Consensus 215 a~~~~~~~g~~~V~li~ 231 (282)
T TIGR03499 215 AARFVLEHGNKKVALIT 231 (282)
T ss_pred HHHHHHHcCCCeEEEEE
Confidence 9988765 4 6666663
No 57
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=95.05 E-value=0.034 Score=52.23 Aligned_cols=34 Identities=26% Similarity=0.289 Sum_probs=30.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-+.|+|++|+|||+++.|++..+..+|.=|+||.
T Consensus 25 i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~ 58 (225)
T PRK09361 25 ITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID 58 (225)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence 3799999999999999999988888888888884
No 58
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=95.01 E-value=0.027 Score=51.81 Aligned_cols=56 Identities=18% Similarity=0.201 Sum_probs=39.7
Q ss_pred hhhhccccCceeEEEchhHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHH
Q 045329 148 MLGEFKDSMRYALLVRQSFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 148 ~~kqfe~f~~p~~LVRk~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A 214 (404)
+.++++.++-+.+.+...+-+-++.|++.+. . +.++|.|+.|+|||++++.++-.+
T Consensus 4 ~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l~---------~--k~~vl~G~SGvGKSSLiN~L~~~~ 59 (161)
T PF03193_consen 4 LLEQYEKLGYPVFFISAKTGEGIEELKELLK---------G--KTSVLLGQSGVGKSSLINALLPEA 59 (161)
T ss_dssp HHHHHHHTTSEEEE-BTTTTTTHHHHHHHHT---------T--SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred HHHHHHHcCCcEEEEeCCCCcCHHHHHHHhc---------C--CEEEEECCCCCCHHHHHHHHHhhc
Confidence 4455667777788877655566666665542 1 248999999999999999988753
No 59
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=95.00 E-value=0.033 Score=51.41 Aligned_cols=36 Identities=25% Similarity=0.452 Sum_probs=30.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
.++|+|++|+|||.+.+-+...|..+|--|+|+...
T Consensus 49 ~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~ 84 (178)
T PF01695_consen 49 NLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITAS 84 (178)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHH
T ss_pred EEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecC
Confidence 499999999999999999988899999999999755
No 60
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=94.97 E-value=0.026 Score=58.97 Aligned_cols=33 Identities=33% Similarity=0.434 Sum_probs=29.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
++|-|++|.||||+|+|+.+-..+++ =||||.-
T Consensus 96 iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsG 128 (456)
T COG1066 96 ILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSG 128 (456)
T ss_pred EEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeC
Confidence 78999999999999999999777777 9999964
No 61
>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=94.97 E-value=0.027 Score=53.82 Aligned_cols=32 Identities=19% Similarity=0.266 Sum_probs=24.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
-++|+|++|+|||+++.++.......+.++.+
T Consensus 45 ~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~ 76 (269)
T TIGR03015 45 FILITGEVGAGKTTLIRNLLKRLDQERVVAAK 76 (269)
T ss_pred EEEEEcCCCCCHHHHHHHHHHhcCCCCeEEee
Confidence 38999999999999999887765544444433
No 62
>PRK07952 DNA replication protein DnaC; Validated
Probab=94.96 E-value=0.034 Score=54.16 Aligned_cols=34 Identities=21% Similarity=0.203 Sum_probs=30.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
.++|+|++|||||.+++.+..++..+|--|++++
T Consensus 101 ~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it 134 (244)
T PRK07952 101 SFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT 134 (244)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 5999999999999999999999988887777773
No 63
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=94.93 E-value=0.15 Score=50.77 Aligned_cols=50 Identities=22% Similarity=0.278 Sum_probs=40.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccccccCeeecCCCCCCccCHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTHGGYFYKNPQTGLWDTPLQAENVLKDF 258 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvng~~~y~~~~~g~ydQP~~A~~~Lk~f 258 (404)
+=++|+.|||||++.+|++..|...|=.++||---..+ -|.++.++...+
T Consensus 63 tEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~~l----------------~p~r~~~l~~~~ 112 (279)
T COG0468 63 TEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEHAL----------------DPERAKQLGVDL 112 (279)
T ss_pred EEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeCCCCC----------------CHHHHHHHHHhh
Confidence 44899999999999999999999999888887543333 377777777765
No 64
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=94.90 E-value=0.039 Score=51.86 Aligned_cols=34 Identities=24% Similarity=0.268 Sum_probs=29.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-++|.|++|||||+++.|++..+.++|.=|+||.
T Consensus 22 ~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is 55 (229)
T TIGR03881 22 FVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT 55 (229)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence 4899999999999999998877767888777774
No 65
>PRK08116 hypothetical protein; Validated
Probab=94.88 E-value=0.038 Score=54.27 Aligned_cols=34 Identities=26% Similarity=0.343 Sum_probs=29.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
.++|+|++|||||.++..+.+...++|--|++++
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~ 149 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN 149 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence 4999999999999999988888888787777775
No 66
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=94.84 E-value=0.31 Score=55.82 Aligned_cols=49 Identities=16% Similarity=0.260 Sum_probs=34.2
Q ss_pred eeEEEch-hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHH
Q 045329 158 YALLVRQ-SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 158 p~~LVRk-~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~ 213 (404)
..+.-|+ +..+|...|..++... ++. +-++|+|++|||||++...++.-
T Consensus 755 D~LPhREeEIeeLasfL~paIkgs-----gpn--nvLYIyG~PGTGKTATVK~VLrE 804 (1164)
T PTZ00112 755 KYLPCREKEIKEVHGFLESGIKQS-----GSN--QILYISGMPGTGKTATVYSVIQL 804 (1164)
T ss_pred CcCCChHHHHHHHHHHHHHHHhcC-----CCC--ceEEEECCCCCCHHHHHHHHHHH
Confidence 3455777 6777778887765421 222 22569999999999999888654
No 67
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=94.79 E-value=0.036 Score=57.99 Aligned_cols=37 Identities=22% Similarity=0.307 Sum_probs=30.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC--CeEEEEecCc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE--GWLVLYVPRG 227 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n--gWIVL~IP~a 227 (404)
+.++|+|++|||||.++.-+...+.++ +.-|+|++..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~ 187 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE 187 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence 348999999999999998888888777 6778898653
No 68
>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria. Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.
Probab=94.76 E-value=0.068 Score=56.06 Aligned_cols=59 Identities=22% Similarity=0.336 Sum_probs=43.6
Q ss_pred hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe-cCcccccc
Q 045329 165 SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV-PRGREWTH 232 (404)
Q Consensus 165 ~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I-P~a~~wvn 232 (404)
..-.|.+.|+.+.+. +... -++.|+-|||||.+|..+...|+++|++|.+| =++....+
T Consensus 33 e~~~l~~~l~~v~~G------~s~~---kfi~G~YGsGKTf~l~~i~~~A~~~~fvvs~v~ls~e~~lh 92 (416)
T PF10923_consen 33 EIEALDRDLDRVADG------GSSF---KFIRGEYGSGKTFFLRLIRERALEKGFVVSEVDLSPERPLH 92 (416)
T ss_pred HHHHHHHHHHHHhCC------CCeE---EEEEeCCCCcHHHHHHHHHHHHHHcCCEEEEEecCCCcccc
Confidence 445666667666432 3343 37789999999999999999999999999998 22244555
No 69
>PRK13695 putative NTPase; Provisional
Probab=94.70 E-value=0.054 Score=48.96 Aligned_cols=30 Identities=30% Similarity=0.521 Sum_probs=24.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLV 221 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIV 221 (404)
+++|+|+.|||||++|.++.......|.-+
T Consensus 2 ~i~ltG~~G~GKTTll~~i~~~l~~~G~~~ 31 (174)
T PRK13695 2 KIGITGPPGVGKTTLVLKIAELLKEEGYKV 31 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCeE
Confidence 489999999999999999888766556543
No 70
>PRK08939 primosomal protein DnaI; Reviewed
Probab=94.70 E-value=0.04 Score=55.31 Aligned_cols=34 Identities=26% Similarity=0.281 Sum_probs=29.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+.++|+|+.|+|||.+++-+.+.+.++|+=|+++
T Consensus 157 ~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~ 190 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLL 190 (306)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 4699999999999999999998888888766655
No 71
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=94.69 E-value=0.056 Score=44.23 Aligned_cols=26 Identities=15% Similarity=0.304 Sum_probs=22.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE 217 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n 217 (404)
.++|.|+.|+|||+++..++.+....
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~ 27 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDS 27 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhc
Confidence 37999999999999999999888754
No 72
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=94.68 E-value=0.048 Score=50.86 Aligned_cols=33 Identities=24% Similarity=0.229 Sum_probs=28.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-++|+|++|||||++..|+...+..+|-=|+||
T Consensus 21 i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi 53 (218)
T cd01394 21 VTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYI 53 (218)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence 388999999999999999998887777777777
No 73
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=94.62 E-value=0.042 Score=49.81 Aligned_cols=24 Identities=21% Similarity=0.224 Sum_probs=20.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
-.+|.|++|+|||+++.|++....
T Consensus 34 l~~i~g~~g~GKT~~~~~l~~~~~ 57 (193)
T PF13481_consen 34 LTLIAGPPGSGKTTLALQLAAALA 57 (193)
T ss_dssp EEEEEECSTSSHHHHHHHHHHHHH
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHH
Confidence 389999999999999999877443
No 74
>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]
Probab=94.59 E-value=0.086 Score=54.16 Aligned_cols=52 Identities=15% Similarity=0.330 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHHhC--CeEEEEe
Q 045329 165 SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWAREE--GWLVLYV 224 (404)
Q Consensus 165 ~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~~n--gWIVL~I 224 (404)
+-.+|-..+++.+-. ++. +.++|.||||||||+++.+++.-+.++ +.++++.
T Consensus 32 ~~~~l~~~lkqt~~~------gEs--nsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~L 85 (408)
T KOG2228|consen 32 EQKHLSELLKQTILH------GES--NSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRL 85 (408)
T ss_pred HHHHHHHHHHHHHHh------cCC--CceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEE
Confidence 344555555554322 233 248999999999999999999885544 5555554
No 75
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=94.54 E-value=0.05 Score=50.79 Aligned_cols=32 Identities=31% Similarity=0.359 Sum_probs=26.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.+|.|++|||||++|..+......+|+-|+.+
T Consensus 21 ~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~ 52 (196)
T PF13604_consen 21 SVLQGPAGTGKTTLLKALAEALEAAGKRVIGL 52 (196)
T ss_dssp EEEEESTTSTHHHHHHHHHHHHHHTT--EEEE
T ss_pred EEEEECCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 78899999999999999988888877666655
No 76
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=94.51 E-value=0.063 Score=48.21 Aligned_cols=36 Identities=22% Similarity=0.354 Sum_probs=30.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGR 228 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~ 228 (404)
++|.|..||||||++..+..+-...|+-|+.+..+.
T Consensus 3 I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~~~~ 38 (200)
T cd01672 3 IVFEGIDGAGKTTLIELLAERLEARGYEVVLTREPG 38 (200)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCC
Confidence 789999999999999999888778888887776554
No 77
>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=94.48 E-value=0.052 Score=51.41 Aligned_cols=33 Identities=27% Similarity=0.342 Sum_probs=26.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHH--HhCCeEEEE
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWA--REEGWLVLY 223 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A--~~ngWIVL~ 223 (404)
++++|+|+.|+|||++|.++..-+ .+.||.|..
T Consensus 30 ~~~~itGpNg~GKStlLk~i~~~~~la~~G~~v~a 64 (213)
T cd03281 30 SIMVITGPNSSGKSVYLKQVALIVFLAHIGSFVPA 64 (213)
T ss_pred eEEEEECCCCCChHHHHHHHHHHHHHHhCCCeeEc
Confidence 469999999999999999987433 467897753
No 78
>PRK04328 hypothetical protein; Provisional
Probab=94.47 E-value=0.05 Score=52.63 Aligned_cols=34 Identities=26% Similarity=0.257 Sum_probs=30.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-++|.|++|||||++..|.+..+..+|.-++||.
T Consensus 25 ~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis 58 (249)
T PRK04328 25 VVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA 58 (249)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence 3889999999999999999988888899888884
No 79
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=94.45 E-value=0.045 Score=57.74 Aligned_cols=36 Identities=39% Similarity=0.481 Sum_probs=31.5
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
+.++|+|++|+|||.++..+.+...++|.-|+|++.
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeH
Confidence 358999999999999988888888888999999975
No 80
>PF13479 AAA_24: AAA domain
Probab=94.44 E-value=0.07 Score=50.32 Aligned_cols=33 Identities=27% Similarity=0.341 Sum_probs=28.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREW 230 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~w 230 (404)
+++|+|++|+|||+++..+ .+.++|.+-.....
T Consensus 5 ~~lIyG~~G~GKTt~a~~~------~k~l~id~E~g~~~ 37 (213)
T PF13479_consen 5 KILIYGPPGSGKTTLAASL------PKPLFIDTENGSDS 37 (213)
T ss_pred EEEEECCCCCCHHHHHHhC------CCeEEEEeCCCccc
Confidence 5999999999999999888 88999988666443
No 81
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=94.33 E-value=0.053 Score=55.94 Aligned_cols=33 Identities=33% Similarity=0.404 Sum_probs=29.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
++|.|++|+|||+++.|+.+....+|.=|+||.
T Consensus 85 vLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs 117 (372)
T cd01121 85 ILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS 117 (372)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 799999999999999999988777777888884
No 82
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=94.29 E-value=0.06 Score=51.44 Aligned_cols=34 Identities=26% Similarity=0.266 Sum_probs=29.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-++|.|++|||||++..|++..+..+|==++||.
T Consensus 23 ~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs 56 (237)
T TIGR03877 23 VVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA 56 (237)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence 4899999999999999999988778887777774
No 83
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.22 E-value=0.059 Score=57.52 Aligned_cols=43 Identities=21% Similarity=0.265 Sum_probs=37.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccccccC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTHGG 234 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvng~ 234 (404)
=++++||.|||||++|-.++.+.....--|+.|-++-++...+
T Consensus 260 liLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~~~g 302 (500)
T COG2804 260 LILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQLPG 302 (500)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeeecCC
Confidence 3899999999999999999999998777799999998876544
No 84
>PRK05973 replicative DNA helicase; Provisional
Probab=94.18 E-value=0.065 Score=52.14 Aligned_cols=34 Identities=18% Similarity=0.140 Sum_probs=30.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-++|.|++|+|||++..|++..+..+|-=|+|+.
T Consensus 66 l~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS 99 (237)
T PRK05973 66 LVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT 99 (237)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 3899999999999999999998888888787773
No 85
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=94.16 E-value=0.061 Score=54.59 Aligned_cols=33 Identities=21% Similarity=0.282 Sum_probs=29.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-+.|+|++|||||++..|++..+..+|=-|+||
T Consensus 57 iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yI 89 (321)
T TIGR02012 57 IIEIYGPESSGKTTLALHAIAEAQKAGGTAAFI 89 (321)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 378999999999999999999888887777788
No 86
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=94.16 E-value=0.1 Score=51.10 Aligned_cols=40 Identities=23% Similarity=0.238 Sum_probs=32.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCccccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWT 231 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wv 231 (404)
-+++.|+.|||||++|..++.+-...+.-|+.|-++.++.
T Consensus 82 lilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~ 121 (264)
T cd01129 82 IILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQ 121 (264)
T ss_pred EEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceec
Confidence 3899999999999999988877655677788887776654
No 87
>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=94.15 E-value=0.065 Score=50.96 Aligned_cols=35 Identities=29% Similarity=0.414 Sum_probs=26.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHh--CCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWARE--EGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~--ngWIVL~IP~ 226 (404)
-++|+|+.|+|||-+|..+.+.+.+ .+--|+|++.
T Consensus 36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~ 72 (219)
T PF00308_consen 36 PLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA 72 (219)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH
T ss_pred ceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH
Confidence 4899999999999987777776664 3667778764
No 88
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=94.12 E-value=0.068 Score=50.19 Aligned_cols=33 Identities=33% Similarity=0.419 Sum_probs=28.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
++|.|+.|+|||++++-+.+|...+|+=|.-|.
T Consensus 4 i~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis 36 (196)
T PF00448_consen 4 IALVGPTGVGKTTTIAKLAARLKLKGKKVALIS 36 (196)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred EEEECCCCCchHhHHHHHHHHHhhccccceeec
Confidence 789999999999999999999998899888874
No 89
>PLN03025 replication factor C subunit; Provisional
Probab=94.12 E-value=0.078 Score=52.92 Aligned_cols=29 Identities=24% Similarity=0.445 Sum_probs=22.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGW 219 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngW 219 (404)
+.++|+|++|||||+++..+.......+|
T Consensus 35 ~~lll~Gp~G~GKTtla~~la~~l~~~~~ 63 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILALAHELLGPNY 63 (319)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHhcccC
Confidence 35899999999999998877776654443
No 90
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=94.10 E-value=0.053 Score=44.96 Aligned_cols=23 Identities=26% Similarity=0.231 Sum_probs=20.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A 214 (404)
|+++.|++|||||+++.+++.--
T Consensus 1 kI~V~G~~g~GKTsLi~~l~~~~ 23 (119)
T PF08477_consen 1 KIVVLGDSGVGKTSLIRRLCGGE 23 (119)
T ss_dssp EEEEECSTTSSHHHHHHHHHHSS
T ss_pred CEEEECcCCCCHHHHHHHHhcCC
Confidence 58999999999999999888644
No 91
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=94.10 E-value=0.065 Score=45.98 Aligned_cols=32 Identities=34% Similarity=0.358 Sum_probs=24.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
++|.|++|||||++..++ +...++.++.....
T Consensus 2 ii~~G~pgsGKSt~a~~l---~~~~~~~~i~~D~~ 33 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRL---AKRLGAVVISQDEI 33 (143)
T ss_dssp EEEEESTTSSHHHHHHHH---HHHSTEEEEEHHHH
T ss_pred EEEECCCCCCHHHHHHHH---HHHCCCEEEeHHHH
Confidence 689999999999996554 55566777766553
No 92
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=94.08 E-value=0.077 Score=50.25 Aligned_cols=35 Identities=26% Similarity=0.290 Sum_probs=30.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
-++|.|++|||||++.+|+++-+..+|-=|+|+.-
T Consensus 27 ~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~ 61 (234)
T PRK06067 27 LILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITT 61 (234)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEc
Confidence 38999999999999999998877778888888854
No 93
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=94.08 E-value=0.045 Score=49.00 Aligned_cols=22 Identities=36% Similarity=0.448 Sum_probs=19.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
.||+|+.|+|||++| .++.||.
T Consensus 22 ~vi~G~Ng~GKStil-~ai~~~L 43 (202)
T PF13476_consen 22 NVIYGPNGSGKSTIL-EAIRYAL 43 (202)
T ss_dssp EEEEESTTSSHHHHH-HHHHHHH
T ss_pred EEEECCCCCCHHHHH-HHHHHHH
Confidence 699999999999999 7778877
No 94
>PF12846 AAA_10: AAA-like domain
Probab=94.08 E-value=0.075 Score=50.64 Aligned_cols=39 Identities=18% Similarity=0.195 Sum_probs=31.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREW 230 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~w 230 (404)
..++.|..|||||+++..++..+...|.-|+.|.--.+|
T Consensus 3 h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~~ 41 (304)
T PF12846_consen 3 HTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGDY 41 (304)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCchH
Confidence 479999999999999999999888888877777433343
No 95
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=94.06 E-value=0.058 Score=50.67 Aligned_cols=34 Identities=26% Similarity=0.396 Sum_probs=27.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE-GWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~IP 225 (404)
-++|.|++|||||++..|.+..+.++ |==|+||.
T Consensus 21 ~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs 55 (226)
T PF06745_consen 21 VVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVS 55 (226)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEE
T ss_pred EEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEE
Confidence 38999999999999999999887777 77777773
No 96
>PRK11823 DNA repair protein RadA; Provisional
Probab=94.04 E-value=0.067 Score=56.38 Aligned_cols=34 Identities=29% Similarity=0.353 Sum_probs=29.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-++|.|++|+|||+++.|+.+.+.++|-=|+||.
T Consensus 82 ~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs 115 (446)
T PRK11823 82 VVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS 115 (446)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 3799999999999999999887767787888875
No 97
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=94.03 E-value=0.078 Score=52.22 Aligned_cols=28 Identities=21% Similarity=0.501 Sum_probs=23.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGW 219 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngW 219 (404)
.++|+|++|||||+++..+.......+|
T Consensus 38 ~lll~Gp~GtGKT~la~~~~~~l~~~~~ 65 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRALARELYGDPW 65 (337)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhcCccc
Confidence 4899999999999999888777665554
No 98
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=94.01 E-value=0.094 Score=48.88 Aligned_cols=39 Identities=26% Similarity=0.481 Sum_probs=27.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEecCccccc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREE-GWLVLYVPRGREWT 231 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~IP~a~~wv 231 (404)
++|.|+.||||||+|..++.+-..+ +.-|+.+-++.++.
T Consensus 4 ilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~ 43 (198)
T cd01131 4 VLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFV 43 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCcccc
Confidence 7999999999999998877776543 33444454444443
No 99
>PRK13764 ATPase; Provisional
Probab=94.01 E-value=0.079 Score=58.00 Aligned_cols=42 Identities=21% Similarity=0.272 Sum_probs=36.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccccc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTH 232 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvn 232 (404)
..++++|++||||||+|..++.+.-.++-+|+.|=++.++..
T Consensus 258 ~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~ 299 (602)
T PRK13764 258 EGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQV 299 (602)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccC
Confidence 359999999999999999988888888999989988888754
No 100
>PRK14974 cell division protein FtsY; Provisional
Probab=93.98 E-value=0.073 Score=54.30 Aligned_cols=33 Identities=30% Similarity=0.441 Sum_probs=29.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.+++.|++|+||||+++.+.++...+|+-|+.+
T Consensus 142 vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li 174 (336)
T PRK14974 142 VIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIA 174 (336)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEe
Confidence 589999999999999999999999888866554
No 101
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=93.97 E-value=0.099 Score=50.51 Aligned_cols=40 Identities=23% Similarity=0.291 Sum_probs=31.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREW 230 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~w 230 (404)
..+++.|+.|||||++|..++.+.-..++-|+.|=+..++
T Consensus 128 ~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~ 167 (270)
T PF00437_consen 128 GNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPEL 167 (270)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S
T ss_pred eEEEEECCCccccchHHHHHhhhccccccceEEeccccce
Confidence 4599999999999999999988776665777777665554
No 102
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=93.93 E-value=0.081 Score=47.13 Aligned_cols=32 Identities=28% Similarity=0.184 Sum_probs=27.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
++|.|.+|||||++...+..+-...||-++++
T Consensus 2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 68999999999999999999887888766665
No 103
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=93.87 E-value=0.092 Score=52.18 Aligned_cols=34 Identities=26% Similarity=0.280 Sum_probs=29.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
..+.|.|++|||||+++..+..+....|+-|..|
T Consensus 35 ~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i 68 (300)
T TIGR00750 35 HRVGITGTPGAGKSTLLEALGMELRRRGLKVAVI 68 (300)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 4589999999999999999999988888766554
No 104
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=93.85 E-value=0.094 Score=51.74 Aligned_cols=34 Identities=29% Similarity=0.351 Sum_probs=29.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.-+++.|+.|+|||++++.+..+..++|+=|+-|
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li 106 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLA 106 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEE
Confidence 3488899999999999999999888888877666
No 105
>PHA03133 thymidine kinase; Provisional
Probab=93.82 E-value=0.061 Score=55.39 Aligned_cols=38 Identities=32% Similarity=0.460 Sum_probs=30.5
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHH-hCCeEEEEecCcccc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAR-EEGWLVLYVPRGREW 230 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL~IP~a~~w 230 (404)
-|++|+|+-|+||||++.++..-.- ..+ |+|||++-.+
T Consensus 41 ~rvYlDG~~GvGKTTt~~~l~~a~~~~~~--vl~~pEPM~Y 79 (368)
T PHA03133 41 LRIYVDGPHGLGKTTTAAALAAALGRRDD--IEYVPEPMAY 79 (368)
T ss_pred EEEEEeCCCcCCHHHHHHHHHHhhCCCCC--eEEecCcHHH
Confidence 4799999999999999988777543 234 9999998654
No 106
>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=93.77 E-value=0.081 Score=51.91 Aligned_cols=33 Identities=33% Similarity=0.432 Sum_probs=29.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC---CeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE---GWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n---gWIVL~I 224 (404)
-+-|+|+.|||||+.|.++..+-..+ +++++++
T Consensus 22 ~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~f 57 (325)
T PF07693_consen 22 VIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYF 57 (325)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEE
Confidence 38999999999999999999988777 7888887
No 107
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=93.75 E-value=0.11 Score=46.60 Aligned_cols=32 Identities=28% Similarity=0.286 Sum_probs=26.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+.+.|+.|||||+++.++..+..++|+=|+.+
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii 33 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGKRVAVL 33 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEE
Confidence 67889999999999999999888877655443
No 108
>CHL00181 cbbX CbbX; Provisional
Probab=93.72 E-value=0.082 Score=52.49 Aligned_cols=29 Identities=14% Similarity=0.280 Sum_probs=25.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWL 220 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWI 220 (404)
.++|+|++|||||++...+...+...|.+
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~g~~ 89 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKLGYI 89 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCC
Confidence 48999999999999999998888776654
No 109
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=93.71 E-value=0.088 Score=48.99 Aligned_cols=31 Identities=26% Similarity=0.400 Sum_probs=27.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEE
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLV 221 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIV 221 (404)
.++.++|++|+|||+++.-+....+++|+=|
T Consensus 6 mki~ITG~PGvGKtTl~~ki~e~L~~~g~kv 36 (179)
T COG1618 6 MKIFITGRPGVGKTTLVLKIAEKLREKGYKV 36 (179)
T ss_pred eEEEEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence 5799999999999999999999999886555
No 110
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=93.69 E-value=0.14 Score=39.93 Aligned_cols=33 Identities=30% Similarity=0.278 Sum_probs=28.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
+++.|..|+|||++..++..+..+.|-=|+.+.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 578899999999999999998888887777766
No 111
>PRK06851 hypothetical protein; Provisional
Probab=93.69 E-value=0.1 Score=53.89 Aligned_cols=34 Identities=24% Similarity=0.304 Sum_probs=29.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+-|+|+|.+|+|||+++.++.....+.||-|-++
T Consensus 31 ~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~ 64 (367)
T PRK06851 31 RIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFL 64 (367)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 4599999999999999999999888889886655
No 112
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=93.68 E-value=0.084 Score=55.51 Aligned_cols=35 Identities=17% Similarity=0.343 Sum_probs=28.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC--CeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE--GWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n--gWIVL~IP~ 226 (404)
.++|+|++|||||.++..+.+.+.++ +.-|+|++.
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 48999999999999887777766654 567888864
No 113
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=93.65 E-value=0.11 Score=50.55 Aligned_cols=28 Identities=25% Similarity=0.473 Sum_probs=23.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGW 219 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngW 219 (404)
.++|+|++|||||+++..+.......+|
T Consensus 40 ~~ll~G~~G~GKt~~~~~l~~~l~~~~~ 67 (319)
T PRK00440 40 HLLFAGPPGTGKTTAALALARELYGEDW 67 (319)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHcCCcc
Confidence 4899999999999999888777665555
No 114
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=93.65 E-value=0.28 Score=47.93 Aligned_cols=23 Identities=17% Similarity=0.060 Sum_probs=20.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
+=|+|++|||||-++.|+...+.
T Consensus 41 tEi~G~~gsGKTql~l~l~~~~~ 63 (256)
T PF08423_consen 41 TEIVGESGSGKTQLCLQLAVNVQ 63 (256)
T ss_dssp EEEEESTTSSHHHHHHHHHHHTT
T ss_pred EEEEEecccccchHHHHHHHHhh
Confidence 56899999999999999987764
No 115
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=93.64 E-value=0.08 Score=56.00 Aligned_cols=33 Identities=30% Similarity=0.347 Sum_probs=28.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
++|.|++|+|||+++.|+...+..+|-=|+||.
T Consensus 97 ilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs 129 (454)
T TIGR00416 97 ILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS 129 (454)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence 899999999999999999887777766677774
No 116
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=93.62 E-value=0.28 Score=55.29 Aligned_cols=35 Identities=23% Similarity=0.298 Sum_probs=28.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
-+.|+|+.|||||++++|++.-|...|=-|+||--
T Consensus 62 iteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~ 96 (790)
T PRK09519 62 VIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDA 96 (790)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECC
Confidence 37899999999999999998888777666666643
No 117
>PRK01184 hypothetical protein; Provisional
Probab=93.58 E-value=0.08 Score=48.04 Aligned_cols=31 Identities=29% Similarity=0.173 Sum_probs=24.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
.++|+|++||||||+ +. +|.+.|+-++...+
T Consensus 3 ~i~l~G~~GsGKsT~-a~---~~~~~g~~~i~~~d 33 (184)
T PRK01184 3 IIGVVGMPGSGKGEF-SK---IAREMGIPVVVMGD 33 (184)
T ss_pred EEEEECCCCCCHHHH-HH---HHHHcCCcEEEhhH
Confidence 489999999999995 44 47778988877743
No 118
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=93.55 E-value=0.093 Score=55.71 Aligned_cols=34 Identities=15% Similarity=0.174 Sum_probs=30.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-++|.|++|+|||+++.|.++.+.++|==|+||.
T Consensus 265 ~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s 298 (484)
T TIGR02655 265 IILATGATGTGKTLLVSKFLENACANKERAILFA 298 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence 3899999999999999999999988887778773
No 119
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=93.54 E-value=0.054 Score=42.30 Aligned_cols=16 Identities=38% Similarity=0.565 Sum_probs=14.9
Q ss_pred EEEECCCCCcHHHHHH
Q 045329 193 IVLDGPLCCGKSITLA 208 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~ 208 (404)
.+|+|+.|+|||++|-
T Consensus 26 tli~G~nGsGKSTllD 41 (62)
T PF13555_consen 26 TLITGPNGSGKSTLLD 41 (62)
T ss_pred EEEECCCCCCHHHHHH
Confidence 8999999999999984
No 120
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=93.51 E-value=0.1 Score=53.35 Aligned_cols=97 Identities=14% Similarity=0.118 Sum_probs=52.9
Q ss_pred cccCCCccccCccccceeEEeCHHHHHhhccC---CCCcchhhhccccCceeEEEchhHHHHHHHHHHhcCCCccCCCCC
Q 045329 111 FTKTTSLSLLTRKDACTYFKFSEDELNAMLPE---GLPTGMLGEFKDSMRYALLVRQSFLDIRDNFRRIVDPSLQSTNGP 187 (404)
Q Consensus 111 ~~~~~~~~~ht~~~vGk~y~~p~e~~k~l~~~---GLp~~~~kqfe~f~~p~~LVRk~tleLi~~L~~~~d~~~~std~~ 187 (404)
|.+..+....+..++.++..++++...++... -++..+..-.+.+.+.....|=+|= +..|.+.+... -
T Consensus 52 ~~tv~~~~~~~~~~L~~~~g~s~~~~~ki~~~a~~~~~~~~~ta~~~~~~~~~~~~isTG--~~~LD~lLgGG------i 123 (344)
T PLN03187 52 IYTCNGLMMHTKKNLTGIKGLSEAKVDKICEAAEKLLNQGFITGSDALLKRKSVVRITTG--SQALDELLGGG------I 123 (344)
T ss_pred CCcHHHHHhCCHHHHHHhcCCCHHHHHHHHHHHHHhhcccCCcHHHHHhhhccCceecCC--cHhHHhhcCCC------C
Confidence 56666778888888888888888887775432 1222221111222111111111100 11233333321 1
Q ss_pred ccceeEEEECCCCCcHHHHHHHHHHHHH
Q 045329 188 KIRKQIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 188 ~~r~r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
....=+.|+|++|||||.+..|+...+.
T Consensus 124 ~~G~ItEI~G~~GsGKTql~lqlav~~q 151 (344)
T PLN03187 124 ETRCITEAFGEFRSGKTQLAHTLCVTTQ 151 (344)
T ss_pred CCCeEEEEecCCCCChhHHHHHHHHHHh
Confidence 1112367999999999999999877664
No 121
>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=93.51 E-value=0.057 Score=50.91 Aligned_cols=23 Identities=35% Similarity=0.642 Sum_probs=19.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~ 213 (404)
-++.|+||.|||||++|-++...
T Consensus 30 e~iaitGPSG~GKStllk~va~L 52 (223)
T COG4619 30 EFIAITGPSGCGKSTLLKIVASL 52 (223)
T ss_pred ceEEEeCCCCccHHHHHHHHHhc
Confidence 35899999999999999887654
No 122
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=93.47 E-value=0.095 Score=53.31 Aligned_cols=34 Identities=24% Similarity=0.272 Sum_probs=29.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-+.|+|++|||||++..|++..+..+|=.++||-
T Consensus 57 iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId 90 (325)
T cd00983 57 IIEIYGPESSGKTTLALHAIAEAQKLGGTVAFID 90 (325)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEC
Confidence 3779999999999999999988877776677774
No 123
>PRK14738 gmk guanylate kinase; Provisional
Probab=93.41 E-value=0.084 Score=49.52 Aligned_cols=28 Identities=29% Similarity=0.395 Sum_probs=21.6
Q ss_pred CCccceeEEEECCCCCcHHHHHHHHHHH
Q 045329 186 GPKIRKQIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 186 ~~~~r~r~vL~G~rGsGKS~~L~qav~~ 213 (404)
.+...+.+||.|+.|||||+++.++...
T Consensus 9 ~~~~~~~ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 9 KPAKPLLVVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred CCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence 3444456899999999999998887543
No 124
>PRK09354 recA recombinase A; Provisional
Probab=93.38 E-value=0.1 Score=53.59 Aligned_cols=35 Identities=17% Similarity=0.246 Sum_probs=30.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
-+.|+|+.|||||++.+|++.-|..+|=.++||--
T Consensus 62 IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~ 96 (349)
T PRK09354 62 IVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDA 96 (349)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECC
Confidence 36799999999999999999988888877788844
No 125
>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=93.38 E-value=0.11 Score=51.51 Aligned_cols=29 Identities=14% Similarity=0.278 Sum_probs=24.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWL 220 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWI 220 (404)
.++|+|++|||||++...+..++...|++
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~ 88 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLGYV 88 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcCCc
Confidence 59999999999999988877777776654
No 126
>PRK00889 adenylylsulfate kinase; Provisional
Probab=93.37 E-value=0.13 Score=46.34 Aligned_cols=33 Identities=24% Similarity=0.291 Sum_probs=28.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-++|.|.+|||||++..++.......|+=|++|
T Consensus 6 ~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i 38 (175)
T PRK00889 6 TVWFTGLSGAGKTTIARALAEKLREAGYPVEVL 38 (175)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 389999999999999999998887777655555
No 127
>PRK06696 uridine kinase; Validated
Probab=93.33 E-value=0.26 Score=46.60 Aligned_cols=35 Identities=20% Similarity=0.285 Sum_probs=27.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
..+.|+|..||||||+..++...-...|.-|++++
T Consensus 23 ~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~ 57 (223)
T PRK06696 23 LRVAIDGITASGKTTFADELAEEIKKRGRPVIRAS 57 (223)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence 45899999999999999888776656676666554
No 128
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=93.32 E-value=0.056 Score=45.05 Aligned_cols=22 Identities=23% Similarity=0.184 Sum_probs=19.3
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A 214 (404)
++|.|.+|||||+++..+...-
T Consensus 1 I~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHHH
Confidence 5899999999999998887764
No 129
>PRK07261 topology modulation protein; Provisional
Probab=93.30 E-value=0.09 Score=47.94 Aligned_cols=30 Identities=27% Similarity=0.191 Sum_probs=23.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
|++|.|.+||||||+..++.. .-|.-++++
T Consensus 2 ri~i~G~~GsGKSTla~~l~~---~~~~~~i~~ 31 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQ---HYNCPVLHL 31 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHH---HhCCCeEec
Confidence 699999999999999988643 335555554
No 130
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=93.29 E-value=0.18 Score=50.41 Aligned_cols=39 Identities=21% Similarity=0.178 Sum_probs=31.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC--CeEEEEecCcccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE--GWLVLYVPRGREW 230 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n--gWIVL~IP~a~~w 230 (404)
.+++.|+.|||||++|..++.+...+ ++-|+.|=+..++
T Consensus 134 ~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El 174 (299)
T TIGR02782 134 NILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTREL 174 (299)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhh
Confidence 48999999999999999988876654 6777787776664
No 131
>PHA03135 thymidine kinase; Provisional
Probab=93.24 E-value=0.099 Score=53.52 Aligned_cols=39 Identities=28% Similarity=0.397 Sum_probs=29.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREW 230 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~w 230 (404)
-|+.|+|.-|+|||+++.++..... +|=-|+|||++-.+
T Consensus 11 ~rIYlDG~~GvGKTT~~~~l~~~~~-~~~~vl~vpEPM~Y 49 (343)
T PHA03135 11 IRVYLDGPFGIGKTSMLNEMPDHSP-DGVPVLKVFEPMKY 49 (343)
T ss_pred EEEEEECCCCCCHHHHHHHHHHhcC-CCCceEEecCcHHH
Confidence 5799999999999999966666443 33338999987653
No 132
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=93.20 E-value=0.081 Score=44.13 Aligned_cols=21 Identities=38% Similarity=0.431 Sum_probs=18.8
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|.+|+|||+++.++..
T Consensus 3 ki~~~G~~~~GKstl~~~l~~ 23 (161)
T TIGR00231 3 KIVIVGDPNVGKSTLLNRLLG 23 (161)
T ss_pred EEEEECCCCCCHHHHHHHHhC
Confidence 699999999999999988764
No 133
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=93.16 E-value=0.27 Score=49.98 Aligned_cols=39 Identities=15% Similarity=0.111 Sum_probs=29.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH--hCCeEEEEecCcccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR--EEGWLVLYVPRGREW 230 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~--~ngWIVL~IP~a~~w 230 (404)
.+++.|+.|||||++|..++.+.. -.++-|+-|=+..++
T Consensus 146 nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El 186 (323)
T PRK13833 146 NIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEI 186 (323)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCccc
Confidence 489999999999999988887653 235666777666654
No 134
>PRK07667 uridine kinase; Provisional
Probab=93.14 E-value=0.31 Score=45.15 Aligned_cols=37 Identities=19% Similarity=0.181 Sum_probs=29.1
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC--CeEEEEecCc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE--GWLVLYVPRG 227 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n--gWIVL~IP~a 227 (404)
..+-|+|..|||||++...+...-... ++.+++.++-
T Consensus 18 ~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd~ 56 (193)
T PRK07667 18 FILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDY 56 (193)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCcc
Confidence 458899999999999987777765554 4788888763
No 135
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=93.10 E-value=0.12 Score=43.43 Aligned_cols=23 Identities=30% Similarity=0.188 Sum_probs=19.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
+.|+|++|+|||++...+.....
T Consensus 1 I~i~G~~G~GKS~l~~~l~~~l~ 23 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAKDLL 23 (107)
T ss_pred CEEECCCCCCHHHHHHHHHHHHH
Confidence 47999999999999998776554
No 136
>PRK09087 hypothetical protein; Validated
Probab=93.09 E-value=0.11 Score=49.83 Aligned_cols=31 Identities=26% Similarity=0.482 Sum_probs=22.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
+.++|+|+.|||||.+|. .||...+.. ||+.
T Consensus 45 ~~l~l~G~~GsGKThLl~---~~~~~~~~~--~i~~ 75 (226)
T PRK09087 45 PVVVLAGPVGSGKTHLAS---IWREKSDAL--LIHP 75 (226)
T ss_pred CeEEEECCCCCCHHHHHH---HHHHhcCCE--EecH
Confidence 348999999999999987 455444544 6655
No 137
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=93.07 E-value=0.12 Score=45.06 Aligned_cols=28 Identities=29% Similarity=0.166 Sum_probs=22.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
++|+|.+|||||++..++... .||.++.
T Consensus 2 i~l~G~~GsGKST~a~~l~~~---~~~~~i~ 29 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAER---LGAPFID 29 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHhh---cCCEEEe
Confidence 689999999999998886543 5777664
No 138
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=93.07 E-value=0.13 Score=50.00 Aligned_cols=31 Identities=23% Similarity=0.327 Sum_probs=21.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEE
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVL 222 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL 222 (404)
..++|+||+|+|| |+|+++++.-...+..++
T Consensus 51 ~h~lf~GPPG~GK-TTLA~IIA~e~~~~~~~~ 81 (233)
T PF05496_consen 51 DHMLFYGPPGLGK-TTLARIIANELGVNFKIT 81 (233)
T ss_dssp -EEEEESSTTSSH-HHHHHHHHHHCT--EEEE
T ss_pred ceEEEECCCccch-hHHHHHHHhccCCCeEec
Confidence 4589999999999 567888887766555433
No 139
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=93.07 E-value=0.16 Score=45.96 Aligned_cols=33 Identities=24% Similarity=0.402 Sum_probs=29.2
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
+.+.|..|||||+++..++.....+||=|-.|=
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK 34 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGYRVATIK 34 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence 578899999999999999999988898777663
No 140
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=93.02 E-value=0.097 Score=46.47 Aligned_cols=28 Identities=32% Similarity=0.305 Sum_probs=20.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
++|.|++|||||++...+.... |+.++.
T Consensus 1 i~l~G~~GsGKSTla~~l~~~l---~~~~v~ 28 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHRL---GAKFIE 28 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHhc---CCeEEe
Confidence 4789999999998877665443 566654
No 141
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=93.01 E-value=0.11 Score=47.62 Aligned_cols=36 Identities=25% Similarity=0.292 Sum_probs=27.5
Q ss_pred eEEEECCCCCcHHHHHHHHHH-HHHhCCeEEEEecCc
Q 045329 192 QIVLDGPLCCGKSITLAMLVH-WAREEGWLVLYVPRG 227 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~-~A~~ngWIVL~IP~a 227 (404)
-++++|--|||||++|.|++. ......|.||--.-+
T Consensus 2 v~ii~GfLGsGKTTli~~ll~~~~~~~~~~vI~ne~g 38 (178)
T PF02492_consen 2 VIIITGFLGSGKTTLINHLLKRNRQGERVAVIVNEFG 38 (178)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTTTS-EEEEECSTT
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhcCCceeEEEEcccc
Confidence 379999999999999999995 445567777754444
No 142
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=92.93 E-value=0.13 Score=45.31 Aligned_cols=22 Identities=27% Similarity=0.321 Sum_probs=19.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.+++|.|+.|||||+++.++..
T Consensus 15 ~~v~i~G~~g~GKStLl~~l~~ 36 (173)
T cd04155 15 PRILILGLDNAGKTTILKQLAS 36 (173)
T ss_pred cEEEEEccCCCCHHHHHHHHhc
Confidence 5699999999999999998864
No 143
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=92.93 E-value=0.13 Score=56.49 Aligned_cols=36 Identities=31% Similarity=0.398 Sum_probs=31.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHh--CCeEEEEecCc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWARE--EGWLVLYVPRG 227 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~--ngWIVL~IP~a 227 (404)
-++|+|+.|||||.+|.-+.+++.+ .|.-|+|++..
T Consensus 316 pL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitae 353 (617)
T PRK14086 316 PLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSE 353 (617)
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH
Confidence 4899999999999999998888875 48999999874
No 144
>PHA03138 thymidine kinase; Provisional
Probab=92.93 E-value=0.12 Score=52.85 Aligned_cols=38 Identities=18% Similarity=0.249 Sum_probs=27.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGR 228 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~ 228 (404)
.|+.|+|.-|+|||+++.+.+++....+=-|++||++-
T Consensus 13 ~riYleG~~GvGKTT~~~~~l~~~~~~~~~vl~vpEPm 50 (340)
T PHA03138 13 LRIYLDGAFGIGKTTAAEAFLHGFAINPNRIFFIGEPL 50 (340)
T ss_pred EEEEEECCCCcCHHhHHHHHHHhhhcCCCceEEeeCch
Confidence 67999999999999999877776554432244555543
No 145
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=92.83 E-value=0.13 Score=54.20 Aligned_cols=36 Identities=17% Similarity=0.196 Sum_probs=27.1
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHH--hCCeEEEEecC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAR--EEGWLVLYVPR 226 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~--~ngWIVL~IP~ 226 (404)
+.++|+|+.|+|||.+|.-+.++.. ..|.-|+|++.
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 4589999999999987754444443 34788889876
No 146
>PRK12608 transcription termination factor Rho; Provisional
Probab=92.82 E-value=0.17 Score=52.57 Aligned_cols=37 Identities=16% Similarity=0.263 Sum_probs=27.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCC----eEEEEecCc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEG----WLVLYVPRG 227 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ng----WIVL~IP~a 227 (404)
.|.+|.|++|||||++|.++......+. .++++|.+.
T Consensus 134 QR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER 174 (380)
T PRK12608 134 QRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDER 174 (380)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCC
Confidence 3689999999999999999777554442 466667554
No 147
>KOG2859 consensus DNA repair protein, member of the recA/RAD51 family [Replication, recombination and repair]
Probab=92.81 E-value=0.33 Score=47.39 Aligned_cols=114 Identities=18% Similarity=0.299 Sum_probs=69.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHh------CCeEEEEecCcccccccCeeecCCCCCCccCHHHHHHHHHHHHHHhHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWARE------EGWLVLYVPRGREWTHGGYFYKNPQTGLWDTPLQAENVLKDFIKYNESHL 266 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~------ngWIVL~IP~a~~wvng~~~y~~~~~g~ydQP~~A~~~Lk~fl~~N~~~L 266 (404)
+=++|+-|||||..|-|+++.|.. -+|.|+.|.--. .||--..++.+=.+++++| +
T Consensus 41 vEi~Gp~~sgKt~vL~ql~a~CilPk~~GGl~~~VLfidld~---------------~fd~lrL~~~l~hrL~q~~---~ 102 (293)
T KOG2859|consen 41 VEISGPGNSGKTLVLQQLVAHCILPKKFGGLQWSVLFIDLDH---------------KFDRLRLAKSLRHRLKQYS---V 102 (293)
T ss_pred EEEeCCCCccHHHHHHHHHHHeecccccCCceeEEEEEeccc---------------cccHHHHHHHHHHHHHHhh---h
Confidence 679999999999999999999973 367887774332 3454455555555555555 1
Q ss_pred hcCCcccccCCCCCCCCccccccCCCccccCCCCCHHHHHHhhcccccc-----hHHHHHHHHHHHhc-CCCC-cEEEEE
Q 045329 267 RELPCQILDPIPLGEGAGVGLLKGVDSKEISEGSTLFDLVQMGINQMHA-----SVGVVVRLRKELSL-VKDI-PVLIAI 339 (404)
Q Consensus 267 kkLkls~~~~~~lge~~~~~w~K~~d~~~~p~g~tL~DLv~~Gi~~~~~-----A~~v~~aLl~EL~~-q~~~-PVLvAV 339 (404)
.+... .+.|....+.||+...+.+-.+ +.+++.-|+.-=.. +..+ =.|+++
T Consensus 103 ~e~~~----------------------~~c~te~~~eEi~~~Cm~Rf~~v~C~~s~~ll~sL~~l~y~i~~~p~~cll~~ 160 (293)
T KOG2859|consen 103 GEVIA----------------------AKCPTEEQLEEIAGECMSRFRFVNCFASDDLLTSLIDLRYAIINDPGICLLAM 160 (293)
T ss_pred hhhhh----------------------hcCCcHhHHHHHHHHHHhhEEEEEeeccHHHHHHHHHHHHHHhcCCceeEEee
Confidence 11100 1223345788898887776432 22222222211111 3333 369999
Q ss_pred eCccccc
Q 045329 340 DQYNNWF 346 (404)
Q Consensus 340 D~~Nalf 346 (404)
|.+.+|+
T Consensus 161 DslsaFy 167 (293)
T KOG2859|consen 161 DSLSAFY 167 (293)
T ss_pred cchhhhe
Confidence 9999998
No 148
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=92.80 E-value=0.18 Score=45.84 Aligned_cols=35 Identities=29% Similarity=0.444 Sum_probs=28.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
-++|.|..||||||....+..+-...|+-|+.++.
T Consensus 5 ~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~~ 39 (195)
T TIGR00041 5 FIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTRE 39 (195)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence 38999999999999999988877777866665543
No 149
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=92.73 E-value=0.14 Score=46.35 Aligned_cols=32 Identities=25% Similarity=0.291 Sum_probs=24.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
|++|.|++|||||++..++.. .-|+.++.+.+
T Consensus 1 ~I~i~G~pGsGKst~a~~La~---~~~~~~i~~~~ 32 (194)
T cd01428 1 RILLLGPPGSGKGTQAERLAK---KYGLPHISTGD 32 (194)
T ss_pred CEEEECCCCCCHHHHHHHHHH---HcCCeEEECcH
Confidence 489999999999988766644 34777776543
No 150
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=92.70 E-value=0.14 Score=45.92 Aligned_cols=31 Identities=26% Similarity=0.246 Sum_probs=23.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+.++|.|++|||||+++..+.... |+.++..
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~~~---g~~~~~~ 34 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVEKY---GFTHLST 34 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh---CCcEEeH
Confidence 358999999999999998876542 6655544
No 151
>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=92.70 E-value=0.12 Score=50.09 Aligned_cols=28 Identities=18% Similarity=0.270 Sum_probs=21.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEG 218 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ng 218 (404)
..++|+|++|||||++...+.......|
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~~~ 70 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKEMN 70 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHhcC
Confidence 4589999999999998877766544444
No 152
>PRK14532 adenylate kinase; Provisional
Probab=92.69 E-value=0.15 Score=46.43 Aligned_cols=31 Identities=29% Similarity=0.433 Sum_probs=24.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
+++|.|++|||||++...+ |..-||..+...
T Consensus 2 ~i~~~G~pGsGKsT~a~~l---a~~~g~~~is~~ 32 (188)
T PRK14532 2 NLILFGPPAAGKGTQAKRL---VEERGMVQLSTG 32 (188)
T ss_pred EEEEECCCCCCHHHHHHHH---HHHcCCeEEeCc
Confidence 4899999999999986666 456688777653
No 153
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=92.61 E-value=0.14 Score=47.80 Aligned_cols=33 Identities=12% Similarity=0.078 Sum_probs=24.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.+.|.|+.||||||++.++.......++.+++.
T Consensus 8 vi~I~G~sGsGKSTl~~~l~~~l~~~~~~~i~~ 40 (207)
T TIGR00235 8 IIGIGGGSGSGKTTVARKIYEQLGKLEIVIISQ 40 (207)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcccCCeEecc
Confidence 478999999999999888876543344555543
No 154
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=92.61 E-value=0.11 Score=51.36 Aligned_cols=35 Identities=20% Similarity=0.344 Sum_probs=27.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
-++|.|+.|||||+++.+.+.-=....|++..++-
T Consensus 35 pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~ 69 (272)
T PF12775_consen 35 PVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINF 69 (272)
T ss_dssp EEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES
T ss_pred cEEEECCCCCchhHHHHhhhccCCccccceeEeec
Confidence 48999999999999999987533345677766643
No 155
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=92.55 E-value=0.13 Score=52.07 Aligned_cols=33 Identities=33% Similarity=0.416 Sum_probs=26.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH--HhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA--REEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A--~~ngWIVL~I 224 (404)
-+++.|.+|||||+++.+++... ...+.-++++
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l 37 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYL 37 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEE
Confidence 38999999999999999999987 4555555544
No 156
>PHA03134 thymidine kinase; Provisional
Probab=92.54 E-value=0.14 Score=52.47 Aligned_cols=39 Identities=33% Similarity=0.405 Sum_probs=30.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREW 230 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~w 230 (404)
-|++|+|.-|+||||++.++++.+. .|==|+|||++-.+
T Consensus 14 ~rvYlDG~~GvGKTT~~~~l~~~~~-~~~~vl~~pEPM~Y 52 (340)
T PHA03134 14 VRIYLDGAYGIGKSTTGRVMASAAS-GGGPTLYFPEPMAY 52 (340)
T ss_pred EEEEEeCCCcCCHHHHHHHHHHhcc-CCCceEEecCcHHH
Confidence 4799999999999999976666544 33348999988654
No 157
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=92.54 E-value=0.41 Score=48.32 Aligned_cols=97 Identities=15% Similarity=0.216 Sum_probs=50.2
Q ss_pred cccCCCccccCccccceeEEeCHHHHHhhccCC---CCcchhhhccccCceeEEEchhHHHHHHHHHHhcCCCccCCCCC
Q 045329 111 FTKTTSLSLLTRKDACTYFKFSEDELNAMLPEG---LPTGMLGEFKDSMRYALLVRQSFLDIRDNFRRIVDPSLQSTNGP 187 (404)
Q Consensus 111 ~~~~~~~~~ht~~~vGk~y~~p~e~~k~l~~~G---Lp~~~~kqfe~f~~p~~LVRk~tleLi~~L~~~~d~~~~std~~ 187 (404)
|.+..|....+..++.+...++++...++...- .+..+..-.++..+.....|=+|- +..|.+.+... -+
T Consensus 22 ~~t~~~~~~~~~~~L~~~~gls~~~~~~i~~~~~~~~~~~~~ta~~~~~~~~~~~~isTG--~~~LD~lLgGG-----i~ 94 (313)
T TIGR02238 22 ICTVNGVIMTTRRALCKIKGLSEAKVDKIKEAASKIINPGFITAFEISQKRKKVLKITTG--SQALDGILGGG-----IE 94 (313)
T ss_pred CCcHHHHHhCCHHHHHHhcCCCHHHHHHHHHHHHhhhcccCccHHHHHHhhccCceeCCC--CHHHHHHhCCC-----Cc
Confidence 445556677777888888888888887775431 111111111111111111111110 12233333321 11
Q ss_pred ccceeEEEECCCCCcHHHHHHHHHHHHH
Q 045329 188 KIRKQIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 188 ~~r~r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
. ..=+.|+|++|||||.++.|+...+.
T Consensus 95 ~-G~iteI~G~~GsGKTql~lqla~~~~ 121 (313)
T TIGR02238 95 S-MSITEVFGEFRCGKTQLSHTLCVTAQ 121 (313)
T ss_pred C-CeEEEEECCCCCCcCHHHHHHHHHHh
Confidence 1 12367999999999999999876554
No 158
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=92.51 E-value=0.42 Score=41.96 Aligned_cols=26 Identities=23% Similarity=0.403 Sum_probs=22.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHh
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWARE 216 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ 216 (404)
++++|.++.|||||.+++.++.....
T Consensus 26 ~~~ll~~~tGsGKT~~~~~~~~~l~~ 51 (184)
T PF04851_consen 26 RRVLLNAPTGSGKTIIALALILELAR 51 (184)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHC
T ss_pred CCEEEEECCCCCcChhhhhhhhcccc
Confidence 46999999999999999987776655
No 159
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=92.50 E-value=0.11 Score=50.42 Aligned_cols=34 Identities=29% Similarity=0.393 Sum_probs=31.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
++|+|.+|||||+.-.+++.--++++|-|+++-.
T Consensus 4 iIlTGyPgsGKTtfakeLak~L~~~i~~vi~l~k 37 (261)
T COG4088 4 IILTGYPGSGKTTFAKELAKELRQEIWRVIHLEK 37 (261)
T ss_pred EEEecCCCCCchHHHHHHHHHHHHhhhhccccch
Confidence 7999999999999999999999999999999865
No 160
>PRK06620 hypothetical protein; Validated
Probab=92.49 E-value=0.13 Score=48.82 Aligned_cols=18 Identities=22% Similarity=0.455 Sum_probs=16.0
Q ss_pred eeEEEECCCCCcHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLA 208 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~ 208 (404)
+.++|+|++|||||.+|.
T Consensus 45 ~~l~l~Gp~G~GKThLl~ 62 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTK 62 (214)
T ss_pred ceEEEECCCCCCHHHHHH
Confidence 348999999999999886
No 161
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=92.48 E-value=0.17 Score=53.48 Aligned_cols=34 Identities=32% Similarity=0.380 Sum_probs=30.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
.++++|..|||||++++.+..+..++||=|+.|.
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~ 130 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVA 130 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEec
Confidence 4899999999999999999999999999888774
No 162
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=92.46 E-value=0.16 Score=45.77 Aligned_cols=31 Identities=23% Similarity=0.235 Sum_probs=23.7
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
++|.|++|||||++-.++. ..-|+.+|...+
T Consensus 2 i~i~G~pGsGKst~a~~la---~~~~~~~is~~d 32 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIV---ENFGFTHLSAGD 32 (183)
T ss_pred EEEECCCCCCHHHHHHHHH---HHcCCeEEECCh
Confidence 7899999999999877653 345877776643
No 163
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=92.40 E-value=0.19 Score=50.84 Aligned_cols=34 Identities=29% Similarity=0.316 Sum_probs=29.0
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
..+.|.|++|+||||++..+..+....|+=|+-+
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li 148 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLA 148 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEE
Confidence 3488999999999999999999988888766555
No 164
>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.
Probab=92.39 E-value=0.12 Score=47.25 Aligned_cols=31 Identities=32% Similarity=0.431 Sum_probs=26.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
+++.|..|||||+++..+..+ .|+.++..|.
T Consensus 2 I~ieG~~GsGKSTl~~~L~~~---~~~~~~~Ep~ 32 (193)
T cd01673 2 IVVEGNIGAGKSTLAKELAEH---LGYEVVPEPV 32 (193)
T ss_pred EEEECCCCCCHHHHHHHHHHH---hCCccccccc
Confidence 789999999999999888776 4787776664
No 165
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=92.38 E-value=0.26 Score=45.19 Aligned_cols=52 Identities=10% Similarity=0.229 Sum_probs=34.2
Q ss_pred hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHH-h-CCeEEEEecC
Q 045329 165 SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWAR-E-EGWLVLYVPR 226 (404)
Q Consensus 165 ~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~-~-ngWIVL~IP~ 226 (404)
...++++.+++++.. + ..++|+|++||||+.+...++.+.. . ..+|.++-..
T Consensus 7 ~m~~~~~~~~~~a~~-------~---~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~ 60 (168)
T PF00158_consen 7 AMKRLREQAKRAASS-------D---LPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAA 60 (168)
T ss_dssp HHHHHHHHHHHHTTS-------T---S-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTT
T ss_pred HHHHHHHHHHHHhCC-------C---CCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhh
Confidence 456777777776421 1 2389999999999987655555443 2 3577777654
No 166
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=92.35 E-value=0.21 Score=51.59 Aligned_cols=58 Identities=14% Similarity=0.111 Sum_probs=34.9
Q ss_pred hccccCceeEEEchhHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHH
Q 045329 151 EFKDSMRYALLVRQSFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 151 qfe~f~~p~~LVRk~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A 214 (404)
.+..|..-..=..+.-.+|+++++..... ....++-++|.|++|||||++...+....
T Consensus 45 ~y~~F~~~~~G~~~~i~~lv~~l~~~a~g------~~~~r~il~L~GPPGsGKStla~~La~~l 102 (361)
T smart00763 45 RYRFFDHDFFGMEEAIERFVNYFKSAAQG------LEERKQILYLLGPVGGGKSSLVECLKRGL 102 (361)
T ss_pred eccccchhccCcHHHHHHHHHHHHHHHhc------CCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 34444322333444567788888765321 11222447999999999999877665543
No 167
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=92.35 E-value=0.12 Score=46.63 Aligned_cols=22 Identities=27% Similarity=0.261 Sum_probs=18.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~ 213 (404)
.++|.|+.|||||+++.++...
T Consensus 3 ~~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4899999999999999887554
No 168
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=92.34 E-value=0.12 Score=43.51 Aligned_cols=20 Identities=40% Similarity=0.428 Sum_probs=18.2
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
|+++.|.+|+|||+++.++.
T Consensus 2 ~i~~~G~~~~GKStl~~~l~ 21 (159)
T cd00154 2 KIVLIGDSGVGKTSLLLRFV 21 (159)
T ss_pred eEEEECCCCCCHHHHHHHHH
Confidence 48999999999999999875
No 169
>PRK08118 topology modulation protein; Reviewed
Probab=92.30 E-value=0.11 Score=47.23 Aligned_cols=22 Identities=36% Similarity=0.321 Sum_probs=17.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
+|++|.|++||||||+..++..
T Consensus 2 ~rI~I~G~~GsGKSTlak~L~~ 23 (167)
T PRK08118 2 KKIILIGSGGSGKSTLARQLGE 23 (167)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 3699999999999987665543
No 170
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=92.30 E-value=0.15 Score=39.57 Aligned_cols=22 Identities=27% Similarity=0.258 Sum_probs=19.0
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A 214 (404)
+.|.|.+|||||++...+...-
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6889999999999998877764
No 171
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=92.22 E-value=0.34 Score=47.17 Aligned_cols=32 Identities=19% Similarity=0.288 Sum_probs=23.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.++|.|++|||||++..++. .+....++.++.
T Consensus 23 ~vLL~G~~GtGKT~lA~~la-~~lg~~~~~i~~ 54 (262)
T TIGR02640 23 PVHLRGPAGTGKTTLAMHVA-RKRDRPVMLING 54 (262)
T ss_pred eEEEEcCCCCCHHHHHHHHH-HHhCCCEEEEeC
Confidence 48999999999999876554 455556666654
No 172
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=92.22 E-value=0.19 Score=43.71 Aligned_cols=27 Identities=22% Similarity=0.382 Sum_probs=23.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEG 218 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ng 218 (404)
.+++.|+.|||||+++..++.++..++
T Consensus 26 ~~~i~~~~GsGKT~~~~~~~~~~~~~~ 52 (201)
T smart00487 26 DVILAAPTGSGKTLAALLPALEALKRG 52 (201)
T ss_pred cEEEECCCCCchhHHHHHHHHHHhccc
Confidence 489999999999999998888877653
No 173
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=92.17 E-value=0.17 Score=52.32 Aligned_cols=31 Identities=23% Similarity=0.381 Sum_probs=20.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEE
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVL 222 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL 222 (404)
+.++|+|++|||||++.. +++......|+.+
T Consensus 166 ~gvLL~GppGtGKT~lAk-aia~~~~~~~i~v 196 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAK-AVAHETNATFIRV 196 (389)
T ss_pred CceEEECCCCCChHHHHH-HHHHHhCCCEEEe
Confidence 459999999999998754 4444433344443
No 174
>PRK14531 adenylate kinase; Provisional
Probab=92.16 E-value=0.15 Score=46.74 Aligned_cols=30 Identities=27% Similarity=0.362 Sum_probs=22.0
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
.|+++.|++|||||++-..+.. .-|+..|.
T Consensus 3 ~~i~i~G~pGsGKsT~~~~la~---~~g~~~is 32 (183)
T PRK14531 3 QRLLFLGPPGAGKGTQAARLCA---AHGLRHLS 32 (183)
T ss_pred cEEEEECCCCCCHHHHHHHHHH---HhCCCeEe
Confidence 4699999999999998666543 34655444
No 175
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=92.10 E-value=0.18 Score=52.32 Aligned_cols=33 Identities=24% Similarity=0.245 Sum_probs=28.7
Q ss_pred EEEECCCCCcHHHHHHHHHHH-HHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHW-AREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~-A~~ngWIVL~IP 225 (404)
++|.|.+|+|||+++.|++.. |..+|+-|+|+.
T Consensus 198 ~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~S 231 (434)
T TIGR00665 198 IILAARPSMGKTAFALNIAENAAIKEGKPVAFFS 231 (434)
T ss_pred EEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEe
Confidence 899999999999999999876 456799888883
No 176
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=92.09 E-value=0.15 Score=47.36 Aligned_cols=35 Identities=23% Similarity=0.199 Sum_probs=24.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
++|-|++|||||+++.++..--...|.++|.-..-
T Consensus 18 ~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~ 52 (199)
T PF06414_consen 18 IIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEF 52 (199)
T ss_dssp EEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGG
T ss_pred EEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHH
Confidence 78889999999999999877433678888874443
No 177
>PRK00279 adk adenylate kinase; Reviewed
Probab=92.04 E-value=0.19 Score=47.15 Aligned_cols=32 Identities=22% Similarity=0.324 Sum_probs=25.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
|++|.|++|||||++-..+ |..-||..+.+.+
T Consensus 2 ~I~v~G~pGsGKsT~a~~l---a~~~~~~~is~~d 33 (215)
T PRK00279 2 RLILLGPPGAGKGTQAKFI---AEKYGIPHISTGD 33 (215)
T ss_pred EEEEECCCCCCHHHHHHHH---HHHhCCcEEECCc
Confidence 5999999999999875544 5556888887644
No 178
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=92.04 E-value=0.18 Score=50.42 Aligned_cols=34 Identities=15% Similarity=0.083 Sum_probs=26.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCe------EEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGW------LVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngW------IVL~IP 225 (404)
-+.|+|++|||||++..|+...|...+. -|+||-
T Consensus 104 vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~ 143 (317)
T PRK04301 104 ITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYID 143 (317)
T ss_pred EEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEe
Confidence 3789999999999999999887754322 566664
No 179
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.02 E-value=0.21 Score=52.15 Aligned_cols=34 Identities=26% Similarity=0.241 Sum_probs=29.0
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.-++|.|+.|||||++++.+.+++..+|.=|..|
T Consensus 207 ~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lI 240 (407)
T PRK12726 207 RIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFI 240 (407)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 3478999999999999999999988888666555
No 180
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=92.01 E-value=0.16 Score=50.87 Aligned_cols=28 Identities=29% Similarity=0.419 Sum_probs=20.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL 222 (404)
.++|+|++|||||+++..+ |.+-||-+.
T Consensus 53 ~~ll~GppG~GKT~la~~i---a~~l~~~~~ 80 (328)
T PRK00080 53 HVLLYGPPGLGKTTLANII---ANEMGVNIR 80 (328)
T ss_pred cEEEECCCCccHHHHHHHH---HHHhCCCeE
Confidence 5899999999999998754 444455433
No 181
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=91.90 E-value=0.46 Score=48.11 Aligned_cols=40 Identities=15% Similarity=0.174 Sum_probs=27.5
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHH--hCCeEEEEecCcccc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAR--EEGWLVLYVPRGREW 230 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~--~ngWIVL~IP~a~~w 230 (404)
..+++.|+.|||||++|..++.+-. ..+.-|+.|-+..++
T Consensus 149 ~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El 190 (319)
T PRK13894 149 RNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEI 190 (319)
T ss_pred CeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCcc
Confidence 3489999999999999887776532 234445555555444
No 182
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=91.87 E-value=0.14 Score=42.68 Aligned_cols=20 Identities=25% Similarity=0.355 Sum_probs=18.7
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
|++|.|.+|+|||+++..+.
T Consensus 1 ~V~iiG~~~~GKSTlin~l~ 20 (116)
T PF01926_consen 1 RVAIIGRPNVGKSTLINALT 20 (116)
T ss_dssp EEEEEESTTSSHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHh
Confidence 58999999999999999998
No 183
>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=91.85 E-value=0.14 Score=50.11 Aligned_cols=32 Identities=16% Similarity=0.168 Sum_probs=22.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.++|+|++|||||+++..+.+.. ..++.+++.
T Consensus 32 ~~ll~Gp~G~GKT~la~~ia~~~-~~~~~~~~~ 63 (305)
T TIGR00635 32 HLLLYGPPGLGKTTLAHIIANEM-GVNLKITSG 63 (305)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh-CCCEEEecc
Confidence 48999999999998887665433 234555543
No 184
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=91.83 E-value=0.31 Score=44.76 Aligned_cols=24 Identities=25% Similarity=0.430 Sum_probs=20.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
.++|.|+.|||||++|..++.+-.
T Consensus 27 ~i~I~G~tGSGKTTll~aL~~~i~ 50 (186)
T cd01130 27 NILISGGTGSGKTTLLNALLAFIP 50 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHhhcC
Confidence 489999999999999987766543
No 185
>PRK05541 adenylylsulfate kinase; Provisional
Probab=91.81 E-value=0.26 Score=44.47 Aligned_cols=32 Identities=22% Similarity=0.213 Sum_probs=23.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
++|.|..|||||++...+...-..++.-++++
T Consensus 10 I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 10 IWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 89999999999999988777665543333333
No 186
>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=91.70 E-value=0.16 Score=43.92 Aligned_cols=21 Identities=19% Similarity=0.352 Sum_probs=19.0
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|++|||||+++.+++.
T Consensus 2 ki~liG~~~~GKSsli~~l~~ 22 (161)
T cd01861 2 KLVFLGDQSVGKTSIITRFMY 22 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHc
Confidence 589999999999999998864
No 187
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=91.68 E-value=0.26 Score=48.79 Aligned_cols=36 Identities=28% Similarity=0.439 Sum_probs=28.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGR 228 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~ 228 (404)
+||+|-+|||||+.-.++..+..+.+|=|.+|.+..
T Consensus 4 iil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~ 39 (270)
T PF08433_consen 4 IILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDS 39 (270)
T ss_dssp EEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THH
T ss_pred EEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccc
Confidence 799999999999999999999999999999998543
No 188
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=91.67 E-value=0.13 Score=52.67 Aligned_cols=31 Identities=35% Similarity=0.585 Sum_probs=23.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
-++|-||.||||||+|.-+.-.=. ..|-|.|
T Consensus 31 f~vllGPSGcGKSTlLr~IAGLe~~~~G~I~i 62 (338)
T COG3839 31 FVVLLGPSGCGKSTLLRMIAGLEEPTSGEILI 62 (338)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 489999999999999987765432 5566655
No 189
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=91.61 E-value=0.048 Score=50.90 Aligned_cols=37 Identities=22% Similarity=0.235 Sum_probs=25.4
Q ss_pred EEECCCCCcHHHHHHHHHHHHHhCCe--EEEEecCcccc
Q 045329 194 VLDGPLCCGKSITLAMLVHWAREEGW--LVLYVPRGREW 230 (404)
Q Consensus 194 vL~G~rGsGKS~~L~qav~~A~~ngW--IVL~IP~a~~w 230 (404)
||+++||.|||++|..+++.+...|- |+|.-|+..+.
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~ 39 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENV 39 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHH
Confidence 68999999999999999999888876 77777876553
No 190
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=91.61 E-value=0.2 Score=55.15 Aligned_cols=33 Identities=30% Similarity=0.412 Sum_probs=27.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-++|.|++|||||+++..++..+.++|--|+..
T Consensus 175 ~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~ 207 (637)
T TIGR00376 175 LFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVT 207 (637)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 489999999999999999999888776655544
No 191
>cd01870 RhoA_like RhoA-like subfamily. The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl
Probab=91.60 E-value=0.17 Score=44.67 Aligned_cols=22 Identities=32% Similarity=0.600 Sum_probs=18.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++++.|+.|||||+++.+...
T Consensus 2 ~ki~iiG~~~~GKTsl~~~~~~ 23 (175)
T cd01870 2 KKLVIVGDGACGKTCLLIVFSK 23 (175)
T ss_pred cEEEEECCCCCCHHHHHHHHhc
Confidence 4699999999999999976654
No 192
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=91.55 E-value=0.26 Score=50.03 Aligned_cols=41 Identities=27% Similarity=0.477 Sum_probs=31.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEecCcccccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE-GWLVLYVPRGREWTH 232 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~IP~a~~wvn 232 (404)
-+++.|+.||||||+|..++.+.... +--|+.+-++.++..
T Consensus 124 ~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~ 165 (343)
T TIGR01420 124 LILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVH 165 (343)
T ss_pred EEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhc
Confidence 38999999999999998888765532 446777777666653
No 193
>PRK03846 adenylylsulfate kinase; Provisional
Probab=91.54 E-value=0.26 Score=45.68 Aligned_cols=33 Identities=21% Similarity=0.141 Sum_probs=25.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-++|+|..|||||++...+...-...|+-++++
T Consensus 26 ~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l 58 (198)
T PRK03846 26 VLWFTGLSGSGKSTVAGALEEALHELGVSTYLL 58 (198)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence 389999999999998877777666666544444
No 194
>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a
Probab=91.51 E-value=0.16 Score=47.19 Aligned_cols=21 Identities=38% Similarity=0.643 Sum_probs=18.9
Q ss_pred eeEEEECCCCCcHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav 211 (404)
++++|+|+.|+|||++|.++.
T Consensus 29 ~~~~ltG~Ng~GKStll~~i~ 49 (200)
T cd03280 29 RVLVITGPNAGGKTVTLKTLG 49 (200)
T ss_pred eEEEEECCCCCChHHHHHHHH
Confidence 359999999999999999866
No 195
>PRK14530 adenylate kinase; Provisional
Probab=91.51 E-value=0.23 Score=46.51 Aligned_cols=30 Identities=27% Similarity=0.219 Sum_probs=22.5
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
++++|.|++|||||++...+. ..-|+..+.
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La---~~~~~~~i~ 33 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLA---EEFGVEHVT 33 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHH---HHhCCeEEe
Confidence 469999999999999887773 334665443
No 196
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=91.49 E-value=0.3 Score=50.52 Aligned_cols=41 Identities=17% Similarity=0.099 Sum_probs=32.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC--CeEEEEecCcccccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE--GWLVLYVPRGREWTH 232 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n--gWIVL~IP~a~~wvn 232 (404)
-+++.|+.|||||++|..++.+-.++ +.-|+.|=++.++..
T Consensus 151 lilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~ 193 (372)
T TIGR02525 151 LGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYIL 193 (372)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhcc
Confidence 38999999999999999988877543 456777777766643
No 197
>KOG2749 consensus mRNA cleavage and polyadenylation factor IA/II complex, subunit CLP1 [RNA processing and modification]
Probab=91.49 E-value=0.3 Score=50.44 Aligned_cols=35 Identities=29% Similarity=0.492 Sum_probs=33.1
Q ss_pred ceeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 190 RKQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 190 r~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-+|+++.|+.-||||++.--+..||.++||=.+|+
T Consensus 103 GPrv~vVGp~d~GKsTl~r~L~nyavk~gr~Plfv 137 (415)
T KOG2749|consen 103 GPRVMVVGPTDVGKSTLCRILLNYAVKQGRRPLFV 137 (415)
T ss_pred CCEEEEECCCccchHHHHHHHHHHHHHcCCcceEE
Confidence 37899999999999999999999999999999887
No 198
>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le
Probab=91.49 E-value=0.18 Score=44.88 Aligned_cols=21 Identities=29% Similarity=0.368 Sum_probs=19.1
Q ss_pred eeEEEECCCCCcHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav 211 (404)
.+++|.|.+|+|||+++.++.
T Consensus 2 ~kv~l~G~~g~GKTtl~~~~~ 22 (180)
T cd04137 2 RKIAVLGSRSVGKSSLTVQFV 22 (180)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 469999999999999998877
No 199
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=91.48 E-value=0.15 Score=49.51 Aligned_cols=32 Identities=25% Similarity=0.369 Sum_probs=23.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHh-CCeEEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWARE-EGWLVLY 223 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~-ngWIVL~ 223 (404)
-+.|.|+.||||||+|+-+-....- .|-+.+.
T Consensus 33 ~vaI~GpSGSGKSTLLniig~ld~pt~G~v~i~ 65 (226)
T COG1136 33 FVAIVGPSGSGKSTLLNLLGGLDKPTSGEVLIN 65 (226)
T ss_pred EEEEECCCCCCHHHHHHHHhcccCCCCceEEEC
Confidence 3899999999999999877665543 3544444
No 200
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=91.47 E-value=0.17 Score=44.18 Aligned_cols=39 Identities=18% Similarity=0.365 Sum_probs=25.6
Q ss_pred hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHH
Q 045329 165 SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 165 ~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A 214 (404)
...++.+.+++.... +. -++|+|++||||+.+. +++|..
T Consensus 6 ~~~~l~~~l~~~a~~-----~~-----pvli~GE~GtGK~~~A-~~lh~~ 44 (138)
T PF14532_consen 6 AMRRLRRQLERLAKS-----SS-----PVLITGEPGTGKSLLA-RALHRY 44 (138)
T ss_dssp HHHHHHHHHHHHHCS-----SS------EEEECCTTSSHHHHH-HCCHHT
T ss_pred HHHHHHHHHHHHhCC-----CC-----cEEEEcCCCCCHHHHH-HHHHhh
Confidence 345677777766321 11 2899999999999954 455543
No 201
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=91.45 E-value=0.19 Score=43.15 Aligned_cols=21 Identities=29% Similarity=0.354 Sum_probs=18.9
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++-|.+|||||+++.+++.
T Consensus 3 ki~iiG~~~vGKTsl~~~~~~ 23 (162)
T cd04138 3 KLVVVGAGGVGKSALTIQLIQ 23 (162)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 589999999999999988874
No 202
>cd00157 Rho Rho (Ras homology) family. Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein
Probab=91.44 E-value=0.18 Score=43.95 Aligned_cols=22 Identities=27% Similarity=0.247 Sum_probs=19.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~ 213 (404)
++++.|++|||||+++.+++..
T Consensus 2 ki~i~G~~~~GKSsli~~l~~~ 23 (171)
T cd00157 2 KIVVVGDGAVGKTCLLISYTTG 23 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHhC
Confidence 4899999999999999988754
No 203
>PTZ00035 Rad51 protein; Provisional
Probab=91.43 E-value=0.097 Score=53.25 Aligned_cols=97 Identities=15% Similarity=0.191 Sum_probs=53.3
Q ss_pred cccCCCccccCccccceeEEeCHHHHHhhccC---CCCcchhhhccccCceeEEEchhHHHHHHHHHHhcCCCccCCCCC
Q 045329 111 FTKTTSLSLLTRKDACTYFKFSEDELNAMLPE---GLPTGMLGEFKDSMRYALLVRQSFLDIRDNFRRIVDPSLQSTNGP 187 (404)
Q Consensus 111 ~~~~~~~~~ht~~~vGk~y~~p~e~~k~l~~~---GLp~~~~kqfe~f~~p~~LVRk~tleLi~~L~~~~d~~~~std~~ 187 (404)
|.+..+....+..++.+...++.+...++... -++..+..-.+...+.....|=+|= +..|.+.+.... +
T Consensus 44 ~~t~~~~~~~~~~~L~~~~gis~~~~~~i~~~~~~~~~~~~~ta~~~~~~~~~~~~isTG--~~~LD~lLgGGi-----~ 116 (337)
T PTZ00035 44 ICTVESVAYATKKDLCNIKGISEAKVEKIKEAASKLVPMGFISATEYLEARKNIIRITTG--STQLDKLLGGGI-----E 116 (337)
T ss_pred CCcHHHHHhCCHHHHHHhhCCCHHHHHHHHHHHHHhcccCCCCHHHHHHhhccCccccCC--cHHHHHHhCCCC-----C
Confidence 55666778888888888888888876666432 1111111111122111111111110 222344433221 1
Q ss_pred ccceeEEEECCCCCcHHHHHHHHHHHHH
Q 045329 188 KIRKQIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 188 ~~r~r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
. ..-+.|+|++|||||+++.|+...+.
T Consensus 117 ~-G~iteI~G~~GsGKT~l~~~l~~~~q 143 (337)
T PTZ00035 117 T-GSITELFGEFRTGKTQLCHTLCVTCQ 143 (337)
T ss_pred C-CeEEEEECCCCCchhHHHHHHHHHhc
Confidence 1 12378999999999999998876664
No 204
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=91.43 E-value=0.26 Score=47.21 Aligned_cols=32 Identities=28% Similarity=0.234 Sum_probs=26.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
++|.|.+|||||+...++..+....|+=|+++
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i 33 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIIL 33 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEE
Confidence 69999999999999999998877666644454
No 205
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=91.42 E-value=0.26 Score=45.32 Aligned_cols=33 Identities=12% Similarity=0.138 Sum_probs=23.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
+.|.|+.||||||+...+...-...+..|++..
T Consensus 2 igi~G~~GsGKSTl~~~l~~~l~~~~~~v~~~D 34 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIEQLGNPKVVIISQD 34 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCCCeEEEEec
Confidence 578999999999999888765422234555544
No 206
>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid
Probab=91.42 E-value=0.15 Score=47.83 Aligned_cols=23 Identities=26% Similarity=0.245 Sum_probs=19.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A 214 (404)
-++|+|+.|||||++|.++....
T Consensus 27 ~~~ltGpNg~GKSTllr~i~~~~ 49 (199)
T cd03283 27 GILITGSNMSGKSTFLRTIGVNV 49 (199)
T ss_pred EEEEECCCCCChHHHHHHHHHHH
Confidence 48999999999999998876543
No 207
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=91.42 E-value=0.23 Score=50.78 Aligned_cols=39 Identities=18% Similarity=0.219 Sum_probs=26.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREW 230 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~w 230 (404)
..+++.|+.|||||++|.-++.+--.+. -++.|=+..++
T Consensus 163 ~nilI~G~tGSGKTTll~aLl~~i~~~~-rivtiEd~~El 201 (344)
T PRK13851 163 LTMLLCGPTGSGKTTMSKTLISAIPPQE-RLITIEDTLEL 201 (344)
T ss_pred CeEEEECCCCccHHHHHHHHHcccCCCC-CEEEECCCccc
Confidence 3499999999999999988776543322 23344444443
No 208
>cd04129 Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).
Probab=91.38 E-value=0.18 Score=45.76 Aligned_cols=21 Identities=29% Similarity=0.646 Sum_probs=19.1
Q ss_pred eeEEEECCCCCcHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav 211 (404)
.+++|.|+.|+|||+++.+++
T Consensus 2 ~Ki~ivG~~g~GKStLl~~l~ 22 (187)
T cd04129 2 RKLVIVGDGACGKTSLLSVFT 22 (187)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 469999999999999998886
No 209
>PTZ00202 tuzin; Provisional
Probab=91.36 E-value=0.17 Score=54.00 Aligned_cols=33 Identities=24% Similarity=0.189 Sum_probs=27.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGR 228 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~ 228 (404)
-.+|+|+.|||||+++.+++.++. .+.++++..
T Consensus 288 ivvLtG~~G~GKTTLlR~~~~~l~----~~qL~vNpr 320 (550)
T PTZ00202 288 IVVFTGFRGCGKSSLCRSAVRKEG----MPAVFVDVR 320 (550)
T ss_pred EEEEECCCCCCHHHHHHHHHhcCC----ceEEEECCC
Confidence 478999999999999999997664 557777665
No 210
>PHA03136 thymidine kinase; Provisional
Probab=91.36 E-value=0.2 Score=51.91 Aligned_cols=36 Identities=31% Similarity=0.458 Sum_probs=29.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeE--EEEecCccc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWL--VLYVPRGRE 229 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWI--VL~IP~a~~ 229 (404)
.|+.|+|.-|+||||++.++... .+|. |++||++-.
T Consensus 37 ~rvyieG~~gvGKTT~~~~l~~~---~~~~~~vl~v~EPm~ 74 (378)
T PHA03136 37 VLLYLDGPFGTGKTTTAKLLMEM---PDTLAARLYLAEPMA 74 (378)
T ss_pred EEEEEECCCcCCHHHHHHHHHhc---cccCCCeeeecCchH
Confidence 57999999999999999887762 5665 888888754
No 211
>PRK06762 hypothetical protein; Provisional
Probab=91.34 E-value=0.28 Score=43.59 Aligned_cols=30 Identities=23% Similarity=0.305 Sum_probs=22.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
++|+|.+|||||++-..+.... ..+++++.
T Consensus 5 i~i~G~~GsGKST~A~~L~~~l-~~~~~~i~ 34 (166)
T PRK06762 5 IIIRGNSGSGKTTIAKQLQERL-GRGTLLVS 34 (166)
T ss_pred EEEECCCCCCHHHHHHHHHHHh-CCCeEEec
Confidence 8999999999999877665443 23666653
No 212
>cd04160 Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=91.34 E-value=0.16 Score=44.33 Aligned_cols=20 Identities=25% Similarity=0.272 Sum_probs=18.4
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~ 212 (404)
++|.|.+|||||+++.++..
T Consensus 2 i~~vG~~~~GKstLi~~l~~ 21 (167)
T cd04160 2 VLILGLDNAGKTTFLEQLKT 21 (167)
T ss_pred EEEEecCCCCHHHHHHHHhh
Confidence 78999999999999999865
No 213
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=91.33 E-value=0.31 Score=49.71 Aligned_cols=32 Identities=28% Similarity=0.220 Sum_probs=27.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEE
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVL 222 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL 222 (404)
..+-|+|.+|+|||+++..++.+....||=|.
T Consensus 57 ~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~ 88 (332)
T PRK09435 57 LRIGITGVPGVGKSTFIEALGMHLIEQGHKVA 88 (332)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 45899999999999999999999988887433
No 214
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=91.29 E-value=0.22 Score=46.15 Aligned_cols=31 Identities=23% Similarity=0.167 Sum_probs=20.6
Q ss_pred EEEECCCCCcHHHHHHHH-HHHHHhCCeEEEE
Q 045329 193 IVLDGPLCCGKSITLAML-VHWAREEGWLVLY 223 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qa-v~~A~~ngWIVL~ 223 (404)
++++|.+|+|||....+. +.-|.+.|+.|+.
T Consensus 3 ~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t 34 (193)
T PF05707_consen 3 YLITGKPGSGKSYYAVSYVIIPALKKGRPVYT 34 (193)
T ss_dssp EEEE--TTSSHHHHHHHHHHH-GGGS---EEE
T ss_pred EEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE
Confidence 689999999999988777 6667777877665
No 215
>PRK13768 GTPase; Provisional
Probab=91.24 E-value=0.27 Score=47.73 Aligned_cols=33 Identities=27% Similarity=0.441 Sum_probs=26.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-+++.|+.|||||++..++..+...+|-=|+.|
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i 36 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIV 36 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhcCCceEEE
Confidence 378999999999999999999988776543333
No 216
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades
Probab=91.23 E-value=0.2 Score=43.56 Aligned_cols=21 Identities=29% Similarity=0.311 Sum_probs=19.0
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|++|+|||+++.+++.
T Consensus 2 ki~v~G~~~~GKTsli~~~~~ 22 (164)
T smart00173 2 KLVVLGSGGVGKSALTIQFVQ 22 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999998874
No 217
>PRK02496 adk adenylate kinase; Provisional
Probab=91.22 E-value=0.21 Score=45.32 Aligned_cols=33 Identities=15% Similarity=0.188 Sum_probs=23.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
.|++|.|++|||||++...+... -|+.++.+.+
T Consensus 2 ~~i~i~G~pGsGKst~a~~la~~---~~~~~i~~~~ 34 (184)
T PRK02496 2 TRLIFLGPPGAGKGTQAVVLAEH---LHIPHISTGD 34 (184)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH---hCCcEEEhHH
Confidence 36999999999999988776432 3665555433
No 218
>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru
Probab=91.18 E-value=0.18 Score=46.86 Aligned_cols=23 Identities=26% Similarity=0.325 Sum_probs=20.1
Q ss_pred eeEEEECCCCCcHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~ 213 (404)
.+++|+|+.|+|||++|.++..-
T Consensus 30 ~~~~l~G~Ng~GKStll~~i~~~ 52 (202)
T cd03243 30 RLLLITGPNMGGKSTYLRSIGLA 52 (202)
T ss_pred eEEEEECCCCCccHHHHHHHHHH
Confidence 46999999999999999888743
No 219
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=91.15 E-value=0.32 Score=53.33 Aligned_cols=38 Identities=21% Similarity=0.269 Sum_probs=29.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCC-eEEEEecCccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEG-WLVLYVPRGRE 229 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ng-WIVL~IP~a~~ 229 (404)
.++|+|++|||||+++..+....-.+. ..++|+|++..
T Consensus 39 ~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~ 77 (608)
T TIGR00764 39 NVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPED 77 (608)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCC
Confidence 489999999999998877766554444 56779998844
No 220
>PRK00698 tmk thymidylate kinase; Validated
Probab=91.13 E-value=0.32 Score=44.33 Aligned_cols=35 Identities=23% Similarity=0.330 Sum_probs=26.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCC--eEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEG--WLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ng--WIVL~IP~ 226 (404)
-++|.|..|||||+++..+..+....| +++...|.
T Consensus 5 ~I~ieG~~gsGKsT~~~~L~~~l~~~~~~~~~~~~p~ 41 (205)
T PRK00698 5 FITIEGIDGAGKSTQIELLKELLEQQGRDVVFTREPG 41 (205)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCceeEeeCCC
Confidence 489999999999999998888766654 34444454
No 221
>CHL00195 ycf46 Ycf46; Provisional
Probab=91.13 E-value=0.23 Score=53.11 Aligned_cols=23 Identities=26% Similarity=0.280 Sum_probs=17.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A 214 (404)
+.++|+|++|||||.+. .+++.-
T Consensus 260 kGILL~GPpGTGKTllA-kaiA~e 282 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTA-KAIAND 282 (489)
T ss_pred ceEEEECCCCCcHHHHH-HHHHHH
Confidence 56999999999999554 555443
No 222
>PRK10536 hypothetical protein; Provisional
Probab=91.09 E-value=0.34 Score=47.97 Aligned_cols=35 Identities=26% Similarity=0.199 Sum_probs=27.2
Q ss_pred EEEECCCCCcHHHHHHHHHHHHH-hCCeEEEEecCc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAR-EEGWLVLYVPRG 227 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL~IP~a 227 (404)
++++|+.|||||++...+...+. ....-.++|.++
T Consensus 77 V~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP 112 (262)
T PRK10536 77 IFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRP 112 (262)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCC
Confidence 89999999999999988888766 444555666554
No 223
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=91.07 E-value=0.19 Score=45.22 Aligned_cols=21 Identities=38% Similarity=0.575 Sum_probs=18.5
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
.++|.|+.|||||+++..+..
T Consensus 3 ii~l~G~~GsGKsTl~~~L~~ 23 (180)
T TIGR03263 3 LIVISGPSGVGKSTLVKALLE 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHc
Confidence 489999999999998877776
No 224
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=91.07 E-value=0.32 Score=46.80 Aligned_cols=34 Identities=24% Similarity=0.244 Sum_probs=29.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREE-GWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~IP~ 226 (404)
++|-|.+|+|||+++.|+...+..+ |.=|+|+.-
T Consensus 22 ~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~Sl 56 (259)
T PF03796_consen 22 TVIAARPGVGKTAFALQIALNAALNGGYPVLYFSL 56 (259)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEES
T ss_pred EEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcC
Confidence 8999999999999999999877766 688888854
No 225
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=91.05 E-value=0.26 Score=51.03 Aligned_cols=33 Identities=27% Similarity=0.308 Sum_probs=28.9
Q ss_pred EEEECCCCCcHHHHHHHHHH-HHHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVH-WAREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~-~A~~ngWIVL~IP 225 (404)
++|.|.+|+|||+++.+++. .|..+|+=|+++.
T Consensus 197 iviag~pg~GKT~~al~ia~~~a~~~g~~v~~fS 230 (421)
T TIGR03600 197 IVIGARPSMGKTTLALNIAENVALREGKPVLFFS 230 (421)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence 89999999999999999985 4568899888885
No 226
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=91.05 E-value=0.21 Score=53.35 Aligned_cols=40 Identities=25% Similarity=0.289 Sum_probs=31.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccccc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTH 232 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvn 232 (404)
++++|+.|||||++|..++.+--..+--|+.|-++-++..
T Consensus 245 ilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~~ 284 (486)
T TIGR02533 245 ILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQI 284 (486)
T ss_pred EEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeeec
Confidence 7999999999999998777765445566788877666543
No 227
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=91.04 E-value=0.18 Score=46.25 Aligned_cols=21 Identities=43% Similarity=0.431 Sum_probs=18.4
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
.++|.|+.||||||++..+..
T Consensus 4 ~i~l~G~sGsGKsTl~~~l~~ 24 (186)
T PRK10078 4 LIWLMGPSGSGKDSLLAALRQ 24 (186)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 389999999999999998843
No 228
>PRK10436 hypothetical protein; Provisional
Probab=91.04 E-value=0.28 Score=52.17 Aligned_cols=41 Identities=22% Similarity=0.201 Sum_probs=32.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTH 232 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvn 232 (404)
-++++|+.||||||+|..++.+....+--|+.|=++-++..
T Consensus 220 liLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~l 260 (462)
T PRK10436 220 LILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIPL 260 (462)
T ss_pred eEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCccccC
Confidence 38999999999999998888886555555777777766543
No 229
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=91.02 E-value=0.18 Score=43.04 Aligned_cols=31 Identities=26% Similarity=0.399 Sum_probs=22.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.-. ..|-|.+
T Consensus 13 ~~~i~G~nGsGKStLl~~l~g~~~~~~G~i~~ 44 (137)
T PF00005_consen 13 IVAIVGPNGSGKSTLLKALAGLLPPDSGSILI 44 (137)
T ss_dssp EEEEEESTTSSHHHHHHHHTTSSHESEEEEEE
T ss_pred EEEEEccCCCccccceeeeccccccccccccc
Confidence 489999999999999976655433 4465544
No 230
>PRK08233 hypothetical protein; Provisional
Probab=91.00 E-value=0.21 Score=44.63 Aligned_cols=32 Identities=22% Similarity=0.173 Sum_probs=23.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
-+.|.|.+||||||+..++...- .+.-|+++.
T Consensus 5 iI~I~G~~GsGKtTla~~L~~~l--~~~~~~~~d 36 (182)
T PRK08233 5 IITIAAVSGGGKTTLTERLTHKL--KNSKALYFD 36 (182)
T ss_pred EEEEECCCCCCHHHHHHHHHhhC--CCCceEEEC
Confidence 37889999999999998887642 234555553
No 231
>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=91.00 E-value=0.52 Score=45.22 Aligned_cols=25 Identities=16% Similarity=0.114 Sum_probs=21.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
..+.|+|..|+|||++..++.+...
T Consensus 20 ~~v~I~G~~G~GKT~LA~~~~~~~~ 44 (287)
T PF00931_consen 20 RVVAIVGMGGIGKTTLARQVARDLR 44 (287)
T ss_dssp EEEEEEESTTSSHHHHHHHHHCHHH
T ss_pred EEEEEEcCCcCCcceeeeecccccc
Confidence 5699999999999999999887644
No 232
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=90.96 E-value=0.22 Score=42.28 Aligned_cols=22 Identities=32% Similarity=0.306 Sum_probs=19.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.++++.|+.|+|||+++.++..
T Consensus 4 ~~i~~~G~~g~GKttl~~~l~~ 25 (168)
T cd04163 4 GFVAIVGRPNVGKSTLLNALVG 25 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHhC
Confidence 4599999999999999999763
No 233
>COG3911 Predicted ATPase [General function prediction only]
Probab=90.96 E-value=0.2 Score=46.30 Aligned_cols=31 Identities=29% Similarity=0.432 Sum_probs=23.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
++|||+|-+|+|||++|+-+- +.|+.++..+
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa----~~Gfatvee~ 40 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALA----RAGFATVEEA 40 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHH----HcCceeeccc
Confidence 479999999999999997542 3566666554
No 234
>PHA00729 NTP-binding motif containing protein
Probab=90.89 E-value=0.34 Score=47.00 Aligned_cols=23 Identities=17% Similarity=0.089 Sum_probs=19.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A 214 (404)
.++|+|.+|||||++...+...+
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l 41 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDV 41 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 49999999999999877766654
No 235
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=90.85 E-value=0.21 Score=43.74 Aligned_cols=21 Identities=29% Similarity=0.340 Sum_probs=18.8
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|++|||||+++.+++.
T Consensus 4 ki~i~G~~~vGKSsli~~~~~ 24 (166)
T cd01869 4 KLLLIGDSGVGKSCLLLRFAD 24 (166)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 589999999999999988864
No 236
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=90.83 E-value=0.18 Score=46.63 Aligned_cols=19 Identities=26% Similarity=0.225 Sum_probs=17.0
Q ss_pred eEEEECCCCCcHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAML 210 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qa 210 (404)
++.|.|+.||||||+|.-+
T Consensus 23 ~~~l~G~nG~GKSTLl~~i 41 (176)
T cd03238 23 LVVVTGVSGSGKSTLVNEG 41 (176)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 5899999999999999754
No 237
>cd04156 ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h
Probab=90.82 E-value=0.2 Score=43.42 Aligned_cols=21 Identities=43% Similarity=0.434 Sum_probs=18.6
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
|++|.|.+|||||+++..+..
T Consensus 1 ~i~i~G~~~~GKTsl~~~~~~ 21 (160)
T cd04156 1 QVLLLGLDSAGKSTLLYKLKH 21 (160)
T ss_pred CEEEEcCCCCCHHHHHHHHhc
Confidence 489999999999999988864
No 238
>cd04139 RalA_RalB RalA/RalB subfamily. The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo
Probab=90.80 E-value=0.23 Score=42.78 Aligned_cols=21 Identities=19% Similarity=0.238 Sum_probs=19.1
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|.+|+|||+++.++++
T Consensus 2 ki~~~G~~~~GKTsl~~~l~~ 22 (164)
T cd04139 2 KVIVVGAGGVGKSALTLQFMY 22 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999998884
No 239
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=90.77 E-value=0.34 Score=50.98 Aligned_cols=34 Identities=29% Similarity=0.338 Sum_probs=28.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
..++|.|+.||||||+++.+..+...+|.=|..|
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI 275 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFI 275 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEE
Confidence 3589999999999999999988888888655544
No 240
>cd04119 RJL RJL (RabJ-Like) subfamily. RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.
Probab=90.75 E-value=0.23 Score=42.84 Aligned_cols=20 Identities=20% Similarity=0.255 Sum_probs=17.9
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|++|||||+++.++.
T Consensus 2 ki~~vG~~~vGKTsli~~l~ 21 (168)
T cd04119 2 KVISMGNSGVGKSCIIKRYC 21 (168)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 48999999999999998775
No 241
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=90.72 E-value=0.41 Score=43.56 Aligned_cols=33 Identities=27% Similarity=0.256 Sum_probs=25.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-++|.|.+|||||++...+...-...|+-++++
T Consensus 20 ~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l 52 (184)
T TIGR00455 20 VIWLTGLSGSGKSTIANALEKKLESKGYRVYVL 52 (184)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 489999999999998888887766677544444
No 242
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=90.72 E-value=0.46 Score=48.31 Aligned_cols=39 Identities=18% Similarity=0.152 Sum_probs=30.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCccccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWT 231 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wv 231 (404)
.+++.|+.|||||++|.-++.+. -.++-|+.|-+..++.
T Consensus 162 nili~G~tgSGKTTll~aL~~~i-p~~~ri~tiEd~~El~ 200 (332)
T PRK13900 162 NIIISGGTSTGKTTFTNAALREI-PAIERLITVEDAREIV 200 (332)
T ss_pred cEEEECCCCCCHHHHHHHHHhhC-CCCCeEEEecCCCccc
Confidence 49999999999999997776654 4567788887776664
No 243
>PRK03839 putative kinase; Provisional
Probab=90.64 E-value=0.23 Score=44.99 Aligned_cols=32 Identities=22% Similarity=0.332 Sum_probs=23.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
+++|.|.+||||||+..++ |..-|+-++.+-+
T Consensus 2 ~I~l~G~pGsGKsT~~~~L---a~~~~~~~id~d~ 33 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLL---AEKLGYEYVDLTE 33 (180)
T ss_pred EEEEECCCCCCHHHHHHHH---HHHhCCcEEehhh
Confidence 4899999999999976554 3444676666543
No 244
>PRK00300 gmk guanylate kinase; Provisional
Probab=90.63 E-value=0.23 Score=45.71 Aligned_cols=22 Identities=41% Similarity=0.551 Sum_probs=19.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~ 213 (404)
-++|.|+.|||||+++..+...
T Consensus 7 ~i~i~G~sGsGKstl~~~l~~~ 28 (205)
T PRK00300 7 LIVLSGPSGAGKSTLVKALLER 28 (205)
T ss_pred EEEEECCCCCCHHHHHHHHHhh
Confidence 3899999999999988887765
No 245
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=90.62 E-value=0.22 Score=43.78 Aligned_cols=21 Identities=48% Similarity=0.571 Sum_probs=18.3
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~ 213 (404)
++|.|+.|||||+++..++..
T Consensus 2 i~i~GpsGsGKstl~~~L~~~ 22 (137)
T cd00071 2 IVLSGPSGVGKSTLLKRLLEE 22 (137)
T ss_pred EEEECCCCCCHHHHHHHHHhc
Confidence 688999999999988887764
No 246
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=90.62 E-value=0.24 Score=42.79 Aligned_cols=20 Identities=35% Similarity=0.416 Sum_probs=18.2
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|++|||||+++..+.
T Consensus 2 kv~v~G~~~~GKTtli~~l~ 21 (164)
T smart00175 2 KIILIGDSGVGKSSLLSRFT 21 (164)
T ss_pred EEEEECCCCCCHHHHHHHHh
Confidence 48999999999999998875
No 247
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=90.61 E-value=0.31 Score=41.95 Aligned_cols=20 Identities=20% Similarity=0.292 Sum_probs=18.1
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
.++|.|+.|||||++|..+.
T Consensus 17 ~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 17 GVLITGDSGIGKTELALELI 36 (107)
T ss_pred EEEEEcCCCCCHHHHHHHhh
Confidence 48999999999999998875
No 248
>cd04136 Rap_like Rap-like subfamily. The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.
Probab=90.60 E-value=0.25 Score=42.75 Aligned_cols=21 Identities=29% Similarity=0.330 Sum_probs=18.4
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|.+|+|||+++.+.+.
T Consensus 3 ki~i~G~~~vGKTsl~~~~~~ 23 (163)
T cd04136 3 KVVVLGSGGVGKSALTVQFVQ 23 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 589999999999999887763
No 249
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=90.59 E-value=0.25 Score=47.38 Aligned_cols=34 Identities=26% Similarity=0.344 Sum_probs=26.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCC------eEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEG------WLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ng------WIVL~IP~ 226 (404)
+++.|.+|||||++|.+-+.|...++ .+|+.+.+
T Consensus 16 ~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~ 55 (315)
T PF00580_consen 16 LLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTN 55 (315)
T ss_dssp EEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSH
T ss_pred EEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCH
Confidence 78889999999999999998876544 66666544
No 250
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=90.59 E-value=0.4 Score=46.90 Aligned_cols=34 Identities=24% Similarity=0.439 Sum_probs=25.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE-GWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~IP 225 (404)
|.++-|++|||||+++..++.+-... .-|++--|
T Consensus 15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP 49 (241)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence 58999999999999999998764432 45554444
No 251
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=90.58 E-value=0.3 Score=47.09 Aligned_cols=31 Identities=26% Similarity=0.234 Sum_probs=25.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
..++|+|++|+|||++..++ ....+++....
T Consensus 13 ~~~liyG~~G~GKtt~a~~~-----~~~~~~~~~d~ 43 (220)
T TIGR01618 13 NMYLIYGKPGTGKTSTIKYL-----PGKTLVLSFDM 43 (220)
T ss_pred cEEEEECCCCCCHHHHHHhc-----CCCCEEEeccc
Confidence 45999999999999998876 35688887755
No 252
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=90.56 E-value=0.33 Score=51.25 Aligned_cols=33 Identities=24% Similarity=0.304 Sum_probs=28.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-++|.|..||||||+++.+.+|...+|+=|+-|
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV 134 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLV 134 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 488999999999999999999998888755544
No 253
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=90.54 E-value=0.31 Score=49.81 Aligned_cols=33 Identities=27% Similarity=0.499 Sum_probs=28.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.++|+|+.|||||+++..+.++++..+=.|+..
T Consensus 24 ~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~ 56 (364)
T PF05970_consen 24 NFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVT 56 (364)
T ss_pred EEEEEcCCCCChhHHHHHHHHHhccccceEEEe
Confidence 489999999999999999999998875555544
No 254
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=90.53 E-value=0.23 Score=42.51 Aligned_cols=20 Identities=30% Similarity=0.321 Sum_probs=18.0
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|++|||||+++..+.
T Consensus 1 ki~i~G~~~~GKTsli~~l~ 20 (160)
T cd00876 1 KVVVLGAGGVGKSAITIQFV 20 (160)
T ss_pred CEEEECCCCCCHHHHHHHHH
Confidence 37999999999999998886
No 255
>PRK04841 transcriptional regulator MalT; Provisional
Probab=90.52 E-value=1.4 Score=49.21 Aligned_cols=28 Identities=25% Similarity=0.324 Sum_probs=21.3
Q ss_pred HHHHHHHHHHhcCCCCcEEEEEeCccccc
Q 045329 318 GVVVRLRKELSLVKDIPVLIAIDQYNNWF 346 (404)
Q Consensus 318 ~v~~aLl~EL~~q~~~PVLvAVD~~Nalf 346 (404)
..+..++.+|... .-|++|+|||+..+-
T Consensus 107 ~~~~~~~~~l~~~-~~~~~lvlDD~h~~~ 134 (903)
T PRK04841 107 SLFAQLFIELADW-HQPLYLVIDDYHLIT 134 (903)
T ss_pred HHHHHHHHHHhcC-CCCEEEEEeCcCcCC
Confidence 4566777888653 679999999997664
No 256
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.50 E-value=0.39 Score=49.06 Aligned_cols=22 Identities=23% Similarity=0.294 Sum_probs=17.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~ 213 (404)
-|+|+|++|+|||++...+...
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~ 61 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKS 61 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHH
Confidence 4899999999999877665543
No 257
>cd01863 Rab18 Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=90.47 E-value=0.25 Score=42.82 Aligned_cols=20 Identities=35% Similarity=0.356 Sum_probs=17.9
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|++|||||+++.++.
T Consensus 2 ki~v~G~~~~GKSsli~~l~ 21 (161)
T cd01863 2 KILLIGDSGVGKSSLLLRFT 21 (161)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 48999999999999998775
No 258
>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi
Probab=90.45 E-value=0.25 Score=43.62 Aligned_cols=23 Identities=26% Similarity=0.172 Sum_probs=19.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~ 213 (404)
-++++.|++|+|||+++.++...
T Consensus 4 ~ki~vvG~~~~GKSsl~~~~~~~ 26 (167)
T cd01867 4 FKLLLIGDSGVGKSCLLLRFSED 26 (167)
T ss_pred eEEEEECCCCCCHHHHHHHHhhC
Confidence 36999999999999999888643
No 259
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=90.42 E-value=0.28 Score=45.82 Aligned_cols=32 Identities=25% Similarity=0.301 Sum_probs=23.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
|++|.|++|||||++-.++ |..-|+.+|..-+
T Consensus 1 rI~i~G~pGsGKsT~a~~L---a~~~g~~~is~gd 32 (210)
T TIGR01351 1 RLVLLGPPGSGKGTQAKRI---AEKYGLPHISTGD 32 (210)
T ss_pred CEEEECCCCCCHHHHHHHH---HHHcCCCeeehhH
Confidence 4899999999999986665 3445777776543
No 260
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.42 E-value=0.38 Score=50.78 Aligned_cols=33 Identities=24% Similarity=0.231 Sum_probs=27.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHH-HHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW-AREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~-A~~ngWIVL~I 224 (404)
.+++.|+.||||||+++++.++ ....|.-|..+
T Consensus 225 vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Li 258 (432)
T PRK12724 225 VVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLY 258 (432)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEe
Confidence 4789999999999999999874 46778766655
No 261
>PRK10867 signal recognition particle protein; Provisional
Probab=90.40 E-value=0.34 Score=51.17 Aligned_cols=33 Identities=27% Similarity=0.336 Sum_probs=28.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE-GWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~I 224 (404)
-+++.|+.||||||+.+.+..|...+ |+=|+.|
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV 135 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLV 135 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEE
Confidence 48899999999999999999988877 8755555
No 262
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=90.39 E-value=0.47 Score=40.93 Aligned_cols=32 Identities=31% Similarity=0.433 Sum_probs=25.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+++.|+.|+|||++-..+..+..++|.=|+-|
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~i 33 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAI 33 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence 78999999999999988887766666544433
No 263
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=90.31 E-value=0.32 Score=51.65 Aligned_cols=34 Identities=12% Similarity=0.108 Sum_probs=26.2
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE-GWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~I 224 (404)
.-++|.|++|||||++..|.+.-+..+ |==++||
T Consensus 22 ~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyv 56 (484)
T TIGR02655 22 RSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFV 56 (484)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEE
Confidence 349999999999999999987765444 5555555
No 264
>PRK04195 replication factor C large subunit; Provisional
Probab=90.31 E-value=0.31 Score=51.67 Aligned_cols=31 Identities=35% Similarity=0.583 Sum_probs=23.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+.++|+|++|||||++...+ |.+-||-++.+
T Consensus 40 ~~lLL~GppG~GKTtla~al---a~el~~~~iel 70 (482)
T PRK04195 40 KALLLYGPPGVGKTSLAHAL---ANDYGWEVIEL 70 (482)
T ss_pred CeEEEECCCCCCHHHHHHHH---HHHcCCCEEEE
Confidence 45999999999999887544 55557766665
No 265
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=90.28 E-value=0.87 Score=41.85 Aligned_cols=32 Identities=25% Similarity=0.330 Sum_probs=24.0
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCC--eEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEG--WLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ng--WIVL~I 224 (404)
+.|.|.+|||||++..++..+-...| -.+|+.
T Consensus 2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~ 35 (179)
T cd02028 2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISL 35 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEeh
Confidence 57999999999999988887755443 344544
No 266
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=90.27 E-value=0.29 Score=47.87 Aligned_cols=26 Identities=15% Similarity=0.210 Sum_probs=20.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHh
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWARE 216 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ 216 (404)
.|++|.|++|||||+++..+......
T Consensus 17 qr~~I~G~~G~GKTTLlr~I~n~l~~ 42 (249)
T cd01128 17 QRGLIVAPPKAGKTTLLQSIANAITK 42 (249)
T ss_pred CEEEEECCCCCCHHHHHHHHHhcccc
Confidence 36999999999999988776665543
No 267
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=90.25 E-value=0.31 Score=51.79 Aligned_cols=33 Identities=12% Similarity=0.136 Sum_probs=26.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE-GWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~I 224 (404)
-++|.|++|+|||++..|.+..+..+ |==|+||
T Consensus 33 ~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyi 66 (509)
T PRK09302 33 PTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFV 66 (509)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEE
Confidence 38999999999999999998766655 6444444
No 268
>PRK05480 uridine/cytidine kinase; Provisional
Probab=90.25 E-value=0.42 Score=44.39 Aligned_cols=34 Identities=18% Similarity=0.111 Sum_probs=23.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
..+.|.|+.||||||+...+...=....+.+++.
T Consensus 7 ~iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~ 40 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEELGDESIAVIPQ 40 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhCCCceEEEeC
Confidence 3589999999999998877665421223444444
No 269
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=90.23 E-value=0.23 Score=41.99 Aligned_cols=21 Identities=24% Similarity=0.257 Sum_probs=18.3
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~ 213 (404)
++|.|+.|||||+++.++..-
T Consensus 2 i~i~G~~~~GKssl~~~l~~~ 22 (159)
T cd04159 2 ITLVGLQNSGKTTLVNVIAGG 22 (159)
T ss_pred EEEEcCCCCCHHHHHHHHccC
Confidence 689999999999999988643
No 270
>TIGR02528 EutP ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.
Probab=90.16 E-value=0.25 Score=42.16 Aligned_cols=20 Identities=30% Similarity=0.556 Sum_probs=18.0
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
+++|.|.+|+|||+++..++
T Consensus 2 kv~liG~~~vGKSsL~~~l~ 21 (142)
T TIGR02528 2 RIMFIGSVGCGKTTLTQALQ 21 (142)
T ss_pred eEEEECCCCCCHHHHHHHHc
Confidence 58999999999999998765
No 271
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=90.09 E-value=0.4 Score=49.29 Aligned_cols=40 Identities=23% Similarity=0.243 Sum_probs=28.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHh---CCeEEEEecCccccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWARE---EGWLVLYVPRGREWT 231 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~---ngWIVL~IP~a~~wv 231 (404)
-+++.|+.|||||++|.-++.+-.. .+=.|+.+=++.++.
T Consensus 136 lilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~~ 178 (358)
T TIGR02524 136 IVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEFV 178 (358)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceEe
Confidence 4899999999999999887776432 233555566665554
No 272
>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily. This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali
Probab=90.06 E-value=0.3 Score=42.27 Aligned_cols=22 Identities=23% Similarity=0.229 Sum_probs=19.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~ 213 (404)
++++.|++|+|||+++..++.-
T Consensus 4 ki~i~G~~~~GKtsl~~~~~~~ 25 (164)
T cd04145 4 KLVVVGGGGVGKSALTIQFIQS 25 (164)
T ss_pred EEEEECCCCCcHHHHHHHHHhC
Confidence 5999999999999999887653
No 273
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=90.03 E-value=0.58 Score=47.18 Aligned_cols=52 Identities=17% Similarity=0.311 Sum_probs=35.2
Q ss_pred hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHH--hCCeEEEEecC
Q 045329 165 SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWAR--EEGWLVLYVPR 226 (404)
Q Consensus 165 ~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~--~ngWIVL~IP~ 226 (404)
...++++.++++... +. -++|+|++||||+++...+++... ..-|++|+-..
T Consensus 14 ~~~~~~~~i~~~a~~-----~~-----pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~ 67 (326)
T PRK11608 14 SFLEVLEQVSRLAPL-----DK-----PVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAA 67 (326)
T ss_pred HHHHHHHHHHHHhCC-----CC-----CEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCC
Confidence 566777777776321 12 289999999999987765554443 23588887654
No 274
>cd01862 Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-
Probab=90.03 E-value=0.28 Score=42.76 Aligned_cols=22 Identities=18% Similarity=0.291 Sum_probs=19.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~ 213 (404)
++++.|++|||||+++..+...
T Consensus 2 ki~viG~~~~GKSsl~~~l~~~ 23 (172)
T cd01862 2 KVIILGDSGVGKTSLMNQYVNK 23 (172)
T ss_pred EEEEECCCCCCHHHHHHHHhcC
Confidence 4899999999999999887653
No 275
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=90.02 E-value=0.42 Score=50.20 Aligned_cols=33 Identities=30% Similarity=0.263 Sum_probs=26.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH--hCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR--EEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~--~ngWIVL~I 224 (404)
.++|.|+.|+|||++++.+.+++. ..|.=|..|
T Consensus 223 ~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li 257 (424)
T PRK05703 223 VVALVGPTGVGKTTTLAKLAARYALLYGKKKVALI 257 (424)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEE
Confidence 589999999999999999888765 456555555
No 276
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=90.00 E-value=0.26 Score=50.08 Aligned_cols=22 Identities=32% Similarity=0.548 Sum_probs=17.5
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++|+|++|||||++...+..
T Consensus 157 ~gvLL~GppGtGKT~lakaia~ 178 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLLAKAVAH 178 (364)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 4599999999999977655543
No 277
>cd04113 Rab4 Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p
Probab=89.87 E-value=0.3 Score=42.43 Aligned_cols=21 Identities=29% Similarity=0.381 Sum_probs=18.8
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++-|+.|+|||+++.+++.
T Consensus 2 ki~v~G~~~vGKTsli~~l~~ 22 (161)
T cd04113 2 KFIIIGSSGTGKSCLLHRFVE 22 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999999863
No 278
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=89.84 E-value=0.23 Score=46.20 Aligned_cols=22 Identities=32% Similarity=0.333 Sum_probs=19.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A 214 (404)
++++|.+|||||+.+..++.-.
T Consensus 1 ~vv~G~pGsGKSt~i~~~~~~~ 22 (234)
T PF01443_consen 1 IVVHGVPGSGKSTLIKKLLKDR 22 (234)
T ss_pred CEEEcCCCCCHHHHHHHHHHhc
Confidence 4899999999999999888774
No 279
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=89.83 E-value=0.27 Score=41.96 Aligned_cols=19 Identities=32% Similarity=0.392 Sum_probs=17.9
Q ss_pred EEEECCCCCcHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav 211 (404)
++|.|..|+|||+++..+.
T Consensus 2 i~l~G~~g~GKTtL~~~l~ 20 (170)
T cd01876 2 IAFAGRSNVGKSSLINALT 20 (170)
T ss_pred EEEEcCCCCCHHHHHHHHh
Confidence 7899999999999999887
No 280
>PRK00131 aroK shikimate kinase; Reviewed
Probab=89.82 E-value=0.41 Score=42.15 Aligned_cols=30 Identities=30% Similarity=0.331 Sum_probs=22.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.++|.|.+|||||++...+.... |+.++..
T Consensus 6 ~i~l~G~~GsGKstla~~La~~l---~~~~~d~ 35 (175)
T PRK00131 6 NIVLIGFMGAGKSTIGRLLAKRL---GYDFIDT 35 (175)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHh---CCCEEEC
Confidence 49999999999999976654433 6655543
No 281
>PTZ00088 adenylate kinase 1; Provisional
Probab=89.78 E-value=0.37 Score=46.43 Aligned_cols=34 Identities=24% Similarity=0.227 Sum_probs=26.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
.|++|.|++||||||.-.++ |..-|+.++.+-+.
T Consensus 7 mrIvl~G~PGsGK~T~a~~L---a~~~g~~~is~gdl 40 (229)
T PTZ00088 7 LKIVLFGAPGVGKGTFAEIL---SKKENLKHINMGNI 40 (229)
T ss_pred ceEEEECCCCCCHHHHHHHH---HHHhCCcEEECChH
Confidence 35999999999999877665 44558888877654
No 282
>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=89.78 E-value=0.31 Score=42.87 Aligned_cols=21 Identities=29% Similarity=0.384 Sum_probs=18.7
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|-|.+|||||+++.+++.
T Consensus 2 ki~vvG~~~vGKTsli~~~~~ 22 (161)
T cd04124 2 KIILLGDSAVGKSKLVERFLM 22 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999988764
No 283
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=89.77 E-value=0.22 Score=48.85 Aligned_cols=30 Identities=27% Similarity=0.521 Sum_probs=21.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLV 221 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIV 221 (404)
-+.|-|+.||||||+|.=+.-.-. ..|=|.
T Consensus 31 fvsilGpSGcGKSTLLriiAGL~~p~~G~V~ 61 (248)
T COG1116 31 FVAILGPSGCGKSTLLRLIAGLEKPTSGEVL 61 (248)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCceEE
Confidence 478999999999999976655433 334433
No 284
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=89.73 E-value=0.54 Score=43.72 Aligned_cols=33 Identities=15% Similarity=0.055 Sum_probs=27.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-+.+.|+.|||||+++..++..-...|+-|-.|
T Consensus 8 ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~I 40 (173)
T PRK10751 8 LLAIAAWSGTGKTTLLKKLIPALCARGIRPGLI 40 (173)
T ss_pred EEEEECCCCChHHHHHHHHHHHHhhcCCeEEEE
Confidence 478999999999999999999877778655444
No 285
>PRK13973 thymidylate kinase; Provisional
Probab=89.72 E-value=0.56 Score=44.13 Aligned_cols=39 Identities=26% Similarity=0.304 Sum_probs=33.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREW 230 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~w 230 (404)
=++|.|..||||||....+..|-...|.-|++.+.+..+
T Consensus 5 ~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~~p~~~ 43 (213)
T PRK13973 5 FITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTREPGGS 43 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEECCCCC
Confidence 388999999999999999999998888888888666443
No 286
>PRK04040 adenylate kinase; Provisional
Probab=89.70 E-value=0.31 Score=45.38 Aligned_cols=34 Identities=18% Similarity=0.263 Sum_probs=24.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
.++|+|.+|||||+++..+...-- .+.-+++..+
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~l~-~~~~~~~~g~ 37 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEKLK-EDYKIVNFGD 37 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHhc-cCCeEEecch
Confidence 589999999999999988766432 2555555433
No 287
>cd01868 Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP
Probab=89.67 E-value=0.31 Score=42.47 Aligned_cols=20 Identities=40% Similarity=0.405 Sum_probs=18.5
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|++|||||+++.++.
T Consensus 5 ki~vvG~~~~GKSsli~~l~ 24 (165)
T cd01868 5 KIVLIGDSGVGKSNLLSRFT 24 (165)
T ss_pred EEEEECCCCCCHHHHHHHHh
Confidence 58999999999999999886
No 288
>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=89.67 E-value=0.31 Score=46.16 Aligned_cols=31 Identities=35% Similarity=0.561 Sum_probs=25.5
Q ss_pred EEEECCCCCcHHHHHHHHHH-HHHhCCeEEEE
Q 045329 193 IVLDGPLCCGKSITLAMLVH-WAREEGWLVLY 223 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~-~A~~ngWIVL~ 223 (404)
++|+|+.|+|||++|..+.. |.-..|-|.+-
T Consensus 40 vvL~G~SG~GKStllr~LYaNY~~d~G~I~v~ 71 (235)
T COG4778 40 VVLHGPSGSGKSTLLRSLYANYLPDEGQILVR 71 (235)
T ss_pred EEeeCCCCCcHHHHHHHHHhccCCCCceEEEE
Confidence 89999999999999988776 66667766553
No 289
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=89.65 E-value=0.39 Score=43.82 Aligned_cols=28 Identities=32% Similarity=0.348 Sum_probs=22.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+.|+|..|||||++...+.. .|..|+..
T Consensus 2 i~itG~~gsGKst~~~~l~~----~g~~~i~~ 29 (179)
T cd02022 2 IGLTGGIGSGKSTVAKLLKE----LGIPVIDA 29 (179)
T ss_pred EEEECCCCCCHHHHHHHHHH----CCCCEEec
Confidence 68999999999999988766 47666654
No 290
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=89.62 E-value=0.27 Score=44.97 Aligned_cols=22 Identities=27% Similarity=0.279 Sum_probs=19.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.+++|.|..|||||++|..++.
T Consensus 42 ~~I~iiG~~g~GKStLl~~l~~ 63 (204)
T cd01878 42 PTVALVGYTNAGKSTLFNALTG 63 (204)
T ss_pred CeEEEECCCCCCHHHHHHHHhc
Confidence 4699999999999999988765
No 291
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=89.61 E-value=0.29 Score=51.03 Aligned_cols=22 Identities=27% Similarity=0.536 Sum_probs=17.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
+.++|+|++|||||++...+..
T Consensus 180 kgvLL~GppGTGKT~LAkalA~ 201 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAH 201 (398)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 4699999999999998755433
No 292
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=89.60 E-value=0.6 Score=42.74 Aligned_cols=32 Identities=25% Similarity=0.185 Sum_probs=27.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+.|+|-+|||||++-..+...-+..|+=|.++
T Consensus 5 IwltGlsGsGKtTlA~~L~~~L~~~g~~~~~L 36 (156)
T PF01583_consen 5 IWLTGLSGSGKTTLARALERRLFARGIKVYLL 36 (156)
T ss_dssp EEEESSTTSSHHHHHHHHHHHHHHTTS-EEEE
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence 78999999999988888888888889887777
No 293
>cd01860 Rab5_related Rab5-related subfamily. This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo
Probab=89.55 E-value=0.33 Score=42.06 Aligned_cols=21 Identities=33% Similarity=0.404 Sum_probs=18.8
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|+.|||||+++.++..
T Consensus 3 ki~v~G~~~~GKSsli~~l~~ 23 (163)
T cd01860 3 KLVLLGDSSVGKSSLVLRFVK 23 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHc
Confidence 589999999999999988764
No 294
>cd01866 Rab2 Rab2 subfamily. Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur
Probab=89.54 E-value=0.32 Score=42.97 Aligned_cols=20 Identities=25% Similarity=0.316 Sum_probs=18.4
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|.+|+|||++|.++.
T Consensus 6 ki~vvG~~~vGKSsLl~~l~ 25 (168)
T cd01866 6 KYIIIGDTGVGKSCLLLQFT 25 (168)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 59999999999999999875
No 295
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=89.50 E-value=0.53 Score=50.80 Aligned_cols=27 Identities=7% Similarity=0.100 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhcCCCC-cEEEEEeCcc
Q 045329 317 VGVVVRLRKELSLVKDI-PVLIAIDQYN 343 (404)
Q Consensus 317 ~~v~~aLl~EL~~q~~~-PVLvAVD~~N 343 (404)
+..|..++++....+++ |++|.|-+.+
T Consensus 149 ~~~f~~~L~~~l~~~~~~PlV~iiSe~~ 176 (519)
T PF03215_consen 149 TSRFREALRQYLRSSRCLPLVFIISETE 176 (519)
T ss_pred HHHHHHHHHHHHHcCCCCCEEEEEeccc
Confidence 36788888998888888 9999998654
No 296
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=89.46 E-value=0.26 Score=45.25 Aligned_cols=27 Identities=33% Similarity=0.187 Sum_probs=23.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE 217 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n 217 (404)
-++++.|..|+|||+++.+++.+-...
T Consensus 6 ~kivv~G~~g~GKTtl~~~l~~~~~~~ 32 (219)
T COG1100 6 FKIVVLGDGGVGKTTLLNRLVGDEFPE 32 (219)
T ss_pred EEEEEEcCCCccHHHHHHHHhcCcCcc
Confidence 369999999999999999999876653
No 297
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=89.42 E-value=0.48 Score=48.54 Aligned_cols=38 Identities=32% Similarity=0.323 Sum_probs=30.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHH-hCCeEEEEecCcccc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAR-EEGWLVLYVPRGREW 230 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL~IP~a~~w 230 (404)
.+|.|..|+|||++...+..+.. ..||-|..+..-..+
T Consensus 2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~i 40 (340)
T TIGR03575 2 CVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDII 40 (340)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcccccc
Confidence 58999999999999999988876 689988777554433
No 298
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=89.42 E-value=0.19 Score=51.48 Aligned_cols=97 Identities=14% Similarity=0.161 Sum_probs=53.4
Q ss_pred cccCCCccccCccccceeEEeCHHHHHhhccC---CCCcchhhhccccCceeEEEchhHHHHHHHHHHhcCCCccCCCCC
Q 045329 111 FTKTTSLSLLTRKDACTYFKFSEDELNAMLPE---GLPTGMLGEFKDSMRYALLVRQSFLDIRDNFRRIVDPSLQSTNGP 187 (404)
Q Consensus 111 ~~~~~~~~~ht~~~vGk~y~~p~e~~k~l~~~---GLp~~~~kqfe~f~~p~~LVRk~tleLi~~L~~~~d~~~~std~~ 187 (404)
|.+..+....+..++.++..++.+...+++.. .++..+..--+.+.....+.|=+|- +..|.+.+.... +
T Consensus 49 ~~T~~~~~~~~~~~L~~i~~is~~~~~~~~~~~~~~~~~~~~ta~~~~~~~~~~~~i~tG--~~~LD~lL~GG~-----~ 121 (342)
T PLN03186 49 IHTVESLAYAPKKDLLQIKGISEAKVEKILEAASKLVPLGFTTASQLHAQRQEIIQITTG--SRELDKILEGGI-----E 121 (342)
T ss_pred CCcHHHHHhCCHHHHHHhcCCCHHHHHHHHHHHHHhcccccchHHHHhhcccCcceeCCC--CHHHHHhhcCCC-----c
Confidence 56666788888889999999998877654332 2332222111122111111111110 122333332211 1
Q ss_pred ccceeEEEECCCCCcHHHHHHHHHHHHH
Q 045329 188 KIRKQIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 188 ~~r~r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
. ..-+.|+|++|||||.+..|+...+.
T Consensus 122 ~-g~i~~i~G~~g~GKT~l~~~l~~~~~ 148 (342)
T PLN03186 122 T-GSITEIYGEFRTGKTQLCHTLCVTCQ 148 (342)
T ss_pred C-ceEEEEECCCCCCccHHHHHHHHHhh
Confidence 1 12378999999999999998876654
No 299
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=89.36 E-value=0.45 Score=53.41 Aligned_cols=33 Identities=24% Similarity=0.169 Sum_probs=29.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-++|+|.+|||||++|..++..+..+|+-|+.+
T Consensus 370 ~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ 402 (744)
T TIGR02768 370 IAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGA 402 (744)
T ss_pred EEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 479999999999999999999888888877665
No 300
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=89.34 E-value=0.48 Score=51.44 Aligned_cols=40 Identities=18% Similarity=0.220 Sum_probs=30.2
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccccc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTH 232 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvn 232 (404)
++++|+.||||||+|..++.+.-..+--|+.|=++-++..
T Consensus 319 ilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~~~ 358 (564)
T TIGR02538 319 VLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEINL 358 (564)
T ss_pred EEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCceecC
Confidence 7899999999999998888876444445666666655543
No 301
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=89.31 E-value=0.85 Score=46.54 Aligned_cols=39 Identities=18% Similarity=0.245 Sum_probs=28.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCccccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWT 231 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wv 231 (404)
.+++.|+.|||||++|..++.+-. ...=++.|-+..++.
T Consensus 180 ~ili~G~tGsGKTTll~al~~~i~-~~~riv~iEd~~El~ 218 (340)
T TIGR03819 180 AFLISGGTGSGKTTLLSALLALVA-PDERIVLVEDAAELR 218 (340)
T ss_pred eEEEECCCCCCHHHHHHHHHccCC-CCCcEEEECCcceec
Confidence 499999999999999987776543 334455666665553
No 302
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=89.26 E-value=0.52 Score=48.92 Aligned_cols=27 Identities=33% Similarity=0.343 Sum_probs=23.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEG 218 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ng 218 (404)
-++|.|+.|+|||++++.+.+++. ..|
T Consensus 139 ii~lvGptGvGKTTtiakLA~~~~~~~G 166 (374)
T PRK14722 139 VFALMGPTGVGKTTTTAKLAARCVMRFG 166 (374)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHhcC
Confidence 489999999999999999998764 445
No 303
>cd04140 ARHI_like ARHI subfamily. ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to
Probab=89.25 E-value=0.35 Score=42.52 Aligned_cols=20 Identities=30% Similarity=0.318 Sum_probs=18.1
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|.+|+|||+++.+++
T Consensus 3 kv~~vG~~~vGKTsli~~~~ 22 (165)
T cd04140 3 RVVVFGAGGVGKSSLVLRFV 22 (165)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 58999999999999998765
No 304
>cd01864 Rab19 Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=89.24 E-value=0.35 Score=42.32 Aligned_cols=22 Identities=23% Similarity=0.270 Sum_probs=19.1
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.++++.|+.|+|||+++.++..
T Consensus 4 ~kv~vvG~~~~GKTsli~~l~~ 25 (165)
T cd01864 4 FKIILIGDSNVGKTCVVQRFKS 25 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhh
Confidence 3589999999999999998754
No 305
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=89.23 E-value=0.33 Score=44.67 Aligned_cols=22 Identities=23% Similarity=0.234 Sum_probs=19.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~ 213 (404)
.++|.|+.|||||+++..+...
T Consensus 5 ~i~l~G~sGsGKSTl~~~la~~ 26 (176)
T PRK09825 5 SYILMGVSGSGKSLIGSKIAAL 26 (176)
T ss_pred EEEEECCCCCCHHHHHHHHHHh
Confidence 4899999999999999877664
No 306
>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=89.22 E-value=0.4 Score=51.67 Aligned_cols=22 Identities=32% Similarity=0.667 Sum_probs=17.2
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++|+|++|||||++...+..
T Consensus 217 ~GILLyGPPGTGKT~LAKAlA~ 238 (512)
T TIGR03689 217 KGVLLYGPPGCGKTLIAKAVAN 238 (512)
T ss_pred cceEEECCCCCcHHHHHHHHHH
Confidence 4699999999999986544443
No 307
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=89.10 E-value=0.8 Score=45.04 Aligned_cols=19 Identities=16% Similarity=0.170 Sum_probs=15.5
Q ss_pred EEEECCCCCcHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav 211 (404)
++|+|++|+|||+++..+.
T Consensus 46 lll~G~~G~GKT~la~~l~ 64 (316)
T PHA02544 46 LLHSPSPGTGKTTVAKALC 64 (316)
T ss_pred EEeeCcCCCCHHHHHHHHH
Confidence 6669999999999865553
No 308
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=89.04 E-value=0.84 Score=39.83 Aligned_cols=35 Identities=20% Similarity=0.447 Sum_probs=25.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCC---eEEEEecC
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEG---WLVLYVPR 226 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ng---WIVL~IP~ 226 (404)
.+++.|+.|+|||.+....+.....++ -+++-+|.
T Consensus 16 ~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~ 53 (169)
T PF00270_consen 16 NVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPT 53 (169)
T ss_dssp EEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESS
T ss_pred CEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeec
Confidence 389999999999999987776555443 34444454
No 309
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=89.02 E-value=0.56 Score=49.44 Aligned_cols=33 Identities=30% Similarity=0.385 Sum_probs=27.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL~I 224 (404)
-+++.|.+|+|||++.+.+..++. ++|.=|+.|
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV 134 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLV 134 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Confidence 488999999999999999999866 567766655
No 310
>PRK06217 hypothetical protein; Validated
Probab=88.98 E-value=0.39 Score=43.88 Aligned_cols=31 Identities=19% Similarity=0.082 Sum_probs=23.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
+++|.|..|||||++-.++... -|+-+++.-
T Consensus 3 ~I~i~G~~GsGKSTla~~L~~~---l~~~~~~~D 33 (183)
T PRK06217 3 RIHITGASGSGTTTLGAALAER---LDIPHLDTD 33 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHH---cCCcEEEcC
Confidence 5999999999999988777653 365555543
No 311
>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=88.98 E-value=0.37 Score=51.15 Aligned_cols=32 Identities=25% Similarity=0.397 Sum_probs=21.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
+.++|+|++|||||++..-+. .+-+.-++++.
T Consensus 89 ~giLL~GppGtGKT~la~alA---~~~~~~~~~i~ 120 (495)
T TIGR01241 89 KGVLLVGPPGTGKTLLAKAVA---GEAGVPFFSIS 120 (495)
T ss_pred CcEEEECCCCCCHHHHHHHHH---HHcCCCeeecc
Confidence 459999999999999876553 33344444443
No 312
>PRK06547 hypothetical protein; Provisional
Probab=88.93 E-value=0.48 Score=43.59 Aligned_cols=31 Identities=19% Similarity=0.361 Sum_probs=23.1
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
..++|+|..|||||++...+..- -|+.+++.
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~~---~~~~~~~~ 46 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAAR---TGFQLVHL 46 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH---hCCCeecc
Confidence 45899999999999998776653 35555544
No 313
>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.92 E-value=0.32 Score=45.02 Aligned_cols=24 Identities=21% Similarity=0.220 Sum_probs=21.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
++++.|+.|+|||++|.|.+.--+
T Consensus 11 Kfl~iG~aGtGKSCLLh~Fie~kf 34 (214)
T KOG0086|consen 11 KFLVIGSAGTGKSCLLHQFIENKF 34 (214)
T ss_pred eeEEeccCCCChhHHHHHHHHhhh
Confidence 389999999999999999987655
No 314
>cd04114 Rab30 Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=88.91 E-value=0.39 Score=41.96 Aligned_cols=22 Identities=27% Similarity=0.303 Sum_probs=19.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.++++.|..|||||+++.++..
T Consensus 8 ~~v~v~G~~~~GKSsli~~l~~ 29 (169)
T cd04114 8 FKIVLIGNAGVGKTCLVRRFTQ 29 (169)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 4699999999999999999764
No 315
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to
Probab=88.87 E-value=0.38 Score=42.38 Aligned_cols=20 Identities=25% Similarity=0.365 Sum_probs=18.0
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|++|+|||+++.+.+
T Consensus 2 ki~vvG~~~~GKTsli~~~~ 21 (161)
T cd04117 2 RLLLIGDSGVGKTCLLCRFT 21 (161)
T ss_pred EEEEECcCCCCHHHHHHHHh
Confidence 48999999999999998875
No 316
>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]
Probab=88.85 E-value=0.31 Score=48.03 Aligned_cols=25 Identities=24% Similarity=0.302 Sum_probs=21.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHh
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWARE 216 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ 216 (404)
+++|+|+.|+|||++|.-+..+=..
T Consensus 59 ~W~I~G~NGsGKTTLL~ll~~~~~p 83 (257)
T COG1119 59 HWAIVGPNGAGKTTLLSLLTGEHPP 83 (257)
T ss_pred cEEEECCCCCCHHHHHHHHhcccCC
Confidence 5999999999999999988876443
No 317
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=88.81 E-value=0.41 Score=43.08 Aligned_cols=22 Identities=27% Similarity=0.374 Sum_probs=19.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.+++|.|..|+|||++++++..
T Consensus 19 ~~i~ivG~~~~GKStlin~l~~ 40 (179)
T TIGR03598 19 PEIAFAGRSNVGKSSLINALTN 40 (179)
T ss_pred CEEEEEcCCCCCHHHHHHHHhC
Confidence 5799999999999999998764
No 318
>cd04123 Rab21 Rab21 subfamily. The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site
Probab=88.79 E-value=0.41 Score=40.98 Aligned_cols=21 Identities=29% Similarity=0.294 Sum_probs=18.8
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|..|+|||+++.+++.
T Consensus 2 ki~i~G~~~~GKStli~~l~~ 22 (162)
T cd04123 2 KVVLLGEGRVGKTSLVLRYVE 22 (162)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999988875
No 319
>cd04134 Rho3 Rho3 subfamily. Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=88.75 E-value=0.38 Score=43.78 Aligned_cols=21 Identities=29% Similarity=0.562 Sum_probs=18.9
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|+.|||||+++.+...
T Consensus 2 kivivG~~~vGKTsli~~~~~ 22 (189)
T cd04134 2 KVVVLGDGACGKTSLLNVFTR 22 (189)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 589999999999999998764
No 320
>PRK14528 adenylate kinase; Provisional
Probab=88.75 E-value=0.43 Score=44.00 Aligned_cols=30 Identities=20% Similarity=0.284 Sum_probs=21.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
++++.|++|||||++...+. ..-|+.++.+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la---~~~~~~~is~ 32 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILC---ERLSIPQIST 32 (186)
T ss_pred EEEEECCCCCCHHHHHHHHH---HHhCCCeeeC
Confidence 59999999999999876653 2236555444
No 321
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=88.75 E-value=0.39 Score=44.56 Aligned_cols=22 Identities=18% Similarity=0.191 Sum_probs=18.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
-+++|.|+.|||||+++.+.+.
T Consensus 10 ~kv~liG~~g~GKTtLi~~~~~ 31 (215)
T PTZ00132 10 FKLILVGDGGVGKTTFVKRHLT 31 (215)
T ss_pred ceEEEECCCCCCHHHHHHHHHh
Confidence 4599999999999999976553
No 322
>cd01865 Rab3 Rab3 subfamily. The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot
Probab=88.71 E-value=0.4 Score=42.15 Aligned_cols=21 Identities=19% Similarity=0.265 Sum_probs=18.6
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++-|+.|+|||+++.+++.
T Consensus 3 ki~i~G~~~~GKSsli~~l~~ 23 (165)
T cd01865 3 KLLIIGNSSVGKTSFLFRYAD 23 (165)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 589999999999999988764
No 323
>cd04122 Rab14 Rab14 subfamily. Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT
Probab=88.70 E-value=0.4 Score=42.10 Aligned_cols=21 Identities=24% Similarity=0.379 Sum_probs=18.6
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|..|||||+++.++..
T Consensus 4 ki~iiG~~~vGKTsli~~~~~ 24 (166)
T cd04122 4 KYIIIGDMGVGKSCLLHQFTE 24 (166)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 589999999999999998753
No 324
>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional
Probab=88.69 E-value=0.47 Score=47.41 Aligned_cols=33 Identities=21% Similarity=0.305 Sum_probs=26.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGR 228 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~ 228 (404)
-++|+|..|||||+++..+- ..||.++.-+...
T Consensus 8 ~i~i~G~~GsGKtt~~~~l~----~~g~~~~d~~~~~ 40 (288)
T PRK05416 8 LVIVTGLSGAGKSVALRALE----DLGYYCVDNLPPS 40 (288)
T ss_pred EEEEECCCCCcHHHHHHHHH----HcCCeEECCcCHH
Confidence 48999999999999998873 5588887655444
No 325
>cd04127 Rab27A Rab27a subfamily. The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated
Probab=88.68 E-value=0.4 Score=42.52 Aligned_cols=23 Identities=17% Similarity=0.056 Sum_probs=19.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~ 213 (404)
-++++.|+.|||||+++.+....
T Consensus 5 ~ki~ivG~~~vGKTsli~~~~~~ 27 (180)
T cd04127 5 IKFLALGDSGVGKTSFLYQYTDN 27 (180)
T ss_pred EEEEEECCCCCCHHHHHHHHhcC
Confidence 35999999999999999887653
No 326
>cd04135 Tc10 TC10 subfamily. TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti
Probab=88.68 E-value=0.41 Score=42.14 Aligned_cols=21 Identities=24% Similarity=0.268 Sum_probs=18.2
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|..|+|||+++.+...
T Consensus 2 ki~i~G~~~~GKTsl~~~~~~ 22 (174)
T cd04135 2 KCVVVGDGAVGKTCLLMSYAN 22 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999977654
No 327
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=88.68 E-value=0.51 Score=40.93 Aligned_cols=29 Identities=28% Similarity=0.323 Sum_probs=22.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
++|.|.+|||||++...+.. .-||..+..
T Consensus 2 i~l~G~~GsGKstla~~la~---~l~~~~~~~ 30 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAK---ALGLPFVDL 30 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHH---HhCCCEEEc
Confidence 79999999999999877743 337776643
No 328
>cd04118 Rab24 Rab24 subfamily. Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita
Probab=88.67 E-value=0.41 Score=43.21 Aligned_cols=21 Identities=29% Similarity=0.442 Sum_probs=19.1
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|..|+|||+++.+++.
T Consensus 2 ki~vvG~~~vGKSsLi~~~~~ 22 (193)
T cd04118 2 KVVMLGKESVGKTSLVERYVH 22 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 589999999999999999874
No 329
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=88.66 E-value=0.63 Score=51.12 Aligned_cols=30 Identities=13% Similarity=0.076 Sum_probs=24.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLV 221 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIV 221 (404)
.|+++|++|+|||++..-+..+....+|..
T Consensus 40 A~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~ 69 (605)
T PRK05896 40 AYIFSGPRGIGKTSIAKIFAKAINCLNPKD 69 (605)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhcCCCCCC
Confidence 499999999999998877777666666643
No 330
>cd04157 Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A
Probab=88.64 E-value=0.34 Score=41.78 Aligned_cols=21 Identities=24% Similarity=0.268 Sum_probs=18.4
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|..|||||+++.++..
T Consensus 1 ~i~~vG~~~~GKTsl~~~l~~ 21 (162)
T cd04157 1 NILVVGLDNSGKTTIINQLKP 21 (162)
T ss_pred CEEEECCCCCCHHHHHHHHcc
Confidence 378999999999999988764
No 331
>PRK14526 adenylate kinase; Provisional
Probab=88.64 E-value=0.43 Score=45.38 Aligned_cols=29 Identities=24% Similarity=0.382 Sum_probs=20.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
+++|.|++|||||++...+. ..-||..+.
T Consensus 2 ~i~l~G~pGsGKsT~a~~La---~~~~~~~is 30 (211)
T PRK14526 2 KLVFLGPPGSGKGTIAKILS---NELNYYHIS 30 (211)
T ss_pred EEEEECCCCCCHHHHHHHHH---HHhCCceee
Confidence 48999999999999876654 233554443
No 332
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=88.61 E-value=0.51 Score=46.07 Aligned_cols=30 Identities=17% Similarity=0.015 Sum_probs=23.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhC-CeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREE-GWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~n-gWIVL~I 224 (404)
-++|.|.+|||||++-.++.. .. +|++|..
T Consensus 4 liil~G~pGSGKSTla~~L~~---~~~~~~~l~~ 34 (300)
T PHA02530 4 IILTVGVPGSGKSTWAREFAA---KNPKAVNVNR 34 (300)
T ss_pred EEEEEcCCCCCHHHHHHHHHH---HCCCCEEEec
Confidence 388999999999998877543 33 7877754
No 333
>PRK14527 adenylate kinase; Provisional
Probab=88.58 E-value=0.35 Score=44.37 Aligned_cols=30 Identities=30% Similarity=0.365 Sum_probs=22.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.+++.|++|||||++..++ |.+.|+..+..
T Consensus 8 ~i~i~G~pGsGKsT~a~~L---a~~~~~~~is~ 37 (191)
T PRK14527 8 VVIFLGPPGAGKGTQAERL---AQELGLKKLST 37 (191)
T ss_pred EEEEECCCCCCHHHHHHHH---HHHhCCCCCCc
Confidence 5999999999999987776 33446655443
No 334
>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=88.57 E-value=0.44 Score=44.67 Aligned_cols=21 Identities=19% Similarity=0.376 Sum_probs=17.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A 214 (404)
++|.|+.|+|||++|. ++.||
T Consensus 25 ~~i~G~NGsGKTTLl~-ai~~~ 45 (204)
T cd03240 25 TLIVGQNGAGKTTIIE-ALKYA 45 (204)
T ss_pred EEEECCCCCCHHHHHH-HHHHH
Confidence 7999999999999995 55544
No 335
>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.56 E-value=0.56 Score=55.06 Aligned_cols=136 Identities=20% Similarity=0.208 Sum_probs=73.9
Q ss_pred eEEEECCCCCcHHHHHHHHHH---HHHhCCeEEEEec---CcccccccC-eeecCCCCCCccCH-----HHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH---WAREEGWLVLYVP---RGREWTHGG-YFYKNPQTGLWDTP-----LQAENVLKDFI 259 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~---~A~~ngWIVL~IP---~a~~wvng~-~~y~~~~~g~ydQP-----~~A~~~Lk~fl 259 (404)
=|++.|++|||||++|...-. ++..-|=.-+-.+ +|. |--+. ..+-+ ..|+|..+ ....+|+.-+
T Consensus 127 Wy~viG~pgsGKTtal~~sgl~Fpl~~~~~~~~~~~~gT~~cd-wwf~deaVlID-taGry~~q~s~~~~~~~~W~~fL- 203 (1188)
T COG3523 127 WYMVIGPPGSGKTTALLNSGLQFPLAEQMGALGLAGPGTRNCD-WWFTDEAVLID-TAGRYITQDSADEVDRAEWLGFL- 203 (1188)
T ss_pred ceEEecCCCCCcchHHhcccccCcchhhhccccccCCCCcccC-cccccceEEEc-CCcceecccCcchhhHHHHHHHH-
Confidence 389999999999999976432 2222222222222 222 32111 11112 36888888 6678887655
Q ss_pred HHhHHHHhcCCcccccCCCCCCCCccccccCCCccccCCCCCHHHHHHhhcccccchHHHHHHHHHHHhc--CCCCcEEE
Q 045329 260 KYNESHLRELPCQILDPIPLGEGAGVGLLKGVDSKEISEGSTLFDLVQMGINQMHASVGVVVRLRKELSL--VKDIPVLI 337 (404)
Q Consensus 260 ~~N~~~LkkLkls~~~~~~lge~~~~~w~K~~d~~~~p~g~tL~DLv~~Gi~~~~~A~~v~~aLl~EL~~--q~~~PVLv 337 (404)
..|++..-.+ ++. |+.++ .++.||...--......+.++-.=++||.. +-++||.|
T Consensus 204 ----~lLkk~R~~~--piN-----Giilt-----------lsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl 261 (1188)
T COG3523 204 ----GLLKKYRRRR--PLN-----GIILT-----------LSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYL 261 (1188)
T ss_pred ----HHHHHhccCC--CCc-----eEEEE-----------EEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEE
Confidence 4555542211 211 12221 345566543222222235567666788887 67999988
Q ss_pred EEeCcccccCcCCcC
Q 045329 338 AIDQYNNWFTFSEYE 352 (404)
Q Consensus 338 AVD~~Nalf~~S~Y~ 352 (404)
.+=...-+.++.+|.
T Consensus 262 ~lTk~Dll~GF~efF 276 (1188)
T COG3523 262 VLTKADLLPGFEEFF 276 (1188)
T ss_pred EEecccccccHHHHH
Confidence 876665555555553
No 336
>cd04125 RabA_like RabA-like subfamily. RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=88.55 E-value=0.41 Score=43.22 Aligned_cols=21 Identities=29% Similarity=0.384 Sum_probs=19.0
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|+.|||||+++.++..
T Consensus 2 ki~v~G~~~vGKSsli~~~~~ 22 (188)
T cd04125 2 KVVIIGDYGVGKSSLLKRFTE 22 (188)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 489999999999999999874
No 337
>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors. The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in
Probab=88.54 E-value=0.38 Score=45.21 Aligned_cols=31 Identities=16% Similarity=0.273 Sum_probs=24.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH----hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR----EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~----~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.-. ..|-|.+
T Consensus 35 ~~~l~G~nGsGKSTLlk~l~G~~~~~~~~~G~i~~ 69 (226)
T cd03234 35 VMAILGSSGSGKTTLLDAISGRVEGGGTTSGQILF 69 (226)
T ss_pred EEEEECCCCCCHHHHHHHHhCccCCCCCCceEEEE
Confidence 489999999999999987776543 5676654
No 338
>PRK14730 coaE dephospho-CoA kinase; Provisional
Probab=88.54 E-value=0.6 Score=43.62 Aligned_cols=35 Identities=26% Similarity=0.354 Sum_probs=26.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTH 232 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvn 232 (404)
.+.|+|..|||||++..++... -|+.|+ ++..+.+
T Consensus 3 ~i~itG~~gsGKst~~~~l~~~---~g~~~i---~~D~~~~ 37 (195)
T PRK14730 3 RIGLTGGIASGKSTVGNYLAQQ---KGIPIL---DADIYAR 37 (195)
T ss_pred EEEEECCCCCCHHHHHHHHHHh---hCCeEe---eCcHHHH
Confidence 5899999999999998876643 277776 4555543
No 339
>PRK14731 coaE dephospho-CoA kinase; Provisional
Probab=88.50 E-value=0.5 Score=44.45 Aligned_cols=28 Identities=21% Similarity=0.278 Sum_probs=22.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
.+.|+|..|||||+++..+.. .|+-|+.
T Consensus 7 ~igitG~igsGKSt~~~~l~~----~g~~v~d 34 (208)
T PRK14731 7 LVGVTGGIGSGKSTVCRFLAE----MGCELFE 34 (208)
T ss_pred EEEEECCCCCCHHHHHHHHHH----CCCeEEe
Confidence 377999999999999887664 4777766
No 340
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=88.48 E-value=0.66 Score=46.03 Aligned_cols=33 Identities=24% Similarity=0.223 Sum_probs=29.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
+.+.|.+||||||++.+++....+.| -|.+|=.
T Consensus 4 i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IKh 36 (274)
T PRK14493 4 LSIVGYKATGKTTLVERLVDRLSGRG-RVGTVKH 36 (274)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEEE
Confidence 78899999999999999999999988 6777743
No 341
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=88.47 E-value=0.42 Score=41.14 Aligned_cols=22 Identities=27% Similarity=0.277 Sum_probs=19.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.+++|.|..|+|||+++.+++.
T Consensus 3 ~~i~i~G~~~~GKstli~~l~~ 24 (174)
T cd01895 3 IRIAIIGRPNVGKSSLVNALLG 24 (174)
T ss_pred cEEEEEcCCCCCHHHHHHHHhC
Confidence 3599999999999999998863
No 342
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=88.47 E-value=0.37 Score=46.75 Aligned_cols=25 Identities=32% Similarity=0.465 Sum_probs=20.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
.+++|.|++||||||++.++--...
T Consensus 31 e~~~i~G~nGsGKSTL~~~l~GLl~ 55 (235)
T COG1122 31 ERVLLIGPNGSGKSTLLKLLNGLLK 55 (235)
T ss_pred CEEEEECCCCCCHHHHHHHHcCcCc
Confidence 3589999999999999988765544
No 343
>PRK13342 recombination factor protein RarA; Reviewed
Probab=88.45 E-value=0.59 Score=48.52 Aligned_cols=31 Identities=19% Similarity=0.280 Sum_probs=21.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
.++|+|++|||||++...+... ....|+.+.
T Consensus 38 ~ilL~GppGtGKTtLA~~ia~~-~~~~~~~l~ 68 (413)
T PRK13342 38 SMILWGPPGTGKTTLARIIAGA-TDAPFEALS 68 (413)
T ss_pred eEEEECCCCCCHHHHHHHHHHH-hCCCEEEEe
Confidence 4899999999999887766433 233444443
No 344
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=88.45 E-value=0.64 Score=41.15 Aligned_cols=43 Identities=16% Similarity=0.070 Sum_probs=27.3
Q ss_pred hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHH
Q 045329 165 SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 165 ~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~ 212 (404)
..-+|++.+.+..+.. ......++.+.|.+|+|||++++.+..
T Consensus 82 ~~~~L~~~l~~~~~~~-----~~~~~~~v~~~G~~nvGKStliN~l~~ 124 (157)
T cd01858 82 GKGSLIQLLRQFSKLH-----SDKKQISVGFIGYPNVGKSSIINTLRS 124 (157)
T ss_pred cHHHHHHHHHHHHhhh-----ccccceEEEEEeCCCCChHHHHHHHhc
Confidence 3455666666543210 001123477999999999999999863
No 345
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=88.45 E-value=0.34 Score=48.40 Aligned_cols=23 Identities=22% Similarity=0.432 Sum_probs=18.0
Q ss_pred eeEEEECCCCCcHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~ 213 (404)
++++|||++||||+|+.--+.++
T Consensus 190 rgvllygppg~gktml~kava~~ 212 (408)
T KOG0727|consen 190 RGVLLYGPPGTGKTMLAKAVANH 212 (408)
T ss_pred cceEEeCCCCCcHHHHHHHHhhc
Confidence 46999999999999876544443
No 346
>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).
Probab=88.31 E-value=0.52 Score=44.16 Aligned_cols=31 Identities=39% Similarity=0.564 Sum_probs=25.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH------HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA------REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A------~~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.- ...|.|.+
T Consensus 28 ~~~i~G~nGsGKSTLl~~i~G~~~~~~~~~~~G~i~~ 64 (227)
T cd03260 28 ITALIGPSGCGKSTLLRLLNRLNDLIPGAPDEGEVLL 64 (227)
T ss_pred EEEEECCCCCCHHHHHHHHHhhcccccCCCCCeEEEE
Confidence 48999999999999998777654 35688765
No 347
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=88.30 E-value=1 Score=40.17 Aligned_cols=39 Identities=21% Similarity=0.296 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHH
Q 045329 165 SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 165 ~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~ 213 (404)
.|.++.+.|-+.+.+ . .-++|.|+-|+|||++...++..
T Consensus 7 ~t~~l~~~l~~~l~~--------~--~~i~l~G~lGaGKTtl~~~l~~~ 45 (133)
T TIGR00150 7 AMDKFGKAFAKPLDF--------G--TVVLLKGDLGAGKTTLVQGLLQG 45 (133)
T ss_pred HHHHHHHHHHHhCCC--------C--CEEEEEcCCCCCHHHHHHHHHHH
Confidence 566777766654321 1 24899999999999888666553
No 348
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=88.26 E-value=0.32 Score=47.32 Aligned_cols=31 Identities=29% Similarity=0.393 Sum_probs=21.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngWIVL 222 (404)
.++|.|+.||||||+|.-+-..= ...|-|.+
T Consensus 30 vv~iiGpSGSGKSTlLRclN~LE~~~~G~I~i 61 (240)
T COG1126 30 VVVIIGPSGSGKSTLLRCLNGLEEPDSGSITV 61 (240)
T ss_pred EEEEECCCCCCHHHHHHHHHCCcCCCCceEEE
Confidence 37999999999999997655432 23455444
No 349
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=88.24 E-value=0.63 Score=52.05 Aligned_cols=36 Identities=28% Similarity=0.386 Sum_probs=29.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCC---eEEEEecCc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEG---WLVLYVPRG 227 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ng---WIVL~IP~a 227 (404)
-.+|+|.+|||||+++..++..+...| .|++.-|.+
T Consensus 340 ~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg 378 (720)
T TIGR01448 340 VVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTG 378 (720)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCch
Confidence 489999999999999999999887776 466666653
No 350
>PRK08506 replicative DNA helicase; Provisional
Probab=88.18 E-value=0.59 Score=49.70 Aligned_cols=33 Identities=15% Similarity=0.112 Sum_probs=29.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP 225 (404)
+||-|.+|+|||+++++++..|..+|+=|+++.
T Consensus 195 ivIaarpg~GKT~fal~ia~~~~~~g~~V~~fS 227 (472)
T PRK08506 195 IIIAARPSMGKTTLCLNMALKALNQDKGVAFFS 227 (472)
T ss_pred EEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEe
Confidence 899999999999999999998888899888873
No 351
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=88.17 E-value=0.46 Score=41.08 Aligned_cols=21 Identities=24% Similarity=0.360 Sum_probs=18.5
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|.+|+|||+++.++..
T Consensus 2 kv~~vG~~~~GKTsl~~~~~~ 22 (162)
T cd04106 2 KVIVVGNGNVGKSSMIQRFVK 22 (162)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 489999999999999988764
No 352
>COG1162 Predicted GTPases [General function prediction only]
Probab=88.16 E-value=0.44 Score=48.06 Aligned_cols=146 Identities=23% Similarity=0.227 Sum_probs=74.9
Q ss_pred hccccCceeEEEchhHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHHh-CCeEEEEecCccc
Q 045329 151 EFKDSMRYALLVRQSFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWARE-EGWLVLYVPRGRE 229 (404)
Q Consensus 151 qfe~f~~p~~LVRk~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~~-ngWIVL~IP~a~~ 229 (404)
..+.++-+.+++...+-+-+..|...+.. +-.+|.|+.|+|||++++.+.--... -|=|==..-.++.
T Consensus 136 ~y~~~gy~v~~~s~~~~~~~~~l~~~l~~-----------~~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkH 204 (301)
T COG1162 136 EYEDIGYPVLFVSAKNGDGLEELAELLAG-----------KITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRH 204 (301)
T ss_pred HHHhCCeeEEEecCcCcccHHHHHHHhcC-----------CeEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCC
Confidence 34567778888884433333333333211 13699999999999999998753221 1222111111111
Q ss_pred cc---------ccCeeecCC---CCCC-ccCHHHHHHHHHHHHHHhHHHHhcCCcccccCCCCCCCCccccccCCCcccc
Q 045329 230 WT---------HGGYFYKNP---QTGL-WDTPLQAENVLKDFIKYNESHLRELPCQILDPIPLGEGAGVGLLKGVDSKEI 296 (404)
Q Consensus 230 wv---------ng~~~y~~~---~~g~-ydQP~~A~~~Lk~fl~~N~~~LkkLkls~~~~~~lge~~~~~w~K~~d~~~~ 296 (404)
=| +|+.-+-.| .-|+ ..+|.....-...|... +.+-+-.. . ...-
T Consensus 205 TTt~~~l~~l~~gG~iiDTPGf~~~~l~~~~~e~l~~~F~ef~~~----~~~CkFr~--------C----------~H~~ 262 (301)
T COG1162 205 TTTHVELFPLPGGGWIIDTPGFRSLGLAHLEPEDLVQAFPEFAEL----ARQCKFRD--------C----------THTH 262 (301)
T ss_pred ccceEEEEEcCCCCEEEeCCCCCccCcccCCHHHHHHHhHHHHHH----hcCCCCCC--------C----------CCCC
Confidence 11 111111111 2344 45555555444444332 22222111 0 0123
Q ss_pred CCCCCHHHHHHhhcccccchHHHHHHHHHHHhcC
Q 045329 297 SEGSTLFDLVQMGINQMHASVGVVVRLRKELSLV 330 (404)
Q Consensus 297 p~g~tL~DLv~~Gi~~~~~A~~v~~aLl~EL~~q 330 (404)
++|..+.+.++.|--.+.+ .+-...+++||..+
T Consensus 263 EPgCav~~av~~g~i~~~R-y~~Y~kll~el~~~ 295 (301)
T COG1162 263 EPGCAVKAAVEEGEIAPER-YENYLKLLDELSGN 295 (301)
T ss_pred CCCcHHHHHHHcCCCCHHH-HHHHHHHHHHHHhh
Confidence 4688888899888544333 46678899999854
No 353
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=88.15 E-value=0.47 Score=40.30 Aligned_cols=21 Identities=33% Similarity=0.388 Sum_probs=18.3
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|+.|+|||+++..+..
T Consensus 3 ~i~l~G~~~~GKstli~~l~~ 23 (157)
T cd04164 3 KVVIVGKPNVGKSSLLNALAG 23 (157)
T ss_pred EEEEECCCCCCHHHHHHHHHC
Confidence 589999999999999987653
No 354
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=88.14 E-value=0.57 Score=52.41 Aligned_cols=37 Identities=32% Similarity=0.566 Sum_probs=30.5
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCe-EEEEecCc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGW-LVLYVPRG 227 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngW-IVL~IP~a 227 (404)
..++|.|-.|||||++|.+++.+++..|. .|||=|.+
T Consensus 186 ~H~li~GttGSGKS~~i~~LL~~ir~RGdrAIIyD~~G 223 (732)
T PRK13700 186 QNFCLHGTVGAGKSEVIRRLANYARQRGDMVVIYDRSG 223 (732)
T ss_pred cceEEeCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCC
Confidence 46999999999999999999999998865 45554544
No 355
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu
Probab=88.13 E-value=0.41 Score=41.45 Aligned_cols=21 Identities=29% Similarity=0.252 Sum_probs=18.3
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|.+|||||+++.++..
T Consensus 1 ki~iiG~~~~GKssli~~~~~ 21 (158)
T cd00878 1 RILILGLDGAGKTTILYKLKL 21 (158)
T ss_pred CEEEEcCCCCCHHHHHHHHhc
Confidence 379999999999999888763
No 356
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.12 E-value=0.79 Score=46.41 Aligned_cols=26 Identities=19% Similarity=0.360 Sum_probs=21.1
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHh
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWARE 216 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ 216 (404)
+.|+|+|++|+|||++...+..+...
T Consensus 40 ~~~L~~G~~G~GKt~~a~~la~~l~~ 65 (367)
T PRK14970 40 QALLFCGPRGVGKTTCARILARKINQ 65 (367)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 35999999999999888877666543
No 357
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=88.12 E-value=0.62 Score=49.57 Aligned_cols=33 Identities=21% Similarity=0.251 Sum_probs=29.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
-++|.|++|+|||+++.|+++.+..+|==|+||
T Consensus 275 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yi 307 (509)
T PRK09302 275 IILVSGATGTGKTLLASKFAEAACRRGERCLLF 307 (509)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEE
Confidence 478999999999999999999887777777777
No 358
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD. The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).
Probab=88.07 E-value=0.6 Score=50.86 Aligned_cols=36 Identities=28% Similarity=0.628 Sum_probs=29.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCC-eEEEEecCc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEG-WLVLYVPRG 227 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ng-WIVL~IP~a 227 (404)
.+++.|..|||||+++.+++.|.+++| -+|++=|.+
T Consensus 178 h~li~G~tGsGKs~~i~~ll~~~~~~g~~~ii~D~~g 214 (566)
T TIGR02759 178 HILIHGTTGSGKSVAIRKLLRWIRQRGDRAIIYDKGC 214 (566)
T ss_pred ceEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEECCC
Confidence 589999999999999999999998775 455555554
No 359
>cd04175 Rap1 Rap1 subgroup. The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n
Probab=88.01 E-value=0.48 Score=41.35 Aligned_cols=20 Identities=30% Similarity=0.321 Sum_probs=17.6
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|.+|+|||+++..++
T Consensus 3 ki~~~G~~~~GKTsli~~~~ 22 (164)
T cd04175 3 KLVVLGSGGVGKSALTVQFV 22 (164)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 48999999999999987765
No 360
>cd04110 Rab35 Rab35 subfamily. Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is
Probab=87.99 E-value=0.46 Score=43.70 Aligned_cols=22 Identities=23% Similarity=0.246 Sum_probs=19.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
-++++.|+.|+|||+++.++..
T Consensus 7 ~kivvvG~~~vGKTsli~~l~~ 28 (199)
T cd04110 7 FKLLIIGDSGVGKSSLLLRFAD 28 (199)
T ss_pred eEEEEECCCCCCHHHHHHHHhc
Confidence 3599999999999999988863
No 361
>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]. It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].
Probab=87.99 E-value=0.69 Score=48.79 Aligned_cols=38 Identities=26% Similarity=0.280 Sum_probs=27.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCccccccc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTHG 233 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvng 233 (404)
-+|+.||+||||+-++.+-+---+.+ ||+| +|..++..
T Consensus 19 FIvV~GPrGSGK~elV~d~~L~~r~~---vL~I-DC~~i~~a 56 (431)
T PF10443_consen 19 FIVVQGPRGSGKRELVMDHVLKDRKN---VLVI-DCDQIVKA 56 (431)
T ss_pred EEEEECCCCCCccHHHHHHHHhCCCC---EEEE-EChHhhhc
Confidence 58999999999999985444444555 7777 45555553
No 362
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=87.98 E-value=0.54 Score=47.84 Aligned_cols=17 Identities=29% Similarity=0.415 Sum_probs=15.1
Q ss_pred eeEEEECCCCCcHHHHH
Q 045329 191 KQIVLDGPLCCGKSITL 207 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L 207 (404)
+.|++|||+|+|||.+.
T Consensus 58 p~~LFyGPpGTGKTSta 74 (346)
T KOG0989|consen 58 PHYLFYGPPGTGKTSTA 74 (346)
T ss_pred ceEEeeCCCCCcHhHHH
Confidence 56999999999999875
No 363
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=87.97 E-value=0.43 Score=43.57 Aligned_cols=31 Identities=29% Similarity=0.323 Sum_probs=23.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.-. ..|-|.+
T Consensus 20 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~ 51 (190)
T TIGR01166 20 VLALLGANGAGKSTLLLHLNGLLRPQSGAVLI 51 (190)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCceeEEE
Confidence 489999999999999976654422 4576654
No 364
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=87.96 E-value=0.86 Score=42.49 Aligned_cols=25 Identities=12% Similarity=0.125 Sum_probs=22.0
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
+.+.|.|..|+|||+++.++++.+.
T Consensus 23 ~~i~~~G~~gsGKTTli~~l~~~~~ 47 (207)
T TIGR00073 23 VVLNFMSSPGSGKTTLIEKLIDNLK 47 (207)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHh
Confidence 4589999999999999999988754
No 365
>cd04176 Rap2 Rap2 subgroup. The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl
Probab=87.94 E-value=0.48 Score=41.22 Aligned_cols=21 Identities=29% Similarity=0.308 Sum_probs=18.0
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|.+|+|||+++...+.
T Consensus 3 ki~i~G~~~vGKTsl~~~~~~ 23 (163)
T cd04176 3 KVVVLGSGGVGKSALTVQFVS 23 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHc
Confidence 589999999999999866654
No 366
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=87.94 E-value=0.5 Score=44.43 Aligned_cols=20 Identities=30% Similarity=0.293 Sum_probs=18.2
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
|+||.|+.|||||++.+.++
T Consensus 2 ~IlllG~tGsGKSs~~N~il 21 (212)
T PF04548_consen 2 RILLLGKTGSGKSSLGNSIL 21 (212)
T ss_dssp EEEEECSTTSSHHHHHHHHH
T ss_pred EEEEECCCCCCHHHHHHHHh
Confidence 69999999999999988874
No 367
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=87.93 E-value=1 Score=44.81 Aligned_cols=76 Identities=22% Similarity=0.318 Sum_probs=47.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC--CeEEEEecCcccccccCeeecC--------CCCCCccCHHHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE--GWLVLYVPRGREWTHGGYFYKN--------PQTGLWDTPLQAENVLKDFIK 260 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n--gWIVL~IP~a~~wvng~~~y~~--------~~~g~ydQP~~A~~~Lk~fl~ 260 (404)
.++=|||++|+|||+++..++.+-++. .--||-|--..-++-| ...-+ .+++.|.-|+.++--|--+-.
T Consensus 30 ~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGG-AlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls~ 108 (266)
T PF03308_consen 30 HVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGG-ALLGDRIRMQELSRDPGVFIRSMATRGSLGGLSR 108 (266)
T ss_dssp EEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC----SS--GGGCHHHHTSTTEEEEEE---SSHHHHHH
T ss_pred eEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCC-cccccHHHhcCcCCCCCEEEeecCcCCCCCCccH
Confidence 468899999999999999999987766 4566666333344433 22111 368999999998888887766
Q ss_pred HhHHHHh
Q 045329 261 YNESHLR 267 (404)
Q Consensus 261 ~N~~~Lk 267 (404)
+-.+.+.
T Consensus 109 ~t~~~v~ 115 (266)
T PF03308_consen 109 ATRDAVR 115 (266)
T ss_dssp HHHHHHH
T ss_pred hHHHHHH
Confidence 5555444
No 368
>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is
Probab=87.90 E-value=0.48 Score=42.10 Aligned_cols=20 Identities=25% Similarity=0.267 Sum_probs=18.0
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|+.|||||+++.+++
T Consensus 2 ki~vvG~~~vGKTsli~~~~ 21 (166)
T cd00877 2 KLVLVGDGGTGKTTFVKRHL 21 (166)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 48999999999999998776
No 369
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=87.89 E-value=1.1 Score=45.48 Aligned_cols=51 Identities=18% Similarity=0.301 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHHh--CCeEEEEec
Q 045329 165 SFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWARE--EGWLVLYVP 225 (404)
Q Consensus 165 ~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~~--ngWIVL~IP 225 (404)
...++++.++++.. ++. -++|+|++||||+++...++.+... .-+++|+-.
T Consensus 7 ~m~~~~~~~~~~a~-----~~~-----pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~ 59 (329)
T TIGR02974 7 AFLEVLEQVSRLAP-----LDR-----PVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCA 59 (329)
T ss_pred HHHHHHHHHHHHhC-----CCC-----CEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCC
Confidence 34566666766532 112 2899999999999965544444432 468888764
No 370
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=87.89 E-value=0.48 Score=42.88 Aligned_cols=29 Identities=34% Similarity=0.491 Sum_probs=22.2
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEE
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVL 222 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL 222 (404)
++|.|.+|||||++...+..-. ...|+.+
T Consensus 5 i~l~G~~gsGKst~a~~l~~~~-~~~~~~~ 33 (175)
T cd00227 5 IILNGGSSAGKSSIARALQSVL-AEPWLHF 33 (175)
T ss_pred EEEECCCCCCHHHHHHHHHHhh-CCCcccc
Confidence 8999999999999988776553 2346544
No 371
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=87.87 E-value=0.51 Score=44.25 Aligned_cols=23 Identities=30% Similarity=0.457 Sum_probs=19.2
Q ss_pred eeEEEECCCCCcHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~ 213 (404)
+.++|.|+.|||||.+..++++-
T Consensus 4 ~~vlL~Gps~SGKTaLf~~L~~~ 26 (181)
T PF09439_consen 4 PTVLLVGPSGSGKTALFSQLVNG 26 (181)
T ss_dssp -EEEEE-STTSSHHHHHHHHHHS
T ss_pred ceEEEEcCCCCCHHHHHHHHhcC
Confidence 46999999999999999998874
No 372
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=87.86 E-value=0.86 Score=41.54 Aligned_cols=32 Identities=25% Similarity=0.216 Sum_probs=27.6
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+.+.|..|||||+++..++......|+-|-.|
T Consensus 4 i~i~G~~gsGKTTli~~L~~~l~~~g~~V~~i 35 (159)
T cd03116 4 IGFVGYSGSGKTTLLEKLIPALSARGLRVAVI 35 (159)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 78999999999999999999988888755444
No 373
>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=87.84 E-value=0.51 Score=52.62 Aligned_cols=20 Identities=30% Similarity=0.501 Sum_probs=16.5
Q ss_pred eeEEEECCCCCcHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAML 210 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qa 210 (404)
+.++|+|++|||||+++..+
T Consensus 213 ~giLL~GppGtGKT~larai 232 (733)
T TIGR01243 213 KGVLLYGPPGTGKTLLAKAV 232 (733)
T ss_pred ceEEEECCCCCChHHHHHHH
Confidence 45999999999999876544
No 374
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=87.83 E-value=0.4 Score=49.66 Aligned_cols=21 Identities=38% Similarity=0.523 Sum_probs=16.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++|||++|||||++ +-||+
T Consensus 186 KGVLLYGPPGTGKTLL-AkAVA 206 (406)
T COG1222 186 KGVLLYGPPGTGKTLL-AKAVA 206 (406)
T ss_pred CceEeeCCCCCcHHHH-HHHHH
Confidence 4699999999999865 44444
No 375
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=87.83 E-value=0.73 Score=47.99 Aligned_cols=24 Identities=33% Similarity=0.416 Sum_probs=21.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
-+++.|+.|+||||+++.+.++..
T Consensus 176 vi~lvGptGvGKTTT~aKLA~~~~ 199 (388)
T PRK12723 176 VFILVGPTGVGKTTTIAKLAAIYG 199 (388)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 489999999999999999988765
No 376
>PRK05428 HPr kinase/phosphorylase; Provisional
Probab=87.80 E-value=0.55 Score=47.56 Aligned_cols=63 Identities=19% Similarity=0.155 Sum_probs=39.7
Q ss_pred cccCceeEEEchhHHHHHHHHHHhcCCCccCCC---CC---ccceeEEEECCCCCcHHHHHHHHHHHHH
Q 045329 153 KDSMRYALLVRQSFLDIRDNFRRIVDPSLQSTN---GP---KIRKQIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 153 e~f~~p~~LVRk~tleLi~~L~~~~d~~~~std---~~---~~r~r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
+..+-|.+.-..+|.++++.+...++..+.... +. .....++|+|+.|+|||.+.+.++..++
T Consensus 103 ~~~~ipll~t~~~t~~~i~~l~~~L~~~la~~~~iHg~~v~V~G~GvLi~G~SG~GKSelALeLi~rGh 171 (308)
T PRK05428 103 KEAGIPLLRTPLSTTRLISKLTNYLDRKLAPRTSVHGVLVDIYGIGVLITGESGIGKSETALELIKRGH 171 (308)
T ss_pred HHcCCcEEEeCCcHHHHHHHHHHHHHHHhhhcceeeeEEEEECCEEEEEEcCCCCCHHHHHHHHHHcCC
Confidence 334444444445677777777666554321110 10 0124699999999999999999988764
No 377
>cd04177 RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu
Probab=87.78 E-value=0.5 Score=41.68 Aligned_cols=21 Identities=33% Similarity=0.343 Sum_probs=18.7
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|.+|+|||+++.+.+.
T Consensus 3 ki~liG~~~~GKTsli~~~~~ 23 (168)
T cd04177 3 KIVVLGAGGVGKSALTVQFVQ 23 (168)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999988863
No 378
>cd04154 Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.
Probab=87.78 E-value=0.45 Score=42.24 Aligned_cols=22 Identities=27% Similarity=0.310 Sum_probs=19.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.++++.|+.|+|||+++.+++.
T Consensus 15 ~kv~ivG~~~~GKTsL~~~l~~ 36 (173)
T cd04154 15 MRILILGLDNAGKTTILKKLLG 36 (173)
T ss_pred cEEEEECCCCCCHHHHHHHHcc
Confidence 4699999999999999988763
No 379
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=87.77 E-value=0.7 Score=44.05 Aligned_cols=23 Identities=30% Similarity=0.375 Sum_probs=19.0
Q ss_pred EEEECCCCCcHHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
+-|.|+.||||||+...+...-.
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~ 24 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLS 24 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHh
Confidence 45789999999999988777654
No 380
>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine
Probab=87.74 E-value=0.51 Score=41.80 Aligned_cols=21 Identities=19% Similarity=0.216 Sum_probs=18.9
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|+.|||||+++.+++.
T Consensus 4 ki~vvG~~~vGKTsli~~~~~ 24 (170)
T cd04115 4 KIIVIGDSNVGKTCLTYRFCA 24 (170)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 589999999999999999864
No 381
>cd03276 ABC_SMC6_euk Eukaryotic SMC6 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (for
Probab=87.73 E-value=0.53 Score=43.96 Aligned_cols=23 Identities=22% Similarity=0.118 Sum_probs=18.9
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHh
Q 045329 193 IVLDGPLCCGKSITLAMLVHWARE 216 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ 216 (404)
.+|.|+.|+|||++| .++.+|..
T Consensus 24 ~~i~G~NGsGKStll-~ai~~~l~ 46 (198)
T cd03276 24 NFIVGNNGSGKSAIL-TALTIGLG 46 (198)
T ss_pred EEEECCCCCcHHHHH-HHHHHHhc
Confidence 489999999999887 66677764
No 382
>cd04132 Rho4_like Rho4-like subfamily. Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=87.71 E-value=0.5 Score=42.35 Aligned_cols=21 Identities=33% Similarity=0.520 Sum_probs=19.0
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|..|+|||+++.+++.
T Consensus 2 ki~vvG~~~vGKTsli~~l~~ 22 (187)
T cd04132 2 KIVVVGDGGCGKTCLLIVYSQ 22 (187)
T ss_pred eEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999998875
No 383
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=87.68 E-value=1.1 Score=42.58 Aligned_cols=27 Identities=22% Similarity=0.331 Sum_probs=21.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE 217 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n 217 (404)
.-+.|.|+.||||||+...+...-...
T Consensus 34 ~iigi~G~~GsGKTTl~~~L~~~l~~~ 60 (229)
T PRK09270 34 TIVGIAGPPGAGKSTLAEFLEALLQQD 60 (229)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence 358999999999999998888655543
No 384
>cd04101 RabL4 RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.
Probab=87.65 E-value=0.52 Score=40.94 Aligned_cols=20 Identities=20% Similarity=0.297 Sum_probs=17.7
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
++++.|..|||||+++..++
T Consensus 2 ki~vvG~~~~GKtsl~~~l~ 21 (164)
T cd04101 2 RCAVVGDPAVGKTAFVQMFH 21 (164)
T ss_pred EEEEECCCCCCHHHHHHHHh
Confidence 48999999999999997665
No 385
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=87.63 E-value=0.74 Score=45.98 Aligned_cols=24 Identities=33% Similarity=0.411 Sum_probs=20.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A 214 (404)
..+++.|+.|||||++|..++.+-
T Consensus 145 ~~ili~G~tGsGKTTll~al~~~~ 168 (308)
T TIGR02788 145 KNIIISGGTGSGKTTFLKSLVDEI 168 (308)
T ss_pred CEEEEECCCCCCHHHHHHHHHccC
Confidence 359999999999999998777654
No 386
>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....
Probab=87.63 E-value=0.52 Score=40.87 Aligned_cols=21 Identities=29% Similarity=0.428 Sum_probs=18.3
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|+.|||||+++...+.
T Consensus 1 Ki~vvG~~~vGKtsl~~~~~~ 21 (162)
T PF00071_consen 1 KIVVVGDSGVGKTSLINRLIN 21 (162)
T ss_dssp EEEEEESTTSSHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHh
Confidence 389999999999999987654
No 387
>PLN02200 adenylate kinase family protein
Probab=87.63 E-value=0.71 Score=44.49 Aligned_cols=31 Identities=19% Similarity=0.115 Sum_probs=22.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
..++|.|++|||||+....+. ..-|+..|..
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La---~~~g~~his~ 74 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIV---ETFGFKHLSA 74 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHH---HHhCCeEEEc
Confidence 458999999999999877663 3447665444
No 388
>PRK13949 shikimate kinase; Provisional
Probab=87.61 E-value=0.54 Score=42.87 Aligned_cols=30 Identities=27% Similarity=0.297 Sum_probs=21.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
+++|.|.+|||||++...+.. .-||-++..
T Consensus 3 ~I~liG~~GsGKstl~~~La~---~l~~~~id~ 32 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKALAR---ELGLSFIDL 32 (169)
T ss_pred EEEEECCCCCCHHHHHHHHHH---HcCCCeecc
Confidence 589999999999998875543 335555543
No 389
>cd00879 Sar1 Sar1 subfamily. Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=87.61 E-value=0.5 Score=42.43 Aligned_cols=22 Identities=32% Similarity=0.357 Sum_probs=19.2
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.+++|.|+.|||||+++.++..
T Consensus 20 ~ki~ilG~~~~GKStLi~~l~~ 41 (190)
T cd00879 20 AKILFLGLDNAGKTTLLHMLKD 41 (190)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 4699999999999999998753
No 390
>cd04112 Rab26 Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=87.60 E-value=0.5 Score=43.01 Aligned_cols=21 Identities=24% Similarity=0.319 Sum_probs=18.6
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|.+|||||+++.+++.
T Consensus 2 Ki~vvG~~~vGKTSli~~~~~ 22 (191)
T cd04112 2 KVMLLGDSGVGKTCLLVRFKD 22 (191)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 489999999999999988764
No 391
>PRK06761 hypothetical protein; Provisional
Probab=87.60 E-value=0.67 Score=46.33 Aligned_cols=31 Identities=32% Similarity=0.335 Sum_probs=25.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL 222 (404)
-++|.|++||||||++.++.......|.=|.
T Consensus 5 lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~ 35 (282)
T PRK06761 5 LIIIEGLPGFGKSTTAKMLNDILSQNGIEVE 35 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCcCceEEE
Confidence 4899999999999999999988766555433
No 392
>PRK14737 gmk guanylate kinase; Provisional
Probab=87.57 E-value=0.49 Score=43.99 Aligned_cols=21 Identities=19% Similarity=0.246 Sum_probs=19.2
Q ss_pred EEEECCCCCcHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~ 213 (404)
+||.|+.|||||++..+++..
T Consensus 7 ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 7 FIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred EEEECCCCCCHHHHHHHHHhc
Confidence 899999999999999998763
No 393
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=87.57 E-value=0.49 Score=43.71 Aligned_cols=31 Identities=26% Similarity=0.369 Sum_probs=23.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.-. ..|.|.+
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~ 59 (205)
T cd03226 28 IIALTGKNGAGKTTLAKILAGLIKESSGSILL 59 (205)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence 489999999999999987655422 4566544
No 394
>PRK07933 thymidylate kinase; Validated
Probab=87.57 E-value=0.94 Score=42.89 Aligned_cols=35 Identities=20% Similarity=0.119 Sum_probs=29.8
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
+++.|.-||||||.+..+..|-...|-=|+++..+
T Consensus 3 IviEG~dGsGKST~~~~L~~~L~~~g~~v~~~~~P 37 (213)
T PRK07933 3 IAIEGVDGAGKRTLTEALRAALEARGRSVATLAFP 37 (213)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEecC
Confidence 78999999999999999999999888666655443
No 395
>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. 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=87.54 E-value=0.47 Score=43.96 Aligned_cols=32 Identities=22% Similarity=0.268 Sum_probs=23.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHH-HHhCCeEEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW-AREEGWLVLY 223 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~-A~~ngWIVL~ 223 (404)
.+.|.|+.|||||++|.-+.-. --..|-|.+.
T Consensus 27 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~ 59 (211)
T cd03264 27 MYGLLGPNGAGKTTLMRILATLTPPSSGTIRID 59 (211)
T ss_pred cEEEECCCCCCHHHHHHHHhCCCCCCccEEEEC
Confidence 4899999999999998766543 2246776553
No 396
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=87.49 E-value=0.46 Score=43.63 Aligned_cols=21 Identities=33% Similarity=0.376 Sum_probs=19.2
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|.+|+|||++++.++.
T Consensus 2 ~i~lvG~~g~GKSsl~N~ilg 22 (196)
T cd01852 2 RLVLVGKTGAGKSATGNTILG 22 (196)
T ss_pred EEEEECCCCCCHHHHHHHhhC
Confidence 589999999999999999874
No 397
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=87.48 E-value=0.56 Score=42.16 Aligned_cols=23 Identities=26% Similarity=0.343 Sum_probs=20.2
Q ss_pred ceeEEEECCCCCcHHHHHHHHHH
Q 045329 190 RKQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 190 r~r~vL~G~rGsGKS~~L~qav~ 212 (404)
..+++|.|..|+|||+++..+..
T Consensus 24 ~~~v~ivG~~~~GKSsli~~l~~ 46 (196)
T PRK00454 24 GPEIAFAGRSNVGKSSLINALTN 46 (196)
T ss_pred CCEEEEEcCCCCCHHHHHHHHhC
Confidence 46799999999999999997764
No 398
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. 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=87.46 E-value=0.51 Score=43.68 Aligned_cols=31 Identities=26% Similarity=0.371 Sum_probs=21.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-.-. ..|=|.+
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 59 (210)
T cd03269 28 IFGLLGPNGAGKTTTIRMILGIILPDSGEVLF 59 (210)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence 488999999999999877664322 3454443
No 399
>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts). This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.
Probab=87.46 E-value=0.9 Score=44.32 Aligned_cols=22 Identities=27% Similarity=0.297 Sum_probs=19.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.+++|.|+.|+|||++++.+..
T Consensus 32 ~~IllvG~tGvGKSSliNaLlg 53 (249)
T cd01853 32 LTILVLGKTGVGKSSTINSIFG 53 (249)
T ss_pred eEEEEECCCCCcHHHHHHHHhC
Confidence 5699999999999999988775
No 400
>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.
Probab=87.46 E-value=0.52 Score=48.78 Aligned_cols=36 Identities=28% Similarity=0.667 Sum_probs=28.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGR 228 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~ 228 (404)
.|..|-|+.|||||+++.|+..|+... +|+|+--++
T Consensus 158 qr~~I~G~~G~GKT~L~~~Iak~~~~d--vvVyv~iGE 193 (369)
T cd01134 158 GTAAIPGPFGCGKTVIQQSLSKYSNSD--IVIYVGCGE 193 (369)
T ss_pred CEEEEECCCCCChHHHHHHHHhCCCCC--EEEEEEeCC
Confidence 368999999999999999999887543 677775443
No 401
>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=87.45 E-value=0.52 Score=43.27 Aligned_cols=22 Identities=27% Similarity=0.415 Sum_probs=19.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~ 213 (404)
+++|.|..|+|||+++.+++..
T Consensus 2 KivivG~~~vGKTsli~~l~~~ 23 (201)
T cd04107 2 KVLVIGDLGVGKTSIIKRYVHG 23 (201)
T ss_pred EEEEECCCCCCHHHHHHHHHcC
Confidence 4899999999999999998753
No 402
>PRK04196 V-type ATP synthase subunit B; Provisional
Probab=87.42 E-value=0.7 Score=49.18 Aligned_cols=39 Identities=10% Similarity=0.077 Sum_probs=32.5
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC----CeEEEEecCccc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE----GWLVLYVPRGRE 229 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n----gWIVL~IP~a~~ 229 (404)
.|..|.|.+|+|||+++.+++.++... +++++|+--++.
T Consensus 144 QR~gIfgg~G~GKs~L~~~ia~~~~~d~~~~~~v~V~~~iGeR 186 (460)
T PRK04196 144 QKLPIFSGSGLPHNELAAQIARQAKVLGEEENFAVVFAAMGIT 186 (460)
T ss_pred CEEEeeCCCCCCccHHHHHHHHhhhhccCCCceEEEEEEeccc
Confidence 468999999999999999999998653 789999865544
No 403
>TIGR03348 VI_IcmF type VI secretion protein IcmF. Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.
Probab=87.41 E-value=0.43 Score=56.12 Aligned_cols=20 Identities=25% Similarity=0.247 Sum_probs=18.0
Q ss_pred eeEEEECCCCCcHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAML 210 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qa 210 (404)
+=|++.|++|+|||++|.+.
T Consensus 112 PWYlviG~~gsGKtt~l~~s 131 (1169)
T TIGR03348 112 PWYLVIGPPGSGKTTLLQNS 131 (1169)
T ss_pred CCEEEECCCCCchhHHHHhC
Confidence 44999999999999999876
No 404
>cd04116 Rab9 Rab9 subfamily. Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX
Probab=87.38 E-value=0.55 Score=41.23 Aligned_cols=22 Identities=27% Similarity=0.273 Sum_probs=19.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
-++++.|.+|||||+++.+++.
T Consensus 6 ~ki~vvG~~~~GKTsli~~~~~ 27 (170)
T cd04116 6 LKVILLGDGGVGKSSLMNRYVT 27 (170)
T ss_pred EEEEEECCCCCCHHHHHHHHHc
Confidence 4699999999999999988763
No 405
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=87.38 E-value=0.54 Score=42.20 Aligned_cols=21 Identities=29% Similarity=0.339 Sum_probs=18.8
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|..|||||+++.+.+.
T Consensus 4 ki~vvG~~~vGKTsL~~~~~~ 24 (172)
T cd04141 4 KIVMLGAGGVGKSAVTMQFIS 24 (172)
T ss_pred EEEEECCCCCcHHHHHHHHHh
Confidence 489999999999999988764
No 406
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=87.33 E-value=0.85 Score=44.18 Aligned_cols=23 Identities=26% Similarity=0.164 Sum_probs=20.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A 214 (404)
..++.|++|+|||++++++.--.
T Consensus 122 ~~~~~G~sgvGKStLiN~L~~~~ 144 (245)
T TIGR00157 122 ISVFAGQSGVGKSSLINALDPSV 144 (245)
T ss_pred EEEEECCCCCCHHHHHHHHhhhh
Confidence 48999999999999999998643
No 407
>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=87.32 E-value=0.81 Score=45.19 Aligned_cols=35 Identities=26% Similarity=0.224 Sum_probs=27.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRG 227 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a 227 (404)
+.|.|+.|||||+++..+...-...+..|+..-+-
T Consensus 2 igI~G~sGsGKSTl~~~L~~ll~~~~~~vi~~Dd~ 36 (273)
T cd02026 2 IGVAGDSGCGKSTFLRRLTSLFGSDLVTVICLDDY 36 (273)
T ss_pred EEEECCCCCCHHHHHHHHHHhhCCCceEEEECccc
Confidence 57899999999999988876655567777776533
No 408
>PRK14242 phosphate transporter ATP-binding protein; Provisional
Probab=87.32 E-value=0.65 Score=44.33 Aligned_cols=31 Identities=42% Similarity=0.537 Sum_probs=23.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH------HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA------REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A------~~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-.- -..|.|.+
T Consensus 34 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~~~~G~i~~ 70 (253)
T PRK14242 34 VTALIGPSGCGKSTFLRCLNRMNDLIPGARVEGEILL 70 (253)
T ss_pred EEEEECCCCCCHHHHHHHHHhhcccCCCCCCceEEEE
Confidence 48999999999999987776442 14677655
No 409
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=87.30 E-value=0.7 Score=40.76 Aligned_cols=20 Identities=30% Similarity=0.557 Sum_probs=16.7
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~ 212 (404)
++|+|+.|||||++...+..
T Consensus 3 I~i~G~~GSGKstia~~la~ 22 (171)
T TIGR02173 3 ITISGPPGSGKTTVAKILAE 22 (171)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 79999999999988766643
No 410
>PRK05595 replicative DNA helicase; Provisional
Probab=87.26 E-value=0.73 Score=48.35 Aligned_cols=33 Identities=21% Similarity=0.237 Sum_probs=28.7
Q ss_pred EEEECCCCCcHHHHHHHHHHH-HHhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHW-AREEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~-A~~ngWIVL~IP 225 (404)
+||-|.+|+|||++.+|++.+ |..+|+=|+++.
T Consensus 204 iviaarpg~GKT~~al~ia~~~a~~~g~~vl~fS 237 (444)
T PRK05595 204 ILIAARPSMGKTTFALNIAEYAALREGKSVAIFS 237 (444)
T ss_pred EEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEe
Confidence 788999999999999999875 778898888873
No 411
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=87.23 E-value=0.61 Score=42.41 Aligned_cols=23 Identities=26% Similarity=0.339 Sum_probs=19.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~ 213 (404)
..++|.|+.|+|||++...++..
T Consensus 15 ~gvLi~G~sG~GKStlal~L~~~ 37 (149)
T cd01918 15 IGVLITGPSGIGKSELALELIKR 37 (149)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHc
Confidence 46999999999999998777665
No 412
>cd04103 Centaurin_gamma Centaurin gamma. The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.
Probab=87.22 E-value=0.58 Score=41.62 Aligned_cols=21 Identities=24% Similarity=0.303 Sum_probs=18.6
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++-|+.|||||+++.+.+.
T Consensus 2 ki~vvG~~gvGKTsli~~~~~ 22 (158)
T cd04103 2 KLGIVGNLQSGKSALVHRYLT 22 (158)
T ss_pred EEEEECCCCCcHHHHHHHHHh
Confidence 489999999999999988764
No 413
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=87.17 E-value=0.53 Score=43.77 Aligned_cols=32 Identities=22% Similarity=0.311 Sum_probs=24.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVLY 223 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL~ 223 (404)
.+.|.|+.||||||+|.-+.-.-. ..|-|.+.
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~ 63 (216)
T TIGR00960 31 MVFLVGHSGAGKSTFLKLILGIEKPTRGKIRFN 63 (216)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCceEEEEC
Confidence 489999999999999877765432 45776653
No 414
>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=87.16 E-value=0.66 Score=50.95 Aligned_cols=33 Identities=21% Similarity=0.343 Sum_probs=25.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH---------hCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR---------EEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~---------~ngWIVL~I 224 (404)
.++|+|++|||||+++.-+...+. ...|+.+.-
T Consensus 177 ~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~ 218 (615)
T TIGR02903 177 HIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDG 218 (615)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEec
Confidence 489999999999998877665553 346888864
No 415
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=87.11 E-value=0.53 Score=42.59 Aligned_cols=21 Identities=38% Similarity=0.474 Sum_probs=17.3
Q ss_pred eeEEEECCCCCcHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav 211 (404)
+|++|.|+.|||||+++.-+.
T Consensus 2 krimliG~~g~GKTTL~q~L~ 22 (143)
T PF10662_consen 2 KRIMLIGPSGSGKTTLAQALN 22 (143)
T ss_pred ceEEEECCCCCCHHHHHHHHc
Confidence 479999999999998875443
No 416
>cd03275 ABC_SMC1_euk Eukaryotic SMC1 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (for
Probab=87.09 E-value=0.58 Score=44.90 Aligned_cols=23 Identities=22% Similarity=0.234 Sum_probs=18.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
-.+|.|+.|||||++| .+++|+.
T Consensus 24 ~~~i~G~NGsGKStll-~ai~~~l 46 (247)
T cd03275 24 FTCIIGPNGSGKSNLM-DAISFVL 46 (247)
T ss_pred eEEEECCCCCCHHHHH-HHHHHHh
Confidence 4799999999999888 4555554
No 417
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=87.08 E-value=0.6 Score=44.45 Aligned_cols=20 Identities=35% Similarity=0.270 Sum_probs=17.5
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~ 212 (404)
-+|.|+.|+|||+++.|+..
T Consensus 4 ~ll~g~~G~GKS~lal~la~ 23 (239)
T cd01125 4 SALVAPGGTGKSSLLLVLAL 23 (239)
T ss_pred eEEEcCCCCCHHHHHHHHHH
Confidence 48999999999999999843
No 418
>cd01874 Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi
Probab=87.08 E-value=0.56 Score=42.27 Aligned_cols=21 Identities=24% Similarity=0.241 Sum_probs=19.1
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|..|+|||+++.+.+.
T Consensus 3 ki~vvG~~~vGKTsl~~~~~~ 23 (175)
T cd01874 3 KCVVVGDGAVGKTCLLISYTT 23 (175)
T ss_pred EEEEECCCCCCHHHHHHHHHc
Confidence 589999999999999988875
No 419
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.00 E-value=0.92 Score=48.36 Aligned_cols=22 Identities=23% Similarity=0.398 Sum_probs=17.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW 213 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~ 213 (404)
.++|+|++|||||++..-+...
T Consensus 38 ~~Lf~GPpGtGKTTlA~~lA~~ 59 (472)
T PRK14962 38 AYIFAGPRGTGKTTVARILAKS 59 (472)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4899999999999877555443
No 420
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=86.99 E-value=0.6 Score=43.16 Aligned_cols=21 Identities=29% Similarity=0.311 Sum_probs=19.2
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|+.|+|||++++.+..
T Consensus 3 kI~i~G~~g~GKSSLin~L~g 23 (197)
T cd04104 3 NIAVTGESGAGKSSFINALRG 23 (197)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 589999999999999999875
No 421
>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases. Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.
Probab=86.99 E-value=0.46 Score=41.77 Aligned_cols=20 Identities=25% Similarity=0.293 Sum_probs=17.4
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~ 212 (404)
+++.|++|||||+++.+...
T Consensus 1 i~i~G~~~vGKTsli~~~~~ 20 (174)
T smart00174 1 LVVVGDGAVGKTCLLISYTT 20 (174)
T ss_pred CEEECCCCCCHHHHHHHHHh
Confidence 47889999999999988765
No 422
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=86.97 E-value=0.57 Score=40.87 Aligned_cols=21 Identities=29% Similarity=0.346 Sum_probs=18.8
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|..|+|||+++..+..
T Consensus 2 ~i~~~G~~~~GKssli~~l~~ 22 (168)
T cd01897 2 TLVIAGYPNVGKSSLVNKLTR 22 (168)
T ss_pred eEEEEcCCCCCHHHHHHHHhc
Confidence 589999999999999998753
No 423
>cd04151 Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.
Probab=86.96 E-value=0.51 Score=41.07 Aligned_cols=20 Identities=30% Similarity=0.298 Sum_probs=18.0
Q ss_pred eEEEECCCCCcHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav 211 (404)
+++|.|..|||||+++.++.
T Consensus 1 kv~lvG~~~~GKTsl~~~l~ 20 (158)
T cd04151 1 RILILGLDNAGKTTILYRLQ 20 (158)
T ss_pred CEEEECCCCCCHHHHHHHHc
Confidence 37899999999999999984
No 424
>PRK14235 phosphate transporter ATP-binding protein; Provisional
Probab=86.93 E-value=0.69 Score=44.86 Aligned_cols=31 Identities=32% Similarity=0.412 Sum_probs=25.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH------hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR------EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~------~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-... ..|.|.+
T Consensus 47 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~~~~G~I~~ 83 (267)
T PRK14235 47 VTAFIGPSGCGKSTFLRCLNRMNDTIDGCRVTGKITL 83 (267)
T ss_pred EEEEECCCCCCHHHHHHHHHhhcccccCCCCceEEEE
Confidence 489999999999999988876543 5788765
No 425
>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit. This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.
Probab=86.92 E-value=0.56 Score=51.21 Aligned_cols=36 Identities=22% Similarity=0.548 Sum_probs=29.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGR 228 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~ 228 (404)
.|..|-|..|||||+++.|+..||-.. ||+|+--++
T Consensus 227 qr~~I~gg~G~GKT~l~~~lak~s~aD--viVyvg~GE 262 (591)
T TIGR01042 227 GTTAIPGAFGCGKTVISQSLSKYSNSD--AIVYVGCGE 262 (591)
T ss_pred CeEEEEcCCCcCHHHHHHHHHhccCcC--EEEEEEEee
Confidence 468999999999999999998887544 688876543
No 426
>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional
Probab=86.92 E-value=0.59 Score=45.01 Aligned_cols=31 Identities=32% Similarity=0.461 Sum_probs=24.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH------hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR------EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~------~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-... ..|-|.+
T Consensus 41 ~~~i~G~nGsGKSTLl~~l~Gl~~~~p~~p~~G~i~~ 77 (260)
T PRK10744 41 VTAFIGPSGCGKSTLLRTFNRMYELYPEQRAEGEILL 77 (260)
T ss_pred EEEEECCCCCCHHHHHHHHhcccccCCCCCcceEEEE
Confidence 489999999999999877765432 4687765
No 427
>TIGR02239 recomb_RAD51 DNA repair protein RAD51. This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).
Probab=86.92 E-value=0.3 Score=49.25 Aligned_cols=95 Identities=14% Similarity=0.162 Sum_probs=50.8
Q ss_pred cccCCCccccCccccceeEEeCHHHHHhhccC---CCCcchhhhcccc--CceeEEEchhHHHHHHHHHHhcCCCccCCC
Q 045329 111 FTKTTSLSLLTRKDACTYFKFSEDELNAMLPE---GLPTGMLGEFKDS--MRYALLVRQSFLDIRDNFRRIVDPSLQSTN 185 (404)
Q Consensus 111 ~~~~~~~~~ht~~~vGk~y~~p~e~~k~l~~~---GLp~~~~kqfe~f--~~p~~LVRk~tleLi~~L~~~~d~~~~std 185 (404)
|.+..|....+..++.+++.++.+....+... -++..+..--+.+ +....-+.-- +..|...+..
T Consensus 22 ~~t~~~~~~~~~~~L~~i~~ls~~~~~~~~~~~~~~~~~~~~t~~~l~~~~~~~~~~~tg----~~~lD~ll~g------ 91 (316)
T TIGR02239 22 LHTVESVAYAPKKQLLEIKGISEAKADKILAEAAKLVPMGFTTATEFHQRRQEVIQLTTG----SKELDKLLGG------ 91 (316)
T ss_pred CCcHHHHHhCCHHHHHHHhCCCHHHHHHHHHHHHHhcccccccHHHHHhcccccceeCCC----CHHHHHHhcC------
Confidence 45555667777788888888888887765432 1221111111111 1111112211 1123333222
Q ss_pred CCccceeEEEECCCCCcHHHHHHHHHHHHH
Q 045329 186 GPKIRKQIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 186 ~~~~r~r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
+-....-+.|+|++|+|||+++.|+...|.
T Consensus 92 Gi~~g~i~~i~G~~g~GKT~l~~~~~~~~~ 121 (316)
T TIGR02239 92 GIETGSITEIFGEFRTGKTQLCHTLAVTCQ 121 (316)
T ss_pred CCCCCeEEEEECCCCCCcCHHHHHHHHHHh
Confidence 111123478999999999999999877553
No 428
>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional
Probab=86.89 E-value=0.56 Score=44.08 Aligned_cols=30 Identities=23% Similarity=0.266 Sum_probs=24.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHH-HHhCCeEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW-AREEGWLV 221 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~-A~~ngWIV 221 (404)
.+.|.|+.|||||++|.-+.-. .-.+|.|.
T Consensus 15 ~~~l~G~NGsGKSTLlk~i~Gl~~~~sG~i~ 45 (213)
T PRK15177 15 HIGILAAPGSGKTTLTRLLCGLDAPDEGDFI 45 (213)
T ss_pred EEEEECCCCCCHHHHHHHHhCCccCCCCCEE
Confidence 4899999999999999877764 33568775
No 429
>PHA02774 E1; Provisional
Probab=86.86 E-value=1.7 Score=47.76 Aligned_cols=65 Identities=20% Similarity=0.352 Sum_probs=41.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccccccCeeecC---CCCCCccCH-----HHHHHHHHHHHHHh
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREWTHGGYFYKN---PQTGLWDTP-----LQAENVLKDFIKYN 262 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~wvng~~~y~~---~~~g~ydQP-----~~A~~~Lk~fl~~N 262 (404)
+-++|+|++|+|||++-..++.+- +|=++.+|..-..| .+.+ .+-+++|-+ .+....|+.++..|
T Consensus 435 nciv~~GPP~TGKS~fa~sL~~~L--~G~vi~fvN~~s~F-----wLqpl~d~ki~vlDD~t~~~w~y~d~~Lrn~LdG~ 507 (613)
T PHA02774 435 NCLVIYGPPDTGKSMFCMSLIKFL--KGKVISFVNSKSHF-----WLQPLADAKIALLDDATHPCWDYIDTYLRNALDGN 507 (613)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh--CCCEEEEEECcccc-----ccchhccCCEEEEecCcchHHHHHHHHHHHHcCCC
Confidence 459999999999999988888875 57777777542222 1222 233455544 44455566666555
No 430
>PRK00081 coaE dephospho-CoA kinase; Reviewed
Probab=86.85 E-value=0.8 Score=42.53 Aligned_cols=29 Identities=28% Similarity=0.292 Sum_probs=22.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVLYV 224 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~I 224 (404)
.+.|+|..|||||++...+.. -|+-|+..
T Consensus 4 ~i~ltG~~gsGKst~~~~l~~----~g~~~i~~ 32 (194)
T PRK00081 4 IIGLTGGIGSGKSTVANLFAE----LGAPVIDA 32 (194)
T ss_pred EEEEECCCCCCHHHHHHHHHH----cCCEEEEe
Confidence 489999999999999887665 36655543
No 431
>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin. In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. 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=86.84 E-value=0.58 Score=43.72 Aligned_cols=31 Identities=29% Similarity=0.384 Sum_probs=23.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.-. ..|.|.+
T Consensus 28 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~ 59 (220)
T cd03265 28 IFGLLGPNGAGKTTTIKMLTTLLKPTSGRATV 59 (220)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence 489999999999999987665432 4577665
No 432
>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). 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.
Probab=86.83 E-value=0.55 Score=43.68 Aligned_cols=31 Identities=19% Similarity=0.236 Sum_probs=22.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.-. ..|=|.+
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 59 (222)
T cd03224 28 IVALLGRNGAGKTTLLKTIMGLLPPRSGSIRF 59 (222)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 489999999999999976544322 3465544
No 433
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=86.80 E-value=0.47 Score=43.84 Aligned_cols=21 Identities=29% Similarity=0.333 Sum_probs=17.9
Q ss_pred eeEEEECCCCCcHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav 211 (404)
+.++++|-+|+|||++-.++.
T Consensus 8 PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 8 PNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCEEEeCCCCCCchhHHHHHH
Confidence 559999999999999876665
No 434
>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family.
Probab=86.77 E-value=0.53 Score=43.25 Aligned_cols=29 Identities=28% Similarity=0.339 Sum_probs=21.7
Q ss_pred EEEECCCCCcHHHHHHHHHHHHH--hCCeEE
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAR--EEGWLV 221 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~--~ngWIV 221 (404)
++|+|+.|+|||++|.++..-.. .-|..|
T Consensus 2 ~~ltG~N~~GKst~l~~i~~~~~la~~G~~v 32 (185)
T smart00534 2 VIITGPNMGGKSTYLRQVGLIVIMAQIGSFV 32 (185)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHHHhCCCe
Confidence 68999999999999988764332 346544
No 435
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=86.75 E-value=0.85 Score=47.89 Aligned_cols=37 Identities=22% Similarity=0.258 Sum_probs=31.8
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCe--EEEEecCc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGW--LVLYVPRG 227 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngW--IVL~IP~a 227 (404)
+-++|+|+.|+|||-+|.-+-+++.+++= .|+|+...
T Consensus 114 nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se 152 (408)
T COG0593 114 NPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSE 152 (408)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHH
Confidence 44999999999999999888889888766 89998664
No 436
>PRK14238 phosphate transporter ATP-binding protein; Provisional
Probab=86.72 E-value=0.66 Score=45.18 Aligned_cols=32 Identities=25% Similarity=0.392 Sum_probs=26.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH------hCCeEEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR------EEGWLVLY 223 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~------~ngWIVL~ 223 (404)
.+.|.|+.|||||++|.-+.-... ..|-|.+.
T Consensus 52 ~~~I~G~nGsGKSTLl~~i~Gl~~~~~~~~~~G~i~~~ 89 (271)
T PRK14238 52 VTAIIGPSGCGKSTYIKTLNRMVELVPSVKTTGKILYR 89 (271)
T ss_pred EEEEECCCCCCHHHHHHHHHhhccCCCCCCCceeEEEC
Confidence 589999999999999988876653 66887663
No 437
>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).
Probab=86.70 E-value=0.54 Score=44.26 Aligned_cols=31 Identities=23% Similarity=0.355 Sum_probs=23.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-.-. ..|.|.+
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 59 (236)
T cd03219 28 IHGLIGPNGAGKTTLFNLISGFLRPTSGSVLF 59 (236)
T ss_pred EEEEECCCCCCHHHHHHHHcCCCCCCCceEEE
Confidence 489999999999999877654432 4677655
No 438
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=86.70 E-value=0.68 Score=48.42 Aligned_cols=35 Identities=20% Similarity=0.017 Sum_probs=22.4
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
+.++|+|++|||||++.. +++-...-..|++..++
T Consensus 149 lgllL~GPPGcGKTllAr-aiA~elg~~~i~vsa~e 183 (413)
T PLN00020 149 LILGIWGGKGQGKSFQCE-LVFKKMGIEPIVMSAGE 183 (413)
T ss_pred eEEEeeCCCCCCHHHHHH-HHHHHcCCCeEEEEHHH
Confidence 458999999999997654 33333333445554443
No 439
>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional
Probab=86.60 E-value=0.78 Score=44.10 Aligned_cols=31 Identities=26% Similarity=0.316 Sum_probs=23.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH------hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR------EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~------~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-... ..|.|.+
T Consensus 40 ~~~l~G~nGsGKSTLl~~l~G~~~~~p~~~~~G~i~~ 76 (259)
T PRK14274 40 VTAIIGPSGCGKSTFIKTLNLMIQMVPNVKLTGEMNY 76 (259)
T ss_pred EEEEECCCCCCHHHHHHHHHhhccCCCCCCCceEEEE
Confidence 489999999999999987765432 3687765
No 440
>cd03270 ABC_UvrA_I The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=86.57 E-value=0.63 Score=44.20 Aligned_cols=21 Identities=24% Similarity=0.169 Sum_probs=17.4
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
.+.|.|+.|||||++|...+.
T Consensus 23 ~~~l~G~sGsGKSTL~~~~i~ 43 (226)
T cd03270 23 LVVITGVSGSGKSSLAFDTIY 43 (226)
T ss_pred EEEEEcCCCCCHHHHHHHHHH
Confidence 489999999999999854443
No 441
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=86.53 E-value=0.7 Score=47.53 Aligned_cols=28 Identities=29% Similarity=0.289 Sum_probs=24.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEG 218 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ng 218 (404)
..++|.|++|||||++...+..++-..+
T Consensus 39 ~~vli~G~~GtGKs~~ar~~~~~l~~~~ 66 (350)
T CHL00081 39 GGVMIMGDRGTGKSTTIRALVDLLPEIE 66 (350)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHHhhcC
Confidence 3599999999999999999988886544
No 442
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; 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=86.51 E-value=0.6 Score=44.05 Aligned_cols=31 Identities=29% Similarity=0.492 Sum_probs=23.7
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-.-. ..|-|.+
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i~~ 59 (235)
T cd03261 28 ILAIIGPSGSGKSTLLRLIVGLLRPDSGEVLI 59 (235)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence 489999999999999887765432 4576654
No 443
>PRK05748 replicative DNA helicase; Provisional
Probab=86.49 E-value=0.82 Score=47.96 Aligned_cols=33 Identities=12% Similarity=0.071 Sum_probs=28.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHH-HhCCeEEEEec
Q 045329 193 IVLDGPLCCGKSITLAMLVHWA-REEGWLVLYVP 225 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A-~~ngWIVL~IP 225 (404)
++|-|.+|+|||++.+|++..+ ...|+-|+++.
T Consensus 206 ivIaarpg~GKT~~al~ia~~~a~~~g~~v~~fS 239 (448)
T PRK05748 206 IIVAARPSVGKTAFALNIAQNVATKTDKNVAIFS 239 (448)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEe
Confidence 8999999999999999998875 46688888773
No 444
>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.
Probab=86.47 E-value=0.61 Score=43.77 Aligned_cols=31 Identities=32% Similarity=0.500 Sum_probs=23.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~ 59 (232)
T cd03218 28 IVGLLGPNGAGKTTTFYMIVGLVKPDSGKILL 59 (232)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence 489999999999999877765433 4566554
No 445
>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional
Probab=86.43 E-value=0.75 Score=44.50 Aligned_cols=31 Identities=32% Similarity=0.445 Sum_probs=24.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH------hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR------EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~------~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 49 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~~~~G~i~~ 85 (268)
T PRK14248 49 VTALIGPSGCGKSTFLRSINRMNDLIPSARSEGEILY 85 (268)
T ss_pred EEEEECCCCCCHHHHHHHHHhcccccCCCCCceEEEE
Confidence 489999999999999987766432 5687655
No 446
>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.
Probab=86.42 E-value=0.59 Score=43.19 Aligned_cols=21 Identities=24% Similarity=0.368 Sum_probs=18.1
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
.+.|.|+.|||||++|.-+.-
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G 48 (208)
T cd03268 28 IYGFLGPNGAGKTTTMKIILG 48 (208)
T ss_pred EEEEECCCCCCHHHHHHHHhC
Confidence 489999999999999977654
No 447
>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=86.38 E-value=0.6 Score=43.53 Aligned_cols=19 Identities=42% Similarity=0.803 Sum_probs=16.4
Q ss_pred EEEECCCCCcHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLV 211 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav 211 (404)
+-|.||.|||||++|+-+.
T Consensus 31 vtlMGPSGcGKSTLls~~~ 49 (213)
T COG4136 31 VTLMGPSGCGKSTLLSWMI 49 (213)
T ss_pred EEEECCCCccHHHHHHHHH
Confidence 6789999999999997554
No 448
>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.
Probab=86.37 E-value=0.61 Score=43.48 Aligned_cols=31 Identities=19% Similarity=0.238 Sum_probs=23.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.- -..|-|.+
T Consensus 33 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 64 (228)
T cd03257 33 TLGLVGESGSGKSTLARAILGLLKPTSGSIIF 64 (228)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 48999999999999887766542 34576654
No 449
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=86.36 E-value=0.97 Score=46.67 Aligned_cols=38 Identities=26% Similarity=0.553 Sum_probs=29.2
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCC-eEEEEecCcc
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEG-WLVLYVPRGR 228 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ng-WIVL~IP~a~ 228 (404)
+.+++.|..|||||+++.+++.-++.+| =.|||=|.+.
T Consensus 16 ~~~li~G~~GsGKT~~i~~ll~~~~~~g~~~iI~D~kg~ 54 (386)
T PF10412_consen 16 RHILIIGATGSGKTQAIRHLLDQIRARGDRAIIYDPKGE 54 (386)
T ss_dssp G-EEEEE-TTSSHHHHHHHHHHHHHHTT-EEEEEEETTH
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHcCCEEEEEECCch
Confidence 4599999999999999999998887664 5666666653
No 450
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=86.35 E-value=1.7 Score=40.73 Aligned_cols=32 Identities=16% Similarity=0.153 Sum_probs=24.2
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
+.|.|.+|||||++..++.... .+..+|+.-+
T Consensus 2 i~i~G~sgsGKTtla~~l~~~~--~~~~~i~~Dd 33 (187)
T cd02024 2 VGISGVTNSGKTTLAKLLQRIL--PNCCVIHQDD 33 (187)
T ss_pred EEEECCCCCCHHHHHHHHHHHc--CCCeEEcccc
Confidence 5789999999999998887763 3566665543
No 451
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=86.34 E-value=0.64 Score=43.00 Aligned_cols=31 Identities=26% Similarity=0.328 Sum_probs=22.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 60 (214)
T cd03292 29 FVFLVGPSGAGKSTLLKLIYKEELPTSGTIRV 60 (214)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence 489999999999998877665433 3455443
No 452
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=86.33 E-value=0.59 Score=43.42 Aligned_cols=31 Identities=26% Similarity=0.307 Sum_probs=23.3
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-.- -..|.|.+
T Consensus 32 ~~~l~G~nGsGKSTLl~~i~Gl~~~~~G~i~~ 63 (218)
T cd03255 32 FVAIVGPSGSGKSTLLNILGGLDRPTSGEVRV 63 (218)
T ss_pred EEEEEcCCCCCHHHHHHHHhCCcCCCceeEEE
Confidence 48999999999999887665443 24677655
No 453
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein. This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.
Probab=86.32 E-value=0.64 Score=43.32 Aligned_cols=31 Identities=23% Similarity=0.291 Sum_probs=23.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.-. ..|-|.+
T Consensus 33 ~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~ 64 (221)
T TIGR02211 33 IVAIVGSSGSGKSTLLHLLGGLDNPTSGEVLF 64 (221)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence 489999999999999987765422 4576654
No 454
>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.
Probab=86.31 E-value=0.58 Score=43.41 Aligned_cols=31 Identities=23% Similarity=0.355 Sum_probs=22.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-.-. ..|-|.+
T Consensus 27 ~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i~~ 58 (213)
T cd03235 27 FLAIVGPNGAGKSTLLKAILGLLKPTSGSIRV 58 (213)
T ss_pred EEEEECCCCCCHHHHHHHHcCCCCCCCCEEEE
Confidence 489999999999999987654422 3455543
No 455
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily. RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu
Probab=86.31 E-value=0.64 Score=40.67 Aligned_cols=20 Identities=25% Similarity=0.307 Sum_probs=17.5
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~ 212 (404)
+++.|++|||||+++...+.
T Consensus 2 i~vvG~~~~GKtsli~~~~~ 21 (165)
T cd04146 2 IAVLGASGVGKSALVVRFLT 21 (165)
T ss_pred EEEECCCCCcHHHHHHHHHh
Confidence 79999999999999977653
No 456
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=86.31 E-value=0.59 Score=50.78 Aligned_cols=42 Identities=29% Similarity=0.455 Sum_probs=26.1
Q ss_pred hhHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHH
Q 045329 164 QSFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLA 208 (404)
Q Consensus 164 k~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~ 208 (404)
++-.||+++|+ |+...+.=+-+.-++++|+|++|+|||++..
T Consensus 314 ~ELeEiVefLk---dP~kftrLGGKLPKGVLLvGPPGTGKTlLAR 355 (752)
T KOG0734|consen 314 QELEEIVEFLK---DPTKFTRLGGKLPKGVLLVGPPGTGKTLLAR 355 (752)
T ss_pred HHHHHHHHHhc---CcHHhhhccCcCCCceEEeCCCCCchhHHHH
Confidence 45667788876 3320000022333679999999999987643
No 457
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=86.30 E-value=0.93 Score=44.05 Aligned_cols=35 Identities=23% Similarity=0.334 Sum_probs=26.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecCcccc
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPRGREW 230 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~a~~w 230 (404)
|+|.|+.|||||-+ ++..|.+.||=||..-+.+.+
T Consensus 4 ~~i~GpT~tGKt~~---ai~lA~~~g~pvI~~Driq~y 38 (233)
T PF01745_consen 4 YLIVGPTGTGKTAL---AIALAQKTGAPVISLDRIQCY 38 (233)
T ss_dssp EEEE-STTSSHHHH---HHHHHHHH--EEEEE-SGGG-
T ss_pred EEEECCCCCChhHH---HHHHHHHhCCCEEEecceecc
Confidence 89999999999964 788999999999999876655
No 458
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=86.28 E-value=0.65 Score=42.69 Aligned_cols=31 Identities=23% Similarity=0.291 Sum_probs=22.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-... ..|=|.+
T Consensus 26 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 57 (206)
T TIGR03608 26 MYAIIGESGSGKSTLLNIIGLLEKFDSGQVYL 57 (206)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCeEEEE
Confidence 489999999999998876654322 3455433
No 459
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=86.27 E-value=0.66 Score=41.82 Aligned_cols=31 Identities=23% Similarity=0.349 Sum_probs=23.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-... ..|-|.+
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 60 (166)
T cd03223 29 RLLITGPSGTGKSSLFRALAGLWPWGSGRIGM 60 (166)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence 589999999999999987765432 4566543
No 460
>PRK14240 phosphate transporter ATP-binding protein; Provisional
Probab=86.26 E-value=0.67 Score=44.16 Aligned_cols=32 Identities=38% Similarity=0.424 Sum_probs=24.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH------hCCeEEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR------EEGWLVLY 223 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~------~ngWIVL~ 223 (404)
.+.|.|+.|||||++|.-+.-... ..|.|.+.
T Consensus 31 ~~~i~G~nGsGKSTLl~~i~G~~~~~~~~~~~G~i~~~ 68 (250)
T PRK14240 31 VTALIGPSGCGKSTFLRTLNRMNDLIPSVKIEGEVLLD 68 (250)
T ss_pred EEEEECCCCCCHHHHHHHHhccccccCCCCCceEEEEC
Confidence 489999999999999987765432 46877664
No 461
>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re
Probab=86.25 E-value=0.67 Score=41.51 Aligned_cols=21 Identities=19% Similarity=0.460 Sum_probs=19.0
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
++++.|..|||||+++.+.+.
T Consensus 2 ki~ivG~~~vGKTsli~~~~~ 22 (170)
T cd04108 2 KVIVVGDLSVGKTCLINRFCK 22 (170)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 489999999999999998875
No 462
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=86.24 E-value=1 Score=48.59 Aligned_cols=22 Identities=18% Similarity=0.292 Sum_probs=17.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
..|+|+|++|||||++..-+..
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk 65 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAK 65 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 3599999999999997655544
No 463
>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. 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=86.23 E-value=0.6 Score=44.00 Aligned_cols=31 Identities=29% Similarity=0.353 Sum_probs=23.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.- -..|-|.+
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 60 (241)
T cd03256 29 FVALIGPSGAGKSTLLRCLNGLVEPTSGSVLI 60 (241)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcCCCCceEEE
Confidence 48999999999999988776543 34677655
No 464
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=86.22 E-value=1.1 Score=42.03 Aligned_cols=23 Identities=26% Similarity=0.420 Sum_probs=20.2
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA 214 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A 214 (404)
.+.|.|+.|||||+++..+...-
T Consensus 3 ~i~i~G~~GsGKTTll~~l~~~l 25 (199)
T TIGR00101 3 KIGVAGPVGSGKTALIEALTRAL 25 (199)
T ss_pred EEEEECCCCCCHHHHHHHHHHhh
Confidence 48899999999999999988753
No 465
>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK. Members of this family are the PhnK 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 complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.
Probab=86.18 E-value=0.63 Score=44.41 Aligned_cols=32 Identities=25% Similarity=0.216 Sum_probs=25.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHH-HHhCCeEEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW-AREEGWLVLY 223 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~-A~~ngWIVL~ 223 (404)
.+.|.|+.||||||+|.-+.-. .-..|.|.+.
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~ 63 (253)
T TIGR02323 31 VLGIVGESGSGKSTLLGCLAGRLAPDHGTATYI 63 (253)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCcEEEEe
Confidence 5899999999999999876664 3456888775
No 466
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=86.17 E-value=0.66 Score=42.82 Aligned_cols=31 Identities=23% Similarity=0.371 Sum_probs=23.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.. -..|.|.+
T Consensus 29 ~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~ 60 (200)
T PRK13540 29 LLHLKGSNGAGKTTLLKLIAGLLNPEKGEILF 60 (200)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCeeEEE
Confidence 58999999999999998765543 24576554
No 467
>PHA02244 ATPase-like protein
Probab=86.17 E-value=1.7 Score=45.33 Aligned_cols=30 Identities=17% Similarity=0.205 Sum_probs=21.5
Q ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCeEEEE
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAREEGWLVLY 223 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~ 223 (404)
++|.|++|||||++..++ +++....|+.++
T Consensus 122 VLL~GppGtGKTtLA~aL-A~~lg~pfv~In 151 (383)
T PHA02244 122 VFLKGGAGSGKNHIAEQI-AEALDLDFYFMN 151 (383)
T ss_pred EEEECCCCCCHHHHHHHH-HHHhCCCEEEEe
Confidence 899999999999987665 444444555443
No 468
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=86.12 E-value=0.57 Score=46.79 Aligned_cols=31 Identities=32% Similarity=0.485 Sum_probs=22.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
-++|-|+.||||||+|-.+--.-. ..|-|.+
T Consensus 29 f~vliGpSGsGKTTtLkMINrLiept~G~I~i 60 (309)
T COG1125 29 FLVLIGPSGSGKTTTLKMINRLIEPTSGEILI 60 (309)
T ss_pred EEEEECCCCCcHHHHHHHHhcccCCCCceEEE
Confidence 379999999999999988754322 3444444
No 469
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=86.11 E-value=0.67 Score=43.11 Aligned_cols=31 Identities=29% Similarity=0.451 Sum_probs=23.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.- -..|.|.+
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 61 (207)
T PRK13539 30 ALVLTGPNGSGKTTLLRLIAGLLPPAAGTIKL 61 (207)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 48999999999999988776643 24677655
No 470
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=86.11 E-value=0.63 Score=43.66 Aligned_cols=31 Identities=35% Similarity=0.370 Sum_probs=24.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-... ..|-|.+
T Consensus 38 ~~~i~G~nGsGKSTLl~~i~Gl~~p~~G~i~~ 69 (228)
T PRK10584 38 TIALIGESGSGKSTLLAILAGLDDGSSGEVSL 69 (228)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCCCeeEEE
Confidence 489999999999999987766533 4576654
No 471
>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=86.10 E-value=0.7 Score=51.52 Aligned_cols=35 Identities=20% Similarity=0.331 Sum_probs=23.7
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhCCeEEEEecC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREEGWLVLYVPR 226 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL~IP~ 226 (404)
+.++|+|++|||||++...+ +.....+++.+.-|+
T Consensus 488 ~giLL~GppGtGKT~lakal-A~e~~~~fi~v~~~~ 522 (733)
T TIGR01243 488 KGVLLFGPPGTGKTLLAKAV-ATESGANFIAVRGPE 522 (733)
T ss_pred ceEEEECCCCCCHHHHHHHH-HHhcCCCEEEEehHH
Confidence 45999999999998766544 444445566555443
No 472
>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=86.08 E-value=0.67 Score=42.86 Aligned_cols=31 Identities=26% Similarity=0.358 Sum_probs=23.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngWIVL 222 (404)
.+.|.|+.|+||||+|.-+.-.- -..|.|.+
T Consensus 29 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 60 (211)
T cd03225 29 FVLIVGPNGSGKSTLLRLLNGLLGPTSGEVLV 60 (211)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence 48999999999999987665432 24677765
No 473
>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=86.08 E-value=1.2 Score=46.11 Aligned_cols=50 Identities=18% Similarity=0.244 Sum_probs=35.2
Q ss_pred EchhHHHHHHHHHHhcCCCccCCCCCccceeEEEECCCCCcHHHHHHHHHHHHHhC
Q 045329 162 VRQSFLDIRDNFRRIVDPSLQSTNGPKIRKQIVLDGPLCCGKSITLAMLVHWAREE 217 (404)
Q Consensus 162 VRk~tleLi~~L~~~~d~~~~std~~~~r~r~vL~G~rGsGKS~~L~qav~~A~~n 217 (404)
+.++-.+|+++|+.++.. ....++=++|.||.|+|||++...+-..-.+-
T Consensus 66 ~~~~i~~lV~~fk~AA~g------~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y 115 (358)
T PF08298_consen 66 MEETIERLVNYFKSAAQG------LEERKRILLLLGPVGGGKSSLAELLKRGLEEY 115 (358)
T ss_pred cHHHHHHHHHHHHHHHhc------cCccceEEEEECCCCCCHHHHHHHHHHHhheE
Confidence 556677899999876432 11222347899999999999998877655443
No 474
>cd03250 ABCC_MRP_domain1 Domain 1 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-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=86.08 E-value=0.67 Score=42.78 Aligned_cols=30 Identities=27% Similarity=0.357 Sum_probs=24.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCeEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGWLV 221 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngWIV 221 (404)
.+.|.|+.|+|||++|.-+.-.. -.+|.|.
T Consensus 33 ~~~i~G~nG~GKSTLl~~i~G~~~~~~G~i~ 63 (204)
T cd03250 33 LVAIVGPVGSGKSSLLSALLGELEKLSGSVS 63 (204)
T ss_pred EEEEECCCCCCHHHHHHHHhCcCCCCCCeEE
Confidence 59999999999999998776643 3568873
No 475
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=86.08 E-value=0.69 Score=41.31 Aligned_cols=21 Identities=24% Similarity=0.210 Sum_probs=18.7
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|-|..|||||+++.+.+.
T Consensus 6 kv~~vG~~~vGKTsli~~~~~ 26 (169)
T cd01892 6 LCFVLGAKGSGKSALLRAFLG 26 (169)
T ss_pred EEEEECCCCCcHHHHHHHHhC
Confidence 589999999999999988763
No 476
>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=86.07 E-value=0.92 Score=40.71 Aligned_cols=24 Identities=25% Similarity=0.260 Sum_probs=19.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
..+|+|+.|+|||++|.++...+.
T Consensus 23 ~~~i~G~NgsGKS~~l~~i~~~~~ 46 (162)
T cd03227 23 LTIITGPNGSGKSTILDAIGLALG 46 (162)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 589999999999999998554443
No 477
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=86.06 E-value=0.96 Score=49.20 Aligned_cols=27 Identities=33% Similarity=0.415 Sum_probs=22.9
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE 217 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n 217 (404)
..++|.|+.|+|||++++.+..++...
T Consensus 351 ~vIaLVGPtGvGKTTtaakLAa~la~~ 377 (559)
T PRK12727 351 GVIALVGPTGAGKTTTIAKLAQRFAAQ 377 (559)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 358899999999999999998876554
No 478
>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.
Probab=86.06 E-value=0.62 Score=41.64 Aligned_cols=22 Identities=18% Similarity=0.264 Sum_probs=19.3
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
.++++.|.+|+|||+++.++..
T Consensus 16 ~kv~~~G~~~~GKTsl~~~l~~ 37 (174)
T cd04153 16 YKVIIVGLDNAGKTTILYQFLL 37 (174)
T ss_pred cEEEEECCCCCCHHHHHHHHcc
Confidence 4699999999999999988863
No 479
>PLN03108 Rab family protein; Provisional
Probab=86.03 E-value=0.68 Score=43.15 Aligned_cols=22 Identities=23% Similarity=0.244 Sum_probs=19.2
Q ss_pred eeEEEECCCCCcHHHHHHHHHH
Q 045329 191 KQIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~ 212 (404)
-+++|.|+.|||||+++.++..
T Consensus 7 ~kivivG~~gvGKStLi~~l~~ 28 (210)
T PLN03108 7 FKYIIIGDTGVGKSCLLLQFTD 28 (210)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 3599999999999999988764
No 480
>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar 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=86.02 E-value=0.66 Score=43.44 Aligned_cols=31 Identities=19% Similarity=0.546 Sum_probs=23.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-... ..|-|.+
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 62 (229)
T cd03254 31 TVAIVGPTGAGKTTLINLLMRFYDPQKGQILI 62 (229)
T ss_pred EEEEECCCCCCHHHHHHHHhcCcCCCCCEEEE
Confidence 489999999999999988865543 3465543
No 481
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=86.00 E-value=0.87 Score=47.90 Aligned_cols=27 Identities=15% Similarity=0.249 Sum_probs=20.6
Q ss_pred eeEEEECCCCCcHHHHHHHHHHHHHhC
Q 045329 191 KQIVLDGPLCCGKSITLAMLVHWAREE 217 (404)
Q Consensus 191 ~r~vL~G~rGsGKS~~L~qav~~A~~n 217 (404)
.+++|.|++|||||+++..+...-..+
T Consensus 169 q~~~IvG~~g~GKTtL~~~i~~~I~~n 195 (415)
T TIGR00767 169 QRGLIVAPPKAGKTVLLQKIAQAITRN 195 (415)
T ss_pred CEEEEECCCCCChhHHHHHHHHhhccc
Confidence 358999999999999877766544433
No 482
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=85.97 E-value=0.67 Score=43.74 Aligned_cols=31 Identities=23% Similarity=0.293 Sum_probs=23.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 37 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 68 (233)
T PRK11629 37 MMAIVGSSGSGKSTLLHLLGGLDTPTSGDVIF 68 (233)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence 489999999999999877765432 4576654
No 483
>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. 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=85.96 E-value=0.68 Score=43.08 Aligned_cols=31 Identities=26% Similarity=0.297 Sum_probs=23.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-... ..|=|.+
T Consensus 25 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 56 (214)
T cd03297 25 VTGIFGASGAGKSTLLRCIAGLEKPDGGTIVL 56 (214)
T ss_pred eEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 489999999999999887664432 4565544
No 484
>cd04111 Rab39 Rab39 subfamily. Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=85.96 E-value=0.68 Score=43.30 Aligned_cols=21 Identities=24% Similarity=0.349 Sum_probs=19.2
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
+++|.|+.|+|||+++.+++.
T Consensus 4 KIvvvG~~~vGKTsLi~~l~~ 24 (211)
T cd04111 4 RLIVIGDSTVGKSSLLKRFTE 24 (211)
T ss_pred EEEEECCCCCCHHHHHHHHHc
Confidence 599999999999999999874
No 485
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra
Probab=85.95 E-value=0.72 Score=41.67 Aligned_cols=31 Identities=26% Similarity=0.413 Sum_probs=22.6
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-... ..|.|.+
T Consensus 30 ~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~ 61 (173)
T cd03246 30 SLAIIGPSGSGKSTLARLILGLLRPTSGRVRL 61 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHhccCCCCCeEEE
Confidence 489999999999999987765432 3455443
No 486
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=85.95 E-value=0.83 Score=50.54 Aligned_cols=36 Identities=19% Similarity=0.252 Sum_probs=24.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCC-eEEEEecCc
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEG-WLVLYVPRG 227 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ng-WIVL~IP~a 227 (404)
.++|+|++|||||++...+........ .-++++|++
T Consensus 52 ~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~np 88 (637)
T PRK13765 52 HVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPNP 88 (637)
T ss_pred eEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeCC
Confidence 599999999999998877655422221 334455553
No 487
>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.
Probab=85.94 E-value=0.68 Score=43.03 Aligned_cols=31 Identities=32% Similarity=0.416 Sum_probs=22.4
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-.- -..|=|.+
T Consensus 33 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 64 (218)
T cd03266 33 VTGLLGPNGAGKTTTLRMLAGLLEPDAGFATV 64 (218)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcCCCCceEEE
Confidence 48999999999999997665432 24565544
No 488
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=85.92 E-value=0.69 Score=42.81 Aligned_cols=31 Identities=35% Similarity=0.602 Sum_probs=22.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.. ...|-|.+
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G~v~~ 59 (213)
T cd03301 28 FVVLLGPSGCGKTTTLRMIAGLEEPTSGRIYI 59 (213)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence 48999999999999997766543 24465544
No 489
>cd04158 ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra
Probab=85.90 E-value=0.64 Score=41.27 Aligned_cols=21 Identities=29% Similarity=0.246 Sum_probs=18.5
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
|++|.|..|||||+++..++.
T Consensus 1 ~vvlvG~~~~GKTsl~~~l~~ 21 (169)
T cd04158 1 RVVTLGLDGAGKTTILFKLKQ 21 (169)
T ss_pred CEEEECCCCCCHHHHHHHHhc
Confidence 489999999999999988764
No 490
>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. 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=85.88 E-value=0.69 Score=42.84 Aligned_cols=31 Identities=23% Similarity=0.458 Sum_probs=24.1
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.-. ..|.|.+
T Consensus 26 ~~~l~G~nGsGKSTLl~~l~gl~~~~~G~i~~ 57 (211)
T cd03298 26 ITAIVGPSGSGKSTLLNLIAGFETPQSGRVLI 57 (211)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 589999999999999977765432 4677765
No 491
>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.
Probab=85.88 E-value=0.66 Score=43.55 Aligned_cols=31 Identities=23% Similarity=0.214 Sum_probs=22.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.|||||++|.-+.-.-. ..|=|.+
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 59 (230)
T TIGR03410 28 VTCVLGRNGVGKTTLLKTLMGLLPVKSGSIRL 59 (230)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCCEEEE
Confidence 489999999999999876654432 4566554
No 492
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. 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=85.87 E-value=0.69 Score=43.54 Aligned_cols=31 Identities=19% Similarity=0.220 Sum_probs=22.8
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-.-. ..|-|.+
T Consensus 33 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 64 (233)
T cd03258 33 IFGIIGRSGAGKSTLIRCINGLERPTSGSVLV 64 (233)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 489999999999998876654432 3566554
No 493
>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2. The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.
Probab=85.85 E-value=0.81 Score=45.12 Aligned_cols=31 Identities=26% Similarity=0.325 Sum_probs=25.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHHhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAREEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~~ngWIVL 222 (404)
.+.|.|+.|+|||++|.-+.-.....|.|.+
T Consensus 32 ~~~IvG~nGsGKSTLl~~L~gl~~~~G~I~i 62 (275)
T cd03289 32 RVGLLGRTGSGKSTLLSAFLRLLNTEGDIQI 62 (275)
T ss_pred EEEEECCCCCCHHHHHHHHhhhcCCCcEEEE
Confidence 4899999999999999887766556788765
No 494
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=85.81 E-value=1.1 Score=48.18 Aligned_cols=28 Identities=32% Similarity=0.343 Sum_probs=23.5
Q ss_pred eEEEECCCCCcHHHHHHHHHHHH-HhCCe
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWA-REEGW 219 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A-~~ngW 219 (404)
-+.|.|+.|+||||+++.+..+. ...|.
T Consensus 258 Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~ 286 (484)
T PRK06995 258 VFALMGPTGVGKTTTTAKLAARCVMRHGA 286 (484)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHHhcCC
Confidence 38899999999999999999866 45554
No 495
>PRK14241 phosphate transporter ATP-binding protein; Provisional
Probab=85.79 E-value=0.69 Score=44.43 Aligned_cols=31 Identities=35% Similarity=0.481 Sum_probs=25.0
Q ss_pred eEEEECCCCCcHHHHHHHHHHHHH------hCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHWAR------EEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~A~------~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-.-. .+|-|.+
T Consensus 32 ~~~i~G~nGsGKSTLl~~laGl~~~~~~~~~~G~I~~ 68 (258)
T PRK14241 32 VTAFIGPSGCGKSTVLRTLNRMHEVIPGARVEGEVLL 68 (258)
T ss_pred EEEEECCCCCCHHHHHHHHhccCCcccCCCcceEEEE
Confidence 489999999999999988776543 4787776
No 496
>TIGR01978 sufC FeS assembly ATPase SufC. SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.
Probab=85.78 E-value=0.68 Score=43.71 Aligned_cols=31 Identities=19% Similarity=0.223 Sum_probs=23.9
Q ss_pred eEEEECCCCCcHHHHHHHHHHH---HHhCCeEEE
Q 045329 192 QIVLDGPLCCGKSITLAMLVHW---AREEGWLVL 222 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~~---A~~ngWIVL 222 (404)
.+.|.|+.||||||+|.-+.-. --..|-|.+
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~G~i~~ 61 (243)
T TIGR01978 28 IHAIMGPNGSGKSTLSKTIAGHPSYEVTSGTILF 61 (243)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCCcceEEE
Confidence 4899999999999998777654 234677655
No 497
>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=85.77 E-value=0.72 Score=41.77 Aligned_cols=21 Identities=38% Similarity=0.423 Sum_probs=17.9
Q ss_pred eEEEECCCCCcHHHHHHHHHH
Q 045329 192 QIVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 192 r~vL~G~rGsGKS~~L~qav~ 212 (404)
.+.|.|+.|||||++|.-+.-
T Consensus 30 ~~~i~G~nGsGKStLl~~l~G 50 (178)
T cd03247 30 KIALLGRSGSGKSTLLQLLTG 50 (178)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 489999999999998877653
No 498
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=85.76 E-value=0.67 Score=40.37 Aligned_cols=20 Identities=30% Similarity=0.320 Sum_probs=18.3
Q ss_pred EEEECCCCCcHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVH 212 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~ 212 (404)
++|.|..|+|||+++..+..
T Consensus 3 v~ivG~~~~GKStl~~~l~~ 22 (170)
T cd01898 3 VGLVGLPNAGKSTLLSAISN 22 (170)
T ss_pred eEEECCCCCCHHHHHHHHhc
Confidence 78999999999999999864
No 499
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=85.76 E-value=0.66 Score=40.88 Aligned_cols=23 Identities=17% Similarity=0.177 Sum_probs=20.1
Q ss_pred EEEECCCCCcHHHHHHHHHHHHH
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAR 215 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~ 215 (404)
+++.|..|+|||+++.++.....
T Consensus 2 v~v~G~~~~GKStlln~l~~~~~ 24 (189)
T cd00881 2 VGIAGHVDHGKTTLTERLLYVTG 24 (189)
T ss_pred EEEEeCCCCCHHHHHHHHHHhcC
Confidence 78999999999999999876643
No 500
>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=85.75 E-value=0.59 Score=48.13 Aligned_cols=30 Identities=33% Similarity=0.664 Sum_probs=22.4
Q ss_pred EEEECCCCCcHHHHHHHHHHHHH-hCCeEEE
Q 045329 193 IVLDGPLCCGKSITLAMLVHWAR-EEGWLVL 222 (404)
Q Consensus 193 ~vL~G~rGsGKS~~L~qav~~A~-~ngWIVL 222 (404)
+.|-||.||||||+|..+.-+-. ..|-|.|
T Consensus 34 ~~lLGPSGcGKTTlLR~IAGfe~p~~G~I~l 64 (352)
T COG3842 34 VTLLGPSGCGKTTLLRMIAGFEQPSSGEILL 64 (352)
T ss_pred EEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 67999999999999988776533 3454444
Done!